##fileformat=VCFv4.2 ##FILTER= ##fileDate=20260419 ##source=freeBayes v1.3.10 ##reference=/home/jforment/biovice/species/Cucumis_melo/v4.0/Melon_v4.0_PacBio.fasta ##contig= ##contig= ##contig= ##contig= ##contig= ##contig= ##contig= ##contig= ##contig= ##contig= ##contig= ##contig= ##contig= ##phasing=none ##commandline="freebayes --bam-list bamfiles.BC2.txt --fasta-reference /home/jforment/biovice/species/Cucumis_melo/v4.0/Melon_v4.0_PacBio.fasta --min-alternate-count 3 --min-mapping-quality 10 --min-base-quality 20 --min-coverage 3" ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##bcftools_viewVersion=1.23.1+htslib-1.23 ##bcftools_viewCommand=view -S samples_order.BC2.v4.txt -Ov -o freebayes.BC2.v4.reordered.vcf freebayes.BC2.v4.vcf; Date=Mon Apr 20 12:10:11 2026 ##SnpSiftVersion="SnpSift 5.4c (build 2026-02-23 07:25), by Pablo Cingolani" ##SnpSiftCmd="SnpSift Filter --file freebayes.BC2.v4.filter2.vcf.gz --exprfile /home/jforment/biovice/internal_projects/260313_cromero_mapping/00-rawdata/replicates_filter.expression.BC2.v4.txt" ##FILTER= ##bcftools_filterVersion=1.23.1+htslib-1.23 ##bcftools_filterCommand=filter --threads 50 --include 'F_PASS(GT[@/home/jforment/biovice/internal_projects/260313_cromero_mapping/00-rawdata/offspring_BC2.v4.txt]!='./.' & GT[@/home/jforment/biovice/internal_projects/260313_cromero_mapping/00-rawdata/offspring_BC2.v4.txt]!='.' & FORMAT/DP>=4) >= 0.80' freebayes.BC2.v4.filter3.vcf; Date=Wed Apr 29 19:24:31 2026 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT BC2-59_2019_A BC2-59_2019_B BC2-60_2019 BC2-61_2019 BC2-62_2019 BC2-63_2019 BC2-64_2019 BC2-72_2019 BC2-77_2019_A BC2-77_2019_B BC2-78_2019 BC2-79_2019 BC2-80_2019 BC2-81_2019 BC2-82_2019_A BC2-82_2019_B BC2-83_2019 PAR_H_PxD_2021_A PAR_H_PxD_2021_B PAR_P1_P_2019_A PAR_P1_P_2021_B chr01 18390 . A G 26112.2 PASS AB=0.487027;ABP=4.98217;AC=28;AF=0.666667;AN=42;AO=1355;CIGAR=1X;DP=2135;DPB=2135;DPRA=1.31859;EPP=2945.36;EPPR=1679.4;GTI=0;LEN=1;MEANALT=1.15;MQM=44.8266;MQMR=58.4317;NS=21;NUMALT=1;ODDS=11.9432;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48347;QR=27759;RO=776;RPL=0;RPP=2945.36;RPPR=1679.4;RPR=1355;RUN=1;SAF=1355;SAP=2945.36;SAR=0;SRF=776;SRP=1688.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:2,118:2:72:118:4182:-361.701,-29.6442,0 1/1:79:0,79:0:0:79:2827:-249.205,-23.7814,0 1/1:92:1,91:1:36:91:3259:-285.424,-24.0965,0 1/1:106:0,106:0:0:106:3775:-334.671,-31.9092,0 0/1:307:161,146:161:5775:146:5240:-372.456,0,-426.77 1/1:84:2,82:2:72:82:2940:-255.074,-18.4498,0 0/1:196:102,94:102:3641:94:3356:-239.165,0,-268.84 0/0:78:78,0:78:2796:0:0:0,-23.4803,-251.757 0/1:202:102,99:102:3649:99:3487:-247.977,0,-266.982 0/1:8:3,5:3:108:5:180:-13.9149,0,-7.66693 0/1:6:2,4:2:72:4:144:-11.3607,0,-5.03054 0/1:20:12,8:12:417:8:280:-19.2088,0,-31.8396 0/1:104:51,53:51:1813:53:1868:-134.899,0,-132.08 0/1:108:65,43:65:2323:43:1531:-103.647,0,-176.765 0/1:212:109,103:109:3901:103:3688:-263.032,0,-287.301 0/1:80:43,37:43:1544:37:1324:-92.9493,0,-114.97 1/1:98:1,95:1:36:95:3399:-296.614,-25.6593,0 0/1:68:29,39:29:1040:39:1400:-104.136,0,-73.3544 0/1:38:12,26:12:428:26:932:-71.6333,0,-27.3703 1/1:86:1,85:1:36:85:3031:-263.814,-22.2903,0 1/1:42:0,42:0:0:42:1504:-133.823,-12.6433,0 chr01 162777 . T C 21864.6 PASS AB=0.494297;ABP=3.23323;AC=29;AF=0.690476;AN=42;AO=822;CIGAR=1X;DP=1298;DPB=1298;DPRA=0.827027;EPP=1441.79;EPPR=612.051;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9623;MQMR=59.9832;NS=21;NUMALT=1;ODDS=3.15219;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29250;QR=16920;RO=475;RPL=385;RPP=10.1534;RPPR=34.5035;RPR=437;RUN=1;SAF=427;SAP=5.71539;SAR=395;SRF=251;SRP=6.34294;SRR=224;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:1,79:1:36:79:2825:-250.891,-20.4841,0 1/1:43:0,43:0:0:43:1548:-139.613,-12.9443,0 1/1:30:0,30:0:0:30:1059:-95.6204,-9.0309,0 1/1:54:1,53:1:32:53:1878:-166.098,-13.0563,0 0/1:76:43,33:43:1521:33:1180:-83.6298,0,-114.303 1/1:37:0,37:0:0:37:1311:-118.291,-11.1381,0 0/1:70:28,42:28:1004:42:1493:-113.59,0,-69.5956 0/0:74:74,0:74:2640:0:0:0,-22.2762,-237.847 0/1:102:68,34:68:2444:34:1220:-79.4017,0,-189.51 0/1:12:8,4:8:288:4:129:-8.3153,0,-22.655 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:19:12,7:12:432:7:252:-17.3094,0,-33.5016 0/1:86:50,36:50:1792:36:1284:-89.9748,0,-135.674 0/1:57:25,32:25:892:32:1122:-84.1259,0,-63.441 0/1:77:47,30:47:1669:30:1076:-73.9735,0,-127.316 0/1:38:19,19:19:672:19:671:-49.2767,0,-49.3677 1/1:37:0,37:0:0:37:1295:-116.762,-11.1381,0 0/1:127:70,57:70:2483:57:2037:-145.37,0,-185.493 0/1:125:29,96:29:1015:96:3390:-267.686,0,-54.0321 1/1:58:0,58:0:0:58:2072:-186.751,-17.4597,0 1/1:87:0,86:0:0:86:3084:-277.428,-25.8886,0 chr01 164078 . T G 20032.9 PASS AB=0.553927;ABP=46.1037;AC=14;AF=0.333333;AN=42;AO=1102;CIGAR=1X;DP=2569;DPB=2569;DPRA=1.65932;EPP=2395.97;EPPR=3188.56;GTI=2;LEN=1;MEANALT=1;MQM=59.9283;MQMR=59.9121;NS=21;NUMALT=1;ODDS=8.61897;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39440;QR=52614;RO=1467;RPL=0;RPP=2395.97;RPPR=3188.56;RPR=1102;RUN=1;SAF=1102;SAP=2395.97;SAR=0;SRF=1467;SRP=3188.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:77,1:77:2756:1:36:0,-19.8821,-244.67 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.122 0/0:132:130,2:130:4653:2:68:0,-33.2782,-412.462 0/0:104:104,0:104:3736:0:0:0,-31.3071,-336.439 0/1:373:157,216:157:5624:216:7701:-580.767,0,-393.368 0/0:87:87,0:87:3124:0:0:0,-26.1896,-281.385 0/1:210:87,123:87:3105:123:4409:-333.763,0,-216.403 1/1:154:0,154:0:0:154:5525:-497.372,-46.3586,0 0/1:242:128,114:128:4596:114:4100:-296.334,0,-340.683 0/1:21:4,17:4:144:17:604:-48.3671,0,-6.99199 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:43:14,29:14:504:29:1044:-81.2006,0,-32.7538 0/1:103:36,67:36:1292:67:2388:-184.172,0,-85.5777 0/1:135:58,77:58:2084:77:2737:-205.933,0,-147.191 0/1:224:99,125:99:3560:125:4491:-336.927,0,-253.176 0/1:80:44,36:44:1568:36:1284:-91.7249,0,-117.329 0/0:88:88,0:88:3164:0:0:0,-26.4906,-284.983 0/1:193:90,103:90:3236:103:3704:-275.449,0,-233.357 0/1:71:42,29:42:1504:29:1025:-71.1876,0,-114.279 0/0:100:100,0:100:3580:0:0:0,-30.103,-322.407 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 chr01 164114 . T C 26396.7 PASS AB=0.437537;ABP=59.7061;AC=28;AF=0.666667;AN=42;AO=1406;CIGAR=1X;DP=2507;DPB=2507;DPRA=0.763961;EPP=3056.1;EPPR=2389.46;GTI=2;LEN=1;MEANALT=1.1;MQM=59.9026;MQMR=59.9108;NS=21;NUMALT=1;ODDS=10.5325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49527;QR=39305;RO=1099;RPL=1406;RPP=3056.1;RPPR=2389.46;RPR=0;RUN=1;SAF=1406;SAP=3056.1;SAR=0;SRF=1099;SRP=2389.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:1,73:1:36:73:2585:-229.298,-18.6779,0 1/1:74:1,73:1:36:73:2582:-229.028,-18.6779,0 1/1:124:2,122:2:72:122:4321:-382.22,-30.491,0 1/1:103:0,103:0:0:103:3638:-327.625,-31.0061,0 0/1:365:219,146:219:7843:146:5150:-353.659,0,-595.984 1/1:80:1,79:1:36:79:2799:-248.552,-20.4841,0 0/1:205:121,84:121:4335:84:2923:-201.537,0,-328.613 0/0:154:154,0:154:5503:0:0:0,-46.3586,-494.035 0/1:244:115,128:115:4110:128:4430:-325.314,0,-296.574 0/1:21:17,4:17:608:4:144:-6.99199,0,-48.7285 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/1:41:27,14:27:953:14:489:-31.9967,0,-73.7411 0/1:101:66,35:66:2359:35:1248:-82.2208,0,-182.164 0/1:132:80,52:80:2872:52:1822:-124.522,0,-218.981 0/1:220:124,96:124:4456:96:3436:-243.227,0,-334.982 0/1:78:33,45:33:1166:45:1599:-120.719,0,-81.7091 1/1:86:0,86:0:0:86:3049:-274.641,-25.8886,0 0/1:187:102,85:102:3632:85:2948:-209.26,0,-270.784 0/1:68:27,41:27:964:41:1433:-108.791,0,-66.6068 1/1:94:0,93:0:0:93:3280:-295.061,-27.9958,0 1/1:45:0,45:0:0:45:1579:-142.4,-13.5464,0 chr01 219382 . C A 15877.7 PASS AB=0.503106;ABP=3.14517;AC=14;AF=0.333333;AN=42;AO=908;CIGAR=1X;DP=2443;DPB=2443;DPRA=1.50521;EPP=1974.71;EPPR=3316.7;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.6839;MQMR=59.6441;NS=21;NUMALT=1;ODDS=16.7394;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32513;QR=54815;RO=1534;RPL=908;RPP=1974.71;RPPR=3316.7;RPR=0;RUN=1;SAF=0;SAP=1974.71;SAR=908;SRF=0;SRP=3334.05;SRR=1534;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:87:87,0:87:3115:0:0:0,-26.1896,-280.485 0/0:93:92,1:92:3279:1:36:0,-24.4066,-291.415 0/0:120:119,1:119:4264:1:36:0,-32.5279,-380.307 0/0:63:63,0:63:2264:0:0:0,-18.9649,-203.647 0/1:286:153,133:153:5450:133:4755:-342,0,-404.489 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.379 0/1:157:74,83:74:2644:83:2976:-220.755,0,-190.934 1/1:94:0,94:0:0:94:3345:-301.211,-28.2968,0 0/1:187:105,82:105:3741:82:2936:-208.167,0,-280.595 0/1:32:17,15:17:608:15:532:-38.5801,0,-45.4191 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 0/1:26:13,13:13:468:13:468:-34.6329,0,-34.6282 0/1:108:41,67:41:1440:67:2412:-184.82,0,-97.3619 0/1:134:62,72:62:2192:72:2588:-192.816,0,-157.165 0/1:269:124,145:124:4452:145:5212:-388.217,0,-319.86 0/1:115:48,67:48:1724:67:2389:-180.647,0,-120.824 0/0:106:104,2:104:3732:2:68:0,-25.4515,-329.615 0/1:183:87,96:87:3112:96:3428:-253.602,0,-225.194 0/1:94:68,25:68:2432:25:900:-52.9587,0,-190.763 0/0:120:120,0:120:4266:0:0:0,-36.1236,-384.08 0/0:74:74,0:74:2656:0:0:0,-22.2762,-239.277 chr01 219385 . C T 30241.9 PASS AB=0.498141;ABP=3.05873;AC=28;AF=0.666667;AN=42;AO=1532;CIGAR=1X;DP=2437;DPB=2437;DPRA=1.27446;EPP=3329.71;EPPR=1968.19;GTI=0;LEN=1;MEANALT=1;MQM=59.6358;MQMR=59.6751;NS=21;NUMALT=1;ODDS=16.784;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54717;QR=32234;RO=905;RPL=1532;RPP=3329.71;RPPR=1968.19;RPR=0;RUN=1;SAF=0;SAP=3329.71;SAR=1532;SRF=0;SRP=1968.19;SRR=905;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,86:0:0:86:3080:-277.424,-25.8886,0 1/1:92:1,91:1:32:91:3208:-285.632,-24.4991,0 1/1:115:0,115:0:0:115:4132:-372.028,-34.6185,0 1/1:66:0,66:0:0:66:2364:-212.3,-19.868,0 0/1:295:137,158:137:4888:158:5653:-420.015,0,-351.251 1/1:73:0,73:0:0:73:2620:-236.023,-21.9752,0 0/1:159:84,75:84:2974:75:2681:-193.659,0,-219.975 0/0:92:92,0:92:3271:0:0:0,-27.6948,-294.411 0/1:187:82,105:82:2919:105:3748:-281.225,0,-206.638 0/1:30:14,16:14:504:16:572:-42.7825,0,-36.6672 0/1:19:12,7:12:428:7:252:-17.3094,0,-33.1392 0/1:25:13,12:13:464:12:432:-31.6954,0,-34.5718 0/1:110:68,42:68:2432:42:1480:-100.36,0,-186.018 0/1:136:73,63:73:2583:63:2264:-163.042,0,-191.764 0/1:267:144,123:144:5157:123:4370:-313.087,0,-383.874 0/1:114:66,48:66:2351:48:1701:-119.053,0,-177.531 1/1:107:2,105:2:68:105:3752:-331.416,-25.7525,0 0/1:180:92,88:92:3279:88:3132:-227.899,0,-241.094 0/1:92:25,67:25:884:67:2400:-188.544,0,-52.1766 1/1:123:0,123:0:0:123:4408:-396.858,-37.0267,0 1/1:69:0,69:0:0:69:2468:-222.366,-20.7711,0 chr01 227680 . T C 22712.3 PASS AB=0.489405;ABP=3.97662;AC=28;AF=0.666667;AN=42;AO=1120;CIGAR=1X;DP=1781;DPB=1781;DPRA=0.551689;EPP=2374.64;EPPR=1421.03;GTI=0;LEN=1;MEANALT=1;MQM=59.908;MQMR=59.6354;NS=21;NUMALT=1;ODDS=15.091;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39829;QR=23608;RO=661;RPL=7;RPP=2374.64;RPPR=1421.03;RPR=1113;RUN=1;SAF=1120;SAP=2435.06;SAR=0;SRF=661;SRP=1438.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:175:4,171:4:144:171:6090:-534.76,-39.3666,0 1/1:48:0,48:0:0:48:1689:-152.294,-14.4494,0 1/1:92:0,92:0:0:92:3279:-295.33,-27.6948,0 1/1:63:0,63:0:0:63:2227:-200.694,-18.9649,0 0/1:24:6,18:6:216:18:636:-50.3433,0,-12.5634 1/1:98:0,98:0:0:98:3477:-313.134,-29.5009,0 0/1:76:44,32:44:1557:32:1152:-81.111,0,-117.459 0/0:148:148,0:148:5277:0:0:0,-44.5524,-474.791 0/1:199:110,89:110:3936:89:3131:-222.107,0,-294.026 0/1:27:18,9:18:629:9:324:-21.378,0,-48.7978 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:26:8,18:8:284:18:648:-50.8251,0,-18.0766 0/1:130:71,59:71:2548:59:2092:-149.414,0,-190.436 0/1:116:48,68:48:1712:68:2407:-181.968,0,-119.446 0/1:171:104,67:104:3725:67:2387:-163.608,0,-283.958 0/1:64:30,34:30:1072:34:1224:-91.2011,0,-77.5265 1/1:84:1,83:1:36:83:2972:-264.106,-21.6882,0 0/1:75:35,40:35:1256:40:1407:-104.119,0,-90.5654 0/1:74:28,46:28:1000:46:1636:-125.253,0,-68.0392 1/1:42:2,40:2:72:40:1440:-123.061,-5.80654,0 1/1:40:0,40:0:0:40:1431:-129.087,-12.0412,0 chr01 227687 . GCA AAG 11673.6 PASS AB=0.503476;ABP=3.11596;AC=14;AF=0.333333;AN=42;AO=662;CIGAR=3X;DP=1797;DPB=1797;DPRA=1.3295;EPP=1423.21;EPPR=2432.92;GTI=0;LEN=3;MEANALT=1.375;MQM=59.5997;MQMR=59.9272;NS=21;NUMALT=1;ODDS=15.2229;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23301;QR=39403;RO=1127;RPL=660;RPP=1423.21;RPPR=2432.92;RPR=2;RUN=1;SAF=662;SAP=1440.53;SAR=0;SRF=1127;SRP=2450.26;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:174:169,4:169:5950:4:144:0,-39.1129,-522.304 0/0:47:47,0:47:1644:0:0:0,-14.1484,-148.245 0/0:90:88,0:88:3086:0:0:0,-26.4906,-277.608 0/0:64:64,0:64:2242:0:0:0,-19.2659,-202.042 0/1:25:19,6:19:647:6:214:-12.0796,0,-51.02 0/0:100:100,0:100:3509:0:0:0,-30.103,-315.967 0/1:78:34,44:34:1181:44:1552:-116.414,0,-83.1125 1/1:148:0,148:0:0:148:5194:-467.555,-44.5524,0 0/1:201:89,111:89:3125:111:3873:-288.184,0,-220.972 0/1:27:10,17:10:352:17:566:-43.1246,0,-23.8903 0/1:9:5,4:5:180:4:142:-10.4199,0,-13.8428 0/1:27:18,8:18:642:8:283:-17.6973,0,-49.9995 0/1:135:63,71:63:2170:71:2528:-187.073,0,-154.864 0/1:118:69,48:69:2397:48:1706:-118.245,0,-180.403 0/1:171:68,102:68:2373:102:3609:-273.552,0,-162.369 0/1:65:34,31:34:1193:31:1098:-79.5631,0,-88.1067 0/0:84:83,1:83:2898:1:36:0,-21.6882,-257.452 0/1:76:40,36:40:1373:36:1265:-91.1776,0,-100.792 0/1:75:46,29:46:1609:29:1021:-69.5377,0,-122.52 0/0:42:40,2:40:1419:2:70:0,-5.99593,-121.36 0/0:41:41,0:41:1413:0:0:0,-12.3422,-127.461 chr01 227710 . A G 66710.3 PASS AB=0.498987;ABP=3.03231;AC=28;AF=0.666667;AN=42;AO=2634;CIGAR=1X;DP=4086;DPB=4086;DPRA=0.9715;EPP=5722.67;EPPR=3149.47;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9586;MQMR=59.8171;NS=21;NUMALT=1;ODDS=27.1443;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=92285;QR=51580;RO=1449;RPL=1097;RPP=162.614;RPPR=27.1812;RPR=1537;RUN=1;SAF=1097;SAP=162.614;SAR=1537;SRF=661;SRP=27.1812;SRR=788;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:357:8,349:8:288:349:12310:-1081.48,-81.2003,0 1/1:111:0,110:0:0:110:3837:-345.208,-33.1133,0 1/1:197:0,197:0:0:197:6872:-618.554,-59.3029,0 1/1:200:0,198:0:0:198:6886:-619.461,-59.6039,0 0/1:348:165,183:165:5841:183:6362:-467.919,0,-421.043 1/1:188:0,188:0:0:188:6586:-592.805,-56.5936,0 0/1:277:149,128:149:5310:128:4476:-319.63,0,-394.569 0/0:200:200,0:200:7133:0:0:0,-60.206,-641.758 0/1:426:220,206:220:7855:206:7159:-516.139,0,-577.953 0/1:52:29,23:29:1044:23:800:-56.665,0,-78.6131 0/1:16:9,7:9:320:7:225:-15.748,0,-24.3259 0/1:87:36,51:36:1287:51:1805:-136.54,0,-89.9432 0/1:265:143,122:143:5061:122:4341:-311.086,0,-375.862 0/1:295:139,156:139:4946:156:5468:-403.452,0,-356.488 0/1:281:164,117:164:5852:117:4121:-286.469,0,-442.19 0/1:142:68,74:68:2417:74:2599:-191.412,0,-175.039 1/1:161:1,160:1:36:160:5669:-506.728,-44.8676,0 0/1:131:67,64:67:2383:64:2250:-163.329,0,-175.09 0/1:147:47,100:47:1663:100:3498:-270.781,0,-105.619 1/1:121:3,118:3:108:118:4125:-361.359,-26.3495,0 1/1:84:1,83:1:36:83:2896:-257.277,-21.6882,0 chr01 266110 . T C 18454.2 PASS AB=0.506377;ABP=3.48108;AC=15;AF=0.357143;AN=42;AO=1001;CIGAR=1X;DP=2227;DPB=2227;DPRA=2.2591;EPP=2176.65;EPPR=2630.61;GTI=0;LEN=1;MEANALT=1;MQM=59.8851;MQMR=59.9323;NS=21;NUMALT=1;ODDS=4.33327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35716;QR=42391;RO=1226;RPL=1001;RPP=2176.65;RPPR=2630.61;RPR=0;RUN=1;SAF=0;SAP=2176.65;SAR=1001;SRF=0;SRP=2665.24;SRR=1226;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:35,0:35:1210:0:0:0,-10.536,-109.199 0/0:59:59,0:59:2054:0:0:0,-17.7608,-185.128 0/0:86:86,0:86:2905:0:0:0,-25.8886,-261.689 0/0:150:146,4:146:5009:4:144:0,-31.8409,-437.66 0/1:153:69,84:69:2433:84:3020:-225.954,0,-173.164 0/0:37:37,0:37:1304:0:0:0,-11.1381,-117.661 0/1:100:54,46:54:1858:46:1652:-118.843,0,-137.393 1/1:148:0,148:0:0:148:5297:-476.653,-44.5524,0 0/1:211:103,108:103:3553:108:3868:-284.708,0,-256.464 0/1:19:7,12:7:240:12:432:-33.5016,0,-16.2151 1/1:179:6,173:6:212:173:6182:-537.047,-34.4596,0 0/1:39:21,18:21:706:18:610:-43.4755,0,-52.111 0/1:230:119,111:119:4114:111:3926:-284.297,0,-301.209 0/1:115:41,74:41:1429:74:2648:-203.946,0,-94.2853 0/1:119:54,65:54:1851:65:2321:-173.326,0,-131.042 0/1:83:46,37:46:1624:37:1313:-93.4842,0,-121.463 0/0:42:42,0:42:1407:0:0:0,-12.6433,-126.917 0/1:158:75,83:75:2603:83:2969:-219.878,0,-186.954 0/1:106:69,37:69:2420:37:1298:-85.208,0,-185.986 0/0:82:81,1:81:2808:1:36:0,-21.0862,-249.35 0/0:76:76,0:76:2651:0:0:0,-22.8783,-238.835 chr01 266150 . A T 33579.8 PASS AB=0.530884;ABP=13.6062;AC=27;AF=0.642857;AN=42;AO=1623;CIGAR=1X;DP=2398;DPB=2398;DPRA=0.690123;EPP=3398.23;EPPR=90.791;GTI=1;LEN=1;MEANALT=1;MQM=48.7807;MQMR=58.5613;NS=21;NUMALT=1;ODDS=0.597917;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57868;QR=27629;RO=775;RPL=1608;RPP=3398.23;RPPR=83.0354;RPR=15;RUN=1;SAF=1623;SAP=3527.31;SAR=0;SRF=771;SRP=1651.34;SRR=4;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:209:0,209:0:0:209:7479:-668.189,-62.9153,0 1/1:98:0,98:0:0:98:3512:-314.016,-29.5009,0 1/1:111:1,110:1:32:110:3940:-347.087,-30.215,0 1/1:144:0,144:0:0:144:5117:-457.393,-43.3483,0 0/1:296:128,168:128:4572:168:5948:-442.071,0,-322.084 1/1:89:0,89:0:0:89:3184:-285.302,-26.7917,0 0/1:172:79,93:79:2800:93:3313:-245.206,0,-200.068 0/0:162:162,0:162:5780:0:0:0,-48.7669,-519.464 0/1:175:95,80:95:3373:80:2809:-197.902,0,-251.052 0/1:14:6,8:6:216:8:288:-21.5309,0,-15.5678 0/0:13:12,1:12:428:1:36:0,-0.33034,-35.1894 0/1:25:9,16:9:324:16:568:-43.7385,0,-21.971 0/1:69:39,30:39:1400:30:1057:-73.6787,0,-105.471 0/1:98:38,60:38:1345:60:2139:-161.722,0,-91.8451 0/1:260:113,147:113:4032:147:5264:-390.181,0,-284.608 0/1:93:53,40:53:1896:40:1431:-98.8439,0,-142.855 1/1:139:0,139:0:0:139:4969:-441.675,-41.8432,0 0/1:48:29,19:29:1035:19:672:-46.0765,0,-78.4301 0/1:29:11,18:11:396:18:644:-48.8921,0,-27.2118 1/1:119:0,119:0:0:119:4242:-379.612,-35.8226,0 1/1:35:0,35:0:0:35:1256:-112.919,-10.5361,0 chr01 266160 . ATTTTTTTTAAGC ATTTTTTTTTAACT,ATTTCTTTTACC 43104.3 PASS AB=0.486777,0.485124;ABP=4.84798,5.33611;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1421,752;CIGAR=1M1I10M2X,4M1X4M1D1M1X1M;DP=2252;DPB=2559.23;DPRA=0.671795,0.960441;EPP=3088.67,1627.28;EPPR=11.6962;GTI=0;LEN=14,12;MEANALT=3.45,3.64286;MQM=48.0908,58.734;MQMR=60;NS=21;NUMALT=2;ODDS=5.14574;PAIRED=0,0;PAIREDR=0;PAO=822,3.5;PQA=27381,103.5;PQR=103.5;PRO=3.5;QA=48453,26232;QR=139;RO=4;RPL=1421,751;RPP=3088.67,1627.28;RPPR=11.6962;RPR=0,1;RUN=1,1;SAF=1421,752;SAP=3088.67,1635.96;SAR=0,0;SRF=0;SRP=11.6962;SRR=4;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:191:0,182,0:0:0:182,0:6178,0:-551.001,-54.7875,0,-551.001,-54.7875,-551.001 1/1:89:0,86,0:0:0:86,0:2956,0:-262.741,-25.8886,0,-262.741,-25.8886,-262.741 1/1:102:0,95,1:0:0:95,1:3164,27:-281.519,-28.5979,0,-279.392,-26.6658,-279.091 1/1:141:0,136,0:0:0:136,0:4649,0:-413.629,-40.9401,0,-413.629,-40.9401,-413.629 1/2:285:4,149,125:4:139:149,125:5112,4396:-756.289,-345.633,-312.078,-399.711,0,-373.382 1/1:85:0,82,0:0:0:82,0:2801,0:-249.303,-24.6845,0,-249.303,-24.6845,-249.303 1/2:161:0,80,76:0:0:80,76:2668,2664:-430.535,-215.507,-191.425,-214.122,0,-191.244 2/2:156:0,0,152:0:0:0,152:0,5272:-473.764,-473.764,-473.764,-45.7566,-45.7566,0 1/2:165:0,73,92:0:0:73,92:2469,3219:-452.477,-254.099,-232.124,-190.691,0,-162.997 1/2:13:0,7,6:0:0:7,6:243,216:-36.9731,-17.6252,-15.518,-19.3761,0,-17.5699 2/2:13:0,1,12:0:0:1,12:36,408:-36.5735,-33.6487,-33.3477,-3.61236,-0.33034,0 1/2:20:0,11,9:0:0:11,9:375,317:-55.7367,-25.512,-22.2007,-29.9592,0,-27.2499 1/2:65:0,25,39:0:0:25,39:817,1373:-171.23,-105.949,-98.4236,-59.6037,0,-47.8635 1/2:88:0,48,37:0:0:48,37:1623,1292:-235.096,-104.363,-89.9139,-130.036,0,-118.898 1/2:251:0,131,112:0:0:131,112:4466,3872:-673.531,-313.918,-274.483,-359.07,0,-325.355 1/2:89:0,35,52:0:0:35,52:1188,1804:-240.1,-144.807,-134.271,-93.5711,0,-77.9176 1/1:120:0,113,0:0:0:113,0:3957,0:-352.326,-34.0164,0,-352.326,-34.0164,-352.326 1/2:45:0,16,28:0:0:16,28:545,978:-122.212,-78.2452,-73.4288,-42.7256,0,-34.2968 1/2:28:0,14,11:0:0:14,11:481,394:-70.1075,-31.6231,-27.4087,-38.0515,0,-34.7402 1/1:112:0,106,0:0:0:106,0:3643,0:-324.608,-31.9092,0,-324.608,-31.9092,-324.608 1/1:33:0,31,0:0:0:31,0:1082,0:-95.6649,-9.33193,0,-95.6649,-9.33193,-95.6649 chr01 266193 . T G 31506 PASS AB=0.503448;ABP=3.16006;AC=28;AF=0.666667;AN=42;AO=1615;CIGAR=1X;DP=2502;DPB=2502;DPRA=0.703614;EPP=3509.94;EPPR=1898.79;GTI=0;LEN=1;MEANALT=1.1;MQM=46.756;MQMR=59.7028;NS=21;NUMALT=1;ODDS=0.806776;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57036;QR=31129;RO=885;RPL=0;RPP=3509.94;RPPR=1916.09;RPR=1615;RUN=1;SAF=0;SAP=3509.94;SAR=1615;SRF=4;SRP=1890.18;SRR=881;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:154:0,154:0:0:154:5378:-477.777,-46.3586,0 1/1:83:0,83:0:0:83:2944:-262.735,-24.9855,0 1/1:131:0,131:0:0:131:4658:-414.949,-39.4349,0 1/1:155:0,155:0:0:155:5508:-487.842,-46.6597,0 0/1:321:151,170:151:5312:170:6029:-440.181,0,-381.272 1/1:84:0,84:0:0:84:2974:-264.63,-25.2865,0 0/1:163:78,85:78:2724:85:2991:-217.735,0,-196.147 0/0:166:166,0:166:5833:0:0:0,-49.971,-525.046 0/1:278:144,133:144:5081:133:4685:-333.072,0,-373.685 0/1:14:8,6:8:284:6:216:-15.4395,0,-21.6874 0/1:9:7,2:7:248:2:72:-4.1054,0,-19.9549 0/1:20:8,12:8:288:12:424:-32.2319,0,-20.2468 0/1:176:83,93:83:2924:93:3254:-234.592,0,-210.415 0/1:70:33,37:33:1163:37:1311:-95.5585,0,-83.9009 0/1:176:97,79:97:3440:79:2795:-195.298,0,-256.83 0/1:121:60,61:60:2106:61:2154:-153.599,0,-153.38 1/1:95:0,95:0:0:95:3378:-300.231,-28.5979,0 0/1:58:36,22:36:1230:22:744:-49.0814,0,-93.4949 0/1:44:14,30:14:496:30:1046:-80.0313,0,-31.7268 1/1:138:0,137:0:0:137:4873:-432.211,-41.2411,0 1/1:46:0,46:0:0:46:1602:-143.127,-13.8474,0 chr01 321576 . ACCC ACCT 6161.92 PASS AB=0.47006;ABP=8.21143;AC=14;AF=0.333333;AN=42;AO=360;CIGAR=3M1X;DP=1048;DPB=1047.75;DPRA=1.32132;EPP=784.74;EPPR=1477.44;GTI=0;LEN=1;MEANALT=1.38462;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.73481;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12912;QR=23777;RO=679;RPL=0;RPP=784.74;RPPR=1477.44;RPR=360;RUN=1;SAF=360;SAP=784.74;SAR=0;SRF=679;SRP=1477.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:28,0:28:987:0:0:0,-8.42884,-89.1437 0/0:34:34,0:34:1181:0:0:0,-10.235,-106.593 0/0:85:85,0:85:2987:0:0:0,-25.5875,-269.067 0/0:45:45,0:45:1587:0:0:0,-13.5463,-143.12 0/1:69:25,40:25:892:40:1440:-109.971,0,-60.6738 0/0:27:27,0:27:947:0:0:0,-8.12781,-85.5442 0/1:111:64,46:64:2236:46:1640:-114.484,0,-168.101 1/1:47:0,46:0:0:46:1656:-148.969,-13.8474,0 0/1:108:57,50:57:2001:50:1796:-129.499,0,-147.942 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:4:2,2:2:64:2:72:-5.6326,0,-4.87398 0/1:51:28,23:28:972:23:828:-59.4916,0,-72.4382 0/1:31:16,15:16:564:15:540:-39.6046,0,-41.7581 0/1:93:59,34:59:2050:34:1208:-81.0303,0,-156.777 0/1:78:36,41:36:1259:41:1464:-108.624,0,-90.1799 0/1:13:10,3:10:340:3:108:-6.16178,0,-27.0146 0/0:17:17,0:17:592:0:0:0,-5.11751,-53.6061 0/1:68:23,45:23:817:45:1620:-125.62,0,-53.3818 0/1:35:24,11:24:845:11:396:-25.4467,0,-65.833 0/0:79:78,0:78:2726:0:0:0,-23.4803,-245.226 0/0:18:18,0:18:622:0:0:0,-5.41854,-56.3014 chr01 426509 . A G 14047.4 PASS AB=0.506889;ABP=3.57876;AC=14;AF=0.333333;AN=42;AO=807;CIGAR=1X;DP=2145;DPB=2145;DPRA=1.59535;EPP=1755.39;EPPR=2908.44;GTI=0;LEN=1;MEANALT=1;MQM=59.9641;MQMR=59.9469;NS=21;NUMALT=1;ODDS=23.515;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28670;QR=47608;RO=1338;RPL=807;RPP=1755.39;RPPR=2908.44;RPR=0;RUN=1;SAF=807;SAP=1755.39;SAR=0;SRF=1338;SRP=2908.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:107:106,1:106:3787:1:36:0,-28.6119,-337.43 0/0:49:49,0:49:1732:0:0:0,-14.7505,-156.165 0/0:110:110,0:110:3928:0:0:0,-33.1133,-353.714 0/0:89:89,0:89:3176:0:0:0,-26.7917,-285.979 0/1:246:114,132:114:4071:132:4733:-352.073,0,-292.394 0/0:100:100,0:100:3551:0:0:0,-30.103,-319.8 0/1:165:95,70:95:3377:70:2480:-173.782,0,-254.453 1/1:105:0,105:0:0:105:3727:-335.624,-31.6082,0 0/1:238:133,105:133:4760:105:3717:-263.077,0,-356.91 0/1:23:11,12:11:392:12:428:-31.9351,0,-28.6964 0/1:16:10,6:10:360:6:216:-14.974,0,-27.9278 0/1:33:17,16:17:612:16:576:-42.241,0,-45.4794 0/1:99:30,69:30:1068:69:2460:-191.853,0,-66.6301 0/1:109:50,59:50:1796:59:2103:-156.721,0,-129.11 0/1:193:96,97:96:3419:97:3434:-251.174,0,-249.826 0/1:88:34,54:34:1220:54:1906:-145.326,0,-83.6162 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/1:90:41,49:41:1439:49:1723:-128.262,0,-102.712 0/1:79:49,30:49:1691:30:1059:-71.8391,0,-128.691 0/0:124:122,2:122:4310:2:72:0,-30.491,-381.231 0/0:39:39,0:39:1379:0:0:0,-11.7402,-124.408 chr01 426590 . G A 17037 PASS AB=0.502522;ABP=3.09793;AC=14;AF=0.333333;AN=42;AO=976;CIGAR=1X;DP=2940;DPB=2940;DPRA=1.03138;EPP=2122.37;EPPR=4259.1;GTI=0;LEN=1;MEANALT=1.16667;MQM=53.376;MQMR=59.5066;NS=21;NUMALT=1;ODDS=1.83957;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34767;QR=68957;RO=1960;RPL=1;RPP=2113.69;RPPR=4189.89;RPR=975;RUN=1;SAF=1;SAP=2113.69;SAR=975;SRF=8;SRP=4189.89;SRR=1952;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:201:195,6:195:6891:6:216:0,-40.7308,-599.655 0/0:109:109,0:109:3867:0:0:0,-32.8123,-348.185 0/0:138:137,1:137:4805:1:36:0,-37.9465,-429.002 0/0:239:238,0:238:8379:0:0:0,-71.6451,-753.094 0/1:271:137,134:137:4819:134:4775:-346.565,0,-352.279 0/0:188:183,5:183:6395:5:180:0,-40.0832,-558.922 0/1:224:104,119:104:3648:119:4244:-311.235,0,-260.774 1/1:162:0,162:0:0:162:5750:-516.139,-48.7669,0 0/1:269:133,136:133:4672:136:4839:-353.039,0,-339.436 0/1:5:4,1:4:144:1:36:-2.08802,0,-11.8085 0/1:9:5,4:5:176:4:144:-10.4705,0,-13.4757 0/1:26:5,21:5:180:21:751:-59.8253,0,-8.72528 0/1:160:79,80:79:2787:80:2838:-206.992,0,-202.828 0/1:168:88,80:88:3109:80:2819:-203.071,0,-229.448 0/1:246:121,125:121:4300:125:4496:-329.738,0,-313.018 0/1:71:29,41:29:1027:41:1468:-110.677,0,-71.2705 0/0:137:136,1:136:4805:1:36:0,-37.6519,-428.7 0/1:61:29,32:29:995:32:1144:-84.6359,0,-71.4675 0/1:76:52,24:52:1797:24:851:-53.8102,0,-139.11 0/0:119:115,4:115:4051:4:144:0,-22.5315,-351.338 0/0:61:61,0:61:2110:0:0:0,-18.3628,-190.157 chr01 449623 . A G 20870.1 PASS AB=0.48089;ABP=9.56674;AC=14;AF=0.333333;AN=42;AO=1202;CIGAR=1X;DP=3690;DPB=3690;DPRA=1.09696;EPP=2613.12;EPPR=5314.78;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.7188;MQMR=59.424;NS=21;NUMALT=1;ODDS=19.7286;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42489;QR=89058;RO=2486;RPL=1202;RPP=2613.12;RPPR=5314.78;RPR=0;RUN=1;SAF=0;SAP=2613.12;SAR=1202;SRF=0;SRP=5401.29;SRR=2486;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:217:215,2:215:7711:2:72:0,-58.4954,-684.276 0/0:185:185,0:185:6636:0:0:0,-55.6905,-596.089 0/0:89:89,0:89:3200:0:0:0,-26.7917,-288.187 0/0:243:243,0:243:8720:0:0:0,-73.1503,-781.586 0/1:329:171,157:171:6123:157:5559:-401.46,0,-448.794 0/0:215:214,1:214:7672:1:36:0,-61.1232,-684.335 0/1:277:141,136:141:5060:136:4771:-346.071,0,-370.878 1/1:205:0,205:0:0:205:7237:-651.272,-61.7112,0 0/1:394:220,173:220:7856:173:6134:-433.649,0,-585.12 0/1:18:5,13:5:176:13:460:-36.3168,0,-10.7665 0/1:34:17,17:17:612:17:603:-44.3641,0,-45.1776 0/1:72:41,31:41:1472:31:1084:-76.1947,0,-111.102 0/1:188:82,106:82:2923:106:3750:-281.062,0,-205.436 0/1:192:116,76:116:4152:76:2684:-183.866,0,-315.862 0/1:236:109,127:109:3908:127:4507:-334.669,0,-278.887 0/1:146:65,81:65:2328:81:2878:-215.299,0,-165.783 0/0:178:178,0:178:6374:0:0:0,-53.5833,-571.285 0/1:87:46,41:46:1640:41:1460:-105.493,0,-119.043 0/1:94:58,36:58:2084:36:1254:-84.8591,0,-159.529 0/0:183:183,0:183:6527:0:0:0,-55.0885,-586.529 0/0:108:108,0:108:3884:0:0:0,-32.5112,-349.704 chr01 449956 . TGCCACT CGCGACC,TGCTACC 63225.8 PASS AB=0.470509,0.522118;ABP=14.281,9.35007;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1547,945;CIGAR=1X2M1X2M1X,3M1X2M1X;DP=2512;DPB=2513.86;DPRA=0.739937,1.13759;EPP=3362.28,2055.05;EPPR=5.18177;GTI=1;LEN=7,7;MEANALT=2.75,3;MQM=48.9644,55.5005;MQMR=60;NS=21;NUMALT=2;ODDS=1.45534;PAIRED=0,0;PAIREDR=0;PAO=5,1;PQA=171,36;PQR=36;PRO=1;QA=52832,32668;QR=36;RO=1;RPL=768,474;RPP=3.18014,3.03098;RPPR=5.18177;RPR=779,471;RUN=1,1;SAF=768,474;SAP=3.18014,3.03098;SAR=779,471;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,108,1:0:0:108,1:3649,36:-323.327,-32.5112,0,-320.39,-29.5593,-320.089 1/1:146:0,142,1:0:0:142,1:4851,30:-422.21,-42.7463,0,-419.814,-40.3568,-419.513 1/1:71:0,71,0:0:0:71,0:2447,0:-215.861,-21.3731,0,-215.861,-21.3731,-215.861 1/1:149:0,149,0:0:0:149,0:5138,0:-456.926,-44.8535,0,-456.926,-44.8535,-456.926 1/2:219:0,85,134:0:0:85,134:2928,4664:-612.416,-378.909,-353.321,-233.849,0,-193.511 1/1:81:0,77,3:0:0:77,3:2635,102:-224.393,-23.1793,0,-216.119,-14.8071,-215.216 1/2:144:0,76,67:0:0:76,67:2561,2306:-380.703,-186.068,-163.189,-194.596,0,-174.426 2/2:159:0,0,158:0:0:0,158:0,5411:-484.855,-484.855,-484.855,-47.5627,-47.5627,0 1/2:147:0,58,83:0:0:58,83:1965,2890:-392.228,-234.458,-216.998,-157.793,0,-132.807 1/2:15:0,3,12:0:0:3,12:105,407:-41.285,-33.2201,-32.317,-8.39825,0,-4.78589 1/2:4:0,2,2:0:0:2,2:71,72:-12.0173,-6.23466,-5.6326,-6.14,0,-5.53794 1/2:42:0,14,28:0:0:14,28:469,955:-114.031,-77.2005,-72.986,-37.1601,0,-28.7313 1/2:140:0,63,77:0:0:63,77:2150,2693:-388.742,-217.86,-198.895,-171.223,0,-148.044 1/2:167:0,76,89:0:0:76,89:2583,3115:-458.362,-252.743,-229.864,-205.686,0,-178.894 1/2:178:0,83,93:0:0:83,93:2836,3218:-484.823,-260.666,-235.681,-224.209,0,-196.214 1/2:101:0,50,51:0:0:50,51:1733,1771:-284.034,-144.095,-129.044,-140.285,0,-124.932 1/1:93:0,92,1:0:0:92,1:3182,36:-285.439,-27.6948,0,-282.501,-24.7542,-282.2 1/2:191:0,91,100:0:0:91,100:3046,3412:-512.376,-274.856,-247.462,-237.531,0,-207.428 1/2:144:0,101,43:0:0:101,43:3476,1478:-397.966,-119.684,-89.2799,-278.279,0,-265.335 1/1:108:0,106,2:0:0:106,2:3613,72:-319.413,-31.9092,0,-313.538,-25.6745,-312.936 1/1:101:1,100,0:1:36:100,0:3394,0:-292.977,-26.8058,0,-293.278,-30.103,-296.216 chr01 449983 . A G 16100.3 PASS AB=0.46875;ABP=8.98185;AC=26;AF=0.619048;AN=42;AO=777;CIGAR=1X;DP=1232;DPB=1232;DPRA=1.60111;EPP=1537.52;EPPR=973.735;GTI=0;LEN=1;MEANALT=1;MQM=59.5251;MQMR=60;NS=21;NUMALT=1;ODDS=0.124128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27596;QR=16243;RO=455;RPL=759;RPP=1537.52;RPPR=973.735;RPR=18;RUN=1;SAF=0;SAP=1690.24;SAR=777;SRF=0;SRP=991.03;SRR=455;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:1,46:1:36:46:1640:-144.287,-10.5501,0 1/1:77:0,77:0:0:77:2735:-246.103,-23.1793,0 1/1:33:0,33:0:0:33:1166:-105.239,-9.93399,0 1/1:92:0,92:0:0:92:3240:-291.696,-27.6948,0 0/1:137:86,51:86:3067:51:1812:-122.116,0,-235.018 0/1:20:3,17:3:108:17:608:-49.015,0,-4.05457 0/1:32:19,13:19:684:13:442:-30.4583,0,-52.2574 0/0:70:70,0:70:2480:0:0:0,-21.0721,-223.452 0/1:70:41,29:41:1468:29:1044:-73.2,0,-111.344 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:17:12,5:12:432:5:176:-11.0675,0,-34.1037 0/1:69:39,30:39:1396:30:1063:-75.2024,0,-105.168 0/1:83:47,36:47:1684:36:1272:-89.7804,0,-126.862 0/1:76:44,32:44:1564:32:1139:-79.8468,0,-118.173 0/1:56:29,27:29:1028:27:968:-70.5779,0,-75.9754 1/1:75:1,74:1:36:74:2629:-233.257,-18.979,0 0/1:56:27,29:27:968:29:1035:-76.5962,0,-70.5797 0/1:84:25,59:25:896:59:2112:-165.058,0,-55.6738 1/1:77:3,74:3:108:74:2619:-225.878,-13.1041,0 1/1:51:0,51:0:0:51:1824:-164.433,-15.3525,0 chr01 507412 . T C 14838 PASS AB=0.534903;ABP=16.0462;AC=14;AF=0.333333;AN=42;AO=752;CIGAR=1X;DP=2025;DPB=2025;DPRA=1.66107;EPP=1567.21;EPPR=2630.07;GTI=7;LEN=1;MEANALT=1;MQM=59.4043;MQMR=17.0471;NS=21;NUMALT=1;ODDS=0.911235;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26925;QR=45595;RO=1273;RPL=744;RPP=1567.21;RPPR=2630.07;RPR=8;RUN=1;SAF=0;SAP=1635.96;SAR=752;SRF=0;SRP=2767.29;SRR=1273;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:180:179,1:179:6413:1:36:0,-50.5871,-235.413 0/0:32:32,0:32:1152:0:0:0,-9.63296,-57.4034 0/0:81:81,0:81:2896:0:0:0,-24.3834,-108.909 0/0:111:111,0:111:3980:0:0:0,-33.4143,-148.126 0/1:218:91,127:91:3268:127:4508:-340.166,0,-57.7454 0/0:74:74,0:74:2656:0:0:0,-22.2762,-138.807 0/1:197:103,94:103:3673:94:3365:-243.333,0,-124.514 1/1:91:0,91:0:0:91:3264:-293.944,-27.3937,0 0/1:200:95,105:95:3408:105:3763:-278.562,0,-39.6246 0/1:18:5,13:5:180:13:464:-36.679,0,-5.12263 0/1:9:4,5:4:140:5:180:-13.8428,0,-4.63679 0/1:26:9,17:9:320:17:612:-47.569,0,-9.44201 0/1:182:72,110:72:2588:110:3956:-301.217,0,-51.6289 0/1:96:38,58:38:1341:58:2073:-157.88,0,-18.7746 0/1:127:59,68:59:2116:68:2444:-181.953,0,-41.0144 0/1:37:18,19:18:644:19:684:-50.7522,0,-11.1879 0/0:36:36,0:36:1280:0:0:0,-10.8371,-38.5786 0/1:42:24,18:24:860:18:644:-45.6179,0,-30.5111 0/1:80:55,25:55:1976:25:896:-56.878,0,-45.5784 0/0:129:128,1:128:4580:1:36:0,-35.2346,-230.686 0/0:59:59,0:59:2124:0:0:0,-17.7608,-110.968 chr01 527922 . GACA GA 3770.4 PASS AB=0.234833;ABP=1170.74;AC=11;AF=0.261905;AN=42;AO=489;CIGAR=1M2D1M;DP=4220;DPB=3975;DPRA=0.840253;EPP=1056.19;EPPR=8052.66;GTI=6;LEN=2;MEANALT=1.9375;MQM=59.6646;MQMR=59.9436;NS=21;NUMALT=1;ODDS=3.90143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16692;QR=127073;RO=3707;RPL=1;RPP=1056.19;RPPR=723.445;RPR=488;RUN=1;SAF=0;SAP=1064.86;SAR=489;SRF=2408;SRP=723.445;SRR=1299;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:308:303,1:303:10261:1:36:0,-88.2647,-919.889 0/0:223:223,0:223:7569:0:0:0,-67.1297,-681.286 0/0:191:191,0:191:6602:0:0:0,-57.4967,-594.284 0/0:329:326,0:326:11201:0:0:0,-98.1358,-1007.69 0/1:419:317,100:317:10735:100:3355:-176.33,0,-840.297 0/0:220:216,2:216:7434:2:72:0,-59.1886,-662.431 0/0:235:215,20:215:7339:20:659:0,-11.1299,-600.979 0/1:195:116,79:116:4058:79:2686:-183.277,0,-306.712 0/1:266:236,30:236:8163:30:1029:-12.842,0,-654.639 0/1:15:12,3:12:418:3:99:-4.72113,0,-33.4371 0/1:5:4,1:4:143:1:36:-2.09312,0,-11.7163 0/1:45:34,11:34:1196:11:375:-20.5281,0,-94.398 0/1:208:160,46:160:5529:46:1607:-82.5469,0,-435.367 0/1:196:164,32:164:5631:32:1078:-38.2767,0,-447.926 0/1:283:198,83:198:6860:83:2875:-174.101,0,-532.485 0/0:148:134,13:134:4621:13:443:0,-4.41431,-375.64 0/0:282:281,0:281:9604:0:0:0,-84.5894,-863.996 0/1:139:93,46:93:3243:46:1589:-101.444,0,-250.247 0/1:141:122,18:122:4133:18:618:-13.4733,0,-329.703 0/0:253:244,4:244:8297:4:135:0,-62.51,-734.304 0/0:119:118,0:118:4036:0:0:0,-35.5215,-363.08 chr01 614486 . CT AG 25596.7 PASS AB=0.503311;ABP=3.13973;AC=27;AF=0.642857;AN=42;AO=1320;CIGAR=2X;DP=2110;DPB=2110;DPRA=1.95127;EPP=2852.01;EPPR=1594.4;GTI=1;LEN=2;MEANALT=1.15789;MQM=59.8356;MQMR=59.7168;NS=21;NUMALT=1;ODDS=0.579288;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46501;QR=27529;RO=784;RPL=2;RPP=2852.01;RPPR=1594.4;RPR=1318;RUN=1;SAF=1320;SAP=2869.35;SAR=0;SRF=784;SRP=1705.44;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:155:1,154:1:36:154:5443:-485.891,-43.0614,0 1/1:66:0,66:0:0:66:2316:-208.69,-19.868,0 1/1:76:0,76:0:0:76:2696:-242.884,-22.8783,0 1/1:35:1,34:1:36:34:1209:-105.517,-6.93778,0 0/1:165:83,81:83:2876:81:2869:-208.71,0,-209.173 1/1:107:0,107:0:0:107:3780:-340.399,-32.2102,0 0/1:170:76,94:76:2674:94:3304:-246.398,0,-189.73 0/0:103:103,0:103:3650:0:0:0,-31.0061,-328.516 0/1:171:111,60:111:3909:60:2113:-138.96,0,-300.404 0/1:10:5,5:5:169:5:180:-13.5418,0,-12.5312 0/0:5:5,0:5:178:0:0:0,-1.50515,-16.3686 0/1:12:10,2:10:360:2:61:-2.18048,0,-29.1319 0/1:136:75,61:75:2610:61:2139:-151.208,0,-193.342 0/1:107:58,45:58:2026:45:1583:-111.39,0,-151.245 0/1:206:92,114:92:3260:114:3990:-296.643,0,-231.384 0/1:82:43,39:43:1516:39:1359:-97.92,0,-112.047 1/1:71:0,71:0:0:71:2507:-225.882,-21.3731,0 0/1:156:61,94:61:2129:94:3307:-250.827,0,-144.856 0/1:144:55,89:55:1936:89:3121:-237.766,0,-131.168 1/1:66:4,62:4:128:62:2189:-185.432,-8.0318,0 1/1:67:1,66:1:36:66:2335:-206.809,-16.5707,0 chr01 618601 . A T 17244.7 PASS AB=0.484871;ABP=5.70421;AC=14;AF=0.333333;AN=42;AO=816;CIGAR=1X;DP=2265;DPB=2265;DPRA=1.26677;EPP=1774.93;EPPR=3145.13;GTI=0;LEN=1;MEANALT=1;MQM=45.3995;MQMR=51.2516;NS=21;NUMALT=1;ODDS=19.4952;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29101;QR=51722;RO=1447;RPL=408;RPP=3.0103;RPPR=63.639;RPR=408;RUN=1;SAF=408;SAP=3.0103;SAR=408;SRF=824;SRP=63.639;SRR=623;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:111:109,2:109:3904:2:72:0,-27.4287,-342.869 0/0:90:90,0:90:3219:0:0:0,-27.0927,-286.438 0/0:57:57,0:57:2008:0:0:0,-17.1587,-179.624 0/0:116:116,0:116:4151:0:0:0,-34.9195,-367.75 0/1:193:97,96:97:3461:96:3436:-221.341,0,-251.659 0/0:86:86,0:86:3084:0:0:0,-25.8886,-272.872 0/1:156:77,79:77:2736:79:2797:-188.428,0,-197.61 1/1:158:1,157:1:36:157:5612:-470.296,-44.0142,0 0/1:152:71,81:71:2543:81:2890:-190.033,0,-179.592 0/1:18:6,12:6:216:12:423:-31.5048,0,-14.2807 0/1:11:8,3:8:284:3:108:-6.76384,0,-22.592 0/1:49:15,34:15:523:34:1224:-89.825,0,-32.1366 0/1:97:39,58:39:1400:58:2075:-138.945,0,-96.1112 0/1:105:52,53:52:1868:53:1871:-124.465,0,-135.313 0/1:183:94,89:94:3352:89:3179:-212.599,0,-244.314 0/1:73:35,38:35:1260:38:1368:-91.1106,0,-88.9423 0/0:42:42,0:42:1504:0:0:0,-12.6433,-134.536 0/1:184:118,66:118:4211:66:2326:-134.015,0,-319.216 0/1:134:86,48:86:3096:48:1720:-98.8854,0,-234.348 0/0:99:98,0:98:3495:0:0:0,-29.5009,-310.025 0/0:151:150,0:150:5371:0:0:0,-45.1545,-477.447 chr01 741203 . G A 10136.8 PASS AB=0.50875;ABP=3.54231;AC=13;AF=0.309524;AN=42;AO=459;CIGAR=1X;DP=1458;DPB=1458;DPRA=1.07432;EPP=282.364;EPPR=966.179;GTI=0;LEN=1;MEANALT=1.15385;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.72583;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16431;QR=35609;RO=997;RPL=351;RPP=282.364;RPPR=966.179;RPR=108;RUN=1;SAF=459;SAP=999.716;SAR=0;SRF=997;SRP=2167.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:116,0:116:4124:0:0:0,-34.9195,-371.344 0/0:70:70,0:70:2500:0:0:0,-21.0721,-225.253 0/0:56:56,0:56:2001:0:0:0,-16.8577,-180.362 0/0:103:103,0:103:3667:0:0:0,-31.0061,-330.235 0/1:139:67,72:67:2408:72:2581:-190.696,0,-175.133 0/0:96:96,0:96:3448:0:0:0,-28.8989,-310.532 0/1:140:69,71:69:2468:71:2548:-187.426,0,-180.23 1/1:50:0,50:0:0:50:1788:-161.202,-15.0515,0 0/1:143:64,79:64:2281:79:2828:-211.712,0,-162.503 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:16:10,5:10:352:5:180:-11.6768,0,-27.1436 0/1:80:35,45:35:1243:45:1620:-122.008,0,-88.0915 0/1:70:31,39:31:1108:39:1374:-102.883,0,-78.9589 0/1:79:42,37:42:1504:37:1320:-95.3206,0,-111.873 0/1:64:39,25:39:1404:25:896:-61.6944,0,-107.393 0/0:62:62,0:62:2212:0:0:0,-18.6639,-199.345 0/1:33:16,17:16:563:17:612:-45.4794,0,-41.0652 0/1:31:18,13:18:630:13:468:-33.1277,0,-47.6927 0/0:77:74,2:74:2656:2:72:0,-16.3748,-232.462 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 chr01 741473 . ATTG GTTA,GTTG 17986 PASS AB=0.617108,0.382892;ABP=61.4985,61.4985;AC=29,13;AF=0.690476,0.309524;AN=42;AO=639,230;CIGAR=1X2M1X,1X3M;DP=870;DPB=870;DPRA=1.01098,1.13424;EPP=1390.58,502.449;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.65,1.92308;MQM=51.9828,59.987;MQMR=0;NS=21;NUMALT=2;ODDS=4.19051;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22531,8126;QR=0;RO=0;RPL=639,230;RPP=1390.58,502.449;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1390.58,502.449;SAR=639,230;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,78,0:0:0:78,0:2739,0:-245.785,-23.4803,0,-245.785,-23.4803,-245.785 1/1:28:0,27,0:0:0:27,0:951,0:-85.1764,-8.12781,0,-85.1764,-8.12781,-85.1764 1/1:36:0,36,0:0:0:36,0:1275,0:-114.819,-10.8371,0,-114.819,-10.8371,-114.819 1/1:41:0,41,0:0:0:41,0:1420,0:-126.785,-12.3422,0,-126.785,-12.3422,-126.785 1/2:67:0,37,30:0:0:37,30:1322,1054:-193.671,-86.1383,-75.0002,-107.886,0,-98.8555 1/1:27:0,27,0:0:0:27,0:947,0:-85.344,-8.12781,0,-85.344,-8.12781,-85.344 1/2:44:0,22,22:0:0:22,22:777,779:-126.671,-63.8094,-57.1867,-63.2137,0,-56.5911 2/2:41:0,0,41:0:0:0,41:0,1452:-130.976,-130.976,-130.976,-12.3422,-12.3422,0 1/2:62:0,34,28:0:0:34,28:1219,983:-179.492,-80.3537,-70.1187,-99.4924,0,-91.0635 1/2:6:0,5,1:0:0:5,1:180,36:-17.8838,-3.29724,-1.79209,-14.946,0,-14.645 1/1:7:0,7,0:0:0:7,0:251,0:-22.8703,-2.10721,0,-22.8703,-2.10721,-22.8703 1/2:8:0,4,4:0:0:4,4:144,144:-23.8405,-12.1095,-10.9054,-12.0906,0,-10.8865 1/2:52:0,32,20:0:0:32,20:1131,707:-149.654,-57.934,-48.301,-92.0732,0,-86.0526 1/2:36:0,26,10:0:0:26,10:894,356:-101.754,-29.3709,-21.5442,-72.7351,0,-69.7248 1/2:64:0,40,24:0:0:40,24:1423,852:-185.42,-69.7757,-57.7345,-115.999,0,-108.774 1/2:21:0,14,7:0:0:14,7:495,248:-60.7019,-20.557,-16.3426,-40.4983,0,-38.3911 1/1:19:0,19,0:0:0:19,0:664,0:-59.6443,-5.71957,0,-59.6443,-5.71957,-59.6443 1/2:73:0,44,29:0:0:44,29:1553,1027:-209.809,-84.0117,-70.7664,-126.15,0,-117.42 1/2:58:0,45,13:0:0:45,13:1584,452:-165.582,-37.0977,-23.5514,-128.832,0,-124.919 1/1:70:0,70,0:0:0:70,0:2475,0:-222.14,-21.0721,0,-222.14,-21.0721,-222.14 1/1:32:0,31,1:0:0:31,1:1087,36:-97.3749,-9.33193,0,-94.4371,-6.03469,-94.1361 chr01 741483 . G A 12900.4 PASS AB=0.612245;ABP=56.6324;AC=29;AF=0.690476;AN=42;AO=632;CIGAR=1X;DP=865;DPB=865;DPRA=0.979762;EPP=1375.38;EPPR=508.963;GTI=1;LEN=1;MEANALT=1;MQM=52.0079;MQMR=59.9871;NS=21;NUMALT=1;ODDS=3.73071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22629;QR=8332;RO=233;RPL=632;RPP=1375.38;RPPR=508.963;RPR=0;RUN=1;SAF=0;SAP=1375.38;SAR=632;SRF=0;SRP=508.963;SRR=233;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77:0:0:77:2756:-247.248,-23.1793,0 1/1:28:0,28:0:0:28:1004:-90.0017,-8.42884,0 1/1:36:0,36:0:0:36:1284:-115.629,-10.8371,0 1/1:40:0,40:0:0:40:1424:-127.446,-12.0412,0 0/1:68:31,37:31:1108:37:1332:-99.4447,0,-79.561 1/1:25:0,25:0:0:25:896:-80.7405,-7.52575,0 0/1:43:21,22:21:756:22:792:-57.9831,0,-55.4229 0/0:42:42,0:42:1492:0:0:0,-12.6433,-134.575 0/1:62:28,34:28:1004:34:1212:-90.4411,0,-72.012 0/1:6:1,5:1:36:5:176:-14.2915,0,-1.79209 1/1:7:0,7:0:0:7:252:-22.9598,-2.10721,0 0/1:8:4,4:4:144:4:140:-10.5203,0,-10.9054 0/1:50:20,30:20:716:30:1076:-81.6558,0,-49.7162 0/1:36:10,26:10:360:26:932:-73.0876,0,-21.9072 0/1:65:24,41:24:860:41:1472:-112.857,0,-58.1549 0/1:21:7,14:7:252:14:504:-39.1113,0,-16.7073 1/1:18:0,18:0:0:18:644:-57.6518,-5.41854,0 0/1:74:31,43:31:1108:43:1529:-114.896,0,-77.7532 0/1:57:13,44:13:460:44:1584:-125.237,0,-24.5767 1/1:70:0,70:0:0:70:2512:-225.434,-21.0721,0 1/1:32:1,31:1:36:31:1108:-95.9804,-6.03469,0 chr01 745636 . C T 36890.2 PASS AB=0.571631;ABP=65.8506;AC=29;AF=0.690476;AN=42;AO=1790;CIGAR=1X;DP=2555;DPB=2555;DPRA=0.753459;EPP=3889.95;EPPR=1664.19;GTI=0;LEN=1;MEANALT=1;MQM=59.876;MQMR=43.183;NS=21;NUMALT=1;ODDS=0.161655;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63943;QR=27420;RO=765;RPL=0;RPP=3889.95;RPPR=1664.19;RPR=1790;RUN=1;SAF=1790;SAP=3889.95;SAR=0;SRF=765;SRP=1664.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:160:1,159:1:36:159:5621:-502.488,-44.6438,0 1/1:128:0,128:0:0:128:4600:-414.156,-38.5318,0 1/1:150:0,150:0:0:150:5372:-483.597,-45.1545,0 1/1:107:0,107:0:0:107:3831:-344.969,-32.2102,0 0/1:201:79,122:79:2836:122:4350:-330.676,0,-188.954 1/1:109:0,109:0:0:109:3871:-348.579,-32.8123,0 0/1:164:77,87:77:2760:87:3109:-230.646,0,-190.576 0/0:159:159,0:159:5700:0:0:0,-47.8638,-502.083 0/1:247:88,159:88:3164:159:5712:-439.834,0,-201.207 0/1:11:2,9:2:68:9:324:-26.1945,0,-3.04211 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:33:11,22:11:392:22:792:-61.6717,0,-24.6627 0/1:190:80,110:80:2876:110:3952:-298.674,0,-195.256 0/1:107:47,60:47:1676:60:2114:-158.31,0,-114.803 0/1:193:96,97:96:3416:97:3472:-254.589,0,-243.464 0/1:92:38,54:38:1368:54:1932:-146.458,0,-91.3543 1/1:108:0,108:0:0:108:3830:-344.892,-32.5112,0 0/1:98:66,32:66:2376:32:1148:-74.1276,0,-179.458 0/1:74:20,54:20:716:54:1917:-150.526,0,-41.097 1/1:151:1,150:1:36:150:5372:-479.711,-41.9345,0 1/1:69:0,69:0:0:69:2480:-223.453,-20.7711,0 chr01 745646 . T G 12262.4 PASS AB=0.424091;ABP=73.2295;AC=13;AF=0.309524;AN=42;AO=753;CIGAR=1X;DP=2544;DPB=2544;DPRA=1.37334;EPP=1638.13;EPPR=3889.95;GTI=1;LEN=1;MEANALT=1.07143;MQM=43.0651;MQMR=59.8564;NS=21;NUMALT=1;ODDS=0.776556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26835;QR=64055;RO=1790;RPL=0;RPP=1638.13;RPPR=3889.95;RPR=753;RUN=1;SAF=753;SAP=1638.13;SAR=0;SRF=1790;SRP=3889.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:156:155,1:155:5551:1:36:0,-43.4397,-496.189 0/0:125:125,0:125:4469:0:0:0,-37.6287,-402.372 0/0:151:151,0:151:5416:0:0:0,-45.4555,-487.552 0/0:109:109,0:109:3890:0:0:0,-32.8123,-350.274 0/1:198:122,76:122:4331:76:2717:-179.247,0,-330.332 0/0:110:110,0:110:3940:0:0:0,-33.1133,-354.084 0/1:163:87,76:87:3116:76:2705:-186.572,0,-231.577 1/1:156:0,156:0:0:156:5588:-492.211,-46.9607,0 0/1:249:162,87:162:5804:87:3105:-195.571,0,-447.51 0/1:11:9,2:9:315:2:68:-3.04211,0,-25.3759 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:33:22,11:22:792:11:373:-23.303,0,-61.6717 0/1:186:108,78:108:3880:78:2766:-186.917,0,-293.402 0/1:108:60,48:60:2151:48:1688:-115.349,0,-161.335 0/1:194:100,94:100:3600:94:3368:-238.808,0,-265.801 0/1:93:54,39:54:1940:39:1385:-92.6262,0,-146.877 0/0:109:109,0:109:3893:0:0:0,-32.8123,-350.556 0/1:99:33,66:33:1162:66:2356:-177.648,0,-75.08 0/1:69:51,18:51:1820:18:644:-36.2641,0,-143.307 0/0:150:148,1:148:5293:1:36:0,-41.6135,-472.676 0/0:71:71,0:71:2552:0:0:0,-21.3731,-229.93 chr01 745732 . CTCTG CTTCTA,CTTTA 39821 PASS AB=0.556557,0.438438;ABP=30.7656,35.8954;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1365,550;CIGAR=1M1I3M1X,2M1X1M1X;DP=1925;DPB=2198.8;DPRA=0.973936,0.873633;EPP=2967.07,1197.32;EPPR=0;GTI=0;LEN=6,5;MEANALT=2.35,2.31579;MQM=59.1744,59.8836;MQMR=0;NS=21;NUMALT=2;ODDS=3.52007;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48124,19469;QR=0;RO=0;RPL=0,0;RPP=2967.07,1197.32;RPPR=0;RPR=1365,550;RUN=1,1;SAF=0,0;SAP=2967.07,1197.32;SAR=1365,550;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:0,123,4:0:0:123,4:4325,142:-388.531,-37.0267,0,-376.961,-25.4592,-375.757 1/1:125:0,123,2:0:0:123,2:4322,72:-388.49,-37.0267,0,-382.615,-30.792,-382.013 1/1:115:0,113,2:0:0:113,2:4002,72:-359.969,-34.0164,0,-354.094,-27.7817,-353.492 1/1:108:0,108,0:0:0:108,0:3847,0:-346.367,-32.5112,0,-346.367,-32.5112,-346.367 1/2:141:0,98,43:0:0:98,43:3481,1533:-408.814,-125.315,-95.814,-283.855,0,-270.911 1/1:95:0,91,3:0:0:91,3:3205,108:-288.253,-27.3937,0,-279.44,-18.5815,-278.537 1/2:127:0,68,55:0:0:68,55:2408,1939:-353.82,-157.871,-137.401,-195.961,0,-179.405 2/2:94:0,0,94:0:0:0,94:0,3309:-298.028,-298.028,-298.028,-28.2968,-28.2968,0 1/2:160:0,92,67:0:0:92,67:3191,2356:-451.165,-191.865,-164.171,-259.391,0,-239.222 1/2:18:0,8,10:0:0:8,10:277,358:-52.0587,-29.5526,-27.1443,-22.8574,0,-19.8471 1/2:11:0,7,4:0:0:7,4:247,144:-32.2183,-12.1095,-10.0023,-20.466,0,-19.2619 1/2:45:0,21,24:0:0:21,24:722,854:-128.533,-69.9532,-63.6316,-58.9286,0,-51.7038 1/2:86:0,44,42:0:0:44,42:1540,1484:-246.422,-121.207,-107.962,-125.567,0,-112.923 1/2:154:0,81,73:0:0:81,73:2882,2595:-446.632,-211.823,-187.44,-235.164,0,-213.189 1/2:37:0,20,17:0:0:20,17:717,602:-107.863,-49.3925,-43.3719,-58.8266,0,-53.7091 1/2:80:0,42,38:0:0:42,38:1482,1351:-231.061,-110.451,-97.8075,-120.964,0,-109.525 1/1:86:0,81,4:0:0:81,4:2832,144:-254.244,-24.3834,0,-242.493,-12.6178,-241.289 1/2:81:0,32,49:0:0:32,49:1138,1730:-233.705,-141.005,-131.372,-93.0544,0,-78.3039 1/2:59:0,43,16:0:0:43,16:1525,570:-171.03,-46.8165,-33.8722,-124.569,0,-119.753 1/1:99:0,97,0:0:0:97,0:3425,0:-307.829,-29.1999,0,-307.829,-29.1999,-307.829 1/1:76:0,73,3:0:0:73,3:2556,106:-229.924,-21.9752,0,-221.291,-12.9892,-220.388 chr01 897054 . C G 11731.1 PASS AB=0.484014;ABP=5.50961;AC=12;AF=0.285714;AN=42;AO=668;CIGAR=1X;DP=2700;DPB=2700;DPRA=0.972192;EPP=1427.61;EPPR=4253.97;GTI=0;LEN=1;MEANALT=1.14286;MQM=57.015;MQMR=59.8635;NS=21;NUMALT=1;ODDS=11.8954;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23810;QR=72174;RO=2029;RPL=2;RPP=1436.23;RPPR=4253.97;RPR=666;RUN=1;SAF=667;SAP=1444.88;SAR=1;SRF=2029;SRP=4408.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:186:184,1:184:6538:1:36:0,-52.4525,-584.878 0/0:133:133,0:133:4739:0:0:0,-40.037,-426.669 0/0:96:95,0:95:3412:0:0:0,-28.5978,-306.934 0/0:206:202,3:202:7185:3:108:0,-52.085,-636.695 0/1:211:118,93:118:4196:93:3321:-235.413,0,-314.287 0/0:133:133,0:133:4738:0:0:0,-40.037,-426.304 0/1:189:82,107:82:2911:107:3815:-285.418,0,-204.142 1/1:118:0,118:0:0:118:4188:-376.674,-35.5215,0 0/1:179:89,90:89:3137:90:3216:-235.563,0,-228.669 0/1:9:2,7:2:63:7:248:-19.8486,0,-3.27388 0/1:14:8,6:8:284:6:216:-15.4883,0,-21.6889 0/1:40:24,16:24:834:16:563:-38.9254,0,-63.3307 0/1:197:99,98:99:3521:98:3492:-254.911,0,-257.797 0/1:157:89,68:89:3178:68:2430:-171.181,0,-238.981 0/0:213:213,0:213:7580:0:0:0,-64.1194,-682.219 0/0:104:104,0:104:3706:0:0:0,-31.3071,-333.647 0/0:165:165,0:165:5828:0:0:0,-49.6699,-524.61 0/1:53:22,31:22:788:31:1097:-83.038,0,-55.2853 0/1:77:48,29:48:1716:29:1044:-71.0838,0,-131.546 0/0:147:146,1:146:5214:1:36:0,-40.6548,-465.802 0/0:73:73,0:73:2606:0:0:0,-21.9752,-234.783 chr01 959496 . A G 11002.1 PASS AB=0.392364;ABP=126.887;AC=12;AF=0.285714;AN=42;AO=533;CIGAR=1X;DP=2896;DPB=2896;DPRA=1.04707;EPP=1160.41;EPPR=5121.17;GTI=2;LEN=1;MEANALT=1.07692;MQM=59.9418;MQMR=59.9623;NS=21;NUMALT=1;ODDS=0.0903054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18855;QR=84286;RO=2361;RPL=309;RPP=32.4454;RPPR=33.1414;RPR=224;RUN=1;SAF=309;SAP=32.4454;SAR=224;SRF=1270;SRP=32.4792;SRR=1091;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:323:319,4:319:11407:4:144:0,-83.9191,-1013.2 0/0:101:101,0:101:3600:0:0:0,-30.404,-324.201 0/0:162:162,0:162:5808:0:0:0,-48.7669,-522.832 0/0:225:224,1:224:8011:1:36:0,-64.1335,-717.096 0/1:335:234,100:234:8336:100:3532:-217.186,0,-649.261 0/0:44:43,0:43:1544:0:0:0,-12.9443,-138.893 0/1:72:52,20:52:1845:20:711:-42.6415,0,-144.654 1/1:45:0,45:0:0:45:1608:-145.01,-13.5464,0 0/1:230:114,116:114:4012:116:4064:-296.705,0,-292.034 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:4:2,2:2:72:2:57:-4.20919,0,-5.6326 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 0/1:155:73,82:73:2616:82:2908:-215.298,0,-189.028 0/1:226:126,100:126:4487:100:3560:-252.577,0,-335.968 0/0:318:318,0:318:11334:0:0:0,-95.7275,-1019.79 0/0:150:150,0:150:5342:0:0:0,-45.1545,-480.915 0/0:131:131,0:131:4668:0:0:0,-39.4349,-420.281 0/1:46:28,18:28:1004:18:631:-43.2111,0,-76.8285 0/1:133:102,31:102:3664:31:1100:-59.2733,0,-289.926 0/0:98:98,0:98:3520:0:0:0,-29.5009,-317.009 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 chr01 994668 . C G 16234.3 PASS AB=0.475177;ABP=8.29268;AC=30;AF=0.714286;AN=42;AO=1135;CIGAR=1X;DP=1731;DPB=1731;DPRA=1.07403;EPP=2424.39;EPPR=1201.26;GTI=0;LEN=1;MEANALT=1.05;MQM=30.1075;MQMR=39.6;NS=21;NUMALT=1;ODDS=6.60133;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40552;QR=20957;RO=595;RPL=5;RPP=2424.39;RPPR=1201.26;RPR=1130;RUN=1;SAF=1135;SAP=2467.63;SAR=0;SRF=595;SRP=1295.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:0,46:0:0:46:1641:-112.665,-13.8474,0 1/1:46:0,46:0:0:46:1639:-119.915,-13.8474,0 1/1:95:0,95:0:0:95:3404:-234.996,-28.5979,0 1/1:88:0,88:0:0:88:3148:-216.161,-26.4906,0 0/1:213:122,91:122:4288:91:3260:-160.109,0,-303.058 1/1:56:0,56:0:0:56:1993:-146.003,-16.8577,0 0/1:123:69,54:69:2448:54:1936:-103.885,0,-169.41 0/0:77:77,0:77:2740:0:0:0,-23.1793,-232.725 0/1:176:107,69:107:3747:69:2457:-147.71,0,-276.158 0/1:29:14,15:14:491:15:536:-32.4323,0,-33.3932 0/1:6:1,5:1:27:5:180:-11.5465,0,-0.867299 0/1:37:18,19:18:631:19:680:-40.9844,0,-43.4393 0/1:169:78,91:78:2760:91:3260:-172.958,0,-187.63 0/1:98:38,60:38:1340:60:2141:-117.114,0,-85.9197 1/1:92:0,91:0:0:91:3237:-222.708,-27.3937,0 1/1:33:0,33:0:0:33:1184:-97.4101,-9.93399,0 1/1:52:0,52:0:0:52:1864:-155.319,-15.6536,0 0/1:74:41,33:41:1424:33:1184:-67.7033,0,-98.9643 0/1:62:30,32:30:1061:32:1152:-60.4124,0,-73.0089 1/1:130:0,130:0:0:130:4620:-353.919,-39.1339,0 1/1:29:0,29:0:0:29:1036:-75.8446,-8.72987,0 chr01 994696 . 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T G 4106.07 PASS AB=0.468137;ABP=6.60813;AC=13;AF=0.309524;AN=42;AO=233;CIGAR=1X;DP=808;DPB=808;DPRA=1.20464;EPP=483.241;EPPR=1225.69;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9826;NS=21;NUMALT=1;ODDS=9.37541;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8344;QR=20616;RO=575;RPL=3;RPP=483.241;RPPR=1225.69;RPR=230;RUN=1;SAF=233;SAP=508.963;SAR=0;SRF=575;SRP=1251.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/0:29:29,0:29:1031:0:0:0,-8.72987,-93.0971 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/1:54:30,24:30:1080:24:849:-60.4722,0,-81.2576 0/1:33:30,3:30:1072:3:108:-0.14118,0,-86.8585 0/1:56:29,27:29:1035:27:972:-70.9402,0,-76.6054 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 0/1:107:56,51:56:1994:51:1826:-132.411,0,-147.522 0/1:10:5,5:5:176:5:180:-13.5418,0,-13.1747 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:23:9,14:9:324:14:504:-38.7744,0,-22.5822 0/1:34:18,16:18:648:16:569:-41.3068,0,-48.4169 0/1:47:18,29:18:648:29:1036:-79.4055,0,-44.5035 0/0:64:63,1:63:2260:1:36:0,-15.6676,-200.064 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 0/1:29:13,16:13:468:16:576:-43.4451,0,-33.7298 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/0:59:58,1:58:2088:1:36:0,-14.1625,-184.592 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 chr01 1017375 . 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CATG CTTG,TTTA 34606.1 PASS AB=0.743954,0.246088;ABP=366.412,396.683;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1393,219;CIGAR=1M1X2M,2X1M1X;DP=1619;DPB=1619;DPRA=2.56129,0.808317;EPP=3027.87,478.563;EPPR=7.35324;GTI=3;LEN=1,4;MEANALT=1.75,2.36364;MQM=59.9713,50.5068;MQMR=60;NS=21;NUMALT=2;ODDS=5.84397;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49929,7687;QR=71;RO=2;RPL=0,0;RPP=3027.87,478.563;RPPR=7.35324;RPR=1393,219;RUN=1,1;SAF=1393,219;SAP=3027.87,478.563;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,89,0:0:0:89,0:3196,0:-287.863,-26.7917,0,-287.863,-26.7917,-287.863 1/1:88:0,88,0:0:0:88,0:3140,0:-282.825,-26.4906,0,-282.825,-26.4906,-282.825 1/1:91:0,91,0:0:0:91,0:3276,0:-295.059,-27.3937,0,-295.059,-27.3937,-295.059 1/1:130:0,130,0:0:0:130,0:4680,0:-421.358,-39.1339,0,-421.358,-39.1339,-421.358 1/2:122:0,99,23:0:0:99,23:3556,828:-357.664,-67.5771,-37.7752,-290.445,0,-283.522 1/1:83:0,83,0:0:0:83,0:2971,0:-267.622,-24.9855,0,-267.622,-24.9855,-267.622 1/2:88:2,62,23:2:71:62,23:2223,812:-240.338,-59.7773,-46.8993,-175.409,0,-174.27 2/2:31:0,0,31:0:0:0,31:0,1090:-97.5125,-97.5125,-97.5125,-9.33193,-9.33193,0 1/2:139:0,93,44:0:0:93,44:3348,1537:-397.974,-124.784,-96.7885,-273.263,0,-260.018 1/2:13:0,6,7:0:0:6,7:212,237:-36.1448,-18.8676,-17.0614,-17.6186,0,-15.5114 2/2:15:0,1,14:0:0:1,14:36,499:-43.6592,-40.7209,-40.4199,-4.21442,-0.917175,0 1/1:13:0,12,1:0:0:12,1:432,36:-38.8628,-3.61236,0,-35.9392,-0.33034,-35.6381 1/2:156:0,124,30:0:0:124,30:4442,1046:-447.234,-84.9578,-47.6301,-362.375,0,-353.344 1/2:77:0,55,22:0:0:55,22:1947,759:-220.286,-61.6847,-45.128,-158.947,0,-152.325 1/1:154:0,154,0:0:0:154,0:5532,0:-498.003,-46.3586,0,-498.003,-46.3586,-498.003 1/1:51:0,51,0:0:0:51,0:1831,0:-165.048,-15.3525,0,-165.048,-15.3525,-165.048 1/1:67:0,67,0:0:0:67,0:2403,0:-216.527,-20.169,0,-216.527,-20.169,-216.527 1/2:41:0,28,13:0:0:28,13:996,461:-118.912,-37.7444,-29.3156,-81.5214,0,-77.608 1/2:67:0,56,11:0:0:56,11:1998,382:-194.196,-31.309,-14.4513,-163.235,0,-159.923 1/1:67:0,67,0:0:0:67,0:2386,0:-214.997,-20.169,0,-214.997,-20.169,-214.997 1/1:37:0,37,0:0:0:37,0:1324,0:-119.462,-11.1381,0,-119.462,-11.1381,-119.462 chr01 1096825 . CC GT,GC 43865.6 PASS AB=0.535168,0.464832;ABP=13.5489,13.5489;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1519,584;CIGAR=2X,1X1M;DP=2103;DPB=2103;DPRA=0.784524,1.0403;EPP=3301.48,1271.15;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.55,1.91667;MQM=59.9519,59.9966;MQMR=0;NS=21;NUMALT=2;ODDS=3.88858;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52539,20832;QR=0;RO=0;RPL=1519,584;RPP=3301.48,1271.15;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3301.48,1271.15;SAR=1519,584;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,121,0:0:0:121,0:4054,0:-365.051,-36.4246,0,-365.051,-36.4246,-365.051 1/1:78:0,78,0:0:0:78,0:2679,0:-241.35,-23.4803,0,-241.35,-23.4803,-241.35 1/1:127:0,127,0:0:0:127,0:4454,0:-401.034,-38.2308,0,-401.034,-38.2308,-401.034 1/1:108:0,108,0:0:0:108,0:3769,0:-339.411,-32.5112,0,-339.411,-32.5112,-339.411 1/2:238:0,122,116:0:0:122,116:4270,4117:-683.173,-335.798,-299.072,-347.727,0,-312.808 1/1:87:0,87,0:0:0:87,0:3013,0:-271.401,-26.1896,0,-271.401,-26.1896,-271.401 1/2:155:0,68,87:0:0:68,87:2352,3112:-445.232,-254.118,-233.647,-191.466,0,-165.276 2/2:126:0,0,126:0:0:0,126:0,4512:-406.248,-406.248,-406.248,-37.9298,-37.9298,0 1/2:204:0,109,95:0:0:109,95:3812,3385:-586.383,-276.269,-243.456,-310.468,0,-281.87 1/2:8:0,5,3:0:0:5,3:178,108:-23.6772,-9.17208,-7.66693,-14.8635,0,-13.9604 1/2:8:0,6,2:0:0:6,2:216,72:-23.8592,-6.23466,-4.42848,-17.9843,0,-17.3823 1/2:28:0,16,12:0:0:16,12:545,428:-79.4512,-35.2464,-30.43,-44.5544,0,-40.942 1/2:119:0,76,43:0:0:76,43:2633,1544:-340.291,-126.309,-103.431,-214.337,0,-201.393 1/2:96:0,43,53:0:0:43,53:1514,1892:-277.858,-154.604,-141.659,-123.609,0,-107.654 1/1:161:0,161,0:0:0:161,0:5608,0:-504.852,-48.4658,0,-504.852,-48.4658,-504.852 1/1:96:0,96,0:0:0:96,0:3350,0:-301.717,-28.8989,0,-301.717,-28.8989,-301.717 1/1:59:0,59,0:0:0:59,0:2047,0:-184.499,-17.7608,0,-184.499,-17.7608,-184.499 1/2:68:0,40,28:0:0:40,28:1387,999:-194.524,-81.7957,-69.7545,-113.081,0,-104.652 1/2:57:0,40,17:0:0:40,17:1381,595:-160.951,-48.7592,-36.718,-112.541,0,-107.423 1/1:115:0,113,2:0:0:113,2:3745,68:-336.725,-34.0164,0,-331.21,-28.1607,-330.608 1/1:44:0,44,0:0:0:44,0:1532,0:-138.169,-13.2453,0,-138.169,-13.2453,-138.169 chr01 1124826 . A G 24668.2 PASS AB=0.51292;ABP=4.13251;AC=30;AF=0.714286;AN=42;AO=1177;CIGAR=1X;DP=1598;DPB=1598;DPRA=1.85238;EPP=2558.83;EPPR=917.2;GTI=0;LEN=1;MEANALT=1;MQM=59.9754;MQMR=60;NS=21;NUMALT=1;ODDS=3.7151;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42061;QR=14651;RO=421;RPL=0;RPP=2558.83;RPPR=917.2;RPR=1177;RUN=1;SAF=1177;SAP=2558.83;SAR=0;SRF=421;SRP=917.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117:0:0:117:4173:-375.752,-35.2205,0 1/1:69:0,69:0:0:69:2480:-223.453,-20.7711,0 1/1:89:0,89:0:0:89:3170:-285.522,-26.7917,0 1/1:58:0,58:0:0:58:2073:-186.841,-17.4597,0 0/1:183:93,90:93:3320:90:3216:-234.569,0,-243.93 1/1:79:1,78:1:36:78:2783:-247.113,-20.1831,0 0/1:97:32,65:32:1088:65:2340:-181.659,0,-69.0172 0/0:42:42,0:42:1399:0:0:0,-12.6433,-126.19 0/1:130:70,60:70:2373:60:2147:-154.363,0,-174.683 0/1:6:3,3:3:89:3:108:-8.26899,0,-6.49818 0/1:9:6,3:6:201:3:108:-7.3659,0,-15.7078 0/1:32:18,14:18:629:14:500:-35.7032,0,-47.3008 0/1:91:44,47:44:1568:47:1679:-124.003,0,-114.018 0/1:63:37,26:37:1271:26:936:-65.5946,0,-95.7193 1/1:123:0,123:0:0:123:4369:-393.386,-37.0267,0 1/1:51:0,51:0:0:51:1832:-165.161,-15.3525,0 1/1:59:0,59:0:0:59:2108:-189.988,-17.7608,0 0/1:94:51,43:51:1817:43:1531:-109.786,0,-135.513 0/1:69:23,46:23:824:46:1653:-128.157,0,-53.7122 1/1:88:1,87:1:36:87:3108:-276.349,-22.8924,0 1/1:49:0,49:0:0:49:1747:-157.514,-14.7505,0 chr01 1218271 . T C 26457.9 PASS AB=0.516471;ABP=5.01316;AC=30;AF=0.714286;AN=42;AO=1282;CIGAR=1X;DP=1810;DPB=1810;DPRA=0.750885;EPP=2786.84;EPPR=1149.55;GTI=0;LEN=1;MEANALT=1;MQM=57.3752;MQMR=59.6098;NS=21;NUMALT=1;ODDS=1.93741;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45517;QR=18920;RO=528;RPL=0;RPP=2786.84;RPPR=1149.55;RPR=1282;RUN=1;SAF=0;SAP=2786.84;SAR=1282;SRF=0;SRP=1149.55;SRR=528;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:0,107:0:0:107:3803:-342.068,-32.2102,0 1/1:64:0,64:0:0:64:2264:-203.47,-19.2659,0 1/1:46:0,46:0:0:46:1640:-147.123,-13.8474,0 1/1:164:1,163:1:36:163:5779:-514.572,-45.7706,0 0/1:199:97,102:97:3472:102:3585:-262.67,0,-252.68 1/1:47:1,46:1:36:46:1610:-141.222,-10.5501,0 0/1:113:49,64:49:1756:64:2266:-169.927,0,-124.27 0/0:113:113,0:113:4044:0:0:0,-34.0164,-363.958 0/1:147:63,84:63:2260:84:2999:-225.587,0,-159.375 0/1:7:1,6:1:36:6:205:-16.3604,0,-1.49106 0/1:5:2,3:2:72:3:108:-8.56919,0,-5.33157 0/1:16:6,10:6:216:10:356:-27.3643,0,-14.974 0/1:135:66,69:66:2368:69:2459:-180.627,0,-172.739 0/1:115:65,50:65:2332:50:1783:-125.645,0,-175.52 1/1:127:0,127:0:0:127:4490:-403.412,-38.2308,0 1/1:61:0,61:0:0:61:2175:-195.514,-18.3628,0 1/1:114:1,113:1:36:113:4030:-358.393,-30.7191,0 0/1:55:39,16:39:1400:16:572:-35.0558,0,-109.707 0/1:58:23,35:23:820:35:1256:-95.7489,0,-56.6265 1/1:80:1,79:1:36:79:2817:-249.508,-20.4846,0 1/1:37:0,37:0:0:37:1320:-118.798,-11.1381,0 chr01 1218280 . C T 9544.87 PASS AB=0.487059;ABP=4.24676;AC=12;AF=0.285714;AN=42;AO=534;CIGAR=1X;DP=1812;DPB=1812;DPRA=1.23612;EPP=1162.58;EPPR=2760.81;GTI=0;LEN=1;MEANALT=1;MQM=59.4775;MQMR=57.3576;NS=21;NUMALT=1;ODDS=2.58036;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19124;QR=45690;RO=1278;RPL=534;RPP=1162.58;RPPR=2760.81;RPR=0;RUN=1;SAF=0;SAP=1162.58;SAR=534;SRF=0;SRP=2778.15;SRR=1278;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:106:106,0:106:3800:0:0:0,-31.9092,-340.642 0/0:66:66,0:66:2356:0:0:0,-19.868,-211.034 0/0:48:48,0:48:1712:0:0:0,-14.4494,-153.656 0/0:162:161,1:161:5740:1:36:0,-45.1686,-511.405 0/1:198:100,98:100:3567:98:3516:-256.938,0,-261.297 0/0:48:47,1:47:1684:1:36:0,-10.8512,-147.241 0/1:116:66,50:66:2356:50:1786:-126.073,0,-177.117 1/1:116:0,116:0:0:116:4153:-373.883,-34.9195,0 0/1:145:81,64:81:2896:64:2300:-163.382,0,-217.1 0/1:7:6,1:6:207:1:36:-1.49107,0,-15.7821 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.56919 0/1:16:10,6:10:360:6:212:-14.6083,0,-27.7274 0/1:134:68,66:68:2432:66:2368:-173.04,0,-178.448 0/1:116:50,66:50:1792:66:2345:-176.387,0,-126.181 0/0:126:126,0:126:4512:0:0:0,-37.9298,-405.279 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.082 0/0:113:112,1:112:4000:1:36:0,-30.4181,-355.738 0/1:55:17,38:17:604:38:1368:-106.793,0,-37.9327 0/1:58:35,23:35:1256:23:824:-56.9873,0,-95.7466 0/0:80:79,1:79:2828:1:36:0,-20.4846,-250.494 0/0:37:37,0:37:1332:0:0:0,-11.1381,-119.87 chr01 1348613 . GATTC GATTA,AATTA 42657.9 PASS AB=0.506876,0.488212;ABP=3.42838,4.23895;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1387,613;CIGAR=4M1X,1X3M1X;DP=2008;DPB=2008;DPRA=0.838496,1.26257;EPP=3014.84,1334.12;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=1.9,2.30769;MQM=59.8587,59.6574;MQMR=60;NS=21;NUMALT=2;ODDS=5.81932;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49639,21611;QR=36;RO=1;RPL=1387,613;RPP=3014.84,1334.12;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3014.84,1334.12;SAR=1387,613;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,158,1:0:0:158,1:5653,36:-508.518,-47.5627,0,-505.581,-44.2655,-505.28 1/1:47:0,47,0:0:0:47,0:1692,0:-152.567,-14.1484,0,-152.567,-14.1484,-152.567 1/1:131:0,130,0:0:0:130,0:4668,0:-420.019,-39.1339,0,-420.019,-39.1339,-420.019 1/1:60:0,57,3:0:0:57,3:2048,107:-183.215,-17.1587,0,-174.495,-8.08206,-173.592 1/2:171:0,84,87:0:0:84,87:3000,3036:-491.813,-247.238,-221.952,-244.927,0,-218.738 1/1:76:0,76,0:0:0:76,0:2721,0:-245.118,-22.8783,0,-245.118,-22.8783,-245.118 1/2:208:0,110,97:0:0:110,97:3921,3419:-598.079,-278.464,-245.351,-319.738,0,-290.538 2/2:113:0,0,112:0:0:0,112:0,3991:-358.896,-358.896,-358.896,-33.7154,-33.7154,0 1/2:196:0,107,89:0:0:107,89:3836,3155:-570.255,-257.385,-225.175,-313.226,0,-286.434 1/2:14:0,6,8:0:0:6,8:216,283:-41.029,-23.4018,-21.5956,-17.9843,0,-15.5761 1/2:7:0,6,1:0:0:6,1:212,36:-20.5487,-3.2882,-1.48202,-17.6186,0,-17.3176 1/2:37:0,15,22:0:0:15,22:540,765:-106.609,-62.5429,-58.0275,-44.4211,0,-37.7984 1/2:82:0,34,47:0:0:34,47:1216,1658:-234.152,-134.996,-124.761,-99.1518,0,-85.0034 1/2:109:0,51,57:0:0:51,57:1790,1983:-306.886,-161.213,-145.86,-145.663,0,-128.504 1/1:191:0,191,0:0:0:191,0:6841,0:-615.387,-57.4967,0,-615.387,-57.4967,-615.387 1/1:32:0,32,0:0:0:32,0:1148,0:-103.544,-9.63296,0,-103.544,-9.63296,-103.544 1/1:35:0,35,0:0:0:35,0:1244,0:-111.405,-10.5361,0,-111.405,-10.5361,-111.405 1/2:130:1,66,63:1:36:66,63:2372,2218:-370.779,-177.621,-160.691,-190.516,0,-174.489 1/2:64:0,37,26:0:0:37,26:1313,924:-182.266,-75.2893,-64.1512,-106.972,0,-99.1454 1/1:94:0,93,0:0:0:93,0:3344,0:-300.856,-27.9958,0,-300.856,-27.9958,-300.856 1/1:52:0,52,0:0:0:52,0:1864,0:-168.039,-15.6536,0,-168.039,-15.6536,-168.039 chr01 1357755 . A G 12647.5 PASS AB=0.490494;ABP=4.04237;AC=12;AF=0.285714;AN=42;AO=729;CIGAR=1X;DP=2766;DPB=2766;DPRA=0.930372;EPP=1586.01;EPPR=4426.3;GTI=1;LEN=1;MEANALT=1;MQM=59.9657;MQMR=59.9637;NS=21;NUMALT=1;ODDS=4.19232;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25974;QR=72627;RO=2037;RPL=729;RPP=1586.01;RPPR=4426.3;RPR=0;RUN=1;SAF=0;SAP=1586.01;SAR=729;SRF=0;SRP=4426.3;SRR=2037;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:81:81,0:81:2859:0:0:0,-24.3834,-257.544 0/0:129:129,0:129:4628:0:0:0,-38.8329,-416.682 0/0:133:133,0:133:4753:0:0:0,-40.037,-427.927 0/0:146:146,0:146:5206:0:0:0,-43.9504,-468.677 0/1:225:130,95:130:4634:95:3379:-236.594,0,-348.384 0/0:113:113,0:113:3980:0:0:0,-34.0164,-358.389 0/1:196:98,98:98:3504:98:3448:-251.534,0,-256.564 1/1:84:0,84:0:0:84:3008:-270.951,-25.2865,0 0/1:302:143,159:143:5094:159:5677:-420.139,0,-367.692 0/1:19:11,8:11:396:8:284:-20.1838,0,-30.2632 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:33:22,11:22:792:11:384:-24.8529,0,-61.6717 0/1:135:57,78:57:2029:78:2762:-208.181,0,-142.242 0/1:157:87,70:87:3093:70:2508:-178.711,0,-231.336 0/0:251:251,0:251:8981:0:0:0,-75.5585,-808.269 0/0:149:149,0:149:5352:0:0:0,-44.8535,-481.81 0/0:140:140,0:140:4973:0:0:0,-42.1442,-447.528 0/1:158:68,90:68:2417:90:3228:-243.179,0,-170.222 0/1:84:49,35:49:1756:35:1260:-88.419,0,-133.037 0/0:140:140,0:140:4971:0:0:0,-42.1442,-447.538 0/0:85:85,0:85:3029:0:0:0,-25.5875,-272.839 chr01 1452856 . T A 5275.4 PASS AB=0.45068;ABP=15.4335;AC=11;AF=0.261905;AN=42;AO=310;CIGAR=1X;DP=1159;DPB=1159;DPRA=1.32376;EPP=676.167;EPPR=1842.25;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9811;NS=21;NUMALT=1;ODDS=4.98743;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11131;QR=29858;RO=847;RPL=310;RPP=676.167;RPPR=1842.25;RPR=0;RUN=1;SAF=0;SAP=676.167;SAR=310;SRF=0;SRP=1842.25;SRR=847;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/0:42:42,0:42:1493:0:0:0,-12.6433,-134.663 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/0:73:73,0:73:2559:0:0:0,-21.9752,-230.557 0/1:84:56,28:56:1985:28:1008:-65.7498,0,-153.636 0/0:80:80,0:80:2789:0:0:0,-24.0824,-251.246 0/1:83:42,41:42:1444:41:1472:-107.791,0,-105.261 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 0/1:135:73,62:73:2536:62:2220:-159.425,0,-187.848 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:9:7,2:7:233:2:72:-4.12745,0,-18.585 0/1:22:12,10:12:428:10:360:-26.1216,0,-32.2361 0/1:95:49,46:49:1734:46:1651:-120.281,0,-127.743 0/1:67:30,37:30:1042:37:1328:-99.6532,0,-73.9165 0/0:111:109,0:109:3859:0:0:0,-32.8123,-347.144 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.6656 0/1:53:25,28:25:892:28:1008:-75.0818,0,-64.6451 0/1:40:29,11:29:1021:11:396:-23.9415,0,-80.1591 0/0:65:65,0:65:2302:0:0:0,-19.5669,-207.438 0/0:28:28,0:28:989:0:0:0,-8.42884,-89.322 chr01 1520017 . C T 11300.2 PASS AB=0.361022;ABP=108.032;AC=29;AF=0.690476;AN=42;AO=593;CIGAR=1X;DP=1083;DPB=1083;DPRA=1.1614;EPP=1290.69;EPPR=1067.03;GTI=1;LEN=1;MEANALT=1;MQM=59.8769;MQMR=60;NS=21;NUMALT=1;ODDS=2.11622;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20981;QR=17492;RO=490;RPL=593;RPP=1290.69;RPPR=1067.03;RPR=0;RUN=1;SAF=0;SAP=1290.69;SAR=593;SRF=0;SRP=1067.03;SRR=490;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42:0:0:42:1500:-135.295,-12.6433,0 1/1:25:0,25:0:0:25:877:-79.2093,-7.52575,0 1/1:48:0,48:0:0:48:1708:-154.006,-14.4494,0 1/1:34:0,34:0:0:34:1193:-107.673,-10.235,0 0/1:108:78,30:78:2796:30:1056:-62.8396,0,-219.369 1/1:31:0,31:0:0:31:1104:-99.5834,-9.33193,0 0/1:104:63,41:63:2248:41:1448:-99.3088,0,-171.276 0/0:80:80,0:80:2834:0:0:0,-24.0824,-255.297 0/1:81:55,26:55:1976:26:909:-57.74,0,-153.731 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:14:10,4:10:341:4:144:-9.0992,0,-26.8033 0/1:68:42,26:42:1504:26:924:-63.0076,0,-115.185 0/1:62:36,26:36:1288:26:928:-65.1744,0,-97.5597 1/1:68:0,68:0:0:68:2390:-214.728,-20.47,0 1/1:19:0,19:0:0:19:642:-58.0941,-5.71957,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 0/1:142:96,46:96:3425:46:1648:-105.856,0,-265.717 0/1:42:17,25:17:612:25:892:-67.9564,0,-42.7702 1/1:28:0,28:0:0:28:973:-87.8801,-8.42884,0 1/1:50:0,50:0:0:50:1785:-160.931,-15.0515,0 chr01 1520023 . CGT AGG,CGG 22336.1 PASS AB=0.362761,0.637239;ABP=104.93,104.93;AC=29,13;AF=0.690476,0.309524;AN=42;AO=585,486;CIGAR=1X1M1X,2M1X;DP=1072;DPB=1072.33;DPRA=1.16263,1.79798;EPP=1273.32,1058.35;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.52632,1.81818;MQM=59.8752,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.68656;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=20614,17424;QR=0;RO=0;RPL=585,486;RPP=1273.32,1058.35;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1273.32,1058.35;SAR=585,486;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,41,0:0:0:41,0:1436,0:-129.534,-12.3422,0,-129.534,-12.3422,-129.534 1/1:26:0,26,0:0:0:26,0:916,0:-82.7197,-7.82678,0,-82.7197,-7.82678,-82.7197 1/1:46:0,46,0:0:0:46,0:1639,0:-147.799,-13.8474,0,-147.799,-13.8474,-147.799 1/1:32:0,31,0:0:0:31,0:1084,0:-97.593,-9.33193,0,-97.593,-9.33193,-97.593 1/2:106:0,31,75:0:0:31,75:1084,2688:-307.772,-219.587,-210.255,-88.5368,0,-65.9596 1/1:31:0,31,0:0:0:31,0:1081,0:-97.4668,-9.33193,0,-97.4668,-9.33193,-97.4668 1/2:106:0,41,65:0:0:41,65:1436,2328:-307.051,-190.213,-177.871,-117.191,0,-97.6239 2/2:80:0,0,80:0:0:0,80:0,2872:-258.716,-258.716,-258.716,-24.0824,-24.0824,0 1/2:78:0,25,53:0:0:25,53:880,1908:-227.681,-156.043,-148.517,-71.9923,0,-56.0378 2/2:9:0,0,9:0:0:0,9:0,320:-29.1424,-29.1424,-29.1424,-2.70927,-2.70927,0 1/2:5:0,2,3:0:0:2,3:72,108:-15.0469,-9.17208,-8.57002,-6.23466,0,-5.33157 1/2:14:0,4,10:0:0:4,10:142,360:-41.3028,-29.734,-28.5299,-11.9251,0,-8.91479 1/2:68:0,25,43:0:0:25,43:878,1540:-197.406,-125.949,-118.423,-71.8106,0,-58.8664 1/2:65:0,28,37:0:0:28,37:995,1328:-189.763,-108.684,-100.255,-81.4354,0,-70.2973 1/1:66:0,66,0:0:0:66,0:2325,0:-208.883,-19.868,0,-208.883,-19.868,-208.883 1/1:20:0,20,0:0:0:20,0:708,0:-64.0452,-6.0206,0,-64.0452,-6.0206,-64.0452 1/1:21:0,21,0:0:0:21,0:746,0:-67.4639,-6.32163,0,-67.4639,-6.32163,-67.4639 1/2:139:0,45,94:0:0:45,94:1608,3364:-405.459,-274.359,-260.813,-131.136,0,-102.84 1/2:42:0,25,17:0:0:25,17:889,608:-122.382,-49.9345,-42.4088,-72.8039,0,-67.6864 1/1:28:0,28,0:0:0:28,0:985,0:-88.9627,-8.42884,0,-88.9627,-8.42884,-88.9627 1/1:49:0,49,0:0:0:49,0:1710,0:-154.183,-14.7505,0,-154.183,-14.7505,-154.183 chr01 1566403 . A G 12308.8 PASS AB=0.443662;ABP=14.7546;AC=30;AF=0.714286;AN=42;AO=486;CIGAR=1X;DP=762;DPB=762;DPRA=0.97973;EPP=3.4571;EPPR=5.02442;GTI=0;LEN=1;MEANALT=1;MQM=59.465;MQMR=56.7101;NS=21;NUMALT=1;ODDS=4.45984;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17054;QR=9809;RO=276;RPL=0;RPP=1058.35;RPPR=602.337;RPR=486;RUN=1;SAF=248;SAP=3.4571;SAR=238;SRF=146;SRP=5.02442;SRR=130;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:1,31:1:32:31:1066:-93.0438,-6.43839,0 1/1:35:0,35:0:0:35:1207:-108.888,-10.5361,0 1/1:10:0,10:0:0:10:356:-32.373,-3.0103,0 1/1:20:0,20:0:0:20:690:-62.4172,-6.0206,0 0/1:51:31,20:31:1116:20:703:-48.2354,0,-85.2894 1/1:16:0,16:0:0:16:572:-51.8052,-4.81648,0 0/1:47:26,21:26:924:21:752:-53.8359,0,-69.0505 0/0:37:37,0:37:1316:0:0:0,-11.1381,-118.01 0/1:60:42,18:42:1474:18:648:-40.5901,0,-114.761 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.7602 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.32298 0/1:27:11,16:11:396:16:576:-44.039,0,-27.8271 0/1:36:16,20:16:568:20:708:-53.122,0,-40.4909 0/1:42:29,13:29:1019:13:455:-28.6381,0,-78.8471 1/1:53:0,53:0:0:53:1875:-169.028,-15.9546,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:15:0,15:0:0:15:528:-47.8514,-4.51545,0 0/1:82:50,32:50:1788:32:1094:-73.9615,0,-136.328 0/1:69:26,43:26:928:43:1491:-113.706,0,-62.7779 1/1:33:1,32:1:36:32:1135:-98.7991,-6.33831,0 1/1:71:0,71:0:0:71:2478:-222.753,-21.3731,0 chr01 1566442 . G A 6441.84 PASS AB=0.551963;ABP=13.1656;AC=12;AF=0.285714;AN=42;AO=277;CIGAR=1X;DP=761;DPB=761;DPRA=1.44764;EPP=5.27584;EPPR=3.02825;GTI=0;LEN=1;MEANALT=1;MQM=56.6065;MQMR=59.4731;NS=21;NUMALT=1;ODDS=4.31199;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9901;QR=17227;RO=484;RPL=277;RPP=604.508;RPPR=1045.34;RPR=0;RUN=1;SAF=147;SAP=5.27584;SAR=130;SRF=242;SRP=3.0103;SRR=242;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1067:1:21:0,-7.23236,-94.237 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1401 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0149 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5268 0/1:53:21,32:21:743:32:1148:-87.5631,0,-51.2322 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2824 0/1:49:22,27:22:788:27:972:-72.7566,0,-56.4724 1/1:36:0,36:0:0:36:1288:-115.492,-10.8371,0 0/1:61:19,42:19:676:42:1504:-116.998,0,-42.8052 0/1:6:3,3:3:108:3:99:-7.04139,0,-8.26899 0/1:5:3,2:3:108:2:72:-5.32298,0,-8.57002 0/1:27:16,11:16:568:11:396:-27.8271,0,-43.3208 0/1:36:20,16:20:716:16:576:-41.214,0,-53.8441 0/1:44:14,30:14:500:30:1072:-82.9985,0,-32.089 0/0:53:53,0:53:1892:0:0:0,-15.9546,-170.556 0/0:14:14,0:14:496:0:0:0,-4.21442,-44.9743 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:83:33,50:33:1163:50:1781:-135.313,0,-79.8752 0/1:69:43,26:43:1516:26:936:-63.4991,0,-115.957 0/0:34:33,1:33:1175:1:36:0,-6.63934,-102.39 0/0:68:68,0:68:2419:0:0:0,-20.47,-217.373 chr01 1591852 . T A 27726.8 PASS AB=0.486023;ABP=4.89198;AC=30;AF=0.714286;AN=42;AO=1375;CIGAR=1X;DP=2061;DPB=2061;DPRA=1.83177;EPP=2988.78;EPPR=1492.64;GTI=1;LEN=1;MEANALT=1;MQM=59.5767;MQMR=59.9169;NS=21;NUMALT=1;ODDS=3.00377;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48662;QR=24600;RO=686;RPL=0;RPP=2988.78;RPPR=1492.64;RPR=1375;RUN=1;SAF=1375;SAP=2988.78;SAR=0;SRF=686;SRP=1492.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:2,127:2:72:127:4497:-396.846,-31.9971,0 1/1:22:0,22:0:0:22:772:-69.564,-6.62266,0 1/1:50:0,50:0:0:50:1773:-159.842,-15.0515,0 1/1:143:0,143:0:0:143:5057:-455.266,-43.0473,0 0/1:224:121,103:121:4336:103:3633:-259.702,0,-322.984 1/1:86:1,85:1:36:85:3017:-268.03,-22.2903,0 0/1:200:104,96:104:3720:96:3391:-245.104,0,-274.724 0/0:107:107,0:107:3836:0:0:0,-32.2102,-345.418 0/1:270:149,121:149:5348:121:4268:-302.937,0,-400.164 1/1:13:1,12:1:36:12:428:-35.2587,-0.315115,0 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:15:8,7:8:288:7:244:-17.784,0,-21.752 0/1:138:67,71:67:2396:71:2532:-186.579,0,-174.355 0/1:139:72,67:72:2588:67:2354:-170.273,0,-191.325 1/1:151:0,151:0:0:151:5306:-477.664,-45.4555,0 1/1:20:0,20:0:0:20:689:-62.3272,-6.0206,0 1/1:15:0,15:0:0:15:536:-48.5715,-4.51545,0 0/1:49:26,23:26:936:23:820:-59.3498,0,-69.809 0/1:74:23,51:23:828:51:1816:-141.441,0,-52.5679 1/1:149:0,149:0:0:149:5312:-478.182,-44.8535,0 1/1:62:0,62:0:0:62:2217:-199.764,-18.6639,0 chr01 1591876 . 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CTTCTTTTCTCTTA CATTCTTCTCTTA,CTTTCTTTTCTCTTA 43527.4 PASS AB=0.504826,0.48166;ABP=3.2199,6.03695;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1877,662;CIGAR=1M1I3M2D8M,1M1I13M;DP=2571;DPB=2484.21;DPRA=0.748447,0.830825;EPP=4078.86,1440.53;EPPR=0;GTI=0;LEN=13,1;MEANALT=2.9,3.07692;MQM=32.0005,58.7689;MQMR=0;NS=21;NUMALT=2;ODDS=1.68119;PAIRED=0,0;PAIREDR=0;PAO=0,0.5;PQA=0,17.5;PQR=17.5;PRO=0.5;QA=59786,23350;QR=0;RO=0;RPL=0,0;RPP=4078.86,1440.53;RPPR=0;RPR=1877,662;RUN=1,1;SAF=1877,662;SAP=4078.86,1440.53;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:148:0,146,1:0:0:146,1:4619,36:-376.685,-43.9504,0,-373.747,-40.9435,-373.446 1/1:133:0,129,0:0:0:129,0:4147,0:-339.028,-38.8329,0,-339.028,-38.8329,-339.028 1/1:129:0,128,0:0:0:128,0:4078,0:-332.731,-38.5318,0,-332.731,-38.5318,-332.731 1/1:200:0,196,0:0:0:196,0:6188,0:-504.666,-59.0019,0,-504.666,-59.0019,-504.666 1/2:226:0,94,126:0:0:94,126:2980,4451:-577.135,-362.296,-333.999,-214.862,0,-176.932 1/1:167:0,166,0:0:0:166,0:5421,0:-444.265,-49.971,0,-444.265,-49.971,-444.265 1/2:252:0,128,122:0:0:128,122:4192,4308:-655.519,-350.735,-312.203,-304.817,0,-268.091 2/2:161:0,0,160:0:0:0,160:0,5642:-507.563,-507.563,-507.563,-48.1648,-48.1648,0 1/2:185:0,85,99:0:0:85,99:2702,3486:-478.252,-283.481,-257.893,-194.736,0,-164.934 1/2:13:0,6,6:0:0:6,6:177,212:-29.8206,-17.3539,-15.5478,-12.5134,0,-10.7073 1/2:4:0,2,2:0:0:2,2:66,72:-10.9719,-6.20477,-5.60271,-5.09619,0,-4.49413 1/2:34:0,23,11:0:0:23,11:729,392:-84.945,-32.3087,-25.385,-52.9704,0,-49.6591 1/2:104:0,51,52:0:0:51,52:1600,1830:-264.266,-149.011,-133.658,-115.369,0,-99.7159 1/2:133:0,82,48:0:0:82,48:2592,1687:-324.555,-137.403,-112.718,-187.234,0,-172.784 1/1:140:0,138,0:0:0:138,0:4388,0:-357.871,-41.5421,0,-357.871,-41.5421,-357.871 1/1:97:0,97,0:0:0:97,0:3055,0:-249.41,-29.1999,0,-249.41,-29.1999,-249.41 1/1:179:0,178,0:0:0:178,0:5609,0:-457.692,-53.5833,0,-457.692,-53.5833,-457.692 1/2:53:0,31,22:0:0:31,22:980,788:-135.386,-64.6221,-55.2902,-71.0925,0,-64.4698 1/2:32:0,21,11:0:0:21,11:670,374:-78.9019,-30.6436,-24.3219,-48.5805,0,-45.2692 1/1:132:0,127,2:0:0:127,2:4014,72:-327.381,-38.2308,0,-321.533,-32.333,-320.931 1/1:49:0,49,0:0:0:49,0:1579,0:-129.467,-14.7505,0,-129.467,-14.7505,-129.467 chr01 1703669 . ATCTGTG ATGTA,ATATGTA 59108.9 PASS AB=0.520995,0.474339;ABP=7.93411,10.3656;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2142,751;CIGAR=1M2D3M1X,2M1X3M1X;DP=2904;DPB=2289.71;DPRA=2.15906,0.725581;EPP=4654.3,1633.79;EPPR=0;GTI=2;LEN=5,7;MEANALT=2.15789,2.4;MQM=40.2871,49.3049;MQMR=0;NS=21;NUMALT=2;ODDS=1.63295;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76129,26592;QR=0;RO=0;RPL=0,0;RPP=4654.3,1633.79;RPPR=0;RPR=2142,751;RUN=1,1;SAF=0,0;SAP=4654.3,1633.79;SAR=2142,751;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,95,2:0:0:95,2:3393,72:-295.17,-28.5979,0,-289.316,-22.6784,-288.714 1/1:108:0,106,1:0:0:106,1:3731,36:-325.56,-31.9092,0,-322.64,-28.9855,-322.339 1/1:106:0,103,3:0:0:103,3:3664,105:-314.497,-31.0061,0,-305.98,-22.1399,-305.076 1/1:176:0,176,0:0:0:176,0:6284,0:-540.503,-52.9813,0,-540.503,-52.9813,-540.503 1/2:305:0,161,144:0:0:161,144:5692,5103:-858.211,-413.931,-365.466,-444.626,0,-401.278 1/1:160:0,159,0:0:0:159,0:5632,0:-489.437,-47.8638,0,-489.437,-47.8638,-489.437 1/2:189:0,80,109:0:0:80,109:2824,3848:-534.63,-311.048,-286.966,-223.928,0,-191.115 2/2:129:0,0,128:0:0:0,128:0,4544:-407.46,-407.46,-407.46,-38.5318,-38.5318,0 1/2:315:0,145,169:0:0:145,169:5157,5969:-879.862,-480.029,-436.379,-399.918,0,-349.044 1/2:16:0,13,3:0:0:13,3:464,105:-44.7965,-8.86531,-4.95192,-36.2786,0,-35.3755 2/2:6:0,0,6:0:0:0,6:0,211:-19.2381,-19.2381,-19.2381,-1.80618,-1.80618,0 1/2:28:0,15,13:0:0:15,13:538,461:-80.1135,-37.7834,-33.2679,-42.6806,0,-38.7672 1/2:144:0,78,65:0:0:78,65:2767,2315:-400.432,-187.44,-163.96,-213.003,0,-193.436 1/2:141:0,79,58:0:0:79,58:2751,2039:-380.399,-165.339,-141.558,-215.135,0,-197.675 1/1:309:0,309,0:0:0:309,0:11001,0:-953.092,-93.0183,0,-953.092,-93.0183,-953.092 1/1:158:0,157,0:0:0:157,0:5615,0:-480.686,-47.2617,0,-480.686,-47.2617,-480.686 1/1:177:0,177,0:0:0:177,0:6305,0:-539.28,-53.2823,0,-539.28,-53.2823,-539.28 1/2:87:0,52,35:0:0:52,35:1854,1246:-245.355,-101.043,-85.3895,-144.66,0,-134.124 1/2:61:0,47,14:0:0:47,14:1686,502:-170.419,-41.1505,-27.0021,-129.621,0,-125.407 1/1:139:0,138,1:0:0:138,1:4924,36:-423.225,-41.5421,0,-420.298,-38.2567,-419.997 1/1:52:0,52,0:0:0:52,0:1847,0:-159.427,-15.6536,0,-159.427,-15.6536,-159.427 chr01 1715166 . G A 7991.17 PASS AB=0.482293;ABP=4.62517;AC=12;AF=0.285714;AN=42;AO=345;CIGAR=1X;DP=1083;DPB=1083;DPRA=1.36082;EPP=6.94413;EPPR=15.4587;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.7797;MQMR=59.8535;NS=21;NUMALT=1;ODDS=1.57516;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12360;QR=26148;RO=737;RPL=345;RPP=752.168;RPPR=1586.06;RPR=0;RUN=1;SAF=160;SAP=6.94413;SAR=185;SRF=334;SRP=17.038;SRR=403;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.381 0/0:40:40,0:40:1427:0:0:0,-12.0412,-128.727 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:70:70,0:70:2486:0:0:0,-21.0721,-223.993 0/1:68:33,35:33:1180:35:1256:-92.8729,0,-86.0357 0/0:43:42,1:42:1478:1:36:0,-9.34601,-129.713 0/1:54:27,27:27:942:27:959:-70.3655,0,-68.8334 1/1:56:0,56:0:0:56:2008:-180.993,-16.8577,0 0/1:86:50,36:50:1777:36:1281:-89.7022,0,-134.319 0/1:9:1,8:1:36:8:284:-23.1876,0,-0.889005 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:15:11,4:11:374:4:140:-8.42913,0,-29.471 0/1:74:28,46:28:996:46:1652:-126.69,0,-67.6763 0/1:33:23,10:23:824:10:360:-22.808,0,-64.547 0/0:60:59,1:59:2087:1:36:0,-14.4635,-184.495 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:138:59,79:59:2107:79:2836:-213.913,0,-148.353 0/1:110:70,39:70:2498:39:1404:-93.4841,0,-191.901 0/0:40:39,1:39:1370:1:36:0,-8.44292,-119.992 0/0:79:79,0:79:2770:0:0:0,-23.7814,-249.523 chr01 1715186 . AG CT,AT 15620.8 PASS AB=0.426799,0.573201;ABP=21.7669,21.7669;AC=29,13;AF=0.690476,0.309524;AN=42;AO=412,269;CIGAR=2X,1M1X;DP=681;DPB=702;DPRA=1.94286,1.9854;EPP=897.657,82.1278;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.63158,1.85714;MQM=59.665,59.7026;MQMR=0;NS=21;NUMALT=2;ODDS=3.9352;PAIRED=0,0;PAIREDR=0;PAO=42,0;PQA=1492,0;PQR=0;PRO=0;QA=14646,9648;QR=0;RO=0;RPL=412,269;RPP=897.657,587.136;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,85;SAP=897.657,82.1278;SAR=412,184;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,33,0:0:0:33,0:1178,0:-106.281,-9.93399,0,-106.281,-9.93399,-106.281 1/1:20:0,20,0:0:0:20,0:705,0:-63.7694,-6.0206,0,-63.7694,-6.0206,-63.7694 1/1:10:0,10,0:0:0:10,0:349,0:-31.3859,-3.0103,0,-31.3859,-3.0103,-31.3859 1/1:27:0,27,0:0:0:27,0:960,0:-86.3947,-8.12781,0,-86.3947,-8.12781,-86.3947 1/2:60:0,25,35:0:0:25,35:863,1256:-172.589,-102.486,-94.9601,-70.1326,0,-59.5966 1/1:25:0,25,0:0:0:25,0:881,0:-79.6056,-7.52575,0,-79.6056,-7.52575,-79.6056 1/2:25:0,15,10:0:0:15,10:538,360:-73.6074,-29.7297,-25.2143,-44.237,0,-41.2267 2/2:28:0,0,28:0:0:0,28:0,1008:-91.0348,-91.0348,-91.0348,-8.42884,-8.42884,0 1/2:57:0,21,36:0:0:21,36:756,1296:-167.426,-105.744,-99.4221,-61.6824,0,-50.8453 2/2:7:0,0,7:0:0:0,7:0,252:-22.6598,-22.6598,-22.6598,-2.10721,-2.10721,0 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:5:0,4,1:0:0:4,1:144,36:-14.6871,-2.93742,-1.7333,-11.7497,0,-11.4486 1/2:60:0,15,45:0:0:15,45:540,1608:-175.521,-131.461,-126.946,-44.4187,0,-30.8724 1/2:20:0,10,10:0:0:10,10:348,356:-57.6587,-29.3686,-26.3583,-28.6419,0,-25.6316 1/1:38:0,37,1:0:0:37,1:1311,36:-117.923,-11.1381,0,-114.986,-8.20069,-114.685 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/1:10:0,10,0:0:0:10,0:360,0:-32.7419,-3.0103,0,-32.7419,-3.0103,-32.7419 1/2:102:0,48,54:0:0:48,54:1700,1940:-296.72,-158.242,-143.792,-138.479,0,-122.223 1/2:70:0,32,38:0:0:32,38:1152,1356:-204.542,-110.556,-100.923,-94.0024,0,-82.5632 1/1:19:0,18,1:0:0:18,1:648,36:-58.2883,-5.41854,0,-55.3509,-2.48103,-55.0499 1/1:49:0,48,1:0:0:48,1:1709,36:-153.718,-14.4494,0,-150.781,-11.1522,-150.48 chr01 1755158 . A C 32217.2 PASS AB=0.49789;ABP=3.04695;AC=30;AF=0.714286;AN=42;AO=1566;CIGAR=1X;DP=2170;DPB=2170;DPRA=0.811111;EPP=3403.54;EPPR=1303.74;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9566;MQMR=60;NS=21;NUMALT=1;ODDS=0.0665788;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54859;QR=21590;RO=603;RPL=1565;RPP=3394.86;RPPR=1303.74;RPR=1;RUN=1;SAF=1565;SAP=3394.86;SAR=1;SRF=603;SRP=1312.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92:0:0:92:3212:-289.301,-27.6948,0 1/1:114:0,114:0:0:114:4024:-362.352,-34.3174,0 1/1:106:0,106:0:0:106:3737:-336.534,-31.9092,0 1/1:182:0,182:0:0:182:6422:-578.006,-54.7875,0 0/1:125:52,73:52:1868:73:2553:-192.39,0,-130.771 1/1:104:1,103:1:36:103:3644:-324.567,-27.7088,0 0/1:130:82,48:82:2936:48:1708:-114.872,0,-225.34 0/0:126:126,0:126:4512:0:0:0,-37.9298,-406.248 0/1:145:75,70:75:2681:70:2483:-180.074,0,-197.884 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:6:1,5:1:36:5:176:-14.3788,0,-1.79209 0/1:31:19,12:19:680:12:419:-28.7107,0,-52.1972 0/1:188:88,100:88:3156:100:3534:-261.678,0,-227.671 0/1:135:71,64:71:2540:64:2230:-160.272,0,-188.212 1/1:132:1,131:1:36:131:4539:-405.076,-36.1377,0 1/1:75:0,75:0:0:75:2629:-236.856,-22.5773,0 1/1:84:0,84:0:0:84:2944:-265.189,-25.2865,0 0/1:109:53,55:53:1885:55:1893:-137.772,0,-137.056 0/1:71:28,43:28:1008:43:1476:-111.755,0,-69.6632 1/1:135:0,135:0:0:135:4688:-422.084,-40.6391,0 1/1:72:0,72:0:0:72:2476:-223.093,-21.6742,0 chr01 1755167 . GCTG GG 46386.8 PASS AB=0.445004;ABP=39.5538;AC=30;AF=0.714286;AN=42;AO=1911;CIGAR=1M2D1M;DP=2870;DPB=1913;DPRA=0.75618;EPP=4152.69;EPPR=2063.74;GTI=1;LEN=2;MEANALT=1.45;MQM=59.9833;MQMR=60;NS=21;NUMALT=1;ODDS=10.9801;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=36;PRO=1;QA=65927;QR=33169;RO=949;RPL=1483;RPP=1267.74;RPPR=158.883;RPR=428;RUN=1;SAF=1483;SAP=1267.74;SAR=428;SRF=605;SRP=158.883;SRR=344;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:144:0,144:0:0:144:4914:-442.425,-43.3483,0 1/1:113:0,111:0:0:111:3893:-350.207,-33.4143,0 1/1:127:0,126:0:0:126:4379:-394.049,-37.9298,0 1/1:212:0,211:0:0:211:7286:-655.452,-63.5173,0 0/1:233:116,117:116:4063:117:3981:-288.352,0,-295.724 1/1:101:1,100:1:36:100:3532:-314.493,-26.8058,0 0/1:128:82,46:82:2904:46:1601:-105.845,0,-223.065 0/0:178:177,0:177:6167:0:0:0,-53.2823,-554.783 0/1:233:124,107:124:4290:107:3635:-257.484,0,-316.409 0/1:16:14,2:14:475:2:68:-1.64123,0,-38.2567 0/1:4:1,3:1:35:3:108:-8.87105,0,-2.29451 0/1:53:41,11:41:1446:11:392:-19.5518,0,-114.364 0/1:236:120,116:120:4205:116:3994:-288.611,0,-307.593 0/1:199:106,93:106:3705:93:3160:-224.678,0,-273.752 1/1:184:0,184:0:0:184:6362:-572.688,-55.3895,0 1/1:105:0,105:0:0:105:3626:-326.554,-31.6082,0 1/1:120:2,117:2:71:117:4050:-357.952,-29.4383,0 0/1:154:103,51:103:3593:51:1746:-111.059,0,-277.223 0/1:135:62,73:62:2179:73:2455:-180.564,0,-155.735 1/1:130:0,129:0:0:129:4506:-405.355,-38.8329,0 1/1:65:0,65:0:0:65:2239:-201.711,-19.567,0 chr01 1865286 . TTG CTT,TTT 38619 PASS AB=0.465682,0.53258;ABP=14.7845,13.6224;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1303,686;CIGAR=1X1M1X,2M1X;DP=1992;DPB=1992;DPRA=0,1.29459;EPP=2815.09,1492.64;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.80952,2.14286;MQM=37.9363,47.2041;MQMR=0;NS=21;NUMALT=2;ODDS=7.03881;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45575,24619;QR=0;RO=0;RPL=1,0;RPP=2823.76,1492.64;RPPR=0;RPR=1302,686;RUN=1,1;SAF=1302,686;SAP=2823.76,1492.64;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,56,2:0:0:56,2:1964,72:-167.803,-16.8577,0,-161.984,-10.6828,-161.382 1/1:51:0,51,0:0:0:51,0:1790,0:-145.551,-15.3525,0,-145.551,-15.3525,-145.551 1/1:78:0,78,0:0:0:78,0:2717,0:-228.469,-23.4803,0,-228.469,-23.4803,-228.469 1/1:106:0,106,0:0:0:106,0:3718,0:-316.638,-31.9092,0,-316.638,-31.9092,-316.638 1/2:264:0,142,121:0:0:142,121:4981,4332:-730.037,-348.427,-305.68,-381.708,0,-345.283 1/1:44:0,41,3:0:0:41,3:1409,108:-114.118,-12.3422,0,-105.655,-3.53521,-104.752 1/2:188:0,39,148:0:0:39,148:1373,5312:-524.389,-428.574,-416.834,-95.9135,0,-51.3611 2/2:67:0,1,66:0:0:1,66:36,2367:-210.638,-207.927,-207.626,-19.868,-16.8229,0 1/2:237:0,119,118:0:0:119,118:4189,4240:-667.655,-341.938,-306.115,-326.063,0,-290.542 1/2:9:0,5,4:0:0:5,4:175,144:-24.9513,-11.7198,-10.2146,-13.5712,0,-12.3671 1/2:21:0,7,14:0:0:7,14:244,504:-59.0717,-41.2142,-39.107,-18.1882,0,-13.9737 1/2:16:0,12,4:0:0:12,4:395,140:-40.6806,-11.6622,-8.04984,-29.3548,0,-28.1507 1/2:149:0,57,92:0:0:57,92:2006,3304:-419.631,-266.704,-249.546,-153.267,0,-125.572 1/2:99:0,53,46:0:0:53,46:1837,1652:-273.874,-133.154,-117.199,-141.062,0,-127.214 1/1:103:0,103,0:0:0:103,0:3613,0:-309.326,-31.0061,0,-309.326,-31.0061,-309.326 1/1:60:0,59,0:0:0:59,0:2062,0:-178.396,-17.7608,0,-178.396,-17.7608,-178.396 1/1:102:0,102,0:0:0:102,0:3560,0:-308.573,-30.7051,0,-308.573,-30.7051,-308.573 1/2:108:0,63,45:0:0:63,45:2218,1620:-295.151,-129.124,-110.159,-166.368,0,-152.822 1/2:60:0,39,21:0:0:39,21:1375,752:-165.903,-60.4176,-48.6774,-105.831,0,-99.5091 1/1:117:0,115,2:0:0:115,2:3980,72:-330.908,-34.6185,0,-325.083,-28.4373,-324.481 1/1:55:0,55,0:0:0:55,0:1933,0:-155.374,-16.5567,0,-155.374,-16.5567,-155.374 chr01 1865294 . A G 23775.2 PASS AB=0.453333;ABP=24.2907;AC=30;AF=0.714286;AN=42;AO=1255;CIGAR=1X;DP=1945;DPB=1945;DPRA=0;EPP=2449.11;EPPR=1436.8;GTI=0;LEN=1;MEANALT=1.09524;MQM=37.9466;MQMR=47.1642;NS=21;NUMALT=1;ODDS=2.37954;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44736;QR=24644;RO=688;RPL=1221;RPP=2440.89;RPPR=1436.8;RPR=34;RUN=1;SAF=1254;SAP=2719.53;SAR=1;SRF=688;SRP=1496.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:2,55:2:72:55:1976:-161.839,-10.3818,0 1/1:49:0,49:0:0:49:1756:-142.265,-14.7505,0 1/1:75:0,75:0:0:75:2668:-223.235,-22.5773,0 1/1:105:0,104:0:0:104:3724:-315.905,-31.3071,0 0/1:261:126,135:126:4520:135:4819:-330.062,0,-322.154 1/1:41:3,38:3:108:38:1352:-99.4402,-2.63212,0 0/1:187:148,39:148:5288:39:1376:-51.0273,0,-414.318 0/0:67:66,1:66:2376:1:36:0,-16.8229,-208.417 0/1:228:117,111:117:4192:111:3957:-273.212,0,-304.603 0/1:8:4,4:4:140:4:144:-9.9725,0,-10.3099 0/1:21:14,7:14:500:7:252:-14.4538,0,-38.7556 0/1:14:3,11:3:108:11:373:-26.8356,0,-5.7912 0/1:145:92,53:92:3288:53:1868:-115.811,0,-249.363 0/1:97:46,51:46:1652:51:1820:-125.133,0,-117.982 1/1:101:0,100:0:0:100:3544:-302.625,-30.103,0 1/1:57:0,57:0:0:57:2052:-175.236,-17.1587,0 1/1:98:0,98:0:0:98:3489:-301.375,-29.5009,0 0/1:106:45,61:45:1612:61:2179:-149.603,0,-110.065 0/1:58:20,38:20:716:38:1344:-97.1709,0,-46.4122 1/1:116:2,114:2:72:114:4076:-329.275,-28.1362,0 1/1:54:0,54:0:0:54:1931:-154.738,-16.2556,0 chr01 1865303 . A G 11688.9 PASS AB=0.563536;ABP=41.089;AC=12;AF=0.285714;AN=42;AO=684;CIGAR=1X;DP=1843;DPB=1843;DPRA=1.32115;EPP=1488.3;EPPR=2511.07;GTI=1;LEN=1;MEANALT=1;MQM=47.1389;MQMR=38.0155;NS=21;NUMALT=1;ODDS=0.339045;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24342;QR=40744;RO=1159;RPL=684;RPP=1488.3;RPPR=2502.41;RPR=0;RUN=1;SAF=684;SAP=1488.3;SAR=0;SRF=1158;SRP=2511.07;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:47,2:47:1668:2:72:0,-7.97353,-135.893 0/0:48:48,0:48:1673:0:0:0,-14.4494,-136.06 0/0:73:73,0:73:2600:0:0:0,-21.9752,-217.545 0/0:94:94,0:94:3279:0:0:0,-28.2968,-279.31 0/1:247:126,121:126:4435:121:4311:-308.038,0,-302.41 0/0:40:37,3:37:1297:3:108:0,-2.33109,-95.3603 0/1:181:35,146:35:1232:146:5197:-408.126,0,-42.4931 1/1:66:1,65:1:36:65:2292:-201.29,-16.5218,0 0/1:228:108,120:108:3844:120:4295:-313.791,0,-262.149 0/1:9:5,4:5:180:4:144:-10.2146,0,-12.683 0/1:20:6,14:6:216:14:504:-39.408,0,-11.8333 0/1:14:10,4:10:345:4:144:-9.00729,0,-25.2759 0/1:139:49,90:49:1698:90:3189:-242.526,0,-101.878 0/1:93:46,47:46:1624:47:1675:-121.105,0,-110.695 0/0:93:93,0:93:3278:0:0:0,-27.9958,-280.413 0/0:56:56,0:56:1968:0:0:0,-16.8577,-169.999 0/0:94:94,0:94:3306:0:0:0,-28.2968,-286.828 0/1:103:58,45:58:2009:45:1583:-108.666,0,-137.519 0/1:52:31,21:31:1092:21:756:-51.4297,0,-77.7774 0/0:96:94,2:94:3273:2:72:0,-22.1156,-265.203 0/0:48:48,0:48:1691:0:0:0,-14.4494,-136.107 chr01 1981173 . A T 8542.4 PASS AB=0.540356;ABP=13.3508;AC=12;AF=0.285714;AN=42;AO=475;CIGAR=1X;DP=1701;DPB=1701;DPRA=1.03243;EPP=1034.46;EPPR=2663.06;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9516;MQMR=59.9853;NS=21;NUMALT=1;ODDS=3.86576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17015;QR=42801;RO=1225;RPL=0;RPP=1034.46;RPPR=2663.06;RPR=475;RUN=1;SAF=475;SAP=1034.46;SAR=0;SRF=1225;SRP=2663.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:170:168,2:168:5957:2:72:0,-44.3384,-529.406 0/0:54:54,0:54:1882:0:0:0,-16.2556,-169.655 0/0:273:273,0:273:9436:0:0:0,-82.1812,-849.229 0/0:52:52,0:52:1792:0:0:0,-15.6536,-161.554 0/1:150:71,79:71:2516:79:2836:-210.217,0,-181.539 0/0:63:62,1:62:2141:1:36:0,-15.3666,-189.36 0/1:109:45,64:45:1553:64:2285:-173.099,0,-107.246 1/1:76:0,76:0:0:76:2721:-245.132,-22.8783,0 0/1:106:44,62:44:1544:62:2219:-168.065,0,-107.256 0/1:21:5,16:5:161:16:576:-45.8534,0,-8.48493 0/1:8:6,2:6:201:2:72:-4.42848,0,-16.0088 0/1:25:11,14:11:384:14:500:-37.8104,0,-27.3689 0/1:104:44,60:44:1522:60:2150:-162.46,0,-105.961 0/1:65:24,40:24:856:40:1432:-109.552,0,-57.7355 0/0:106:105,1:105:3709:1:36:0,-28.3109,-330.416 0/0:34:34,0:34:1200:0:0:0,-10.235,-108.306 0/0:54:54,0:54:1882:0:0:0,-16.2556,-169.655 0/1:83:39,44:39:1365:44:1580:-117.506,0,-98.1609 0/1:60:46,14:46:1587:14:500:-27.2744,0,-125.052 0/0:54:54,0:54:1901:0:0:0,-16.2556,-171.366 0/0:34:34,0:34:1212:0:0:0,-10.235,-109.386 chr01 2037293 . C A 10840.5 PASS AB=0.474576;ABP=8.97265;AC=12;AF=0.285714;AN=42;AO=610;CIGAR=1X;DP=2094;DPB=2094;DPRA=1.17188;EPP=1310.29;EPPR=3156.36;GTI=0;LEN=1;MEANALT=1;MQM=59.8;MQMR=59.8787;NS=21;NUMALT=1;ODDS=10.5145;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21863;QR=53034;RO=1484;RPL=2;RPP=1310.29;RPPR=3156.36;RPR=608;RUN=1;SAF=610;SAP=1327.61;SAR=0;SRF=1484;SRP=3225.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:112:111,1:111:3950:1:36:0,-30.1171,-352.088 0/0:100:100,0:100:3560:0:0:0,-30.103,-320.603 0/0:95:94,1:94:3361:1:36:0,-24.9996,-299.106 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/1:247:127,120:127:4521:120:4295:-312.347,0,-332.696 0/0:95:95,0:95:3396:0:0:0,-28.5978,-305.85 0/1:215:119,96:119:4272:96:3433:-244.451,0,-319.934 1/1:104:0,104:0:0:104:3726:-335.487,-31.3071,0 0/1:229:116,113:116:4133:113:4068:-297.361,0,-303.218 0/1:26:5,21:5:180:21:756:-60.5343,0,-8.72528 0/1:15:8,7:8:288:7:252:-18.5135,0,-21.751 0/1:29:14,15:14:504:15:540:-40.2067,0,-36.9682 0/1:80:36,44:36:1281:44:1580:-118.409,0,-91.5089 0/1:109:65,44:65:2313:44:1580:-109.679,0,-175.616 0/0:162:162,0:162:5805:0:0:0,-48.7669,-522.486 0/0:84:84,0:84:3003:0:0:0,-25.2865,-270.404 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.371 0/1:75:43,32:43:1544:32:1133:-79.6871,0,-116.672 0/1:37:25,12:25:887:12:428:-27.7207,0,-69.01 0/0:85:85,0:85:3040:0:0:0,-25.5875,-273.827 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.618 chr01 2037302 . A G 30695.8 PASS AB=0.522814;ABP=7.76607;AC=30;AF=0.714286;AN=42;AO=1472;CIGAR=1X;DP=2081;DPB=2081;DPRA=0.950481;EPP=3190.74;EPPR=1325.44;GTI=0;LEN=1;MEANALT=1;MQM=59.8614;MQMR=59.8062;NS=21;NUMALT=1;ODDS=10.2275;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52605;QR=21872;RO=609;RPL=1471;RPP=3190.74;RPPR=1325.44;RPR=1;RUN=1;SAF=1472;SAP=3199.42;SAR=0;SRF=609;SRP=1325.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:1,112:1:36:112:4002:-356.769,-30.4181,0 1/1:97:0,97:0:0:97:3480:-313.407,-29.1999,0 1/1:97:1,96:1:36:96:3435:-305.764,-25.6016,0 1/1:71:0,71:0:0:71:2520:-226.995,-21.3731,0 0/1:246:120,126:120:4320:126:4499:-331.016,0,-314.895 1/1:95:0,95:0:0:95:3412:-307.288,-28.5979,0 0/1:210:93,117:93:3348:117:4179:-313.075,0,-238.312 0/0:104:104,0:104:3736:0:0:0,-31.3071,-336.384 0/1:229:113,116:113:4052:116:4136:-303.487,0,-295.924 0/1:26:21,5:21:756:5:180:-8.72528,0,-60.5343 0/1:15:7,8:7:252:8:288:-21.751,0,-18.5135 0/1:28:15,13:15:536:13:468:-34.0308,0,-40.146 0/1:80:45,35:45:1612:35:1260:-89.6231,0,-121.287 0/1:106:44,62:44:1584:62:2218:-167.973,0,-110.942 1/1:160:0,160:0:0:160:5740:-516.639,-48.1648,0 1/1:84:0,84:0:0:84:2988:-269.133,-25.2865,0 1/1:88:1,87:1:36:87:3105:-276.071,-22.8924,0 0/1:74:32,42:32:1140:42:1504:-113.372,0,-80.6216 0/1:38:12,26:12:428:26:917:-71.4055,0,-27.4197 1/1:85:0,85:0:0:85:3022:-272.209,-25.5876,0 1/1:35:0,35:0:0:35:1252:-112.969,-10.5361,0 chr01 2037435 . AATA GATG,GATA 66369.7 PASS AB=0.496525,0.497297;ABP=3.14612,3.09246;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2382,770;CIGAR=1X2M1X,1X3M;DP=3171;DPB=3171;DPRA=1.26033,0.856287;EPP=5175.46,1675.04;EPPR=9.52472;GTI=1;LEN=4,1;MEANALT=2.45,2.57143;MQM=52.4521,59.7597;MQMR=60;NS=21;NUMALT=2;ODDS=14.2627;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=83076,27321;QR=101;RO=3;RPL=0,0;RPP=5175.46,1675.04;RPPR=9.52472;RPR=2382,770;RUN=1,1;SAF=0,0;SAP=5175.46,1675.04;SAR=2382,770;SRF=0;SRP=9.52472;SRR=3;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:288:0,286,0:0:0:286,0:9876,0:-885.603,-86.0946,0,-885.603,-86.0946,-885.603 1/1:179:0,177,0:0:0:177,0:6126,0:-548.769,-53.2823,0,-548.769,-53.2823,-548.769 1/1:96:0,95,0:0:0:95,0:3343,0:-299.523,-28.5979,0,-299.523,-28.5979,-299.523 1/1:209:0,208,0:0:0:208,0:7272,0:-652.956,-62.6142,0,-652.956,-62.6142,-652.956 1/2:382:0,165,215:0:0:165,215:5781,7658:-1093.05,-623.912,-574.242,-469.129,0,-404.408 1/1:273:0,268,3:0:0:268,3:9301,108:-833.901,-80.676,0,-825.089,-71.8443,-824.186 1/2:261:0,146,115:0:0:146,115:5065,4090:-743.307,-333.604,-289.654,-410.054,0,-375.436 2/2:121:0,0,121:0:0:0,121:0,4287:-385.996,-385.996,-385.996,-36.4246,-36.4246,0 1/2:228:0,116,112:0:0:116,112:4022,3947:-647.785,-321.692,-286.773,-326.442,0,-292.726 1/2:10:0,5,5:0:0:5,5:180,176:-29.3477,-14.6799,-13.1747,-15.0234,0,-13.5183 1/2:9:0,8,1:0:0:8,1:277,36:-25.7438,-3.29724,-0.889005,-22.8048,0,-22.5037 1/2:16:0,7,9:0:0:7,9:249,324:-47.0313,-26.774,-24.6667,-20.6143,0,-17.905 1/2:190:3,88,97:3:101:88,97:3106,3423:-521.776,-270.542,-252.235,-243.96,0,-222.943 1/2:151:0,80,70:0:0:80,70:2806,2484:-429.896,-202.374,-178.291,-227.514,0,-206.442 1/1:189:0,188,0:0:0:188,0:6571,0:-588.934,-56.5936,0,-588.934,-56.5936,-588.934 1/1:158:0,158,0:0:0:158,0:5551,0:-498.288,-47.5627,0,-498.288,-47.5627,-498.288 1/1:184:0,183,1:0:0:183,1:6411,36:-575.426,-55.0885,0,-572.488,-51.7912,-572.187 1/2:23:0,12,11:0:0:12,11:422,396:-66.965,-32.6668,-29.0544,-34.6539,0,-31.3425 1/2:25:0,16,9:0:0:16,9:563,320:-72.0189,-26.4248,-21.6084,-45.9475,0,-43.2382 1/1:129:0,126,1:0:0:126,1:4419,36:-396.097,-37.9298,0,-393.159,-34.9822,-392.858 1/1:50:0,50,0:0:0:50,0:1735,0:-155.73,-15.0515,0,-155.73,-15.0515,-155.73 chr01 2065925 . A G 47546.8 PASS AB=0.53271;ABP=12.9544;AC=31;AF=0.738095;AN=42;AO=1901;CIGAR=1X;DP=2500;DPB=2500;DPRA=1.27979;EPP=4104.96;EPPR=1284.24;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=59.9933;NS=21;NUMALT=1;ODDS=13.4474;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67749;QR=21402;RO=598;RPL=1597;RPP=1912.73;RPPR=680.684;RPR=304;RUN=1;SAF=1598;SAP=1918.64;SAR=303;SRF=517;SRP=693.292;SRR=81;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:1,171:1:36:171:6124:-547.662,-48.1789,0 1/1:47:0,47:0:0:47:1683:-151.757,-14.1484,0 1/1:55:0,55:0:0:55:1932:-174.154,-16.5567,0 1/1:67:0,67:0:0:67:2400:-216.257,-20.169,0 0/1:227:85,142:85:3036:142:5072:-388.292,0,-205.134 1/1:127:1,126:1:36:126:4500:-401.57,-34.6325,0 0/1:149:67,82:67:2400:82:2917:-217.911,0,-171.403 0/0:94:94,0:94:3372:0:0:0,-28.2968,-303.695 0/1:350:168,182:168:6005:182:6458:-475.952,0,-435.194 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:34:16,18:16:572:18:648:-48.4169,0,-41.5784 0/1:76:46,30:46:1648:30:1063:-73.1025,0,-125.73 0/1:54:32,21:32:1148:21:748:-51.4741,0,-87.4607 1/1:350:0,350:0:0:350:12476:-1122.68,-105.361,0 1/1:145:2,143:2:72:143:5099:-452.218,-36.8126,0 1/1:214:0,214:0:0:214:7592:-683.325,-64.4204,0 0/1:93:52,41:52:1857:41:1457:-103.428,0,-139.412 0/1:82:29,53:29:1040:53:1908:-147.313,0,-69.2299 1/1:97:1,96:1:36:96:3429:-305.224,-25.6016,0 1/1:54:0,54:0:0:54:1919:-172.987,-16.2556,0 chr01 2066121 . ACACA GCACC 30314.6 PASS AB=0.518044;ABP=5.43962;AC=30;AF=0.714286;AN=42;AO=1447;CIGAR=1X3M1X;DP=1975;DPB=1975;DPRA=1.00053;EPP=3058.87;EPPR=1033.39;GTI=0;LEN=5;MEANALT=1.9;MQM=54.4077;MQMR=59.8636;NS=21;NUMALT=1;ODDS=9.74643;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50991;QR=17812;RO=506;RPL=1438;RPP=3067.44;RPPR=1033.39;RPR=9;RUN=1;SAF=1;SAP=3136.45;SAR=1446;SRF=0;SRP=1101.78;SRR=506;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,113:0:0:113:3977:-357.188,-34.0164,0 1/1:96:2,93:2:72:93:3292:-287.596,-22.1069,0 1/1:105:0,102:0:0:102:3624:-325.582,-30.7051,0 1/1:157:0,154:0:0:154:5359:-480.768,-46.3586,0 0/1:135:62,73:62:2189:73:2573:-189.815,0,-156.637 1/1:78:0,74:0:0:74:2626:-235.047,-22.2762,0 0/1:83:37,46:37:1271:46:1613:-118.086,0,-89.4937 0/0:94:94,0:94:3304:0:0:0,-28.2968,-297.579 0/1:176:74,101:74:2578:101:3541:-265.455,0,-179.234 0/1:9:4,5:4:144:5:163:-12.2517,0,-10.6043 0/1:7:5,2:5:175:2:72:-4.52078,0,-13.9833 0/1:40:28,12:28:981:12:426:-26.584,0,-76.5596 0/1:136:75,60:75:2651:60:2134:-150.627,0,-197.839 0/1:100:52,47:52:1842:47:1636:-117.136,0,-135.899 1/1:172:0,170:0:0:170:6019:-540.631,-51.1751,0 1/1:95:1,94:1:36:94:3307:-293.885,-24.9996,0 1/1:70:0,70:0:0:70:2494:-224.527,-21.0721,0 0/1:93:46,46:46:1638:46:1623:-117.619,0,-119.652 0/1:80:26,53:26:931:53:1883:-145.144,0,-59.9675 1/1:85:0,85:0:0:85:2983:-267.718,-25.5876,0 1/1:47:0,47:0:0:47:1646:-147.664,-14.1484,0 chr01 2073255 . A G 37763.5 PASS AB=0.553834;ABP=33.8714;AC=30;AF=0.714286;AN=42;AO=1791;CIGAR=1X;DP=2552;DPB=2552;DPRA=0.557619;EPP=3840.18;EPPR=1618.77;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=59.9947;NS=21;NUMALT=1;ODDS=30.6678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63944;QR=27186;RO=760;RPL=6;RPP=3840.18;RPPR=1618.77;RPR=1785;RUN=1;SAF=1791;SAP=3892.12;SAR=0;SRF=760;SRP=1653.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:2,113:2:72:113:4016:-354.794,-27.7817,0 1/1:97:0,97:0:0:97:3475:-312.961,-29.1999,0 1/1:177:0,177:0:0:177:6323:-569.163,-53.2823,0 1/1:101:0,101:0:0:101:3636:-327.443,-30.404,0 0/1:210:107,103:107:3828:103:3664:-266.748,0,-281.501 1/1:159:1,157:1:36:157:5622:-502.501,-44.3243,0 0/1:175:80,95:80:2860:95:3388:-252.455,0,-204.958 0/0:210:210,0:210:7484:0:0:0,-63.2163,-673.608 0/1:296:119,177:119:4272:177:6326:-480.325,0,-295.552 0/1:22:9,13:9:324:13:468:-35.837,0,-22.8832 0/1:18:10,8:10:360:8:288:-20.8489,0,-27.3258 0/1:21:10,11:10:360:11:392:-29.2984,0,-26.4227 0/1:148:62,86:62:2228:86:3069:-231.885,0,-156.229 0/1:141:58,83:58:2069:83:2957:-223.917,0,-144.034 1/1:155:0,155:0:0:155:5548:-499.445,-46.6597,0 1/1:72:0,72:0:0:72:2566:-231.189,-21.6742,0 1/1:72:0,72:0:0:72:2575:-231.998,-21.6742,0 0/1:119:62,57:62:2213:57:2010:-145.347,0,-163.61 0/1:76:30,46:30:1080:46:1616:-122.848,0,-74.635 1/1:110:0,110:0:0:110:3934:-354.252,-33.1133,0 1/1:58:0,58:0:0:58:2071:-186.66,-17.4597,0 chr01 2073266 . C G 13521.8 PASS AB=0.449709;ABP=29.438;AC=12;AF=0.285714;AN=42;AO=757;CIGAR=1X;DP=2518;DPB=2518;DPRA=1.24481;EPP=1646.81;EPPR=3820.46;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9977;NS=21;NUMALT=1;ODDS=20.4268;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26943;QR=62470;RO=1758;RPL=757;RPP=1646.81;RPPR=3820.46;RPR=0;RUN=1;SAF=757;SAP=1646.81;SAR=0;SRF=1758;SRP=3820.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:115:113,2:113:4008:2:72:0,-27.7817,-354.074 0/0:88:88,0:88:3117:0:0:0,-26.4906,-280.755 0/0:179:179,0:179:6360:0:0:0,-53.8844,-572.491 0/0:101:101,0:101:3593:0:0:0,-30.404,-323.577 0/1:204:102,102:102:3633:102:3634:-265.855,0,-265.764 0/0:153:152,1:152:5432:1:36:0,-42.4593,-485.41 0/1:171:90,81:90:3215:81:2847:-204.99,0,-238.096 1/1:214:0,213:0:0:213:7566:-680.622,-64.1194,0 0/1:292:171,121:171:6043:121:4332:-302.155,0,-456.078 0/1:20:12,8:12:432:8:288:-20.2468,0,-33.2006 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.974 0/1:19:9,10:9:324:10:356:-26.6617,0,-23.7863 0/1:145:86,59:86:3044:59:2116:-147.059,0,-230.54 0/1:144:84,60:84:2972:60:2145:-149.968,0,-224.364 0/0:152:151,0:151:5319:0:0:0,-45.4555,-478.486 0/0:71:71,0:71:2536:0:0:0,-21.3731,-228.491 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.809 0/1:118:58,60:58:2075:60:2144:-157.706,0,-151.498 0/1:74:44,30:44:1529:30:1047:-72.2619,0,-115.621 0/0:110:109,0:109:3890:0:0:0,-32.8123,-350.083 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.587 chr01 2073352 . G A 26016.9 PASS AB=0.566073;ABP=43.4705;AC=30;AF=0.714286;AN=42;AO=2057;CIGAR=1X;DP=2591;DPB=2591;DPRA=1.91288;EPP=4435.05;EPPR=1160.41;GTI=2;LEN=1;MEANALT=1.05;MQM=26.4346;MQMR=36.0469;NS=21;NUMALT=1;ODDS=7.09949;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73773;QR=19026;RO=533;RPL=4;RPP=4435.05;RPPR=1160.41;RPR=2053;RUN=1;SAF=0;SAP=4469.73;SAR=2057;SRF=0;SRP=1160.41;SRR=533;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:1,146:1:36:146:5228:-333.208,-40.9524,0 1/1:179:1,178:1:27:178:6389:-419.321,-51.2358,0 1/1:144:0,144:0:0:144:5165:-333.001,-43.3483,0 1/1:191:1,190:1:32:190:6832:-436.433,-54.416,0 0/1:269:126,143:126:4493:143:5124:-249.062,0,-292.172 1/1:180:1,179:1:36:179:6424:-422.529,-50.8864,0 0/1:157:64,93:64:2287:93:3344:-174.709,0,-138.386 0/0:66:66,0:66:2353:0:0:0,-19.868,-193.365 0/1:153:71,81:71:2535:81:2901:-139.884,0,-165.343 0/1:10:3,7:3:108:7:252:-13.9407,0,-5.45621 0/1:4:3,1:3:108:1:36:-1.44448,0,-7.2565 0/1:38:22,16:22:788:16:576:-27.3961,0,-52.9919 0/1:130:50,80:50:1787:80:2876:-146.192,0,-109.162 0/1:142:52,90:52:1863:90:3224:-166.103,0,-110.967 1/1:202:0,202:0:0:202:7241:-465.77,-60.8081,0 1/1:105:0,105:0:0:105:3753:-242.401,-31.6082,0 1/1:172:0,172:0:0:172:6171:-397.152,-51.7772,0 0/1:82:42,40:42:1493:40:1432:-70.8078,0,-98.0364 0/1:82:29,53:29:1044:53:1900:-99.4913,0,-62.1902 1/1:87:1,86:1:36:86:3092:-201.906,-22.8906,0 1/1:51:0,51:0:0:51:1813:-120.991,-15.3525,0 chr01 2073363 . T A 7034.76 PASS AB=0.42654;ABP=52.4602;AC=12;AF=0.285714;AN=42;AO=519;CIGAR=1X;DP=2587;DPB=2587;DPRA=0.885185;EPP=1130;EPPR=4203.15;GTI=2;LEN=1;MEANALT=1;MQM=36.0559;MQMR=26.4903;NS=21;NUMALT=1;ODDS=8.70532;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18563;QR=74186;RO=2068;RPL=0;RPP=1130;RPPR=4203.15;RPR=519;RUN=1;SAF=0;SAP=1130;SAR=519;SRF=0;SRP=4493.62;SRR=2068;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:149:148,1:148:5304:1:36:0,-41.5544,-339.643 0/0:180:179,1:179:6412:1:36:0,-50.8864,-423.126 0/0:145:145,0:145:5204:0:0:0,-43.6493,-336.227 0/0:194:193,1:193:6917:1:36:0,-55.0537,-442.458 0/1:265:143,122:143:5113:122:4348:-281.32,0,-249.717 0/0:183:182,1:182:6540:1:36:0,-51.7895,-429.802 0/1:157:93,64:93:3340:64:2279:-138.347,0,-175.076 1/1:63:0,63:0:0:63:2256:-186.536,-18.9649,0 0/1:151:81,70:81:2900:70:2520:-163.213,0,-140.533 0/1:8:6,2:6:216:2:72:-3.242,0,-12.1591 0/1:4:1,3:1:36:3:108:-7.2565,0,-1.44448 0/1:37:16,21:16:576:21:752:-50.2832,0,-27.6971 0/1:129:81,48:81:2897:48:1712:-103.361,0,-148.276 0/1:141:90,51:90:3232:51:1832:-108.656,0,-166.505 0/0:202:202,0:202:7252:0:0:0,-60.8081,-466.562 0/0:105:105,0:105:3776:0:0:0,-31.6081,-243.401 0/0:172:172,0:172:6176:0:0:0,-51.7772,-397.81 0/1:80:40,40:40:1436:40:1424:-93.302,0,-71.4709 0/1:83:54,29:54:1944:29:1044:-61.8892,0,-101.615 0/0:88:86,2:86:3092:2:72:0,-20.2225,-199.365 0/0:51:51,0:51:1823:0:0:0,-15.3525,-121.263 chr01 2073388 . CCC GAT,GCG 35828.6 PASS AB=0.56338,0.433803;ABP=40.17,43.5465;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2048,533;CIGAR=3X,1X1M1X;DP=2593;DPB=2593.33;DPRA=1.88507,0.797691;EPP=4450.19,1160.41;EPPR=0;GTI=2;LEN=3,3;MEANALT=2.2,2.26667;MQM=26.2905,36.0263;MQMR=0;NS=21;NUMALT=2;ODDS=6.68193;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=70989,18800;QR=0;RO=0;RPL=2048,533;RPP=4450.19,1160.41;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4450.19,1160.41;SAR=2048,533;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:0,145,1:0:0:145,1:5067,36:-331.634,-43.6494,0,-328.966,-40.9357,-328.665 1/1:178:0,177,1:0:0:177,1:6052,36:-411.809,-53.2823,0,-409.141,-50.2843,-408.84 1/1:143:0,143,0:0:0:143,0:4964,0:-326.671,-43.0473,0,-326.671,-43.0473,-326.671 1/1:190:0,188,0:0:0:188,0:6498,0:-427.408,-56.5936,0,-427.408,-56.5936,-427.408 1/2:271:0,142,128:0:0:142,128:4921,4530:-618.047,-337.388,-294.642,-280.697,0,-242.165 1/1:183:0,182,1:0:0:182,1:6355,36:-428.719,-54.7875,0,-426.051,-51.7895,-425.75 1/2:157:0,92,64:0:0:92,64:3221,2230:-352.58,-162.974,-135.279,-189.655,0,-170.389 2/2:67:0,0,66:0:0:0,66:0,2341:-193.075,-193.075,-193.075,-19.868,-19.868,0 1/2:155:0,83,72:0:0:83,72:2857,2534:-352.896,-189.888,-164.902,-163.3,0,-141.626 1/2:9:0,8,1:0:0:8,1:274,36:-19.3449,-2.99799,-0.589755,-16.6692,0,-16.3681 1/2:4:0,1,3:0:0:1,3:36,106:-9.61404,-7.5405,-7.23947,-2.34757,0,-1.44448 1/2:37:0,15,22:0:0:15,22:519,786:-88.5376,-57.6869,-53.1715,-31.1375,0,-24.5149 1/2:130:0,80,49:0:0:80,49:2756,1717:-286.045,-128.066,-103.983,-157.942,0,-143.192 1/2:141:0,88,53:0:0:88,53:2981,1891:-313.518,-140.357,-113.867,-173.459,0,-157.505 1/1:205:0,201,0:0:0:201,0:6981,0:-458.282,-60.507,0,-458.282,-60.507,-458.282 1/1:105:0,105,0:0:0:105,0:3647,0:-239.927,-31.6082,0,-239.927,-31.6082,-239.927 1/1:172:0,172,0:0:0:172,0:5992,0:-393.207,-51.7772,0,-393.207,-51.7772,-393.207 1/2:82:0,40,42:0:0:40,42:1389,1464:-190.975,-108.849,-96.8079,-82.416,0,-69.7727 1/2:79:0,51,28:0:0:51,28:1773,985:-175.604,-74.4413,-59.0887,-101.464,0,-93.0351 1/1:87:0,85,2:0:0:85,2:2931,72:-200.123,-25.5876,0,-194.785,-19.9215,-194.183 1/1:51:0,50,0:0:0:50,0:1775,0:-118.47,-15.0515,0,-118.47,-15.0515,-118.47 chr01 2073458 . GTTGCAAT GTTACAAT,ATTACAAG 45980.7 PASS AB=0.516684,0.475228;ABP=5.40133,8.28199;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1469,619;CIGAR=3M1X4M,1X2M1X3M1X;DP=2103;DPB=2103.25;DPRA=0.685315,1.38979;EPP=3013.11,1270.12;EPPR=0;GTI=0;LEN=1,8;MEANALT=2.45,2.6;MQM=59.9939,58.7835;MQMR=0;NS=21;NUMALT=2;ODDS=15.0063;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,14;PQR=0;PRO=0;QA=52474,21785;QR=0;RO=0;RPL=20,9;RPP=3021.55,1270.12;RPPR=0;RPR=1449,610;RUN=1,1;SAF=1468,619;SAP=3184.22,1347.15;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,76,0:0:0:76,0:2694,0:-242.411,-22.8783,0,-242.411,-22.8783,-242.411 1/1:76:0,74,0:0:0:74,0:2633,0:-236.895,-22.2762,0,-236.895,-22.2762,-236.895 1/1:105:0,103,2:0:0:103,2:3685,72:-331.491,-31.0061,0,-325.616,-24.7714,-325.014 1/1:129:0,129,0:0:0:129,0:4602,0:-414.342,-38.8329,0,-414.342,-38.8329,-414.342 1/2:160:0,80,78:0:0:80,78:2841,2765:-456.734,-225.242,-201.16,-231.564,0,-208.083 1/1:128:0,126,1:0:0:126,1:4509,36:-405.695,-37.9298,0,-402.759,-34.9134,-402.458 1/2:113:0,63,49:0:0:63,49:2252,1701:-321.608,-137.98,-119.015,-183.677,0,-168.927 2/2:143:0,0,143:0:0:0,143:0,5011:-450.678,-450.678,-450.678,-43.0473,-43.0473,0 1/2:154:0,67,87:0:0:67,87:2359,3060:-441.092,-249.046,-228.877,-192.253,0,-166.063 1/2:40:0,22,18:0:0:22,18:788,639:-116.196,-51.9281,-45.3054,-64.6221,0,-59.2036 1/2:12:0,8,4:0:0:8,4:288,141:-35.1954,-11.6885,-9.28021,-23.8592,0,-22.655 1/2:60:0,35,25:0:0:35,25:1256,883:-174.716,-72.2623,-61.7263,-102.809,0,-95.2835 1/2:88:0,38,50:0:0:38,50:1349,1764:-253.842,-143.927,-132.487,-110.269,0,-95.2176 1/2:92:0,56,34:0:0:56,34:2000,1194:-260.264,-97.1988,-80.3411,-163.127,0,-152.892 1/1:127:0,126,1:0:0:126,1:4505,36:-405.257,-37.9298,0,-402.32,-34.6325,-402.019 1/1:77:0,76,0:0:0:76,0:2724,0:-245.053,-22.8783,0,-245.053,-22.8783,-245.053 1/1:141:0,138,2:0:0:138,2:4937,72:-444.168,-41.5421,0,-438.293,-35.5674,-437.691 1/2:199:0,99,99:0:0:99,99:3552,3506:-575.03,-285.3,-255.498,-289.765,0,-259.963 1/2:71:0,43,26:0:0:43,26:1544,905:-199.528,-73.5716,-60.6273,-125.954,0,-118.127 1/1:48:0,48,0:0:0:48,0:1728,0:-155.805,-14.4494,0,-155.805,-14.4494,-155.805 1/1:63:0,62,0:0:0:62,0:2228,0:-200.413,-18.6639,0,-200.413,-18.6639,-200.413 chr01 2073482 . C G 28671.4 PASS AB=0.461689;ABP=29.1326;AC=12;AF=0.285714;AN=42;AO=1225;CIGAR=1X;DP=4483;DPB=4483;DPRA=1.09487;EPP=2663.06;EPPR=7068.98;GTI=0;LEN=1;MEANALT=1;MQM=59.418;MQMR=59.9785;NS=21;NUMALT=1;ODDS=26.2817;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43493;QR=115731;RO=3258;RPL=597;RPP=4.7138;RPPR=76.4751;RPR=628;RUN=1;SAF=597;SAP=4.7138;SAR=628;SRF=1462;SRP=77.3629;SRR=1796;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:205:203,2:203:7180:2:72:0,-54.8744,-639.423 0/0:161:161,0:161:5727:0:0:0,-48.4658,-515.462 0/0:186:184,2:184:6581:2:68:0,-49.5339,-585.912 0/0:359:359,0:359:12766:0:0:0,-108.07,-1148.77 0/1:431:244,187:244:8703:187:6642:-468.025,0,-653.502 0/0:320:318,2:318:11355:2:72:0,-89.4938,-1014.99 0/1:302:146,156:146:5180:156:5517:-405.515,0,-375.429 1/1:267:0,267:0:0:267:9460:-850.866,-80.375,0 0/1:345:161,184:161:5685:184:6541:-484.433,0,-407.916 0/1:49:27,22:27:941:22:792:-56.2966,0,-70.251 0/1:14:8,6:8:273:6:212:-15.0674,0,-20.6858 0/1:98:58,40:58:2076:40:1432:-99.6767,0,-157.61 0/1:226:112,114:112:3987:114:4070:-298.363,0,-290.961 0/1:143:88,55:88:3064:55:1945:-132.029,0,-232.94 0/0:275:274,1:274:9771:1:36:0,-79.185,-875.732 0/0:159:159,0:159:5678:0:0:0,-47.8638,-511.139 0/0:209:207,2:207:7353:2:72:0,-56.0785,-654.98 0/1:265:137,128:137:4821:128:4531:-327.816,0,-354.275 0/1:176:122,54:122:4340:54:1927:-120.725,0,-337.794 0/0:179:176,3:176:6253:3:104:0,-44.1816,-553.153 0/0:114:114,0:114:3997:0:0:0,-34.3174,-359.921 chr01 2074606 . GAAA AAAG,AAAA 24046.1 PASS AB=0.4903,0.507937;ABP=3.4737,3.32051;AC=31,11;AF=0.738095,0.261905;AN=42;AO=788,358;CIGAR=1X2M1X,1X3M;DP=1152;DPB=1152.75;DPRA=0.822727,1.29032;EPP=1705.46,780.397;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.9,2.30769;MQM=59.6104,59.8715;MQMR=0;NS=21;NUMALT=2;ODDS=2.15493;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=27559,12806;QR=0;RO=0;RPL=787,358;RPP=1705.46,780.397;RPPR=0;RPR=1,0;RUN=1,1;SAF=788,358;SAP=1714.13,780.397;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:84:0,81,1:0:0:81,1:2812,36:-252.881,-24.3834,0,-249.944,-21.4144,-249.643 1/1:39:0,37,2:0:0:37,2:1304,72:-117.3,-11.1381,0,-111.425,-4.90345,-110.823 1/1:47:0,47,0:0:0:47,0:1662,0:-149.859,-14.1484,0,-149.859,-14.1484,-149.859 1/1:51:0,51,0:0:0:51,0:1783,0:-160.749,-15.3525,0,-160.749,-15.3525,-160.749 1/2:124:0,54,69:0:0:54,69:1902,2465:-355.944,-201.099,-184.843,-154.967,0,-134.196 1/1:37:0,37,0:0:0:37,0:1286,0:-116.039,-11.1381,0,-116.039,-11.1381,-116.039 1/2:97:0,43,54:0:0:43,54:1496,1935:-279.651,-158.052,-145.108,-121.835,0,-105.579 2/2:66:0,0,66:0:0:0,66:0,2355:-212.152,-212.152,-212.152,-19.868,-19.868,0 1/2:122:0,54,68:0:0:54,68:1865,2433:-349.389,-198.727,-182.472,-151.012,0,-130.542 1/1:5:0,5,0:0:0:5,0:168,0:-15.4493,-1.50515,0,-15.4493,-1.50515,-15.4493 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/2:13:0,3,10:0:0:3,10:96,356:-37.0967,-29.3709,-28.4679,-8.05389,0,-5.04359 1/2:73:0,44,29:0:0:44,29:1532,1044:-210.083,-85.5449,-72.2996,-124.893,0,-116.164 1/2:46:0,22,24:0:0:22,24:775,850:-132.674,-69.5935,-62.9708,-63.4332,0,-56.2084 1/1:99:0,99,0:0:0:99,0:3476,0:-313.047,-29.802,0,-313.047,-29.802,-313.047 1/1:48:0,48,0:0:0:48,0:1686,0:-152.022,-14.4494,0,-152.022,-14.4494,-152.022 1/1:38:0,37,0:0:0:37,0:1274,0:-114.657,-11.1381,0,-114.657,-11.1381,-114.657 1/2:45:0,26,19:0:0:26,19:935,684:-132.421,-56.1423,-48.3155,-76.638,0,-70.9184 1/2:42:0,31,11:0:0:31,11:1084,396:-120.848,-32.6714,-23.3395,-88.5336,0,-85.2222 1/1:47:0,47,0:0:0:47,0:1646,0:-148.413,-14.1484,0,-148.413,-14.1484,-148.413 1/1:24:0,21,1:0:0:21,1:741,36:-66.6641,-6.32163,0,-63.7263,-3.37405,-63.4252 chr01 2074626 . TTATTTG TTGTTCG,TTGTTCA 23093.2 PASS AB=0.480287,0.507168;ABP=4.8938,3.25936;AC=30,12;AF=0.714286,0.285714;AN=42;AO=768,349;CIGAR=2M1X2M1X1M,2M1X2M2X;DP=1130;DPB=1130;DPRA=0.832812,1.18147;EPP=1670.7,760.854;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.15,2.53846;MQM=59.694,59.8711;MQMR=0;NS=21;NUMALT=2;ODDS=0.260142;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26831,12148;QR=0;RO=0;RPL=768,349;RPP=1670.7,760.854;RPPR=0;RPR=0,0;RUN=1,1;SAF=768,349;SAP=1670.7,760.854;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,81,1:0:0:81,1:2804,34:-252.161,-24.3834,0,-249.403,-21.2855,-249.102 1/1:39:0,37,1:0:0:37,1:1320,36:-118.764,-11.1381,0,-115.827,-8.17575,-115.526 1/1:46:0,45,0:0:0:45,0:1570,0:-141.28,-13.5464,0,-141.28,-13.5464,-141.28 1/1:50:0,50,0:0:0:50,0:1740,0:-156.882,-15.0515,0,-156.882,-15.0515,-156.882 1/2:123:0,53,68:0:0:53,68:1868,2362:-344.103,-192.011,-176.057,-152.087,0,-131.617 1/1:37:0,37,0:0:0:37,0:1302,0:-117.481,-11.1381,0,-117.481,-11.1381,-117.481 1/2:93:0,41,50:0:0:41,50:1432,1735:-257.568,-141.099,-128.757,-116.534,0,-101.482 2/2:64:0,0,64:0:0:0,64:0,2228:-200.739,-200.739,-200.739,-19.2659,-19.2659,0 1/2:122:0,52,69:0:0:52,69:1816,2390:-342.101,-194.384,-178.73,-147.863,0,-127.092 1/2:5:0,2,3:0:0:2,3:65,102:-13.8524,-8.61329,-8.01123,-5.57,0,-4.66691 1/2:5:0,1,4:0:0:1,4:36,143:-14.9552,-12.0173,-11.7163,-3.29724,0,-2.09312 1/2:12:0,2,10:0:0:2,10:72,351:-34.7937,-28.9174,-28.3153,-6.23466,0,-3.22436 1/2:69:0,40,28:0:0:40,28:1367,987:-191.342,-80.442,-68.4008,-110.975,0,-102.546 1/2:44:0,21,23:0:0:21,23:744,809:-126.816,-66.2061,-59.8845,-60.9628,0,-54.0391 1/1:98:0,98,0:0:0:98,0:3441,0:-309.898,-29.5009,0,-309.898,-29.5009,-309.898 1/1:48:0,45,0:0:0:45,0:1565,0:-140.782,-13.5464,0,-140.782,-13.5464,-140.782 1/1:37:0,37,0:0:0:37,0:1296,0:-116.884,-11.1381,0,-116.884,-11.1381,-116.884 1/2:44:0,26,18:0:0:26,18:873,632:-122.465,-51.7659,-43.9391,-71.0441,0,-65.6255 1/2:41:0,30,10:0:0:30,10:1062,339:-113.983,-27.4683,-18.4374,-86.499,0,-83.4887 1/1:47:0,46,0:0:0:46,0:1625,0:-146.176,-13.8474,0,-146.176,-13.8474,-146.176 1/1:24:0,24,0:0:0:24,0:833,0:-75.2611,-7.22472,0,-75.2611,-7.22472,-75.2611 chr01 2074765 . T C 8424.62 PASS AB=0.519499;ABP=5.38138;AC=12;AF=0.285714;AN=42;AO=471;CIGAR=1X;DP=1739;DPB=1739;DPRA=0.877159;EPP=1025.77;EPPR=2747.76;GTI=0;LEN=1;MEANALT=1;MQM=59.9512;MQMR=59.9826;NS=21;NUMALT=1;ODDS=5.11067;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16751;QR=45436;RO=1268;RPL=0;RPP=1025.77;RPPR=2747.76;RPR=471;RUN=1;SAF=0;SAP=1025.77;SAR=471;SRF=0;SRP=2756.44;SRR=1268;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:141:141,0:141:5060:0:0:0,-42.4452,-455.544 0/0:94:94,0:94:3380:0:0:0,-28.2968,-304.414 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.137 0/0:109:109,0:109:3888:0:0:0,-32.8123,-350.113 0/1:202:89,113:89:3200:113:4045:-303.429,0,-227.414 0/0:79:79,0:79:2811:0:0:0,-23.7814,-253.23 0/1:143:54,89:54:1940:89:3133:-239.145,0,-131.829 1/1:96:0,96:0:0:96:3422:-308.194,-28.8989,0 0/1:99:58,41:58:2080:41:1476:-103.334,0,-157.668 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:29:10,19:10:360:19:676:-52.4381,0,-24.0144 0/1:97:50,47:50:1796:47:1672:-121.566,0,-132.722 0/1:60:33,27:33:1180:27:953:-68.0119,0,-88.3599 0/0:154:153,1:153:5500:1:36:0,-42.7603,-491.525 0/0:54:53,1:53:1908:1:36:0,-12.6573,-168.399 0/0:89:89,0:89:3183:0:0:0,-26.7917,-286.693 0/1:48:27,21:27:964:21:739:-52.3829,0,-72.6274 0/1:32:21,11:21:743:11:387:-25.533,0,-57.5604 0/0:73:73,0:73:2608:0:0:0,-21.9752,-234.968 0/0:67:67,0:67:2395:0:0:0,-20.169,-215.806 chr01 2074783 . G A 26716.9 PASS AB=0.476454;ABP=6.48706;AC=30;AF=0.714286;AN=42;AO=1262;CIGAR=1X;DP=1738;DPB=1738;DPRA=0.864737;EPP=2743.41;EPPR=1010.74;GTI=0;LEN=1;MEANALT=1;MQM=59.9857;MQMR=59.9517;NS=21;NUMALT=1;ODDS=5.66163;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45040;QR=17011;RO=476;RPL=1262;RPP=2743.41;RPPR=1010.74;RPR=0;RUN=1;SAF=0;SAP=2743.41;SAR=1262;SRF=0;SRP=1036.63;SRR=476;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:141:1,140:1:36:140:5000:-446.551,-38.847,0 1/1:97:0,97:0:0:97:3438:-309.633,-29.1999,0 1/1:65:0,65:0:0:65:2336:-210.499,-19.567,0 1/1:107:0,107:0:0:107:3808:-342.918,-32.2102,0 0/1:201:113,88:113:4042:88:3152:-223.398,0,-303.46 1/1:81:0,81:0:0:81:2902:-261.416,-24.3834,0 0/1:143:90,53:90:3199:53:1881:-126.52,0,-245.084 0/0:95:95,0:95:3391:0:0:0,-28.5978,-305.405 0/1:98:41,57:41:1464:57:2040:-154.371,0,-102.555 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:5:4,1:4:131:1:36:-2.09312,0,-10.6083 0/1:29:20,9:20:720:9:324:-20.776,0,-56.3989 0/1:100:48,52:48:1728:52:1864:-137.936,0,-125.702 0/1:61:28,33:28:1008:33:1146:-85.0758,0,-72.4457 1/1:154:1,153:1:36:153:5467:-488.56,-42.7603,0 1/1:52:0,52:0:0:52:1848:-166.598,-15.6536,0 1/1:87:0,87:0:0:87:3105:-279.676,-26.1896,0 0/1:48:21,27:21:756:27:959:-72.1766,0,-53.9178 0/1:33:11,22:11:392:22:792:-61.6717,0,-25.6861 1/1:71:0,71:0:0:71:2543:-229.12,-21.3731,0 1/1:66:1,65:1:36:65:2327:-206.091,-16.2697,0 chr01 2077727 . G A 23808.7 PASS AB=0.501244;ABP=3.0211;AC=30;AF=0.714286;AN=42;AO=1242;CIGAR=1X;DP=1720;DPB=1720;DPRA=1.12808;EPP=2699.98;EPPR=1038.8;GTI=0;LEN=1;MEANALT=1.05;MQM=52.2118;MQMR=59.9392;NS=21;NUMALT=1;ODDS=6.06959;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42048;QR=17074;RO=477;RPL=0;RPP=2699.98;RPPR=1038.8;RPR=1242;RUN=1;SAF=1242;SAP=2699.98;SAR=0;SRF=477;SRP=1038.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:0,94:0:0:94:3140:-281.645,-28.2968,0 1/1:88:2,86:2:57:86:2928:-256.234,-21.0773,0 1/1:110:0,109:0:0:109:3756:-336.653,-32.8123,0 1/1:90:0,90:0:0:90:2987:-268.428,-27.0927,0 0/1:146:74,72:74:2637:72:2463:-177.613,0,-193.625 1/1:66:0,66:0:0:66:2199:-196.09,-19.868,0 0/1:145:74,71:74:2652:71:2382:-168.194,0,-195.277 0/0:73:73,0:73:2620:0:0:0,-21.9752,-236.047 0/1:183:90,93:90:3236:93:3187:-231.383,0,-236.372 0/1:9:3,6:3:104:6:216:-17.0315,0,-6.99354 0/1:5:4,1:4:140:1:36:-2.07362,0,-11.1128 0/1:26:16,10:16:576:10:332:-22.2833,0,-44.3482 0/1:59:27,32:27:968:32:1071:-78.5337,0,-69.6766 0/1:71:43,28:43:1544:28:955:-64.4805,0,-117.88 1/1:146:1,145:1:36:145:4913:-436.952,-40.3521,0 1/1:86:0,86:0:0:86:2885:-259.382,-25.8886,0 1/1:67:0,67:0:0:67:2275:-204.637,-20.169,0 0/1:103:46,57:46:1644:57:2002:-148.999,0,-117.243 0/1:57:24,33:24:860:33:1092:-81.2363,0,-60.5631 1/1:56:0,56:0:0:56:1877:-168.488,-16.8577,0 1/1:40:0,40:0:0:40:1352:-121.324,-12.0412,0 chr01 2077758 . CCCCA TCCCG 25672.8 PASS AB=0.510253;ABP=3.7673;AC=30;AF=0.714286;AN=42;AO=1282;CIGAR=1X3M1X;DP=1772;DPB=1772;DPRA=1.1637;EPP=2786.84;EPPR=1043.15;GTI=0;LEN=5;MEANALT=1.5;MQM=52.241;MQMR=59.9395;NS=21;NUMALT=1;ODDS=4.51433;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44607;QR=16496;RO=479;RPL=1282;RPP=2786.84;RPPR=1043.15;RPR=0;RUN=1;SAF=1282;SAP=2786.84;SAR=0;SRF=479;SRP=1043.15;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,99:0:0:99:3474:-311.558,-29.802,0 1/1:92:2,89:2:67:89:3132:-273.728,-21.3811,0 1/1:111:0,111:0:0:111:3883:-348.343,-33.4143,0 1/1:95:0,94:0:0:94:3261:-292.787,-28.2968,0 0/1:150:76,74:76:2623:74:2553:-184.539,0,-191.167 1/1:68:0,68:0:0:68:2376:-212.04,-20.47,0 0/1:147:73,74:73:2544:74:2589:-187.052,0,-184.962 0/0:73:72,0:72:2516:0:0:0,-21.6742,-226.334 0/1:190:91,99:91:3139:99:3418:-250.043,0,-225.546 0/1:10:3,7:3:99:7:227:-17.7013,0,-6.2271 0/1:6:4,2:4:140:2:63:-4.16188,0,-10.699 0/1:26:16,10:16:543:10:355:-24.3612,0,-41.3647 0/1:60:27,31:27:937:31:1077:-79.1724,0,-66.8305 0/1:74:45,29:45:1547:29:1016:-69.0855,0,-117.241 1/1:151:1,148:1:36:148:5168:-460.094,-41.602,0 1/1:85:0,83:0:0:83:2898:-260.374,-24.9855,0 1/1:69:0,68:0:0:68:2356:-211.658,-20.47,0 0/1:105:45,60:45:1521:60:2077:-155.206,0,-105.568 0/1:61:24,37:24:784:37:1274:-96.3512,0,-52.4987 1/1:59:0,59:0:0:59:2011:-180.692,-17.7608,0 1/1:40:0,40:0:0:40:1399:-125.505,-12.0412,0 chr01 2077861 . A G 32463.4 PASS AB=0.587778;ABP=63.2421;AC=29;AF=0.690476;AN=42;AO=1521;CIGAR=1X;DP=2004;DPB=2004;DPRA=1.86621;EPP=3236.7;EPPR=1015.2;GTI=1;LEN=1;MEANALT=1.05263;MQM=58.9678;MQMR=59.8195;NS=21;NUMALT=1;ODDS=7.46683;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54284;QR=17253;RO=482;RPL=1513;RPP=3236.7;RPPR=1015.2;RPR=8;RUN=1;SAF=0;SAP=3305.82;SAR=1521;SRF=0;SRP=1049.66;SRR=482;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106:0:0:106:3769:-339.013,-31.9092,0 1/1:84:0,84:0:0:84:3023:-272.188,-25.2865,0 1/1:146:1,144:1:36:144:5091:-454.76,-40.336,0 1/1:144:0,144:0:0:144:5128:-461.343,-43.3483,0 0/1:203:79,124:79:2817:124:4420:-336.581,0,-192.631 1/1:72:0,72:0:0:72:2567:-231.12,-21.6742,0 0/1:119:55,64:55:1976:64:2300:-171.386,0,-141.609 0/0:102:102,0:102:3651:0:0:0,-30.7051,-328.792 0/1:201:82,119:82:2917:119:4244:-321.065,0,-202.257 0/1:6:4,2:4:144:2:72:-5.02796,0,-11.5074 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:26:13,13:13:468:13:468:-34.614,0,-34.6329 0/1:92:32,60:32:1148:60:2140:-165.037,0,-75.9351 0/1:101:40,61:40:1440:61:2170:-165.123,0,-99.4937 1/1:167:1,166:1:36:166:5947:-531.571,-46.6737,0 1/1:81:2,79:2:72:79:2823:-247.47,-17.5467,0 1/1:96:0,96:0:0:96:3418:-307.809,-28.8989,0 0/1:67:45,22:45:1620:22:788:-51.0309,0,-125.921 0/1:85:21,64:21:748:64:2296:-181.288,0,-42.0577 1/1:56:0,56:0:0:56:2000:-180.192,-16.8577,0 1/1:45:0,45:0:0:45:1620:-146.046,-13.5464,0 chr01 2078310 . T C 6824.72 PASS AB=0.451872;ABP=18.0596;AC=12;AF=0.285714;AN=42;AO=424;CIGAR=1X;DP=1547;DPB=1547;DPRA=1.30718;EPP=923.715;EPPR=2441.57;GTI=0;LEN=1;MEANALT=1;MQM=40.6745;MQMR=42.8255;NS=21;NUMALT=1;ODDS=0.230222;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15150;QR=40206;RO=1123;RPL=0;RPP=923.715;RPPR=2441.57;RPR=424;RUN=1;SAF=424;SAP=923.715;SAR=0;SRF=1123;SRP=2441.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:76,0:76:2724:0:0:0,-22.8783,-239.129 0/0:57:57,0:57:2044:0:0:0,-17.1587,-179.114 0/0:105:105,0:105:3723:0:0:0,-31.6081,-326.724 0/0:66:66,0:66:2361:0:0:0,-19.868,-208.222 0/1:173:99,74:99:3560:74:2642:-175.536,0,-259.701 0/0:41:41,0:41:1476:0:0:0,-12.3422,-130.185 0/1:82:40,42:40:1440:42:1508:-106.956,0,-101.65 1/1:85:0,85:0:0:85:3048:-264.506,-25.5876,0 0/1:106:61,45:61:2184:45:1593:-106.089,0,-160.518 0/1:14:4,10:4:125:10:360:-27.3752,0,-7.088 0/1:4:3,1:3:108:1:36:-2.27658,0,-8.6547 0/1:18:12,6:12:428:6:216:-13.8331,0,-32.6447 0/1:51:26,25:26:928:25:883:-61.5354,0,-66.7783 0/1:106:60,46:60:2152:46:1641:-110.306,0,-157.016 0/0:150:149,1:149:5356:1:36:0,-41.7,-467.967 0/0:66:66,0:66:2356:0:0:0,-19.868,-207.397 0/0:85:85,0:85:3052:0:0:0,-25.5875,-268.295 0/1:130:61,69:61:2173:69:2471:-175.095,0,-151.36 0/1:64:44,20:44:1576:20:716:-42.6327,0,-119.588 0/0:17:17,0:17:604:0:0:0,-5.11751,-53.5742 0/0:51:51,0:51:1836:0:0:0,-15.3525,-162.02 chr01 2078448 . CGGT CGGC,TGGC 42386.2 PASS AB=0.505895,0.484459;ABP=3.29192,4.96765;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1405,566;CIGAR=3M1X,1X2M1X;DP=1989;DPB=1989.25;DPRA=0.822368,1.00914;EPP=3010.65,1232.06;EPPR=11.6962;GTI=0;LEN=1,4;MEANALT=2.1,2.58333;MQM=59.5616,54.3198;MQMR=60;NS=21;NUMALT=2;ODDS=0.778416;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=50288,19785;QR=140;RO=4;RPL=1400,566;RPP=3010.65,1232.06;RPPR=11.6962;RPR=5,0;RUN=1,1;SAF=0,0;SAP=3053.93,1232.06;SAR=1405,566;SRF=0;SRP=11.6962;SRR=4;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:0,130,0:0:0:130,0:4637,0:-417.474,-39.1339,0,-417.474,-39.1339,-417.474 1/1:72:0,71,0:0:0:71,0:2528,0:-227.288,-21.3731,0,-227.288,-21.3731,-227.288 1/1:71:1,70,0:1:34:70,0:2504,0:-222.21,-17.9742,0,-222.511,-21.0721,-225.269 1/1:128:2,125,0:2:70:125,0:4464,0:-394.984,-31.9336,0,-395.586,-37.6288,-401.281 1/2:147:0,71,75:0:0:71,75:2548,2644:-422.591,-214.76,-193.387,-207.826,0,-185.249 1/1:107:0,107,0:0:0:107,0:3824,0:-344.286,-32.2102,0,-344.286,-32.2102,-344.286 1/2:191:0,103,86:0:0:103,86:3690,3022:-545.888,-244.972,-213.966,-300.93,0,-275.041 2/2:114:0,0,113:0:0:0,113:0,3928:-352.055,-352.055,-352.055,-34.0164,-34.0164,0 1/2:128:0,57,67:0:0:57,67:2048,2366:-359.514,-192.441,-175.282,-167.085,0,-146.916 1/2:8:0,7,1:0:0:7,1:252,36:-23.8499,-3.29214,-1.18493,-20.9171,0,-20.6161 1/2:7:0,4,3:0:0:4,3:140,102:-19.9922,-8.59645,-7.39233,-11.7395,0,-10.8364 1/2:36:0,16,19:0:0:16,19:568,631:-97.3281,-51.0364,-46.2199,-46.3421,0,-40.6225 1/2:104:1,39,64:1:36:39,64:1392,2242:-292.396,-179.248,-170.445,-110.506,0,-94.1779 1/2:181:0,96,85:0:0:96,85:3441,2983:-522.91,-242.284,-213.385,-280.62,0,-255.033 1/1:146:0,146,0:0:0:146,0:5236,0:-471.343,-43.9504,0,-471.343,-43.9504,-471.343 1/1:94:0,92,1:0:0:92,1:3292,30:-296.168,-27.6948,0,-293.77,-25.2662,-293.469 1/1:89:0,88,0:0:0:88,0:3152,0:-283.505,-26.4906,0,-283.505,-26.4906,-283.505 1/2:69:0,39,30:0:0:39,30:1392,1044:-198.551,-85.0917,-73.3515,-113.81,0,-104.78 1/2:62:0,40,22:0:0:40,22:1440,757:-179.29,-61.7831,-49.7419,-117.857,0,-111.234 1/1:64:0,63,0:0:0:63,0:2268,0:-204.023,-18.9649,0,-204.023,-18.9649,-204.023 1/1:41:0,41,0:0:0:41,0:1472,0:-132.709,-12.3422,0,-132.709,-12.3422,-132.709 chr01 2162321 . T C 12736.9 PASS AB=0.525316;ABP=9.16739;AC=12;AF=0.285714;AN=42;AO=720;CIGAR=1X;DP=2398;DPB=2398;DPRA=1.23966;EPP=1566.47;EPPR=3642.4;GTI=0;LEN=1;MEANALT=1.13333;MQM=60;MQMR=59.9964;NS=21;NUMALT=1;ODDS=14.738;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25573;QR=60092;RO=1676;RPL=720;RPP=1566.47;RPPR=3642.4;RPR=0;RUN=1;SAF=0;SAP=1566.47;SAR=720;SRF=0;SRP=3642.4;SRR=1676;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:192:190,2:190:6797:2:72:0,-50.961,-604.964 0/0:72:72,0:72:2592:0:0:0,-21.6742,-233.528 0/0:175:175,0:175:6281:0:0:0,-52.6802,-565.379 0/0:104:104,0:104:3740:0:0:0,-31.3071,-336.799 0/1:169:50,119:50:1784:119:4226:-329.647,0,-109.969 0/0:100:100,0:100:3588:0:0:0,-30.103,-323.126 0/1:169:74,95:74:2660:95:3385:-253.991,0,-188.771 1/1:128:0,128:0:0:128:4552:-409.85,-38.5318,0 0/1:255:114,140:114:4084:140:4959:-369.638,0,-290.924 0/1:17:6,11:6:212:11:380:-29.4131,0,-14.3073 0/1:7:4,3:4:144:3:104:-7.5956,0,-11.2064 0/1:25:16,9:16:576:9:324:-21.9801,0,-44.6492 0/1:157:80,77:80:2857:77:2752:-200.661,0,-210.104 0/1:147:78,68:78:2804:68:2400:-171.948,0,-208.284 0/0:200:197,3:197:7068:3:108:0,-50.1308,-626.103 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.122 0/0:115:114,1:114:4084:1:36:0,-31.0202,-364.147 0/1:97:54,43:54:1936:43:1527:-108.522,0,-145.316 0/1:63:47,16:47:1684:16:572:-32.8485,0,-132.882 0/0:72:67,5:67:2389:5:176:0,-5.48914,-199.081 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 chr01 2182057 . A C,G 26056.4 PASS AB=0.5,0.5;ABP=3.0103,3.0103;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1213,599;CIGAR=1X,1X;DP=1812;DPB=1812;DPRA=0.534516,1.23301;EPP=2637.01,1303.72;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.5,1.90909;MQM=34.7774,29.212;MQMR=0;NS=21;NUMALT=2;ODDS=2.31517;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43349,21405;QR=0;RO=0;RPL=0,0;RPP=2637.01,1303.72;RPPR=0;RPR=1213,599;RUN=1,1;SAF=1213,599;SAP=2637.01,1303.72;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:0,90,0:0:0:90,0:3216,0:-204.598,-27.0927,0,-204.598,-27.0927,-204.598 1/1:88:0,88,0:0:0:88,0:3160,0:-283.687,-26.4906,0,-283.687,-26.4906,-283.687 1/1:114:0,114,0:0:0:114,0:4064,0:-257.717,-34.3174,0,-257.717,-34.3174,-257.717 1/1:70:0,70,0:0:0:70,0:2504,0:-158.998,-21.0721,0,-158.998,-21.0721,-158.998 1/2:159:0,83,76:0:0:83,76:2945,2717:-336.589,-174.545,-149.559,-162.314,0,-139.436 1/1:78:0,78,0:0:0:78,0:2792,0:-251.52,-23.4803,0,-251.52,-23.4803,-251.52 1/2:140:0,78,62:0:0:78,62:2784,2202:-353.203,-126.185,-102.705,-227.321,0,-208.657 2/2:155:0,0,155:0:0:0,155:0,5537:-380.296,-380.296,-380.296,-46.6597,-46.6597,0 1/2:144:0,69,75:0:0:69,75:2461,2680:-313.988,-181.035,-160.264,-133.226,0,-110.648 1/2:8:0,5,3:0:0:5,3:176,108:-16.1383,-6.75828,-5.25313,-9.64191,0,-8.73882 1/2:22:0,5,17:0:0:5,17:176,593:-49.6803,-35.332,-33.8269,-14.6799,0,-9.56236 1/2:38:0,14,24:0:0:14,24:500,860:-79.1819,-51.6613,-47.4468,-27.7797,0,-20.555 1/2:67:0,27,40:0:0:27,40:972,1436:-143.559,-91.7578,-83.63,-52.0647,0,-40.0235 1/2:98:0,47,51:0:0:47,51:1688,1828:-206.043,-115.901,-101.753,-90.4072,0,-75.0546 1/1:126:0,126,0:0:0:126,0:4500,0:-285.812,-37.9298,0,-285.812,-37.9298,-285.812 1/1:49:0,49,0:0:0:49,0:1752,0:-110.955,-14.7505,0,-110.955,-14.7505,-110.955 1/1:65:0,65,0:0:0:65,0:2328,0:-149.537,-19.567,0,-149.537,-19.567,-149.537 1/2:147:0,71,76:0:0:71,76:2548,2724:-304.959,-164.015,-142.642,-141.207,0,-118.329 1/2:65:0,45,20:0:0:45,20:1616,720:-134.916,-45.5604,-32.014,-89.631,0,-83.6104 1/1:44:0,44,0:0:0:44,0:1572,0:-102.279,-13.2453,0,-102.279,-13.2453,-102.279 1/1:45:0,45,0:0:0:45,0:1595,0:-143.84,-13.5464,0,-143.84,-13.5464,-143.84 chr01 2182191 . ACGTCAC ACAC,ACAA 24875.1 PASS AB=0.433535,0.563444;ABP=28.4119,26.1552;AC=30,12;AF=0.714286,0.285714;AN=42;AO=756,447;CIGAR=1M3D3M,1M3D2M1X;DP=1207;DPB=689.714;DPRA=0.824638,1.51167;EPP=1635.97,964.992;EPPR=0;GTI=1;LEN=3,4;MEANALT=1.8,2.07143;MQM=59.9497,59.4497;MQMR=0;NS=21;NUMALT=2;ODDS=3.06276;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26589,15678;QR=0;RO=0;RPL=755,447;RPP=1635.97,973.658;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,1;SAP=1644.64,964.992;SAR=756,446;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:26:0,26,0:0:0:26,0:909,0:-82.1234,-7.82678,0,-82.1234,-7.82678,-82.1234 1/1:48:0,48,0:0:0:48,0:1682,0:-151.662,-14.4494,0,-151.662,-14.4494,-151.662 1/1:53:0,52,1:0:0:52,1:1825,36:-164.174,-15.6536,0,-161.281,-12.4061,-160.98 1/1:69:0,67,2:0:0:67,2:2368,72:-213.017,-20.169,0,-207.142,-13.9343,-206.54 1/2:140:0,48,91:0:0:48,91:1647,3201:-394.368,-260.651,-246.202,-133.82,0,-106.426 1/1:17:0,17,0:0:0:17,0:600,0:-54.3292,-5.11751,0,-54.3292,-5.11751,-54.3292 1/2:87:0,40,47:0:0:40,47:1428,1657:-251.667,-135.246,-123.204,-116.776,0,-102.628 2/2:69:0,0,69:0:0:0,69:0,2372:-213.348,-213.348,-213.348,-20.7711,-20.7711,0 1/2:85:0,25,60:0:0:25,60:884,2106:-243.607,-171.611,-164.085,-72.348,0,-54.2862 1/2:9:0,4,5:0:0:4,5:140,180:-26.4331,-15.0469,-13.8428,-11.7405,0,-10.2353 1/2:5:0,2,3:0:0:2,3:68,108:-14.6799,-9.17208,-8.57002,-5.85565,0,-4.95256 1/2:23:0,14,9:0:0:14,9:496,310:-65.8969,-25.522,-21.3076,-40.7229,0,-38.0137 1/2:60:0,24,36:0:0:24,36:845,1259:-171.562,-102.771,-95.5462,-69.1424,0,-58.3053 1/2:63:0,28,35:0:0:28,35:973,1249:-181.253,-102.159,-93.7304,-79.4457,0,-68.9096 1/1:89:0,87,0:0:0:87,0:3091,0:-278.059,-26.1896,0,-278.059,-26.1896,-278.059 1/1:35:0,35,0:0:0:35,0:1205,0:-108.748,-10.5361,0,-108.748,-10.5361,-108.748 1/1:50:0,50,0:0:0:50,0:1773,0:-159.851,-15.0515,0,-159.851,-15.0515,-159.851 1/2:133:0,70,62:0:0:70,62:2461,2190:-378.654,-178.334,-157.262,-200.314,0,-181.65 1/2:57:0,32,25:0:0:32,25:1121,868:-162.122,-70.9081,-61.2751,-91.5628,0,-84.037 1/1:35:0,35,0:0:0:35,0:1240,0:-111.904,-10.5361,0,-111.904,-10.5361,-111.904 1/1:54:0,52,2:0:0:52,2:1833,70:-164.899,-15.6536,0,-159.203,-9.60829,-158.601 chr01 2188953 . C G 3985.39 PASS AB=0.443743;ABP=29.1525;AC=12;AF=0.285714;AN=42;AO=474;CIGAR=1X;DP=1891;DPB=1891;DPRA=1.02682;EPP=1032.29;EPPR=3075.64;GTI=1;LEN=1;MEANALT=1;MQM=27.8354;MQMR=28.689;NS=21;NUMALT=1;ODDS=4.69532;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16923;QR=50465;RO=1415;RPL=0;RPP=1032.29;RPPR=3075.64;RPR=474;RUN=1;SAF=474;SAP=1032.29;SAR=0;SRF=1415;SRP=3075.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:87:87,0:87:3108:0:0:0,-26.1896,-218.554 0/0:77:77,0:77:2730:0:0:0,-23.1793,-192.876 0/0:110:110,0:110:3936:0:0:0,-33.1133,-276.709 0/0:107:106,0:106:3760:0:0:0,-31.9092,-265.142 0/1:215:110,105:110:3932:105:3729:-185.684,0,-212.08 0/0:116:115,0:115:4108:0:0:0,-34.6184,-289.39 0/1:128:87,41:87:3112:41:1453:-58.8787,0,-180.954 1/1:52:0,52:0:0:52:1853:-124.183,-15.6536,0 0/1:126:75,51:75:2668:51:1820:-84.7981,0,-146.297 0/1:21:16,5:16:572:5:180:-5.86193,0,-34.2101 0/1:8:4,4:4:144:4:144:-7.39158,0,-8.02976 0/1:17:9,8:9:324:8:284:-14.2354,0,-17.8582 0/1:133:60,73:60:2136:73:2612:-138.192,0,-111.177 0/1:53:36,17:36:1284:17:612:-25.4481,0,-75.0744 0/0:173:173,0:173:6149:0:0:0,-52.0782,-434.981 0/0:48:48,0:48:1720:0:0:0,-14.4494,-116.761 0/0:29:29,0:29:1036:0:0:0,-8.72987,-71.2287 0/1:188:92,96:92:3291:96:3444:-170.044,0,-174.475 0/1:62:40,22:40:1420:22:792:-34.0433,0,-80.7056 0/0:80:80,0:80:2864:0:0:0,-24.0824,-201.41 0/0:61:61,0:61:2171:0:0:0,-18.3628,-152.738 chr01 2199852 . ACATT GCATC,ACATC 101532 PASS AB=0.510691,0.484336;ABP=5.00685,7.29602;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3257,1225;CIGAR=1X3M1X,4M1X;DP=4498;DPB=4498;DPRA=0.915236,1.09645;EPP=7075.5,2663.06;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.6,2.63158;MQM=54.4876,56.022;MQMR=0;NS=21;NUMALT=2;ODDS=47.4779;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=113482,43418;QR=0;RO=0;RPL=150,220;RPP=5832.62,1095.35;RPPR=0;RPR=3107,1005;RUN=1,1;SAF=150,220;SAP=5832.62,1095.35;SAR=3107,1005;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:223:0,220,3:0:0:220,3:7624,108:-685.177,-66.2266,0,-676.934,-57.6444,-676.031 1/1:208:0,208,0:0:0:208,0:7328,0:-658.781,-62.6142,0,-658.781,-62.6142,-658.781 1/1:186:0,185,0:0:0:185,0:6403,0:-574.563,-55.6906,0,-574.563,-55.6906,-574.563 1/1:294:0,293,1:0:0:293,1:10224,36:-918.464,-88.2018,0,-915.526,-84.9045,-915.225 1/2:449:0,201,247:0:0:201,247:7019,8753:-1268.07,-698.635,-638.128,-569.44,0,-495.086 1/1:172:0,171,1:0:0:171,1:6001,36:-539.106,-51.4761,0,-536.169,-48.1789,-535.868 1/2:288:0,165,123:0:0:165,123:5734,4392:-823.842,-358.425,-308.755,-465.769,0,-428.743 2/2:233:0,0,233:0:0:0,233:0,8261:-743.507,-743.507,-743.507,-70.14,-70.14,0 1/2:344:0,191,152:0:0:191,152:6670,5399:-902.454,-430.982,-373.486,-471.443,0,-425.686 1/2:25:0,10,15:0:0:10,15:346,521:-70.6762,-42.7009,-39.6906,-28.3208,0,-23.8054 1/2:35:0,17,18:0:0:17,18:591,620:-98.7373,-50.6993,-45.5817,-48.3839,0,-42.9654 1/2:84:0,40,41:0:0:40,41:1385,1464:-231.887,-119.382,-107.341,-112.524,0,-100.182 1/2:335:0,176,156:0:0:176,156:6137,5559:-946.956,-448.49,-395.509,-498.506,0,-451.545 1/2:291:0,139,150:0:0:139,150:4832,5245:-810.318,-418.65,-376.806,-391.693,0,-346.538 1/1:327:0,323,3:0:0:323,3:11215,108:-1007.14,-97.2327,0,-998.594,-88.697,-997.691 1/1:365:0,358,3:0:0:358,3:12457,108:-1047.72,-107.769,0,-1038.91,-98.9382,-1038.01 1/1:189:0,188,1:0:0:188,1:6616,36:-528.426,-56.5936,0,-525.489,-53.2964,-525.188 1/2:59:0,30,29:0:0:30,29:1032,1025:-167.603,-83.8306,-74.7997,-84.1214,0,-75.3916 1/2:101:0,58,43:0:0:58,43:2027,1531:-285.128,-120.694,-103.234,-164.781,0,-151.836 1/1:232:0,227,5:0:0:227,5:7849,180:-705.255,-68.3338,0,-690.567,-53.2869,-689.062 1/1:58:0,57,1:0:0:57,1:1992,36:-178.986,-17.1587,0,-176.049,-13.8615,-175.748 chr01 2199889 . C T 67095.8 PASS AB=0.558873;ABP=56.4481;AC=30;AF=0.714286;AN=42;AO=3141;CIGAR=1X;DP=4178;DPB=4178;DPRA=0.820417;EPP=6771.59;EPPR=2226.67;GTI=0;LEN=1;MEANALT=1.05;MQM=56.1878;MQMR=59.9681;NS=21;NUMALT=1;ODDS=51.6456;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=112471;QR=36855;RO=1036;RPL=3135;RPP=6771.59;RPPR=2226.67;RPR=6;RUN=1;SAF=0;SAP=6823.61;SAR=3141;SRF=0;SRP=2252.66;SRR=1036;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:224:0,224:0:0:224:8037:-721.841,-67.4307,0 1/1:215:0,215:0:0:215:7673:-689.738,-64.7215,0 1/1:191:0,191:0:0:191:6839:-613.444,-57.4967,0 1/1:294:1,293:1:36:293:10467:-936.978,-84.9045,0 0/1:381:178,203:178:6355:203:7304:-540.878,0,-457.344 1/1:174:1,173:1:36:173:6201:-553.791,-48.7809,0 0/1:293:128,165:128:4539:165:5917:-442.887,0,-320.472 0/0:240:240,0:240:8566:0:0:0,-72.2472,-770.935 0/1:242:100,142:100:3543:142:5089:-384.708,0,-246.227 0/1:27:16,11:16:572:11:377:-25.9704,0,-43.6856 0/1:35:17,18:17:612:18:648:-48.1014,0,-44.875 0/1:84:44,40:44:1557:40:1421:-102.842,0,-115.133 0/1:316:136,180:136:4816:180:6415:-481.343,0,-338.466 0/1:256:112,144:112:3963:144:5164:-386.902,0,-279.794 1/1:322:2,320:2:72:320:11445:-1021.06,-90.0949,0 1/1:312:2,309:2:72:309:11058:-987.221,-87.0567,0 1/1:142:1,141:1:36:141:5057:-451.078,-39.148,0 0/1:60:29,31:29:1044:31:1112:-82.2854,0,-76.2048 0/1:81:23,58:23:820:58:2075:-162.186,0,-49.7391 1/1:229:5,224:5:180:224:8048:-706.673,-52.3838,0 1/1:60:1,59:1:36:59:2124:-187.503,-14.4635,0 chr01 2269045 . A G 15916.4 PASS AB=0.669388;ABP=247.243;AC=12;AF=0.285714;AN=42;AO=853;CIGAR=1X;DP=1727;DPB=1727;DPRA=1.85044;EPP=1855.28;EPPR=1900.88;GTI=4;LEN=1;MEANALT=1;MQM=60;MQMR=59.9611;NS=21;NUMALT=1;ODDS=2.041;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30285;QR=31201;RO=874;RPL=853;RPP=1855.28;RPPR=1892.2;RPR=0;RUN=1;SAF=853;SAP=1855.28;SAR=0;SRF=873;SRP=1892.2;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:89,2:89:3192:2:72:0,-20.557,-280.666 0/0:70:70,0:70:2500:0:0:0,-21.0721,-225.253 0/0:73:73,0:73:2599:0:0:0,-21.9752,-234.159 0/0:64:64,0:64:2276:0:0:0,-19.2659,-204.732 0/1:225:43,182:43:1527:182:6426:-510.699,0,-69.9906 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:182:56,126:56:2004:126:4451:-345.974,0,-125.844 1/1:194:0,194:0:0:194:6910:-621.967,-58.3998,0 0/1:176:65,111:65:2327:111:3968:-304.33,0,-156.708 0/1:9:2,7:2:72:7:252:-20.3197,0,-4.12745 0/1:13:5,8:5:180:8:288:-22.354,0,-12.6387 0/1:29:14,15:14:496:15:540:-40.2067,0,-36.2444 0/1:81:22,59:22:792:59:2108:-165.606,0,-47.2222 0/1:119:42,77:42:1491:77:2698:-207.238,0,-98.6612 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:31:30,1:30:1080:1:36:0,-5.73365,-93.915 0/1:105:44,61:44:1572:61:2180:-164.858,0,-110.163 0/1:41:31,10:31:1099:10:356:-20.039,0,-86.8772 0/0:41:41,0:41:1459:0:0:0,-12.3422,-131.605 0/0:81:81,0:81:2879:0:0:0,-24.3834,-259.347 chr01 2291959 . C T 5493.78 PASS AB=0.446771;ABP=17.1116;AC=12;AF=0.285714;AN=42;AO=325;CIGAR=1X;DP=1246;DPB=1246;DPRA=1.04208;EPP=708.739;EPPR=1987.74;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.9385;MQMR=59.6357;NS=21;NUMALT=1;ODDS=3.68185;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11623;QR=32720;RO=914;RPL=0;RPP=708.739;RPPR=1987.74;RPR=325;RUN=1;SAF=325;SAP=708.739;SAR=0;SRF=914;SRP=1987.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:57,1:57:2024:1:36:0,-13.8615,-178.824 0/0:75:73,2:73:2624:2:72:0,-15.7405,-229.519 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.55 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.425 0/1:89:48,40:48:1724:40:1416:-100.887,0,-128.595 0/0:72:70,2:70:2488:2:72:0,-14.8374,-217.336 0/1:54:30,24:30:1076:24:856:-61.1055,0,-80.8954 1/1:64:0,64:0:0:64:2300:-207.261,-19.2659,0 0/1:70:31,38:31:1112:38:1368:-102.29,0,-79.2523 0/1:12:9,3:9:324:3:108:-6.46281,0,-25.8904 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/1:32:16,16:16:572:16:572:-42.1805,0,-42.1805 0/1:67:31,36:31:1108:36:1288:-96.0546,0,-79.8312 0/1:60:32,28:32:1148:28:1004:-72.557,0,-85.561 0/0:110:107,0:107:3832:0:0:0,-32.2102,-344.389 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1241 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0308 0/1:117:63,52:63:2256:52:1847:-131.531,0,-168.323 0/1:61:46,15:46:1644:15:540:-30.5737,0,-129.848 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.125 0/0:61:61,0:61:2168:0:0:0,-18.3628,-194.337 chr01 2291963 . GCCCCCAT GCCAT 17121.2 PASS AB=0.514134;ABP=3.99245;AC=30;AF=0.714286;AN=42;AO=851;CIGAR=1M3D4M;DP=1200;DPB=880.5;DPRA=0.8875;EPP=1850.93;EPPR=743.482;GTI=0;LEN=3;MEANALT=1.3;MQM=59.7497;MQMR=59.9413;NS=21;NUMALT=1;ODDS=9.90022;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29792;QR=11866;RO=341;RPL=0;RPP=1850.93;RPPR=743.482;RPR=851;RUN=1;SAF=851;SAP=1850.93;SAR=0;SRF=341;SRP=743.482;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:1,52:1:36:52:1825:-160.928,-12.3563,0 1/1:69:2,67:2:72:67:2361:-205.907,-13.9343,0 1/1:49:0,48:0:0:48:1696:-152.479,-14.4494,0 1/1:85:0,84:0:0:84:2937:-264.113,-25.2865,0 0/1:89:45,44:45:1565:44:1553:-113.268,0,-114.349 1/1:68:2,66:2:71:66:2304:-200.879,-13.728,0 0/1:51:25,26:25:871:26:912:-67.0424,0,-63.3536 0/0:64:64,0:64:2256:0:0:0,-19.2659,-203.304 0/1:71:39,31:39:1370:31:1088:-76.7943,0,-102.168 0/1:11:4,7:4:130:7:233:-17.9798,0,-8.71009 0/1:11:4,7:4:144:7:248:-19.3529,0,-10.0023 0/1:31:17,14:17:578:14:500:-36.0042,0,-43.0084 0/1:63:36,26:36:1256:26:905:-62.7111,0,-94.3183 0/1:64:31,33:31:1069:33:1148:-84.3557,0,-77.2047 1/1:105:0,102:0:0:102:3590:-322.941,-30.7051,0 1/1:20:0,20:0:0:20:697:-63.0483,-6.0206,0 1/1:26:0,26:0:0:26:882:-79.684,-7.82678,0 0/1:115:55,60:55:1897:60:2101:-154.738,0,-136.389 0/1:60:16,43:16:551:43:1497:-116.891,0,-31.7951 1/1:38:0,38:0:0:38:1317:-118.827,-11.4391,0 1/1:57:0,57:0:0:57:1998:-179.82,-17.1587,0 chr01 2292092 . A T 8101.92 PASS AB=0.438341;ABP=32.4664;AC=12;AF=0.285714;AN=42;AO=479;CIGAR=1X;DP=1975;DPB=1975;DPRA=1.00513;EPP=1043.15;EPPR=3249.36;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.9269;MQMR=59.9579;NS=21;NUMALT=1;ODDS=0.975968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17117;QR=53233;RO=1495;RPL=0;RPP=1043.15;RPPR=3249.36;RPR=479;RUN=1;SAF=479;SAP=1043.15;SAR=0;SRF=1495;SRP=3249.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:173:170,2:170:6039:2:72:0,-45.3003,-536.55 0/0:89:89,0:89:3184:0:0:0,-26.7917,-286.784 0/0:86:86,0:86:3057:0:0:0,-25.8886,-275.359 0/0:141:141,0:141:4993:0:0:0,-42.4452,-449.473 0/1:124:93,31:93:3309:31:1097:-61.7103,0,-260.701 0/0:75:74,1:74:2641:1:36:0,-18.979,-234.337 0/1:110:74,36:74:2648:36:1292:-83.4705,0,-205.453 1/1:85:0,85:0:0:85:3040:-273.83,-25.5876,0 0/1:157:71,86:71:2548:86:3080:-230.149,0,-182.309 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/1:11:8,3:8:288:3:108:-6.72683,0,-22.9561 0/1:30:12,18:12:428:18:648:-49.621,0,-29.8279 0/1:135:50,85:50:1788:85:3032:-232.471,0,-120.564 0/1:159:95,64:95:3393:64:2285:-158.047,0,-257.72 0/0:143:143,0:143:5043:0:0:0,-43.0473,-454.019 0/0:52:52,0:52:1848:0:0:0,-15.6536,-166.6 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/1:74:49,25:49:1748:25:887:-57.8719,0,-135.328 0/1:78:41,37:41:1468:37:1324:-95.9736,0,-108.936 0/0:129:129,0:129:4589:0:0:0,-38.8329,-413.176 0/0:67:67,0:67:2393:0:0:0,-20.169,-215.625 chr01 2292185 . 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A T 10340.6 PASS AB=0.460568;ABP=15.8542;AC=11;AF=0.261905;AN=42;AO=578;CIGAR=1X;DP=1980;DPB=1980;DPRA=1.34994;EPP=1258.12;EPPR=3030.05;GTI=1;LEN=1;MEANALT=1.1;MQM=59.955;MQMR=59.9428;NS=21;NUMALT=1;ODDS=1.6698;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20679;QR=50032;RO=1398;RPL=0;RPP=1258.12;RPPR=3038.73;RPR=578;RUN=1;SAF=578;SAP=1258.12;SAR=0;SRF=1397;SRP=3030.05;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,0:54:1928:0:0:0,-16.2556,-173.427 0/0:114:114,0:114:4066:0:0:0,-34.3174,-366.124 0/0:93:93,0:93:3336:0:0:0,-27.9958,-300.457 0/0:112:112,0:112:4016:0:0:0,-33.7154,-361.399 0/1:209:107,102:107:3798:102:3648:-265.605,0,-279.095 0/1:36:20,16:20:716:16:561:-39.9774,0,-53.9306 0/1:94:40,54:40:1436:54:1944:-146.939,0,-101.241 1/1:140:0,140:0:0:140:5001:-450.236,-42.1442,0 0/0:88:88,0:88:3152:0:0:0,-26.4906,-283.905 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:23:8,15:8:288:15:540:-42.0105,0,-19.3437 0/1:97:59,38:59:2116:38:1348:-92.4203,0,-161.509 0/1:88:48,40:48:1720:40:1432:-102.687,0,-128.594 0/0:133:132,0:132:4732:0:0:0,-39.736,-425.678 0/0:83:83,0:83:2972:0:0:0,-24.9855,-267.713 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.29 0/1:238:99,139:99:3560:139:5000:-378.5,0,-248.961 0/1:161:129,30:129:4584:30:1061:-47.5771,0,-364.503 0/0:50:50,0:50:1800:0:0:0,-15.0515,-162.282 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.353 chr01 2503382 . GGA CGG,CGA 13173.2 PASS AB=0.521222,0.47708;ABP=5.31449,5.69791;AC=31,11;AF=0.738095,0.261905;AN=42;AO=738,310;CIGAR=1X1M1X,1X2M;DP=1049;DPB=1049.67;DPRA=1.82321,2.58408;EPP=1605.56,676.167;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.55,2;MQM=26.0772,30.3581;MQMR=0;NS=21;NUMALT=2;ODDS=3.89844;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=36,0;PQR=0;PRO=0;QA=26155,9411;QR=0;RO=0;RPL=0,0;RPP=1605.56,676.167;RPPR=0;RPR=738,310;RUN=1,1;SAF=738,310;SAP=1605.56,676.167;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:34:0,34,0:0:0:34,0:1214,0:-80.8009,-10.235,0,-80.8009,-10.235,-80.8009 1/1:34:0,34,0:0:0:34,0:1187,0:-77.9018,-10.235,0,-77.9018,-10.235,-77.9018 1/1:22:0,22,0:0:0:22,0:788,0:-52.6575,-6.62266,0,-52.6575,-6.62266,-52.6575 1/1:44:0,44,0:0:0:44,0:1578,0:-104.747,-13.2453,0,-104.747,-13.2453,-104.747 1/2:42:0,14,28:0:0:14,28:504,882:-92.8064,-63.6551,-59.4407,-29.4228,0,-20.994 1/2:19:0,13,6:0:0:13,6:468,181:-39.1437,-13.131,-9.21759,-26.2793,0,-24.4732 1/2:54:0,31,23:0:0:31,23:1069,692:-110.336,-49.4002,-40.0683,-61.1989,0,-54.2752 2/2:28:0,0,28:0:0:0,28:0,841:-68.3798,-68.3798,-68.3798,-8.42884,-8.42884,0 1/1:31:0,31,0:0:0:31,0:1101,0:-78.3432,-9.33193,0,-78.3432,-9.33193,-78.3432 1/1:159:0,158,1:0:0:158,1:5613,30:-350.434,-47.5627,0,-348.305,-45.1646,-348.004 1/2:123:0,65,58:0:0:65,58:2294,1746:-253.685,-124.249,-104.682,-129.7,0,-112.24 1/2:33:0,18,15:0:0:18,15:628,452:-66.7243,-32.3748,-26.9562,-34.6092,0,-30.0937 1/2:20:0,10,9:0:0:10,9:358,288:-41.587,-20.796,-17.7857,-20.8021,0,-18.0929 1/2:26:0,7,19:0:0:7,19:252,597:-57.7245,-43.1507,-41.0435,-14.8438,0,-9.12426 1/1:42:0,42,0:0:0:42,0:1492,0:-99.8737,-12.6433,0,-99.8737,-12.6433,-99.8737 1/1:16:0,16,0:0:0:16,0:559,0:-40.2251,-4.81648,0,-40.2251,-4.81648,-40.2251 1/1:23:0,23,0:0:0:23,0:826,0:-58.4977,-6.92369,0,-58.4977,-6.92369,-58.4977 1/2:256:0,139,117:0:0:139,117:4909,3512:-514.875,-249.454,-207.611,-265.68,0,-230.459 1/2:16:0,10,6:0:0:10,6:358,190:-34.7443,-13.9556,-10.9453,-21.067,0,-19.2608 1/1:19:0,19,0:0:0:19,0:671,0:-42.319,-5.71957,0,-42.319,-5.71957,-42.319 1/1:8:0,8,0:0:0:8,0:286,0:-18.6581,-2.40824,0,-18.6581,-2.40824,-18.6581 chr01 2533607 . C A 37553.5 PASS AB=0.497541;ABP=3.14915;AC=11;AF=0.261905;AN=42;AO=1579;CIGAR=1X;DP=6276;DPB=6276;DPRA=1.26238;EPP=3431.77;EPPR=10165.5;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.7517;MQMR=59.9406;NS=21;NUMALT=1;ODDS=27.1544;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56445;QR=166467;RO=4696;RPL=797;RPP=3.31972;RPPR=40.3064;RPR=782;RUN=1;SAF=797;SAP=3.31972;SAR=782;SRF=2202;SRP=42.4371;SRR=2494;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:337:335,2:335:11931:2:72:0,-94.6104,-1066.78 0/0:271:271,0:271:9598:0:0:0,-81.5791,-863.762 0/0:250:249,1:249:8838:1:36:0,-71.6592,-791.651 0/0:386:386,0:386:13649:0:0:0,-116.198,-1228.21 0/1:611:287,324:287:10167:324:11576:-857.627,0,-731.03 0/1:314:150,164:150:5346:164:5875:-434.329,0,-386.72 0/1:498:227,271:227:8044:271:9662:-719.477,0,-574.076 1/1:254:0,254:0:0:254:9093:-818.316,-76.4616,0 0/0:633:632,1:632:22418:1:36:0,-186.954,-2012.73 0/0:29:29,0:29:1014:0:0:0,-8.72987,-91.57 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:76:41,35:41:1467:35:1260:-90.818,0,-109.447 0/1:394:214,180:214:7605:180:6428:-459.987,0,-564.98 0/1:358:173,185:173:6021:185:6588:-485.147,0,-434.073 0/0:494:492,1:492:17517:1:36:0,-145.169,-1572.55 0/0:300:300,0:300:10619:0:0:0,-90.309,-955.628 0/0:198:197,1:197:6922:1:36:0,-56.0057,-619.452 0/1:197:98,99:98:3493:99:3555:-260.843,0,-255.277 0/1:188:136,52:136:4832:52:1868:-111.803,0,-378.44 0/0:327:324,3:324:11494:3:108:0,-88.3616,-1024.22 0/0:154:153,1:153:5420:1:36:0,-42.7603,-484.328 chr01 2533630 . TCTTC GCTTA,CCTTA 71730 PASS AB=0.528179,0.466763;ABP=12.556,16.2902;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2515,790;CIGAR=1X3M1X,1X3M1X;DP=3324;DPB=3325.4;DPRA=2.41197,0.988959;EPP=5377.75,1701.15;EPPR=0;GTI=1;LEN=5,5;MEANALT=2.31579,2.53846;MQM=59.9547,59.7278;MQMR=0;NS=21;NUMALT=2;ODDS=10.8152;PAIRED=0,0;PAIREDR=0;PAO=6,2;PQA=188,63;PQR=0;PRO=0;QA=89213,27984;QR=0;RO=0;RPL=2515,790;RPP=5464.26,1718.47;RPPR=0;RPR=0,0;RUN=1,1;SAF=10,2;SAP=5377.75,1701.15;SAR=2505,788;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:232:0,229,2:0:0:229,2:8105,72:-729.116,-68.9359,0,-723.241,-63.061,-722.639 1/1:165:0,165,0:0:0:165,0:5865,0:-527.673,-49.67,0,-527.673,-49.67,-527.673 1/1:143:0,142,1:0:0:142,1:5052,35:-454.479,-42.7463,0,-451.631,-39.5487,-451.33 1/1:162:0,160,0:0:0:160,0:5642,0:-507.587,-48.1648,0,-507.587,-48.1648,-507.587 1/2:268:0,132,135:0:0:132,135:4701,4755:-770.195,-387.051,-347.315,-383.188,0,-342.549 1/2:235:0,124,110:0:0:124,110:4405,3911:-677.725,-318.804,-281.476,-359.009,0,-325.896 1/2:231:0,112,116:0:0:112,116:3962,4118:-658.124,-335.418,-301.703,-322.704,0,-287.785 2/2:134:0,0,133:0:0:0,133:0,4710:-423.748,-423.748,-423.748,-40.037,-40.037,0 1/1:278:0,277,0:0:0:277,0:9859,0:-886.893,-83.3853,0,-886.893,-83.3853,-886.893 1/1:14:0,14,0:0:0:14,0:492,0:-44.6126,-4.21442,0,-44.6126,-4.21442,-44.6126 2/2:5:0,0,5:0:0:0,5:0,180:-16.5521,-16.5521,-16.5521,-1.50515,-1.50515,0 1/2:40:0,25,15:0:0:25,15:886,532:-115.867,-43.6883,-36.1626,-72.533,0,-68.0175 1/2:199:0,107,92:0:0:107,92:3811,3274:-577.808,-267.185,-234.974,-310.979,0,-283.284 1/2:188:0,99,89:0:0:99,89:3463,3113:-534.587,-252.871,-223.069,-281.705,0,-254.914 1/1:330:0,329,0:0:0:329,0:11710,0:-1053.49,-99.0389,0,-1053.49,-99.0389,-1053.49 1/1:150:0,149,0:0:0:149,0:5309,0:-477.589,-44.8535,0,-477.589,-44.8535,-477.589 1/1:112:0,112,0:0:0:112,0:3953,0:-355.965,-33.7154,0,-355.965,-33.7154,-355.965 1/2:118:0,54,63:0:0:54,63:1915,2253:-339.739,-183.724,-167.468,-156.03,0,-137.066 1/2:105:0,78,26:0:0:78,26:2772,925:-301.269,-75.3819,-51.9016,-225.883,0,-218.056 1/1:151:0,146,3:0:0:146,3:5176,106:-465.663,-43.9504,0,-457.03,-35.2556,-456.127 1/1:64:0,61,0:0:0:61,0:2135,0:-192.067,-18.3628,0,-192.067,-18.3628,-192.067 chr01 2533933 . G A 3469.63 PASS AB=0.401288;ABP=42.4509;AC=10;AF=0.238095;AN=42;AO=217;CIGAR=1X;DP=999;DPB=999;DPRA=1.54795;EPP=465.574;EPPR=1698.93;GTI=0;LEN=1;MEANALT=1;MQM=59.4147;MQMR=59.9449;NS=21;NUMALT=1;ODDS=8.67391;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7753;QR=27918;RO=781;RPL=1;RPP=465.574;RPPR=1698.93;RPR=216;RUN=1;SAF=0;SAP=474.22;SAR=217;SRF=0;SRP=1698.93;SRR=781;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.3269 0/0:40:40,0:40:1418:0:0:0,-12.0412,-127.887 0/1:76:54,22:54:1913:22:792:-48.7274,0,-149.567 0/1:35:18,17:18:644:17:612:-44.8446,0,-47.7545 0/1:48:30,18:30:1076:18:648:-44.1574,0,-82.6952 1/1:29:0,29:0:0:29:1040:-93.897,-8.72987,0 0/0:77:77,0:77:2751:0:0:0,-23.1793,-247.832 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:4:3,0:3:108:0:0:0,-0.90309,-9.71534 0/1:14:10,4:10:356:4:144:-9.0992,0,-28.1668 0/1:119:63,56:63:2256:56:1992:-143.727,0,-167.48 0/1:46:26,20:26:923:20:720:-51.2767,0,-69.5394 0/0:89:88,1:88:3156:1:36:0,-23.1934,-280.664 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.701 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.772 0/1:57:30,27:30:1045:27:964:-69.8904,0,-77.1988 0/1:71:48,23:48:1728:23:805:-51.392,0,-134.432 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 chr01 2551570 . C T 57097.6 PASS AB=0.484577;ABP=6.69437;AC=31;AF=0.738095;AN=42;AO=2727;CIGAR=1X;DP=3892;DPB=3892;DPRA=0;EPP=5924.62;EPPR=2521.93;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.62133;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=97225;QR=41491;RO=1164;RPL=2725;RPP=5907.26;RPPR=2521.93;RPR=2;RUN=1;SAF=2725;SAP=5907.26;SAR=2;SRF=1164;SRP=2530.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:200:0,200:0:0:200:7111:-640.053,-60.206,0 1/1:326:0,326:0:0:326:11605:-1044.32,-98.1358,0 1/1:126:0,126:0:0:126:4489:-404.177,-37.9298,0 1/1:270:0,270:0:0:270:9610:-864.855,-81.2781,0 0/1:363:186,177:186:6655:177:6325:-460.067,0,-489.754 0/1:230:117,113:117:4166:113:4060:-296.349,0,-305.887 0/1:310:180,130:180:6428:130:4638:-324.264,0,-485.288 0/0:237:236,1:236:8407:1:36:0,-67.7458,-753.039 1/1:261:1,259:1:36:259:9241:-828.137,-74.9544,0 1/1:20:0,20:0:0:20:712:-64.4067,-6.0206,0 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 0/1:82:46,36:46:1644:36:1292:-91.8993,0,-123.564 0/1:363:192,171:192:6796:171:6071:-437.219,0,-502.441 0/1:184:88,96:88:3127:96:3436:-254.064,0,-226.268 1/1:171:2,169:2:72:169:6045:-537.316,-44.6394,0 1/1:138:0,138:0:0:138:4912:-442.232,-41.5421,0 1/1:110:2,108:2:72:108:3876:-342.197,-26.2766,0 0/1:108:48,60:48:1716:60:2136:-159.997,0,-122.214 0/1:129:53,76:53:1904:76:2715:-205.76,0,-132.805 1/1:162:2,160:2:72:160:5685:-504.935,-41.9301,0 1/1:88:2,86:2:72:86:3050:-267.895,-19.6539,0 chr01 2551606 . A T 15708.7 PASS AB=0.527473;ABP=10.169;AC=11;AF=0.261905;AN=42;AO=669;CIGAR=1X;DP=2558;DPB=2558;DPRA=1.44052;EPP=31.0836;EPPR=711.383;GTI=0;LEN=1;MEANALT=1;MQM=59.9641;MQMR=59.9672;NS=21;NUMALT=1;ODDS=16.0412;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23938;QR=67548;RO=1889;RPL=288;RPP=31.0836;RPPR=711.383;RPR=381;RUN=1;SAF=0;SAP=1455.73;SAR=669;SRF=0;SRP=4104.92;SRR=1889;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:236:235,1:235:8394:1:36:0,-67.4448,-751.087 0/0:85:83,2:83:2949:2:68:0,-19.1298,-259.177 0/0:103:101,2:101:3606:2:72:0,-24.1694,-317.909 0/0:66:65,1:65:2340:1:36:0,-16.2697,-207.174 0/1:220:112,108:112:4009:108:3858:-281.188,0,-294.771 0/1:103:42,61:42:1499:61:2172:-164.738,0,-104.198 0/1:210:86,124:86:3072:124:4440:-336.553,0,-213.493 1/1:84:0,84:0:0:84:3007:-270.856,-25.2865,0 0/0:162:162,0:162:5800:0:0:0,-48.7669,-522.114 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:31:22,9:22:783:9:324:-20.1739,0,-61.461 0/1:144:59,85:59:2100:85:3044:-230.841,0,-145.921 0/1:143:69,74:69:2452:74:2660:-196.598,0,-177.888 0/0:343:341,2:341:12214:2:72:0,-96.4166,-1092.26 0/0:93:92,1:92:3312:1:36:0,-24.3975,-294.699 0/0:101:101,0:101:3611:0:0:0,-30.404,-325.196 0/1:157:77,80:77:2759:80:2857:-210.081,0,-201.289 0/1:78:46,32:46:1639:32:1148:-80.1495,0,-124.318 0/0:106:106,0:106:3784:0:0:0,-31.9092,-340.76 0/0:55:55,0:55:1965:0:0:0,-16.5566,-177.123 chr01 2561380 . C T 27546.8 PASS AB=0.535456;ABP=10.5555;AC=31;AF=0.738095;AN=42;AO=1306;CIGAR=1X;DP=1752;DPB=1752;DPRA=0.673967;EPP=2830.27;EPPR=962.821;GTI=0;LEN=1;MEANALT=1;MQM=50.3645;MQMR=56.5605;NS=21;NUMALT=1;ODDS=9.13821;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46665;QR=15926;RO=446;RPL=1;RPP=2830.27;RPPR=962.821;RPR=1305;RUN=1;SAF=1306;SAP=2838.95;SAR=0;SRF=446;SRP=971.487;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102:0:0:102:3646:-324.17,-30.7051,0 1/1:78:0,78:0:0:78:2800:-252.24,-23.4803,0 1/1:113:0,113:0:0:113:4016:-356.286,-34.0164,0 1/1:100:0,100:0:0:100:3592:-318.931,-30.103,0 0/1:126:59,67:59:2108:67:2371:-172.807,0,-150.903 0/1:47:25,22:25:896:22:792:-57.4573,0,-66.8119 0/1:172:80,92:80:2864:92:3282:-243.822,0,-206.22 0/0:121:121,0:121:4318:0:0:0,-36.4246,-388.796 1/1:91:0,91:0:0:91:3254:-288.821,-27.3937,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:29:16,13:16:557:13:464:-33.3676,0,-41.7257 0/1:52:27,25:27:968:25:878:-62.7143,0,-71.2359 0/1:73:37,36:37:1307:36:1292:-92.98,0,-95.2526 1/1:171:0,171:0:0:171:6112:-543.43,-51.4761,0 1/1:43:0,43:0:0:43:1544:-137.311,-12.9443,0 1/1:103:0,103:0:0:103:3693:-328.069,-31.0061,0 0/1:127:61,66:61:2188:66:2355:-173.969,0,-158.465 0/1:57:13,44:13:468:44:1580:-123.547,0,-24.9852 1/1:77:4,73:4:144:73:2595:-220.483,-9.86569,0 1/1:42:0,42:0:0:42:1499:-135.204,-12.6433,0 chr01 2590210 . 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CGACT TGACC,TGACT 48617.5 PASS AB=0.494369,0.502252;ABP=3.25484,3.04943;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1495,490;CIGAR=1X3M1X,1X4M;DP=2000;DPB=2000.6;DPRA=2.6527,2.02832;EPP=875.412,1024.05;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.35,2.75;MQM=59.9973,59.998;MQMR=0;NS=21;NUMALT=2;ODDS=16.9721;PAIRED=0,0;PAIREDR=0;PAO=2,1;PQA=72,36;PQR=0;PRO=0;QA=51686,17555;QR=0;RO=0;RPL=1135,485;RPP=875.412,1024.05;RPPR=0;RPR=360,5;RUN=1,1;SAF=1495,490;SAP=3249.36,1067.03;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1875,0:-169.027,-16.2556,0,-169.027,-16.2556,-169.027 1/1:106:0,102,2:0:0:102,2:3518,72:-316.507,-30.7051,0,-310.632,-24.8028,-310.03 1/1:80:0,80,0:0:0:80,0:2772,0:-249.725,-24.0824,0,-249.725,-24.0824,-249.725 1/1:152:0,149,2:0:0:149,2:5105,72:-459.292,-44.8535,0,-453.417,-38.8987,-452.815 1/2:233:0,106,126:0:0:106,126:3659,4490:-663.292,-366.027,-334.118,-297.305,0,-259.375 1/2:83:0,47,35:0:0:47,35:1634,1260:-235.654,-102.81,-88.6612,-132.839,0,-122.303 1/2:167:0,79,88:0:0:79,88:2731,3164:-480.397,-258.493,-234.712,-222.256,0,-195.765 2/2:37:0,0,36:0:0:0,36:0,1292:-116.165,-116.165,-116.165,-10.8371,-10.8371,0 1/1:217:0,213,1:0:0:213,1:7376,36:-663.617,-64.1194,0,-660.679,-61.162,-660.378 1/1:18:0,18,0:0:0:18,0:602,0:-54.4954,-5.41854,0,-54.4954,-5.41854,-54.4954 1/2:14:0,5,9:0:0:5,9:175,324:-41.0312,-26.7966,-25.2914,-14.588,0,-11.8787 1/2:33:0,19,14:0:0:19,14:651,504:-94.3207,-41.4837,-35.7641,-53.1895,0,-48.9751 1/2:72:0,32,39:0:0:32,39:1122,1404:-205.86,-114.559,-104.926,-91.2954,0,-79.5552 1/2:118:0,60,58:0:0:60,58:2080,2069:-338.077,-169.019,-150.957,-169.409,0,-151.949 1/1:125:0,124,1:0:0:124,1:4261,36:-383.323,-37.3277,0,-380.385,-34.0305,-380.084 1/1:69:0,69,0:0:0:69,0:2419,0:-217.549,-20.7711,0,-217.549,-20.7711,-217.549 1/1:113:0,109,1:0:0:109,1:3803,36:-342.158,-32.8123,0,-339.22,-29.8599,-338.919 1/2:119:0,57,62:0:0:57,62:1975,2220:-341.915,-181.4,-164.242,-160.867,0,-142.203 1/2:49:0,34,15:0:0:34,15:1173,540:-139.704,-44.4211,-34.1861,-95.6378,0,-91.1224 1/1:95:0,92,1:0:0:92,1:3151,36:-283.503,-27.6948,0,-280.566,-24.7374,-280.265 1/1:46:0,46,0:0:0:46,0:1604,0:-144.649,-13.8474,0,-144.649,-13.8474,-144.649 chr01 2610050 . T A 33437 PASS AB=0.51023;ABP=3.72117;AC=31;AF=0.738095;AN=42;AO=1583;CIGAR=1X;DP=2111;DPB=2111;DPRA=0.709353;EPP=3440.45;EPPR=1149.55;GTI=0;LEN=1;MEANALT=1;MQM=48.6677;MQMR=53.4583;NS=21;NUMALT=1;ODDS=7.28432;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56660;QR=18889;RO=528;RPL=0;RPP=3440.45;RPPR=1132.24;RPR=1583;RUN=1;SAF=1583;SAP=3440.45;SAR=0;SRF=526;SRP=1132.24;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:187:0,187:0:0:187:6700:-597.377,-56.2926,0 1/1:58:1,57:1:36:57:2025:-174.024,-13.8705,0 1/1:106:0,106:0:0:106:3773:-336.843,-31.9092,0 1/1:76:0,76:0:0:76:2732:-244.112,-22.8783,0 0/1:169:94,75:94:3368:75:2700:-187.549,0,-251.878 0/1:48:28,20:28:1004:20:720:-48.9735,0,-75.6594 0/1:119:59,60:59:2108:60:2144:-152.224,0,-153.268 0/0:139:139,0:139:4969:0:0:0,-41.8432,-445.126 1/1:259:4,255:4:140:255:9152:-805.179,-65.0254,0 1/1:44:0,44:0:0:44:1576:-140.94,-13.2453,0 0/1:9:3,6:3:108:6:216:-16.8631,0,-7.34057 0/1:33:13,20:13:464:20:720:-53.5653,0,-31.9195 0/1:91:61,30:61:2176:30:1072:-68.9939,0,-168.12 0/1:119:50,69:50:1792:69:2431:-180.78,0,-125.413 1/1:189:1,188:1:36:188:6744:-598.237,-53.299,0 1/1:92:0,92:0:0:92:3266:-292.122,-27.6948,0 1/1:65:0,65:0:0:65:2317:-206.805,-19.567,0 0/1:139:58,81:58:2076:81:2908:-215.408,0,-143.388 0/1:55:17,38:17:612:38:1364:-105.459,0,-38.6484 1/1:58:0,58:0:0:58:2088:-185.979,-17.4597,0 1/1:56:0,56:0:0:56:2012:-177.403,-16.8577,0 chr01 2610053 . G A 9479.51 PASS AB=0.487245;ABP=4.11819;AC=11;AF=0.261905;AN=42;AO=522;CIGAR=1X;DP=2115;DPB=2115;DPRA=1.37634;EPP=1136.52;EPPR=3462.17;GTI=0;LEN=1;MEANALT=1;MQM=53.4234;MQMR=48.72;NS=21;NUMALT=1;ODDS=6.77606;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18733;QR=56742;RO=1593;RPL=0;RPP=1136.52;RPPR=3462.17;RPR=522;RUN=1;SAF=522;SAP=1136.52;SAR=0;SRF=1593;SRP=3462.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:190:189,1:189:6716:1:36:0,-53.6,-595.086 0/0:60:60,0:60:2137:0:0:0,-18.0618,-187.535 0/0:108:108,0:108:3872:0:0:0,-32.5112,-345.687 0/0:77:77,0:77:2719:0:0:0,-23.1793,-242.781 0/1:169:74,95:74:2637:95:3416:-256.133,0,-182.783 0/1:49:22,27:22:788:27:972:-72.4836,0,-54.5523 0/1:118:58,60:58:2045:60:2140:-156.398,0,-144.079 1/1:138:0,138:0:0:138:4941:-442.503,-41.5421,0 0/0:257:256,1:256:9123:1:36:0,-73.7674,-812.175 0/0:45:45,0:45:1601:0:0:0,-13.5463,-142.885 0/1:9:6,3:6:216:3:108:-7.34057,0,-16.8631 0/1:32:20,12:20:720:12:432:-29.5326,0,-53.8663 0/1:90:29,61:29:1044:61:2196:-170.165,0,-66.7745 0/1:119:70,49:70:2500:49:1764:-122.894,0,-187.087 0/0:187:187,0:187:6640:0:0:0,-56.2926,-592.965 0/0:92:92,0:92:3292:0:0:0,-27.6948,-294.217 0/0:62:62,0:62:2197:0:0:0,-18.6639,-195.76 0/1:139:83,56:83:2976:56:2008:-137.279,0,-221.512 0/1:59:40,19:40:1432:19:684:-43.9085,0,-110.368 0/0:59:59,0:59:2101:0:0:0,-17.7608,-187.185 0/0:56:56,0:56:1986:0:0:0,-16.8577,-175.199 chr01 2610091 . GGGAA CGGAG,GGGAG 44848.6 PASS AB=0.51519,0.478481;ABP=4.59355,6.1878;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1618,516;CIGAR=1X3M1X,4M1X;DP=2146;DPB=2146;DPRA=0.733212,1.35944;EPP=3516.45,1123.49;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.1,2.58333;MQM=48.7559,53.5213;MQMR=0;NS=21;NUMALT=2;ODDS=5.47223;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56250,18474;QR=0;RO=0;RPL=1618,516;RPP=3516.45,1123.49;RPPR=0;RPR=0,0;RUN=1,1;SAF=1618,516;SAP=3516.45,1123.49;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:193:0,191,1:0:0:191,1:6640,36:-592.535,-57.4967,0,-589.6,-54.5492,-589.299 1/1:64:0,64,0:0:0:64,0:2160,0:-190.802,-19.2659,0,-190.802,-19.2659,-190.802 1/1:110:0,109,0:0:0:109,0:3802,0:-339.698,-32.8123,0,-339.698,-32.8123,-339.698 1/1:80:0,80,0:0:0:80,0:2728,0:-244.252,-24.0824,0,-244.252,-24.0824,-244.252 1/2:167:0,76,90:0:0:76,90:2622,3207:-470.9,-261.008,-238.13,-209.909,0,-182.816 1/2:48:0,22,26:0:0:22,26:751,936:-135.984,-76.3267,-69.704,-60.0024,0,-52.1756 1/2:122:0,58,62:0:0:58,62:2023,2224:-341.745,-180.428,-162.968,-161.378,0,-142.714 2/2:137:0,0,136:0:0:0,136:0,4892:-437.92,-437.92,-437.92,-40.9401,-40.9401,0 1/1:263:0,261,1:0:0:261,1:9155,36:-818.696,-78.5688,0,-815.76,-75.6043,-815.459 1/1:46:0,46,0:0:0:46,0:1605,0:-143.456,-13.8474,0,-143.456,-13.8474,-143.456 1/2:9:0,6,3:0:0:6,3:212,108:-26.2129,-9.14675,-7.34057,-17.422,0,-16.5189 1/2:32:0,19,12:0:0:19,12:650,432:-86.888,-35.2822,-29.5627,-51.6837,0,-48.0714 1/2:91:0,30,61:0:0:30,61:1060,2173:-263.051,-177.105,-168.074,-86.2995,0,-67.9366 1/2:120:0,71,48:0:0:71,48:2442,1724:-336.302,-140.406,-119.033,-195.897,0,-181.447 1/1:190:0,188,0:0:0:188,0:6608,0:-590.683,-56.5936,0,-590.683,-56.5936,-590.683 1/1:93:0,93,0:0:0:93,0:3225,0:-289.408,-27.9958,0,-289.408,-27.9958,-289.408 1/1:65:0,64,0:0:0:64,0:2178,0:-194.994,-19.2659,0,-194.994,-19.2659,-194.994 1/2:140:0,84,56:0:0:84,56:2907,2004:-395.373,-161.906,-136.619,-233.817,0,-216.959 1/2:61:0,41,20:0:0:41,20:1437,702:-173.335,-57.2582,-44.9159,-116.426,0,-110.406 1/1:59:0,59,0:0:0:59,0:2097,0:-187.093,-17.7608,0,-187.093,-17.7608,-187.093 1/1:56:0,56,0:0:0:56,0:1948,0:-172.455,-16.8577,0,-172.455,-16.8577,-172.455 chr01 2633479 . TTCA CTTG,TTTG 13388.5 PASS AB=0.49004,0.50996;ABP=3.22658,3.22658;AC=30,12;AF=0.714286,0.285714;AN=42;AO=435,188;CIGAR=1X1M2X,2M2X;DP=624;DPB=624;DPRA=1.00803,1.16883;EPP=947.601,411.247;EPPR=0;GTI=0;LEN=4,2;MEANALT=1.52632,1.81818;MQM=53.9448,59.4202;MQMR=0;NS=21;NUMALT=2;ODDS=5.44183;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=15501,6712;QR=0;RO=0;RPL=435,188;RPP=947.601,411.247;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=947.601,411.247;SAR=435,188;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,31,0:0:0:31,0:1105,0:-99.5172,-9.33193,0,-99.5172,-9.33193,-99.5172 1/1:12:0,12,0:0:0:12,0:432,0:-38.7563,-3.61236,0,-38.7563,-3.61236,-38.7563 1/1:25:0,25,0:0:0:25,0:897,0:-80.9368,-7.52575,0,-80.9368,-7.52575,-80.9368 1/1:28:0,28,0:0:0:28,0:1008,0:-90.8409,-8.42884,0,-90.8409,-8.42884,-90.8409 1/2:46:0,21,25:0:0:21,25:750,898:-134.497,-73.6103,-67.2887,-61.2433,0,-53.7176 1/2:17:0,7,10:0:0:7,10:249,360:-49.1206,-29.734,-27.6268,-19.7356,0,-16.7253 1/2:36:0,18,18:0:0:18,18:648,646:-105.518,-53.0528,-47.6343,-52.8231,0,-47.4045 2/2:54:0,0,54:0:0:0,54:0,1917:-172.568,-172.568,-172.568,-16.2556,-16.2556,0 1/1:61:0,61,0:0:0:61,0:2162,0:-194.304,-18.3628,0,-194.304,-18.3628,-194.304 1/1:8:0,8,0:0:0:8,0:287,0:-26.1402,-2.40824,0,-26.1402,-2.40824,-26.1402 2/2:5:0,0,5:0:0:0,5:0,180:-16.5437,-16.5437,-16.5437,-1.50515,-1.50515,0 1/2:14:0,5,9:0:0:5,9:179,316:-40.6467,-26.069,-24.5639,-14.9327,0,-12.2235 1/2:56:0,28,28:0:0:28,28:985,993:-161.261,-81.2495,-72.8207,-80.3645,0,-71.9357 1/2:27:0,14,13:0:0:14,13:484,468:-77.8096,-38.5463,-34.3318,-39.6161,0,-35.7027 1/1:50:0,49,0:0:0:49,0:1746,0:-156.591,-14.7505,0,-156.591,-14.7505,-156.591 1/1:13:0,13,0:0:0:13,0:468,0:-42.3907,-3.91339,0,-42.3907,-3.91339,-42.3907 1/1:26:0,26,0:0:0:26,0:921,0:-83.1262,-7.82678,0,-83.1262,-7.82678,-83.1262 1/2:36:0,17,19:0:0:17,19:610,682:-105.416,-55.981,-50.8635,-49.792,0,-44.0725 1/2:19:0,13,6:0:0:13,6:458,216:-55.2095,-17.982,-14.0686,-37.5847,0,-35.7786 1/1:41:0,40,1:0:0:40,1:1438,36:-129.004,-12.0412,0,-126.066,-8.74396,-125.765 1/1:19:0,19,0:0:0:19,0:674,0:-60.7736,-5.71957,0,-60.7736,-5.71957,-60.7736 chr01 2671514 . G A 6387.29 PASS AB=0.411215;ABP=54.2936;AC=11;AF=0.261905;AN=42;AO=368;CIGAR=1X;DP=1913;DPB=1913;DPRA=0.777709;EPP=725.851;EPPR=2957.79;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.294373;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13177;QR=55193;RO=1543;RPL=9;RPP=725.851;RPPR=2982.31;RPR=359;RUN=1;SAF=368;SAP=802.112;SAR=0;SRF=1540;SRP=3327.59;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:180:179,0:179:6409:0:0:0,-53.8844,-576.536 0/0:100:100,0:100:3576:0:0:0,-30.103,-322.048 0/0:114:113,0:113:4037:0:0:0,-34.0164,-363.157 0/0:62:62,0:62:2216:0:0:0,-18.6639,-199.705 0/1:235:139,96:139:4984:96:3456:-240.509,0,-377.965 0/1:98:60,38:60:2152:38:1360:-93.1991,0,-164.446 0/1:118:65,53:65:2336:53:1900:-135.756,0,-174.978 1/1:59:0,59:0:0:59:2104:-189.629,-17.7608,0 0/0:150:150,0:150:5350:0:0:0,-45.1545,-481.631 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:32:26,6:26:917:6:216:-10.1576,0,-73.2116 0/1:76:33,43:33:1188:43:1536:-115.655,0,-84.3503 0/1:87:51,36:51:1828:36:1273:-88.6813,0,-138.611 0/0:172:172,0:172:6142:0:0:0,-51.7772,-552.878 0/0:70:70,0:70:2473:0:0:0,-21.0721,-222.821 0/0:125:125,0:125:4465:0:0:0,-37.6287,-402.019 0/1:72:44,28:44:1576:28:1008:-69.3622,0,-120.457 0/1:25:18,7:18:648:7:252:-15.5032,0,-51.1261 0/0:74:73,1:73:2628:1:36:0,-18.6779,-233.168 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.136 chr01 2678581 . C T 12258.6 PASS AB=0.398806;ABP=137.052;AC=11;AF=0.261905;AN=42;AO=741;CIGAR=1X;DP=3688;DPB=3688;DPRA=1.28819;EPP=1568.93;EPPR=6391.49;GTI=1;LEN=1;MEANALT=1.0625;MQM=59.9555;MQMR=59.9491;NS=21;NUMALT=1;ODDS=24.9151;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26421;QR=104926;RO=2946;RPL=736;RPP=1568.93;RPPR=6391.49;RPR=5;RUN=1;SAF=741;SAP=1612.07;SAR=0;SRF=2946;SRP=6400.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:198:194,4:194:6916:4:135:0,-47.1214,-609.656 0/0:209:209,0:209:7483:0:0:0,-62.9153,-673.512 0/0:161:160,1:160:5731:1:36:0,-44.8676,-512.307 0/0:245:244,1:244:8702:1:36:0,-70.1541,-779.563 0/1:375:195,180:195:6983:180:6435:-466.351,0,-515.631 0/1:253:171,82:171:6093:82:2930:-187.77,0,-472.31 0/1:300:154,146:154:5401:146:5204:-378.168,0,-395.491 1/1:129:0,129:0:0:129:4583:-412.636,-38.8329,0 0/0:393:392,1:392:13938:1:36:0,-114.707,-1250.59 0/0:15:15,0:15:531:0:0:0,-4.51545,-48.1219 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:27:16,11:16:576:11:392:-27.4922,0,-44.0472 0/1:232:161,71:161:5736:71:2544:-159.372,0,-446.518 0/1:185:118,66:118:4174:66:2356:-156.55,0,-320.094 0/0:272:272,0:272:9715:0:0:0,-81.8802,-874.301 0/0:178:177,1:177:6320:1:36:0,-49.9851,-565.27 0/0:157:154,3:154:5483:3:104:0,-37.5589,-483.895 0/1:50:29,21:29:1025:21:738:-51.689,0,-77.5092 0/1:78:55,23:55:1944:23:820:-50.6416,0,-151.753 0/0:159:159,0:159:5673:0:0:0,-47.8638,-509.913 0/0:65:65,0:65:2286:0:0:0,-19.5669,-205.985 chr01 2722834 . G A 12009.4 PASS AB=0.511985;ABP=4.31152;AC=11;AF=0.261905;AN=42;AO=672;CIGAR=1X;DP=2143;DPB=2143;DPRA=1.44948;EPP=1462.24;EPPR=3162.6;GTI=1;LEN=1;MEANALT=1;MQM=59.9539;MQMR=59.6152;NS=21;NUMALT=1;ODDS=0.954003;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23889;QR=52647;RO=1471;RPL=0;RPP=1462.24;RPPR=3171.24;RPR=672;RUN=1;SAF=672;SAP=1462.24;SAR=0;SRF=1470;SRP=3188.57;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:136,2:136:4876:2:72:0,-34.7054,-431.616 0/0:35:35,0:35:1248:0:0:0,-10.536,-112.621 0/0:99:99,0:99:3548:0:0:0,-29.802,-318.854 0/0:135:135,0:135:4836:0:0:0,-40.639,-435.296 0/1:246:127,119:127:4530:119:4250:-308.625,0,-333.799 0/1:94:38,56:38:1356:56:2012:-153.056,0,-93.343 0/1:143:67,76:67:2396:76:2690:-199.167,0,-172.846 1/1:136:0,136:0:0:136:4802:-432.339,-40.9401,0 0/0:182:182,0:182:6520:0:0:0,-54.7875,-586.851 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1414 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0803 0/1:37:15,22:15:540:22:784:-59.7458,0,-37.7984 0/1:199:85,114:85:3040:114:4061:-305.772,0,-213.832 0/1:157:81,76:81:2885:76:2686:-194.717,0,-212.542 0/0:136:136,0:136:4876:0:0:0,-40.9401,-438.347 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.343 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.104 0/1:51:22,29:22:792:29:1040:-78.5618,0,-56.2485 0/1:107:68,39:68:2424:39:1384:-92.6486,0,-186.187 0/0:106:106,0:106:3796:0:0:0,-31.9092,-341.801 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.561 chr01 2722879 . G A 62128.8 PASS AB=0.470149;ABP=16.4929;AC=31;AF=0.738095;AN=42;AO=2385;CIGAR=1X;DP=3507;DPB=3507;DPRA=0.877778;EPP=5138.63;EPPR=2435.06;GTI=1;LEN=1;MEANALT=1.1;MQM=59.6528;MQMR=59.9643;NS=21;NUMALT=1;ODDS=3.60898;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83356;QR=39422;RO=1120;RPL=1212;RPP=4.39513;RPPR=103.798;RPR=1173;RUN=1;SAF=1209;SAP=4.0018;SAR=1176;SRF=674;SRP=103.798;SRR=446;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:169:2,167:2:72:167:5854:-520.087,-44.0373,0 1/1:50:0,50:0:0:50:1753:-158.051,-15.0515,0 1/1:206:3,203:3:108:203:7134:-632.036,-51.937,0 1/1:190:1,189:1:36:189:6587:-588.124,-53.5974,0 0/1:352:179,172:179:6301:172:5992:-433.344,0,-461.167 0/1:144:90,54:90:3180:54:1851:-123.513,0,-243.072 0/1:234:134,100:134:4733:100:3542:-248.545,0,-355.559 0/0:189:189,0:189:6705:0:0:0,-56.8947,-603.528 1/1:227:0,227:0:0:227:7874:-708.659,-68.3338,0 1/1:39:2,37:2:72:37:1285:-109.086,-4.90345,0 0/1:24:6,18:6:216:18:648:-51.4263,0,-12.5658 0/1:64:33,31:33:1180:31:1081:-78.3215,0,-87.2421 0/1:303:166,137:166:5809:137:4817:-342.349,0,-431.718 0/1:232:123,109:123:4359:109:3790:-271.421,0,-322.644 1/1:321:1,319:1:36:319:11298:-1012.37,-93.0912,0 1/1:64:0,64:0:0:64:2235:-201.406,-19.2659,0 1/1:57:0,57:0:0:57:1980:-178.47,-17.1587,0 0/1:226:128,98:128:4384:98:3435:-241.323,0,-326.706 0/1:163:63,100:63:2231:100:3351:-252.732,0,-151.986 1/1:142:0,142:0:0:142:4996:-449.774,-42.7463,0 1/1:111:0,111:0:0:111:3853:-346.89,-33.4143,0 chr01 2722891 . G T 69994 PASS AB=0.4956;ABP=3.31607;AC=31;AF=0.738095;AN=42;AO=2618;CIGAR=1X;DP=3740;DPB=3740;DPRA=0.918912;EPP=5653.23;EPPR=2432.89;GTI=0;LEN=1;MEANALT=1.15;MQM=59.6555;MQMR=59.9946;NS=21;NUMALT=1;ODDS=6.08885;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93258;QR=39438;RO=1119;RPL=1445;RPP=64.3755;RPPR=99.5118;RPR=1173;RUN=1;SAF=1441;SAP=60.8189;SAR=1177;SRF=671;SRP=99.5118;SRR=448;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:205:2,203:2:72:203:7219:-642.745,-54.8744,0 1/1:50:0,50:0:0:50:1796:-161.918,-15.0515,0 1/1:229:3,226:3:108:226:8081:-716.591,-58.8607,0 1/1:204:1,203:1:36:203:7230:-646.499,-57.8118,0 0/1:370:182,188:182:6399:188:6636:-485.92,0,-464.625 0/1:144:87,57:87:3128:57:2029:-138.903,0,-238.397 0/1:239:128,111:128:4518:111:3967:-285.262,0,-334.845 0/0:193:193,0:193:6766:0:0:0,-58.0988,-609.022 1/1:263:0,262:0:0:262:9295:-836.143,-78.8699,0 1/1:42:2,40:2:72:40:1436:-122.692,-5.80654,0 0/1:25:6,19:6:212:19:684:-54.3637,0,-11.899 0/1:64:32,32:32:1148:32:1129:-82.6412,0,-84.3639 0/1:318:169,149:169:5951:149:5352:-385.853,0,-439.977 0/1:250:124,126:124:4359:126:4498:-329.698,0,-317.229 1/1:330:1,328:1:36:328:11736:-1051.76,-95.8004,0 1/1:63:0,62:0:0:62:2215:-199.252,-18.6639,0 1/1:62:0,62:0:0:62:2200:-198.258,-18.6639,0 0/1:232:126,106:126:4389:106:3769:-269.559,0,-325.347 0/1:176:63,113:63:2244:113:3972:-304.59,0,-149.243 1/1:157:0,157:0:0:157:5609:-504.856,-47.2617,0 1/1:124:0,124:0:0:124:4405:-396.384,-37.3277,0 chr01 2722960 . C T 4318.84 PASS AB=0.360731;ABP=76.8007;AC=10;AF=0.238095;AN=42;AO=205;CIGAR=1X;DP=979;DPB=979;DPRA=1.27228;EPP=20.8164;EPPR=34.5331;GTI=0;LEN=1;MEANALT=1;MQM=59.9707;MQMR=59.938;NS=21;NUMALT=1;ODDS=10.7768;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7271;QR=27379;RO=774;RPL=0;RPP=448.162;RPPR=1675.06;RPR=205;RUN=1;SAF=82;SAP=20.8164;SAR=123;SRF=335;SRP=33.3548;SRR=439;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1266:1:36:0,-7.53983,-110.62 0/0:27:27,0:27:949:0:0:0,-8.12781,-85.7228 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:51:50,1:50:1775:1:36:0,-11.7543,-156.431 0/1:57:41,16:41:1464:16:560:-33.57,0,-114.897 0/1:25:15,10:15:523:10:351:-24.4009,0,-39.8727 0/1:57:37,20:37:1316:20:697:-45.892,0,-101.583 1/1:45:0,45:0:0:45:1603:-144.559,-13.5464,0 0/0:68:68,0:68:2415:0:0:0,-20.47,-217.55 0/0:12:12,0:12:406:0:0:0,-3.61236,-36.8618 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:21:11,10:11:396:10:360:-26.4227,0,-29.6611 0/1:55:29,26:29:1028:26:923:-66.8309,0,-76.2764 0/1:35:23,12:23:790:12:413:-26.9618,0,-60.8786 0/0:92:92,0:92:3245:0:0:0,-27.6948,-292.262 0/0:17:17,0:17:591:0:0:0,-5.11751,-53.5153 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:102:52,50:52:1835:50:1788:-130.496,0,-134.725 0/1:86:72,14:72:2554:14:504:-19.8095,0,-204.222 0/0:43:43,0:43:1528:0:0:0,-12.9443,-137.813 0/0:114:114,0:114:4042:0:0:0,-34.3174,-363.97 chr01 2783400 . AACT TACC,AACC 77495.7 PASS AB=0.552734,0.446615;ABP=40.1119,41.0337;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2726,877;CIGAR=1X2M1X,3M1X;DP=3607;DPB=3607.75;DPRA=0.914439,0.95775;EPP=5922.44,1907.39;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.75,2.15385;MQM=59.8397,59.9715;MQMR=0;NS=21;NUMALT=2;ODDS=11.8981;PAIRED=0,0;PAIREDR=0;PAO=2,0.5;PQA=72,0;PQR=0;PRO=0.5;QA=96519,31280;QR=0;RO=0;RPL=2726,877;RPP=5922.44,1907.39;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5922.44,1907.39;SAR=2726,877;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:188:0,188,0:0:0:188,0:6674,0:-600.606,-56.5936,0,-600.606,-56.5936,-600.606 1/1:167:0,167,0:0:0:167,0:5931,0:-533.43,-50.272,0,-533.43,-50.272,-533.43 1/1:129:0,129,0:0:0:129,0:4550,0:-408.383,-38.8329,0,-408.383,-38.8329,-408.383 1/1:276:0,276,0:0:0:276,0:9789,0:-880.95,-83.0843,0,-880.95,-83.0843,-880.95 1/2:319:0,175,144:0:0:175,144:6175,5095:-918.022,-415.344,-362.664,-503.031,0,-459.683 1/2:185:0,96,89:0:0:96,89:3406,3196:-538.479,-261.001,-232.102,-277.834,0,-251.043 1/2:223:0,132,91:0:0:132,91:4673,3256:-646.438,-265.867,-226.131,-380.927,0,-353.533 2/2:187:0,0,186:0:0:0,186:0,6623:-595.868,-595.868,-595.868,-55.9916,-55.9916,0 1/1:299:0,298,0:0:0:298,0:10551,0:-949.196,-89.7069,0,-949.196,-89.7069,-949.196 1/1:5:0,5,0:0:0:5,0:178,0:-16.3686,-1.50515,0,-16.3686,-1.50515,-16.3686 1/2:6:0,2,4:0:0:2,4:72,144:-17.9843,-12.1095,-11.5074,-6.23466,0,-5.03054 1/2:42:0,23,19:0:0:23,19:817,684:-122.74,-56.1708,-49.2471,-66.927,0,-61.2074 1/2:420:0,247,172:0:0:247,172:8664,6145:-1206.13,-501.091,-426.737,-705.109,0,-653.332 1/2:177:0,90,87:0:0:90,87:3182,3093:-511.561,-252.405,-225.313,-259.51,0,-233.32 1/1:286:0,286,0:0:0:286,0:10155,0:-913.863,-86.0946,0,-913.863,-86.0946,-913.863 1/1:156:0,154,2:0:0:154,2:5482,72:-492.78,-46.3586,0,-486.905,-40.124,-486.303 1/1:128:0,126,1:0:0:126,1:4427,36:-398.265,-37.9298,0,-395.327,-34.9823,-395.026 1/2:69:0,30,39:0:0:30,39:1065,1392:-200.569,-113.839,-104.808,-87.0858,0,-75.3456 1/2:95:0,54,41:0:0:54,41:1935,1472:-278.246,-120.434,-104.178,-158.171,0,-145.828 1/1:189:0,187,2:0:0:187,2:6620,72:-595.366,-56.2926,0,-589.491,-50.0579,-588.889 1/1:61:0,61,0:0:0:61,0:2173,0:-195.804,-18.3628,0,-195.804,-18.3628,-195.804 chr01 2811591 . A G 25743.8 PASS AB=0.612708;ABP=75.9435;AC=32;AF=0.761905;AN=42;AO=1203;CIGAR=1X;DP=1488;DPB=1488;DPRA=2.51552;EPP=2615.29;EPPR=621.88;GTI=0;LEN=1;MEANALT=1;MQM=59.9784;MQMR=60;NS=21;NUMALT=1;ODDS=6.83447;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43086;QR=10206;RO=285;RPL=1203;RPP=2615.29;RPPR=621.88;RPR=0;RUN=1;SAF=0;SAP=2615.29;SAR=1203;SRF=0;SRP=621.88;SRR=285;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,52:0:0:52:1868:-168.313,-15.6536,0 1/1:65:0,65:0:0:65:2310:-208.159,-19.567,0 1/1:34:0,34:0:0:34:1209:-109.114,-10.235,0 1/1:101:0,101:0:0:101:3620:-326.005,-30.404,0 0/1:162:64,98:64:2292:98:3490:-265.544,0,-157.775 0/1:67:19,48:19:684:48:1728:-135.636,0,-41.7213 0/1:89:44,45:44:1580:45:1608:-118.218,0,-115.7 0/0:29:29,0:29:1025:0:0:0,-8.72987,-92.5607 1/1:143:0,143:0:0:143:5128:-461.66,-43.0473,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:16:7,9:7:252:9:324:-24.6894,0,-18.2125 0/1:74:31,43:31:1101:43:1536:-116.257,0,-77.1221 0/1:37:15,22:15:540:22:792:-60.4676,0,-37.7984 1/1:102:0,102:0:0:102:3664:-329.963,-30.7051,0 1/1:70:0,70:0:0:70:2500:-225.253,-21.0721,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 0/1:120:50,70:50:1796:70:2494:-188.588,0,-125.799 0/1:96:26,70:26:936:70:2520:-198.152,0,-55.6606 1/1:89:0,89:0:0:89:3191:-287.412,-26.7917,0 1/1:73:0,73:0:0:73:2624:-236.402,-21.9752,0 chr01 2831564 . 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G C 53530.9 PASS AB=0.533664;ABP=16.8994;AC=31;AF=0.738095;AN=42;AO=2474;CIGAR=1X;DP=3341;DPB=3341;DPRA=0.781095;EPP=5228.59;EPPR=1818.85;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9026;MQMR=60;NS=21;NUMALT=1;ODDS=8.2585;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=88489;QR=30844;RO=864;RPL=17;RPP=5228.59;RPPR=1818.85;RPR=2457;RUN=1;SAF=2474;SAP=5375.23;SAR=0;SRF=864;SRP=1879.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:231:5,226:5:180:226:8037:-706.789,-52.9859,0 1/1:125:1,124:1:36:124:4464:-398.329,-34.0305,0 1/1:166:0,166:0:0:166:5944:-535.057,-49.971,0 1/1:164:1,163:1:36:163:5840:-522.062,-45.7706,0 0/1:384:192,191:192:6866:191:6795:-495.498,0,-502.352 0/1:105:50,54:50:1781:54:1932:-142.485,0,-128.904 0/1:184:77,107:77:2764:107:3825:-289.042,0,-193.612 0/0:201:200,0:200:7142:0:0:0,-60.206,-642.476 1/1:298:0,298:0:0:298:10699:-962.786,-89.7069,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:52:31,21:31:1101:21:756:-52.7137,0,-83.7448 0/1:256:132,124:132:4684:124:4416:-320.548,0,-344.654 0/1:165:80,85:80:2842:85:3034:-223.619,0,-206.346 1/1:188:0,188:0:0:188:6733:-606.042,-56.5936,0 1/1:93:0,93:0:0:93:3325:-299.467,-27.9958,0 1/1:144:0,144:0:0:144:5160:-464.533,-43.3483,0 0/1:134:56,78:56:2012:78:2800:-211.901,0,-141.015 0/1:126:36,90:36:1292:90:3224:-252.45,0,-78.654 1/1:229:1,228:1:36:228:8158:-730.634,-65.3376,0 1/1:72:0,72:0:0:72:2559:-230.558,-21.6742,0 chr01 2858395 . 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AA TT,TA 13558.7 PASS AB=0.5,0.5;ABP=3.0103,3.0103;AC=31,11;AF=0.738095,0.261905;AN=42;AO=456,171;CIGAR=2X,1X1M;DP=627;DPB=627;DPRA=0.696429,1.00917;EPP=984.535,374.332;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.45,1.9;MQM=59.8246,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.71727;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=16198,6117;QR=0;RO=0;RPL=455,171;RPP=984.535,374.332;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=993.202,374.332;SAR=456,171;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:14:0,14,0:0:0:14,0:504,0:-45.6981,-4.21442,0,-45.6981,-4.21442,-45.6981 1/1:4:0,4,0:0:0:4,0:136,0:-12.575,-1.20412,0,-12.575,-1.20412,-12.575 1/1:56:0,56,0:0:0:56,0:1983,0:-178.742,-16.8577,0,-178.742,-16.8577,-178.742 1/1:21:0,21,0:0:0:21,0:734,0:-66.2665,-6.32163,0,-66.2665,-6.32163,-66.2665 1/2:44:0,23,21:0:0:23,21:811,756:-128.073,-62.0456,-55.1219,-66.3834,0,-60.0618 1/2:18:0,10,8:0:0:10,8:360,288:-53.2333,-23.8592,-20.8489,-29.734,0,-27.3258 1/2:27:0,18,9:0:0:18,9:637,324:-78.6775,-26.7966,-21.378,-52.2387,0,-49.5294 2/2:42:0,0,42:0:0:0,42:0,1508:-136.015,-136.015,-136.015,-12.6433,-12.6433,0 1/1:55:0,55,0:0:0:55,0:1952,0:-175.954,-16.5567,0,-175.954,-16.5567,-175.954 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:14:0,8,6:0:0:8,6:288,204:-40.3979,-16.8872,-14.4789,-23.8592,0,-22.053 1/2:15:0,6,9:0:0:6,9:214,324:-44.2403,-26.7966,-24.9904,-17.8016,0,-15.0923 1/2:67:0,27,40:0:0:27,40:964,1440:-196.447,-117.857,-109.729,-78.9484,0,-66.9072 1/2:26:0,10,16:0:0:10,16:360,557:-75.0178,-45.6391,-42.6288,-29.734,0,-24.9175 1/1:39:0,39,0:0:0:39,0:1388,0:-125.218,-11.7402,0,-125.218,-11.7402,-125.218 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:28:0,12,16:0:0:12,16:432,572:-82.247,-46.9969,-43.3846,-35.6088,0,-30.7924 1/2:19:0,15,4:0:0:15,4:529,144:-55.1764,-12.1095,-7.59405,-43.4252,0,-42.2211 1/1:89:0,89,0:0:0:89,0:3160,0:-284.623,-26.7917,0,-284.623,-26.7917,-284.623 1/1:30:0,30,0:0:0:30,0:1062,0:-95.8858,-9.0309,0,-95.8858,-9.0309,-95.8858 chr01 2969127 . GGTA AGTA,AGTG 66468.9 PASS AB=0.509519,0.485947;ABP=3.8785,4.90222;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2367,672;CIGAR=1X3M,1X2M1X;DP=3051;DPB=3051.25;DPRA=1.10568,1.07331;EPP=5142.89,1462.24;EPPR=7.35324;GTI=0;LEN=1,4;MEANALT=2.05,2.5;MQM=59.9244,59.5015;MQMR=60;NS=21;NUMALT=2;ODDS=17.7607;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=84764,23649;QR=72;RO=2;RPL=0,0;RPP=5142.89,1462.24;RPPR=7.35324;RPR=2367,672;RUN=1,1;SAF=2367,672;SAP=5142.89,1462.24;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:0,172,0:0:0:172,0:6152,0:-553.769,-51.7772,0,-553.769,-51.7772,-553.769 1/1:131:0,131,0:0:0:131,0:4689,0:-422.169,-39.4349,0,-422.169,-39.4349,-422.169 1/1:188:0,186,2:0:0:186,2:6657,72:-598.847,-55.9916,0,-592.972,-49.7569,-592.37 1/1:174:0,174,0:0:0:174,0:6233,0:-561.032,-52.3792,0,-561.032,-52.3792,-561.032 1/2:328:0,157,170:0:0:157,170:5608,6033:-948.782,-491.559,-444.297,-457.249,0,-406.074 1/2:182:2,92,87:2:72:92,87:3281,3036:-507.838,-240.992,-219.172,-261.566,0,-241.251 1/2:210:0,102,108:0:0:102,108:3664,3797:-608.226,-309.368,-278.663,-299.213,0,-266.701 2/2:132:0,0,132:0:0:0,132:0,4668:-420.063,-420.063,-420.063,-39.736,-39.736,0 1/1:269:0,268,0:0:0:268,0:9615,0:-865.029,-80.676,0,-865.029,-80.676,-865.029 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/2:26:0,18,8:0:0:18,8:648,275:-75.5595,-22.6747,-17.2562,-53.2333,0,-50.8251 1/2:47:0,26,21:0:0:26,21:932,744:-136.925,-60.9133,-53.0865,-76.3675,0,-70.0458 1/1:207:0,205,1:0:0:205,1:7352,36:-661.378,-61.7112,0,-658.441,-58.7338,-658.14 1/2:177:0,94,82:0:0:94,82:3348,2832:-502.911,-230.055,-201.758,-272.847,0,-248.162 1/1:141:0,141,0:0:0:141,0:5053,0:-454.804,-42.4452,0,-454.804,-42.4452,-454.804 1/1:166:0,162,1:0:0:162,1:5816,36:-523.241,-48.7669,0,-520.304,-45.812,-520.003 1/1:157:0,155,0:0:0:155,0:5541,0:-498.506,-46.6597,0,-498.506,-46.6597,-498.506 1/2:64:0,26,38:0:0:26,38:926,1352:-186.006,-110.532,-102.705,-75.8302,0,-64.3911 1/2:69:0,47,22:0:0:47,22:1692,768:-200.803,-62.7366,-48.5882,-138.418,0,-131.796 1/1:132:0,132,0:0:0:132,0:4713,0:-424.051,-39.736,0,-424.051,-39.736,-424.051 1/1:67:0,67,0:0:0:67,0:2412,0:-217.336,-20.169,0,-217.336,-20.169,-217.336 chr01 2969189 . TGATA CGATG,CGATA 65836.3 PASS AB=0.474922,0.516458;ABP=9.98079,6.01224;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2281,828;CIGAR=1X3M1X,1X4M;DP=3131;DPB=3131;DPRA=0.940823,1.5357;EPP=4947.46,1783.66;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.75,3;MQM=54.6098,59.7524;MQMR=0;NS=21;NUMALT=2;ODDS=11.192;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=79749,29361;QR=0;RO=0;RPL=1,2;RPP=4947.46,1783.66;RPPR=0;RPR=2280,826;RUN=1,1;SAF=0,0;SAP=4956.14,1800.99;SAR=2281,828;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,74,0:0:0:74,0:2592,0:-232.804,-22.2762,0,-232.804,-22.2762,-232.804 1/1:129:0,127,2:0:0:127,2:4447,72:-397.994,-38.2308,0,-392.119,-31.9961,-391.517 1/1:126:0,125,0:0:0:125,0:4407,0:-395.892,-37.6288,0,-395.892,-37.6288,-395.892 1/1:186:0,182,1:0:0:182,1:6330,36:-567.757,-54.7875,0,-564.819,-51.8323,-564.518 1/2:390:0,161,223:0:0:161,223:5598,7924:-1099.72,-645.691,-597.226,-454.042,0,-386.912 1/2:88:0,23,65:0:0:23,65:816,2309:-254.792,-188.499,-181.575,-66.6465,0,-47.0795 1/2:206:0,97,109:0:0:97,109:3410,3889:-593.572,-317.348,-288.148,-276.577,0,-243.765 2/2:158:0,0,158:0:0:0,158:0,5569:-501.325,-501.325,-501.325,-47.5627,-47.5627,0 1/1:186:0,183,2:0:0:183,2:6398,72:-575.035,-55.0885,0,-569.16,-49.1464,-568.558 1/1:20:0,20,0:0:0:20,0:710,0:-64.1267,-6.0206,0,-64.1267,-6.0206,-64.1267 1/2:12:0,7,5:0:0:7,5:250,176:-35.0108,-14.6799,-12.5727,-20.6846,0,-19.1795 1/2:41:0,28,13:0:0:28,13:994,464:-118.911,-38.1841,-29.7553,-81.0832,0,-77.1698 1/1:197:0,196,0:0:0:196,0:6842,0:-614.779,-59.0019,0,-614.779,-59.0019,-614.779 1/2:156:0,83,73:0:0:83,73:2824,2591:-440.017,-211.462,-186.476,-228.903,0,-206.928 1/1:349:0,343,4:0:0:343,4:12005,144:-1078.16,-103.253,0,-1066.41,-91.4972,-1065.21 1/1:116:0,116,0:0:0:116,0:4095,0:-368.295,-34.9195,0,-368.295,-34.9195,-368.295 1/1:113:0,111,0:0:0:111,0:3845,0:-345.538,-33.4143,0,-345.538,-33.4143,-345.538 1/2:288:0,139,146:0:0:139,146:4843,5143:-810.836,-418.676,-376.833,-392.159,0,-348.209 1/2:95:0,68,25:0:0:68,25:2406,900:-269.088,-73.4376,-52.9676,-195.653,0,-188.127 1/1:123:0,122,1:0:0:122,1:4299,36:-385.857,-36.7257,0,-382.92,-33.4284,-382.619 1/1:77:0,76,1:0:0:76,1:2638,36:-235.88,-22.8783,0,-232.942,-19.581,-232.641 chr01 2970272 . G A 14275.4 PASS AB=0.468394;ABP=11.3834;AC=10;AF=0.238095;AN=42;AO=604;CIGAR=1X;DP=2738;DPB=2738;DPRA=1.36921;EPP=23.7759;EPPR=4513.96;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.4073;MQMR=59.5579;NS=21;NUMALT=1;ODDS=2.8405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21640;QR=75651;RO=2133;RPL=340;RPP=23.7759;RPPR=4513.96;RPR=264;RUN=1;SAF=0;SAP=1314.58;SAR=604;SRF=0;SRP=4634.76;SRR=2133;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:113:113,0:113:3987:0:0:0,-34.0164,-358.787 0/0:144:143,1:143:5102:1:36:0,-39.7591,-455.045 0/0:136:136,0:136:4829:0:0:0,-40.9401,-434.739 0/0:115:115,0:115:4091:0:0:0,-34.6184,-368.272 0/1:266:133,133:133:4685:133:4763:-348.19,0,-341.693 0/1:160:73,87:73:2579:87:3124:-233.203,0,-184.136 0/1:182:105,77:105:3715:77:2756:-192.931,0,-279.123 1/1:145:0,145:0:0:145:5197:-467.656,-43.6494,0 0/0:230:230,0:230:8183:0:0:0,-69.2369,-735.373 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6595 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:30:23,7:23:820:7:248:-13.6197,0,-65.0916 0/0:232:229,3:229:8139:3:108:0,-59.7891,-722.427 0/1:170:84,86:84:2969:86:3096:-227.656,0,-215.956 0/0:245:243,1:243:8654:1:36:0,-70.2124,-774.95 0/0:101:101,0:101:3577:0:0:0,-30.404,-321.941 0/0:93:93,0:93:3285:0:0:0,-27.9958,-295.87 0/1:64:37,27:37:1292:27:944:-66.0054,0,-97.3123 0/1:85:52,33:52:1857:33:1188:-81.6234,0,-141.804 0/0:158:156,2:156:5525:2:72:0,-40.726,-489.755 0/0:54:54,0:54:1898:0:0:0,-16.2556,-171.075 chr01 3026924 . CAAAAAAAAATCCTTACA CAAAAAGTCCTCACG,CAAAAAGTCCTCGCG 19357.1 PASS AB=0.446389,0.507659;ABP=14.4188,3.24313;AC=32,10;AF=0.761905,0.238095;AN=42;AO=761,316;CIGAR=1M3D5M1X4M1X2M1X,1M3D5M1X4M2X1M1X;DP=1117;DPB=930.889;DPRA=0.614881,1.24485;EPP=1655.5,689.196;EPPR=5.18177;GTI=1;LEN=15,15;MEANALT=3,4;MQM=48.4139,28.9905;MQMR=60;NS=21;NUMALT=2;ODDS=0.215318;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26141,9128;QR=36;RO=1;RPL=0,0;RPP=1655.5,689.196;RPPR=5.18177;RPR=761,316;RUN=1,1;SAF=761,316;SAP=1655.5,689.196;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,48,2:0:0:48,2:1677,50:-149.984,-14.4494,0,-146.631,-11.1435,-146.029 1/1:23:0,22,0:0:0:22,0:777,0:-69.2087,-6.62266,0,-69.2087,-6.62266,-69.2087 1/1:60:0,60,0:0:0:60,0:2017,0:-180.2,-18.0618,0,-180.2,-18.0618,-180.2 1/1:34:0,34,0:0:0:34,0:1136,0:-101.447,-10.235,0,-101.447,-10.235,-101.447 1/2:124:0,47,73:0:0:47,73:1607,2130:-280.195,-150.58,-136.431,-129.635,0,-107.659 1/2:46:0,27,17:0:0:27,17:943,485:-109.752,-33.9909,-25.8631,-75.8481,0,-70.7306 1/2:81:0,32,44:0:0:32,44:1106,1300:-180.23,-92.0233,-82.3904,-88.2756,0,-75.0303 2/2:84:0,0,82:0:0:0,82:0,2362:-190.464,-190.464,-190.464,-24.6845,-24.6845,0 1/1:119:0,113,0:0:0:113,0:3896,0:-347.657,-34.0164,0,-347.657,-34.0164,-347.657 1/1:5:0,4,0:0:0:4,0:136,0:-11.762,-1.20412,0,-11.762,-1.20412,-11.762 1/2:10:0,5,3:0:0:5,3:160,93:-18.2723,-6.70852,-5.20337,-11.6122,0,-10.7091 1/2:22:0,6,13:0:0:6,13:208,366:-41.9722,-25.602,-23.7958,-16.4415,0,-12.5281 1/1:76:0,73,0:0:0:73,0:2479,0:-221.435,-21.9752,0,-221.435,-21.9752,-221.435 1/2:62:0,30,31:0:0:30,31:1029,897:-145.764,-63.0968,-54.0659,-82.6544,0,-73.3225 1/1:53:0,51,0:0:0:51,0:1801,0:-160.836,-15.3525,0,-160.836,-15.3525,-160.836 1/1:31:0,30,0:0:0:30,0:1020,0:-91.0759,-9.0309,0,-91.0759,-9.0309,-91.0759 1/1:22:0,22,0:0:0:22,0:754,0:-67.6858,-6.62266,0,-67.6858,-6.62266,-67.6858 1/2:67:0,25,40:0:0:25,40:843,1134:-146.076,-79.3136,-71.7878,-66.8761,0,-54.8349 1/2:45:0,32,11:0:0:32,11:1109,311:-110.755,-21.6181,-11.9852,-89.0743,0,-85.7629 1/1:70:0,70,0:0:0:70,0:2417,0:-216.114,-21.0721,0,-216.114,-21.0721,-216.114 1/1:31:1,30,0:1:36:30,0:1026,0:-87.1225,-5.73366,0,-87.4236,-9.0309,-90.3618 chr01 3044057 . T G 27868.5 PASS AB=0.44698;ABP=21.2011;AC=32;AF=0.761905;AN=42;AO=1323;CIGAR=1X;DP=1953;DPB=1953;DPRA=0.404186;EPP=2875.87;EPPR=1368.87;GTI=2;LEN=1;MEANALT=1;MQM=54.7264;MQMR=59.717;NS=21;NUMALT=1;ODDS=1.58815;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47198;QR=22512;RO=629;RPL=0;RPP=2875.87;RPPR=1368.87;RPR=1323;RUN=1;SAF=1323;SAP=2875.87;SAR=0;SRF=629;SRP=1368.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2388:-214.461,-20.169,0 1/1:69:0,69:0:0:69:2465:-221.182,-20.7711,0 1/1:67:0,67:0:0:67:2404:-216.125,-20.169,0 1/1:119:0,119:0:0:119:4244:-381.126,-35.8226,0 0/1:200:116,84:116:4156:84:3005:-210.157,0,-314.005 0/1:116:82,34:82:2944:34:1220:-74.723,0,-230.223 0/1:171:78,93:78:2785:93:3302:-244.833,0,-199.38 0/0:215:214,0:214:7658:0:0:0,-64.4204,-688.733 1/1:145:0,145:0:0:145:5193:-466.921,-43.6494,0 1/1:11:0,11:0:0:11:392:-35.5775,-3.31133,0 0/1:7:5,2:5:180:2:72:-4.71232,0,-14.4449 0/1:37:21,16:21:741:16:572:-40.6041,0,-55.8689 1/1:112:1,111:1:36:111:3954:-351.397,-30.1171,0 0/1:114:64,50:64:2296:50:1792:-126.967,0,-172.58 1/1:137:0,137:0:0:137:4882:-438.994,-41.2411,0 1/1:82:0,82:0:0:82:2915:-262.394,-24.6845,0 1/1:65:2,63:2:72:63:2230:-193.89,-12.7302,0 0/1:68:37,31:37:1320:31:1116:-80.1205,0,-98.6273 0/1:32:9,23:9:324:23:818:-63.9812,0,-19.8729 1/1:83:0,83:0:0:83:2942:-264.132,-24.9855,0 1/1:36:0,36:0:0:36:1292:-115.869,-10.8371,0 chr01 3044101 . GTTC TTTG,CTTG 42126.8 PASS AB=0.441253,0.556136;ABP=25.9723,23.9766;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1329,646;CIGAR=1X2M1X,1X2M1X;DP=1981;DPB=1981.25;DPRA=0.406452,1.28714;EPP=2854.26,1388.46;EPPR=0;GTI=2;LEN=4,4;MEANALT=1.8,2.09091;MQM=54.6712,59.6656;MQMR=0;NS=21;NUMALT=2;ODDS=4.25689;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=46645,22658;QR=0;RO=0;RPL=1325,644;RPP=2854.26,1388.46;RPPR=0;RPR=4,2;RUN=1,1;SAF=1329,646;SAP=2888.9,1405.78;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,67,0:0:0:67,0:2291,0:-205.673,-20.169,0,-205.673,-20.169,-205.673 1/1:69:0,69,0:0:0:69,0:2413,0:-216.458,-20.7711,0,-216.458,-20.7711,-216.458 1/1:68:0,67,0:0:0:67,0:2366,0:-212.361,-20.169,0,-212.361,-20.169,-212.361 1/1:120:0,119,0:0:0:119,0:4202,0:-376.935,-35.8226,0,-376.935,-35.8226,-376.935 1/2:206:0,86,120:0:0:86,120:3042,4196:-589.171,-341.693,-315.804,-247.83,0,-211.706 1/2:120:0,35,85:0:0:35,85:1243,2995:-344.978,-244.153,-233.617,-101.178,0,-75.5901 1/2:180:0,95,84:0:0:95,84:3336,2941:-509.833,-239.314,-210.716,-270.578,0,-245.292 2/2:217:0,0,217:0:0:0,217:0,7617:-685.527,-685.527,-685.527,-65.3235,-65.3235,0 1/1:145:0,144,0:0:0:144,0:5069,0:-455.504,-43.3483,0,-455.504,-43.3483,-455.504 1/1:9:0,9,0:0:0:9,0:307,0:-27.9276,-2.70927,0,-27.9276,-2.70927,-27.9276 1/2:7:0,2,5:0:0:2,5:72,180:-20.9052,-15.0469,-14.4449,-6.21747,0,-4.71232 1/2:37:0,16,21:0:0:16,21:568,746:-107.349,-61.1382,-56.3217,-46.5657,0,-40.2441 1/1:111:0,110,1:0:0:110,1:3841,36:-344.757,-33.1133,0,-341.821,-29.8187,-341.52 1/2:113:0,49,63:0:0:49,63:1698,2214:-318.097,-180.314,-165.564,-137.889,0,-118.924 1/1:140:0,140,0:0:0:140,0:4958,0:-445.633,-42.1442,0,-445.633,-42.1442,-445.633 1/1:82:0,82,0:0:0:82,0:2907,0:-261.716,-24.6845,0,-261.716,-24.6845,-261.716 1/1:67:0,65,2:0:0:65,2:2282,70:-205.071,-19.567,0,-199.375,-13.5217,-198.773 1/2:70:0,32,38:0:0:32,38:1134,1311:-199.049,-106.845,-97.2123,-92.5531,0,-81.114 1/2:33:0,23,10:0:0:23,10:783,352:-92.3828,-29.0066,-22.0829,-63.7244,0,-60.7141 1/1:81:0,81,0:0:0:81,0:2828,0:-253.806,-24.3834,0,-253.806,-24.3834,-253.806 1/1:38:0,38,0:0:0:38,0:1305,0:-117.097,-11.4391,0,-117.097,-11.4391,-117.097 chr01 3048974 . CAT CAG,GAG 58623.6 PASS AB=0.713103,0.284138;ABP=288.989,296.441;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2334,267;CIGAR=2M1X,1X1M1X;DP=2610;DPB=2610;DPRA=2.23947,0.985965;EPP=5045.2,33.2727;EPPR=16.0391;GTI=3;LEN=1,3;MEANALT=1.75,2.15385;MQM=59.9829,59.8727;MQMR=56.8333;NS=21;NUMALT=2;ODDS=1.07505;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=83058,9296;QR=169;RO=6;RPL=3,30;RPP=5045.2,351.495;RPPR=16.0391;RPR=2331,237;RUN=1,1;SAF=0,133;SAP=5071.23,3.01843;SAR=2334,134;SRF=0;SRP=16.0391;SRR=6;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:222:1,220,1:1:36:220,1:7821,24:-700.383,-63.2293,0,-698.826,-64.4276,-701.462 1/1:165:0,165,0:0:0:165,0:5871,0:-528.503,-49.67,0,-528.503,-49.67,-528.503 1/1:213:0,211,1:0:0:211,1:7532,36:-677.619,-63.5173,0,-674.682,-60.515,-674.381 1/1:112:1,111,0:1:36:111,0:3925,0:-349.847,-30.1171,0,-350.148,-33.4143,-353.085 1/2:207:1,167,39:1:21:167,39:5934,1347:-591.228,-107.979,-59.2922,-482.099,0,-471.947 1/2:76:0,67,9:0:0:67,9:2412,319:-223.154,-26.3421,-6.17309,-197.167,0,-194.458 1/2:152:0,112,40:0:0:112,40:3981,1393:-438.039,-113.624,-79.9083,-324.766,0,-312.725 2/2:57:0,0,57:0:0:0,57:0,1998:-180.09,-180.09,-180.09,-17.1587,-17.1587,0 1/1:205:0,205,0:0:0:205,0:7339,0:-660.241,-61.7112,0,-660.241,-61.7112,-660.241 1/1:25:0,25,0:0:0:25,0:892,0:-80.5997,-7.52575,0,-80.5997,-7.52575,-80.5997 1/2:7:0,3,4:0:0:3,4:108,136:-20.1916,-11.3708,-10.4677,-9.17208,0,-7.96796 1/2:30:0,17,13:0:0:17,13:612,458:-87.5809,-37.6405,-32.5229,-50.2959,0,-46.3825 1/1:194:1,193,0:1:21:193,0:6859,0:-615.286,-56.2999,0,-615.587,-58.0988,-617.175 1/2:87:0,66,21:0:0:66,21:2322,716:-247.46,-58.4324,-38.5644,-189.371,0,-183.05 1/1:238:1,235,1:1:21:235,1:8382,36:-752.193,-69.207,0,-749.556,-67.7796,-750.84 1/1:99:0,99,0:0:0:99,0:3526,0:-317.55,-29.802,0,-317.55,-29.802,-317.55 1/1:158:0,158,0:0:0:158,0:5640,0:-507.72,-47.5627,0,-507.72,-47.5627,-507.72 1/2:78:0,27,51:0:0:27,51:955,1791:-223.904,-146.119,-137.991,-78.137,0,-62.7845 1/2:88:0,58,29:0:0:58,29:2022,1006:-246.2,-81.7601,-64.3003,-164.428,0,-155.698 1/1:152:1,150,1:1:34:150,1:5324,36:-475.888,-42.4065,0,-473.251,-42.2071,-475.708 1/1:45:0,45,0:0:0:45,0:1601,0:-144.378,-13.5464,0,-144.378,-13.5464,-144.378 chr01 3086891 . CTTTTTTTAGG CTTTTTTTTAGG 13758.1 PASS AB=0.502092;ABP=3.02847;AC=31;AF=0.738095;AN=42;AO=984;CIGAR=1M1I10M;DP=1288;DPB=1377.45;DPRA=1.04153;EPP=2139.74;EPPR=660.966;GTI=1;LEN=1;MEANALT=1.05;MQM=30.7917;MQMR=58.9901;NS=21;NUMALT=1;ODDS=0.18533;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29915;QR=9594;RO=303;RPL=984;RPP=2139.74;RPPR=660.966;RPR=0;RUN=1;SAF=0;SAP=2139.74;SAR=984;SRF=0;SRP=660.966;SRR=303;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,56:0:0:56:1775:-145.014,-16.8577,0 1/1:22:0,22:0:0:22:613:-49.4653,-6.62266,0 1/1:141:1,140:1:33:140:4334:-351.446,-39.4462,0 1/1:20:0,20:0:0:20:640:-52.4738,-6.0206,0 0/1:170:98,72:98:3066:72:2222:-131.26,0,-224.981 0/1:52:25,27:25:802:27:740:-44.2495,0,-56.8008 0/1:71:33,38:33:1047:38:1036:-62.6284,0,-72.8116 0/0:59:59,0:59:1884:0:0:0,-17.7608,-169.791 1/1:154:0,154:0:0:154:4637:-377.413,-46.3586,0 0/1:6:1,5:1:34:5:141:-10.0118,0,-1.59039 0/1:4:1,3:1:30:3:84:-5.79396,0,-1.79545 0/1:31:12,19:12:382:19:568:-36.9132,0,-25.3589 1/1:89:0,89:0:0:89:2803:-228.939,-26.7917,0 0/1:94:42,52:42:1318:52:1648:-106.23,0,-90.5667 1/1:134:1,132:1:31:132:4064:-328.634,-37.254,0 1/1:25:0,25:0:0:25:761:-62.1366,-7.52575,0 1/1:5:0,5:0:0:5:155:-12.8761,-1.50515,0 0/1:18:11,7:11:353:7:210:-11.8563,0,-26.6446 0/1:32:15,17:15:481:17:533:-34.0178,0,-33.962 1/1:74:3,71:3:97:71:2117:-162.753,-13.2281,0 1/1:31:1,30:1:36:30:834:-64.569,-6.51085,0 chr01 3094407 . T C 11396 PASS AB=0.56242;ABP=29.3055;AC=10;AF=0.238095;AN=42;AO=614;CIGAR=1X;DP=2224;DPB=2224;DPRA=0.992902;EPP=1336.29;EPPR=3496.91;GTI=1;LEN=1;MEANALT=1.09091;MQM=59.8746;MQMR=59.9901;NS=21;NUMALT=1;ODDS=1.50423;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21727;QR=57393;RO=1609;RPL=614;RPP=1336.29;RPPR=3496.91;RPR=0;RUN=1;SAF=614;SAP=1336.29;SAR=0;SRF=1609;SRP=3496.91;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:107:107,0:107:3806:0:0:0,-32.2102,-342.734 0/0:112:112,0:112:3984:0:0:0,-33.7154,-358.75 0/0:100:100,0:100:3596:0:0:0,-30.103,-323.845 0/0:132:130,2:130:4644:2:72:0,-32.8992,-411.284 0/1:244:113,131:113:4044:131:4653:-345.371,0,-290.697 0/1:62:19,43:19:675:43:1535:-119.778,0,-42.4131 0/1:141:50,91:50:1773:91:3230:-248.478,0,-117.406 1/1:174:0,173:0:0:173:6109:-549.549,-52.0782,0 0/0:238:238,0:238:8475:0:0:0,-71.6451,-762.755 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:14:5,9:5:176:9:311:-24.1093,0,-11.9706 0/1:23:13,10:13:464:10:356:-25.4576,0,-35.1738 0/0:135:135,0:135:4839:0:0:0,-40.639,-435.66 0/1:152:63,89:63:2226:89:3151:-238.058,0,-154.836 0/0:164:164,0:164:5842:0:0:0,-49.3689,-525.889 0/0:86:86,0:86:3088:0:0:0,-25.8886,-278.147 0/0:78:76,2:76:2700:2:48:0,-18.9206,-238.683 0/1:67:36,31:36:1292:31:1095:-78.6901,0,-96.4148 0/1:74:41,33:41:1464:33:1167:-83.0318,0,-109.78 0/0:74:74,0:74:2630:0:0:0,-22.2762,-236.947 0/0:43:43,0:43:1531:0:0:0,-12.9443,-138.082 chr01 3143349 . G T,A 22435.9 PASS AB=0.475446,0.522321;ABP=5.35627,4.94911;AC=32,10;AF=0.761905,0.238095;AN=42;AO=742,297;CIGAR=1X,1X;DP=1040;DPB=1040;DPRA=0.78871,1.10424;EPP=1614.24,647.938;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.5,2;MQM=58.2615,57.7037;MQMR=0;NS=21;NUMALT=2;ODDS=3.31096;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26492,10583;QR=0;RO=0;RPL=742,297;RPP=1614.24,647.938;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1614.24,647.938;SAR=742,297;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,89,0:0:0:89,0:3179,0:-286.203,-26.7917,0,-286.203,-26.7917,-286.203 1/1:59:0,59,0:0:0:59,0:2094,0:-188.46,-17.7608,0,-188.46,-17.7608,-188.46 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/1:33:0,33,0:0:0:33,0:1165,0:-105.122,-9.93399,0,-105.122,-9.93399,-105.122 1/2:120:0,50,70:0:0:50,70:1781,2503:-349.17,-204.021,-188.969,-145.506,0,-124.433 1/2:72:0,40,32:0:0:40,32:1440,1143:-210.029,-92.8382,-80.797,-117.547,0,-107.914 1/2:55:0,19,36:0:0:19,36:684,1292:-161.312,-105.588,-99.8687,-56.083,0,-45.2459 2/2:62:0,0,62:0:0:0,62:0,2220:-200.015,-200.015,-200.015,-18.6639,-18.6639,0 1/1:62:0,62,0:0:0:62,0:2213,0:-199.413,-18.6639,0,-199.413,-18.6639,-199.413 1/1:11:0,10,1:0:0:10,1:356,20:-32.1671,-3.0103,0,-30.6823,-1.31138,-30.3813 1/2:7:0,4,3:0:0:4,3:144,108:-20.8891,-9.15779,-7.95367,-12.0906,0,-11.1875 1/2:13:0,4,9:0:0:4,9:144,320:-38.1569,-26.4058,-25.2017,-12.1095,0,-9.40023 1/1:46:0,46,0:0:0:46,0:1656,0:-149.328,-13.8474,0,-149.328,-13.8474,-149.328 1/2:53:0,28,25:0:0:28,25:985,887:-152.675,-72.6122,-64.1834,-80.4156,0,-72.8898 1/1:33:0,33,0:0:0:33,0:1173,0:-105.848,-9.93399,0,-105.848,-9.93399,-105.848 1/1:60:0,60,0:0:0:60,0:2139,0:-192.73,-18.0618,0,-192.73,-18.0618,-192.73 1/1:65:0,65,0:0:0:65,0:2313,0:-208.396,-19.567,0,-208.396,-19.567,-208.396 1/2:84:0,36,47:0:0:36,47:1292,1666:-240.905,-135.543,-124.706,-105.358,0,-91.21 1/2:44:0,32,12:0:0:32,12:1152,424:-128.859,-34.8702,-25.2373,-94.3434,0,-90.7311 1/1:27:0,27,0:0:0:27,0:962,0:-86.8497,-8.12781,0,-86.8497,-8.12781,-86.8497 1/1:30:0,30,0:0:0:30,0:1080,0:-97.2932,-9.0309,0,-97.2932,-9.0309,-97.2932 chr01 3220152 . A G 101589 PASS AB=0.496434;ABP=3.2116;AC=32;AF=0.761905;AN=42;AO=3794;CIGAR=1X;DP=5025;DPB=5025;DPRA=0.793121;EPP=8241.58;EPPR=2663.06;GTI=0;LEN=1;MEANALT=1.3;MQM=56.8753;MQMR=59.9249;NS=21;NUMALT=1;ODDS=21.2944;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=132820;QR=43176;RO=1225;RPL=1638;RPP=156.584;RPPR=3.40914;RPR=2156;RUN=1;SAF=1638;SAP=156.584;SAR=2156;SRF=620;SRP=3.40914;SRR=605;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:231:0,230:0:0:230:8047:-722.257,-69.2369,0 1/1:195:0,194:0:0:194:6856:-615.448,-58.3998,0 1/1:244:5,239:5:180:239:8314:-729.904,-56.8993,0 1/1:289:3,286:3:108:286:9924:-881.921,-76.9225,0 0/1:453:243,210:243:8583:210:7402:-529.032,0,-635.952 0/1:271:136,135:136:4781:135:4779:-348.047,0,-348.873 0/1:386:188,198:188:6646:198:6957:-508.68,0,-481.836 0/0:298:298,0:298:10512:0:0:0,-89.7069,-946.002 1/1:547:0,546:0:0:546:19157:-1720.87,-164.362,0 1/1:20:0,20:0:0:20:692:-62.5227,-6.0206,0 0/1:22:9,13:9:324:13:459:-34.9951,0,-22.8832 0/1:67:40,27:40:1424:27:930:-63.7754,0,-108.288 1/1:283:0,282:0:0:282:9946:-893.721,-84.8905,0 0/1:281:151,129:151:5287:129:4475:-317.116,0,-391.281 1/1:389:0,389:0:0:389:13615:-1223.18,-117.101,0 1/1:217:0,216:0:0:216:7571:-680.608,-65.0225,0 1/1:152:0,152:0:0:152:5326:-479.016,-45.7566,0 0/1:208:98,110:98:3415:110:3790:-278.299,0,-244.949 0/1:135:52,83:52:1844:83:2877:-218.234,0,-125.601 1/1:242:2,240:2:72:240:8446:-751.982,-66.0125,0 1/1:95:0,95:0:0:95:3257:-292.507,-28.5979,0 chr01 3220172 . CAGGA TAGGG,CAGGG 59475.3 PASS AB=0.520352,0.464246;ABP=6.28065,13.1032;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2172,597;CIGAR=1X3M1X,4M1X;DP=2806;DPB=2806;DPRA=0.770468,0.924224;EPP=4624.39,1273.45;EPPR=0;GTI=0;LEN=5,1;MEANALT=3.05,3.25;MQM=54.9632,59.9481;MQMR=0;NS=21;NUMALT=2;ODDS=10.2216;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=75447,21125;QR=0;RO=0;RPL=2161,594;RPP=4624.39,1273.45;RPPR=0;RPR=11,3;RUN=1,1;SAF=0,0;SAP=4719.45,1299.38;SAR=2172,597;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:0,103,0:0:0:103,0:3548,0:-318.301,-31.0061,0,-318.301,-31.0061,-318.301 1/1:126:0,124,0:0:0:124,0:4312,0:-387.288,-37.3277,0,-387.288,-37.3277,-387.288 1/1:159:0,156,1:0:0:156,1:5450,36:-488.791,-46.9607,0,-485.853,-43.9878,-485.552 1/1:162:0,157,3:0:0:157,3:5417,108:-486.508,-47.2617,0,-477.696,-38.4396,-476.793 1/2:154:0,84,70:0:0:84,70:2933,2488:-441.156,-203.101,-177.815,-238.407,0,-217.335 1/2:130:0,61,66:0:0:61,66:2144,2327:-363.549,-189.514,-171.151,-174.077,0,-154.209 1/2:171:0,92,74:0:0:92,74:3167,2626:-470.604,-214.062,-186.367,-256.641,0,-234.365 2/2:171:0,0,170:0:0:0,170:0,6018:-541.47,-541.47,-541.47,-51.1751,-51.1751,0 1/1:317:0,316,0:0:0:316,0:10967,0:-985.03,-95.1255,0,-985.03,-95.1255,-985.03 1/1:19:0,19,0:0:0:19,0:663,0:-59.9197,-5.71957,0,-59.9197,-5.71957,-59.9197 1/2:15:0,10,5:0:0:10,5:348,180:-43.3078,-15.0469,-12.0366,-28.6166,0,-27.1115 1/2:31:0,16,15:0:0:16,15:543,516:-86.2192,-42.248,-37.4315,-44.3126,0,-39.7972 1/1:159:0,155,0:0:0:155,0:5432,0:-488.061,-46.6597,0,-488.061,-46.6597,-488.061 1/2:170:0,84,85:0:0:84,85:2847,2983:-472.984,-242.815,-217.529,-230.212,0,-204.624 1/1:254:0,251,0:0:0:251,0:8749,0:-785.932,-75.5585,0,-785.932,-75.5585,-785.932 1/1:124:0,120,0:0:0:120,0:4173,0:-375.041,-36.1236,0,-375.041,-36.1236,-375.041 1/1:104:0,104,0:0:0:104,0:3638,0:-327.222,-31.3071,0,-327.222,-31.3071,-327.222 1/2:166:0,87,76:0:0:87,76:3013,2704:-464.975,-220.446,-194.256,-244.606,0,-221.728 1/2:72:0,39,31:0:0:39,31:1357,1103:-199.974,-89.9114,-78.1712,-110.077,0,-100.745 1/1:148:0,147,1:0:0:147,1:5134,36:-460.812,-44.2514,0,-457.875,-40.9542,-457.574 1/1:49:0,47,0:0:0:47,0:1612,0:-144.507,-14.1484,0,-144.507,-14.1484,-144.507 chr01 3244716 . C T 12224.4 PASS AB=0.440415;ABP=38.7215;AC=10;AF=0.238095;AN=42;AO=694;CIGAR=1X;DP=3457;DPB=3457;DPRA=1.10719;EPP=1492.69;EPPR=5976.76;GTI=1;LEN=1;MEANALT=1;MQM=59.8055;MQMR=59.8625;NS=21;NUMALT=1;ODDS=6.88274;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24665;QR=97395;RO=2763;RPL=692;RPP=1492.69;RPPR=5976.76;RPR=2;RUN=1;SAF=694;SAP=1510.01;SAR=0;SRF=2763;SRP=6002.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:165:165,0:165:5823:0:0:0,-49.6699,-524.162 0/0:118:118,0:118:4163:0:0:0,-35.5215,-374.221 0/0:181:180,1:180:6338:1:36:0,-50.8882,-566.552 0/0:265:265,0:265:9376:0:0:0,-79.7729,-842.672 0/1:293:160,133:160:5570:133:4733:-337.885,0,-413.222 0/1:144:85,59:85:2991:59:2116:-147.36,0,-226.069 0/1:290:153,137:153:5371:137:4910:-354.749,0,-396.228 1/1:179:0,179:0:0:179:6372:-573.528,-53.8844,0 0/0:418:417,1:417:14732:1:36:0,-122.232,-1321.62 0/0:18:17,1:17:575:1:36:0,-1.83549,-48.4866 0/1:5:3,2:3:108:2:72:-5.32037,0,-8.57002 0/1:37:20,17:20:712:17:604:-43.5525,0,-53.2667 0/0:188:188,0:188:6673:0:0:0,-56.5936,-600.65 0/1:223:116,107:116:4065:107:3741:-269.765,0,-298.898 0/0:268:266,2:266:9370:2:72:0,-73.8538,-836.454 0/0:124:124,0:124:4385:0:0:0,-37.3277,-394.766 0/0:163:163,0:163:5797:0:0:0,-49.0679,-521.476 0/1:86:52,34:52:1798:34:1193:-81.7837,0,-136.182 0/1:80:59,21:59:2074:21:744:-42.7093,0,-162.845 0/0:134:134,0:134:4745:0:0:0,-40.338,-427.212 0/0:78:78,0:78:2729:0:0:0,-23.4803,-245.846 chr01 3247964 . 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T C 56595.7 PASS AB=0.531272;ABP=15.0976;AC=32;AF=0.761905;AN=42;AO=2646;CIGAR=1X;DP=3442;DPB=3442;DPRA=1.43362;EPP=5740.04;EPPR=1729.33;GTI=0;LEN=1;MEANALT=1.05;MQM=59.339;MQMR=47.2214;NS=21;NUMALT=1;ODDS=20.4568;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=94699;QR=28510;RO=795;RPL=1;RPP=5740.04;RPPR=1729.33;RPR=2645;RUN=1;SAF=2646;SAP=5748.73;SAR=0;SRF=795;SRP=1729.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:142:2,140:2:68:140:4998:-442.817,-36.3211,0 1/1:14:0,14:0:0:14:489:-44.3389,-4.21442,0 1/1:186:0,186:0:0:186:6688:-601.902,-55.9916,0 1/1:158:0,158:0:0:158:5674:-510.142,-47.5627,0 0/1:497:257,240:257:9209:240:8586:-622.392,0,-665.806 0/1:171:70,101:70:2490:101:3616:-273.821,0,-171.171 0/1:279:130,149:130:4668:149:5336:-396.279,0,-333.15 0/0:116:116,0:116:4176:0:0:0,-34.9195,-368.5 1/1:388:0,387:0:0:387:13876:-1246.68,-116.499,0 1/1:44:0,44:0:0:44:1584:-142.829,-13.2453,0 0/1:15:6,9:6:216:9:324:-24.9895,0,-15.1678 0/1:55:32,23:32:1148:23:828:-58.265,0,-85.501 1/1:189:0,189:0:0:189:6722:-604.68,-56.8947,0 0/1:134:74,60:74:2651:60:2126:-151.235,0,-195.013 1/1:218:1,217:1:36:217:7747:-693.279,-62.0577,0 1/1:116:1,115:1:36:115:4132:-368.377,-31.3527,0 1/1:100:1,99:1:36:99:3556:-316.587,-26.5362,0 0/1:154:68,86:68:2444:86:3076:-230.657,0,-171.801 0/1:118:30,88:30:1080:88:3125:-245.88,0,-60.7965 1/1:295:5,290:5:180:290:10380:-917.402,-72.3661,0 1/1:53:2,51:2:72:51:1836:-158.67,-9.1364,0 chr01 3247999 . G A 13289.1 PASS AB=0.471051;ABP=13.194;AC=10;AF=0.238095;AN=42;AO=785;CIGAR=1X;DP=3390;DPB=3390;DPRA=1.00664;EPP=1707.62;EPPR=5659.7;GTI=0;LEN=1;MEANALT=1;MQM=47.2917;MQMR=59.3712;NS=21;NUMALT=1;ODDS=20.8799;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28136;QR=92791;RO=2605;RPL=785;RPP=1707.62;RPPR=5659.7;RPR=0;RUN=1;SAF=785;SAP=1707.62;SAR=0;SRF=2605;SRP=5659.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:137:136,1:136:4836:1:36:0,-37.6743,-431.482 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:184:184,0:184:6554:0:0:0,-55.3895,-589.813 0/0:158:158,0:158:5648:0:0:0,-47.5627,-507.786 0/1:483:235,248:235:8395:248:8898:-645.918,0,-609.741 0/1:169:100,69:100:3552:69:2468:-170.233,0,-268.813 0/1:280:149,131:149:5327:131:4686:-334.225,0,-395.184 1/1:117:1,116:1:36:116:4159:-363.881,-31.6222,0 0/0:381:381,0:381:13551:0:0:0,-114.692,-1217.27 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.749 0/1:15:9,6:9:320:6:216:-15.1678,0,-24.626 0/1:55:23,32:23:828:32:1152:-85.848,0,-58.265 0/0:183:183,0:183:6539:0:0:0,-55.0885,-588.196 0/1:128:54,74:54:1900:74:2637:-195.585,0,-132.687 0/0:214:213,1:213:7613:1:36:0,-60.8536,-681.224 0/0:115:114,1:114:4080:1:36:0,-31.0516,-363.701 0/0:98:97,1:97:3437:1:36:0,-25.9341,-305.887 0/1:154:85,69:85:2982:69:2480:-175.017,0,-222.207 0/1:115:85,30:85:3011:30:1080:-61.6996,0,-236.548 0/0:293:288,5:288:10260:5:180:0,-71.764,-906.598 0/0:53:52,1:52:1846:1:36:0,-12.3758,-162.821 chr01 3248010 . A G,T 72434.2 PASS AB=0.52692,0.47308;ABP=11.7788,11.7788;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2598,787;CIGAR=1X,1X;DP=3385;DPB=3385;DPRA=0,1.04367;EPP=5644.5,1677.39;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.7619,2;MQM=59.3287,47.1703;MQMR=0;NS=21;NUMALT=2;ODDS=21.1641;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=91835,28025;QR=0;RO=0;RPL=2598,783;RPP=5644.5,1677.39;RPPR=0;RPR=0,4;RUN=1,1;SAF=2598,787;SAP=5644.5,1711.96;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:0,137,2:0:0:137,2:4833,57:-434.237,-41.2411,0,-429.74,-36.4597,-429.138 1/1:14:0,14,0:0:0:14,0:496,0:-44.9743,-4.21442,0,-44.9743,-4.21442,-44.9743 1/1:188:0,187,1:0:0:187,1:6580,36:-591.812,-56.2926,0,-588.874,-52.9954,-588.573 1/1:156:0,156,0:0:0:156,0:5525,0:-496.739,-46.9607,0,-496.739,-46.9607,-496.739 1/2:485:0,233,252:0:0:233,252:8270,8967:-1391.57,-718.21,-648.07,-673.715,0,-597.855 1/2:170:0,100,70:0:0:100,70:3533,2512:-489.526,-201.954,-171.851,-287.926,0,-266.854 1/2:273:0,144,129:0:0:144,129:5117,4581:-787.445,-370.522,-327.174,-417.277,0,-378.444 2/2:116:0,1,115:0:0:1,115:36,4099:-364.053,-361.115,-360.814,-34.6185,-31.3212,0 1/1:382:0,382,0:0:0:382,0:13468,0:-1210.56,-114.993,0,-1210.56,-114.993,-1210.56 1/1:43:0,43,0:0:0:43,0:1525,0:-137.519,-12.9443,0,-137.519,-12.9443,-137.519 1/2:14:0,8,6:0:0:8,6:288,216:-41.3766,-17.877,-15.4688,-23.8582,0,-22.0521 1/2:53:0,23,30:0:0:23,30:824,1080:-154.122,-86.9413,-80.0176,-67.5372,0,-58.5063 1/1:185:0,185,0:0:0:185,0:6542,0:-588.546,-55.6906,0,-588.546,-55.6906,-588.546 1/2:129:0,56,73:0:0:56,73:1935,2605:-366.469,-209.284,-192.427,-157.532,0,-135.557 1/1:214:0,213,1:0:0:213,1:7536,36:-677.811,-64.1194,0,-674.901,-60.8536,-674.6 1/1:112:0,111,1:0:0:111,1:3938,36:-354.137,-33.4143,0,-351.227,-30.1485,-350.926 1/1:99:0,97,2:0:0:97,2:3441,72:-309.464,-29.1999,0,-303.618,-22.9951,-303.016 1/2:152:0,83,69:0:0:83,69:2893,2444:-432.669,-197.447,-172.461,-235.572,0,-214.801 1/2:117:0,87,30:0:0:87,30:3059,1068:-335.192,-86.2565,-60.0669,-249.287,0,-240.256 1/1:291:0,286,5:0:0:286,5:10180,180:-915.483,-86.0946,0,-900.908,-71.1619,-899.403 1/1:53:0,52,1:0:0:52,1:1816,36:-163.342,-15.6536,0,-160.422,-12.3758,-160.121 chr01 3248122 . TCT TCCT 29664.5 PASS AB=0.574526;ABP=38.613;AC=31;AF=0.738095;AN=42;AO=1410;CIGAR=1M1I2M;DP=1808;DPB=2278;DPRA=1.10897;EPP=3064.79;EPPR=852.056;GTI=1;LEN=1;MEANALT=1.25;MQM=59.9865;MQMR=60;NS=21;NUMALT=1;ODDS=8.55157;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49852;QR=13896;RO=391;RPL=1410;RPP=3064.79;RPPR=852.056;RPR=0;RUN=1;SAF=0;SAP=3064.79;SAR=1410;SRF=0;SRP=852.056;SRR=391;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:3,19:3:108:19:657:-52.8278,0,-3.45251 1/1:141:0,141:0:0:141:5017:-451.676,-42.4452,0 1/1:52:0,52:0:0:52:1849:-166.688,-15.6536,0 1/1:135:0,134:0:0:134:4724:-424.96,-40.338,0 0/1:124:41,82:41:1458:82:2853:-219.617,0,-94.1277 0/1:98:49,49:49:1723:49:1737:-127.112,0,-125.853 0/1:132:79,53:79:2815:53:1900:-131.542,0,-213.852 0/0:78:77,0:77:2745:0:0:0,-23.1793,-246.932 1/1:104:0,104:0:0:104:3668:-330.317,-31.3071,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:9:4,5:4:136:5:180:-13.8428,0,-9.86569 0/1:38:18,20:18:643:20:686:-50.6166,0,-46.761 1/1:143:1,141:1:36:141:4987:-445.421,-39.4679,0 0/1:82:48,34:48:1716:34:1167:-80.6432,0,-130.041 1/1:127:0,126:0:0:126:4445:-399.908,-37.9298,0 1/1:75:1,74:1:36:74:2591:-229.838,-18.979,0 1/1:54:1,53:1:36:53:1874:-165.337,-12.6573,0 0/1:112:41,69:41:1451:69:2438:-186.205,0,-97.4166 0/1:121:28,93:28:993:93:3332:-263.673,0,-53.2593 1/1:68:0,68:0:0:68:2420:-218.057,-20.47,0 1/1:86:0,86:0:0:86:3075:-276.978,-25.8886,0 chr01 3329578 . A G 4554.34 PASS AB=0.467706;ABP=7.07758;AC=9;AF=0.214286;AN=42;AO=265;CIGAR=1X;DP=1363;DPB=1363;DPRA=0.871212;EPP=578.45;EPPR=2387.29;GTI=0;LEN=1;MEANALT=1;MQM=59.9019;MQMR=59.9763;NS=21;NUMALT=1;ODDS=8.05588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9481;QR=38975;RO=1098;RPL=0;RPP=578.45;RPPR=2387.29;RPR=265;RUN=1;SAF=265;SAP=578.45;SAR=0;SRF=1098;SRP=2387.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:77,0:77:2707:0:0:0,-23.1793,-243.871 0/0:50:50,0:50:1777:0:0:0,-15.0515,-160.211 0/0:67:66,1:66:2360:1:36:0,-16.5707,-209.06 0/0:74:74,0:74:2618:0:0:0,-22.2762,-235.865 0/1:173:95,78:95:3303:78:2779:-198.246,0,-245.405 0/1:46:22,24:22:784:24:860:-63.8745,0,-57.0365 0/1:54:21,33:21:748:33:1180:-90.2524,0,-51.3897 1/1:52:0,52:0:0:52:1868:-168.399,-15.6536,0 0/0:36:35,1:35:1248:1:36:0,-7.2388,-109.027 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:14:10,4:10:345:4:144:-9.0992,0,-27.1664 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:61:61,0:61:2181:0:0:0,-18.3628,-196.554 0/1:58:30,28:30:1061:28:1004:-73.2161,0,-78.3396 0/0:138:138,0:138:4925:0:0:0,-41.5421,-443.398 0/0:61:61,0:61:2176:0:0:0,-18.3628,-196.107 0/0:177:177,0:177:6298:0:0:0,-53.2823,-566.914 0/1:54:31,23:31:1101:23:822:-58.0471,0,-83.1427 0/1:50:30,20:30:1072:20:716:-49.7162,0,-81.741 0/0:63:62,1:62:2202:1:36:0,-15.3666,-194.654 0/0:48:48,0:48:1709:0:0:0,-14.4494,-154.094 chr01 3336534 . 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T C 6136.34 PASS AB=0.497959;ABP=3.02803;AC=9;AF=0.214286;AN=42;AO=334;CIGAR=1X;DP=1391;DPB=1391;DPRA=1.16215;EPP=702.458;EPPR=2227.12;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9222;MQMR=59.9886;NS=21;NUMALT=1;ODDS=5.55024;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11846;QR=37714;RO=1056;RPL=331;RPP=702.458;RPPR=2227.12;RPR=3;RUN=1;SAF=334;SAP=728.282;SAR=0;SRF=1056;SRP=2296.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:56:56,0:56:2004:0:0:0,-16.8577,-180.634 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.068 0/0:68:68,0:68:2427:0:0:0,-20.47,-218.685 0/0:101:101,0:101:3598:0:0:0,-30.404,-324.027 0/1:129:64,64:64:2292:64:2276:-166.338,0,-167.778 0/1:104:50,54:50:1785:54:1914:-141.227,0,-129.624 0/1:107:49,58:49:1752:58:2072:-154.541,0,-125.754 1/1:90:0,90:0:0:90:3180:-286.234,-27.0927,0 0/0:76:76,0:76:2721:0:0:0,-22.8783,-245.131 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:24:6,18:6:212:18:640:-50.7046,0,-12.1773 0/0:88:88,0:88:3138:0:0:0,-26.4906,-282.645 0/0:97:97,0:97:3464:0:0:0,-29.1999,-311.973 0/0:65:65,0:65:2324:0:0:0,-19.5669,-209.42 0/0:51:51,0:51:1824:0:0:0,-15.3525,-164.441 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 0/1:86:56,30:56:1987:30:1048:-68.7388,0,-153.215 0/1:33:16,17:16:555:17:608:-45.118,0,-40.3421 0/0:59:59,0:59:2103:0:0:0,-17.7608,-189.539 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 chr01 3508991 . AAAGA GAAGT 5388.5 PASS AB=0.510297;ABP=3.41279;AC=10;AF=0.238095;AN=42;AO=309;CIGAR=1X3M1X;DP=1163;DPB=1163;DPRA=1.41978;EPP=656.736;EPPR=1820.62;GTI=0;LEN=5;MEANALT=1.41667;MQM=53.6796;MQMR=59.6384;NS=21;NUMALT=1;ODDS=3.92389;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10808;QR=29640;RO=849;RPL=307;RPP=656.736;RPPR=1820.62;RPR=2;RUN=1;SAF=309;SAP=673.995;SAR=0;SRF=849;SRP=1846.59;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:56:55,1:55:1951:1:36:0,-13.2611,-172.27 0/0:21:21,0:21:722:0:0:0,-6.32163,-65.298 0/0:30:30,0:30:1049:0:0:0,-9.0309,-94.6983 0/0:73:70,2:70:2435:2:67:0,-15.6647,-213.037 0/1:122:57,64:57:1988:64:2233:-164.007,0,-142.4 0/1:62:23,39:23:814:39:1374:-104.671,0,-54.9147 0/1:119:56,62:56:1959:62:2151:-156.608,0,-140.669 1/1:77:0,76:0:0:76:2684:-240.838,-22.8783,0 0/0:108:108,0:108:3756:0:0:0,-32.5112,-338.175 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 1/1:5:0,5:0:0:5:171:-15.7027,-1.50515,0 0/1:27:19,8:19:645:8:281:-17.3746,0,-50.2411 0/0:68:68,0:68:2303:0:0:0,-20.47,-207.512 0/0:41:41,0:41:1429:0:0:0,-12.3422,-128.684 0/0:57:57,0:57:1996:0:0:0,-17.1587,-179.684 0/0:40:40,0:40:1420:0:0:0,-12.0412,-128.052 0/0:58:57,1:57:2019:1:36:0,-13.8619,-178.384 0/1:63:28,35:28:979:35:1209:-89.8536,0,-69.4552 0/1:44:28,15:28:990:15:530:-34.6336,0,-76.1075 0/0:55:54,1:54:1899:1:36:0,-12.9621,-167.585 0/0:31:31,0:31:1070:0:0:0,-9.33193,-96.6067 chr01 3509013 . T A 17838.1 PASS AB=0.491803;ABP=3.25949;AC=32;AF=0.761905;AN=42;AO=840;CIGAR=1X;DP=1141;DPB=1141;DPRA=1.43455;EPP=1827.05;EPPR=654.452;GTI=0;LEN=1;MEANALT=1.05263;MQM=59.6571;MQMR=53.8367;NS=21;NUMALT=1;ODDS=4.49595;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29986;QR=10661;RO=300;RPL=840;RPP=1827.05;RPPR=654.452;RPR=0;RUN=1;SAF=840;SAP=1827.05;SAR=0;SRF=300;SRP=654.452;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:1,55:1:36:55:1976:-174.518,-13.2611,0 1/1:20:0,20:0:0:20:716:-64.7644,-6.0206,0 1/1:30:0,30:0:0:30:1072:-96.77,-9.0309,0 1/1:72:2,70:2:72:70:2507:-219.044,-14.8407,0 0/1:119:62,57:62:2205:57:2025:-146.688,0,-162.421 0/1:61:38,23:38:1364:23:828:-56.4751,0,-104.162 0/1:117:61,56:61:2163:56:2001:-145.09,0,-157.468 0/0:73:73,0:73:2607:0:0:0,-21.9752,-233.659 1/1:106:0,106:0:0:106:3800:-342.194,-31.9092,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/0:5:5,0:5:162:0:0:0,-1.50515,-14.8783 0/1:27:8,19:8:269:19:669:-52.4061,0,-16.3416 1/1:66:0,66:0:0:66:2336:-210.42,-19.868,0 1/1:40:0,40:0:0:40:1424:-128.297,-12.0412,0 1/1:57:0,56:0:0:56:2001:-179.913,-16.8577,0 1/1:40:0,40:0:0:40:1419:-127.986,-12.0412,0 1/1:58:1,57:1:36:57:2048:-180.991,-13.8619,0 0/1:60:33,27:33:1171:27:964:-69.0117,0,-87.5314 0/1:43:15,28:15:540:28:999:-77.2753,0,-35.894 1/1:55:1,54:1:36:54:1913:-168.843,-12.9621,0 1/1:30:0,30:0:0:30:1072:-96.7915,-9.0309,0 chr01 3513065 . T C 14510.9 PASS AB=0.362989;ABP=232.097;AC=9;AF=0.214286;AN=42;AO=665;CIGAR=1X;DP=4028;DPB=4028;DPRA=1.31289;EPP=1447.04;EPPR=7305.67;GTI=1;LEN=1;MEANALT=1;MQM=59.9068;MQMR=59.8002;NS=21;NUMALT=1;ODDS=5.78165;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23582;QR=119858;RO=3363;RPL=363;RPP=15.1607;RPPR=31.7573;RPR=302;RUN=1;SAF=363;SAP=15.1607;SAR=302;SRF=1787;SRP=31.7573;SRR=1576;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:328:328,0:328:11694:0:0:0,-98.7378,-1052.28 0/0:150:150,0:150:5363:0:0:0,-45.1545,-482.785 0/0:200:200,0:200:7132:0:0:0,-60.206,-641.901 0/0:259:258,1:258:9205:1:36:0,-74.3753,-824.664 0/1:312:204,108:204:7244:108:3859:-253.579,0,-557.043 0/0:199:199,0:199:7100:0:0:0,-59.905,-638.979 0/1:272:165,107:165:5893:107:3827:-262.738,0,-448.564 1/1:150:0,150:0:0:150:5261:-473.627,-45.1545,0 0/1:293:196,97:196:6970:97:3444:-221.969,0,-538.682 0/1:13:9,4:9:320:4:144:-9.40023,0,-25.229 0/0:13:13,0:13:455:0:0:0,-3.91339,-41.282 0/0:53:53,0:53:1900:0:0:0,-15.9546,-171.276 0/1:225:150,75:150:5347:75:2648:-170.828,0,-413.615 0/0:241:240,1:240:8558:1:36:0,-68.95,-766.579 0/0:296:296,0:296:10570:0:0:0,-89.1049,-951.068 0/0:158:158,0:158:5604:0:0:0,-47.5627,-504.478 0/0:133:133,0:133:4748:0:0:0,-40.037,-426.97 0/1:149:73,76:73:2571:76:2683:-196.856,0,-186.764 0/1:141:98,43:98:3496:43:1536:-96.0859,0,-272.398 0/0:325:322,3:322:11464:3:108:0,-87.7596,-1021.55 0/0:118:118,0:118:4224:0:0:0,-35.5215,-380.217 chr01 3747489 . A T 26098.4 PASS AB=0.530702;ABP=8.61041;AC=33;AF=0.785714;AN=42;AO=1552;CIGAR=1X;DP=1929;DPB=1929;DPRA=1.91837;EPP=3373.14;EPPR=819.484;GTI=1;LEN=1;MEANALT=1.05;MQM=31.9588;MQMR=40.1037;NS=21;NUMALT=1;ODDS=2.56196;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55563;QR=13447;RO=376;RPL=1552;RPP=3373.14;RPPR=819.484;RPR=0;RUN=1;SAF=1552;SAP=3373.14;SAR=0;SRF=376;SRP=819.484;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:0,109:0:0:109:3912:-299.535,-32.8123,0 1/1:126:0,126:0:0:126:4520:-353.831,-37.9298,0 1/1:55:0,55:0:0:55:1967:-150.938,-16.5567,0 1/1:124:1,123:1:36:123:4381:-331.198,-33.825,0 0/1:263:154,109:154:5516:109:3916:-219.773,0,-402.144 0/1:82:48,33:48:1716:33:1184:-68.2284,0,-120.521 0/1:155:55,100:55:1959:100:3570:-232.979,0,-120.411 0/0:49:49,0:49:1748:0:0:0,-14.7505,-147.829 1/1:134:3,131:3:104:131:4682:-341.601,-31.3482,0 1/1:10:0,10:0:0:10:360:-27.7963,-3.0103,0 0/1:4:1,3:1:36:3:108:-7.96188,0,-2.18348 0/1:23:12,11:12:432:11:392:-23.5232,0,-30.7303 1/1:112:0,112:0:0:112:4019:-306.882,-33.7154,0 1/1:76:0,76:0:0:76:2731:-208.476,-22.8783,0 1/1:102:0,102:0:0:102:3668:-280.347,-30.7051,0 1/1:107:2,105:2:72:105:3738:-273.142,-25.468,0 1/1:105:1,104:1:36:104:3724:-275.142,-28.0596,0 0/1:81:29,52:29:1040:52:1857:-117.803,0,-64.9067 0/1:76:21,55:21:752:55:1963:-127.919,0,-42.5333 1/1:65:0,65:0:0:65:2332:-178.84,-19.567,0 1/1:71:0,71:0:0:71:2539:-197.344,-21.3731,0 chr01 3747538 . T C 69006.9 PASS AB=0.509074;ABP=3.75901;AC=33;AF=0.785714;AN=42;AO=3142;CIGAR=1X;DP=3812;DPB=3812;DPRA=1.26448;EPP=6825.78;EPPR=1455.73;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6512;MQMR=59.9492;NS=21;NUMALT=1;ODDS=2.86866;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=112290;QR=23516;RO=669;RPL=0;RPP=6825.78;RPPR=1455.73;RPR=3142;RUN=1;SAF=0;SAP=6825.78;SAR=3142;SRF=0;SRP=1455.73;SRR=669;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:206:0,206:0:0:206:7353:-661.781,-62.0122,0 1/1:139:0,139:0:0:139:4965:-446.908,-41.8432,0 1/1:223:0,223:0:0:223:7989:-718.969,-67.1297,0 1/1:194:0,194:0:0:194:6956:-625.888,-58.3998,0 0/1:413:224,189:224:7874:189:6720:-480.484,0,-584.377 0/1:138:82,56:82:2916:56:2008:-139.363,0,-221.134 0/1:247:112,135:112:3944:135:4808:-358.507,0,-280.487 0/0:145:145,0:145:5092:0:0:0,-43.6493,-458.428 1/1:523:0,523:0:0:523:18705:-1682.56,-157.439,0 1/1:44:1,43:1:36:43:1517:-132.852,-9.64705,0 0/1:24:7,17:7:248:17:612:-48.1782,0,-15.4395 0/1:45:17,28:17:592:28:1008:-77.4772,0,-40.06 1/1:237:0,236:0:0:236:8444:-759.541,-71.0431,0 1/1:188:3,185:3:108:185:6632:-586.245,-46.5185,0 1/1:341:2,339:2:68:339:12091:-1081.41,-96.1935,0 1/1:122:0,122:0:0:122:4372:-393.653,-36.7257,0 1/1:186:2,184:2:72:184:6580:-585.411,-49.1549,0 0/1:116:53,63:53:1841:63:2234:-166.382,0,-131.049 0/1:64:19,45:19:653:45:1616:-125.966,0,-39.8234 1/1:170:2,168:2:72:168:6005:-533.342,-44.3384,0 1/1:47:0,47:0:0:47:1675:-151.027,-14.1484,0 chr01 4013841 . G A 1877.09 PASS AB=0.357357;ABP=61.8618;AC=9;AF=0.214286;AN=42;AO=134;CIGAR=1X;DP=958;DPB=958;DPRA=0.927049;EPP=293.988;EPPR=1787.96;GTI=2;LEN=1;MEANALT=1.125;MQM=60;MQMR=59.9331;NS=21;NUMALT=1;ODDS=2.11478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4751;QR=28334;RO=822;RPL=0;RPP=293.988;RPPR=1787.96;RPR=134;RUN=1;SAF=0;SAP=293.988;SAR=134;SRF=0;SRP=1787.96;SRR=822;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:32,0:32:1098:0:0:0,-9.63296,-99.1217 0/0:27:27,0:27:933:0:0:0,-8.12781,-84.2758 0/0:67:67,0:67:2298:0:0:0,-20.169,-207.073 0/0:32:32,0:32:1112:0:0:0,-9.63296,-100.384 0/1:51:37,14:37:1271:14:504:-30.3456,0,-99.326 0/1:13:10,3:10:351:3:108:-6.16178,0,-28.0133 0/1:45:36,9:36:1257:9:324:-15.9595,0,-99.8839 1/1:15:0,15:0:0:15:531:-48.1219,-4.51545,0 0/0:61:60,0:60:2090:0:0:0,-18.0618,-188.069 0/0:11:11,0:11:380:0:0:0,-3.31133,-34.532 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:11:9,2:9:312:2:72:-3.52539,0,-25.104 0/0:49:49,0:49:1670:0:0:0,-14.7505,-150.58 0/0:60:60,0:60:2087:0:0:0,-18.0618,-188.093 0/0:92:92,0:92:3152:0:0:0,-27.6948,-283.901 0/0:50:50,0:50:1762:0:0:0,-15.0515,-158.862 0/0:28:28,0:28:962:0:0:0,-8.42884,-86.8851 0/1:162:94,68:94:3170:68:2401:-167.577,0,-236.761 0/1:46:25,20:25:896:20:703:-49.8114,0,-67.1767 0/0:55:55,0:55:1873:0:0:0,-16.5566,-168.84 0/0:46:46,0:46:1588:0:0:0,-13.8474,-143.207 chr01 4013843 . TC GG 16617.2 PASS AB=0.63964;ABP=59.4099;AC=33;AF=0.785714;AN=42;AO=827;CIGAR=2X;DP=965;DPB=965;DPRA=2.96563;EPP=1798.82;EPPR=296.159;GTI=2;LEN=2;MEANALT=1.15;MQM=59.9383;MQMR=60;NS=21;NUMALT=1;ODDS=1.43304;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28054;QR=4636;RO=135;RPL=0;RPP=1798.82;RPPR=296.159;RPR=827;RUN=1;SAF=0;SAP=1798.82;SAR=827;SRF=0;SRP=296.159;SRR=135;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:29:0,29:0:0:29:994:-89.7662,-8.72987,0 1/1:27:0,27:0:0:27:901:-81.3924,-8.12781,0 1/1:67:0,66:0:0:66:2265:-203.85,-19.868,0 1/1:33:0,33:0:0:33:1149:-103.715,-9.93399,0 0/1:49:14,35:14:493:35:1223:-95.6213,0,-29.9512 0/1:14:3,11:3:108:11:369:-29.318,0,-5.86075 0/1:45:9,36:9:317:36:1234:-97.812,0,-15.3234 0/0:16:16,0:16:545:0:0:0,-4.81648,-49.3707 1/1:65:0,65:0:0:65:2209:-199.072,-19.567,0 1/1:11:0,11:0:0:11:389:-35.348,-3.31133,0 0/1:5:3,2:3:108:2:70:-5.14218,0,-8.57002 0/1:11:2,9:2:70:9:311:-25.0116,0,-3.336 1/1:51:0,51:0:0:51:1710:-154.176,-15.3525,0 1/1:61:0,61:0:0:61:2084:-187.825,-18.3628,0 1/1:96:0,96:0:0:96:3293:-296.585,-28.8989,0 1/1:50:0,50:0:0:50:1708:-153.998,-15.0515,0 1/1:26:0,26:0:0:26:884:-79.8682,-7.82678,0 0/1:159:68,91:68:2344:91:2981:-220.669,0,-163.352 0/1:50:20,29:20:651:29:951:-70.8994,0,-43.9092 1/1:56:0,56:0:0:56:1888:-170.191,-16.8577,0 1/1:44:0,43:0:0:43:1441:-129.707,-12.9443,0 chr01 4029813 . T G 2108.1 PASS AB=0.460465;ABP=5.92916;AC=9;AF=0.214286;AN=42;AO=125;CIGAR=1X;DP=673;DPB=673;DPRA=0.848158;EPP=265.828;EPPR=1116.09;GTI=1;LEN=1;MEANALT=1;MQM=59.752;MQMR=59.469;NS=21;NUMALT=1;ODDS=1.68079;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4492;QR=19580;RO=548;RPL=1;RPP=265.828;RPPR=1116.09;RPR=124;RUN=1;SAF=125;SAP=274.444;SAR=0;SRF=548;SRP=1192.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6752 0/0:20:20,0:20:708:0:0:0,-6.0206,-64.0456 0/1:78:37,41:37:1313:41:1476:-109.653,0,-93.9681 0/1:16:13,3:13:468:3:108:-5.25869,0,-37.6432 0/1:37:17,20:17:608:20:716:-53.6296,0,-43.7837 1/1:25:1,24:1:36:24:860:-76.6165,-6.42701,0 0/0:107:107,0:107:3816:0:0:0,-32.2102,-343.446 0/0:16:15,1:15:531:1:36:0,-1.29547,-44.2234 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.65272 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/0:35:35,0:35:1241:0:0:0,-10.536,-111.953 0/0:43:43,0:43:1540:0:0:0,-12.9443,-136.817 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/1:45:23,22:23:828:22:792:-58.0593,0,-61.284 0/1:26:19,7:19:680:7:252:-15.2022,0,-53.7024 0/0:37:36,1:36:1283:1:36:0,-7.53983,-112.174 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 chr01 4031098 . C T 0.0431805 PASS AB=0.531303;ABP=8.04033;AC=9;AF=0.214286;AN=42;AO=448;CIGAR=1X;DP=1880;DPB=1880;DPRA=1.07822;EPP=975.83;EPPR=3112.56;GTI=7;LEN=1;MEANALT=1;MQM=11.308;MQMR=11.1362;NS=21;NUMALT=1;ODDS=5.16304;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16061;QR=51199;RO=1432;RPL=0;RPP=975.83;RPPR=3112.56;RPR=448;RUN=1;SAF=448;SAP=975.83;SAR=0;SRF=1432;SRP=3112.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:93:90,3:90:3220:3:108:0,-25.1985,-85.8529 0/0:95:95,0:95:3408:0:0:0,-28.5978,-100.077 0/0:97:97,0:97:3468:0:0:0,-29.1999,-95.7498 0/0:123:123,0:123:4376:0:0:0,-37.0267,-121.178 0/1:174:67,107:67:2392:107:3840:-49.4345,0,-13.7961 0/1:126:58,68:58:2080:68:2440:-35.8196,0,-22.6827 0/1:57:21,36:21:748:36:1288:-18.4556,0,-3.89417 1/1:128:0,128:0:0:128:4577:-126.128,-38.5318,0 0/0:117:116,1:116:4144:1:36:0,-34.2215,-112.996 0/0:12:12,0:12:432:0:0:0,-3.61236,-12.0668 0/1:14:9,5:9:324:5:180:-3.04761,0,-4.79523 0/1:51:31,20:31:1112:20:720:-4.35413,0,-15.4104 0/0:142:142,0:142:5084:0:0:0,-42.7463,-140.517 0/0:69:69,0:69:2472:0:0:0,-20.7711,-67.7969 0/0:96:96,0:96:3400:0:0:0,-28.8989,-96.821 0/0:94:94,0:94:3356:0:0:0,-28.2968,-93.0503 0/0:90:90,0:90:3236:0:0:0,-27.0927,-88.7467 0/1:91:40,51:40:1440:51:1832:-22.7871,0,-12.2707 0/1:78:51,27:51:1832:27:968:-1.34459,0,-26.79 0/0:91:89,2:89:3184:2:72:0,-25.3061,-86.0219 0/0:42:42,0:42:1491:0:0:0,-12.6433,-42.3481 chr01 4031218 . A G 36390.3 PASS AB=0.476005;ABP=6.866;AC=33;AF=0.785714;AN=42;AO=1679;CIGAR=1X;DP=2138;DPB=2138;DPRA=2.088;EPP=3579.76;EPPR=991.03;GTI=0;LEN=1;MEANALT=1.15;MQM=57.8827;MQMR=59.7956;NS=21;NUMALT=1;ODDS=18.0829;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59634;QR=16249;RO=455;RPL=1671;RPP=3579.76;RPPR=991.03;RPR=8;RUN=1;SAF=0;SAP=3648.91;SAR=1679;SRF=0;SRP=991.03;SRR=455;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92:0:0:92:3279:-295.23,-27.6948,0 1/1:60:0,60:0:0:60:2140:-192.795,-18.0618,0 1/1:120:0,120:0:0:120:4244:-382.023,-36.1236,0 1/1:94:0,94:0:0:94:3328:-299.638,-28.2968,0 0/1:254:141,113:141:5035:113:3992:-282.55,0,-376.831 0/1:82:35,47:35:1244:47:1671:-125.982,0,-87.5802 0/1:219:126,92:126:4504:92:3279:-229.425,0,-339.534 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.196 1/1:286:1,283:1:36:283:10070:-902.004,-82.2544,0 1/1:24:0,24:0:0:24:860:-77.7124,-7.22472,0 0/1:14:5,9:5:180:9:316:-24.5644,0,-12.3376 0/1:36:14,22:14:504:22:788:-60.3995,0,-34.8602 1/1:134:0,134:0:0:134:4747:-427.143,-40.338,0 1/1:122:0,122:0:0:122:4355:-391.967,-36.7257,0 1/1:106:0,106:0:0:106:3770:-339.392,-31.9092,0 1/1:62:0,62:0:0:62:2187:-196.895,-18.6639,0 1/1:61:0,61:0:0:61:2166:-195.122,-18.3628,0 0/1:77:50,27:50:1787:27:972:-64.6022,0,-137.862 0/1:89:32,57:32:1135:57:2001:-153.37,0,-75.6664 1/1:112:1,110:1:36:110:3897:-347.215,-30.1759,0 1/1:44:0,44:0:0:44:1572:-141.199,-13.2453,0 chr01 4040180 . TCT CCT,CCC 27033.2 PASS AB=0.549505,0.450495;ABP=11.6102,11.6102;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1124,260;CIGAR=1X2M,1X1M1X;DP=1387;DPB=1387;DPRA=0.887162,0.813462;EPP=2443.75,567.593;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.6,2;MQM=39.702,29.5192;MQMR=52;NS=21;NUMALT=2;ODDS=0.903384;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39939,8940;QR=36;RO=1;RPL=1124,260;RPP=2443.75,567.593;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1124,260;SAP=2443.75,567.593;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:0,71,2:0:0:71,2:2503,67:-214.471,-21.3731,0,-210.392,-17.032,-209.79 1/1:39:0,39,0:0:0:39,0:1392,0:-122.964,-11.7402,0,-122.964,-11.7402,-122.964 1/1:92:0,92,0:0:0:92,0:3279,0:-281.518,-27.6948,0,-281.518,-27.6948,-281.518 1/1:36:0,36,0:0:0:36,0:1274,0:-109.173,-10.8371,0,-109.173,-10.8371,-109.173 1/2:79:0,51,28:0:0:51,28:1824,964:-199.08,-57.8503,-42.4978,-141.52,0,-133.091 1/2:66:0,31,35:0:0:31,35:1087,1195:-164.535,-78.4545,-69.1226,-86.3941,0,-75.8581 1/2:61:0,39,22:0:0:39,22:1382,745:-159.298,-49.554,-37.8138,-110.05,0,-103.427 2/2:74:0,0,74:0:0:0,74:0,2527:-188.847,-188.847,-188.847,-22.2762,-22.2762,0 1/1:235:0,235,0:0:0:235,0:8343,0:-714.469,-70.7421,0,-714.469,-70.7421,-714.469 1/1:5:0,5,0:0:0:5,0:180,0:-16.1966,-1.50515,0,-16.1966,-1.50515,-16.1966 1/2:5:0,3,2:0:0:3,2:108,72:-13.5539,-4.91319,-4.0101,-8.95573,0,-8.35367 1/2:11:0,4,7:0:0:4,7:144,244:-27.7504,-16.2551,-15.051,-11.8236,0,-9.7164 1/1:51:0,50,1:0:0:50,1:1787,36:-153.119,-15.0515,0,-151.037,-12.7039,-150.736 1/1:53:0,51,1:0:0:51,1:1813,34:-155.612,-15.3525,0,-153.555,-13.3347,-153.254 1/1:127:0,127,0:0:0:127,0:4535,0:-389.026,-38.2308,0,-389.026,-38.2308,-389.026 1/1:41:0,40,0:0:0:40,0:1423,0:-122.193,-12.0412,0,-122.193,-12.0412,-122.193 1/1:60:1,59,0:1:36:59,0:2104,0:-176.996,-14.4726,0,-177.297,-17.7608,-180.227 1/2:112:0,45,67:0:0:45,67:1586,2318:-278.801,-153.432,-139.886,-125.69,0,-105.521 1/2:70:0,49,21:0:0:49,21:1738,738:-178.312,-43.8167,-29.0663,-134.781,0,-128.46 1/1:47:0,47,0:0:0:47,0:1678,0:-147.753,-14.1484,0,-147.753,-14.1484,-147.753 1/1:50:0,50,0:0:0:50,0:1759,0:-153.965,-15.0515,0,-153.965,-15.0515,-153.965 chr01 4071343 . A G 9974.91 PASS AB=0.423402;ABP=45.2584;AC=9;AF=0.214286;AN=42;AO=553;CIGAR=1X;DP=2778;DPB=2778;DPRA=0.948044;EPP=1203.83;EPPR=4834.54;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9874;NS=21;NUMALT=1;ODDS=17.2415;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19803;QR=79405;RO=2225;RPL=0;RPP=1203.83;RPPR=4834.54;RPR=553;RUN=1;SAF=553;SAP=1203.83;SAR=0;SRF=2225;SRP=4834.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:187:187,0:187:6689:0:0:0,-56.2926,-602.085 0/0:121:119,2:119:4226:2:72:0,-29.5879,-373.683 0/0:85:85,0:85:3052:0:0:0,-25.5875,-274.909 0/0:136:136,0:136:4876:0:0:0,-40.9401,-438.992 0/1:362:195,167:195:6981:167:5992:-430.411,0,-519.379 0/1:113:74,39:74:2656:39:1396:-91.9227,0,-205.269 0/1:148:82,66:82:2932:66:2372:-169.185,0,-219.562 1/1:196:1,195:1:32:195:6962:-623.444,-55.8026,0 0/0:314:314,0:314:11217:0:0:0,-94.5234,-1009.41 0/0:18:18,0:18:629:0:0:0,-5.41854,-56.9338 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/1:46:19,27:19:676:27:957:-72.5965,0,-47.3206 0/0:204:204,0:204:7271:0:0:0,-61.4101,-654.441 0/0:130:129,1:129:4597:1:36:0,-35.5356,-410.297 0/0:156:156,0:156:5570:0:0:0,-46.9607,-501.351 0/0:61:61,0:61:2177:0:0:0,-18.3628,-196.194 0/0:111:109,2:109:3912:2:72:0,-26.5776,-345.436 0/1:41:16,25:16:568:25:900:-68.9788,0,-39.1096 0/1:109:90,19:90:3198:19:684:-29.0781,0,-255.229 0/0:164:162,2:162:5782:2:72:0,-42.5322,-513.656 0/0:66:66,0:66:2292:0:0:0,-19.868,-206.536 chr01 4114955 . TCG TCA,GCA 52071.4 PASS AB=0.585165,0.413462;ABP=48.8737,50.3651;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1511,396;CIGAR=2M1X,1X1M1X;DP=1914;DPB=1915;DPRA=1.00165,1.09275;EPP=3.33365,4.41408;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.85,2.16667;MQM=59.9947,59.8258;MQMR=60;NS=21;NUMALT=2;ODDS=2.20313;PAIRED=0,0;PAIREDR=0;PAO=0,3;PQA=0,108;PQR=0;PRO=0;QA=53433,13618;QR=36;RO=1;RPL=1510,395;RPP=3275.42,854.249;RPPR=5.18177;RPR=1,1;RUN=1,1;SAF=747,205;SAP=3.42562,4.08507;SAR=764,191;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:120:0,119,0:0:0:119,0:4242,0:-381.729,-35.8226,0,-381.729,-35.8226,-381.729 1/1:81:0,80,1:0:0:80,1:2829,36:-254.489,-24.0824,0,-251.552,-20.7852,-251.251 1/1:66:0,65,0:0:0:65,0:2308,0:-207.62,-19.567,0,-207.62,-19.567,-207.62 1/2:88:0,52,36:0:0:52,36:1860,1267:-255.163,-103.491,-87.8374,-152.026,0,-141.189 1/2:113:0,68,45:0:0:68,45:2407,1559:-322.969,-126.901,-106.431,-196.417,0,-182.871 1/2:69:0,42,26:0:0:42,26:1473,856:-189.112,-69.2298,-56.5865,-119.937,0,-112.11 1/2:150:0,89,61:0:0:89,61:3125,2109:-426.048,-171.708,-144.917,-254.687,0,-236.325 2/2:91:0,0,91:0:0:0,91:0,3154:-284.087,-284.087,-284.087,-27.3937,-27.3937,0 1/1:155:0,155,0:0:0:155,0:5480,0:-493.331,-46.6597,0,-493.331,-46.6597,-493.331 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/2:37:0,19,18:0:0:19,18:676,637:-107.334,-52.2403,-46.5207,-55.4484,0,-50.0299 1/1:109:0,109,0:0:0:109,0:3815,0:-343.55,-32.8123,0,-343.55,-32.8123,-343.55 1/1:104:0,104,0:0:0:104,0:3630,0:-326.905,-31.3071,0,-326.905,-31.3071,-326.905 1/1:126:0,125,1:0:0:125,1:4440,36:-399.412,-37.6288,0,-396.475,-34.3315,-396.174 1/1:72:0,71,0:0:0:71,0:2536,0:-228.22,-21.3731,0,-228.22,-21.3731,-228.22 1/1:35:0,35,0:0:0:35,0:1248,0:-112.625,-10.5361,0,-112.625,-10.5361,-112.625 1/2:139:0,79,60:0:0:79,60:2794,2007:-390.05,-162.474,-138.692,-227.56,0,-209.498 1/2:126:0,73,53:0:0:73,53:2583,1813:-357.89,-147.492,-125.517,-210.745,0,-194.79 1/1:109:1,104,2:1:36:104,2:3691,72:-328.819,-28.3632,0,-323.245,-25.415,-325.58 1/1:113:0,113,0:0:0:113,0:3972,0:-357.675,-34.0164,0,-357.675,-34.0164,-357.675 chr01 4163444 . C T 4731.08 PASS AB=0.406632;ABP=46.3981;AC=10;AF=0.238095;AN=42;AO=333;CIGAR=1X;DP=1597;DPB=1597;DPRA=1.11576;EPP=726.111;EPPR=2704.49;GTI=0;LEN=1;MEANALT=1;MQM=59.985;MQMR=59.9778;NS=21;NUMALT=1;ODDS=0.489125;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10781;QR=45097;RO=1264;RPL=333;RPP=726.111;RPPR=2721.76;RPR=0;RUN=1;SAF=0;SAP=726.111;SAR=333;SRF=2;SRP=2730.41;SRR=1262;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:106:106,0:106:3792:0:0:0,-31.9092,-341.392 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:73:71,2:71:2533:2:57:0,-16.5619,-222.806 0/1:56:30,26:30:1076:26:800:-55.4253,0,-80.2952 0/1:97:42,55:42:1512:55:1843:-136.938,0,-107.175 0/1:42:22,20:22:784:20:651:-46.2511,0,-58.2407 0/1:76:53,23:53:1860:23:774:-47.091,0,-144.799 1/1:97:0,97:0:0:97:3018:-271.837,-29.1999,0 0/0:137:136,1:136:4848:1:36:0,-37.6428,-432.875 0/0:22:22,0:22:758:0:0:0,-6.62266,-68.5342 0/1:5:3,2:3:108:2:68:-4.95256,0,-8.57002 0/1:31:13,18:13:468:18:564:-41.7231,0,-33.1277 0/0:170:170,0:170:6072:0:0:0,-51.1751,-546.579 0/0:92:92,0:92:3296:0:0:0,-27.6948,-296.859 0/0:84:84,0:84:3001:0:0:0,-25.2865,-270.32 0/0:39:39,0:39:1377:0:0:0,-11.7402,-124.227 0/0:27:27,0:27:960:0:0:0,-8.12781,-86.7163 0/1:68:27,41:27:964:41:1380:-104.017,0,-66.6068 0/1:198:150,48:150:5363:48:1590:-83.7702,0,-423.198 0/0:96:96,0:96:3433:0:0:0,-28.8989,-309.177 0/0:49:49,0:49:1744:0:0:0,-14.7505,-157.244 chr01 4164597 . G A 24569.2 PASS AB=0.534;ABP=8.03074;AC=32;AF=0.761905;AN=42;AO=904;CIGAR=1X;DP=1204;DPB=1204;DPRA=0.862121;EPP=24.235;EPPR=6.51361;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.52699;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32265;QR=10582;RO=300;RPL=0;RPP=1966.02;RPPR=645.795;RPR=904;RUN=1;SAF=499;SAP=24.235;SAR=405;SRF=162;SRP=7.17953;SRR=138;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:1,56:1:36:56:1981:-174.965,-13.5604,0 1/1:67:0,67:0:0:67:2396:-215.897,-20.169,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 0/1:53:24,29:24:837:29:1036:-77.5993,0,-59.6911 0/1:79:38,41:38:1331:41:1454:-107.373,0,-96.3076 0/1:48:27,21:27:968:21:747:-53.1049,0,-72.9879 0/1:63:28,35:28:996:35:1256:-94.3804,0,-70.99 0/0:66:66,0:66:2331:0:0:0,-19.868,-210.048 1/1:55:0,55:0:0:55:1967:-177.304,-16.5567,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:24:8,16:8:279:16:576:-44.9503,0,-18.2228 1/1:45:0,45:0:0:45:1604:-144.648,-13.5464,0 1/1:42:0,42:0:0:42:1508:-136.015,-12.6433,0 1/1:102:0,102:0:0:102:3624:-326.365,-30.7051,0 1/1:39:0,39:0:0:39:1391:-125.488,-11.7402,0 1/1:23:0,23:0:0:23:819:-74.0316,-6.92369,0 0/1:124:63,61:63:2217:61:2180:-159.138,0,-162.466 0/1:105:43,62:43:1515:62:2214:-167.915,0,-105.034 1/1:52:0,52:0:0:52:1868:-168.399,-15.6536,0 1/1:119:0,119:0:0:119:4248:-382.498,-35.8226,0 chr01 4189686 . T C 12602.2 PASS AB=0.498969;ABP=3.01925;AC=10;AF=0.238095;AN=42;AO=681;CIGAR=1X;DP=2745;DPB=2745;DPRA=1.07513;EPP=1455.84;EPPR=4467.57;GTI=0;LEN=1;MEANALT=1;MQM=59.9824;MQMR=59.9671;NS=21;NUMALT=1;ODDS=15.7283;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24180;QR=73768;RO=2064;RPL=3;RPP=1455.84;RPPR=4467.57;RPR=678;RUN=1;SAF=681;SAP=1481.78;SAR=0;SRF=2064;SRP=4484.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:70,1:70:2491:1:36:0,-17.7749,-220.845 0/0:104:104,0:104:3715:0:0:0,-31.3071,-334.552 0/0:136:136,0:136:4884:0:0:0,-40.9401,-439.084 0/1:125:76,49:76:2720:49:1720:-117.454,0,-207.414 0/1:325:163,162:163:5816:162:5750:-419.784,0,-425.718 0/1:114:44,70:44:1564:70:2464:-187.696,0,-106.734 0/1:188:87,101:87:3114:101:3612:-268.693,0,-223.892 1/1:194:0,194:0:0:194:6896:-620.712,-58.3998,0 0/0:297:296,1:296:10564:1:36:0,-85.8076,-947.078 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/1:12:4,8:4:144:8:288:-22.655,0,-9.70126 0/1:49:18,31:18:648:31:1086:-83.2942,0,-43.9014 0/0:132:132,0:132:4705:0:0:0,-39.736,-423.564 0/0:127:127,0:127:4517:0:0:0,-38.2308,-406.699 0/0:295:295,0:295:10565:0:0:0,-88.8038,-950.716 0/0:115:115,0:115:4118:0:0:0,-34.6184,-370.803 0/0:125:125,0:125:4476:0:0:0,-37.6287,-403.009 0/1:113:62,51:62:2207:51:1828:-130.785,0,-164.878 0/1:44:32,12:32:1136:12:428:-25.6135,0,-89.3036 0/0:85:84,1:84:3020:1:36:0,-21.9893,-268.432 0/0:68:68,0:68:2436:0:0:0,-20.47,-219.495 chr01 4192546 . ACTGTT GCTATC,ACTGTC 52466.1 PASS AB=0.525157,0.468553;ABP=6.50651,8.47312;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1434,398;CIGAR=1X2M1X1M1X,5M1X;DP=1841;DPB=1841;DPRA=0,0.950431;EPP=1868.75,841.395;EPPR=5.18177;GTI=0;LEN=6,1;MEANALT=1.95238,2.41667;MQM=56.7294,59.9573;MQMR=60;NS=21;NUMALT=2;ODDS=13.0964;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50531,14193;QR=35;RO=1;RPL=839,195;RPP=93.1643,3.35948;RPPR=5.18177;RPR=595,203;RUN=1,1;SAF=677,192;SAP=12.7017,4.07967;SAR=757,206;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:148:0,146,1:0:0:146,1:5175,36:-464.56,-43.9504,0,-461.622,-41.0128,-461.321 1/1:69:0,69,0:0:0:69,0:2456,0:-221.013,-20.7711,0,-221.013,-20.7711,-221.013 1/1:51:0,51,0:0:0:51,0:1798,0:-161.775,-15.3525,0,-161.775,-15.3525,-161.775 1/2:50:0,30,20:0:0:30,20:1070,716:-145.772,-58.7471,-49.7162,-87.3815,0,-81.3609 1/2:130:0,75,54:0:0:75,54:2633,1908:-368.889,-155.458,-132.881,-213.501,0,-197.246 1/2:73:1,34,38:1:35:34,38:1190,1356:-203.705,-107.686,-100.299,-93.4744,0,-84.883 1/2:134:0,73,61:0:0:73,61:2574,2166:-385.944,-176.843,-154.868,-209.455,0,-191.092 2/2:99:0,2,96:0:0:2,96:70,3431:-308.691,-303.003,-302.401,-28.8989,-23.1247,0 1/1:182:0,182,0:0:0:182,0:6380,0:-573.653,-54.7875,0,-573.653,-54.7875,-573.653 1/1:14:0,14,0:0:0:14,0:497,0:-45.0217,-4.21442,0,-45.0217,-4.21442,-45.0217 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/2:26:0,15,11:0:0:15,11:537,396:-76.1676,-32.6714,-28.156,-43.8542,0,-40.5429 1/1:106:0,106,0:0:0:106,0:3712,0:-333.626,-31.9092,0,-333.626,-31.9092,-333.626 1/1:74:0,72,2:0:0:72,2:2518,72:-226.378,-21.6742,0,-220.503,-15.4395,-219.901 1/1:128:0,127,0:0:0:127,0:4490,0:-403.329,-38.2308,0,-403.329,-38.2308,-403.329 1/1:58:0,57,0:0:0:57,0:2013,0:-180.884,-17.1587,0,-180.884,-17.1587,-180.884 1/1:72:0,71,1:0:0:71,1:2503,21:-225.08,-21.3731,0,-223.493,-19.5742,-223.192 1/2:113:0,50,63:0:0:50,63:1756,2264:-327.764,-185.057,-170.006,-143.061,0,-124.096 1/2:105:0,56,47:0:0:56,47:1969,1683:-297.392,-137.253,-120.395,-160.139,0,-145.99 1/1:81:0,80,0:0:0:80,0:2810,0:-252.265,-24.0824,0,-252.265,-24.0824,-252.265 1/1:123:0,123,0:0:0:123,0:4344,0:-389.876,-37.0267,0,-389.876,-37.0267,-389.876 chr01 4210340 . TGGCC CGGCC 33659.8 PASS AB=0.50514;ABP=3.16654;AC=32;AF=0.761905;AN=42;AO=1562;CIGAR=1X4M;DP=2066;DPB=2065.8;DPRA=0.625163;EPP=3394.85;EPPR=1056.17;GTI=0;LEN=1;MEANALT=1.6;MQM=59.9763;MQMR=60;NS=21;NUMALT=1;ODDS=14.2459;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55647;QR=16949;RO=485;RPL=0;RPP=3394.85;RPPR=1056.17;RPR=1562;RUN=1;SAF=0;SAP=3394.85;SAR=1562;SRF=0;SRP=1056.17;SRR=485;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:167:1,166:1:36:166:5909:-528.315,-46.6737,0 1/1:81:0,81:0:0:81:2895:-260.777,-24.3834,0 1/1:72:0,71:0:0:71:2528:-227.498,-21.3731,0 0/1:48:27,21:27:930:21:743:-52.7439,0,-69.5611 0/1:159:90,68:90:3161:68:2429:-171.002,0,-236.874 0/1:66:32,30:32:1107:30:1076:-78.1337,0,-80.9154 0/1:111:48,60:48:1654:60:2148:-160.78,0,-116.337 0/0:153:151,0:151:5291:0:0:0,-45.4555,-475.974 1/1:181:0,181:0:0:181:6471:-582.476,-54.4864,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:36:22,14:22:789:14:504:-34.861,0,-60.4982 1/1:91:1,89:1:36:89:3179:-282.741,-23.8493,0 1/1:96:0,96:0:0:96:3424:-308.368,-28.8989,0 1/1:239:0,238:0:0:238:8492:-763.922,-71.6451,0 1/1:81:1,80:1:36:80:2859:-253.949,-20.7852,0 1/1:75:1,71:1:28:71:2500:-222.406,-19.1694,0 0/1:144:67,77:67:2326:77:2691:-199.084,0,-166.252 0/1:107:37,70:37:1303:70:2491:-192.233,0,-85.3607 1/1:81:1,78:1:36:78:2777:-246.572,-20.5429,0 1/1:57:0,56:0:0:56:1991:-179.222,-16.8577,0 chr01 4217878 . CGG TGA,CGT 25808 PASS AB=0.557522,0.438053;ABP=16.0007,18.0761;AC=32,10;AF=0.761905,0.238095;AN=42;AO=936,278;CIGAR=1X1M1X,2M1X;DP=1216;DPB=1216;DPRA=0.71962,1.25908;EPP=2035.51,606.68;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=1.5,2;MQM=42.4605,59.8633;MQMR=60;NS=21;NUMALT=2;ODDS=1.06617;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32990,9899;QR=36;RO=1;RPL=8,2;RPP=1966.62,589.433;RPPR=5.18177;RPR=928,276;RUN=1,1;SAF=8,2;SAP=1966.62,589.433;SAR=928,276;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,52,0:0:0:52,0:1842,0:-161.615,-15.6536,0,-161.615,-15.6536,-161.615 1/1:21:0,21,0:0:0:21,0:742,0:-66.0057,-6.32163,0,-66.0057,-6.32163,-66.0057 1/1:66:0,66,0:0:0:66,0:2334,0:-204.256,-19.868,0,-204.256,-19.868,-204.256 1/2:69:0,30,38:0:0:30,38:1078,1360:-196.242,-110.897,-101.866,-85.3387,0,-73.8996 1/2:94:0,57,37:0:0:57,37:2012,1324:-267.598,-108.321,-91.162,-159.63,0,-148.492 1/2:25:0,15,10:0:0:15,10:518,341:-68.8062,-28.0075,-23.492,-41.1375,0,-38.1272 1/2:71:0,47,24:0:0:47,24:1650,864:-202.152,-70.8578,-56.7094,-131.649,0,-124.424 2/2:79:0,0,79:0:0:0,79:0,2802:-252.418,-252.418,-252.418,-23.7814,-23.7814,0 1/1:118:0,117,1:0:0:117,1:4154,36:-366.556,-35.2205,0,-363.619,-31.9233,-363.318 1/1:31:0,31,0:0:0:31,0:1092,0:-96.6604,-9.33193,0,-96.6604,-9.33193,-96.6604 1/2:4:0,3,1:0:0:3,1:100,36:-11.234,-3.29724,-2.39415,-8.28867,0,-7.98764 1/2:30:0,13,17:0:0:13,17:458,612:-86.7617,-50.2959,-46.3825,-36.8173,0,-31.6998 1/1:106:0,106,0:0:0:106,0:3720,0:-325.075,-31.9092,0,-325.075,-31.9092,-325.075 1/1:47:0,47,0:0:0:47,0:1653,0:-143.896,-14.1484,0,-143.896,-14.1484,-143.896 1/1:90:0,90,0:0:0:90,0:3145,0:-275.787,-27.0927,0,-275.787,-27.0927,-275.787 1/1:41:0,41,0:0:0:41,0:1435,0:-126.906,-12.3422,0,-126.906,-12.3422,-126.906 1/1:23:0,23,0:0:0:23,0:807,0:-71.4185,-6.92369,0,-71.4185,-6.92369,-71.4185 1/2:108:1,52,55:1:36:52,55:1850,1952:-302.014,-156.093,-143.377,-143.275,0,-129.656 1/2:51:0,35,16:0:0:35,16:1225,572:-143.491,-46.9946,-36.4585,-96.8478,0,-92.0313 1/1:58:0,58,0:0:0:58,0:2044,0:-178.533,-17.4597,0,-178.533,-17.4597,-178.533 1/1:32:0,32,0:0:0:32,0:1131,0:-99.5974,-9.63296,0,-99.5974,-9.63296,-99.5974 chr01 4217928 . T C 19254.8 PASS AB=0.547046;ABP=11.796;AC=32;AF=0.761905;AN=42;AO=933;CIGAR=1X;DP=1222;DPB=1222;DPRA=0.704321;EPP=2028.99;EPPR=628.394;GTI=0;LEN=1;MEANALT=1.05;MQM=42.4823;MQMR=59.809;NS=21;NUMALT=1;ODDS=2.16789;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33359;QR=10325;RO=288;RPL=933;RPP=2028.99;RPPR=628.394;RPR=0;RUN=1;SAF=0;SAP=2028.99;SAR=933;SRF=0;SRP=628.394;SRR=288;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:0,49:0:0:49:1751:-153.385,-14.7505,0 1/1:20:0,20:0:0:20:701:-62.2653,-6.0206,0 1/1:65:0,65:0:0:65:2305:-201.695,-19.567,0 0/1:73:42,31:42:1504:31:1112:-75.927,0,-113.668 0/1:93:36,57:36:1292:57:2038:-150.747,0,-88.5833 0/1:26:10,16:10:360:16:572:-42.4138,0,-24.9175 0/1:71:25,46:25:896:46:1648:-124.05,0,-59.5872 0/0:81:81,0:81:2901:0:0:0,-24.3834,-261.315 1/1:118:1,117:1:36:117:4192:-366.488,-31.9233,0 1/1:32:0,32:0:0:32:1152:-101.782,-9.63296,0 0/1:4:1,3:1:36:3:108:-8.6547,0,-2.39415 0/1:30:17,13:17:612:13:468:-32.517,0,-46.3825 1/1:110:0,110:0:0:110:3924:-342.541,-33.1133,0 1/1:48:0,48:0:0:48:1728:-149.913,-14.4494,0 1/1:90:0,90:0:0:90:3215:-281.186,-27.0927,0 1/1:40:0,40:0:0:40:1432:-126.196,-12.0412,0 1/1:21:0,21:0:0:21:756:-66.64,-6.32163,0 0/1:110:58,51:58:2080:51:1832:-127.383,0,-154.297 0/1:50:17,33:17:608:33:1169:-87.1141,0,-39.9982 1/1:60:0,60:0:0:60:2144:-187.593,-18.0618,0 1/1:31:0,31:0:0:31:1112:-97.7804,-9.33193,0 chr01 4218083 . G A 8221.05 PASS AB=0.493218;ABP=3.33428;AC=9;AF=0.214286;AN=42;AO=478;CIGAR=1X;DP=2025;DPB=2025;DPRA=1.76449;EPP=1040.97;EPPR=3355.76;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.53541;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16962;QR=54717;RO=1544;RPL=0;RPP=1040.97;RPPR=3355.76;RPR=478;RUN=1;SAF=0;SAP=1040.97;SAR=478;SRF=0;SRP=3355.76;SRR=1544;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:109:108,1:108:3836:1:36:0,-29.214,-341.838 0/0:75:75,0:75:2669:0:0:0,-22.5772,-240.454 0/0:83:83,0:83:2924:0:0:0,-24.9855,-263.393 0/1:119:55,64:55:1941:64:2283:-169.909,0,-139.142 0/1:310:134,176:134:4745:176:6236:-468.017,0,-333.89 0/1:98:52,46:52:1819:46:1618:-116.404,0,-134.484 0/1:130:76,54:76:2703:54:1916:-133.581,0,-204.381 1/1:73:0,73:0:0:73:2595:-233.799,-21.9752,0 0/0:159:159,0:159:5661:0:0:0,-47.8638,-509.611 0/0:11:9,0:9:324:0:0:0,-2.70927,-29.1623 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:31:18,13:18:640:13:468:-33.1277,0,-48.5974 0/0:67:67,0:67:2380:0:0:0,-20.169,-214.456 0/0:81:81,0:81:2846:0:0:0,-24.3834,-256.375 0/0:197:196,1:196:6972:1:36:0,-55.7046,-623.947 0/0:75:75,0:75:2643:0:0:0,-22.5772,-238.116 0/0:136:135,1:135:4803:1:36:0,-37.3418,-428.828 0/1:79:41,38:41:1455:38:1355:-98.4683,0,-107.464 0/1:44:35,9:35:1223:9:311:-15.0784,0,-97.1248 0/0:95:92,2:92:3237:2:72:0,-21.8199,-284.715 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 chr01 4218248 . T A 9452.05 PASS AB=0.470383;ABP=9.57011;AC=10;AF=0.238095;AN=42;AO=529;CIGAR=1X;DP=2124;DPB=2124;DPRA=1.12988;EPP=1151.72;EPPR=3444.82;GTI=0;LEN=1;MEANALT=1.18182;MQM=59.9792;MQMR=60;NS=21;NUMALT=1;ODDS=14.2163;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18934;QR=57084;RO=1593;RPL=529;RPP=1151.72;RPPR=3444.82;RPR=0;RUN=1;SAF=0;SAP=1151.72;SAR=529;SRF=0;SRP=3462.17;SRR=1593;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:121:120,1:120:4296:1:36:0,-32.8264,-383.219 0/0:102:102,0:102:3645:0:0:0,-30.7051,-328.253 0/0:73:72,1:72:2584:1:36:0,-18.3769,-229.211 0/1:73:40,33:40:1436:33:1176:-84.172,0,-107.562 0/1:181:87,93:87:3123:93:3329:-245.281,0,-226.75 0/1:121:61,60:61:2188:60:2139:-156.346,0,-160.761 0/1:162:81,81:81:2904:81:2904:-212.829,0,-212.829 1/1:122:0,122:0:0:122:4370:-393.474,-36.7257,0 0/0:178:178,0:178:6384:0:0:0,-53.5833,-574.648 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:20:8,12:8:284:12:428:-32.8382,0,-19.8828 0/1:45:24,21:24:864:21:736:-53.0138,0,-64.5362 0/0:103:103,0:103:3685:0:0:0,-31.0061,-331.851 0/0:97:97,0:97:3488:0:0:0,-29.1999,-314.13 0/0:110:110,0:110:3948:0:0:0,-33.1133,-355.511 0/0:77:77,0:77:2730:0:0:0,-23.1793,-245.941 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.122 0/1:173:90,82:90:3232:82:2952:-213.776,0,-238.964 0/1:86:63,23:63:2264:23:828:-48.9555,0,-178.134 0/0:116:116,0:116:4145:0:0:0,-34.9195,-373.232 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.449 chr01 4357442 . G A 12904.7 PASS AB=0.484848;ABP=6.16881;AC=21;AF=0.5;AN=42;AO=768;CIGAR=1X;DP=1584;DPB=1584;DPRA=0;EPP=1670.7;EPPR=1770.59;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9831;MQMR=59.957;NS=21;NUMALT=1;ODDS=28.4639;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27511;QR=28903;RO=814;RPL=0;RPP=1670.7;RPPR=1770.59;RPR=768;RUN=1;SAF=768;SAP=1670.7;SAR=0;SRF=814;SRP=1770.59;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:20:9,11:9:316:11:396:-29.9621,0,-22.7583 0/1:28:10,18:10:341:18:648:-50.223,0,-22.5889 0/1:70:36,34:36:1273:34:1224:-89.3949,0,-93.7988 0/1:96:69,27:69:2453:27:953:-57.1844,0,-192.125 0/1:186:108,78:108:3839:78:2789:-195.257,0,-289.711 0/1:54:44,10:44:1557:10:360:-16.4887,0,-124.164 0/1:205:89,116:89:3165:116:4151:-312.056,0,-223.363 0/1:62:47,15:47:1639:15:540:-30.2727,0,-129.057 0/1:140:50,90:50:1792:90:3221:-247.966,0,-119.418 0/1:17:3,14:3:108:14:496:-39.8567,0,-4.95766 0/1:5:3,2:3:93:2:72:-5.33157,0,-7.17158 0/1:44:33,11:33:1188:11:396:-22.7374,0,-93.9833 0/1:77:27,49:27:968:49:1764:-135.806,0,-64.1993 0/1:103:32,71:32:1148:71:2552:-198.924,0,-72.6237 0/1:64:31,33:31:1116:33:1188:-87.9627,0,-81.4858 0/1:27:10,17:10:360:17:612:-47.2856,0,-24.6165 0/1:21:14,7:14:485:7:244:-15.9772,0,-37.6553 0/1:90:65,25:65:2302:25:900:-54.2283,0,-180.345 0/1:71:41,29:41:1427:29:1040:-72.521,0,-107.327 0/1:147:73,74:73:2613:74:2645:-194.043,0,-191.165 0/1:57:20,37:20:720:37:1320:-101.943,0,-47.9701 chr01 4357453 . CATGGAG CAAGGAG,CAAGGAC 31901.5 PASS AB=0.688262,0.301829;ABP=406.911,450.545;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1147,414;CIGAR=2M1X4M,2M1X3M1X;DP=1577;DPB=1577;DPRA=0,1.26417;EPP=2441.85,893.335;EPPR=0;GTI=6;LEN=1,7;MEANALT=2.52381,2.5;MQM=59.9887,60;MQMR=0;NS=21;NUMALT=2;ODDS=7.62177;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41124,14631;QR=0;RO=0;RPL=6,1;RPP=2441.85,893.335;RPPR=0;RPR=1141,413;RUN=1,1;SAF=1147,414;SAP=2493.69,902;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:20:0,10,9:0:0:10,9:360,316:-55.0882,-25.7101,-22.6998,-29.3742,0,-26.6649 1/2:28:0,18,10:0:0:18,10:648,340:-80.8048,-27.9184,-22.4999,-53.2333,0,-50.223 1/2:70:0,34,36:0:0:34,36:1220,1272:-203.461,-103.945,-93.7103,-99.8718,0,-89.0347 1/2:96:0,81,13:0:0:81,13:2904,454:-273.78,-36.9196,-12.5362,-236.852,0,-232.939 1/2:187:0,169,18:0:0:169,18:6056,643:-546.693,-52.7816,-1.90756,-494.268,0,-488.85 1/2:52:0,46,6:0:0:46,6:1656,209:-152.475,-17.3439,-3.49655,-135.481,0,-133.675 1/1:205:0,186,18:0:0:186,18:6684,639:-601.249,-55.9916,0,-549.184,-3.93052,-543.765 1/1:60:0,58,0:0:0:58,0:2088,0:-187.942,-17.4597,0,-187.942,-17.4597,-187.942 1/2:140:0,88,51:0:0:88,51:3138,1803:-402.637,-146.84,-120.349,-255.792,0,-240.44 1/2:17:0,14,3:0:0:14,3:485,108:-48.5772,-9.17208,-4.95766,-39.7626,0,-38.8595 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/2:44:0,38,6:0:0:38,6:1360,211:-128.436,-17.5271,-6.08794,-111.261,0,-109.455 1/2:76:0,48,28:0:0:48,28:1728,981:-221.175,-80.1734,-65.7239,-141.356,0,-132.927 1/2:102:0,69,32:0:0:69,32:2476,1133:-294.331,-92.3626,-71.5915,-202.041,0,-192.408 1/2:63:0,32,31:0:0:32,31:1148,1098:-183.438,-89.7974,-80.1645,-93.9969,0,-84.6649 1/2:27:0,17,10:0:0:17,10:612,357:-79.3998,-29.4618,-24.3443,-50.2959,0,-47.2856 1/2:21:0,7,8:0:0:7,8:248,288:-43.7181,-23.5136,-21.4064,-20.2132,0,-17.805 1/2:92:0,66,25:0:0:66,25:2376,868:-264.426,-70.5477,-50.6797,-193.87,0,-186.344 1/2:71:0,48,23:0:0:48,23:1712,819:-206.667,-67.1086,-52.6591,-139.915,0,-132.991 1/2:143:0,76,66:0:0:76,66:2717,2337:-411.9,-190.362,-167.483,-221.534,0,-201.666 1/2:58:0,38,20:0:0:38,20:1364,719:-170.28,-59.018,-47.5789,-111.622,0,-105.601 chr01 4361349 . C A 16167.8 PASS AB=0.47191;ABP=5.45016;AC=32;AF=0.761905;AN=42;AO=751;CIGAR=1X;DP=997;DPB=997;DPRA=0.824561;EPP=1633.79;EPPR=537.193;GTI=0;LEN=1;MEANALT=1;MQM=59.9827;MQMR=60;NS=21;NUMALT=1;ODDS=6.0436;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26868;QR=8783;RO=246;RPL=751;RPP=1633.79;RPPR=384.907;RPR=0;RUN=1;SAF=0;SAP=1633.79;SAR=751;SRF=19;SRP=384.907;SRR=227;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,33:0:0:33:1180:-106.508,-9.93399,0 1/1:7:0,7:0:0:7:244:-22.2994,-2.10721,0 1/1:50:0,50:0:0:50:1784:-160.842,-15.0515,0 0/1:60:22,38:22:784:38:1356:-104.279,0,-52.8221 0/1:81:42,39:42:1508:39:1400:-101.893,0,-111.631 0/1:43:33,10:33:1169:10:360:-19.8,0,-92.571 0/1:60:30,30:30:1065:30:1072:-78.7307,0,-78.098 0/0:57:57,0:57:2029:0:0:0,-17.1587,-182.881 1/1:125:0,125:0:0:125:4475:-402.919,-37.6288,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:21:15,6:15:540:6:216:-13.4689,0,-42.6149 1/1:103:0,103:0:0:103:3677:-331.132,-31.0061,0 1/1:56:0,56:0:0:56:2004:-180.634,-16.8577,0 1/1:72:0,72:0:0:72:2584:-232.809,-21.6742,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:37:22,15:22:792:15:532:-37.075,0,-60.4676 0/1:47:19,28:19:680:28:1008:-76.8879,0,-47.3808 1/1:80:1,79:1:36:79:2828:-251.161,-20.4841,0 1/1:39:0,39:0:0:39:1396:-125.939,-11.7402,0 chr01 4424784 . TATCG CATTA,CATTG 55529.7 PASS AB=0.524,0.472;ABP=8.01337,9.82004;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2103,476;CIGAR=1X2M2X,1X2M1X1M;DP=2593;DPB=2592.6;DPRA=0,1.06253;EPP=4569.62,1036.63;EPPR=0;GTI=1;LEN=5,5;MEANALT=2.2381,2.61538;MQM=59.5958,59.9391;MQMR=0;NS=21;NUMALT=2;ODDS=9.35715;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74338,16850;QR=0;RO=0;RPL=0,0;RPP=4569.62,1036.63;RPPR=0;RPR=2103,476;RUN=1,1;SAF=0,0;SAP=4569.62,1036.63;SAR=2103,476;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:232:0,230,1:0:0:230,1:8102,36:-728.762,-69.2369,0,-725.825,-66.2845,-725.524 1/1:137:0,136,0:0:0:136,0:4775,0:-429.526,-40.9401,0,-429.526,-40.9401,-429.526 1/1:110:0,110,0:0:0:110,0:3919,0:-352.727,-33.1133,0,-352.727,-33.1133,-352.727 1/2:114:0,46,68:0:0:46,68:1630,2428:-331.083,-198.301,-184.454,-133.137,0,-112.667 1/2:258:0,126,130:0:0:126,130:4457,4590:-736.673,-373.728,-335.799,-362.948,0,-323.814 1/2:86:0,49,37:0:0:49,37:1737,1312:-248.725,-107.243,-92.4928,-141.836,0,-130.698 1/2:174:0,96,78:0:0:96,78:3412,2762:-503.369,-225.342,-196.443,-278.382,0,-254.901 1/2:167:0,100,66:0:0:100,66:3520,2331:-476.416,-189.958,-159.855,-286.587,0,-266.719 1/1:264:0,260,0:0:0:260,0:9188,0:-826.518,-78.2678,0,-826.518,-78.2678,-826.518 1/1:13:0,13,0:0:0:13,0:467,0:-42.3599,-3.91339,0,-42.3599,-3.91339,-42.3599 1/2:6:0,5,1:0:0:5,1:176,29:-16.9784,-2.59863,-1.09348,-14.68,0,-14.379 1/2:35:0,15,20:0:0:15,20:527,710:-101.069,-58.2057,-53.6902,-43.2158,0,-37.1952 1/1:171:0,171,0:0:0:171,0:6032,0:-542.96,-51.4761,0,-542.96,-51.4761,-542.96 1/1:129:0,126,1:0:0:126,1:4428,36:-398.3,-37.9298,0,-395.362,-34.9924,-395.061 1/1:169:0,167,1:0:0:167,1:5947,36:-535.008,-50.272,0,-532.07,-47.2647,-531.769 1/1:106:0,106,0:0:0:106,0:3764,0:-338.957,-31.9092,0,-338.957,-31.9092,-338.957 1/1:78:0,78,0:0:0:78,0:2758,0:-248.439,-23.4803,0,-248.439,-23.4803,-248.439 1/2:73:0,39,34:0:0:39,34:1384,1197:-210.556,-97.7999,-86.0598,-113.109,0,-102.874 1/2:87:0,48,38:0:0:48,38:1707,1354:-249.584,-110.478,-96.0283,-139.218,0,-127.779 1/1:112:0,111,1:0:0:111,1:3892,29:-349.857,-33.4143,0,-347.549,-30.8157,-347.248 1/1:72:0,71,0:0:0:71,0:2516,0:-226.348,-21.3731,0,-226.348,-21.3731,-226.348 chr01 4424792 . T A 7683.65 PASS AB=0.47546;ABP=8.12592;AC=9;AF=0.214286;AN=42;AO=469;CIGAR=1X;DP=2549;DPB=2549;DPRA=1.07943;EPP=1021.43;EPPR=4517.5;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.9296;MQMR=59.5998;NS=21;NUMALT=1;ODDS=7.16056;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16778;QR=74070;RO=2079;RPL=0;RPP=1021.43;RPPR=4517.5;RPR=469;RUN=1;SAF=0;SAP=1021.43;SAR=469;SRF=0;SRP=4517.5;SRR=2079;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:232:230,2:230:8154:2:72:0,-63.0047,-726.833 0/0:134:134,0:134:4793:0:0:0,-40.338,-431.484 0/0:108:108,0:108:3854:0:0:0,-32.5112,-346.894 0/1:110:44,66:44:1569:66:2354:-179.001,0,-108.384 0/1:254:127,126:127:4510:126:4508:-329.373,0,-329.474 0/1:86:49,37:49:1745:37:1315:-92.7631,0,-131.403 0/1:171:94,77:94:3365:77:2759:-197.075,0,-251.572 0/1:162:96,66:96:3421:66:2368:-164.611,0,-259.13 0/0:263:263,0:263:9353:0:0:0,-79.1709,-841.585 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0882 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:35:15,20:15:532:20:720:-54.5927,0,-37.6439 0/0:167:167,0:167:5954:0:0:0,-50.272,-535.81 0/0:127:126,1:126:4520:1:36:0,-34.6325,-403.156 0/0:167:166,1:166:5927:1:36:0,-46.6737,-529.889 0/0:104:104,0:104:3676:0:0:0,-31.3071,-331.034 0/0:77:77,0:77:2745:0:0:0,-23.1793,-247.274 0/1:71:37,34:37:1332:34:1218:-88.5533,0,-98.8023 0/1:84:46,38:46:1641:38:1356:-97.0526,0,-122.685 0/0:110:110,0:110:3933:0:0:0,-33.1133,-353.513 0/0:69:69,0:69:2438:0:0:0,-20.7711,-219.444 chr01 4424815 . A G 45283 PASS AB=0.523571;ABP=7.82152;AC=33;AF=0.785714;AN=42;AO=2090;CIGAR=1X;DP=2572;DPB=2572;DPRA=0;EPP=4524.03;EPPR=1040.97;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.6;MQMR=59.9393;NS=21;NUMALT=1;ODDS=3.17592;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74737;QR=17119;RO=478;RPL=2088;RPP=4524.03;RPPR=1040.97;RPR=2;RUN=1;SAF=0;SAP=4541.39;SAR=2090;SRF=0;SRP=1040.97;SRR=478;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:227:1,226:1:36:226:8088:-724.211,-64.7355,0 1/1:138:0,138:0:0:138:4932:-443.997,-41.5421,0 1/1:110:0,110:0:0:110:3938:-354.527,-33.1133,0 0/1:113:68,45:68:2435:45:1612:-111.347,0,-185.36 0/1:257:131,126:131:4682:126:4500:-327.695,0,-344.12 0/1:87:37,50:37:1324:50:1792:-135.341,0,-93.2725 0/1:174:78,96:78:2795:96:3439:-257.327,0,-199.41 0/1:165:66,99:66:2372:99:3515:-266.738,0,-164.068 1/1:262:0,262:0:0:262:9344:-840.846,-78.8699,0 1/1:13:0,13:0:0:13:468:-42.4504,-3.91339,0 0/1:7:2,5:2:68:5:180:-14.4449,0,-4.3505 0/1:35:20,15:20:720:15:536:-38.0056,0,-54.5927 1/1:167:0,167:0:0:167:5988:-538.971,-50.272,0 1/1:123:1,121:1:36:121:4300:-383.542,-33.4872,0 1/1:169:0,169:0:0:169:6046:-544.195,-50.8741,0 1/1:106:0,106:0:0:106:3808:-342.911,-31.9092,0 1/1:77:0,77:0:0:77:2768:-249.327,-23.1793,0 0/1:73:34,39:34:1220:39:1400:-104.312,0,-88.1316 0/1:86:39,47:39:1395:47:1680:-125.593,0,-99.9598 1/1:112:1,108:1:36:108:3864:-344.106,-29.5738,0 1/1:71:0,71:0:0:71:2539:-228.527,-21.3731,0 chr01 4537725 . A G 37016.2 PASS AB=0.556098;ABP=31.0276;AC=33;AF=0.785714;AN=42;AO=1740;CIGAR=1X;DP=2198;DPB=2198;DPRA=0;EPP=3781.37;EPPR=997.545;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9454;NS=21;NUMALT=1;ODDS=21.372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62234;QR=16388;RO=458;RPL=0;RPP=3781.37;RPPR=997.545;RPR=1740;RUN=1;SAF=1740;SAP=3781.37;SAR=0;SRF=458;SRP=997.545;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:155:2,153:2:72:153:5488:-487.209,-39.8229,0 1/1:91:1,90:1:36:90:3220:-286.424,-23.7955,0 1/1:62:0,62:0:0:62:2216:-199.705,-18.6639,0 0/1:103:55,48:55:1965:48:1728:-124.799,0,-146.117 0/1:350:146,204:146:5218:204:7323:-553.755,0,-364.395 0/1:97:57,40:57:2040:40:1424:-99.2576,0,-154.672 0/1:138:69,69:69:2480:69:2460:-180.113,0,-181.911 0/1:106:42,64:42:1508:64:2300:-175.352,0,-103.788 1/1:135:0,135:0:0:135:4856:-437.191,-40.6391,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.6268 0/1:23:11,12:11:396:12:432:-32.2975,0,-29.0591 1/1:153:0,153:0:0:153:5457:-491.259,-46.0576,0 1/1:96:0,96:0:0:96:3433:-309.182,-28.8989,0 1/1:57:0,57:0:0:57:2048:-184.592,-17.1587,0 1/1:105:0,105:0:0:105:3761:-338.688,-31.6082,0 1/1:92:0,92:0:0:92:3295:-296.768,-27.6948,0 0/1:129:48,81:48:1701:81:2870:-219.702,0,-114.541 0/1:62:17,45:17:612:45:1585:-124.276,0,-36.7496 1/1:110:0,110:0:0:110:3904:-351.553,-33.1133,0 1/1:98:0,98:0:0:98:3498:-315.03,-29.5009,0 chr01 4537734 . G A 7362.01 PASS AB=0.44358;ABP=31.4338;AC=9;AF=0.214286;AN=42;AO=459;CIGAR=1X;DP=2215;DPB=2215;DPRA=1.24223;EPP=999.716;EPPR=3787.93;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9455;MQMR=59.9926;NS=21;NUMALT=1;ODDS=21.7282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16464;QR=62395;RO=1755;RPL=0;RPP=999.716;RPPR=3787.93;RPR=459;RUN=1;SAF=459;SAP=999.716;SAR=0;SRF=1755;SRP=3813.94;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:160:158,2:158:5626:2:72:0,-41.3281,-499.624 0/0:91:90,1:90:3224:1:36:0,-23.7955,-286.784 0/0:62:62,0:62:2183:0:0:0,-18.6639,-196.731 0/1:102:47,55:47:1692:55:1980:-147.769,0,-121.862 0/1:350:203,147:203:7263:147:5273:-369.342,0,-548.356 0/1:100:42,58:42:1463:58:2088:-158.087,0,-101.855 0/1:138:70,68:70:2482:68:2435:-177.862,0,-182.088 0/1:107:66,41:66:2368:41:1476:-100.608,0,-181.168 0/0:138:138,0:138:4900:0:0:0,-41.5421,-441.12 0/0:19:19,0:19:669:0:0:0,-5.71957,-60.5339 0/1:17:7,9:7:252:9:324:-24.3295,0,-17.8527 0/1:24:12,12:12:432:12:427:-31.5434,0,-31.9965 0/0:154:154,0:154:5438:0:0:0,-46.3586,-489.547 0/0:98:98,0:98:3437:0:0:0,-29.5009,-309.54 0/0:58:58,0:58:2046:0:0:0,-17.4597,-184.408 0/0:104:104,0:104:3698:0:0:0,-31.3071,-333.021 0/0:93:93,0:93:3325:0:0:0,-27.9958,-299.466 0/1:127:78,49:78:2789:49:1760:-120.453,0,-213.018 0/1:63:46,17:46:1625:17:593:-34.7298,0,-127.572 0/0:115:115,0:115:4105:0:0:0,-34.6184,-369.634 0/0:95:95,0:95:3378:0:0:0,-28.5978,-304.234 chr01 4537752 . T G 7272.69 PASS AB=0.444335;ABP=30.3281;AC=9;AF=0.214286;AN=42;AO=455;CIGAR=1X;DP=2182;DPB=2182;DPRA=1.15734;EPP=982.363;EPPR=3742.29;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9648;MQMR=59.9878;NS=21;NUMALT=1;ODDS=20.6695;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16244;QR=61832;RO=1726;RPL=454;RPP=982.363;RPPR=3742.29;RPR=1;RUN=1;SAF=455;SAP=991.03;SAR=0;SRF=1726;SRP=3750.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:157:155,2:155:5539:2:72:0,-40.425,-491.795 0/0:91:90,1:90:3212:1:36:0,-23.7955,-285.703 0/0:61:59,1:59:2112:1:36:0,-14.8234,-186.751 0/1:102:47,55:47:1688:55:1968:-146.69,0,-121.502 0/1:348:202,146:202:7268:146:5183:-361.851,0,-549.409 0/1:97:42,55:42:1512:55:1980:-149.275,0,-107.175 0/1:136:69,67:69:2480:67:2404:-175.676,0,-182.513 0/1:104:64,40:64:2281:40:1428:-97.5104,0,-174.243 0/0:139:139,0:139:4968:0:0:0,-41.8432,-447.258 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:17:7,10:7:252:10:345:-26.2633,0,-17.9114 0/1:24:12,12:12:432:12:424:-31.2711,0,-31.9965 0/0:148:148,0:148:5303:0:0:0,-44.5524,-477.403 0/0:96:96,0:96:3444:0:0:0,-28.8989,-310.172 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.232 0/0:102:102,0:102:3672:0:0:0,-30.7051,-330.681 0/0:92:92,0:92:3296:0:0:0,-27.6948,-296.859 0/1:129:80,49:80:2855:49:1760:-119.795,0,-218.355 0/1:58:41,17:41:1468:17:608:-37.5923,0,-114.956 0/0:114:114,0:114:4072:0:0:0,-34.3174,-366.668 0/0:92:92,0:92:3286:0:0:0,-27.6948,-295.959 chr01 4546030 . ATTAA ATCAG,GTCAA 34983.5 PASS AB=0.546961,0.451197;ABP=13.4118,14.2436;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1051,247;CIGAR=2M1X1M1X,1X1M1X2M;DP=1304;DPB=1304;DPRA=0,1.10015;EPP=7.97101,29.6042;EPPR=0;GTI=1;LEN=5,5;MEANALT=1.7619,2.18182;MQM=59.8192,59.6883;MQMR=0;NS=21;NUMALT=2;ODDS=1.23698;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36730,8623;QR=0;RO=0;RPL=1051,247;RPP=2285.23,539.364;RPPR=0;RPR=0,0;RUN=1,1;SAF=550,96;SAP=7.97101,29.6042;SAR=501,151;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69,0:0:0:69,0:2399,0:-216.165,-20.7711,0,-216.165,-20.7711,-216.165 1/1:55:0,55,0:0:0:55,0:1920,0:-173.072,-16.5567,0,-173.072,-16.5567,-173.072 1/1:27:0,25,0:0:0:25,0:890,0:-80.1796,-7.52575,0,-80.1796,-7.52575,-80.1796 1/2:66:0,33,33:0:0:33,33:1160,1166:-189.461,-95.0418,-85.1078,-94.7707,0,-84.8367 1/2:61:0,37,24:0:0:37,24:1289,834:-172.971,-68.1514,-57.0133,-105.167,0,-97.9427 1/2:48:0,27,21:0:0:27,21:932,752:-137.395,-61.6848,-53.557,-76.0623,0,-69.7407 1/2:75:0,44,30:0:0:44,30:1529,1055:-210.199,-85.9376,-72.6923,-124.328,0,-115.297 1/2:50:0,29,21:0:0:29,21:997,733:-140.923,-59.9611,-51.2312,-81.3085,0,-74.9869 1/1:98:0,97,1:0:0:97,1:3382,36:-304.158,-29.1999,0,-301.221,-25.9027,-300.92 1/1:11:0,11,0:0:0:11,0:394,0:-35.8015,-3.31133,0,-35.8015,-3.31133,-35.8015 1/2:6:0,5,1:0:0:5,1:175,36:-17.5274,-3.29724,-1.79209,-14.5883,0,-14.2873 1/2:16:0,7,9:0:0:7,9:250,324:-47.1732,-26.7966,-24.6894,-20.7348,0,-18.0255 1/1:88:0,88,0:0:0:88,0:3024,0:-272.39,-26.4906,0,-272.39,-26.4906,-272.39 1/1:73:0,71,1:0:0:71,1:2497,21:-224.673,-21.3731,0,-223.086,-19.7942,-222.785 1/1:116:0,114,0:0:0:114,0:3988,0:-358.821,-34.3174,0,-358.821,-34.3174,-358.821 1/1:56:0,56,0:0:0:56,0:1954,0:-176.133,-16.8577,0,-176.133,-16.8577,-176.133 1/1:31:0,31,0:0:0:31,0:1100,0:-99.3104,-9.33193,0,-99.3104,-9.33193,-99.3104 1/2:94:0,50,44:0:0:50,44:1761,1504:-265.759,-122.393,-107.342,-143.712,0,-130.467 1/2:127:0,65,62:0:0:65,62:2276,2162:-361.339,-176.163,-156.596,-185.525,0,-166.862 1/1:42:0,42,0:0:0:42,0:1480,0:-133.489,-12.6433,0,-133.489,-12.6433,-133.489 1/1:95:0,95,0:0:0:95,0:3333,0:-300.19,-28.5979,0,-300.19,-28.5979,-300.19 chr01 4560266 . CCAG CTACAG,CCACAG 13391.7 PASS AB=0.49359,0.50641;ABP=3.12166,3.12166;AC=34,8;AF=0.809524,0.190476;AN=42;AO=515,160;CIGAR=1M2I3M,1M2I3M;DP=677;DPB=1015.5;DPRA=0,1.72083;EPP=1121.32,350.446;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.57143,2.1;MQM=41.0583,39.5187;MQMR=0;NS=21;NUMALT=2;ODDS=2.18389;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18174,5513;QR=0;RO=0;RPL=0,0;RPP=1121.32,350.446;RPPR=0;RPR=515,160;RUN=1,1;SAF=515,160;SAP=1121.32,350.446;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,28,0:0:0:28,0:998,0:-87.5882,-8.42884,0,-87.5882,-8.42884,-87.5882 1/1:36:0,36,0:0:0:36,0:1282,0:-108.881,-10.8371,0,-108.881,-10.8371,-108.881 1/1:18:0,18,0:0:0:18,0:633,0:-55.5151,-5.41854,0,-55.5151,-5.41854,-55.5151 1/2:36:0,20,16:0:0:20,16:708,542:-99.0195,-43.0864,-37.0658,-56.2696,0,-51.4531 1/2:81:0,45,36:0:0:45,36:1594,1257:-224.863,-99.4303,-85.8839,-125.774,0,-114.937 1/2:45:0,19,26:0:0:19,26:680,885:-120.03,-68.1516,-62.432,-52.2091,0,-44.3823 1/2:36:0,18,18:0:0:18,18:631,631:-96.9299,-48.6307,-43.2122,-48.6307,0,-43.2122 1/2:23:0,8,15:0:0:8,15:255,515:-59.8021,-40.3972,-37.9889,-19.7175,0,-15.202 1/1:50:0,49,1:0:0:49,1:1736,36:-153.653,-14.7505,0,-150.771,-11.5154,-150.47 1/1:4:0,4,0:0:0:4,0:144,0:-12.7816,-1.20412,0,-12.7816,-1.20412,-12.7816 1/2:4:0,2,2:0:0:2,2:72,72:-11.33,-5.83438,-5.23232,-5.83438,0,-5.23232 1/1:10:0,10,0:0:0:10,0:336,0:-29.4316,-3.0103,0,-29.4316,-3.0103,-29.4316 1/1:24:0,24,0:0:0:24,0:856,0:-75.0578,-7.22472,0,-75.0578,-7.22472,-75.0578 1/1:24:0,23,0:0:0:23,0:806,0:-69.95,-6.92369,0,-69.95,-6.92369,-69.95 1/1:43:0,43,0:0:0:43,0:1536,0:-134.698,-12.9443,0,-134.698,-12.9443,-134.698 1/1:44:0,44,0:0:0:44,0:1539,0:-136.282,-13.2453,0,-136.282,-13.2453,-136.282 1/1:51:0,49,1:0:0:49,1:1728,36:-152.167,-14.7505,0,-149.285,-11.8371,-148.984 1/2:70:0,31,39:0:0:31,39:1087,1331:-187.986,-103.064,-93.7316,-85.2555,0,-73.5153 1/2:17:0,11,6:0:0:11,6:386,208:-46.9989,-16.8279,-13.5165,-30.5096,0,-28.7035 1/1:19:0,19,0:0:0:19,0:667,0:-58.0781,-5.71957,0,-58.0781,-5.71957,-58.0781 1/1:14:0,14,0:0:0:14,0:500,0:-42.7641,-4.21442,0,-42.7641,-4.21442,-42.7641 chr01 4729192 . CACA AACG 6408.11 PASS AB=0.504708;ABP=3.21477;AC=12;AF=0.285714;AN=42;AO=537;CIGAR=1X2M1X;DP=1888;DPB=1888;DPRA=1.11871;EPP=1169.09;EPPR=2925.81;GTI=0;LEN=4;MEANALT=1.30769;MQM=32.4134;MQMR=34.0208;NS=21;NUMALT=1;ODDS=5.93558;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18840;QR=47468;RO=1346;RPL=0;RPP=1169.09;RPPR=2925.81;RPR=537;RUN=1;SAF=537;SAP=1169.09;SAR=0;SRF=1346;SRP=2925.81;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:48,0:48:1683:0:0:0,-14.4494,-137.219 0/0:113:112,0:112:3936:0:0:0,-33.7154,-286.516 0/0:116:116,0:116:4101:0:0:0,-34.9195,-334.646 0/1:134:65,69:65:2300:69:2424:-151.254,0,-142.969 0/0:156:155,1:155:5508:1:36:0,-43.7731,-439.625 0/1:80:43,36:43:1504:36:1264:-68.1644,0,-86.7525 0/1:145:65,78:65:2271:78:2753:-156.046,0,-126.89 0/1:53:31,22:31:1098:22:778:-44.337,0,-69.7978 0/1:148:59,89:59:2067:89:3119:-208.676,0,-124.348 0/1:21:16,5:16:560:5:172:-7.29982,0,-32.9976 0/1:4:1,3:1:35:3:108:-6.92362,0,-1.94205 0/1:32:17,15:17:589:15:530:-30.7786,0,-31.9586 0/1:145:81,63:81:2849:63:2192:-132.363,0,-189.818 0/1:120:50,70:50:1753:70:2425:-158.864,0,-106.716 0/0:117:117,0:117:4111:0:0:0,-35.2205,-337.38 0/0:65:65,0:65:2303:0:0:0,-19.5669,-190.229 0/0:52:52,0:52:1831:0:0:0,-15.6536,-153.511 0/1:108:47,61:47:1668:61:2154:-130.229,0,-95.64 0/1:72:47,25:47:1667:25:885:-49.8374,0,-115.18 0/0:105:105,0:105:3724:0:0:0,-31.6081,-281.447 0/0:54:54,0:54:1910:0:0:0,-16.2556,-138.516 chr01 4729207 . G A 6540.51 PASS AB=0.506629;ABP=3.41334;AC=12;AF=0.285714;AN=42;AO=536;CIGAR=1X;DP=1874;DPB=1874;DPRA=1.12666;EPP=1166.92;EPPR=2891.09;GTI=0;LEN=1;MEANALT=1;MQM=32.347;MQMR=34.1614;NS=21;NUMALT=1;ODDS=6.76354;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19169;QR=47824;RO=1338;RPL=0;RPP=1166.92;RPPR=2891.09;RPR=536;RUN=1;SAF=536;SAP=1166.92;SAR=0;SRF=1338;SRP=2908.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:48,0:48:1713:0:0:0,-14.4494,-138.738 0/0:112:112,0:112:3989:0:0:0,-33.7154,-288.676 0/0:113:113,0:113:4060:0:0:0,-34.0164,-329.862 0/1:133:64,69:64:2288:69:2464:-153.132,0,-141.575 0/0:156:155,1:155:5511:1:36:0,-43.7731,-438.701 0/1:79:43,36:43:1540:36:1292:-69.3595,0,-89.3497 0/1:144:65,79:65:2336:79:2813:-158.699,0,-129.946 0/1:53:31,22:31:1112:22:788:-44.6901,0,-70.455 0/1:148:59,89:59:2097:89:3200:-212.619,0,-126.576 0/1:21:16,5:16:572:5:180:-7.58961,0,-33.3187 0/1:4:1,3:1:32:3:108:-6.92362,0,-1.78354 0/1:32:17,15:17:612:15:529:-30.7746,0,-32.9696 0/1:144:81,63:81:2916:63:2261:-135.868,0,-194.697 0/1:120:50,70:50:1796:70:2493:-161.604,0,-109.534 0/0:116:116,0:116:4127:0:0:0,-34.9195,-337.711 0/0:65:65,0:65:2317:0:0:0,-19.5669,-190.546 0/0:51:51,0:51:1808:0:0:0,-15.3525,-151.051 0/1:107:47,60:47:1692:60:2141:-128.171,0,-96.6009 0/1:71:47,24:47:1692:24:864:-47.678,0,-116.882 0/0:103:103,0:103:3689:0:0:0,-31.0061,-277.237 0/0:54:54,0:54:1925:0:0:0,-16.2556,-137.966 chr01 4968616 . CAAACAAA CAAAAAAA 7827.95 PASS AB=0.283364;ABP=448.968;AC=29;AF=0.690476;AN=42;AO=572;CIGAR=4M1X3M;DP=1370;DPB=1369.88;DPRA=0;EPP=1245.09;EPPR=30.4717;GTI=5;LEN=1;MEANALT=1.90476;MQM=37.3129;MQMR=50.7252;NS=21;NUMALT=1;ODDS=1.67431;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20037;QR=27080;RO=775;RPL=0;RPP=1245.09;RPPR=1634.19;RPR=572;RUN=1;SAF=0;SAP=1245.09;SAR=572;SRF=443;SRP=37.5325;SRR=332;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:45,31:45:1538:31:1116:-72.2815,0,-115.14 0/1:67:49,18:49:1704:18:614:-30.6405,0,-132.037 0/1:65:29,35:29:1017:35:1247:-87.6515,0,-72.1039 0/1:81:56,24:56:1973:24:839:-47.3068,0,-152.818 0/1:130:80,49:80:2817:49:1659:-102.122,0,-214.208 0/1:106:89,17:89:3091:17:577:-15.8402,0,-244.388 0/1:132:92,39:92:3203:39:1338:-70.7071,0,-246.721 0/1:64:53,10:53:1857:10:342:-9.80245,0,-147.297 0/1:125:101,24:101:3509:24:864:-37.8507,0,-277.44 0/1:13:8,5:8:284:5:176:-11.2347,0,-21.6736 1/1:6:0,6:0:0:6:210:-17.5947,-1.80618,0 1/1:27:0,26:0:0:26:930:-77.8468,-7.82678,0 1/1:44:0,41:0:0:41:1434:-122.599,-12.3422,0 1/1:48:0,45:0:0:45:1584:-134.744,-13.5464,0 1/1:48:0,44:0:0:44:1564:-133.752,-13.2453,0 1/1:25:0,24:0:0:24:852:-73.901,-7.22472,0 0/1:65:50,14:50:1750:14:495:-23.9544,0,-138.092 0/1:87:69,17:69:2433:17:604:-24.6103,0,-191.287 0/1:81:54,27:54:1904:27:958:-57.7504,0,-146.806 1/1:37:0,36:0:0:36:1269:-106.336,-10.8371,0 1/1:41:0,40:0:0:40:1365:-111.485,-12.0412,0 chr01 5058795 . T C 8863.49 PASS AB=0.478261;ABP=7.63648;AC=13;AF=0.309524;AN=42;AO=542;CIGAR=1X;DP=1692;DPB=1692;DPRA=1.29624;EPP=1179.95;EPPR=2491.53;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.60462;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19327;QR=41222;RO=1150;RPL=542;RPP=1179.95;RPPR=2491.53;RPR=0;RUN=1;SAF=0;SAP=1179.95;SAR=542;SRF=0;SRP=2500.2;SRR=1150;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:84,86:84:3016:86:3038:-222.474,0,-220.495 0/1:88:42,46:42:1493:46:1635:-120.947,0,-108.172 0/1:67:34,33:34:1224:33:1176:-85.9788,0,-90.298 0/1:94:53,41:53:1908:41:1464:-103.759,0,-143.701 0/1:171:70,101:70:2493:101:3601:-272.82,0,-173.145 0/1:50:33,17:33:1184:17:604:-39.6391,0,-91.8168 0/1:108:55,53:55:1976:53:1889:-137.775,0,-145.603 0/1:69:39,30:39:1404:30:1076:-76.3818,0,-105.888 0/1:69:36,33:36:1277:33:1188:-86.4575,0,-94.46 0/1:12:10,2:10:360:2:72:-3.22436,0,-29.1319 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/0:48:47,1:47:1684:1:36:0,-10.8512,-148.249 0/0:93:93,0:93:3340:0:0:0,-27.9958,-300.816 0/0:159:159,0:159:5686:0:0:0,-47.8638,-511.855 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.947 0/1:71:39,32:39:1400:32:1148:-82.2567,0,-104.926 0/1:89:42,47:42:1508:47:1680:-124.695,0,-109.223 0/1:69:51,18:51:1836:18:648:-37.8808,0,-144.75 0/0:118:116,2:116:4153:2:72:0,-28.6848,-367.114 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 chr01 5081462 . 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G C 14414.4 PASS AB=0.501801;ABP=3.03376;AC=29;AF=0.690476;AN=42;AO=748;CIGAR=1X;DP=1163;DPB=1163;DPRA=0;EPP=1627.27;EPPR=904.171;GTI=0;LEN=1;MEANALT=1;MQM=59.9987;MQMR=60;NS=21;NUMALT=1;ODDS=0.915904;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26497;QR=14819;RO=415;RPL=0;RPP=1627.27;RPPR=904.171;RPR=748;RUN=1;SAF=748;SAP=1627.27;SAR=0;SRF=415;SRP=904.171;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:19,34:19:680:34:1212:-93.4317,0,-45.5746 0/1:31:15,16:15:540:16:572:-42.4815,0,-39.6046 0/1:83:45,38:45:1620:38:1355:-97.265,0,-121.104 0/1:31:10,21:10:360:21:752:-58.6743,0,-23.4124 0/1:124:69,55:69:2430:55:1936:-137.189,0,-181.626 0/1:45:24,21:24:864:21:740:-53.377,0,-64.5362 0/1:69:28,41:28:996:41:1460:-110.925,0,-69.1838 0/1:73:33,40:33:1184:40:1432:-107.202,0,-84.8931 0/1:120:64,56:64:2288:56:1996:-143.79,0,-170.058 0/1:8:7,1:7:248:1:32:-0.791073,0,-20.256 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:19:0,19:0:0:19:672:-60.8068,-5.71957,0 1/1:53:0,53:0:0:53:1867:-168.309,-15.9546,0 1/1:70:0,70:0:0:70:2483:-223.724,-21.0721,0 1/1:90:0,90:0:0:90:3192:-287.506,-27.0927,0 1/1:36:0,36:0:0:36:1280:-115.503,-10.8371,0 0/1:37:20,17:20:720:17:600:-43.1911,0,-53.9907 0/1:75:43,32:43:1525:32:1144:-80.6923,0,-114.964 0/1:84:38,46:38:1364:46:1616:-120.443,0,-97.7742 1/1:17:0,17:0:0:17:600:-54.3292,-5.11751,0 1/1:41:0,41:0:0:41:1412:-127.373,-12.3422,0 chr01 5735830 . T C 15536.1 PASS AB=0.31068;ABP=1253.59;AC=21;AF=0.5;AN=42;AO=1248;CIGAR=1X;DP=4017;DPB=4017;DPRA=0;EPP=2713.01;EPPR=6013.65;GTI=3;LEN=1;MEANALT=1.04762;MQM=55.2989;MQMR=26.6756;NS=21;NUMALT=1;ODDS=3.36148;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44578;QR=99259;RO=2768;RPL=0;RPP=2713.01;RPPR=6013.65;RPR=1248;RUN=1;SAF=1248;SAP=2713.01;SAR=0;SRF=2768;SRP=6013.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:238:145,93:145:5189:93:3336:-228.412,0,-288.129 0/1:156:126,30:126:4515:30:1068:-49.2476,0,-148.207 0/1:183:124,59:124:4448:59:2104:-134.255,0,-216.27 0/1:111:59,52:59:2120:52:1850:-133.184,0,-112.404 0/1:437:307,130:307:11021:130:4660:-287.542,0,-556.281 0/1:193:138,55:138:4952:55:1972:-119.26,0,-205.796 0/1:399:313,86:313:11236:86:3058:-154.643,0,-400.807 0/1:179:123,55:123:4374:55:1941:-120.624,0,-178.262 0/1:509:304,205:304:10924:205:7331:-506.09,0,-451.363 0/1:50:29,21:29:1044:21:744:-52.1478,0,-31.9324 0/1:10:3,7:3:108:7:252:-19.9949,0,-0.0661652 0/1:46:29,17:29:1044:17:600:-40.4139,0,-41.0452 0/1:231:160,71:160:5728:71:2540:-158.955,0,-248.177 0/1:171:115,56:115:4132:56:1994:-123.491,0,-203.547 0/1:307:228,79:228:8188:79:2824:-161.754,0,-396.784 0/1:113:95,18:95:3404:18:648:-24.6104,0,-178.834 0/1:168:123,45:123:4390:45:1616:-94.8873,0,-239.701 0/1:97:80,17:80:2863:17:612:-26.0139,0,-116.127 0/1:108:81,27:81:2912:27:964:-54.3835,0,-123.387 0/1:226:134,92:134:4808:92:3280:-226.571,0,-147.681 0/1:85:52,33:52:1859:33:1184:-80.8356,0,-25.574 chr01 5735835 . GTTTGAAC GTTCGAAT,ATTCGAAT 48056.9 PASS AB=0.462859,0.530767;ABP=51.8852,36.5491;AC=21,21;AF=0.5,0.5;AN=42;AO=1888,2165;CIGAR=3M1X3M1X,1X2M1X3M1X;DP=4079;DPB=4080.75;DPRA=0,0;EPP=4102.75,4704.25;EPPR=0;GTI=5;LEN=8,8;MEANALT=3.14286,3.14286;MQM=55.2744,18.346;MQMR=0;NS=21;NUMALT=2;ODDS=2.39877;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=46.5,46.5;PQR=0;PRO=0;QA=66762,76647;QR=0;RO=0;RPL=0,0;RPP=4102.75,4704.25;RPPR=0;RPR=1888,2165;RUN=1,1;SAF=1888,2165;SAP=4102.75,4704.25;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:241:0,165,75:0:0:165,75:5802,2645:-582.622,-110.858,-61.1877,-471.701,0,-449.124 1/2:159:0,58,98:0:0:58,98:2073,3482:-240.56,-72.5234,-55.0637,-167.964,0,-138.463 1/2:186:0,93,92:0:0:93,92:3277,3258:-405.181,-138.64,-110.644,-266.519,0,-238.824 1/2:112:0,81,30:0:0:81,30:2841,1066:-274.052,-43.4629,-19.0794,-230.52,0,-221.489 1/2:443:0,225,215:0:0:225,215:7978,7635:-968.486,-319.195,-251.463,-649.253,0,-584.532 1/2:195:0,114,81:0:0:114,81:4068,2893:-386.917,-55.8159,-21.4985,-331.313,0,-306.929 1/2:405:0,177,223:0:0:177,223:6248,7897:-667.065,-159.362,-106.08,-507.639,0,-440.51 1/2:181:0,78,102:0:0:78,102:2764,3611:-358.213,-133.67,-110.189,-224.532,0,-193.827 1/2:518:0,210,305:0:0:210,305:7424,10795:-1115.12,-510.946,-447.729,-604.228,0,-512.414 1/2:51:0,21,30:0:0:21,30:746,1069:-100.316,-39.5373,-33.2156,-61.061,0,-52.0301 1/2:10:0,7,3:0:0:7,3:251,107:-22.7964,-2.17307,-0.0658606,-20.8076,0,-19.9045 1/2:48:0,21,26:0:0:21,26:728,908:-94.3017,-35.1345,-28.8128,-59.0867,0,-51.2599 1/2:239:0,95,142:0:0:95,142:3361,5016:-486,-212.549,-183.951,-273.467,0,-230.721 1/2:175:0,92,81:0:0:92,81:3198,2776:-372.731,-118.869,-91.174,-253.862,0,-229.478 1/2:309:0,135,172:0:0:135,172:4778,6124:-645.456,-256.614,-215.975,-388.857,0,-337.08 1/2:114:0,40,74:0:0:40,74:1432,2637:-237.988,-121.251,-109.209,-116.987,0,-94.7108 1/2:169:0,86,83:0:0:86,83:3040,2934:-384.437,-137.077,-111.188,-247.586,0,-222.601 1/2:99:0,29,70:0:0:29,70:1034,2478:-173.504,-89.4277,-80.6979,-84.3787,0,-63.3066 1/2:110:0,36,74:0:0:36,74:1265,2610:-212.183,-109.364,-98.5267,-103.12,0,-80.8433 1/2:230:0,92,137:0:0:92,137:3276,4856:-445.19,-178.758,-151.063,-266.371,0,-225.13 1/2:85:0,33,52:0:0:33,52:1178,1850:-131.222,-35.5079,-25.5739,-95.9743,0,-80.3208 chr01 5735871 . G A 5398.22 PASS AB=0.535679;ABP=47.6363;AC=21;AF=0.5;AN=42;AO=2162;CIGAR=1X;DP=4036;DPB=4036;DPRA=0;EPP=4697.73;EPPR=3940.93;GTI=5;LEN=1;MEANALT=1.04762;MQM=18.5597;MQMR=54.9797;NS=21;NUMALT=1;ODDS=0.520144;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77467;QR=66467;RO=1873;RPL=2162;RPP=4697.73;RPPR=4044.16;RPR=0;RUN=1;SAF=2162;SAP=4697.73;SAR=0;SRF=1855;SRP=3915.33;SRR=18;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:239:164,75:164:5867:75:2687:-61.9497,0,-454.465 0/1:157:59,98:59:2112:98:3504:-58.013,0,-141.906 0/1:182:91,91:91:3202:91:3260:-109.468,0,-233.024 0/1:109:78,31:78:2747:31:1116:-23.2684,0,-213.459 0/1:439:223,216:223:7942:216:7764:-256.017,0,-581.401 0/1:193:112,81:112:3991:81:2908:-22.1056,0,-300.607 0/1:402:177,225:177:6225:225:8060:-112.629,0,-436.315 0/1:179:76,103:76:2711:103:3681:-114.058,0,-189.729 0/1:507:203,304:203:7186:304:10916:-452.47,0,-493.097 0/1:51:21,30:21:748:30:1080:-33.2453,0,-52.2057 0/1:10:7,3:7:252:3:108:-0.0661653,0,-19.9949 0/1:46:20,26:20:720:26:917:-31.1647,0,-51.1962 0/1:237:96,141:96:3406:141:5051:-183.675,0,-234.398 0/1:170:89,81:89:3168:81:2876:-94.1164,0,-227.45 0/1:305:134,171:134:4763:171:6139:-216.119,0,-335.734 0/1:122:49,73:49:1711:73:2624:-104.986,0,-113.546 0/1:171:86,84:86:3046:84:2995:-113.893,0,-218.555 0/1:97:28,69:28:992:69:2467:-79.6984,0,-60.1352 0/1:110:36,74:36:1272:74:2638:-98.5342,0,-81.4794 0/1:227:92,135:92:3283:135:4840:-150.089,0,-226.586 0/1:83:32,51:32:1123:51:1836:-25.1967,0,-76.0605 chr01 5799649 . G T 13631.8 PASS AB=0.517624;ABP=7.14347;AC=13;AF=0.309524;AN=42;AO=796;CIGAR=1X;DP=2250;DPB=2250;DPRA=1.20428;EPP=1731.5;EPPR=3151.65;GTI=0;LEN=1;MEANALT=1;MQM=59.7651;MQMR=59.7545;NS=21;NUMALT=1;ODDS=3.91589;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28583;QR=52040;RO=1454;RPL=0;RPP=1731.5;RPPR=3151.65;RPR=796;RUN=1;SAF=796;SAP=1731.5;SAR=0;SRF=1454;SRP=3160.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:65,81:65:2321:81:2901:-217.373,0,-165.166 0/1:114:50,64:50:1792:64:2300:-172.797,0,-127.221 0/1:55:29,26:29:1044:26:936:-68.0005,0,-77.7158 0/1:88:50,38:50:1796:38:1356:-95.8049,0,-135.425 0/1:216:103,113:103:3666:113:4060:-300.551,0,-265.05 0/1:119:47,72:47:1692:72:2584:-196.964,0,-116.736 0/1:102:48,54:48:1716:54:1940:-144.171,0,-123.996 0/1:271:141,130:141:5045:130:4672:-338.917,0,-372.461 0/1:195:73,122:73:2586:122:4388:-336.388,0,-174.285 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.6268 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/0:183:183,0:183:6557:0:0:0,-55.0885,-590.196 0/0:151:151,0:151:5390:0:0:0,-45.4555,-485.066 0/0:118:118,0:118:4225:0:0:0,-35.5215,-380.421 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.305 0/1:35:20,15:20:716:15:540:-38.4005,0,-54.2317 0/1:85:42,43:42:1512:43:1538:-113.093,0,-110.778 0/1:89:61,28:61:2181:28:1008:-64.2447,0,-169.76 0/0:92:90,2:90:3236:2:72:0,-20.858,-284.619 0/0:65:64,1:64:2285:1:36:0,-15.9687,-202.295 chr01 5799656 . C A 28708.5 PASS AB=0.484021;ABP=6.34124;AC=29;AF=0.690476;AN=42;AO=1431;CIGAR=1X;DP=2208;DPB=2208;DPRA=0;EPP=3024.14;EPPR=1681.57;GTI=0;LEN=1;MEANALT=1;MQM=59.7505;MQMR=59.7876;NS=21;NUMALT=1;ODDS=5.13588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51005;QR=27760;RO=777;RPL=10;RPP=3024.14;RPPR=1681.57;RPR=1421;RUN=1;SAF=1431;SAP=3110.39;SAR=0;SRF=777;SRP=1690.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:82,65:82:2936:65:2305:-163.44,0,-220.223 0/1:113:62,51:62:2216:51:1824:-130.392,0,-165.672 0/1:53:25,28:25:900:28:993:-73.7256,0,-65.3664 0/1:86:38,48:38:1352:48:1716:-128.83,0,-96.0469 0/1:211:110,101:110:3907:101:3576:-258.487,0,-288.283 0/1:119:72,47:72:2584:47:1670:-114.759,0,-196.968 0/1:96:50,46:50:1788:46:1652:-120.033,0,-132.304 0/1:264:125,139:125:4483:139:4966:-367.458,0,-324.022 0/1:192:121,71:121:4318:71:2556:-172.49,0,-330.997 0/1:16:6,10:6:216:10:356:-27.5648,0,-14.974 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 1/1:181:0,181:0:0:181:6440:-579.676,-54.4864,0 1/1:151:0,151:0:0:151:5366:-482.912,-45.4555,0 1/1:113:0,113:0:0:113:4028:-362.703,-34.0164,0 1/1:60:0,60:0:0:60:2144:-193.225,-18.0618,0 0/1:35:15,20:15:536:20:716:-54.2317,0,-38.0388 0/1:82:41,41:41:1453:41:1468:-107.722,0,-106.348 0/1:88:28,60:28:999:60:2126:-165.115,0,-63.7339 1/1:90:2,88:2:72:88:3137:-275.714,-20.256,0 1/1:61:0,61:0:0:61:2178:-196.276,-18.3628,0 chr01 5857031 . 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A T,C 177148 PASS AB=0.561535,0.438465;ABP=156.408,156.408;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4646,2056;CIGAR=1X,1X;DP=6702;DPB=6702;DPRA=0,2.18987;EPP=10091.7,4467.56;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.85714,2;MQM=50.7163,57.9591;MQMR=0;NS=21;NUMALT=2;ODDS=28.6894;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=165394,72858;QR=0;RO=0;RPL=2258,1009;RPP=10.9091,4.5354;RPPR=0;RPR=2388,1047;RUN=1,1;SAF=2258,1009;SAP=10.9091,4.5354;SAR=2388,1047;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:320:0,168,152:0:0:168,152:5986,5382:-910.176,-438.321,-387.748,-472.204,0,-426.448 1/2:325:0,179,146:0:0:179,146:6326,5153:-929.344,-419.583,-365.699,-510.112,0,-466.161 1/2:288:0,164,124:0:0:164,124:5852,4401:-827.617,-358.788,-309.419,-469.182,0,-431.854 1/2:436:0,259,177:0:0:259,177:9175,6281:-1242.91,-511.509,-433.543,-731.751,0,-678.469 1/2:758:0,430,328:0:0:430,328:15355,11634:-2174.65,-946.728,-817.285,-1228.27,0,-1129.53 1/2:234:0,139,95:0:0:139,95:4942,3373:-670.726,-274.972,-233.129,-396.106,0,-367.508 1/2:513:0,264,249:0:0:264,249:9383,8867:-1475.2,-722.509,-643.037,-753.041,0,-678.084 1/2:339:0,184,155:0:0:184,155:6542,5513:-972.116,-448.948,-393.558,-523.521,0,-476.861 1/2:741:0,470,271:0:0:470,271:16756,9583:-2126.4,-780.209,-638.725,-1346.54,0,-1264.96 1/2:25:0,12,13:0:0:12,13:428,464:-72.8576,-38.1773,-34.5649,-35.0359,0,-31.1225 1/1:21:0,21,0:0:0:21,0:752,0:-67.4176,-6.32163,0,-67.4176,-6.32163,-67.4176 1/1:105:0,105,0:0:0:105,0:3736,0:-331.264,-31.6082,0,-331.264,-31.6082,-331.264 1/1:355:0,353,2:0:0:353,2:12591,72:-1116.06,-106.264,0,-1110.18,-100.031,-1109.58 1/1:388:0,384,4:0:0:384,4:13719,144:-1219.07,-115.596,0,-1207.32,-103.493,-1206.12 1/1:465:0,463,2:0:0:463,2:16529,68:-1455.38,-139.377,0,-1449.86,-133.521,-1449.26 1/1:348:0,348,0:0:0:348,0:12366,0:-1101.44,-104.758,0,-1101.44,-104.758,-1101.44 1/2:295:0,137,158:0:0:137,158:4889,5561:-844.521,-452.516,-411.275,-392.356,0,-344.793 1/2:211:0,89,122:0:0:89,122:3143,4314:-605.168,-351.212,-324.42,-254.308,0,-217.582 1/2:179:0,124,55:0:0:124,55:4413,1944:-511.634,-158.452,-121.124,-353.535,0,-336.978 1/1:238:0,236,2:0:0:236,2:8368,68:-739.504,-71.0431,0,-734.06,-65.2622,-733.458 1/1:118:0,117,1:0:0:117,1:4143,36:-366.252,-35.2205,0,-363.314,-31.9233,-363.013 chr01 7052370 . TTCGAAACCAG CTCAAAAACAT,CTCAAAACCAT 69911.1 PASS AB=0.545038,0.443703;ABP=45.2589,69.0238;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2398,1070;CIGAR=1X2M1X3M1X2M1X,1X2M1X6M1X;DP=3507;DPB=3506.91;DPRA=0,1.48412;EPP=5106.49,2231.92;EPPR=0;GTI=0;LEN=11,11;MEANALT=3.38095,3.75;MQM=42.1013,56.0925;MQMR=0;NS=21;NUMALT=2;ODDS=14.8794;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84306,37562;QR=0;RO=0;RPL=2386,1059;RPP=5106.49,2231.92;RPPR=0;RPR=12,11;RUN=1,1;SAF=0,0;SAP=5210.2,2326.49;SAR=2398,1070;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:180:0,92,81:0:0:92,81:3211,2860:-481.933,-232.664,-204.969,-249.303,0,-224.919 1/2:164:0,72,91:0:0:72,91:2531,3224:-462.353,-262.329,-240.655,-200.019,0,-172.625 1/2:135:0,74,61:0:0:74,61:2623,2089:-375.574,-169.646,-147.37,-206.27,0,-187.907 1/2:275:0,157,115:0:0:157,115:5475,4048:-760.256,-328.954,-281.692,-431.336,0,-396.718 1/2:397:0,214,182:0:0:214,182:7533,6337:-1105.3,-514.163,-449.743,-591.14,0,-536.352 1/2:135:0,76,58:0:0:76,58:2690,2050:-379.898,-166.768,-143.89,-213.188,0,-195.728 1/2:245:0,132,111:0:0:132,111:4637,3910:-685.284,-317.891,-278.155,-367.471,0,-334.057 1/2:170:0,92,78:0:0:92,78:3245,2730:-476.783,-221.805,-194.11,-255.323,0,-231.843 1/2:373:0,248,117:0:0:248,117:8722,4141:-1031.45,-337.026,-262.371,-694.471,0,-659.251 1/2:8:0,3,5:0:0:3,5:108,180:-23.6398,-15.039,-14.136,-8.95573,0,-7.45058 1/1:10:0,10,0:0:0:10,0:349,0:-31.1584,-3.0103,0,-31.1584,-3.0103,-31.1584 1/1:48:0,47,0:0:0:47,0:1657,0:-144.637,-14.1484,0,-144.637,-14.1484,-144.637 1/1:188:0,185,1:0:0:185,1:6508,36:-570.127,-55.6906,0,-567.192,-52.7304,-566.891 1/1:151:0,145,3:0:0:145,3:5074,108:-443.145,-43.6494,0,-434.34,-34.8191,-433.437 1/1:327:0,326,0:0:0:326,0:11453,0:-1002.2,-98.1358,0,-1002.2,-98.1358,-1002.2 1/1:163:0,161,0:0:0:161,0:5649,0:-498.851,-48.4658,0,-498.851,-48.4658,-498.851 1/2:139:0,56,81:0:0:56,81:1975,2858:-387.517,-232.241,-215.383,-155.3,0,-130.916 1/2:86:0,27,57:0:0:27,57:948,1994:-237.32,-161.786,-153.659,-75.5916,0,-58.4329 1/2:91:0,64,27:0:0:64,27:2262,943:-254.784,-76.946,-57.6801,-178.185,0,-170.057 1/1:160:0,157,2:0:0:157,2:5531,54:-485.081,-47.2617,0,-480.826,-42.9733,-480.224 1/1:62:0,60,0:0:0:60,0:2125,0:-186.43,-18.0618,0,-186.43,-18.0618,-186.43 chr01 7215589 . C T 5440.29 PASS AB=0.468443;ABP=9.17753;AC=13;AF=0.309524;AN=42;AO=334;CIGAR=1X;DP=1050;DPB=1050;DPRA=1.30199;EPP=728.282;EPPR=1557.78;GTI=0;LEN=1;MEANALT=1;MQM=59.9491;MQMR=59.9749;NS=21;NUMALT=1;ODDS=7.18202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11969;QR=25644;RO=716;RPL=0;RPP=728.282;RPPR=1557.78;RPR=334;RUN=1;SAF=334;SAP=728.282;SAR=0;SRF=716;SRP=1557.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:27,38:27:968:38:1361:-103.224,0,-67.8704 0/1:23:12,11:12:432:11:392:-28.6964,0,-32.2975 0/1:23:12,11:12:432:11:396:-29.0591,0,-32.2975 0/1:67:34,33:34:1216:33:1184:-86.6993,0,-89.5776 0/1:94:57,37:57:2048:37:1328:-91.5254,0,-156.295 0/1:93:53,40:53:1896:40:1428:-100.822,0,-142.922 0/1:67:28,39:28:1008:39:1396:-105.77,0,-70.8673 0/1:44:24,20:24:856:20:720:-51.8835,0,-64.1158 0/1:78:48,30:48:1720:30:1076:-73.6725,0,-131.605 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:55:55,0:55:1964:0:0:0,-16.5566,-177.035 0/0:58:58,0:58:2060:0:0:0,-17.4597,-185.672 0/0:70:70,0:70:2504:0:0:0,-21.0721,-225.526 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/1:22:16,6:16:572:6:216:-13.097,0,-45.1908 0/1:56:24,32:24:864:32:1152:-87.1325,0,-61.2249 0/1:74:42,32:42:1508:32:1140:-80.633,0,-113.738 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 chr01 7215610 . 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T C 6105.01 PASS AB=0.472059;ABP=7.62149;AC=13;AF=0.309524;AN=42;AO=364;CIGAR=1X;DP=1227;DPB=1227;DPRA=1.545;EPP=793.426;EPPR=1876.99;GTI=0;LEN=1;MEANALT=1;MQM=59.4423;MQMR=59.978;NS=21;NUMALT=1;ODDS=10.0443;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12947;QR=30797;RO=863;RPL=363;RPP=784.764;RPPR=1876.99;RPR=1;RUN=1;SAF=363;SAP=784.764;SAR=1;SRF=863;SRP=1876.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:27,19:27:963:19:680:-47.6747,0,-73.1386 0/1:51:25,26:25:900:26:919:-67.6573,0,-65.9685 0/0:50:50,0:50:1785:0:0:0,-15.0515,-160.931 0/1:43:19,24:19:684:24:851:-63.9652,0,-48.946 0/1:139:84,55:84:3004:55:1949:-133.807,0,-228.748 0/1:52:30,22:30:1072:22:792:-55.8424,0,-81.1389 0/1:92:47,45:47:1692:45:1603:-116.848,0,-124.872 1/1:41:0,41:0:0:41:1454:-131.14,-12.3422,0 0/0:127:126,1:126:4459:1:36:0,-34.6325,-397.882 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:109:109,0:109:3878:0:0:0,-32.8123,-349.216 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.822 0/1:86:44,42:44:1559:42:1489:-108.391,0,-114.712 0/1:32:10,22:10:356:22:788:-59.5302,0,-22.7483 0/1:57:27,30:27:963:30:1067:-79.1807,0,-69.8272 0/1:36:19,17:19:684:17:612:-44.5717,0,-51.0532 0/1:46:27,19:27:968:19:671:-46.8684,0,-73.59 0/0:79:78,1:78:2796:1:36:0,-20.1831,-248.282 0/0:34:34,0:34:1211:0:0:0,-10.235,-109.296 chr01 8122214 . 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AGATT TGATA,TGATT 34350.1 PASS AB=0.563307,0.434109;ABP=43.4266,46.7932;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1157,504;CIGAR=1X3M1X,1X4M;DP=1667;DPB=1667;DPRA=0,1.41198;EPP=2506.73,1097.43;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.85714,2.23077;MQM=59.5635,59.873;MQMR=0;NS=21;NUMALT=2;ODDS=0.28159;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40780,18074;QR=0;RO=0;RPL=1156,504;RPP=2506.73,1097.43;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=2515.4,1097.43;SAR=1157,504;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,71,29:0:0:71,29:2486,1040:-287.448,-85.1845,-63.8114,-202.619,0,-193.889 1/2:76:0,47,29:0:0:47,29:1666,1040:-220.393,-85.1845,-71.0361,-135.565,0,-126.835 1/2:91:0,46,45:0:0:46,45:1642,1616:-265.973,-132.181,-118.334,-134.149,0,-120.603 1/2:107:0,68,39:0:0:68,39:2384,1396:-308.132,-114.198,-93.728,-194.289,0,-182.549 1/2:179:0,81,98:0:0:81,98:2879,3520:-522.109,-287.508,-263.124,-234.958,0,-205.457 1/2:80:0,44,35:0:0:44,35:1547,1252:-227.984,-102.09,-88.8448,-125.89,0,-115.354 1/2:183:0,102,80:0:0:102,80:3590,2864:-525.491,-233.485,-202.78,-292.128,0,-268.046 1/2:56:0,35,21:0:0:35,21:1225,756:-161.7,-62.0456,-51.5095,-100.011,0,-93.6891 1/2:148:0,68,80:0:0:68,80:2376,2870:-427.452,-234.184,-213.714,-193.621,0,-169.539 1/2:5:0,4,1:0:0:4,1:143,32:-14.5882,-2.89828,-1.69416,-12.0173,0,-11.7163 1/1:4:0,4,0:0:0:4,0:138,0:-12.7598,-1.20412,0,-12.7598,-1.20412,-12.7598 1/1:21:0,21,0:0:0:21,0:751,0:-67.9164,-6.32163,0,-67.9164,-6.32163,-67.9164 1/1:77:0,76,0:0:0:76,0:2650,0:-238.346,-22.8783,0,-238.346,-22.8783,-238.346 1/1:102:0,102,0:0:0:102,0:3558,0:-320.402,-30.7051,0,-320.402,-30.7051,-320.402 1/1:132:0,130,0:0:0:130,0:4629,0:-416.442,-39.1339,0,-416.442,-39.1339,-416.442 1/1:57:0,57,0:0:0:57,0:2043,0:-184.143,-17.1587,0,-184.143,-17.1587,-184.143 1/2:53:0,33,19:0:0:33,19:1143,684:-148.696,-55.8114,-45.8774,-92.8802,0,-87.1606 1/2:43:0,25,18:0:0:25,18:887,644:-125.128,-52.8721,-45.3463,-72.6122,0,-67.1937 1/2:40:0,30,10:0:0:30,10:1064,360:-116.403,-29.734,-20.7031,-87.0273,0,-84.017 1/1:80:0,80,0:0:0:80,0:2832,0:-254.727,-24.0824,0,-254.727,-24.0824,-254.727 1/1:33:0,33,0:0:0:33,0:1147,0:-103.511,-9.93399,0,-103.511,-9.93399,-103.511 chr01 8123091 . T A,G 34324 PASS AB=0.559083,0.440917;ABP=37.3939,37.3939;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1132,500;CIGAR=1X,1X;DP=1633;DPB=1633;DPRA=0,1.39849;EPP=2461.12,1088.75;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=59.6643,59.864;MQMR=40;NS=21;NUMALT=2;ODDS=1.71796;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40578,17948;QR=36;RO=1;RPL=1132,500;RPP=2461.12,1088.75;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2461.12,1088.75;SAR=1132,500;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,69,29:0:0:69,29:2464,1044:-286.426,-85.5449,-64.7739,-201.24,0,-192.51 1/2:72:0,44,28:0:0:44,28:1576,1008:-211.11,-82.6075,-69.3622,-128.862,0,-120.433 1/2:88:0,44,44:0:0:44,44:1576,1580:-257.702,-129.246,-116.001,-128.814,0,-115.569 1/2:104:0,64,40:0:0:64,40:2284,1436:-303.692,-117.494,-98.2282,-186.556,0,-174.515 1/2:177:0,78,99:0:0:78,99:2804,3560:-519.555,-290.805,-267.324,-229.109,0,-199.307 1/2:76:0,43,33:0:0:43,33:1540,1176:-221.765,-96.2138,-83.2695,-125.908,0,-115.974 1/2:179:0,100,79:0:0:100,79:3582,2828:-522.861,-230.776,-200.673,-292.443,0,-268.661 1/2:56:0,35,21:0:0:35,21:1260,756:-164.851,-62.0456,-51.5095,-103.165,0,-96.8432 1/2:148:0,68,80:0:0:68,80:2440,2872:-433.281,-234.264,-213.794,-199.376,0,-175.294 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/1:4:0,4,0:0:0:4,0:140,0:-12.9446,-1.20412,0,-12.9446,-1.20412,-12.9446 1/1:20:0,20,0:0:0:20,0:716,0:-64.7677,-6.0206,0,-64.7677,-6.0206,-64.7677 1/1:76:0,76,0:0:0:76,0:2720,0:-245.036,-22.8783,0,-245.036,-22.8783,-245.036 1/1:99:0,99,0:0:0:99,0:3540,0:-318.78,-29.802,0,-318.78,-29.802,-318.78 1/1:131:0,131,0:0:0:131,0:4700,0:-422.867,-39.4349,0,-422.867,-39.4349,-422.867 1/1:56:0,56,0:0:0:56,0:2012,0:-181.353,-16.8577,0,-181.353,-16.8577,-181.353 1/2:53:0,34,19:0:0:34,19:1220,684:-155.677,-56.1708,-45.9357,-99.8654,0,-94.1458 1/2:41:0,23,18:0:0:23,18:828,644:-120.429,-52.8721,-45.9484,-67.9158,0,-62.4973 1/2:37:0,28,9:0:0:28,9:1004,324:-108.597,-26.7966,-18.3677,-82.1597,0,-79.4505 1/1:79:0,79,0:0:0:79,0:2844,0:-256.161,-23.7814,0,-256.161,-23.7814,-256.161 1/1:34:1,33,0:1:36:33,0:1184,0:-103.389,-6.78053,0,-103.69,-9.93399,-106.498 chr01 8604122 . T A 88976.5 PASS AB=0.518795;ABP=12.8868;AC=29;AF=0.690476;AN=42;AO=3420;CIGAR=1X;DP=4973;DPB=4973;DPRA=0;EPP=7429.45;EPPR=3370.96;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9933;MQMR=59.9961;NS=21;NUMALT=1;ODDS=10.5651;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=121979;QR=55356;RO=1551;RPL=1409;RPP=233.113;RPPR=30.0606;RPR=2011;RUN=1;SAF=1409;SAP=233.113;SAR=2011;SRF=706;SRP=30.0606;SRR=845;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:100,79:100:3537:79:2820:-200.155,0,-264.654 0/1:164:86,78:86:3084:78:2789:-201.881,0,-228.419 0/1:201:85,116:85:3051:116:4108:-309.397,0,-214.311 0/1:317:161,156:161:5752:156:5533:-402.667,0,-422.368 0/1:433:209,223:209:7467:223:8003:-589.883,0,-541.666 0/1:251:123,128:123:4403:128:4596:-338.244,0,-320.883 0/1:359:190,169:190:6770:169:6062:-437.612,0,-501.304 0/1:229:112,117:112:4003:117:4180:-307.444,0,-291.524 0/1:410:200,210:200:7133:210:7516:-553.059,0,-518.607 0/1:38:16,22:16:568:22:777:-58.8112,0,-40.0127 1/1:15:1,14:1:36:14:496:-41.376,-0.917175,0 1/1:69:0,69:0:0:69:2468:-222.374,-20.7711,0 1/1:340:1,339:1:36:339:12091:-1084.44,-98.7519,0 1/1:271:0,271:0:0:271:9653:-868.704,-81.5791,0 1/1:349:1,348:1:36:348:12398:-1112.06,-101.461,0 1/1:211:1,210:1:32:210:7473:-669.417,-60.318,0 0/1:185:97,88:97:3476:88:3147:-227.764,0,-257.361 0/1:230:101,128:101:3603:128:4513:-337.104,0,-255.24 0/1:223:67,156:67:2369:156:5566:-433.933,0,-146.338 1/1:361:0,361:0:0:361:12880:-1159.01,-108.672,0 1/1:138:0,138:0:0:138:4910:-442.051,-41.5421,0 chr01 8930036 . T G 26351.8 PASS AB=0.484806;ABP=5.84779;AC=29;AF=0.690476;AN=42;AO=1346;CIGAR=1X;DP=2081;DPB=2081;DPRA=0;EPP=2925.81;EPPR=1599.04;GTI=0;LEN=1;MEANALT=1;MQM=59.9651;MQMR=60;NS=21;NUMALT=1;ODDS=0.710052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47895;QR=26240;RO=735;RPL=1346;RPP=2925.81;RPPR=1599.04;RPR=0;RUN=1;SAF=0;SAP=2925.81;SAR=1346;SRF=0;SRP=1599.04;SRR=735;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:37,47:37:1328:47:1688:-126.92,0,-94.5357 0/1:102:50,52:50:1800:52:1831:-134.364,0,-131.577 0/1:71:31,40:31:1116:40:1432:-107.804,0,-79.3786 0/1:101:39,62:39:1404:62:2192:-167.14,0,-96.2552 0/1:209:102,107:102:3664:107:3815:-280.602,0,-267.047 0/1:93:45,48:45:1578:48:1720:-127.09,0,-114.311 0/1:121:64,57:64:2288:57:2036:-147.088,0,-169.757 0/1:162:103,59:103:3621:59:2092:-139.783,0,-277.325 0/1:128:92,36:92:3300:36:1288:-77.6917,0,-258.687 0/1:13:10,3:10:341:3:108:-6.16178,0,-27.1044 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:32:0,32:0:0:32:1140:-102.909,-9.63296,0 1/1:104:0,104:0:0:104:3704:-333.563,-31.3071,0 1/1:128:0,128:0:0:128:4580:-412.279,-38.5318,0 1/1:140:0,140:0:0:140:4996:-449.79,-42.1442,0 1/1:46:0,46:0:0:46:1628:-146.809,-13.8474,0 0/1:74:37,37:37:1320:37:1303:-95.2946,0,-96.8257 0/1:164:83,81:83:2972:81:2859:-208.179,0,-218.344 0/1:93:36,57:36:1292:57:2015:-153.627,0,-88.588 1/1:127:4,123:4:144:123:4374:-380.524,-24.9172,0 1/1:82:2,80:2:72:80:2842:-249.182,-17.8477,0 chr01 8959417 . G C 1376.17 PASS AB=0.359838;ABP=129.623;AC=29;AF=0.690476;AN=42;AO=646;CIGAR=1X;DP=1232;DPB=1232;DPRA=0;EPP=1405.78;EPPR=1253.84;GTI=12;LEN=1;MEANALT=1.04762;MQM=15.4861;MQMR=44.0034;NS=21;NUMALT=1;ODDS=2.04578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23056;QR=20895;RO=584;RPL=0;RPP=1405.78;RPPR=1271.15;RPR=646;RUN=1;SAF=0;SAP=1405.78;SAR=646;SRF=2;SRP=1253.84;SRR=582;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:34,15:34:1209:15:525:-5.77187,0,-92.8052 0/1:68:50,18:50:1796:18:648:-5.54128,0,-135.761 0/1:74:44,30:44:1584:30:1080:-18.9984,0,-118.22 0/1:42:29,13:29:1036:13:468:-5.01747,0,-78.3355 0/0:136:107,27:107:3816:27:964:0,-3.77714,-301.428 0/1:83:56,27:56:1999:27:960:-13.7575,0,-149.543 0/1:125:81,44:81:2891:44:1584:-25.724,0,-212.76 0/1:27:11,16:11:396:16:576:-15.1901,0,-26.5998 0/1:84:59,25:59:2112:25:885:-8.4558,0,-162.201 1/1:5:0,5:0:0:5:180:-7.34062,-1.50515,0 1/1:6:0,6:0:0:6:216:-8.77683,-1.80618,0 1/1:24:0,24:0:0:24:860:-34.4435,-7.22472,0 1/1:57:0,57:0:0:57:2040:-77.273,-17.1587,0 1/1:60:0,60:0:0:60:2137:-81.752,-18.0618,0 1/1:79:2,77:2:72:77:2717:-98.6056,-17.1262,0 1/1:39:0,39:0:0:39:1381:-52.681,-11.7402,0 0/1:69:52,17:52:1868:17:608:-2.27317,0,-145.678 0/1:75:37,38:37:1324:38:1360:-32.4138,0,-93.8234 0/1:46:22,24:22:792:24:852:-18.8846,0,-56.8416 1/1:51:0,51:0:0:51:1827:-73.3808,-15.3525,0 1/1:33:0,33:0:0:33:1188:-47.5544,-9.93399,0 chr01 8959422 . TTTAT TTTCT,GTTT 14610.6 PASS AB=0.633822,0.359521;ABP=119.827,131.74;AC=13,29;AF=0.309524,0.690476;AN=42;AO=590,651;CIGAR=3M1X1M,1X2M1D1M;DP=1246;DPB=1115.2;DPRA=2.15274,0;EPP=1284.18,1416.64;EPPR=0;GTI=10;LEN=1,4;MEANALT=2.30769,1.80952;MQM=43.939,15.4777;MQMR=0;NS=21;NUMALT=2;ODDS=310.414;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20965,22885;QR=0;RO=0;RPL=2,0;RPP=1266.87,1416.64;RPPR=0;RPR=588,651;RUN=1,1;SAF=2,0;SAP=1266.87,1416.64;SAR=588,651;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,35,16:0:0:35,16:1258,553:-118.431,-17.1856,-6.64959,-101.461,0,-96.6442 1/2:69:0,48,18:0:0:48,18:1710,634:-155.435,-20.3022,-5.85275,-135.075,0,-129.657 1/2:74:0,44,30:0:0:44,30:1556,1060:-156.971,-32.2086,-18.9633,-124.994,0,-115.963 1/2:41:0,28,13:0:0:28,13:990,460:-92.8049,-13.7317,-5.30284,-79.2853,0,-75.3719 1/1:140:0,112,28:0:0:112,28:3963,971:-350.588,-33.7154,0,-321.053,-3.98953,-312.624 1/2:83:0,56,27:0:0:56,27:2001,948:-188.658,-30.5747,-13.717,-158.303,0,-150.175 1/2:133:0,86,46:0:0:86,46:3049,1639:-291.63,-52.1737,-26.2851,-239.506,0,-225.659 1/2:28:0,12,15:0:0:12,15:420,527:-50.1664,-16.9813,-13.369,-33.2565,0,-28.741 1/2:84:0,59,25:0:0:59,25:2080,892:-193.345,-26.2834,-8.52267,-167.27,0,-159.744 2/2:5:0,0,5:0:0:0,5:0,172:-7.32064,-7.32064,-7.32064,-1.50515,-1.50515,0 2/2:6:0,0,6:0:0:0,6:0,209:-8.76636,-8.76636,-8.76636,-1.80618,-1.80618,0 2/2:23:0,0,23:0:0:0,23:0,791:-33.1135,-33.1135,-33.1135,-6.92369,-6.92369,0 2/2:57:0,0,57:0:0:0,57:0,2021:-77.2093,-77.2093,-77.2093,-17.1587,-17.1587,0 2/2:62:0,0,62:0:0:0,62:0,2172:-84.5035,-84.5035,-84.5035,-18.6639,-18.6639,0 2/2:78:0,2,76:0:0:2,76:72,2685:-103.257,-97.5492,-96.9471,-22.8783,-16.8252,0 2/2:40:0,0,40:0:0:0,40:0,1415:-54.0811,-54.0811,-54.0811,-12.0412,-12.0412,0 1/2:68:0,50,18:0:0:50,18:1792,610:-163.519,-18.9052,-3.85371,-144.818,0,-139.399 1/2:74:0,36,38:0:0:36,38:1282,1327:-145.456,-43.4702,-32.6332,-102.243,0,-90.8034 1/2:46:0,22,24:0:0:22,24:792,833:-89.2534,-25.4443,-18.8217,-64.0664,0,-56.8416 2/2:51:0,0,51:0:0:0,51:0,1796:-73.3246,-73.3246,-73.3246,-15.3525,-15.3525,0 2/2:33:0,0,33:0:0:0,33:0,1170:-47.5294,-47.5294,-47.5294,-9.93399,-9.93399,0 chr01 8959445 . C A 1506.38 PASS AB=0.341111;ABP=200.363;AC=30;AF=0.714286;AN=42;AO=664;CIGAR=1X;DP=1257;DPB=1257;DPRA=0;EPP=1444.87;EPPR=1282.02;GTI=13;LEN=1;MEANALT=1;MQM=15.6536;MQMR=43.8702;NS=21;NUMALT=1;ODDS=0.0161292;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23765;QR=21179;RO=593;RPL=0;RPP=1444.87;RPPR=1264.77;RPR=664;RUN=1;SAF=0;SAP=1444.87;SAR=664;SRF=2;SRP=1273.38;SRR=591;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:35,16:35:1245:16:576:-6.70851,0,-95.4061 0/1:68:51,17:51:1828:17:593:-3.99747,0,-137.568 0/1:74:43,31:43:1544:31:1116:-20.702,0,-114.678 0/1:41:28,13:28:1000:13:468:-5.3185,0,-75.4335 0/1:143:112,31:112:4024:31:1097:-0.107407,0,-311.545 0/1:83:57,26:57:2018:26:936:-12.3362,0,-151.257 0/1:132:84,48:84:3020:48:1728:-29.8065,0,-220.955 0/1:28:12,16:12:409:16:572:-14.8833,0,-27.503 0/1:85:60,25:60:2122:25:900:-8.23724,0,-162.954 1/1:5:0,5:0:0:5:180:-7.34062,-1.50515,0 1/1:6:0,6:0:0:6:212:-8.77106,-1.80618,0 1/1:24:0,24:0:0:24:860:-34.4435,-7.22472,0 1/1:58:0,58:0:0:58:2080:-78.9805,-17.4597,0 1/1:64:0,64:0:0:64:2273:-88.1196,-19.2659,0 1/1:76:0,76:0:0:76:2732:-108.004,-22.8783,0 1/1:38:0,38:0:0:38:1364:-51.4208,-11.4391,0 0/1:70:52,18:52:1845:18:648:-3.32366,0,-143.59 0/1:75:37,38:37:1332:38:1364:-32.4195,0,-94.311 0/1:50:22,28:22:792:28:1004:-24.5044,0,-55.6375 1/1:51:0,51:0:0:51:1802:-73.1976,-15.3525,0 1/1:35:0,35:0:0:35:1260:-50.9609,-10.5361,0 chr01 8960367 . G T 34648.1 PASS AB=0.501283;ABP=3.03815;AC=29;AF=0.690476;AN=42;AO=1760;CIGAR=1X;DP=2734;DPB=2734;DPRA=0;EPP=3824.8;EPPR=2109.35;GTI=1;LEN=1;MEANALT=1;MQM=59.992;MQMR=59.9979;NS=21;NUMALT=1;ODDS=4.84982;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62959;QR=34514;RO=974;RPL=0;RPP=3824.8;RPPR=2109.35;RPR=1760;RUN=1;SAF=0;SAP=3824.8;SAR=1760;SRF=0;SRP=2118.02;SRR=974;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:77,109:77:2701:109:3912:-296.281,0,-187.341 0/1:117:57,60:57:2037:60:2152:-158.727,0,-148.38 0/1:149:56,93:56:2000:93:3316:-253.806,0,-135.42 0/1:184:111,73:111:3932:73:2624:-181.017,0,-298.682 0/1:301:160,141:160:5658:141:5002:-359.72,0,-418.732 0/1:147:67,80:67:2372:80:2880:-215.184,0,-169.485 0/1:233:127,106:127:4480:106:3808:-272.776,0,-333.231 0/1:82:26,56:26:927:56:1997:-155.318,0,-59.0629 0/1:214:139,75:139:4914:75:2682:-177.205,0,-377.994 0/1:37:17,20:17:608:20:716:-53.6296,0,-43.9139 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:82:0,82:0:0:82:2952:-265.913,-24.6845,0 1/1:153:0,153:0:0:153:5484:-493.686,-46.0576,0 1/1:53:0,53:0:0:53:1904:-171.638,-15.9546,0 1/1:229:0,229:0:0:229:8170:-735.314,-68.9359,0 1/1:116:1,115:1:36:115:4108:-366.306,-31.3212,0 0/1:188:96,92:96:3430:92:3296:-240.265,0,-252.318 0/1:91:34,57:34:1203:57:2032:-155.759,0,-81.1813 0/1:20:5,15:5:180:15:540:-42.9159,0,-10.5315 1/1:93:1,92:1:36:92:3272:-291.101,-24.3975,0 1/1:55:0,55:0:0:55:1968:-177.395,-16.5567,0 chr01 9248176 . CACAA CACAT,GACAT 63300.3 PASS AB=0.45975,0.538462;ABP=34.4753,31.7406;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1909,1209;CIGAR=4M1X,1X3M1X;DP=3128;DPB=3128.2;DPRA=39.05,1.51287;EPP=4148.35,2628.32;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=2.1,2.35714;MQM=54.6207,40.7279;MQMR=60;NS=21;NUMALT=2;ODDS=5.07976;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,32;PQR=0;PRO=0;QA=68343,43030;QR=36;RO=1;RPL=1909,1209;RPP=4148.35,2628.32;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4148.35,2628.32;SAR=1909,1209;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:236:0,113,123:0:0:113,123:4056,4388:-674.988,-344.51,-310.494,-330.829,0,-293.802 1/2:136:0,75,61:0:0:75,61:2647,2186:-379.951,-165.398,-142.82,-214.895,0,-196.532 1/2:124:0,63,59:0:0:63,59:2245,2100:-348.681,-166.032,-147.067,-182.71,0,-164.949 1/2:279:0,127,151:0:0:127,151:4534,5365:-788.674,-419.805,-381.574,-368.869,0,-323.413 1/2:338:0,150,188:0:0:150,188:5380,6685:-961.258,-523.102,-477.947,-438.507,0,-381.913 1/2:188:0,82,106:0:0:82,106:2948,3761:-522.104,-283.898,-259.214,-238.551,0,-206.642 1/2:219:0,110,109:0:0:110,109:3948,3887:-612.613,-291.732,-258.618,-320.911,0,-288.098 1/2:92:0,47,45:0:0:47,45:1688,1610:-262.786,-125.39,-111.242,-137.746,0,-124.199 1/2:308:0,119,189:0:0:119,189:4265,6718:-882.876,-535.223,-499.4,-348.008,0,-291.113 2/2:4:0,0,4:0:0:0,4:0,144:-12.7816,-12.7816,-12.7816,-1.20412,-1.20412,0 1/1:8:0,8,0:0:0:8,0:288,0:-26.0117,-2.40824,0,-26.0117,-2.40824,-26.0117 1/1:42:0,42,0:0:0:42,0:1512,0:-136.056,-12.6433,0,-136.056,-12.6433,-136.056 1/1:195:0,195,0:0:0:195,0:6989,0:-627.943,-58.7009,0,-627.943,-58.7009,-627.943 1/1:167:0,166,0:0:0:166,0:5960,0:-534.38,-49.971,0,-534.38,-49.971,-534.38 1/1:205:0,204,0:0:0:204,0:7290,0:-654.004,-61.4101,0,-654.004,-61.4101,-654.004 1/1:107:0,106,0:0:0:106,0:3789,0:-340.412,-31.9092,0,-340.412,-31.9092,-340.412 1/2:174:0,65,109:0:0:65,109:2324,3871:-497.549,-308.248,-288.681,-189.654,0,-156.842 1/2:64:0,35,29:0:0:35,29:1258,1033:-182.623,-80.1769,-69.6408,-102.794,0,-94.0644 1/2:78:0,42,35:0:0:42,35:1493,1247:-219.171,-97.8182,-85.1749,-121.343,0,-110.807 1/1:111:0,108,1:0:0:108,1:3861,35:-346.1,-32.5112,0,-343.359,-29.7675,-343.058 1/1:53:1,52,0:1:36:52,0:1868,0:-164.139,-12.3563,0,-164.44,-15.6536,-167.378 chr01 9367676 . CAA AAG 15068.5 PASS AB=0.677755;ABP=135.019;AC=29;AF=0.690476;AN=42;AO=724;CIGAR=1X1M1X;DP=879;DPB=879.333;DPRA=0;EPP=1430.96;EPPR=23.3714;GTI=1;LEN=3;MEANALT=1.04762;MQM=59.7017;MQMR=60;NS=21;NUMALT=1;ODDS=6.25819;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=25200;QR=5369;RO=154;RPL=17;RPP=1430.96;RPPR=23.3714;RPR=707;RUN=1;SAF=724;SAP=1575.16;SAR=0;SRF=154;SRP=337.417;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:28,20:28:974:20:686:-47.6071,0,-73.5211 0/1:19:9,10:9:313:10:358:-26.8433,0,-22.7862 0/1:36:10,26:10:356:26:885:-69.1205,0,-21.5444 0/1:33:6,26:6:216:26:883:-69.778,0,-9.79795 0/1:56:13,43:13:450:43:1488:-117.353,0,-23.9716 0/1:30:16,14:16:566:14:439:-30.7785,0,-42.2397 0/1:38:8,30:8:288:30:1076:-85.7139,0,-14.8283 0/1:48:17,31:17:587:31:1106:-85.3963,0,-38.7044 0/1:43:8,35:8:265:35:1210:-96.209,0,-11.2278 0/1:6:2,4:2:64:4:135:-10.6763,0,-4.27192 1/1:12:0,12:0:0:12:425:-38.587,-3.61236,0 1/1:37:0,37:0:0:37:1279:-115.408,-11.1381,0 1/1:66:0,66:0:0:66:2324:-209.29,-19.868,0 1/1:67:0,67:0:0:67:2341:-210.949,-20.169,0 1/1:51:0,51:0:0:51:1787:-161.11,-15.3525,0 1/1:26:0,26:0:0:26:896:-80.5918,-7.82678,0 0/1:15:5,10:5:178:10:347:-27.0482,0,-11.8532 0/1:56:19,37:19:662:37:1312:-101.512,0,-43.046 0/1:53:13,40:13:450:40:1409:-111.151,0,-24.8746 1/1:84:0,84:0:0:84:2912:-262.051,-25.2865,0 1/1:55:0,55:0:0:55:1902:-171.452,-16.5567,0 chr01 9677340 . TA TC,CC 55488.9 PASS AB=0.519452,0.476712;ABP=9.00832,11.607;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1804,872;CIGAR=1M1X,2X;DP=2684;DPB=2684;DPRA=0,1.34848;EPP=3920.35,1896.53;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.04762,2.57143;MQM=59.9573,59.9495;MQMR=0;NS=21;NUMALT=2;ODDS=5.6395;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64345,30537;QR=0;RO=0;RPL=0,0;RPP=3920.35,1896.53;RPPR=0;RPR=1804,872;RUN=1,1;SAF=1804,872;SAP=3920.35,1896.53;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:174:0,91,82:0:0:91,82:3267,2872:-500.283,-233.781,-206.387,-266.605,0,-241.92 1/2:111:0,59,52:0:0:59,52:2096,1808:-318.142,-147.344,-129.583,-171.149,0,-155.496 1/2:176:0,82,92:0:0:82,92:2912,3234:-500.509,-263.229,-238.545,-237.273,0,-209.578 1/2:109:0,52,57:0:0:52,57:1845,1999:-313.321,-162.999,-147.345,-150.675,0,-133.516 1/2:222:0,106,116:0:0:106,116:3768,4069:-638.536,-331.477,-299.568,-307.412,0,-272.493 1/2:151:0,80,71:0:0:80,71:2856,2475:-434.473,-201.63,-177.547,-233.196,0,-211.823 1/2:164:0,87,77:0:0:87,77:3112,2686:-472.567,-218.803,-192.613,-254.118,0,-230.938 1/2:184:0,80,103:0:0:80,103:2852,3626:-527.433,-295.183,-271.1,-232.244,0,-201.238 1/2:238:0,125,112:0:0:125,112:4449,3940:-683.316,-320.717,-283.088,-362.593,0,-328.878 1/2:25:0,14,10:0:0:14,10:504,336:-68.3319,-27.1958,-22.9814,-41.1238,0,-38.1135 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/1:42:0,42,0:0:0:42,0:1504,0:-135.655,-12.6433,0,-135.655,-12.6433,-135.655 1/1:159:0,159,0:0:0:159,0:5669,0:-510.33,-47.8638,0,-510.33,-47.8638,-510.33 1/1:132:0,132,0:0:0:132,0:4700,0:-423.163,-39.736,0,-423.163,-39.736,-423.163 1/1:269:0,269,0:0:0:269,0:9627,0:-865.36,-80.9771,0,-865.36,-80.9771,-865.36 1/1:59:0,59,0:0:0:59,0:2096,0:-188.91,-17.7608,0,-188.91,-17.7608,-188.91 1/2:96:0,55,41:0:0:55,41:1956,1424:-275.517,-116.109,-99.5525,-159.759,0,-147.417 1/2:103:0,62,40:0:0:62,40:2211,1420:-295.931,-115.696,-97.0319,-180.231,0,-168.19 1/2:72:0,55,17:0:0:55,17:1952,576:-206.097,-47.0407,-30.4841,-159.399,0,-154.282 1/1:133:0,130,2:0:0:130,2:4641,72:-417.542,-39.1339,0,-411.667,-33.1592,-411.065 1/1:59:0,59,0:0:0:59,0:2116,0:-190.709,-17.7608,0,-190.709,-17.7608,-190.709 chr01 9677359 . T G 35587.1 PASS AB=0.516147;ABP=7.14763;AC=29;AF=0.690476;AN=42;AO=1796;CIGAR=1X;DP=2683;DPB=2683;DPRA=0;EPP=3894.29;EPPR=1916.09;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9571;MQMR=59.9763;NS=21;NUMALT=1;ODDS=4.39537;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63861;QR=31659;RO=885;RPL=1;RPP=3894.29;RPPR=1916.09;RPR=1795;RUN=1;SAF=1796;SAP=3902.97;SAR=0;SRF=885;SRP=1924.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:82,90:82:2944:90:3216:-237.886,0,-213.416 0/1:114:54,60:54:1940:60:2136:-158.191,0,-140.559 0/1:178:97,81:97:3460:81:2895:-207.202,0,-258.03 0/1:113:61,52:61:2176:52:1826:-130.603,0,-162.09 0/1:219:114,105:114:4096:105:3734:-270.336,0,-302.876 0/1:152:71,81:71:2548:81:2880:-213.679,0,-183.814 0/1:166:79,87:79:2811:87:3083:-227.729,0,-203.259 0/1:186:105,81:105:3745:81:2872:-202.497,0,-281.258 0/1:239:114,125:114:4092:125:4453:-328.995,0,-296.518 0/1:25:11,14:11:383:14:504:-38.1723,0,-27.2775 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:41:0,41:0:0:41:1472:-132.776,-12.3422,0 1/1:157:0,157:0:0:157:5580:-502.325,-47.2617,0 1/1:133:0,133:0:0:133:4737:-426.489,-40.037,0 1/1:268:0,267:0:0:267:9462:-850.868,-80.375,0 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 0/1:94:39,55:39:1388:55:1964:-148.738,0,-96.9198 0/1:100:40,60:40:1428:60:2128:-161.686,0,-98.7132 0/1:69:16,52:16:576:52:1856:-146.49,0,-31.3451 1/1:133:2,131:2:72:131:4627:-409.763,-33.2003,0 1/1:58:0,58:0:0:58:2072:-186.751,-17.4597,0 chr01 9677431 . C T 25226.2 PASS AB=0.46398;ABP=30.6986;AC=13;AF=0.309524;AN=42;AO=1146;CIGAR=1X;DP=3590;DPB=3590;DPRA=2.56175;EPP=211.866;EPPR=788.724;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.9729;MQMR=59.9963;NS=21;NUMALT=1;ODDS=10.7912;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40976;QR=87396;RO=2442;RPL=739;RPP=211.866;RPPR=788.724;RPR=407;RUN=1;SAF=0;SAP=2491.52;SAR=1146;SRF=0;SRP=5305.75;SRR=2442;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:214:114,100:114:4084:100:3562:-256.368,0,-303.325 0/1:166:86,80:86:3088:80:2872:-208.745,0,-228.176 0/1:157:80,77:80:2846:77:2768:-202.099,0,-209.116 0/1:280:157,123:157:5598:123:4389:-310.881,0,-419.655 0/1:320:150,170:150:5356:170:6076:-450.614,0,-385.843 0/1:199:93,106:93:3331:106:3800:-282.293,0,-240.102 0/1:244:143,101:143:5136:101:3616:-252.194,0,-388.928 0/1:163:102,61:102:3621:61:2192:-148.478,0,-277.028 0/1:357:220,137:220:7896:137:4865:-330.526,0,-603.195 0/1:17:9,8:9:324:8:284:-20.7858,0,-24.3883 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/0:245:244,1:244:8705:1:32:0,-70.553,-780.245 0/0:205:204,1:204:7324:1:36:0,-58.1129,-655.609 0/0:172:172,0:172:6172:0:0:0,-51.7772,-555.576 0/0:255:251,3:251:8993:3:108:0,-66.7463,-799.271 0/1:171:61,110:61:2176:110:3936:-302.956,0,-144.63 0/1:74:36,38:36:1287:38:1364:-100.784,0,-93.8566 0/1:95:66,29:66:2372:29:1040:-65.3165,0,-185.14 0/0:126:124,1:124:4423:1:36:0,-34.3903,-394.642 0/0:84:84,0:84:3008:0:0:0,-25.2865,-270.951 chr01 9735704 . C T 10195.4 PASS AB=0.396095;ABP=70.2472;AC=29;AF=0.690476;AN=42;AO=549;CIGAR=1X;DP=983;DPB=983;DPRA=0;EPP=1195.15;EPPR=943.258;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9836;MQMR=60;NS=21;NUMALT=1;ODDS=5.37379;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19571;QR=15408;RO=433;RPL=549;RPP=1195.15;RPPR=943.258;RPR=0;RUN=1;SAF=0;SAP=1195.15;SAR=549;SRF=0;SRP=943.258;SRR=433;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:25,28:25:881:28:1008:-75.0818,0,-63.6513 0/1:42:25,17:25:892:17:597:-41.4129,0,-67.9564 0/1:46:36,10:36:1296:10:360:-18.8969,0,-103.097 0/1:61:41,20:41:1476:20:720:-46.7659,0,-114.773 0/1:100:62,38:62:2220:38:1353:-91.9654,0,-169.961 0/1:35:17,18:17:612:18:629:-46.3977,0,-44.8774 0/1:98:63,35:63:2253:35:1237:-82.128,0,-173.53 0/1:42:33,9:33:1154:9:320:-16.4991,0,-91.519 0/1:96:59,36:59:2078:36:1292:-87.6261,0,-158.33 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:18:0,18:0:0:18:633:-57.2927,-5.41854,0 1/1:44:1,43:1:36:43:1525:-133.943,-9.64705,0 1/1:25:0,25:0:0:25:875:-79.0639,-7.52575,0 1/1:78:0,78:0:0:78:2800:-252.24,-23.4803,0 1/1:32:0,32:0:0:32:1147:-103.54,-9.63296,0 0/1:34:24,10:24:834:10:345:-21.1458,0,-65.1381 0/1:49:30,19:30:1072:19:684:-47.1399,0,-82.042 0/1:50:14,36:14:496:36:1292:-101.532,0,-29.9228 1/1:39:0,39:0:0:39:1389:-125.307,-11.7402,0 1/1:25:0,25:0:0:25:897:-81.0506,-7.52575,0 chr01 10026838 . A G 30487.7 PASS AB=0.647476;ABP=216.29;AC=29;AF=0.690476;AN=42;AO=1483;CIGAR=1X;DP=1885;DPB=1885;DPRA=0;EPP=3223.3;EPPR=873.771;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.8604;MQMR=59.1995;NS=21;NUMALT=1;ODDS=16.5923;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52944;QR=14137;RO=401;RPL=0;RPP=3223.3;RPPR=873.771;RPR=1483;RUN=1;SAF=1483;SAP=3223.3;SAR=0;SRF=401;SRP=873.771;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:34,66:34:1201:66:2349:-181.434,0,-78.0493 0/1:75:16,59:16:564:59:2120:-168.491,0,-28.5127 0/1:62:29,33:29:1025:33:1184:-88.2045,0,-73.7769 0/1:95:47,48:47:1628:48:1724:-126.848,0,-118.181 0/1:140:62,78:62:2205:78:2781:-208.385,0,-156.304 0/1:82:18,64:18:644:64:2288:-181.495,0,-33.5679 0/1:83:27,56:27:960:56:1985:-153.937,0,-61.7304 0/1:85:35,50:35:1233:50:1796:-136.335,0,-85.346 0/1:173:50,123:50:1762:123:4412:-345.147,0,-106.752 0/1:27:10,17:10:345:17:582:-44.571,0,-23.2484 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 1/1:148:0,148:0:0:148:5256:-473.108,-44.5524,0 1/1:147:1,146:1:36:146:5194:-463.985,-40.6531,0 1/1:205:2,203:2:72:203:7265:-646.563,-54.8744,0 1/1:81:0,81:0:0:81:2893:-260.605,-24.3834,0 0/1:51:7,44:7:248:44:1565:-125.787,0,-7.31166 0/1:78:40,38:40:1421:38:1364:-99.5754,0,-104.56 0/1:78:23,55:23:793:55:1980:-154.989,0,-48.2048 1/1:78:0,77:0:0:77:2730:-245.581,-23.1793,0 1/1:55:0,55:0:0:55:1968:-177.393,-16.5567,0 chr01 10026845 . GGT GAG,AAA 40376.5 PASS AB=0.644521,0.354616;ABP=213.272,215.79;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1515,412;CIGAR=1M2X,3X;DP=1929;DPB=1929;DPRA=0,1.05064;EPP=3292.79,897.657;EPPR=0;GTI=1;LEN=2,3;MEANALT=1.7619,2.07143;MQM=59.8158,59.1699;MQMR=0;NS=21;NUMALT=2;ODDS=18.294;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53759,14686;QR=0;RO=0;RPL=0,0;RPP=3292.79,897.657;RPPR=0;RPR=1515,412;RUN=1,1;SAF=1515,412;SAP=3292.79,897.657;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:103:0,68,35:0:0:68,35:2423,1246:-299.086,-101.857,-81.387,-197.584,0,-187.048 1/2:77:0,60,17:0:0:60,17:2121,600:-221.942,-49.21,-31.1482,-173.085,0,-167.968 1/2:62:0,33,29:0:0:33,29:1180,1034:-180.74,-84.5234,-74.5894,-96.5735,0,-87.8436 1/2:97:0,48,49:0:0:48,49:1673,1762:-280.119,-144.07,-129.62,-136.403,0,-121.653 1/2:144:0,80,64:0:0:80,64:2809,2290:-415.428,-186.83,-162.748,-228.952,0,-209.686 1/2:85:0,65,20:0:0:65,20:2319,710:-247.212,-58.1668,-38.5998,-189.4,0,-183.38 1/2:84:0,58,26:0:0:58,26:2058,934:-244.211,-76.5521,-59.0923,-168.017,0,-160.19 1/2:85:0,51,34:0:0:51,34:1822,1199:-246.172,-97.6175,-82.265,-148.908,0,-138.673 1/2:181:0,126,55:0:0:126,55:4403,1966:-518.744,-160.594,-122.664,-358.505,0,-341.948 1/2:28:0,17,11:0:0:17,11:612,383:-81.4345,-31.4913,-26.3737,-50.2959,0,-46.9846 1/1:14:0,14,0:0:0:14,0:504,0:-45.6981,-4.21442,0,-45.6981,-4.21442,-45.6981 1/1:29:0,28,0:0:0:28,0:1000,0:-89.9551,-8.42884,0,-89.9551,-8.42884,-89.9551 1/1:152:0,152,0:0:0:152,0:5393,0:-485.334,-45.7566,0,-485.334,-45.7566,-485.334 1/1:148:0,147,1:0:0:147,1:5216,36:-469.19,-44.2514,0,-466.252,-40.9542,-465.951 1/1:210:0,210,0:0:0:210,0:7490,0:-673.556,-63.2163,0,-673.556,-63.2163,-673.556 1/1:82:0,82,0:0:0:82,0:2929,0:-263.686,-24.6845,0,-263.686,-24.6845,-263.686 1/2:53:0,46,7:0:0:46,7:1635,247:-153.703,-20.4657,-6.6183,-133.591,0,-131.484 1/2:81:0,39,41:0:0:39,41:1372,1456:-230.208,-118.525,-106.785,-111.676,0,-99.3334 1/2:79:0,56,23:0:0:56,23:2003,823:-230.792,-67.4696,-50.6119,-163.68,0,-156.757 1/1:80:0,80,0:0:0:80,0:2832,0:-255.104,-24.0824,0,-255.104,-24.0824,-255.104 1/1:55:0,55,0:0:0:55,0:1965,0:-177.121,-16.5567,0,-177.121,-16.5567,-177.121 chr01 10026879 . A C 16232.7 PASS AB=0.372723;ABP=304.263;AC=13;AF=0.309524;AN=42;AO=800;CIGAR=1X;DP=3413;DPB=3413;DPRA=1.47014;EPP=1740.19;EPPR=5653.18;GTI=0;LEN=1;MEANALT=1.33333;MQM=59.6525;MQMR=59.924;NS=21;NUMALT=1;ODDS=37.9514;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28402;QR=92230;RO=2606;RPL=412;RPP=4.57376;RPPR=95.9653;RPR=388;RUN=1;SAF=412;SAP=4.57376;SAR=388;SRF=1471;SRP=97.0819;SRR=1135;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:114,56:114:4062:56:2012:-130.164,0,-314.31 0/1:138:101,37:101:3556:37:1313:-76.9267,0,-278.69 0/1:108:52,56:52:1844:56:1999:-147.552,0,-133.726 0/1:243:131,109:131:4639:109:3821:-271.451,0,-345.065 0/1:256:149,106:149:5259:106:3756:-261.01,0,-396.311 0/1:134:92,42:92:3248:42:1487:-93.7486,0,-252.2 0/1:158:100,58:100:3538:58:2070:-139.008,0,-271.063 0/1:146:83,63:83:2950:63:2213:-155.368,0,-221.781 0/1:300:198,102:198:7042:102:3646:-237.994,0,-543.51 0/1:36:23,13:23:786:13:464:-31.2558,0,-60.2146 0/0:17:17,0:17:582:0:0:0,-5.11751,-52.6988 0/0:68:68,0:68:2413:0:0:0,-20.47,-217.425 0/0:228:228,0:228:8073:0:0:0,-68.6348,-726.535 0/0:243:242,1:242:8657:1:36:0,-69.552,-775.522 0/0:299:296,1:296:10426:1:36:0,-86.1675,-934.089 0/0:173:173,0:173:6138:0:0:0,-52.0782,-552.45 0/1:105:76,29:76:2705:29:1035:-61.8549,0,-212.085 0/1:155:81,74:81:2854:74:2623:-189.636,0,-210.435 0/1:192:138,53:138:4859:53:1891:-112.611,0,-379.606 0/0:132:132,0:132:4629:0:0:0,-39.736,-416.757 0/0:112:112,0:112:3970:0:0:0,-33.7154,-357.489 chr01 10026994 . G A 60382.2 PASS AB=0.513653;ABP=7.39812;AC=29;AF=0.690476;AN=42;AO=2462;CIGAR=1X;DP=3791;DPB=3791;DPRA=0;EPP=5349.18;EPPR=2882.38;GTI=0;LEN=1;MEANALT=1.14286;MQM=48.7413;MQMR=56.0551;NS=21;NUMALT=1;ODDS=1.22262;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87499;QR=46985;RO=1326;RPL=1128;RPP=40.4387;RPPR=129.571;RPR=1334;RUN=1;SAF=1128;SAP=40.4387;SAR=1334;SRF=524;SRP=129.571;SRR=802;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:194:99,94:99:3518:94:3320:-235.961,0,-258.268 0/1:253:127,126:127:4498:126:4462:-304.806,0,-327.734 0/1:155:72,83:72:2532:83:2939:-211.529,0,-181.356 0/1:206:105,101:105:3706:101:3573:-249.986,0,-270.315 0/1:398:192,206:192:6796:206:7341:-527.629,0,-491.42 0/1:176:109,66:109:3863:66:2352:-150.315,0,-293.9 0/1:220:113,107:113:4011:107:3766:-262.285,0,-294.09 0/1:233:118,115:118:4176:115:4105:-283.859,0,-305.049 0/1:279:116,163:116:4112:163:5748:-424.036,0,-285.674 0/1:20:12,8:12:419:8:288:-18.6377,0,-31.9927 1/1:14:0,14:0:0:14:500:-43.8425,-4.21442,0 1/1:37:0,37:0:0:37:1324:-114.195,-11.1381,0 1/1:137:6,131:6:207:131:4652:-390.437,-22.2814,0 1/1:155:2,152:2:72:152:5372:-465.984,-39.7077,0 1/1:326:1,325:1:36:325:11582:-1013.49,-94.5401,0 1/1:150:0,150:0:0:150:5355:-474.324,-45.1545,0 0/1:142:69,73:69:2454:73:2598:-187.748,0,-178.183 0/1:266:124,142:124:4419:142:5074:-362.572,0,-316.994 0/1:168:60,108:60:2130:108:3879:-289.993,0,-140.797 1/1:141:1,140:1:36:140:4954:-429.705,-38.8538,0 1/1:121:0,121:0:0:121:4315:-373.037,-36.4246,0 chr01 10181951 . 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A T 11803.6 PASS AB=0.462207;ABP=17.2899;AC=13;AF=0.309524;AN=42;AO=533;CIGAR=1X;DP=1681;DPB=1681;DPRA=1.35951;EPP=1160.41;EPPR=2482.84;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.848;MQMR=59.9468;NS=21;NUMALT=1;ODDS=9.67735;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19012;QR=41084;RO=1146;RPL=283;RPP=7.44695;RPPR=33.0926;RPR=250;RUN=1;SAF=283;SAP=7.44695;SAR=250;SRF=637;SRP=34.0552;SRR=509;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:29,25:29:1040:25:892:-64.3379,0,-77.6587 0/1:80:41,37:41:1467:37:1324:-95.622,0,-108.485 0/1:36:16,20:16:576:20:720:-54.2855,0,-41.3379 0/1:85:45,40:45:1616:40:1428:-103.23,0,-120.142 0/1:146:62,84:62:2232:84:3014:-227.532,0,-157.193 0/1:69:30,39:30:1080:39:1400:-105.528,0,-76.7422 0/1:129:63,66:63:2251:66:2342:-172.2,0,-164.02 0/1:80:41,39:41:1476:39:1372:-99.6934,0,-109.054 0/1:97:63,34:63:2260:34:1216:-80.5379,0,-174.463 0/1:24:13,11:13:468:11:392:-28.3953,0,-35.2349 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 0/0:98:98,0:98:3508:0:0:0,-29.5009,-315.924 0/0:113:113,0:113:4035:0:0:0,-34.0164,-363.338 0/0:78:77,1:77:2747:1:36:0,-19.8821,-243.874 0/1:58:34,24:34:1220:24:849:-59.2553,0,-92.6471 0/1:193:105,88:105:3760:88:3131:-223.904,0,-280.367 0/1:100:75,25:75:2696:25:896:-50.8569,0,-212.781 0/0:54:54,0:54:1944:0:0:0,-16.2556,-175.214 0/0:97:97,0:97:3476:0:0:0,-29.1999,-313.023 chr01 10279587 . T C 15429 PASS AB=0.449809;ABP=37.4503;AC=13;AF=0.309524;AN=42;AO=710;CIGAR=1X;DP=2585;DPB=2585;DPRA=1.15705;EPP=1544.76;EPPR=4074.52;GTI=0;LEN=1;MEANALT=1;MQM=59.9507;MQMR=59.9467;NS=21;NUMALT=1;ODDS=18.7502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25104;QR=66675;RO=1875;RPL=343;RPP=4.77195;RPPR=3.73412;RPR=367;RUN=1;SAF=343;SAP=4.77195;SAR=367;SRF=950;SRP=3.73412;SRR=925;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:81,67:81:2886:67:2392:-170.985,0,-215.423 0/1:113:66,47:66:2356:47:1651:-114.858,0,-178.283 0/1:121:62,59:62:2224:59:2085:-151.494,0,-163.372 0/1:116:61,55:61:2171:55:1940:-139.952,0,-160.675 0/1:206:104,102:104:3692:102:3639:-265.693,0,-270.47 0/1:85:41,44:41:1460:44:1528:-112.219,0,-106.108 0/1:152:76,76:76:2724:76:2680:-195.687,0,-199.646 0/1:166:101,65:101:3590:65:2314:-158.549,0,-273.332 0/1:169:112,57:112:4008:57:2036:-132.638,0,-310.035 0/1:22:5,17:5:171:17:597:-47.4335,0,-9.10279 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:55:55,0:55:1964:0:0:0,-16.5566,-177.006 0/0:148:148,0:148:5249:0:0:0,-44.5524,-472.548 0/0:168:168,0:168:5930:0:0:0,-50.573,-533.801 0/0:229:229,0:229:8137:0:0:0,-68.9359,-732.35 0/0:79:79,0:79:2817:0:0:0,-23.7814,-253.768 0/1:66:27,39:27:963:39:1383:-104.9,0,-67.118 0/1:117:72,45:72:2554:45:1577:-106.993,0,-194.89 0/1:93:58,35:58:2060:35:1225:-82.5559,0,-157.676 0/0:231:229,2:229:8143:2:57:0,-64.1246,-727.472 0/0:97:97,0:97:3432:0:0:0,-29.1999,-309.094 chr01 10800395 . CTGACATG TTGACATG,TTGGCATG 14407.4 PASS AB=0.382075,0.601415;ABP=54.2243,40.8882;AC=28,14;AF=0.666667,0.333333;AN=42;AO=433,266;CIGAR=1X7M,1X2M1X4M;DP=707;DPB=707.125;DPRA=3.485,0.972917;EPP=943.258,571.969;EPPR=5.18177;GTI=0;LEN=1,8;MEANALT=1.9,2.21429;MQM=59.7275,59.891;MQMR=60;NS=21;NUMALT=2;ODDS=3.68597;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=10.6667,10.6667;PQR=0;PRO=0;QA=15446,9255;QR=30;RO=1;RPL=433,265;RPP=943.258,571.969;RPPR=5.18177;RPR=0,1;RUN=1,1;SAF=433,266;SAP=943.258,580.622;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:11:0,4,7:0:0:4,7:144,248:-32.309,-20.5573,-19.3531,-12.1095,0,-10.0023 1/2:18:0,10,5:0:0:10,5:360,180:-44.0436,-14.6871,-11.6768,-29.3565,0,-27.8513 1/2:46:0,10,35:0:0:10,35:360,1180:-125.049,-95.6694,-92.6591,-29.4377,0,-18.9017 1/2:24:1,6,16:1:30:6,16:216,550:-59.6335,-42.3051,-42.8952,-15.2773,0,-12.853 1/2:50:0,21,29:0:0:21,29:752,1019:-144.616,-83.291,-76.9694,-61.6799,0,-52.9501 1/2:12:0,4,8:0:0:4,8:144,275:-34.4306,-22.6755,-21.4714,-12.1095,0,-9.70126 1/2:38:0,19,18:0:0:19,18:679,629:-106.39,-51.133,-45.4134,-55.2513,0,-49.8328 1/2:35:0,13,22:0:0:13,22:468,763:-100.555,-62.3642,-58.4508,-38.5463,0,-31.9236 1/2:92:0,24,68:0:0:24,68:855,2377:-263.406,-193.717,-186.492,-70.0431,0,-49.5731 1/2:4:0,2,2:0:0:2,2:72,65:-11.4633,-5.57097,-4.96891,-6.23466,0,-5.6326 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/1:22:0,22,0:0:0:22,0:788,0:-71.2316,-6.62266,0,-71.2316,-6.62266,-71.2316 1/1:33:0,32,1:0:0:32,1:1133,36:-101.866,-9.63296,0,-98.93,-6.33743,-98.629 1/1:37:0,37,0:0:0:37,0:1319,0:-119.007,-11.1381,0,-119.007,-11.1381,-119.007 1/1:46:0,45,0:0:0:45,0:1601,0:-144.069,-13.5464,0,-144.069,-13.5464,-144.069 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 2/2:10:0,0,10:0:0:0,10:0,352:-32.0181,-32.0181,-32.0181,-3.0103,-3.0103,0 1/2:53:0,23,30:0:0:23,30:828,1051:-153.429,-85.8685,-78.9448,-67.9158,0,-58.8849 1/2:41:0,26,15:0:0:26,15:927,530:-119.08,-43.5166,-35.6898,-75.9182,0,-71.4028 1/1:101:0,101,0:0:0:101,0:3588,0:-323.104,-30.404,0,-323.104,-30.404,-323.104 1/1:20:0,20,0:0:0:20,0:716,0:-64.7677,-6.0206,0,-64.7677,-6.0206,-64.7677 chr01 10800404 . GT AG 8572.39 PASS AB=0.400943;ABP=39.1469;AC=28;AF=0.666667;AN=42;AO=442;CIGAR=2X;DP=709;DPB=709;DPRA=3.495;EPP=962.801;EPPR=567.626;GTI=0;LEN=2;MEANALT=1.15;MQM=59.6403;MQMR=59.9508;NS=21;NUMALT=1;ODDS=3.22193;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15682;QR=9288;RO=264;RPL=442;RPP=962.801;RPPR=567.626;RPR=0;RUN=1;SAF=442;SAP=962.801;SAR=0;SRF=264;SRP=576.279;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:11:7,4:7:252:4:133:-8.98626,0,-19.7176 0/1:18:8,10:8:288:10:358:-27.1266,0,-20.8489 0/1:46:36,10:36:1267:10:349:-17.8974,0,-100.484 0/1:25:17,8:17:608:8:280:-18.013,0,-47.5213 0/1:50:29,21:29:1025:21:756:-53.311,0,-77.51 0/1:12:7,5:7:250:5:180:-12.9363,0,-19.2343 0/1:38:15,23:15:532:23:824:-62.8969,0,-36.7744 0/1:34:21,13:21:750:13:466:-32.0437,0,-57.5909 0/1:93:67,25:67:2323:25:896:-52.9037,0,-181.272 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:5:0,5:0:0:5:169:-15.5415,-1.50515,0 1/1:22:0,22:0:0:22:780:-70.5096,-6.62266,0 1/1:33:1,32:1:36:32:1127:-98.1402,-6.33743,0 1/1:37:0,37:0:0:37:1321:-119.191,-11.1381,0 1/1:46:0,46:0:0:46:1638:-147.699,-13.8474,0 1/1:10:0,10:0:0:10:356:-32.3815,-3.0103,0 0/0:10:10,0:10:349:0:0:0,-3.0103,-31.7453 0/1:53:30,23:30:1054:23:816:-57.8029,0,-79.2154 0/1:40:14,26:14:482:26:918:-70.8936,0,-31.6641 1/1:102:0,101:0:0:101:3566:-320.77,-30.404,0 1/1:20:0,19:0:0:19:677:-60.8986,-5.71957,0 chr01 10800748 . CA CG,TG 44182 PASS AB=0.706341,0.290732;ABP=382.073,392.903;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1484,298;CIGAR=1M1X,2X;DP=1787;DPB=1787;DPRA=0,0.827781;EPP=3225.48,650.109;EPPR=5.18177;GTI=2;LEN=1,2;MEANALT=1.80952,2.23077;MQM=54.8376,34.3456;MQMR=60;NS=21;NUMALT=2;ODDS=0.629116;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52055,10492;QR=23;RO=1;RPL=677,298;RPP=27.7393,650.109;RPPR=5.18177;RPR=807,0;RUN=1,1;SAF=677,298;SAP=27.7393,650.109;SAR=807,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:61:0,46,15:0:0:46,15:1624,516:-171.79,-39.8595,-26.0121,-132.263,0,-127.747 1/2:30:0,25,5:0:0:25,5:883,176:-81.9652,-11.3977,-3.87196,-70.8591,0,-69.3539 1/2:94:0,76,18:0:0:76,18:2686,646:-266.835,-48.2651,-25.3868,-218.903,0,-213.485 1/2:94:0,72,22:0:0:72,22:2505,788:-263.236,-59.9509,-38.2767,-203.622,0,-196.999 1/2:140:0,88,52:0:0:88,52:3108,1811:-392.454,-140.146,-113.655,-252.648,0,-236.994 1/2:63:0,47,16:0:0:47,16:1636,572:-167.018,-35.783,-21.6345,-131.531,0,-126.715 1/2:100:0,62,38:0:0:62,38:2143,1356:-255.768,-84.5305,-65.8667,-171.54,0,-160.101 1/2:86:0,64,20:0:0:64,20:2248,710:-235.401,-52.6625,-33.3966,-182.835,0,-176.815 1/2:136:0,91,44:0:0:91,44:3144,1529:-347.2,-96.5152,-69.1215,-250.7,0,-237.454 1/2:10:0,3,7:0:0:3,7:108,223:-25.9789,-17.1597,-16.2566,-9.16107,0,-7.05386 1/1:12:0,12,0:0:0:12,0:417,0:-37.0758,-3.61236,0,-37.0758,-3.61236,-37.0758 1/1:59:0,59,0:0:0:59,0:2090,0:-187.858,-17.7608,0,-187.858,-17.7608,-187.858 1/1:116:0,116,0:0:0:116,0:4123,0:-370.958,-34.9195,0,-370.958,-34.9195,-370.958 1/1:131:1,130,0:1:23:130,0:4541,0:-406.233,-37.135,0,-406.534,-39.1339,-408.302 1/1:200:0,199,0:0:0:199,0:6974,0:-626.498,-59.905,0,-626.498,-59.905,-626.498 1/1:55:0,55,0:0:0:55,0:1948,0:-171.893,-16.5567,0,-171.893,-16.5567,-171.893 1/2:26:0,18,8:0:0:18,8:630,277:-68.3512,-17.3275,-11.909,-51.3179,0,-48.9097 1/2:103:0,67,36:0:0:67,36:2349,1281:-285.844,-95.1665,-74.9975,-191.012,0,-180.174 1/2:82:0,65,17:0:0:65,17:2244,607:-228.894,-46.8538,-27.2869,-182.379,0,-177.262 1/1:115:0,115,0:0:0:115,0:4064,0:-365.002,-34.6185,0,-365.002,-34.6185,-365.002 1/1:74:0,74,0:0:0:74,0:2590,0:-230.102,-22.2762,0,-230.102,-22.2762,-230.102 chr01 10816541 . A G 12864.9 PASS AB=0.50501;ABP=3.33667;AC=13;AF=0.309524;AN=42;AO=757;CIGAR=1X;DP=2290;DPB=2290;DPRA=1.18382;EPP=1638.14;EPPR=3297.22;GTI=0;LEN=1;MEANALT=1;MQM=59.9657;MQMR=59.9778;NS=21;NUMALT=1;ODDS=6.81345;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27066;QR=54709;RO=1533;RPL=1;RPP=1638.14;RPPR=3297.22;RPR=756;RUN=1;SAF=757;SAP=1646.81;SAR=0;SRF=1533;SRP=3331.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:76,103:76:2717:103:3692:-278.595,0,-190.887 0/1:119:69,50:69:2476:50:1794:-125.92,0,-187.271 0/1:60:34,26:34:1205:26:932:-66.1371,0,-90.6921 0/1:227:85,142:85:3040:142:5063:-387.478,0,-205.496 0/1:149:64,85:64:2281:85:3030:-228.075,0,-160.697 0/1:126:68,58:68:2423:58:2067:-148.362,0,-180.396 0/1:160:89,71:89:3165:71:2552:-181.765,0,-236.803 0/1:100:51,49:51:1820:49:1746:-127.321,0,-133.978 0/1:158:83,75:83:2972:75:2682:-194.061,0,-220.15 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/0:173:173,0:173:6176:0:0:0,-52.0782,-555.94 0/0:119:119,0:119:4249:0:0:0,-35.8226,-382.588 0/0:154:154,0:154:5477:0:0:0,-46.3586,-493.06 0/0:110:110,0:110:3925:0:0:0,-33.1133,-353.442 0/1:80:45,35:45:1582:35:1256:-89.2629,0,-118.584 0/1:58:33,25:33:1188:25:896:-63.5006,0,-89.7689 0/1:74:43,31:43:1525:31:1104:-77.3944,0,-115.265 0/0:113:112,1:112:4008:1:36:0,-30.4181,-357.311 0/0:74:74,0:74:2648:0:0:0,-22.2762,-238.567 chr01 10844581 . TCATCAGAA TCAACAGCG,ACAACAGCG 50391.6 PASS AB=0.503582,0.482808;ABP=3.16585,6.59416;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1800,676;CIGAR=3M1X3M2X,1X2M1X3M2X;DP=2512;DPB=2512.11;DPRA=0,1.27581;EPP=3911.66,1470.93;EPPR=0;GTI=0;LEN=9,9;MEANALT=3.19048,3.66667;MQM=59.94,59.5592;MQMR=0;NS=21;NUMALT=2;ODDS=5.72156;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=62274,23449;QR=0;RO=0;RPL=0,0;RPP=3911.66,1470.93;RPPR=0;RPR=1800,676;RUN=1,1;SAF=0,0;SAP=3911.66,1470.93;SAR=1800,676;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:186:0,181,2:0:0:181,2:6233,70:-560.738,-54.4864,0,-555.043,-48.7883,-554.441 1/1:130:0,127,0:0:0:127,0:4424,0:-398.034,-38.2308,0,-398.034,-38.2308,-398.034 1/2:103:0,47,53:0:0:47,53:1611,1852:-281.454,-150.673,-136.525,-130.801,0,-114.847 1/2:160:0,87,72:0:0:87,72:3014,2496:-447.894,-202.936,-176.746,-245.024,0,-223.35 1/2:297:0,145,147:0:0:145,147:4977,5072:-816.004,-411.908,-368.258,-404.112,0,-359.86 1/2:180:0,88,92:0:0:88,92:3066,3174:-507.345,-258.012,-231.521,-249.68,0,-221.985 1/2:176:0,87,87:0:0:87,87:2988,3054:-491.077,-248.461,-222.272,-242.628,0,-216.438 1/2:107:0,41,64:0:0:41,64:1403,2211:-293.575,-179.698,-167.356,-113.93,0,-94.6643 1/2:171:0,83,85:0:0:83,85:2848,2953:-471.288,-240.06,-215.074,-231.217,0,-205.629 1/2:8:0,4,3:0:0:4,3:139,108:-20.1069,-8.81225,-7.60813,-11.291,0,-10.3879 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:34:0,34,0:0:0:34,0:1164,0:-105.062,-10.235,0,-105.062,-10.235,-105.062 1/1:148:0,145,0:0:0:145,0:5047,0:-454.05,-43.6494,0,-454.05,-43.6494,-454.05 1/1:150:0,149,0:0:0:149,0:5166,0:-464.736,-44.8535,0,-464.736,-44.8535,-464.736 1/1:165:0,164,0:0:0:164,0:5723,0:-514.822,-49.3689,0,-514.822,-49.3689,-514.822 1/1:104:0,101,0:0:0:101,0:3524,0:-317.055,-30.404,0,-317.055,-30.404,-317.055 1/2:133:0,81,50:0:0:81,50:2798,1722:-367.231,-139.895,-115.511,-227.367,0,-212.315 1/2:31:0,18,13:0:0:18,13:640,463:-90.2495,-38.094,-32.6755,-52.5112,0,-48.5978 1/2:30:0,22,8:0:0:22,8:746,274:-83.0751,-22.5852,-15.9626,-60.8313,0,-58.423 1/1:149:0,147,0:0:0:147,0:5076,0:-456.638,-44.2514,0,-456.638,-44.2514,-456.638 1/1:46:0,45,0:0:0:45,0:1543,0:-138.801,-13.5464,0,-138.801,-13.5464,-138.801 chr01 11008639 . ATTCC CTTAC,CTTAT 26607.5 PASS AB=0.507863,0.489362;ABP=3.59083,4.07294;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1286,530;CIGAR=1X2M1X1M,1X2M2X;DP=1820;DPB=1820;DPRA=0,1.46232;EPP=2795.52,1153.89;EPPR=0;GTI=0;LEN=5,5;MEANALT=1.7619,2.25;MQM=34.0723,22.8528;MQMR=0;NS=21;NUMALT=2;ODDS=3.56368;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43324,18753;QR=0;RO=0;RPL=0,0;RPP=2795.52,1153.89;RPPR=0;RPR=1286,530;RUN=1,1;SAF=1286,530;SAP=2795.52,1153.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92,0:0:0:92,0:3095,0:-254.375,-27.6948,0,-254.375,-27.6948,-254.375 1/1:58:0,58,0:0:0:58,0:2001,0:-165.387,-17.4597,0,-165.387,-17.4597,-165.387 1/2:81:0,44,36:0:0:44,36:1472,1272:-170.864,-62.6836,-49.4383,-108.241,0,-97.404 1/2:111:0,42,69:0:0:42,69:1414,2424:-224.384,-120.485,-107.841,-104.177,0,-83.406 1/2:184:0,96,87:0:0:96,87:3216,3080:-387.564,-151.874,-122.975,-235.728,0,-209.538 1/2:77:0,40,37:0:0:40,37:1359,1322:-164.915,-65.0044,-52.9632,-100.179,0,-89.0407 1/2:154:0,75,79:0:0:75,79:2570,2798:-328.423,-138.744,-116.167,-189.952,0,-166.17 1/2:68:0,30,38:0:0:30,38:1031,1354:-142.547,-66.6311,-57.6002,-76.1918,0,-64.7527 1/2:163:0,80,83:0:0:80,83:2664,2936:-334.128,-139.088,-115.006,-195.302,0,-170.317 1/2:13:0,10,3:0:0:10,3:350,108:-31.3296,-5.47773,-2.46743,-26.101,0,-25.1979 1/1:7:0,7,0:0:0:7,0:225,0:-18.998,-2.10721,0,-18.998,-2.10721,-18.998 1/1:17:0,17,0:0:0:17,0:574,0:-47.3645,-5.11751,0,-47.3645,-5.11751,-47.3645 1/1:89:0,89,0:0:0:89,0:2961,0:-243.363,-26.7917,0,-243.363,-26.7917,-243.363 1/1:76:0,75,0:0:0:75,0:2509,0:-206.185,-22.5773,0,-206.185,-22.5773,-206.185 1/1:116:0,116,0:0:0:116,0:3890,0:-319.485,-34.9195,0,-319.485,-34.9195,-319.485 1/1:53:0,53,0:0:0:53,0:1739,0:-143.221,-15.9546,0,-143.221,-15.9546,-143.221 1/2:56:0,37,19:0:0:37,19:1217,670:-120.852,-31.9211,-20.783,-89.1775,0,-83.4579 1/2:89:0,40,48:0:0:40,48:1383,1681:-185.485,-83.4382,-71.397,-102.12,0,-87.6708 1/2:85:0,55,30:0:0:55,30:1808,1072:-184.799,-52.6736,-36.117,-132.379,0,-123.348 1/1:122:0,121,1:0:0:121,1:4104,36:-337.014,-36.4246,0,-335.265,-34.4468,-334.963 1/1:109:0,109,0:0:0:109,0:3742,0:-309.682,-32.8123,0,-309.682,-32.8123,-309.682 chr01 11008647 . T A 21381.3 PASS AB=0.512195;ABP=4.38733;AC=31;AF=0.738095;AN=42;AO=1274;CIGAR=1X;DP=1798;DPB=1798;DPRA=0;EPP=2769.47;EPPR=1140.86;GTI=0;LEN=1;MEANALT=1;MQM=34.0212;MQMR=22.9981;NS=21;NUMALT=1;ODDS=3.95331;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45521;QR=18775;RO=524;RPL=0;RPP=2769.47;RPPR=1140.86;RPR=1274;RUN=1;SAF=1274;SAP=2769.47;SAR=0;SRF=524;SRP=1140.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92:0:0:92:3273:-260.798,-27.6948,0 1/1:57:0,57:0:0:57:2052:-166.543,-17.1587,0 0/1:79:35,44:35:1247:44:1580:-101.873,0,-47.9182 0/1:110:68,42:68:2431:42:1504:-87.3909,0,-106.415 0/1:182:87,95:87:3128:95:3392:-215.585,0,-123.848 0/1:77:37,40:37:1328:40:1436:-91.8207,0,-52.9867 0/1:153:78,75:78:2800:75:2676:-171.263,0,-114.703 0/1:67:38,29:38:1364:29:1044:-64.0065,0,-57.9689 0/1:159:81,78:81:2908:78:2788:-173.525,0,-112.578 0/1:13:3,10:3:108:10:352:-25.2217,0,-2.46743 1/1:7:0,7:0:0:7:252:-20.1972,-2.10721,0 1/1:16:0,16:0:0:16:576:-46.6471,-4.81648,0 1/1:88:0,88:0:0:88:3143:-249.124,-26.4906,0 1/1:75:0,75:0:0:75:2657:-211.436,-22.5773,0 1/1:114:1,113:1:36:113:4030:-315.434,-30.7506,0 1/1:53:0,53:0:0:53:1888:-148.712,-15.9546,0 0/1:55:18,37:18:644:37:1317:-87.1243,0,-19.0881 0/1:86:45,41:45:1616:41:1468:-92.6349,0,-66.6062 0/1:85:30,55:30:1072:55:1964:-129.059,0,-36.1153 1/1:121:1,120:1:36:120:4281:-341.178,-34.1458,0 1/1:109:2,107:2:57:107:3848:-305.793,-27.4181,0 chr01 11008657 . TCC GGC,GGA 26213.4 PASS AB=0.505556,0.489815;ABP=3.29983,3.98344;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1268,530;CIGAR=2X1M,3X;DP=1808;DPB=1808.67;DPRA=0,1.48026;EPP=2747.76,1153.89;EPPR=0;GTI=0;LEN=2,3;MEANALT=2.04762,2.5;MQM=34.0852,22.8302;MQMR=0;NS=21;NUMALT=2;ODDS=1.58717;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,72;PQR=0;PRO=0;QA=42590,18746;QR=0;RO=0;RPL=1267,530;RPP=2747.76,1153.89;RPPR=0;RPR=1,0;RUN=1,1;SAF=1268,530;SAP=2756.44,1153.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91,0:0:0:91,0:3053,0:-251.008,-27.3937,0,-251.008,-27.3937,-251.008 1/1:58:0,58,0:0:0:58,0:1989,0:-164.494,-17.4597,0,-164.494,-17.4597,-164.494 1/2:81:0,45,36:0:0:45,36:1492,1279:-172.179,-62.8977,-49.3514,-109.542,0,-98.7045 1/2:111:0,41,69:0:0:41,69:1380,2425:-221.11,-120.061,-107.719,-100.974,0,-80.2026 1/2:184:0,94,89:0:0:94,89:3134,3138:-384.653,-154.787,-126.49,-229.822,0,-203.03 1/2:77:0,40,36:0:0:40,36:1362,1269:-162.897,-62.7822,-50.741,-100.152,0,-89.3153 1/2:154:0,75,78:0:0:75,78:2558,2766:-324.582,-135.814,-113.237,-188.715,0,-165.235 1/2:68:0,30,38:0:0:30,38:1037,1350:-142.758,-66.5025,-57.4716,-76.5322,0,-65.0931 1/2:163:0,80,83:0:0:80,83:2669,2945:-334.327,-139.182,-115.099,-195.408,0,-170.422 1/2:13:0,9,3:0:0:9,3:314,108:-28.3836,-5.18083,-2.47156,-23.1548,0,-22.2517 1/1:5:0,5,0:0:0:5,0:168,0:-13.721,-1.50515,0,-13.721,-1.50515,-13.721 1/1:16:0,16,0:0:0:16,0:540,0:-44.8652,-4.81648,0,-44.8652,-4.81648,-44.8652 1/1:87:0,86,0:0:0:86,0:2868,0:-235.551,-25.8886,0,-235.551,-25.8886,-235.551 1/1:73:0,73,0:0:0:73,0:2445,0:-201.146,-21.9752,0,-201.146,-21.9752,-201.146 1/1:116:0,114,0:0:0:114,0:3806,0:-312.569,-34.3174,0,-312.569,-34.3174,-312.569 1/1:53:0,52,0:0:0:52,0:1694,0:-139.385,-15.6536,0,-139.385,-15.6536,-139.385 1/2:55:0,36,19:0:0:36,19:1201,673:-119.701,-31.9009,-21.0638,-88.0487,0,-82.3291 1/2:89:0,41,48:0:0:41,48:1362,1680:-183.921,-83.3557,-71.0135,-100.478,0,-86.0282 1/2:85:0,55,30:0:0:55,30:1794,1077:-183.606,-52.7082,-36.1516,-131.15,0,-122.119 1/1:120:0,118,1:0:0:118,1:3969,36:-327.509,-35.5215,0,-325.759,-33.8363,-325.458 1/1:109:0,109,0:0:0:109,0:3755,0:-310.399,-32.8123,0,-310.399,-32.8123,-310.399 chr01 11103603 . TG CA,TA 28435.6 PASS AB=0.563303,0.431193;ABP=21.9798,25.4223;AC=31,11;AF=0.738095,0.261905;AN=42;AO=826,238;CIGAR=2X,1M1X;DP=1068;DPB=1068;DPRA=0,0.964497;EPP=175.298,24.0316;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=1.7619,2.15385;MQM=59.6199,60;MQMR=60;NS=21;NUMALT=2;ODDS=11.9823;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29297,8476;QR=25;RO=1;RPL=285,95;RPP=175.298,24.0316;RPPR=5.18177;RPR=541,143;RUN=1,1;SAF=826,238;SAP=1796.65,519.821;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:0,85,0:0:0:85,0:3052,0:-274.899,-25.5876,0,-274.899,-25.5876,-274.899 1/1:48:0,48,0:0:0:48,0:1697,0:-153.006,-14.4494,0,-153.006,-14.4494,-153.006 1/2:28:0,15,12:0:0:15,12:535,432:-78.9627,-35.3504,-30.835,-43.7094,0,-40.0971 1/2:24:0,14,10:0:0:14,10:487,348:-68.0544,-28.6448,-24.4304,-39.7568,0,-36.7465 1/2:73:0,41,32:0:0:41,32:1443,1136:-210.377,-92.9159,-80.5737,-117.814,0,-108.181 1/2:67:0,33,33:0:0:33,33:1175,1180:-191.956,-96.2342,-86.3002,-95.7379,0,-85.8039 1/2:48:0,28,20:0:0:28,20:990,705:-138.177,-57.7522,-49.3233,-80.7775,0,-74.7569 1/2:30:0,16,14:0:0:16,14:565,489:-85.7665,-40.1253,-35.3089,-45.9909,0,-41.7765 1/2:140:1,84,55:1:25:84,55:3005,1972:-403.729,-158.999,-135.66,-243.19,0,-228.58 1/2:9:0,3,6:0:0:3,6:106,216:-26.6149,-17.9843,-17.0812,-8.98601,0,-7.17983 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:36:0,36,0:0:0:36,0:1237,0:-111.621,-10.8371,0,-111.621,-10.8371,-111.621 1/1:53:0,52,1:0:0:52,1:1847,36:-165.948,-15.6536,0,-163.011,-12.3563,-162.71 1/1:49:0,48,0:0:0:48,0:1698,0:-152.852,-14.4494,0,-152.852,-14.4494,-152.852 1/1:125:0,125,0:0:0:125,0:4389,0:-395.158,-37.6288,0,-395.158,-37.6288,-395.158 1/1:39:0,39,0:0:0:39,0:1390,0:-125.394,-11.7402,0,-125.394,-11.7402,-125.394 1/2:53:0,33,20:0:0:33,20:1172,712:-153.881,-58.3861,-48.4521,-95.8509,0,-89.8303 1/2:28:0,11,17:0:0:11,17:396,606:-82.0669,-49.7539,-46.4426,-32.6714,0,-27.5539 1/2:45:0,29,16:0:0:29,16:1042,576:-132.364,-47.3585,-38.6286,-85.3648,0,-80.5483 1/1:54:0,52,2:0:0:52,2:1855,68:-166.879,-15.6536,0,-161.364,-9.79791,-160.762 1/1:30:0,30,0:0:0:30,0:1072,0:-96.7919,-9.0309,0,-96.7919,-9.0309,-96.7919 chr01 11103614 . A T 16747.2 PASS AB=0.552632;ABP=15.8106;AC=31;AF=0.738095;AN=42;AO=802;CIGAR=1X;DP=1043;DPB=1043;DPRA=0;EPP=1744.53;EPPR=519.821;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.6671;MQMR=60;NS=21;NUMALT=1;ODDS=11.1953;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28614;QR=8540;RO=238;RPL=801;RPP=1735.86;RPPR=519.821;RPR=1;RUN=1;SAF=801;SAP=1735.86;SAR=1;SRF=238;SRP=519.821;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,81:0:0:81:2899:-261.135,-24.3834,0 1/1:48:0,48:0:0:48:1714:-154.541,-14.4494,0 0/1:28:12,16:12:432:16:576:-43.7434,0,-30.7924 0/1:22:10,12:10:352:12:432:-32.5985,0,-25.3955 0/1:72:32,40:32:1148:40:1436:-107.856,0,-81.9557 0/1:67:34,33:34:1220:33:1188:-87.0146,0,-89.9378 0/1:47:20,27:20:716:27:972:-73.429,0,-50.6193 0/1:28:13,15:13:468:15:531:-39.6218,0,-34.0308 0/1:138:56,80:56:2012:80:2871:-217.321,0,-140.053 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 1/1:35:0,35:0:0:35:1243:-112.169,-10.5361,0 1/1:53:1,52:1:36:52:1848:-162.883,-12.3563,0 1/1:48:0,48:0:0:48:1724:-155.443,-14.4494,0 1/1:122:0,122:0:0:122:4310:-388.05,-36.7257,0 1/1:37:0,37:0:0:37:1328:-119.82,-11.1381,0 0/1:50:21,29:21:752:29:1044:-79.2224,0,-52.9548 0/1:27:16,11:16:576:11:378:-26.2213,0,-44.0472 0/1:44:15,28:15:540:28:989:-76.0181,0,-35.6324 1/1:54:2,52:2:72:52:1852:-160.109,-9.4189,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 chr01 11103625 . A G 16906.7 PASS AB=0.570621;ABP=26.0132;AC=31;AF=0.738095;AN=42;AO=809;CIGAR=1X;DP=1039;DPB=1039;DPRA=0;EPP=1759.73;EPPR=502.449;GTI=0;LEN=1;MEANALT=1;MQM=59.6143;MQMR=60;NS=21;NUMALT=1;ODDS=12.0339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28900;QR=8237;RO=230;RPL=809;RPP=1759.73;RPPR=502.449;RPR=0;RUN=1;SAF=809;SAP=1759.73;SAR=0;SRF=230;SRP=502.449;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,83:0:0:83:2971:-267.612,-24.9855,0 1/1:47:0,47:0:0:47:1679:-151.388,-14.1484,0 0/1:28:12,16:12:432:16:572:-43.3818,0,-30.7924 0/1:24:10,14:10:356:14:500:-37.8336,0,-25.1565 0/1:72:31,41:31:1108:41:1456:-109.655,0,-78.3568 0/1:66:32,34:32:1152:34:1220:-90.1857,0,-84.1222 0/1:48:20,28:20:720:28:1000:-75.6641,0,-50.6793 0/1:29:13,16:13:445:16:568:-42.6336,0,-31.6455 0/1:136:54,82:54:1944:82:2934:-223.349,0,-134.296 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:33:0,33:0:0:33:1188:-107.224,-9.93399,0 1/1:53:0,53:0:0:53:1889:-170.231,-15.9546,0 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 1/1:122:0,122:0:0:122:4363:-392.82,-36.7257,0 1/1:38:0,38:0:0:38:1347:-121.524,-11.4391,0 0/1:48:18,30:18:648:30:1068:-81.9823,0,-44.2024 0/1:27:16,11:16:572:11:392:-27.4922,0,-43.6856 0/1:44:16,28:16:576:28:1008:-77.791,0,-38.9297 1/1:53:2,51:2:68:51:1817:-157.342,-9.49688,0 1/1:28:0,28:0:0:28:996:-89.9549,-8.42884,0 chr01 11459685 . C T 7272.15 PASS AB=0.435335;ABP=34.4641;AC=10;AF=0.238095;AN=42;AO=380;CIGAR=1X;DP=1694;DPB=1694;DPRA=1.18674;EPP=413.441;EPPR=1675.47;GTI=0;LEN=1;MEANALT=1;MQM=59.9474;MQMR=60;NS=21;NUMALT=1;ODDS=11.8255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13551;QR=46942;RO=1314;RPL=56;RPP=413.441;RPPR=1675.47;RPR=324;RUN=1;SAF=380;SAP=828.17;SAR=0;SRF=1314;SRP=2856.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:143:78,65:78:2787:65:2333:-167.182,0,-208.023 0/1:122:68,54:68:2432:54:1928:-137.071,0,-182.41 0/1:110:66,44:66:2364:44:1535:-105.326,0,-179.905 0/1:19:13,6:13:464:6:212:-13.7052,0,-36.3779 0/1:98:60,38:60:2138:38:1358:-93.0194,0,-163.186 0/1:191:110,81:110:3926:81:2903:-204.008,0,-296.036 0/0:177:177,0:177:6329:0:0:0,-53.2823,-569.7 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/0:73:71,2:71:2540:2:72:0,-15.1385,-222.014 0/0:146:146,0:146:5180:0:0:0,-43.9504,-466.343 0/0:185:185,0:185:6626:0:0:0,-55.6905,-596.417 0/0:17:17,0:17:599:0:0:0,-5.11751,-54.2381 0/1:40:16,24:16:567:24:842:-64.0489,0,-39.3195 0/1:71:32,39:32:1148:39:1396:-104.566,0,-82.2567 0/1:65:43,22:43:1531:22:792:-52.0387,0,-118.515 0/0:99:98,1:98:3503:1:36:0,-26.2037,-311.882 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 chr01 11459746 . T C 10023.2 PASS AB=0.515611;ABP=5.38323;AC=10;AF=0.238095;AN=42;AO=582;CIGAR=1X;DP=2288;DPB=2288;DPRA=0.983787;EPP=1223.75;EPPR=3552.85;GTI=0;LEN=1;MEANALT=1;MQM=59.9639;MQMR=59.9965;NS=21;NUMALT=1;ODDS=7.88626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20789;QR=60696;RO=1706;RPL=578;RPP=1232.3;RPPR=3552.85;RPR=4;RUN=1;SAF=1;SAP=1258.14;SAR=581;SRF=0;SRP=3707.54;SRR=1706;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:79:79,0:79:2817:0:0:0,-23.7814,-253.768 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/1:137:54,83:54:1920:83:2980:-227.191,0,-131.836 0/1:134:65,69:65:2312:69:2450:-180.414,0,-168.003 0/1:229:102,127:102:3648:127:4546:-340.359,0,-259.589 0/1:130:56,74:56:1992:74:2648:-199.424,0,-140.42 0/1:145:77,68:77:2725:68:2425:-174.855,0,-201.844 0/1:108:59,49:59:2088:49:1743:-124.642,0,-155.679 0/0:252:252,0:252:8985:0:0:0,-75.8596,-808.633 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:13:5,8:5:180:8:288:-22.354,0,-12.6387 0/0:26:25,1:25:877:1:36:0,-4.2285,-75.6469 0/0:149:148,1:148:5261:1:36:0,-41.2552,-470.031 0/0:140:140,0:140:4980:0:0:0,-42.1442,-448.352 0/0:225:225,0:225:7979:0:0:0,-67.7317,-718.137 0/0:40:40,0:40:1413:0:0:0,-12.0412,-127.465 0/1:39:19,20:19:680:20:716:-53.0275,0,-49.789 0/1:111:58,53:58:2084:53:1892:-137.144,0,-154.416 0/1:75:48,27:48:1724:27:957:-63.8666,0,-132.868 0/0:155:154,1:154:5462:1:36:0,-43.0614,-488.11 0/0:66:65,1:65:2313:1:36:0,-16.2697,-204.831 chr01 11459758 . C T 10091.3 PASS AB=0.52305;ABP=8.21567;AC=10;AF=0.238095;AN=42;AO=593;CIGAR=1X;DP=2295;DPB=2295;DPRA=1.076;EPP=1282.02;EPPR=3679.33;GTI=0;LEN=1;MEANALT=1;MQM=59.9646;MQMR=59.9965;NS=21;NUMALT=1;ODDS=7.27694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21192;QR=60379;RO=1701;RPL=593;RPP=1290.69;RPPR=3679.33;RPR=0;RUN=1;SAF=1;SAP=1282.02;SAR=592;SRF=0;SRP=3696.68;SRR=1701;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:80,0:80:2838:0:0:0,-24.0824,-255.656 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/1:138:54,84:54:1929:84:3017:-230.218,0,-132.343 0/1:136:65,71:65:2276:71:2542:-188.091,0,-164.156 0/1:231:102,129:102:3607:129:4595:-344.172,0,-255.296 0/1:130:56,74:56:1993:74:2615:-196.452,0,-140.508 0/1:149:78,71:78:2754:71:2544:-184.357,0,-203.247 0/1:108:57,51:57:2003:51:1832:-132.65,0,-148.027 0/0:252:251,0:251:8944:0:0:0,-75.5585,-804.729 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:13:5,8:5:180:8:288:-22.354,0,-12.6387 0/0:25:24,1:24:864:1:36:0,-3.92747,-74.4843 0/0:152:151,1:151:5352:1:36:0,-42.1583,-478.213 0/0:137:137,0:137:4890:0:0:0,-41.2411,-440.25 0/0:224:224,0:224:7950:0:0:0,-67.4307,-715.522 0/0:41:41,0:41:1453:0:0:0,-12.3422,-131.064 0/1:40:19,21:19:669:21:752:-55.9651,0,-48.4927 0/1:112:58,54:58:2069:54:1936:-140.801,0,-152.764 0/1:71:44,27:44:1576:27:963:-65.6128,0,-120.758 0/0:155:154,1:154:5423:1:36:0,-43.0614,-484.599 0/0:64:64,0:64:2281:0:0:0,-19.2659,-205.55 chr01 11463978 . A G 48334.8 PASS AB=0.522523;ABP=9.85729;AC=32;AF=0.761905;AN=42;AO=2305;CIGAR=1X;DP=3050;DPB=3050;DPRA=0;EPP=4982.23;EPPR=1599.09;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9983;MQMR=59.9946;NS=21;NUMALT=1;ODDS=11.3224;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82039;QR=26609;RO=743;RPL=2302;RPP=4982.23;RPPR=1599.09;RPR=3;RUN=1;SAF=0;SAP=5008.25;SAR=2305;SRF=0;SRP=1616.41;SRR=743;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:0,107:0:0:107:3773:-339.771,-32.2102,0 1/1:162:0,162:0:0:162:5762:-518.699,-48.7669,0 0/1:118:63,55:63:2264:55:1955:-140.703,0,-168.501 0/1:161:83,78:83:2967:78:2781:-202.064,0,-218.797 0/1:319:158,161:158:5672:161:5731:-419.879,0,-414.569 0/1:107:42,65:42:1508:65:2306:-175.59,0,-103.804 0/1:262:121,141:121:4327:141:5005:-371.73,0,-310.736 0/1:169:84,85:84:3000:85:3019:-221.067,0,-219.358 1/1:283:1,281:1:36:281:9954:-892.209,-81.652,0 1/1:18:1,17:1:36:17:608:-51.4537,-1.82027,0 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 1/1:150:0,150:0:0:150:5316:-478.575,-45.1545,0 1/1:159:0,159:0:0:159:5650:-508.621,-47.8638,0 1/1:207:0,207:0:0:207:7390:-665.147,-62.3132,0 1/1:105:0,105:0:0:105:3755:-338.15,-31.6082,0 0/1:159:69,89:69:2451:89:3165:-237.152,0,-172.922 0/1:171:90,81:90:3232:81:2912:-210.838,0,-239.625 0/1:80:25,55:25:900:55:1968:-153.313,0,-57.2386 1/1:162:0,162:0:0:162:5791:-521.305,-48.7669,0 1/1:106:0,106:0:0:106:3798:-342.018,-31.9092,0 chr01 11625384 . C A 7243.14 PASS AB=0.517241;ABP=5.18177;AC=10;AF=0.238095;AN=42;AO=441;CIGAR=1X;DP=1721;DPB=1721;DPRA=1.36255;EPP=960.63;EPPR=2782.49;GTI=0;LEN=1;MEANALT=1;MQM=59.7279;MQMR=59.9398;NS=21;NUMALT=1;ODDS=10.7633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15613;QR=45519;RO=1280;RPL=0;RPP=960.63;RPPR=2782.49;RPR=441;RUN=1;SAF=0;SAP=960.63;SAR=441;SRF=0;SRP=2782.49;SRR=1280;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:100:99,1:99:3519:1:36:0,-26.5047,-313.32 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.399 0/1:75:39,36:39:1392:36:1288:-93.6463,0,-103.002 0/1:94:46,48:46:1639:48:1719:-126.689,0,-119.501 0/1:204:101,103:101:3564:103:3616:-264.234,0,-259.553 0/1:73:27,46:27:968:46:1606:-122.814,0,-65.4622 0/1:119:67,52:67:2376:52:1839:-129.922,0,-178.274 0/1:35:11,24:11:383:24:856:-66.8251,0,-24.2672 0/0:157:157,0:157:5624:0:0:0,-47.2617,-506.071 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.6484 0/0:24:24,0:24:856:0:0:0,-7.22472,-77.3611 0/0:112:109,3:109:3845:3:108:0,-23.6402,-336.172 0/0:83:83,0:83:2953:0:0:0,-24.9855,-266.003 0/0:123:122,1:122:4360:1:36:0,-33.4284,-388.977 0/0:83:82,1:82:2929:1:36:0,-21.3872,-260.24 0/1:75:33,42:33:1176:42:1486:-111.347,0,-83.5696 0/1:91:38,53:38:1347:53:1875:-141.635,0,-94.1357 0/1:65:38,27:38:1356:27:968:-67.8657,0,-102.774 0/0:90:90,0:90:3154:0:0:0,-27.0927,-284.084 0/0:43:43,0:43:1526:0:0:0,-12.9443,-137.632 chr01 11637833 . AAA AAG,AAGAGGTGAGAG 20067.4 PASS AB=0.477105,0.519941;ABP=6.0927,5.34856;AC=32,10;AF=0.761905,0.238095;AN=42;AO=713,354;CIGAR=2M1X,1M9I1M1X;DP=1069;DPB=2137;DPRA=0,1.90777;EPP=1551.27,771.712;EPPR=0;GTI=0;LEN=1,12;MEANALT=1.61905,2.18182;MQM=59.9439,29.7175;MQMR=0;NS=21;NUMALT=2;ODDS=2.05878;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25451,12468;QR=0;RO=0;RPL=0,0;RPP=1551.27,771.712;RPPR=0;RPR=713,354;RUN=1,1;SAF=713,354;SAP=1551.27,771.712;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,28,0:0:0:28,0:1008,0:-91.0364,-8.42884,0,-91.0364,-8.42884,-91.0364 1/1:16:0,16,0:0:0:16,0:568,0:-51.4519,-4.81648,0,-51.4519,-4.81648,-51.4519 1/2:36:0,21,15:0:0:21,15:748,523:-96.573,-36.2002,-29.8786,-60.6944,0,-56.1789 1/2:30:0,17,13:0:0:17,13:598,461:-80.5138,-31.8085,-26.691,-49.0292,0,-45.1158 1/2:56:0,19,37:0:0:19,37:665,1302:-142.485,-88.3643,-82.6448,-54.4531,0,-43.315 1/2:14:0,7,7:0:0:7,7:252,247:-35.9352,-15.3296,-13.2224,-20.9217,0,-18.8145 1/2:37:0,14,23:0:0:14,23:492,810:-89.373,-49.2957,-45.0812,-40.3979,0,-33.4742 1/2:40:0,9,31:0:0:9,31:324,1092:-97.4445,-70.9913,-68.2821,-26.7966,0,-17.4647 1/1:27:0,27,0:0:0:27,0:972,0:-87.7979,-8.12781,0,-87.7979,-8.12781,-87.7979 1/1:47:0,45,2:0:0:45,2:1620,71:-145.798,-13.5464,0,-141.198,-8.65405,-140.596 1/2:93:0,29,64:0:0:29,64:1028,2250:-220.909,-137.135,-128.405,-84.1032,0,-64.8372 1/1:90:0,90,0:0:0:90,0:3206,0:-288.761,-27.0927,0,-288.761,-27.0927,-288.761 1/1:35:0,35,0:0:0:35,0:1256,0:-113.345,-10.5361,0,-113.345,-10.5361,-113.345 1/1:34:0,34,0:0:0:34,0:1215,0:-109.656,-10.235,0,-109.656,-10.235,-109.656 1/1:48:0,48,0:0:0:48,0:1724,0:-155.445,-14.4494,0,-155.445,-14.4494,-155.445 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/2:12:0,5,7:0:0:5,7:180,245:-32.5668,-17.8598,-16.3546,-15.0469,0,-12.9397 1/2:321:0,177,144:0:0:177,144:6321,5077:-842.813,-327.434,-274.152,-515.697,0,-472.349 1/2:38:0,25,11:0:0:25,11:896,390:-99.2256,-26.1045,-18.5787,-73.1731,0,-69.8618 1/1:24:0,24,0:0:0:24,0:845,0:-76.3671,-7.22472,0,-76.3671,-7.22472,-76.3671 1/1:28:0,28,0:0:0:28,0:993,0:-89.6825,-8.42884,0,-89.6825,-8.42884,-89.6825 chr01 11637844 . G T 15859.6 PASS AB=0.478852;ABP=5.58195;AC=32;AF=0.761905;AN=42;AO=711;CIGAR=1X;DP=1058;DPB=1058;DPRA=0;EPP=1120.89;EPPR=756.511;GTI=0;LEN=1;MEANALT=1;MQM=59.9831;MQMR=29.7032;NS=21;NUMALT=1;ODDS=2.66246;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25445;QR=12401;RO=347;RPL=658;RPP=1120.89;RPPR=756.511;RPR=53;RUN=1;SAF=711;SAP=1546.93;SAR=0;SRF=347;SRP=756.511;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,28:0:0:28:996:-89.9549,-8.42884,0 1/1:16:0,16:0:0:16:568:-51.4519,-4.81648,0 0/1:35:15,20:15:540:20:711:-53.7796,0,-30.7304 0/1:30:13,17:13:468:17:604:-45.6597,0,-26.8749 0/1:51:34,17:34:1216:17:612:-40.0609,0,-76.6265 0/1:12:6,6:6:216:6:216:-16.1782,0,-11.4368 0/1:39:23,16:23:820:16:572:-40.0733,0,-44.7276 0/1:39:30,9:30:1065:9:324:-17.7657,0,-65.7787 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 1/1:49:2,47:2:72:47:1688:-146.692,-9.23522,0 0/1:91:63,28:63:2256:28:1004:-63.2821,0,-127.39 1/1:92:0,92:0:0:92:3284:-295.776,-27.6948,0 1/1:35:0,35:0:0:35:1249:-112.713,-10.5361,0 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:12:7,5:7:252:5:180:-12.9397,0,-16.6668 0/1:315:141,174:141:5028:174:6247:-467.497,0,-269.543 0/1:38:13,25:13:468:25:900:-69.8819,0,-23.0217 1/1:23:0,23:0:0:23:820:-74.1225,-6.92369,0 1/1:29:0,29:0:0:29:1018:-91.9293,-8.72987,0 chr01 12175665 . G A 64808.8 PASS AB=0.514832;ABP=5.90894;AC=31;AF=0.738095;AN=42;AO=2382;CIGAR=1X;DP=3118;DPB=3118;DPRA=0;EPP=40.9482;EPPR=13.2945;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.8442;MQMR=59.9578;NS=21;NUMALT=1;ODDS=3.14107;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85170;QR=26147;RO=735;RPL=2376;RPP=5123.47;RPPR=1581.72;RPR=6;RUN=1;SAF=1083;SAP=45.5427;SAR=1299;SRF=336;SRP=14.7363;SRR=399;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:0,129:0:0:129:4591:-413.343,-38.8329,0 1/1:166:0,166:0:0:166:5956:-536.132,-49.971,0 0/1:103:56,47:56:2012:47:1684:-120.836,0,-150.347 0/1:217:99,118:99:3492:118:4236:-316.09,0,-249.008 0/1:234:119,115:119:4221:115:4119:-300.439,0,-309.629 0/1:159:82,77:82:2927:77:2747:-199.608,0,-215.801 0/1:250:137,113:137:4887:113:4052:-289.553,0,-364.726 0/1:150:73,77:73:2594:77:2759:-203.391,0,-188.554 1/1:263:0,263:0:0:263:9416:-847.331,-79.1709,0 0/1:26:5,21:5:180:21:756:-60.5358,0,-8.72528 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:62:0,62:0:0:62:2216:-199.703,-18.6639,0 1/1:156:0,156:0:0:156:5591:-503.288,-46.9607,0 1/1:143:0,143:0:0:143:5082:-457.427,-43.0473,0 1/1:211:0,211:0:0:211:7535:-678.174,-63.5173,0 1/1:169:0,169:0:0:169:6024:-542.251,-50.8741,0 0/1:108:66,42:66:2360:42:1500:-102.782,0,-180.147 0/1:116:56,59:56:1987:59:2107:-154.895,0,-144.126 0/1:150:41,109:41:1451:109:3896:-305.668,0,-85.7307 1/1:171:0,171:0:0:171:6104:-549.433,-51.4761,0 1/1:131:0,131:0:0:131:4691:-422.337,-39.4349,0 chr01 12572846 . A G 29233.1 PASS AB=0.538462;ABP=16.2062;AC=31;AF=0.738095;AN=42;AO=1421;CIGAR=1X;DP=1914;DPB=1914;DPRA=7.31154;EPP=3088.67;EPPR=1071.37;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9472;MQMR=59.9919;NS=21;NUMALT=1;ODDS=3.85566;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50491;QR=17615;RO=492;RPL=1421;RPP=3088.67;RPPR=1071.37;RPR=0;RUN=1;SAF=0;SAP=3088.67;SAR=1421;SRF=0;SRP=1071.37;SRR=492;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:180:0,179:0:0:179:6363:-572.316,-53.8844,0 1/1:90:2,88:2:72:88:3120:-274.157,-20.256,0 0/1:80:25,55:25:892:55:1940:-150.791,0,-56.5173 0/1:69:31,38:31:1116:38:1344:-100.489,0,-79.9806 0/1:340:156,184:156:5584:184:6551:-487.326,0,-400.331 0/1:68:38,30:38:1364:30:1064:-75.6016,0,-102.591 0/1:102:56,46:56:2004:46:1640:-117.184,0,-149.928 0/1:78:35,43:35:1248:43:1544:-115.768,0,-89.1445 1/1:126:0,126:0:0:126:4501:-405.231,-37.9298,0 1/1:20:0,20:0:0:20:700:-63.3235,-6.0206,0 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 1/1:85:0,85:0:0:85:3024:-272.392,-25.5876,0 1/1:82:3,79:3:108:79:2785:-240.814,-14.6093,0 1/1:94:0,94:0:0:94:3356:-302.257,-28.2968,0 1/1:57:0,57:0:0:57:2032:-183.153,-17.1587,0 0/1:120:61,59:61:2188:59:2092:-152.426,0,-161.062 0/1:115:53,62:53:1900:62:2207:-164.276,0,-136.659 0/1:55:19,36:19:671:36:1263:-97.4151,0,-44.1591 1/1:71:0,71:0:0:71:2524:-227.413,-21.3731,0 1/1:36:0,36:0:0:36:1253:-113.07,-10.8371,0 chr01 12587945 . AGGGGGAAAAC AGGAGGTAAAAC,AGGGGGGAAAAC 53395.9 PASS AB=0.521293,0.463722;ABP=8.004,17.505;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1947,680;CIGAR=3M1I2M1X5M,1M1I10M;DP=2674;DPB=2916.09;DPRA=1.62125,0.672608;EPP=4230.87,1479.61;EPPR=16.0391;GTI=0;LEN=12,1;MEANALT=3.65,3.52941;MQM=58.0349,59.6324;MQMR=56.1667;NS=21;NUMALT=2;ODDS=0.981137;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67245,23470;QR=202;RO=6;RPL=0,0;RPP=4230.87,1479.61;RPPR=16.0391;RPR=1947,680;RUN=1,1;SAF=0,0;SAP=4230.87,1479.61;SAR=1947,680;SRF=0;SRP=16.0391;SRR=6;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:133:1,65,66:1:34:65,66:2273,2304:-369.291,-184.72,-167.91,-182.196,0,-165.085 1/2:126:0,57,68:0:0:57,68:1986,2339:-351.073,-189.929,-172.771,-161.13,0,-140.66 1/2:160:0,90,68:0:0:90,68:3136,2301:-441.474,-186.48,-159.388,-254.98,0,-234.51 1/2:128:0,74,51:0:0:74,51:2559,1747:-349.46,-141.776,-119.5,-207.682,0,-192.33 1/1:168:0,159,3:0:0:159,3:5432,89:-488.526,-47.8638,0,-481.422,-40.757,-480.519 1/1:114:0,113,0:0:0:113,0:3883,0:-348.674,-34.0164,0,-348.674,-34.0164,-348.674 1/1:192:0,189,0:0:0:189,0:6507,0:-584.164,-56.8947,0,-584.164,-56.8947,-584.164 2/2:80:0,0,80:0:0:0,80:0,2809:-253.051,-253.051,-253.051,-24.0824,-24.0824,0 1/2:255:1,127,122:1:33:127,122:4405,4275:-702.777,-345.116,-309.553,-355.31,0,-321.252 1/2:34:0,18,15:0:0:18,15:625,525:-93.4326,-42.7081,-37.2895,-50.7186,0,-46.2031 1/2:17:0,12,5:0:0:12,5:426,180:-49.7032,-15.0469,-11.4346,-35.0145,0,-33.5093 1/2:51:0,21,30:0:0:21,30:734,1037:-144.266,-84.6033,-78.2817,-60.01,0,-50.9791 1/2:143:0,72,70:0:0:72,70:2465,2391:-394.104,-194.152,-172.478,-200.091,0,-179.019 1/1:157:0,152,0:0:0:152,0:5179,0:-465.441,-45.7566,0,-465.441,-45.7566,-465.441 1/1:163:0,158,1:0:0:158,1:5545,36:-498.783,-47.5627,0,-495.846,-44.6117,-495.544 1/1:99:0,98,1:0:0:98,1:3406,36:-306.378,-29.5009,0,-303.441,-26.2037,-303.14 1/1:230:2,225,0:2:72:225,0:7788,0:-694.086,-61.8328,0,-694.688,-67.7318,-700.563 1/2:140:0,73,65:0:0:73,65:2536,2217:-385.885,-179.946,-157.971,-206.019,0,-186.452 1/2:81:0,52,28:0:0:52,28:1758,940:-218.635,-76.1714,-60.5178,-142.528,0,-134.099 1/1:117:0,113,4:0:0:113,4:3891,140:-349.951,-34.0164,0,-338.571,-22.2868,-337.367 1/1:86:2,79,3:2:63:79,3:2711,104:-237.579,-18.7768,0,-229.727,-15.3113,-233.833 chr01 12606517 . A G 24577.4 PASS AB=0.62127;ABP=238.431;AC=12;AF=0.285714;AN=42;AO=1334;CIGAR=1X;DP=3039;DPB=3039;DPRA=1.65422;EPP=2899.75;EPPR=3705.37;GTI=2;LEN=1;MEANALT=1;MQM=59.6739;MQMR=59.9918;NS=21;NUMALT=1;ODDS=11.4366;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47642;QR=61078;RO=1705;RPL=1334;RPP=2899.75;RPPR=3705.37;RPR=0;RUN=1;SAF=0;SAP=2899.75;SAR=1334;SRF=0;SRP=3705.37;SRR=1705;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:97:95,2:95:3416:2:72:0,-22.3632,-300.816 0/0:88:88,0:88:3152:0:0:0,-26.4906,-283.905 0/1:149:46,103:46:1652:103:3692:-287.607,0,-104.115 0/1:151:86,65:86:3078:65:2328:-164.324,0,-231.756 0/1:216:117,99:117:4165:99:3532:-253.052,0,-310.011 0/1:158:95,63:95:3392:63:2256:-155.725,0,-257.93 0/1:197:104,93:104:3732:93:3312:-238.963,0,-276.777 0/1:176:80,96:80:2872:96:3415:-254.548,0,-205.735 0/0:182:182,0:182:6528:0:0:0,-54.7875,-587.602 0/1:14:11,3:11:396:3:104:-5.48839,0,-31.7683 1/1:195:10,185:10:345:185:6610:-563.186,-27.32,0 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/0:135:135,0:135:4832:0:0:0,-40.639,-435.035 0/0:105:105,0:105:3764:0:0:0,-31.6081,-338.959 0/0:163:163,0:163:5843:0:0:0,-49.0679,-525.98 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.14 0/1:93:38,55:38:1360:55:1960:-148.656,0,-94.7048 0/1:616:68,548:68:2431:548:19573:-1575.45,0,-33.6105 0/1:73:53,20:53:1904:20:716:-42.7819,0,-149.663 0/0:80:78,2:78:2800:2:72:0,-17.2457,-245.403 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.947 chr01 12606530 . CA TT,TC 62631.6 PASS AB=0.384403,0.615044;ABP=212.86,210.857;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1694,1302;CIGAR=2X,2X;DP=2999;DPB=2999.5;DPRA=0,1.6463;EPP=3681.48,2830.27;EPPR=0;GTI=2;LEN=2,2;MEANALT=1.7619,2.23077;MQM=59.9917,59.659;MQMR=0;NS=21;NUMALT=2;ODDS=13.3898;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=60056,46356;QR=0;RO=0;RPL=1694,1302;RPP=3681.48,2830.27;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3681.48,2830.27;SAR=1694,1302;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:95:0,93,2:0:0:93,2:3314,72:-298.12,-27.9958,0,-292.245,-21.7611,-291.643 1/1:82:0,82,0:0:0:82,0:2932,0:-264.115,-24.6845,0,-264.115,-24.6845,-264.115 1/2:145:0,46,99:0:0:46,99:1652,3498:-419.972,-285.208,-271.361,-135.121,0,-105.319 1/2:147:0,86,61:0:0:86,61:3068,2184:-428.532,-178.463,-152.574,-250.427,0,-232.064 1/2:216:0,118,98:0:0:118,98:4163,3471:-622.057,-283.076,-247.554,-339.334,0,-309.833 1/2:161:0,98,63:0:0:98,63:3486,2224:-465.533,-181.436,-151.935,-284.451,0,-265.486 1/2:193:0,103,90:0:0:103,90:3630,3202:-556.821,-261.277,-230.271,-295.898,0,-268.805 1/2:171:0,77,94:0:0:77,94:2743,3353:-497.223,-273.646,-250.467,-223.933,0,-195.636 1/1:178:0,178,0:0:0:178,0:6271,0:-564.491,-53.5833,0,-564.491,-53.5833,-564.491 1/2:14:0,11,3:0:0:11,3:392,108:-41.122,-9.17208,-5.86075,-32.3089,0,-31.4058 2/2:197:0,9,186:0:0:9,186:309,6600:-593.414,-568.325,-565.616,-55.9916,-30.9159,0 1/1:26:0,26,0:0:0:26,0:915,0:-82.6647,-7.82678,0,-82.6647,-7.82678,-82.6647 1/1:135:0,135,0:0:0:135,0:4797,0:-431.887,-40.6391,0,-431.887,-40.6391,-431.887 1/1:108:0,108,0:0:0:108,0:3837,0:-345.526,-32.5112,0,-345.526,-32.5112,-345.526 1/1:163:0,163,0:0:0:163,0:5742,0:-516.9,-49.0679,0,-516.9,-49.0679,-516.9 1/1:64:0,64,0:0:0:64,0:2264,0:-204.021,-19.2659,0,-204.021,-19.2659,-204.021 1/2:90:0,35,55:0:0:35,55:1244,1974:-262.718,-161.347,-150.81,-101.728,0,-85.1718 1/2:595:0,65,529:0:0:65,529:2328,18882:-1728.9,-1539.04,-1519.47,-189.794,0,-30.5496 1/2:76:0,56,20:0:0:56,20:1985,716:-220.446,-58.7367,-41.879,-162.066,0,-156.045 1/1:83:0,81,2:0:0:81,2:2874,72:-258.537,-24.3834,0,-252.662,-18.1488,-252.06 1/1:60:0,60,0:0:0:60,0:2110,0:-190.166,-18.0618,0,-190.166,-18.0618,-190.166 chr01 12621949 . C A 3898.79 PASS AB=0.518847;ABP=4.40178;AC=11;AF=0.261905;AN=42;AO=238;CIGAR=1X;DP=977;DPB=977;DPRA=0.903736;EPP=519.821;EPPR=1607.73;GTI=1;LEN=1;MEANALT=1;MQM=59.8235;MQMR=59.9323;NS=21;NUMALT=1;ODDS=2.3898;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8499;QR=26238;RO=739;RPL=0;RPP=519.821;RPPR=1607.73;RPR=238;RUN=1;SAF=0;SAP=519.821;SAR=238;SRF=0;SRP=1607.73;SRR=739;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:47,0:47:1669:0:0:0,-14.1484,-150.495 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 0/1:58:27,31:27:968:31:1083:-80.3049,0,-69.9776 0/1:37:22,15:22:788:15:529:-36.8025,0,-60.1067 0/1:85:38,47:38:1341:47:1684:-126.259,0,-95.4005 0/1:43:23,20:23:824:20:720:-52.1845,0,-61.539 0/1:81:27,54:27:972:54:1940:-150.489,0,-63.4145 0/1:33:17,16:17:574:16:567:-40.934,0,-42.042 0/0:81:80,1:80:2853:1:36:0,-20.7852,-253.408 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 0/0:45:45,0:45:1592:0:0:0,-13.5463,-143.568 0/0:127:127,0:127:4462:0:0:0,-38.2308,-401.742 0/0:21:20,1:20:720:1:36:0,-2.72335,-61.5305 0/1:25:12,13:12:432:13:468:-34.9339,0,-31.6954 0/1:55:25,30:25:892:30:1076:-80.5962,0,-64.043 0/1:22:17,5:17:612:5:180:-9.9294,0,-48.7908 0/0:76:74,2:74:2610:2:72:0,-16.0416,-228.235 0/0:26:26,0:26:909:0:0:0,-7.82678,-82.1234 chr01 12730219 . AGACA GGACC,GGACA 33472.2 PASS AB=0.568369,0.426689;ABP=27.6549,31.3468;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1305,264;CIGAR=1X3M1X,1X4M;DP=1582;DPB=1582;DPRA=0,1.47774;EPP=2810.78,567.626;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.33333,2.66667;MQM=59.731,60;MQMR=0;NS=21;NUMALT=2;ODDS=13.8479;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45550,9452;QR=0;RO=0;RPL=4,1;RPP=2802.14,567.626;RPPR=0;RPR=1301,263;RUN=1,1;SAF=1304,264;SAP=2828.1,576.279;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:0,127,0:0:0:127,0:4442,0:-399.667,-38.2308,0,-399.667,-38.2308,-399.667 1/1:35:0,35,0:0:0:35,0:1244,0:-112.257,-10.5361,0,-112.257,-10.5361,-112.257 1/2:81:0,52,29:0:0:52,29:1816,1044:-233.25,-85.5449,-69.8914,-148.061,0,-139.331 1/2:55:0,31,23:0:0:31,23:1076,828:-155.014,-67.5606,-58.2287,-87.448,0,-80.5243 1/2:88:0,50,37:0:0:50,37:1737,1315:-248.43,-107.221,-92.1698,-141.268,0,-130.13 1/2:68:0,47,21:0:0:47,21:1642,752:-195.247,-61.6846,-47.5362,-133.918,0,-127.596 1/2:98:0,41,57:0:0:41,57:1429,2037:-282.653,-166.442,-154.1,-116.562,0,-99.4037 1/2:65:0,32,32:0:0:32,32:1128,1148:-185.454,-93.6376,-84.0046,-91.8126,0,-82.1797 1/1:220:0,217,1:0:0:217,1:7521,32:-676.587,-65.3235,0,-674.008,-62.7418,-673.707 1/1:13:0,12,1:0:0:12,1:404,36:-36.3238,-3.61236,0,-33.3846,-0.315115,-33.0836 1/2:7:0,6,1:0:0:6,1:213,36:-20.6475,-3.29724,-1.49106,-17.7094,0,-17.4084 1/1:28:0,28,0:0:0:28,0:990,0:-89.4135,-8.42884,0,-89.4135,-8.42884,-89.4135 1/1:149:0,146,1:0:0:146,1:5113,36:-459.959,-43.9504,0,-457.022,-41.0079,-456.721 1/1:72:0,69,0:0:0:69,0:2358,0:-212.108,-20.7711,0,-212.108,-20.7711,-212.108 1/1:177:0,174,1:0:0:174,1:6085,36:-547.459,-52.3792,0,-544.522,-49.4096,-544.221 1/1:35:0,35,0:0:0:35,0:1228,0:-110.824,-10.5361,0,-110.824,-10.5361,-110.824 1/2:42:0,29,13:0:0:29,13:1019,468:-121.48,-38.5463,-29.8164,-83.2913,0,-79.3779 1/2:53:0,27,26:0:0:27,26:960,932:-154.595,-76.3721,-68.2443,-78.5795,0,-70.7527 1/2:50:0,30,20:0:0:30,20:1044,716:-143.628,-58.7471,-49.7162,-85.2343,0,-79.2137 1/1:79:0,77,1:0:0:77,1:2685,36:-241.534,-23.1793,0,-238.596,-20.2318,-238.295 1/1:40:0,40,0:0:0:40,0:1416,0:-127.736,-12.0412,0,-127.736,-12.0412,-127.736 chr01 12730250 . T C 27717.3 PASS AB=0.56457;ABP=24.8832;AC=32;AF=0.761905;AN=42;AO=1297;CIGAR=1X;DP=1563;DPB=1563;DPRA=0;EPP=2819.41;EPPR=569.797;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.6955;MQMR=60;NS=21;NUMALT=1;ODDS=13.1983;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46083;QR=9511;RO=265;RPL=1297;RPP=2819.41;RPPR=569.797;RPR=0;RUN=1;SAF=1297;SAP=2819.41;SAR=0;SRF=265;SRP=578.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:126:0,126:0:0:126:4473:-402.348,-37.9298,0 1/1:34:0,34:0:0:34:1216:-109.738,-10.235,0 0/1:85:33,52:33:1188:52:1864:-142.445,0,-81.641 0/1:54:23,31:23:815:31:1101:-83.1299,0,-57.4151 0/1:85:37,48:37:1324:48:1703:-127.965,0,-93.8745 0/1:67:20,47:20:716:47:1657:-129.245,0,-44.5987 0/1:96:56,40:56:2016:40:1411:-98.3858,0,-152.814 0/1:63:32,31:32:1152:31:1116:-81.7492,0,-85.0253 1/1:214:0,214:0:0:214:7572:-681.489,-64.4204,0 1/1:13:1,12:1:36:12:428:-35.2489,-0.315115,0 0/1:7:1,6:1:36:6:210:-17.1343,0,-1.49106 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 1/1:148:0,148:0:0:148:5262:-473.7,-44.5524,0 1/1:70:0,70:0:0:70:2497:-224.969,-21.0721,0 1/1:174:0,174:0:0:174:6176:-555.852,-52.3792,0 1/1:34:0,33:0:0:33:1184:-106.508,-9.93399,0 0/1:43:14,29:14:500:29:1040:-80.9701,0,-32.3919 0/1:53:26,27:26:936:27:955:-70.301,0,-68.6049 0/1:51:21,30:21:756:30:1060:-80.3564,0,-53.0147 1/1:77:1,76:1:36:76:2707:-240.259,-19.581,0 1/1:41:0,41:0:0:41:1447:-130.333,-12.3422,0 chr01 12901044 . TGTG AATA,AGTA 16502.3 PASS AB=0.550321,0.449679;ABP=13.2818,13.2818;AC=32,10;AF=0.761905,0.238095;AN=42;AO=812,212;CIGAR=2X1M1X,1X2M1X;DP=1025;DPB=1025;DPRA=0,0.939755;EPP=1748.92,463.362;EPPR=0;GTI=0;LEN=4,4;MEANALT=1.57143,2;MQM=29.1933,53.6085;MQMR=0;NS=21;NUMALT=2;ODDS=13.6809;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28754,7446;QR=0;RO=0;RPL=2,0;RPP=1748.92,463.362;RPPR=0;RPR=810,212;RUN=1,1;SAF=812,212;SAP=1766.25,463.362;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40,0:0:0:40,0:1425,0:-103.366,-12.0412,0,-103.366,-12.0412,-103.366 1/1:27:0,27,0:0:0:27,0:947,0:-62.0987,-8.12781,0,-62.0987,-8.12781,-62.0987 1/2:55:0,30,25:0:0:30,25:1064,898:-141.573,-73.5239,-64.493,-68.3748,0,-60.8491 1/2:39:0,22,17:0:0:22,17:785,587:-98.7683,-47.7183,-41.0956,-51.3706,0,-46.2531 1/2:99:0,46,53:0:0:46,53:1633,1841:-254.296,-149.663,-135.816,-104.947,0,-88.9924 1/2:36:0,23,13:0:0:23,13:816,461:-84.0268,-37.4459,-30.5222,-46.8983,0,-42.9849 1/2:80:0,44,36:0:0:44,36:1570,1255:-189.32,-101.419,-88.1733,-88.2059,0,-77.3688 1/2:49:0,31,18:0:0:31,18:1092,640:-118.672,-52.4257,-43.0938,-66.5708,0,-61.1523 1/1:108:0,108,0:0:0:108,0:3781,0:-289.009,-32.5112,0,-289.009,-32.5112,-289.009 1/1:16:0,15,0:0:0:15,0:531,0:-36.4967,-4.51545,0,-36.4967,-4.51545,-36.4967 1/2:9:0,4,5:0:0:4,5:132,168:-21.5686,-13.9244,-12.7203,-7.93045,0,-6.4253 1/1:26:0,26,0:0:0:26,0:924,0:-63.6681,-7.82678,0,-63.6681,-7.82678,-63.6681 1/1:46:0,46,0:0:0:46,0:1620,0:-119.027,-13.8474,0,-119.027,-13.8474,-119.027 1/1:66:0,66,0:0:0:66,0:2345,0:-171.374,-19.868,0,-171.374,-19.868,-171.374 1/1:132:0,132,0:0:0:132,0:4688,0:-339.215,-39.736,0,-339.215,-39.736,-339.215 1/1:20:0,20,0:0:0:20,0:710,0:-53.8325,-6.0206,0,-53.8325,-6.0206,-53.8325 1/2:32:0,18,14:0:0:18,14:644,497:-84.5237,-40.8386,-35.4201,-44.0174,0,-39.8029 1/2:34:0,13,21:0:0:13,21:466,739:-87.7612,-60.2744,-56.361,-27.7868,0,-21.4651 1/2:34:0,26,8:0:0:26,8:914,288:-83.1531,-23.8402,-16.0134,-59.6554,0,-57.2472 1/1:54:0,52,2:0:0:52,2:1848,72:-126.31,-15.6536,0,-120.441,-9.42859,-119.839 1/1:23:0,23,0:0:0:23,0:819,0:-52.9323,-6.92369,0,-52.9323,-6.92369,-52.9323 chr01 12901070 . ATTCAT CTTTAC,CTTCAC 15998.1 PASS AB=0.546638,0.43167;ABP=11.7197,21.7057;AC=32,10;AF=0.761905,0.238095;AN=42;AO=805,202;CIGAR=1X2M1X1M1X,1X4M1X;DP=1020;DPB=1020;DPRA=0,1.30094;EPP=1742.37,441.648;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.14286,2.75;MQM=29.2012,54.104;MQMR=0;NS=21;NUMALT=2;ODDS=6.66546;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28008,7106;QR=0;RO=0;RPL=804,202;RPP=1742.37,441.648;RPPR=0;RPR=1,0;RUN=1,1;SAF=805,202;SAP=1751.05,441.648;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,38,0:0:0:38,0:1334,0:-98.1562,-11.4391,0,-98.1562,-11.4391,-98.1562 1/1:27:0,27,0:0:0:27,0:930,0:-61.7859,-8.12781,0,-61.7859,-8.12781,-61.7859 1/2:54:0,30,24:0:0:30,24:1055,860:-138.282,-70.4422,-61.4113,-68.1648,0,-60.9401 1/2:39:0,21,17:0:0:21,17:731,579:-94.343,-46.6904,-40.3688,-47.6199,0,-42.5023 1/2:97:0,45,50:0:0:45,50:1560,1779:-246.189,-144.807,-131.26,-101.404,0,-86.3529 1/2:36:0,22,12:0:0:22,12:782,428:-78.5014,-34.648,-28.0254,-43.8545,0,-40.2422 1/2:80:0,45,32:0:0:45,32:1569,1099:-179.287,-89.0107,-75.4643,-90.2981,0,-80.6651 1/2:49:0,31,18:0:0:31,18:1064,620:-116.268,-50.6226,-41.2906,-65.9613,0,-60.5427 1/1:109:0,108,0:0:0:108,0:3774,0:-289.429,-32.5112,0,-289.429,-32.5112,-289.429 1/1:16:0,16,0:0:0:16,0:538,0:-38.3532,-4.81648,0,-38.3532,-4.81648,-38.3532 1/2:9:0,4,4:0:0:4,4:143,129:-18.1458,-10.346,-9.14185,-7.74763,0,-6.54351 1/1:26:0,26,0:0:0:26,0:897,0:-62.8701,-7.82678,0,-62.8701,-7.82678,-62.8701 1/1:46:0,46,0:0:0:46,0:1604,0:-118.434,-13.8474,0,-118.434,-13.8474,-118.434 1/1:66:0,66,0:0:0:66,0:2266,0:-168.646,-19.868,0,-168.646,-19.868,-168.646 1/1:132:0,131,1:0:0:131,1:4581,36:-334.556,-39.4349,0,-331.704,-36.2333,-331.403 1/1:20:0,20,0:0:0:20,0:688,0:-53.0507,-6.0206,0,-53.0507,-6.0206,-53.0507 1/2:30:0,17,13:0:0:17,13:592,464:-78.8299,-38.1728,-33.0553,-40.989,0,-37.0756 1/2:34:0,12,21:0:0:12,21:423,752:-86.6582,-61.1883,-57.5759,-25.52,0,-19.1984 1/2:33:0,25,8:0:0:25,8:859,288:-79.9995,-23.8402,-16.3145,-56.5004,0,-54.0921 1/1:54:0,52,2:0:0:52,2:1826,72:-125.86,-15.6536,0,-119.991,-9.42859,-119.389 1/1:23:0,23,0:0:0:23,0:792,0:-52.5339,-6.92369,0,-52.5339,-6.92369,-52.5339 chr01 12961358 . TT CT,CC 52403.8 PASS AB=0.519916,0.477987;ABP=7.9405,9.03306;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2167,687;CIGAR=1X1M,2X;DP=2857;DPB=2857;DPRA=0,1.49019;EPP=4708.59,1494.81;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.7619,2.23077;MQM=39.8348,27.345;MQMR=0;NS=21;NUMALT=2;ODDS=10.6423;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76815,24295;QR=0;RO=0;RPL=0,0;RPP=4708.59,1494.81;RPPR=0;RPR=2167,687;RUN=1,1;SAF=2167,687;SAP=4708.59,1494.81;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:170:0,169,1:0:0:169,1:5984,36:-518.116,-50.8741,0,-515.879,-48.354,-515.578 1/1:110:0,110,0:0:0:110,0:3899,0:-326.337,-33.1133,0,-326.337,-33.1133,-326.337 1/2:163:0,77,84:0:0:77,84:2766,2971:-399.54,-183.153,-159.974,-216.438,0,-191.152 1/2:171:0,95,76:0:0:95,76:3387,2692:-430.715,-165.849,-137.251,-265.171,0,-242.293 1/2:331:0,167,164:0:0:167,164:5854,5813:-813.917,-358.319,-308.047,-455.904,0,-406.535 1/2:196:0,100,95:0:0:100,95:3582,3363:-450.694,-180.75,-150.647,-269.898,0,-241.3 1/2:224:0,108,116:0:0:108,116:3814,4101:-504.214,-218.909,-186.398,-285.591,0,-250.672 1/2:151:0,84,67:0:0:84,67:2956,2357:-365.425,-138.583,-113.297,-227.136,0,-206.967 1/1:293:0,292,1:0:0:292,1:10344,36:-907.516,-87.9008,0,-905.767,-85.9229,-905.466 1/1:17:0,17,0:0:0:17,0:600,0:-52.0183,-5.11751,0,-52.0183,-5.11751,-52.0183 1/2:6:0,2,4:0:0:2,4:72,137:-13.271,-7.81978,-7.21772,-5.75562,0,-4.5515 1/1:37:0,37,0:0:0:37,0:1300,0:-111.851,-11.1381,0,-111.851,-11.1381,-111.851 1/1:147:0,147,0:0:0:147,0:5215,0:-452.402,-44.2514,0,-452.402,-44.2514,-452.402 1/1:166:0,166,0:0:0:166,0:5891,0:-510.529,-49.971,0,-510.529,-49.971,-510.529 1/1:209:0,209,0:0:0:209,0:7435,0:-644.373,-62.9153,0,-644.373,-62.9153,-644.373 1/1:128:0,127,1:0:0:127,1:4511,36:-395.747,-38.2308,0,-393.3,-35.4773,-392.999 1/2:140:0,79,61:0:0:79,61:2818,2146:-363.656,-140.49,-116.709,-223.481,0,-205.118 1/2:22:0,13,9:0:0:13,9:459,319:-54.1864,-18.9237,-15.0103,-35.5555,0,-32.8462 1/2:27:0,19,8:0:0:19,8:673,288:-70.884,-18.1857,-12.4661,-52.9981,0,-50.5898 1/1:131:0,131,0:0:0:131,0:4625,0:-394.164,-39.4349,0,-394.164,-39.4349,-394.164 1/1:18:0,18,0:0:0:18,0:630,0:-53.2768,-5.41854,0,-53.2768,-5.41854,-53.2768 chr01 13054864 . T G 10134.5 PASS AB=0.500395;ABP=3.01201;AC=11;AF=0.261905;AN=42;AO=635;CIGAR=1X;DP=2506;DPB=2506;DPRA=0.803306;EPP=1381.9;EPPR=4044.14;GTI=0;LEN=1;MEANALT=1;MQM=53.2362;MQMR=59.8604;NS=21;NUMALT=1;ODDS=1.64129;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22127;QR=67019;RO=1869;RPL=1;RPP=1373.22;RPPR=4009.54;RPR=634;RUN=1;SAF=1;SAP=1373.22;SAR=634;SRF=4;SRP=4026.82;SRR=1865;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:100:100,0:100:3592:0:0:0,-30.103,-323.477 0/0:138:138,0:138:4948:0:0:0,-41.5421,-444.885 0/1:104:54,50:54:1940:50:1745:-125.564,0,-143.569 0/1:174:77,97:77:2756:97:3395:-252.922,0,-195.902 0/1:315:135,180:135:4852:180:6253:-465.508,0,-342.002 0/1:111:62,49:62:2228:49:1712:-118.21,0,-167.365 0/1:173:82,91:82:2939:91:3168:-230.306,0,-212.037 0/1:68:38,30:38:1360:30:1059:-74.8956,0,-102.231 0/0:195:195,0:195:6977:0:0:0,-58.7008,-627.989 0/1:12:10,2:10:360:2:72:-3.21467,0,-29.1319 0/1:8:2,6:2:72:6:212:-16.9092,0,-4.42848 0/0:29:28,1:28:1000:1:36:0,-5.1367,-86.7131 0/0:153:153,0:153:5492:0:0:0,-46.0576,-494.127 0/0:136:134,0:134:4812:0:0:0,-40.338,-432.872 0/0:122:122,0:122:4384:0:0:0,-36.7257,-394.725 0/0:167:167,0:167:5956:0:0:0,-50.272,-536.148 0/1:119:71,48:71:2548:48:1686:-116.042,0,-193.692 0/1:96:49,47:49:1756:47:1636:-118.169,0,-129.425 0/1:87:53,34:53:1899:34:1153:-77.633,0,-144.998 0/0:138:138,0:138:4956:0:0:0,-41.5421,-446.046 0/0:61:61,0:61:2192:0:0:0,-18.3628,-197.542 chr01 13054875 . CTGATC CTAATT,TTAATT 53749.4 PASS AB=0.490769,0.503077;ABP=3.97243,3.1172;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1881,656;CIGAR=2M1X2M1X,1X1M1X2M1X;DP=2550;DPB=2549.83;DPRA=0,0.834921;EPP=4070.2,1427.5;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.2381,2.69231;MQM=59.8846,53.1098;MQMR=0;NS=21;NUMALT=2;ODDS=3.12343;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66633,23110;QR=0;RO=0;RPL=1879,656;RPP=4070.2,1427.5;RPPR=0;RPR=2,0;RUN=1,1;SAF=0,0;SAP=4087.55,1427.5;SAR=1881,656;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,103,0:0:0:103,0:3654,0:-328.746,-31.0061,0,-328.746,-31.0061,-328.746 1/1:140:0,140,0:0:0:140,0:4971,0:-447.175,-42.1442,0,-447.175,-42.1442,-447.175 1/2:106:0,55,51:0:0:55,51:1947,1790:-303.739,-145.141,-128.584,-158.949,0,-143.596 1/2:179:0,78,101:0:0:78,101:2738,3583:-514.554,-291.724,-268.243,-223.183,0,-192.779 1/2:326:0,137,186:0:0:137,186:4831,6505:-920.431,-527.073,-485.831,-393.413,0,-337.422 1/2:112:0,60,50:0:0:60,50:2115,1763:-313.333,-141.126,-123.064,-172.249,0,-157.198 1/2:177:0,83,94:0:0:83,94:2939,3334:-507.572,-268.721,-243.736,-239.203,0,-210.906 1/2:68:0,38,30:0:0:38,30:1355,1048:-195.832,-85.3729,-73.9338,-110.811,0,-101.78 1/1:197:0,196,0:0:0:196,0:6932,0:-623.652,-59.0019,0,-623.652,-59.0019,-623.652 1/2:12:0,10,2:0:0:10,2:354,72:-35.0557,-6.22497,-3.21467,-29.1892,0,-28.5871 1/2:9:0,2,7:0:0:2,7:72,252:-26.6767,-20.8015,-20.1994,-6.23466,0,-4.12745 1/1:29:0,28,1:0:0:28,1:992,35:-89.2356,-8.42884,0,-86.3917,-5.2353,-86.0907 1/1:154:0,153,0:0:0:153,0:5420,0:-487.604,-46.0576,0,-487.604,-46.0576,-487.604 1/1:138:0,138,0:0:0:138,0:4857,0:-437.287,-41.5421,0,-437.287,-41.5421,-437.287 1/1:123:0,123,0:0:0:123,0:4390,0:-395.271,-37.0267,0,-395.271,-37.0267,-395.271 1/1:165:0,165,0:0:0:165,0:5851,0:-526.707,-49.67,0,-526.707,-49.67,-526.707 1/2:122:0,70,50:0:0:70,50:2477,1765:-345.369,-143.613,-122.541,-201.83,0,-186.778 1/2:100:0,50,49:0:0:50,49:1779,1733:-285.724,-140.737,-125.686,-144.981,0,-130.23 1/2:89:0,55,34:0:0:55,34:1954,1194:-256.431,-97.2051,-80.6485,-159.577,0,-149.342 1/1:139:0,137,1:0:0:137,1:4857,36:-436.89,-41.2411,0,-433.952,-38.2738,-433.651 1/1:61:0,60,0:0:0:60,0:2148,0:-193.355,-18.0618,0,-193.355,-18.0618,-193.355 chr01 13261030 . A G 10285.7 PASS AB=0.478903;ABP=6.67523;AC=10;AF=0.238095;AN=42;AO=460;CIGAR=1X;DP=1763;DPB=1763;DPRA=1.22505;EPP=908.628;EPPR=1869.88;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9391;MQMR=59.9992;NS=21;NUMALT=1;ODDS=7.57139;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16332;QR=46456;RO=1302;RPL=250;RPP=10.5632;RPPR=95.9;RPR=210;RUN=1;SAF=261;SAP=21.1563;SAR=199;SRF=655;SRP=3.11704;SRR=647;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:72,1:72:2576:1:36:0,-18.3769,-228.491 0/0:93:91,2:91:3242:2:72:0,-21.1591,-285.165 0/1:40:23,17:23:824:17:612:-43.3722,0,-62.4421 0/1:75:42,33:42:1508:33:1175:-83.4797,0,-113.437 0/1:158:80,78:80:2863:78:2755:-200.626,0,-210.344 0/1:101:37,63:37:1332:63:2251:-172.381,0,-89.7196 0/1:146:78,68:78:2782:68:2423:-174.375,0,-206.67 0/1:104:57,47:57:2030:47:1664:-118.733,0,-151.664 0/0:134:134,0:134:4784:0:0:0,-40.338,-430.715 0/0:10:10,0:10:351:0:0:0,-3.0103,-31.9267 0/1:9:6,3:6:201:3:94:-6.06044,0,-15.7078 0/0:26:26,0:26:927:0:0:0,-7.82678,-83.7474 0/0:69:68,1:68:2448:1:36:0,-17.1728,-216.976 0/0:81:81,0:81:2867:0:0:0,-24.3834,-258.266 0/0:118:118,0:118:4207:0:0:0,-35.5215,-378.809 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.587 0/1:49:34,15:34:1211:15:518:-32.1951,0,-94.545 0/1:157:69,88:69:2468:88:3131:-234.755,0,-175.112 0/1:109:67,42:67:2396:42:1493:-101.85,0,-183.085 0/0:69:67,2:67:2377:2:72:0,-13.9343,-207.35 0/0:82:82,0:82:2914:0:0:0,-24.6845,-262.495 chr01 13261042 . T C 9877.53 PASS AB=0.475532;ABP=7.89842;AC=10;AF=0.238095;AN=42;AO=454;CIGAR=1X;DP=1754;DPB=1754;DPRA=1.40825;EPP=988.859;EPPR=2791.29;GTI=0;LEN=1;MEANALT=1;MQM=59.9537;MQMR=60;NS=21;NUMALT=1;ODDS=8.17507;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16102;QR=46470;RO=1300;RPL=254;RPP=16.9575;RPPR=4.31986;RPR=200;RUN=1;SAF=254;SAP=16.9575;SAR=200;SRF=634;SRP=4.72075;SRR=666;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:75,1:75:2672:1:36:0,-19.28,-237.128 0/0:94:92,2:92:3296:2:72:0,-21.4601,-290.022 0/1:41:24,17:24:860:17:612:-43.0712,0,-65.3796 0/1:76:44,32:44:1563:32:1141:-80.1206,0,-118.083 0/1:155:80,75:80:2867:75:2638:-191.005,0,-211.607 0/1:103:40,63:40:1415:63:2233:-170.218,0,-96.6405 0/1:143:77,66:77:2760:66:2350:-168.711,0,-205.594 0/1:104:60,44:60:2133:44:1580:-111.184,0,-160.929 0/0:134:134,0:134:4780:0:0:0,-40.338,-430.359 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:9:6,3:6:216:3:96:-6.24687,0,-17.0812 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/0:69:68,1:68:2444:1:36:0,-17.1728,-216.616 0/0:79:79,0:79:2828:0:0:0,-23.7814,-254.759 0/0:117:116,1:116:4145:1:36:0,-31.6222,-369.634 0/0:61:61,0:61:2196:0:0:0,-18.3628,-197.905 0/1:51:34,17:34:1220:17:608:-39.6995,0,-94.7543 0/1:151:63,88:63:2252:88:3104:-234.129,0,-157.488 0/1:107:65,42:65:2332:42:1488:-102.002,0,-177.929 0/0:70:68,2:68:2431:2:72:0,-14.2354,-212.208 0/0:78:78,0:78:2772:0:0:0,-23.4803,-249.723 chr01 13476820 . C T 4224.85 PASS AB=0.447427;ABP=13.7414;AC=10;AF=0.238095;AN=42;AO=202;CIGAR=1X;DP=898;DPB=898;DPRA=1.08691;EPP=10.2772;EPPR=253.242;GTI=0;LEN=1;MEANALT=1;MQM=59.9802;MQMR=60;NS=21;NUMALT=1;ODDS=9.04298;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7138;QR=24815;RO=695;RPL=114;RPP=10.2772;RPPR=253.242;RPR=88;RUN=1;SAF=0;SAP=441.648;SAR=202;SRF=0;SRP=1512.18;SRR=695;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:72,0:72:2592:0:0:0,-21.6742,-233.168 0/0:39:39,0:39:1370:0:0:0,-11.7402,-123.595 0/1:48:27,21:27:964:21:756:-53.9178,0,-72.6274 0/1:58:29,29:29:1044:29:1014:-74.1077,0,-76.8151 0/1:117:64,53:64:2276:53:1881:-134.346,0,-169.879 0/1:36:12,24:12:424:24:849:-65.8907,0,-27.6593 0/1:49:26,23:26:921:23:816:-59.0112,0,-68.4547 0/1:44:30,14:30:1076:14:496:-31.7289,0,-83.9075 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:63:63,0:63:2245:0:0:0,-18.9649,-202.312 0/0:54:54,0:54:1902:0:0:0,-16.2556,-171.454 0/0:107:107,0:107:3821:0:0:0,-32.2102,-344.086 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 0/1:42:26,16:26:928:16:568:-38.8077,0,-71.195 0/1:31:18,13:18:648:13:449:-31.4056,0,-49.32 0/1:16:12,4:12:432:4:129:-7.11118,0,-34.4047 0/0:42:40,2:40:1440:2:72:0,-5.80654,-123.061 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 chr01 13476967 . TTTGGTC CTTAGTT,TTTGGTT 34942.3 PASS AB=0.511287,0.484199;ABP=3.99065,4.93178;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1225,433;CIGAR=1X2M1X2M1X,6M1X;DP=1665;DPB=1665.57;DPRA=0,1.09453;EPP=2663.06,943.258;EPPR=0;GTI=0;LEN=7,1;MEANALT=1.90476,2.33333;MQM=54.5722,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.61603;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=43384,15410;QR=0;RO=0;RPL=1225,433;RPP=2663.06,943.258;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2663.06,943.258;SAR=1225,433;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,76,2:0:0:76,2:2698,72:-242.426,-22.8783,0,-236.551,-16.6436,-235.949 1/1:85:0,84,0:0:0:84,0:2942,0:-263.981,-25.2865,0,-263.981,-25.2865,-263.981 1/2:122:0,63,59:0:0:63,59:2239,2049:-349.099,-166.912,-147.947,-182.537,0,-164.777 1/2:39:0,22,17:0:0:22,17:787,597:-112.963,-48.9386,-42.316,-64.3778,0,-59.2603 1/2:141:0,54,86:0:0:54,86:1904,3088:-406.619,-251.929,-235.673,-154.715,0,-128.826 1/2:41:0,18,23:0:0:18,23:643,809:-118.336,-66.2046,-60.7861,-52.4852,0,-45.5615 1/2:97:0,48,47:0:0:48,47:1687,1688:-274.249,-137.704,-123.254,-136.545,0,-122.396 1/2:162:0,78,83:0:0:78,83:2757,2969:-466.243,-242.11,-218.63,-224.142,0,-199.157 1/1:111:0,111,0:0:0:111,0:3959,0:-355.656,-33.4143,0,-355.656,-33.4143,-355.656 1/1:24:0,22,2:0:0:22,2:775,72:-69.6163,-6.62266,0,-63.7408,-0.387998,-63.1387 1/2:6:0,1,5:0:0:1,5:35,180:-17.8864,-15.0469,-14.7459,-3.19039,0,-1.68524 1/1:28:0,28,0:0:0:28,0:999,0:-90.0641,-8.42884,0,-90.0641,-8.42884,-90.0641 1/1:48:0,48,0:0:0:48,0:1698,0:-152.92,-14.4494,0,-152.92,-14.4494,-152.92 1/1:76:0,76,0:0:0:76,0:2670,0:-240.295,-22.8783,0,-240.295,-22.8783,-240.295 1/1:172:0,171,0:0:0:171,0:6040,0:-541.833,-51.4761,0,-541.833,-51.4761,-541.833 1/1:56:0,56,0:0:0:56,0:1994,0:-179.632,-16.8577,0,-179.632,-16.8577,-179.632 1/2:45:0,26,19:0:0:26,19:923,669:-129.964,-54.8144,-46.9876,-75.5026,0,-69.783 1/2:159:0,86,73:0:0:86,73:3058,2620:-462.142,-213.715,-187.826,-248.427,0,-226.452 1/2:74:0,57,17:0:0:57,17:2032,597:-214.367,-48.9386,-31.7799,-165.78,0,-160.663 1/1:59:0,58,0:0:0:58,0:2059,0:-184.704,-17.4597,0,-184.704,-17.4597,-184.704 1/1:42:0,42,0:0:0:42,0:1485,0:-133.447,-12.6433,0,-133.447,-12.6433,-133.447 chr01 13580030 . CA CG,TG 32121.5 PASS AB=0.513444,0.483995;ABP=4.23645,4.74803;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1141,378;CIGAR=1M1X,2X;DP=1521;DPB=1521;DPRA=0,1.16095;EPP=2471.98,823.827;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.52381,2.1;MQM=59.213,59.8995;MQMR=37;NS=21;NUMALT=2;ODDS=7.62398;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40585,13086;QR=25;RO=1;RPL=1,0;RPP=2471.98,823.827;RPPR=5.18177;RPR=1140,378;RUN=1,1;SAF=1141,378;SAP=2480.66,823.827;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,93,0:0:0:93,0:3309,0:-297.616,-27.9958,0,-297.616,-27.9958,-297.616 1/1:77:0,77,0:0:0:77,0:2728,0:-245.708,-23.1793,0,-245.708,-23.1793,-245.708 1/2:74:0,38,36:0:0:38,36:1356,1246:-211.376,-101.602,-90.1632,-110.123,0,-99.2861 1/2:96:0,54,42:0:0:54,42:1936,1453:-276.31,-118.416,-102.16,-158.246,0,-145.602 1/2:179:0,88,91:0:0:88,91:3127,3182:-513.89,-259.212,-232.721,-255.03,0,-227.637 1/2:61:0,28,33:0:0:28,33:1004,1145:-175.314,-93.4202,-84.9914,-82.247,0,-72.313 1/2:121:0,71,49:0:0:71,49:2506,1694:-341.383,-137.631,-116.258,-203.741,0,-188.99 1/2:85:1,40,44:1:25:40,44:1428,1524:-238.134,-122.025,-111.907,-114.589,0,-103.266 1/1:145:0,145,0:0:0:145,0:5138,0:-462.048,-43.6494,0,-462.048,-43.6494,-462.048 1/1:7:0,7,0:0:0:7,0:252,0:-22.9835,-2.10721,0,-22.9835,-2.10721,-22.9835 1/2:9:0,4,5:0:0:4,5:144,178:-26.6149,-14.8635,-13.6594,-12.1095,0,-10.6043 1/1:35:0,35,0:0:0:35,0:1260,0:-113.695,-10.5361,0,-113.695,-10.5361,-113.695 1/1:63:0,63,0:0:0:63,0:2246,0:-202.375,-18.9649,0,-202.375,-18.9649,-202.375 1/1:61:0,61,0:0:0:61,0:2147,0:-192.697,-18.3628,0,-192.697,-18.3628,-192.697 1/1:128:0,128,0:0:0:128,0:4576,0:-411.851,-38.5318,0,-411.851,-38.5318,-411.851 1/1:40:0,40,0:0:0:40,0:1428,0:-128.782,-12.0412,0,-128.782,-12.0412,-128.782 1/2:95:0,40,55:0:0:40,55:1416,1861:-266.552,-151.203,-139.162,-115.696,0,-99.1395 1/2:33:0,19,14:0:0:19,14:680,494:-96.034,-40.5792,-34.8596,-55.8096,0,-51.5952 1/2:28:0,19,9:0:0:19,9:684,309:-81.2405,-25.432,-19.7124,-56.157,0,-53.4477 1/1:63:0,63,0:0:0:63,0:2224,0:-200.182,-18.9649,0,-200.182,-18.9649,-200.182 1/1:28:0,28,0:0:0:28,0:996,0:-89.9549,-8.42884,0,-89.9549,-8.42884,-89.9549 chr01 13580037 . ACGAG GTGAA,GCGAG 38571.6 PASS AB=0.527458,0.463602;ABP=8.13808,12.0207;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1176,363;CIGAR=2X2M1X,1X4M;DP=1552;DPB=1552;DPRA=0,1.12003;EPP=856.827,194.68;EPPR=3.0103;GTI=0;LEN=5,1;MEANALT=1.95238,2.4;MQM=59.1913,59.8953;MQMR=60;NS=21;NUMALT=2;ODDS=10.1648;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40429,12940;QR=71;RO=2;RPL=248,92;RPP=856.827,194.68;RPPR=3.0103;RPR=928,271;RUN=1,1;SAF=1176,363;SAP=2556.66,791.255;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,93,0:0:0:93,0:3222,0:-289.943,-27.9958,0,-289.943,-27.9958,-289.943 1/1:82:0,82,0:0:0:82,0:2802,0:-252.379,-24.6845,0,-252.379,-24.6845,-252.379 1/2:72:0,38,33:0:0:38,33:1337,1188:-205.78,-97.0317,-85.5925,-108.84,0,-98.906 1/2:95:0,55,40:0:0:55,40:1890,1423:-269.765,-116.322,-99.7655,-153.793,0,-141.752 1/2:183:2,94,85:2:71:94,85:3228,3022:-501.88,-240.481,-217.969,-256.209,0,-236.407 1/2:61:0,29,32:0:0:29,32:988,1135:-172.975,-92.8251,-84.0952,-80.4973,0,-70.8644 1/2:120:0,71,48:0:0:71,48:2451,1711:-338.586,-139.525,-118.152,-199.112,0,-184.662 1/2:85:0,42,43:0:0:42,43:1436,1523:-240.912,-124.411,-111.767,-116.849,0,-103.904 1/1:147:0,144,0:0:0:144,0:4976,0:-447.394,-43.3483,0,-447.394,-43.3483,-447.394 1/1:7:0,7,0:0:0:7,0:250,0:-22.8173,-2.10721,0,-22.8173,-2.10721,-22.8173 1/2:10:0,5,5:0:0:5,5:174,180:-29.1892,-15.0469,-13.5418,-14.4961,0,-12.991 1/1:35:0,35,0:0:0:35,0:1202,0:-108.479,-10.5361,0,-108.479,-10.5361,-108.479 1/1:68:0,68,0:0:0:68,0:2351,0:-211.825,-20.47,0,-211.825,-20.47,-211.825 1/1:70:0,69,0:0:0:69,0:2280,0:-205.096,-20.7711,0,-205.096,-20.7711,-205.096 1/1:134:0,134,0:0:0:134,0:4599,0:-413.826,-40.338,0,-413.826,-40.338,-413.826 1/1:41:0,40,0:0:0:40,0:1380,0:-124.166,-12.0412,0,-124.166,-12.0412,-124.166 1/2:95:0,41,54:0:0:41,54:1405,1934:-272.088,-158.036,-145.694,-114.401,0,-98.1452 1/2:33:0,20,13:0:0:20,13:698,464:-94.952,-38.1841,-32.1635,-57.1216,0,-53.2082 1/2:29:0,18,10:0:0:18,10:622,360:-79.9631,-29.429,-24.0104,-50.5831,0,-47.5728 1/1:63:0,62,0:0:0:62,0:2132,0:-191.618,-18.6639,0,-191.618,-18.6639,-191.618 1/1:29:0,29,0:0:0:29,0:1006,0:-90.8491,-8.72987,0,-90.8491,-8.72987,-90.8491 chr01 13915408 . ACAG CCAA,CCAG 46721.9 PASS AB=0.516995,0.476744;ABP=5.81496,8.26223;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1730,541;CIGAR=1X2M1X,1X3M;DP=2284;DPB=2284;DPRA=0,1.19588;EPP=3759.66,1177.78;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.19048,2.61538;MQM=59.989,60;MQMR=60;NS=21;NUMALT=2;ODDS=15.0166;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59330,19197;QR=36;RO=1;RPL=5,0;RPP=3716.35,1177.78;RPPR=5.18177;RPR=1725,541;RUN=1,1;SAF=5,0;SAP=3716.35,1177.78;SAR=1725,541;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:0,123,5:0:0:123,5:4211,180:-378.822,-37.0267,0,-364.134,-22.3313,-362.629 1/1:68:0,68,0:0:0:68,0:2348,0:-211.578,-20.47,0,-211.578,-20.47,-211.578 1/2:113:0,57,55:0:0:57,55:1954,1960:-318.455,-159.828,-142.669,-158.685,0,-142.129 1/2:127:0,62,63:0:0:62,63:2124,2232:-354.29,-181.876,-163.212,-172.461,0,-153.496 1/2:194:0,105,89:0:0:105,89:3551,3151:-544.875,-257.023,-225.415,-288.198,0,-261.407 1/2:95:0,37,57:0:0:37,57:1300,2052:-273.241,-167.433,-156.295,-105.803,0,-88.6441 1/2:136:0,76,59:0:0:76,59:2584,2112:-381.812,-172.228,-149.35,-209.574,0,-191.813 1/2:165:0,89,76:0:0:89,76:3082,2701:-470.926,-220.455,-193.663,-250.822,0,-227.944 1/1:233:0,232,0:0:0:232,0:7951,0:-715.384,-69.839,0,-715.384,-69.839,-715.384 1/1:12:0,12,0:0:0:12,0:430,0:-39.0402,-3.61236,0,-39.0402,-3.61236,-39.0402 1/2:16:0,8,8:0:0:8,8:280,275:-45.4521,-22.6752,-20.267,-23.1236,0,-20.7153 1/1:15:0,15,0:0:0:15,0:485,0:-43.9605,-4.51545,0,-43.9605,-4.51545,-43.9605 1/1:170:0,168,1:0:0:168,1:5775,36:-519.591,-50.573,0,-516.654,-47.5707,-516.353 1/1:91:0,89,2:0:0:89,2:2992,72:-269.158,-26.7917,0,-263.283,-20.557,-262.68 1/1:191:0,191,0:0:0:191,0:6581,0:-592.4,-57.4967,0,-592.4,-57.4967,-592.4 1/1:80:0,78,0:0:0:78,0:2665,0:-239.778,-23.4803,0,-239.778,-23.4803,-239.778 1/2:72:0,43,29:0:0:43,29:1466,1025:-202.767,-83.8308,-70.8865,-119.284,0,-110.554 1/2:133:0,62,70:0:0:62,70:2159,2452:-375.216,-199.648,-180.984,-175.704,0,-154.632 1/2:67:1,39,27:1:36:39,27:1362,949:-184.784,-74.2977,-65.4953,-107.841,0,-102.651 1/1:135:0,134,0:0:0:134,0:4626,0:-416.287,-40.338,0,-416.287,-40.338,-416.287 1/1:42:0,42,0:0:0:42,0:1404,0:-126.648,-12.6433,0,-126.648,-12.6433,-126.648 chr01 14126257 . T A 18063.2 PASS AB=0.529801;ABP=14.6586;AC=10;AF=0.238095;AN=42;AO=805;CIGAR=1X;DP=2691;DPB=2691;DPRA=1.75;EPP=1751.05;EPPR=4076.7;GTI=1;LEN=1;MEANALT=1.21429;MQM=59.995;MQMR=59.9952;NS=21;NUMALT=1;ODDS=6.77721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28309;QR=66864;RO=1880;RPL=453;RPP=30.5273;RPPR=4.67818;RPR=352;RUN=1;SAF=453;SAP=30.5273;SAR=352;SRF=920;SRP=4.85836;SRR=960;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:121,2:121:4308:2:72:0,-30.19,-381.06 0/0:74:74,0:74:2630:0:0:0,-22.2762,-236.947 0/1:84:33,51:33:1171:51:1815:-138.344,0,-80.4102 0/1:181:81,100:81:2880:100:3521:-262.616,0,-204.949 0/1:154:55,97:55:1965:97:3395:-259.651,0,-131.007 0/1:224:125,99:125:4404:99:3462:-244.365,0,-329.102 0/1:257:127,130:127:4516:130:4547:-332.036,0,-329.244 0/1:175:81,94:81:2880:94:3312:-245.621,0,-206.755 0/0:185:183,1:183:6507:1:36:0,-52.1511,-582.116 0/0:13:12,1:12:432:1:36:0,-0.315115,-35.6229 0/1:9:2,7:2:72:7:244:-19.5902,0,-4.12745 0/0:45:45,0:45:1593:0:0:0,-13.5463,-143.658 0/0:97:97,0:97:3447:0:0:0,-29.1999,-310.442 0/0:91:91,0:91:3251:0:0:0,-27.3937,-292.811 0/0:262:259,1:259:9251:1:36:0,-75.0293,-828.96 0/0:96:96,0:96:3423:0:0:0,-28.8989,-308.284 0/1:74:35,39:35:1221:39:1370:-101.321,0,-87.915 0/1:219:93,126:93:3311:126:4458:-335.469,0,-232.284 0/1:133:76,57:76:2707:57:2005:-140.685,0,-203.837 0/0:111:110,0:110:3899:0:0:0,-33.1133,-350.743 0/0:84:84,0:84:2996:0:0:0,-25.2865,-269.873 chr01 14126281 . C T 20125.3 PASS AB=0.479197;ABP=5.6304;AC=31;AF=0.738095;AN=42;AO=971;CIGAR=1X;DP=1338;DPB=1338;DPRA=0;EPP=2102.83;EPPR=791.278;GTI=0;LEN=1;MEANALT=1;MQM=59.9949;MQMR=60;NS=21;NUMALT=1;ODDS=0.342061;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34626;QR=13138;RO=367;RPL=970;RPP=2102.83;RPPR=791.278;RPR=1;RUN=1;SAF=0;SAP=2111.51;SAR=971;SRF=0;SRP=799.941;SRR=367;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:2,76:2:72:76:2702:-236.585,-16.6436,0 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/1:31:21,10:21:756:10:330:-20.6854,0,-59.0353 0/1:59:34,25:34:1224:25:900:-63.5602,0,-92.7063 0/1:65:42,23:42:1512:23:828:-55.2772,0,-116.808 0/1:44:12,32:12:432:32:1148:-90.3845,0,-25.9759 0/1:102:48,54:48:1701:54:1936:-143.811,0,-122.669 0/1:79:40,39:40:1421:39:1404:-102.878,0,-104.404 1/1:100:0,100:0:0:100:3521:-317.095,-30.103,0 0/1:10:1,9:1:36:9:324:-26.4956,0,-0.587975 0/1:6:4,2:4:144:2:68:-4.65153,0,-11.5074 1/1:20:0,20:0:0:20:705:-63.7728,-6.0206,0 1/1:47:0,47:0:0:47:1680:-151.487,-14.1484,0 1/1:41:0,41:0:0:41:1457:-131.424,-12.3422,0 1/1:170:1,169:1:36:169:6041:-540.195,-47.5768,0 1/1:67:1,66:1:36:66:2376:-210.499,-16.5707,0 0/1:44:24,20:24:860:20:701:-50.1664,0,-64.4765 0/1:165:93,72:93:3336:72:2569:-181.788,0,-250.787 0/1:92:44,48:44:1572:48:1725:-127.841,0,-114.077 1/1:42:0,42:0:0:42:1487:-134.122,-12.6433,0 1/1:43:0,43:0:0:43:1540:-138.893,-12.9443,0 chr01 14229612 . G A 16906 PASS AB=0.476052;ABP=6.44242;AC=32;AF=0.761905;AN=42;AO=829;CIGAR=1X;DP=1192;DPB=1192;DPRA=0;EPP=1803.16;EPPR=791.255;GTI=0;LEN=1;MEANALT=1;MQM=59.9759;MQMR=60;NS=21;NUMALT=1;ODDS=4.88384;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29657;QR=12910;RO=363;RPL=0;RPP=1803.16;RPPR=791.255;RPR=829;RUN=1;SAF=0;SAP=1803.16;SAR=829;SRF=0;SRP=791.255;SRR=363;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:0,63:0:0:63:2245:-202.312,-18.9649,0 1/1:71:0,71:0:0:71:2548:-229.57,-21.3731,0 0/1:78:39,39:39:1400:39:1396:-102.459,0,-102.819 0/1:31:17,14:17:608:14:504:-36.3662,0,-45.7201 0/1:92:58,34:58:2072:34:1224:-82.7723,0,-159.056 0/1:39:24,15:24:860:15:525:-35.8379,0,-65.9817 0/1:83:46,37:46:1626:37:1328:-94.8335,0,-121.642 0/1:61:27,34:27:972:34:1220:-91.744,0,-69.4351 1/1:73:0,73:0:0:73:2628:-236.766,-21.9752,0 1/1:15:0,15:0:0:15:528:-47.8497,-4.51545,0 0/1:16:8,8:8:284:8:288:-21.4509,0,-21.0869 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 1/1:52:1,51:1:36:51:1805:-159.13,-12.0553,0 1/1:68:0,68:0:0:68:2433:-219.224,-20.47,0 1/1:46:1,45:1:36:45:1599:-140.601,-10.2491,0 0/1:44:31,13:31:1089:13:460:-28.4901,0,-85.072 0/1:188:93,95:93:3306:95:3398:-249.44,0,-241.166 0/1:57:18,39:18:621:39:1404:-109.501,0,-39.0523 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 1/1:32:0,32:0:0:32:1136:-102.549,-9.63296,0 chr01 14323456 . C T 13507.4 PASS AB=0.519789;ABP=8.16683;AC=10;AF=0.238095;AN=42;AO=792;CIGAR=1X;DP=2913;DPB=2913;DPRA=1.14208;EPP=1705.49;EPPR=4498.55;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9874;MQMR=59.9589;NS=21;NUMALT=1;ODDS=9.96249;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28217;QR=75696;RO=2118;RPL=790;RPP=1705.49;RPPR=4507.14;RPR=2;RUN=1;SAF=0;SAP=1722.82;SAR=792;SRF=1;SRP=4593.51;SRR=2117;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:151:151,0:151:5393:0:0:0,-45.4555,-485.501 0/0:128:128,0:128:4575:0:0:0,-38.5318,-411.915 0/1:138:71,67:71:2525:67:2408:-175.434,0,-185.958 0/1:210:84,126:84:3008:126:4475:-339.703,0,-207.735 0/1:256:123,133:123:4388:133:4691:-345.282,0,-318.026 0/1:136:65,71:65:2324:71:2548:-188.63,0,-168.48 0/1:232:100,130:100:3583:130:4653:-349.333,0,-253.075 0/1:150:68,82:68:2419:82:2904:-216.441,0,-172.81 0/0:196:195,0:195:6968:0:0:0,-58.7008,-625.636 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/1:16:12,4:12:424:4:144:-8.49714,0,-33.6799 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/0:118:118,0:118:4227:0:0:0,-35.5215,-380.609 0/0:164:163,1:163:5813:1:36:0,-45.7706,-519.686 0/0:290:290,0:290:10362:0:0:0,-87.2987,-932.501 0/0:85:84,1:84:3008:1:36:0,-21.9893,-267.353 0/1:148:74,74:74:2651:74:2634:-192.753,0,-194.283 0/1:132:67,65:67:2388:65:2328:-170.044,0,-175.442 0/1:98:62,36:62:2224:36:1288:-86.7226,0,-170.906 0/0:128:126,2:126:4512:2:72:0,-31.6951,-399.411 0/0:88:88,0:88:3148:0:0:0,-26.4906,-283.546 chr01 14323471 . T A,C 62493.1 PASS AB=0.484344,0.51499;ABP=6.20602,5.93983;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2135,777;CIGAR=1X,1X;DP=2913;DPB=2913;DPRA=0,1.11161;EPP=4639.1,1690.24;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=59.9466,60;MQMR=60;NS=21;NUMALT=2;ODDS=10.5456;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76284,27731;QR=36;RO=1;RPL=2135,777;RPP=4639.1,1690.24;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4639.1,1690.24;SAR=2135,777;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:153:0,153,0:0:0:153,0:5430,0:-488.831,-46.0576,0,-488.831,-46.0576,-488.831 1/1:131:0,131,0:0:0:131,0:4674,0:-420.795,-39.4349,0,-420.795,-39.4349,-420.795 1/2:137:1,70,66:1:36:70,66:2516,2372:-395.532,-190.572,-172.438,-202.322,0,-185.392 1/2:207:0,86,121:0:0:86,121:3074,4280:-599.599,-348.955,-323.066,-251,0,-214.575 1/2:258:0,126,132:0:0:126,132:4495,4721:-751.658,-385.312,-347.382,-366.703,0,-326.967 1/2:131:0,63,68:0:0:63,68:2241,2425:-380.667,-198.034,-179.069,-182.989,0,-162.519 1/2:225:0,99,126:0:0:99,126:3555,4465:-654.085,-364.091,-334.289,-290.351,0,-252.421 1/2:150:0,68,82:0:0:68,82:2435,2936:-438.361,-239.79,-219.32,-198.929,0,-174.245 1/1:200:0,200,0:0:0:200,0:7160,0:-644.261,-60.206,0,-644.261,-60.206,-644.261 1/1:20:0,20,0:0:0:20,0:716,0:-64.7677,-6.0206,0,-64.7677,-6.0206,-64.7677 1/2:15:0,11,4:0:0:11,4:377,140:-42.3392,-11.7405,-8.42913,-30.9466,0,-29.7425 1/1:28:0,28,0:0:0:28,0:996,0:-89.9549,-8.42884,0,-89.9549,-8.42884,-89.9549 1/1:121:0,121,0:0:0:121,0:4314,0:-388.434,-36.4246,0,-388.434,-36.4246,-388.434 1/1:162:0,161,1:0:0:161,1:5757,36:-517.885,-48.4658,0,-514.947,-45.1686,-514.646 1/1:297:0,297,0:0:0:297,0:10640,0:-957.509,-89.4059,0,-957.509,-89.4059,-957.509 1/1:85:0,84,1:0:0:84,1:2974,36:-267.531,-25.2865,0,-264.594,-21.9893,-264.293 1/2:148:0,76,72:0:0:76,72:2724,2580:-432.942,-210.775,-187.897,-222.525,0,-200.851 1/2:133:0,66,67:0:0:66,67:2346,2408:-387.981,-196.807,-176.939,-191.531,0,-171.362 1/2:97:0,62,35:0:0:62,35:2232,1260:-285.272,-103.169,-84.5056,-182.462,0,-171.926 1/1:127:0,125,2:0:0:125,2:4488,72:-403.728,-37.6288,0,-397.853,-31.3941,-397.251 1/1:88:0,88,0:0:0:88,0:3140,0:-282.827,-26.4906,0,-282.827,-26.4906,-282.827 chr01 14323480 . A T 45318.9 PASS AB=0.48622;ABP=5.52374;AC=32;AF=0.761905;AN=42;AO=2161;CIGAR=1X;DP=2949;DPB=2949;DPRA=0;EPP=4695.56;EPPR=1705.44;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9472;MQMR=59.9872;NS=21;NUMALT=1;ODDS=12.1855;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77469;QR=28082;RO=784;RPL=2161;RPP=4695.56;RPPR=1705.44;RPR=0;RUN=1;SAF=0;SAP=4695.56;SAR=2161;SRF=0;SRP=1705.44;SRR=784;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:157:0,157:0:0:157:5624:-506.281,-47.2617,0 1/1:131:0,131:0:0:131:4689:-422.145,-39.4349,0 0/1:138:67,71:67:2408:71:2548:-188.028,0,-175.434 0/1:209:123,86:123:4404:86:3080:-214.513,0,-333.615 0/1:263:137,126:137:4897:126:4524:-328.069,0,-361.705 0/1:137:70,67:70:2489:67:2393:-174.384,0,-183.021 0/1:232:125,106:125:4488:106:3781:-270.586,0,-334.19 0/1:149:78,68:78:2792:68:2444:-175.9,0,-207.21 1/1:199:0,199:0:0:199:7125:-640.118,-59.905,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 0/1:15:4,11:4:144:11:381:-30.1052,0,-8.79817 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 1/1:122:0,122:0:0:122:4384:-394.732,-36.7257,0 1/1:167:1,166:1:36:166:5972:-533.985,-46.6737,0 1/1:299:0,299:0:0:299:10721:-964.792,-90.008,0 1/1:84:1,83:1:36:83:2972:-264.115,-21.6882,0 0/1:149:74,75:74:2660:75:2696:-198.03,0,-194.792 0/1:134:67,67:67:2400:67:2408:-176.638,0,-175.919 0/1:98:34,64:34:1220:64:2290:-176.842,0,-80.6059 1/1:128:2,126:2:72:126:4521:-400.218,-31.6951,0 1/1:88:1,87:1:36:87:3116:-277.068,-22.8924,0 chr01 14549830 . AGTC CGTT,CGTC 47553.5 PASS AB=0.499049,0.494297;ABP=3.01856,3.30754;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1719,529;CIGAR=1X2M1X,1X3M;DP=2267;DPB=2267;DPRA=0,0.824182;EPP=3735.77,1151.72;EPPR=7.35324;GTI=0;LEN=4,1;MEANALT=2.38095,2.42857;MQM=59.6225,59.9093;MQMR=60;NS=21;NUMALT=2;ODDS=1.95209;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60492,18881;QR=72;RO=2;RPL=0,0;RPP=3735.77,1151.72;RPPR=7.35324;RPR=1719,529;RUN=1,1;SAF=1719,529;SAP=3735.77,1151.72;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,100,0:0:0:100,0:3479,0:-313.289,-30.103,0,-313.289,-30.103,-313.289 1/1:145:0,144,1:0:0:144,1:5127,36:-461.192,-43.3483,0,-458.255,-40.0511,-457.954 1/2:84:0,53,31:0:0:53,31:1863,1108:-242.335,-90.6991,-74.7445,-151.991,0,-142.659 1/2:127:0,61,66:0:0:61,66:2140,2364:-367.288,-193.15,-174.788,-174.492,0,-154.624 1/2:184:2,81,98:2:72:81,98:2869,3520:-514.382,-281.28,-262.772,-227.837,0,-204.211 1/2:167:0,68,99:0:0:68,99:2410,3548:-485.978,-289.718,-269.248,-196.616,0,-166.814 1/2:158:0,80,78:0:0:80,78:2834,2764:-456.19,-225.331,-201.249,-231.212,0,-207.732 1/2:81:0,31,50:0:0:31,50:1079,1769:-232.165,-144.435,-135.103,-88.0802,0,-73.0287 1/1:210:0,208,0:0:0:208,0:7326,0:-659.026,-62.6142,0,-659.026,-62.6142,-659.026 1/1:37:0,35,1:0:0:35,1:1234,36:-111.029,-10.5361,0,-108.091,-7.56863,-107.79 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/1:41:0,40,0:0:0:40,0:1406,0:-126.534,-12.0412,0,-126.534,-12.0412,-126.534 1/1:149:0,149,0:0:0:149,0:5219,0:-469.818,-44.8535,0,-469.818,-44.8535,-469.818 1/1:125:0,123,0:0:0:123,0:4314,0:-388.08,-37.0267,0,-388.08,-37.0267,-388.08 1/1:162:0,161,0:0:0:161,0:5697,0:-512.278,-48.4658,0,-512.278,-48.4658,-512.278 1/1:69:0,64,0:0:0:64,0:2249,0:-202.303,-19.2659,0,-202.303,-19.2659,-202.303 1/2:37:0,10,27:0:0:10,27:360,972:-109.044,-79.6701,-76.6598,-29.734,0,-21.6062 1/2:123:0,74,48:0:0:74,48:2565,1711:-348.051,-139.595,-117.319,-208.577,0,-194.127 1/2:86:0,63,22:0:0:63,22:2195,769:-241.174,-62.6816,-43.7167,-178.617,0,-171.994 1/1:117:0,111,6:0:0:111,6:3921,212:-352.703,-33.4143,0,-335.438,-15.7957,-333.632 1/1:60:0,59,1:0:0:59,1:2061,36:-185.37,-17.7608,0,-182.432,-14.4635,-182.131 chr01 14616860 . TGTGG CGTGG,CGTGT 80641.9 PASS AB=0.498101,0.493827;ABP=3.07629,3.70732;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2759,1047;CIGAR=1X4M,1X3M1X;DP=3839;DPB=3839;DPRA=0,1.7716;EPP=5924.82,2267.86;EPPR=7.35324;GTI=0;LEN=1,5;MEANALT=3,3.85714;MQM=59.9993,59.9761;MQMR=60;NS=21;NUMALT=2;ODDS=8.37469;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=98257,36429;QR=63;RO=2;RPL=7,1;RPP=5933.46,2267.86;RPPR=7.35324;RPR=2752,1046;RUN=1,1;SAF=2758,1047;SAP=5985.42,2276.54;SAR=1,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:118:0,118,0:0:0:118,0:4200,0:-378.184,-35.5215,0,-378.184,-35.5215,-378.184 1/1:83:0,83,0:0:0:83,0:2948,0:-265.555,-24.9855,0,-265.555,-24.9855,-265.555 1/2:110:0,60,50:0:0:60,50:2127,1759:-316.823,-143.54,-125.478,-173.636,0,-158.585 1/2:108:0,51,57:0:0:51,57:1808,1968:-307.531,-160.235,-144.882,-147.646,0,-130.488 1/2:234:1,135,95:1:36:135,95:4807,3279:-654.972,-263.473,-225.772,-388.886,0,-363.225 1/2:113:0,51,62:0:0:51,62:1823,2140:-322.847,-174.201,-158.849,-148.998,0,-130.334 1/2:143:0,72,70:0:0:72,70:2546,2412:-403.282,-195.914,-174.24,-207.367,0,-186.295 1/2:90:0,45,45:0:0:45,45:1608,1559:-258.162,-127.051,-113.504,-131.463,0,-117.917 1/1:229:0,223,1:0:0:223,1:7938,36:-714.138,-67.1297,0,-711.201,-64.1823,-710.9 1/1:423:0,415,3:0:0:415,3:14802,98:-1331.58,-124.927,0,-1323.67,-117.02,-1322.77 1/2:742:0,375,362:0:0:375,362:13338,12562:-2108.16,-1021.17,-908.285,-1087.06,0,-978.083 1/1:299:0,298,0:0:0:298,0:10645,0:-957.602,-89.7069,0,-957.602,-89.7069,-957.602 1/1:108:0,107,0:0:0:107,0:3786,0:-340.582,-32.2102,0,-340.582,-32.2102,-340.582 1/1:130:1,129,0:1:27:129,0:4598,0:-411.285,-36.4341,0,-411.586,-38.8329,-413.715 1/1:132:0,130,1:0:0:130,1:4634,35:-416.869,-39.1339,0,-414.021,-36.2911,-413.72 1/1:104:0,100,2:0:0:100,2:3568,72:-320.993,-30.103,0,-315.118,-24.2032,-314.516 1/2:99:0,48,51:0:0:48,51:1702,1795:-285.141,-146.478,-132.029,-139.016,0,-123.663 1/2:428:0,189,232:0:0:189,232:6751,8151:-1213.85,-663.439,-606.544,-550.426,0,-480.587 1/2:39:0,23,16:0:0:23,16:812,563:-112.308,-46.1834,-39.2597,-66.4772,0,-61.6607 1/1:82:0,82,0:0:0:82,0:2920,0:-263.036,-24.6845,0,-263.036,-24.6845,-263.036 1/1:25:0,25,0:0:0:25,0:896,0:-80.9604,-7.52575,0,-80.9604,-7.52575,-80.9604 chr01 14726040 . TA CT,TT 41834.4 PASS AB=0.545006,0.452528;ABP=17.2788,18.8853;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1618,372;CIGAR=2X,1M1X;DP=1994;DPB=1994;DPRA=0,1.08511;EPP=3516.45,810.798;EPPR=5.18177;GTI=1;LEN=2,1;MEANALT=1.66667,2.18182;MQM=59.9363,60;MQMR=60;NS=21;NUMALT=2;ODDS=4.25937;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56363,13098;QR=36;RO=1;RPL=1618,372;RPP=3516.45,810.798;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3516.45,810.798;SAR=1618,372;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:164:0,160,4:0:0:160,4:5550,144:-499.26,-48.1648,0,-487.51,-36.0553,-486.306 1/1:22:0,22,0:0:0:22,0:768,0:-69.4382,-6.62266,0,-69.4382,-6.62266,-69.4382 1/1:90:0,90,0:0:0:90,0:3147,0:-283.453,-27.0927,0,-283.453,-27.0927,-283.453 1/2:82:0,37,45:0:0:37,45:1298,1604:-236.731,-131.104,-119.966,-105.981,0,-92.4345 1/2:204:0,116,88:0:0:116,88:4027,3089:-579.097,-251.746,-216.827,-327.7,0,-301.21 1/2:98:0,40,58:0:0:40,58:1389,2053:-280.492,-167.58,-155.539,-113.261,0,-95.8015 1/2:135:1,80,53:1:36:80,53:2767,1873:-374.169,-149.648,-128.503,-221.928,0,-208.911 1/2:66:0,34,32:0:0:34,32:1193,1076:-184.598,-87.5032,-77.2682,-97.4381,0,-87.8051 1/1:204:0,204,0:0:0:204,0:7098,0:-638.873,-61.4101,0,-638.873,-61.4101,-638.873 1/1:14:0,14,0:0:0:14,0:485,0:-43.9781,-4.21442,0,-43.9781,-4.21442,-43.9781 1/2:4:0,3,1:0:0:3,1:97,36:-11.0935,-3.29724,-2.39415,-8.1469,0,-7.84587 1/2:32:0,20,12:0:0:20,12:695,432:-92.0949,-35.6088,-29.5882,-56.8412,0,-53.2288 1/1:73:0,73,0:0:0:73,0:2571,0:-231.639,-21.9752,0,-231.639,-21.9752,-231.639 1/1:129:0,128,0:0:0:128,0:4385,0:-394.468,-38.5318,0,-394.468,-38.5318,-394.468 1/1:184:0,184,0:0:0:184,0:6424,0:-578.252,-55.3895,0,-578.252,-55.3895,-578.252 1/1:61:0,61,0:0:0:61,0:2166,0:-195.205,-18.3628,0,-195.205,-18.3628,-195.205 1/1:51:0,51,0:0:0:51,0:1775,0:-160.029,-15.3525,0,-160.029,-15.3525,-160.029 1/2:102:0,49,53:0:0:49,53:1719,1884:-293.772,-153.884,-139.134,-140.241,0,-124.287 1/2:88:0,63,25:0:0:63,25:2225,875:-252.732,-71.5389,-52.574,-181.544,0,-174.018 1/1:110:0,108,1:0:0:108,1:3757,32:-338.046,-32.5112,0,-335.468,-29.8879,-335.167 1/1:81:0,81,0:0:0:81,0:2827,0:-254.668,-24.3834,0,-254.668,-24.3834,-254.668 chr01 14735470 . C G 9322.41 PASS AB=0.545272;ABP=20.7054;AC=9;AF=0.214286;AN=42;AO=551;CIGAR=1X;DP=2266;DPB=2266;DPRA=1.17356;EPP=1199.49;EPPR=3722.74;GTI=0;LEN=1;MEANALT=1.14286;MQM=57.6352;MQMR=59.972;NS=21;NUMALT=1;ODDS=0.977606;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19671;QR=61166;RO=1713;RPL=551;RPP=1199.49;RPPR=3714.06;RPR=0;RUN=1;SAF=551;SAP=1199.49;SAR=0;SRF=1712;SRP=3714.06;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:172:171,1:171:6121:1:36:0,-48.1789,-547.26 0/0:106:106,0:106:3808:0:0:0,-31.9092,-342.916 0/0:98:97,1:97:3468:1:36:0,-25.9027,-308.734 0/1:104:44,60:44:1584:60:2156:-162.993,0,-111.544 0/1:261:114,146:114:4047:146:5186:-387.677,0,-285.79 0/1:137:52,85:52:1864:85:3027:-230.909,0,-126.798 0/1:223:114,109:114:4056:109:3909:-284.263,0,-298.097 0/1:130:51,79:51:1802:79:2820:-214.478,0,-123.324 0/0:187:187,0:187:6704:0:0:0,-56.2926,-603.431 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:6:4,2:4:144:2:72:-5.02729,0,-11.5074 0/1:29:17,12:17:612:12:432:-30.4867,0,-46.6836 0/0:122:122,0:122:4375:0:0:0,-36.7257,-393.922 0/0:107:107,0:107:3813:0:0:0,-32.2102,-343.367 0/0:172:171,1:171:6096:1:36:0,-48.1789,-545.14 0/0:99:99,0:99:3517:0:0:0,-29.802,-316.74 0/0:78:76,1:76:2706:1:36:0,-19.9409,-240.183 0/1:48:16,32:16:563:32:1133:-85.6664,0,-36.5497 0/1:56:39,17:39:1391:17:612:-38.5548,0,-108.631 0/0:75:70,5:70:2497:5:180:0,-6.03576,-208.44 0/0:52:52,0:52:1854:0:0:0,-15.6536,-167.138 chr01 14735482 . CAA TAA,TAG 48329.9 PASS AB=0.446916,0.551062;ABP=27.2171,25.4079;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1693,554;CIGAR=1X2M,1X1M1X;DP=2252;DPB=2252.33;DPRA=0,1.02368;EPP=3679.31,1206.01;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.90476,2.28571;MQM=59.9817,57.6625;MQMR=0;NS=21;NUMALT=2;ODDS=0.0460918;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=60366,19570;QR=0;RO=0;RPL=1692,554;RPP=3670.63,1206.01;RPPR=0;RPR=1,0;RUN=1,1;SAF=1692,554;SAP=3670.63,1206.01;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:168:0,166,1:0:0:166,1:5921,36:-532.637,-49.971,0,-529.699,-47.0336,-529.398 1/1:108:0,106,1:0:0:106,1:3772,28:-339.402,-31.9092,0,-337.184,-29.6855,-336.883 1/1:97:0,96,1:0:0:96,1:3417,36:-307.381,-28.8989,0,-304.444,-25.6016,-304.143 1/2:103:0,42,60:0:0:42,60:1511,2108:-294.987,-171.701,-159.058,-123.428,0,-105.366 1/2:263:0,114,149:0:0:114,149:4047,5259:-758.011,-428.265,-393.948,-330.041,0,-285.187 1/2:136:0,52,84:0:0:52,84:1864,2984:-395.013,-242.984,-227.331,-152.386,0,-127.099 1/2:222:0,111,110:0:0:111,110:3945,3895:-638.265,-316.793,-283.378,-321.518,0,-288.405 1/2:129:0,50,79:0:0:50,79:1791,2795:-373.601,-227.537,-212.485,-146.42,0,-122.639 1/1:189:0,189,0:0:0:189,0:6727,0:-605.495,-56.8947,0,-605.495,-56.8947,-605.495 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:6:0,4,2:0:0:4,2:144,69:-17.7078,-5.94804,-4.74392,-12.1095,0,-11.5074 1/2:29:0,16,13:0:0:16,13:548,456:-81.8054,-37.3246,-32.5081,-44.827,0,-40.9136 1/1:122:0,122,0:0:0:122,0:4363,0:-392.844,-36.7257,0,-392.844,-36.7257,-392.844 1/1:104:0,104,0:0:0:104,0:3724,0:-335.36,-31.3071,0,-335.36,-31.3071,-335.36 1/1:171:0,171,0:0:0:171,0:6096,0:-548.713,-51.4761,0,-548.713,-51.4761,-548.713 1/1:97:0,96,0:0:0:96,0:3420,0:-307.654,-28.8989,0,-307.654,-28.8989,-307.654 1/1:77:0,76,1:0:0:76,1:2715,36:-244.229,-22.8783,0,-241.292,-19.581,-240.991 1/2:47:0,16,31:0:0:16,31:567,1090:-133.193,-86.9998,-82.1834,-46.5442,0,-37.2123 1/2:54:0,37,17:0:0:37,17:1328,600:-157.539,-49.2099,-38.0718,-108.684,0,-103.567 1/1:74:0,69,5:0:0:69,5:2471,178:-222.287,-20.7711,0,-207.789,-5.91689,-206.284 1/1:52:0,52,0:0:0:52,0:1851,0:-166.869,-15.6536,0,-166.869,-15.6536,-166.869 chr01 14735573 . G A 11674.2 PASS AB=0.528053;ABP=11.2949;AC=10;AF=0.238095;AN=42;AO=658;CIGAR=1X;DP=2865;DPB=2865;DPRA=1.15477;EPP=1363.2;EPPR=4610.44;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8541;MQMR=59.9519;NS=21;NUMALT=1;ODDS=2.88507;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23587;QR=78078;RO=2205;RPL=650;RPP=1363.2;RPPR=4610.44;RPR=8;RUN=1;SAF=0;SAP=1431.84;SAR=658;SRF=0;SRP=4791.11;SRR=2205;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:86:86,0:86:3033:0:0:0,-25.8886,-273.201 0/0:94:94,0:94:3316:0:0:0,-28.2968,-298.66 0/0:169:168,1:168:5961:1:36:0,-47.2758,-533.004 0/1:143:72,71:72:2559:71:2544:-186.135,0,-187.513 0/1:282:120,162:120:4257:162:5796:-436.853,0,-298.42 0/1:162:74,88:74:2609:88:3168:-236.57,0,-186.291 0/1:240:109,131:109:3875:131:4684:-348.836,0,-276.7 0/1:86:38,48:38:1350:48:1719:-129.106,0,-95.9102 0/0:278:277,1:277:9738:1:36:0,-80.0881,-871.427 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 1/1:12:0,12:0:0:12:432:-39.2203,-3.61236,0 0/1:39:20,19:20:712:19:684:-50.1502,0,-52.6665 0/0:84:84,0:84:2966:0:0:0,-25.2865,-267.175 0/0:158:158,0:158:5581:0:0:0,-47.5627,-502.41 0/0:319:319,0:319:11325:0:0:0,-96.0286,-1018.37 0/0:105:105,0:105:3730:0:0:0,-31.6081,-335.633 0/0:124:123,0:123:4345:0:0:0,-37.0267,-390.966 0/1:191:93,98:93:3288:98:3516:-259.148,0,-238.644 0/1:69:46,23:46:1632:23:828:-54.073,0,-126.398 0/0:123:120,3:120:4287:3:108:0,-26.9515,-375.933 0/0:75:73,1:73:2582:1:36:0,-18.9629,-229.101 chr01 14737897 . A G 70395.5 PASS AB=0.546774;ABP=26.5743;AC=33;AF=0.785714;AN=42;AO=2580;CIGAR=1X;DP=3150;DPB=3150;DPRA=0;EPP=5605.41;EPPR=1236.41;GTI=1;LEN=1;MEANALT=1.09524;MQM=57.0295;MQMR=56.1004;NS=21;NUMALT=1;ODDS=5.27504;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91662;QR=20274;RO=568;RPL=1313;RPP=4.79124;RPPR=3.3926;RPR=1267;RUN=1;SAF=1313;SAP=4.79124;SAR=1267;SRF=289;SRP=3.3926;SRR=279;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:171:0,171:0:0:171:6047:-543.359,-51.4761,0 1/1:145:3,142:3:104:142:5059:-443.036,-33.9465,0 1/1:122:0,122:0:0:122:4323:-388.998,-36.7257,0 0/1:115:44,70:44:1576:70:2456:-185.609,0,-107.247 0/1:242:106,136:106:3800:136:4856:-364.152,0,-268.105 0/1:104:59,45:59:2103:45:1608:-113.199,0,-156.95 0/1:164:88,76:88:3144:76:2685:-192.029,0,-232.439 0/1:166:76,90:76:2719:90:3167:-234.8,0,-193.535 1/1:252:0,252:0:0:252:8961:-803.844,-75.8596,0 1/1:28:0,27:0:0:27:963:-86.4411,-8.12781,0 0/1:9:2,7:2:72:7:248:-19.7623,0,-4.12745 0/1:49:23,26:23:824:26:917:-68.0394,0,-59.5008 1/1:191:2,189:2:72:189:6736:-598.532,-50.66,0 1/1:185:0,185:0:0:185:6590:-592.339,-55.6906,0 1/1:297:0,297:0:0:297:10546:-948.523,-89.4059,0 1/1:98:0,98:0:0:98:3493:-314.274,-29.5009,0 1/1:122:0,122:0:0:122:4339:-390.03,-36.7257,0 0/1:211:102,109:102:3613:109:3894:-286.293,0,-259.531 0/1:180:61,119:61:2175:119:4220:-325.148,0,-141.385 1/1:197:1,196:1:36:196:6966:-620.879,-55.7097,0 1/1:102:1,101:1:36:101:3588:-318.437,-27.1068,0 chr01 14737900 . C T 12056 PASS AB=0.448914;ABP=31.187;AC=9;AF=0.214286;AN=42;AO=563;CIGAR=1X;DP=3159;DPB=3159;DPRA=0.95489;EPP=1225.55;EPPR=5631.47;GTI=1;LEN=1;MEANALT=1.07692;MQM=56.2327;MQMR=57.039;NS=21;NUMALT=1;ODDS=5.35615;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19896;QR=91490;RO=2592;RPL=280;RPP=3.04501;RPPR=6.02623;RPR=283;RUN=1;SAF=280;SAP=3.04501;SAR=283;SRF=1326;SRP=6.02623;SRR=1266;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:171:170,0:170:5914:0:0:0,-51.1751,-530.607 0/0:147:147,0:147:5241:0:0:0,-44.2514,-469.317 0/0:119:118,0:118:4178:0:0:0,-35.5215,-375.707 0/1:115:69,45:69:2388:45:1595:-108.958,0,-179.947 0/1:249:138,111:138:4874:111:3919:-277.074,0,-362.85 0/1:103:44,59:44:1567:59:2112:-158.358,0,-109.727 0/1:167:77,90:77:2747:90:3163:-233.575,0,-196.518 0/1:165:94,71:94:3270:71:2496:-174.478,0,-243.689 0/0:254:254,0:254:8964:0:0:0,-76.4616,-804.386 0/0:28:28,0:28:991:0:0:0,-8.42884,-89.4032 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.1892 0/1:48:26,22:26:906:22:774:-55.4793,0,-67.3588 0/0:195:193,2:193:6851:2:72:0,-51.8641,-608.919 0/0:186:185,1:185:6569:1:35:0,-52.5706,-587.06 0/0:299:299,0:299:10559:0:0:0,-90.008,-949.749 0/0:100:99,0:99:3509:0:0:0,-29.802,-315.414 0/0:120:120,0:120:4224:0:0:0,-36.1236,-378.731 0/1:207:109,98:109:3839:98:3468:-248.329,0,-282.656 0/1:181:121,60:121:4210:60:2118:-135.961,0,-324.159 0/0:192:191,1:191:6805:1:36:0,-54.2046,-606.576 0/0:105:104,1:104:3668:1:36:0,-28.0099,-324.8 chr01 14737935 . CGC TGC,TGG 34277.1 PASS AB=0.520701,0.476115;ABP=5.34774,6.12228;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1279,302;CIGAR=1X2M,1X1M1X;DP=1587;DPB=1587;DPRA=0,0.741627;EPP=2762.98,650.138;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.80952,2.18182;MQM=59.9593,59.6755;MQMR=0;NS=21;NUMALT=2;ODDS=0.453144;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45600,10502;QR=0;RO=0;RPL=1277,301;RPP=2762.98,650.138;RPPR=0;RPR=2,1;RUN=1,1;SAF=0,0;SAP=2780.32,658.795;SAR=1279,302;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:0,89,0:0:0:89,0:3192,0:-287.098,-26.7917,0,-287.098,-26.7917,-287.098 1/1:81:0,81,0:0:0:81,0:2859,0:-257.546,-24.3834,0,-257.546,-24.3834,-257.546 1/1:63:0,63,0:0:0:63,0:2239,0:-201.773,-18.9649,0,-201.773,-18.9649,-201.773 1/2:59:0,27,31:0:0:27,31:959,1069:-165.126,-86.9769,-78.8491,-78.2921,0,-68.9601 1/2:115:0,70,44:0:0:70,44:2503,1541:-329.46,-125.363,-104.291,-204.091,0,-190.845 1/2:29:0,12,17:0:0:12,17:424,601:-83.8327,-49.3019,-45.6895,-34.8841,0,-29.7665 1/2:95:0,40,55:0:0:40,55:1424,1900:-270.701,-154.636,-142.595,-116.416,0,-99.8596 1/2:101:0,50,51:0:0:50,51:1800,1763:-290.471,-143.594,-128.543,-147.229,0,-131.877 1/1:126:0,126,0:0:0:126,0:4501,0:-405.259,-37.9298,0,-405.259,-37.9298,-405.259 1/1:18:0,18,0:0:0:18,0:640,0:-57.9293,-5.41854,0,-57.9293,-5.41854,-57.9293 1/2:8:0,6,2:0:0:6,2:212,72:-23.4951,-6.23466,-4.42848,-17.6186,0,-17.0166 1/2:31:0,17,14:0:0:17,14:600,493:-89.3471,-40.4878,-35.3702,-49.2117,0,-44.9973 1/1:45:0,43,2:0:0:43,2:1540,72:-138.533,-12.9443,0,-132.658,-6.70963,-132.056 1/1:132:0,132,0:0:0:132,0:4709,0:-423.969,-39.736,0,-423.969,-39.736,-423.969 1/1:209:0,207,0:0:0:207,0:7360,0:-662.08,-62.3132,0,-662.08,-62.3132,-662.08 1/1:48:0,47,0:0:0:47,0:1688,0:-151.847,-14.1484,0,-151.847,-14.1484,-151.847 1/1:37:0,37,0:0:0:37,0:1328,0:-119.716,-11.1381,0,-119.716,-11.1381,-119.716 1/2:129:0,62,67:0:0:62,67:2212,2346:-371.553,-191.225,-172.561,-180.681,0,-160.512 1/2:61:0,43,18:0:0:43,18:1519,609:-173.413,-49.6975,-36.7533,-124.058,0,-118.64 1/1:70:0,70,0:0:0:70,0:2496,0:-224.893,-21.0721,0,-224.893,-21.0721,-224.893 1/1:40:0,39,1:0:0:39,1:1395,36:-125.488,-11.7402,0,-122.551,-8.44293,-122.25 chr01 14737945 . A C 27336 PASS AB=0.521173;ABP=5.40104;AC=33;AF=0.785714;AN=42;AO=1274;CIGAR=1X;DP=1569;DPB=1569;DPRA=0;EPP=2769.47;EPPR=641.423;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9537;MQMR=59.6667;NS=21;NUMALT=1;ODDS=0.60205;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45379;QR=10481;RO=294;RPL=1274;RPP=2769.47;RPPR=641.423;RPR=0;RUN=1;SAF=0;SAP=2769.47;SAR=1274;SRF=0;SRP=641.423;SRR=294;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,89:0:0:89:3178:-286.2,-26.7917,0 1/1:82:0,82:0:0:82:2936:-264.472,-24.6845,0 1/1:62:0,62:0:0:62:2215:-199.614,-18.6639,0 0/1:55:29,26:29:1036:26:928:-67.2816,0,-76.9973 0/1:113:42,70:42:1504:70:2495:-190.728,0,-101.539 0/1:29:17,12:17:608:12:432:-30.4913,0,-46.3222 0/1:97:54,43:54:1920:43:1536:-109.333,0,-143.642 0/1:95:50,45:50:1796:45:1597:-115.421,0,-133.311 1/1:123:0,123:0:0:123:4361:-392.663,-37.0267,0 1/1:17:0,17:0:0:17:607:-54.9616,-5.11751,0 0/1:7:2,5:2:72:5:171:-13.6182,0,-4.72951 0/1:31:13,18:13:452:18:629:-47.6018,0,-31.6792 1/1:42:0,42:0:0:42:1508:-136.015,-12.6433,0 1/1:136:1,135:1:36:135:4813:-429.727,-37.3418,0 1/1:207:0,207:0:0:207:7375:-663.798,-62.3132,0 1/1:49:0,49:0:0:49:1756:-158.324,-14.7505,0 1/1:38:0,38:0:0:38:1353:-121.963,-11.4391,0 0/1:130:68,62:68:2435:62:2196:-158.772,0,-180.253 0/1:57:18,39:18:622:39:1377:-107.069,0,-39.1065 1/1:70:0,70:0:0:70:2500:-225.253,-21.0721,0 1/1:40:0,40:0:0:40:1416:-127.737,-12.0412,0 chr01 14758772 . C T 3021.2 PASS AB=0.375661;ABP=79.1497;AC=8;AF=0.190476;AN=42;AO=216;CIGAR=1X;DP=1656;DPB=1656;DPRA=0.988991;EPP=472.048;EPPR=3125.59;GTI=1;LEN=1;MEANALT=1.2;MQM=53.1944;MQMR=54.5591;NS=21;NUMALT=1;ODDS=8.05209;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7726;QR=51476;RO=1438;RPL=0;RPP=472.048;RPPR=3125.59;RPR=216;RUN=1;SAF=216;SAP=472.048;SAR=0;SRF=1438;SRP=3125.59;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:176:176,0:176:6276:0:0:0,-52.9813,-562.31 0/0:74:74,0:74:2652:0:0:0,-22.2762,-237.1 0/0:49:49,0:49:1751:0:0:0,-14.7505,-157.626 0/1:54:34,20:34:1216:20:716:-48.3686,0,-93.405 0/1:164:109,55:109:3916:55:1980:-128.88,0,-302.5 0/1:86:52,34:52:1864:34:1209:-82.4096,0,-141.372 0/1:70:41,29:41:1468:29:1028:-71.5379,0,-110.473 0/1:75:41,33:41:1468:33:1188:-84.0113,0,-109.607 0/0:125:124,1:124:4448:1:21:0,-35.5617,-398.095 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2947 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2801 0/1:6:4,2:4:144:2:72:-5.0171,0,-11.4886 0/0:151:151,0:151:5416:0:0:0,-45.4555,-486.605 0/0:62:62,0:62:2228:0:0:0,-18.6639,-200.19 0/0:131:131,0:131:4683:0:0:0,-39.4349,-420.627 0/0:83:83,0:83:2972:0:0:0,-24.9855,-267.123 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.168 0/1:43:19,24:19:667:24:864:-64.2811,0,-47.1736 0/1:69:52,16:52:1860:16:576:-31.3707,0,-146.33 0/0:92:90,2:90:3220:2:72:0,-20.8677,-282.023 0/0:72:72,0:72:2571:0:0:0,-21.6742,-229.73 chr01 14758781 . TATA GATG,GATA 35956.3 PASS AB=0.617133,0.377622;ABP=71.1763,77.4174;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1446,219;CIGAR=1X2M1X,1X3M;DP=1670;DPB=1670;DPRA=0,0.9875;EPP=3142.96,478.563;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.66667,2.3;MQM=54.4647,53.1826;MQMR=0;NS=21;NUMALT=2;ODDS=7.89815;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51214,7805;QR=0;RO=0;RPL=0,0;RPP=3142.96,478.563;RPPR=0;RPR=1446,219;RUN=1,1;SAF=1446,219;SAP=3142.96,478.563;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:178:0,176,0:0:0:176,0:6221,0:-557.095,-52.9813,0,-557.095,-52.9813,-557.095 1/1:74:0,74,0:0:0:74,0:2621,0:-235.177,-22.2762,0,-235.177,-22.2762,-235.177 1/1:49:0,49,0:0:0:49,0:1724,0:-155.22,-14.7505,0,-155.22,-14.7505,-155.22 1/2:53:0,34,19:0:0:34,19:1198,684:-153.45,-55.9993,-45.7642,-97.8069,0,-92.0873 1/2:165:0,107,57:0:0:107,57:3813,2021:-474.699,-164.497,-132.287,-310.2,0,-293.041 1/2:89:0,54,35:0:0:54,35:1884,1252:-254.071,-101.627,-85.3712,-152.796,0,-142.26 1/2:71:0,41,30:0:0:41,30:1451,1063:-204.025,-86.6907,-74.3485,-117.687,0,-108.656 1/2:75:0,41,33:0:0:41,33:1461,1171:-213.755,-94.9681,-82.6258,-118.858,0,-108.924 1/1:126:0,125,1:0:0:125,1:4436,32:-398.8,-37.6288,0,-396.492,-35.0307,-396.191 1/1:4:0,4,0:0:0:4,0:143,0:-13.2035,-1.20412,0,-13.2035,-1.20412,-13.2035 1/1:4:0,4,0:0:0:4,0:144,0:-13.2801,-1.20412,0,-13.2801,-1.20412,-13.2801 1/2:6:0,4,2:0:0:4,2:144,72:-17.9527,-6.22122,-5.0171,-12.0906,0,-11.4886 1/1:154:0,154,0:0:0:154,0:5472,0:-491.524,-46.3586,0,-491.524,-46.3586,-491.524 1/1:63:0,63,0:0:0:63,0:2230,0:-200.326,-18.9649,0,-200.326,-18.9649,-200.326 1/1:132:0,132,0:0:0:132,0:4663,0:-419.168,-39.736,0,-419.168,-39.736,-419.168 1/1:83:0,83,0:0:0:83,0:2935,0:-264,-24.9855,0,-264,-24.9855,-264 1/1:66:0,66,0:0:0:66,0:2336,0:-210.299,-19.868,0,-210.299,-19.868,-210.299 1/2:43:0,19,23:0:0:19,23:668,826:-120.998,-66.8324,-61.1129,-54.2364,0,-47.3127 1/2:70:0,53,17:0:0:53,17:1888,612:-203.036,-50.256,-34.3014,-153.138,0,-148.02 1/1:92:0,90,2:0:0:90,2:3197,72:-286.393,-27.0927,0,-280.527,-20.8677,-279.925 1/1:73:0,73,0:0:0:73,0:2585,0:-231.311,-21.9752,0,-231.311,-21.9752,-231.311 chr01 14759090 . 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GATATTAC GATCTTAT,AATCTTAC 31244.8 PASS AB=0.45706,0.52984;ABP=14.0131,8.32361;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1172,364;CIGAR=3M1X3M1X,1X2M1X4M;DP=1555;DPB=1555;DPRA=0,1.0553;EPP=2547.98,793.426;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.09524,2.77778;MQM=41.0751,40.3516;MQMR=0;NS=21;NUMALT=2;ODDS=4.84947;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41681,12882;QR=0;RO=0;RPL=1172,364;RPP=2547.98,793.426;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2547.98,793.426;SAR=1172,364;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,85,0:0:0:85,0:3027,0:-263.106,-25.5876,0,-263.106,-25.5876,-263.106 1/1:46:0,46,0:0:0:46,0:1627,0:-137.705,-13.8474,0,-137.705,-13.8474,-137.705 1/1:65:0,64,0:0:0:64,0:2283,0:-198.488,-19.2659,0,-198.488,-19.2659,-198.488 1/2:87:0,43,44:0:0:43,44:1531,1563:-244.534,-124.155,-111.211,-120.725,0,-107.479 1/2:216:0,88,124:0:0:88,124:3124,4386:-589.209,-345.678,-319.187,-243.593,0,-206.265 1/2:67:0,29,38:0:0:29,38:1035,1334:-180.199,-101.901,-93.1709,-78.6305,0,-67.1914 1/2:84:0,53,29:0:0:53,29:1895,1037:-222.558,-79.268,-63.3134,-143.333,0,-134.603 1/2:64:0,27,37:0:0:27,37:950,1304:-176.001,-101.864,-93.7366,-74.4752,0,-63.3371 1/1:174:0,169,0:0:0:169,0:6009,0:-529.074,-50.8741,0,-529.074,-50.8741,-529.074 1/1:11:0,11,0:0:0:11,0:394,0:-34.1114,-3.31133,0,-34.1114,-3.31133,-34.1114 1/2:7:0,6,1:0:0:6,1:216,30:-19.0314,-2.63514,-0.828957,-16.696,0,-16.3949 1/2:25:0,8,17:0:0:8,17:287,600:-68.225,-46.9734,-44.5651,-21.5833,0,-16.4658 1/1:77:0,77,0:0:0:77,0:2734,0:-236.942,-23.1793,0,-236.942,-23.1793,-236.942 1/1:88:0,88,0:0:0:88,0:3111,0:-272.843,-26.4906,0,-272.843,-26.4906,-272.843 1/1:73:0,71,0:0:0:71,0:2528,0:-219.886,-21.3731,0,-219.886,-21.3731,-219.886 1/1:82:0,82,0:0:0:82,0:2933,0:-259.574,-24.6845,0,-259.574,-24.6845,-259.574 1/1:80:0,80,0:0:0:80,0:2839,0:-250.174,-24.0824,0,-250.174,-24.0824,-250.174 1/2:73:0,27,43:0:0:27,43:963,1523:-192.869,-118.528,-110.4,-74.3618,0,-61.4175 1/2:64:0,33,31:0:0:33,31:1174,1105:-180.336,-87.7683,-77.8343,-92.914,0,-83.582 1/1:46:0,46,0:0:0:46,0:1632,0:-137.93,-13.8474,0,-137.93,-13.8474,-137.93 1/1:39:0,39,0:0:0:39,0:1389,0:-116.295,-11.7402,0,-116.295,-11.7402,-116.295 chr01 14863789 . 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AAC TAT 9.80162e-07 PASS AB=0.522105;ABP=5.02634;AC=10;AF=0.238095;AN=42;AO=248;CIGAR=1X1M1X;DP=1089;DPB=1089;DPRA=0.850977;EPP=541.535;EPPR=1822.7;GTI=9;LEN=3;MEANALT=1.2;MQM=14.9637;MQMR=45.1384;NS=21;NUMALT=1;ODDS=15.8845;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8632;QR=28911;RO=838;RPL=248;RPP=541.535;RPPR=1822.7;RPR=0;RUN=1;SAF=248;SAP=541.535;SAR=0;SRF=838;SRP=1822.7;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:90:90,0:90:3085:0:0:0,-27.0927,-273.287 0/0:28:28,0:28:972:0:0:0,-8.42884,-86.9572 0/1:66:30,36:30:1035:36:1259:-28.3565,0,-72.3503 0/1:29:14,15:14:489:15:519:-11.5854,0,-34.8815 0/1:112:57,54:57:1991:54:1882:-38.7883,0,-143.37 0/1:37:17,20:17:579:20:683:-15.4423,0,-40.7535 0/1:82:33,48:33:1154:48:1674:-39.9436,0,-78.336 0/1:56:23,33:23:730:33:1157:-28.1417,0,-48.5257 0/0:110:110,0:110:3832:0:0:0,-33.1133,-337.048 0/0:8:8,0:8:257:0:0:0,-2.40824,-23.2488 0/1:4:2,2:2:67:2:70:-1.63772,0,-5.10873 0/1:15:11,4:11:394:4:142:-1.02045,0,-30.8682 0/0:46:46,0:46:1607:0:0:0,-13.8474,-143.108 0/0:45:45,0:45:1546:0:0:0,-13.5463,-137.744 0/0:126:126,0:126:4386:0:0:0,-37.9298,-390.236 0/0:29:29,0:29:996:0:0:0,-8.72987,-88.6269 0/0:27:27,0:27:916:0:0:0,-8.12781,-81.5757 0/1:45:23,22:23:807:22:764:-16.1005,0,-58.6973 0/1:29:15,14:15:496:14:482:-10.1516,0,-35.742 0/0:72:71,0:71:2413:0:0:0,-21.3731,-215.111 0/0:33:33,0:33:1159:0:0:0,-9.93399,-103.409 chr01 14969015 . T A 8086.14 PASS AB=0.513935;ABP=4.52331;AC=11;AF=0.261905;AN=42;AO=480;CIGAR=1X;DP=1918;DPB=1918;DPRA=0.919476;EPP=1045.32;EPPR=3123.42;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.8417;MQMR=59.9736;NS=21;NUMALT=1;ODDS=1.02168;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17093;QR=51089;RO=1437;RPL=0;RPP=1045.32;RPPR=3123.42;RPR=480;RUN=1;SAF=0;SAP=1045.32;SAR=480;SRF=0;SRP=3123.42;SRR=1437;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:89:88,1:88:3121:1:25:0,-24.2919,-278.617 0/0:86:86,0:86:3061:0:0:0,-25.8886,-275.718 0/1:95:47,48:47:1672:48:1695:-124.236,0,-122.169 0/1:128:60,68:60:2116:68:2432:-180.602,0,-152.175 0/1:198:94,103:94:3341:103:3683:-272.094,0,-241.334 0/1:112:42,70:42:1473:70:2508:-192.248,0,-99.1471 0/1:156:74,82:74:2644:82:2907:-214.798,0,-191.233 0/1:42:24,18:24:860:18:644:-45.5774,0,-65.0786 0/0:143:143,0:143:5102:0:0:0,-43.0473,-459.321 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 1/1:17:1,16:1:36:16:563:-47.4009,-1.51924,0 0/0:115:115,0:115:4062:0:0:0,-34.6184,-365.766 0/0:68:67,1:67:2384:1:36:0,-16.8718,-211.22 0/0:71:71,0:71:2528:0:0:0,-21.3731,-227.772 0/0:117:117,0:117:4185:0:0:0,-35.2205,-376.83 0/0:78:77,1:77:2737:1:36:0,-19.8821,-242.974 0/1:63:26,37:26:917:37:1316:-99.776,0,-63.8797 0/1:96:64,32:64:2261:32:1140:-74.0088,0,-174.853 0/0:135:135,0:135:4825:0:0:0,-40.639,-434.404 0/0:86:86,0:86:3048:0:0:0,-25.8886,-274.446 chr01 14969016 . C T 31554.2 PASS AB=0.487041;ABP=4.36102;AC=31;AF=0.738095;AN=42;AO=1491;CIGAR=1X;DP=1985;DPB=1985;DPRA=0;EPP=3240.68;EPPR=1075.72;GTI=1;LEN=1;MEANALT=1;MQM=59.9645;MQMR=59.8522;NS=21;NUMALT=1;ODDS=1.39979;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53405;QR=17593;RO=494;RPL=0;RPP=3240.68;RPPR=1075.72;RPR=1491;RUN=1;SAF=0;SAP=3240.68;SAR=1491;SRF=0;SRP=1075.72;SRR=494;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,93:0:0:93:3329:-299.827,-27.9958,0 1/1:87:0,87:0:0:87:3115:-280.575,-26.1896,0 0/1:100:51,49:51:1813:49:1753:-127.95,0,-133.339 0/1:132:71,61:71:2521:61:2188:-157.45,0,-187.403 0/1:204:108,96:108:3820:96:3448:-249.122,0,-282.581 0/1:114:71,43:71:2548:43:1544:-104.936,0,-195.244 0/1:157:79,78:79:2828:78:2787:-203.795,0,-207.495 0/1:43:19,24:19:680:24:864:-65.1383,0,-48.5149 1/1:150:0,150:0:0:150:5392:-485.408,-45.1545,0 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 0/1:7:3,4:3:104:4:144:-11.2064,0,-7.5956 0/0:17:16,1:16:572:1:36:0,-1.51923,-48.2152 1/1:119:0,119:0:0:119:4236:-381.418,-35.8226,0 1/1:68:1,67:1:36:67:2412:-213.738,-16.8718,0 1/1:76:0,76:0:0:76:2707:-243.854,-22.8783,0 1/1:119:0,119:0:0:119:4272:-384.657,-35.8226,0 1/1:80:1,79:1:36:79:2833:-251.61,-20.4841,0 0/1:67:40,27:40:1411:27:964:-66.9078,0,-107.115 0/1:102:33,69:33:1188:69:2476:-192.388,0,-76.522 1/1:144:1,143:1:36:143:5132:-458.421,-39.75,0 1/1:90:0,90:0:0:90:3197:-287.942,-27.0927,0 chr01 14969033 . G A 11008.9 PASS AB=0.518681;ABP=5.76879;AC=11;AF=0.261905;AN=42;AO=492;CIGAR=1X;DP=1943;DPB=1943;DPRA=1.01807;EPP=139.725;EPPR=1066.52;GTI=1;LEN=1;MEANALT=1;MQM=59.6646;MQMR=59.9655;NS=21;NUMALT=1;ODDS=0.103292;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17605;QR=51551;RO=1451;RPL=334;RPP=139.725;RPPR=1066.52;RPR=158;RUN=1;SAF=0;SAP=1071.37;SAR=492;SRF=0;SRP=3153.82;SRR=1451;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:92:92,0:92:3274:0:0:0,-27.6948,-294.88 0/0:83:83,0:83:2928:0:0:0,-24.9855,-263.755 0/1:98:48,50:48:1720:50:1781:-131.067,0,-125.583 0/1:128:59,69:59:2087:69:2464:-183.48,0,-149.568 0/1:203:95,108:95:3380:108:3866:-285.745,0,-243.308 0/1:107:40,67:40:1423:67:2408:-184.757,0,-96.1565 0/1:156:74,82:74:2627:82:2923:-216.327,0,-189.703 0/1:43:24,19:24:860:19:684:-48.8761,0,-64.7775 0/0:148:148,0:148:5268:0:0:0,-44.5524,-474.254 0/0:15:15,0:15:527:0:0:0,-4.51545,-47.7602 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 1/1:18:1,17:1:36:17:608:-51.4537,-1.82027,0 0/0:114:114,0:114:4079:0:0:0,-34.3174,-367.296 0/0:63:62,1:62:2171:1:36:0,-15.3666,-192.059 0/0:74:74,0:74:2651:0:0:0,-22.2762,-238.818 0/0:118:118,0:118:4201:0:0:0,-35.5215,-378.271 0/0:79:78,1:78:2779:1:36:0,-20.1831,-246.753 0/1:68:25,43:25:873:43:1543:-117.412,0,-58.4145 0/1:100:69,31:69:2455:31:1116:-70.6472,0,-191.102 0/0:141:140,1:140:4974:1:32:0,-39.2459,-444.611 0/0:88:88,0:88:3094:0:0:0,-26.4906,-278.582 chr01 14979147 . A G 36197.5 PASS AB=0.54115;ABP=16.0563;AC=32;AF=0.761905;AN=42;AO=1358;CIGAR=1X;DP=1770;DPB=1770;DPRA=0;EPP=44.975;EPPR=40.1994;GTI=0;LEN=1;MEANALT=1;MQM=59.7467;MQMR=59.9733;NS=21;NUMALT=1;ODDS=15.9083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48054;QR=14707;RO=412;RPL=4;RPP=2917.23;RPPR=888.992;RPR=1354;RUN=1;SAF=764;SAP=49.222;SAR=594;SRF=249;SRP=41.9914;SRR=163;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:2,78:2:72:78:2744:-240.36,-17.2457,0 1/1:50:0,50:0:0:50:1778:-160.301,-15.0515,0 0/1:44:13,31:13:468:31:1116:-87.5064,0,-29.2143 0/1:97:52,45:52:1856:45:1585:-113.706,0,-138.12 0/1:126:66,60:66:2355:60:2109:-152.128,0,-174.279 0/1:59:24,35:24:856:35:1219:-92.2409,0,-59.6003 0/1:105:60,45:60:2152:45:1604:-113.034,0,-162.338 0/1:92:32,60:32:1144:60:2095:-161.123,0,-75.5748 1/1:145:0,145:0:0:145:5151:-463.732,-43.6494,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:32:13,19:13:464:19:684:-52.2574,0,-32.4645 1/1:68:0,68:0:0:68:2408:-216.953,-20.47,0 1/1:88:0,88:0:0:88:3107:-279.801,-26.4906,0 1/1:118:0,118:0:0:118:4223:-380.235,-35.5215,0 1/1:46:0,46:0:0:46:1623:-146.357,-13.8474,0 1/1:48:0,48:0:0:48:1703:-153.554,-14.4494,0 0/1:189:103,86:103:3670:86:3049:-217.735,0,-273.598 0/1:135:39,96:39:1382:96:3358:-261.736,0,-84.0382 1/1:83:2,81:2:72:81:2876:-252.234,-18.1488,0 1/1:144:1,143:1:36:143:5050:-450.956,-39.75,0 chr01 15251899 . C T 17714 PASS AB=0.457094;ABP=30.9612;AC=9;AF=0.214286;AN=42;AO=813;CIGAR=1X;DP=3524;DPB=3524;DPRA=1.34716;EPP=1768.42;EPPR=5861.66;GTI=0;LEN=1;MEANALT=1.23077;MQM=59.9779;MQMR=59.9878;NS=21;NUMALT=1;ODDS=21.0917;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28916;QR=95392;RO=2706;RPL=389;RPP=6.2822;RPPR=103.572;RPR=424;RUN=1;SAF=389;SAP=6.2822;SAR=424;SRF=1174;SRP=105.858;SRR=1532;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:156:156,0:156:5407:0:0:0,-46.9607,-486.766 0/0:122:122,0:122:4318:0:0:0,-36.7257,-388.795 0/1:180:103,76:103:3674:76:2678:-187.054,0,-276.658 0/1:215:105,110:105:3664:110:3913:-287.641,0,-265.243 0/1:423:188,235:188:6639:235:8398:-628.49,0,-470.259 0/1:150:91,58:91:3243:58:2080:-142.394,0,-247.017 0/1:239:136,103:136:4817:103:3675:-259.006,0,-361.734 0/1:156:88,68:88:3099:68:2422:-171.274,0,-232.177 0/0:253:249,3:249:8809:3:108:0,-66.1442,-782.728 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/1:16:12,4:12:432:4:144:-8.49714,0,-34.4047 0/0:57:56,0:56:1987:0:0:0,-16.8577,-178.744 0/0:181:180,1:180:6336:1:36:0,-50.8882,-566.742 0/0:222:222,0:222:7847:0:0:0,-66.8287,-706.263 0/0:298:297,0:297:10477:0:0:0,-89.4059,-942.498 0/0:116:116,0:116:4102:0:0:0,-34.9195,-369.366 0/0:102:101,1:101:3579:1:36:0,-27.1068,-318.714 0/1:204:109,95:109:3775:95:3353:-240.578,0,-278.543 0/1:165:115,50:115:4031:50:1749:-108.021,0,-313.311 0/0:135:126,9:126:4407:9:324:0,-11.1332,-367.299 0/0:106:106,0:106:3745:0:0:0,-31.9092,-337.243 chr01 15354723 . A G 145319 PASS AB=0.515444;ABP=9.44926;AC=33;AF=0.785714;AN=42;AO=5414;CIGAR=1X;DP=6932;DPB=6932;DPRA=0;EPP=11759.4;EPPR=3292.79;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.8048;MQMR=59.9677;NS=21;NUMALT=1;ODDS=28.7895;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=191381;QR=53955;RO=1515;RPL=2247;RPP=342.488;RPPR=217.676;RPR=3167;RUN=1;SAF=2247;SAP=342.488;SAR=3167;SRF=564;SRP=217.676;SRR=951;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:451:2,449:2:72:449:15872:-1421.25,-128.928,0 1/1:362:1,361:1:36:361:12829:-1150.7,-105.375,0 0/1:261:128,133:128:4566:133:4660:-340.933,0,-332.31 0/1:446:226,220:226:8030:220:7676:-556.614,0,-588.465 0/1:576:269,307:269:9629:307:10833:-801.479,0,-693.165 0/1:408:208,200:208:7382:200:7065:-512.857,0,-541.609 0/1:590:303,287:303:10798:287:10102:-731.452,0,-794.047 0/1:414:197,216:197:7016:216:7645:-563.353,0,-506.817 1/1:647:1,646:1:36:646:22822:-2049.78,-191.168,0 1/1:38:1,37:1:36:37:1324:-115.859,-7.84087,0 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8394 1/1:85:0,85:0:0:85:2993:-269.582,-25.5876,0 1/1:395:1,393:1:36:393:13900:-1247.02,-115.367,0 1/1:336:1,335:1:36:335:11776:-1056.09,-97.5478,0 1/1:496:0,496:0:0:496:17570:-1580.81,-149.311,0 1/1:261:0,261:0:0:261:9283:-835.436,-78.5688,0 1/1:311:1,310:1:32:310:10944:-981.65,-90.421,0 0/1:188:90,97:90:3228:97:3433:-252.571,0,-234.129 0/1:216:78,138:78:2734:138:4912:-377.203,0,-181.28 1/1:281:3,278:3:108:278:9870:-878.023,-74.5143,0 1/1:161:0,161:0:0:161:5728:-515.61,-48.4658,0 chr01 15354745 . C T 81126.1 PASS AB=0.511236;ABP=5.15737;AC=33;AF=0.785714;AN=42;AO=3071;CIGAR=1X;DP=4036;DPB=4036;DPRA=0;EPP=587.265;EPPR=20.4542;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.6705;MQMR=59.9305;NS=21;NUMALT=1;ODDS=11.6516;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=108810;QR=34371;RO=964;RPL=1990;RPP=587.265;RPPR=20.4542;RPR=1081;RUN=1;SAF=0;SAP=6671.6;SAR=3071;SRF=0;SRP=2096.31;SRR=964;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:203:0,203:0:0:203:7157:-643.799,-61.1091,0 1/1:211:1,210:1:36:210:7473:-668.896,-59.9191,0 0/1:148:68,80:68:2398:80:2848:-211.909,0,-171.297 0/1:366:188,177:188:6715:177:6279:-454.922,0,-494.105 0/1:332:152,180:152:5438:180:6417:-477.66,0,-389.604 0/1:293:159,134:159:5652:134:4742:-338.502,0,-420.598 0/1:408:210,198:210:7496:198:6969:-504.39,0,-551.793 0/1:226:109,117:109:3895:117:4142:-304.885,0,-282.711 1/1:335:0,335:0:0:335:11853:-1066.62,-100.845,0 1/1:27:0,27:0:0:27:964:-87.0722,-8.12781,0 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.504 1/1:60:0,60:0:0:60:2117:-190.773,-18.0618,0 1/1:261:3,258:3:108:258:9178:-815.697,-68.4937,0 1/1:179:1,178:1:36:178:6306:-563.939,-50.2861,0 1/1:244:1,243:1:36:243:8589:-769.358,-69.853,0 1/1:152:0,152:0:0:152:5386:-484.868,-45.7566,0 1/1:164:1,163:1:36:163:5770:-515.795,-45.7706,0 0/1:62:31,31:31:1097:31:1104:-81.0041,0,-80.3742 0/1:117:35,82:35:1248:82:2912:-227.086,0,-77.4044 1/1:171:0,171:0:0:171:6040:-543.564,-51.4761,0 1/1:71:1,70:1:36:70:2492:-220.898,-17.7749,0 chr01 15399893 . ATTTTGA ATTTGA 32166.1 PASS AB=0.422406;ABP=59.9611;AC=33;AF=0.785714;AN=42;AO=1573;CIGAR=1M1D5M;DP=2211;DPB=1985.43;DPRA=0;EPP=3418.74;EPPR=1360.19;GTI=1;LEN=1;MEANALT=1.42857;MQM=59.8086;MQMR=59.93;NS=21;NUMALT=1;ODDS=9.78519;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55624;QR=21960;RO=629;RPL=0;RPP=3418.74;RPPR=1368.87;RPR=1573;RUN=1;SAF=1573;SAP=3418.74;SAR=0;SRF=628;SRP=1360.19;SRR=1;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:1,122:1:36:122:4292:-382.875,-33.7432,0 1/1:75:0,75:0:0:75:2669:-240.451,-22.5773,0 0/1:166:112,53:112:3936:53:1865:-118.098,0,-304.413 0/1:136:67,69:67:2340:69:2400:-175.311,0,-169.921 0/1:220:134,84:134:4671:84:3000:-204.118,0,-354.581 0/1:74:56,18:56:1925:18:648:-36.3757,0,-151.249 0/1:153:98,52:98:3443:52:1856:-121.853,0,-264.617 0/1:194:100,94:100:3465:94:3341:-242.433,0,-253.607 1/1:190:1,189:1:36:189:6674:-597.135,-53.5974,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:8:4,4:4:134:4:144:-10.9054,0,-9.98269 1/1:33:1,32:1:35:32:1152:-100.492,-6.43536,0 1/1:158:2,155:2:68:155:5445:-483.661,-41.1572,0 1/1:90:0,90:0:0:90:3164:-284.918,-27.0927,0 1/1:132:0,132:0:0:132:4663:-419.679,-39.736,0 1/1:48:0,48:0:0:48:1678:-151.301,-14.4494,0 1/1:44:0,44:0:0:44:1560:-140.688,-13.2453,0 0/1:73:32,41:32:1132:41:1460:-109.721,0,-80.2134 0/1:65:20,45:20:703:45:1581:-123.011,0,-44.0273 1/1:154:1,153:1:36:153:5424:-484.421,-42.7603,0 1/1:67:0,66:0:0:66:2356:-211.935,-19.868,0 chr01 15399944 . A T 10411.7 PASS AB=0.563433;ABP=40.4763;AC=9;AF=0.214286;AN=42;AO=609;CIGAR=1X;DP=2206;DPB=2206;DPRA=1.81237;EPP=1325.44;EPPR=3470.85;GTI=1;LEN=1;MEANALT=1;MQM=59.9228;MQMR=59.8197;NS=21;NUMALT=1;ODDS=7.04482;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21627;QR=56965;RO=1597;RPL=609;RPP=1325.44;RPPR=3470.85;RPR=0;RUN=1;SAF=609;SAP=1325.44;SAR=0;SRF=1597;SRP=3470.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:126:125,1:125:4445:1:36:0,-34.3315,-396.576 0/0:78:78,0:78:2796:0:0:0,-23.4803,-251.832 0/1:166:55,111:55:1960:111:3948:-305.539,0,-126.704 0/1:134:68,66:68:2428:66:2331:-169.71,0,-178.393 0/1:213:87,126:87:3111:126:4468:-338.171,0,-215.968 0/1:71:18,53:18:648:53:1883:-148.375,0,-37.2788 0/1:148:52,96:52:1860:96:3413:-262.824,0,-123.126 0/1:195:98,97:98:3512:97:3449:-251.899,0,-257.515 0/0:188:187,1:187:6677:1:36:0,-52.9954,-597.391 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:8:4,4:4:140:4:144:-10.9054,0,-10.5363 0/0:32:31,1:31:1112:1:36:0,-6.03468,-96.7931 0/0:158:157,1:157:5583:1:36:0,-43.9645,-498.918 0/0:95:95,0:95:3378:0:0:0,-28.5978,-304.099 0/0:134:134,0:134:4784:0:0:0,-40.338,-430.562 0/0:51:51,0:51:1805:0:0:0,-15.3525,-162.728 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.128 0/1:72:41,31:41:1459:31:1103:-77.9056,0,-109.931 0/1:65:45,20:45:1599:20:708:-44.4786,0,-124.633 0/0:153:152,1:152:5415:1:36:0,-42.4593,-483.881 0/0:68:68,0:68:2425:0:0:0,-20.47,-218.499 chr01 15418220 . A G 5220.25 PASS AB=0.448753;ABP=19.4798;AC=8;AF=0.190476;AN=42;AO=324;CIGAR=1X;DP=1759;DPB=1759;DPRA=1.13139;EPP=697.908;EPPR=3110.39;GTI=0;LEN=1;MEANALT=1;MQM=59.7654;MQMR=59.9742;NS=21;NUMALT=1;ODDS=12.1761;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11563;QR=51078;RO=1435;RPL=1;RPP=697.908;RPPR=3110.39;RPR=323;RUN=1;SAF=324;SAP=706.567;SAR=0;SRF=1435;SRP=3119.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:73,0:73:2600:0:0:0,-21.9752,-234.246 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.659 0/1:85:41,44:41:1472:44:1538:-113.12,0,-107.189 0/1:72:33,39:33:1184:39:1385:-103.273,0,-85.1942 0/1:170:99,71:99:3534:71:2536:-176.639,0,-267.091 0/1:54:32,22:32:1118:22:792:-55.3501,0,-84.6679 0/1:137:90,47:90:3232:47:1684:-110.606,0,-248.671 0/1:79:39,40:39:1396:40:1432:-105.396,0,-102.158 0/0:252:252,0:252:8946:0:0:0,-75.8596,-805.121 0/0:16:16,0:16:546:0:0:0,-4.81648,-49.4593 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:42:42,0:42:1497:0:0:0,-12.6433,-135.023 0/0:202:202,0:202:7123:0:0:0,-60.8081,-641.13 0/0:105:105,0:105:3746:0:0:0,-31.6081,-337.338 0/0:89:89,0:89:3181:0:0:0,-26.7917,-286.512 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.136 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/1:73:32,41:32:1144:41:1476:-111.156,0,-81.2943 0/1:52:32,20:32:1144:20:720:-49.4752,0,-87.616 0/0:104:104,0:104:3679:0:0:0,-31.3071,-331.311 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 chr01 15418252 . A G 5119.12 PASS AB=0.451034;ABP=18.1088;AC=8;AF=0.190476;AN=42;AO=328;CIGAR=1X;DP=1796;DPB=1796;DPRA=1.59772;EPP=715.253;EPPR=3190.73;GTI=0;LEN=1;MEANALT=1;MQM=59.9451;MQMR=60;NS=21;NUMALT=1;ODDS=12.8079;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11576;QR=52108;RO=1468;RPL=328;RPP=715.253;RPPR=3190.73;RPR=0;RUN=1;SAF=328;SAP=715.253;SAR=0;SRF=1468;SRP=3190.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:82:82,0:82:2914:0:0:0,-24.6845,-262.495 0/0:47:47,0:47:1675:0:0:0,-14.1484,-151.036 0/1:86:42,44:42:1478:44:1567:-115.432,0,-107.424 0/1:71:31,40:31:1108:40:1404:-105.281,0,-78.6579 0/1:173:100,73:100:3550:73:2565:-179.018,0,-267.632 0/1:56:33,23:33:1180:23:824:-57.6256,0,-89.6504 0/1:137:89,48:89:3158:48:1666:-108.982,0,-243.205 0/1:80:39,41:39:1376:41:1438:-105.632,0,-100.056 0/0:254:253,1:253:8974:1:36:0,-72.8633,-804.053 0/0:14:14,0:14:492:0:0:0,-4.21442,-44.6123 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:42:42,0:42:1487:0:0:0,-12.6433,-134.124 0/0:202:202,0:202:7151:0:0:0,-60.8081,-643.658 0/0:106:106,0:106:3788:0:0:0,-31.9092,-341.119 0/0:88:88,0:88:3144:0:0:0,-26.4906,-283.186 0/0:49:49,0:49:1744:0:0:0,-14.7505,-157.244 0/0:43:43,0:43:1527:0:0:0,-12.9443,-137.722 0/1:70:32,38:32:1132:38:1356:-101.267,0,-81.1165 0/1:52:32,20:32:1140:20:720:-49.4752,0,-87.2556 0/0:103:103,0:103:3656:0:0:0,-31.0061,-329.247 0/0:34:34,0:34:1182:0:0:0,-10.235,-106.683 chr01 15740403 . CTGAA GTGAG,CTGAG 32670.2 PASS AB=0.515263,0.474969;ABP=4.66741,7.46725;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1168,392;CIGAR=1X3M1X,4M1X;DP=1577;DPB=1577;DPRA=0,1.38106;EPP=2539.29,854.227;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.2381,2.63636;MQM=59.9555,59.9413;MQMR=0;NS=21;NUMALT=2;ODDS=0.327211;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41028,13899;QR=0;RO=0;RPL=0,0;RPP=2539.29,854.227;RPPR=0;RPR=1168,392;RUN=1,1;SAF=1168,392;SAP=2539.29,854.227;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,95,0:0:0:95,0:3320,0:-298.714,-28.5979,0,-298.714,-28.5979,-298.714 1/1:83:0,83,0:0:0:83,0:2906,0:-261.777,-24.9855,0,-261.777,-24.9855,-261.777 1/2:67:0,39,28:0:0:39,28:1364,980:-191.049,-80.0813,-68.3412,-111.317,0,-102.888 1/2:85:0,32,53:0:0:32,53:1132,1874:-245.183,-152.98,-143.348,-92.5556,0,-76.6011 1/2:138:0,65,73:0:0:65,73:2266,2588:-395.474,-211.192,-191.626,-184.633,0,-162.658 1/2:97:0,49,47:0:0:49,47:1742,1650:-276.237,-134.276,-119.525,-141.954,0,-127.806 1/2:128:0,81,46:0:0:81,46:2844,1644:-365.637,-134.179,-109.795,-231.59,0,-217.743 1/2:105:0,46,55:0:0:46,55:1631,1972:-293.522,-160.646,-146.799,-132.906,0,-116.349 1/1:128:0,125,0:0:0:125,0:4390,0:-394.882,-37.6288,0,-394.882,-37.6288,-394.882 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:4:0,4,0:0:0:4,0:143,0:-13.2214,-1.20412,0,-13.2214,-1.20412,-13.2214 1/1:22:0,21,1:0:0:21,1:744,36:-66.9248,-6.32163,0,-63.9872,-3.02439,-63.6861 1/1:65:0,65,0:0:0:65,0:2261,0:-203.751,-19.567,0,-203.751,-19.567,-203.751 1/1:54:0,54,0:0:0:54,0:1926,0:-173.617,-16.2556,0,-173.617,-16.2556,-173.617 1/1:110:0,108,2:0:0:108,2:3768,63:-339.009,-32.5112,0,-333.943,-27.1301,-333.341 1/1:42:0,41,0:0:0:41,0:1434,0:-128.991,-12.3422,0,-128.991,-12.3422,-128.991 1/2:70:0,34,35:0:0:34,35:1195,1256:-199.744,-102.479,-92.2435,-97.2893,0,-86.7532 1/2:62:0,34,28:0:0:34,28:1199,991:-178.701,-81.0747,-70.8397,-97.9791,0,-89.5502 1/2:67:0,42,24:0:0:42,24:1467,845:-188.169,-68.8403,-56.1971,-119.378,0,-112.153 1/1:80:0,79,0:0:0:79,0:2780,0:-250.161,-23.7814,0,-250.161,-23.7814,-250.161 1/1:62:0,62,0:0:0:62,0:2192,0:-197.545,-18.6639,0,-197.545,-18.6639,-197.545 chr01 15766169 . C G 24777.6 PASS AB=0.5;ABP=3.0103;AC=32;AF=0.761905;AN=42;AO=1205;CIGAR=1X;DP=1640;DPB=1640;DPRA=0;EPP=2619.63;EPPR=928.138;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.7884;MQMR=59.9585;NS=21;NUMALT=1;ODDS=3.21817;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42810;QR=15409;RO=434;RPL=0;RPP=2619.63;RPPR=919.552;RPR=1205;RUN=1;SAF=0;SAP=2619.63;SAR=1205;SRF=1;SRP=936.763;SRR=433;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:45:1,44:1:36:44:1566:-137.632,-9.94808,0 1/1:66:0,66:0:0:66:2346:-211.381,-19.868,0 0/1:86:42,44:42:1475:44:1572:-115.883,0,-107.152 0/1:100:48,52:48:1711:52:1841:-135.861,0,-124.172 0/1:160:67,92:67:2381:92:3231:-242.787,0,-166.237 0/1:82:45,37:45:1608:37:1328:-95.068,0,-120.326 0/1:108:57,51:57:2025:51:1810:-130.613,0,-150.01 0/1:77:44,33:44:1584:33:1176:-82.9661,0,-119.672 1/1:125:1,124:1:36:124:4432:-395.452,-34.0305,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:5:2,3:2:72:3:108:-8.12703,0,-5.33157 1/1:32:0,32:0:0:32:1140:-102.909,-9.63296,0 1/1:98:0,98:0:0:98:3474:-312.813,-29.5009,0 1/1:91:0,91:0:0:91:3218:-289.607,-27.3937,0 1/1:132:0,132:0:0:132:4684:-421.717,-39.736,0 1/1:79:0,79:0:0:79:2809:-253.031,-23.7814,0 0/1:78:36,42:36:1254:42:1476:-109.65,0,-89.6778 0/1:105:63,42:63:2238:42:1484:-102.237,0,-170.075 0/1:63:27,36:27:953:36:1283:-96.8036,0,-67.1184 1/1:55:0,55:0:0:55:1964:-177.035,-16.5567,0 1/1:48:1,47:1:36:47:1688:-148.498,-10.8512,0 chr01 15953434 . C T 23954.6 PASS AB=0.537736;ABP=12.1878;AC=32;AF=0.761905;AN=42;AO=1133;CIGAR=1X;DP=1480;DPB=1480;DPRA=0;EPP=2454.61;EPPR=722.168;GTI=0;LEN=1;MEANALT=1;MQM=59.9929;MQMR=59.928;NS=21;NUMALT=1;ODDS=15.4496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40651;QR=12437;RO=347;RPL=1;RPP=2454.61;RPPR=722.168;RPR=1132;RUN=1;SAF=1133;SAP=2463.29;SAR=0;SRF=347;SRP=756.511;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,57:0:0:57:2044:-184.232,-17.1587,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:120:60,60:60:2143:60:2160:-158.543,0,-157.013 0/1:55:19,36:19:684:36:1288:-99.6669,0,-45.3337 0/1:100:41,59:41:1476:59:2115:-160.515,0,-103.033 0/1:94:41,53:41:1476:53:1881:-141.269,0,-104.839 0/1:113:52,61:52:1851:61:2188:-163.169,0,-132.535 0/1:95:51,44:51:1836:44:1584:-114.254,0,-136.923 1/1:130:1,129:1:36:129:4632:-413.443,-35.5356,0 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 0/1:14:11,3:11:396:3:108:-5.86075,0,-31.7683 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 1/1:87:0,87:0:0:87:3124:-281.386,-26.1896,0 1/1:88:0,88:0:0:88:3156:-284.265,-26.4906,0 1/1:126:0,126:0:0:126:4532:-408.045,-37.9298,0 1/1:34:1,33:1:36:33:1184:-103.27,-6.63675,0 0/1:27:17,10:17:603:10:360:-24.6165,0,-46.4717 0/1:66:32,34:32:1144:34:1207:-89.0673,0,-83.4015 0/1:58:19,39:19:684:39:1400:-108.839,0,-44.4306 1/1:124:1,123:1:36:123:4416:-394.012,-33.7294,0 1/1:23:1,22:1:36:22:792:-67.9992,-3.32542,0 chr01 15961203 . G A 12541.6 PASS AB=0.51615;ABP=6.44715;AC=10;AF=0.238095;AN=42;AO=787;CIGAR=1X;DP=3119;DPB=3119;DPRA=0.94021;EPP=1711.96;EPPR=5058.2;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9846;NS=21;NUMALT=1;ODDS=15.847;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27180;QR=83131;RO=2332;RPL=0;RPP=1711.96;RPPR=5058.2;RPR=787;RUN=1;SAF=787;SAP=1711.96;SAR=0;SRF=2332;SRP=5066.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:259:259,0:259:9201:0:0:0,-77.9668,-828.067 0/0:155:155,0:155:5521:0:0:0,-46.6596,-497.017 0/1:118:65,53:65:2324:53:1843:-130.623,0,-173.899 0/1:253:107,146:107:3828:146:5088:-381.904,0,-268.556 0/1:343:155,188:155:5503:188:6474:-479.5,0,-392.143 0/1:154:73,81:73:2578:81:2772:-203.355,0,-185.909 0/1:253:118,135:118:4182:135:4742:-350.776,0,-300.402 0/1:114:50,64:50:1779:64:2179:-162.049,0,-126.075 0/0:216:216,0:216:7698:0:0:0,-65.0225,-692.852 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/1:12:9,3:9:320:3:108:-6.46281,0,-25.53 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.847 0/0:183:183,0:183:6556:0:0:0,-55.0885,-589.018 0/0:182:182,0:182:6497:0:0:0,-54.7875,-584.812 0/0:196:196,0:196:7025:0:0:0,-59.0019,-632.309 0/0:126:126,0:126:4501:0:0:0,-37.9298,-405.258 0/1:100:53,47:53:1896:47:1510:-106.068,0,-140.815 0/1:64:35,29:35:1251:29:1021:-72.9343,0,-93.6284 0/1:106:69,37:69:2446:37:1307:-86.0222,0,-188.483 0/0:130:128,2:128:4562:2:68:0,-32.6762,-404.287 0/0:88:86,2:86:3063:2:68:0,-20.0329,-269.442 chr01 15961248 . T A 39234.7 PASS AB=0.545722;ABP=58.6091;AC=10;AF=0.238095;AN=42;AO=1680;CIGAR=1X;DP=5603;DPB=5603;DPRA=1.18831;EPP=3642.4;EPPR=8506.5;GTI=1;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9906;NS=21;NUMALT=1;ODDS=14.9058;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60139;QR=137869;RO=3920;RPL=809;RPP=7.97884;RPPR=214.576;RPR=871;RUN=1;SAF=808;SAP=8.30456;SAR=872;SRF=2270;SRP=215.948;SRR=1650;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:320:319,0:319:11259:0:0:0,-96.0286,-1012.85 0/0:251:251,0:251:8785:0:0:0,-75.5585,-790.645 0/1:220:111,109:111:3899:109:3899:-284.877,0,-284.876 0/1:430:186,244:186:6575:244:8729:-656.156,0,-462.391 0/1:579:261,318:261:9170:318:11385:-850.23,0,-650.985 0/1:279:132,147:132:4698:147:5264:-389.909,0,-338.995 0/1:689:273,416:273:9447:416:14895:-1132.87,0,-642.79 0/1:263:112,151:112:3909:151:5387:-405.789,0,-272.83 0/0:352:352,0:352:12428:0:0:0,-105.963,-1118.37 0/0:25:25,0:25:884:0:0:0,-7.52575,-79.8784 0/1:16:12,4:12:409:4:144:-8.49714,0,-32.319 0/0:74:74,0:74:2609:0:0:0,-22.2762,-235.056 0/0:297:297,0:297:10488:0:0:0,-89.4059,-942.741 0/0:265:265,0:265:9346:0:0:0,-79.7729,-841.117 0/0:353:352,0:352:12476:0:0:0,-105.963,-1122.32 0/0:231:231,0:231:8095:0:0:0,-69.5379,-728.571 0/1:182:74,108:74:2613:108:3876:-294.246,0,-180.631 0/1:229:118,111:118:4131:111:3968:-288.373,0,-303.039 0/1:175:112,63:112:3926:63:2268:-151.702,0,-300.854 0/0:244:237,6:237:8279:6:216:0,-53.5912,-725.364 0/0:129:126,3:126:4443:3:108:0,-28.7577,-389.967 chr01 15966864 . G A 6280.49 PASS AB=0.227055;ABP=2160.41;AC=20;AF=0.47619;AN=42;AO=757;CIGAR=1X;DP=3357;DPB=3357;DPRA=7.24783;EPP=1646.81;EPPR=5644.5;GTI=5;LEN=1;MEANALT=1.1;MQM=59.8653;MQMR=59.9861;NS=21;NUMALT=1;ODDS=0.324417;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27080;QR=93033;RO=2598;RPL=757;RPP=1646.81;RPPR=5644.5;RPR=0;RUN=1;SAF=0;SAP=1646.81;SAR=757;SRF=2598;SRP=5644.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:79,25:79:2813:25:900:-50.0139,0,-222.101 0/1:115:76,39:76:2728:39:1388:-90.6005,0,-211.144 0/1:167:141,26:141:5052:26:936:-34.2737,0,-404.552 0/1:162:108,54:108:3865:54:1924:-124.67,0,-299.277 0/1:312:254,57:254:9088:57:2048:-90.5977,0,-723.916 0/1:143:117,26:117:4192:26:932:-41.1516,0,-334.414 0/1:239:191,48:191:6841:48:1720:-83.0666,0,-543.811 0/1:161:132,29:132:4736:29:1036:-45.0881,0,-377.932 0/1:256:217,39:217:7762:39:1396:-48.8754,0,-621.53 0/0:23:23,0:23:813:0:0:0,-6.92369,-73.4891 0/1:22:20,2:20:716:2:72:-0.214063,0,-58.1451 0/1:93:84,9:84:2993:9:324:-1.51007,0,-241.605 0/1:290:246,44:246:8821:44:1564:-53.753,0,-706.574 0/1:211:151,60:151:5396:60:2140:-129.351,0,-422.255 0/1:223:186,37:186:6672:37:1312:-51.252,0,-533.412 0/1:149:124,25:124:4456:25:888:-35.3856,0,-356.355 0/1:150:126,24:126:4524:24:860:-32.5673,0,-362.172 0/1:101:72,28:72:2584:28:1008:-60.5511,0,-202.346 0/1:134:72,62:72:2584:62:2220:-159.443,0,-192.471 0/1:199:149,50:149:5321:50:1784:-100.938,0,-419.119 0/1:103:30,73:30:1076:73:2628:-205.76,0,-66.1468 chr01 15966918 . 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C T 49833.7 PASS AB=0.502298;ABP=3.08016;AC=32;AF=0.761905;AN=42;AO=2406;CIGAR=1X;DP=3170;DPB=3170;DPRA=0;EPP=5227.57;EPPR=1662.02;GTI=0;LEN=1;MEANALT=1;MQM=59.9726;MQMR=59.9948;NS=21;NUMALT=1;ODDS=29.155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84934;QR=27024;RO=764;RPL=2406;RPP=5227.57;RPPR=1662.02;RPR=0;RUN=1;SAF=0;SAP=5227.57;SAR=2406;SRF=0;SRP=1662.02;SRR=764;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:207:1,206:1:36:206:7204:-644.822,-58.7149,0 1/1:137:0,137:0:0:137:4846:-436.297,-41.2411,0 0/1:110:67,43:67:2359:43:1505:-102.628,0,-179.451 0/1:137:59,78:59:2112:78:2720:-203.799,0,-149.106 0/1:319:157,162:157:5563:162:5745:-421.137,0,-404.767 0/1:106:57,49:57:2033:49:1752:-126.055,0,-151.331 0/1:264:148,116:148:5209:116:4084:-288.273,0,-389.478 0/1:172:81,91:81:2840:91:3241:-240.134,0,-204.057 1/1:297:1,296:1:36:296:10497:-941.054,-85.8076,0 1/1:34:0,34:0:0:34:1189:-107.312,-10.235,0 0/1:13:8,5:8:273:5:180:-12.6387,0,-20.9868 1/1:47:0,47:0:0:47:1667:-150.317,-14.1484,0 1/1:113:0,113:0:0:113:3918:-352.777,-34.0164,0 1/1:201:0,201:0:0:201:7069:-636.278,-60.507,0 1/1:285:0,285:0:0:285:10063:-905.606,-85.7936,0 1/1:165:0,165:0:0:165:5856:-527.152,-49.67,0 0/1:209:102,107:102:3625:107:3779:-277.307,0,-263.538 0/1:118:54,64:54:1909:64:2292:-171.02,0,-136.564 0/1:75:25,50:25:885:50:1784:-138.265,0,-57.3893 1/1:98:3,95:3:108:95:3347:-291.371,-19.4258,0 1/1:63:1,62:1:36:62:2196:-194.308,-15.3666,0 chr01 16207719 . G C,T 28747.7 PASS AB=0.587413,0.411189;ABP=50.4638,51.9945;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1048,295;CIGAR=1X,1X;DP=1345;DPB=1345;DPRA=0,1.16333;EPP=2278.71,643.595;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.61905,2.09091;MQM=59.9876,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.89784;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37433,10552;QR=0;RO=0;RPL=1048,295;RPP=2278.71,643.595;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2278.71,643.595;SAR=1048,295;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,39,1:0:0:39,1:1385,36:-124.587,-11.7402,0,-121.65,-8.44293,-121.349 1/1:56:0,56,0:0:0:56,0:2000,0:-180.274,-16.8577,0,-180.274,-16.8577,-180.274 1/2:51:0,32,19:0:0:32,19:1144,684:-149.448,-56.1708,-46.5378,-93.6366,0,-87.917 1/2:59:0,32,27:0:0:32,27:1133,957:-170.606,-78.3161,-68.6831,-92.6437,0,-84.5159 1/2:96:0,57,39:0:0:57,39:2044,1385:-279.923,-113.207,-96.048,-167.073,0,-155.333 1/2:36:0,22,13:0:0:22,13:792,453:-101.457,-36.8272,-30.2046,-64.6232,0,-60.7098 1/2:111:0,58,53:0:0:58,53:2057,1893:-322.276,-154.692,-137.232,-167.94,0,-151.985 1/2:69:0,45,24:0:0:45,24:1592,864:-200.504,-70.8578,-57.3115,-130.004,0,-122.78 1/1:115:0,115,0:0:0:115,0:4087,0:-368.015,-34.6185,0,-368.015,-34.6185,-368.015 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/1:28:0,28,0:0:0:28,0:1008,0:-91.0364,-8.42884,0,-91.0364,-8.42884,-91.0364 1/1:38:0,38,0:0:0:38,0:1360,0:-122.701,-11.4391,0,-122.701,-11.4391,-122.701 1/1:70:0,70,0:0:0:70,0:2512,0:-226.332,-21.0721,0,-226.332,-21.0721,-226.332 1/1:100:0,100,0:0:0:100,0:3576,0:-322.048,-30.103,0,-322.048,-30.103,-322.048 1/1:52:0,51,0:0:0:51,0:1818,0:-163.541,-15.3525,0,-163.541,-15.3525,-163.541 1/2:88:0,58,30:0:0:58,30:2063,1080:-256.605,-88.4823,-71.0226,-168.481,0,-159.451 1/2:145:0,73,72:0:0:73,72:2624,2592:-425.926,-211.854,-189.879,-214.432,0,-192.758 1/2:56:0,41,15:0:0:41,15:1470,536:-163.956,-44.0594,-31.7171,-120.254,0,-115.738 1/1:25:0,25,0:0:0:25,0:892,0:-80.5997,-7.52575,0,-80.5997,-7.52575,-80.5997 1/1:95:0,95,0:0:0:95,0:3408,0:-306.934,-28.5979,0,-306.934,-28.5979,-306.934 chr01 16221121 . GGTAAAAGTT AGTGAAAATT,AGTGAAAATA 16010.3 PASS AB=0.484018,0.509132;ABP=3.98201,3.32759;AC=32,10;AF=0.761905,0.238095;AN=42;AO=561,229;CIGAR=1X2M1X3M1X2M,1X2M1X3M1X1M1X;DP=800;DPB=800;DPRA=0,1.37776;EPP=1221.21,500.277;EPPR=0;GTI=0;LEN=10,10;MEANALT=2.09524,2.46154;MQM=59.59,54.1397;MQMR=0;NS=21;NUMALT=2;ODDS=1.90337;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19508,8015;QR=0;RO=0;RPL=561,229;RPP=1221.21,500.277;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1221.21,500.277;SAR=561,229;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,47,0:0:0:47,0:1654,0:-148.825,-14.1484,0,-148.825,-14.1484,-148.825 1/1:48:0,48,0:0:0:48,0:1680,0:-151.479,-14.4494,0,-151.479,-14.4494,-151.479 1/2:30:0,9,21:0:0:9,21:319,734:-86.0025,-60.0143,-57.3051,-26.3409,0,-20.0193 1/2:39:0,22,17:0:0:22,17:761,609:-111.781,-49.9821,-43.3594,-62.1513,0,-57.0337 1/2:105:0,52,52:0:0:52,52:1815,1830:-296.472,-148.857,-133.203,-147.616,0,-131.962 1/2:46:0,16,30:0:0:16,30:553,1043:-129.496,-84.5607,-79.7442,-45.2803,0,-36.2494 1/2:51:0,21,30:0:0:21,30:733,1045:-144.359,-84.7372,-78.4155,-59.9695,0,-50.9386 1/2:23:0,13,10:0:0:13,10:448,347:-64.9089,-28.5185,-24.6051,-36.7361,0,-33.7258 1/1:45:0,45,0:0:0:45,0:1557,0:-140.346,-13.5464,0,-140.346,-13.5464,-140.346 1/1:5:0,4,0:0:0:4,0:141,0:-12.679,-1.20412,0,-12.679,-1.20412,-12.679 1/2:5:0,4,1:0:0:4,1:139,36:-14.58,-3.2882,-2.08408,-11.6484,0,-11.3474 1/1:5:0,5,0:0:0:5,0:176,0:-16.1852,-1.50515,0,-16.1852,-1.50515,-16.1852 1/1:49:0,44,4:0:0:44,4:1527,140:-137.384,-13.2453,0,-126,-1.78156,-124.796 1/1:27:0,26,0:0:0:26,0:890,0:-80.0515,-7.82678,0,-80.0515,-7.82678,-80.0515 1/1:36:0,33,1:0:0:33,1:1146,36:-103.103,-9.93399,0,-100.167,-6.99056,-99.8662 1/1:34:0,34,0:0:0:34,0:1179,0:-106.414,-10.235,0,-106.414,-10.235,-106.414 1/2:43:0,19,24:0:0:19,24:639,841:-120.463,-68.7005,-62.9809,-52.1051,0,-44.8804 1/2:63:0,35,26:0:0:35,26:1208,898:-170.884,-72.8184,-62.2824,-98.1428,0,-90.3161 1/2:33:0,21,12:0:0:21,12:721,420:-93.0362,-34.4984,-28.1768,-58.8851,0,-55.2727 1/1:30:0,29,1:0:0:29,1:1017,36:-91.4835,-8.72987,0,-88.5504,-5.43773,-88.2493 1/1:35:0,34,0:0:0:34,0:1205,0:-108.449,-10.235,0,-108.449,-10.235,-108.449 chr01 16258346 . G A 24079.4 PASS AB=0.539931;ABP=31.2777;AC=10;AF=0.238095;AN=42;AO=1120;CIGAR=1X;DP=3960;DPB=3960;DPRA=1.52602;EPP=2435.06;EPPR=6169.99;GTI=1;LEN=1;MEANALT=1;MQM=48.2875;MQMR=47.6373;NS=21;NUMALT=1;ODDS=1.07575;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39352;QR=100733;RO=2840;RPL=652;RPP=68.6508;RPPR=5.94943;RPR=468;RUN=1;SAF=652;SAP=68.6508;SAR=468;SRF=1389;SRP=5.94943;SRR=1451;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:141:141,0:141:5036:0:0:0,-42.4452,-446.538 0/0:53:53,0:53:1873:0:0:0,-15.9546,-161.398 0/1:211:91,120:91:3248:120:4231:-311.863,0,-225.629 0/1:260:110,150:110:3886:150:5262:-386.267,0,-263.98 0/1:323:109,214:109:3876:214:7538:-565.345,0,-245.717 0/1:148:55,93:55:1955:93:3280:-240.549,0,-123.782 0/1:342:154,188:154:5479:188:6582:-462.547,0,-367.967 0/1:266:171,95:171:6021:95:3310:-209.951,0,-446.153 0/0:348:336,12:336:11899:12:432:0,-66.2147,-1019.78 0/0:17:17,0:17:593:0:0:0,-5.11751,-52.3788 0/1:9:2,7:2:72:7:233:-18.3924,0,-3.72717 0/0:79:79,0:79:2804:0:0:0,-23.7814,-245.86 0/0:233:233,0:233:8292:0:0:0,-70.14,-736.546 0/0:197:196,1:196:6896:1:36:0,-55.7097,-606.356 0/0:395:395,0:395:14041:0:0:0,-118.907,-1241.91 0/0:78:78,0:78:2775:0:0:0,-23.4803,-246.623 0/1:124:42,82:42:1504:82:2903:-217.379,0,-96.3581 0/1:148:71,77:71:2510:77:2693:-194.22,0,-176.076 0/1:210:134,76:134:4733:76:2676:-172.878,0,-354.113 0/0:236:231,5:231:8216:5:176:0,-55.2549,-705.019 0/0:142:142,0:142:5024:0:0:0,-42.7463,-436.982 chr01 16258352 . TGCTTC CGATTC,TGATTG 104713 PASS AB=0.459369,0.534895;ABP=33.0082,25.1361;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2890,1137;CIGAR=1X1M1X3M,2M1X2M1X;DP=4053;DPB=4053.5;DPRA=0,1.54219;EPP=6278.57,2471.97;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.66667,3.30769;MQM=47.5879,48.4705;MQMR=0;NS=21;NUMALT=2;ODDS=0.43514;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=100622,39916;QR=0;RO=0;RPL=1420,649;RPP=4.88874,52.5149;RPPR=0;RPR=1470,488;RUN=1,1;SAF=1420,649;SAP=4.88874,52.5149;SAR=1470,488;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:142:0,141,0:0:0:141,0:4971,0:-441.874,-42.4452,0,-441.874,-42.4452,-441.874 1/1:52:0,52,0:0:0:52,0:1807,0:-157.504,-15.6536,0,-157.504,-15.6536,-157.504 1/2:219:0,93,126:0:0:93,126:3271,4403:-616.556,-353.367,-325.371,-263.535,0,-225.606 1/2:265:0,111,150:0:0:111,150:3860,5275:-729.459,-421.647,-388.233,-307.885,0,-262.731 1/2:330:0,113,216:0:0:113,216:3940,7577:-917.015,-601.672,-567.656,-315.395,0,-250.373 1/2:152:0,57,94:0:0:57,94:1990,3333:-416.881,-261.829,-244.67,-155.158,0,-126.861 1/2:351:0,159,191:0:0:159,191:5518,6702:-948.699,-518.849,-470.985,-429.826,0,-372.329 1/2:279:0,175,102:0:0:175,102:6047,3579:-762.837,-283.242,-230.562,-479.616,0,-448.911 1/1:357:0,344,12:0:0:344,12:11951,426:-1065.44,-103.554,0,-1031.35,-69.4206,-1027.74 1/1:18:0,18,0:0:0:18,0:633,0:-56.1516,-5.41854,0,-56.1516,-5.41854,-56.1516 1/2:8:0,2,6:0:0:2,6:72,213:-23.2019,-17.7103,-17.1082,-5.83438,0,-4.0282 1/1:81:0,81,0:0:0:81,0:2814,0:-247.867,-24.3834,0,-247.867,-24.3834,-247.867 1/1:237:0,237,0:0:0:237,0:8255,0:-734.934,-71.3441,0,-734.934,-71.3441,-734.934 1/1:207:0,203,1:0:0:203,1:7089,36:-628.574,-61.1091,0,-625.641,-58.1654,-625.34 1/1:403:0,400,0:0:0:400,0:13958,0:-1239.45,-120.412,0,-1239.45,-120.412,-1239.45 1/1:80:0,80,0:0:0:80,0:2769,0:-246.586,-24.0824,0,-246.586,-24.0824,-246.586 1/2:127:0,42,84:0:0:42,84:1464,2927:-350.829,-232.935,-220.292,-117.978,0,-92.6911 1/2:148:0,72,75:0:0:72,75:2463,2638:-407.827,-211.991,-190.317,-195.886,0,-173.309 1/2:213:0,137,75:0:0:137,75:4739,2627:-586.709,-208.702,-167.461,-378.015,0,-355.437 1/1:241:0,231,5:0:0:231,5:8074,180:-709.192,-69.5379,0,-694.893,-55.2331,-693.388 1/1:143:0,142,0:0:0:142,0:4937,0:-431.423,-42.7463,0,-431.423,-42.7463,-431.423 chr01 16258378 . TA GG,GA 41237.7 PASS AB=0.490811,0.504865;ABP=3.68874,3.20045;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1482,474;CIGAR=2X,1X1M;DP=1960;DPB=1960;DPRA=19.55,1.00273;EPP=3186.48,1014.99;EPPR=7.35324;GTI=1;LEN=2,1;MEANALT=1.6,2.09091;MQM=54.2179,59.5443;MQMR=60;NS=21;NUMALT=2;ODDS=5.05584;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51691,16904;QR=61;RO=2;RPL=1478,472;RPP=3186.48,1014.99;RPPR=7.35324;RPR=4,2;RUN=1,1;SAF=0,0;SAP=3221.13,1032.29;SAR=1482,474;SRF=0;SRP=7.35324;SRR=2;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77,0:0:0:77,0:2724,0:-245.048,-23.1793,0,-245.048,-23.1793,-245.048 1/1:29:0,29,0:0:0:29,0:1016,0:-90.7338,-8.72987,0,-90.7338,-8.72987,-90.7338 1/2:126:0,60,66:0:0:60,66:2110,2364:-364.235,-193.114,-175.052,-171.475,0,-151.607 1/2:96:1,41,53:1:25:41,53:1435,1879:-267.301,-151.168,-140.773,-114.532,0,-100.524 1/2:133:0,62,71:0:0:62,71:2148,2523:-380.045,-205.944,-187.28,-174.451,0,-153.078 1/2:58:0,17,41:0:0:17,41:588,1460:-166.873,-119.223,-114.106,-47.998,0,-35.6557 1/2:129:1,56,72:1:36:56,72:1976,2546:-363.841,-204.326,-190.406,-156.87,0,-138.134 1/2:145:0,92,53:0:0:92,53:3171,1896:-411.75,-154.935,-127.24,-257.168,0,-241.213 1/1:188:0,188,0:0:0:188,0:6524,0:-586.555,-56.5936,0,-586.555,-56.5936,-586.555 1/1:13:0,13,0:0:0:13,0:449,0:-40.0516,-3.91339,0,-40.0516,-3.91339,-40.0516 2/2:5:0,0,5:0:0:0,5:0,176:-16.185,-16.185,-16.185,-1.50515,-1.50515,0 1/1:37:0,37,0:0:0:37,0:1251,0:-112.735,-11.1381,0,-112.735,-11.1381,-112.735 1/1:137:0,137,0:0:0:137,0:4806,0:-432.083,-41.2411,0,-432.083,-41.2411,-432.083 1/1:115:0,115,0:0:0:115,0:4033,0:-361.692,-34.6185,0,-361.692,-34.6185,-361.692 1/1:240:0,240,0:0:0:240,0:8389,0:-753.198,-72.2472,0,-753.198,-72.2472,-753.198 1/1:23:0,23,0:0:0:23,0:793,0:-71.4841,-6.92369,0,-71.4841,-6.92369,-71.4841 1/2:47:0,26,20:0:0:26,20:917,716:-133.167,-58.5245,-50.6977,-74.7735,0,-68.7529 1/2:91:0,38,53:0:0:38,53:1323,1908:-263.171,-156.021,-144.582,-107.502,0,-91.5473 1/2:100:0,62,38:0:0:62,38:2141,1364:-284.706,-111.619,-92.955,-173.44,0,-162.001 1/1:98:0,96,2:0:0:96,2:3325,72:-298.261,-28.8989,0,-292.386,-22.6642,-291.783 1/1:73:0,73,0:0:0:73,0:2572,0:-229.976,-21.9752,0,-229.976,-21.9752,-229.976 chr01 16258394 . C T 29490.6 PASS AB=0.475359;ABP=8.14692;AC=30;AF=0.714286;AN=42;AO=1460;CIGAR=1X;DP=1990;DPB=1990;DPRA=12.3875;EPP=3173.36;EPPR=1151.72;GTI=1;LEN=1;MEANALT=1.05;MQM=54.1952;MQMR=58.6465;NS=21;NUMALT=1;ODDS=3.923;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51541;QR=18912;RO=529;RPL=1460;RPP=3173.36;RPPR=758.473;RPR=0;RUN=1;SAF=0;SAP=3173.36;SAR=1460;SRF=50;SRP=758.473;SRR=479;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:1,76:1:36:76:2724:-241.573,-19.9482,0 1/1:31:2,29:2:72:29:1025:-84.3281,-2.57056,0 0/1:136:77,59:77:2760:59:2061:-143.907,0,-207.552 0/1:101:59,42:59:2105:42:1465:-101.43,0,-159.195 0/1:141:78,63:78:2792:63:2209:-155.58,0,-209.023 0/1:58:41,17:41:1472:17:585:-35.3876,0,-115.046 0/1:123:68,55:68:2421:55:1934:-136.065,0,-180.795 0/1:148:58,90:58:2084:90:3197:-242.558,0,-143.15 1/1:180:0,180:0:0:180:6338:-569.856,-54.1854,0 0/1:23:10,13:10:360:13:441:-32.5708,0,-25.6431 0/0:8:8,0:8:269:0:0:0,-2.40824,-24.4638 1/1:38:2,36:2:72:36:1250:-105.783,-4.63948,0 1/1:139:2,137:2:72:137:4844:-428.595,-35.0289,0 1/1:113:0,113:0:0:113:3990:-357.313,-34.0164,0 1/1:239:1,238:1:36:238:8413:-750.302,-68.3597,0 1/1:21:0,21:0:0:21:733:-66.0453,-6.32163,0 0/1:48:24,24:24:860:24:864:-63.1177,0,-63.2529 0/1:97:59,38:59:2120:38:1360:-92.8234,0,-161.741 0/1:99:37,62:37:1309:62:2204:-167.945,0,-88.3052 1/1:97:2,95:2:72:95:3359:-294.822,-22.3632,0 1/1:72:0,72:0:0:72:2545:-226.73,-21.6742,0 chr01 16258434 . CCA TCA,TCG 32303.2 PASS AB=0.601307,0.395425;ABP=57.5668,61.1433;AC=33,9;AF=0.785714,0.214286;AN=42;AO=960,244;CIGAR=1X2M,1X1M1X;DP=1207;DPB=1207;DPRA=0,1.38646;EPP=137.678,9.98749;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.66667,2.18182;MQM=53.1719,56.1148;MQMR=0;NS=21;NUMALT=2;ODDS=7.5195;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34293,8602;QR=0;RO=0;RPL=358,136;RPP=137.678,9.98749;RPPR=0;RPR=602,108;RUN=1,1;SAF=960,244;SAP=2087.62,532.85;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:27:0,27,0:0:0:27,0:972,0:-87.1,-8.12781,0,-87.1,-8.12781,-87.1 1/1:23:0,23,0:0:0:23,0:828,0:-74.1674,-6.92369,0,-74.1674,-6.92369,-74.1674 1/2:135:0,90,45:0:0:90,45:3205,1579:-382.484,-128.447,-101.355,-254.385,0,-240.839 1/2:73:0,43,30:0:0:43,30:1542,1062:-208.878,-86.6169,-73.6726,-122.612,0,-113.581 1/2:59:0,40,19:0:0:40,19:1430,665:-168.806,-54.3316,-42.2904,-114.824,0,-109.105 1/2:18:0,9,8:0:0:9,8:324,273:-48.6219,-22.2053,-19.4961,-26.4773,0,-24.069 1/2:49:0,26,23:0:0:26,23:936,810:-142.314,-66.2906,-58.4638,-76.3784,0,-69.4548 1/2:125:0,67,57:0:0:67,57:2398,2024:-358.276,-164.474,-144.305,-193.876,0,-176.718 1/1:96:0,95,1:0:0:95,1:3399,33:-304.421,-28.5979,0,-301.758,-25.6043,-301.457 1/1:27:0,27,0:0:0:27,0:954,0:-83.5425,-8.12781,0,-83.5425,-8.12781,-83.5425 1/2:5:0,3,2:0:0:3,2:108,72:-14.6986,-6.23466,-5.33157,-8.81875,0,-8.21669 1/1:45:0,45,0:0:0:45,0:1584,0:-142.446,-13.5464,0,-142.446,-13.5464,-142.446 1/1:114:0,113,0:0:0:113,0:4026,0:-360.945,-34.0164,0,-360.945,-34.0164,-360.945 1/1:76:0,76,0:0:0:76,0:2723,0:-244.923,-22.8783,0,-244.923,-22.8783,-244.923 1/1:69:0,69,0:0:0:69,0:2467,0:-220.585,-20.7711,0,-220.585,-20.7711,-220.585 1/1:12:0,12,0:0:0:12,0:432,0:-37.6866,-3.61236,0,-37.6866,-3.61236,-37.6866 1/1:21:0,20,1:0:0:20,1:720,36:-63.5975,-6.0206,0,-60.668,-2.7324,-60.367 1/2:96:0,55,41:0:0:55,41:1953,1436:-274.371,-116.347,-99.7907,-158.373,0,-146.031 1/2:52:0,35,17:0:0:35,17:1256,612:-152.2,-50.1904,-39.6543,-102.368,0,-97.2507 1/1:48:0,48,0:0:0:48,0:1717,0:-154.435,-14.4494,0,-154.435,-14.4494,-154.435 1/1:37:0,37,0:0:0:37,0:1319,0:-118.892,-11.1381,0,-118.892,-11.1381,-118.892 chr01 16258518 . GCCAA ACCAG,ACCAA 25907.5 PASS AB=0.544554,0.445545;ABP=15.2006,21.2206;AC=27,14;AF=0.642857,0.333333;AN=42;AO=935,323;CIGAR=1X3M1X,1X4M;DP=1266;DPB=1266;DPRA=0,0.701646;EPP=2033.34,704.396;EPPR=16.0391;GTI=1;LEN=5,1;MEANALT=1.95238,2.11111;MQM=59.6021,59.9814;MQMR=60;NS=21;NUMALT=2;ODDS=0.661311;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32861,11553;QR=212;RO=6;RPL=0,0;RPP=2033.34,704.396;RPPR=16.0391;RPR=935,323;RUN=1,1;SAF=0,0;SAP=2033.34,704.396;SAR=935,323;SRF=0;SRP=16.0391;SRR=6;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,30,7:0:0:30,7:1045,252:-105.89,-20.9217,-11.8908,-85.3262,0,-83.219 1/2:20:0,13,7:0:0:13,7:434,252:-56.0312,-20.9217,-17.0084,-35.4601,0,-33.3529 1/2:92:2,29,60:2:72:29,60:1040,2156:-254.265,-170.042,-167.187,-78.978,0,-66.7913 1/2:55:0,33,22:0:0:33,22:1165,784:-159.125,-64.2613,-54.3273,-95.2189,0,-88.5962 1/2:65:0,26,39:0:0:26,39:925,1389:-188.949,-113.564,-105.737,-75.7407,0,-64.0005 1/2:42:0,12,30:0:0:12,30:421,1080:-122.733,-88.4823,-84.87,-34.6037,0,-25.5728 1/2:51:0,22,29:0:0:22,29:775,1035:-147.82,-84.7332,-78.1105,-63.4407,0,-54.7108 1/2:81:0,42,39:0:0:42,39:1448,1392:-231.34,-113.839,-101.196,-117.852,0,-106.112 1/1:144:0,138,5:0:0:138,5:4864,176:-437.467,-41.5421,0,-423.139,-27.2041,-421.634 1/1:12:0,11,1:0:0:11,1:378,36:-33.9734,-3.31133,0,-31.0347,-0.0140851,-30.7336 0/2:11:3,1,7:3:104:1,7:36,252:-19.6588,-17.6245,-25.7727,0,-5.50247,-6.336 1/1:65:0,64,1:0:0:64,1:2247,36:-202.122,-19.2659,0,-199.184,-15.9687,-198.883 1/1:138:0,138,0:0:0:138,0:4869,0:-438.244,-41.5421,0,-438.244,-41.5421,-438.244 1/1:69:0,69,0:0:0:69,0:2390,0:-215.343,-20.7711,0,-215.343,-20.7711,-215.343 1/2:122:1,103,18:1:36:103,18:3632,644:-344.908,-49.5748,-21.5063,-292.694,0,-290.213 1/2:15:0,11,4:0:0:11,4:391,144:-43.9688,-12.1095,-8.79817,-32.2179,0,-31.0138 1/2:13:0,6,7:0:0:6,7:216,252:-38.5463,-20.9217,-19.1156,-17.9843,0,-15.8771 1/2:54:0,25,29:0:0:25,29:857,1025:-153.4,-83.8308,-76.3051,-69.9164,0,-61.1865 1/2:49:0,32,17:0:0:32,17:1120,612:-141.413,-50.2955,-40.6626,-91.4734,0,-86.3559 1/1:95:0,94,1:0:0:94,1:3350,36:-301.349,-28.2968,0,-298.412,-24.9996,-298.111 1/1:36:0,36,0:0:0:36,0:1258,0:-113.487,-10.8371,0,-113.487,-10.8371,-113.487 chr01 16527942 . T A 15108.5 PASS AB=0.474876;ABP=10.7572;AC=10;AF=0.238095;AN=42;AO=678;CIGAR=1X;DP=2758;DPB=2758;DPRA=1.2155;EPP=1466.6;EPPR=4482.82;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.972;MQMR=59.9846;NS=21;NUMALT=1;ODDS=12.2017;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24216;QR=74028;RO=2079;RPL=307;RPP=16.1288;RPPR=234.719;RPR=371;RUN=1;SAF=306;SAP=16.9615;SAR=372;SRF=800;SRP=242.657;SRR=1279;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:140:139,1:139:4925:1:36:0,-38.5459,-439.804 0/0:106:106,0:106:3763:0:0:0,-31.9092,-338.869 0/1:67:26,41:26:927:41:1472:-112.607,0,-63.5784 0/1:192:94,98:94:3368:98:3512:-258.492,0,-245.538 0/1:181:71,110:71:2526:110:3941:-300.394,0,-173.104 0/1:152:84,68:84:2978:68:2416:-171.909,0,-222.494 0/1:193:112,81:112:3997:81:2897:-202.865,0,-301.82 0/1:124:51,73:51:1804:73:2603:-197.19,0,-125.311 0/0:193:193,0:193:6913:0:0:0,-58.0988,-622.235 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/0:40:40,0:40:1413:0:0:0,-12.0412,-127.465 0/0:97:96,1:96:3422:1:36:0,-25.6016,-304.595 0/0:147:147,0:147:5243:0:0:0,-44.2514,-472.006 0/0:203:203,0:203:7242:0:0:0,-61.1091,-651.833 0/0:84:84,0:84:3020:0:0:0,-25.2865,-272.03 0/1:95:54,41:54:1927:41:1453:-102.466,0,-145.108 0/1:232:141,90:141:4957:90:3198:-218.145,0,-376.374 0/1:172:107,65:107:3775:65:2328:-158.003,0,-288.171 0/0:181:176,5:176:6276:5:180:0,-37.9344,-548.155 0/0:129:129,0:129:4620:0:0:0,-38.8329,-415.963 chr01 16533451 . A G 12088.1 PASS AB=0.524781;ABP=4.83991;AC=32;AF=0.761905;AN=42;AO=488;CIGAR=1X;DP=652;DPB=652;DPRA=0;EPP=441.737;EPPR=128.356;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9652;MQMR=60;NS=21;NUMALT=1;ODDS=5.99748;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17419;QR=5788;RO=163;RPL=87;RPP=441.737;RPPR=128.356;RPR=401;RUN=1;SAF=488;SAP=1062.69;SAR=0;SRF=163;SRP=356.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,44:0:0:44:1557:-140.42,-13.2453,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 0/1:37:22,15:22:788:15:536:-37.4367,0,-60.1067 0/1:37:17,20:17:597:20:705:-52.6347,0,-42.918 0/1:60:25,35:25:900:35:1250:-94.7347,0,-63.2592 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 0/1:41:17,24:17:608:24:860:-65.3796,0,-42.7098 0/1:43:23,20:23:824:20:707:-51.0103,0,-61.539 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:32:0,32:0:0:32:1144:-103.27,-9.63296,0 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 1/1:60:0,59:0:0:59:2093:-188.426,-17.7608,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:17:9,8:9:275:8:288:-21.1499,0,-19.9294 0/1:38:21,17:21:752:17:603:-43.1604,0,-56.5671 0/1:46:15,31:15:540:31:1112:-86.544,0,-35.0892 1/1:49:0,49:0:0:49:1756:-158.324,-14.7505,0 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 chr01 16584115 . 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A G 11670.4 PASS AB=0.507321;ABP=3.64616;AC=10;AF=0.238095;AN=42;AO=696;CIGAR=1X;DP=2865;DPB=2865;DPRA=1.06214;EPP=1514.36;EPPR=4710.76;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9885;NS=21;NUMALT=1;ODDS=18.525;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24768;QR=77702;RO=2168;RPL=0;RPP=1514.36;RPPR=4710.76;RPR=696;RUN=1;SAF=696;SAP=1514.36;SAR=0;SRF=2168;SRP=4710.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:149:149,0:149:5348:0:0:0,-44.8535,-481.451 0/0:171:170,1:170:6084:1:36:0,-47.8779,-543.744 0/1:91:58,33:58:2080:33:1172:-78.3932,0,-160.077 0/1:236:90,146:90:3232:146:5199:-397.008,0,-220.058 0/1:220:128,91:128:4580:91:3241:-225.626,0,-346.08 0/1:149:61,88:61:2165:88:3102:-234.554,0,-150.262 0/1:220:121,99:121:4332:99:3529:-251.593,0,-323.829 0/1:137:61,76:61:2192:76:2715:-203.353,0,-156.304 0/0:282:282,0:282:10088:0:0:0,-84.8905,-907.855 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:15:4,11:4:140:11:396:-31.4673,0,-8.42913 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/0:146:146,0:146:5229:0:0:0,-43.9504,-470.746 0/0:176:175,1:175:6280:1:36:0,-49.383,-561.693 0/0:223:223,0:223:8020:0:0:0,-67.1297,-721.815 0/0:121:121,0:121:4328:0:0:0,-36.4246,-389.696 0/1:114:48,66:48:1720:66:2351:-177.532,0,-120.768 0/1:115:51,64:51:1828:64:2275:-170.394,0,-130.182 0/1:69:50,19:50:1792:19:680:-40.7581,0,-140.791 0/0:101:100,1:100:3596:1:36:0,-26.8058,-320.247 0/0:71:71,0:71:2556:0:0:0,-21.3731,-230.29 chr01 17300917 . T G 2909.73 PASS AB=0.470437;ABP=5.96328;AC=10;AF=0.238095;AN=42;AO=183;CIGAR=1X;DP=833;DPB=833;DPRA=0.963739;EPP=400.39;EPPR=1412.3;GTI=0;LEN=1;MEANALT=1.1;MQM=59.5738;MQMR=60;NS=21;NUMALT=1;ODDS=9.43993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6534;QR=23202;RO=649;RPL=0;RPP=400.39;RPPR=1412.3;RPR=183;RUN=1;SAF=0;SAP=400.39;SAR=183;SRF=0;SRP=1412.3;SRR=649;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:36:16,20:16:572:20:716:-53.9244,0,-40.9763 0/1:41:26,15:26:936:15:540:-36.5943,0,-72.2172 0/1:73:35,38:35:1233:38:1351:-99.9082,0,-89.2969 0/1:21:8,13:8:284:13:456:-35.0469,0,-19.5817 0/1:37:19,18:19:680:18:640:-46.7865,0,-50.3911 0/1:59:30,29:30:1080:29:1035:-75.569,0,-79.7525 0/0:89:89,0:89:3188:0:0:0,-26.7917,-287.144 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:6:3,3:3:108:3:108:-8.26553,0,-8.26899 0/0:12:12,0:12:424:0:0:0,-3.61236,-38.4964 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.659 0/0:42:42,0:42:1481:0:0:0,-12.6433,-133.582 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:17:12,5:12:432:5:176:-11.0642,0,-34.1037 0/1:69:36,32:36:1292:32:1152:-83.1557,0,-95.7539 0/1:30:20,10:20:712:10:360:-23.7134,0,-55.3758 0/0:89:89,0:89:3188:0:0:0,-26.7917,-287.144 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 chr01 17300925 . T C 2913.13 PASS AB=0.469697;ABP=6.16881;AC=10;AF=0.238095;AN=42;AO=186;CIGAR=1X;DP=847;DPB=847;DPRA=0.965854;EPP=406.904;EPPR=1438.35;GTI=0;LEN=1;MEANALT=1;MQM=59.5806;MQMR=60;NS=21;NUMALT=1;ODDS=9.39137;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6591;QR=23671;RO=661;RPL=0;RPP=406.904;RPPR=1438.35;RPR=186;RUN=1;SAF=0;SAP=406.904;SAR=186;SRF=0;SRP=1438.35;SRR=661;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:38,0:38:1337:0:0:0,-11.4391,-120.628 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:36:16,20:16:572:20:703:-52.7502,0,-40.9763 0/1:42:27,15:27:968:15:540:-36.2933,0,-74.7941 0/1:72:35,37:35:1256:37:1305:-96.075,0,-91.6711 0/1:24:9,15:9:324:15:528:-40.6199,0,-22.2811 0/1:40:20,20:20:720:20:716:-52.7198,0,-53.0876 0/1:58:30,28:30:1080:28:987:-71.55,0,-80.0535 0/0:90:90,0:90:3232:0:0:0,-27.0927,-291.101 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:6:3,3:3:108:3:108:-8.26553,0,-8.26899 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:54:54,0:54:1923:0:0:0,-16.2556,-173.346 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/0:44:44,0:44:1563:0:0:0,-13.2453,-140.961 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:18:13,5:13:464:5:180:-11.1252,0,-36.679 0/1:70:37,33:37:1332:33:1172:-84.7135,0,-99.1103 0/1:30:20,10:20:720:10:352:-22.9873,0,-56.0979 0/0:92:92,0:92:3304:0:0:0,-27.6948,-297.578 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 chr01 18104826 . CA GG,GA 31666.5 PASS AB=0.515313,0.482024;ABP=4.53987,5.11816;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1126,363;CIGAR=2X,1X1M;DP=1492;DPB=1492;DPRA=0,1.0203;EPP=2448.09,791.255;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=1.61905,2.09091;MQM=54.0329,53.7245;MQMR=60;NS=21;NUMALT=2;ODDS=12.1385;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40041,12966;QR=36;RO=1;RPL=0,0;RPP=2448.09,791.255;RPPR=5.18177;RPR=1126,363;RUN=1,1;SAF=1126,363;SAP=2448.09,791.255;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,60,0:0:0:60,0:2141,0:-192.256,-18.0618,0,-192.256,-18.0618,-192.256 1/1:137:0,137,0:0:0:137,0:4843,0:-433.373,-41.2411,0,-433.373,-41.2411,-433.373 1/2:70:0,25,44:0:0:25,44:878,1561:-198.347,-126.94,-119.414,-71.5053,0,-58.26 1/2:54:0,34,20:0:0:34,20:1191,712:-154.9,-58.1254,-47.8904,-97.1271,0,-91.1065 1/2:102:0,51,51:0:0:51,51:1813,1821:-295.449,-148.321,-132.969,-147.483,0,-132.131 1/2:49:0,18,31:0:0:18,31:648,1088:-140.877,-88.1739,-82.7554,-53.0582,0,-43.7262 1/2:77:0,39,38:0:0:39,38:1392,1368:-224.468,-111.655,-99.9145,-113.171,0,-101.732 1/2:64:0,33,31:0:0:33,31:1177,1108:-185.4,-90.503,-80.569,-95.2522,0,-85.9203 1/1:102:0,102,0:0:0:102,0:3629,0:-326.37,-30.7051,0,-326.37,-30.7051,-326.37 1/1:12:0,12,0:0:0:12,0:432,0:-39.1564,-3.61236,0,-39.1564,-3.61236,-39.1564 1/2:7:0,4,3:0:0:4,3:144,108:-20.8639,-9.14675,-7.94263,-12.076,0,-11.1729 1/1:21:0,21,0:0:0:21,0:752,0:-67.7495,-6.32163,0,-67.7495,-6.32163,-67.7495 1/1:94:0,93,0:0:0:93,0:3294,0:-295.626,-27.9958,0,-295.626,-27.9958,-295.626 1/1:55:0,55,0:0:0:55,0:1939,0:-174.56,-16.5567,0,-174.56,-16.5567,-174.56 1/1:105:0,105,0:0:0:105,0:3753,0:-337.233,-31.6082,0,-337.233,-31.6082,-337.233 1/1:38:0,37,1:0:0:37,1:1330,36:-119.608,-11.1381,0,-116.67,-7.84087,-116.369 1/2:47:0,26,21:0:0:26,21:923,752:-136.777,-61.6093,-53.7825,-75.5244,0,-69.2027 1/2:117:1,58,58:1:36:58,58:2056,2084:-333.207,-166.547,-152.024,-164.02,0,-149.498 1/2:164:0,99,65:0:0:99,65:3547,2328:-478.146,-189.684,-159.882,-288.819,0,-269.252 1/1:71:0,71,0:0:0:71,0:2505,0:-225.073,-21.3731,0,-225.073,-21.3731,-225.073 1/1:46:0,46,0:0:0:46,0:1654,0:-147.749,-13.8474,0,-147.749,-13.8474,-147.749 chr01 18104836 . AAGCCTCT GAGCCTCC,GAGCTTCC 31599.6 PASS AB=0.505992,0.48735;ABP=3.24451,4.05411;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1095,366;CIGAR=1X6M1X,1X3M1X2M1X;DP=1473;DPB=1473;DPRA=0,1.14418;EPP=2235.4,780.492;EPPR=5.18177;GTI=0;LEN=8,8;MEANALT=2,2.4;MQM=54.242,53.7923;MQMR=60;NS=21;NUMALT=2;ODDS=10.773;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38868,12804;QR=36;RO=1;RPL=17,2;RPP=2235.4,780.492;RPPR=5.18177;RPR=1078,364;RUN=1,1;SAF=1095,366;SAP=2380.77,797.769;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,56,0:0:0:56,0:2004,0:-179.761,-16.8577,0,-179.761,-16.8577,-179.761 1/1:132:0,131,0:0:0:131,0:4645,0:-415.785,-39.4349,0,-415.785,-39.4349,-415.785 1/2:70:0,25,45:0:0:25,45:883,1563:-198.814,-126.957,-119.431,-72.2079,0,-58.6616 1/2:55:0,33,21:0:0:33,21:1180,721:-154.506,-58.4093,-48.4753,-96.1444,0,-89.8228 1/2:102:0,49,52:0:0:49,52:1750,1822:-289.94,-147.804,-133.053,-142.146,0,-126.492 1/2:50:0,19,30:0:0:19,30:684,1050:-140.836,-85.205,-79.4854,-55.7451,0,-46.7142 1/2:76:0,38,38:0:0:38,38:1341,1330:-217.003,-108.287,-96.8476,-109.066,0,-97.6273 1/2:63:0,31,32:0:0:31,32:1104,1107:-179.87,-90.1451,-80.8132,-90.0753,0,-80.4424 1/1:101:0,99,0:0:0:99,0:3489,0:-313.495,-29.802,0,-313.495,-29.802,-313.495 1/1:12:0,12,0:0:0:12,0:420,0:-38.0776,-3.61236,0,-38.0776,-3.61236,-38.0776 1/2:7:0,4,3:0:0:4,3:144,106:-20.6846,-8.96377,-7.75965,-12.076,0,-11.1729 1/1:20:0,20,0:0:0:20,0:716,0:-64.5169,-6.0206,0,-64.5169,-6.0206,-64.5169 1/1:90:0,89,0:0:0:89,0:3141,0:-282.234,-26.7917,0,-282.234,-26.7917,-282.234 1/1:53:0,53,0:0:0:53,0:1875,0:-168.813,-15.9546,0,-168.813,-15.9546,-168.813 1/1:105:0,105,0:0:0:105,0:3748,0:-336.886,-31.6082,0,-336.886,-31.6082,-336.886 1/1:38:0,38,0:0:0:38,0:1356,0:-122.307,-11.4391,0,-122.307,-11.4391,-122.307 1/2:47:0,26,21:0:0:26,21:923,745:-136.142,-60.9787,-53.1519,-75.5174,0,-69.1958 1/2:118:1,58,59:1:36:58,59:2053,2078:-332.126,-165.729,-151.207,-163.752,0,-148.929 1/2:163:0,97,65:0:0:97,65:3425,2282:-463.474,-185.124,-155.924,-278.47,0,-258.904 1/1:69:0,68,0:0:0:68,0:2440,0:-218.939,-20.47,0,-218.939,-20.47,-218.939 1/1:45:0,44,0:0:0:44,0:1547,0:-138.342,-13.2453,0,-138.342,-13.2453,-138.342 chr01 18181938 . A T 5338.81 PASS AB=0.447439;ABP=20.8152;AC=10;AF=0.238095;AN=42;AO=334;CIGAR=1X;DP=1502;DPB=1502;DPRA=0.966533;EPP=719.622;EPPR=2519.78;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9281;MQMR=60;NS=21;NUMALT=1;ODDS=15.6063;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11929;QR=41630;RO=1167;RPL=333;RPP=719.622;RPPR=2519.78;RPR=1;RUN=1;SAF=0;SAP=728.282;SAR=334;SRF=0;SRP=2537.12;SRR=1167;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:102:102,0:102:3640:0:0:0,-30.7051,-327.803 0/0:57:57,0:57:2020:0:0:0,-17.1587,-182.07 0/1:39:19,20:19:665:20:720:-53.3886,0,-48.4326 0/1:59:37,22:37:1328:22:784:-53.1226,0,-102.061 0/1:163:90,73:90:3189:73:2590:-184.25,0,-238.164 0/1:42:26,16:26:923:16:576:-39.5317,0,-70.7435 0/1:120:66,53:66:2360:53:1875:-132.842,0,-176.476 0/1:116:54,62:54:1910:62:2232:-166.224,0,-137.254 0/0:146:146,0:146:5199:0:0:0,-43.9504,-468.049 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:93:93,0:93:3344:0:0:0,-27.9958,-301.176 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.211 0/0:122:122,0:122:4357:0:0:0,-36.7257,-392.304 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/1:38:22,16:22:784:16:576:-40.7358,0,-59.4448 0/1:94:50,44:50:1780:44:1576:-113.835,0,-132.186 0/1:56:41,15:41:1468:15:532:-31.3554,0,-115.558 0/0:61:61,0:61:2175:0:0:0,-18.3628,-196.016 0/0:32:30,2:30:1080:2:72:0,-2.79624,-90.6765 chr01 18530766 . T C 36239.9 PASS AB=0.65493;ABP=180.643;AC=31;AF=0.738095;AN=42;AO=1378;CIGAR=1X;DP=1765;DPB=1765;DPRA=0;EPP=44.366;EPPR=5.97854;GTI=0;LEN=1;MEANALT=1;MQM=53.4702;MQMR=59.7209;NS=21;NUMALT=1;ODDS=32.1283;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48840;QR=13800;RO=387;RPL=0;RPP=2995.3;RPPR=843.37;RPR=1378;RUN=1;SAF=608;SAP=44.366;SAR=770;SRF=182;SRP=5.97854;SRR=205;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:1,77:1:36:77:2751:-241.763,-19.8821,0 1/1:66:0,66:0:0:66:2347:-207.031,-19.868,0 0/1:29:13,16:13:468:16:559:-41.6796,0,-33.7298 0/1:63:26,37:26:928:37:1315:-98.5186,0,-64.8672 0/1:116:44,72:44:1569:72:2532:-190.562,0,-106.558 0/1:61:32,29:32:1152:29:1018:-70.7818,0,-85.6051 0/1:93:38,55:38:1364:55:1952:-143.779,0,-95.0473 0/1:66:30,36:30:1048:36:1286:-93.613,0,-74.7464 1/1:86:0,86:0:0:86:3056:-272.735,-25.8886,0 1/1:134:2,132:2:68:132:4663:-412.03,-33.8803,0 0/0:87:85,2:85:3019:2:72:0,-19.4263,-265.179 1/1:119:1,118:1:36:118:4177:-372.05,-32.2243,0 1/1:51:2,49:2:72:49:1751:-149.514,-8.51581,0 1/1:33:0,33:0:0:33:1165:-104.841,-9.93399,0 1/1:75:0,75:0:0:75:2665:-238.591,-22.5773,0 1/1:51:0,51:0:0:51:1803:-162.079,-15.3525,0 0/1:38:17,21:17:612:21:739:-55.1693,0,-43.9743 0/1:299:65,234:65:2324:234:8235:-649.867,0,-119.39 0/1:87:29,58:29:1036:58:2075:-159.552,0,-67.3455 1/1:46:1,45:1:32:45:1599:-139.127,-10.6481,0 1/1:87:1,86:1:36:86:3080:-268.627,-22.5913,0 chr01 18548926 . T C 17736.5 PASS AB=0.436479;ABP=69.4949;AC=10;AF=0.238095;AN=42;AO=833;CIGAR=1X;DP=3808;DPB=3808;DPRA=0.886744;EPP=1811.85;EPPR=6454.46;GTI=0;LEN=1;MEANALT=1;MQM=59.9688;MQMR=59.9886;NS=21;NUMALT=1;ODDS=32.2096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29443;QR=106129;RO=2975;RPL=511;RPP=96.1281;RPPR=192.115;RPR=322;RUN=1;SAF=511;SAP=96.1281;SAR=322;SRF=1741;SRP=190.632;SRR=1234;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:207:205,2:205:7308:2:72:0,-55.4765,-650.935 0/0:191:191,0:191:6838:0:0:0,-57.4967,-615.489 0/1:113:59,54:59:2116:54:1917:-138.79,0,-156.692 0/1:263:138,125:138:4943:125:4431:-319.793,0,-365.762 0/1:355:205,150:205:7282:150:5270:-367.516,0,-548.567 0/1:191:109,82:109:3876:82:2898:-203.558,0,-291.538 0/1:332:185,147:185:6585:147:5214:-369.459,0,-492.756 0/1:174:99,75:99:3531:75:2628:-184.386,0,-265.621 0/0:315:315,0:315:11241:0:0:0,-94.8244,-1011.58 0/0:31:30,1:30:1072:1:32:0,-6.13262,-93.5931 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/0:53:53,0:53:1895:0:0:0,-15.9546,-170.827 0/0:216:216,0:216:7671:0:0:0,-65.0225,-690.431 0/0:184:184,0:184:6564:0:0:0,-55.3895,-590.842 0/0:261:261,0:261:9330:0:0:0,-78.5688,-839.666 0/0:153:153,0:153:5470:0:0:0,-46.0576,-492.427 0/1:168:84,84:84:2995:84:2976:-217.499,0,-219.209 0/1:180:102,78:102:3635:78:2753:-193.827,0,-273.17 0/1:107:82,25:82:2940:25:896:-48.7501,0,-232.624 0/0:212:211,1:211:7518:1:32:0,-60.619,-673.466 0/0:88:87,1:87:3103:1:36:0,-22.8924,-275.899 chr01 18708830 . AAAGTGG GAAGGGA,GAAGGGG 16876.3 PASS AB=0.535398,0.457965;ABP=7.92974,9.94748;AC=34,8;AF=0.809524,0.190476;AN=42;AO=639,207;CIGAR=1X3M1X1M1X,1X3M1X2M;DP=855;DPB=855;DPRA=0,1.82258;EPP=1390.58,452.505;EPPR=0;GTI=0;LEN=7,7;MEANALT=1.80952,2.375;MQM=54.0861,59.8357;MQMR=0;NS=21;NUMALT=2;ODDS=1.50058;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21879,7069;QR=0;RO=0;RPL=0,0;RPP=1390.58,452.505;RPPR=0;RPR=639,207;RUN=1,1;SAF=0,0;SAP=1390.58,452.505;SAR=639,207;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:30:0,29,0:0:0:29,0:988,0:-88.8824,-8.72987,0,-88.8824,-8.72987,-88.8824 1/1:15:0,15,0:0:0:15,0:517,0:-46.7614,-4.51545,0,-46.7614,-4.51545,-46.7614 1/2:62:0,33,27:0:0:33,27:1133,932:-167.618,-75.725,-65.791,-91.8988,0,-83.771 1/2:53:0,33,19:0:0:33,19:1129,661:-145.288,-53.7355,-43.8015,-91.5392,0,-85.8196 1/2:27:0,20,7:0:0:20,7:694,229:-75.2035,-18.8217,-12.8011,-56.7138,0,-54.6066 1/1:11:0,11,0:0:0:11,0:376,0:-34.0987,-3.31133,0,-34.0987,-3.31133,-34.0987 1/2:26:0,15,11:0:0:15,11:518,389:-74.0139,-32.0369,-27.5215,-42.3266,0,-39.0153 1/2:60:0,37,23:0:0:37,23:1249,763:-162.863,-61.7827,-50.6446,-101.413,0,-94.4898 1/1:47:0,47,0:0:0:47,0:1601,0:-144.207,-14.1484,0,-144.207,-14.1484,-144.207 1/1:10:0,10,0:0:0:10,0:321,0:-29.1661,-3.0103,0,-29.1661,-3.0103,-29.1661 1/1:6:0,6,0:0:0:6,0:204,0:-18.6299,-1.80618,0,-18.6299,-1.80618,-18.6299 1/1:24:0,24,0:0:0:24,0:837,0:-75.3158,-7.22472,0,-75.3158,-7.22472,-75.3158 1/1:47:0,47,0:0:0:47,0:1623,0:-146.082,-14.1484,0,-146.082,-14.1484,-146.082 1/1:41:0,39,0:0:0:39,0:1317,0:-118.448,-11.7402,0,-118.448,-11.7402,-118.448 1/1:46:0,46,0:0:0:46,0:1562,0:-140.251,-13.8474,0,-140.251,-13.8474,-140.251 1/1:22:0,22,0:0:0:22,0:768,0:-69.4242,-6.62266,0,-69.4242,-6.62266,-69.4242 1/2:15:0,9,6:0:0:9,6:300,204:-41.1593,-16.8871,-14.1778,-24.6094,0,-22.8032 1/2:171:0,68,103:0:0:68,103:2366,3510:-476.876,-285.119,-264.649,-192.101,0,-161.095 1/2:38:0,27,11:0:0:27,11:911,381:-105.091,-31.3121,-23.1843,-74.1222,0,-70.8108 1/1:57:0,56,0:0:0:56,0:1940,0:-174.107,-16.8577,0,-174.107,-16.8577,-174.107 1/1:47:0,45,0:0:0:45,0:1525,0:-136.54,-13.5464,0,-136.54,-13.5464,-136.54 chr01 18708867 . CCG CCA 12719.7 PASS AB=0.534831;ABP=7.6997;AC=34;AF=0.809524;AN=42;AO=623;CIGAR=2M1X;DP=835;DPB=835;DPRA=0;EPP=1355.84;EPPR=452.505;GTI=0;LEN=1;MEANALT=1.14286;MQM=54.2472;MQMR=59.8357;NS=21;NUMALT=1;ODDS=0.329785;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22073;QR=7188;RO=207;RPL=623;RPP=1355.84;RPPR=452.505;RPR=0;RUN=1;SAF=0;SAP=1355.84;SAR=623;SRF=0;SRP=452.505;SRR=207;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:29:0,29:0:0:29:1021:-91.7612,-8.72987,0 1/1:14:0,14:0:0:14:488:-44.1552,-4.21442,0 0/1:62:28,34:28:968:34:1195:-89.0624,0,-68.7661 0/1:52:19,33:19:676:33:1168:-89.6803,0,-45.5147 0/1:27:7,20:7:249:20:712:-56.2187,0,-14.6276 1/1:12:0,12:0:0:12:428:-38.7733,-3.61236,0 0/1:25:11,14:11:368:14:492:-36.9752,0,-25.9156 0/1:60:23,37:23:792:37:1324:-101.133,0,-53.2137 1/1:48:0,48:0:0:48:1712:-154.195,-14.4494,0 1/1:9:0,9:0:0:9:320:-29.0899,-2.70927,0 1/1:5:0,5:0:0:5:176:-16.1404,-1.50515,0 1/1:24:0,24:0:0:24:848:-76.2298,-7.22472,0 1/1:46:0,46:0:0:46:1632:-146.678,-13.8474,0 1/1:40:0,40:0:0:40:1428:-128.548,-12.0412,0 1/1:44:0,44:0:0:44:1572:-141.009,-13.2453,0 1/1:22:0,21:0:0:21:744:-67.0624,-6.32163,0 0/1:14:6,8:6:214:8:288:-22.0456,0,-15.3933 0/1:168:102,66:102:3547:66:2364:-161.697,0,-268.872 0/1:37:11,26:11:374:26:899:-70.0178,0,-22.8498 1/1:54:0,50:0:0:50:1764:-158.447,-15.0515,0 1/1:43:0,43:0:0:43:1498:-134.407,-12.9443,0 chr01 18912431 . TGT AGC,AGT 28218.4 PASS AB=0.476056,0.522535;ABP=6.54582,6.14211;AC=32,10;AF=0.761905,0.238095;AN=42;AO=967,373;CIGAR=1X1M1X,1X2M;DP=1342;DPB=1342;DPRA=0,1.13131;EPP=2102.82,812.97;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.66667,2.08333;MQM=56.1375,59.6917;MQMR=0;NS=21;NUMALT=2;ODDS=5.63089;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34182,13296;QR=0;RO=0;RPL=967,373;RPP=2102.82,812.97;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2102.82,812.97;SAR=967,373;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,70,0:0:0:70,0:2430,0:-217.988,-21.0721,0,-217.988,-21.0721,-217.988 1/1:57:0,57,0:0:0:57,0:2040,0:-183.444,-17.1587,0,-183.444,-17.1587,-183.444 1/2:92:0,46,46:0:0:46,46:1629,1652:-267.657,-135.114,-121.267,-132.899,0,-119.052 1/2:51:0,17,34:0:0:17,34:610,1205:-146.617,-98.5188,-93.4013,-48.4482,0,-38.2132 1/2:169:0,76,92:0:0:76,92:2712,3270:-486.952,-266.373,-243.494,-220.585,0,-192.89 1/2:63:0,27,36:0:0:27,36:960,1296:-184.315,-106.107,-97.979,-78.5655,0,-67.7284 1/2:107:0,50,57:0:0:50,57:1789,2039:-312.14,-166.617,-151.566,-145.879,0,-128.721 1/2:29:0,15,14:0:0:15,14:534,500:-84.6211,-41.1187,-36.6032,-43.8588,0,-39.6444 1/1:77:0,76,1:0:0:76,1:2702,36:-242.91,-22.8783,0,-239.972,-19.581,-239.671 1/1:20:0,19,1:0:0:19,1:671,36:-60.331,-5.71957,0,-57.3932,-2.42233,-57.0922 1/2:8:0,7,1:0:0:7,1:236,36:-22.396,-3.29624,-1.18903,-19.4567,0,-19.1556 1/1:32:0,32,0:0:0:32,0:1150,0:-103.763,-9.63296,0,-103.763,-9.63296,-103.763 1/1:62:0,62,0:0:0:62,0:2198,0:-197.54,-18.6639,0,-197.54,-18.6639,-197.54 1/1:78:0,78,0:0:0:78,0:2735,0:-245.759,-23.4803,0,-245.759,-23.4803,-245.759 1/1:108:0,108,0:0:0:108,0:3805,0:-341.643,-32.5112,0,-341.643,-32.5112,-341.643 1/1:30:0,30,0:0:0:30,0:1055,0:-95.2313,-9.0309,0,-95.2313,-9.0309,-95.2313 1/2:60:0,29,31:0:0:29,31:1027,1093:-172.923,-89.3439,-80.614,-83.9317,0,-74.5998 1/2:82:0,39,43:0:0:39,43:1388,1536:-238.447,-125.454,-113.714,-113.349,0,-100.405 1/2:49:0,32,17:0:0:32,17:1109,597:-139.005,-48.9386,-39.3057,-90.4156,0,-85.2981 1/1:59:0,59,0:0:0:59,0:2067,0:-186.082,-17.7608,0,-186.082,-17.7608,-186.082 1/1:38:0,38,0:0:0:38,0:1335,0:-120.374,-11.4391,0,-120.374,-11.4391,-120.374 chr01 18956758 . CTTT TTTT,TTTC 45357.5 PASS AB=0.501212,0.495395;ABP=3.03661,3.39028;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1364,1022;CIGAR=1X3M,1X2M1X;DP=2394;DPB=2394;DPRA=0,1.4665;EPP=2921.63,2179.04;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.19048,2.41176;MQM=36.9318,58.407;MQMR=0;NS=21;NUMALT=2;ODDS=6.12734;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47730,36252;QR=0;RO=0;RPL=5,5;RPP=2921.63,2179.04;RPPR=0;RPR=1359,1017;RUN=1,1;SAF=1364,1022;SAP=2964.9,2222.26;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:110:0,83,27:0:0:83,27:2936,961:-301.728,-78.6755,-53.69,-223.403,0,-215.275 1/2:167:0,78,89:0:0:78,89:2547,3166:-443.202,-257.912,-234.431,-185.614,0,-158.823 1/2:92:0,49,43:0:0:49,43:1748,1536:-258.744,-125.584,-110.834,-133.506,0,-120.562 1/2:129:0,67,60:0:0:67,60:2388,2127:-355.069,-173.24,-153.071,-181.853,0,-163.792 1/2:238:0,124,113:0:0:124,113:4378,4013:-660.501,-327.012,-289.685,-333.582,0,-299.565 1/2:48:0,25,23:0:0:25,23:812,820:-125.896,-67.1424,-59.6166,-59.0801,0,-52.1564 1/2:149:0,60,88:0:0:60,88:1942,3118:-394.669,-253.792,-235.73,-140.847,0,-114.357 1/2:99:0,52,47:0:0:52,47:1854,1659:-272.767,-135.379,-119.726,-137.728,0,-123.58 1/1:185:0,184,0:0:0:184,0:6566,0:-566.439,-55.3895,0,-566.439,-55.3895,-566.439 1/1:8:0,8,0:0:0:8,0:280,0:-23.353,-2.40824,0,-23.353,-2.40824,-23.353 1/2:7:0,1,5:0:0:1,5:33,180:-17.1025,-14.7118,-14.4108,-2.39016,0,-0.885013 1/2:35:0,24,11:0:0:24,11:857,396:-96.0433,-32.6614,-25.4366,-63.7313,0,-60.42 1/2:187:0,104,83:0:0:104,83:3676,2930:-518.917,-238.73,-207.423,-280.53,0,-255.545 1/2:126:0,46,79:0:0:46,79:1626,2814:-352.945,-229.317,-215.469,-123.61,0,-99.8287 1/2:179:0,60,118:0:0:60,118:2148,4176:-503.72,-339.865,-321.803,-163.897,0,-128.375 1/2:91:0,35,56:0:0:35,56:1229,1983:-256.677,-161.797,-151.261,-95.2224,0,-78.3648 1/2:149:0,73,76:0:0:73,76:2584,2694:-420.66,-219.799,-197.824,-201.208,0,-178.33 1/2:110:0,54,56:0:0:54,56:1920,1973:-303.233,-160.92,-144.665,-142.652,0,-125.794 1/2:147:0,99,48:0:0:99,48:3531,1706:-407.87,-139.311,-109.509,-268.907,0,-254.458 1/1:63:0,63,0:0:0:63,0:2226,0:-183.88,-18.9649,0,-183.88,-18.9649,-183.88 1/1:75:0,75,0:0:0:75,0:2449,0:-200.438,-22.5773,0,-200.438,-22.5773,-200.438 chr01 18956882 . AGTCCTCTCA GGTCTCTCA,GGTCCTCTCA 43690.4 PASS AB=0.494545,0.494545;ABP=3.50776,3.50776;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1315,955;CIGAR=1X2M1D6M,1X9M;DP=2295;DPB=2161.7;DPRA=0,1.20923;EPP=2841.15,2042.17;EPPR=0;GTI=0;LEN=9,1;MEANALT=3,3.11111;MQM=53.5072,59.9131;MQMR=0;NS=21;NUMALT=2;ODDS=11.5939;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43981,33820;QR=0;RO=0;RPL=2,4;RPP=2841.15,2042.17;RPPR=0;RPR=1313,951;RUN=1,1;SAF=0,0;SAP=2858.5,2076.77;SAR=1315,955;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,61,69:0:0:61,69:2014,2455:-363.017,-200.433,-182.071,-162.926,0,-142.155 1/2:68:0,24,44:0:0:24,44:825,1554:-193.474,-126.894,-119.669,-66.9262,0,-53.6809 1/2:102:0,48,51:0:0:48,51:1610,1798:-276.333,-146.416,-131.967,-129.929,0,-114.576 1/2:128:0,73,55:0:0:73,55:2404,1946:-352.898,-158.858,-136.883,-194.383,0,-177.826 1/2:272:0,105,164:0:0:105,164:3545,5821:-760.715,-474.251,-442.643,-286.455,0,-237.086 1/2:129:0,70,59:0:0:70,59:2318,2091:-357.391,-170.697,-149.625,-187.037,0,-169.276 1/2:173:0,98,73:0:0:98,73:3338,2584:-480.05,-210.485,-180.984,-269.565,0,-247.59 1/2:120:0,54,64:0:0:54,64:1812,2264:-330.749,-184.473,-168.217,-146.338,0,-127.072 1/1:208:0,206,0:0:0:206,0:6879,0:-618.137,-62.0122,0,-618.137,-62.0122,-618.137 1/1:13:0,13,0:0:0:13,0:444,0:-40.2107,-3.91339,0,-40.2107,-3.91339,-40.2107 1/2:6:0,2,4:0:0:2,4:70,144:-17.7839,-12.1095,-11.5074,-6.02695,0,-4.82283 1/2:42:0,23,19:0:0:23,19:791,680:-119.912,-55.8096,-48.8859,-64.4538,0,-58.7343 1/2:67:0,37,29:0:0:37,29:1231,1028:-183.188,-83.8304,-72.6923,-99.4286,0,-90.6987 1/2:130:0,79,48:0:0:79,48:2485,1716:-339.558,-139.977,-116.196,-199.623,0,-185.174 1/2:214:0,110,99:0:0:110,99:3780,3514:-592.259,-286.315,-253.202,-305.942,0,-276.14 1/2:100:0,45,54:0:0:45,54:1509,1913:-278.073,-155.918,-142.372,-122.227,0,-105.971 1/2:137:0,61,76:0:0:61,76:2041,2677:-383.185,-218.295,-199.932,-165.232,0,-142.354 1/2:57:0,28,28:0:0:28,28:981,978:-158.681,-79.5597,-71.1309,-79.1264,0,-70.6976 1/2:50:0,34,16:0:0:34,16:1144,549:-137.244,-44.6434,-34.4083,-92.9406,0,-88.1241 1/1:92:0,89,3:0:0:89,3:2896,108:-259.256,-26.7917,0,-250.443,-17.6196,-249.54 1/1:57:0,55,0:0:0:55,0:1864,0:-167.01,-16.5567,0,-167.01,-16.5567,-167.01 chr01 19080058 . TA CG,CA 28981.8 PASS AB=0.543478,0.454969;ABP=13.5844,14.3532;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1072,297;CIGAR=2X,1X1M;DP=1371;DPB=1371.5;DPRA=0,1.18353;EPP=2322.15,647.938;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.71429,2.07692;MQM=59.9636,59.9798;MQMR=0;NS=21;NUMALT=2;ODDS=2.70849;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=37684,10608;QR=0;RO=0;RPL=1072,297;RPP=2330.83,647.938;RPPR=0;RPR=0,0;RUN=1,1;SAF=1071,297;SAP=2322.15,647.938;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,79,1:0:0:79,1:2722,36:-244.861,-23.7814,0,-241.924,-20.4841,-241.623 1/1:38:0,38,0:0:0:38,0:1345,0:-121.35,-11.4391,0,-121.35,-11.4391,-121.35 1/2:96:0,49,47:0:0:49,47:1736,1680:-278.756,-137.339,-122.588,-141.773,0,-127.624 1/2:68:0,36,32:0:0:36,32:1265,1140:-196.237,-93.2762,-82.4392,-103.314,0,-93.6813 1/2:37:0,21,16:0:0:21,16:721,572:-105.53,-46.9969,-40.6753,-58.8846,0,-54.0682 1/2:72:0,44,28:0:0:44,28:1555,1008:-209.185,-82.5495,-69.3042,-126.936,0,-118.507 1/2:60:0,40,20:0:0:40,20:1406,703:-172.014,-57.5706,-45.5294,-114.795,0,-108.774 1/2:65:0,32,33:0:0:32,33:1141,1188:-190.303,-97.2946,-87.6616,-93.3665,0,-83.4325 1/1:142:0,142,0:0:0:142,0:5016,0:-451.588,-42.7463,0,-451.588,-42.7463,-451.588 1/1:13:0,13,0:0:0:13,0:441,0:-39.8544,-3.91339,0,-39.8544,-3.91339,-39.8544 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/1:16:0,16,0:0:0:16,0:572,0:-51.8134,-4.81648,0,-51.8134,-4.81648,-51.8134 1/1:96:0,94,2:0:0:94,2:3313,72:-298.032,-28.2968,0,-292.157,-22.0622,-291.555 1/1:106:0,105,0:0:0:105,0:3706,0:-333.492,-31.6082,0,-333.492,-31.6082,-333.492 1/1:82:0,81,1:0:0:81,1:2856,36:-256.92,-24.3834,0,-253.982,-21.0862,-253.681 1/1:56:0,56,0:0:0:56,0:1975,0:-178.023,-16.8577,0,-178.023,-16.8577,-178.023 1/2:68:0,39,29:0:0:39,29:1379,1035:-197.046,-84.7331,-72.9929,-112.668,0,-103.938 1/2:105:0,46,58:0:0:46,58:1602,2060:-298.098,-167.852,-154.005,-130.237,0,-112.778 1/2:67:0,39,28:0:0:39,28:1363,1006:-193.3,-82.4274,-70.6872,-111.227,0,-102.799 1/1:35:0,35,0:0:0:35,0:1245,0:-112.355,-10.5361,0,-112.355,-10.5361,-112.355 1/1:63:0,63,0:0:0:63,0:2181,0:-196.552,-18.9649,0,-196.552,-18.9649,-196.552 chr01 19080677 . AGGAAGGAGGC CGGAAGGAGGAGGC,AGGAAGGAGGAGGC 133862 PASS AB=0.513502,0.338195;ABP=13.9755,1577.78;AC=27,15;AF=0.642857,0.357143;AN=42;AO=4366,2352;CIGAR=1X3M3I7M,4M3I7M;DP=8190;DPB=9920.64;DPRA=0,2.90766;EPP=9483.66,5110.31;EPPR=0;GTI=0;LEN=14,3;MEANALT=6.28571,6.88889;MQM=59.5932,59.9549;MQMR=0;NS=21;NUMALT=2;ODDS=22.0032;PAIRED=0,0;PAIREDR=0;PAO=28.3333,0.333333;PQA=964,9;PQR=9;PRO=0.333333;QA=153419,83102;QR=0;RO=0;RPL=4366,2352;RPP=9483.66,5110.31;RPPR=0;RPR=0,0;RUN=1,1;SAF=4366,2352;SAP=9483.66,5110.31;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:397:0,200,3:0:0:200,3:7012,104:-630.502,-60.206,0,-622.048,-51.7528,-621.145 1/1:117:0,116,0:0:0:116,0:4061,0:-365.198,-34.9195,0,-365.198,-34.9195,-365.198 1/2:320:0,42,124:0:0:42,124:1494,4377:-478.069,-356.344,-343.701,-121.727,0,-84.3989 1/2:320:0,89,72:0:0:89,72:3109,2534:-459.083,-206.282,-179.491,-252.802,0,-231.128 1/2:571:0,201,124:0:0:201,124:7039,4366:-927.814,-355.434,-294.927,-572.381,0,-535.053 1/2:294:0,130,158:0:0:130,158:4542,5618:-827.267,-457.87,-418.736,-369.439,0,-321.876 1/2:355:0,160,184:0:0:160,184:5626,6502:-987.461,-529.536,-481.371,-457.934,0,-402.544 1/2:336:0,111,221:0:0:111,221:3904,7802:-953.102,-635.369,-601.955,-317.776,0,-251.248 1/2:450:0,309,125:0:0:309,125:10871,4426:-1245.28,-360.548,-267.53,-884.748,0,-847.119 1/2:37:0,20,17:0:0:20,17:704,599:-106.432,-49.1206,-43.1,-57.6633,0,-52.5458 1/2:8:0,3,5:0:0:3,5:108,180:-23.8221,-15.046,-14.1429,-9.13507,0,-7.62992 1/2:56:0,36,20:0:0:36,20:1263,699:-159.99,-57.2119,-46.3748,-103.128,0,-97.1076 1/1:277:0,147,3:0:0:147,3:5158,108:-463.934,-44.2514,0,-455.121,-35.439,-454.218 1/1:260:0,139,0:0:0:139,0:4844,0:-435.377,-41.8432,0,-435.377,-41.8432,-435.377 1/2:3472:0,2140,1000:0:0:2140,1000:75316,35349:-9009.27,-2878.95,-2234.75,-6130.33,0,-5829.3 1/2:176:0,128,40:0:0:128,40:4489,1424:-481.357,-116.069,-77.5371,-365.296,0,-353.254 1/2:181:0,69,106:0:0:69,106:2413,3720:-499.082,-302.796,-282.025,-196.344,0,-164.435 1/2:159:0,58,97:0:0:58,97:2048,3419:-445.083,-278.304,-260.844,-166.779,0,-137.579 1/2:190:0,60,49:0:0:60,49:2072,1731:-309.316,-140.973,-122.912,-168.345,0,-153.595 1/1:147:0,142,4:0:0:142,4:4998,144:-449.567,-42.7463,0,-437.817,-30.9365,-436.613 1/1:67:0,66,0:0:0:66,0:2348,0:-211.187,-19.868,0,-211.187,-19.868,-211.187 chr01 19080690 . AAGTT CAGTT,CAGTC 275208 PASS AB=0.619331,0.377559;ABP=480.318,505.519;AC=32,10;AF=0.761905,0.238095;AN=42;AO=8694,1466;CIGAR=1X4M,1X3M1X;DP=10195;DPB=10195;DPRA=0,3.86304;EPP=18881.8,3186.39;EPPR=9.52472;GTI=1;LEN=1,5;MEANALT=3,3.5;MQM=59.7948,59.9229;MQMR=60;NS=21;NUMALT=2;ODDS=88.1655;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=310226,50991;QR=102;RO=3;RPL=6074,772;RPP=2982.76,12.0221;RPPR=3.73412;RPR=2620,694;RUN=1,1;SAF=6074,772;SAP=2982.76,12.0221;SAR=2620,694;SRF=1;SRP=3.73412;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:429:0,424,2:0:0:424,2:15128,72:-1360.83,-127.637,0,-1354.95,-121.739,-1354.35 1/1:204:0,204,0:0:0:204,0:7244,0:-651.783,-61.4101,0,-651.783,-61.4101,-651.783 1/2:363:0,220,140:0:0:220,140:7835,4784:-1026.85,-388.275,-322.048,-638.605,0,-596.46 1/2:349:0,174,175:0:0:174,175:6192,6088:-999.512,-494.995,-442.615,-504.509,0,-451.829 1/2:633:0,339,290:0:0:339,290:12098,10031:-1801.08,-815.172,-713.123,-985.974,0,-898.675 1/2:510:0,331,178:0:0:331,178:11798,6264:-1471.53,-509.921,-410.28,-961.598,0,-908.015 1/2:587:0,383,200:0:0:383,200:13648,6992:-1681.19,-568.81,-453.516,-1112.38,0,-1052.18 1/2:533:0,349,184:0:0:349,184:12464,6432:-1539.63,-523.58,-418.52,-1016.4,0,-961.013 1/1:759:3,753,1:3:102:753,1:26870,36:-2407.58,-218.409,0,-2405.55,-223.736,-2413.52 1/1:53:0,52,0:0:0:52,0:1868,0:-168.098,-15.6536,0,-168.098,-15.6536,-168.098 1/2:21:0,15,6:0:0:15,6:536,213:-61.3985,-17.7093,-13.1939,-44.0446,0,-42.2384 1/1:96:0,96,0:0:0:96,0:3452,0:-310.881,-28.8989,0,-310.881,-28.8989,-310.881 1/1:295:0,294,1:0:0:294,1:10520,36:-946.107,-88.5028,0,-943.169,-85.2056,-942.868 1/1:293:0,292,0:0:0:292,0:10369,0:-932.477,-87.9008,0,-932.477,-87.9008,-932.477 1/1:3511:0,3496,3:0:0:3496,3:124860,108:-11230.5,-1052.4,0,-11221.7,-1043.58,-11220.7 1/1:310:0,308,1:0:0:308,1:10991,36:-988.738,-92.7172,0,-985.8,-89.7498,-985.499 1/2:365:0,242,123:0:0:242,123:8663,4293:-1055.93,-349.489,-276.64,-706.789,0,-669.763 1/2:293:0,183,110:0:0:183,110:6523,3776:-838.579,-306.933,-251.845,-531.994,0,-498.881 1/2:205:0,154,51:0:0:154,51:5437,1799:-589.586,-146.836,-100.478,-443.102,0,-427.749 1/1:269:0,268,1:0:0:268,1:9560,31:-859.945,-80.676,0,-857.457,-77.8776,-857.156 1/1:117:0,117,0:0:0:117,0:4170,0:-375.404,-35.2205,0,-375.404,-35.2205,-375.404 chr01 19089590 . T C 15742.3 PASS AB=0.664307;ABP=234.923;AC=12;AF=0.285714;AN=42;AO=850;CIGAR=1X;DP=1727;DPB=1727;DPRA=1.87196;EPP=1848.76;EPPR=1903.05;GTI=4;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9657;NS=21;NUMALT=1;ODDS=3.53705;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29822;QR=31013;RO=875;RPL=850;RPP=1848.76;RPPR=1903.05;RPR=0;RUN=1;SAF=850;SAP=1848.76;SAR=0;SRF=875;SRP=1903.05;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:50,2:50:1760:2:72:0,-8.81684,-151.844 0/0:52:52,0:52:1859:0:0:0,-15.6536,-167.589 0/1:70:26,44:26:928:44:1548:-118.537,0,-62.7662 0/1:108:50,58:50:1788:58:2019:-149.467,0,-128.691 0/1:266:103,161:103:3627:161:5695:-432.84,0,-246.806 0/1:32:9,23:9:324:23:802:-62.8645,0,-19.8729 0/1:99:39,60:39:1380:60:2098:-159.285,0,-94.694 0/1:42:14,28:14:500:28:974:-75.3274,0,-32.6929 0/0:86:86,0:86:3054:0:0:0,-25.8886,-275.09 0/1:5:1,4:1:36:4:135:-10.9774,0,-2.09312 1/1:192:1,191:1:36:191:6659:-595.802,-54.1995,0 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:42:42,0:42:1476:0:0:0,-12.6433,-133.132 0/0:66:66,0:66:2320:0:0:0,-19.868,-209.059 0/0:70:70,0:70:2483:0:0:0,-21.0721,-223.097 0/0:23:23,0:23:819:0:0:0,-6.92369,-74.0316 0/1:60:21,39:21:747:39:1386:-106.976,0,-49.4925 0/1:252:25,227:25:883:227:7966:-641.116,0,-3.92789 0/1:55:42,13:42:1500:13:468:-25.903,0,-118.738 0/0:104:104,0:104:3680:0:0:0,-31.3071,-331.404 0/0:31:31,0:31:1093:0:0:0,-9.33193,-98.6777 chr01 19489536 . GAC GAAAC 28370.6 PASS AB=0.44186;ABP=37.0974;AC=32;AF=0.761905;AN=42;AO=1436;CIGAR=1M2I2M;DP=2093;DPB=3053.67;DPRA=0;EPP=3121.24;EPPR=1397.1;GTI=1;LEN=2;MEANALT=1.52381;MQM=59.8886;MQMR=60;NS=21;NUMALT=1;ODDS=8.67456;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50097;QR=22406;RO=642;RPL=0;RPP=3121.24;RPPR=1397.1;RPR=1436;RUN=1;SAF=0;SAP=3121.24;SAR=1436;SRF=0;SRP=1397.1;SRR=642;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102:0:0:102:3529:-317.817,-30.7051,0 1/1:37:0,37:0:0:37:1284:-115.858,-11.1381,0 0/1:68:32,34:32:1130:34:1194:-87.536,0,-81.7797 0/1:56:24,32:24:827:32:1117:-83.9777,0,-57.8867 0/1:231:149,82:149:5205:82:2854:-187.557,0,-399.058 0/1:116:57,57:57:1996:57:2001:-145.714,0,-145.263 0/1:228:116,111:116:4035:111:3868:-279.629,0,-294.651 0/1:178:105,72:105:3632:72:2472:-169.044,0,-273.45 1/1:205:1,202:1:28:202:6985:-625.893,-58.6042,0 0/1:18:4,13:4:144:13:455:-35.8053,0,-7.83628 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:39:0,39:0:0:39:1387:-125.126,-11.7402,0 1/1:66:0,65:0:0:65:2281:-205.192,-19.567,0 1/1:75:0,75:0:0:75:2613:-235.42,-22.5773,0 1/1:208:0,206:0:0:206:7235:-650.934,-62.0122,0 1/1:85:0,83:0:0:83:2933:-263.863,-24.9855,0 0/1:145:90,54:90:3159:54:1890:-126.669,0,-240.84 0/1:86:45,41:45:1575:41:1439:-103.883,0,-116.151 0/1:35:18,17:18:641:17:581:-42.0744,0,-47.4839 1/1:76:1,75:1:34:75:2637:-234.132,-19.4794,0 1/1:33:0,33:0:0:33:1126:-101.643,-9.93399,0 chr01 19506901 . CTT TTC,CTC 24328.7 PASS AB=0.575592,0.420765;ABP=30.2585,32.9481;AC=32,10;AF=0.761905,0.238095;AN=42;AO=970,232;CIGAR=1X1M1X,2M1X;DP=1209;DPB=1209;DPRA=0,0.995746;EPP=2109.34,506.792;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.80952,2.27273;MQM=41.2546,53.6336;MQMR=0;NS=21;NUMALT=2;ODDS=4.53597;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34010,8262;QR=0;RO=0;RPL=0,0;RPP=2109.34,506.792;RPPR=0;RPR=970,232;RUN=1,1;SAF=970,232;SAP=2109.34,506.792;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62,0:0:0:62,0:2182,0:-190.669,-18.6639,0,-190.669,-18.6639,-190.669 1/1:49:0,49,0:0:0:49,0:1725,0:-150.807,-14.7505,0,-150.807,-14.7505,-150.807 1/2:83:0,58,25:0:0:58,25:1994,884:-228.248,-72.2729,-54.8132,-156.322,0,-148.797 1/2:52:0,33,19:0:0:33,19:1137,684:-145.301,-56.1203,-46.1863,-89.5308,0,-83.8112 1/2:87:0,36,50:0:0:36,50:1284,1780:-246.062,-144.581,-133.744,-101.56,0,-86.5082 1/2:45:0,23,22:0:0:23,22:796,784:-125.822,-63.9031,-56.9794,-62.2625,0,-55.6398 1/2:57:0,30,26:0:0:30,26:1073,922:-158.278,-74.5147,-65.4838,-83.7724,0,-75.9456 1/2:85:0,38,47:0:0:38,47:1339,1672:-239.457,-136.106,-124.667,-103.695,0,-89.5464 1/1:128:0,126,0:0:0:126,0:4396,0:-385.74,-37.9298,0,-385.74,-37.9298,-385.74 1/1:14:0,14,0:0:0:14,0:489,0:-42.7553,-4.21442,0,-42.7553,-4.21442,-42.7553 1/2:6:0,3,3:0:0:3,3:99,108:-16.7201,-8.95856,-8.05547,-8.09841,0,-7.19532 1/1:36:0,36,0:0:0:36,0:1277,0:-110.003,-10.8371,0,-110.003,-10.8371,-110.003 1/1:77:0,76,0:0:0:76,0:2666,0:-230.895,-22.8783,0,-230.895,-22.8783,-230.895 1/1:65:0,65,0:0:0:65,0:2291,0:-199.553,-19.567,0,-199.553,-19.567,-199.553 1/1:81:0,81,0:0:0:81,0:2850,0:-250.39,-24.3834,0,-250.39,-24.3834,-250.39 1/1:38:0,38,0:0:0:38,0:1354,0:-119.392,-11.4391,0,-119.392,-11.4391,-119.392 1/2:31:0,22,9:0:0:22,9:766,316:-86.2458,-26.061,-19.4383,-60.5318,0,-57.8225 1/2:54:0,37,17:0:0:37,17:1285,612:-150.051,-50.2173,-39.0792,-100.185,0,-95.0674 1/2:49:0,36,13:0:0:36,13:1272,464:-138.212,-38.0222,-27.1851,-100.542,0,-96.6289 1/1:83:0,80,1:0:0:80,1:2818,36:-242.99,-24.0824,0,-240.057,-21.1424,-239.756 1/1:27:0,27,0:0:0:27,0:917,0:-80.5586,-8.12781,0,-80.5586,-8.12781,-80.5586 chr01 19506917 . C T 3444.44 PASS AB=0.418349;ABP=34.5704;AC=10;AF=0.238095;AN=42;AO=228;CIGAR=1X;DP=1230;DPB=1230;DPRA=0.875182;EPP=498.106;EPPR=2178.83;GTI=0;LEN=1;MEANALT=1;MQM=53.5044;MQMR=41.2525;NS=21;NUMALT=1;ODDS=3.34622;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8179;QR=35838;RO=1002;RPL=0;RPP=498.106;RPPR=2178.83;RPR=228;RUN=1;SAF=228;SAP=498.106;SAR=0;SRF=1002;SRP=2178.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:66,0:66:2364:0:0:0,-19.868,-205.877 0/0:59:59,0:59:2075:0:0:0,-17.7608,-179.616 0/1:80:56,24:56:2004:24:864:-53.9324,0,-150.203 0/1:51:32,19:32:1148:19:684:-46.4873,0,-84.1418 0/1:87:38,49:38:1364:49:1741:-130.181,0,-93.3328 0/1:47:23,24:23:828:24:864:-63.2398,0,-57.4551 0/1:55:30,25:30:1076:25:900:-64.0131,0,-76.834 0/1:85:38,47:38:1368:47:1692:-126.452,0,-91.7535 0/0:130:130,0:130:4645:0:0:0,-39.1339,-406.915 0/0:14:14,0:14:500:0:0:0,-4.21442,-43.5832 0/1:6:3,3:3:108:3:108:-8.05547,0,-7.93977 0/0:36:36,0:36:1288:0:0:0,-10.8371,-110.447 0/0:79:79,0:79:2836:0:0:0,-23.7814,-245.649 0/0:66:66,0:66:2351:0:0:0,-19.868,-203.515 0/0:82:82,0:82:2940:0:0:0,-24.6845,-257.729 0/0:42:42,0:42:1508:0:0:0,-12.6433,-130.993 0/1:30:22,8:22:788:8:288:-17.2277,0,-60.1728 0/1:54:37,17:37:1323:17:612:-39.0792,0,-97.881 0/1:50:38,12:38:1364:12:426:-23.5097,0,-104.392 0/0:83:83,0:83:2960:0:0:0,-24.9855,-255.7 0/0:28:28,0:28:1000:0:0:0,-8.42884,-87.5451 chr01 19506957 . A G 19107.3 PASS AB=0.573034;ABP=27.7504;AC=32;AF=0.761905;AN=42;AO=961;CIGAR=1X;DP=1190;DPB=1190;DPRA=0;EPP=2089.8;EPPR=495.935;GTI=0;LEN=1;MEANALT=1.09524;MQM=41.3007;MQMR=53.4493;NS=21;NUMALT=1;ODDS=4.41143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33982;QR=8096;RO=227;RPL=961;RPP=2089.8;RPPR=495.935;RPR=0;RUN=1;SAF=961;SAP=2089.8;SAR=0;SRF=227;SRP=495.935;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:0,65:0:0:65:2301:-200.81,-19.567,0 1/1:59:0,59:0:0:59:2085:-180.613,-17.7608,0 0/1:76:23,53:23:824:53:1896:-141.906,0,-51.541 0/1:50:19,31:19:680:31:1089:-80.1959,0,-46.4286 0/1:86:50,35:50:1760:35:1243:-83.4146,0,-132.11 0/1:46:24,22:24:852:22:770:-53.0016,0,-62.4733 0/1:55:26,29:26:928:29:1040:-73.6649,0,-66.4481 0/1:84:45,39:45:1612:39:1388:-94.0018,0,-119.571 1/1:127:0,127:0:0:127:4510:-395.304,-38.2308,0 1/1:14:0,14:0:0:14:504:-43.872,-4.21442,0 0/1:6:3,3:3:108:3:108:-7.93977,0,-8.05547 1/1:35:0,35:0:0:35:1201:-103.521,-10.5361,0 1/1:74:0,74:0:0:74:2622:-227.716,-22.2762,0 1/1:65:0,65:0:0:65:2309:-200.033,-19.567,0 1/1:77:0,77:0:0:77:2706:-237.675,-23.1793,0 1/1:42:0,42:0:0:42:1483:-129.503,-12.6433,0 0/1:30:9,21:9:324:21:737:-55.4922,0,-20.4653 0/1:52:16,36:16:576:36:1230:-91.6786,0,-36.4474 0/1:49:12,37:12:432:37:1320:-100.919,0,-24.1707 1/1:73:0,73:0:0:73:2588:-223.777,-21.9752,0 1/1:25:0,24:0:0:24:852:-74.366,-7.22472,0 chr01 19517155 . T C 7695.84 PASS AB=0.45935;ABP=17.1337;AC=11;AF=0.261905;AN=42;AO=461;CIGAR=1X;DP=2184;DPB=2184;DPRA=1.33527;EPP=861.844;EPPR=2213.54;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.9219;MQMR=58.9065;NS=21;NUMALT=1;ODDS=11.581;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16123;QR=61551;RO=1722;RPL=444;RPP=861.844;RPPR=2213.54;RPR=17;RUN=1;SAF=461;SAP=1004.06;SAR=0;SRF=1722;SRP=3742.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:77,0:77:2772:0:0:0,-23.1793,-249.683 0/0:132:132,0:132:4719:0:0:0,-39.736,-421.379 0/1:116:63,53:63:2236:53:1880:-134.559,0,-166.576 0/1:106:54,52:54:1917:52:1843:-134.239,0,-140.896 0/1:225:127,98:127:4543:98:3458:-243.701,0,-341.253 0/1:95:59,36:59:2107:36:1258:-84.8944,0,-161.284 0/1:160:92,68:92:3273:68:2367:-165.123,0,-246.601 0/1:31:11,20:11:396:20:693:-53.3577,0,-26.6508 0/0:280:279,1:279:9985:1:36:0,-80.6901,-894.988 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6342 0/0:175:175,0:175:6279:0:0:0,-52.6802,-564.176 0/0:83:80,3:80:2863:3:108:0,-14.9103,-247.832 0/0:87:87,0:87:3084:0:0:0,-26.1896,-277.787 0/0:134:134,0:134:4807:0:0:0,-40.338,-431.448 0/1:68:27,41:27:964:41:1456:-110.864,0,-66.4606 0/1:133:66,66:66:2359:66:2235:-161.309,0,-172.472 0/1:50:32,18:32:1144:18:613:-40.4369,0,-88.218 0/0:144:143,1:143:5108:1:36:0,-39.75,-456.263 0/0:59:59,0:59:2099:0:0:0,-17.7608,-189.179 chr01 19517160 . A C,T 52449 PASS AB=0.540102,0.459898;ABP=16.7688,16.7688;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1724,457;CIGAR=1X,1X;DP=2181;DPB=2181;DPRA=27.2125,0.912668;EPP=2231.04,853.206;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.45,1.9;MQM=58.9188,59.9497;MQMR=0;NS=21;NUMALT=2;ODDS=12.4706;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60921,16230;QR=0;RO=0;RPL=1527,440;RPP=2231.04,853.206;RPPR=0;RPR=197,17;RUN=1,1;SAF=1724,457;SAP=3746.63,995.373;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,79,0:0:0:79,0:2824,0:-254.362,-23.7814,0,-254.362,-23.7814,-254.362 1/1:130:0,130,0:0:0:130,0:4635,0:-413.758,-39.1339,0,-413.758,-39.1339,-413.758 1/2:112:0,63,49:0:0:63,49:2239,1730:-323.681,-141.233,-122.268,-182.802,0,-168.052 1/2:108:0,53,55:0:0:53,55:1892,1951:-313.555,-159.308,-143.353,-154.603,0,-138.046 1/2:225:0,128,97:0:0:128,97:4523,3439:-648.822,-280.523,-241.991,-368.653,0,-339.453 1/2:98:0,60,38:0:0:60,38:2110,1350:-282.079,-110.343,-92.2809,-172.09,0,-160.651 1/2:158:0,90,68:0:0:90,68:3189,2417:-457.075,-197.316,-170.223,-260.114,0,-239.644 1/2:34:0,12,22:0:0:12,22:432,792:-100.232,-64.983,-61.3707,-35.6088,0,-28.9862 1/1:280:0,280,0:0:0:280,0:9877,0:-888.882,-84.2884,0,-888.882,-84.2884,-888.882 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/1:16:0,16,0:0:0:16,0:568,0:-51.4519,-4.81648,0,-51.4519,-4.81648,-51.4519 1/1:177:0,177,0:0:0:177,0:6244,0:-561.035,-53.2823,0,-561.035,-53.2823,-561.035 1/1:79:0,79,0:0:0:79,0:2766,0:-249.181,-23.7814,0,-249.181,-23.7814,-249.181 1/1:86:0,86,0:0:0:86,0:2997,0:-269.959,-25.8886,0,-269.959,-25.8886,-269.959 1/1:134:0,134,0:0:0:134,0:4758,0:-427.336,-40.338,0,-427.336,-40.338,-427.336 1/2:68:0,27,41:0:0:27,41:963,1468:-198.422,-120.072,-111.944,-78.7071,0,-66.3648 1/2:131:0,68,63:0:0:68,63:2376,2228:-375.093,-181.818,-161.348,-193.626,0,-174.661 1/2:51:0,31,20:0:0:31,20:1089,711:-146.928,-58.295,-48.9631,-88.9867,0,-82.9661 1/1:145:0,145,0:0:0:145,0:5096,0:-458.789,-43.6494,0,-458.789,-43.6494,-458.789 1/1:59:0,59,0:0:0:59,0:2095,0:-188.819,-17.7608,0,-188.819,-17.7608,-188.819 chr01 19719948 . A G 17968.8 PASS AB=0.507812;ABP=3.28173;AC=32;AF=0.761905;AN=42;AO=698;CIGAR=1X;DP=956;DPB=956;DPRA=0;EPP=5.44932;EPPR=10.1162;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.56839;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24369;QR=9044;RO=257;RPL=0;RPP=1518.7;RPPR=561.079;RPR=698;RUN=1;SAF=363;SAP=5.44932;SAR=335;SRF=114;SRP=10.1162;SRR=143;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:51:1,50:1:36:50:1750:-154.182,-11.7543,0 1/1:34:0,34:0:0:34:1179:-106.411,-10.235,0 0/1:15:4,11:4:140:11:392:-31.1046,0,-8.42913 0/1:28:14,14:14:492:14:485:-35.5481,0,-36.1835 0/1:76:45,31:45:1612:31:1072:-73.9076,0,-122.492 0/1:47:29,18:29:1021:18:648:-44.5035,0,-78.0518 0/1:42:31,11:31:1081:11:363:-20.3438,0,-84.9533 0/1:40:25,15:25:883:15:528:-35.8102,0,-67.7463 1/1:54:2,52:2:72:52:1836:-158.681,-9.4189,0 1/1:8:0,7:0:0:7:248:-22.3051,-2.10721,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:39:0,39:0:0:39:1351:-121.884,-11.7402,0 1/1:29:0,29:0:0:29:993:-89.6744,-8.72987,0 1/1:68:0,68:0:0:68:2417:-217.785,-20.47,0 1/1:27:0,27:0:0:27:926:-83.649,-8.12781,0 0/1:24:13,11:13:435:11:374:-26.7617,0,-32.2438 0/1:134:59,75:59:2060:75:2607:-194.541,0,-145.329 0/1:102:29,73:29:1032:73:2548:-198.864,0,-62.4884 1/1:39:1,38:1:36:38:1343:-117.571,-8.1419,0 1/1:82:1,81:1:36:81:2805:-249.091,-21.0862,0 chr01 19720020 . G A 21061.5 PASS AB=0.436222;ABP=39.2952;AC=32;AF=0.761905;AN=42;AO=1077;CIGAR=1X;DP=1662;DPB=1662;DPRA=0;EPP=2341.69;EPPR=1271.15;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.9591;MQMR=60;NS=21;NUMALT=1;ODDS=1.51507;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38117;QR=20676;RO=584;RPL=0;RPP=2341.69;RPPR=1271.15;RPR=1077;RUN=1;SAF=1077;SAP=2341.69;SAR=0;SRF=584;SRP=1271.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,78:0:0:78:2750:-247.738,-23.4803,0 1/1:43:1,42:1:36:42:1481:-129.984,-9.34602,0 0/1:92:41,51:41:1472:51:1809:-135.395,0,-105.081 0/1:117:77,39:77:2714:39:1392:-90.4459,0,-209.371 0/1:187:123,64:123:4348:64:2209:-142.775,0,-335.2 0/1:122:84,38:84:2944:38:1337:-83.9023,0,-228.465 0/1:125:72,53:72:2569:53:1881:-131.937,0,-193.829 0/1:112:52,60:52:1845:60:2125:-157.802,0,-132.613 1/1:92:1,91:1:36:91:3215:-285.697,-24.0965,0 1/1:8:0,8:0:0:8:279:-25.4475,-2.40824,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:12:0,12:0:0:12:426:-38.6774,-3.61236,0 1/1:72:0,72:0:0:72:2565:-231.099,-21.6742,0 1/1:75:1,74:1:36:74:2618:-232.267,-18.979,0 1/1:114:1,113:1:36:113:4025:-358.84,-30.7191,0 1/1:34:1,33:1:36:33:1165:-101.557,-6.63675,0 0/1:67:40,27:40:1402:27:960:-66.5473,0,-106.304 0/1:123:61,62:61:2192:62:2214:-162.498,0,-160.519 0/1:77:24,53:24:830:53:1896:-147.739,0,-51.833 1/1:53:0,53:0:0:53:1846:-166.416,-15.9546,0 1/1:54:1,53:1:36:53:1888:-166.6,-12.6573,0 chr01 19721871 . GCTC ACTA,GCTA 44392.2 PASS AB=0.519918,0.475996;ABP=6.38396,7.90998;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1620,473;CIGAR=1X2M1X,3M1X;DP=2102;DPB=2102;DPRA=0,1.1816;EPP=3520.8,1030.12;EPPR=5.18177;GTI=1;LEN=4,1;MEANALT=2.04762,2.28571;MQM=59.9895,60;MQMR=60;NS=21;NUMALT=2;ODDS=2.73156;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=57063,16905;QR=36;RO=1;RPL=1620,473;RPP=3520.8,1030.12;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3520.8,1030.12;SAR=1620,473;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,99,3:0:0:99,3:3469,108:-312.069,-29.802,0,-303.256,-20.6299,-302.353 1/1:122:0,121,0:0:0:121,0:4285,0:-385.473,-36.4246,0,-385.473,-36.4246,-385.473 1/2:68:0,31,37:0:0:31,37:1059,1332:-194.977,-109.044,-99.7123,-86.2829,0,-75.1448 1/2:160:0,87,72:0:0:87,72:3083,2568:-460.502,-209.346,-183.157,-251.162,0,-229.487 1/2:201:0,93,107:0:0:93,107:3237,3830:-575.682,-312.475,-284.479,-263.347,0,-231.137 1/2:108:0,56,52:0:0:56,52:1987,1853:-313.285,-151.394,-134.537,-162.246,0,-146.592 1/2:150:0,83,66:0:0:83,66:2908,2372:-430.126,-193.51,-168.524,-236.611,0,-216.743 1/2:110:0,62,48:0:0:62,48:2202,1690:-317.362,-137.933,-119.269,-179.782,0,-165.333 1/1:170:0,169,0:0:0:169,0:5973,0:-537.366,-50.8741,0,-537.366,-50.8741,-537.366 1/1:10:0,10,0:0:0:10,0:327,0:-29.7459,-3.0103,0,-29.7459,-3.0103,-29.7459 1/2:8:0,7,1:0:0:7,1:241,36:-22.8579,-3.29724,-1.19003,-19.9185,0,-19.6175 1/1:24:0,24,0:0:0:24,0:855,0:-77.2714,-7.22472,0,-77.2714,-7.22472,-77.2714 1/1:87:0,85,1:0:0:85,1:2989,32:-268.905,-25.5876,0,-266.327,-23.0291,-266.026 1/1:111:0,110,1:0:0:110,1:3861,36:-347.332,-33.1133,0,-344.394,-29.8161,-344.093 1/1:157:0,155,0:0:0:155,0:5442,0:-489.567,-46.6597,0,-489.567,-46.6597,-489.567 1/1:75:0,75,0:0:0:75,0:2664,0:-240.007,-22.5773,0,-240.007,-22.5773,-240.007 1/2:66:0,38,28:0:0:38,28:1344,1004:-191.712,-82.247,-70.8079,-109.821,0,-101.392 1/2:46:1,16,29:1:36:16,29:572,1040:-128.226,-81.8873,-80.0083,-43.7002,0,-37.9079 1/2:62:0,36,26:0:0:36,26:1284,936:-181.401,-76.7327,-65.8956,-105.027,0,-97.1998 1/1:198:0,196,2:0:0:196,2:6884,68:-619.299,-59.0019,0,-613.784,-53.1462,-613.182 1/1:67:0,67,0:0:0:67,0:2397,0:-215.987,-20.169,0,-215.987,-20.169,-215.987 chr01 19872649 . A C 6662.66 PASS AB=0.569322;ABP=31.3099;AC=10;AF=0.238095;AN=42;AO=389;CIGAR=1X;DP=1274;DPB=1274;DPRA=1.54688;EPP=847.713;EPPR=1911.74;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.7686;MQMR=59.9366;NS=21;NUMALT=1;ODDS=1.44293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13887;QR=30618;RO=883;RPL=0;RPP=847.713;RPPR=1911.74;RPR=389;RUN=1;SAF=389;SAP=847.713;SAR=0;SRF=883;SRP=1920.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1525:0:0:0,-13.5463,-137.485 0/0:29:29,0:29:1025:0:0:0,-8.72987,-92.5607 0/1:55:25,30:25:839:30:1064:-79.1376,0,-59.2582 0/1:107:42,65:42:1436:65:2324:-177.202,0,-97.3161 0/1:111:51,60:51:1805:60:2148:-160.168,0,-129.315 0/1:61:22,38:22:773:38:1340:-102.476,0,-51.4682 0/1:99:45,54:45:1563:54:1915:-142.822,0,-111.153 0/1:82:34,48:34:1159:48:1724:-130.76,0,-79.9227 0/0:98:97,0:97:3328:0:0:0,-29.1999,-299.397 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:4:2,2:2:68:2:72:-5.6326,0,-5.25359 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:64:64,0:64:2152:0:0:0,-19.2659,-193.566 0/0:84:84,0:84:2902:0:0:0,-25.2865,-261.411 0/0:119:118,1:118:4133:1:36:0,-32.2243,-368.555 0/0:35:35,0:35:1225:0:0:0,-10.536,-110.552 0/1:54:13,41:13:449:41:1468:-116.16,0,-24.4819 0/1:48:22,26:22:773:26:932:-69.7494,0,-55.44 0/1:57:35,22:35:1232:22:792:-54.4446,0,-94.0253 0/0:61:59,2:59:2078:2:72:0,-11.5261,-180.45 0/0:39:39,0:39:1361:0:0:0,-11.7402,-122.786 chr01 19905870 . TGGTC TTC,TCTTC 26957.4 PASS AB=0.459864,0.534694;ABP=13.2945,10.6947;AC=32,10;AF=0.761905,0.238095;AN=42;AO=960,394;CIGAR=1M2D2M,1M2X2M;DP=1366;DPB=979.2;DPRA=0,1.25813;EPP=2087.62,858.57;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.95238,2.27273;MQM=59.9979,59.9442;MQMR=0;NS=21;NUMALT=2;ODDS=10.1519;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32447,13771;QR=0;RO=0;RPL=0,0;RPP=2087.62,858.57;RPPR=0;RPR=960,394;RUN=1,1;SAF=0,0;SAP=2087.62,858.57;SAR=960,394;SRF=0;SRP=0;SRR=0;TYPE=del,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35,0:0:0:35,0:1189,0:-107.31,-10.5361,0,-107.31,-10.5361,-107.31 1/1:29:0,29,0:0:0:29,0:956,0:-86.3423,-8.72987,0,-86.3423,-8.72987,-86.3423 1/2:88:0,48,40:0:0:48,40:1593,1399:-243.03,-114.164,-99.7146,-129.207,0,-117.166 1/2:49:0,20,29:0:0:20,29:696,1013:-139.344,-82.7504,-76.7298,-56.9418,0,-48.2119 1/2:133:0,64,68:0:0:64,68:2217,2390:-374.707,-194.527,-175.261,-180.169,0,-159.699 1/2:33:0,14,16:0:0:14,16:463,565:-83.3519,-45.9182,-41.7037,-37.4585,0,-32.642 1/2:81:0,33,48:0:0:33,48:1118,1684:-228.038,-137.393,-127.459,-90.9883,0,-76.5389 1/2:103:0,55,48:0:0:55,48:1858,1639:-283.941,-133.341,-116.785,-150.94,0,-136.49 1/1:126:0,121,0:0:0:121,0:4106,0:-369.455,-36.4246,0,-369.455,-36.4246,-369.455 1/1:29:0,29,0:0:0:29,0:982,0:-88.6871,-8.72987,0,-88.6871,-8.72987,-88.6871 1/2:12:0,5,7:0:0:5,7:155,248:-32.981,-20.5572,-19.052,-12.7521,0,-10.6449 1/1:53:0,53,0:0:0:53,0:1761,0:-158.769,-15.9546,0,-158.769,-15.9546,-158.769 1/1:98:0,97,0:0:0:97,0:3246,0:-292.027,-29.1999,0,-292.027,-29.1999,-292.027 1/1:94:0,93,0:0:0:93,0:3135,0:-282.134,-27.9958,0,-282.134,-27.9958,-282.134 1/1:58:0,57,1:0:0:57,1:1895,36:-170.467,-17.1587,0,-167.529,-13.8615,-167.228 1/1:21:0,21,0:0:0:21,0:723,0:-65.3885,-6.32163,0,-65.3885,-6.32163,-65.3885 1/2:59:0,17,42:0:0:17,42:570,1474:-166.469,-120.309,-115.191,-46.4996,0,-33.8563 1/2:148:0,67,81:0:0:67,81:2324,2847:-420.987,-232.085,-211.916,-189.251,0,-164.867 1/2:29:0,15,14:0:0:15,14:498,476:-79.2337,-38.9483,-34.4328,-40.6215,0,-36.407 1/1:57:0,57,0:0:0:57,0:1948,0:-175.597,-17.1587,0,-175.597,-17.1587,-175.597 1/1:31:0,30,0:0:0:30,0:1014,0:-91.2054,-9.0309,0,-91.2054,-9.0309,-91.2054 chr01 19940884 . T A 31058.1 PASS AB=0.502004;ABP=3.04511;AC=32;AF=0.761905;AN=42;AO=1494;CIGAR=1X;DP=1999;DPB=1999;DPRA=0;EPP=3212.54;EPPR=1097.43;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9853;MQMR=60;NS=21;NUMALT=1;ODDS=7.07341;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52926;QR=17997;RO=504;RPL=4;RPP=3212.54;RPPR=1097.43;RPR=1490;RUN=1;SAF=1494;SAP=3247.19;SAR=0;SRF=504;SRP=1097.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:3,64:3:108:64:2265:-194.036,-10.0938,0 1/1:82:0,82:0:0:82:2914:-262.493,-24.6845,0 0/1:130:42,88:42:1474:88:3144:-244.052,0,-93.8166 0/1:92:42,50:42:1497:50:1773:-132.156,0,-107.328 0/1:308:175,133:175:6254:133:4730:-333.141,0,-470.235 0/1:80:34,46:34:1216:46:1607:-120.831,0,-85.6642 0/1:158:87,71:87:3104:71:2510:-178.587,0,-232.025 0/1:95:45,50:45:1612:50:1784:-132.244,0,-116.772 1/1:256:1,255:1:36:255:9037:-809.71,-73.4654,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 1/1:87:0,87:0:0:87:3052:-274.904,-26.1896,0 1/1:146:1,144:1:36:144:5126:-457.882,-40.4109,0 1/1:160:0,160:0:0:160:5628:-506.643,-48.1648,0 1/1:51:0,51:0:0:51:1792:-161.558,-15.3525,0 0/1:25:11,14:11:396:14:481:-36.0893,0,-28.457 0/1:62:45,17:45:1616:17:612:-36.7496,0,-127.066 0/1:44:15,29:15:540:29:1021:-78.9549,0,-35.6912 1/1:73:2,71:2:72:71:2521:-220.304,-15.1385,0 1/1:50:0,50:0:0:50:1781:-160.571,-15.0515,0 chr01 19942476 . G A 29325.3 PASS AB=0.536842;ABP=13.0905;AC=33;AF=0.785714;AN=42;AO=1386;CIGAR=1X;DP=1787;DPB=1787;DPRA=0;EPP=2960.78;EPPR=871.599;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9827;MQMR=60;NS=21;NUMALT=1;ODDS=6.40327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49257;QR=14093;RO=400;RPL=6;RPP=2960.78;RPPR=871.599;RPR=1380;RUN=1;SAF=0;SAP=3012.67;SAR=1386;SRF=0;SRP=871.599;SRR=400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117:0:0:117:4157:-374.312,-35.2205,0 1/1:97:0,97:0:0:97:3456:-311.251,-29.1999,0 0/1:81:36,45:36:1245:45:1605:-120.355,0,-87.9635 0/1:85:38,47:38:1355:47:1684:-126.259,0,-96.6622 0/1:94:40,53:40:1397:53:1873:-140.639,0,-97.8156 0/1:74:38,36:38:1339:36:1274:-92.6853,0,-98.533 0/1:133:77,56:77:2727:56:1979:-138.344,0,-205.634 0/1:95:46,49:46:1643:49:1732:-127.564,0,-119.56 1/1:180:0,180:0:0:180:6401:-576.179,-54.1854,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 1/1:112:2,110:2:68:110:3895:-344.284,-27.2577,0 1/1:89:0,89:0:0:89:3172:-285.684,-26.7917,0 1/1:70:0,70:0:0:70:2504:-225.613,-21.0721,0 1/1:78:1,77:1:36:77:2739:-243.155,-19.8821,0 0/1:90:32,58:32:1120:58:2030:-155.876,0,-74.0122 0/1:88:45,43:45:1588:43:1541:-112.493,0,-116.717 0/1:115:43,72:43:1503:72:2559:-195.942,0,-100.941 1/1:88:2,86:2:72:86:3032:-266.274,-19.6539,0 1/1:49:0,49:0:0:49:1760:-158.684,-14.7505,0 chr01 19986695 . G A 43797.8 PASS AB=0.508261;ABP=3.76374;AC=32;AF=0.761905;AN=42;AO=2064;CIGAR=1X;DP=2691;DPB=2691;DPRA=0;EPP=4484.93;EPPR=1364.52;GTI=0;LEN=1;MEANALT=1;MQM=59.9496;MQMR=59.9745;NS=21;NUMALT=1;ODDS=2.39794;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73833;QR=22417;RO=627;RPL=2064;RPP=4484.93;RPPR=1364.52;RPR=0;RUN=1;SAF=2064;SAP=4484.93;SAR=0;SRF=627;SRP=1364.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:195:2,193:2:72:193:6886:-612.965,-51.8641,0 1/1:148:0,148:0:0:148:5280:-475.335,-44.5524,0 0/1:136:72,64:72:2571:64:2300:-166.317,0,-190.697 0/1:89:32,57:32:1140:57:2032:-156.361,0,-76.1175 0/1:284:146,138:146:5240:138:4939:-359.162,0,-386.243 0/1:123:74,49:74:2652:49:1756:-121.297,0,-201.899 0/1:200:102,98:102:3642:98:3515:-256.353,0,-267.778 0/1:61:28,33:28:1000:33:1180:-88.1452,0,-71.9525 1/1:207:0,207:0:0:207:7421:-667.933,-62.3132,0 1/1:20:0,20:0:0:20:716:-64.7443,-6.0206,0 0/1:5:1,4:1:36:4:140:-11.4394,0,-2.09312 1/1:48:0,48:0:0:48:1700:-153.283,-14.4494,0 1/1:120:0,120:0:0:120:4300:-387.177,-36.1236,0 1/1:110:0,110:0:0:110:3917:-352.723,-33.1133,0 1/1:270:0,270:0:0:270:9684:-871.491,-81.2781,0 1/1:84:0,84:0:0:84:3014:-271.49,-25.2865,0 0/1:136:71,65:71:2524:65:2336:-169.559,0,-186.47 0/1:146:72,74:72:2576:74:2639:-193.7,0,-188.117 0/1:91:27,64:27:964:64:2271:-177.257,0,-59.6831 1/1:140:0,140:0:0:140:5003:-450.408,-42.1442,0 1/1:78:0,78:0:0:78:2804:-252.597,-23.4803,0 chr01 19986725 . T A 39891.9 PASS AB=0.54281;ABP=22.1601;AC=31;AF=0.738095;AN=42;AO=1883;CIGAR=1X;DP=2438;DPB=2438;DPRA=0;EPP=4074.54;EPPR=1203.83;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.9995;MQMR=60;NS=21;NUMALT=1;ODDS=10.2398;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67386;QR=19812;RO=553;RPL=2;RPP=4074.54;RPPR=1203.83;RPR=1881;RUN=1;SAF=0;SAP=4091.89;SAR=1883;SRF=0;SRP=1203.83;SRR=553;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:188:0,188:0:0:188:6731:-605.862,-56.5936,0 1/1:199:1,198:1:36:198:7093:-634.829,-56.3067,0 0/1:125:57,68:57:2033:68:2432:-181.507,0,-145.612 0/1:190:85,105:85:3060:105:3762:-281.583,0,-218.432 0/1:305:167,138:167:5985:138:4919:-351.046,0,-446.939 0/1:58:25,33:25:900:33:1176:-88.688,0,-63.8613 0/1:71:28,42:28:1008:42:1493:-113.231,0,-69.6044 0/1:96:36,60:36:1269:60:2160:-165.768,0,-85.6119 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 0/1:28:3,25:3:108:25:900:-72.8922,0,-1.64633 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:34:0,34:0:0:34:1205:-108.754,-10.235,0 1/1:106:0,106:0:0:106:3803:-342.466,-31.9092,0 1/1:139:3,136:3:108:136:4872:-428.557,-31.768,0 1/1:140:0,140:0:0:140:5021:-452.034,-42.1442,0 1/1:121:0,121:0:0:121:4327:-389.606,-36.4246,0 0/1:160:75,85:75:2696:85:3048:-226.384,0,-194.719 0/1:78:42,35:42:1508:35:1248:-89.0858,0,-112.475 0/1:87:27,60:27:957:60:2141:-166.766,0,-60.2543 1/1:194:1,193:1:36:193:6891:-616.659,-54.8015,0 1/1:59:0,59:0:0:59:2120:-191.068,-17.7608,0 chr01 20407866 . TAAG GAAG,GAAA 18249.7 PASS AB=0.519048,0.478571;ABP=4.33386,4.68544;AC=32,10;AF=0.761905,0.238095;AN=42;AO=647,203;CIGAR=1X3M,1X2M1X;DP=853;DPB=853;DPRA=0,1.24922;EPP=1399.28,443.819;EPPR=3.0103;GTI=0;LEN=1,4;MEANALT=1.61905,2.08333;MQM=59.9289,59.5025;MQMR=60;NS=21;NUMALT=2;ODDS=1.30892;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23185,7203;QR=63;RO=2;RPL=647,203;RPP=1407.95,443.819;RPPR=3.0103;RPR=0,0;RUN=1,1;SAF=646,203;SAP=1399.28,443.819;SAR=1,0;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,44,0:0:0:44,0:1580,0:-142.492,-13.2453,0,-142.492,-13.2453,-142.492 1/1:38:0,38,0:0:0:38,0:1350,0:-121.799,-11.4391,0,-121.799,-11.4391,-121.799 1/2:13:0,6,6:0:0:6,6:216,215:-35.2097,-17.6018,-15.7957,-17.6702,0,-15.8641 1/2:22:0,12,10:0:0:12,10:432,358:-64.7889,-29.5387,-25.9264,-35.6088,0,-32.5985 1/2:80:0,30,50:0:0:30,50:1076,1760:-231.39,-143.624,-134.593,-88.122,0,-73.0705 1/2:28:0,16,12:0:0:16,12:572,430:-82.0587,-35.4195,-30.6031,-46.9969,0,-43.3846 1/2:46:0,23,23:0:0:23,23:824,819:-134.303,-67.1005,-60.1768,-67.5596,0,-60.6359 1/2:28:0,18,10:0:0:18,10:644,354:-81.6776,-29.1605,-23.742,-52.8721,0,-49.8618 1/1:80:0,79,1:0:0:79,1:2836,36:-255.118,-23.7814,0,-252.181,-20.4841,-251.88 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/1:21:0,21,0:0:0:21,0:756,0:-68.3388,-6.32163,0,-68.3388,-6.32163,-68.3388 1/1:28:0,28,0:0:0:28,0:1008,0:-91.0364,-8.42884,0,-91.0364,-8.42884,-91.0364 1/1:29:0,29,0:0:0:29,0:1029,0:-92.9211,-8.72987,0,-92.9211,-8.72987,-92.9211 1/1:52:0,52,0:0:0:52,0:1857,0:-167.379,-15.6536,0,-167.379,-15.6536,-167.379 1/1:26:0,26,0:0:0:26,0:932,0:-84.1989,-7.82678,0,-84.1989,-7.82678,-84.1989 1/2:27:0,10,17:0:0:10,17:360,604:-78.9487,-49.5728,-46.5625,-29.734,0,-24.6165 1/2:69:0,29,40:0:0:29,40:1040,1428:-201.546,-116.72,-107.99,-85.1845,0,-73.1433 1/2:102:0,70,32:0:0:70,32:2513,1127:-297.086,-92.0904,-71.0183,-205.35,0,-195.717 1/1:33:1,31,1:1:27:31,1:1108,36:-97.2864,-7.24808,0,-94.6499,-6.34959,-96.4749 1/1:70:1,69,0:1:36:69,0:2476,0:-219.487,-17.4738,0,-219.788,-20.7711,-222.725 chr01 20490446 . C G 3643.71 PASS AB=0.460606;ABP=9.68264;AC=10;AF=0.238095;AN=42;AO=229;CIGAR=1X;DP=904;DPB=904;DPRA=1.47299;EPP=500.277;EPPR=1468.75;GTI=0;LEN=1;MEANALT=1;MQM=59.5197;MQMR=59.5585;NS=21;NUMALT=1;ODDS=5.73932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8190;QR=24132;RO=675;RPL=229;RPP=500.277;RPPR=1468.75;RPR=0;RUN=1;SAF=229;SAP=500.277;SAR=0;SRF=675;SRP=1468.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:32,0:32:1135:0:0:0,-9.63296,-102.456 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.475 0/1:35:20,15:20:705:15:540:-38.3981,0,-53.2344 0/1:67:26,41:26:932:41:1464:-111.879,0,-63.96 0/1:109:66,43:66:2360:43:1544:-106.429,0,-179.835 0/1:82:35,47:35:1241:47:1679:-126.698,0,-87.2826 0/1:75:39,36:39:1381:36:1280:-92.8712,0,-101.974 0/1:44:25,19:25:896:19:684:-48.645,0,-67.7104 0/0:81:81,0:81:2908:0:0:0,-24.3834,-261.954 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5464 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9511 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.192 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3126 0/1:39:29,10:29:1031:10:351:-20.1856,0,-81.3625 0/1:14:7,7:7:252:7:252:-18.8099,0,-18.8145 0/1:18:13,5:13:464:5:180:-11.1335,0,-36.5553 0/0:64:63,1:63:2247:1:36:0,-15.6676,-198.872 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5049 chr01 20490457 . C T 13614.9 PASS AB=0.533469;ABP=7.80692;AC=32;AF=0.761905;AN=42;AO=662;CIGAR=1X;DP=893;DPB=893;DPRA=0;EPP=1440.53;EPPR=504.62;GTI=0;LEN=1;MEANALT=1;MQM=59.5801;MQMR=59.5065;NS=21;NUMALT=1;ODDS=5.13597;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23581;QR=8235;RO=231;RPL=662;RPP=1440.53;RPPR=504.62;RPR=0;RUN=1;SAF=662;SAP=1440.53;SAR=0;SRF=231;SRP=504.62;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32:0:0:32:1136:-102.549,-9.63296,0 1/1:65:0,65:0:0:65:2328:-209.755,-19.567,0 0/1:36:16,20:16:576:20:708:-53.2062,0,-41.3356 0/1:67:41,26:41:1476:26:928:-63.6399,0,-112.957 0/1:107:44,63:44:1575:63:2252:-170.722,0,-109.821 0/1:81:47,34:47:1677:34:1198:-83.7184,0,-126.818 0/1:75:35,40:35:1244:40:1428:-106.196,0,-89.6266 0/1:44:19,25:19:676:25:883:-66.5403,0,-47.9227 1/1:80:0,80:0:0:80:2855:-257.187,-24.0824,0 1/1:5:0,5:0:0:5:176:-16.18,-1.50515,0 0/1:13:6,7:6:207:7:252:-19.1156,0,-15.0535 1/1:25:0,25:0:0:25:879:-79.4203,-7.52575,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 1/1:62:0,62:0:0:62:2211:-199.145,-18.6639,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:27:0,27:0:0:27:953:-86.0806,-8.12781,0 0/1:39:10,29:10:360:29:1029:-81.181,0,-21.0032 0/1:14:7,7:7:243:7:244:-18.085,0,-17.9884 0/1:17:5,12:5:165:12:432:-33.9301,0,-10.0561 1/1:61:1,60:1:36:60:2141:-189.349,-14.7646,0 1/1:10:0,10:0:0:10:360:-32.7434,-3.0103,0 chr01 20506918 . CCAT CTTCAA,CTTCAT 52819.7 PASS AB=0.585488,0.3995;ABP=79.1205,108.199;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1986,480;CIGAR=1M2I2M1X,1M2I3M;DP=2498;DPB=3738.75;DPRA=0,1.16669;EPP=4315.55,1045.32;EPPR=5.18177;GTI=1;LEN=6,2;MEANALT=2.61905,3.18182;MQM=59.6621,59.625;MQMR=60;NS=21;NUMALT=2;ODDS=3.77319;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=70664,17038;QR=36;RO=1;RPL=0,0;RPP=4315.55,1045.32;RPPR=5.18177;RPR=1986,480;RUN=1,1;SAF=1986,480;SAP=4315.55,1045.32;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,41,0:0:0:41,0:1470,0:-132.28,-12.3422,0,-132.28,-12.3422,-132.28 1/1:79:0,79,0:0:0:79,0:2798,0:-251.702,-23.7814,0,-251.702,-23.7814,-251.702 1/2:86:0,59,27:0:0:59,27:2098,952:-248.831,-77.8614,-60.1007,-171.323,0,-163.195 1/2:195:0,132,61:0:0:132,61:4687,2176:-558.925,-177.13,-137.394,-381.791,0,-363.428 1/2:276:0,153,119:0:0:153,119:5458,4217:-788.391,-343.553,-297.496,-444.865,0,-409.042 1/2:43:0,19,24:0:0:19,24:683,856:-125.851,-70.1282,-64.4086,-56.0806,0,-48.8558 1/2:175:0,103,71:0:0:103,71:3663,2528:-504.483,-206.028,-175.022,-298.452,0,-277.079 1/2:115:0,70,44:0:0:70,44:2494,1560:-330.394,-127.113,-106.04,-203.306,0,-190.061 1/1:219:0,216,0:0:0:216,0:7665,0:-689.52,-65.0225,0,-689.52,-65.0225,-689.52 1/1:8:0,8,0:0:0:8,0:275,0:-25.0782,-2.40824,0,-25.0782,-2.40824,-25.0782 1/2:10:0,7,3:0:0:7,3:252,104:-29.3709,-8.79971,-6.6925,-20.9217,0,-20.0187 1/1:36:0,36,0:0:0:36,0:1274,0:-114.892,-10.8371,0,-114.892,-10.8371,-114.892 1/1:118:0,117,0:0:0:117,0:4174,0:-375.466,-35.2205,0,-375.466,-35.2205,-375.466 1/1:106:0,104,0:0:0:104,0:3724,0:-335.06,-31.3071,0,-335.06,-31.3071,-335.06 1/1:302:0,296,0:0:0:296,0:10531,0:-947.369,-89.1049,0,-947.369,-89.1049,-947.369 1/1:114:0,114,0:0:0:114,0:4032,0:-363.033,-34.3174,0,-363.033,-34.3174,-363.033 1/2:87:0,44,41:0:0:44,41:1571,1460:-247.07,-118.992,-105.747,-128.074,0,-115.732 1/2:120:0,60,54:0:0:60,54:2134,1923:-330.619,-156.718,-138.656,-173.912,0,-157.657 1/2:92:1,55,35:1:36:55,35:1959,1226:-256.177,-96.8069,-83.1879,-156.726,0,-149.128 1/1:205:0,204,1:0:0:204,1:7259,36:-652.708,-61.4101,0,-649.77,-58.1129,-649.469 1/1:69:0,69,0:0:0:69,0:2463,0:-221.905,-20.7711,0,-221.905,-20.7711,-221.905 chr01 20506943 . TGT TGC,AGC 53106.3 PASS AB=0.578423,0.414938;ABP=67.3814,78.7415;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1976,502;CIGAR=2M1X,1X1M1X;DP=2491;DPB=2491;DPRA=0,1.17009;EPP=4267.82,1075.79;EPPR=0;GTI=1;LEN=1,3;MEANALT=2,2.5;MQM=59.6943,59.5498;MQMR=0;NS=21;NUMALT=2;ODDS=2.20318;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70179,17675;QR=0;RO=0;RPL=1973,500;RPP=4267.82,1075.79;RPPR=0;RPR=3,2;RUN=1,1;SAF=1976,502;SAP=4293.84,1093.09;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43,0:0:0:43,0:1509,0:-136.101,-12.9443,0,-136.101,-12.9443,-136.101 1/1:79:0,79,0:0:0:79,0:2793,0:-251.478,-23.7814,0,-251.478,-23.7814,-251.478 1/2:87:0,58,29:0:0:58,29:2079,1005:-251.58,-82.0165,-64.5567,-169.914,0,-161.184 1/2:197:0,130,67:0:0:130,67:4623,2324:-565.736,-189.008,-149.874,-377.077,0,-356.908 1/2:280:0,154,126:0:0:154,126:5487,4435:-808.61,-361.378,-315.019,-447.586,0,-409.656 1/2:43:0,19,24:0:0:19,24:684,854:-125.76,-69.9474,-64.2278,-56.1708,0,-48.946 1/2:173:0,95,73:0:0:95,73:3333,2589:-482.018,-210.798,-182.2,-271.243,0,-249.268 1/2:115:0,69,44:0:0:69,44:2468,1538:-326.343,-125.1,-104.329,-201.236,0,-187.991 1/1:219:0,217,0:0:0:217,0:7709,0:-693.462,-65.3235,0,-693.462,-65.3235,-693.462 1/1:8:0,8,0:0:0:8,0:269,0:-24.5296,-2.40824,0,-24.5296,-2.40824,-24.5296 1/2:10:0,7,3:0:0:7,3:252,100:-29.0073,-8.42677,-6.31956,-20.9217,0,-20.0187 1/1:33:0,33,0:0:0:33,0:1172,0:-105.7,-9.93399,0,-105.7,-9.93399,-105.7 1/1:116:0,116,0:0:0:116,0:4135,0:-372.32,-34.9195,0,-372.32,-34.9195,-372.32 1/1:105:0,104,0:0:0:104,0:3706,0:-332.39,-31.3071,0,-332.39,-31.3071,-332.39 1/1:301:0,300,0:0:0:300,0:10644,0:-957.481,-90.309,0,-957.481,-90.309,-957.481 1/1:113:0,111,1:0:0:111,1:3934,36:-353.835,-33.4143,0,-350.898,-30.4779,-350.597 1/2:86:0,45,41:0:0:45,41:1579,1463:-248.119,-119.622,-106.076,-128.851,0,-116.508 1/2:122:0,66,55:0:0:66,55:2342,1945:-349.188,-158.381,-138.513,-190.802,0,-174.245 1/2:92:0,54,38:0:0:54,38:1899,1350:-264.932,-110.359,-94.1032,-154.927,0,-143.487 1/1:200:0,199,1:0:0:199,1:7090,36:-637.676,-59.905,0,-634.739,-56.6077,-634.438 1/1:69:0,69,0:0:0:69,0:2472,0:-222.704,-20.7711,0,-222.704,-20.7711,-222.704 chr01 20507028 . T C 13991.4 PASS AB=0.494355;ABP=3.47608;AC=10;AF=0.238095;AN=42;AO=841;CIGAR=1X;DP=3349;DPB=3349;DPRA=0.982456;EPP=1829.22;EPPR=5449.06;GTI=0;LEN=1;MEANALT=1;MQM=59.9608;MQMR=59.9964;NS=21;NUMALT=1;ODDS=13.9752;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30025;QR=89734;RO=2508;RPL=841;RPP=1829.22;RPPR=5449.06;RPR=0;RUN=1;SAF=0;SAP=1829.22;SAR=841;SRF=0;SRP=5449.06;SRR=2508;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:298:296,2:296:10632:2:72:0,-82.8702,-949.948 0/0:96:96,0:96:3433:0:0:0,-28.8989,-309.182 0/1:181:88,93:88:3160:93:3321:-244.62,0,-230.138 0/1:127:66,61:66:2349:61:2156:-156.072,0,-173.437 0/1:388:161,227:161:5780:227:8133:-615.18,0,-403.513 0/1:280:150,130:150:5384:130:4633:-332.844,0,-400.401 0/1:218:116,102:116:4145:102:3637:-261.91,0,-307.608 0/1:190:99,91:99:3564:91:3249:-235.434,0,-263.77 0/0:340:340,0:340:12194:0:0:0,-102.35,-1097.3 0/0:25:24,1:24:860:1:36:0,-3.92747,-74.1236 0/1:16:4,12:4:144:12:428:-34.0423,0,-8.49714 0/0:43:43,0:43:1525:0:0:0,-12.9443,-137.541 0/0:192:192,0:192:6801:0:0:0,-57.7978,-612.151 0/0:144:143,1:143:5098:1:36:0,-39.75,-455.364 0/0:231:231,0:231:8280:0:0:0,-69.5379,-745.208 0/0:63:61,2:61:2177:2:72:0,-12.1282,-189.358 0/1:113:58,55:58:2065:55:1965:-143.104,0,-152.103 0/1:70:42,28:42:1512:28:991:-68.4314,0,-115.303 0/1:100:67,33:67:2388:33:1188:-77.1256,0,-185.075 0/0:167:164,3:164:5835:3:108:0,-40.1968,-515.186 0/0:67:67,0:67:2408:0:0:0,-20.169,-216.976 chr01 20514794 . T G 11947.5 PASS AB=0.496518;ABP=3.16152;AC=11;AF=0.261905;AN=42;AO=717;CIGAR=1X;DP=2789;DPB=2789;DPRA=1.52345;EPP=1559.96;EPPR=4502.3;GTI=0;LEN=1;MEANALT=1;MQM=59.4742;MQMR=59.9677;NS=21;NUMALT=1;ODDS=5.94777;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25561;QR=74342;RO=2072;RPL=0;RPP=1559.96;RPPR=4502.3;RPR=717;RUN=1;SAF=0;SAP=1559.96;SAR=717;SRF=0;SRP=4502.3;SRR=2072;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:189:189,0:189:6788:0:0:0,-56.8947,-610.981 0/0:158:157,1:157:5628:1:36:0,-43.9645,-503.042 0/1:113:59,54:59:2116:54:1940:-140.854,0,-156.692 0/1:105:55,50:55:1980:50:1762:-127.181,0,-146.866 0/1:306:146,160:146:5248:160:5677:-418.816,0,-380.339 0/1:93:48,45:48:1728:45:1599:-116.187,0,-127.81 0/1:228:103,125:103:3704:125:4475:-334.159,0,-264.908 0/1:256:129,127:129:4632:127:4538:-331.487,0,-339.848 0/0:288:287,1:287:10284:1:36:0,-83.0984,-921.883 0/1:15:12,3:12:432:3:108:-5.55972,0,-34.7057 0/1:9:5,4:5:176:4:144:-10.596,0,-13.4757 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:97:97,0:97:3475:0:0:0,-29.1999,-312.958 0/0:88:88,0:88:3164:0:0:0,-26.4906,-284.98 0/0:225:224,1:224:8023:1:36:0,-64.1335,-718.49 0/0:142:142,0:142:5096:0:0:0,-42.7463,-458.78 0/1:153:62,91:62:2228:91:3251:-246.677,0,-154.726 0/1:103:61,42:61:2196:42:1500:-104.259,0,-166.899 0/1:55:43,12:43:1540:12:423:-21.8484,0,-122.336 0/0:102:101,1:101:3608:1:36:0,-27.1068,-321.321 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.324 chr01 20514804 . GCC GCT,ACT 58610.9 PASS AB=0.490141,0.508451;ABP=4.2092,3.89112;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1990,728;CIGAR=2M1X,1X1M1X;DP=2722;DPB=2722;DPRA=0,1.54071;EPP=4186.38,1489.74;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.95238,2.25;MQM=59.9724,59.4505;MQMR=0;NS=21;NUMALT=2;ODDS=9.3838;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70358,25736;QR=0;RO=0;RPL=1974,717;RPP=4186.38,1489.74;RPPR=0;RPR=16,11;RUN=1,1;SAF=0,0;SAP=4324.24,1583.84;SAR=1990,728;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:180:0,180,0:0:0:180,0:6379,0:-574.193,-54.1854,0,-574.193,-54.1854,-574.193 1/1:158:0,157,1:0:0:157,1:5532,36:-497.649,-47.2617,0,-494.711,-43.9645,-494.41 1/2:112:0,58,54:0:0:58,54:2012,1896:-318.191,-154.654,-137.194,-163.887,0,-147.631 1/2:103:0,52,51:0:0:52,51:1847,1786:-296.162,-145.658,-130.005,-150.856,0,-135.504 1/2:301:0,140,161:0:0:140,161:4918,5650:-860.274,-459.993,-417.848,-400.632,0,-352.166 1/2:94:0,49,45:0:0:49,45:1724,1589:-270.081,-129.739,-114.989,-140.694,0,-127.148 1/2:223:0,95,128:0:0:95,128:3363,4562:-645.886,-371.955,-343.357,-274.285,0,-235.753 1/2:253:0,125,128:0:0:125,128:4409,4529:-728.193,-369.199,-331.57,-359.347,0,-320.815 1/1:281:0,279,1:0:0:279,1:9945,36:-894.634,-83.9874,0,-891.697,-81.05,-891.396 1/2:15:0,12,3:0:0:12,3:432,108:-44.4211,-9.17208,-5.55972,-35.6088,0,-34.7057 1/2:9:0,5,4:0:0:5,4:172,142:-25.8827,-11.9198,-10.4146,-14.3128,0,-13.1087 1/1:16:0,16,0:0:0:16,0:576,0:-52.175,-4.81648,0,-52.175,-4.81648,-52.175 1/1:95:0,94,1:0:0:94,1:3331,36:-299.649,-28.2968,0,-296.712,-24.9996,-296.411 1/1:82:0,82,0:0:0:82,0:2905,0:-261.686,-24.6845,0,-261.686,-24.6845,-261.686 1/1:215:0,212,2:0:0:212,2:7484,72:-673.291,-63.8184,0,-667.416,-57.857,-666.814 1/1:133:0,133,0:0:0:133,0:4695,0:-422.712,-40.037,0,-422.712,-40.037,-422.712 1/2:153:0,60,93:0:0:60,93:2110,3292:-440.225,-268.473,-250.411,-172.104,0,-144.108 1/2:103:0,59,43:0:0:59,43:2080,1534:-294.359,-125.006,-107.245,-169.348,0,-156.404 1/2:54:0,41,12:0:0:41,12:1456,432:-153.962,-35.3227,-22.9805,-118.712,0,-115.1 1/1:94:0,93,1:0:0:93,1:3296,36:-296.5,-27.9958,0,-293.563,-24.6985,-293.261 1/1:48:0,48,0:0:0:48,0:1692,0:-152.566,-14.4494,0,-152.566,-14.4494,-152.566 chr01 20542221 . A G 1004.96 PASS AB=0.274348;ABP=697.828;AC=10;AF=0.238095;AN=42;AO=435;CIGAR=1X;DP=3131;DPB=3131;DPRA=0.992025;EPP=947.601;EPPR=5857.3;GTI=5;LEN=1;MEANALT=1;MQM=25.3195;MQMR=30.194;NS=21;NUMALT=1;ODDS=1.78931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15307;QR=96246;RO=2696;RPL=0;RPP=947.601;RPPR=5857.3;RPR=435;RUN=1;SAF=0;SAP=947.601;SAR=435;SRF=0;SRP=5857.3;SRR=2696;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:120:117,3:117:4166:3:108:0,-28.6678,-297.473 0/0:92:91,1:91:3234:1:36:0,-25.1361,-237.171 0/1:143:110,33:110:3952:33:1175:-30.7378,0,-231.504 0/1:183:112,71:112:4014:71:2492:-101.927,0,-228.207 0/1:237:153,84:153:5462:84:2939:-113.732,0,-323.108 0/1:149:120,29:120:4295:29:1013:-21.5249,0,-264.567 0/1:213:149,64:149:5338:64:2280:-83.8605,0,-314.825 0/1:183:148,35:148:5230:35:1256:-22.6559,0,-323.346 0/0:294:294,0:294:10489:0:0:0,-88.5028,-764.416 0/0:17:17,0:17:612:0:0:0,-5.11751,-43.7182 0/1:8:1,7:1:36:7:237:-13.4397,0,-0.779384 0/0:48:48,0:48:1720:0:0:0,-14.4494,-125.574 0/0:136:136,0:136:4864:0:0:0,-40.9401,-358.56 0/0:177:177,0:177:6281:0:0:0,-53.2823,-463.142 0/0:302:302,0:302:10812:0:0:0,-90.9111,-789.367 0/0:182:182,0:182:6500:0:0:0,-54.7875,-473.919 0/1:157:114,43:114:4096:43:1502:-47.296,0,-239.356 0/1:214:163,51:163:5792:51:1786:-48.6051,0,-348.54 0/1:84:70,14:70:2490:14:483:-5.95585,0,-153.85 0/0:114:114,0:114:4071:0:0:0,-34.3174,-300.972 0/0:78:78,0:78:2792:0:0:0,-23.4803,-202.369 chr01 20542252 . C A,G 41685.8 PASS AB=0.508118,0.49029;ABP=4.80845,5.58274;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1603,1540;CIGAR=1X,1X;DP=3148;DPB=3148;DPRA=0,22.4357;EPP=3483.88,3347.08;EPPR=9.52472;GTI=1;LEN=1,1;MEANALT=2.04762,2.1;MQM=31.7299,27.2825;MQMR=30.6667;NS=21;NUMALT=2;ODDS=16.494;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57316,54957;QR=89;RO=3;RPL=1603,1540;RPP=3483.88,3347.08;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3483.88,3347.08;SAR=1603,1540;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:121:1,62,57:1:32:62,57:2209,2040:-271.965,-116.146,-99.6326,-154.019,0,-139.01 1/2:91:0,46,45:0:0:46,45:1637,1601:-211.429,-94.7943,-80.9469,-116.926,0,-103.379 1/2:140:0,55,85:0:0:55,85:1971,3037:-298.386,-177.053,-160.497,-121.605,0,-96.0179 1/2:186:0,107,79:0:0:107,79:3838,2824:-394.437,-165.183,-132.972,-229.523,0,-205.741 1/2:236:1,144,91:1:21:144,91:5164,3248:-505.133,-188.038,-146.266,-315.881,0,-290.064 1/2:152:0,76,76:0:0:76,76:2713,2713:-338.009,-158.929,-136.05,-179.36,0,-156.482 1/2:214:0,113,101:0:0:113,101:4034,3605:-464.567,-210.941,-176.925,-253.899,0,-223.495 1/2:189:0,98,91:0:0:98,91:3517,3252:-415.66,-188.183,-158.682,-227.754,0,-200.36 1/2:295:0,140,154:0:0:140,154:5001,5481:-675.621,-319.866,-277.722,-355.777,0,-309.418 1/2:18:0,6,12:0:0:6,12:216,432:-40.6823,-25.2574,-23.4512,-15.7258,0,-12.1134 1/1:7:0,7,0:0:0:7,0:248,0:-16.8997,-2.10721,0,-16.8997,-2.10721,-16.8997 1/2:48:0,22,26:0:0:22,26:792,936:-111.411,-54.645,-48.0224,-57.0607,0,-49.2339 1/2:137:0,75,62:0:0:75,62:2692,2220:-320.734,-129.368,-106.791,-191.655,0,-172.991 1/2:178:0,94,84:0:0:94,84:3345,2984:-414.148,-175.879,-147.582,-238.558,0,-213.272 1/2:305:1,154,150:1:36:154,150:5498,5367:-698.564,-308.104,-263.828,-388.702,0,-345.63 1/2:179:0,88,91:0:0:88,91:3152,3260:-413.633,-188.521,-162.03,-225.403,0,-198.009 1/2:160:0,81,79:0:0:81,79:2878,2828:-339.932,-163.509,-139.126,-176.692,0,-152.911 1/2:215:0,102,113:0:0:102,113:3668,4044:-466.691,-237.064,-206.359,-229.902,0,-195.885 1/2:83:0,41,42:0:0:41,42:1439,1467:-181.676,-86.2506,-73.9083,-95.7016,0,-83.0584 1/2:115:0,59,56:0:0:59,56:2116,1988:-268.017,-117.251,-99.4906,-151.056,0,-134.199 1/2:79:0,33,46:0:0:33,46:1188,1630:-180.301,-95.6066,-85.6726,-84.9899,0,-71.1425 chr01 20542262 . TTC TTT,CTT 41511.7 PASS AB=0.625276,0.373779;ABP=435.543,442.096;AC=21,21;AF=0.5,0.5;AN=42;AO=1984,1186;CIGAR=2M1X,1X1M1X;DP=3173;DPB=3173.67;DPRA=0,0;EPP=4311.21,2578.38;EPPR=0;GTI=3;LEN=1,3;MEANALT=2.14286,2.14286;MQM=26.8054,33.9283;MQMR=0;NS=21;NUMALT=2;ODDS=4.93764;PAIRED=0,0;PAIREDR=0;PAO=0.5,1;PQA=0,36;PQR=0;PRO=0.5;QA=71031,42028;QR=0;RO=0;RPL=1984,1186;RPP=4311.21,2578.38;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4311.21,2578.38;SAR=1984,1186;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,62,61:0:0:62,61:2228,2162:-282.066,-153.457,-134.793,-128.897,0,-110.535 1/2:93:0,47,46:0:0:47,46:1677,1630:-215.453,-116.954,-102.805,-98.7904,0,-84.943 1/2:145:0,120,25:0:0:120,25:4308,883:-308.512,-63.8082,-27.6846,-245.01,0,-237.484 1/2:189:0,152,37:0:0:152,37:5441,1323:-398.714,-94.651,-48.8945,-304.368,0,-293.23 1/2:240:0,177,62:0:0:177,62:6328,2205:-512.644,-158.011,-104.728,-354.615,0,-335.951 1/2:149:0,104,45:0:0:104,45:3721,1570:-326.76,-112.877,-81.5701,-213.827,0,-200.281 1/2:215:0,163,52:0:0:163,52:5852,1848:-467.225,-132.232,-83.1645,-335.295,0,-319.641 1/2:188:0,126,62:0:0:126,62:4486,2165:-409.98,-155.59,-117.66,-254.684,0,-236.02 1/2:293:0,152,140:0:0:152,140:5464,4947:-668.683,-352.239,-306.483,-316.479,0,-274.335 1/2:18:0,11,7:0:0:11,7:396,249:-40.9518,-18.0729,-14.7615,-23.1747,0,-21.0675 1/2:8:0,7,1:0:0:7,1:252,36:-16.8442,-2.88659,-0.779384,-14.2685,0,-13.9675 1/2:49:0,28,21:0:0:28,21:1000,754:-112.315,-54.0863,-45.6575,-58.5238,0,-52.2022 1/2:139:0,63,76:0:0:63,76:2241,2711:-323.586,-193.261,-174.296,-130.612,0,-107.734 1/2:182:0,84,98:0:0:84,98:2993,3428:-419.966,-244.777,-219.491,-175.475,0,-145.974 1/2:305:0,150,154:0:0:150,154:5369,5491:-699.424,-389.701,-344.546,-309.707,0,-263.348 1/2:184:0,95,89:0:0:95,89:3404,3161:-422.522,-226.342,-197.744,-196.471,0,-169.679 1/2:159:0,123,36:0:0:123,36:4404,1275:-338.839,-91.4125,-54.3858,-247.728,0,-236.891 1/2:217:0,166,51:0:0:166,51:5950,1821:-468.733,-130.94,-80.9695,-338.096,0,-322.744 1/2:83:0,55,28:0:0:55,28:1972,990:-183.246,-71.1853,-54.6287,-112.357,0,-103.928 1/2:114:0,53,61:0:0:53,61:1893,2162:-264.982,-154.819,-138.865,-110.45,0,-92.0871 1/2:80:0,46,34:0:0:46,34:1652,1217:-183.194,-87.1695,-73.3221,-96.3202,0,-86.0852 chr01 20586264 . C T 14309.3 PASS AB=0.79199;ABP=576.189;AC=14;AF=0.333333;AN=42;AO=735;CIGAR=1X;DP=1191;DPB=1191;DPRA=3.11688;EPP=1599.04;EPPR=993.202;GTI=9;LEN=1;MEANALT=1;MQM=54.117;MQMR=41.5395;NS=21;NUMALT=1;ODDS=6.89034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26357;QR=16328;RO=456;RPL=0;RPP=1599.04;RPPR=993.202;RPR=735;RUN=1;SAF=735;SAP=1599.04;SAR=0;SRF=456;SRP=993.202;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:14:12,2:12:432:2:72:-2.60928,0,-33.965 0/0:12:12,0:12:432:0:0:0,-3.61236,-38.1794 1/1:70:4,66:4:144:66:2376:-200.027,-8.11211,0 0/1:60:6,54:6:212:54:1944:-156.112,0,-0.887651 0/1:220:22,198:22:784:198:7100:-571.317,0,-2.37755 0/1:75:10,65:10:360:65:2316:-185.724,0,-8.75578 0/1:119:13,106:13:464:106:3800:-304.401,0,-4.57827 0/1:112:34,78:34:1212:78:2804:-218.753,0,-71.7077 0/0:29:29,0:29:1040:0:0:0,-8.72987,-92.0709 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.7816 1/1:5:0,5:0:0:5:176:-16.1787,-1.50515,0 0/0:10:10,0:10:360:0:0:0,-3.0103,-31.4359 0/0:40:40,0:40:1428:0:0:0,-12.0412,-123.878 0/0:44:44,0:44:1572:0:0:0,-13.2453,-137.585 0/0:46:46,0:46:1640:0:0:0,-13.8474,-143.616 0/0:13:13,0:13:468:0:0:0,-3.91339,-41.7263 1/1:53:3,50:3:108:50:1781:-150.141,-6.05345,0 0/1:101:26,75:26:932:75:2700:-212.295,0,-50.5476 0/1:73:38,35:38:1368:35:1252:-90.1441,0,-95.5254 0/0:58:57,1:57:2040:1:36:0,-13.8632,-172.828 0/0:33:33,0:33:1188:0:0:0,-9.93399,-104.677 chr01 20586326 . A C 25079.6 PASS AB=0.277487;ABP=495.855;AC=31;AF=0.738095;AN=42;AO=964;CIGAR=1X;DP=1794;DPB=1794;DPRA=0;EPP=381.666;EPPR=1168.35;GTI=2;LEN=1;MEANALT=1.04762;MQM=46.5643;MQMR=43.2207;NS=21;NUMALT=1;ODDS=1.68638;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34193;QR=29706;RO=829;RPL=705;RPP=451.081;RPPR=1161.37;RPR=259;RUN=1;SAF=428;SAP=29.2842;SAR=536;SRF=1;SRP=1794.49;SRR=828;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:0,50:0:0:50:1775:-157.86,-15.0515,0 1/1:50:0,50:0:0:50:1783:-157.68,-15.0515,0 0/1:94:79,15:79:2844:15:540:-20.2248,0,-222.799 0/1:131:108,23:108:3851:23:828:-34.7852,0,-301.453 0/1:219:179,39:179:6398:39:1363:-54.941,0,-497.006 0/1:107:87,20:87:3111:20:699:-29.6468,0,-237.47 0/1:133:103,30:103:3708:30:1068:-55.0851,0,-281.59 0/1:173:122,51:122:4379:51:1789:-104.66,0,-330.828 1/1:68:0,68:0:0:68:2428:-216.664,-20.47,0 0/1:12:2,10:2:72:10:347:-27.5486,0,-3.07756 0/1:8:2,6:2:72:6:216:-17.275,0,-4.20508 1/1:38:0,38:0:0:38:1360:-120.919,-11.4391,0 1/1:86:1,85:1:36:85:3024:-264.808,-22.2929,0 1/1:65:0,65:0:0:65:2277:-201.386,-19.567,0 1/1:79:0,79:0:0:79:2796:-247.445,-23.7814,0 1/1:27:0,27:0:0:27:964:-85.7163,-8.12781,0 0/1:90:81,9:81:2908:9:320:-1.9079,0,-231.149 0/1:85:36,49:36:1296:49:1748:-128.608,0,-88.0575 0/1:94:28,66:28:995:66:2329:-176.477,0,-59.8163 1/1:109:1,108:1:36:108:3835:-333.388,-29.2913,0 1/1:76:0,76:0:0:76:2704:-239.23,-22.8783,0 chr01 20586334 . AC AG,AGA 27218.9 PASS AB=0.201117,0.796089;ABP=558.568,548.232;AC=29,13;AF=0.690476,0.309524;AN=42;AO=538,832;CIGAR=1M1X,1M1I1X;DP=1377;DPB=1794;DPRA=0,2.50789;EPP=1171.26,1809.68;EPPR=0;GTI=7;LEN=1,3;MEANALT=1.90476,2.33333;MQM=50.8048,43.2055;MQMR=0;NS=21;NUMALT=2;ODDS=3.02941;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19191,29423;QR=0;RO=0;RPL=538,832;RPP=1171.26,1809.68;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1171.26,1809.68;SAR=538,832;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40,0:0:0:40,0:1423,0:-126.495,-12.0412,0,-126.495,-12.0412,-126.495 1/1:36:0,36,0:0:0:36,0:1273,0:-113.217,-10.8371,0,-113.217,-10.8371,-113.217 1/2:89:0,11,78:0:0:11,78:396,2757:-252.719,-220.474,-217.163,-32.6029,0,-9.12255 1/2:126:0,17,109:0:0:17,109:612,3864:-359.503,-309.67,-304.552,-50.1904,0,-17.3781 2/2:198:0,17,181:0:0:17,181:604,6320:-557.513,-508.854,-503.737,-54.4864,-5.47663,0 1/2:99:0,12,87:0:0:12,87:432,3098:-277.629,-242.589,-238.977,-35.3962,0,-9.20659 1/2:125:0,20,104:0:0:20,104:708,3694:-345.9,-288.662,-282.641,-57.3345,0,-26.0274 1/2:139:0,17,121:0:0:17,121:608,4274:-387.098,-338.18,-333.062,-48.9348,0,-12.5101 1/1:39:0,39,0:0:0:39,0:1388,0:-124.888,-11.7402,0,-124.888,-11.7402,-124.888 1/2:8:0,6,2:0:0:6,2:216,72:-23.6536,-6.08786,-4.28168,-17.9195,0,-17.3174 1/2:8:0,6,2:0:0:6,2:216,72:-23.5378,-6.01126,-4.20508,-17.877,0,-17.275 1/1:28:0,28,0:0:0:28,0:996,0:-89.4172,-8.42884,0,-89.4172,-8.42884,-89.4172 1/1:49:0,49,0:0:0:49,0:1760,0:-158.336,-14.7505,0,-158.336,-14.7505,-158.336 1/1:27:0,27,0:0:0:27,0:951,0:-85.5361,-8.12781,0,-85.5361,-8.12781,-85.5361 1/1:37:0,35,0:0:0:35,0:1248,0:-111.765,-10.5361,0,-111.765,-10.5361,-111.765 1/1:14:0,14,0:0:0:14,0:500,0:-44.5866,-4.21442,0,-44.5866,-4.21442,-44.5866 2/2:88:0,7,80:0:0:7,80:252,2862:-254.136,-233.606,-231.498,-24.0824,-3.51684,0 1/2:65:0,26,39:0:0:26,39:928,1383:-184.133,-109.639,-101.812,-74.8435,0,-63.1033 1/2:57:0,29,28:0:0:29,28:1024,991:-162.564,-79.3474,-70.6176,-83.5665,0,-75.1377 1/1:58:0,56,1:0:0:56,1:2008,36:-179.53,-16.8577,0,-176.662,-13.9811,-176.361 1/1:47:0,46,0:0:0:46,0:1648,0:-146.553,-13.8474,0,-146.553,-13.8474,-146.553 chr01 20599873 . A C 23982.3 PASS AB=0.53886;ABP=10.6048;AC=32;AF=0.761905;AN=42;AO=1094;CIGAR=1X;DP=1363;DPB=1363;DPRA=0;EPP=2275.51;EPPR=569.894;GTI=1;LEN=1;MEANALT=1;MQM=59.9479;MQMR=56.4684;NS=21;NUMALT=1;ODDS=2.20795;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39142;QR=9660;RO=269;RPL=1082;RPP=2275.51;RPPR=569.894;RPR=12;RUN=1;SAF=0;SAP=2378.6;SAR=1094;SRF=0;SRP=587.136;SRR=269;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,76:0:0:76:2728:-245.763,-22.8783,0 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 0/1:41:24,17:24:864:17:612:-43.0712,0,-65.6586 0/1:79:42,37:42:1500:37:1328:-96.0327,0,-111.453 0/1:117:40,77:40:1436:77:2756:-213.061,0,-94.2491 0/1:80:50,30:50:1800:30:1068:-72.3359,0,-137.83 0/1:87:39,48:39:1404:48:1724:-129.256,0,-100.282 0/1:54:23,31:23:824:31:1116:-84.4961,0,-58.1915 1/1:77:0,77:0:0:77:2767:-249.271,-23.1793,0 1/1:14:1,13:1:36:13:459:-38.0482,-0.617855,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.08802 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:67:0,67:0:0:67:2393:-215.621,-20.169,0 1/1:60:0,60:0:0:60:2143:-193.137,-18.0618,0 1/1:311:1,310:1:36:310:11079:-993.371,-90.0221,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:40:20,20:20:716:20:720:-53.0876,0,-52.7261 0/1:45:23,22:23:828:22:777:-56.704,0,-60.4879 0/1:31:5,26:5:180:26:921:-73.8709,0,-7.21219 1/1:78:0,78:0:0:78:2800:-252.24,-23.4803,0 1/1:20:0,20:0:0:20:707:-63.9546,-6.0206,0 chr01 20803565 . T C 9039.12 PASS AB=0.481383;ABP=6.40611;AC=10;AF=0.238095;AN=42;AO=544;CIGAR=1X;DP=2420;DPB=2420;DPRA=1.00729;EPP=1184.29;EPPR=4076.69;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9856;NS=21;NUMALT=1;ODDS=13.8468;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19473;QR=67066;RO=1876;RPL=0;RPP=1184.29;RPPR=4076.69;RPR=544;RUN=1;SAF=544;SAP=1184.29;SAR=0;SRF=1876;SRP=4076.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:183:183,0:183:6561:0:0:0,-55.0885,-590.569 0/0:112:112,0:112:4008:0:0:0,-33.7154,-360.909 0/1:93:50,43:50:1784:43:1548:-111.617,0,-132.847 0/1:82:37,45:37:1328:45:1607:-120.236,0,-95.1378 0/1:260:133,127:133:4750:127:4559:-332.207,0,-349.07 0/1:111:51,60:51:1808:60:2138:-159.271,0,-129.585 0/1:184:112,72:112:4009:72:2575:-176.609,0,-305.608 0/1:100:48,52:48:1728:52:1872:-138.656,0,-125.702 0/0:253:253,0:253:9069:0:0:0,-76.1606,-816.182 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/0:144:143,1:143:5079:1:36:0,-39.75,-453.655 0/0:97:97,0:97:3461:0:0:0,-29.1999,-311.701 0/0:154:154,0:154:5501:0:0:0,-46.3586,-495.216 0/0:101:101,0:101:3632:0:0:0,-30.404,-327.084 0/1:75:39,36:39:1370:36:1292:-94.0065,0,-101.017 0/1:126:57,69:57:2040:69:2459:-183.634,0,-145.942 0/1:86:55,31:55:1972:31:1099:-73.3309,0,-151.866 0/0:147:147,0:147:5238:0:0:0,-44.2514,-471.557 0/0:70:70,0:70:2504:0:0:0,-21.0721,-225.613 chr01 20811676 . T C 32927.3 PASS AB=0.496593;ABP=3.12868;AC=32;AF=0.761905;AN=42;AO=1633;CIGAR=1X;DP=2236;DPB=2236;DPRA=0;EPP=3549.02;EPPR=1308.07;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9577;MQMR=59.9917;NS=21;NUMALT=1;ODDS=6.50432;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57370;QR=21342;RO=601;RPL=1633;RPP=3549.02;RPPR=1308.07;RPR=0;RUN=1;SAF=1633;SAP=3549.02;SAR=0;SRF=601;SRP=1308.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,81:0:0:81:2828:-254.758,-24.3834,0 1/1:12:0,12:0:0:12:410:-37.2265,-3.61236,0 0/1:43:24,19:24:841:19:684:-48.946,0,-63.0621 0/1:26:14,12:14:495:12:432:-31.3944,0,-37.0563 0/1:101:57,44:57:2048:44:1534:-107.944,0,-154.188 0/1:63:34,29:34:1198:29:1023:-73.4168,0,-89.1591 0/1:100:53,47:53:1879:47:1675:-120.933,0,-139.285 0/1:45:26,19:26:913:19:675:-47.5306,0,-68.9375 1/1:130:1,129:1:36:129:4504:-401.931,-35.5356,0 1/1:235:3,231:3:108:231:8123:-721.026,-60.7257,0 0/1:289:151,138:151:5362:138:4876:-351.995,0,-395.719 1/1:322:1,321:1:36:321:11336:-1016.54,-93.3334,0 1/1:62:1,61:1:36:61:2131:-188.458,-15.0656,0 1/1:32:0,32:0:0:32:1107:-99.9345,-9.63296,0 1/1:82:3,79:3:108:79:2779:-240.27,-14.6093,0 1/1:46:0,46:0:0:46:1598:-144.105,-13.8474,0 0/1:23:11,12:11:392:12:432:-32.2975,0,-28.6964 0/1:448:213,234:213:7570:234:8147:-598.333,0,-546.423 0/1:36:7,29:7:252:29:1011:-80.4633,0,-12.1919 1/1:36:1,35:1:36:35:1241:-108.39,-7.23881,0 1/1:24:1,23:1:32:23:824:-71.284,-4.02541,0 chr01 20862864 . C A 9693.89 PASS AB=0.548544;ABP=24.0926;AC=10;AF=0.238095;AN=42;AO=567;CIGAR=1X;DP=2172;DPB=2172;DPRA=0.900456;EPP=1234.24;EPPR=3483.88;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.9506;MQMR=59.9775;NS=21;NUMALT=1;ODDS=11.4003;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20140;QR=57370;RO=1603;RPL=0;RPP=1234.24;RPPR=3483.88;RPR=567;RUN=1;SAF=567;SAP=1234.24;SAR=0;SRF=1603;SRP=3483.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:181:181,0:181:6476:0:0:0,-54.4864,-582.926 0/0:135:135,0:135:4833:0:0:0,-40.639,-435.078 0/1:64:19,45:19:684:45:1601:-125.112,0,-42.6244 0/1:101:48,53:48:1708:53:1904:-141.234,0,-123.602 0/1:259:115,144:115:4116:144:5126:-383.515,0,-292.658 0/1:91:34,57:34:1220:57:1987:-151.705,0,-82.7131 0/1:190:81,108:81:2888:108:3868:-291.034,0,-202.903 0/1:85:40,45:40:1440:45:1593:-118.071,0,-104.31 0/0:177:177,0:177:6336:0:0:0,-53.2823,-570.331 0/0:17:17,0:17:600:0:0:0,-5.11751,-54.3292 0/1:19:6,13:6:212:13:464:-36.3779,0,-13.7052 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:125:125,0:125:4465:0:0:0,-37.6287,-401.862 0/0:111:111,0:111:3984:0:0:0,-33.4143,-358.749 0/0:158:158,0:158:5656:0:0:0,-47.5627,-509.16 0/0:60:60,0:60:2144:0:0:0,-18.0618,-193.228 0/1:93:43,49:43:1544:49:1729:-127.825,0,-111.199 0/1:55:27,28:27:972:28:991:-72.9461,0,-71.2413 0/1:73:50,23:50:1792:23:805:-50.7923,0,-139.587 0/0:100:99,1:99:3548:1:36:0,-26.5047,-315.93 0/0:55:54,1:54:1928:1:36:0,-12.9584,-170.198 chr01 20862891 . AAAG AAAA,CAAA 126726 PASS AB=0.452822,0.545855;ABP=46.8572,44.433;AC=32,10;AF=0.761905,0.238095;AN=42;AO=3422,1247;CIGAR=3M1X,1X2M1X;DP=4680;DPB=4680.5;DPRA=0,1.3414;EPP=7381.76,2693.49;EPPR=7.35324;GTI=0;LEN=1,4;MEANALT=2.14286,2.4;MQM=59.697,49.0176;MQMR=60;NS=21;NUMALT=2;ODDS=22.3362;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=121955,43537;QR=67;RO=2;RPL=1607,582;RPP=30.464,15.0065;RPPR=7.35324;RPR=1815,665;RUN=1,1;SAF=1613,584;SAP=27.3876,13.8781;SAR=1809,663;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:278:0,274,2:0:0:274,2:9776,65:-879.428,-82.4822,0,-874.376,-77.4579,-873.774 1/1:266:0,265,0:0:0:265,0:9443,0:-849.276,-79.773,0,-849.276,-79.773,-849.276 1/2:176:0,63,113:0:0:63,113:2252,3930:-494.378,-310.766,-291.801,-183.962,0,-149.946 1/2:267:0,132,135:0:0:132,135:4693,4715:-754.891,-372.501,-332.765,-382.738,0,-342.099 1/2:543:1,223,318:1:31:223,318:7958,11064:-1519.26,-870.845,-806.204,-646.239,0,-553 1/2:233:0,94,138:0:0:94,138:3338,4870:-660.349,-388.462,-360.165,-271.998,0,-230.455 1/2:392:0,185,207:0:0:185,207:6578,7206:-1111.28,-575.36,-519.67,-536.268,0,-473.955 1/2:188:0,87,101:0:0:87,101:3115,3529:-534.703,-281.083,-254.894,-253.97,0,-223.566 1/1:428:0,427,1:0:0:427,1:15231,36:-1369.97,-128.54,0,-1367.04,-125.243,-1366.73 1/1:42:0,42,0:0:0:42,0:1493,0:-134.663,-12.6433,0,-134.663,-12.6433,-134.663 1/2:31:0,8,23:0:0:8,23:284,811:-88.1297,-64.9871,-62.5788,-23.4951,0,-16.5714 1/1:56:0,56,0:0:0:56,0:1993,0:-179.597,-16.8577,0,-179.597,-16.8577,-179.597 1/1:269:0,268,0:0:0:268,0:9515,0:-856.028,-80.676,0,-856.028,-80.676,-856.028 1/1:283:0,281,1:0:0:281,1:10004,36:-899.809,-84.5894,0,-896.872,-81.652,-896.57 1/1:302:1,300,0:1:36:300,0:10671,0:-956.72,-87.3166,0,-957.021,-90.309,-959.959 1/1:140:0,140,0:0:0:140,0:5015,0:-451.496,-42.1442,0,-451.496,-42.1442,-451.496 1/2:157:0,71,86:0:0:71,86:2543,2981:-445.878,-238.498,-217.125,-207.731,0,-181.842 1/2:149:0,72,77:0:0:72,77:2568,2714:-422.451,-213.107,-191.433,-209.693,0,-186.513 1/2:132:0,92,40:0:0:92,40:3288,1407:-380.704,-112.644,-84.9489,-268.41,0,-256.368 1/1:235:0,233,2:0:0:233,2:8321,70:-748.202,-70.14,0,-742.577,-64.1687,-741.975 1/1:113:0,109,3:0:0:109,3:3876,103:-348.563,-32.8123,0,-340.205,-24.406,-339.302 chr01 20862930 . C G 10786.5 PASS AB=0.54531;ABP=25.4431;AC=10;AF=0.238095;AN=42;AO=688;CIGAR=1X;DP=2533;DPB=2533;DPRA=1.04735;EPP=1496.98;EPPR=3998.52;GTI=0;LEN=1;MEANALT=1;MQM=39.4157;MQMR=59.3281;NS=21;NUMALT=1;ODDS=2.91123;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24546;QR=65920;RO=1844;RPL=688;RPP=1496.98;RPPR=4007.21;RPR=0;RUN=1;SAF=0;SAP=1496.98;SAR=688;SRF=1;SRP=3998.52;SRR=1843;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:98:96,2:96:3420:2:72:0,-22.9961,-301.436 0/0:131:131,0:131:4708:0:0:0,-39.4349,-423.413 0/1:115:46,69:46:1640:69:2470:-175.549,0,-113.254 0/1:170:82,88:82:2925:88:3151:-218.53,0,-212.232 0/1:291:114,177:114:4057:177:6286:-446.687,0,-277.661 0/1:142:61,81:61:2172:81:2885:-207.595,0,-152.923 0/1:203:107,96:107:3825:96:3423:-234.303,0,-283.209 0/1:104:46,58:46:1633:58:2067:-147.389,0,-115.534 0/0:251:251,0:251:8976:0:0:0,-75.5585,-806.847 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/1:12:2,10:2:72:10:356:-27.0822,0,-3.22436 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.931 0/0:149:149,0:149:5344:0:0:0,-44.8535,-480.893 0/0:172:172,0:172:6151:0:0:0,-51.7772,-553.385 0/0:144:144,0:144:5160:0:0:0,-43.3483,-464.286 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/1:62:26,36:26:932:36:1284:-91.8089,0,-65.5186 0/1:99:46,53:46:1652:53:1908:-132.746,0,-119.057 0/1:60:42,18:42:1512:18:644:-37.3911,0,-118.265 0/0:135:135,0:135:4798:0:0:0,-40.639,-431.23 0/0:57:56,0:56:1995:0:0:0,-16.8577,-179.345 chr01 20870194 . C A 6857.81 PASS AB=0.468846;ABP=11.2637;AC=10;AF=0.238095;AN=42;AO=460;CIGAR=1X;DP=1891;DPB=1891;DPRA=1.22643;EPP=1001.89;EPPR=3106.04;GTI=0;LEN=1;MEANALT=1.18182;MQM=39.9913;MQMR=54.154;NS=21;NUMALT=1;ODDS=7.1542;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16446;QR=50671;RO=1429;RPL=460;RPP=1001.89;RPPR=3106.04;RPR=0;RUN=1;SAF=460;SAP=1001.89;SAR=0;SRF=1429;SRP=3106.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:123,0:123:4382:0:0:0,-37.0267,-393.585 0/0:51:51,0:51:1828:0:0:0,-15.3525,-162.676 0/1:92:39,53:39:1377:53:1904:-139.38,0,-95.9385 0/1:137:62,75:62:2153:75:2647:-188.446,0,-152.52 0/1:183:100,83:100:3543:83:2980:-204.699,0,-263.414 0/1:99:55,43:55:1963:43:1548:-100.2,0,-146.076 0/1:159:78,81:78:2735:81:2893:-193.471,0,-196.909 0/1:135:80,55:80:2859:55:1962:-127.7,0,-215.965 0/0:119:119,0:119:4187:0:0:0,-35.8226,-376.646 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.8219 0/1:7:5,2:5:172:2:72:-4.24508,0,-13.6417 0/0:26:26,0:26:923:0:0:0,-7.82678,-83.0816 0/0:186:186,0:186:6623:0:0:0,-55.9916,-595.114 0/0:119:119,0:119:4234:0:0:0,-35.8226,-380.1 0/0:80:80,0:80:2818:0:0:0,-24.0824,-253.132 0/0:53:53,0:53:1861:0:0:0,-15.9546,-167.526 0/1:65:37,28:37:1328:28:1004:-68.6513,0,-100.056 0/1:64:34,30:34:1205:30:1080:-74.2904,0,-88.801 0/1:38:28,9:28:1000:9:320:-16.9207,0,-78.5946 0/0:107:106,1:106:3764:1:36:0,-28.7557,-332.517 0/0:37:37,0:37:1320:0:0:0,-11.1381,-118.314 chr01 20913747 . GCAG GCAC,ACAC 23729.6 PASS AB=0.497529,0.495881;ABP=3.0425,3.09973;AC=32,10;AF=0.761905,0.238095;AN=42;AO=806,301;CIGAR=3M1X,1X2M1X;DP=1112;DPB=1112;DPRA=0,1.32218;EPP=1710.06,639.367;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.71429,2.4;MQM=59.969,59.5183;MQMR=0;NS=21;NUMALT=2;ODDS=3.63391;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28810,10460;QR=0;RO=0;RPL=801,299;RPP=1710.06,639.367;RPPR=0;RPR=5,2;RUN=1,1;SAF=806,301;SAP=1753.22,656.623;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:0,65,0:0:0:65,0:2336,0:-210.499,-19.567,0,-210.499,-19.567,-210.499 1/1:25:0,25,0:0:0:25,0:896,0:-80.9604,-7.52575,0,-80.9604,-7.52575,-80.9604 1/2:63:0,18,45:0:0:18,45:644,1589:-182.262,-129.746,-124.327,-52.8721,0,-39.3257 1/2:29:0,17,12:0:0:17,12:612,419:-84.3702,-34.4277,-29.3102,-50.2959,0,-46.6836 1/2:129:0,72,54:0:0:72,54:2584,1876:-363.215,-152.431,-130.756,-210.848,0,-194.593 1/2:65:0,27,38:0:0:27,38:959,1303:-184.267,-106.119,-97.9916,-78.4976,0,-67.0584 1/2:78:0,35,43:0:0:35,43:1236,1492:-222.273,-121.618,-111.082,-101.005,0,-88.0612 1/2:56:0,28,28:0:0:28,28:995,986:-161.7,-80.6207,-72.1919,-81.4333,0,-73.0045 1/1:89:0,89,0:0:0:89,0:3200,0:-288.22,-26.7917,0,-288.22,-26.7917,-288.22 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/2:7:0,4,3:0:0:4,3:144,107:-20.8306,-9.07908,-7.87496,-12.1095,0,-11.2064 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:50:0,50,0:0:0:50,0:1787,0:-161.094,-15.0515,0,-161.094,-15.0515,-161.094 1/1:54:0,53,0:0:0:53,0:1889,0:-170.036,-15.9546,0,-170.036,-15.9546,-170.036 1/1:88:0,88,0:0:0:88,0:3164,0:-284.984,-26.4906,0,-284.984,-26.4906,-284.984 1/1:23:0,23,0:0:0:23,0:816,0:-73.7617,-6.92369,0,-73.7617,-6.92369,-73.7617 1/2:23:0,14,9:0:0:14,9:500,303:-65.6636,-24.8863,-20.6719,-41.1218,0,-38.4125 1/2:91:0,40,51:0:0:40,51:1410,1768:-258.809,-144.004,-131.963,-115.155,0,-99.802 1/2:66:0,47,18:0:0:47,18:1668,617:-185.977,-50.0674,-35.919,-135.896,0,-130.478 1/1:65:0,65,0:0:0:65,0:2327,0:-209.689,-19.567,0,-209.689,-19.567,-209.689 1/1:31:0,31,0:0:0:31,0:1107,0:-99.9402,-9.33193,0,-99.9402,-9.33193,-99.9402 chr01 20913815 . G C 6342.4 PASS AB=0.455063;ABP=18.428;AC=10;AF=0.238095;AN=42;AO=401;CIGAR=1X;DP=1630;DPB=1630;DPRA=1.43556;EPP=873.771;EPPR=2669.58;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9526;MQMR=59.9796;NS=21;NUMALT=1;ODDS=13.9908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14202;QR=43288;RO=1228;RPL=0;RPP=873.771;RPPR=2669.58;RPR=401;RUN=1;SAF=0;SAP=873.771;SAR=401;SRF=0;SRP=2669.58;SRR=1228;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:79:79,0:79:2821:0:0:0,-23.7814,-254.123 0/0:26:26,0:26:913:0:0:0,-7.82678,-82.484 0/1:67:35,32:35:1239:32:1124:-81.2962,0,-91.6446 0/1:130:64,66:64:2237:66:2356:-173.161,0,-162.457 0/1:142:71,71:71:2472:71:2533:-185.46,0,-179.981 0/1:71:41,30:41:1447:30:1076:-75.7797,0,-109.152 0/1:98:55,43:55:1905:43:1523:-107.861,0,-142.223 0/1:109:54,54:54:1901:54:1902:-138.583,0,-138.495 0/0:119:118,1:118:4150:1:36:0,-32.2243,-370.086 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.1704 0/1:5:2,3:2:72:3:104:-8.19766,0,-5.33157 0/0:32:32,0:32:1139:0:0:0,-9.63296,-102.818 0/0:102:102,0:102:3642:0:0:0,-30.7051,-327.984 0/0:79:79,0:79:2743:0:0:0,-23.7814,-247.105 0/0:120:120,0:120:4237:0:0:0,-36.1236,-381.511 0/0:26:26,0:26:919:0:0:0,-7.82678,-83.0262 0/1:58:30,28:30:1064:28:995:-72.4043,0,-78.6119 0/1:102:55,47:55:1926:47:1649:-117.991,0,-142.911 0/1:97:71,26:71:2488:26:904:-52.472,0,-194.973 0/0:102:102,0:102:3620:0:0:0,-30.7051,-326.004 0/0:50:50,0:50:1777:0:0:0,-15.0515,-160.211 chr01 20913836 . A G 25176.7 PASS AB=0.541284;ABP=15.9196;AC=32;AF=0.761905;AN=42;AO=1226;CIGAR=1X;DP=1626;DPB=1626;DPRA=0;EPP=2656.56;EPPR=869.428;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9796;MQMR=59.9774;NS=21;NUMALT=1;ODDS=13.949;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43258;QR=14295;RO=399;RPL=1;RPP=2656.56;RPPR=869.428;RPR=1225;RUN=1;SAF=0;SAP=2665.24;SAR=1226;SRF=0;SRP=869.428;SRR=399;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,78:0:0:78:2757:-248.372,-23.4803,0 1/1:27:0,27:0:0:27:946:-85.4529,-8.12781,0 0/1:67:31,36:31:1116:36:1277:-95.0621,0,-80.5827 0/1:129:64,64:64:2300:64:2287:-167.3,0,-168.459 0/1:140:70,70:70:2508:70:2489:-182.117,0,-183.828 0/1:75:31,44:31:1116:44:1537:-116.042,0,-78.1744 0/1:95:43,52:43:1540:52:1834:-136.741,0,-110.295 0/1:107:53,54:53:1904:54:1894:-138.524,0,-139.428 1/1:121:0,121:0:0:121:4262:-383.758,-36.4246,0 1/1:16:0,16:0:0:16:572:-51.8088,-4.81648,0 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 1/1:32:0,32:0:0:32:1127:-101.737,-9.63296,0 1/1:101:0,101:0:0:101:3615:-325.555,-30.404,0 1/1:80:0,80:0:0:80:2814:-253.496,-24.0824,0 1/1:121:0,121:0:0:121:4287:-386.009,-36.4246,0 1/1:26:0,26:0:0:26:897:-81.0414,-7.82678,0 0/1:58:30,28:30:1067:28:1000:-72.8556,0,-78.8815 0/1:102:48,54:48:1713:54:1913:-141.74,0,-123.749 0/1:94:26,68:26:927:68:2375:-185.708,0,-55.4505 1/1:104:0,104:0:0:104:3645:-328.254,-31.3071,0 1/1:48:0,48:0:0:48:1658:-149.5,-14.4494,0 chr01 20959298 . C T 9485.85 PASS AB=0.408867;ABP=32.2984;AC=29;AF=0.690476;AN=42;AO=392;CIGAR=1X;DP=703;DPB=703;DPRA=0;EPP=4.4284;EPPR=224.949;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.7219;MQMR=59.9903;NS=21;NUMALT=1;ODDS=0.800576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13596;QR=11039;RO=310;RPL=392;RPP=854.227;RPPR=676.167;RPR=0;RUN=1;SAF=188;SAP=4.4284;SAR=204;SRF=66;SRP=224.949;SRR=244;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:10:0,10:0:0:10:360:-32.732,-3.0103,0 1/1:25:0,25:0:0:25:839:-75.7681,-7.52575,0 0/1:12:7,5:7:239:5:176:-12.5727,0,-18.2304 0/1:27:15,12:15:540:12:413:-29.37,0,-40.8087 0/1:35:25,10:25:874:10:351:-21.3906,0,-68.4392 0/1:37:16,21:16:568:21:718:-53.7959,0,-40.3138 0/1:33:22,11:22:784:11:388:-25.3232,0,-60.9499 0/1:27:18,9:18:648:9:316:-20.651,0,-50.5241 1/1:23:0,23:0:0:23:801:-72.4067,-6.92369,0 0/1:9:1,8:1:36:8:284:-22.921,0,-0.889005 0/0:71:70,1:70:2489:1:36:0,-17.7749,-220.664 0/1:7:1,6:1:36:6:212:-17.316,0,-1.49106 1/1:24:0,23:0:0:23:808:-72.6797,-6.92369,0 1/1:25:0,25:0:0:25:843:-76.1702,-7.52575,0 1/1:23:0,23:0:0:23:816:-73.7608,-6.92369,0 1/1:15:0,15:0:0:15:532:-48.2131,-4.51545,0 0/1:27:15,12:15:532:12:424:-30.3686,0,-40.0853 0/1:154:115,39:115:4117:39:1382:-78.3193,0,-324.353 0/1:38:5,33:5:176:33:1163:-93.537,0,-4.74588 1/1:17:0,17:0:0:17:593:-53.6232,-5.11751,0 1/1:64:0,64:0:0:64:2141:-192.948,-19.2659,0 chr01 21131450 . T C 6137.53 PASS AB=0.504814;ABP=3.15666;AC=11;AF=0.261905;AN=42;AO=373;CIGAR=1X;DP=1555;DPB=1555;DPRA=1.03051;EPP=812.97;EPPR=2569.69;GTI=1;LEN=1;MEANALT=1;MQM=59.9759;MQMR=59.9772;NS=21;NUMALT=1;ODDS=0.458362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13320;QR=42310;RO=1182;RPL=0;RPP=812.97;RPPR=2569.69;RPR=373;RUN=1;SAF=373;SAP=812.97;SAR=0;SRF=1182;SRP=2569.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:119:117,2:117:4180:2:64:0,-29.7439,-370.304 0/0:101:100,1:100:3592:1:36:0,-26.8058,-319.887 0/1:60:34,26:34:1216:26:932:-66.1371,0,-91.6848 0/1:69:43,26:43:1544:26:928:-63.0672,0,-118.482 0/1:140:49,91:49:1760:91:3260:-251.476,0,-116.54 0/1:94:41,53:41:1472:53:1892:-142.261,0,-104.479 0/1:93:43,50:43:1540:50:1778:-132.305,0,-110.897 0/1:74:43,31:43:1532:31:1099:-76.9332,0,-115.89 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.282 0/1:10:8,2:8:284:2:72:-3.82642,0,-22.8931 0/1:6:2,4:2:68:4:144:-11.5074,0,-4.65153 0/0:32:32,0:32:1139:0:0:0,-9.63296,-102.818 0/0:96:96,0:96:3448:0:0:0,-28.8989,-310.532 0/0:106:106,0:106:3792:0:0:0,-31.9092,-341.423 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.645 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.282 0/1:65:25,40:25:888:40:1436:-109.971,0,-60.6721 0/1:60:32,28:32:1144:28:999:-72.1627,0,-85.2077 0/1:56:40,16:40:1432:16:572:-34.9557,0,-112.32 0/0:100:97,3:97:3455:3:108:0,-20.0278,-301.088 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 chr01 21668468 . C T 8344.23 PASS AB=0.545455;ABP=12.6832;AC=32;AF=0.761905;AN=42;AO=818;CIGAR=1X;DP=1145;DPB=1145;DPRA=0.683974;EPP=1779.27;EPPR=713.082;GTI=7;LEN=1;MEANALT=1;MQM=22.868;MQMR=13.4312;NS=21;NUMALT=1;ODDS=0.344773;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29273;QR=11693;RO=327;RPL=0;RPP=1779.27;RPPR=713.082;RPR=818;RUN=1;SAF=818;SAP=1779.27;SAR=0;SRF=327;SRP=713.082;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39:0:0:39:1400:-79.5724,-11.7402,0 1/1:48:0,48:0:0:48:1724:-95.4146,-14.4494,0 1/1:44:0,44:0:0:44:1568:-89.7973,-13.2453,0 1/1:87:0,87:0:0:87:3124:-177.797,-26.1896,0 0/1:75:24,51:24:864:51:1824:-82.1283,0,-5.40796 1/1:69:0,69:0:0:69:2460:-134.231,-20.7711,0 1/1:75:0,75:0:0:75:2684:-147.341,-22.5773,0 0/0:78:78,0:78:2804:0:0:0,-23.4803,-93.1254 1/1:32:3,29:3:108:29:1036:-58.1316,-5.99874,0 0/1:12:4,8:4:140:8:288:-13.0234,0,-1.18714 1/1:8:0,8:0:0:8:283:-15.8236,-2.40824,0 0/1:33:13,20:13:464:20:720:-30.7848,0,-5.10753 0/1:154:83,71:83:2968:71:2535:-101.621,0,-50.176 0/1:44:24,20:24:842:20:712:-27.9476,0,-16.8591 0/1:90:42,48:42:1504:48:1716:-69.9291,0,-22.699 1/1:16:0,16:0:0:16:568:-32.4595,-4.81648,0 1/1:25:0,25:0:0:25:900:-50.3596,-7.52575,0 0/1:66:36,30:36:1279:30:1067:-41.7987,0,-25.8899 0/1:65:19,46:19:684:46:1652:-76.576,0,-4.57322 1/1:56:1,55:1:36:55:1972:-112.978,-15.5597,0 1/1:29:0,29:0:0:29:1040:-57.2631,-8.72987,0 chr01 21669092 . TTG CTA 1054.83 PASS AB=0.221154;ABP=705.398;AC=18;AF=0.428571;AN=42;AO=240;CIGAR=1X1M1X;DP=1150;DPB=1150;DPRA=0;EPP=524.164;EPPR=1979.05;GTI=6;LEN=3;MEANALT=1;MQM=42.0125;MQMR=49.1165;NS=21;NUMALT=1;ODDS=1.73094;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8467;QR=32089;RO=910;RPL=0;RPP=524.164;RPPR=1979.05;RPR=240;RUN=1;SAF=240;SAP=524.164;SAR=0;SRF=910;SRP=1979.05;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:36,10:36:1284:10:358:-16.2609,0,-100.679 0/1:10:6,4:6:216:4:144:-8.99433,0,-16.5121 0/1:65:52,13:52:1800:13:448:-20.8155,0,-140.886 0/0:45:41,4:41:1430:4:131:0,-1.54998,-114.856 0/1:89:75,14:75:2661:14:502:-16.0647,0,-208.952 0/0:24:22,2:22:759:2:70:0,-0.577393,-61.5896 0/1:59:50,9:50:1757:9:311:-7.35007,0,-139.366 0/1:39:30,9:30:1045:9:317:-15.4894,0,-81.9678 0/1:134:112,22:112:3953:22:777:-23.3299,0,-310.477 0/1:11:4,7:4:144:7:250:-18.0742,0,-9.95875 0/1:10:5,5:5:180:5:175:-13.0828,0,-13.2746 0/1:28:21,7:21:746:7:252:-11.5946,0,-57.85 0/1:57:42,15:42:1471:15:528:-29.9347,0,-113.692 0/1:71:56,15:56:1993:15:523:-22.7563,0,-156.064 0/1:99:80,19:80:2827:19:668:-28.0378,0,-221.581 0/1:16:14,2:14:477:2:70:-0.779427,0,-37.6186 0/0:41:37,4:37:1322:4:141:0,-0.0644866,-104.353 0/1:93:76,17:76:2696:17:610:-23.2259,0,-211.888 0/1:67:42,25:42:1477:25:883:-53.2437,0,-111.005 0/1:109:82,27:82:2898:27:949:-44.7965,0,-224.528 0/1:37:27,10:27:953:10:360:-13.8658,0,-74.2246 chr01 21669105 . T C 414.16 PASS AB=0.148599;ABP=883.578;AC=12;AF=0.285714;AN=42;AO=169;CIGAR=1X;DP=1686;DPB=1686;DPRA=2.50464;EPP=118.972;EPPR=2796.59;GTI=7;LEN=1;MEANALT=1;MQM=41.4556;MQMR=52.7937;NS=21;NUMALT=1;ODDS=5.43228;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6049;QR=54293;RO=1517;RPL=37;RPP=118.972;RPPR=2796.59;RPR=132;RUN=1;SAF=169;SAP=369.989;SAR=0;SRF=1517;SRP=3297.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:61,6:61:2176:6:216:0,-0.904164,-173.827 0/1:26:22,4:22:788:4:144:-5.13321,0,-62.1328 0/1:93:79,14:79:2822:14:504:-16.4885,0,-225.063 0/1:67:58,9:58:2080:9:324:-8.55312,0,-164.974 0/1:143:118,25:118:4232:25:887:-35.0445,0,-333.43 0/1:41:36,5:36:1287:5:176:-3.45364,0,-103.734 0/1:88:73,15:73:2620:15:540:-21.1461,0,-207.254 0/0:45:45,0:45:1603:0:0:0,-13.5463,-142.234 0/0:226:216,10:216:7755:10:360:0,-36.8557,-655.856 0/0:23:23,0:23:828:0:0:0,-6.92369,-73.2365 0/1:11:8,3:8:288:3:108:-6.49623,0,-22.9527 0/1:46:41,5:41:1463:5:180:-2.04328,0,-114.605 0/0:78:75,3:75:2685:3:108:0,-13.6728,-229.679 0/0:93:86,7:86:3065:7:252:0,-5.57851,-248.801 0/0:125:118,7:118:4218:7:252:0,-15.2115,-351.911 0/1:35:31,4:31:1112:4:144:-2.42394,0,-88.3812 0/1:55:44,11:44:1576:11:396:-18.4703,0,-123.081 0/0:114:105,9:105:3729:9:323:0,-6.65879,-302.804 0/0:94:89,5:89:3191:5:171:0,-12.9353,-263.322 0/1:160:142,18:142:5087:18:640:-7.56684,0,-399.854 0/1:56:47,9:47:1688:9:324:-11.8645,0,-127.649 chr01 21669114 . GAAGAT GAAGAA 7310.95 PASS AB=0.321994;ABP=472.264;AC=21;AF=0.5;AN=42;AO=549;CIGAR=5M1X;DP=1705;DPB=1692;DPRA=0;EPP=1195.15;EPPR=2343.86;GTI=2;LEN=1;MEANALT=1.7619;MQM=59.9982;MQMR=46.8247;NS=21;NUMALT=1;ODDS=15.477;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19627;QR=37981;RO=1078;RPL=549;RPP=1195.15;RPPR=2343.86;RPR=0;RUN=1;SAF=549;SAP=1195.15;SAR=0;SRF=1078;SRP=2343.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:43,21:43:1528:21:752:-48.3924,0,-114.79 0/1:26:11,15:11:389:15:532:-40.3863,0,-25.9614 0/1:95:59,30:59:2059:30:1067:-69.1904,0,-156.172 0/1:69:44,23:44:1540:23:828:-54.3153,0,-115.277 0/1:145:85,55:85:3015:55:1980:-135.97,0,-222.574 0/1:42:19,19:19:659:19:684:-50.1004,0,-47.4429 0/1:90:58,31:58:2041:31:1116:-73.6002,0,-152.219 0/1:46:39,7:39:1379:7:252:-9.18158,0,-108.326 0/1:231:133,96:133:4675:96:3421:-238.808,0,-340.474 0/1:23:11,12:11:395:12:432:-32.2975,0,-27.357 0/1:11:9,1:9:324:1:36:-0.228148,0,-25.8714 0/1:47:28,19:28:984:19:665:-46.0244,0,-70.9199 0/1:79:52,21:52:1814:21:756:-46.0426,0,-139.242 0/1:93:69,21:69:2429:21:752:-40.554,0,-186.124 0/1:127:87,29:87:3085:29:1021:-56.9245,0,-236.97 0/1:35:16,19:16:555:19:680:-50.9931,0,-37.9494 0/1:54:39,13:39:1383:13:468:-26.4463,0,-105.444 0/1:115:84,22:84:2985:22:788:-38.9826,0,-229.622 0/1:94:65,24:65:2288:24:860:-50.5706,0,-170.655 0/1:159:100,50:100:3498:50:1781:-115.057,0,-258.685 0/1:57:27,21:27:956:21:756:-53.5611,0,-63.2373 chr01 21669283 . G C 5255.81 PASS AB=0.32896;ABP=274.139;AC=18;AF=0.428571;AN=42;AO=354;CIGAR=1X;DP=1180;DPB=1180;DPRA=14.7;EPP=344.655;EPPR=262.209;GTI=2;LEN=1;MEANALT=1;MQM=53.1836;MQMR=45.0024;NS=21;NUMALT=1;ODDS=0.355368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12696;QR=29500;RO=826;RPL=59;RPP=344.655;RPPR=262.209;RPR=295;RUN=1;SAF=0;SAP=771.712;SAR=354;SRF=0;SRP=1796.65;SRR=826;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:29,8:29:1031:8:284:-14.7652,0,-80.9124 0/1:32:27,5:27:972:5:180:-6.91911,0,-71.03 0/1:54:41,13:41:1464:13:468:-26.204,0,-115.6 0/1:69:53,16:53:1885:16:575:-30.5321,0,-147.995 0/1:102:60,42:60:2147:42:1508:-103.907,0,-160.164 0/1:52:25,27:25:896:27:968:-71.7485,0,-59.0724 0/1:71:46,25:46:1656:25:900:-59.9412,0,-111.196 0/0:86:85,1:85:3052:1:36:0,-22.4341,-202.266 0/1:103:88,15:88:3134:15:536:-17.5687,0,-231.977 0/1:6:5,1:5:180:1:36:-0.472686,0,-10.9695 0/0:4:4,0:4:144:0:0:0,-1.20412,-11.6827 0/0:23:21,2:21:752:2:72:0,-2.59385,-54.2638 0/1:114:83,31:83:2942:31:1116:-66.4309,0,-210.988 0/1:42:21,21:21:752:21:741:-54.311,0,-55.0316 0/1:78:47,31:47:1680:31:1112:-76.911,0,-89.1185 0/1:29:21,8:21:752:8:288:-17.5375,0,-54.3585 0/1:34:23,11:23:824:11:392:-25.385,0,-57.0348 0/1:40:34,6:34:1201:6:216:-0.492561,0,-77.3153 0/1:48:29,19:29:1036:19:680:-46.2192,0,-73.5415 0/1:114:62,52:62:2212:52:1868:-75.7549,0,-140.248 0/1:42:22,20:22:788:20:720:-51.6194,0,-50.6201 chr01 21669284 . T C 15422.6 PASS AB=0.620465;ABP=138.512;AC=23;AF=0.547619;AN=42;AO=766;CIGAR=1X;DP=1186;DPB=1186;DPRA=0;EPP=293.296;EPPR=282.621;GTI=1;LEN=1;MEANALT=1.09524;MQM=45.0535;MQMR=51.5933;NS=21;NUMALT=1;ODDS=0.390054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27349;QR=14924;RO=418;RPL=223;RPP=293.296;RPPR=282.621;RPR=543;RUN=1;SAF=0;SAP=1666.36;SAR=766;SRF=0;SRP=910.686;SRR=418;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:16,22:16:557:22:777:-57.0444,0,-39.0164 0/1:32:12,20:12:402:20:720:-53.8119,0,-21.3849 0/1:53:17,36:17:612:36:1269:-98.3553,0,-39.4588 0/1:72:24,47:24:856:47:1684:-129.35,0,-54.8036 0/1:101:42,59:42:1512:59:2084:-154.879,0,-104.568 0/1:53:27,26:27:968:26:928:-61.3669,0,-71.4475 0/1:71:25,46:25:900:46:1652:-110.846,0,-59.9412 1/1:88:8,79:8:284:79:2828:-172.448,-6.39187,0 0/1:102:25,77:25:900:77:2738:-204.83,0,-42.0309 0/1:6:1,5:1:36:5:176:-10.958,0,-0.472686 0/1:4:2,2:2:72:2:72:-5.59554,0,-3.99466 1/1:23:3,20:3:108:20:716:-49.6484,-0.116019,0 0/1:114:38,76:38:1337:76:2720:-191.138,0,-86.3072 0/1:41:20,21:20:720:21:748:-54.9645,0,-52.0832 0/1:80:32,48:32:1148:48:1724:-91.7936,0,-79.5474 0/1:29:8,21:8:284:21:741:-53.3638,0,-17.1735 0/1:34:10,24:10:356:24:860:-58.9429,0,-22.1462 0/1:40:11,29:11:392:29:1044:-67.1431,0,-12.3265 0/1:47:23,24:23:828:24:864:-58.046,0,-59.5025 0/1:116:54,62:54:1936:62:2212:-138.3,0,-78.8947 0/1:42:20,22:20:716:22:792:-50.9705,0,-51.2583 chr01 22035778 . T C 12169.3 PASS AB=0.515991;ABP=4.05205;AC=32;AF=0.761905;AN=42;AO=595;CIGAR=1X;DP=822;DPB=822;DPRA=0;EPP=1295.04;EPPR=22.3814;GTI=0;LEN=1;MEANALT=1;MQM=59.9412;MQMR=57.0573;NS=21;NUMALT=1;ODDS=2.60159;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21197;QR=8148;RO=227;RPL=0;RPP=1295.04;RPPR=487.287;RPR=595;RUN=1;SAF=0;SAP=1295.04;SAR=595;SRF=92;SRP=20.6978;SRR=135;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 1/1:9:0,9:0:0:9:315:-28.6872,-2.70927,0 0/1:25:8,17:8:288:17:612:-47.8877,0,-18.7274 0/1:51:13,38:13:468:38:1352:-106.628,0,-27.0977 0/1:73:36,37:36:1292:37:1316:-96.7666,0,-94.5712 0/1:35:26,9:26:928:9:324:-18.9698,0,-72.8959 0/1:86:33,53:33:1184:53:1875:-143.117,0,-80.7455 0/1:46:23,23:23:824:23:824:-60.6359,0,-60.5453 1/1:59:0,59:0:0:59:2115:-190.59,-17.7608,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.7834 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:51:0,51:0:0:51:1808:-162.999,-15.3525,0 1/1:53:0,53:0:0:53:1895:-170.828,-15.9546,0 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:20:4,16:4:144:16:572:-45.7928,0,-7.29116 0/1:59:45,14:45:1620:14:487:-26.3984,0,-128.16 0/1:69:35,34:35:1256:34:1188:-86.4505,0,-92.5509 1/1:42:0,42:0:0:42:1495:-134.844,-12.6433,0 1/1:29:0,29:0:0:29:1031:-93.1026,-8.72987,0 chr01 22035805 . A T 4800.92 PASS AB=0.469957;ABP=6.66359;AC=11;AF=0.261905;AN=42;AO=223;CIGAR=1X;DP=834;DPB=834;DPRA=1.42033;EPP=26.3901;EPPR=1329.78;GTI=1;LEN=1;MEANALT=1;MQM=57.2511;MQMR=59.9427;NS=21;NUMALT=1;ODDS=1.8281;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7909;QR=21878;RO=611;RPL=223;RPP=487.249;RPPR=1329.78;RPR=0;RUN=1;SAF=87;SAP=26.3901;SAR=136;SRF=0;SRP=1329.78;SRR=611;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:24:17,7:17:612:7:252:-15.7924,0,-48.1887 0/1:53:39,14:39:1400:14:504:-29.7341,0,-110.345 0/1:76:40,36:40:1436:36:1273:-91.9421,0,-106.659 0/1:34:9,25:9:324:25:896:-70.319,0,-19.2708 0/1:86:54,32:54:1929:32:1135:-76.4378,0,-147.961 0/1:46:24,22:24:864:22:784:-56.9596,0,-64.2352 0/0:60:60,0:60:2136:0:0:0,-18.0618,-192.48 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 1/1:4:0,4:0:0:4:144:-13.2885,-1.20412,0 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.399 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.993 0/0:64:64,0:64:2281:0:0:0,-19.2659,-205.55 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:20:16,4:16:572:4:136:-6.55364,0,-45.7928 0/1:57:14,43:14:504:43:1520:-119.819,0,-28.5394 0/1:70:34,36:34:1224:36:1265:-93.0593,0,-89.3949 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.173 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 chr01 22035888 . C A 23668.5 PASS AB=0.519873;ABP=5.16796;AC=32;AF=0.761905;AN=42;AO=965;CIGAR=1X;DP=1269;DPB=1269;DPRA=0;EPP=1071.24;EPPR=312.045;GTI=0;LEN=1;MEANALT=1;MQM=59.9285;MQMR=60;NS=21;NUMALT=1;ODDS=9.97293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34486;QR=10845;RO=304;RPL=827;RPP=1071.24;RPPR=312.045;RPR=138;RUN=1;SAF=0;SAP=2098.48;SAR=965;SRF=0;SRP=663.138;SRR=304;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69:0:0:69:2480:-223.453,-20.7711,0 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 0/1:47:21,26:21:752:26:936:-70.4111,0,-53.8578 0/1:68:43,25:43:1536:25:900:-60.851,0,-118.063 0/1:144:75,69:75:2672:69:2468:-179.026,0,-197.378 0/1:59:27,32:27:964:32:1152:-86.2294,0,-69.3161 0/1:75:40,35:40:1428:35:1247:-89.6866,0,-106.24 0/1:34:9,25:9:320:25:888:-70.004,0,-18.9073 1/1:93:0,93:0:0:93:3319:-298.927,-27.9958,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:5:4,1:4:144:1:32:-1.69416,0,-11.8085 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:70:2,68:2:72:68:2411:-210.392,-14.2354,0 1/1:66:0,66:0:0:66:2368:-213.378,-19.868,0 1/1:117:0,117:0:0:117:4197:-377.91,-35.2205,0 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 0/1:48:18,30:18:648:30:1080:-83.0638,0,-44.2024 0/1:96:55,41:55:1949:41:1438:-100.803,0,-146.785 0/1:53:10,43:10:360:43:1525:-121.587,0,-16.7897 1/1:73:0,73:0:0:73:2598:-234.068,-21.9752,0 1/1:55:0,55:0:0:55:1963:-176.945,-16.5567,0 chr01 22042908 . T C 1191.54 PASS AB=0.245902;ABP=310.897;AC=8;AF=0.190476;AN=42;AO=147;CIGAR=1X;DP=1564;DPB=1564;DPRA=1.43436;EPP=322.217;EPPR=3079.99;GTI=3;LEN=1;MEANALT=1;MQM=59.4762;MQMR=59.8186;NS=21;NUMALT=1;ODDS=2.17253;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5194;QR=50730;RO=1417;RPL=0;RPP=322.217;RPPR=3079.99;RPR=147;RUN=1;SAF=0;SAP=322.217;SAR=147;SRF=0;SRP=3079.99;SRR=1417;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:118:116,2:116:4159:2:72:0,-28.6848,-367.609 0/0:46:46,0:46:1639:0:0:0,-13.8474,-147.788 0/1:51:34,17:34:1212:17:595:-38.4666,0,-94.0326 0/0:89:82,7:82:2948:7:252:0,-3.76271,-242.523 0/1:161:132,29:132:4740:29:1013:-43.0062,0,-378.289 0/1:42:34,8:34:1220:8:284:-13.2601,0,-97.4635 0/1:79:64,15:64:2288:15:531:-24.2872,0,-182.379 0/1:53:25,28:25:896:28:987:-73.1779,0,-65.0058 0/0:136:135,1:135:4836:1:36:0,-37.3418,-431.75 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4057 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 0/0:110:110,0:110:3931:0:0:0,-33.1133,-353.982 0/0:110:110,0:110:3952:0:0:0,-33.1133,-355.866 0/0:117:117,0:117:4204:0:0:0,-35.2205,-378.531 0/0:62:62,0:62:2224:0:0:0,-18.6639,-200.396 0/1:64:39,25:39:1387:25:896:-61.6944,0,-105.862 0/1:60:51,9:51:1820:9:316:-10.7171,0,-145.935 0/1:39:35,4:35:1247:4:144:-1.57345,0,-100.791 0/0:135:133,2:133:4727:2:68:0,-34.1813,-419.111 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.396 chr01 22042955 . GTTC CTTT,CTTC 34336.3 PASS AB=0.744643,0.251786;ABP=294.127,302.689;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1436,155;CIGAR=1X2M1X,1X3M;DP=1594;DPB=1594;DPRA=0,1.12089;EPP=3121.24,339.589;EPPR=0;GTI=2;LEN=4,1;MEANALT=1.71429,2.16667;MQM=59.7646,59.5935;MQMR=0;NS=21;NUMALT=2;ODDS=3.93991;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51099,5492;QR=0;RO=0;RPL=1436,155;RPP=3121.24,339.589;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3121.24,339.589;SAR=1436,155;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,121,2:0:0:121,2:4312,72:-387.788,-36.4246,0,-381.913,-30.19,-381.311 1/1:46:0,45,1:0:0:45,1:1603,36:-144.19,-13.5464,0,-141.253,-10.2491,-140.952 1/2:51:0,33,18:0:0:33,18:1162,644:-147.466,-52.8721,-42.9381,-94.9497,0,-89.5312 1/1:88:0,80,8:0:0:80,8:2864,273:-257.654,-24.0824,0,-235.504,-1.59046,-233.096 1/2:166:0,136,30:0:0:136,30:4866,1060:-483.398,-86.6734,-45.7334,-397.078,0,-388.047 1/2:42:0,33,9:0:0:33,9:1179,320:-122.558,-26.4298,-16.4958,-96.484,0,-93.7747 1/2:81:0,66,14:0:0:66,14:2351,493:-231.625,-40.0822,-20.2142,-191.536,0,-187.322 1/2:56:0,25,31:0:0:25,31:898,1086:-161.958,-88.6977,-81.172,-73.6151,0,-64.2832 1/1:139:0,139,0:0:0:139,0:4922,0:-443.111,-41.8432,0,-443.111,-41.8432,-443.111 1/1:17:0,17,0:0:0:17,0:596,0:-53.9646,-5.11751,0,-53.9646,-5.11751,-53.9646 1/1:4:0,4,0:0:0:4,0:143,0:-13.2214,-1.20412,0,-13.2214,-1.20412,-13.2214 1/1:20:0,20,0:0:0:20,0:706,0:-63.7949,-6.0206,0,-63.7949,-6.0206,-63.7949 1/1:112:0,112,0:0:0:112,0:3983,0:-358.663,-33.7154,0,-358.663,-33.7154,-358.663 1/1:112:0,112,0:0:0:112,0:3955,0:-356.14,-33.7154,0,-356.14,-33.7154,-356.14 1/1:120:0,119,0:0:0:119,0:4240,0:-381.413,-35.8226,0,-381.413,-35.8226,-381.413 1/1:62:0,62,0:0:0:62,0:2215,0:-199.609,-18.6639,0,-199.609,-18.6639,-199.609 1/2:64:0,38,26:0:0:38,26:1348,932:-186.196,-76.3721,-64.9329,-110.18,0,-102.353 1/2:60:0,50,9:0:0:50,9:1754,324:-169.156,-26.4368,-11.3853,-142.718,0,-140.008 1/2:40:0,36,4:0:0:36,4:1287,144:-117.041,-12.1095,-1.27242,-105.291,0,-104.086 1/1:138:0,135,3:0:0:135,3:4817,108:-433.313,-40.6391,0,-424.501,-31.467,-423.598 1/1:53:0,53,0:0:0:53,0:1898,0:-171.095,-15.9546,0,-171.095,-15.9546,-171.095 chr01 22232247 . CATT CT 17328.3 PASS AB=0.443038;ABP=27.5012;AC=29;AF=0.690476;AN=42;AO=879;CIGAR=1M2D1M;DP=1365;DPB=925.5;DPRA=0;EPP=1859.97;EPPR=1036.7;GTI=0;LEN=2;MEANALT=1.09524;MQM=59.8123;MQMR=60;NS=21;NUMALT=1;ODDS=6.71185;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30890;QR=16983;RO=484;RPL=873;RPP=1859.97;RPPR=1036.7;RPR=6;RUN=1;SAF=879;SAP=1911.73;SAR=0;SRF=484;SRP=1054;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:22,16:22:770:16:551:-38.4753,0,-58.1817 0/1:90:39,51:39:1379:51:1790:-134.283,0,-97.3157 0/1:73:48,24:48:1705:24:840:-53.8846,0,-131.702 0/1:86:56,30:56:1960:30:1063:-70.0922,0,-150.784 0/1:86:59,27:59:2048:27:952:-60.1066,0,-158.702 0/1:55:38,17:38:1322:17:604:-38.134,0,-102.722 0/1:92:48,44:48:1696:44:1551:-112.161,0,-125.231 0/1:72:37,35:37:1290:35:1252:-91.31,0,-94.7233 0/1:119:61,58:61:2147:58:2026:-146.785,0,-157.674 0/1:16:5,11:5:178:11:383:-29.9854,0,-11.5522 1/1:13:0,13:0:0:13:449:-40.7375,-3.91339,0 1/1:42:0,42:0:0:42:1481:-133.579,-12.6433,0 1/1:75:0,74:0:0:74:2596:-232.908,-22.2762,0 1/1:93:0,93:0:0:93:3283:-295.687,-27.9958,0 1/1:78:0,78:0:0:78:2714:-244.501,-23.4803,0 1/1:84:0,84:0:0:84:2957:-266.362,-25.2865,0 0/1:42:22,20:22:770:20:716:-52.1245,0,-56.9767 0/1:60:31,29:31:1075:29:1012:-73.3266,0,-78.9947 0/1:40:17,23:17:607:23:804:-60.6381,0,-42.9206 1/1:61:1,60:1:36:60:2082:-184.044,-14.7646,0 1/1:50:0,50:0:0:50:1784:-160.754,-15.0515,0 chr01 22359509 . A G 7982.92 PASS AB=0.576832;ABP=46.3884;AC=13;AF=0.309524;AN=42;AO=488;CIGAR=1X;DP=1199;DPB=1199;DPRA=1.47483;EPP=1062.69;EPPR=1536.08;GTI=1;LEN=1;MEANALT=1;MQM=50.1803;MQMR=59.8141;NS=21;NUMALT=1;ODDS=3.74801;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17359;QR=25423;RO=710;RPL=0;RPP=1062.69;RPPR=1536.08;RPR=488;RUN=1;SAF=488;SAP=1062.69;SAR=0;SRF=710;SRP=1544.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:44,51:44:1584:51:1802:-128.475,0,-114.254 0/1:59:18,41:18:648:41:1464:-113.421,0,-40.8911 0/1:45:18,27:18:648:27:968:-71.9419,0,-45.1055 0/1:48:22,26:22:792:26:932:-66.1283,0,-56.8855 0/1:123:47,76:47:1688:76:2709:-200.081,0,-115.18 0/1:77:35,42:35:1260:42:1497:-111.15,0,-90.5262 0/1:84:29,55:29:1029:55:1950:-149.582,0,-67.6346 0/1:45:23,22:23:813:22:777:-56.1587,0,-59.9428 0/1:102:41,61:41:1476:61:2181:-150.971,0,-102.431 0/1:11:5,6:5:180:6:212:-16.1135,0,-13.2407 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:66:66,0:66:2346:0:0:0,-19.868,-210.035 0/0:109:109,0:109:3882:0:0:0,-32.8123,-349.572 0/0:73:73,0:73:2620:0:0:0,-21.9752,-235.987 0/1:86:47,39:47:1688:39:1370:-93.1696,0,-126.318 0/1:52:19,33:19:684:33:1173:-89.5955,0,-46.2368 0/1:19:10,9:10:360:9:324:-22.6346,0,-27.0247 0/0:46:45,0:45:1616:0:0:0,-13.5463,-145.37 0/0:13:13,0:13:453:0:0:0,-3.91339,-41.0996 chr01 22360091 . A G 17736.8 PASS AB=0.562124;ABP=64.2549;AC=13;AF=0.309524;AN=42;AO=1028;CIGAR=1X;DP=2530;DPB=2530;DPRA=1.90952;EPP=2235.28;EPPR=3253.7;GTI=2;LEN=1;MEANALT=1.14286;MQM=50.9202;MQMR=49.0314;NS=21;NUMALT=1;ODDS=2.58674;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36766;QR=53656;RO=1497;RPL=1028;RPP=2235.28;RPPR=3253.7;RPR=0;RUN=1;SAF=0;SAP=2235.28;SAR=1028;SRF=0;SRP=3253.7;SRR=1497;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:283:117,166:117:4192:166:5945:-446.38,0,-289.044 0/1:123:58,65:58:2080:65:2324:-172.346,0,-149.893 0/1:150:64,85:64:2300:85:3052:-228.139,0,-159.951 0/1:140:83,57:83:2976:57:2021:-139.172,0,-222.798 0/1:318:133,185:133:4772:185:6609:-495.05,0,-329.689 0/1:58:31,27:31:1116:27:972:-70.3378,0,-83.1936 0/1:73:20,53:20:720:53:1886:-147.858,0,-42.3868 0/1:130:46,84:46:1652:84:3001:-230.37,0,-108.449 0/1:235:88,147:88:3148:147:5256:-398.566,0,-210.397 0/1:29:7,22:7:248:22:788:-62.0799,0,-13.8446 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4544 0/0:16:16,0:16:576:0:0:0,-4.81648,-51.8921 0/0:151:149,0:149:5340:0:0:0,-44.8535,-475.81 0/0:178:177,1:177:6336:1:36:0,-50.0003,-562.265 0/0:115:115,0:115:4116:0:0:0,-34.6184,-367.353 0/0:95:95,0:95:3396:0:0:0,-28.5978,-302.407 0/1:124:69,55:69:2468:55:1976:-138.829,0,-182.091 0/1:85:34,51:34:1212:51:1824:-137.496,0,-83.3076 0/1:79:48,30:48:1728:30:1076:-72.4942,0,-131.022 0/0:86:85,0:85:3048:0:0:0,-25.5875,-272.871 0/0:49:49,0:49:1764:0:0:0,-14.7505,-158.999 chr01 22360093 . G A 28830.7 PASS AB=0.440457;ABP=59.6422;AC=29;AF=0.690476;AN=42;AO=1517;CIGAR=1X;DP=2547;DPB=2547;DPRA=0;EPP=3297.13;EPPR=2239.63;GTI=2;LEN=1;MEANALT=1;MQM=48.9927;MQMR=50.9602;NS=21;NUMALT=1;ODDS=1.99737;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54252;QR=36957;RO=1030;RPL=1517;RPP=3297.13;RPPR=2239.63;RPR=0;RUN=1;SAF=0;SAP=3297.13;SAR=1517;SRF=0;SRP=2239.63;SRR=1030;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:287:165,122:165:5928:122:4327:-299.092,0,-443.595 0/1:124:65,59:65:2313:59:2105:-152.011,0,-171.051 0/1:156:87,69:87:3128:69:2472:-173.371,0,-233.352 0/1:137:56,81:56:2012:81:2885:-215.701,0,-139.134 0/1:320:187,133:187:6712:133:4767:-328.609,0,-503.633 0/1:58:27,31:27:968:31:1116:-83.1936,0,-69.9772 0/1:76:55,21:55:1972:21:756:-44.7219,0,-154.652 0/1:129:82,47:82:2940:47:1688:-111.971,0,-225.202 0/1:236:145,91:145:5204:91:3247:-218.871,0,-393.727 0/1:30:23,7:23:824:7:252:-13.9081,0,-64.7831 1/1:13:0,13:0:0:13:468:-42.4544,-3.91339,0 1/1:16:0,16:0:0:16:576:-51.8921,-4.81648,0 1/1:155:0,155:0:0:155:5550:-493.904,-46.6597,0 1/1:174:1,173:1:36:173:6162:-546.798,-48.7962,0 1/1:115:0,115:0:0:115:4128:-368.413,-34.6185,0 1/1:97:0,97:0:0:97:3472:-309.391,-29.1999,0 0/1:122:56,66:56:2016:66:2368:-174.392,0,-142.792 0/1:85:52,33:52:1860:33:1184:-80.7964,0,-140.506 0/1:79:29,50:29:1044:50:1791:-136.636,0,-69.6171 1/1:86:0,86:0:0:86:3079:-275.862,-25.8886,0 1/1:52:0,52:0:0:52:1859:-167.543,-15.6536,0 chr01 23962981 . C T 12449.3 PASS AB=0.523114;ABP=6.82491;AC=29;AF=0.690476;AN=42;AO=764;CIGAR=1X;DP=1157;DPB=1157;DPRA=0;EPP=1662.02;EPPR=847.735;GTI=0;LEN=1;MEANALT=1;MQM=34.627;MQMR=59.6463;NS=21;NUMALT=1;ODDS=3.18185;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27410;QR=14019;RO=393;RPL=0;RPP=1662.02;RPPR=847.735;RPR=764;RUN=1;SAF=764;SAP=1662.02;SAR=0;SRF=393;SRP=856.399;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:12,19:12:428:19:684:-47.4113,0,-29.3786 0/1:61:19,42:19:684:42:1512:-94.4965,0,-43.5275 0/1:62:26,36:26:936:36:1292:-87.3238,0,-65.8956 0/1:75:36,39:36:1279:39:1404:-93.1267,0,-92.8352 0/1:125:55,70:55:1980:70:2520:-169.798,0,-140.846 0/1:88:49,39:49:1742:39:1404:-81.3891,0,-130.568 0/1:117:64,53:64:2288:53:1904:-110.66,0,-170.961 0/1:47:26,21:26:904:21:756:-44.772,0,-67.4736 0/1:75:39,36:39:1391:36:1284:-85.5903,0,-102.752 0/1:6:5,1:5:167:1:36:-1.38144,0,-13.5522 1/1:4:0,4:0:0:4:144:-11.3018,-1.20412,0 1/1:14:0,14:0:0:14:504:-38.7128,-4.21442,0 1/1:46:0,46:0:0:46:1632:-133.881,-13.8474,0 1/1:72:0,72:0:0:72:2584:-210.617,-21.6742,0 1/1:52:0,52:0:0:52:1868:-153.246,-15.6536,0 1/1:56:0,56:0:0:56:2016:-169.581,-16.8577,0 0/1:38:20,18:20:708:18:648:-42.9491,0,-52.6065 0/1:47:28,19:28:1008:19:680:-40.1363,0,-76.8879 0/1:50:13,37:13:468:37:1310:-92.4437,0,-27.3796 1/1:49:0,49:0:0:49:1756:-139.472,-14.7505,0 1/1:42:1,41:1:36:41:1472:-107.644,-9.09474,0 chr01 23962993 . ATCGAACTTTTTTGC CTCAAACTTTTTGC,ATCAAACTTTTTGC 20560.2 PASS AB=0.521792,0.469734;ABP=6.41736,9.58255;AC=29,13;AF=0.690476,0.309524;AN=42;AO=765,388;CIGAR=1X2M1X3M1D7M,3M1X3M1D7M;DP=1163;DPB=1085.53;DPRA=0,1.50833;EPP=1664.19,845.542;EPPR=0;GTI=0;LEN=14,14;MEANALT=2.04762,2.46154;MQM=34.7176,59.9201;MQMR=0;NS=21;NUMALT=2;ODDS=3.51337;PAIRED=0,0;PAIREDR=0;PAO=0,0.5;PQA=0,18;PQR=18;PRO=0.5;QA=25856,13511;QR=0;RO=0;RPL=765,388;RPP=1664.19,845.542;RPPR=0;RPR=0,0;RUN=1,1;SAF=765,388;SAP=1664.19,845.542;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:31:0,19,11:0:0:19,11:671,377:-80.5982,-30.6076,-24.888,-49.9891,0,-46.6777 1/2:62:0,43,18:0:0:43,18:1335,612:-145.3,-49.6217,-36.6774,-95.643,0,-90.2245 1/2:62:0,36,26:0:0:36,26:1240,901:-165.888,-73.5752,-62.7382,-92.6474,0,-84.8207 1/2:76:0,40,36:0:0:40,36:1391,1253:-205.993,-102.233,-90.1917,-104.095,0,-93.2582 1/2:126:0,71,55:0:0:71,55:2477,1944:-343.32,-158.679,-137.306,-184.981,0,-168.425 1/2:89:0,38,51:0:0:38,51:1212,1736:-228.757,-141.166,-129.727,-87.902,0,-72.5495 1/2:117:0,53,64:0:0:53,64:1686,2257:-305.917,-184.127,-168.173,-122.107,0,-102.841 1/2:47:0,20,22:0:0:20,22:672,773:-112.315,-62.9674,-56.9468,-49.3761,0,-42.7535 1/2:74:0,36,38:0:0:36,38:1267,1339:-205.86,-109.37,-98.5332,-96.8308,0,-85.3917 1/2:6:0,1,5:0:0:1,5:32,170:-16.5101,-14.1291,-13.828,-2.68663,0,-1.18148 1/1:4:0,4,0:0:0:4,0:128,0:-10.7267,-1.20412,0,-10.7267,-1.20412,-10.7267 1/1:14:0,14,0:0:0:14,0:447,0:-36.976,-4.21442,0,-36.976,-4.21442,-36.976 1/1:46:0,46,0:0:0:46,0:1587,0:-132.184,-13.8474,0,-132.184,-13.8474,-132.184 1/1:73:0,72,0:0:0:72,0:2469,0:-205.445,-21.6742,0,-205.445,-21.6742,-205.445 1/1:52:0,51,0:0:0:51,0:1796,0:-149.105,-15.3525,0,-149.105,-15.3525,-149.105 1/1:56:0,56,0:0:0:56,0:1972,0:-167.806,-16.8577,0,-167.806,-16.8577,-167.806 1/2:37:0,18,19:0:0:18,19:627,661:-101.704,-54.0367,-48.6182,-47.9499,0,-42.2303 1/2:49:0,19,30:0:0:19,30:631,1045:-131.572,-85.3278,-79.6083,-46.5649,0,-37.534 1/2:50:0,37,13:0:0:37,13:1255,443:-129.624,-36.2742,-25.1361,-93.6839,0,-89.7705 1/1:50:0,49,0:0:0:49,0:1636,0:-134.981,-14.7505,0,-134.981,-14.7505,-134.981 1/1:42:0,42,0:0:0:42,0:1325,0:-108.47,-12.6433,0,-108.47,-12.6433,-108.47 chr01 23963015 . CTAAT ATAAC,ATAAT 20960.4 PASS AB=0.529988,0.467564;ABP=9.39182,10.4762;AC=29,13;AF=0.690476,0.309524;AN=42;AO=768,382;CIGAR=1X3M1X,1X4M;DP=1152;DPB=1152.4;DPRA=0,1.5008;EPP=1670.7,832.513;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.71429,2.15385;MQM=34.6185,59.788;MQMR=0;NS=21;NUMALT=2;ODDS=4.06329;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=26843,13543;QR=0;RO=0;RPL=768,382;RPP=1670.7,832.513;RPPR=0;RPR=0,0;RUN=1,1;SAF=768,382;SAP=1670.7,832.513;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:30:0,19,11:0:0:19,11:672,389:-82.041,-31.9887,-26.2692,-50.3954,0,-47.0841 1/2:62:0,43,19:0:0:43,19:1498,684:-156.542,-56.1708,-43.2265,-100.71,0,-94.9908 1/2:62:0,36,26:0:0:36,26:1274,912:-168.493,-74.5691,-63.732,-94.2628,0,-86.436 1/2:76:0,40,36:0:0:40,36:1360,1271:-205.547,-103.855,-91.8138,-102.027,0,-91.1901 1/2:125:0,71,54:0:0:71,54:2494,1932:-343.34,-157.901,-136.528,-185.782,0,-169.526 1/2:87:0,38,49:0:0:38,49:1330,1723:-232.416,-140.541,-129.102,-92.1402,0,-77.3897 1/2:114:0,53,60:0:0:53,60:1854,2123:-300.675,-172.946,-156.992,-127.724,0,-109.662 1/2:46:0,22,24:0:0:22,24:762,854:-123.61,-69.6842,-63.0615,-54.2554,0,-47.0307 1/2:74:0,36,37:0:0:36,37:1250,1312:-201.971,-106.988,-96.1514,-95.0673,0,-83.9291 1/2:6:0,1,5:0:0:1,5:30,180:-17.3026,-15.0469,-14.7459,-2.55355,0,-1.0484 1/1:4:0,4,0:0:0:4,0:144,0:-11.3018,-1.20412,0,-11.3018,-1.20412,-11.3018 1/1:13:0,13,0:0:0:13,0:460,0:-35.5608,-3.91339,0,-35.5608,-3.91339,-35.5608 1/1:46:0,46,0:0:0:46,0:1593,0:-132.225,-13.8474,0,-132.225,-13.8474,-132.225 1/1:72:0,72,0:0:0:72,0:2513,0:-206.7,-21.6742,0,-206.7,-21.6742,-206.7 1/1:51:0,51,0:0:0:51,0:1801,0:-148.61,-15.3525,0,-148.61,-15.3525,-148.61 1/1:57:0,57,0:0:0:57,0:2013,0:-170.324,-17.1587,0,-170.324,-17.1587,-170.324 1/2:36:0,18,18:0:0:18,18:640,636:-100.311,-52.1495,-46.731,-48.503,0,-43.0845 1/2:50:0,20,30:0:0:20,30:701,1063:-136.615,-86.9499,-80.9293,-49.9922,0,-40.9613 1/2:49:0,36,13:0:0:36,13:1262,464:-130.353,-38.1556,-27.3185,-92.5434,0,-88.63 1/1:50:0,50,0:0:0:50,0:1733,0:-139.595,-15.0515,0,-139.595,-15.0515,-139.595 1/1:42:0,42,0:0:0:42,0:1459,0:-112.593,-12.6433,0,-112.593,-12.6433,-112.593 chr01 24752018 . ATG GTA,ATA 69748.8 PASS AB=0.510336,0.487941;ABP=5.16494,5.943;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2252,1138;CIGAR=1X1M1X,2M1X;DP=3394;DPB=3398.33;DPRA=0,2.13134;EPP=4893.17,2474.15;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=1.90476,2.1875;MQM=59.9822,59.9736;MQMR=60;NS=21;NUMALT=2;ODDS=3.94946;PAIRED=0,0;PAIREDR=0;PAO=9.5,3.5;PQA=340,124;PQR=0;PRO=0;QA=79083,40605;QR=34;RO=1;RPL=2252,1138;RPP=4893.17,2474.15;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=2252,1138;SAP=4893.17,2474.15;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:193:0,104,89:0:0:104,89:3644,3182:-556.319,-259.813,-228.506,-296.86,0,-270.069 1/2:75:0,27,48:0:0:27,48:947,1713:-217.067,-140.004,-131.876,-77.4157,0,-62.9662 1/2:162:0,73,89:0:0:73,89:2564,3194:-469.571,-260.891,-238.916,-209.034,0,-182.242 1/2:159:0,71,87:0:0:71,87:2435,3112:-451.439,-253.758,-232.385,-197.672,0,-171.482 1/2:372:1,181,189:1:34:181,189:6411,6739:-1068.52,-546.582,-494.854,-519.493,0,-465.356 1/2:240:0,107,133:0:0:107,133:3779,4757:-695.926,-388.18,-355.969,-308.101,0,-268.064 1/2:242:0,123,118:0:0:123,118:4263,4224:-691.084,-344.613,-307.587,-346.628,0,-311.107 1/2:143:0,89,54:0:0:89,54:3136,1916:-411.421,-156.099,-129.308,-255.316,0,-239.06 1/2:452:0,251,201:0:0:251,201:8816,7153:-1300.61,-583.082,-507.523,-717.644,0,-657.137 1/2:19:0,15,4:0:0:15,4:532,144:-55.4484,-12.1095,-7.59405,-43.6976,0,-42.4935 1/1:9:0,9,0:0:0:9,0:316,0:-28.7783,-2.70927,0,-28.7783,-2.70927,-28.7783 1/1:42:0,42,0:0:0:42,0:1451,0:-130.882,-12.6433,0,-130.882,-12.6433,-130.882 1/1:181:0,181,0:0:0:181,0:6399,0:-576.007,-54.4864,0,-576.007,-54.4864,-576.007 1/1:162:0,162,0:0:0:162,0:5600,0:-503.775,-48.7669,0,-503.775,-48.7669,-503.775 1/1:359:0,356,3:0:0:356,3:12593,104:-1132.86,-107.167,0,-1124.41,-98.367,-1123.51 1/1:109:0,108,1:0:0:108,1:3840,36:-345.378,-32.5112,0,-342.441,-29.214,-342.14 1/2:140:0,70,70:0:0:70,70:2433,2459:-397.813,-200.01,-178.938,-197.675,0,-176.603 1/2:68:0,30,38:0:0:30,38:1059,1368:-198.214,-111.982,-102.951,-86.5886,0,-75.1494 1/2:57:0,44,13:0:0:44,13:1533,468:-163.202,-38.5463,-25.3009,-125.013,0,-121.1 1/1:170:0,169,1:0:0:169,1:5917,36:-532.292,-50.8741,0,-529.354,-47.9367,-529.053 1/1:40:0,40,0:0:0:40,0:1415,0:-127.647,-12.0412,0,-127.647,-12.0412,-127.647 chr01 24824147 . A G 16729.2 PASS AB=0.637201;ABP=91.7927;AC=30;AF=0.714286;AN=42;AO=805;CIGAR=1X;DP=1005;DPB=1005;DPRA=0;EPP=1751.05;EPPR=437.305;GTI=1;LEN=1;MEANALT=1;MQM=59.6509;MQMR=37.705;NS=21;NUMALT=1;ODDS=3.44633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28800;QR=7155;RO=200;RPL=805;RPP=1751.05;RPPR=437.305;RPR=0;RUN=1;SAF=805;SAP=1751.05;SAR=0;SRF=200;SRP=437.305;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:18,32:18:644:32:1139:-87.7669,0,-39.9084 0/1:12:5,7:5:180:7:252:-19.4166,0,-11.9706 0/1:32:14,18:14:500:18:648:-49.0143,0,-33.0028 0/1:106:39,67:39:1396:67:2374:-181.977,0,-86.8201 0/1:72:31,41:31:1103:41:1468:-110.73,0,-72.0644 0/1:43:23,20:23:824:20:716:-51.8152,0,-57.2602 0/1:58:20,38:20:716:38:1360:-104.597,0,-42.6875 0/1:54:11,43:11:396:43:1539:-122.547,0,-17.7942 0/1:60:10,50:10:356:50:1792:-143.498,0,-11.3441 1/1:5:0,5:0:0:5:176:-16.1778,-1.50515,0 1/1:7:0,7:0:0:7:248:-22.6559,-2.10721,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 1/1:99:0,99:0:0:99:3543:-319.069,-29.802,0 1/1:65:0,65:0:0:65:2336:-210.494,-19.567,0 1/1:86:0,86:0:0:86:3073:-276.756,-25.8886,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 0/1:28:12,16:12:432:16:572:-43.3846,0,-27.2097 0/1:11:8,3:8:288:3:108:-6.76384,0,-21.451 0/1:17:6,11:6:212:11:392:-30.5025,0,-13.2532 1/1:152:3,149:3:108:149:5344:-471.552,-36.2713,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 chr01 25276388 . GCGC CCGT,CCGC 51483.3 PASS AB=0.540282,0.454648;ABP=28.0269,34.7211;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1715,810;CIGAR=1X2M1X,1X3M;DP=2539;DPB=2539;DPRA=0,1.5948;EPP=3727.09,1761.9;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.28571,2.5625;MQM=59.8583,59.9926;MQMR=0;NS=21;NUMALT=2;ODDS=7.18518;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59803,28952;QR=0;RO=0;RPL=1715,810;RPP=3727.09,1761.9;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3727.09,1761.9;SAR=1715,810;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:148:0,69,79:0:0:69,79:2373,2819:-422.858,-230.163,-209.392,-193.045,0,-169.263 1/2:102:0,78,24:0:0:78,24:2757,860:-295.033,-70.4971,-47.0168,-224.893,0,-217.668 1/2:98:0,53,45:0:0:53,45:1863,1608:-283.103,-131.464,-115.509,-151.993,0,-138.447 1/2:179:0,101,77:0:0:101,77:3550,2753:-513.465,-224.53,-194.126,-288.988,0,-265.809 1/2:236:0,110,124:0:0:110,124:3820,4414:-670.382,-359.844,-326.731,-310.629,0,-273.302 1/2:78:0,35,43:0:0:35,43:1231,1540:-226.151,-125.949,-115.413,-100.557,0,-87.6123 1/2:139:0,63,73:0:0:63,73:2182,2579:-387.331,-210.023,-191.058,-177.298,0,-155.323 1/2:122:0,59,63:0:0:59,63:2096,2256:-355.129,-184.338,-166.577,-171.147,0,-152.182 1/2:161:0,83,78:0:0:83,78:2921,2800:-466.546,-228.759,-203.774,-238.142,0,-214.662 1/2:12:0,5,7:0:0:5,7:171,252:-34.7927,-20.9217,-19.4166,-14.2203,0,-12.1131 1/1:6:0,6,0:0:0:6,0:208,0:-19.0589,-1.80618,0,-19.0589,-1.80618,-19.0589 1/1:47:0,47,0:0:0:47,0:1679,0:-151.398,-14.1484,0,-151.398,-14.1484,-151.398 1/1:176:0,175,1:0:0:175,1:6120,36:-550.556,-52.6803,0,-547.619,-49.383,-547.318 1/1:57:0,56,0:0:0:56,0:1760,0:-158.372,-16.8577,0,-158.372,-16.8577,-158.372 1/1:181:0,181,0:0:0:181,0:6349,0:-571.477,-54.4864,0,-571.477,-54.4864,-571.477 1/1:125:0,124,0:0:0:124,0:4335,0:-389.947,-37.3277,0,-389.947,-37.3277,-389.947 1/2:121:0,64,57:0:0:64,57:2211,2048:-347.066,-167.433,-148.167,-179.985,0,-162.827 1/2:184:0,95,89:0:0:95,89:3319,3195:-530.959,-260.98,-232.382,-270.333,0,-243.541 1/2:195:0,144,48:0:0:144,48:5054,1720:-551.565,-140.279,-96.9311,-411.285,0,-396.836 1/1:103:0,100,1:0:0:100,1:3467,36:-311.898,-30.103,0,-308.96,-27.1606,-308.659 1/1:69:0,67,1:0:0:67,1:2337,36:-210.228,-20.169,0,-207.29,-17.2316,-206.989 chr01 25383145 . C T 5871.08 PASS AB=0.486842;ABP=4.83891;AC=13;AF=0.309524;AN=42;AO=596;CIGAR=1X;DP=1777;DPB=1777;DPRA=1.34644;EPP=1297.21;EPPR=2565.35;GTI=0;LEN=1;MEANALT=1;MQM=29.3003;MQMR=29.8864;NS=21;NUMALT=1;ODDS=2.95824;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21272;QR=42258;RO=1180;RPL=0;RPP=1297.21;RPPR=2565.35;RPR=596;RUN=1;SAF=596;SAP=1297.21;SAR=0;SRF=1180;SRP=2565.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:17,33:17:612:33:1169:-70.9247,0,-30.8521 0/1:67:28,39:28:995:39:1400:-72.2724,0,-46.4536 0/1:75:34,41:34:1220:41:1457:-86.4225,0,-66.9636 0/1:96:51,45:51:1820:45:1593:-87.6126,0,-106.548 0/1:205:102,103:102:3652:103:3688:-209.346,0,-208.282 0/1:126:56,70:56:2012:70:2484:-127.022,0,-95.3714 0/1:90:46,44:46:1644:44:1584:-77.4728,0,-81.5441 0/1:118:65,53:65:2328:53:1891:-98.2111,0,-128.745 0/1:154:86,68:86:3075:68:2421:-137.026,0,-186.441 0/1:8:3,5:3:108:5:180:-10.5687,0,-5.49079 0/0:4:4,0:4:144:0:0:0,-1.20412,-9.79982 0/0:8:8,0:8:288:0:0:0,-2.40824,-20.4365 0/0:104:103,0:103:3692:0:0:0,-31.0061,-272.689 0/0:61:61,0:61:2183:0:0:0,-18.3628,-161.041 0/0:146:146,0:146:5244:0:0:0,-43.9504,-385.099 0/0:84:84,0:84:3016:0:0:0,-25.2865,-231.696 0/1:67:40,27:40:1413:27:957:-51.4816,0,-90.2218 0/1:103:53,50:53:1887:50:1800:-95.6654,0,-103.042 0/1:57:43,14:43:1548:14:504:-19.7975,0,-93.9276 0/0:100:98,2:98:3509:2:72:0,-24.9068,-241.377 0/0:54:52,2:52:1868:2:72:0,-11.2233,-118.962 chr01 25383152 . TTTCAC CTTCGT,TTTCGT 25834.5 PASS AB=0.510154,0.485784;ABP=4.11279,5.17119;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1201,602;CIGAR=1X3M2X,4M2X;DP=1810;DPB=1810;DPRA=0,1.31564;EPP=2610.95,1310.24;EPPR=0;GTI=0;LEN=6,2;MEANALT=2.04762,2.33333;MQM=29.8543,29.3355;MQMR=0;NS=21;NUMALT=2;ODDS=3.25051;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42269,21014;QR=0;RO=0;RPL=0,0;RPP=2610.95,1310.24;RPPR=0;RPR=1201,602;RUN=1,1;SAF=1201,602;SAP=2610.95,1310.24;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,17,34:0:0:17,34:610,1180:-117.111,-76.6648,-71.5472,-40.7386,0,-30.5036 1/2:69:0,29,40:0:0:29,40:1024,1404:-141.733,-81.9057,-73.1759,-60.0894,0,-48.0482 1/2:76:0,34,42:0:0:34,42:1212,1458:-175.831,-97.0032,-86.7682,-79.1184,0,-66.4751 1/2:98:0,51,47:0:0:51,47:1796,1635:-225.845,-106.701,-91.349,-119.433,0,-105.284 1/2:206:0,102,102:0:0:102,102:3591,3635:-474.987,-237.927,-207.222,-237.102,0,-206.397 1/2:126:0,56,69:0:0:56,69:1982,2403:-256.161,-140.524,-123.666,-115.677,0,-94.9063 1/2:92:0,47,45:0:0:47,45:1659,1544:-187.043,-91.2361,-77.0877,-96.0663,0,-82.52 1/2:119:0,66,53:0:0:66,53:2321,1857:-262.14,-116.663,-96.7954,-145.755,0,-129.8 1/2:157:0,87,69:0:0:87,69:3079,2434:-373.835,-165.572,-139.383,-208.356,0,-187.585 1/2:8:0,3,5:0:0:3,5:100,180:-17.935,-11.4718,-10.5687,-6.73957,0,-5.23442 1/1:4:0,4,0:0:0:4,0:144,0:-9.79982,-1.20412,0,-9.79982,-1.20412,-9.79982 1/1:9:0,9,0:0:0:9,0:323,0:-22.8073,-2.70927,0,-22.8073,-2.70927,-22.8073 1/1:106:0,105,0:0:0:105,0:3725,0:-275.56,-31.6082,0,-275.56,-31.6082,-275.56 1/1:64:0,64,0:0:0:64,0:2181,0:-164.776,-19.2659,0,-164.776,-19.2659,-164.776 1/1:150:0,149,0:0:0:149,0:5213,0:-388.704,-44.8535,0,-388.704,-44.8535,-388.704 1/1:89:0,89,0:0:0:89,0:3114,0:-242.505,-26.7917,0,-242.505,-26.7917,-242.505 1/2:67:0,40,27:0:0:40,27:1413,930:-161.82,-63.218,-51.1768,-98.9002,0,-90.7724 1/2:103:0,53,50:0:0:53,50:1873,1709:-225.406,-108.219,-92.2644,-117.463,0,-102.412 1/2:59:0,43,15:0:0:43,15:1512,516:-130.695,-33.9169,-20.9726,-96.7657,0,-92.2502 1/1:103:0,101,2:0:0:101,2:3543,70:-251.872,-30.404,0,-247.588,-25.8482,-246.986 1/1:54:0,52,2:0:0:52,2:1854,59:-123.51,-15.6536,0,-119.79,-11.6921,-119.188 chr01 25424131 . CCT CCTTCT,CCTACT 48676.7 PASS AB=0.489231,0.502154;ABP=4.64726,3.07578;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1567,816;CIGAR=1M3I2M,1M3I2M;DP=2401;DPB=4796;DPRA=0,1.28866;EPP=3405.71,1774.93;EPPR=13.8677;GTI=0;LEN=3,3;MEANALT=2.04762,2.53846;MQM=59.6643,59.9387;MQMR=60;NS=21;NUMALT=2;ODDS=6.17672;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55200,28574;QR=178;RO=5;RPL=0,0;RPP=3405.71,1774.93;RPPR=13.8677;RPR=1567,816;RUN=1,1;SAF=1567,816;SAP=3405.71,1774.93;SAR=0,0;SRF=5;SRP=13.8677;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:153:2,79,72:2:72:79,72:2792,2552:-428.791,-202.021,-184.114,-221.492,0,-205.692 1/2:165:0,61,104:0:0:61,104:2117,3644:-468.946,-296.86,-278.498,-172.434,0,-141.127 1/2:147:0,71,76:0:0:71,76:2512,2689:-423.973,-219.376,-198.003,-204.951,0,-182.072 1/2:109:0,45,63:0:0:45,63:1596,2221:-310.852,-180.826,-167.279,-130.021,0,-111.056 1/2:244:0,114,127:0:0:114,127:4005,4496:-692.09,-366.224,-331.907,-325.859,0,-287.628 1/2:130:0,45,82:0:0:45,82:1596,2847:-361.311,-231.437,-217.891,-129.878,0,-105.194 1/2:179:0,105,74:0:0:105,74:3679,2582:-509.678,-210.324,-178.715,-299.704,0,-277.428 1/2:62:0,34,28:0:0:34,28:1180,969:-174.856,-79.0907,-68.8557,-96.111,0,-87.6822 1/2:196:1,106,89:1:36:106,89:3748,3058:-550.199,-245.358,-216.387,-302.192,0,-278.338 1/2:17:0,12,5:0:0:12,5:432,176:-49.933,-14.6799,-11.0675,-35.6073,0,-34.1021 1/1:13:0,13,0:0:0:13,0:456,0:-41.3437,-3.91339,0,-41.3437,-3.91339,-41.3437 1/1:18:0,18,0:0:0:18,0:628,0:-56.8455,-5.41854,0,-56.8455,-5.41854,-56.8455 1/1:158:0,157,0:0:0:157,0:5585,0:-502.393,-47.2617,0,-502.393,-47.2617,-502.393 1/1:100:0,97,0:0:0:97,0:3437,0:-309.145,-29.1999,0,-309.145,-29.1999,-309.145 1/1:220:0,220,0:0:0:220,0:7657,0:-688.924,-66.2266,0,-688.924,-66.2266,-688.924 1/1:83:0,83,0:0:0:83,0:2936,0:-264.473,-24.9855,0,-264.473,-24.9855,-264.473 1/2:114:2,59,51:2:70:59,51:2088,1756:-306.422,-136.945,-124.88,-164.412,0,-154.755 1/2:64:0,33,31:0:0:33,31:1171,1088:-184.303,-88.8973,-78.9633,-95.7581,0,-86.4261 1/2:45:0,31,14:0:0:31,14:1088,496:-129.252,-40.7585,-31.4266,-88.8467,0,-84.6323 1/1:136:0,136,0:0:0:136,0:4789,0:-431.162,-40.9401,0,-431.162,-40.9401,-431.162 1/1:48:0,48,0:0:0:48,0:1708,0:-154.004,-14.4494,0,-154.004,-14.4494,-154.004 chr01 25424140 . A G 34000.4 PASS AB=0.491629;ABP=4.10088;AC=29;AF=0.690476;AN=42;AO=1719;CIGAR=1X;DP=2631;DPB=2631;DPRA=0;EPP=3735.77;EPPR=1983.39;GTI=0;LEN=1;MEANALT=1;MQM=59.5439;MQMR=59.9013;NS=21;NUMALT=1;ODDS=4.47035;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61312;QR=32368;RO=912;RPL=0;RPP=3735.77;RPPR=1983.39;RPR=1719;RUN=1;SAF=1719;SAP=3735.77;SAR=0;SRF=912;SRP=1983.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:85,91:85:2979:91:3226:-236.79,0,-215.354 0/1:187:120,67:120:4280:67:2400:-159.963,0,-329.075 0/1:160:84,76:84:2958:76:2709:-195.872,0,-218.26 0/1:115:67,48:67:2381:48:1724:-120.808,0,-179.925 0/1:267:140,127:140:4959:127:4532:-327.437,0,-366.084 0/1:157:103,54:103:3669:54:1932:-126.731,0,-283.082 0/1:198:85,113:85:3028:113:4044:-304.136,0,-213.078 0/1:68:31,37:31:1104:37:1320:-98.4721,0,-79.2 0/1:205:89,116:89:3161:116:4137:-310.672,0,-223.004 0/1:23:7,16:7:252:16:559:-43.7122,0,-16.1053 1/1:13:0,13:0:0:13:460:-41.6652,-3.91339,0 1/1:22:0,22:0:0:22:779:-70.4305,-6.62266,0 1/1:176:0,176:0:0:176:6292:-565.635,-52.9813,0 1/1:108:0,108:0:0:108:3868:-348.277,-32.5112,0 1/1:232:0,232:0:0:232:8256:-742.898,-69.839,0 1/1:89:0,89:0:0:89:3188:-287.136,-26.7917,0 0/1:121:56,65:56:1989:65:2320:-172.631,0,-142.854 0/1:69:30,39:30:1068:39:1369:-102.729,0,-75.661 0/1:46:14,32:14:504:32:1144:-89.4175,0,-31.8507 1/1:144:0,144:0:0:144:5117:-460.529,-43.3483,0 1/1:55:1,54:1:36:54:1936:-170.288,-12.9584,0 chr01 25771362 . CTTAGGGCAT CTTGGGGCAA,CTTAGGGCAG,CTTGGGTCAA 22815 PASS AB=0.644898,0.15034,0.135802;ABP=271.085,1564.08,376.289;AC=25,14,3;AF=0.595238,0.333333,0.0714286;AN=42;AO=1224,242,44;CIGAR=3M1X5M1X,9M1X,3M1X2M1X2M1X;DP=1811;DPB=1816.5;DPRA=0,2.00795,0.950147;EPP=2660.89,528.507,98.5551;EPPR=0;GTI=7;LEN=10,1,10;MEANALT=4.42857,4.55,6.75;MQM=32.7247,53.8058,27.4545;MQMR=0;NS=21;NUMALT=3;ODDS=0.246733;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=37981,8646,1549;QR=0;RO=0;RPL=1217,178,32;RPP=2600.44,119.624,22.751;RPPR=0;RPR=7,64,12;RUN=1,1,1;SAF=1217,178,32;SAP=2600.44,119.624,22.751;SAR=7,64,12;SRF=0;SRP=0;SRR=0;TYPE=complex,snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:0,48,3,0:0:0:48,3,0:1468,108,0:-120.188,-14.4494,0,-111.396,-5.64218,-110.493,-120.188,-14.4494,-111.396,-120.188 1/2:18:0,12,4,0:0:0:12,4,0:362,144,0:-37.9008,-11.7887,-8.17639,-26.1426,0,-24.9384,-37.9008,-11.7887,-26.1426,-37.9008 1/2:61:0,33,10,1:0:0:33,10,1:1100,360,33:-111.833,-29.3391,-19.4051,-82.5244,0,-79.5141,-111.239,-28.7475,-81.9306,-110.938 1/2:106:0,71,22,0:0:0:71,22,0:2146,792,0:-220.06,-64.3353,-42.9622,-155.793,0,-149.17,-220.06,-64.3353,-155.793,-220.06 1/2:72:0,47,14,0:0:0:47,14,0:1435,504,0:-145.268,-41.1035,-26.9551,-104.216,0,-100.001,-145.268,-41.1035,-104.216,-145.268 1/2:56:0,40,7,0:0:0:40,7,0:1288,252,0:-115.969,-20.5259,-8.48465,-95.4858,0,-93.3786,-115.969,-20.5259,-95.4858,-115.969 1/2:140:0,93,28,0:0:0:93,28,0:2891,1000,0:-292.917,-81.3016,-53.3058,-211.656,0,-203.228,-292.917,-81.3016,-211.656,-292.917 1/1:44:0,43,0,0:0:0:43,0,0:1282,0,0:-105.545,-12.9443,0,-105.545,-12.9443,-105.545,-105.545,-12.9443,-105.545,-105.545 1/3:175:0,113,11,23:0:0:113,11,23:3486,396,821:-298.166,-47.0109,-12.9945,-265.961,-14.7954,-262.65,-251.155,0,-218.95,-244.232 1/1:194:0,154,16,0:0:0:154,16,0:4868,568,0:-403.636,-46.3586,0,-357.413,-0.110953,-352.596,-403.636,-46.3586,-357.413,-403.636 1/2:242:0,173,22,0:0:0:173,22,0:5420,784,0:-462.948,-63.8602,-11.782,-399.117,0,-392.495,-462.948,-63.8602,-399.117,-462.948 1/2:88:0,55,15,0:0:0:55,15,0:1695,523,0:-165.989,-42.5266,-25.9699,-123.491,0,-118.975,-165.989,-42.5266,-123.491,-165.989 1/2:138:0,105,13,0:0:0:105,13,0:3170,460,0:-266.548,-37.4441,-5.83594,-229.156,0,-225.243,-266.548,-37.4441,-229.156,-266.548 1/2:145:0,88,25,0:0:0:88,25,0:2734,896,0:-274.066,-72.8144,-46.3238,-201.294,0,-193.768,-274.066,-72.8144,-201.294,-274.066 1/1:39:0,31,2,0:0:0:31,2,0:984,72,0:-81.4067,-9.33193,0,-75.5442,-3.44114,-74.9421,-81.4067,-9.33193,-75.5442,-81.4067 1/3:58:0,30,3,12:0:0:30,3,12:898,104,416:-86.4965,-22.3761,-13.3452,-78.065,-13.9406,-77.1619,-64.108,0,-55.676,-60.4956 1/3:30:0,10,5,8:0:0:10,5,8:329,171,279:-42.3992,-18.3637,-15.3534,-28.555,-4.51205,-27.0499,-24.0363,0,-10.1883,-21.6281 1/2:42:0,20,15,0:0:0:20,15,0:588,540,0:-86.3839,-44.0328,-38.0122,-42.3983,0,-37.8828,-86.3839,-44.0328,-42.3983,-86.3839 1/2:13:0,9,3,0:0:0:9,3,0:264,108,0:-27.7535,-8.8882,-6.17893,-18.94,0,-18.0369,-27.7535,-8.8882,-18.94,-27.7535 1/2:60:0,31,18,0:0:0:31,18,0:984,648,0:-125.221,-52.8628,-43.5309,-72.4086,0,-66.99,-125.221,-52.8628,-72.4086,-125.221 1/2:26:0,18,6,0:0:0:18,6,0:589,216,0:-61.7825,-17.7427,-12.3241,-44.1519,0,-42.3458,-61.7825,-17.7427,-44.1519,-61.7825 chr01 25784213 . G A 7648.83 PASS AB=0.432077;ABP=48.733;AC=14;AF=0.333333;AN=42;AO=494;CIGAR=1X;DP=1671;DPB=1671;DPRA=1.0042;EPP=1075.72;EPPR=2547.98;GTI=1;LEN=1;MEANALT=1;MQM=59.9008;MQMR=59.4252;NS=21;NUMALT=1;ODDS=8.06081;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17487;QR=41987;RO=1176;RPL=0;RPP=1075.72;RPPR=2556.66;RPR=494;RUN=1;SAF=494;SAP=1075.72;SAR=0;SRF=1175;SRP=2547.98;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:57,28:57:2044:28:970:-62.0201,0,-158.627 0/1:49:39,10:39:1400:10:360:-17.9938,0,-111.549 0/1:56:24,32:24:841:32:1131:-85.0483,0,-59.1423 0/1:73:38,35:38:1360:35:1245:-90.3775,0,-100.705 0/1:171:97,74:97:3476:74:2608:-183.488,0,-261.528 0/1:73:39,34:39:1396:34:1201:-86.4185,0,-103.857 0/1:144:76,68:76:2704:68:2393:-172.277,0,-200.174 0/1:65:40,25:40:1428:25:900:-61.7541,0,-109.236 0/1:174:85,89:85:3018:89:3150:-231.341,0,-219.395 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5725 0/0:90:90,0:90:3216:0:0:0,-27.0927,-289.389 0/0:37:37,0:37:1309:0:0:0,-11.1381,-117.369 0/0:128:128,0:128:4565:0:0:0,-38.5318,-410.947 0/0:62:61,0:61:2192:0:0:0,-18.3628,-197.183 0/1:61:46,15:46:1652:15:517:-28.4918,0,-130.568 0/1:99:44,55:44:1580:55:1972:-147.953,0,-112.679 0/1:76:52,24:52:1848:24:860:-54.8436,0,-143.713 0/0:144:144,0:144:5130:0:0:0,-43.3483,-461.724 0/0:54:53,1:53:1896:1:36:0,-12.6769,-167.296 chr01 25784246 . C T 23806.8 PASS AB=0.569798;ABP=51.2078;AC=28;AF=0.666667;AN=42;AO=1167;CIGAR=1X;DP=1659;DPB=1659;DPRA=0;EPP=2416.97;EPPR=1058.36;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.168;MQMR=59.9245;NS=21;NUMALT=1;ODDS=8.10965;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41522;QR=17285;RO=490;RPL=1154;RPP=2425.46;RPPR=1058.36;RPR=13;RUN=1;SAF=1166;SAP=2528.44;SAR=1;SRF=490;SRP=1067.03;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:28,58:28:1004:58:2075:-160.317,0,-64.7873 0/1:55:10,45:10:360:45:1601:-126.871,0,-16.1699 0/1:55:32,23:32:1135:23:824:-57.9205,0,-85.9014 0/1:70:35,35:35:1247:35:1238:-90.6339,0,-91.462 0/1:168:72,96:72:2568:96:3425:-257.875,0,-180.797 0/1:70:32,38:32:1140:38:1309:-96.9555,0,-81.8371 0/1:145:69,76:69:2416:76:2710:-200.393,0,-174.038 0/1:62:25,37:25:896:37:1317:-100.155,0,-62.2965 0/1:173:87,85:87:3065:85:3010:-218.799,0,-223.94 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:10:1,9:1:36:9:315:-25.6769,0,-0.587975 1/1:15:0,15:0:0:15:521:-47.2163,-4.51545,0 1/1:87:0,87:0:0:87:3110:-279.849,-26.1896,0 1/1:36:0,36:0:0:36:1284:-115.751,-10.8371,0 1/1:123:1,122:1:36:122:4346:-387.652,-33.4284,0 1/1:63:0,63:0:0:63:2264:-203.206,-18.9649,0 0/1:62:14,47:14:500:47:1671:-131.492,0,-26.6137 0/1:99:55,44:55:1895:44:1580:-112.679,0,-141.018 0/1:79:25,54:25:847:54:1917:-148.945,0,-52.7574 1/1:144:0,144:0:0:144:5114:-460.307,-43.3483,0 1/1:52:1,51:1:32:51:1819:-160.756,-12.4621,0 chr01 25784261 . G A 24081.2 PASS AB=0.577739;ABP=62.4304;AC=28;AF=0.666667;AN=42;AO=1177;CIGAR=1X;DP=1658;DPB=1658;DPRA=0;EPP=2430.21;EPPR=1036.65;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.1011;MQMR=59.8375;NS=21;NUMALT=1;ODDS=3.41817;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41967;QR=17016;RO=480;RPL=1163;RPP=2438.68;RPPR=1028.02;RPR=14;RUN=1;SAF=1176;SAP=2550.15;SAR=1;SRF=479;SRP=1036.65;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:26,61:26:932:61:2175:-168.898,0,-58.0093 0/1:52:8,44:8:288:44:1580:-125.888,0,-10.6138 0/1:54:31,23:31:1093:23:828:-58.5885,0,-81.9309 0/1:70:32,38:32:1144:38:1356:-101.243,0,-82.1974 0/1:169:70,98:70:2482:98:3479:-262.367,0,-172.7 0/1:70:32,38:32:1135:38:1352:-100.858,0,-81.386 0/1:142:65,77:65:2293:77:2731:-203.167,0,-163.874 0/1:65:26,39:26:921:39:1387:-105.54,0,-63.6383 0/1:169:85,84:85:3027:84:3009:-219.864,0,-221.785 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:9:1,8:1:36:8:284:-23.1941,0,-0.889005 1/1:15:0,15:0:0:15:536:-48.5725,-4.51545,0 1/1:88:0,88:0:0:88:3126:-281.285,-26.4906,0 1/1:36:0,36:0:0:36:1294:-116.059,-10.8371,0 1/1:123:1,122:1:36:122:4353:-388.291,-33.4284,0 1/1:67:1,66:1:36:66:2364:-208.509,-16.7454,0 0/1:60:15,45:15:536:45:1608:-126.485,0,-30.513 0/1:102:58,44:58:2025:44:1584:-112.136,0,-151.814 0/1:78:25,53:25:888:53:1896:-147.427,0,-56.7587 1/1:143:0,143:0:0:143:5065:-455.915,-43.0473,0 1/1:54:1,53:1:36:53:1888:-166.576,-12.6769,0 chr01 25784309 . G T 16652.2 PASS AB=0.51423;ABP=4.80246;AC=29;AF=0.690476;AN=42;AO=848;CIGAR=1X;DP=1346;DPB=1346;DPRA=0;EPP=1835.74;EPPR=1073.56;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.6651;MQMR=59.9256;NS=21;NUMALT=1;ODDS=0.810455;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30265;QR=17631;RO=497;RPL=10;RPP=1758.58;RPPR=1073.56;RPR=838;RUN=1;SAF=9;SAP=1767.08;SAR=839;SRF=0;SRP=1082.23;SRR=497;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:28,49:28:1004:49:1737:-132.52,0,-67.4966 0/1:52:14,38:14:500:38:1364:-107.407,0,-29.6826 0/1:100:69,31:69:2467:31:1112:-70.2883,0,-192.18 0/1:57:31,26:31:1066:26:913:-65.3253,0,-79.0846 0/1:78:30,48:30:1054:48:1724:-131.965,0,-71.6888 0/1:61:25,36:25:892:36:1296:-98.5811,0,-62.2369 0/1:111:55,56:55:1942:56:2012:-147.939,0,-141.637 0/1:100:54,46:54:1932:46:1637:-117.514,0,-144.054 0/1:165:108,57:108:3849:57:2044:-134.559,0,-296.934 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:24:0,23:0:0:23:828:-74.4843,-6.92369,0 1/1:52:0,52:0:0:52:1868:-167.698,-15.6536,0 1/1:69:0,69:0:0:69:2451:-220.843,-20.7711,0 1/1:56:0,56:0:0:56:1991:-179.449,-16.8577,0 1/1:36:1,35:1:36:35:1251:-108.614,-7.41348,0 0/1:47:20,27:20:704:27:968:-73.1581,0,-49.5361 0/1:86:39,47:39:1365:47:1680:-125.59,0,-97.2578 0/1:81:19,62:19:676:62:2196:-173.52,0,-36.7846 1/1:45:1,44:1:36:44:1552:-136.359,-9.94808,0 1/1:40:0,40:0:0:40:1425:-128.545,-12.0412,0 chr01 25784327 . G A 8046.38 PASS AB=0.481737;ABP=5.9449;AC=13;AF=0.309524;AN=42;AO=489;CIGAR=1X;DP=1334;DPB=1334;DPRA=1.90794;EPP=1056.19;EPPR=1811.94;GTI=0;LEN=1;MEANALT=1;MQM=59.9673;MQMR=59.9515;NS=21;NUMALT=1;ODDS=0.296174;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17436;QR=30124;RO=845;RPL=488;RPP=1056.19;RPPR=1811.94;RPR=1;RUN=1;SAF=0;SAP=1064.86;SAR=489;SRF=0;SRP=1837.9;SRR=845;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:47,28:47:1667:28:984:-66.2943,0,-127.736 0/1:53:39,14:39:1372:14:500:-29.3816,0,-107.821 0/1:99:31,68:31:1116:68:2432:-189.334,0,-70.9497 0/1:57:26,31:26:923:31:1108:-82.8723,0,-66.2281 0/1:78:47,31:47:1675:31:1112:-76.911,0,-127.556 0/1:60:37,23:37:1316:23:816:-55.6999,0,-100.68 0/1:110:57,53:57:2044:53:1888:-137.072,0,-151.118 0/1:101:47,54:47:1671:54:1928:-143.393,0,-120.273 0/1:160:55,105:55:1967:105:3741:-288.724,0,-129.131 0/1:4:1,3:1:36:3:95:-7.66009,0,-2.39415 0/0:6:6,0:6:207:0:0:0,-1.80618,-18.9669 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/0:51:51,0:51:1820:0:0:0,-15.3525,-164.081 0/0:69:69,0:69:2464:0:0:0,-20.7711,-222.014 0/0:55:55,0:55:1951:0:0:0,-16.5566,-175.863 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/1:49:27,22:27:964:22:788:-56.4943,0,-72.3264 0/1:85:47,38:47:1671:38:1360:-97.113,0,-125.081 0/1:82:64,18:64:2284:18:648:-33.9674,0,-181.138 0/0:44:43,1:43:1544:1:36:0,-9.64704,-135.644 0/0:39:39,0:39:1392:0:0:0,-11.7402,-125.579 chr01 25784342 . C G,A 27904.4 PASS AB=0.511696,0.487329;ABP=4.22937,4.44102;AC=29,13;AF=0.690476,0.309524;AN=42;AO=849,501;CIGAR=1X,1X;DP=1351;DPB=1351;DPRA=0,1.92115;EPP=1846.59,1090.92;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.66667,2;MQM=59.914,59.994;MQMR=60;NS=21;NUMALT=2;ODDS=0.452756;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30342,17923;QR=36;RO=1;RPL=849,501;RPP=1846.59,1090.92;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1846.59,1090.92;SAR=849,501;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:76:0,47,29:0:0:47,29:1684,1040:-222.521,-85.1845,-71.0361,-137.695,0,-128.965 1/2:52:0,38,14:0:0:38,14:1347,504:-151.216,-41.4837,-30.0445,-110.09,0,-105.876 1/2:101:0,31,70:0:0:31,70:1112,2504:-295.242,-204.541,-195.209,-91.0594,0,-69.9873 1/2:57:0,25,32:0:0:25,32:892,1148:-166.713,-93.9969,-86.4711,-73.0739,0,-63.441 1/2:81:0,49,32:0:0:49,32:1734,1148:-235.234,-93.9969,-79.2464,-141.594,0,-131.961 1/2:60:1,36,23:1:36:36,23:1292,820:-168.99,-63.9016,-56.0021,-102.449,0,-98.4632 1/2:107:0,55,52:0:0:55,52:1964,1864:-312.507,-152.386,-135.829,-160.479,0,-144.825 1/2:104:0,48,56:0:0:48,56:1728,2008:-305.132,-164.136,-149.686,-141.356,0,-124.498 1/2:167:0,58,109:0:0:58,109:2088,3895:-488.292,-317.929,-300.469,-170.722,0,-137.91 1/2:4:0,1,3:0:0:1,3:36,108:-12.1095,-9.17208,-8.87105,-3.29724,0,-2.39415 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/1:24:0,24,0:0:0:24,0:864,0:-78.0826,-7.22472,0,-78.0826,-7.22472,-78.0826 1/1:52:0,52,0:0:0:52,0:1855,0:-167.038,-15.6536,0,-167.038,-15.6536,-167.038 1/1:69:0,69,0:0:0:69,0:2460,0:-221.655,-20.7711,0,-221.655,-20.7711,-221.655 1/1:55:0,55,0:0:0:55,0:1964,0:-177.035,-16.5567,0,-177.035,-16.5567,-177.035 1/1:34:0,34,0:0:0:34,0:1220,0:-110.089,-10.235,0,-110.089,-10.235,-110.089 1/2:49:0,27,22:0:0:27,22:964,780:-142.494,-63.9004,-55.7726,-78.949,0,-72.3264 1/2:86:0,47,39:0:0:47,39:1680,1384:-250.093,-113.118,-98.9697,-137.331,0,-125.59 1/2:82:0,63,19:0:0:63,19:2251,684:-239.699,-56.1708,-37.2059,-183.888,0,-178.168 1/1:46:0,45,1:0:0:45,1:1600,36:-143.926,-13.5464,0,-140.989,-10.2491,-140.688 1/1:39:0,39,0:0:0:39,0:1395,0:-125.848,-11.7402,0,-125.848,-11.7402,-125.848 chr01 25784379 . C T 28789.1 PASS AB=0.543546;ABP=24.1914;AC=30;AF=0.714286;AN=42;AO=1281;CIGAR=1X;DP=1874;DPB=1874;DPRA=0;EPP=1889.74;EPPR=708.724;GTI=0;LEN=1;MEANALT=1;MQM=59.9664;MQMR=59.8803;NS=21;NUMALT=1;ODDS=1.81259;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45745;QR=21182;RO=593;RPL=8;RPP=2715.61;RPPR=1282.02;RPR=1273;RUN=1;SAF=1176;SAP=1947.4;SAR=105;SRF=517;SRP=715.169;SRR=76;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:29,33:29:1027:33:1184:-88.2045,0,-74.0783 0/1:58:31,27:31:1112:27:968:-69.9776,0,-82.9316 0/1:22:9,13:9:320:13:464:-35.4748,0,-22.5197 0/1:114:47,67:47:1680:67:2397:-181.669,0,-117.164 0/1:176:88,88:88:3156:88:3138:-229.652,0,-231.283 0/1:121:53,68:53:1904:68:2444:-183.79,0,-135.023 0/1:176:85,91:85:3027:91:3251:-239.829,0,-219.673 0/1:122:55,67:55:1962:67:2399:-179.44,0,-140.125 0/1:246:113,133:113:4040:133:4698:-348.93,0,-289.717 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:34:0,34:0:0:34:1224:-110.467,-10.235,0 1/1:96:0,96:0:0:96:3428:-308.733,-28.8989,0 1/1:63:0,63:0:0:63:2264:-204.022,-18.9649,0 1/1:121:1,120:1:36:120:4275:-381.327,-32.8264,0 1/1:111:2,109:2:72:109:3888:-343.279,-26.5776,0 0/1:70:30,40:30:1059:40:1432:-108.105,0,-74.5483 0/1:41:19,22:19:675:22:792:-59.2634,0,-48.7347 0/1:78:28,50:28:1004:50:1781:-137.091,0,-67.1955 1/1:105:1,104:1:36:104:3702:-329.778,-28.0099,0 1/1:44:2,42:2:72:42:1512:-129.538,-6.4086,0 chr01 25784381 . G C 21295.4 PASS AB=0.46818;ABP=20.8374;AC=13;AF=0.309524;AN=42;AO=954;CIGAR=1X;DP=3047;DPB=3047;DPRA=2.03351;EPP=13.5353;EPPR=56.1282;GTI=0;LEN=1;MEANALT=1.29412;MQM=59.7893;MQMR=59.954;NS=21;NUMALT=1;ODDS=12.5235;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34027;QR=74080;RO=2088;RPL=1;RPP=2065.92;RPPR=4450.6;RPR=953;RUN=1;SAF=512;SAP=14.1636;SAR=442;SRF=1167;SRP=65.9456;SRR=921;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:76,72:76:2686:72:2554:-185.52,0,-197.433 0/1:56:25,31:25:885:31:1116:-83.894,0,-63.1088 0/1:67:44,23:44:1548:23:815:-53.5018,0,-119.438 0/1:166:87,79:87:3087:79:2820:-204.053,0,-228.088 0/1:305:161,143:161:5653:143:5093:-366.628,0,-416.935 0/1:122:70,52:70:2516:52:1844:-129.494,0,-189.966 0/1:173:89,84:89:3173:84:3003:-218.415,0,-233.715 0/1:267:124,142:124:4440:142:5076:-376.465,0,-319.337 0/1:248:135,112:135:4782:112:4012:-286.537,0,-355.824 0/1:48:19,29:19:684:29:1036:-79.0938,0,-47.4409 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:56:56,0:56:2000:0:0:0,-16.8577,-180.269 0/0:207:207,0:207:7315:0:0:0,-62.3132,-658.396 0/0:172:170,1:170:5995:1:36:0,-48.2377,-536.061 0/0:280:278,1:278:9841:1:36:0,-80.7489,-882.035 0/0:111:109,2:109:3877:2:72:0,-26.5776,-342.289 0/1:72:42,30:42:1472:30:1058:-73.8554,0,-111.098 0/1:204:101,103:101:3600:103:3672:-269.258,0,-262.798 0/1:151:102,49:102:3618:49:1748:-112.121,0,-280.372 0/0:141:140,1:140:5015:1:36:0,-38.847,-447.61 0/0:43:43,0:43:1533:0:0:0,-12.9443,-138.261 chr01 25784429 . AGCG GGCG,GGCA 37161.6 PASS AB=0.488202,0.509357;ABP=4.49623,3.94497;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1166,626;CIGAR=1X3M,1X2M1X;DP=1796;DPB=1796;DPRA=0,1.33388;EPP=2534.95,1362.35;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.80952,2.23077;MQM=59.9365,59.4042;MQMR=0;NS=21;NUMALT=2;ODDS=4.79932;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41493,22116;QR=0;RO=0;RPL=1166,626;RPP=2534.95,1362.35;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2534.95,1362.35;SAR=1166,626;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:91:0,46,45:0:0:46,45:1640,1599:-264.304,-130.618,-116.771,-134.041,0,-120.495 1/2:58:0,33,24:0:0:33,24:1171,843:-164.005,-68.5951,-58.6611,-95.403,0,-88.1783 1/2:45:0,32,13:0:0:32,13:1148,468:-132.181,-38.5463,-28.9133,-93.9945,0,-90.0811 1/2:58:0,26,32:0:0:26,32:915,1141:-167.693,-93.2082,-85.3815,-74.8388,0,-65.2058 1/2:129:0,73,56:0:0:73,56:2612,1963:-373.075,-160.075,-138.1,-213.353,0,-196.495 1/2:82:0,32,50:0:0:32,50:1135,1751:-235.071,-142.598,-132.965,-92.8251,0,-77.7736 1/2:162:0,67,95:0:0:67,95:2375,3362:-467.57,-274.084,-253.915,-193.839,0,-165.241 1/2:161:0,69,91:0:0:69,91:2464,3201:-461.334,-260.445,-239.674,-200.884,0,-173.49 1/2:125:0,65,59:0:0:65,59:2308,2091:-358.462,-170.43,-150.863,-188.135,0,-170.374 1/2:49:0,16,33:0:0:16,33:576,1185:-144.013,-97.014,-92.1975,-47.3585,0,-37.4245 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 1/1:26:0,26,0:0:0:26,0:909,0:-82.1239,-7.82678,0,-82.1239,-7.82678,-82.1239 1/1:114:0,114,0:0:0:114,0:4071,0:-366.549,-34.3174,0,-366.549,-34.3174,-366.549 1/1:119:0,119,0:0:0:119,0:4261,0:-383.667,-35.8226,0,-383.667,-35.8226,-383.667 1/1:164:0,164,0:0:0:164,0:5807,0:-522.746,-49.3689,0,-522.746,-49.3689,-522.746 1/1:38:0,38,0:0:0:38,0:1343,0:-121.169,-11.4391,0,-121.169,-11.4391,-121.169 1/2:32:0,13,19:0:0:13,19:464,671:-92.8212,-54.9969,-51.0835,-38.1795,0,-32.4599 1/2:164:0,79,85:0:0:79,85:2816,3006:-474.64,-245.096,-221.314,-229.899,0,-204.311 1/2:73:0,49,24:0:0:49,24:1752,835:-211.079,-68.2167,-53.4662,-143.214,0,-135.989 1/1:36:0,36,0:0:0:36,0:1276,0:-115.112,-10.8371,0,-115.112,-10.8371,-115.112 1/1:59:0,58,0:0:0:58,0:2058,0:-185.13,-17.4597,0,-185.13,-17.4597,-185.13 chr01 25809525 . 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T A 48634.8 PASS AB=0.51521;ABP=7.17185;AC=28;AF=0.666667;AN=42;AO=2082;CIGAR=1X;DP=3087;DPB=3087;DPRA=0;EPP=4524.02;EPPR=2183.17;GTI=0;LEN=1;MEANALT=1.04762;MQM=46.696;MQMR=58.5239;NS=21;NUMALT=1;ODDS=1.80291;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74080;QR=35919;RO=1004;RPL=941;RPP=44.7293;RPPR=50.3847;RPR=1141;RUN=1;SAF=941;SAP=44.7293;SAR=1141;SRF=428;SRP=50.3847;SRR=576;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:65,121:65:2332:121:4291:-305.081,0,-153.515 0/1:141:74,67:74:2640:67:2384:-156.544,0,-195.198 0/1:124:65,59:65:2332:59:2108:-139.857,0,-172.748 0/1:178:89,89:89:3176:89:3164:-214.052,0,-232.325 0/1:317:166,151:166:5945:151:5356:-349.23,0,-439.589 0/1:119:48,71:48:1719:71:2531:-164.479,0,-119.089 0/1:216:113,103:113:4052:103:3651:-229.668,0,-299.025 0/1:198:81,117:81:2895:117:4155:-287.757,0,-201.064 0/1:216:124,92:124:4438:92:3257:-214.892,0,-333.26 0/1:14:10,4:10:345:4:144:-7.8125,0,-27.1555 0/1:6:1,5:1:36:5:180:-11.0646,0,-1.79209 1/1:39:0,39:0:0:39:1391:-109.919,-11.7402,0 1/1:226:0,226:0:0:226:8053:-675.583,-68.0328,0 1/1:182:0,182:0:0:182:6476:-535.769,-54.7875,0 1/1:203:0,203:0:0:203:7264:-608.538,-61.1091,0 1/1:58:0,58:0:0:58:2063:-176.521,-17.4597,0 0/1:65:34,31:34:1212:31:1107:-76.4642,0,-89.7902 0/1:150:82,68:82:2944:68:2405:-155.025,0,-219.707 0/1:141:52,89:52:1853:89:3187:-222.937,0,-124.347 1/1:189:0,188:0:0:188:6674:-542.654,-56.5936,0 1/1:119:0,119:0:0:119:4239:-340.675,-35.8226,0 chr01 26171679 . CAG CAA,TAA 28282.1 PASS AB=0.412621,0.587379;ABP=71.3168,71.3168;AC=29,13;AF=0.690476,0.309524;AN=42;AO=793,608;CIGAR=2M1X,1X1M1X;DP=1403;DPB=1403;DPRA=0,2.02944;EPP=1707.66,1314.59;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.7619,2.06667;MQM=59.9168,59.3766;MQMR=60;NS=21;NUMALT=2;ODDS=1.0371;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28027,21191;QR=36;RO=1;RPL=791,607;RPP=1707.66,1314.59;RPPR=5.18177;RPR=2,1;RUN=1,1;SAF=793,608;SAP=1724.99,1323.27;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:0,37,60:0:0:37,60:1300,2097:-276.748,-170.935,-159.797,-106.163,0,-88.1013 1/2:66:0,22,44:0:0:22,44:792,1522:-188.636,-124.008,-117.385,-64.983,0,-51.7377 1/2:55:0,23,32:0:0:23,32:809,1114:-156.759,-90.904,-83.9803,-66.2046,0,-56.5717 1/2:37:0,12,25:0:0:12,25:428,883:-107.153,-72.262,-68.6496,-35.2464,0,-27.7207 1/2:200:0,84,116:0:0:84,116:2987,4010:-569.002,-325.582,-300.296,-243.771,0,-208.851 1/2:51:0,26,25:0:0:26,25:920,862:-145.308,-70.3673,-62.5405,-75.2903,0,-67.7645 1/2:130:0,42,88:0:0:42,88:1496,3062:-371.123,-249.185,-236.542,-122.291,0,-95.8007 1/2:55:0,19,36:0:0:19,36:668,1260:-157.239,-102.864,-97.1447,-54.7255,0,-43.8885 1/2:168:0,76,92:0:0:76,92:2689,3215:-480.822,-261.798,-238.919,-219.376,0,-191.682 1/2:9:0,2,7:0:0:2,7:72,248:-26.4317,-20.5556,-19.9536,-6.23466,0,-4.12745 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:24:0,24,0:0:0:24,0:860,0:-77.7218,-7.22472,0,-77.7218,-7.22472,-77.7218 1/1:51:0,50,1:0:0:50,1:1772,34:-159.423,-15.0515,0,-156.665,-11.9536,-156.364 1/1:33:0,33,0:0:0:33,0:1115,0:-100.648,-9.93399,0,-100.648,-9.93399,-100.648 1/1:91:0,88,2:0:0:88,2:3117,70:-280.443,-26.4906,0,-274.748,-20.7019,-274.146 1/1:58:0,58,0:0:0:58,0:2061,0:-185.753,-17.4597,0,-185.753,-17.4597,-185.753 1/2:80:0,42,38:0:0:42,38:1474,1343:-229.637,-109.712,-97.0688,-120.277,0,-108.837 1/2:44:0,15,29:0:0:15,29:531,1017:-126.362,-83.108,-78.5926,-43.6071,0,-34.8772 1/2:38:0,25,13:0:0:25,13:881,454:-108.635,-36.9028,-29.3771,-72.0801,0,-68.1667 1/1:78:0,78,0:0:0:78,0:2727,0:-245.634,-23.4803,0,-245.634,-23.4803,-245.634 1/1:32:1,31,0:1:36:31,0:1112,0:-96.7931,-6.03469,0,-97.0941,-9.33193,-100.032 chr01 26171808 . C T 36260.7 PASS AB=0.482264;ABP=9.4807;AC=29;AF=0.690476;AN=42;AO=1893;CIGAR=1X;DP=3125;DPB=3125;DPRA=0;EPP=4113.61;EPPR=2660.92;GTI=1;LEN=1;MEANALT=1;MQM=59.5827;MQMR=59.9351;NS=21;NUMALT=1;ODDS=2.24415;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67725;QR=44066;RO=1232;RPL=0;RPP=4113.61;RPPR=2660.92;RPR=1893;RUN=1;SAF=0;SAP=4113.61;SAR=1893;SRF=0;SRP=2678.26;SRR=1232;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:92,61:92:3277:61:2180:-150.272,0,-249.083 0/1:139:70,69:70:2504:69:2472:-180.708,0,-183.769 0/1:132:70,62:70:2508:62:2224:-160.679,0,-186.236 0/1:284:152,132:152:5425:132:4704:-337.975,0,-402.831 0/1:768:386,382:386:13815:382:13668:-998.649,0,-1011.8 0/1:82:48,34:48:1709:34:1212:-84.6937,0,-129.409 0/1:178:82,96:82:2944:96:3452:-257.248,0,-211.61 0/1:112:60,52:60:2156:52:1847:-132.789,0,-160.592 0/1:150:76,74:76:2720:74:2660:-194.429,0,-199.888 0/1:21:6,15:6:216:15:540:-42.6103,0,-13.4689 1/1:4:0,4:0:0:4:144:-13.3052,-1.20412,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:103:0,103:0:0:103:3673:-330.681,-31.0061,0 1/1:116:0,116:0:0:116:4149:-372.913,-34.9195,0 1/1:224:4,220:4:144:220:7881:-695.5,-54.1171,0 1/1:92:0,92:0:0:92:3263:-293.774,-27.6948,0 0/1:204:113,91:113:4037:91:3268:-232.841,0,-302.104 0/1:92:45,47:45:1612:47:1692:-124.872,0,-117.485 0/1:53:26,27:26:927:27:968:-71.4711,0,-67.7928 1/1:155:1,154:1:36:154:5500:-491.343,-43.0614,0 1/1:41:1,40:1:36:40:1440:-126.291,-8.74396,0 chr01 26172159 . G T 20582.8 PASS AB=0.502809;ABP=3.0591;AC=29;AF=0.690476;AN=42;AO=789;CIGAR=1X;DP=1144;DPB=1144;DPRA=0;EPP=8.58347;EPPR=3.06535;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.37355;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28103;QR=12599;RO=355;RPL=1;RPP=1707.63;RPPR=765.222;RPR=788;RUN=1;SAF=373;SAP=8.09909;SAR=416;SRF=180;SRP=3.16322;SRR=175;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:35:19,16:19:680:16:572:-41.2774,0,-50.9931 0/1:47:19,28:19:675:28:1008:-76.8879,0,-46.9285 0/1:26:21,5:21:748:5:180:-8.72528,0,-59.8185 0/1:67:29,38:29:1032:38:1351:-101.721,0,-73.0245 0/1:86:47,39:47:1644:39:1388:-99.3303,0,-122.357 0/1:54:32,22:32:1139:22:792:-55.3501,0,-86.5628 0/1:71:32,39:32:1152:39:1383:-103.395,0,-82.617 0/1:38:23,15:23:824:15:540:-37.4974,0,-63.0442 0/1:76:33,43:33:1161:43:1531:-115.204,0,-81.9165 0/1:6:1,5:1:36:5:176:-14.3788,0,-1.79209 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:16:0,16:0:0:16:568:-51.4519,-4.81648,0 1/1:81:0,81:0:0:81:2865:-258.087,-24.3834,0 1/1:33:0,33:0:0:33:1173:-105.876,-9.93399,0 1/1:75:0,75:0:0:75:2656:-239.285,-22.5773,0 1/1:46:0,46:0:0:46:1635:-147.438,-13.8474,0 0/1:32:20,12:20:712:12:428:-29.2258,0,-54.7737 0/1:91:47,44:47:1672:44:1580:-115.098,0,-123.374 0/1:83:31,52:31:1088:52:1847:-141.524,0,-73.241 1/1:74:1,73:1:36:73:2603:-230.921,-18.6779,0 1/1:103:0,103:0:0:103:3683:-331.673,-31.0061,0 chr01 26623675 . G A 8043.28 PASS AB=0.430579;ABP=53.6612;AC=15;AF=0.357143;AN=42;AO=531;CIGAR=1X;DP=1712;DPB=1712;DPRA=1.85222;EPP=1156.06;EPPR=2563.18;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9887;MQMR=59.9576;NS=21;NUMALT=1;ODDS=35.2656;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18819;QR=41359;RO=1179;RPL=531;RPP=1156.06;RPPR=2563.18;RPR=0;RUN=1;SAF=531;SAP=1156.06;SAR=0;SRF=1179;SRP=2563.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:44,34:44:1567:34:1209:-85.6338,0,-117.836 0/1:50:23,26:23:824:26:911:-67.3393,0,-59.5167 0/1:95:64,31:64:2264:31:1105:-71.1617,0,-175.423 0/1:48:20,28:20:704:28:989:-74.8734,0,-49.2351 0/1:114:71,43:71:2481:43:1529:-103.584,0,-189.224 0/1:45:30,15:30:1072:15:540:-35.3902,0,-83.2461 0/1:147:75,72:75:2584:72:2544:-184.957,0,-188.555 0/1:103:58,45:58:2044:45:1586:-112.023,0,-153.224 0/1:116:79,37:79:2773:37:1328:-84.9028,0,-214.663 0/1:72:27,45:27:948:45:1620:-124.416,0,-63.9471 0/1:65:39,26:39:1351:26:919:-63.4592,0,-102.318 0/1:61:35,26:35:1235:26:924:-65.1148,0,-93.0902 0/0:45:45,0:45:1585:0:0:0,-13.5463,-142.938 0/0:93:88,5:88:3107:5:180:0,-11.4437,-263.305 0/0:171:170,1:170:5969:1:36:0,-47.8779,-533.726 0/0:39:38,1:38:1309:1:32:0,-8.54086,-114.905 0/1:52:31,21:31:1103:21:733:-50.6361,0,-83.9262 0/1:121:66,55:66:2275:55:1939:-138.361,0,-168.582 0/1:43:26,17:26:917:17:591:-40.571,0,-69.9003 0/0:113:111,2:111:3923:2:68:0,-27.5587,-346.789 0/0:41:39,1:39:1324:1:36:0,-8.7828,-115.873 chr01 26623721 . ATTTCTG ATTTCTGAAAGTG 1656.21 PASS AB=0.361039;ABP=132.159;AC=12;AF=0.285714;AN=42;AO=280;CIGAR=5M6I2M;DP=1265;DPB=1505.86;DPRA=1.25208;EPP=611.023;EPPR=1994.25;GTI=1;LEN=6;MEANALT=2.07143;MQM=29.5607;MQMR=59.9138;NS=21;NUMALT=1;ODDS=7.81438;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8192;QR=32313;RO=917;RPL=0;RPP=611.023;RPPR=1994.25;RPR=280;RUN=1;SAF=0;SAP=611.023;SAR=280;SRF=0;SRP=1994.25;SRR=917;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:44,21:44:1550:21:627:-31.3207,0,-119.983 0/1:46:31,15:31:1108:15:413:-19.7101,0,-86.1794 0/1:28:9,15:9:313:15:450:-29.2037,0,-20.978 0/1:107:65,32:65:2287:32:931:-46.8326,0,-176.655 0/1:126:86,40:86:3024:40:1184:-58.405,0,-234.463 0/1:41:22,19:22:784:19:530:-30.5503,0,-58.5417 0/1:76:46,27:46:1620:27:755:-38.6838,0,-123.827 0/1:41:23,18:23:817:18:503:-28.3488,0,-61.5101 0/1:88:48,27:48:1682:27:838:-45.5072,0,-128.762 0/0:7:3,0:3:101:0:0:0,-0.90309,-9.12629 0/0:12:12,0:12:424:0:0:0,-3.61236,-38.4965 0/0:27:27,0:27:947:0:0:0,-8.12781,-85.5438 0/0:109:91,0:91:3208:0:0:0,-27.3937,-288.698 0/0:46:41,0:41:1425:0:0:0,-12.3422,-128.256 0/0:82:80,1:80:2827:1:30:0,-21.9842,-251.836 0/0:53:52,0:52:1824:0:0:0,-15.6536,-164.106 0/1:57:27,30:27:955:30:925:-58.8178,0,-69.1073 0/1:26:12,12:12:423:12:335:-19.7499,0,-30.9468 0/1:65:43,22:43:1512:22:643:-33.0605,0,-116.578 0/0:107:106,0:106:3765:0:0:0,-31.9092,-338.851 0/0:52:49,1:49:1717:1:28:0,-12.808,-152.302 chr01 26623771 . T C 2911.32 PASS AB=0.40799;ABP=63.7484;AC=12;AF=0.285714;AN=42;AO=339;CIGAR=1X;DP=1327;DPB=1327;DPRA=1.30299;EPP=739.139;EPPR=2148.43;GTI=0;LEN=1;MEANALT=1;MQM=29.4808;MQMR=57.7581;NS=21;NUMALT=1;ODDS=13.9696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12093;QR=35388;RO=988;RPL=339;RPP=739.139;RPPR=2148.43;RPR=0;RUN=1;SAF=0;SAP=739.139;SAR=339;SRF=0;SRP=2148.43;SRR=988;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:46,27:46:1641:27:968:-48.4473,0,-123.83 0/1:48:30,18:30:1080:18:648:-29.9899,0,-83.0576 0/1:28:13,15:13:468:15:540:-31.0488,0,-32.0183 0/1:111:75,36:75:2676:36:1292:-60.5209,0,-199.223 0/1:137:86,51:86:3084:51:1787:-89.0279,0,-236.547 0/1:45:22,23:22:792:23:824:-43.3697,0,-58.0593 0/1:86:49,37:49:1760:37:1313:-64.684,0,-131.185 0/1:46:23,23:23:828:23:824:-43.0686,0,-60.9967 0/1:95:61,34:61:2184:34:1220:-62.6276,0,-164.929 0/0:7:7,0:7:252:0:0:0,-2.10721,-17.9534 0/0:14:14,0:14:504:0:0:0,-4.21442,-42.6016 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.033 0/0:108:108,0:108:3849:0:0:0,-32.5112,-330.221 0/0:48:48,0:48:1709:0:0:0,-14.4494,-151.243 0/0:82:81,1:81:2896:1:36:0,-21.7817,-257.434 0/0:54:54,0:54:1936:0:0:0,-16.2556,-173.288 0/1:61:27,34:27:972:34:1205:-73.2642,0,-69.4351 0/1:29:14,15:14:504:15:540:-28.3215,0,-34.8149 0/1:67:43,24:43:1548:24:860:-42.3366,0,-118.953 0/0:109:109,0:109:3905:0:0:0,-32.8123,-350.453 0/0:51:50,1:50:1792:1:36:0,-12.6163,-157.418 chr01 26637174 . 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ATTTTTTTTTTGTTTGTGGTTAG ATTTTTTTTTGGTTTGTGGTTAG,ATTTTTTTTTTGGTTTGTGGTTAG 35390.8 PASS AB=0.458814,0.488838;ABP=22.149,4.41616;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1078,650;CIGAR=10M1X12M,11M1I12M;DP=1828;DPB=1857.57;DPRA=0,4.18571;EPP=2326.52,1405.79;EPPR=0;GTI=1;LEN=1,1;MEANALT=4.42857,4.83333;MQM=58.1048,59.9462;MQMR=0;NS=21;NUMALT=2;ODDS=3.80771;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38389,22906;QR=0;RO=0;RPL=2,1;RPP=2326.52,1405.79;RPPR=0;RPR=1076,649;RUN=1,1;SAF=1078,650;SAP=2343.86,1414.47;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:132:0,48,72:0:0:48,72:1697,2511:-342.326,-204.231,-189.782,-138.109,0,-116.435 1/2:90:0,35,51:0:0:35,51:1218,1797:-245.39,-146.355,-135.818,-99.0791,0,-83.7266 1/2:108:0,44,58:0:0:44,58:1580,2032:-294.2,-165.358,-152.112,-128.865,0,-111.405 1/2:153:0,87,57:0:0:87,57:3096,2015:-416.276,-164.119,-137.93,-252.166,0,-235.007 1/2:93:0,35,54:0:0:35,54:1256,1897:-256.846,-154.42,-143.884,-102.451,0,-86.1953 1/2:173:0,84,82:0:0:84,82:3012,2891:-481.065,-235.396,-210.109,-245.676,0,-220.991 1/2:88:0,38,45:0:0:38,45:1349,1577:-238.246,-128.329,-116.89,-109.926,0,-96.3794 1/2:80:0,22,56:0:0:22,56:773,2004:-226.404,-163.49,-156.867,-62.9776,0,-46.1199 1/2:182:0,84,87:0:0:84,87:3000,3051:-492.722,-248.294,-223.007,-244.446,0,-218.256 1/2:20:0,8,12:0:0:8,12:269,424:-56.669,-34.8841,-32.4758,-22.1279,0,-18.5155 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 1/1:153:0,142,6:0:0:142,6:5073,216:-456.01,-42.7463,0,-438.385,-25.0944,-436.579 1/1:119:0,108,4:0:0:108,4:3843,144:-345.398,-32.5112,0,-333.648,-20.7483,-332.444 1/1:76:0,68,1:0:0:68,1:2409,36:-216.46,-20.47,0,-213.523,-17.5298,-213.222 1/1:41:0,38,1:0:0:38,1:1364,36:-122.641,-11.4391,0,-119.726,-8.51493,-119.425 1/2:56:0,26,27:0:0:26,27:924,968:-154.222,-78.9699,-71.1431,-75.2681,0,-67.1403 1/2:54:0,35,15:0:0:35,15:1251,528:-144.979,-42.9754,-32.4393,-101.999,0,-97.4833 1/2:70:0,50,19:0:0:50,19:1776,671:-199.318,-54.6607,-39.6092,-144.675,0,-138.956 1/1:70:0,61,3:0:0:61,3:2175,108:-195.662,-18.3628,0,-186.849,-9.54357,-185.946 1/1:55:0,50,0:0:0:50,0:1788,0:-160.854,-15.0515,0,-160.854,-15.0515,-160.854 chr01 26760227 . TCTTCC TC 10718.1 PASS AB=0.479082;ABP=8.64265;AC=13;AF=0.309524;AN=42;AO=711;CIGAR=1M4D1M;DP=2167;DPB=1701.83;DPRA=1.27332;EPP=1546.93;EPPR=3127.76;GTI=0;LEN=4;MEANALT=1.28571;MQM=42.1716;MQMR=29.5441;NS=21;NUMALT=1;ODDS=10.2336;PAIRED=0;PAIREDR=0;PAO=0.333333;PQA=12;PQR=12;PRO=0.333333;QA=24832;QR=50536;RO=1439;RPL=2;RPP=1529.6;RPPR=2129.17;RPR=709;RUN=1;SAF=2;SAP=1529.6;SAR=709;SRF=126;SRP=2129.17;SRR=1313;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:149:65,83:65:2321:83:2917:-207.63,0,-113.805 0/1:80:32,48:32:1133:48:1651:-120.755,0,-52.0972 0/1:89:50,39:50:1728:39:1384:-92.395,0,-93.9604 0/1:82:37,45:37:1276:45:1523:-107.676,0,-63.817 0/1:209:113,96:113:3936:96:3359:-224.424,0,-206.35 0/1:77:41,36:41:1453:36:1284:-88.4117,0,-78.8773 0/1:120:41,79:41:1443:79:2774:-204.458,0,-64.2169 0/1:79:43,36:43:1516:36:1273:-88.9016,0,-76.785 0/1:208:94,102:94:3292:102:3550:-257.806,0,-202.104 0/1:28:11,17:11:388:17:600:-44.1992,0,-17.9499 0/0:14:14,0:14:497:0:0:0,-4.21442,-33.2064 0/0:35:35,0:35:1235:0:0:0,-10.536,-85.1321 0/0:127:127,0:127:4488:0:0:0,-38.2308,-306.636 0/0:99:99,0:99:3486:0:0:0,-29.802,-235.764 0/0:159:159,0:159:5573:0:0:0,-47.8638,-383.68 0/0:103:103,0:103:3576:0:0:0,-31.0061,-268.276 0/1:85:47,34:47:1642:34:1174:-80.2564,0,-103.046 0/1:154:89,65:89:3130:65:2285:-155.125,0,-164.646 0/1:122:92,30:92:3247:30:1022:-52.1807,0,-186.617 0/0:74:73,1:73:2560:1:36:0,-18.7401,-172.884 0/0:74:74,0:74:2616:0:0:0,-22.2762,-177.61 chr01 26760254 . TCCCTG TCCTG 11529.5 PASS AB=0.43821;ABP=49.7031;AC=29;AF=0.690476;AN=42;AO=1208;CIGAR=1M1D4M;DP=2007;DPB=1804.33;DPRA=0;EPP=2626.15;EPPR=1709.79;GTI=1;LEN=1;MEANALT=1.52381;MQM=27.9627;MQMR=42.0293;NS=21;NUMALT=1;ODDS=4.52043;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33653;QR=27764;RO=786;RPL=1208;RPP=2626.15;RPPR=1709.79;RPR=0;RUN=1;SAF=0;SAP=2626.15;SAR=1208;SRF=0;SRP=1709.79;SRR=786;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:95,58:95:3337:58:1624:-84.3833,0,-242.517 0/1:82:55,27:55:1941:27:756:-36.2988,0,-144.476 0/1:90:45,45:45:1573:45:1258:-74.3993,0,-107.893 0/1:83:50,32:50:1772:32:883:-46.4139,0,-128.221 0/1:210:104,101:104:3673:101:2818:-164.982,0,-252.623 0/1:81:41,39:41:1442:39:1112:-65.5562,0,-101.624 0/1:129:90,39:90:3194:39:1083:-48.5315,0,-237.483 0/1:77:41,35:41:1442:35:987:-56.8517,0,-104.853 0/1:139:105,33:105:3725:33:923:-32.5859,0,-290.797 0/1:29:20,9:20:710:9:252:-11.7645,0,-52.9839 1/1:12:0,12:0:0:12:336:-27.2425,-3.61236,0 1/1:31:0,31:0:0:31:851:-68.448,-9.33193,0 1/1:113:1,111:1:32:111:3097:-246.132,-30.8277,0 1/1:92:0,91:0:0:91:2512:-202.182,-27.3937,0 1/1:147:0,147:0:0:147:4076:-327.753,-44.2514,0 1/1:64:0,63:0:0:63:1753:-141.248,-18.9649,0 0/1:63:36,27:36:1274:27:749:-41.5866,0,-94.8389 0/1:153:69,84:69:2449:84:2335:-141.611,0,-169.52 0/1:118:30,88:30:1057:88:2456:-161.954,0,-55.4912 1/1:73:2,71:2:71:71:1972:-152.08,-15.3398,0 1/1:67:2,65:2:72:65:1820:-139.862,-13.3355,0 chr01 26760270 . T C 14619.4 PASS AB=0.458015;ABP=25.0731;AC=29;AF=0.690476;AN=42;AO=1284;CIGAR=1X;DP=2068;DPB=2068;DPRA=0;EPP=2791.18;EPPR=1705.44;GTI=1;LEN=1;MEANALT=1;MQM=27.4502;MQMR=41.9821;NS=21;NUMALT=1;ODDS=0.467194;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45864;QR=28104;RO=784;RPL=1284;RPP=2791.18;RPPR=1705.44;RPR=0;RUN=1;SAF=0;SAP=2791.18;SAR=1284;SRF=0;SRP=1705.44;SRR=784;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:94,60:94:3365:60:2148:-100.063,0,-243.891 0/1:87:55,32:55:1980:32:1148:-50.2583,0,-145.684 0/1:93:45,48:45:1612:48:1716:-90.3676,0,-109.905 0/1:85:50,35:50:1792:35:1256:-58.5945,0,-128.763 0/1:215:106,109:106:3808:109:3870:-195.584,0,-258.952 0/1:83:42,41:42:1478:41:1472:-77.5114,0,-103.09 0/1:129:90,39:90:3217:39:1396:-57.1973,0,-238.553 0/1:83:41,42:41:1472:42:1495:-72.8711,0,-105.157 0/1:142:106,36:106:3808:36:1288:-40.2999,0,-296.914 0/1:31:20,11:20:720:11:381:-16.5232,0,-53.1899 1/1:14:0,14:0:0:14:504:-33.3547,-4.21442,0 1/1:35:0,35:0:0:35:1237:-84.6775,-10.5361,0 1/1:120:1,119:1:36:119:4263:-282.617,-32.736,0 1/1:96:0,96:0:0:96:3425:-228.958,-28.8989,0 1/1:151:0,151:0:0:151:5382:-365.467,-45.4555,0 1/1:67:0,67:0:0:67:2385:-159.046,-20.169,0 0/1:64:36,28:36:1296:28:1008:-49.96,0,-96.4085 0/1:156:68,88:68:2444:88:3160:-163.221,0,-168.064 0/1:119:28,91:28:1004:91:3265:-185.588,0,-50.9735 1/1:73:2,71:2:72:71:2552:-166.187,-15.2566,0 1/1:71:0,71:0:0:71:2513:-170.668,-21.3731,0 chr01 26895702 . C T 5165.54 PASS AB=0.449376;ABP=19.0599;AC=13;AF=0.309524;AN=42;AO=325;CIGAR=1X;DP=960;DPB=960;DPRA=1.9;EPP=708.739;EPPR=1379.72;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.35247;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11633;QR=22585;RO=634;RPL=325;RPP=708.739;RPPR=1379.72;RPR=0;RUN=1;SAF=0;SAP=708.739;SAR=325;SRF=0;SRP=1379.72;SRR=634;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:22,19:22:792:19:684:-49.5481,0,-59.2634 0/1:58:26,32:26:928:32:1129:-84.4566,0,-66.3785 0/1:15:9,6:9:320:6:212:-14.9093,0,-24.6269 0/1:46:26,20:26:936:20:720:-51.2814,0,-70.7121 0/1:106:62,44:62:2190:44:1568:-109.502,0,-165.453 0/1:61:36,25:36:1288:25:900:-62.9582,0,-97.8608 0/1:75:42,33:42:1500:33:1184:-84.2911,0,-112.717 0/1:27:17,10:17:608:10:360:-24.6165,0,-46.9242 0/1:49:29,20:29:1025:20:712:-49.6562,0,-77.8102 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 0/0:39:38,0:38:1356:0:0:0,-11.4391,-121.981 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 0/0:28:28,0:28:981:0:0:0,-8.42884,-88.601 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/1:33:21,12:21:756:12:432:-29.2872,0,-58.4332 0/1:87:42,45:42:1479:45:1612:-119.18,0,-107.214 0/1:116:64,52:64:2266:52:1872:-133.84,0,-169.282 0/0:39:38,1:38:1360:1:36:0,-8.14189,-119.102 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 chr01 27100849 . TAC TAA,CAA 25780.2 PASS AB=0.563859,0.433424;ABP=29.0798,31.3457;AC=29,13;AF=0.690476,0.309524;AN=42;AO=925,320;CIGAR=2M1X,1X1M1X;DP=1247;DPB=1247;DPRA=0,0.973995;EPP=2011.62,697.881;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.7619,2.14286;MQM=56.1632,42.3344;MQMR=0;NS=21;NUMALT=2;ODDS=0.424416;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32961,11208;QR=0;RO=0;RPL=0,0;RPP=2011.62,697.881;RPPR=0;RPR=925,320;RUN=1,1;SAF=0,0;SAP=2011.62,697.881;SAR=925,320;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,28,15:0:0:28,15:999,513:-121.919,-40.9066,-32.4778,-81.354,0,-76.8386 1/2:30:0,13,17:0:0:13,17:468,594:-85.7442,-47.5786,-43.6652,-38.5176,0,-33.4001 1/2:83:0,35,48:0:0:35,48:1237,1667:-232.879,-132.29,-121.754,-100.936,0,-86.4865 1/2:84:0,45,39:0:0:45,39:1603,1392:-240.512,-109.978,-96.4318,-130.884,0,-119.144 1/2:91:0,52,39:0:0:52,39:1841,1375:-257.656,-108.164,-92.5104,-149.838,0,-138.098 1/2:43:0,24,19:0:0:24,19:864,655:-122.871,-52.419,-45.1943,-70.7996,0,-65.0801 1/2:73:0,44,29:0:0:44,29:1575,1028:-210.524,-82.1763,-68.931,-128.699,0,-119.969 1/2:50:0,28,22:0:0:28,22:992,745:-139.132,-58.9228,-50.494,-80.548,0,-73.9254 1/2:113:0,73,39:0:0:73,39:2616,1376:-322.888,-109.616,-87.6408,-213.411,0,-201.671 1/2:5:0,3,2:0:0:3,2:108,72:-14.9,-6.08786,-5.18477,-9.16729,0,-8.56523 1/1:7:0,7,0:0:0:7,0:248,0:-22.5886,-2.10721,0,-22.5886,-2.10721,-22.5886 1/1:13:0,13,0:0:0:13,0:468,0:-42.441,-3.91339,0,-42.441,-3.91339,-42.441 1/1:107:0,107,0:0:0:107,0:3809,0:-342.131,-32.2102,0,-342.131,-32.2102,-342.131 1/1:94:0,94,0:0:0:94,0:3354,0:-301.528,-28.2968,0,-301.528,-28.2968,-301.528 1/1:123:0,123,0:0:0:123,0:4382,0:-393.855,-37.0267,0,-393.855,-37.0267,-393.855 1/1:88:0,87,1:0:0:87,1:3093,36:-278.052,-26.1896,0,-275.17,-22.9545,-274.869 1/2:37:0,27,10:0:0:27,10:963,344:-105.957,-27.5203,-19.3925,-78.7782,0,-75.7679 1/2:52:0,20,32:0:0:20,32:716,1123:-147.883,-89.6954,-83.6748,-58.5394,0,-48.9064 1/2:32:0,23,8:0:0:23,8:828,288:-90.24,-22.8112,-15.8875,-67.4309,0,-65.0227 1/1:43:0,43,0:0:0:43,0:1531,0:-137.801,-12.9443,0,-137.801,-12.9443,-137.801 1/1:36:0,36,0:0:0:36,0:1266,0:-114.177,-10.8371,0,-114.177,-10.8371,-114.177 chr01 27408652 . A T 75102.7 PASS AB=0.481408;ABP=7.53204;AC=33;AF=0.785714;AN=42;AO=2787;CIGAR=1X;DP=3593;DPB=3593;DPRA=0;EPP=6054.9;EPPR=1740.19;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.962;MQMR=59.9963;NS=21;NUMALT=1;ODDS=13.2645;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99096;QR=28226;RO=800;RPL=1644;RPP=198.576;RPPR=48.8827;RPR=1143;RUN=1;SAF=1644;SAP=198.576;SAR=1143;SRF=465;SRP=48.8827;SRR=335;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:237:2,235:2:72:235:8389:-748.179,-64.5074,0 1/1:189:0,189:0:0:189:6684:-601.64,-56.8947,0 1/1:112:4,108:4:144:108:3849:-333.292,-20.4017,0 0/1:195:112,83:112:3949:83:2956:-207.568,0,-296.902 0/1:326:168,158:168:5951:158:5596:-405.591,0,-437.567 0/1:101:57,44:57:2027:44:1557:-110.016,0,-152.298 0/1:243:131,112:131:4639:112:3973:-284.607,0,-344.523 0/1:266:133,133:133:4692:133:4737:-346.416,0,-342.369 1/1:361:5,355:5:180:355:12711:-1127.21,-92.1786,0 1/1:22:1,21:1:36:21:724:-61.8785,-3.02439,0 0/1:13:5,8:5:176:8:280:-21.6259,0,-12.2716 0/1:81:39,42:39:1367:42:1499:-110.821,0,-98.9443 1/1:156:0,156:0:0:156:5565:-500.969,-46.9607,0 1/1:159:3,156:3:108:156:5519:-486.761,-37.7886,0 1/1:335:0,332:0:0:332:11769:-1058.72,-99.942,0 1/1:164:0,164:0:0:164:5813:-523.285,-49.3689,0 1/1:135:2,131:2:68:131:4660:-413.087,-33.9291,0 0/1:182:92,90:92:3217:90:3212:-234.516,0,-234.969 0/1:99:44,55:44:1528:55:1939:-144.984,0,-108.007 1/1:144:2,142:2:72:142:5057:-448.433,-36.5116,0 1/1:73:0,73:0:0:73:2607:-234.874,-21.9752,0 chr01 27456164 . GAGG GAGA,TAGA 36411 PASS AB=0.49373,0.501567;ABP=3.22813,3.02391;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1019,322;CIGAR=3M1X,1X2M1X;DP=1346;DPB=1346.25;DPRA=0,1.14055;EPP=39.5801,5.70778;EPPR=3.0103;GTI=0;LEN=1,4;MEANALT=1.66667,2.18182;MQM=59.9696,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.55729;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=36047,11344;QR=72;RO=2;RPL=4,0;RPP=2181.13,702.224;RPPR=7.35324;RPR=1015,322;RUN=1,1;SAF=579,171;SAP=44.183,5.70778;SAR=440,151;SRF=1;SRP=3.0103;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:0,63,0:0:0:63,0:2239,0:-201.414,-18.9649,0,-201.414,-18.9649,-201.414 1/1:53:0,52,1:0:0:52,1:1826,36:-164.257,-15.6536,0,-161.32,-12.3563,-161.018 1/1:38:0,38,0:0:0:38,0:1333,0:-120.268,-11.4391,0,-120.268,-11.4391,-120.268 1/2:62:0,22,40:0:0:22,40:769,1409:-177.251,-115.066,-108.443,-62.5345,0,-50.4933 1/2:117:0,52,63:0:0:52,63:1857,2206:-330.924,-179.523,-163.869,-151.438,0,-132.473 1/2:47:1,23,23:1:36:23,23:824,810:-129.903,-62.9993,-59.0134,-64.2624,0,-60.2762 1/2:95:0,55,40:0:0:55,40:1946,1382:-271.14,-112.633,-96.0766,-158.856,0,-146.814 1/2:54:0,25,29:0:0:25,29:862,1025:-153.85,-83.8329,-76.3072,-70.3658,0,-61.636 1/1:90:0,90,0:0:0:90,0:3140,0:-282.824,-27.0927,0,-282.824,-27.0927,-282.824 1/1:12:0,12,0:0:0:12,0:428,0:-38.8588,-3.61236,0,-38.8588,-3.61236,-38.8588 1/2:8:0,5,3:0:0:5,3:176,107:-23.4042,-9.07908,-7.57393,-14.6799,0,-13.7768 1/2:25:0,9,16:0:0:9,16:309,561:-71.0878,-46.0021,-43.2929,-25.4314,0,-20.615 1/1:58:0,58,0:0:0:58,0:2084,0:-187.771,-17.4597,0,-187.771,-17.4597,-187.771 1/1:58:0,57,1:0:0:57,1:2022,36:-181.892,-17.1587,0,-178.955,-13.8615,-178.654 1/1:122:0,122,0:0:0:122,0:4311,0:-388.17,-36.7257,0,-388.17,-36.7257,-388.17 1/1:37:0,37,0:0:0:37,0:1305,0:-117.749,-11.1381,0,-117.749,-11.1381,-117.749 1/1:33:0,33,0:0:0:33,0:1157,0:-104.434,-9.93399,0,-104.434,-9.93399,-104.434 1/2:129:0,62,67:0:0:62,67:2210,2389:-375.244,-195.1,-176.436,-180.5,0,-160.331 1/2:101:0,62,39:0:0:62,39:2204,1383:-292.635,-113.028,-94.3643,-179.962,0,-168.222 1/1:46:0,46,0:0:0:46,0:1618,0:-145.906,-13.8474,0,-145.906,-13.8474,-145.906 1/1:97:1,96,0:1:36:96,0:3427,0:-305.046,-25.6016,0,-305.347,-28.8989,-308.284 chr01 27487698 . G A 4681.36 PASS AB=0.584783;ABP=31.7304;AC=9;AF=0.214286;AN=42;AO=269;CIGAR=1X;DP=959;DPB=959;DPRA=1.22912;EPP=587.136;EPPR=1499.15;GTI=0;LEN=1;MEANALT=1.11111;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.31029;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9645;QR=24656;RO=689;RPL=0;RPP=587.136;RPPR=1499.15;RPR=269;RUN=1;SAF=269;SAP=587.136;SAR=0;SRF=689;SRP=1499.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:52,0:52:1845:0:0:0,-15.6536,-166.328 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/1:40:19,20:19:680:20:716:-52.6678,0,-49.4293 0/1:113:48,65:48:1709:65:2336:-176.483,0,-120.077 0/1:41:17,24:17:612:24:860:-65.3796,0,-43.0712 0/1:101:25,76:25:892:76:2717:-214.368,0,-50.1957 0/1:33:16,17:16:576:17:612:-45.4794,0,-42.241 0/0:75:75,0:75:2666:0:0:0,-22.5772,-240.183 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:22:7,15:7:252:15:536:-41.9522,0,-16.4063 0/0:75:75,0:75:2688:0:0:0,-22.5772,-242.165 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/0:61:61,0:61:2192:0:0:0,-18.3628,-197.545 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/1:70:35,35:35:1256:35:1256:-92.2732,0,-92.2732 0/1:34:20,14:20:716:14:504:-35.4631,0,-54.5327 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 chr01 27487719 . T C 14179.4 PASS AB=0.415011;ABP=31.4312;AC=33;AF=0.785714;AN=42;AO=679;CIGAR=1X;DP=945;DPB=945;DPRA=0;EPP=1477.44;EPPR=578.45;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.424016;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24251;QR=9484;RO=265;RPL=679;RPP=1477.44;RPPR=578.45;RPR=0;RUN=1;SAF=679;SAP=1477.44;SAR=0;SRF=265;SRP=578.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:0,49:0:0:49:1759:-158.594,-14.7505,0 1/1:62:0,62:0:0:62:2217:-199.794,-18.6639,0 1/1:24:0,23:0:0:23:828:-74.4843,-6.92369,0 0/1:39:19,20:19:684:20:705:-52.0326,0,-50.1502 0/1:111:65,46:65:2336:46:1624:-113.031,0,-177.085 0/1:40:24,16:24:860:16:567:-39.3195,0,-65.6806 0/1:100:75,25:75:2669:25:896:-50.8574,0,-210.351 0/1:33:17,16:17:599:16:576:-42.241,0,-44.3041 1/1:75:0,75:0:0:75:2696:-242.884,-22.5773,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:22:15,7:15:540:7:248:-16.0415,0,-42.3139 1/1:73:0,73:0:0:73:2616:-235.688,-21.9752,0 1/1:35:0,35:0:0:35:1244:-112.265,-10.5361,0 1/1:62:0,62:0:0:62:2192:-197.544,-18.6639,0 1/1:23:0,23:0:0:23:820:-74.1225,-6.92369,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 0/1:69:33,36:33:1184:36:1288:-95.4525,0,-86.0972 0/1:33:14,19:14:504:19:684:-51.9563,0,-35.7641 1/1:27:0,27:0:0:27:959:-86.6254,-8.12781,0 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 chr01 27488401 . TGAC CGAC,CGAT 54143 PASS AB=0.517588,0.475377;ABP=5.68372,8.2502;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2024,478;CIGAR=1X3M,1X2M1X;DP=2520;DPB=2521.25;DPRA=0,0.854414;EPP=4389.39,1040.97;EPPR=13.8677;GTI=0;LEN=1,4;MEANALT=2.14286,2.58333;MQM=59.9812,59.8891;MQMR=60;NS=21;NUMALT=2;ODDS=27.4114;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=88,88;PQR=0;PRO=0;QA=72162,16803;QR=169;RO=5;RPL=2023,478;RPP=4389.39,1040.97;RPPR=13.8677;RPR=1,0;RUN=1,1;SAF=2024,478;SAP=4398.07,1040.97;SAR=0,0;SRF=5;SRP=13.8677;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:224:0,223,0:0:0:223,0:7932,0:-713.506,-67.1297,0,-713.506,-67.1297,-713.506 1/1:116:1,112,2:1:36:112,2:3987,72:-355.42,-30.7779,0,-349.846,-27.8405,-352.182 1/1:119:0,115,2:0:0:115,2:4092,72:-368.125,-34.6185,0,-362.25,-28.7237,-361.648 1/2:156:0,80,76:0:0:80,76:2868,2709:-455.093,-221.176,-197.093,-234.275,0,-211.396 1/2:145:0,74,69:0:0:74,69:2624,2422:-410.882,-197.105,-174.829,-213.77,0,-192.999 1/2:110:0,43,66:0:0:43,66:1528,2298:-311.336,-186.82,-173.875,-124.509,0,-104.641 1/2:179:1,93,85:1:25:93,85:3321,2986:-511.643,-241.187,-215.138,-268.912,0,-245.272 1/2:121:0,56,65:0:0:56,65:1980,2291:-348.058,-186.797,-169.939,-161.614,0,-142.047 1/1:197:2,195,0:2:72:195,0:6984,0:-621.754,-52.4963,0,-622.356,-58.7009,-628.231 1/1:22:0,22,0:0:0:22,0:783,0:-70.7929,-6.62266,0,-70.7929,-6.62266,-70.7929 1/2:21:0,11,9:0:0:11,9:396,324:-58.8054,-26.4906,-23.1793,-32.3665,0,-29.6572 1/2:64:1,39,24:1:36:39,24:1396,833:-178.309,-64.7624,-55.9602,-110.902,0,-106.614 1/1:248:0,248,0:0:0:248,0:8840,0:-795.526,-74.6554,0,-795.526,-74.6554,-795.526 1/1:118:0,118,0:0:0:118,0:4174,0:-375.843,-35.5215,0,-375.843,-35.5215,-375.843 1/1:119:0,117,0:0:0:117,0:4172,0:-375.367,-35.2205,0,-375.367,-35.2205,-375.367 1/1:74:0,73,0:0:0:73,0:2624,0:-236.047,-21.9752,0,-236.047,-21.9752,-236.047 1/1:112:0,111,1:0:0:111,1:3965,36:-356.68,-33.4143,0,-353.743,-30.1171,-353.442 1/2:98:0,50,48:0:0:50,48:1787,1679:-282.592,-136.886,-121.834,-146.001,0,-131.552 1/2:101:0,69,31:0:0:69,31:2476,1081:-289.875,-87.9044,-67.1333,-201.963,0,-192.631 1/1:121:0,121,0:0:0:121,0:4306,0:-387.687,-36.4246,0,-387.687,-36.4246,-387.687 1/1:55:0,54,0:0:0:54,0:1927,0:-173.435,-16.2556,0,-173.435,-16.2556,-173.435 chr01 27488443 . A G 5629.94 PASS AB=0.450798;ABP=18.8228;AC=9;AF=0.214286;AN=42;AO=343;CIGAR=1X;DP=2030;DPB=2030;DPRA=1.05605;EPP=696.622;EPPR=3569.19;GTI=0;LEN=1;MEANALT=1;MQM=59.9592;MQMR=59.9834;NS=21;NUMALT=1;ODDS=8.43128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12264;QR=60400;RO=1686;RPL=337;RPP=696.622;RPPR=3569.19;RPR=6;RUN=1;SAF=0;SAP=747.825;SAR=343;SRF=0;SRP=3664.11;SRR=1686;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:180:179,1:179:6412:1:36:0,-50.5871,-573.557 0/0:54:54,0:54:1931:0:0:0,-16.2556,-174.066 0/0:91:91,0:91:3245:0:0:0,-27.3937,-292.27 0/1:80:38,42:38:1360:42:1504:-111.572,0,-98.612 0/1:195:108,87:108:3872:87:3112:-221.606,0,-289.974 0/1:85:56,29:56:2012:29:1031:-67.4792,0,-155.766 0/1:86:40,46:40:1440:46:1629:-121.008,0,-104.009 0/1:94:50,44:50:1788:44:1576:-113.835,0,-132.906 0/0:164:163,1:163:5844:1:36:0,-45.7706,-522.473 0/0:22:21,0:21:737:0:0:0,-6.32163,-66.3674 0/1:21:14,7:14:504:7:252:-16.7073,0,-39.3765 0/1:9:4,5:4:144:5:176:-13.4757,0,-10.6043 0/0:139:139,0:139:4965:0:0:0,-41.8432,-446.998 0/0:118:118,0:118:4224:0:0:0,-35.5215,-380.34 0/0:233:233,0:233:8330:0:0:0,-70.14,-749.705 0/0:72:72,0:72:2592:0:0:0,-21.6742,-233.528 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.324 0/1:99:50,49:50:1800:49:1760:-128.882,0,-132.48 0/1:83:53,30:53:1908:30:1080:-72.5278,0,-147.012 0/0:91:89,2:89:3200:2:72:0,-20.557,-281.385 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.499 chr01 27488465 . G A 36356.7 PASS AB=0.544118;ABP=15.6559;AC=33;AF=0.785714;AN=42;AO=1676;CIGAR=1X;DP=2019;DPB=2019;DPRA=0;EPP=3642.4;EPPR=747.825;GTI=0;LEN=1;MEANALT=1;MQM=59.9851;MQMR=59.9738;NS=21;NUMALT=1;ODDS=8.73633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59962;QR=12268;RO=343;RPL=1676;RPP=3642.4;RPPR=747.825;RPR=0;RUN=1;SAF=0;SAP=3642.4;SAR=1676;SRF=0;SRP=747.825;SRR=343;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:0,172:0:0:172:6118:-550.716,-51.7772,0 1/1:52:0,52:0:0:52:1868:-168.399,-15.6536,0 1/1:93:0,93:0:0:93:3344:-301.176,-27.9958,0 0/1:80:42,38:42:1508:38:1368:-99.3322,0,-111.932 0/1:198:91,107:91:3252:107:3843:-286.458,0,-233.298 0/1:83:27,56:27:964:56:1984:-153.847,0,-62.0913 0/1:84:44,40:44:1584:40:1428:-103.531,0,-117.565 0/1:92:44,48:44:1568:48:1701:-125.681,0,-113.717 1/1:166:0,166:0:0:166:5949:-535.517,-49.971,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 0/1:20:7,13:7:252:13:468:-36.439,0,-17.0084 0/1:9:5,4:5:176:4:144:-10.6043,0,-13.4757 1/1:140:0,140:0:0:140:5009:-450.956,-42.1442,0 1/1:116:0,116:0:0:116:4151:-373.773,-34.9195,0 1/1:232:0,232:0:0:232:8308:-747.728,-69.839,0 1/1:72:0,72:0:0:72:2584:-232.809,-21.6742,0 1/1:50:0,50:0:0:50:1792:-161.562,-15.0515,0 0/1:99:50,49:50:1796:49:1760:-128.882,0,-132.11 0/1:83:31,52:31:1096:52:1868:-143.414,0,-73.9644 1/1:88:2,86:2:72:86:3069:-269.603,-19.6539,0 1/1:68:0,68:0:0:68:2418:-217.875,-20.47,0 chr01 27521516 . A G 6461.42 PASS AB=0.475369;ABP=7.28906;AC=9;AF=0.214286;AN=42;AO=388;CIGAR=1X;DP=2301;DPB=2301;DPRA=0.690158;EPP=794.232;EPPR=3816.87;GTI=0;LEN=1;MEANALT=1;MQM=59.9794;MQMR=59.9843;NS=21;NUMALT=1;ODDS=11.6454;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13780;QR=68459;RO=1913;RPL=382;RPP=794.232;RPPR=3816.87;RPR=6;RUN=1;SAF=0;SAP=845.542;SAR=388;SRF=0;SRP=4157.04;SRR=1913;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:70,1:70:2497:1:27:0,-18.6733,-222.281 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/0:110:110,0:110:3940:0:0:0,-33.1133,-354.792 0/1:80:47,33:47:1676:33:1176:-82.0654,0,-127.045 0/1:144:63,81:63:2264:81:2883:-216.359,0,-160.674 0/1:76:34,42:34:1216:42:1508:-113.128,0,-86.8683 0/1:152:86,66:86:3088:66:2352:-166.183,0,-232.391 0/1:96:44,52:44:1576:52:1842:-137.16,0,-113.233 0/0:197:197,0:197:7041:0:0:0,-59.3029,-633.75 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:9:3,6:3:108:6:207:-16.2576,0,-7.3659 0/1:30:15,15:15:540:15:532:-39.1822,0,-39.9056 0/0:122:122,0:122:4384:0:0:0,-36.7257,-394.732 0/0:110:109,1:109:3891:1:36:0,-29.515,-346.296 0/0:547:547,0:547:19570:0:0:0,-164.663,-1760.83 0/0:73:73,0:73:2616:0:0:0,-21.9752,-235.688 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/1:140:81,59:81:2888:59:2080:-145.324,0,-218.01 0/1:85:53,32:53:1908:32:1137:-77.0494,0,-146.41 0/0:95:95,0:95:3385:0:0:0,-28.5978,-304.865 0/0:57:57,0:57:2039:0:0:0,-17.1587,-183.781 chr01 27564581 . A G 12875.3 PASS AB=0.498818;ABP=3.01543;AC=33;AF=0.785714;AN=42;AO=629;CIGAR=1X;DP=844;DPB=844;DPRA=0;EPP=1368.87;EPPR=467.705;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9682;MQMR=60;NS=21;NUMALT=1;ODDS=5.16269;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22214;QR=7614;RO=214;RPL=0;RPP=1368.87;RPPR=467.705;RPR=629;RUN=1;SAF=0;SAP=1368.87;SAR=629;SRF=0;SRP=467.705;SRR=214;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39:0:0:39:1362:-122.874,-11.7402,0 1/1:28:0,28:0:0:28:981:-88.5982,-8.42884,0 1/1:33:0,33:0:0:33:1180:-106.508,-9.93399,0 0/1:33:14,19:14:495:19:672:-50.8728,0,-34.949 0/1:64:41,23:41:1463:23:819:-54.7656,0,-112.699 0/1:18:13,5:13:464:5:180:-11.1335,0,-36.679 0/1:66:29,37:29:1036:37:1268:-94.5404,0,-73.6859 0/1:49:29,20:29:1035:20:716:-50.0172,0,-78.7126 1/1:45:0,45:0:0:45:1570:-141.586,-13.5464,0 1/1:8:0,8:0:0:8:265:-24.1721,-2.40824,0 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:33:15,18:15:532:18:644:-48.3566,0,-38.2791 1/1:34:0,33:0:0:33:1165:-104.795,-9.93399,0 1/1:36:2,34:2:68:34:1176:-99.6835,-4.37937,0 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 1/1:20:0,20:0:0:20:707:-63.9546,-6.0206,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 0/1:88:40,48:40:1424:48:1711:-127.784,0,-101.967 0/1:66:27,39:27:953:39:1372:-103.908,0,-66.2153 1/1:46:0,46:0:0:46:1644:-148.249,-13.8474,0 1/1:43:0,43:0:0:43:1522:-137.272,-12.9443,0 chr01 27564589 . C T 13118.8 PASS AB=0.502381;ABP=3.03098;AC=33;AF=0.785714;AN=42;AO=629;CIGAR=1X;DP=839;DPB=839;DPRA=0;EPP=1368.87;EPPR=459.02;GTI=0;LEN=1;MEANALT=1;MQM=59.9714;MQMR=60;NS=21;NUMALT=1;ODDS=5.47877;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22446;QR=7513;RO=210;RPL=0;RPP=1368.87;RPPR=459.02;RPR=629;RUN=1;SAF=0;SAP=1368.87;SAR=629;SRF=0;SRP=459.02;SRR=210;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39:0:0:39:1384:-124.859,-11.7402,0 1/1:26:0,26:0:0:26:928:-83.8206,-7.82678,0 1/1:33:0,33:0:0:33:1153:-104.074,-9.93399,0 0/1:33:14,19:14:504:19:680:-51.5952,0,-35.7641 0/1:64:40,24:40:1436:24:864:-58.8166,0,-110.272 0/1:17:13,4:13:468:4:144:-8.19611,0,-37.3421 0/1:65:28,37:28:1004:37:1297:-97.456,0,-71.1089 0/1:48:28,20:28:1008:20:712:-49.9572,0,-76.5869 1/1:45:0,45:0:0:45:1612:-145.37,-13.5464,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:33:15,18:15:540:18:648:-48.7179,0,-39.0025 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 1/1:36:1,35:1:36:35:1252:-109.387,-7.23881,0 1/1:64:0,64:0:0:64:2276:-205.103,-19.2659,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 0/1:89:41,48:41:1441:48:1720:-128.294,0,-103.192 0/1:65:26,39:26:932:39:1404:-107.092,0,-64.6319 1/1:45:0,45:0:0:45:1608:-145.01,-13.5464,0 1/1:44:0,44:0:0:44:1572:-141.772,-13.2453,0 chr01 27570187 . TGTC CGTT,CGTC 21040.7 PASS AB=0.69697,0.30303;ABP=136.457,136.457;AC=34,8;AF=0.809524,0.190476;AN=42;AO=724,122;CIGAR=1X2M1X,1X3M;DP=846;DPB=846;DPRA=0,1.77222;EPP=752.828,21.2364;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.47619,2;MQM=59.9862,60;MQMR=0;NS=21;NUMALT=2;ODDS=14.9784;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25304,4360;QR=0;RO=0;RPL=0,0;RPP=1575.16,267.93;RPPR=0;RPR=724,122;RUN=1,1;SAF=612,77;SAP=752.828,21.2364;SAR=112,45;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32,0:0:0:32,0:1128,0:-101.828,-9.63296,0,-101.828,-9.63296,-101.828 1/1:7:0,7,0:0:0:7,0:251,0:-22.9379,-2.10721,0,-22.9379,-2.10721,-22.9379 1/1:12:0,12,0:0:0:12,0:421,0:-38.2245,-3.61236,0,-38.2245,-3.61236,-38.2245 1/2:27:0,15,12:0:0:15,12:523,424:-77.4167,-34.8841,-30.3686,-42.8837,0,-39.2714 1/2:46:0,24,22:0:0:24,22:848,792:-134.04,-64.983,-57.7583,-69.4136,0,-62.791 1/2:19:0,9,10:0:0:9,10:306,356:-54.1828,-29.3709,-26.6617,-25.1593,0,-22.149 1/2:33:0,16,17:0:0:16,17:568,612:-96.574,-50.2959,-45.4794,-46.6353,0,-41.5178 1/2:28:0,15,13:0:0:15,13:523,468:-81.0753,-38.5463,-34.0308,-42.8837,0,-38.9703 1/1:45:0,45,0:0:0:45,0:1605,0:-144.741,-13.5464,0,-144.741,-13.5464,-144.741 1/1:53:0,53,0:0:0:53,0:1862,0:-167.858,-15.9546,0,-167.858,-15.9546,-167.858 1/1:99:0,98,1:0:0:98,1:3463,36:-311.525,-29.5009,0,-308.588,-26.2037,-308.287 1/2:30:0,22,8:0:0:22,8:783,288:-87.6712,-23.8592,-17.2365,-64.1707,0,-61.7625 1/1:35:0,35,0:0:0:35,0:1229,0:-110.912,-10.5361,0,-110.912,-10.5361,-110.912 1/1:27:0,26,1:0:0:26,1:868,36:-78.0652,-7.82678,0,-75.1268,-4.52954,-74.8258 1/1:48:0,48,0:0:0:48,0:1659,0:-149.594,-14.4494,0,-149.594,-14.4494,-149.594 1/1:24:0,24,0:0:0:24,0:842,0:-76.0971,-7.22472,0,-76.0971,-7.22472,-76.0971 1/1:16:0,16,0:0:0:16,0:559,0:-50.6376,-4.81648,0,-50.6376,-4.81648,-50.6376 1/2:146:0,121,25:0:0:121,25:4231,888:-416.909,-72.7133,-36.2886,-344.55,0,-337.024 1/2:67:0,54,13:0:0:54,13:1822,460:-185.458,-37.822,-21.5664,-147.986,0,-144.073 1/1:24:0,24,0:0:0:24,0:833,0:-75.2853,-7.22472,0,-75.2853,-7.22472,-75.2853 1/1:28:0,28,0:0:0:28,0:980,0:-88.5126,-8.42884,0,-88.5126,-8.42884,-88.5126 chr01 27570208 . T C 21807.1 PASS AB=0.702576;ABP=155.212;AC=34;AF=0.809524;AN=42;AO=833;CIGAR=1X;DP=966;DPB=966;DPRA=0;EPP=409.738;EPPR=20.1148;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.988;MQMR=60;NS=21;NUMALT=1;ODDS=21.6845;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29718;QR=4660;RO=130;RPL=0;RPP=1811.85;RPPR=285.302;RPR=833;RUN=1;SAF=614;SAP=409.738;SAR=219;SRF=81;SRP=20.1148;SRR=49;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32:0:0:32:1129:-101.917,-9.63296,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:26:11,15:11:388:15:518:-39.1188,0,-27.4306 0/1:49:24,24:24:864:24:840:-61.1066,0,-63.2733 0/1:27:12,15:12:432:15:540:-40.8087,0,-31.0934 0/1:52:20,32:20:712:32:1140:-87.2556,0,-48.7531 0/1:28:13,15:13:464:15:532:-39.7842,0,-33.6687 1/1:61:0,61:0:0:61:2188:-197.186,-18.3628,0 1/1:52:0,52:0:0:52:1852:-166.96,-15.6536,0 1/1:98:2,96:2:72:96:3427:-301.807,-22.6642,0 0/1:30:8,22:8:288:22:784:-61.853,0,-17.2365 1/1:38:0,38:0:0:38:1368:-123.421,-11.4391,0 1/1:27:1,26:1:36:26:932:-80.6006,-4.52954,0 1/1:47:0,47:0:0:47:1688:-152.207,-14.1484,0 1/1:29:0,28:0:0:28:1008:-90.6765,-8.42884,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:149:25,124:25:900:124:4434:-354.378,0,-36.4675 0/1:66:13,53:13:468:53:1873:-148.965,0,-22.5917 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 1/1:78:1,76:1:36:76:2705:-240.164,-19.8709,0 chr01 27599680 . CAGAA TAGAA,GAGAA 36799 PASS AB=0.624113,0.368794;ABP=97.3384,108.427;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1443,260;CIGAR=1X4M,1X4M;DP=1719;DPB=1719.6;DPRA=0,0.927022;EPP=3136.44,567.593;EPPR=13.8677;GTI=2;LEN=1,1;MEANALT=1.80952,2.55556;MQM=59.4581,59.7308;MQMR=60;NS=21;NUMALT=2;ODDS=6.8307;PAIRED=0,0;PAIREDR=0;PAO=1.5,0;PQA=50,0;PQR=0;PRO=0;QA=51392,9224;QR=177;RO=5;RPL=1443,260;RPP=3136.44,567.593;RPPR=13.8677;RPR=0,0;RUN=1,1;SAF=1443,260;SAP=3136.44,567.593;SAR=0,0;SRF=5;SRP=13.8677;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,70,0:0:0:70,0:2502,0:-225.122,-21.0721,0,-225.122,-21.0721,-225.122 1/1:63:0,63,0:0:0:63,0:2250,0:-202.418,-18.9649,0,-202.418,-18.9649,-202.418 1/1:44:0,44,0:0:0:44,0:1580,0:-142.425,-13.2453,0,-142.425,-13.2453,-142.425 1/2:78:0,49,27:0:0:49,27:1748,960:-220.721,-78.2278,-63.4773,-142.49,0,-134.362 1/2:203:0,122,79:0:0:122,79:4325,2800:-580.506,-228.174,-191.448,-352.434,0,-328.652 1/2:45:0,21,24:0:0:21,24:737,860:-130.45,-70.4925,-64.1709,-60.3115,0,-53.0867 1/2:131:0,95,36:0:0:95,36:3380,1281:-379.894,-104.485,-75.8875,-275.764,0,-264.927 1/2:61:0,36,25:0:0:36,25:1262,860:-172.88,-70.1859,-59.3488,-103.041,0,-95.5149 1/1:200:0,200,0:0:0:200,0:7129,0:-641.445,-60.206,0,-641.445,-60.206,-641.445 1/1:4:0,4,0:0:0:4,0:140,0:-12.9412,-1.20412,0,-12.9412,-1.20412,-12.9412 1/2:4:0,3,1:0:0:3,1:108,36:-12.1086,-3.29724,-2.39415,-9.17114,0,-8.87011 1/2:28:0,24,4:0:0:24,4:864,131:-81.4352,-10.9094,-3.68463,-70.8578,0,-69.6537 1/1:75:0,75,0:0:0:75,0:2666,0:-240.176,-22.5773,0,-240.176,-22.5773,-240.176 1/1:125:0,124,0:0:0:124,0:4408,0:-396.517,-37.3277,0,-396.517,-37.3277,-396.517 1/1:131:0,131,0:0:0:131,0:4663,0:-419.712,-39.4349,0,-419.712,-39.4349,-419.712 1/1:111:0,111,0:0:0:111,0:3980,0:-358.261,-33.4143,0,-358.261,-33.4143,-358.261 1/1:86:5,81,0:5:177:81,0:2891,0:-244.085,-9.65972,0,-245.59,-24.3834,-260.008 1/2:103:0,55,47:0:0:55,47:1959,1688:-297.513,-137.845,-121.288,-159.811,0,-145.663 1/2:52:0,35,17:0:0:35,17:1235,608:-150.478,-49.9345,-39.3985,-100.9,0,-95.7823 1/1:57:0,53,0:0:0:53,0:1899,0:-170.691,-15.9546,0,-170.691,-15.9546,-170.691 1/1:47:0,47,0:0:0:47,0:1666,0:-149.956,-14.1484,0,-149.956,-14.1484,-149.956 chr01 27601177 . T C 5920.15 PASS AB=0.64881;ABP=99.951;AC=10;AF=0.238095;AN=42;AO=335;CIGAR=1X;DP=1010;DPB=1010;DPRA=1.24122;EPP=730.454;EPPR=1466.58;GTI=2;LEN=1;MEANALT=1.09091;MQM=59.8299;MQMR=59.9955;NS=21;NUMALT=1;ODDS=1.31056;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11939;QR=24051;RO=674;RPL=0;RPP=730.454;RPPR=1466.58;RPR=335;RUN=1;SAF=0;SAP=730.454;SAR=335;SRF=0;SRP=1466.58;SRR=674;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:56:56,0:56:1984:0:0:0,-16.8577,-178.835 0/0:28:28,0:28:996:0:0:0,-8.42884,-89.9549 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/1:41:19,22:19:672:22:788:-58.9026,0,-48.4646 0/1:109:40,69:40:1432:69:2446:-187.575,0,-96.3638 0/1:29:9,20:9:320:20:720:-56.3989,0,-20.4125 0/1:88:40,48:40:1411:48:1697:-126.507,0,-100.796 0/1:150:19,130:19:680:130:4660:-374.363,0,-16.3539 0/0:81:81,0:81:2908:0:0:0,-24.3834,-261.955 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/0:25:24,1:24:860:1:36:0,-3.92747,-74.1236 0/0:89:89,0:89:3169:0:0:0,-26.7917,-285.434 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/1:49:22,27:22:779:27:957:-71.6934,0,-55.6816 0/1:33:23,10:23:820:10:347:-21.6296,0,-64.1885 0/0:49:47,2:47:1680:2:72:0,-7.91375,-144.65 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 chr01 27601227 . T C 5989.48 PASS AB=0.644531;ABP=95.9086;AC=10;AF=0.238095;AN=42;AO=334;CIGAR=1X;DP=1026;DPB=1026;DPRA=1.34902;EPP=728.282;EPPR=1505.67;GTI=2;LEN=1;MEANALT=1;MQM=59.8293;MQMR=59.9841;NS=21;NUMALT=1;ODDS=0.201218;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11942;QR=24628;RO=692;RPL=334;RPP=728.282;RPPR=1505.67;RPR=0;RUN=1;SAF=0;SAP=728.282;SAR=334;SRF=0;SRP=1505.67;SRR=692;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:59:59,0:59:2093:0:0:0,-17.7608,-188.638 0/0:31:31,0:31:1096:0:0:0,-9.33193,-98.9467 0/0:42:42,0:42:1489:0:0:0,-12.6433,-134.303 0/1:40:19,21:19:665:21:756:-56.326,0,-48.1316 0/1:111:43,68:43:1525:68:2436:-186.076,0,-104.127 0/1:29:9,20:9:316:20:720:-56.3989,0,-20.049 0/1:89:41,48:41:1472:48:1709:-127.286,0,-105.984 0/1:153:19,134:19:680:134:4807:-386.702,0,-15.4716 0/0:80:80,0:80:2826:0:0:0,-24.0824,-254.577 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.382 0/0:34:34,0:34:1201:0:0:0,-10.235,-108.394 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:52:24,28:24:860:28:993:-74.0289,0,-62.0683 0/1:33:23,10:23:824:10:341:-21.0838,0,-64.5493 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 0/0:30:30,0:30:1061:0:0:0,-9.0309,-95.7994 chr01 27670528 . G A 2091.73 PASS AB=0.41716;ABP=23.1575;AC=10;AF=0.238095;AN=42;AO=141;CIGAR=1X;DP=720;DPB=720;DPRA=0.973298;EPP=309.188;EPPR=1260.29;GTI=1;LEN=1;MEANALT=1;MQM=59.9858;MQMR=59.9603;NS=21;NUMALT=1;ODDS=2.72932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5030;QR=20530;RO=579;RPL=0;RPP=309.188;RPPR=1260.29;RPR=141;RUN=1;SAF=0;SAP=309.188;SAR=141;SRF=0;SRP=1260.29;SRR=579;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:52,0:52:1856:0:0:0,-15.6536,-167.32 0/0:42:42,0:42:1500:0:0:0,-12.6433,-135.295 0/1:32:23,9:23:812:9:324:-19.8729,0,-63.768 0/1:24:10,14:10:352:14:496:-37.7491,0,-24.7935 0/1:69:42,27:42:1488:27:955:-65.4934,0,-113.443 0/1:31:24,7:24:823:7:248:-13.3323,0,-65.0497 0/1:41:16,25:16:556:25:887:-67.8065,0,-38.025 0/1:37:18,19:18:639:19:684:-50.7522,0,-46.7001 0/0:51:51,0:51:1824:0:0:0,-15.3525,-164.441 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:16:16,0:16:568:0:0:0,-4.81648,-51.4519 0/0:39:39,0:39:1376:0:0:0,-11.7402,-124.139 0/0:36:36,0:36:1265:0:0:0,-10.8371,-114.151 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.463 0/0:38:38,0:38:1342:0:0:0,-11.4391,-121.079 0/1:46:33,13:33:1176:13:468:-28.6123,0,-92.2971 0/1:34:14,20:14:491:20:720:-54.8938,0,-34.2861 0/1:19:13,6:13:450:6:212:-13.7052,0,-35.109 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 chr01 27774771 . C T 26271.3 PASS AB=0.549749;ABP=33.0425;AC=29;AF=0.690476;AN=42;AO=1351;CIGAR=1X;DP=1982;DPB=1982;DPRA=0;EPP=14.6231;EPPR=4.3934;GTI=0;LEN=1;MEANALT=1.09524;MQM=41.6728;MQMR=31.5828;NS=21;NUMALT=1;ODDS=8.51863;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48098;QR=22062;RO=628;RPL=9;RPP=2859.02;RPPR=1247.8;RPR=1342;RUN=1;SAF=642;SAP=10.2255;SAR=709;SRF=318;SRP=3.2316;SRR=310;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:42,64:42:1487:64:2279:-121.121,0,-78.2631 0/1:128:67,61:67:2382:61:2188:-91.4846,0,-103.865 0/1:69:34,35:34:1192:35:1246:-70.8887,0,-67.2831 0/1:80:37,43:37:1285:43:1519:-84.8012,0,-69.2472 0/1:182:90,91:90:3166:91:3255:-181.673,0,-163.328 0/1:83:30,53:30:1054:53:1904:-104.376,0,-50.3787 0/1:136:66,70:66:2329:70:2512:-142.116,0,-129.484 0/1:99:56,43:56:1962:43:1536:-88.6124,0,-117.88 0/1:111:62,49:62:2186:49:1760:-94.6397,0,-127.153 0/1:25:12,13:12:423:13:460:-30.0932,0,-26.3506 1/1:7:0,7:0:0:7:252:-21.6468,-2.10721,0 1/1:47:0,47:0:0:47:1679:-112.103,-14.1484,0 1/1:78:0,78:0:0:78:2778:-179.054,-23.4803,0 1/1:87:0,87:0:0:87:3077:-203.687,-26.1896,0 1/1:127:0,127:0:0:127:4482:-347.021,-38.2308,0 1/1:79:0,79:0:0:79:2824:-223.806,-23.7814,0 0/1:50:32,18:32:1112:18:648:-35.3869,0,-70.0322 0/1:218:71,145:71:2467:145:5120:-342.98,0,-127.167 0/1:110:27,83:27:945:83:2934:-161.942,0,-30.6288 1/1:65:0,65:0:0:65:2314:-169.361,-19.567,0 1/1:95:2,93:2:72:93:3331:-230.226,-24.4499,0 chr01 27774805 . A G 25895.6 PASS AB=0.554404;ABP=37.7426;AC=29;AF=0.690476;AN=42;AO=1325;CIGAR=1X;DP=1929;DPB=1929;DPRA=0;EPP=19.0726;EPPR=22.7628;GTI=0;LEN=1;MEANALT=1.09524;MQM=42.1962;MQMR=32.9502;NS=21;NUMALT=1;ODDS=9.53306;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46860;QR=21491;RO=602;RPL=1319;RPP=2828.33;RPPR=1284.31;RPR=6;RUN=1;SAF=607;SAP=23.2025;SAR=718;SRF=261;SRP=26.0957;SRR=341;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:44,63:44:1571:63:2239:-119.934,0,-83.3879 0/1:123:62,61:62:2228:61:2160:-91.1762,0,-94.4755 0/1:68:34,34:34:1208:34:1211:-70.7693,0,-69.0125 0/1:78:36,42:36:1296:42:1489:-87.3108,0,-70.1841 0/1:181:88,92:88:3135:92:3251:-182.382,0,-162.578 0/1:85:33,52:33:1184:52:1847:-101.113,0,-60.4608 0/1:139:73,66:73:2615:66:2346:-133.87,0,-152.09 0/1:78:35,43:35:1242:43:1528:-93.2801,0,-83.7882 0/1:114:67,46:67:2366:46:1631:-83.6017,0,-142.637 0/1:22:10,12:10:360:12:424:-29.4722,0,-24.9679 1/1:7:0,7:0:0:7:252:-21.6468,-2.10721,0 1/1:47:0,47:0:0:47:1668:-111.112,-14.1484,0 1/1:74:0,74:0:0:74:2619:-169.604,-22.2762,0 1/1:83:0,83:0:0:83:2922:-197.25,-24.9855,0 1/1:135:0,135:0:0:135:4765:-372.124,-40.6391,0 1/1:77:0,77:0:0:77:2747:-220.477,-23.1793,0 0/1:52:34,18:34:1207:18:640:-34.0622,0,-74.6671 0/1:203:59,144:59:2107:144:5051:-345.479,0,-121.462 0/1:101:25,76:25:900:76:2670:-147.621,0,-30.4119 1/1:67:0,67:0:0:67:2354:-173.018,-20.169,0 1/1:88:2,86:2:72:86:3046:-214.9,-22.3427,0 chr01 27813906 . AGCA TGCG,CGCG 46641.6 PASS AB=0.490863,0.508507;ABP=4.16103,4.00778;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1455,807;CIGAR=1X2M1X,1X2M1X;DP=2263;DPB=2263.5;DPRA=0,1.4447;EPP=3162.5,1755.39;EPPR=0;GTI=0;LEN=4,4;MEANALT=1.66667,2.07692;MQM=59.9017,59.8748;MQMR=0;NS=21;NUMALT=2;ODDS=2.22032;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=51524,28562;QR=0;RO=0;RPL=1455,807;RPP=3162.5,1755.39;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3162.5,1755.39;SAR=1455,807;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:132:0,67,65:0:0:67,65:2335,2282:-375.96,-186.075,-165.906,-190.235,0,-170.668 1/2:108:0,52,56:0:0:52,56:1846,1991:-313.017,-162.606,-146.952,-150.767,0,-133.909 1/2:110:0,55,55:0:0:55,55:1960,1943:-318.196,-158.431,-141.875,-160.119,0,-143.562 1/2:125:0,67,57:0:0:67,57:2370,2017:-357.298,-164.262,-144.093,-193.03,0,-175.871 1/2:293:0,114,179:0:0:114,179:4027,6329:-843.413,-515.465,-481.147,-327.942,0,-274.058 1/2:58:0,31,27:0:0:31,27:1089,964:-167.578,-78.9489,-69.617,-88.9832,0,-80.8554 1/2:202:0,106,96:0:0:106,96:3769,3383:-582.835,-275.712,-243.803,-307.476,0,-278.577 1/2:83:0,41,42:0:0:41,42:1454,1484:-239.659,-121.2,-108.858,-118.813,0,-106.17 1/2:168:0,86,82:0:0:86,82:3057,2915:-487.017,-237.901,-212.012,-249.471,0,-224.787 1/2:18:0,7,11:0:0:7,11:250,384:-51.9675,-31.5818,-29.4746,-20.7395,0,-17.4282 1/1:12:0,12,0:0:0:12,0:431,0:-39.1307,-3.61236,0,-39.1307,-3.61236,-39.1307 1/1:22:0,22,0:0:0:22,0:783,0:-70.7935,-6.62266,0,-70.7935,-6.62266,-70.7935 1/1:89:0,89,0:0:0:89,0:3168,0:-285.346,-26.7917,0,-285.346,-26.7917,-285.346 1/1:103:0,103,0:0:0:103,0:3632,0:-326.987,-31.0061,0,-326.987,-31.0061,-326.987 1/1:203:0,203,0:0:0:203,0:7171,0:-645.431,-61.1091,0,-645.431,-61.1091,-645.431 1/1:82:0,82,0:0:0:82,0:2926,0:-263.575,-24.6845,0,-263.575,-24.6845,-263.575 1/2:119:0,65,54:0:0:65,54:2294,1930:-344.521,-157.721,-138.155,-187.155,0,-170.899 1/2:83:0,41,42:0:0:41,42:1464,1488:-240.929,-121.57,-109.228,-119.715,0,-107.071 1/2:88:0,47,41:0:0:47,41:1678,1452:-255.437,-118.633,-104.485,-137.159,0,-124.817 1/1:114:0,114,0:0:0:114,0:4035,0:-362.982,-34.3174,0,-362.982,-34.3174,-362.982 1/1:51:0,51,0:0:0:51,0:1785,0:-160.931,-15.3525,0,-160.931,-15.3525,-160.931 chr01 27814035 . T A 12403 PASS AB=0.430556;ABP=33.1696;AC=29;AF=0.690476;AN=42;AO=639;CIGAR=1X;DP=1050;DPB=1050;DPRA=0;EPP=1390.58;EPPR=895.485;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.944;NS=21;NUMALT=1;ODDS=1.15222;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22859;QR=14683;RO=411;RPL=639;RPP=1390.58;RPPR=895.485;RPR=0;RUN=1;SAF=0;SAP=1390.58;SAR=639;SRF=0;SRP=895.485;SRR=411;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:60,29:60:2140:29:1044:-67.4831,0,-165.849 0/1:28:23,5:23:820:5:180:-8.12322,0,-65.6937 0/1:48:23,25:23:828:25:900:-66.8716,0,-60.3947 0/1:61:20,41:20:720:41:1456:-112.973,0,-46.7659 0/1:79:46,33:46:1640:33:1184:-83.0869,0,-124.107 0/1:64:37,27:37:1302:27:968:-68.1714,0,-98.2114 0/1:76:62,14:62:2228:14:504:-22.8198,0,-177.906 0/1:76:35,41:35:1245:41:1468:-109.538,0,-89.4744 0/1:91:47,44:47:1688:44:1576:-114.738,0,-124.813 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:71:0,71:0:0:71:2544:-229.211,-21.3731,0 1/1:35:0,35:0:0:35:1248:-112.625,-10.5361,0 1/1:74:0,74:0:0:74:2652:-238.926,-22.2762,0 1/1:18:0,18:0:0:18:636:-57.568,-5.41854,0 0/1:24:21,3:21:756:3:108:-2.85045,0,-61.1425 0/1:34:19,15:19:676:15:536:-38.3398,0,-50.933 0/1:45:14,31:14:496:31:1091:-84.9524,0,-31.4279 1/1:76:0,76:0:0:76:2724:-245.403,-22.8783,0 1/1:43:1,42:1:36:42:1508:-132.416,-9.34602,0 chr01 27826108 . T C 12579.2 PASS AB=0.45081;ABP=39.3272;AC=13;AF=0.309524;AN=42;AO=780;CIGAR=1X;DP=2501;DPB=2501;DPRA=1.35259;EPP=1696.76;EPPR=3737.94;GTI=0;LEN=1;MEANALT=1;MQM=52.9128;MQMR=60;NS=21;NUMALT=1;ODDS=8.74251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27913;QR=61481;RO=1720;RPL=0;RPP=1696.76;RPPR=3737.94;RPR=780;RUN=1;SAF=780;SAP=1696.76;SAR=0;SRF=1720;SRP=3737.94;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:194:118,76:118:4202:76:2732:-187.128,0,-319.96 0/1:92:52,40:52:1868:40:1436:-101.106,0,-140.705 0/1:109:63,46:63:2249:46:1648:-114.574,0,-169.859 0/1:119:57,62:57:2048:62:2211:-163.155,0,-148.769 0/1:274:155,119:155:5526:119:4231:-297.48,0,-414.982 0/1:154:77,77:77:2745:77:2764:-201.326,0,-200.932 0/1:200:113,87:113:4056:87:3112:-219.039,0,-305.02 0/1:140:82,58:82:2948:58:2075:-143.497,0,-223.409 0/1:240:108,132:108:3856:132:4732:-352.44,0,-274.989 0/1:23:12,11:12:432:11:392:-28.6108,0,-32.2975 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/0:179:178,0:178:6372:0:0:0,-53.5833,-573.359 0/0:151:151,0:151:5382:0:0:0,-45.4555,-484.51 0/0:153:153,0:153:5442:0:0:0,-46.0576,-489.909 0/0:95:95,0:95:3382:0:0:0,-28.5978,-304.593 0/1:69:44,25:44:1584:25:892:-59.6178,0,-122.08 0/1:50:20,30:20:716:30:1076:-81.7394,0,-49.7162 0/1:64:48,16:48:1705:16:576:-32.8315,0,-134.468 0/0:98:97,1:97:3488:1:36:0,-25.9117,-310.541 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 chr01 27826138 . G A 42843.8 PASS AB=0.517299;ABP=12.4012;AC=13;AF=0.309524;AN=42;AO=1871;CIGAR=1X;DP=5042;DPB=5042;DPRA=1.72295;EPP=4065.84;EPPR=6873.55;GTI=1;LEN=1;MEANALT=1;MQM=56.6595;MQMR=59.9975;NS=21;NUMALT=1;ODDS=15.6778;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66791;QR=110214;RO=3168;RPL=778;RPP=118.17;RPPR=26.7238;RPR=1093;RUN=1;SAF=778;SAP=118.17;SAR=1093;SRF=1678;SRP=27.2365;SRR=1490;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:429:211,218:211:7327:218:7736:-566.389,0,-530.353 0/1:200:108,92:108:3714:92:3292:-235.357,0,-274.258 0/1:213:111,102:111:3893:102:3641:-262.549,0,-286.448 0/1:274:118,156:118:4092:156:5599:-420.916,0,-285.989 0/1:497:247,250:247:8621:250:8921:-652.065,0,-626.286 0/1:310:158,152:158:5488:152:5440:-394.685,0,-400.738 0/1:439:219,220:219:7549:220:7860:-573.292,0,-547.316 0/1:249:119,130:119:4186:130:4610:-338.452,0,-301.969 0/1:550:229,321:229:7900:321:11514:-869.7,0,-545.481 0/1:38:16,22:16:576:22:792:-60.0765,0,-40.7358 0/0:13:13,0:13:443:0:0:0,-3.91339,-40.1955 0/0:63:62,0:62:2160:0:0:0,-18.6639,-194.414 0/0:279:279,0:279:9717:0:0:0,-83.9874,-874.499 0/0:288:287,0:287:9934:0:0:0,-86.3956,-893.819 0/0:250:249,1:249:8802:1:36:0,-71.6592,-788.582 0/0:200:199,0:199:7014:0:0:0,-59.905,-631.123 0/1:199:98,101:98:3402:101:3574:-261.635,0,-246.49 0/1:95:37,58:37:1293:58:2056:-156.397,0,-88.0711 0/1:120:73,47:73:2538:47:1684:-115.636,0,-192.548 0/0:229:228,1:228:7878:1:36:0,-65.3466,-705.478 0/0:107:107,0:107:3687:0:0:0,-32.2102,-332.04 chr01 27826143 . G A 42397.4 PASS AB=0.501078;ABP=3.04776;AC=13;AF=0.309524;AN=42;AO=1861;CIGAR=1X;DP=5206;DPB=5206;DPRA=1.68448;EPP=4044.12;EPPR=7253.56;GTI=1;LEN=1;MEANALT=1.13333;MQM=56.619;MQMR=59.9988;NS=21;NUMALT=1;ODDS=8.79571;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66518;QR=118131;RO=3343;RPL=782;RPP=105.935;RPPR=8.87256;RPR=1079;RUN=1;SAF=782;SAP=105.935;SAR=1079;SRF=1720;SRP=9.12199;SRR=1623;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:446:229,216:229:8094:216:7720:-559.855,0,-594.317 0/1:203:114,89:114:4002:89:3184:-224.751,0,-299.267 0/1:220:118,102:118:4211:102:3649:-261.148,0,-312.945 0/1:281:129,152:129:4579:152:5442:-404.989,0,-327.687 0/1:509:259,250:259:9145:250:8910:-647.411,0,-669.808 0/1:326:175,151:175:6179:151:5390:-385.513,0,-458.077 0/1:451:230,221:230:8106:221:7905:-573.948,0,-593.802 0/1:252:125,127:125:4426:127:4549:-331.717,0,-322.653 0/1:560:239,321:239:8471:321:11504:-865.23,0,-593.824 0/1:40:16,24:16:564:24:860:-65.392,0,-39.0491 0/0:13:13,0:13:455:0:0:0,-3.91339,-41.282 0/0:67:67,0:67:2370:0:0:0,-20.169,-213.558 0/0:296:296,0:296:10489:0:0:0,-89.1049,-943.936 0/0:309:309,0:309:10957:0:0:0,-93.0183,-986.041 0/0:259:258,1:258:9142:1:36:0,-74.3685,-819.162 0/0:202:202,0:202:7148:0:0:0,-60.8081,-643.384 0/1:199:98,101:98:3475:101:3569:-261.3,0,-253.059 0/1:100:42,57:42:1474:57:2040:-153.448,0,-102.938 0/1:123:75,48:75:2653:48:1724:-118.331,0,-201.989 0/0:238:237,1:237:8296:1:36:0,-68.0559,-743.074 0/0:112:112,0:112:3895:0:0:0,-33.7154,-350.752 chr01 27826152 . G A 41463.2 PASS AB=0.492606;ABP=4.77656;AC=13;AF=0.309524;AN=42;AO=1834;CIGAR=1X;DP=5264;DPB=5264;DPRA=1.64031;EPP=3942.18;EPPR=7366.68;GTI=1;LEN=1;MEANALT=1.13333;MQM=56.6925;MQMR=59.9971;NS=21;NUMALT=1;ODDS=3.84712;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65296;QR=121381;RO=3427;RPL=756;RPP=125.773;RPPR=9.22057;RPR=1078;RUN=1;SAF=751;SAP=133.517;SAR=1083;SRF=1655;SRP=11.6842;SRR=1772;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:445:229,216:229:8089:216:7691:-557.368,0,-594.08 0/1:203:116,86:116:4105:86:3071:-214.61,0,-308.468 0/1:220:125,95:125:4450:95:3400:-238.664,0,-334.445 0/1:284:133,151:133:4718:151:5350:-395.829,0,-339.29 0/1:514:265,249:265:9355:249:8859:-641.38,0,-687.192 0/1:328:179,149:179:6314:149:5328:-379.326,0,-469.62 0/1:451:236,215:236:8414:215:7656:-551.612,0,-621.503 0/1:246:119,127:119:4186:127:4525:-331.372,0,-302.872 0/1:567:246,321:246:8718:321:11394:-852.923,0,-613.936 0/1:38:16,22:16:572:22:784:-59.1691,0,-40.3743 0/0:13:13,0:13:445:0:0:0,-3.91339,-40.3754 0/0:69:69,0:69:2436:0:0:0,-20.7711,-219.494 0/0:296:296,0:296:10439:0:0:0,-89.1049,-939.439 0/0:323:322,0:322:11435:0:0:0,-96.9317,-1028.72 0/0:264:263,1:263:9365:1:36:0,-75.8736,-839.221 0/0:216:216,0:216:7686:0:0:0,-65.0225,-691.78 0/1:197:101,96:101:3600:96:3425:-248.969,0,-264.905 0/1:100:42,58:42:1480:58:2057:-154.897,0,-103.389 0/1:126:79,47:79:2803:47:1688:-114.187,0,-214.581 0/0:249:247,1:247:8713:1:32:0,-71.7995,-780.957 0/0:115:115,0:115:4058:0:0:0,-34.6184,-365.409 chr01 27950190 . 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T C 26744.2 PASS AB=0.570064;ABP=56.5641;AC=29;AF=0.690476;AN=42;AO=1372;CIGAR=1X;DP=1913;DPB=1913;DPRA=0;EPP=2982.27;EPPR=1177.78;GTI=0;LEN=1;MEANALT=1;MQM=59.9082;MQMR=59.9298;NS=21;NUMALT=1;ODDS=16.5022;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47904;QR=19121;RO=541;RPL=0;RPP=2982.27;RPPR=1177.78;RPR=1372;RUN=1;SAF=0;SAP=2982.27;SAR=1372;SRF=0;SRP=1177.78;SRR=541;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:36,60:36:1277:60:2063:-157.035,0,-86.3307 0/1:113:40,73:40:1420:73:2542:-195.014,0,-94.081 0/1:108:46,62:46:1637:62:2183:-164.225,0,-115.105 0/1:101:51,50:51:1823:50:1726:-125.212,0,-133.946 0/1:190:80,110:80:2835:110:3822:-286.973,0,-198.194 0/1:98:45,53:45:1612:53:1871:-139.166,0,-115.869 0/1:134:56,78:56:1956:78:2744:-206.862,0,-135.957 0/1:64:29,35:29:1035:35:1219:-90.7467,0,-74.1971 0/1:182:89,93:89:3124:93:3208:-234.117,0,-226.601 0/1:13:8,5:8:288:5:176:-12.2716,0,-22.354 1/1:10:0,10:0:0:10:331:-30.1099,-3.0103,0 1/1:51:0,51:0:0:51:1808:-163.002,-15.3525,0 1/1:142:0,142:0:0:142:5011:-451.13,-42.7463,0 1/1:89:0,89:0:0:89:3075:-276.974,-26.7917,0 1/1:137:0,137:0:0:137:4816:-433.597,-41.2411,0 1/1:86:0,86:0:0:86:3018:-271.85,-25.8886,0 0/1:37:17,20:17:600:20:720:-53.9907,0,-43.1911 0/1:85:34,51:34:1167:51:1752:-132.37,0,-79.7426 0/1:35:9,26:9:311:26:898:-70.5962,0,-17.7852 1/1:87:1,86:1:36:86:3014:-267.89,-22.5913,0 1/1:55:0,55:0:0:55:1907:-171.906,-16.5567,0 chr01 27957740 . C G 31507.9 PASS AB=0.482794;ABP=10.5576;AC=13;AF=0.309524;AN=42;AO=1426;CIGAR=1X;DP=4531;DPB=4531;DPRA=2.23257;EPP=3099.53;EPPR=6743.26;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.8745;MQMR=59.9861;NS=21;NUMALT=1;ODDS=20.4252;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50189;QR=109506;RO=3104;RPL=769;RPP=22.1119;RPPR=5.36366;RPR=657;RUN=1;SAF=769;SAP=22.1119;SAR=657;SRF=1581;SRP=5.36366;SRR=1523;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:285:135,149:135:4726:149:5229:-384.879,0,-339.652 0/1:183:94,89:94:3302:89:3095:-223.617,0,-242.311 0/1:165:79,86:79:2779:86:3053:-225.329,0,-200.678 0/1:244:120,124:120:4281:124:4350:-318.12,0,-312.016 0/1:470:261,209:261:9193:209:7369:-521.781,0,-685.867 0/1:114:63,51:63:2225:51:1828:-130.484,0,-166.196 0/1:312:169,143:169:5930:143:5064:-361.914,0,-439.893 0/1:294:125,169:125:4416:169:5967:-448.633,0,-309.11 0/1:375:185,190:185:6543:190:6675:-487.456,0,-476.071 0/1:24:8,16:8:284:16:568:-44.2271,0,-18.6786 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/0:221:218,3:218:7604:3:108:0,-56.4525,-674.333 0/0:241:239,2:239:8461:2:72:0,-65.7115,-754.506 0/0:458:455,3:455:16157:3:108:0,-127.797,-1443.74 0/0:226:226,0:226:7957:0:0:0,-68.0328,-716.16 0/1:172:84,88:84:2950:88:3089:-226.447,0,-213.955 0/1:144:81,63:81:2870:63:2179:-153.019,0,-215.185 0/1:153:113,40:113:3953:40:1399:-80.1487,0,-309.909 0/0:244:243,1:243:8613:1:36:0,-69.853,-771.574 0/0:142:142,0:142:4966:0:0:0,-42.7463,-447.096 chr01 27957779 . CAAC CAAT,TAAT 46800.5 PASS AB=0.526867,0.47104;ABP=11.9947,13.4494;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1561,681;CIGAR=3M1X,1X2M1X;DP=2247;DPB=2247.25;DPRA=0,1.27257;EPP=3392.68,1481.78;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.95238,2.25;MQM=59.991,59.7797;MQMR=60;NS=21;NUMALT=2;ODDS=12.9497;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=55855,23832;QR=36;RO=1;RPL=1561,681;RPP=3392.68,1481.78;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3392.68,1481.78;SAR=1561,681;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:129:0,67,62:0:0:67,62:2385,2147:-369.2,-174.814,-154.645,-194.737,0,-176.073 1/2:102:0,52,50:0:0:52,50:1868,1776:-297.391,-145.002,-129.348,-152.746,0,-137.694 1/2:84:0,39,45:0:0:39,45:1400,1585:-243.595,-129.393,-117.653,-114.557,0,-101.011 1/2:130:0,66,64:0:0:66,64:2372,2240:-375.666,-182.151,-162.283,-193.51,0,-174.244 1/2:247:0,139,108:0:0:139,108:4953,3784:-711.98,-308.255,-266.412,-404.077,0,-371.566 1/2:42:0,25,17:0:0:25,17:896,603:-122.562,-49.4831,-41.9574,-73.4346,0,-68.3171 1/2:162:0,86,75:0:0:86,75:3055,2621:-462.176,-213.238,-187.35,-249.038,0,-226.46 1/2:154:0,72,82:0:0:72,82:2588,2862:-444.266,-233.126,-211.452,-211.494,0,-186.81 1/2:108:0,58,50:0:0:58,50:2084,1704:-308.612,-138.591,-121.131,-170.37,0,-155.319 1/2:17:0,3,14:0:0:3,14:108,479:-48.0354,-39.22,-38.3169,-9.17208,0,-4.95766 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/1:23:1,22,0:1:36:22,0:784,0:-67.2856,-3.32542,0,-67.5867,-6.62266,-70.5242 1/1:92:0,89,3:0:0:89,3:3165,108:-284.715,-26.7917,0,-275.902,-17.6196,-274.999 1/1:159:0,156,2:0:0:156,2:5604,71:-504.13,-46.9607,0,-498.345,-41.1656,-497.742 1/1:249:0,249,0:0:0:249,0:8928,0:-803.5,-74.9565,0,-803.5,-74.9565,-803.5 1/1:93:0,93,0:0:0:93,0:3324,0:-299.378,-27.9958,0,-299.378,-27.9958,-299.378 1/2:103:0,49,53:0:0:49,53:1748,1868:-294.316,-151.821,-137.07,-142.499,0,-126.545 1/2:79:0,41,38:0:0:41,38:1468,1341:-229.265,-109.546,-97.2042,-120.074,0,-108.635 1/2:76:0,58,17:0:0:58,17:2080,607:-219.138,-49.4846,-32.0248,-169.651,0,-164.533 1/1:120:0,119,1:0:0:119,1:4241,36:-381.509,-35.8226,0,-378.571,-32.5253,-378.27 1/1:70:0,70,0:0:0:70,0:2520,0:-227.051,-21.0721,0,-227.051,-21.0721,-227.051 chr01 27987151 . C T 30360.7 PASS AB=0.486861;ABP=7.11866;AC=13;AF=0.309524;AN=42;AO=1335;CIGAR=1X;DP=3895;DPB=3895;DPRA=1.48724;EPP=2884.58;EPPR=5538.11;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.6689;MQMR=59.8142;NS=21;NUMALT=1;ODDS=1.14291;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47644;QR=90385;RO=2557;RPL=633;RPP=10.7544;RPPR=11.6733;RPR=702;RUN=1;SAF=635;SAP=9.88256;SAR=700;SRF=1230;SRP=11.0007;SRR=1327;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:216:130,85:130:4606:85:3039:-208.64,0,-349.614 0/1:227:120,107:120:4265:107:3798:-273.538,0,-315.608 0/1:166:81,85:81:2888:85:3060:-225.652,0,-210.185 0/1:199:103,96:103:3664:96:3428:-248.782,0,-270.044 0/1:410:202,208:202:7127:208:7441:-546.26,0,-518.063 0/1:134:62,72:62:2190:72:2567:-190.932,0,-157.027 0/1:352:171,181:171:6010:181:6445:-474.061,0,-435.046 0/1:196:100,96:100:3537:96:3434:-250.187,0,-259.491 0/1:326:183,142:183:6493:142:5062:-357.521,0,-486.262 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6085 0/0:46:46,0:46:1609:0:0:0,-13.8474,-145.096 0/0:191:191,0:191:6749:0:0:0,-57.4967,-607.467 0/0:175:174,1:174:6112:1:36:0,-49.082,-546.543 0/0:280:279,0:279:9869:0:0:0,-83.9874,-887.597 0/0:144:144,0:144:5060:0:0:0,-43.3483,-455.547 0/1:145:58,87:58:2049:87:3077:-233.41,0,-141.03 0/1:236:113,123:113:4005:123:4403:-325.388,0,-289.589 0/1:126:78,48:78:2779:48:1710:-116.256,0,-212.421 0/0:195:195,0:195:6864:0:0:0,-58.7008,-617.805 0/0:113:113,0:113:4009:0:0:0,-34.0164,-360.967 chr01 27987169 . A T 67971.6 PASS AB=0.526239;ABP=19.4198;AC=29;AF=0.690476;AN=42;AO=2627;CIGAR=1X;DP=3928;DPB=3928;DPRA=0;EPP=5698.79;EPPR=2823.75;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.7644;MQMR=59.7329;NS=21;NUMALT=1;ODDS=6.26718;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93777;QR=46209;RO=1299;RPL=1258;RPP=13.1948;RPPR=18.0969;RPR=1369;RUN=1;SAF=1257;SAP=13.5651;SAR=1370;SRF=602;SRP=18.0969;SRR=697;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:216:82,134:82:2916:134:4738:-361.39,0,-197.639 0/1:223:104,119:104:3720:119:4260:-316.165,0,-266.911 0/1:165:84,81:84:2989:81:2903:-211.804,0,-219.567 0/1:196:92,104:92:3240:104:3721:-276.071,0,-232.806 0/1:412:204,207:204:7283:207:7399:-541.593,0,-531.431 0/1:134:73,61:73:2607:61:2183:-156.397,0,-194.523 0/1:355:174,181:174:6192:181:6460:-474.606,0,-450.399 0/1:192:91,101:91:3218:101:3587:-265.214,0,-232.001 0/1:331:139,192:139:4949:192:6868:-518.541,0,-345.916 0/1:8:4,4:4:144:4:129:-9.51942,0,-10.9054 1/1:11:0,11:0:0:11:392:-35.6036,-3.31133,0 1/1:48:0,48:0:0:48:1728:-155.8,-14.4494,0 1/1:197:0,197:0:0:197:7036:-633.278,-59.3029,0 1/1:173:1,172:1:32:172:6145:-549.811,-48.8789,0 1/1:290:0,290:0:0:290:10316:-928.208,-87.2987,0 1/1:146:0,146:0:0:146:5224:-470.292,-43.9504,0 0/1:145:83,62:83:2963:62:2200:-154.614,0,-223.158 0/1:240:120,119:120:4259:119:4254:-310.727,0,-311.175 0/1:127:48,79:48:1697:79:2828:-216.528,0,-114.783 1/1:201:0,201:0:0:201:7189:-647.008,-60.507,0 1/1:118:0,118:0:0:118:4217:-379.675,-35.5215,0 chr01 28115734 . AAACT GAACG,GAACT 23994.6 PASS AB=0.48481,0.512658;ABP=4.59355,4.10978;AC=29,13;AF=0.690476,0.309524;AN=42;AO=770,407;CIGAR=1X3M1X,1X4M;DP=1180;DPB=1180;DPRA=0,1.40843;EPP=1675.04,886.8;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.85714,2.2;MQM=55.0286,59.7273;MQMR=0;NS=21;NUMALT=2;ODDS=3.81529;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27025,14368;QR=0;RO=0;RPL=770,407;RPP=1675.04,886.8;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1675.04,886.8;SAR=770,407;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,35,45:0:0:35,45:1219,1589:-227.917,-129.387,-118.851,-98.5198,0,-84.9735 1/2:43:0,24,19:0:0:24,19:841,677:-123.895,-55.5348,-48.31,-68.7132,0,-62.9936 1/2:39:0,18,21:0:0:18,21:636,744:-112.702,-60.9627,-55.5442,-52.0932,0,-45.7715 1/2:67:0,34,33:0:0:34,33:1190,1161:-191.609,-94.8575,-84.6225,-97.1025,0,-87.1685 1/2:149:0,77,72:0:0:77,72:2692,2511:-423.215,-204.565,-181.385,-218.999,0,-197.325 1/2:41:0,23,18:0:0:23,18:813,640:-118.603,-52.5074,-45.5837,-66.4502,0,-61.0317 1/2:84:0,32,51:0:0:32,51:1108,1806:-237.107,-147.253,-137.62,-89.9874,0,-74.6348 1/2:34:0,14,20:0:0:14,20:489,707:-97.6868,-57.9307,-53.7163,-40.1069,0,-34.0863 1/2:126:0,60,66:0:0:60,66:2110,2351:-363.198,-191.967,-173.906,-171.584,0,-151.716 1/2:7:0,2,5:0:0:2,5:71,180:-20.8263,-15.0453,-14.4433,-6.13708,0,-4.63193 1/1:6:0,6,0:0:0:6,0:214,0:-19.5888,-1.80618,0,-19.5888,-1.80618,-19.5888 1/1:7:0,7,0:0:0:7,0:249,0:-22.7455,-2.10721,0,-22.7455,-2.10721,-22.7455 1/1:81:0,80,1:0:0:80,1:2806,21:-252.22,-24.0824,0,-250.634,-22.2851,-250.333 1/1:49:0,49,0:0:0:49,0:1718,0:-154.488,-14.7505,0,-154.488,-14.7505,-154.488 1/1:105:0,105,0:0:0:105,0:3716,0:-333.908,-31.6082,0,-333.908,-31.6082,-333.908 1/1:54:0,54,0:0:0:54,0:1906,0:-171.659,-16.2556,0,-171.659,-16.2556,-171.659 1/2:14:0,6,8:0:0:6,8:207,269:-38.8537,-22.1279,-20.3217,-17.0659,0,-14.6577 1/2:60:0,27,33:0:0:27,33:940,1180:-172.878,-96.5741,-88.4462,-76.6556,0,-66.7216 1/2:45:0,31,14:0:0:31,14:1058,496:-126.475,-40.7565,-31.4246,-86.0688,0,-81.8544 1/1:48:0,46,1:0:0:46,1:1623,36:-145.733,-13.8474,0,-142.796,-10.9094,-142.495 1/1:40:0,40,0:0:0:40,0:1419,0:-127.667,-12.0412,0,-127.667,-12.0412,-127.667 chr01 28374869 . G T 11021.1 PASS AB=0.482234;ABP=6.79109;AC=13;AF=0.309524;AN=42;AO=667;CIGAR=1X;DP=2007;DPB=2007;DPRA=1.42981;EPP=1451.38;EPPR=2910.61;GTI=0;LEN=1;MEANALT=1;MQM=59.946;MQMR=59.9761;NS=21;NUMALT=1;ODDS=9.36621;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23808;QR=46973;RO=1339;RPL=0;RPP=1451.38;RPPR=2901.93;RPR=667;RUN=1;SAF=0;SAP=1451.38;SAR=667;SRF=1;SRP=2901.93;SRR=1338;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:67,51:67:2361:51:1808:-127.48,0,-177.226 0/1:75:33,42:33:1164:42:1486:-111.454,0,-82.4897 0/1:84:33,51:33:1167:51:1824:-139.152,0,-80.0499 0/1:67:39,28:39:1362:28:1004:-70.5069,0,-102.705 0/1:147:78,69:78:2713:69:2451:-176.562,0,-200.16 0/1:107:42,65:42:1446:65:2332:-177.929,0,-98.2199 0/1:173:102,71:102:3593:71:2519:-174.883,0,-271.502 0/1:108:56,52:56:1972:52:1860:-135.168,0,-145.241 0/1:129:62,67:62:2224:67:2408:-178.143,0,-161.591 0/1:27:13,14:13:440:14:500:-37.2084,0,-31.7941 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:29:29,0:29:1023:0:0:0,-8.72987,-92.3817 0/0:79:79,0:79:2808:0:0:0,-23.7814,-252.961 0/0:108:106,2:106:3720:2:72:0,-25.6745,-328.16 0/0:195:194,0:194:6820:0:0:0,-58.3998,-613.467 0/0:58:58,0:58:2067:0:0:0,-17.4597,-186.3 0/1:45:26,19:26:928:19:680:-47.9828,0,-70.2919 0/1:184:82,102:82:2796:102:3644:-272.776,0,-196.487 0/1:115:81,34:81:2804:34:1220:-75.4884,0,-217.977 0/0:79:79,0:79:2780:0:0:0,-23.7814,-250.441 0/0:67:67,0:67:2321:0:0:0,-20.169,-209.145 chr01 28374885 . C T 28182 PASS AB=0.524877;ABP=10.6812;AC=29;AF=0.690476;AN=42;AO=1405;CIGAR=1X;DP=2085;DPB=2085;DPRA=0;EPP=3036.58;EPPR=1460.12;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9509;MQMR=59.9323;NS=21;NUMALT=1;ODDS=10.7929;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50282;QR=24202;RO=679;RPL=1404;RPP=3045.25;RPPR=1460.12;RPR=1;RUN=1;SAF=1;SAP=3045.25;SAR=1404;SRF=0;SRP=1477.44;SRR=679;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:53,73:53:1883:73:2616:-197.758,0,-131.818 0/1:77:43,34:43:1532:34:1216:-86.5673,0,-114.992 0/1:84:51,33:51:1820:33:1184:-81.5818,0,-138.792 0/1:68:26,42:26:924:42:1504:-115.185,0,-63.0076 0/1:150:68,82:68:2411:82:2903:-216.353,0,-171.716 0/1:114:69,45:69:2480:45:1620:-111.773,0,-189.136 0/1:180:74,105:74:2648:105:3768:-285.071,0,-184.322 0/1:113:55,58:55:1926:58:2080:-153.454,0,-139.597 0/1:135:71,64:71:2535:64:2292:-165.902,0,-187.762 0/1:28:14,14:14:504:14:504:-37.2693,0,-37.2693 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 1/1:85:0,85:0:0:85:3040:-273.83,-25.5876,0 1/1:112:2,110:2:68:110:3952:-349.405,-27.2577,0 1/1:204:0,204:0:0:204:7313:-658.206,-61.4101,0 1/1:62:0,62:0:0:62:2179:-196.242,-18.6639,0 0/1:46:18,28:18:644:28:1000:-76.468,0,-44.4432 0/1:188:101,87:101:3611:87:3111:-223.621,0,-268.602 0/1:118:34,84:34:1216:84:3016:-236.149,0,-74.225 1/1:82:0,82:0:0:82:2928:-263.755,-24.6845,0 1/1:71:0,71:0:0:71:2552:-229.929,-21.3731,0 chr01 28381909 . G A 8208.19 PASS AB=0.796912;ABP=647.747;AC=34;AF=0.809524;AN=42;AO=1299;CIGAR=1X;DP=1475;DPB=1475;DPRA=0;EPP=2823.75;EPPR=372.211;GTI=2;LEN=1;MEANALT=1.09524;MQM=20.234;MQMR=59.2759;NS=21;NUMALT=1;ODDS=1.79065;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46382;QR=6211;RO=174;RPL=1299;RPP=2823.75;RPPR=380.846;RPR=0;RUN=1;SAF=0;SAP=2823.75;SAR=1299;SRF=1;SRP=372.211;SRR=173;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:1,114:1:36:114:4050:-189.158,-31.0202,0 1/1:79:0,79:0:0:79:2805:-169.363,-23.7814,0 1/1:40:0,40:0:0:40:1428:-71.7452,-12.0412,0 1/1:53:0,53:0:0:53:1896:-88.5312,-15.9546,0 0/1:191:44,147:44:1576:147:5240:-201.572,0,-84.6348 1/1:116:0,116:0:0:116:4156:-238.146,-34.9195,0 0/1:183:36,147:36:1284:147:5276:-236.894,0,-60.7749 0/1:133:30,103:30:1068:103:3681:-134.629,0,-56.3813 0/1:140:25,115:25:887:115:4113:-119.592,0,-38.0039 0/1:22:6,16:6:216:16:560:-21.2016,0,-13.1539 1/1:8:0,8:0:0:8:288:-13.534,-2.40824,0 1/1:20:1,19:1:36:19:672:-26.1036,-4.12907,0 0/1:22:9,13:9:324:13:464:-21.766,0,-22.8832 1/1:12:0,12:0:0:12:424:-23.5154,-3.61236,0 1/1:5:0,5:0:0:5:172:-11.2374,-1.50515,0 1/1:7:0,7:0:0:7:248:-16.0693,-2.10721,0 1/1:48:0,47:0:0:47:1665:-62.9719,-14.1484,0 0/1:129:18,110:18:640:110:3948:-158.077,0,-19.2558 0/1:22:2,20:2:72:20:712:-31.1731,0,-0.214062 1/1:79:1,78:1:36:78:2788:-95.4319,-21.8898,0 1/1:51:1,50:1:36:50:1796:-82.5216,-12.0535,0 chr01 28564791 . 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T C 16302.3 PASS AB=0.669594;ABP=230.6;AC=25;AF=0.595238;AN=42;AO=699;CIGAR=1X;DP=1001;DPB=1001;DPRA=0;EPP=171.661;EPPR=39.6203;GTI=1;LEN=1;MEANALT=1.09524;MQM=55.2175;MQMR=58.8227;NS=21;NUMALT=1;ODDS=2.30411;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24387;QR=10675;RO=299;RPL=697;RPP=1503.55;RPPR=652.281;RPR=2;RUN=1;SAF=231;SAP=177.502;SAR=468;SRF=114;SRP=39.6203;SRR=185;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:33:15,18:15:532:18:615:-45.6731,0,-38.2787 0/1:26:8,18:8:288:18:629:-48.9694,0,-18.4397 1/1:16:0,16:0:0:16:529:-47.921,-4.81648,0 0/1:34:8,26:8:280:26:911:-71.7809,0,-15.2746 0/1:47:11,36:11:396:36:1260:-98.571,0,-21.8343 0/1:33:7,26:7:243:26:908:-71.5916,0,-12.2735 0/1:62:30,32:30:1076:32:1135:-81.2059,0,-78.3568 1/1:30:0,30:0:0:30:1046:-94.3791,-9.0309,0 0/1:68:8,60:8:288:60:2122:-169.635,0,-5.79737 1/1:33:1,32:1:36:32:1090:-90.9946,-6.33572,0 0/1:36:11,25:11:381:25:884:-67.8928,0,-23.7836 1/1:11:0,11:0:0:11:373:-33.5262,-3.31133,0 0/1:67:11,56:11:396:56:1964:-155.452,0,-15.8137 0/1:52:13,39:13:468:39:1328:-103.613,0,-26.8061 0/1:89:31,58:31:1107:58:2028:-155.188,0,-72.3871 0/1:45:14,31:14:504:31:1095:-85.1124,0,-31.1077 0/1:46:26,20:26:932:20:688:-48.2717,0,-70.3515 0/1:88:35,53:35:1256:53:1827:-137.636,0,-86.7848 0/1:30:6,24:6:207:24:847:-66.8685,0,-9.93599 0/1:50:18,31:18:644:31:1080:-82.3256,0,-43.1802 0/1:105:46,57:46:1641:57:2028:-151.017,0,-114.92 chr01 28623658 . C A 16100.6 PASS AB=0.476488;ABP=13.0174;AC=13;AF=0.309524;AN=42;AO=997;CIGAR=1X;DP=3238;DPB=3238;DPRA=1.23552;EPP=2141.99;EPPR=4854.08;GTI=0;LEN=1;MEANALT=1.11765;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=16.6059;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34964;QR=79563;RO=2238;RPL=0;RPP=2167.97;RPPR=4854.08;RPR=997;RUN=1;SAF=3;SAP=2141.99;SAR=994;SRF=0;SRP=4862.77;SRR=2238;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:58,64:58:2071:64:2272:-168.017,0,-149.934 0/1:29:13,14:13:468:14:504:-37.2279,0,-33.9893 0/1:178:84,94:84:2950:94:3319:-245.345,0,-212.15 0/1:306:152,154:152:5413:154:5410:-394.921,0,-395.184 0/1:314:185,128:185:6593:128:4416:-303.041,0,-498.868 0/1:139:61,78:61:2174:78:2722:-203.378,0,-154.082 0/1:146:53,93:53:1896:93:3258:-249.497,0,-126.968 0/1:121:72,49:72:2580:49:1728:-119.377,0,-196.025 0/1:292:149,143:149:5299:143:5002:-362.434,0,-389.145 0/1:14:3,11:3:104:11:396:-31.7683,0,-5.48839 0/0:13:13,0:13:449:0:0:0,-3.91339,-40.7375 0/0:40:40,0:40:1418:0:0:0,-12.0412,-127.916 0/0:396:396,0:396:14114:0:0:0,-119.208,-1270.03 0/0:208:207,1:207:7307:1:32:0,-59.4149,-654.487 0/0:207:206,1:206:7338:1:36:0,-58.7149,-656.872 0/0:69:69,0:69:2458:0:0:0,-20.7711,-221.474 0/1:72:45,27:45:1616:27:972:-66.1237,0,-124.056 0/1:185:101,84:101:3540:84:2957:-210.673,0,-263.117 0/1:166:112,54:112:4004:54:1883:-119.777,0,-310.579 0/0:104:103,1:103:3649:1:21:0,-29.2072,-326.513 0/0:117:116,1:116:4122:1:36:0,-31.6222,-367.565 chr01 28672121 . C T 10957.5 PASS AB=0.487627;ABP=4.83724;AC=13;AF=0.309524;AN=42;AO=671;CIGAR=1X;DP=1946;DPB=1946;DPRA=1.44212;EPP=1460.07;EPPR=2760.79;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9881;MQMR=59.9937;NS=21;NUMALT=1;ODDS=3.24899;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23750;QR=44919;RO=1274;RPL=671;RPP=1460.07;RPPR=2760.79;RPR=0;RUN=1;SAF=671;SAP=1460.07;SAR=0;SRF=1274;SRP=2769.47;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:48,66:48:1712:66:2343:-176.812,0,-120.048 0/1:64:47,17:47:1680:17:608:-35.7861,0,-132.221 0/1:133:74,59:74:2627:59:2083:-147.703,0,-196.641 0/1:151:75,76:75:2615:76:2672:-195.269,0,-190.14 0/1:151:72,78:72:2566:78:2778:-204.785,0,-185.714 0/1:88:54,34:54:1932:34:1220:-83.6162,0,-147.666 0/1:155:69,86:69:2468:86:3020:-225.371,0,-175.714 0/1:154:66,88:66:2321:88:3133:-235.836,0,-162.789 0/1:196:103,93:103:3608:93:3283:-236.689,0,-265.923 0/1:11:7,4:7:248:4:140:-9.63325,0,-19.3529 0/0:8:8,0:8:280:0:0:0,-2.40824,-25.5393 0/0:17:17,0:17:594:0:0:0,-5.11751,-53.7856 0/0:115:115,0:115:4056:0:0:0,-34.6184,-365.228 0/0:129:129,0:129:4506:0:0:0,-38.8329,-405.714 0/0:133:133,0:133:4702:0:0:0,-40.037,-423.343 0/0:52:52,0:52:1838:0:0:0,-15.6536,-165.699 0/1:48:23,25:23:819:25:892:-66.1502,0,-59.5821 0/1:70:39,31:39:1347:31:1091:-77.4266,0,-100.452 0/1:39:26,13:26:914:13:451:-29.1797,0,-70.8345 0/0:71:70,1:70:2484:1:36:0,-17.7749,-220.213 0/0:47:47,0:47:1602:0:0:0,-14.1484,-144.461 chr01 28747144 . AG CA,CG 33403.8 PASS AB=0.699063,0.298595;ABP=296.947,303.904;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1096,256;CIGAR=2X,1X1M;DP=1355;DPB=1355;DPRA=0,1.16462;EPP=467.135,550.255;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.80952,2.14286;MQM=59.7135,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.18411;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38764,8860;QR=0;RO=0;RPL=3,0;RPP=2356.96,558.907;RPPR=0;RPR=1093,256;RUN=1,1;SAF=793,1;SAP=478.713,550.255;SAR=303,255;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:68:0,55,13:0:0:55,13:1910,443:-191.539,-36.2822,-19.7255,-155.598,0,-151.685 1/2:56:0,26,29:0:0:26,29:936,1005:-158.048,-81.669,-73.8422,-76.3729,0,-67.643 1/2:50:0,40,10:0:0:40,10:1430,347:-145.161,-28.5533,-16.5121,-116.957,0,-113.947 1/2:72:0,54,18:0:0:54,18:1899,618:-205.106,-50.5222,-34.2666,-154.929,0,-149.511 1/2:98:0,69,29:0:0:69,29:2434,975:-277.524,-79.3238,-58.5527,-198.542,0,-189.812 1/2:59:0,29,30:0:0:29,30:1040,1060:-171.492,-86.6804,-77.9505,-85.1674,0,-76.1365 1/2:77:0,41,36:0:0:41,36:1472,1263:-223.212,-103.135,-90.7924,-120.432,0,-109.595 1/2:63:0,49,14:0:0:49,14:1752,487:-182.808,-39.9448,-25.1943,-143.213,0,-138.999 1/2:86:0,72,14:0:0:72,14:2559,486:-248.328,-39.8535,-18.1794,-208.823,0,-204.608 1/2:16:0,13,3:0:0:13,3:444,108:-45.1632,-9.17208,-5.25869,-36.3474,0,-35.4443 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:23:0,23,0:0:0:23,0:824,0:-74.4789,-6.92369,0,-74.4789,-6.92369,-74.4789 1/1:94:0,93,1:0:0:93,1:3300,36:-296.813,-27.9958,0,-293.875,-24.6985,-293.574 1/1:74:0,73,0:0:0:73,0:2558,0:-230.082,-21.9752,0,-230.082,-21.9752,-230.082 1/1:120:0,120,0:0:0:120,0:4253,0:-382.937,-36.1236,0,-382.937,-36.1236,-382.937 1/1:61:0,61,0:0:0:61,0:2130,0:-191.958,-18.3628,0,-191.958,-18.3628,-191.958 1/2:37:0,25,12:0:0:25,12:880,406:-104.898,-33.2518,-25.726,-71.9886,0,-68.3762 1/2:65:0,39,25:0:0:39,25:1368,883:-183.198,-71.9021,-60.162,-111.288,0,-103.762 1/2:107:0,85,22:0:0:85,22:3028,743:-307.368,-60.5587,-34.9712,-247.151,0,-240.528 1/1:44:0,44,0:0:0:44,0:1536,0:-138.49,-13.2453,0,-138.49,-13.2453,-138.49 1/1:76:0,76,0:0:0:76,0:2687,0:-242.057,-22.8783,0,-242.057,-22.8783,-242.057 chr01 28928909 . 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T G 13620.7 PASS AB=0.442553;ABP=29.955;AC=29;AF=0.690476;AN=42;AO=792;CIGAR=1X;DP=1316;DPB=1316;DPRA=0;EPP=1722.82;EPPR=1140.86;GTI=1;LEN=1;MEANALT=1;MQM=38.0076;MQMR=59.9733;NS=21;NUMALT=1;ODDS=1.82256;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28244;QR=18805;RO=524;RPL=0;RPP=1722.82;RPPR=1140.86;RPR=792;RUN=1;SAF=792;SAP=1722.82;SAR=0;SRF=524;SRP=1140.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:26:11,15:11:396:15:540:-38.664,0,-28.156 0/1:66:44,22:44:1580:22:792:-44.5089,0,-122.624 0/1:49:28,21:28:1008:21:756:-50.0522,0,-76.2859 0/1:94:59,35:59:2112:35:1252:-79.3087,0,-162.052 0/1:215:127,88:127:4556:88:3133:-202.048,0,-345.484 0/1:82:51,31:51:1821:31:1116:-64.6896,0,-139.485 0/1:85:38,47:38:1368:47:1684:-111.475,0,-97.8333 0/1:17:10,7:10:360:7:252:-15.4025,0,-27.6268 0/1:156:74,82:74:2656:82:2929:-208.002,0,-192.289 0/1:7:6,1:6:216:1:36:-1.23894,0,-17.6833 1/1:4:0,4:0:0:4:144:-10.9382,-1.20412,0 1/1:16:0,16:0:0:16:557:-46.5074,-4.81648,0 1/1:72:0,72:0:0:72:2569:-218.818,-21.6742,0 1/1:50:0,50:0:0:50:1785:-152.482,-15.0515,0 1/1:61:0,61:0:0:61:2169:-185.535,-18.3628,0 1/1:56:0,56:0:0:56:1978:-171.412,-16.8577,0 0/1:59:35,24:35:1260:24:849:-56.5158,0,-95.9447 0/1:48:30,18:30:1080:18:648:-39.9117,0,-83.0638 0/1:36:11,25:11:392:25:885:-65.0224,0,-24.783 1/1:72:0,72:0:0:72:2554:-212.716,-21.6742,0 1/1:45:0,45:0:0:45:1616:-130.597,-13.5464,0 chr01 28984561 . T A 10508.1 PASS AB=0.497995;ABP=3.05383;AC=13;AF=0.309524;AN=42;AO=623;CIGAR=1X;DP=1994;DPB=1994;DPRA=1.08254;EPP=1347.17;EPPR=2898.1;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=12.9865;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22278;QR=49039;RO=1369;RPL=622;RPP=1347.17;RPPR=2898.1;RPR=1;RUN=1;SAF=0;SAP=1355.84;SAR=623;SRF=0;SRP=2975.76;SRR=1369;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:70:29,41:29:1028:41:1472:-111.704,0,-71.7609 0/1:90:46,44:46:1656:44:1568:-114.319,0,-122.236 0/1:88:39,49:39:1396:49:1747:-131.023,0,-99.4485 0/1:136:74,60:74:2660:60:2143:-152.439,0,-198.947 0/1:210:103,107:103:3685:107:3840:-282.579,0,-268.635 0/1:78:37,41:37:1332:41:1476:-109.656,0,-96.702 0/1:116:58,58:58:2072:58:2042:-149.13,0,-151.831 0/1:105:51,54:51:1821:54:1935:-142.818,0,-132.561 0/1:115:58,57:58:2084:57:2052:-150.333,0,-153.212 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.755 0/0:282:282,0:282:10124:0:0:0,-84.8905,-911.088 0/0:117:115,2:115:4128:2:72:0,-28.3838,-364.866 0/0:80:80,0:80:2872:0:0:0,-24.0824,-258.716 0/0:42:42,0:42:1489:0:0:0,-12.6433,-134.303 0/1:36:17,19:17:612:19:672:-49.9698,0,-44.5764 0/1:105:56,49:56:2000:49:1747:-125.905,0,-148.666 0/1:79:49,30:49:1760:30:1080:-73.7319,0,-134.903 0/0:114:114,0:114:4073:0:0:0,-34.3174,-366.755 0/0:45:45,0:45:1595:0:0:0,-13.5463,-143.84 chr01 28986759 . T C 26424.8 PASS AB=0.494677;ABP=3.35706;AC=30;AF=0.714286;AN=42;AO=1326;CIGAR=1X;DP=2043;DPB=2043;DPRA=0;EPP=2821.9;EPPR=1508.28;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.96121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47329;QR=25659;RO=717;RPL=1322;RPP=2847.74;RPPR=1508.28;RPR=4;RUN=1;SAF=3;SAP=2856.38;SAR=1323;SRF=0;SRP=1559.96;SRR=717;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:64,51:64:2291:51:1832:-130.542,0,-171.832 0/1:86:33,53:33:1188:53:1900:-145.389,0,-81.34 0/1:93:54,39:54:1932:39:1383:-96.7723,0,-146.161 0/1:162:86,76:86:3084:76:2724:-196.636,0,-229.021 0/1:214:83,131:83:2968:131:4672:-356.223,0,-202.933 0/1:112:58,54:58:2068:54:1923:-139.631,0,-152.676 0/1:172:84,88:84:3012:88:3132:-230.328,0,-219.534 0/1:106:69,37:69:2476:37:1320:-87.1928,0,-191.184 0/1:116:66,50:66:2356:50:1772:-124.842,0,-177.38 1/1:6:0,6:0:0:6:207:-18.9669,-1.80618,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:30:0,30:0:0:30:1072:-96.7925,-9.0309,0 1/1:167:1,166:1:36:166:5920:-529.311,-46.6737,0 1/1:107:0,107:0:0:107:3827:-344.626,-32.2102,0 1/1:103:0,103:0:0:103:3691:-332.391,-31.0061,0 1/1:88:0,88:0:0:88:3152:-283.905,-26.4906,0 0/1:124:60,64:60:2144:64:2284:-168.494,0,-155.9 0/1:52:31,21:31:1104:21:756:-52.7137,0,-84.0171 0/1:57:24,33:24:856:33:1176:-88.9891,0,-60.2024 1/1:88:3,85:3:108:85:3015:-261.506,-16.4155,0 1/1:37:1,36:1:36:36:1283:-112.174,-7.53984,0 chr01 28988528 . GA TA,TG 31570 PASS AB=0.52381,0.474206;ABP=7.97367,8.83536;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1033,479;CIGAR=1X1M,2X;DP=1515;DPB=1515;DPRA=0,1.19085;EPP=2220.16,1034.48;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.80952,2.14286;MQM=60,59.9478;MQMR=0;NS=21;NUMALT=2;ODDS=6.24813;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36656,16911;QR=0;RO=0;RPL=1031,479;RPP=2228.8,1043.15;RPPR=0;RPR=2,0;RUN=1,1;SAF=1,1;SAP=2237.46,1034.48;SAR=1032,478;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:103:0,43,60:0:0:43,60:1540,2087:-295.616,-170.021,-157.076,-125.949,0,-107.887 1/2:38:0,16,22:0:0:16,22:568,768:-109.099,-62.8155,-57.9991,-46.6354,0,-40.0127 1/2:56:0,36,20:0:0:36,20:1288,707:-162.965,-57.9332,-47.0961,-105.387,0,-99.3659 1/2:85:0,37,48:0:0:37,48:1323,1712:-247.792,-139.915,-128.777,-108.234,0,-93.7844 1/2:160:0,86,73:0:0:86,73:3042,2591:-458.971,-211.204,-185.316,-247.879,0,-225.904 1/2:94:0,51,43:0:0:51,43:1794,1519:-270.093,-124.057,-108.705,-146.388,0,-133.444 1/2:156:0,78,77:0:0:78,77:2758,2711:-445.43,-220.802,-197.322,-224.728,0,-201.549 1/2:44:0,31,13:0:0:31,13:1103,468:-128.436,-38.5463,-29.2143,-90.2479,0,-86.3345 1/2:85:0,45,40:0:0:45,40:1600,1419:-246.354,-115.966,-102.419,-130.744,0,-118.703 1/2:12:0,3,9:0:0:3,9:108,322:-35.4277,-26.6149,-25.7119,-9.17208,0,-6.46281 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:85:0,84,0:0:0:84,0:2965,0:-266.724,-25.2865,0,-266.724,-25.2865,-266.724 1/1:76:0,76,0:0:0:76,0:2716,0:-244.684,-22.8783,0,-244.684,-22.8783,-244.684 1/1:197:0,197,0:0:0:197,0:6970,0:-627.368,-59.3029,0,-627.368,-59.3029,-627.368 1/1:44:0,44,0:0:0:44,0:1570,0:-141.591,-13.2453,0,-141.591,-13.2453,-141.591 1/2:80:0,50,30:0:0:50,30:1768,1070:-231.577,-87.5809,-72.5294,-144.352,0,-135.321 1/2:52:0,22,30:0:0:22,30:776,1063:-150.136,-86.9498,-80.3272,-63.5389,0,-54.508 1/2:43:0,30,13:0:0:30,13:1063,451:-123.607,-37.0058,-27.9749,-86.9506,0,-83.0372 1/1:59:0,58,1:0:0:58,1:2069,23:-186.247,-17.4597,0,-184.48,-15.4609,-184.179 1/1:32:0,32,0:0:0:32,0:1131,0:-102.098,-9.63296,0,-102.098,-9.63296,-102.098 chr01 28989834 . GTGT ATGC,GTGC 37375 PASS AB=0.489568,0.503726;ABP=4.27888,3.17211;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1159,680;CIGAR=1X2M1X,3M1X;DP=1849;DPB=1849;DPRA=0,2.24419;EPP=2467.9,1453.67;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.19048,2.5625;MQM=53.4461,59.5191;MQMR=0;NS=21;NUMALT=2;ODDS=4.00374;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40379,24045;QR=0;RO=0;RPL=1154,677;RPP=2476.5,1453.67;RPPR=0;RPR=5,3;RUN=1,1;SAF=1158,680;SAP=2511.07,1479.61;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:92:0,37,53:0:0:37,53:1290,1870:-256.908,-152.18,-141.042,-104.722,0,-88.7671 1/2:27:0,10,17:0:0:10,17:348,612:-78.3308,-50.2877,-47.2774,-28.3936,0,-23.2761 1/2:127:0,60,67:0:0:60,67:2103,2375:-364.586,-193.834,-175.772,-171.104,0,-150.935 1/2:97:0,53,43:0:0:53,43:1861,1532:-276.195,-124.953,-108.999,-151.381,0,-138.436 1/2:207:0,91,115:0:0:91,115:3166,4092:-590.523,-333.589,-306.195,-257.033,0,-222.415 1/2:65:0,31,33:0:0:31,33:1056,1156:-179.592,-94.1431,-84.8112,-85.5391,0,-75.6051 1/2:158:0,88,69:0:0:88,69:3029,2425:-442.392,-197.326,-170.836,-245.054,0,-224.283 1/2:150:0,68,82:0:0:68,82:2352,2911:-426.609,-237.427,-216.957,-189.53,0,-164.845 1/2:178:0,81,95:0:0:81,95:2867,3363:-507.151,-273.978,-249.595,-233.223,0,-204.625 1/2:22:0,14,8:0:0:14,8:491,275:-61.7618,-22.6465,-18.4321,-39.4588,0,-37.0505 1/1:4:0,4,0:0:0:4,0:137,0:-12.4541,-1.20412,0,-12.4541,-1.20412,-12.4541 1/1:11:0,11,0:0:0:11,0:380,0:-34.2358,-3.31133,0,-34.2358,-3.31133,-34.2358 1/1:137:0,135,2:0:0:135,2:4731,72:-424.991,-40.6391,0,-419.116,-34.4044,-418.514 1/1:107:0,106,1:0:0:106,1:3670,36:-329.708,-31.9092,0,-326.773,-28.6145,-326.472 1/1:119:0,119,0:0:0:119,0:4126,0:-371.188,-35.8226,0,-371.188,-35.8226,-371.188 1/1:30:0,30,0:0:0:30,0:1042,0:-94.0374,-9.0309,0,-94.0374,-9.0309,-94.0374 1/2:60:0,38,22:0:0:38,22:1355,780:-174.192,-63.8976,-52.4585,-110.65,0,-104.027 1/2:81:0,41,39:0:0:41,39:1424,1374:-225.507,-111.896,-99.5537,-113.752,0,-102.012 1/2:78:0,45,33:0:0:45,33:1556,1140:-218.994,-92.8799,-79.3335,-126.459,0,-116.525 1/1:62:0,62,0:0:0:62,0:2175,0:-194.486,-18.6639,0,-194.486,-18.6639,-194.486 1/1:37:0,35,1:0:0:35,1:1220,32:-109.161,-10.5361,0,-106.587,-7.97452,-106.286 chr01 28991201 . G A 8817.44 PASS AB=0.472509;ABP=10.6515;AC=13;AF=0.309524;AN=42;AO=550;CIGAR=1X;DP=1732;DPB=1732;DPRA=1.26111;EPP=1197.32;EPPR=2569.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9945;MQMR=60;NS=21;NUMALT=1;ODDS=6.83411;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19402;QR=41668;RO=1182;RPL=0;RPP=1197.32;RPPR=2569.69;RPR=550;RUN=1;SAF=0;SAP=1197.32;SAR=550;SRF=0;SRP=2569.69;SRR=1182;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:47,30:47:1652:30:1017:-68.6538,0,-125.786 0/1:70:40,30:40:1399:30:1072:-75.7204,0,-105.131 0/1:135:77,58:77:2717:58:2040:-143.231,0,-204.135 0/1:64:23,41:23:813:41:1439:-110.537,0,-54.2232 0/1:195:101,94:101:3572:94:3325:-240.767,0,-262.988 0/1:73:41,32:41:1460:32:1148:-81.6546,0,-109.721 0/1:144:66,78:66:2328:78:2772:-206.374,0,-166.43 0/1:39:26,13:26:909:13:464:-30.3573,0,-70.3832 0/1:136:52,84:52:1852:84:2979:-227.403,0,-126.02 0/1:15:6,9:6:216:9:324:-24.9904,0,-15.2751 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:30:30,0:30:1060:0:0:0,-9.0309,-95.7113 0/0:117:117,0:117:4144:0:0:0,-35.2205,-373.146 0/0:115:115,0:115:4096:0:0:0,-34.6184,-368.828 0/0:130:130,0:130:4606:0:0:0,-39.1339,-414.706 0/0:34:34,0:34:1195:0:0:0,-10.235,-107.855 0/1:35:21,14:21:740:14:485:-33.4409,0,-56.3873 0/1:101:60,41:60:2064:41:1409:-96.6992,0,-155.623 0/1:80:54,26:54:1878:26:928:-59.7559,0,-145.215 0/0:80:80,0:80:2826:0:0:0,-24.0824,-254.577 0/0:57:57,0:57:1965:0:0:0,-17.1587,-177.121 chr01 29199514 . ATC ATT,ATTAA 15256 PASS AB=0.518828,0.445607;ABP=4.48218,15.2941;AC=29,13;AF=0.690476,0.309524;AN=42;AO=544,214;CIGAR=2M1X,2M2I1X;DP=777;DPB=932.333;DPRA=0,0.872792;EPP=1184.29,467.705;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.28571,2.78571;MQM=47.1324,52.1542;MQMR=0;NS=21;NUMALT=2;ODDS=2.86025;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19348,7247;QR=0;RO=0;RPL=544,214;RPP=1184.29,467.705;RPPR=0;RPR=0,0;RUN=1,1;SAF=544,214;SAP=1184.29,467.705;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,14,37:0:0:14,37:500,1257:-142.031,-101.545,-97.3305,-40.487,0,-29.3489 1/2:19:0,8,10:0:0:8,10:273,312:-46.235,-24.8943,-22.486,-21.3079,0,-18.2976 1/2:39:0,23,16:0:0:23,16:824,542:-110.884,-44.1663,-37.2426,-67.063,0,-62.2465 1/2:38:0,22,15:0:0:22,15:783,509:-104.247,-41.2114,-34.5888,-63.0244,0,-58.5089 1/2:98:0,53,43:0:0:53,43:1875,1444:-268.494,-116.801,-100.846,-151.702,0,-138.758 1/2:16:0,10,5:0:0:10,5:351,178:-42.6143,-14.4215,-11.4112,-28.1862,0,-26.681 1/2:43:0,15,28:0:0:15,28:536,946:-118.946,-76.4706,-71.9552,-42.8193,0,-34.3904 1/2:22:0,10,11:0:0:10,11:360,378:-59.6231,-30.6201,-27.6098,-29.0113,0,-25.7 1/2:40:0,25,15:0:0:25,15:892,501:-112.871,-40.6885,-33.1627,-72.5236,0,-68.0081 1/2:6:0,3,2:0:0:3,2:108,72:-14.3766,-5.66976,-4.76667,-8.7022,0,-8.10014 1/1:5:0,5,0:0:0:5,0:180,0:-16.3724,-1.50515,0,-16.3724,-1.50515,-16.3724 1/1:16:0,15,1:0:0:15,1:540,36:-47.3558,-4.51545,0,-44.426,-1.22725,-44.125 1/1:67:0,66,0:0:0:66,0:2326,0:-207.426,-19.868,0,-207.426,-19.868,-207.426 1/1:53:0,52,0:0:0:52,0:1856,0:-165.922,-15.6536,0,-165.922,-15.6536,-165.922 1/1:41:0,41,0:0:0:41,0:1468,0:-131.509,-12.3422,0,-131.509,-12.3422,-131.509 1/1:8:0,8,0:0:0:8,0:288,0:-26.1563,-2.40824,0,-26.1563,-2.40824,-26.1563 1/2:19:0,8,8:0:0:8,8:288,281:-46.0778,-22.861,-20.4528,-23.223,0,-20.8148 1/2:47:0,35,11:0:0:35,11:1244,385:-131.058,-31.2412,-20.7052,-99.8077,0,-96.4964 1/2:36:0,22,12:0:0:22,12:784,406:-95.4402,-32.8553,-26.2326,-62.5719,0,-58.9595 1/1:71:0,71,0:0:0:71,0:2521,0:-223.262,-21.3731,0,-223.262,-21.3731,-223.262 1/1:38:0,38,0:0:0:38,0:1351,0:-119.772,-11.4391,0,-119.772,-11.4391,-119.772 chr01 29205314 . AACC GACT 17544.3 PASS AB=0.5;ABP=3.0103;AC=13;AF=0.309524;AN=42;AO=878;CIGAR=1X2M1X;DP=2542;DPB=2542.25;DPRA=1.35547;EPP=1909.56;EPPR=3607.65;GTI=0;LEN=4;MEANALT=1.14286;MQM=59.7483;MQMR=60;NS=21;NUMALT=1;ODDS=1.528;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=30789;QR=56686;RO=1660;RPL=738;RPP=887.438;RPPR=2303.04;RPR=140;RUN=1;SAF=738;SAP=887.438;SAR=140;SRF=1493;SRP=2303.04;SRR=167;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:185:87,98:87:2984:98:3392:-249.806,0,-213.108 0/1:113:51,61:51:1766:61:2159:-160.499,0,-125.145 0/1:129:69,60:69:2382:60:2133:-153.4,0,-175.806 0/1:155:72,83:72:2418:83:2926:-216.907,0,-171.217 0/1:185:102,83:102:3542:83:2887:-204.274,0,-263.305 0/1:88:39,49:39:1318:49:1743:-130.655,0,-92.4223 0/1:180:104,75:104:3586:75:2649:-184.541,0,-268.858 0/1:169:66,103:66:2209:103:3602:-273.511,0,-148.201 0/1:202:96,106:96:3265:106:3711:-273.386,0,-233.269 0/1:17:8,9:8:279:9:318:-23.8401,0,-20.3307 0/0:8:8,0:8:253:0:0:0,-2.40824,-23.0807 0/0:33:33,0:33:1130:0:0:0,-9.93399,-102.003 0/0:105:103,2:103:3470:2:72:0,-24.7714,-305.685 0/0:178:177,0:177:5993:0:0:0,-53.2823,-539.143 0/0:152:152,0:152:5300:0:0:0,-45.7566,-477.147 0/0:123:122,0:122:4193:0:0:0,-36.7257,-377.204 0/1:147:71,76:71:2440:76:2665:-195.484,0,-175.244 0/1:121:65,56:65:2209:56:1942:-138.465,0,-162.65 0/1:61:44,17:44:1505:17:590:-35.0627,0,-117.378 0/0:110:110,0:110:3744:0:0:0,-33.1133,-337.172 0/0:81:81,0:81:2700:0:0:0,-24.3834,-243.249 chr01 29205399 . G A 8182.42 PASS AB=0.431535;ABP=52.0712;AC=13;AF=0.309524;AN=42;AO=522;CIGAR=1X;DP=1940;DPB=1940;DPRA=1.33991;EPP=1136.52;EPPR=3069.14;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.8161;MQMR=59.964;NS=21;NUMALT=1;ODDS=4.47089;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18624;QR=50264;RO=1416;RPL=522;RPP=1136.52;RPPR=3077.82;RPR=0;RUN=1;SAF=0;SAP=1136.52;SAR=522;SRF=1;SRP=3069.14;SRR=1415;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:35,7:35:1240:7:252:-10.0259,0,-98.9015 0/1:15:13,2:13:464:2:72:-2.32127,0,-37.5821 0/1:177:95,82:95:3380:82:2918:-209.574,0,-251.135 0/1:118:67,51:67:2396:51:1795:-125.53,0,-180.339 0/1:79:42,37:42:1495:37:1312:-94.4911,0,-110.435 0/1:92:59,33:59:2107:33:1184:-79.1736,0,-162.202 0/1:153:78,75:78:2788:75:2662:-192.829,0,-205.103 0/1:107:53,54:53:1887:54:1936:-142.306,0,-137.898 0/1:255:147,108:147:5211:108:3869:-271.64,0,-392.369 0/1:25:15,10:15:532:10:360:-25.2186,0,-40.6873 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:64:63,0:63:2240:0:0:0,-18.9649,-201.504 0/0:170:169,1:169:6020:1:36:0,-47.5768,-538.308 0/0:155:155,0:155:5419:0:0:0,-46.6596,-487.848 0/0:156:156,0:156:5527:0:0:0,-46.9607,-497.559 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/1:69:39,30:39:1396:30:1080:-76.7422,0,-105.168 0/1:62:38,24:38:1351:24:860:-59.058,0,-103.226 0/0:119:118,1:118:4171:1:36:0,-32.2243,-371.976 0/0:57:57,0:57:2032:0:0:0,-17.1587,-183.153 chr01 29268787 . GATGTTC AATGGTC,AATGGTA 33564.9 PASS AB=0.529647,0.463942;ABP=12.5383,17.104;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1346,581;CIGAR=1X3M1X2M,1X3M1X1M1X;DP=1939;DPB=1939;DPRA=0,1.65924;EPP=2925.81,1264.64;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.09524,2.5;MQM=41.8655,28.3098;MQMR=0;NS=21;NUMALT=2;ODDS=4.65654;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46318,20176;QR=0;RO=0;RPL=1346,581;RPP=2925.81,1264.64;RPPR=0;RPR=0,0;RUN=1,1;SAF=1346,581;SAP=2925.81,1264.64;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:150:0,64,85:0:0:64,85:2234,2983:-360.381,-183.756,-164.49,-176.685,0,-151.098 1/2:53:0,24,29:0:0:24,29:836,1009:-127.925,-61.9397,-54.7149,-66.2932,0,-57.5634 1/2:120:0,76,42:0:0:76,42:2617,1459:-297.34,-90.5653,-67.687,-206.821,0,-194.177 1/2:102:0,53,49:0:0:53,49:1806,1707:-249.284,-107.026,-91.0712,-142.56,0,-127.81 1/2:181:0,97,84:0:0:97,84:3292,2906:-439.092,-180.853,-151.653,-258.538,0,-233.251 1/2:66:0,33,33:0:0:33,33:1170,1132:-162.521,-70.0699,-60.1359,-92.7581,0,-82.8241 1/2:104:0,48,54:0:0:48,54:1668,1853:-247.498,-115.495,-101.046,-132.047,0,-115.791 1/2:134:0,69,65:0:0:69,65:2345,2252:-327.628,-142.298,-121.526,-185.634,0,-166.067 1/2:126:0,70,53:0:0:70,53:2377,1815:-300.88,-113.201,-92.1288,-187.669,0,-171.714 1/1:4:0,4,0:0:0:4,0:142,0:-12.7643,-1.20412,0,-12.7643,-1.20412,-12.7643 1/1:4:0,4,0:0:0:4,0:143,0:-12.8844,-1.20412,0,-12.8844,-1.20412,-12.8844 1/1:29:0,29,0:0:0:29,0:1021,0:-89.9663,-8.72987,0,-89.9663,-8.72987,-89.9663 1/1:76:0,73,0:0:0:73,0:2560,0:-225.405,-21.9752,0,-225.405,-21.9752,-225.405 1/1:138:0,137,1:0:0:137,1:4584,29:-401.709,-41.2411,0,-399.719,-38.9957,-399.418 1/1:180:0,180,0:0:0:180,0:6200,0:-544.684,-54.1854,0,-544.684,-54.1854,-544.684 1/1:104:0,103,1:0:0:103,1:3560,36:-312.173,-31.0061,0,-310.012,-28.5709,-309.711 1/2:66:0,44,22:0:0:44,22:1529,753:-168.171,-47.025,-33.7797,-121.439,0,-114.817 1/2:101:0,53,48:0:0:53,48:1833,1711:-248.43,-103.772,-87.8172,-144.962,0,-130.512 1/2:45:0,30,15:0:0:30,15:1012,531:-112.317,-32.5454,-23.5145,-80.0629,0,-75.5475 1/1:118:0,118,0:0:0:118,0:4103,0:-361.716,-35.5215,0,-361.716,-35.5215,-361.716 1/1:38:0,37,0:0:0:37,0:1286,0:-112.539,-11.1381,0,-112.539,-11.1381,-112.539 chr01 29531653 . GTTTTCTTTTTCCTCTTCTG GTTTTTTTTCCTCTTCCG,GTTCTTTTTCCTCTTCTG 27892.6 PASS AB=0.539313,0.44629;ABP=15.1326,25.6364;AC=29,13;AF=0.690476,0.309524;AN=42;AO=961,405;CIGAR=4M2D12M1X1M,1M2D17M;DP=1393;DPB=1253.4;DPRA=0,1.61884;EPP=2089.8,882.457;EPPR=5.18177;GTI=0;LEN=18,2;MEANALT=2.61905,3;MQM=59.9657,59.9901;MQMR=60;NS=21;NUMALT=2;ODDS=9.6228;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33765,14203;QR=35;RO=1;RPL=961,405;RPP=2089.8,882.457;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2089.8,882.457;SAR=961,405;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,34,36:0:0:34,36:1190,1253:-199.05,-102.233,-91.998,-97.166,0,-86.3289 1/2:5:0,2,3:0:0:2,3:72,104:-14.6619,-8.79971,-8.19765,-6.21613,0,-5.31304 1/2:52:0,39,13:0:0:39,13:1343,426:-143.83,-34.7398,-22.9996,-109.422,0,-105.508 1/2:71:0,31,40:0:0:31,40:1093,1413:-204.417,-115.424,-106.092,-89.3457,0,-77.3045 1/2:110:0,48,61:0:0:48,61:1686,2165:-313.613,-176.393,-161.943,-137.213,0,-118.85 1/2:81:0,53,25:0:0:53,25:1854,884:-222.822,-71.9935,-56.0389,-150.822,0,-143.296 1/2:115:0,50,64:0:0:50,64:1781,2249:-328.205,-183.044,-167.993,-145.155,0,-125.889 1/2:80:0,46,34:0:0:46,34:1648,1200:-232.477,-98.0706,-84.2232,-134.761,0,-124.526 1/2:155:0,90,60:0:0:90,60:3186,2092:-429.663,-170.143,-143.05,-259.531,0,-241.47 1/2:5:0,2,3:0:0:2,3:72,108:-15.0469,-9.17208,-8.57002,-6.23466,0,-5.33157 1/1:11:0,11,0:0:0:11,0:384,0:-34.8947,-3.31133,0,-34.8947,-3.31133,-34.8947 1/1:37:0,36,0:0:0:36,0:1258,0:-113.159,-10.8371,0,-113.159,-10.8371,-113.159 1/1:90:0,90,0:0:0:90,0:3186,0:-286.963,-27.0927,0,-286.963,-27.0927,-286.963 1/1:70:0,67,0:0:0:67,0:2332,0:-209.775,-20.169,0,-209.775,-20.169,-209.775 1/1:154:0,144,1:0:0:144,1:5024,36:-451.974,-43.3483,0,-449.036,-40.4076,-448.735 1/1:22:0,22,0:0:0:22,0:754,0:-68.1733,-6.62266,0,-68.1733,-6.62266,-68.1733 1/2:17:0,9,8:0:0:9,8:316,273:-48.2158,-22.4919,-19.7827,-26.0696,0,-23.6613 1/2:70:0,35,34:0:0:35,34:1198,1199:-194.852,-97.6202,-87.0841,-97.2201,0,-86.9851 1/2:72:1,48,22:1:35:48,22:1694,765:-196.971,-59.343,-47.7414,-135.077,0,-131.302 1/1:60:0,58,1:0:0:58,1:2072,36:-186.391,-17.4597,0,-183.454,-14.5223,-183.153 1/1:46:0,46,0:0:0:46,0:1622,0:-146.265,-13.8474,0,-146.265,-13.8474,-146.265 chr01 29531782 . T C 4055.21 PASS AB=0.524246;ABP=6.90643;AC=29;AF=0.690476;AN=42;AO=780;CIGAR=1X;DP=1143;DPB=1143;DPRA=0;EPP=1696.76;EPPR=771.808;GTI=0;LEN=1;MEANALT=1.04762;MQM=19.4462;MQMR=30.8453;NS=21;NUMALT=1;ODDS=7.78972;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27708;QR=12984;RO=362;RPL=780;RPP=1696.76;RPPR=771.808;RPR=0;RUN=1;SAF=0;SAP=1696.76;SAR=780;SRF=0;SRP=789.083;SRR=362;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:39,56:39:1400:56:1991:-66.8299,0,-71.8756 0/1:87:52,35:52:1868:35:1252:-39.7941,0,-117.829 0/1:79:31,47:31:1104:47:1660:-57.4504,0,-57.3471 0/1:38:17,21:17:612:21:744:-24.4659,0,-33.9027 0/1:145:76,69:76:2724:69:2444:-76.2486,0,-154.777 0/1:37:21,16:21:752:16:568:-19.082,0,-47.1701 0/1:74:34,40:34:1220:40:1419:-54.2847,0,-73.9344 0/1:47:23,24:23:824:24:852:-27.0402,0,-47.2946 0/1:40:20,20:20:720:20:704:-22.1502,0,-40.6987 0/1:7:3,4:3:108:4:144:-4.89144,0,-6.2389 1/1:7:0,7:0:0:7:244:-13.3184,-2.10721,0 1/1:25:0,25:0:0:25:892:-42.8959,-7.52575,0 1/1:59:0,59:0:0:59:2107:-100.727,-17.7608,0 1/1:60:0,60:0:0:60:2111:-102.509,-18.0618,0 1/1:129:0,129:0:0:129:4591:-220.204,-38.8329,0 1/1:36:0,36:0:0:36:1288:-61.452,-10.8371,0 0/1:55:24,31:24:864:31:1098:-36.3073,0,-43.8307 0/1:31:13,18:13:464:18:644:-21.6653,0,-24.7302 0/1:28:9,19:9:324:19:676:-24.2594,0,-15.3738 1/1:34:0,34:0:0:34:1216:-58.8348,-10.235,0 1/1:30:0,30:0:0:30:1063:-56.5232,-9.0309,0 chr01 29531792 . G C 4116.56 PASS AB=0.527632;ABP=8.0504;AC=29;AF=0.690476;AN=42;AO=787;CIGAR=1X;DP=1146;DPB=1146;DPRA=0;EPP=1711.96;EPPR=780.397;GTI=0;LEN=1;MEANALT=1.04762;MQM=19.4269;MQMR=30.7821;NS=21;NUMALT=1;ODDS=3.92199;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28057;QR=12672;RO=358;RPL=787;RPP=1711.96;RPPR=780.397;RPR=0;RUN=1;SAF=0;SAP=1711.96;SAR=787;SRF=0;SRP=780.397;SRR=358;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:41,55:41:1455:55:1968:-64.887,0,-75.7726 0/1:87:52,35:52:1855:35:1252:-39.7984,0,-117.736 0/1:76:29,47:29:1021:47:1676:-58.3155,0,-51.2813 0/1:37:15,22:15:528:22:784:-26.6571,0,-28.4559 0/1:148:76,72:76:2673:72:2572:-79.9835,0,-152.248 0/1:36:20,16:20:712:16:572:-19.4007,0,-44.4786 0/1:74:34,40:34:1201:40:1428:-54.3598,0,-72.9239 0/1:47:23,23:23:803:23:820:-25.461,0,-46.6767 0/1:40:20,20:20:716:20:708:-22.1615,0,-40.5946 0/1:6:2,4:2:72:4:140:-5.1809,0,-3.85725 1/1:8:0,8:0:0:8:288:-15.3202,-2.40824,0 1/1:25:0,25:0:0:25:884:-42.7033,-7.52575,0 1/1:59:0,59:0:0:59:2086:-100.644,-17.7608,0 1/1:61:0,61:0:0:61:2184:-104.352,-18.3628,0 1/1:132:0,132:0:0:132:4686:-225.093,-39.736,0 1/1:37:0,37:0:0:37:1332:-63.177,-11.1381,0 0/1:57:24,33:24:856:33:1169:-39.0152,0,-42.6154 0/1:29:13,16:13:464:16:576:-18.6973,0,-25.443 0/1:27:9,18:9:316:18:636:-22.8404,0,-15.4652 1/1:34:0,34:0:0:34:1224:-58.6812,-10.235,0 1/1:30:0,30:0:0:30:1072:-56.5984,-9.0309,0 chr01 29531796 . AT AA,GA 10413.6 PASS AB=0.527814,0.469599;ABP=8.20442,9.21571;AC=29,13;AF=0.690476,0.309524;AN=42;AO=796,363;CIGAR=1M1X,2X;DP=1162;DPB=1162;DPRA=0,1.22286;EPP=1731.5,791.255;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.7619,2.15385;MQM=19.4359,30.6364;MQMR=0;NS=21;NUMALT=2;ODDS=6.08834;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28448,12869;QR=0;RO=0;RPL=796,363;RPP=1731.5,791.255;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1731.5,791.255;SAR=796,363;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:0,56,41:0:0:56,41:1997,1457:-170.807,-92.5793,-75.7216,-78.4711,0,-66.1289 1/2:86:0,35,51:0:0:35,51:1245,1808:-179.62,-124.639,-114.103,-55.2291,0,-39.8766 1/2:79:0,47,32:0:0:47,32:1665,1150:-139.989,-73.3625,-59.2141,-66.8745,0,-57.2416 1/2:38:0,22,16:0:0:22,16:792,552:-67.2852,-36.3344,-29.7117,-31.1952,0,-26.3787 1/2:149:0,73,75:0:0:73,75:2594,2658:-275.441,-170.825,-148.849,-104.504,0,-81.9271 1/2:36:0,16,20:0:0:16,20:561,716:-74.4251,-49.4964,-44.68,-25.1799,0,-19.1593 1/2:76:0,41,35:0:0:41,35:1472,1239:-153.614,-87.6728,-75.3305,-66.2069,0,-55.6708 1/2:47:0,24,23:0:0:24,23:864,826:-88.253,-54.499,-47.2742,-33.9978,0,-27.0741 1/2:41:0,21,20:0:0:21,20:756,707:-75.5809,-46.2035,-39.8819,-29.6174,0,-23.5968 1/2:7:0,4,3:0:0:4,3:144,97:-12.4579,-6.90374,-5.69962,-5.79453,0,-4.89144 1/1:8:0,8,0:0:0:8,0:288,0:-15.3202,-2.40824,0,-15.3202,-2.40824,-15.3202 1/1:26:0,26,0:0:0:26,0:928,0:-44.6046,-7.82678,0,-44.6046,-7.82678,-44.6046 1/1:60:0,60,0:0:0:60,0:2141,0:-102.314,-18.0618,0,-102.314,-18.0618,-102.314 1/1:63:0,63,0:0:0:63,0:2253,0:-107.608,-18.9649,0,-107.608,-18.9649,-107.608 1/1:132:0,131,0:0:0:131,0:4700,0:-223.576,-39.4349,0,-223.576,-39.4349,-223.576 1/1:37:0,37,0:0:0:37,0:1332,0:-63.177,-11.1381,0,-63.177,-11.1381,-63.177 1/2:57:0,32,25:0:0:32,25:1152,871:-99.0149,-54.219,-44.5861,-45.0322,0,-37.5064 1/2:32:0,18,13:0:0:18,13:644,464:-55.3551,-30.0183,-24.5997,-25.3895,0,-21.4761 1/2:28:0,19,9:0:0:19,9:684,324:-47.8266,-21.0934,-15.3738,-26.9913,0,-24.282 1/1:34:0,34,0:0:0:34,0:1211,0:-58.3357,-10.235,0,-58.3357,-10.235,-58.3357 1/1:29:0,29,0:0:0:29,0:1025,0:-54.3926,-8.72987,0,-54.3926,-8.72987,-54.3926 chr01 29531868 . CTGA TTTA,TTTG 32345.5 PASS AB=0.585335,0.414665;ABP=53.042,53.042;AC=29,13;AF=0.690476,0.309524;AN=42;AO=914,329;CIGAR=1X1M1X1M,1X1M2X;DP=1244;DPB=1244.75;DPRA=0,1.15867;EPP=24.9056,11.0956;EPPR=0;GTI=0;LEN=4,4;MEANALT=1.71429,2;MQM=48.3403,44.9909;MQMR=0;NS=21;NUMALT=2;ODDS=9.55228;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=34,34;PQR=0;PRO=0;QA=31798,11634;QR=0;RO=0;RPL=870,313;RPP=1623.96,585.209;RPPR=0;RPR=44,16;RUN=1,1;SAF=461,131;SAP=3.16235,32.6387;SAR=453,198;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,39,16:0:0:39,16:1358,574:-152.631,-44.5537,-32.8136,-108.363,0,-103.546 1/2:40:0,24,16:0:0:24,16:825,572:-110.091,-46.8717,-39.6469,-63.564,0,-58.7476 1/2:48:0,33,15:0:0:33,15:1150,533:-129.619,-39.1654,-29.2314,-90.7802,0,-86.2648 1/2:51:0,29,22:0:0:29,22:1029,752:-137.449,-55.4827,-46.7529,-82.2931,0,-75.6704 1/2:102:0,46,56:0:0:46,56:1606,1974:-280.111,-152.861,-139.013,-127.589,0,-110.732 1/2:40:0,27,13:0:0:27,13:923,467:-110.442,-38.2728,-30.1449,-72.5184,0,-68.605 1/2:78:0,60,18:0:0:60,18:2028,648:-208.673,-53.0859,-35.0241,-155.937,0,-150.519 1/2:87:0,47,40:0:0:47,40:1655,1409:-239.51,-108.986,-94.8379,-130.862,0,-118.821 1/2:87:0,37,50:0:0:37,50:1291,1777:-243.666,-140.619,-129.481,-103.391,0,-88.3397 1/2:5:0,2,3:0:0:2,3:72,107:-14.9179,-9.04116,-8.4391,-6.23466,0,-5.33157 1/1:4:0,4,0:0:0:4,0:136,0:-12.575,-1.20412,0,-12.575,-1.20412,-12.575 1/1:22:0,22,0:0:0:22,0:743,0:-66.2319,-6.62266,0,-66.2319,-6.62266,-66.2319 1/1:104:0,104,0:0:0:104,0:3628,0:-319.361,-31.3071,0,-319.361,-31.3071,-319.361 1/1:79:0,79,0:0:0:79,0:2777,0:-244.415,-23.7814,0,-244.415,-23.7814,-244.415 1/1:55:0,55,0:0:0:55,0:1924,0:-169.442,-16.5567,0,-169.442,-16.5567,-169.442 1/1:36:0,36,0:0:0:36,0:1272,0:-113.473,-10.8371,0,-113.473,-10.8371,-113.473 1/2:29:0,17,12:0:0:17,12:593,425:-78.6334,-31.6433,-26.5257,-47.3207,0,-43.7083 1/2:84:0,42,42:0:0:42,42:1474,1472:-225.867,-110.504,-97.8606,-115.695,0,-103.051 1/2:85:0,60,25:0:0:60,25:2097,888:-232.94,-67.1505,-49.0887,-166.065,0,-158.539 1/1:78:0,77,1:0:0:77,1:2679,36:-233.112,-23.1793,0,-230.545,-20.2927,-230.244 1/1:75:0,74,0:0:0:74,0:2538,0:-218.723,-22.2762,0,-218.723,-22.2762,-218.723 chr01 29611871 . T C 15242.1 PASS AB=0.599455;ABP=66.0718;AC=29;AF=0.690476;AN=42;AO=772;CIGAR=1X;DP=1066;DPB=1066;DPRA=0;EPP=1679.39;EPPR=632.767;GTI=0;LEN=1;MEANALT=1;MQM=57.3135;MQMR=59.9354;NS=21;NUMALT=1;ODDS=9.0853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27340;QR=10474;RO=294;RPL=0;RPP=1679.39;RPPR=641.423;RPR=772;RUN=1;SAF=0;SAP=1679.39;SAR=772;SRF=1;SRP=632.767;SRR=293;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:14,27:14:492:27:963:-74.6184,0,-32.2701 0/1:40:16,24:16:576:24:855:-65.2085,0,-40.1338 0/1:53:29,24:29:1028:24:855:-61.2955,0,-76.8775 0/1:49:18,31:18:644:31:1108:-85.2528,0,-43.5401 0/1:124:48,76:48:1720:76:2689:-204.795,0,-117.758 0/1:76:25,51:25:888:51:1809:-139.929,0,-57.3607 0/1:89:33,56:33:1164:56:1972:-150.681,0,-78.2459 0/1:48:20,28:20:712:28:982:-74.067,0,-49.9572 0/1:83:33,50:33:1175:50:1780:-135.455,0,-81.0715 0/1:4:3,1:3:108:1:36:-2.39244,0,-8.87105 1/1:4:0,4:0:0:4:144:-13.3099,-1.20412,0 1/1:14:0,14:0:0:14:496:-44.955,-4.21442,0 1/1:71:0,71:0:0:71:2523:-227.126,-21.3731,0 1/1:54:0,54:0:0:54:1882:-169.561,-16.2556,0 1/1:77:0,77:0:0:77:2738:-246.43,-23.1793,0 1/1:40:0,40:0:0:40:1432:-129.074,-12.0412,0 0/1:41:10,31:10:347:31:1093:-86.2114,0,-19.2214 0/1:64:35,29:35:1260:29:1020:-72.7361,0,-94.4396 0/1:22:10,12:10:360:12:417:-31.1546,0,-26.1216 1/1:44:0,44:0:0:44:1555:-140.059,-13.2453,0 1/1:28:0,28:0:0:28:991:-89.2525,-8.42884,0 chr01 29611887 . C A 15790.3 PASS AB=0.606667;ABP=77.1299;AC=29;AF=0.690476;AN=42;AO=796;CIGAR=1X;DP=1091;DPB=1091;DPRA=0;EPP=1731.5;EPPR=643.595;GTI=0;LEN=1;MEANALT=1;MQM=57.0402;MQMR=59.8576;NS=21;NUMALT=1;ODDS=8.41102;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28260;QR=10520;RO=295;RPL=0;RPP=1731.5;RPPR=634.938;RPR=796;RUN=1;SAF=0;SAP=1731.5;SAR=796;SRF=1;SRP=634.938;SRR=294;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:14,28:14:489:28:1008:-78.3109,0,-31.6956 0/1:39:15,24:15:540:24:864:-66.3196,0,-37.1964 0/1:55:29,26:29:1021:26:936:-67.9801,0,-75.6436 0/1:51:17,34:17:608:34:1207:-93.494,0,-39.6995 0/1:128:49,79:49:1760:79:2819:-215.106,0,-120.152 0/1:76:25,51:25:885:51:1809:-140.011,0,-57.0882 0/1:88:33,55:33:1173:55:1951:-149.2,0,-79.3151 0/1:50:22,28:22:788:28:960:-71.4916,0,-56.0632 0/1:84:32,52:32:1140:52:1851:-141.379,0,-77.6221 0/1:4:3,1:3:108:1:36:-2.39244,0,-8.87105 1/1:4:0,4:0:0:4:144:-13.3099,-1.20412,0 1/1:13:0,13:0:0:13:464:-42.0789,-3.91339,0 1/1:73:0,73:0:0:73:2570:-231.419,-21.9752,0 1/1:54:0,54:0:0:54:1880:-169.387,-16.2556,0 1/1:83:0,83:0:0:83:2954:-265.103,-24.9855,0 1/1:41:0,41:0:0:41:1472:-132.671,-12.3422,0 0/1:44:11,33:11:396:33:1168:-92.0598,0,-22.7374 0/1:65:35,30:35:1252:30:1063:-76.292,0,-93.4181 0/1:24:10,14:10:360:14:489:-37.0429,0,-25.5196 1/1:45:0,45:0:0:45:1611:-145.066,-13.5464,0 1/1:28:0,28:0:0:28:1004:-90.4235,-8.42884,0 chr01 29611907 . T A,C 22466.5 PASS AB=0.608992,0.391008;ABP=78.7456,78.7456;AC=29,13;AF=0.690476,0.309524;AN=42;AO=788,287;CIGAR=1X,1X;DP=1075;DPB=1075;DPRA=0,1.32461;EPP=1696.8,617.567;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=57.047,59.8641;MQMR=0;NS=21;NUMALT=2;ODDS=8.08087;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28078,10186;QR=0;RO=0;RPL=786,287;RPP=1696.8,626.223;RPPR=0;RPR=2,0;RUN=1,1;SAF=0,1;SAP=1714.13,617.567;SAR=788,286;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:42:0,28,14:0:0:28,14:1000,492:-121.85,-40.3979,-31.9691,-81.8054,0,-77.591 1/2:38:0,24,14:0:0:24,14:856,496:-110.521,-40.7598,-33.5351,-70.1159,0,-65.9014 1/2:52:0,23,29:0:0:23,29:824,1032:-151.646,-84.4632,-77.5396,-67.5402,0,-58.8103 1/2:52:0,34,18:0:0:34,18:1210,648:-151.765,-53.2333,-42.9983,-98.8896,0,-93.4711 1/2:127:0,79,48:0:0:79,48:2836,1698:-369.642,-138.653,-114.871,-231.345,0,-216.896 1/2:76:0,51,25:0:0:51,25:1793,896:-219.171,-73.4346,-58.0821,-146.093,0,-138.567 1/2:84:0,54,30:0:0:54,30:1919,1056:-242.319,-86.2474,-69.9918,-156.424,0,-147.393 1/2:51:0,29,22:0:0:29,22:1044,788:-149.463,-64.4921,-55.7622,-85.3293,0,-78.7067 1/2:81:0,52,29:0:0:52,29:1843,1021:-233.412,-83.4704,-67.8168,-150.294,0,-141.564 1/2:4:0,1,3:0:0:1,3:36,108:-12.1079,-9.17208,-8.87105,-3.29553,0,-2.39244 1/1:4:0,4,0:0:0:4,0:144,0:-13.3099,-1.20412,0,-13.3099,-1.20412,-13.3099 1/1:13:0,13,0:0:0:13,0:464,0:-42.0789,-3.91339,0,-42.0789,-3.91339,-42.0789 1/1:73:0,73,0:0:0:73,0:2612,0:-235.13,-21.9752,0,-235.13,-21.9752,-235.13 1/1:56:0,56,0:0:0:56,0:1949,0:-175.522,-16.8577,0,-175.522,-16.8577,-175.522 1/1:80:0,80,0:0:0:80,0:2876,0:-257.985,-24.0824,0,-257.985,-24.0824,-257.985 1/1:40:0,40,0:0:0:40,0:1436,0:-129.502,-12.0412,0,-129.502,-12.0412,-129.502 1/2:43:0,32,11:0:0:32,11:1140,396:-125.345,-32.6714,-23.0385,-93.0325,0,-89.7211 1/2:63:0,29,34:0:0:29,34:1017,1210:-181.616,-98.9709,-90.2411,-82.9981,0,-72.7631 1/2:21:0,11,10:0:0:11,10:383,345:-59.4147,-28.3705,-25.0592,-31.3901,0,-28.3798 1/1:47:0,47,0:0:0:47,0:1688,0:-151.933,-14.1484,0,-151.933,-14.1484,-151.933 1/1:28:0,28,0:0:0:28,0:1008,0:-90.7782,-8.42884,0,-90.7782,-8.42884,-90.7782 chr01 29611924 . TG GA,AA 22522.7 PASS AB=0.603448,0.393899;ABP=73.0964,76.7367;AC=29,13;AF=0.690476,0.309524;AN=42;AO=797,297;CIGAR=2X,2X;DP=1096;DPB=1096;DPRA=0,1.35673;EPP=1733.67,647.938;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.71429,2.15385;MQM=56.9937,59.8586;MQMR=0;NS=21;NUMALT=2;ODDS=8.07622;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28252,10502;QR=0;RO=0;RPL=797,297;RPP=1733.67,647.938;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1733.67,647.938;SAR=797,297;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:40:0,26,14:0:0:26,14:923,494:-115.759,-40.5784,-32.7516,-75.5339,0,-71.3195 1/2:41:0,25,16:0:0:25,16:874,565:-117.44,-46.3631,-38.8373,-71.4284,0,-66.6119 1/2:55:0,26,29:0:0:26,29:930,1018:-159.015,-83.1994,-75.3726,-76.1695,0,-67.4396 1/2:52:0,34,18:0:0:34,18:1207,624:-149.185,-51.0635,-40.8284,-98.4705,0,-93.052 1/2:126:0,77,48:0:0:77,48:2750,1687:-361.166,-137.304,-114.124,-223.856,0,-209.407 1/2:76:0,50,25:0:0:50,25:1761,900:-216.597,-73.4355,-58.384,-143.158,0,-135.633 1/2:90:0,57,33:0:0:57,33:2007,1173:-259.038,-95.9366,-78.7779,-163.456,0,-153.522 1/2:51:0,29,22:0:0:29,22:1042,768:-147.526,-62.7285,-53.9987,-85.1498,0,-78.5271 1/2:86:0,53,33:0:0:53,33:1887,1173:-249.587,-95.9417,-79.9871,-154,0,-144.066 1/2:4:0,1,3:0:0:1,3:36,106:-11.9235,-8.98601,-8.68498,-3.29553,0,-2.39244 1/1:4:0,4,0:0:0:4,0:144,0:-13.3099,-1.20412,0,-13.3099,-1.20412,-13.3099 1/1:14:0,14,0:0:0:14,0:498,0:-45.1355,-4.21442,0,-45.1355,-4.21442,-45.1355 1/1:73:0,73,0:0:0:73,0:2594,0:-233.47,-21.9752,0,-233.47,-21.9752,-233.47 1/1:54:0,54,0:0:0:54,0:1865,0:-168.002,-16.2556,0,-168.002,-16.2556,-168.002 1/1:83:0,83,0:0:0:83,0:2931,0:-263.188,-24.9855,0,-263.188,-24.9855,-263.188 1/1:41:0,41,0:0:0:41,0:1461,0:-131.704,-12.3422,0,-131.704,-12.3422,-131.704 1/2:44:0,33,11:0:0:33,11:1164,385:-126.272,-31.6729,-21.7389,-94.9494,0,-91.6381 1/2:66:0,31,35:0:0:31,35:1092,1251:-191.164,-102.359,-93.0268,-89.1598,0,-78.6237 1/2:23:0,13,10:0:0:13,10:468,358:-67.6034,-29.5526,-25.6392,-38.409,0,-35.3987 1/1:45:0,45,0:0:0:45,0:1612,0:-145.121,-13.5464,0,-145.121,-13.5464,-145.121 1/1:28:0,28,0:0:0:28,0:1006,0:-90.5994,-8.42884,0,-90.5994,-8.42884,-90.5994 chr01 29680897 . 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C T 14396.5 PASS AB=0.478802;ABP=9.91507;AC=13;AF=0.309524;AN=42;AO=849;CIGAR=1X;DP=2549;DPB=2549;DPRA=1.50936;EPP=1786.29;EPPR=3402.93;GTI=0;LEN=1;MEANALT=1;MQM=59.8881;MQMR=59.9859;NS=21;NUMALT=1;ODDS=5.73884;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30325;QR=60161;RO=1699;RPL=7;RPP=1786.29;RPPR=3411.27;RPR=842;RUN=1;SAF=849;SAP=1846.59;SAR=0;SRF=1698;SRP=3683.66;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:39,57:39:1384:57:2040:-154.969,0,-95.96 0/1:108:44,64:44:1563:64:2300:-174.744,0,-108.45 0/1:132:62,70:62:2203:70:2516:-186.956,0,-158.799 0/1:177:84,93:84:2951:93:3296:-243.54,0,-212.541 0/1:199:100,99:100:3516:99:3544:-259.246,0,-256.746 0/1:169:72,97:72:2559:97:3467:-261.357,0,-179.686 0/1:172:103,69:103:3645:69:2463:-170.09,0,-276.479 0/1:129:73,56:73:2595:56:2008:-142.16,0,-194.966 0/1:181:93,88:93:3302:88:3122:-226.719,0,-242.868 0/1:19:11,8:11:392:8:288:-20.5478,0,-29.9005 0/0:9:9,0:9:307:0:0:0,-2.70927,-27.9602 0/0:29:29,0:29:1028:0:0:0,-8.72987,-92.833 0/0:166:166,0:166:5872:0:0:0,-49.971,-528.597 0/0:101:100,1:100:3559:1:36:0,-26.8058,-316.921 0/0:165:165,0:165:5845:0:0:0,-49.6699,-526.168 0/0:105:104,0:104:3663:0:0:0,-31.3071,-329.516 0/1:115:65,50:65:2307:50:1767:-124.693,0,-173.272 0/1:163:111,52:111:3895:52:1868:-119.331,0,-301.678 0/1:109:65,44:65:2316:44:1574:-109.136,0,-175.889 0/0:145:144,1:144:5116:1:36:0,-40.0511,-456.986 0/0:60:60,0:60:2143:0:0:0,-18.0618,-193.137 chr01 29680941 . 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C A 57364.6 PASS AB=0.521779;ABP=11.9015;AC=29;AF=0.690476;AN=42;AO=2206;CIGAR=1X;DP=3239;DPB=3239;DPRA=0;EPP=4793.28;EPPR=2237.46;GTI=0;LEN=1;MEANALT=1;MQM=59.9728;MQMR=59.9961;NS=21;NUMALT=1;ODDS=8.43387;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78719;QR=36739;RO=1033;RPL=990;RPP=53.2869;RPPR=33.7872;RPR=1216;RUN=1;SAF=990;SAP=53.2869;SAR=1216;SRF=455;SRP=34.813;SRR=578;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:162:75,87:75:2654:87:3091:-229.65,0,-190.337 0/1:55:22,33:22:792:33:1171:-89.14,0,-55.049 0/1:153:72,81:72:2564:81:2889:-214.187,0,-184.953 0/1:162:73,89:73:2599:89:3183:-237.927,0,-185.392 0/1:343:184,159:184:6543:159:5660:-406.265,0,-485.702 0/1:113:58,55:58:2080:55:1954:-142.116,0,-153.454 0/1:226:125,101:125:4451:101:3607:-256.532,0,-332.727 0/1:208:103,105:103:3648:105:3768:-276.704,0,-265.911 0/1:297:124,173:124:4412:173:6162:-465.275,0,-307.847 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:52:0,52:0:0:52:1839:-165.787,-15.6536,0 1/1:150:1,149:1:36:149:5324:-475.69,-41.5562,0 1/1:157:0,157:0:0:157:5580:-502.325,-47.2617,0 1/1:262:0,262:0:0:262:9391:-845.13,-78.8699,0 1/1:92:0,92:0:0:92:3275:-294.968,-27.6948,0 0/1:49:21,28:21:737:28:996:-75.2044,0,-51.9002 0/1:228:114,114:114:4040:114:4075:-298.301,0,-295.154 0/1:147:56,91:56:2003:91:3253:-248.738,0,-136.291 1/1:240:0,240:0:0:240:8574:-771.658,-72.2472,0 1/1:121:0,121:0:0:121:4315:-388.527,-36.4246,0 chr01 29836355 . C T 24029.2 PASS AB=0.454478;ABP=27.3273;AC=29;AF=0.690476;AN=42;AO=1195;CIGAR=1X;DP=1938;DPB=1938;DPRA=0;EPP=2460.81;EPPR=1532.68;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.8695;MQMR=60;NS=21;NUMALT=1;ODDS=3.57298;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42839;QR=26365;RO=740;RPL=16;RPP=2460.81;RPPR=1532.68;RPR=1179;RUN=1;SAF=1195;SAP=2597.92;SAR=0;SRF=740;SRP=1609.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:70,76:70:2508:76:2732:-202.172,0,-182.022 0/1:72:43,28:43:1519:28:1000:-68.5825,0,-115.27 0/1:134:72,60:72:2555:60:2148:-153.564,0,-190.178 0/1:77:38,39:38:1360:39:1391:-102.309,0,-99.5213 0/1:172:89,83:89:3165:83:2980:-216.654,0,-233.297 0/1:55:30,25:30:1072:25:900:-64.7644,0,-80.2358 0/1:135:75,60:75:2672:60:2160:-153.833,0,-200.084 0/1:119:71,48:71:2536:48:1720:-119.261,0,-192.669 0/1:169:109,60:109:3883:60:2141:-142.082,0,-298.792 0/1:19:11,8:11:381:8:288:-20.5478,0,-28.9011 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:35:0,35:0:0:35:1256:-113.342,-10.5361,0 1/1:66:0,66:0:0:66:2372:-213.724,-19.868,0 1/1:107:0,107:0:0:107:3834:-345.231,-32.2102,0 1/1:169:1,168:1:36:168:6014:-537.766,-47.2758,0 1/1:71:0,71:0:0:71:2548:-229.562,-21.3731,0 0/1:43:26,17:26:936:17:604:-41.7381,0,-71.6152 0/1:134:73,61:73:2598:61:2192:-157.174,0,-193.727 0/1:76:27,49:27:968:49:1760:-135.484,0,-64.5591 1/1:85:3,82:3:104:82:2940:-255.131,-15.8847,0 1/1:45:2,43:2:72:43:1535:-131.606,-6.70963,0 chr01 29836364 . CTCG ATCA,GTCG 39666.3 PASS AB=0.45549,0.53635;ABP=26.207,18.4812;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1207,729;CIGAR=1X2M1X,1X3M;DP=1947;DPB=1947.25;DPRA=0,1.76408;EPP=2623.98,1577.34;EPPR=5.18177;GTI=1;LEN=4,1;MEANALT=2.09524,2.4375;MQM=59.8956,60;MQMR=60;NS=21;NUMALT=2;ODDS=2.3367;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=42611,25761;QR=25;RO=1;RPL=1207,728;RPP=2623.98,1577.34;RPPR=5.18177;RPR=0,1;RUN=1,1;SAF=1207,729;SAP=2623.98,1586.01;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:146:0,75,69:0:0:75,69:2663,2459:-417.422,-200.438,-177.861,-216.985,0,-196.214 1/2:73:0,30,43:0:0:30,43:1049,1505:-208.134,-122.797,-113.766,-85.6871,0,-72.7428 1/2:140:0,62,78:0:0:62,78:2197,2772:-405.218,-226.242,-207.578,-179.331,0,-155.85 1/2:77:0,38,39:0:0:38,39:1332,1367:-219.975,-111.585,-100.146,-108.74,0,-97.0001 1/2:171:0,83,88:0:0:83,88:2912,3102:-489.537,-252.557,-227.571,-236.973,0,-210.482 1/2:54:0,25,29:0:0:25,29:884,1013:-154.75,-82.7495,-75.2238,-72.3517,0,-63.6218 1/2:132:0,60,71:0:0:60,71:2125,2518:-378.079,-205.139,-187.077,-172.934,0,-151.561 1/2:117:0,47,69:0:0:47,69:1634,2463:-333.698,-200.852,-186.704,-132.896,0,-112.125 1/2:168:0,60,103:0:0:60,103:2115,3640:-468.649,-296.445,-278.383,-172.201,0,-141.195 1/2:20:0,9,11:0:0:9,11:310,396:-57.8442,-32.6714,-29.9621,-25.524,0,-22.2127 1/1:9:0,9,0:0:0:9,0:317,0:-28.8696,-2.70927,0,-28.8696,-2.70927,-28.8696 1/1:35:0,35,0:0:0:35,0:1250,0:-112.803,-10.5361,0,-112.803,-10.5361,-112.803 1/1:66:0,66,0:0:0:66,0:2349,0:-211.656,-19.868,0,-211.656,-19.868,-211.656 1/1:110:0,110,0:0:0:110,0:3872,0:-348.66,-33.1133,0,-348.66,-33.1133,-348.66 1/1:174:0,173,1:0:0:173,1:6151,36:-553.335,-52.0782,0,-550.397,-48.7809,-550.096 1/1:73:0,73,0:0:0:73,0:2576,0:-232.085,-21.9752,0,-232.085,-21.9752,-232.085 1/2:42:0,16,26:0:0:16,26:574,919:-122.021,-75.1994,-70.3829,-47.1778,0,-39.3511 1/2:133:1,61,70:1:25:61,70:2151,2467:-373.799,-198.958,-182.543,-173.242,0,-154.117 1/2:75:0,48,27:0:0:48,27:1684,928:-212.719,-75.7014,-61.2519,-137.364,0,-129.236 1/1:86:0,83,3:0:0:83,3:2905,104:-261.34,-24.9855,0,-252.887,-16.1858,-251.983 1/1:46:0,44,2:0:0:44,2:1561,72:-140.422,-13.2453,0,-134.547,-7.01066,-133.945 chr01 29836407 . A G 24359.5 PASS AB=0.461373;ABP=21.1276;AC=28;AF=0.666667;AN=42;AO=1281;CIGAR=1X;DP=2048;DPB=2048;DPRA=0;EPP=2784.67;EPPR=1668.53;GTI=0;LEN=1;MEANALT=1;MQM=54.3349;MQMR=53.7093;NS=21;NUMALT=1;ODDS=0.598385;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45103;QR=27286;RO=767;RPL=0;RPP=2784.67;RPPR=1668.53;RPR=1281;RUN=1;SAF=0;SAP=2784.67;SAR=1281;SRF=0;SRP=1668.53;SRR=767;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:81,30:81:2878:30:1064:-62.0442,0,-225.103 0/1:98:41,57:41:1468:57:1998:-149.644,0,-102.203 0/1:74:40,34:40:1412:34:1196:-85.5687,0,-105.014 0/1:138:67,71:67:2387:71:2517:-183.403,0,-172.866 0/1:214:137,77:137:4858:77:2688:-177.447,0,-371.514 0/1:110:44,66:44:1554:66:2328:-175.873,0,-105.477 0/1:131:79,52:79:2836:52:1821:-122.95,0,-212.841 0/1:97:51,46:51:1824:46:1643:-118.445,0,-134.975 0/1:143:58,85:58:2057:85:2998:-225.902,0,-141.102 0/0:12:11,1:11:392:1:36:0,-0.0191872,-31.8272 1/1:5:0,5:0:0:5:180:-16.5105,-1.50515,0 1/1:25:0,25:0:0:25:874:-78.8735,-7.52575,0 1/1:102:1,101:1:36:101:3576:-317.711,-27.1094,0 1/1:124:0,124:0:0:124:4366:-392.303,-37.3277,0 1/1:147:0,147:0:0:147:5205:-467.892,-44.2514,0 1/1:98:0,98:0:0:98:3458:-311.331,-29.5009,0 0/1:103:70,33:70:2491:33:1182:-75.6173,0,-193.141 0/1:85:51,34:51:1801:34:1134:-76.4349,0,-136.366 0/1:94:34,60:34:1220:60:2117:-162.08,0,-81.1206 1/1:75:2,73:2:72:73:2570:-223.668,-15.7502,0 1/1:62:0,62:0:0:62:2152:-192.931,-18.6639,0 chr01 29836424 . GAAG TAAG,TAAA 52235.9 PASS AB=0.45525,0.539112;ABP=27.6922,21.8649;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1292,779;CIGAR=1X3M,1X2M1X;DP=2080;DPB=2080;DPRA=0,1.38158;EPP=913.442,469.308;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.14286,2.6;MQM=54.3622,53.7445;MQMR=0;NS=21;NUMALT=2;ODDS=0.863662;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46213,27425;QR=0;RO=0;RPL=1014,594;RPP=913.442,469.308;RPPR=0;RPR=278,185;RUN=1,1;SAF=0,0;SAP=2808.55,1694.59;SAR=1292,779;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,29,83:0:0:29,83:1030,2861:-315.315,-231.94,-223.21,-83.3753,0,-58.3898 1/2:100:0,59,41:0:0:59,41:2097,1442:-287.184,-117.077,-99.316,-170.459,0,-158.116 1/2:76:0,35,41:0:0:35,41:1252,1447:-220.009,-118.091,-107.555,-102.273,0,-89.9307 1/2:140:0,71,67:0:0:71,67:2540,2369:-398.123,-192.181,-170.808,-205.937,0,-185.768 1/2:220:0,78,142:0:0:78,142:2800,5003:-634.122,-406.124,-382.643,-228.354,0,-185.607 1/2:110:0,66,42:0:0:66,42:2347,1486:-310.892,-120.522,-100.654,-190.423,0,-177.78 1/2:134:0,50,82:0:0:50,82:1792,2899:-378.76,-233.631,-218.58,-145.197,0,-120.513 1/2:98:0,47,51:0:0:47,51:1688,1789:-282.884,-145.703,-131.554,-137.535,0,-122.182 1/2:142:0,82,59:0:0:82,59:2902,2095:-405.892,-169.967,-145.283,-235.971,0,-218.211 2/2:12:0,1,11:0:0:1,11:36,387:-34.6153,-31.6817,-31.3807,-3.31133,-0.0191874,0 1/1:6:0,6,0:0:0:6,0:216,0:-19.4747,-1.80618,0,-19.4747,-1.80618,-19.4747 1/1:25:0,25,0:0:0:25,0:900,0:-81.2057,-7.52575,0,-81.2057,-7.52575,-81.2057 1/1:102:0,101,1:0:0:101,1:3626,36:-325.198,-30.404,0,-322.263,-27.1094,-321.962 1/1:124:0,124,0:0:0:124,0:4429,0:-397.885,-37.3277,0,-397.885,-37.3277,-397.885 1/1:148:0,148,0:0:0:148,0:5328,0:-478.766,-44.5524,0,-478.766,-44.5524,-478.766 1/1:101:0,101,0:0:0:101,0:3601,0:-324.014,-30.404,0,-324.014,-30.404,-324.014 1/2:104:0,34,70:0:0:34,70:1216,2465:-299.827,-200.757,-190.522,-99.4251,0,-78.353 1/2:87:0,35,52:0:0:35,52:1256,1835:-251.312,-149.341,-138.805,-102.326,0,-86.6722 1/2:95:0,60,35:0:0:60,35:2152,1240:-276.132,-100.853,-82.7908,-175.634,0,-165.098 1/1:80:0,77,2:0:0:77,2:2751,71:-246.373,-23.1793,0,-240.596,-17.3053,-239.994 1/1:63:0,63,0:0:0:63,0:2254,0:-201.807,-18.9649,0,-201.807,-18.9649,-201.807 chr01 29862227 . C T 6609.22 PASS AB=0.457389;ABP=17.6297;AC=13;AF=0.309524;AN=42;AO=424;CIGAR=1X;DP=1388;DPB=1388;DPRA=1.23744;EPP=923.715;EPPR=2096.31;GTI=0;LEN=1;MEANALT=1;MQM=59.533;MQMR=59.9461;NS=21;NUMALT=1;ODDS=9.9081;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14893;QR=34218;RO=964;RPL=424;RPP=923.715;RPPR=2096.31;RPR=0;RUN=1;SAF=0;SAP=923.715;SAR=424;SRF=0;SRP=2096.31;SRR=964;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:61,30:61:2188:30:1068:-69.0383,0,-169.792 0/1:44:19,25:19:676:25:854:-63.917,0,-47.9227 0/1:59:20,39:20:712:39:1365:-105.386,0,-46.6459 0/1:68:31,37:31:1078:37:1312:-97.8979,0,-76.8539 0/1:150:82,68:82:2921:68:2372:-168.529,0,-217.969 0/1:45:18,27:18:603:27:960:-73.1652,0,-41.0351 0/1:68:41,27:41:1460:27:941:-64.5316,0,-111.226 0/1:64:39,25:39:1347:25:869:-59.2537,0,-102.256 0/1:101:64,37:64:2269:37:1282:-85.2368,0,-174.066 0/1:6:2,4:2:57:4:144:-11.5074,0,-3.60713 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:7:7,0:7:237:0:0:0,-2.10721,-21.6591 0/0:108:108,0:108:3857:0:0:0,-32.5112,-347.325 0/0:66:66,0:66:2356:0:0:0,-19.868,-212.283 0/0:106:106,0:106:3796:0:0:0,-31.9092,-341.816 0/0:44:44,0:44:1542:0:0:0,-13.2453,-139.068 0/1:60:38,22:38:1364:22:773:-51.5394,0,-104.999 0/1:98:41,57:41:1468:57:2021:-152.619,0,-102.915 0/1:73:47,26:47:1669:26:932:-62.2099,0,-128.52 0/0:90:90,0:90:3194:0:0:0,-27.0927,-287.682 0/0:33:33,0:33:1176:0:0:0,-9.93399,-106.148 chr01 29863743 . ACA AAA 25806.6 PASS AB=0.450845;ABP=30.3355;AC=29;AF=0.690476;AN=42;AO=1293;CIGAR=1M1X1M;DP=2041;DPB=2024.33;DPRA=0;EPP=2810.72;EPPR=1514.36;GTI=0;LEN=1;MEANALT=1.66667;MQM=58.8971;MQMR=59.9713;NS=21;NUMALT=1;ODDS=4.06836;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46258;QR=24447;RO=696;RPL=1293;RPP=2810.72;RPPR=1514.36;RPR=0;RUN=1;SAF=0;SAP=2810.72;SAR=1293;SRF=0;SRP=1514.36;SRR=696;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:80,63:80:2785:63:2260:-159.996,0,-207.481 0/1:15:10,5:10:352:5:180:-12.025,0,-27.5022 0/1:110:72,37:72:2540:37:1332:-86.9762,0,-195.672 0/1:137:81,56:81:2828:56:2004:-139.069,0,-213.518 0/1:171:82,87:82:2891:87:3127:-229.988,0,-209.191 0/1:80:49,30:49:1737:30:1080:-72.697,0,-132.512 0/1:105:56,48:56:1943:48:1701:-121.553,0,-143.475 0/1:156:82,71:82:2870:71:2548:-183.067,0,-212.12 0/1:173:88,80:88:3119:80:2859:-206.287,0,-230.012 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 1/1:11:0,11:0:0:11:396:-35.9749,-3.31133,0 1/1:54:0,51:0:0:51:1824:-163.985,-15.3525,0 1/1:172:0,160:0:0:160:5727:-515.132,-48.1648,0 1/1:141:0,135:0:0:135:4845:-435.204,-40.6391,0 1/1:99:0,99:0:0:99:3500:-314.793,-29.802,0 1/1:25:0,25:0:0:25:900:-81.3177,-7.52575,0 0/1:44:28,16:28:995:16:568:-38.182,0,-76.6191 0/1:86:46,37:46:1613:37:1320:-93.0236,0,-120.11 0/1:70:19,50:19:666:50:1792:-140.403,0,-39.134 1/1:190:0,178:0:0:178:6379:-573.306,-53.5833,0 1/1:47:0,47:0:0:47:1664:-149.641,-14.1484,0 chr01 29953900 . T A 16649.6 PASS AB=0.5213;ABP=6.52555;AC=29;AF=0.690476;AN=42;AO=854;CIGAR=1X;DP=1282;DPB=1282;DPRA=0;EPP=1857.45;EPPR=932.4;GTI=0;LEN=1;MEANALT=1;MQM=51.3864;MQMR=59.5491;NS=21;NUMALT=1;ODDS=6.51888;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30426;QR=15272;RO=428;RPL=0;RPP=1857.45;RPPR=932.4;RPR=854;RUN=1;SAF=854;SAP=1857.45;SAR=0;SRF=428;SRP=932.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:29,49:29:1044:49:1760:-134.809,0,-70.7945 0/1:57:23,34:23:828:34:1205:-91.0098,0,-57.6772 0/1:81:41,40:41:1464:40:1417:-102.359,0,-107.648 0/1:46:28,18:28:1008:18:640:-43.6369,0,-77.1026 0/1:146:64,82:64:2262:82:2925:-217.308,0,-159.873 0/1:52:32,20:32:1144:20:697:-47.2397,0,-87.6078 0/1:73:32,41:32:1152:41:1438:-106.317,0,-81.9892 0/1:60:27,33:27:972:33:1180:-87.5668,0,-69.7116 0/1:134:73,61:73:2582:61:2184:-155.694,0,-192.273 0/1:13:5,8:5:176:8:288:-22.288,0,-12.2716 1/1:8:0,8:0:0:8:288:-26.2014,-2.40824,0 1/1:38:0,38:0:0:38:1353:-121.746,-11.4391,0 1/1:54:0,54:0:0:54:1936:-174.065,-16.2556,0 1/1:78:0,78:0:0:78:2800:-250.885,-23.4803,0 1/1:113:0,113:0:0:113:4018:-360,-34.0164,0 1/1:27:0,27:0:0:27:953:-85.5465,-8.12781,0 0/1:39:25,14:25:892:14:479:-31.3028,0,-68.6225 0/1:88:39,49:39:1388:49:1756:-130.451,0,-98.7158 0/1:25:9,16:9:324:16:576:-44.5181,0,-21.9801 1/1:48:1,47:1:36:47:1684:-147.866,-10.8512,0 1/1:24:0,24:0:0:24:849:-76.1812,-7.22472,0 chr01 29959548 . C A 1.4891e-05 PASS AB=0.403894;ABP=163.703;AC=16;AF=0.380952;AN=42;AO=921;CIGAR=1X;DP=2496;DPB=2496;DPRA=15.55;EPP=2002.94;EPPR=3418.74;GTI=15;LEN=1;MEANALT=1.1;MQM=13.8252;MQMR=46.2562;NS=21;NUMALT=1;ODDS=12.5833;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32787;QR=55510;RO=1573;RPL=0;RPP=2002.94;RPPR=3418.74;RPR=921;RUN=1;SAF=0;SAP=2002.94;SAR=921;SRF=0;SRP=3418.74;SRR=1573;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:102,75:102:3603:75:2687:-36.3917,0,-262.021 0/1:94:62,32:62:2169:32:1140:-6.91908,0,-163.321 0/1:77:46,31:46:1631:31:1093:-14.9791,0,-118.388 0/1:140:91,49:91:3213:49:1743:-18.5839,0,-241.397 0/1:241:145,96:145:5169:96:3414:-45.9762,0,-379.491 0/0:156:119,37:119:4175:37:1316:0,-8.67082,-325.588 0/1:173:98,75:98:3458:75:2665:-34.9872,0,-252.825 0/0:128:93,35:93:3276:35:1248:0,-3.4582,-253.773 0/1:255:153,102:153:5422:102:3643:-71.1855,0,-401.512 0/1:6:2,4:2:72:4:144:-1.89019,0,-4.80714 0/0:8:8,0:8:284:0:0:0,-2.40824,-24.3974 0/0:54:43,11:43:1519:11:396:0,-4.63427,-120.039 0/1:136:95,41:95:3361:41:1447:-7.31533,0,-247.686 0/0:147:118,29:118:4078:29:1036:0,-10.9758,-318.631 0/1:155:98,57:98:3479:57:2044:-19.1373,0,-253.419 0/1:96:50,46:50:1769:46:1637:-41.2171,0,-125.524 0/1:126:79,47:79:2778:47:1656:-30.6427,0,-207.858 0/1:48:22,26:22:762:26:924:-16.415,0,-53.1982 0/1:77:29,47:29:1040:47:1671:-36.9132,0,-66.685 0/1:110:72,38:72:2541:38:1356:-5.01634,0,-185.658 0/1:92:48,43:48:1711:43:1527:-16.4901,0,-119.782 chr01 29959603 . G A 0.00163824 PASS AB=0.399509;ABP=181.51;AC=16;AF=0.380952;AN=42;AO=928;CIGAR=1X;DP=2543;DPB=2543;DPRA=18.1143;EPP=2018.14;EPPR=3503.42;GTI=15;LEN=1;MEANALT=1.1;MQM=14.0205;MQMR=46.1656;NS=21;NUMALT=1;ODDS=7.88251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33258;QR=57616;RO=1612;RPL=928;RPP=2018.14;RPPR=3503.42;RPR=0;RUN=1;SAF=0;SAP=2018.14;SAR=928;SRF=0;SRP=3503.42;SRR=1612;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:181:105,76:105:3756:76:2732:-39.9227,0,-271.508 0/1:96:66,30:66:2364:30:1080:-4.0118,0,-177.319 0/1:79:47,32:47:1684:32:1148:-15.4391,0,-122.555 0/1:146:97,49:97:3484:49:1761:-16.3652,0,-262.287 0/1:246:147,99:147:5252:99:3504:-49.4816,0,-384.992 0/0:163:124,39:124:4420:39:1396:0,-8.61568,-342.364 0/1:172:97,75:97:3464:75:2672:-34.4792,0,-252.854 0/0:132:97,35:97:3480:35:1260:0,-4.74656,-271.466 0/1:265:160,105:160:5732:105:3776:-73.5211,0,-422.856 0/1:6:2,4:2:68:4:144:-1.89019,0,-4.49159 0/0:7:7,0:7:244:0:0:0,-2.10721,-21.0874 0/0:54:43,11:43:1536:11:396:0,-4.63427,-121.333 0/1:139:98,41:98:3496:41:1476:-6.43839,0,-258.259 0/0:152:122,30:122:4352:30:1076:0,-10.0845,-338.219 0/1:156:100,56:100:3568:56:2012:-17.9399,0,-260.557 0/1:96:48,47:48:1708:47:1688:-44.1632,0,-120.56 0/1:125:79,44:79:2820:44:1580:-27.1323,0,-211.71 0/1:47:22,25:22:792:25:900:-15.6431,0,-55.8288 0/1:72:25,47:25:892:47:1692:-39.1743,0,-55.5908 0/1:115:77,38:77:2748:38:1364:-3.5152,0,-201.916 0/1:94:49,45:49:1756:45:1601:-21.1915,0,-121.726 chr01 29959604 . T G 16525.5 PASS AB=0.386168;ABP=265.023;AC=24;AF=0.571429;AN=42;AO=1072;CIGAR=1X;DP=2541;DPB=2541;DPRA=0;EPP=2330.83;EPPR=3190.73;GTI=7;LEN=1;MEANALT=1.04762;MQM=40.0373;MQMR=30.0552;NS=21;NUMALT=1;ODDS=4.9158;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38309;QR=52224;RO=1468;RPL=1072;RPP=2330.83;RPPR=3190.73;RPR=0;RUN=1;SAF=0;SAP=2330.83;SAR=1072;SRF=0;SRP=3190.73;SRR=1468;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:180:130,50:130:4645:50:1780:-99.2351,0,-206.045 0/1:96:70,26:70:2426:26:928:-50.4331,0,-123.627 0/1:80:54,26:54:1936:26:932:-55.4622,0,-85.5341 0/1:146:102,44:102:3633:44:1572:-91.0318,0,-183.257 0/1:246:178,68:178:6343:68:2428:-134.9,0,-295.58 0/1:159:85,74:85:2941:74:2652:-179.186,0,-132.265 0/1:173:124,49:124:4414:49:1756:-98.694,0,-191.505 0/1:131:81,50:81:2881:50:1784:-115.531,0,-137.872 0/1:261:191,70:191:6783:70:2504:-135.944,0,-348.839 0/1:6:4,2:4:144:2:72:-4.80714,0,-1.89019 1/1:8:0,8:0:0:8:284:-24.3405,-2.40824,0 1/1:53:11,42:11:396:42:1508:-118.851,-4.33324,0 0/1:135:40,95:40:1440:95:3388:-250.659,0,-6.29502 1/1:152:29,123:29:1029:123:4383:-342.394,-11.295,0 0/1:157:57,99:57:2048:99:3533:-257.06,0,-18.4998 0/1:99:48,51:48:1720:51:1817:-128.898,0,-44.1005 0/1:129:86,43:86:3069:43:1544:-94.0103,0,-154.847 0/1:47:34,13:34:1220:13:468:-26.7335,0,-42.6803 0/1:78:62,16:62:2212:16:576:-26.4525,0,-81.8074 0/1:112:38,74:38:1360:74:2648:-194.139,0,-4.41647 0/1:93:44,49:44:1584:49:1752:-122.764,0,-18.4663 chr01 30015794 . AC CT,CC 28662.9 PASS AB=0.551449,0.446553;ABP=26.0244,27.8467;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1051,447;CIGAR=2X,1X1M;DP=1501;DPB=1501;DPRA=0,1.232;EPP=2081.53,973.658;EPPR=7.35324;GTI=0;LEN=2,1;MEANALT=1.66667,2;MQM=34.7735,59.9866;MQMR=60;NS=21;NUMALT=2;ODDS=11.9497;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37371,15941;QR=72;RO=2;RPL=24,447;RPP=2081.53,973.658;RPPR=7.35324;RPR=1027,0;RUN=1,1;SAF=0,0;SAP=2285.23,973.658;SAR=1051,447;SRF=0;SRP=7.35324;SRR=2;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:80:0,48,32:0:0:48,32:1700,1144:-218.251,-93.6366,-79.1871,-124.958,0,-115.325 1/2:46:0,27,19:0:0:27,19:965,684:-121.714,-56.1708,-48.0429,-65.8799,0,-60.1604 1/2:62:2,36,24:2:72:36,24:1284,852:-157.77,-63.541,-58.5791,-88.9394,0,-87.5913 1/2:52:0,23,29:0:0:23,29:826,1040:-145.417,-85.1845,-78.2608,-60.572,0,-51.8421 1/2:182:0,83,99:0:0:83,99:2936,3544:-507.058,-289.367,-264.381,-218.031,0,-188.229 1/2:54:0,40,14:0:0:40,14:1423,500:-137.506,-41.1218,-29.0806,-96.727,0,-92.5126 1/2:115:0,67,48:0:0:67,48:2362,1720:-301.035,-140.636,-120.467,-160.733,0,-146.283 1/2:81:0,45,36:0:0:45,36:1599,1288:-216.694,-105.386,-91.8398,-111.644,0,-100.807 1/2:153:0,86,67:0:0:86,67:3086,2389:-420.884,-195.096,-169.208,-226.131,0,-205.962 1/2:12:0,7,5:0:0:7,5:241,176:-31.9642,-14.6799,-12.5727,-17.618,0,-16.1128 1/1:8:0,8,0:0:0:8,0:288,0:-21.6767,-2.40824,0,-21.6767,-2.40824,-21.6767 1/1:32:0,32,0:0:0:32,0:1128,0:-90.0171,-9.63296,0,-90.0171,-9.63296,-90.0171 1/1:75:0,74,0:0:0:74,0:2636,0:-214.91,-22.2762,0,-214.91,-22.2762,-214.91 1/1:80:0,80,0:0:0:80,0:2817,0:-232.21,-24.0824,0,-232.21,-24.0824,-232.21 1/1:149:0,149,0:0:0:149,0:5317,0:-437.479,-44.8535,0,-437.479,-44.8535,-437.479 1/1:45:0,45,0:0:0:45,0:1605,0:-133.069,-13.5464,0,-133.069,-13.5464,-133.069 1/2:49:0,26,23:0:0:26,23:911,820:-132.261,-67.1988,-59.372,-65.3974,0,-58.4737 1/2:66:0,30,36:0:0:30,36:1080,1248:-178.663,-101.779,-92.7481,-77.2154,0,-66.3783 1/2:49:0,34,15:0:0:34,15:1209,536:-133.209,-44.0594,-33.8243,-89.4973,0,-84.9818 1/1:81:0,81,0:0:0:81,0:2880,0:-229.004,-24.3834,0,-229.004,-24.3834,-229.004 1/1:30:0,30,0:0:0:30,0:1078,0:-80.4739,-9.0309,0,-80.4739,-9.0309,-80.4739 chr01 30042632 . GG AT,AG 26012.1 PASS AB=0.469337,0.529412;ABP=9.53559,9.01378;AC=29,13;AF=0.690476,0.309524;AN=42;AO=824,423;CIGAR=2X,1X1M;DP=1249;DPB=1249;DPRA=0,1.09265;EPP=1792.3,921.543;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.71429,2.07692;MQM=53.8568,59.4161;MQMR=0;NS=21;NUMALT=2;ODDS=7.14886;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29274,15117;QR=0;RO=0;RPL=0,0;RPP=1792.3,921.543;RPPR=0;RPR=824,423;RUN=1,1;SAF=824,423;SAP=1792.3,921.543;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:102:0,48,54:0:0:48,54:1686,1923:-292.933,-156.494,-142.045,-136.791,0,-120.536 1/2:47:0,28,19:0:0:28,19:996,684:-136.603,-56.151,-47.7222,-80.8088,0,-75.0893 1/2:54:0,24,30:0:0:24,30:855,1080:-158.017,-88.48,-81.2553,-69.8946,0,-60.8637 1/2:29:0,16,13:0:0:16,13:537,468:-81.9498,-38.5177,-33.7012,-43.7807,0,-39.8673 1/2:138:0,63,75:0:0:63,75:2251,2688:-402.585,-219.568,-200.603,-183.374,0,-160.797 1/2:72:0,33,38:0:0:33,38:1184,1355:-206.54,-110.588,-100.654,-96.0998,0,-84.6607 1/2:68:0,28,40:0:0:28,40:1002,1436:-198.97,-117.487,-109.059,-81.8403,0,-69.7991 1/2:45:0,21,24:0:0:21,24:745,864:-131.335,-70.8578,-64.5362,-60.8336,0,-53.6089 1/2:88:0,40,48:0:0:40,48:1432,1679:-253.48,-136.934,-124.893,-116.9,0,-102.451 1/2:7:0,2,5:0:0:2,5:72,180:-20.9031,-15.0375,-14.4355,-6.22497,0,-4.71982 1/1:10:0,10,0:0:0:10,0:344,0:-31.1473,-3.0103,0,-31.1473,-3.0103,-31.1473 1/1:29:0,29,0:0:0:29,0:1042,0:-93.7121,-8.72987,0,-93.7121,-8.72987,-93.7121 1/1:67:0,67,0:0:0:67,0:2397,0:-215.528,-20.169,0,-215.528,-20.169,-215.528 1/1:40:0,40,0:0:0:40,0:1414,0:-127.369,-12.0412,0,-127.369,-12.0412,-127.369 1/1:147:0,147,0:0:0:147,0:5231,0:-469.397,-44.2514,0,-469.397,-44.2514,-469.397 1/1:61:0,61,0:0:0:61,0:2151,0:-193.137,-18.3628,0,-193.137,-18.3628,-193.137 1/2:62:0,31,31:0:0:31,31:1095,1116:-180.287,-91.4189,-82.0869,-89.2239,0,-79.892 1/2:54:0,17,37:0:0:17,37:605,1320:-156.871,-107.959,-102.842,-49.2655,0,-38.1274 1/2:33:0,24,9:0:0:24,9:847,324:-95.7016,-26.7883,-19.5636,-69.271,0,-66.5618 1/1:69:0,69,0:0:0:69,0:2465,0:-220.71,-20.7711,0,-220.71,-20.7711,-220.71 1/1:27:0,26,0:0:0:26,0:923,0:-82.2469,-7.82678,0,-82.2469,-7.82678,-82.2469 chr01 30248581 . CGG AGA 12355.3 PASS AB=0.408185;ABP=72.7914;AC=29;AF=0.690476;AN=42;AO=696;CIGAR=1X1M1X;DP=1263;DPB=1263;DPRA=0;EPP=1505.68;EPPR=1184.54;GTI=2;LEN=3;MEANALT=1.28571;MQM=51.6983;MQMR=59.9625;NS=21;NUMALT=1;ODDS=1.83358;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24428;QR=19422;RO=560;RPL=1;RPP=1505.68;RPPR=1184.54;RPR=695;RUN=1;SAF=696;SAP=1514.36;SAR=0;SRF=560;SRP=1219.03;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:71,48:71:2500:48:1689:-115.564,0,-189.431 0/1:37:26,11:26:880:11:385:-23.6625,0,-68.3598 0/1:42:26,15:26:890:15:516:-33.9999,0,-67.7082 0/1:68:25,42:25:856:42:1477:-111.864,0,-56.823 0/1:135:101,31:101:3517:31:1096:-57.374,0,-276.674 0/1:62:34,27:34:1143:27:951:-66.1782,0,-84.4418 0/1:109:62,46:62:2099:46:1625:-111.974,0,-156.302 0/1:54:35,19:35:1237:19:645:-41.9261,0,-95.3771 0/1:133:77,56:77:2671:56:1946:-134.615,0,-200.599 0/1:11:9,2:9:322:2:64:-2.7568,0,-26.0129 1/1:7:0,7:0:0:7:246:-22.1949,-2.10721,0 1/1:10:0,10:0:0:10:356:-32.0433,-3.0103,0 1/1:44:2,42:2:72:42:1489:-126.442,-6.4086,0 1/1:62:0,62:0:0:62:2164:-193.652,-18.6639,0 1/1:76:0,76:0:0:76:2690:-241.6,-22.8783,0 1/1:44:0,44:0:0:44:1516:-136.235,-13.2453,0 0/1:91:48,43:48:1692:43:1523:-109.439,0,-125.171 0/1:67:35,32:35:1235:32:1121:-80.7493,0,-91.2859 0/1:25:8,17:8:272:17:597:-46.3885,0,-17.2851 1/1:33:1,32:1:36:32:1126:-97.0192,-6.33572,0 1/1:34:0,34:0:0:34:1206:-107.172,-10.235,0 chr01 30248588 . TCTAT CCTAC,TCTAC 29541.7 PASS AB=0.414791,0.580922;ABP=61.8495,56.0775;AC=29,13;AF=0.690476,0.309524;AN=42;AO=688,545;CIGAR=1X3M1X,4M1X;DP=1243;DPB=1243;DPRA=0,1.73391;EPP=554.476,429.053;EPPR=0;GTI=2;LEN=5,1;MEANALT=2.09524,2.33333;MQM=51.8038,59.9798;MQMR=0;NS=21;NUMALT=2;ODDS=2.7055;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23675,19363;QR=0;RO=0;RPL=553,436;RPP=554.476,429.053;RPPR=0;RPR=135,109;RUN=1,1;SAF=688,545;SAP=1496.98,1186.46;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:115:0,47,67:0:0:47,67:1612,2388:-324.811,-194.722,-180.574,-130.149,0,-109.98 1/2:36:0,10,25:0:0:10,25:333,881:-98.5191,-71.7153,-68.705,-26.7855,0,-19.2597 1/2:42:0,14,27:0:0:14,27:493,968:-119.023,-78.9503,-74.7359,-40.0679,0,-31.9401 1/2:68:0,42,26:0:0:42,26:1462,913:-192.776,-74.6572,-62.014,-118.468,0,-110.641 1/2:134:0,32,102:0:0:32,102:1103,3622:-384.127,-295.48,-285.847,-88.9919,0,-58.2869 1/2:58:0,27,31:0:0:27,31:923,1108:-164.802,-90.6991,-82.5713,-74.4505,0,-65.1186 1/2:108:0,46,62:0:0:46,62:1578,2216:-307.767,-181.041,-167.193,-127.073,0,-108.409 1/2:52:0,19,33:0:0:19,33:646,1176:-148.37,-96.2138,-90.4942,-52.5012,0,-42.5672 1/2:129:0,56,73:0:0:56,73:1938,2586:-366.982,-211.014,-194.156,-156.316,0,-134.341 1/2:11:0,2,9:0:0:2,9:70,305:-30.753,-25.069,-24.4669,-6.03122,0,-3.32195 1/1:7:0,7,0:0:0:7,0:230,0:-20.8611,-2.10721,0,-20.8611,-2.10721,-20.8611 1/1:10:0,10,0:0:0:10,0:346,0:-31.1124,-3.0103,0,-31.1124,-3.0103,-31.1124 1/1:44:0,41,2:0:0:41,2:1434,72:-128.826,-12.3422,0,-122.951,-6.35582,-122.349 1/1:62:0,62,0:0:0:62,0:2121,0:-189.616,-18.6639,0,-189.616,-18.6639,-189.616 1/1:76:0,72,0:0:0:72,0:2510,0:-225.444,-21.6742,0,-225.444,-21.6742,-225.444 1/1:44:0,43,0:0:0:43,0:1467,0:-131.645,-12.9443,0,-131.645,-12.9443,-131.645 1/2:87:0,43,44:0:0:43,44:1491,1544:-246.821,-126.003,-113.059,-121.167,0,-107.921 1/2:68:0,32,35:0:0:32,35:1091,1260:-191.075,-102.81,-93.1766,-88.256,0,-77.7199 1/2:25:0,17,8:0:0:17,8:591,288:-71.76,-23.8592,-18.7417,-48.2564,0,-45.8482 1/1:33:0,32,1:0:0:32,1:1087,36:-96.9035,-9.63296,0,-93.9654,-6.33572,-93.6643 1/1:34:0,34,0:0:0:34,0:1149,0:-102.658,-10.235,0,-102.658,-10.235,-102.658 chr01 30337513 . T C 14607.9 PASS AB=0.55643;ABP=45.1631;AC=13;AF=0.309524;AN=42;AO=849;CIGAR=1X;DP=2249;DPB=2249;DPRA=1.78093;EPP=1846.59;EPPR=3043.07;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9957;NS=21;NUMALT=1;ODDS=1.36184;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30175;QR=48552;RO=1400;RPL=0;RPP=1846.59;RPPR=3043.07;RPR=849;RUN=1;SAF=0;SAP=1846.59;SAR=849;SRF=0;SRP=3043.07;SRR=1400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:173:65,108:65:2271:108:3803:-290.391,0,-152.575 0/1:106:54,52:54:1887:52:1860:-135.77,0,-138.199 0/1:130:41,89:41:1432:89:3155:-245.041,0,-90.0418 0/1:50:21,29:21:718:29:1040:-78.8629,0,-49.8851 0/1:202:77,125:77:2657:125:4435:-338.514,0,-178.572 0/1:136:78,58:78:2705:58:2054:-144.19,0,-202.757 0/1:152:70,82:70:2416:82:2908:-216.198,0,-171.941 0/1:140:64,76:64:2232:76:2700:-201.099,0,-159.002 0/1:210:100,110:100:3492:110:3924:-290.137,0,-251.283 0/1:19:4,15:4:136:15:540:-43.217,0,-6.85597 0/0:14:14,0:14:484:0:0:0,-4.21442,-43.8885 0/0:46:46,0:46:1581:0:0:0,-13.8474,-142.575 0/0:141:141,0:141:4886:0:0:0,-42.4452,-439.905 0/0:122:122,0:122:4258:0:0:0,-36.7257,-383.409 0/0:232:231,1:231:8028:1:36:0,-66.2407,-718.967 0/0:81:81,0:81:2814:0:0:0,-24.3834,-253.504 0/1:117:56,61:56:1917:61:2184:-161.605,0,-137.586 0/1:55:25,30:25:859:30:1072:-80.2358,0,-61.0668 0/1:34:21,13:21:723:13:464:-31.8625,0,-55.1535 0/0:65:65,0:65:2229:0:0:0,-19.5669,-200.871 0/0:24:24,0:24:827:0:0:0,-7.22472,-74.7451 chr01 30388040 . C T 14556.8 PASS AB=0.573103;ABP=70.317;AC=13;AF=0.309524;AN=42;AO=831;CIGAR=1X;DP=2046;DPB=2046;DPRA=1.49716;EPP=1807.5;EPPR=2641.35;GTI=1;LEN=1;MEANALT=1;MQM=59.8568;MQMR=59.9457;NS=21;NUMALT=1;ODDS=10.7528;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29718;QR=43459;RO=1215;RPL=0;RPP=1807.5;RPPR=2641.35;RPR=831;RUN=1;SAF=831;SAP=1807.5;SAR=0;SRF=1215;SRP=2641.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:61,97:61:2192:97:3475:-265.327,0,-149.126 0/1:89:48,41:48:1720:41:1468:-105.589,0,-128.294 0/1:92:42,50:42:1508:50:1788:-133.508,0,-108.32 0/1:65:31,34:31:1103:34:1220:-90.5317,0,-80.0129 0/1:178:75,103:75:2683:103:3692:-278.899,0,-188.131 0/1:55:18,37:18:644:37:1318:-102.1,0,-41.7339 0/1:145:68,77:68:2431:77:2763:-205.262,0,-175.387 0/1:164:40,124:40:1440:124:4431:-349.592,0,-80.5288 0/1:203:79,124:79:2836:124:4417:-336.592,0,-194.369 0/1:34:20,14:20:716:14:504:-35.4631,0,-54.5327 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:81:81,0:81:2904:0:0:0,-24.3834,-261.584 0/0:104:104,0:104:3716:0:0:0,-31.3071,-334.642 0/0:164:164,0:164:5848:0:0:0,-49.3689,-526.435 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.435 0/1:62:38,24:38:1356:24:856:-58.6265,0,-103.677 0/1:149:66,83:66:2347:83:2966:-222.318,0,-166.636 0/1:56:33,23:33:1180:23:820:-57.2648,0,-89.6504 0/0:95:95,0:95:3395:0:0:0,-28.5978,-305.765 0/0:39:39,0:39:1388:0:0:0,-11.7402,-125.219 chr01 30388065 . GAG GAA,CAA 49016 PASS AB=0.444444,0.553629;ABP=44.7508,41.9057;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1339,862;CIGAR=2M1X,1X1M1X;DP=2206;DPB=2215;DPRA=0,1.47635;EPP=2901.93,1866.14;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.80952,2.15385;MQM=59.9604,59.7877;MQMR=60;NS=21;NUMALT=2;ODDS=8.00565;PAIRED=0,0;PAIREDR=0;PAO=13.5,13.5;PQA=262,262;PQR=0;PRO=0;QA=47846,30525;QR=28;RO=1;RPL=1228,861;RPP=2026.4,1866.14;RPPR=5.18177;RPR=111,1;RUN=1,1;SAF=1229,862;SAP=2033.65,1874.82;SAR=110,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:163:0,64,99:0:0:64,99:2300,3508:-472.515,-285.734,-266.468,-186.902,0,-157.1 1/2:90:1,47,42:1:28:47,42:1683,1495:-256.644,-119.694,-107.763,-135.109,0,-124.683 1/2:95:0,43,52:0:0:43,52:1548,1860:-278.336,-152.026,-139.082,-126.669,0,-111.015 1/2:68:0,34,34:0:0:34,34:1220,1207:-198.148,-98.634,-88.3989,-99.8134,0,-89.5783 1/2:188:0,77,110:0:0:77,110:2759,3867:-538.669,-313.652,-290.473,-224.854,0,-191.74 1/2:57:0,18,39:0:0:18,39:648,1375:-164.961,-112.085,-106.667,-53.1765,0,-41.4363 1/2:149:0,70,79:0:0:70,79:2507,2787:-431.679,-227.233,-206.161,-204.746,0,-180.964 1/2:168:0,40,128:0:0:40,128:1436,4514:-485.04,-367.901,-355.859,-117.496,0,-78.9646 1/2:249:0,122,127:0:0:122,127:4320,4509:-719.584,-367.685,-330.96,-352.194,0,-313.963 1/2:36:0,21,14:0:0:21,14:748,504:-102.089,-41.1238,-34.8022,-60.964,0,-56.7496 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:32:0,32,0:0:0:32,0:1148,0:-103.63,-9.63296,0,-103.63,-9.63296,-103.63 1/1:83:0,81,0:0:0:81,0:2899,0:-260.825,-24.3834,0,-260.825,-24.3834,-260.825 1/1:109:0,109,0:0:0:109,0:3905,0:-351.641,-32.8123,0,-351.641,-32.8123,-351.641 1/1:162:0,162,0:0:0:162,0:5820,0:-523.791,-48.7669,0,-523.791,-48.7669,-523.791 1/1:124:0,124,0:0:0:124,0:4385,0:-394.814,-37.3277,0,-394.814,-37.3277,-394.814 1/2:80:0,57,23:0:0:57,23:2006,828:-231.217,-67.9204,-50.7617,-163.654,0,-156.73 1/2:157:0,66,91:0:0:66,91:2364,3213:-454.795,-262,-242.132,-193.15,0,-165.757 1/2:57:0,33,24:0:0:33,24:1165,858:-165.123,-70.2592,-60.3252,-95.1627,0,-87.9379 1/1:93:0,93,0:0:0:93,0:3341,0:-300.847,-27.9958,0,-300.847,-27.9958,-300.847 1/1:37:0,37,0:0:0:37,0:1320,0:-119.102,-11.1381,0,-119.102,-11.1381,-119.102 chr01 30395005 . CAGCG TAGCC,CAGCC 94067.7 PASS AB=0.497278,0.499222;ABP=3.17578,3.02381;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2544,1286;CIGAR=1X3M1X,4M1X;DP=3844;DPB=3845.6;DPRA=0,1.61257;EPP=5527.24,2795.52;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.38095,2.66667;MQM=40.0975,59.7387;MQMR=0;NS=21;NUMALT=2;ODDS=7.16471;PAIRED=0,0;PAIREDR=0;PAO=8,0;PQA=284,0;PQR=0;PRO=0;QA=88530,45532;QR=0;RO=0;RPL=1274,509;RPP=3.02396,124.289;RPPR=0;RPR=1270,777;RUN=1,1;SAF=1274,509;SAP=3.02396,124.289;SAR=1270,777;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:257:0,122,134:0:0:122,134:4227,4735:-707.852,-385.703,-348.978,-322.257,0,-281.919 1/2:156:0,74,82:0:0:74,82:2575,2868:-420.117,-233.649,-211.373,-186.799,0,-162.114 1/2:151:0,83,68:0:0:83,68:2919,2397:-408.748,-193.17,-168.184,-215.915,0,-195.445 1/2:239:0,104,135:0:0:104,135:3619,4699:-663.465,-381.334,-350.027,-282.113,0,-241.474 1/2:365:0,173,190:0:0:173,190:6011,6738:-1001.85,-548.928,-496.85,-452.944,0,-395.748 1/2:125:0,68,56:0:0:68,56:2324,1995:-334.205,-162.608,-142.138,-171.577,0,-154.719 1/2:264:0,138,126:0:0:138,126:4767,4441:-711.954,-361.503,-319.961,-350.429,0,-312.499 1/2:201:0,85,115:0:0:85,115:2962,4123:-552.828,-336.365,-310.778,-216.551,0,-181.932 1/2:303:0,160,142:0:0:160,142:5577,5075:-836.705,-413.662,-365.498,-423.026,0,-380.28 1/2:33:0,12,21:0:0:12,21:431,747:-90.2953,-61.2327,-57.6203,-29.3846,0,-23.0629 1/1:15:0,15,0:0:0:15,0:517,0:-39.8868,-4.51545,0,-39.8868,-4.51545,-39.8868 1/1:83:0,82,0:0:0:82,0:2861,0:-220.59,-24.6845,0,-220.59,-24.6845,-220.59 1/1:235:0,235,0:0:0:235,0:8209,0:-685.236,-70.7421,0,-685.236,-70.7421,-685.236 1/1:193:0,191,1:0:0:191,1:6642,36:-557.393,-57.4967,0,-554.456,-54.5162,-554.155 1/1:315:0,314,1:0:0:314,1:10964,27:-896.065,-94.5234,0,-893.936,-92.1247,-893.635 1/1:130:0,129,0:0:0:129,0:4506,0:-380.332,-38.8329,0,-380.332,-38.8329,-380.332 1/2:157:0,80,76:0:0:80,76:2769,2707:-433.872,-220.634,-196.552,-213.221,0,-190.343 1/2:181:0,85,95:0:0:85,95:2981,3364:-474.533,-274.059,-248.471,-200.546,0,-171.948 1/2:140:0,95,44:0:0:95,44:3310,1580:-373.242,-128.928,-100.33,-244.354,0,-231.108 1/1:201:0,200,0:0:0:200,0:6977,0:-564.586,-60.206,0,-564.586,-60.206,-564.586 1/1:100:0,99,0:0:0:99,0:3382,0:-260.862,-29.802,0,-260.862,-29.802,-260.862 chr01 30395018 . TA CG,CA 48019.9 PASS AB=0.336639,0.662194;ABP=400.311,394.656;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1268,1136;CIGAR=2X,1X1M;DP=2408;DPB=2582.5;DPRA=0,1.48026;EPP=2756.44,2469.8;EPPR=0;GTI=3;LEN=2,1;MEANALT=1.85714,2.21429;MQM=30.8494,59.6769;MQMR=0;NS=21;NUMALT=2;ODDS=5.13137;PAIRED=0,0;PAIREDR=0;PAO=174.5,174.5;PQA=6188,6188;PQR=0;PRO=0;QA=44231,40208;QR=0;RO=0;RPL=0,365;RPP=2756.44,318.096;RPPR=0;RPR=1268,771;RUN=1,1;SAF=0,365;SAP=2756.44,318.096;SAR=1268,771;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:174:0,43,130:0:0:43,130:1457,4580:-472.41,-372.958,-360.014,-99.5146,0,-60.3807 1/2:74:0,31,43:0:0:31,43:1085,1540:-186.48,-121.344,-112.012,-60.9445,0,-48.0002 1/2:117:0,47,70:0:0:47,70:1641,2457:-310.548,-198.877,-184.729,-111.93,0,-90.8582 1/2:155:0,24,131:0:0:24,131:818,4601:-430.073,-374.245,-367.02,-56.0136,0,-16.5787 1/2:259:0,76,182:0:0:76,182:2644,6429:-703.327,-523.513,-500.635,-179.766,0,-124.978 1/2:57:0,25,32:0:0:25,32:853,1148:-142.925,-90.2075,-82.6818,-49.3238,0,-39.6909 1/2:108:0,51,57:0:0:51,57:1800,2015:-265.168,-155.811,-140.458,-101.126,0,-83.9675 1/2:146:0,39,107:0:0:39,107:1345,3810:-396.991,-310.77,-299.03,-86.4622,0,-54.2519 1/2:230:0,84,146:0:0:84,146:2936,5197:-633.518,-423.873,-398.587,-209.973,0,-166.022 1/2:30:0,9,21:0:0:9,21:324,756:-82.6774,-62.0456,-59.3363,-20.9416,0,-14.62 1/1:10:0,10,0:0:0:10,0:353,0:-24.0637,-3.0103,0,-24.0637,-3.0103,-24.0637 1/1:64:0,64,0:0:0:64,0:2209,0:-161.787,-19.2659,0,-161.787,-19.2659,-161.787 1/1:113:0,113,0:0:0:113,0:3964,0:-303.726,-34.0164,0,-303.726,-34.0164,-303.726 1/1:86:0,84,1:0:0:84,1:2933,36:-224.588,-25.2865,0,-221.65,-22.2902,-221.349 1/1:195:0,194,0:0:0:194,0:6811,0:-521.106,-58.3998,0,-521.106,-58.3998,-521.106 1/1:61:0,61,0:0:0:61,0:2134,0:-169.08,-18.3628,0,-169.08,-18.3628,-169.08 1/2:102:0,27,75:0:0:27,75:946,2651:-282.571,-216.26,-208.132,-66.6297,0,-44.0524 1/2:168:0,71,97:0:0:71,97:2473,3416:-438.661,-278.331,-256.958,-160.524,0,-131.324 1/2:94:0,50,44:0:0:50,44:1768,1572:-247.019,-128.498,-113.446,-118.85,0,-105.605 1/1:105:0,105,0:0:0:105,0:3659,0:-267.002,-31.6082,0,-267.002,-31.6082,-267.002 1/1:60:0,60,0:0:0:60,0:2078,0:-142.55,-18.0618,0,-142.55,-18.0618,-142.55 chr01 30395050 . T C 17939.2 PASS AB=0.423503;ABP=71.78;AC=29;AF=0.690476;AN=42;AO=1266;CIGAR=1X;DP=2046;DPB=2046;DPRA=0;EPP=2752.09;EPPR=1694.59;GTI=1;LEN=1;MEANALT=1.04762;MQM=31.2117;MQMR=59.7792;NS=21;NUMALT=1;ODDS=3.72321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45274;QR=27314;RO=779;RPL=1266;RPP=2752.09;RPPR=1694.59;RPR=0;RUN=1;SAF=0;SAP=2752.09;SAR=1266;SRF=0;SRP=1694.59;SRR=779;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:90,45:90:3098:45:1605:-80.2052,0,-238.158 0/1:73:41,32:41:1411:32:1137:-56.2115,0,-105.282 0/1:93:46,47:46:1617:47:1688:-99.7867,0,-117.821 0/1:66:42,24:42:1459:24:864:-45.7026,0,-111.693 0/1:175:100,75:100:3519:75:2677:-151.292,0,-264.235 0/1:59:34,25:34:1216:25:888:-44.0722,0,-91.9858 0/1:113:60,53:60:2133:53:1904:-98.3321,0,-158.08 0/1:116:79,37:79:2734:37:1324:-59.8907,0,-211.342 0/1:186:107,79:107:3726:79:2821:-168.114,0,-279.467 0/1:26:16,10:16:564:10:356:-18.7067,0,-43.2635 1/1:10:0,10:0:0:10:356:-24.322,-3.0103,0 1/1:62:0,62:0:0:62:2228:-160.652,-18.6639,0 1/1:112:0,112:0:0:112:4024:-305.299,-33.7154,0 1/1:86:0,86:0:0:86:3065:-233.6,-25.8886,0 1/1:196:0,196:0:0:196:7010:-532.767,-59.0019,0 1/1:61:0,61:0:0:61:2184:-171.762,-18.3628,0 0/1:75:50,25:50:1769:25:892:-47.0794,0,-136.912 0/1:156:85,71:85:3028:71:2548:-138.082,0,-225.721 0/1:79:29,50:29:1040:50:1800:-111.432,0,-70.133 1/1:105:0,105:0:0:105:3736:-271.175,-31.6082,0 1/1:61:0,61:0:0:61:2167:-148.408,-18.3628,0 chr01 30557334 . TCTAT ACTAC 13751.8 PASS AB=0.52975;ABP=15.0263;AC=13;AF=0.309524;AN=42;AO=828;CIGAR=1X3M1X;DP=2199;DPB=2199;DPRA=1.51234;EPP=1800.99;EPPR=2936.73;GTI=1;LEN=5;MEANALT=1.61538;MQM=59.8732;MQMR=59.9905;NS=21;NUMALT=1;ODDS=7.41638;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29088;QR=46365;RO=1363;RPL=828;RPP=1800.99;RPPR=2936.73;RPR=0;RUN=1;SAF=0;SAP=1800.99;SAR=828;SRF=0;SRP=2962.73;SRR=1363;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:62,79:62:2123:79:2788:-208.712,0,-148.895 0/1:62:26,35:26:875:35:1240:-93.1822,0,-60.3373 0/1:101:44,56:44:1501:56:1943:-144.757,0,-105.009 0/1:114:59,55:59:2032:55:1919:-138.668,0,-148.835 0/1:212:81,130:81:2782:130:4584:-349,0,-186.9 0/1:82:35,46:35:1213:46:1613:-120.852,0,-84.8752 0/1:180:65,114:65:2169:114:3989:-304.946,0,-141.235 0/1:163:97,65:97:3312:65:2303:-158.492,0,-249.271 0/1:246:98,147:98:3323:147:5132:-387.95,0,-225.239 0/1:17:9,8:9:312:8:288:-21.1499,0,-23.298 0/0:5:5,0:5:177:0:0:0,-1.50515,-16.277 0/0:42:42,0:42:1442:0:0:0,-12.6433,-130.073 0/0:137:137,0:137:4685:0:0:0,-41.2411,-421.829 0/0:119:119,0:119:3916:0:0:0,-35.8226,-352.657 0/0:148:148,0:148:5018:0:0:0,-44.5524,-451.794 0/0:23:23,0:23:765:0:0:0,-6.92369,-69.1575 0/1:34:20,14:20:684:14:501:-35.1918,0,-51.6442 0/1:117:69,47:69:2397:47:1667:-115.067,0,-180.739 0/1:94:62,32:62:2121:32:1121:-72.8954,0,-162.864 0/0:91:91,0:91:3088:0:0:0,-27.3937,-278.158 0/0:71:71,0:71:2430:0:0:0,-21.3731,-218.958 chr01 30642923 . C T 25002.1 PASS AB=0.465136;ABP=15.4261;AC=29;AF=0.690476;AN=42;AO=1221;CIGAR=1X;DP=1854;DPB=1854;DPRA=0;EPP=2559.69;EPPR=1321.59;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9443;MQMR=59.9873;NS=21;NUMALT=1;ODDS=6.65524;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43686;QR=22504;RO=631;RPL=11;RPP=2559.69;RPPR=1321.59;RPR=1210;RUN=1;SAF=1221;SAP=2654.38;SAR=0;SRF=631;SRP=1373.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:24,15:24:855:15:540:-37.1964,0,-65.53 0/1:17:9,8:9:324:8:288:-21.1499,0,-24.3883 0/1:130:65,65:65:2306:65:2340:-171.725,0,-168.666 0/1:91:46,44:46:1631:44:1574:-114.645,0,-119.772 0/1:144:87,57:87:3108:57:2040:-140.524,0,-236.599 0/1:40:31,9:31:1108:9:316:-16.7377,0,-87.9898 0/1:85:50,35:50:1788:35:1260:-88.1179,0,-135.612 0/1:151:84,67:84:2990:67:2385:-169.292,0,-223.876 0/1:174:101,72:101:3623:72:2566:-178.869,0,-273.955 0/1:19:7,12:7:252:12:428:-33.1392,0,-17.3094 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:47:0,47:0:0:47:1683:-151.756,-14.1484,0 1/1:161:0,161:0:0:161:5739:-516.627,-48.4658,0 1/1:100:1,99:1:36:99:3543:-315.48,-26.5047,0 1/1:133:0,133:0:0:133:4762:-428.734,-40.037,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 0/1:44:20,24:20:716:24:860:-64.4765,0,-51.5224 0/1:178:81,97:81:2886:97:3472:-259.104,0,-206.393 0/1:64:22,42:22:773:42:1491:-115.2,0,-50.6236 1/1:132:1,131:1:36:131:4699:-419.471,-36.1377,0 1/1:67:2,65:2:72:65:2332:-203.303,-13.3323,0 chr01 30642947 . A G 24088.8 PASS AB=0.465136;ABP=15.4261;AC=29;AF=0.690476;AN=42;AO=1211;CIGAR=1X;DP=1844;DPB=1844;DPRA=0;EPP=2632.66;EPPR=1375.38;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9447;MQMR=59.9873;NS=21;NUMALT=1;ODDS=6.23022;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43154;QR=22631;RO=632;RPL=1211;RPP=2632.66;RPPR=1375.38;RPR=0;RUN=1;SAF=1211;SAP=2632.66;SAR=0;SRF=632;SRP=1375.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:24,17:24:856:17:591:-41.173,0,-65.0189 0/1:17:9,8:9:324:8:288:-21.1499,0,-24.3883 0/1:132:67,65:67:2400:65:2332:-170.404,0,-176.521 0/1:93:50,43:50:1800:43:1548:-111.617,0,-134.286 0/1:142:86,55:86:3092:55:1951:-133.06,0,-235.702 0/1:40:31,9:31:1116:9:324:-17.4647,0,-88.7105 0/1:83:48,35:48:1728:35:1256:-88.3598,0,-130.812 0/1:151:83,68:83:2972:68:2416:-171.222,0,-222.257 0/1:169:100,69:100:3584:69:2464:-171.14,0,-271.893 0/1:18:7,11:7:252:11:396:-30.5642,0,-17.6104 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:46:0,46:0:0:46:1643:-148.158,-13.8474,0 1/1:156:0,156:0:0:156:5578:-502.143,-46.9607,0 1/1:96:1,95:1:21:95:3376:-301.955,-26.7989,0 1/1:132:0,132:0:0:132:4724:-425.317,-39.736,0 1/1:28:0,28:0:0:28:991:-89.5035,-8.42884,0 0/1:44:20,24:20:712:24:856:-64.1158,0,-51.1613 0/1:178:80,98:80:2855:98:3460:-258.028,0,-203.604 0/1:68:23,45:23:811:45:1590:-122.83,0,-52.8399 1/1:131:1,130:1:36:130:4619:-412.276,-35.8367,0 1/1:68:2,66:2:72:66:2359:-205.731,-13.6333,0 chr01 30645421 . T A 9511.69 PASS AB=0.450346;ABP=30.8282;AC=13;AF=0.309524;AN=42;AO=585;CIGAR=1X;DP=1919;DPB=1919;DPRA=1.28933;EPP=1273.32;EPPR=2882.41;GTI=0;LEN=1;MEANALT=1;MQM=59.9932;MQMR=60;NS=21;NUMALT=1;ODDS=14.4262;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20976;QR=47713;RO=1334;RPL=0;RPP=1273.32;RPPR=2882.41;RPR=585;RUN=1;SAF=585;SAP=1273.32;SAR=0;SRF=1334;SRP=2899.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:74,45:74:2640:45:1616:-109.907,0,-202.025 0/1:77:33,44:33:1180:44:1584:-119.672,0,-83.3287 0/1:68:37,31:37:1324:31:1116:-80.2817,0,-98.9921 0/1:107:68,39:68:2429:39:1400:-94.0866,0,-186.654 0/1:188:93,95:93:3327:95:3412:-250.7,0,-243.054 0/1:74:36,38:36:1296:38:1359:-100.334,0,-94.6677 0/1:148:81,67:81:2904:67:2408:-172.424,0,-217.043 0/1:111:56,55:56:1996:55:1964:-143.621,0,-146.5 0/1:162:98,64:98:3520:64:2300:-158.494,0,-268.242 0/1:14:4,10:4:144:10:356:-28.1668,0,-9.0992 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 0/0:83:83,0:83:2963:0:0:0,-24.9855,-266.903 0/0:67:67,0:67:2375:0:0:0,-20.169,-214.008 0/0:155:155,0:155:5544:0:0:0,-46.6596,-499.085 0/0:109:109,0:109:3900:0:0:0,-32.8123,-351.194 0/1:91:47,44:47:1671:44:1557:-113.026,0,-123.283 0/1:66:35,31:35:1256:31:1116:-80.8837,0,-93.4773 0/1:74:52,22:52:1856:22:788:-48.9686,0,-145.044 0/0:91:91,0:91:3256:0:0:0,-27.3937,-293.261 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.738 chr01 30645467 . T A 28655 PASS AB=0.457477;ABP=47.3323;AC=13;AF=0.309524;AN=42;AO=1295;CIGAR=1X;DP=4103;DPB=4103;DPRA=1.49086;EPP=38.2653;EPPR=21.1193;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9714;MQMR=59.99;NS=21;NUMALT=1;ODDS=24.8859;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45736;QR=100227;RO=2807;RPL=1282;RPP=2703.28;RPPR=5908.74;RPR=13;RUN=1;SAF=562;SAP=52.042;SAR=733;SRF=1305;SRP=33.0326;SRR=1502;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:93,75:93:3308:75:2657:-188.803,0,-247.365 0/1:176:92,84:92:3268:84:2961:-213.744,0,-241.358 0/1:163:88,75:88:3156:75:2655:-190.129,0,-235.16 0/1:234:139,95:139:4984:95:3332:-229.658,0,-378.264 0/1:385:202,182:202:7210:182:6420:-461.931,0,-532.998 0/1:167:89,78:89:3192:78:2745:-197.02,0,-237.231 0/1:333:188,145:188:6691:145:5096:-358.547,0,-502.025 0/1:268:131,137:131:4696:137:4874:-358.089,0,-342.124 0/1:372:194,178:194:6929:178:6267:-452.149,0,-511.693 0/1:30:9,21:9:315:21:744:-58.2534,0,-19.6563 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/0:57:57,0:57:2026:0:0:0,-17.1587,-182.611 0/0:142:140,2:140:4988:2:72:0,-35.9095,-442.231 0/0:210:210,0:210:7536:0:0:0,-63.2163,-678.274 0/0:277:276,1:276:9820:1:36:0,-79.787,-880.148 0/0:211:211,0:211:7542:0:0:0,-63.5173,-678.821 0/1:173:82,91:82:2940:91:3225:-238.396,0,-212.756 0/1:202:111,91:111:3967:91:3224:-229.574,0,-296.413 0/1:151:112,39:112:3987:39:1392:-80.1235,0,-313.563 0/0:205:205,0:205:7319:0:0:0,-61.7111,-658.759 0/0:151:150,1:150:5349:1:36:0,-41.8573,-477.945 chr01 30710369 . ACTG GCTA,GCTG 30139.4 PASS AB=0.524823,0.469098;ABP=8.29268,11.1968;AC=29,13;AF=0.690476,0.309524;AN=42;AO=974,466;CIGAR=1X2M1X,1X3M;DP=1449;DPB=1449;DPRA=0,1.85525;EPP=2074.82,997.619;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.04762,2.4;MQM=59.9733,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.28936;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34454,16652;QR=0;RO=0;RPL=969,464;RPP=2074.82,997.619;RPPR=0;RPR=5,2;RUN=1,1;SAF=0,0;SAP=2118.02,1014.92;SAR=974,466;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,25,31:0:0:25,31:889,1108:-163.146,-90.6991,-83.1733,-72.8033,0,-63.4714 1/2:59:0,32,27:0:0:32,27:1135,968:-171.778,-79.3096,-69.6766,-92.8255,0,-84.6977 1/2:79:0,41,37:0:0:41,37:1451,1324:-226.151,-107.964,-95.622,-118.183,0,-107.045 1/2:54:0,27,27:0:0:27,27:934,959:-154.389,-78.4976,-70.3698,-76.2417,0,-68.1139 1/2:103:0,44,59:0:0:44,59:1560,2112:-299.678,-172.588,-159.343,-127.446,0,-109.685 1/2:36:0,21,15:0:0:21,15:750,540:-105.567,-44.4211,-38.0995,-61.5045,0,-56.9891 1/2:84:0,39,44:0:0:39,44:1377,1571:-240.248,-128.115,-116.375,-112.167,0,-98.9215 1/2:93:0,51,42:0:0:51,42:1777,1492:-266.438,-121.931,-106.579,-144.859,0,-132.216 1/2:93:0,50,42:0:0:50,42:1779,1490:-266.375,-121.39,-106.339,-144.981,0,-132.337 1/2:8:0,5,3:0:0:5,3:174,108:-23.3128,-9.17208,-7.66693,-14.4961,0,-13.593 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:21:0,21,0:0:0:21,0:752,0:-68.0065,-6.32163,0,-68.0065,-6.32163,-68.0065 1/1:65:0,61,2:0:0:61,2:2148,72:-193.227,-18.3628,0,-187.352,-12.488,-186.75 1/1:81:0,81,0:0:0:81,0:2847,0:-256.468,-24.3834,0,-256.468,-24.3834,-256.468 1/1:140:0,139,1:0:0:139,1:4935,36:-443.943,-41.8432,0,-441.006,-38.5459,-440.705 1/1:54:0,53,0:0:0:53,0:1891,0:-170.226,-15.9546,0,-170.226,-15.9546,-170.226 1/2:75:0,43,31:0:0:43,31:1527,1112:-215.121,-90.6996,-77.7553,-124.419,0,-115.087 1/2:195:0,101,94:0:0:101,94:3578,3364:-566.101,-274.68,-244.276,-291.777,0,-263.481 1/2:52:0,39,11:0:0:39,11:1368,396:-143.637,-32.3158,-20.5756,-111.323,0,-108.012 1/1:31:0,31,0:0:0:31,0:1112,0:-100.392,-9.33193,0,-100.392,-9.33193,-100.392 1/1:66:0,66,0:0:0:66,0:2326,0:-209.599,-19.868,0,-209.599,-19.868,-209.599 chr01 30712385 . T A 31770.2 PASS AB=0.550102;ABP=34.9962;AC=29;AF=0.690476;AN=42;AO=1596;CIGAR=1X;DP=2260;DPB=2260;DPRA=0;EPP=3468.68;EPPR=1438.35;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.985;MQMR=60;NS=21;NUMALT=1;ODDS=15.4377;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56486;QR=23378;RO=661;RPL=1596;RPP=3468.68;RPPR=1438.35;RPR=0;RUN=1;SAF=1596;SAP=3468.68;SAR=0;SRF=661;SRP=1438.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:59,57:59:2078:57:2023:-147.063,0,-152.011 0/1:50:23,27:23:816:27:939:-69.769,0,-58.7102 0/1:94:46,48:46:1644:48:1720:-126.789,0,-119.952 0/1:116:57,59:57:2020:59:2108:-155.07,0,-147.151 0/1:237:99,138:99:3473:138:4899:-369.719,0,-241.439 0/1:153:66,87:66:2338:87:3095:-232.721,0,-164.621 0/1:185:74,111:74:2623:111:3877:-293.44,0,-180.628 0/1:118:54,64:54:1915:64:2277:-169.67,0,-137.105 0/1:203:97,106:97:3456:106:3726:-274.431,0,-250.145 0/1:14:7,7:7:248:7:248:-18.4498,0,-18.4498 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:46:0,46:0:0:46:1610:-145.185,-13.8474,0 1/1:126:0,125:0:0:125:4454:-400.672,-37.6288,0 1/1:199:0,199:0:0:199:7053:-634.839,-59.905,0 1/1:181:0,181:0:0:181:6445:-580.139,-54.4864,0 1/1:92:0,92:0:0:92:3269:-294.431,-27.6948,0 0/1:68:25,43:25:864:43:1493:-114.19,0,-57.6023 0/1:56:29,27:29:1023:27:942:-68.2347,0,-75.5241 0/1:55:22,33:22:776:33:1144:-86.707,0,-53.6055 1/1:104:3,101:3:104:101:3561:-310.999,-21.6043,0 1/1:37:0,37:0:0:37:1315:-118.651,-11.1381,0 chr01 30756023 . T A 49503.1 PASS AB=0.486064;ABP=6.46023;AC=29;AF=0.690476;AN=42;AO=1837;CIGAR=1X;DP=2892;DPB=2892;DPRA=0;EPP=720.342;EPPR=594.903;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9989;MQMR=59.9782;NS=21;NUMALT=1;ODDS=1.70174;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65076;QR=37530;RO=1054;RPL=1504;RPP=1623.92;RPPR=895.012;RPR=333;RUN=1;SAF=975;SAP=18.1042;SAR=862;SRF=597;SRP=43.3906;SRR=457;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:72,76:72:2560:76:2697:-198.421,0,-186.096 0/1:128:76,52:76:2696:52:1843:-127.618,0,-204.351 0/1:87:45,42:45:1600:42:1477:-107.034,0,-118.101 0/1:179:90,89:90:3223:89:3130:-228.042,0,-236.407 0/1:306:153,153:153:5456:153:5453:-398.784,0,-399.053 0/1:162:82,80:82:2933:80:2852:-208.152,0,-215.436 0/1:344:184,160:184:6493:160:5650:-405.072,0,-480.905 0/1:153:81,72:81:2891:72:2538:-182.614,0,-214.368 0/1:216:115,101:115:4128:101:3561:-255.677,0,-306.453 0/1:24:13,11:13:464:11:374:-26.7614,0,-34.8728 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 1/1:48:0,48:0:0:48:1697:-153.014,-14.4494,0 1/1:114:0,114:0:0:114:4033:-363.161,-34.3174,0 1/1:177:0,176:0:0:176:6247:-561.972,-52.9813,0 1/1:196:0,196:0:0:196:6933:-624.042,-59.0019,0 1/1:87:2,85:2:72:85:3007:-264.024,-19.3529,0 0/1:74:42,32:42:1489:32:1140:-80.633,0,-112.026 0/1:123:59,64:59:2116:64:2275:-167.985,0,-153.682 0/1:101:39,62:39:1373:62:2212:-168.94,0,-93.4626 1/1:105:0,105:0:0:105:3710:-334.104,-31.6082,0 1/1:102:1,101:1:36:101:3607:-321.239,-27.1068,0 chr01 30761770 . AGGCGTC GGGTGTT,AGGTGTT 24667.4 PASS AB=0.467378,0.524318;ABP=10.8024,7.34037;AC=29,13;AF=0.690476,0.309524;AN=42;AO=770,445;CIGAR=1X2M1X2M1X,3M1X2M1X;DP=1226;DPB=1226.29;DPRA=0,4.27048;EPP=1675.04,969.316;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.14286,2.6;MQM=59.8974,59.5618;MQMR=0;NS=21;NUMALT=2;ODDS=1.07329;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=23,23;PQR=0;PRO=0;QA=27112,15595;QR=0;RO=0;RPL=0,0;RPP=1675.04,969.316;RPPR=0;RPR=770,445;RUN=1,1;SAF=770,445;SAP=1675.04,969.316;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:10:0,8,2:0:0:8,2:283,72:-29.2803,-6.23466,-3.82642,-23.4042,0,-22.8021 1/2:7:0,2,5:0:0:2,5:68,180:-20.5536,-15.0435,-14.4414,-5.85565,0,-4.3505 1/2:6:0,2,4:0:0:2,4:70,144:-17.7992,-12.1071,-11.505,-6.04527,0,-4.84115 1/2:16:0,13,3:0:0:13,3:451,108:-45.8208,-9.17208,-5.25869,-37.0061,0,-36.103 1/2:13:0,9,4:0:0:9,4:312,143:-37.3688,-12.0173,-9.30805,-25.7055,0,-24.5014 1/2:12:0,3,8:0:0:3,8:108,285:-32.0399,-23.2268,-22.3237,-8.81225,0,-6.40401 1/2:31:0,11,20:0:0:11,20:392,706:-89.7977,-57.8438,-54.5325,-32.3089,0,-26.2883 1/2:42:0,26,16:0:0:26,16:925,541:-119.426,-44.188,-36.3612,-75.5825,0,-70.766 1/2:26:0,16,10:0:0:16,10:564,351:-74.8386,-28.9162,-24.0997,-46.2738,0,-43.2635 1/2:172:0,67,105:0:0:67,105:2375,3693:-494.304,-300.826,-280.657,-193.776,0,-162.168 1/1:146:0,144,2:0:0:144,2:5054,72:-454.648,-43.3483,0,-448.773,-37.1137,-448.171 1/1:132:0,127,1:0:0:127,1:4504,36:-405.2,-38.2308,0,-402.263,-35.2849,-401.962 1/1:20:0,20,0:0:0:20,0:701,0:-63.4125,-6.0206,0,-63.4125,-6.0206,-63.4125 1/1:22:0,22,0:0:0:22,0:776,0:-70.1594,-6.62266,0,-70.1594,-6.62266,-70.1594 1/1:16:0,16,0:0:0:16,0:554,0:-50.1854,-4.81648,0,-50.1854,-4.81648,-50.1854 1/1:6:0,6,0:0:0:6,0:203,0:-18.6012,-1.80618,0,-18.6012,-1.80618,-18.6012 1/2:7:0,1,6:0:0:1,6:36,211:-20.4657,-17.5271,-17.226,-3.29724,0,-1.49106 1/2:463:0,224,235:0:0:224,235:7873,8198:-1307.53,-666.702,-599.271,-640.822,0,-570.08 1/2:38:0,12,24:0:0:12,24:421,855:-103.942,-69.6828,-66.0704,-34.2529,0,-27.0282 1/1:16:0,16,0:0:0:16,0:560,0:-50.6725,-4.81648,0,-50.6725,-4.81648,-50.6725 1/1:25:0,25,0:0:0:25,0:882,0:-79.6955,-7.52575,0,-79.6955,-7.52575,-79.6955 chr01 30761811 . C T 13155.4 PASS AB=0.531972;ABP=13.0076;AC=13;AF=0.309524;AN=42;AO=606;CIGAR=1X;DP=1684;DPB=1684;DPRA=1.47744;EPP=245.241;EPPR=440.439;GTI=0;LEN=1;MEANALT=1;MQM=59.6023;MQMR=59.9647;NS=21;NUMALT=1;ODDS=3.14853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21478;QR=38349;RO=1078;RPL=606;RPP=1318.92;RPPR=2326.52;RPR=0;RUN=1;SAF=433;SAP=245.241;SAR=173;SRF=770;SRP=432.962;SRR=308;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:33:21,12:21:756:12:411:-27.3839,0,-58.4332 0/1:25:10,15:10:360:15:536:-41.0457,0,-25.2186 0/1:18:7,11:7:248:11:392:-30.1992,0,-17.2457 0/1:56:33,23:33:1188:23:811:-55.3162,0,-90.3709 0/1:58:24,34:24:856:34:1208:-91.5663,0,-59.9014 0/1:41:11,30:11:396:30:1053:-82.7363,0,-23.6405 0/1:48:20,28:20:720:28:980:-74.0607,0,-50.6793 0/1:55:28,27:28:1008:27:968:-70.8752,0,-74.4797 0/1:57:29,28:29:1044:28:978:-71.1721,0,-77.1161 0/1:171:68,103:68:2425:103:3648:-276.968,0,-167.021 0/0:145:143,2:143:5114:2:72:0,-36.8126,-453.562 0/0:136:135,1:135:4801:1:36:0,-37.3418,-428.641 0/0:41:40,1:40:1392:1:36:0,-8.74395,-121.976 0/0:59:58,1:58:2063:1:36:0,-14.1625,-182.342 0/0:45:44,1:44:1571:1:36:0,-9.94807,-138.083 0/0:20:19,1:19:684:1:36:0,-2.42232,-58.2921 0/1:15:5,10:5:180:10:356:-27.8658,0,-12.0366 0/1:477:239,238:239:8468:238:8457:-617.48,0,-618.535 0/1:72:32,40:32:1132:40:1428:-107.141,0,-80.5144 0/0:51:51,0:51:1798:0:0:0,-15.3525,-162.1 0/0:61:61,0:61:2145:0:0:0,-18.3628,-193.313 chr01 30781611 . A G 12195.4 PASS AB=0.522241;ABP=5.61821;AC=29;AF=0.690476;AN=42;AO=617;CIGAR=1X;DP=908;DPB=908;DPRA=0;EPP=1342.81;EPPR=634.909;GTI=0;LEN=1;MEANALT=1;MQM=59.9303;MQMR=59.9966;NS=21;NUMALT=1;ODDS=2.3256;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21962;QR=10358;RO=291;RPL=617;RPP=1342.81;RPPR=634.909;RPR=0;RUN=1;SAF=0;SAP=1342.81;SAR=617;SRF=0;SRP=634.909;SRR=291;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:29,25:29:1031:25:887:-63.8925,0,-76.847 0/1:23:12,11:12:428:11:396:-29.0591,0,-31.9351 0/1:55:17,38:17:597:38:1345:-104.792,0,-37.4995 0/1:30:13,17:13:468:17:612:-46.3825,0,-33.4287 0/1:115:44,71:44:1572:71:2552:-195.312,0,-107.153 0/1:46:25,21:25:892:21:748:-53.7979,0,-66.7523 0/1:55:36,19:36:1284:19:671:-44.1591,0,-99.3068 0/1:78:46,32:46:1621:32:1148:-80.1211,0,-122.697 0/1:75:36,39:36:1281:39:1385:-102.37,0,-93.0136 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:19:1,18:1:36:18:644:-54.6923,-2.1213,0 1/1:34:0,34:0:0:34:1194:-107.764,-10.235,0 1/1:56:0,56:0:0:56:2004:-180.634,-16.8577,0 1/1:77:0,77:0:0:77:2732:-246.12,-23.1793,0 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 0/1:19:8,11:8:288:11:396:-30.2632,0,-20.5478 0/1:33:17,16:17:608:16:564:-41.1563,0,-45.118 0/1:19:6,13:6:216:13:464:-36.3733,0,-14.0709 1/1:61:0,61:0:0:61:2153:-194.036,-18.3628,0 1/1:17:0,17:0:0:17:599:-54.2381,-5.11751,0 chr01 30788649 . C T 6051.12 PASS AB=0.425879;ABP=40.9947;AC=12;AF=0.285714;AN=42;AO=339;CIGAR=1X;DP=1268;DPB=1268;DPRA=1.26483;EPP=459.654;EPPR=1099.79;GTI=0;LEN=1;MEANALT=1;MQM=45.2006;MQMR=32.8299;NS=21;NUMALT=1;ODDS=11.1161;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12111;QR=33356;RO=929;RPL=36;RPP=459.654;RPPR=1099.79;RPR=303;RUN=1;SAF=0;SAP=739.139;SAR=339;SRF=0;SRP=2020.31;SRR=929;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:50,32:50:1772:32:1148:-77.149,0,-112.161 0/1:52:23,29:23:828:29:1040:-77.1107,0,-50.4708 0/1:31:18,13:18:648:13:464:-31.7566,0,-38.8245 0/1:110:67,43:67:2404:43:1544:-102.718,0,-150.065 0/1:141:70,71:70:2516:71:2534:-181.462,0,-150.468 0/1:63:31,32:31:1116:32:1114:-80.7776,0,-69.7951 0/1:43:22,21:22:788:21:752:-54.5021,0,-50.3086 0/1:38:23,15:23:828:15:540:-37.0695,0,-54.8634 0/1:100:69,31:69:2484:31:1116:-68.1447,0,-160.399 0/0:6:6,0:6:216:0:0:0,-1.80618,-17.5319 0/0:6:6,0:6:216:0:0:0,-1.80618,-17.5319 0/0:19:19,0:19:684:0:0:0,-5.71957,-55.5421 0/0:125:125,0:125:4492:0:0:0,-37.6287,-340.693 0/0:62:62,0:62:2228:0:0:0,-18.6639,-171.909 0/0:101:101,0:101:3624:0:0:0,-30.404,-274.054 0/0:50:50,0:50:1800:0:0:0,-15.0515,-134.112 0/1:17:7,10:7:252:10:360:-27.022,0,-15.4897 0/1:47:26,21:26:936:21:748:-52.5828,0,-59.8529 0/1:72:51,21:51:1828:21:751:-43.8769,0,-118.741 0/0:59:59,0:59:2112:0:0:0,-17.7608,-167.089 0/0:44:44,0:44:1584:0:0:0,-13.2453,-124.075 chr01 30788658 . GA TG,TA 22718.3 PASS AB=0.571782,0.424505;ABP=39.1728,43.0105;AC=30,12;AF=0.714286,0.285714;AN=42;AO=939,343;CIGAR=2X,1X1M;DP=1287;DPB=1287;DPRA=0,1.26514;EPP=1880.33,721.996;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.7619,2.16667;MQM=32.7508,45.1691;MQMR=0;NS=21;NUMALT=2;ODDS=10.4418;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32199,12192;QR=0;RO=0;RPL=920,340;RPP=1880.33,721.996;RPPR=0;RPR=19,3;RUN=1,1;SAF=0,0;SAP=2042.02,747.825;SAR=939,343;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:78:0,48,30:0:0:48,30:1663,1049:-198.424,-83.9577,-69.5083,-114.792,0,-105.761 1/2:52:0,23,29:0:0:23,29:809,1027:-140.95,-82.9719,-76.0482,-58.3075,0,-49.5777 1/2:32:0,18,13:0:0:18,13:629,445:-77.3514,-35.41,-29.9915,-41.9522,0,-38.0388 1/2:112:0,65,45:0:0:65,45:2246,1604:-281.393,-127.921,-108.354,-153.47,0,-139.923 1/2:145:0,74,71:0:0:74,71:2545,2525:-377.175,-202.331,-180.055,-175.167,0,-153.794 1/2:66:0,33,33:0:0:33,33:1119,1180:-175.702,-95.611,-85.677,-80.42,0,-70.4861 1/2:44:0,22,22:0:0:22,22:775,792:-119.945,-64.378,-57.7553,-55.9023,0,-49.2796 1/2:39:0,24,15:0:0:24,15:768,536:-99.739,-43.6484,-36.4237,-56.4214,0,-51.9059 1/2:102:0,70,32:0:0:70,32:2439,1144:-258.805,-91.5718,-70.4997,-167.567,0,-157.934 1/1:6:0,6,0:0:0:6,0:206,0:-17.0063,-1.80618,0,-17.0063,-1.80618,-17.0063 1/1:6:0,5,0:0:0:5,0:167,0:-13.5931,-1.50515,0,-13.5931,-1.50515,-13.5931 1/1:19:0,19,0:0:0:19,0:651,0:-53.2099,-5.71957,0,-53.2099,-5.71957,-53.2099 1/1:126:0,126,0:0:0:126,0:4329,0:-334.087,-37.9298,0,-334.087,-37.9298,-334.087 1/1:65:0,65,0:0:0:65,0:2180,0:-172.074,-19.567,0,-172.074,-19.567,-172.074 1/1:102:0,102,0:0:0:102,0:3515,0:-270.297,-30.7051,0,-270.297,-30.7051,-270.297 1/1:52:0,52,0:0:0:52,0:1802,0:-137.157,-15.6536,0,-137.157,-15.6536,-137.157 1/2:17:0,5,12:0:0:5,12:165,432:-46.5039,-34.9478,-33.4427,-11.8653,0,-8.25295 1/2:45:0,26,19:0:0:26,19:907,684:-119.961,-55.6296,-47.8028,-64.6681,0,-58.9486 1/2:76:0,54,22:0:0:54,22:1858,774:-189.85,-61.9145,-45.6589,-128.266,0,-121.644 1/1:59:0,58,0:0:0:58,0:1939,0:-155.328,-17.4597,0,-155.328,-17.4597,-155.328 1/1:44:0,44,0:0:0:44,0:1487,0:-119.033,-13.2453,0,-119.033,-13.2453,-119.033 chr01 30788671 . G C 14649.8 PASS AB=0.574121;ABP=40.9947;AC=30;AF=0.714286;AN=42;AO=923;CIGAR=1X;DP=1262;DPB=1262;DPRA=0;EPP=2007.28;EPPR=739.139;GTI=0;LEN=1;MEANALT=1;MQM=32.8353;MQMR=45.292;NS=21;NUMALT=1;ODDS=10.9127;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33065;QR=12004;RO=339;RPL=923;RPP=2007.28;RPPR=739.139;RPR=0;RUN=1;SAF=0;SAP=2007.28;SAR=923;SRF=0;SRP=739.139;SRR=339;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:32,49:32:1127:49:1744:-110.356,0,-75.2202 0/1:51:28,23:28:992:23:828:-50.7718,0,-73.3336 0/1:31:12,19:12:428:19:680:-41.5564,0,-28.5623 0/1:108:42,66:42:1496:66:2370:-148.733,0,-99.3505 0/1:142:72,70:72:2544:70:2512:-151.029,0,-182.913 0/1:66:34,32:34:1203:32:1139:-71.0697,0,-87.687 0/1:44:23,21:23:800:21:752:-47.1386,0,-58.5409 0/1:39:15,24:15:540:24:856:-57.0697,0,-36.7685 0/1:98:29,69:29:1032:69:2469:-160.274,0,-62.0041 1/1:6:0,6:0:0:6:216:-17.5319,-1.80618,0 1/1:6:0,6:0:0:6:216:-17.5319,-1.80618,0 1/1:18:0,18:0:0:18:648:-52.6735,-5.41854,0 1/1:124:0,124:0:0:124:4435:-338.16,-37.3277,0 1/1:61:0,61:0:0:61:2184:-168.916,-18.3628,0 1/1:102:0,102:0:0:102:3664:-276.943,-30.7051,0 1/1:47:0,47:0:0:47:1692:-127.711,-14.1484,0 0/1:15:10,5:10:360:5:180:-9.65786,0,-27.6128 0/1:46:20,26:20:707:26:928:-59.7924,0,-49.2196 0/1:75:22,53:22:775:53:1892:-122.531,0,-44.9138 1/1:58:0,58:0:0:58:2076:-165.213,-17.4597,0 1/1:44:0,44:0:0:44:1584:-124.075,-13.2453,0 chr01 30817076 . G A 5476.37 PASS AB=0.415691;ABP=55.7359;AC=13;AF=0.309524;AN=42;AO=356;CIGAR=1X;DP=1246;DPB=1246;DPRA=1.3058;EPP=776.054;EPPR=1935.62;GTI=0;LEN=1;MEANALT=1;MQM=59.9944;MQMR=59.9787;NS=21;NUMALT=1;ODDS=13.1179;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12735;QR=31834;RO=890;RPL=0;RPP=776.054;RPPR=1935.62;RPR=356;RUN=1;SAF=356;SAP=776.054;SAR=0;SRF=890;SRP=1935.62;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:51,44:51:1828:44:1554:-111.55,0,-136.203 0/1:49:35,14:35:1252:14:500:-30.5857,0,-98.2313 0/1:21:15,6:15:540:6:216:-13.4689,0,-42.6149 0/1:32:21,11:21:752:11:392:-25.9871,0,-58.3733 0/1:136:79,57:79:2806:57:2048:-143.651,0,-211.835 0/1:52:28,24:28:1004:24:845:-60.7135,0,-75.0223 0/1:74:28,46:28:1000:46:1652:-126.691,0,-68.0392 0/1:60:40,20:40:1413:20:716:-46.7059,0,-109.402 0/1:107:68,39:68:2410:39:1400:-94.089,0,-184.943 0/1:19:6,13:6:216:13:468:-36.7401,0,-14.0709 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/0:95:95,0:95:3393:0:0:0,-28.5978,-305.583 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/0:89:89,0:89:3192:0:0:0,-26.7917,-287.503 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/1:37:20,17:20:716:17:612:-44.2753,0,-53.6296 0/1:104:66,38:66:2372:38:1360:-91.3935,0,-182.431 0/1:68:42,26:42:1500:26:936:-64.0894,0,-114.825 0/0:47:46,1:46:1656:1:36:0,-10.5501,-145.73 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 chr01 30817109 . C A 17219.3 PASS AB=0.582431;ABP=52.0553;AC=29;AF=0.690476;AN=42;AO=869;CIGAR=1X;DP=1218;DPB=1218;DPRA=0;EPP=1890.02;EPPR=758.683;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9689;MQMR=59.9943;NS=21;NUMALT=1;ODDS=12.9739;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30838;QR=12364;RO=348;RPL=869;RPP=1890.02;RPPR=758.683;RPR=0;RUN=1;SAF=869;SAP=1890.02;SAR=0;SRF=348;SRP=758.683;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:43,50:43:1506:50:1770:-131.583,0,-107.836 0/1:49:14,35:14:500:35:1222:-95.5288,0,-30.5857 0/1:21:6,15:6:216:15:532:-41.8915,0,-13.4689 0/1:31:10,21:10:360:21:756:-59.0353,0,-23.4124 0/1:137:56,81:56:1996:81:2877:-217.922,0,-138.673 0/1:51:23,28:23:801:28:988:-73.8793,0,-57.0542 0/1:72:44,28:44:1555:28:1008:-69.3622,0,-118.566 0/1:60:22,38:22:792:38:1349:-103.647,0,-53.5439 0/1:98:34,64:34:1216:64:2292:-177.04,0,-80.2456 0/1:18:12,6:12:428:6:216:-14.372,0,-33.4403 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 1/1:94:0,93:0:0:93:3302:-297.037,-27.9958,0 1/1:47:0,47:0:0:47:1661:-149.776,-14.1484,0 1/1:89:0,89:0:0:89:3121:-281.112,-26.7917,0 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 0/1:36:17,19:17:612:19:676:-50.3304,0,-44.5764 0/1:101:39,62:39:1378:62:2228:-170.38,0,-93.9132 0/1:64:27,37:27:968:37:1275:-95.7784,0,-68.1714 1/1:47:1,46:1:36:46:1605:-141.136,-10.5501,0 1/1:42:0,42:0:0:42:1512:-136.375,-12.6433,0 chr01 30860138 . GAG GTG,GT 21432.5 PASS AB=0.480072,0.519928;ABP=4.91427,4.91427;AC=29,13;AF=0.690476,0.309524;AN=42;AO=714,288;CIGAR=1M1X1M,1M1D1X;DP=1006;DPB=910;DPRA=0,0.754364;EPP=1518.89,628.394;EPPR=3.0103;GTI=0;LEN=1,2;MEANALT=1.7619,2;MQM=59.9902,60;MQMR=59.5;NS=21;NUMALT=2;ODDS=8.8043;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25447,10292;QR=49;RO=2;RPL=4,0;RPP=1518.89,628.394;RPPR=3.0103;RPR=710,288;RUN=1,1;SAF=714,288;SAP=1553.44,628.394;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:74:0,32,42:0:0:32,42:1148,1508:-217.003,-123.371,-113.738,-93.9907,0,-81.3474 1/2:27:0,10,17:0:0:10,17:356,612:-79.3096,-50.2959,-47.2856,-29.3709,0,-24.2534 1/2:34:0,14,20:0:0:14,20:504,712:-99.5115,-58.3861,-54.1716,-41.4837,0,-35.4631 1/2:29:0,13,16:0:0:13,16:468,568:-84.824,-46.6354,-42.722,-38.5463,0,-33.7298 1/2:69:0,32,37:0:0:32,37:1130,1319:-199.893,-107.873,-98.2401,-92.374,0,-81.2359 1/2:36:0,11,25:0:0:11,25:392,896:-105.387,-73.4346,-70.1233,-32.3087,0,-24.783 1/2:57:0,35,22:0:0:35,22:1256,784:-166.713,-64.2613,-53.7252,-102.809,0,-96.1866 1/2:43:0,27,16:0:0:27,16:968,568:-125.589,-46.6354,-38.5076,-79.3096,0,-74.4931 1/2:109:0,61,48:0:0:61,48:2192,1715:-319.011,-140.186,-121.823,-179.183,0,-164.733 1/2:9:0,3,6:0:0:3,6:108,216:-26.7966,-17.9843,-17.0812,-9.17208,0,-7.3659 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:15:0,14,0:0:0:14,0:496,0:-44.6148,-4.21442,0,-44.6148,-4.21442,-44.6148 1/1:53:0,52,1:0:0:52,1:1856,36:-166.96,-15.6536,0,-164.023,-12.3563,-163.721 1/1:41:0,41,0:0:0:41,0:1455,0:-131.245,-12.3422,0,-131.245,-12.3422,-131.245 1/1:255:1,253,0:1:21:253,0:8999,0:-807.72,-74.6466,0,-808.021,-76.1606,-809.609 1/1:26:0,26,0:0:0:26,0:927,0:-83.7474,-7.82678,0,-83.7474,-7.82678,-83.7474 1/2:27:0,6,21:0:0:6,21:216,746:-78.7685,-61.1429,-59.3368,-17.9843,0,-11.6627 1/2:24:0,11,13:0:0:11,13:396,468:-70.8578,-38.5463,-35.2349,-32.6714,0,-28.758 1/2:14:0,10,4:0:0:10,4:360,144:-41.4837,-12.1095,-9.0992,-29.734,0,-28.5299 1/1:45:0,45,0:0:0:45,0:1576,0:-142.128,-13.5464,0,-142.128,-13.5464,-142.128 1/1:14:1,13,0:1:28:13,0:464,0:-39.2978,-1.41469,0,-39.5988,-3.91339,-41.8121 chr01 30881275 . A G 25839.3 PASS AB=0.467658;ABP=15.2303;AC=29;AF=0.690476;AN=42;AO=1352;CIGAR=1X;DP=2077;DPB=2077;DPRA=0;EPP=2938.84;EPPR=1575.16;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9571;MQMR=59.982;NS=21;NUMALT=1;ODDS=1.19086;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47204;QR=25699;RO=724;RPL=0;RPP=2938.84;RPPR=1575.16;RPR=1352;RUN=1;SAF=0;SAP=2938.84;SAR=1352;SRF=0;SRP=1575.16;SRR=724;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:62,42:62:2204:42:1443:-98.8535,0,-167.316 0/1:67:32,35:32:1115:35:1248:-92.4559,0,-80.4847 0/1:159:77,82:77:2760:82:2866:-210.314,0,-200.778 0/1:150:73,77:73:2624:77:2674:-195.749,0,-191.252 0/1:120:54,66:54:1908:66:2349:-175.544,0,-135.871 0/1:86:53,33:53:1886:33:1166:-79.357,0,-144.128 0/1:129:68,61:68:2409:61:2129:-153.042,0,-178.233 0/1:133:71,62:71:2523:62:2158:-154.448,0,-187.272 0/1:139:83,56:83:2925:56:1961:-134.918,0,-221.64 0/1:10:7,3:7:248:3:99:-6.22628,0,-19.6539 1/1:6:0,6:0:0:6:203:-18.6012,-1.80618,0 1/1:31:0,31:0:0:31:1059:-95.5762,-9.33193,0 1/1:180:0,179:0:0:179:6266:-563.681,-53.8844,0 1/1:169:0,169:0:0:169:5873:-528.689,-50.8741,0 1/1:117:1,116:1:36:116:4091:-364.78,-31.6222,0 1/1:74:2,72:2:72:72:2511:-219.402,-15.4395,0 0/1:85:50,35:50:1796:35:1235:-85.865,0,-136.335 0/1:103:58,45:58:2036:45:1524:-106.31,0,-152.504 0/1:60:28,32:28:981:32:1117:-82.7736,0,-70.5369 1/1:106:2,104:2:72:104:3637:-320.699,-25.0725,0 1/1:49:3,46:3:104:46:1595:-134.136,-5.04766,0 chr01 30888618 . T G 14435.8 PASS AB=0.547653;ABP=16.8762;AC=29;AF=0.690476;AN=42;AO=720;CIGAR=1X;DP=1038;DPB=1038;DPRA=0;EPP=1566.47;EPPR=693.539;GTI=0;LEN=1;MEANALT=1;MQM=59.4708;MQMR=59.9277;NS=21;NUMALT=1;ODDS=8.50811;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25787;QR=11282;RO=318;RPL=720;RPP=1566.47;RPPR=693.539;RPR=0;RUN=1;SAF=0;SAP=1566.47;SAR=720;SRF=0;SRP=693.539;SRR=318;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:24,37:24:864:37:1332:-101.82,0,-59.7197 0/1:25:10,15:10:360:15:536:-41.0409,0,-25.2186 0/1:94:49,45:49:1715:45:1608:-116.713,0,-126.332 0/1:48:13,35:13:468:35:1256:-98.691,0,-28.0102 0/1:89:50,39:50:1785:39:1400:-99.48,0,-134.138 0/1:32:13,19:13:453:19:680:-51.8752,0,-31.4667 0/1:52:27,25:27:968:25:900:-65.6455,0,-71.7838 0/1:73:22,51:22:792:51:1824:-142.433,0,-49.6305 0/1:122:64,58:64:2270:58:2084:-151.101,0,-167.833 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:22:0,22:0:0:22:792:-71.5915,-6.62266,0 1/1:86:0,86:0:0:86:3067:-276.229,-25.8886,0 1/1:103:0,103:0:0:103:3673:-330.297,-31.0061,0 1/1:40:0,40:0:0:40:1432:-129.168,-12.0412,0 0/1:29:11,18:11:377:18:648:-49.9187,0,-25.5281 0/1:46:19,27:19:669:27:959:-72.7728,0,-46.6866 0/1:23:10,13:10:345:13:468:-35.5083,0,-24.4433 1/1:43:0,43:0:0:43:1548:-139.599,-12.9443,0 1/1:24:0,24:0:0:24:864:-78.0662,-7.22472,0 chr01 31013870 . TTTTCTTTTTTAA TTTTTAAAA,TTTTTTTTTAA 10320 PASS AB=0.501645,0.402961;ABP=3.02459,52.7399;AC=29,13;AF=0.690476,0.309524;AN=42;AO=643,248;CIGAR=1M4D4M2X2M,3M2D8M;DP=949;DPB=702.923;DPRA=0,1.26394;EPP=1399.27,541.535;EPPR=0;GTI=0;LEN=9,2;MEANALT=2.90476,3.85714;MQM=24.5661,49.0766;MQMR=0;NS=21;NUMALT=2;ODDS=8.68793;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=15673,8847;QR=0;RO=0;RPL=0,0;RPP=1399.27,541.535;RPPR=0;RPR=643,248;RUN=1,1;SAF=0,0;SAP=1399.27,541.535;SAR=643,248;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:35:0,16,17:0:0:16,17:381,612:-74.7272,-49.419,-44.6025,-25.2422,0,-20.1247 1/2:24:0,11,10:0:0:11,10:275,345:-46.3307,-27.9231,-24.6118,-18.3611,0,-15.3508 1/2:35:0,16,17:0:0:16,17:381,602:-73.0787,-47.8785,-43.062,-25.1324,0,-20.0149 1/2:32:0,19,12:0:0:19,12:454,424:-63.8493,-33.9237,-28.2041,-29.8656,0,-26.2533 1/2:97:0,54,35:0:0:54,35:1284,1254:-186.033,-101.017,-84.7613,-84.9714,0,-74.4354 1/2:29:0,14,10:0:0:14,10:342,356:-51.9022,-28.9075,-24.6931,-22.9589,0,-19.9486 1/2:84:0,38,36:0:0:38,36:941,1295:-167.965,-104.743,-93.304,-63.1803,0,-52.3432 1/2:50:0,26,19:0:0:26,19:642,684:-98.3883,-55.255,-47.4282,-43.0879,0,-37.3683 1/2:79:0,30,40:0:0:30,40:772,1436:-169.412,-116.917,-107.887,-52.4527,0,-40.4115 1/2:10:0,6,4:0:0:6,4:146,138:-21.0057,-11.2015,-9.3953,-10.092,0,-8.88784 1/1:4:0,4,0:0:0:4,0:100,0:-8.13873,-1.20412,0,-8.13873,-1.20412,-8.13873 1/1:10:0,10,0:0:0:10,0:241,0:-19.341,-3.0103,0,-19.341,-3.0103,-19.341 1/1:41:0,41,0:0:0:41,0:986,0:-77.8741,-12.3422,0,-77.8741,-12.3422,-77.8741 1/1:46:0,46,0:0:0:46,0:1091,0:-86.4029,-13.8474,0,-86.4029,-13.8474,-86.4029 1/1:120:0,120,0:0:0:120,0:2862,0:-226.074,-36.1236,0,-226.074,-36.1236,-226.074 1/1:18:0,18,0:0:0:18,0:458,0:-36.9061,-5.41854,0,-36.9061,-5.41854,-36.9061 1/2:34:0,19,13:0:0:19,13:492,468:-71.2199,-37.8693,-32.1498,-33.3042,0,-29.3908 1/2:65:0,33,22:0:0:33,22:821,788:-118.021,-62.9113,-52.9773,-55.0759,0,-48.4533 1/2:34:0,23,10:0:0:23,10:549,352:-64.278,-27.9825,-21.0588,-36.2795,0,-33.2692 1/1:72:0,69,3:0:0:69,3:1707,93:-135.394,-20.7711,0,-127.984,-13.0571,-127.081 1/1:30:0,30,0:0:0:30,0:748,0:-59.5102,-9.0309,0,-59.5102,-9.0309,-59.5102 chr01 31013889 . TATGG TAGGG,CATGA 13308.5 PASS AB=0.507599,0.481763;ABP=3.34031,4.91116;AC=29,13;AF=0.690476,0.309524;AN=42;AO=694,320;CIGAR=2M1X2M,1X3M1X;DP=1021;DPB=1021;DPRA=0,1.28497;EPP=1407.58,581.599;EPPR=0;GTI=0;LEN=1,5;MEANALT=2,2.5;MQM=25.1873,49.3344;MQMR=0;NS=21;NUMALT=2;ODDS=6.28355;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17164,11345;QR=0;RO=0;RPL=682,306;RPP=1407.58,581.599;RPPR=0;RPR=12,14;RUN=1,1;SAF=0,0;SAP=1510.01,697.881;SAR=694,320;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,17,20:0:0:17,20:418,707:-85.5501,-57.432,-52.3145,-28.3968,0,-22.3762 1/2:25:0,12,13:0:0:12,13:311,468:-59.582,-38.2396,-34.6273,-21.6343,0,-17.7209 1/2:39:0,17,21:0:0:17,21:408,744:-85.6838,-58.7326,-53.6151,-26.8685,0,-20.5468 1/2:33:0,20,13:0:0:20,13:478,466:-69.2457,-37.7356,-31.715,-31.8063,0,-27.8929 1/2:102:0,57,45:0:0:57,45:1368,1580:-217.989,-127.503,-110.344,-90.773,0,-77.2266 1/2:30:0,14,16:0:0:14,16:350,562:-69.2589,-45.818,-41.6035,-23.7212,0,-18.9047 1/2:89:0,40,49:0:0:40,49:1013,1734:-208.857,-140.073,-128.032,-69.065,0,-54.3145 1/2:56:0,30,25:0:0:30,25:761,889:-121.842,-70.2889,-61.258,-51.4908,0,-43.9651 1/2:90:0,37,49:0:0:37,49:955,1723:-204.537,-140.206,-129.068,-64.3996,0,-49.6491 1/2:11:0,6,5:0:0:6,5:151,179:-24.549,-14.4555,-12.6493,-10.3835,0,-8.87832 1/1:4:0,4,0:0:0:4,0:100,0:-8.13873,-1.20412,0,-8.13873,-1.20412,-8.13873 1/1:10:0,10,0:0:0:10,0:256,0:-20.836,-3.0103,0,-20.836,-3.0103,-20.836 1/1:44:0,44,0:0:0:44,0:1056,0:-83.3636,-13.2453,0,-83.3636,-13.2453,-83.3636 1/1:49:0,49,0:0:0:49,0:1175,0:-92.7228,-14.7505,0,-92.7228,-14.7505,-92.7228 1/1:130:0,130,0:0:0:130,0:3138,0:-248.051,-39.1339,0,-248.051,-39.1339,-248.051 1/1:19:0,19,0:0:0:19,0:494,0:-39.5517,-5.71957,0,-39.5517,-5.71957,-39.5517 1/2:37:0,22,15:0:0:22,15:578,539:-83.6952,-44.0511,-37.4285,-39.9513,0,-35.4358 1/2:73:0,38,34:0:0:38,34:970,1216:-163.358,-97.2949,-85.8558,-66.0631,0,-55.8281 1/2:36:0,24,12:0:0:24,12:576,430:-72.1024,-34.0611,-26.8364,-38.3417,0,-34.7293 1/1:77:0,74,3:0:0:74,3:1858,108:-147.627,-22.2762,0,-138.895,-13.1922,-137.992 1/1:30:0,30,0:0:0:30,0:750,0:-59.6107,-9.0309,0,-59.6107,-9.0309,-59.6107 chr01 31014725 . A G 10762.3 PASS AB=0.532934;ABP=14.0237;AC=13;AF=0.309524;AN=42;AO=623;CIGAR=1X;DP=1657;DPB=1657;DPRA=1.47415;EPP=1338.52;EPPR=2237.46;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8925;MQMR=38.9468;NS=21;NUMALT=1;ODDS=3.12709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22276;QR=36973;RO=1033;RPL=621;RPP=1338.52;RPPR=2237.46;RPR=2;RUN=1;SAF=0;SAP=1355.84;SAR=623;SRF=0;SRP=2246.14;SRR=1033;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:33,43:33:1176:43:1535:-115.564,0,-77.6704 0/1:62:16,46:16:576:46:1631:-128.397,0,-31.5566 0/1:74:36,38:36:1292:38:1352:-99.7041,0,-88.5196 0/1:97:48,48:48:1720:48:1728:-126.522,0,-114.927 0/1:247:115,132:115:4097:132:4736:-352.029,0,-276.152 0/1:78:40,38:40:1432:38:1360:-99.2203,0,-99.8586 0/1:137:83,54:83:2980:54:1940:-133.635,0,-214.17 0/1:73:30,43:30:1076:43:1548:-117.638,0,-69.2433 0/1:161:75,86:75:2696:86:3064:-227.518,0,-179.704 0/1:13:8,5:8:288:5:180:-12.6387,0,-21.0789 0/0:15:15,0:15:536:0:0:0,-4.51545,-46.3286 0/0:27:27,0:27:959:0:0:0,-8.12781,-79.9644 0/0:84:84,0:84:3016:0:0:0,-25.2865,-250.934 0/0:90:90,0:90:3201:0:0:0,-27.0927,-269.844 0/0:126:126,0:126:4496:0:0:0,-37.9298,-383.204 0/0:30:30,0:30:1080:0:0:0,-9.0309,-90.8773 0/1:66:19,47:19:676:47:1662:-129.992,0,-36.216 0/1:48:21,27:21:756:27:972:-73.3485,0,-50.599 0/1:37:21,16:21:752:16:568:-40.3138,0,-53.5239 0/0:62:62,0:62:2228:0:0:0,-18.6639,-191.29 0/0:54:54,0:54:1940:0:0:0,-16.2556,-166.944 chr01 31026040 . T C 13169.3 PASS AB=0.524138;ABP=10.3484;AC=13;AF=0.309524;AN=42;AO=762;CIGAR=1X;DP=2047;DPB=2047;DPRA=1.39956;EPP=1623.11;EPPR=2739.31;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9882;MQMR=59.9431;NS=21;NUMALT=1;ODDS=3.76296;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27218;QR=46076;RO=1284;RPL=758;RPP=1623.11;RPPR=2739.31;RPR=4;RUN=1;SAF=0;SAP=1657.67;SAR=762;SRF=0;SRP=2791.18;SRR=1284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:51,46:51:1832:46:1652:-119.768,0,-135.961 0/1:105:51,54:51:1836:54:1931:-142.458,0,-133.868 0/1:109:41,68:41:1472:68:2409:-184.253,0,-99.9639 0/1:112:52,60:52:1856:60:2156:-160.592,0,-133.604 0/1:207:105,102:105:3760:102:3643:-265.761,0,-276.286 0/1:98:47,51:47:1692:51:1802:-132.96,0,-123.066 0/1:161:71,90:71:2548:90:3227:-242.185,0,-180.478 0/1:144:61,82:61:2184:82:2936:-221.214,0,-153.566 0/1:152:76,76:76:2727:76:2724:-199.646,0,-199.915 0/1:23:11,12:11:392:12:422:-31.3906,0,-28.6964 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/0:106:106,0:106:3804:0:0:0,-31.9092,-342.557 0/0:85:84,1:84:3012:1:36:0,-21.9893,-267.713 0/0:164:164,0:164:5873:0:0:0,-49.3689,-528.679 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/1:99:44,55:44:1584:55:1960:-146.874,0,-112.559 0/1:94:46,48:46:1656:48:1708:-125.709,0,-121.032 0/1:49:33,16:33:1188:16:576:-37.4245,0,-92.4781 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.403 0/0:57:56,1:56:2016:1:36:0,-13.5604,-178.115 chr01 31040762 . CGGCGGTG CGGCGGTGGCGGTG,CGGCGGTGGTGATG 14857.6 PASS AB=0.448276,0.490018;ABP=15.8145,3.48716;AC=29,13;AF=0.690476,0.309524;AN=42;AO=552,270;CIGAR=1M6I7M,6M6I2M;DP=863;DPB=1490.38;DPRA=0,1.08679;EPP=1201.66,589.308;EPPR=52.9542;GTI=0;LEN=6,6;MEANALT=2.38095,3;MQM=59.9837,59.9704;MQMR=60;NS=21;NUMALT=2;ODDS=4.78366;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18374,8863;QR=755;RO=23;RPL=552,270;RPP=1201.66,589.308;RPPR=52.9542;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1201.66,589.308;SAR=552,270;SRF=0;SRP=52.9542;SRR=23;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:40:1,16,23:1:34:16,23:522,765:-100.982,-59.1379,-57.0797,-39.3755,0,-35.2107 1/2:42:2,17,20:2:59:17,20:568,688:-96.574,-51.1933,-50.7791,-41.2952,0,-39.9782 1/2:42:2,27,13:2:71:27,13:901,395:-98.1414,-25.7912,-23.4554,-67.1257,0,-68.9989 1/2:63:3,27,29:3:81:27,29:902,981:-145.303,-73.1812,-71.4342,-66.6747,0,-64.3257 1/2:60:0,21,38:0:0:21,38:697,1274:-159.66,-103.273,-96.9509,-56.4752,0,-45.036 1/2:48:3,24,21:3:105:24,21:808,660:-109.056,-44.4787,-45.8015,-56.912,0,-59.1349 1/2:55:4,22,28:4:135:22,28:721,913:-119.812,-62.7699,-67.0908,-47.3011,0,-49.8159 1/2:49:1,18,28:1:34:18,28:616,908:-120.197,-70.4904,-67.8303,-47.245,0,-41.574 1/2:77:2,36,37:2:64:36,37:1197,1227:-190.34,-94.0867,-88.4057,-91.6926,0,-85.7105 1/2:4:0,1,3:0:0:1,3:32,74:-8.59951,-6.00283,-5.7018,-2.89828,0,-1.99519 1/1:4:0,4,0:0:0:4,0:136,0:-12.5755,-1.20412,0,-12.5755,-1.20412,-12.5755 1/1:33:0,33,0:0:0:33,0:1030,0:-92.9829,-9.93399,0,-92.9829,-9.93399,-92.9829 1/1:55:0,54,0:0:0:54,0:1798,0:-161.735,-16.2556,0,-161.735,-16.2556,-161.735 1/1:51:1,50,0:1:36:50,0:1655,0:-145.63,-11.7543,0,-145.931,-15.0515,-148.869 1/1:68:1,66,0:1:32:66,0:2236,0:-198.307,-17.2896,0,-198.608,-19.868,-201.186 1/1:22:0,22,0:0:0:22,0:743,0:-67.1841,-6.62266,0,-67.1841,-6.62266,-67.1841 1/2:11:0,2,7:0:0:2,7:72,214:-23.008,-17.1245,-16.5224,-5.88758,0,-3.78037 1/2:21:0,11,10:0:0:11,10:363,344:-57.623,-28.2818,-24.9704,-29.6785,0,-26.6682 1/2:39:1,25,13:1:35:25,13:811,420:-96.1426,-31.0003,-26.3242,-62.5692,0,-61.5045 1/1:39:1,38,0:1:35:38,0:1271,0:-111.186,-8.24154,0,-111.487,-11.4391,-114.335 1/1:40:1,38,0:1:34:38,0:1295,0:-113.459,-8.67117,0,-113.76,-11.4391,-116.518 chr01 31090393 . G T 23875.5 PASS AB=0.624269;ABP=94.7582;AC=30;AF=0.714286;AN=42;AO=1148;CIGAR=1X;DP=1407;DPB=1407;DPRA=0;EPP=2495.86;EPPR=565.422;GTI=0;LEN=1;MEANALT=1;MQM=59.9974;MQMR=59.9923;NS=21;NUMALT=1;ODDS=2.8846;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40738;QR=9276;RO=259;RPL=1148;RPP=2495.86;RPPR=565.422;RPR=0;RUN=1;SAF=0;SAP=2495.86;SAR=1148;SRF=0;SRP=565.422;SRR=259;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:32:12,20:12:428:20:716:-55.1348,0,-29.2258 0/1:34:19,15:19:680:15:539:-38.6112,0,-51.2941 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:46:26,20:26:928:20:720:-51.2814,0,-69.9909 0/1:50:28,22:28:1004:22:788:-56.1933,0,-75.6244 0/1:25:16,9:16:572:9:324:-21.9801,0,-44.2877 0/1:61:41,20:41:1472:20:716:-46.4049,0,-114.413 0/1:67:24,43:24:860:43:1529:-117.733,0,-57.552 0/1:37:19,18:19:680:18:644:-47.1509,0,-50.3911 1/1:39:1,38:1:36:38:1338:-117.118,-8.1419,0 1/1:154:1,153:1:32:153:5375:-480.681,-43.1593,0 1/1:277:0,277:0:0:277:9803:-882.216,-83.3853,0 1/1:44:0,44:0:0:44:1569:-141.5,-13.2453,0 1/1:27:0,27:0:0:27:949:-85.7228,-8.12781,0 1/1:70:0,70:0:0:70:2489:-224.262,-21.0721,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:21:6,15:6:216:15:540:-42.6149,0,-13.4689 0/1:211:31,180:31:1112:180:6407:-513.2,0,-36.874 0/1:87:28,59:28:1004:59:2058:-159.297,0,-64.4863 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 1/1:64:0,64:0:0:64:2298:-207.081,-19.2659,0 chr01 31392995 . G C 22976.3 PASS AB=0.52149;ABP=7.21014;AC=29;AF=0.690476;AN=42;AO=1141;CIGAR=1X;DP=1643;DPB=1643;DPRA=0;EPP=2480.66;EPPR=1093.09;GTI=0;LEN=1;MEANALT=1;MQM=58.3225;MQMR=59.9382;NS=21;NUMALT=1;ODDS=10.4129;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40722;QR=17910;RO=502;RPL=0;RPP=2480.66;RPPR=1093.09;RPR=1141;RUN=1;SAF=0;SAP=2480.66;SAR=1141;SRF=0;SRP=1093.09;SRR=502;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:68,78:68:2435:78:2770:-205.374,0,-175.454 0/1:81:40,41:40:1417:41:1472:-107.929,0,-103.442 0/1:31:12,19:12:413:19:684:-52.4791,0,-28.1643 0/1:70:26,44:26:932:44:1570:-120.422,0,-63.1268 0/1:189:97,92:97:3484:92:3281:-238.326,0,-256.875 0/1:50:20,30:20:720:30:1080:-82.3858,0,-50.0773 0/1:122:59,63:59:2083:63:2241:-165.151,0,-150.906 0/1:66:31,35:31:1112:35:1260:-93.8269,0,-80.5234 0/1:99:49,50:49:1739:50:1777:-130.289,0,-126.99 0/1:11:4,7:4:135:7:252:-19.7167,0,-9.17118 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:23:0,23:0:0:23:828:-74.8418,-6.92369,0 1/1:67:0,67:0:0:67:2397:-215.832,-20.169,0 1/1:100:0,100:0:0:100:3566:-320.927,-30.103,0 1/1:117:0,117:0:0:117:4172:-375.439,-35.2205,0 1/1:167:0,167:0:0:167:5980:-536.918,-50.272,0 0/1:72:36,36:36:1292:36:1266:-92.5348,0,-94.9096 0/1:49:29,20:29:1036:20:720:-50.3774,0,-78.8034 0/1:61:30,31:30:1076:31:1108:-81.5687,0,-78.7896 1/1:78:0,78:0:0:78:2785:-250.675,-23.4803,0 1/1:37:1,36:1:36:36:1261:-110.152,-7.53984,0 chr01 31400484 . G T 9015.08 PASS AB=0.475029;ABP=7.67354;AC=13;AF=0.309524;AN=42;AO=409;CIGAR=1X;DP=1266;DPB=1266;DPRA=1.30826;EPP=3.90756;EPPR=647.39;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9389;MQMR=60;NS=21;NUMALT=1;ODDS=4.6511;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14490;QR=30556;RO=856;RPL=198;RPP=3.90756;RPPR=647.39;RPR=211;RUN=1;SAF=409;SAP=891.143;SAR=0;SRF=856;SRP=1861.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:51,29:51:1820:29:1031:-69.0202,0,-139.999 0/1:59:36,23:36:1273:23:813:-55.692,0,-97.1102 0/1:79:46,33:46:1648:33:1166:-81.4642,0,-124.827 0/1:66:32,34:32:1144:34:1208:-89.1581,0,-83.4015 0/1:108:50,58:50:1781:58:2047:-151.988,0,-128.06 0/1:72:32,40:32:1131:40:1423:-106.693,0,-80.4236 0/1:106:56,50:56:2008:50:1765:-127.222,0,-149.084 0/1:59:35,24:35:1252:24:852:-59.2396,0,-95.2243 0/1:104:46,57:46:1648:57:2013:-150.077,0,-117.243 0/1:21:9,12:9:324:12:424:-32.1748,0,-23.1842 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4067 0/0:34:34,0:34:1207:0:0:0,-10.235,-108.935 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 0/0:83:83,0:83:2957:0:0:0,-24.9855,-266.362 0/0:109:109,0:109:3898:0:0:0,-32.8123,-351.013 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 0/1:64:32,32:32:1129:32:1148:-84.3639,0,-82.6504 0/1:29:14,15:14:496:15:532:-39.4832,0,-36.2444 0/1:14:12,2:12:432:2:68:-2.24329,0,-35.0068 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 chr01 31526624 . GGAA TGAA,TGAG 51041.9 PASS AB=0.497655,0.502345;ABP=3.10196,3.10196;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1855,964;CIGAR=1X3M,1X2M1X;DP=2823;DPB=2823;DPRA=0,1.30633;EPP=4013.74,2096.31;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.80952,2;MQM=41.531,29.4087;MQMR=0;NS=21;NUMALT=2;ODDS=1.84931;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66126,34299;QR=0;RO=0;RPL=2,0;RPP=4013.74,2096.31;RPPR=0;RPR=1853,964;RUN=1,1;SAF=1855,964;SAP=4031.09,2096.31;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:171:0,54,117:0:0:54,117:1899,4184:-418.019,-267.916,-251.66,-150.428,0,-115.207 1/2:113:0,52,61:0:0:52,61:1860,2163:-277.341,-131.154,-115.501,-146.499,0,-128.136 1/2:157:0,89,68:0:0:89,68:3196,2423:-408.339,-155.665,-128.873,-252.988,0,-232.518 1/2:111:0,60,51:0:0:60,51:2156,1824:-288.449,-117.82,-99.758,-170.946,0,-155.593 1/2:225:0,111,114:0:0:111,114:3964,4040:-572.179,-259.4,-225.986,-313.096,0,-278.778 1/2:120:0,70,50:0:0:70,50:2496,1797:-304.426,-108.537,-87.4651,-196.193,0,-181.141 1/2:232:0,118,114:0:0:118,114:4218,4036:-575.704,-244.53,-209.008,-331.482,0,-297.165 1/2:172:0,72,100:0:0:72,100:2557,3548:-414.036,-214.863,-193.189,-199.485,0,-169.382 1/2:274:0,130,144:0:0:130,144:4650,5108:-718.649,-347.323,-308.19,-371.653,0,-328.305 1/2:12:0,5,7:0:0:5,7:180,247:-29.3867,-15.3161,-13.811,-14.3855,0,-12.2783 1/1:8:0,8,0:0:0:8,0:284,0:-25.106,-2.40824,0,-25.106,-2.40824,-25.106 1/1:30:0,30,0:0:0:30,0:1080,0:-93.6404,-9.0309,0,-93.6404,-9.0309,-93.6404 1/1:156:0,156,0:0:0:156,0:5568,0:-487.515,-46.9607,0,-487.515,-46.9607,-487.515 1/1:112:0,112,0:0:0:112,0:4005,0:-350.548,-33.7154,0,-350.548,-33.7154,-350.548 1/1:313:0,310,0:0:0:310,0:11027,0:-961.933,-93.3193,0,-961.933,-93.3193,-961.933 1/1:129:0,128,0:0:0:128,0:4566,0:-403.476,-38.5318,0,-403.476,-38.5318,-403.476 1/2:96:0,61,35:0:0:61,35:2154,1253:-255.729,-84.0565,-65.6937,-171.989,0,-161.453 1/2:152:0,89,63:0:0:89,63:3157,2243:-381.283,-135.261,-108.47,-246.322,0,-227.357 1/2:84:0,44,40:0:0:44,40:1564,1433:-215.396,-92.1645,-78.9192,-123.547,0,-111.505 1/1:91:0,91,0:0:0:91,0:3211,0:-277.149,-27.3937,0,-277.149,-27.3937,-277.149 1/1:65:0,65,0:0:0:65,0:2334,0:-203.264,-19.567,0,-203.264,-19.567,-203.264 chr01 31526693 . T C 20139.8 PASS AB=0.49145;ABP=4.56994;AC=13;AF=0.309524;AN=42;AO=1214;CIGAR=1X;DP=3693;DPB=3693;DPRA=1.98643;EPP=2639.18;EPPR=5377.41;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9931;NS=21;NUMALT=1;ODDS=7.12435;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43173;QR=88382;RO=2479;RPL=0;RPP=2639.18;RPPR=5377.41;RPR=1214;RUN=1;SAF=0;SAP=2639.18;SAR=1214;SRF=0;SRP=5386.09;SRR=2479;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:210:119,91:119:4254:91:3219:-226.717,0,-319.822 0/1:173:96,77:96:3420:77:2759:-196.473,0,-255.937 0/1:229:113,116:113:4012:116:4151:-304.837,0,-292.337 0/1:272:132,140:132:4723:140:4952:-363.949,0,-343.349 0/1:316:151,165:151:5385:165:5873:-433.555,0,-389.587 0/1:176:74,102:74:2637:102:3641:-274.912,0,-184.594 0/1:195:111,84:111:3960:84:2969:-208.74,0,-297.892 0/1:234:96,138:96:3397:138:4892:-369.991,0,-235.503 0/1:342:189,153:189:6743:153:5447:-387.407,0,-503.994 0/1:9:5,4:5:176:4:144:-10.6043,0,-13.4757 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:37:37,0:37:1296:0:0:0,-11.1381,-116.938 0/0:145:144,1:144:5168:1:36:0,-40.0511,-461.661 0/0:267:267,0:267:9503:0:0:0,-80.375,-855.233 0/0:373:370,3:370:13212:3:108:0,-102.209,-1178.81 0/0:133:133,0:133:4706:0:0:0,-40.037,-423.7 0/1:167:85,82:85:3048:82:2917:-212.492,0,-224.277 0/1:69:35,34:35:1252:34:1216:-88.9755,0,-92.214 0/1:64:43,21:43:1536:21:741:-47.747,0,-119.267 0/0:217:214,3:214:7631:3:108:0,-55.2483,-676.755 0/0:55:55,0:55:1963:0:0:0,-16.5566,-176.945 chr01 31526738 . A C 49170 PASS AB=0.513413;ABP=6.79671;AC=29;AF=0.690476;AN=42;AO=2465;CIGAR=1X;DP=3652;DPB=3652;DPRA=0;EPP=5355.69;EPPR=2580.55;GTI=0;LEN=1;MEANALT=1;MQM=59.9923;MQMR=60;NS=21;NUMALT=1;ODDS=8.70809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87893;QR=42448;RO=1187;RPL=2465;RPP=5355.69;RPPR=2580.55;RPR=0;RUN=1;SAF=0;SAP=5355.69;SAR=2465;SRF=0;SRP=2580.55;SRR=1187;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:212:91,121:91:3245:121:4337:-326.687,0,-228.452 0/1:168:71,97:71:2552:97:3465:-261.488,0,-179.357 0/1:228:114,114:114:4088:114:4060:-296.954,0,-299.47 0/1:269:137,132:137:4904:132:4680:-340.381,0,-360.535 0/1:311:164,147:164:5865:147:5183:-372.99,0,-434.34 0/1:172:103,69:103:3677:69:2453:-169.246,0,-279.355 0/1:197:84,113:84:3016:113:4045:-304.933,0,-212.367 0/1:230:135,95:135:4795:95:3390:-236.077,0,-362.468 0/1:336:145,191:145:5174:191:6840:-514.524,0,-364.652 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:35:0,35:0:0:35:1252:-112.985,-10.5361,0 1/1:148:1,147:1:36:147:5234:-467.599,-40.9542,0 1/1:272:0,272:0:0:272:9686:-871.69,-81.8802,0 1/1:363:3,360:3:108:360:12854:-1146.6,-99.1987,0 1/1:128:0,128:0:0:128:4546:-409.307,-38.5318,0 0/1:164:80,84:80:2868:84:2999:-220.773,0,-208.988 0/1:68:34,34:34:1220:34:1212:-88.9163,0,-89.6368 0/1:59:17,42:17:612:42:1508:-118.254,0,-37.6527 1/1:221:4,217:4:144:217:7745:-683.769,-53.214,0 1/1:52:0,52:0:0:52:1864:-168.039,-15.6536,0 chr01 31751764 . G A 14856.1 PASS AB=0.622345;ABP=143.815;AC=14;AF=0.333333;AN=42;AO=810;CIGAR=1X;DP=1660;DPB=1660;DPRA=1.7252;EPP=1761.9;EPPR=1842.25;GTI=2;LEN=1;MEANALT=1.14286;MQM=50.321;MQMR=59.9776;NS=21;NUMALT=1;ODDS=6.97092;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29011;QR=30257;RO=847;RPL=0;RPP=1761.9;RPPR=1842.25;RPR=810;RUN=1;SAF=810;SAP=1761.9;SAR=0;SRF=847;SRP=1842.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:43,39:43:1544:39:1396:-100.703,0,-114.569 0/1:57:25,32:25:888:32:1144:-85.5001,0,-63.0803 0/1:23:12,11:12:432:11:396:-28.9345,0,-32.2975 0/1:97:36,61:36:1288:61:2192:-166.446,0,-87.0237 0/1:153:60,93:60:2148:93:3321:-251.309,0,-147.53 0/1:52:25,27:25:900:27:957:-70.3767,0,-65.6675 0/1:47:21,26:21:756:26:932:-69.8237,0,-54.2188 0/1:62:21,41:21:748:41:1476:-114.046,0,-48.9814 0/1:115:40,75:40:1432:75:2688:-206.025,0,-94.5591 1/1:134:0,134:0:0:134:4793:-429.24,-40.338,0 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:76:76,0:76:2709:0:0:0,-22.8783,-244.053 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/0:90:90,0:90:3212:0:0:0,-27.0927,-289.304 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/1:22:9,12:9:316:12:428:-31.9825,0,-22.0927 0/1:283:43,240:43:1548:240:8604:-684.889,0,-54.4216 0/1:90:72,17:72:2560:17:612:-27.9545,0,-203.647 0/0:92:91,0:91:3252:0:0:0,-27.3937,-292.537 0/0:70:68,2:68:2392:2:72:0,-14.2354,-208.7 chr01 31751803 . 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T C 9192.86 PASS AB=0.522972;ABP=7.69924;AC=13;AF=0.309524;AN=42;AO=535;CIGAR=1X;DP=1527;DPB=1527;DPRA=1.24908;EPP=1164.75;EPPR=2152.77;GTI=0;LEN=1;MEANALT=1.15385;MQM=60;MQMR=59.9919;NS=21;NUMALT=1;ODDS=1.20819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19106;QR=35344;RO=990;RPL=2;RPP=1147.44;RPPR=2118.16;RPR=533;RUN=1;SAF=2;SAP=1147.44;SAR=533;SRF=4;SRP=2118.16;SRR=986;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:26,51:26:936:51:1832:-141.981,0,-61.3802 0/1:69:38,31:38:1356:31:1116:-79.9806,0,-101.569 0/1:76:31,45:31:1116:45:1603:-121.681,0,-77.8734 0/1:69:36,33:36:1288:33:1180:-85.737,0,-95.4525 0/1:132:60,72:60:2156:72:2588:-193.432,0,-154.571 0/1:53:28,25:28:1008:25:900:-65.3664,0,-75.0818 0/1:151:67,82:67:2393:82:2931:-218.811,0,-170.412 0/1:72:35,37:35:1252:37:1320:-97.4278,0,-91.3109 0/1:177:97,80:97:3476:80:2838:-202.375,0,-259.761 0/1:5:2,3:2:72:3:89:-6.79921,0,-5.33157 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:98:98,0:98:3480:0:0:0,-29.5009,-313.411 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/0:70:70,0:70:2493:0:0:0,-21.0721,-224.622 0/0:84:84,0:84:2986:0:0:0,-25.2865,-268.97 0/1:69:28,41:28:996:41:1457:-110.653,0,-69.1838 0/1:37:14,23:14:496:23:828:-63.706,0,-33.8362 0/1:36:24,12:24:847:12:424:-27.6593,0,-65.7116 0/0:107:107,0:107:3821:0:0:0,-32.2102,-344.086 0/0:35:35,0:35:1228:0:0:0,-10.536,-110.821 chr01 32445201 . TCAG TCAA,ACAA 26160.5 PASS AB=0.43708,0.552354;ABP=38.8073,27.7935;AC=29,13;AF=0.690476,0.309524;AN=42;AO=762,575;CIGAR=3M1X,1X2M1X;DP=1349;DPB=1349;DPRA=0,2.07992;EPP=1657.67,1191.55;EPPR=7.35324;GTI=1;LEN=1,4;MEANALT=2.09524,2.69231;MQM=60,59.9896;MQMR=60;NS=21;NUMALT=2;ODDS=0.481525;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26633,19355;QR=72;RO=2;RPL=762,568;RPP=1657.67,1191.55;RPPR=7.35324;RPR=0,7;RUN=1,1;SAF=762,575;SAP=1657.67,1251.61;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:110:0,48,61:0:0:48,61:1638,2016:-295.951,-163.034,-148.584,-132.943,0,-114.58 1/2:50:0,19,31:0:0:19,31:684,1044:-140.75,-84.9301,-79.2105,-56.1708,0,-46.8388 1/2:72:0,26,45:0:0:26,45:928,1546:-201.181,-125.521,-117.695,-75.6518,0,-62.1054 1/2:64:0,31,33:0:0:31,33:1108,1129:-182.327,-91.9779,-82.646,-90.6991,0,-80.7651 1/2:190:1,80,109:1:36:80,109:2825,3694:-526.321,-296.562,-275.417,-227.11,0,-197.235 1/2:39:0,20,18:0:0:20,18:685,620:-106.006,-50.401,-44.3804,-55.6449,0,-50.2264 1/2:111:1,43,65:1:36:43,65:1487,2195:-295.537,-175.006,-165,-117.933,0,-101.304 1/2:119:0,64,52:0:0:64,52:2130,1642:-304.501,-132.128,-112.862,-172.426,0,-156.773 1/2:127:0,54,73:0:0:54,73:1916,2430:-353.096,-196.98,-180.724,-156.462,0,-134.487 1/2:8:0,3,5:0:0:3,5:108,167:-22.6754,-13.8534,-12.9503,-9.17208,0,-7.66693 1/1:4:0,4,0:0:0:4,0:140,0:-12.9446,-1.20412,0,-12.9446,-1.20412,-12.9446 1/1:14:0,14,0:0:0:14,0:500,0:-45.3362,-4.21442,0,-45.3362,-4.21442,-45.3362 1/1:46:0,46,0:0:0:46,0:1598,0:-144.106,-13.8474,0,-144.106,-13.8474,-144.106 1/1:42:0,41,0:0:0:41,0:1445,0:-129.984,-12.3422,0,-129.984,-12.3422,-129.984 1/1:92:0,92,0:0:0:92,0:3203,0:-288.495,-27.6948,0,-288.495,-27.6948,-288.495 1/1:22:0,22,0:0:0:22,0:788,0:-71.2448,-6.62266,0,-71.2448,-6.62266,-71.2448 1/2:49:0,24,25:0:0:24,25:860,868:-141.054,-70.9096,-63.6849,-70.4971,0,-62.9714 1/2:77:0,29,47:0:0:29,47:1027,1623:-215.528,-131.866,-123.137,-83.6719,0,-69.5235 1/2:25:0,14,11:0:0:14,11:470,381:-69.3732,-31.3114,-27.097,-38.4034,0,-35.092 1/1:65:0,65,0:0:0:65,0:2269,0:-204.471,-19.567,0,-204.471,-19.567,-204.471 1/1:23:0,23,0:0:0:23,0:824,0:-74.4833,-6.92369,0,-74.4833,-6.92369,-74.4833 chr01 32445429 . A C 32657.3 PASS AB=0.537089;ABP=24.4332;AC=29;AF=0.690476;AN=42;AO=1645;CIGAR=1X;DP=2480;DPB=2480;DPRA=0;EPP=3445.98;EPPR=1764.45;GTI=0;LEN=1;MEANALT=1;MQM=59.9933;MQMR=59.988;NS=21;NUMALT=1;ODDS=3.0243;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58326;QR=29667;RO=835;RPL=15;RPP=3445.98;RPPR=1764.45;RPR=1630;RUN=1;SAF=0;SAP=3575.08;SAR=1645;SRF=0;SRP=1816.19;SRR=835;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:75,81:75:2670:81:2852:-209.958,0,-193.584 0/1:122:51,71:51:1811:71:2536:-191.766,0,-126.531 0/1:73:35,38:35:1252:38:1342:-99.1034,0,-91.0099 0/1:93:38,55:38:1340:55:1946:-147.419,0,-92.9015 0/1:325:154,171:154:5436:171:6077:-449.198,0,-391.538 0/1:286:129,157:129:4590:157:5592:-417.31,0,-327.172 0/1:198:96,102:96:3412:102:3591:-263.796,0,-247.69 0/1:92:34,58:34:1189:58:2050:-157.058,0,-79.6179 0/1:219:103,116:103:3684:116:4140:-306.859,0,-265.838 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:120:0,120:0:0:120:4284:-385.739,-36.1236,0 1/1:86:0,86:0:0:86:3064:-275.99,-25.8886,0 1/1:179:0,179:0:0:179:6317:-568.628,-53.8844,0 1/1:103:1,102:1:36:102:3620:-322.407,-27.4078,0 0/1:99:47,52:47:1671:52:1828:-134.996,0,-120.875 0/1:53:33,20:33:1172:20:716:-48.8131,0,-89.8329 0/1:66:26,40:26:936:40:1402:-106.608,0,-64.6915 1/1:146:1,145:1:36:145:5149:-459.956,-40.3521,0 1/1:40:3,37:3:108:37:1284:-105.782,-1.96603,0 chr01 32455106 . TGGG GGGG,GGGT 12544.7 PASS AB=0.483627,0.513854;ABP=3.93468,3.67213;AC=28,14;AF=0.666667,0.333333;AN=42;AO=412,209;CIGAR=1X3M,1X2M1X;DP=624;DPB=757.5;DPRA=7.75,1.09184;EPP=897.657,456.848;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=1.75,2;MQM=60,59.9904;MQMR=60;NS=21;NUMALT=2;ODDS=3.96015;PAIRED=0,0;PAIREDR=0;PAO=265.5,265.5;PQA=7723.5,7723.5;PQR=36;PRO=1;QA=14664,7349;QR=30;RO=1;RPL=412,209;RPP=897.657,456.848;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=897.657,456.848;SAR=412,209;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:28:0,10,18:0:0:10,18:360,626:-78.6965,-49.3479,-46.3376,-27.8969,0,-22.4784 1/2:22:0,12,10:0:0:12,10:428,354:-64.081,-29.1896,-25.5772,-35.2464,0,-32.2361 1/2:16:0,7,9:0:0:7,9:252,311:-45.1103,-24.5976,-22.4904,-19.9417,0,-17.2325 1/2:15:0,5,10:0:0:5,10:180,347:-40.268,-25.683,-24.1778,-12.4952,0,-9.48489 1/2:46:0,23,23:0:0:23,23:820,812:-130.142,-63.3683,-56.4446,-64.0903,0,-57.1666 1/2:35:0,17,18:0:0:17,18:608,643:-102.358,-52.7813,-47.6637,-49.9345,0,-44.516 1/2:25:0,10,15:0:0:10,15:360,536:-73.4349,-44.0596,-41.0493,-29.734,0,-25.2186 1/2:23:0,10,13:0:0:10,13:351,457:-66.0579,-37.4946,-34.4843,-28.8622,0,-24.9488 1/2:35:0,18,17:0:0:18,17:644,601:-98.5548,-46.1399,-40.7213,-49.6987,0,-44.5812 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:20:0,20,0:0:0:20,0:713,0:-62.6674,-6.0206,0,-62.6674,-6.0206,-62.6674 1/1:36:0,36,0:0:0:36,0:1287,0:-113.734,-10.8371,0,-113.734,-10.8371,-113.734 1/1:37:0,37,0:0:0:37,0:1318,0:-115.057,-11.1381,0,-115.057,-11.1381,-115.057 1/1:27:0,26,1:0:0:26,1:928,36:-81.8045,-7.82678,0,-78.8694,-4.52954,-78.5684 1/2:9:0,2,7:0:0:2,7:72,244:-25.3238,-19.4731,-18.8711,-5.81513,0,-3.70792 1/2:93:0,42,50:0:0:42,50:1465,1754:-261.879,-142.731,-130.087,-119.139,0,-104.087 1/2:50:0,36,14:0:0:36,14:1279,484:-141.188,-37.103,-26.2659,-101.884,0,-97.6696 1/1:42:0,42,0:0:0:42,0:1483,0:-133.764,-12.6433,0,-133.764,-12.6433,-133.764 1/1:44:1,42,0:1:30:42,0:1504,0:-132.701,-10.1947,0,-133.002,-12.6433,-135.4 chr01 32455505 . T C 14361.8 PASS AB=0.49256;ABP=3.33344;AC=29;AF=0.690476;AN=42;AO=720;CIGAR=1X;DP=1066;DPB=1066;DPRA=0;EPP=1566.47;EPPR=754.34;GTI=0;LEN=1;MEANALT=1;MQM=59.9833;MQMR=60;NS=21;NUMALT=1;ODDS=2.21759;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25738;QR=12379;RO=346;RPL=0;RPP=1566.47;RPPR=754.34;RPR=720;RUN=1;SAF=720;SAP=1566.47;SAR=0;SRF=346;SRP=754.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:14,23:14:504:23:824:-63.3452,0,-34.56 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:66:45,21:45:1608:21:735:-46.6034,0,-125.142 0/1:47:27,20:27:963:20:720:-50.9804,0,-72.8375 0/1:70:32,38:32:1144:38:1368:-102.349,0,-82.1974 0/1:29:17,12:17:608:12:428:-30.1289,0,-46.3222 0/1:67:37,30:37:1320:30:1076:-76.9838,0,-98.9329 0/1:101:53,48:53:1908:48:1718:-124.5,0,-141.594 0/1:105:47,58:47:1677:58:2054:-153.522,0,-119.607 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 1/1:96:1,95:1:36:95:3410:-303.515,-25.3006,0 1/1:41:0,41:0:0:41:1456:-131.334,-12.3422,0 1/1:75:1,74:1:36:74:2625:-232.898,-18.979,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/1:73:32,41:32:1148:41:1476:-111.161,0,-81.6546 0/1:51:24,27:24:851:27:964:-71.7243,0,-61.5569 1/1:92:2,90:2:72:90:3224:-283.545,-20.858,0 1/1:37:1,36:1:36:36:1292:-112.985,-7.53984,0 chr01 32542741 . A G 41964 PASS AB=0.447959;ABP=43.9186;AC=28;AF=0.666667;AN=42;AO=1682;CIGAR=1X;DP=2831;DPB=2831;DPRA=0.719293;EPP=3646.75;EPPR=2469.83;GTI=1;LEN=1;MEANALT=1.25;MQM=59.9685;MQMR=59.9712;NS=21;NUMALT=1;ODDS=9.33685;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58753;QR=40658;RO=1144;RPL=715;RPP=84.9944;RPPR=26.8206;RPR=967;RUN=1;SAF=716;SAP=83.6982;SAR=966;SRF=516;SRP=26.8206;SRR=628;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:164:97,66:97:3446:66:2280:-156.171,0,-261.064 0/1:32:21,11:21:727:11:373:-24.2623,0,-56.1165 0/1:122:68,53:68:2432:53:1863:-131.162,0,-182.341 0/1:221:129,92:129:4584:92:3261:-227.184,0,-346.198 0/1:258:160,97:160:5689:97:3432:-231.37,0,-434.399 0/1:90:46,44:46:1639:44:1538:-111.613,0,-120.705 0/1:247:140,107:140:4979:107:3748:-263.149,0,-373.904 0/0:184:184,0:184:6538:0:0:0,-55.3895,-588.505 0/1:224:128,96:128:4532:96:3338:-233.2,0,-340.602 0/1:26:15,10:15:540:10:356:-24.496,0,-41.051 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:85:0,85:0:0:85:2947:-265.463,-25.5876,0 1/1:146:1,145:1:36:145:5071:-452.94,-40.3521,0 1/1:153:0,153:0:0:153:5350:-481.64,-46.0576,0 1/1:203:0,203:0:0:203:7127:-641.494,-61.1091,0 1/1:58:1,57:1:36:57:2005:-177.121,-13.8615,0 0/1:60:26,34:26:919:34:1193:-89.6114,0,-64.9644 0/1:152:70,82:70:2486:82:2859:-211.793,0,-178.236 0/1:143:56,87:56:2003:87:3003:-227.454,0,-137.496 1/1:154:1,152:1:36:152:5257:-469.748,-42.7442,0 1/1:102:1,101:1:36:101:3500:-311.615,-27.1068,0 chr01 32546864 . CGATG CAATA,GGATA 25987.3 PASS AB=0.520809,0.470868;ABP=6.17327,9.20971;AC=29,13;AF=0.690476,0.309524;AN=42;AO=881,437;CIGAR=1M1X2M1X,1X3M1X;DP=1329;DPB=1329;DPRA=1.61125,1.52557;EPP=1916.08,951.944;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.1,2.53846;MQM=59.622,59.5492;MQMR=0;NS=21;NUMALT=2;ODDS=4.49884;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30274,14879;QR=0;RO=0;RPL=0,0;RPP=1916.08,951.944;RPPR=0;RPR=881,437;RUN=1,1;SAF=0,0;SAP=1916.08,951.944;SAR=881,437;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:94:0,46,47:0:0:46,47:1569,1649:-261.525,-134.235,-120.388,-127.324,0,-113.176 1/2:48:0,27,20:0:0:27,20:916,690:-130.376,-56.0973,-47.9695,-74.3184,0,-68.2978 1/2:53:0,28,25:0:0:28,25:976,850:-148.642,-69.2677,-60.8389,-79.7183,0,-72.1925 1/2:78:0,52,26:0:0:52,26:1774,875:-215.165,-71.2224,-55.5689,-144.28,0,-136.453 1/2:207:0,85,120:0:0:85,120:2891,4081:-565.352,-330.884,-305.296,-234.507,0,-198.384 1/2:33:0,18,15:0:0:18,15:631,519:-93.8607,-42.5113,-37.0927,-51.6973,0,-47.1818 1/2:87:0,39,46:0:0:39,46:1348,1541:-234.011,-124.846,-113.106,-109.226,0,-95.3789 2/2:40:0,0,40:0:0:0,40:0,1356:-122.331,-122.331,-122.331,-12.0412,-12.0412,0 1/2:99:0,62,37:0:0:62,37:2151,1271:-278.394,-103.544,-84.8804,-175.194,0,-164.056 1/1:4:0,4,0:0:0:4,0:141,0:-13.037,-1.20412,0,-13.037,-1.20412,-13.037 1/1:4:0,4,0:0:0:4,0:142,0:-13.1293,-1.20412,0,-13.1293,-1.20412,-13.1293 1/1:17:0,17,0:0:0:17,0:572,0:-51.7212,-5.11751,0,-51.7212,-5.11751,-51.7212 1/1:48:0,48,0:0:0:48,0:1646,0:-148.425,-14.4494,0,-148.425,-14.4494,-148.425 1/1:63:0,63,0:0:0:63,0:2149,0:-193.659,-18.9649,0,-193.659,-18.9649,-193.659 1/1:135:0,133,0:0:0:133,0:4611,0:-414.717,-40.037,0,-414.717,-40.037,-414.717 1/1:71:0,70,0:0:0:70,0:2411,0:-216.984,-21.0721,0,-216.984,-21.0721,-216.984 1/2:54:0,32,21:0:0:32,21:1094,697:-145.261,-56.4636,-46.8306,-88.8785,0,-82.5569 1/2:48:0,22,26:0:0:22,26:776,868:-133.789,-70.5965,-63.9738,-63.5368,0,-55.71 1/2:40:0,27,13:0:0:27,13:934,446:-112.452,-36.5536,-28.4258,-76.2425,0,-72.3291 1/1:66:0,64,1:0:0:64,1:2189,36:-196.771,-19.2659,0,-193.833,-16.2736,-193.532 1/1:40:0,40,0:0:0:40,0:1353,0:-122.063,-12.0412,0,-122.063,-12.0412,-122.063 chr01 32759389 . A G 17377 PASS AB=0.480041;ABP=6.39086;AC=28;AF=0.666667;AN=42;AO=892;CIGAR=1X;DP=1472;DPB=1472;DPRA=1.00143;EPP=1939.96;EPPR=1249.45;GTI=0;LEN=1;MEANALT=1.1;MQM=59.5919;MQMR=59.974;NS=21;NUMALT=1;ODDS=2.92414;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31852;QR=20757;RO=578;RPL=0;RPP=1939.96;RPPR=1249.45;RPR=892;RUN=1;SAF=892;SAP=1939.96;SAR=0;SRF=578;SRP=1258.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:64,44:64:2300:44:1584:-110.318,0,-174.721 0/1:59:30,29:30:1076:29:1040:-76.1536,0,-79.3921 0/1:69:33,36:33:1173:36:1280:-94.7322,0,-85.1045 0/1:48:25,22:25:896:22:792:-57.0974,0,-66.4522 0/1:143:67,76:67:2408:76:2705:-200.607,0,-173.929 0/1:51:30,21:30:1080:21:752:-52.6491,0,-82.1607 0/1:100:42,57:42:1512:57:2033:-153.079,0,-106.213 0/0:70:70,0:70:2520:0:0:0,-21.0721,-227.051 0/1:145:98,47:98:3520:47:1681:-107.922,0,-273.358 0/1:16:9,7:9:320:7:252:-18.2062,0,-24.3259 1/1:10:0,10:0:0:10:360:-32.7397,-3.0103,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 1/1:58:0,58:0:0:58:2080:-187.44,-17.4597,0 1/1:81:0,81:0:0:81:2876:-259.035,-24.3834,0 1/1:100:1,99:1:36:99:3515:-312.912,-26.5047,0 1/1:54:0,54:0:0:54:1932:-174.13,-16.2556,0 0/1:70:34,36:34:1224:36:1281:-94.5012,0,-89.3949 0/1:106:54,52:54:1940:52:1864:-136.124,0,-142.967 0/1:62:20,42:20:716:42:1508:-117.342,0,-46.1039 1/1:64:1,63:1:36:63:2229:-197.128,-15.6676,0 1/1:33:0,33:0:0:33:1188:-107.215,-9.93399,0 chr01 32759412 . C T 9957.18 PASS AB=0.516096;ABP=5.17726;AC=14;AF=0.333333;AN=42;AO=568;CIGAR=1X;DP=1458;DPB=1458;DPRA=1.81749;EPP=1236.41;EPPR=1933.45;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9771;MQMR=59.6299;NS=21;NUMALT=1;ODDS=3.50496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20313;QR=31742;RO=889;RPL=568;RPP=1236.41;RPPR=1933.45;RPR=0;RUN=1;SAF=568;SAP=1236.41;SAR=0;SRF=889;SRP=1933.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:42,62:42:1491:62:2228:-169.448,0,-103.163 0/1:59:29,30:29:1036:30:1076:-79.3921,0,-75.7931 0/1:66:34,32:34:1203:32:1143:-83.3107,0,-88.7052 0/1:46:23,23:23:824:23:828:-60.9967,0,-60.6359 0/1:140:72,68:72:2575:68:2427:-176.541,0,-189.847 0/1:52:22,30:22:792:30:1067:-80.6877,0,-55.9475 0/1:101:58,43:58:2088:43:1499:-104.793,0,-157.781 1/1:69:0,69:0:0:69:2480:-223.453,-20.7711,0 0/1:143:47,96:47:1666:96:3441:-266.854,0,-107.17 0/1:16:8,8:8:284:8:288:-21.4509,0,-21.0806 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3766 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:58:58,0:58:2071:0:0:0,-17.4597,-186.63 0/0:82:82,0:82:2916:0:0:0,-24.6845,-262.624 0/0:100:99,1:99:3525:1:36:0,-26.5047,-313.467 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.49 0/1:70:35,34:35:1248:34:1220:-88.9768,0,-91.4925 0/1:103:52,51:52:1860:51:1828:-133.795,0,-136.667 0/1:63:43,20:43:1544:20:716:-45.8028,0,-120.279 0/0:63:62,1:62:2211:1:36:0,-15.3666,-195.531 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.091 chr01 32759421 . CAAAAAAGAGAC CAAAAAGAGAG,CAAAAAAGAGAG 26411.4 PASS AB=0.456432,0.538036;ABP=14.9309,12.0956;AC=31,11;AF=0.738095,0.261905;AN=42;AO=825,458;CIGAR=1M1D9M1X,11M1X;DP=1289;DPB=1222;DPRA=0.926515,2.06032;EPP=1794.48,997.545;EPPR=0;GTI=1;LEN=11,1;MEANALT=1.85,2.25;MQM=59.6291,59.9978;MQMR=0;NS=21;NUMALT=2;ODDS=3.42878;PAIRED=0,0;PAIREDR=0;PAO=4,4;PQA=117.667,117.667;PQR=117.667;PRO=4;QA=28656,16364;QR=0;RO=0;RPL=825,458;RPP=1794.48,997.545;RPPR=0;RPR=0,0;RUN=1,1;SAF=825,458;SAP=1794.48,997.545;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:102:0,41,61:0:0:41,61:1439,2196:-296.637,-179.542,-167.2,-117.449,0,-99.0863 1/1:28:0,28,0:0:0:28,0:947,0:-85.4846,-8.42884,0,-85.4846,-8.42884,-85.4846 1/2:64:0,32,32:0:0:32,32:1094,1120:-180.202,-91.4208,-81.7878,-89.0767,0,-79.4437 1/2:45:0,21,24:0:0:21,24:756,856:-131.824,-70.1364,-63.8148,-62.0456,0,-54.8209 1/2:132:0,69,63:0:0:69,63:2349,2237:-373.042,-182.575,-161.804,-190.762,0,-171.798 1/1:15:0,15,0:0:0:15,0:521,0:-47.1131,-4.51545,0,-47.1131,-4.51545,-47.1131 1/1:54:0,54,0:0:0:54,0:1887,0:-169.948,-16.2556,0,-169.948,-16.2556,-169.948 2/2:66:0,0,66:0:0:0,66:0,2368:-213.378,-213.378,-213.378,-19.868,-19.868,0 1/2:139:0,45,94:0:0:45,94:1595,3364:-404.614,-274.68,-261.133,-130.29,0,-101.993 1/2:14:0,7,7:0:0:7,7:248,248:-40.7573,-20.557,-18.4498,-20.5545,0,-18.4473 1/1:9:0,9,0:0:0:9,0:315,0:-28.6872,-2.70927,0,-28.6872,-2.70927,-28.6872 1/1:25:0,25,0:0:0:25,0:866,0:-78.2539,-7.52575,0,-78.2539,-7.52575,-78.2539 1/1:56:0,55,0:0:0:55,0:1924,0:-172.999,-16.5567,0,-172.999,-16.5567,-172.999 1/1:74:0,74,0:0:0:74,0:2607,0:-234.819,-22.2762,0,-234.819,-22.2762,-234.819 1/1:96:0,95,1:0:0:95,1:3281,36:-295.057,-28.5979,0,-292.12,-25.3006,-291.819 1/1:53:0,53,0:0:0:53,0:1839,0:-165.76,-15.9546,0,-165.76,-15.9546,-165.76 1/2:67:0,31,34:0:0:31,34:1087,1211:-187.147,-98.7014,-89.3695,-88.4395,0,-78.2045 1/2:101:0,47,53:0:0:47,53:1636,1900:-288.021,-155.003,-140.854,-133.05,0,-117.096 1/2:59:0,37,21:0:0:37,21:1277,756:-165.492,-61.762,-50.6239,-103.8,0,-97.4788 1/1:60:0,58,2:0:0:58,2:1994,72:-179.26,-17.4597,0,-173.385,-11.2255,-172.783 1/1:30:0,29,0:0:0:29,0:994,0:-89.3057,-8.72987,0,-89.3057,-8.72987,-89.3057 chr01 32759529 . TG CG,CA 56009 PASS AB=0.522174,0.472205;ABP=9.84752,13.7537;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1730,934;CIGAR=1X1M,2X;DP=2674;DPB=2674.5;DPRA=0.705367,1.22962;EPP=3759.66,2031.17;EPPR=11.6962;GTI=0;LEN=1,2;MEANALT=1.95,2.35714;MQM=59.6769,47.1692;MQMR=60;NS=21;NUMALT=2;ODDS=5.99718;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,32;PQR=0;PRO=0;QA=61806,33278;QR=144;RO=4;RPL=0,0;RPP=3759.66,2031.17;RPPR=11.6962;RPR=1730,934;RUN=1,1;SAF=1730,934;SAP=3759.66,2031.17;SAR=0,0;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,73,92:0:0:73,92:2603,3308:-479.407,-267.366,-245.391,-212.398,0,-184.703 1/2:132:0,75,56:0:0:75,56:2676,1999:-379.72,-161.57,-138.993,-218.152,0,-201.294 1/2:114:0,61,53:0:0:61,53:2172,1887:-329.311,-152.281,-133.918,-177.384,0,-161.429 1/2:136:0,85,50:0:0:85,50:3056,1796:-393.604,-144.292,-118.705,-249.308,0,-234.257 1/2:210:0,107,103:0:0:107,103:3828,3662:-605.538,-293.396,-261.186,-312.496,0,-281.49 1/2:86:0,28,58:0:0:28,58:996,2048:-246.016,-164.874,-156.445,-81.4958,0,-64.0361 1/2:203:4,102,97:4:144:102,97:3627,3467:-563.182,-268.816,-249.861,-283.815,0,-266.365 2/2:177:0,0,177:0:0:0,177:0,6294:-560.123,-560.123,-560.123,-53.2823,-53.2823,0 1/2:138:0,67,71:0:0:67,71:2408,2503:-397.524,-201.185,-181.016,-196.693,0,-175.32 1/2:8:0,3,5:0:0:3,5:108,180:-23.7458,-14.9326,-14.0296,-9.17208,0,-7.66693 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/1:38:0,38,0:0:0:38,0:1360,0:-122.681,-11.4391,0,-122.681,-11.4391,-122.681 1/1:112:0,112,0:0:0:112,0:4012,0:-361.242,-33.7154,0,-361.242,-33.7154,-361.242 1/1:133:0,133,0:0:0:133,0:4728,0:-425.596,-40.037,0,-425.596,-40.037,-425.596 1/1:257:0,257,0:0:0:257,0:9208,0:-828.512,-77.3647,0,-828.512,-77.3647,-828.512 1/1:151:0,151,0:0:0:151,0:5398,0:-485.943,-45.4555,0,-485.943,-45.4555,-485.943 1/2:126:0,66,59:0:0:66,59:2364,2113:-362.369,-169.586,-149.718,-192.862,0,-175.101 1/2:185:0,97,88:0:0:97,88:3458,3121:-532.676,-250.803,-221.603,-282.226,0,-255.735 1/2:98:0,72,24:0:0:72,24:2565,864:-278.503,-69.5309,-47.8567,-209.018,0,-201.793 1/1:123:0,121,1:0:0:121,1:4315,36:-387.998,-36.4246,0,-385.078,-33.5057,-384.777 1/1:76:0,76,0:0:0:76,0:2712,0:-244.322,-22.8783,0,-244.322,-22.8783,-244.322 chr01 32759579 . CGAC CGAA,TGAA 136052 PASS AB=0.508658,0.48825;ABP=5.11597,6.8886;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3254,1819;CIGAR=3M1X,1X2M1X;DP=5091;DPB=5092.75;DPRA=1.01954,1.40372;EPP=7068.98,3935.57;EPPR=11.6962;GTI=0;LEN=1,4;MEANALT=2.3,2.46667;MQM=59.8052,53.4404;MQMR=60;NS=21;NUMALT=2;ODDS=3.27335;PAIRED=0,0;PAIREDR=0;PAO=0,7;PQA=0,226;PQR=0;PRO=0;QA=115958,63949;QR=137;RO=4;RPL=1704,910;RPP=18.8366,3.01149;RPPR=11.6962;RPR=1550,909;RUN=1,1;SAF=1704,908;SAP=18.8366,3.02104;SAR=1550,911;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:314:0,118,196:0:0:118,196:4207,6827:-894.759,-551.971,-516.449,-342.821,0,-283.819 1/2:263:0,141,122:0:0:141,122:5020,4304:-758.422,-349.332,-306.887,-409.192,0,-372.466 1/2:221:0,121,100:0:0:121,100:4295,3525:-635.599,-285.651,-249.227,-350.3,0,-320.197 1/2:304:0,173,130:0:0:173,130:6147,4593:-873.007,-372.121,-320.043,-501.028,0,-461.894 1/2:439:0,217,221:0:0:217,221:7723,7766:-1255.67,-627.03,-561.706,-628.794,0,-562.266 1/2:192:0,78,112:0:0:78,112:2778,3911:-542.328,-315.901,-292.421,-226.513,0,-192.798 1/2:368:4,186,178:4:137:186,178:6639,6263:-1036.8,-496.769,-451.899,-530.127,0,-487.664 2/2:238:0,0,237:0:0:0,237:0,8311:-742.855,-742.855,-742.855,-71.3441,-71.3441,0 1/2:399:0,203,195:0:0:203,195:7239,6912:-1150.24,-560.23,-499.121,-590.089,0,-531.389 1/2:47:0,17,30:0:0:17,30:612,1053:-135.879,-85.9399,-80.8224,-50.2959,0,-41.265 1/1:10:0,10,0:0:0:10,0:351,0:-31.9267,-3.0103,0,-31.9267,-3.0103,-31.9267 1/1:87:0,87,0:0:0:87,0:3091,0:-278.401,-26.1896,0,-278.401,-26.1896,-278.401 1/1:249:0,247,2:0:0:247,2:8765,72:-788.458,-74.3544,0,-782.584,-68.1197,-781.981 1/1:205:0,205,0:0:0:205,0:7313,0:-658.089,-61.7112,0,-658.089,-61.7112,-658.089 1/1:411:0,410,0:0:0:410,0:14627,0:-1315.57,-123.422,0,-1315.57,-123.422,-1315.57 1/1:255:0,254,0:0:0:254,0:9075,0:-816.354,-76.4616,0,-816.354,-76.4616,-816.354 1/2:213:0,111,102:0:0:111,102:3967,3606:-614.736,-291.325,-257.911,-323.405,0,-292.7 1/2:268:0,132,136:0:0:132,136:4687,4744:-764.457,-382.56,-342.824,-381.913,0,-340.973 1/2:206:0,148,57:0:0:148,57:5277,2026:-594.16,-164.101,-119.548,-430.053,0,-412.895 1/1:241:0,239,1:0:0:239,1:8514,36:-765.302,-71.9462,0,-762.382,-68.9923,-762.081 1/1:161:0,157,0:0:0:157,0:5631,0:-506.575,-47.2617,0,-506.575,-47.2617,-506.575 chr01 32788492 . G T 9572.57 PASS AB=0.483965;ABP=4.54236;AC=14;AF=0.333333;AN=42;AO=408;CIGAR=1X;DP=1106;DPB=1106;DPRA=1.48921;EPP=880.306;EPPR=1518.7;GTI=0;LEN=1;MEANALT=1;MQM=59.9436;MQMR=59.9914;NS=21;NUMALT=1;ODDS=5.44917;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14621;QR=24864;RO=698;RPL=238;RPP=27.6203;RPPR=7.98789;RPR=170;RUN=1;SAF=239;SAP=29.0893;SAR=169;SRF=369;SRP=7.98789;SRR=329;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:30,27:30:1064:27:964:-69.9177,0,-78.913 0/1:55:37,18:37:1313:18:644:-41.7339,0,-101.913 0/1:29:8,21:8:284:21:747:-58.8244,0,-17.1735 0/1:50:19,31:19:661:31:1116:-85.7002,0,-44.7601 0/1:74:44,30:44:1580:30:1072:-74.5153,0,-120.211 0/1:56:25,31:25:887:31:1116:-83.894,0,-63.2904 0/1:83:36,47:36:1283:47:1684:-126.862,0,-90.7871 1/1:75:0,75:0:0:75:2690:-242.344,-22.5773,0 0/1:34:13,21:13:460:21:752:-57.7712,0,-31.5004 0/1:19:10,9:10:356:9:324:-23.7863,0,-26.6617 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:54:54,0:54:1916:0:0:0,-16.2556,-172.717 0/0:49:49,0:49:1746:0:0:0,-14.7505,-157.423 0/0:67:66,1:66:2357:1:32:0,-16.9697,-209.188 0/0:44:44,0:44:1546:0:0:0,-13.2453,-139.428 0/1:26:17,9:17:595:9:324:-21.6791,0,-46.0499 0/1:128:64,64:64:2284:64:2300:-168.729,0,-167.29 0/1:75:51,24:51:1836:24:856:-54.7471,0,-142.943 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:81:81,0:81:2900:0:0:0,-24.3834,-261.236 chr01 32842743 . T C 7542.62 PASS AB=0.494805;ABP=3.19079;AC=14;AF=0.333333;AN=42;AO=439;CIGAR=1X;DP=1201;DPB=1201;DPRA=2.002;EPP=947.621;EPPR=1651.16;GTI=0;LEN=1;MEANALT=1.2;MQM=59.3895;MQMR=59.9341;NS=21;NUMALT=1;ODDS=4.2805;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15638;QR=27169;RO=759;RPL=1;RPP=947.621;RPPR=1651.16;RPR=438;RUN=1;SAF=439;SAP=956.287;SAR=0;SRF=759;SRP=1651.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:41,35:41:1460:35:1243:-89.2862,0,-108.813 0/1:33:16,17:16:576:17:612:-45.4794,0,-42.241 0/1:38:21,17:21:756:17:597:-42.617,0,-56.9281 0/1:24:13,11:13:456:11:392:-28.3911,0,-34.1485 0/1:151:69,81:69:2476:81:2871:-212.23,0,-177.491 0/1:40:18,22:18:644:22:792:-59.5611,0,-46.2494 0/1:79:34,44:34:1204:44:1576:-117.801,0,-84.8225 1/1:55:0,55:0:0:55:1972:-177.69,-16.5567,0 0/1:112:57,54:57:2040:54:1924:-139.722,0,-150.245 0/1:16:7,9:7:252:9:305:-22.9607,0,-18.2125 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.403 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/0:118:117,1:117:4185:1:36:0,-31.9233,-373.226 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/1:34:21,13:21:756:13:464:-31.7539,0,-58.1322 0/1:112:53,59:53:1900:59:2098:-155.347,0,-137.563 0/1:55:36,19:36:1284:19:684:-45.3313,0,-99.3068 0/0:58:56,2:56:2012:2:72:0,-10.623,-174.515 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.58 chr01 32870600 . G A 18155.4 PASS AB=0.440123;ABP=33.4354;AC=28;AF=0.666667;AN=42;AO=926;CIGAR=1X;DP=1619;DPB=1619;DPRA=0.508276;EPP=2013.79;EPPR=1507.84;GTI=2;LEN=1;MEANALT=1;MQM=54.446;MQMR=59.6494;NS=21;NUMALT=1;ODDS=1.66701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33179;QR=24745;RO=693;RPL=0;RPP=2013.79;RPPR=1507.84;RPR=926;RUN=1;SAF=926;SAP=2013.79;SAR=0;SRF=693;SRP=1507.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:57,37:57:2025:37:1320:-90.6123,0,-154.219 0/1:35:22,13:22:769:13:468:-31.8056,0,-58.9926 0/1:120:77,43:77:2752:43:1544:-102.82,0,-211.792 0/1:138:83,55:83:2953:55:1976:-136.436,0,-224.458 0/1:140:87,53:87:3116:53:1904:-129.297,0,-238.438 0/1:76:48,28:48:1720:28:1008:-67.5461,0,-132.179 0/1:28:18,10:18:644:10:360:-24.2219,0,-49.8618 0/0:145:145,0:145:5181:0:0:0,-43.6493,-466.33 0/1:153:66,87:66:2376:87:3128:-235.272,0,-168.038 0/1:4:3,1:3:108:1:36:-2.38905,0,-8.87105 1/1:9:0,9:0:0:9:324:-29.426,-2.70927,0 1/1:7:0,7:0:0:7:252:-22.987,-2.10721,0 1/1:147:0,147:0:0:147:5248:-470.625,-44.2514,0 1/1:84:0,84:0:0:84:3005:-270.256,-25.2865,0 1/1:88:0,88:0:0:88:3137:-280.819,-26.4906,0 1/1:45:0,45:0:0:45:1605:-144.105,-13.5464,0 0/1:41:22,19:22:777:19:680:-49.1558,0,-57.9081 0/1:68:28,40:28:1000:40:1436:-107.985,0,-69.8407 0/1:80:36,44:36:1288:44:1580:-117.945,0,-92.1318 1/1:72:0,72:0:0:72:2588:-231.401,-21.6742,0 1/1:45:1,44:1:36:44:1580:-137.115,-9.95712,0 chr01 32870669 . CGTTTGTTTGTTTTTAC CGTTTGTTTGTTTGTTTGTTTTTAC,CGTTTGTTTGTTTATTTGTTTTTAC 33593.6 PASS AB=0.489247,0.490143;ABP=4.13106,3.95205;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1230,681;CIGAR=1M8I16M,6M8I11M;DP=1949;DPB=2862.71;DPRA=0.666544,1.15169;EPP=2673.92,1481.78;EPPR=5.18177;GTI=0;LEN=8,8;MEANALT=3.1,3.71429;MQM=35.7228,37.1116;MQMR=60;NS=21;NUMALT=2;ODDS=5.26855;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41462,23193;QR=36;RO=1;RPL=0,0;RPP=2673.92,1481.78;RPPR=5.18177;RPR=1230,681;RUN=1,1;SAF=0,0;SAP=2673.92,1481.78;SAR=1230,681;SRF=0;SRP=5.18177;SRR=1;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:46:0,15,30:0:0:15,30:502,1039:-117.857,-79.9489,-75.4334,-37.9629,0,-28.932 1/2:26:0,13,13:0:0:13,13:414,438:-62.5151,-32.4063,-28.4929,-30.4082,0,-26.4948 1/2:183:0,91,87:0:0:91,87:3134,3039:-470.656,-234.436,-207.043,-236.247,0,-210.058 1/2:90:0,43,47:0:0:43,47:1415,1580:-227.934,-121.423,-108.479,-106.824,0,-92.6758 1/2:99:0,49,49:0:0:49,49:1692,1655:-255.725,-127.759,-113.008,-128.047,0,-113.296 1/2:75:0,46,29:0:0:46,29:1464,942:-175.167,-69.0852,-55.2378,-106.376,0,-97.6459 1/2:148:0,68,78:0:0:68,78:2148,2619:-348.88,-193.511,-173.041,-155.394,0,-131.914 2/2:136:0,0,133:0:0:0,133:0,4547:-380.613,-380.613,-380.613,-40.037,-40.037,0 1/2:210:0,102,103:0:0:102,103:3508,3591:-551.143,-280.725,-250.02,-270.45,0,-239.444 1/2:18:0,11,5:0:0:11,5:376,161:-40.0917,-12.2513,-8.93994,-27.9127,0,-26.4076 1/1:6:0,6,0:0:0:6,0:198,0:-16.4949,-1.80618,0,-16.4949,-1.80618,-16.4949 1/1:41:0,41,0:0:0:41,0:1379,0:-113.908,-12.3422,0,-113.908,-12.3422,-113.908 1/1:133:0,129,0:0:0:129,0:4430,0:-372.332,-38.8329,0,-372.332,-38.8329,-372.332 1/1:103:0,103,0:0:0:103,0:3481,0:-293.15,-31.0061,0,-293.15,-31.0061,-293.15 1/1:231:0,229,0:0:0:229,0:7884,0:-664.16,-68.9359,0,-664.16,-68.9359,-664.16 1/1:38:0,37,0:0:0:37,0:1252,0:-107.731,-11.1381,0,-107.731,-11.1381,-107.731 1/2:24:0,12,12:0:0:12,12:415,425:-65.4346,-33.5266,-29.9142,-32.2428,0,-28.6305 1/2:135:0,50,79:0:0:50,79:1636,2598:-313.745,-193.871,-178.82,-119.868,0,-96.0869 1/2:62:1,46,15:1:36:46,15:1567,523:-154.737,-37.5195,-26.6112,-114.55,0,-112.973 1/1:107:0,102,1:0:0:102,1:3382,36:-279.119,-30.7051,0,-276.408,-27.9944,-276.107 1/1:38:0,37,0:0:0:37,0:1185,0:-97.3206,-11.1381,0,-97.3206,-11.1381,-97.3206 chr01 32957435 . TCA TCG,TG 24633.1 PASS AB=0.598361,0.401639;ABP=64.5235,64.5235;AC=28,14;AF=0.666667,0.333333;AN=42;AO=904,338;CIGAR=2M1X,1M1D1X;DP=1243;DPB=1130.33;DPRA=1.50375,1.12085;EPP=1966.02,736.968;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.8,1.9375;MQM=55.104,33.8462;MQMR=0;NS=21;NUMALT=2;ODDS=0.528188;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32203,12051;QR=0;RO=0;RPL=0,0;RPP=1966.02,736.968;RPPR=0;RPR=904,338;RUN=1,1;SAF=904,338;SAP=1966.02,736.968;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:78:0,58,20:0:0:58,20:2076,711:-217,-48.2295,-30.7698,-169.085,0,-163.064 1/2:75:0,32,43:0:0:32,43:1148,1548:-204.436,-110.86,-101.227,-93.9177,0,-80.9734 1/2:43:0,24,19:0:0:24,19:864,680:-116.376,-46.0266,-38.8019,-70.6764,0,-64.9569 1/2:52:0,28,24:0:0:28,24:1000,841:-138.124,-56.7312,-48.3024,-81.7159,0,-74.4912 1/2:107:0,57,50:0:0:57,50:2044,1792:-295.921,-129.459,-112.3,-166.8,0,-151.748 1/2:44:0,26,18:0:0:26,18:932,648:-124.655,-48.6597,-40.8329,-76.3383,0,-70.9198 1/2:100:0,70,30:0:0:70,30:2496,1067:-280.613,-77.2163,-56.1442,-203.727,0,-194.696 2/2:40:0,0,40:0:0:0,40:0,1421:-112.647,-112.647,-112.647,-12.0412,-12.0412,0 1/2:61:0,31,30:0:0:31,30:1104,1076:-163.033,-73.4186,-64.0866,-89.9436,0,-80.9127 1/2:10:0,4,6:0:0:4,6:144,208:-26.6331,-14.8931,-13.689,-12.0768,0,-10.2706 1/1:16:0,16,0:0:0:16,0:564,0:-51.0847,-4.81648,0,-51.0847,-4.81648,-51.0847 1/1:34:0,34,0:0:0:34,0:1216,0:-109.316,-10.235,0,-109.316,-10.235,-109.316 1/1:85:0,85,0:0:0:85,0:3027,0:-271.811,-25.5876,0,-271.811,-25.5876,-271.811 1/1:81:0,80,0:0:0:80,0:2836,0:-253.779,-24.0824,0,-253.779,-24.0824,-253.779 1/1:93:0,92,1:0:0:92,1:3287,36:-294.979,-27.6948,0,-292.742,-25.1747,-292.441 1/1:24:0,23,1:0:0:23,1:816,36:-73.1944,-6.92369,0,-70.5272,-3.9257,-70.2262 1/2:16:0,13,3:0:0:13,3:464,108:-44.7707,-6.99594,-3.08255,-38.0707,0,-37.1676 1/2:86:0,47,39:0:0:47,39:1684,1379:-230.577,-93.5272,-79.3788,-137.375,0,-125.635 1/2:60:0,48,12:0:0:48,12:1689,428:-165.392,-28.2178,-13.7683,-137.478,0,-133.866 1/1:83:0,81,2:0:0:81,2:2856,72:-256.283,-24.3834,0,-250.722,-18.4806,-250.12 1/1:55:0,55,0:0:0:55,0:1956,0:-176.022,-16.5567,0,-176.022,-16.5567,-176.022 chr01 32989011 . GTC GTT,ATT 17810 PASS AB=0.833333,0.166667;ABP=165.147,165.147;AC=33,9;AF=0.785714,0.214286;AN=42;AO=757,53;CIGAR=2M1X,1X1M1X;DP=812;DPB=812;DPRA=2.65667,0.625591;EPP=1646.81,118.098;EPPR=0;GTI=6;LEN=1,3;MEANALT=1.6,1.90909;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=6.28274;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26992,1894;QR=0;RO=0;RPL=757,53;RPP=1646.81,118.098;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1646.81,118.098;SAR=757,53;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:25:0,23,2:0:0:23,2:828,72:-74.4843,-6.92369,0,-68.6095,-0.689028,-68.0074 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:24:0,21,3:0:0:21,3:756,103:-70.4068,-8.70651,-2.38488,-62.0456,0,-61.1425 1/2:31:0,27,4:0:0:27,4:949,144:-89.3457,-12.1095,-3.98169,-77.595,0,-76.3908 1/1:62:0,58,4:0:0:58,4:2046,144:-184.049,-17.4597,0,-172.299,-5.35024,-171.095 1/2:6:0,5,1:0:0:5,1:180,36:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459 1/2:23:0,20,3:0:0:20,3:712,108:-67.1988,-9.17208,-3.15148,-58.3861,0,-57.483 2/2:15:0,0,15:0:0:0,15:0,533:-48.3031,-48.3031,-48.3031,-4.51545,-4.51545,0 1/1:61:0,57,4:0:0:57,4:2033,144:-182.881,-17.1587,0,-171.131,-5.04921,-169.927 1/2:9:0,4,5:0:0:4,5:144,180:-26.7966,-15.0469,-13.8428,-12.1095,0,-10.6043 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:71:0,71,0:0:0:71,0:2498,0:-225.068,-21.3731,0,-225.068,-21.3731,-225.068 1/1:138:0,138,0:0:0:138,0:4933,0:-444.119,-41.5421,0,-444.119,-41.5421,-444.119 1/1:51:0,50,0:0:0:50,0:1796,0:-161.611,-15.0515,0,-161.611,-15.0515,-161.611 1/1:43:0,42,0:0:0:42,0:1499,0:-134.845,-12.6433,0,-134.845,-12.6433,-134.845 1/1:21:0,21,0:0:0:21,0:752,0:-68.0063,-6.32163,0,-68.0063,-6.32163,-68.0063 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/2:33:0,26,7:0:0:26,7:936,250:-97.1146,-20.7395,-12.9127,-76.7327,0,-74.6255 1/2:42:0,37,5:0:0:37,5:1332,180:-123.731,-15.0469,-3.9088,-109.044,0,-107.539 1/1:89:0,89,0:0:0:89,0:3154,0:-284.084,-26.7917,0,-284.084,-26.7917,-284.084 1/1:43:0,43,0:0:0:43,0:1544,0:-139.253,-12.9443,0,-139.253,-12.9443,-139.253 chr01 32989025 . C T 8889.65 PASS AB=0.469917;ABP=10.5879;AC=14;AF=0.333333;AN=42;AO=516;CIGAR=1X;DP=1627;DPB=1627;DPRA=1.05333;EPP=1123.49;EPPR=2415.52;GTI=0;LEN=1;MEANALT=1;MQM=59.8992;MQMR=59.9424;NS=21;NUMALT=1;ODDS=12.2556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18515;QR=39777;RO=1111;RPL=0;RPP=1123.49;RPPR=2415.52;RPR=516;RUN=1;SAF=516;SAP=1123.49;SAR=0;SRF=1111;SRP=2415.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:14,27:14:500:27:968:-75.0905,0,-32.9939 0/1:26:7,19:7:252:19:684:-54.0635,0,-15.2022 0/1:124:62,62:62:2224:62:2224:-163.096,0,-163.096 0/1:60:48,12:48:1716:12:432:-21.1594,0,-136.664 0/1:159:90,69:90:3228:69:2472:-174.87,0,-242.878 0/1:83:44,39:44:1565:39:1400:-101.314,0,-116.154 0/1:80:36,44:36:1292:44:1576:-118.049,0,-92.5014 1/1:63:0,63:0:0:63:2263:-203.932,-18.9649,0 0/1:114:75,39:75:2677:39:1400:-91.9818,0,-206.839 0/1:14:4,10:4:144:10:360:-28.5299,0,-9.0992 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:62:62,0:62:2228:0:0:0,-18.6639,-200.784 0/0:118:118,0:118:4228:0:0:0,-35.5215,-380.686 0/0:98:98,0:98:3508:0:0:0,-29.5009,-315.903 0/0:160:160,0:160:5736:0:0:0,-48.1648,-516.352 0/0:14:14,0:14:496:0:0:0,-4.21442,-44.9743 0/1:66:18,48:18:648:48:1720:-135.217,0,-38.7839 0/1:123:73,50:73:2611:50:1792:-124.43,0,-198.211 0/1:74:40,34:40:1416:34:1224:-88.0006,0,-105.456 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.772 chr01 32989083 . A G 27590.7 PASS AB=0.561165;ABP=36.4805;AC=28;AF=0.666667;AN=42;AO=1206;CIGAR=1X;DP=1721;DPB=1721;DPRA=1.36066;EPP=1600.76;EPPR=968.276;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9146;MQMR=59.9377;NS=21;NUMALT=1;ODDS=13.4815;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42485;QR=18198;RO=514;RPL=1074;RPP=1600.76;RPPR=968.276;RPR=132;RUN=1;SAF=1206;SAP=2621.81;SAR=0;SRF=514;SRP=1119.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:29,24:29:1032:24:844:-60.3243,0,-77.237 0/1:52:22,30:22:780:30:1067:-80.6861,0,-54.8695 0/1:122:61,61:61:2150:61:2140:-156.14,0,-157.041 0/1:57:11,46:11:392:46:1615:-128.477,0,-18.4613 0/1:179:70,109:70:2484:109:3769:-285.52,0,-169.927 0/1:84:38,46:38:1344:46:1652:-123.682,0,-95.9736 0/1:81:45,36:45:1616:36:1271:-90.3087,0,-121.347 0/0:61:61,0:61:2163:0:0:0,-18.3628,-194.937 0/1:120:40,80:40:1410:80:2808:-216.819,0,-91.0722 0/1:17:12,5:12:432:5:172:-10.7005,0,-34.1037 1/1:6:0,6:0:0:6:204:-18.6934,-1.80618,0 1/1:61:0,61:0:0:61:2184:-196.826,-18.3628,0 1/1:116:1,115:1:36:115:4094:-365.035,-31.3212,0 1/1:103:0,103:0:0:103:3658:-329.375,-31.0061,0 1/1:161:0,161:0:0:161:5638:-507.544,-48.4658,0 1/1:45:0,45:0:0:45:1596:-143.93,-13.5464,0 0/1:76:47,29:47:1656:29:1040:-71.0361,0,-126.448 0/1:117:47,70:47:1657:70:2450:-185.533,0,-114.195 0/1:72:30,42:30:1046:42:1470:-110.905,0,-72.5839 1/1:73:0,73:0:0:73:2579:-232.36,-21.9752,0 1/1:65:0,64:0:0:64:2234:-200.961,-19.2659,0 chr01 32989155 . 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TAAAG TAAAAA,TAAAA 19922.3 PASS AB=0.662587,0.326923;ABP=134.346,151.84;AC=28,14;AF=0.666667,0.333333;AN=42;AO=875,235;CIGAR=1M1I3M1X,4M1X;DP=1118;DPB=1293.6;DPRA=1.19222,0.883663;EPP=1903.05,513.306;EPPR=0;GTI=2;LEN=6,1;MEANALT=2,2.35714;MQM=33.664,54.5872;MQMR=0;NS=21;NUMALT=2;ODDS=5.16995;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31058,8378;QR=0;RO=0;RPL=0,0;RPP=1903.05,513.306;RPPR=0;RPR=875,235;RUN=1,1;SAF=875,235;SAP=1903.05,513.306;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:52:0,38,12:0:0:38,12:1350,424:-127.984,-34.5616,-23.1225,-93.4428,0,-89.8304 1/2:17:0,14,3:0:0:14,3:504,108:-42.3007,-9.14675,-4.93233,-33.5019,0,-32.5988 1/2:61:0,39,22:0:0:39,22:1376,792:-160.365,-64.9546,-53.2144,-95.7507,0,-89.1281 1/2:52:0,38,13:0:0:38,13:1350,468:-130.173,-38.3206,-26.8814,-91.9777,0,-88.0643 1/2:91:0,53,36:0:0:53,36:1877,1288:-233.396,-104.498,-88.5431,-128.905,0,-118.068 1/2:32:0,20,11:0:0:20,11:707,396:-83.1103,-32.3861,-26.3655,-50.8631,0,-47.5518 1/2:54:0,38,16:0:0:38,16:1351,572:-145.272,-46.1939,-34.7548,-99.4217,0,-94.6052 2/2:45:0,0,45:0:0:0,45:0,1612:-144.671,-144.671,-144.671,-13.5464,-13.5464,0 1/2:105:0,66,39:0:0:66,39:2334,1377:-294.588,-112.312,-92.4436,-182.625,0,-170.884 1/2:9:0,5,4:0:0:5,4:164,144:-23.2775,-12.0659,-10.5607,-11.5369,0,-10.3328 1/1:5:0,5,0:0:0:5,0:180,0:-14.9323,-1.50515,0,-14.9323,-1.50515,-14.9323 1/1:26:0,26,0:0:0:26,0:931,0:-71.0331,-7.82678,0,-71.0331,-7.82678,-71.0331 1/1:116:0,115,0:0:0:115,0:4082,0:-320.366,-34.6185,0,-320.366,-34.6185,-320.366 1/1:103:0,103,0:0:0:103,0:3659,0:-282.242,-31.0061,0,-282.242,-31.0061,-282.242 1/1:92:0,92,0:0:0:92,0:3270,0:-256.948,-27.6948,0,-256.948,-27.6948,-256.948 1/1:23:0,23,0:0:0:23,0:810,0:-69.0239,-6.92369,0,-69.0239,-6.92369,-69.0239 1/2:7:0,5,2:0:0:5,2:176,57:-18.6745,-4.80871,-3.30356,-14.1665,0,-13.5645 1/2:43:0,27,16:0:0:27,16:956,576:-113.353,-47.0098,-38.882,-66.6819,0,-61.8654 1/2:49:0,36,13:0:0:36,13:1284,460:-122.205,-37.7573,-26.9202,-84.7854,0,-80.872 1/1:97:0,93,3:0:0:93,3:3309,104:-258.705,-27.9958,0,-250.693,-19.9911,-249.79 1/1:39:0,39,0:0:0:39,0:1388,0:-112.563,-11.7402,0,-112.563,-11.7402,-112.563 chr01 33042989 . 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T A 20905.4 PASS AB=0.509992;ABP=4.09517;AC=27;AF=0.642857;AN=42;AO=1080;CIGAR=1X;DP=1746;DPB=1746;DPRA=1.73163;EPP=2348.2;EPPR=1447.04;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6278;MQMR=60;NS=21;NUMALT=1;ODDS=1.88185;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38621;QR=23772;RO=665;RPL=0;RPP=2348.2;RPPR=1447.04;RPR=1080;RUN=1;SAF=1080;SAP=2348.2;SAR=0;SRF=665;SRP=1447.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:35,41:35:1252:41:1476:-110.251,0,-90.1068 0/1:37:29,8:29:1021:8:288:-15.1293,0,-81.0621 0/1:71:39,32:39:1400:32:1152:-82.4139,0,-104.926 0/1:115:60,55:60:2148:55:1972:-142.504,0,-158.969 0/1:166:110,56:110:3925:56:2004:-130.66,0,-303.471 0/1:18:2,16:2:72:16:550:-44.3976,0,-1.41818 1/1:25:0,25:0:0:25:892:-80.2814,-7.52575,0 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.604 0/1:161:77,84:77:2751:84:2990:-220.463,0,-199.366 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:9:4,5:4:144:5:173:-13.1901,0,-10.6043 0/1:53:26,27:26:932:27:953:-70.1241,0,-68.2443 0/1:324:128,196:128:4588:196:7013:-533.612,0,-315.55 1/1:81:0,81:0:0:81:2912:-262.312,-24.3834,0 1/1:87:0,87:0:0:87:3113:-280.289,-26.1896,0 1/1:81:1,80:1:36:80:2845:-252.685,-20.7852,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:89:53,35:53:1900:35:1260:-86.855,0,-144.427 0/1:118:43,75:43:1531:75:2700:-207.717,0,-102.561 1/1:120:2,118:2:72:118:4228:-373.823,-29.2869,0 1/1:46:1,45:1:36:45:1596:-140.291,-10.2491,0 chr01 33051522 . T A 20664 PASS AB=0.506005;ABP=3.40148;AC=27;AF=0.642857;AN=42;AO=1072;CIGAR=1X;DP=1741;DPB=1741;DPRA=1.76354;EPP=2330.83;EPPR=1455.73;GTI=0;LEN=1;MEANALT=1;MQM=59.6362;MQMR=59.991;NS=21;NUMALT=1;ODDS=2.43209;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38262;QR=23939;RO=669;RPL=1072;RPP=2330.83;RPPR=1455.73;RPR=0;RUN=1;SAF=1072;SAP=2330.83;SAR=0;SRF=669;SRP=1455.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:34,40:34:1224:40:1436:-107.257,0,-88.1908 0/1:37:29,8:29:1044:8:288:-15.1293,0,-83.1367 0/1:70:40,30:40:1428:30:1076:-75.8858,0,-107.745 0/1:114:58,56:58:2076:56:2004:-145.94,0,-152.793 0/1:168:114,54:114:4087:54:1932:-123.581,0,-317.442 0/1:18:2,16:2:72:16:573:-46.4498,0,-1.41818 1/1:25:0,25:0:0:25:896:-80.642,-7.52575,0 0/0:48:48,0:48:1707:0:0:0,-14.4494,-153.915 0/1:159:76,83:76:2732:83:2935:-216.392,0,-198.258 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:9:4,5:4:144:5:176:-13.4641,0,-10.6043 0/1:55:28,27:28:989:27:972:-71.2366,0,-72.7654 0/1:325:130,195:130:4652:195:6999:-532.049,0,-321.008 1/1:82:0,82:0:0:82:2932:-264.112,-24.6845,0 1/1:87:0,87:0:0:87:3103:-279.4,-26.1896,0 1/1:78:1,77:1:36:77:2728:-242.158,-19.8821,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:91:55,36:55:1956:36:1288:-88.8299,0,-148.917 0/1:115:41,74:41:1468:74:2633:-202.593,0,-97.7976 1/1:120:2,118:2:72:118:4206:-371.832,-29.2869,0 1/1:46:1,45:1:36:45:1581:-138.957,-10.2491,0 chr01 33051523 . A G 11354.6 PASS AB=0.491593;ABP=3.77701;AC=15;AF=0.357143;AN=42;AO=667;CIGAR=1X;DP=1741;DPB=1741;DPRA=2.40118;EPP=1451.38;EPPR=2335.17;GTI=0;LEN=1;MEANALT=1;MQM=59.988;MQMR=59.6331;NS=21;NUMALT=1;ODDS=2.16027;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23869;QR=38504;RO=1074;RPL=667;RPP=1451.38;RPPR=2335.17;RPR=0;RUN=1;SAF=667;SAP=1451.38;SAR=0;SRF=1074;SRP=2335.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:41,35:41:1468:35:1248:-89.7466,0,-109.532 0/1:38:8,30:8:288:30:1076:-85.7137,0,-14.8283 0/1:70:30,40:30:1072:40:1406:-105.76,0,-75.5244 0/1:115:56,59:56:2004:59:2117:-156.18,0,-145.639 0/1:167:57,110:57:2052:110:3948:-305.239,0,-134.677 0/1:18:16,2:16:572:2:72:-1.41818,0,-46.3608 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.0027 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 0/1:158:82,76:82:2948:76:2736:-198.919,0,-217.55 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8261 0/1:55:27,28:27:972:28:992:-73.0377,0,-71.2366 0/1:322:196,126:196:7007:126:4524:-310.394,0,-533.67 0/0:82:82,0:82:2944:0:0:0,-24.6845,-265.191 0/0:86:85,1:85:3037:1:36:0,-22.2929,-269.856 0/0:80:79,1:79:2836:1:36:0,-20.4841,-251.875 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:89:36,53:36:1292:53:1883:-142.956,0,-89.7921 0/1:119:74,45:74:2652:45:1607:-109.097,0,-203.1 0/0:119:117,2:117:4192:2:72:0,-28.9858,-370.574 0/0:46:45,1:45:1620:1:36:0,-10.2491,-142.447 chr01 33051532 . GGGG AGGA,GGGA 34414.9 PASS AB=0.519278,0.478261;ABP=6.94531,8.01413;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1070,635;CIGAR=1X2M1X,3M1X;DP=1711;DPB=1713.5;DPRA=1.73229,1.79798;EPP=2326.49,1381.9;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.1,2.17647;MQM=59.6243,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.148068;PAIRED=0,0;PAIREDR=0;PAO=5,2;PQA=176,18;PQR=18;PRO=2;QA=37300,22502;QR=0;RO=0;RPL=1070,635;RPP=2326.49,1381.9;RPPR=0;RPR=0,0;RUN=1,1;SAF=1070,635;SAP=2326.49,1381.9;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:75:0,41,33:0:0:41,33:1436,1176:-212.688,-95.8541,-83.5118,-116.827,0,-106.893 1/2:34:0,8,26:0:0:8,26:282,917:-97.9783,-75.0178,-72.6096,-23.3128,0,-15.4861 1/2:69:0,32,37:0:0:32,37:1097,1324:-197.334,-108.324,-98.691,-89.36,0,-78.2219 1/2:114:0,55,59:0:0:55,59:1904,2080:-323.748,-169.291,-152.735,-154.387,0,-136.626 1/2:165:0,56,108:0:0:56,108:1960,3823:-470.873,-311.409,-294.552,-159.465,0,-126.954 1/2:17:0,15,2:0:0:15,2:525,72:-48.6096,-5.90143,-1.38598,-42.7334,0,-42.1314 1/1:25:0,25,0:0:0:25,0:863,0:-77.7127,-7.52575,0,-77.7127,-7.52575,-77.7127 2/2:48:0,0,48:0:0:0,48:0,1712:-154.366,-154.366,-154.366,-14.4494,-14.4494,0 1/2:153:0,82,71:0:0:82,71:2867,2517:-438.501,-205.408,-180.724,-233.445,0,-212.071 1/2:14:0,8,6:0:0:8,6:288,216:-41.4837,-17.9843,-15.5761,-23.8592,0,-22.053 1/2:9:0,5,4:0:0:5,4:161,140:-24.6979,-11.7405,-10.2353,-13.2948,0,-12.0906 1/2:53:0,27,26:0:0:27,26:941,915:-151.358,-74.8388,-66.711,-76.8697,0,-69.0429 1/2:313:0,196,117:0:0:196,117:6837,4140:-893.589,-337.568,-278.566,-556.372,0,-521.151 1/1:81:0,80,0:0:0:80,0:2777,0:-249.84,-24.0824,0,-249.84,-24.0824,-249.84 1/1:86:0,85,0:0:0:85,0:2993,0:-269.201,-25.5876,0,-269.201,-25.5876,-269.201 1/1:81:0,80,1:0:0:80,1:2804,36:-252.238,-24.0824,0,-249.301,-20.7852,-249 1/1:6:0,6,0:0:0:6,0:215,0:-19.6992,-1.80618,0,-19.6992,-1.80618,-19.6992 1/2:90:0,36,53:0:0:36,53:1252,1883:-255.355,-153.561,-142.724,-101.91,0,-85.9556 1/2:113:0,72,41:0:0:72,41:2521,1443:-322.579,-117.463,-95.7891,-205.107,0,-192.765 1/1:120:0,117,2:0:0:117,2:4057,72:-364.925,-35.2205,0,-359.05,-29.339,-358.448 1/1:45:0,44,1:0:0:44,1:1520,36:-136.717,-13.2453,0,-133.78,-9.94808,-133.479 chr01 33051575 . A T 25732.2 PASS AB=0.551056;ABP=28.7315;AC=29;AF=0.690476;AN=42;AO=1258;CIGAR=1X;DP=1911;DPB=1911;DPRA=0;EPP=2622.97;EPPR=1399.32;GTI=0;LEN=1;MEANALT=1.09524;MQM=57.0382;MQMR=59.9109;NS=21;NUMALT=1;ODDS=5.23853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44975;QR=23197;RO=651;RPL=13;RPP=2622.97;RPPR=1399.32;RPR=1245;RUN=1;SAF=0;SAP=2734.72;SAR=1258;SRF=0;SRP=1416.64;SRR=651;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:60,62:60:2140:62:2186:-159.459,0,-156.142 0/1:74:22,52:22:792:52:1853:-144.493,0,-49.3295 0/1:107:50,57:50:1796:57:2044:-151.954,0,-129.712 0/1:93:49,44:49:1752:44:1565:-112.993,0,-129.968 0/1:128:65,62:65:2320:62:2212:-159.728,0,-170.425 1/1:57:0,57:0:0:57:2044:-183.381,-17.1587,0 1/1:31:0,31:0:0:31:1099:-99.1079,-9.33193,0 0/0:135:133,2:133:4711:2:72:0,-33.8774,-417.321 0/1:154:57,97:57:2039:97:3465:-265.569,0,-137.423 0/1:22:12,10:12:424:10:356:-25.7432,0,-31.8738 1/1:8:0,8:0:0:8:288:-26.2403,-2.40824,0 0/1:35:7,28:7:252:28:1004:-79.4023,0,-12.1175 0/1:169:64,105:64:2287:105:3748:-286.063,0,-155.217 1/1:105:2,103:2:72:103:3688:-324.95,-24.7714,0 1/1:229:2,227:2:72:227:8135:-724.412,-62.0991,0 1/1:38:3,35:3:108:35:1256:-103.185,-1.36397,0 1/1:16:0,16:0:0:16:576:-52.118,-4.81648,0 0/1:170:102,67:102:3604:67:2395:-163.769,0,-273.339 0/1:62:20,42:20:720:42:1504:-116.929,0,-46.4649 1/1:100:1,99:1:36:99:3552:-315.667,-26.5047,0 1/1:56:2,54:2:72:54:1933:-166.963,-10.021,0 chr01 33051586 . TT GA,AT 40319.5 PASS AB=0.544983,0.451557;ABP=23.3275,26.5734;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1277,668;CIGAR=2X,1X1M;DP=1951;DPB=1951;DPRA=0,3.79154;EPP=2775.98,1444.88;EPPR=5.18177;GTI=1;LEN=2,1;MEANALT=2.04762,2.29412;MQM=57.0196,59.8743;MQMR=60;NS=21;NUMALT=2;ODDS=2.97887;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45008,23849;QR=25;RO=1;RPL=1277,667;RPP=2775.98,1444.88;RPPR=5.18177;RPR=0,1;RUN=1,1;SAF=0,0;SAP=2775.98,1453.55;SAR=1277,668;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:127:1,61,64:1:25:61,64:2141,2296:-358.069,-185.381,-168.966,-171.088,0,-153.77 1/2:75:0,52,23:0:0:52,23:1823,828:-216.075,-67.9204,-52.2669,-148.512,0,-141.588 1/2:107:0,58,49:0:0:58,49:2064,1744:-310.639,-142.492,-125.032,-168.503,0,-153.753 1/2:91:0,42,48:0:0:42,48:1477,1728:-261.218,-141.099,-128.456,-120.221,0,-105.772 1/2:127:0,63,64:0:0:63,64:2227,2258:-364.72,-184.196,-165.232,-180.876,0,-161.61 1/1:59:0,59,0:0:0:59,0:2079,0:-186.687,-17.7608,0,-186.687,-17.7608,-186.687 1/1:31:0,31,0:0:0:31,0:1076,0:-96.9824,-9.33193,0,-96.9824,-9.33193,-96.9824 2/2:137:0,2,135:0:0:2,135:72,4791:-430.969,-425.165,-424.563,-40.6391,-34.4794,0 1/2:159:0,98,61:0:0:98,61:3411,2187:-455.937,-178.732,-149.231,-277.56,0,-259.197 1/2:22:0,10,12:0:0:10,12:358,432:-64.786,-35.6088,-32.5985,-29.5358,0,-25.9234 1/1:8:0,8,0:0:0:8,0:284,0:-25.879,-2.40824,0,-25.879,-2.40824,-25.879 1/2:36:0,29,7:0:0:29,7:1006,250:-101.561,-20.4653,-11.7355,-81.4471,0,-79.3399 1/2:172:0,106,66:0:0:106,66:3739,2363:-496.707,-193.06,-161.151,-304.003,0,-284.135 1/1:111:0,110,1:0:0:110,1:3856,36:-346.57,-33.1133,0,-343.632,-29.8161,-343.331 1/1:233:0,229,3:0:0:229,3:8139,108:-731.361,-68.9359,0,-722.548,-60.1236,-721.645 1/1:40:0,37,3:0:0:37,3:1311,108:-117.846,-11.1381,0,-109.034,-1.96603,-108.13 1/1:16:0,16,0:0:0:16,0:539,0:-48.7965,-4.81648,0,-48.7965,-4.81648,-48.7965 1/2:175:0,68,106:0:0:68,106:2401,3800:-504.632,-309.929,-289.459,-194.699,0,-162.789 1/2:65:0,43,22:0:0:43,22:1542,780:-189.611,-63.9004,-50.9561,-126.067,0,-119.444 1/1:102:0,100,1:0:0:100,1:3531,36:-317.02,-30.103,0,-314.083,-27.1655,-313.782 1/1:58:0,55,3:0:0:55,3:1932,104:-173.272,-16.5567,0,-164.819,-7.75694,-163.916 chr01 33059601 . T C 7652.83 PASS AB=0.4427;ABP=21.1764;AC=14;AF=0.333333;AN=42;AO=341;CIGAR=1X;DP=1100;DPB=1100;DPRA=1.0942;EPP=4.08648;EPPR=3.65402;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9868;NS=21;NUMALT=1;ODDS=4.24925;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12071;QR=27144;RO=759;RPL=0;RPP=743.482;RPPR=1651.16;RPR=341;RUN=1;SAF=177;SAP=4.08648;SAR=164;SRF=387;SRP=3.65402;SRR=372;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:28,14:28:1008:14:504:-33.0548,0,-78.3793 0/1:39:22,17:22:776:17:599:-42.4979,0,-58.422 0/1:32:20,12:20:720:12:428:-29.2258,0,-55.4958 0/1:54:30,24:30:1076:24:860:-61.4662,0,-80.8972 0/1:54:25,29:25:900:29:995:-73.6003,0,-65.0654 0/1:43:20,23:20:716:23:793:-58.7412,0,-51.8234 0/1:54:27,27:27:964:27:968:-71.1817,0,-70.8212 1/1:58:0,58:0:0:58:2046:-184.411,-17.4597,0 0/1:78:41,37:41:1472:37:1307:-94.4504,0,-109.296 0/1:7:5,2:5:180:2:68:-4.3505,0,-14.4449 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4067 0/0:60:59,1:59:2120:1:36:0,-14.4635,-187.47 0/0:52:52,0:52:1852:0:0:0,-15.6536,-166.96 0/0:89:89,0:89:3169:0:0:0,-26.7917,-285.434 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/1:25:17,8:17:608:8:288:-18.7417,0,-47.5263 0/1:123:70,53:70:2500:53:1908:-134.971,0,-188.226 0/1:86:50,36:50:1775:36:1271:-88.8035,0,-134.144 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:123:123,0:123:4408:0:0:0,-37.0267,-396.892 chr01 33059716 . GTT CTT,CTC 108825 PASS AB=0.55841,0.437977;ABP=76.829,86.2437;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2907,1250;CIGAR=1X2M,1X1M1X;DP=4173;DPB=4173.67;DPRA=1.29613,2.26951;EPP=6298.12,2717.35;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.4,2.64706;MQM=59.8672,59.3;MQMR=0;NS=21;NUMALT=2;ODDS=40.7003;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=102734,43449;QR=0;RO=0;RPL=1806,947;RPP=374.278,723.481;RPPR=0;RPR=1101,303;RUN=1,1;SAF=1804,947;SAP=370.077,723.481;SAR=1103,303;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:218:0,111,106:0:0:111,106:3920,3694:-619.565,-300.337,-266.923,-319.218,0,-287.309 1/2:182:0,111,70:0:0:111,70:3952,2468:-522.736,-200.646,-167.232,-322.162,0,-301.09 1/2:187:0,108,79:0:0:108,79:3856,2791:-541.956,-227.589,-195.077,-314.722,0,-290.941 1/2:254:0,127,125:0:0:127,125:4497,4310:-716.282,-349.973,-311.743,-366.391,0,-328.762 1/2:388:0,210,177:0:0:210,177:7414,6156:-1103.69,-500.527,-437.31,-603.267,0,-549.985 1/2:245:0,129,116:0:0:129,116:4583,4040:-701.95,-328.55,-289.717,-373.751,0,-338.831 1/2:217:0,141,74:0:0:141,74:4940,2544:-608.513,-206.583,-164.137,-402.004,0,-379.728 2/2:155:0,0,154:0:0:0,154:0,5398:-485.459,-485.459,-485.459,-46.3586,-46.3586,0 1/2:383:0,200,183:0:0:200,183:7055,6312:-1087.2,-513.012,-452.806,-574.538,0,-519.45 1/2:28:0,15,13:0:0:15,13:540,442:-80.263,-36.1911,-31.6756,-44.4211,0,-40.5077 1/1:32:0,32,0:0:0:32,0:1139,0:-102.818,-9.63296,0,-102.818,-9.63296,-102.818 1/1:62:0,62,0:0:0:62,0:2215,0:-199.555,-18.6639,0,-199.555,-18.6639,-199.555 1/1:359:0,356,2:0:0:356,2:12553,64:-1129.27,-107.167,0,-1124.11,-102.037,-1123.51 1/1:340:0,337,1:0:0:337,1:11758,36:-1057.57,-101.447,0,-1054.63,-98.4581,-1054.33 1/1:257:0,255,1:0:0:255,1:9054,36:-814.475,-76.7627,0,-811.537,-73.7853,-811.236 1/1:193:0,192,0:0:0:192,0:6773,0:-609.442,-57.7978,0,-609.442,-57.7978,-609.442 1/2:140:0,66,74:0:0:66,74:2335,2572:-399.606,-209.415,-189.547,-190.541,0,-168.265 1/2:100:0,75,25:0:0:75,25:2658,878:-288.258,-71.7219,-49.1447,-216.887,0,-209.362 1/2:149:0,98,49:0:0:98,49:3490,1672:-420.099,-135.636,-106.136,-284.46,0,-269.709 1/1:179:0,177,1:0:0:177,1:6284,36:-565.23,-53.2823,0,-562.293,-50.3449,-561.992 1/1:105:0,105,0:0:0:105,0:3718,0:-334.823,-31.6082,0,-334.823,-31.6082,-334.823 chr01 33113489 . T A 23471.3 PASS AB=0.497453;ABP=3.07666;AC=28;AF=0.666667;AN=42;AO=1159;CIGAR=1X;DP=1901;DPB=1901;DPRA=0.587919;EPP=2450.74;EPPR=1603.4;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9543;MQMR=59.9649;NS=21;NUMALT=1;ODDS=0.759976;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41503;QR=26564;RO=741;RPL=8;RPP=2450.74;RPPR=1603.4;RPR=1151;RUN=1;SAF=0;SAP=2519.75;SAR=1159;SRF=0;SRP=1612.07;SRR=741;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:47,56:47:1692:56:2008:-149.987,0,-121.19 0/1:73:33,40:33:1180:40:1432:-107.202,0,-84.5329 0/1:114:52,62:52:1853:62:2228:-166.466,0,-132.73 0/1:109:47,62:47:1677:62:2219:-167.161,0,-118.403 0/1:150:66,84:66:2361:84:2996:-224.693,0,-167.592 0/1:53:28,25:28:1000:25:900:-65.3664,0,-74.3608 0/1:135:72,63:72:2580:63:2260:-163.024,0,-191.81 0/0:149:149,0:149:5360:0:0:0,-44.8535,-482.529 0/1:140:81,58:81:2904:58:2080:-145.267,0,-219.392 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:31:0,31:0:0:31:1103:-99.5785,-9.33193,0 1/1:73:0,73:0:0:73:2616:-235.685,-21.9752,0 1/1:80:0,80:0:0:80:2851:-256.828,-24.0824,0 1/1:179:0,179:0:0:179:6389:-575.093,-53.8844,0 1/1:89:1,88:1:32:88:3160:-281.425,-23.5924,0 0/1:104:54,50:54:1929:50:1796:-130.615,0,-142.578 0/1:147:88,59:88:3168:59:2120:-146.817,0,-241.092 0/1:41:18,23:18:648:23:828:-62.5019,0,-46.3097 1/1:66:0,66:0:0:66:2357:-212.388,-19.868,0 1/1:49:0,49:0:0:49:1764:-159.044,-14.7505,0 chr01 33130016 . T G 0 PASS AB=0.516882;ABP=7.04265;AC=29;AF=0.690476;AN=42;AO=1639;CIGAR=1X;DP=2571;DPB=2571;DPRA=0.881522;EPP=3562.05;EPPR=2026.82;GTI=12;LEN=1;MEANALT=1;MQM=10.0763;MQMR=10.4635;NS=21;NUMALT=1;ODDS=47.5012;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58742;QR=33393;RO=932;RPL=1639;RPP=3562.05;RPPR=2026.82;RPR=0;RUN=1;SAF=0;SAP=3562.05;SAR=1639;SRF=0;SRP=2026.82;SRR=932;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:106,68:106:3793:68:2420:-9.91879,0,-43.537 0/1:126:59,67:59:2101:67:2408:-22.4097,0,-19.9468 0/1:146:69,77:69:2476:77:2764:-25.4688,0,-18.3657 0/1:168:84,84:84:3012:84:3008:-25.0474,0,-26.0369 0/1:200:110,90:110:3952:90:3228:-21.2589,0,-39.1535 0/1:165:71,94:71:2522:94:3368:-34.9417,0,-20.3112 0/1:140:66,74:66:2361:74:2652:-24.4864,0,-22.9348 0/0:138:138,0:138:4964:0:0:0,-41.5421,-136.301 0/1:264:103,161:103:3688:161:5756:-65.3726,0,-13.3203 1/1:7:1,6:1:36:6:216:-4.39587,-1.00847,0 1/1:6:0,6:0:0:6:216:-5.49461,-1.80618,0 1/1:19:0,19:0:0:19:676:-17.1805,-5.71957,0 1/1:125:1,124:1:36:124:4464:-114.227,-36.6297,0 1/1:138:0,138:0:0:138:4926:-124.122,-41.5421,0 1/1:192:0,192:0:0:192:6884:-174.126,-57.7978,0 1/1:133:0,133:0:0:133:4768:-119.766,-40.037,0 0/1:97:47,50:47:1688:50:1784:-17.8132,0,-13.2471 0/1:86:51,35:51:1832:35:1260:-5.68043,0,-26.3448 0/1:63:21,42:21:756:42:1508:-19.2561,0,-0.016477 1/1:114:5,109:5:176:109:3920:-93.0499,-29.265,0 1/1:70:0,70:0:0:70:2516:-63.0368,-21.0721,0 chr01 33173713 . 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G A 14591 PASS AB=0.507979;ABP=3.42611;AC=28;AF=0.666667;AN=42;AO=737;CIGAR=1X;DP=1144;DPB=1144;DPRA=1.49595;EPP=1603.39;EPPR=886.8;GTI=0;LEN=1;MEANALT=1;MQM=57.8765;MQMR=59.9705;NS=21;NUMALT=1;ODDS=6.8675;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26377;QR=14500;RO=407;RPL=737;RPP=1603.39;RPPR=886.8;RPR=0;RUN=1;SAF=0;SAP=1603.39;SAR=737;SRF=0;SRP=886.8;SRR=407;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:20,39:20:720:39:1392:-107.79,0,-47.368 0/1:43:22,21:22:776:21:756:-55.3375,0,-57.2179 0/1:62:32,30:32:1148:30:1080:-78.821,0,-84.966 0/1:59:41,18:41:1460:18:648:-40.8911,0,-113.935 0/1:82:28,54:28:1000:54:1940:-150.163,0,-65.6309 0/1:65:30,35:30:1080:35:1260:-94.1385,0,-77.9463 0/1:116:76,40:76:2716:40:1436:-94.5898,0,-209.764 0/0:37:37,0:37:1315:0:0:0,-11.1381,-118.651 0/1:115:57,58:57:2036:58:2072:-150.808,0,-148.894 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:70:0,70:0:0:70:2520:-226.314,-21.0721,0 1/1:40:0,40:0:0:40:1397:-125.999,-12.0412,0 1/1:113:0,113:0:0:113:4038:-363.579,-34.0164,0 1/1:42:0,42:0:0:42:1508:-135.075,-12.6433,0 0/1:37:16,21:16:557:21:752:-56.5151,0,-39.3175 0/1:70:30,40:30:1056:40:1432:-108.02,0,-74.2788 0/1:37:16,21:16:564:21:743:-56.0552,0,-39.9297 1/1:28:0,28:0:0:28:999:-89.8533,-8.42884,0 1/1:38:0,38:0:0:38:1364:-123.049,-11.4391,0 chr01 33213777 . C T 11316.6 PASS AB=0.522727;ABP=5.57659;AC=28;AF=0.666667;AN=42;AO=577;CIGAR=1X;DP=909;DPB=909;DPRA=0.733621;EPP=1255.95;EPPR=721.768;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9861;MQMR=59.9698;NS=21;NUMALT=1;ODDS=7.05428;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20517;QR=11812;RO=331;RPL=577;RPP=1255.95;RPPR=721.768;RPR=0;RUN=1;SAF=0;SAP=1255.95;SAR=577;SRF=0;SRP=721.768;SRR=331;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:34,31:34:1224:31:1097:-79.1114,0,-90.5403 0/1:63:25,38:25:896:38:1364:-104.096,0,-61.9955 0/1:45:28,17:28:1008:17:597:-40.5098,0,-77.49 0/1:57:27,30:27:972:30:1065:-79.001,0,-70.6392 0/1:87:35,52:35:1237:52:1853:-140.858,0,-85.4289 0/1:24:13,11:13:464:11:396:-28.758,0,-34.8728 0/1:65:35,30:35:1260:30:1064:-76.5034,0,-94.1385 0/0:58:58,0:58:2031:0:0:0,-17.4597,-183.057 0/1:23:10,13:10:356:13:453:-34.1759,0,-25.4576 0/1:10:6,4:6:212:4:129:-8.91736,0,-16.4145 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:11:0,11:0:0:11:388:-35.2568,-3.31133,0 1/1:25:0,25:0:0:25:885:-79.9642,-7.52575,0 1/1:45:0,45:0:0:45:1586:-143.025,-13.5464,0 1/1:91:0,91:0:0:91:3249:-292.63,-27.3937,0 1/1:50:0,50:0:0:50:1781:-160.571,-15.0515,0 0/1:43:13,30:13:468:30:1061:-82.8551,0,-29.5154 0/1:61:34,27:34:1220:27:972:-69.4351,0,-91.744 0/1:28:12,16:12:428:16:561:-42.3883,0,-30.43 1/1:29:1,28:1:36:28:1008:-87.4381,-5.1316,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 chr01 33216332 . GTTTTTGA ATTCTTGT,ATTTTTGT 51886.6 PASS AB=0.544056,0.447552;ABP=27.1182,37.1768;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1748,775;CIGAR=1X2M1X3M1X,1X6M1X;DP=2542;DPB=2545.75;DPRA=0.950787,1.54786;EPP=3798.74,1685.9;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.7,3.0625;MQM=46.837,59.9226;MQMR=0;NS=21;NUMALT=2;ODDS=0.933962;PAIRED=0,0;PAIREDR=0;PAO=15,15;PQA=503,503;PQR=0;PRO=0;QA=61518,27425;QR=0;RO=0;RPL=0,0;RPP=3798.74,1685.9;RPPR=0;RPR=1748,775;RUN=1,1;SAF=1748,775;SAP=3798.74,1685.9;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:82:0,49,33:0:0:49,33:1724,1157:-233.196,-94.4421,-79.6916,-139.045,0,-129.111 1/2:127:0,62,63:0:0:62,63:2182,2248:-358.659,-183.279,-164.615,-175.393,0,-156.428 1/2:55:0,21,33:0:0:21,33:739,1163:-154.378,-94.7406,-88.419,-59.6847,0,-49.7507 1/2:234:0,124,110:0:0:124,110:4358,3898:-666.394,-317.549,-280.221,-348.842,0,-315.729 1/2:166:0,111,55:0:0:111,55:3959,1956:-479.127,-159.747,-126.333,-319.734,0,-303.177 1/2:139:0,66,72:0:0:66,72:2322,2528:-393.8,-205.737,-185.869,-188.053,0,-166.379 1/2:166:0,78,88:0:0:78,88:2746,3105:-474.362,-253.152,-229.672,-221.561,0,-195.07 2/2:127:0,0,127:0:0:0,127:0,4473:-402.56,-402.56,-402.56,-38.2308,-38.2308,0 1/2:193:0,90,100:0:0:90,100:3189,3549:-545.713,-289.134,-262.042,-256.551,0,-226.448 1/2:12:0,8,3:0:0:8,3:288,108:-32.1311,-8.81225,-6.40401,-23.3183,0,-22.4152 1/1:12:0,12,0:0:0:12,0:428,0:-38.6586,-3.61236,0,-38.6586,-3.61236,-38.6586 1/1:44:0,44,0:0:0:44,0:1533,0:-137.44,-13.2453,0,-137.44,-13.2453,-137.44 1/1:195:0,192,1:0:0:192,1:6729,32:-596.351,-57.7978,0,-593.773,-55.1849,-593.472 1/1:175:0,175,0:0:0:175,0:6141,0:-545.916,-52.6803,0,-545.916,-52.6803,-545.916 1/1:205:0,202,2:0:0:202,2:7099,72:-631.739,-60.8081,0,-625.864,-54.9447,-625.262 1/1:135:0,134,0:0:0:134,0:4747,0:-420.545,-40.338,0,-420.545,-40.338,-420.545 1/2:82:0,51,31:0:0:51,31:1777,1104:-232.543,-90.2222,-74.8697,-142.557,0,-133.225 1/2:71:0,46,24:0:0:46,24:1599,856:-198.588,-69.6225,-55.7751,-128.806,0,-121.581 1/2:103:0,72,28:0:0:72,28:2548,1000:-286.843,-81.5222,-59.848,-205.312,0,-196.883 1/1:158:0,150,5:0:0:150,5:5247,176:-465.12,-45.1545,0,-450.791,-30.8438,-449.286 1/1:61:0,61,0:0:0:61,0:2163,0:-192.173,-18.3628,0,-192.173,-18.3628,-192.173 chr01 33216349 . A G 78918.5 PASS AB=0.495056;ABP=3.61144;AC=28;AF=0.666667;AN=42;AO=3068;CIGAR=1X;DP=4835;DPB=4835;DPRA=0;EPP=6665.09;EPPR=3829.15;GTI=0;LEN=1;MEANALT=1.04762;MQM=52.4527;MQMR=59.94;NS=21;NUMALT=1;ODDS=3.2794;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=109256;QR=62846;RO=1766;RPL=1743;RPP=126.677;RPPR=37.7145;RPR=1325;RUN=1;SAF=1743;SAP=126.677;SAR=1325;SRF=800;SRP=36.8931;SRR=966;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:243:115,128:115:4087:128:4569:-336.169,0,-294.861 0/1:174:92,82:92:3272:82:2944:-210.259,0,-242.32 0/1:171:98,73:98:3483:73:2601:-182.294,0,-262.204 0/1:329:172,157:172:6144:157:5633:-401.701,0,-454.02 0/1:278:120,158:120:4278:158:5625:-419.084,0,-301.477 0/1:370:232,138:232:8264:138:4859:-324.947,0,-632.381 0/1:289:156,133:156:5563:133:4738:-337.161,0,-413.478 0/0:329:327,2:327:11589:2:72:0,-92.207,-1036.04 0/1:437:221,216:221:7857:216:7648:-552.79,0,-575.607 0/1:28:14,14:14:504:14:504:-37.089,0,-37.2693 1/1:14:0,14:0:0:14:504:-45.4857,-4.21442,0 1/1:73:0,73:0:0:73:2597:-232.881,-21.9752,0 1/1:260:1,259:1:36:259:9248:-816.991,-74.6695,0 1/1:304:0,304:0:0:304:10730:-957.887,-91.5131,0 1/1:382:3,379:3:108:379:13537:-1201.04,-105.302,0 1/1:218:0,218:0:0:218:7785:-693.675,-65.6245,0 0/1:156:81,75:81:2897:75:2658:-190.204,0,-214.003 0/1:161:64,97:64:2268:97:3448:-260.686,0,-155.915 0/1:196:65,131:65:2316:131:4708:-361.777,0,-149.699 1/1:281:5,275:5:180:275:9784:-855.312,-68.0941,0 1/1:142:0,142:0:0:142:5064:-453.008,-42.7463,0 chr01 33216372 . AG GA,GG 133226 PASS AB=0.494827,0.502676;ABP=3.66182,3.18461;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3029,1747;CIGAR=2X,1X1M;DP=4786;DPB=4788.5;DPRA=0,1.8775;EPP=507.647,156.146;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.19048,2.47059;MQM=52.5513,59.9525;MQMR=60;NS=21;NUMALT=2;ODDS=3.17193;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=86,86;PQR=0;PRO=0;QA=106003,62076;QR=36;RO=1;RPL=2785,1475;RPP=4631.77,1801.85;RPPR=5.18177;RPR=244,272;RUN=1,1;SAF=1690,777;SAP=91.3324,49.3098;SAR=1339,970;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:246:1,129,116:1:36:129,116:4551,4114:-700.948,-332.228,-296.333,-366.077,0,-334.095 1/2:168:0,79,89:0:0:79,89:2723,3160:-476.653,-257.833,-234.052,-219.167,0,-192.375 1/2:168:0,73,95:0:0:73,95:2605,3411:-490.446,-278.605,-256.63,-212.198,0,-183.6 1/2:323:0,155,168:0:0:155,168:5387,5971:-919.562,-486.864,-440.205,-432.988,0,-382.415 1/2:275:0,156,119:0:0:156,119:5472,4209:-785.415,-343.157,-296.196,-442.609,0,-406.787 1/2:365:0,131,232:0:0:131,232:4643,8277:-1052.09,-674.835,-635.4,-377.345,0,-307.506 1/2:283:0,128,153:0:0:128,153:4508,5427:-806.881,-441.935,-403.403,-364.997,0,-318.94 2/2:331:0,2,329:0:0:2,329:72,11629:-1046.09,-1040.22,-1039.61,-99.0389,-92.8343,0 1/2:438:0,220,217:0:0:220,217:7764,7738:-1259.34,-630.892,-564.665,-628.563,0,-563.24 1/2:28:0,14,14:0:0:14,14:504,491:-81.2556,-40.3067,-36.0923,-41.3034,0,-37.089 1/1:14:0,14,0:0:0:14,0:489,0:-44.1731,-4.21442,0,-44.1731,-4.21442,-44.1731 1/1:71:0,71,0:0:0:71,0:2455,0:-220.435,-21.3731,0,-220.435,-21.3731,-220.435 1/1:252:0,250,1:0:0:250,1:8710,32:-774.449,-75.2575,0,-771.871,-72.6441,-771.57 1/1:306:0,306,0:0:0:306,0:10661,0:-952.965,-92.1152,0,-952.965,-92.1152,-952.965 1/1:377:0,374,2:0:0:374,2:13072,72:-1169.47,-112.585,0,-1163.6,-106.751,-1163 1/1:213:0,212,1:0:0:212,1:7429,36:-662.893,-63.8184,0,-659.955,-60.5211,-659.654 1/2:156:0,76,80:0:0:76,80:2607,2844:-441.665,-232.114,-209.236,-209.898,0,-185.815 1/2:160:0,95,64:0:0:95,64:3324,2277:-454.98,-185.674,-157.076,-269.408,0,-250.142 1/2:193:0,131,62:0:0:131,62:4601,2208:-552.228,-180.321,-140.887,-372.261,0,-353.597 1/1:277:0,271,5:0:0:271,5:9393,180:-837.462,-81.5791,0,-822.774,-66.892,-821.269 1/1:142:0,142,0:0:0:142,0:5033,0:-450.475,-42.7463,0,-450.475,-42.7463,-450.475 chr01 33216454 . ACAA ACAG 9889.01 PASS AB=0.475687;ABP=5.43886;AC=28;AF=0.666667;AN=42;AO=499;CIGAR=3M1X;DP=786;DPB=786;DPRA=1.04167;EPP=1086.58;EPPR=617.537;GTI=0;LEN=1;MEANALT=1.1;MQM=59.996;MQMR=60;NS=21;NUMALT=1;ODDS=4.82567;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17831;QR=10102;RO=283;RPL=0;RPP=1086.58;RPPR=617.537;RPR=499;RUN=1;SAF=499;SAP=1086.58;SAR=0;SRF=283;SRP=617.537;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:23,16:23:814:16:561:-39.077,0,-61.8411 0/1:21:13,8:13:463:8:288:-19.9458,0,-35.6857 0/1:40:13,27:13:464:27:972:-75.7567,0,-30.0563 0/1:51:36,15:36:1291:15:536:-33.2223,0,-101.141 0/1:42:18,24:18:641:24:849:-64.0846,0,-45.3767 0/1:11:6,5:6:215:5:180:-13.2407,0,-16.3878 0/1:27:14,13:14:503:13:456:-33.2445,0,-37.4799 0/0:36:36,0:36:1284:0:0:0,-10.8371,-115.863 0/1:55:32,20:32:1146:20:720:-49.1154,0,-87.4362 0/1:9:5,4:5:175:4:144:-10.6043,0,-13.3841 1/1:4:0,4:0:0:4:136:-12.5755,-1.20412,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 1/1:50:0,50:0:0:50:1800:-162.282,-15.0515,0 1/1:78:0,78:0:0:78:2795:-251.79,-23.4803,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:48:16,32:16:573:32:1152:-89.5407,0,-37.4546 0/1:82:48,34:48:1711:34:1216:-85.0621,0,-129.591 0/1:48:21,27:21:750:27:964:-72.6274,0,-53.3765 1/1:55:2,52:2:72:52:1834:-158.5,-9.77873,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 chr01 33217033 . ATTAG ATTTAG 8003.68 PASS AB=0.457818;ABP=16.7499;AC=14;AF=0.333333;AN=42;AO=475;CIGAR=1M1I4M;DP=1464;DPB=1559.2;DPRA=1.16158;EPP=1025.79;EPPR=2115.89;GTI=0;LEN=1;MEANALT=1.46154;MQM=59.4042;MQMR=59.9745;NS=21;NUMALT=1;ODDS=17.9812;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16806;QR=34462;RO=981;RPL=474;RPP=1025.79;RPPR=2115.89;RPR=1;RUN=1;SAF=0;SAP=1034.46;SAR=475;SRF=0;SRP=2133.22;SRR=981;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:36,59:36:1223:59:2080:-158.836,0,-81.7695 0/1:44:21,23:21:740:23:820:-60.8772,0,-53.6771 0/1:38:26,12:26:902:12:417:-26.393,0,-70.0521 0/1:48:31,17:31:1091:17:593:-39.2315,0,-84.0498 0/1:186:100,85:100:3543:85:2963:-210.524,0,-263.091 0/1:38:22,15:22:761:15:536:-37.0779,0,-57.3102 0/1:122:74,48:74:2615:48:1724:-118.705,0,-198.873 1/1:68:0,68:0:0:68:2410:-217.122,-20.47,0 0/1:124:54,68:54:1926:68:2417:-180.719,0,-136.609 0/1:13:7,6:7:249:6:216:-15.8771,0,-18.8423 0/0:17:17,0:17:601:0:0:0,-5.11751,-54.4198 0/0:23:22,0:22:779:0:0:0,-6.62266,-70.0727 0/0:96:96,0:96:3413:0:0:0,-28.8989,-307.387 0/0:77:77,0:77:2655:0:0:0,-23.1793,-239.188 0/0:165:164,0:164:5741:0:0:0,-49.3689,-516.458 0/0:48:48,0:48:1683:0:0:0,-14.4494,-151.754 0/1:68:37,30:37:1307:30:1065:-75.6135,0,-97.4026 0/1:59:31,27:31:1090:27:972:-69.9854,0,-80.6269 0/1:54:37,17:37:1311:17:593:-37.4253,0,-102.033 0/0:37:37,0:37:1304:0:0:0,-11.1381,-117.661 0/0:44:44,0:44:1528:0:0:0,-13.2453,-137.809 chr01 33255559 . C T 18621.2 PASS AB=0.567921;ABP=27.4936;AC=30;AF=0.714286;AN=42;AO=889;CIGAR=1X;DP=1262;DPB=1262;DPRA=0.53972;EPP=1907.48;EPPR=812.97;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.19914;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31708;QR=13282;RO=373;RPL=886;RPP=1907.48;RPPR=812.97;RPR=3;RUN=1;SAF=889;SAP=1933.45;SAR=0;SRF=373;SRP=812.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:23,40:23:807:40:1436:-110.573,0,-53.9843 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/1:59:31,28:31:1108:28:1008:-73.2756,0,-82.2702 0/1:56:22,34:22:792:34:1216:-92.8889,0,-54.748 0/1:102:59,43:59:2116:43:1536:-107.828,0,-160.004 0/1:23:10,13:10:360:13:464:-35.1738,0,-25.8206 0/1:88:36,52:36:1288:52:1853:-140.557,0,-89.7329 0/0:107:107,0:107:3808:0:0:0,-32.2102,-342.917 1/1:116:0,116:0:0:116:4142:-372.963,-34.9195,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:19:0,19:0:0:19:679:-61.4388,-5.71957,0 1/1:89:0,89:0:0:89:3163:-284.896,-26.7917,0 1/1:96:0,96:0:0:96:3444:-310.172,-28.8989,0 1/1:64:0,64:0:0:64:2276:-205.101,-19.2659,0 1/1:17:0,17:0:0:17:597:-54.0561,-5.11751,0 0/1:12:3,9:3:104:9:320:-25.53,0,-6.09045 0/1:116:48,68:48:1702:68:2427:-183.767,0,-118.545 0/1:77:28,49:28:981:49:1722:-132.083,0,-65.4217 1/1:68:2,66:2:72:66:2355:-205.372,-13.6333,0 1/1:58:0,58:0:0:58:2062:-185.85,-17.4597,0 chr01 33272869 . T C 11313.6 PASS AB=0.463582;ABP=16.4541;AC=12;AF=0.285714;AN=42;AO=649;CIGAR=1X;DP=2027;DPB=2027;DPRA=1.47911;EPP=1412.3;EPPR=2993.13;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.4823;MQMR=59.9753;NS=21;NUMALT=1;ODDS=7.50274;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23271;QR=49225;RO=1377;RPL=0;RPP=1412.3;RPPR=2993.13;RPR=649;RUN=1;SAF=0;SAP=1412.3;SAR=649;SRF=0;SRP=2993.13;SRR=1377;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:82,75:82:2948:75:2696:-195.563,0,-218.281 0/1:103:56,47:56:2008:47:1684:-120.771,0,-149.987 0/1:139:67,72:67:2385:72:2580:-190.483,0,-173.063 0/1:116:50,66:50:1796:66:2376:-179.164,0,-127.003 0/1:147:86,61:86:3076:61:2177:-151.943,0,-232.807 0/1:132:77,55:77:2752:55:1946:-134.61,0,-208.186 0/1:114:68,46:68:2440:46:1656:-114.958,0,-185.538 1/1:107:0,107:0:0:107:3844:-346.142,-32.2102,0 0/0:147:147,0:147:5226:0:0:0,-44.2514,-470.476 0/0:14:14,0:14:492:0:0:0,-4.21442,-44.6123 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/0:109:109,0:109:3889:0:0:0,-32.8123,-350.204 0/0:156:156,0:156:5563:0:0:0,-46.9607,-500.791 0/0:85:85,0:85:3041:0:0:0,-25.5875,-273.904 0/0:88:88,0:88:3152:0:0:0,-26.4906,-283.905 0/1:79:48,31:48:1724:31:1112:-76.5993,0,-131.664 0/1:113:44,68:44:1584:68:2444:-185.6,0,-108.776 0/1:67:47,20:47:1676:20:720:-44.9598,0,-130.955 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/0:71:70,1:70:2493:1:36:0,-17.7749,-221.023 chr01 33272882 . A T 11242.5 PASS AB=0.46441;ABP=15.6848;AC=12;AF=0.285714;AN=42;AO=640;CIGAR=1X;DP=2015;DPB=2015;DPRA=1.50756;EPP=1358.23;EPPR=2900.39;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.4844;MQMR=59.9927;NS=21;NUMALT=1;ODDS=7.34823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22792;QR=49216;RO=1374;RPL=636;RPP=1358.23;RPPR=2900.39;RPR=4;RUN=1;SAF=0;SAP=1392.75;SAR=640;SRF=0;SRP=2986.61;SRR=1374;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:80,74:80:2872:74:2660:-192.886,0,-211.998 0/1:98:55,43:55:1972:43:1540:-109.339,0,-148.254 0/1:135:68,67:68:2427:67:2408:-176.195,0,-178.046 0/1:115:49,66:49:1744:66:2341:-176.316,0,-122.626 0/1:150:86,64:86:3092:64:2300:-162.087,0,-233.352 0/1:129:77,52:77:2764:52:1835:-126.056,0,-210.168 0/1:117:69,48:69:2484:48:1716:-119.452,0,-188.592 1/1:105:0,105:0:0:105:3699:-333.101,-31.6082,0 0/0:153:153,0:153:5453:0:0:0,-46.0576,-490.9 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:35:35,0:35:1247:0:0:0,-10.536,-112.534 0/0:108:108,0:108:3876:0:0:0,-32.5112,-349.034 0/0:155:155,0:155:5564:0:0:0,-46.6596,-500.882 0/0:87:87,0:87:3116:0:0:0,-26.1896,-280.653 0/0:90:90,0:90:3220:0:0:0,-27.0927,-290.023 0/1:77:47,30:47:1683:30:1060:-72.5297,0,-128.577 0/1:113:42,71:42:1508:71:2513:-192.33,0,-101.998 0/1:63:43,20:43:1531:20:720:-46.1639,0,-119.117 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/0:70:70,0:70:2507:0:0:0,-21.0721,-225.882 chr01 33272885 . C G 28366.1 PASS AB=0.534586;ABP=15.1769;AC=30;AF=0.714286;AN=42;AO=1391;CIGAR=1X;DP=2045;DPB=2045;DPRA=0.896759;EPP=3023.53;EPPR=1423.15;GTI=0;LEN=1;MEANALT=1;MQM=59.982;MQMR=59.5321;NS=21;NUMALT=1;ODDS=7.57715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49635;QR=23414;RO=654;RPL=1391;RPP=3023.53;RPPR=1423.15;RPR=0;RUN=1;SAF=0;SAP=3023.53;SAR=1391;SRF=0;SRP=1423.15;SRR=654;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:76,81:76:2719:81:2896:-213.615,0,-197.632 0/1:103:47,56:47:1669:56:1998:-149.086,0,-119.419 0/1:138:70,68:70:2512:68:2440:-178.313,0,-184.665 0/1:115:67,48:67:2408:48:1716:-120.107,0,-182.344 0/1:152:63,89:63:2245:89:3165:-239.307,0,-156.528 0/1:132:54,78:54:1936:78:2783:-210.975,0,-134.734 0/1:116:47,69:47:1684:69:2475:-188.083,0,-116.875 0/0:108:108,0:108:3869:0:0:0,-32.5112,-348.392 1/1:152:0,152:0:0:152:5421:-488.02,-45.7566,0 1/1:14:0,14:0:0:14:495:-44.883,-4.21442,0 1/1:14:0,14:0:0:14:495:-44.883,-4.21442,0 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 1/1:110:0,110:0:0:110:3936:-354.432,-33.1133,0 1/1:155:0,155:0:0:155:5546:-499.263,-46.6597,0 1/1:89:0,89:0:0:89:3144:-283.181,-26.7917,0 1/1:90:1,89:1:36:89:3186:-283.366,-23.4944,0 0/1:77:31,46:31:1116:46:1637:-124.437,0,-77.5617 0/1:115:70,45:70:2504:45:1607:-110.301,0,-190.454 0/1:66:20,46:20:716:46:1627:-126.848,0,-44.8997 1/1:32:0,32:0:0:32:1144:-103.27,-9.63296,0 1/1:72:0,72:0:0:72:2564:-231.008,-21.6742,0 chr01 33286630 . C G 27351.4 PASS AB=0.528846;ABP=10.5269;AC=30;AF=0.714286;AN=42;AO=1356;CIGAR=1X;DP=1902;DPB=1902;DPRA=1.64821;EPP=2947.53;EPPR=1188.63;GTI=0;LEN=1;MEANALT=1;MQM=59.9661;MQMR=59.9963;NS=21;NUMALT=1;ODDS=8.02369;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47667;QR=19481;RO=546;RPL=0;RPP=2947.53;RPPR=1188.63;RPR=1356;RUN=1;SAF=0;SAP=2947.53;SAR=1356;SRF=0;SRP=1188.63;SRR=546;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:42,36:42:1496:36:1284:-92.3831,0,-111.454 0/1:64:30,34:30:1072:34:1189:-88.048,0,-77.5265 0/1:89:46,43:46:1648:43:1493:-107.869,0,-121.817 0/1:69:32,37:32:1135:37:1324:-98.691,0,-81.687 0/1:287:122,165:122:4351:165:5769:-432.933,0,-305.37 0/1:72:30,42:30:1059:42:1469:-110.829,0,-73.9463 0/1:100:35,65:35:1238:65:2274:-174.182,0,-81.6199 0/0:56:56,0:56:1995:0:0:0,-16.8577,-179.822 1/1:176:0,176:0:0:176:6155:-554.057,-52.9813,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:53:0,53:0:0:53:1850:-166.776,-15.9546,0 1/1:124:0,124:0:0:124:4361:-392.666,-37.3277,0 1/1:63:0,63:0:0:63:2199:-198.171,-18.9649,0 1/1:201:0,201:0:0:201:7092:-638.346,-60.507,0 1/1:55:0,55:0:0:55:1959:-176.585,-16.5567,0 0/1:57:34,23:34:1220:23:797:-54.8872,0,-92.9481 0/1:165:92,73:92:3304:73:2569:-181.788,0,-247.908 0/1:59:27,32:27:963:32:1125:-83.7953,0,-69.2252 1/1:93:0,93:0:0:93:3302:-297.399,-27.9958,0 1/1:22:0,22:0:0:22:776:-70.1622,-6.62266,0 chr01 33294129 . TGTTTTTAG CGTTATTAA,TGTTATTAA 69273.9 PASS AB=0.501148,0.491966;ABP=3.02525,3.74298;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1809,786;CIGAR=1X3M1X3M1X,4M1X3M1X;DP=2616;DPB=2616.11;DPRA=0.858333,0.987821;EPP=3931.2,1709.79;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.5,2.75;MQM=54.4876,59.7634;MQMR=0;NS=21;NUMALT=2;ODDS=10.4892;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=63125,27437;QR=0;RO=0;RPL=865,394;RPP=10.5018,3.02135;RPPR=0;RPR=944,392;RUN=1,1;SAF=865,394;SAP=10.5018,3.02135;SAR=944,392;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:137:0,72,62:0:0:72,62:2534,2193:-384.437,-178.648,-156.974,-205.854,0,-187.19 1/2:102:0,51,51:0:0:51,51:1776,1766:-287.98,-143.712,-128.359,-144.615,0,-129.263 1/2:67:0,32,35:0:0:32,35:1122,1187:-187.673,-96.5764,-86.9434,-91.4416,0,-80.9056 1/2:143:0,69,73:0:0:69,73:2386,2541:-400.021,-206.627,-185.855,-193.411,0,-171.436 1/2:246:0,117,126:0:0:117,126:4083,4388:-686.684,-356.865,-321.644,-329.878,0,-291.948 1/2:136:0,75,61:0:0:75,61:2603,2126:-384.603,-173.246,-150.669,-211.705,0,-193.342 1/2:186:0,96,90:0:0:96,90:3344,3135:-525.815,-255.257,-226.359,-270.905,0,-243.812 2/2:144:0,0,142:0:0:0,142:0,4950:-445.365,-445.365,-445.365,-42.7463,-42.7463,0 1/1:189:0,188,0:0:0:188,0:6590,0:-589.816,-56.5936,0,-589.816,-56.5936,-589.816 1/1:21:0,21,0:0:0:21,0:738,0:-66.5516,-6.32163,0,-66.5516,-6.32163,-66.5516 1/1:13:0,13,0:0:0:13,0:450,0:-40.7075,-3.91339,0,-40.7075,-3.91339,-40.7075 1/1:36:0,35,1:0:0:35,1:1218,36:-109.149,-10.5361,0,-106.212,-7.23881,-105.911 1/1:220:0,218,0:0:0:218,0:7629,0:-684.968,-65.6245,0,-684.968,-65.6245,-684.968 1/1:161:0,158,0:0:0:158,0:5452,0:-489.091,-47.5627,0,-489.091,-47.5627,-489.091 1/1:176:0,175,0:0:0:175,0:6129,0:-549.469,-52.6803,0,-549.469,-52.6803,-549.469 1/1:102:0,101,0:0:0:101,0:3499,0:-313.74,-30.404,0,-313.74,-30.404,-313.74 1/2:90:0,41,49:0:0:41,49:1425,1709:-254.995,-139.34,-126.998,-116.003,0,-101.252 1/2:90:0,42,48:0:0:42,48:1481,1705:-259.681,-139.287,-126.644,-120.748,0,-106.298 1/2:110:0,60,48:0:0:60,48:2110,1701:-309.735,-138.578,-120.516,-171.161,0,-156.711 1/1:162:0,160,0:0:0:160,0:5610,0:-503.523,-48.1648,0,-503.523,-48.1648,-503.523 1/1:85:0,85,0:0:0:85,0:2946,0:-264.881,-25.5876,0,-264.881,-25.5876,-264.881 chr01 33304061 . C T 11938.7 PASS AB=0.523717;ABP=8.05745;AC=12;AF=0.285714;AN=42;AO=662;CIGAR=1X;DP=2173;DPB=2173;DPRA=1.28719;EPP=1440.53;EPPR=3284.11;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.53926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23607;QR=54076;RO=1511;RPL=0;RPP=1440.53;RPPR=3284.11;RPR=662;RUN=1;SAF=662;SAP=1440.53;SAR=0;SRF=1511;SRP=3284.11;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:49,65:49:1744:65:2324:-175.103,0,-122.927 0/1:45:28,17:28:1008:17:601:-40.8721,0,-77.49 0/1:89:31,58:31:1112:58:2064:-159.24,0,-73.5997 0/1:110:47,63:47:1680:63:2248:-169.47,0,-118.374 0/1:162:81,81:81:2912:81:2895:-212.02,0,-213.548 0/1:103:49,54:49:1760:54:1925:-142.519,0,-127.678 0/1:245:106,139:106:3788:139:4953:-372.168,0,-267.367 1/1:120:0,120:0:0:120:4289:-386.186,-36.1236,0 0/0:277:277,0:277:9920:0:0:0,-83.3853,-892.74 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/0:147:147,0:147:5236:0:0:0,-44.2514,-471.381 0/0:88:88,0:88:3144:0:0:0,-26.4906,-283.186 0/0:220:219,1:219:7848:1:36:0,-62.6283,-702.748 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 0/1:45:18,27:18:636:27:956:-72.8094,0,-44.0217 0/1:60:34,26:34:1208:26:928:-65.7765,0,-90.9643 0/1:60:49,11:49:1760:11:388:-17.1956,0,-140.622 0/0:149:149,0:149:5336:0:0:0,-44.8535,-480.373 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 chr01 33335506 . 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G A 5565.58 PASS AB=0.512977;ABP=3.9684;AC=9;AF=0.214286;AN=42;AO=387;CIGAR=1X;DP=1476;DPB=1476;DPRA=1.43265;EPP=834.707;EPPR=2363.4;GTI=1;LEN=1;MEANALT=1.18182;MQM=35.186;MQMR=28.804;NS=21;NUMALT=1;ODDS=1.53645;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13858;QR=38751;RO=1087;RPL=2;RPP=826.088;RPPR=2302.99;RPR=385;RUN=1;SAF=1;SAP=834.707;SAR=386;SRF=7;SRP=2302.99;SRR=1080;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:34,34:34:1224:34:1206:-78.3811,0,-67.2801 0/0:9:9,0:9:320:0:0:0,-2.70927,-22.8241 0/1:86:45,41:45:1608:41:1468:-94.3111,0,-85.0913 0/1:129:49,80:49:1760:80:2867:-194.525,0,-83.6057 0/1:202:87,114:87:3114:114:4092:-271.551,0,-160.389 0/0:34:33,1:33:1180:1:36:0,-7.76811,-82.3266 0/0:51:50,1:50:1792:1:36:0,-11.7543,-124.046 1/1:49:0,48:0:0:48:1722:-135.757,-14.4494,0 0/0:172:172,0:172:6154:0:0:0,-51.7772,-432.794 0/0:4:4,0:4:144:0:0:0,-1.20412,-10.438 0/0:4:4,0:4:144:0:0:0,-1.20412,-9.93645 0/0:16:16,0:16:559:0:0:0,-4.81648,-39.5032 0/0:114:113,1:113:4019:1:36:0,-31.0184,-279.185 0/0:111:111,0:111:3930:0:0:0,-33.4143,-272.723 0/0:103:103,0:103:3686:0:0:0,-31.0061,-256.511 0/0:34:34,0:34:1220:0:0:0,-10.235,-85.6463 0/1:54:31,23:31:1097:23:815:-53.0156,0,-61.9382 0/1:48:22,26:22:770:26:932:-59.3025,0,-41.307 0/1:68:50,18:50:1755:18:648:-32.5505,0,-104.057 0/0:82:82,0:82:2916:0:0:0,-24.6845,-206.847 0/0:38:38,0:38:1359:0:0:0,-11.4391,-96.4623 chr01 33342275 . GAAAGT GAAGT 5230.16 PASS AB=0.502311;ABP=3.04041;AC=9;AF=0.214286;AN=42;AO=375;CIGAR=1M1D4M;DP=1467;DPB=1404.33;DPRA=1.49437;EPP=808.65;EPPR=2335.3;GTI=1;LEN=1;MEANALT=1.2;MQM=35.192;MQMR=28.8284;NS=21;NUMALT=1;ODDS=0.285168;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12909;QR=38291;RO=1090;RPL=2;RPP=800.033;RPPR=2275.33;RPR=373;RUN=1;SAF=1;SAP=808.65;SAR=374;SRF=7;SRP=2309.5;SRR=1083;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:34,35:34:1198:35:1211:-79.9523,0,-64.7289 0/0:9:9,0:9:303:0:0:0,-2.70927,-22.0949 0/1:84:44,40:44:1545:40:1412:-91.4228,0,-83.6024 0/1:125:49,75:49:1731:75:2619:-179.312,0,-84.2207 0/1:205:91,114:91:3194:114:3900:-261.375,0,-167.299 0/0:35:34,1:34:1192:1:25:0,-8.33639,-84.4369 0/0:50:50,0:50:1783:0:0:0,-15.0515,-127.43 1/1:47:0,47:0:0:47:1566:-128.755,-14.1484,0 0/0:172:172,0:172:6003:0:0:0,-51.7772,-430.511 0/0:4:4,0:4:141:0:0:0,-1.20412,-10.3838 0/0:4:4,0:4:139:0:0:0,-1.20412,-9.89718 0/0:16:16,0:16:548:0:0:0,-4.81648,-39.6147 0/0:114:113,1:113:4008:1:36:0,-31.0184,-280.009 0/0:111:111,0:111:3884:0:0:0,-33.4143,-272.179 0/0:102:102,0:102:3597:0:0:0,-30.7051,-254.124 0/0:33:33,0:33:1163:0:0:0,-9.93399,-83.6049 0/1:53:31,22:31:1092:22:772:-50.2576,0,-62.3014 0/1:46:22,24:22:763:24:801:-52.327,0,-41.7233 0/1:67:50,16:50:1726:16:567:-27.1271,0,-103.829 0/0:82:82,0:82:2899:0:0:0,-24.6845,-206.963 0/0:39:39,0:39:1382:0:0:0,-11.7402,-98.776 chr01 33342283 . TTT CTT,CTA 20946.4 PASS AB=0.472222,0.524691;ABP=7.35324,6.44176;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1058,392;CIGAR=1X2M,1X1M1X;DP=1453;DPB=1453;DPRA=1.403,1.53311;EPP=2257.2,845.564;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.6,2.1;MQM=29.0643,35.0587;MQMR=0;NS=21;NUMALT=2;ODDS=1.97047;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30616,13660;QR=0;RO=0;RPL=1057,392;RPP=2291.75,854.227;RPPR=0;RPR=1,0;RUN=1,1;SAF=4,1;SAP=2265.82,845.564;SAR=1054,391;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:68:0,32,36:0:0:32,36:932,1242:-158.363,-92.5372,-82.9043,-66.1144,0,-55.2773 1/1:9:0,9,0:0:0:9,0:258,0:-21.0407,-2.70927,0,-21.0407,-2.70927,-21.0407 1/2:83:0,42,41:0:0:42,41:1212,1430:-190.844,-105.806,-93.1629,-85.3276,0,-72.9853 1/2:128:0,47,80:0:0:47,80:1351,2791:-299.732,-204.82,-190.672,-95.0108,0,-70.9284 1/2:201:0,84,116:0:0:84,116:2446,4040:-467.084,-294.808,-269.522,-172.204,0,-137.284 1/1:35:0,34,1:0:0:34,1:990,34:-80.1375,-10.235,0,-78.2352,-8.08739,-77.9342 1/1:49:0,49,0:0:0:49,0:1445,0:-117.363,-14.7505,0,-117.363,-14.7505,-117.363 2/2:50:0,0,50:0:0:0,50:0,1705:-137.488,-137.488,-137.488,-15.0515,-15.0515,0 1/1:171:0,171,0:0:0:171,0:4928,0:-398.116,-51.4761,0,-398.116,-51.4761,-398.116 1/1:4:0,4,0:0:0:4,0:116,0:-9.6172,-1.20412,0,-9.6172,-1.20412,-9.6172 1/1:4:0,4,0:0:0:4,0:110,0:-9.06296,-1.20412,0,-9.06296,-1.20412,-9.06296 1/1:15:0,15,0:0:0:15,0:437,0:-35.531,-4.51545,0,-35.531,-4.51545,-35.531 1/1:113:0,112,1:0:0:112,1:3222,36:-259.809,-33.7154,0,-257.14,-30.7174,-256.839 1/1:102:0,102,0:0:0:102,0:2957,0:-238.994,-30.7051,0,-238.994,-30.7051,-238.994 1/1:100:0,99,0:0:0:99,0:2857,0:-229.66,-29.802,0,-229.66,-29.802,-229.66 1/1:33:0,33,0:0:0:33,0:958,0:-77.5478,-9.93399,0,-77.5478,-9.93399,-77.5478 1/2:54:0,31,23:0:0:31,23:899,813:-125.305,-62.1595,-52.8276,-63.4469,0,-56.5232 1/2:48:0,22,26:0:0:22,26:635,929:-110.549,-65.7873,-59.1647,-45.0455,0,-37.2187 1/2:66:0,48,18:0:0:48,18:1387,640:-144.809,-47.1985,-32.7491,-97.9159,0,-92.4973 1/1:81:0,81,0:0:0:81,0:2345,0:-189.782,-24.3834,0,-189.782,-24.3834,-189.782 1/1:39:0,39,0:0:0:39,0:1131,0:-91.4934,-11.7402,0,-91.4934,-11.7402,-91.4934 chr01 33342288 . TGGGGA CAGGGG,TGGGGG 22602.9 PASS AB=0.482335,0.505376;ABP=4.77483,3.17374;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1080,378;CIGAR=2X3M1X,5M1X;DP=1470;DPB=1470.67;DPRA=1.48125,1.64992;EPP=2348.2,823.827;EPPR=0;GTI=1;LEN=6,1;MEANALT=1.9,2.77778;MQM=28.788,35.2143;MQMR=0;NS=21;NUMALT=2;ODDS=1.70747;PAIRED=0,0;PAIREDR=0;PAO=4,0;PQA=144,0;PQR=0;PRO=0;QA=37739,13521;QR=0;RO=0;RPL=1080,378;RPP=2348.2,823.827;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2348.2,823.827;SAR=1080,378;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:68:0,34,33:0:0:34,33:1181,1176:-162.055,-87.1807,-76.9457,-74.9532,0,-65.0192 1/1:9:0,9,0:0:0:9,0:309,0:-22.5637,-2.70927,0,-22.5637,-2.70927,-22.5637 1/2:84:0,43,41:0:0:43,41:1513,1468:-201.123,-107.678,-94.7337,-93.745,0,-81.4028 1/2:127:0,48,77:0:0:48,77:1682,2764:-306.869,-202.616,-188.167,-104.282,0,-81.1025 1/2:204:0,88,113:0:0:88,113:3079,4029:-487.438,-294.037,-267.547,-193.457,0,-159.441 1/1:30:0,30,0:0:0:30,0:1039,0:-74.8307,-9.0309,0,-74.8307,-9.0309,-74.8307 1/1:50:0,50,0:0:0:50,0:1764,0:-127.112,-15.0515,0,-127.112,-15.0515,-127.112 2/2:48:0,0,48:0:0:0,48:0,1716:-135.586,-135.586,-135.586,-14.4494,-14.4494,0 1/1:174:0,174,0:0:0:174,0:6071,0:-433.85,-52.3792,0,-433.85,-52.3792,-433.85 1/1:4:0,4,0:0:0:4,0:138,0:-10.2978,-1.20412,0,-10.2978,-1.20412,-10.2978 1/1:4:0,3,0:0:0:3,0:106,0:-7.62414,-0.90309,0,-7.62414,-0.90309,-7.62414 1/1:16:0,16,0:0:0:16,0:539,0:-38.9746,-4.81648,0,-38.9746,-4.81648,-38.9746 1/1:114:0,112,1:0:0:112,1:3917,36:-279.213,-33.7154,0,-276.544,-31.0234,-276.243 1/1:111:0,109,0:0:0:109,0:3829,0:-269.97,-32.8123,0,-269.97,-32.8123,-269.97 1/1:103:0,103,0:0:0:103,0:3616,0:-255.09,-31.0061,0,-255.09,-31.0061,-255.09 1/1:34:0,34,0:0:0:34,0:1180,0:-84.7076,-10.235,0,-84.7076,-10.235,-84.7076 1/2:53:0,30,22:0:0:30,22:1061,792:-126.516,-59.847,-50.8161,-66.7059,0,-60.0833 1/2:47:0,22,25:0:0:22,25:756,896:-112.073,-63.4875,-56.8648,-48.8807,0,-41.355 1/2:68:0,49,18:0:0:49,18:1689,644:-154.817,-47.2021,-32.4517,-107.747,0,-102.328 1/1:83:0,83,0:0:0:83,0:2909,0:-207.894,-24.9855,0,-207.894,-24.9855,-207.894 1/1:39:0,39,0:0:0:39,0:1361,0:-98.2416,-11.7402,0,-98.2416,-11.7402,-98.2416 chr01 33345350 . C T 39943 PASS AB=0.556596;ABP=38.6506;AC=30;AF=0.714286;AN=42;AO=1906;CIGAR=1X;DP=2573;DPB=2573;DPRA=1.34837;EPP=4141.84;EPPR=1449.21;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6726;MQMR=59.9354;NS=21;NUMALT=1;ODDS=21.0104;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68216;QR=23828;RO=666;RPL=0;RPP=4141.84;RPPR=1449.21;RPR=1906;RUN=1;SAF=1906;SAP=4141.84;SAR=0;SRF=666;SRP=1449.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:220:97,123:97:3472:123:4392:-329.216,0,-246.465 0/1:88:34,54:34:1216:54:1935:-147.935,0,-83.2559 0/1:107:60,47:60:2144:47:1669:-118.283,0,-161.018 0/1:113:46,67:46:1644:67:2396:-181.834,0,-114.232 0/1:282:141,141:141:5056:141:5041:-368.935,0,-370.291 0/1:87:36,51:36:1284:51:1832:-138.949,0,-89.6738 0/1:140:42,98:42:1512:98:3508:-273.74,0,-94.2223 0/0:92:92,0:92:3269:0:0:0,-27.6948,-294.43 1/1:327:0,327:0:0:327:11673:-1050.32,-98.4368,0 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:32:1,31:1:36:31:1112:-96.7869,-6.03469,0 1/1:136:0,136:0:0:136:4888:-440.045,-40.9401,0 1/1:150:0,149:0:0:149:5329:-479.336,-44.8535,0 1/1:184:0,184:0:0:184:6601:-594.103,-55.3895,0 1/1:143:2,141:2:72:141:5057:-448.425,-36.2106,0 0/1:67:35,32:35:1260:32:1144:-83.1005,0,-92.9085 0/1:98:44,54:44:1571:54:1934:-143.945,0,-112.18 0/1:79:33,46:33:1184:46:1652:-125.182,0,-83.0869 1/1:133:3,130:3:108:130:4649:-407.568,-29.9618,0 1/1:63:0,63:0:0:63:2252:-202.148,-18.9649,0 chr01 33345359 . AGAAC GGAAT 39169.5 PASS AB=0.553338;ABP=35.2091;AC=30;AF=0.714286;AN=42;AO=1931;CIGAR=1X3M1X;DP=2621;DPB=2622.8;DPRA=1.28724;EPP=4196.12;EPPR=1432.3;GTI=0;LEN=5;MEANALT=1.4;MQM=59.652;MQMR=59.9516;NS=21;NUMALT=1;ODDS=20.6573;PAIRED=0;PAIREDR=0;PAO=9;PQA=324;PQR=0;PRO=0;QA=67693;QR=23777;RO=682;RPL=0;RPP=4196.12;RPPR=1432.3;RPR=1931;RUN=1;SAF=1931;SAP=4196.12;SAR=0;SRF=682;SRP=1483.95;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:227:100,126:100:3449:126:4387:-326.727,0,-242.346 0/1:87:33,54:33:1149:54:1904:-145.448,0,-77.5257 0/1:108:61,46:61:2147:46:1629:-114.329,0,-160.928 0/1:116:46,68:46:1591:68:2361:-178.035,0,-108.803 0/1:286:144,142:144:5057:142:4946:-359.198,0,-369.187 0/1:89:38,51:38:1327:51:1782:-133.856,0,-92.9371 0/1:143:43,100:43:1518:100:3508:-272.88,0,-93.858 0/0:98:98,0:98:3378:0:0:0,-29.5009,-304.171 1/1:332:0,331:0:0:331:11585:-1041.85,-99.6409,0 1/1:24:0,24:0:0:24:815:-73.6608,-7.22472,0 1/1:9:0,9:0:0:9:315:-28.6872,-2.70927,0 1/1:32:1,31:1:35:31:1090:-94.9055,-6.13433,0 1/1:137:0,137:0:0:137:4824:-434.306,-41.2411,0 1/1:152:0,151:0:0:151:5315:-478.155,-45.4555,0 1/1:187:0,187:0:0:187:6589:-592.645,-56.2926,0 1/1:145:2,143:2:72:143:4999:-443.225,-36.8126,0 0/1:67:34,32:34:1177:32:1134:-82.1886,0,-86.0518 0/1:100:45,55:45:1576:55:1924:-142.75,0,-112.026 0/1:80:33,47:33:1163:47:1666:-126.14,0,-80.8941 1/1:136:4,132:4:138:132:4650:-405.329,-28.1803,0 1/1:66:0,65:0:0:65:2270:-204.029,-19.567,0 chr01 33345410 . C T 22889.7 PASS AB=0.518662;ABP=5.36063;AC=30;AF=0.714286;AN=42;AO=1168;CIGAR=1X;DP=1585;DPB=1585;DPRA=1.88293;EPP=2539.29;EPPR=908.514;GTI=0;LEN=1;MEANALT=1;MQM=40.6301;MQMR=54.3837;NS=21;NUMALT=1;ODDS=17.681;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41660;QR=14867;RO=417;RPL=1168;RPP=2539.29;RPPR=908.514;RPR=0;RUN=1;SAF=0;SAP=2539.29;SAR=1168;SRF=0;SRP=908.514;SRR=417;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:23,15:23:828:15:536:-34.7977,0,-63.3487 0/1:67:29,38:29:1040:38:1345:-94.0571,0,-73.1489 0/1:55:27,28:27:968:28:1008:-71.9367,0,-70.6485 0/1:89:35,54:35:1256:54:1944:-142.478,0,-86.3869 0/1:157:94,63:94:3323:63:2244:-149.214,0,-251.395 0/1:38:12,26:12:428:26:921:-66.998,0,-27.326 0/1:89:41,48:41:1439:48:1724:-117.711,0,-102.521 0/0:41:41,0:41:1476:0:0:0,-12.3422,-132.818 1/1:180:0,180:0:0:180:6383:-553.486,-54.1854,0 1/1:14:0,14:0:0:14:504:-43.872,-4.21442,0 1/1:12:0,12:0:0:12:425:-36.4519,-3.61236,0 1/1:30:0,30:0:0:30:1079:-93.0984,-9.0309,0 1/1:164:0,164:0:0:164:5825:-507.742,-49.3689,0 1/1:102:1,101:1:36:101:3587:-309.761,-27.1094,0 1/1:123:0,123:0:0:123:4412:-383.762,-37.0267,0 1/1:37:0,37:0:0:37:1328:-115.36,-11.1381,0 0/1:82:43,39:43:1533:39:1363:-93.239,0,-113.472 0/1:88:44,44:44:1568:44:1584:-109.608,0,-113.916 0/1:74:26,48:26:936:48:1720:-127.683,0,-62.2223 1/1:44:0,44:0:0:44:1584:-136.097,-13.2453,0 1/1:61:1,60:1:36:60:2144:-177.248,-14.7736,0 chr01 33345443 . T A 46425.7 PASS AB=0.510551;ABP=4.88896;AC=30;AF=0.714286;AN=42;AO=3566;CIGAR=1X;DP=4719;DPB=4719;DPRA=1.24643;EPP=7746.48;EPPR=2504.55;GTI=0;LEN=1;MEANALT=1.05;MQM=27.8371;MQMR=29.9184;NS=21;NUMALT=1;ODDS=20.2108;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=127095;QR=41190;RO=1152;RPL=0;RPP=7746.48;RPPR=2504.55;RPR=3566;RUN=1;SAF=3566;SAP=7746.48;SAR=0;SRF=1152;SRP=2504.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:79,51:79:2824:51:1820:-83.5995,0,-165.23 0/1:70:33,37:33:1176:37:1328:-67.0817,0,-66.8581 0/1:84:57,27:57:2040:27:972:-38.9297,0,-123.081 0/1:68:24,44:24:856:44:1546:-81.6444,0,-42.2276 0/1:183:87,96:87:3112:96:3440:-174.434,0,-168.661 0/1:91:55,36:55:1976:36:1269:-58.3159,0,-117.13 0/1:157:62,95:62:2220:95:3408:-183.576,0,-117.317 0/0:182:182,0:182:6505:0:0:0,-54.7875,-472.406 1/1:163:0,163:0:0:163:5817:-390.285,-49.0679,0 1/1:680:13,667:13:460:667:23675:-1554.56,-172.385,0 1/1:621:3,618:3:104:618:22047:-1471.62,-178.719,0 1/1:792:2,790:2:72:790:28154:-1882.24,-232.901,0 1/1:69:1,68:1:36:68:2414:-159.815,-17.8683,0 1/1:84:1,83:1:36:83:2965:-195.444,-21.6882,0 1/1:30:0,30:0:0:30:1076:-72.2455,-9.0309,0 1/1:50:0,50:0:0:50:1740:-117.887,-15.0515,0 0/1:78:33,45:33:1180:45:1597:-83.8536,0,-61.4549 0/1:1008:497,510:497:17773:510:18244:-910.291,0,-985.432 0/1:74:23,51:23:820:51:1824:-98.7053,0,-37.8932 1/1:61:0,61:0:0:61:2175:-145.957,-18.3628,0 1/1:44:0,44:0:0:44:1584:-106.701,-13.2453,0 chr01 33345465 . 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T A 54126.8 PASS AB=0.766932;ABP=624.38;AC=31;AF=0.738095;AN=42;AO=2010;CIGAR=1X;DP=2299;DPB=2299;DPRA=4.73958;EPP=4127.85;EPPR=600.438;GTI=2;LEN=1;MEANALT=1.05;MQM=52.196;MQMR=54.0767;NS=21;NUMALT=1;ODDS=0.153952;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71535;QR=10209;RO=287;RPL=1024;RPP=4.5703;RPPR=3.62315;RPR=986;RUN=1;SAF=996;SAP=3.36033;SAR=1014;SRF=136;SRP=4.71267;SRR=151;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:16,105:16:552:105:3704:-295.997,0,-13.3339 0/1:68:11,57:11:392:57:2040:-162.137,0,-14.7195 1/1:69:6,63:6:216:63:2234:-180.859,-1.04542,0 0/1:128:27,101:27:963:101:3588:-283.455,0,-48.1331 1/1:199:18,181:18:644:181:6436:-518.018,-1.73244,0 0/1:77:13,64:13:460:64:2300:-181.451,0,-18.1833 0/1:139:31,108:31:1108:108:3867:-303.868,0,-57.8743 0/0:24:24,0:24:860:0:0:0,-7.22472,-76.8565 1/1:225:1,224:1:36:224:8004:-715.26,-64.1403,0 1/1:18:0,18:0:0:18:636:-57.3815,-5.41854,0 1/1:4:0,4:0:0:4:144:-13.2387,-1.20412,0 1/1:29:0,29:0:0:29:1040:-93.2596,-8.72987,0 1/1:193:0,193:0:0:193:6880:-617.389,-58.0988,0 1/1:189:0,189:0:0:189:6721:-602.063,-56.8947,0 0/1:130:20,110:20:712:110:3932:-313.873,0,-23.3673 0/1:60:7,53:7:252:53:1891:-152.062,0,-4.9421 1/1:48:4,44:4:144:44:1580:-128.512,-1.14216,0 0/1:114:59,55:59:2097:55:1960:-140.437,0,-153.057 0/1:167:50,117:50:1773:117:4152:-322.819,0,-109.32 1/1:182:0,180:0:0:180:6372:-569.199,-54.1854,0 1/1:115:0,115:0:0:115:4054:-360.732,-34.6185,0 chr01 33549867 . 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A G 14477.1 PASS AB=0.606762;ABP=114.289;AC=14;AF=0.333333;AN=42;AO=790;CIGAR=1X;DP=1583;DPB=1583;DPRA=2.0207;EPP=1709.8;EPPR=1705.49;GTI=4;LEN=1;MEANALT=1.07143;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.38243;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28222;QR=28372;RO=792;RPL=789;RPP=1709.8;RPPR=1705.49;RPR=1;RUN=1;SAF=0;SAP=1718.47;SAR=790;SRF=0;SRP=1722.82;SRR=792;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:36,68:36:1296:68:2423:-187.019,0,-85.6368 0/1:60:22,38:22:792:38:1360:-104.639,0,-53.5439 0/1:127:50,76:50:1800:76:2716:-206.434,0,-124.032 0/1:92:44,48:44:1572:48:1720:-127.391,0,-114.077 0/1:176:60,116:60:2143:116:4152:-320.882,0,-140.156 0/1:58:21,37:21:747:37:1314:-101.1,0,-50.0946 0/1:93:35,58:35:1260:58:2075:-159.025,0,-85.7097 1/1:106:0,106:0:0:106:3786:-340.938,-31.9092,0 0/0:109:109,0:109:3912:0:0:0,-32.8123,-352.272 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:68:68,0:68:2432:0:0:0,-20.47,-219.136 0/0:80:80,0:80:2861:0:0:0,-24.0824,-257.726 0/1:122:33,89:33:1184:89:3204:-251.856,0,-70.1427 0/1:52:15,37:15:536:37:1309:-102.457,0,-32.9213 0/1:85:36,49:36:1280:49:1739:-131.206,0,-89.9157 0/1:83:41,42:41:1467:42:1500:-110.309,0,-107.34 0/1:72:48,24:48:1719:24:852:-55.3262,0,-133.321 0/0:39:37,2:37:1323:2:72:0,-4.90345,-112.535 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 chr01 33577293 . CGCA AGCG 7349.32 PASS AB=0.459491;ABP=15.3254;AC=14;AF=0.333333;AN=42;AO=472;CIGAR=1X2M1X;DP=1303;DPB=1303.5;DPRA=1.74655;EPP=1027.95;EPPR=1792.3;GTI=0;LEN=4;MEANALT=1.42857;MQM=44.072;MQMR=59.8301;NS=21;NUMALT=1;ODDS=3.5365;PAIRED=0;PAIREDR=0;PAO=2;PQA=72;PQR=0;PRO=0;QA=16383;QR=28334;RO=824;RPL=472;RPP=1027.95;RPPR=1792.3;RPR=0;RUN=1;SAF=472;SAP=1027.95;SAR=0;SRF=824;SRP=1792.3;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:44,36:44:1522:36:1250:-85.0526,0,-113.186 0/1:53:31,22:31:1078:22:767:-51.7432,0,-81.0081 0/1:107:52,53:52:1815:53:1881:-135.151,0,-131.72 0/1:39:29,9:29:1023:9:312:-16.0406,0,-80.7009 0/1:111:57,53:57:1912:53:1836:-129.032,0,-138.875 0/1:56:26,30:26:845:30:1061:-77.3408,0,-59.4912 0/1:94:48,46:48:1662:46:1597:-112.747,0,-121.567 1/1:74:0,74:0:0:74:2543:-223.438,-22.2762,0 0/0:104:103,0:103:3537:0:0:0,-31.0061,-318.205 0/0:8:8,0:8:275:0:0:0,-2.40824,-25.083 0/0:4:4,0:4:137:0:0:0,-1.20412,-12.6674 0/0:58:58,0:58:1984:0:0:0,-17.4597,-178.829 0/0:43:43,0:43:1516:0:0:0,-12.9443,-136.733 0/0:75:74,1:74:2536:1:36:0,-19.0287,-224.946 0/1:90:39,50:39:1334:50:1712:-123.988,0,-93.1822 0/1:33:20,13:20:696:13:442:-29.3266,0,-52.6568 0/1:32:18,14:18:592:14:477:-33.0634,0,-43.9576 0/1:124:66,57:66:2256:57:1980:-138.567,0,-165.543 0/1:45:31,14:31:1070:14:489:-30.2537,0,-83.0614 0/0:39:39,0:39:1379:0:0:0,-11.7402,-124.409 0/0:34:34,0:34:1165:0:0:0,-10.235,-105.153 chr01 33589038 . 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T A 11258.5 PASS AB=0.511729;ABP=4.38563;AC=14;AF=0.333333;AN=42;AO=663;CIGAR=1X;DP=1899;DPB=1899;DPRA=2.00562;EPP=1442.7;EPPR=2680.44;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9849;MQMR=59.9586;NS=21;NUMALT=1;ODDS=7.45066;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23319;QR=43978;RO=1233;RPL=0;RPP=1442.7;RPPR=2671.76;RPR=663;RUN=1;SAF=0;SAP=1442.7;SAR=663;SRF=1;SRP=2671.76;SRR=1232;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:21,26:21:740:26:923:-69.2384,0,-52.775 0/1:25:9,16:9:324:16:576:-44.6492,0,-21.9801 0/1:109:52,57:52:1840:57:1968:-144.58,0,-133.068 0/1:165:77,88:77:2711:88:3152:-234.235,0,-194.563 0/1:187:88,99:88:3145:99:3437:-253.255,0,-226.895 0/1:94:47,47:47:1683:47:1660:-121.391,0,-123.459 0/1:164:81,83:81:2888:83:2904:-212.229,0,-210.787 1/1:71:0,71:0:0:71:2504:-225.612,-21.3731,0 0/0:176:175,1:175:6256:1:36:0,-49.383,-559.529 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:23:23,0:23:820:0:0:0,-6.92369,-74.1225 0/0:172:172,0:172:6133:0:0:0,-51.7772,-552.071 0/0:123:122,1:122:4331:1:36:0,-33.4284,-386.368 0/1:164:93,68:93:3327:68:2389:-166.44,0,-250.822 0/1:39:11,28:11:392:28:982:-76.9528,0,-23.8799 0/1:45:16,29:16:576:29:1022:-78.7454,0,-38.6286 0/1:61:27,34:27:972:34:1190:-89.0407,0,-69.4351 0/1:51:37,14:37:1316:14:504:-30.3456,0,-103.389 0/0:122:121,1:121:4336:1:36:0,-33.1325,-386.789 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 chr01 33650177 . A G 12149.2 PASS AB=0.527226;ABP=10.4594;AC=14;AF=0.333333;AN=42;AO=687;CIGAR=1X;DP=1911;DPB=1911;DPRA=2.01119;EPP=1486.14;EPPR=2660.89;GTI=0;LEN=1;MEANALT=1;MQM=59.9913;MQMR=59.9624;NS=21;NUMALT=1;ODDS=4.84337;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24543;QR=43861;RO=1224;RPL=1;RPP=1486.14;RPPR=2660.89;RPR=686;RUN=1;SAF=0;SAP=1494.81;SAR=687;SRF=0;SRP=2660.89;SRR=1224;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:20,26:20:720:26:919:-69.1788,0,-51.2814 0/1:25:9,16:9:324:16:576:-44.6492,0,-21.9801 0/1:108:50,58:50:1781:58:2068:-153.88,0,-128.06 0/1:164:74,90:74:2660:90:3221:-240.742,0,-190.276 0/1:196:89,107:89:3179:107:3835:-286.343,0,-227.246 0/1:96:45,51:45:1616:51:1828:-135.902,0,-116.831 0/1:164:81,83:81:2894:83:2960:-217.262,0,-211.325 1/1:73:0,73:0:0:73:2603:-234.518,-21.9752,0 0/0:174:173,1:173:6183:1:36:0,-48.7809,-552.97 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/0:172:172,0:172:6164:0:0:0,-51.7772,-554.858 0/0:125:124,1:124:4452:1:36:0,-34.0305,-397.248 0/1:160:90,70:90:3232:70:2489:-176.097,0,-242.936 0/1:39:10,29:10:360:29:1040:-82.1742,0,-21.0041 0/1:46:16,30:16:576:30:1076:-83.3055,0,-38.3276 0/1:63:27,36:27:972:36:1284:-96.8985,0,-68.833 0/1:50:36,14:36:1284:14:504:-30.6466,0,-100.812 0/0:125:123,2:123:4424:2:68:0,-31.1759,-391.844 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 chr01 33650197 . T C 24776.8 PASS AB=0.479346;ABP=7.31587;AC=28;AF=0.666667;AN=42;AO=1235;CIGAR=1X;DP=1915;DPB=1915;DPRA=1.29859;EPP=2684.78;EPPR=1477.44;GTI=0;LEN=1;MEANALT=1.05;MQM=59.953;MQMR=59.9941;NS=21;NUMALT=1;ODDS=5.72636;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44125;QR=24119;RO=679;RPL=1235;RPP=2684.78;RPPR=1477.44;RPR=0;RUN=1;SAF=0;SAP=2684.78;SAR=1235;SRF=0;SRP=1477.44;SRR=679;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:27,21:27:942:21:756:-53.9178,0,-70.6404 0/1:25:16,9:16:568:9:324:-21.9801,0,-43.9261 0/1:107:57,50:57:2037:50:1800:-130.072,0,-151.39 0/1:166:90,76:90:3217:76:2724:-195.432,0,-239.78 0/1:195:104,91:104:3702:91:3253:-234.202,0,-274.679 0/1:97:49,48:49:1711:48:1728:-126.605,0,-125.069 0/1:163:82,81:82:2929:81:2882:-210.545,0,-214.775 0/0:71:71,0:71:2537:0:0:0,-21.3731,-228.579 1/1:174:1,173:1:36:173:6192:-553.779,-48.7809,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 1/1:173:0,172:0:0:172:6161:-554.223,-51.7772,0 1/1:126:1,125:1:36:125:4425:-394.822,-34.3315,0 0/1:164:71,93:71:2490:93:3306:-248.388,0,-174.98 0/1:38:28,10:28:1004:10:352:-20.5791,0,-79.2367 0/1:48:32,16:32:1129:16:568:-37.0024,0,-87.4669 0/1:63:36,27:36:1292:27:972:-68.833,0,-97.6189 0/1:48:13,35:13:453:35:1252:-98.5356,0,-26.6502 1/1:124:1,123:1:36:123:4412:-393.618,-33.7294,0 1/1:38:0,38:0:0:38:1326:-119.636,-11.4391,0 chr01 33650205 . TTAT CTAA,CTAT 40089 PASS AB=0.483432,0.515718;ABP=5.81643,5.536;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1261,682;CIGAR=1X2M1X,1X3M;DP=1945;DPB=1945;DPRA=1.30069,2.01628;EPP=2741.24,1483.95;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.85,2.0625;MQM=59.9262,59.9941;MQMR=0;NS=21;NUMALT=2;ODDS=6.46494;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43930,24364;QR=0;RO=0;RPL=1261,682;RPP=2741.24,1483.95;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2741.24,1483.95;SAR=1261,682;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:48:0,21,27:0:0:21,27:725,953:-136.855,-77.9555,-71.6339,-59.2479,0,-51.12 1/2:25:0,9,16:0:0:9,16:322,576:-73.6151,-47.3585,-44.6492,-26.615,0,-21.7985 1/2:109:0,52,57:0:0:52,57:1821,2044:-315.238,-167.073,-151.42,-148.519,0,-131.36 1/2:167:0,77,89:0:0:77,89:2651,3177:-474.314,-259.001,-235.822,-215.303,0,-188.511 1/2:197:0,93,104:0:0:93,104:3242,3713:-566.636,-303.064,-275.068,-263.925,0,-232.618 1/2:97:0,49,48:0:0:49,48:1706,1728:-280.076,-141.356,-126.605,-139.074,0,-124.624 1/2:165:0,82,83:0:0:82,83:2846,2950:-472.093,-240.746,-216.061,-231.699,0,-206.713 2/2:72:0,0,72:0:0:0,72:0,2588:-233.168,-233.168,-233.168,-21.6742,-21.6742,0 1/1:180:0,178,1:0:0:178,1:6191,36:-556.95,-53.5833,0,-554.012,-50.6459,-553.711 1/1:17:0,17,0:0:0:17,0:591,0:-53.5145,-5.11751,0,-53.5145,-5.11751,-53.5145 1/1:6:0,6,0:0:0:6,0:214,0:-19.6078,-1.80618,0,-19.6078,-1.80618,-19.6078 1/1:24:0,24,0:0:0:24,0:833,0:-75.2873,-7.22472,0,-75.2873,-7.22472,-75.2873 1/1:176:0,176,0:0:0:176,0:6146,0:-553.258,-52.9813,0,-553.258,-52.9813,-553.258 1/1:128:0,127,1:0:0:127,1:4407,36:-396.456,-38.2308,0,-393.518,-34.9336,-393.217 1/2:168:0,95,73:0:0:95,73:3327,2601:-483.064,-212.36,-183.762,-271.058,0,-249.083 1/2:39:0,10,29:0:0:10,29:336,1044:-112.758,-85.5449,-82.5346,-27.5549,0,-18.825 1/2:49:0,16,33:0:0:16,33:558,1158:-139.971,-94.5885,-89.772,-45.732,0,-35.798 1/2:63:0,28,35:0:0:28,35:977,1260:-182.628,-103.169,-94.7406,-79.8119,0,-69.2758 1/2:50:0,37,13:0:0:37,13:1293,464:-143.362,-38.1841,-27.046,-105.533,0,-101.619 1/1:127:0,126,1:0:0:126,1:4405,36:-396.155,-37.9298,0,-393.218,-34.6325,-392.917 1/1:38:0,38,0:0:0:38,0:1339,0:-120.81,-11.4391,0,-120.81,-11.4391,-120.81 chr01 33676282 . G C 16075 PASS AB=0.572734;ABP=63.3435;AC=14;AF=0.333333;AN=42;AO=883;CIGAR=1X;DP=1947;DPB=1947;DPRA=1.76663;EPP=1920.42;EPPR=2309.11;GTI=2;LEN=1;MEANALT=1.07692;MQM=59.9581;MQMR=59.9275;NS=21;NUMALT=1;ODDS=4.42548;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31530;QR=37811;RO=1062;RPL=0;RPP=1920.42;RPPR=2309.11;RPR=883;RUN=1;SAF=883;SAP=1920.42;SAR=0;SRF=1062;SRP=2309.11;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:65,34:65:2316:34:1212:-79.5844,0,-178.528 0/1:124:55,69:55:1942:69:2468:-185.044,0,-137.725 0/1:92:37,55:37:1320:55:1968:-149.699,0,-91.4072 0/1:163:70,93:70:2508:93:3312:-249.102,0,-176.818 0/1:208:70,138:70:2493:138:4940:-382.135,0,-162.002 0/1:77:20,57:20:693:57:2044:-161.052,0,-39.5103 0/1:150:60,90:60:2107:90:3216:-244.506,0,-144.74 1/1:131:0,131:0:0:131:4683:-421.632,-39.4349,0 0/0:133:132,0:132:4716:0:0:0,-39.736,-424.241 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:5:5,0:5:165:0:0:0,-1.50515,-15.1736 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/0:90:90,0:90:3228:0:0:0,-27.0927,-290.742 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/1:41:22,19:22:788:19:684:-49.5481,0,-58.9026 0/1:90:25,65:25:892:65:2302:-180.346,0,-53.507 0/1:115:52,62:52:1842:62:2220:-165.387,0,-131.379 0/1:75:28,47:28:985:47:1684:-129.27,0,-66.3843 0/1:79:56,23:56:2012:23:797:-48.2645,0,-157.572 0/0:94:94,0:94:3338:0:0:0,-28.2968,-300.53 0/0:72:72,0:72:2558:0:0:0,-21.6742,-230.467 chr01 33676379 . T C 12343.3 PASS AB=0.50902;ABP=3.91125;AC=14;AF=0.333333;AN=42;AO=716;CIGAR=1X;DP=1906;DPB=1906;DPRA=1.46796;EPP=1557.78;EPPR=2584.89;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9916;MQMR=60;NS=21;NUMALT=1;ODDS=5.41625;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25457;QR=41299;RO=1189;RPL=716;RPP=1557.78;RPPR=2584.89;RPR=0;RUN=1;SAF=0;SAP=1557.78;SAR=716;SRF=0;SRP=2584.89;SRR=1189;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:60,67:60:2080:67:2349:-173.433,0,-149.233 0/1:195:70,125:70:2443:125:4484:-345.027,0,-161.421 0/1:82:45,37:45:1544:37:1324:-94.7776,0,-114.558 0/1:94:42,52:42:1447:52:1834:-137.042,0,-102.222 0/1:202:119,82:119:4158:82:2936:-203.756,0,-313.689 0/1:76:53,23:53:1828:23:824:-51.605,0,-141.915 0/1:88:47,41:47:1589:41:1440:-103.402,0,-116.798 1/1:68:1,67:1:32:67:2366:-209.996,-17.2707,0 0/0:117:117,0:117:4077:0:0:0,-35.2205,-367.118 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/0:12:12,0:12:409:0:0:0,-3.61236,-37.1354 0/0:45:45,0:45:1541:0:0:0,-13.5463,-138.971 0/0:89:89,0:89:3093:0:0:0,-26.7917,-278.595 0/0:147:147,0:147:5061:0:0:0,-44.2514,-455.642 0/1:138:58,80:58:2034:80:2827:-213.125,0,-141.787 0/1:60:23,37:23:820:37:1309:-100.048,0,-56.0607 0/1:53:26,27:26:917:27:964:-71.1222,0,-66.89 0/1:74:30,44:30:1064:44:1580:-120.215,0,-73.7954 0/1:86:52,34:52:1841:34:1220:-84.2182,0,-140.08 0/0:88:88,0:88:3039:0:0:0,-26.4906,-273.74 0/0:53:53,0:53:1854:0:0:0,-15.9546,-167.136 chr01 33728833 . CTAAAAGGAAAAAGGT CTTTAATGAACAAAGGT,CTTTAAAGAAAAAAGGT 19849.6 PASS AB=0.535771,0.4531;ABP=10.0011,15.0276;AC=28,14;AF=0.666667,0.333333;AN=42;AO=614,315;CIGAR=2M2X2M1X3M1I6M,1M1I1M1X4M1X8M;DP=937;DPB=995.438;DPRA=1.46129,1.46626;EPP=1336.29,687.024;EPPR=0;GTI=0;LEN=17,17;MEANALT=1.95,2.53846;MQM=31.1173,39.2159;MQMR=0;NS=21;NUMALT=2;ODDS=8.74163;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18973,10914;QR=0;RO=0;RPL=342,183;RPP=20.3396,20.9405;RPPR=0;RPR=272,132;RUN=1,1;SAF=342,183;SAP=20.3396,20.9405;SAR=272,132;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:25:0,16,8:0:0:16,8:518,278:-59.541,-22.0877,-17.2713,-37.5774,0,-35.1692 1/2:51:0,21,29:0:0:21,29:602,1001:-117.758,-75.6096,-69.2879,-42.2097,0,-33.4798 1/2:33:0,17,16:0:0:17,16:546,555:-83.5417,-43.9627,-38.8452,-39.894,0,-35.0775 1/2:49:0,31,17:0:0:31,17:997,608:-120.303,-47.8015,-38.4696,-72.5361,0,-67.4186 1/2:56:0,28,27:0:0:28,27:889,932:-136.894,-72.7878,-64.359,-64.1364,0,-56.0086 1/2:25:0,11,14:0:0:11,14:311,492:-59.2602,-37.5917,-34.2804,-21.9548,0,-17.7404 1/2:67:0,34,33:0:0:34,33:992,1092:-152.435,-82.6178,-72.3828,-70.1034,0,-60.1694 2/2:31:0,0,30:0:0:0,30:0,1064:-91.2377,-91.2377,-91.2377,-9.0309,-9.0309,0 1/1:55:0,55,0:0:0:55,0:1871,0:-154.81,-16.5567,0,-154.81,-16.5567,-154.81 1/1:7:0,7,0:0:0:7,0:214,0:-17.7214,-2.10721,0,-17.7214,-2.10721,-17.7214 1/1:7:0,7,0:0:0:7,0:200,0:-16.3611,-2.10721,0,-16.3611,-2.10721,-16.3611 1/1:10:0,10,0:0:0:10,0:295,0:-24.1083,-3.0103,0,-24.1083,-3.0103,-24.1083 1/1:23:0,23,0:0:0:23,0:740,0:-60.8902,-6.92369,0,-60.8902,-6.92369,-60.8902 1/1:45:0,45,0:0:0:45,0:1454,0:-119.09,-13.5464,0,-119.09,-13.5464,-119.09 1/2:58:0,36,22:0:0:36,22:1134,758:-141.147,-59.4491,-48.612,-82.012,0,-75.3893 1/2:26:0,12,14:0:0:12,14:392,489:-68.1512,-39.1991,-35.5867,-29.2723,0,-25.0579 1/2:17:0,8,9:0:0:8,9:260,314:-43.6254,-24.7378,-22.3295,-19.2019,0,-16.4926 1/2:131:0,63,67:0:0:63,67:1904,2304:-312.801,-177.165,-158.2,-135.603,0,-115.434 1/2:91:0,60,29:0:0:60,29:1930,1027:-220.783,-80.9689,-62.9071,-139.93,0,-131.201 1/1:31:0,31,0:0:0:31,0:929,0:-75.61,-9.33193,0,-75.61,-9.33193,-75.61 1/1:99:0,99,0:0:0:99,0:2795,0:-225.555,-29.802,0,-225.555,-29.802,-225.555 chr01 33728851 . CAG GAG,GAA 20029.8 PASS AB=0.529319,0.464342;ABP=7.72147,9.97897;AC=28,14;AF=0.666667,0.333333;AN=42;AO=604,326;CIGAR=1X2M,1X1M1X;DP=936;DPB=936;DPRA=1.36818,1.50226;EPP=19.6343,19.6627;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.9,2.23077;MQM=31.1076,39.2025;MQMR=0;NS=21;NUMALT=2;ODDS=6.92588;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18721,11426;QR=0;RO=0;RPL=604,325;RPP=1314.58,702.251;RPPR=0;RPR=0,1;RUN=1,1;SAF=336,187;SAP=19.6343,18.3571;SAR=268,139;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:25:0,17,8:0:0:17,8:537,280:-61.0959,-22.4428,-17.3253,-38.9762,0,-36.568 1/2:52:0,19,32:0:0:19,32:548,1097:-120.794,-82.3578,-76.6382,-38.4659,0,-28.8329 1/2:33:0,17,16:0:0:17,16:549,564:-84.2275,-44.4824,-39.3649,-40.0625,0,-35.246 1/2:48:0,31,17:0:0:31,17:1007,610:-121.275,-48.2454,-38.9135,-73.3582,0,-68.2407 1/2:54:0,27,27:0:0:27,27:860,940:-135.414,-73.4753,-65.3475,-62.2506,0,-54.1228 1/2:25:0,11,14:0:0:11,14:311,486:-58.787,-37.1168,-33.8055,-21.9548,0,-17.7404 1/2:66:0,33,31:0:0:33,31:957,1107:-150.152,-82.7197,-72.7857,-67.5154,0,-58.1835 2/2:33:0,0,33:0:0:0,33:0,1157:-98.6361,-98.6361,-98.6361,-9.93399,-9.93399,0 1/1:53:0,53,0:0:0:53,0:1825,0:-150.429,-15.9546,0,-150.429,-15.9546,-150.429 1/1:6:0,6,0:0:0:6,0:184,0:-15.2121,-1.80618,0,-15.2121,-1.80618,-15.2121 1/1:7:0,7,0:0:0:7,0:199,0:-16.3128,-2.10721,0,-16.3128,-2.10721,-16.3128 1/1:10:0,10,0:0:0:10,0:295,0:-24.1083,-3.0103,0,-24.1083,-3.0103,-24.1083 1/1:23:0,23,0:0:0:23,0:731,0:-60.1836,-6.92369,0,-60.1836,-6.92369,-60.1836 1/1:45:0,45,0:0:0:45,0:1446,0:-118.487,-13.5464,0,-118.487,-13.5464,-118.487 1/2:60:0,36,24:0:0:36,24:1141,855:-148.815,-66.7394,-55.9023,-82.3947,0,-75.17 1/2:26:0,12,14:0:0:12,14:410,481:-68.6121,-38.5861,-34.9738,-30.3493,0,-26.1349 1/2:17:0,8,9:0:0:8,9:262,316:-43.8198,-24.8318,-22.4236,-19.3035,0,-16.5942 1/2:135:0,62,72:0:0:62,72:1886,2510:-326.482,-192.052,-173.389,-134.528,0,-112.853 1/2:90:0,61,29:0:0:61,29:1945,1023:-221.381,-80.9659,-62.6031,-140.741,0,-132.011 1/1:31:0,31,0:0:0:31,0:927,0:-75.4709,-9.33193,0,-75.4709,-9.33193,-75.4709 1/1:97:0,95,0:0:0:95,0:2701,0:-217.452,-28.5979,0,-217.452,-28.5979,-217.452 chr01 33728862 . T C 12194.3 PASS AB=0.538095;ABP=10.9517;AC=28;AF=0.666667;AN=42;AO=607;CIGAR=1X;DP=931;DPB=931;DPRA=1.36061;EPP=19.0692;EPPR=15.9855;GTI=0;LEN=1;MEANALT=1;MQM=31.0956;MQMR=39.1667;NS=21;NUMALT=1;ODDS=7.86612;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21638;QR=11612;RO=324;RPL=607;RPP=1321.09;RPPR=706.567;RPR=0;RUN=1;SAF=337;SAP=19.0692;SAR=270;SRF=184;SRP=15.9855;SRR=140;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:8,17:8:288:17:603:-38.9236,0,-17.9955 0/1:53:32,21:32:1148:21:744:-36.8633,0,-79.0735 0/1:33:16,17:16:572:17:595:-36.9574,0,-40.0948 0/1:49:17,32:17:612:32:1135:-73.7553,0,-38.75 0/1:54:25,29:25:900:29:1040:-63.0887,0,-61.2994 0/1:25:14,11:14:500:11:396:-20.0163,0,-34.9136 0/1:66:32,34:32:1152:34:1211:-66.6953,0,-75.403 0/0:33:33,0:33:1188:0:0:0,-9.93399,-100.568 1/1:52:0,52:0:0:52:1856:-149.942,-15.6536,0 1/1:7:0,7:0:0:7:252:-18.9805,-2.10721,0 1/1:7:0,7:0:0:7:248:-17.7417,-2.10721,0 1/1:10:0,10:0:0:10:360:-25.9855,-3.0103,0 1/1:23:0,23:0:0:23:820:-63.495,-6.92369,0 1/1:44:0,44:0:0:44:1563:-121.622,-13.2453,0 0/1:60:24,36:24:852:36:1288:-79.6328,0,-55.718 0/1:26:14,12:14:504:12:432:-26.853,0,-36.7936 0/1:17:9,8:9:324:8:288:-17.3372,0,-22.8653 0/1:133:71,62:71:2532:62:2216:-123.188,0,-175.008 0/1:89:29,60:29:1040:60:2120:-136.98,0,-64.2632 1/1:29:0,29:0:0:29:1028:-75.7311,-8.72987,0 1/1:96:0,96:0:0:96:3443:-239.001,-28.8989,0 chr01 33773985 . T C 33794.1 PASS AB=0.519398;ABP=8.65462;AC=28;AF=0.666667;AN=42;AO=1699;CIGAR=1X;DP=2642;DPB=2642;DPRA=1.12946;EPP=3692.34;EPPR=2050.71;GTI=0;LEN=1;MEANALT=1;MQM=59.9382;MQMR=59.9788;NS=21;NUMALT=1;ODDS=3.5557;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60641;QR=33767;RO=943;RPL=0;RPP=3692.34;RPPR=2050.71;RPR=1699;RUN=1;SAF=1699;SAP=3692.34;SAR=0;SRF=943;SRP=2050.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:208:85,123:85:3052:123:4378:-331.575,0,-212.295 0/1:104:39,65:39:1400:65:2330:-178.643,0,-94.9921 0/1:167:94,73:94:3372:73:2624:-186.135,0,-253.294 0/1:82:51,31:51:1832:31:1104:-74.9862,0,-140.476 0/1:229:106,123:106:3777:123:4402:-327.417,0,-271.193 0/1:102:54,48:54:1917:48:1712:-123.661,0,-142.1 0/1:215:122,93:122:4384:93:3312:-233.579,0,-330.01 0/0:112:112,0:112:4005:0:0:0,-33.7154,-360.638 1/1:332:1,331:1:36:331:11797:-1057.98,-96.3437,0 1/1:26:0,26:0:0:26:921:-83.2006,-7.82678,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:16:0,16:0:0:16:568:-51.4519,-4.81648,0 1/1:85:0,85:0:0:85:3048:-274.549,-25.5876,0 1/1:117:0,117:0:0:117:4117:-370.655,-35.2205,0 0/1:236:107,129:107:3828:129:4622:-345.092,0,-273.674 0/1:97:43,54:43:1536:54:1936:-145.316,0,-109.333 0/1:71:38,33:38:1364:33:1169:-84.1422,0,-101.688 0/1:128:58,70:58:2076:70:2492:-186.002,0,-148.579 0/1:88:33,55:33:1188:55:1980:-151.984,0,-80.738 1/1:167:0,167:0:0:167:5977:-538.035,-50.272,0 1/1:55:0,55:0:0:55:1972:-177.754,-16.5567,0 chr01 33774013 . TCGCTAG TCACTAC,TCTCTAC 55160.1 PASS AB=0.511086,0.476976;ABP=4.88796,11.1098;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1706,957;CIGAR=2M1X3M1X,2M1X3M1X;DP=2693;DPB=2693.14;DPRA=1.10085,2.28202;EPP=3672.88,2072.43;EPPR=7.35324;GTI=0;LEN=7,7;MEANALT=2.6,3;MQM=59.9291,59.9937;MQMR=60;NS=21;NUMALT=2;ODDS=2.84437;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60062,33802;QR=65;RO=2;RPL=1702,956;RPP=3672.88,2072.43;RPPR=7.35324;RPR=4,1;RUN=1,1;SAF=1706,957;SAP=3707.54,2081.11;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:210:0,120,84:0:0:120,84:4249,2942:-585.491,-239.379,-203.255,-346.113,0,-320.826 1/2:104:0,59,38:0:0:59,38:2087,1351:-280.073,-110.095,-92.3345,-169.977,0,-158.538 1/2:171:0,76,94:0:0:76,94:2669,3343:-489.704,-272.495,-249.617,-217.265,0,-188.968 1/2:82:0,31,51:0:0:31,51:1093,1807:-236.554,-147.559,-138.227,-89.3477,0,-73.9952 1/2:234:0,126,108:0:0:126,108:4458,3821:-674.691,-311.579,-273.65,-363.465,0,-330.953 1/2:102:0,48,54:0:0:48,54:1677,1924:-293.595,-157.182,-142.732,-136.765,0,-120.51 1/2:226:2,96,128:2:65:96,128:3383,4496:-635.548,-360.712,-337.059,-270.219,0,-236.933 2/2:117:0,0,117:0:0:0,117:0,4103:-369.46,-369.46,-369.46,-35.2205,-35.2205,0 1/1:333:0,328,1:0:0:328,1:11532,36:-1037.44,-98.7378,0,-1034.51,-95.7924,-1034.21 1/1:26:0,25,0:0:0:25,0:889,0:-79.97,-7.52575,0,-79.97,-7.52575,-79.97 1/1:5:0,5,0:0:0:5,0:178,0:-16.3687,-1.50515,0,-16.3687,-1.50515,-16.3687 1/1:16:0,16,0:0:0:16,0:573,0:-51.904,-4.81648,0,-51.904,-4.81648,-51.904 1/1:86:0,85,0:0:0:85,0:2999,0:-269.678,-25.5876,0,-269.678,-25.5876,-269.678 1/1:129:0,126,0:0:0:126,0:4345,0:-390.925,-37.9298,0,-390.925,-37.9298,-390.925 1/2:242:0,128,112:0:0:128,112:4531,3969:-692.473,-323.399,-284.867,-369.136,0,-335.421 1/2:96:0,53,43:0:0:53,43:1883,1518:-277.404,-123.96,-108.005,-153.788,0,-140.843 1/2:74:0,35,39:0:0:35,39:1222,1363:-210.624,-111.227,-100.691,-99.746,0,-88.0058 1/2:130:0,72,56:0:0:72,56:2504,1979:-364.755,-161.168,-139.494,-203.578,0,-186.721 1/2:88:0,55,32:0:0:55,32:1949,1150:-252.589,-93.8174,-77.2607,-158.769,0,-149.137 1/1:168:0,168,0:0:0:168,0:5934,0:-534.178,-50.573,0,-534.178,-50.573,-534.178 1/1:54:0,54,0:0:0:54,0:1907,0:-171.907,-16.2556,0,-171.907,-16.2556,-171.907 chr01 33774701 . C A,T 48607.4 PASS AB=0.512715,0.487285;ABP=5.05342,5.05342;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1499,823;CIGAR=1X,1X;DP=2324;DPB=2324;DPRA=1.00636,1.43715;EPP=3258.05,1790.13;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.75,2;MQM=54.6097,44.9964;MQMR=60;NS=21;NUMALT=2;ODDS=6.84773;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53661,29525;QR=21;RO=1;RPL=0,0;RPP=3258.05,1790.13;RPPR=5.18177;RPR=1499,823;RUN=1,1;SAF=1499,823;SAP=3258.05,1790.13;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:122:0,64,58:0:0:64,58:2289,2084:-352.709,-166.399,-147.133,-186.664,0,-169.204 1/2:60:0,30,30:0:0:30,30:1080,1080:-175.123,-87.4224,-78.3915,-88.0576,0,-79.0267 1/2:131:0,76,55:0:0:76,55:2728,1972:-379.457,-157.446,-134.568,-222.364,0,-205.807 1/2:130:0,82,48:0:0:82,48:2948,1720:-377.063,-137.779,-113.094,-239.638,0,-225.189 1/2:172:0,67,105:0:0:67,105:2407,3776:-497.89,-302.086,-281.917,-196.16,0,-164.552 1/2:86:0,50,36:0:0:50,36:1777,1294:-247.598,-103.528,-88.4765,-144.422,0,-133.585 1/2:194:0,81,113:0:0:81,113:2901,4056:-562.391,-326.987,-302.603,-235.759,0,-201.743 2/2:110:0,0,110:0:0:0,110:0,3940:-348.755,-348.755,-348.755,-33.1133,-33.1133,0 1/1:226:1,225,0:1:21:225,0:8036,0:-719.888,-65.9328,0,-720.189,-67.7318,-721.778 1/1:27:0,27,0:0:0:27,0:968,0:-87.3156,-8.12781,0,-87.3156,-8.12781,-87.3156 1/1:8:0,8,0:0:0:8,0:288,0:-25.7344,-2.40824,0,-25.7344,-2.40824,-25.7344 1/1:36:0,36,0:0:0:36,0:1262,0:-113.724,-10.8371,0,-113.724,-10.8371,-113.724 1/1:146:0,146,0:0:0:146,0:5229,0:-469.608,-43.9504,0,-469.608,-43.9504,-469.608 1/1:165:0,162,3:0:0:162,3:5824,108:-521.372,-48.7669,0,-512.654,-39.6924,-511.751 1/2:141:0,77,64:0:0:77,64:2753,2304:-409.52,-185.483,-162.304,-224.392,0,-205.126 1/2:80:0,30,50:0:0:30,50:1076,1792:-231.413,-143.701,-134.67,-88.0684,0,-73.0169 1/2:105:0,68,37:0:0:68,37:2440,1324:-304.183,-105.532,-85.0623,-199.003,0,-187.865 1/2:157:0,75,82:0:0:75,82:2688,2948:-455.132,-236.857,-214.279,-218.631,0,-193.946 1/2:77:0,46,31:0:0:46,31:1633,1095:-221.038,-88.2712,-74.4239,-133.117,0,-123.785 1/1:88:0,86,1:0:0:86,1:3066,32:-275.048,-25.8886,0,-272.489,-23.3494,-272.188 1/1:63:0,63,0:0:0:63,0:2268,0:-203.582,-18.9649,0,-203.582,-18.9649,-203.582 chr01 33774723 . G T 13493.9 PASS AB=0.488323;ABP=4.68386;AC=14;AF=0.333333;AN=42;AO=797;CIGAR=1X;DP=2265;DPB=2265;DPRA=1.41563;EPP=1733.67;EPPR=3190.73;GTI=0;LEN=1;MEANALT=1;MQM=44.8846;MQMR=54.6628;NS=21;NUMALT=1;ODDS=7.44516;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28517;QR=52442;RO=1468;RPL=797;RPP=1733.67;RPPR=3190.73;RPR=0;RUN=1;SAF=797;SAP=1733.67;SAR=0;SRF=1468;SRP=3190.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:64,58:64:2279:58:2084:-147.021,0,-168.299 0/1:60:30,30:30:1072:30:1065:-77.0727,0,-78.3191 0/1:128:74,54:74:2648:54:1940:-132.611,0,-199.442 0/1:123:77,46:77:2764:46:1639:-108.317,0,-211.125 0/1:167:65,102:65:2315:102:3640:-271.692,0,-157.907 0/1:82:48,34:48:1715:34:1220:-82.9264,0,-129.224 0/1:185:79,106:79:2832:106:3804:-281.866,0,-198.374 1/1:104:0,104:0:0:104:3727:-329.821,-31.3071,0 0/0:223:223,0:223:7975:0:0:0,-67.1297,-716.14 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.4899 0/0:8:8,0:8:288:0:0:0,-2.40824,-25.7344 0/0:36:36,0:36:1281:0:0:0,-10.8371,-115.43 0/0:146:146,0:146:5191:0:0:0,-43.9504,-465.993 0/0:163:161,2:161:5716:2:72:0,-42.3257,-505.752 0/1:141:76,65:76:2728:65:2340:-165.498,0,-202.797 0/1:80:30,50:30:1080:50:1795:-134.975,0,-73.3767 0/1:101:66,35:66:2364:35:1245:-79.4522,0,-182.275 0/1:150:70,80:70:2503:80:2851:-207.822,0,-180.012 0/1:74:44,30:44:1580:30:1063:-72.4907,0,-120.011 0/0:86:85,1:85:3044:1:32:0,-22.7098,-269.733 0/0:61:61,0:61:2175:0:0:0,-18.3628,-195.257 chr01 33774728 . TAAC CAAA,GAAC 47095.4 PASS AB=0.517097,0.479414;ABP=6.64861,8.28517;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1497,794;CIGAR=1X2M1X,1X3M;DP=2298;DPB=2298.25;DPRA=1.05481,1.41302;EPP=3253.7,1727.16;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.05,2.26667;MQM=54.5611,44.9773;MQMR=0;NS=21;NUMALT=2;ODDS=8.7068;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=52714,28275;QR=0;RO=0;RPL=1497,794;RPP=3253.7,1727.16;RPPR=0;RPR=0,0;RUN=1,1;SAF=1497,794;SAP=3253.7,1727.16;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:119:0,62,57:0:0:62,57:2185,2032:-340.146,-162.563,-143.9,-177.933,0,-160.775 1/2:59:0,29,29:0:0:29,29:1024,1036:-166.524,-83.5032,-74.7733,-83.0335,0,-74.3036 1/2:127:0,73,53:0:0:73,53:2578,1883:-360.012,-150.513,-128.538,-209.56,0,-193.605 1/2:128:0,81,47:0:0:81,47:2859,1684:-367.519,-135.463,-111.079,-232.408,0,-218.26 1/2:165:0,67,98:0:0:67,98:2355,3507:-471.589,-280.581,-260.412,-191.358,0,-161.857 1/2:86:0,50,35:0:0:50,35:1753,1248:-242.856,-100.765,-85.7136,-142.261,0,-131.725 1/2:191:0,82,108:0:0:82,108:2902,3854:-545.628,-310.298,-285.614,-235.369,0,-202.858 2/2:104:0,0,104:0:0:0,104:0,3683:-326.835,-326.835,-326.835,-31.3071,-31.3071,0 1/1:226:0,225,0:0:0:225,0:7949,0:-713.774,-67.7318,0,-713.774,-67.7318,-713.774 1/1:26:0,26,0:0:0:26,0:931,0:-83.9937,-7.82678,0,-83.9937,-7.82678,-83.9937 1/1:8:0,8,0:0:0:8,0:287,0:-25.6451,-2.40824,0,-25.6451,-2.40824,-25.6451 1/1:36:0,36,0:0:0:36,0:1231,0:-110.964,-10.8371,0,-110.964,-10.8371,-110.964 1/1:148:0,147,0:0:0:147,0:5166,0:-463.805,-44.2514,0,-463.805,-44.2514,-463.805 1/1:165:0,163,2:0:0:163,2:5713,72:-512.06,-49.0679,0,-506.275,-42.9278,-505.673 1/2:143:0,78,65:0:0:78,65:2758,2328:-411.579,-187.376,-163.896,-224.556,0,-204.989 1/2:82:0,30,52:0:0:30,52:1068,1854:-235.676,-148.68,-139.649,-87.3503,0,-71.6968 1/2:102:0,69,33:0:0:69,33:2449,1188:-294.034,-94.9041,-74.1331,-199.482,0,-189.548 1/2:155:0,74,80:0:0:74,80:2587,2832:-436.887,-227.358,-205.082,-209.57,0,-185.488 1/2:76:0,46,30:0:0:46,30:1586,1042:-212.42,-83.865,-70.0176,-128.898,0,-119.867 1/1:89:0,88,1:0:0:88,1:3103,32:-278.283,-26.4906,0,-275.723,-23.6129,-275.422 1/1:63:0,63,0:0:0:63,0:2230,0:-200.357,-18.9649,0,-200.357,-18.9649,-200.357 chr01 33774744 . TTC TTT,CTT 46527.9 PASS AB=0.511888,0.486014;ABP=4.7657,5.43992;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1474,804;CIGAR=2M1X,1X1M1X;DP=2282;DPB=2283;DPRA=1.02642,1.44032;EPP=3203.76,1748.87;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.9,2.13333;MQM=54.6384,44.7848;MQMR=0;NS=21;NUMALT=2;ODDS=7.18041;PAIRED=0,0;PAIREDR=0;PAO=0.5,2;PQA=0,68;PQR=0;PRO=0.5;QA=52268,27898;QR=0;RO=0;RPL=1473,804;RPP=3195.08,1748.87;RPPR=0;RPR=1,0;RUN=1,1;SAF=1473,804;SAP=3195.08,1748.87;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:118:0,60,58:0:0:60,58:2104,2038:-334.027,-163.106,-145.045,-171.268,0,-153.808 1/2:60:0,30,30:0:0:30,30:1067,1048:-171.237,-84.6847,-75.6538,-86.9025,0,-77.8716 1/2:129:0,74,55:0:0:74,55:2623,1907:-365.356,-152.242,-129.966,-213.459,0,-196.903 1/2:126:0,79,46:0:0:79,46:2813,1600:-356.347,-127.765,-103.983,-228.661,0,-214.814 1/2:169:0,66,102:0:0:66,102:2341,3506:-469.936,-279.523,-259.655,-190.494,0,-159.789 1/2:84:0,50,33:0:0:50,33:1779,1162:-236.618,-92.3586,-77.3071,-144.252,0,-134.318 1/2:191:0,79,112:0:0:79,112:2803,3896:-539.36,-312.117,-288.336,-227.272,0,-193.556 2/2:106:0,0,106:0:0:0,106:0,3648:-322.894,-322.894,-322.894,-31.9092,-31.9092,0 1/1:224:0,224,0:0:0:224,0:7960,0:-715.111,-67.4307,0,-715.111,-67.4307,-715.111 1/1:27:0,27,0:0:0:27,0:964,0:-86.9579,-8.12781,0,-86.9579,-8.12781,-86.9579 1/1:8:0,8,0:0:0:8,0:279,0:-24.9217,-2.40824,0,-24.9217,-2.40824,-24.9217 1/1:36:0,36,0:0:0:36,0:1292,0:-116.421,-10.8371,0,-116.421,-10.8371,-116.421 1/1:142:0,141,0:0:0:141,0:5015,0:-450.214,-42.4452,0,-450.214,-42.4452,-450.214 1/1:163:0,161,2:0:0:161,2:5691,67:-510.22,-48.4658,0,-504.854,-42.7679,-504.252 1/2:143:0,78,65:0:0:78,65:2744,2266:-404.991,-182.127,-158.647,-223.211,0,-203.644 1/2:80:0,30,50:0:0:30,50:1068,1736:-226.057,-139.058,-130.027,-87.3496,0,-72.2981 1/2:102:0,67,35:0:0:67,35:2376,1195:-288.219,-95.0493,-74.8803,-193.51,0,-182.974 1/2:154:0,74,80:0:0:74,80:2617,2773:-434.209,-222.286,-200.01,-212.27,0,-188.187 1/2:74:0,45,29:0:0:45,29:1600,1022:-212.467,-82.3742,-68.8278,-130.443,0,-121.713 1/1:87:0,86,1:0:0:86,1:3025,34:-271.473,-25.8886,0,-268.744,-22.8228,-268.443 1/1:59:0,59,0:0:0:59,0:2107,0:-189.158,-17.7608,0,-189.158,-17.7608,-189.158 chr01 33774812 . A G 15523 PASS AB=0.573077;ABP=63.3104;AC=14;AF=0.333333;AN=42;AO=870;CIGAR=1X;DP=2074;DPB=2074;DPRA=1.35119;EPP=1892.19;EPPR=2597.95;GTI=1;LEN=1;MEANALT=1.07692;MQM=51.1517;MQMR=59.5403;NS=21;NUMALT=1;ODDS=0.383805;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30851;QR=42771;RO=1203;RPL=870;RPP=1892.19;RPPR=2606.61;RPR=0;RUN=1;SAF=0;SAP=1892.19;SAR=870;SRF=1;SRP=2606.61;SRR=1202;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:46,90:46:1633:90:3181:-244.837,0,-106.304 0/1:70:32,38:32:1121:38:1360:-100.994,0,-80.0867 0/1:92:47,44:47:1667:44:1554:-111.701,0,-122.553 0/1:146:65,81:65:2336:81:2863:-213.385,0,-166.52 0/1:153:41,112:41:1449:112:3959:-308.784,0,-84.6334 0/1:119:50,69:50:1777:69:2459:-181.952,0,-124.295 0/1:138:67,71:67:2381:71:2522:-182.884,0,-172.931 1/1:125:0,125:0:0:125:4449:-397.993,-37.6288,0 0/0:204:204,0:204:7230:0:0:0,-61.4101,-650.719 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:22:22,0:22:784:0:0:0,-6.62266,-70.8839 0/0:112:112,0:112:3950:0:0:0,-33.7154,-355.657 0/0:151:151,0:151:5369:0:0:0,-45.4555,-483.276 0/1:102:41,61:41:1468:61:2167:-164.021,0,-101.705 0/1:65:28,37:28:993:37:1316:-98.8512,0,-70.1156 0/1:75:29,46:29:1025:46:1615:-122.504,0,-69.9834 0/1:127:63,64:63:2252:64:2254:-163.816,0,-164.681 0/1:77:45,32:45:1608:32:1152:-80.6008,0,-121.828 0/0:81:81,0:81:2896:0:0:0,-24.3834,-259.956 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.22 chr01 33775240 . T A 6292.03 PASS AB=0.482115;ABP=4.79678;AC=14;AF=0.333333;AN=42;AO=370;CIGAR=1X;DP=919;DPB=919;DPRA=2.00285;EPP=806.455;EPPR=1195.15;GTI=0;LEN=1;MEANALT=1;MQM=59.9514;MQMR=60;NS=21;NUMALT=1;ODDS=0.503682;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13123;QR=19578;RO=549;RPL=0;RPP=806.455;RPPR=1195.15;RPR=370;RUN=1;SAF=0;SAP=806.455;SAR=370;SRF=0;SRP=1195.15;SRR=549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:42,44:42:1500:44:1536:-112.641,0,-109.406 0/1:29:15,14:15:536:14:487:-35.43,0,-39.8449 0/1:26:13,13:13:464:13:464:-34.2707,0,-34.2707 0/1:70:41,29:41:1460:29:1036:-72.4818,0,-110.624 0/1:131:83,48:83:2972:48:1716:-115.291,0,-228.278 0/1:41:22,19:22:792:19:684:-49.5481,0,-59.2634 0/1:52:15,37:15:536:37:1298:-101.466,0,-32.9213 1/1:60:0,60:0:0:60:2131:-192.058,-18.0618,0 0/0:81:81,0:81:2872:0:0:0,-24.3834,-258.716 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7255 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/0:26:26,0:26:920:0:0:0,-7.82678,-83.1171 0/1:82:36,46:36:1284:46:1639:-123.027,0,-91.179 0/1:25:16,9:16:576:9:320:-21.6166,0,-44.6492 0/1:40:15,25:15:540:25:896:-68.9192,0,-36.8953 0/1:41:21,20:21:752:20:700:-50.9812,0,-55.664 0/1:20:14,6:14:500:6:216:-13.7699,0,-39.3156 0/0:31:31,0:31:1099:0:0:0,-9.33193,-99.2195 0/0:16:16,0:16:568:0:0:0,-4.81648,-51.4519 chr01 33805213 . C T 13207.6 PASS AB=0.328959;ABP=564.583;AC=14;AF=0.333333;AN=42;AO=892;CIGAR=1X;DP=3791;DPB=3791;DPRA=0.807325;EPP=1939.96;EPPR=6123.42;GTI=1;LEN=1;MEANALT=1;MQM=59.7702;MQMR=54.1304;NS=21;NUMALT=1;ODDS=2.81728;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31780;QR=102553;RO=2898;RPL=1;RPP=1931.29;RPPR=223.128;RPR=891;RUN=1;SAF=1;SAP=1931.29;SAR=891;SRF=1198;SRP=191.837;SRR=1700;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:105,58:105:3699:58:2049:-135.384,0,-282.225 0/1:180:96,84:96:3444:84:2984:-214.052,0,-251.786 0/1:179:107,72:107:3789:72:2563:-177.034,0,-285.845 0/1:199:113,86:113:3979:86:3076:-217.058,0,-297.105 0/1:235:174,61:174:6137:61:2175:-125.26,0,-478.681 0/1:156:100,56:100:3548:56:1996:-132.76,0,-270.337 0/1:267:164,103:164:5835:103:3688:-251.748,0,-439.734 1/1:161:0,161:0:0:161:5727:-515.546,-48.4658,0 0/0:415:414,0:414:14655:0:0:0,-124.626,-1313.66 0/0:44:42,2:42:1495:2:72:0,-6.92515,-127.342 0/0:20:20,0:20:701:0:0:0,-6.0206,-62.6736 0/0:103:103,0:103:3639:0:0:0,-31.0061,-325.545 0/0:235:235,0:235:8387:0:0:0,-70.742,-751.719 0/0:258:258,0:258:9155:0:0:0,-77.6657,-819.657 0/1:307:243,64:243:8565:64:2288:-113.538,0,-671.529 0/1:170:119,51:119:4188:51:1802:-111.284,0,-324.799 0/1:126:92,34:92:3244:34:1212:-71.4565,0,-251.265 0/1:125:86,39:86:3047:39:1400:-88.6613,0,-232.256 0/1:103:84,19:84:3011:19:680:-30.5231,0,-238.61 0/0:225:225,0:225:7873:0:0:0,-67.7317,-705.432 0/0:120:118,2:118:4162:2:68:0,-29.6659,-363.668 chr01 33805228 . T C,G 102205 PASS AB=0.689892,0.309677;ABP=731.214,734.516;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3189,877;CIGAR=1X,1X;DP=4067;DPB=4067;DPRA=1.25353,0.819598;EPP=6927.84,1907.39;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.65,1.92857;MQM=54.6309,59.8483;MQMR=60;NS=21;NUMALT=2;ODDS=26.9316;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=113243,30147;QR=36;RO=1;RPL=1193,0;RPP=442.077,1907.39;RPPR=5.18177;RPR=1996,877;RUN=1,1;SAF=1193,0;SAP=442.077,1907.39;SAR=1996,877;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:164:0,106,58:0:0:106,58:3766,2018:-468.311,-164.202,-132.293,-304.458,0,-286.998 1/2:188:0,108,80:0:0:108,80:3856,2723:-530.2,-220.958,-188.447,-309.586,0,-285.504 1/2:188:0,125,63:0:0:125,63:4452,2183:-539.181,-177.767,-140.138,-361.763,0,-342.798 1/2:216:0,127,89:0:0:127,89:4485,3075:-614.175,-250.184,-211.953,-364.339,0,-337.547 1/2:252:0,189,63:0:0:189,63:6668,2179:-717.085,-177.394,-120.499,-540.038,0,-521.073 1/2:165:0,105,60:0:0:105,60:3731,2065:-469.889,-168.042,-136.434,-302.195,0,-284.133 1/2:278:0,178,100:0:0:178,100:6299,3473:-790.481,-282.681,-229.097,-508.148,0,-478.045 2/2:156:0,0,156:0:0:0,156:0,5296:-476.784,-476.784,-476.784,-46.9607,-46.9607,0 1/1:453:0,453,0:0:0:453,0:16056,0:-1439.55,-136.367,0,-1439.55,-136.367,-1439.55 1/1:45:0,44,1:0:0:44,1:1574,36:-139.879,-13.2453,0,-136.942,-9.94808,-136.641 1/1:22:0,22,0:0:0:22,0:784,0:-70.1191,-6.62266,0,-70.1191,-6.62266,-70.1191 1/1:116:0,116,0:0:0:116,0:4115,0:-368.391,-34.9195,0,-368.391,-34.9195,-368.391 1/1:279:0,279,0:0:0:279,0:9970,0:-894.301,-83.9874,0,-894.301,-83.9874,-894.301 1/1:295:0,295,0:0:0:295,0:10516,0:-941.63,-88.8039,0,-941.63,-88.8039,-941.63 1/2:325:1,256,68:1:36:256,68:9122,2368:-925.433,-189.573,-115.447,-733.213,0,-715.68 1/2:172:0,124,48:0:0:124,48:4409,1633:-490.805,-132.801,-95.4728,-358.349,0,-343.899 1/2:133:0,102,31:0:0:102,31:3608,1070:-378.166,-87.2742,-56.5692,-291.238,0,-281.906 1/2:134:0,93,41:0:0:93,41:3277,1395:-376.158,-113.497,-85.5007,-263.004,0,-250.662 1/2:110:0,91,19:0:0:91,19:3236,633:-313.715,-51.5636,-24.1699,-262.488,0,-256.769 1/1:243:0,243,0:0:0:243,0:8595,0:-770.446,-73.1503,0,-770.446,-73.1503,-770.446 1/1:133:0,133,0:0:0:133,0:4724,0:-420.7,-40.037,0,-420.7,-40.037,-420.7 chr01 33851594 . A C,T 14808.4 PASS AB=0.604167,0.395833;ABP=34.6776,34.6776;AC=28,14;AF=0.666667,0.333333;AN=42;AO=546,147;CIGAR=1X,1X;DP=693;DPB=693;DPRA=2.61538,0.582812;EPP=1188.63,322.217;EPPR=0;GTI=4;LEN=1,1;MEANALT=1.65,1.92857;MQM=59.6136,56.4898;MQMR=0;NS=21;NUMALT=2;ODDS=0.475791;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19522,5276;QR=0;RO=0;RPL=0,0;RPP=1188.63,322.217;RPPR=0;RPR=546,147;RUN=1,1;SAF=546,147;SAP=1188.63,322.217;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:8:0,6,2:0:0:6,2:216,72:-23.8498,-6.22973,-4.42355,-17.9797,0,-17.3776 1/2:35:0,15,20:0:0:15,20:536,712:-101.955,-58.2597,-53.7442,-44.0512,0,-38.0306 1/2:17:0,9,8:0:0:9,8:324,288:-50.2771,-23.8402,-21.131,-26.7966,0,-24.3883 1/2:19:0,7,12:0:0:7,12:248,432:-55.7814,-35.5805,-33.4733,-20.557,0,-16.9446 1/2:42:0,20,22:0:0:20,22:720,792:-123.68,-64.9337,-58.9131,-59.1058,0,-52.4832 1/2:27:0,16,11:0:0:16,11:576,396:-79.6151,-32.6614,-27.8449,-47.3134,0,-44.0021 1/2:26:0,17,9:0:0:17,9:612,324:-76.454,-26.7883,-21.6708,-50.0248,0,-47.3156 2/2:13:0,0,13:0:0:0,13:0,468:-42.3709,-42.3709,-42.3709,-3.91339,-3.91339,0 1/1:26:0,26,0:0:0:26,0:936,0:-84.5586,-7.82678,0,-84.5586,-7.82678,-84.5586 1/1:80:0,80,0:0:0:80,0:2852,0:-256.788,-24.0824,0,-256.788,-24.0824,-256.788 1/1:64:0,64,0:0:0:64,0:2280,0:-205.41,-19.2659,0,-205.41,-19.2659,-205.41 1/1:90:0,90,0:0:0:90,0:3228,0:-290.719,-27.0927,0,-290.719,-27.0927,-290.719 1/1:24:0,23,1:0:0:23,1:816,36:-73.4014,-6.92369,0,-70.4661,-3.62904,-70.1651 1/1:28:0,28,0:0:0:28,0:996,0:-89.9502,-8.42884,0,-89.9502,-8.42884,-89.9502 1/2:40:0,22,18:0:0:22,18:784,644:-116.736,-52.8312,-46.2085,-64.2613,0,-58.8427 1/2:34:0,20,14:0:0:20,14:710,500:-98.9019,-41.0526,-35.032,-58.2051,0,-53.9906 1/2:22:0,14,8:0:0:14,8:500,288:-64.6149,-23.8518,-19.6374,-41.1218,0,-38.7135 1/2:58:0,51,7:0:0:51,7:1832,252:-170.287,-20.8417,-5.48919,-149.804,0,-147.696 1/2:8:0,6,2:0:0:6,2:208,72:-23.126,-6.22973,-4.42355,-17.2525,0,-16.6505 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 1/1:14:0,14,0:0:0:14,0:500,0:-45.3362,-4.21442,0,-45.3362,-4.21442,-45.3362 chr01 33851627 . GAACATTTT GAACATTCG,AAAGATTCT 14391.2 PASS AB=0.599415,0.394737;ABP=32.3696,35.9253;AC=28,14;AF=0.666667,0.333333;AN=42;AO=545,149;CIGAR=7M2X,1X2M1X3M1X1M;DP=698;DPB=698.222;DPRA=2.63462,0.594044;EPP=1186.46,326.56;EPPR=0;GTI=3;LEN=2,9;MEANALT=1.85,2.07143;MQM=59.6954,56.349;MQMR=0;NS=21;NUMALT=2;ODDS=0.413562;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,36;PQR=0;PRO=0;QA=19097,5263;QR=0;RO=0;RPL=545,149;RPP=1186.46,326.56;RPPR=0;RPR=0,0;RUN=1,1;SAF=545,149;SAP=1186.46,326.56;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:7:0,5,2:0:0:5,2:169,72:-19.9124,-6.22973,-4.72458,-14.036,0,-13.4339 1/2:36:0,16,20:0:0:16,20:555,709:-103.093,-57.9909,-53.1744,-45.4515,0,-39.4309 1/2:20:0,10,10:0:0:10,10:354,348:-57.4641,-28.6251,-25.6148,-29.1897,0,-26.1794 1/2:21:0,9,12:0:0:9,12:316,417:-59.9448,-34.2254,-31.5162,-26.0686,0,-22.4563 1/2:42:0,19,22:0:0:19,22:665,781:-117.641,-63.5392,-57.8196,-54.0943,0,-47.4717 1/2:27:0,16,11:0:0:16,11:572,392:-78.703,-32.0925,-27.276,-46.7525,0,-43.4411 1/2:25:0,16,9:0:0:16,9:572,318:-72.887,-26.2444,-21.428,-46.9972,0,-44.2879 2/2:13:0,0,13:0:0:0,13:0,450:-40.7439,-40.7439,-40.7439,-3.91339,-3.91339,0 1/1:27:0,27,0:0:0:27,0:948,0:-85.6329,-8.12781,0,-85.6329,-8.12781,-85.6329 1/1:78:0,78,0:0:0:78,0:2741,0:-246.911,-23.4803,0,-246.911,-23.4803,-246.911 1/1:64:0,62,0:0:0:62,0:2146,0:-193.007,-18.6639,0,-193.007,-18.6639,-193.007 1/1:90:0,90,0:0:0:90,0:3148,0:-283.523,-27.0927,0,-283.523,-27.0927,-283.523 1/1:24:0,23,1:0:0:23,1:798,36:-71.7743,-6.92369,0,-68.8387,-3.62904,-68.5377 1/1:28:0,28,0:0:0:28,0:973,0:-87.875,-8.42884,0,-87.875,-8.42884,-87.875 1/2:41:0,23,18:0:0:23,18:809,640:-118.325,-52.4724,-45.5487,-66.2059,0,-60.7874 1/2:34:0,20,14:0:0:20,14:700,498:-97.8218,-40.8732,-34.8526,-57.3015,0,-53.0871 1/2:22:0,14,8:0:0:14,8:504,283:-64.5257,-23.3978,-19.1834,-41.4837,0,-39.0754 1/2:59:0,51,7:0:0:51,7:1776,250:-164.751,-20.3357,-4.98322,-144.446,0,-142.339 1/2:8:0,6,2:0:0:6,2:214,69:-23.4001,-5.94708,-4.1409,-17.8007,0,-17.1986 1/1:18:0,18,0:0:0:18,0:639,0:-57.8391,-5.41854,0,-57.8391,-5.41854,-57.8391 1/1:14:0,14,0:0:0:14,0:498,0:-45.1553,-4.21442,0,-45.1553,-4.21442,-45.1553 chr01 33851644 . C T 11067.5 PASS AB=0.605422;ABP=35.0591;AC=28;AF=0.666667;AN=42;AO=535;CIGAR=1X;DP=680;DPB=680;DPRA=2.56538;EPP=1164.75;EPPR=317.874;GTI=3;LEN=1;MEANALT=1;MQM=59.6523;MQMR=56.3586;NS=21;NUMALT=1;ODDS=0.36703;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19047;QR=5154;RO=145;RPL=535;RPP=1164.75;RPPR=317.874;RPR=0;RUN=1;SAF=535;SAP=1164.75;SAR=0;SRF=145;SRP=317.874;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:7:2,5:2:72:5:171:-13.6176,0,-4.72458 0/1:35:19,16:19:675:16:568:-40.9076,0,-50.4197 0/1:19:9,10:9:303:10:357:-26.7525,0,-21.8619 0/1:21:12,9:12:428:9:316:-22.4549,0,-32.5103 0/1:41:22,19:22:777:19:684:-49.5457,0,-57.777 0/1:27:11,16:11:396:16:572:-43.6405,0,-27.8449 0/1:25:9,16:9:320:16:572:-44.1565,0,-21.6089 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0097 1/1:26:0,26:0:0:26:919:-83.0253,-7.82678,0 1/1:76:0,76:0:0:76:2723:-245.283,-22.8783,0 1/1:61:0,61:0:0:61:2188:-197.133,-18.3628,0 1/1:89:0,89:0:0:89:3170:-285.499,-26.7917,0 1/1:24:1,23:1:36:23:812:-69.8037,-3.62904,0 1/1:27:0,27:0:0:27:957:-86.4414,-8.12781,0 0/1:39:17,22:17:612:22:777:-58.5102,0,-43.6333 0/1:33:13,20:13:468:20:712:-54.4718,0,-32.4568 0/1:22:8,14:8:279:14:504:-39.0754,0,-18.8183 0/1:56:7,49:7:252:49:1729:-139.03,0,-6.09125 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72458 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 chr01 33851646 . 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G T,C 24945.7 PASS AB=0.554455,0.445545;ABP=23.822,23.822;AC=27,15;AF=0.642857,0.357143;AN=42;AO=835,396;CIGAR=1X,1X;DP=1231;DPB=1231;DPRA=1.65972,1.09044;EPP=1816.19,862.913;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.65,1.92857;MQM=59.5485,41.5455;MQMR=0;NS=21;NUMALT=2;ODDS=5.70584;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29592,13915;QR=0;RO=0;RPL=835,396;RPP=1816.19,862.913;RPPR=0;RPR=0,0;RUN=1,1;SAF=835,396;SAP=1816.19,862.913;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:0,45,52:0:0:45,52:1588,1821:-269.729,-140.449,-126.902,-129.624,0,-113.971 1/2:39:0,32,7:0:0:32,7:1131,243:-112.043,-19.9239,-10.291,-92.4648,0,-90.3576 1/2:29:0,9,20:0:0:9,20:309,720:-81.0351,-55.9466,-53.2373,-25.4314,0,-19.4108 1/2:66:0,36,30:0:0:36,30:1283,1068:-187.642,-83.0581,-72.221,-104.931,0,-95.9 1/2:171:0,96,75:0:0:96,75:3418,2643:-483.997,-205.429,-176.53,-278.914,0,-256.337 1/2:33:0,23,10:0:0:23,10:807,356:-94.2946,-28.6354,-21.7117,-66.0078,0,-62.9975 1/2:87:0,44,43:0:0:44,43:1571,1515:-250.349,-122.318,-109.073,-128.383,0,-115.438 2/2:36:0,0,36:0:0:0,36:0,1256:-111.408,-111.408,-111.408,-10.8371,-10.8371,0 1/1:100:0,100,0:0:0:100,0:3527,0:-317.633,-30.103,0,-317.633,-30.103,-317.633 1/2:13:0,11,2:0:0:11,2:383,57:-35.9624,-4.763,-1.45167,-31.4919,0,-30.8899 1/1:8:0,8,0:0:0:8,0:279,0:-25.4291,-2.40824,0,-25.4291,-2.40824,-25.4291 1/1:13:0,13,0:0:0:13,0:455,0:-41.282,-3.91339,0,-41.282,-3.91339,-41.282 1/1:96:0,96,0:0:0:96,0:3435,0:-308.684,-28.8989,0,-308.684,-28.8989,-308.684 1/1:66:0,66,0:0:0:66,0:2327,0:-209.675,-19.868,0,-209.675,-19.868,-209.675 1/2:61:0,41,20:0:0:41,20:1472,697:-173.089,-53.0099,-40.6677,-120.415,0,-114.395 1/2:48:0,21,27:0:0:21,27:748,944:-134.011,-73.1925,-66.8708,-61.1643,0,-53.0365 1/2:57:0,30,27:0:0:30,27:1059,959:-159.455,-73.2077,-64.1768,-86.5895,0,-78.4617 1/2:66:0,30,36:0:0:30,36:1039,1248:-184.475,-100.039,-91.0083,-84.78,0,-73.943 1/2:41:0,30,11:0:0:30,11:1063,388:-117.112,-30.5048,-21.4739,-86.9499,0,-83.6386 1/1:65:0,65,0:0:0:65,0:2298,0:-206.824,-19.567,0,-206.824,-19.567,-206.824 1/1:39:0,39,0:0:0:39,0:1400,0:-126.281,-11.7402,0,-126.281,-11.7402,-126.281 chr01 33902439 . G A 6575.87 PASS AB=0.454667;ABP=16.3982;AC=14;AF=0.333333;AN=42;AO=394;CIGAR=1X;DP=1197;DPB=1197;DPRA=1.38208;EPP=858.57;EPPR=1705.62;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9492;MQMR=59.995;NS=21;NUMALT=1;ODDS=10.1246;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14019;QR=28348;RO=800;RPL=394;RPP=858.57;RPPR=1714.23;RPR=0;RUN=1;SAF=0;SAP=858.57;SAR=394;SRF=1;SRP=1731.51;SRR=799;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:65,19:65:2312:19:669:-35.2474,0,-183.055 0/1:41:18,23:18:636:23:824:-62.1411,0,-45.2258 0/1:50:22,28:22:784:28:989:-74.2705,0,-55.8324 0/1:46:21,25:21:752:25:890:-66.5717,0,-54.1589 0/1:121:66,55:66:2334:55:1967:-140.88,0,-173.895 0/1:50:20,30:20:711:30:1076:-82.1014,0,-49.2641 0/1:83:44,39:44:1543:39:1381:-99.6013,0,-114.176 1/1:52:0,52:0:0:52:1848:-166.594,-15.6536,0 0/0:120:120,0:120:4250:0:0:0,-36.1236,-382.683 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:26:26,0:26:911:0:0:0,-7.82678,-82.305 0/0:72:70,0:70:2474:0:0:0,-21.0721,-222.552 0/0:49:49,0:49:1730:0:0:0,-14.7505,-155.983 0/1:107:59,48:59:2092:48:1715:-122.425,0,-156.34 0/1:45:22,23:22:775:23:798:-58.5877,0,-56.5248 0/1:40:24,15:24:855:15:540:-36.977,0,-65.3142 0/1:44:18,26:18:644:26:932:-70.9535,0,-45.0453 0/1:39:29,10:29:1019:10:354:-20.4597,0,-80.2811 0/0:77:76,1:76:2716:1:36:0,-19.581,-241.086 0/0:36:36,0:36:1274:0:0:0,-10.8371,-114.961 chr01 33908643 . A C 15553.4 PASS AB=0.567616;ABP=25.3278;AC=28;AF=0.666667;AN=42;AO=767;CIGAR=1X;DP=1070;DPB=1070;DPRA=0.872414;EPP=1668.53;EPPR=658.795;GTI=0;LEN=1;MEANALT=1.05;MQM=53.7836;MQMR=59.4636;NS=21;NUMALT=1;ODDS=8.69399;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27235;QR=10757;RO=302;RPL=0;RPP=1668.53;RPPR=658.795;RPR=767;RUN=1;SAF=767;SAP=1668.53;SAR=0;SRF=302;SRP=658.795;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:19,8:19:669:8:288:-18.1207,0,-51.1251 0/1:17:5,12:5:180:12:424:-33.2845,0,-11.4346 0/1:36:19,17:19:680:17:604:-43.8118,0,-50.6856 0/1:55:24,31:24:860:31:1089:-81.6831,0,-61.1652 0/1:145:67,78:67:2389:78:2782:-206.46,0,-171.609 0/1:33:9,24:9:324:24:856:-67.2406,0,-19.5719 0/1:71:30,41:30:1057:41:1426:-106.774,0,-74.0615 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.726 1/1:62:0,62:0:0:62:2205:-197.285,-18.6639,0 1/1:10:0,10:0:0:10:352:-31.7586,-3.0103,0 1/1:5:0,5:0:0:5:180:-16.5105,-1.50515,0 1/1:22:0,22:0:0:22:773:-69.7165,-6.62266,0 1/1:141:0,141:0:0:141:5024:-450.099,-42.4452,0 1/1:44:0,44:0:0:44:1570:-141.061,-13.2453,0 0/1:57:20,37:20:682:37:1316:-101.325,0,-44.5327 0/1:13:6,7:6:216:7:252:-18.9668,0,-15.8771 0/1:13:8,5:8:288:5:165:-11.2565,0,-22.3531 0/1:32:14,18:14:504:18:636:-46.7233,0,-36.0605 0/1:63:22,41:22:788:41:1456:-112.138,0,-52.2574 1/1:115:1,113:1:36:113:4043:-358.936,-31.0787,0 1/1:51:0,51:0:0:51:1794:-161.055,-15.3525,0 chr01 33908730 . ATA ATT,GTT 18248.6 PASS AB=0.438811,0.550699;ABP=21.6121,15.781;AC=28,14;AF=0.666667,0.333333;AN=42;AO=510,392;CIGAR=2M1X,1X1M1X;DP=908;DPB=908;DPRA=0.53961,1.54203;EPP=1110.46,854.227;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.85,2.30769;MQM=59.9706,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.04621;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18190,13335;QR=0;RO=0;RPL=0,0;RPP=1110.46,854.227;RPPR=0;RPR=510,392;RUN=1,1;SAF=0,0;SAP=1110.46,854.227;SAR=510,392;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:0,18,26:0:0:18,26:648,888:-125.285,-72.4039,-66.9854,-53.2333,0,-45.4066 1/2:12:0,5,7:0:0:5,7:180,250:-35.4277,-20.7395,-19.2343,-15.0469,0,-12.9397 1/2:59:0,21,35:0:0:21,35:748,1175:-156.125,-95.1503,-88.8287,-60.9643,0,-50.4283 1/2:32:0,10,21:0:0:10,21:360,700:-86.0881,-56.7048,-53.6945,-29.4468,0,-23.1251 1/2:65:0,32,33:0:0:32,33:1144,1134:-185.712,-92.4264,-82.7934,-93.6366,0,-83.7026 1/2:22:0,11,11:0:0:11,11:381,357:-60.1069,-29.1329,-25.8216,-31.3093,0,-27.998 1/2:52:0,15,36:0:0:15,36:540,1205:-141.733,-97.6641,-93.1486,-44.1736,0,-33.3365 2/2:77:0,0,77:0:0:0,77:0,2625:-236.496,-236.496,-236.496,-23.1793,-23.1793,0 1/1:46:0,46,0:0:0:46,0:1638,0:-147.707,-13.8474,0,-147.707,-13.8474,-147.707 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:39:0,39,0:0:0:39,0:1396,0:-125.939,-11.7402,0,-125.939,-11.7402,-125.939 1/1:33:0,33,0:0:0:33,0:1184,0:-106.868,-9.93399,0,-106.868,-9.93399,-106.868 1/1:51:0,51,0:0:0:51,0:1817,0:-163.808,-15.3525,0,-163.808,-15.3525,-163.808 1/2:78:0,34,44:0:0:34,44:1202,1501:-220.032,-122.131,-111.896,-98.2489,0,-85.0036 1/2:18:0,9,9:0:0:9,9:309,301:-49.798,-24.7053,-21.9961,-25.4314,0,-22.7222 1/2:16:0,9,7:0:0:9,7:324,249:-47.0875,-20.6484,-17.9391,-26.7966,0,-24.6894 1/2:125:0,53,72:0:0:53,72:1883,2454:-352.885,-199.441,-183.487,-153.793,0,-132.119 1/2:49:0,34,14:0:0:34,14:1216,496:-139.582,-40.4243,-30.1893,-99.1763,0,-94.9619 1/1:41:0,41,0:0:0:41,0:1456,0:-131.336,-12.3422,0,-131.336,-12.3422,-131.336 1/1:33:0,33,0:0:0:33,0:1188,0:-107.229,-9.93399,0,-107.229,-9.93399,-107.229 chr01 33912076 . TCGA CAGT,CCGT 20554.9 PASS AB=0.487365,0.50361;ABP=3.77855,3.07301;AC=28,14;AF=0.666667,0.333333;AN=42;AO=621,381;CIGAR=2X1M1X,1X2M1X;DP=1011;DPB=1011;DPRA=0.440777,1.14211;EPP=1351.49,830.341;EPPR=0;GTI=0;LEN=4,4;MEANALT=1.95,2.38462;MQM=59.7601,59.8898;MQMR=0;NS=21;NUMALT=2;ODDS=2.36323;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21782,13200;QR=0;RO=0;RPL=621,381;RPP=1351.49,830.341;RPPR=0;RPR=0,0;RUN=1,1;SAF=621,381;SAP=1351.49,830.341;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:25:0,9,16:0:0:9,16:315,562:-71.7202,-46.0921,-43.3828,-25.9784,0,-21.1619 1/2:11:0,9,2:0:0:9,2:309,72:-31.3075,-6.23466,-3.52539,-25.4296,0,-24.8275 1/2:112:0,54,57:0:0:54,57:1897,1974:-314.815,-160.416,-144.16,-154.388,0,-137.229 1/2:60:0,43,17:0:0:43,17:1536,601:-174.219,-49.3023,-36.358,-125.271,0,-120.153 1/2:28:0,13,15:0:0:13,15:465,514:-79.9908,-42.0683,-38.1549,-38.273,0,-33.7576 1/2:24:0,6,18:0:0:6,18:206,630:-68.3315,-51.6066,-49.8004,-17.0698,0,-11.6513 1/2:69:0,20,48:0:0:20,48:714,1680:-194.881,-136.677,-130.656,-58.1992,0,-43.7497 2/2:103:0,0,102:0:0:0,102:0,3480:-313.19,-313.19,-313.19,-30.7051,-30.7051,0 1/1:104:0,104,0:0:0:104,0:3671,0:-330.593,-31.3071,0,-330.593,-31.3071,-330.593 1/1:4:0,4,0:0:0:4,0:140,0:-12.9446,-1.20412,0,-12.9446,-1.20412,-12.9446 1/1:6:0,6,0:0:0:6,0:215,0:-19.6992,-1.80618,0,-19.6992,-1.80618,-19.6992 1/1:13:0,13,0:0:0:13,0:459,0:-41.6449,-3.91339,0,-41.6449,-3.91339,-41.6449 1/1:58:0,58,0:0:0:58,0:2053,0:-185.027,-17.4597,0,-185.027,-17.4597,-185.027 1/1:71:0,71,0:0:0:71,0:2467,0:-222.28,-21.3731,0,-222.28,-21.3731,-222.28 1/2:54:0,28,26:0:0:28,26:966,930:-154.631,-76.192,-67.7631,-78.7901,0,-70.9634 1/2:7:0,3,4:0:0:3,4:108,144:-20.9217,-12.1095,-11.2064,-9.17208,0,-7.96796 1/2:13:0,11,2:0:0:11,2:382,72:-37.2784,-6.23466,-2.92333,-31.4016,0,-30.7996 1/2:77:0,25,50:0:0:25,50:877,1699:-209.152,-137.78,-130.254,-71.3604,0,-56.3089 1/2:74:0,49,24:0:0:49,24:1692,842:-205.96,-68.5143,-53.7638,-137.436,0,-130.211 1/1:59:0,59,0:0:0:59,0:2045,0:-184.318,-17.7608,0,-184.318,-17.7608,-184.318 1/1:39:0,36,0:0:0:36,0:1265,0:-113.808,-10.8371,0,-113.808,-10.8371,-113.808 chr01 33912151 . TT AC,AT 24996.7 PASS AB=0.486252,0.509407;ABP=4.14475,3.54138;AC=28,14;AF=0.666667,0.333333;AN=42;AO=796,405;CIGAR=2X,1X1M;DP=1204;DPB=1204;DPRA=1.17857,1.14033;EPP=1696.93,882.457;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.8,2.14286;MQM=59.9573,60;MQMR=0;NS=21;NUMALT=2;ODDS=7.31684;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27811,14415;QR=0;RO=0;RPL=4,0;RPP=1696.93,882.457;RPPR=0;RPR=792,405;RUN=1,1;SAF=0,0;SAP=1731.5,882.457;SAR=796,405;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:34:0,20,13:0:0:20,13:709,468:-95.9429,-38.1864,-32.1658,-57.7545,0,-53.8411 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:109:0,38,71:0:0:38,71:1335,2536:-315.773,-207.118,-195.679,-109.008,0,-87.6348 1/2:96:0,50,45:0:0:50,45:1752,1608:-273.655,-131.104,-116.052,-142.546,0,-128.999 1/2:65:0,37,28:0:0:37,28:1271,1000:-185.082,-81.8865,-70.7484,-103.546,0,-95.1173 1/2:37:0,11,26:0:0:11,26:392,917:-106.972,-75.0178,-71.7065,-32.3089,0,-24.4822 1/2:59:0,32,27:0:0:32,27:1135,960:-171.058,-78.5885,-68.9555,-92.825,0,-84.6972 2/2:49:0,0,49:0:0:0,49:0,1748:-157.604,-157.604,-157.604,-14.7505,-14.7505,0 1/1:110:0,110,0:0:0:110,0:3852,0:-346.876,-33.1133,0,-346.876,-33.1133,-346.876 1/1:17:0,17,0:0:0:17,0:565,0:-51.163,-5.11751,0,-51.163,-5.11751,-51.163 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:52:0,52,0:0:0:52,0:1834,0:-165.337,-15.6536,0,-165.337,-15.6536,-165.337 1/1:76:0,76,0:0:0:76,0:2654,0:-239.104,-22.8783,0,-239.104,-22.8783,-239.104 1/1:73:0,73,0:0:0:73,0:2552,0:-229.929,-21.9752,0,-229.929,-21.9752,-229.929 1/2:115:0,52,63:0:0:52,63:1809,2235:-329.531,-182.449,-166.795,-147.433,0,-128.468 1/2:14:0,5,8:0:0:5,8:180,284:-37.8245,-23.1358,-21.6307,-14.6871,0,-12.2788 1/2:27:0,17,10:0:0:17,10:607,356:-78.8588,-29.3709,-24.2534,-49.8441,0,-46.8338 1/2:77:0,34,43:0:0:34,43:1155,1532:-218.893,-125.229,-114.994,-94.0108,0,-81.0665 1/2:54:0,38,16:0:0:38,16:1298,555:-150.787,-45.4596,-34.0204,-105.673,0,-100.856 1/1:97:0,93,4:0:0:93,4:3248,144:-292.181,-27.9958,0,-280.431,-15.8863,-279.227 1/1:32:0,32,0:0:0:32,0:1139,0:-102.82,-9.63296,0,-102.82,-9.63296,-102.82 chr01 33913757 . G C,T 36545.7 PASS AB=0.511173,0.488128;ABP=4.56308,4.76325;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1171,760;CIGAR=1X,1X;DP=1932;DPB=1932;DPRA=1.56,1.99257;EPP=2545.8,1653.33;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.75,2;MQM=39.9795,39.9487;MQMR=0;NS=21;NUMALT=2;ODDS=4.26045;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41101,26855;QR=0;RO=0;RPL=1171,760;RPP=2545.8,1653.33;RPPR=0;RPR=0,0;RUN=1,1;SAF=1171,760;SAP=2545.8,1653.33;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:84:0,55,29:0:0:55,29:1925,1025:-226.966,-79.7034,-63.1468,-147.598,0,-138.868 1/2:67:0,28,39:0:0:28,39:1003,1387:-187.68,-109.358,-100.929,-78.6662,0,-66.926 1/2:93:0,48,45:0:0:48,45:1684,1560:-252.194,-120.663,-106.214,-131.865,0,-118.319 1/2:127:0,54,73:0:0:54,73:1885,2583:-347.125,-199.794,-183.539,-147.667,0,-125.692 1/2:287:0,137,150:0:0:137,150:4830,5308:-788.332,-413.775,-372.534,-374.896,0,-329.741 1/2:74:0,39,35:0:0:39,35:1387,1244:-206.179,-97.0404,-85.3002,-109.481,0,-98.9446 1/2:174:0,92,82:0:0:92,82:3185,2877:-475.257,-225.49,-197.796,-250.104,0,-225.419 2/2:60:0,0,60:0:0:0,60:0,2111:-182.809,-182.809,-182.809,-18.0618,-18.0618,0 1/1:117:0,116,1:0:0:116,1:4055,36:-348.04,-34.9195,0,-345.26,-31.7969,-344.959 1/2:5:0,4,1:0:0:4,1:135,36:-13.696,-3.15346,-1.94934,-10.8842,0,-10.5832 1/1:8:0,8,0:0:0:8,0:284,0:-25.106,-2.40824,0,-25.106,-2.40824,-25.106 1/1:29:0,29,0:0:0:29,0:1028,0:-88.0907,-8.72987,0,-88.0907,-8.72987,-88.0907 1/1:124:0,124,0:0:0:124,0:4387,0:-378.207,-37.3277,0,-378.207,-37.3277,-378.207 1/1:53:0,53,0:0:0:53,0:1860,0:-161.736,-15.9546,0,-161.736,-15.9546,-161.736 1/2:145:0,79,65:0:0:79,65:2811,2328:-396.097,-180.053,-156.272,-216.038,0,-196.471 1/2:108:0,66,42:0:0:66,42:2307,1465:-290.31,-112.866,-92.9976,-177.776,0,-165.133 1/2:86:0,37,49:0:0:37,49:1300,1760:-235.486,-135.659,-124.52,-100.164,0,-85.4133 1/2:115:0,53,62:0:0:53,62:1830,2176:-310.09,-167.422,-151.467,-143.001,0,-124.337 1/2:67:0,40,27:0:0:40,27:1413,959:-183.051,-74.456,-62.4148,-108.933,0,-100.805 1/1:63:0,63,0:0:0:63,0:2185,0:-188.565,-18.9649,0,-188.565,-18.9649,-188.565 1/1:46:0,46,0:0:0:46,0:1607,0:-140.706,-13.8474,0,-140.706,-13.8474,-140.706 chr01 33913847 . ATC ATA,GTA 52039 PASS AB=0.540383,0.458454;ABP=27.3886,28.8118;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1574,924;CIGAR=2M1X,1X1M1X;DP=2501;DPB=2501;DPRA=0.883209,1.49829;EPP=3420.91,2009.45;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.8,2.13333;MQM=59.7611,57.9307;MQMR=0;NS=21;NUMALT=2;ODDS=3.16219;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56296,32718;QR=0;RO=0;RPL=1574,924;RPP=3420.91,2009.45;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3420.91,2009.45;SAR=1574,924;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:114:0,47,67:0:0:47,67:1684,2373:-330.83,-193.488,-179.34,-137.698,0,-117.529 1/2:142:0,71,71:0:0:71,71:2544,2524:-412.686,-205.23,-183.857,-207.812,0,-186.439 1/2:138:0,71,66:0:0:71,66:2531,2328:-395.793,-189.493,-168.12,-206.373,0,-186.505 1/2:144:0,79,65:0:0:79,65:2836,2300:-418.962,-187.624,-163.842,-231.694,0,-212.127 1/2:271:0,163,108:0:0:163,108:5836,3824:-787.572,-311.649,-262.581,-476.278,0,-443.767 1/2:76:0,40,36:0:0:40,36:1421,1274:-219.808,-104.026,-91.9849,-116.136,0,-105.299 1/2:145:0,92,53:0:0:92,53:3286,1845:-418.083,-150.183,-122.489,-268.25,0,-252.296 2/2:134:0,0,133:0:0:0,133:0,4699:-422.124,-422.124,-422.124,-40.037,-40.037,0 1/1:182:0,182,0:0:0:182,0:6520,0:-586.869,-54.7875,0,-586.869,-54.7875,-586.869 1/1:23:0,22,1:0:0:22,1:788,36:-70.8804,-6.62266,0,-67.9429,-3.32542,-67.6419 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:31:0,31,0:0:0:31,0:1116,0:-100.752,-9.33193,0,-100.752,-9.33193,-100.752 1/1:126:0,126,0:0:0:126,0:4491,0:-403.834,-37.9298,0,-403.834,-37.9298,-403.834 1/1:122:0,122,0:0:0:122,0:4317,0:-388.579,-36.7257,0,-388.579,-36.7257,-388.579 1/2:251:0,122,128:0:0:122,128:4372,4553:-727.175,-370.748,-334.022,-356.425,0,-317.893 1/2:91:0,36,55:0:0:36,55:1296,1940:-264.038,-158.288,-147.451,-106.107,0,-89.5502 1/2:129:0,78,51:0:0:78,51:2789,1801:-374.287,-146.959,-123.479,-227.682,0,-212.33 1/2:131:0,72,59:0:0:72,59:2592,2117:-384.396,-172.909,-151.235,-211.846,0,-194.085 1/2:89:0,59,30:0:0:59,30:2108,1068:-259.255,-87.3901,-69.6294,-172.221,0,-163.19 1/1:96:0,95,1:0:0:95,1:3397,36:-305.564,-28.5979,0,-302.629,-25.3023,-302.327 1/1:57:0,57,0:0:0:57,0:2048,0:-184.583,-17.1587,0,-184.583,-17.1587,-184.583 chr01 33922804 . G A 73305.2 PASS AB=0.580138;ABP=116.469;AC=28;AF=0.666667;AN=42;AO=2818;CIGAR=1X;DP=3793;DPB=3793;DPRA=0;EPP=731.035;EPPR=18.3531;GTI=0;LEN=1;MEANALT=1;MQM=59.9933;MQMR=60;NS=21;NUMALT=1;ODDS=38.7502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99919;QR=34702;RO=975;RPL=6;RPP=6070.22;RPPR=2085.59;RPR=2812;RUN=1;SAF=1901;SAP=749.121;SAR=917;SRF=533;SRP=21.4533;SRR=442;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:63,100:63:2221:100:3555:-271.092,0,-151.083 0/1:101:44,57:44:1575:57:2007:-150.496,0,-111.637 0/1:116:66,50:66:2303:50:1783:-125.833,0,-172.608 0/1:147:76,71:76:2687:71:2525:-183.249,0,-197.822 0/1:271:121,150:121:4315:150:5330:-398.255,0,-306.948 0/1:175:74,101:74:2642:101:3601:-271.615,0,-185.345 0/1:183:92,91:92:3287:91:3239:-236.643,0,-240.961 0/0:116:115,1:115:4123:1:36:0,-31.3212,-367.655 1/1:286:3,283:3:108:283:9977:-887.805,-76.0194,0 1/1:291:1,290:1:36:290:10314:-924.584,-84.0015,0 1/1:235:0,235:0:0:235:8363:-752.677,-70.7421,0 1/1:262:1,261:1:36:261:9278:-831.391,-75.2716,0 1/1:169:1,168:1:21:168:5913:-530.179,-48.7741,0 1/1:169:0,169:0:0:169:5890:-530.224,-50.8741,0 0/1:241:115,126:115:4107:126:4451:-328.21,0,-297.267 0/1:80:45,35:45:1620:35:1252:-88.9027,0,-122.008 0/1:77:44,33:44:1542:33:1180:-83.3287,0,-115.891 0/1:355:69,286:69:2463:286:10220:-812.861,0,-115.058 0/1:125:45,80:45:1616:80:2840:-218.208,0,-108.101 1/1:176:0,176:0:0:176:6237:-561.429,-52.9813,0 1/1:55:0,55:0:0:55:1928:-173.794,-16.5567,0 chr01 33922894 . GAAC GAAA 12115.4 PASS AB=0.526902;ABP=6.39844;AC=28;AF=0.666667;AN=42;AO=598;CIGAR=3M1X;DP=940;DPB=940;DPRA=0.516265;EPP=1292.88;EPPR=713.185;GTI=0;LEN=1;MEANALT=1.25;MQM=59.8244;MQMR=60;NS=21;NUMALT=1;ODDS=1.84054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21420;QR=11844;RO=335;RPL=1;RPP=1292.88;RPPR=713.185;RPR=597;RUN=1;SAF=598;SAP=1301.55;SAR=0;SRF=335;SRP=730.454;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:17,22:17:601:22:792:-59.8655,0,-42.6782 0/1:9:7,2:7:250:2:72:-4.12745,0,-20.1375 0/1:67:28,39:28:986:39:1400:-106.128,0,-68.8842 0/1:49:20,29:20:704:29:1044:-79.522,0,-48.9333 0/1:92:50,41:50:1772:41:1472:-105.02,0,-132.01 0/1:41:15,26:15:527:26:936:-72.2172,0,-35.4183 0/1:68:31,36:31:1099:36:1288:-95.6848,0,-78.6909 0/0:83:83,0:83:2930:0:0:0,-24.9855,-263.935 1/1:97:0,97:0:0:97:3469:-312.418,-29.1999,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:5:0,5:0:0:5:165:-15.1736,-1.50515,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:99:0,99:0:0:99:3526:-317.52,-29.802,0 1/1:18:0,17:0:0:17:608:-54.6972,-5.11751,0 0/1:45:19,25:19:679:25:900:-67.6998,0,-47.8339 0/1:20:15,5:15:519:5:180:-10.5315,0,-41.0168 0/1:19:12,7:12:432:7:252:-17.3094,0,-33.5016 0/1:46:22,24:22:782:24:860:-63.8698,0,-56.856 0/1:44:16,28:16:563:28:1004:-77.4305,0,-37.7536 1/1:57:0,54:0:0:54:1944:-174.866,-16.2556,0 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 chr01 33922903 . C T 13949.1 PASS AB=0.531481;ABP=7.65886;AC=28;AF=0.666667;AN=42;AO=596;CIGAR=1X;DP=931;DPB=931;DPRA=0.517683;EPP=721.258;EPPR=544.394;GTI=0;LEN=1;MEANALT=1;MQM=59.7802;MQMR=60;NS=21;NUMALT=1;ODDS=2.30966;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21327;QR=11965;RO=335;RPL=520;RPP=721.258;RPPR=544.394;RPR=76;RUN=1;SAF=596;SAP=1297.21;SAR=0;SRF=335;SRP=730.454;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:17,21:17:604:21:756:-56.9281,0,-43.2515 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:66:27,39:27:964:39:1400:-106.429,0,-67.2088 0/1:54:20,34:20:720:34:1220:-93.8465,0,-48.8732 0/1:93:51,42:51:1824:42:1512:-108.376,0,-136.445 0/1:41:15,26:15:540:26:917:-70.5024,0,-36.5943 0/1:66:31,35:31:1116:35:1244:-92.3888,0,-80.8837 0/0:82:82,0:82:2913:0:0:0,-24.6845,-262.405 1/1:93:0,93:0:0:93:3325:-299.464,-27.9958,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:96:0,96:0:0:96:3448:-310.505,-28.8989,0 1/1:18:0,18:0:0:18:648:-58.6448,-5.41854,0 0/1:44:20,24:20:716:24:841:-62.7583,0,-51.5224 0/1:20:15,5:15:531:5:180:-10.5315,0,-42.1013 0/1:19:12,7:12:432:7:252:-17.3094,0,-33.5016 0/1:45:22,23:22:777:23:816:-60.2108,0,-56.704 0/1:45:16,29:16:576:29:1036:-80.0076,0,-38.6286 1/1:56:0,56:0:0:56:2008:-180.968,-16.8577,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 chr01 33922927 . 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AAT ACAT,ATAT 34564.7 PASS AB=0.443825,0.556175;ABP=37.4095,37.4095;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1097,864;CIGAR=1M1I2M,1M1I2M;DP=1962;DPB=2616;DPRA=0.544545,1.39178;EPP=2385.12,1879.16;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.75,1.93333;MQM=35.9043,35.3762;MQMR=0;NS=21;NUMALT=2;ODDS=4.07427;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37878,29756;QR=0;RO=0;RPL=1097,864;RPP=2385.12,1879.16;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2385.12,1879.16;SAR=1097,864;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:0,33,50:0:0:33,50:1152,1771:-220.397,-133.816,-123.882,-86.9082,0,-71.8567 1/2:46:0,16,30:0:0:16,30:519,989:-109.798,-72.1964,-67.3799,-37.8976,0,-28.8667 1/2:101:0,46,55:0:0:46,55:1593,1955:-266.351,-147.274,-133.426,-119.403,0,-102.846 1/2:146:0,67,79:0:0:67,79:2378,2781:-388.165,-209.305,-189.136,-179.189,0,-155.408 1/2:178:0,77,101:0:0:77,101:2745,3527:-472.021,-265.261,-242.082,-207.089,0,-176.685 1/2:160:0,65,95:0:0:65,95:2114,3077:-377.678,-224.213,-204.646,-153.76,0,-125.162 1/2:142:0,68,74:0:0:68,74:2202,2425:-335.879,-176.4,-155.93,-159.775,0,-137.498 2/2:165:0,0,165:0:0:0,165:0,5695:-469.219,-469.219,-469.219,-49.67,-49.67,0 1/1:157:0,156,0:0:0:156,0:5466,0:-467.584,-46.9607,0,-467.584,-46.9607,-467.584 1/2:7:0,5,2:0:0:5,2:172,70:-18.2063,-5.47611,-3.97096,-13.0491,0,-12.447 1/1:8:0,8,0:0:0:8,0:262,0:-21.7108,-2.40824,0,-21.7108,-2.40824,-21.7108 1/1:19:0,19,0:0:0:19,0:646,0:-53.6423,-5.71957,0,-53.6423,-5.71957,-53.6423 1/1:119:0,119,0:0:0:119,0:4217,0:-353.747,-35.8226,0,-353.747,-35.8226,-353.747 1/1:94:0,94,0:0:0:94,0:3296,0:-276.252,-28.2968,0,-276.252,-28.2968,-276.252 1/2:149:0,53,96:0:0:53,96:1858,3358:-392.584,-252.644,-236.689,-140.266,0,-111.367 1/2:49:0,24,25:0:0:24,25:831,896:-133.093,-69.5741,-62.3494,-63.8528,0,-56.3271 1/2:47:0,24,23:0:0:24,23:860,822:-129.973,-63.5194,-56.2947,-66.7939,0,-59.8702 1/2:62:0,29,33:0:0:29,33:988,1124:-155.358,-82.7544,-74.0245,-72.9145,0,-62.9805 1/2:85:0,50,35:0:0:50,35:1732,1231:-222.194,-92.3998,-77.3483,-130.118,0,-119.582 1/1:104:0,103,1:0:0:103,1:3529,35:-290.594,-31.0061,0,-288.016,-28.1081,-287.715 1/1:41:0,41,0:0:0:41,0:1318,0:-108.1,-12.3422,0,-108.1,-12.3422,-108.1 chr01 34031944 . G A 20296.3 PASS AB=0.508791;ABP=3.62118;AC=28;AF=0.666667;AN=42;AO=1010;CIGAR=1X;DP=1559;DPB=1559;DPRA=0.737374;EPP=2196.2;EPPR=1195.15;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.89901;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36033;QR=19532;RO=549;RPL=0;RPP=2196.2;RPPR=1195.15;RPR=1010;RUN=1;SAF=0;SAP=2196.2;SAR=1010;SRF=0;SRP=1195.15;SRR=549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:59,33:59:2072:33:1180:-78.8133,0,-159.051 0/1:20:9,11:9:324:11:392:-29.5995,0,-23.4853 0/1:86:60,26:60:2156:26:932:-58.3103,0,-168.418 0/1:73:31,42:31:1108:42:1499:-113.229,0,-78.0558 0/1:95:45,50:45:1589:50:1792:-132.965,0,-114.7 0/1:67:34,33:34:1202:33:1163:-84.8071,0,-88.3152 0/1:112:48,64:48:1720:64:2276:-171.386,0,-121.37 0/0:99:99,0:99:3502:0:0:0,-29.802,-315.393 1/1:153:1,152:1:36:152:5418:-484.15,-42.4593,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 1/1:133:1,132:1:36:132:4722:-421.539,-36.4387,0 1/1:80:0,80:0:0:80:2835:-255.388,-24.0824,0 0/1:125:57,68:57:2035:68:2436:-181.867,0,-145.793 0/1:37:22,15:22:792:15:531:-36.9838,0,-60.4676 0/1:52:18,34:18:648:34:1204:-93.0104,0,-42.9983 0/1:78:43,35:43:1528:35:1235:-87.9731,0,-114.333 0/1:73:21,52:21:748:52:1860:-145.704,0,-45.6701 1/1:90:1,89:1:36:89:3182:-283.006,-23.4944,0 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 chr01 34040680 . TAT CAC 31306.1 PASS AB=0.490854;ABP=4.20196;AC=27;AF=0.642857;AN=42;AO=1625;CIGAR=1X1M1X;DP=2561;DPB=2561.67;DPRA=1.29789;EPP=3531.65;EPPR=2022.48;GTI=0;LEN=3;MEANALT=1.3;MQM=59.8862;MQMR=60;NS=21;NUMALT=1;ODDS=5.29051;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=56926;QR=32514;RO=930;RPL=0;RPP=3531.65;RPPR=2013.8;RPR=1625;RUN=1;SAF=0;SAP=3531.65;SAR=1625;SRF=1;SRP=2013.8;SRR=929;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:81,59:81:2856:59:2046:-142.263,0,-215.135 0/1:96:53,43:53:1855:43:1479:-104.494,0,-138.329 0/1:168:87,81:87:3053:81:2756:-197.705,0,-224.43 0/1:104:57,47:57:1983:47:1659:-118.29,0,-147.436 0/1:224:112,110:112:3889:110:3840:-278.711,0,-283.121 0/1:101:37,64:37:1314:64:2245:-171.9,0,-88.1582 0/1:182:88,94:88:3021:94:3315:-243.782,0,-217.34 0/0:95:95,0:95:3313:0:0:0,-28.5978,-298.394 1/1:235:0,235:0:0:235:8245:-742.053,-70.7421,0 1/1:32:1,31:1:36:31:1063:-92.3757,-6.03469,0 0/1:11:2,9:2:72:9:320:-25.8312,0,-3.52539 1/1:48:0,48:0:0:48:1702:-153.465,-14.4494,0 1/1:194:1,193:1:36:193:6747:-603.715,-55.1614,0 1/1:133:0,131:0:0:131:4585:-412.222,-39.4349,0 0/1:231:132,98:132:4658:98:3457:-241.619,0,-349.79 0/1:110:62,48:62:2145:48:1681:-118.461,0,-160.203 0/1:103:53,50:53:1860:50:1763:-127.946,0,-136.674 0/1:92:47,44:47:1649:44:1533:-110.507,0,-120.943 0/1:78:20,58:20:709:58:2073:-163.361,0,-40.656 1/1:123:2,121:2:65:121:4279:-379.118,-30.8537,0 1/1:61:0,61:0:0:61:2138:-192.682,-18.3628,0 chr01 34079867 . GC CC,CA 135839 PASS AB=0.609664,0.388139;ABP=335.92,349.389;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3734,1490;CIGAR=1X1M,2X;DP=5233;DPB=5235;DPRA=0,0.995143;EPP=8111.29,3238.5;EPPR=0;GTI=0;LEN=1,2;MEANALT=2,2.35714;MQM=59.8929,59.8409;MQMR=0;NS=21;NUMALT=2;ODDS=50.2368;PAIRED=0,0;PAIREDR=0;PAO=0.5,3.5;PQA=18,126;PQR=0;PRO=0;QA=132438,52685;QR=0;RO=0;RPL=1687,1341;RPP=78.378,2073.73;RPPR=0;RPR=2047,149;RUN=1,1;SAF=1687,1341;SAP=78.378,2073.73;SAR=2047,149;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:293:0,222,71:0:0:222,71:7851,2496:-842.954,-203.518,-136.689,-639.788,0,-618.414 1/2:159:0,65,92:0:0:65,92:2320,3208:-450.116,-260.975,-241.408,-189.24,0,-161.546 1/2:156:0,109,47:0:0:109,47:3866,1621:-446.999,-132.025,-99.2131,-315.321,0,-301.173 1/2:289:0,187,102:0:0:187,102:6681,3605:-838.66,-293.951,-237.659,-545.064,0,-514.359 1/2:495:0,304,191:0:0:304,191:10796,6752:-1429.82,-550.188,-458.675,-879.981,0,-822.484 1/2:221:0,118,103:0:0:118,103:4150,3660:-636.03,-298.218,-262.697,-337.806,0,-306.8 1/2:214:0,118,96:0:0:118,96:4163,3386:-614.626,-275.69,-240.168,-338.929,0,-310.031 2/2:252:0,1,251:0:0:1,251:36,8920:-802.34,-799.402,-799.101,-75.5585,-72.2613,0 1/1:498:0,497,0:0:0:497,0:17578,0:-1581.12,-149.612,0,-1581.12,-149.612,-1581.12 1/1:44:0,42,2:0:0:42,2:1512,72:-136.015,-12.6433,0,-130.14,-6.4086,-129.538 1/1:33:0,33,0:0:0:33,0:1166,0:-105.246,-9.93399,0,-105.246,-9.93399,-105.246 1/1:92:0,92,0:0:0:92,0:3296,0:-296.859,-27.6948,0,-296.859,-27.6948,-296.859 1/1:393:0,393,0:0:0:393,0:13904,0:-1251.13,-118.305,0,-1251.13,-118.305,-1251.13 1/1:385:0,384,0:0:0:384,0:13597,0:-1223.06,-115.596,0,-1223.06,-115.596,-1223.06 1/2:406:0,284,122:0:0:284,122:10036,4324:-1169.94,-352.609,-267.117,-817.688,0,-780.962 1/2:297:0,135,161:0:0:135,161:4817,5723:-858.962,-466.362,-425.723,-392.596,0,-344.13 1/2:274:0,136,138:0:0:136,138:4861,4880:-794.067,-397.723,-356.783,-396.64,0,-355.098 1/2:209:0,129,79:0:0:129,79:4565,2809:-600.53,-228.7,-189.867,-371.824,0,-348.043 1/2:174:0,136,35:0:0:136,35:4833,1229:-493.93,-100.095,-59.1547,-393.907,0,-383.371 1/1:278:0,278,0:0:0:278,0:9911,0:-891.89,-83.6863,0,-891.89,-83.6863,-891.89 1/1:71:0,71,0:0:0:71,0:2499,0:-225.164,-21.3731,0,-225.164,-21.3731,-225.164 chr01 34079876 . C T 95369.7 PASS AB=0.480643;ABP=16.377;AC=28;AF=0.666667;AN=42;AO=3771;CIGAR=1X;DP=6550;DPB=6550;DPRA=0;EPP=8191.63;EPPR=6024.51;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.8618;MQMR=59.9255;NS=21;NUMALT=1;ODDS=11.8197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=133321;QR=98335;RO=2777;RPL=1688;RPP=92.8549;RPPR=12.995;RPR=2083;RUN=1;SAF=1688;SAP=92.8549;SAR=2083;SRF=1333;SRP=12.6447;SRR=1444;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:377:150,227:150:5319:227:8014:-607.723,0,-365.356 0/1:247:180,67:180:6380:67:2342:-136.686,0,-499.929 0/1:208:95,113:95:3331:113:3961:-294.064,0,-237.394 0/1:373:182,191:182:6466:191:6780:-497.989,0,-469.744 0/1:665:361,304:361:12710:304:10758:-767.837,0,-943.524 0/1:342:221,121:221:7837:121:4264:-280.982,0,-602.353 0/1:332:210,122:210:7434:122:4272:-284.676,0,-569.159 0/0:642:639,1:639:22716:1:21:0,-190.813,-2041.66 1/1:495:0,495:0:0:495:17552:-1579.27,-149.01,0 1/1:47:3,44:3:108:44:1572:-131.696,-4.07324,0 1/1:31:0,31:0:0:31:1096:-98.9499,-9.33193,0 1/1:93:0,93:0:0:93:3281:-295.512,-27.9958,0 1/1:393:0,393:0:0:393:13978:-1257.78,-118.305,0 1/1:394:0,394:0:0:394:13948:-1255,-118.606,0 0/1:508:226,282:226:7981:282:9930:-740.722,0,-565.397 0/1:303:168,135:168:5952:135:4790:-340.046,0,-444.578 0/1:282:140,142:140:4999:142:5032:-367.935,0,-365.15 0/1:253:122,131:122:4263:131:4634:-341.067,0,-307.512 0/1:217:78,139:78:2771:139:4925:-378.071,0,-184.308 1/1:278:0,278:0:0:278:9791:-881.06,-83.6863,0 1/1:70:2,68:2:68:68:2380:-207.999,-14.6144,0 chr01 34160235 . TGAAGC TGGAGA,CGGAGA 40857.6 PASS AB=0.516588,0.479265;ABP=7.0445,9.31374;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1530,914;CIGAR=2M1X2M1X,1X1M1X2M1X;DP=2462;DPB=2461.83;DPRA=1.13365,2.0316;EPP=3316.68,1987.74;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.4,2.86667;MQM=39.3065,27.5055;MQMR=0;NS=21;NUMALT=2;ODDS=2.25194;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53886,32241;QR=0;RO=0;RPL=1529,914;RPP=3316.68,1987.74;RPPR=0;RPR=1,0;RUN=1,1;SAF=1530,914;SAP=3325.36,1987.74;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:221:0,112,109:0:0:112,109:3928,3871:-537.298,-232.145,-198.429,-305.456,0,-272.644 1/2:111:0,49,60:0:0:49,60:1730,2110:-251.1,-119.065,-104.314,-132.067,0,-114.005 1/2:87:0,47,40:0:0:47,40:1648,1401:-211.755,-84.4535,-70.3051,-127.599,0,-115.558 1/2:158:0,92,66:0:0:92,66:3245,2334:-385.874,-136.665,-108.97,-249.502,0,-229.634 1/2:300:0,133,163:0:0:133,163:4706,5722:-705.072,-343.988,-303.951,-361.137,0,-312.07 1/2:133:0,58,75:0:0:58,75:2044,2672:-311.767,-154.81,-137.351,-157.259,0,-134.682 1/2:121:0,77,44:0:0:77,44:2691,1553:-295.491,-89.1124,-65.9331,-206.663,0,-193.418 2/2:104:0,0,103:0:0:0,103:0,3661:-255.944,-255.944,-255.944,-31.0061,-31.0061,0 1/1:168:0,161,1:0:0:161,1:5643,36:-483.74,-48.4658,0,-481.579,-46.3072,-481.278 1/1:10:0,10,0:0:0:10,0:349,0:-30.7721,-3.0103,0,-30.7721,-3.0103,-30.7721 1/1:9:0,9,0:0:0:9,0:320,0:-27.5475,-2.70927,0,-27.5475,-2.70927,-27.5475 1/1:26:0,26,0:0:0:26,0:913,0:-79.7976,-7.82678,0,-79.7976,-7.82678,-79.7976 1/1:171:0,171,0:0:0:171,0:6019,0:-518.611,-51.4761,0,-518.611,-51.4761,-518.611 1/1:121:0,121,0:0:0:121,0:4249,0:-364.912,-36.4246,0,-364.912,-36.4246,-364.912 1/2:152:0,89,63:0:0:89,63:3139,2219:-376.425,-133.763,-106.972,-242.958,0,-223.993 1/2:121:0,66,55:0:0:66,55:2318,1953:-297.16,-117.784,-97.9159,-179.677,0,-163.12 1/2:145:0,65,80:0:0:65,80:2293,2810:-344.468,-168.708,-149.141,-176.064,0,-151.981 1/2:74:0,40,33:0:0:40,33:1434,1142:-183.905,-71.8724,-59.8312,-112.069,0,-102.135 1/2:65:0,44,21:0:0:44,21:1582,721:-168.123,-44.6552,-31.4099,-123.761,0,-117.439 1/1:97:0,93,1:0:0:93,1:3258,36:-283.026,-27.9958,0,-280.789,-25.7578,-280.488 1/1:68:0,67,0:0:0:67,0:2377,0:-200.111,-20.169,0,-200.111,-20.169,-200.111 chr01 34171396 . T C 8131.1 PASS AB=0.428843;ABP=49.3653;AC=14;AF=0.333333;AN=42;AO=517;CIGAR=1X;DP=1568;DPB=1568;DPRA=1.59411;EPP=1125.66;EPPR=2285.23;GTI=0;LEN=1;MEANALT=1;MQM=59.9923;MQMR=60;NS=21;NUMALT=1;ODDS=11.6668;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18076;QR=37313;RO=1051;RPL=517;RPP=1125.66;RPPR=2285.23;RPR=0;RUN=1;SAF=517;SAP=1125.66;SAR=0;SRF=1051;SRP=2285.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:39,35:39:1366:35:1218:-87.6456,0,-100.961 0/1:78:42,36:42:1489:36:1261:-90.3101,0,-110.822 0/1:60:35,25:35:1252:25:868:-60.3712,0,-94.9233 0/1:30:18,12:18:644:12:428:-29.8279,0,-49.2597 0/1:247:137,110:137:4887:110:3871:-274.231,0,-365.629 0/1:50:32,18:32:1140:18:635:-42.4255,0,-87.8577 0/1:95:56,39:56:2008:39:1327:-91.1229,0,-152.395 1/1:61:0,61:0:0:61:2132:-192.147,-18.3628,0 0/0:123:123,0:123:4366:0:0:0,-37.0267,-393.117 0/0:17:17,0:17:595:0:0:0,-5.11751,-53.8767 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:35:34,1:34:1212:1:36:0,-6.93777,-105.788 0/0:66:66,0:66:2350:0:0:0,-19.868,-211.758 0/0:78:77,1:77:2717:1:36:0,-19.8821,-241.173 0/1:184:111,73:111:3956:73:2583:-177.331,0,-300.844 0/1:56:37,19:37:1319:19:646:-41.5987,0,-102.153 0/1:61:33,28:33:1164:28:970:-69.2459,0,-86.7014 0/1:74:33,41:33:1171:41:1430:-106.718,0,-83.4205 0/1:45:29,16:29:1032:16:567:-37.8144,0,-79.6471 0/0:83:81,2:81:2847:2:68:0,-18.5278,-250.01 0/0:43:43,0:43:1514:0:0:0,-12.9443,-136.552 chr01 34210613 . G A 3358.62 PASS AB=0.690516;ABP=192.485;AC=14;AF=0.333333;AN=42;AO=491;CIGAR=1X;DP=864;DPB=864;DPRA=2.22789;EPP=1051.9;EPPR=795.691;GTI=6;LEN=1;MEANALT=1;MQM=22.6171;MQMR=30.8472;NS=21;NUMALT=1;ODDS=1.01425;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17589;QR=13375;RO=373;RPL=490;RPP=1060.54;RPPR=795.691;RPR=1;RUN=1;SAF=1;SAP=1060.54;SAR=490;SRF=0;SRP=812.97;SRR=373;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:19,46:19:684:46:1652:-77.8511,0,-32.0948 0/1:44:13,31:13:468:31:1104:-48.1863,0,-18.2887 0/1:51:24,27:24:864:27:968:-42.528,0,-49.3544 0/1:27:6,21:6:216:21:745:-35.3555,0,-8.67215 0/1:96:44,52:44:1580:52:1864:-81.5758,0,-90.6528 0/1:38:11,27:11:392:27:957:-38.2066,0,-16.0002 0/1:75:14,61:14:504:61:2192:-86.2903,0,-11.8505 1/1:76:0,76:0:0:76:2728:-148.046,-22.8783,0 0/0:52:52,0:52:1872:0:0:0,-15.6536,-144.434 0/0:12:12,0:12:432:0:0:0,-3.61236,-31.6401 0/0:8:8,0:8:288:0:0:0,-2.40824,-19.8123 0/0:11:11,0:11:396:0:0:0,-3.31133,-28.7149 0/0:36:36,0:36:1281:0:0:0,-10.8371,-97.2331 0/0:23:23,0:23:828:0:0:0,-6.92369,-62.4859 0/1:59:19,40:19:684:40:1435:-67.361,0,-34.1376 0/1:25:3,22:3:99:22:792:-42.4319,0,-0.870874 0/1:23:7,16:7:252:16:572:-27.0718,0,-13.4771 0/1:64:14,50:14:500:50:1796:-79.1723,0,-15.3274 0/1:34:12,22:12:432:22:784:-36.3359,0,-22.3549 0/0:26:26,0:26:919:0:0:0,-7.82678,-67.8017 0/0:19:19,0:19:684:0:0:0,-5.71957,-46.6487 chr01 34210629 . 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T C 30469 PASS AB=0.505538;ABP=3.61162;AC=14;AF=0.333333;AN=42;AO=1312;CIGAR=1X;DP=3593;DPB=3593;DPRA=1.62994;EPP=26.0557;EPPR=4.53414;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.8133;MQMR=59.9961;NS=21;NUMALT=1;ODDS=0.682216;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46071;QR=81248;RO=2280;RPL=1307;RPP=2808.72;RPPR=4858.88;RPR=5;RUN=1;SAF=710;SAP=22.3152;SAR=602;SRF=1109;SRP=6.67133;SRR=1171;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:289:145,144:145:5166:144:5060:-367.88,0,-378.082 0/1:105:69,36:69:2480:36:1292:-84.7754,0,-191.845 0/1:151:67,84:67:2373:84:2940:-219.36,0,-168.372 0/1:217:112,105:112:3977:105:3678:-265.903,0,-292.798 0/1:383:170,213:170:6033:213:7417:-552.276,0,-427.782 0/1:88:38,50:38:1364:50:1751:-131.361,0,-96.5701 0/1:115:64,51:64:2288:51:1817:-129.172,0,-171.563 1/1:169:0,169:0:0:169:5970:-537.399,-50.8741,0 0/0:367:367,0:367:13085:0:0:0,-110.478,-1177.46 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.83 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:62:62,0:62:2209:0:0:0,-18.6639,-199.073 0/0:213:212,1:212:7543:1:36:0,-60.5211,-675.316 0/0:246:245,1:245:8681:1:27:0,-71.3536,-778.576 0/1:222:103,119:103:3658:119:4154:-307.208,0,-262.594 0/1:133:47,86:47:1684:86:3043:-234.064,0,-111.81 0/1:231:115,115:115:4085:115:3995:-290.263,0,-298.352 0/1:170:81,89:81:2900:89:3156:-233.072,0,-210.061 0/1:153:104,49:104:3706:49:1735:-110.374,0,-287.685 0/0:154:154,0:154:5528:0:0:0,-46.3586,-497.643 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 chr01 34218773 . C T 10638.8 PASS AB=0.5;ABP=3.0103;AC=14;AF=0.333333;AN=42;AO=611;CIGAR=1X;DP=1763;DPB=1763;DPRA=1.18981;EPP=1329.78;EPPR=2504.55;GTI=0;LEN=1;MEANALT=1;MQM=59.563;MQMR=60;NS=21;NUMALT=1;ODDS=7.88553;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21879;QR=41160;RO=1152;RPL=611;RPP=1329.78;RPPR=2504.55;RPR=0;RUN=1;SAF=0;SAP=1329.78;SAR=611;SRF=0;SRP=2504.55;SRR=1152;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:72,73:72:2561:73:2609:-191.251,0,-187.09 0/1:103:66,37:66:2359:37:1325:-88.4292,0,-181.562 0/1:52:22,30:22:788:30:1076:-81.4922,0,-55.5912 0/1:42:19,23:19:680:23:828:-62.2009,0,-48.8859 0/1:172:74,98:74:2631:98:3505:-263.868,0,-185.26 0/1:89:38,51:38:1352:51:1824:-137.633,0,-95.1887 0/1:118:65,53:65:2332:53:1900:-135.737,0,-174.618 1/1:60:0,60:0:0:60:2152:-193.925,-18.0618,0 0/0:200:200,0:200:7172:0:0:0,-60.206,-645.534 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:40:40,0:40:1428:0:0:0,-12.0412,-128.818 0/0:114:114,0:114:4072:0:0:0,-34.3174,-366.668 0/0:96:96,0:96:3398:0:0:0,-28.8989,-306.034 0/1:78:44,34:44:1584:34:1212:-85.8971,0,-119.371 0/1:77:29,48:29:1044:48:1720:-131.905,0,-71.0955 0/1:57:26,31:26:928:31:1116:-83.2221,0,-66.6795 0/1:92:42,50:42:1512:50:1784:-133.128,0,-108.68 0/1:77:54,23:54:1923:23:828:-51.6625,0,-150.167 0/0:58:58,0:58:2072:0:0:0,-17.4597,-186.751 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.587 chr01 34222406 . ATTG GTTG,GTTA 38716.5 PASS AB=0.509091,0.483422;ABP=3.68148,5.24216;AC=28,14;AF=0.666667,0.333333;AN=42;AO=949,518;CIGAR=1X3M,1X2M1X;DP=1476;DPB=1476;DPRA=1.14032,1.25638;EPP=68.3627,59.4183;EPPR=3.73412;GTI=0;LEN=1,4;MEANALT=2.05,2.1875;MQM=59.9863,59.8301;MQMR=60;NS=21;NUMALT=2;ODDS=6.22931;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33743,18059;QR=108;RO=3;RPL=948,518;RPP=2055.06,1127.83;RPPR=9.52472;RPR=1,0;RUN=1,1;SAF=558,317;SAP=66.825,59.4183;SAR=391,201;SRF=2;SRP=3.73412;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:74:0,41,33:0:0:41,33:1448,1140:-210.889,-92.9661,-80.6239,-118.271,0,-108.337 1/2:59:0,22,37:0:0:22,37:788,1278:-168.396,-104.127,-97.5043,-64.6221,0,-53.484 1/2:30:0,15,15:0:0:15,15:540,535:-88.0317,-43.9688,-39.4534,-44.4211,0,-39.9056 1/2:72:0,37,35:0:0:37,35:1323,1220:-207.444,-99.5663,-88.4282,-108.231,0,-97.6948 1/2:134:0,61,72:0:0:61,72:2145,2501:-377.912,-203.31,-184.948,-174.592,0,-152.918 1/2:61:0,30,31:0:0:30,31:1062,1081:-174.774,-88.2661,-79.2352,-86.8591,0,-77.5271 1/2:95:1,50,44:1:36:50,44:1796,1517:-266.45,-120.231,-108.118,-143.573,0,-133.265 2/2:62:0,0,62:0:0:0,62:0,2147:-193.491,-193.491,-193.491,-18.6639,-18.6639,0 1/1:116:0,114,2:0:0:114,2:4079,72:-366.936,-34.3174,0,-361.061,-28.0828,-360.459 1/1:16:0,15,1:0:0:15,1:525,36:-47.2189,-4.51545,0,-44.2808,-1.21821,-43.9798 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:27:0,27,0:0:0:27,0:956,0:-86.3557,-8.12781,0,-86.3557,-8.12781,-86.3557 1/1:92:0,91,0:0:0:91,0:3248,0:-292.286,-27.3937,0,-292.286,-27.3937,-292.286 1/1:64:0,64,0:0:0:64,0:2248,0:-202.582,-19.2659,0,-202.582,-19.2659,-202.582 1/2:88:1,45,42:1:36:45,42:1594,1475:-246.637,-117.088,-106.48,-126.905,0,-117.199 1/2:54:0,29,25:0:0:29,25:1021,875:-154.659,-71.5394,-62.8096,-83.4702,0,-75.9445 1/2:43:0,25,18:0:0:25,18:881,619:-122.344,-50.6111,-43.0853,-72.0801,0,-66.6616 1/2:108:0,59,48:0:0:59,48:2100,1710:-310.547,-139.395,-121.635,-171.167,0,-156.718 1/2:117:1,62,52:1:36:62,52:2220,1820:-325.873,-145.127,-129.401,-178.103,0,-165.387 1/1:53:0,52,1:0:0:52,1:1842,33:-165.728,-15.6536,0,-163.061,-12.6555,-162.76 1/1:104:0,103,0:0:0:103,0:3675,0:-330.642,-31.0061,0,-330.642,-31.0061,-330.642 chr01 34284663 . G A 4779.53 PASS AB=0.460145;ABP=10.6262;AC=14;AF=0.333333;AN=42;AO=291;CIGAR=1X;DP=877;DPB=877;DPRA=1.25855;EPP=634.909;EPPR=1275.49;GTI=0;LEN=1;MEANALT=1;MQM=59.8591;MQMR=59.9642;NS=21;NUMALT=1;ODDS=8.68602;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10300;QR=20647;RO=586;RPL=0;RPP=634.909;RPPR=1275.49;RPR=291;RUN=1;SAF=0;SAP=634.909;SAR=291;SRF=0;SRP=1275.49;SRR=586;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:26,21:26:887:21:748:-53.4967,0,-65.9831 0/1:42:23,19:23:807:19:671:-48.0725,0,-60.3026 0/1:23:10,13:10:356:13:468:-35.5355,0,-25.4576 0/1:62:36,26:36:1281:26:928:-65.1654,0,-96.9274 0/1:108:56,52:56:1962:52:1838:-133.188,0,-144.329 0/1:57:32,25:32:1136:25:875:-61.907,0,-85.3902 0/1:32:15,17:15:536:17:604:-45.0576,0,-38.9419 1/1:37:0,37:0:0:37:1319:-119.011,-11.1381,0 0/0:71:71,0:71:2512:0:0:0,-21.3731,-226.331 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:6:6,0:6:197:0:0:0,-1.80618,-18.0513 0/0:13:13,0:13:459:0:0:0,-3.91339,-41.6441 0/0:66:66,0:66:2318:0:0:0,-19.868,-208.878 0/0:46:46,0:46:1635:0:0:0,-13.8474,-147.438 0/1:50:27,23:27:964:23:819:-58.9793,0,-72.0253 0/1:22:13,9:13:449:9:316:-22.1384,0,-34.1148 0/1:22:7,15:7:252:15:519:-40.4141,0,-16.4063 0/1:47:29,18:29:1027:18:631:-42.9651,0,-78.5938 0/1:40:24,16:24:856:16:564:-39.0491,0,-65.3199 0/0:51:51,0:51:1798:0:0:0,-15.3525,-162.101 0/0:28:28,0:28:963:0:0:0,-8.42884,-86.9773 chr01 34292390 . G A 37170.1 PASS AB=0.416374;ABP=210.75;AC=14;AF=0.333333;AN=42;AO=1653;CIGAR=1X;DP=5272;DPB=5272;DPRA=2.64531;EPP=3592.45;EPPR=7859.4;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.971;MQMR=59.9831;NS=21;NUMALT=1;ODDS=28.102;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58966;QR=128986;RO=3618;RPL=691;RPP=99.4865;RPPR=248.846;RPR=962;RUN=1;SAF=691;SAP=99.4865;SAR=962;SRF=1489;SRP=248.846;SRR=2129;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:366:208,158:208:7417:158:5627:-396.374,0,-557.401 0/1:276:177,99:177:6324:99:3542:-235.905,0,-486.152 0/1:238:119,119:119:4260:119:4214:-307.787,0,-311.934 0/1:326:206,120:206:7308:120:4249:-284.408,0,-559.369 0/1:492:273,218:273:9702:218:7761:-550.52,0,-725.132 0/1:225:122,103:122:4359:103:3688:-264.391,0,-324.753 0/1:355:208,147:208:7423:147:5268:-367.39,0,-561.253 1/1:224:0,224:0:0:224:7966:-716.959,-67.4307,0 0/0:478:476,2:476:16986:2:72:0,-137.056,-1521.55 0/0:33:33,0:33:1152:0:0:0,-9.93399,-103.983 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:105:105,0:105:3739:0:0:0,-31.6081,-336.712 0/0:338:337,1:337:12064:1:36:0,-98.1499,-1082.01 0/0:259:259,0:259:9212:0:0:0,-77.9668,-829.054 0/1:390:237,153:237:8470:153:5480:-375.925,0,-644.901 0/1:207:126,81:126:4494:81:2892:-198.204,0,-342.316 0/1:253:146,107:146:5196:107:3828:-268.556,0,-391.62 0/1:137:74,63:74:2631:63:2268:-163.141,0,-195.796 0/1:155:99,56:99:3547:56:2003:-133.884,0,-272.778 0/0:255:253,2:253:9011:2:72:0,-69.9259,-804.079 0/0:150:150,0:150:5331:0:0:0,-45.1545,-479.928 chr01 34304540 . TTCTT TTTTA,ATTTT 19853.6 PASS AB=0.4479,0.545879;ABP=18.1701,14.766;AC=28,14;AF=0.666667,0.333333;AN=42;AO=492,365;CIGAR=2M1X1M1X,1X1M1X2M;DP=863;DPB=863;DPRA=3.26923,1.92416;EPP=537.51,534.878;EPPR=0;GTI=1;LEN=5,5;MEANALT=1.95,2.21429;MQM=59.8272,59.6411;MQMR=0;NS=21;NUMALT=2;ODDS=0.46217;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17196,12934;QR=0;RO=0;RPL=420,332;RPP=537.51,534.878;RPPR=0;RPR=72,33;RUN=1,1;SAF=492,365;SAP=1071.37,795.598;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:53:0,34,19:0:0:34,19:1158,682:-149.919,-55.9879,-45.7529,-94.283,0,-88.5634 1/2:13:0,10,3:0:0:10,3:353,108:-37.9125,-9.17208,-6.16178,-29.0987,0,-28.1956 1/2:64:0,35,29:0:0:35,29:1222,1022:-182.956,-83.5602,-73.0241,-99.7465,0,-91.0167 1/2:63:0,21,42:0:0:21,42:735,1482:-180.543,-121.022,-114.7,-59.8712,0,-47.228 1/2:128:0,48,80:0:0:48,80:1682,2820:-366.758,-229.94,-215.49,-137.17,0,-113.087 1/2:36:0,19,16:0:0:19,16:668,561:-100.074,-45.6969,-39.9774,-54.43,0,-49.6135 1/2:48:0,12,35:0:0:12,35:424,1239:-135.501,-100.97,-97.3572,-34.5897,0,-24.0536 2/2:13:0,0,13:0:0:0,13:0,466:-42.2787,-42.2787,-42.2787,-3.91339,-3.91339,0 1/1:52:0,50,0:0:0:50,0:1763,0:-158.631,-15.0515,0,-158.631,-15.0515,-158.631 1/1:14:0,14,0:0:0:14,0:497,0:-45.065,-4.21442,0,-45.065,-4.21442,-45.065 1/1:5:0,5,0:0:0:5,0:178,0:-16.3686,-1.50515,0,-16.3686,-1.50515,-16.3686 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:29:0,29,0:0:0:29,0:988,0:-89.2259,-8.72987,0,-89.2259,-8.72987,-89.2259 1/1:42:0,42,0:0:0:42,0:1450,0:-130.784,-12.6433,0,-130.784,-12.6433,-130.784 1/2:71:0,26,44:0:0:26,44:921,1579:-203.819,-128.794,-120.967,-75.0212,0,-61.7759 1/2:18:0,10,8:0:0:10,8:358,285:-52.5102,-23.3124,-20.3021,-29.5526,0,-27.1443 1/2:35:0,13,22:0:0:13,22:447,765:-98.8426,-62.5449,-58.6315,-36.6429,0,-30.0202 1/2:84:0,41,43:0:0:41,43:1437,1548:-243.586,-126.66,-114.317,-117.282,0,-104.337 1/2:30:0,19,10:0:0:19,10:663,343:-81.7679,-27.8395,-22.1199,-53.9237,0,-50.9134 1/1:29:0,28,1:0:0:28,1:983,34:-88.4428,-8.42884,0,-85.6852,-5.33096,-85.3842 1/1:26:0,26,0:0:0:26,0:909,0:-82.1243,-7.82678,0,-82.1243,-7.82678,-82.1243 chr01 34304562 . C T 6180.29 PASS AB=0.550794;ABP=17.1283;AC=14;AF=0.333333;AN=42;AO=361;CIGAR=1X;DP=848;DPB=848;DPRA=1.90909;EPP=786.912;EPPR=1060.52;GTI=1;LEN=1;MEANALT=1;MQM=59.5429;MQMR=59.8891;NS=21;NUMALT=1;ODDS=0.368037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12922;QR=17270;RO=487;RPL=361;RPP=786.912;RPPR=1060.52;RPR=0;RUN=1;SAF=361;SAP=786.912;SAR=0;SRF=487;SRP=1060.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:34,18:34:1220:18:637:-42.0035,0,-94.4532 0/1:13:10,3:10:356:3:108:-6.16178,0,-28.4679 0/1:64:35,29:35:1256:29:1035:-74.1971,0,-94.0794 0/1:61:19,42:19:680:42:1508:-117.64,0,-42.5367 0/1:126:48,78:48:1707:78:2800:-214.293,0,-115.899 0/1:35:19,16:19:667:16:567:-40.7867,0,-49.8186 0/1:45:11,34:11:377:34:1207:-95.3714,0,-20.7116 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.161 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:29:29,0:29:1029:0:0:0,-8.72987,-92.9211 0/0:41:41,0:41:1426:0:0:0,-12.3422,-128.634 0/1:69:26,43:26:906:43:1548:-118.84,0,-61.0799 0/1:18:10,8:10:360:8:288:-20.5266,0,-27.3258 0/1:35:13,22:13:464:22:788:-60.7078,0,-31.5615 0/1:84:41,43:41:1449:43:1540:-113.597,0,-105.417 0/1:28:17,11:17:593:11:392:-27.1043,0,-45.2659 0/0:29:28,1:28:1000:1:36:0,-5.13159,-86.7171 0/0:26:26,0:26:912:0:0:0,-7.82678,-82.3931 chr01 34318299 . T G 35951.2 PASS AB=0.586656;ABP=88.0641;AC=28;AF=0.666667;AN=42;AO=1743;CIGAR=1X;DP=2408;DPB=2408;DPRA=0.961765;EPP=3787.89;EPPR=1429.72;GTI=0;LEN=1;MEANALT=1;MQM=59.9834;MQMR=60;NS=21;NUMALT=1;ODDS=24.0567;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62310;QR=23817;RO=665;RPL=0;RPP=3787.89;RPPR=1438.37;RPR=1743;RUN=1;SAF=1743;SAP=3787.89;SAR=0;SRF=664;SRP=1438.37;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:45,41:45:1612:41:1456:-105.447,0,-119.481 0/1:79:27,52:27:972:52:1851:-143.087,0,-64.0165 0/1:142:74,68:74:2633:68:2431:-176.299,0,-194.47 0/1:132:65,67:65:2336:67:2396:-176.161,0,-170.763 0/1:210:78,132:78:2800:132:4713:-360.797,0,-189.023 0/1:72:17,55:17:608:55:1972:-156.081,0,-33.3779 0/1:104:42,62:42:1508:62:2232:-169.836,0,-104.707 0/0:119:119,0:119:4263:0:0:0,-35.8226,-383.847 1/1:228:1,227:1:32:227:8095:-725.371,-65.4355,0 1/1:15:0,15:0:0:15:521:-47.2163,-4.51545,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:78:0,78:0:0:78:2783:-250.711,-23.4803,0 1/1:172:1,171:1:36:171:6098:-545.322,-48.1789,0 1/1:225:0,225:0:0:225:8041:-723.711,-67.7318,0 0/1:156:63,93:63:2241:93:3336:-253.496,0,-154.991 0/1:60:18,42:18:644:42:1512:-118.313,0,-40.2288 0/1:85:35,50:35:1256:50:1792:-135.975,0,-87.7577 0/1:84:44,40:44:1584:40:1436:-104.251,0,-117.565 0/1:94:31,63:31:1112:63:2260:-175.366,0,-72.0945 1/1:222:4,218:4:144:218:7813:-689.883,-53.515,0 1/1:41:1,40:1:36:40:1432:-125.579,-8.74396,0 chr01 34350941 . 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C T 23916.3 PASS AB=0.505731;ABP=3.40851;AC=28;AF=0.666667;AN=42;AO=1221;CIGAR=1X;DP=1989;DPB=1989;DPRA=1.33125;EPP=2637.03;EPPR=1662.03;GTI=0;LEN=1;MEANALT=1;MQM=59.9369;MQMR=59.9349;NS=21;NUMALT=1;ODDS=1.46709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43804;QR=27433;RO=768;RPL=1219;RPP=2637.03;RPPR=1662.03;RPR=2;RUN=1;SAF=0;SAP=2654.38;SAR=1221;SRF=0;SRP=1670.7;SRR=768;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:32:12,20:12:428:20:716:-55.1348,0,-29.2258 0/1:112:51,61:51:1836:61:2188:-163.47,0,-131.805 0/1:107:52,55:52:1853:55:1976:-145.904,0,-134.787 0/1:129:60,69:60:2111:69:2480:-184.62,0,-151.416 0/1:226:132,94:132:4717:94:3380:-235.954,0,-356.61 0/1:82:40,42:40:1440:42:1508:-111.33,0,-105.213 0/1:159:78,81:78:2789:81:2908:-214.091,0,-203.385 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.809 1/1:153:1,152:1:36:152:5460:-487.928,-42.4593,0 1/1:18:1,17:1:36:17:597:-50.4578,-1.82027,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:32:0,32:0:0:32:1133:-102.277,-9.63296,0 1/1:73:0,73:0:0:73:2616:-235.687,-21.9752,0 1/1:95:0,95:0:0:95:3412:-307.29,-28.5979,0 0/1:205:74,131:74:2649:131:4697:-361.176,0,-176.943 0/1:86:50,36:50:1777:36:1296:-91.0554,0,-134.322 0/1:108:59,49:59:2120:49:1764:-126.533,0,-158.555 0/1:107:65,42:65:2305:42:1512:-104.119,0,-175.499 0/1:43:17,26:17:608:26:936:-71.6128,0,-42.1077 1/1:105:4,101:4:144:101:3609:-311.653,-18.2945,0 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 chr01 34493966 . C T 13154.9 PASS AB=0.49212;ABP=3.76316;AC=14;AF=0.333333;AN=42;AO=766;CIGAR=1X;DP=1989;DPB=1989;DPRA=2.21418;EPP=1666.36;EPPR=2658.72;GTI=0;LEN=1;MEANALT=1;MQM=59.9073;MQMR=59.9297;NS=21;NUMALT=1;ODDS=1.6778;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27415;QR=43647;RO=1223;RPL=766;RPP=1666.36;RPPR=2658.72;RPR=0;RUN=1;SAF=0;SAP=1666.36;SAR=766;SRF=0;SRP=2658.72;SRR=1223;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:32:20,12:20:720:12:432:-29.5882,0,-55.4958 0/1:111:60,51:60:2152:51:1832:-131.746,0,-160.533 0/1:106:56,50:56:1997:50:1781:-128.611,0,-148.093 0/1:130:70,60:70:2504:60:2160:-155.528,0,-186.478 0/1:227:95,132:95:3351:132:4728:-357.142,0,-233.044 0/1:81:42,39:42:1512:39:1389:-100.924,0,-111.991 0/1:161:82,79:82:2910:79:2825:-206.021,0,-213.667 1/1:73:0,73:0:0:73:2610:-235.148,-21.9752,0 0/0:152:151,1:151:5416:1:36:0,-42.1583,-483.97 0/0:18:17,1:17:612:1:36:0,-1.82026,-51.8152 0/0:13:13,0:13:449:0:0:0,-3.91339,-40.7375 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/0:74:74,0:74:2622:0:0:0,-22.2762,-236.225 0/0:95:95,0:95:3363:0:0:0,-28.5978,-302.88 0/1:205:132,73:132:4729:73:2609:-173.345,0,-364.055 0/1:86:36,50:36:1277:50:1788:-135.314,0,-89.3425 0/1:107:48,59:48:1724:59:2120:-158.856,0,-123.235 0/1:107:42,65:42:1508:65:2332:-177.928,0,-103.759 0/1:43:26,17:26:936:17:593:-40.7504,0,-71.6128 0/0:104:100,4:100:3569:4:144:0,-17.9935,-308.082 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.269 chr01 34501471 . TCCTGTCGCT TCCCATTGCT,ACCCATTGCT 35559 PASS AB=0.560626,0.431551;ABP=27.4967,34.2234;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1338,376;CIGAR=3M2X1M1X3M,1X2M2X1M1X3M;DP=1734;DPB=1734;DPRA=1.79468,0.604459;EPP=2908.44,819.484;EPPR=0;GTI=0;LEN=10,10;MEANALT=2.25,2.42857;MQM=53.3049,40.0718;MQMR=0;NS=21;NUMALT=2;ODDS=3.6472;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47313,13127;QR=0;RO=0;RPL=1338,376;RPP=2908.44,819.484;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2908.44,819.484;SAR=1338,376;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:24:0,7,16:0:0:7,16:248,568:-65.0635,-44.8725,-42.7653,-20.2187,0,-15.4023 1/2:43:0,21,22:0:0:21,22:750,746:-117.238,-56.3854,-50.0638,-61.1888,0,-54.5662 1/2:38:0,15,23:0:0:15,23:540,808:-108.383,-64.3757,-59.8603,-44.3596,0,-37.4359 1/2:62:0,35,27:0:0:35,27:1254,956:-177.874,-75.7596,-65.2236,-102.464,0,-94.3363 1/2:51:0,23,28:0:0:23,28:810,975:-142.718,-77.2178,-70.2941,-65.8447,0,-57.4158 1/2:56:0,16,39:0:0:16,39:575,1351:-150.001,-103.212,-98.3956,-46.779,0,-35.0388 1/2:87:0,45,41:0:0:45,41:1605,1422:-238.925,-108.411,-94.8643,-130.593,0,-118.251 2/2:47:0,0,44:0:0:0,44:0,1558:-134.762,-134.762,-134.762,-13.2453,-13.2453,0 1/1:101:0,100,0:0:0:100,0:3567,0:-320.615,-30.103,0,-320.615,-30.103,-320.615 1/1:135:0,133,1:0:0:133,1:4626,36:-415.074,-40.037,0,-412.266,-37.2056,-411.965 1/1:304:0,298,0:0:0:298,0:10519,0:-941.784,-89.7069,0,-941.784,-89.7069,-941.784 1/1:216:0,216,0:0:0:216,0:7643,0:-685.071,-65.0225,0,-685.071,-65.0225,-685.071 1/1:41:0,41,0:0:0:41,0:1448,0:-130.486,-12.3422,0,-130.486,-12.3422,-130.486 1/1:56:0,56,0:0:0:56,0:1972,0:-177.381,-16.8577,0,-177.381,-16.8577,-177.381 1/2:65:0,26,38:0:0:26,38:921,1330:-180.312,-105.349,-97.5225,-75.0095,0,-63.5704 1/2:37:0,20,17:0:0:20,17:715,576:-103.546,-45.3291,-39.3085,-58.5584,0,-53.4409 1/2:40:0,20,20:0:0:20,20:705,708:-113.854,-56.7615,-50.7409,-57.4413,0,-51.4207 1/2:208:0,170,36:0:0:170,36:6017,1240:-584.865,-96.3876,-45.2125,-488.453,0,-477.616 1/2:56:0,32,24:0:0:32,24:1133,853:-159.722,-67.6308,-57.9979,-92.4401,0,-85.2154 1/1:43:0,40,0:0:0:40,0:1410,0:-126.193,-12.0412,0,-126.193,-12.0412,-126.193 1/1:24:0,24,0:0:0:24,0:855,0:-76.8898,-7.22472,0,-76.8898,-7.22472,-76.8898 chr01 34518746 . GAAAAAAAGTAAT GAAAAAGAAGTAAT,GAAAAAGTAAT 28954 PASS AB=0.523013,0.467573;ABP=7.40776,11.7416;AC=28,14;AF=0.666667,0.333333;AN=42;AO=923,494;CIGAR=6M1I7M,1M2D10M;DP=1431;DPB=1426.15;DPRA=1.50543,1.52119;EPP=2007.28,1075.72;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.3,2.71429;MQM=59.922,59.9555;MQMR=0;NS=21;NUMALT=2;ODDS=5.68805;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32456,17407;QR=0;RO=0;RPL=0,0;RPP=2007.28,1075.72;RPPR=0;RPR=923,494;RUN=1,1;SAF=923,494;SAP=2007.28,1075.72;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=ins,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:82:0,26,56:0:0:26,56:909,1973:-234.932,-160.986,-153.159,-74.2966,0,-57.4389 1/2:30:0,18,12:0:0:18,12:644,432:-88.122,-35.6088,-30.1903,-52.8721,0,-49.2597 1/2:53:0,25,28:0:0:25,28:888,984:-152.805,-80.4446,-72.9188,-72.7133,0,-64.2844 1/2:61:0,31,30:0:0:31,30:1067,1060:-173.331,-86.6804,-77.3484,-86.9994,0,-77.9685 1/2:118:0,76,41:0:0:76,41:2682,1421:-333.957,-115.56,-92.6816,-218.464,0,-206.122 1/2:65:0,34,29:0:0:34,29:1193,1032:-181.183,-84.104,-73.869,-97.0727,0,-88.3428 1/2:113:0,68,44:0:0:68,44:2408,1534:-320.9,-124.743,-104.273,-196.148,0,-182.903 2/2:46:0,0,45:0:0:0,45:0,1584:-142.53,-142.53,-142.53,-13.5464,-13.5464,0 1/1:102:0,100,0:0:0:100,0:3505,0:-315.298,-30.103,0,-315.298,-30.103,-315.298 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:16:0,16,0:0:0:16,0:572,0:-51.8134,-4.81648,0,-51.8134,-4.81648,-51.8134 1/1:89:0,89,0:0:0:89,0:3113,0:-280.392,-26.7917,0,-280.392,-26.7917,-280.392 1/1:79:0,78,0:0:0:78,0:2749,0:-247.019,-23.4803,0,-247.019,-23.4803,-247.019 1/2:179:0,80,96:0:0:80,96:2815,3371:-503.507,-274.354,-250.272,-229.158,0,-200.259 1/2:58:0,38,20:0:0:38,20:1311,708:-164.518,-58.025,-46.5859,-106.844,0,-100.823 1/2:34:0,15,19:0:0:15,19:528,668:-97.7103,-54.7261,-50.2106,-43.3359,0,-37.6163 1/2:91:0,46,43:0:0:46,43:1588,1528:-253.538,-124.533,-110.686,-129.02,0,-116.075 1/2:72:0,43,29:0:0:43,29:1544,1040:-211.135,-85.1845,-72.2402,-126.309,0,-117.579 1/1:75:0,72,2:0:0:72,2:2534,72:-227.686,-21.6742,0,-221.811,-15.786,-221.209 1/1:57:0,57,0:0:0:57,0:2010,0:-181.17,-17.1587,0,-181.17,-17.1587,-181.17 chr01 34544994 . G C 6369.02 PASS AB=0.487562;ABP=3.82055;AC=14;AF=0.333333;AN=42;AO=392;CIGAR=1X;DP=1208;DPB=1208;DPRA=0.875854;EPP=854.227;EPPR=1774.93;GTI=0;LEN=1;MEANALT=1;MQM=40.0357;MQMR=54.0919;NS=21;NUMALT=1;ODDS=13.686;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13932;QR=29091;RO=816;RPL=392;RPP=854.227;RPPR=1774.93;RPR=0;RUN=1;SAF=392;SAP=854.227;SAR=0;SRF=816;SRP=1774.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:20,19:20:720:19:671:-47.3945,0,-53.3222 0/1:27:17,10:17:612:10:356:-21.6858,0,-46.781 0/1:108:47,61:47:1671:61:2188:-157.193,0,-116.265 0/1:48:15,33:15:536:33:1179:-87.3751,0,-33.953 0/1:119:61,58:61:2184:58:2084:-144.69,0,-160.679 0/1:52:26,26:26:921:26:936:-62.6991,0,-65.6103 0/1:54:40,14:40:1419:14:500:-26.5085,0,-110.738 1/1:96:0,96:0:0:96:3379:-287.95,-28.8989,0 0/0:155:155,0:155:5489:0:0:0,-46.6596,-493.12 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.1566 0/0:12:12,0:12:432:0:0:0,-3.61236,-38.9394 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.21 0/0:105:105,0:105:3751:0:0:0,-31.6081,-336.451 0/0:87:87,0:87:3100:0:0:0,-26.1896,-278.673 0/1:29:13,16:13:464:16:568:-41.0627,0,-33.3362 0/1:30:20,10:20:708:10:360:-23.1287,0,-54.9967 0/1:20:10,10:10:356:10:332:-23.269,0,-25.9665 0/1:53:28,25:28:1000:25:879:-60.5267,0,-74.0967 0/1:24:12,12:12:424:12:428:-30.0334,0,-30.3222 0/0:70:68,2:68:2436:2:72:0,-14.5086,-211.674 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.5044 chr01 34617763 . GCTGT TCTGT,TCTGA 18513.7 PASS AB=0.542169,0.453012;ABP=9.42007,10.9689;AC=28,14;AF=0.666667,0.333333;AN=42;AO=589,286;CIGAR=1X4M,1X3M1X;DP=879;DPB=879;DPRA=0.412632,1.08664;EPP=1282.01,624.051;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.8,2.14286;MQM=59.7708,54.2727;MQMR=0;NS=21;NUMALT=2;ODDS=2.62245;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21008,10053;QR=0;RO=0;RPL=0,0;RPP=1282.01,624.051;RPPR=0;RPR=589,286;RUN=1,1;SAF=0,0;SAP=1282.01,624.051;SAR=589,286;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:27:0,12,15:0:0:12,15:432,507:-76.6329,-41.3739,-37.7615,-35.6088,0,-31.0934 1/2:13:0,8,5:0:0:8,5:288,180:-38.314,-14.8198,-12.4116,-23.8509,0,-22.3458 1/2:60:0,38,22:0:0:38,22:1356,780:-174.305,-63.7667,-52.3275,-110.893,0,-104.271 1/2:52:0,28,24:0:0:28,24:1000,849:-150.971,-69.4441,-61.0153,-81.8818,0,-74.6571 1/2:45:0,20,23:0:0:20,23:712,816:-124.522,-66.4913,-60.4707,-58.088,0,-51.1643 1/2:29:0,20,9:0:0:20,9:712,321:-84.44,-26.4547,-20.4341,-58.341,0,-55.6318 1/2:25:0,12,13:0:0:12,13:428,458:-72.44,-37.5476,-33.9353,-35.2464,0,-31.3331 2/2:95:0,0,94:0:0:0,94:0,3295:-295.788,-295.788,-295.788,-28.2968,-28.2968,0 1/1:78:0,78,0:0:0:78,0:2772,0:-249.693,-23.4803,0,-249.693,-23.4803,-249.693 1/1:5:0,5,0:0:0:5,0:180,0:-16.5427,-1.50515,0,-16.5427,-1.50515,-16.5427 1/1:5:0,5,0:0:0:5,0:180,0:-16.5063,-1.50515,0,-16.5063,-1.50515,-16.5063 1/1:29:0,29,0:0:0:29,0:1024,0:-92.468,-8.72987,0,-92.468,-8.72987,-92.468 1/1:79:0,79,0:0:0:79,0:2817,0:-253.766,-23.7814,0,-253.766,-23.7814,-253.766 1/1:47:0,47,0:0:0:47,0:1676,0:-151.127,-14.1484,0,-151.127,-14.1484,-151.127 1/2:66:0,28,38:0:0:28,38:1004,1339:-191.048,-109.159,-100.73,-82.2447,0,-70.8055 1/2:18:0,14,4:0:0:14,4:496,138:-51.9663,-11.5533,-7.33887,-40.7598,0,-39.5557 1/2:10:0,5,5:0:0:5,5:167,180:-28.5487,-15.0423,-13.5371,-13.8533,0,-12.3481 1/2:47:0,21,26:0:0:21,26:752,916:-136.134,-74.8049,-68.4833,-61.6846,0,-53.8578 1/2:23:0,19,4:0:0:19,4:684,141:-67.6143,-11.7988,-6.07921,-56.1684,0,-54.9643 1/1:92:0,88,4:0:0:88,4:3140,133:-282.47,-26.4906,0,-271.723,-15.4105,-270.519 1/1:34:0,33,0:0:0:33,0:1188,0:-106.93,-9.93399,0,-106.93,-9.93399,-106.93 chr01 34618694 . A G 25860.1 PASS AB=0.572068;ABP=53.4013;AC=28;AF=0.666667;AN=42;AO=1076;CIGAR=1X;DP=1613;DPB=1613;DPRA=1.39018;EPP=829.623;EPPR=830.698;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9572;MQMR=59.9888;NS=21;NUMALT=1;ODDS=9.74089;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38338;QR=19221;RO=536;RPL=858;RPP=829.623;RPPR=823.389;RPR=218;RUN=1;SAF=1076;SAP=2339.51;SAR=0;SRF=535;SRP=1158.25;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:46,69:46:1652:69:2459:-186.946,0,-114.35 0/1:108:62,46:62:2228:46:1643:-115.647,0,-168.269 0/1:73:28,45:28:1008:45:1616:-123.755,0,-69.0612 0/1:110:41,69:41:1472:69:2471:-189.53,0,-99.6628 0/1:202:94,108:94:3372:108:3819:-283.092,0,-242.887 0/1:117:52,65:52:1872:65:2325:-174.288,0,-133.539 0/1:96:46,50:46:1652:50:1762:-129.954,0,-120.07 0/0:56:56,0:56:1989:0:0:0,-16.8577,-179.282 1/1:149:0,149:0:0:149:5285:-475.785,-44.8535,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 1/1:87:0,87:0:0:87:3097:-278.954,-26.1896,0 1/1:51:0,51:0:0:51:1825:-164.53,-15.3525,0 0/1:123:49,74:49:1744:74:2615:-198.567,0,-120.218 0/1:59:23,36:23:828:36:1292:-98.823,0,-57.0833 0/1:41:10,31:10:360:31:1116:-88.4095,0,-20.4021 0/1:31:16,15:16:576:15:536:-39.2429,0,-42.8431 0/1:42:11,31:11:396:31:1116:-88.1084,0,-23.3395 1/1:82:0,81:0:0:81:2889:-259.843,-24.3834,0 1/1:40:2,38:2:72:38:1360:-115.864,-5.20448,0 chr01 34642597 . G A 14317.8 PASS AB=0.509909;ABP=4.12914;AC=14;AF=0.333333;AN=42;AO=804;CIGAR=1X;DP=1933;DPB=1933;DPRA=2.6928;EPP=1740.2;EPPR=2445.92;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9885;NS=21;NUMALT=1;ODDS=1.97964;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28691;QR=40291;RO=1129;RPL=803;RPP=1740.2;RPPR=2445.92;RPR=1;RUN=1;SAF=804;SAP=1748.87;SAR=0;SRF=1129;SRP=2454.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:49,67:49:1764:67:2380:-179.539,0,-124.124 0/1:28:10,18:10:356:18:636:-49.1386,0,-23.9524 0/1:94:40,54:40:1420:54:1936:-146.22,0,-99.8006 0/1:119:58,61:58:2072:61:2196:-162.083,0,-150.928 0/1:195:89,106:89:3192:106:3793:-282.866,0,-228.802 0/1:86:38,48:38:1345:48:1689:-126.405,0,-95.4596 0/1:173:105,68:105:3759:68:2419:-165.887,0,-286.431 1/1:133:0,133:0:0:133:4743:-427.027,-40.037,0 0/0:165:164,1:164:5879:1:36:0,-46.0717,-525.609 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:7:7,0:7:233:0:0:0,-2.10721,-21.2943 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:73:72,1:72:2584:1:36:0,-18.3769,-229.211 0/0:71:71,0:71:2531:0:0:0,-21.3731,-228.041 0/1:182:81,101:81:2876:101:3609:-270.227,0,-204.288 0/1:65:37,28:37:1319:28:1004:-71.1089,0,-99.4442 0/1:102:53,49:53:1883:49:1756:-127.619,0,-139.043 0/1:100:47,53:47:1657:53:1882:-139.554,0,-119.312 0/1:52:36,16:36:1279:16:576:-36.5214,0,-99.7589 0/0:111:111,0:111:3971:0:0:0,-33.4143,-357.58 0/0:32:32,0:32:1135:0:0:0,-9.63296,-102.458 chr01 34644123 . TCGTA CCATA,CCATT 35360.7 PASS AB=0.511504,0.483186;ABP=4.30934,5.78517;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1073,649;CIGAR=1X1M1X2M,1X1M1X1M1X;DP=1730;DPB=1730;DPRA=0.798039,1.54976;EPP=2324.32,1412.3;EPPR=0;GTI=0;LEN=5,5;MEANALT=2,2.42857;MQM=59.9991,59.5254;MQMR=0;NS=21;NUMALT=2;ODDS=1.14245;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37738,22862;QR=0;RO=0;RPL=0,0;RPP=2333,1412.3;RPPR=0;RPR=1073,649;RUN=1,1;SAF=1072,649;SAP=2324.32,1412.3;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:0,55,41:0:0:55,41:1942,1422:-273.878,-115.727,-99.1706,-158.298,0,-145.956 1/2:89:0,50,39:0:0:50,39:1731,1396:-254.859,-114.191,-99.1399,-141.02,0,-129.28 1/2:82:0,34,48:0:0:34,48:1203,1689:-235.805,-137.816,-127.581,-98.3413,0,-83.8919 1/2:78:0,42,35:0:0:42,35:1470,1233:-219.974,-100.376,-87.7331,-119.589,0,-109.053 1/2:147:0,67,80:0:0:67,80:2369,2796:-420.724,-227.777,-207.608,-193.299,0,-169.216 1/2:47:0,24,23:0:0:24,23:851,799:-134.224,-64.8889,-57.6642,-69.6851,0,-62.7614 1/2:138:0,64,73:0:0:64,73:2231,2565:-390.244,-208.807,-189.541,-181.495,0,-159.52 2/2:102:0,0,101:0:0:0,101:0,3562:-320.198,-320.198,-320.198,-30.404,-30.404,0 1/1:117:0,117,0:0:0:117,0:4136,0:-372.427,-35.2205,0,-372.427,-35.2205,-372.427 1/1:20:0,20,0:0:0:20,0:708,0:-64.0461,-6.0206,0,-64.0461,-6.0206,-64.0461 1/1:5:0,5,0:0:0:5,0:168,0:-15.4506,-1.50515,0,-15.4506,-1.50515,-15.4506 1/1:45:0,45,0:0:0:45,0:1594,0:-143.75,-13.5464,0,-143.75,-13.5464,-143.75 1/1:59:0,59,0:0:0:59,0:2068,0:-186.389,-17.7608,0,-186.389,-17.7608,-186.389 1/1:94:0,93,0:0:0:93,0:3283,0:-295.39,-27.9958,0,-295.39,-27.9958,-295.39 1/2:153:0,81,71:0:0:81,71:2813,2533:-435.207,-206.534,-182.15,-228.716,0,-207.343 1/2:44:0,30,13:0:0:30,13:1060,458:-123.694,-37.3624,-28.3315,-86.4077,0,-82.4943 1/2:66:0,35,31:0:0:35,31:1242,1095:-190.724,-89.5282,-78.9921,-101.549,0,-92.2174 1/2:121:0,58,62:0:0:58,62:2046,2181:-344.156,-177.555,-160.096,-166.671,0,-148.007 1/2:68:0,38,30:0:0:38,30:1333,1061:-195.246,-86.7687,-75.3296,-108.829,0,-99.7986 1/1:76:0,74,2:0:0:74,2:2609,72:-234.699,-22.2762,0,-228.824,-16.0416,-228.222 1/1:82:0,82,0:0:0:82,0:2881,0:-259.529,-24.6845,0,-259.529,-24.6845,-259.529 chr01 34649228 . G T 15455.6 PASS AB=0.444444;ABP=26.6552;AC=28;AF=0.666667;AN=42;AO=795;CIGAR=1X;DP=1333;DPB=1333;DPRA=1.36809;EPP=1729.33;EPPR=1160.42;GTI=1;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.07169;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28365;QR=19184;RO=537;RPL=795;RPP=1729.33;RPPR=1160.42;RPR=0;RUN=1;SAF=0;SAP=1729.33;SAR=795;SRF=0;SRP=1169.09;SRR=537;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:72,31:72:2576:31:1093:-67.6716,0,-201.083 0/1:57:28,29:28:1000:29:1025:-75.402,0,-73.1567 0/1:60:36,24:36:1296:24:864:-60.0208,0,-98.8821 0/1:56:24,32:24:843:32:1122:-84.4261,0,-59.3303 0/1:140:90,50:90:3202:50:1781:-118.427,0,-246.259 0/1:38:22,16:22:788:16:568:-40.0127,0,-59.8057 0/1:81:46,35:46:1656:35:1260:-89.3221,0,-124.945 0/0:47:47,0:47:1672:0:0:0,-14.1484,-150.767 1/1:105:0,105:0:0:105:3776:-340.037,-31.6082,0 1/1:9:0,8:0:0:8:288:-26.0408,-2.40824,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:30:0,30:0:0:30:1061:-95.7994,-9.0309,0 1/1:91:0,91:0:0:91:3258:-293.439,-27.3937,0 1/1:73:0,73:0:0:73:2564:-231.006,-21.9752,0 0/1:82:43,39:43:1540:39:1404:-101.975,0,-114.209 0/1:60:37,23:37:1328:23:824:-56.4215,0,-101.76 0/1:71:45,26:45:1608:26:936:-63.1863,0,-123.637 0/1:77:33,44:33:1171:44:1561:-117.6,0,-82.5174 0/1:57:14,43:14:504:43:1540:-121.734,0,-28.5394 1/1:57:0,57:0:0:57:2040:-183.872,-17.1587,0 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 chr01 34674150 . C T 27801.6 PASS AB=0.44167;ABP=68.1141;AC=14;AF=0.333333;AN=42;AO=1203;CIGAR=1X;DP=3715;DPB=3715;DPRA=3.94709;EPP=2615.29;EPPR=5453.41;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.8055;MQMR=59.9876;NS=21;NUMALT=1;ODDS=19.8225;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42944;QR=88926;RO=2510;RPL=534;RPP=35.9073;RPPR=35.5703;RPR=669;RUN=1;SAF=534;SAP=35.9073;SAR=669;SRF=1158;SRP=35.5703;SRR=1352;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:245:146,99:146:5180:99:3548:-245.771,0,-392.588 0/1:183:94,89:94:3317:89:3184:-231.692,0,-243.662 0/1:129:52,77:52:1825:77:2760:-209.482,0,-125.696 0/1:178:114,64:114:4017:64:2296:-153.318,0,-308.137 0/1:295:154,140:154:5463:140:4985:-359.741,0,-402.936 0/1:196:106,90:106:3757:90:3191:-228.341,0,-279.33 0/1:283:161,122:161:5692:122:4367:-307.977,0,-427.211 1/1:222:0,221:0:0:221:7891:-709.669,-66.5276,0 0/0:356:354,2:354:12572:2:72:0,-100.33,-1124.48 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/0:48:48,0:48:1699:0:0:0,-14.4494,-153.195 0/0:240:239,1:239:8506:1:36:0,-68.6489,-761.945 0/0:295:294,1:294:10432:1:36:0,-85.2056,-934.982 0/1:150:73,77:73:2573:77:2737:-201.416,0,-186.663 0/1:101:50,51:50:1776:51:1804:-132.235,0,-129.716 0/1:127:70,57:70:2474:57:2044:-146.001,0,-184.681 0/1:151:92,59:92:3212:59:2097:-143.511,0,-243.847 0/1:165:117,48:117:4152:48:1720:-105.415,0,-324.194 0/0:190:185,5:185:6549:5:176:0,-41.0107,-573.312 0/0:134:134,0:134:4766:0:0:0,-40.338,-429.1 chr01 34705817 . GTTA ATTA,ATTG 42588.2 PASS AB=0.533733,0.464018;ABP=16.1954,18.012;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1334,699;CIGAR=1X3M,1X2M1X;DP=2039;DPB=2039;DPRA=1.20864,1.39546;EPP=2899.75,1520.87;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.85,2.23077;MQM=59.9528,59.4936;MQMR=0;NS=21;NUMALT=2;ODDS=6.35363;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47755,24668;QR=0;RO=0;RPL=0,0;RPP=2899.75,1520.87;RPPR=0;RPR=1334,699;RUN=1,1;SAF=1334,699;SAP=2899.75,1520.87;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:112:0,59,52:0:0:59,52:2116,1849:-323.263,-150.672,-132.911,-172.588,0,-156.935 1/2:72:0,34,38:0:0:34,38:1224,1352:-210.399,-110.525,-100.29,-100.232,0,-88.7929 1/2:94:0,53,41:0:0:53,41:1900,1462:-274.471,-119.505,-103.55,-155.323,0,-142.981 1/2:117:0,62,54:0:0:62,54:2209,1909:-335.621,-155.566,-136.902,-180.158,0,-163.903 1/2:219:0,127,92:0:0:127,92:4556,3221:-634.016,-262.395,-224.164,-371.974,0,-344.28 1/2:98:0,55,43:0:0:55,43:1961,1533:-285.143,-125.293,-108.736,-160.207,0,-147.262 1/2:155:0,78,77:0:0:78,77:2781,2689:-445.713,-219.021,-195.541,-227.044,0,-203.864 2/2:81:0,0,80:0:0:0,80:0,2841:-255.594,-255.594,-255.594,-24.0824,-24.0824,0 1/1:205:0,203,0:0:0:203,0:7235,0:-650.694,-61.1091,0,-650.694,-61.1091,-650.694 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:25:0,25,0:0:0:25,0:900,0:-81.321,-7.52575,0,-81.321,-7.52575,-81.321 1/1:155:0,155,0:0:0:155,0:5548,0:-499.444,-46.6597,0,-499.444,-46.6597,-499.444 1/1:82:0,82,0:0:0:82,0:2922,0:-263.196,-24.6845,0,-263.196,-24.6845,-263.196 1/2:158:0,81,77:0:0:81,77:2912,2739:-461.136,-223.562,-199.179,-237.931,0,-214.752 1/2:78:0,36,42:0:0:36,42:1292,1489:-227.047,-121.657,-110.82,-105.747,0,-93.1034 1/2:73:0,44,29:0:0:44,29:1580,1029:-212.568,-83.6772,-70.4319,-129.246,0,-120.516 1/2:77:0,37,40:0:0:37,40:1328,1385:-221.231,-112.899,-101.761,-108.684,0,-96.6429 1/2:81:0,46,34:0:0:46,34:1648,1170:-229.511,-95.0977,-81.2503,-134.528,0,-124.293 1/1:91:0,91,0:0:0:91,0:3272,0:-294.699,-27.3937,0,-294.699,-27.3937,-294.699 1/1:51:0,51,0:0:0:51,0:1831,0:-165.071,-15.3525,0,-165.071,-15.3525,-165.071 chr01 34729186 . G A 14209.1 PASS AB=0.527755;ABP=11.3276;AC=14;AF=0.333333;AN=42;AO=790;CIGAR=1X;DP=1872;DPB=1872;DPRA=2.05738;EPP=1709.8;EPPR=2343.87;GTI=2;LEN=1;MEANALT=1;MQM=59.9481;MQMR=60;NS=21;NUMALT=1;ODDS=1.0346;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28183;QR=38603;RO=1082;RPL=789;RPP=1709.8;RPPR=2343.87;RPR=1;RUN=1;SAF=0;SAP=1718.47;SAR=790;SRF=0;SRP=2352.54;SRR=1082;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:36,58:36:1288:58:2052:-156.653,0,-87.9268 0/1:60:21,39:21:752:39:1404:-108.597,0,-49.9445 0/1:93:50,43:50:1784:43:1540:-110.897,0,-132.847 0/1:66:18,48:18:644:48:1690:-132.515,0,-38.4226 0/1:194:83,111:83:2939:111:3940:-296.391,0,-206.346 0/1:96:51,45:51:1820:45:1594:-114.779,0,-135.182 0/1:122:67,55:67:2404:55:1960:-139.95,0,-179.891 1/1:133:0,133:0:0:133:4756:-428.184,-40.037,0 0/0:130:129,1:129:4587:1:36:0,-35.5356,-409.399 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:85:85,0:85:3043:0:0:0,-25.5875,-274.099 0/0:107:107,0:107:3823:0:0:0,-32.2102,-344.267 0/1:163:69,94:69:2440:94:3380:-255.347,0,-170.789 0/1:69:35,34:35:1244:34:1216:-88.9755,0,-91.4936 0/1:55:26,29:26:932:29:1031:-76.546,0,-67.6422 0/1:121:56,65:56:1991:65:2336:-174.075,0,-143.039 0/1:110:75,35:75:2676:35:1248:-79.5116,0,-207.972 0/0:82:82,0:82:2932:0:0:0,-24.6845,-264.115 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 chr01 34783539 . T C 21128.5 PASS AB=0.49245;ABP=3.60053;AC=28;AF=0.666667;AN=42;AO=1079;CIGAR=1X;DP=1845;DPB=1845;DPRA=0;EPP=2346.03;EPPR=1664.19;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9842;MQMR=60;NS=21;NUMALT=1;ODDS=1.12105;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38643;QR=27372;RO=765;RPL=0;RPP=2346.03;RPPR=1664.19;RPR=1079;RUN=1;SAF=1079;SAP=2346.03;SAR=0;SRF=765;SRP=1664.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:66,59:66:2364:59:2108:-152.361,0,-175.39 0/1:82:45,37:45:1616:37:1328:-95.1378,0,-121.046 0/1:68:32,36:32:1148:36:1288:-95.7531,0,-83.1598 0/1:109:38,71:38:1360:71:2544:-196.398,0,-89.8883 0/1:188:82,106:82:2940:106:3812:-286.682,0,-208.24 0/1:91:57,34:57:1999:34:1224:-83.0733,0,-152.785 0/1:108:63,44:63:2260:44:1580:-109.961,0,-171.132 0/0:161:160,1:160:5729:1:36:0,-44.8676,-512.126 1/1:148:0,148:0:0:148:5300:-477.135,-44.5524,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 1/1:4:0,4:0:0:4:138:-12.7602,-1.20412,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:79:1,78:1:32:78:2760:-245.444,-20.5821,0 1/1:87:0,87:0:0:87:3128:-281.7,-26.1896,0 0/1:175:102,73:102:3660:73:2620:-183.367,0,-276.923 0/1:66:30,36:30:1076:36:1292:-96.7158,0,-77.2849 0/1:86:44,42:44:1584:42:1504:-109.766,0,-116.963 0/1:52:26,26:26:932:26:924:-67.8241,0,-68.5453 0/1:42:19,23:19:672:23:828:-62.2009,0,-48.1636 1/1:90:0,90:0:0:90:3228:-290.742,-27.0927,0 1/1:56:0,56:0:0:56:1997:-180.003,-16.8577,0 chr01 34812960 . GG CT,CG 58295.5 PASS AB=0.5205,0.476025;ABP=8.26318,10.1947;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1510,834;CIGAR=2X,1X1M;DP=2351;DPB=2351;DPRA=0.755137,1.38444;EPP=3281.93,1814.02;EPPR=7.35324;GTI=0;LEN=2,1;MEANALT=1.95,2.2;MQM=48.6987,49.6175;MQMR=60;NS=21;NUMALT=2;ODDS=7.11301;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51739,28921;QR=72;RO=2;RPL=700,358;RPP=20.4108,39.264;RPPR=7.35324;RPR=810,476;RUN=1,1;SAF=700,358;SAP=20.4108,39.264;SAR=810,476;SRF=0;SRP=7.35324;SRR=2;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:144:0,62,81:0:0:62,81:2177,2828:-398.206,-225.762,-207.098,-172.428,0,-148.044 1/2:102:0,53,48:0:0:53,48:1821,1650:-267.367,-128.888,-112.933,-138.451,0,-124.001 1/2:67:0,32,35:0:0:32,35:1100,1235:-183.656,-97.904,-88.271,-86.089,0,-75.553 1/2:93:0,49,44:0:0:49,44:1674,1476:-246.454,-115.068,-100.317,-131.713,0,-118.468 1/2:205:0,113,92:0:0:113,92:3856,3190:-553.792,-252.819,-218.803,-301.307,0,-273.612 1/2:111:0,49,61:0:0:49,61:1663,2069:-287.505,-158.607,-143.856,-128.992,0,-110.629 1/2:157:2,90,65:2:72:90,65:3075,2236:-412.951,-171.887,-150.669,-235.767,0,-222.076 2/2:146:0,0,146:0:0:0,146:0,5121:-447.796,-447.796,-447.796,-43.9504,-43.9504,0 1/1:187:0,187,0:0:0:187,0:6339,0:-562.323,-56.2926,0,-562.323,-56.2926,-562.323 1/1:17:0,17,0:0:0:17,0:591,0:-52.6223,-5.11751,0,-52.6223,-5.11751,-52.6223 1/1:9:0,9,0:0:0:9,0:304,0:-27.149,-2.70927,0,-27.149,-2.70927,-27.149 1/1:37:0,37,0:0:0:37,0:1260,0:-109.564,-11.1381,0,-109.564,-11.1381,-109.564 1/1:164:0,163,0:0:0:163,0:5627,0:-488.707,-49.0679,0,-488.707,-49.0679,-488.707 1/1:114:0,112,1:0:0:112,1:3784,36:-330.218,-33.7154,0,-327.438,-30.9439,-327.137 1/2:189:0,88,101:0:0:88,101:3034,3525:-523.301,-280.674,-254.183,-242.968,0,-212.564 1/2:76:0,46,30:0:0:46,30:1579,1063:-210.699,-85.8198,-71.9724,-125.223,0,-116.192 1/2:52:0,31,21:0:0:31,21:1075,738:-145.401,-58.9606,-49.6287,-86.7839,0,-80.4622 1/2:115:0,51,64:0:0:51,64:1751,2214:-309.617,-175.655,-160.302,-134.293,0,-115.027 1/2:128:0,85,43:0:0:85,43:2948,1468:-340.627,-115.182,-89.5943,-225.774,0,-212.83 1/1:125:0,123,2:0:0:123,2:4259,72:-367.869,-37.0267,0,-362.448,-31.2711,-361.846 1/1:113:0,113,0:0:0:113,0:3822,0:-309.78,-34.0164,0,-309.78,-34.0164,-309.78 chr01 34813271 . TGATA TGA,CGA 28815.5 PASS AB=0.546448,0.450273;ABP=20.1566,22.6627;AC=27,15;AF=0.642857,0.357143;AN=42;AO=935,515;CIGAR=2M2D1M,1X1M2D1M;DP=1454;DPB=873.6;DPRA=0.707292,1.17842;EPP=2033.34,1121.32;EPPR=9.52472;GTI=1;LEN=2,3;MEANALT=1.85,1.94118;MQM=52.2246,39.0971;MQMR=54.6667;NS=21;NUMALT=2;ODDS=4.31819;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32936,18150;QR=96;RO=3;RPL=935,514;RPP=2033.34,1112.65;RPPR=9.52472;RPR=0,1;RUN=1,1;SAF=935,514;SAP=2033.34,1112.65;SAR=0,1;SRF=3;SRP=9.52472;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:76:0,36,40:0:0:36,40:1257,1364:-206.475,-104.424,-93.5867,-102.388,0,-90.3467 1/2:25:0,13,12:0:0:13,12:468,432:-70.8812,-32.8606,-28.9472,-38.3666,0,-34.7542 1/2:68:0,43,25:0:0:43,25:1528,879:-192.824,-68.5106,-55.5663,-124.656,0,-117.13 1/2:51:0,30,21:0:0:30,21:1072,726:-144.128,-57.0022,-47.9713,-87.4685,0,-81.1469 1/2:158:0,78,80:0:0:78,80:2741,2823:-441.77,-219.723,-196.243,-222.391,0,-198.309 1/2:46:0,27,19:0:0:27,19:948,680:-127.237,-51.4109,-43.2831,-76.1634,0,-70.4438 1/2:106:0,54,52:0:0:54,52:1928,1838:-292.559,-137.544,-121.288,-155.354,0,-139.701 2/2:96:0,0,96:0:0:0,96:0,3417:-289.781,-289.781,-289.781,-28.8989,-28.8989,0 1/1:70:0,69,0:0:0:69,0:2413,0:-216.894,-20.7711,0,-216.894,-20.7711,-216.894 1/2:18:0,16,2:0:0:16,2:549,70:-48.7278,-5.76704,-0.950556,-43.2956,0,-42.6935 1/1:23:0,23,0:0:0:23,0:824,0:-74.1749,-6.92369,0,-74.1749,-6.92369,-74.1749 1/1:42:0,41,1:0:0:41,1:1425,34:-127.813,-12.3422,0,-125.162,-9.36255,-124.861 1/1:59:0,55,4:0:0:55,4:1936,144:-173.92,-16.5567,0,-162.646,-4.93501,-161.441 1/1:105:0,105,0:0:0:105,0:3703,0:-332.639,-31.6082,0,-332.639,-31.6082,-332.639 1/2:96:1,46,49:1:32:46,49:1605,1735:-262.313,-132.589,-121.318,-127.472,0,-115.298 1/2:73:1,45,27:1:34:45,27:1575,950:-199.35,-72.1913,-61.4,-124.709,0,-119.336 1/2:43:0,24,19:0:0:24,19:856,677:-123.848,-54.1674,-46.9427,-70.0327,0,-64.3131 1/2:95:1,45,49:1:30:45,49:1582,1736:-259.445,-131.339,-120.189,-126.054,0,-113.7 1/2:60:0,43,17:0:0:43,17:1511,573:-166.604,-43.8683,-30.924,-123.063,0,-117.946 1/1:100:0,98,2:0:0:98,2:3474,72:-310.731,-29.5009,0,-305.17,-23.5982,-304.568 1/1:44:0,44,0:0:0:44,0:1541,0:-138.399,-13.2453,0,-138.399,-13.2453,-138.399 chr01 34838061 . G A 7648.46 PASS AB=0.455964;ABP=18.1186;AC=15;AF=0.357143;AN=42;AO=474;CIGAR=1X;DP=1275;DPB=1275;DPRA=2.04512;EPP=1032.29;EPPR=1688.46;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9135;MQMR=60;NS=21;NUMALT=1;ODDS=0.663713;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16570;QR=28580;RO=800;RPL=474;RPP=1032.29;RPPR=1688.46;RPR=0;RUN=1;SAF=474;SAP=1032.29;SAR=0;SRF=800;SRP=1740.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:50,37:50:1792:37:1298:-90.7975,0,-135.373 0/1:82:47,35:47:1684:35:1199:-83.5219,0,-127.163 0/1:34:16,18:16:572:18:644:-48.0556,0,-41.5784 0/1:90:52,38:52:1860:38:1303:-90.4702,0,-140.587 0/1:186:91,95:91:3259:95:3282:-239.606,0,-237.538 0/1:44:22,22:22:777:22:792:-58.3522,0,-57.005 0/1:57:34,23:34:1220:23:828:-57.6854,0,-92.9481 1/1:62:0,62:0:0:62:2178:-196.283,-18.6639,0 0/0:37:37,0:37:1309:0:0:0,-11.1381,-118.11 0/1:8:7,1:7:252:1:36:-1.19004,0,-20.6207 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/0:103:102,1:102:3628:1:36:0,-27.4078,-323.126 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 0/1:64:25,39:25:900:39:1342:-101.808,0,-62.0551 0/1:74:45,29:45:1607:29:1039:-71.5474,0,-122.643 0/1:41:19,21:19:676:21:732:-53.799,0,-48.7672 0/1:66:35,31:35:1233:31:1096:-79.082,0,-91.4041 0/1:64:44,20:44:1575:20:697:-43.7847,0,-122.775 0/0:44:42,2:42:1504:2:68:0,-6.78761,-129.197 0/0:53:53,0:53:1900:0:0:0,-15.9546,-171.278 chr01 34838331 . G A 8293.73 PASS AB=0.472767;ABP=8.9239;AC=14;AF=0.333333;AN=42;AO=494;CIGAR=1X;DP=1412;DPB=1412;DPRA=1.79967;EPP=1075.72;EPPR=1996.42;GTI=0;LEN=1;MEANALT=1;MQM=59.9798;MQMR=59.9913;NS=21;NUMALT=1;ODDS=6.13037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17500;QR=32409;RO=918;RPL=0;RPP=1075.72;RPPR=1996.42;RPR=494;RUN=1;SAF=0;SAP=1075.72;SAR=494;SRF=0;SRP=1996.42;SRR=918;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:60,43:60:2134:43:1527:-106.716,0,-161.321 0/1:62:28,34:28:1004:34:1209:-90.4511,0,-72.012 0/1:69:32,37:32:1129:37:1328:-99.0512,0,-81.1453 0/1:61:34,27:34:1177:27:957:-68.081,0,-87.8666 0/1:127:74,53:74:2594:53:1876:-130.886,0,-195.474 0/1:94:39,55:39:1391:55:1959:-148.288,0,-97.1914 0/1:75:37,38:37:1320:38:1349:-99.131,0,-96.5247 1/1:59:0,59:0:0:59:2105:-189.718,-17.7608,0 0/0:128:127,1:127:4496:1:36:0,-34.9336,-401.212 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:104:104,0:104:3695:0:0:0,-31.3071,-332.752 0/0:41:41,0:41:1439:0:0:0,-12.3422,-129.802 0/1:104:52,52:52:1847:52:1831:-133.761,0,-135.202 0/1:26:15,11:15:540:11:371:-25.887,0,-41.1098 0/1:44:24,20:24:851:20:720:-51.8835,0,-63.6641 0/1:106:55,51:55:1886:51:1784:-128.929,0,-138.103 0/1:47:34,13:34:1183:13:448:-26.4994,0,-92.6227 0/0:75:75,0:75:2651:0:0:0,-22.5772,-238.835 0/0:45:45,0:45:1564:0:0:0,-13.5463,-141.048 chr01 34838358 . C G 18502.8 PASS AB=0.528403;ABP=9.54799;AC=28;AF=0.666667;AN=42;AO=921;CIGAR=1X;DP=1423;DPB=1423;DPRA=1.13583;EPP=1968.34;EPPR=1062.85;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9913;MQMR=59.98;NS=21;NUMALT=1;ODDS=5.75652;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32908;QR=17859;RO=500;RPL=917;RPP=1968.34;RPPR=1062.85;RPR=4;RUN=1;SAF=0;SAP=2002.94;SAR=921;SRF=0;SRP=1088.75;SRR=500;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:44,60:44:1557:60:2144:-161.921,0,-109.099 0/1:65:35,30:35:1241:30:1076:-77.5859,0,-92.4256 0/1:72:39,33:39:1400:33:1172:-84.1133,0,-104.625 0/1:61:27,34:27:960:34:1188:-88.8587,0,-68.3534 0/1:133:56,77:56:2004:77:2768:-209.324,0,-140.597 0/1:95:54,41:54:1940:41:1472:-104.178,0,-146.278 0/1:75:40,35:40:1432:35:1256:-90.768,0,-106.6 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 1/1:127:0,126:0:0:126:4489:-403.82,-37.9298,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:19:0,19:0:0:19:665:-60.1736,-5.71957,0 1/1:102:0,102:0:0:102:3642:-327.982,-30.7051,0 1/1:41:0,41:0:0:41:1476:-133.136,-12.3422,0 0/1:105:50,55:50:1796:55:1959:-144.977,0,-130.314 0/1:25:10,15:10:360:15:536:-41.0491,0,-25.2186 0/1:45:20,25:20:697:25:891:-66.9624,0,-49.5043 0/1:105:51,54:51:1812:54:1930:-142.368,0,-131.751 0/1:48:14,34:14:504:34:1220:-95.6574,0,-31.2487 1/1:73:0,72:0:0:72:2588:-232.809,-21.6742,0 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 chr01 34901934 . C T 30923.4 PASS AB=0.550678;ABP=37.5646;AC=28;AF=0.666667;AN=42;AO=1541;CIGAR=1X;DP=2327;DPB=2327;DPRA=1.24278;EPP=3288.72;EPPR=1658.07;GTI=0;LEN=1;MEANALT=1;MQM=51.878;MQMR=59.5013;NS=21;NUMALT=1;ODDS=9.95879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55081;QR=28104;RO=786;RPL=1534;RPP=3288.72;RPPR=1658.07;RPR=7;RUN=1;SAF=0;SAP=3349.25;SAR=1541;SRF=0;SRP=1709.79;SRR=786;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:208:86,122:86:3084:122:4372:-329.984,0,-215.146 0/1:84:37,47:37:1320:47:1692:-126.648,0,-93.7909 0/1:119:46,73:46:1640:73:2604:-198.206,0,-111.253 0/1:134:70,64:70:2508:64:2285:-164.669,0,-185.5 0/1:289:134,155:134:4796:155:5557:-409.376,0,-344.656 0/1:86:43,43:43:1544:43:1529:-111.677,0,-113.142 0/1:138:76,62:76:2701:62:2232:-158.545,0,-201.751 0/0:90:90,0:90:3220:0:0:0,-27.0927,-289.976 1/1:209:0,209:0:0:209:7434:-664.746,-62.9153,0 1/1:7:0,7:0:0:7:252:-22.9963,-2.10721,0 1/1:13:0,13:0:0:13:464:-41.9957,-3.91339,0 1/1:43:0,43:0:0:43:1502:-134.785,-12.9443,0 1/1:134:0,134:0:0:134:4789:-429.522,-40.338,0 1/1:133:0,133:0:0:133:4772:-427.532,-40.037,0 0/1:106:49,57:49:1747:57:2032:-150.664,0,-125.595 0/1:89:35,54:35:1256:54:1933:-146.585,0,-86.5523 0/1:100:32,68:32:1148:68:2434:-186.724,0,-73.525 0/1:111:59,52:59:2108:52:1872:-134.813,0,-156.575 0/1:85:29,56:29:1032:56:1989:-153.158,0,-67.6059 1/1:57:0,57:0:0:57:2037:-182.774,-17.1587,0 1/1:92:0,92:0:0:92:3300:-295.877,-27.6948,0 chr01 34912512 . GATGT AATGT,AATGC 45917.2 PASS AB=0.498755,0.499585;ABP=3.02652,3.0121;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1062,709;CIGAR=1X4M,1X3M1X;DP=1775;DPB=1775.6;DPRA=0.795238,1.51213;EPP=2231.6,1516.64;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.95,2.0625;MQM=55.4802,49.2849;MQMR=0;NS=21;NUMALT=2;ODDS=0.0370206;PAIRED=0,0;PAIREDR=0;PAO=0,3;PQA=0,108;PQR=0;PRO=0;QA=37310,24408;QR=0;RO=0;RPL=555,363;RPP=7.72129,3.89543;RPPR=0;RPR=507,346;RUN=1,1;SAF=548,360;SAP=5.37397,3.38089;SAR=514,349;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,51,45:0:0:51,45:1783,1543:-266.157,-122.494,-107.142,-143.744,0,-130.198 1/2:38:0,11,27:0:0:11,27:377,920:-103.221,-72.6726,-69.3613,-30.8871,0,-22.7593 1/2:46:0,22,24:0:0:22,24:762,813:-126.708,-64.9595,-58.3368,-62.0876,0,-54.8629 1/2:106:0,44,62:0:0:44,62:1555,2147:-293.343,-167.223,-153.978,-126.104,0,-107.44 1/2:162:0,70,92:0:0:70,92:2472,3104:-445.605,-244.79,-223.718,-201.157,0,-173.463 1/2:90:0,50,40:0:0:50,40:1775,1393:-255.086,-110.761,-95.7098,-144.671,0,-132.629 1/2:128:0,65,63:0:0:65,63:2306,2192:-361.03,-173.365,-153.798,-188.011,0,-169.046 2/2:105:0,0,105:0:0:0,105:0,3622:-319.631,-319.631,-319.631,-31.6082,-31.6082,0 1/1:99:0,98,1:0:0:98,1:3437,36:-308.18,-29.5009,0,-305.242,-26.2037,-304.941 1/2:16:0,14,2:0:0:14,2:496,63:-45.6989,-5.29077,-1.07635,-40.7237,0,-40.1217 1/1:4:0,3,0:0:0:3,0:108,0:-9.7989,-0.90309,0,-9.7989,-0.90309,-9.7989 1/1:22:0,22,0:0:0:22,0:788,0:-71.1901,-6.62266,0,-71.1901,-6.62266,-71.1901 1/1:104:0,104,0:0:0:104,0:3687,0:-330.868,-31.3071,0,-330.868,-31.3071,-330.868 1/1:62:0,61,1:0:0:61,1:2138,35:-192,-18.3628,0,-189.152,-15.1652,-188.851 1/2:144:0,76,68:0:0:76,68:2633,2312:-397.505,-183.74,-160.861,-214.105,0,-193.635 1/2:28:0,14,14:0:0:14,14:504,487:-79.0049,-37.9479,-33.7335,-41.4026,0,-37.1882 1/2:27:0,13,14:0:0:13,14:449,485:-74.2164,-37.8158,-33.9024,-36.7386,0,-32.5242 1/2:188:0,97,91:0:0:97,91:3351,3161:-526.023,-254.042,-224.842,-272.325,0,-244.931 1/2:134:0,74,60:0:0:74,60:2589,2095:-377.17,-166.869,-144.592,-210.287,0,-192.226 1/1:75:0,75,0:0:0:75,0:2639,0:-237.316,-22.5773,0,-237.316,-22.5773,-237.316 1/1:99:0,98,0:0:0:98,0:3461,0:-310.709,-29.5009,0,-310.709,-29.5009,-310.709 chr01 34913546 . G A 11908.2 PASS AB=0.391304;ABP=97.4221;AC=27;AF=0.642857;AN=42;AO=659;CIGAR=1X;DP=1276;DPB=1276;DPRA=1.0693;EPP=1434.01;EPPR=1340.64;GTI=2;LEN=1;MEANALT=1.05;MQM=59.5417;MQMR=59.9237;NS=21;NUMALT=1;ODDS=3.48326;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23295;QR=21468;RO=616;RPL=0;RPP=1434.01;RPPR=1340.64;RPR=659;RUN=1;SAF=0;SAP=1434.01;SAR=659;SRF=0;SRP=1340.64;SRR=616;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:36,26:36:1261:26:904:-62.995,0,-95.1263 0/1:29:9,20:9:324:20:696:-54.2295,0,-20.776 0/1:44:24,20:24:834:20:716:-51.5224,0,-62.1196 0/1:22:9,13:9:315:13:440:-33.2931,0,-22.0646 0/1:123:54,68:54:1905:68:2394:-178.613,0,-134.639 0/1:37:13,24:13:453:24:864:-66.9363,0,-29.9615 0/1:86:45,41:45:1553:41:1436:-103.552,0,-114.165 0/0:57:57,0:57:2010:0:0:0,-17.1587,-181.172 1/1:122:0,122:0:0:122:4299:-387.037,-36.7257,0 0/1:10:6,4:6:212:4:144:-10.3033,0,-16.4145 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:46:0,46:0:0:46:1629:-146.884,-13.8474,0 1/1:42:0,42:0:0:42:1493:-134.564,-12.6433,0 0/1:62:39,23:39:1340:23:816:-55.0611,0,-102.228 0/1:39:14,25:14:504:25:888:-68.4965,0,-33.9579 0/1:39:14,25:14:481:25:900:-69.5703,0,-31.8749 0/1:332:285,47:285:9888:47:1674:-50.9529,0,-789.813 0/1:35:11,24:11:388:24:856:-66.8189,0,-24.718 1/1:44:0,44:0:0:44:1568:-141.402,-13.2453,0 1/1:31:0,31:0:0:31:1078:-97.3236,-9.33193,0 chr01 34932551 . A G 11214 PASS AB=0.267742;ABP=438.762;AC=26;AF=0.619048;AN=42;AO=626;CIGAR=1X;DP=1425;DPB=1425;DPRA=0.9;EPP=1362.35;EPPR=1735.85;GTI=4;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.94667;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22273;QR=28645;RO=798;RPL=0;RPP=1362.35;RPPR=1735.85;RPR=626;RUN=1;SAF=0;SAP=1362.35;SAR=626;SRF=0;SRP=1735.85;SRR=798;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:70,14:70:2520:14:485:-18.6905,0,-201.765 0/0:41:39,2:39:1400:2:72:0,-5.50551,-119.462 0/1:79:48,31:48:1715:31:1081:-73.8133,0,-130.854 0/1:120:81,39:81:2916:39:1377:-88.1031,0,-226.55 0/1:68:42,25:42:1486:25:878:-58.8079,0,-113.504 0/1:98:72,26:72:2592:26:932:-54.6979,0,-204.027 0/1:80:58,22:58:2084:22:788:-47.1624,0,-163.748 0/0:75:75,0:75:2700:0:0:0,-22.5772,-243.243 1/1:86:0,86:0:0:86:3065:-276.078,-25.8886,0 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 1/1:91:1,90:1:36:90:3204:-284.984,-23.7955,0 1/1:83:0,83:0:0:83:2980:-268.432,-24.9855,0 0/1:104:65,39:65:2336:39:1391:-94.1811,0,-179.192 0/1:48:42,6:42:1504:6:216:-5.34107,0,-121.205 0/1:84:67,17:67:2412:17:612:-30.1269,0,-192.049 0/1:135:122,13:122:4368:13:460:-1.09633,0,-352.655 0/1:22:8,14:8:288:14:487:-37.5365,0,-19.6447 1/1:73:3,70:3:108:70:2489:-214.188,-11.9,0 1/1:17:0,17:0:0:17:604:-54.6906,-5.11751,0 chr01 34932592 . G C 14974.3 PASS AB=0.727372;ABP=414.783;AC=16;AF=0.380952;AN=42;AO=783;CIGAR=1X;DP=1411;DPB=1411;DPRA=1.71015;EPP=1703.27;EPPR=1360.18;GTI=4;LEN=1;MEANALT=1.125;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.34205;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28026;QR=22390;RO=625;RPL=783;RPP=1703.27;RPPR=1360.18;RPR=0;RUN=1;SAF=0;SAP=1703.27;SAR=783;SRF=0;SRP=1360.18;SRR=625;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:14,70:14:500:70:2512:-201.045,0,-20.0497 1/1:41:2,39:2:72:39:1404:-119.823,-5.50551,0 0/1:77:30,47:30:1080:47:1675:-127.857,0,-74.3339 0/1:119:39,80:39:1404:80:2864:-222.175,0,-90.8367 0/1:66:26,40:26:936:40:1432:-109.31,0,-64.6915 0/1:95:25,70:25:896:70:2482:-195.033,0,-52.3625 0/1:81:22,59:22:792:59:2120:-166.685,0,-47.2222 1/1:75:0,74:0:0:74:2656:-238.926,-22.2762,0 0/0:87:86,0:86:3077:0:0:0,-25.8886,-276.797 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:24:24,0:24:841:0:0:0,-7.22472,-76.0064 0/0:88:87,1:87:3108:1:36:0,-22.8924,-276.349 0/0:84:84,0:84:3020:0:0:0,-25.2865,-272.03 0/1:100:40,60:40:1432:60:2152:-163.844,0,-99.0746 0/1:47:7,40:7:252:40:1432:-115.029,0,-8.88055 0/1:87:17,70:17:604:70:2512:-200.142,0,-28.501 0/1:131:13,118:13:468:118:4217:-340.274,0,-3.02471 0/1:22:14,8:14:500:8:280:-18.9166,0,-38.7135 0/0:72:69,2:69:2480:2:72:0,-14.8962,-216.616 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 chr01 34940493 . T C 12839.9 PASS AB=0.492063;ABP=3.76859;AC=14;AF=0.333333;AN=42;AO=759;CIGAR=1X;DP=2049;DPB=2049;DPRA=1.51277;EPP=1651.16;EPPR=2802.04;GTI=0;LEN=1;MEANALT=1.07143;MQM=47.9526;MQMR=54.104;NS=21;NUMALT=1;ODDS=4.18123;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27109;QR=46107;RO=1289;RPL=0;RPP=1651.16;RPPR=2802.04;RPR=759;RUN=1;SAF=759;SAP=1651.16;SAR=0;SRF=1289;SRP=2802.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:70,55:70:2512:55:1948:-136.161,0,-188.136 0/1:108:49,59:49:1756:59:2116:-155.869,0,-124.967 0/1:131:67,64:67:2381:64:2291:-164.806,0,-174.879 0/1:88:40,48:40:1409:48:1724:-126.968,0,-100.308 0/1:176:89,87:89:3169:87:3108:-225.052,0,-231.602 0/1:69:40,29:40:1432:29:1044:-72.892,0,-108.168 0/1:175:82,93:82:2944:93:3320:-244.024,0,-211.521 1/1:75:0,75:0:0:75:2678:-238.861,-22.5773,0 0/0:155:155,0:155:5541:0:0:0,-46.6596,-498.308 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.2326 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.063 0/0:50:50,0:50:1787:0:0:0,-15.0515,-160.791 0/0:79:77,2:77:2764:2:72:0,-16.9817,-241.944 0/0:121:121,0:121:4340:0:0:0,-36.4246,-390.11 0/1:141:66,75:66:2368:75:2668:-193.206,0,-170.575 0/1:88:54,34:54:1920:34:1212:-82.2054,0,-146.421 0/1:81:30,51:30:1076:51:1812:-137.825,0,-72.6385 0/1:152:81,70:81:2908:70:2504:-177.358,0,-215.341 0/1:52:35,17:35:1260:17:612:-39.4546,0,-97.68 0/0:80:80,0:80:2845:0:0:0,-24.0824,-254.847 0/0:73:73,0:73:2615:0:0:0,-21.9752,-234.889 chr01 35065519 . ACAC GCAT 14334.1 PASS AB=0.515068;ABP=4.45002;AC=28;AF=0.666667;AN=42;AO=738;CIGAR=1X2M1X;DP=1150;DPB=1150.25;DPRA=0.995455;EPP=1605.56;EPPR=886.8;GTI=0;LEN=4;MEANALT=1.25;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.89342;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=26014;QR=14223;RO=407;RPL=0;RPP=1605.56;RPPR=886.8;RPR=738;RUN=1;SAF=738;SAP=1605.56;SAR=0;SRF=407;SRP=886.8;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:21,22:21:740:22:783:-57.8498,0,-53.9787 0/1:20:13,7:13:460:7:251:-16.9173,0,-35.7147 0/1:59:35,24:35:1223:24:851:-59.1482,0,-92.6118 0/1:47:23,24:23:818:24:855:-63.1223,0,-59.7938 0/1:88:53,35:53:1871:35:1243:-85.6837,0,-142.178 0/1:27:12,15:12:411:15:540:-40.8087,0,-29.1901 0/1:60:34,25:34:1183:25:876:-61.0363,0,-88.6526 0/0:55:55,0:55:1934:0:0:0,-16.5566,-174.336 1/1:82:0,82:0:0:82:2899:-261.146,-24.6845,0 1/1:13:0,13:0:0:13:453:-41.1018,-3.91339,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:40:0,40:0:0:40:1388:-125.215,-12.0412,0 1/1:78:0,77:0:0:77:2729:-245.493,-23.1793,0 1/1:47:1,46:1:32:46:1639:-144.58,-11.289,0 0/1:60:19,41:19:671:41:1456:-113.273,0,-42.6545 0/1:15:7,8:7:252:8:287:-21.661,0,-18.5135 0/1:21:5,16:5:174:16:568:-45.1299,0,-9.67962 0/1:200:89,109:89:3129:109:3800:-282.237,0,-221.875 0/1:90:40,50:40:1325:50:1737:-129.521,0,-92.4513 1/1:49:0,49:0:0:49:1711:-154.273,-14.7505,0 1/1:52:0,51:0:0:51:1804:-162.281,-15.3525,0 chr01 35082403 . 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A C 8865.88 PASS AB=0.55402;ABP=23.1864;AC=13;AF=0.309524;AN=42;AO=505;CIGAR=1X;DP=1273;DPB=1273;DPRA=2.7476;EPP=1090.94;EPPR=1653.37;GTI=1;LEN=1;MEANALT=1;MQM=59.998;MQMR=59.974;NS=21;NUMALT=1;ODDS=1.16139;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18040;QR=27484;RO=768;RPL=504;RPP=1090.94;RPPR=1653.37;RPR=1;RUN=1;SAF=0;SAP=1099.6;SAR=505;SRF=0;SRP=1670.7;SRR=768;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:37,42:37:1324:42:1512:-112.593,0,-95.6807 0/1:50:17,33:17:604:33:1188:-92.1771,0,-39.6391 0/0:37:36,1:36:1296:1:36:0,-7.53983,-113.346 0/1:70:37,33:37:1332:33:1188:-86.1561,0,-99.1103 0/1:146:67,79:67:2384:79:2812:-209.37,0,-170.86 0/1:70:37,33:37:1324:33:1184:-85.7962,0,-98.39 0/1:49:15,34:15:540:34:1190:-92.6505,0,-34.1861 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 0/0:69:68,1:68:2444:1:36:0,-17.1728,-216.616 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 0/0:65:64,1:64:2280:1:36:0,-15.9687,-201.826 0/1:68:27,41:27:968:41:1460:-111.225,0,-66.9673 0/1:39:17,22:17:608:22:792:-59.8655,0,-43.3119 0/1:66:22,44:22:788:44:1565:-121.272,0,-51.3768 0/1:103:48,55:48:1724:55:1976:-147.109,0,-124.439 0/1:56:31,25:31:1108:25:873:-62.0269,0,-83.1733 0/0:121:115,6:115:4096:6:212:0,-16.9998,-349.4 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 chr01 35082670 . T G 4308.73 PASS AB=0.468326;ABP=6.86196;AC=13;AF=0.309524;AN=42;AO=248;CIGAR=1X;DP=817;DPB=817;DPRA=1.08458;EPP=524.304;EPPR=1229.91;GTI=0;LEN=1;MEANALT=1;MQM=59.9839;MQMR=60;NS=21;NUMALT=1;ODDS=2.83578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8865;QR=20366;RO=569;RPL=246;RPP=524.304;RPPR=1229.91;RPR=2;RUN=1;SAF=0;SAP=541.535;SAR=248;SRF=0;SRP=1238.58;SRR=569;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:15,13:15:540:13:464:-33.6687,0,-40.5077 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/1:39:20,19:20:708:19:675:-49.3358,0,-52.3054 0/1:70:42,28:42:1497:28:1004:-69.6038,0,-113.95 0/1:37:15,22:15:536:22:788:-60.1067,0,-37.4367 0/1:52:20,32:20:720:32:1139:-87.1648,0,-49.4752 1/1:41:0,41:0:0:41:1455:-131.245,-12.3422,0 0/0:95:95,0:95:3404:0:0:0,-28.5978,-306.574 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:64:64,0:64:2277:0:0:0,-19.2659,-205.191 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 0/1:73:40,33:40:1436:33:1184:-84.8931,0,-107.562 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:18:8,10:8:288:10:360:-27.3258,0,-20.8489 0/1:52:35,17:35:1248:17:608:-39.3985,0,-96.9713 0/1:54:30,24:30:1076:24:864:-61.8269,0,-80.8972 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 chr01 35113798 . G A 24943 PASS AB=0.54566;ABP=27.0047;AC=29;AF=0.690476;AN=42;AO=1264;CIGAR=1X;DP=1954;DPB=1954;DPRA=1.14146;EPP=2747.75;EPPR=1479.66;GTI=1;LEN=1;MEANALT=1.1;MQM=59.4612;MQMR=59.936;NS=21;NUMALT=1;ODDS=0.439966;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45198;QR=24502;RO=688;RPL=0;RPP=2747.75;RPPR=1479.66;RPR=1264;RUN=1;SAF=0;SAP=2747.75;SAR=1264;SRF=0;SRP=1496.98;SRR=688;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:68,69:68:2428:69:2478:-181.963,0,-177.535 0/1:95:33,62:33:1172:62:2204:-169.738,0,-77.1864 1/1:41:0,41:0:0:41:1462:-131.849,-12.3422,0 0/1:109:59,50:59:2112:50:1787:-128.291,0,-157.537 0/1:332:158,174:158:5581:174:6223:-459.95,0,-402.46 0/1:79:33,46:33:1184:46:1656:-125.547,0,-83.0869 0/1:128:54,74:54:1936:74:2660:-201.08,0,-135.985 0/0:82:82,0:82:2932:0:0:0,-24.6845,-264.115 1/1:179:0,179:0:0:179:6380:-574.2,-53.8844,0 1/1:9:0,9:0:0:9:324:-29.5012,-2.70927,0 1/1:4:0,4:0:0:4:144:-13.2049,-1.20412,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:103:2,101:2:72:101:3589:-316.35,-24.1694,0 1/1:65:1,63:1:36:63:2252:-199.402,-15.9525,0 0/1:127:51,76:51:1836:76:2724:-206.394,0,-127.29 0/1:73:38,35:38:1347:35:1243:-90.1987,0,-99.5543 0/1:88:53,35:53:1884:35:1248:-86.093,0,-143.348 0/1:81:38,43:38:1342:43:1536:-114.142,0,-96.3245 0/1:76:17,59:17:604:59:2116:-167.802,0,-31.8123 1/1:85:0,84:0:0:84:3012:-271.076,-25.2865,0 1/1:48:1,47:1:36:47:1692:-148.949,-10.8512,0 chr01 35119848 . C T 46430.4 PASS AB=0.828709;ABP=781.034;AC=18;AF=0.428571;AN=42;AO=1799;CIGAR=1X;DP=2258;DPB=2258;DPRA=7.12667;EPP=3909.49;EPPR=37.1909;GTI=10;LEN=1;MEANALT=1;MQM=59.95;MQMR=60;NS=21;NUMALT=1;ODDS=1.18745;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64167;QR=16393;RO=459;RPL=1070;RPP=143.367;RPPR=973.829;RPR=729;RUN=1;SAF=1070;SAP=143.367;SAR=729;SRF=275;SRP=42.1867;SRR=184;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:202:20,182:20:712:182:6484:-522.731,0,-3.59859 0/1:107:15,92:15:532:92:3283:-263.479,0,-16.0029 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 1/1:179:15,164:15:540:164:5831:-475.965,-4.94783,0 1/1:232:15,217:15:540:217:7768:-650.21,-20.9024,0 0/1:139:14,125:14:504:125:4476:-361.166,0,-3.85492 1/1:158:10,148:10:360:148:5271:-441.78,-14.8184,0 1/1:242:0,242:0:0:242:8601:-773.697,-72.8493,0 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.604 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:50:49,1:49:1729:1:36:0,-11.4532,-152.295 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 1/1:219:16,203:16:576:203:7273:-602.437,-13.7506,0 0/1:100:10,90:10:356:90:3232:-260.998,0,-2.27825 1/1:139:6,133:6:212:133:4738:-407.155,-22.4184,0 0/1:162:31,131:31:1108:131:4644:-369.358,0,-51.2641 0/1:119:52,67:52:1856:67:2386:-179.174,0,-131.497 0/0:23:21,2:21:756:2:72:0,-0.0869673,-61.5305 0/0:67:65,2:65:2316:2:72:0,-13.3323,-201.864 chr01 35121691 . A G 38632.6 PASS AB=0.456973;ABP=30.1054;AC=29;AF=0.690476;AN=42;AO=1572;CIGAR=1X;DP=2621;DPB=2621;DPRA=0.9984;EPP=590.225;EPPR=14.6765;GTI=2;LEN=1;MEANALT=1.05;MQM=49.7004;MQMR=59.4279;NS=21;NUMALT=1;ODDS=1.58597;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56149;QR=37555;RO=1047;RPL=1112;RPP=590.225;RPPR=14.6765;RPR=460;RUN=1;SAF=0;SAP=3416.56;SAR=1572;SRF=0;SRP=2276.54;SRR=1047;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:205:86,119:86:3080:119:4238:-317.71,0,-215.674 0/1:141:71,70:71:2552:70:2512:-182.956,0,-187.483 1/1:163:0,163:0:0:163:5769:-515.078,-49.0679,0 0/1:153:87,66:87:3128:66:2357:-163.943,0,-235.424 0/1:296:183,113:183:6563:113:4060:-273.89,0,-500.044 0/1:127:90,37:90:3232:37:1328:-81.2665,0,-252.87 0/1:188:115,73:115:4120:73:2599:-175.981,0,-314.052 0/0:125:125,0:125:4475:0:0:0,-37.6287,-402.895 1/1:167:3,164:3:108:164:5862:-513.151,-40.1968,0 1/1:14:0,14:0:0:14:492:-44.4327,-4.21442,0 1/1:6:0,6:0:0:6:216:-19.7408,-1.80618,0 1/1:25:0,25:0:0:25:891:-79.8174,-7.52575,0 1/1:96:0,96:0:0:96:3425:-307.062,-28.8989,0 1/1:162:0,160:0:0:160:5708:-510.868,-48.1648,0 0/1:206:94,112:94:3372:112:4016:-297.6,0,-241.608 0/1:98:57,41:57:2048:41:1465:-101.384,0,-154.827 0/1:102:38,64:38:1368:64:2300:-174.501,0,-92.4075 0/1:92:57,35:57:2033:35:1260:-85.6063,0,-155.514 0/1:77:37,40:37:1332:40:1436:-105.519,0,-96.7613 1/1:133:4,129:4:144:129:4619:-400.997,-26.7234,0 1/1:45:0,45:0:0:45:1596:-143.393,-13.5464,0 chr01 35121708 . ATAT GTAC,ACAC 53944.7 PASS AB=0.453796,0.542672;ABP=34.5139,29.8821;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1583,1055;CIGAR=1X2M1X,1M1X1M1X;DP=2648;DPB=2648;DPRA=0.99252,2.0364;EPP=3440.45,2293.91;EPPR=0;GTI=2;LEN=4,4;MEANALT=2.1,2.57143;MQM=49.6557,59.4;MQMR=0;NS=21;NUMALT=2;ODDS=1.73787;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55902,37122;QR=0;RO=0;RPL=1583,1055;RPP=3440.45,2293.91;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3440.45,2293.91;SAR=1583,1055;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:209:0,120,89:0:0:120,89:4172,3171:-595.86,-258.79,-222.666,-337.422,0,-310.63 1/2:141:0,70,70:0:0:70,70:2504,2467:-404.25,-200.85,-179.778,-203.394,0,-182.322 1/1:166:0,166,0:0:0:166,0:5849,0:-522.546,-49.971,0,-522.546,-49.971,-522.546 1/2:155:0,66,87:0:0:66,87:2324,3078:-437.928,-250.449,-230.581,-187.471,0,-161.282 1/2:299:0,112,186:0:0:112,186:3996,6504:-851.199,-527.82,-494.104,-323.372,0,-267.38 1/2:130:0,37,93:0:0:37,93:1322,3297:-375.49,-268.017,-256.879,-107.829,0,-79.8333 1/2:187:0,73,113:0:0:73,113:2579,3964:-530.675,-322.245,-300.27,-208.421,0,-174.405 2/2:127:0,0,126:0:0:0,126:0,4402:-396.052,-396.052,-396.052,-37.9298,-37.9298,0 1/1:167:0,162,3:0:0:162,3:5747,106:-512.945,-48.7669,0,-504.312,-40.1352,-503.409 1/1:14:0,14,0:0:0:14,0:482,0:-43.3702,-4.21442,0,-43.3702,-4.21442,-43.3702 1/1:6:0,6,0:0:0:6,0:216,0:-19.7408,-1.80618,0,-19.7408,-1.80618,-19.7408 1/1:27:0,27,0:0:0:27,0:950,0:-84.904,-8.12781,0,-84.904,-8.12781,-84.904 1/1:97:0,97,0:0:0:97,0:3412,0:-305.99,-29.1999,0,-305.99,-29.1999,-305.99 1/1:164:0,163,0:0:0:163,0:5713,0:-510.865,-49.0679,0,-510.865,-49.0679,-510.865 1/2:208:0,113,94:0:0:113,94:4028,3330:-597.566,-271.201,-237.184,-326.36,0,-298.063 1/2:97:0,41,56:0:0:41,56:1447,1946:-274.936,-158.508,-146.166,-116.777,0,-99.9193 1/2:103:0,64,39:0:0:64,39:2259,1360:-292.695,-110.677,-91.4107,-182.367,0,-170.627 1/2:92:0,35,57:0:0:35,57:1237,2019:-265.142,-164.791,-154.255,-100.703,0,-83.5444 1/2:78:0,40,38:0:0:40,38:1384,1337:-220.856,-108.946,-96.9052,-112.257,0,-100.818 1/1:133:0,129,4:0:0:129,4:4586,141:-411.214,-38.8329,0,-399.734,-27.0001,-398.529 1/1:48:0,48,0:0:0:48,0:1695,0:-152.293,-14.4494,0,-152.293,-14.4494,-152.293 chr01 35134847 . 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G A 13403.2 PASS AB=0.456835;ABP=21.007;AC=13;AF=0.309524;AN=42;AO=590;CIGAR=1X;DP=1789;DPB=1789;DPRA=1.57135;EPP=4.79164;EPPR=47.1213;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9525;MQMR=59.9841;NS=21;NUMALT=1;ODDS=4.5807;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21010;QR=42082;RO=1198;RPL=0;RPP=1284.18;RPPR=2595.76;RPR=590;RUN=1;SAF=306;SAP=4.79164;SAR=284;SRF=678;SRP=48.2596;SRR=520;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:52,48:52:1779:48:1700:-123.183,0,-130.284 0/1:57:35,22:35:1241:22:792:-54.4462,0,-94.8338 0/0:44:42,2:42:1472:2:72:0,-6.4086,-125.938 0/1:98:58,40:58:2042:40:1432:-99.6705,0,-154.55 0/1:189:106,83:106:3738:83:2964:-210.084,0,-279.727 0/1:62:32,30:32:1152:30:1068:-77.7682,0,-85.3263 0/1:37:19,18:19:684:18:648:-47.5138,0,-50.7522 1/1:77:0,77:0:0:77:2764:-249.001,-23.1793,0 0/0:140:140,0:140:4858:0:0:0,-42.1442,-437.276 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:16:16,0:16:564:0:0:0,-4.81648,-51.0903 0/0:115:115,0:115:4026:0:0:0,-34.6184,-362.531 0/0:120:118,1:118:4025:1:36:0,-32.5841,-358.846 0/1:73:33,40:33:1152:40:1428:-106.842,0,-82.0082 0/1:104:54,50:54:1901:50:1767:-128.005,0,-140.059 0/1:80:46,34:46:1627:34:1216:-85.6642,0,-122.636 0/1:139:61,78:61:2164:78:2734:-204.459,0,-153.184 0/1:173:108,65:108:3825:65:2317:-156.711,0,-292.371 0/0:73:71,2:71:2528:2:72:0,-15.1385,-220.935 0/0:79:79,0:79:2840:0:0:0,-23.7814,-255.838 chr01 35341979 . T C 20366.9 PASS AB=0.478599;ABP=9.1445;AC=13;AF=0.309524;AN=42;AO=877;CIGAR=1X;DP=2651;DPB=2651;DPRA=1.28639;EPP=1907.39;EPPR=3846.52;GTI=0;LEN=1;MEANALT=1;MQM=59.8495;MQMR=59.9831;NS=21;NUMALT=1;ODDS=15.7786;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31084;QR=63241;RO=1774;RPL=472;RPP=14.1252;RPPR=5.38007;RPR=405;RUN=1;SAF=472;SAP=14.1252;SAR=405;SRF=908;SRP=5.16953;SRR=866;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:70,63:70:2487:63:2240:-161.821,0,-184.046 0/1:74:40,34:40:1432:34:1216:-87.4566,0,-106.901 0/0:134:134,0:134:4789:0:0:0,-40.338,-431.165 0/1:141:76,65:76:2707:65:2306:-165.337,0,-201.429 0/1:188:111,77:111:3971:77:2733:-189.533,0,-300.982 0/1:79:51,28:51:1815:28:995:-66.0826,0,-139.849 0/1:252:117,135:117:4156:135:4745:-351.349,0,-298.364 1/1:137:0,137:0:0:137:4852:-436.686,-41.2411,0 0/0:301:301,0:301:10678:0:0:0,-90.61,-960.934 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 0/0:22:22,0:22:784:0:0:0,-6.62266,-70.8839 0/0:73:73,0:73:2601:0:0:0,-21.9752,-234.337 0/0:88:88,0:88:3152:0:0:0,-26.4906,-283.905 0/0:115:114,1:114:4065:1:36:0,-31.0202,-362.438 0/1:191:97,94:97:3476:94:3329:-242.325,0,-255.541 0/1:71:31,40:31:1116:40:1410:-105.822,0,-79.3786 0/1:99:45,54:45:1603:54:1913:-142.642,0,-114.757 0/1:206:99,107:99:3543:107:3808:-280.897,0,-257.058 0/1:108:67,41:67:2370:41:1465:-99.6321,0,-181.047 0/0:115:114,1:114:4080:1:36:0,-31.0202,-363.783 0/0:93:93,0:93:3300:0:0:0,-27.9958,-297.219 chr01 35343849 . A G 3854.34 PASS AB=0.359649;ABP=100.536;AC=13;AF=0.309524;AN=42;AO=250;CIGAR=1X;DP=920;DPB=920;DPRA=1.59615;EPP=545.878;EPPR=1457.9;GTI=0;LEN=1;MEANALT=1;MQM=59.976;MQMR=59.9836;NS=21;NUMALT=1;ODDS=10.771;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8950;QR=23811;RO=670;RPL=0;RPP=545.878;RPPR=1457.9;RPR=250;RUN=1;SAF=250;SAP=545.878;SAR=0;SRF=670;SRP=1457.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:33,22:33:1169:22:784:-54.3273,0,-88.9586 0/1:40:29,11:29:1025:11:396:-23.9415,0,-80.5195 0/0:50:49,1:49:1718:1:36:0,-11.4532,-151.303 0/1:51:26,25:26:932:25:900:-65.9685,0,-68.8463 0/1:95:61,34:61:2139:34:1205:-80.156,0,-164.175 0/1:50:33,17:33:1169:17:612:-40.3619,0,-90.4638 0/1:56:32,24:32:1137:24:864:-61.2249,0,-85.7793 1/1:44:0,44:0:0:44:1576:-142.127,-13.2453,0 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.947 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:66:66,0:66:2342:0:0:0,-19.868,-211.036 0/0:49:49,0:49:1741:0:0:0,-14.7505,-156.972 0/1:51:30,21:30:1080:21:756:-53.0147,0,-82.1607 0/1:48:39,9:39:1396:9:324:-15.0564,0,-111.49 0/1:47:36,11:36:1277:11:381:-20.4722,0,-101.083 0/1:48:30,18:30:1080:18:648:-44.2024,0,-83.0638 0/1:29:16,13:16:576:13:468:-33.7298,0,-43.4451 0/0:27:27,0:27:953:0:0:0,-8.12781,-86.0833 0/0:33:33,0:33:1169:0:0:0,-9.93399,-105.515 chr01 35359048 . TACTG TACTA 19921.7 PASS AB=0.632857;ABP=110.331;AC=29;AF=0.690476;AN=42;AO=961;CIGAR=4M1X;DP=1248;DPB=1248;DPRA=2.66304;EPP=2012.35;EPPR=613.194;GTI=1;LEN=1;MEANALT=1.2;MQM=59.9844;MQMR=60;NS=21;NUMALT=1;ODDS=1.08349;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34090;QR=9883;RO=281;RPL=9;RPP=2012.35;RPPR=613.194;RPR=952;RUN=1;SAF=961;SAP=2089.8;SAR=0;SRF=281;SRP=613.194;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:22,40:22:777:40:1423:-109.344,0,-51.2291 0/1:34:13,21:13:454:21:748:-57.4103,0,-30.9561 1/1:45:1,44:1:35:44:1541:-135.481,-10.0477,0 0/1:81:48,33:48:1694:33:1168:-81.0438,0,-128.362 0/1:142:52,90:52:1833:90:3188:-244.4,0,-122.503 0/1:66:15,51:15:527:51:1804:-142.774,0,-27.8926 0/1:57:13,40:13:451:40:1412:-111.084,0,-24.626 0/0:23:23,0:23:810:0:0:0,-6.92369,-73.219 1/1:90:0,90:0:0:90:3209:-289.032,-27.0927,0 1/1:4:0,4:0:0:4:136:-12.5755,-1.20412,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:98:2,96:2:67:96:3411:-300.844,-23.1381,0 1/1:88:0,88:0:0:88:3104:-279.591,-26.4906,0 0/1:69:26,43:26:906:43:1517:-116.047,0,-61.0809 0/1:50:16,34:16:563:34:1204:-93.6143,0,-35.948 0/1:34:5,29:5:180:29:1024:-82.2376,0,-6.31704 0/1:52:28,24:28:986:24:864:-62.429,0,-73.3988 0/1:52:13,38:13:456:38:1368:-107.708,0,-25.6613 1/1:96:0,96:0:0:96:3393:-305.587,-28.8989,0 1/1:87:4,83:4:144:83:2968:-254.04,-12.876,0 chr01 35360455 . 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T C 15176.4 PASS AB=0.480586;ABP=8.15355;AC=13;AF=0.309524;AN=42;AO=876;CIGAR=1X;DP=2307;DPB=2307;DPRA=2.07343;EPP=1905.22;EPPR=3088.7;GTI=1;LEN=1;MEANALT=1.15385;MQM=59.9989;MQMR=59.9951;NS=21;NUMALT=1;ODDS=3.97313;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31283;QR=51141;RO=1429;RPL=0;RPP=1905.22;RPPR=3088.7;RPR=876;RUN=1;SAF=876;SAP=1905.22;SAR=0;SRF=1429;SRP=3106.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:82,71:82:2920:71:2548:-183.153,0,-216.616 0/1:131:57,74:57:2048:74:2652:-199.491,0,-145.157 0/0:89:87,2:87:3115:2:72:0,-19.9549,-273.739 0/1:141:66,75:66:2347:75:2680:-199,0,-169.044 0/1:277:161,115:161:5770:115:4120:-287.689,0,-436.118 0/1:55:30,25:30:1076:25:892:-64.043,0,-80.5962 0/1:86:41,45:41:1476:45:1614:-119.661,0,-107.248 1/1:119:0,119:0:0:119:4238:-381.6,-35.8226,0 0/0:68:68,0:68:2425:0:0:0,-20.47,-218.504 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:27:27,0:27:960:0:0:0,-8.12781,-86.7163 0/0:156:156,0:156:5608:0:0:0,-46.9607,-504.839 0/0:112:112,0:112:3983:0:0:0,-33.7154,-358.653 0/1:190:92,98:92:3274:98:3484:-256.575,0,-237.685 0/1:156:89,67:89:3192:67:2392:-168.577,0,-240.542 0/1:197:99,98:99:3552:98:3510:-256.807,0,-260.585 0/1:134:59,75:59:2115:75:2649:-198.318,0,-150.28 0/1:50:38,12:38:1368:12:432:-24.1697,0,-108.369 0/0:86:86,0:86:3080:0:0:0,-25.8886,-277.428 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.993 chr01 35384209 . 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T G 33024.6 PASS AB=0.510652;ABP=4.53692;AC=29;AF=0.690476;AN=42;AO=1650;CIGAR=1X;DP=2512;DPB=2512;DPRA=1.24485;EPP=3585.94;EPPR=1866.14;GTI=0;LEN=1;MEANALT=1;MQM=59.897;MQMR=59.9768;NS=21;NUMALT=1;ODDS=1.81911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58865;QR=30868;RO=862;RPL=0;RPP=3585.94;RPPR=1866.14;RPR=1650;RUN=1;SAF=1650;SAP=3585.94;SAR=0;SRF=862;SRP=1874.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:44,43:44:1580:43:1514:-110.36,0,-116.302 0/1:99:59,40:59:2111:40:1425:-98.7417,0,-160.456 1/1:178:0,178:0:0:178:6340:-570.688,-53.5833,0 0/1:99:38,61:38:1364:61:2192:-167.743,0,-93.2587 0/1:251:120,131:120:4304:131:4678:-345.25,0,-311.848 0/1:102:52,50:52:1868:50:1785:-130.224,0,-137.694 0/1:223:116,107:116:4149:107:3823:-276.96,0,-306.462 0/0:97:97,0:97:3460:0:0:0,-29.1999,-311.611 1/1:204:1,203:1:36:203:7250:-648.949,-57.8118,0 1/1:17:0,17:0:0:17:593:-53.6947,-5.11751,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:44:0,44:0:0:44:1570:-141.592,-13.2453,0 1/1:111:0,111:0:0:111:3969:-357.398,-33.4143,0 1/1:127:1,126:1:36:126:4517:-403.098,-34.6325,0 0/1:250:123,127:123:4401:127:4544:-333.841,0,-321.003 0/1:109:61,48:61:2188:48:1697:-120.201,0,-164.373 0/1:116:55,61:55:1972:61:2169:-160.555,0,-142.835 0/1:110:59,51:59:2115:51:1828:-131.688,0,-157.505 0/1:103:31,72:31:1104:72:2551:-198.787,0,-68.6645 1/1:122:5,117:5:180:117:4164:-358.385,-20.1736,0 1/1:57:0,57:0:0:57:2040:-183.861,-17.1587,0 chr01 35460661 . CATC CATT,AATT 36312.8 PASS AB=0.826901,0.168421;ABP=796.629,819.507;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1486,161;CIGAR=3M1X,1X2M1X;DP=1656;DPB=1656;DPRA=5.125,0.984422;EPP=3058.44,151.709;EPPR=5.18177;GTI=6;LEN=1,4;MEANALT=2,2.23077;MQM=59.6945,45.646;MQMR=60;NS=21;NUMALT=2;ODDS=4.02377;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53153,5689;QR=36;RO=1;RPL=1466,133;RPP=3058.44,151.709;RPPR=5.18177;RPR=20,28;RUN=1,1;SAF=0,0;SAP=3229.82,352.617;SAR=1486,161;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:42:0,34,7:0:0:34,7:1224,246:-119.566,-19.6855,-9.45052,-99.8709,0,-97.7637 1/2:34:0,26,8:0:0:26,8:921,287:-98.5307,-23.5138,-15.687,-75.3717,0,-72.9635 1/1:136:0,135,0:0:0:135,0:4807,0:-432.098,-40.6391,0,-432.098,-40.6391,-432.098 1/2:72:0,59,12:0:0:59,12:2109,414:-204.69,-32.7251,-14.9643,-171.948,0,-168.335 1/2:171:0,149,21:0:0:149,21:5331,743:-493.722,-59.0943,-14.2408,-434.664,0,-428.342 1/2:58:1,36,21:1:36:36,21:1257,741:-158.668,-56.728,-48.8288,-99.2931,0,-95.9092 1/2:106:0,81,25:0:0:81,25:2912,881:-307.283,-69.7633,-45.3799,-237.866,0,-230.34 2/2:16:0,0,16:0:0:0,16:0,569:-50.3492,-50.3492,-50.3492,-4.81648,-4.81648,0 1/1:184:0,184,0:0:0:184,0:6552,0:-589.724,-55.3895,0,-589.724,-55.3895,-589.724 1/1:18:0,18,0:0:0:18,0:648,0:-58.6485,-5.41854,0,-58.6485,-5.41854,-58.6485 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:28:0,28,0:0:0:28,0:1008,0:-91.0317,-8.42884,0,-91.0317,-8.42884,-91.0317 1/1:132:0,131,0:0:0:131,0:4710,0:-423.794,-39.4349,0,-423.794,-39.4349,-423.794 1/1:148:0,146,1:0:0:146,1:5210,28:-468.192,-43.9504,0,-466.011,-41.7417,-465.71 1/2:102:0,86,16:0:0:86,16:3083,568:-296.954,-45.5153,-19.6267,-251.787,0,-246.971 1/2:54:0,44,10:0:0:44,10:1584,358:-158.301,-29.048,-15.8027,-129.606,0,-126.596 1/2:94:0,83,11:0:0:83,11:2988,396:-276.36,-32.581,-7.59546,-244.139,0,-240.827 1/2:83:0,75,8:0:0:75,8:2672,282:-240.802,-23.0096,-0.432361,-218.142,0,-215.733 1/2:39:0,34,5:0:0:34,5:1224,176:-114.275,-14.4779,-4.24284,-100.146,0,-98.6406 1/1:85:0,84,0:0:0:84,0:3009,0:-270.677,-25.2865,0,-270.677,-25.2865,-270.677 1/1:44:0,43,0:0:0:43,0:1544,0:-138.894,-12.9443,0,-138.894,-12.9443,-138.894 chr01 35472644 . C T 18036.5 PASS AB=0.495227;ABP=3.36266;AC=13;AF=0.309524;AN=42;AO=1017;CIGAR=1X;DP=2827;DPB=2827;DPRA=2.32482;EPP=2168.18;EPPR=3857.68;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.5428;MQMR=53.8611;NS=21;NUMALT=1;ODDS=2.30236;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36479;QR=64453;RO=1807;RPL=5;RPP=2168.18;RPPR=3866.3;RPR=1012;RUN=1;SAF=1017;SAP=2211.4;SAR=0;SRF=1806;SRP=3918.18;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:180:74,106:74:2621:106:3796:-287.463,0,-180.907 0/1:155:97,58:97:3472:58:2072:-140.075,0,-263.673 0/0:60:60,0:60:2127:0:0:0,-18.0618,-191.362 0/1:198:133,63:133:4728:63:2260:-144.16,0,-364.214 0/1:278:129,149:129:4596:149:5352:-397.965,0,-327.963 0/1:143:55,88:55:1968:88:3164:-241.895,0,-133.737 0/1:240:109,131:109:3912:131:4704:-351.132,0,-277.149 1/1:125:0,125:0:0:125:4488:-404.047,-37.6288,0 0/0:180:180,0:180:6439:0:0:0,-54.1854,-577.683 0/0:15:15,0:15:532:0:0:0,-4.51545,-47.8702 0/0:18:18,0:18:635:0:0:0,-5.41854,-57.1672 0/0:77:77,0:77:2759:0:0:0,-23.1793,-247.946 0/0:175:173,2:173:6170:2:72:0,-45.8435,-545.919 0/0:109:105,3:105:3746:3:108:0,-22.7887,-326.259 0/1:159:62,97:62:2211:97:3467:-264.335,0,-151.131 0/1:139:68,71:68:2428:71:2544:-187.367,0,-176.716 0/1:111:72,39:72:2575:39:1396:-92.5208,0,-197.176 0/1:74:33,41:33:1179:41:1472:-110.481,0,-83.2033 0/1:104:65,39:65:2328:39:1404:-95.3475,0,-177.78 0/0:222:217,5:217:7703:5:180:0,-50.2766,-673.089 0/0:65:65,0:65:2324:0:0:0,-19.5669,-206.111 chr01 35472651 . CTTA TTCC,CTCA 76170.6 PASS AB=0.501935,0.495854;ABP=3.06912,3.28038;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1836,1035;CIGAR=1X1M2X,2M1X1M;DP=2880;DPB=2880.25;DPRA=1.075,2.3494;EPP=128.705,11.3374;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.05,2.26667;MQM=53.6656,59.5169;MQMR=0;NS=21;NUMALT=2;ODDS=1.98607;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=64581,36968;QR=0;RO=0;RPL=754,486;RPP=130.252,11.3374;RPPR=0;RPR=1082,549;RUN=1,1;SAF=1835,1035;SAP=3981.15,2250.48;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:181:0,75,106:0:0:75,106:2627,3773:-520.588,-307.718,-285.141,-213.221,0,-181.312 1/2:157:0,97,60:0:0:97,60:3445,2146:-454.158,-175.337,-146.138,-279.177,0,-261.115 1/1:62:0,62,0:0:0:62,0:2152,0:-193.571,-18.6639,0,-193.571,-18.6639,-193.571 1/2:202:0,137,65:0:0:137,65:4836,2322:-581.155,-189.501,-148.26,-392.009,0,-372.442 1/2:290:0,132,158:0:0:132,158:4609,5656:-834.066,-461.296,-421.561,-373.122,0,-325.559 1/2:143:0,56,87:0:0:56,87:2006,3122:-417.972,-254.995,-238.137,-163.335,0,-137.145 1/2:245:0,112,133:0:0:112,133:3961,4730:-706.145,-385.706,-351.991,-320.792,0,-280.755 2/2:128:0,0,128:0:0:0,128:0,4564:-410.761,-410.761,-410.761,-38.5318,-38.5318,0 1/1:181:0,178,0:0:0:178,0:6292,0:-564.6,-53.5833,0,-564.6,-53.5833,-564.6 1/1:15:0,15,0:0:0:15,0:525,0:-47.3155,-4.51545,0,-47.3155,-4.51545,-47.3155 1/1:17:0,17,0:0:0:17,0:609,0:-54.8257,-5.11751,0,-54.8257,-5.11751,-54.8257 1/1:77:0,77,0:0:0:77,0:2731,0:-245.531,-23.1793,0,-245.531,-23.1793,-245.531 1/1:185:0,182,2:0:0:182,2:6353,72:-569.095,-54.7875,0,-563.22,-48.8194,-562.618 1/1:112:0,109,3:0:0:109,3:3851,108:-345.24,-32.8123,0,-336.427,-23.6402,-335.524 1/2:163:0,61,99:0:0:61,99:2149,3528:-462.316,-287.576,-269.213,-174.784,0,-144.982 1/2:138:0,66,72:0:0:66,72:2338,2584:-400.997,-210.774,-190.906,-190.219,0,-168.545 1/2:111:0,72,38:0:0:72,38:2505,1364:-313.541,-111.258,-89.5839,-202.277,0,-190.838 1/2:75:0,35,40:0:0:35,40:1202,1415:-212.621,-115.593,-105.057,-97.3753,0,-85.3341 1/2:104:0,65,39:0:0:65,39:2302,1404:-301.548,-114.914,-95.3475,-186.99,0,-175.25 1/1:227:0,221,5:0:0:221,5:7739,180:-693.337,-66.5276,0,-678.65,-51.7872,-677.145 1/1:67:0,67,0:0:0:67,0:2349,0:-209.214,-20.169,0,-209.214,-20.169,-209.214 chr01 35501316 . A C 24420.5 PASS AB=0.479902;ABP=7.28733;AC=29;AF=0.690476;AN=42;AO=1222;CIGAR=1X;DP=1955;DPB=1955;DPRA=0.957732;EPP=2656.55;EPPR=1588.19;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9141;MQMR=59.9658;NS=21;NUMALT=1;ODDS=5.14855;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43807;QR=25808;RO=730;RPL=0;RPP=2656.55;RPPR=1362.34;RPR=1222;RUN=1;SAF=1222;SAP=2656.55;SAR=0;SRF=703;SRP=1362.34;SRR=27;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:31,33:31:1074:33:1157:-85.1662,0,-77.6981 0/1:113:68,45:68:2397:45:1620:-112.074,0,-181.97 1/1:62:0,62:0:0:62:2228:-200.784,-18.6639,0 0/1:56:31,25:31:1112:25:896:-64.1027,0,-83.5337 0/1:201:120,81:120:4220:81:2904:-201.086,0,-319.472 0/1:65:39,26:39:1347:26:936:-64.9879,0,-101.955 0/1:123:56,67:56:1954:67:2392:-178.51,0,-139.106 0/0:97:96,0:96:3406:0:0:0,-28.8989,-306.375 1/1:159:1,158:1:36:158:5658:-505.741,-44.2655,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 1/1:86:0,85:0:0:85:3052:-274.549,-25.5876,0 1/1:90:0,90:0:0:90:3220:-290.023,-27.0927,0 0/1:200:85,114:85:3028:114:4100:-308.941,0,-212.595 0/1:61:21,40:21:756:40:1432:-110.815,0,-50.0044 0/1:50:30,20:30:1072:20:716:-49.7162,0,-81.7391 0/1:190:113,77:113:4022:77:2772:-192.525,0,-304.971 0/1:96:39,57:39:1384:57:2044:-155.333,0,-95.96 1/1:81:0,81:0:0:81:2904:-261.567,-24.3834,0 1/1:71:0,71:0:0:71:2544:-227.949,-21.3731,0 chr01 35501319 . T C 12700.9 PASS AB=0.525467;ABP=9.64638;AC=13;AF=0.309524;AN=42;AO=715;CIGAR=1X;DP=1910;DPB=1910;DPRA=1.50236;EPP=1555.61;EPPR=2593.58;GTI=0;LEN=1;MEANALT=1;MQM=59.965;MQMR=59.9564;NS=21;NUMALT=1;ODDS=4.47526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25536;QR=42321;RO=1193;RPL=0;RPP=1555.61;RPPR=2593.58;RPR=715;RUN=1;SAF=715;SAP=1555.61;SAR=0;SRF=1193;SRP=2593.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:28,26:28:981:26:936:-68.3038,0,-72.3454 0/1:109:45,64:45:1616:64:2304:-174.808,0,-112.918 0/0:59:59,0:59:2124:0:0:0,-17.7608,-191.428 0/1:48:23,25:23:824:25:892:-66.1502,0,-60.0339 0/1:196:78,118:78:2781:118:4196:-318.821,0,-191.525 0/1:62:24,38:24:841:38:1356:-103.677,0,-57.3424 0/1:121:66,55:66:2360:55:1972:-141.33,0,-176.233 1/1:96:0,96:0:0:96:3439:-309.695,-28.8989,0 0/0:161:159,0:159:5654:0:0:0,-47.8638,-508.651 0/0:28:28,0:28:989:0:0:0,-8.42884,-89.322 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.173 0/0:89:89,0:89:3150:0:0:0,-26.7917,-283.724 0/0:86:86,0:86:3050:0:0:0,-25.8886,-274.728 0/1:196:108,88:108:3754:88:3137:-223.554,0,-278.971 0/1:59:38,21:38:1364:21:752:-50.2455,0,-105.3 0/1:48:19,29:19:668:29:1025:-78.1066,0,-45.9962 0/1:192:76,116:76:2709:116:4148:-315.705,0,-186.255 0/1:93:54,39:54:1932:39:1379:-96.4122,0,-146.161 0/0:82:82,0:82:2856:0:0:0,-24.6845,-257.275 0/0:70:70,0:70:2492:0:0:0,-21.0721,-224.376 chr01 35526917 . TAG CAT,CAG 12289.3 PASS AB=0.518732,0.481268;ABP=4.06788,4.06788;AC=28,14;AF=0.666667,0.333333;AN=42;AO=376,216;CIGAR=1X1M1X,1X2M;DP=593;DPB=593;DPRA=0.555102,1.23702;EPP=819.484,472.048;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.65,1.92308;MQM=55.9894,59.8704;MQMR=0;NS=21;NUMALT=2;ODDS=1.8921;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=13232,7735;QR=0;RO=0;RPL=0,0;RPP=819.484,472.048;RPPR=0;RPR=376,216;RUN=1,1;SAF=376,216;SAP=819.484,472.048;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:34:0,8,26:0:0:8,26:280,928:-98.7738,-76.0115,-73.6032,-23.1137,0,-15.2869 1/2:15:0,11,4:0:0:11,4:396,144:-44.4111,-12.1095,-8.79817,-32.6614,0,-31.4572 1/1:52:0,52,0:0:0:52,0:1828,0:-164.689,-15.6536,0,-164.689,-15.6536,-164.689 1/2:20:0,8,12:0:0:8,12:276,432:-58.0072,-35.6065,-33.1982,-22.7514,0,-19.1391 1/2:39:0,27,12:0:0:27,12:957,432:-113.424,-35.6065,-27.4787,-78.1759,0,-74.5635 1/2:29:0,15,14:0:0:15,14:506,500:-82.1059,-41.1214,-36.6059,-41.3319,0,-37.1175 1/2:51:0,24,27:0:0:24,27:860,968:-149.392,-79.3096,-72.0848,-70.4407,0,-62.3129 2/2:49:0,0,49:0:0:0,49:0,1764:-159.044,-159.044,-159.044,-14.7505,-14.7505,0 1/1:43:0,43,0:0:0:43,0:1525,0:-137.307,-12.9443,0,-137.307,-12.9443,-137.307 1/1:9:0,9,0:0:0:9,0:310,0:-28.2178,-2.70927,0,-28.2178,-2.70927,-28.2178 1/1:10:0,10,0:0:0:10,0:358,0:-32.5541,-3.0103,0,-32.5541,-3.0103,-32.5541 1/1:11:0,10,0:0:0:10,0:352,0:-31.6655,-3.0103,0,-31.6655,-3.0103,-31.6655 1/1:39:0,39,0:0:0:39,0:1374,0:-123.873,-11.7402,0,-123.873,-11.7402,-123.873 1/2:11:0,10,1:0:0:10,1:339,36:-30.6993,-3.29724,-0.286945,-27.76,0,-27.4589 1/2:57:0,26,31:0:0:26,31:923,1116:-166.482,-91.4174,-83.5906,-75.4212,0,-66.0892 1/2:12:0,5,7:0:0:5,7:176,248:-34.8522,-20.5536,-19.0484,-14.651,0,-12.5438 1/2:20:0,12,8:0:0:12,8:424,288:-58.2067,-23.8592,-20.2468,-34.7041,0,-32.2958 1/2:43:0,26,17:0:0:26,17:915,599:-123.562,-49.119,-41.2923,-74.7946,0,-69.6771 1/2:16:0,8,8:0:0:8,8:271,280:-45.0648,-23.1264,-20.7182,-22.2824,0,-19.8742 1/1:18:0,18,0:0:0:18,0:636,0:-57.4738,-5.41854,0,-57.4738,-5.41854,-57.4738 1/1:15:0,15,0:0:0:15,0:526,0:-47.5888,-4.51545,0,-47.5888,-4.51545,-47.5888 chr01 35534429 . CGAAG TGAAA 2119.52 PASS AB=0.189276;ABP=1567.03;AC=9;AF=0.214286;AN=42;AO=395;CIGAR=1X3M1X;DP=4361;DPB=4361;DPRA=1.01109;EPP=860.742;EPPR=8582.5;GTI=6;LEN=5;MEANALT=1.57143;MQM=40.5215;MQMR=45.2678;NS=21;NUMALT=1;ODDS=14.339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13936;QR=139756;RO=3951;RPL=0;RPP=860.742;RPPR=8582.5;RPR=395;RUN=1;SAF=395;SAP=860.742;SAR=0;SRF=3951;SRP=8582.5;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:261:240,19:240:8413:19:664:0,-20.4001,-687.918 0/1:80:66,13:66:2329:13:455:-15.874,0,-183.532 0/0:307:306,1:306:10849:1:36:0,-88.9617,-959.994 0/1:277:217,59:217:7665:59:2082:-97.1768,0,-596.899 0/1:223:195,27:195:6877:27:957:-16.0673,0,-543.476 0/1:140:121,19:121:4286:19:681:-17.4277,0,-339.776 0/1:330:287,42:287:10168:42:1477:-30.0319,0,-805.122 0/1:297:177,118:177:6277:118:4186:-275.905,0,-467.6 0/0:547:545,0:545:19336:0:0:0,-164.061,-1713.36 0/0:12:12,0:12:415:0:0:0,-3.61236,-37.3052 0/0:8:8,0:8:286:0:0:0,-2.40824,-25.8089 0/0:28:27,0:27:963:0:0:0,-8.12781,-85.7209 0/0:370:368,0:368:13020:0:0:0,-110.779,-1152.29 0/0:407:405,0:405:14316:0:0:0,-121.917,-1266.18 0/1:271:241,30:241:8517:30:1058:-10.3868,0,-672.358 0/0:111:103,8:103:3646:8:280:0,-8.7875,-298.592 0/0:142:129,13:129:4544:13:459:0,-2.69689,-360.129 0/1:113:90,23:90:3201:23:804:-36.4311,0,-248.996 0/1:134:112,22:112:3954:22:771:-26.7309,0,-310.914 0/0:232:231,1:231:8159:1:26:0,-67.2524,-723.95 0/0:71:71,0:71:2535:0:0:0,-21.3731,-225.742 chr01 35592000 . G T 12514.5 PASS AB=0.353741;ABP=112.263;AC=27;AF=0.642857;AN=42;AO=632;CIGAR=1X;DP=1199;DPB=1199;DPRA=0.543564;EPP=1375.38;EPPR=1232.06;GTI=3;LEN=1;MEANALT=1.05;MQM=59.9778;MQMR=59.97;NS=21;NUMALT=1;ODDS=0.867023;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22603;QR=20248;RO=566;RPL=632;RPP=1375.38;RPPR=1232.06;RPR=0;RUN=1;SAF=0;SAP=1375.38;SAR=632;SRF=0;SRP=1232.06;SRR=566;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:63,9:63:2260:9:324:-7.8317,0,-181.984 0/0:52:50,2:50:1788:2:72:0,-8.81684,-154.366 1/1:55:0,55:0:0:55:1960:-176.67,-16.5567,0 0/1:69:32,37:32:1136:37:1332:-99.4113,0,-81.7778 0/1:93:76,17:76:2716:17:608:-27.0562,0,-216.674 0/1:38:26,12:26:924:12:428:-27.4197,0,-72.0385 0/1:60:48,12:48:1720:12:432:-21.1594,0,-137.024 0/0:101:101,0:101:3612:0:0:0,-30.404,-325.286 1/1:66:0,66:0:0:66:2356:-212.299,-19.868,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:35:0,35:0:0:35:1248:-112.625,-10.5361,0 1/1:90:0,89:0:0:89:3188:-286.784,-26.7917,0 1/1:55:0,55:0:0:55:1972:-177.753,-16.5567,0 0/1:83:54,29:54:1932:29:1044:-69.2893,0,-149.171 0/1:38:27,11:27:972:11:392:-24.1809,0,-76.3588 0/0:36:34,2:34:1212:2:72:0,-4.00036,-102.55 0/1:73:34,39:34:1220:39:1390:-103.424,0,-88.1316 0/1:62:20,42:20:720:42:1500:-116.631,0,-46.4649 1/1:79:0,79:0:0:79:2817:-253.768,-23.7814,0 1/1:30:1,29:1:36:29:1036:-89.9556,-5.43263,0 chr01 35594719 . C A 17000.3 PASS AB=0.501149;ABP=3.03027;AC=14;AF=0.333333;AN=42;AO=973;CIGAR=1X;DP=2635;DPB=2635;DPRA=1.16584;EPP=2098.52;EPPR=3514.91;GTI=1;LEN=1;MEANALT=1.0625;MQM=59.4018;MQMR=59.9585;NS=21;NUMALT=1;ODDS=0.251724;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34837;QR=59311;RO=1661;RPL=971;RPP=2098.52;RPPR=3514.91;RPR=2;RUN=1;SAF=0;SAP=2115.85;SAR=973;SRF=0;SRP=3609.83;SRR=1661;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:217:98,119:98:3497:119:4245:-316.737,0,-249.603 0/1:128:71,57:71:2552:57:2034:-144.135,0,-191.394 0/0:93:92,1:92:3281:1:36:0,-24.3975,-291.911 0/1:201:96,105:96:3452:105:3756:-277.678,0,-250.384 0/1:314:148,166:148:5248:166:5955:-440.168,0,-377.932 0/1:125:58,67:58:2053:67:2400:-178.627,0,-147.411 0/1:216:123,93:123:4412:93:3327:-234.129,0,-332.229 1/1:96:0,96:0:0:96:3432:-309.014,-28.8989,0 0/0:227:227,0:227:8095:0:0:0,-68.3338,-728.538 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49775 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:13:12,1:12:432:1:36:0,-0.315115,-35.6229 0/0:149:149,0:149:5329:0:0:0,-44.8535,-479.741 0/0:126:126,0:126:4520:0:0:0,-37.9298,-406.967 0/1:204:113,91:113:4006:91:3268:-232.846,0,-299.319 0/1:118:57,60:57:2044:60:2157:-158.769,0,-148.638 0/1:85:26,59:26:932:59:2103:-163.924,0,-58.6113 0/1:43:23,20:23:828:20:720:-52.162,0,-61.8998 0/1:85:51,34:51:1828:34:1224:-84.852,0,-139.213 0/0:136:133,3:133:4726:3:108:0,-30.8697,-415.425 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.313 chr01 35609146 . G A 25192.8 PASS AB=0.50654;ABP=3.32272;AC=29;AF=0.690476;AN=42;AO=1040;CIGAR=1X;DP=1548;DPB=1548;DPRA=0.829545;EPP=2261.34;EPPR=1106.12;GTI=0;LEN=1;MEANALT=1;MQM=59.7106;MQMR=59.9685;NS=21;NUMALT=1;ODDS=6.49942;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36509;QR=17800;RO=508;RPL=824;RPP=774.852;RPPR=666.575;RPR=216;RUN=1;SAF=824;SAP=774.852;SAR=216;SRF=451;SRP=666.575;SRR=57;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:47,50:47:1654:50:1740:-127.672,0,-119.946 0/1:65:36,29:36:1260:29:1040:-74.3474,0,-94.1327 1/1:112:0,112:0:0:112:3948:-355.514,-33.7154,0 0/1:46:19,27:19:680:27:959:-72.7734,0,-47.6799 0/1:149:78,71:78:2721:71:2471:-177.554,0,-200.279 0/1:69:40,29:40:1387:29:1012:-70.6188,0,-104.352 0/1:97:41,56:41:1456:56:1980:-149.274,0,-102.136 0/0:88:88,0:88:3108:0:0:0,-26.4906,-279.948 1/1:141:0,141:0:0:141:4925:-443.397,-42.4452,0 1/1:18:0,18:0:0:18:625:-56.5715,-5.41854,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:48:0,48:0:0:48:1698:-153.104,-14.4494,0 1/1:68:1,67:1:36:67:2360:-208.562,-16.8718,0 1/1:118:1,117:1:36:117:4151:-370.174,-31.9233,0 0/1:120:68,52:68:2369:52:1789:-125.163,0,-177.343 0/1:52:17,35:17:584:35:1199:-92.1913,0,-37.2272 0/1:56:28,28:28:973:28:993:-72.8255,0,-71.0224 0/1:41:23,18:23:793:18:619:-43.688,0,-59.3426 0/1:49:18,31:18:635:31:1091:-83.7398,0,-42.7265 1/1:51:2,49:2:72:49:1713:-147.613,-8.51581,0 1/1:57:1,56:1:36:56:1980:-174.872,-13.5604,0 chr01 35609251 . A G 16521.7 PASS AB=0.488973;ABP=4.39905;AC=13;AF=0.309524;AN=42;AO=736;CIGAR=1X;DP=2061;DPB=2061;DPRA=1.63339;EPP=1592.54;EPPR=2852.04;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8818;MQMR=59.9705;NS=21;NUMALT=1;ODDS=3.43118;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25665;QR=47035;RO=1324;RPL=297;RPP=62.5016;RPPR=297.858;RPR=439;RUN=1;SAF=298;SAP=60.8376;SAR=438;SRF=449;SRP=300.646;SRR=875;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:49,28:49:1744:28:981:-65.4226,0,-134.065 0/1:97:53,44:53:1899:44:1521:-107.974,0,-141.987 0/0:49:49,0:49:1747:0:0:0,-14.7505,-157.514 0/1:109:57,52:57:2035:52:1794:-128.922,0,-150.523 0/1:181:78,103:78:2756:103:3633:-272.69,0,-193.792 0/1:92:45,47:45:1599:47:1668:-122.713,0,-116.505 0/1:125:65,59:65:2316:59:2041:-146.269,0,-171.011 1/1:92:0,92:0:0:92:3227:-290.462,-27.6948,0 0/0:110:110,0:110:3877:0:0:0,-33.1133,-349.123 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:33:33,0:33:1152:0:0:0,-9.93399,-103.983 0/0:104:104,0:104:3713:0:0:0,-31.3071,-334.371 0/0:81:81,0:81:2877:0:0:0,-24.3834,-259.166 0/1:171:66,105:66:2363:105:3709:-281.759,0,-161.452 0/1:54:22,32:22:761:32:1110:-83.9472,0,-52.5501 0/1:47:26,21:26:932:21:733:-52.1413,0,-70.0505 0/1:240:119,121:119:4223:121:4149:-301.35,0,-308.004 0/1:122:91,31:91:3242:31:1063:-59.2479,0,-255.276 0/0:90:89,1:89:3135:1:36:0,-23.4944,-278.776 0/0:154:154,0:154:5480:0:0:0,-46.3586,-493.284 chr01 35625836 . 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T C 49355.5 PASS AB=0.510233;ABP=4.92132;AC=29;AF=0.690476;AN=42;AO=2020;CIGAR=1X;DP=3203;DPB=3203;DPRA=0;EPP=4380.7;EPPR=2563.18;GTI=0;LEN=1;MEANALT=1;MQM=49.8208;MQMR=55.4962;NS=21;NUMALT=1;ODDS=2.00824;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70326;QR=41986;RO=1183;RPL=908;RPP=47.7469;RPPR=102.661;RPR=1112;RUN=1;SAF=909;SAP=46.874;SAR=1111;SRF=476;SRP=100.958;SRR=707;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:84,64:84:3011:64:2261:-156.464,0,-225.299 0/1:150:84,66:84:2958:66:2301:-160.758,0,-220.233 1/1:102:2,100:2:72:100:3458:-302.441,-23.8708,0 0/1:142:67,75:67:2381:75:2628:-191.375,0,-171.321 0/1:338:153,185:153:5399:185:6447:-472.839,0,-382.669 0/1:82:48,34:48:1706:34:1201:-82.9152,0,-128.457 0/1:231:122,109:122:4327:109:3779:-268.392,0,-318.886 0/0:140:138,2:138:4926:2:72:0,-35.4489,-435.57 1/1:223:1,222:1:36:222:7662:-676.905,-63.5314,0 1/1:29:0,29:0:0:29:1028:-91.767,-8.72987,0 1/1:21:0,21:0:0:21:732:-65.5638,-6.32163,0 1/1:57:0,57:0:0:57:2003:-178.515,-17.1587,0 1/1:145:2,143:2:72:143:4942:-434.414,-36.9038,0 1/1:98:2,96:2:72:96:3362:-293.761,-22.714,0 0/1:324:152,172:152:5403:172:6074:-447.018,0,-387.499 0/1:124:62,62:62:2224:62:2192:-157.77,0,-162.857 0/1:92:45,47:45:1603:47:1651:-119.552,0,-116.716 0/1:306:153,153:153:5380:153:5348:-387.584,0,-388.898 0/1:164:59,105:59:2096:105:3621:-271.595,0,-139.353 1/1:167:9,158:9:320:158:5429:-454.456,-21.163,0 1/1:120:0,120:0:0:120:4135:-369.11,-36.1236,0 chr01 35626007 . 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A T 2965.33 PASS AB=0.281796;ABP=334.688;AC=13;AF=0.309524;AN=42;AO=245;CIGAR=1X;DP=1281;DPB=1281;DPRA=1.33859;EPP=535.021;EPPR=2241.81;GTI=2;LEN=1;MEANALT=1.08333;MQM=59.4082;MQMR=59.8502;NS=21;NUMALT=1;ODDS=6.63888;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8769;QR=37062;RO=1035;RPL=245;RPP=535.021;RPPR=2241.81;RPR=0;RUN=1;SAF=0;SAP=535.021;SAR=245;SRF=0;SRP=2250.48;SRR=1035;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:50,15:50:1800:15:525:-28.0111,0,-142.715 0/1:35:23,12:23:824:12:432:-28.6399,0,-63.9473 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 0/1:82:42,40:42:1504:40:1417:-102.964,0,-110.934 0/1:135:108,27:108:3865:27:968:-46.7937,0,-307.307 0/1:56:43,13:43:1544:13:468:-25.5475,0,-122.395 0/1:168:136,32:136:4864:32:1148:-52.9989,0,-387.296 1/1:19:0,19:0:0:19:684:-61.8857,-5.71957,0 0/0:123:123,0:123:4412:0:0:0,-37.0267,-396.761 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/0:62:62,0:62:2212:0:0:0,-18.6639,-199.345 0/0:82:82,0:82:2921:0:0:0,-24.6845,-263.119 0/1:57:41,16:41:1476:16:576:-35.0163,0,-115.977 0/1:37:32,5:32:1152:5:179:-5.32155,0,-92.852 0/1:23:10,13:10:360:13:468:-35.536,0,-25.8206 0/1:72:33,39:33:1180:39:1400:-104.616,0,-84.8339 0/1:72:57,14:57:2048:14:504:-23.9628,0,-162.859 0/0:61:61,0:61:2177:0:0:0,-18.3628,-196.182 0/0:46:46,0:46:1643:0:0:0,-13.8474,-148.113 chr01 35728329 . G T 37587.6 PASS AB=0.527904;ABP=14.8866;AC=29;AF=0.690476;AN=42;AO=1885;CIGAR=1X;DP=2939;DPB=2939;DPRA=0.624083;EPP=4096.24;EPPR=2272.23;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9093;MQMR=59.9601;NS=21;NUMALT=1;ODDS=4.8563;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66986;QR=37488;RO=1053;RPL=1885;RPP=4096.24;RPPR=2272.23;RPR=0;RUN=1;SAF=0;SAP=4096.24;SAR=1885;SRF=0;SRP=2289.57;SRR=1053;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:199:95,104:95:3354:104:3705:-273.746,0,-242.171 0/1:130:76,54:76:2702:54:1912:-133.029,0,-204.29 1/1:109:1,108:1:36:108:3852:-343.279,-29.214,0 0/1:145:78,67:78:2769:67:2381:-170.891,0,-205.801 0/1:313:138,175:138:4911:175:6218:-465.488,0,-347.919 0/1:135:71,64:71:2544:64:2288:-165.543,0,-188.572 0/1:220:114,106:114:4049:106:3782:-274.353,0,-298.372 0/0:218:218,0:218:7743:0:0:0,-65.6245,-696.906 1/1:261:0,261:0:0:261:9283:-835.439,-78.5688,0 1/1:25:0,25:0:0:25:865:-78.1607,-7.52575,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 1/1:189:4,185:4:144:185:6589:-579.78,-43.5811,0 1/1:156:1,155:1:36:155:5416:-483.955,-43.3624,0 0/1:237:112,125:112:4016:125:4430:-327.527,0,-289.658 0/1:121:51,70:51:1820:70:2506:-189.322,0,-127.657 0/1:95:35,60:35:1252:60:2117:-162.189,0,-84.3872 0/1:84:33,51:33:1184:51:1813:-138.144,0,-81.5818 0/1:77:26,51:26:928:51:1820:-140.884,0,-60.6589 1/1:125:0,124:0:0:124:4429:-398.421,-37.3277,0 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 chr01 35732045 . ATAG TTAG,TTAA 123795 PASS AB=0.552727,0.443232;ABP=62.7771,72.2877;AC=29,13;AF=0.690476,0.309524;AN=42;AO=3148,1424;CIGAR=1X3M,1X2M1X;DP=4587;DPB=4587;DPRA=0.664486,2.56589;EPP=6838.81,3095.19;EPPR=11.6962;GTI=0;LEN=1,4;MEANALT=2.2,2.625;MQM=59.905,57.3989;MQMR=54.25;NS=21;NUMALT=2;ODDS=16.2771;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=112628,50018;QR=111;RO=4;RPL=1263,593;RPP=269.881,89.3873;RPPR=5.18177;RPR=1885,831;RUN=1,1;SAF=1263,593;SAP=269.881,89.3873;SAR=1885,831;SRF=3;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:209:0,137,72:0:0:137,72:4892,2531:-605.138,-206.301,-165.059,-399.191,0,-377.516 1/2:31:0,20,10:0:0:20,10:720,352:-87.3458,-28.5924,-22.5718,-58.7483,0,-55.738 1/1:241:1,239,1:1:28:239,1:8578,36:-769.172,-69.7674,0,-766.535,-68.9688,-768.452 1/2:379:0,198,181:0:0:198,181:7082,6363:-1095.23,-517.844,-458.24,-577.744,0,-523.257 1/2:496:1,251,244:1:30:251,244:8962,8570:-1424.46,-694.303,-621.143,-728.118,0,-657.065 1/2:167:0,85,82:0:0:85,82:2995,2885:-478.068,-234.227,-208.64,-244.192,0,-219.507 1/2:341:0,164,175:0:0:164,175:5879,6151:-979.711,-500.226,-450.858,-479.586,0,-426.906 2/2:321:0,0,319:0:0:0,319:0,11215:-1008.1,-1008.1,-1008.1,-96.0286,-96.0286,0 1/1:380:1,378,1:1:29:378,1:13496,36:-1211.49,-111.515,0,-1208.85,-110.819,-1210.86 1/1:36:0,36,0:0:0:36,0:1296,0:-116.935,-10.8371,0,-116.935,-10.8371,-116.935 1/1:11:0,11,0:0:0:11,0:388,0:-35.2574,-3.31133,0,-35.2574,-3.31133,-35.2574 1/1:60:0,60,0:0:0:60,0:2141,0:-192.956,-18.0618,0,-192.956,-18.0618,-192.956 1/1:390:0,388,1:0:0:388,1:13909,36:-1251.17,-116.8,0,-1248.24,-113.806,-1247.94 1/1:307:0,307,0:0:0:307,0:11032,0:-992.663,-92.4162,0,-992.663,-92.4162,-992.663 1/2:434:1,258,173:1:24:258,173:9249,6073:-1246.13,-492.158,-416.332,-752.519,0,-702.28 1/2:59:0,37,21:0:0:37,21:1328,732:-167.88,-59.5476,-48.4095,-108.383,0,-102.062 1/2:86:0,56,29:0:0:56,29:2016,1012:-246.748,-82.2465,-65.3888,-164.495,0,-155.765 1/2:139:0,66,73:0:0:66,73:2348,2559:-399.599,-208.263,-188.395,-191.689,0,-169.714 1/2:134:0,96,37:0:0:96,37:3410,1290:-382.099,-104.231,-75.3326,-277.964,0,-266.826 1/1:282:0,277,5:0:0:277,5:9898,177:-890.314,-83.3853,0,-875.897,-68.6136,-874.391 1/1:84:0,84,0:0:0:84,0:3009,0:-271.023,-25.2865,0,-271.023,-25.2865,-271.023 chr01 35833956 . C T 30968.8 PASS AB=0.614325;ABP=167.851;AC=29;AF=0.690476;AN=42;AO=1582;CIGAR=1X;DP=2183;DPB=2183;DPRA=2.82237;EPP=3438.28;EPPR=1305.89;GTI=1;LEN=1;MEANALT=1.05;MQM=43.5917;MQMR=59.2983;NS=21;NUMALT=1;ODDS=1.96722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56638;QR=21378;RO=600;RPL=1582;RPP=3438.28;RPPR=1305.89;RPR=0;RUN=1;SAF=1582;SAP=3438.28;SAR=0;SRF=600;SRP=1305.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:185:87,98:87:3091:98:3520:-254.679,0,-222.711 0/1:107:34,73:34:1216:73:2628:-200.467,0,-77.4696 1/1:74:0,74:0:0:74:2660:-235.111,-22.2762,0 0/1:69:16,53:16:576:53:1904:-147.388,0,-31.368 0/1:302:135,167:135:4789:167:5973:-435.258,0,-339.103 0/1:91:15,76:15:527:76:2736:-213.609,0,-20.3101 0/1:152:51,100:51:1828:100:3566:-269.161,0,-118.918 0/0:38:38,0:38:1349:0:0:0,-11.4391,-121.677 1/1:231:0,231:0:0:231:8279:-730.605,-69.5379,0 1/1:16:0,16:0:0:16:552:-48.4799,-4.81648,0 1/1:8:0,8:0:0:8:284:-24.3764,-2.40824,0 1/1:26:0,26:0:0:26:924:-82.0654,-7.82678,0 1/1:117:0,117:0:0:117:4195:-369.115,-35.2205,0 1/1:94:0,94:0:0:94:3355:-294.151,-28.2968,0 0/1:219:85,134:85:3018:134:4805:-357.526,0,-205.339 0/1:105:43,62:43:1540:62:2209:-164.11,0,-107.267 0/1:133:63,70:63:2264:70:2492:-180.256,0,-163.645 0/1:43:23,20:23:820:20:720:-50.6361,0,-61.1174 0/1:46:7,39:7:252:39:1400:-110.092,0,-9.16374 1/1:100:3,97:3:108:97:3464:-295.327,-20.0278,0 1/1:27:0,27:0:0:27:972:-85.4357,-8.12781,0 chr01 35834018 . TTGTAAAAG CTGAAAAATAA,CTGAAAAAC 146893 PASS AB=0.410099,0.584939;ABP=243.518,217.701;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4892,2152;CIGAR=1X2M1X3M2I1M1X,1X2M1X4M1X;DP=7103;DPB=8204.78;DPRA=3.01164,1.04179;EPP=10213,4676.02;EPPR=0;GTI=0;LEN=11,9;MEANALT=4.3,4.125;MQM=42.4626,59.973;MQMR=0;NS=21;NUMALT=2;ODDS=44.7866;PAIRED=0,0;PAIREDR=0;PAO=3,3;PQA=106.5,106.5;PQR=0;PRO=0;QA=172396,76228;QR=0;RO=0;RPL=4844,2152;RPP=10213,4676.02;RPPR=0;RPR=48,0;RUN=1,1;SAF=0,0;SAP=10625.9,4676.02;SAR=4892,2152;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:330:0,117,212:0:0:117,212:4112,7534:-941.769,-614.078,-578.857,-327.827,0,-264.008 1/2:188:0,86,99:0:0:86,99:3048,3525:-522.862,-287.302,-261.413,-235.551,0,-205.749 1/1:116:0,114,1:0:0:114,1:4029,36:-355.361,-34.3174,0,-352.424,-31.38,-352.122 1/2:310:0,102,206:0:0:102,206:3578,7267:-877.18,-591.797,-561.092,-285.447,0,-223.435 1/2:441:0,162,277:0:0:162,277:5658,9783:-1246.64,-796.696,-747.929,-449.947,0,-366.562 1/2:197:0,103,93:0:0:103,93:3652,3305:-552.735,-269.427,-238.42,-283.409,0,-255.413 1/2:272:0,138,133:0:0:138,133:4854,4712:-763.779,-383.922,-342.38,-379.933,0,-339.896 2/2:116:0,0,115:0:0:0,115:0,4061:-365.318,-365.318,-365.318,-34.6185,-34.6185,0 1/1:234:0,231,0:0:0:231,0:8132,0:-721.813,-69.5379,0,-721.813,-69.5379,-721.813 1/1:795:0,760,22:0:0:760,22:26817,790:-2347.24,-228.783,0,-2282.79,-164.317,-2276.17 1/1:833:0,824,2:0:0:824,2:29038,72:-2512.22,-248.049,0,-2506.35,-242.162,-2505.75 1/1:1119:0,1106,0:0:0:1106,0:39070,0:-3422.09,-332.939,0,-3422.09,-332.939,-3422.09 1/1:115:0,115,0:0:0:115,0:4053,0:-358.135,-34.6185,0,-358.135,-34.6185,-358.135 1/1:131:0,129,0:0:0:129,0:4521,0:-398.136,-38.8329,0,-398.136,-38.8329,-398.136 1/2:364:0,112,252:0:0:112,252:3926,8904:-1036.92,-725.494,-691.779,-311.775,0,-235.916 1/2:171:0,74,97:0:0:74,97:2603,3432:-488.285,-279.835,-257.559,-208.74,0,-179.54 1/2:201:0,109,90:0:0:109,90:3831,3175:-565.78,-258.332,-225.519,-307.473,0,-280.38 1/2:891:0,363,523:0:0:363,523:12744,18576:-2519.09,-1513.64,-1404.37,-1005.46,0,-848.021 1/2:61:0,39,22:0:0:39,22:1391,780:-174.711,-63.8996,-52.1594,-111.164,0,-104.541 1/1:178:0,169,8:0:0:169,8:5955,276:-522.529,-50.8741,0,-500.107,-28.4594,-497.699 1/1:40:0,39,0:0:0:39,0:1384,0:-120.151,-11.7402,0,-120.151,-11.7402,-120.151 chr02 44274 . T C 21806 PASS AB=0.497196;ABP=3.08336;AC=30;AF=0.714286;AN=42;AO=1076;CIGAR=1X;DP=1693;DPB=1693;DPRA=1.06382;EPP=2236.45;EPPR=1299.73;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.44591;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38358;QR=21991;RO=617;RPL=1064;RPP=2236.45;RPPR=1299.73;RPR=12;RUN=1;SAF=0;SAP=2339.51;SAR=1076;SRF=0;SRP=1342.81;SRR=617;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:78,78:78:2770:78:2785:-203.928,0,-202.578 0/1:58:23,35:23:813:35:1248:-95.1651,0,-56.0294 0/1:72:44,28:44:1569:28:1008:-69.3622,0,-119.825 1/1:21:0,21:0:0:21:741:-67.0116,-6.32163,0 1/1:160:1,159:1:36:159:5663:-506.189,-44.5665,0 1/1:65:0,65:0:0:65:2320:-209.059,-19.567,0 0/1:128:63,65:63:2264:65:2313:-169.897,0,-165.49 0/0:76:76,0:76:2713:0:0:0,-22.8783,-244.412 1/1:74:1,73:1:36:73:2616:-232.089,-18.6779,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:38:16,22:16:557:22:788:-59.8057,0,-39.0164 0/1:88:40,48:40:1436:48:1724:-128.955,0,-103.047 1/1:73:1,72:1:36:72:2547:-225.878,-18.3769,0 0/1:221:122,99:122:4339:99:3549:-253.088,0,-324.155 0/1:58:26,32:26:932:32:1127:-84.2755,0,-66.7391 1/1:36:0,36:0:0:36:1273:-114.871,-10.8371,0 0/1:151:86,65:86:3073:65:2321:-163.693,0,-231.341 0/1:100:40,60:40:1417:60:2141:-162.853,0,-97.7224 1/1:73:0,73:0:0:73:2593:-233.616,-21.9752,0 1/1:15:0,15:0:0:15:525:-47.5781,-4.51545,0 chr02 59141 . G A 39875 PASS AB=0.504542;ABP=3.26675;AC=30;AF=0.714286;AN=42;AO=1923;CIGAR=1X;DP=2754;DPB=2754;DPRA=1.28689;EPP=4075.17;EPPR=1768.59;GTI=0;LEN=1;MEANALT=1.1;MQM=59.689;MQMR=59.9602;NS=21;NUMALT=1;ODDS=7.42085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68408;QR=29612;RO=829;RPL=1911;RPP=4075.17;RPPR=1768.59;RPR=12;RUN=1;SAF=1923;SAP=4178.75;SAR=0;SRF=829;SRP=1803.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:333:154,179:154:5523:179:6349:-471.24,0,-396.951 0/1:114:55,58:55:1957:58:2047:-150.124,0,-142.028 0/1:83:53,30:53:1900:30:1072:-71.7847,0,-146.292 1/1:128:0,128:0:0:128:4558:-410.294,-38.5318,0 1/1:294:7,287:7:244:287:10222:-897.514,-66.2034,0 1/1:130:0,130:0:0:130:4592:-413.437,-39.1339,0 0/1:224:109,115:109:3886:115:4118:-303.363,0,-282.504 0/0:103:103,0:103:3665:0:0:0,-31.0061,-330.054 1/1:220:0,219:0:0:219:7753:-697.429,-65.9256,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:43:25,18:25:892:18:644:-45.3432,0,-67.6554 0/1:181:90,91:90:3199:91:3252:-238.401,0,-233.642 1/1:136:1,135:1:36:135:4775:-424.624,-37.3418,0 0/1:191:98,93:98:3502:93:3324:-241.861,0,-257.666 0/1:119:60,59:60:2152:59:2120:-155.244,0,-158.125 1/1:116:5,111:5:180:111:3957:-339.762,-18.3674,0 0/1:76:44,32:44:1576:32:1141:-80.1188,0,-119.253 0/1:67:20,47:20:720:47:1676:-130.946,0,-44.9598 1/1:139:5,134:5:180:134:4768:-412.621,-25.2911,0 1/1:37:0,37:0:0:37:1324:-119.458,-11.1381,0 chr02 86610 . TTG TTATG 17719.7 PASS AB=0.523723;ABP=5.68898;AC=30;AF=0.714286;AN=42;AO=872;CIGAR=1M2I2M;DP=1182;DPB=1765.33;DPRA=1.39146;EPP=1887.86;EPPR=665.309;GTI=0;LEN=2;MEANALT=1.25;MQM=59.9862;MQMR=59.9869;NS=21;NUMALT=1;ODDS=7.28484;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30491;QR=10472;RO=305;RPL=1;RPP=1887.86;RPPR=665.309;RPR=871;RUN=1;SAF=0;SAP=1896.53;SAR=872;SRF=0;SRP=665.309;SRR=305;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:22,28:22:703:28:992:-74.5429,0,-48.5173 0/1:20:11,9:11:386:9:312:-22.3948,0,-29.055 0/1:96:46,50:46:1593:50:1783:-131.854,0,-114.757 1/1:64:1,62:1:21:62:2174:-193.748,-17.1499,0 1/1:124:1,123:1:36:123:4352:-388.255,-33.7294,0 1/1:55:0,54:0:0:54:1870:-168.292,-16.2556,0 0/1:115:51,64:51:1792:64:2234:-166.702,0,-126.943 0/0:41:41,0:41:1412:0:0:0,-12.3422,-127.373 1/1:150:2,147:2:62:147:5128:-455.789,-39.2547,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:19:5,14:5:170:14:468:-36.7185,0,-9.91442 0/1:81:47,34:47:1627:34:1161:-80.4051,0,-122.333 1/1:94:0,94:0:0:94:3264:-293.978,-28.2968,0 0/1:37:15,22:15:508:22:788:-60.1067,0,-34.9023 0/1:22:10,12:10:352:12:416:-31.149,0,-25.395 1/1:35:0,35:0:0:35:1214:-109.559,-10.5361,0 0/1:63:36,26:36:1238:26:889:-61.2974,0,-92.6966 0/1:45:17,28:17:572:28:981:-75.0547,0,-38.2514 1/1:28:0,28:0:0:28:977:-88.2405,-8.42884,0 1/1:33:0,32:0:0:32:1128:-101.469,-9.63296,0 chr02 86688 . G A 32204 PASS AB=0.577859;ABP=46.2918;AC=30;AF=0.714286;AN=42;AO=1198;CIGAR=1X;DP=1610;DPB=1610;DPRA=1.41364;EPP=5.35941;EPPR=8.08764;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9466;MQMR=60;NS=21;NUMALT=1;ODDS=17.046;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42755;QR=14657;RO=411;RPL=15;RPP=2475.78;RPPR=861.08;RPR=1183;RUN=1;SAF=630;SAP=9.97786;SAR=568;SRF=225;SRP=11.0463;SRR=186;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:29,35:29:1032:35:1252:-93.7186,0,-73.9276 0/1:62:28,34:28:996:34:1212:-90.7225,0,-71.291 0/1:33:13,20:13:468:20:720:-55.1948,0,-32.5257 1/1:57:0,57:0:0:57:2044:-184.232,-17.1587,0 1/1:168:4,164:4:144:164:5800:-508.791,-37.2594,0 1/1:112:5,107:5:180:107:3829:-328.253,-17.1633,0 0/1:93:40,53:40:1440:53:1904:-143.642,0,-101.902 0/0:55:55,0:55:1955:0:0:0,-16.5566,-176.225 1/1:132:0,132:0:0:132:4718:-424.722,-39.736,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:27:9,18:9:324:18:648:-50.5241,0,-21.378 0/1:90:39,50:39:1383:50:1800:-135.278,0,-97.7628 1/1:60:0,60:0:0:60:2099:-189.172,-18.0618,0 0/1:98:32,66:32:1143:66:2358:-182.976,0,-73.6778 0/1:46:21,25:21:752:25:887:-66.3007,0,-54.1589 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 0/1:178:85,93:85:3012:93:3326:-245.973,0,-217.727 0/1:131:50,81:50:1792:81:2908:-222.52,0,-122.128 1/1:62:0,62:0:0:62:2205:-198.711,-18.6639,0 1/1:100:1,99:1:36:99:3541:-315.291,-26.5047,0 chr02 86694 . G A 32016.2 PASS AB=0.579202;ABP=48.0703;AC=30;AF=0.714286;AN=42;AO=1202;CIGAR=1X;DP=1615;DPB=1615;DPRA=1.44537;EPP=2604.44;EPPR=891.164;GTI=0;LEN=1;MEANALT=1;MQM=59.9551;MQMR=60;NS=21;NUMALT=1;ODDS=17.1016;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42965;QR=14722;RO=413;RPL=640;RPP=14.0013;RPPR=6.29643;RPR=562;RUN=1;SAF=639;SAP=13.4449;SAR=563;SRF=220;SRP=6.84324;SRR=193;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:27,35:27:972:35:1256:-94.6814,0,-69.134 0/1:60:29,31:29:1027:31:1108:-81.9692,0,-74.6804 0/1:33:13,20:13:464:20:716:-54.8337,0,-32.1635 1/1:57:0,57:0:0:57:2027:-182.702,-17.1587,0 1/1:167:4,163:4:144:163:5834:-511.848,-36.9584,0 1/1:115:6,109:6:216:109:3904:-331.763,-14.8279,0 0/1:94:42,52:42:1486:52:1860:-139.383,0,-105.736 0/0:54:54,0:54:1919:0:0:0,-16.2556,-172.986 1/1:127:0,127:0:0:127:4538:-408.587,-38.2308,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:28:10,18:10:360:18:648:-50.223,0,-24.3155 0/1:90:38,52:38:1351:52:1856:-140.227,0,-94.7969 1/1:62:0,62:0:0:62:2216:-199.702,-18.6639,0 0/1:99:33,66:33:1184:66:2362:-183.035,0,-77.0663 0/1:47:20,27:20:720:27:964:-72.9284,0,-50.9804 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 0/1:182:86,96:86:3055:96:3425:-253.672,0,-220.39 0/1:132:50,82:50:1788:82:2913:-222.668,0,-121.467 1/1:65:0,65:0:0:65:2319:-208.955,-19.567,0 1/1:101:1,100:1:36:100:3579:-318.71,-26.8058,0 chr02 162160 . 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G T 9288.89 PASS AB=0.51875;ABP=5.45321;AC=12;AF=0.285714;AN=42;AO=516;CIGAR=1X;DP=1636;DPB=1636;DPRA=1.67794;EPP=1123.49;EPPR=2435.06;GTI=0;LEN=1;MEANALT=1;MQM=59.9632;MQMR=59.9821;NS=21;NUMALT=1;ODDS=3.27744;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18444;QR=39875;RO=1120;RPL=516;RPP=1123.49;RPPR=2435.06;RPR=0;RUN=1;SAF=516;SAP=1123.49;SAR=0;SRF=1120;SRP=2435.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:45,34:45:1578:34:1224:-86.6857,0,-118.528 0/1:67:32,35:32:1140:35:1252:-92.8161,0,-82.7402 0/1:88:43,45:43:1540:45:1602:-117.98,0,-112.402 0/0:92:92,0:92:3253:0:0:0,-27.6948,-292.992 0/0:200:199,1:199:7110:1:32:0,-57.0067,-636.76 0/0:72:72,0:72:2565:0:0:0,-21.6742,-231.099 0/1:118:43,75:43:1536:75:2667:-204.75,0,-103.012 1/1:99:0,99:0:0:99:3547:-319.438,-29.802,0 0/0:149:149,0:149:5300:0:0:0,-44.8535,-477.136 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:41:26,15:26:917:15:540:-36.5943,0,-70.5024 0/1:212:105,107:105:3734:107:3832:-281.258,0,-272.438 0/0:59:59,0:59:2115:0:0:0,-17.7608,-190.618 0/1:79:30,49:30:1067:49:1752:-134.183,0,-72.5598 0/1:42:23,19:23:824:19:684:-49.2471,0,-61.8401 0/0:34:34,0:34:1215:0:0:0,-10.235,-109.656 0/1:32:13,19:13:456:19:672:-51.1739,0,-31.7403 0/1:42:25,17:25:892:17:604:-42.0427,0,-67.9564 0/0:98:97,1:97:3449:1:36:0,-25.9027,-306.996 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 chr02 307025 . 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ATTTCTTG ATTTTCTCG,ATTTTCTTG 32815.6 PASS AB=0.506831,0.489071;ABP=3.30695,3.76972;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1193,446;CIGAR=1M1I5M1X1M,1M1I7M;DP=1645;DPB=1850.5;DPRA=0.895402,0.839884;EPP=2593.58,971.487;EPPR=5.18177;GTI=0;LEN=9,1;MEANALT=1.8,2.16667;MQM=39.3797,53.7354;MQMR=60;NS=21;NUMALT=2;ODDS=10.6621;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41795,15719;QR=36;RO=1;RPL=0,0;RPP=2593.58,971.487;RPPR=5.18177;RPR=1193,446;RUN=1,1;SAF=1193,446;SAP=2593.58,971.487;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:85:0,29,55:0:0:29,55:1026,1919:-235.464,-155.646,-146.916,-79.9448,0,-63.3882 1/2:23:0,12,11:0:0:12,11:413,381:-60.8535,-30.1565,-26.5441,-31.0236,0,-27.7123 1/2:115:0,56,58:0:0:56,58:1987,2049:-321.481,-166.6,-149.742,-154.882,0,-137.422 1/1:105:0,105,0:0:0:105,0:3665,0:-317.675,-31.6082,0,-317.675,-31.6082,-317.675 1/1:176:0,176,0:0:0:176,0:6106,0:-527.109,-52.9813,0,-527.109,-52.9813,-527.109 1/1:50:0,48,2:0:0:48,2:1679,72:-139.496,-14.4494,0,-133.64,-8.23718,-133.038 1/2:116:0,62,54:0:0:62,54:2181,1932:-318.498,-156.682,-138.018,-162.156,0,-145.901 2/2:87:1,0,86:1:36:0,86:0,2979:-263.543,-263.844,-266.782,-22.5913,-25.8886,0 1/1:219:0,217,0:0:0:217,0:7622,0:-667.55,-65.3235,0,-667.55,-65.3235,-667.55 1/1:15:0,15,0:0:0:15,0:532,0:-45.5548,-4.51545,0,-45.5548,-4.51545,-45.5548 1/1:4:0,4,0:0:0:4,0:140,0:-12.2461,-1.20412,0,-12.2461,-1.20412,-12.2461 1/2:27:0,12,15:0:0:12,15:417,532:-75.4076,-43.6119,-39.9995,-32.1352,0,-27.6197 1/2:68:0,38,30:0:0:38,30:1341,1072:-192.106,-87.5551,-76.116,-104.9,0,-95.8691 1/1:123:0,123,0:0:0:123,0:4284,0:-370.829,-37.0267,0,-370.829,-37.0267,-370.829 1/2:153:0,81,72:0:0:81,72:2828,2554:-427.684,-208.224,-183.84,-219.806,0,-198.132 1/2:40:0,18,21:0:0:18,21:640,748:-111.661,-60.9591,-55.5406,-50.7068,0,-44.3852 1/1:48:0,48,0:0:0:48,0:1646,0:-144.661,-14.4494,0,-144.661,-14.4494,-144.661 1/2:60:0,32,28:0:0:32,28:1140,1004:-168.82,-82.0609,-72.4279,-87.1057,0,-78.6768 1/2:45:0,31,14:0:0:31,14:1104,477:-124.621,-38.9558,-29.6239,-86.0051,0,-81.7907 1/1:45:0,45,0:0:0:45,0:1591,0:-135.281,-13.5464,0,-135.281,-13.5464,-135.281 1/1:41:0,41,0:0:0:41,0:1453,0:-120.528,-12.3422,0,-120.528,-12.3422,-120.528 chr02 441633 . T C 39199.2 PASS AB=0.440605;ABP=45.5721;AC=30;AF=0.714286;AN=42;AO=1890;CIGAR=1X;DP=2866;DPB=2866;DPRA=0.712234;EPP=4072.42;EPPR=2105;GTI=1;LEN=1;MEANALT=1.2;MQM=59.6831;MQMR=59.9609;NS=21;NUMALT=1;ODDS=4.55814;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67408;QR=34873;RO=972;RPL=1886;RPP=4072.42;RPPR=2105;RPR=4;RUN=1;SAF=0;SAP=4107.09;SAR=1890;SRF=0;SRP=2113.68;SRR=972;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:106,68:106:3795:68:2417:-165.403,0,-289.282 0/1:158:87,71:87:3132:71:2532:-180.549,0,-234.542 0/1:152:98,54:98:3520:54:1916:-126.953,0,-271.252 1/1:181:0,181:0:0:181:6462:-581.558,-54.4864,0 1/1:292:2,289:2:72:289:10318:-921.606,-81.0229,0 1/1:96:5,90:5:180:90:3216:-273.07,-12.4056,0 0/1:224:115,109:115:4128:109:3874:-281.278,0,-304.271 0/0:188:188,0:188:6737:0:0:0,-56.5936,-606.401 1/1:277:0,277:0:0:277:9879:-888,-83.3853,0 1/1:8:0,8:0:0:8:288:-26.1969,-2.40824,0 1/1:11:0,11:0:0:11:379:-34.4393,-3.31133,0 0/1:22:11,11:11:396:11:387:-28.5433,0,-29.3601 0/1:156:91,65:91:3253:65:2325:-162.54,0,-246.015 1/1:129:0,129:0:0:129:4591:-413.352,-38.8329,0 0/1:214:121,92:121:4352:92:3281:-231.023,0,-327.371 0/1:146:79,67:79:2836:67:2372:-169.729,0,-211.528 1/1:118:0,117:0:0:117:4175:-375.727,-35.2205,0 0/1:67:48,19:48:1720:19:680:-41.2847,0,-134.916 0/1:76:20,56:20:716:56:2004:-157.753,0,-41.8894 1/1:107:1,106:1:36:106:3800:-338.59,-28.6119,0 1/1:70:0,70:0:0:70:2512:-226.304,-21.0721,0 chr02 465779 . C T 25590.2 PASS AB=0.410825;ABP=236.541;AC=12;AF=0.285714;AN=42;AO=1577;CIGAR=1X;DP=7265;DPB=7265;DPRA=2.75785;EPP=3401.41;EPPR=12291.4;GTI=1;LEN=1;MEANALT=1.28571;MQM=60;MQMR=59.9768;NS=21;NUMALT=1;ODDS=33.6444;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56509;QR=201933;RO=5683;RPL=1576;RPP=3418.74;RPPR=12317.4;RPR=1;RUN=1;SAF=2;SAP=3410.07;SAR=1575;SRF=3;SRP=12317.4;SRR=5680;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:231:121,110:121:4246:110:3948:-285.971,0,-312.779 0/1:164:108,56:108:3865:56:2008:-131.624,0,-298.674 0/1:152:67,85:67:2351:85:3056:-229.512,0,-166.088 0/0:72:72,0:72:2554:0:0:0,-21.6742,-230.108 0/0:384:382,1:382:13598:1:36:0,-112.056,-1219.97 0/0:102:101,0:101:3609:0:0:0,-30.404,-324.803 0/1:182:73,109:73:2598:109:3886:-295.145,0,-179.278 1/1:166:1,165:1:36:165:5902:-527.688,-46.3727,0 0/0:470:470,0:470:16690:0:0:0,-141.484,-1501.76 0/0:1071:1055,16:1055:37438:16:572:0,-270.59,-3315.97 0/0:1148:1141,6:1141:40572:6:216:0,-325.851,-3630.33 0/1:1121:701,419:701:24924:419:15036:-1015.44,0,-1904.95 0/1:184:104,80:104:3706:80:2872:-203.327,0,-278.35 0/0:157:157,0:157:5553:0:0:0,-47.2617,-499.848 0/1:180:87,92:87:3120:92:3270:-240.423,0,-226.93 0/1:137:84,53:84:2949:53:1908:-130.756,0,-224.397 0/0:126:126,0:126:4468:0:0:0,-37.9298,-402.287 0/1:966:593,373:593:21168:373:13382:-913.371,0,-1613.78 0/1:64:52,12:52:1853:12:417:-18.5943,0,-147.782 0/0:145:145,0:145:5140:0:0:0,-43.6493,-462.74 0/0:43:43,0:43:1495:0:0:0,-12.9443,-134.837 chr02 628918 . A T 55776.9 PASS AB=0.528935;ABP=15.5767;AC=29;AF=0.690476;AN=42;AO=2110;CIGAR=1X;DP=3027;DPB=3027;DPRA=1.47879;EPP=4550.14;EPPR=1994.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9697;MQMR=59.9727;NS=21;NUMALT=1;ODDS=17.8217;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75508;QR=32798;RO=917;RPL=1270;RPP=193.297;RPPR=87.5983;RPR=840;RUN=1;SAF=1274;SAP=200.443;SAR=836;SRF=553;SRP=87.5983;SRR=364;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:70,77:70:2500:77:2736:-202.23,0,-181.002 0/1:162:77,85:77:2751:85:3048:-225.782,0,-199.065 0/1:107:46,61:46:1648:61:2181:-164.345,0,-116.398 1/1:198:1,197:1:36:197:7064:-632.219,-56.0057,0 0/1:220:119,101:119:4239:101:3611:-258.883,0,-315.464 1/1:139:1,138:1:36:138:4937:-440.88,-38.2449,0 0/1:295:148,147:148:5304:147:5263:-384.988,0,-388.5 0/0:99:99,0:99:3556:0:0:0,-29.802,-320.246 1/1:274:1,273:1:36:273:9778:-876.364,-78.8839,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:12:0,12:0:0:12:432:-39.2208,-3.61236,0 0/1:57:37,20:37:1328:20:720:-47.9701,0,-102.664 0/1:159:70,89:70:2508:89:3178:-238.38,0,-178.108 1/1:187:0,187:0:0:187:6681:-601.367,-56.2926,0 0/1:190:93,97:93:3335:97:3475:-255.709,0,-243.171 0/1:120:50,70:50:1796:70:2490:-188.224,0,-125.799 1/1:116:0,116:0:0:116:4146:-373.324,-34.9195,0 0/1:139:60,79:60:2143:79:2821:-212.286,0,-151.294 0/1:132:44,88:44:1546:88:3152:-244.169,0,-99.6918 1/1:121:1,120:1:36:120:4288:-382.498,-32.8264,0 1/1:136:0,136:0:0:136:4895:-440.692,-40.9401,0 chr02 663170 . C T 37490.5 PASS AB=0.522752;ABP=11.113;AC=29;AF=0.690476;AN=42;AO=1840;CIGAR=1X;DP=2849;DPB=2849;DPRA=0.953169;EPP=3946.57;EPPR=2185.35;GTI=1;LEN=1;MEANALT=1;MQM=46.1804;MQMR=59.3726;NS=21;NUMALT=1;ODDS=3.7937;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65732;QR=35880;RO=1009;RPL=1804;RPP=3691.95;RPPR=2142.22;RPR=36;RUN=1;SAF=1810;SAP=3742.19;SAR=30;SRF=1004;SRP=2150.81;SRR=5;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:223:117,106:117:4156:106:3800:-271.226,0,-306.32 0/1:94:35,59:35:1248:59:2107:-159,0,-84.3234 0/1:119:64,55:64:2265:55:1980:-138.875,0,-168.252 1/1:193:0,193:0:0:193:6877:-611.234,-58.0988,0 0/1:285:157,128:157:5601:128:4591:-321.537,0,-418.229 1/1:38:1,37:1:36:37:1324:-114.66,-7.84087,0 0/1:237:112,125:112:3961:125:4461:-326.407,0,-285.26 0/0:142:142,0:142:5033:0:0:0,-42.7463,-452.943 1/1:147:0,147:0:0:147:5263:-465.91,-44.2514,0 1/1:29:1,28:1:36:28:1000:-85.8817,-5.1316,0 1/1:4:0,4:0:0:4:144:-13.2217,-1.20412,0 0/1:49:29,20:29:1040:20:720:-49.8088,0,-79.1639 0/1:115:68,47:68:2416:47:1678:-113.841,0,-182.492 1/1:179:0,179:0:0:179:6393:-567.707,-53.8844,0 0/1:242:97,145:97:3438:145:5188:-388.286,0,-236.453 0/1:175:69,106:69:2472:106:3791:-283.773,0,-170.054 1/1:155:3,152:3:108:152:5420:-469.855,-36.5869,0 0/1:165:82,83:82:2922:83:2931:-211.708,0,-213.488 0/1:98:30,68:30:1076:68:2440:-187.105,0,-67.5721 1/1:95:1,94:1:36:94:3359:-294.523,-24.9996,0 1/1:65:1,64:1:36:64:2265:-198.637,-15.9687,0 chr02 664978 . C T 14813.1 PASS AB=0.379718;ABP=332.631;AC=18;AF=0.428571;AN=42;AO=997;CIGAR=1X;DP=2755;DPB=2755;DPRA=2.37337;EPP=2167.97;EPPR=3818.29;GTI=0;LEN=1;MEANALT=1.05263;MQM=59.9529;MQMR=59.9442;NS=21;NUMALT=1;ODDS=28.6056;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35634;QR=62732;RO=1757;RPL=0;RPP=2167.97;RPPR=3818.29;RPR=997;RUN=1;SAF=0;SAP=2167.97;SAR=997;SRF=0;SRP=3818.29;SRR=1757;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:63,27:63:2241:27:964:-59.9841,0,-174.853 0/1:72:51,21:51:1824:21:756:-46.6931,0,-142.767 0/1:145:103,42:103:3687:42:1500:-91.6443,0,-288.377 0/1:179:93,86:93:3323:86:3080:-223.543,0,-245.403 0/1:226:120,106:120:4287:106:3794:-273.625,0,-317.975 0/1:90:32,58:32:1148:58:2075:-159.927,0,-76.5367 0/1:171:108,63:108:3863:63:2246:-150.927,0,-296.383 0/0:101:101,0:101:3593:0:0:0,-30.404,-323.387 0/1:362:281,80:281:10041:80:2868:-149.327,0,-794.589 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:15:14,1:14:500:1:36:0,-0.917175,-41.7379 0/1:62:43,19:43:1525:19:684:-43.2265,0,-118.877 0/1:140:102,38:102:3645:38:1368:-81.2766,0,-285.919 0/1:199:134,65:134:4763:65:2319:-149.065,0,-368.917 0/1:272:142,130:142:5080:130:4621:-334.174,0,-375.451 0/1:60:29,31:29:1044:31:1116:-82.6899,0,-76.213 0/1:58:30,28:30:1072:28:998:-72.6302,0,-79.3327 0/1:131:94,37:94:3341:37:1324:-79.5363,0,-261.467 0/1:148:92,56:92:3284:56:2008:-136.441,0,-251.228 0/1:132:69,63:69:2467:63:2233:-161.497,0,-182.548 0/1:86:40,46:40:1428:46:1644:-122.36,0,-102.929 chr02 665006 . C T 15943 PASS AB=0.395043;ABP=257.815;AC=20;AF=0.47619;AN=42;AO=1054;CIGAR=1X;DP=2766;DPB=2766;DPRA=0;EPP=2283.06;EPPR=3709.72;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9516;MQMR=59.9234;NS=21;NUMALT=1;ODDS=2.87077;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37709;QR=61057;RO=1711;RPL=1053;RPP=2283.06;RPPR=3709.72;RPR=1;RUN=1;SAF=0;SAP=2291.74;SAR=1054;SRF=0;SRP=3718.4;SRR=1711;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:65,27:65:2317:27:972:-60.1031,0,-181.088 0/1:70:49,21:49:1752:21:756:-47.2951,0,-136.892 0/1:147:104,43:104:3710:43:1533:-94.0088,0,-289.841 0/1:181:96,85:96:3452:85:3041:-219.432,0,-256.405 0/1:226:121,105:121:4276:105:3759:-270.476,0,-316.966 0/1:91:32,59:32:1148:59:2092:-161.153,0,-76.2361 0/1:175:108,67:108:3852:67:2384:-162.138,0,-294.191 0/0:103:101,2:101:3616:2:72:0,-24.1694,-318.619 0/1:369:277,91:277:9865:91:3268:-183.201,0,-776.634 0/1:18:7,11:7:252:11:396:-30.5642,0,-17.6104 0/1:15:8,7:8:288:7:252:-18.5135,0,-21.752 0/1:62:35,27:35:1260:27:972:-69.134,0,-95.0416 0/1:139:100,39:100:3580:39:1396:-84.0959,0,-280.346 0/1:198:123,75:123:4381:75:2688:-182.561,0,-334.854 0/1:270:140,130:140:5024:130:4645:-336.933,0,-371.016 0/1:61:30,31:30:1043:31:1105:-81.3968,0,-75.8133 0/1:56:28,28:28:1008:28:987:-72.266,0,-74.1787 0/1:129:89,40:89:3184:40:1440:-90.5741,0,-247.937 0/1:147:89,58:89:3165:58:2075:-142.768,0,-240.823 0/1:132:71,61:71:2536:61:2188:-157.45,0,-188.755 0/1:85:38,47:38:1348:47:1688:-126.619,0,-96.0327 chr02 797445 . A T 14585.5 PASS AB=0.468453;ABP=13.0118;AC=15;AF=0.357143;AN=42;AO=650;CIGAR=1X;DP=2133;DPB=2133;DPRA=0.719685;EPP=1414.47;EPPR=3223.3;GTI=1;LEN=1;MEANALT=1;MQM=59.9523;MQMR=59.9238;NS=21;NUMALT=1;ODDS=4.05502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22715;QR=52171;RO=1483;RPL=386;RPP=52.7337;RPPR=17.947;RPR=264;RUN=1;SAF=386;SAP=52.7337;SAR=264;SRF=691;SRP=17.947;SRR=792;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:30,37:30:1055:37:1290:-96.2304,0,-75.091 0/1:29:15,14:15:515:14:477:-34.523,0,-37.9451 0/1:111:54,57:54:1895:57:2032:-149.738,0,-137.413 0/0:113:113,0:113:3991:0:0:0,-34.0164,-359.347 0/1:134:65,69:65:2282:69:2393:-175.288,0,-165.304 0/1:63:55,8:55:1931:8:273:-5.93529,0,-154.73 0/1:141:68,73:68:2372:73:2535:-185.957,0,-171.29 1/1:107:0,107:0:0:107:3732:-336.081,-32.2102,0 0/0:289:289,0:289:10179:0:0:0,-86.9977,-915.928 0/0:25:25,0:25:880:0:0:0,-7.52575,-79.5177 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:64:38,26:38:1316:26:902:-62.2269,0,-99.4707 0/1:136:59,77:59:2091:77:2747:-206.305,0,-147.52 0/0:107:106,1:106:3712:1:36:0,-28.6119,-330.689 0/1:126:68,58:68:2383:58:1984:-140.899,0,-176.797 0/1:28:9,19:9:320:19:660:-51.2945,0,-20.7135 0/1:25:19,6:19:676:6:216:-12.2648,0,-53.6422 0/1:104:52,52:52:1809:52:1839:-134.483,0,-131.782 0/1:129:83,46:83:2943:46:1599:-105.362,0,-226.27 0/0:225:225,0:225:7945:0:0:0,-67.7317,-715.085 0/0:105:105,0:105:3700:0:0:0,-31.6081,-333.205 chr02 826782 . GTGATTCT GTACT,GTATT 102813 PASS AB=0.719185,0.279835;ABP=2132.43,2151.51;AC=22,20;AF=0.52381,0.47619;AN=42;AO=3811,1428;CIGAR=1M3D1M1X2M,2M1D2M2D1M;DP=5244;DPB=3277.5;DPRA=0,1.80957;EPP=8278.49,3103.87;EPPR=0;GTI=3;LEN=5,5;MEANALT=2.19048,2.25;MQM=59.8664,59.8039;MQMR=0;NS=21;NUMALT=2;ODDS=13.9047;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=135246,50505;QR=0;RO=0;RPL=0,0;RPP=8278.49,3103.87;RPPR=0;RPR=3811,1428;RUN=1,1;SAF=3811,1428;SAP=8278.49,3103.87;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:325:0,251,73:0:0:251,73:8854,2583:-931.271,-210.382,-134.824,-720.883,0,-698.907 1/2:234:0,175,59:0:0:175,59:6240,2098:-679.926,-171.286,-118.605,-508.997,0,-491.236 1/2:132:0,102,30:0:0:102,30:3653,1076:-386.026,-88.1203,-57.4153,-298.264,0,-289.233 1/2:491:0,312,179:0:0:312,179:11057,6351:-1418.54,-517.784,-423.863,-901.106,0,-847.221 1/2:425:0,337,88:0:0:337,88:11849,3115:-1218.53,-254.063,-152.616,-964.823,0,-938.333 1/2:251:0,150,101:0:0:150,101:5309,3541:-720.897,-288.476,-243.322,-432.773,0,-402.369 1/2:298:0,224,73:0:0:224,73:7976,2567:-859.111,-209.052,-141.621,-650.16,0,-628.185 1/1:141:0,141,0:0:0:141,0:4985,0:-448.797,-42.4452,0,-448.797,-42.4452,-448.797 1/2:498:0,366,132:0:0:366,132:13059,4678:-1445.84,-381.361,-271.184,-1064.83,0,-1025.09 1/2:51:0,36,14:0:0:36,14:1268,488:-142.903,-39.6758,-28.8387,-103.218,0,-99.0036 1/2:60:0,48,12:0:0:48,12:1697,401:-171.017,-32.7978,-18.3483,-138.558,0,-134.945 1/2:62:0,43,19:0:0:43,19:1540,654:-179.059,-53.4596,-40.5153,-125.948,0,-120.228 1/2:180:0,136,43:0:0:136,43:4849,1514:-518.602,-123.343,-82.4031,-395.349,0,-382.405 1/2:280:0,183,97:0:0:183,97:6507,3420:-809.075,-278.803,-223.715,-530.626,0,-501.426 1/2:419:0,325,94:0:0:325,94:11557,3344:-1214.61,-272.866,-175.031,-942.101,0,-913.804 1/2:233:0,186,46:0:0:186,46:6596,1628:-670.104,-132.727,-76.7354,-537.498,0,-523.651 1/2:246:0,194,52:0:0:194,52:6854,1854:-709.659,-151.486,-93.0864,-558.529,0,-542.875 1/2:217:0,167,50:0:0:167,50:5932,1776:-628.398,-145.055,-94.7833,-483.697,0,-468.646 1/2:194:0,135,59:0:0:135,59:4812,2098:-563.258,-171.325,-130.686,-392.288,0,-374.527 1/2:320:0,185,135:0:0:185,135:6574,4766:-923.857,-388.437,-332.746,-535.775,0,-495.136 1/2:187:0,115,72:0:0:115,72:4078,2553:-540.222,-208.287,-173.668,-332.289,0,-310.615 chr02 882745 . A C 53833.6 PASS AB=0.522943;ABP=14.0705;AC=28;AF=0.666667;AN=42;AO=2642;CIGAR=1X;DP=3987;DPB=3987;DPRA=0;EPP=5679.4;EPPR=2904.12;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9739;MQMR=59.9509;NS=21;NUMALT=1;ODDS=11.255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=94433;QR=48128;RO=1344;RPL=2635;RPP=5679.4;RPPR=2904.12;RPR=7;RUN=1;SAF=0;SAP=5740.04;SAR=2642;SRF=0;SRP=2921.47;SRR=1344;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:229:97,132:97:3446:132:4706:-354.762,0,-241.415 0/1:177:100,77:100:3588:77:2772:-196.435,0,-269.788 0/1:195:94,101:94:3380:101:3632:-268.383,0,-245.627 1/1:279:1,278:1:36:278:9957:-892.465,-80.3891,0 0/1:436:215,221:215:7717:221:7854:-575.641,0,-563.307 1/1:287:3,284:3:108:284:10153:-903.621,-76.3204,0 0/1:367:183,184:183:6534:184:6587:-482.419,0,-477.663 0/0:184:183,1:183:6552:1:36:0,-51.7912,-586.161 1/1:285:1,284:1:36:284:10140:-908.929,-82.1953,0 1/1:29:0,29:0:0:29:1029:-92.9211,-8.72987,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:32:18,14:18:644:14:504:-36.0651,0,-48.6576 0/1:225:91,134:91:3257:134:4792:-363.704,0,-225.617 1/1:246:1,244:1:36:244:8726:-781.728,-70.5139,0 0/1:216:108,108:108:3876:108:3853:-281.943,0,-284.011 0/1:165:83,82:83:2965:82:2928:-214.085,0,-217.412 0/1:210:99,111:99:3545:111:3944:-291.934,0,-256.038 0/1:77:35,42:35:1260:42:1504:-112.47,0,-90.5216 0/1:90:31,59:31:1112:59:2124:-164.336,0,-73.2986 1/1:178:1,177:1:36:177:6339:-566.997,-49.9851,0 1/1:74:0,74:0:0:74:2641:-237.935,-22.2762,0 chr02 882751 . T C 23474.3 PASS AB=0.473641;ABP=17.7776;AC=14;AF=0.333333;AN=42;AO=1350;CIGAR=1X;DP=4042;DPB=4042;DPRA=5.95758;EPP=2925.82;EPPR=5805.27;GTI=0;LEN=1;MEANALT=1;MQM=59.9274;MQMR=59.9543;NS=21;NUMALT=1;ODDS=12.5904;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48190;QR=96283;RO=2692;RPL=1349;RPP=2925.82;RPPR=5805.27;RPR=1;RUN=1;SAF=0;SAP=2934.5;SAR=1350;SRF=0;SRP=5848.61;SRR=2692;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:229:133,96:133:4765:96:3438:-239.334,0,-360.052 0/1:180:79,101:79:2840:101:3597:-269.728,0,-201.649 0/1:196:103,93:103:3680:93:3314:-239.388,0,-272.399 0/0:288:287,1:287:10237:1:36:0,-83.0984,-917.636 0/1:436:220,216:220:7874:216:7699:-561.691,0,-577.433 0/0:288:286,2:286:10238:2:72:0,-79.8599,-914.505 0/1:372:188,184:188:6756:184:6579:-480.207,0,-496.099 1/1:186:1,185:1:36:185:6591:-589.671,-52.3933,0 0/0:289:288,1:288:10280:1:36:0,-83.3994,-921.524 0/0:30:30,0:30:1056:0:0:0,-9.0309,-95.3481 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:33:14,19:14:504:19:684:-51.9563,0,-35.7641 0/1:232:140,92:140:5001:92:3273:-224.951,0,-380.398 0/0:250:249,1:249:8902:1:36:0,-71.6592,-797.477 0/1:221:110,111:110:3929:111:3988:-292.581,0,-287.274 0/1:164:81,83:81:2889:83:2972:-218.344,0,-210.876 0/1:213:112,101:112:3990:101:3596:-259.725,0,-295.169 0/1:80:46,34:46:1633:34:1216:-85.6596,0,-123.169 0/1:91:62,29:62:2232:29:1027:-65.3484,0,-173.75 0/0:184:183,1:183:6576:1:36:0,-51.7912,-588.31 0/0:74:74,0:74:2649:0:0:0,-22.2762,-238.496 chr02 910076 . A G 15687.9 PASS AB=0.477037;ABP=9.19337;AC=14;AF=0.333333;AN=42;AO=866;CIGAR=1X;DP=2552;DPB=2552;DPRA=1.03572;EPP=1883.51;EPPR=3661.94;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9994;NS=21;NUMALT=1;ODDS=12.6559;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30950;QR=60463;RO=1685;RPL=0;RPP=1883.51;RPPR=3661.94;RPR=866;RUN=1;SAF=866;SAP=1883.51;SAR=0;SRF=1685;SRP=3661.94;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:68,42:68:2444:42:1504:-102.541,0,-187.101 0/1:57:24,33:24:860:33:1184:-89.7096,0,-60.5631 0/1:138:85,53:85:3052:53:1900:-129.736,0,-233.367 0/0:149:149,0:149:5352:0:0:0,-44.8535,-481.81 0/1:156:68,88:68:2425:88:3148:-236.585,0,-171.544 0/0:88:86,2:86:3092:2:72:0,-19.6539,-271.67 0/1:136:66,70:66:2372:70:2501:-184.402,0,-172.798 1/1:219:0,219:0:0:219:7804:-702.395,-65.9256,0 0/0:261:261,0:261:9380:0:0:0,-78.5688,-844.158 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/1:70:24,46:24:860:46:1652:-127.896,0,-56.6497 0/1:227:113,114:113:4049:114:4080:-299.053,0,-296.261 0/0:195:195,0:195:6985:0:0:0,-58.7008,-628.711 0/1:165:87,78:87:3124:78:2781:-200.86,0,-231.716 0/1:53:23,30:23:820:30:1076:-81.1983,0,-58.1679 0/1:45:29,16:29:1040:16:576:-38.6286,0,-80.368 0/1:97:50,47:50:1796:47:1672:-121.567,0,-132.722 0/1:96:68,27:68:2440:27:964:-58.1192,0,-190.897 0/0:184:183,1:183:6568:1:36:0,-51.7912,-587.601 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.499 chr02 910107 . C T 15858.3 PASS AB=0.481315;ABP=7.06761;AC=14;AF=0.333333;AN=42;AO=866;CIGAR=1X;DP=2526;DPB=2526;DPRA=1.03932;EPP=1874.83;EPPR=3605.48;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9873;MQMR=59.9994;NS=21;NUMALT=1;ODDS=11.7103;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31035;QR=58837;RO=1659;RPL=865;RPP=1874.83;RPPR=3605.48;RPR=1;RUN=1;SAF=866;SAP=1883.51;SAR=0;SRF=1659;SRP=3605.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:67,44:67:2373:44:1580:-109.077,0,-180.413 0/1:57:23,34:23:811:34:1220:-92.9481,0,-56.1513 0/1:137:85,52:85:3009:52:1872:-127.518,0,-229.8 0/0:150:150,0:150:5332:0:0:0,-45.1545,-480.016 0/1:153:66,87:66:2342:87:3132:-236.047,0,-164.981 0/0:85:83,2:83:2980:2:72:0,-18.7508,-261.595 0/1:131:63,68:63:2249:68:2420:-178.619,0,-163.237 1/1:219:0,219:0:0:219:7840:-705.625,-65.9256,0 0/0:255:255,0:255:9044:0:0:0,-76.7626,-813.944 0/0:29:29,0:29:1018:0:0:0,-8.72987,-91.9304 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/1:70:24,46:24:852:46:1656:-128.256,0,-55.9283 0/1:227:111,116:111:3914:116:4149:-305.24,0,-284.121 0/0:192:192,0:192:6800:0:0:0,-57.7978,-612.077 0/1:164:86,78:86:3088:78:2799:-202.781,0,-228.778 0/1:53:23,30:23:824:30:1076:-81.1983,0,-58.5287 0/1:44:28,16:28:1000:16:576:-38.9297,0,-77.0701 0/1:95:50,45:50:1770:45:1612:-116.772,0,-130.984 0/1:96:68,28:68:2398:28:995:-60.9658,0,-187.176 0/0:182:180,1:180:6358:1:36:0,-51.248,-568.717 0/0:65:65,0:65:2287:0:0:0,-19.5669,-206.087 chr02 940883 . C A 5892.69 PASS AB=0.307995;ABP=247.334;AC=12;AF=0.285714;AN=42;AO=364;CIGAR=1X;DP=1461;DPB=1461;DPRA=1.20678;EPP=793.426;EPPR=2385.12;GTI=1;LEN=1;MEANALT=1;MQM=59.6676;MQMR=59.9116;NS=21;NUMALT=1;ODDS=7.01166;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13053;QR=38763;RO=1097;RPL=364;RPP=793.426;RPPR=2385.12;RPR=0;RUN=1;SAF=364;SAP=793.426;SAR=0;SRF=1097;SRP=2385.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:89,24:89:3138:24:860:-43.703,0,-248.469 0/1:66:31,35:31:1095:35:1256:-93.4281,0,-78.9911 0/1:45:36,9:36:1247:9:324:-15.9579,0,-98.9794 0/0:82:82,0:82:2886:0:0:0,-24.6845,-259.976 0/1:126:101,25:101:3585:25:892:-42.624,0,-284.928 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.737 0/1:189:104,85:104:3632:85:3037:-216.658,0,-270.188 1/1:125:0,125:0:0:125:4492:-404.408,-37.6288,0 0/0:148:148,0:148:5224:0:0:0,-44.5524,-470.299 0/0:10:10,0:10:336:0:0:0,-3.0103,-30.5632 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:16:9,7:9:320:7:248:-17.8477,0,-24.3259 0/1:65:54,11:54:1910:11:396:-16.406,0,-151.832 0/0:88:88,0:88:3139:0:0:0,-26.4906,-282.736 0/1:64:51,13:51:1818:13:468:-23.1937,0,-144.634 0/0:30:28,2:28:989:2:72:0,-2.19418,-82.4853 0/0:29:28,1:28:972:1:36:0,-5.13159,-84.1909 0/1:55:32,23:32:1131:23:828:-58.2875,0,-85.5396 0/1:24:21,3:21:752:3:108:-2.85045,0,-60.7815 0/0:86:85,1:85:3010:1:36:0,-22.2903,-267.534 0/0:38:38,0:38:1355:0:0:0,-11.4391,-122.25 chr02 950585 . A C 19297.8 PASS AB=0.512357;ABP=4.40566;AC=28;AF=0.666667;AN=42;AO=981;CIGAR=1X;DP=1535;DPB=1535;DPRA=1.91795;EPP=2133.22;EPPR=1206.01;GTI=0;LEN=1;MEANALT=1;MQM=55.1264;MQMR=59.9314;NS=21;NUMALT=1;ODDS=8.50983;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35167;QR=19798;RO=554;RPL=0;RPP=2133.22;RPPR=1206.01;RPR=981;RUN=1;SAF=981;SAP=2133.22;SAR=0;SRF=554;SRP=1206.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:41,57:41:1472:57:2048:-154.447,0,-103.275 0/1:59:32,27:32:1152:27:972:-69.6342,0,-86.2294 0/1:81:35,46:35:1252:46:1641:-123.316,0,-88.6016 1/1:58:0,58:0:0:58:2080:-187.281,-17.4597,0 0/1:168:91,77:91:3245:77:2768:-198.572,0,-241.697 1/1:68:2,66:2:68:66:2372:-206.69,-14.0123,0 0/1:134:70,64:70:2492:64:2300:-166.109,0,-184.196 0/0:39:39,0:39:1392:0:0:0,-11.7402,-125.509 1/1:105:0,105:0:0:105:3760:-338.167,-31.6082,0 1/1:13:0,13:0:0:13:468:-42.4007,-3.91339,0 1/1:11:0,11:0:0:11:396:-35.8867,-3.31133,0 0/1:17:5,12:5:180:12:424:-33.1474,0,-11.4346 0/1:92:31,61:31:1116:61:2192:-169.175,0,-73.0569 1/1:76:0,76:0:0:76:2714:-244.095,-22.8783,0 0/1:163:103,60:103:3673:60:2156:-144.875,0,-281.633 0/1:52:23,29:23:816:29:1036:-77.8014,0,-58.1082 0/1:63:22,41:22:788:41:1468:-113.233,0,-52.2799 0/1:76:39,37:39:1400:37:1332:-96.9107,0,-103.421 0/1:49:21,28:21:752:28:1004:-75.7708,0,-53.2558 1/1:82:0,82:0:0:82:2932:-263.181,-24.6845,0 1/1:31:0,31:0:0:31:1104:-98.6206,-9.33193,0 chr02 950596 . TTTT ATTA 19233.3 PASS AB=0.513514;ABP=4.71226;AC=28;AF=0.666667;AN=42;AO=1002;CIGAR=1X2M1X;DP=1568;DPB=1568;DPRA=1.8622;EPP=2178.83;EPPR=1225.55;GTI=0;LEN=4;MEANALT=1.15;MQM=55.1607;MQMR=59.9325;NS=21;NUMALT=1;ODDS=9.34576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35371;QR=20006;RO=563;RPL=0;RPP=2178.83;RPPR=1225.55;RPR=1002;RUN=1;SAF=1002;SAP=2178.83;SAR=0;SRF=563;SRP=1225.55;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:42,59:42:1457:59:2093:-157.596,0,-101.016 0/1:59:32,27:32:1143:27:952:-67.8877,0,-85.4184 0/1:81:35,46:35:1254:46:1625:-121.886,0,-88.782 1/1:58:0,58:0:0:58:2032:-182.995,-17.4597,0 0/1:172:92,78:92:3282:78:2756:-196.631,0,-244.101 1/1:69:2,67:2:72:67:2357:-205.012,-13.9343,0 0/1:136:70,66:70:2493:66:2334:-168.677,0,-183.684 0/0:41:41,0:41:1467:0:0:0,-12.3422,-132.256 1/1:108:0,107:0:0:107:3754:-337.542,-32.2102,0 1/1:13:0,13:0:0:13:467:-42.3112,-3.91339,0 1/1:12:0,12:0:0:12:429:-38.8551,-3.61236,0 0/1:18:5,13:5:169:13:444:-34.5848,0,-10.123 0/1:92:31,61:31:1106:61:2168:-167.022,0,-72.1557 1/1:77:0,77:0:0:77:2686:-241.662,-23.1793,0 0/1:169:107,62:107:3813:62:2217:-148.578,0,-292.421 0/1:53:23,30:23:816:30:1062:-79.8381,0,-57.8066 0/1:65:23,42:23:822:42:1481:-113.84,0,-54.7362 0/1:77:39,38:39:1365:38:1340:-97.376,0,-99.9661 0/1:50:21,29:21:747:29:1040:-78.6819,0,-52.5038 1/1:86:0,86:0:0:86:3039:-272.844,-25.8886,0 1/1:31:0,31:0:0:31:1095:-97.9507,-9.33193,0 chr02 950750 . C A 39603.5 PASS AB=0.56158;ABP=52.2187;AC=28;AF=0.666667;AN=42;AO=2028;CIGAR=1X;DP=2793;DPB=2793;DPRA=1.26745;EPP=4406.76;EPPR=1662.02;GTI=0;LEN=1;MEANALT=1.05;MQM=40.5478;MQMR=40.0275;NS=21;NUMALT=1;ODDS=27.7993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72712;QR=27279;RO=764;RPL=2028;RPP=4406.76;RPPR=1662.02;RPR=0;RUN=1;SAF=0;SAP=4406.76;SAR=2028;SRF=0;SRP=1662.02;SRR=764;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:197:61,136:61:2184:136:4861:-363.717,0,-128.143 0/1:92:33,59:33:1188:59:2109:-154.795,0,-76.2875 0/1:101:41,60:41:1457:60:2156:-157.391,0,-93.6793 1/1:189:0,189:0:0:189:6772:-590.421,-56.8947,0 0/1:253:114,139:114:4057:139:4988:-357.03,0,-270.599 1/1:232:0,232:0:0:232:8307:-717.924,-69.839,0 0/1:212:101,111:101:3601:111:3984:-281.747,0,-250.162 0/0:106:106,0:106:3758:0:0:0,-31.9092,-323.38 1/1:329:1,327:1:36:327:11740:-992.544,-95.7284,0 1/1:9:0,9:0:0:9:324:-28.0209,-2.70927,0 1/1:12:0,12:0:0:12:432:-37.7846,-3.61236,0 0/1:23:15,8:15:540:8:288:-18.4854,0,-39.6726 0/1:156:78,78:78:2785:78:2800:-196.347,0,-189.526 1/1:210:0,210:0:0:210:7544:-657.364,-63.2163,0 0/1:199:101,98:101:3617:98:3499:-245.815,0,-247.926 0/1:92:38,54:38:1360:54:1936:-133.317,0,-87.9918 0/1:83:43,40:43:1544:40:1432:-96.1917,0,-106.361 0/1:33:14,19:14:504:19:684:-49.8019,0,-34.0225 0/1:53:16,37:16:576:37:1328:-99.9392,0,-33.3661 1/1:160:2,158:2:72:158:5660:-483.521,-41.7284,0 1/1:52:0,52:0:0:52:1868:-161.715,-15.6536,0 chr02 951394 . A C,G 117018 PASS AB=0.515363,0.482542;ABP=8.88177,10.5923;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3028,1620;CIGAR=1X,1X;DP=4655;DPB=4655;DPRA=0.97533,2.3119;EPP=1465.37,939.821;EPPR=9.52472;GTI=0;LEN=1,1;MEANALT=1.95,2.11765;MQM=46.3686,47.5296;MQMR=30.6667;NS=21;NUMALT=2;ODDS=16.2673;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=106957,57517;QR=108;RO=3;RPL=1974,922;RPP=609.99,70.267;RPPR=9.52472;RPR=1054,698;RUN=1,1;SAF=1174,532;SAP=334.612,417.381;SAR=1854,1088;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:184:1,101,82:1:36:101,82:3539,2907:-439.335,-189.448,-160.878,-248.416,0,-225.566 1/2:212:0,107,105:0:0:107,105:3814,3764:-528.065,-261.763,-229.553,-266.612,0,-235.003 1/2:196:0,97,98:0:0:97,98:3398,3503:-504.222,-256.388,-227.188,-247.795,0,-218.294 1/1:228:1,226,1:1:36:226,1:8012,36:-609.706,-65.2955,0,-607.07,-65.0848,-609.517 1/2:395:0,207,186:0:0:207,186:7297,6610:-951.743,-434.334,-372.021,-517.472,0,-461.48 1/1:292:0,288,4:0:0:288,4:10143,144:-819.882,-86.6966,0,-811.954,-78.5141,-810.75 1/2:279:0,139,140:0:0:139,140:4960,4934:-712.77,-360.656,-318.813,-352.431,0,-310.287 2/2:227:0,0,227:0:0:0,227:0,8019:-630.065,-630.065,-630.065,-68.3338,-68.3338,0 1/1:385:0,383,2:0:0:383,2:13517,72:-1099.62,-115.294,0,-1095.95,-111.387,-1095.35 1/1:20:0,20,0:0:0:20,0:677,0:-47.578,-6.0206,0,-47.578,-6.0206,-47.578 1/1:27:0,27,0:0:0:27,0:955,0:-69.1492,-8.12781,0,-69.1492,-8.12781,-69.1492 1/2:80:0,35,45:0:0:35,45:1237,1576:-211.979,-119.561,-109.025,-92.7452,0,-79.1988 1/2:220:0,122,98:0:0:122,98:4266,3473:-529.626,-233.735,-197.009,-296.191,0,-266.69 1/1:280:0,280,0:0:0:280,0:9936,0:-821.827,-84.2884,0,-821.827,-84.2884,-821.827 1/2:670:0,326,343:0:0:326,343:11568,12218:-1765.77,-912.472,-814.336,-853.261,0,-750.007 1/2:165:0,92,73:0:0:92,73:3225,2563:-401.611,-175.896,-148.202,-226.017,0,-204.042 1/2:130:0,55,75:0:0:55,75:1972,2659:-324.139,-179.276,-162.719,-145.178,0,-122.601 1/2:183:0,98,85:0:0:98,85:3427,3036:-421.895,-204.584,-175.083,-217.603,0,-192.015 1/2:150:1,97,52:1:36:97,52:3410,1859:-338.841,-117.68,-90.7914,-219.149,0,-205.807 1/1:229:0,225,4:0:0:225,4:7949,144:-620.506,-67.7318,0,-608.756,-55.6223,-607.552 1/1:103:0,103,0:0:0:103,0:3655,0:-280.441,-31.0061,0,-280.441,-31.0061,-280.441 chr02 983884 . TTTG TTTA,CTTA 35650.5 PASS AB=0.61614,0.379498;ABP=110.445,118.667;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1291,407;CIGAR=3M1X,1X2M1X;DP=1706;DPB=1706;DPRA=1.42069,1.10038;EPP=2797.7,886.8;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2,2.28571;MQM=60,59.9951;MQMR=60;NS=21;NUMALT=2;ODDS=17.2979;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45679,14414;QR=30;RO=1;RPL=1,0;RPP=2797.7,886.8;RPPR=5.18177;RPR=1290,407;RUN=1,1;SAF=1291,407;SAP=2806.38,886.8;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,42,27:0:0:42,27:1508,956:-201.243,-78.2278,-65.5845,-123.371,0,-115.244 1/2:56:0,36,19:0:0:36,19:1247,671:-156.094,-54.7504,-43.9133,-101.447,0,-95.7279 1/2:65:0,38,27:0:0:38,27:1318,961:-185.803,-78.6789,-67.2397,-107.476,0,-99.3484 1/1:203:1,201,0:1:30:201,0:7088,0:-634.958,-58.1384,0,-635.259,-60.507,-637.657 1/2:206:0,133,72:0:0:133,72:4705,2546:-590.58,-207.356,-167.319,-383.218,0,-361.544 1/1:87:0,87,0:0:0:87,0:3100,0:-279.229,-26.1896,0,-279.229,-26.1896,-279.229 1/2:85:0,50,34:0:0:50,34:1762,1199:-241.086,-97.63,-82.5785,-143.459,0,-133.224 2/2:58:0,0,58:0:0:0,58:0,2038:-183.69,-183.69,-183.69,-17.4597,-17.4597,0 1/1:77:0,77,0:0:0:77,0:2729,0:-245.853,-23.1793,0,-245.853,-23.1793,-245.853 1/1:28:0,28,0:0:0:28,0:992,0:-89.5944,-8.42884,0,-89.5944,-8.42884,-89.5944 1/1:14:0,14,0:0:0:14,0:504,0:-45.6981,-4.21442,0,-45.6981,-4.21442,-45.6981 1/2:27:0,14,13:0:0:14,13:466,460:-75.5198,-37.8219,-33.6075,-38.0414,0,-34.1281 1/2:91:0,52,39:0:0:52,39:1818,1391:-261.639,-113.749,-98.0956,-148.244,0,-136.504 1/1:90:0,90,0:0:0:90,0:3155,0:-284.174,-27.0927,0,-284.174,-27.0927,-284.174 1/2:57:0,37,20:0:0:37,20:1293,712:-163.563,-58.3861,-47.2479,-105.531,0,-99.5103 1/2:64:0,49,15:0:0:49,15:1752,530:-186.376,-43.5165,-28.766,-143.214,0,-138.698 1/2:63:0,38,25:0:0:38,25:1341,881:-181.278,-72.0819,-60.6428,-109.549,0,-102.023 1/2:57:0,26,31:0:0:26,31:928,1107:-166.264,-90.6096,-82.7828,-76.0115,0,-66.6795 1/2:77:0,50,26:0:0:50,26:1772,926:-219.907,-75.5484,-60.4969,-144.43,0,-136.603 1/1:198:0,196,1:0:0:196,1:7028,36:-632.275,-59.0019,0,-629.338,-56.0094,-629.037 1/1:34:0,33,0:0:0:33,0:1173,0:-105.517,-9.93399,0,-105.517,-9.93399,-105.517 chr02 1033110 . TAC TAT,CAT 57580.6 PASS AB=0.490608,0.50663;ABP=4.39716,3.70133;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1767,1007;CIGAR=2M1X,1X1M1X;DP=2781;DPB=2781.33;DPRA=1.58588,1.58998;EPP=3840,2189.68;EPPR=9.52472;GTI=0;LEN=1,3;MEANALT=1.9,2.13333;MQM=59.9508,50.57;MQMR=60;NS=21;NUMALT=2;ODDS=1.19598;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=63258,35305;QR=106;RO=3;RPL=0,0;RPP=3840,2189.68;RPPR=9.52472;RPR=1767,1007;RUN=1,1;SAF=1767,1007;SAP=3840,2189.68;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:109:0,65,44:0:0:65,44:2325,1557:-316.249,-126.662,-107.095,-189.942,0,-176.697 1/2:120:0,34,86:0:0:34,86:1205,3028:-341.381,-243.214,-232.979,-98.4605,0,-72.5719 1/2:178:0,86,92:0:0:86,92:3092,3241:-514.98,-262.717,-236.829,-252.618,0,-224.923 1/1:156:0,156,0:0:0:156,0:5604,0:-504.472,-46.9607,0,-504.472,-46.9607,-504.472 1/2:313:0,154,158:0:0:154,158:5459,5550:-894.464,-449.737,-403.378,-444.759,0,-397.196 1/1:191:1,186,4:1:36:186,4:6668,144:-596.6,-53.0537,0,-585.241,-44.3333,-586.974 1/2:236:0,134,101:0:0:134,101:4804,3526:-674.813,-283.057,-242.719,-391.75,0,-361.346 2/2:85:0,0,85:0:0:0,85:0,2954:-264.503,-264.503,-264.503,-25.5876,-25.5876,0 1/1:165:0,164,0:0:0:164,0:5888,0:-529.717,-49.3689,0,-529.717,-49.3689,-529.717 1/1:20:0,20,0:0:0:20,0:705,0:-63.7728,-6.0206,0,-63.7728,-6.0206,-63.7728 1/1:4:0,4,0:0:0:4,0:144,0:-13.2252,-1.20412,0,-13.2252,-1.20412,-13.2252 1/2:32:0,19,13:0:0:19,13:680,448:-92.0364,-36.5759,-30.8563,-55.8096,0,-51.8962 1/2:157:0,89,68:0:0:89,68:3204,2372:-454.045,-192.608,-165.817,-261.79,0,-241.32 1/1:132:0,132,0:0:0:132,0:4706,0:-423.699,-39.736,0,-423.699,-39.736,-423.699 1/2:253:0,142,111:0:0:142,111:5108,3902:-732.352,-315.592,-272.846,-417.114,0,-383.699 1/2:113:2,40,71:2:70:40,71:1432,2485:-312.378,-196.198,-189.852,-111.091,0,-95.413 1/2:139:0,41,98:0:0:41,98:1468,3428:-397.245,-277.526,-265.184,-120.074,0,-90.5729 1/2:96:0,48,48:0:0:48,48:1709,1681:-275.266,-135.973,-121.524,-139.644,0,-125.195 1/2:64:0,36,27:0:0:36,27:1277,953:-181.127,-77.0833,-66.2463,-104.122,0,-95.9941 1/1:136:0,135,1:0:0:135,1:4832,36:-434.674,-40.6391,0,-431.751,-37.357,-431.449 1/1:82:0,82,0:0:0:82,0:2948,0:-265.553,-24.6845,0,-265.553,-24.6845,-265.553 chr02 1033153 . CATAAAATAG TATAAAATAG,TATAAATAG 56531.2 PASS AB=0.486966,0.507488;ABP=5.67075,3.88828;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1745,1009;CIGAR=1X9M,1X2M1D6M;DP=2765;DPB=2665;DPRA=1.53908,1.73504;EPP=3792.23,2194.03;EPPR=0;GTI=0;LEN=1,9;MEANALT=2.3,2.5625;MQM=59.9668,50.7671;MQMR=0;NS=21;NUMALT=2;ODDS=0.395889;PAIRED=0,0;PAIREDR=0;PAO=7.5,7.5;PQA=257,257;PQR=0;PRO=0;QA=62430,34644;QR=0;RO=0;RPL=1745,1009;RPP=3792.23,2194.03;RPPR=0;RPR=0,0;RUN=1,1;SAF=1745,1009;SAP=3792.23,2194.03;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:109:0,66,43:0:0:66,43:2336,1491:-311.356,-121.077,-101.209,-190.628,0,-177.684 1/2:121:0,35,86:0:0:35,86:1244,2973:-340.859,-239.482,-228.946,-101.729,0,-75.84 1/2:179:0,85,94:0:0:85,94:3052,3257:-512.801,-263.833,-238.245,-249.262,0,-220.965 1/1:155:0,154,0:0:0:154,0:5528,0:-497.433,-46.3586,0,-497.433,-46.3586,-497.433 1/2:310:0,149,158:0:0:149,158:5332,5384:-869.522,-434.718,-389.865,-434.742,0,-387.179 1/1:185:0,181,4:0:0:181,4:6495,142:-584.264,-54.4864,0,-572.776,-42.6901,-571.571 1/2:234:0,133,100:0:0:133,100:4734,3432:-661.879,-276.046,-236.009,-385.791,0,-355.688 2/2:87:0,0,87:0:0:0,87:0,3002:-268.901,-268.901,-268.901,-26.1896,-26.1896,0 1/1:163:0,163,0:0:0:163,0:5851,0:-526.698,-49.0679,0,-526.698,-49.0679,-526.698 1/1:20:0,20,0:0:0:20,0:712,0:-64.4067,-6.0206,0,-64.4067,-6.0206,-64.4067 1/1:4:0,4,0:0:0:4,0:144,0:-13.2252,-1.20412,0,-13.2252,-1.20412,-13.2252 1/2:31:0,19,12:0:0:19,12:675,422:-89.5054,-34.5032,-28.7836,-55.3005,0,-51.6882 1/2:155:0,86,69:0:0:86,69:3096,2366:-444.421,-191.793,-165.904,-252.978,0,-232.207 1/1:135:0,133,2:0:0:133,2:4761,61:-428.311,-40.037,0,-423.425,-34.8754,-422.823 1/2:253:0,141,111:0:0:141,111:5031,3767:-714.447,-304.303,-261.858,-410.219,0,-376.804 1/2:113:0,41,71:0:0:41,71:1472,2430:-317.049,-196.968,-184.625,-120.074,0,-98.701 1/2:139:0,42,94:0:0:42,94:1500,3236:-384.621,-262.323,-249.68,-122.351,0,-94.0539 1/2:95:0,47,48:0:0:47,48:1688,1629:-269.265,-131.555,-117.406,-138.059,0,-123.609 1/2:64:0,34,29:0:0:34,29:1208,1016:-180.566,-82.1453,-71.9102,-98.4128,0,-89.683 1/1:133:0,132,1:0:0:132,1:4723,36:-424.691,-39.736,0,-421.768,-36.4539,-421.467 1/1:80:0,80,0:0:0:80,0:2848,0:-256.556,-24.0824,0,-256.556,-24.0824,-256.556 chr02 1074385 . TGGT CGGT,CGGG 72672.5 PASS AB=0.574039,0.421275;ABP=104.62,117.889;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2372,1093;CIGAR=1X3M,1X2M1X;DP=3480;DPB=3480;DPRA=0.85625,1.84155;EPP=5101.76,2376.43;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=2.15,2.6;MQM=59.6674,54.4767;MQMR=60;NS=21;NUMALT=2;ODDS=20.1804;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84360,38460;QR=108;RO=3;RPL=6,0;RPP=5101.76,2376.43;RPPR=9.52472;RPR=2366,1093;RUN=1,1;SAF=2372,1093;SAP=5153.74,2376.43;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:353:0,179,170:0:0:179,170:6328,5978:-1000.97,-485.61,-431.726,-515.429,0,-464.254 1/2:105:0,55,50:0:0:55,50:1952,1771:-302.815,-143.878,-127.321,-159.291,0,-144.24 1/2:146:1,95,49:1:36:95,49:3400,1728:-414.435,-137.479,-111.818,-274.319,0,-262.506 1/1:117:0,117,0:0:0:117,0:4180,0:-376.359,-35.2205,0,-376.359,-35.2205,-376.359 1/2:335:0,213,122:0:0:213,122:7577,4255:-963.462,-346.082,-281.962,-617.731,0,-581.005 1/1:226:0,226,0:0:0:226,0:7974,0:-717.664,-68.0328,0,-717.664,-68.0328,-717.664 1/2:203:0,107,96:0:0:107,96:3795,3377:-582.971,-273.944,-241.734,-309.378,0,-280.48 2/2:192:0,0,189:0:0:0,189:0,6698:-600.762,-600.762,-600.762,-56.8947,-56.8947,0 1/1:348:0,345,3:0:0:345,3:12274,88:-1104.16,-103.855,0,-1097.14,-96.5483,-1096.24 1/1:37:0,37,0:0:0:37,0:1328,0:-119.818,-11.1381,0,-119.818,-11.1381,-119.818 1/1:19:0,18,0:0:0:18,0:640,0:-57.5664,-5.41854,0,-57.5664,-5.41854,-57.5664 1/2:33:0,23,9:0:0:23,9:828,323:-93.9135,-26.3556,-19.432,-67.6101,0,-64.9009 1/2:176:1,97,78:1:36:97,78:3455,2711:-498.499,-217.202,-190.94,-278.652,0,-258.109 1/1:163:0,162,0:0:0:162,0:5744,0:-516.632,-48.7669,0,-516.632,-48.7669,-516.632 1/2:294:0,160,134:0:0:160,134:5726,4708:-849.363,-382.733,-334.569,-466.983,0,-426.645 1/2:101:0,59,42:0:0:59,42:2101,1479:-291.96,-120.718,-102.957,-171.596,0,-158.953 1/2:127:0,87,40:0:0:87,40:3085,1407:-366.073,-114.74,-88.5507,-251.685,0,-239.644 1/2:160:1,87,72:1:36:87,72:3110,2584:-460.622,-207.369,-184.116,-250.615,0,-231.878 1/2:101:0,63,37:0:0:63,37:2247,1281:-287.109,-103.936,-84.971,-183.173,0,-172.035 1/1:185:0,183,2:0:0:183,2:6517,72:-585.915,-55.0885,0,-580.049,-48.8635,-579.447 1/1:59:0,59,0:0:0:59,0:2099,0:-189.127,-17.7608,0,-189.127,-17.7608,-189.127 chr02 1074406 . A G 18301.5 PASS AB=0.417363;ABP=130.774;AC=14;AF=0.333333;AN=42;AO=1096;CIGAR=1X;DP=3530;DPB=3530;DPRA=1.83784;EPP=2382.94;EPPR=5284.03;GTI=0;LEN=1;MEANALT=1.0625;MQM=54.4224;MQMR=59.6291;NS=21;NUMALT=1;ODDS=17.6069;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39027;QR=86792;RO=2432;RPL=1095;RPP=2374.27;RPPR=5275.35;RPR=1;RUN=1;SAF=1095;SAP=2374.27;SAR=1;SRF=2431;SRP=5275.35;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:356:182,174:182:6522:174:6202:-449.588,0,-479.821 0/1:105:56,49:56:2016:49:1756:-126.236,0,-149.996 0/1:151:102,49:102:3638:49:1759:-112.82,0,-282.155 0/0:120:119,1:119:4238:1:36:0,-32.5279,-377.977 0/1:341:221,118:221:7834:118:4159:-271.64,0,-602.546 0/0:232:232,0:232:8196:0:0:0,-69.839,-737.621 0/1:205:109,96:109:3886:96:3432:-245.639,0,-287.952 1/1:192:0,192:0:0:192:6800:-609.609,-57.7978,0 0/0:358:357,1:357:12752:1:36:0,-104.171,-1142.39 0/0:37:37,0:37:1313:0:0:0,-11.1381,-118.465 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.887 0/1:30:21,9:21:752:9:309:-19.0724,0,-58.9707 0/1:178:100,78:100:3588:78:2777:-196.279,0,-269.528 0/0:167:167,0:167:5958:0:0:0,-50.272,-536.1 0/1:297:163,134:163:5841:134:4800:-341.86,0,-435.727 0/1:101:60,41:60:2126:41:1461:-101.325,0,-161.199 0/1:129:89,40:89:3170:40:1425:-89.5677,0,-246.628 0/1:161:88,73:88:3156:73:2612:-186.39,0,-235.77 0/1:100:62,38:62:2232:38:1355:-91.8687,0,-171.036 0/0:193:190,3:190:6802:3:108:0,-48.0331,-601.763 0/0:58:58,0:58:2088:0:0:0,-17.4597,-188.077 chr02 1074422 . T A 50864.2 PASS AB=0.589791;ABP=153.924;AC=28;AF=0.666667;AN=42;AO=2431;CIGAR=1X;DP=3508;DPB=3508;DPRA=0.882979;EPP=5281.86;EPPR=2333.01;GTI=0;LEN=1;MEANALT=1;MQM=59.6775;MQMR=54.5989;NS=21;NUMALT=1;ODDS=14.671;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=86603;QR=38009;RO=1077;RPL=2390;RPP=4931.74;RPPR=2137.87;RPR=41;RUN=1;SAF=2390;SAP=4931.74;SAR=41;SRF=1052;SRP=2129.58;SRR=25;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:351:161,190:161:5659:190:6759:-502.701,0,-403.101 0/1:130:65,65:65:2272:65:2299:-167.929,0,-164.903 0/1:149:48,101:48:1716:101:3604:-279.704,0,-109.503 1/1:115:0,115:0:0:115:4120:-370.962,-34.6185,0 0/1:335:116,219:116:4136:219:7737:-595.327,0,-271.128 1/1:237:0,237:0:0:237:8433:-758.942,-71.3441,0 0/1:199:93,106:93:3302:106:3799:-281.932,0,-236.164 0/0:188:188,0:188:6631:0:0:0,-56.5936,-594.799 1/1:351:2,349:2:72:349:12434:-1112.01,-98.8258,0 1/1:37:0,37:0:0:37:1320:-119.097,-11.1381,0 1/1:19:0,19:0:0:19:672:-60.8035,-5.71957,0 0/1:33:9,24:9:309:24:856:-67.4145,0,-18.1693 0/1:166:71,95:71:2465:95:3404:-256.592,0,-171.893 1/1:164:0,164:0:0:164:5858:-527.031,-49.3689,0 0/1:289:127,162:127:4503:162:5756:-431.141,0,-317.694 0/1:110:41,69:41:1463:69:2438:-186.561,0,-98.7993 0/1:134:43,91:43:1523:91:3236:-251.12,0,-96.9129 0/1:158:70,88:70:2446:88:3143:-235.505,0,-172.404 0/1:101:40,61:40:1404:61:2176:-165.699,0,-96.0431 1/1:185:3,182:3:108:182:6516:-576.281,-45.6249,0 1/1:57:0,57:0:0:57:2043:-184.134,-17.1587,0 chr02 1124389 . TGCTCCAC CGCACCAC,CGCACCAT 43194.6 PASS AB=0.56644,0.413191;ABP=42.5412,70.4944;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1337,542;CIGAR=1X2M1X4M,1X2M1X3M1X;DP=1911;DPB=1911.5;DPRA=0.78087,2.06581;EPP=2906.27,1179.95;EPPR=7.35324;GTI=0;LEN=8,8;MEANALT=3.05,3.53333;MQM=57.8168,59.321;MQMR=60;NS=21;NUMALT=2;ODDS=1.32094;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=17.5,17.5;PQR=0;PRO=0;QA=45939,18562;QR=60;RO=2;RPL=1086,542;RPP=1135.4,1179.95;RPPR=7.35324;RPR=251,0;RUN=1,1;SAF=1086,542;SAP=1135.4,1179.95;SAR=251,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:90:0,49,38:0:0:49,38:1666,1323:-242.716,-107.586,-92.836,-135.155,0,-123.716 1/2:73:0,48,24:0:0:48,24:1636,833:-200.476,-67.7806,-53.3312,-132.758,0,-125.533 1/2:60:0,32,27:0:0:32,27:1075,940:-163.282,-76.4876,-66.8546,-86.8814,0,-78.7536 1/1:76:0,74,0:0:0:74,0:2574,0:-231.593,-22.2762,0,-231.593,-22.2762,-231.593 1/2:141:0,70,66:0:0:70,66:2420,2236:-377.868,-181.226,-160.154,-196.656,0,-176.788 1/1:86:0,85,0:0:0:85,0:2883,0:-259.46,-25.5876,0,-259.46,-25.5876,-259.46 1/2:123:2,63,56:2:60:63,56:2196,1913:-328.463,-150.475,-136.305,-173.829,0,-161.767 2/2:115:0,0,113:0:0:0,113:0,3877:-348.788,-348.788,-348.788,-34.0164,-34.0164,0 1/1:352:0,350,1:0:0:350,1:12071,31:-1083.38,-105.361,0,-1080.89,-102.832,-1080.59 1/1:12:0,12,0:0:0:12,0:412,0:-37.4086,-3.61236,0,-37.4086,-3.61236,-37.4086 1/1:13:0,13,0:0:0:13,0:444,0:-40.2862,-3.91339,0,-40.2862,-3.91339,-40.2862 1/2:35:0,19,15:0:0:19,15:660,507:-94.7384,-41.0784,-35.3589,-53.6437,0,-49.1283 1/2:87:0,47,40:0:0:47,40:1619,1373:-243.312,-111.807,-97.6588,-131.848,0,-119.807 1/1:74:0,73,0:0:0:73,0:2454,0:-220.844,-21.9752,0,-220.844,-21.9752,-220.844 1/2:152:0,77,73:0:0:77,73:2662,2474:-416.924,-200.616,-177.437,-216.382,0,-194.407 1/2:92:0,68,21:0:0:68,21:2366,716:-249.799,-58.0802,-37.6101,-191.741,0,-185.42 1/2:59:0,48,10:0:0:48,10:1684,346:-164.583,-28.0887,-13.6393,-136.484,0,-133.474 1/2:60:0,30,30:0:0:30,30:1016,1038:-167.057,-84.6855,-75.6546,-82.7133,0,-73.6824 1/2:59:0,33,26:0:0:33,26:1120,888:-163.221,-72.3928,-62.4588,-91.169,0,-83.3422 1/1:103:0,98,2:0:0:98,2:3378,67:-303.925,-29.5009,0,-298.499,-24.0541,-297.897 1/1:49:0,48,0:0:0:48,0:1603,0:-144.263,-14.4494,0,-144.263,-14.4494,-144.263 chr02 1221114 . G A 11477.4 PASS AB=0.491736;ABP=3.72814;AC=14;AF=0.333333;AN=42;AO=668;CIGAR=1X;DP=1856;DPB=1856;DPRA=1.76895;EPP=1453.55;EPPR=2582.72;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.63802;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23773;QR=42275;RO=1188;RPL=668;RPP=1453.55;RPPR=2582.72;RPR=0;RUN=1;SAF=668;SAP=1453.55;SAR=0;SRF=1188;SRP=2582.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:50,49:50:1780:49:1739:-126.992,0,-130.681 0/1:81:48,33:48:1708:33:1171:-81.3132,0,-129.622 0/1:78:40,38:40:1414:38:1355:-98.7694,0,-104.075 0/0:105:105,0:105:3737:0:0:0,-31.6081,-336.531 0/1:218:96,122:96:3396:122:4353:-326.32,0,-240.231 0/0:63:63,0:63:2247:0:0:0,-18.9649,-202.493 0/1:169:69,100:69:2452:100:3553:-269.105,0,-170.059 1/1:72:0,72:0:0:72:2567:-231.28,-21.6742,0 0/0:165:164,1:164:5866:1:36:0,-46.0717,-524.452 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:29:11,18:11:396:18:639:-49.1084,0,-27.2529 0/1:148:85,63:85:3030:63:2236:-156.952,0,-228.377 0/0:87:87,0:87:3107:0:0:0,-26.1896,-279.857 0/1:65:29,36:29:1036:36:1288:-96.6566,0,-73.987 0/1:115:61,54:61:2167:54:1921:-138.547,0,-160.678 0/1:27:16,11:16:568:11:388:-27.1296,0,-43.3241 0/1:104:52,52:52:1833:52:1856:-136.013,0,-133.941 0/1:77:58,19:58:2060:19:671:-37.5365,0,-162.492 0/0:68:68,0:68:2406:0:0:0,-20.47,-216.796 0/0:73:73,0:73:2604:0:0:0,-21.9752,-234.609 chr02 1312565 . C T 42581.1 PASS AB=0.518475;ABP=8.06518;AC=28;AF=0.666667;AN=42;AO=1661;CIGAR=1X;DP=2629;DPB=2629;DPRA=0.88227;EPP=3592.48;EPPR=2102.82;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9771;MQMR=60;NS=21;NUMALT=1;ODDS=8.48748;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59075;QR=34187;RO=967;RPL=742;RPP=43.9676;RPPR=13.0907;RPR=919;RUN=1;SAF=740;SAP=45.8397;SAR=921;SRF=450;SRP=13.0907;SRR=517;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:55,79:55:1972:79:2810:-212.801,0,-137.417 0/1:130:76,54:76:2687:54:1932:-135.023,0,-202.939 0/1:75:32,43:32:1148:43:1531:-115.505,0,-81.0526 1/1:109:1,108:1:36:108:3846:-342.365,-29.214,0 0/1:220:108,112:108:3796:112:3972:-291.442,0,-275.613 1/1:148:4,144:4:129:144:5096:-446.857,-32.6248,0 0/1:210:91,118:91:3234:118:4175:-312.656,0,-228.007 0/0:141:141,0:141:5044:0:0:0,-42.4452,-454.106 1/1:176:0,176:0:0:176:6264:-563.852,-52.9813,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 0/1:40:19,21:19:675:21:752:-55.9651,0,-49.0358 0/1:144:66,78:66:2330:78:2808:-209.61,0,-166.611 1/1:109:0,109:0:0:109:3877:-349.123,-32.8123,0 0/1:307:157,150:157:5536:150:5375:-391.464,0,-405.951 0/1:98:51,47:51:1781:47:1684:-122.346,0,-131.07 0/1:71:40,31:40:1423:31:1097:-77.6649,0,-106.994 0/1:155:80,75:80:2781:75:2652:-192.266,0,-203.869 0/1:121:45,76:45:1588:76:2663:-203.489,0,-106.783 1/1:103:1,102:1:27:102:3643:-325.374,-28.3063,0 1/1:95:0,95:0:0:95:3358:-302.436,-28.5979,0 chr02 1339806 . A G 9262.99 PASS AB=0.464844;ABP=14.0034;AC=14;AF=0.333333;AN=42;AO=533;CIGAR=1X;DP=1672;DPB=1672;DPRA=3.45238;EPP=1025.6;EPPR=2195.82;GTI=0;LEN=1;MEANALT=1.05556;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=16.7755;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18897;QR=40733;RO=1138;RPL=517;RPP=1025.6;RPPR=2195.82;RPR=16;RUN=1;SAF=0;SAP=1160.41;SAR=533;SRF=0;SRP=2474.15;SRR=1138;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:72,61:72:2580:61:2166:-155.168,0,-192.412 0/1:61:37,24:37:1328:24:834:-57.012,0,-101.459 0/1:46:21,25:21:752:25:876:-65.3074,0,-54.1589 0/0:94:92,2:92:3308:2:63:0,-22.3137,-291.954 0/1:195:115,80:115:4101:80:2850:-198.036,0,-310.574 0/0:86:85,1:85:3044:1:36:0,-22.2903,-270.591 0/1:113:57,56:57:2025:56:1993:-145.627,0,-148.505 1/1:49:0,49:0:0:49:1755:-158.233,-14.7505,0 0/0:187:186,1:186:6664:1:36:0,-52.6943,-596.239 0/0:18:18,0:18:640:0:0:0,-5.41854,-57.9293 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:21:9,12:9:324:12:399:-29.9072,0,-23.1842 0/1:97:44,53:44:1584:53:1895:-141.627,0,-113.652 0/0:93:92,1:92:3292:1:36:0,-24.3975,-292.901 0/1:102:62,40:62:2228:40:1395:-95.1401,0,-170.079 0/1:51:33,17:33:1188:17:600:-38.9559,0,-91.856 0/1:72:39,33:39:1389:33:1174:-84.2925,0,-103.633 0/1:73:26,47:26:909:47:1692:-130.592,0,-60.1482 0/1:60:32,28:32:1148:28:989:-71.2602,0,-85.568 0/0:62:59,3:59:2105:3:108:0,-8.58869,-179.642 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 chr02 1372350 . TTATATTTTTTT TTATGTTTGT,TTATATTTGC 26895.2 PASS AB=0.478947,0.504211;ABP=6.66752,3.15659;AC=28,14;AF=0.666667,0.333333;AN=42;AO=958,535;CIGAR=1M2D3M1X3M1X1M,5M2D3M2X;DP=1513;DPB=1260.67;DPRA=1.32545,1.39125;EPP=2083.28,1164.75;EPPR=0;GTI=0;LEN=10,10;MEANALT=2.55,2.92857;MQM=36.6868,36.9178;MQMR=0;NS=21;NUMALT=2;ODDS=2.21944;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32831,18739;QR=0;RO=0;RPL=958,535;RPP=2083.28,1164.75;RPPR=0;RPR=0,0;RUN=1,1;SAF=958,535;SAP=2083.28,1164.75;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:107:0,61,46:0:0:61,46:2134,1614:-286.472,-123.22,-104.857,-163.583,0,-149.736 1/2:66:0,31,35:0:0:31,35:1040,1215:-162.898,-86.5162,-77.1843,-76.689,0,-66.153 1/2:103:0,41,57:0:0:41,57:1428,2019:-262.439,-154.452,-142.11,-107.991,0,-90.8327 1/1:99:0,99,0:0:0:99,0:3424,0:-291.105,-29.802,0,-291.105,-29.802,-291.105 1/2:152:0,75,74:0:0:75,74:2599,2595:-396.611,-198.311,-175.733,-198.343,0,-176.067 1/1:108:0,107,1:0:0:107,1:3553,36:-292.046,-32.2102,0,-289.478,-29.3236,-289.177 1/2:93:0,46,46:0:0:46,46:1513,1570:-223.616,-113.096,-99.2488,-110.583,0,-96.7353 2/2:55:0,0,55:0:0:0,55:0,1944:-159.038,-159.038,-159.038,-16.5567,-16.5567,0 1/1:123:0,122,0:0:0:122,0:4215,0:-363.386,-36.7257,0,-363.386,-36.7257,-363.386 1/1:5:0,5,0:0:0:5,0:155,0:-13.3238,-1.50515,0,-13.3238,-1.50515,-13.3238 1/1:4:0,4,0:0:0:4,0:130,0:-11.1232,-1.20412,0,-11.1232,-1.20412,-11.1232 1/2:27:0,16,11:0:0:16,11:560,385:-70.9148,-29.066,-24.2496,-42.1726,0,-38.8613 1/2:79:0,36,42:0:0:36,42:1235,1493:-207.182,-113.419,-102.582,-93.8235,0,-81.1803 1/1:104:0,102,0:0:0:102,0:3525,0:-299.957,-30.7051,0,-299.957,-30.7051,-299.957 1/2:138:0,71,65:0:0:71,65:2466,2279:-359.276,-170.659,-149.286,-188.636,0,-169.069 1/2:65:0,20,43:0:0:20,43:667,1506:-167.861,-116.677,-110.656,-51.2361,0,-38.2918 1/2:70:0,28,42:0:0:28,42:961,1454:-187.451,-112.8,-104.371,-74.9813,0,-62.3381 1/2:27:0,11,15:0:0:11,15:369,521:-66.787,-39.0533,-35.742,-27.8421,0,-23.3266 1/2:23:0,19,3:0:0:19,3:655,108:-58.02,-8.34947,-2.6299,-49.7738,0,-48.8707 1/1:50:0,49,0:0:0:49,0:1700,0:-141.001,-14.7505,0,-141.001,-14.7505,-141.001 1/1:15:0,15,0:0:0:15,0:502,0:-41.5826,-4.51545,0,-41.5826,-4.51545,-41.5826 chr02 1398456 . T C 24858.7 PASS AB=0.466056;ABP=16.1302;AC=28;AF=0.666667;AN=42;AO=1289;CIGAR=1X;DP=2186;DPB=2186;DPRA=0;EPP=2802.04;EPPR=1948.65;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9728;MQMR=59.9788;NS=21;NUMALT=1;ODDS=7.37249;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45409;QR=31995;RO=896;RPL=0;RPP=2802.04;RPPR=1948.65;RPR=1289;RUN=1;SAF=0;SAP=2802.04;SAR=1289;SRF=0;SRP=1948.65;SRR=896;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:77,60:77:2742:60:2127:-150.097,0,-205.421 0/1:51:26,25:26:904:25:888:-64.8865,0,-66.3194 0/1:94:51,43:51:1824:43:1494:-106.452,0,-136.127 1/1:93:0,93:0:0:93:3273:-294.793,-27.9958,0 0/1:246:119,127:119:4267:127:4451:-326.713,0,-310.153 1/1:53:0,53:0:0:53:1867:-168.307,-15.9546,0 0/1:177:95,82:95:3386:82:2889:-206.965,0,-251.673 0/0:201:196,5:196:7011:5:179:0,-44.0466,-614.59 1/1:152:1,151:1:32:151:5364:-479.696,-42.5572,0 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 1/1:6:0,6:0:0:6:207:-18.9669,-1.80618,0 0/1:33:22,11:22:779:11:392:-25.6861,0,-60.4981 0/1:155:96,59:96:3424:59:2091:-141.8,0,-261.714 1/1:180:0,180:0:0:180:6319:-568.808,-54.1854,0 0/1:189:111,78:111:3988:78:2770:-192.647,0,-302.214 0/1:59:27,32:27:972:32:1133:-84.5169,0,-70.0371 0/1:57:36,21:36:1275:21:743:-50.0346,0,-97.8936 0/1:53:25,28:25:887:28:979:-72.4675,0,-64.1935 0/1:59:14,45:14:504:45:1589:-125.538,0,-27.9373 1/1:117:0,117:0:0:117:4131:-371.976,-35.2205,0 1/1:54:0,54:0:0:54:1847:-166.5,-16.2556,0 chr02 1398460 . A G 16401.4 PASS AB=0.531202;ABP=14.1222;AC=14;AF=0.333333;AN=42;AO=903;CIGAR=1X;DP=2204;DPB=2204;DPRA=1.59108;EPP=1963.85;EPPR=2812.9;GTI=1;LEN=1;MEANALT=1.42857;MQM=59.9834;MQMR=59.9907;NS=21;NUMALT=1;ODDS=7.29812;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32043;QR=46103;RO=1294;RPL=0;RPP=1963.85;RPPR=2812.9;RPR=903;RUN=1;SAF=0;SAP=1963.85;SAR=903;SRF=0;SRP=2812.9;SRR=1294;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:139:61,77:61:2168:77:2731:-204.129,0,-153.482 0/1:49:25,24:25:891:24:860:-62.9714,0,-65.7583 0/1:91:40,51:40:1436:51:1783:-133.353,0,-102.144 0/0:95:95,0:95:3395:0:0:0,-28.5978,-305.765 0/1:248:127,121:127:4514:121:4326:-314.86,0,-331.775 0/0:52:52,0:52:1864:0:0:0,-15.6536,-168.039 0/1:178:81,97:81:2884:97:3439:-256.139,0,-206.212 1/1:206:0,204:0:0:204:7223:-649.844,-61.4101,0 0/0:157:155,1:155:5528:1:36:0,-43.6973,-494.071 0/0:19:19,0:19:675:0:0:0,-5.71957,-61.077 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7255 0/1:33:11,22:11:396:22:788:-61.3108,0,-26.0488 0/1:158:62,96:62:2228:96:3403:-258.919,0,-153.221 0/0:181:180,0:180:6424:0:0:0,-54.1854,-578.026 0/1:190:80,109:80:2821:109:3864:-290.702,0,-196.871 0/1:57:30,26:30:1076:26:936:-67.3996,0,-79.9933 0/1:60:23,37:23:820:37:1309:-100.048,0,-56.0607 0/1:52:27,25:27:957:25:892:-64.9461,0,-70.7903 0/1:59:46,13:46:1629:13:453:-23.3389,0,-129.136 0/0:120:120,0:120:4284:0:0:0,-36.1236,-385.736 0/0:55:55,0:55:1942:0:0:0,-16.5566,-175.05 chr02 1426583 . 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GAC AAT,AAC 30676.6 PASS AB=0.467949,0.531136;ABP=12.7541,12.2053;AC=27,15;AF=0.642857,0.357143;AN=42;AO=857,665;CIGAR=1X1M1X,1X2M;DP=1526;DPB=1734.33;DPRA=0.869277,2.15835;EPP=1863.96,1447.04;EPPR=5.18177;GTI=1;LEN=3,1;MEANALT=1.9,2.0625;MQM=59.4761,53.4391;MQMR=60;NS=21;NUMALT=2;ODDS=1.01734;PAIRED=0,0;PAIREDR=0;PAO=312.5,312.5;PQA=11180,11180;PQR=0;PRO=0;QA=30188,23718;QR=36;RO=1;RPL=0,0;RPP=1863.96,1447.04;RPPR=5.18177;RPR=857,665;RUN=1,1;SAF=0,0;SAP=1863.96,1447.04;SAR=857,665;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:95:0,55,40:0:0:55,40:1929,1428:-273.261,-116.313,-99.7561,-157.302,0,-145.26 1/2:66:0,28,38:0:0:28,38:990,1339:-189.263,-108.648,-100.219,-80.967,0,-69.5279 1/2:28:0,6,22:0:0:6,22:216,788:-82.1145,-64.4895,-62.6833,-17.9843,0,-11.3617 1/1:91:0,89,1:0:0:89,1:3182,36:-286.189,-26.7917,0,-283.257,-23.8208,-282.956 1/2:168:0,69,99:0:0:69,99:2454,3552:-489.439,-289.466,-268.695,-200.329,0,-170.527 1/2:74:0,33,41:0:0:33,41:1174,1456:-214.492,-118.867,-108.933,-95.9805,0,-83.6383 1/2:93:0,45,48:0:0:45,48:1572,1713:-267.404,-139.542,-125.996,-128.214,0,-113.764 2/2:83:1,0,82:1:36:0,82:0,2910:-258.057,-258.358,-261.296,-21.3872,-24.6845,0 1/1:53:0,52,0:0:0:52,0:1809,0:-142.581,-15.6536,0,-142.581,-15.6536,-142.581 1/1:8:0,8,0:0:0:8,0:283,0:-25.8015,-2.40824,0,-25.8015,-2.40824,-25.8015 1/1:5:0,5,0:0:0:5,0:178,0:-16.3686,-1.50515,0,-16.3686,-1.50515,-16.3686 1/2:23:0,12,11:0:0:12,11:424,396:-67.1381,-32.6217,-29.0093,-34.8728,0,-31.5614 1/2:79:0,40,39:0:0:40,39:1395,1400:-227.452,-114.049,-102.008,-113.756,0,-102.016 1/1:55:0,55,0:0:0:55,0:1888,0:-170.13,-16.5567,0,-170.13,-16.5567,-170.13 1/2:164:0,71,93:0:0:71,93:2489,3318:-472.502,-269.99,-248.617,-202.747,0,-174.752 1/2:77:0,40,37:0:0:40,37:1408,1328:-213.302,-98.8563,-86.8151,-105.316,0,-94.1781 1/2:67:0,35,32:0:0:35,32:1218,1148:-185.884,-86.9951,-76.4591,-92.7467,0,-83.1137 1/2:89:0,37,51:0:0:37,51:1320,1811:-254.794,-147.206,-136.068,-107.709,0,-92.3567 1/2:69:0,40,29:0:0:40,29:1428,1027:-200.273,-83.8518,-71.8106,-116.776,0,-108.046 1/1:67:0,65,2:0:0:65,2:2282,68:-205.296,-19.567,0,-199.787,-13.7181,-199.185 1/1:72:0,72,0:0:0:72,0:2549,0:-229.602,-21.6742,0,-229.602,-21.6742,-229.602 chr02 1599185 . C T,G 41220.3 PASS AB=0.618531,0.37813;ABP=149.206,157.558;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1468,503;CIGAR=1X,1X;DP=1978;DPB=1978;DPRA=1.96837,0.914286;EPP=3190.73,1095.26;EPPR=18.2106;GTI=0;LEN=1,1;MEANALT=1.7,1.93333;MQM=59.9871,59.998;MQMR=60;NS=21;NUMALT=2;ODDS=2.45404;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52286,17982;QR=252;RO=7;RPL=1468,503;RPP=3190.73,1095.26;RPPR=18.2106;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3190.73,1095.26;SAR=1468,503;SRF=0;SRP=18.2106;SRR=7;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:117:0,84,33:0:0:84,33:3000,1176:-340.803,-96.2138,-70.9273,-244.946,0,-235.012 1/2:106:0,68,38:0:0:68,38:2409,1356:-307.141,-110.901,-90.4313,-196.596,0,-185.156 1/2:46:1,35,10:1:36:35,10:1256,356:-128.225,-26.0737,-18.4754,-99.512,0,-99.4391 1/1:129:1,127,1:1:36:127,1:4509,36:-402.38,-35.2934,0,-399.744,-35.2934,-402.38 1/2:206:2,128,76:2:72:128,76:4588,2720:-589.523,-215.931,-183.274,-368.318,0,-351.314 1/2:105:1,61,43:1:36:61,43:2138,1535:-295.867,-122.201,-106.775,-171.025,0,-161.018 1/2:127:0,83,44:0:0:83,44:2972,1568:-370.536,-128.166,-103.181,-242.727,0,-229.481 2/2:49:0,0,49:0:0:0,49:0,1760:-158.684,-158.684,-158.684,-14.7505,-14.7505,0 1/1:216:1,215,0:1:36:215,0:7668,0:-686.556,-61.4242,0,-686.857,-64.7215,-689.795 1/1:10:0,10,0:0:0:10,0:356,0:-32.3812,-3.0103,0,-32.3812,-3.0103,-32.3812 1/1:10:0,10,0:0:0:10,0:356,0:-32.3812,-3.0103,0,-32.3812,-3.0103,-32.3812 1/2:49:0,28,21:0:0:28,21:993,740:-141.502,-60.6017,-52.1729,-81.2537,0,-74.932 1/2:124:0,69,55:0:0:69,55:2465,1980:-362.89,-161.918,-141.147,-201.331,0,-184.775 1/1:143:0,143,0:0:0:143,0:5075,0:-456.85,-43.0473,0,-456.85,-43.0473,-456.85 1/2:93:0,52,41:0:0:52,41:1853,1464:-270.752,-119.714,-104.06,-151.394,0,-139.052 1/2:79:0,49,30:0:0:49,30:1734,1076:-229.355,-88.122,-73.3715,-141.59,0,-132.559 1/2:40:0,20,20:0:0:20,20:712,720:-117.136,-59.1082,-53.0876,-58.3861,0,-52.3655 1/2:52:0,26,26:0:0:26,26:936,928:-152.386,-76.0115,-68.1847,-76.7327,0,-68.9059 1/2:54:0,38,16:0:0:38,16:1356,567:-157.091,-46.5442,-35.1051,-110.901,0,-106.085 1/1:152:1,151,0:1:36:151,0:5366,0:-479.473,-42.1583,0,-479.774,-45.4555,-482.711 1/1:71:0,71,0:0:0:71,0:2544,0:-229.211,-21.3731,0,-229.211,-21.3731,-229.211 chr02 1599599 . T C 8084.95 PASS AB=0.372477;ABP=156.974;AC=15;AF=0.357143;AN=42;AO=466;CIGAR=1X;DP=1703;DPB=1703;DPRA=0.9624;EPP=1014.92;EPPR=2686.95;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.7702;NS=21;NUMALT=1;ODDS=2.35987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16493;QR=43823;RO=1236;RPL=33;RPP=748.58;RPPR=6.41157;RPR=433;RUN=1;SAF=33;SAP=748.58;SAR=433;SRF=596;SRP=6.41157;SRR=640;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:34,17:34:1212:17:594:-38.433,0,-94.0313 0/1:54:35,19:35:1247:19:667:-44.099,0,-96.2608 0/1:57:30,27:30:1067:27:968:-70.2787,0,-79.1825 0/0:87:86,0:86:3048:0:0:0,-25.8886,-274.233 0/1:142:98,44:98:3460:44:1548:-96.8632,0,-268.859 0/1:62:35,27:35:1252:27:946:-66.789,0,-94.2499 0/1:85:61,24:61:2180:24:852:-51.4128,0,-170.844 1/1:59:0,59:0:0:59:2061:-185.757,-17.7608,0 0/0:200:200,0:200:7079:0:0:0,-60.206,-637.162 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:17:13,4:13:456:4:140:-7.82707,0,-36.2557 0/1:120:51,69:51:1794:69:2468:-186.251,0,-125.611 0/0:88:88,0:88:3129:0:0:0,-26.4906,-281.83 0/1:139:87,52:87:3097:52:1852:-125.117,0,-237.107 0/1:54:28,26:28:1008:26:924:-67.222,0,-74.7678 0/1:54:19,35:19:676:35:1247:-96.2785,0,-44.9124 0/1:120:75,45:75:2648:45:1595:-107.716,0,-202.431 0/1:135:118,17:118:4175:17:595:-13.2376,0,-335.13 0/0:54:53,1:53:1865:1:36:0,-12.6573,-164.498 0/0:111:111,0:111:3926:0:0:0,-33.4143,-353.128 chr02 1599791 . CA CG,TG 29059.2 PASS AB=0.498927,0.501073;ABP=3.01962,3.01962;AC=27,15;AF=0.642857,0.357143;AN=42;AO=884,517;CIGAR=1M1X,2X;DP=1405;DPB=1405;DPRA=1.355,1.16076;EPP=1922.59,1125.66;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.8,1.92857;MQM=59.9604,59.441;MQMR=60;NS=21;NUMALT=2;ODDS=6.96786;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31401,18336;QR=29;RO=1;RPL=884,517;RPP=1922.59,1125.66;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=884,517;SAP=1922.59,1125.66;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,24,13:0:0:24,13:855,453:-106.879,-37.185,-29.9602,-70.0455,0,-66.1321 1/2:49:0,31,18:0:0:31,18:1116,634:-143.033,-51.9685,-42.6365,-91.4198,0,-86.0012 1/2:83:0,48,35:0:0:48,35:1706,1246:-240.93,-101.909,-87.46,-139.377,0,-128.84 1/1:79:0,79,0:0:0:79,0:2844,0:-256.197,-23.7814,0,-256.197,-23.7814,-256.197 1/2:146:0,69,77:0:0:69,77:2436,2730:-420.011,-221.641,-200.869,-198.723,0,-175.544 1/2:89:0,30,59:0:0:30,59:1056,2107:-258.047,-172.119,-163.088,-86.2814,0,-68.5206 1/2:120:0,51,69:0:0:51,69:1790,2441:-344.8,-199.125,-183.773,-146.026,0,-125.255 2/2:50:0,0,50:0:0:0,50:0,1767:-159.259,-159.259,-159.259,-15.0515,-15.0515,0 1/1:163:0,163,0:0:0:163,0:5816,0:-523.543,-49.0679,0,-523.543,-49.0679,-523.543 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/2:16:0,12,4:0:0:12,4:428,144:-46.9877,-12.1001,-8.4877,-35.2464,0,-34.0423 1/2:76:0,45,31:0:0:45,31:1612,1105:-221.887,-90.4201,-76.8737,-131.824,0,-122.492 1/1:82:0,81,0:0:0:81,0:2872,0:-258.355,-24.3834,0,-258.355,-24.3834,-258.355 1/2:95:0,46,49:0:0:46,49:1614,1741:-273.54,-142.195,-128.348,-131.698,0,-116.947 1/2:45:0,15,30:0:0:15,30:523,1076:-130.652,-88.1203,-83.6049,-42.883,0,-33.8521 1/2:43:0,28,15:0:0:28,15:990,527:-123.876,-43.2444,-34.8156,-80.9834,0,-76.468 1/2:81:0,31,50:0:0:31,50:1108,1760:-233.963,-143.619,-134.287,-90.6991,0,-75.6476 1/2:52:0,35,17:0:0:35,17:1237,605:-150.4,-49.6584,-39.1223,-101.096,0,-95.9787 1/1:45:0,43,0:0:0:43,0:1528,0:-137.453,-12.9443,0,-137.453,-12.9443,-137.453 1/1:42:1,41,0:1:29:41,0:1446,0:-127.535,-9.7436,0,-127.836,-12.3422,-130.143 chr02 1651046 . T C 33547.9 PASS AB=0.517577;ABP=7.97216;AC=27;AF=0.642857;AN=42;AO=1702;CIGAR=1X;DP=2816;DPB=2816;DPRA=0.587104;EPP=3698.86;EPPR=2406.84;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9706;MQMR=60;NS=21;NUMALT=1;ODDS=4.42013;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60851;QR=39833;RO=1111;RPL=1702;RPP=3698.86;RPPR=2415.52;RPR=0;RUN=1;SAF=0;SAP=3698.86;SAR=1702;SRF=1;SRP=2406.84;SRR=1110;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:83,103:83:2976:103:3680:-275.406,0,-212.081 0/1:134:62,71:62:2228:71:2537:-188.183,0,-160.387 0/1:83:39,44:39:1400:44:1576:-117.146,0,-101.314 1/1:211:0,211:0:0:211:7572:-681.517,-63.5173,0 0/1:256:121,135:121:4348:135:4788:-354.01,0,-314.429 0/1:146:78,68:78:2808:68:2421:-174.194,0,-209.008 0/1:218:112,106:112:4024:106:3804:-276.932,0,-296.723 0/0:221:221,0:221:7929:0:0:0,-66.5276,-713.63 1/1:179:1,178:1:36:178:6367:-569.5,-50.2861,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:40:11,29:11:396:29:1036:-81.5127,0,-23.9415 0/1:175:96,78:96:3425:78:2796:-198.951,0,-255.724 1/1:154:0,154:0:0:154:5493:-494.497,-46.3586,0 0/1:210:95,114:95:3393:114:4096:-305.549,0,-242.309 0/1:105:52,53:52:1868:53:1885:-138.32,0,-136.791 0/1:119:68,51:68:2418:51:1821:-128.347,0,-182.05 0/1:89:37,52:37:1332:52:1872:-141.967,0,-93.3907 0/1:88:35,53:35:1252:53:1882:-143.168,0,-86.4944 1/1:122:0,122:0:0:122:4361:-392.66,-36.7257,0 1/1:51:0,51:0:0:51:1824:-164.441,-15.3525,0 chr02 1750015 . T C 16693.9 PASS AB=0.308966;ABP=462.638;AC=27;AF=0.642857;AN=42;AO=934;CIGAR=1X;DP=2075;DPB=2075;DPRA=0.707299;EPP=2031.17;EPPR=2478.49;GTI=4;LEN=1;MEANALT=1.05;MQM=59.8298;MQMR=59.9947;NS=21;NUMALT=1;ODDS=0.177254;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33495;QR=40784;RO=1140;RPL=0;RPP=2031.17;RPPR=2478.49;RPR=934;RUN=1;SAF=934;SAP=2031.17;SAR=0;SRF=1140;SRP=2478.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:87,42:87:3104:42:1508:-97.1771,0,-240.755 0/1:104:75,29:75:2688:29:1040:-62.6059,0,-210.857 0/1:128:78,50:78:2792:50:1791:-122.226,0,-212.989 1/1:121:0,121:0:0:121:4340:-390.686,-36.4246,0 0/1:214:156,58:156:5568:58:2088:-123.765,0,-436.825 0/1:52:41,11:41:1472:11:392:-19.9665,0,-117.123 0/1:179:119,60:119:4276:60:2156:-140.411,0,-331.132 0/0:137:137,0:137:4904:0:0:0,-41.2411,-441.512 1/1:179:0,178:0:0:178:6392:-574.951,-53.5833,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:6:0,6:0:0:6:216:-19.7822,-1.80618,0 0/1:37:29,8:29:1036:8:288:-15.1293,0,-82.414 0/1:61:38,23:38:1356:23:824:-56.1205,0,-103.978 1/1:87:1,86:1:36:86:3072:-272.975,-22.5913,0 0/1:221:150,71:150:5344:71:2556:-163.762,0,-414.569 0/1:125:86,39:86:3084:39:1404:-89.0305,0,-240.159 0/1:108:87,21:87:3112:21:756:-35.856,0,-247.796 0/1:63:41,22:41:1476:22:792:-52.6408,0,-114.171 0/1:29:15,14:15:536:14:500:-36.6063,0,-39.8449 1/1:54:0,54:0:0:54:1920:-173.077,-16.2556,0 1/1:29:0,29:0:0:29:1028:-92.833,-8.72987,0 chr02 1798779 . A T 19910.4 PASS AB=0.479293;ABP=10.3845;AC=15;AF=0.357143;AN=42;AO=1093;CIGAR=1X;DP=2957;DPB=2957;DPRA=1.61263;EPP=2180.86;EPPR=3670.98;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9954;MQMR=59.9946;NS=21;NUMALT=1;ODDS=15.1128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38964;QR=66621;RO=1861;RPL=23;RPP=2180.86;RPPR=3670.98;RPR=1070;RUN=1;SAF=0;SAP=2376.43;SAR=1093;SRF=0;SRP=4044.12;SRR=1861;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:106,101:106:3776:101:3599:-261.804,0,-277.725 0/1:115:50,65:50:1792:65:2332:-175.521,0,-126.944 0/1:96:53,43:53:1890:43:1544:-110.354,0,-141.478 0/0:206:205,1:205:7331:1:32:0,-58.8129,-656.641 0/1:312:158,154:158:5664:154:5492:-400.488,0,-415.957 0/1:177:85,92:85:3037:92:3291:-243.127,0,-220.268 0/1:177:87,89:87:3107:89:3159:-231.235,0,-226.555 1/1:142:0,142:0:0:142:5066:-456.087,-42.7463,0 0/0:188:188,0:188:6731:0:0:0,-56.5936,-605.864 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/0:24:24,0:24:855:0:0:0,-7.22472,-77.2702 0/1:55:38,17:38:1368:17:608:-38.4954,0,-106.864 0/1:175:89,86:89:3183:86:3069:-223.757,0,-234.013 0/0:165:165,0:165:5915:0:0:0,-49.6699,-532.457 0/1:166:101,65:101:3616:65:2302:-157.469,0,-275.675 0/1:159:67,92:67:2412:92:3270:-246.657,0,-169.472 0/1:162:79,83:79:2832:83:2957:-217.596,0,-206.352 0/1:77:43,34:43:1525:34:1207:-85.756,0,-114.362 0/1:102:74,28:74:2652:28:1000:-59.6103,0,-208.221 0/0:149:146,1:146:5235:1:36:0,-41.013,-467.688 0/0:86:86,0:86:3088:0:0:0,-25.8886,-278.147 chr02 1845696 . C T 15117 PASS AB=0.484204;ABP=6.37181;AC=16;AF=0.380952;AN=42;AO=866;CIGAR=1X;DP=2005;DPB=2005;DPRA=1.96578;EPP=1883.51;EPPR=2476.32;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.7896;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30985;QR=40430;RO=1139;RPL=866;RPP=1883.51;RPPR=2476.32;RPR=0;RUN=1;SAF=866;SAP=1883.51;SAR=0;SRF=1139;SRP=2476.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:51,37:51:1801:37:1328:-93.3316,0,-135.879 0/1:76:34,42:34:1208:42:1508:-113.136,0,-86.1478 0/1:154:77,77:77:2698:77:2768:-203.002,0,-196.705 0/1:101:51,50:51:1809:50:1796:-131.518,0,-132.686 0/1:196:84,112:84:2964:112:4020:-302.986,0,-207.992 0/1:69:35,34:35:1252:34:1216:-88.9755,0,-92.214 0/1:121:72,49:72:2580:49:1760:-122.259,0,-196.025 1/1:115:0,115:0:0:115:4084:-367.747,-34.6185,0 0/0:87:87,0:87:3111:0:0:0,-26.1896,-280.217 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:36:11,25:11:396:25:892:-69.7626,0,-25.1457 0/1:64:44,20:44:1576:20:716:-45.5018,0,-122.866 0/0:102:102,0:102:3567:0:0:0,-30.7051,-321.237 0/1:158:85,73:85:3030:73:2608:-187.406,0,-225.367 0/1:74:34,40:34:1185:40:1423:-106.09,0,-84.6762 0/1:98:50,48:50:1783:48:1711:-124.774,0,-131.251 0/1:234:119,115:119:4239:115:4120:-300.543,0,-311.247 0/1:82:53,29:53:1891:29:1035:-68.7786,0,-145.783 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 0/0:72:72,0:72:2548:0:0:0,-21.6742,-229.572 chr02 1845738 . GAGTAA AAGTCG,GAGTCG 20763 PASS AB=0.45942,0.533333;ABP=12.8795,9.66948;AC=26,16;AF=0.619048,0.380952;AN=42;AO=637,432;CIGAR=1X3M2X,4M2X;DP=1080;DPB=1080;DPRA=0.780769,0.905912;EPP=1386.24,941.086;EPPR=0;GTI=0;LEN=6,2;MEANALT=2.15,2.375;MQM=59.6593,59.5046;MQMR=0;NS=21;NUMALT=2;ODDS=2.60056;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21144,15247;QR=0;RO=0;RPL=0,0;RPP=1386.24,941.086;RPPR=0;RPR=637,432;RUN=1,1;SAF=0,0;SAP=1386.24,941.086;SAR=637,432;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,26,32:0:0:26,32:901,1121:-164.476,-91.2478,-83.421,-73.2646,0,-63.6316 1/2:29:0,16,12:0:0:16,12:536,430:-78.5111,-35.1153,-30.2988,-43.4392,0,-39.8269 1/2:54:0,26,28:0:0:26,28:888,979:-151.92,-79.8967,-72.07,-72.3686,0,-63.9397 1/2:35:0,19,16:0:0:19,16:645,571:-99.2058,-46.9064,-41.1869,-52.6481,0,-47.8316 1/2:76:0,33,42:0:0:33,42:1119,1492:-212.338,-121.612,-111.678,-90.7601,0,-78.1169 1/2:66:0,34,32:0:0:34,32:1117,1110:-180.794,-90.5599,-80.3249,-90.5715,0,-80.9385 1/2:74:0,33,41:0:0:33,41:1086,1452:-206.331,-118.57,-108.636,-88.1007,0,-75.7584 2/2:65:0,0,63:0:0:0,63:0,2249:-202.337,-202.337,-202.337,-18.9649,-18.9649,0 1/1:114:0,112,0:0:0:112,0:3710,0:-333.835,-33.7154,0,-333.835,-33.7154,-333.835 1/1:6:0,6,0:0:0:6,0:204,0:-18.6845,-1.80618,0,-18.6845,-1.80618,-18.6845 1/1:7:0,7,0:0:0:7,0:241,0:-22.0259,-2.10721,0,-22.0259,-2.10721,-22.0259 1/2:10:0,3,7:0:0:3,7:103,252:-29.2801,-20.9217,-20.0187,-8.70651,0,-6.5993 1/2:40:0,13,26:0:0:13,26:437,918:-110.232,-74.8364,-70.923,-35.4619,0,-27.6351 1/1:110:0,110,0:0:0:110,0:3639,0:-327.726,-33.1133,0,-327.726,-33.1133,-327.726 1/2:60:0,22,38:0:0:22,38:750,1351:-171.267,-110.42,-103.798,-61.1927,0,-49.7535 1/2:28:0,14,14:0:0:14,14:483,495:-79.9024,-40.6693,-36.4548,-39.5823,0,-35.3678 1/2:52:0,23,29:0:0:23,29:746,1007:-142.377,-82.1922,-75.2685,-60.5188,0,-51.7889 1/2:48:0,20,27:0:0:20,27:649,938:-128.565,-76.2056,-70.185,-52.4013,0,-44.2735 1/2:59:0,35,24:0:0:35,24:1115,846:-158.998,-69.2319,-58.6959,-90.1044,0,-82.8797 1/1:48:0,46,1:0:0:46,1:1540,36:-138.567,-13.8474,0,-135.629,-10.865,-135.328 1/1:40:0,39,0:0:0:39,0:1235,0:-111.126,-11.7402,0,-111.126,-11.7402,-111.126 chr02 1845753 . C T 7776.27 PASS AB=0.537445;ABP=11.304;AC=16;AF=0.380952;AN=42;AO=434;CIGAR=1X;DP=1065;DPB=1065;DPRA=0.920139;EPP=945.429;EPPR=1373.21;GTI=0;LEN=1;MEANALT=1;MQM=59.4194;MQMR=59.6466;NS=21;NUMALT=1;ODDS=3.33317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15561;QR=22579;RO=631;RPL=434;RPP=945.429;RPPR=1373.21;RPR=0;RUN=1;SAF=0;SAP=945.429;SAR=434;SRF=0;SRP=1373.21;SRR=631;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:26,32:26:932:32:1148:-86.165,0,-66.7368 0/1:28:16,12:16:576:12:432:-30.7841,0,-43.7297 0/1:52:25,27:25:900:27:972:-72.058,0,-65.6675 0/1:34:18,16:18:636:16:572:-41.5784,0,-47.333 0/1:75:34,41:34:1220:41:1472:-110.191,0,-87.512 0/1:64:33,31:33:1180:31:1108:-80.7324,0,-87.2176 0/1:73:33,40:33:1172:40:1424:-106.455,0,-83.809 1/1:67:0,67:0:0:67:2389:-215.239,-20.169,0 0/0:110:110,0:110:3940:0:0:0,-33.1133,-354.768 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7813 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/1:40:12,28:12:432:28:1004:-78.6099,0,-27.1776 0/0:107:107,0:107:3811:0:0:0,-32.2102,-343.177 0/1:60:22,38:22:784:38:1368:-105.328,0,-52.8221 0/1:28:14,14:14:504:14:504:-37.2693,0,-37.2683 0/1:52:23,29:23:828:29:1044:-78.5482,0,-59.1906 0/1:48:21,27:21:752:27:972:-73.2422,0,-53.5099 0/1:59:35,24:35:1260:24:864:-60.3194,0,-95.9376 0/0:47:46,1:46:1644:1:36:0,-10.5501,-144.641 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.521 chr02 1901717 . AATA GATA,GATT 40825.8 PASS AB=0.493819,0.503578;ABP=3.52032,3.18125;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1152,849;CIGAR=1X3M,1X2M1X;DP=2006;DPB=2006;DPRA=1.30541,2.29948;EPP=2504.55,1846.59;EPPR=0;GTI=0;LEN=1,4;MEANALT=2,2.25;MQM=59.9757,59.9552;MQMR=0;NS=21;NUMALT=2;ODDS=0.618127;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41042,29851;QR=0;RO=0;RPL=1152,849;RPP=2504.55,1846.59;RPPR=0;RPR=0,0;RUN=1,1;SAF=1152,849;SAP=2504.55,1846.59;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:173:0,77,96:0:0:77,96:2732,3394:-499.365,-276.777,-253.598,-222.942,0,-194.043 1/2:130:0,69,60:0:0:69,60:2480,2110:-374.085,-171.766,-150.995,-202.334,0,-184.272 1/2:117:0,73,43:0:0:73,43:2609,1517:-336.324,-123.596,-101.621,-212.8,0,-199.856 1/2:129:0,63,66:0:0:63,66:2256,2345:-375.424,-191.442,-172.477,-184.338,0,-164.47 1/2:140:0,64,76:0:0:64,76:2273,2648:-400.894,-215.681,-196.415,-185.565,0,-162.687 1/2:58:0,29,29:0:0:29,29:1032,1031:-168.482,-84.3738,-75.6439,-84.4636,0,-75.7337 1/2:164:0,82,82:0:0:82,82:2921,2852:-470.318,-232.23,-207.546,-238.44,0,-213.755 2/2:74:0,0,74:0:0:0,74:0,2602:-234.43,-234.43,-234.43,-22.2762,-22.2762,0 1/1:155:0,153,1:0:0:153,1:5449,30:-490.261,-46.0576,0,-487.863,-43.634,-487.562 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:35:0,17,18:0:0:17,18:603,644:-101.998,-52.8722,-47.7547,-49.482,0,-44.0635 1/2:46:0,17,29:0:0:17,29:608,1020:-132.961,-83.3814,-78.2639,-49.9345,0,-41.2046 1/1:106:0,106,0:0:0:106,0:3736,0:-336.438,-31.9092,0,-336.438,-31.9092,-336.438 1/2:192:0,112,79:0:0:112,79:3986,2765:-549.809,-224.948,-191.233,-324.853,0,-301.072 1/2:92:0,47,45:0:0:47,45:1681,1597:-267.537,-130.473,-116.325,-137.42,0,-123.874 1/2:153:0,64,89:0:0:64,89:2277,3105:-438.457,-252.885,-233.619,-185.925,0,-159.133 1/2:44:0,11,32:0:0:11,32:388,1127:-123.486,-91.891,-88.5797,-31.7249,0,-22.092 1/2:64:0,34,30:0:0:34,30:1216,1064:-186.197,-87.0413,-76.8063,-99.5115,0,-90.4806 1/1:92:0,92,0:0:0:92,0:3291,0:-296.409,-27.6948,0,-296.409,-27.6948,-296.409 1/1:27:0,27,0:0:0:27,0:964,0:-87.0768,-8.12781,0,-87.0768,-8.12781,-87.0768 chr02 1911205 . C G,A 51065.4 PASS AB=0.504751,0.494656;ABP=3.34041,3.42809;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1480,946;CIGAR=1X,1X;DP=2427;DPB=2427;DPRA=1.03348,1.89226;EPP=3164.89,1962.79;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.8,2;MQM=59.9736,59.9958;MQMR=0;NS=21;NUMALT=2;ODDS=13.1471;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52696,33396;QR=0;RO=0;RPL=6,11;RPP=3164.89,1962.79;RPPR=0;RPR=1474,935;RUN=1,1;SAF=1480,946;SAP=3216.79,2057.22;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,21,39:0:0:21,39:731,1371:-171.349,-111.948,-105.626,-59.7502,0,-48.0101 1/2:113:0,52,61:0:0:52,61:1856,2144:-326.178,-174.866,-159.212,-151.666,0,-133.303 1/2:114:0,62,52:0:0:62,52:2220,1844:-331.631,-150.587,-131.923,-181.401,0,-165.747 1/2:129:0,57,72:0:0:57,72:2030,2527:-371.465,-206.007,-188.848,-165.812,0,-144.138 1/2:210:0,116,94:0:0:116,94:4131,3334:-608.683,-271.982,-237.062,-337.056,0,-308.759 1/2:62:0,29,33:0:0:29,33:1036,1188:-181.76,-97.2946,-88.5647,-84.824,0,-74.8901 1/2:151:0,73,78:0:0:73,78:2616,2764:-438.879,-225.523,-203.548,-213.712,0,-190.232 2/2:112:0,0,112:0:0:0,112:0,3933:-354.168,-354.168,-354.168,-33.7154,-33.7154,0 1/1:287:0,286,1:0:0:286,1:10195,36:-917.12,-86.0946,0,-914.183,-82.7973,-913.881 1/1:25:0,25,0:0:0:25,0:892,0:-80.5997,-7.52575,0,-80.5997,-7.52575,-80.5997 1/1:15:0,15,0:0:0:15,0:536,0:-48.5748,-4.51545,0,-48.5748,-4.51545,-48.5748 1/2:64:0,23,40:0:0:23,40:807,1401:-179.659,-113.984,-107.061,-65.666,0,-53.6248 1/2:145:0,86,59:0:0:86,59:3080,2088:-421.614,-170.43,-144.541,-251.54,0,-233.779 1/1:137:0,137,0:0:0:137,0:4862,0:-437.736,-41.2411,0,-437.736,-41.2411,-437.736 1/2:224:0,106,118:0:0:106,118:3784,4167:-648.191,-339.695,-307.786,-308.851,0,-273.329 1/2:79:0,41,38:0:0:41,38:1452,1352:-228.82,-110.541,-98.199,-118.634,0,-107.195 1/2:91:0,54,37:0:0:54,37:1898,1309:-261.46,-106.971,-90.7158,-154.841,0,-143.703 1/2:193:0,95,98:0:0:95,98:3382,3450:-556.86,-281.216,-252.618,-275.998,0,-246.497 1/2:49:0,35,14:0:0:35,14:1256,488:-142.494,-40.036,-29.5,-102.809,0,-98.5948 1/1:124:0,124,0:0:0:124,0:4401,0:-396.264,-37.3277,0,-396.264,-37.3277,-396.264 1/1:43:0,43,0:0:0:43,0:1531,0:-138.082,-12.9443,0,-138.082,-12.9443,-138.082 chr02 1911231 . A G 45490.8 PASS AB=0.508202;ABP=5.00495;AC=16;AF=0.380952;AN=42;AO=1955;CIGAR=1X;DP=4850;DPB=4850;DPRA=4.85404;EPP=4248.24;EPPR=6287.25;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.998;MQMR=59.9851;NS=21;NUMALT=1;ODDS=18.014;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68990;QR=103219;RO=2894;RPL=1017;RPP=9.94235;RPPR=5.36335;RPR=938;RUN=1;SAF=1017;SAP=9.94235;SAR=938;SRF=1475;SRP=5.36335;SRR=1419;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:160:73,87:73:2616:87:3068:-228.182,0,-187.523 0/1:201:90,111:90:3213:111:3920:-292.486,0,-228.884 0/1:259:136,123:136:4868:123:4332:-312.088,0,-360.306 0/1:257:126,131:126:4500:131:4569:-334.013,0,-327.802 0/1:514:245,269:245:8753:269:9536:-703.473,0,-633.028 0/1:171:91,80:91:3264:80:2810:-201.663,0,-242.504 0/1:344:171,173:171:6075:173:6097:-445.282,0,-443.301 1/1:216:0,216:0:0:216:7639:-687.553,-65.0225,0 0/0:513:511,2:511:18216:2:72:0,-147.592,-1632.17 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/0:30:30,0:30:1061:0:0:0,-9.0309,-95.7994 0/1:85:31,54:31:1112:54:1923:-147.759,0,-74.8038 0/1:273:152,121:152:5421:121:4277:-302.929,0,-405.839 0/0:277:276,1:276:9869:1:36:0,-79.787,-884.554 0/1:421:178,243:178:6345:243:8568:-644.396,0,-444.406 0/1:133:64,69:64:2292:69:2439:-179.728,0,-166.014 0/1:108:67,41:67:2383:41:1456:-98.8234,0,-182.216 0/1:338:163,175:163:5834:175:6184:-454.917,0,-423.422 0/1:150:92,58:92:3220:58:2028:-137.633,0,-244.869 0/0:269:267,1:267:9526:1:36:0,-77.4376,-853.697 0/0:95:95,0:95:3355:0:0:0,-28.5978,-302.17 chr02 1914118 . T A 18019.5 PASS AB=0.501852;ABP=3.04247;AC=26;AF=0.619048;AN=42;AO=933;CIGAR=1X;DP=1558;DPB=1558;DPRA=0.855814;EPP=2028.99;EPPR=1358.01;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.91556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33246;QR=22215;RO=624;RPL=933;RPP=2028.99;RPPR=1358.01;RPR=0;RUN=1;SAF=933;SAP=2028.99;SAR=0;SRF=624;SRP=1358.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:47,53:47:1667:53:1877:-139.104,0,-120.214 0/1:66:40,26:40:1427:26:909:-62.2554,0,-108.859 0/1:59:28,31:28:1000:31:1101:-81.6376,0,-72.5546 0/1:51:21,30:21:743:30:1076:-81.8003,0,-51.8408 0/1:159:77,82:77:2743:82:2931:-216.16,0,-199.249 0/1:45:23,22:23:820:22:779:-56.8857,0,-60.5762 0/1:106:45,61:45:1616:61:2165:-163.206,0,-113.821 0/0:86:86,0:86:3063:0:0:0,-25.8886,-275.899 1/1:219:0,219:0:0:219:7837:-705.357,-65.9256,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:38:18,20:18:648:20:716:-53.3286,0,-47.2127 0/1:82:50,32:50:1792:32:1129:-77.2319,0,-136.878 1/1:59:0,59:0:0:59:2120:-191.068,-17.7608,0 0/1:142:80,62:80:2837:62:2208:-156.239,0,-212.822 0/1:70:44,26:44:1557:26:932:-63.1268,0,-119.348 0/1:79:33,46:33:1171:46:1637:-123.835,0,-81.9153 0/1:43:18,25:18:639:25:900:-68.3767,0,-44.894 0/1:40:14,26:14:492:26:928:-71.7971,0,-32.5711 1/1:74:0,73:0:0:73:2561:-230.379,-21.9752,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 chr02 1917601 . ATGAGAGA TTGGGAGA,TTGGGAGC 71330.9 PASS AB=0.516301,0.470725;ABP=9.94803,25.3867;AC=26,16;AF=0.619048,0.380952;AN=42;AO=2436,1713;CIGAR=1X2M1X4M,1X2M1X3M1X;DP=4199;DPB=4198.88;DPRA=0,1.57554;EPP=5292.72,3722.74;EPPR=0;GTI=0;LEN=8,8;MEANALT=3.66667,3.875;MQM=39.0053,30.7081;MQMR=0;NS=21;NUMALT=2;ODDS=2.02436;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84883,60316;QR=0;RO=0;RPL=2436,1713;RPP=5292.72,3722.74;RPPR=0;RPR=0,0;RUN=1,1;SAF=2436,1713;SAP=5292.72,3722.74;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:373:0,195,177:0:0:195,177:6716,6232:-935.776,-417.562,-358.861,-518.321,0,-465.038 1/2:198:0,101,97:0:0:101,97:3525,3424:-485.045,-208.966,-178.562,-276.383,0,-247.183 1/2:212:0,112,100:0:0:112,100:3921,3502:-538.659,-236.437,-202.722,-302.535,0,-272.432 1/2:204:0,103,98:0:0:103,98:3608,3465:-511.494,-233.141,-202.135,-278.424,0,-248.923 1/2:428:0,207,212:0:0:207,212:7218,7426:-1059.93,-504.32,-442.006,-555.693,0,-491.875 1/2:123:0,68,54:0:0:68,54:2324,1900:-297.732,-115.732,-95.2618,-182.052,0,-165.797 1/2:259:0,129,127:0:0:129,127:4519,4491:-626.263,-271.94,-233.108,-354.376,0,-316.145 2/2:298:0,1,297:0:0:1,297:35,10413:-764.711,-761.92,-761.619,-89.4059,-86.2708,0 1/1:422:0,416,0:0:0:416,0:14437,0:-1237.39,-125.228,0,-1237.39,-125.228,-1237.39 1/1:30:0,30,0:0:0:30,0:1071,0:-92.8748,-9.0309,0,-92.8748,-9.0309,-92.8748 1/1:13:0,12,0:0:0:12,0:423,0:-36.9602,-3.61236,0,-36.9602,-3.61236,-36.9602 1/2:29:0,16,13:0:0:16,13:560,467:-73.6493,-30.1681,-25.3516,-43.7908,0,-39.8774 1/2:255:0,128,124:0:0:128,124:4469,4363:-641.514,-296.938,-258.406,-344.689,0,-307.361 1/1:200:0,198,1:0:0:198,1:6931,36:-593.972,-59.6039,0,-591.524,-57.1255,-591.223 1/2:456:0,229,216:0:0:229,216:8038,7612:-1137.94,-516.54,-447.604,-621.457,0,-556.434 1/2:160:0,94,61:0:0:94,61:3316,2166:-410.086,-153.848,-125.551,-256.3,0,-237.937 1/2:134:0,77,55:0:0:77,55:2666,1956:-342.254,-136.931,-113.752,-205.418,0,-188.862 1/2:90:0,41,49:0:0:41,49:1390,1724:-220.639,-112.547,-100.205,-108.4,0,-93.6499 1/2:85:0,52,32:0:0:52,32:1823,1139:-217.599,-76.7798,-61.1262,-140.89,0,-131.257 1/1:156:0,154,0:0:0:154,0:5372,0:-465.624,-46.3586,0,-465.624,-46.3586,-465.624 1/1:74:0,73,0:0:0:73,0:2521,0:-219.408,-21.9752,0,-219.408,-21.9752,-219.408 chr02 1917820 . C T 7146.52 PASS AB=0.505076;ABP=3.18666;AC=16;AF=0.380952;AN=42;AO=439;CIGAR=1X;DP=1141;DPB=1141;DPRA=1.06282;EPP=913.352;EPPR=1414.39;GTI=0;LEN=1;MEANALT=1;MQM=40.7039;MQMR=59.5521;NS=21;NUMALT=1;ODDS=7.72506;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15587;QR=25098;RO=701;RPL=5;RPP=913.352;RPPR=1414.39;RPR=434;RUN=1;SAF=0;SAP=956.287;SAR=439;SRF=0;SRP=1525.21;SRR=701;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:41,39:41:1460:39:1388:-96.4916,0,-107.587 0/1:38:24,14:24:864:14:492:-30.7598,0,-66.6434 0/1:46:19,27:19:684:27:960:-70.6421,0,-48.0383 0/1:17:7,10:7:248:10:360:-26.7571,0,-17.5467 0/1:143:66,77:66:2376:77:2760:-197.985,0,-171.045 0/1:49:26,23:26:928:23:816:-54.0654,0,-69.0702 0/1:101:40,61:40:1436:61:2156:-153.456,0,-99.0984 1/1:41:0,41:0:0:41:1441:-125.153,-12.3422,0 0/0:148:147,0:147:5275:0:0:0,-44.2514,-474.481 0/0:7:7,0:7:248:0:0:0,-2.10721,-21.629 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2487 0/1:12:7,5:7:248:5:172:-11.6925,0,-19.0518 0/1:41:26,15:26:936:15:540:-34.7068,0,-72.2117 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.671 0/1:68:33,35:33:1179:35:1236:-87.2845,0,-85.9466 0/1:37:16,21:16:576:21:748:-55.0125,0,-41.0336 0/1:22:12,10:12:432:10:341:-23.9172,0,-32.5976 0/1:77:41,36:41:1455:36:1288:-87.3051,0,-108.027 0/1:57:32,25:32:1137:25:889:-60.9011,0,-85.4783 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.094 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.47 chr02 1917844 . C T 7234.22 PASS AB=0.51519;ABP=4.59355;AC=16;AF=0.380952;AN=42;AO=449;CIGAR=1X;DP=1139;DPB=1139;DPRA=1.08404;EPP=978.001;EPPR=1499.15;GTI=0;LEN=1;MEANALT=1.06667;MQM=40.4833;MQMR=59.6299;NS=21;NUMALT=1;ODDS=5.95501;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16088;QR=24575;RO=689;RPL=449;RPP=978.001;RPPR=1499.15;RPR=0;RUN=1;SAF=0;SAP=978.001;SAR=449;SRF=0;SRP=1499.15;SRR=689;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:41,38:41:1457:38:1357:-94.1007,0,-107.633 0/1:32:19,13:19:684:13:468:-30.1011,0,-52.2574 0/1:46:19,27:19:684:27:972:-71.5749,0,-48.0383 0/1:17:7,10:7:248:10:345:-25.4775,0,-17.5467 0/1:146:66,80:66:2352:80:2868:-206.875,0,-167.966 0/1:50:27,23:27:972:23:828:-54.5008,0,-72.7288 0/1:102:41,61:41:1476:61:2173:-153.851,0,-102.396 1/1:42:0,42:0:0:42:1512:-130.925,-12.6433,0 0/0:143:143,0:143:5091:0:0:0,-43.0473,-458.289 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2487 0/1:12:7,5:7:248:5:180:-12.2783,0,-19.0518 0/1:43:26,17:26:928:17:612:-40.4101,0,-70.8884 0/0:65:65,0:65:2324:0:0:0,-19.5669,-209.363 0/1:69:32,37:32:1152:37:1332:-95.0924,0,-83.2145 0/1:36:14,21:14:489:21:756:-55.8554,0,-33.4431 0/1:22:11,11:11:396:11:396:-28.7386,0,-29.3592 0/1:75:39,36:39:1385:36:1296:-88.3568,0,-102.334 0/1:61:33,28:33:1179:28:993:-68.2135,0,-88.0544 0/0:38:38,0:38:1337:0:0:0,-11.4391,-120.62 0/0:47:47,0:47:1669:0:0:0,-14.1484,-150.478 chr02 1940176 . C A 58636.9 PASS AB=0.49755;ABP=3.24437;AC=16;AF=0.380952;AN=42;AO=2498;CIGAR=1X;DP=6405;DPB=6405;DPRA=0.990954;EPP=5427.35;EPPR=8486.95;GTI=0;LEN=1;MEANALT=1;MQM=59.8767;MQMR=59.9859;NS=21;NUMALT=1;ODDS=34.5901;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89119;QR=139077;RO=3907;RPL=1141;RPP=43.5676;RPPR=3.05532;RPR=1357;RUN=1;SAF=1141;SAP=43.5676;SAR=1357;SRF=1949;SRP=3.05532;SRR=1958;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:329:156,173:156:5574:173:6193:-458.42,0,-402.658 0/1:323:137,186:137:4869:186:6646:-500.978,0,-341.13 0/1:346:171,175:171:6123:175:6218:-455.476,0,-446.743 0/1:383:166,217:166:5916:217:7739:-581.221,0,-417.254 0/1:668:326,342:326:11612:342:12229:-899.348,0,-843.863 0/1:280:142,138:142:5053:138:4941:-360.55,0,-370.626 0/1:344:165,179:165:5855:179:6379:-470.566,0,-423.508 1/1:259:0,259:0:0:259:9205:-828.4,-77.9668,0 0/0:575:575,0:575:20471:0:0:0,-173.092,-1841.89 0/0:69:68,1:68:2424:1:36:0,-17.1728,-214.815 0/0:44:44,0:44:1551:0:0:0,-13.2453,-139.881 0/1:136:72,64:72:2579:64:2271:-163.71,0,-191.418 0/1:394:197,197:197:6978:197:7023:-513.411,0,-509.479 0/0:442:442,0:442:15683:0:0:0,-133.055,-1411.18 0/1:315:189,126:189:6745:126:4493:-309.708,0,-512.3 0/1:232:103,129:103:3649:129:4619:-346.031,0,-258.774 0/1:277:147,130:147:5221:130:4633:-333.739,0,-386.643 0/1:250:131,119:131:4668:119:4230:-305.516,0,-345.026 0/1:213:154,59:154:5472:59:2120:-126.947,0,-428.491 0/0:358:354,4:354:12630:4:144:0,-94.4551,-1123.22 0/0:168:168,0:168:6004:0:0:0,-50.573,-540.464 chr02 1940209 . G A 24531.2 PASS AB=0.512206;ABP=6.03176;AC=16;AF=0.380952;AN=42;AO=1365;CIGAR=1X;DP=3348;DPB=3348;DPRA=1.19942;EPP=2941.07;EPPR=4257.08;GTI=0;LEN=1;MEANALT=1;MQM=59.7553;MQMR=59.9894;NS=21;NUMALT=1;ODDS=7.59466;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48947;QR=70788;RO=1983;RPL=1362;RPP=2941.07;RPPR=4257.08;RPR=3;RUN=1;SAF=0;SAP=2967.07;SAR=1365;SRF=0;SRP=4309.04;SRR=1983;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:96,86:96:3427:86:3084:-222.993,0,-253.856 0/1:142:64,78:64:2281:78:2807:-210.108,0,-162.804 0/1:133:57,76:57:2048:76:2725:-205.445,0,-144.555 0/1:266:118,148:118:4228:148:5312:-398.112,0,-300.626 0/1:394:193,201:193:6891:201:7200:-529.368,0,-501.653 0/1:157:85,72:85:3035:72:2580:-185.187,0,-226.118 0/1:202:95,107:95:3368:107:3828:-283.865,0,-242.528 1/1:166:0,166:0:0:166:5938:-534.512,-49.971,0 0/0:305:305,0:305:10909:0:0:0,-91.8141,-981.708 0/0:15:15,0:15:531:0:0:0,-4.51545,-48.1219 0/0:29:29,0:29:1027:0:0:0,-8.72987,-92.7422 0/1:72:36,36:36:1296:36:1296:-95.2652,0,-95.2698 0/1:190:83,107:83:2961:107:3848:-289.221,0,-209.526 0/0:250:250,0:250:8907:0:0:0,-75.2575,-801.619 0/1:120:58,62:58:2071:62:2219:-163.837,0,-150.536 0/1:144:61,83:61:2188:83:2988:-225.8,0,-153.837 0/1:165:91,74:91:3237:74:2638:-187.987,0,-241.824 0/1:67:32,35:32:1148:35:1260:-93.4257,0,-83.4608 0/1:101:70,31:70:2487:31:1116:-70.3453,0,-193.679 0/0:155:152,3:152:5452:3:108:0,-36.5845,-480.732 0/0:93:93,0:93:3296:0:0:0,-27.9958,-296.859 chr02 2113229 . G A 13905 PASS AB=0.458594;ABP=24.4092;AC=26;AF=0.619048;AN=42;AO=987;CIGAR=1X;DP=1929;DPB=1929;DPRA=0.541718;EPP=2146.25;EPPR=2046.37;GTI=3;LEN=1;MEANALT=1.05;MQM=32.8987;MQMR=46.3539;NS=21;NUMALT=1;ODDS=2.37609;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35277;QR=33701;RO=941;RPL=0;RPP=2146.25;RPPR=2046.37;RPR=987;RUN=1;SAF=987;SAP=2146.25;SAR=0;SRF=941;SRP=2046.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:70,49:70:2520:49:1764:-101.265,0,-189.114 0/1:73:32,41:32:1152:41:1472:-95.0027,0,-78.2597 0/1:102:64,38:64:2296:38:1364:-75.9069,0,-173.167 0/1:115:52,62:52:1868:62:2198:-138.205,0,-132.304 0/1:209:121,88:121:4310:88:3134:-181.706,0,-321.866 0/1:54:25,29:25:900:29:1006:-64.7753,0,-63.9296 0/1:120:73,47:73:2605:47:1692:-97.3997,0,-194.381 0/0:163:163,0:163:5818:0:0:0,-49.0679,-518.281 1/1:187:1,186:1:36:186:6649:-510.841,-52.7258,0 1/1:4:0,4:0:0:4:144:-11.5575,-1.20412,0 1/1:4:0,4:0:0:4:144:-11.7942,-1.20412,0 0/1:22:14,8:14:500:8:288:-15.3217,0,-38.3308 0/1:128:70,58:70:2516:58:2088:-122.586,0,-186.202 1/1:24:0,24:0:0:24:861:-65.4559,-7.22472,0 0/1:249:135,114:135:4852:114:4040:-240.044,0,-356.963 0/1:66:36,30:36:1288:30:1076:-63.3202,0,-94.1962 0/1:65:39,26:39:1396:26:936:-53.8385,0,-104.641 0/1:67:31,36:31:1108:36:1296:-81.154,0,-78.8134 0/1:48:15,33:15:536:33:1188:-78.007,0,-33.6966 1/1:71:0,71:0:0:71:2537:-198.957,-21.3731,0 1/1:39:0,39:0:0:39:1400:-112.124,-11.7402,0 chr02 2113240 . TTCATTTGGG TTCATTGGG,ATCATTGGG 33668.8 PASS AB=0.446089,0.551092;ABP=38.8327,35.1845;AC=26,16;AF=0.619048,0.380952;AN=42;AO=946,947;CIGAR=4M1D5M,1X3M1D5M;DP=1899;DPB=1709.1;DPRA=0.525455,4.11614;EPP=2057.22,2059.39;EPPR=0;GTI=2;LEN=1,9;MEANALT=2,2.3125;MQM=32.9545,46.3411;MQMR=0;NS=21;NUMALT=2;ODDS=0.88302;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31005,33707;QR=0;RO=0;RPL=0,0;RPP=2057.22,2059.39;RPPR=0;RPR=946,947;RUN=1,1;SAF=946,947;SAP=2057.22,2059.39;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:116:0,44,71:0:0:44,71:1442,2540:-310.078,-205.212,-191.967,-104.992,0,-83.6193 1/2:74:0,41,33:0:0:41,33:1367,1157:-192.353,-92.1484,-79.8061,-100.53,0,-90.5962 1/2:102:0,37,65:0:0:37,65:1201,2319:-274.543,-187.343,-176.205,-87.5165,0,-67.9496 1/2:113:0,58,54:0:0:58,54:1899,1924:-293.763,-155.269,-137.81,-138.607,0,-122.351 1/2:204:0,84,120:0:0:84,120:2755,4306:-548.026,-348.007,-322.721,-200.341,0,-164.217 1/2:53:0,28,25:0:0:28,25:942,888:-140.721,-71.6567,-63.2279,-69.394,0,-61.8683 1/2:120:0,47,73:0:0:47,73:1567,2573:-321.012,-206.225,-192.076,-115.108,0,-93.1331 2/2:165:0,0,164:0:0:0,164:0,5818:-518.688,-518.688,-518.688,-49.3689,-49.3689,0 1/1:181:0,179,1:0:0:179,1:5808,36:-475.006,-53.8844,0,-472.096,-50.8919,-471.795 1/1:4:0,4,0:0:0:4,0:130,0:-10.9988,-1.20412,0,-10.9988,-1.20412,-10.9988 1/1:4:0,4,0:0:0:4,0:136,0:-11.4665,-1.20412,0,-11.4665,-1.20412,-11.4665 1/2:22:0,8,14:0:0:8,14:253,495:-58.4765,-40.3036,-37.8954,-18.4824,0,-14.268 1/2:126:0,55,71:0:0:55,71:1768,2536:-333.19,-205.177,-188.62,-128.333,0,-106.959 1/1:22:0,22,0:0:0:22,0:706,0:-57.9976,-6.62266,0,-57.9976,-6.62266,-57.9976 1/2:247:0,111,135:0:0:111,135:3630,4821:-652.318,-388.764,-355.35,-263.685,0,-223.046 1/2:64:0,28,36:0:0:28,36:906,1263:-167.24,-101.691,-93.2623,-65.8655,0,-55.0285 1/2:66:0,27,39:0:0:27,39:888,1395:-177.117,-112.532,-104.404,-64.9064,0,-53.1662 1/2:65:0,34,31:0:0:34,31:1119,1104:-170.629,-89.3097,-79.0747,-81.646,0,-72.3141 1/2:47:0,31,15:0:0:31,15:1025,532:-117.644,-43.0638,-33.7319,-74.7145,0,-70.1991 1/1:66:0,66,0:0:0:66,0:2175,0:-178.452,-19.868,0,-178.452,-19.868,-178.452 1/1:38:0,38,0:0:0:38,0:1288,0:-106.176,-11.4391,0,-106.176,-11.4391,-106.176 chr02 2113271 . G T 16597.6 PASS AB=0.547636;ABP=30.9391;AC=16;AF=0.380952;AN=42;AO=935;CIGAR=1X;DP=1898;DPB=1898;DPRA=3.89406;EPP=2033.34;EPPR=2089.8;GTI=3;LEN=1;MEANALT=1.125;MQM=46.3476;MQMR=32.9126;NS=21;NUMALT=1;ODDS=1.63385;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33380;QR=34406;RO=961;RPL=935;RPP=2033.34;RPPR=2089.8;RPR=0;RUN=1;SAF=935;SAP=2033.34;SAR=0;SRF=961;SRP=2089.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:47,70:47:1684:70:2511:-188.931,0,-95.9243 0/1:73:40,33:40:1414:33:1175:-80.4192,0,-90.9308 0/1:100:37,63:37:1332:63:2256:-171.463,0,-73.9548 0/1:115:61,54:61:2172:54:1922:-136.829,0,-136.012 0/1:209:87,122:87:3120:122:4358:-325.751,0,-180.468 0/1:53:28,25:28:1000:25:896:-63.9028,0,-64.2107 0/1:116:44,72:44:1576:72:2559:-191.584,0,-90.5425 1/1:159:0,158:0:0:158:5636:-502.055,-47.5627,0 0/0:181:180,1:180:6433:1:36:0,-50.9196,-493.854 0/0:4:4,0:4:144:0:0:0,-1.20412,-11.5575 0/0:4:4,0:4:144:0:0:0,-1.20412,-11.7942 0/1:22:7,14:7:244:14:500:-38.4045,0,-13.1158 0/1:124:54,70:54:1936:70:2499:-185.935,0,-112.07 0/0:24:24,0:24:856:0:0:0,-7.22472,-65.4266 0/1:246:112,134:112:4023:134:4786:-351.908,0,-238.646 0/1:65:30,35:30:1080:35:1256:-91.6243,0,-63.7815 0/1:65:26,39:26:936:39:1387:-103.854,0,-52.9885 0/1:65:35,30:35:1260:30:1063:-75.4262,0,-78.9448 0/1:47:32,15:32:1144:15:540:-34.3187,0,-75.1355 0/0:70:70,0:70:2508:0:0:0,-21.0721,-196.773 0/0:39:39,0:39:1400:0:0:0,-11.7402,-112.124 chr02 2197123 . A C 4454.05 PASS AB=0.26853;ABP=386.015;AC=16;AF=0.380952;AN=42;AO=317;CIGAR=1X;DP=1341;DPB=1341;DPRA=0.87109;EPP=691.367;EPPR=2224.43;GTI=3;LEN=1;MEANALT=1;MQM=59.9085;MQMR=59.9824;NS=21;NUMALT=1;ODDS=0.304959;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11282;QR=36720;RO=1023;RPL=317;RPP=691.367;RPPR=2224.43;RPR=0;RUN=1;SAF=0;SAP=691.367;SAR=317;SRF=0;SRP=2224.43;SRR=1023;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:38,10:38:1364:10:352:-17.5688,0,-108.611 0/1:42:33,9:33:1184:9:324:-16.8626,0,-94.2251 0/1:67:55,12:55:1980:12:432:-18.6792,0,-158.305 0/1:59:43,16:43:1548:16:568:-33.6911,0,-121.852 0/1:127:92,35:92:3304:35:1252:-74.7543,0,-259.347 0/1:61:54,7:54:1936:7:252:-4.66613,0,-156.154 0/1:96:72,24:72:2592:24:864:-49.1837,0,-204.629 1/1:96:0,96:0:0:96:3433:-309.182,-28.8989,0 0/0:208:207,0:207:7420:0:0:0,-62.3132,-667.485 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:8:3,5:3:104:5:161:-12.3983,0,-7.29457 0/1:81:52,29:52:1872:29:1014:-67.1825,0,-144.376 0/0:88:88,0:88:3152:0:0:0,-26.4906,-283.905 0/1:50:32,18:32:1144:18:633:-42.2436,0,-88.218 0/1:29:24,5:24:864:5:180:-7.82219,0,-69.3527 0/1:44:20,24:20:716:24:845:-63.1218,0,-51.5224 0/1:51:34,17:34:1224:17:612:-40.0609,0,-95.1145 0/1:60:50,10:50:1796:10:360:-14.6825,0,-143.861 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.737 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.946 chr02 2221103 . TG CG,CA 57477.1 PASS AB=0.50693,0.491471;ABP=3.79277,4.19558;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1570,1108;CIGAR=1X1M,2X;DP=2684;DPB=2684;DPRA=0.671505,2.0771;EPP=3173.35,2272.03;EPPR=0;GTI=0;LEN=1,2;MEANALT=2,2.25;MQM=59.9904,59.9576;MQMR=0;NS=21;NUMALT=2;ODDS=4.77634;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55993,39125;QR=0;RO=0;RPL=1551,1105;RPP=3249.19,2383.01;RPPR=0;RPR=19,3;RUN=1,1;SAF=9,13;SAP=3334.5,2297.41;SAR=1561,1095;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:153:0,75,78:0:0:75,78:2649,2763:-441.154,-225.428,-202.851,-216.079,0,-192.598 1/2:87:0,52,35:0:0:52,35:1843,1245:-251.958,-101.818,-86.164,-150.496,0,-139.96 1/2:141:0,61,80:0:0:61,80:2192,2814:-408.242,-229.415,-211.052,-179.183,0,-155.1 1/2:183:0,99,84:0:0:99,84:3544,2974:-531.617,-242.606,-212.804,-289.367,0,-264.08 1/2:262:0,135,126:0:0:135,126:4840,4441:-756.326,-361.568,-320.929,-394.754,0,-356.824 1/2:114:0,42,72:0:0:42,72:1488,2491:-323.985,-202.765,-190.122,-121.571,0,-99.8971 1/2:190:0,107,83:0:0:107,83:3823,2937:-551.277,-239.575,-207.365,-312.057,0,-287.071 2/2:186:0,0,185:0:0:0,185:0,6538:-588.255,-588.255,-588.255,-55.6906,-55.6906,0 1/1:271:0,269,1:0:0:269,1:9580,36:-861.854,-80.9771,0,-858.916,-77.9844,-858.615 1/1:25:0,25,0:0:0:25,0:896,0:-80.9604,-7.52575,0,-80.9604,-7.52575,-80.9604 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/2:21:0,10,11:0:0:10,11:360,394:-61.8652,-32.4902,-29.4799,-29.734,0,-26.4227 1/2:203:0,93,110:0:0:93,110:3320,3879:-586.856,-316.188,-288.192,-271.023,0,-237.91 1/1:124:0,124,0:0:0:124,0:4368,0:-393.294,-37.3277,0,-393.294,-37.3277,-393.294 1/2:266:0,143,123:0:0:143,123:5096,4358:-770.746,-355.366,-312.318,-415.735,0,-378.709 1/2:71:0,52,18:0:0:52,18:1864,635:-203.838,-51.8027,-36.1492,-152.134,0,-146.715 1/2:52:0,11,41:0:0:11,41:396,1470:-152.565,-120.254,-116.943,-32.671,0,-20.3288 1/2:71:0,32,39:0:0:32,39:1148,1369:-205.408,-111.766,-102.133,-93.9969,0,-82.2567 1/2:62:0,39,22:0:0:39,22:1383,781:-176.303,-63.6298,-51.8897,-112.668,0,-106.046 1/1:147:0,146,0:0:0:146,0:5223,0:-469.848,-43.9504,0,-469.848,-43.9504,-469.848 1/1:43:0,43,0:0:0:43,0:1548,0:-139.613,-12.9443,0,-139.613,-12.9443,-139.613 chr02 2267902 . 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G A 15044.7 PASS AB=0.41671;ABP=117.676;AC=16;AF=0.380952;AN=42;AO=911;CIGAR=1X;DP=2495;DPB=2495;DPRA=2.20063;EPP=1981.22;EPPR=3442.62;GTI=0;LEN=1;MEANALT=1;MQM=59.933;MQMR=59.9823;NS=21;NUMALT=1;ODDS=8.74023;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32570;QR=56638;RO=1584;RPL=0;RPP=1981.22;RPPR=3442.62;RPR=911;RUN=1;SAF=911;SAP=1981.22;SAR=0;SRF=1584;SRP=3442.62;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:101,57:101:3605:57:2029:-135.318,0,-277.092 0/1:91:47,44:47:1680:44:1572:-114.378,0,-124.093 0/1:144:69,75:69:2457:75:2671:-197.287,0,-178.035 0/1:167:109,58:109:3893:58:2076:-136.838,0,-300.291 0/1:239:150,89:150:5353:89:3169:-213.487,0,-409.957 0/1:166:87,79:87:3116:79:2825:-204.516,0,-230.696 0/1:212:106,106:106:3797:106:3796:-278.02,0,-278.108 1/1:115:0,115:0:0:115:4132:-371.993,-34.6185,0 0/0:169:169,0:169:6056:0:0:0,-50.8741,-545.142 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:27:21,6:21:752:6:212:-11.297,0,-59.8784 0/1:165:108,57:108:3860:57:2040:-134.201,0,-297.926 0/0:57:55,2:55:1976:2:72:0,-10.322,-171.278 0/1:127:65,62:65:2328:62:2224:-162.193,0,-171.547 0/1:101:65,36:65:2332:36:1292:-86.1797,0,-179.736 0/1:175:96,79:96:3413:79:2817:-201.088,0,-254.704 0/1:59:32,27:32:1152:27:959:-68.7565,0,-86.2294 0/1:72:54,18:54:1928:18:648:-36.9777,0,-152.123 0/0:179:178,1:178:6352:1:36:0,-50.2861,-568.085 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.759 chr02 2275602 . TA TG,CG 51050.2 PASS AB=0.583684,0.415263;ABP=118.583,121.509;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1574,906;CIGAR=1M1X,2X;DP=2482;DPB=2482;DPRA=1.02913,1.56099;EPP=3420.91,1970.36;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.85,2.0625;MQM=59.9822,59.9327;MQMR=0;NS=21;NUMALT=2;ODDS=7.37587;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56316,31981;QR=0;RO=0;RPL=1574,906;RPP=3420.91,1970.36;RPPR=0;RPR=0,0;RUN=1,1;SAF=1574,906;SAP=3420.91,1970.36;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:158:0,101,56:0:0:101,56:3605,1967:-453.983,-160.085,-129.681,-293.891,0,-277.034 1/2:92:0,48,44:0:0:48,44:1724,1562:-268.262,-127.624,-113.175,-140.995,0,-127.75 1/2:141:0,67,74:0:0:67,74:2350,2608:-403.926,-212.691,-192.522,-191.586,0,-169.31 1/2:168:0,109,59:0:0:109,59:3916,2040:-485.574,-166.105,-133.293,-319.819,0,-302.059 1/2:234:0,148,86:0:0:148,86:5307,3040:-680.795,-247.94,-203.388,-433.21,0,-407.322 1/2:167:0,87,80:0:0:87,80:3124,2871:-489.382,-234.544,-208.355,-255.196,0,-231.114 1/2:211:0,105,106:0:0:105,106:3761,3739:-611.526,-304.801,-273.193,-307.081,0,-275.172 2/2:115:0,0,115:0:0:0,115:0,4025:-362.436,-362.436,-362.436,-34.6185,-34.6185,0 1/1:167:0,167,0:0:0:167,0:5969,0:-537.316,-50.272,0,-537.316,-50.272,-537.316 1/1:13:0,13,0:0:0:13,0:455,0:-41.282,-3.91339,0,-41.282,-3.91339,-41.282 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:27:0,21,6:0:0:21,6:748,205:-77.9558,-16.9775,-10.6558,-61.3231,0,-59.5169 1/2:165:0,107,58:0:0:107,58:3844,2050:-480.898,-167.309,-135.099,-313.945,0,-296.485 1/1:53:0,51,2:0:0:51,2:1836,72:-165.161,-15.3525,0,-159.286,-9.11787,-158.684 1/2:128:0,68,59:0:0:68,59:2428,2089:-368.107,-170.159,-149.689,-197.944,0,-180.183 1/2:103:0,67,36:0:0:67,36:2408,1287:-301.746,-105.297,-85.1276,-196.807,0,-185.97 1/2:176:0,96,80:0:0:96,80:3443,2819:-510.693,-229.865,-200.966,-281.183,0,-257.1 1/2:59:0,32,27:0:0:32,27:1144,963:-171.511,-78.2299,-68.597,-93.6366,0,-85.5087 1/2:71:0,53,18:0:0:53,18:1891,644:-207.028,-52.8723,-36.9177,-154.513,0,-149.094 1/1:175:0,175,0:0:0:175,0:6251,0:-562.598,-52.6803,0,-562.598,-52.6803,-562.598 1/1:51:0,51,0:0:0:51,0:1824,0:-164.441,-15.3525,0,-164.441,-15.3525,-164.441 chr02 2275661 . A C,T 45425.8 PASS AB=0.491613,0.508387;ABP=3.95734,3.95734;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1337,851;CIGAR=1X,1X;DP=2188;DPB=2188;DPRA=1.83621,1.87058;EPP=2906.27,1850.93;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.85,1.94444;MQM=53.742,55.0834;MQMR=0;NS=21;NUMALT=2;ODDS=13.5404;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47723,30461;QR=0;RO=0;RPL=0,0;RPP=2906.27,1850.93;RPPR=0;RPR=1337,851;RUN=1,1;SAF=0,0;SAP=2906.27,1850.93;SAR=1337,851;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,51,72:0:0:51,72:1828,2565:-358.066,-209.201,-193.848,-149.222,0,-127.548 1/2:71:0,45,26:0:0:45,26:1594,924:-204.937,-75.3475,-61.8011,-129.943,0,-122.116 1/2:113:0,67,46:0:0:67,46:2381,1644:-327.11,-134.123,-113.954,-193.342,0,-179.494 1/2:87:0,51,36:0:0:51,36:1806,1284:-251.558,-104.959,-89.6069,-146.953,0,-136.116 1/2:170:0,74,96:0:0:74,96:2648,3452:-496.886,-281.331,-259.055,-215.913,0,-187.014 1/2:103:0,41,62:0:0:41,62:1468,2228:-300.872,-181.588,-169.246,-119.641,0,-100.977 1/2:169:0,86,83:0:0:86,83:3076,2972:-492.265,-241.959,-216.07,-250.664,0,-225.678 2/2:58:0,0,58:0:0:0,58:0,2080:-187.204,-187.204,-187.204,-17.4597,-17.4597,0 1/1:211:0,210,1:0:0:210,1:7536,36:-676.46,-63.2163,0,-673.749,-60.1712,-673.448 1/1:38:0,37,1:0:0:37,1:1315,36:-118.065,-11.1381,0,-115.131,-7.84457,-114.83 1/1:15:0,15,0:0:0:15,0:536,0:-48.4853,-4.51545,0,-48.4853,-4.51545,-48.4853 1/2:27:0,16,11:0:0:16,11:572,392:-78.6826,-32.1702,-27.3537,-46.868,0,-43.5566 1/2:99:0,41,58:0:0:41,58:1468,2080:-289.384,-169.851,-157.509,-119.891,0,-102.431 1/1:126:0,126,0:0:0:126,0:4510,0:-405.142,-37.9298,0,-405.142,-37.9298,-405.142 1/2:220:0,106,114:0:0:106,114:3783,4069:-639.545,-331.782,-299.873,-308.119,0,-273.802 1/2:96:0,36,60:0:0:36,60:1283,2147:-279.205,-174.88,-164.043,-104.681,0,-86.6188 1/2:104:0,37,67:0:0:37,67:1315,2408:-302.816,-196.105,-184.967,-107.066,0,-86.8968 1/2:111:0,66,45:0:0:66,45:2344,1604:-321.076,-130.663,-110.795,-190.768,0,-177.222 1/2:57:0,45,12:0:0:45,12:1599,432:-165.362,-35.574,-22.0277,-130.147,0,-126.534 1/1:152:0,149,3:0:0:149,3:5297,108:-475.614,-44.8535,0,-466.913,-35.797,-466.01 1/1:38:0,38,0:0:0:38,0:1364,0:-122.771,-11.4391,0,-122.771,-11.4391,-122.771 chr02 2275669 . C A 14507.6 PASS AB=0.507732;ABP=3.81621;AC=16;AF=0.380952;AN=42;AO=848;CIGAR=1X;DP=2200;DPB=2200;DPRA=1.81532;EPP=1844.42;EPPR=2936.67;GTI=0;LEN=1;MEANALT=1.05556;MQM=55.0354;MQMR=53.7528;NS=21;NUMALT=1;ODDS=14.2713;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30273;QR=48237;RO=1351;RPL=0;RPP=1844.42;RPPR=2936.67;RPR=848;RUN=1;SAF=0;SAP=1844.42;SAR=848;SRF=0;SRP=2936.67;SRR=1351;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:124:52,72:52:1847:72:2560:-193.157,0,-128.959 0/1:72:46,26:46:1640:26:928:-61.8543,0,-125.946 0/1:115:67,48:67:2392:48:1724:-120.544,0,-179.614 0/1:87:50,37:50:1788:37:1319:-92.6237,0,-134.511 0/1:166:71,95:71:2544:95:3399:-255.523,0,-178.923 0/1:103:41,62:41:1472:62:2203:-167.145,0,-101.333 0/1:168:86,82:86:3076:82:2914:-211.334,0,-225.979 1/1:56:0,55:0:0:55:1980:-177.858,-16.5567,0 0/0:216:215,1:215:7683:1:36:0,-61.6763,-686.11 0/0:38:37,1:37:1332:1:36:0,-7.84457,-116.353 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.8433 0/1:27:16,11:16:568:11:396:-27.7143,0,-43.1386 0/1:99:42,57:42:1491:57:2015:-151.397,0,-104.501 0/0:130:130,0:130:4617:0:0:0,-39.1339,-414.746 0/1:220:106,114:106:3776:114:4091:-301.835,0,-273.171 0/1:96:36,60:36:1296:60:2144:-163.776,0,-87.7376 0/1:105:38,67:38:1352:67:2376:-181.79,0,-89.815 0/1:113:68,45:68:2424:45:1612:-110.901,0,-183.835 0/1:57:45,12:45:1616:12:432:-22.0277,0,-127.876 0/0:153:150,3:150:5363:3:108:0,-36.098,-471.839 0/0:40:40,0:40:1420:0:0:0,-12.0412,-127.81 chr02 2275706 . TGC AGT,TGT 45655.6 PASS AB=0.492386,0.506345;ABP=3.80393,3.56144;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1370,860;CIGAR=1X1M1X,2M1X;DP=2234;DPB=2234;DPRA=1.87586,1.79298;EPP=2977.93,1870.48;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=2,2.05556;MQM=53.6825,55.064;MQMR=60;NS=21;NUMALT=2;ODDS=14.289;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48457,30528;QR=36;RO=1;RPL=1370,860;RPP=2977.93,1870.48;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2977.93,1870.48;SAR=1370,860;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,52,74:0:0:52,74:1842,2603:-361.803,-211.972,-196.319,-150.183,0,-127.907 1/2:72:0,47,25:0:0:47,25:1653,885:-206.432,-72.1357,-57.9873,-134.648,0,-127.122 1/2:114:0,67,47:0:0:67,47:2373,1688:-329.93,-137.78,-117.611,-192.506,0,-178.357 1/2:87:0,50,37:0:0:50,37:1779,1317:-251.977,-107.615,-92.5636,-144.717,0,-133.578 1/2:172:0,76,96:0:0:76,96:2671,3403:-494.079,-277.025,-254.147,-217.406,0,-188.507 1/2:104:0,42,62:0:0:42,62:1498,2200:-300.764,-179.082,-166.439,-122.037,0,-103.373 1/2:171:0,87,84:0:0:87,84:3094,3012:-497.023,-245.391,-219.202,-251.988,0,-226.701 2/2:58:1,0,57:1:36:0,57:0,2010:-177.316,-177.617,-180.554,-13.8615,-17.1587,0 1/1:217:0,216,1:0:0:216,1:7690,36:-689.79,-65.0225,0,-687.079,-61.9774,-686.778 1/1:39:0,38,1:0:0:38,1:1314,36:-117.975,-11.4391,0,-115.041,-8.1456,-114.74 1/1:15:0,15,0:0:0:15,0:536,0:-48.4864,-4.51545,0,-48.4864,-4.51545,-48.4864 1/2:27:0,16,11:0:0:16,11:569,396:-78.7139,-32.5308,-27.7143,-46.5398,0,-43.2284 1/2:101:0,42,59:0:0:42,59:1490,2094:-291.755,-170.539,-157.896,-121.57,0,-103.809 1/1:134:0,133,0:0:0:133,0:4670,0:-419.044,-40.037,0,-419.044,-40.037,-419.044 1/2:227:0,108,118:0:0:108,118:3826,4180:-651.152,-340.187,-307.676,-310.959,0,-275.437 1/2:97:0,36,61:0:0:36,61:1284,2173:-281.34,-176.916,-166.079,-104.779,0,-86.4163 1/2:105:0,38,67:0:0:38,67:1344,2378:-302.52,-193.489,-182.05,-109.383,0,-89.2142 1/2:115:0,70,45:0:0:70,45:2459,1582:-328.384,-128.682,-107.61,-200.053,0,-186.506 1/2:58:0,45,12:0:0:45,12:1595,432:-164.644,-35.2147,-21.6683,-129.428,0,-125.815 1/1:154:0,151,3:0:0:151,3:5315,103:-477.322,-45.4555,0,-469.001,-36.793,-468.098 1/1:41:0,41,0:0:0:41,0:1455,0:-131.001,-12.3422,0,-131.001,-12.3422,-131.001 chr02 2316854 . T C 13639.6 PASS AB=0.456324;ABP=26.7205;AC=16;AF=0.380952;AN=42;AO=794;CIGAR=1X;DP=2026;DPB=2026;DPRA=1.41993;EPP=1727.16;EPPR=2676.09;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.2166;MQMR=59.9431;NS=21;NUMALT=1;ODDS=7.07232;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28273;QR=43996;RO=1231;RPL=794;RPP=1727.16;RPPR=2676.09;RPR=0;RUN=1;SAF=794;SAP=1727.16;SAR=0;SRF=1231;SRP=2676.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:169:99,70:99:3528:70:2482:-172.662,0,-266.854 0/1:44:23,21:23:828:21:741:-53.7663,0,-61.5988 0/1:129:79,50:79:2828:50:1762:-119.98,0,-215.918 0/1:61:39,22:39:1385:22:792:-53.2428,0,-106.584 0/1:154:86,68:86:3063:68:2432:-172.723,0,-229.541 0/1:68:36,32:36:1280:32:1152:-82.8599,0,-95.0328 0/1:121:53,68:53:1896:68:2418:-181.379,0,-134.493 1/1:140:1,139:1:36:139:4974:-444.118,-38.5459,0 0/0:196:196,0:196:7005:0:0:0,-59.0019,-630.513 0/0:32:31,1:31:1116:1:36:0,-6.03468,-97.1534 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:34:18,16:18:648:16:567:-41.1257,0,-48.4169 0/1:77:46,31:46:1648:31:1100:-76.0821,0,-125.429 0/0:135:134,1:134:4787:1:36:0,-37.0408,-427.342 0/1:216:112,104:112:4011:104:3685:-266.438,0,-296.151 0/1:86:48,38:48:1728:38:1364:-97.1575,0,-129.917 0/1:90:56,34:56:1999:34:1216:-82.5847,0,-153.09 0/1:143:61,81:61:2163:81:2868:-215.13,0,-151.827 0/1:39:21,18:21:743:18:648:-46.6407,0,-55.4532 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 chr02 2320074 . T A 23338.9 PASS AB=0.505022;ABP=3.55557;AC=16;AF=0.380952;AN=42;AO=1354;CIGAR=1X;DP=3985;DPB=3985;DPRA=1.57434;EPP=2943.18;EPPR=5713.98;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9956;MQMR=60;NS=21;NUMALT=1;ODDS=14.5082;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48340;QR=93661;RO=2630;RPL=1354;RPP=2943.18;RPPR=5713.98;RPR=0;RUN=1;SAF=1354;SAP=2943.18;SAR=0;SRF=2630;SRP=5713.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:41,46:41:1460:46:1644:-122.059,0,-105.506 0/1:72:41,31:41:1464:31:1108:-78.3568,0,-110.382 0/1:69:37,32:37:1328:32:1136:-81.7773,0,-99.0512 0/1:22:13,9:13:455:9:324:-22.8832,0,-34.6593 0/1:128:59,69:59:2098:69:2448:-182.041,0,-150.557 0/1:19:11,8:11:392:8:284:-20.1838,0,-29.9005 0/1:59:32,27:32:1148:27:956:-68.595,0,-85.8691 1/1:91:0,91:0:0:91:3260:-293.621,-27.3937,0 0/0:50:50,0:50:1781:0:0:0,-15.0515,-160.571 0/0:745:739,6:739:26403:6:214:0,-204.66,-2355.91 0/0:456:456,0:456:16272:0:0:0,-137.27,-1464.16 0/1:551:247,304:247:8741:304:10887:-813.858,0,-620.815 0/1:99:43,56:43:1514:56:2004:-150.832,0,-106.75 0/0:58:58,0:58:2056:0:0:0,-17.4597,-185.309 0/1:124:63,61:63:2228:61:2188:-159.858,0,-163.455 0/1:30:12,18:12:432:18:648:-49.621,0,-30.1903 0/1:73:39,34:39:1387:34:1220:-88.1316,0,-103.153 0/1:1080:540,539:540:19226:539:19199:-1402.3,0,-1404.73 0/1:76:53,23:53:1888:23:820:-51.2442,0,-147.32 0/0:56:56,0:56:1973:0:0:0,-16.8577,-177.843 0/0:40:40,0:40:1415:0:0:0,-12.0412,-127.647 chr02 2320371 . G A 12720.3 PASS AB=0.474119;ABP=10.766;AC=17;AF=0.404762;AN=42;AO=725;CIGAR=1X;DP=1781;DPB=1781;DPRA=1.2813;EPP=1517.11;EPPR=2242;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.9048;MQMR=59.9981;NS=21;NUMALT=1;ODDS=0.476869;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25846;QR=37294;RO=1051;RPL=718;RPP=1517.11;RPPR=2242;RPR=7;RUN=1;SAF=0;SAP=1577.33;SAR=725;SRF=0;SRP=2285.23;SRR=1051;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:60,66:60:2126:66:2330:-171.871,0,-153.678 0/1:136:68,68:68:2436:68:2414:-176.574,0,-178.555 0/1:48:25,23:25:879:23:828:-60.3947,0,-64.9774 0/1:103:47,56:47:1659:56:1983:-147.737,0,-118.591 0/1:187:102,85:102:3634:85:3056:-218.973,0,-270.973 0/1:90:47,43:47:1664:43:1537:-111.53,0,-122.955 0/1:161:75,86:75:2645:86:3041:-225.435,0,-189.831 1/1:90:0,90:0:0:90:3221:-290.107,-27.0927,0 0/0:171:168,0:168:5951:0:0:0,-50.573,-535.355 0/1:9:8,1:8:284:1:36:-0.889005,0,-23.1941 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 0/1:71:43,27:43:1519:27:972:-66.366,0,-115.571 0/0:96:94,2:94:3336:2:72:0,-22.0622,-293.623 0/1:132:81,50:81:2879:50:1792:-121.768,0,-219.553 0/1:97:47,50:47:1652:50:1788:-132.003,0,-119.765 0/1:95:46,49:46:1635:49:1732:-127.564,0,-118.84 0/1:23:14,9:14:492:9:324:-22.5822,0,-37.6887 0/1:35:25,10:25:896:10:360:-22.2083,0,-70.4243 0/0:57:56,1:56:1999:1:36:0,-13.5604,-176.585 0/0:29:29,0:29:1032:0:0:0,-8.72987,-93.1935 chr02 2369077 . A G 73091.7 PASS AB=0.507451;ABP=4.82236;AC=26;AF=0.619048;AN=42;AO=2927;CIGAR=1X;DP=5010;DPB=5010;DPRA=1.04389;EPP=6358.91;EPPR=4526.19;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9875;NS=21;NUMALT=1;ODDS=0.397389;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=104172;QR=73894;RO=2083;RPL=1597;RPP=55.8979;RPPR=120.002;RPR=1330;RUN=1;SAF=1597;SAP=55.8979;SAR=1330;SRF=1209;SRP=120.002;SRR=874;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:367:184,183:184:6477:183:6512:-475.686,0,-472.544 0/1:233:119,114:119:4244:114:4067:-296.078,0,-311.914 0/1:146:67,79:67:2387:79:2810:-209.189,0,-171.137 0/1:205:119,86:119:4209:86:3040:-212.119,0,-317.283 0/1:449:228,221:228:8073:221:7848:-571.192,0,-591.434 0/1:200:100,100:100:3567:100:3572:-261.482,0,-261.032 0/1:368:179,189:179:6346:189:6686:-491.04,0,-460.456 0/0:229:229,0:229:8098:0:0:0,-68.9359,-728.848 1/1:405:1,404:1:36:404:14380:-1290.36,-118.319,0 1/1:28:0,28:0:0:28:995:-89.864,-8.42884,0 1/1:14:0,14:0:0:14:492:-44.6123,-4.21442,0 0/1:65:25,40:25:892:40:1436:-109.971,0,-61.0327 0/1:398:196,202:196:6946:202:7210:-529.146,0,-505.399 1/1:240:2,238:2:72:238:8439:-752.682,-65.4105,0 0/1:374:195,179:195:6964:179:6366:-460.447,0,-514.242 0/1:217:117,100:117:4154:100:3573:-256.454,0,-308.722 0/1:161:82,79:82:2936:79:2824:-205.933,0,-216.008 0/1:251:121,130:121:4265:130:4628:-341.128,0,-308.472 0/1:324:119,205:119:4228:205:7316:-560.957,0,-283.17 1/1:201:0,201:0:0:201:7166:-644.997,-60.507,0 1/1:135:0,135:0:0:135:4812:-433.238,-40.6391,0 chr02 2460935 . CTTGTTGGTTTGTGC CTTGGTTTGTGC,CTTGTTGATTTTGTGC 30496.6 PASS AB=0.536585,0.448171;ABP=14.4503,25.9696;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1023,470;CIGAR=1M3D11M,7M1I1X7M;DP=1512;DPB=1336.47;DPRA=2.75,0.784277;EPP=2224.43,1023.6;EPPR=0;GTI=1;LEN=3,16;MEANALT=2.7,2.83333;MQM=59.8035,59.7766;MQMR=0;NS=21;NUMALT=2;ODDS=1.26619;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35966,16614;QR=0;RO=0;RPL=1023,470;RPP=2224.43,1023.6;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2224.43,1023.6;SAR=1023,470;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,21,15:0:0:21,15:740,530:-103.4,-43.1563,-36.8346,-60.2371,0,-55.7216 1/2:47:0,24,22:0:0:24,22:837,773:-130.709,-62.9077,-55.683,-67.7911,0,-61.1684 1/2:20:0,12,8:0:0:12,8:424,288:-58.3861,-23.8592,-20.2468,-34.8841,0,-32.4758 1/2:26:0,16,10:0:0:16,10:568,360:-76.0111,-29.7336,-24.9171,-46.6354,0,-43.6251 1/2:62:0,38,23:0:0:38,23:1309,810:-172.175,-65.8901,-54.451,-106.274,0,-99.3505 1/2:48:0,34,13:0:0:34,13:1176,446:-131.755,-36.1937,-25.9587,-95.5471,0,-91.6337 1/2:42:0,28,14:0:0:28,14:992,504:-122.287,-41.4803,-33.0515,-81.1646,0,-76.9502 2/2:27:0,0,27:0:0:0,27:0,964:-87.0761,-87.0761,-87.0761,-8.12781,-8.12781,0 1/1:61:0,61,0:0:0:61,0:2115,0:-190.614,-18.3628,0,-190.614,-18.3628,-190.614 1/1:213:0,210,1:0:0:210,1:7449,36:-670.023,-63.2163,0,-667.085,-60.2787,-666.784 1/1:180:0,178,0:0:0:178,0:6245,0:-561.678,-53.5833,0,-561.678,-53.5833,-561.678 1/2:246:0,136,108:0:0:136,108:4769,3730:-691.135,-303.061,-262.121,-388.11,0,-355.599 1/2:54:0,21,33:0:0:21,33:729,1184:-156.145,-96.8892,-90.5676,-59.607,0,-49.673 1/2:31:0,12,19:0:0:12,19:432,684:-91.4068,-56.1593,-52.5469,-35.6073,0,-29.8877 1/2:29:0,15,14:0:0:15,14:510,483:-80.9393,-39.5799,-35.0645,-41.7018,0,-37.4873 1/2:14:0,7,7:0:0:7,7:248,252:-41.1218,-20.9217,-18.8145,-20.557,0,-18.4498 1/2:28:0,15,13:0:0:15,13:536,466:-82.0651,-38.3644,-33.8489,-44.0585,0,-40.1451 1/2:265:0,135,122:0:0:135,122:4780,4348:-743.761,-354.421,-313.782,-389.351,0,-352.625 1/2:35:0,14,20:0:0:14,20:500,720:-99.509,-58.7477,-54.5333,-40.7599,0,-34.7393 1/1:23:0,22,1:0:0:22,1:759,36:-68.2669,-6.62266,0,-65.3289,-3.32542,-65.0278 1/1:24:0,24,0:0:0:24,0:848,0:-76.6384,-7.22472,0,-76.6384,-7.22472,-76.6384 chr02 2557457 . G A 11074.1 PASS AB=0.490826;ABP=4.12592;AC=17;AF=0.404762;AN=42;AO=831;CIGAR=1X;DP=1936;DPB=1936;DPRA=1.53201;EPP=1798.83;EPPR=2393.81;GTI=0;LEN=1;MEANALT=1;MQM=33.8171;MQMR=38.2036;NS=21;NUMALT=1;ODDS=4.50891;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29690;QR=39433;RO=1105;RPL=1;RPP=1798.83;RPPR=2393.81;RPR=830;RUN=1;SAF=831;SAP=1807.5;SAR=0;SRF=1105;SRP=2402.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:51,26:51:1813:26:928:-52.5873,0,-131.071 0/1:51:27,24:27:960:24:856:-56.378,0,-67.9768 0/1:89:57,32:57:2025:32:1141:-64.5614,0,-148.129 0/1:138:60,78:60:2148:78:2804:-184.173,0,-143.269 0/1:229:104,125:104:3728:125:4465:-289.981,0,-252.109 0/1:71:42,29:42:1493:29:1040:-62.4975,0,-107.977 0/1:157:74,83:74:2644:83:2957:-200.268,0,-178.406 1/1:82:0,82:0:0:82:2932:-240.884,-24.6845,0 0/0:160:160,0:160:5672:0:0:0,-48.1648,-484.526 0/0:9:9,0:9:320:0:0:0,-2.70927,-28.0368 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.7816 0/1:47:16,31:16:557:31:1097:-76.8467,0,-34.572 0/1:79:42,37:42:1512:37:1309:-83.2163,0,-103.755 0/1:80:33,47:33:1184:47:1688:-111.015,0,-78.0757 0/1:152:89,63:89:3188:63:2248:-137.401,0,-225.787 0/1:75:48,27:48:1689:27:953:-54.4942,0,-121.989 0/1:61:26,35:26:936:35:1256:-83.8452,0,-62.4528 0/1:156:66,90:66:2368:90:3228:-153.545,0,-120.236 0/1:64:42,22:42:1508:22:788:-29.6141,0,-87.5241 0/0:121:121,0:121:4320:0:0:0,-36.4246,-372.71 0/0:34:34,0:34:1224:0:0:0,-10.235,-89.1305 chr02 2557475 . C T 20116 PASS AB=0.503744;ABP=3.18916;AC=25;AF=0.595238;AN=42;AO=1057;CIGAR=1X;DP=1865;DPB=1865;DPRA=1.13038;EPP=1511.84;EPPR=987.909;GTI=0;LEN=1;MEANALT=1.05;MQM=38.1779;MQMR=33.7571;NS=21;NUMALT=1;ODDS=3.92125;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37514;QR=28843;RO=807;RPL=957;RPP=1511.84;RPPR=987.909;RPR=100;RUN=1;SAF=1057;SAP=2298.26;SAR=0;SRF=807;SRP=1755.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:25,49:25:896:49:1722:-124.339,0,-50.7699 0/1:51:24,27:24:860:27:949:-67.023,0,-56.618 0/1:86:31,54:31:1108:54:1902:-138.176,0,-62.2809 0/1:130:73,57:73:2620:57:2014:-134.304,0,-172.215 0/1:218:120,98:120:4299:98:3512:-236.893,0,-279.68 0/1:71:29,42:29:1040:42:1500:-108.63,0,-62.4975 0/1:150:81,69:81:2888:69:2468:-165.314,0,-196.843 0/0:79:79,0:79:2815:0:0:0,-23.7814,-229.06 1/1:156:0,156:0:0:156:5557:-475.03,-46.9607,0 1/1:9:0,9:0:0:9:320:-28.0368,-2.70927,0 1/1:4:0,4:0:0:4:144:-12.7816,-1.20412,0 0/1:45:31,14:31:1096:14:496:-29.8785,0,-77.6808 0/1:79:37,42:37:1324:42:1466:-100.852,0,-84.2661 0/1:78:47,31:47:1658:31:1084:-70.2431,0,-110.103 0/1:146:63,83:63:2264:83:2972:-210.51,0,-140.01 0/1:73:26,47:26:932:47:1663:-119.932,0,-53.2342 0/1:54:31,23:31:1112:23:824:-55.1139,0,-74.4155 0/1:152:88,64:88:3147:64:2277:-115.551,0,-150.028 0/1:62:22,40:22:784:40:1408:-81.8779,0,-30.1748 1/1:114:0,114:0:0:114:4046:-349.241,-34.3174,0 1/1:34:0,34:0:0:34:1190:-87.3112,-10.235,0 chr02 2557505 . A G 10569.8 PASS AB=0.490958;ABP=4.07058;AC=17;AF=0.404762;AN=42;AO=813;CIGAR=1X;DP=1889;DPB=1889;DPRA=1.55558;EPP=1768.42;EPPR=2337.34;GTI=0;LEN=1;MEANALT=1.0625;MQM=33.7442;MQMR=38.0828;NS=21;NUMALT=1;ODDS=4.3131;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28670;QR=38262;RO=1075;RPL=813;RPP=1768.42;RPPR=2337.34;RPR=0;RUN=1;SAF=813;SAP=1768.42;SAR=0;SRF=1075;SRP=2337.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:50,26:50:1763:26:911:-51.9186,0,-127.722 0/1:51:27,24:27:968:24:864:-56.858,0,-68.5521 0/1:85:54,31:54:1911:31:1108:-62.4112,0,-138.91 0/1:134:57,77:57:2040:77:2735:-180.615,0,-135.176 0/1:222:102,120:102:3621:120:4248:-276.388,0,-245.084 0/1:70:41,29:41:1463:29:1028:-62.0792,0,-105.696 0/1:156:75,80:75:2663:80:2813:-189.3,0,-179.959 1/1:80:0,80:0:0:80:2806:-229.494,-24.0824,0 0/0:158:158,0:158:5621:0:0:0,-47.5627,-478.665 0/0:9:9,0:9:324:0:0:0,-2.70927,-28.3268 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.4871 0/1:44:14,30:14:496:30:1068:-75.4911,0,-29.9885 0/1:79:42,37:42:1508:37:1268:-80.8998,0,-103.682 0/1:75:29,46:29:1016:46:1636:-108.967,0,-65.215 0/1:152:90,62:90:3219:62:2182:-132.383,0,-228.514 0/1:73:46,27:46:1643:27:951:-55.2025,0,-118.679 0/1:59:25,34:25:896:34:1207:-80.7428,0,-59.5758 0/1:153:65,88:65:2328:88:3078:-148.419,0,-118.512 0/1:64:42,22:42:1483:22:767:-29.3781,0,-86.9458 0/0:112:112,0:112:3991:0:0:0,-33.7154,-343.066 0/0:33:33,0:33:1168:0:0:0,-9.93399,-85.7428 chr02 2557637 . T A 6083.74 PASS AB=0.441065;ABP=18.8794;AC=26;AF=0.619048;AN=42;AO=386;CIGAR=1X;DP=708;DPB=708;DPRA=1.425;EPP=841.199;EPPR=11.2971;GTI=2;LEN=1;MEANALT=1.05;MQM=36.6813;MQMR=42.0623;NS=21;NUMALT=1;ODDS=2.67596;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13779;QR=11425;RO=321;RPL=386;RPP=841.199;RPPR=700.053;RPR=0;RUN=1;SAF=0;SAP=841.199;SAR=386;SRF=178;SRP=11.2971;SRR=143;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:17,14:17:590:14:504:-33.1641,0,-42.597 0/1:8:7,1:7:252:1:36:-0.97936,0,-19.7005 0/1:37:14,23:14:495:23:816:-56.6072,0,-32.5003 0/1:18:11,7:11:392:7:252:-16.2273,0,-29.0686 0/1:45:25,20:25:896:20:720:-46.8926,0,-64.7497 1/1:22:2,20:2:72:20:716:-52.8193,-0.0591278,0 0/1:44:15,29:15:540:29:1040:-74.7891,0,-32.7188 0/0:24:24,0:24:860:0:0:0,-7.22472,-75.4592 1/1:49:0,49:0:0:49:1756:-145.552,-14.7505,0 1/1:8:0,8:0:0:8:284:-23.1633,-2.40824,0 1/1:5:0,5:0:0:5:176:-15.1908,-1.50515,0 0/1:31:16,15:16:576:15:540:-35.9208,0,-41.1427 0/1:17:13,4:13:464:4:140:-7.01773,0,-35.5138 0/1:39:12,27:12:428:27:959:-68.2215,0,-26.1941 0/1:43:22,21:22:775:21:752:-48.2682,0,-55.3591 0/1:27:23,4:23:816:4:144:-3.0464,0,-62.6784 0/1:23:18,5:18:636:5:180:-8.29518,0,-49.1361 0/1:108:66,42:66:2368:42:1487:-88.6645,0,-173.726 0/1:55:35,20:35:1229:20:707:-43.0933,0,-90.0992 1/1:41:1,40:1:36:40:1426:-116.296,-8.79371,0 1/1:33:0,32:0:0:32:1144:-95.7242,-9.63296,0 chr02 2557936 . A G 42443.8 PASS AB=0.493122;ABP=3.99602;AC=25;AF=0.595238;AN=42;AO=1721;CIGAR=1X;DP=3129;DPB=3129;DPRA=0;EPP=3.02166;EPPR=15.7907;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9518;MQMR=59.9673;NS=21;NUMALT=1;ODDS=1.75104;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61105;QR=50215;RO=1407;RPL=12;RPP=3636.61;RPPR=2989.18;RPR=1709;RUN=1;SAF=871;SAP=3.56673;SAR=850;SRF=757;SRP=20.6799;SRR=650;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:149:65,84:65:2324:84:2985:-224.028,0,-163.94 0/1:125:72,53:72:2580:53:1870:-130.943,0,-194.82 0/1:103:45,58:45:1601:58:2048:-153.537,0,-113.372 0/1:190:109,81:109:3858:81:2839:-198.553,0,-290.22 0/1:276:135,141:135:4797:141:4966:-364,0,-348.804 0/1:156:86,70:86:3057:70:2508:-179.012,0,-228.398 0/1:277:149,128:149:5344:128:4561:-327.271,0,-397.707 0/0:189:188,1:188:6722:1:36:0,-53.2964,-601.454 1/1:283:1,282:1:36:282:10034:-899.394,-81.5932,0 1/1:26:0,26:0:0:26:924:-83.4777,-7.82678,0 1/1:6:0,6:0:0:6:208:-19.0591,-1.80618,0 0/1:56:23,33:23:824:33:1176:-89.2901,0,-57.6256 0/1:156:76,80:76:2715:80:2845:-209.325,0,-197.633 0/1:141:71,70:71:2503:70:2451:-178.398,0,-183.031 0/1:259:122,137:122:4376:137:4871:-360.577,0,-316.046 0/1:128:85,43:85:3033:43:1536:-100.001,0,-234.667 0/1:98:45,53:45:1601:53:1870:-139.074,0,-114.877 0/1:163:87,76:87:3120:76:2711:-195.166,0,-231.958 0/1:122:46,76:46:1652:76:2719:-208.227,0,-112.243 1/1:140:2,138:2:72:138:4907:-434.945,-35.3075,0 1/1:86:0,85:0:0:85:3040:-273.469,-25.5876,0 chr02 2557944 . T C 41128.1 PASS AB=0.494113;ABP=3.72621;AC=25;AF=0.595238;AN=42;AO=1712;CIGAR=1X;DP=3101;DPB=3101;DPRA=0;EPP=3720.57;EPPR=3010.51;GTI=1;LEN=1;MEANALT=1;MQM=59.9363;MQMR=59.9878;NS=21;NUMALT=1;ODDS=1.82356;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59906;QR=49400;RO=1389;RPL=859;RPP=3.05596;RPPR=14.8432;RPR=853;RUN=1;SAF=859;SAP=3.05596;SAR=853;SRF=739;SRP=15.3935;SRR=650;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:152:65,87:65:2315:87:3016:-225.911,0,-162.854 0/1:124:71,53:71:2530:53:1864:-130.665,0,-190.623 0/1:102:45,57:45:1591:57:2028:-151.46,0,-112.774 0/1:185:108,77:108:3816:77:2679:-185.666,0,-287.949 0/1:274:134,140:134:4800:140:4889:-357.68,0,-349.673 0/1:156:85,71:85:3030:71:2486:-177.031,0,-225.969 0/1:282:149,133:149:5288:133:4631:-331.964,0,-391.168 0/0:185:183,2:183:6556:2:72:0,-48.8538,-583.285 1/1:286:2,284:2:72:284:9997:-892.836,-79.2579,0 1/1:28:0,28:0:0:28:968:-87.4287,-8.42884,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:52:21,31:21:741:31:1087:-82.4848,0,-51.358 0/1:151:74,77:74:2609:77:2695:-197.338,0,-189.603 0/1:140:70,70:70:2461:70:2428:-176.631,0,-179.555 0/1:255:120,135:120:4284:135:4758:-351.62,0,-308.974 0/1:128:85,43:85:3039:43:1514:-98.0198,0,-235.208 0/1:96:45,51:45:1589:51:1811:-134.372,0,-114.399 0/1:161:86,75:86:3055:75:2638:-189.2,0,-226.715 0/1:120:45,75:45:1588:75:2577:-196.054,0,-107.084 1/1:129:1,128:1:36:128:4489:-400.584,-35.2346,0 1/1:90:0,90:0:0:90:3103:-279.5,-27.0927,0 chr02 2558304 . C T 29291 PASS AB=0.455936;ABP=44.9202;AC=25;AF=0.595238;AN=42;AO=1611;CIGAR=1X;DP=3091;DPB=3091;DPRA=0;EPP=3501.25;EPPR=3210.28;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.5121;MQMR=59.9072;NS=21;NUMALT=1;ODDS=4.69737;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57562;QR=52870;RO=1477;RPL=0;RPP=3501.25;RPPR=3210.28;RPR=1611;RUN=1;SAF=1611;SAP=3501.25;SAR=0;SRF=1477;SRP=3210.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:196:121,75:121:4356:75:2692:-183.508,0,-333.21 0/1:126:86,40:86:3069:40:1423:-90.0861,0,-238.508 0/1:138:74,64:74:2645:64:2282:-163.959,0,-196.753 0/1:354:188,164:188:6744:164:5865:-421.54,0,-500.858 0/1:314:177,136:177:6335:136:4887:-345.158,0,-475.028 0/1:107:61,46:61:2192:46:1652:-116.731,0,-165.319 0/1:222:118,104:118:4231:104:3719:-268.037,0,-314.102 0/0:126:125,1:125:4479:1:36:0,-34.3366,-399.685 1/1:242:0,242:0:0:242:8639:-777.434,-72.8493,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:18:0,18:0:0:18:648:-58.4937,-5.41854,0 0/1:47:22,25:22:788:25:900:-67.1664,0,-57.0964 0/1:198:120,78:120:4273:78:2787:-191.294,0,-325.144 0/1:121:71,50:71:2544:50:1771:-122.763,0,-192.414 0/1:158:87,71:87:3115:71:2552:-182.351,0,-232.956 0/1:207:93,114:93:3300:114:4075:-304.555,0,-234.908 0/1:119:48,71:48:1720:71:2520:-191.204,0,-119.263 0/1:83:43,40:43:1544:40:1434:-104.363,0,-114.268 0/1:95:40,55:40:1427:55:1960:-147.92,0,-100.129 1/1:143:3,140:3:108:140:4967:-436.41,-32.9721,0 1/1:63:0,63:0:0:63:2249:-202.655,-18.9649,0 chr02 2558412 . GAG AAG,AAA 64500.9 PASS AB=0.552849,0.443848;ABP=61.7674,69.3415;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1927,1218;CIGAR=1X2M,1X1M1X;DP=3153;DPB=3153.33;DPRA=1.06809,1.23841;EPP=4187.44,2647.86;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2.1,2.22222;MQM=59.6092,56.7849;MQMR=60;NS=21;NUMALT=2;ODDS=27.149;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=68917,42891;QR=36;RO=1;RPL=1927,1218;RPP=4187.44,2647.86;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4187.44,2647.86;SAR=1927,1218;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:209:0,115,94:0:0:115,94:4105,3324:-605.117,-270.485,-235.866,-334.987,0,-306.69 1/2:101:0,50,48:0:0:50,48:1788,1712:-284.453,-138.661,-123.61,-145.788,0,-131.339 1/2:185:0,105,80:0:0:105,80:3761,2803:-534.814,-228.127,-196.519,-307.041,0,-282.959 1/2:139:0,68,70:0:0:68,70:2432,2494:-401.522,-203.217,-182.747,-198.448,0,-177.376 1/2:416:0,207,208:0:0:207,208:7424,7302:-1197.26,-591.766,-529.453,-605.487,0,-542.873 1/2:130:0,58,72:0:0:58,72:2061,2496:-370.669,-202.768,-185.308,-168.252,0,-146.578 1/2:185:0,107,78:0:0:107,78:3844,2767:-538.784,-225.233,-193.022,-313.908,0,-290.427 2/2:141:0,0,141:0:0:0,141:0,5014:-450.609,-450.609,-450.609,-42.4452,-42.4452,0 1/1:289:0,289,0:0:0:289,0:10365,0:-932.538,-86.9977,0,-932.538,-86.9977,-932.538 1/1:50:0,49,1:0:0:49,1:1760,36:-158.307,-14.7505,0,-155.371,-11.4549,-155.07 1/1:20:0,20,0:0:0:20,0:720,0:-65.1288,-6.0206,0,-65.1288,-6.0206,-65.1288 1/2:62:0,45,17:0:0:45,17:1616,593:-180.324,-48.5038,-34.9574,-132.171,0,-127.053 1/2:151:0,83,68:0:0:83,68:2952,2378:-433.816,-193.552,-168.567,-240.616,0,-220.146 1/2:119:0,69,50:0:0:69,50:2466,1765:-344.819,-143.949,-123.178,-201.224,0,-186.173 1/2:273:0,146,127:0:0:146,127:5198,4498:-789.754,-366.116,-322.166,-423.993,0,-385.762 1/2:83:0,49,32:0:0:49,32:1744,1110:-232.197,-90.174,-75.4235,-142.014,0,-132.381 1/2:84:0,47,37:0:0:47,37:1680,1314:-244.195,-107.221,-93.0725,-137.33,0,-126.192 1/2:170:0,104,66:0:0:104,66:3720,2278:-487.926,-184.918,-153.611,-303.298,0,-283.43 1/2:115:1,86,28:1:36:86,28:3067,971:-325.665,-75.9636,-53.0129,-247.054,0,-241.563 1/1:166:0,165,1:0:0:165,1:5882,36:-529.099,-49.67,0,-526.165,-46.3764,-525.864 1/1:65:0,65,0:0:0:65,0:2332,0:-209.849,-19.567,0,-209.849,-19.567,-209.849 chr02 2560491 . GAAAACT GAAACT 47810.6 PASS AB=0.457827;ABP=51.3627;AC=25;AF=0.595238;AN=42;AO=2016;CIGAR=1M1D5M;DP=3926;DPB=3637.29;DPRA=0.902913;EPP=4372.02;EPPR=4115.78;GTI=1;LEN=1;MEANALT=1.6;MQM=55.2624;MQMR=59.8214;NS=21;NUMALT=1;ODDS=3.29375;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71294;QR=66687;RO=1898;RPL=1140;RPP=78.0812;RPPR=7.69647;RPR=876;RUN=1;SAF=1139;SAP=76.9481;SAR=877;SRF=916;SRP=7.99393;SRR=982;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:310:164,145:164:5702:145:5105:-364.122,0,-419.872 0/1:151:108,43:108:3819:43:1535:-92.9868,0,-298.446 0/1:173:99,74:99:3502:74:2582:-179.993,0,-263.311 0/1:281:151,129:151:5288:129:4557:-323.464,0,-391.379 0/1:357:185,170:185:6534:170:6067:-436.748,0,-480.885 0/1:163:123,40:123:4316:40:1409:-78.0373,0,-339.501 0/1:249:155,92:155:5450:92:3228:-216.07,0,-415.862 0/0:206:206,0:206:7236:0:0:0,-62.0122,-651.302 1/1:320:0,320:0:0:320:11335:-1018.41,-96.3296,0 1/1:23:0,22:0:0:22:782:-69.9295,-6.62266,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:76:43,33:43:1527:33:1176:-82.8445,0,-114.845 0/1:292:145,146:145:5064:146:5163:-375.506,0,-367.955 0/1:221:121,100:121:4205:100:3521:-249.729,0,-312.096 0/1:296:148,147:148:5215:147:5186:-376.83,0,-380.263 0/1:147:68,79:68:2415:79:2810:-208.387,0,-173.357 0/1:150:78,72:78:2755:72:2525:-181.919,0,-203.036 0/1:123:55,67:55:1942:67:2366:-175.587,0,-137.971 0/1:141:44,96:44:1546:96:3415:-264.026,0,-96.926 1/1:183:2,180:2:68:180:6393:-566.424,-48.6829,0 1/1:57:3,54:3:103:54:1887:-160.496,-7.54911,0 chr02 2570942 . A G 21134 PASS AB=0.444505;ABP=52.4181;AC=22;AF=0.52381;AN=42;AO=1132;CIGAR=1X;DP=2325;DPB=2325;DPRA=1.25618;EPP=2332.56;EPPR=2593.58;GTI=2;LEN=1;MEANALT=1;MQM=59.7836;MQMR=60;NS=21;NUMALT=1;ODDS=8.57371;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40456;QR=42114;RO=1193;RPL=15;RPP=2332.56;RPPR=2593.58;RPR=1117;RUN=1;SAF=1132;SAP=2461.12;SAR=0;SRF=1193;SRP=2593.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:72,20:72:2523:20:708:-36.3508,0,-199.624 0/1:64:45,19:45:1604:19:684:-42.5545,0,-125.384 0/0:77:75,2:75:2630:2:72:0,-16.3426,-230.11 0/1:63:46,17:46:1632:17:612:-36.4485,0,-128.204 0/1:171:133,38:133:4680:38:1360:-71.1927,0,-369.886 0/1:111:91,20:91:3237:20:720:-31.7144,0,-258.137 0/1:121:108,13:108:3857:13:460:-5.30892,0,-310.9 0/0:89:89,0:89:3153:0:0:0,-26.7917,-283.996 0/1:130:110,20:110:3902:20:720:-25.9949,0,-312.239 0/1:45:7,38:7:240:38:1364:-109.508,0,-8.38831 1/1:188:0,188:0:0:188:6695:-602.368,-56.5936,0 0/1:207:21,186:21:729:186:6631:-534.321,0,-3.61548 0/1:126:82,44:82:2890:44:1580:-104.562,0,-222.406 0/1:79:66,13:66:2356:13:464:-18.3161,0,-188.518 0/1:92:72,20:72:2523:20:716:-37.073,0,-199.624 0/1:84:69,15:69:2415:15:540:-23.65,0,-192.316 0/1:23:17,6:17:604:6:212:-12.4995,0,-47.7669 0/1:265:53,212:53:1868:212:7573:-601.776,0,-88.6237 0/1:174:34,140:34:1163:140:5024:-398.651,0,-52.5882 1/1:46:2,44:2:72:44:1565:-134.29,-7.01066,0 1/1:78:1,77:1:36:77:2756:-244.679,-19.8821,0 chr02 2578712 . G T,C 35011.9 PASS AB=0.593935,0.405405;ABP=119.278,120.915;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1023,694;CIGAR=1X,1X;DP=1718;DPB=1718;DPRA=1.03734,2.18033;EPP=2224.43,1510.01;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.9,2;MQM=59.9883,59.9942;MQMR=0;NS=21;NUMALT=2;ODDS=3.93977;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36639,24888;QR=0;RO=0;RPL=0,0;RPP=2224.43,1510.01;RPPR=0;RPR=1023,694;RUN=1,1;SAF=1023,694;SAP=2224.43,1510.01;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:99:0,62,36:0:0:62,36:2228,1288:-286.788,-105.027,-86.3629,-181.76,0,-170.923 1/2:51:0,40,11:0:0:40,11:1417,396:-148.097,-32.6714,-20.6302,-115.784,0,-112.473 1/2:56:0,24,32:0:0:24,32:864,1152:-164.855,-94.3572,-87.1325,-70.8578,0,-61.2249 1/2:55:0,26,29:0:0:26,29:932,1044:-161.558,-85.5449,-77.7182,-76.3721,0,-67.6422 1/2:198:0,130,68:0:0:130,68:4660,2432:-578.735,-198.666,-159.532,-380.427,0,-359.957 1/2:112:0,81,31:0:0:81,31:2889,1108:-326.204,-90.6991,-66.3156,-235.862,0,-226.53 1/2:114:0,59,55:0:0:59,55:2120,1968:-333.788,-160.838,-143.078,-173.308,0,-156.751 2/2:79:0,0,79:0:0:0,79:0,2824:-254.399,-254.399,-254.399,-23.7814,-23.7814,0 1/2:183:0,99,84:0:0:99,84:3560,3012:-536.47,-246.024,-216.222,-290.805,0,-265.518 1/2:6:0,4,2:0:0:4,2:140,68:-17.2529,-5.85565,-4.65153,-11.7405,0,-11.1384 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:31:0,14,17:0:0:14,17:496,608:-90.3387,-49.9345,-45.7201,-40.7598,0,-35.6423 1/2:141:0,70,71:0:0:70,71:2520,2552:-414.176,-208.557,-187.485,-205.979,0,-184.606 1/2:100:0,64,36:0:0:64,36:2296,1292:-293.02,-105.744,-86.4784,-187.635,0,-176.798 1/2:137:0,72,65:0:0:72,65:2592,2340:-402.786,-191.292,-169.618,-211.854,0,-192.287 1/2:47:0,34,13:0:0:34,13:1224,464:-138.059,-38.1841,-27.9491,-100.232,0,-96.3186 1/2:63:0,44,19:0:0:44,19:1574,684:-184.518,-56.1708,-42.9254,-128.706,0,-122.986 1/2:47:0,23,24:0:0:23,24:809,864:-136.707,-70.8578,-63.9342,-66.2046,0,-58.9799 1/2:77:0,55,22:0:0:55,22:1953,792:-224.105,-64.983,-48.4264,-159.48,0,-152.857 1/1:64:0,64,0:0:0:64,0:2285,0:-205.91,-19.2659,0,-205.91,-19.2659,-205.91 1/1:48:0,48,0:0:0:48,0:1720,0:-155.086,-14.4494,0,-155.086,-14.4494,-155.086 chr02 2578814 . C T 6465.46 PASS AB=0.436991;ABP=58.0132;AC=19;AF=0.452381;AN=42;AO=817;CIGAR=1X;DP=1855;DPB=1855;DPRA=2.56957;EPP=1777.1;EPPR=2252.66;GTI=1;LEN=1;MEANALT=1.10526;MQM=26.3182;MQMR=58.638;NS=21;NUMALT=1;ODDS=1.26842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29220;QR=36886;RO=1036;RPL=0;RPP=1777.1;RPPR=2252.66;RPR=817;RUN=1;SAF=0;SAP=1777.1;SAR=817;SRF=0;SRP=2252.66;SRR=1036;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:24:11,13:11:396:13:464:-24.9884,0,-28.7518 0/1:75:42,33:42:1485:33:1184:-39.5853,0,-111.164 0/1:149:83,66:83:2953:66:2361:-116.819,0,-221.113 0/1:155:77,78:77:2747:78:2785:-143.764,0,-200.734 0/1:128:76,52:76:2724:52:1856:-90.2732,0,-206.082 0/1:27:18,9:18:644:9:324:-8.98219,0,-50.134 0/1:186:100,86:100:3554:86:3084:-105.666,0,-262.486 1/1:119:0,119:0:0:119:4242:-268.558,-35.8226,0 0/1:71:42,29:42:1500:29:1031:-53.0991,0,-113.911 0/1:9:5,4:5:165:4:131:-6.5101,0,-12.4643 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2374 0/1:32:5,27:5:180:27:964:-53.021,0,-6.9191 0/1:131:81,49:81:2904:49:1751:-80.3436,0,-222.063 0/1:102:67,35:67:2395:35:1256:-54.335,0,-185.087 0/1:142:91,51:91:3227:51:1836:-82.9589,0,-247.532 0/1:63:37,26:37:1315:26:936:-48.1855,0,-99.6766 0/1:48:28,20:28:1000:20:720:-37.7792,0,-75.8483 0/1:182:82,100:82:2904:100:3579:-173.87,0,-206.737 0/1:71:52,19:52:1860:19:680:-25.6157,0,-146.267 0/0:68:66,1:66:2342:1:36:0,-17.9176,-208.385 0/0:69:69,0:69:2447:0:0:0,-20.7711,-219.798 chr02 2592841 . G A 22541.3 PASS AB=0.547358;ABP=42.0881;AC=19;AF=0.452381;AN=42;AO=1253;CIGAR=1X;DP=2287;DPB=2287;DPRA=2.85847;EPP=2723.87;EPPR=2205.02;GTI=2;LEN=1;MEANALT=1.22222;MQM=59.1923;MQMR=59.6146;NS=21;NUMALT=1;ODDS=5.19328;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44807;QR=36759;RO=1030;RPL=0;RPP=2723.87;RPPR=2205.02;RPR=1253;RUN=1;SAF=1253;SAP=2723.87;SAR=0;SRF=1030;SRP=2239.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:59,81:59:2109:81:2893:-218.371,0,-147.928 0/1:95:40,55:40:1432:55:1965:-148.383,0,-100.539 0/1:106:57,48:57:2040:48:1720:-123.104,0,-151.89 0/1:143:59,83:59:2079:83:2984:-225.589,0,-144.177 0/1:240:129,110:129:4628:110:3914:-280.076,0,-344.356 0/1:130:57,73:57:2040:73:2605:-195.319,0,-144.595 0/1:135:77,58:77:2744:58:2049:-144.005,0,-206.553 1/1:155:0,155:0:0:155:5532:-497.741,-46.6597,0 0/1:224:99,125:99:3541:125:4480:-335.728,0,-251.46 0/1:9:3,6:3:108:6:212:-16.7155,0,-7.3659 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:33:8,25:8:288:25:896:-70.6525,0,-16.3334 0/1:149:88,61:88:3140:61:2188:-152.254,0,-237.787 0/1:135:58,77:58:2080:77:2749:-206.956,0,-146.815 0/1:178:38,140:38:1355:140:5028:-396.468,0,-68.6589 0/1:67:43,23:43:1540:23:824:-54.2557,0,-118.665 0/1:104:39,65:39:1396:65:2336:-179.162,0,-94.6311 0/1:64:25,39:25:896:39:1396:-106.554,0,-61.6944 0/1:54:25,29:25:867:29:1036:-77.2704,0,-62.0821 0/0:74:74,0:74:2629:0:0:0,-22.2762,-236.75 0/0:48:48,0:48:1703:0:0:0,-14.4494,-153.544 chr02 2592972 . AGAG AGAT,GGAT 39085 PASS AB=0.490823,0.505033;ABP=4.24582,3.38185;AC=23,19;AF=0.547619,0.452381;AN=42;AO=977,954;CIGAR=3M1X,1X2M1X;DP=1939;DPB=1939;DPRA=0.909901,2.00224;EPP=2124.54,2074.59;EPPR=0;GTI=1;LEN=1,4;MEANALT=2.25,2.33333;MQM=59.8659,59.4591;MQMR=0;NS=21;NUMALT=2;ODDS=1.35566;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34996,33805;QR=0;RO=0;RPL=977,954;RPP=2124.54,2074.59;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2124.54,2074.59;SAR=977,954;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:79:0,19,60:0:0:19,60:650,2132:-226.678,-173.926,-168.206,-53.0968,0,-35.035 1/2:68:0,46,21:0:0:46,21:1641,753:-195.257,-61.4834,-47.636,-133.847,0,-127.526 1/2:109:0,44,65:0:0:44,65:1584,2299:-316.809,-187.56,-174.315,-129.606,0,-110.039 1/2:115:0,55,59:0:0:55,59:1980,2106:-333.255,-171.695,-155.139,-161.568,0,-143.807 1/2:182:0,100,81:0:0:100,81:3573,2862:-524.417,-233.104,-203.001,-291.417,0,-267.033 1/2:86:0,40,46:0:0:40,46:1440,1616:-249.352,-131.851,-119.81,-117.857,0,-104.009 1/2:163:0,78,85:0:0:78,85:2770,3021:-472.222,-246.523,-223.043,-226.054,0,-200.467 2/2:101:0,0,101:0:0:0,101:0,3563:-320.814,-320.814,-320.814,-30.404,-30.404,0 1/2:173:0,90,82:0:0:90,82:3232,2894:-499.272,-235.743,-208.651,-263.632,0,-238.948 1/2:13:0,8,5:0:0:8,5:288,180:-38.5463,-15.0469,-12.6387,-23.8592,0,-22.354 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:19:0,4,15:0:0:4,15:144,538:-55.9903,-44.2404,-43.0363,-12.1095,0,-7.59405 1/2:146:0,73,73:0:0:73,73:2628,2575:-424.432,-209.997,-188.022,-214.791,0,-192.816 1/2:82:0,36,45:0:0:36,45:1288,1579:-233.248,-128.215,-117.378,-105.066,0,-91.5192 1/2:130:0,58,72:0:0:58,72:2073,2555:-377.496,-208.498,-191.038,-169.354,0,-147.68 1/2:88:0,43,45:0:0:43,45:1548,1605:-257.461,-131.155,-118.211,-126.665,0,-113.118 1/2:84:0,48,35:0:0:48,35:1709,1244:-240.376,-101.144,-86.6941,-139.266,0,-128.73 1/2:89:0,44,45:0:0:44,45:1584,1608:-260.692,-131.463,-118.217,-129.587,0,-116.041 1/2:63:0,43,19:0:0:43,19:1548,675:-181.379,-55.0649,-42.1206,-126.377,0,-120.658 1/1:107:0,107,0:0:0:107,0:3840,0:-345.795,-32.2102,0,-345.795,-32.2102,-345.795 1/1:35:0,34,0:0:0:34,0:1224,0:-110.107,-10.235,0,-110.107,-10.235,-110.107 chr02 2639988 . G A 9888.57 PASS AB=0.436782;ABP=45.2916;AC=23;AF=0.547619;AN=42;AO=619;CIGAR=1X;DP=1419;DPB=1419;DPRA=0.589189;EPP=1347.15;EPPR=1738.02;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9645;MQMR=60;NS=21;NUMALT=1;ODDS=4.60006;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21791;QR=28496;RO=799;RPL=0;RPP=1347.15;RPPR=1738.02;RPR=619;RUN=1;SAF=619;SAP=1347.15;SAR=0;SRF=799;SRP=1738.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:124:75,49:75:2673:49:1725:-118.205,0,-203.486 0/1:51:18,33:18:644:33:1153:-88.7217,0,-42.9381 0/1:25:9,16:9:324:16:549:-42.2067,0,-21.9801 0/1:45:24,21:24:864:21:710:-50.6657,0,-64.5362 0/1:140:80,60:80:2845:60:2094:-146.583,0,-214.143 0/1:37:21,16:21:744:16:568:-40.3138,0,-56.1462 0/1:114:76,38:76:2713:38:1325:-85.2302,0,-210.095 0/0:111:111,0:111:3938:0:0:0,-33.4143,-354.612 0/1:137:81,55:81:2881:55:1956:-135.016,0,-218.226 0/1:29:17,12:17:608:12:432:-30.4913,0,-46.3222 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:16:7,9:7:237:9:305:-22.9607,0,-16.8426 0/1:86:50,36:50:1796:36:1271:-88.8042,0,-136.034 0/1:44:24,20:24:860:20:712:-51.1613,0,-64.4765 0/1:145:85,60:85:3052:60:2094:-145.078,0,-231.259 0/1:16:9,7:9:320:7:252:-18.2125,0,-24.3259 0/1:35:27,8:27:957:8:284:-15.3673,0,-75.9078 0/1:121:67,54:67:2396:54:1921:-136.741,0,-179.473 0/1:53:15,38:15:536:38:1356:-106.386,0,-32.6202 1/1:53:2,51:2:72:51:1812:-156.395,-9.11787,0 1/1:32:1,31:1:36:31:1096:-95.3504,-6.03469,0 chr02 2697474 . AC GT,AT 62091.6 PASS AB=0.536408,0.461165;ABP=36.2149,40.7897;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1771,1460;CIGAR=2X,1M1X;DP=3239;DPB=3239;DPRA=1.2252,5.77314;EPP=3848.69,3173.36;EPPR=13.8677;GTI=0;LEN=2,1;MEANALT=2.05,2.05263;MQM=40.3761,47.1842;MQMR=60;NS=21;NUMALT=2;ODDS=16.8624;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62531,52267;QR=176;RO=5;RPL=1771,1460;RPP=3848.69,3173.36;RPPR=13.8677;RPR=0,0;RUN=1,1;SAF=1771,1460;SAP=3848.69,3173.36;SAR=0,0;SRF=5;SRP=13.8677;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:210:0,111,99:0:0:111,99:3968,3536:-597.517,-286.966,-253.551,-310.901,0,-281.099 1/2:176:0,88,88:0:0:88,88:3070,3155:-488.359,-254.957,-228.466,-233.744,0,-207.253 1/2:221:0,107,114:0:0:107,114:3765,4100:-626.359,-331.211,-299,-295.496,0,-261.179 1/2:160:0,93,67:0:0:93,67:3295,2377:-451.174,-192.831,-164.835,-258.692,0,-238.523 1/2:292:1,145,146:1:36:145,146:5104,5244:-822.795,-422.307,-381.595,-397.841,0,-356.828 1/2:162:0,108,54:0:0:108,54:3813,1944:-443.71,-157.486,-124.975,-286.571,0,-270.315 1/2:167:2,97,68:2:70:97,68:3421,2422:-448.138,-189.788,-166.284,-253.25,0,-238.476 2/2:127:0,0,127:0:0:0,127:0,4536:-404.3,-404.3,-404.3,-38.2308,-38.2308,0 1/2:312:0,151,161:0:0:151,161:5350,5752:-874.409,-450.601,-405.145,-424.154,0,-375.688 1/2:26:0,10,16:0:0:10,16:347,576:-74.1626,-47.0756,-44.0653,-27.4304,0,-22.614 1/1:11:0,11,0:0:0:11,0:383,0:-32.9943,-3.31133,0,-32.9943,-3.31133,-32.9943 1/2:65:0,25,40:0:0:25,40:881,1436:-185.034,-116.481,-108.955,-68.8983,0,-56.8571 1/2:176:0,87,89:0:0:87,89:3103,3186:-500.314,-258.199,-232.01,-242.464,0,-215.672 1/2:182:0,103,79:0:0:103,79:3651,2827:-513.614,-228.833,-197.827,-285.129,0,-261.348 1/2:317:0,174,143:0:0:174,143:6155,5121:-890.492,-409.58,-357.2,-481.259,0,-438.211 1/2:149:0,94,55:0:0:94,55:3348,1972:-422.065,-155.752,-127.455,-266.66,0,-250.104 1/2:123:0,78,44:0:0:78,44:2709,1580:-340.077,-124.706,-101.226,-215.409,0,-202.164 1/2:80:2,27,50:2:70:27,50:957,1783:-210.46,-137.101,-134.669,-68.2596,0,-58.9043 1/2:66:0,49,17:0:0:49,17:1712,612:-183.554,-49.9955,-35.245,-133.91,0,-128.793 1/1:170:0,167,3:0:0:167,3:5891,108:-506.762,-50.272,0,-498.002,-41.1546,-497.099 1/1:47:0,46,0:0:0:46,0:1608,0:-135.668,-13.8474,0,-135.668,-13.8474,-135.668 chr02 2697483 . C T 29082.6 PASS AB=0.532517;ABP=29.2775;AC=23;AF=0.547619;AN=42;AO=1746;CIGAR=1X;DP=3218;DPB=3218;DPRA=1.17824;EPP=3794.4;EPPR=3199.42;GTI=0;LEN=1;MEANALT=1;MQM=40.3648;MQMR=47.2255;NS=21;NUMALT=1;ODDS=15.1869;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62398;QR=52257;RO=1472;RPL=1746;RPP=3794.4;RPPR=3199.42;RPR=0;RUN=1;SAF=1746;SAP=3794.4;SAR=0;SRF=1472;SRP=3199.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:209:100,109:100:3562:109:3874:-273.416,0,-255.834 0/1:175:87,88:87:3070:88:3128:-211.94,0,-221.24 0/1:219:113,106:113:4056:106:3799:-263.594,0,-295.676 0/1:158:68,90:68:2393:90:3231:-232.734,0,-166.618 0/1:291:148,143:148:5263:143:5128:-358.84,0,-383.403 0/1:158:52,106:52:1860:106:3762:-266.847,0,-118.772 0/1:166:70,96:70:2493:96:3439:-239.96,0,-172.422 0/0:131:131,0:131:4624:0:0:0,-39.4349,-412.195 0/1:312:165,147:165:5882:147:5241:-365.771,0,-416.764 0/1:26:16,10:16:572:10:360:-23.5721,0,-43.7143 1/1:11:0,11:0:0:11:381:-32.7632,-3.31133,0 0/1:63:40,23:40:1428:23:824:-52.0109,0,-108.858 0/1:178:91,87:91:3228:87:3110:-215.108,0,-235.117 0/1:179:78,101:78:2743:101:3606:-258.372,0,-191.455 0/1:314:142,172:142:5038:172:6176:-440.144,0,-351.114 0/1:148:55,93:55:1931:93:3316:-247.67,0,-124.394 0/1:120:43,77:43:1520:77:2759:-206.566,0,-96.559 0/1:80:52,28:52:1842:28:1004:-62.3191,0,-139.696 0/1:64:17,47:17:608:47:1680:-126.294,0,-35.4962 1/1:169:3,166:3:108:166:5943:-501.031,-40.8535,0 1/1:47:1,46:1:36:46:1637:-134.682,-10.5501,0 chr02 2697531 . GTAAATATC GTAAAATATC,ATAGAATATC 51625.5 PASS AB=0.502568,0.490582;ABP=3.14416,4.80994;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1334,1260;CIGAR=2M1I7M,1X2M1I6M;DP=2612;DPB=2902;DPRA=1.09561,2.52058;EPP=2899.75,2739.07;EPPR=0;GTI=0;LEN=1,10;MEANALT=2.7,2.83333;MQM=54.554,57.6857;MQMR=0;NS=21;NUMALT=2;ODDS=7.54174;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47073,44616;QR=0;RO=0;RPL=0,0;RPP=2899.75,2739.07;RPPR=0;RPR=1334,1260;RUN=1,1;SAF=0,0;SAP=2899.75,2739.07;SAR=1334,1260;SRF=0;SRP=0;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:190:0,87,100:0:0:87,100:3091,3542:-539.622,-288.044,-261.855,-251.607,0,-221.504 1/2:152:0,66,86:0:0:66,86:2315,3064:-436.038,-249.296,-229.428,-187.092,0,-161.204 1/2:121:0,69,52:0:0:69,52:2398,1847:-345.636,-150.857,-130.085,-195.131,0,-179.478 1/2:200:0,93,106:0:0:93,106:3263,3771:-572.256,-307.315,-279.319,-265.043,0,-233.134 1/2:319:0,140,175:0:0:140,175:4924,6195:-904.463,-504.192,-462.048,-400.336,0,-347.656 1/2:111:0,43,67:0:0:43,67:1514,2354:-313.887,-191.136,-178.191,-122.784,0,-102.615 1/2:209:0,107,102:0:0:107,102:3788,3599:-599.778,-292.598,-260.388,-307.532,0,-276.827 2/2:114:0,0,114:0:0:0,114:0,4048:-364.147,-364.147,-364.147,-34.3174,-34.3174,0 1/2:147:0,87,59:0:0:87,59:3060,2081:-418.2,-169.446,-143.256,-248.752,0,-230.991 1/2:17:0,8,8:0:0:8,8:280,283:-45.7929,-23.0411,-20.6329,-22.8043,0,-20.3961 1/1:11:0,11,0:0:0:11,0:383,0:-34.7249,-3.31133,0,-34.7249,-3.31133,-34.7249 1/2:29:0,16,13:0:0:16,13:572,467:-85.0037,-38.4359,-33.6195,-46.9257,0,-43.0123 1/2:217:0,96,121:0:0:96,121:3376,4298:-624.985,-350.55,-321.651,-274.788,0,-238.363 1/2:143:0,82,59:0:0:82,59:2901,2067:-403.586,-168.077,-143.393,-235.507,0,-217.746 1/2:81:0,50,31:0:0:50,31:1784,1104:-235.494,-90.2621,-75.2106,-145.588,0,-136.256 1/2:123:0,72,49:0:0:72,49:2572,1723:-349.707,-140.131,-118.457,-209.585,0,-194.834 1/2:138:0,78,59:0:0:78,59:2743,2086:-392.565,-169.893,-146.413,-222.671,0,-204.91 1/2:75:0,34,41:0:0:34,41:1205,1445:-215.082,-117.602,-107.367,-97.8317,0,-85.4894 1/2:64:0,46,18:0:0:46,18:1631,642:-185.178,-52.6912,-38.8438,-132.843,0,-127.424 1/1:92:0,92,0:0:0:92,0:3254,0:-292.426,-27.6948,0,-292.426,-27.6948,-292.426 1/1:59:0,57,0:0:0:57,0:2019,0:-181.203,-17.1587,0,-181.203,-17.1587,-181.203 chr02 2697545 . CAATTTGTTA TAATTGTTA,TAATTTGTTA 53466.2 PASS AB=0.518007,0.475712;ABP=9.73568,15.2462;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1404,1247;CIGAR=1X2M1D6M,1X9M;DP=2670;DPB=2528.9;DPRA=1.13142,2.46647;EPP=3051.76,2710.84;EPPR=0;GTI=0;LEN=9,1;MEANALT=2.45,2.61111;MQM=54.4217,57.7907;MQMR=0;NS=21;NUMALT=2;ODDS=10.627;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49771,44710;QR=0;RO=0;RPL=1404,1247;RPP=3051.76,2710.84;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3051.76,2710.84;SAR=1404,1247;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:190:0,89,101:0:0:89,101:3173,3628:-553.746,-295.629,-268.837,-258.474,0,-228.07 1/2:153:0,68,85:0:0:68,85:2402,3056:-442.676,-248.765,-228.295,-194.265,0,-168.678 1/2:122:0,71,51:0:0:71,51:2533,1832:-355.836,-149.807,-128.434,-206.387,0,-191.035 1/2:206:0,99,106:0:0:99,106:3482,3796:-592.255,-309.475,-279.673,-282.8,0,-250.891 1/2:326:0,148,175:0:0:148,175:5217,6263:-934.236,-509.952,-465.4,-424.283,0,-371.603 1/2:114:0,47,67:0:0:47,67:1671,2408:-332.054,-196.434,-182.286,-135.975,0,-115.806 1/2:215:0,112,100:0:0:112,100:3998,3584:-616.237,-291.577,-257.862,-324.671,0,-294.568 2/2:113:0,0,111:0:0:0,111:0,3977:-357.505,-357.505,-357.505,-33.4143,-33.4143,0 1/2:146:0,88,58:0:0:88,58:3122,2084:-424.406,-170.37,-143.88,-254.393,0,-236.933 1/2:16:0,8,7:0:0:8,7:288,252:-44.0189,-20.5559,-18.1477,-23.469,0,-21.3618 1/1:11:0,10,0:0:0:10,0:360,0:-32.3031,-3.0103,0,-32.3031,-3.0103,-32.3031 1/2:30:0,17,13:0:0:17,13:603,468:-87.5751,-38.5261,-33.4086,-49.4063,0,-45.4929 1/2:223:0,103,120:0:0:103,120:3639,4296:-646.529,-350.648,-319.642,-296.236,0,-260.113 1/2:147:0,87,60:0:0:87,60:3085,2141:-424.948,-174.689,-148.499,-250.615,0,-232.553 1/2:86:0,55,31:0:0:55,31:1951,1116:-249.941,-91.3361,-74.7794,-158.962,0,-149.63 1/2:127:0,76,48:0:0:76,48:2723,1724:-362.571,-140.653,-117.774,-221.988,0,-207.539 1/2:141:0,83,58:0:0:83,58:2925,2069:-406.44,-169.018,-144.032,-237.777,0,-220.317 1/2:80:0,39,38:0:0:39,38:1381,1368:-223.435,-111.386,-99.6463,-112.076,0,-100.637 1/2:66:0,47,18:0:0:47,18:1652,648:-186.903,-52.8735,-38.7251,-134.027,0,-128.608 1/1:98:0,97,0:0:0:97,0:3436,0:-308.659,-29.1999,0,-308.659,-29.1999,-308.659 1/1:60:0,60,0:0:0:60,0:2130,0:-191.284,-18.0618,0,-191.284,-18.0618,-191.284 chr02 2757484 . A C 6460.43 PASS AB=0.503968;ABP=3.14817;AC=23;AF=0.547619;AN=42;AO=605;CIGAR=1X;DP=1160;DPB=1160;DPRA=1.04434;EPP=1316.75;EPPR=1208.18;GTI=0;LEN=1;MEANALT=1;MQM=28.9554;MQMR=30.4378;NS=21;NUMALT=1;ODDS=0.203984;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21665;QR=19595;RO=555;RPL=0;RPP=1316.75;RPPR=1208.18;RPR=605;RUN=1;SAF=605;SAP=1316.75;SAR=0;SRF=555;SRP=1208.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:19,26:19:654:26:932:-53.1854,0,-34.4296 0/1:52:30,22:30:1053:22:788:-34.8792,0,-58.7646 0/1:85:33,52:33:1161:52:1868:-110.298,0,-60.2235 0/1:52:25,27:25:881:27:972:-55.1739,0,-50.0154 0/1:76:43,33:43:1536:33:1184:-63.4227,0,-89.0579 0/1:23:14,9:14:477:9:320:-14.0069,0,-28.9679 0/1:92:45,47:45:1578:47:1676:-80.1086,0,-86.8752 0/0:53:53,0:53:1888:0:0:0,-15.9546,-131.007 0/1:106:40,66:40:1436:66:2372:-146.385,0,-77.4652 0/1:5:1,4:1:36:4:144:-8.6188,0,-1.23105 1/1:5:0,5:0:0:5:180:-11.77,-1.50515,0 0/1:37:25,12:25:892:12:432:-18.3571,0,-50.5526 0/1:37:15,22:15:506:22:788:-46.3722,0,-27.3174 0/1:62:36,26:36:1265:26:936:-49.25,0,-74.3306 0/1:121:62,59:62:2216:59:2100:-116.646,0,-123.516 0/1:30:13,17:13:464:17:608:-37.8682,0,-26.5119 0/1:52:30,22:30:1049:22:792:-44.0672,0,-63.5059 0/1:93:56,37:56:1963:37:1320:-62.5316,0,-109.862 0/1:40:13,27:13:468:27:964:-58.1169,0,-22.2114 1/1:47:1,46:1:36:46:1652:-110.415,-11.4122,0 1/1:47:1,46:1:36:46:1637:-101.43,-10.5501,0 chr02 2757523 . TCCGTCG GCCATCG,GCCATCA 14446.9 PASS AB=0.506379,0.491658;ABP=3.37044,3.62615;AC=23,19;AF=0.547619,0.452381;AN=42;AO=614,556;CIGAR=1X2M1X3M,1X2M1X2M1X;DP=1172;DPB=1172;DPRA=1.03519,2.31373;EPP=1336.29,1210.35;EPPR=0;GTI=1;LEN=7,7;MEANALT=2,2.05263;MQM=28.9658,29.3651;MQMR=0;NS=21;NUMALT=2;ODDS=0.252841;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17636,19474;QR=0;RO=0;RPL=614,556;RPP=1336.29,1210.35;RPPR=0;RPR=0,0;RUN=1,1;SAF=614,556;SAP=1336.29,1210.35;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:46:0,26,20:0:0:26,20:762,704:-99.2865,-45.5832,-37.7564,-53.9788,0,-47.9582 1/2:51:0,22,29:0:0:22,29:568,1019:-100.775,-62.2449,-55.6223,-38.7765,0,-30.0466 1/2:86:0,53,32:0:0:53,32:1580,1126:-184.793,-72.6449,-56.6904,-112.091,0,-102.458 1/2:51:0,27,24:0:0:27,24:806,842:-112.694,-55.4424,-47.3146,-57.5311,0,-50.3064 1/2:80:0,36,44:0:0:36,44:1061,1555:-176.242,-100.917,-90.0804,-75.5999,0,-62.3546 1/2:21:0,9,12:0:0:9,12:234,428:-42.7264,-26.8307,-24.1215,-16.1468,0,-12.5344 1/2:86:0,48,38:0:0:48,38:1247,1331:-166.502,-81.6125,-67.1631,-85.1424,0,-73.7033 2/2:54:0,0,54:0:0:0,54:0,1879:-131.784,-131.784,-131.784,-16.2556,-16.2556,0 1/2:109:0,67,41:0:0:67,41:2054,1440:-246.283,-98.257,-78.088,-148.038,0,-135.696 1/2:5:0,4,1:0:0:4,1:112,32:-10.1346,-2.35363,-1.14951,-8.04334,0,-7.74231 1/1:5:0,5,0:0:0:5,0:130,0:-10.5778,-1.50515,0,-10.5778,-1.50515,-10.5778 1/2:37:0,12,25:0:0:12,25:332,881:-77.0186,-54.0062,-50.3938,-23.2673,0,-15.7416 1/2:36:0,22,14:0:0:22,14:653,476:-78.0243,-31.6785,-25.0558,-46.6226,0,-42.4081 1/2:63:0,27,36:0:0:27,36:804,1263:-138.246,-81.3302,-73.2024,-57.1905,0,-46.3534 1/2:129:0,59,70:0:0:59,70:1741,2437:-282.225,-158.491,-140.73,-124.009,0,-102.937 1/2:31:0,17,14:0:0:17,14:539,490:-72.6768,-33.7017,-28.5842,-39.269,0,-35.0546 1/2:53:0,23,30:0:0:23,30:705,1063:-121.756,-70.9989,-64.0752,-51.043,0,-42.0121 1/2:95:0,37,58:0:0:37,58:1021,2011:-194.459,-123.451,-112.313,-71.2635,0,-53.8037 1/2:40:0,27,13:0:0:27,13:799,461:-86.8467,-30.1919,-22.0641,-56.9366,0,-53.0232 1/1:48:0,47,1:0:0:47,1:1307,36:-104.999,-14.1484,0,-102.837,-11.7132,-102.536 1/1:46:0,46,0:0:0:46,0:1181,0:-94.3733,-13.8474,0,-94.3733,-13.8474,-94.3733 chr02 2796723 . TTCTTT CCTTTC,CCTTTT 35738.4 PASS AB=0.503808,0.486233;ABP=3.22528,5.82037;AC=22,20;AF=0.52381,0.47619;AN=42;AO=969,944;CIGAR=3X2M1X,3X3M;DP=1930;DPB=1930.5;DPRA=0.796491,1.75857;EPP=2107.17,2052.88;EPPR=0;GTI=0;LEN=6,3;MEANALT=2.65,2.73684;MQM=37.58,50.7309;MQMR=0;NS=21;NUMALT=2;ODDS=4.6229;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=27,35;PQR=35;PRO=1;QA=34053,33158;QR=0;RO=0;RPL=0,0;RPP=2107.17,2052.88;RPPR=0;RPR=969,944;RUN=1,1;SAF=0,0;SAP=2107.17,2052.88;SAR=969,944;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:112:0,47,64:0:0:47,64:1631,2244:-304.743,-181.011,-166.862,-123.748,0,-104.482 1/2:67:0,26,41:0:0:26,41:909,1443:-187.562,-117.704,-109.878,-70.1968,0,-57.8545 1/2:79:0,33,46:0:0:33,46:1161,1620:-219.082,-131.369,-121.435,-88.05,0,-74.2027 1/2:42:0,18,24:0:0:18,24:631,842:-114.624,-68.5775,-63.159,-46.378,0,-39.1533 1/2:274:0,126,146:0:0:126,146:4428,5101:-747.508,-412.862,-374.932,-334.634,0,-290.684 1/2:154:0,87,66:0:0:87,66:3097,2322:-432.472,-188.703,-162.513,-243.769,0,-223.901 1/2:146:0,71,73:0:0:71,73:2459,2531:-399.038,-205.413,-184.04,-193.722,0,-171.746 2/2:114:0,0,114:0:0:0,114:0,3998:-358.498,-358.498,-358.498,-34.3174,-34.3174,0 1/2:130:0,59,68:0:0:59,68:2085,2420:-350.187,-195.605,-177.845,-154.543,0,-134.073 1/2:14:0,5,8:0:0:5,8:163,283:-35.3507,-23.0817,-21.5765,-12.3443,0,-9.93609 1/2:8:0,3,5:0:0:3,5:108,177:-23.2537,-14.761,-13.8579,-8.84286,0,-7.33771 1/2:19:0,14,5:0:0:14,5:499,180:-52.6521,-14.9927,-10.7782,-38.0112,0,-36.506 1/2:98:0,53,45:0:0:53,45:1876,1598:-270.943,-129.768,-113.813,-141.517,0,-127.971 1/2:84:0,42,41:0:0:42,41:1471,1458:-228.091,-117.771,-105.128,-110.324,0,-97.982 1/2:141:0,74,65:0:0:74,65:2616,2278:-381.637,-183.948,-161.672,-197.723,0,-178.156 1/2:56:0,27,29:0:0:27,29:931,1026:-153.039,-83.2267,-75.0989,-70.1477,0,-61.4178 1/2:132:0,84,47:0:0:84,47:2976,1649:-354.765,-133.514,-108.228,-221.262,0,-207.114 1/2:102:0,59,41:0:0:59,41:2070,1435:-271.132,-115.916,-98.155,-155.267,0,-142.925 1/2:49:0,32,16:0:0:32,16:1115,553:-128.681,-44.4995,-34.8666,-84.16,0,-79.3436 1/1:72:0,72,0:0:0:72,0:2543,0:-210.692,-21.6742,0,-210.692,-21.6742,-210.692 1/1:37:0,37,0:0:0:37,0:1284,0:-112.305,-11.1381,0,-112.305,-11.1381,-112.305 chr02 2804222 . ATAA TTTT,ATTT 31778.2 PASS AB=0.395224,0.602985;ABP=162.728,157.314;AC=22,20;AF=0.52381,0.47619;AN=42;AO=778,1100;CIGAR=1X1M2X,2M2X;DP=1882;DPB=1882;DPRA=1.03161,2.24512;EPP=1692.42,2391.63;EPPR=0;GTI=1;LEN=4,2;MEANALT=2.1,2.05;MQM=33.7262,36.3609;MQMR=0;NS=21;NUMALT=2;ODDS=1.84038;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27818,39232;QR=0;RO=0;RPL=778,1100;RPP=1692.42,2391.63;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1692.42,2391.63;SAR=778,1100;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,44,64:0:0:44,64:1580,2274:-279.507,-166.678,-153.433,-113.149,0,-93.8827 1/2:69:0,31,38:0:0:31,38:1112,1360:-179.511,-100.066,-90.7337,-79.7667,0,-68.3275 1/2:103:0,39,64:0:0:39,64:1397,2287:-265.325,-165.518,-153.778,-100.126,0,-80.8603 1/2:166:0,58,108:0:0:58,108:2069,3848:-426.972,-281.409,-263.949,-145.879,0,-113.367 1/2:234:0,79,155:0:0:79,155:2827,5537:-604.878,-402.367,-378.586,-202.83,0,-156.171 1/2:108:0,26,82:0:0:26,82:933,2924:-282.852,-216.208,-208.381,-66.9649,0,-42.2804 1/2:90:0,29,61:0:0:29,61:1044,2176:-234.192,-162.001,-153.271,-72.5062,0,-54.1434 2/2:87:0,0,87:0:0:0,87:0,3079:-271.185,-271.185,-271.185,-26.1896,-26.1896,0 1/2:157:0,73,84:0:0:73,84:2613,3005:-403.558,-217.575,-195.6,-186.301,0,-161.015 1/2:7:0,6,1:0:0:6,1:210,36:-17.1433,-3.25759,-1.45141,-14.2324,0,-13.9313 1/2:6:0,3,3:0:0:3,3:108,108:-16.0321,-8.33418,-7.43109,-8.02226,0,-7.11917 1/2:21:0,14,5:0:0:14,5:496,180:-50.028,-14.5086,-10.2942,-35.5109,0,-34.0058 1/2:114:0,45,69:0:0:45,69:1604,2472:-294.04,-180.346,-166.8,-114.011,0,-93.2399 1/2:91:0,25,66:0:0:25,66:885,2376:-235.382,-172.292,-164.766,-63.4064,0,-43.5385 1/2:109:0,40,69:0:0:40,69:1438,2467:-282.678,-181.21,-169.168,-101.787,0,-81.0164 1/2:86:0,37,49:0:0:37,49:1329,1719:-220.597,-125.699,-114.561,-95.2163,0,-80.4658 1/2:108:0,51,57:0:0:51,57:1832,2029:-275.135,-148.563,-133.211,-126.887,0,-109.729 1/2:32:0,16,16:0:0:16,16:566,574:-87.1937,-46.5818,-41.7654,-40.9469,0,-36.1304 1/2:66:0,46,19:0:0:46,19:1634,673:-163.78,-49.0771,-35.2297,-114.696,0,-108.976 1/1:79:0,76,3:0:0:76,3:2717,108:-216.389,-22.8783,0,-207.683,-13.8172,-206.78 1/1:41:0,40,0:0:0:40,0:1424,0:-113.284,-12.0412,0,-113.284,-12.0412,-113.284 chr02 2880882 . T C 24931.9 PASS AB=0.661111;ABP=408.834;AC=21;AF=0.5;AN=42;AO=1329;CIGAR=1X;DP=2026;DPB=2026;DPRA=3.70185;EPP=2888.9;EPPR=1512.18;GTI=2;LEN=1;MEANALT=1.1;MQM=59.9466;MQMR=59.9885;NS=21;NUMALT=1;ODDS=3.72293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47550;QR=24862;RO=695;RPL=0;RPP=2888.9;RPPR=1512.18;RPR=1329;RUN=1;SAF=1329;SAP=2888.9;SAR=0;SRF=695;SRP=1512.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:29,98:29:1031:98:3512:-278.059,0,-54.8718 0/1:85:8,76:8:284:76:2707:-218.167,0,-0.257561 0/1:114:35,79:35:1252:79:2816:-219.363,0,-78.6677 0/1:87:29,58:29:1040:58:2060:-159.479,0,-67.7248 0/1:280:117,162:117:4179:162:5805:-438.214,0,-291.945 0/1:74:20,54:20:716:54:1944:-152.95,0,-42.4915 0/1:117:45,72:45:1620:72:2580:-197.2,0,-110.869 1/1:131:0,131:0:0:131:4660:-419.563,-39.4349,0 0/1:116:52,64:52:1860:64:2296:-171.982,0,-132.76 0/1:24:4,20:4:144:20:716:-57.5368,0,-6.0889 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:28:12,16:12:424:16:568:-43.023,0,-30.0676 0/1:102:47,55:47:1688:55:1964:-146.33,0,-121.502 0/1:110:33,77:33:1184:77:2768:-216.247,0,-73.755 0/1:189:67,122:67:2408:122:4367:-336.309,0,-160.081 0/1:92:29,63:29:1009:63:2264:-176.328,0,-63.4239 0/1:118:31,87:31:1116:87:3124:-245.864,0,-65.2302 0/1:92:32,60:32:1152:60:2143:-165.425,0,-76.2954 0/1:45:18,27:18:648:27:968:-73.891,0,-45.1055 0/0:61:60,1:60:2156:1:36:0,-14.7646,-190.709 0/0:27:27,0:27:951:0:0:0,-8.12781,-85.8961 chr02 2880904 . C T 10366.6 PASS AB=0.349178;ABP=339.685;AC=20;AF=0.47619;AN=42;AO=687;CIGAR=1X;DP=2010;DPB=2010;DPRA=1.46199;EPP=1434.63;EPPR=2841.23;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9463;NS=21;NUMALT=1;ODDS=0.827227;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24487;QR=47244;RO=1323;RPL=680;RPP=1434.63;RPPR=2841.23;RPR=7;RUN=1;SAF=687;SAP=1494.81;SAR=0;SRF=1323;SRP=2875.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:99,30:99:3537:30:1034:-54.5318,0,-279.705 0/0:85:78,7:78:2762:7:237:0,-3.92849,-227.076 0/1:114:79,35:79:2823:35:1231:-76.775,0,-219.991 0/1:86:57,29:57:2052:29:1044:-68.3862,0,-159.063 0/1:278:163,115:163:5825:115:4102:-285.679,0,-440.676 0/1:74:53,21:53:1887:21:748:-45.3691,0,-147.822 0/1:116:72,44:72:2576:44:1572:-106.852,0,-197.142 0/0:128:128,0:128:4584:0:0:0,-38.5318,-412.725 0/1:113:63,50:63:2252:50:1796:-127.906,0,-168.927 0/1:24:20,4:20:707:4:144:-6.0889,0,-56.7291 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:26:15,11:15:540:11:392:-27.7933,0,-41.1098 0/1:99:53,46:53:1885:46:1652:-119.167,0,-140.125 0/1:108:78,30:78:2787:30:1076:-64.6416,0,-218.559 0/1:188:120,68:120:4304:68:2432:-162.542,0,-330.942 0/1:95:63,32:63:2248:32:1144:-74.6717,0,-173.986 0/1:117:87,30:87:3099:30:1068:-61.2116,0,-243.917 0/1:91:60,31:60:2120:31:1107:-72.5473,0,-163.666 0/1:46:27,19:27:968:19:679:-47.5916,0,-73.59 1/1:63:1,62:1:36:62:2228:-197.186,-15.3666,0 1/1:23:0,23:0:0:23:801:-72.4067,-6.92369,0 chr02 2897930 . G A 13856 PASS AB=0.526705;ABP=10.5489;AC=22;AF=0.52381;AN=42;AO=766;CIGAR=1X;DP=1416;DPB=1416;DPRA=0.919863;EPP=1631.8;EPPR=1384.19;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9948;MQMR=60;NS=21;NUMALT=1;ODDS=17.8175;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27275;QR=23060;RO=648;RPL=762;RPP=1631.8;RPPR=1384.19;RPR=4;RUN=1;SAF=0;SAP=1666.36;SAR=766;SRF=0;SRP=1410.12;SRR=648;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:38,33:38:1343:33:1176:-84.7746,0,-99.7962 0/1:63:25,38:25:896:38:1351:-102.925,0,-61.9955 0/1:61:31,30:31:1107:30:1068:-78.0692,0,-81.5773 0/1:48:22,26:22:775:26:906:-67.404,0,-55.6217 0/1:104:52,52:52:1872:52:1843:-134.843,0,-137.452 0/1:80:47,32:47:1680:32:1136:-78.4078,0,-127.346 0/1:88:33,55:33:1180:55:1955:-149.734,0,-80.0174 0/0:73:73,0:73:2608:0:0:0,-21.9752,-234.968 0/1:108:50,58:50:1768:58:2072:-154.24,0,-126.889 0/1:20:8,12:8:280:12:420:-32.1134,0,-19.5187 0/1:12:6,6:6:212:6:216:-16.1782,0,-15.8124 0/1:59:24,35:24:856:35:1260:-95.9447,0,-59.6003 0/1:89:53,36:53:1896:36:1283:-88.981,0,-144.126 0/1:87:51,36:51:1803:36:1284:-89.6738,0,-136.362 0/1:119:45,73:45:1585:73:2596:-198.156,0,-107.204 0/1:31:15,16:15:536:16:565:-41.8476,0,-39.2429 0/1:50:22,28:22:775:28:996:-74.9034,0,-55.0197 0/1:71:37,34:37:1320:34:1211:-87.922,0,-97.7288 0/1:56:15,41:15:532:41:1471:-115.828,0,-31.3554 1/1:33:1,32:1:36:32:1136:-98.9506,-6.33572,0 1/1:93:0,93:0:0:93:3330:-299.917,-27.9958,0 chr02 2912595 . T C 19880.7 PASS AB=0.501058;ABP=3.02868;AC=21;AF=0.5;AN=42;AO=1124;CIGAR=1X;DP=2147;DPB=2147;DPRA=2.79217;EPP=2443.75;EPPR=2213.58;GTI=0;LEN=1;MEANALT=1.05263;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.96023;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40058;QR=36474;RO=1022;RPL=1124;RPP=2443.75;RPPR=2213.58;RPR=0;RUN=1;SAF=0;SAP=2443.75;SAR=1124;SRF=0;SRP=2222.26;SRR=1022;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:57,76:57:2044:76:2732:-206.085,0,-144.195 0/1:102:49,53:49:1760:53:1888:-139.493,0,-127.979 0/1:71:35,36:35:1211:36:1292:-95.2106,0,-87.9138 0/1:118:72,46:72:2562:46:1637:-112.095,0,-195.305 0/1:216:115,101:115:4094:101:3602:-259.361,0,-303.622 0/1:128:55,72:55:1950:72:2543:-190.648,0,-137.301 0/1:137:79,58:79:2844:58:2053:-143.798,0,-214.956 0/0:73:73,0:73:2605:0:0:0,-21.9752,-234.697 0/1:163:88,75:88:3164:75:2639:-188.686,0,-235.916 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/1:26:16,10:16:542:10:360:-24.9175,0,-41.2709 0/1:109:51,58:51:1812:58:2065:-153.307,0,-130.547 0/1:117:62,55:62:2204:55:1946:-140.192,0,-163.402 0/1:144:71,73:71:2556:73:2613:-192.068,0,-186.941 0/1:105:56,49:56:2012:49:1745:-125.724,0,-149.745 0/1:113:48,65:48:1698:65:2325:-175.492,0,-119.086 0/1:106:54,52:54:1940:52:1868:-136.49,0,-142.967 0/1:90:28,62:28:1008:62:2194:-170.63,0,-63.9437 1/1:111:2,109:2:72:109:3900:-344.357,-26.5776,0 1/1:68:0,68:0:0:68:2440:-219.855,-20.47,0 chr02 2919637 . C A 19012.2 PASS AB=0.565975;ABP=59.4555;AC=22;AF=0.52381;AN=42;AO=1030;CIGAR=1X;DP=1751;DPB=1751;DPRA=1.14932;EPP=2239.63;EPPR=1568.64;GTI=0;LEN=1;MEANALT=1;MQM=59.9845;MQMR=59.9931;NS=21;NUMALT=1;ODDS=2.27337;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36844;QR=25426;RO=721;RPL=0;RPP=2239.63;RPPR=1568.64;RPR=1030;RUN=1;SAF=1030;SAP=2239.63;SAR=0;SRF=721;SRP=1568.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:26:7,19:7:252:19:676:-53.3412,0,-15.2022 0/1:37:17,20:17:604:20:720:-53.9907,0,-43.5525 0/1:108:45,63:45:1592:63:2268:-171.871,0,-111.059 0/1:86:33,53:33:1160:53:1855:-141.335,0,-78.8181 0/1:177:85,92:85:2996:92:3304:-244.296,0,-216.593 0/1:45:16,29:16:568:29:1036:-80.0076,0,-37.9055 0/1:156:66,90:66:2308:90:3221:-243.15,0,-161.021 0/0:73:73,0:73:2556:0:0:0,-21.9752,-230.293 0/1:119:52,67:52:1836:67:2404:-180.738,0,-129.698 0/1:17:9,8:9:320:8:280:-20.4218,0,-24.0248 0/1:8:4,4:4:140:4:129:-9.51942,0,-10.5363 0/1:35:19,16:19:672:16:572:-41.2774,0,-50.2708 0/1:161:80,81:80:2836:81:2912:-213.849,0,-207.015 0/1:137:58,79:58:2040:79:2808:-211.717,0,-142.632 0/1:93:40,53:40:1412:53:1892:-142.561,0,-99.3815 0/1:31:19,12:19:680:12:424:-29.1645,0,-52.1972 0/1:68:18,50:18:636:50:1799:-141.722,0,-37.098 0/1:110:50,60:50:1771:60:2156:-161.194,0,-126.559 0/1:79:30,49:30:1047:49:1748:-133.823,0,-70.7579 1/1:144:0,144:0:0:144:5164:-464.9,-43.3483,0 1/1:41:0,41:0:0:41:1476:-133.136,-12.3422,0 chr02 2935855 . T C 14916.1 PASS AB=0.496537;ABP=3.16068;AC=22;AF=0.52381;AN=42;AO=848;CIGAR=1X;DP=1655;DPB=1655;DPRA=1.0109;EPP=1844.42;EPPR=1753.22;GTI=0;LEN=1;MEANALT=1.05;MQM=58.9163;MQMR=59.8164;NS=21;NUMALT=1;ODDS=7.2361;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30329;QR=28808;RO=806;RPL=0;RPP=1844.42;RPPR=1753.22;RPR=848;RUN=1;SAF=848;SAP=1844.42;SAR=0;SRF=806;SRP=1753.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:41,40:41:1464:40:1432:-104.545,0,-107.628 0/1:48:27,21:27:972:21:755:-53.595,0,-73.3485 0/1:77:40,37:40:1440:37:1313:-95.2451,0,-106.718 0/1:79:43,36:43:1540:36:1292:-92.8022,0,-115.112 0/1:156:75,80:75:2676:80:2839:-208.612,0,-194.066 0/1:68:43,25:43:1544:25:892:-60.0751,0,-118.783 0/1:131:64,67:64:2288:67:2404:-177.073,0,-166.673 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.234 0/1:118:63,55:63:2260:55:1976:-142.489,0,-168.125 0/1:25:17,8:17:612:8:288:-18.7417,0,-47.8877 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:41:24,17:24:841:17:612:-43.0712,0,-63.6641 0/1:91:49,42:49:1744:42:1504:-108.108,0,-129.851 0/1:94:49,45:49:1734:45:1608:-116.623,0,-127.999 0/1:120:48,72:48:1697:72:2580:-196.319,0,-116.704 0/1:60:22,38:22:792:38:1363:-104.267,0,-53.5439 0/1:58:33,25:33:1184:25:899:-63.735,0,-89.4086 0/1:110:56,54:56:2000:54:1923:-139.402,0,-147.159 0/1:80:28,52:28:1004:52:1853:-142.173,0,-66.5935 1/1:87:0,87:0:0:87:3116:-280.469,-26.1896,0 1/1:46:2,44:2:72:44:1572:-134.741,-7.01066,0 chr02 2935905 . GCTG AATA,ATTA 43961.1 PASS AB=0.480229,0.516649;ABP=9.53602,7.63795;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1134,1088;CIGAR=2X1M1X,2X1M1X;DP=2229;DPB=2229.5;DPRA=1.17473,1.71905;EPP=2448.12,2322.34;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.3,2.25;MQM=59.6093,54.0983;MQMR=0;NS=21;NUMALT=2;ODDS=9.45448;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=39489,38183;QR=0;RO=0;RPL=3,5;RPP=2439.47,2322.34;RPPR=0;RPR=1131,1083;RUN=1,1;SAF=1,0;SAP=2456.78,2365.57;SAR=1133,1088;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:89:0,26,63:0:0:26,63:919,2226:-255.709,-180.866,-173.039,-75.1962,0,-56.2313 1/2:97:0,37,60:0:0:37,60:1304,2109:-276.852,-170.688,-159.55,-106.515,0,-88.4531 1/2:70:0,30,40:0:0:30,40:1066,1426:-203.234,-116.371,-107.34,-87.2188,0,-75.1776 1/2:175:0,97,77:0:0:97,77:3394,2691:-494.761,-218.649,-189.449,-276.238,0,-253.059 1/2:156:0,62,93:0:0:62,93:2096,3249:-433.784,-263.89,-245.226,-169.994,0,-141.998 1/2:136:0,49,86:0:0:49,86:1721,3035:-385.444,-246.105,-231.354,-139.388,0,-113.5 1/2:167:0,85,81:0:0:85,81:2940,2829:-467.06,-228.178,-202.59,-239.016,0,-214.633 2/2:91:0,0,91:0:0:0,91:0,3174:-284.867,-284.867,-284.867,-27.3937,-27.3937,0 1/2:152:0,70,82:0:0:70,82:2386,2850:-424.375,-230.809,-209.737,-193.909,0,-169.224 1/2:10:0,6,4:0:0:6,4:207,143:-28.738,-11.9994,-10.1932,-17.0902,0,-15.886 1/2:7:0,4,3:0:0:4,3:143,99:-19.8109,-8.13105,-6.92693,-12.0173,0,-11.1142 1/2:70:0,43,27:0:0:43,27:1516,961:-201.937,-78.5482,-65.6039,-123.743,0,-115.615 1/2:110:0,51,59:0:0:51,59:1765,2083:-313.096,-169.671,-154.318,-143.774,0,-126.013 1/2:155:0,85,70:0:0:85,70:2907,2466:-436.81,-200.886,-175.298,-236.271,0,-215.199 1/2:140:0,76,63:0:0:76,63:2689,2229:-400.294,-181.281,-158.403,-218.967,0,-200.002 1/2:120:0,56,64:0:0:56,64:1951,2266:-343.031,-184.75,-167.892,-158.573,0,-139.307 1/2:119:0,59,60:0:0:59,60:2081,2081:-338.529,-169.08,-151.319,-169.799,0,-151.737 1/2:59:0,31,27:0:0:31,27:1090,930:-164.062,-75.3373,-66.0054,-88.751,0,-80.6232 1/2:90:0,56,34:0:0:56,34:1975,1192:-257.823,-97.0108,-80.1531,-161.163,0,-150.928 1/1:153:0,149,4:0:0:149,4:5166,144:-464.701,-44.8535,0,-452.969,-32.7618,-451.764 1/1:63:0,62,0:0:0:62,0:2173,0:-195.459,-18.6639,0,-195.459,-18.6639,-195.459 chr02 2935931 . C G 19355.7 PASS AB=0.524737;ABP=13.1088;AC=20;AF=0.47619;AN=42;AO=1090;CIGAR=1X;DP=2201;DPB=2201;DPRA=1.7541;EPP=2283.85;EPPR=2320.92;GTI=0;LEN=1;MEANALT=1;MQM=54.1752;MQMR=59.6616;NS=21;NUMALT=1;ODDS=10.3069;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38813;QR=39610;RO=1111;RPL=1080;RPP=2283.85;RPPR=2320.92;RPR=10;RUN=1;SAF=0;SAP=2369.92;SAR=1090;SRF=0;SRP=2415.52;SRR=1111;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:27,63:27:964:63:2224:-172.633,0,-59.9771 0/1:97:37,60:37:1328:60:2128:-161.271,0,-90.606 0/1:71:30,41:30:1072:41:1468:-110.813,0,-75.417 0/1:174:99,75:99:3525:75:2680:-188.629,0,-265.034 0/1:150:56,94:56:1988:94:3360:-256.87,0,-134.033 0/1:135:49,86:49:1760:86:3075:-235.137,0,-117.52 0/1:164:83,81:83:2953:81:2878:-208.118,0,-216.595 1/1:90:0,90:0:0:90:3198:-286.709,-27.0927,0 0/1:149:67,82:67:2377:82:2919:-216.291,0,-169.329 0/1:9:5,4:5:180:4:140:-10.2193,0,-13.8428 0/1:7:4,3:4:140:3:104:-7.48857,0,-10.8374 0/1:70:43,27:43:1531:27:963:-65.7755,0,-116.983 0/1:108:48,60:48:1709:60:2113:-157.652,0,-121.576 0/1:152:81,71:81:2896:71:2537:-182.603,0,-215.107 0/1:139:74,65:74:2644:65:2315:-166.532,0,-196.357 0/1:118:55,63:55:1968:63:2256:-167.615,0,-141.871 0/1:117:57,60:57:2017:60:2140:-156.766,0,-146.58 0/1:60:32,28:32:1135:28:991:-71.2095,0,-84.3913 0/1:90:56,34:56:2004:34:1216:-82.3069,0,-153.536 0/0:150:147,3:147:5244:3:108:0,-35.0973,-462.005 0/0:61:61,0:61:2175:0:0:0,-18.3628,-195.999 chr02 2935938 . T A 20233.5 PASS AB=0.482105;ABP=8.29498;AC=22;AF=0.52381;AN=42;AO=1131;CIGAR=1X;DP=2209;DPB=2209;DPRA=1.16374;EPP=2450.27;EPPR=2335.18;GTI=0;LEN=1;MEANALT=1;MQM=59.6384;MQMR=54.1855;NS=21;NUMALT=1;ODDS=11.0182;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40530;QR=38448;RO=1078;RPL=1130;RPP=2450.27;RPPR=2335.18;RPR=1;RUN=1;SAF=0;SAP=2458.95;SAR=1131;SRF=0;SRP=2343.86;SRR=1078;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:63,27:63:2249:27:968:-60.3376,0,-174.738 0/1:90:56,34:56:1978:34:1220:-83.0059,0,-149.898 0/1:71:41,30:41:1476:30:1080:-76.1378,0,-111.532 0/1:177:76,101:76:2713:101:3614:-272.139,0,-190.664 0/1:149:91,58:91:3268:58:2080:-142.612,0,-248.835 0/1:136:87,49:87:3098:49:1748:-116.36,0,-236.798 0/1:164:80,84:80:2830:84:3012:-221.901,0,-203.306 0/0:91:91,0:91:3249:0:0:0,-27.3937,-291.201 0/1:149:81,68:81:2885:68:2406:-171.933,0,-213.797 0/1:10:4,6:4:144:6:216:-16.7094,0,-10.2844 0/1:7:3,4:3:108:4:140:-10.8374,0,-7.75444 0/1:70:27,43:27:972:43:1544:-118.153,0,-66.5835 0/1:105:58,47:58:2080:47:1688:-120.592,0,-155.573 0/1:155:71,84:71:2514:84:3012:-224.639,0,-179.604 0/1:142:65,77:65:2325:77:2760:-205.88,0,-166.52 0/1:118:63,55:63:2234:55:1972:-142.231,0,-165.632 0/1:119:60,59:60:2137:59:2116:-154.886,0,-155.859 0/1:57:25,32:25:896:32:1148:-86.4656,0,-63.6147 0/1:91:33,58:33:1184:58:2078:-159.893,0,-79.1285 1/1:155:3,152:3:108:152:5464:-481.784,-36.6024,0 1/1:63:0,63:0:0:63:2264:-204.005,-18.9649,0 chr02 2935939 . T A 18930.1 PASS AB=0.51916;ABP=9.08472;AC=20;AF=0.47619;AN=42;AO=1082;CIGAR=1X;DP=2212;DPB=2212;DPRA=1.67813;EPP=2343.87;EPPR=2445.92;GTI=0;LEN=1;MEANALT=1.05;MQM=54.1627;MQMR=59.659;NS=21;NUMALT=1;ODDS=10.458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38745;QR=40128;RO=1129;RPL=1081;RPP=2343.87;RPPR=2445.92;RPR=1;RUN=1;SAF=0;SAP=2352.54;SAR=1082;SRF=0;SRP=2454.6;SRR=1129;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:27,60:27:953:60:2143:-166.387,0,-59.8881 0/1:94:36,58:36:1266:58:2088:-158.489,0,-85.9255 0/1:70:29,41:29:1036:41:1459:-110.305,0,-72.4795 0/1:177:100,77:100:3539:77:2747:-193.787,0,-265.376 0/1:151:61,90:61:2161:90:3228:-244.637,0,-149.295 0/1:136:48,88:48:1712:88:3144:-240.717,0,-113.392 0/1:166:86,80:86:3080:80:2871:-206.359,0,-227.411 1/1:90:0,90:0:0:90:3232:-289.672,-27.0927,0 0/1:149:67,82:67:2377:82:2932:-217.517,0,-169.325 0/1:10:6,4:6:216:4:144:-10.2844,0,-16.7094 0/1:7:4,3:4:144:3:104:-7.38713,0,-11.2064 0/1:67:40,27:40:1440:27:972:-67.4866,0,-109.675 0/1:110:50,59:50:1739:59:2116:-157.234,0,-123.612 0/1:153:83,70:83:2949:70:2497:-178.675,0,-219.574 0/1:141:76,65:76:2732:65:2332:-167.455,0,-203.664 0/1:122:56,66:56:1997:66:2364:-176.153,0,-143.274 0/1:116:57,59:57:2003:59:2116:-154.93,0,-145.618 0/1:58:31,27:31:1116:27:968:-69.7724,0,-83.2864 0/1:91:58,33:58:2076:33:1180:-78.7696,0,-159.712 0/0:153:150,3:150:5326:3:108:0,-36.0004,-469.377 0/0:64:64,0:64:2266:0:0:0,-19.2659,-204.182 chr02 2944655 . A G 9474.39 PASS AB=0.5;ABP=3.0103;AC=22;AF=0.52381;AN=42;AO=553;CIGAR=1X;DP=1062;DPB=1062;DPRA=1.31154;EPP=1203.83;EPPR=1108.29;GTI=0;LEN=1;MEANALT=1;MQM=59.5515;MQMR=59.6306;NS=21;NUMALT=1;ODDS=0.445802;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19533;QR=18115;RO=509;RPL=0;RPP=1203.83;RPPR=1108.29;RPR=553;RUN=1;SAF=0;SAP=1203.83;SAR=553;SRF=0;SRP=1108.29;SRR=509;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:32,35:32:1122:35:1243:-91.9978,0,-81.115 0/1:34:20,14:20:716:14:500:-35.0969,0,-54.514 0/1:55:26,29:26:928:29:1032:-76.6275,0,-67.2746 0/1:28:16,12:16:576:12:404:-28.2528,0,-43.7415 0/1:42:23,19:23:824:19:672:-48.1636,0,-61.8401 0/1:32:21,11:21:739:11:392:-25.9871,0,-56.9842 0/1:73:34,39:34:1224:39:1380:-102.504,0,-88.4886 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.937 0/1:136:61,75:61:2144:75:2653:-198.059,0,-152.279 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2525 0/1:7:3,4:3:108:4:144:-11.1349,0,-7.96796 0/1:10:5,5:5:171:5:172:-12.8077,0,-12.7152 0/1:55:30,25:30:1072:25:888:-63.6753,0,-80.2265 0/1:41:24,17:24:845:17:608:-42.7005,0,-64.0183 0/1:81:39,42:39:1404:42:1473:-108.208,0,-102.274 0/1:64:29,35:29:1044:35:1228:-91.5558,0,-75.0043 0/1:46:23,23:23:824:23:828:-60.9958,0,-60.6308 0/1:96:55,41:55:1951:41:1413:-98.553,0,-146.959 0/1:63:21,42:21:739:42:1496:-115.97,0,-47.8628 1/1:29:0,29:0:0:29:1024:-92.468,-8.72987,0 1/1:54:0,54:0:0:54:1911:-172.234,-16.2556,0 chr02 2944663 . CATCC AATCT,CAGCT 21048.6 PASS AB=0.496862,0.495816;ABP=3.09207,3.15567;AC=22,20;AF=0.52381,0.47619;AN=42;AO=560,515;CIGAR=1X3M1X,2M1X1M1X;DP=1082;DPB=1082;DPRA=1.26951,1.23467;EPP=1219.03,1112.65;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.25,2.31579;MQM=59.5571,59.565;MQMR=0;NS=21;NUMALT=2;ODDS=0.477866;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19684,17940;QR=0;RO=0;RPL=0,1;RPP=1219.03,1112.65;RPPR=0;RPR=560,514;RUN=1,1;SAF=0,0;SAP=1219.03,1121.32;SAR=560,515;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:68:0,39,28:0:0:39,28:1370,989:-192.032,-80.5348,-68.7946,-111.49,0,-103.061 1/2:34:0,14,20:0:0:14,20:484,688:-95.5186,-56.1993,-51.9849,-39.664,0,-33.6434 1/2:56:0,29,25:0:0:29,25:1020,853:-152.262,-69.2297,-60.4998,-83.0554,0,-75.5297 1/2:29:0,13,16:0:0:13,16:451,566:-83.1064,-46.4495,-42.5361,-37.0067,0,-32.1902 1/2:43:0,19,24:0:0:19,24:662,848:-123.248,-69.4153,-63.6958,-54.1832,0,-46.9585 1/2:34:0,11,23:0:0:11,23:395,798:-97.2237,-64.9975,-61.6862,-32.5808,0,-25.6571 1/2:74:0,39,35:0:0:39,35:1370,1225:-211.509,-100.014,-88.2742,-111.845,0,-101.309 2/2:41:0,0,41:0:0:0,41:0,1405:-126.741,-126.741,-126.741,-12.3422,-12.3422,0 1/2:137:0,75,62:0:0:75,62:2656,2207:-396.52,-180.171,-157.594,-216.703,0,-198.04 1/2:10:0,2,8:0:0:2,8:72,286:-29.5479,-23.6726,-23.0705,-6.23466,0,-3.82642 1/2:7:0,4,3:0:0:4,3:135,108:-20.0906,-9.17208,-7.96796,-11.2686,0,-10.3656 1/2:11:0,6,5:0:0:6,5:209,180:-32.0363,-15.0469,-13.2407,-17.3439,0,-15.8388 1/2:55:0,25,30:0:0:25,30:894,1058:-159.385,-86.4929,-78.9671,-73.2473,0,-64.2164 1/2:41:0,15,24:0:0:15,24:534,823:-110.365,-66.8392,-62.3238,-43.5607,0,-36.336 1/2:82:0,42,40:0:0:42,40:1460,1393:-232.068,-113.615,-100.971,-118.801,0,-106.76 1/2:64:0,34,29:0:0:34,29:1201,993:-178.534,-80.7195,-70.4845,-97.9362,0,-89.2063 1/2:46:0,23,23:0:0:23,23:817,800:-131.967,-65.3908,-58.4671,-66.9273,0,-60.0036 1/2:100:0,43,56:0:0:43,56:1490,1939:-278.794,-157.702,-144.758,-121.214,0,-104.356 1/2:65:0,42,23:0:0:42,23:1493,781:-185.351,-63.6747,-51.0314,-122.021,0,-115.097 1/1:30:0,30,0:0:0:30,0:1044,0:-94.268,-9.0309,0,-94.268,-9.0309,-94.268 1/1:55:0,55,0:0:0:55,0:1927,0:-173.674,-16.5567,0,-173.674,-16.5567,-173.674 chr02 2944699 . G C 8698.48 PASS AB=0.498943;ABP=3.01948;AC=20;AF=0.47619;AN=42;AO=513;CIGAR=1X;DP=1069;DPB=1069;DPRA=1.26701;EPP=1116.98;EPPR=1206.01;GTI=0;LEN=1;MEANALT=1.10526;MQM=59.5458;MQMR=59.5523;NS=21;NUMALT=1;ODDS=0.302943;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18293;QR=19767;RO=554;RPL=513;RPP=1116.98;RPPR=1206.01;RPR=0;RUN=1;SAF=0;SAP=1116.98;SAR=513;SRF=0;SRP=1206.01;SRR=554;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:38,31:38:1356:31:1086:-77.2723,0,-101.562 0/1:34:14,20:14:504:20:711:-54.069,0,-35.454 0/1:55:28,26:28:1004:26:926:-67.0395,0,-74.0512 0/1:29:13,16:13:460:16:576:-43.4405,0,-33.0053 0/1:42:19,23:19:646:23:828:-62.2009,0,-45.812 0/1:34:11,23:11:396:23:818:-63.6051,0,-25.7477 0/1:74:39,35:39:1396:35:1256:-91.0658,0,-103.647 1/1:41:0,41:0:0:41:1464:-132.051,-12.3422,0 0/1:137:75,62:75:2659:62:2224:-159.122,0,-198.297 0/1:10:2,8:2:72:8:288:-23.2525,0,-3.82642 0/1:7:4,3:4:135:3:104:-7.5956,0,-10.3656 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/1:54:24,30:24:864:30:1035:-77.1923,0,-61.8199 0/1:40:17,23:17:612:23:820:-62.0734,0,-43.3629 0/1:80:40,40:40:1440:40:1440:-105.683,0,-105.55 0/1:66:36,30:36:1296:30:1076:-77.2803,0,-97.0736 0/1:45:22,22:22:788:22:789:-57.7287,0,-57.6398 0/1:96:42,54:42:1496:54:1936:-145.585,0,-106.016 0/1:63:42,21:42:1500:21:736:-47.5923,0,-116.33 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5521 0/0:53:53,0:53:1891:0:0:0,-15.9546,-170.435 chr02 2945042 . GA GG,AG 79002.4 PASS AB=0.458235,0.539412;ABP=54.5227,48.882;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1888,2020;CIGAR=1M1X,2X;DP=3916;DPB=3916;DPRA=1.01995,2.49286;EPP=4102.75,4389.38;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=2.3,2.3;MQM=59.6425,59.7842;MQMR=60;NS=21;NUMALT=2;ODDS=4.26667;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67404,71513;QR=36;RO=1;RPL=0,0;RPP=4102.75,4389.38;RPPR=5.18177;RPR=1888,2020;RUN=1,1;SAF=1888,2020;SAP=4102.75,4389.38;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:274:0,89,184:0:0:89,184:3174,6533:-791.096,-532.388,-505.596,-258.813,0,-203.423 1/2:144:0,68,76:0:0:68,76:2439,2699:-419.185,-220.249,-199.779,-199.293,0,-176.415 1/2:153:0,52,100:0:0:52,100:1849,3531:-438.253,-287.577,-271.924,-150.748,0,-120.645 1/2:246:0,123,122:0:0:123,122:4382,4301:-707.292,-350.285,-313.258,-357.11,0,-320.384 1/2:414:0,217,197:0:0:217,197:7753,6936:-1197.06,-564.973,-499.649,-632.44,0,-573.137 1/2:172:0,64,108:0:0:64,108:2296,3807:-497.555,-310.276,-291.01,-187.635,0,-155.124 1/2:232:0,114,118:0:0:114,118:4053,4179:-670.698,-340.763,-306.446,-330.289,0,-294.768 2/2:183:0,0,183:0:0:0,183:0,6494:-584.528,-584.528,-584.528,-55.0885,-55.0885,0 1/2:321:0,149,171:0:0:149,171:5327,6053:-927.4,-493.117,-448.263,-434.358,0,-382.882 1/2:35:0,8,27:0:0:8,27:288,958:-101.901,-78.4002,-75.992,-23.8592,0,-15.7314 1/2:13:0,9,4:0:0:9,4:324,142:-38.3571,-11.9251,-9.21582,-26.7883,0,-25.5842 1/2:48:0,28,20:0:0:28,20:1004,716:-140.625,-58.7444,-50.3156,-82.2389,0,-76.2183 1/2:245:0,130,115:0:0:130,115:4636,4088:-711.389,-333.485,-294.352,-378.259,0,-343.64 1/2:233:0,108,124:0:0:108,124:3862,4353:-668.898,-354.168,-321.657,-314.724,0,-277.396 1/2:343:0,141,202:0:0:141,202:5041,7175:-995.926,-584.918,-542.473,-411.364,0,-350.556 1/2:156:0,60,96:0:0:60,96:2148,3406:-453.023,-277.855,-259.793,-175.524,0,-146.626 1/2:161:0,57,103:0:0:57,103:2025,3647:-462.069,-297.069,-279.91,-164.995,0,-133.989 1/2:113:0,70,42:0:0:70,42:2507,1496:-326.322,-121.919,-100.847,-204.401,0,-191.757 1/2:97:1,71,25:1:36:71,25:2529,891:-275.512,-69.6866,-51.2511,-203.185,0,-198.597 1/1:256:0,253,3:0:0:253,3:9007,108:-810.18,-76.1606,0,-801.368,-66.9885,-800.464 1/1:77:0,77,0:0:0:77,0:2760,0:-248.611,-23.1793,0,-248.611,-23.1793,-248.611 chr02 2945057 . T G 33107.6 PASS AB=0.459723;ABP=50.7641;AC=22;AF=0.52381;AN=42;AO=1884;CIGAR=1X;DP=3898;DPB=3898;DPRA=1.03278;EPP=4085.38;EPPR=4363.33;GTI=0;LEN=1;MEANALT=1.1;MQM=59.6162;MQMR=59.7977;NS=21;NUMALT=1;ODDS=0.445089;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67457;QR=72112;RO=2012;RPL=1;RPP=4085.38;RPPR=4363.33;RPR=1883;RUN=1;SAF=1884;SAP=4094.06;SAR=0;SRF=2012;SRP=4372.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:272:182,90:182:6509:90:3214:-207.501,0,-503.981 0/1:148:81,67:81:2908:67:2404:-172.064,0,-217.323 0/1:154:103,51:103:3687:51:1830:-118.619,0,-285.639 0/1:247:121,126:121:4352:126:4512:-331.686,0,-317.49 0/1:418:197,221:197:7038:221:7930:-587.776,0,-507.57 0/1:170:106,64:106:3804:64:2304:-156.445,0,-291.338 0/1:233:118,115:118:4240:115:4097:-298.484,0,-311.622 0/0:180:180,0:180:6453:0:0:0,-54.1854,-580.832 0/1:315:168,147:168:6013:147:5272:-379.73,0,-446.44 0/1:33:26,7:26:936:7:252:-13.095,0,-74.6178 0/1:13:4,9:4:144:9:324:-25.5842,0,-9.40023 0/1:46:20,26:20:720:26:913:-68.6333,0,-51.2768 0/1:241:114,126:114:4096:126:4490:-331.653,0,-296.215 0/1:234:127,107:127:4560:107:3825:-273.833,0,-340.026 0/1:343:201,142:201:7208:142:5087:-353.465,0,-545.479 0/1:152:93,59:93:3321:59:2120:-145.31,0,-253.348 0/1:159:101,58:101:3624:58:2080:-139.599,0,-278.501 0/1:111:40,70:40:1427:70:2507:-192.359,0,-95.2422 0/1:100:27,73:27:964:73:2628:-206.656,0,-56.9738 1/1:253:3,250:3:108:250:8944:-794.671,-66.0854,0 1/1:76:0,76:0:0:76:2724:-245.379,-22.8783,0 chr02 3024131 . AC GC,GT 20810.5 PASS AB=0.516985,0.47983;ABP=5.3708,6.33897;AC=22,20;AF=0.52381,0.47619;AN=42;AO=551,493;CIGAR=1X1M,2X;DP=1047;DPB=1047;DPRA=1.29231,0;EPP=1199.49,1073.55;EPPR=0;GTI=1;LEN=1,2;MEANALT=2.15,2.09524;MQM=59.9474,59.9391;MQMR=0;NS=21;NUMALT=2;ODDS=1.6716;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19647,17465;QR=0;RO=0;RPL=0,0;RPP=1199.49,1073.55;RPPR=0;RPR=551,493;RUN=1,1;SAF=551,493;SAP=1199.49,1073.55;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:115:0,65,50:0:0:65,50:2304,1777:-332.857,-145.16,-125.593,-188.052,0,-173.001 1/2:34:0,15,19:0:0:15,19:540,673:-99.2402,-55.1764,-50.661,-44.4211,0,-38.7015 1/2:18:0,5,12:0:0:5,12:180,422:-49.1078,-34.4169,-32.9118,-14.7536,0,-11.1413 1/2:52:0,30,22:0:0:30,22:1072,768:-150.222,-62.8126,-53.7817,-87.7616,0,-81.1389 1/2:145:0,73,71:0:0:73,71:2611,2488:-415.447,-202.566,-180.591,-213.002,0,-191.629 1/2:50:0,29,21:0:0:29,21:1040,735:-144.98,-60.1492,-51.4193,-85.1845,0,-78.8629 1/2:72:0,45,27:0:0:45,27:1593,968:-209.065,-79.3096,-65.7632,-130.112,0,-121.984 2/2:39:0,0,39:0:0:0,39:0,1375:-124.046,-124.046,-124.046,-11.7402,-11.7402,0 1/2:85:0,38,46:0:0:38,46:1349,1652:-244.783,-134.869,-123.43,-110.017,0,-96.1693 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:6:0,5,1:0:0:5,1:180,36:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459 1/2:9:0,3,6:0:0:3,6:93,205:-24.158,-16.7031,-15.8001,-7.77364,0,-5.96746 1/2:50:0,24,26:0:0:24,26:864,932:-146.871,-76.3723,-69.1476,-70.8578,0,-63.0311 1/2:33:0,17,16:0:0:17,16:612,572:-96.9169,-46.9972,-41.8796,-50.2783,0,-45.4618 1/2:65:0,26,39:0:0:26,39:927,1373:-187.693,-112.126,-104.3,-75.9212,0,-64.1811 1/2:46:0,18,28:0:0:18,28:644,998:-134.221,-81.7058,-76.2873,-52.8721,0,-44.4432 1/2:85:0,48,37:0:0:48,37:1701,1309:-245.542,-106.971,-92.5215,-138.925,0,-127.786 1/2:39:0,22,17:0:0:22,17:788,608:-114.199,-49.9347,-43.3121,-64.6221,0,-59.5046 1/2:34:0,22,12:0:0:22,12:792,430:-100.049,-35.4277,-28.8051,-64.9797,0,-61.3673 1/1:30:0,29,1:0:0:29,1:1040,36:-93.5546,-8.72987,0,-90.6171,-5.43263,-90.3161 1/1:36:0,35,1:0:0:35,1:1245,36:-111.993,-10.5361,0,-109.055,-7.23881,-108.754 chr02 3042108 . AT AC 44423.1 PASS AB=0.474028;ABP=22.7495;AC=20;AF=0.47619;AN=42;AO=1801;CIGAR=1M1X;DP=3838;DPB=3838.5;DPRA=1.41927;EPP=67.3479;EPPR=170.59;GTI=0;LEN=1;MEANALT=1.15789;MQM=59.7962;MQMR=59.9523;NS=21;NUMALT=1;ODDS=26.3113;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=64153;QR=71850;RO=2032;RPL=1603;RPP=2383.1;RPPR=2343.75;RPR=198;RUN=1;SAF=818;SAP=35.8356;SAR=983;SRF=938;SRP=29.0167;SRR=1094;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:292:191,101:191:6764:101:3618:-237.633,0,-520.789 0/1:214:119,95:119:4197:95:3363:-238.452,0,-313.387 0/1:178:83,95:83:2948:95:3393:-251.998,0,-211.972 0/1:146:81,65:81:2836:65:2287:-162.139,0,-211.527 0/1:448:198,250:198:6983:250:8924:-668.277,0,-493.658 0/1:189:96,93:96:3370:93:3331:-242.843,0,-246.621 0/1:333:167,165:167:5925:165:5853:-426.651,0,-433.158 1/1:204:0,204:0:0:204:7259:-652.677,-61.4101,0 0/1:243:142,100:142:5007:100:3546:-246.254,0,-377.69 0/1:45:21,21:21:751:21:739:-53.8319,0,-54.9193 0/1:9:5,4:5:180:4:144:-10.596,0,-13.8428 0/1:36:12,24:12:425:24:864:-67.2455,0,-27.7499 0/1:184:99,85:99:3515:85:3038:-218.255,0,-261.172 0/1:225:97,128:97:3451:128:4587:-345.25,0,-243.071 0/1:203:100,103:100:3558:103:3660:-268.494,0,-259.315 0/1:146:75,71:75:2606:71:2543:-185.01,0,-190.836 0/1:153:84,69:84:2972:69:2449:-174.606,0,-221.654 0/1:173:87,86:87:3058:86:3051:-222.739,0,-223.37 0/1:152:110,42:110:3901:42:1504:-89.8795,0,-305.527 0/0:128:128,0:128:4537:0:0:0,-38.5318,-408.5 0/0:137:137,0:137:4866:0:0:0,-41.2411,-438.094 chr02 3087968 . CATAGTGCG TATCATGTG,TATCATGCA 25034.3 PASS AB=0.536471,0.450196;ABP=17.7405,30.4799;AC=22,20;AF=0.52381,0.47619;AN=42;AO=807,628;CIGAR=1X2M2X2M1X1M,1X2M2X3M1X;DP=1452;DPB=1452;DPRA=1.29444,1.13736;EPP=1755.39,1366.69;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.5,2.57895;MQM=37.4796,37.3631;MQMR=0;NS=21;NUMALT=2;ODDS=2.14216;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27913,22181;QR=0;RO=0;RPL=0,0;RPP=1755.39,1366.69;RPPR=0;RPR=807,628;RUN=1,1;SAF=0,0;SAP=1755.39,1366.69;SAR=807,628;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:114:0,68,43:0:0:68,43:2330,1510:-288.807,-113.01,-92.5401,-175.848,0,-162.904 1/2:80:0,50,28:0:0:50,28:1717,993:-209.303,-77.6062,-62.5547,-131.77,0,-123.342 1/2:79:0,46,27:0:0:46,27:1566,965:-189.667,-72.1592,-58.3118,-117.498,0,-109.371 1/2:48:0,25,23:0:0:25,23:852,810:-123.995,-60.1174,-52.5917,-64.1971,0,-57.2734 1/2:158:0,64,93:0:0:64,93:2209,3298:-410.728,-244.131,-224.865,-166.565,0,-138.569 1/2:77:0,37,39:0:0:37,39:1297,1376:-203.328,-104.148,-93.0103,-99.1926,0,-87.4525 1/2:72:0,40,32:0:0:40,32:1387,1122:-190.686,-85.0158,-72.9746,-105.998,0,-96.3646 2/2:54:0,0,54:0:0:0,54:0,1918:-161.412,-161.412,-161.412,-16.2556,-16.2556,0 1/2:119:0,70,48:0:0:70,48:2464,1696:-316.243,-128.489,-107.416,-187.836,0,-173.387 1/2:13:0,9,4:0:0:9,4:317,144:-35.5389,-11.0609,-8.35163,-24.8108,0,-23.6066 1/2:11:0,5,6:0:0:5,6:175,201:-28.4182,-15.5255,-14.0203,-13.2104,0,-11.4042 1/2:8:0,2,6:0:0:2,6:72,215:-21.6355,-15.8922,-15.2901,-6.08786,0,-4.28168 1/2:66:0,32,33:0:0:32,33:1109,1176:-173.261,-88.3787,-78.7458,-84.8923,0,-74.9584 1/2:52:0,24,28:0:0:24,28:811,984:-135.806,-74.5063,-67.2816,-61.6216,0,-53.1927 1/2:147:0,76,70:0:0:76,70:2632,2455:-379.532,-180.374,-157.495,-199.17,0,-178.098 1/2:42:0,28,14:0:0:28,14:1002,490:-113.976,-37.5313,-29.1025,-76.776,0,-72.5616 1/2:41:0,17,24:0:0:17,24:585,842:-109.394,-64.7646,-59.6471,-44.9575,0,-37.7327 1/2:95:0,54,40:0:0:54,40:1898,1423:-251.388,-105.699,-89.4433,-145.667,0,-133.626 1/2:53:0,37,16:0:0:37,16:1271,563:-135.882,-40.8126,-29.6745,-95.3852,0,-90.5688 1/1:73:0,73,0:0:0:73,0:2536,0:-214.2,-21.9752,0,-214.2,-21.9752,-214.2 1/1:50:0,50,0:0:0:50,0:1683,0:-142.219,-15.0515,0,-142.219,-15.0515,-142.219 chr02 3136848 . T A 23667.4 PASS AB=0.448482;ABP=53.128;AC=20;AF=0.47619;AN=42;AO=1127;CIGAR=1X;DP=2584;DPB=2584;DPRA=0.822973;EPP=1827.14;EPPR=1871.76;GTI=1;LEN=1;MEANALT=1.1;MQM=50.0807;MQMR=52.4708;NS=21;NUMALT=1;ODDS=2.92541;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40417;QR=52061;RO=1455;RPL=173;RPP=1178.27;RPPR=1008.96;RPR=954;RUN=1;SAF=1031;SAP=1687.44;SAR=96;SRF=1306;SRP=2000.84;SRR=149;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:74,57:74:2656:57:2048:-144.35,0,-195.153 0/1:114:50,64:50:1792:64:2300:-170.319,0,-120.199 0/1:79:46,33:46:1652:33:1188:-82.8316,0,-118.468 0/1:149:101,48:101:3612:48:1724:-109.736,0,-261.067 0/1:216:108,107:108:3876:107:3840:-279.255,0,-277.226 0/1:147:79,68:79:2832:68:2436:-172.137,0,-203.309 0/1:198:119,79:119:4237:79:2840:-192.815,0,-305.76 1/1:151:2,149:2:72:149:5332:-473.466,-43.1786,0 0/1:193:94,99:94:3359:99:3533:-258.958,0,-237.574 0/1:11:6,5:6:212:5:180:-13.1828,0,-16.0969 0/1:4:2,2:2:72:2:72:-5.51193,0,-5.59554 0/1:32:20,12:20:720:12:428:-28.9856,0,-53.14 0/1:183:94,89:94:3350:89:3184:-229.061,0,-235.793 0/1:125:67,57:67:2400:57:2040:-144.698,0,-173.806 0/1:145:66,79:66:2356:79:2840:-211.177,0,-164.574 0/1:87:47,40:47:1684:40:1436:-102.867,0,-122.049 0/1:85:51,34:51:1824:34:1220:-84.039,0,-134.175 0/1:140:73,67:73:2616:67:2408:-173.086,0,-191.11 0/1:135:100,35:100:3584:35:1260:-72.7001,0,-281.804 0/0:111:108,3:108:3851:3:108:0,-23.3979,-332.361 0/0:148:148,0:148:5304:0:0:0,-44.5524,-469.61 chr02 3136891 . G A 37099.4 PASS AB=0.343503;ABP=972.202;AC=20;AF=0.47619;AN=42;AO=1802;CIGAR=1X;DP=5331;DPB=5331;DPRA=1.34555;EPP=3916;EPPR=7659.62;GTI=2;LEN=1;MEANALT=1.15;MQM=54.0483;MQMR=34.962;NS=21;NUMALT=1;ODDS=27.954;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64271;QR=125059;RO=3526;RPL=918;RPP=4.40332;RPPR=959.121;RPR=884;RUN=1;SAF=918;SAP=4.40332;SAR=884;SRF=1140;SRP=959.121;SRR=2386;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:323:219,104:219:7761:104:3708:-236.019,0,-363.073 0/1:260:171,89:171:6037:89:3180:-205.689,0,-303.553 0/1:211:141,70:141:5025:70:2492:-160.435,0,-238.284 0/1:260:176,84:176:6227:84:2992:-190.459,0,-331.005 0/1:440:287,153:287:10252:153:5467:-358.341,0,-490.097 0/1:267:160,107:160:5654:107:3821:-261.019,0,-301.005 0/1:382:241,140:241:8528:140:4981:-330.483,0,-408.72 1/1:334:100,234:100:3514:234:8360:-650.628,-2.05816,0 0/1:443:276,167:276:9809:167:5952:-401.436,0,-364.801 0/1:35:28,7:28:1000:7:252:-12.4354,0,-36.7107 0/1:18:13,5:13:468:5:180:-11.0167,0,-21.124 0/1:81:61,20:61:2113:20:712:-39.783,0,-90.0946 0/1:326:206,120:206:7371:120:4246:-281.801,0,-373.572 0/1:257:162,95:162:5656:95:3403:-228.396,0,-300.904 0/1:343:213,130:213:7577:130:4657:-315.027,0,-331.944 0/1:188:124,64:124:4434:64:2291:-149.34,0,-233.404 0/1:176:123,52:123:4381:52:1864:-114.757,0,-233.009 0/1:301:188,113:188:6677:113:3993:-267.239,0,-276.957 0/1:245:199,45:199:7044:45:1612:-71.2348,0,-385.935 0/0:250:247,3:247:8774:3:108:0,-65.2411,-594.819 0/0:191:191,0:191:6757:0:0:0,-57.4967,-468.033 chr02 3136923 . A T 40070.3 PASS AB=0.526791;ABP=23.721;AC=21;AF=0.5;AN=42;AO=1750;CIGAR=1X;DP=3322;DPB=3322;DPRA=0;EPP=3803.09;EPPR=3407.88;GTI=20;LEN=1;MEANALT=1.09524;MQM=59.976;MQMR=10.4994;NS=21;NUMALT=1;ODDS=32.6589;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62739;QR=56010;RO=1568;RPL=1750;RPP=3803.09;RPPR=3407.88;RPR=0;RUN=1;SAF=0;SAP=3803.09;SAR=1750;SRF=0;SRP=3407.88;SRR=1568;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:215:103,112:103:3659:112:4018:-297.086,0,-28.5064 0/1:156:70,86:70:2512:86:3073:-229.833,0,-24.4396 0/1:141:62,79:62:2207:79:2840:-213.392,0,-13.8377 0/1:131:60,71:60:2148:71:2544:-189.776,0,-14.8778 0/1:258:127,131:127:4548:131:4708:-345.585,0,-36.7933 0/1:141:55,86:55:1960:86:3088:-235.702,0,-11.8637 0/1:215:100,112:100:3588:112:3988:-294.928,0,-34.6409 0/1:225:99,126:99:3540:126:4517:-338.963,0,-29.6368 0/1:297:165,132:165:5885:132:4744:-337.709,0,-59.1882 0/1:33:21,12:21:756:12:432:-29.2872,0,-12.3443 0/1:14:7,7:7:252:7:248:-18.4498,0,-2.8175 0/1:55:37,18:37:1305:18:633:-40.7384,0,-19.7426 0/1:175:77,98:77:2760:98:3524:-264.688,0,-17.0971 0/1:159:57,102:57:2027:102:3660:-281.739,0,-4.89199 0/1:224:106,118:106:3792:118:4229:-313.357,0,-29.7233 0/1:109:47,62:47:1672:62:2224:-167.612,0,-11.8446 0/1:102:48,54:48:1708:54:1936:-143.811,0,-13.9528 0/1:215:106,109:106:3775:109:3908:-287.19,0,-39.5576 0/1:166:76,90:76:2708:90:3236:-241.49,0,-18.7218 0/1:166:82,84:82:2940:84:2997:-219.99,0,-30.8611 0/1:125:63,61:63:2268:61:2192:-159.858,0,-24.4549 chr02 3153776 . A G 26441.3 PASS AB=0.554162;ABP=70.0486;AC=22;AF=0.52381;AN=42;AO=1514;CIGAR=1X;DP=2745;DPB=2745;DPRA=2.31638;EPP=3290.62;EPPR=2671.75;GTI=0;LEN=1;MEANALT=1.1;MQM=59.8917;MQMR=59.9325;NS=21;NUMALT=1;ODDS=15.5883;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53725;QR=43933;RO=1229;RPL=1514;RPP=3290.62;RPPR=2654.41;RPR=0;RUN=1;SAF=1514;SAP=3290.62;SAR=0;SRF=1227;SRP=2654.41;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:49,36:49:1764:36:1259:-88.0235,0,-133.456 0/1:77:33,44:33:1172:44:1572:-118.59,0,-82.6082 0/1:62:28,34:28:974:34:1203:-89.9103,0,-69.3043 0/1:42:22,20:22:788:20:716:-52.1245,0,-58.6015 0/1:75:22,53:22:784:53:1891:-147.89,0,-48.2782 0/1:53:25,28:25:892:28:999:-74.2699,0,-64.6451 0/1:73:28,45:28:996:45:1593:-121.684,0,-67.9797 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/1:63:35,28:35:1256:28:996:-70.99,0,-94.3804 0/1:477:213,263:213:7613:263:9385:-700.815,0,-541.312 0/1:524:224,299:224:7998:299:10584:-794.494,0,-562.134 0/1:225:101,124:101:3609:124:4380:-326.639,0,-257.283 0/1:105:35,70:35:1248:70:2508:-194.364,0,-81.0167 0/1:69:30,39:30:1080:39:1400:-105.528,0,-76.7422 0/1:61:30,31:30:1076:31:1099:-80.8566,0,-78.79 0/1:37:20,17:20:712:17:603:-43.4614,0,-53.2685 0/1:55:18,37:18:648:37:1320:-102.545,0,-42.0952 0/1:513:249,264:249:8919:264:9294:-682.012,0,-648.035 0/1:35:9,26:9:324:26:928:-73.3022,0,-18.9698 1/1:31:0,31:0:0:31:1107:-99.9402,-9.33193,0 1/1:25:0,25:0:0:25:888:-80.239,-7.52575,0 chr02 3184018 . G A 17274.3 PASS AB=0.466595;ABP=20.9998;AC=22;AF=0.52381;AN=42;AO=998;CIGAR=1X;DP=2095;DPB=2095;DPRA=0.947619;EPP=2170.14;EPPR=2380.77;GTI=2;LEN=1;MEANALT=1.1;MQM=60;MQMR=59.989;NS=21;NUMALT=1;ODDS=0.95983;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35768;QR=39043;RO=1095;RPL=0;RPP=2170.14;RPPR=2380.77;RPR=998;RUN=1;SAF=998;SAP=2170.14;SAR=0;SRF=1095;SRP=2380.77;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:59,46:59:2066:46:1656:-117.36,0,-154.24 0/1:97:62,35:62:2220:35:1252:-83.7852,0,-170.865 0/1:108:59,49:59:2105:49:1748:-125.093,0,-157.206 0/1:136:72,64:72:2554:64:2292:-165.601,0,-189.168 0/1:200:108,92:108:3861:92:3304:-237.372,0,-287.478 0/1:113:68,45:68:2425:45:1616:-111.714,0,-184.488 0/1:81:44,37:44:1565:37:1328:-95.4388,0,-116.756 0/0:105:105,0:105:3693:0:0:0,-31.6081,-332.569 0/1:187:91,96:91:3272:96:3433:-252.889,0,-238.406 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:10:8,2:8:284:2:72:-3.82642,0,-22.8931 0/1:39:19,20:19:684:20:720:-53.3886,0,-50.1502 0/1:154:79,75:79:2828:75:2677:-194.815,0,-208.4 0/1:151:88,63:88:3133:63:2249:-157.217,0,-236.735 0/1:178:85,93:85:3056:93:3348:-247.952,0,-221.685 0/1:96:57,39:57:2044:39:1389:-96.4081,0,-155.333 0/1:52:32,20:32:1148:20:716:-49.1142,0,-87.9763 0/1:52:20,32:20:720:32:1152:-88.3366,0,-49.4752 0/1:89:33,56:33:1169:56:2012:-154.561,0,-78.7236 1/1:72:1,70:1:36:70:2504:-222.014,-18.1347,0 1/1:62:0,62:0:0:62:2228:-200.784,-18.6639,0 chr02 3257220 . TAGAGAGAGGA TAGAGAGGA 11221 PASS AB=0.483516;ABP=6.23172;AC=19;AF=0.452381;AN=42;AO=712;CIGAR=1M2D8M;DP=1568;DPB=1436.91;DPRA=2.35821;EPP=1549.1;EPPR=1818.37;GTI=0;LEN=2;MEANALT=1.73684;MQM=59.0899;MQMR=54.794;NS=21;NUMALT=1;ODDS=4.28256;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24509;QR=28730;RO=840;RPL=0;RPP=1549.1;RPPR=1818.37;RPR=712;RUN=1;SAF=0;SAP=1549.1;SAR=712;SRF=0;SRP=1827.05;SRR=840;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:36,21:36:1246:21:752:-50.8108,0,-94.9095 0/1:39:8,31:8:271:31:1070:-84.8566,0,-12.9551 0/1:77:35,40:35:1202:40:1386:-102.138,0,-85.4224 0/1:131:77,52:77:2631:52:1772:-120.617,0,-197.568 0/1:182:74,106:74:2525:106:3629:-271.918,0,-171.858 0/1:52:29,23:29:983:23:796:-56.2968,0,-72.9702 0/1:106:54,51:54:1857:51:1749:-125.628,0,-135.151 1/1:50:0,50:0:0:50:1713:-154.416,-15.0515,0 0/1:119:71,48:71:2462:48:1632:-111.312,0,-185.93 0/1:5:3,2:3:105:2:64:-4.57299,0,-8.2754 0/0:4:4,0:4:123:0:0:0,-1.20412,-11.3689 0/1:24:19,5:19:638:5:180:-9.32272,0,-50.1234 0/1:107:64,43:64:2154:43:1480:-101.237,0,-161.707 0/1:66:29,36:29:1005:36:1250:-92.8328,0,-70.7155 0/1:88:42,45:42:1436:45:1564:-114.648,0,-103.014 0/1:77:30,45:30:1040:45:1538:-115.759,0,-70.9735 0/1:70:24,46:24:824:46:1588:-122.134,0,-53.3849 0/1:104:54,48:54:1831:48:1665:-118.95,0,-133.627 0/1:61:41,18:41:1394:18:618:-37.862,0,-107.525 0/0:86:83,2:83:2830:2:63:0,-19.9407,-248.43 0/0:63:63,0:63:2173:0:0:0,-18.9649,-195.523 chr02 3257239 . A G 13412 PASS AB=0.514245;ABP=5.48491;AC=19;AF=0.452381;AN=42;AO=778;CIGAR=1X;DP=1608;DPB=1608;DPRA=2.42105;EPP=1692.42;EPPR=1770.76;GTI=0;LEN=1;MEANALT=1;MQM=58.865;MQMR=54.712;NS=21;NUMALT=1;ODDS=3.21714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27786;QR=29666;RO=830;RPL=0;RPP=1692.42;RPPR=1770.76;RPR=778;RUN=1;SAF=0;SAP=1692.42;SAR=778;SRF=0;SRP=1805.33;SRR=830;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:35,23:35:1256:23:822:-56.8245,0,-95.4624 0/1:43:8,35:8:288:35:1252:-100.029,0,-13.2859 0/1:76:32,44:32:1144:44:1584:-119.902,0,-80.2235 0/1:131:76,55:76:2719:55:1975:-138.507,0,-205.169 0/1:185:72,113:72:2571:113:4037:-307.181,0,-174.897 0/1:57:29,28:29:1044:28:989:-72.1509,0,-76.9197 0/1:114:53,61:53:1904:61:2171:-161.088,0,-136.959 1/1:54:0,54:0:0:54:1927:-173.652,-16.2556,0 0/1:119:69,50:69:2476:50:1772:-123.918,0,-187.173 0/1:7:3,4:3:104:4:140:-10.8347,0,-7.58024 0/0:4:4,0:4:135:0:0:0,-1.20412,-12.4679 0/1:25:19,6:19:676:6:216:-12.2592,0,-53.2193 0/1:109:63,46:63:2247:46:1648:-115.746,0,-169.261 0/1:68:30,38:30:1076:38:1352:-101.437,0,-76.4344 0/1:92:41,51:41:1468:51:1828:-137.095,0,-104.617 0/1:76:30,46:30:1080:46:1648:-125.638,0,-74.6077 0/1:74:24,50:24:860:50:1769:-137.212,0,-55.4153 0/1:109:56,53:56:1985:53:1900:-138.306,0,-145.302 0/1:61:42,19:42:1496:19:684:-43.5229,0,-115.623 0/0:83:81,2:81:2882:2:72:0,-18.1507,-251.956 0/0:63:63,0:63:2255:0:0:0,-18.9649,-202.771 chr02 3285088 . G A 5459.45 PASS AB=0.442136;ABP=22.6115;AC=20;AF=0.47619;AN=42;AO=365;CIGAR=1X;DP=823;DPB=823;DPRA=0.95122;EPP=778.321;EPPR=954.589;GTI=3;LEN=1;MEANALT=1;MQM=38.2685;MQMR=52.1812;NS=21;NUMALT=1;ODDS=1.30051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12895;QR=16355;RO=458;RPL=2;RPP=778.321;RPPR=954.589;RPR=363;RUN=1;SAF=365;SAP=795.598;SAR=0;SRF=458;SRP=997.545;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:33:16,17:16:576:17:593:-40.8029,0,-42.1098 0/1:13:9,4:9:324:4:140:-8.57019,0,-25.5707 0/1:52:28,24:28:993:24:856:-57.1361,0,-73.6324 0/1:32:14,18:14:495:18:648:-44.2791,0,-35.0805 0/1:67:40,27:40:1432:27:926:-58.5692,0,-108.522 0/1:10:4,6:4:144:6:216:-16.2545,0,-10.2525 0/1:43:20,23:20:711:23:802:-57.4486,0,-51.3417 1/1:67:0,67:0:0:67:2359:-201.04,-20.169,0 0/1:108:65,43:65:2332:43:1544:-98.6706,0,-176.735 0/1:5:4,1:4:144:1:36:-1.91845,0,-11.775 0/1:4:1,3:1:36:3:108:-7.92227,0,-2.39244 0/1:19:7,12:7:252:12:413:-30.0966,0,-17.2564 0/1:50:33,17:33:1180:17:593:-34.7028,0,-91.1128 0/1:50:25,25:25:887:25:892:-61.439,0,-64.9167 0/1:79:47,32:47:1679:32:1144:-73.0033,0,-127.052 0/1:13:5,8:5:180:8:288:-20.0597,0,-12.587 0/1:8:7,1:7:237:1:36:-0.97936,0,-19.1846 0/1:41:19,22:19:680:22:791:-53.6173,0,-49.0577 0/1:47:32,15:32:1144:15:510:-29.814,0,-88.3298 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.119 0/0:25:25,0:25:881:0:0:0,-7.52575,-79.453 chr02 3307939 . ATAAAAG ACTAAAAA,AGTAAAAA 13907.8 PASS AB=0.689751,0.293629;ABP=228.807,270.095;AC=29,13;AF=0.690476,0.309524;AN=42;AO=934,278;CIGAR=1M1I5M1X,1M1I5M1X;DP=1235;DPB=1410.14;DPRA=0.99661,2.36762;EPP=2031.17,606.68;EPPR=0;GTI=10;LEN=8,8;MEANALT=2.55,2.6875;MQM=29.485,21.2158;MQMR=0;NS=21;NUMALT=2;ODDS=73.7184;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=12,12;PQR=0;PRO=0;QA=27160,5898;QR=0;RO=0;RPL=0,0;RPP=2031.17,606.68;RPPR=0;RPR=934,278;RUN=1,1;SAF=934,278;SAP=2031.17,606.68;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,61,14:0:0:61,14:1743,294:-141.571,-18.4395,-0.0766396,-123.11,0,-118.896 1/1:25:0,25,0:0:0:25,0:747,0:-61.1995,-7.52575,0,-61.1995,-7.52575,-61.1995 1/2:80:0,48,32:0:0:48,32:1357,672:-137.805,-42.4072,-27.9578,-95.6073,0,-85.9743 1/2:58:0,39,19:0:0:39,19:1148,399:-106.697,-25.2524,-13.5123,-81.6521,0,-75.9326 1/2:105:0,76,26:0:0:76,26:2216,546:-190.508,-34.2529,-11.3746,-156.218,0,-148.391 1/1:39:0,37,0:0:0:37,0:1128,0:-91.7782,-11.1381,0,-91.7782,-11.1381,-91.7782 1/1:87:0,85,1:0:0:85,1:2552,26:-208.119,-25.5876,0,-206.351,-23.8315,-206.05 2/2:59:0,0,58:0:0:0,58:0,1223:-94.407,-94.407,-94.407,-17.4597,-17.4597,0 1/1:91:0,87,4:0:0:87,4:2410,90:-194.115,-26.1896,0,-188.301,-20.1777,-187.097 1/1:19:0,16,0:0:0:16,0:459,0:-37.4348,-4.81648,0,-37.4348,-4.81648,-37.4348 1/2:6:0,4,2:0:0:4,2:124,52:-12.6731,-3.76702,-2.5629,-9.15271,0,-8.55065 1/2:29:0,18,10:0:0:18,10:520,215:-50.3747,-13.5974,-8.17884,-36.7553,0,-33.745 1/2:76:0,45,29:0:0:45,29:1289,609:-129.539,-38.2193,-24.673,-91.3001,0,-82.5703 1/2:104:0,77,26:0:0:77,26:2222,567:-193.896,-36.1665,-12.9872,-157.719,0,-149.892 1/2:93:0,70,23:0:0:70,23:2047,483:-174.803,-30.5308,-9.45873,-144.472,0,-137.549 1/1:28:0,27,1:0:0:27,1:767,24:-61.9923,-8.12781,0,-60.4051,-6.329,-60.1041 1/1:23:0,22,0:0:0:22,0:626,0:-50.3681,-6.62266,0,-50.3681,-6.62266,-50.3681 1/2:46:0,23,22:0:0:23,22:666,462:-76.0193,-28.9764,-22.0527,-47.0261,0,-40.4035 1/2:48:0,37,9:0:0:37,9:1073,194:-87.957,-12.2775,-1.13934,-75.6456,0,-72.9363 1/1:104:0,100,2:0:0:100,2:2931,42:-237.225,-30.103,0,-234.587,-27.4781,-233.985 1/1:38:0,37,0:0:0:37,0:1135,0:-92.1523,-11.1381,0,-92.1523,-11.1381,-92.1523 chr02 3307965 . TTTG CTTG,CTTT 14526.6 PASS AB=0.694857,0.305143;ABP=291.583,291.583;AC=27,15;AF=0.642857,0.357143;AN=42;AO=944,334;CIGAR=1X3M,1X2M1X;DP=1278;DPB=1278;DPRA=0,2.22951;EPP=2052.88,719.622;EPPR=0;GTI=8;LEN=1,4;MEANALT=1.80952,2;MQM=29.3517,20.9162;MQMR=0;NS=21;NUMALT=2;ODDS=0.982378;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27647,11836;QR=0;RO=0;RPL=944,333;RPP=2052.88,719.622;RPPR=0;RPR=0,1;RUN=1,1;SAF=944,334;SAP=2052.88,728.282;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:75:0,61,14:0:0:61,14:1775,489:-147.118,-22.1995,-3.83664,-125.137,0,-120.922 1/1:25:0,25,0:0:0:25,0:767,0:-62.5378,-7.52575,0,-62.5378,-7.52575,-62.5378 1/2:79:0,47,32:0:0:47,32:1353,1150:-145.594,-50.6632,-36.5148,-95.1596,0,-85.5267 1/2:59:0,39,20:0:0:39,20:1146,691:-113.012,-31.5111,-19.7709,-81.7279,0,-75.7073 1/2:106:0,79,27:0:0:79,27:2295,941:-204.219,-42.7947,-19.0133,-161.646,0,-153.519 1/1:40:0,40,0:0:0:40,0:1221,0:-99.3354,-12.0412,0,-99.3354,-12.0412,-99.3354 1/1:89:0,87,2:0:0:87,2:2655,71:-215.656,-26.1896,0,-211.662,-21.9397,-211.06 2/2:60:0,1,59:0:0:1,59:25,2101:-111.092,-109.414,-109.113,-17.7608,-15.8621,0 1/2:124:0,84,40:0:0:84,40:2348,1429:-220.959,-57.4333,-32.1468,-163.737,0,-151.696 1/1:18:0,18,0:0:0:18,0:519,0:-42.0971,-5.41854,0,-42.0971,-5.41854,-42.0971 1/2:6:0,4,2:0:0:4,2:120,68:-12.8731,-4.20646,-3.00234,-8.9266,0,-8.32454 1/2:28:0,18,10:0:0:18,10:523,359:-53.214,-16.4042,-10.9856,-37.04,0,-34.0297 1/2:75:0,43,32:0:0:43,32:1257,1128:-139.442,-50.7796,-37.8353,-88.8941,0,-79.2612 1/2:101:0,75,26:0:0:75,26:2202,923:-198.58,-42.938,-20.3608,-155.87,0,-148.043 1/2:92:0,69,23:0:0:69,23:2009,814:-178.031,-36.3949,-15.6238,-141.858,0,-134.934 1/2:36:0,26,10:0:0:26,10:741,360:-66.5123,-14.6412,-6.81444,-52.082,0,-49.0717 1/1:29:0,25,4:0:0:25,4:707,137:-56.9203,-7.52575,0,-51.353,-1.76121,-50.1489 1/2:47:0,25,22:0:0:25,22:727,785:-86.0284,-34.8632,-27.3374,-51.3982,0,-44.7755 1/2:47:0,38,9:0:0:38,9:1105,318:-92.5645,-14.8008,-3.36166,-77.9863,0,-75.277 1/1:103:0,101,2:0:0:101,2:2960,72:-239.298,-30.404,0,-236.145,-27.0416,-235.543 1/1:39:0,39,0:0:0:39,0:1192,0:-96.9963,-11.7402,0,-96.9963,-11.7402,-96.9963 chr02 3503179 . AGGC TGGC,TGGT 17368.8 PASS AB=0.730469,0.261719;ABP=239.226,255.512;AC=25,17;AF=0.595238,0.404762;AN=42;AO=690,167;CIGAR=1X3M,1X2M1X;DP=863;DPB=863;DPRA=1.49107,0.56415;EPP=1501.33,365.646;EPPR=0;GTI=5;LEN=1,4;MEANALT=2,2.17647;MQM=59.9841,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.473688;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24501,5653;QR=0;RO=0;RPL=0,0;RPP=1501.33,365.646;RPPR=0;RPR=690,167;RUN=1,1;SAF=0,0;SAP=1501.33,365.646;SAR=690,167;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:29:0,23,6:0:0:23,6:824,208:-84.4636,-17.2529,-10.3292,-67.5596,0,-65.7534 1/2:11:0,9,2:0:0:9,2:320,57:-30.9469,-4.81157,-2.1023,-26.4331,0,-25.831 1/2:19:0,13,6:0:0:13,6:460,192:-53.2797,-15.7883,-11.8749,-37.822,0,-36.0158 1/2:36:0,22,14:0:0:22,14:777,474:-102.052,-38.7687,-32.146,-63.6277,0,-59.4133 1/2:68:0,56,12:0:0:56,12:2000,399:-195.697,-32.6176,-15.76,-163.416,0,-159.804 1/2:18:0,9,9:0:0:9,9:324,315:-52.4205,-25.9787,-23.2695,-26.7966,0,-24.0873 1/2:31:0,19,11:0:0:19,11:663,382:-84.9684,-31.0429,-25.3233,-53.9146,0,-50.6033 2/2:28:0,0,27:0:0:0,27:0,892:-80.3291,-80.3291,-80.3291,-8.12781,-8.12781,0 1/2:45:0,34,11:0:0:34,11:1220,383:-131.014,-31.4928,-21.2578,-99.8718,0,-96.5605 1/1:86:0,86,0:0:0:86,0:3062,0:-275.81,-25.8886,0,-275.81,-25.8886,-275.81 1/1:118:0,117,0:0:0:117,0:4126,0:-371.165,-35.2205,0,-371.165,-35.2205,-371.165 1/1:69:0,63,6:0:0:63,6:2247,211:-202.123,-18.9649,0,-184.948,-1.43762,-183.142 1/2:38:0,24,12:0:0:24,12:856,413:-103.373,-33.5809,-26.3562,-69.8321,0,-66.2197 1/2:35:0,16,19:0:0:16,19:568,636:-98.1243,-51.8345,-47.018,-46.6354,0,-40.9158 1/2:24:0,16,8:0:0:16,8:561,284:-69.1436,-23.4955,-18.679,-46.0015,0,-43.5933 1/2:20:0,17,3:0:0:17,3:592,106:-57.1203,-8.98607,-3.86856,-48.4866,0,-47.5835 1/2:13:0,10,3:0:0:10,3:341,96:-35.7372,-8.05449,-5.04419,-28.0075,0,-27.1044 1/2:96:0,83,12:0:0:83,12:2959,410:-274.58,-33.359,-8.37348,-241.307,0,-237.694 1/2:29:0,23,6:0:0:23,6:824,195:-83.2912,-16.0634,-9.13967,-67.5596,0,-65.7534 1/1:41:0,41,0:0:0:41,0:1453,0:-131.064,-12.3422,0,-131.064,-12.3422,-131.064 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 chr02 3503200 . G A 1748.68 PASS AB=0.25969;ABP=261.836;AC=17;AF=0.404762;AN=42;AO=166;CIGAR=1X;DP=874;DPB=874;DPRA=0.549618;EPP=363.475;EPPR=1505.87;GTI=5;LEN=1;MEANALT=1;MQM=60;MQMR=59.9845;NS=21;NUMALT=1;ODDS=0.908814;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5924;QR=25090;RO=708;RPL=0;RPP=363.475;RPPR=1505.87;RPR=166;RUN=1;SAF=0;SAP=363.475;SAR=166;SRF=0;SRP=1540.41;SRR=708;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:25,6:25:884:6:216:-10.4586,0,-70.5464 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/1:20:14,6:14:500:6:216:-13.7699,0,-39.3156 0/1:35:21,14:21:748:14:504:-35.162,0,-57.1092 0/1:70:58,12:58:2080:12:432:-18.1491,0,-166.398 0/1:18:9,9:9:311:9:324:-24.0873,0,-22.9052 0/1:31:20,11:20:712:11:396:-26.6508,0,-55.0747 1/1:26:0,26:0:0:26:913:-82.484,-7.82678,0 0/1:46:35,11:35:1238:11:392:-21.7727,0,-97.8755 0/0:86:86,0:86:3056:0:0:0,-25.8886,-275.268 0/0:125:125,0:125:4428:0:0:0,-37.6287,-398.694 0/0:70:64,6:64:2279:6:216:0,-1.28159,-185.564 0/1:39:24,15:24:846:15:536:-36.8346,0,-64.7176 0/1:33:16,17:16:557:17:604:-44.7566,0,-40.5216 0/1:25:17,8:17:603:8:284:-18.3776,0,-47.0738 0/1:20:17,3:17:599:3:108:-4.05457,0,-48.2175 0/1:14:11,3:11:388:3:108:-5.86075,0,-31.0429 0/1:96:84,12:84:2951:12:423:-9.50619,0,-236.923 0/1:28:22,6:22:773:6:216:-11.3617,0,-61.4606 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/0:9:9,0:9:309:0:0:0,-2.70927,-28.1407 chr02 3509804 . A G 9646.91 PASS AB=0.520548;ABP=6.49061;AC=22;AF=0.52381;AN=42;AO=567;CIGAR=1X;DP=1091;DPB=1091;DPRA=0.764179;EPP=1234.24;EPPR=1140.86;GTI=0;LEN=1;MEANALT=1;MQM=59.9771;MQMR=60;NS=21;NUMALT=1;ODDS=4.62188;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19953;QR=18629;RO=524;RPL=567;RPP=1234.24;RPPR=1140.86;RPR=0;RUN=1;SAF=567;SAP=1234.24;SAR=0;SRF=524;SRP=1140.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:14,45:14:496:45:1590:-125.628,0,-27.2135 0/1:24:10,14:10:360:14:481:-36.3841,0,-25.5196 0/1:56:24,32:24:856:32:1144:-86.4118,0,-60.5034 0/1:39:20,19:20:699:19:676:-49.4278,0,-51.4923 0/1:87:43,44:43:1516:44:1567:-115.131,0,-110.544 0/1:49:28,21:28:1004:21:715:-49.9133,0,-75.9254 0/1:60:28,32:28:1008:32:1125:-83.4942,0,-72.9746 0/0:67:67,0:67:2371:0:0:0,-20.169,-213.649 0/1:51:25,26:25:883:26:918:-67.5827,0,-64.4349 0/1:12:7,5:7:248:5:171:-12.1131,0,-19.0518 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 0/1:55:25,30:25:896:30:1062:-79.3333,0,-64.4037 0/1:66:37,29:37:1320:29:1031:-73.2346,0,-99.234 0/1:66:40,26:40:1432:26:923:-63.5194,0,-109.31 0/1:29:14,15:14:504:15:536:-39.8449,0,-36.9682 0/1:31:18,13:18:636:13:451:-31.5871,0,-48.2361 0/1:161:81,80:81:2864:80:2780:-201.972,0,-209.531 0/1:88:31,57:31:1104:57:1988:-152.697,0,-73.18 1/1:30:1,29:1:36:29:1029:-89.3237,-5.43263,0 1/1:45:1,44:1:36:44:1550:-136.19,-9.94808,0 chr02 3519259 . GATA AATG,GATG 39450 PASS AB=0.491018,0.508483;ABP=4.41461,4.26291;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1198,1154;CIGAR=1X2M1X,3M1X;DP=2354;DPB=2354;DPRA=0.815441,1.05263;EPP=2604.43,2500.21;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.95,2.05263;MQM=29.7028,41.896;MQMR=0;NS=21;NUMALT=2;ODDS=3.61225;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42508,41310;QR=0;RO=0;RPL=1198,1153;RPP=2604.43,2500.21;RPPR=0;RPR=0,1;RUN=1,1;SAF=1198,1154;SAP=2604.43,2508.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:153:0,68,85:0:0:68,85:2429,3040:-397.047,-240.349,-219.879,-157.013,0,-131.425 1/2:110:0,50,60:0:0:50,60:1786,2141:-280.36,-168.743,-153.692,-111.927,0,-93.8651 1/2:98:0,49,49:0:0:49,49:1729,1756:-251.51,-139.558,-124.808,-112.27,0,-97.5196 1/2:166:0,86,80:0:0:86,80:3049,2871:-424.634,-227.66,-201.771,-197.294,0,-173.211 1/2:214:0,111,103:0:0:111,103:3951,3704:-549.239,-293.396,-259.981,-256.164,0,-225.158 1/2:151:0,77,74:0:0:77,74:2726,2656:-380.539,-209.642,-186.463,-171.211,0,-148.935 1/2:176:0,73,103:0:0:73,103:2588,3696:-455.3,-293.043,-271.068,-162.565,0,-131.559 2/2:136:0,0,135:0:0:0,135:0,4833:-424.078,-424.078,-424.078,-40.6391,-40.6391,0 1/2:147:0,61,86:0:0:61,86:2145,3073:-376.078,-241.031,-222.669,-135.353,0,-109.465 1/2:10:0,6,4:0:0:6,4:210,144:-25.5106,-11.8236,-10.0174,-14.0133,0,-12.8091 1/2:9:0,5,4:0:0:5,4:169,129:-21.141,-10.4552,-8.95007,-10.9815,0,-9.77735 1/2:15:0,3,12:0:0:3,12:107,432:-41.6521,-34.75,-33.8469,-7.20413,0,-3.59177 1/2:133:0,65,67:0:0:65,67:2314,2408:-339.945,-190.326,-170.759,-149.646,0,-129.477 1/2:139:0,73,66:0:0:73,66:2568,2368:-354.353,-187.789,-165.813,-166.884,0,-147.016 1/2:183:0,101,82:0:0:101,82:3606,2913:-463.995,-230.983,-200.579,-233.333,0,-208.648 1/2:65:0,38,27:0:0:38,27:1359,951:-159.414,-74.4159,-62.9767,-85.3128,0,-77.185 1/2:87:0,38,49:0:0:38,49:1345,1764:-223.006,-138.599,-127.16,-84.7167,0,-69.9662 1/2:77:0,41,36:0:0:41,36:1457,1287:-195.397,-101.146,-88.8037,-94.5695,0,-83.7324 1/2:71:0,39,32:0:0:39,32:1387,1144:-180.113,-89.8232,-78.0831,-90.6103,0,-80.9773 1/1:164:0,164,0:0:0:164,0:5817,0:-426.335,-49.3689,0,-426.335,-49.3689,-426.335 1/1:50:0,50,0:0:0:50,0:1766,0:-126.493,-15.0515,0,-126.493,-15.0515,-126.493 chr02 3544537 . C T 9828.59 PASS AB=0.496762;ABP=3.10873;AC=20;AF=0.47619;AN=42;AO=590;CIGAR=1X;DP=1220;DPB=1220;DPRA=0;EPP=1284.18;EPPR=1368.87;GTI=0;LEN=1;MEANALT=1.04762;MQM=47.4932;MQMR=59.9348;NS=21;NUMALT=1;ODDS=4.90995;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21074;QR=22497;RO=629;RPL=0;RPP=1284.18;RPPR=1368.87;RPR=590;RUN=1;SAF=590;SAP=1284.18;SAR=0;SRF=629;SRP=1368.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:51,58:51:1828:58:2076:-152.483,0,-131.662 0/1:46:31,15:31:1091:15:536:-34.4727,0,-84.6514 0/1:44:22,22:22:792:22:792:-57.7177,0,-58.3604 0/1:47:30,17:30:1068:17:608:-40.4034,0,-82.2837 0/1:127:60,67:60:2148:67:2396:-175.768,0,-155.357 0/1:34:12,22:12:428:22:782:-60.0524,0,-28.6238 0/1:92:42,50:42:1504:50:1791:-132.275,0,-107.96 1/1:50:0,50:0:0:50:1788:-160.036,-15.0515,0 0/1:97:45,52:45:1616:52:1868:-137.279,0,-116.53 0/1:22:14,8:14:500:8:288:-19.4798,0,-38.7135 0/1:11:8,3:8:284:3:108:-6.70922,0,-22.592 0/1:20:16,4:16:576:4:144:-7.20111,0,-46.1544 0/1:87:34,53:34:1220:53:1851:-137.816,0,-83.9172 0/1:52:27,25:27:947:25:896:-64.6406,0,-69.8902 0/1:77:42,35:42:1504:35:1256:-87.9389,0,-112.439 0/1:46:23,23:23:828:23:828:-59.3136,0,-60.9886 0/1:29:18,11:18:648:11:396:-26.9383,0,-49.922 0/1:69:30,39:30:1080:39:1385:-103.117,0,-76.7398 0/1:71:38,33:38:1355:33:1177:-83.5792,0,-100.877 0/0:47:45,2:45:1608:2:72:0,-7.33529,-138.197 0/0:42:41,1:41:1472:1:36:0,-9.06449,-129.197 chr02 3544569 . ATATT ATATA,GTATA 80183.2 PASS AB=0.493084,0.504673;ABP=4.12161,3.51765;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1597,1495;CIGAR=4M1X,1X3M1X;DP=3099;DPB=3099;DPRA=0,0;EPP=3470.85,3249.36;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.28571,2.28571;MQM=59.6875,51.386;MQMR=60;NS=21;NUMALT=2;ODDS=33.8787;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57100,52916;QR=36;RO=1;RPL=627,593;RPP=162.98,141.695;RPPR=5.18177;RPR=970,902;RUN=1,1;SAF=627,593;SAP=162.98,141.695;SAR=970,902;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:223:0,113,110:0:0:113,110:4023,3927:-646.181,-318.311,-284.295,-328.225,0,-295.112 1/2:133:0,73,60:0:0:73,60:2616,2110:-383.736,-170.377,-148.402,-213.712,0,-195.651 1/2:103:0,57,46:0:0:57,46:2025,1631:-296.903,-131.896,-114.737,-165.36,0,-151.512 1/2:166:0,90,75:0:0:90,75:3230,2649:-478.388,-215.111,-188.018,-263.38,0,-240.803 1/2:307:0,143,163:0:0:143,163:5113,5749:-882.055,-465.384,-422.336,-416.692,0,-367.624 1/2:141:0,54,87:0:0:54,87:1929,3106:-409.335,-252.073,-235.817,-157.619,0,-131.429 1/2:219:1,94,123:1:36:94,123:3364,4326:-619.368,-345.795,-320.435,-270.931,0,-236.841 2/2:143:0,1,142:0:0:1,142:36,5038:-451.261,-448.323,-448.022,-42.7463,-39.449,0 1/2:233:0,113,119:0:0:113,119:4026,4188:-666.447,-338.36,-304.344,-328.099,0,-292.277 1/2:38:0,19,19:0:0:19,19:669,669:-109.069,-54.6061,-48.8866,-54.8144,0,-49.0948 1/2:20:0,13,7:0:0:13,7:464,252:-58.6614,-20.8352,-16.9218,-38.1841,0,-36.0769 1/2:59:0,30,29:0:0:30,29:1072,1024:-170.726,-83.3236,-74.2927,-87.7569,0,-79.0271 1/2:197:0,84,113:0:0:84,113:3007,3989:-567.169,-321.959,-296.672,-245.565,0,-211.548 1/2:163:0,85,78:0:0:85,78:3040,2763:-472.143,-224.278,-198.691,-248.22,0,-224.739 1/2:233:0,120,112:0:0:120,112:4291,3965:-669.67,-320.206,-284.083,-349.458,0,-315.743 1/2:125:0,58,67:0:0:58,67:2085,2389:-363.193,-193.099,-175.639,-170.451,0,-150.282 1/2:92:0,56,36:0:0:56,36:2000,1273:-266.735,-103.675,-86.8177,-163.414,0,-152.577 1/2:103:0,45,58:0:0:45,58:1603,2055:-297.06,-166.404,-152.857,-131.011,0,-113.551 1/2:120:0,72,48:0:0:72,48:2580,1705:-348.219,-137.801,-116.127,-210.773,0,-196.323 1/1:200:0,197,2:0:0:197,2:7067,72:-635.293,-59.3029,0,-629.44,-53.4113,-628.838 1/1:81:0,80,1:0:0:80,1:2860,36:-257.271,-24.0824,0,-254.351,-20.8047,-254.05 chr02 3581412 . G C 17647.9 PASS AB=0.535926;ABP=20.0171;AC=22;AF=0.52381;AN=42;AO=977;CIGAR=1X;DP=1749;DPB=1749;DPRA=1.23603;EPP=2124.54;EPPR=1675.04;GTI=0;LEN=1;MEANALT=1.1;MQM=59.957;MQMR=60;NS=21;NUMALT=1;ODDS=2.86771;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34827;QR=27564;RO=770;RPL=977;RPP=2124.54;RPPR=1675.04;RPR=0;RUN=1;SAF=0;SAP=2124.54;SAR=977;SRF=0;SRP=1675.04;SRR=770;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:38,52:38:1341:52:1849:-139.589,0,-93.8953 0/1:68:32,35:32:1136:35:1256:-92.8165,0,-82.0202 0/1:80:37,43:37:1324:43:1547:-115.441,0,-95.3797 0/1:54:20,34:20:720:34:1214:-93.3102,0,-48.8732 0/1:179:91,88:91:3268:88:3128:-227.837,0,-240.455 0/1:77:40,37:40:1432:37:1315:-95.4706,0,-105.998 0/1:140:57,83:57:2044:83:2955:-224.038,0,-142.088 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 0/1:211:111,100:111:3976:100:3553:-256.458,0,-294.513 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:32:8,24:8:288:24:856:-67.7235,0,-16.6344 0/1:83:43,39:43:1544:39:1385:-99.9027,0,-114.209 0/1:73:27,46:27:960:46:1631:-125.103,0,-64.7411 0/1:138:71,67:71:2535:67:2408:-175.434,0,-186.859 0/1:91:51,40:51:1824:40:1432:-101.784,0,-137.047 0/1:51:11,40:11:396:40:1432:-113.825,0,-20.6302 0/1:68:31,37:31:1112:37:1326:-99.1722,0,-79.9213 0/1:60:25,35:25:900:35:1237:-93.5705,0,-63.2592 1/1:122:0,122:0:0:122:4342:-390.954,-36.7257,0 1/1:42:0,42:0:0:42:1493:-134.663,-12.6433,0 chr02 3581533 . G A 11735.3 PASS AB=0.509237;ABP=3.93296;AC=19;AF=0.452381;AN=42;AO=697;CIGAR=1X;DP=1434;DPB=1434;DPRA=1.73016;EPP=1516.53;EPPR=1603.39;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.6977;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24507;QR=26038;RO=737;RPL=0;RPP=1516.53;RPPR=1603.39;RPR=697;RUN=1;SAF=0;SAP=1516.53;SAR=697;SRF=0;SRP=1603.39;SRR=737;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:6,16:6:207:16:564:-44.4676,0,-12.3442 0/1:35:19,16:19:668:16:572:-41.2774,0,-49.9096 0/1:73:36,37:36:1248:37:1276:-93.1622,0,-90.6439 0/1:49:20,29:20:708:29:988:-74.4726,0,-49.2951 0/1:133:65,68:65:2284:68:2387:-175.049,0,-165.784 0/1:58:24,34:24:856:34:1216:-92.2868,0,-59.9014 0/1:118:64,54:64:2280:54:1912:-136.836,0,-169.941 1/1:63:0,63:0:0:63:2225:-200.513,-18.9649,0 0/1:118:47,71:47:1676:71:2506:-190.271,0,-115.606 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:14:11,3:11:396:3:99:-5.02216,0,-31.7683 0/1:60:34,26:34:1181:26:920:-65.0553,0,-88.5307 0/1:101:37,64:37:1301:64:2241:-171.547,0,-86.9852 0/1:148:65,83:65:2263:83:2920:-218.483,0,-159.379 0/1:72:43,29:43:1514:29:1002:-68.812,0,-114.877 0/1:36:17,19:17:612:19:676:-50.3309,0,-44.5764 0/1:136:72,64:72:2546:64:2247:-161.551,0,-188.451 0/1:68:49,19:49:1760:19:684:-41.4203,0,-138.214 0/0:60:60,0:60:2114:0:0:0,-18.0618,-190.528 0/0:62:62,0:62:2212:0:0:0,-18.6639,-199.345 chr02 4265238 . G A 38023.6 PASS AB=0.346674;ABP=1135.68;AC=19;AF=0.452381;AN=42;AO=1926;CIGAR=1X;DP=6139;DPB=6139;DPRA=1.55707;EPP=4185.27;EPPR=9131.89;GTI=1;LEN=1;MEANALT=1.05;MQM=59.7139;MQMR=55.2144;NS=21;NUMALT=1;ODDS=49.9388;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68888;QR=150351;RO=4212;RPL=1125;RPP=121.366;RPPR=55.1442;RPR=801;RUN=1;SAF=1125;SAP=121.366;SAR=801;SRF=2265;SRP=55.1442;SRR=1947;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:373:259,114:259:9252:114:4077:-254.784,0,-713.16 0/1:335:241,94:241:8606:94:3368:-202.475,0,-661.816 0/1:108:55,53:55:1980:53:1895:-138.301,0,-144.67 0/1:305:178,127:178:6373:127:4552:-317.883,0,-473.648 0/1:593:402,190:402:14284:190:6797:-432.98,0,-1097.65 0/1:388:263,125:263:9369:125:4492:-287.622,0,-713.729 0/1:434:263,171:263:9327:171:6124:-420.36,0,-691.828 0/1:378:191,187:191:6833:187:6694:-488.717,0,-492.153 0/1:369:242,127:242:8671:127:4542:-297.838,0,-666.649 0/1:28:9,19:9:324:19:684:-53.4615,0,-20.422 0/1:12:7,5:7:243:5:180:-12.9397,0,-18.5951 0/1:120:82,38:82:2928:38:1360:-86.5724,0,-227.113 0/1:367:229,138:229:8176:138:4913:-331.813,0,-618.82 0/1:442:307,135:307:10972:135:4799:-298.523,0,-846.362 0/1:368:232,136:232:8277:136:4866:-327.311,0,-629.28 0/1:241:161,80:161:5744:80:2858:-184.498,0,-441.282 0/1:232:170,62:170:6090:62:2220:-130.225,0,-475.128 0/1:229:148,81:148:5270:81:2900:-192.295,0,-402.477 0/1:225:184,41:184:6580:41:1459:-63.7674,0,-520.151 0/0:401:398,3:398:14254:3:108:0,-110.638,-1257 0/0:191:191,0:191:6798:0:0:0,-57.4967,-601.017 chr02 4265294 . AGCT AGCC,TGCC 47040.4 PASS AB=0.700562,0.294328;ABP=686.769,722.054;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1375,576;CIGAR=3M1X,1X2M1X;DP=1961;DPB=1961;DPRA=0,24.4625;EPP=554.613,24.7853;EPPR=3.73412;GTI=3;LEN=1,4;MEANALT=2.28571,2.35;MQM=59.928,59.9514;MQMR=60;NS=21;NUMALT=2;ODDS=5.77324;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48111,19399;QR=106;RO=3;RPL=0,0;RPP=2988.78,1253.78;RPPR=9.52472;RPR=1375,576;RUN=1,1;SAF=983,326;SAP=554.613,24.7853;SAR=392,250;SRF=2;SRP=3.73412;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:73:0,50,22:0:0:50,22:1725,719:-198.179,-58.0345,-42.983,-140.119,0,-133.496 1/2:69:0,51,18:0:0:51,18:1807,619:-197.824,-50.6123,-35.2597,-147.558,0,-142.14 1/2:25:0,21,4:0:0:21,4:726,132:-70.0065,-11.0021,-4.68043,-59.3369,0,-58.1327 1/2:61:0,47,14:0:0:47,14:1646,459:-171.352,-37.4099,-23.2615,-134.275,0,-130.061 1/2:127:0,85,42:0:0:85,42:2990,1434:-360.109,-116.706,-91.1189,-243.747,0,-231.104 1/2:96:1,64,31:1:35:64,31:2228,1029:-261.255,-80.3786,-63.961,-178.317,0,-171.833 1/2:100:0,67,33:0:0:67,33:2351,1129:-283.302,-91.9741,-71.8051,-191.673,0,-181.739 1/2:57:0,35,22:0:0:35,22:1196,733:-156.722,-59.6594,-49.1234,-97.3988,0,-90.7761 1/2:107:0,76,31:0:0:76,31:2644,1055:-300.906,-85.9211,-63.0428,-215.327,0,-205.996 1/2:9:0,5,4:0:0:5,4:172,115:-23.4315,-9.43121,-7.92606,-14.3128,0,-13.1087 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:18:0,13,5:0:0:13,5:455,163:-50.5222,-13.4862,-9.57278,-37.3686,0,-35.8634 1/2:105:0,71,33:0:0:71,33:2511,1073:-291.104,-86.5701,-65.1969,-204.51,0,-194.576 1/2:90:0,57,33:0:0:57,33:1961,1117:-250.117,-90.8966,-73.7379,-159.561,0,-149.627 1/2:98:0,67,30:0:0:67,30:2396,1032:-279.234,-83.8535,-63.6845,-195.427,0,-186.396 1/2:64:0,43,21:0:0:43,21:1484,704:-177.918,-57.3502,-44.4059,-120.906,0,-114.584 1/2:30:0,21,9:0:0:21,9:752,305:-86.4099,-25.0697,-18.7481,-61.6846,0,-58.9754 1/2:155:0,100,54:0:0:100,54:3457,1787:-425.496,-144.596,-114.493,-280.984,0,-264.728 1/2:273:1,195,75:1:35:195,75:6864,2553:-762.748,-204.277,-148.424,-555.947,0,-536.218 1/2:87:0,54,33:0:0:54,33:1894,1142:-247.285,-93.1514,-76.8958,-154.481,0,-144.547 1/2:313:1,249,62:1:36:249,62:8708,2099:-875.331,-167.218,-95.1991,-705.463,0,-689.736 chr02 4265315 . T C 7214.7 PASS AB=0.248479;ABP=1086.61;AC=20;AF=0.47619;AN=42;AO=492;CIGAR=1X;DP=1997;DPB=1997;DPRA=0;EPP=165.712;EPPR=251.834;GTI=4;LEN=1;MEANALT=1.09524;MQM=59.6768;MQMR=59.9867;NS=21;NUMALT=1;ODDS=0.763694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17486;QR=53545;RO=1503;RPL=2;RPP=1054.07;RPPR=3214.83;RPR=490;RUN=1;SAF=344;SAP=172.562;SAR=148;SRF=965;SRP=266.432;SRR=538;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:56,20:56:1988:20:720:-42.2505,0,-156.316 0/1:68:45,23:45:1620:23:824:-54.0133,0,-125.62 0/0:25:23,2:23:824:2:72:0,-0.689027,-67.6466 0/1:62:48,14:48:1700:14:500:-26.6723,0,-134.619 0/1:124:98,26:98:3519:26:923:-46.059,0,-279.59 0/1:99:84,15:84:2999:15:532:-18.4056,0,-240.34 0/1:108:85,22:85:3024:22:784:-38.3107,0,-239.765 0/1:56:46,10:46:1631:10:356:-15.5189,0,-130.22 0/1:110:83,26:83:2971:26:928:-50.56,0,-234.45 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:19:16,3:16:572:3:108:-4.3556,0,-46.0939 0/1:101:86,15:86:3073:15:530:-17.6268,0,-246.393 0/1:94:74,20:74:2620:20:716:-36.4139,0,-207.75 0/1:96:76,20:76:2728:20:716:-35.8688,0,-216.864 0/1:66:53,13:53:1883:13:464:-22.2295,0,-149.88 0/1:33:26,7:26:928:7:252:-13.0903,0,-73.9043 0/1:159:124,35:124:4386:35:1217:-61.9509,0,-347.051 0/1:274:197,77:197:7018:77:2754:-165.596,0,-549.204 0/1:90:63,27:63:2243:27:972:-60.7006,0,-175.04 0/1:323:208,115:208:7386:115:4046:-267.077,0,-567.559 chr02 4265335 . G A 7110.43 PASS AB=0.242651;ABP=1157.55;AC=20;AF=0.47619;AN=42;AO=489;CIGAR=1X;DP=2034;DPB=2034;DPRA=0;EPP=161.634;EPPR=244.061;GTI=5;LEN=1;MEANALT=1.04762;MQM=59.6748;MQMR=60;NS=21;NUMALT=1;ODDS=3.64599;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17483;QR=54863;RO=1544;RPL=487;RPP=1047.56;RPPR=3269.47;RPR=2;RUN=1;SAF=337;SAP=154.991;SAR=152;SRF=969;SRP=221.333;SRR=575;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:53,21:53:1891:21:756:-46.091,0,-148.191 0/1:69:46,23:46:1635:23:828:-54.073,0,-126.667 0/0:27:25,2:25:900:2:72:0,-1.29109,-74.4843 0/1:60:47,13:47:1669:13:459:-23.5823,0,-132.434 0/1:128:102,26:102:3614:26:932:-45.667,0,-286.933 0/1:102:87,15:87:3116:15:540:-18.2259,0,-249.962 0/1:110:87,22:87:3090:22:786:-38.0339,0,-245.302 0/1:61:51,10:51:1819:10:360:-14.3768,0,-145.628 0/1:111:85,26:85:3017:26:936:-51.0389,0,-238.344 0/1:10:9,1:9:320:1:36:-0.587975,0,-26.1321 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:19:16,3:16:576:3:108:-4.3556,0,-46.4554 0/1:105:91,14:91:3259:14:500:-13.7234,0,-261.922 0/1:97:77,20:77:2722:20:716:-35.5109,0,-216.024 0/1:96:76,20:76:2702:20:720:-36.2299,0,-214.525 0/1:68:54,14:54:1932:14:504:-25.2281,0,-153.687 0/1:32:24,8:24:864:8:288:-16.6298,0,-68.4496 0/1:159:127,32:127:4501:32:1148:-55.7497,0,-357.395 0/1:280:203,77:203:7163:77:2727:-161.373,0,-560.447 0/1:93:66,27:66:2364:27:960:-58.7159,0,-185.023 0/1:329:215,114:215:7601:114:4071:-267.5,0,-585.098 chr02 4265346 . C A 6979.12 PASS AB=0.24097;ABP=1180.84;AC=20;AF=0.47619;AN=42;AO=489;CIGAR=1X;DP=2048;DPB=2048;DPRA=0;EPP=161.634;EPPR=226.011;GTI=4;LEN=1;MEANALT=1.04762;MQM=59.6769;MQMR=59.9872;NS=21;NUMALT=1;ODDS=1.83063;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17467;QR=55503;RO=1558;RPL=489;RPP=1064.86;RPPR=3386.16;RPR=0;RUN=1;SAF=339;SAP=161.634;SAR=150;SRF=979;SRP=226.011;SRR=579;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:56,20:56:1966:20:716:-41.8894,0,-154.333 0/1:70:47,23:47:1679:23:809:-52.0562,0,-130.324 0/0:27:25,2:25:896:2:72:0,-1.29109,-74.1236 0/1:58:45,13:45:1593:13:468:-24.9999,0,-126.199 0/1:127:101,26:101:3581:26:936:-46.3287,0,-284.265 0/1:101:86,15:86:3067:15:540:-18.527,0,-245.855 0/1:109:88,21:88:3121:21:752:-35.1858,0,-248.248 0/1:62:52,10:52:1852:10:356:-13.7127,0,-148.296 0/1:112:86,26:86:3080:26:932:-50.3772,0,-243.713 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.433 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:20:17,3:17:597:3:108:-4.05457,0,-48.0355 0/1:107:92,15:92:3282:15:540:-16.7217,0,-263.389 0/1:96:76,20:76:2703:20:720:-36.1729,0,-214.616 0/1:97:78,19:78:2762:19:669:-31.334,0,-219.62 0/1:68:54,14:54:1928:14:504:-25.2281,0,-153.327 0/1:34:26,8:26:936:8:288:-16.0277,0,-74.3244 0/1:162:128,34:128:4575:34:1201:-59.6105,0,-363.149 0/1:281:204,77:204:7288:77:2742:-162.42,0,-571.381 0/1:93:67,26:67:2369:26:924:-55.4773,0,-185.469 0/1:333:217,115:217:7760:115:4118:-270.476,0,-598.128 chr02 4265586 . CACTG GACTG,GACTC 49020.5 PASS AB=0.596499,0.396832;ABP=197.048,224.796;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1499,952;CIGAR=1X4M,1X3M1X;DP=2467;DPB=2467;DPRA=0,3.71362;EPP=3249.37,2061.58;EPPR=0;GTI=1;LEN=1,5;MEANALT=2.57143,2.73684;MQM=59.9673,59.5651;MQMR=0;NS=21;NUMALT=2;ODDS=18.9423;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53606,33617;QR=0;RO=0;RPL=1498,951;RPP=3249.37,2061.58;RPPR=0;RPR=1,1;RUN=1,1;SAF=0,0;SAP=3258.05,2070.25;SAR=1499,952;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,84,41:0:0:84,41:3007,1435:-362.066,-116.843,-91.5564,-245.322,0,-232.98 1/2:79:0,51,27:0:0:51,27:1832,948:-226.593,-77.1383,-61.7858,-149.449,0,-141.322 1/2:127:0,81,46:0:0:81,46:2872,1621:-366.31,-132.331,-107.947,-234.332,0,-220.485 1/2:79:0,55,24:0:0:55,24:1980,841:-230.321,-68.7646,-52.208,-161.91,0,-154.685 1/2:327:0,200,125:0:0:200,125:7151,4420:-942.463,-359.379,-299.173,-583.108,0,-545.479 1/2:150:0,104,46:0:0:104,46:3732,1617:-436.379,-131.962,-100.655,-304.771,0,-290.923 1/2:251:0,130,116:0:0:130,116:4628,4105:-711.507,-334.321,-295.188,-377.238,0,-342.319 1/1:57:0,57,0:0:0:57,0:2052,0:-184.951,-17.1587,0,-184.951,-17.1587,-184.951 1/2:304:0,203,100:0:0:203,100:7273,3549:-882.147,-288.995,-227.886,-593.148,0,-563.045 1/2:21:0,18,2:0:0:18,2:648,72:-58.7483,-5.87483,-0.456295,-52.8735,0,-52.2715 1/1:11:0,11,0:0:0:11,0:388,0:-35.2574,-3.31133,0,-35.2574,-3.31133,-35.2574 1/2:55:0,38,17:0:0:38,17:1364,603:-160.744,-49.483,-38.0438,-111.617,0,-106.499 1/2:96:0,37,58:0:0:37,58:1304,2055:-273.648,-167.479,-156.341,-106.268,0,-88.8081 1/2:151:0,102,48:0:0:102,48:3636,1701:-434.936,-138.555,-107.85,-296.376,0,-281.927 1/2:131:0,77,52:0:0:77,52:2752,1841:-374.318,-149.93,-126.751,-224.393,0,-208.739 1/2:88:0,48,40:0:0:48,40:1709,1383:-252.012,-112.718,-98.2689,-139.644,0,-127.603 1/2:64:0,36,27:0:0:36,27:1296,961:-184.067,-78.318,-67.4809,-105.747,0,-97.6192 1/2:61:0,40,21:0:0:40,21:1436,727:-176.562,-59.4159,-47.3747,-117.496,0,-111.175 1/2:44:0,25,19:0:0:25,19:900,678:-129.062,-55.6252,-48.0994,-73.7953,0,-68.0757 1/2:197:0,84,113:0:0:84,113:2998,4002:-570.728,-326.32,-301.033,-244.764,0,-210.748 1/2:48:0,18,30:0:0:18,30:648,1058:-139.368,-86.492,-81.0735,-53.2333,0,-44.2024 chr02 4341784 . C G 1868.16 PASS AB=0.402256;ABP=25.0842;AC=15;AF=0.357143;AN=42;AO=126;CIGAR=1X;DP=482;DPB=482;DPRA=0.964789;EPP=276.616;EPPR=773.883;GTI=3;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.14202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4511;QR=12671;RO=355;RPL=126;RPP=276.616;RPPR=773.883;RPR=0;RUN=1;SAF=0;SAP=276.616;SAR=126;SRF=0;SRP=773.883;SRR=355;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:12:6,6:6:216:6:212:-15.8124,0,-16.1782 0/1:16:3,13:3:104:13:468:-37.6432,0,-4.88633 0/1:23:13,10:13:468:10:360:-25.8206,0,-35.536 0/1:8:7,1:7:252:1:32:-0.791073,0,-20.6207 0/1:15:10,5:10:360:5:180:-12.0366,0,-28.2289 1/1:14:0,14:0:0:14:495:-44.8837,-4.21442,0 0/1:36:15,21:15:540:21:756:-57.5301,0,-38.0995 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/0:28:27,1:27:938:1:36:0,-4.83056,-81.131 0/0:53:52,1:52:1841:1:36:0,-12.3563,-162.37 0/0:27:26,1:26:936:1:36:0,-4.52953,-80.9612 0/0:23:21,2:21:744:2:72:0,-0.0869673,-60.4476 0/1:29:12,17:12:432:17:608:-46.3222,0,-30.4913 0/1:10:5,5:5:176:5:176:-13.1747,0,-13.1747 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:64:58,6:58:2084:6:216:-0.524593,0,-168.564 0/1:21:11,10:11:396:10:360:-26.4227,0,-29.6611 0/0:27:26,0:26:928:0:0:0,-7.82678,-83.4785 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 chr02 4405092 . TG CG,CA 42831.9 PASS AB=0.501124,0.496629;ABP=3.02982,3.18597;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1093,1030;CIGAR=1X1M,2X;DP=2128;DPB=2128;DPRA=0.678767,1.58692;EPP=2376.43,2239.63;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=2.1,2.15;MQM=59.9808,59.9311;MQMR=60;NS=21;NUMALT=2;ODDS=10.0648;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38825,36421;QR=36;RO=1;RPL=0,0;RPP=2376.43,2239.63;RPPR=5.18177;RPR=1093,1030;RUN=1,1;SAF=1093,1030;SAP=2376.43,2239.63;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:105:0,40,64:0:0:40,64:1436,2281:-303.155,-186.016,-173.975,-117.244,0,-97.9779 1/2:91:0,44,47:0:0:44,47:1572,1686:-266.047,-137.879,-124.634,-128.526,0,-114.378 1/2:84:1,44,39:1:36:44,39:1572,1400:-239.129,-111.262,-100.954,-125.229,0,-116.426 1/2:106:0,58,48:0:0:58,48:2041,1691:-304.166,-138.024,-120.564,-166.495,0,-152.045 1/2:170:0,88,82:0:0:88,82:3109,2879:-487.857,-234.661,-208.171,-253.547,0,-228.863 1/2:131:0,62,69:0:0:62,69:2211,2480:-382.915,-202.682,-184.018,-180.59,0,-159.819 1/2:172:0,76,96:0:0:76,96:2728,3403:-500.114,-277.586,-254.708,-222.884,0,-193.985 2/2:146:0,0,145:0:0:0,145:0,5108:-459.419,-459.419,-459.419,-43.6494,-43.6494,0 1/2:221:0,114,106:0:0:114,106:4025,3748:-633.17,-305.4,-271.082,-327.912,0,-296.002 1/2:15:0,7,8:0:0:7,8:248,274:-42.7913,-22.583,-20.4758,-20.557,0,-18.1487 1/2:10:0,4,6:0:0:4,6:140,216:-29.3709,-17.9843,-16.7802,-11.7405,0,-9.93428 1/2:50:0,27,23:0:0:27,23:964,818:-145.612,-67.019,-58.8911,-78.949,0,-72.0253 1/2:109:0,59,50:0:0:59,50:2098,1749:-313.614,-142.637,-124.876,-171.329,0,-156.277 1/2:131:0,85,46:0:0:85,46:2995,1570:-371.587,-127.736,-102.149,-244.196,0,-230.349 1/2:143:0,58,85:0:0:58,85:2061,3007:-413.22,-245.273,-227.814,-168.301,0,-142.714 1/2:41:0,16,25:0:0:16,25:567,889:-118.992,-72.8023,-67.9858,-46.5442,0,-39.0185 1/2:49:0,20,28:0:0:20,28:711,981:-137.484,-79.5416,-73.521,-57.9354,0,-49.5066 1/2:75:0,44,31:0:0:44,31:1549,1103:-216.349,-90.2485,-77.0032,-126.454,0,-117.122 1/2:77:0,46,31:0:0:46,31:1648,1102:-224.562,-90.1576,-76.3102,-134.761,0,-125.429 1/1:137:0,136,1:0:0:136,1:4830,36:-434.495,-40.9401,0,-431.557,-37.6428,-431.256 1/1:65:0,65,0:0:0:65,0:2320,0:-209.061,-19.567,0,-209.061,-19.567,-209.061 chr02 4416685 . CATATG TATATA,TGTATA 55157.1 PASS AB=0.407347,0.589796;ABP=185.694,174.601;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1195,1585;CIGAR=1X4M1X,2X3M1X;DP=2787;DPB=2787.17;DPRA=0.945357,1.38392;EPP=2597.92,3444.79;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.25,2.31579;MQM=59.8393,59.9407;MQMR=0;NS=21;NUMALT=2;ODDS=0.25784;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=42029,55823;QR=0;RO=0;RPL=0,0;RPP=2597.92,3444.79;RPPR=0;RPR=1195,1585;RUN=1,1;SAF=1195,1585;SAP=2597.92,3444.79;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:79:0,25,54:0:0:25,54:896,1905:-228.551,-155.473,-147.948,-73.4346,0,-57.179 1/2:159:0,66,93:0:0:66,93:2294,3279:-453.836,-267.34,-247.472,-186.846,0,-158.85 1/2:160:0,66,93:0:0:66,93:2282,3286:-453.028,-267.603,-247.735,-185.414,0,-157.418 1/2:228:0,101,127:0:0:101,127:3553,4452:-651.699,-362.63,-332.226,-289.421,0,-251.19 1/2:338:0,122,216:0:0:122,216:4273,7573:-964.258,-616.598,-579.872,-348.01,0,-282.988 1/2:107:0,48,59:0:0:48,59:1700,2091:-309.174,-170.7,-156.251,-138.827,0,-121.067 1/2:193:0,83,109:0:0:83,109:2904,3835:-548.537,-312.28,-287.295,-236.357,0,-203.545 2/2:140:0,0,140:0:0:0,140:0,4960:-446.543,-446.543,-446.543,-42.1442,-42.1442,0 1/2:194:0,69,124:0:0:69,124:2449,4359:-554.316,-354.805,-334.034,-199.504,0,-162.176 1/2:21:0,9,12:0:0:9,12:324,424:-61.3238,-34.8842,-32.1749,-26.7966,0,-23.1842 1/2:10:0,2,8:0:0:2,8:72,281:-29.0988,-23.2223,-22.6202,-6.23466,0,-3.82642 1/2:37:0,9,28:0:0:9,28:308,978:-104.902,-79.9029,-77.1936,-25.3426,0,-16.9137 1/2:155:0,56,99:0:0:56,99:1958,3482:-443.063,-283.796,-266.938,-159.617,0,-129.815 1/2:162:0,55,104:0:0:55,104:1941,3684:-458.208,-300.153,-283.596,-158.109,0,-126.802 1/2:170:0,85,85:0:0:85,85:2997,2984:-487.229,-243.209,-217.621,-244.372,0,-218.785 1/2:112:0,41,70:0:0:41,70:1433,2452:-316.078,-199.506,-187.164,-116.562,0,-95.4898 1/2:153:0,64,89:0:0:64,89:2250,3145:-439.571,-256.429,-237.163,-183.435,0,-156.644 1/2:103:0,49,54:0:0:49,54:1709,1910:-294.902,-155.91,-141.16,-139.343,0,-123.087 1/2:69:0,48,21:0:0:48,21:1682,743:-197.736,-60.8729,-46.4235,-137.216,0,-130.894 1/1:116:0,116,0:0:0:116,0:4113,0:-370.086,-34.9195,0,-370.086,-34.9195,-370.086 1/1:81:0,81,0:0:0:81,0:2891,0:-260.189,-24.3834,0,-260.189,-24.3834,-260.189 chr02 4416755 . CAAAAAGATAAAGT CAGG,CAAAATGATAAAGG 33988.2 PASS AB=0.477116,0.516614;ABP=10.2653,6.83454;AC=22,20;AF=0.52381,0.47619;AN=42;AO=891,915;CIGAR=1M10D2M1X,5M1X7M1X;DP=1820;DPB=1182.86;DPRA=0.907895,1.36842;EPP=1886.03,1989.91;EPPR=0;GTI=0;LEN=4,14;MEANALT=2.4,2.68421;MQM=35.789,59.9355;MQMR=0;NS=21;NUMALT=2;ODDS=4.01255;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31395,32460;QR=0;RO=0;RPL=6,0;RPP=1886.03,1989.91;RPPR=0;RPR=885,915;RUN=1,1;SAF=0,0;SAP=1937.79,1989.91;SAR=891,915;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,22,31:0:0:22,31:744,1108:-146.369,-90.475,-83.8523,-56.0009,0,-46.6689 1/2:77:0,26,51:0:0:26,51:915,1796:-210.6,-146.566,-138.739,-64.356,0,-49.0034 1/2:101:0,43,58:0:0:43,58:1532,2076:-284.311,-169.651,-156.706,-115.002,0,-97.5422 1/2:84:0,44,40:0:0:44,40:1566,1432:-234.364,-117.135,-103.89,-117.573,0,-105.532 1/2:281:0,140,140:0:0:140,140:4895,4973:-771.499,-405.305,-363.161,-366.263,0,-324.118 1/2:27:0,12,15:0:0:12,15:420,532:-73.8975,-43.6976,-40.0853,-30.5315,0,-26.016 1/2:128:0,57,69:0:0:57,69:2002,2442:-340.622,-198.944,-181.786,-141.711,0,-120.939 2/2:95:0,0,91:0:0:0,91:0,3203:-288.194,-288.194,-288.194,-27.3937,-27.3937,0 1/2:206:0,92,113:0:0:92,113:3269,4026:-574.536,-328.322,-300.627,-246.365,0,-212.349 1/2:27:0,14,13:0:0:14,13:504,468:-75.884,-38.5463,-34.3318,-37.6832,0,-33.7698 1/2:6:0,5,1:0:0:5,1:178,36:-16.021,-3.29724,-1.79209,-13.0764,0,-12.7754 1/2:23:0,12,11:0:0:12,11:430,392:-64.2114,-32.3087,-28.6964,-32.2458,0,-28.9345 1/2:31:0,17,14:0:0:17,14:583,485:-82.6889,-39.7626,-34.645,-43.2581,0,-39.0437 1/2:95:0,51,44:0:0:51,44:1806,1541:-260.652,-125.733,-110.381,-135.259,0,-122.013 1/2:192:0,88,103:0:0:88,103:3098,3651:-528.508,-297.431,-270.94,-231.056,0,-200.05 1/2:65:0,35,29:0:0:35,29:1243,1036:-177.231,-84.4537,-73.9176,-92.7618,0,-84.0319 1/2:61:0,31,29:0:0:31,29:1064,1044:-164.964,-85.1851,-75.8532,-79.7605,0,-71.0307 1/2:67:0,28,38:0:0:28,38:1008,1347:-183.678,-109.831,-101.402,-73.9313,0,-62.4922 1/2:70:0,44,25:0:0:44,25:1545,872:-184.507,-70.9112,-57.6659,-113.576,0,-106.05 1/1:83:0,83,0:0:0:83,0:2946,0:-241.528,-24.9855,0,-241.528,-24.9855,-241.528 1/1:47:0,47,0:0:0:47,0:1647,0:-131.609,-14.1484,0,-131.609,-14.1484,-131.609 chr02 5264399 . A T 19569.5 PASS AB=0.504301;ABP=3.30917;AC=20;AF=0.47619;AN=42;AO=1091;CIGAR=1X;DP=2150;DPB=2150;DPRA=0;EPP=2294.56;EPPR=2225.09;GTI=0;LEN=1;MEANALT=1;MQM=59.5573;MQMR=59.6015;NS=21;NUMALT=1;ODDS=6.84867;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38860;QR=37849;RO=1059;RPL=1082;RPP=2294.56;RPPR=2225.09;RPR=9;RUN=1;SAF=0;SAP=2372.09;SAR=1091;SRF=0;SRP=2302.6;SRR=1059;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:85,72:85:3035:72:2588:-185.413,0,-226.029 0/1:64:29,35:29:1044:35:1249:-93.4479,0,-75.0089 0/1:90:37,53:37:1324:53:1886:-142.425,0,-92.3397 0/1:128:56,72:56:2016:72:2554:-191.415,0,-143.007 0/1:213:105,108:105:3763:108:3833:-280.18,0,-274.742 0/1:98:42,56:42:1495:56:2012:-151.746,0,-104.714 0/1:186:83,103:83:2946:103:3674:-274.564,0,-209.193 1/1:151:0,151:0:0:151:5404:-486.48,-45.4555,0 0/1:171:93,78:93:3327:78:2774:-198.27,0,-246.356 0/1:40:18,22:18:648:22:759:-56.5834,0,-46.6107 0/1:7:5,2:5:171:2:59:-3.32923,0,-13.6182 0/1:59:33,26:33:1179:26:936:-66.7987,0,-88.6565 0/1:123:55,68:55:1967:68:2405:-179.677,0,-139.65 0/1:100:53,47:53:1891:47:1676:-120.866,0,-140.328 0/1:205:109,96:109:3899:96:3413:-245.51,0,-288.798 0/1:69:37,32:37:1332:32:1137:-81.8659,0,-99.4113 0/1:35:12,23:12:423:23:828:-64.3081,0,-27.869 0/1:55:29,26:29:1031:26:936:-68.0028,0,-76.546 0/1:60:41,19:41:1464:19:665:-42.111,0,-113.908 0/0:106:105,1:105:3746:1:36:0,-28.3109,-333.313 0/0:33:32,1:32:1148:1:36:0,-6.33571,-100.029 chr02 5337787 . AACA AACG,GATG 17795.4 PASS AB=0.66311,0.329268;ABP=154.603,169.101;AC=23,19;AF=0.547619,0.452381;AN=42;AO=672,293;CIGAR=3M1X,1X1M2X;DP=972;DPB=972;DPRA=5.35,1.29279;EPP=1453.57,639.252;EPPR=0;GTI=6;LEN=1,4;MEANALT=2.2,2.27778;MQM=59.9241,27.7099;MQMR=0;NS=21;NUMALT=2;ODDS=1.73476;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23958,10326;QR=0;RO=0;RPL=671,293;RPP=1453.57,639.252;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=1462.24,639.252;SAR=672,293;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:22:0,19,3:0:0:19,3:675,106:-62.2372,-7.1836,-1.46403,-55.3514,0,-54.4483 1/2:19:0,15,4:0:0:15,4:540,143:-52.0666,-7.91587,-3.40042,-44.4211,0,-43.217 1/1:27:0,27,0:0:0:27,0:972,0:-87.7979,-8.12781,0,-87.7979,-8.12781,-87.7979 1/2:70:0,60,9:0:0:60,9:2138,315:-194.832,-20.5111,-2.44934,-174.265,0,-171.555 1/2:92:0,81,11:0:0:81,11:2900,377:-261.7,-25.1411,-0.757682,-236.852,0,-233.541 1/2:28:0,19,8:0:0:19,8:679,284:-70.6406,-15.2176,-9.49801,-55.3538,0,-52.9456 1/1:87:0,80,6:0:0:80,6:2840,214:-255.577,-24.0824,0,-244.084,-12.6022,-242.278 2/2:9:0,0,9:0:0:0,9:0,314:-21.9744,-21.9744,-21.9744,-2.70927,-2.70927,0 1/2:65:0,37,28:0:0:37,28:1314,986:-166.116,-58.9987,-47.8605,-107.422,0,-98.9933 2/2:20:0,1,19:0:0:1,19:36,670:-45.9042,-42.9623,-42.6612,-5.71957,-2.42233,0 2/2:40:0,2,38:0:0:2,38:72,1324:-83.6834,-77.8029,-77.2008,-11.4391,-5.20448,0 1/2:38:0,6,32:0:0:6,32:216,1145:-86.7429,-69.1046,-67.2984,-17.9843,0,-8.35137 1/2:73:0,49,23:0:0:49,23:1747,808:-194.935,-52.4843,-37.7338,-142.403,0,-135.48 1/2:42:0,37,5:0:0:37,5:1328,177:-120.162,-11.7748,-0.636726,-108.684,0,-107.179 1/1:49:0,44,5:0:0:44,5:1566,180:-140.933,-13.2453,0,-129.383,-1.39775,-127.877 1/2:52:0,26,26:0:0:26,26:927,909:-130.853,-55.2452,-47.4184,-75.9206,0,-68.0938 1/2:66:0,36,29:0:0:36,29:1292,1029:-166.553,-61.1148,-50.2777,-105.494,0,-96.7639 1/2:66:0,32,34:0:0:32,34:1115,1207:-164.13,-73.4212,-63.7882,-91.0208,0,-80.7858 1/2:23:0,18,4:0:0:18,4:648,138:-62.0665,-9.12277,-3.70423,-53.0155,0,-51.8113 1/1:67:0,66,0:0:0:66,0:2354,0:-211.755,-19.868,0,-211.755,-19.868,-211.755 1/1:17:0,17,0:0:0:17,0:599,0:-54.2381,-5.11751,0,-54.2381,-5.11751,-54.2381 chr02 5337795 . G T 2216.13 PASS AB=0.362191;ABP=96.3759;AC=18;AF=0.428571;AN=42;AO=290;CIGAR=1X;DP=973;DPB=973;DPRA=1.25585;EPP=632.737;EPPR=1486.13;GTI=5;LEN=1;MEANALT=1;MQM=27.8414;MQMR=59.8785;NS=21;NUMALT=1;ODDS=0.770488;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10386;QR=24430;RO=683;RPL=290;RPP=632.737;RPPR=1486.13;RPR=0;RUN=1;SAF=0;SAP=632.737;SAR=290;SRF=0;SRP=1486.13;SRR=683;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:20:17,3:17:603:3:108:-2.10714,0,-48.5729 0/1:19:15,4:15:536:4:144:-3.40798,0,-42.8552 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/1:71:62,9:62:2215:9:324:-2.42954,0,-177.22 0/0:90:80,10:80:2871:10:360:0,-0.677543,-232.211 0/1:29:21,8:21:741:8:284:-9.23685,0,-58.2641 0/0:86:80,6:80:2863:6:212:0,-12.3625,-244.381 1/1:9:0,9:0:0:9:324:-22.1915,-2.70927,0 0/1:65:38,27:38:1360:27:957:-45.4738,0,-103.134 1/1:20:1,19:1:36:19:680:-42.903,-2.42233,0 1/1:39:3,36:3:108:36:1296:-70.0993,-1.665,0 0/1:38:6,32:6:216:32:1133:-66.6748,0,-8.35137 0/1:73:49,24:49:1760:24:864:-41.6437,0,-136.709 0/1:43:38,5:38:1349:5:180:-0.408427,0,-108.764 0/0:49:44,5:44:1576:5:180:0,-1.39775,-128.779 0/1:52:26,26:26:932:26:932:-48.0207,0,-68.5453 0/1:66:37,29:37:1315:29:1044:-50.6048,0,-98.7546 0/1:66:32,34:32:1148:34:1220:-64.0598,0,-83.7619 0/1:24:20,4:20:720:4:144:-3.51551,0,-57.9041 0/0:68:68,0:68:2429:0:0:0,-20.47,-218.863 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 chr02 5337801 . G A 2228.23 PASS AB=0.327245;ABP=173.321;AC=19;AF=0.452381;AN=42;AO=292;CIGAR=1X;DP=973;DPB=973;DPRA=1.26844;EPP=637.08;EPPR=1475.27;GTI=6;LEN=1;MEANALT=1.11111;MQM=27.7021;MQMR=59.8982;NS=21;NUMALT=1;ODDS=1.04796;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10476;QR=24216;RO=678;RPL=292;RPP=637.08;RPPR=1475.27;RPR=0;RUN=1;SAF=0;SAP=637.08;SAR=292;SRF=0;SRP=1475.27;SRR=678;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:19,3:19:684:3:108:-1.50508,0,-55.2226 0/1:19:15,4:15:540:4:144:-3.40798,0,-43.217 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/1:71:62,9:62:2216:9:324:-2.42954,0,-177.307 0/1:92:81,11:81:2900:11:396:-1.33289,0,-233.541 0/1:29:21,8:21:756:8:288:-9.27854,0,-59.6197 0/0:84:78,6:78:2762:6:216:0,-11.7185,-235.254 1/1:9:0,9:0:0:9:324:-22.1915,-2.70927,0 0/1:66:38,28:38:1341:28:1008:-47.8544,0,-101.12 1/1:20:1,19:1:36:19:684:-42.9768,-2.42233,0 1/1:41:3,38:3:108:38:1360:-74.4572,-2.26706,0 0/1:38:6,32:6:216:32:1148:-67.3202,0,-8.35137 0/1:72:50,22:50:1796:22:788:-35.9868,0,-140.248 0/1:41:35,5:35:1256:5:176:-0.857829,0,-100.944 0/0:49:44,5:44:1576:5:180:0,-1.39775,-128.779 0/1:52:26,26:26:932:26:936:-48.1611,0,-68.5453 0/1:66:36,29:36:1296:29:1040:-50.6527,0,-97.163 0/1:66:32,34:32:1136:34:1216:-63.9862,0,-82.6809 0/1:23:19,4:19:672:4:140:-3.71013,0,-53.8831 0/0:67:66,0:66:2354:0:0:0,-19.868,-211.758 0/0:18:18,0:18:635:0:0:0,-5.41854,-57.477 chr02 5337829 . A G 26599.3 PASS AB=0.424176;ABP=93.8972;AC=23;AF=0.547619;AN=42;AO=1461;CIGAR=1X;DP=2680;DPB=2680;DPRA=1.92427;EPP=3175.53;EPPR=2650.04;GTI=0;LEN=1;MEANALT=1;MQM=45.2047;MQMR=58.6399;NS=21;NUMALT=1;ODDS=1.18241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52241;QR=42812;RO=1219;RPL=0;RPP=3175.53;RPPR=2650.04;RPR=1461;RUN=1;SAF=1461;SAP=3175.53;SAR=0;SRF=1219;SRP=2650.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:84,37:84:2959:37:1328:-81.9552,0,-229.191 0/1:69:52,17:52:1834:17:612:-33.251,0,-144.493 0/1:97:72,25:72:2542:25:900:-51.2943,0,-199.669 0/1:71:45,26:45:1586:26:932:-61.9345,0,-121.606 0/1:181:112,69:112:3959:69:2472:-164.477,0,-301.913 0/1:94:64,30:64:2236:30:1065:-66.4642,0,-173.198 0/1:139:88,51:88:3095:51:1824:-120.448,0,-236.826 1/1:79:0,79:0:0:79:2821:-249.362,-23.7814,0 0/1:165:107,58:107:3719:58:2076:-132.403,0,-285.014 1/1:182:10,172:10:336:172:6127:-510.308,-25.2538,0 1/1:202:4,198:4:140:198:7097:-617.351,-47.9002,0 1/1:258:18,240:18:636:240:8572:-701.736,-20.17,0 0/1:108:71,37:71:2513:37:1328:-86.0465,0,-193.789 0/1:83:52,31:52:1822:31:1108:-73.6596,0,-139.155 0/1:132:84,48:84:2982:48:1728:-113.821,0,-228.682 0/1:57:46,11:46:1603:11:396:-18.4104,0,-127.294 0/1:53:39,14:39:1347:14:504:-29.4957,0,-105.537 0/1:341:46,295:46:1621:295:10523:-825.089,0,-43.4136 0/1:109:86,23:86:2970:23:828:-40.9609,0,-234.593 0/0:88:88,0:88:3129:0:0:0,-26.4906,-281.818 0/0:51:51,0:51:1783:0:0:0,-15.3525,-160.673 chr02 5337835 . G C,A 54818.7 PASS AB=0.422428,0.576483;ABP=99.0244,96.3482;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1455,1229;CIGAR=1X,1X;DP=2688;DPB=2688;DPRA=1.93033,1.65127;EPP=3162.5,2671.75;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=2,1.95;MQM=45.2467,58.6054;MQMR=56.5;NS=21;NUMALT=2;ODDS=2.63312;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52008,44005;QR=72;RO=2;RPL=0,0;RPP=3162.5,2671.75;RPPR=7.35324;RPR=1455,1229;RUN=1,1;SAF=1455,1229;SAP=3162.5,2671.75;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:121:0,37,84:0:0:37,84:1328,2991:-350.3,-243.403,-232.265,-107.251,0,-81.9648 1/2:69:0,17,52:0:0:17,52:608,1872:-201.245,-153.032,-147.915,-48.5643,0,-32.9108 1/2:100:0,25,75:0:0:25,75:900,2681:-291.423,-218.794,-211.268,-72.985,0,-50.4077 1/2:70:0,25,45:0:0:25,45:888,1586:-200.978,-129.39,-121.864,-71.9401,0,-58.3938 1/2:183:1,69,113:1:36:69,113:2468,4045:-524.091,-326.831,-308.991,-194.625,0,-163.54 1/2:96:0,31,65:0:0:31,65:1104,2336:-278.347,-190.921,-181.589,-87.7772,0,-68.2102 1/2:142:0,53,89:0:0:53,89:1892,3186:-412.339,-260.107,-244.153,-152.586,0,-125.795 1/1:79:0,79,0:0:0:79,0:2828,0:-250.026,-23.7814,0,-250.026,-23.7814,-250.026 1/2:167:0,55,112:0:0:55,112:1964,4008:-482.619,-326.027,-309.47,-156.944,0,-123.228 1/1:179:0,169,10:0:0:169,10:6028,351:-532.323,-50.8741,0,-504.128,-22.3323,-501.118 1/1:202:0,196,4:0:0:196,4:7006,144:-621.661,-59.0019,0,-609.947,-47.2859,-608.743 1/1:252:0,235,17:0:0:235,17:8408,608:-744.273,-70.7421,0,-694.745,-20.8576,-689.627 1/2:110:1,38,71:1:36:38,71:1368,2552:-315.182,-205.14,-196.638,-107.403,0,-88.9676 1/2:88:0,35,53:0:0:35,53:1256,1908:-256.92,-155.924,-145.388,-101.352,0,-85.3975 1/2:131:0,48,83:0:0:48,83:1720,2979:-381.27,-243.193,-228.743,-138.433,0,-113.447 1/2:58:0,11,47:0:0:11,47:392,1692:-169.865,-138.313,-135.002,-31.9056,0,-17.7572 1/2:53:0,14,39:0:0:14,39:504,1400:-155.403,-114.526,-110.311,-41.2359,0,-29.4957 1/2:340:0,295,45:0:0:295,45:10518,1612:-969.825,-131.712,-42.9077,-838.47,0,-824.924 1/2:109:0,23,86:0:0:23,86:828,3096:-319.32,-252.826,-245.903,-66.8495,0,-40.9609 2/2:87:0,0,87:0:0:0,87:0,3124:-281.368,-281.368,-281.368,-26.1896,-26.1896,0 2/2:52:0,0,52:0:0:0,52:0,1834:-165.26,-165.26,-165.26,-15.6536,-15.6536,0 chr02 5581687 . G A,T 69753.4 PASS AB=0.582425,0.417575;ABP=181.636,181.636;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1966,1431;CIGAR=1X,1X;DP=3398;DPB=3398;DPRA=0.979697,2.21533;EPP=4202.92,3032.71;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.95,1.95;MQM=59.909,59.9972;MQMR=60;NS=21;NUMALT=2;ODDS=16.6821;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70059,51146;QR=32;RO=1;RPL=8,9;RPP=4202.92,3032.71;RPPR=5.18177;RPR=1958,1422;RUN=1,1;SAF=1966,1431;SAP=4272.13,3110.39;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:329:0,192,137:0:0:192,137:6892,4894:-961.561,-399.371,-341.573,-562.548,0,-521.306 1/2:175:0,110,65:0:0:110,65:3929,2315:-509.375,-189.043,-155.93,-320.688,0,-301.121 1/2:133:0,73,60:0:0:73,60:2597,2147:-387.081,-175.435,-153.46,-212.002,0,-193.94 1/2:163:0,90,73:0:0:90,73:3213,2603:-473.708,-212.543,-185.45,-261.521,0,-239.546 1/2:461:0,264,197:0:0:264,197:9309,7043:-1332.59,-574.629,-495.157,-758.314,0,-699.011 1/2:105:0,53,52:0:0:53,52:1900,1868:-307.71,-152.746,-136.791,-155.323,0,-139.67 1/2:222:0,120,102:0:0:120,102:4296,3648:-648.069,-297.82,-261.696,-350.607,0,-319.902 2/2:165:0,0,165:0:0:0,165:0,5867:-528.144,-528.144,-528.144,-49.67,-49.67,0 1/2:279:0,174,105:0:0:174,105:6182,3760:-810.548,-306.991,-254.612,-503.913,0,-472.305 1/2:21:0,18,3:0:0:18,3:648,108:-62.0456,-9.17208,-3.75354,-53.2333,0,-52.3303 1/2:16:0,8,8:0:0:8,8:288,284:-46.9969,-23.4951,-21.0869,-23.8592,0,-21.4509 1/2:55:0,31,24:0:0:31,24:1108,860:-160.838,-70.4971,-61.1652,-90.6991,0,-83.4743 1/2:184:0,103,81:0:0:103,81:3692,2895:-537.521,-236.403,-205.397,-301.476,0,-277.093 1/2:175:0,94,81:0:0:94,81:3336,2897:-508.386,-236.582,-208.285,-272.161,0,-247.777 1/2:94:0,68,26:0:0:68,26:2424,936:-274.32,-76.7327,-56.2626,-197.946,0,-190.12 1/2:184:0,88,96:0:0:88,96:3156,3436:-537.925,-280.554,-254.064,-257.728,0,-228.829 1/2:141:0,99,42:0:0:99,42:3543,1497:-411.3,-122.38,-92.5782,-289.276,0,-276.633 1/2:193:0,114,79:0:0:114,79:4060,2832:-561.288,-231.337,-197.02,-330.308,0,-306.527 1/2:97:0,64,33:0:0:64,33:2288,1184:-283.492,-96.9343,-77.6684,-186.916,0,-176.982 1/1:131:0,129,2:0:0:129,2:4558,72:-410.024,-38.8329,0,-404.149,-32.5982,-403.547 1/1:75:1,74,0:1:32:74,0:2640,0:-234.648,-19.3779,0,-234.949,-22.2762,-237.527 chr02 5581713 . G C 36115.3 PASS AB=0.584178;ABP=191.284;AC=22;AF=0.52381;AN=42;AO=1996;CIGAR=1X;DP=3436;DPB=3436;DPRA=0.997561;EPP=4337.27;EPPR=3125.59;GTI=1;LEN=1;MEANALT=1.1;MQM=59.8958;MQMR=59.9972;NS=21;NUMALT=1;ODDS=13.7057;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70829;QR=51222;RO=1438;RPL=1995;RPP=4328.59;RPPR=3125.59;RPR=1;RUN=1;SAF=1995;SAP=4328.59;SAR=1;SRF=1438;SRP=3125.59;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:324:132,192:132:4696:192:6843:-518.407,0,-325.267 0/1:174:63,110:63:2264:110:3781:-288.043,0,-151.584 0/1:131:59,72:59:2096:72:2567:-191.845,0,-149.472 0/1:164:72,91:72:2566:91:3235:-240.84,0,-181.761 0/1:478:203,275:203:7212:275:9821:-739.944,0,-505.245 0/1:104:52,52:52:1856:52:1851:-135.562,0,-136.013 0/1:222:100,122:100:3584:122:4358:-325.479,0,-255.938 0/0:164:164,0:164:5820:0:0:0,-49.3689,-523.914 0/1:282:104,178:104:3699:178:6349:-486.604,0,-248.221 0/1:23:4,19:4:144:19:684:-54.9666,0,-6.38993 0/1:16:8,8:8:288:8:275:-20.267,0,-21.4509 0/1:54:25,29:25:892:29:1014:-75.3127,0,-64.3441 0/1:185:79,106:79:2831:106:3765:-283.357,0,-199.337 0/1:186:90,96:90:3210:96:3410:-251.124,0,-233.131 0/1:94:26,68:26:936:68:2423:-190.029,0,-56.2626 0/1:186:96,90:96:3435:90:3184:-230.746,0,-253.371 0/1:143:45,98:45:1602:98:3450:-267.663,0,-101.421 0/1:195:80,115:80:2803:115:4042:-304.949,0,-193.807 0/1:98:32,66:32:1144:66:2359:-183.067,0,-73.7686 1/1:134:2,132:2:72:132:4697:-416.025,-33.5013,0 1/1:79:2,77:2:72:77:2721:-238.277,-16.9446,0 chr02 5691107 . G A 38691.3 PASS AB=0.533791;ABP=30.4531;AC=23;AF=0.547619;AN=42;AO=2634;CIGAR=1X;DP=4201;DPB=4201;DPRA=1.76851;EPP=5713.99;EPPR=3399.19;GTI=1;LEN=1;MEANALT=1.15789;MQM=31.9704;MQMR=34.3127;NS=21;NUMALT=1;ODDS=14.8833;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=94225;QR=55861;RO=1564;RPL=2633;RPP=5713.99;RPPR=3399.19;RPR=1;RUN=1;SAF=2634;SAP=5722.67;SAR=0;SRF=1564;SRP=3399.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:40,36:40:1436:36:1281:-78.0994,0,-95.4604 0/1:122:45,77:45:1597:77:2754:-156.177,0,-81.588 0/1:141:89,51:89:3179:51:1809:-102.009,0,-217.83 0/1:186:89,97:89:3195:97:3483:-218.368,0,-203.271 0/1:439:229,210:229:8194:210:7499:-457.377,0,-538.819 0/1:141:58,83:58:2048:83:2980:-167.38,0,-111.533 0/1:286:159,127:159:5658:127:4568:-233.438,0,-332.7 1/1:48:0,48:0:0:48:1717:-128.947,-14.4494,0 0/1:235:126,109:126:4508:109:3916:-246.856,0,-310.685 1/1:382:5,377:5:176:377:13451:-1004.74,-102.376,0 1/1:169:6,163:6:212:163:5819:-390.123,-35.8728,0 1/1:599:29,569:29:1036:569:20316:-1461.2,-101.511,0 0/1:155:69,86:69:2468:86:3088:-197.502,0,-154.077 0/1:174:109,65:109:3908:65:2336:-133.395,0,-261.969 0/1:151:81,70:81:2882:70:2512:-152.941,0,-187.432 0/1:116:44,71:44:1565:71:2544:-173.135,0,-98.673 0/1:127:46,81:46:1648:81:2912:-203.702,0,-101.259 0/1:340:47,293:47:1665:293:10492:-692.281,0,-27.4254 0/1:78:57,21:57:2040:21:748:-36.6426,0,-145.428 0/0:187:187,0:187:6707:0:0:0,-56.2926,-522.859 0/0:49:49,0:49:1739:0:0:0,-14.7505,-128.837 chr02 5791411 . G T 19929.4 PASS AB=0.512712;ABP=5.99147;AC=20;AF=0.47619;AN=42;AO=1154;CIGAR=1X;DP=2367;DPB=2367;DPRA=1.6169;EPP=2508.89;EPPR=2637.01;GTI=0;LEN=1;MEANALT=1;MQM=59.9827;MQMR=59.9687;NS=21;NUMALT=1;ODDS=9.40986;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41182;QR=43304;RO=1213;RPL=1154;RPP=2508.89;RPPR=2637.01;RPR=0;RUN=1;SAF=0;SAP=2508.89;SAR=1154;SRF=0;SRP=2637.01;SRR=1213;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:50,53:50:1784:53:1904:-140.631,0,-129.837 0/1:114:58,56:58:2076:56:2012:-147.036,0,-152.793 0/1:34:19,15:19:672:15:536:-38.3398,0,-50.5718 0/1:131:63,68:63:2236:68:2440:-180.42,0,-161.442 0/1:192:97,95:97:3452:95:3381:-246.708,0,-253.097 0/1:173:78,95:78:2788:95:3370:-251.437,0,-199.083 0/1:195:91,104:91:3264:104:3690:-273.601,0,-235.279 1/1:64:0,64:0:0:64:2277:-205.191,-19.2659,0 0/1:192:93,99:93:3336:99:3518:-259.03,0,-242.659 0/1:9:5,4:5:172:4:144:-10.6043,0,-13.1087 0/1:18:5,13:5:176:13:468:-37.0411,0,-10.7582 0/1:58:29,29:29:1024:29:1040:-76.4546,0,-75.0129 0/1:113:61,52:61:2180:52:1864:-134.023,0,-162.45 0/1:75:36,39:36:1284:39:1389:-102.727,0,-93.2862 0/1:216:99,117:99:3528:117:4188:-312.079,0,-252.708 0/1:135:53,82:53:1900:82:2940:-224.193,0,-130.639 0/1:199:94,105:94:3360:105:3734:-276.353,0,-242.712 0/1:68:35,33:35:1248:33:1175:-85.5869,0,-92.1548 0/1:99:69,30:69:2460:30:1076:-67.3509,0,-191.853 0/0:108:107,1:107:3828:1:36:0,-28.913,-341.119 0/0:71:71,0:71:2536:0:0:0,-21.3731,-228.491 chr02 6095424 . ATTATTAG ATTTATCAG,ATTTATTAG 39443.5 PASS AB=0.562963,0.431605;ABP=72.7387,85.2893;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1264,877;CIGAR=1M1I4M1X2M,1M1I7M;DP=2152;DPB=2420.5;DPRA=0,3.11471;EPP=2747.75,1907.39;EPPR=5.18177;GTI=0;LEN=9,1;MEANALT=2.42857,2.5;MQM=36.6946,59.6659;MQMR=60;NS=21;NUMALT=2;ODDS=2.86046;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44276,31201;QR=36;RO=1;RPL=0,0;RPP=2747.75,1907.39;RPPR=5.18177;RPR=1264,877;RUN=1,1;SAF=0,0;SAP=2747.75,1907.39;SAR=1264,877;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:147:0,95,49:0:0:95,49:3359,1741:-395.256,-141.866,-113.268,-253.399,0,-238.649 1/2:87:1,56,30:1:36:56,30:1933,1053:-229.382,-82.7341,-68.8141,-143.993,0,-137.901 1/2:72:0,44,28:0:0:44,28:1531,1000:-196.8,-81.8803,-68.635,-115.264,0,-106.835 1/2:102:0,57,45:0:0:57,45:2011,1589:-281.044,-129.7,-112.541,-151.686,0,-138.14 1/2:224:0,117,107:0:0:117,107:4118,3804:-620.863,-310.278,-275.058,-310.927,0,-278.717 1/2:71:0,38,33:0:0:38,33:1328,1184:-198.247,-96.9343,-85.4952,-101.657,0,-91.7234 1/2:145:0,63,82:0:0:63,82:2201,2907:-405.298,-236.992,-218.028,-168.646,0,-143.961 1/2:120:0,56,63:0:0:56,63:1977,2251:-332.738,-183.572,-166.714,-149.192,0,-130.227 1/2:195:0,130,63:0:0:130,63:4545,2233:-519.134,-181.985,-142.851,-337.274,0,-318.309 1/2:29:0,21,6:0:0:21,6:726,212:-71.8506,-17.3071,-10.9854,-54.5783,0,-52.7721 1/2:12:0,5,7:0:0:5,7:170,252:-33.6637,-20.9217,-19.4166,-13.0768,0,-10.9696 1/2:34:0,23,11:0:0:23,11:787,396:-92.0191,-32.5407,-25.617,-59.8247,0,-56.5134 1/2:57:0,29,28:0:0:29,28:1033,976:-157.285,-79.7208,-70.991,-77.9034,0,-69.4745 1/2:74:0,44,30:0:0:44,30:1537,1067:-203.513,-87.3103,-74.065,-116.547,0,-107.516 1/2:267:0,131,136:0:0:131,136:4592,4859:-743.006,-396.499,-357.064,-346.849,0,-305.909 1/2:89:0,45,44:0:0:45,44:1580,1561:-244.9,-127.526,-113.98,-117.712,0,-104.467 1/2:134:0,85,48:0:0:85,48:2949,1712:-358.894,-139.586,-113.998,-219.321,0,-204.872 1/2:113:0,70,43:0:0:70,43:2439,1540:-309.355,-125.929,-104.857,-183.771,0,-170.827 1/2:53:0,31,21:0:0:31,21:1108,756:-145.243,-61.7098,-52.3779,-83.5462,0,-77.2245 1/1:93:0,90,3:0:0:90,3:3172,108:-266.717,-27.0927,0,-257.911,-17.9291,-257.008 1/1:34:0,34,0:0:0:34,0:1180,0:-100.892,-10.235,0,-100.892,-10.235,-100.892 chr02 6095439 . GTTAA GTAAA,GTAA 41312.1 PASS AB=0.583373,0.415202;ABP=130.102,134.484;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1359,876;CIGAR=2M1X2M,1M1D3M;DP=2239;DPB=2064.6;DPRA=0,3.14857;EPP=2954.04,1905.22;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=2.04762,2.1;MQM=36.7263,59.6164;MQMR=36.5;NS=21;NUMALT=2;ODDS=3.45716;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48183,31014;QR=49;RO=2;RPL=0,0;RPP=2954.04,1905.22;RPPR=7.35324;RPR=1359,876;RUN=1,1;SAF=0,0;SAP=2954.04,1905.22;SAR=1359,876;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:157:0,104,53:0:0:104,53:3692,1846:-427.984,-150.435,-119.128,-277.891,0,-261.936 1/2:91:0,60,31:0:0:60,31:2099,1112:-250.087,-91.0431,-72.9813,-159.392,0,-150.06 1/2:85:0,53,32:0:0:53,32:1861,1143:-232.997,-93.5395,-77.585,-139.803,0,-130.17 1/2:106:0,65,41:0:0:65,41:2285,1449:-290.421,-118.337,-98.77,-172.427,0,-160.085 1/2:233:0,127,106:0:0:127,106:4472,3755:-642.893,-306.232,-268.001,-337.003,0,-305.093 1/2:72:0,39,33:0:0:39,33:1375,1172:-200.56,-95.8535,-84.1133,-105.051,0,-95.1168 1/2:142:0,64,78:0:0:64,78:2296,2727:-397.226,-222.191,-202.925,-175.378,0,-151.898 1/2:124:1,60,63:1:24:60,63:2125,2247:-341.341,-181.448,-165.224,-158.46,0,-141.333 1/2:201:0,135,65:0:0:135,65:4786,2285:-540.079,-185.934,-145.295,-354.13,0,-334.563 1/2:29:0,22,7:0:0:22,7:773,246:-78.5622,-20.3716,-13.749,-58.5361,0,-56.4289 1/2:10:0,5,5:0:0:5,5:170,180:-27.7853,-15.0469,-13.5418,-13.0768,0,-11.5716 1/2:34:0,23,11:0:0:23,11:804,396:-93.1191,-32.5407,-25.617,-60.9265,0,-57.6151 1/2:59:0,33,26:0:0:33,26:1153,915:-161.497,-74.8388,-64.9048,-86.9987,0,-79.1719 1/2:84:0,54,30:0:0:54,30:1932,1063:-232.587,-86.9499,-70.6943,-145.984,0,-136.953 1/2:274:0,137,137:0:0:137,137:4904,4879:-767.074,-397.979,-356.738,-369.439,0,-328.198 1/2:92:0,48,44:0:0:48,44:1708,1571:-254.905,-128.427,-113.978,-126.82,0,-113.575 1/2:141:1,90,50:1:25:90,50:3210,1765:-379.35,-141.372,-116.197,-236.456,0,-223.323 1/2:118:0,77,41:0:0:77,41:2690,1443:-319.982,-117.814,-94.6344,-202.511,0,-190.169 1/2:53:0,32,21:0:0:32,21:1152,748:-148.047,-61.3237,-51.6907,-87.0707,0,-80.749 1/1:99:0,96,2:0:0:96,2:3436,72:-288.092,-28.8989,0,-282.216,-22.9707,-281.614 1/1:35:0,35,0:0:0:35,0:1260,0:-107.048,-10.5361,0,-107.048,-10.5361,-107.048 chr02 6095464 . GAG GTTAG 19842.9 PASS AB=0.559484;ABP=67.3359;AC=23;AF=0.547619;AN=42;AO=1300;CIGAR=1M2I2M;DP=2226;DPB=3095.33;DPRA=0;EPP=2825.92;EPPR=1992.08;GTI=0;LEN=2;MEANALT=1.47619;MQM=36.7423;MQMR=59.6528;NS=21;NUMALT=1;ODDS=10.5683;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45590;QR=32438;RO=916;RPL=1300;RPP=2825.92;RPPR=1992.08;RPR=0;RUN=1;SAF=0;SAP=2825.92;SAR=1300;SRF=0;SRP=1992.08;SRR=916;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:152:56,96:56:1950:96:3401:-239.415,0,-129.968 0/1:92:33,58:33:1163:58:2031:-143.499,0,-77.3094 0/1:86:34,51:34:1201:51:1767:-122.936,0,-82.5771 0/1:102:44,58:44:1540:58:2025:-139.731,0,-108.158 0/1:236:112,123:112:3950:123:4336:-293.144,0,-284.698 0/1:72:34,38:34:1217:38:1338:-92.2092,0,-88.1627 0/1:146:82,64:82:2918:64:2253:-147.807,0,-218.776 0/1:122:67,54:67:2387:54:1870:-121.283,0,-178.385 0/1:200:66,132:66:2339:132:4604:-321.526,0,-150.805 0/1:26:7,19:7:250:19:665:-48.2085,0,-15.0131 0/1:12:7,5:7:249:5:155:-9.77714,0,-19.1431 0/1:35:11,24:11:396:24:840:-60.5839,0,-25.316 0/1:60:29,31:29:1003:31:1081:-73.1048,0,-72.516 0/1:80:30,50:30:1060:50:1728:-121.576,0,-71.6292 0/1:277:140,134:140:4986:134:4713:-312.98,0,-366.092 0/1:94:46,48:46:1634:48:1690:-111.576,0,-119.044 0/1:132:50,82:50:1777:82:2897:-200.574,0,-120.478 0/1:115:42,72:42:1503:72:2526:-176.705,0,-100.883 0/1:54:22,32:22:776:32:1144:-79.9686,0,-53.9074 1/1:99:4,95:4:139:95:3337:-267.97,-16.9581,0 1/1:34:0,34:0:0:34:1189:-101.543,-10.235,0 chr02 6097655 . T A 2126.04 PASS AB=0.241299;ABP=504.101;AC=14;AF=0.333333;AN=42;AO=213;CIGAR=1X;DP=1019;DPB=1019;DPRA=3.18992;EPP=465.534;EPPR=1753.22;GTI=4;LEN=1;MEANALT=1;MQM=58.8028;MQMR=59.7481;NS=21;NUMALT=1;ODDS=2.13107;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7621;QR=28716;RO=806;RPL=213;RPP=465.534;RPPR=1753.22;RPR=0;RUN=1;SAF=0;SAP=465.534;SAR=213;SRF=0;SRP=1753.22;SRR=806;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:67,11:67:2385:11:384:-11.4123,0,-191.426 0/0:16:15,1:15:525:1:36:0,-1.2182,-43.9798 0/1:52:37,15:37:1320:15:540:-33.148,0,-103.448 0/1:39:31,8:31:1078:8:284:-14.1632,0,-85.5842 0/1:104:94,10:94:3380:10:360:-1.42173,0,-273.103 0/0:46:44,2:44:1550:2:72:0,-7.01066,-132.951 0/1:65:50,15:50:1777:15:540:-29.3696,0,-140.644 0/0:37:37,0:37:1313:0:0:0,-11.1381,-118.47 0/1:72:55,17:55:1961:17:608:-33.3779,0,-155.003 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:4:4,0:4:129:0:0:0,-1.20412,-11.9277 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.078 0/1:43:32,11:32:1152:11:396:-23.0338,0,-91.0459 0/1:52:46,6:46:1648:6:205:-3.12706,0,-131.137 0/1:62:52,10:52:1853:10:352:-12.8587,0,-148.384 0/1:16:14,2:14:504:2:72:-2.02024,0,-40.8793 0/0:25:23,2:23:828:2:72:0,-0.689983,-68.0074 0/1:58:43,15:43:1536:15:540:-31.4368,0,-121.064 0/1:70:42,28:42:1488:28:1004:-69.6038,0,-111.934 0/1:108:67,41:67:2389:41:1476:-100.089,0,-182.735 0/1:43:24,19:24:860:19:680:-48.564,0,-64.7694 chr02 6281272 . TAAG CAAA,CAAG 28310.2 PASS AB=0.750188,0.247562;ABP=727.74,740.837;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1268,373;CIGAR=1X2M1X,1X3M;DP=1644;DPB=1644.75;DPRA=16.39,0.797423;EPP=2756.44,812.97;EPPR=0;GTI=10;LEN=4,1;MEANALT=2.1,2.1;MQM=40.0221,31.882;MQMR=0;NS=21;NUMALT=2;ODDS=364.286;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=44182,11837;QR=0;RO=0;RPL=0,0;RPP=2756.44,812.97;RPPR=0;RPR=1268,373;RUN=1,1;SAF=0,0;SAP=2756.44,812.97;SAR=1268,373;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,52,13:0:0:52,13:1806,393:-165.551,-28.3753,-12.7218,-137.46,0,-133.546 1/2:97:0,62,35:0:0:62,35:2172,1140:-253.827,-83.0097,-64.3458,-171.129,0,-160.593 1/2:121:0,88,32:0:0:88,32:3071,1023:-313.14,-73.9985,-47.5078,-239.156,0,-229.523 1/2:94:0,81,12:0:0:81,12:2836,373:-247.414,-26.7817,-2.39828,-220.712,0,-217.099 1/2:148:0,111,37:0:0:111,37:3823,1185:-383.26,-85.432,-52.0176,-297.778,0,-286.64 1/1:120:0,107,13:0:0:107,13:3764,417:-325.631,-32.2102,0,-295.539,-1.82223,-291.626 1/2:148:0,121,27:0:0:121,27:4224,880:-395.608,-64.2825,-27.8579,-331.63,0,-323.502 1/1:97:0,97,0:0:0:97,0:3392,0:-294.733,-29.1999,0,-294.733,-29.1999,-294.733 1/1:68:0,63,5:0:0:63,5:2178,160:-186.041,-18.9649,0,-174.503,-7.13415,-172.998 1/2:4:0,3,1:0:0:3,1:107,32:-10.9955,-2.59808,-1.69499,-8.70061,0,-8.39958 1/2:4:0,2,2:0:0:2,2:72,66:-10.7835,-5.09619,-4.49413,-6.01126,0,-5.4092 1/2:20:0,16,4:0:0:16,4:552,128:-52.7902,-9.52258,-4.7061,-43.5662,0,-42.3621 1/2:104:0,82,21:0:0:82,21:2869,661:-271.183,-47.7418,-23.0574,-223.47,0,-217.149 1/2:121:0,89,32:0:0:89,32:3075,989:-309.556,-71.3217,-44.53,-238.528,0,-228.895 1/2:185:0,140,45:0:0:140,45:4833,1409:-477.953,-101.364,-59.22,-376.884,0,-363.337 1/2:64:0,50,14:0:0:50,14:1746,449:-165.991,-32.6949,-17.6434,-133.595,0,-129.381 1/2:107:0,73,34:0:0:73,34:2568,1070:-276.167,-77.3079,-55.3327,-199.161,0,-188.926 1/2:38:0,25,13:0:0:25,13:878,401:-97.7295,-29.1009,-21.5752,-68.9284,0,-65.015 1/2:13:0,5,8:0:0:5,8:180,256:-32.8167,-18.7552,-17.2501,-14.3855,0,-11.9773 2/2:21:0,1,20:0:0:1,20:36,640:-52.131,-49.3204,-49.0193,-6.0206,-2.86714,0 2/2:5:0,0,5:0:0:0,5:0,165:-13.7958,-13.7958,-13.7958,-1.50515,-1.50515,0 chr02 6281320 . T A 2115.95 PASS AB=0.247851;ABP=773.939;AC=20;AF=0.47619;AN=42;AO=390;CIGAR=1X;DP=1718;DPB=1718;DPRA=0.817677;EPP=849.885;EPPR=2880.21;GTI=9;LEN=1;MEANALT=1.1;MQM=32.2872;MQMR=40.64;NS=21;NUMALT=1;ODDS=0.500061;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13937;QR=47364;RO=1325;RPL=390;RPP=849.885;RPPR=2880.21;RPR=0;RUN=1;SAF=0;SAP=849.885;SAR=390;SRF=0;SRP=2880.21;SRR=1325;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:58,13:58:2065:13:468:-13.2584,0,-154.1 0/1:104:67,35:67:2412:35:1240:-65.3515,0,-179.247 0/1:125:92,33:92:3293:33:1188:-53.967,0,-246.65 0/1:96:84,12:84:3020:12:428:-3.37517,0,-230.484 0/1:154:116,37:116:4149:37:1323:-55.0897,0,-312.221 0/0:123:112,11:112:3949:11:396:0,-5.79031,-310.766 0/1:155:126,29:126:4474:29:1044:-35.3351,0,-342.822 0/0:99:99,0:99:3545:0:0:0,-29.802,-307.18 0/0:71:66,5:66:2372:5:180:0,-7.32226,-187.979 0/1:6:4,2:4:144:2:72:-4.51399,0,-11.106 0/1:5:2,3:2:57:3:108:-7.24104,0,-3.79244 0/1:22:16,6:16:572:6:216:-10.1773,0,-43.2362 0/1:107:86,21:86:3077:21:756:-25.8137,0,-233.455 0/1:126:91,35:91:3257:35:1252:-56.6459,0,-242.143 0/1:193:145,48:145:5220:48:1705:-71.5429,0,-391.588 0/1:65:51,14:51:1832:14:500:-19.1474,0,-135.747 0/1:114:79,35:79:2810:35:1252:-60.7496,0,-207.271 0/1:40:25,15:25:900:15:540:-27.6703,0,-66.0536 0/1:13:5,8:5:180:8:284:-18.2429,0,-11.9773 1/1:22:1,21:1:36:21:733:-53.6786,-3.16817,0 1/1:7:0,7:0:0:7:252:-20.0498,-2.10721,0 chr02 6537023 . CGGGGGAAAT CGGGGGGAAAT 12624.4 PASS AB=0.509969;ABP=3.83286;AC=22;AF=0.52381;AN=42;AO=688;CIGAR=1M1I9M;DP=1281;DPB=1350.6;DPRA=0.488235;EPP=1496.98;EPPR=1273.32;GTI=6;LEN=1;MEANALT=1.35;MQM=52.7326;MQMR=18.1675;NS=21;NUMALT=1;ODDS=0.993416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24339;QR=20623;RO=585;RPL=0;RPP=1496.98;RPPR=1273.32;RPR=688;RUN=1;SAF=688;SAP=1496.98;SAR=0;SRF=585;SRP=1273.32;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:33:22,11:22:754:11:381:-24.6528,0,-26.3974 0/1:7:5,2:5:175:2:72:-4.67104,0,-5.22759 0/1:85:50,35:50:1770:35:1252:-87.2501,0,-56.5068 0/1:100:46,54:46:1626:54:1911:-141.486,0,-48.1543 0/1:74:38,36:38:1349:36:1288:-93.5195,0,-39.0199 0/1:34:22,12:22:777:12:424:-28.1412,0,-21.6432 0/1:100:47,51:47:1659:51:1820:-133.136,0,-37.945 0/0:119:119,0:119:4186:0:0:0,-35.8226,-171.426 0/1:86:40,44:40:1412:44:1568:-115.136,0,-40.6702 0/1:12:4,8:4:140:8:269:-20.8836,0,-2.28721 0/1:5:3,2:3:106:2:72:-5.30184,0,-2.96077 0/1:34:10,24:10:352:24:860:-67.2736,0,-6.09778 0/1:60:29,31:29:1025:31:1116:-82.5333,0,-29.7191 0/1:63:25,38:25:864:38:1295:-97.1079,0,-21.2798 0/1:91:45,44:45:1593:44:1549:-112.181,0,-48.3094 0/1:16:7,9:7:244:9:320:-24.2356,0,-7.67039 0/1:16:9,7:9:318:7:252:-18.13,0,-9.87578 0/1:82:43,39:43:1523:39:1354:-97.2249,0,-41.5753 0/1:55:16,39:16:575:39:1388:-108.544,0,-9.44432 1/1:162:5,156:5:175:156:5553:-487.79,-38.0448,0 1/1:47:0,46:0:0:46:1595:-143.062,-13.8474,0 chr02 6537046 . AGAGCAGAGCAGAGCTG AGAGCAGAGCAG,AG 14758.7 PASS AB=0.542353,0.444706;ABP=16.2537,25.5834;AC=22,20;AF=0.52381,0.47619;AN=42;AO=642,484;CIGAR=11M5D1M,1M15D1M;DP=1138;DPB=518.588;DPRA=0.502427,1.21444;EPP=1388.42,1054;EPPR=0;GTI=9;LEN=5,15;MEANALT=2.5,2.5;MQM=52.9221,17.1178;MQMR=0;NS=21;NUMALT=2;ODDS=0.249383;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22275,16737;QR=0;RO=0;RPL=1,0;RPP=1388.42,1054;RPPR=0;RPR=641,484;RUN=1,1;SAF=642,484;SAP=1397.1,1054;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:25:0,11,14:0:0:11,14:384,496:-49.8204,-18.5421,-15.2308,-31.5523,0,-27.3379 1/2:4:0,2,2:0:0:2,2:72,72:-8.34796,-2.42993,-1.82787,-6.17619,0,-5.57413 1/2:75:0,35,40:0:0:35,40:1205,1370:-150.107,-52.304,-41.768,-98.0696,0,-86.0284 1/2:89:0,48,38:0:0:48,38:1668,1312:-185.077,-49.5154,-35.066,-135.519,0,-124.08 1/2:68:0,35,32:0:0:35,32:1210,1063:-139.293,-41.1099,-30.5739,-98.0869,0,-88.4539 1/2:29:0,10,19:0:0:10,19:356,676:-50.6922,-21.7166,-18.7063,-29.263,0,-23.5435 1/2:91:0,48,43:0:0:48,43:1672,1472:-184.206,-48.9497,-34.5002,-135.504,0,-122.56 2/2:103:0,0,103:0:0:0,103:0,3577:-147.908,-147.908,-147.908,-31.0061,-31.0061,0 1/2:76:0,42,33:0:0:42,33:1451,1147:-160.608,-43.0813,-30.4381,-117.464,0,-107.53 1/2:10:0,8,2:0:0:8,2:284,64:-25.6704,-2.41798,-0.009737,-23.4504,0,-22.8484 1/2:4:0,3,1:0:0:3,1:104,32:-9.84899,-1.28846,-0.385373,-8.76607,0,-8.46504 1/2:31:0,22,8:0:0:22,8:753,271:-69.9888,-8.86981,-2.24715,-60.9913,0,-58.583 1/2:55:0,29,26:0:0:29,26:995,900:-114.968,-34.2342,-25.5043,-80.9903,0,-73.1635 1/2:51:0,29,19:0:0:29,19:1029,672:-108.477,-24.7789,-16.049,-83.623,0,-77.9035 1/2:82:0,43,38:0:0:43,38:1504,1314:-171.062,-49.0544,-36.1101,-121.912,0,-110.473 1/2:14:0,9,5:0:0:9,5:302,176:-31.2244,-6.73476,-4.02549,-24.7243,0,-23.2192 1/2:14:0,7,7:0:0:7,7:244,248:-29.22,-9.36066,-7.25345,-20.1226,0,-18.0154 1/2:76:0,38,37:0:0:38,37:1312,1299:-149.191,-42.7122,-31.2731,-106.38,0,-95.2415 1/2:56:0,42,14:0:0:42,14:1460,477:-137.092,-18.3812,-5.73796,-118.931,0,-114.716 1/1:140:0,136,3:0:0:136,3:4735,99:-424.987,-40.9401,0,-421.611,-37.7078,-420.708 1/1:45:0,45,0:0:0:45,0:1535,0:-137.962,-13.5464,0,-137.962,-13.5464,-137.962 chr02 6853424 . G T 6490.88 PASS AB=0.50702;ABP=3.2847;AC=21;AF=0.5;AN=42;AO=388;CIGAR=1X;DP=747;DPB=747;DPRA=1.72338;EPP=828.259;EPPR=780.397;GTI=1;LEN=1;MEANALT=1.05263;MQM=42.2912;MQMR=59.6173;NS=21;NUMALT=1;ODDS=1.13717;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13850;QR=12817;RO=358;RPL=2;RPP=828.259;RPPR=780.397;RPR=386;RUN=1;SAF=388;SAP=845.542;SAR=0;SRF=358;SRP=780.397;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:22,27:22:788:27:953:-68.809,0,-55.9775 0/1:26:7,19:7:248:19:684:-52.1791,0,-14.8374 0/1:29:16,13:16:576:13:468:-32.6656,0,-43.4369 0/1:10:4,6:4:144:6:216:-16.2852,0,-10.3033 0/1:87:40,47:40:1432:47:1670:-118.114,0,-102.958 0/1:36:16,20:16:564:20:720:-53.2067,0,-40.2532 0/1:49:30,19:30:1065:19:676:-44.8899,0,-81.323 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/1:60:35,25:35:1260:25:896:-59.5727,0,-95.633 0/1:7:2,5:2:72:5:161:-11.7548,0,-4.72951 0/1:6:5,1:5:180:1:36:-1.72994,0,-14.7459 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.0173 0/1:42:22,20:22:788:20:705:-47.9011,0,-58.5852 0/1:29:16,13:16:576:13:464:-32.4097,0,-43.4369 0/1:74:37,37:37:1324:37:1332:-93.8784,0,-97.185 0/1:46:24,22:24:860:22:773:-54.3035,0,-63.8595 0/1:36:15,21:15:532:21:756:-55.7869,0,-37.376 0/1:28:17,11:17:608:11:396:-25.0811,0,-46.6198 0/1:26:7,19:7:252:19:684:-52.4196,0,-15.2022 1/1:44:0,44:0:0:44:1580:-139.625,-13.2453,0 1/1:19:0,19:0:0:19:680:-60.5446,-5.71957,0 chr02 6853425 . G A 6094.39 PASS AB=0.5;ABP=3.0103;AC=20;AF=0.47619;AN=42;AO=360;CIGAR=1X;DP=745;DPB=745;DPRA=1.15959;EPP=784.74;EPPR=830.364;GTI=3;LEN=1;MEANALT=1;MQM=59.4528;MQMR=42.2182;NS=21;NUMALT=1;ODDS=1.22325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12833;QR=13759;RO=385;RPL=0;RPP=784.74;RPPR=830.364;RPR=360;RUN=1;SAF=360;SAP=784.74;SAR=0;SRF=385;SRP=839.027;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:28,23:28:1000:23:828:-59.3254,0,-72.3998 0/1:24:17,7:17:608:7:248:-15.4395,0,-46.3774 0/1:31:15,16:15:540:16:565:-41.847,0,-38.3683 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.2852 0/1:86:46,40:46:1637:40:1428:-102.896,0,-115.339 0/1:35:19,16:19:680:16:568:-40.9158,0,-49.9906 0/1:49:18,31:18:648:31:1116:-85.9149,0,-42.2934 1/1:37:0,37:0:0:37:1309:-118.11,-11.1381,0 0/1:60:25,35:25:900:35:1256:-95.2728,0,-59.8838 0/1:6:5,1:5:180:1:36:-1.79209,0,-13.1678 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.72994 0/1:8:1,7:1:36:7:246:-20.0678,0,-1.11277 0/1:42:21,21:21:752:21:756:-55.7076,0,-52.0151 0/1:28:12,16:12:428:16:561:-42.3801,0,-29.5489 0/1:75:37,38:37:1302:38:1356:-99.7542,0,-90.8991 0/1:46:22,24:22:784:24:844:-62.4274,0,-55.2641 0/1:35:21,14:21:756:14:496:-34.4382,0,-56.0879 0/1:28:10,18:10:360:18:644:-48.045,0,-23.6624 0/1:26:19,7:19:684:7:252:-15.2022,0,-52.4196 0/0:43:43,0:43:1532:0:0:0,-12.9443,-135.43 0/0:19:19,0:19:680:0:0:0,-5.71957,-60.024 chr02 6853444 . G A 6453.21 PASS AB=0.501534;ABP=3.02362;AC=22;AF=0.52381;AN=42;AO=391;CIGAR=1X;DP=753;DPB=753;DPRA=0.967568;EPP=852.056;EPPR=789.083;GTI=1;LEN=1;MEANALT=1;MQM=42.2327;MQMR=59.3812;NS=21;NUMALT=1;ODDS=1.80033;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13976;QR=12930;RO=362;RPL=391;RPP=852.056;RPPR=789.083;RPR=0;RUN=1;SAF=391;SAP=852.056;SAR=0;SRF=362;SRP=789.083;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:23,28:23:828:28:1001:-72.5721,0,-59.3254 0/1:26:7,19:7:252:19:680:-51.8508,0,-15.2022 0/1:31:16,15:16:576:15:536:-38.0472,0,-42.8349 0/1:10:4,6:4:144:6:216:-16.2852,0,-10.3033 0/1:84:39,45:39:1388:45:1614:-113.893,0,-99.8994 0/1:35:16,19:16:568:19:684:-50.3141,0,-40.9158 0/1:50:31,19:31:1116:19:673:-44.3588,0,-85.6139 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 0/1:60:35,25:35:1245:25:900:-59.8838,0,-94.2906 0/1:7:3,4:3:104:4:144:-10.6663,0,-6.86937 0/1:7:5,2:5:180:2:66:-4.05323,0,-14.4449 0/1:8:7,1:7:237:1:32:-0.758585,0,-19.2472 0/1:41:20,21:20:720:21:752:-52.3162,0,-52.7784 0/1:29:16,13:16:576:13:468:-32.2986,0,-43.4369 0/1:75:38,37:38:1364:37:1324:-93.0848,0,-100.474 0/1:46:24,22:24:849:22:777:-54.6147,0,-62.8591 0/1:38:16,22:16:576:22:773:-56.793,0,-40.7358 0/1:28:18,10:18:631:10:356:-23.3401,0,-47.6582 0/1:26:7,19:7:248:19:684:-52.4196,0,-14.8374 1/1:44:0,44:0:0:44:1580:-139.557,-13.2453,0 1/1:20:0,20:0:0:20:716:-63.2492,-6.0206,0 chr02 6853449 . AGATGATGATGATGATC AGAAGATGATGATC,AGATGATGATGATC 12928.4 PASS AB=0.527454,0.459235;ABP=6.94496,11.6854;AC=22,20;AF=0.52381,0.47619;AN=42;AO=378,307;CIGAR=1M3D2M1X10M,1M3D13M;DP=693;DPB=571.706;DPRA=1.06774,1.0906;EPP=823.827,669.652;EPPR=0;GTI=2;LEN=14,3;MEANALT=2.3,2.36842;MQM=42.0661,59.7394;MQMR=0;NS=21;NUMALT=2;ODDS=0.965973;PAIRED=0,0;PAIREDR=0;PAO=4.66667,4.66667;PQA=159.333,159.333;PQR=159.333;PRO=4.66667;QA=13160,10700;QR=0;RO=0;RPL=378,307;RPP=823.827,669.652;RPPR=0;RPR=0,0;RUN=1,1;SAF=378,307;SAP=823.827,669.652;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:48:0,27,21:0:0:27,21:928,744:-134.216,-60.9042,-52.7764,-73.6078,0,-67.2862 1/2:25:0,17,7:0:0:17,7:605,233:-67.0121,-18.8408,-13.7233,-48.1621,0,-46.0549 1/2:31:0,15,16:0:0:15,16:531,560:-88.0341,-45.9041,-41.3886,-42.4776,0,-37.6611 1/2:10:0,6,4:0:0:6,4:214,144:-29.091,-12.1095,-10.3033,-17.3366,0,-16.1325 1/2:80:0,46,33:0:0:46,33:1551,1167:-216.703,-95.0397,-81.1923,-121.644,0,-111.71 1/2:34:0,19,15:0:0:19,15:682,523:-97.4245,-42.8337,-37.1141,-54.8931,0,-50.3777 1/2:44:0,17,26:0:0:17,26:599,883:-119.2,-71.5488,-66.4313,-47.5947,0,-39.768 2/2:31:0,0,31:0:0:0,31:0,1077:-97.2362,-97.2362,-97.2362,-9.33193,-9.33193,0 1/2:57:0,25,32:0:0:25,32:886,1117:-160.705,-91.2021,-83.6764,-69.8477,0,-60.2148 1/2:6:0,3,1:0:0:3,1:85,36:-9.64342,-2.97972,-2.07663,-6.68957,0,-6.38854 1/2:6:0,1,5:0:0:1,5:36,172:-17.1519,-14.2706,-13.9696,-3.23509,0,-1.72994 1/2:6:0,1,5:0:0:1,5:36,180:-17.9135,-15.0469,-14.7459,-3.21998,0,-1.71483 1/2:41:0,21,20:0:0:21,20:728,708:-115.008,-58.0086,-51.687,-57.3436,0,-51.323 1/2:26:0,13,12:0:0:13,12:441,409:-67.8391,-33.1565,-29.2431,-34.6609,0,-31.0486 1/2:68:0,35,32:0:0:35,32:1242,1113:-188.305,-90.3722,-79.8361,-97.8182,0,-88.1853 1/2:43:0,22,20:0:0:22,20:778,701:-118.68,-57.0484,-50.4257,-61.6577,0,-55.6371 1/2:28:0,20,8:0:0:20,8:680,280:-76.8063,-23.0387,-17.0181,-54.0216,0,-51.6134 1/2:24:0,10,14:0:0:10,14:349,481:-67.2521,-39.4008,-36.3905,-28.1944,0,-23.98 1/2:24:0,19,5:0:0:19,5:671,172:-67.4553,-14.3128,-8.59325,-53.4864,0,-51.9813 1/1:43:0,43,0:0:0:43,0:1493,0:-132.093,-12.9443,0,-132.093,-12.9443,-132.093 1/1:18:0,18,0:0:0:18,0:625,0:-55.525,-5.41854,0,-55.525,-5.41854,-55.525 chr02 6913810 . TAATG CACTG,CACTA 65368.1 PASS AB=0.514271,0.479815;ABP=9.88989,16.7734;AC=22,20;AF=0.52381,0.47619;AN=42;AO=2114,1923;CIGAR=1X1M1X2M,1X1M1X1M1X;DP=4060;DPB=4060;DPRA=3.5114,3.64358;EPP=4593.5,4178.75;EPPR=5.18177;GTI=0;LEN=5,5;MEANALT=2.85,2.94737;MQM=59.6097,28.0634;MQMR=60;NS=21;NUMALT=2;ODDS=29.6787;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74201,67794;QR=36;RO=1;RPL=0,0;RPP=4593.5,4178.75;RPPR=5.18177;RPR=2114,1923;RUN=1,1;SAF=0,0;SAP=4593.5,4178.75;SAR=2114,1923;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,54,51:0:0:54,51:1917,1800:-272.8,-116.588,-100.332,-156.27,0,-140.918 1/2:41:0,20,21:0:0:20,21:708,738:-99.6527,-41.9336,-35.913,-58.0242,0,-51.7026 1/2:35:0,21,14:0:0:21,14:739,497:-92.5995,-32.41,-26.0884,-60.5032,0,-56.2888 1/2:87:0,51,36:0:0:51,36:1806,1269:-228.261,-81.1046,-65.7521,-147.468,0,-136.631 1/2:198:0,103,94:0:0:103,94:3616,3318:-508.748,-214.519,-183.513,-294.237,0,-265.94 1/2:68:0,33,34:0:0:33,34:1140,1200:-160.354,-67.7325,-57.7985,-92.6417,0,-82.4067 1/2:106:0,57,49:0:0:57,49:2007,1723:-261.145,-97.7241,-80.5654,-163.72,0,-148.97 2/2:57:0,0,57:0:0:0,57:0,2013:-139.572,-139.572,-139.572,-17.1587,-17.1587,0 1/2:123:0,55,67:0:0:55,67:1925,2379:-317.243,-160.657,-144.101,-156.554,0,-136.385 1/2:370:0,210,160:0:0:210,160:7426,5638:-947.075,-342.336,-279.12,-605.046,0,-556.881 1/2:787:0,420,364:0:0:420,364:14742,12867:-1924.21,-724.66,-598.227,-1199.56,0,-1089.98 1/2:270:0,139,129:0:0:139,129:4876,4557:-672.89,-276.068,-234.225,-396.852,0,-358.019 1/2:94:0,36,57:0:0:36,57:1273,2035:-234.996,-131.29,-120.453,-103.676,0,-86.5169 1/2:61:0,25,36:0:0:25,36:874,1240:-152.187,-81.0671,-73.5413,-71.4419,0,-60.6048 1/2:122:0,78,44:0:0:78,44:2731,1558:-323.584,-101.409,-77.9289,-222.486,0,-209.24 1/2:50:0,18,32:0:0:18,32:638,1094:-128.581,-76.5852,-71.1666,-52.3297,0,-42.6967 1/2:69:0,34,35:0:0:34,35:1198,1237:-182.574,-85.0151,-74.78,-97.8865,0,-87.3505 1/2:1241:1,606,622:1:36:606,622:21160,21884:-3045.2,-1324.49,-1145,-1718.11,0,-1533.8 1/2:61:0,40,21:0:0:40,21:1420,747:-163.495,-47.7563,-35.7151,-116.048,0,-109.726 1/1:86:0,86,0:0:0:86,0:3019,0:-271.928,-25.8886,0,-271.928,-25.8886,-271.928 1/1:28:0,28,0:0:0:28,0:986,0:-89.0519,-8.42884,0,-89.0519,-8.42884,-89.0519 chr02 6913820 . C G 18042.1 PASS AB=0.487595;ABP=8.12849;AC=20;AF=0.47619;AN=42;AO=1923;CIGAR=1X;DP=3996;DPB=3996;DPRA=3.68421;EPP=4178.75;EPPR=4500.13;GTI=0;LEN=1;MEANALT=1.10526;MQM=28.4685;MQMR=59.6263;NS=21;NUMALT=1;ODDS=26.7012;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68199;QR=73785;RO=2071;RPL=0;RPP=4178.75;RPPR=4500.13;RPR=1923;RUN=1;SAF=0;SAP=4178.75;SAR=1923;SRF=0;SRP=4500.13;SRR=2071;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:53,50:53:1887:50:1788:-99.2033,0,-138.815 0/1:42:20,22:20:720:22:788:-38.2245,0,-52.4822 0/1:32:20,12:20:705:12:428:-22.173,0,-54.1329 0/1:87:51,36:51:1832:36:1280:-67.3289,0,-138.971 0/1:200:105,95:105:3737:95:3383:-187.107,0,-276.31 0/1:69:36,33:36:1296:33:1172:-55.2768,0,-96.0809 0/1:103:56,47:56:2012:47:1680:-77.332,0,-150.325 1/1:56:0,56:0:0:56:1986:-137.269,-16.8577,0 0/1:120:54,66:54:1944:66:2355:-142.633,0,-139.018 0/1:363:205,157:205:7300:157:5571:-275.507,0,-547.756 0/1:784:412,372:412:14612:372:13224:-628.718,0,-1078.58 0/1:262:135,127:135:4810:127:4513:-231.523,0,-354.156 0/1:91:34,57:34:1224:57:2044:-121.601,0,-83.0733 0/1:61:25,36:25:900:36:1292:-74.718,0,-62.949 0/1:120:76,44:76:2728:44:1563:-78.7036,0,-209.567 0/1:47:16,31:16:576:31:1091:-70.3459,0,-38.0266 0/1:69:34,35:34:1216:35:1232:-74.1389,0,-88.9746 0/1:1216:589,627:589:20918:627:22089:-1159.7,0,-1515.73 0/1:59:39,20:39:1396:20:720:-33.9132,0,-108.169 0/0:86:86,0:86:3080:0:0:0,-25.8886,-277.41 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5997 chr02 6913843 . A T 18297.7 PASS AB=0.486151;ABP=9.44602;AC=20;AF=0.47619;AN=42;AO=1934;CIGAR=1X;DP=4032;DPB=4032;DPRA=3.65068;EPP=4202.64;EPPR=4554.42;GTI=0;LEN=1;MEANALT=1.10526;MQM=28.5021;MQMR=59.572;NS=21;NUMALT=1;ODDS=25.8812;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69182;QR=74909;RO=2096;RPL=1934;RPP=4202.64;RPPR=4554.42;RPR=0;RUN=1;SAF=0;SAP=4202.64;SAR=1934;SRF=0;SRP=4554.42;SRR=2096;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:55,50:55:1934:50:1773:-97.9246,0,-142.709 0/1:41:20,21:20:712:21:752:-36.2227,0,-52.0611 0/1:35:22,13:22:780:13:460:-22.9647,0,-59.85 0/1:86:48,38:48:1679:38:1353:-72.7461,0,-125.502 0/1:197:104,93:104:3705:93:3325:-183.056,0,-274.305 0/1:70:36,33:36:1284:33:1161:-54.6062,0,-94.7979 0/1:106:58,48:58:2073:48:1713:-78.3621,0,-154.899 1/1:56:0,56:0:0:56:2012:-137.938,-16.8577,0 0/1:121:54,67:54:1928:67:2400:-145.442,0,-137.325 0/1:367:206,161:206:7373:161:5769:-285.299,0,-552.704 0/1:788:411,377:411:14691:377:13488:-643.246,0,-1084.44 0/1:267:137,130:137:4894:130:4645:-237.916,0,-360.19 0/1:94:37,57:37:1328:57:2048:-120.802,0,-91.5254 0/1:59:24,35:24:852:35:1241:-72.0622,0,-59.2332 0/1:122:77,45:77:2748:45:1612:-81.1899,0,-210.775 0/1:49:19,30:19:680:30:1053:-66.286,0,-46.7087 0/1:68:33,35:33:1184:35:1241:-74.7581,0,-86.3959 0/1:1227:602,624:602:21591:624:22384:-1164.14,0,-1573.07 0/1:61:40,21:40:1440:21:752:-35.8966,0,-111.526 0/0:85:85,0:85:3029:0:0:0,-25.5875,-272.824 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 chr02 6918918 . C T 10786.9 PASS AB=0.295792;ABP=1147.95;AC=19;AF=0.452381;AN=42;AO=935;CIGAR=1X;DP=3391;DPB=3391;DPRA=1.44668;EPP=2024.66;EPPR=5333.98;GTI=3;LEN=1;MEANALT=1.05263;MQM=43.3626;MQMR=59.9035;NS=21;NUMALT=1;ODDS=15.6681;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33570;QR=88012;RO=2455;RPL=0;RPP=2033.34;RPPR=5333.98;RPR=935;RUN=1;SAF=934;SAP=2024.66;SAR=1;SRF=2455;SRP=5333.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:169:110,59:110:3956:59:2116:-135.669,0,-305.356 0/1:125:93,32:93:3335:32:1139:-62.4235,0,-262.706 0/1:174:136,38:136:4863:38:1360:-66.677,0,-385.279 0/1:171:122,49:122:4372:49:1760:-102.955,0,-342.177 0/1:284:214,70:214:7684:70:2512:-135.213,0,-606.091 0/1:177:141,36:141:5064:36:1296:-60.6912,0,-402.621 0/1:203:134,69:134:4808:69:2480:-155.888,0,-371.765 0/1:251:116,135:116:4164:135:4844:-351.952,0,-299.376 0/1:315:221,93:221:7936:93:3336:-196.626,0,-619.51 0/1:18:11,7:11:396:7:252:-16.917,0,-30.5642 0/1:9:5,4:5:180:4:144:-10.3744,0,-13.8428 0/1:69:41,28:41:1476:28:1008:-68.5586,0,-112.365 0/1:220:154,66:154:5524:66:2367:-141.439,0,-431.013 0/1:150:113,37:113:4016:37:1328:-71.9188,0,-316.437 0/1:259:179,80:179:6415:80:2876:-174.426,0,-499.444 0/1:88:55,33:55:1963:33:1188:-78.4509,0,-150.444 0/1:104:73,31:73:2624:31:1116:-66.9981,0,-205.1 0/1:201:156,45:156:5586:45:1620:-82.3893,0,-442.328 0/1:174:151,23:151:5406:23:828:-20.6648,0,-434.277 0/0:129:129,0:129:4624:0:0:0,-38.8329,-416.316 0/0:101:101,0:101:3620:0:0:0,-30.404,-325.997 chr02 6918925 . CGCCT TGCCT,TGCCA 77645.9 PASS AB=0.692827,0.302026;ABP=1007.1,1061.41;AC=23,19;AF=0.547619,0.452381;AN=42;AO=2375,939;CIGAR=1X4M,1X3M1X;DP=3331;DPB=3331;DPRA=0,1.47416;EPP=1001.45,2024.69;EPPR=0;GTI=3;LEN=1,5;MEANALT=2.66667,2.78947;MQM=59.9335,43.4569;MQMR=0;NS=21;NUMALT=2;ODDS=3.32239;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84993,32749;QR=0;RO=0;RPL=665,3;RPP=1001.45,2016.05;RPPR=0;RPR=1710,936;RUN=1,1;SAF=2375,938;SAP=5160.26,2033.35;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:168:0,107,60:0:0:107,60:3836,2088:-478.798,-165.92,-133.71,-312.866,0,-294.804 1/2:123:0,91,31:0:0:91,31:3241,1079:-349.939,-85.7871,-58.3933,-264.205,0,-254.873 1/2:168:0,128,39:0:0:128,39:4580,1359:-480.788,-107.454,-68.9217,-373.426,0,-361.685 1/2:173:0,124,49:0:0:124,49:4435,1724:-498.556,-136.909,-99.5818,-361.993,0,-347.243 1/2:280:0,208,72:0:0:208,72:7468,2489:-806.71,-197.515,-134.901,-609.538,0,-587.864 1/2:173:0,137,35:0:0:137,35:4894,1203:-494.249,-95.222,-53.9808,-399.008,0,-388.472 1/2:198:0,128,67:0:0:128,67:4562,2337:-557.758,-185.889,-147.357,-371.9,0,-351.731 1/2:248:0,112,135:0:0:112,135:3986,4678:-698.311,-373.445,-339.73,-324.924,0,-284.284 1/2:307:0,211,92:0:0:211,92:7555,3210:-869.972,-253.853,-190.336,-616.172,0,-588.477 1/2:19:0,12,7:0:0:12,7:432,241:-54.6233,-19.3589,-15.7465,-35.6088,0,-33.5016 1/2:9:0,5,4:0:0:5,4:180,144:-26.5701,-11.8795,-10.3744,-15.0469,0,-13.8428 1/2:70:0,41,29:0:0:41,29:1472,1016:-201.413,-81.3294,-68.9872,-120.434,0,-111.704 1/2:211:0,145,65:0:0:145,65:5200,2291:-606.294,-182.162,-138.513,-424.19,0,-404.623 1/2:146:0,106,39:0:0:106,39:3804,1357:-418.32,-108.019,-76.1099,-310.288,0,-298.548 1/2:255:0,174,80:0:0:174,80:6228,2805:-730.317,-222.436,-170.057,-507.871,0,-483.788 1/2:91:0,54,37:0:0:54,37:1927,1306:-261.709,-104.619,-88.363,-157.441,0,-146.303 1/2:100:0,69,30:0:0:69,30:2468,1029:-282.787,-81.5254,-60.7543,-201.285,0,-192.254 1/2:200:0,155,45:0:0:155,45:5556,1576:-579.078,-125.948,-79.288,-453.477,0,-439.931 1/2:170:0,147,23:0:0:147,23:5256,817:-493.873,-65.3114,-21.06,-428.91,0,-421.986 1/1:126:0,126,0:0:0:126,0:4519,0:-406.86,-37.9298,0,-406.86,-37.9298,-406.86 1/1:96:0,95,0:0:0:95,0:3394,0:-305.315,-28.5979,0,-305.315,-28.5979,-305.315 chr02 6918990 . A G 2934.84 PASS AB=0.170213;ABP=2977.79;AC=16;AF=0.380952;AN=42;AO=583;CIGAR=1X;DP=4182;DPB=4182;DPRA=0.601402;EPP=1268.98;EPPR=7798.61;GTI=11;LEN=1;MEANALT=1.05;MQM=59.9983;MQMR=59.9922;NS=21;NUMALT=1;ODDS=17.1212;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20588;QR=127995;RO=3598;RPL=0;RPP=1268.98;RPPR=7798.61;RPR=583;RUN=1;SAF=0;SAP=1268.98;SAR=583;SRF=0;SRP=7815.97;SRR=3598;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:132,31:132:4731:31:1084:-48.7982,0,-376.88 0/1:137:118,19:118:4211:19:671:-19.4747,0,-337.928 0/1:199:176,23:176:6257:23:819:-14.1266,0,-503.318 0/0:376:347,29:347:12343:29:1023:0,-20.8055,-1018.33 0/1:446:395,51:395:14003:51:1777:-25.9484,0,-1125.79 0/1:244:217,27:217:7727:27:968:-13.986,0,-622.011 0/1:253:228,25:228:8125:25:888:-4.07844,0,-655.106 0/0:321:321,0:321:11392:0:0:0,-96.6306,-1025.16 0/1:315:273,42:273:9710:42:1478:-38.4885,0,-779.025 0/0:24:22,2:22:780:2:63:0,-1.24156,-64.5399 0/1:11:8,3:8:288:3:95:-5.55272,0,-22.9561 0/1:52:46,6:46:1648:6:216:-4.13695,0,-132.955 0/1:230:200,30:200:7161:30:1056:-26.1121,0,-575.308 0/1:230:203,27:203:7209:27:961:-17.5691,0,-579.629 0/1:347:302,45:302:10757:45:1612:-40.9127,0,-863.422 0/0:145:140,5:140:4955:5:180:0,-27.0973,-429.545 0/0:167:156,11:156:5566:11:387:0,-15.1061,-465.892 0/1:130:90,40:90:3212:40:1419:-88.8727,0,-250.17 0/1:124:78,46:78:2767:46:1627:-109.39,0,-211.945 0/1:156:90,66:90:3186:66:2347:-164.528,0,-240.002 0/1:112:56,55:56:1967:55:1917:-139.029,0,-143.528 chr02 6919006 . A G 28103.6 PASS AB=0.354945;ABP=721.8;AC=19;AF=0.452381;AN=42;AO=1397;CIGAR=1X;DP=4205;DPB=4205;DPRA=1.84414;EPP=3.04916;EPPR=222.779;GTI=1;LEN=1;MEANALT=1.05;MQM=59.98;MQMR=59.9996;NS=21;NUMALT=1;ODDS=19.3389;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49904;QR=100441;RO=2807;RPL=701;RPP=3.04916;RPPR=222.779;RPR=696;RUN=1;SAF=0;SAP=3036.56;SAR=1397;SRF=0;SRP=6098.33;SRR=2807;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:165:135,30:135:4834:30:1041:-44.3255,0,-385.543 0/1:139:92,46:92:3296:46:1636:-105.625,0,-254.957 0/1:198:120,78:120:4312:78:2796:-192.276,0,-328.651 0/1:380:224,156:224:8002:156:5566:-386.673,0,-605.808 0/1:439:305,134:305:10928:134:4804:-300.363,0,-851.262 0/1:243:155,88:155:5545:88:3151:-210.664,0,-426.023 0/1:255:186,69:186:6643:69:2460:-144.892,0,-521.184 0/1:337:124,213:124:4401:213:7610:-583.49,0,-294.815 0/1:311:201,110:201:7220:110:3943:-261.44,0,-556.23 0/1:24:11,13:11:387:13:459:-34.4194,0,-27.9412 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4788 0/1:53:28,25:28:993:25:896:-65.0058,0,-73.7279 0/1:230:136,94:136:4880:94:3361:-233.468,0,-370.114 0/1:233:138,95:138:4925:95:3384:-234.637,0,-373.261 0/1:351:243,108:243:8698:108:3869:-242.584,0,-677.147 0/1:140:105,35:105:3738:35:1232:-69.0371,0,-294.474 0/1:168:122,46:122:4355:46:1648:-98.0309,0,-341.549 0/1:131:102,29:102:3656:29:1044:-54.8399,0,-289.809 0/1:125:103,22:103:3700:22:788:-33.616,0,-295.572 0/0:161:160,1:160:5736:1:36:0,-44.8676,-512.757 0/0:111:111,0:111:3976:0:0:0,-33.4143,-358.03 chr02 6919008 . T C 3087.15 PASS AB=0.168671;ABP=3016.16;AC=16;AF=0.380952;AN=42;AO=578;CIGAR=1X;DP=4203;DPB=4203;DPRA=0.586818;EPP=1181.17;EPPR=7351.51;GTI=10;LEN=1;MEANALT=1.05;MQM=59.9983;MQMR=59.9981;NS=21;NUMALT=1;ODDS=3.54731;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20669;QR=129518;RO=3624;RPL=569;RPP=1181.17;RPPR=7351.51;RPR=9;RUN=1;SAF=0;SAP=1258.12;SAR=578;SRF=0;SRP=7872.43;SRR=3624;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:135,31:135:4840:31:1107:-49.9698,0,-385.782 0/1:137:117,19:117:4184:19:680:-20.3337,0,-335.551 0/1:196:172,24:172:6157:24:864:-19.0807,0,-495.225 0/0:380:353,27:353:12622:27:957:0,-27.9475,-1049.36 0/1:453:401,52:401:14333:52:1847:-30.1422,0,-1153.36 0/1:238:213,25:213:7605:25:888:-8.59389,0,-612.844 0/1:251:227,24:227:8128:24:864:-2.52404,0,-655.977 0/0:330:330,0:330:11737:0:0:0,-99.3399,-1056.2 0/1:313:269,44:269:9610:44:1576:-47.9092,0,-770.63 0/0:23:21,2:21:737:2:72:0,-0.0869673,-59.8139 0/1:11:8,3:8:288:3:99:-5.92519,0,-22.9561 0/1:52:46,6:46:1640:6:216:-4.13695,0,-132.235 0/1:227:199,28:199:7109:28:1004:-22.3421,0,-571.535 0/1:233:205,28:205:7337:28:1004:-20.5359,0,-590.238 0/1:350:309,41:309:11077:41:1476:-27.7757,0,-891.457 0/0:143:138,5:138:4960:5:180:0,-26.4952,-429.995 0/0:167:156,11:156:5563:11:388:0,-15.0146,-465.529 0/1:131:94,37:94:3376:37:1328:-80.3873,0,-264.62 0/1:126:79,47:79:2809:47:1684:-113.917,0,-215.119 0/1:164:96,68:96:3402:68:2427:-169.316,0,-257.025 0/1:112:56,56:56:2004:56:2008:-147.278,0,-146.918 chr02 6919020 . T A 19603.4 PASS AB=0.348011;ABP=805.007;AC=19;AF=0.452381;AN=42;AO=1392;CIGAR=1X;DP=4277;DPB=4277;DPRA=1.82588;EPP=3025.7;EPPR=6259.03;GTI=2;LEN=1;MEANALT=1;MQM=59.9799;MQMR=60;NS=21;NUMALT=1;ODDS=7.87075;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49923;QR=102944;RO=2885;RPL=1392;RPP=3025.7;RPPR=6259.03;RPR=0;RUN=1;SAF=0;SAP=3025.7;SAR=1392;SRF=0;SRP=6267.71;SRR=2885;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:140,30:140:4987:30:1080:-46.3382,0,-397.8 0/1:139:93,46:93:3317:46:1652:-107.125,0,-256.904 0/1:197:119,78:119:4207:78:2800:-192.937,0,-319.508 0/1:385:232,153:232:8252:153:5500:-379.227,0,-626.794 0/1:460:324,136:324:11572:136:4880:-300.877,0,-902.874 0/1:248:159,89:159:5639:89:3188:-212.488,0,-432.976 0/1:258:188,70:188:6724:70:2508:-148.306,0,-527.57 0/1:337:125,212:125:4465:212:7593:-581.959,0,-300.572 0/1:316:209,107:209:7493:107:3848:-251.389,0,-579.284 0/1:23:11,12:11:396:12:432:-32.2975,0,-29.0591 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:52:27,25:27:953:25:881:-63.9523,0,-70.4298 0/1:231:137,94:137:4878:94:3368:-233.798,0,-369.634 0/1:234:141,93:141:5022:93:3333:-229.746,0,-381.685 0/1:355:248,107:248:8850:107:3840:-238.772,0,-689.62 0/1:146:109,37:109:3900:37:1324:-75.5117,0,-307.244 0/1:170:124,46:124:4415:46:1652:-97.7888,0,-346.344 0/1:136:107,29:107:3829:29:1036:-52.6133,0,-303.865 0/1:130:108,22:108:3865:22:792:-32.4718,0,-308.909 0/0:166:165,1:165:5904:1:36:0,-46.3727,-527.872 0/0:114:114,0:114:4096:0:0:0,-34.3174,-368.824 chr02 7458823 . G A 35175.1 PASS AB=0.540856;ABP=17.9149;AC=32;AF=0.761905;AN=42;AO=1638;CIGAR=1X;DP=2232;DPB=2232;DPRA=0;EPP=3473.55;EPPR=1147.27;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9725;MQMR=59.9663;NS=21;NUMALT=1;ODDS=8.82024;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58696;QR=21214;RO=593;RPL=10;RPP=3473.55;RPPR=1147.27;RPR=1628;RUN=1;SAF=1638;SAP=3559.88;SAR=0;SRF=593;SRP=1290.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,124:0:0:124:4448:-400.49,-37.3277,0 1/1:84:0,84:0:0:84:3001:-270.32,-25.2865,0 1/1:134:0,134:0:0:134:4797:-431.755,-40.338,0 1/1:59:0,59:0:0:59:2116:-190.707,-17.7608,0 0/1:219:117,102:117:4200:102:3653:-263.046,0,-312.254 0/1:79:49,30:49:1764:30:1076:-73.3715,0,-135.262 0/1:110:50,60:50:1792:60:2160:-161.553,0,-128.442 0/0:121:120,1:120:4297:1:36:0,-32.8264,-383.296 0/1:280:137,142:137:4864:142:5093:-374.275,0,-353.674 0/1:25:5,20:5:180:20:709:-56.609,0,-9.02631 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 0/1:120:50,70:50:1792:70:2512:-190.208,0,-125.439 1/1:69:1,68:1:36:68:2432:-215.537,-17.1728,0 1/1:241:0,241:0:0:241:8638:-777.41,-72.5482,0 1/1:90:0,90:0:0:90:3212:-289.302,-27.0927,0 1/1:103:0,103:0:0:103:3689:-332.124,-31.0061,0 0/1:87:34,53:34:1209:53:1900:-145.088,0,-82.9245 0/1:108:29,79:29:1044:79:2836:-222.967,0,-61.7636 1/1:71:0,71:0:0:71:2544:-229.211,-21.3731,0 1/1:57:1,56:1:36:56:2012:-177.755,-13.5604,0 chr02 7605017 . TTGGA TGGGG,TAGGA 33505.5 PASS AB=0.504178,0.493036;ABP=3.11918,3.31273;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1179,439;CIGAR=1M1X2M1X,1M1X3M;DP=1634;DPB=1634.6;DPRA=0.934337,1.32564;EPP=2563.18,956.287;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.1,2.4;MQM=59.6777,59.9909;MQMR=0;NS=21;NUMALT=2;ODDS=4.10507;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=40516,15603;QR=0;RO=0;RPL=0,0;RPP=2563.18,956.287;RPPR=0;RPR=1179,439;RUN=1,1;SAF=0,0;SAP=2563.18,956.287;SAR=1179,439;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,65,0:0:0:65,0:2221,0:-199.837,-19.567,0,-199.837,-19.567,-199.837 1/1:26:0,26,0:0:0:26,0:898,0:-81.1286,-7.82678,0,-81.1286,-7.82678,-81.1286 1/1:92:0,87,2:0:0:87,2:3023,72:-271.997,-26.1896,0,-266.122,-20.2775,-265.52 1/1:136:0,134,0:0:0:134,0:4655,0:-418.815,-40.338,0,-418.815,-40.338,-418.815 1/2:141:0,66,75:0:0:66,75:2320,2660:-405.903,-217.067,-197.199,-189.189,0,-166.612 1/2:38:0,15,23:0:0:15,23:524,824:-110.179,-67.5596,-63.0442,-42.9723,0,-36.0486 1/2:103:0,63,40:0:0:63,40:2147,1406:-288.938,-114.794,-95.8296,-174.49,0,-162.449 2/2:83:0,0,83:0:0:0,83:0,2946:-265.371,-265.371,-265.371,-24.9855,-24.9855,0 1/2:136:0,65,71:0:0:65,71:2215,2526:-385.89,-206.218,-186.651,-180.019,0,-158.646 1/2:20:0,9,10:0:0:9,10:296,360:-53.2813,-29.3742,-26.6649,-23.8931,0,-20.8828 1/1:8:0,8,0:0:0:8,0:275,0:-24.8495,-2.40824,0,-24.8495,-2.40824,-24.8495 1/1:38:0,38,0:0:0:38,0:1325,0:-119.531,-11.4391,0,-119.531,-11.4391,-119.531 1/2:111:0,54,57:0:0:54,57:1884,2026:-318.679,-165.453,-149.197,-153.578,0,-136.419 1/1:99:0,99,0:0:0:99,0:3399,0:-306.127,-29.802,0,-306.127,-29.802,-306.127 1/1:170:0,167,0:0:0:167,0:5736,0:-515.988,-50.272,0,-515.988,-50.272,-515.988 1/1:26:0,22,0:0:0:22,0:744,0:-66.8374,-6.62266,0,-66.8374,-6.62266,-66.8374 1/1:35:0,35,0:0:0:35,0:1188,0:-107.219,-10.5361,0,-107.219,-10.5361,-107.219 1/2:111:0,52,59:0:0:52,59:1740,2103:-312.603,-171.776,-156.122,-141.172,0,-123.411 1/2:58:0,38,19:0:0:38,19:1313,680:-162.276,-55.5971,-44.1579,-106.819,0,-101.1 1/1:98:0,98,0:0:0:98,0:3343,0:-301.09,-29.5009,0,-301.09,-29.5009,-301.09 1/1:38:0,38,0:0:0:38,0:1270,0:-114.587,-11.4391,0,-114.587,-11.4391,-114.587 chr02 7690261 . A G 9061.27 PASS AB=0.458416;ABP=18.1805;AC=10;AF=0.238095;AN=42;AO=563;CIGAR=1X;DP=2217;DPB=2217;DPRA=1.48789;EPP=1225.55;EPPR=3594.63;GTI=0;LEN=1;MEANALT=1;MQM=41.4618;MQMR=44.9885;NS=21;NUMALT=1;ODDS=9.73262;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20141;QR=58283;RO=1654;RPL=0;RPP=1225.55;RPPR=3594.63;RPR=563;RUN=1;SAF=563;SAP=1225.55;SAR=0;SRF=1654;SRP=3594.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2645:0:0:0,-22.2762,-233.26 0/0:84:84,0:84:3005:0:0:0,-25.2865,-261.708 0/0:96:96,0:96:3384:0:0:0,-28.8989,-300.065 0/0:138:137,1:137:4803:1:36:0,-38.0211,-423.684 0/1:338:176,162:176:6130:162:5798:-408.276,0,-443.57 0/1:105:60,45:60:2088:45:1601:-100.435,0,-142.689 0/1:169:92,77:92:3251:77:2764:-182.963,0,-229.171 1/1:95:0,95:0:0:95:3404:-295.427,-28.5979,0 0/1:158:82,76:82:2902:76:2694:-190.48,0,-211.192 0/1:8:4,4:4:144:4:144:-10.3842,0,-10.6195 0/0:11:11,0:11:392:0:0:0,-3.31133,-34.4633 0/0:49:49,0:49:1737:0:0:0,-14.7505,-153.349 0/1:91:49,42:49:1730:42:1508:-105.387,0,-126.861 0/0:88:88,0:88:3152:0:0:0,-26.4906,-280.222 0/0:184:184,0:184:6525:0:0:0,-55.3895,-580.434 0/0:109:109,0:109:3799:0:0:0,-32.8123,-339.47 0/0:131:130,1:130:4565:1:36:0,-35.8864,-402.379 0/1:83:44,39:44:1569:39:1404:-97.0529,0,-113.465 0/1:58:40,18:40:1353:18:644:-39.455,0,-102.735 0/0:100:97,3:97:3412:3:108:0,-20.3571,-290.47 0/0:48:48,0:48:1697:0:0:0,-14.4494,-148.038 chr02 8956958 . T C 9165.74 PASS AB=0.479663;ABP=5.5716;AC=10;AF=0.238095;AN=42;AO=396;CIGAR=1X;DP=1484;DPB=1484;DPRA=1.54142;EPP=4.78696;EPPR=15.7837;GTI=0;LEN=1;MEANALT=1;MQM=59.9343;MQMR=60;NS=21;NUMALT=1;ODDS=3.13953;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14108;QR=39000;RO=1088;RPL=2;RPP=845.629;RPPR=2330.96;RPR=394;RUN=1;SAF=191;SAP=4.08507;SAR=205;SRF=508;SRP=13.3567;SRR=580;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:96:96,0:96:3440:0:0:0,-28.8989,-309.813 0/0:52:52,0:52:1855:0:0:0,-15.6536,-167.229 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.898 0/0:81:81,0:81:2916:0:0:0,-24.3834,-262.674 0/1:127:63,64:63:2260:64:2272:-166.51,0,-165.432 0/1:64:35,29:35:1260:29:1031:-73.8367,0,-94.4396 0/1:89:47,42:47:1684:42:1485:-107.152,0,-125.055 1/1:53:0,53:0:0:53:1891:-170.277,-15.9546,0 0/1:107:51,56:51:1836:56:1989:-147.072,0,-133.31 0/1:21:11,10:11:388:10:356:-26.0596,0,-28.9357 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:63:28,35:28:1000:35:1256:-94.3804,0,-71.3505 0/0:81:81,0:81:2912:0:0:0,-24.3834,-262.315 0/0:100:99,1:99:3517:1:36:0,-26.5047,-313.139 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/1:135:66,69:66:2368:69:2468:-181.735,0,-172.739 0/1:107:70,37:70:2512:37:1324:-87.2519,0,-194.122 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 0/0:107:107,0:107:3840:0:0:0,-32.2102,-345.795 chr02 9283751 . C T 9916.36 PASS AB=0.507692;ABP=3.61163;AC=22;AF=0.52381;AN=42;AO=687;CIGAR=1X;DP=1292;DPB=1292;DPRA=2.17759;EPP=1494.81;EPPR=1316.75;GTI=2;LEN=1;MEANALT=1;MQM=52.0539;MQMR=53.3983;NS=21;NUMALT=1;ODDS=1.56714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24460;QR=21618;RO=605;RPL=687;RPP=1494.81;RPPR=1316.75;RPR=0;RUN=1;SAF=0;SAP=1494.81;SAR=687;SRF=0;SRP=1316.75;SRR=605;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:51,45:51:1802:45:1616:-116.831,0,-133.559 0/1:47:19,28:19:684:28:996:-75.8009,0,-47.7419 0/1:25:7,18:7:248:18:640:-50.4036,0,-15.1384 0/1:71:41,30:41:1457:30:1068:-75.0589,0,-110.051 0/1:265:133,132:133:4730:132:4690:-342.488,0,-346.086 0/1:73:47,26:47:1692:26:932:-62.2237,0,-130.592 0/1:60:30,30:30:1061:30:1080:-79.4515,0,-77.7376 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/1:110:41,69:41:1472:69:2452:-71.5147,0,-66.2389 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:28:15,13:15:540:13:453:-32.6708,0,-40.5077 0/1:63:28,35:28:1004:35:1241:-93.0276,0,-71.711 0/1:27:9,18:9:324:18:629:-48.806,0,-21.2189 0/1:120:50,70:50:1796:70:2512:-189.351,0,-125.799 0/1:61:34,27:34:1224:27:964:-23.5857,0,-61.9986 0/1:81:48,33:48:1724:33:1165:-26.2258,0,-88.9401 0/1:13:9,4:9:324:4:144:-9.40023,0,-25.5925 0/1:17:8,9:8:284:9:324:-24.3745,0,-20.7858 1/1:83:0,83:0:0:83:2950:-265.731,-24.9855,0 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 chr02 9585254 . ATTATCAC ATTTTTCAT,ATTTTCAT 13034.7 PASS AB=0.515571,0.470588;ABP=4.22753,7.35324;AC=21,21;AF=0.5,0.5;AN=42;AO=350,327;CIGAR=1M1I2M1X3M1X,3M1X3M1X;DP=686;DPB=730.125;DPRA=1.20766,1.37917;EPP=763.026,713.082;EPPR=0;GTI=0;LEN=9,8;MEANALT=2.36842,2.35;MQM=59.8829,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.7138;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=12103,11415;QR=0;RO=0;RPL=350,327;RPP=763.026,713.082;RPPR=0;RPR=0,0;RUN=1,1;SAF=350,327;SAP=763.026,713.082;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:45:0,15,29:0:0:15,29:527,1007:-124.88,-81.9854,-77.4699,-43.0149,0,-34.285 1/2:24:0,18,6:0:0:18,6:628,202:-67.7916,-16.7035,-11.2849,-51.4277,0,-49.6216 1/2:49:0,30,19:0:0:30,19:1021,670:-137.724,-54.9075,-45.8766,-83.1641,0,-77.4446 1/2:34:0,21,13:0:0:21,13:736,454:-97.1705,-37.2789,-30.9572,-60.2413,0,-56.3279 1/2:57:0,28,28:0:0:28,28:980,971:-158.753,-79.0161,-70.5873,-79.8262,0,-71.3974 1/2:16:0,3,13:0:0:3,13:106,456:-46.0931,-37.4598,-36.5567,-8.98601,0,-5.07262 1/2:40:0,24,16:0:0:24,16:839,551:-113.354,-45.0972,-37.8725,-68.6033,0,-63.7868 2/2:48:0,0,47:0:0:0,47:0,1668:-150.097,-150.097,-150.097,-14.1484,-14.1484,0 1/2:30:0,13,17:0:0:13,17:446,601:-85.5096,-49.3027,-45.3893,-36.5544,0,-31.4369 2/2:7:0,0,7:0:0:0,7:0,240:-21.9341,-21.9341,-21.9341,-2.10721,-2.10721,0 1/2:8:0,2,6:0:0:2,6:69,216:-23.5863,-17.9843,-17.3823,-5.9506,0,-4.14442 1/2:15:0,7,8:0:0:7,8:235,282:-42.3406,-23.3135,-21.2063,-19.3705,0,-16.9623 1/2:32:0,19,12:0:0:19,12:662,406:-86.8015,-32.9583,-27.2387,-53.8904,0,-50.2781 1/2:24:0,17,6:0:0:17,6:585,200:-63.7589,-16.2501,-11.1325,-47.5731,0,-45.7669 1/2:64:0,23,41:0:0:23,41:800,1435:-182.149,-117.103,-110.18,-65.3946,0,-53.0524 1/2:21:0,8,13:0:0:8,13:275,455:-59.6987,-37.3698,-34.9615,-22.6749,0,-18.7616 1/2:13:0,6,7:0:0:6,7:213,232:-36.4629,-19.0968,-17.2906,-17.7101,0,-15.6029 1/2:74:0,40,32:0:0:40,32:1367,1127:-202.726,-91.7929,-79.7517,-110.968,0,-101.335 1/2:32:0,24,6:0:0:24,6:809,206:-82.3488,-16.7818,-9.55712,-65.6197,0,-63.8135 1/1:24:0,24,0:0:0:24,0:848,0:-76.6403,-7.22472,0,-76.6403,-7.22472,-76.6403 1/1:29:0,28,1:0:0:28,1:957,36:-86.0805,-8.42884,0,-83.1424,-5.1316,-82.8414 chr02 9586447 . G A 32702.1 PASS AB=0.47276;ABP=28.3272;AC=22;AF=0.52381;AN=42;AO=1970;CIGAR=1X;DP=4122;DPB=4122;DPRA=2.49444;EPP=4280.81;EPPR=4673.85;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9594;MQMR=59.9912;NS=21;NUMALT=1;ODDS=20.6718;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69662;QR=76957;RO=2151;RPL=0;RPP=4280.81;RPPR=4673.85;RPR=1970;RUN=1;SAF=1970;SAP=4280.81;SAR=0;SRF=2151;SRP=4673.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:74,74:74:2648:74:2597:-189.427,0,-194.014 0/1:52:30,22:30:1076:22:780:-54.8691,0,-81.4993 0/1:134:74,60:74:2656:60:2094:-148.389,0,-198.948 0/1:120:64,56:64:2296:56:2000:-144.15,0,-170.777 0/1:211:104,107:104:3736:107:3788:-277.605,0,-272.921 0/1:64:23,41:23:828:41:1449:-111.438,0,-55.5782 0/1:142:79,63:79:2828:63:2235:-158.667,0,-212.013 0/0:81:81,0:81:2892:0:0:0,-24.3834,-260.517 0/1:190:97,93:97:3444:93:3304:-240.385,0,-252.977 0/1:642:374,268:374:13360:268:9390:-651.795,0,-1008.94 0/1:375:198,177:198:7084:177:6270:-451.511,0,-524.734 0/1:607:342,265:342:12248:265:9343:-658.116,0,-919.426 0/1:94:54,40:54:1936:40:1428:-100.52,0,-146.22 0/1:120:64,56:64:2296:56:1989:-143.159,0,-170.777 0/1:90:50,40:50:1784:40:1414:-100.464,0,-133.75 0/1:53:24,29:24:864:29:1036:-77.5989,0,-62.128 0/1:78:43,34:43:1540:34:1208:-85.4867,0,-115.354 0/1:755:358,397:358:12801:397:14071:-1038.86,0,-924.63 0/1:53:18,35:18:640:35:1246:-96.4853,0,-41.9747 1/1:74:0,74:0:0:74:2644:-238.205,-22.2762,0 1/1:39:0,39:0:0:39:1376:-124.139,-11.7402,0 chr02 9607796 . TAGA TAGAGA 33793.9 PASS AB=0.511676;ABP=7.01626;AC=20;AF=0.47619;AN=42;AO=1972;CIGAR=1M2I3M;DP=3836;DPB=4826.75;DPRA=2.94687;EPP=4285.15;EPPR=4018.08;GTI=1;LEN=2;MEANALT=1.35;MQM=59.7541;MQMR=59.9812;NS=21;NUMALT=1;ODDS=7.30535;PAIRED=0;PAIREDR=0;PAO=2.5;PQA=46;PQR=46;PRO=2.5;QA=69054;QR=65621;RO=1857;RPL=1972;RPP=4285.15;RPPR=4018.08;RPR=0;RUN=1;SAF=1972;SAP=4285.15;SAR=0;SRF=1857;SRP=4035.43;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:255:132,122:132:4704:122:4295:-309.935,0,-346.741 0/1:221:122,99:122:4298:99:3493:-248.032,0,-320.473 0/1:163:94,69:94:3310:69:2407:-167.816,0,-249.052 0/1:212:93,118:93:3283:118:4072:-302.795,0,-231.816 0/1:317:150,166:150:5287:166:5822:-428.359,0,-380.368 0/1:259:118,141:118:4133:141:4943:-366.895,0,-294.191 0/1:328:183,145:183:6445:145:5083:-358.858,0,-481.409 1/1:242:0,240:0:0:240:8487:-763.496,-72.2472,0 0/1:314:155,159:155:5480:159:5608:-410.262,0,-398.751 0/1:23:11,12:11:389:12:401:-29.4868,0,-28.4242 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 0/1:68:26,42:26:931:42:1446:-109.949,0,-63.639 0/1:186:84,102:84:2974:102:3565:-265.062,0,-211.903 0/1:162:83,79:83:2915:79:2745:-198.528,0,-213.819 0/1:311:140,171:140:4959:171:5989:-445.482,0,-352.843 0/1:166:67,99:67:2382:99:3490:-264.065,0,-164.666 0/1:210:79,130:79:2781:130:4490:-340.97,0,-187.257 0/1:93:48,44:48:1700:44:1521:-109.114,0,-125.176 0/1:89:60,29:60:2125:29:1021:-65.4062,0,-164.727 0/0:147:146,1:146:5182:1:36:0,-40.6531,-462.927 0/0:64:64,0:64:2271:0:0:0,-19.2659,-204.652 chr02 9607835 . T G 16610.5 PASS AB=0.382824;ABP=330.735;AC=22;AF=0.52381;AN=42;AO=1101;CIGAR=1X;DP=2899;DPB=2899;DPRA=1.37108;EPP=2393.8;EPPR=3782.32;GTI=3;LEN=1;MEANALT=1.1;MQM=59.98;MQMR=59.9749;NS=21;NUMALT=1;ODDS=0.0932824;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39318;QR=64372;RO=1796;RPL=1101;RPP=2393.8;RPPR=3782.32;RPR=0;RUN=1;SAF=0;SAP=2393.8;SAR=1101;SRF=0;SRP=3902.97;SRR=1796;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:107,59:107:3848:59:2108:-139.658,0,-296.097 0/1:102:89,13:89:3177:13:468:-11.7546,0,-255.448 0/1:118:69,48:69:2484:48:1711:-118.695,0,-188.232 0/1:208:104,104:104:3727:104:3716:-272.026,0,-273.015 0/1:367:207,160:207:7432:160:5707:-403.27,0,-558.416 0/1:102:78,24:78:2808:24:855:-46.5651,0,-222.254 0/1:209:173,36:173:6212:36:1281:-52.676,0,-496.259 0/0:102:102,0:102:3672:0:0:0,-30.7051,-330.681 0/1:343:216,127:216:7749:127:4538:-305.332,0,-594.156 0/1:23:16,7:16:576:7:248:-15.7405,0,-45.2513 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:41:32,9:32:1148:9:324:-17.1636,0,-91.2876 0/1:192:100,92:100:3588:92:3288:-238.342,0,-265.328 0/1:151:80,71:80:2842:71:2541:-183.485,0,-210.56 0/1:116:70,46:70:2482:46:1652:-114.047,0,-188.711 0/1:238:127,111:127:4519:111:3964:-285.306,0,-335.23 0/1:171:103,68:103:3704:68:2420:-166.579,0,-282.084 0/1:85:69,16:69:2464:16:558:-24.9589,0,-196.427 0/1:105:49,56:49:1760:56:2007:-149.294,0,-127.076 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 1/1:20:0,20:0:0:20:708:-64.0374,-6.0206,0 chr02 9709963 . TGA AGT,AGA 29738.3 PASS AB=0.456318,0.542238;ABP=25.9652,24.4726;AC=23,19;AF=0.547619,0.452381;AN=42;AO=751,867;CIGAR=1X1M1X,1X2M;DP=1622;DPB=1622;DPRA=0.661404,5.58596;EPP=1633.79,1877;EPPR=0;GTI=1;LEN=3,1;MEANALT=2.05,2.10526;MQM=34.0399,46.9389;MQMR=0;NS=21;NUMALT=2;ODDS=2.23983;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26557,31002;QR=0;RO=0;RPL=0,1;RPP=1633.79,1877;RPPR=0;RPR=751,866;RUN=1,1;SAF=0,0;SAP=1633.79,1885.68;SAR=751,867;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:178:0,74,104:0:0:74,104:2593,3707:-481.4,-298.069,-275.793,-183.657,0,-152.35 1/2:58:0,31,26:0:0:31,26:1112,926:-155.837,-74.8369,-65.5049,-81.0146,0,-73.1878 1/2:77:0,30,47:0:0:30,47:1062,1682:-211.433,-135.474,-126.444,-76.2881,0,-62.1397 1/2:84:0,39,45:0:0:39,45:1396,1620:-229.331,-131.266,-119.526,-98.3983,0,-84.852 1/2:175:0,69,106:0:0:69,106:2438,3784:-477.161,-305.573,-284.802,-171.916,0,-140.006 1/2:73:0,30,43:0:0:30,43:1056,1542:-201.148,-124.747,-115.716,-76.7337,0,-63.7895 1/2:101:0,49,52:0:0:49,52:1735,1863:-276.933,-150.892,-136.142,-126.377,0,-110.723 2/2:114:0,0,113:0:0:0,113:0,4045:-359.499,-359.499,-359.499,-34.0164,-34.0164,0 1/2:139:0,72,67:0:0:72,67:2521,2402:-373.288,-194.065,-172.391,-179.557,0,-159.388 1/2:7:0,2,5:0:0:2,5:64,176:-19.333,-14.5792,-13.9771,-5.06684,0,-3.56169 1/1:6:0,6,0:0:0:6,0:216,0:-17.8539,-1.80618,0,-17.8539,-1.80618,-17.8539 1/2:24:0,9,15:0:0:9,15:322,539:-66.3999,-43.7438,-41.0345,-22.985,0,-18.4695 1/2:123:0,49,74:0:0:49,74:1734,2651:-338.01,-214.402,-199.652,-123.938,0,-101.662 1/2:70:0,23,46:0:0:23,46:824,1623:-189.195,-130.251,-123.327,-58.9614,0,-45.114 1/2:69:0,48,21:0:0:48,21:1685,756:-180.383,-61.4538,-47.0044,-119.271,0,-112.95 1/2:38:0,17,21:0:0:17,21:605,750:-102.215,-60.7082,-55.5907,-41.8327,0,-35.5111 1/2:56:0,25,31:0:0:25,31:880,1106:-152.142,-89.1389,-81.6131,-63.3337,0,-54.0017 1/2:57:0,30,27:0:0:30,27:1077,968:-156.55,-78.713,-69.6821,-78.1764,0,-70.0486 1/2:56:0,35,21:0:0:35,21:1240,754:-149.181,-61.0246,-50.4885,-88.4957,0,-82.1741 1/1:93:0,90,3:0:0:90,3:3200,108:-260.022,-27.0927,0,-251.276,-17.9902,-250.373 1/1:24:0,23,0:0:0:23,0:797,0:-65.5504,-6.92369,0,-65.5504,-6.92369,-65.5504 chr02 9721961 . GCTTT GCTTA,GTTA 57464 PASS AB=0.547343,0.445411;ABP=43.3095,56.5901;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1311,1018;CIGAR=4M1X,1M1D2M1X;DP=2344;DPB=2140.4;DPRA=2.49783,1.52876;EPP=2849.81,2213.57;EPPR=7.35324;GTI=1;LEN=1,4;MEANALT=2.45,2.52632;MQM=57.045,47.3026;MQMR=60;NS=21;NUMALT=2;ODDS=7.15487;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=1;QA=46178,35029;QR=52;RO=2;RPL=592,533;RPP=29.7255,7.92491;RPPR=7.35324;RPR=719,485;RUN=1,1;SAF=592,533;SAP=29.7255,7.92491;SAR=719,485;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:205:0,115,89:0:0:115,89:4071,3065:-569.814,-238.665,-204.046,-331.16,0,-304.368 1/2:38:0,34,4:0:0:34,4:1204,140:-109.404,-11.7407,-1.50565,-98.0133,0,-96.8092 1/2:105:0,64,41:0:0:64,41:2241,1422:-290.745,-108.546,-89.2797,-182.535,0,-170.193 1/2:161:0,87,74:0:0:87,74:3053,2566:-435.815,-187.742,-161.553,-248.404,0,-226.127 1/2:271:0,128,141:0:0:128,141:4520,4904:-734.775,-367.203,-328.671,-367.561,0,-325.116 1/2:94:0,65,29:0:0:65,29:2287,1001:-267.512,-81.6006,-62.0336,-186.188,0,-177.458 1/2:127:0,84,41:0:0:84,41:2942,1382:-350.868,-111.972,-86.6856,-238.88,0,-226.537 1/1:146:0,146,0:0:0:146,0:5147,0:-462.802,-43.9504,0,-462.802,-43.9504,-462.802 1/2:212:0,115,94:0:0:115,94:4059,3246:-558.569,-228.199,-193.58,-330.401,0,-302.105 1/1:5:0,5,0:0:0:5,0:180,0:-16.5333,-1.50515,0,-16.5333,-1.50515,-16.5333 1/2:4:0,1,3:0:0:1,3:36,95:-10.9014,-7.9615,-7.66047,-3.2882,0,-2.38511 1/1:25:0,23,2:0:0:23,2:824,72:-73.7698,-6.92369,0,-67.8947,-0.689028,-67.2926 1/2:229:0,112,115:0:0:112,115:3960,3953:-628.126,-305.695,-271.979,-322.512,0,-287.894 1/2:106:1,56,48:1:30:56,48:1948,1644:-277.813,-119.881,-105.421,-155.836,0,-143.785 1/2:153:0,73,79:0:0:73,79:2549,2702:-411.049,-204.864,-182.889,-206.16,0,-182.379 1/2:43:0,25,18:0:0:25,18:876,636:-115.897,-44.9782,-37.4524,-71.2447,0,-65.8262 1/2:45:1,31,13:1:22:31,13:1099,434:-118.59,-29.3886,-21.73,-87.918,0,-85.6793 1/2:114:0,79,34:0:0:79,34:2782,1186:-322.857,-96.5473,-72.766,-226.396,0,-216.161 1/2:163:0,64,99:0:0:64,99:2256,3381:-441.701,-258.67,-239.405,-183.371,0,-153.569 2/2:46:0,0,46:0:0:0,46:0,1549:-139.696,-139.696,-139.696,-13.8474,-13.8474,0 2/2:52:0,4,48:0:0:4,48:144,1651:-148.516,-136.765,-135.561,-14.4494,-2.33994,0 chr02 9881592 . GTAACCCGG ATAGCCCAC,ATAGCCCAG 29154 PASS AB=0.562249,0.419009;ABP=53.2943,88.1309;AC=23,19;AF=0.547619,0.452381;AN=42;AO=972,717;CIGAR=1X2M1X3M2X,1X2M1X3M1X1M;DP=1719;DPB=1719;DPRA=0.894505,1.97139;EPP=2105,1559.96;EPPR=0;GTI=0;LEN=9,9;MEANALT=3.05,3.16667;MQM=34.0689,47.6151;MQMR=0;NS=21;NUMALT=2;ODDS=5.65216;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33219,24713;QR=0;RO=0;RPL=971,717;RPP=2105,1559.96;RPPR=0;RPR=1,0;RUN=1,1;SAF=972,717;SAP=2113.68,1559.96;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,43,48:0:0:43,48:1469,1651:-239.245,-133.213,-120.268,-106.098,0,-91.649 1/2:70:0,38,32:0:0:38,32:1303,1091:-184.18,-88.2143,-76.7752,-96.2928,0,-86.6598 1/2:79:0,53,24:0:0:53,24:1799,831:-197.484,-67.1076,-51.153,-130.468,0,-123.243 1/2:103:0,70,31:0:0:70,31:2407,1064:-258.522,-85.6098,-64.5377,-173.036,0,-163.704 1/2:182:0,104,74:0:0:104,74:3569,2554:-464.171,-205.723,-174.415,-258.545,0,-236.269 1/2:59:0,34,24:0:0:34,24:1170,831:-153.64,-67.1932,-56.9582,-86.4666,0,-79.2419 1/2:105:0,55,49:0:0:55,49:1889,1679:-273.952,-135.53,-118.974,-138.476,0,-123.725 2/2:91:0,0,91:0:0:0,91:0,3148:-282.031,-282.031,-282.031,-27.3937,-27.3937,0 1/2:174:0,75,98:0:0:75,98:2555,3395:-453.352,-273.548,-250.97,-179.916,0,-150.415 1/2:9:0,5,4:0:0:5,4:170,140:-23.3179,-11.6739,-10.1688,-11.9675,0,-10.7634 1/1:8:0,8,0:0:0:8,0:278,0:-23.2484,-2.40824,0,-23.2484,-2.40824,-23.2484 1/2:19:0,13,5:0:0:13,5:460,172:-47.7381,-13.9843,-10.0709,-33.8436,0,-32.3384 1/2:80:0,57,18:0:0:57,18:1946,619:-190.399,-49.6979,-32.5392,-140.763,0,-135.345 1/2:75:0,39,36:0:0:39,36:1338,1253:-197.832,-101.198,-89.4581,-96.9617,0,-86.1246 1/2:160:0,100,58:0:0:100,58:3429,2009:-407.765,-161.981,-131.878,-245.782,0,-228.323 1/2:81:0,44,37:0:0:44,37:1483,1264:-208.129,-101.586,-88.3405,-106.865,0,-95.7265 1/2:65:0,31,34:0:0:31,34:1064,1169:-170.319,-93.65,-84.318,-76.9915,0,-66.7565 1/2:72:0,35,35:0:0:35,35:1199,1205:-186.091,-97.3463,-86.8103,-88.8389,0,-78.3029 1/2:63:0,44,19:0:0:44,19:1472,638:-158.549,-51.6338,-38.3885,-107.24,0,-101.52 1/1:71:0,69,0:0:0:69,0:2373,0:-195.609,-20.7711,0,-195.609,-20.7711,-195.609 1/1:55:0,55,0:0:0:55,0:1846,0:-152.312,-16.5567,0,-152.312,-16.5567,-152.312 chr02 9881621 . TCG CCG,CCA 88131.7 PASS AB=0.584343,0.412861;ABP=201.909,215.315;AC=22,20;AF=0.52381,0.47619;AN=42;AO=2140,1508;CIGAR=1X2M,1X1M1X;DP=3660;DPB=3666.33;DPRA=0.966667,1.37084;EPP=4649.96,3277.59;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=2.35,2.42105;MQM=45.6252,53.8833;MQMR=60;NS=21;NUMALT=2;ODDS=9.62988;PAIRED=0,0;PAIREDR=0;PAO=6.5,12.5;PQA=176,384;PQR=0;PRO=0;QA=73347,51196;QR=36;RO=1;RPL=943,668;RPP=68.4751,45.6103;RPPR=5.18177;RPR=1197,840;RUN=1,1;SAF=943,668;SAP=68.4751,45.6103;SAR=1197,840;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:205:0,109,96:0:0:109,96:3745,3254:-554.052,-262.609,-229.797,-291.777,0,-262.878 1/2:191:0,112,79:0:0:112,79:3916,2718:-528.83,-220.087,-186.372,-308.705,0,-284.924 1/2:190:0,116,74:0:0:116,74:4010,2501:-515.247,-202.545,-167.626,-313.037,0,-290.761 1/2:224:0,133,91:0:0:133,91:4497,3031:-591.968,-244.825,-204.788,-347.471,0,-320.078 1/2:339:0,197,141:0:0:197,141:6718,4773:-904.944,-385.382,-326.079,-519.574,0,-477.129 1/2:154:0,83,69:0:0:83,69:2942,2399:-425.805,-194.846,-169.86,-231.007,0,-210.236 1/2:259:0,153,105:0:0:153,105:5308,3586:-708.928,-290.342,-244.284,-418.528,0,-386.919 2/2:180:0,0,179:0:0:0,179:0,6118:-549.155,-549.155,-549.155,-53.8844,-53.8844,0 1/2:361:0,189,171:0:0:189,171:6379,5749:-961.663,-462.954,-406.059,-498.818,0,-447.342 1/2:16:0,11,5:0:0:11,5:379,180:-44.3689,-14.9784,-11.667,-29.7402,0,-28.235 1/2:15:0,13,2:0:0:13,2:444,61:-39.3477,-5.19065,-1.27726,-34.4647,0,-33.8626 1/2:55:0,31,24:0:0:31,24:1082,821:-150.389,-66.8462,-57.5143,-83.8802,0,-76.6555 1/2:174:0,122,51:0:0:122,51:4176,1770:-467.868,-143.19,-106.465,-324.601,0,-309.248 1/2:129:0,67,61:0:0:67,61:2282,2038:-339.958,-164.138,-143.969,-175.8,0,-157.437 1/2:330:0,200,129:0:0:200,129:6822,4411:-884.65,-356.509,-296.303,-528.146,0,-489.314 1/2:143:0,91,51:0:0:91,51:3102,1695:-376.6,-135.929,-108.535,-240.642,0,-225.289 1/2:134:0,69,65:0:0:69,65:2319,2160:-354.198,-173.353,-152.582,-180.813,0,-161.246 1/2:154:0,74,80:0:0:74,80:2530,2738:-418.504,-221.606,-199.33,-196.854,0,-172.772 1/2:146:0,111,35:0:0:111,35:3781,1193:-392.522,-96.7695,-63.3552,-296.09,0,-285.554 1/1:158:1,157,0:1:36:157,0:5437,0:-467.383,-43.9645,0,-467.684,-47.2617,-470.622 1/1:103:0,102,0:0:0:102,0:3478,0:-300.216,-30.7051,0,-300.216,-30.7051,-300.216 chr02 9881626 . G C 47006.4 PASS AB=0.593008;ABP=237.29;AC=22;AF=0.52381;AN=42;AO=2110;CIGAR=1X;DP=3551;DPB=3551;DPRA=0.982267;EPP=4584.82;EPPR=3125.59;GTI=1;LEN=1;MEANALT=1.15;MQM=45.7701;MQMR=54.1467;NS=21;NUMALT=1;ODDS=6.51436;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73867;QR=50156;RO=1438;RPL=913;RPP=86.0161;RPPR=69.6041;RPR=1197;RUN=1;SAF=913;SAP=86.0161;SAR=1197;SRF=614;SRP=69.6041;SRR=824;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:195:90,105:90:3103:105:3712:-258.242,0,-219.624 0/1:187:78,109:78:2724:109:3884:-282.016,0,-188.386 0/1:190:74,115:74:2598:115:4036:-288.167,0,-175.845 0/1:214:80,133:80:2787:133:4675:-330.291,0,-185.768 0/1:327:132,195:132:4633:195:6741:-477.211,0,-316.256 0/1:150:68,82:68:2360:82:2916:-207.959,0,-167.192 0/1:259:108,151:108:3790:151:5334:-386.025,0,-262.121 0/0:172:172,0:172:5998:0:0:0,-51.7772,-537.55 0/1:346:160,186:160:5579:186:6479:-452.993,0,-395.139 0/1:16:5,11:5:176:11:369:-26.6797,0,-11.3136 0/1:14:2,12:2:68:12:432:-32.5958,0,-2.24068 0/1:54:23,31:23:811:31:1092:-76.4999,0,-56.6976 0/1:172:51,121:51:1792:121:4228:-309.683,0,-108.982 0/1:122:54,68:54:1843:68:2331:-161.534,0,-128.543 0/1:318:123,194:123:4299:194:6747:-479.078,0,-289.664 0/1:139:49,90:49:1696:90:3143:-226.513,0,-109.439 0/1:124:60,64:60:2108:64:2187:-152.225,0,-150.995 0/1:152:78,74:78:2708:74:2591:-176.184,0,-197.551 0/1:139:31,108:31:1083:108:3798:-285.151,0,-55.5097 1/1:155:0,155:0:0:155:5487:-473.057,-46.6597,0 1/1:106:0,106:0:0:106:3685:-314.465,-31.9092,0 chr02 9939270 . C T 7188.52 PASS AB=0.584691;ABP=41.2622;AC=22;AF=0.52381;AN=42;AO=409;CIGAR=1X;DP=693;DPB=693;DPRA=1.23333;EPP=891.143;EPPR=608.882;GTI=2;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.110841;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14504;QR=10095;RO=283;RPL=0;RPP=891.143;RPPR=617.537;RPR=409;RUN=1;SAF=0;SAP=891.143;SAR=409;SRF=1;SRP=608.882;SRR=282;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:23,33:23:820:33:1172:-88.9298,0,-57.2648 0/1:28:4,24:4:144:24:852:-68.5715,0,-4.88478 0/1:24:11,13:11:392:13:464:-34.8728,0,-28.3953 0/1:34:12,22:12:432:22:778:-60.1069,0,-28.9862 0/1:75:34,40:34:1224:40:1416:-105.248,0,-87.9766 0/1:40:22,18:22:775:18:639:-45.797,0,-58.03 0/1:42:16,26:16:572:26:919:-70.3829,0,-39.1702 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/1:57:17,40:17:612:40:1420:-110.939,0,-38.2547 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 0/1:47:19,28:19:675:28:996:-75.8065,0,-46.9285 0/1:46:20,26:20:716:26:907:-68.097,0,-50.9203 0/1:44:20,24:20:707:24:836:-62.3094,0,-50.7093 0/1:27:9,18:9:324:18:640:-49.8015,0,-21.378 0/1:40:22,18:22:775:18:648:-46.6107,0,-58.03 0/1:21:12,9:12:419:9:316:-22.4572,0,-31.721 0/1:15:3,12:3:108:12:432:-34.7057,0,-5.55972 1/1:40:2,38:2:72:38:1349:-114.873,-5.20448,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 chr02 9939536 . G A 19455.3 PASS AB=0.552371;ABP=48.7266;AC=20;AF=0.47619;AN=42;AO=1108;CIGAR=1X;DP=2022;DPB=2022;DPRA=3.83626;EPP=2409;EPPR=1985.56;GTI=0;LEN=1;MEANALT=1.05263;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.78418;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39611;QR=32510;RO=913;RPL=1108;RPP=2409;RPPR=1985.56;RPR=0;RUN=1;SAF=0;SAP=2409;SAR=1108;SRF=0;SRP=1985.56;SRR=913;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:40,31:40:1424:31:1107:-78.567,0,-107.084 0/1:28:8,20:8:284:20:720:-56.6999,0,-17.4745 0/1:31:14,17:14:500:17:591:-44.1833,0,-36.0042 0/1:18:7,11:7:252:11:396:-30.5642,0,-17.6104 0/1:111:65,46:65:2317:46:1652:-115.554,0,-175.374 0/1:14:11,3:11:396:3:104:-5.48839,0,-31.7683 0/1:58:28,30:28:1004:30:1076:-79.6931,0,-73.2161 1/1:49:1,48:1:36:48:1705:-150.136,-11.1522,0 0/1:46:30,16:30:1068:16:568:-37.6045,0,-82.5847 0/1:137:48,89:48:1720:89:3167:-244.012,0,-113.844 0/1:174:33,141:33:1172:141:5031:-400.558,0,-53.4083 0/1:113:40,72:40:1432:72:2580:-198.374,0,-95.1025 0/1:18:7,11:7:252:11:388:-29.8388,0,-17.6104 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 0/1:105:41,64:41:1464:64:2300:-175.653,0,-100.448 0/1:29:11,18:11:381:18:646:-49.7415,0,-25.8908 0/1:40:25,15:25:892:15:532:-36.1719,0,-68.5585 0/1:870:416,454:416:14776:454:16269:-1201.98,0,-1067.69 0/1:43:28,15:28:996:15:527:-34.8159,0,-77.0106 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 chr02 10054294 . C T 14383.2 PASS AB=0.481571;ABP=7.8925;AC=19;AF=0.452381;AN=42;AO=847;CIGAR=1X;DP=1870;DPB=1870;DPRA=2.74752;EPP=1842.25;EPPR=2224.43;GTI=0;LEN=1;MEANALT=1;MQM=59.9528;MQMR=59.8338;NS=21;NUMALT=1;ODDS=12.1522;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30342;QR=36608;RO=1023;RPL=0;RPP=1842.25;RPPR=2224.43;RPR=847;RUN=1;SAF=847;SAP=1842.25;SAR=0;SRF=1023;SRP=2224.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:21,33:21:748:33:1180:-90.1226,0,-51.3815 0/1:82:40,42:40:1436:42:1508:-111.33,0,-104.85 0/1:73:36,37:36:1296:37:1318:-96.9306,0,-94.9687 0/1:159:79,80:79:2836:80:2876:-211.212,0,-207.61 0/1:273:145,128:145:5179:128:4586:-330.723,0,-384.067 0/1:113:55,58:55:1961:58:2080:-153.454,0,-142.739 0/1:128:68,60:68:2435:60:2156:-155.775,0,-180.868 1/1:49:0,49:0:0:49:1745:-157.332,-14.7505,0 0/1:112:54,58:54:1936:58:2088:-154.474,0,-140.793 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/1:98:45,53:45:1608:53:1884:-140.336,0,-115.509 0/1:88:52,36:52:1860:36:1292:-90.0931,0,-141.187 0/1:80:37,43:37:1319:43:1540:-114.811,0,-94.8998 0/1:109:61,48:61:2188:48:1709:-121.282,0,-164.373 0/1:79:47,32:47:1680:32:1152:-80.2088,0,-127.705 0/1:81:39,42:39:1387:42:1508:-111.631,0,-100.472 0/1:104:68,36:68:2427:36:1288:-84.9165,0,-187.378 0/0:97:96,1:96:3440:1:36:0,-25.6016,-305.4 0/0:62:62,0:62:2224:0:0:0,-18.6639,-200.416 chr02 10054303 . TGGC CGGT 18189.6 PASS AB=0.519048;ABP=8.30456;AC=23;AF=0.547619;AN=42;AO=1040;CIGAR=1X2M1X;DP=1900;DPB=1900;DPRA=1.85;EPP=2209.53;EPPR=1801.25;GTI=0;LEN=4;MEANALT=1.55;MQM=59.8327;MQMR=59.9764;NS=21;NUMALT=1;ODDS=12.0259;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36243;QR=29915;RO=848;RPL=6;RPP=2209.53;RPPR=1801.25;RPR=1034;RUN=1;SAF=1040;SAP=2261.34;SAR=0;SRF=848;SRP=1844.42;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:33,23:33:1151:23:796:-55.0965,0,-87.0124 0/1:86:45,41:45:1585:41:1434:-103.464,0,-117.05 0/1:71:36,35:36:1273:35:1219:-88.6384,0,-93.4989 0/1:163:82,81:82:2894:81:2815:-204.521,0,-211.629 0/1:276:125,148:125:4392:148:5162:-382.188,0,-312.918 0/1:113:58,55:58:2050:55:1937:-140.584,0,-150.756 0/1:130:62,68:62:2202:68:2400:-177.121,0,-159.312 0/0:50:49,0:49:1748:0:0:0,-14.7505,-157.245 0/1:112:58,53:58:2039:53:1858:-133.791,0,-150.075 0/1:10:6,4:6:215:4:140:-9.93444,0,-16.6889 1/1:7:0,7:0:0:7:244:-22.2994,-2.10721,0 0/1:13:6,7:6:208:7:251:-19.0245,0,-15.1451 0/1:100:52,48:52:1832:48:1674:-120.84,0,-135.056 0/1:89:34,54:34:1198:54:1844:-139.384,0,-81.2736 0/1:81:42,37:42:1502:37:1314:-94.4115,0,-111.334 0/1:110:48,60:48:1669:60:2086:-155.215,0,-117.7 0/1:80:33,47:33:1159:47:1636:-123.442,0,-80.5328 0/1:84:42,42:42:1488:42:1447:-105.162,0,-108.928 0/1:106:36,69:36:1274:69:2387:-183.117,0,-82.9945 1/1:101:1,99:1:36:99:3448:-306.749,-26.8346,0 1/1:62:0,62:0:0:62:2151:-193.853,-18.6639,0 chr02 10061983 . T G 14759.7 PASS AB=0.365992;ABP=249.773;AC=17;AF=0.404762;AN=42;AO=695;CIGAR=1X;DP=2457;DPB=2457;DPRA=1.16634;EPP=66.9016;EPPR=27.5532;GTI=0;LEN=1;MEANALT=1.1;MQM=59.8964;MQMR=59.9915;NS=21;NUMALT=1;ODDS=25.7212;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24536;QR=62841;RO=1759;RPL=75;RPP=931.041;RPPR=1537.76;RPR=620;RUN=1;SAF=351;SAP=3.1634;SAR=344;SRF=1272;SRP=763.735;SRR=487;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:47,33:47:1688:33:1167:-81.2526,0,-128.125 0/1:79:42,37:42:1497:37:1313:-94.6883,0,-111.241 0/1:31:18,13:18:644:13:468:-33.1277,0,-48.9587 0/1:72:40,32:40:1428:32:1140:-81.0771,0,-107.143 0/1:100:46,54:46:1632:54:1898:-140.992,0,-117.021 0/1:91:49,42:49:1744:42:1499:-107.802,0,-129.851 0/1:129:78,51:78:2792:51:1809:-124.257,0,-212.688 1/1:90:0,90:0:0:90:3209:-289.015,-27.0927,0 0/1:105:54,50:54:1936:50:1728:-124.13,0,-142.849 0/0:190:184,6:184:6604:6:216:0,-37.4052,-574.647 0/0:174:173,1:173:6192:1:36:0,-48.7809,-553.779 0/0:251:231,18:231:8271:18:631:0,-18.2034,-687.286 0/1:78:48,30:48:1690:30:1049:-71.2364,0,-128.902 0/1:83:45,38:45:1584:38:1341:-96.0026,0,-117.862 0/1:111:61,50:61:2174:50:1737:-123.193,0,-162.511 0/1:46:25,21:25:900:21:741:-53.1642,0,-67.4736 0/1:42:19,23:19:684:23:800:-59.6734,0,-49.2471 0/1:416:354,62:354:12651:62:2182:-71.4157,0,-1013.19 0/1:119:76,43:76:2724:43:1536:-102.711,0,-209.58 0/0:69:68,1:68:2415:1:36:0,-17.1728,-214.008 0/0:101:101,0:101:3591:0:0:0,-30.404,-323.398 chr02 10567131 . C A 11419 PASS AB=0.482797;ABP=5.32638;AC=20;AF=0.47619;AN=42;AO=499;CIGAR=1X;DP=1135;DPB=1135;DPRA=0.597523;EPP=32.9888;EPPR=3.13321;GTI=0;LEN=1;MEANALT=1;MQM=59.8377;MQMR=59.3349;NS=21;NUMALT=1;ODDS=3.75765;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17803;QR=22501;RO=636;RPL=499;RPP=1086.58;RPPR=1384.07;RPR=0;RUN=1;SAF=208;SAP=32.9888;SAR=291;SRF=315;SRP=3.13321;SRR=321;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:28,18:28:996:18:640:-44.0819,0,-76.0914 0/1:34:15,19:15:536:19:675:-50.8419,0,-38.3398 0/1:26:15,11:15:536:11:389:-27.491,0,-40.748 0/1:46:19,27:19:684:27:964:-73.2294,0,-48.0402 0/1:75:46,29:46:1624:29:1014:-68.9902,0,-123.866 0/1:37:12,25:12:411:25:896:-69.8222,0,-26.1798 0/1:81:40,41:40:1407:41:1445:-105.469,0,-102.543 1/1:64:0,64:0:0:64:2292:-206.537,-19.2659,0 0/1:81:37,44:37:1270:44:1576:-117.748,0,-90.21 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.5676 0/1:7:4,3:4:136:3:104:-7.5956,0,-10.4683 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.2245 0/1:39:17,22:17:612:22:788:-59.5046,0,-43.6725 0/1:40:14,26:14:485:26:936:-72.5183,0,-31.9358 0/1:75:49,26:49:1703:26:917:-60.2674,0,-130.959 0/1:42:26,16:26:924:16:576:-39.5317,0,-70.8335 0/1:33:21,12:21:739:12:432:-29.2872,0,-56.869 0/1:131:56,75:56:2004:75:2691:-202.987,0,-141.109 0/1:84:57,27:57:2015:27:964:-61.7903,0,-156.312 0/0:53:53,0:53:1878:0:0:0,-15.9546,-169.24 0/0:117:117,0:117:4181:0:0:0,-35.2205,-376.44 chr02 10567132 . CA TG 14929.2 PASS AB=0.512222;ABP=4.17807;AC=22;AF=0.52381;AN=42;AO=632;CIGAR=2X;DP=1136;DPB=1139.5;DPRA=0.8375;EPP=3.88988;EPPR=41.3846;GTI=0;LEN=2;MEANALT=1.2;MQM=59.2595;MQMR=59.838;NS=21;NUMALT=1;ODDS=3.89058;PAIRED=0;PAIREDR=0;PAO=3;PQA=104;PQR=122;PRO=4;QA=22120;QR=17704;RO=500;RPL=632;RPP=1375.38;RPPR=1088.75;RPR=0;RUN=1;SAF=308;SAP=3.88988;SAR=324;SRF=203;SRP=41.3846;SRR=297;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:19,28:19:669:28:966:-73.0824,0,-46.3866 0/1:32:16,16:16:570:16:561:-40.888,0,-41.7025 0/1:26:11,15:11:380:15:525:-39.7524,0,-26.6991 0/1:47:27,20:27:951:20:690:-48.2692,0,-71.756 0/1:75:29,45:29:1024:45:1588:-120.716,0,-69.9806 0/1:37:25,12:25:893:12:409:-25.9974,0,-69.5517 0/1:80:41,39:41:1468:39:1372:-99.6938,0,-107.843 0/0:64:64,0:64:2279:0:0:0,-19.2659,-205.367 0/1:82:44,37:44:1548:37:1295:-92.18,0,-114.946 0/1:4:2,2:2:72:2:70:-5.08517,0,-5.27277 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/1:19:12,7:12:412:7:241:-16.2848,0,-31.6882 0/1:40:22,18:22:779:18:622:-44.26,0,-58.39 0/1:40:26,14:26:918:14:500:-33.2952,0,-70.8953 0/1:73:26,46:26:911:46:1600:-122.398,0,-60.4246 0/1:43:17,26:17:602:26:905:-68.8178,0,-41.5647 0/1:34:12,22:12:419:22:746:-57.214,0,-27.8068 0/1:131:75,55:75:2669:55:1956:-136.75,0,-200.97 0/1:84:28,56:28:996:56:1954:-150.487,0,-64.3273 1/1:55:0,55:0:0:55:1893:-170.589,-16.5567,0 1/1:117:1,116:1:36:116:4123:-367.625,-31.9821,0 chr02 10963172 . T G 12823.8 PASS AB=0.502153;ABP=3.05706;AC=22;AF=0.52381;AN=42;AO=716;CIGAR=1X;DP=1396;DPB=1396;DPRA=0.634314;EPP=1557.78;EPPR=1479.61;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.77431;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25631;QR=24273;RO=680;RPL=716;RPP=1557.78;RPPR=1479.61;RPR=0;RUN=1;SAF=0;SAP=1557.78;SAR=716;SRF=0;SRP=1479.61;SRR=680;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:34,41:34:1197:41:1468:-109.839,0,-85.4562 0/1:63:27,36:27:953:36:1284:-96.8985,0,-67.1184 0/1:27:11,16:11:396:16:576:-44.0472,0,-27.8549 0/1:53:27,26:27:956:26:932:-68.2443,0,-70.4011 0/1:119:66,53:66:2360:53:1888:-134.376,0,-176.836 0/1:58:32,26:32:1144:26:928:-66.3785,0,-85.8098 0/1:131:74,57:74:2649:57:2048:-145.157,0,-199.219 0/0:102:102,0:102:3645:0:0:0,-30.7051,-328.253 0/1:81:41,40:41:1468:40:1432:-104.794,0,-108.033 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:11:7,4:7:248:4:144:-10.0023,0,-19.3529 0/1:20:10,10:10:356:10:360:-26.7237,0,-26.3606 0/1:51:29,22:29:1044:22:784:-55.5314,0,-78.9223 0/1:69:33,36:33:1172:36:1296:-96.1729,0,-85.0164 0/1:87:45,42:45:1616:42:1504:-109.465,0,-119.54 0/1:50:24,26:24:860:26:932:-69.1474,0,-62.6703 0/1:39:13,26:13:453:26:932:-72.4587,0,-29.3595 0/1:129:75,54:75:2688:54:1918:-134.063,0,-203.332 0/1:93:28,65:28:996:65:2324:-181.424,0,-61.9591 1/1:71:0,71:0:0:71:2552:-229.93,-21.3731,0 1/1:62:0,62:0:0:62:2221:-200.154,-18.6639,0 chr02 10970753 . ATTTTTTTTTACC ATTTTTTTATC,ATTTTTTTTATT 47218.3 PASS AB=0.474607,0.520386;ABP=18.6704,13.1035;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1422,1484;CIGAR=1M2D8M1X1M,1M1D9M2X;DP=2922;DPB=2587.77;DPRA=4.98793,3.06565;EPP=3082.16,3208.13;EPPR=5.18177;GTI=0;LEN=11,12;MEANALT=2.6,2.57895;MQM=51.718,34.2938;MQMR=60;NS=21;NUMALT=2;ODDS=6.30126;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,26;PQR=0;PRO=0;QA=49832,44995;QR=30;RO=1;RPL=1,2;RPP=3082.16,3208.13;RPPR=5.18177;RPR=1421,1482;RUN=1,1;SAF=0,0;SAP=3090.84,3225.48;SAR=1422,1484;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:107:0,52,53:0:0:52,53:1810,1823:-292.217,-145.136,-129.483,-147.103,0,-131.148 1/2:75:0,39,36:0:0:39,36:1381,1036:-179.731,-73.358,-61.6179,-106.669,0,-95.8316 1/2:79:0,33,46:0:0:33,46:1150,1567:-218.315,-125.064,-115.13,-93.5929,0,-79.7455 1/2:99:0,48,51:0:0:48,51:1688,1808:-282.546,-145.261,-130.812,-137.635,0,-122.283 1/2:236:0,110,126:0:0:110,126:3887,4432:-671.569,-355.206,-322.093,-316.713,0,-278.783 1/2:66:0,33,32:0:0:33,32:1172,896:-152.788,-62.2868,-52.3528,-90.4829,0,-80.8499 1/2:142:0,58,83:0:0:58,83:2045,2294:-318.058,-159.968,-142.508,-158.071,0,-133.086 2/2:29:0,0,29:0:0:0,29:0,801:-65.0022,-65.0022,-65.0022,-8.72987,-8.72987,0 1/2:100:0,42,56:0:0:42,56:1460,1907:-271.782,-153.138,-140.495,-118.638,0,-101.78 1/2:553:1,254,297:1:30:254,297:8864,8270:-1294.28,-574.906,-500.843,-717.246,0,-630.238 1/2:442:0,241,200:0:0:241,200:8402,5528:-1034.6,-385.322,-312.774,-649.31,0,-589.104 1/2:270:0,126,142:0:0:126,142:4370,3961:-630.687,-276.206,-238.276,-354.47,0,-311.724 1/2:53:0,20,33:0:0:20,33:701,1156:-149.346,-92.3189,-86.2983,-57.3744,0,-47.4404 1/2:88:0,40,47:0:0:40,47:1417,1615:-243.308,-128.171,-116.13,-115.125,0,-100.977 1/2:112:0,55,57:0:0:55,57:1931,1918:-309.474,-152.778,-136.221,-157.037,0,-139.878 1/2:42:0,19,22:0:0:19,22:653,773:-115.121,-62.0967,-56.3771,-53.0307,0,-46.4081 1/2:100:0,46,54:0:0:46,54:1648,1847:-282.831,-148.503,-134.656,-134.676,0,-118.42 1/2:225:0,107,117:0:0:107,117:3780,3255:-534.116,-226.773,-194.563,-307.288,0,-272.068 1/2:7:0,4,3:0:0:4,3:144,108:-20.7816,-9.03275,-7.82863,-12.1058,0,-11.2027 1/1:86:0,84,0:0:0:84,0:2936,0:-263.915,-25.2865,0,-263.915,-25.2865,-263.915 1/1:11:0,11,0:0:0:11,0:393,0:-33.8501,-3.31133,0,-33.8501,-3.31133,-33.8501 chr02 10972982 . A G 8575.47 PASS AB=0.233544;ABP=2448.19;AC=16;AF=0.380952;AN=42;AO=981;CIGAR=1X;DP=5064;DPB=5064;DPRA=1.9756;EPP=2133.22;EPPR=8869.13;GTI=5;LEN=1;MEANALT=1;MQM=59.8369;MQMR=46.388;NS=21;NUMALT=1;ODDS=27.8849;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34959;QR=146250;RO=4083;RPL=981;RPP=2133.22;RPPR=1477.37;RPR=0;RUN=1;SAF=981;SAP=2133.22;SAR=0;SRF=1209;SRP=1477.37;SRR=2874;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:341:274,67:274:9839:67:2371:-110.994,0,-757.106 0/1:206:176,30:176:6305:30:1072:-34.7803,0,-490.172 0/1:185:131,54:131:4689:54:1919:-117.296,0,-359.003 0/0:299:282,17:282:10080:17:612:0,-34.5964,-820.685 0/1:493:372,121:372:13306:121:4322:-240.737,0,-1018.54 0/1:300:242,58:242:8641:58:2084:-97.5101,0,-666.336 0/1:532:385,147:385:13749:147:5215:-309.329,0,-1049.35 0/1:143:109,34:109:3907:34:1220:-67.0563,0,-294.599 0/1:391:290,101:290:10416:101:3606:-207.032,0,-797.705 0/1:60:37,23:37:1328:23:824:-56.4215,0,-100.911 0/1:18:15,3:15:540:3:108:-4.65663,0,-42.3453 0/1:79:63,16:63:2268:16:557:-26.6742,0,-174.122 0/0:206:188,18:188:6748:18:626:0,-5.34987,-530.428 0/1:201:134,67:134:4799:67:2379:-153.856,0,-358.675 0/1:414:321,93:321:11502:93:3344:-176.546,0,-882.959 0/0:199:184,15:184:6607:15:540:0,-11.0988,-525.431 0/1:217:192,25:192:6885:25:892:-15.2762,0,-531.326 0/1:211:147,64:147:5260:64:2268:-140.851,0,-401.524 0/1:174:151,23:151:5424:23:820:-21.7433,0,-424.603 0/0:270:265,5:265:9477:5:180:0,-64.726,-819.193 0/0:125:125,0:125:4480:0:0:0,-37.6287,-397.16 chr02 11045857 . A C 6869.98 PASS AB=0.489194;ABP=3.5265;AC=21;AF=0.5;AN=42;AO=340;CIGAR=1X;DP=635;DPB=635;DPRA=1.80451;EPP=732.651;EPPR=643.595;GTI=1;LEN=1;MEANALT=1;MQM=59.8941;MQMR=60;NS=21;NUMALT=1;ODDS=1.21778;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11997;QR=10588;RO=295;RPL=307;RPP=482.497;RPPR=343.269;RPR=33;RUN=1;SAF=308;SAP=489.522;SAR=32;SRF=255;SRP=343.269;SRR=40;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:8,21:8:288:21:752:-59.2764,0,-17.5375 0/1:19:11,8:11:396:8:284:-20.1838,0,-30.2632 0/1:34:15,19:15:540:19:671:-50.4808,0,-38.7015 0/1:22:11,11:11:396:11:381:-27.998,0,-29.3601 0/1:45:25,20:25:900:20:711:-50.7693,0,-67.7747 0/1:19:8,11:8:288:11:381:-28.9019,0,-20.5478 0/1:24:15,9:15:540:9:314:-21.3696,0,-41.7118 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/1:55:29,26:29:1044:26:911:-65.7477,0,-77.7182 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:31:8,23:8:288:23:820:-64.7906,0,-16.9355 0/1:50:34,16:34:1212:16:542:-33.9408,0,-94.3348 0/1:26:18,8:18:644:8:284:-18.0719,0,-50.4638 0/1:44:26,18:26:932:18:644:-45.0453,0,-70.9535 0/1:16:6,10:6:212:10:360:-27.9278,0,-14.6083 0/1:14:12,2:12:432:2:72:-2.6223,0,-35.0068 0/1:51:28,23:28:1004:23:817:-58.499,0,-75.3233 0/1:26:4,22:4:144:22:765:-61.3409,0,-5.48684 1/1:62:0,62:0:0:62:2197:-197.994,-18.6639,0 1/1:29:0,29:0:0:29:1019:-92.0213,-8.72987,0 chr02 11166593 . GA CG,AG 98566.2 PASS AB=0.488416,0.509688;ABP=8.54417,6.88127;AC=22,20;AF=0.52381,0.47619;AN=42;AO=2395,2547;CIGAR=2X,2X;DP=4951;DPB=4951;DPRA=1.91468,7.93548;EPP=5151.7,5481.76;EPPR=0;GTI=0;LEN=2,2;MEANALT=2.4,2.4;MQM=53.2693,53.2367;MQMR=0;NS=21;NUMALT=2;ODDS=15.6255;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=85075,90293;QR=0;RO=0;RPL=2389,2541;RPP=5151.7,5481.76;RPPR=0;RPR=6,6;RUN=1,1;SAF=2395,2547;SAP=5203.69,5533.75;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:111:0,48,63:0:0:48,63:1712,2237:-321.834,-182.422,-167.973,-139.767,0,-120.802 1/2:120:0,57,61:0:0:57,61:2024,2176:-340.695,-176.339,-159.181,-164.403,0,-146.04 1/2:115:0,58,56:0:0:58,56:2079,2008:-331.795,-162.667,-145.208,-169.125,0,-152.267 1/2:69:0,39,29:0:0:39,29:1387,1034:-197.067,-84.1264,-72.3862,-112.937,0,-104.207 1/2:83:0,44,39:0:0:44,39:1541,1402:-239.692,-114.517,-101.271,-125.529,0,-113.789 1/2:78:0,35,43:0:0:35,43:1248,1528:-224.894,-124.124,-113.588,-101.124,0,-88.1797 1/2:124:0,53,71:0:0:53,71:1881,2526:-357.891,-205.654,-189.699,-152.591,0,-131.217 2/2:126:0,0,126:0:0:0,126:0,4420:-396.128,-396.128,-396.128,-37.9298,-37.9298,0 1/2:217:0,107,110:0:0:107,110:3814,3884:-626.941,-316.363,-284.153,-310.932,0,-277.819 1/2:822:0,402,417:0:0:402,417:14191,14697:-2340.47,-1190.24,-1069.23,-1150.22,0,-1024.69 1/2:575:0,267,308:0:0:267,308:9452,10911:-1648.63,-882.963,-802.588,-766.022,0,-673.305 1/2:778:0,382,395:0:0:382,395:13631,14058:-2246.83,-1141.72,-1026.73,-1105.11,0,-986.199 1/2:129:0,69,60:0:0:69,60:2425,2115:-369.047,-172.088,-151.317,-197.31,0,-179.248 1/2:103:0,44,59:0:0:44,59:1529,2094:-294.703,-170.599,-157.353,-124.454,0,-106.694 1/2:196:0,108,88:0:0:108,88:3847,3087:-563.818,-250.717,-218.206,-313.453,0,-286.963 1/2:76:0,26,50:0:0:26,50:927,1770:-219.857,-144.478,-136.652,-75.7337,0,-60.6822 1/2:73:0,43,30:0:0:43,30:1541,1054:-211.25,-85.6593,-72.715,-125.944,0,-116.913 1/2:1020:0,491,528:0:0:491,528:17464,18790:-2940.74,-1524.86,-1377.05,-1415.88,0,-1256.93 1/2:59:0,46,13:0:0:46,13:1656,466:-173.011,-38.3333,-24.4859,-135.036,0,-131.122 1/1:31:0,31,0:0:0:31,0:1110,0:-100.022,-9.33193,0,-100.022,-9.33193,-100.022 1/1:46:0,45,1:0:0:45,1:1616,36:-144.555,-13.5464,0,-141.626,-10.2582,-141.325 chr02 11166602 . G C 43068 PASS AB=0.510949;ABP=7.86045;AC=20;AF=0.47619;AN=42;AO=2506;CIGAR=1X;DP=4859;DPB=4859;DPRA=7.7871;EPP=5444.72;EPPR=5099.46;GTI=0;LEN=1;MEANALT=1.2;MQM=53.3005;MQMR=53.3852;NS=21;NUMALT=1;ODDS=15.3929;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89388;QR=83806;RO=2347;RPL=2506;RPP=5444.72;RPPR=5099.46;RPR=0;RUN=1;SAF=2506;SAP=5444.72;SAR=0;SRF=2347;SRP=5099.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:48,62:48:1728:62:2228:-166.995,0,-121.955 0/1:114:56,58:56:2007:58:2063:-150.797,0,-146.066 0/1:113:58,55:58:2076:55:1971:-143.368,0,-152.658 0/1:69:40,29:40:1428:29:1044:-73.3436,0,-107.953 0/1:83:44,39:44:1572:39:1396:-100.734,0,-116.497 0/1:76:33,43:33:1184:43:1511:-112.749,0,-82.8894 0/1:119:52,67:52:1868:67:2408:-180.604,0,-131.313 1/1:125:0,125:0:0:125:4450:-397.794,-37.6288,0 0/1:214:105,109:105:3764:109:3880:-284.47,0,-274.233 0/1:796:388,406:388:13862:406:14476:-1056.4,0,-1003.06 0/1:568:263,305:263:9414:305:10906:-804.195,0,-671.066 0/1:768:375,391:375:13431:391:13979:-1022.43,0,-972.326 0/1:128:68,60:68:2432:60:2151:-154.922,0,-180.153 0/1:100:44,56:44:1527:56:1990:-148.84,0,-107.304 0/1:192:107,85:107:3831:85:3028:-214.167,0,-286.742 0/1:76:26,50:26:932:50:1784:-137.91,0,-60.9207 0/1:72:42,30:42:1495:30:1060:-73.6552,0,-113.078 0/1:1001:477,522:477:16935:522:18563:-1362.65,0,-1216.12 0/1:59:46,13:46:1628:13:464:-24.3053,0,-128.606 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.193 0/0:45:44,1:44:1580:1:36:0,-9.95712,-138.099 chr02 11166605 . T C 39534.8 PASS AB=0.489498;ABP=7.47983;AC=22;AF=0.52381;AN=42;AO=2360;CIGAR=1X;DP=4868;DPB=4868;DPRA=1.8972;EPP=5127.69;EPPR=5440.38;GTI=0;LEN=1;MEANALT=1.2;MQM=53.3017;MQMR=53.3391;NS=21;NUMALT=1;ODDS=16.0952;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84003;QR=89335;RO=2504;RPL=2360;RPP=5127.69;RPPR=5440.38;RPR=0;RUN=1;SAF=2360;SAP=5127.69;SAR=0;SRF=2504;SRP=5440.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:63,47:63:2252:47:1692:-118.718,0,-169.413 0/1:116:60,56:60:2139:56:1978:-142.798,0,-156.863 0/1:115:57,58:57:2040:58:2042:-149.148,0,-148.831 0/1:67:28,39:28:1004:39:1396:-105.679,0,-70.3987 0/1:82:39,42:39:1391:42:1500:-110.267,0,-100.634 0/1:77:43,34:43:1525:34:1216:-85.6994,0,-113.535 0/1:123:71,52:71:2547:52:1840:-127.85,0,-191.85 0/0:125:125,0:125:4434:0:0:0,-37.6287,-396.169 0/1:215:109,106:109:3896:106:3770:-274.417,0,-285.585 0/1:809:412,397:412:14725:397:14184:-1026.58,0,-1074.39 0/1:561:300,261:300:10708:261:9265:-660.02,0,-790.126 0/1:770:390,379:390:13911:379:13482:-975.762,0,-1016.52 0/1:127:59,68:59:2115:68:2423:-179.647,0,-151.907 0/1:101:59,42:59:2111:42:1451:-100.261,0,-159.416 0/1:194:87,106:87:3091:106:3788:-282.199,0,-217.901 0/1:76:50,26:50:1792:26:912:-58.86,0,-138.628 0/1:73:30,43:30:1071:43:1544:-117.183,0,-74.355 0/1:991:508,482:508:18079:482:17149:-1237.92,0,-1321.69 0/1:59:13,46:13:468:46:1640:-129.688,0,-24.666 1/1:31:0,31:0:0:31:1116:-100.551,-9.33193,0 1/1:46:1,45:1:36:45:1615:-141.397,-10.2582,0 chr02 11246954 . CTCA TTCC,CTCC 32713.8 PASS AB=0.51147,0.487681;ABP=4.35525,4.56188;AC=22,20;AF=0.52381,0.47619;AN=42;AO=755,670;CIGAR=1X2M1X,3M1X;DP=1427;DPB=1427;DPRA=0.725543,0;EPP=1000.8,927.202;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.05,2.04762;MQM=59.9444,59.9925;MQMR=0;NS=21;NUMALT=2;ODDS=0.656622;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26559,23889;QR=0;RO=0;RPL=83,68;RPP=1000.8,927.202;RPPR=0;RPR=672,602;RUN=1,1;SAF=0,0;SAP=1642.47,1457.9;SAR=755,670;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:82:0,43,39:0:0:43,39:1524,1390:-237.811,-113.658,-100.714,-124.508,0,-112.768 1/2:62:0,33,29:0:0:33,29:1165,1036:-179.691,-84.824,-74.8901,-95.2219,0,-86.492 1/2:54:0,31,23:0:0:31,23:1109,813:-157,-66.5654,-57.2335,-90.7893,0,-83.8657 1/2:82:0,34,47:0:0:34,47:1196,1684:-234.694,-137.339,-127.104,-97.35,0,-83.2016 1/2:144:0,77,67:0:0:77,67:2709,2389:-415.512,-195.097,-171.917,-220.769,0,-200.6 1/2:45:0,20,25:0:0:20,25:695,892:-129.573,-73.0739,-67.0533,-56.8508,0,-49.3251 1/2:104:0,50,54:0:0:50,54:1725,1932:-298.028,-157.901,-142.849,-140.478,0,-124.223 2/2:92:0,0,91:0:0:0,91:0,3237:-291.29,-291.29,-291.29,-27.3937,-27.3937,0 1/2:59:0,31,28:0:0:31,28:1084,993:-169.438,-81.2537,-71.9217,-88.5365,0,-80.1077 1/2:7:0,6,1:0:0:6,1:215,36:-20.8306,-3.29724,-1.49106,-17.893,0,-17.592 1/2:7:0,6,1:0:0:6,1:202,36:-19.6442,-3.29724,-1.49106,-16.7034,0,-16.4024 1/2:18:0,10,8:0:0:10,8:345,288:-51.8781,-23.8592,-20.8489,-28.3721,0,-25.9638 1/2:50:0,24,26:0:0:24,26:851,928:-145.341,-76.0115,-68.7868,-69.6855,0,-61.8587 1/2:66:0,33,33:0:0:33,33:1183,1188:-193.78,-97.2946,-87.3606,-96.8447,0,-86.9107 1/2:130:0,58,72:0:0:58,72:2037,2546:-373.504,-207.714,-190.255,-166.142,0,-144.468 1/2:52:0,30,22:0:0:30,22:1061,784:-150.676,-64.2613,-55.2304,-86.7701,0,-80.1475 1/2:44:0,22,22:0:0:22,22:768,792:-127.445,-64.983,-58.3604,-62.8165,0,-56.1939 1/2:94:0,36,58:0:0:36,58:1271,2061:-271.764,-168.299,-157.462,-103.819,0,-86.3589 1/2:77:0,58,19:0:0:58,19:2062,684:-224.202,-56.1708,-38.711,-168.39,0,-162.67 1/1:103:0,101,2:0:0:101,2:3542,72:-318.632,-30.404,0,-312.757,-24.1694,-312.155 1/1:55:0,52,3:0:0:52,3:1815,108:-163.268,-15.6536,0,-154.456,-6.48148,-153.553 chr02 11246975 . A T 13576.6 PASS AB=0.510152;ABP=4.06848;AC=22;AF=0.52381;AN=42;AO=756;CIGAR=1X;DP=1433;DPB=1433;DPRA=0.72043;EPP=1644.64;EPPR=1473.1;GTI=1;LEN=1;MEANALT=1;MQM=59.9444;MQMR=59.9838;NS=21;NUMALT=1;ODDS=0.771585;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27056;QR=24153;RO=677;RPL=756;RPP=1644.64;RPPR=1473.1;RPR=0;RUN=1;SAF=0;SAP=1644.64;SAR=756;SRF=0;SRP=1473.1;SRR=677;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:40,43:40:1428:43:1533:-113.276,0,-103.832 0/1:64:31,33:31:1116:33:1180:-87.2421,0,-81.4858 0/1:54:23,31:23:824:31:1116:-84.4961,0,-58.2277 0/1:79:45,34:45:1608:34:1224:-86.6857,0,-121.229 0/1:145:67,78:67:2366:78:2773:-206.114,0,-169.549 0/1:43:23,20:23:828:20:720:-52.1845,0,-61.8998 0/1:109:59,50:59:2100:50:1800:-129.469,0,-156.458 0/0:93:93,0:93:3328:0:0:0,-27.9958,-299.738 0/1:60:28,32:28:1000:32:1133:-84.2149,0,-72.2536 0/1:7:1,6:1:32:6:216:-17.6833,0,-1.0921 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:18:8,10:8:288:10:356:-26.9627,0,-20.8489 0/1:50:27,23:27:949:23:819:-58.9801,0,-70.6713 0/1:66:33,33:33:1172:33:1188:-87.3606,0,-85.9195 0/1:130:72,58:72:2575:58:2080:-148.336,0,-192.865 0/1:52:22,30:22:792:30:1080:-81.8597,0,-55.9521 0/1:45:23,22:23:820:22:792:-58.0593,0,-60.5762 0/1:94:58,36:58:2063:36:1288:-87.9082,0,-157.639 0/1:76:18,58:18:648:58:2053:-162.162,0,-35.7736 1/1:103:2,101:2:72:101:3632:-320.247,-24.1694,0 1/1:55:3,52:3:108:52:1857:-157.333,-6.48148,0 chr02 11317950 . C T 1339.56 PASS AB=0.166046;ABP=1823.19;AC=12;AF=0.285714;AN=42;AO=382;CIGAR=1X;DP=3162;DPB=3162;DPRA=0;EPP=699.359;EPPR=6039.7;GTI=5;LEN=1;MEANALT=1;MQM=57.5576;MQMR=30.9158;NS=21;NUMALT=1;ODDS=6.92529;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13559;QR=99336;RO=2780;RPL=17;RPP=691.424;RPPR=6039.7;RPR=365;RUN=1;SAF=381;SAP=823.85;SAR=1;SRF=2780;SRP=6039.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:127:120,7:120:4291:7:244:0,-16.5013,-299.201 0/0:112:104,8:104:3714:8:284:0,-7.812,-257.333 0/1:86:76,10:76:2719:10:352:-5.18842,0,-178.167 0/0:171:162,9:162:5808:9:313:0,-22.9829,-404.896 0/1:336:285,51:285:10174:51:1824:-63.2298,0,-659.766 0/1:170:134,36:134:4769:36:1279:-63.8277,0,-314.181 0/0:177:164,13:164:5862:13:467:0,-12.0251,-405.865 0/0:116:111,5:111:3980:5:180:0,-18.3674,-280.17 0/0:274:264,10:264:9440:10:347:0,-51.4216,-657.426 0/1:10:6,4:6:216:4:144:-10.0373,0,-13.5867 0/1:28:15,13:15:540:13:464:-33.6678,0,-33.1129 0/1:51:36,15:36:1283:15:527:-32.3593,0,-80.9388 0/1:148:116,32:116:4125:32:1140:-58.1775,0,-265.025 0/0:107:102,5:102:3648:5:161:0,-17.4058,-256.238 0/1:412:368,44:368:13165:44:1572:-17.5808,0,-860.667 0/1:158:119,39:119:4259:39:1396:-77.9698,0,-263.205 0/1:216:194,22:194:6941:22:764:-4.04464,0,-440.296 0/1:170:140,30:140:5003:30:1076:-45.8869,0,-322.061 0/1:94:78,16:78:2743:16:572:-23.3483,0,-177.421 0/0:134:126,8:126:4508:8:273:0,-15.5087,-313.31 0/0:65:60,5:60:2148:5:180:0,-3.01488,-148.141 chr02 11317964 . GGAGAACA TGAAAACG,GGAAAACA 50749.7 PASS AB=0.834304,0.16252;ABP=1836.71,1871.72;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2797,371;CIGAR=1X2M1X3M1X,3M1X4M;DP=3176;DPB=3175.88;DPRA=0,0;EPP=5964.23,791.348;EPPR=0;GTI=5;LEN=8,1;MEANALT=2.38095,2.38095;MQM=30.9103,58.6011;MQMR=0;NS=21;NUMALT=2;ODDS=7.72374;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=98665,13186;QR=0;RO=0;RPL=2784,369;RPP=5964.23,791.348;RPPR=0;RPR=13,2;RUN=1,1;SAF=2797,371;SAP=6076.62,808.627;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:0,121,7:0:0:121,7:4271,237:-321.794,-36.4246,0,-302.583,-16.8773,-300.476 1/1:113:0,104,8:0:0:104,8:3671,269:-281.49,-31.3071,0,-259.695,-9.532,-257.287 1/2:84:0,75,8:0:0:75,8:2677,288:-201.477,-23.4986,-0.921303,-177.978,0,-175.57 1/1:171:0,162,9:0:0:162,9:5741,309:-430.762,-48.7669,0,-405.746,-23.4112,-403.037 1/2:340:0,287,52:0:0:287,52:10089,1853:-826.39,-151.032,-64.6361,-675.503,0,-659.849 1/2:172:0,136,36:0:0:136,36:4776,1265:-430.755,-103.311,-62.3707,-327.785,0,-316.948 1/1:180:0,168,12:0:0:168,12:5928,432:-455.136,-50.573,0,-419.883,-14.9642,-416.271 1/1:116:0,111,5:0:0:111,5:3891,180:-293.481,-33.4143,0,-278.791,-18.3674,-277.286 1/1:272:0,265,6:0:0:265,6:9394,216:-688.063,-79.773,0,-670.439,-62.0817,-668.633 1/2:8:0,6,2:0:0:6,2:211,72:-20.5145,-6.23466,-4.42848,-14.6244,0,-14.0223 1/2:29:0,15,14:0:0:15,14:530,500:-77.4482,-41.1208,-36.6054,-36.6581,0,-32.4437 1/2:52:0,37,15:0:0:37,15:1316,540:-131.976,-44.3309,-33.1927,-87.9862,0,-83.4708 1/2:150:0,117,32:0:0:117,32:4122,1144:-368.476,-93.2601,-58.0396,-275.207,0,-265.574 1/1:106:0,102,4:0:0:102,4:3615,144:-269.914,-30.7051,0,-258.164,-18.5982,-256.96 1/2:414:0,371,43:0:0:371,43:13083,1517:-998.575,-123.672,-11.9896,-875.25,0,-862.305 1/2:158:0,119,37:0:0:119,37:4203,1328:-381.241,-108.343,-72.5209,-272.922,0,-261.783 1/2:219:0,197,22:0:0:197,22:6930,788:-515.17,-64.6114,-5.30845,-450.909,0,-444.287 1/2:169:0,138,30:0:0:138,30:4876,1076:-413.414,-87.7988,-46.2567,-325.73,0,-316.699 1/2:94:0,78,16:0:0:78,16:2697,568:-226.957,-46.6239,-23.1436,-180.677,0,-175.86 1/1:133:0,126,7:0:0:126,7:4452,248:-335.943,-37.9298,0,-315.737,-17.3728,-313.63 1/1:68:0,62,6:0:0:62,6:2192,212:-168.833,-18.6639,0,-151.563,-1.04524,-149.757 chr02 11317977 . A T,G 50015.5 PASS AB=0.833801,0.166199;ABP=1726.68,1726.68;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2775,364;CIGAR=1X,1X;DP=3140;DPB=3140;DPRA=0,0;EPP=6028.85,793.426;EPPR=0;GTI=4;LEN=1,1;MEANALT=2.04762,2.04762;MQM=30.9337,58.5907;MQMR=0;NS=21;NUMALT=2;ODDS=4.69464;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=99282,12859;QR=0;RO=0;RPL=2775,364;RPP=6028.85,793.426;RPPR=0;RPR=0,0;RUN=1,1;SAF=2775,364;SAP=6028.85,793.426;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:0,121,6:0:0:121,6:4333,216:-323.173,-36.4246,0,-305.551,-18.4453,-303.745 1/1:111:0,104,7:0:0:104,7:3732,248:-284.319,-31.3071,0,-264.113,-10.7501,-262.005 1/1:83:0,76,7:0:0:76,7:2728,252:-204.085,-22.8783,0,-183.523,-1.96194,-181.416 1/1:169:0,160,9:0:0:160,9:5726,324:-427.143,-48.1648,0,-400.778,-21.4444,-398.069 1/2:336:0,283,53:0:0:283,53:10079,1875:-822.099,-152.959,-67.7676,-669.484,0,-653.529 1/2:169:0,134,35:0:0:134,35:4795,1215:-425.109,-99.1107,-58.7726,-326.337,0,-315.8 1/1:178:0,166,12:0:0:166,12:5934,428:-452.304,-49.971,0,-417.41,-14.7245,-413.798 1/1:114:0,110,4:0:0:110,4:3944,140:-293.681,-33.1133,0,-282.289,-21.3728,-281.085 1/1:272:0,266,6:0:0:266,6:9511,216:-692.419,-80.074,0,-674.795,-62.0924,-672.989 1/2:8:0,6,2:0:0:6,2:207,72:-20.248,-6.23466,-4.42848,-14.3567,0,-13.7546 1/2:27:0,15,12:0:0:15,12:540,428:-71.9389,-35.2464,-30.731,-37.0263,0,-33.4139 1/2:52:0,37,15:0:0:37,15:1328,523:-130.828,-42.8319,-31.6938,-88.3301,0,-83.8147 1/2:148:0,115,33:0:0:115,33:4101,1168:-367.77,-95.4715,-60.8531,-272.64,0,-262.706 1/1:105:0,101,4:0:0:101,4:3628,144:-269.044,-30.404,0,-257.294,-18.2972,-256.09 1/2:410:0,369,41:0:0:369,41:13211,1446:-993.951,-117.958,-6.87743,-876.34,0,-863.998 1/2:153:0,116,37:0:0:116,37:4151,1315:-374.618,-107.423,-72.5039,-267.534,0,-256.396 1/2:217:0,195,22:0:0:195,22:7008,776:-513.584,-63.5298,-4.82896,-450.4,0,-443.777 1/2:168:0,138,30:0:0:138,30:4928,1054:-412.073,-86.048,-44.5059,-326.366,0,-317.335 1/2:93:0,77,16:0:0:77,16:2748,568:-227.023,-46.6236,-23.4443,-180.743,0,-175.927 1/1:132:0,124,7:0:0:124,7:4433,248:-331.958,-37.3277,0,-311.752,-17.0758,-309.645 1/1:68:0,62,6:0:0:62,6:2217,203:-169.37,-18.6639,0,-152.91,-1.86886,-151.104 chr02 11317983 . A G 41145.9 PASS AB=0.834412;ABP=1803.9;AC=30;AF=0.714286;AN=42;AO=2752;CIGAR=1X;DP=3125;DPB=3125;DPRA=0;EPP=5978.9;EPPR=804.284;GTI=5;LEN=1;MEANALT=1.19048;MQM=30.9179;MQMR=58.5528;NS=21;NUMALT=1;ODDS=7.01213;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98285;QR=13061;RO=369;RPL=2752;RPP=5978.9;RPPR=804.284;RPR=0;RUN=1;SAF=2752;SAP=5978.9;SAR=0;SRF=369;SRP=804.284;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:7,120:7:248:120:4258:-296.673,-15.5715,0 1/1:112:8,104:8:288:104:3722:-257.16,-7.44795,0 0/1:84:8,76:8:284:76:2736:-179.396,0,-0.610758 1/1:171:9,160:9:324:160:5689:-395.831,-21.7535,0 0/1:332:52,279:52:1841:279:9944:-643.651,0,-65.87 0/1:167:35,132:35:1240:132:4708:-310.457,0,-61.6305 1/1:175:12,163:12:432:163:5792:-403.233,-13.4591,0 1/1:115:5,110:5:176:110:3948:-277.946,-18.4334,0 1/1:265:6,259:6:212:259:9287:-656.212,-60.3504,0 0/1:8:2,6:2:72:6:207:-13.7546,0,-4.42848 0/1:28:14,14:14:487:14:495:-29.9341,0,-35.7294 0/1:52:15,37:15:532:37:1328:-83.8147,0,-32.4693 0/1:149:33,116:33:1153:116:4133:-264.966,0,-59.1995 1/1:105:4,101:4:140:101:3615:-255.669,-18.6657,0 0/1:408:43,364:43:1528:364:13024:-851.11,0,-14.8295 0/1:154:36,118:36:1280:118:4216:-260.758,0,-69.0549 0/1:214:21,193:21:732:193:6904:-438.215,0,-1.76872 0/1:165:30,135:30:1064:135:4804:-309.577,0,-46.3115 0/1:93:16,77:16:568:77:2744:-175.746,0,-23.4452 1/1:133:7,126:7:248:126:4512:-315.616,-17.3728,0 1/1:68:6,62:6:212:62:2219:-150.483,-1.04524,0 chr02 11540558 . G A 17395.8 PASS AB=0.378503;ABP=337.016;AC=22;AF=0.52381;AN=42;AO=1141;CIGAR=1X;DP=2999;DPB=2999;DPRA=0.590812;EPP=2420.23;EPPR=3912.58;GTI=2;LEN=1;MEANALT=1.1;MQM=59.9273;MQMR=59.9752;NS=21;NUMALT=1;ODDS=14.4161;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39824;QR=66075;RO=1856;RPL=7;RPP=2420.23;RPPR=3912.58;RPR=1134;RUN=1;SAF=1141;SAP=2480.66;SAR=0;SRF=1856;SRP=4033.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:104,72:104:3704:72:2491:-171.464,0,-280.583 0/1:147:79,68:79:2820:68:2366:-168.946,0,-209.598 0/1:133:98,35:98:3512:35:1236:-71.5073,0,-276.253 0/1:199:125,74:125:4425:74:2599:-174.253,0,-338.52 0/1:313:203,110:203:7239:110:3813:-249.124,0,-557.344 0/1:79:38,40:38:1360:40:1391:-101.656,0,-98.8994 0/1:254:171,83:171:6063:83:2883:-182.98,0,-469.316 0/0:234:234,0:234:8339:0:0:0,-70.441,-750.522 0/1:156:105,51:105:3742:51:1790:-114.418,0,-290.015 0/1:19:16,3:16:572:3:93:-2.95716,0,-46.0939 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 0/1:51:30,21:30:1080:21:748:-52.2928,0,-82.1607 0/1:128:65,63:65:2294:63:2217:-161.262,0,-168.189 0/1:194:129,65:129:4574:65:2235:-143.009,0,-353.429 0/1:252:162,90:162:5763:90:3164:-209.13,0,-442.93 0/1:120:72,48:72:2584:48:1658:-113.379,0,-196.685 0/1:189:131,58:131:4658:58:2027:-125.805,0,-362.489 0/1:142:66,76:66:2351:76:2660:-196.903,0,-169.093 0/1:41:16,25:16:567:25:880:-67.1755,0,-39.0185 1/1:103:3,99:3:104:99:3483:-303.979,-21.3588,0 1/1:57:1,56:1:36:56:1946:-171.816,-13.5604,0 chr02 11540666 . CGTT TGTC,CGTC 40766.4 PASS AB=0.499771,0.495656;ABP=3.01129,3.36874;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1279,1145;CIGAR=1X2M1X,3M1X;DP=2435;DPB=2435.25;DPRA=2.01356,0;EPP=2780.32,2489.35;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.5,2.42857;MQM=30.76,43.9485;MQMR=0;NS=21;NUMALT=2;ODDS=15.0636;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=45240,40739;QR=0;RO=0;RPL=1279,1145;RPP=2780.32,2489.35;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2780.32,2489.35;SAR=1279,1145;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:110:0,62,47:0:0:62,47:2211,1684:-283.034,-135.285,-116.622,-147.772,0,-133.624 1/2:78:0,47,31:0:0:47,31:1652,1112:-186.358,-86.991,-72.8426,-99.6814,0,-90.3494 1/2:67:0,41,26:0:0:41,26:1455,928:-173.927,-74.8701,-62.5279,-99.3895,0,-91.5627 1/2:134:0,69,65:0:0:69,65:2449,2295:-344.828,-183.535,-162.764,-161.614,0,-142.047 1/2:325:0,140,183:0:0:140,183:4953,6482:-852.288,-517.495,-475.351,-334.875,0,-279.786 1/2:108:0,60,48:0:0:60,48:2143,1724:-261.735,-134.907,-116.845,-127.139,0,-112.689 1/2:163:0,71,92:0:0:71,92:2500,3292:-408.77,-258.871,-237.498,-150.201,0,-122.507 2/2:59:0,0,59:0:0:0,59:0,2105:-184.618,-184.618,-184.618,-17.7608,-17.7608,0 1/2:238:0,125,112:0:0:125,112:4412,3971:-632.138,-319.3,-281.672,-312.938,0,-279.223 1/2:21:0,9,12:0:0:9,12:313,432:-54.188,-34.7666,-32.0574,-19.7286,0,-16.1163 1/2:13:0,7,6:0:0:7,6:251,216:-32.4513,-17.3746,-15.2674,-15.3907,0,-13.5845 1/2:26:0,17,9:0:0:17,9:594,324:-64.6948,-26.163,-21.0455,-38.8609,0,-36.1516 1/2:123:0,56,66:0:0:56,66:1954,2342:-319.82,-186.153,-169.296,-133.703,0,-113.836 1/2:125:0,54,71:0:0:54,71:1895,2510:-326.84,-200.461,-184.205,-126.695,0,-105.322 1/2:130:0,57,73:0:0:57,73:2025,2624:-346.601,-210.352,-193.193,-136.573,0,-114.598 1/2:131:0,79,50:0:0:79,50:2802,1766:-339.727,-142.188,-118.406,-197.582,0,-182.53 1/2:124:0,59,64:0:0:59,64:2080,2266:-327.136,-181.86,-164.099,-145.356,0,-126.091 1/2:163:0,75,86:0:0:75,86:2651,3069:-411.253,-240.806,-218.229,-170.486,0,-144.597 1/2:108:0,65,43:0:0:65,43:2317,1525:-279.111,-122.599,-103.032,-156.842,0,-143.898 1/1:117:0,116,1:0:0:116,1:4091,36:-297.456,-34.9195,0,-294.587,-31.6995,-294.286 1/1:72:0,70,1:0:0:70,1:2492,36:-171.345,-21.0721,0,-168.963,-18.6601,-168.662 chr02 11543083 . C G 8050.53 PASS AB=0.537037;ABP=12.0179;AC=20;AF=0.47619;AN=42;AO=457;CIGAR=1X;DP=935;DPB=935;DPRA=1.61964;EPP=986.706;EPPR=1017.16;GTI=1;LEN=1;MEANALT=1.15;MQM=59.6521;MQMR=59.7874;NS=21;NUMALT=1;ODDS=1.41175;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16341;QR=16959;RO=475;RPL=1;RPP=986.706;RPPR=1017.16;RPR=456;RUN=1;SAF=457;SAP=995.373;SAR=0;SRF=475;SRP=1034.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:18,51:18:648:51:1820:-143.275,0,-37.8793 0/1:25:9,16:9:316:16:576:-44.6492,0,-21.2531 0/1:49:33,15:33:1188:15:540:-34.1273,0,-92.4154 0/1:47:29,18:29:1032:18:636:-43.4196,0,-79.0451 0/1:86:38,48:38:1347:48:1708:-128.115,0,-95.6394 0/1:16:4,12:4:144:12:428:-34.0423,0,-8.49714 0/1:53:28,25:28:999:25:892:-64.4337,0,-73.3244 1/1:50:0,50:0:0:50:1782:-160.654,-15.0515,0 0/1:62:37,24:37:1332:24:864:-59.3599,0,-101.459 0/1:10:2,8:2:68:8:288:-22.9758,0,-3.44741 0/1:9:3,5:3:108:5:180:-13.784,0,-7.3071 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 0/1:75:34,41:34:1216:41:1468:-109.838,0,-87.1692 0/1:28:17,11:17:612:11:396:-27.5539,0,-46.9846 0/1:47:16,31:16:564:31:1116:-86.6009,0,-36.9419 0/1:37:24,13:24:856:13:464:-30.9594,0,-66.223 0/1:29:7,22:7:252:22:788:-62.5146,0,-14.2991 0/1:63:18,45:18:648:45:1603:-125.463,0,-39.687 0/1:38:24,14:24:821:14:504:-34.2542,0,-62.7503 0/0:101:100,1:100:3584:1:36:0,-26.8058,-319.159 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0231 chr02 11543088 . AGA AAA 8290.96 PASS AB=0.442133;ABP=25.3773;AC=22;AF=0.52381;AN=42;AO=464;CIGAR=1M1X1M;DP=953;DPB=947;DPRA=0.832407;EPP=976.129;EPPR=1014.93;GTI=1;LEN=1;MEANALT=1.45;MQM=59.7694;MQMR=59.7043;NS=21;NUMALT=1;ODDS=2.26255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16570;QR=16588;RO=470;RPL=4;RPP=976.129;RPPR=1014.93;RPR=460;RUN=1;SAF=464;SAP=1010.57;SAR=0;SRF=470;SRP=1023.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:50,18:50:1764:18:643:-37.7291,0,-138.555 0/1:25:16,7:16:572:7:252:-15.7454,0,-44.5304 0/1:49:16,33:16:572:33:1176:-91.3934,0,-37.0632 0/1:46:18,28:18:633:28:1008:-77.189,0,-43.4491 0/1:87:49,34:49:1732:34:1208:-83.687,0,-130.828 0/1:16:12,4:12:430:4:144:-8.49714,0,-34.2236 0/1:55:25,25:25:885:25:890:-64.7338,0,-64.5409 0/0:54:54,0:54:1901:0:0:0,-16.2556,-171.358 0/1:66:26,40:26:925:40:1420:-108.227,0,-63.6908 0/1:11:9,2:9:315:2:72:-3.52539,0,-25.0989 0/1:9:5,4:5:178:4:144:-10.6043,0,-13.6594 0/1:13:7,6:7:245:6:212:-15.5114,0,-18.4772 0/1:75:41,32:41:1441:32:1148:-81.2947,0,-107.649 0/1:29:12,17:12:425:17:608:-46.3222,0,-29.8574 0/1:47:31,16:31:1084:16:557:-36.3072,0,-83.7172 0/1:37:13,23:13:451:23:820:-63.0693,0,-29.8618 0/1:29:22,7:22:760:7:252:-14.2991,0,-59.9859 0/1:64:46,17:46:1639:17:612:-36.0887,0,-128.403 0/1:43:16,27:16:566:27:972:-74.8406,0,-38.3236 1/1:102:2,98:2:70:98:3504:-308.906,-23.8105,0 1/1:28:0,26:0:0:26:928:-83.4648,-7.82678,0 chr02 11543123 . 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T C 2.78976e-10 PASS AB=0.712984;ABP=1948.23;AC=21;AF=0.5;AN=42;AO=3520;CIGAR=1X;DP=4937;DPB=4937;DPRA=0;EPP=7637.91;EPPR=3069.14;GTI=20;LEN=1;MEANALT=1.04762;MQM=11.9994;MQMR=35.0847;NS=21;NUMALT=1;ODDS=23.5004;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=125966;QR=50712;RO=1416;RPL=3519;RPP=7637.91;RPPR=3077.82;RPR=1;RUN=1;SAF=0;SAP=7646.59;SAR=3520;SRF=1;SRP=3069.14;SRR=1415;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:223:91,132:91:3256:132:4720:-75.3016,0,-198.37 0/1:227:119,108:119:4272:108:3863:-48.2501,0,-279.301 0/1:108:29,79:29:1044:79:2836:-52.8093,0,-52.5381 0/1:297:121,176:121:4332:176:6303:-100.515,0,-263.522 0/1:623:178,445:178:6376:445:15892:-292.261,0,-330.429 0/1:310:44,266:44:1567:266:9505:-193.621,0,-34.6014 0/1:484:63,421:63:2260:421:15081:-308.433,0,-38.2293 0/1:81:43,38:43:1548:38:1352:-16.7123,0,-101.885 0/1:277:105,172:105:3756:172:6172:-102.233,0,-222.499 0/1:9:4,5:4:144:5:180:-2.80329,0,-9.30152 0/1:24:5,19:5:180:19:676:-13.3831,0,-7.70761 0/1:49:14,35:14:500:35:1256:-23.1162,0,-26.2739 0/1:247:78,169:78:2804:169:6051:-108.016,0,-153.65 0/1:332:101,231:101:3619:231:8284:-149.304,0,-194.76 0/1:436:80,356:80:2837:356:12771:-252.803,0,-100.476 0/1:247:61,186:61:2172:186:6656:-126.353,0,-101.829 0/1:259:40,218:40:1425:218:7832:-157.271,0,-38.1724 0/1:95:42,53:42:1508:53:1873:-28.6317,0,-94.2308 0/1:153:51,102:51:1828:102:3647:-64.0551,0,-102.864 0/1:322:97,225:97:3484:225:8040:-145.789,0,-186.382 0/1:134:50,84:50:1800:84:2976:-50.3143,0,-106.064 chr02 12282726 . AACA AA 10674.2 PASS AB=0.456476;ABP=26.2603;AC=21;AF=0.5;AN=42;AO=703;CIGAR=1M2D1M;DP=1586;DPB=1234.5;DPRA=1.41852;EPP=1529.56;EPPR=1767.26;GTI=0;LEN=2;MEANALT=1;MQM=45.0057;MQMR=59.5561;NS=21;NUMALT=1;ODDS=0.963139;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24379;QR=30580;RO=883;RPL=0;RPP=1529.56;RPPR=1767.26;RPR=703;RUN=1;SAF=703;SAP=1529.56;SAR=0;SRF=883;SRP=1920.42;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:29,51:29:1014:51:1801:-135.667,0,-67.4867 0/1:83:39,44:39:1344:44:1499:-106.239,0,-96.264 0/1:86:56,30:56:1949:30:1059:-68.0001,0,-149.686 0/1:99:50,49:50:1718:49:1725:-123.677,0,-125.089 0/1:71:29,42:29:992:42:1453:-107.99,0,-68.211 0/1:95:57,38:57:1941:38:1321:-87.5932,0,-146.364 0/1:98:57,41:57:1990:41:1448:-97.8384,0,-149.855 1/1:53:0,53:0:0:53:1842:-163.356,-15.9546,0 0/1:166:98,68:98:3395:68:2322:-158.041,0,-255.791 0/1:7:2,5:2:71:5:172:-13.4916,0,-4.63485 1/1:4:0,4:0:0:4:144:-12.96,-1.20412,0 0/1:16:8,8:8:282:8:280:-20.3353,0,-20.8964 0/1:110:47,63:47:1630:63:2196:-162.21,0,-113.864 0/1:60:35,25:35:1182:25:849:-57.8506,0,-88.6138 0/1:108:63,45:63:2191:45:1537:-104.605,0,-164.625 0/1:94:45,49:45:1553:49:1706:-123.728,0,-111.749 0/1:78:46,32:46:1595:32:1100:-75.1758,0,-120.33 0/1:86:48,38:48:1679:38:1312:-89.8381,0,-125.455 0/1:76:59,17:59:2056:17:581:-29.2323,0,-161.726 0/0:62:61,1:61:2109:1:32:0,-15.4904,-186.898 0/0:54:54,0:54:1889:0:0:0,-16.2556,-170.058 chr02 12282836 . C A 24438.9 PASS AB=0.558161;ABP=66.9155;AC=20;AF=0.47619;AN=42;AO=1367;CIGAR=1X;DP=2562;DPB=2562;DPRA=2.56429;EPP=2971.41;EPPR=2589.23;GTI=2;LEN=1;MEANALT=1.1;MQM=59.2677;MQMR=59.9983;NS=21;NUMALT=1;ODDS=5.48987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48584;QR=42302;RO=1191;RPL=0;RPP=2971.41;RPPR=2589.23;RPR=1367;RUN=1;SAF=0;SAP=2971.41;SAR=1367;SRF=0;SRP=2589.23;SRR=1191;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:60,77:60:2117:77:2740:-204.835,0,-149.556 0/1:62:19,43:19:684:43:1518:-118.133,0,-43.2265 0/1:111:57,54:57:2027:54:1913:-138.963,0,-149.288 0/1:135:67,68:67:2377:68:2416:-177.044,0,-173.548 0/1:262:127,135:127:4508:135:4808:-353.849,0,-327.02 0/1:156:50,106:50:1761:106:3787:-293.467,0,-111.811 0/1:189:63,126:63:2234:126:4495:-347.629,0,-144.428 1/1:152:1,151:1:36:151:5347:-477.344,-42.1583,0 0/1:213:115,98:115:4111:98:3511:-252.056,0,-306.055 0/1:8:1,7:1:36:7:252:-20.6124,0,-1.19003 0/1:9:2,7:2:72:7:252:-19.5315,0,-4.12745 0/1:32:14,17:14:500:17:604:-44.9991,0,-35.6446 0/1:139:65,74:65:2298:74:2603:-192.098,0,-165.238 0/1:137:52,85:52:1849:85:3007:-229.535,0,-125.447 0/1:247:106,141:106:3784:141:5000:-375.663,0,-266.404 0/1:100:42,58:42:1489:58:2072:-156.625,0,-104.2 0/1:113:39,74:39:1392:74:2616:-201.64,0,-91.5626 0/1:79:45,34:45:1607:34:1211:-85.5141,0,-121.138 0/1:46:36,10:36:1275:10:360:-18.8969,0,-101.205 0/0:186:181,2:181:6415:2:72:0,-48.6116,-570.604 0/0:49:49,0:49:1730:0:0:0,-14.7505,-155.983 chr02 12282852 . GATC TATG,GATG 52848.7 PASS AB=0.560179,0.436689;ABP=73.3145,80.8229;AC=20,22;AF=0.47619,0.52381;AN=42;AO=1413,1212;CIGAR=1X2M1X,3M1X;DP=2635;DPB=2635;DPRA=2.43585,0.768323;EPP=3071.3,2634.83;EPPR=0;GTI=2;LEN=4,1;MEANALT=2.4,2.35;MQM=59.2095,59.9744;MQMR=0;NS=21;NUMALT=2;ODDS=6.54053;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49766,43181;QR=0;RO=0;RPL=0,0;RPP=3071.3,2634.83;RPPR=0;RPR=1413,1212;RUN=1,1;SAF=0,0;SAP=3071.3,2634.83;SAR=1413,1212;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:137:0,79,57:0:0:79,57:2795,2029:-392.539,-165.471,-141.69,-227.17,0,-210.012 1/2:65:0,46,19:0:0:46,19:1594,680:-185.253,-55.8096,-41.9622,-129.798,0,-124.078 1/2:113:0,55,57:0:0:55,57:1946,2048:-325.518,-167.073,-150.516,-158.442,0,-141.283 1/2:137:0,69,68:0:0:69,68:2428,2439:-396.93,-199.294,-178.523,-197.991,0,-177.521 1/2:269:0,139,129:0:0:139,129:4913,4619:-776.646,-376.68,-334.837,-399.961,0,-361.129 1/2:165:0,111,54:0:0:111,54:3923,1893:-473.637,-154.388,-120.974,-319.6,0,-303.344 1/2:200:0,135,65:0:0:135,65:4700,2281:-568.027,-185.983,-145.344,-382.394,0,-362.827 1/1:161:0,159,0:0:0:159,0:5613,0:-504.224,-47.8638,0,-504.224,-47.8638,-504.224 1/2:222:0,102,120:0:0:102,120:3608,4277:-642.834,-348.979,-318.274,-294.21,0,-258.086 1/2:8:0,7,1:0:0:7,1:242,32:-22.5814,-2.89828,-0.791073,-20.0063,0,-19.7052 1/2:9:0,7,2:0:0:7,2:236,72:-25.1107,-6.23466,-4.12745,-19.2299,0,-18.6279 1/2:32:0,18,14:0:0:18,14:639,495:-92.7356,-40.6686,-35.2501,-52.421,0,-48.2066 1/2:141:0,75,66:0:0:75,66:2639,2355:-407.02,-192.34,-169.763,-215.034,0,-195.166 1/2:144:0,88,55:0:0:88,55:3092,1936:-409.215,-157.599,-131.108,-251.609,0,-235.053 1/2:246:0,142,104:0:0:142,104:4991,3716:-709.445,-303.334,-260.588,-406.466,0,-375.159 1/2:102:0,59,42:0:0:59,42:2082,1508:-292.541,-123.031,-105.27,-169.526,0,-156.883 1/2:113:0,74,39:0:0:74,39:2614,1404:-327.666,-114.813,-92.5368,-213.211,0,-201.47 1/2:85:0,36,47:0:0:36,47:1282,1670:-240.578,-136.087,-125.25,-104.496,0,-90.3477 1/2:47:0,10,37:0:0:10,37:357,1317:-136.797,-107.692,-104.681,-29.462,0,-18.3239 2/2:186:0,2,183:0:0:2,183:72,6525:-587.011,-581.136,-580.534,-55.0885,-49.1404,0 2/2:53:0,0,53:0:0:0,53:0,1885:-169.927,-169.927,-169.927,-15.9546,-15.9546,0 chr02 12314208 . C T 12654 PASS AB=0.333968;ABP=506.317;AC=22;AF=0.52381;AN=42;AO=849;CIGAR=1X;DP=2371;DPB=2371;DPRA=0.929752;EPP=1846.59;EPPR=3303.65;GTI=3;LEN=1;MEANALT=1.1;MQM=59.8869;MQMR=59.9579;NS=21;NUMALT=1;ODDS=2.68658;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30327;QR=53438;RO=1520;RPL=849;RPP=1846.59;RPPR=3303.65;RPR=0;RUN=1;SAF=849;SAP=1846.59;SAR=0;SRF=1520;SRP=3303.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:263:177,86:177:6163:86:3064:-195.453,0,-475.605 0/1:111:84,27:84:2982:27:964:-53.6609,0,-235.198 0/1:112:75,37:75:2652:37:1319:-85.2943,0,-205.21 0/1:105:53,52:53:1838:52:1868:-136.78,0,-134.088 0/1:242:178,64:178:6272:64:2300:-134.411,0,-491.442 0/1:118:85,33:85:3024:33:1156:-68.8197,0,-236.871 0/1:185:136,48:136:4775:48:1696:-97.1711,0,-374.165 0/0:121:121,0:121:4177:0:0:0,-36.4246,-376.119 0/1:203:129,74:129:4542:74:2637:-176.466,0,-347.842 0/1:23:10,13:10:348:13:468:-35.536,0,-24.7314 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:36:28,8:28:991:8:284:-15.0659,0,-78.6664 0/1:198:115,83:115:4051:83:2976:-208.468,0,-305.174 0/1:117:68,49:68:2402:49:1745:-122.108,0,-181.202 0/1:92:63,29:63:2247:29:1044:-66.58,0,-174.798 0/1:69:59,10:59:2079:10:352:-11.2409,0,-166.607 0/1:125:93,31:93:3296:31:1107:-62.3694,0,-259.29 0/1:39:18,21:18:648:21:747:-55.8141,0,-46.9117 0/1:59:26,33:26:888:33:1180:-88.7473,0,-62.4687 1/1:122:1,121:1:27:121:4348:-388.79,-34.0259,0 1/1:26:0,26:0:0:26:928:-83.8383,-7.82678,0 chr02 12464278 . A G 13709.7 PASS AB=0.498298;ABP=3.04725;AC=22;AF=0.52381;AN=42;AO=822;CIGAR=1X;DP=1625;DPB=1625;DPRA=1.2;EPP=1787.96;EPPR=1744.53;GTI=1;LEN=1;MEANALT=1.05;MQM=57.8443;MQMR=59.9988;NS=21;NUMALT=1;ODDS=4.5069;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28758;QR=28508;RO=802;RPL=0;RPP=1787.96;RPPR=1744.53;RPR=822;RUN=1;SAF=0;SAP=1787.96;SAR=822;SRF=0;SRP=1744.53;SRR=802;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:66,90:66:2348:90:3130:-234.659,0,-164.619 0/1:29:20,9:20:716:9:315:-19.9574,0,-56.0378 0/1:66:27,39:27:955:39:1361:-102.58,0,-66.3969 0/1:154:84,70:84:3000:70:2406:-169.853,0,-223.874 0/1:288:142,145:142:4997:145:5133:-375.174,0,-363.167 0/1:41:17,24:17:608:24:830:-62.6726,0,-42.7098 0/1:50:33,17:33:1179:17:596:-38.9163,0,-91.3657 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 0/1:127:78,49:78:2768:49:1663:-111.666,0,-211.129 0/1:5:3,2:3:108:2:72:-5.33073,0,-8.57002 0/1:4:3,1:3:108:1:27:-1.49566,0,-8.87105 0/1:24:9,15:9:324:15:532:-40.9828,0,-22.2811 0/1:129:58,71:58:2065:71:2498:-186.123,0,-147.286 0/1:80:43,37:43:1516:37:1308:-93.8649,0,-112.651 0/1:100:51,49:51:1823:49:1711:-124.13,0,-134.247 0/1:60:31,29:31:1093:29:1010:-73.1358,0,-80.6159 0/1:92:42,50:42:1504:50:1757:-129.285,0,-107.96 0/1:36:22,14:22:784:14:487:-33.3177,0,-60.0468 0/1:28:7,21:7:252:21:739:-58.3681,0,-14.6001 1/1:83:1,82:1:32:82:2903:-258.09,-21.7862,0 1/1:8:0,8:0:0:8:280:-25.5393,-2.40824,0 chr02 12464326 . T C 18111.6 PASS AB=0.511459;ABP=5.05068;AC=22;AF=0.52381;AN=42;AO=1030;CIGAR=1X;DP=1972;DPB=1972;DPRA=1.42164;EPP=2239.63;EPPR=2048.54;GTI=0;LEN=1;MEANALT=1;MQM=57.9951;MQMR=59.9597;NS=21;NUMALT=1;ODDS=5.01474;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36845;QR=33694;RO=942;RPL=1030;RPP=2239.63;RPPR=2048.54;RPR=0;RUN=1;SAF=0;SAP=2239.63;SAR=1030;SRF=0;SRP=2048.54;SRR=942;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:67,94:67:2385:94:3357:-253.256,0,-166.44 0/1:81:41,40:41:1476:40:1432:-104.756,0,-108.753 0/1:67:27,40:27:964:40:1435:-108.691,0,-66.9078 0/1:155:83,72:83:2980:72:2576:-184.821,0,-221.772 0/1:302:143,159:143:5109:159:5678:-419.813,0,-368.934 0/1:143:75,68:75:2681:68:2440:-176.802,0,-198.485 0/1:175:90,85:90:3232:85:3048:-221.841,0,-238.421 0/0:67:67,0:67:2385:0:0:0,-20.169,-214.906 0/1:130:78,52:78:2800:52:1864:-128.772,0,-213.106 0/1:5:3,2:3:108:2:72:-5.33073,0,-8.57002 0/1:8:4,4:4:144:4:140:-10.4997,0,-10.9054 0/1:24:8,16:8:284:16:576:-44.9442,0,-18.6786 0/1:131:57,74:57:2029:74:2656:-199.431,0,-143.445 0/1:83:44,39:44:1557:39:1396:-100.874,0,-115.42 0/1:98:48,50:48:1728:50:1770:-129.809,0,-126.304 0/1:62:33,29:33:1188:29:1036:-74.8757,0,-88.5647 0/1:96:43,53:43:1536:53:1885:-139.997,0,-109.634 0/1:40:23,17:23:824:17:604:-42.6434,0,-62.4421 0/1:28:7,21:7:248:21:752:-59.5369,0,-14.2354 1/1:86:1,85:1:36:85:3052:-270.937,-22.2903,0 1/1:30:0,30:0:0:30:1076:-97.1152,-9.0309,0 chr02 12828706 . TG CG,CA 32108.4 PASS AB=0.4829,0.515048;ABP=6.72349,5.88579;AC=22,20;AF=0.52381,0.47619;AN=42;AO=858,811;CIGAR=1X1M,2X;DP=1672;DPB=1672;DPRA=1.39138,1.05263;EPP=1866.13,1764.07;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.05,2.10526;MQM=52.7995,38.6843;MQMR=0;NS=21;NUMALT=2;ODDS=2.45908;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30625,28831;QR=0;RO=0;RPL=0,0;RPP=1866.13,1764.07;RPPR=0;RPR=858,811;RUN=1,1;SAF=858,811;SAP=1866.13,1764.07;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:103:0,56,47:0:0:56,47:2012,1688:-292.929,-129.044,-112.186,-164.232,0,-150.084 1/2:86:0,48,37:0:0:48,37:1712,1300:-234.101,-95.2383,-80.7889,-138.867,0,-127.729 1/2:59:0,29,30:0:0:29,30:1034,1054:-165.689,-81.907,-73.1771,-84.1273,0,-75.0964 1/2:81:0,52,29:0:0:52,29:1864,1029:-231.973,-80.525,-64.8715,-151.794,0,-143.065 1/2:165:0,57,108:0:0:57,108:2008,3827:-456.648,-294.482,-277.323,-162.511,0,-130 1/2:51:0,20,31:0:0:20,31:716,1101:-139.949,-82.0187,-75.9981,-58.274,0,-48.942 1/2:171:0,82,89:0:0:82,89:2928,3179:-473.322,-236.077,-211.393,-237.587,0,-210.796 2/2:58:0,0,58:0:0:0,58:0,2060:-173.578,-173.578,-173.578,-17.4597,-17.4597,0 1/2:183:0,95,87:0:0:95,87:3412,3107:-522.562,-244.699,-216.101,-277.865,0,-251.675 1/2:9:0,4,5:0:0:4,5:144,180:-23.3338,-11.5756,-10.3715,-12.0841,0,-10.579 1/2:6:0,2,4:0:0:2,4:72,133:-15.2376,-9.3596,-8.75754,-6.21226,0,-5.00814 1/2:14:0,3,11:0:0:3,11:108,396:-36.3551,-27.5505,-26.6474,-9.15289,0,-5.84156 1/2:88:0,39,49:0:0:39,49:1399,1754:-248.893,-135.09,-123.35,-114.152,0,-99.4017 1/2:81:0,31,49:0:0:31,49:1108,1700:-219.218,-129.172,-119.84,-90.0728,0,-75.3224 1/2:110:0,58,52:0:0:58,52:2078,1859:-314.141,-145.236,-127.777,-169.254,0,-153.6 1/2:74:0,30,44:0:0:30,44:1076,1569:-210.766,-123.112,-114.081,-88.0065,0,-74.7612 1/2:52:0,25,27:0:0:25,27:892,972:-148.038,-75.5566,-68.0308,-72.8309,0,-64.7031 1/2:69:0,40,29:0:0:40,29:1432,1027:-195.099,-78.6994,-66.6582,-116.743,0,-108.013 1/2:60:0,35,25:0:0:35,25:1252,896:-170.95,-69.0745,-58.5384,-102.222,0,-94.696 1/1:100:0,100,0:0:0:100,0:3535,0:-315.43,-30.103,0,-315.43,-30.103,-315.43 1/1:52:0,52,0:0:0:52,0:1843,0:-164.236,-15.6536,0,-164.236,-15.6536,-164.236 chr02 12828720 . A C 12490 PASS AB=0.510163;ABP=4.33437;AC=20;AF=0.47619;AN=42;AO=812;CIGAR=1X;DP=1688;DPB=1688;DPRA=1.05607;EPP=1766.25;EPPR=1903.05;GTI=0;LEN=1;MEANALT=1.05263;MQM=38.7131;MQMR=52.8046;NS=21;NUMALT=1;ODDS=3.1744;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28927;QR=31222;RO=875;RPL=0;RPP=1766.25;RPPR=1903.05;RPR=812;RUN=1;SAF=812;SAP=1766.25;SAR=0;SRF=875;SRP=1903.05;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:56,47:56:1974:47:1676:-111.311,0,-146.666 0/1:84:48,36:48:1724:36:1288:-79.0704,0,-129.397 0/1:63:33,30:33:1180:30:1068:-73.0798,0,-86.9192 0/1:81:50,30:50:1777:30:1072:-68.5944,0,-134.801 0/1:171:62,109:62:2216:109:3880:-280.151,0,-144.935 0/1:55:21,34:21:733:34:1208:-83.708,0,-49.2733 0/1:172:80,92:80:2864:92:3304:-221.697,0,-204.839 1/1:59:0,59:0:0:59:2089:-176.943,-17.7608,0 0/1:185:97,88:97:3484:88:3152:-218.483,0,-257.592 0/1:9:5,4:5:180:4:144:-9.05812,0,-11.8841 0/1:6:2,4:2:72:4:133:-9.23142,0,-5.00814 0/1:14:3,11:3:108:11:396:-26.6474,0,-5.84156 0/1:90:42,48:42:1497:48:1690:-119.078,0,-105.151 0/1:77:31,46:31:1116:46:1634:-115.495,0,-77.26 0/1:109:56,53:56:2008:53:1896:-130.377,0,-147.023 0/1:75:30,45:30:1061:45:1603:-116.81,0,-73.1081 0/1:53:28,25:28:1000:25:887:-61.6222,0,-72.7487 0/1:67:39,28:39:1400:28:999:-64.4657,0,-105.809 0/1:62:39,23:39:1404:23:808:-50.7739,0,-107.738 0/0:100:100,0:100:3516:0:0:0,-30.103,-313.387 0/0:53:53,0:53:1908:0:0:0,-15.9546,-168.778 chr02 12828743 . TGGAAAAC TGAAAAT,TGGAAAT 79188.8 PASS AB=0.449526,0.543022;ABP=68.334,50.4679;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1595,1806;CIGAR=1M1D5M1X,3M1D3M1X;DP=3427;DPB=2998.5;DPRA=0.798267,0.963905;EPP=3466.51,3924.69;EPPR=0;GTI=1;LEN=7,7;MEANALT=3.1,3.15;MQM=42.8589,36.2176;MQMR=0;NS=21;NUMALT=2;ODDS=4.30221;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53766,63830;QR=0;RO=0;RPL=775,826;RPP=5.76718,31.5256;RPPR=0;RPR=820,980;RUN=1,1;SAF=775,826;SAP=5.76718,31.5256;SAR=820,980;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:269:0,143,121:0:0:143,121:4745,4280:-678.117,-318.623,-275.576,-359.581,0,-323.156 1/2:202:0,91,110:0:0:91,110:3066,3884:-512.123,-275.543,-248.15,-236.659,0,-203.545 1/2:139:0,53,84:0:0:53,84:1818,2979:-360.608,-219.466,-203.511,-141.206,0,-115.919 1/2:181:0,100,80:0:0:100,80:3338,2827:-465.571,-209.528,-179.425,-256.124,0,-232.042 1/2:248:0,87,160:0:0:87,160:2950,5660:-659.631,-428.967,-402.777,-230.669,0,-182.504 1/2:112:0,42,67:0:0:42,67:1380,2367:-275.469,-171.095,-158.452,-104.406,0,-84.2372 1/2:276:0,123,150:0:0:123,150:4151,5312:-709.597,-386.608,-349.581,-323.035,0,-277.88 2/2:202:0,0,200:0:0:0,200:0,7015:-558.436,-558.436,-558.436,-60.206,-60.206,0 1/2:284:0,131,152:0:0:131,152:4580,5391:-778.913,-415.141,-375.706,-363.757,0,-318 1/2:18:0,7,11:0:0:7,11:229,395:-44.3327,-26.6196,-24.5124,-18.0217,0,-14.7103 1/2:8:0,3,5:0:0:3,5:105,177:-20.7967,-12.5322,-11.6291,-8.59082,0,-7.08567 1/2:32:0,11,21:0:0:11,21:361,732:-78.7082,-51.6753,-48.364,-27.3389,0,-21.0173 1/2:133:0,57,76:0:0:57,76:1951,2698:-355.241,-202.775,-185.616,-152.796,0,-129.918 1/2:185:0,72,112:0:0:72,112:2429,3929:-478.605,-292.209,-270.535,-186.494,0,-152.778 1/2:292:0,127,163:0:0:127,163:4176,5784:-746.381,-427.873,-389.642,-318.609,0,-269.541 1/2:146:0,61,85:0:0:61,85:2093,3007:-393.606,-231.775,-213.413,-162.162,0,-136.575 1/2:129:0,61,67:0:0:61,67:2111,2387:-344.363,-182.792,-164.429,-161.691,0,-141.522 1/2:180:0,88,91:0:0:88,91:2905,3210:-451.671,-230.867,-204.376,-220.827,0,-193.433 1/2:118:0,70,48:0:0:70,48:2403,1693:-313.45,-127.62,-106.548,-186.158,0,-171.708 1/1:169:0,167,0:0:0:167,0:5592,0:-479.985,-50.272,0,-479.985,-50.272,-479.985 1/1:104:0,101,3:0:0:101,3:3383,103:-290.821,-30.404,0,-284.213,-23.516,-283.31 chr02 12834964 . G A 6638.08 PASS AB=0.484405;ABP=7.4805;AC=20;AF=0.47619;AN=42;AO=1163;CIGAR=1X;DP=2392;DPB=2392;DPRA=1.7193;EPP=2528.43;EPPR=2671.75;GTI=0;LEN=1;MEANALT=1;MQM=23.0275;MQMR=37.4955;NS=21;NUMALT=1;ODDS=0.664651;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41442;QR=43491;RO=1229;RPL=1163;RPP=2528.43;RPPR=2671.75;RPR=0;RUN=1;SAF=1163;SAP=2528.43;SAR=0;SRF=1229;SRP=2671.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:68,46:68:2424:46:1652:-63.807,0,-171.362 0/1:80:47,33:47:1647:33:1180:-32.348,0,-106.958 0/1:181:97,84:97:3446:84:2961:-122.878,0,-240.321 0/1:151:84,67:84:2955:67:2388:-97.27,0,-205.794 0/1:277:145,132:145:5142:132:4697:-195.987,0,-356.123 0/1:136:73,63:73:2576:63:2248:-66.5305,0,-164.554 0/1:179:89,90:89:3141:90:3223:-100.493,0,-197.312 1/1:138:0,138:0:0:138:4906:-267.115,-41.5421,0 0/1:187:92,95:92:3258:95:3380:-158.742,0,-226.564 0/1:27:9,18:9:316:18:644:-27.1715,0,-17.7964 0/1:7:4,3:4:144:3:108:-3.18907,0,-9.687 0/1:24:11,13:11:392:13:464:-18.5144,0,-24.9382 0/1:166:80,86:80:2831:86:3056:-133.065,0,-193.148 0/1:125:73,52:73:2572:52:1837:-71.5548,0,-182.608 0/1:122:58,64:58:2088:64:2296:-98.0581,0,-139.68 0/1:99:50,49:50:1788:49:1747:-83.0008,0,-125.395 0/1:119:44,75:44:1532:75:2688:-135.357,0,-97.3876 0/1:74:34,40:34:1204:40:1427:-55.5618,0,-79.1091 0/1:48:33,15:33:1155:15:540:-17.8306,0,-85.0675 0/0:74:74,0:74:2616:0:0:0,-22.2762,-216.326 0/0:64:64,0:64:2264:0:0:0,-19.2659,-180.286 chr02 12920016 . G A 28154.7 PASS AB=0.393021;ABP=327.768;AC=22;AF=0.52381;AN=42;AO=1489;CIGAR=1X;DP=3659;DPB=3659;DPRA=0.938919;EPP=3236.33;EPPR=4715.11;GTI=2;LEN=1;MEANALT=1;MQM=59.7616;MQMR=59.9083;NS=21;NUMALT=1;ODDS=6.71797;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53359;QR=77495;RO=2170;RPL=1343;RPP=2092.54;RPPR=91.8746;RPR=146;RUN=1;SAF=1343;SAP=2092.54;SAR=146;SRF=1234;SRP=91.8746;SRR=936;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:219:161,58:161:5754:58:2065:-120.194,0,-452.049 0/1:250:162,88:162:5798:88:3121:-205.858,0,-446.394 0/1:78:57,21:57:2052:21:756:-44.8869,0,-161.471 0/1:299:149,150:149:5329:150:5373:-393.687,0,-389.734 0/1:419:243,176:243:8673:176:6300:-440.959,0,-654.426 0/1:174:107,67:107:3827:67:2412:-164.957,0,-292.222 0/1:224:128,96:128:4570:96:3452:-243.461,0,-343.971 0/0:185:185,0:185:6611:0:0:0,-55.6905,-595.044 0/1:310:156,154:156:5582:154:5540:-405.211,0,-409.18 0/1:37:28,9:28:1000:9:324:-18.3677,0,-79.1773 0/1:29:20,9:20:712:9:324:-20.776,0,-55.6686 0/1:53:42,11:42:1491:11:396:-20.0282,0,-118.529 0/1:184:109,75:109:3908:75:2688:-186.775,0,-296.519 0/1:143:89,54:89:3139:54:1940:-131.829,0,-239.682 0/1:255:189,66:189:6745:66:2364:-136.256,0,-530.355 0/1:187:90,97:90:3227:97:3456:-254.928,0,-234.356 0/1:200:111,89:111:3936:89:3200:-227.936,0,-294.227 0/1:118:98,20:98:3493:20:716:-29.2462,0,-279.049 0/1:88:44,44:44:1576:44:1580:-116.001,0,-115.641 1/1:152:2,150:2:72:150:5376:-477.134,-38.9198,0 1/1:55:0,55:0:0:55:1976:-178.115,-16.5567,0 chr02 13235293 . C G 16704.8 PASS AB=0.416336;ABP=140.72;AC=20;AF=0.47619;AN=42;AO=1031;CIGAR=1X;DP=2535;DPB=2535;DPRA=1.78696;EPP=2241.8;EPPR=3268.9;GTI=1;LEN=1;MEANALT=1;MQM=59.8468;MQMR=59.9315;NS=21;NUMALT=1;ODDS=1.47744;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36844;QR=53897;RO=1504;RPL=3;RPP=2215.82;RPPR=3268.9;RPR=1028;RUN=1;SAF=1028;SAP=2215.82;SAR=3;SRF=1504;SRP=3268.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:139:73,66:73:2616:66:2364:-171.155,0,-193.838 0/1:127:64,63:64:2304:63:2253:-164.8,0,-169.39 0/1:85:56,29:56:2008:29:1044:-68.6873,0,-155.395 0/1:130:80,50:80:2868:50:1788:-122.069,0,-219.223 0/1:203:100,103:100:3563:103:3664:-268.823,0,-259.767 0/1:139:85,54:85:3052:54:1944:-133.393,0,-233.066 0/1:238:127,111:127:4556:111:3961:-285.035,0,-338.473 1/1:84:0,84:0:0:84:3005:-270.679,-25.2865,0 0/1:219:126,93:126:4490:93:3317:-232.814,0,-338.329 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:41:27,14:27:968:14:504:-33.3559,0,-75.0896 0/1:90:41,49:41:1472:49:1741:-129.86,0,-105.683 0/1:148:99,49:99:3556:49:1760:-113.923,0,-275.695 0/1:254:148,106:148:5308:106:3785:-264.38,0,-401.392 0/1:129:86,43:86:3084:43:1525:-98.6817,0,-238.955 0/1:150:124,26:124:4456:26:932:-39.0444,0,-356.054 0/1:81:35,46:35:1244:46:1656:-124.945,0,-87.8812 0/1:77:47,30:47:1684:30:1061:-72.6139,0,-128.662 0/0:117:113,4:113:4056:4:144:0,-21.9069,-351.913 0/0:69:69,0:69:2468:0:0:0,-20.7711,-222.302 chr02 13235332 . CAGA TAGC,CAGC 49931.4 PASS AB=0.585903,0.405727;ABP=148.509,178.243;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1513,1006;CIGAR=1X2M1X,3M1X;DP=2540;DPB=2547.25;DPRA=1.5179,1.71389;EPP=3288.45,2170.17;EPPR=7.35324;GTI=1;LEN=4,1;MEANALT=2.9,2.9;MQM=59.9313,59.9046;MQMR=60;NS=21;NUMALT=2;ODDS=7.91099;PAIRED=0,0;PAIREDR=0;PAO=15,14;PQA=490.5,454.5;PQR=0;PRO=0;QA=53126,35698;QR=72;RO=2;RPL=1513,1004;RPP=3288.45,2170.17;RPPR=7.35324;RPR=0,2;RUN=1,1;SAF=1513,1006;SAP=3288.45,2187.51;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:141:0,73,64:0:0:73,64:2533,2282:-391.899,-186.006,-164.03,-205.884,0,-186.618 1/2:128:0,67,61:0:0:67,61:2361,2179:-370.237,-178.013,-157.844,-192.579,0,-174.216 1/2:85:0,55,28:0:0:55,28:1942,991:-238.904,-80.7618,-64.2051,-158.183,0,-149.754 1/2:133:1,80,50:1:36:80,50:2820,1775:-370.944,-141.643,-120.498,-226.619,0,-214.505 1/2:198:0,99,98:0:0:99,98:3447,3451:-560.933,-280.642,-250.84,-279.985,0,-250.484 1/2:137:0,84,53:0:0:84,53:3007,1882:-398.922,-153.703,-128.416,-245.575,0,-229.621 1/2:239:0,128,108:0:0:128,108:4442,3839:-673.911,-312.857,-274.325,-361.065,0,-328.554 2/2:81:0,0,81:0:0:0,81:0,2864:-257.991,-257.991,-257.991,-24.3834,-24.3834,0 1/2:220:0,128,91:0:0:128,91:4490,3206:-626.121,-260.743,-222.211,-365.103,0,-337.709 1/2:8:0,1,7:0:0:1,7:35,252:-23.7682,-20.9217,-20.6207,-3.1976,0,-1.09039 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/2:40:0,26,14:0:0:26,14:916,504:-115.691,-41.1238,-33.2971,-74.5648,0,-70.3504 1/2:93:0,41,50:0:0:41,50:1447,1779:-262.788,-144.96,-132.618,-117.804,0,-102.752 1/2:146:0,98,46:0:0:98,46:3447,1626:-412.93,-132.339,-102.838,-280.575,0,-266.728 1/2:254:0,151,102:0:0:151,102:5293,3636:-727.023,-296.32,-250.865,-430.638,0,-399.933 1/2:130:0,86,44:0:0:86,44:3025,1571:-374.537,-128.3,-102.412,-246.474,0,-233.229 1/2:152:0,126,26:0:0:126,26:4429,909:-434.683,-74.1806,-36.2509,-360.737,0,-352.91 1/2:82:0,36,46:0:0:36,46:1264,1633:-236.282,-133.41,-122.573,-103.224,0,-89.3766 1/2:78:0,48,30:0:0:48,30:1687,1067:-224.501,-87.1932,-72.7438,-137.547,0,-128.516 1/1:117:0,112,4:0:0:112,4:3964,144:-356.595,-33.7154,0,-344.845,-21.9657,-343.641 1/1:72:1,71,0:1:36:71,0:2469,0:-218.844,-18.0759,0,-219.145,-21.3731,-222.083 chr02 13235377 . G A 20414.3 PASS AB=0.517727;ABP=8.6304;AC=22;AF=0.52381;AN=42;AO=1158;CIGAR=1X;DP=2282;DPB=2282;DPRA=0;EPP=2491.59;EPPR=2415.59;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9344;MQMR=59.9181;NS=21;NUMALT=1;ODDS=7.81258;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41385;QR=40037;RO=1123;RPL=1155;RPP=2491.59;RPPR=2432.9;RPR=3;RUN=1;SAF=0;SAP=2517.58;SAR=1158;SRF=2;SRP=2424.23;SRR=1121;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:169:103,66:103:3637:66:2372:-162.863,0,-276.552 0/1:144:71,72:71:2531:72:2555:-186.946,0,-184.792 0/1:99:52,47:52:1868:47:1667:-120.514,0,-138.597 0/1:127:64,63:64:2282:63:2248:-164.339,0,-167.41 0/1:186:99,87:99:3531:87:3084:-221.788,0,-262.008 0/1:99:30,69:30:1072:69:2464:-192.213,0,-66.9905 0/1:133:57,76:57:2048:76:2718:-204.825,0,-144.365 0/0:131:130,1:130:4644:1:36:0,-35.8367,-414.525 0/1:270:101,169:101:3591:169:6047:-463.054,0,-241.63 0/1:19:10,9:10:356:9:324:-23.7863,0,-26.6617 0/1:19:4,15:4:135:15:540:-43.217,0,-6.76294 0/1:46:24,22:24:860:22:784:-57.0365,0,-63.8745 0/1:115:59,56:59:2108:56:1999:-145.556,0,-155.371 0/1:116:64,52:64:2275:52:1864:-133.12,0,-170.092 0/1:144:77,67:77:2752:67:2403:-173.169,0,-204.574 0/1:128:64,64:64:2276:64:2304:-169.089,0,-166.568 0/1:95:51,44:51:1811:44:1569:-112.887,0,-134.673 0/1:80:30,50:30:1076:50:1784:-136.76,0,-73.0705 0/1:70:32,38:32:1148:38:1364:-101.986,0,-82.5577 1/1:36:1,35:1:36:35:1260:-110.107,-7.23881,0 1/1:56:0,56:0:0:56:1999:-180.183,-16.8577,0 chr02 13237145 . GTTGTG ATCGTT,GTCGTT 30249.1 PASS AB=0.519417,0.477115;ABP=7.73273,9.56989;AC=22,20;AF=0.52381,0.47619;AN=42;AO=933,759;CIGAR=1X1M1X2M1X,2M1X2M1X;DP=1701;DPB=1701;DPRA=1.14789,0.847144;EPP=2020.32,1633.83;EPPR=5.18177;GTI=0;LEN=6,6;MEANALT=2.25,2.15789;MQM=34.6034,47.6034;MQMR=60;NS=21;NUMALT=2;ODDS=1.38658;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32272,26574;QR=33;RO=1;RPL=932,757;RPP=2020.32,1633.83;RPPR=5.18177;RPR=1,2;RUN=1,1;SAF=0,0;SAP=2028.99,1651.16;SAR=933,759;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:39:0,16,23:0:0:16,23:548,806:-104.968,-65.1157,-60.2992,-40.1772,0,-33.2535 1/2:38:0,19,19:0:0:19,19:646,656:-100.222,-52.7487,-47.0292,-47.7988,0,-42.0792 1/2:117:0,72,44:0:0:72,44:2492,1537:-305.293,-122.878,-101.203,-182.521,0,-169.276 1/2:119:0,56,63:0:0:56,63:1966,2196:-320.164,-177.73,-160.872,-142.765,0,-123.8 1/2:119:0,67,52:0:0:67,52:2321,1835:-317.185,-148.006,-127.837,-169.513,0,-153.859 1/2:54:0,27,27:0:0:27,27:929,925:-143.74,-74.9269,-66.7991,-69.1414,0,-61.0136 1/2:69:0,36,33:0:0:36,33:1265,1152:-186.59,-92.5262,-81.6891,-94.3983,0,-84.4643 2/2:71:0,0,71:0:0:0,71:0,2510:-224.068,-224.068,-224.068,-21.3731,-21.3731,0 1/2:141:0,68,72:0:0:68,72:2351,2541:-371.152,-204.958,-184.488,-166.283,0,-144.608 1/2:11:0,4,7:0:0:4,7:140,243:-30.283,-20.0108,-18.8067,-10.6009,0,-8.49364 1/2:5:0,1,4:0:0:1,4:31,136:-13.6472,-11.2733,-10.9723,-2.67972,0,-1.4756 1/2:22:0,15,6:0:0:15,6:525,216:-55.8539,-17.5192,-13.0037,-38.3245,0,-36.5183 1/2:215:0,109,105:0:0:109,105:3743,3657:-567.707,-294.562,-261.75,-273.164,0,-241.556 1/2:94:0,58,36:0:0:58,36:1998,1259:-248.948,-101.754,-84.2939,-147.529,0,-136.692 1/2:109:0,46,63:0:0:46,63:1624,2194:-293.658,-177.273,-163.425,-116.713,0,-97.7484 1/2:11:0,8,3:0:0:8,3:271,108:-28.5771,-9.08398,-6.67574,-19.8357,0,-18.9326 1/2:9:0,2,7:0:0:2,7:71,251:-25.4808,-20.3902,-19.7881,-5.41505,0,-3.30784 1/2:146:0,62,84:0:0:62,84:2167,2975:-397.508,-240.093,-221.429,-157.745,0,-132.458 1/2:124:1,83,40:1:33:83,40:2830,1377:-314.887,-108.267,-85.9497,-204.254,0,-194.881 1/1:110:0,109,0:0:0:109,0:3786,0:-307.998,-32.8123,0,-307.998,-32.8123,-307.998 1/1:78:0,75,0:0:0:75,0:2568,0:-212.524,-22.5773,0,-212.524,-22.5773,-212.524 chr02 13411485 . T C 17428.3 PASS AB=0.575;ABP=89.0006;AC=22;AF=0.52381;AN=42;AO=1173;CIGAR=1X;DP=1985;DPB=1985;DPRA=1.5254;EPP=2550.15;EPPR=1766.25;GTI=1;LEN=1;MEANALT=1;MQM=34.4868;MQMR=47.5591;NS=21;NUMALT=1;ODDS=1.3606;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41929;QR=29090;RO=812;RPL=0;RPP=2550.15;RPPR=1766.25;RPR=1173;RUN=1;SAF=1173;SAP=2550.15;SAR=0;SRF=812;SRP=1766.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:49,67:49:1749:67:2394:-157.479,0,-120.419 0/1:71:39,32:39:1404:32:1148:-73.0024,0,-104.589 0/1:149:77,72:77:2760:72:2546:-157.418,0,-201.662 0/1:105:49,56:49:1752:56:1985:-127.659,0,-125.029 0/1:154:89,65:89:3196:65:2324:-139.644,0,-238.386 0/1:91:51,40:51:1827:40:1429:-88.9893,0,-136.264 0/1:145:50,95:50:1777:95:3375:-234.136,0,-115.035 0/0:63:63,0:63:2245:0:0:0,-18.9649,-200.425 0/1:166:47,119:47:1680:119:4268:-289.218,0,-98.7564 0/1:7:4,3:4:144:3:108:-7.14765,0,-11.1145 0/1:4:3,1:3:108:1:36:-2.04204,0,-8.84332 0/1:22:9,13:9:324:13:459:-30.4114,0,-22.6987 0/1:103:42,61:42:1512:61:2192:-144.371,0,-103.876 0/1:83:26,57:26:932:57:2040:-137.491,0,-58.4803 0/1:221:88,133:88:3164:133:4755:-313.43,0,-216.079 0/1:91:33,58:33:1184:58:2078:-138.3,0,-78.2435 0/1:91:40,51:40:1432:51:1832:-118.509,0,-100.363 0/1:82:41,41:41:1476:41:1472:-94.8768,0,-106.947 0/1:59:11,48:11:392:48:1712:-120.136,0,-17.582 1/1:111:1,110:1:32:110:3944:-318.162,-30.2313,0 1/1:51:0,51:0:0:51:1832:-150.351,-15.3525,0 chr02 13598868 . C A 10016.3 PASS AB=0.332078;ABP=328.267;AC=17;AF=0.404762;AN=42;AO=536;CIGAR=1X;DP=2330;DPB=2330;DPRA=3.61085;EPP=26.4103;EPPR=777.672;GTI=1;LEN=1;MEANALT=1;MQM=49.2631;MQMR=59.311;NS=21;NUMALT=1;ODDS=2.5429;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19186;QR=64295;RO=1794;RPL=306;RPP=26.4103;RPPR=777.672;RPR=230;RUN=1;SAF=536;SAP=1166.92;SAR=0;SRF=1794;SRP=3898.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:58,43:58:2080:43:1548:-108.637,0,-157.011 0/1:42:22,20:22:788:20:720:-52.2397,0,-58.6015 0/1:53:28,25:28:1008:25:900:-63.9497,0,-75.0676 0/1:27:15,12:15:536:12:428:-30.5646,0,-40.4235 0/1:94:64,30:64:2296:30:1080:-68.4912,0,-178.502 0/1:92:51,41:51:1836:41:1461:-103.578,0,-137.817 0/1:92:52,40:52:1868:40:1436:-101.658,0,-140.612 1/1:75:0,75:0:0:75:2700:-241.012,-22.5773,0 0/1:81:48,33:48:1728:33:1158:-79.0147,0,-130.966 0/0:461:455,6:455:16289:6:216:0,-119.421,-1445.37 0/0:26:24,2:24:860:2:72:0,-0.999752,-70.8902 0/0:374:362,12:362:12967:12:432:0,-73.6169,-1127.52 0/1:63:45,18:45:1608:18:648:-39.448,0,-126.045 0/1:51:29,22:29:1036:22:777:-54.6082,0,-78.2014 0/1:85:37,48:37:1332:48:1705:-127.004,0,-94.5673 0/1:41:23,18:23:813:18:648:-45.7968,0,-61.09 0/1:77:31,46:31:1116:46:1637:-122.429,0,-77.4303 0/1:408:366,42:366:13118:42:1512:-12.0223,0,-1056.83 0/1:21:18,3:18:644:3:108:-3.44582,0,-51.9552 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.851 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 chr02 13599010 . TAAAATG TAAATG 12251.7 PASS AB=0.500385;ABP=3.01197;AC=20;AF=0.47619;AN=42;AO=701;CIGAR=1M1D5M;DP=1453;DPB=1352.71;DPRA=2.15152;EPP=1431.17;EPPR=351.482;GTI=0;LEN=1;MEANALT=1.2;MQM=55.214;MQMR=58.9853;NS=21;NUMALT=1;ODDS=5.09561;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24886;QR=26165;RO=746;RPL=690;RPP=1431.17;RPPR=351.482;RPR=11;RUN=1;SAF=0;SAP=1525.21;SAR=701;SRF=0;SRP=1622.93;SRR=746;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:62,65:62:2167:65:2309:-169.537,0,-156.967 0/1:64:33,31:33:1148:31:1108:-80.5644,0,-84.2371 0/1:48:28,20:28:995:20:712:-49.9274,0,-75.3971 0/1:122:58,63:58:2043:63:2247:-165.542,0,-146.972 0/1:149:80,67:80:2819:67:2376:-168.969,0,-209.34 0/1:140:67,73:67:2340:73:2593:-190.167,0,-168.593 0/1:108:40,68:40:1414:68:2408:-183.85,0,-94.8993 1/1:49:0,49:0:0:49:1713:-154.01,-14.7505,0 0/1:128:68,60:68:2389:60:2114:-151.958,0,-176.691 0/1:7:3,4:3:104:4:144:-11.1927,0,-7.5956 0/1:5:3,2:3:106:2:72:-5.15912,0,-8.38401 0/1:41:24,17:24:851:17:612:-42.9861,0,-64.5666 0/1:70:29,41:29:1027:41:1459:-110.015,0,-71.6713 0/1:27:10,17:10:351:17:599:-46.0635,0,-23.7727 0/1:96:50,46:50:1747:46:1629:-117.552,0,-128.226 0/1:53:25,25:25:891:25:900:-65.9008,0,-65.0991 0/1:50:23,27:23:813:27:955:-71.0524,0,-58.4294 0/1:34:17,17:17:576:17:612:-45.1052,0,-41.9228 0/1:30:23,7:23:805:7:252:-13.8812,0,-63.6273 0/0:72:70,2:70:2436:2:72:0,-14.8475,-211.937 0/0:33:33,0:33:1143:0:0:0,-9.93399,-102.526 chr02 13599024 . ATAAAAGT GTAAAGT,ATAAAGT 28419.8 PASS AB=0.49652,0.501933;ABP=3.14633,3.05229;AC=22,20;AF=0.52381,0.47619;AN=42;AO=744,697;CIGAR=1X1M1D5M,2M1D5M;DP=1444;DPB=1263.5;DPRA=1.48617,2.13788;EPP=1618.59,1516.53;EPPR=0;GTI=0;LEN=7,1;MEANALT=2.05,2.1;MQM=58.9462,55.3156;MQMR=0;NS=21;NUMALT=2;ODDS=4.91901;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26173,24645;QR=0;RO=0;RPL=744,697;RPP=1618.59,1516.53;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1618.59,1516.53;SAR=744,697;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,61,64:0:0:61,64:2123,2277:-357.854,-185.274,-166.911,-172.579,0,-153.313 1/2:67:0,33,34:0:0:33,34:1144,1220:-192.539,-99.6489,-89.7149,-93.2418,0,-83.0068 1/2:47:0,28,19:0:0:28,19:971,676:-134.322,-55.4215,-46.9927,-79.2519,0,-73.5324 1/2:122:0,59,63:0:0:59,63:2079,2207:-348.569,-179.656,-161.896,-169.264,0,-150.299 1/2:148:0,81,67:0:0:81,67:2876,2364:-426.474,-192.156,-167.773,-234.671,0,-214.502 1/2:134:0,65,69:0:0:65,69:2243,2374:-374.244,-192.155,-172.588,-182.433,0,-161.662 1/2:107:0,40,67:0:0:40,67:1423,2381:-309.538,-193.712,-181.671,-116.18,0,-96.0114 2/2:47:0,0,46:0:0:0,46:0,1637:-147.108,-147.108,-147.108,-13.8474,-13.8474,0 1/2:128:0,68,60:0:0:68,60:2403,2120:-368.542,-172.876,-152.406,-196.019,0,-177.957 1/2:6:0,3,3:0:0:3,3:106,108:-17.7914,-9.1617,-8.25861,-8.98601,0,-8.08292 1/2:5:0,3,2:0:0:3,2:108,72:-14.8799,-6.06221,-5.15912,-9.17208,0,-8.57002 1/2:42:0,24,18:0:0:24,18:851,639:-121.663,-52.3342,-45.1095,-69.6835,0,-64.265 1/2:71:0,29,41:0:0:29,41:1023,1449:-201.233,-117.934,-109.205,-83.3687,0,-71.0264 1/2:27:0,10,17:0:0:10,17:353,592:-77.158,-48.4461,-45.4358,-29.0626,0,-23.9451 1/2:94:0,47,47:0:0:47,47:1637,1676:-269.425,-136.639,-122.49,-133.138,0,-118.989 1/2:54:0,29,25:0:0:29,25:1036,896:-157.865,-73.4249,-64.6951,-84.7978,0,-77.272 1/2:49:0,22,27:0:0:22,27:778,953:-141.149,-77.7924,-71.1697,-63.709,0,-55.5812 1/2:35:0,17,18:0:0:17,18:602,644:-101.834,-52.7975,-47.68,-49.3919,0,-43.9734 1/2:31:0,23,8:0:0:23,8:819,288:-90.2175,-23.741,-16.8173,-66.8338,0,-64.4256 1/1:71:0,69,2:0:0:69,2:2441,72:-219.195,-20.7711,0,-213.329,-14.5464,-212.727 1/1:33:0,33,0:0:0:33,0:1157,0:-104.224,-9.93399,0,-104.224,-9.93399,-104.224 chr02 13644897 . G T 18630.8 PASS AB=0.534624;ABP=20.7542;AC=22;AF=0.52381;AN=42;AO=1036;CIGAR=1X;DP=1885;DPB=1885;DPRA=1.66364;EPP=2243.98;EPPR=1837.91;GTI=0;LEN=1;MEANALT=1;MQM=59.9952;MQMR=59.9776;NS=21;NUMALT=1;ODDS=2.24997;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37090;QR=30298;RO=849;RPL=1;RPP=2243.98;RPPR=1837.91;RPR=1035;RUN=1;SAF=0;SAP=2252.66;SAR=1036;SRF=0;SRP=1846.59;SRR=849;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:66,71:66:2360:71:2544:-187.97,0,-171.418 0/1:56:36,20:36:1254:20:690:-45.56,0,-96.3029 0/1:109:38,71:38:1368:71:2548:-196.758,0,-90.6086 0/1:118:55,63:55:1964:63:2260:-168.141,0,-141.514 0/1:217:83,134:83:2964:134:4789:-365.842,0,-201.67 0/1:70:28,42:28:1000:42:1504:-114.582,0,-69.2433 0/1:116:61,55:61:2171:55:1976:-143.195,0,-160.737 0/0:55:55,0:55:1947:0:0:0,-16.5566,-175.505 0/1:117:63,54:63:2242:54:1936:-139.296,0,-166.822 0/1:10:3,7:3:108:7:248:-19.6539,0,-7.06487 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/1:23:9,14:9:324:14:504:-38.7744,0,-22.5822 0/1:156:82,74:82:2943:74:2641:-190.975,0,-218.142 0/1:115:60,55:60:2143:55:1980:-143.856,0,-158.413 0/1:113:59,54:59:2116:54:1940:-140.86,0,-156.692 0/1:78:26,52:26:932:52:1868:-144.919,0,-60.7185 0/1:99:49,50:49:1747:50:1796:-132.12,0,-127.712 0/1:103:44,59:44:1563:59:2112:-159.342,0,-109.955 0/1:56:22,34:22:792:34:1224:-93.6094,0,-54.748 1/1:78:0,78:0:0:78:2785:-250.89,-23.4803,0 1/1:48:1,47:1:36:47:1673:-147.257,-10.8512,0 chr02 13644905 . T C 14155.4 PASS AB=0.466077;ABP=19.9529;AC=20;AF=0.47619;AN=42;AO=846;CIGAR=1X;DP=1873;DPB=1873;DPRA=1.16623;EPP=1805.5;EPPR=2164.17;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9825;NS=21;NUMALT=1;ODDS=2.45973;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30036;QR=36868;RO=1027;RPL=842;RPP=1805.5;RPPR=2164.17;RPR=4;RUN=1;SAF=0;SAP=1840.08;SAR=846;SRF=0;SRP=2233.11;SRR=1027;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:71,65:71:2544:65:2322:-168.3,0,-188.271 0/1:57:20,37:20:720:37:1302:-100.321,0,-47.9701 0/1:107:69,38:69:2484:38:1356:-90.1303,0,-191.602 0/1:115:60,55:60:2152:55:1963:-142.326,0,-159.329 0/1:214:134,80:134:4796:80:2818:-189.438,0,-367.376 0/1:71:41,30:41:1476:30:1050:-73.4357,0,-111.763 0/1:115:55,60:55:1960:60:2144:-158.609,0,-142.057 1/1:54:0,54:0:0:54:1911:-172.267,-16.2556,0 0/1:116:53,63:53:1904:63:2247:-167.574,0,-136.718 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/1:11:2,9:2:72:9:320:-25.831,0,-3.52539 0/1:23:14,9:14:504:9:324:-22.5822,0,-38.7744 0/1:156:75,81:75:2696:81:2863:-210.946,0,-195.922 0/1:115:55,60:55:1976:60:2138:-158.068,0,-143.496 0/1:113:54,59:54:1940:59:2086:-153.993,0,-140.86 0/1:79:51,28:51:1824:28:985:-65.1802,0,-140.66 0/1:100:50,50:50:1800:50:1767:-129.209,0,-132.151 0/1:100:59,41:59:2120:41:1472:-102.673,0,-160.965 0/1:57:35,22:35:1260:22:792:-54.447,0,-96.5468 0/0:77:77,0:77:2768:0:0:0,-23.1793,-249.361 0/0:47:45,2:45:1620:2:68:0,-7.6907,-139.632 chr02 13644950 . G A 6141.26 PASS AB=0.501592;ABP=3.02413;AC=20;AF=0.47619;AN=42;AO=369;CIGAR=1X;DP=731;DPB=731;DPRA=2.1;EPP=804.284;EPPR=789.083;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9972;NS=21;NUMALT=1;ODDS=0.407107;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12966;QR=12947;RO=362;RPL=0;RPP=804.284;RPPR=789.083;RPR=369;RUN=1;SAF=369;SAP=804.284;SAR=0;SRF=362;SRP=789.083;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:13,25:13:464:25:877:-67.8061,0,-30.6584 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 0/1:36:20,16:20:720:16:542:-38.2606,0,-54.2917 0/1:19:10,9:10:356:9:312:-22.6958,0,-26.6617 0/1:95:39,56:39:1400:56:1958:-147.893,0,-97.7013 0/1:12:6,6:6:216:6:197:-14.439,0,-16.1782 0/1:80:41,39:41:1476:39:1389:-101.225,0,-109.054 1/1:53:0,53:0:0:53:1874:-168.935,-15.9546,0 0/1:65:31,34:31:1112:34:1182:-87.1136,0,-80.8244 0/1:11:9,2:9:324:2:68:-3.14638,0,-26.1945 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:13:5,8:5:180:8:288:-22.354,0,-12.6387 0/1:23:13,10:13:468:10:360:-25.8206,0,-35.536 0/1:39:25,14:25:885:14:489:-32.5987,0,-68.2264 0/1:63:31,32:31:1097:32:1124:-82.5003,0,-80.0727 0/1:16:9,7:9:324:7:252:-18.2125,0,-24.6894 0/1:22:11,11:11:396:11:396:-29.3601,0,-29.3601 0/1:49:26,23:26:936:23:798:-57.3867,0,-69.809 0/1:25:15,10:15:528:10:356:-24.8555,0,-40.3256 0/0:33:32,1:32:1133:1:36:0,-6.33571,-98.6784 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 chr02 13817465 . G A 13801.2 PASS AB=0.442393;ABP=48.2933;AC=22;AF=0.52381;AN=42;AO=810;CIGAR=1X;DP=1763;DPB=1763;DPRA=1.10987;EPP=1753.23;EPPR=2063.75;GTI=0;LEN=1;MEANALT=1;MQM=59.9136;MQMR=59.9643;NS=21;NUMALT=1;ODDS=0.586157;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29071;QR=34036;RO=953;RPL=1;RPP=1753.23;RPPR=2063.75;RPR=809;RUN=1;SAF=810;SAP=1761.9;SAR=0;SRF=953;SRP=2072.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:58,35:58:2084:35:1260:-85.7097,0,-159.833 0/1:58:36,22:36:1292:22:788:-53.7851,0,-99.124 0/1:94:51,43:51:1824:43:1544:-110.956,0,-136.144 0/1:160:107,53:107:3819:53:1904:-123.471,0,-295.74 0/1:161:86,75:86:3064:75:2687:-193.609,0,-227.334 0/1:109:70,39:70:2504:39:1389:-92.4955,0,-192.8 0/1:116:74,42:74:2623:42:1512:-101.455,0,-201.399 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 0/1:134:73,61:73:2596:61:2181:-156.216,0,-193.552 0/1:20:13,7:13:464:7:252:-17.0084,0,-36.0769 0/1:12:8,4:8:284:4:144:-9.70126,0,-22.291 0/1:22:9,13:9:324:13:468:-35.837,0,-22.8832 0/1:107:53,54:53:1900:54:1944:-143.026,0,-139.068 0/1:108:60,48:60:2135:48:1720:-122.574,0,-159.906 0/1:89:43,46:43:1532:46:1656:-122.537,0,-111.381 0/1:85:43,42:43:1519:42:1512:-110.786,0,-111.414 0/1:74:37,37:37:1332:37:1328:-97.0552,0,-97.9062 0/1:84:41,43:41:1472:43:1539:-113.497,0,-107.49 0/1:45:14,31:14:504:31:1116:-87.2053,0,-32.1517 1/1:73:0,73:0:0:73:2615:-235.59,-21.9752,0 1/1:43:1,42:1:36:42:1512:-132.774,-9.34646,0 chr02 13817498 . G T 17219.7 PASS AB=0.564331;ABP=59.4465;AC=20;AF=0.47619;AN=42;AO=965;CIGAR=1X;DP=1761;DPB=1761;DPRA=1.54981;EPP=2098.48;EPPR=1714.17;GTI=1;LEN=1;MEANALT=1;MQM=59.9316;MQMR=59.9937;NS=21;NUMALT=1;ODDS=1.92676;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34346;QR=28327;RO=796;RPL=963;RPP=2081.15;RPPR=1645.73;RPR=2;RUN=1;SAF=963;SAP=2081.15;SAR=2;SRF=788;SRP=1662.71;SRR=8;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:35,56:35:1256:56:1982:-151.259,0,-85.9516 0/1:59:21,38:21:737:38:1355:-104.061,0,-48.8899 0/1:93:42,51:42:1495:51:1832:-137.165,0,-106.848 0/1:158:50,108:50:1770:108:3837:-297.963,0,-112.019 0/1:160:76,84:76:2710:84:2981:-220.325,0,-195.978 0/1:106:37,69:37:1324:69:2464:-190.105,0,-87.5529 0/1:115:42,73:42:1508:73:2599:-199.54,0,-101.396 1/1:79:0,79:0:0:79:2796:-251.878,-23.7814,0 0/1:135:62,73:62:2215:73:2620:-195.407,0,-158.975 0/1:20:7,13:7:237:13:464:-36.0769,0,-15.6385 0/1:14:4,10:4:144:10:356:-28.1668,0,-9.0992 0/1:22:13,9:13:460:9:324:-22.8832,0,-35.1127 0/1:106:52,54:52:1872:54:1936:-142.607,0,-136.85 0/1:108:45,63:45:1583:63:2241:-169.441,0,-110.248 0/1:91:47,44:47:1665:44:1550:-112.397,0,-122.742 0/1:87:43,44:43:1544:44:1572:-115.581,0,-113.063 0/1:78:38,40:38:1336:40:1420:-104.617,0,-97.0568 0/1:84:41,43:41:1464:43:1521:-111.895,0,-106.77 0/1:43:29,14:29:1028:14:496:-32.03,0,-79.8887 0/0:71:71,0:71:2528:0:0:0,-21.3731,-227.772 0/0:41:41,0:41:1451:0:0:0,-12.3422,-130.885 chr02 13817627 . GGATG CGATT,CGATG 34226.1 PASS AB=0.487549,0.505898;ABP=5.06509,3.47135;AC=22,20;AF=0.52381,0.47619;AN=42;AO=861,848;CIGAR=1X3M1X,1X4M;DP=1720;DPB=1720.4;DPRA=1.08158,1.42908;EPP=1872.65,1844.42;EPPR=0;GTI=2;LEN=5,1;MEANALT=2.45,2.47368;MQM=59.9988,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.32689;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=1;QA=30329,30248;QR=0;RO=0;RPL=861,848;RPP=1872.65,1844.42;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1872.65,1844.42;SAR=861,848;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:90:0,47,43:0:0:47,43:1665,1512:-259.063,-123.427,-109.278,-135.989,0,-123.045 1/2:44:0,22,22:0:0:22,22:785,792:-128.976,-64.983,-58.3604,-64.3513,0,-57.7287 1/2:97:0,37,60:0:0:37,60:1312,2139:-281.604,-174.716,-163.577,-107.243,0,-89.1816 1/2:61:0,26,35:0:0:26,35:929,1241:-177.203,-101.456,-93.6297,-76.102,0,-65.566 1/2:171:0,90,81:0:0:90,81:3124,2885:-489.448,-235.502,-208.409,-254.297,0,-229.914 1/2:73:0,31,41:0:0:31,41:1084,1476:-208.616,-120.434,-111.102,-88.1768,0,-75.8345 1/2:110:0,61,48:0:0:61,48:2144,1715:-314.337,-139.826,-121.463,-174.506,0,-160.057 2/2:76:0,0,76:0:0:0,76:0,2720:-245.043,-245.043,-245.043,-22.8783,-22.8783,0 1/2:144:0,61,82:0:0:61,82:2149,2925:-413.468,-238.508,-220.145,-175.022,0,-150.337 1/2:7:0,1,6:0:0:1,6:36,216:-20.9217,-17.9843,-17.6833,-3.29724,0,-1.49106 1/2:5:0,4,1:0:0:4,1:139,36:-14.588,-3.29724,-2.09312,-11.6481,0,-11.3471 1/2:36:0,24,12:0:0:24,12:852,432:-105.026,-35.6088,-28.3841,-69.7758,0,-66.1634 1/2:123:0,59,61:0:0:59,61:2086,2192:-348.743,-178.848,-161.087,-169.916,0,-151.553 1/2:101:0,44,56:0:0:44,56:1550,1989:-288.257,-162.064,-148.819,-126.186,0,-109.329 1/2:182:0,87,94:0:0:87,94:3065,3368:-524.42,-274.88,-248.69,-249.733,0,-221.437 1/2:50:0,23,27:0:0:23,27:811,972:-145.702,-79.6701,-72.7464,-66.3873,0,-58.2595 1/2:46:0,15,31:0:0:15,31:524,1086:-131.338,-88.7131,-84.1977,-42.9746,0,-33.6427 1/2:90:0,36,54:0:0:36,54:1263,1908:-258.522,-155.739,-144.902,-103.134,0,-86.8787 1/2:96:0,76,18:0:0:76,18:2692,644:-271.857,-52.5619,-29.6836,-219.342,0,-213.924 1/1:78:0,78,0:0:0:78,0:2747,0:-247.472,-23.4803,0,-247.472,-23.4803,-247.472 1/1:40:0,39,0:0:0:39,0:1372,0:-123.417,-11.7402,0,-123.417,-11.7402,-123.417 chr02 13951809 . CC TC,TT 22484.1 PASS AB=0.635238,0.361905;ABP=169.812,176.935;AC=21,21;AF=0.5,0.5;AN=42;AO=777,445;CIGAR=1X1M,2X;DP=1225;DPB=1225;DPRA=1.87854,1.06699;EPP=1690.24,969.316;EPPR=7.35324;GTI=3;LEN=1,2;MEANALT=1.94737,1.94737;MQM=54.5689,32.7685;MQMR=60;NS=21;NUMALT=2;ODDS=0.26334;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27683,15787;QR=70;RO=2;RPL=0,0;RPP=1690.24,969.316;RPPR=7.35324;RPR=777,445;RUN=1,1;SAF=0,0;SAP=1690.24,969.316;SAR=777,445;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:85:0,48,37:0:0:48,37:1712,1307:-233.089,-93.7437,-79.2943,-139.678,0,-128.54 1/2:50:0,35,15:0:0:35,15:1248,536:-136.992,-35.5588,-25.0227,-101.746,0,-97.2305 1/2:49:0,28,21:0:0:28,21:996,739:-134.465,-53.3342,-44.9054,-81.4623,0,-75.1407 1/2:85:1,57,27:1:34:57,27:2032,961:-230.084,-65.0021,-50.6024,-162.611,0,-157.241 1/2:127:0,80,47:0:0:80,47:2826,1632:-344.206,-114.393,-90.3104,-230.134,0,-215.986 1/2:56:0,40,16:0:0:40,16:1424,554:-152.461,-36.9266,-24.8854,-115.841,0,-111.024 1/2:75:0,41,34:0:0:41,34:1459,1218:-197.176,-78.6311,-66.2889,-118.864,0,-108.629 2/2:61:0,0,61:0:0:0,61:0,2165:-165.702,-165.702,-165.702,-18.3628,-18.3628,0 1/2:89:0,59,30:0:0:59,30:2112,1067:-249.739,-77.659,-59.8983,-172.412,0,-163.381 1/2:14:0,6,8:0:0:6,8:208,284:-36.8184,-19.9168,-18.1106,-17.2304,0,-14.8222 2/2:4:0,0,4:0:0:0,4:0,144:-10.7402,-10.7402,-10.7402,-1.20412,-1.20412,0 1/2:19:0,7,12:0:0:7,12:252,432:-50.2317,-29.6821,-27.5749,-20.8891,0,-17.2767 1/2:71:0,46,25:0:0:46,25:1644,898:-196.913,-63.1684,-49.3211,-134.073,0,-126.547 1/2:73:0,44,29:0:0:44,29:1568,1027:-200.695,-73.2216,-59.9763,-127.804,0,-119.074 1/2:68:0,42,25:0:0:42,25:1504,896:-184.951,-62.6341,-49.9908,-122.418,0,-114.893 1/2:33:1,22,10:1:36:22,10:769,349:-85.223,-22.9564,-19.2746,-59.6007,0,-59.5283 1/2:25:0,17,8:0:0:17,8:608,288:-68.7485,-19.2845,-14.1669,-49.7802,0,-47.3719 1/2:84:0,57,27:0:0:57,27:2035,966:-230.985,-65.289,-48.1303,-166.014,0,-157.887 1/2:47:0,38,9:0:0:38,9:1364,324:-134.386,-23.308,-11.8689,-111.403,0,-108.693 1/1:66:0,66,0:0:0:66,0:2338,0:-210.126,-19.868,0,-210.126,-19.868,-210.126 1/1:44:0,44,0:0:0:44,0:1584,0:-142.392,-13.2453,0,-142.392,-13.2453,-142.392 chr02 13951815 . T A,C 25212.1 PASS AB=0.650809,0.34824;ABP=210.631,213.259;AC=21,21;AF=0.5,0.5;AN=42;AO=794,428;CIGAR=1X,1X;DP=1223;DPB=1223;DPRA=1.97114,1.06507;EPP=981.004,923.735;EPPR=5.18177;GTI=2;LEN=1,1;MEANALT=1.89474,1.89474;MQM=54.6373,32.7991;MQMR=60;NS=21;NUMALT=2;ODDS=1.20048;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28282,15290;QR=36;RO=1;RPL=98,1;RPP=981.004,923.735;RPPR=5.18177;RPR=696,427;RUN=1,1;SAF=0,0;SAP=1727.16,932.4;SAR=794,428;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,50,37:0:0:50,37:1777,1328:-239.561,-94.9078,-79.8563,-144.987,0,-133.849 1/2:49:0,35,14:0:0:35,14:1252,504:-134.949,-33.1612,-22.6252,-102.1,0,-97.8853 1/2:48:0,28,20:0:0:28,20:1008,711:-133.368,-51.1627,-42.7339,-82.5396,0,-76.519 1/2:89:0,62,27:0:0:62,27:2220,972:-249.275,-68.5715,-49.9077,-181.031,0,-172.903 1/2:124:0,80,44:0:0:80,44:2846,1576:-341.845,-110.421,-86.3384,-231.751,0,-218.506 1/2:58:0,44,14:0:0:44,14:1580,504:-161.028,-32.7214,-19.4761,-128.614,0,-124.399 1/2:71:0,42,29:0:0:42,29:1478,1027:-186.571,-66.6219,-53.9786,-120.262,0,-111.532 2/2:58:0,0,58:0:0:0,58:0,2071:-158.174,-158.174,-158.174,-17.4597,-17.4597,0 1/2:87:0,57,30:0:0:57,30:2037,1065:-243.664,-77.6688,-60.5101,-166.328,0,-157.297 1/2:14:0,6,8:0:0:6,8:216,288:-37.7351,-20.1163,-18.3102,-17.9563,0,-15.548 2/2:4:0,0,4:0:0:0,4:0,144:-10.7402,-10.7402,-10.7402,-1.20412,-1.20412,0 1/2:21:0,9,12:0:0:9,12:320,428:-55.6018,-29.5409,-26.8316,-26.394,0,-22.7817 1/2:74:0,49,25:0:0:49,25:1743,896:-204.87,-63.1269,-48.3765,-142.07,0,-134.544 1/2:73:0,44,29:0:0:44,29:1558,1021:-199.347,-72.7663,-59.521,-126.908,0,-118.178 1/2:65:0,42,23:0:0:42,23:1512,824:-180.07,-57.0345,-44.3912,-123.361,0,-116.437 1/2:34:1,23,10:1:36:23,10:805,360:-88.912,-23.7136,-19.73,-62.5382,0,-62.4657 1/2:26:0,18,8:0:0:18,8:639,279:-71.1735,-19.2227,-13.8042,-52.2648,0,-49.8565 1/2:84:0,57,27:0:0:57,27:2029,968:-230.476,-65.321,-48.1623,-165.474,0,-157.346 1/2:47:0,38,9:0:0:38,9:1341,324:-132.446,-23.308,-11.8689,-109.463,0,-106.753 1/1:68:0,68,0:0:0:68,0:2413,0:-216.89,-20.47,0,-216.89,-20.47,-216.89 1/1:42:0,42,0:0:0:42,0:1508,0:-135.583,-12.6433,0,-135.583,-12.6433,-135.583 chr02 13951839 . GCAAC GCAACAAC 3414.28 PASS AB=0.328598;ABP=272.479;AC=21;AF=0.5;AN=42;AO=405;CIGAR=1M3I4M;DP=1231;DPB=1475.8;DPRA=1.04145;EPP=882.457;EPPR=1787.96;GTI=3;LEN=3;MEANALT=1.15789;MQM=32.7457;MQMR=54.2956;NS=21;NUMALT=1;ODDS=1.70764;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13105;QR=28964;RO=822;RPL=405;RPP=882.457;RPPR=1787.96;RPR=0;RUN=1;SAF=0;SAP=882.457;SAR=405;SRF=0;SRP=1787.96;SRR=822;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:51,35:51:1802:35:1182:-71.4794,0,-136.337 0/1:49:36,13:36:1279:13:391:-17.1907,0,-100.185 0/1:47:28,19:28:1001:19:638:-38.752,0,-76.1933 0/1:87:62,25:62:2175:25:818:-41.3707,0,-169.605 0/1:125:81,44:81:2857:44:1433:-80.3148,0,-219.314 0/1:61:47,14:47:1649:14:421:-16.0075,0,-129.488 0/1:73:42,30:42:1484:30:903:-51.4941,0,-111.533 1/1:58:4,54:4:133:54:1692:-127.007,-6.11994,0 0/1:88:60,28:60:2115:28:974:-54.578,0,-163.434 0/1:14:7,7:7:239:7:222:-14.1571,0,-17.5796 1/1:4:0,4:0:0:4:120:-9.98699,-1.20412,0 0/1:21:9,12:9:310:12:373:-24.5229,0,-21.8811 0/1:75:50,24:50:1749:24:787:-42.3522,0,-134.354 0/1:72:46,26:46:1614:26:850:-48.6549,0,-123.435 0/1:67:46,21:46:1625:21:673:-35.419,0,-125.296 0/1:35:25,10:25:876:10:360:-19.4851,0,-68.6113 0/1:26:18,6:18:644:6:212:-10.4868,0,-50.7224 0/1:83:58,25:58:2062:25:788:-39.451,0,-160.616 0/1:47:39,8:39:1360:8:268:-8.27141,0,-108.435 0/0:69:69,0:69:2433:0:0:0,-20.7711,-218.639 0/0:44:44,0:44:1557:0:0:0,-13.2453,-139.999 chr02 14084110 . C T 17231.1 PASS AB=0.512444;ABP=5.11803;AC=22;AF=0.52381;AN=42;AO=973;CIGAR=1X;DP=1789;DPB=1789;DPRA=1.77551;EPP=2115.85;EPPR=1772.76;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9979;MQMR=59.9951;NS=21;NUMALT=1;ODDS=3.42168;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34538;QR=28953;RO=815;RPL=973;RPP=2115.85;RPPR=1772.76;RPR=0;RUN=1;SAF=973;SAP=2115.85;SAR=0;SRF=815;SRP=1772.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:37,48:37:1319:48:1669:-124.904,0,-93.4236 0/1:47:18,29:18:648:29:1044:-80.1264,0,-44.5035 0/1:76:35,41:35:1247:41:1472:-109.898,0,-89.6558 0/1:150:73,77:73:2577:77:2747:-202.318,0,-187.025 0/1:254:134,120:134:4769:120:4231:-304.509,0,-352.904 0/1:89:38,51:38:1364:51:1790:-134.586,0,-96.269 0/1:84:30,54:30:1068:54:1891:-145.176,0,-71.1455 0/0:49:49,0:49:1724:0:0:0,-14.7505,-155.442 0/1:124:61,63:61:2170:63:2241:-164.624,0,-158.238 0/1:22:7,15:7:252:15:540:-42.3139,0,-16.4063 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:13:7,6:7:252:6:210:-15.3283,0,-19.1156 0/1:102:38,64:38:1347:64:2296:-176.196,0,-90.8244 0/1:80:52,28:52:1860:28:995:-65.7816,0,-143.597 0/1:98:50,47:50:1780:47:1660:-120.125,0,-130.923 0/1:82:47,35:47:1667:35:1238:-87.0384,0,-125.632 0/1:100:56,44:56:1995:44:1568:-111.306,0,-149.718 0/1:85:50,35:50:1747:35:1248:-87.0373,0,-131.923 0/1:72:29,43:29:1027:43:1535:-116.768,0,-71.068 1/1:101:3,98:3:104:98:3501:-305.597,-20.7012,0 1/1:72:0,72:0:0:72:2558:-230.469,-21.6742,0 chr02 14258367 . C A 18840 PASS AB=0.482567;ABP=8.23434;AC=22;AF=0.52381;AN=42;AO=1097;CIGAR=1X;DP=2300;DPB=2300;DPRA=0.592458;EPP=2385.12;EPPR=2610.95;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9535;MQMR=59.9709;NS=21;NUMALT=1;ODDS=3.67779;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38913;QR=43093;RO=1201;RPL=0;RPP=2385.12;RPPR=2610.95;RPR=1097;RUN=1;SAF=1097;SAP=2385.12;SAR=0;SRF=1201;SRP=2610.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:92,71:92:3289:71:2491:-175.372,0,-247.16 0/1:78:53,25:53:1904:25:896:-57.48,0,-148.157 0/1:89:28,61:28:1004:61:2165:-168.324,0,-63.8842 0/1:122:58,64:58:2080:64:2259:-166.842,0,-150.745 0/1:196:105,91:105:3768:91:3196:-228.856,0,-280.317 0/1:65:26,39:26:932:39:1389:-105.74,0,-64.6319 0/1:97:39,58:39:1400:58:2080:-158.27,0,-97.0993 0/0:179:179,0:179:6416:0:0:0,-53.8844,-577.527 0/1:146:101,45:101:3624:45:1612:-101.42,0,-282.414 0/1:23:9,13:9:324:13:453:-34.118,0,-22.5234 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:33:18,15:18:644:15:532:-38.2791,0,-48.3566 0/1:56:29,27:29:1040:27:953:-69.2256,0,-77.0567 0/1:102:51,51:51:1824:51:1823:-133.642,0,-133.246 0/1:230:109,120:109:3908:120:4235:-312.02,0,-282.617 0/1:94:54,40:54:1940:40:1402:-98.1763,0,-146.579 0/1:170:98,72:98:3524:72:2558:-179.292,0,-266.193 0/1:213:114,99:114:4104:99:3537:-254.418,0,-305.419 0/1:98:36,62:36:1296:62:2228:-171.283,0,-87.443 1/1:75:0,75:0:0:75:2624:-236.403,-22.5773,0 1/1:67:0,67:0:0:67:2408:-216.94,-20.169,0 chr02 14258400 . C A 21262.4 PASS AB=0.516641;ABP=7.70793;AC=20;AF=0.47619;AN=42;AO=1190;CIGAR=1X;DP=2280;DPB=2280;DPRA=1.53857;EPP=2587.06;EPPR=2367.74;GTI=1;LEN=1;MEANALT=1.05263;MQM=59.9714;MQMR=59.9669;NS=21;NUMALT=1;ODDS=3.51155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42455;QR=38691;RO=1089;RPL=1190;RPP=2587.06;RPPR=2359.07;RPR=0;RUN=1;SAF=1190;SAP=2587.06;SAR=0;SRF=1088;SRP=2359.07;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:69,86:69:2472:86:3046:-227.349,0,-175.714 0/1:78:26,52:26:915:52:1841:-142.488,0,-59.1852 0/1:88:61,27:61:2167:27:964:-60.5862,0,-168.806 0/1:119:60,59:60:2100:59:2095:-152.997,0,-153.443 0/1:195:90,105:90:3186:105:3726:-276.839,0,-228.262 0/1:67:40,27:40:1402:27:964:-66.9078,0,-106.304 0/1:97:58,39:58:2080:39:1400:-97.0993,0,-158.27 1/1:181:0,181:0:0:181:6481:-583.373,-54.4864,0 0/1:141:42,99:42:1504:99:3532:-275.642,0,-93.2094 0/1:22:13,9:13:468:9:324:-22.8832,0,-35.837 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:31:14,17:14:500:17:608:-45.7201,0,-36.0042 0/1:53:26,27:26:932:27:972:-71.8433,0,-68.2443 0/1:98:48,50:48:1707:50:1785:-131.36,0,-124.412 0/1:227:121,106:121:4292:106:3766:-270.804,0,-318.125 0/1:94:41,53:41:1439:53:1879:-141.089,0,-101.477 0/1:173:72,101:72:2549:101:3620:-273.927,0,-177.582 0/1:214:99,115:99:3535:115:4120:-306.559,0,-253.939 0/1:96:61,35:61:2165:35:1260:-84.8066,0,-166.216 0/0:76:76,0:76:2707:0:0:0,-22.8783,-243.874 0/0:70:70,0:70:2499:0:0:0,-21.0721,-225.127 chr02 14258418 . C G 41830.8 PASS AB=0.479134;ABP=15.2437;AC=22;AF=0.52381;AN=42;AO=1816;CIGAR=1X;DP=3764;DPB=3764;DPRA=0.671073;EPP=3946.4;EPPR=4228.7;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9719;MQMR=59.9969;NS=21;NUMALT=1;ODDS=8.61704;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64183;QR=69167;RO=1946;RPL=1076;RPP=138.005;RPPR=245.327;RPR=740;RUN=1;SAF=1076;SAP=138.005;SAR=740;SRF=1206;SRP=245.327;SRR=740;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:266:148,117:148:5239:117:4167:-295.081,0,-391.516 0/1:129:79,50:79:2827:50:1784:-122.01,0,-215.835 0/1:167:74,93:74:2636:93:3301:-247.037,0,-187.216 0/1:212:101,111:101:3589:111:3937:-290.705,0,-259.399 0/1:317:176,141:176:6245:141:4926:-348.065,0,-466.721 0/1:125:64,61:64:2296:61:2176:-158.478,0,-169.272 0/1:198:95,103:95:3383:103:3680:-271.8,0,-245.082 0/0:261:261,0:261:9234:0:0:0,-78.5688,-831.039 0/1:281:158,122:158:5650:122:4266:-299.472,0,-423.971 0/1:33:15,18:15:540:18:648:-48.7179,0,-39.0025 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:57:33,24:33:1167:24:851:-59.7507,0,-88.1777 0/1:144:82,62:82:2895:62:2148:-150.236,0,-217.437 0/1:145:71,74:71:2505:74:2621:-192.483,0,-182.05 0/1:307:143,164:143:5086:164:5787:-428.521,0,-365.468 0/1:150:81,69:81:2903:69:2421:-172.989,0,-216.35 0/1:232:137,95:137:4847:95:3335:-230.528,0,-366.546 0/1:289:158,131:158:5625:131:4623:-329.236,0,-419.371 0/1:177:66,111:66:2356:111:3943:-301.782,0,-159.017 1/1:157:2,155:2:72:155:5474:-485.956,-40.425,0 1/1:111:0,111:0:0:111:3951:-355.769,-33.4143,0 chr02 14264140 . CTGCATCA TTGCTTCA,TTGCTTCG 58471.7 PASS AB=0.511332,0.480318;ABP=5.81551,11.4726;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1528,1350;CIGAR=1X3M1X3M,1X3M1X2M1X;DP=2905;DPB=2905;DPRA=0,2.74327;EPP=3251.9,2839.73;EPPR=0;GTI=1;LEN=8,8;MEANALT=2.95238,3.05;MQM=59.5052,59.2511;MQMR=0;NS=21;NUMALT=2;ODDS=0.403991;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54145,47490;QR=0;RO=0;RPL=8,11;RPP=3251.9,2839.73;RPPR=0;RPR=1520,1339;RUN=1,1;SAF=0,0;SAP=3321.02,2934.5;SAR=1528,1350;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:237:0,130,103:0:0:130,103:4571,3600:-664.512,-292.717,-253.583,-371.807,0,-340.801 1/2:72:0,42,30:0:0:42,30:1474,1062:-206.784,-86.8562,-74.2129,-120.28,0,-111.249 1/2:138:0,77,61:0:0:77,61:2724,2145:-396.669,-174.924,-151.745,-222.097,0,-203.734 1/2:112:0,49,63:0:0:49,63:1744,2208:-321.43,-179.376,-164.626,-142.406,0,-123.441 1/2:290:0,136,150:0:0:136,150:4821,5261:-820.324,-427.705,-386.765,-392.658,0,-347.504 1/2:158:0,74,82:0:0:74,82:2617,2887:-447.652,-234.558,-212.282,-213.14,0,-188.456 1/2:151:0,93,58:0:0:93,58:3320,2056:-438.126,-167.581,-139.585,-270.9,0,-253.44 2/2:144:0,2,141:0:0:2,141:72,4961:-446.216,-440.341,-439.739,-42.4452,-36.5438,0 1/2:291:0,141,144:0:0:141,144:5029,5034:-819.062,-409.42,-366.975,-409.666,0,-366.317 1/2:27:0,6,19:0:0:6,19:213,666:-71.5496,-54.1933,-52.3872,-17.3572,0,-11.6376 1/2:11:0,9,2:0:0:9,2:324,70:-32.4902,-6.04534,-3.33607,-26.7966,0,-26.1945 1/2:42:0,16,26:0:0:16,26:559,913:-120.131,-74.6592,-69.8427,-45.8219,0,-37.9951 1/2:142:0,71,71:0:0:71,71:2524,2511:-410.445,-204.801,-183.427,-205.998,0,-184.625 1/2:94:0,61,32:0:0:61,32:2172,1142:-270.219,-93.1883,-74.8255,-177.143,0,-167.51 1/2:317:0,166,150:0:0:166,150:5923,5291:-913.411,-430.664,-380.693,-482.782,0,-437.627 1/2:130:0,60,70:0:0:60,70:2118,2490:-375.667,-203.275,-185.213,-172.747,0,-151.674 1/2:103:0,58,45:0:0:58,45:2064,1595:-298.353,-130.137,-112.677,-168.572,0,-155.025 1/2:103:0,42,61:0:0:42,61:1496,2135:-295.941,-174.041,-161.397,-122.253,0,-103.89 1/2:97:0,55,41:0:0:55,41:1901,1427:-270.377,-115.918,-99.3609,-154.449,0,-142.106 1/1:194:0,188,1:0:0:188,1:6640,36:-597.192,-56.5936,0,-594.254,-53.6498,-593.953 1/1:52:0,52,0:0:0:52,0:1839,0:-165.785,-15.6536,0,-165.785,-15.6536,-165.785 chr02 14264162 . A G 27476.7 PASS AB=0.517213;ABP=9.36465;AC=22;AF=0.52381;AN=42;AO=1521;CIGAR=1X;DP=2852;DPB=2852;DPRA=0;EPP=3305.82;EPPR=2884.56;GTI=1;LEN=1;MEANALT=1;MQM=59.4346;MQMR=59.2998;NS=21;NUMALT=1;ODDS=0.651006;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54482;QR=47524;RO=1331;RPL=1521;RPP=3305.82;RPPR=2884.56;RPR=0;RUN=1;SAF=0;SAP=3305.82;SAR=1521;SRF=0;SRP=2893.24;SRR=1331;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:233:103,130:103:3681:130:4664:-349.481,0,-261.159 0/1:66:27,39:27:968:39:1396:-106.042,0,-67.5694 0/1:136:60,76:60:2152:76:2728:-204.681,0,-152.961 0/1:109:61,48:61:2192:48:1724:-122.315,0,-164.361 0/1:282:146,136:146:5179:136:4859:-352.377,0,-381.194 0/1:156:82,74:82:2924:74:2643:-191.083,0,-215.578 0/1:149:57,92:57:2040:92:3299:-252.135,0,-138.966 0/0:140:138,2:138:4902:2:72:0,-35.3075,-434.402 0/1:286:144,142:144:5142:142:5096:-372.355,0,-376.65 0/1:27:21,6:21:756:6:216:-11.6627,0,-60.1837 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:42:26,16:26:917:16:563:-38.3559,0,-70.2013 0/1:140:69,71:69:2468:71:2548:-187.367,0,-180.131 0/1:95:33,62:33:1173:62:2224:-171.813,0,-77.2361 0/1:313:149,164:149:5329:164:5884:-435.337,0,-385.154 0/1:129:69,60:69:2453:60:2140:-153.977,0,-182.182 0/1:102:44,58:44:1584:58:2076:-156.405,0,-111.956 0/1:101:59,42:59:2120:42:1500:-104.847,0,-160.639 0/1:92:40,52:40:1436:52:1851:-139.16,0,-101.414 1/1:191:1,190:1:36:190:6807:-608.723,-53.8985,0 1/1:52:0,52:0:0:52:1868:-168.395,-15.6536,0 chr02 14604617 . C A 19859.6 PASS AB=0.472522;ABP=16.3758;AC=20;AF=0.47619;AN=42;AO=1116;CIGAR=1X;DP=2394;DPB=2394;DPRA=1.13612;EPP=2331.77;EPPR=2655.71;GTI=1;LEN=1;MEANALT=1.05263;MQM=59.2375;MQMR=59.9162;NS=21;NUMALT=1;ODDS=1.34692;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39856;QR=45695;RO=1277;RPL=11;RPP=2331.77;RPPR=2655.71;RPR=1105;RUN=1;SAF=1116;SAP=2426.37;SAR=0;SRF=1277;SRP=2775.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:181:78,103:78:2800:103:3682:-276.946,0,-197.735 0/1:81:43,38:43:1548:38:1356:-97.7743,0,-115.228 0/1:119:76,43:76:2728:43:1533:-102.421,0,-209.94 0/1:176:91,85:91:3258:85:3042:-220.963,0,-240.44 0/1:197:89,107:89:3187:107:3848:-286.937,0,-227.691 0/1:155:73,82:73:2616:82:2925:-216.011,0,-189.028 0/1:143:89,54:89:3176:54:1908:-128.588,0,-243.018 1/1:153:0,153:0:0:153:5437:-489.252,-46.0576,0 0/1:146:84,62:84:2993:62:2232:-157.165,0,-225.642 0/1:23:12,11:12:424:11:396:-29.0528,0,-31.5727 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:50:25,25:25:896:25:885:-64.8866,0,-65.9089 0/1:170:87,83:87:3111:83:2972:-216.451,0,-229.041 0/1:148:83,65:83:2952:65:2336:-165.737,0,-221.353 0/1:170:82,88:82:2932:88:3113:-228.897,0,-212.94 0/1:61:33,28:33:1175:28:1008:-72.6572,0,-87.6941 0/1:100:52,48:52:1864:48:1707:-123.804,0,-137.936 0/1:45:33,12:33:1175:12:432:-25.6748,0,-92.5106 0/1:69:41,28:41:1467:28:1008:-70.2653,0,-111.553 0/0:153:153,0:153:5485:0:0:0,-46.0576,-493.774 0/0:50:50,0:50:1800:0:0:0,-15.0515,-161.227 chr02 14729176 . A T 57153.5 PASS AB=0.531112;ABP=35.3031;AC=22;AF=0.52381;AN=42;AO=2380;CIGAR=1X;DP=4306;DPB=4306;DPRA=0;EPP=468.14;EPPR=318.681;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9992;MQMR=59.946;NS=21;NUMALT=1;ODDS=10.2084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85246;QR=68852;RO=1925;RPL=26;RPP=4947.75;RPPR=4105.29;RPR=2354;RUN=1;SAF=1573;SAP=538.357;SAR=807;SRF=1236;SRP=340.529;SRR=689;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:353:179,173:179:6412:173:6184:-450.335,0,-470.845 0/1:142:57,85:57:2036:85:3051:-232.072,0,-140.766 0/1:238:105,133:105:3756:133:4771:-357.9,0,-266.595 0/1:306:117,189:117:4208:189:6776:-517.796,0,-286.784 0/1:312:156,156:156:5568:156:5595:-409.749,0,-407.324 0/1:106:55,51:55:1956:51:1832:-133.252,0,-144.407 0/1:204:109,95:109:3881:95:3399:-244.713,0,-288.075 0/0:125:124,1:124:4452:1:36:0,-34.0305,-397.251 0/1:490:258,232:258:9199:232:8289:-598.512,0,-680.378 0/1:25:10,15:10:360:15:540:-41.4108,0,-25.2186 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:35:23,12:23:824:12:432:-28.6851,0,-63.9473 0/1:351:157,194:157:5624:194:6949:-519.814,0,-399.907 0/1:320:128,192:128:4592:192:6884:-523.297,0,-317.089 0/1:230:112,118:112:4004:118:4225:-311.191,0,-291.313 0/1:231:107,124:107:3844:124:4454:-331.491,0,-276.617 0/1:260:133,127:133:4728:127:4568:-333.015,0,-346.308 0/1:45:25,20:25:896:20:720:-51.5824,0,-67.414 0/1:188:65,123:65:2332:123:4404:-339.939,0,-153.546 1/1:288:1,287:1:36:287:10244:-918.287,-83.0984,0 1/1:52:0,52:0:0:52:1857:-167.408,-15.6536,0 chr02 14729218 . TAACA CAACA,CAACG 49407 PASS AB=0.519141,0.470121;ABP=9.82682,19.6197;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1309,1135;CIGAR=1X4M,1X3M1X;DP=2468;DPB=2468.2;DPRA=0.914062,1.2068;EPP=2810.83,2424.39;EPPR=0;GTI=1;LEN=1,5;MEANALT=2.9,2.94737;MQM=59.9992,59.9595;MQMR=0;NS=21;NUMALT=2;ODDS=3.68801;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=46725,39571;QR=0;RO=0;RPL=1307,1130;RPP=2828.12,2424.39;RPPR=0;RPR=2,5;RUN=1,1;SAF=2,0;SAP=2828.12,2467.63;SAR=1307,1135;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:184:0,92,89:0:0:92,89:3284,3064:-516.624,-248.888,-221.194,-267.778,0,-240.986 1/2:129:0,72,56:0:0:72,56:2565,1964:-368.897,-159.825,-138.151,-209.074,0,-192.217 1/2:119:0,60,55:0:0:60,55:2148,1900:-329.584,-154.409,-136.347,-175.217,0,-158.661 1/2:144:0,90,54:0:0:90,54:3227,1880:-416.424,-153.218,-126.125,-263.558,0,-247.303 1/2:136:0,57,79:0:0:57,79:2029,2776:-391.669,-226.301,-209.142,-165.722,0,-141.941 1/2:127:0,67,60:0:0:67,60:2385,2037:-359.924,-165.534,-145.365,-194.737,0,-176.675 1/2:183:0,97,86:0:0:97,86:3450,3011:-526.493,-245.334,-216.134,-281.512,0,-255.623 2/2:128:0,0,128:0:0:0,128:0,4482:-403.556,-403.556,-403.556,-38.5318,-38.5318,0 1/2:214:0,97,115:0:0:97,115:3488,4000:-609.792,-325.216,-296.017,-284.57,0,-249.951 1/2:21:0,19,2:0:0:19,2:684,67:-61.5943,-5.76078,-0.0412125,-56.1708,0,-55.5687 1/2:4:0,2,2:0:0:2,2:72,69:-11.8328,-5.95048,-5.34842,-6.23466,0,-5.6326 1/2:31:0,15,16:0:0:15,16:517,571:-88.8955,-46.9068,-42.3914,-42.3392,0,-37.5227 1/2:163:0,71,87:0:0:71,87:2517,3070:-455.073,-250.02,-228.647,-205.105,0,-178.916 1/2:131:0,80,50:0:0:80,50:2849,1743:-373.998,-141.785,-117.703,-232.254,0,-217.202 1/2:99:0,50,48:0:0:50,48:1785,1699:-283.911,-138.387,-123.336,-145.519,0,-131.07 1/2:113:0,78,35:0:0:78,35:2742,1219:-322.664,-99.475,-75.9947,-223.539,0,-213.003 1/2:130:0,57,70:0:0:57,70:2040,2428:-363.704,-197.344,-180.185,-166.354,0,-145.281 1/2:111:0,44,65:0:0:44,65:1584,2271:-314.071,-184.819,-171.574,-129.339,0,-109.772 1/2:103:0,64,38:0:0:64,38:2292,1320:-294.222,-107.298,-88.0322,-186.916,0,-175.477 1/1:130:0,129,0:0:0:129,0:4619,0:-415.612,-38.8329,0,-415.612,-38.8329,-415.612 1/1:68:0,68,0:0:0:68,0:2448,0:-220.574,-20.47,0,-220.574,-20.47,-220.574 chr02 14799676 . GAATACT AAATAACT,AAATT 27524.5 PASS AB=0.650701,0.349299;ABP=171.868,171.868;AC=24,18;AF=0.571429,0.428571;AN=42;AO=844,519;CIGAR=1X3M1I3M,1X3M2D1M;DP=1363;DPB=1336.71;DPRA=0.410473,1.03342;EPP=1835.73,1130;EPPR=0;GTI=2;LEN=8,5;MEANALT=1.9,1.94737;MQM=46.987,44.7052;MQMR=0;NS=21;NUMALT=2;ODDS=0.551977;PAIRED=0,0;PAIREDR=0;PAO=4.5,4.5;PQA=152.5,152.5;PQR=0;PRO=0;QA=29751,18217;QR=0;RO=0;RPL=843,517;RPP=1827.06,1112.7;RPPR=0;RPR=1,2;RUN=1,1;SAF=843,517;SAP=1827.06,1112.7;SAR=1,2;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:47:0,36,11:0:0:36,11:1263,369:-131.431,-29.8953,-19.0582,-101.872,0,-98.5602 1/2:81:0,39,42:0:0:39,42:1344,1490:-227.658,-119.517,-107.777,-108.427,0,-95.7841 1/2:45:0,36,9:0:0:36,9:1259,317:-126.624,-25.3639,-14.5268,-101.446,0,-98.7364 1/2:73:0,63,10:0:0:63,10:2211,338:-203.84,-27.0997,-8.1348,-177.073,0,-174.063 1/1:64:0,61,3:0:0:61,3:2150,95:-191.385,-18.3628,0,-183.834,-10.538,-182.931 1/2:98:0,38,60:0:0:38,60:1323,2105:-274.954,-168.569,-157.13,-106.671,0,-88.6097 1/2:142:0,61,81:0:0:61,81:2154,2871:-405.028,-230.926,-212.563,-174.452,0,-150.069 1/1:100:0,100,0:0:0:100,0:3533,0:-315.169,-30.103,0,-315.169,-30.103,-315.169 1/1:66:0,63,3:0:0:63,3:2235,101:-199.191,-18.9649,0,-191.106,-10.5454,-190.203 1/2:8:0,5,3:0:0:5,3:174,102:-22.5686,-8.5082,-7.00305,-14.4001,0,-13.497 1/2:10:0,6,4:0:0:6,4:211,144:-28.9557,-11.8802,-10.0741,-17.3872,0,-16.1831 1/2:26:0,21,5:0:0:21,5:736,168:-73.2535,-13.7582,-7.43661,-59.8303,0,-58.3251 1/2:97:0,87,10:0:0:87,10:3073,340:-274.331,-26.5822,-0.392546,-248.077,0,-245.067 1/2:54:0,42,12:0:0:42,12:1468,401:-150.752,-32.3667,-19.7235,-118.665,0,-115.052 1/2:67:0,59,8:0:0:59,8:2108,279:-193.038,-22.7413,-4.98052,-170.642,0,-168.234 1/1:26:0,26,0:0:0:26,0:930,0:-83.0586,-7.82678,0,-83.0586,-7.82678,-83.0586 1/1:39:0,36,3:0:0:36,3:1285,104:-114.237,-10.8371,0,-105.883,-2.13999,-104.98 1/2:75:0,37,38:0:0:37,38:1319,1341:-214.122,-107.948,-96.81,-106.467,0,-95.0276 1/2:33:0,27,6:0:0:27,6:939,208:-91.858,-17.0382,-8.91036,-75.1622,0,-73.3561 2/2:148:0,0,148:0:0:0,148:0,5203:-460.6,-460.6,-460.6,-44.5524,-44.5524,0 2/2:64:0,1,63:0:0:1,63:36,2241:-197.648,-194.728,-194.427,-18.9649,-15.6872,0 chr02 14799696 . TC TA,CA 52591.2 PASS AB=0.655365,0.342918;ABP=491.523,502.378;AC=21,21;AF=0.5,0.5;AN=42;AO=1735,990;CIGAR=1M1X,2X;DP=2729;DPB=2729;DPRA=1.39873,1.27581;EPP=3770.51,2152.77;EPPR=0;GTI=2;LEN=1,2;MEANALT=2,2;MQM=47.4847,39.303;MQMR=0;NS=21;NUMALT=2;ODDS=12.5622;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61666,34685;QR=0;RO=0;RPL=0,0;RPP=3770.51,2152.77;RPPR=0;RPR=1735,990;RUN=1,1;SAF=0,0;SAP=3770.51,2152.77;SAR=1735,990;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:176:0,136,40:0:0:136,40:4838,1386:-497.218,-107.136,-66.1959,-390.417,0,-378.376 1/2:63:0,44,19:0:0:44,19:1568,671:-178.511,-51.7156,-38.4703,-127.135,0,-121.416 1/2:190:0,108,82:0:0:108,82:3810,2876:-528.86,-221.417,-188.905,-307.783,0,-283.099 1/2:105:0,67,38:0:0:67,38:2386,1353:-295.492,-104.236,-84.0665,-191.598,0,-180.159 1/2:216:0,162,51:0:0:162,51:5707,1782:-594.751,-136.864,-88.0976,-457.916,0,-442.563 1/2:131:0,95,36:0:0:95,36:3387,1270:-374.077,-100.009,-71.4109,-274.412,0,-263.575 1/2:172:0,124,48:0:0:124,48:4435,1682:-491.074,-131.98,-94.6526,-359.436,0,-344.987 2/2:183:0,0,183:0:0:0,183:0,6402:-554.468,-554.468,-554.468,-55.0885,-55.0885,0 1/2:234:0,152,82:0:0:152,82:5419,2792:-651.476,-213.421,-167.664,-438.389,0,-413.704 1/2:20:0,16,4:0:0:16,4:572,144:-55.524,-11.5775,-6.76102,-44.2906,0,-43.0864 2/2:8:0,0,8:0:0:0,8:0,288:-25.4091,-25.4091,-25.4091,-2.40824,-2.40824,0 1/2:50:0,25,25:0:0:25,25:896,889:-142.21,-69.6944,-62.1686,-72.864,0,-65.3383 1/2:199:0,131,68:0:0:131,68:4673,2400:-561.718,-185.905,-146.47,-376.155,0,-355.685 1/2:181:0,97,84:0:0:97,84:3420,2965:-503.343,-228.058,-198.858,-275.626,0,-250.34 1/2:323:0,199,124:0:0:199,124:7108,4318:-905.849,-333.603,-273.698,-572.586,0,-535.258 1/2:51:0,32,19:0:0:32,19:1116,676:-142.377,-52.649,-43.016,-90.0695,0,-84.3499 1/2:61:0,43,18:0:0:43,18:1532,633:-172.132,-47.9238,-34.9795,-124.543,0,-119.124 1/2:73:0,36,37:0:0:36,37:1284,1313:-206.684,-102.773,-91.9358,-104.259,0,-93.1209 1/2:85:0,60,24:0:0:60,24:2119,845:-236.352,-65.3737,-47.3119,-170.989,0,-163.765 1/1:168:0,168,0:0:0:168,0:5979,0:-532.941,-50.573,0,-532.941,-50.573,-532.941 1/1:40:0,40,0:0:0:40,0:1417,0:-126.884,-12.0412,0,-126.884,-12.0412,-126.884 chr02 14801439 . GTGTTGTTA GTGTTA,GTGTA 27686.4 PASS AB=0.574941,0.42268;ABP=64.5227,68.4903;AC=20,22;AF=0.47619,0.52381;AN=42;AO=801,599;CIGAR=1M3D5M,3M4D2M;DP=1404;DPB=869.444;DPRA=2.13397,0.861688;EPP=1742.36,1303.72;EPPR=0;GTI=1;LEN=3,4;MEANALT=2.10526,2;MQM=60,59.9816;MQMR=0;NS=21;NUMALT=2;ODDS=3.50585;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28356,21033;QR=0;RO=0;RPL=0,0;RPP=1742.36,1303.72;RPPR=0;RPR=801,599;RUN=1,1;SAF=801,599;SAP=1742.36,1303.72;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:11:0,2,9:0:0:2,9:72,320:-32.3087,-26.4331,-25.831,-6.23466,0,-3.52539 1/2:94:0,61,33:0:0:61,33:2163,1153:-270.363,-94.1402,-75.7774,-176.574,0,-166.64 1/2:135:0,96,39:0:0:96,39:3375,1388:-388.193,-113.479,-84.5799,-275.069,0,-263.329 1/2:90:0,52,38:0:0:52,38:1837,1299:-255.365,-105.757,-90.103,-149.955,0,-138.516 1/2:205:0,112,93:0:0:112,93:3947,3262:-587.162,-265.806,-232.091,-321.707,0,-293.711 1/2:22:0,14,8:0:0:14,8:487,288:-63.4485,-23.8592,-19.6447,-39.9448,0,-37.5365 1/2:100:0,54,46:0:0:54,46:1909,1605:-286.369,-130.89,-114.634,-155.83,0,-141.983 1/1:77:0,76,0:0:0:76,0:2720,0:-244.684,-22.8783,0,-244.684,-22.8783,-244.684 1/2:28:0,16,12:0:0:16,12:572,420:-81.1656,-34.5217,-29.7052,-46.9969,0,-43.3846 1/2:25:0,22,3:0:0:22,3:792,104:-73.4346,-8.79971,-2.17705,-64.983,0,-64.0799 1/2:7:0,3,4:0:0:3,4:108,140:-20.557,-11.7405,-10.8374,-9.17208,0,-7.96796 1/2:28:0,17,11:0:0:17,11:604,392:-81.526,-32.3087,-27.1912,-49.5731,0,-46.2618 1/2:63:0,21,42:0:0:21,42:752,1454:-179.838,-118.507,-112.185,-61.6846,0,-49.0414 1/2:75:0,44,31:0:0:44,31:1560,1062:-213.65,-86.551,-73.3057,-127.446,0,-118.114 1/2:97:0,53,44:0:0:53,44:1847,1549:-276.654,-126.454,-110.5,-150.55,0,-137.304 1/2:72:0,43,29:0:0:43,29:1523,1024:-207.807,-83.7427,-70.7984,-124.418,0,-115.688 1/2:48:0,29,19:0:0:29,19:1025,665:-137.933,-54.4532,-45.7233,-83.8308,0,-78.1113 1/2:135:0,78,54:0:0:78,54:2775,1932:-383.702,-157.548,-134.067,-226.158,0,-209.902 1/2:26:0,8,18:0:0:8,18:288,640:-76.0115,-52.5108,-50.1025,-23.8592,0,-18.4406 2/2:34:0,0,34:0:0:0,34:0,1200:-108.306,-108.306,-108.306,-10.235,-10.235,0 2/2:32:0,0,32:0:0:0,32:0,1136:-102.549,-102.549,-102.549,-9.63296,-9.63296,0 chr02 14818189 . GACT AACC,GACC 25004.6 PASS AB=0.503571,0.49375;ABP=3.13438,3.39031;AC=22,20;AF=0.52381,0.47619;AN=42;AO=668,584;CIGAR=1X2M1X,3M1X;DP=1255;DPB=1255;DPRA=1.97419,1.16498;EPP=1453.55,1271.15;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.05,2.10526;MQM=59.9341,59.9897;MQMR=0;NS=21;NUMALT=2;ODDS=1.78138;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23572,20831;QR=0;RO=0;RPL=668,584;RPP=1453.55,1271.15;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1453.55,1271.15;SAR=668,584;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:41:0,18,23:0:0:18,23:635,824:-119.263,-67.5596,-62.1411,-52.0585,0,-45.1348 1/2:12:0,10,2:0:0:10,2:340,72:-33.7963,-6.23466,-3.22436,-27.9181,0,-27.316 1/2:79:0,36,42:0:0:36,42:1292,1504:-228.149,-122.759,-111.922,-105.494,0,-92.8508 1/2:47:0,27,20:0:0:27,20:961,720:-137.428,-59.1082,-50.9804,-78.6782,0,-72.6576 1/2:121:0,58,63:0:0:58,63:2037,2222:-347.065,-181.277,-163.817,-166.14,0,-147.175 1/2:46:0,23,23:0:0:23,23:800,813:-131.609,-66.5654,-59.6417,-65.3937,0,-58.47 1/2:142:0,49,92:0:0:49,92:1730,3274:-407.762,-266.883,-252.132,-140.932,0,-113.237 2/2:31:0,0,31:0:0:0,31:0,1116:-100.752,-100.752,-100.752,-9.33193,-9.33193,0 1/2:99:0,52,47:0:0:52,47:1825,1688:-286.579,-138.059,-122.405,-148.875,0,-134.727 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:15:0,7,8:0:0:7,8:251,273:-42.9723,-22.4919,-20.3847,-20.8306,0,-18.4224 1/2:60:0,32,28:0:0:32,28:1124,989:-172.374,-80.8932,-71.2602,-91.833,0,-83.4041 1/2:50:0,24,26:0:0:24,26:851,936:-146.061,-76.7327,-69.508,-69.6851,0,-61.8583 1/2:127:0,71,56:0:0:71,56:2529,2010:-370.446,-164.315,-142.942,-206.488,0,-189.63 1/2:43:0,23,20:0:0:23,20:793,716:-123.156,-58.7471,-51.8234,-64.7607,0,-58.7401 1/2:33:0,12,21:0:0:12,21:424,756:-96.574,-62.0456,-58.4332,-34.884,0,-28.5624 1/2:106:0,55,50:0:0:55,50:1967,1796:-306.897,-146.506,-129.95,-160.389,0,-145.337 1/2:88:0,61,27:0:0:61,27:2123,942:-249.475,-76.9629,-58.6,-172.861,0,-164.733 1/1:52:0,52,0:0:0:52,0:1838,0:-165.701,-15.6536,0,-165.701,-15.6536,-165.701 1/1:52:0,52,0:0:0:52,0:1836,0:-165.517,-15.6536,0,-165.517,-15.6536,-165.517 chr02 14967924 . CATCC TATCA,TATCC 34815.5 PASS AB=0.507911,0.487342;ABP=3.69747,4.76947;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1015,665;CIGAR=1X3M1X,1X4M;DP=1687;DPB=1687;DPRA=0,1.10087;EPP=2207.05,1403.94;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.09524,2.375;MQM=59.9241,59.9759;MQMR=0;NS=21;NUMALT=2;ODDS=9.89883;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36040,23753;QR=0;RO=0;RPL=0,5;RPP=2207.05,1403.94;RPPR=0;RPR=1015,660;RUN=1,1;SAF=1015,665;SAP=2207.05,1447.04;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,36,50:0:0:36,50:1288,1796:-251.539,-146.511,-135.674,-105.027,0,-89.9752 1/2:30:0,12,17:0:0:12,17:431,612:-85.0951,-49.9361,-46.3237,-35.1586,0,-30.0411 1/2:104:0,49,55:0:0:49,55:1755,1946:-301.983,-158.856,-144.105,-143.484,0,-126.927 1/1:48:0,48,0:0:0:48,0:1709,0:-154.095,-14.4494,0,-154.095,-14.4494,-154.095 1/2:166:0,83,83:0:0:83,83:2945,2984:-483.749,-243.806,-218.82,-240.3,0,-215.315 1/2:80:0,41,37:0:0:41,37:1458,1313:-225.773,-106.991,-94.6487,-118.797,0,-107.658 1/2:107:0,49,58:0:0:49,58:1747,2067:-311.248,-168.841,-154.09,-142.764,0,-125.304 2/2:50:0,1,49:0:0:1,49:35,1764:-158.694,-155.846,-155.545,-14.7505,-11.5529,0 1/2:128:0,64,63:0:0:64,63:2258,2259:-368.167,-184.305,-165.039,-183.916,0,-164.951 1/2:17:0,6,11:0:0:6,11:206,392:-49.0303,-32.3087,-30.5025,-17.0694,0,-13.758 1/2:8:0,5,3:0:0:5,3:180,108:-23.8592,-9.17208,-7.66693,-15.0469,0,-14.1438 1/2:38:0,20,18:0:0:20,18:710,644:-110.721,-52.8721,-46.8515,-58.2055,0,-52.787 1/1:114:0,114,0:0:0:114,0:4047,0:-364.419,-34.3174,0,-364.419,-34.3174,-364.419 1/1:103:0,102,0:0:0:102,0:3587,0:-322.702,-30.7051,0,-322.702,-30.7051,-322.702 1/2:162:0,90,72:0:0:90,72:3194,2573:-470.379,-210.144,-183.051,-260.591,0,-238.917 1/2:77:0,37,39:0:0:37,39:1303,1362:-216.874,-110.878,-99.7403,-106.093,0,-94.3524 1/2:91:0,57,34:0:0:57,34:2037,1216:-265.597,-99.5115,-82.3528,-166.443,0,-156.208 1/2:110:0,56,54:0:0:56,54:1997,1940:-321.409,-158.621,-141.763,-163.146,0,-146.891 1/2:59:0,37,22:0:0:37,22:1308,777:-170.157,-63.6277,-52.4896,-106.882,0,-100.259 1/1:70:0,70,0:0:0:70,0:2488,0:-224.172,-21.0721,0,-224.172,-21.0721,-224.172 1/1:38:0,38,0:0:0:38,0:1357,0:-122.431,-11.4391,0,-122.431,-11.4391,-122.431 chr02 14968017 . T C 17825.5 PASS AB=0.531607;ABP=17.4236;AC=17;AF=0.404762;AN=42;AO=1006;CIGAR=1X;DP=2442;DPB=2442;DPRA=0.847264;EPP=2187.51;EPPR=3116.9;GTI=0;LEN=1;MEANALT=1.125;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.64086;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35726;QR=51271;RO=1434;RPL=0;RPP=2187.51;RPPR=3116.9;RPR=1006;RUN=1;SAF=0;SAP=2187.51;SAR=1006;SRF=0;SRP=3116.9;SRR=1434;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:71,86:71:2548:86:3050:-227.108,0,-181.949 0/1:128:73,55:73:2612:55:1932:-135.622,0,-196.796 0/1:100:41,59:41:1464:59:2112:-160.246,0,-101.953 0/0:173:173,0:173:6204:0:0:0,-52.0782,-558.455 0/1:165:75,90:75:2675:90:3169:-235.765,0,-191.325 0/1:114:48,65:48:1705:65:2323:-174.953,0,-119.358 0/1:128:53,75:53:1883:75:2660:-201.116,0,-131.216 1/1:123:0,123:0:0:123:4363:-392.848,-37.0267,0 0/1:173:63,110:63:2260:110:3899:-299.029,0,-151.584 0/1:13:8,5:8:273:5:180:-12.6387,0,-20.9868 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/1:49:16,33:16:576:33:1179:-91.6668,0,-37.4245 0/0:148:148,0:148:5312:0:0:0,-44.5524,-478.213 0/0:169:169,0:169:6026:0:0:0,-50.8741,-542.444 0/1:133:73,60:73:2611:60:2150:-153.73,0,-195.2 0/1:184:86,98:86:3076:98:3472:-257.303,0,-221.679 0/1:179:74,105:74:2656:105:3750:-283.814,0,-185.401 0/1:52:34,18:34:1216:18:636:-41.9145,0,-94.093 0/1:76:53,23:53:1891:23:815:-50.7925,0,-147.589 0/0:127:127,0:127:4531:0:0:0,-38.2308,-407.958 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 chr02 14972711 . T A 10360.9 PASS AB=0.539823;ABP=9.23647;AC=26;AF=0.619048;AN=42;AO=518;CIGAR=1X;DP=793;DPB=793;DPRA=0.56;EPP=1127.83;EPPR=600.165;GTI=1;LEN=1;MEANALT=1;MQM=59.6583;MQMR=59.9527;NS=21;NUMALT=1;ODDS=1.96905;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18517;QR=9864;RO=275;RPL=0;RPP=1127.83;RPPR=600.165;RPR=518;RUN=1;SAF=518;SAP=1127.83;SAR=0;SRF=275;SRP=600.165;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:13,12:13:468:12:432:-31.6954,0,-34.9339 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:47:21,26:21:756:26:936:-70.4087,0,-54.2106 1/1:111:0,111:0:0:111:3957:-356.266,-33.4143,0 0/1:46:15,31:15:536:31:1116:-86.818,0,-34.7274 0/1:22:6,16:6:216:16:576:-45.5523,0,-13.1679 0/1:85:36,49:36:1292:49:1734:-130.753,0,-90.9929 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 0/1:84:46,38:46:1644:38:1353:-96.7251,0,-122.962 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:8:3,5:3:108:5:180:-14.121,0,-7.66693 1/1:42:0,42:0:0:42:1496:-134.906,-12.6433,0 1/1:35:1,34:1:36:34:1224:-106.869,-6.93778,0 0/1:44:27,17:27:972:17:612:-42.1681,0,-74.5526 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/1:7:5,2:5:180:2:68:-4.3505,0,-14.4449 0/1:18:13,5:13:464:5:180:-11.1335,0,-36.679 0/1:40:10,30:10:360:30:1072:-84.7224,0,-20.7031 1/1:39:1,38:1:36:38:1353:-118.425,-8.1419,0 1/1:39:0,39:0:0:39:1404:-126.624,-11.7402,0 chr02 14996625 . T A 22415.8 PASS AB=0.469832;ABP=18.9946;AC=17;AF=0.404762;AN=42;AO=1189;CIGAR=1X;DP=3039;DPB=3039;DPRA=1.15579;EPP=2289.83;EPPR=3651.09;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.9664;MQMR=59.9859;NS=21;NUMALT=1;ODDS=13.7253;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42433;QR=65520;RO=1848;RPL=1154;RPP=2289.83;RPPR=3651.09;RPR=35;RUN=1;SAF=0;SAP=2584.89;SAR=1189;SRF=0;SRP=4015.89;SRR=1848;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:193:105,88:105:3674:88:3128:-223.646,0,-272.766 0/1:80:36,44:36:1284:44:1561:-116.69,0,-91.781 0/1:151:77,74:77:2748:74:2660:-194.19,0,-202.107 0/0:143:143,0:143:5080:0:0:0,-43.0473,-457.349 0/1:351:179,171:179:6388:171:6119:-445.053,0,-469.292 0/1:90:50,40:50:1784:40:1427:-101.634,0,-133.75 0/1:222:129,93:129:4569:93:3304:-230.75,0,-344.494 1/1:237:0,237:0:0:237:8479:-763.111,-71.3441,0 0/1:275:147,128:147:5200:128:4550:-326.885,0,-385.364 0/1:36:21,15:21:733:15:540:-38.0995,0,-55.4526 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:27:16,11:16:564:11:396:-27.8549,0,-42.9625 0/0:200:198,1:198:7004:1:36:0,-56.6665,-626.834 0/0:171:171,0:171:6051:0:0:0,-51.4761,-544.697 0/1:262:132,130:132:4666:130:4640:-338.892,0,-341.235 0/1:66:39,27:39:1385:27:972:-67.9299,0,-105.079 0/1:74:37,37:37:1301:37:1324:-97.1859,0,-95.113 0/1:111:57,54:57:2032:54:1906:-138.401,0,-149.734 0/1:75:41,34:41:1456:34:1211:-86.7183,0,-108.759 0/0:197:196,1:196:6953:1:36:0,-55.7046,-622.244 0/0:69:69,0:69:2468:0:0:0,-20.7711,-222.374 chr02 15002007 . CGAT TGAG,TGAT 73474.2 PASS AB=0.469894,0.523416;ABP=23.015,15.1119;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2088,1476;CIGAR=1X2M1X,1X3M;DP=3587;DPB=3587;DPRA=1.28843,0;EPP=4390.59,3130.41;EPPR=9.52472;GTI=0;LEN=4,1;MEANALT=2.8,2.7619;MQM=59.9387,59.9864;MQMR=60;NS=21;NUMALT=2;ODDS=11.1404;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72567,52581;QR=98;RO=3;RPL=2071,1467;RPP=4390.59,3130.41;RPPR=9.52472;RPR=17,9;RUN=1,1;SAF=2088,1476;SAP=4537.04,3208.1;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:291:3,121,165:3:98:121,165:4156,5888:-808.673,-472.119,-443.607,-329.564,0,-287.807 1/2:61:0,22,39:0:0:22,39:778,1398:-177.743,-114.379,-107.756,-63.719,0,-51.9789 1/2:149:0,66,82:0:0:66,82:2291,2914:-423.683,-237.449,-217.581,-186.225,0,-161.541 1/1:207:0,205,2:0:0:205,2:7093,68:-638.032,-61.7112,0,-632.516,-55.8555,-631.914 1/2:395:0,161,231:0:0:161,231:5595,8234:-1126.11,-671.241,-622.775,-454.926,0,-385.388 1/2:186:0,96,88:0:0:96,88:3370,3149:-531.132,-256.867,-227.968,-274.343,0,-247.852 1/2:275:0,115,159:0:0:115,159:4006,5637:-784.992,-459.227,-424.609,-325.755,0,-277.892 2/2:134:0,0,133:0:0:0,133:0,4736:-426.186,-426.186,-426.186,-40.037,-40.037,0 1/2:353:0,176,177:0:0:176,177:6143,6308:-1014.13,-514.485,-461.504,-500.002,0,-446.72 1/2:12:0,4,8:0:0:4,8:142,288:-35.4278,-23.8592,-22.655,-11.9252,0,-9.51691 1/2:14:0,5,9:0:0:5,9:180,324:-41.4837,-26.7966,-25.2914,-15.0469,0,-12.3376 1/2:14:0,5,9:0:0:5,9:170,316:-39.8535,-26.069,-24.5639,-14.1283,0,-11.4191 1/1:269:0,266,2:0:0:266,2:9249,72:-832.04,-80.074,0,-826.165,-74.1991,-825.563 1/1:160:0,158,2:0:0:158,2:5413,72:-486.958,-47.5627,0,-481.083,-41.3281,-480.481 1/2:353:0,188,163:0:0:188,163:6549,5821:-1007.2,-474.635,-418.041,-532.616,0,-483.549 1/2:65:0,28,35:0:0:28,35:984,1220:-179.377,-99.281,-90.8522,-80.1599,0,-69.6239 1/2:94:0,38,56:0:0:38,56:1336,1976:-270.001,-161.254,-149.815,-109.099,0,-92.2416 1/2:130:0,63,66:0:0:63,66:2178,2376:-370.857,-193.889,-174.924,-176.981,0,-157.113 1/2:149:0,106,43:0:0:106,43:3720,1532:-427.972,-125.229,-93.3196,-303.098,0,-290.154 1/1:134:0,129,5:0:0:129,5:4480,180:-402.828,-38.8329,0,-388.14,-23.786,-386.635 1/1:142:0,136,2:0:0:136,2:4734,72:-425.887,-40.9401,0,-420.012,-35.056,-419.41 chr02 15002067 . G A 46278.3 PASS AB=0.57907;ABP=119.765;AC=20;AF=0.47619;AN=42;AO=2345;CIGAR=1X;DP=4022;DPB=4022;DPRA=1.0724;EPP=5086.43;EPPR=3579.68;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9488;MQMR=59.9851;NS=21;NUMALT=1;ODDS=14.2633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83677;QR=58780;RO=1675;RPL=2345;RPP=5095.11;RPPR=3614.22;RPR=0;RUN=1;SAF=1;SAP=5086.43;SAR=2344;SRF=4;SRP=3605.57;SRR=1671;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:149:66,83:66:2309:83:2943:-220.249,0,-163.217 0/1:75:32,43:32:1140:43:1504:-112.803,0,-80.332 0/1:189:101,88:101:3554:88:3156:-227.37,0,-263.176 0/0:191:191,0:191:6703:0:0:0,-57.4967,-603.364 0/1:250:92,158:92:3200:158:5595:-428.396,0,-212.968 0/1:103:47,56:47:1654:56:2008:-149.987,0,-118.14 0/1:159:64,95:64:2259:95:3393:-257.714,0,-155.708 1/1:167:0,167:0:0:167:5954:-535.945,-50.272,0 0/1:246:116,129:116:4085:129:4596:-339.693,0,-293.729 1/1:279:6,273:6:207:273:9771:-860.367,-65.0205,0 1/1:268:6,262:6:203:262:9346:-822.493,-62.0749,0 1/1:415:20,395:20:700:395:14173:-1212,-61.604,0 0/0:201:201,0:201:7028:0:0:0,-60.507,-632.603 0/0:149:148,0:148:5226:0:0:0,-44.5524,-470.123 0/1:239:112,127:112:3941:127:4518:-334.841,0,-282.94 0/1:85:37,48:37:1291:48:1702:-127.877,0,-90.9026 0/1:90:30,60:30:1039:60:2156:-167.214,0,-66.7257 0/1:405:100,305:100:3517:305:10854:-854.84,0,-194.826 0/1:160:107,53:107:3765:53:1900:-123.113,0,-290.889 0/0:115:114,1:114:3988:1:36:0,-31.0202,-355.519 0/0:87:85,2:85:2971:2:72:0,-19.3529,-260.783 chr02 15062946 . G A 22100.4 PASS AB=0.580945;ABP=76.4821;AC=25;AF=0.595238;AN=42;AO=1162;CIGAR=1X;DP=1787;DPB=1787;DPRA=1.03963;EPP=2526.26;EPPR=1360.18;GTI=1;LEN=1;MEANALT=1;MQM=59.975;MQMR=59.9808;NS=21;NUMALT=1;ODDS=2.19834;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40878;QR=22330;RO=625;RPL=0;RPP=2526.26;RPPR=1360.18;RPR=1162;RUN=1;SAF=1162;SAP=2526.26;SAR=0;SRF=625;SRP=1360.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:64,102:64:2292:102:3562:-270.813,0,-156.57 0/1:82:40,42:40:1440:42:1493:-109.978,0,-105.213 0/1:51:24,27:24:856:27:949:-70.3702,0,-62.0086 1/1:97:0,97:0:0:97:3382:-304.462,-29.1999,0 0/1:167:65,102:65:2332:102:3553:-269.702,0,-159.868 0/1:77:36,41:36:1292:41:1427:-105.54,0,-93.4045 0/1:156:77,79:77:2738:79:2761:-201.767,0,-199.699 0/0:82:82,0:82:2936:0:0:0,-24.6845,-264.474 0/1:152:63,89:63:2253:89:3158:-238.687,0,-157.275 0/1:8:6,2:6:216:2:68:-4.04947,0,-17.3823 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 0/1:24:13,11:13:468:11:396:-28.758,0,-35.2349 1/1:80:0,80:0:0:80:2864:-257.995,-24.0824,0 1/1:103:0,103:0:0:103:3526:-317.545,-31.0061,0 0/1:142:56,86:56:2008:86:3062:-233.06,0,-138.247 0/1:78:24,54:24:860:54:1932:-150.676,0,-54.2415 0/1:89:35,54:35:1218:54:1890:-143.583,0,-83.123 0/1:44:25,19:25:896:19:679:-48.1936,0,-67.715 0/1:49:11,38:11:396:38:1341:-106.238,0,-21.2276 1/1:105:1,104:1:21:104:3702:-331.28,-29.5082,0 1/1:29:1,28:1:36:28:993:-86.0809,-5.1316,0 chr02 15062967 . T C 10152.9 PASS AB=0.420188;ABP=73.7208;AC=17;AF=0.404762;AN=42;AO=622;CIGAR=1X;DP=1769;DPB=1769;DPRA=1.12495;EPP=1353.67;EPPR=2465.53;GTI=1;LEN=1;MEANALT=1.05882;MQM=59.9904;MQMR=59.9782;NS=21;NUMALT=1;ODDS=1.70589;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22126;QR=40824;RO=1146;RPL=0;RPP=1353.67;RPPR=2465.53;RPR=622;RUN=1;SAF=622;SAP=1353.67;SAR=0;SRF=1146;SRP=2491.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:165:104,61:104:3699:61:2175:-146.346,0,-283.444 0/1:80:40,40:40:1436:40:1427:-104.644,0,-105.455 0/1:51:27,24:27:952:24:848:-61.2871,0,-70.6427 0/0:94:94,0:94:3334:0:0:0,-28.2968,-300.149 0/1:165:99,66:99:3532:66:2363:-163.258,0,-268.42 0/1:77:42,35:42:1496:35:1256:-90.166,0,-111.755 0/1:156:77,79:77:2746:79:2794:-204.74,0,-200.421 1/1:84:0,84:0:0:84:2986:-268.972,-25.2865,0 0/1:146:85,60:85:3044:60:2127:-147.689,0,-230.181 0/1:8:2,6:2:68:6:212:-17.0166,0,-4.04947 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:23:10,13:10:352:13:460:-34.8117,0,-25.0945 0/0:77:77,0:77:2735:0:0:0,-23.1793,-246.393 0/0:106:106,0:106:3779:0:0:0,-31.9092,-340.31 0/1:142:86,56:86:3059:56:1995:-137.077,0,-232.794 0/1:79:54,25:54:1914:25:884:-56.097,0,-148.755 0/1:84:50,34:50:1796:34:1207:-83.6488,0,-136.636 0/1:47:22,25:22:775:25:892:-66.4513,0,-55.9228 0/1:49:38,11:38:1360:11:392:-20.8677,0,-107.95 0/0:101:100,1:100:3571:1:36:0,-26.8058,-317.999 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5526 chr02 15092464 . G C 29635.4 PASS AB=0.672614;ABP=626.722;AC=21;AF=0.5;AN=42;AO=1621;CIGAR=1X;DP=2410;DPB=2410;DPRA=0;EPP=3505.62;EPPR=1711.96;GTI=3;LEN=1;MEANALT=1.09524;MQM=59.4312;MQMR=59.9327;NS=21;NUMALT=1;ODDS=0.99311;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57940;QR=28119;RO=787;RPL=0;RPP=3522.97;RPPR=1711.96;RPR=1621;RUN=1;SAF=1619;SAP=3505.62;SAR=2;SRF=0;SRP=1711.96;SRR=787;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:27,71:27:964:71:2544:-199.701,0,-57.5759 0/1:47:12,35:12:428:35:1260:-99.2693,0,-24.7104 0/1:120:44,76:44:1572:76:2720:-208.907,0,-105.648 0/1:93:35,58:35:1252:58:2072:-157.872,0,-84.9893 0/1:194:56,138:56:2012:138:4916:-384.126,0,-122.953 0/1:77:19,58:19:672:58:2076:-163.847,0,-37.6275 0/1:157:37,120:37:1332:120:4280:-337.995,0,-72.9207 0/1:189:84,104:84:3000:104:3728:-278.654,0,-213.27 0/1:212:62,150:62:2220:150:5388:-420.336,0,-136.246 0/1:23:8,15:8:288:15:536:-41.6227,0,-19.3437 0/1:12:6,6:6:216:6:216:-16.1603,0,-16.1782 0/1:51:36,15:36:1288:15:536:-33.1898,0,-100.869 0/1:144:70,74:70:2500:74:2636:-194.127,0,-181.905 0/1:125:39,85:39:1384:85:3032:-235.373,0,-87.1714 0/1:268:55,213:55:1968:213:7600:-603.187,0,-96.5466 0/1:66:18,48:18:640:48:1708:-134.128,0,-38.0613 0/1:109:14,95:14:504:95:3408:-274.048,0,-12.8858 0/1:186:62,124:62:2224:124:4432:-342.996,0,-144.433 0/1:69:27,42:27:951:42:1508:-115.201,0,-65.1328 0/1:112:55,57:55:1956:57:2032:-149.427,0,-142.6 0/1:58:21,37:21:748:37:1312:-100.868,0,-50.1856 chr02 15092471 . T A 441.816 PASS AB=0.144421;ABP=2109.38;AC=13;AF=0.309524;AN=42;AO=366;CIGAR=1X;DP=3534;DPB=3534;DPRA=0;EPP=797.769;EPPR=6864.87;GTI=10;LEN=1;MEANALT=1;MQM=59.9317;MQMR=59.5492;NS=21;NUMALT=1;ODDS=101.732;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13112;QR=113285;RO=3168;RPL=363;RPP=771.925;RPPR=6882.23;RPR=3;RUN=1;SAF=3;SAP=771.925;SAR=363;SRF=3166;SRP=6864.87;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:122,13:122:4364:13:464:-1.45846,0,-352.271 0/0:99:94,5:94:3376:5:180:0,-13.2499,-287.381 0/0:157:144,13:144:5141:13:464:0,-5.1642,-420.71 0/1:175:155,20:155:5529:20:716:-12.0875,0,-445.021 0/0:321:304,17:304:10869:17:612:0,-41.2172,-922.47 0/0:117:111,6:111:3969:6:216:0,-15.43,-337.524 0/0:240:228,12:228:8145:12:428:0,-33.3884,-693.746 0/1:259:216,43:216:7733:43:1540:-60.9263,0,-617.926 0/1:266:231,35:231:8285:35:1256:-33.2713,0,-665.274 0/1:29:25,4:25:885:4:144:-4.58375,0,-71.2084 0/1:19:13,6:13:468:6:216:-14.0709,0,-36.7142 0/1:48:33,15:33:1184:15:536:-34.123,0,-92.3731 0/1:191:152,39:152:5441:39:1400:-68.8025,0,-432.306 0/1:172:154,18:154:5474:18:644:-6.51344,0,-440.467 0/0:398:379,19:379:13556:19:680:0,-58.2808,-1158.11 0/0:98:91,7:91:3264:7:248:0,-6.83674,-271.292 0/0:186:176,10:176:6300:10:360:0,-23.2555,-534.211 0/1:281:243,38:243:8674:38:1364:-38.4713,0,-695.844 0/1:100:81,19:81:2884:19:676:-31.065,0,-229.417 0/1:168:152,16:152:5444:16:572:-1.24039,0,-439.292 0/1:75:64,11:64:2300:11:396:-13.3869,0,-184.647 chr02 15092521 . GGAC CGAT,TGAT 161148 PASS AB=0.496113,0.500229;ABP=3.5842,3.01229;AC=25,17;AF=0.595238,0.404762;AN=42;AO=3585,2568;CIGAR=1X2M1X,1X2M1X;DP=6173;DPB=6175;DPRA=0.7687,0.843975;EPP=7787.74,5579.35;EPPR=7.35324;GTI=0;LEN=4,4;MEANALT=2.55,2.61111;MQM=59.4572,59.4977;MQMR=60;NS=21;NUMALT=2;ODDS=40.2386;PAIRED=0,0;PAIREDR=0;PAO=2,4;PQA=72,144;PQR=0;PRO=2;QA=124950,90107;QR=72;RO=2;RPL=1776,1437;RPP=3.66992,82.1879;RPPR=7.35324;RPR=1809,1131;RUN=1,1;SAF=1776,1437;SAP=3.66992,82.1879;SAR=1809,1131;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:308:0,148,160:0:0:148,160:5164,5666:-881.781,-461.835,-417.282,-420.298,0,-372.133 1/2:193:0,110,83:0:0:110,83:3840,2928:-550.937,-238.719,-205.606,-312.568,0,-287.583 1/2:269:0,120,149:0:0:120,149:4209,5205:-765.908,-423.421,-387.297,-342.654,0,-297.8 1/1:316:0,316,0:0:0:316,0:11037,0:-993.042,-95.1255,0,-993.042,-95.1255,-993.042 1/2:538:0,221,315:0:0:221,315:7691,11020:-1521.72,-896.431,-829.903,-625.281,0,-530.457 1/2:334:2,156,173:2:72:156,173:5472,6085:-933.998,-489.354,-448.268,-439.419,0,-393.216 1/2:481:0,241,238:0:0:241,238:8383,8324:-1358.43,-677.1,-604.551,-681.365,0,-609.72 2/2:377:0,0,377:0:0:0,377:0,13199:-1187.15,-1187.15,-1187.15,-113.488,-113.488,0 1/2:434:0,260,174:0:0:260,174:9051,6145:-1235.7,-500.761,-422.493,-735.293,0,-682.914 1/2:45:0,19,26:0:0:19,26:646,912:-126.801,-74.4869,-68.7673,-52.6583,0,-44.8316 1/2:16:0,10,6:0:0:10,6:347,211:-45.7045,-17.5009,-14.4906,-28.5531,0,-26.7469 1/2:62:0,38,24:0:0:38,24:1330,838:-176.623,-68.4507,-57.0115,-108.521,0,-101.296 1/1:360:0,359,0:0:0:359,0:12525,0:-1126.08,-108.07,0,-1126.08,-108.07,-1126.08 1/1:342:0,340,0:0:0:340,0:11641,0:-1046.5,-102.35,0,-1046.5,-102.35,-1046.5 1/2:688:0,335,347:0:0:335,347:11748,12195:-1948.2,-992.443,-891.598,-955.81,0,-851.352 1/2:171:0,75,96:0:0:75,96:2633,3371:-488.093,-273.804,-251.227,-214.64,0,-185.741 1/2:331:0,138,193:0:0:138,193:4819,6715:-937.978,-546.115,-504.572,-392.152,0,-334.053 1/2:324:0,168,155:0:0:168,155:5878,5463:-922.801,-444.777,-394.204,-478.034,0,-431.375 1/2:180:0,131,49:0:0:131,49:4543,1736:-510.727,-141.752,-102.317,-369.327,0,-354.576 1/1:299:0,297,2:0:0:297,2:10383,59:-933.991,-89.4059,0,-929.284,-84.7419,-928.682 1/1:105:0,103,1:0:0:103,1:3610,35:-324.513,-31.0061,0,-321.666,-28.1633,-321.365 chr02 15187910 . T G 22918.2 PASS AB=0.47983;ABP=9.66764;AC=17;AF=0.404762;AN=42;AO=994;CIGAR=1X;DP=2582;DPB=2582;DPRA=1.10808;EPP=3.22876;EPPR=3326.29;GTI=0;LEN=1;MEANALT=1.21053;MQM=59.7907;MQMR=60;NS=21;NUMALT=1;ODDS=24.8878;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35505;QR=55496;RO=1582;RPL=492;RPP=3.22876;RPPR=3326.29;RPR=502;RUN=1;SAF=994;SAP=2161.45;SAR=0;SRF=1582;SRP=3438.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:26,29:26:907:29:1036:-76.9911,0,-65.3877 0/1:101:50,51:50:1752:51:1828:-134.397,0,-127.56 0/1:145:81,64:81:2825:64:2277:-161.523,0,-210.843 0/0:156:153,1:153:5366:1:36:0,-43.0952,-479.533 0/1:226:125,101:125:4366:101:3572:-253.58,0,-325.089 0/1:167:57,110:57:1994:110:3936:-304.16,0,-129.461 0/1:224:112,112:112:3924:112:3985:-291.41,0,-285.931 1/1:87:0,87:0:0:87:3128:-281.745,-26.1896,0 0/1:297:165,132:165:5792:132:4728:-336.24,0,-432.001 0/1:17:6,11:6:216:11:392:-30.5025,0,-14.673 0/1:15:9,6:9:320:6:216:-15.2751,0,-24.6269 0/1:39:17,22:17:581:22:788:-59.5046,0,-40.8703 0/0:131:128,1:128:4447:1:36:0,-35.5944,-396.812 0/0:173:172,0:172:6099:0:0:0,-51.7772,-548.659 0/1:164:88,76:88:3084:76:2732:-196.719,0,-228.424 0/1:120:68,51:68:2395:51:1807:-126.745,0,-179.665 0/1:104:52,52:52:1823:52:1868:-137.062,0,-133.043 0/1:141:73,68:73:2569:68:2444:-177.769,0,-189.015 0/1:69:50,19:50:1751:19:660:-38.9319,0,-137.102 0/0:100:99,1:99:3469:1:36:0,-26.5047,-308.828 0/0:51:51,0:51:1816:0:0:0,-15.3525,-163.721 chr02 15188003 . C T 31538 PASS AB=0.501089;ABP=3.02922;AC=25;AF=0.595238;AN=42;AO=1652;CIGAR=1X;DP=2697;DPB=2697;DPRA=0;EPP=3590.28;EPPR=2267.86;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.914;MQMR=59.9827;NS=21;NUMALT=1;ODDS=11.8677;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58097;QR=37253;RO=1043;RPL=0;RPP=3590.28;RPPR=2267.86;RPR=1652;RUN=1;SAF=0;SAP=3590.28;SAR=1652;SRF=0;SRP=2267.86;SRR=1043;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:92,71:92:3290:71:2499:-176.091,0,-247.25 0/1:105:51,54:51:1805:54:1902:-139.846,0,-131.122 0/1:113:48,65:48:1728:65:2300:-173.242,0,-121.789 1/1:200:0,200:0:0:200:7135:-642.119,-60.206,0 0/1:231:140,90:140:4956:90:3180:-216.332,0,-376.505 0/1:182:79,103:79:2824:103:3492:-259.592,0,-199.612 0/1:204:93,111:93:3336:111:3921:-291.658,0,-239.047 0/0:128:127,1:127:4533:1:32:0,-35.3325,-404.937 0/1:253:124,129:124:4435:129:4531:-331.793,0,-323.16 0/1:11:7,4:7:243:4:114:-7.23038,0,-18.8962 0/1:7:4,3:4:144:3:104:-7.5956,0,-11.2064 0/1:24:13,11:13:468:11:396:-28.758,0,-35.2349 1/1:161:0,161:0:0:161:5639:-507.635,-48.4658,0 1/1:191:0,190:0:0:190:6705:-603.171,-57.1957,0 0/1:213:107,106:107:3836:106:3736:-272.319,0,-281.317 0/1:107:58,49:58:2076:49:1737:-124.402,0,-154.9 0/1:101:47,54:47:1684:54:1902:-141.049,0,-121.443 0/1:64:28,36:28:995:36:1296:-97.678,0,-70.5981 0/1:58:24,34:24:864:34:1177:-88.7725,0,-60.6228 1/1:118:1,117:1:36:117:4089:-364.526,-31.9233,0 1/1:63:0,63:0:0:63:2210:-199.163,-18.9649,0 chr02 15188017 . GG AA,GA 69096 PASS AB=0.513641,0.482686;ABP=6.09092,7.97301;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1768,1048;CIGAR=2X,1M1X;DP=2825;DPB=2825;DPRA=0,0.765769;EPP=1971.53,719.397;EPPR=3.0103;GTI=0;LEN=2,1;MEANALT=2.09524,2.29412;MQM=59.9095,59.9733;MQMR=60;NS=21;NUMALT=2;ODDS=11.749;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62154,37452;QR=70;RO=2;RPL=251,230;RPP=1971.53,719.397;RPPR=3.0103;RPR=1517,818;RUN=1,1;SAF=0,0;SAP=3842.17,2278.71;SAR=1768,1048;SRF=0;SRP=7.35324;SRR=2;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:169:0,73,96:0:0:73,96:2583,3419:-489.383,-278.993,-257.018,-210.745,0,-181.846 1/2:111:0,60,51:0:0:60,51:2120,1827:-322.007,-149.358,-131.297,-173.005,0,-157.652 1/2:116:0,66,50:0:0:66,50:2340,1774:-335.525,-144.889,-125.021,-190.99,0,-175.939 1/1:223:0,223,0:0:0:223,0:7802,0:-702.201,-67.1297,0,-702.201,-67.1297,-702.201 1/2:238:0,96,141:0:0:96,141:3366,5027:-683.737,-409.899,-381,-273.959,0,-231.514 1/2:194:0,114,79:0:0:114,79:4010,2819:-556.319,-229.916,-195.599,-326.506,0,-302.724 1/2:207:0,114,92:0:0:114,92:4001,3296:-594.362,-268.824,-234.507,-325.553,0,-297.858 2/2:129:0,1,127:0:0:1,127:36,4527:-407.295,-404.358,-404.057,-38.2308,-35.2364,0 1/2:261:0,135,124:0:0:135,124:4783,4434:-751.282,-361.65,-321.011,-389.735,0,-352.407 1/2:11:0,4,7:0:0:4,7:144,248:-32.3087,-20.557,-19.3529,-12.1095,0,-10.0023 1/2:7:0,3,4:0:0:3,4:108,144:-20.9217,-12.1095,-11.2064,-9.17208,0,-7.96796 1/2:26:0,13,13:0:0:13,13:455,468:-75.5597,-38.5463,-34.6329,-37.3683,0,-33.4549 1/1:177:0,177,0:0:0:177,0:6284,0:-565.656,-53.2823,0,-565.656,-53.2823,-565.656 1/1:196:0,195,0:0:0:195,0:6649,0:-598.257,-58.7009,0,-598.257,-58.7009,-598.257 1/2:221:0,113,108:0:0:113,108:4007,3879:-643.236,-316.791,-282.775,-326.801,0,-294.29 1/2:114:2,53,59:2:70:53,59:1871,2115:-318.567,-166.812,-156.553,-146.667,0,-134.602 1/2:102:0,56,46:0:0:56,46:1988,1648:-296.729,-134.761,-117.903,-162.324,0,-148.477 1/2:66:0,39,27:0:0:39,27:1379,963:-191.17,-78.8581,-67.118,-112.668,0,-104.54 1/2:63:0,40,23:0:0:40,23:1432,828:-184.697,-67.9204,-55.8792,-117.136,0,-110.212 1/1:126:0,125,1:0:0:125,1:4417,36:-397.321,-37.6288,0,-394.383,-34.3315,-394.082 1/1:68:0,68,0:0:0:68,0:2379,0:-214.365,-20.47,0,-214.365,-20.47,-214.365 chr02 15261681 . GTT ATT,ATC 38388.4 PASS AB=0.465701,0.53125;ABP=16.4165,14.1391;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1045,816;CIGAR=1X2M,1X1M1X;DP=1867;DPB=1867;DPRA=0.747863,0.898973;EPP=2272.2,1774.93;EPPR=7.35324;GTI=0;LEN=1,3;MEANALT=2.05,2.11111;MQM=59.6077,59.6458;MQMR=60;NS=21;NUMALT=2;ODDS=1.88369;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37416,28739;QR=64;RO=2;RPL=0,0;RPP=2272.2,1774.93;RPPR=7.35324;RPR=1045,816;RUN=1,1;SAF=1045,816;SAP=2272.2,1774.93;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:133:0,57,76:0:0:57,76:2021,2667:-382.027,-217.382,-200.223,-164.998,0,-142.119 1/2:65:0,29,35:0:0:29,35:1040,1245:-186.364,-101.537,-92.8073,-84.9007,0,-74.3647 1/2:61:0,22,39:0:0:22,39:774,1383:-176.003,-112.999,-106.376,-63.3573,0,-51.6171 1/1:90:0,90,0:0:0:90,0:3220,0:-290.004,-27.0927,0,-290.004,-27.0927,-290.004 1/2:193:0,77,116:0:0:77,116:2756,4073:-555.301,-330.647,-307.468,-225.009,0,-190.089 1/2:129:0,53,76:0:0:53,76:1904,2678:-373.408,-218.382,-202.427,-155.382,0,-132.504 1/2:151:0,81,70:0:0:81,70:2908,2471:-438.71,-201.569,-177.186,-237.496,0,-216.424 2/2:117:0,0,117:0:0:0,117:0,4145:-372.046,-372.046,-372.046,-35.2205,-35.2205,0 1/2:136:0,64,71:0:0:64,71:2304,2487:-390.052,-202.054,-182.788,-188.072,0,-166.698 1/2:7:0,6,1:0:0:6,1:216,36:-20.9217,-3.29724,-1.49106,-17.9843,0,-17.6833 1/2:13:0,8,5:0:0:8,5:284,178:-38.0032,-14.8635,-12.4553,-23.4951,0,-21.99 1/2:17:0,4,13:0:0:4,13:140,466:-49.7539,-38.3653,-37.1612,-11.7405,0,-7.82707 1/1:111:1,110,0:1:28:110,0:3956,0:-353.413,-30.6146,0,-353.714,-33.1133,-355.932 1/1:89:0,88,1:0:0:88,1:3156,36:-283.813,-26.4906,0,-280.876,-23.1934,-280.575 1/2:121:1,53,67:1:36:53,67:1904,2349:-343.054,-188.044,-175.027,-152.369,0,-135.137 1/2:80:0,44,36:0:0:44,36:1568,1282:-232.379,-104.846,-91.6007,-127.888,0,-117.051 1/2:89:0,41,47:0:0:41,47:1456,1624:-250.196,-131.824,-119.482,-118.439,0,-104.291 1/2:62:0,27,35:0:0:27,35:972,1225:-179.327,-100.014,-91.8866,-79.6686,0,-69.1325 1/2:55:0,45,10:0:0:45,10:1608,358:-160.58,-29.5526,-16.0062,-131.385,0,-128.374 1/1:91:0,90,0:0:0:90,0:3221,0:-289.901,-27.0927,0,-289.901,-27.0927,-289.901 1/1:57:0,56,1:0:0:56,1:2008,36:-180.611,-16.8577,0,-177.687,-13.5757,-177.386 chr02 15261718 . G A 58179.7 PASS AB=0.483309;ABP=14.6808;AC=25;AF=0.595238;AN=42;AO=3002;CIGAR=1X;DP=5694;DPB=5694;DPRA=1.39518;EPP=6521.77;EPPR=5839.93;GTI=0;LEN=1;MEANALT=1;MQM=39.8598;MQMR=57.1352;NS=21;NUMALT=1;ODDS=30.5065;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=106652;QR=95497;RO=2692;RPL=996;RPP=740.891;RPPR=1184.01;RPR=2006;RUN=1;SAF=996;SAP=740.891;SAR=2006;SRF=740;SRP=1187.92;SRR=1952;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:195:112,83:112:3991:83:2955:-192.16,0,-300.581 0/1:101:44,57:44:1563:57:2019:-129.582,0,-110.411 0/1:109:63,46:63:2251:46:1656:-103.87,0,-169.982 1/1:123:1,122:1:36:122:4359:-370.153,-33.4289,0 0/1:291:156,135:156:5506:135:4784:-314.06,0,-408.015 0/1:149:83,66:83:2929:66:2351:-156.979,0,-218.84 0/1:209:93,116:93:3289:116:4109:-275.787,0,-232.395 0/0:197:197,0:197:6996:0:0:0,-59.3029,-628.217 0/1:232:125,107:125:4427:107:3809:-255.396,0,-328.53 0/1:649:365,284:365:12997:284:9989:-538.912,0,-971.881 0/1:614:306,308:306:10849:308:10918:-576.793,0,-788.462 0/1:651:337,314:337:11928:314:11193:-620.424,0,-874.6 1/1:176:1,175:1:36:175:6244:-522.722,-49.3835,0 1/1:147:1,146:1:36:146:5154:-432.016,-40.6531,0 0/1:247:124,123:124:4411:123:4367:-284.559,0,-322.72 0/1:113:49,64:49:1734:64:2288:-163.543,0,-122.298 0/1:117:55,62:55:1936:62:2224:-156.53,0,-139.293 0/1:1027:548,479:548:19442:479:17078:-948.961,0,-1437.15 0/1:119:32,87:32:1140:87:3073:-218.61,0,-67.0113 1/1:145:0,145:0:0:145:5136:-425.649,-43.6494,0 1/1:83:0,83:0:0:83:2946:-239.716,-24.9855,0 chr02 15261746 . T C 32415.2 PASS AB=0.479681;ABP=16.0701;AC=25;AF=0.595238;AN=42;AO=2006;CIGAR=1X;DP=3998;DPB=3998;DPRA=2.05421;EPP=1051.14;EPPR=2091.04;GTI=1;LEN=1;MEANALT=1;MQM=30.0499;MQMR=55.8228;NS=21;NUMALT=1;ODDS=6.58048;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71750;QR=71465;RO=1992;RPL=511;RPP=1051.14;RPPR=2091.04;RPR=1495;RUN=1;SAF=0;SAP=4358.98;SAR=2006;SRF=0;SRP=4328.58;SRR=1992;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:43,26:43:1529:26:932:-49.5331,0,-117.071 0/1:40:11,29:11:396:29:1044:-59.6473,0,-23.6648 0/1:50:26,24:26:932:24:856:-50.0757,0,-69.0885 1/1:37:1,36:1:36:36:1281:-94.4966,-7.54028,0 0/1:111:49,62:49:1760:62:2216:-135.821,0,-124.216 0/1:31:16,15:16:561:15:540:-28.3335,0,-41.3315 0/1:76:34,42:34:1224:42:1494:-80.5278,0,-85.6303 0/0:95:95,0:95:3393:0:0:0,-28.5978,-305.248 0/1:113:62,51:62:2224:51:1820:-110.759,0,-166.369 0/1:651:374,277:374:13428:277:9922:-524.585,0,-1007.47 0/1:611:312,299:312:11193:299:10699:-552.469,0,-819.746 0/1:639:331,308:331:11865:308:11008:-607.578,0,-872.384 1/1:67:1,66:1:36:66:2357:-173.775,-16.5712,0 1/1:63:0,63:0:0:63:2249:-171.27,-18.9649,0 0/1:133:62,71:62:2220:71:2548:-154.646,0,-159.304 0/1:37:17,20:17:612:20:720:-46.4374,0,-44.2468 0/1:31:9,22:9:324:22:788:-53.4325,0,-20.1735 0/1:982:527,455:527:18944:455:16249:-884.709,0,-1403.37 0/1:68:22,46:22:788:46:1643:-104.194,0,-50.6728 1/1:59:0,59:0:0:59:2124:-153.876,-17.7608,0 1/1:35:0,35:0:0:35:1260:-86.9918,-10.5361,0 chr02 15261914 . T A 42108.7 PASS AB=0.535541;ABP=32.4921;AC=17;AF=0.404762;AN=42;AO=1751;CIGAR=1X;DP=4124;DPB=4124;DPRA=0.988515;EPP=3796.58;EPPR=5153.74;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.996;MQMR=59.9848;NS=21;NUMALT=1;ODDS=25.5735;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62102;QR=83296;RO=2372;RPL=955;RPP=34.3621;RPPR=117.732;RPR=796;RUN=1;SAF=956;SAP=35.1558;SAR=795;SRF=1363;SRP=117.732;SRR=1009;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:263:133,130:133:4700:130:4647:-339.222,0,-343.994 0/1:95:53,42:53:1869:42:1503:-106.967,0,-139.889 0/1:166:82,84:82:2891:84:2984:-218.82,0,-210.455 0/0:233:233,0:233:8205:0:0:0,-70.14,-738.468 0/1:333:140,193:140:4945:193:6873:-518.398,0,-344.963 0/1:176:71,105:71:2472:105:3728:-282.741,0,-169.753 0/1:263:136,127:136:4748:127:4483:-324.468,0,-348.316 1/1:310:0,309:0:0:309:10951:-985.137,-93.0183,0 0/1:404:176,228:176:6177:228:8050:-602.909,0,-434.421 0/1:49:21,28:21:730:28:991:-74.7531,0,-51.269 0/1:11:6,5:6:216:5:176:-12.8737,0,-16.4792 0/1:54:23,31:23:816:31:1084:-81.6105,0,-57.5061 0/0:226:226,0:226:7943:0:0:0,-68.0328,-714.748 0/0:292:291,1:291:10218:1:36:0,-84.3025,-915.969 0/1:307:122,185:122:4317:185:6539:-496.183,0,-296.293 0/1:93:52,41:52:1828:41:1456:-103.339,0,-136.802 0/1:115:51,64:51:1803:64:2257:-168.774,0,-127.933 0/1:236:103,133:103:3586:133:4736:-355.356,0,-251.907 0/1:122:79,43:79:2764:43:1536:-101.807,0,-212.277 0/0:240:238,2:238:8359:2:72:0,-65.4105,-745.497 0/0:136:136,0:136:4709:0:0:0,-40.9401,-423.98 chr02 15294953 . G A 10798.7 PASS AB=0.68693;ABP=202.72;AC=17;AF=0.404762;AN=42;AO=569;CIGAR=1X;DP=926;DPB=926;DPRA=1.60389;EPP=1238.58;EPPR=726.987;GTI=3;LEN=1;MEANALT=1;MQM=59.7575;MQMR=59.3613;NS=21;NUMALT=1;ODDS=2.87287;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20340;QR=12755;RO=357;RPL=0;RPP=1238.58;RPPR=726.987;RPR=569;RUN=1;SAF=569;SAP=1238.58;SAR=0;SRF=357;SRP=778.226;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:11,40:11:366:40:1405:-111.28,0,-17.906 0/1:42:4,38:4:144:38:1364:-110.417,0,-0.670357 0/1:73:29,44:29:1040:44:1568:-119.377,0,-71.883 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:78:14,64:14:504:64:2281:-182.014,0,-22.158 0/1:53:15,38:15:525:38:1360:-106.69,0,-31.5652 0/1:42:10,32:10:360:32:1148:-90.9866,0,-20.0445 1/1:117:0,117:0:0:117:4204:-378.539,-35.2205,0 0/1:96:34,62:34:1208:62:2228:-171.885,0,-80.1239 0/1:8:1,7:1:36:7:248:-20.256,0,-1.19003 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:19:3,16:3:108:16:561:-45.0942,0,-4.3556 0/0:48:48,0:48:1720:0:0:0,-14.4494,-154.973 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.055 0/1:52:9,43:9:324:43:1544:-123.543,0,-13.8523 0/1:25:8,17:8:288:17:612:-47.8314,0,-18.7417 0/1:27:10,17:10:360:17:597:-45.9283,0,-24.6131 0/1:47:27,20:27:960:20:716:-50.5631,0,-72.4522 0/1:39:27,12:27:972:12:432:-27.481,0,-76.0577 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1427 chr02 15294974 . A G 5953.99 PASS AB=0.327448;ABP=164.128;AC=25;AF=0.595238;AN=42;AO=354;CIGAR=1X;DP=880;DPB=880;DPRA=0.361215;EPP=771.712;EPPR=1145.2;GTI=3;LEN=1;MEANALT=1;MQM=59.274;MQMR=59.8289;NS=21;NUMALT=1;ODDS=4.78722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12573;QR=18594;RO=526;RPL=354;RPP=771.712;RPPR=1145.2;RPR=0;RUN=1;SAF=354;SAP=771.712;SAR=0;SRF=526;SRP=1145.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:35,10:35:1230:10:356:-18.8349,0,-97.4561 0/1:40:36,4:36:1259:4:144:-1.27242,0,-101.57 0/1:69:40,29:40:1411:29:1044:-73.4476,0,-106.456 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 0/1:72:58,14:58:2064:14:500:-23.6023,0,-164.301 0/1:52:39,13:39:1365:13:468:-26.7497,0,-107.468 0/1:41:31,10:31:1100:10:360:-20.3455,0,-86.9681 0/0:107:107,0:107:3770:0:0:0,-32.2102,-339.504 0/1:91:57,34:57:2023:34:1198:-80.7269,0,-154.949 0/1:7:6,1:6:208:1:36:-1.49107,0,-16.9519 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:18:16,2:16:568:2:72:-1.41818,0,-46.03 1/1:47:0,47:0:0:47:1675:-150.924,-14.1484,0 1/1:37:0,37:0:0:37:1328:-118.876,-11.1381,0 0/1:48:39,9:39:1396:9:311:-13.8743,0,-111.49 0/1:24:16,8:16:564:8:288:-19.0427,0,-43.8656 0/1:26:16,10:16:576:10:360:-24.9141,0,-44.3482 0/1:43:17,26:17:600:26:891:-67.4392,0,-41.3286 0/1:42:12,30:12:424:30:1059:-82.9487,0,-25.8532 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 1/1:25:0,25:0:0:25:875:-79.0099,-7.52575,0 chr02 15354591 . TGTTCTCA CGTTTCTCA,TGTTTCTCA 28169.4 PASS AB=0.472414,0.522414;ABP=10.6778,8.07208;AC=25,17;AF=0.595238,0.404762;AN=42;AO=904,670;CIGAR=1X1M1I6M,2M1I6M;DP=1581;DPB=1778.62;DPRA=1.18516,1.07143;EPP=1966.02,1440.58;EPPR=0;GTI=1;LEN=9,1;MEANALT=2.1,2.3125;MQM=33.5088,59.5015;MQMR=0;NS=21;NUMALT=2;ODDS=0.307178;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29805,23846;QR=0;RO=0;RPL=0,2;RPP=1966.02,1440.58;RPPR=0;RPR=904,668;RUN=1,1;SAF=904,670;SAP=1966.02,1457.9;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:82:0,44,35:0:0:44,35:1458,1256:-209.507,-102.451,-89.2052,-107.09,0,-96.5535 1/2:74:0,30,44:0:0:30,44:973,1572:-199.04,-128.486,-119.455,-70.8741,0,-57.6288 1/2:86:0,51,34:0:0:51,34:1683,1212:-221.578,-98.7527,-83.4002,-122.954,0,-112.719 1/1:85:0,85,0:0:0:85,0:2816,0:-232.04,-25.5876,0,-232.04,-25.5876,-232.04 1/2:231:0,109,122:0:0:109,122:3631,4308:-617.244,-351.083,-318.271,-266.489,0,-229.763 1/2:73:0,36,37:0:0:36,37:1178,1312:-192.936,-107.207,-96.3703,-86.0543,0,-74.9162 1/2:138:0,78,60:0:0:78,60:2493,2129:-354.479,-173.677,-150.197,-181.128,0,-163.067 2/2:64:0,0,64:0:0:0,64:0,2288:-206.137,-206.137,-206.137,-19.2659,-19.2659,0 1/2:140:0,66,73:0:0:66,73:2267,2600:-379.675,-211.937,-192.069,-167.743,0,-145.768 1/2:5:0,1,4:0:0:1,4:32,144:-14.399,-12.1048,-11.8037,-2.59808,0,-1.39396 1/2:6:0,1,5:0:0:1,5:33,176:-17.0694,-14.6799,-14.3788,-2.69805,0,-1.1929 1/2:11:0,5,6:0:0:5,6:149,216:-28.4948,-17.9843,-16.4792,-10.8202,0,-9.01403 1/1:138:0,137,0:0:0:137,0:4518,0:-372.164,-41.2411,0,-372.164,-41.2411,-372.164 1/1:37:0,37,0:0:0:37,0:1228,0:-101.352,-11.1381,0,-101.352,-11.1381,-101.352 1/2:109:0,44,64:0:0:44,64:1461,2269:-291.83,-184.956,-171.71,-106.995,0,-87.7292 1/2:97:0,35,62:0:0:35,62:1207,2208:-269.821,-180.286,-169.75,-89.8658,0,-71.202 1/2:65:0,29,36:0:0:29,36:1017,1292:-181.126,-105.729,-96.9992,-75.7355,0,-64.8985 1/2:25:0,9,16:0:0:9,16:284,576:-67.8409,-47.3134,-44.6041,-20.8407,0,-16.0242 1/2:18:0,10,8:0:0:10,8:329,288:-47.7112,-23.8529,-20.8426,-24.191,0,-21.7828 1/1:82:0,82,0:0:0:82,0:2570,0:-210.355,-24.6845,0,-210.355,-24.6845,-210.355 1/1:15:0,15,0:0:0:15,0:478,0:-39.4124,-4.51545,0,-39.4124,-4.51545,-39.4124 chr02 15354601 . C T 14075.9 PASS AB=0.47382;ABP=9.94596;AC=25;AF=0.595238;AN=42;AO=902;CIGAR=1X;DP=1581;DPB=1581;DPRA=1.14773;EPP=1875.78;EPPR=1372.88;GTI=1;LEN=1;MEANALT=1.05;MQM=33.4911;MQMR=59.5428;NS=21;NUMALT=1;ODDS=0.175759;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32364;QR=24217;RO=678;RPL=10;RPP=1875.78;RPPR=1372.88;RPR=892;RUN=1;SAF=902;SAP=1961.68;SAR=0;SRF=678;SRP=1475.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:35,46:35:1244:46:1652:-107.346,0,-87.8243 0/1:77:47,30:47:1688:30:1080:-60.5345,0,-128.987 0/1:87:35,52:35:1230:52:1865:-119.843,0,-84.4152 1/1:85:0,85:0:0:85:3056:-241.99,-25.5876,0 0/1:232:124,108:124:4427:108:3868:-238.869,0,-328.676 0/1:71:36,35:36:1292:35:1260:-77.2626,0,-95.1744 0/1:137:59,78:59:2120:78:2804:-175.258,0,-149.788 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.67 0/1:140:72,68:72:2580:68:2444:-155.25,0,-190.305 0/1:5:4,1:4:144:1:36:-1.54939,0,-11.8037 0/1:6:5,1:5:176:1:36:-1.31746,0,-14.3788 0/1:10:5,5:5:180:5:180:-10.1501,0,-13.5418 1/1:134:0,134:0:0:134:4816:-379.582,-40.338,0 1/1:37:0,37:0:0:37:1328:-105.395,-11.1381,0 0/1:112:67,45:67:2364:45:1603:-92.8704,0,-179.255 0/1:98:63,35:63:2256:35:1247:-72.8635,0,-173.767 0/1:66:36,29:36:1280:29:1044:-65.7589,0,-95.5785 0/1:25:16,9:16:576:9:324:-17.5215,0,-44.6041 0/1:18:8,10:8:288:10:360:-22.7619,0,-20.8426 1/1:80:0,80:0:0:80:2857:-217.987,-24.0824,0 1/1:14:0,14:0:0:14:504:-38.7294,-4.21442,0 chr02 15813004 . C T 44191.2 PASS AB=0.56413;ABP=68.7398;AC=28;AF=0.666667;AN=42;AO=2115;CIGAR=1X;DP=2922;DPB=2922;DPRA=0;EPP=4338.79;EPPR=1686.59;GTI=1;LEN=1;MEANALT=1;MQM=59.9726;MQMR=59.9963;NS=21;NUMALT=1;ODDS=11.1173;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75376;QR=28722;RO=807;RPL=2085;RPP=4338.79;RPPR=1686.59;RPR=30;RUN=1;SAF=0;SAP=4595.67;SAR=2115;SRF=0;SRP=1755.39;SRR=807;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:171:68,103:68:2391:103:3640:-275.898,0,-163.967 0/1:144:52,92:52:1857:92:3300:-253.87,0,-124.059 0/1:115:35,80:35:1256:80:2866:-223.558,0,-78.7268 0/1:201:86,115:86:3024:115:4116:-310.117,0,-211.88 0/1:257:102,155:102:3626:155:5516:-419.2,0,-249.178 0/1:161:87,74:87:3105:74:2649:-190.189,0,-231.21 1/1:262:0,262:0:0:262:9352:-841.643,-78.8699,0 0/1:97:52,45:52:1860:45:1612:-116.17,0,-138.48 1/1:307:1,306:1:36:306:10893:-976.654,-88.8179,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:8:2,6:2:72:6:211:-16.9239,0,-4.42848 0/1:56:22,34:22:754:34:1216:-92.8889,0,-51.3156 1/1:139:1,138:1:21:138:4933:-442.019,-39.7432,0 1/1:179:2,177:2:72:177:6304:-560.615,-47.0476,0 0/1:180:81,99:81:2900:99:3541:-264.712,0,-207.05 0/1:128:66,62:66:2364:62:2160:-156.128,0,-174.487 0/1:158:80,78:80:2872:78:2781:-202.968,0,-211.154 0/1:94:49,45:49:1756:45:1605:-116.441,0,-130.027 0/1:70:20,50:20:720:50:1788:-140.131,0,-44.0567 1/1:135:1,134:1:36:134:4733:-422.527,-37.0408,0 1/1:52:0,52:0:0:52:1872:-168.758,-15.6536,0 chr02 15909359 . TTT ATC 18649.1 PASS AB=0.333333;ABP=472.048;AC=25;AF=0.595238;AN=42;AO=974;CIGAR=1X1M1X;DP=2405;DPB=2419.67;DPRA=0.847388;EPP=1171.63;EPPR=15.3275;GTI=2;LEN=3;MEANALT=1.15;MQM=59.4394;MQMR=60;NS=21;NUMALT=1;ODDS=8.10143;PAIRED=0;PAIREDR=0;PAO=22;PQA=780;PQR=0;PRO=22;QA=34218;QR=49973;RO=1428;RPL=969;RPP=2074.82;RPPR=3077.87;RPR=5;RUN=1;SAF=120;SAP=1204.13;SAR=854;SRF=756;SRP=13.7399;SRR=672;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:79,19:79:2771:19:659:-29.7002,0,-220.131 0/1:130:84,45:84:2930:45:1565:-102.078,0,-224.886 0/1:94:66,28:66:2334:28:988:-60.7552,0,-181.858 1/1:55:0,55:0:0:55:1922:-173.18,-16.5567,0 0/1:238:175,63:175:6096:63:2213:-127.521,0,-476.925 0/1:102:72,30:72:2518:30:1076:-66.2454,0,-195.983 0/1:221:166,55:166:5803:55:1964:-109.862,0,-455.684 0/0:134:134,0:134:4668:0:0:0,-40.338,-420.291 0/1:268:147,121:147:5121:121:4229:-300.119,0,-380.365 0/1:14:9,5:9:322:5:180:-11.9778,0,-24.7502 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/1:72:50,22:50:1738:22:762:-47.0181,0,-134.836 1/1:88:1,87:1:36:87:3114:-277.015,-23.1856,0 1/1:51:0,51:0:0:51:1796:-161.727,-15.3525,0 0/1:160:117,43:117:4120:43:1518:-88.6473,0,-322.824 0/1:127:68,59:68:2412:59:2030:-144.721,0,-179.105 0/1:129:80,48:80:2824:48:1653:-110.267,0,-215.619 0/1:175:114,60:114:3982:60:2087:-134.809,0,-305.836 0/1:105:57,48:57:1974:48:1691:-120.655,0,-146.14 1/1:80:0,80:0:0:80:2820:-253.821,-24.0824,0 1/1:53:0,53:0:0:53:1879:-169.003,-15.9546,0 chr02 15911951 . TAAA CAAG,TAAG 43889.8 PASS AB=0.461632,0.531669;ABP=24.0056,17.314;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1182,968;CIGAR=1X2M1X,3M1X;DP=2164;DPB=2164;DPRA=1.08895,1.27122;EPP=2569.69,2105;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.4,2.5625;MQM=54.0423,59.656;MQMR=0;NS=21;NUMALT=2;ODDS=18.4755;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41687,34598;QR=0;RO=0;RPL=1182,968;RPP=2569.69,2105;RPPR=0;RPR=0,0;RUN=1,1;SAF=1182,968;SAP=2569.69,2105;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:153:0,81,72:0:0:81,72:2846,2569:-440.819,-209.759,-185.376,-231.413,0,-209.739 1/2:127:0,70,57:0:0:70,57:2481,2040:-367.737,-166.387,-145.314,-201.706,0,-184.547 1/2:130:0,61,69:0:0:61,69:2139,2480:-375.04,-202.669,-184.306,-172.723,0,-151.952 1/1:95:0,93,0:0:0:93,0:3280,0:-294.408,-27.9958,0,-294.408,-27.9958,-294.408 1/2:240:0,93,147:0:0:93,147:3270,5237:-692.143,-426.867,-398.871,-265.628,0,-221.377 1/2:60:0,32,28:0:0:32,28:1123,1008:-172.944,-82.1696,-72.5366,-91.1277,0,-82.6988 1/2:91:0,43,47:0:0:43,47:1512,1673:-258.374,-136.313,-123.369,-122.054,0,-107.905 2/2:95:0,0,95:0:0:0,95:0,3400:-306.178,-306.178,-306.178,-28.5979,-28.5979,0 1/2:69:0,32,37:0:0:32,37:1127,1318:-199.27,-107.781,-98.1476,-91.8425,0,-80.7043 1/2:19:0,10,9:0:0:10,9:343,320:-54.2289,-26.4331,-23.4228,-28.145,0,-25.4358 1/2:12:0,9,3:0:0:9,3:322,108:-35.3527,-9.17208,-6.46281,-26.5397,0,-25.6366 1/2:49:0,21,27:0:0:21,27:754,972:-140.615,-79.3719,-73.0503,-61.3021,0,-53.1743 1/1:55:0,55,0:0:0:55,0:1957,0:-176.237,-16.5567,0,-176.237,-16.5567,-176.237 1/1:153:0,153,0:0:0:153,0:5374,0:-482.152,-46.0576,0,-482.152,-46.0576,-482.152 1/2:279:0,120,155:0:0:120,155:4241,5527:-794.91,-450.284,-414.161,-344.642,0,-297.983 1/2:123:0,50,71:0:0:50,71:1765,2542:-350.611,-207.303,-192.251,-143.309,0,-121.936 1/2:150:0,65,84:0:0:65,84:2271,3008:-429.402,-245.209,-225.642,-184.186,0,-158.899 1/2:79:0,32,47:0:0:32,47:1121,1680:-228.148,-137.32,-127.687,-91.1795,0,-77.0311 1/2:61:0,39,20:0:0:39,20:1393,716:-171.671,-58.408,-46.6678,-113.281,0,-107.261 1/1:83:0,82,0:0:0:82,0:2902,0:-260.719,-24.6845,0,-260.719,-24.6845,-260.719 1/1:41:0,41,0:0:0:41,0:1466,0:-131.894,-12.3422,0,-131.894,-12.3422,-131.894 chr02 15912004 . A C 33780.9 PASS AB=0.489362;ABP=5.18177;AC=25;AF=0.595238;AN=42;AO=1742;CIGAR=1X;DP=3041;DPB=3041;DPRA=0.844412;EPP=3682.2;EPPR=2724.54;GTI=0;LEN=1;MEANALT=1.25;MQM=59.9868;MQMR=59.9753;NS=21;NUMALT=1;ODDS=5.37854;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62040;QR=46121;RO=1293;RPL=1730;RPP=3682.2;RPPR=2724.54;RPR=12;RUN=1;SAF=0;SAP=3785.72;SAR=1742;SRF=0;SRP=2810.72;SRR=1293;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:302:161,140:161:5710:140:4988:-358.101,0,-423.051 0/1:204:119,85:119:4227:85:3017:-210.35,0,-319.203 0/1:127:60,67:60:2147:67:2364:-174.787,0,-155.266 1/1:160:1,159:1:36:159:5667:-506.553,-44.5665,0 0/1:341:161,178:161:5763:178:6366:-470.62,0,-416.376 0/1:190:92,98:92:3295:98:3500:-258.016,0,-238.796 0/1:247:142,104:142:5042:104:3695:-258.341,0,-379.516 0/0:170:170,0:170:6079:0:0:0,-51.1751,-547.212 0/1:217:104,113:104:3724:113:4035:-297.824,0,-270.038 0/1:23:7,16:7:252:16:576:-45.2513,0,-16.1053 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:39:16,23:16:568:23:796:-60.2153,0,-39.7117 1/1:166:0,166:0:0:166:5897:-530.844,-49.971,0 1/1:159:0,159:0:0:159:5668:-510.24,-47.8638,0 0/1:202:102,99:102:3648:99:3543:-258.211,0,-267.658 0/1:83:30,53:30:1067:53:1860:-142.69,0,-71.3557 0/1:154:94,60:94:3343:60:2128:-145.43,0,-254.73 0/1:28:15,12:15:536:12:428:-30.5097,0,-40.2278 0/1:45:15,30:15:540:30:1076:-83.6065,0,-35.3902 1/1:133:0,133:0:0:133:4752:-427.839,-40.037,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 chr02 15916439 . G A 23245.5 PASS AB=0.467098;ABP=19.0144;AC=17;AF=0.404762;AN=42;AO=988;CIGAR=1X;DP=2625;DPB=2625;DPRA=0.854167;EPP=2131.09;EPPR=3514.41;GTI=0;LEN=1;MEANALT=1;MQM=59.9251;MQMR=60;NS=21;NUMALT=1;ODDS=6.197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35273;QR=58387;RO=1637;RPL=446;RPP=23.2657;RPPR=32.4598;RPR=542;RUN=1;SAF=444;SAP=24.9888;SAR=544;SRF=739;SRP=36.5454;SRR=898;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:60,48:60:2156:48:1728:-123.294,0,-161.796 0/1:92:50,42:50:1785:42:1508:-108.32,0,-133.236 0/1:107:57,50:57:2031:50:1784:-128.633,0,-150.852 0/0:159:159,0:159:5660:0:0:0,-47.8638,-509.521 0/1:258:142,116:142:5029:116:4146:-295.648,0,-375.095 0/1:80:42,38:42:1504:38:1345:-97.2658,0,-111.572 0/1:173:92,81:92:3268:81:2912:-210.236,0,-242.262 1/1:189:0,189:0:0:189:6717:-604.048,-56.8947,0 0/1:192:95,97:95:3384:97:3452:-253.038,0,-246.976 0/1:25:9,16:9:324:16:561:-43.2914,0,-21.9801 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/1:22:18,4:18:631:4:144:-6.69096,0,-50.493 0/0:129:129,0:129:4600:0:0:0,-38.8329,-414.164 0/0:135:134,1:134:4776:1:36:0,-37.0408,-426.398 0/1:233:112,121:112:3974:121:4344:-320.994,0,-287.71 0/1:81:37,44:37:1313:44:1565:-116.756,0,-94.0863 0/1:77:38,39:38:1360:39:1400:-103.12,0,-99.5213 0/1:153:84,69:84:3000:69:2466:-176.136,0,-224.175 0/1:95:68,27:68:2436:27:953:-57.4855,0,-190.897 0/0:212:210,2:210:7532:2:72:0,-56.9816,-671.082 0/0:99:98,1:98:3516:1:36:0,-26.2037,-313.051 chr02 15943082 . G A 13679.9 PASS AB=0.515291;ABP=5.66654;AC=18;AF=0.428571;AN=42;AO=770;CIGAR=1X;DP=1602;DPB=1602;DPRA=1.91927;EPP=1666.37;EPPR=1792.35;GTI=1;LEN=1;MEANALT=1;MQM=59.5935;MQMR=59.8714;NS=21;NUMALT=1;ODDS=10.0494;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27543;QR=29722;RO=832;RPL=1;RPP=1666.37;RPPR=1792.35;RPR=769;RUN=1;SAF=770;SAP=1675.04;SAR=0;SRF=832;SRP=1809.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:29,44:29:1040:44:1576:-120.139,0,-71.9392 0/1:50:24,26:24:856:26:932:-69.1336,0,-62.3096 0/1:70:48,22:48:1716:22:784:-49.8118,0,-133.651 0/1:86:39,47:39:1396:47:1688:-126.301,0,-100.051 0/1:128:56,72:56:1985:72:2563:-192.272,0,-140.391 0/1:108:44,64:44:1580:64:2282:-173.113,0,-109.972 0/1:197:82,115:82:2936:115:4120:-311.592,0,-205.171 1/1:95:0,95:0:0:95:3396:-305.85,-28.5979,0 0/1:184:100,84:100:3579:84:2998:-214.435,0,-266.82 0/1:11:8,3:8:284:3:108:-6.76384,0,-22.592 0/1:8:1,7:1:36:7:248:-20.2411,0,-1.19003 0/1:19:12,7:12:432:7:252:-17.3094,0,-33.5016 0/0:71:70,1:70:2497:1:36:0,-17.7749,-221.383 0/0:75:75,0:75:2653:0:0:0,-22.5772,-239.005 0/1:91:42,49:42:1504:49:1756:-130.783,0,-108.249 0/1:40:20,20:20:716:20:720:-53.0876,0,-52.7265 0/1:54:25,29:25:900:29:1036:-77.2523,0,-65.0654 0/1:129:56,73:56:2000:73:2624:-197.574,0,-141.402 0/1:60:48,12:48:1712:12:424:-20.4345,0,-136.304 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.7079 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.694 chr02 15944021 . T C 5937.88 PASS AB=0.370821;ABP=146.07;AC=18;AF=0.428571;AN=42;AO=399;CIGAR=1X;DP=1319;DPB=1319;DPRA=0.802676;EPP=852.143;EPPR=1989.92;GTI=2;LEN=1;MEANALT=1.05882;MQM=59.9298;MQMR=59.1055;NS=21;NUMALT=1;ODDS=4.64551;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14161;QR=32922;RO=919;RPL=2;RPP=852.143;RPPR=1989.92;RPR=397;RUN=1;SAF=399;SAP=869.428;SAR=0;SRF=919;SRP=1998.59;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:61,20:61:2196:20:708:-39.3026,0,-173.133 0/1:56:38,18:38:1356:18:642:-41.252,0,-105.447 0/1:37:28,9:28:1008:9:324:-18.3677,0,-79.8733 0/1:34:21,13:21:752:13:464:-31.8625,0,-57.7139 0/1:122:72,50:72:2584:50:1770:-122.856,0,-195.876 0/1:54:29,25:29:1040:25:896:-64.7047,0,-77.6053 0/1:97:60,37:60:2147:37:1294:-87.5596,0,-164.266 1/1:33:0,33:0:0:33:1175:-106.057,-9.93399,0 0/1:73:49,24:49:1747:24:851:-54.9343,0,-135.292 0/1:11:9,2:9:320:2:72:-3.52539,0,-25.5554 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:16:6,10:6:216:10:356:-27.5648,0,-14.972 0/0:73:73,0:73:2620:0:0:0,-21.9752,-235.85 0/0:50:50,0:50:1800:0:0:0,-15.0515,-162.224 0/1:85:57,28:57:2048:28:985:-63.3748,0,-158.765 0/1:41:28,13:28:1004:13:468:-30.1174,0,-78.2876 0/1:48:27,21:27:968:21:731:-51.661,0,-72.9346 0/1:132:64,68:64:2291:68:2436:-179.759,0,-166.497 0/1:94:67,27:67:2391:27:953:-57.4689,0,-187.053 0/0:99:99,0:99:3522:0:0:0,-29.802,-317.065 0/0:77:77,0:77:2768:0:0:0,-23.1793,-249.317 chr02 15944031 . AAGGA AA 17145.5 PASS AB=0.531556;ABP=12.7404;AC=24;AF=0.571429;AN=42;AO=882;CIGAR=1M3D1M;DP=1442;DPB=913.6;DPRA=2.13485;EPP=1790.18;EPPR=1188.7;GTI=1;LEN=3;MEANALT=1.2;MQM=59.22;MQMR=59.9892;NS=21;NUMALT=1;ODDS=3.47735;PAIRED=0;PAIREDR=0;PAO=3;PQA=106;PQR=106;PRO=3;QA=31231;QR=19427;RO=554;RPL=867;RPP=1790.18;RPPR=276.193;RPR=15;RUN=1;SAF=882;SAP=1918.25;SAR=0;SRF=411;SRP=284.533;SRR=143;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:24,60:24:834:60:2080:-162.149,0,-50.0898 0/1:55:20,35:20:695:35:1244:-95.5553,0,-46.1999 0/1:36:9,27:9:324:27:956:-75.5071,0,-18.6688 0/1:32:13,19:13:447:19:676:-51.4777,0,-30.9245 0/1:118:50,68:50:1780:68:2418:-182.201,0,-124.962 0/1:52:25,27:25:882:27:960:-71.0304,0,-64.0437 0/1:97:38,59:38:1344:59:2104:-160.341,0,-92.0015 0/0:33:33,0:33:1164:0:0:0,-9.93399,-105.067 0/1:156:107,47:107:3716:47:1672:-104.023,0,-287.935 0/1:9:2,7:2:72:7:252:-20.3168,0,-4.12745 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:18:12,6:12:413:6:212:-14.0042,0,-32.08 1/1:69:0,69:0:0:69:2395:-215.713,-20.7711,0 1/1:47:0,47:0:0:47:1676:-151.098,-14.1484,0 0/1:85:29,55:29:1007:55:1952:-150.319,0,-65.3401 0/1:78:49,29:49:1709:29:1032:-69.6671,0,-130.615 0/1:72:44,25:44:1526:25:884:-58.7575,0,-116.525 0/1:133:71,62:71:2507:62:2208:-158.776,0,-185.846 0/1:95:27,68:27:971:68:2428:-189.784,0,-59.1085 1/1:95:0,95:0:0:95:3326:-299.345,-28.5979,0 1/1:73:0,73:0:0:73:2612:-235.261,-21.9752,0 chr02 15971753 . A G 17554 PASS AB=0.488856;ABP=4.46225;AC=24;AF=0.571429;AN=42;AO=962;CIGAR=1X;DP=1763;DPB=1763;DPRA=0.751364;EPP=2091.97;EPPR=1740.19;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9927;MQMR=59.9975;NS=21;NUMALT=1;ODDS=4.00697;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33992;QR=28547;RO=800;RPL=0;RPP=2091.97;RPPR=1740.19;RPR=962;RUN=1;SAF=0;SAP=2091.97;SAR=962;SRF=0;SRP=1740.19;SRR=800;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:37,64:37:1328:64:2283:-175.327,0,-89.4182 0/1:65:26,39:26:936:39:1367:-103.758,0,-64.9925 0/1:128:72,56:72:2584:56:1937:-136.069,0,-194.277 0/1:94:43,51:43:1548:51:1798:-133.804,0,-111.316 0/1:206:110,95:110:3903:95:3369:-241.496,0,-289.531 0/1:78:42,36:42:1499:36:1288:-92.7432,0,-111.723 0/1:163:83,80:83:2947:80:2840:-206.772,0,-216.394 0/0:110:110,0:110:3956:0:0:0,-33.1133,-356.23 0/1:183:93,90:93:3313:90:3199:-233.043,0,-243.299 0/1:11:4,7:4:125:7:248:-19.3529,0,-8.24729 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:28:18,10:18:640:10:356:-23.9524,0,-49.5005 1/1:117:0,117:0:0:117:4122:-371.16,-35.2205,0 1/1:72:0,72:0:0:72:2523:-227.321,-21.6742,0 0/1:96:61,35:61:2169:35:1239:-82.9148,0,-166.576 0/1:25:16,9:16:568:9:320:-21.6166,0,-43.9261 0/1:34:16,18:16:572:18:635:-47.2419,0,-41.5784 0/1:60:32,28:32:1148:28:996:-71.8931,0,-85.568 0/1:69:30,39:30:1072:39:1380:-103.727,0,-76.0214 1/1:70:1,69:1:36:69:2439:-216.168,-17.4738,0 1/1:48:2,46:2:59:46:1617:-140.213,-8.8453,0 chr02 16068179 . AACATTTTTATA AACATTTTCATA,AACACACTTTCATA 21895.1 PASS AB=0.368966,0.618391;ABP=132.76,108.928;AC=24,18;AF=0.571429,0.428571;AN=42;AO=489,589;CIGAR=8M1X3M,1M2I3M1X3M1X3M;DP=1092;DPB=1191.17;DPRA=1.02059,1.26729;EPP=1064.86,1282.01;EPPR=0;GTI=1;LEN=1,14;MEANALT=2.35,2.52941;MQM=59.9959,52.1562;MQMR=0;NS=21;NUMALT=2;ODDS=2.68224;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17488,20602;QR=0;RO=0;RPL=8,0;RPP=996.51,1282.01;RPPR=0;RPR=481,589;RUN=1,1;SAF=8,0;SAP=996.51,1282.01;SAR=481,589;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:72:0,17,53:0:0:17,53:612,1853:-199.972,-150.033,-144.916,-49.9361,0,-33.9815 1/2:29:0,12,15:0:0:12,15:432,532:-78.4853,-43.2344,-39.6221,-35.2571,0,-30.7417 1/2:33:0,17,16:0:0:17,16:608,571:-96.3649,-46.787,-41.6695,-49.9345,0,-45.118 1/2:28:0,6,22:0:0:6,22:216,775:-81.0287,-63.4025,-61.5963,-17.9843,0,-11.3617 1/2:169:0,56,110:0:0:56,110:1982,3835:-472.67,-311.229,-294.371,-161.487,0,-128.374 1/2:37:0,18,18:0:0:18,18:629,641:-103.116,-51.9514,-46.5328,-51.1903,0,-45.7717 1/2:79:0,25,53:0:0:25,53:892,1842:-221.822,-149.101,-141.576,-72.7142,0,-56.7596 2/2:51:0,0,51:0:0:0,51:0,1772:-158.209,-158.209,-158.209,-15.3525,-15.3525,0 1/2:90:0,26,64:0:0:26,64:936,2255:-259.469,-183.094,-175.267,-76.7327,0,-57.4668 1/2:11:0,8,3:0:0:8,3:288,107:-32.5007,-8.99683,-6.58859,-23.8592,0,-22.9561 1/2:11:0,1,10:0:0:1,10:36,341:-30.8846,-27.9454,-27.6443,-3.29724,0,-0.286945 1/2:22:0,8,14:0:0:8,14:288,496:-63.6524,-40.1492,-37.741,-23.8592,0,-19.6447 1/1:34:0,34,0:0:0:34,0:1212,0:-109.386,-10.235,0,-109.386,-10.235,-109.386 1/1:52:0,52,0:0:0:52,0:1868,0:-168.399,-15.6536,0,-168.399,-15.6536,-168.399 1/2:96:0,31,64:0:0:31,64:1097,2249:-272.097,-182.743,-173.411,-89.4335,0,-70.1676 1/2:39:0,17,22:0:0:17,22:612,778:-113.318,-63.3787,-58.2611,-50.2959,0,-43.6733 1/2:41:0,14,27:0:0:14,27:500,931:-116.425,-75.6555,-71.441,-41.1218,0,-32.9939 1/2:60:0,28,32:0:0:28,32:1004,1126:-172.978,-91.0849,-82.656,-82.247,0,-72.6141 1/2:53:0,37,15:0:0:37,15:1332,498:-148.939,-40.234,-29.0959,-108.723,0,-104.208 1/1:51:0,48,0:0:0:48,0:1724,0:-155.108,-14.4494,0,-155.108,-14.4494,-155.108 1/1:34:0,34,0:0:0:34,0:1220,0:-110.107,-10.235,0,-110.107,-10.235,-110.107 chr02 16117085 . C T 79.3833 PASS AB=0.480271;ABP=9.00817;AC=15;AF=0.357143;AN=42;AO=1006;CIGAR=1X;DP=2503;DPB=2503;DPRA=1.48978;EPP=2127.13;EPPR=3195.28;GTI=13;LEN=1;MEANALT=1.1875;MQM=13.4175;MQMR=44.0529;NS=21;NUMALT=1;ODDS=3.70454;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35995;QR=53165;RO=1494;RPL=1;RPP=2178.83;RPPR=3221.18;RPR=1005;RUN=1;SAF=1000;SAP=2135.71;SAR=6;SRF=1491;SRP=3221.18;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:55,75:55:1963:75:2684:-46.8909,0,-135.535 0/0:55:54,1:54:1932:1:36:0,-12.9584,-161.454 0/1:171:73,98:73:2603:98:3515:-61.142,0,-180.353 0/1:142:80,62:80:2817:62:2222:-27.8275,0,-205.256 0/1:224:127,97:127:4514:97:3476:-45.5558,0,-333.009 0/0:36:36,0:36:1258:0:0:0,-10.8371,-107.575 0/0:89:86,2:86:3053:2:72:0,-22.9402,-258.269 1/1:151:0,151:0:0:151:5402:-150.495,-45.4555,0 0/1:344:204,140:204:7287:140:5009:-100.704,0,-546.661 0/1:34:15,19:15:536:19:684:-8.66327,0,-37.0804 0/0:7:7,0:7:248:0:0:0,-2.10721,-21.601 0/1:40:13,27:13:464:27:972:-14.768,0,-29.0366 0/0:169:169,0:169:6042:0:0:0,-50.8741,-535.238 0/1:126:53,72:53:1819:72:2588:-49.811,0,-124.251 0/1:197:98,99:98:3512:99:3564:-54.3193,0,-250.206 0/1:93:41,52:41:1472:52:1853:-45.9066,0,-103.512 0/1:96:55,41:55:1955:41:1432:-34.764,0,-145.209 0/1:113:60,52:60:2135:52:1851:-17.3607,0,-152.007 0/1:64:46,18:46:1626:18:635:-0.6123,0,-124.251 0/0:149:149,0:149:5327:0:0:0,-44.8535,-465.768 0/0:73:73,0:73:2602:0:0:0,-21.9752,-222.441 chr02 16117484 . T C 19404.8 PASS AB=0.444795;ABP=53.3583;AC=23;AF=0.547619;AN=42;AO=1101;CIGAR=1X;DP=2280;DPB=2280;DPRA=0.884426;EPP=2393.8;EPPR=2561;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9591;MQMR=59.9873;NS=21;NUMALT=1;ODDS=4.24063;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39368;QR=42198;RO=1178;RPL=0;RPP=2393.8;RPPR=2561;RPR=1101;RUN=1;SAF=1101;SAP=2393.8;SAR=0;SRF=1178;SRP=2561;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:42,37:42:1512:37:1314:-94.7794,0,-112.593 0/1:76:44,32:44:1576:32:1122:-78.3775,0,-119.253 0/1:151:88,63:88:3148:63:2252:-157.485,0,-238.09 0/1:186:115,71:115:4124:71:2544:-173.219,0,-315.352 0/1:265:150,115:150:5361:115:4120:-291.211,0,-402.804 0/1:73:31,42:31:1112:42:1493:-112.687,0,-78.4162 0/1:131:71,60:71:2544:60:2160:-155.232,0,-189.776 0/0:122:122,0:122:4346:0:0:0,-36.7257,-391.313 0/1:189:106,83:106:3795:83:2961:-209.784,0,-284.853 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:16:9,7:9:324:7:243:-17.391,0,-24.6894 0/1:23:17,6:17:608:6:216:-12.8668,0,-48.1283 1/1:107:0,107:0:0:107:3835:-345.345,-32.2102,0 0/1:150:91,59:91:3264:59:2103:-144.384,0,-248.826 0/1:249:135,113:135:4856:113:4052:-289.851,0,-362.176 0/1:88:48,40:48:1720:40:1432:-102.687,0,-128.595 0/1:125:67,58:67:2400:58:2076:-149.482,0,-178.628 0/1:41:23,18:23:824:18:640:-45.5871,0,-62.1411 0/1:53:14,39:14:504:39:1396:-109.985,0,-29.7435 1/1:84:1,83:1:36:83:2969:-263.844,-21.6882,0 1/1:65:0,65:0:0:65:2332:-210.14,-19.567,0 chr02 16204836 . C T 22605.1 PASS AB=0.538842;ABP=50.7487;AC=23;AF=0.547619;AN=42;AO=2489;CIGAR=1X;DP=4359;DPB=4359;DPRA=1.10931;EPP=5407.81;EPPR=4059.32;GTI=0;LEN=1;MEANALT=1.1;MQM=25.9229;MQMR=43.4491;NS=21;NUMALT=1;ODDS=2.02734;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89076;QR=66336;RO=1868;RPL=6;RPP=5355.82;RPPR=9.72466;RPR=2483;RUN=1;SAF=6;SAP=5355.82;SAR=2483;SRF=896;SRP=9.72466;SRR=972;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:261:109,151:109:3867:151:5420:-271.283,0,-240.805 0/1:186:90,96:90:3199:96:3437:-136.617,0,-195.724 0/1:193:86,107:86:3072:107:3844:-188.915,0,-192.875 0/1:298:116,182:116:4110:182:6508:-330.327,0,-235.018 0/1:480:229,251:229:8116:251:8958:-436.933,0,-486.72 0/1:161:87,74:87:3084:74:2655:-100.549,0,-195.409 0/1:381:182,198:182:6439:198:7104:-286.978,0,-394.211 0/0:188:188,0:188:6684:0:0:0,-56.5936,-536.279 0/1:228:136,92:136:4868:92:3300:-163.977,0,-338.766 0/1:42:17,25:17:612:25:896:-43.5659,0,-34.4729 0/1:14:3,11:3:108:11:396:-18.2166,0,-5.86033 0/1:92:53,39:53:1899:39:1385:-58.8911,0,-131.308 1/1:168:1,167:1:27:167:5987:-386.732,-48.0492,0 0/1:229:81,148:81:2883:148:5285:-268.687,0,-151.093 0/1:356:163,193:163:5795:193:6883:-337.138,0,-355.389 0/1:181:84,97:84:2976:97:3488:-185.275,0,-188.073 0/1:160:75,85:75:2648:85:3044:-159.886,0,-164.529 0/1:225:103,122:103:3639:122:4355:-200.713,0,-217.681 0/1:156:64,92:64:2274:92:3270:-167.705,0,-140.674 1/1:236:1,235:1:36:235:8417:-516.872,-67.6969,0 1/1:124:0,124:0:0:124:4444:-247.677,-37.3277,0 chr02 16204857 . AT GC 6589.22 PASS AB=0.316394;ABP=844.257;AC=18;AF=0.428571;AN=42;AO=1000;CIGAR=2X;DP=3498;DPB=3498;DPRA=1.40901;EPP=2174.48;EPPR=5418.66;GTI=3;LEN=2;MEANALT=1.22222;MQM=28.878;MQMR=25.8966;NS=21;NUMALT=1;ODDS=1.6335;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35109;QR=85603;RO=2494;RPL=1000;RPP=2174.48;RPPR=5418.66;RPR=0;RUN=1;SAF=0;SAP=2174.48;SAR=1000;SRF=0;SRP=5418.66;SRR=2494;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:195:151,42:151:5225:42:1442:-46.4179,0,-285.936 0/1:137:97,39:97:3381:39:1347:-47.1588,0,-152.164 0/1:148:107,41:107:3665:41:1461:-61.0046,0,-199.227 0/1:258:182,76:182:6304:76:2622:-113.295,0,-337.762 0/1:419:256,163:256:8707:163:5693:-288.091,0,-456.53 0/1:112:76,36:76:2565:36:1288:-48.7681,0,-116.595 0/1:278:198,80:198:6965:80:2828:-97.1705,0,-315.369 1/1:90:0,90:0:0:90:3212:-218.73,-27.0927,0 0/1:152:91,61:91:3028:61:2144:-116.353,0,-174.204 0/1:36:25,11:25:844:11:385:-15.6606,0,-43.5911 0/0:11:11,0:11:385:0:0:0,-3.31133,-22.3118 0/1:54:39,15:39:1283:15:524:-20.3516,0,-68.6825 0/0:165:164,1:164:5707:1:36:0,-46.7672,-373.395 0/1:215:150,65:150:5081:65:2263:-99.3455,0,-270.239 0/1:288:193,95:193:6689:95:3347:-156.684,0,-350.935 0/1:143:97,46:97:3367:46:1613:-78.7017,0,-193.015 0/1:141:85,56:85:2909:56:1967:-107.874,0,-161.1 0/1:177:121,55:121:4102:55:1953:-80.6618,0,-208.626 0/1:120:92,28:92:3081:28:984:-36.3105,0,-174.319 0/0:237:237,0:237:8134:0:0:0,-71.3441,-515.787 0/0:122:122,0:122:4181:0:0:0,-36.7257,-241.439 chr02 16204863 . CACGA GACAG,GACAA 37805.3 PASS AB=0.677712,0.3188;ABP=789.467,820.642;AC=24,18;AF=0.571429,0.428571;AN=42;AO=2475,1004;CIGAR=1X2M2X,1X2M1X1M;DP=3491;DPB=3491;DPRA=1.88944,1.41871;EPP=5377.4,2183.17;EPPR=0;GTI=5;LEN=5,5;MEANALT=2.4,2.55556;MQM=25.2327,28.9044;MQMR=0;NS=21;NUMALT=2;ODDS=3.56621;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=87094,28951;QR=0;RO=0;RPL=2475,1004;RPP=5377.4,2183.17;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5377.4,2183.17;SAR=2475,1004;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:197:0,153,44:0:0:153,44:5409,1287:-396.301,-91.0175,-44.9599,-305.544,0,-292.299 1/2:137:0,97,40:0:0:97,40:3436,1034:-235.264,-70.4307,-41.2308,-165.06,0,-153.019 1/2:150:0,107,41:0:0:107,41:3778,1209:-300.123,-85.4768,-53.2666,-214.672,0,-202.33 1/2:259:0,183,75:0:0:183,75:6439,2187:-518.809,-154.332,-99.2434,-364.536,0,-341.958 1/2:416:0,250,164:0:0:250,164:8802,4826:-838.804,-341.181,-265.924,-497.65,0,-448.281 1/2:112:0,75,37:0:0:75,37:2645,955:-191.407,-65.0352,-42.4579,-126.597,0,-115.459 1/2:271:0,191,79:0:0:191,79:6699,2034:-454.608,-136.866,-79.3696,-317.735,0,-293.954 2/2:90:0,0,89:0:0:0,89:0,2466:-197.89,-197.89,-197.89,-26.7917,-26.7917,0 1/2:149:0,87,61:0:0:87,61:3016,1890:-321.023,-135.662,-109.472,-185.375,0,-167.012 1/2:35:0,24,11:0:0:24,11:832,302:-66.2946,-21.137,-13.9123,-45.4015,0,-42.0902 1/1:11:0,11,0:0:0:11,0:388,0:-22.3607,-3.31133,0,-22.3607,-3.31133,-22.3607 1/2:56:0,41,15:0:0:41,15:1426,418:-106.723,-29.2941,-16.9518,-77.676,0,-73.1606 1/1:167:0,166,1:0:0:166,1:5833,30:-382.902,-49.971,0,-380.774,-47.5728,-380.473 1/2:216:0,151,65:0:0:151,65:5280,1904:-430.625,-134.668,-89.2124,-296.216,0,-276.649 1/2:291:0,195,95:0:0:195,95:6881,2824:-586.196,-199.91,-141.209,-386.305,0,-357.707 1/2:146:0,99,46:0:0:99,46:3442,1420:-312.215,-101.809,-72.0067,-210.471,0,-196.624 1/2:136:0,79,56:0:0:79,56:2763,1762:-292.065,-127.276,-103.494,-164.811,0,-147.953 1/2:175:0,118,57:0:0:118,57:4174,1578:-327.603,-109.685,-74.1634,-218.162,0,-201.004 1/2:121:0,93,28:0:0:93,28:3302,825:-247.289,-58.8539,-30.8581,-188.699,0,-180.27 1/1:235:0,234,0:0:0:234,0:8263,0:-510.693,-70.441,0,-510.693,-70.441,-510.693 1/1:121:0,121,0:0:0:121,0:4286,0:-237.64,-36.4246,0,-237.64,-36.4246,-237.64 chr02 16204872 . C A 4615.94 PASS AB=0.368358;ABP=504.404;AC=20;AF=0.47619;AN=42;AO=1228;CIGAR=1X;DP=3417;DPB=3417;DPRA=0;EPP=2669.58;EPPR=4752.02;GTI=4;LEN=1;MEANALT=1.09524;MQM=23.8388;MQMR=27.658;NS=21;NUMALT=1;ODDS=0.508465;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43947;QR=78105;RO=2187;RPL=1228;RPP=2669.58;RPPR=4752.02;RPR=0;RUN=1;SAF=0;SAP=2669.58;SAR=1228;SRF=0;SRP=4752.02;SRR=2187;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:193:127,66:127:4548:66:2363:-86.0823,0,-253.538 0/1:133:91,42:91:3263:42:1503:-38.6175,0,-158.984 0/1:146:94,52:94:3372:52:1855:-69.6306,0,-191.803 0/1:255:163,91:163:5801:91:3248:-123.734,0,-325.681 0/1:404:283,121:283:10072:121:4340:-144.053,0,-583.792 0/1:112:73,39:73:2595:39:1404:-39.3803,0,-127.289 0/1:267:156,111:156:5568:111:3984:-127.001,0,-261.809 0/0:86:85,1:85:3040:1:36:0,-23.6097,-205.853 0/1:146:105,41:105:3740:41:1456:-53.4342,0,-230.819 0/1:34:25,9:25:892:9:324:-8.45168,0,-48.7457 0/1:11:6,5:6:212:5:176:-6.269,0,-9.709 0/1:55:41,14:41:1472:14:500:-12.1832,0,-80.2549 0/1:162:84,78:84:3004:78:2800:-122.88,0,-156.033 0/1:213:133,80:133:4746:80:2864:-110.552,0,-263.831 0/1:285:180,105:180:6444:105:3727:-142.431,0,-366.207 0/1:145:89,55:89:3177:55:1967:-87.1439,0,-188.231 0/1:131:82,49:82:2932:49:1760:-76.3918,0,-176.528 0/1:169:103,66:103:3680:66:2364:-84.4636,0,-193.736 0/1:121:84,37:84:3004:37:1324:-44.356,0,-172.879 0/1:230:132,98:132:4719:98:3508:-132.12,0,-233.244 0/1:119:51,68:51:1824:68:2444:-91.1883,0,-71.3911 chr02 16298218 . G C 11421 PASS AB=0.476628;ABP=9.20191;AC=19;AF=0.452381;AN=42;AO=687;CIGAR=1X;DP=1587;DPB=1587;DPRA=1.05223;EPP=1494.81;EPPR=1931.36;GTI=0;LEN=1;MEANALT=1;MQM=47.4192;MQMR=59.9111;NS=21;NUMALT=1;ODDS=14.0892;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24541;QR=32131;RO=900;RPL=0;RPP=1494.81;RPPR=1931.36;RPR=687;RUN=1;SAF=687;SAP=1494.81;SAR=0;SRF=900;SRP=1957.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:60,49:60:2141:49:1751:-123.431,0,-160.099 0/1:70:39,31:39:1400:31:1104:-78.0769,0,-105.227 0/1:55:27,28:27:963:28:1000:-72.705,0,-70.4293 0/1:45:27,18:27:968:18:644:-43.2068,0,-73.891 0/1:150:70,80:70:2493:80:2856:-209.071,0,-179.422 0/1:70:33,37:33:1184:37:1332:-98.5085,0,-85.7962 0/1:104:41,63:41:1457:63:2251:-169.623,0,-100.117 1/1:65:0,65:0:0:65:2316:-207.316,-19.567,0 0/1:103:42,61:42:1493:61:2192:-163.456,0,-103.656 0/1:17:9,8:9:324:8:277:-19.6803,0,-24.3883 0/1:11:6,5:6:216:5:180:-13.151,0,-16.4792 0/1:23:16,7:16:567:7:248:-15.3043,0,-44.437 0/0:76:76,0:76:2720:0:0:0,-22.8783,-245.043 0/1:93:50,43:50:1766:43:1536:-108.884,0,-131.224 0/1:143:83,60:83:2960:60:2126:-145.14,0,-223.567 0/1:56:26,30:26:932:30:1072:-78.7568,0,-67.3412 0/1:55:33,22:33:1188:22:788:-53.6657,0,-90.6719 0/1:102:61,41:61:2165:41:1472:-100.881,0,-164.353 0/1:99:60,39:60:2145:39:1396:-94.1747,0,-163.513 0/0:95:95,0:95:3397:0:0:0,-28.5978,-305.939 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 chr02 16298251 . A G 28241.8 PASS AB=0.421402;ABP=148.424;AC=19;AF=0.452381;AN=42;AO=1296;CIGAR=1X;DP=3428;DPB=3428;DPRA=0.846336;EPP=2817.24;EPPR=4623.9;GTI=0;LEN=1;MEANALT=1.11111;MQM=53.4306;MQMR=59.8717;NS=21;NUMALT=1;ODDS=14.066;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45585;QR=75306;RO=2128;RPL=647;RPP=3.017;RPPR=128.013;RPR=649;RUN=1;SAF=647;SAP=3.017;SAR=649;SRF=889;SRP=128.013;SRR=1239;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:108,89:108:3851:89:3143:-221.285,0,-287.127 0/1:166:96,70:96:3394:70:2466:-171.745,0,-255.172 0/1:125:63,62:63:2234:62:2220:-161.363,0,-163.692 0/1:177:113,64:113:4005:64:2244:-147.379,0,-307.359 0/1:381:227,154:227:8046:154:5406:-368.887,0,-609.438 0/1:130:75,55:75:2619:55:1951:-136.186,0,-196.777 0/1:205:99,106:99:3503:106:3680:-268.368,0,-253.769 1/1:154:0,154:0:0:154:5409:-485.31,-46.3586,0 0/1:238:127,111:127:4476:111:3939:-280.205,0,-331.367 0/1:21:11,10:11:392:10:356:-25.3106,0,-29.2984 0/1:14:7,7:7:252:7:252:-18.7254,0,-18.8145 0/1:46:31,15:31:1104:15:527:-33.4802,0,-85.8233 0/0:228:228,0:228:8085:0:0:0,-68.6348,-727.051 0/1:185:107,78:107:3787:78:2748:-190.465,0,-285.339 0/1:237:142,95:142:5084:95:3332:-225.531,0,-386.353 0/1:141:78,63:78:2778:63:2215:-155.963,0,-207.815 0/1:138:85,53:85:3015:53:1869:-126.318,0,-230.037 0/1:155:96,59:96:3363:59:2059:-137.867,0,-255.606 0/1:151:99,51:99:3459:51:1769:-111.977,0,-265.972 0/0:237:237,0:237:8375:0:0:0,-71.3441,-753.637 0/0:99:99,0:99:3484:0:0:0,-29.802,-313.774 chr02 16298368 . G A 8598.12 PASS AB=0.52859;ABP=8.59763;AC=23;AF=0.547619;AN=42;AO=504;CIGAR=1X;DP=897;DPB=897;DPRA=2.08571;EPP=1097.43;EPPR=856.399;GTI=0;LEN=1;MEANALT=1;MQM=42.625;MQMR=56.1628;NS=21;NUMALT=1;ODDS=1.93362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18038;QR=14001;RO=393;RPL=504;RPP=1097.43;RPPR=856.399;RPR=0;RUN=1;SAF=504;SAP=1097.43;SAR=0;SRF=393;SRP=856.399;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:34,37:34:1212:37:1324:-93.9169,0,-87.3376 0/1:52:25,27:25:892:27:972:-69.8123,0,-64.6381 0/1:32:9,23:9:324:23:828:-63.5676,0,-19.8589 0/1:37:16,21:16:568:21:737:-53.0441,0,-40.2934 0/1:92:39,53:39:1392:53:1895:-137.812,0,-97.7593 0/1:50:25,25:25:885:25:896:-63.7113,0,-64.5975 0/1:60:33,27:33:1176:27:968:-66.594,0,-88.0129 0/0:21:21,0:21:744:0:0:0,-6.32163,-67.1678 0/1:76:34,42:34:1212:42:1499:-109.611,0,-86.4675 0/1:8:6,2:6:212:2:72:-4.31039,0,-17.0011 0/1:8:3,5:3:108:5:180:-13.6598,0,-7.65966 0/1:11:4,7:4:144:7:252:-19.3199,0,-9.95347 1/1:31:0,31:0:0:31:1116:-97.6134,-9.33193,0 0/1:36:12,24:12:432:24:856:-64.1748,0,-28.2968 0/1:97:50,47:50:1781:47:1688:-118.841,0,-130.911 0/1:47:27,20:27:957:20:720:-49.7812,0,-72.1613 0/1:65:33,32:33:1179:32:1140:-81.6173,0,-86.7652 0/1:29:16,13:16:567:13:468:-32.8942,0,-41.9877 0/1:16:5,11:5:180:11:392:-30.0716,0,-11.7277 1/1:43:1,42:1:36:42:1504:-128.855,-9.34702,0 1/1:15:0,15:0:0:15:531:-46.8093,-4.51545,0 chr02 16298685 . GTAC ATAT,GTAT 49590.2 PASS AB=0.499519,0.499038;ABP=3.01448,3.027;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1314,1140;CIGAR=1X2M1X,3M1X;DP=2462;DPB=2462;DPRA=1.15686,1.29881;EPP=2856.33,2469.81;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.05,2.11111;MQM=59.9703,59.957;MQMR=0;NS=21;NUMALT=2;ODDS=3.89402;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46210,40713;QR=0;RO=0;RPL=0,1;RPP=2856.33,2469.81;RPPR=0;RPR=1314,1139;RUN=1,1;SAF=0,0;SAP=2856.33,2478.49;SAR=1314,1140;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:144:0,97,46:0:0:97,46:3399,1629:-409.265,-132.69,-103.49,-276.569,0,-262.721 1/2:96:0,54,42:0:0:54,42:1879,1500:-275.415,-122.637,-106.381,-153.131,0,-140.488 1/2:100:0,53,47:0:0:53,47:1887,1684:-291.495,-137.699,-121.744,-154.154,0,-140.005 1/2:147:0,84,62:0:0:84,62:2964,2220:-422.401,-181.05,-155.764,-241.356,0,-222.693 1/2:313:0,167,146:0:0:167,146:5847,5212:-900.679,-424.95,-374.678,-476.083,0,-432.132 1/2:110:0,37,73:0:0:37,73:1316,2600:-319.52,-212.272,-201.134,-107.604,0,-85.6284 1/2:142:0,60,82:0:0:60,82:2124,2919:-411.274,-238.261,-220.199,-173.367,0,-148.683 2/2:102:0,0,102:0:0:0,102:0,3642:-327.983,-327.983,-327.983,-30.7051,-30.7051,0 1/2:221:0,102,119:0:0:102,119:3596,4265:-640.995,-348.205,-317.5,-293.145,0,-257.322 1/2:14:0,4,10:0:0:4,10:138,360:-40.9406,-29.734,-28.5299,-11.5557,0,-8.54539 1/2:7:0,1,6:0:0:1,6:36,216:-20.9217,-17.9843,-17.6833,-3.29724,0,-1.49106 1/2:26:0,17,9:0:0:17,9:596,324:-75.29,-26.7966,-21.6791,-48.85,0,-46.1407 1/1:117:0,117,0:0:0:117,0:4106,0:-369.537,-35.2205,0,-369.537,-35.2205,-369.537 1/2:135:0,59,76:0:0:59,76:2080,2712:-390.801,-221.446,-203.685,-169.709,0,-146.831 1/2:204:0,83,121:0:0:83,121:2921,4335:-591.687,-353.9,-328.914,-238.141,0,-201.717 1/2:121:0,52,69:0:0:52,69:1853,2472:-353.003,-201.963,-186.309,-151.397,0,-130.626 1/2:155:0,81,74:0:0:81,74:2854,2624:-446.493,-214.131,-189.747,-232.716,0,-210.44 1/2:81:0,43,37:0:0:43,37:1507,1319:-230.138,-107.513,-94.569,-122.618,0,-111.48 1/2:64:0,45,19:0:0:45,19:1562,680:-182.777,-55.8096,-42.2632,-127.321,0,-121.602 1/1:106:0,101,0:0:0:101,0:3547,0:-319.083,-30.404,0,-319.083,-30.404,-319.083 1/1:57:0,57,0:0:0:57,0:1998,0:-180.093,-17.1587,0,-180.093,-17.1587,-180.093 chr02 16298694 . G A 19904.6 PASS AB=0.501684;ABP=3.06148;AC=19;AF=0.452381;AN=42;AO=1143;CIGAR=1X;DP=2457;DPB=2457;DPRA=1.30635;EPP=2476.32;EPPR=2851.98;GTI=1;LEN=1;MEANALT=1.11111;MQM=59.9694;MQMR=59.9703;NS=21;NUMALT=1;ODDS=5.05352;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40760;QR=46691;RO=1312;RPL=1;RPP=2476.32;RPPR=2851.98;RPR=1142;RUN=1;SAF=0;SAP=2485;SAR=1143;SRF=0;SRP=2851.98;SRR=1312;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:93,48:93:3323:48:1720:-112.64,0,-256.843 0/1:94:54,40:54:1928:40:1436:-101.241,0,-145.5 0/1:99:53,46:53:1904:46:1623:-116.556,0,-141.836 0/1:147:82,64:82:2892:64:2286:-161.69,0,-216.204 0/1:308:164,144:164:5860:144:5120:-367.907,0,-434.793 0/1:110:38,72:38:1360:72:2569:-198.347,0,-89.5873 0/1:139:59,80:59:2099:80:2859:-215.704,0,-147.336 1/1:100:0,100:0:0:100:3562:-320.787,-30.103,0 0/1:219:100,119:100:3559:119:4253:-317.023,0,-254.594 0/1:14:4,10:4:144:10:345:-27.1664,0,-9.0992 0/1:7:1,6:1:32:6:216:-17.6833,0,-1.0921 0/1:27:16,11:16:576:11:392:-27.4922,0,-44.0472 0/0:116:116,0:116:4124:0:0:0,-34.9195,-370.644 0/1:135:57,77:57:2022:77:2764:-208.303,0,-141.554 0/1:194:80,114:80:2836:114:4058:-307.008,0,-197.078 0/1:119:54,65:54:1909:65:2328:-173.957,0,-136.263 0/1:159:81,78:81:2866:78:2761:-200.866,0,-210.312 0/1:94:48,46:48:1702:46:1648:-120.312,0,-125.168 0/1:73:50,23:50:1760:23:820:-52.1473,0,-136.706 0/0:106:106,0:106:3816:0:0:0,-31.9092,-343.635 0/0:56:56,0:56:1979:0:0:0,-16.8577,-178.379 chr02 16889901 . G A 14204.3 PASS AB=0.529612;ABP=14.1988;AC=19;AF=0.452381;AN=42;AO=836;CIGAR=1X;DP=1764;DPB=1764;DPRA=1.07384;EPP=1818.36;EPPR=2018.14;GTI=1;LEN=1;MEANALT=1;MQM=59.9306;MQMR=59.9526;NS=21;NUMALT=1;ODDS=3.36214;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29376;QR=33095;RO=928;RPL=836;RPP=1818.36;RPPR=2018.14;RPR=0;RUN=1;SAF=0;SAP=1818.36;SAR=836;SRF=0;SRP=2018.14;SRR=928;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:48,51:48:1720:51:1799:-132.389,0,-125.281 0/1:99:47,52:47:1665:52:1827:-134.908,0,-120.333 0/1:114:57,57:57:2032:57:1993:-145.325,0,-148.833 0/1:62:29,33:29:1027:33:1160:-86.0381,0,-74.0783 0/1:177:70,107:70:2501:107:3772:-286.4,0,-172.059 0/1:75:41,34:41:1468:34:1208:-86.4483,0,-108.901 0/1:141:63,78:63:2229:78:2719:-202.512,0,-158.428 1/1:58:0,58:0:0:58:2044:-184.232,-17.4597,0 0/1:151:62,89:62:2208:89:3095:-233.267,0,-153.53 0/1:12:9,3:9:324:3:104:-6.09045,0,-25.8935 0/1:4:1,3:1:36:3:104:-8.44068,0,-2.39415 0/1:25:19,6:19:680:6:204:-11.1676,0,-54.0034 0/0:87:87,0:87:3101:0:0:0,-26.1896,-279.316 0/1:100:43,57:43:1521:57:2032:-153.05,0,-107.078 0/1:124:54,70:54:1932:70:2452:-183.61,0,-136.829 0/1:68:44,24:44:1576:24:848:-56.165,0,-121.662 0/1:77:25,52:25:892:52:1829:-141.71,0,-57.4204 0/1:72:32,40:32:1135:40:1398:-104.441,0,-80.7839 0/1:69:47,22:47:1680:22:788:-50.469,0,-130.716 0/0:101:101,0:101:3620:0:0:0,-30.404,-326.005 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.604 chr02 16945287 . 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T G 37985 PASS AB=0.474679;ABP=27.7528;AC=23;AF=0.547619;AN=42;AO=2313;CIGAR=1X;DP=4741;DPB=4741;DPRA=2.52663;EPP=5025.63;EPPR=5275.35;GTI=1;LEN=1;MEANALT=1;MQM=46.6866;MQMR=58.8361;NS=21;NUMALT=1;ODDS=3.20279;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81887;QR=86396;RO=2428;RPL=2313;RPP=5025.63;RPPR=5275.35;RPR=0;RUN=1;SAF=2313;SAP=5025.63;SAR=0;SRF=2428;SRP=5275.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:69,49:69:2444:49:1748:-121.134,0,-184.638 0/1:100:54,46:54:1923:46:1626:-114.328,0,-142.725 0/1:150:56,94:56:1993:94:3341:-252.764,0,-134.096 0/1:154:80,74:80:2859:74:2636:-189.568,0,-210.959 0/1:273:129,144:129:4609:144:5048:-368.398,0,-331.894 0/1:128:66,62:66:2364:62:2185:-154.791,0,-174.154 0/1:235:119,116:119:4221:116:4139:-295.5,0,-308.647 0/0:92:92,0:92:3287:0:0:0,-27.6948,-295.67 0/1:255:127,128:127:4541:128:4575:-333.545,0,-332.055 0/1:824:507,317:507:18111:317:11220:-748.439,0,-1379.28 0/1:896:484,412:484:17228:412:14598:-1016.57,0,-1276.58 0/1:169:63,106:63:2229:106:3783:-285.595,0,-149.965 1/1:90:1,89:1:36:89:3184:-280.252,-23.4944,0 0/1:188:75,113:75:2664:113:4017:-302.172,0,-183.285 0/1:120:61,59:61:2179:59:2088:-149.779,0,-160.232 0/1:73:45,28:45:1603:28:968:-65.0771,0,-122.555 0/1:101:56,45:56:1984:45:1575:-110.7,0,-148.196 0/1:626:330,296:330:11632:296:10362:-730.087,0,-857.021 0/1:33:13,20:13:453:20:708:-53.3965,0,-31.1295 1/1:97:1,96:1:36:96:3402:-298.022,-25.6016,0 1/1:19:0,19:0:0:19:684:-60.888,-5.71957,0 chr02 17057113 . C T 14283.5 PASS AB=0.471282;ABP=12.1148;AC=24;AF=0.571429;AN=42;AO=796;CIGAR=1X;DP=1564;DPB=1564;DPRA=0.773158;EPP=1731.5;EPPR=1670.7;GTI=1;LEN=1;MEANALT=1;MQM=59.9686;MQMR=60;NS=21;NUMALT=1;ODDS=2.80141;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28423;QR=27214;RO=768;RPL=796;RPP=1731.5;RPPR=1670.7;RPR=0;RUN=1;SAF=796;SAP=1731.5;SAR=0;SRF=768;SRP=1670.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:20,26:20:712:26:909:-68.276,0,-50.5593 0/1:61:31,30:31:1099:30:1076:-78.79,0,-80.8566 0/1:74:43,31:43:1521:31:1103:-77.303,0,-114.905 0/1:77:46,31:46:1612:31:1103:-76.4005,0,-122.187 0/1:139:72,67:72:2560:67:2371:-171.803,0,-188.808 0/1:82:55,27:55:1957:27:968:-62.7529,0,-151.719 0/1:193:110,83:110:3887:83:2959:-208.445,0,-291.924 0/0:95:95,0:95:3381:0:0:0,-28.5978,-304.505 0/1:128:73,55:73:2599:55:1972:-139.223,0,-195.627 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:14:7,7:7:243:7:252:-18.8145,0,-17.9931 1/1:62:0,62:0:0:62:2228:-200.784,-18.6639,0 0/1:45:20,25:20:716:25:885:-66.421,0,-51.2214 0/1:109:59,50:59:2085:50:1794:-128.93,0,-155.104 0/1:51:35,16:35:1248:16:576:-36.8225,0,-97.2723 0/1:57:27,30:27:960:30:1076:-79.9941,0,-69.5576 0/1:101:47,54:47:1645:54:1936:-144.112,0,-117.932 0/1:90:24,66:24:845:66:2339:-183.677,0,-49.2744 1/1:91:1,90:1:36:90:3235:-287.772,-23.7955,0 1/1:41:0,41:0:0:41:1461:-131.775,-12.3422,0 chr02 17151898 . A G 27496.7 PASS AB=0.482427;ABP=9.42114;AC=23;AF=0.547619;AN=42;AO=1513;CIGAR=1X;DP=2920;DPB=2920;DPRA=0.808824;EPP=3288.45;EPPR=3056.1;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9802;MQMR=60;NS=21;NUMALT=1;ODDS=5.26987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54058;QR=50336;RO=1406;RPL=1513;RPP=3288.45;RPPR=3056.1;RPR=0;RUN=1;SAF=0;SAP=3288.45;SAR=1513;SRF=0;SRP=3056.1;SRR=1406;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:70,40:70:2516:40:1420:-94.9841,0,-193.578 0/1:193:103,90:103:3680:90:3224:-232.283,0,-273.305 0/1:149:70,79:70:2500:79:2816:-208.827,0,-180.399 0/1:187:84,103:84:2996:103:3661:-273.031,0,-213.58 0/1:330:161,169:161:5740:169:6032:-443.647,0,-417.38 0/1:107:65,41:65:2332:41:1468:-100.293,0,-178.018 0/1:200:100,100:100:3592:100:3579:-262.111,0,-263.28 0/0:170:170,0:170:6092:0:0:0,-51.1751,-548.381 0/1:237:133,104:133:4761:104:3722:-263.837,0,-357.302 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 0/1:9:5,4:5:180:4:140:-10.2353,0,-13.8428 0/1:29:8,21:8:284:21:748:-58.9154,0,-17.1735 1/1:163:0,163:0:0:163:5836:-525.352,-49.0679,0 0/1:139:78,61:78:2792:61:2176:-154.263,0,-209.677 0/1:246:134,112:134:4816:112:4004:-286.497,0,-359.54 0/1:112:47,65:47:1684:65:2336:-176.784,0,-118.132 0/1:123:65,58:65:2320:58:2080:-150.444,0,-172.034 0/1:132:78,54:78:2795:54:1932:-134.421,0,-212.053 0/1:70:28,42:28:1004:42:1496:-113.862,0,-69.6038 1/1:136:0,136:0:0:136:4852:-436.836,-40.9401,0 1/1:61:0,61:0:0:61:2176:-196.104,-18.3628,0 chr02 17549400 . TTG CTC,TTC 57006.5 PASS AB=0.500677,0.496163;ABP=3.01912,3.29362;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1566,1256;CIGAR=1X1M1X,2M1X;DP=2831;DPB=2832;DPRA=0.875163,2.00145;EPP=3386.19,2721.7;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.35,2.4;MQM=59.871,59.9912;MQMR=0;NS=21;NUMALT=2;ODDS=20.7302;PAIRED=0,0;PAIREDR=0;PAO=2,0.5;PQA=72,0;PQR=0;PRO=0.5;QA=54752,44576;QR=0;RO=0;RPL=1564,1255;RPP=3386.19,2721.7;RPPR=0;RPR=2,1;RUN=1,1;SAF=1566,1256;SAP=3403.54,2730.38;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:195:0,102,93:0:0:102,93:3520,3282:-553.561,-267.607,-236.902,-286.303,0,-258.307 1/2:81:0,35,46:0:0:35,46:1205,1652:-232.984,-135.121,-124.585,-98.2138,0,-84.3664 1/2:155:0,95,59:0:0:95,59:3323,2084:-440.048,-169.708,-141.11,-270.333,0,-252.572 1/2:150:0,60,88:0:0:60,88:2115,3104:-424.995,-252.789,-234.727,-172.249,0,-145.758 1/2:227:0,114,113:0:0:114,113:3991,4015:-652.208,-327.525,-293.208,-325.035,0,-291.019 1/2:79:0,34,43:0:0:34,43:1216,1528:-223.809,-124.652,-114.417,-99.2929,0,-86.3486 1/2:162:0,80,82:0:0:80,82:2792,2916:-465.032,-237.989,-213.907,-227.395,0,-202.71 2/2:153:0,0,152:0:0:0,152:0,5440:-489.449,-489.449,-489.449,-45.7566,-45.7566,0 1/2:299:0,159,140:0:0:159,140:5557,4952:-855.728,-403.686,-355.823,-452.393,0,-410.249 1/2:20:0,10,10:0:0:10,10:358,342:-57.3015,-28.0987,-25.0884,-29.5526,0,-26.5423 1/2:15:0,6,9:0:0:6,9:207,324:-43.6005,-26.7966,-24.9904,-17.1547,0,-14.4454 1/2:59:0,30,29:0:0:30,29:1059,1027:-170.248,-84.0123,-74.9814,-86.5892,0,-77.8593 1/1:247:0,244,2:0:0:244,2:8606,72:-774.215,-73.4513,0,-768.34,-67.4899,-767.738 1/2:143:0,62,80:0:0:62,80:2158,2799:-403.311,-227.857,-209.193,-175.59,0,-151.508 1/2:217:0,105,112:0:0:105,112:3676,3990:-624.659,-325.575,-293.967,-299.437,0,-265.722 1/2:89:0,40,49:0:0:40,49:1399,1756:-257.383,-143.574,-131.532,-114.163,0,-99.4126 1/2:66:0,23,43:0:0:23,43:804,1536:-190.993,-125.589,-118.665,-65.756,0,-52.8117 1/2:143:0,67,75:0:0:67,75:2344,2660:-407.404,-216.709,-196.54,-190.688,0,-168.111 1/2:115:0,87,28:0:0:87,28:3040,989:-328.098,-80.8932,-54.7036,-247.557,0,-239.128 1/1:147:0,144,3:0:0:144,3:4976,108:-447.1,-43.3483,0,-438.287,-34.1762,-437.384 1/1:69:0,69,0:0:0:69,0:2406,0:-216.436,-20.7711,0,-216.436,-20.7711,-216.436 chr02 17550204 . T G 10806.1 PASS AB=0.56629;ABP=40.1485;AC=20;AF=0.47619;AN=42;AO=608;CIGAR=1X;DP=1177;DPB=1177;DPRA=1.1956;EPP=1314.59;EPPR=1227.74;GTI=0;LEN=1;MEANALT=1.05556;MQM=60;MQMR=59.7623;NS=21;NUMALT=1;ODDS=2.06547;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21667;QR=20329;RO=568;RPL=1;RPP=1314.59;RPPR=1227.74;RPR=607;RUN=1;SAF=608;SAP=1323.27;SAR=0;SRF=568;SRP=1236.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:15,27:15:540:27:968:-74.7941,0,-36.2933 0/1:45:15,30:15:536:30:1050:-81.2599,0,-35.0285 1/1:36:3,33:3:104:33:1154:-94.4594,-1.13427,0 0/1:92:45,47:45:1593:47:1684:-124.152,0,-115.963 0/1:133:49,84:49:1760:84:2990:-229.292,0,-118.647 0/1:52:22,30:22:788:30:1069:-80.8675,0,-55.5912 0/1:110:35,75:35:1256:75:2690:-209.231,0,-80.232 1/1:24:0,24:0:0:24:841:-76.0064,-7.22472,0 0/1:122:49,72:49:1760:72:2572:-194.946,0,-121.899 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 0/1:11:8,3:8:288:3:108:-6.76384,0,-22.9561 0/1:13:7,6:7:252:6:216:-15.8771,0,-18.9841 0/0:77:77,0:77:2768:0:0:0,-23.1793,-248.884 0/1:89:48,41:48:1720:41:1472:-105.984,0,-128.237 0/1:75:32,43:32:1137:43:1540:-116.316,0,-80.0564 0/1:59:25,34:25:896:34:1220:-92.346,0,-63.1996 0/1:48:23,25:23:824:25:892:-66.1502,0,-60.0339 0/1:51:27,24:27:964:24:845:-61.0146,0,-71.7243 0/1:27:19,8:19:680:8:288:-18.1396,0,-53.4014 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.038 0/0:29:29,0:29:1027:0:0:0,-8.72987,-92.636 chr02 17550212 . TTGTTACTTACT CTGTTACT 9646.42 PASS AB=0.416094;ABP=65.3224;AC=23;AF=0.547619;AN=42;AO=567;CIGAR=1X2M4D5M;DP=1187;DPB=996.25;DPRA=2.42292;EPP=1225.56;EPPR=1323.27;GTI=1;LEN=8;MEANALT=1.4;MQM=59.8571;MQMR=60;NS=21;NUMALT=1;ODDS=1.97614;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20013;QR=21316;RO=608;RPL=566;RPP=1225.56;RPPR=1323.27;RPR=1;RUN=1;SAF=567;SAP=1234.24;SAR=0;SRF=608;SRP=1323.27;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:26,16:26:917:16:572:-39.1704,0,-70.2037 0/1:46:31,14:31:1078:14:494:-30.8871,0,-83.4227 0/1:37:33,4:33:1159:4:144:-2.17551,0,-93.4789 0/1:93:48,45:48:1681:45:1596:-115.934,0,-123.582 0/1:133:83,48:83:2902:48:1671:-110.879,0,-221.626 0/1:52:30,22:30:1049:22:781:-54.9591,0,-79.0659 0/1:112:76,36:76:2680:36:1280:-81.7877,0,-207.733 0/0:24:23,0:23:787:0:0:0,-6.92369,-70.7846 0/1:122:71,49:71:2494:49:1752:-121.48,0,-188.233 0/1:4:2,2:2:67:2:72:-5.6326,0,-5.15872 0/1:11:3,8:3:106:8:280:-22.2274,0,-6.57777 0/1:13:6,7:6:212:7:236:-17.6504,0,-15.5116 1/1:79:0,78:0:0:78:2751:-247.609,-23.4803,0 0/1:89:40,48:40:1409:48:1683:-124.816,0,-100.258 0/1:77:45,32:45:1588:32:1129:-78.7361,0,-120.033 0/1:60:35,25:35:1225:25:884:-61.8158,0,-92.4921 0/1:48:25,22:25:885:22:766:-54.7506,0,-65.4609 0/1:53:23,27:23:789:27:962:-71.5391,0,-55.9695 0/1:27:8,19:8:288:19:680:-53.4016,0,-18.1396 1/1:37:0,37:0:0:37:1308:-118.02,-11.1381,0 1/1:28:0,28:0:0:28:972:-87.7904,-8.42884,0 chr02 17641260 . AGAAAAACT TGATAGATGCTAACT,AGATAGATGCGAACT 19756.6 PASS AB=0.484425,0.510204;ABP=6.93341,4.6943;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1135,1036;CIGAR=1X2M1X1M6I4M,3M1X1M6I4M;DP=2181;DPB=3634.67;DPRA=1.21802,1.39342;EPP=2467.63,2252.66;EPPR=0;GTI=1;LEN=15,15;MEANALT=2.35,2.5;MQM=26.1278,26.1911;MQMR=0;NS=21;NUMALT=2;ODDS=2.59238;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=12,12;PQR=12;PRO=0.333333;QA=29646,27122;QR=0;RO=0;RPL=1135,1036;RPP=2467.63,2252.66;RPPR=0;RPR=0,0;RUN=1,1;SAF=1135,1036;SAP=2467.63,2252.66;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:143:0,64,77:0:0:64,77:1720,2071:-260.613,-142.392,-123.126,-118.232,0,-95.0528 1/2:81:0,37,44:0:0:37,44:849,1010:-121.209,-65.9256,-54.7875,-55.4325,0,-42.1872 1/2:102:0,51,51:0:0:51,51:1365,1375:-188.541,-94.8399,-79.4873,-93.9393,0,-78.5868 1/2:125:0,65,60:0:0:65,60:1745,1615:-231.237,-111.338,-91.7711,-120.138,0,-102.076 1/2:165:0,75,88:0:0:75,88:2017,2364:-301.206,-162.463,-139.886,-138.742,0,-112.252 1/2:123:0,59,64:0:0:59,64:1355,1466:-183.862,-95.5983,-77.8375,-88.4626,0,-69.1967 1/2:141:0,73,68:0:0:73,68:1667,1552:-209.487,-101.135,-79.1596,-108.551,0,-88.0805 2/2:86:0,0,86:0:0:0,86:0,2136:-169.215,-169.215,-169.215,-25.8886,-25.8886,0 1/2:222:0,110,111:0:0:110,111:3165,3190:-445.77,-223.683,-190.57,-222.084,0,-188.67 1/2:45:0,18,27:0:0:18,27:450,660:-74.5729,-44.355,-38.9365,-30.4359,0,-22.3081 1/2:8:0,5,3:0:0:5,3:115,69:-12.1922,-4.69708,-3.19193,-7.69512,0,-6.79203 1/2:56:0,24,32:0:0:24,32:592,800:-93.5052,-53.9371,-46.7124,-39.7862,0,-30.1532 1/1:119:0,119,0:0:0:119,0:3195,0:-255.737,-35.8226,0,-255.737,-35.8226,-255.737 1/2:154:0,86,67:0:0:86,67:2312,1804:-282.932,-124.006,-98.1178,-158.824,0,-138.655 1/2:153:0,53,100:0:0:53,100:1421,2694:-283.141,-185.543,-169.589,-97.8363,0,-67.7333 1/2:75:0,29,46:0:0:29,46:833,1324:-151.591,-93.1998,-84.4699,-58.6482,0,-44.8008 1/2:81:0,42,38:0:0:42,38:1214,1100:-162.523,-77.2746,-64.6314,-85.2475,0,-73.8084 1/2:101:0,52,48:0:0:52,48:1292,1198:-166.987,-80.4153,-64.7617,-86.5899,0,-72.1405 1/2:87:0,59,26:0:0:59,26:1591,694:-157.067,-47.5978,-29.837,-109.467,0,-101.641 1/1:68:0,68,0:0:0:68,0:1692,0:-134.119,-20.47,0,-134.119,-20.47,-134.119 1/1:46:0,46,0:0:0:46,0:1056,0:-82.8226,-13.8474,0,-82.8226,-13.8474,-82.8226 chr02 17641272 . C T 45264.2 PASS AB=0.507394;ABP=4.9691;AC=19;AF=0.452381;AN=42;AO=2326;CIGAR=1X;DP=4887;DPB=4887;DPRA=1.32368;EPP=5053.86;EPPR=5564.15;GTI=0;LEN=1;MEANALT=1;MQM=45.0993;MQMR=45.3807;NS=21;NUMALT=1;ODDS=8.03595;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82795;QR=90518;RO=2561;RPL=1024;RPP=75.1599;RPPR=107.472;RPR=1302;RUN=1;SAF=1024;SAP=75.1599;SAR=1302;SRF=1105;SRP=107.472;SRR=1456;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:290:154,136:154:5409:136:4864:-284.213,0,-349.543 0/1:219:101,118:101:3552:118:4196:-263.668,0,-212.865 0/1:180:72,108:72:2515:108:3876:-251.049,0,-133.03 0/1:322:166,156:166:5848:156:5550:-352.963,0,-381.132 0/1:401:197,204:197:6972:204:7269:-458.675,0,-448.011 0/1:266:127,139:127:4493:139:4946:-291.03,0,-263.175 0/1:392:206,186:206:7271:186:6588:-394.381,0,-456.345 1/1:232:0,232:0:0:232:8248:-655.927,-69.839,0 0/1:463:222,241:222:7863:241:8567:-556.514,0,-494.766 0/1:54:24,30:24:864:30:1061:-54.028,0,-45.4598 0/1:24:7,17:7:252:17:604:-43.8351,0,-9.77265 0/1:100:48,52:48:1707:52:1856:-104.882,0,-100.463 0/0:236:236,0:236:8376:0:0:0,-71.0431,-660.157 0/1:319:166,153:166:5900:153:5433:-339.188,0,-365.578 0/1:377:177,200:177:6255:200:7143:-444.865,0,-406.926 0/1:178:76,102:76:2679:102:3651:-243.333,0,-169.728 0/1:177:82,95:82:2879:95:3392:-225.387,0,-179.477 0/1:185:87,98:87:3103:98:3440:-205.799,0,-174.945 0/1:178:120,58:120:4256:58:2075:-109.087,0,-284.431 0/0:170:169,1:169:5941:1:36:0,-47.5768,-468.174 0/0:124:124,0:124:4383:0:0:0,-37.3277,-344.419 chr02 17641308 . 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AG GA,AA 28350.5 PASS AB=0.588418,0.410031;ABP=134.336,138.984;AC=19,23;AF=0.452381,0.547619;AN=42;AO=1194,989;CIGAR=2X,1M1X;DP=2186;DPB=2186;DPRA=1.9866,0;EPP=2595.75,2064.62;EPPR=0;GTI=2;LEN=2,1;MEANALT=2.15789,2.04762;MQM=27.3811,29.6107;MQMR=0;NS=21;NUMALT=2;ODDS=2.62724;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42289,35381;QR=0;RO=0;RPL=0,10;RPP=2595.75,2064.62;RPPR=0;RPR=1194,979;RUN=1,1;SAF=1194,989;SAP=2595.75,2150.6;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:333:0,198,135:0:0:198,135:7023,4841:-733.741,-310.612,-251.008,-423.411,0,-382.772 1/2:88:0,48,40:0:0:48,40:1720,1440:-169.019,-80.3281,-65.8787,-88.939,0,-76.8978 1/2:71:0,50,21:0:0:50,21:1783,752:-155.801,-48.4254,-33.3739,-107.659,0,-101.338 1/2:53:0,24,28:0:0:24,28:846,993:-115.786,-64.374,-57.1493,-51.3498,0,-42.921 1/2:403:0,244,159:0:0:244,159:8626,5700:-887.2,-366.469,-293.017,-521.014,0,-473.15 1/2:73:0,44,29:0:0:44,29:1536,1029:-137.878,-57.868,-44.6227,-80.2565,0,-71.5267 1/2:181:0,115,66:0:0:115,66:4077,2376:-345.093,-135.187,-100.568,-210.159,0,-190.291 1/1:54:0,53,1:0:0:53,1:1871,36:-120.981,-15.9546,0,-118.819,-13.5194,-118.518 1/2:173:0,106,67:0:0:106,67:3739,2374:-399.359,-161.564,-129.655,-238.089,0,-217.92 1/2:11:0,7,4:0:0:7,4:241,144:-22.3927,-8.67073,-6.56352,-13.9833,0,-12.7791 1/2:6:0,1,5:0:0:1,5:36,180:-12.097,-10.2649,-9.96387,-2.0725,0,-0.56735 1/2:25:0,11,13:0:0:11,13:392,468:-49.9282,-27.9556,-24.6443,-21.9791,0,-18.0657 2/2:95:0,0,95:0:0:0,95:0,3408:-247.557,-247.557,-247.557,-28.5979,-28.5979,0 1/2:100:0,76,24:0:0:76,24:2683,860:-218.072,-55.1996,-32.3213,-163.156,0,-155.932 1/2:94:0,52,41:0:0:52,41:1840,1476:-204.248,-93.2606,-77.6071,-110.923,0,-98.581 1/2:149:0,81,68:0:0:81,68:2873,2440:-346.961,-163.968,-139.585,-183.286,0,-162.816 1/2:111:0,56,55:0:0:56,55:2010,1938:-252.008,-129.256,-112.398,-123.038,0,-106.481 1/2:35:0,17,18:0:0:17,18:599,648:-73.383,-39.1816,-34.064,-34.4665,0,-29.048 1/2:28:0,8,20:0:0:8,20:286,720:-63.7769,-46.5194,-44.1112,-17.5356,0,-11.515 2/2:88:0,3,85:0:0:3,85:108,3018:-207.328,-201.323,-200.42,-25.5876,-19.3263,0 2/2:15:0,0,15:0:0:0,15:0,540:-34.7984,-34.7984,-34.7984,-4.51545,-4.51545,0 chr02 17973273 . A T 9784.06 PASS AB=0.410554;ABP=134.698;AC=23;AF=0.547619;AN=42;AO=969;CIGAR=1X;DP=2142;DPB=2142;DPRA=0;EPP=2107.17;EPPR=2547.98;GTI=2;LEN=1;MEANALT=1.04762;MQM=29.2972;MQMR=27.4036;NS=21;NUMALT=1;ODDS=2.58131;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34540;QR=42021;RO=1172;RPL=969;RPP=2107.17;RPPR=2547.98;RPR=0;RUN=1;SAF=969;SAP=2107.17;SAR=0;SRF=1172;SRP=2547.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:328:190,138:190:6803:138:4902:-258.008,0,-367.177 0/1:87:48,39:48:1728:39:1382:-63.4436,0,-77.2474 0/1:71:49,22:49:1760:22:767:-35.2993,0,-99.1732 0/1:53:25,28:25:896:28:1004:-57.2309,0,-46.4592 0/1:391:238,153:238:8525:153:5457:-279.052,0,-464.628 0/1:70:43,27:43:1540:27:972:-41.4416,0,-70.9538 0/1:173:111,62:111:3992:62:2224:-90.8529,0,-185.07 0/0:54:53,1:53:1908:1:36:0,-13.5194,-119.403 0/1:174:107,67:107:3825:67:2404:-130.227,0,-221.103 0/1:11:7,4:7:252:4:144:-6.56352,0,-13.0644 0/1:6:1,5:1:36:5:180:-9.96387,0,-0.56735 0/1:25:11,14:11:392:14:500:-26.989,0,-18.0106 1/1:93:0,93:0:0:93:3312:-240.987,-27.9958,0 0/1:96:74,22:74:2648:22:792:-28.5549,0,-152.705 0/1:93:53,40:53:1888:40:1415:-74.5813,0,-102.778 0/1:148:79,68:79:2844:68:2402:-137.397,0,-160.18 0/1:107:56,51:56:2012:51:1817:-104.162,0,-107.672 0/1:34:16,18:16:576:18:648:-34.3651,0,-27.6174 0/1:28:8,20:8:288:20:712:-43.903,0,-11.5454 1/1:85:3,82:3:108:82:2930:-193.252,-18.4232,0 1/1:15:0,15:0:0:15:540:-34.7984,-4.51545,0 chr02 17973275 . A C 11058 PASS AB=0.583157;ABP=116.41;AC=19;AF=0.452381;AN=42;AO=1157;CIGAR=1X;DP=2137;DPB=2137;DPRA=1.97758;EPP=2515.4;EPPR=2131.05;GTI=2;LEN=1;MEANALT=1;MQM=27.3768;MQMR=29.2908;NS=21;NUMALT=1;ODDS=1.40398;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40746;QR=34993;RO=980;RPL=1157;RPP=2515.4;RPPR=2131.05;RPR=0;RUN=1;SAF=1157;SAP=2515.4;SAR=0;SRF=980;SRP=2131.05;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:328:135,193:135:4831:193:6791:-369.87,0,-251.914 0/1:86:40,46:40:1440:46:1621:-72.1415,0,-66.4807 0/1:71:23,48:23:805:48:1693:-95.853,0,-37.6383 0/1:52:27,25:27:968:25:900:-46.8339,0,-54.9194 0/1:389:158,231:158:5632:231:8138:-443.702,0,-292.537 0/1:72:29,43:29:1040:43:1529:-69.9803,0,-45.3947 0/1:172:62,110:62:2212:110:3873:-182.024,0,-91.0029 1/1:54:1,53:1:36:53:1880:-118.757,-13.5194,0 0/1:171:67,104:67:2392:104:3657:-212.827,0,-130.799 0/1:11:4,7:4:140:7:252:-13.0644,0,-6.52126 0/1:6:5,1:5:180:1:36:-0.56735,0,-9.96387 0/1:25:14,11:14:496:11:392:-18.0106,0,-26.9384 0/0:93:93,0:93:3332:0:0:0,-27.9958,-241.664 0/1:97:24,73:24:864:73:2581:-148.783,0,-33.3284 0/1:92:40,52:40:1432:52:1814:-99.2381,0,-75.5822 0/1:148:68,80:68:2436:80:2794:-158.785,0,-139.072 0/1:109:55,54:55:1964:54:1893:-99.785,0,-114.641 0/1:33:18,15:18:648:15:519:-25.0641,0,-34.6661 0/1:26:18,8:18:644:8:275:-11.8087,0,-39.3841 0/0:87:84,3:84:2965:3:108:0,-19.0252,-197.292 0/0:15:15,0:15:536:0:0:0,-4.51545,-34.7478 chr02 17973280 . T A 9997.33 PASS AB=0.414353;ABP=124.641;AC=23;AF=0.547619;AN=42;AO=981;CIGAR=1X;DP=2154;DPB=2154;DPRA=0;EPP=2133.22;EPPR=2550.15;GTI=2;LEN=1;MEANALT=1;MQM=29.3017;MQMR=27.399;NS=21;NUMALT=1;ODDS=2.05972;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35121;QR=41927;RO=1173;RPL=981;RPP=2133.22;RPPR=2550.15;RPR=0;RUN=1;SAF=981;SAP=2133.22;SAR=0;SRF=1173;SRP=2550.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:332:194,138:194:6959:138:4941:-257.787,0,-375.677 0/1:87:48,39:48:1707:39:1385:-63.3055,0,-77.0549 0/1:72:50,22:50:1788:22:777:-34.6229,0,-101.211 0/1:52:25,27:25:896:27:972:-55.0234,0,-46.7602 0/1:392:235,157:235:8332:157:5640:-290.281,0,-455.469 0/1:72:43,29:43:1539:29:1031:-45.2031,0,-70.284 0/1:178:115,63:115:4110:63:2260:-91.6506,0,-191.773 0/0:53:52,1:52:1868:1:36:0,-13.2184,-117.05 0/1:174:106,68:106:3804:68:2448:-133.083,0,-219.448 0/1:10:7,3:7:252:3:108:-4.65107,0,-13.3654 0/1:6:1,5:1:36:5:180:-9.96387,0,-0.56735 0/1:26:12,14:12:432:14:504:-26.762,0,-20.0631 1/1:92:0,92:0:0:92:3270:-237.946,-27.6948,0 0/1:98:74,24:74:2637:24:856:-32.8193,0,-152.323 0/1:91:50,41:50:1800:41:1468:-78.399,0,-96.3367 0/1:145:77,68:77:2760:68:2425:-139.124,0,-154.798 0/1:111:56,55:56:2012:55:1968:-114.278,0,-106.468 0/1:35:17,18:17:599:18:648:-34.064,0,-29.2653 0/1:28:8,20:8:288:20:716:-44.0071,0,-11.5454 1/1:85:3,82:3:108:82:2948:-193.91,-18.4232,0 1/1:15:0,15:0:0:15:540:-34.7984,-4.51545,0 chr02 18083835 . CTTGGTGA TTTGATGG,CTTGATGG 51093.6 PASS AB=0.483004,0.506849;ABP=7.95588,3.81345;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1347,1196;CIGAR=1X3M1X2M1X,4M1X2M1X;DP=2570;DPB=2570;DPRA=0.608974,0.513596;EPP=2919.3,2591.41;EPPR=5.18177;GTI=0;LEN=8,8;MEANALT=3.15,3.05;MQM=59.4959,59.893;MQMR=60;NS=21;NUMALT=2;ODDS=1.07216;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47173,41996;QR=33;RO=1;RPL=1,1;RPP=2919.3,2591.41;RPPR=5.18177;RPR=1346,1195;RUN=1,1;SAF=1347,1196;SAP=2927.98,2600.09;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,54,75:0:0:54,75:1886,2592:-364.097,-210.684,-194.429,-153.498,0,-130.921 1/2:95:0,50,45:0:0:50,45:1775,1568:-272.456,-127.856,-112.804,-144.952,0,-131.405 1/2:168:0,83,84:0:0:83,84:2904,2992:-480.102,-243.866,-218.881,-236.229,0,-210.942 1/2:123:0,69,54:0:0:69,54:2416,1881:-349.868,-153.309,-132.538,-196.907,0,-180.652 1/2:117:0,54,62:0:0:54,62:1905,2176:-332.151,-177.122,-160.867,-155.06,0,-136.396 1/2:117:0,53,63:0:0:53,63:1860,2236:-332.693,-182.198,-166.243,-150.507,0,-131.542 1/2:176:1,88,85:1:33:88,85:3058,3003:-490.166,-241.914,-218.091,-245.902,0,-222.982 2/2:195:0,0,194:0:0:0,194:0,6774:-609.352,-609.352,-609.352,-58.3998,-58.3998,0 1/2:273:0,134,138:0:0:134,138:4695,4833:-775.263,-393.252,-352.914,-382.04,0,-340.498 1/2:12:0,7,4:0:0:7,4:249,138:-31.4962,-11.1989,-9.09165,-20.2891,0,-19.085 1/2:11:0,10,1:0:0:10,1:349,36:-31.674,-3.29724,-0.286945,-28.7355,0,-28.4345 1/2:26:0,16,10:0:0:16,10:549,358:-74.1166,-29.5526,-24.7362,-44.9161,0,-41.9058 1/1:228:0,225,0:0:0:225,0:7867,0:-707.628,-67.7318,0,-707.628,-67.7318,-707.628 1/2:194:0,95,98:0:0:95,98:3302,3462:-550.42,-282.021,-253.423,-268.479,0,-238.978 1/2:180:0,70,107:0:0:70,107:2474,3774:-508.776,-307.323,-286.251,-201.478,0,-169.268 1/2:53:0,24,29:0:0:24,29:858,1011:-152.532,-82.5688,-75.3441,-70.3162,0,-61.5863 1/2:75:0,20,53:0:0:20,53:702,1844:-207.053,-149.92,-143.899,-57.1238,0,-41.1692 1/2:109:0,55,50:0:0:55,50:1944,1771:-302.631,-144.325,-127.769,-158.363,0,-143.312 1/2:112:0,70,41:0:0:70,41:2453,1440:-316.854,-117.257,-96.1852,-199.667,0,-187.325 1/1:120:0,116,2:0:0:116,2:4074,72:-366.504,-34.9195,0,-360.629,-29.0221,-360.026 1/1:56:0,54,1:0:0:54,1:1853,35:-166.687,-16.2556,0,-163.839,-13.3827,-163.538 chr02 18115988 . A T 9657.09 PASS AB=0.536508;ABP=10.3037;AC=23;AF=0.547619;AN=42;AO=514;CIGAR=1X;DP=858;DPB=858;DPRA=0.791176;EPP=1119.15;EPPR=749.997;GTI=1;LEN=1;MEANALT=1;MQM=59.9183;MQMR=59.8808;NS=21;NUMALT=1;ODDS=1.74752;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18322;QR=12189;RO=344;RPL=514;RPP=1119.15;RPPR=749.997;RPR=0;RUN=1;SAF=514;SAP=1119.15;SAR=0;SRF=344;SRP=749.997;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:24:14,10:14:504:10:356:-25.1565,0,-38.4691 0/1:29:10,19:10:360:19:680:-52.7993,0,-24.0144 0/1:45:18,27:18:648:27:972:-74.2516,0,-45.1009 0/1:40:18,22:18:636:22:788:-59.2036,0,-45.5268 0/1:52:23,29:23:792:29:1008:-75.3745,0,-55.943 0/1:26:10,16:10:360:16:576:-44.3482,0,-24.9175 0/1:53:22,31:22:780:31:1107:-83.9862,0,-54.5684 0/0:51:51,0:51:1785:0:0:0,-15.3525,-160.926 0/1:76:45,31:45:1588:31:1099:-76.3366,0,-120.332 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:18:7,11:7:244:11:396:-30.5642,0,-16.8809 1/1:45:0,45:0:0:45:1597:-144.018,-13.5464,0 0/1:55:21,34:21:744:34:1224:-93.9104,0,-50.7268 0/1:59:35,24:35:1244:24:864:-60.3218,0,-94.5039 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/1:29:17,12:17:608:12:428:-30.1289,0,-46.314 0/1:34:17,17:17:608:17:607:-44.7265,0,-44.8143 0/1:61:23,38:23:820:38:1364:-104.693,0,-55.7579 1/1:97:1,96:1:36:96:3402:-302.778,-25.6016,0 1/1:35:0,35:0:0:35:1242:-112.068,-10.5361,0 chr02 18176593 . C T 11753 PASS AB=0.470685;ABP=12.0494;AC=18;AF=0.428571;AN=42;AO=680;CIGAR=1X;DP=1619;DPB=1619;DPRA=1.43948;EPP=1479.61;EPPR=2039.85;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9912;MQMR=60;NS=21;NUMALT=1;ODDS=9.79422;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24285;QR=33471;RO=938;RPL=0;RPP=1479.61;RPPR=2039.85;RPR=680;RUN=1;SAF=680;SAP=1479.61;SAR=0;SRF=938;SRP=2039.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:49,35:49:1744:35:1252:-87.6986,0,-131.958 0/1:70:28,42:28:1004:42:1508:-114.943,0,-69.6038 0/1:92:55,37:55:1964:37:1323:-91.6753,0,-149.341 0/1:87:39,48:39:1396:48:1716:-128.536,0,-99.7495 0/1:120:67,53:67:2384:53:1875:-132.905,0,-178.695 0/1:85:52,33:52:1841:33:1184:-81.2808,0,-140.381 0/1:141:63,78:63:2252:78:2780:-207.996,0,-160.498 1/1:107:0,107:0:0:107:3813:-343.367,-32.2102,0 0/1:113:62,51:62:2204:51:1828:-130.785,0,-164.609 0/1:7:3,4:3:104:4:144:-11.2064,0,-7.5956 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/0:90:90,0:90:3208:0:0:0,-27.0927,-288.944 0/1:78:38,40:38:1364:40:1426:-105.157,0,-99.5804 0/1:113:65,48:65:2332:48:1720:-121.069,0,-176.123 0/1:40:24,16:24:848:16:576:-40.1338,0,-64.5985 0/1:20:9,11:9:320:11:392:-29.5995,0,-23.1218 0/1:75:31,44:31:1112:44:1568:-118.834,0,-77.8141 0/1:66:46,20:46:1639:20:716:-44.8997,0,-127.93 0/0:133:129,3:129:4608:3:104:0,-30.2773,-405.215 0/0:74:74,0:74:2643:0:0:0,-22.2762,-238.116 chr02 18176599 . T C 17735.6 PASS AB=0.528489;ABP=11.5474;AC=24;AF=0.571429;AN=42;AO=935;CIGAR=1X;DP=1617;DPB=1617;DPRA=0.698611;EPP=2024.66;EPPR=1473.11;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=10.4822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33424;QR=24411;RO=681;RPL=1;RPP=2024.66;RPPR=1473.11;RPR=934;RUN=1;SAF=935;SAP=2033.34;SAR=0;SRF=681;SRP=1481.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:35,47:35:1260:47:1676:-126.443,0,-89.021 0/1:68:40,28:40:1428:28:995:-69.394,0,-108.347 0/1:94:37,56:37:1324:56:1979:-150.186,0,-91.2622 0/1:88:48,40:48:1724:40:1436:-103.047,0,-128.955 0/1:119:52,67:52:1864:67:2383:-178.905,0,-132.217 0/1:86:33,53:33:1188:53:1891:-144.579,0,-81.34 0/1:141:79,62:79:2824:62:2216:-157.26,0,-211.954 0/0:108:108,0:108:3867:0:0:0,-32.5112,-348.224 0/1:112:50,62:50:1792:62:2214:-165.809,0,-127.847 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 1/1:90:0,90:0:0:90:3219:-289.932,-27.0927,0 0/1:80:41,39:41:1472:39:1396:-101.857,0,-108.694 0/1:114:49,65:49:1760:65:2332:-175.822,0,-124.366 0/1:38:15,23:15:540:23:820:-62.6834,0,-37.4974 0/1:21:12,9:12:428:9:324:-23.1842,0,-32.5372 0/1:76:45,31:45:1616:31:1112:-77.5131,0,-122.852 0/1:65:20,45:20:716:45:1612:-125.803,0,-45.2008 1/1:130:3,127:3:108:127:4551:-399.68,-29.0587,0 1/1:73:0,73:0:0:73:2620:-236.047,-21.9752,0 chr02 18769451 . A C 11962.4 PASS AB=0.493323;ABP=3.50327;AC=19;AF=0.452381;AN=42;AO=695;CIGAR=1X;DP=1525;DPB=1525;DPRA=1.20721;EPP=1512.18;EPPR=1798.82;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.9885;MQMR=59.9976;NS=21;NUMALT=1;ODDS=7.95189;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24821;QR=29436;RO=827;RPL=0;RPP=1512.18;RPPR=1798.82;RPR=695;RUN=1;SAF=695;SAP=1512.18;SAR=0;SRF=827;SRP=1798.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:54,59:54:1910:59:2112:-156.333,0,-138.157 0/1:73:30,43:30:1072:43:1548:-117.638,0,-74.8173 0/1:64:31,33:31:1108:33:1188:-87.9627,0,-80.7651 0/1:72:29,43:29:1025:43:1524:-115.779,0,-70.8865 0/1:151:78,73:78:2796:73:2604:-189.153,0,-206.424 0/1:79:51,28:51:1828:28:996:-66.1735,0,-141.019 0/1:106:54,52:54:1920:52:1852:-135.051,0,-141.168 1/1:67:0,67:0:0:67:2392:-215.537,-20.169,0 0/1:111:48,63:48:1671:63:2252:-169.529,0,-117.256 0/1:21:12,9:12:432:9:320:-22.8207,0,-32.8996 0/1:7:3,4:3:108:4:140:-10.8374,0,-7.96796 0/1:26:15,10:15:525:10:360:-24.8587,0,-39.6931 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.068 0/1:70:27,43:27:964:43:1536:-117.461,0,-66.0047 0/1:104:58,46:58:2072:46:1652:-117.661,0,-155.444 0/1:26:14,11:14:500:11:388:-27.3724,0,-37.4508 0/1:55:29,26:29:1006:26:924:-66.921,0,-74.2899 0/1:124:59,64:59:2108:64:2281:-168.164,0,-152.603 0/1:71:50,21:50:1796:21:752:-46.6331,0,-140.549 0/0:63:63,0:63:2219:0:0:0,-18.9649,-199.97 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 chr02 18769487 . 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T G 9490.19 PASS AB=0.452618;ABP=18.6492;AC=23;AF=0.547619;AN=42;AO=524;CIGAR=1X;DP=995;DPB=995;DPRA=1.55484;EPP=1123.56;EPPR=1017.11;GTI=0;LEN=1;MEANALT=1;MQM=59.1183;MQMR=59.8386;NS=21;NUMALT=1;ODDS=1.85605;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18710;QR=16812;RO=471;RPL=522;RPP=1123.56;RPPR=1017.11;RPR=2;RUN=1;SAF=0;SAP=1140.86;SAR=524;SRF=0;SRP=1025.77;SRR=471;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:19,24:19:676:24:849:-63.5669,0,-48.2167 0/1:20:12,8:12:428:8:288:-20.2138,0,-32.8382 0/1:85:46,39:46:1633:39:1396:-100.262,0,-121.667 0/1:59:34,25:34:1220:25:892:-62.5612,0,-92.346 0/1:63:30,33:30:1065:33:1188:-88.2614,0,-77.1039 0/1:38:29,9:29:1040:9:324:-18.0667,0,-82.4752 0/1:54:35,19:35:1248:19:684:-45.4358,0,-96.2115 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/1:103:62,41:62:2201:41:1460:-100.575,0,-167.348 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:20:13,7:13:468:7:243:-16.1869,0,-36.439 1/1:57:1,56:1:36:56:1997:-176.211,-13.5604,0 0/1:54:36,18:36:1292:18:648:-42.3963,0,-100.324 0/1:81:41,40:41:1464:40:1432:-104.702,0,-107.673 0/1:25:14,11:14:504:11:392:-28.0934,0,-38.1723 0/1:27:15,12:15:525:12:428:-30.731,0,-39.4497 0/1:74:37,37:37:1324:37:1332:-97.9,0,-97.1859 0/1:47:12,35:12:432:35:1252:-98.7022,0,-25.0728 1/1:70:0,70:0:0:70:2477:-222.52,-21.0721,0 1/1:35:0,35:0:0:35:1248:-112.617,-10.5361,0 chr02 18855782 . C T 15321.9 PASS AB=0.444502;ABP=54.3483;AC=19;AF=0.452381;AN=42;AO=944;CIGAR=1X;DP=2374;DPB=2374;DPRA=1.62183;EPP=2052.88;EPPR=3099.54;GTI=0;LEN=1;MEANALT=1;MQM=59.9703;MQMR=59.9944;NS=21;NUMALT=1;ODDS=11.3119;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33392;QR=50956;RO=1430;RPL=0;RPP=2052.88;RPPR=3099.54;RPR=944;RUN=1;SAF=944;SAP=2052.88;SAR=0;SRF=1430;SRP=3108.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:49,52:49:1744:52:1837:-135.205,0,-126.84 0/1:84:40,44:40:1436:44:1564:-115.765,0,-104.251 0/1:79:51,28:51:1824:28:981:-64.8205,0,-140.66 0/1:159:87,72:87:3066:72:2517:-178.919,0,-228.296 0/1:270:163,107:163:5829:107:3788:-259.844,0,-443.443 0/1:179:95,84:95:3360:84:2988:-215.269,0,-248.733 0/1:206:104,102:104:3684:102:3607:-262.827,0,-269.752 1/1:87:0,87:0:0:87:3080:-277.431,-26.1896,0 0/1:178:105,73:105:3740:73:2572:-178.149,0,-283.219 0/1:11:5,6:5:176:6:216:-16.4792,0,-12.8737 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:37:20,17:20:716:17:608:-43.9139,0,-53.6296 0/0:171:170,1:170:6084:1:36:0,-47.8779,-544.064 0/1:99:55,44:55:1945:44:1560:-110.874,0,-145.522 0/1:175:98,77:98:3501:77:2716:-192.006,0,-262.619 0/1:103:57,46:57:2032:46:1635:-116.432,0,-152.146 0/1:88:50,38:50:1792:38:1343:-94.6787,0,-135.072 0/1:62:27,35:27:968:35:1236:-92.8758,0,-68.7735 0/1:79:57,22:57:2048:22:784:-47.1025,0,-160.81 0/0:126:123,3:123:4364:3:108:0,-27.8546,-382.861 0/0:71:71,0:71:2539:0:0:0,-21.3731,-228.76 chr02 18855878 . A G 22576.8 PASS AB=0.555423;ABP=47.7804;AC=23;AF=0.547619;AN=42;AO=1210;CIGAR=1X;DP=2062;DPB=2062;DPRA=0.931905;EPP=2621.81;EPPR=1853.1;GTI=0;LEN=1;MEANALT=1;MQM=56.0901;MQMR=59.8838;NS=21;NUMALT=1;ODDS=19.3592;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43216;QR=30435;RO=852;RPL=1209;RPP=2621.81;RPPR=1853.1;RPR=1;RUN=1;SAF=0;SAP=2630.49;SAR=1210;SRF=0;SRP=1853.1;SRR=852;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:70,80:70:2501:80:2880:-213.808,0,-180.186 0/1:107:50,57:50:1769:57:2030:-150.487,0,-127.281 0/1:96:43,53:43:1540:53:1887:-140.9,0,-109.994 0/1:59:19,40:19:672:40:1428:-110.351,0,-43.0428 0/1:283:127,156:127:4532:156:5574:-415.637,0,-322.855 0/1:68:29,39:29:1040:39:1404:-105.767,0,-73.4443 0/1:127:48,79:48:1720:79:2831:-216.402,0,-116.854 0/0:105:105,0:105:3738:0:0:0,-31.6081,-336.621 0/1:213:68,145:68:2432:145:5160:-399.05,0,-155.002 0/1:18:13,5:13:468:5:180:-11.1257,0,-37.0411 0/1:12:7,5:7:252:5:176:-12.5676,0,-19.4166 0/1:20:8,12:8:284:12:428:-32.8211,0,-19.872 1/1:121:0,121:0:0:121:4332:-389.262,-36.4246,0 0/1:89:51,38:51:1819:38:1331:-92.9489,0,-137.176 0/1:135:77,58:77:2760:58:2073:-146.062,0,-208.002 0/1:69:37,32:37:1328:32:1135:-81.2228,0,-99.0512 0/1:81:36,45:36:1284:45:1612:-120.809,0,-91.4766 0/1:84:42,42:42:1508:42:1503:-110.146,0,-110.719 0/1:67:21,46:21:752:46:1652:-128.565,0,-47.6068 1/1:106:0,106:0:0:106:3780:-340.109,-31.9092,0 1/1:52:1,51:1:36:51:1820:-160.177,-12.0553,0 chr02 18862678 . AAAC GAAG 15655.3 PASS AB=0.51858;ABP=6.64137;AC=24;AF=0.571429;AN=42;AO=866;CIGAR=1X2M1X;DP=1500;DPB=1500;DPRA=1.54574;EPP=1883.51;EPPR=1366.71;GTI=0;LEN=4;MEANALT=1.1;MQM=59.836;MQMR=59.9778;NS=21;NUMALT=1;ODDS=5.94681;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30527;QR=22172;RO=632;RPL=866;RPP=1883.51;RPPR=1375.38;RPR=0;RUN=1;SAF=0;SAP=1883.51;SAR=866;SRF=1;SRP=1366.71;SRR=631;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:51,33:51:1795:33:1170:-80.3207,0,-136.544 0/1:80:35,45:35:1242:45:1597:-118.833,0,-88.002 0/1:41:27,14:27:949:14:498:-32.813,0,-73.3809 0/1:87:37,50:37:1304:50:1755:-132.042,0,-91.4701 0/1:121:75,46:75:2583:46:1600:-107.862,0,-196.293 0/1:96:42,54:42:1478:54:1877:-140.299,0,-104.409 0/1:116:47,69:47:1648:69:2441:-185.015,0,-113.686 0/0:47:47,0:47:1662:0:0:0,-14.1484,-149.867 0/1:131:71,60:71:2474:60:2124:-151.993,0,-183.48 0/1:9:5,4:5:180:4:142:-10.4199,0,-13.8428 1/1:4:0,4:0:0:4:132:-12.2019,-1.20412,0 0/1:26:5,21:5:180:21:721:-57.3804,0,-8.72528 1/1:112:0,112:0:0:112:3971:-357.579,-33.7154,0 0/1:77:38,38:38:1318:38:1350:-98.563,0,-95.6791 0/1:121:63,58:63:2216:58:2054:-148.706,0,-163.279 0/1:51:20,30:20:716:30:1051:-79.4881,0,-49.3568 0/1:32:16,16:16:573:16:568:-41.8188,0,-42.2711 0/1:73:34,39:34:1188:39:1384:-102.876,0,-85.2472 0/1:66:15,51:15:523:51:1778:-140.432,0,-27.5307 1/1:61:4,57:4:143:57:2002:-167.231,-5.14139,0 1/1:65:0,65:0:0:65:2312:-208.182,-19.567,0 chr02 18862798 . A G 14679.8 PASS AB=0.496552;ABP=3.14508;AC=19;AF=0.452381;AN=42;AO=814;CIGAR=1X;DP=1680;DPB=1680;DPRA=0.928901;EPP=1753.26;EPPR=1866.17;GTI=1;LEN=1;MEANALT=1;MQM=59.9951;MQMR=59.9815;NS=21;NUMALT=1;ODDS=4.49928;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29034;QR=30998;RO=866;RPL=812;RPP=1753.26;RPPR=1866.17;RPR=2;RUN=1;SAF=0;SAP=1770.59;SAR=814;SRF=0;SRP=1883.51;SRR=866;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:51,35:51:1819:35:1252:-87.0956,0,-138.102 0/1:44:29,15:29:1044:15:540:-35.6912,0,-81.0295 0/1:129:62,67:62:2232:67:2372:-174.903,0,-162.311 0/1:82:39,43:39:1400:43:1540:-114.209,0,-101.615 0/1:156:78,78:78:2791:78:2776:-203.121,0,-204.469 0/1:68:35,33:35:1247:33:1180:-86.038,0,-92.064 0/1:107:48,59:48:1705:59:2107:-157.689,0,-121.524 1/1:165:0,165:0:0:165:5893:-530.481,-49.67,0 0/1:186:80,106:80:2860:106:3772:-283.687,0,-201.646 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:26:16,10:16:572:10:356:-24.5545,0,-43.9866 0/0:104:104,0:104:3722:0:0:0,-31.3071,-335.18 0/1:121:44,77:44:1571:77:2748:-211.137,0,-105.256 0/1:69:53,16:53:1900:16:576:-31.4039,0,-150.507 0/1:37:23,14:23:828:14:496:-33.8362,0,-63.706 0/1:38:19,19:19:684:19:680:-50.09,0,-50.4512 0/1:77:35,42:35:1244:42:1499:-112.025,0,-89.062 0/1:68:42,26:42:1504:26:923:-62.9167,0,-115.185 0/0:67:67,0:67:2403:0:0:0,-20.169,-216.526 0/0:39:38,1:38:1364:1:36:0,-8.14189,-119.462 chr02 18863332 . AAGGAGGAGG AAGAAGC,AAGAAGAAGC 68073.8 PASS AB=0.595068,0.387123;ABP=289.547,406.949;AC=21,21;AF=0.5,0.5;AN=42;AO=2172,1413;CIGAR=1M3D2M1X2M1X,3M1X2M1X2M1X;DP=3650;DPB=2975.3;DPRA=0,0;EPP=4719.45,3071.3;EPPR=0;GTI=2;LEN=7,10;MEANALT=4.2381,4.2381;MQM=59.2864,58.2314;MQMR=0;NS=21;NUMALT=2;ODDS=4.58295;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=75901,48078;QR=0;RO=0;RPL=2172,3;RPP=4719.45,3045.3;RPPR=0;RPR=0,1410;RUN=1,1;SAF=2172,3;SAP=4719.45,3045.3;SAR=0,1410;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:159:0,83,73:0:0:83,73:2898,2480:-436.566,-201.139,-176.153,-235.469,0,-213.494 1/2:95:0,36,58:0:0:36,58:1281,1968:-263.802,-159.462,-148.625,-104.329,0,-86.8697 1/2:111:0,62,46:0:0:62,46:2150,1559:-301.076,-126.406,-107.742,-174.702,0,-160.855 1/2:213:0,54,156:0:0:54,156:1892,5290:-582.701,-428.815,-412.559,-153.903,0,-106.942 1/2:346:0,201,139:0:0:201,139:7003,4693:-948.603,-380.034,-319.527,-568.556,0,-526.713 1/2:135:0,101,33:0:0:101,33:3508,1131:-376.977,-91.8071,-61.403,-285.213,0,-275.279 1/2:176:0,121,53:0:0:121,53:4227,1808:-490.46,-146.679,-110.254,-343.799,0,-327.844 1/2:198:0,120,74:0:0:120,74:4215,2523:-547.429,-204.469,-168.345,-342.976,0,-320.7 1/2:373:0,287,81:0:0:287,81:10079,2754:-1042.9,-223.281,-136.885,-819.638,0,-795.255 1/2:22:0,19,3:0:0:19,3:663,99:-61.7531,-8.33104,-2.61147,-53.754,0,-52.8509 1/2:20:0,17,3:0:0:17,3:597,107:-57.6392,-9.07645,-3.95894,-48.9184,0,-48.0153 1/2:42:0,30,10:0:0:30,10:1079,349:-116.33,-28.3698,-19.3389,-87.9531,0,-84.9428 1/2:305:0,220,78:0:0:220,78:7696,2649:-840.722,-214.855,-148.628,-625.887,0,-602.406 1/2:155:0,78,75:0:0:78,75:2720,2532:-426.354,-205.163,-181.683,-221.231,0,-198.654 1/2:299:0,162,132:0:0:162,132:5668,4516:-826.395,-365.994,-317.227,-460.387,0,-420.651 1/2:153:0,98,52:0:0:98,52:3453,1794:-426.599,-145.538,-116.037,-281.08,0,-265.427 1/2:92:0,40,50:0:0:40,50:1415,1716:-254.414,-139.229,-127.187,-115.175,0,-100.123 1/2:161:0,98,58:0:0:98,58:3449,1990:-441.994,-161.535,-132.034,-280.479,0,-263.02 1/2:187:0,122,62:0:0:122,62:4224,2138:-516.785,-173.616,-136.89,-343.19,0,-324.526 1/2:300:0,170,127:0:0:170,127:5851,4280:-821.808,-346.809,-295.634,-474.987,0,-436.756 1/2:108:0,53,50:0:0:53,50:1833,1702:-286.986,-138.057,-122.103,-148.918,0,-133.866 chr02 18967725 . A G 36729.4 PASS AB=0.574484;ABP=131.432;AC=23;AF=0.547619;AN=42;AO=2014;CIGAR=1X;DP=3265;DPB=3265;DPRA=1.39469;EPP=4111.24;EPPR=2639.74;GTI=1;LEN=1;MEANALT=1.05;MQM=40.4459;MQMR=59.5504;NS=21;NUMALT=1;ODDS=21.8587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71774;QR=44732;RO=1250;RPL=32;RPP=4102.82;RPPR=2639.74;RPR=1982;RUN=1;SAF=1;SAP=4367.67;SAR=2013;SRF=0;SRP=2717.35;SRR=1250;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:58,100:58:2067:100:3563:-260.861,0,-138.681 0/1:191:53,138:53:1887:138:4915:-363.279,0,-112.558 0/1:134:64,70:64:2287:70:2465:-173.987,0,-165.742 0/1:324:122,202:122:4367:202:7195:-524.383,0,-295.543 0/1:268:136,132:136:4884:132:4711:-329.296,0,-358.762 0/1:262:57,205:57:2044:205:7317:-545.008,0,-105.258 0/1:153:90,63:90:3207:63:2244:-145.304,0,-242.275 0/0:113:113,0:113:4035:0:0:0,-34.0164,-362.998 0/1:280:148,132:148:5300:132:4709:-330.117,0,-392.798 0/1:13:2,11:2:64:11:396:-30.3226,0,-2.1653 0/1:27:15,12:15:531:12:432:-28.7872,0,-39.9764 0/1:73:29,44:29:1044:44:1567:-111.312,0,-72.2772 1/1:256:1,255:1:36:255:9102:-787.592,-73.468,0 0/1:156:65,90:65:2332:90:3197:-230.848,0,-163.231 0/1:164:95,69:95:3408:69:2446:-162.404,0,-257.498 0/1:161:89,72:89:3196:72:2580:-179.173,0,-238.834 0/1:156:58,98:58:2080:98:3503:-259.662,0,-140.509 0/1:65:30,35:30:1072:35:1252:-86.3612,0,-77.2162 0/1:80:22,58:22:783:58:2051:-153.237,0,-46.6892 1/1:190:3,187:3:108:187:6675:-561.109,-47.1205,0 1/1:41:0,41:0:0:41:1454:-124.376,-12.3422,0 chr02 18985850 . CTTTTTTATGG CTTCTTTTATGG,CTTTTTTTTATGG 39329.4 PASS AB=0.517675,0.466147;ABP=7.5393,19.6236;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1104,895;CIGAR=3M1I8M,1M2I10M;DP=2033;DPB=2299.91;DPRA=1.7083,1.41247;EPP=2400.32,1946.48;EPPR=0;GTI=0;LEN=1,2;MEANALT=3.47368,3.47368;MQM=59.8886,59.5151;MQMR=0;NS=21;NUMALT=2;ODDS=3.19528;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=9.33333,9.33333;PQR=9.33333;PRO=0.333333;QA=38488,31153;QR=0;RO=0;RPL=1104,895;RPP=2400.32,1946.48;RPPR=0;RPR=0,0;RUN=1,1;SAF=1104,895;SAP=2400.32,1946.48;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:163:0,96,64:0:0:96,64:3345,2221:-452.624,-180.604,-151.705,-272.085,0,-252.819 1/2:105:0,48,57:0:0:48,57:1689,1980:-298.735,-161.24,-146.79,-137.845,0,-120.686 1/2:116:0,54,60:0:0:54,60:1931,2102:-328.493,-171.051,-154.796,-157.488,0,-139.426 1/2:72:0,31,39:0:0:31,39:1074,1383:-199.948,-112.668,-103.336,-87.2709,0,-75.5307 1/2:237:0,121,111:0:0:121,111:4230,3866:-658.396,-314.285,-277.86,-344.119,0,-310.705 1/2:39:0,20,19:0:0:20,19:708,658:-111.497,-53.8215,-47.8009,-58.025,0,-52.3054 1/2:131:0,62,66:0:0:62,66:2134,2286:-359.117,-185.804,-167.14,-173.329,0,-153.461 2/2:113:0,0,111:0:0:0,111:0,3899:-350.715,-350.715,-350.715,-33.4143,-33.4143,0 1/2:181:0,105,74:0:0:105,74:3650,2583:-506.797,-210.049,-178.441,-296.737,0,-274.461 1/2:16:0,12,4:0:0:12,4:432,140:-46.9969,-11.7405,-8.1281,-35.6088,0,-34.4047 2/2:5:0,0,5:0:0:0,5:0,167:-15.3126,-15.3126,-15.3126,-1.50515,-1.50515,0 1/2:29:0,18,10:0:0:18,10:639,356:-81.0436,-28.9835,-23.565,-52.0567,0,-49.0464 1/1:86:0,84,0:0:0:84,0:2920,0:-262.702,-25.2865,0,-262.702,-25.2865,-262.702 1/2:89:0,52,36:0:0:52,36:1779,1259:-246.817,-102.431,-86.7772,-144.459,0,-133.622 1/2:206:0,102,100:0:0:102,100:3552,3466:-570.432,-281.598,-250.893,-288.822,0,-258.719 1/2:92:0,39,52:0:0:39,52:1370,1816:-259.239,-147.732,-135.992,-111.574,0,-95.9207 1/2:46:0,24,21:0:0:24,21:839,718:-126.523,-58.2661,-51.0414,-68.2534,0,-61.9318 1/2:96:0,48,47:0:0:48,47:1629,1626:-263.863,-131.764,-117.315,-132.05,0,-117.902 1/2:51:0,32,18:0:0:32,18:1096,591:-136.736,-47.7612,-38.1282,-88.9871,0,-83.5686 1/1:105:0,101,1:0:0:101,1:3569,36:-321.103,-30.404,0,-318.166,-27.4482,-317.865 1/1:55:0,55,0:0:0:55,0:1902,0:-171.438,-16.5567,0,-171.438,-16.5567,-171.438 chr02 18986371 . TCCACTGATG GCCATTGGTG,TCCATTGGTC 38719.1 PASS AB=0.464531,0.532265;ABP=26.8866,22.7682;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1321,1296;CIGAR=1X3M1X2M1X2M,4M1X2M1X1M1X;DP=2625;DPB=2625;DPRA=1.9723,1.25841;EPP=2742.72,2646.2;EPPR=0;GTI=2;LEN=10,10;MEANALT=2.26316,2.27778;MQM=31.1045,30.956;MQMR=0;NS=21;NUMALT=2;ODDS=2.49179;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40900,45653;QR=0;RO=0;RPL=15,20;RPP=2742.72,2646.2;RPPR=0;RPR=1306,1276;RUN=1,1;SAF=1321,1296;SAP=2871.53,2817.24;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:170:0,89,80:0:0:89,80:2818,2808:-395.346,-192.004,-165.213,-203.346,0,-179.264 1/2:98:0,39,58:0:0:39,58:1077,2026:-197.6,-122.807,-111.067,-74.7977,0,-57.338 1/2:109:0,52,57:0:0:52,57:1657,2011:-257.329,-137.818,-122.165,-119.806,0,-102.647 1/2:175:0,81,93:0:0:81,93:2570,3310:-410.351,-225.02,-200.637,-185.336,0,-157.34 1/2:331:0,159,172:0:0:159,172:5013,6025:-775.044,-413.283,-365.419,-362.054,0,-310.277 1/2:212:0,67,144:0:0:67,144:1868,5092:-438.938,-309.125,-288.956,-129.837,0,-86.4884 1/2:232:0,116,116:0:0:116,116:3234,4105:-474.015,-249.149,-214.229,-225.126,0,-190.207 2/2:128:0,0,128:0:0:0,128:0,4501:-329.727,-329.727,-329.727,-38.5318,-38.5318,0 1/2:223:0,98,124:0:0:98,124:3281,4347:-551.455,-311.01,-281.509,-240.397,0,-203.069 1/2:7:0,6,1:0:0:6,1:180,36:-15.3537,-2.60173,-0.795554,-13.0393,0,-12.7383 2/2:5:0,0,5:0:0:0,5:0,179:-12.5726,-12.5726,-12.5726,-1.50515,-1.50515,0 1/2:20:0,3,17:0:0:3,17:89,609:-45.4609,-39.1267,-38.2236,-6.60531,0,-1.4878 1/1:155:0,155,0:0:0:155,0:4919,0:-401.756,-46.6597,0,-401.756,-46.6597,-401.756 1/2:118:0,50,67:0:0:50,67:1586,2354:-275.534,-161.279,-146.228,-114.193,0,-94.024 1/2:184:0,102,81:0:0:102,81:3237,2845:-427.605,-194.15,-163.445,-233.394,0,-209.011 1/2:95:0,42,53:0:0:42,53:1416,1867:-236.977,-133.478,-120.835,-103.808,0,-87.8537 1/2:115:0,51,64:0:0:51,64:1696,2271:-286.597,-162.549,-147.197,-124.356,0,-105.09 1/2:62:0,37,25:0:0:37,25:1110,874:-135.796,-57.0606,-45.9225,-79.0147,0,-71.489 1/2:34:0,23,11:0:0:23,11:736,393:-80.2136,-27.1356,-20.2119,-53.3777,0,-50.0664 1/1:104:0,103,0:0:0:103,0:3076,0:-249.076,-31.0061,0,-249.076,-31.0061,-249.076 1/1:48:0,48,0:0:0:48,0:1337,0:-107.702,-14.4494,0,-107.702,-14.4494,-107.702 chr02 18986452 . A G 17585.9 PASS AB=0.458997;ABP=27.7625;AC=23;AF=0.547619;AN=42;AO=1033;CIGAR=1X;DP=2026;DPB=2026;DPRA=1.30067;EPP=2246.14;EPPR=2159.28;GTI=1;LEN=1;MEANALT=1;MQM=59.8209;MQMR=59.9869;NS=21;NUMALT=1;ODDS=1.60165;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35895;QR=34946;RO=993;RPL=0;RPP=2246.14;RPPR=2159.28;RPR=1033;RUN=1;SAF=0;SAP=2246.14;SAR=1033;SRF=0;SRP=2159.28;SRR=993;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:39,38:39:1367:38:1259:-90.4194,0,-100.148 0/1:101:56,45:56:1975:45:1581:-112.173,0,-147.618 0/1:126:82,44:82:2915:44:1540:-100.959,0,-224.656 0/1:131:60,71:60:2096:71:2456:-181.856,0,-149.473 0/1:212:123,89:123:4344:89:3114:-216.667,0,-327.318 0/1:64:37,27:37:1315:27:935:-65.1962,0,-99.3851 0/1:181:90,91:90:3159:91:3158:-229.959,0,-230.019 0/0:75:75,0:75:2661:0:0:0,-22.5772,-239.735 0/1:207:127,80:127:4463:80:2776:-187.092,0,-339.53 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/1:9:7,2:7:239:2:72:-4.12745,0,-19.1334 0/1:37:19,18:19:672:18:640:-46.7897,0,-49.6687 1/1:100:1,99:1:21:99:3488:-312.031,-28.0031,0 0/1:101:58,43:58:2037:43:1494:-104.345,0,-153.197 0/1:114:60,54:60:2119:54:1899:-136.781,0,-156.661 0/1:111:51,60:51:1789:60:2076:-153.69,0,-127.876 0/1:48:30,18:30:1061:18:635:-43.0275,0,-81.3499 0/1:87:48,39:48:1675:39:1329:-93.713,0,-124.846 0/1:81:29,52:29:1002:52:1773:-135.462,0,-66.1052 1/1:104:0,104:0:0:104:3613:-325.33,-31.3071,0 1/1:52:0,52:0:0:52:1805:-162.729,-15.6536,0 chr02 18986637 . TG CA 52513.4 PASS AB=0.491977;ABP=6.49469;AC=19;AF=0.452381;AN=42;AO=3200;CIGAR=2X;DP=6581;DPB=6581;DPRA=4.98279;EPP=6951.72;EPPR=7327.39;GTI=0;LEN=2;MEANALT=1.44444;MQM=47.8181;MQMR=47.8209;NS=21;NUMALT=1;ODDS=23.6232;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=112792;QR=118695;RO=3373;RPL=0;RPP=6951.72;RPPR=7327.39;RPR=3200;RUN=1;SAF=0;SAP=6951.72;SAR=3200;SRF=0;SRP=7327.39;SRR=3373;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:45,40:45:1599:40:1429:-102.272,0,-117.685 0/1:60:29,30:29:1033:30:1069:-77.5741,0,-74.2444 0/1:97:61,36:61:2122:36:1273:-84.5642,0,-159.741 0/1:40:22,18:22:777:18:622:-43.9178,0,-57.0548 0/1:214:102,112:102:3653:112:3951:-287.119,0,-261.355 0/1:93:35,58:35:1211:58:2059:-155.827,0,-80.0953 0/1:116:70,46:70:2476:46:1638:-110.743,0,-186.23 1/1:136:0,134:0:0:134:4747:-423.458,-40.338,0 0/1:135:59,76:59:2117:76:2686:-198.67,0,-148.433 0/1:1655:849,805:849:29790:805:28335:-2032.63,0,-2157.45 0/1:738:332,406:332:11687:406:14275:-1042.62,0,-816.966 0/1:974:501,473:501:17698:473:16723:-1197.93,0,-1286.62 0/0:65:65,0:65:2287:0:0:0,-19.5669,-203.129 0/1:83:47,36:47:1639:36:1279:-89.0566,0,-121.533 0/1:190:107,82:107:3748:82:2901:-201.722,0,-276.101 0/1:63:36,27:36:1274:27:972:-68.2269,0,-95.2026 0/1:104:63,40:63:2209:40:1412:-94.2057,0,-165.546 0/1:1523:751,770:751:26452:770:27038:-1953.88,0,-1898.73 0/1:62:51,11:51:1720:11:383:-15.9248,0,-135.158 0/0:101:101,0:101:3560:0:0:0,-30.404,-317.285 0/0:47:47,0:47:1643:0:0:0,-14.1484,-146.856 chr02 18986651 . TTAG ATAA,TCAA 128469 PASS AB=0.503752,0.493214;ABP=3.77619,5.51531;AC=23,19;AF=0.547619,0.452381;AN=42;AO=3367,3228;CIGAR=1X2M1X,1M1X1M1X;DP=6614;DPB=6614;DPRA=2.32914,5.03302;EPP=7305.67,7003.84;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.8,3;MQM=47.8337,47.9164;MQMR=0;NS=21;NUMALT=2;ODDS=21.9203;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=118852,113445;QR=0;RO=0;RPL=1,1;RPP=7305.67,7003.84;RPPR=0;RPR=3366,3227;RUN=1,1;SAF=0,0;SAP=7314.36,7012.52;SAR=3367,3228;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:85:0,45,40:0:0:45,40:1597,1417:-243.957,-114.766,-101.22,-129.543,0,-117.502 1/2:60:0,29,30:0:0:29,30:1031,1067:-169.286,-86.1726,-77.4427,-83.1097,0,-74.0788 1/2:99:0,61,38:0:0:61,38:2159,1354:-283.312,-109.716,-91.3529,-173.948,0,-162.509 1/2:41:0,22,19:0:0:22,19:769,644:-113.663,-52.2247,-45.6021,-61.7782,0,-56.0586 1/2:218:0,102,115:0:0:102,115:3584,4021:-611.952,-323.255,-292.55,-288.686,0,-254.068 1/2:94:0,35,59:0:0:35,59:1236,2073:-266.825,-167.434,-156.898,-99.7402,0,-81.9794 1/2:116:0,70,46:0:0:70,46:2493,1634:-332.543,-131.349,-110.277,-201.546,0,-187.698 2/2:139:0,0,139:0:0:0,139:0,4862:-434.403,-434.403,-434.403,-41.8432,-41.8432,0 1/2:136:0,59,77:0:0:59,77:2097,2720:-388.786,-219.557,-201.796,-169.58,0,-146.401 1/2:1662:0,846,812:0:0:846,812:29858,28568:-4714.41,-2307.13,-2052.46,-2407.34,0,-2162.9 1/2:738:0,329,405:0:0:329,405:11592,14153:-2064.52,-1132.52,-1033.48,-932.046,0,-810.129 1/2:977:0,501,475:0:0:501,475:17715,16790:-2784.11,-1353.44,-1202.63,-1430.69,0,-1287.7 1/1:64:0,64,0:0:0:64,0:2270,0:-202.267,-19.2659,0,-202.267,-19.2659,-202.267 1/2:84:0,47,37:0:0:47,37:1645,1301:-237.655,-105.103,-90.9547,-132.9,0,-121.762 1/2:194:0,109,85:0:0:109,85:3844,2968:-548.341,-239.307,-206.495,-309.381,0,-283.794 1/2:63:0,35,27:0:0:35,27:1249,962:-178.879,-77.8319,-67.2958,-101.044,0,-92.9157 1/2:107:0,63,43:0:0:63,43:2202,1513:-298.433,-121.315,-102.35,-177.232,0,-164.287 1/2:1527:0,751,770:0:0:751,770:26485,27012:-4312.9,-2179.01,-1952.93,-2133.96,0,-1902.17 1/2:62:0,51,11:0:0:51,11:1787,386:-175.349,-31.5468,-16.1943,-144.151,0,-140.84 1/1:101:0,101,0:0:0:101,0:3564,0:-317.786,-30.404,0,-317.786,-30.404,-317.786 1/1:47:0,47,0:0:0:47,0:1675,0:-149.599,-14.1484,0,-149.599,-14.1484,-149.599 chr02 18986662 . G A 57226.5 PASS AB=0.508735;ABP=7.06927;AC=23;AF=0.547619;AN=42;AO=3329;CIGAR=1X;DP=6469;DPB=6469;DPRA=0;EPP=7231.84;EPPR=6721.88;GTI=0;LEN=1;MEANALT=1.09524;MQM=47.8234;MQMR=47.9761;NS=21;NUMALT=1;ODDS=24.7586;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=119125;QR=111397;RO=3138;RPL=3329;RPP=7231.84;RPPR=6721.88;RPR=0;RUN=1;SAF=0;SAP=7231.84;SAR=3329;SRF=0;SRP=6817.09;SRR=3138;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:40,44:40:1423:44:1569:-115.249,0,-102.029 0/1:59:31,28:31:1108:28:1008:-72.3616,0,-81.4514 0/1:97:36,61:36:1271:61:2187:-165.674,0,-84.4542 0/1:40:18,22:18:640:22:784:-57.6771,0,-45.5148 0/1:211:111,100:111:3937:100:3570:-254.76,0,-286.953 0/1:92:58,34:58:2076:34:1224:-81.4154,0,-156.542 0/1:115:46,69:46:1622:69:2476:-186.415,0,-109.547 0/0:133:131,2:131:4663:2:72:0,-33.9805,-411.249 0/1:134:75,59:75:2684:59:2118:-148.937,0,-198.801 0/1:1632:791,840:791:28118:840:30052:-2186.15,0,-2017.84 0/1:723:396,326:396:14042:326:11671:-819.302,0,-1026.38 0/1:958:460,498:460:16331:498:17798:-1300.93,0,-1168.45 1/1:64:0,64:0:0:64:2301:-204.683,-19.2659,0 0/1:83:37,46:37:1304:46:1632:-120.84,0,-91.4336 0/1:191:83,108:83:2941:108:3876:-287.403,0,-204.696 0/1:63:27,36:27:955:36:1292:-96.7775,0,-66.7401 0/1:106:43,63:43:1540:63:2260:-168.842,0,-104.92 0/1:1480:746,734:746:26436:734:26246:-1892.14,0,-1910.69 0/1:57:9,48:9:306:48:1709:-135.602,0,-10.5505 1/1:100:0,100:0:0:100:3588:-319.453,-30.103,0 1/1:47:0,47:0:0:47:1692:-151.057,-14.1484,0 chr02 18986669 . A G 54107.8 PASS AB=0.497702;ABP=3.28975;AC=23;AF=0.547619;AN=42;AO=3238;CIGAR=1X;DP=6434;DPB=6434;DPRA=2.31544;EPP=7034.24;EPPR=6923.5;GTI=0;LEN=1;MEANALT=1.05;MQM=47.8616;MQMR=47.9196;NS=21;NUMALT=1;ODDS=16.4924;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=114551;QR=114535;RO=3195;RPL=3238;RPP=7034.24;RPPR=6923.5;RPR=0;RUN=1;SAF=0;SAP=7034.24;SAR=3238;SRF=0;SRP=6940.86;SRR=3195;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:37,43:37:1332:43:1544:-114.22,0,-95.1029 0/1:60:31,29:31:1116:29:1024:-73.5457,0,-81.8374 0/1:95:37,58:37:1324:58:2071:-155.723,0,-90.0927 0/1:41:19,22:19:668:22:770:-56.1373,0,-47.7316 0/1:214:116,98:116:4150:98:3478:-245.776,0,-304.283 0/1:91:57,34:57:2040:34:1208:-80.3428,0,-154.112 0/1:113:47,66:47:1692:66:2339:-174.858,0,-116.321 0/0:136:136,0:136:4888:0:0:0,-40.9401,-435.954 0/1:133:75,58:75:2700:58:2078:-145.663,0,-200.344 0/1:1616:808,807:808:28951:807:28530:-2056.3,0,-2094.2 0/1:720:401,319:401:14363:319:11290:-786.651,0,-1054.17 0/1:943:465,478:465:16668:478:16939:-1229.15,0,-1200.39 1/1:63:0,63:0:0:63:2222:-197.523,-18.9649,0 0/1:83:37,46:37:1319:46:1619:-119.731,0,-92.5595 0/1:192:84,108:84:3012:108:3817:-281.776,0,-210.668 0/1:63:27,36:27:972:36:1284:-96.0838,0,-68.2269 0/1:102:42,60:42:1508:60:2096:-156.022,0,-103.255 0/1:1486:765,721:765:27440:721:25465:-1821.66,0,-1998.89 0/1:60:11,49:11:392:49:1709:-134.446,0,-17.333 1/1:98:0,98:0:0:98:3486:-311.167,-29.5009,0 1/1:45:0,45:0:0:45:1582:-141.51,-13.5464,0 chr02 19005575 . ACTGCTGC ACTGC,GCTACTGC 48383 PASS AB=0.71399,0.285596;ABP=963.955,967.676;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1783,691;CIGAR=1M3D4M,1X2M1X4M;DP=2475;DPB=1809.75;DPRA=0,2.47551;EPP=3874.75,1503.5;EPPR=0;GTI=3;LEN=3,8;MEANALT=2,2.05;MQM=59.5367,56.9971;MQMR=0;NS=21;NUMALT=2;ODDS=9.68756;PAIRED=0,0;PAIREDR=0;PAO=0.666667,4.16667;PQA=23.6667,137.167;PQR=101.167;PRO=3.16667;QA=62899,24471;QR=0;RO=0;RPL=0,0;RPP=3874.75,1503.5;RPPR=0;RPR=1783,691;RUN=1,1;SAF=1783,691;SAP=3874.75,1503.5;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,65,12:0:0:65,12:2293,425:-221.601,-34.9216,-15.3547,-186.984,0,-183.372 1/2:55:0,46,9:0:0:46,9:1640,315:-159.512,-25.8971,-12.0497,-133.912,0,-131.203 1/2:80:0,62,18:0:0:62,18:2192,633:-230.294,-51.7657,-33.1019,-178.83,0,-173.412 1/2:193:0,157,36:0:0:157,36:5511,1269:-552.11,-103.66,-56.3981,-448.802,0,-437.965 1/2:281:0,216,65:0:0:216,65:7646,2284:-808.257,-185.575,-120.553,-622.674,0,-603.107 1/2:100:0,66,34:0:0:66,34:2333,1196:-287.609,-97.6006,-77.7326,-190.361,0,-180.125 1/2:154:0,109,45:0:0:109,45:3827,1591:-440.796,-129.676,-96.8633,-311.414,0,-297.867 1/2:101:0,50,51:0:0:50,51:1776,1814:-292.664,-147.968,-132.916,-145.051,0,-129.698 1/2:214:0,154,60:0:0:154,60:5458,2120:-617.53,-172.923,-126.565,-444.96,0,-426.899 1/2:21:0,12,9:0:0:12,9:420,324:-60.8804,-26.7137,-23.1014,-34.5217,0,-31.8124 1/1:10:0,9,1:0:0:9,1:316,30:-28.4739,-2.70927,0,-26.0813,-0.0116698,-25.7802 1/2:50:0,27,23:0:0:27,23:948,817:-143.993,-66.8392,-58.7113,-77.5068,0,-70.5831 1/2:172:0,117,55:0:0:117,55:4107,1956:-493.799,-159.61,-124.389,-334.543,0,-317.986 1/2:158:0,131,27:0:0:131,27:4607,970:-454.416,-79.4793,-40.0444,-375.295,0,-367.167 1/2:186:0,137,49:0:0:137,49:4872,1746:-539.67,-142.656,-101.414,-397.37,0,-382.62 1/2:44:0,39,5:0:0:39,5:1373,178:-126.612,-14.8404,-3.10022,-112.126,0,-110.621 1/1:49:0,49,0:0:0:49,0:1683,0:-151.715,-14.7505,0,-151.715,-14.7505,-151.715 1/2:124:0,71,53:0:0:71,53:2499,1880:-356.615,-153.306,-131.932,-203.603,0,-187.649 1/2:92:0,52,40:0:0:52,40:1844,1425:-266.349,-116.327,-100.673,-150.319,0,-138.278 1/2:244:0,168,75:0:0:168,75:5913,2657:-696.624,-215.381,-164.808,-481.176,0,-458.599 1/2:70:0,46,24:0:0:46,24:1641,841:-202.203,-68.4991,-54.6517,-134.056,0,-126.831 chr02 19018362 . C A 22996.2 PASS AB=0.604156;ABP=184.4;AC=19;AF=0.452381;AN=42;AO=1266;CIGAR=1X;DP=2343;DPB=2343;DPRA=0.948718;EPP=2752.09;EPPR=2337.34;GTI=1;LEN=1;MEANALT=1.10526;MQM=59.6777;MQMR=59.9609;NS=21;NUMALT=1;ODDS=1.60783;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45224;QR=38474;RO=1075;RPL=0;RPP=2752.09;RPPR=2337.34;RPR=1266;RUN=1;SAF=0;SAP=2752.09;SAR=1266;SRF=0;SRP=2337.34;SRR=1075;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:43,57:43:1539:57:2035:-153.312,0,-108.699 0/1:81:32,49:32:1143:49:1752:-133.554,0,-78.7953 0/1:130:55,74:55:1976:74:2648:-199.337,0,-138.922 0/1:98:45,53:45:1616:53:1895:-141.319,0,-116.227 0/1:375:154,220:154:5524:220:7846:-593.191,0,-384.334 0/1:104:34,70:34:1224:70:2494:-193.352,0,-79.1518 0/1:116:56,60:56:1990:60:2147:-158.56,0,-144.453 1/1:101:0,101:0:0:101:3619:-325.876,-30.404,0 0/1:244:76,168:76:2732:168:6007:-467.264,0,-172.671 0/1:16:9,7:9:324:7:252:-18.2125,0,-24.6894 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.974 0/0:83:81,2:81:2900:2:72:0,-18.1488,-254.397 0/1:133:39,94:39:1404:94:3340:-260.752,0,-86.6223 0/1:107:40,67:40:1436:67:2384:-182.594,0,-97.3275 0/1:68:27,41:27:968:41:1463:-111.409,0,-66.9591 0/1:96:16,80:16:567:80:2876:-230.173,0,-22.4618 0/1:134:54,80:54:1922:80:2859:-217.184,0,-132.918 0/1:98:69,29:69:2462:29:1031:-63.5841,0,-192.332 0/0:115:115,0:115:4124:0:0:0,-34.6184,-371.344 0/0:119:119,0:119:4227:0:0:0,-35.8226,-380.607 chr02 19029256 . A G 16240.3 PASS AB=0.503849;ABP=3.19417;AC=22;AF=0.52381;AN=42;AO=906;CIGAR=1X;DP=1788;DPB=1788;DPRA=1.00186;EPP=1970.36;EPPR=1918.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9128;MQMR=59.9116;NS=21;NUMALT=1;ODDS=0.946999;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32272;QR=31607;RO=882;RPL=906;RPP=1970.36;RPPR=1918.25;RPR=0;RUN=1;SAF=906;SAP=1970.36;SAR=0;SRF=882;SRP=1918.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:56,45:56:2012:45:1599:-113.795,0,-150.907 0/1:62:24,38:24:860:38:1331:-101.422,0,-59.058 0/1:151:86,65:86:3096:65:2320:-163.6,0,-233.41 0/1:54:22,32:22:777:32:1120:-84.8493,0,-53.9943 0/1:147:57,90:57:2052:90:3210:-244.8,0,-140.699 0/1:58:35,23:35:1260:23:824:-57.0236,0,-96.2457 0/1:139:76,63:76:2716:63:2260:-161.819,0,-202.841 0/0:164:164,0:164:5873:0:0:0,-49.3689,-528.589 0/1:160:89,71:89:3180:71:2533:-180.054,0,-238.251 0/1:17:14,3:14:500:3:108:-4.95766,0,-40.2187 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:22:13,9:13:464:9:316:-22.1562,0,-35.4748 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 0/1:88:50,38:50:1788:38:1356:-95.8498,0,-134.712 0/1:153:67,86:67:2408:86:3058:-229.392,0,-170.918 0/1:61:27,34:27:972:34:1224:-92.0684,0,-69.4351 0/1:75:31,44:31:1116:44:1562:-118.293,0,-78.1744 0/1:111:54,57:54:1929:57:2027:-149.288,0,-140.47 0/1:30:8,22:8:288:22:784:-61.853,0,-17.2365 1/1:86:1,85:1:36:85:3033:-269.598,-22.2903,0 1/1:48:2,46:2:68:46:1635:-140.98,-7.99173,0 chr02 19029265 . CATA GATA,GATG 36185.8 PASS AB=0.503127,0.492703;ABP=3.13253,3.67578;AC=22,20;AF=0.52381,0.47619;AN=42;AO=911,880;CIGAR=1X3M,1X2M1X;DP=1800;DPB=1800;DPRA=1.00277,1.73429;EPP=1981.22,1913.91;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=2.10526,2.15789;MQM=59.8957,59.9193;MQMR=60;NS=21;NUMALT=2;ODDS=0.478319;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32435,30936;QR=96;RO=3;RPL=911,880;RPP=1981.22,1913.91;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=911,880;SAP=1981.22,1913.91;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:102:1,46,55:1:25:46,55:1653,1920:-288.836,-154.28,-142.38,-133.012,0,-118.402 1/2:60:0,36,24:0:0:36,24:1296,862:-176.424,-70.6777,-59.8406,-106.106,0,-98.8812 1/2:150:0,63,87:0:0:63,87:2253,3065:-433.595,-249.889,-230.924,-184.061,0,-157.872 1/2:55:0,33,22:0:0:33,22:1184,766:-159.218,-62.6359,-52.702,-96.9343,0,-90.3117 1/2:149:1,91,57:1:35:91,57:3231,1981:-420.85,-158.204,-133.658,-260.1,0,-245.789 1/2:59:0,24,35:0:0:24,35:860,1222:-169.887,-99.745,-92.5203,-70.4968,0,-59.9607 1/2:140:0,62,78:0:0:62,78:2216,2709:-401.26,-220.572,-201.909,-181.04,0,-157.56 2/2:165:0,0,164:0:0:0,164:0,5799:-521.728,-521.728,-521.728,-49.3689,-49.3689,0 1/2:162:0,73,87:0:0:73,87:2582,3069:-460.218,-249.92,-227.945,-210.325,0,-184.136 1/2:18:0,3,15:0:0:3,15:108,528:-52.1484,-43.3348,-42.4318,-9.17208,0,-4.65663 2/2:6:0,0,6:0:0:0,6:0,216:-19.7905,-19.7905,-19.7905,-1.80618,-1.80618,0 1/2:22:0,9,13:0:0:9,13:324,462:-64.4415,-38.0028,-35.2935,-26.7966,0,-22.8832 1/1:56:0,56,0:0:0:56,0:1978,0:-178.291,-16.8577,0,-178.291,-16.8577,-178.291 1/2:88:0,39,49:0:0:39,49:1381,1703:-251.298,-138.802,-127.062,-112.847,0,-98.0961 1/2:157:0,89,68:0:0:89,68:3131,2401:-450.742,-195.877,-169.085,-255.217,0,-234.747 1/2:59:0,32,27:0:0:32,27:1148,968:-172.948,-79.3098,-69.6769,-93.9969,0,-85.8691 1/2:74:0,43,31:0:0:43,31:1495,1085:-210.17,-88.6261,-75.6818,-121.893,0,-112.561 1/2:112:0,58,52:0:0:58,52:2072,1825:-317.453,-148.516,-131.056,-168.931,0,-153.278 1/2:32:0,23,9:0:0:23,9:824,319:-93.5452,-26.3425,-19.4188,-67.5581,0,-64.8488 1/1:87:0,85,1:0:0:85,1:3056,36:-274.906,-25.5876,0,-271.969,-22.6501,-271.668 1/1:47:1,46,0:1:36:46,0:1643,0:-144.56,-10.5501,0,-144.861,-13.8474,-147.798 chr02 19029327 . G T 10165.5 PASS AB=0.410895;ABP=91.6283;AC=19;AF=0.452381;AN=42;AO=602;CIGAR=1X;DP=1694;DPB=1694;DPRA=1.4625;EPP=1199.76;EPPR=2228.9;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.9799;NS=21;NUMALT=1;ODDS=8.76582;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21442;QR=38933;RO=1092;RPL=13;RPP=1199.76;RPPR=2228.9;RPR=589;RUN=1;SAF=0;SAP=1310.24;SAR=602;SRF=0;SRP=2374.26;SRR=1092;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:33,17:33:1184:17:603:-39.548,0,-91.8168 0/1:54:38,16:38:1364:16:557:-34.1999,0,-106.805 0/1:50:30,20:30:1057:20:716:-49.7162,0,-80.3875 0/1:120:69,51:69:2468:51:1820:-127.958,0,-186.251 0/1:198:129,69:129:4594:69:2472:-163.13,0,-354.022 0/1:71:32,39:32:1144:39:1395:-104.475,0,-81.8964 0/1:104:50,54:50:1772:54:1920:-141.77,0,-128.369 1/1:72:0,72:0:0:72:2545:-229.298,-21.6742,0 0/1:93:61,32:61:2188:32:1144:-75.2737,0,-169.19 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:25:16,9:16:576:9:320:-21.6166,0,-44.6492 0/0:124:123,1:123:4392:1:36:0,-33.7294,-391.856 0/1:50:27,23:27:960:23:819:-58.9801,0,-71.6648 0/1:89:46,43:46:1652:43:1540:-112.101,0,-122.177 0/1:52:31,21:31:1107:21:756:-52.7137,0,-84.2866 0/1:60:32,28:32:1139:28:1008:-72.9746,0,-84.7566 0/1:182:97,85:97:3439:85:3003:-215.714,0,-254.935 0/1:74:56,18:56:1985:18:644:-36.0144,0,-156.646 0/0:157:156,1:156:5571:1:36:0,-43.6634,-497.916 0/0:56:56,0:56:1981:0:0:0,-16.8577,-178.563 chr02 19033522 . A C 14021.3 PASS AB=0.554996;ABP=34.2988;AC=19;AF=0.452381;AN=42;AO=779;CIGAR=1X;DP=1500;DPB=1500;DPRA=1.0389;EPP=1694.59;EPPR=1566.47;GTI=1;LEN=1;MEANALT=1.05263;MQM=59.9846;MQMR=59.9889;NS=21;NUMALT=1;ODDS=4.77182;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27745;QR=25728;RO=720;RPL=779;RPP=1694.59;RPPR=1566.47;RPR=0;RUN=1;SAF=0;SAP=1694.59;SAR=779;SRF=0;SRP=1566.47;SRR=720;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:23,28:23:816:28:994:-74.4212,0,-58.4092 0/1:40:19,21:19:680:21:756:-56.326,0,-49.488 0/1:41:16,25:16:576:25:891:-68.1665,0,-39.8328 0/1:103:45,58:45:1604:58:2071:-155.652,0,-113.644 0/1:156:53,103:53:1896:103:3684:-284.803,0,-123.955 0/1:86:50,36:50:1778:36:1271:-88.8042,0,-134.411 0/1:87:42,45:42:1508:45:1604:-118.461,0,-109.825 1/1:117:0,117:0:0:117:4172:-375.664,-35.2205,0 0/1:116:49,67:49:1744:67:2392:-180.618,0,-122.325 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:10:6,4:6:207:4:144:-10.3033,0,-15.9566 0/0:70:70,0:70:2499:0:0:0,-21.0721,-225.162 0/1:85:28,57:28:1008:57:2043:-158.554,0,-65.4488 0/1:94:38,55:38:1356:55:1956:-147.959,0,-93.9849 0/1:64:20,44:20:712:44:1576:-122.866,0,-45.1407 0/1:78:39,39:39:1388:39:1365:-99.6661,0,-101.739 0/1:103:59,44:59:2120:44:1564:-110.045,0,-160.062 0/1:64:36,28:36:1284:28:974:-68.7045,0,-96.5975 0/0:68:68,0:68:2432:0:0:0,-20.47,-219.136 0/0:54:53,1:53:1904:1:36:0,-12.6573,-168.039 chr02 19033555 . A G 10042.9 PASS AB=0.52809;ABP=9.71991;AC=18;AF=0.428571;AN=42;AO=571;CIGAR=1X;DP=1225;DPB=1225;DPRA=0.980337;EPP=1234.25;EPPR=1423.15;GTI=1;LEN=1;MEANALT=1;MQM=59.965;MQMR=59.9113;NS=21;NUMALT=1;ODDS=4.12564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20395;QR=23412;RO=654;RPL=1;RPP=1234.25;RPPR=1423.15;RPR=570;RUN=1;SAF=571;SAP=1242.92;SAR=0;SRF=654;SRP=1423.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:37,43:37:1313:43:1514:-112.467,0,-94.1971 0/1:32:21,11:21:741:11:396:-26.3498,0,-57.3784 0/1:67:23,44:23:813:44:1580:-122.323,0,-53.3201 0/1:38:19,19:19:680:19:680:-50.09,0,-50.09 0/1:148:83,65:83:2968:65:2324:-164.865,0,-222.801 0/1:55:17,38:17:612:38:1344:-104.701,0,-38.8568 0/1:60:31,29:31:1116:29:1044:-76.1967,0,-82.6899 1/1:53:0,53:0:0:53:1889:-170.286,-15.9546,0 0/1:95:42,53:42:1512:53:1892:-141.96,0,-107.777 0/0:15:14,1:14:500:1:32:0,-1.31614,-42.1369 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:22:15,7:15:540:7:252:-16.4063,0,-42.3139 0/0:74:74,0:74:2656:0:0:0,-22.2762,-239.286 0/1:47:18,29:18:644:29:1040:-79.766,0,-44.1422 0/1:90:25,65:25:892:65:2332:-183.047,0,-53.507 0/1:44:23,21:23:828:21:752:-54.7609,0,-61.1071 0/1:45:26,19:26:932:19:684:-48.344,0,-70.6525 0/1:96:49,47:49:1756:47:1692:-123.668,0,-129.425 0/1:56:32,24:32:1152:24:840:-59.0586,0,-87.1325 0/0:62:62,0:62:2209:0:0:0,-18.6639,-199.073 0/0:42:42,0:42:1512:0:0:0,-12.6433,-136.375 chr02 19037417 . G A 15157.6 PASS AB=0.509817;ABP=4.28931;AC=19;AF=0.452381;AN=42;AO=864;CIGAR=1X;DP=1789;DPB=1789;DPRA=1.94165;EPP=1870.49;EPPR=2011.62;GTI=1;LEN=1;MEANALT=1;MQM=59.9977;MQMR=60;NS=21;NUMALT=1;ODDS=5.84018;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30946;QR=32908;RO=925;RPL=863;RPP=1870.49;RPPR=2011.62;RPR=1;RUN=1;SAF=864;SAP=1879.16;SAR=0;SRF=925;SRP=2011.62;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:33,17:33:1179:17:608:-40.0005,0,-91.3657 0/1:46:17,29:17:603:29:1044:-80.4274,0,-40.7521 0/1:98:40,58:40:1419:58:2080:-157.969,0,-98.5057 0/1:89:38,51:38:1356:51:1807:-136.119,0,-95.5488 0/1:226:110,116:110:3913:116:4168:-307.268,0,-284.331 0/1:126:73,53:73:2589:53:1904:-133.708,0,-195.328 0/1:146:69,77:69:2463:77:2760:-204.691,0,-177.973 1/1:87:3,84:3:108:84:3008:-260.876,-16.1144,0 0/1:182:88,94:88:3118:94:3346:-246.568,0,-226.06 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:12:3,9:3:108:9:324:-25.8935,0,-6.46281 0/1:18:10,8:10:360:8:288:-20.8489,0,-27.3258 0/0:52:52,0:52:1854:0:0:0,-15.6536,-167.138 0/1:79:36,43:36:1280:43:1548:-115.832,0,-91.7219 0/1:134:70,64:70:2508:64:2298:-166.743,0,-185.634 0/1:52:21,31:21:743:31:1091:-82.8452,0,-51.5398 0/1:76:37,39:37:1311:39:1404:-103.781,0,-95.4126 0/1:126:60,66:60:2124:66:2372:-175.808,0,-153.499 0/1:61:43,18:43:1535:18:644:-39.9278,0,-120.08 0/0:82:81,1:81:2887:1:36:0,-21.0862,-256.468 0/0:40:40,0:40:1414:0:0:0,-12.0412,-127.556 chr02 19159217 . G A 11073.5 PASS AB=0.487929;ABP=4.00636;AC=23;AF=0.547619;AN=42;AO=583;CIGAR=1X;DP=1020;DPB=1020;DPRA=1.45;EPP=1243.06;EPPR=834.237;GTI=0;LEN=1;MEANALT=1;MQM=59.9811;MQMR=59.9794;NS=21;NUMALT=1;ODDS=0.309117;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20907;QR=15515;RO=437;RPL=3;RPP=1243.06;RPPR=834.237;RPR=580;RUN=1;SAF=583;SAP=1268.98;SAR=0;SRF=437;SRP=951.944;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:25,36:25:881:36:1292:-98.2033,0,-61.243 0/1:50:31,19:31:1116:19:680:-46.4777,0,-85.7002 0/1:53:25,28:25:885:28:996:-73.9998,0,-64.0119 0/1:49:25,24:25:896:24:864:-63.3321,0,-66.2099 0/1:123:72,51:72:2525:51:1832:-128.134,0,-190.473 0/1:33:23,10:23:801:10:356:-22.4473,0,-62.4727 0/1:45:18,27:18:644:27:972:-74.2516,0,-44.7442 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:77:26,51:26:924:51:1828:-141.622,0,-60.2983 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:26:6,20:6:216:20:720:-57.302,0,-11.9529 1/1:88:0,88:0:0:88:3164:-284.984,-26.4906,0 0/1:39:23,16:23:805:16:563:-39.259,0,-61.0273 0/1:34:21,13:21:752:13:456:-31.1382,0,-57.7712 0/1:33:27,6:27:957:6:216:-9.85652,0,-76.5099 0/1:21:6,15:6:216:15:540:-42.6149,0,-13.4689 0/1:75:48,27:48:1709:27:968:-64.8601,0,-131.517 0/1:56:18,38:18:648:38:1368:-106.563,0,-41.7942 1/1:76:0,76:0:0:76:2728:-245.763,-22.8783,0 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 chr02 19159238 . G A 6301.06 PASS AB=0.471671;ABP=7.93148;AC=19;AF=0.452381;AN=42;AO=364;CIGAR=1X;DP=933;DPB=933;DPRA=0.626701;EPP=644.812;EPPR=1119.97;GTI=0;LEN=1;MEANALT=1;MQM=59.9753;MQMR=60;NS=21;NUMALT=1;ODDS=2.76993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12671;QR=19966;RO=569;RPL=346;RPP=644.812;RPPR=1119.97;RPR=18;RUN=1;SAF=364;SAP=793.426;SAR=0;SRF=569;SRP=1238.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:34,16:34:1205:16:568:-36.4004,0,-93.7024 0/1:43:21,22:21:743:22:762:-55.953,0,-54.249 0/1:53:27,26:27:953:26:911:-66.3504,0,-70.1287 0/1:41:23,18:23:824:18:640:-45.5871,0,-62.1411 0/1:103:47,56:47:1657:56:1939:-143.779,0,-118.409 0/1:31:11,20:11:377:20:703:-54.2616,0,-24.926 0/1:46:27,19:27:964:19:668:-46.5983,0,-73.2294 1/1:31:0,31:0:0:31:1054:-95.1622,-9.33193,0 0/1:73:50,23:50:1775:23:795:-49.8901,0,-138.057 0/1:5:1,4:1:36:4:131:-10.6083,0,-2.09312 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 0/1:23:18,5:18:625:5:176:-9.25048,0,-49.6488 0/0:88:88,0:88:3094:0:0:0,-26.4906,-278.688 0/1:34:15,19:15:513:19:664:-49.8489,0,-36.2579 0/1:30:12,18:12:423:18:626:-47.6324,0,-29.3742 0/1:26:6,20:6:212:20:704:-55.8578,0,-11.598 0/1:20:15,5:15:525:5:176:-10.1644,0,-41.5575 0/1:73:28,45:28:941:45:1554:-118.171,0,-63.0179 0/1:49:36,13:36:1247:13:460:-26.9849,0,-97.7778 0/0:73:73,0:73:2591:0:0:0,-21.9752,-233.439 0/0:35:35,0:35:1189:0:0:0,-10.536,-107.307 chr02 19159354 . G A 23642.9 PASS AB=0.539568;ABP=23.8033;AC=24;AF=0.571429;AN=42;AO=1047;CIGAR=1X;DP=1865;DPB=1865;DPRA=0.782589;EPP=892.806;EPPR=993.212;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9799;MQMR=59.9718;NS=21;NUMALT=1;ODDS=10.4174;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37387;QR=29123;RO=816;RPL=196;RPP=892.806;RPPR=999.716;RPR=851;RUN=1;SAF=1047;SAP=2276.54;SAR=0;SRF=815;SRP=1766.26;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:23,15:23:828:15:536:-37.1357,0,-63.405 0/1:54:19,35:19:684:35:1260:-97.4499,0,-45.6347 0/1:110:65,45:65:2316:45:1585:-109.824,0,-175.588 0/1:77:27,50:27:972:50:1769:-136.312,0,-64.6186 0/1:162:76,85:76:2698:85:3028:-223.924,0,-194.236 0/1:44:24,20:24:860:20:712:-51.1613,0,-64.4765 0/1:100:36,64:36:1292:64:2269:-174.368,0,-86.4808 0/0:112:112,0:112:4001:0:0:0,-33.7154,-360.275 0/1:200:94,106:94:3355:106:3782:-280.37,0,-241.961 1/1:17:1,16:1:36:16:563:-47.3986,-1.51924,0 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:30:14,16:14:500:16:561:-41.7862,0,-36.3053 1/1:98:1,97:1:36:97:3480:-309.813,-25.9027,0 0/1:114:57,57:57:2040:57:2044:-149.914,0,-149.555 0/1:171:80,91:80:2846:91:3265:-242.594,0,-204.882 0/1:62:32,30:32:1118:30:1076:-78.489,0,-82.2596 0/1:58:20,38:20:720:38:1356:-104.881,0,-47.669 0/1:198:98,100:98:3493:100:3592:-263.882,0,-254.976 0/1:102:31,70:31:1112:70:2499:-194.545,0,-69.7727 1/1:60:0,60:0:0:60:2142:-193.048,-18.0618,0 1/1:49:0,49:0:0:49:1760:-158.684,-14.7505,0 chr02 19159355 . A T 17440.4 PASS AB=0.460039;ABP=24.3568;AC=18;AF=0.428571;AN=42;AO=819;CIGAR=1X;DP=1873;DPB=1873;DPRA=1.70352;EPP=706.22;EPPR=974.385;GTI=0;LEN=1;MEANALT=1.10526;MQM=59.9109;MQMR=59.9838;NS=21;NUMALT=1;ODDS=6.40326;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29290;QR=37706;RO=1052;RPL=666;RPP=700.769;RPPR=974.385;RPR=153;RUN=1;SAF=818;SAP=1772.77;SAR=1;SRF=1052;SRP=2287.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:15,23:15:540:23:828:-63.405,0,-37.4974 0/1:53:35,18:35:1260:18:644:-42.336,0,-97.7509 0/1:111:45,66:45:1620:66:2360:-179.244,0,-112.676 0/1:77:49,27:49:1756:27:968:-64.1993,0,-135.086 0/1:162:86,76:86:3069:76:2720:-196.274,0,-227.668 0/1:43:20,23:20:720:23:828:-61.8998,0,-52.1845 0/1:100:64,36:64:2304:36:1288:-86.1206,0,-177.517 1/1:109:0,109:0:0:109:3895:-350.741,-32.8123,0 0/1:200:107,93:107:3840:93:3320:-238.185,0,-285.589 0/0:17:16,1:16:557:1:36:0,-1.51923,-46.8564 0/1:11:3,8:3:108:8:273:-21.5878,0,-6.76384 0/1:30:16,14:16:576:14:499:-36.2147,0,-43.1441 0/0:99:98,1:98:3509:1:36:0,-26.2037,-312.42 0/1:118:58,60:58:2084:60:2152:-158.426,0,-152.308 0/1:174:93,80:93:3306:80:2864:-205.556,0,-245.319 0/1:63:31,32:31:1112:32:1127:-82.7726,0,-81.4265 0/1:60:38,22:38:1364:22:784:-52.8221,0,-104.999 0/1:200:100,100:100:3596:100:3588:-262.92,0,-263.639 0/1:99:69,30:69:2484:30:1080:-67.7113,0,-194.011 0/0:60:60,0:60:2137:0:0:0,-18.0618,-192.596 0/0:49:49,0:49:1764:0:0:0,-14.7505,-159.044 chr02 19463313 . GAAA AAAG,AAAA 51055.4 PASS AB=0.547147,0.44985;ABP=35.1572,39.3828;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1164,849;CIGAR=1X2M1X,1X3M;DP=2019;DPB=2019.75;DPRA=0,0.734762;EPP=2530.6,1846.59;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.19048,2.26316;MQM=59.3471,59.9234;MQMR=0;NS=21;NUMALT=2;ODDS=3.4324;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=40805,29109;QR=0;RO=0;RPL=469,341;RPP=98.2939,74.3415;RPPR=0;RPR=695,508;RUN=1,1;SAF=469,341;SAP=98.2939,74.3415;SAR=695,508;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,64,42:0:0:64,42:2229,1445:-298.944,-117.696,-98.4304,-181.594,0,-168.95 1/2:75:0,44,31:0:0:44,31:1546,1096:-215.427,-89.618,-76.3727,-126.162,0,-116.83 1/2:56:0,29,27:0:0:29,27:1019,924:-158.274,-75.3408,-66.6109,-83.2793,0,-75.1515 1/2:123:0,64,59:0:0:64,59:2239,1966:-341.611,-159.448,-140.182,-182.504,0,-164.743 1/2:157:0,76,80:0:0:76,80:2620,2759:-436.955,-224.193,-201.315,-212.826,0,-188.744 1/2:95:0,56,39:0:0:56,39:2003,1322:-270.83,-107.496,-90.6386,-163.68,0,-151.94 1/2:142:0,73,69:0:0:73,69:2535,2347:-396.766,-190.715,-168.74,-206.394,0,-185.623 2/2:101:0,1,100:0:0:1,100:30,3430:-308.545,-306.146,-305.845,-30.103,-27.4045,0 1/2:140:0,71,67:0:0:71,67:2499,2257:-386.092,-182.89,-161.516,-203.216,0,-183.047 1/2:9:0,3,6:0:0:3,6:106,212:-26.2307,-17.6186,-16.7155,-8.96479,0,-7.15861 1/2:6:0,3,3:0:0:3,3:107,104:-17.5273,-8.79971,-7.89662,-9.07908,0,-8.17599 1/2:25:0,8,17:0:0:8,17:282,596:-71.7961,-48.8503,-46.442,-23.2974,0,-18.1799 1/2:138:0,75,63:0:0:75,63:2619,2148:-387.568,-174.618,-152.041,-213.295,0,-194.33 1/2:123:0,65,58:0:0:65,58:2305,1995:-350.069,-162.361,-142.794,-188.057,0,-170.598 1/2:126:0,70,56:0:0:70,56:2461,1913:-355.886,-155.586,-134.514,-200.646,0,-183.789 1/2:57:0,29,27:0:0:29,27:1033,911:-158.173,-73.9634,-65.2335,-84.3482,0,-76.2204 1/2:33:0,20,13:0:0:20,13:686,461:-93.5973,-37.9117,-31.8911,-56.0355,0,-52.1221 1/2:106:0,53,53:0:0:53,53:1857,1847:-301.64,-150.552,-134.598,-151.437,0,-135.482 1/2:148:0,108,39:0:0:108,39:3827,1376:-423.398,-111.921,-79.4102,-311.353,0,-299.613 1/1:159:0,158,0:0:0:158,0:5518,0:-495.721,-47.5627,0,-495.721,-47.5627,-495.721 1/1:94:0,94,0:0:0:94,0:3284,0:-295.372,-28.2968,0,-295.372,-28.2968,-295.372 chr02 19637682 . C T 18970.9 PASS AB=0.390114;ABP=259.759;AC=22;AF=0.52381;AN=42;AO=1179;CIGAR=1X;DP=2900;DPB=2900;DPRA=0;EPP=2563.18;EPPR=3731.43;GTI=1;LEN=1;MEANALT=1;MQM=59.5047;MQMR=52.1203;NS=21;NUMALT=1;ODDS=6.00804;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41858;QR=60813;RO=1721;RPL=0;RPP=2563.18;RPPR=190.033;RPR=1179;RUN=1;SAF=0;SAP=2563.18;SAR=1179;SRF=669;SRP=188.095;SRR=1052;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:115,96:115:4070:96:3400:-242.575,0,-296.825 0/1:92:47,45:47:1666:45:1608:-117.225,0,-119.18 0/1:77:43,34:43:1524:34:1220:-86.9275,0,-112.015 0/1:170:107,63:107:3790:63:2215:-148.392,0,-286.5 0/1:295:178,117:178:6265:117:4160:-285.74,0,-469.252 0/1:116:71,45:71:2496:45:1582:-107.72,0,-180.664 0/1:209:134,75:134:4752:75:2658:-176.132,0,-352.673 0/0:228:227,1:227:8035:1:36:0,-65.0366,-705.287 0/1:208:133,75:133:4740:75:2673:-177.568,0,-360.489 0/1:26:11,15:11:374:15:540:-41.1098,0,-25.6425 0/1:17:10,7:10:356:7:252:-17.9032,0,-27.2555 0/1:44:28,16:28:981:16:557:-37.2096,0,-74.258 0/1:181:94,87:94:3319:87:3105:-225.176,0,-242.562 0/1:180:116,64:116:4076:64:2268:-150.196,0,-308.253 0/1:191:145,46:145:5121:46:1601:-86.8715,0,-394.563 0/1:109:73,36:73:2616:36:1292:-83.7711,0,-201.545 0/1:95:55,40:55:1930:40:1417:-99.2275,0,-143.951 0/1:115:89,26:89:3119:26:933:-49.6689,0,-240.073 0/1:112:44,68:44:1547:68:2424:-184.694,0,-104.687 1/1:105:1,104:1:36:104:3700:-329.24,-28.0099,0 1/1:119:0,119:0:0:119:4217:-379.668,-35.8226,0 chr02 19637728 . T C 18989.1 PASS AB=0.485189;ABP=6.74106;AC=20;AF=0.47619;AN=42;AO=1096;CIGAR=1X;DP=2333;DPB=2333;DPRA=0.938559;EPP=2382.94;EPPR=2689.12;GTI=0;LEN=1;MEANALT=1;MQM=59.5995;MQMR=59.5044;NS=21;NUMALT=1;ODDS=13.2397;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39038;QR=44019;RO=1237;RPL=1096;RPP=2382.94;RPPR=2689.12;RPR=0;RUN=1;SAF=0;SAP=2382.94;SAR=1096;SRF=0;SRP=2689.12;SRR=1237;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:160:99,61:99:3521:61:2169:-147.235,0,-268.81 0/1:76:45,31:45:1616:31:1097:-75.9449,0,-122.674 0/1:58:34,24:34:1201:24:845:-58.8932,0,-90.9339 0/1:144:70,74:70:2508:74:2611:-191.87,0,-182.533 0/1:240:126,114:126:4508:114:4062:-293.508,0,-333.568 0/1:90:49,41:49:1748:41:1453:-103.864,0,-130.474 0/1:162:78,84:78:2758:84:2997:-221.127,0,-199.275 1/1:146:1,145:1:36:145:5196:-464.094,-40.3521,0 0/1:171:79,92:79:2836:92:3304:-246.096,0,-203.37 0/1:21:15,6:15:540:6:212:-13.0112,0,-42.6149 0/1:18:7,11:7:252:11:392:-30.1982,0,-17.6021 0/1:40:18,22:18:636:22:792:-59.5645,0,-45.5253 0/1:160:86,74:86:3023:74:2641:-189.755,0,-224.121 0/1:138:74,64:74:2652:64:2239:-160.199,0,-197.382 0/1:130:51,79:51:1805:79:2810:-213.793,0,-123.52 0/1:99:38,61:38:1341:61:2162:-165.04,0,-91.1857 0/1:82:43,39:43:1517:39:1404:-101.975,0,-112.137 0/1:70:26,44:26:928:44:1572:-120.685,0,-62.7651 0/1:99:70,29:70:2462:29:1044:-64.4697,0,-192.027 0/0:111:110,1:110:3899:1:36:0,-29.8161,-347.188 0/0:118:118,0:118:4232:0:0:0,-35.5215,-381.011 chr02 19637755 . GGGG AGGC,CGGC 96902.5 PASS AB=0.478542,0.516613;ABP=20.344,13.3997;AC=22,20;AF=0.52381,0.47619;AN=42;AO=2381,2471;CIGAR=1X2M1X,1X2M1X;DP=4874;DPB=4874;DPRA=0,0;EPP=5173.29,5368.72;EPPR=0;GTI=0;LEN=4,4;MEANALT=3.04762,3.04762;MQM=59.887,59.8555;MQMR=0;NS=21;NUMALT=2;ODDS=18.8262;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84043,87363;QR=0;RO=0;RPL=0,0;RPP=5173.29,5368.72;RPPR=0;RPR=2381,2471;RUN=1,1;SAF=2381,2471;SAP=5173.29,5368.72;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:352:0,167,183:0:0:167,183:5881,6463:-1004.98,-526.227,-475.955,-478.742,0,-423.653 1/2:124:0,60,62:0:0:60,62:2126,2196:-352.068,-178.875,-160.813,-173.187,0,-154.523 1/2:272:0,133,139:0:0:133,139:4749,4909:-787.299,-400.121,-360.084,-387.533,0,-345.69 1/2:190:0,78,110:0:0:78,110:2730,3891:-538.936,-316.826,-293.346,-222.101,0,-188.988 1/2:556:0,271,281:0:0:271,281:9599,9909:-1588.21,-806.345,-724.766,-781.896,0,-697.307 1/2:275:0,139,136:0:0:139,136:4931,4829:-795.568,-393.822,-351.978,-402.101,0,-361.161 1/2:263:0,129,133:0:0:129,133:4481,4700:-746.723,-382.476,-343.643,-364.237,0,-324.2 2/2:230:0,1,228:0:0:1,228:36,8070:-726.011,-723.073,-722.772,-68.6348,-65.6509,0 1/2:517:0,271,240:0:0:271,240:9562,8478:-1469.04,-690.437,-608.858,-778.613,0,-706.366 1/2:52:0,35,17:0:0:35,17:1242,610:-151.301,-50.1154,-39.5793,-101.543,0,-96.4256 1/2:25:0,10,15:0:0:10,15:341,533:-71.4275,-43.7656,-40.7553,-28.0084,0,-23.493 1/2:80:0,38,42:0:0:38,42:1351,1478:-230.767,-120.67,-109.231,-110.451,0,-97.8078 1/2:333:0,152,181:0:0:152,181:5329,6394:-954.174,-521.066,-475.31,-433.459,0,-378.973 1/2:297:0,133,164:0:0:133,164:4722,5833:-860.309,-475.606,-435.569,-385.058,0,-335.689 1/2:380:0,157,222:0:0:157,222:5515,7855:-1088.67,-639.796,-592.534,-448.863,0,-382.034 1/2:155:0,66,87:0:0:66,87:2342,3037:-437.267,-246.45,-226.582,-190.81,0,-164.62 1/2:169:0,65,104:0:0:65,104:2264,3683:-484.462,-300.359,-280.792,-184.453,0,-153.146 1/2:194:0,92,101:0:0:92,101:3257,3583:-557.356,-292.052,-264.357,-265.436,0,-235.032 1/2:100:0,78,22:0:0:78,22:2767,774:-288.799,-63.3586,-39.8782,-225.792,0,-219.17 1/1:223:0,220,3:0:0:220,3:7805,108:-702.109,-66.2266,0,-693.297,-57.0545,-692.394 1/1:87:0,86,1:0:0:86,1:3013,30:-271.099,-25.8886,0,-268.701,-23.19,-268.4 chr02 19637811 . TTGTTTTCC AGGTTCTTT,AGGTTTTTT 56008.1 PASS AB=0.529963,0.462699;ABP=22.1393,32.6558;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1645,1236;CIGAR=2X3M1X1M2X,2X5M2X;DP=2900;DPB=2899.56;DPRA=1.41465,2.27961;EPP=3575.08,2686.95;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.7,2.73684;MQM=51.1477,59.4248;MQMR=0;NS=21;NUMALT=2;ODDS=17.4645;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57230,42833;QR=0;RO=0;RPL=0,0;RPP=3575.08,2686.95;RPPR=0;RPR=1645,1236;RUN=1,1;SAF=0,0;SAP=3575.08,2686.95;SAR=1645,1236;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:137:0,71,65:0:0:71,65:2442,2218:-375.757,-179.629,-158.256,-196.109,0,-176.542 1/2:205:0,103,100:0:0:103,100:3588,3469:-570.673,-281.794,-250.788,-288.87,0,-258.767 1/2:52:0,25,26:0:0:25,26:886,912:-146.266,-74.1955,-66.6698,-72.0632,0,-64.2364 1/2:159:0,88,70:0:0:88,70:3062,2457:-448.332,-199.944,-173.453,-248.378,0,-227.306 1/2:239:0,126,110:0:0:126,110:4413,3798:-665.205,-308.545,-270.615,-356.654,0,-323.541 1/2:180:0,80,100:0:0:80,100:2791,3554:-514.631,-289.897,-265.814,-225.084,0,-194.981 1/2:294:0,158,136:0:0:158,136:5523,4712:-827.54,-383.202,-335.639,-444.684,0,-403.744 2/2:99:0,0,99:0:0:0,99:0,3434:-309.237,-309.237,-309.237,-29.802,-29.802,0 1/2:198:0,115,83:0:0:115,83:4015,2882:-560.732,-234.63,-200.012,-326.449,0,-301.464 1/2:15:0,8,7:0:0:8,7:268,239:-41.3851,-19.7352,-17.327,-21.9879,0,-19.8807 1/1:9:0,9,0:0:0:9,0:313,0:-28.3292,-2.70927,0,-28.3292,-2.70927,-28.3292 1/2:90:0,40,50:0:0:40,50:1349,1679:-245.19,-136.323,-124.282,-109.202,0,-94.1506 1/2:123:0,70,52:0:0:70,52:2437,1801:-344.08,-146.333,-125.261,-197.736,0,-182.082 1/2:108:0,54,54:0:0:54,54:1890,1845:-303.473,-150.028,-133.772,-153.791,0,-137.536 1/2:180:0,101,78:0:0:101,78:3580,2721:-511.953,-221.291,-190.887,-290.653,0,-267.172 1/2:99:0,45,52:0:0:45,52:1582,1793:-273.781,-145.624,-132.078,-128.155,0,-112.502 1/2:134:0,77,52:0:0:77,52:2606,1746:-351.752,-141.412,-118.233,-210.343,0,-194.69 1/2:148:0,75,72:0:0:75,72:2611,2508:-415.44,-203.941,-181.364,-211.507,0,-189.833 1/2:92:0,64,28:0:0:64,28:2198,993:-259.283,-81.2454,-61.9795,-178.389,0,-169.96 1/1:119:0,118,0:0:0:118,0:4142,0:-368.95,-35.5215,0,-368.95,-35.5215,-368.95 1/1:220:0,218,2:0:0:218,2:7534,72:-672.357,-65.6245,0,-666.499,-59.4071,-665.897 chr02 19768448 . C T 8514.8 PASS AB=0.461463;ABP=16.2319;AC=17;AF=0.404762;AN=42;AO=532;CIGAR=1X;DP=1475;DPB=1475;DPRA=1.93767;EPP=1158.23;EPPR=2050.71;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9703;NS=21;NUMALT=1;ODDS=5.17993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18968;QR=33487;RO=943;RPL=532;RPP=1158.23;RPPR=2050.71;RPR=0;RUN=1;SAF=532;SAP=1158.23;SAR=0;SRF=943;SRP=2050.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:23:11,12:11:396:12:432:-32.2975,0,-29.0591 0/1:21:14,7:14:468:7:251:-16.6162,0,-36.1165 0/1:68:38,30:38:1360:30:1072:-76.3224,0,-102.231 0/1:82:46,36:46:1656:36:1269:-89.8263,0,-124.644 0/1:122:53,69:53:1861:69:2458:-184.748,0,-131.042 0/1:36:18,18:18:648:18:639:-47.0012,0,-47.8148 0/1:107:47,60:47:1635:60:2143:-160.927,0,-115.224 1/1:41:0,41:0:0:41:1460:-131.696,-12.3422,0 0/1:96:48,48:48:1716:48:1720:-126.187,0,-125.827 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/0:93:89,4:89:3196:4:144:0,-14.6822,-274.549 0/0:184:172,12:172:6110:12:432:0,-16.1683,-510.412 0/1:84:37,47:37:1316:47:1674:-125.659,0,-93.4553 0/1:92:51,41:51:1824:41:1454:-103.46,0,-136.746 0/1:53:18,35:18:635:35:1256:-97.3907,0,-41.5224 0/1:30:20,10:20:701:10:360:-23.7134,0,-54.3808 0/1:38:17,21:17:599:21:747:-56.1152,0,-42.7988 0/1:119:103,16:103:3640:16:561:-14.9946,0,-291.984 0/1:54:31,23:31:1104:23:824:-58.2277,0,-83.415 0/0:56:54,2:54:1927:2:72:0,-10.021,-166.869 0/0:44:44,0:44:1555:0:0:0,-13.2453,-140.241 chr02 19778792 . TTACTA CCACTG,TCACTA 20668.2 PASS AB=0.533819,0.463059;ABP=12.5571,14.4009;AC=22,20;AF=0.52381,0.47619;AN=42;AO=572,470;CIGAR=2X3M1X,1M1X4M;DP=1045;DPB=1045;DPRA=2.04,1.75914;EPP=1245.09,1023.6;EPPR=0;GTI=2;LEN=6,1;MEANALT=2,2.05263;MQM=59.764,59.9979;MQMR=0;NS=21;NUMALT=2;ODDS=2.02586;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20105,16819;QR=0;RO=0;RPL=0,0;RPP=1245.09,1023.6;RPPR=0;RPR=572,470;RUN=1,1;SAF=572,470;SAP=1245.09,1023.6;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,31,38:0:0:31,38:1084,1360:-199.438,-111.261,-101.929,-88.5304,0,-77.0913 1/2:43:0,13,30:0:0:13,30:447,1080:-124.773,-88.4823,-84.569,-36.639,0,-27.6081 1/2:36:0,24,12:0:0:24,12:854,432:-105.204,-35.6088,-28.3841,-69.9539,0,-66.3416 1/2:79:0,39,40:0:0:39,40:1365,1432:-228.188,-117.136,-105.396,-111.406,0,-99.3646 1/2:88:0,46,40:0:0:46,40:1633,1431:-249.762,-116.706,-102.858,-133.072,0,-121.03 1/2:45:0,31,14:0:0:31,14:1088,500:-129.664,-41.1218,-31.7898,-88.8974,0,-84.683 1/2:68:0,34,34:0:0:34,34:1195,1220:-197.124,-99.8718,-89.6368,-97.6071,0,-87.3721 2/2:25:0,0,25:0:0:0,25:0,896:-80.9604,-80.9604,-80.9604,-7.52575,-7.52575,0 1/2:111:0,61,50:0:0:61,50:2152,1784:-321.019,-145.791,-127.428,-175.583,0,-160.531 1/2:9:0,1,8:0:0:1,8:36,273:-25.4314,-22.4919,-22.1909,-3.29724,0,-0.889005 1/2:6:0,4,2:0:0:4,2:135,72:-17.1607,-6.23466,-5.03054,-11.2784,0,-10.6763 1/2:10:0,8,2:0:0:8,2:267,72:-27.8271,-6.23466,-3.82642,-21.947,0,-21.3449 1/2:54:0,31,23:0:0:31,23:1085,824:-155.826,-67.5596,-58.2277,-88.621,0,-81.6973 1/2:60:0,29,30:0:0:29,30:996,1076:-168.752,-87.8878,-79.1579,-80.9786,0,-71.9477 1/2:59:0,38,21:0:0:38,21:1353,748:-171.59,-61.3237,-49.8845,-110.623,0,-104.301 1/2:42:0,25,17:0:0:25,17:873,612:-121.301,-50.2959,-42.7702,-71.3609,0,-66.2434 1/2:82:0,44,38:0:0:44,38:1544,1368:-237.6,-111.982,-98.7364,-125.973,0,-114.534 1/2:49:0,22,27:0:0:22,27:762,959:-140.424,-78.4976,-71.8749,-62.2765,0,-54.1487 1/2:51:0,32,19:0:0:32,19:1140,680:-148.728,-55.8096,-46.1766,-93.2759,0,-87.5564 1/1:34:0,34,0:0:0:34,0:1201,0:-108.391,-10.235,0,-108.391,-10.235,-108.391 1/1:25:0,25,0:0:0:25,0:895,0:-80.8621,-7.52575,0,-80.8621,-7.52575,-80.8621 chr02 19778827 . T C 9972.25 PASS AB=0.536765;ABP=14.187;AC=22;AF=0.52381;AN=42;AO=568;CIGAR=1X;DP=1035;DPB=1035;DPRA=2.02;EPP=1219.1;EPPR=1008.42;GTI=2;LEN=1;MEANALT=1;MQM=59.7658;MQMR=60;NS=21;NUMALT=1;ODDS=2.70199;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20168;QR=16652;RO=467;RPL=566;RPP=1219.1;RPPR=1008.42;RPR=2;RUN=1;SAF=568;SAP=1236.41;SAR=0;SRF=467;SRP=1017.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:37,31:37:1305:31:1093:-78.1983,0,-97.2794 0/1:44:31,13:31:1099:13:459:-28.3906,0,-85.9741 0/1:36:11,25:11:392:25:896:-70.1209,0,-24.783 0/1:76:38,38:38:1364:38:1360:-99.8223,0,-100.182 0/1:91:41,50:41:1476:50:1784:-133.449,0,-105.742 0/1:44:13,31:13:468:31:1095:-85.6138,0,-29.2143 0/1:69:35,34:35:1252:34:1204:-87.8847,0,-92.214 0/0:25:25,0:25:871:0:0:0,-7.52575,-78.7055 0/1:110:49,61:49:1752:61:2153:-160.919,0,-124.851 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:10:2,8:2:72:8:279:-22.4372,0,-3.82642 0/1:54:23,31:23:813:31:1104:-83.4103,0,-57.2335 0/1:57:31,26:31:1088:26:923:-66.2187,0,-81.0678 0/1:58:20,38:20:716:38:1350:-104.332,0,-47.308 0/1:40:17,23:17:612:23:808:-60.9989,0,-43.3722 0/1:82:38,44:38:1364:44:1558:-115.776,0,-98.3763 0/1:48:26,22:26:928:22:779:-55.9826,0,-69.3888 0/1:51:19,32:19:684:32:1135:-87.1052,0,-46.5378 1/1:33:1,32:1:36:32:1144:-99.6666,-6.33572,0 1/1:25:0,25:0:0:25:900:-81.3128,-7.52575,0 chr02 19829877 . T C 17353 PASS AB=0.447866;ABP=46.7084;AC=22;AF=0.52381;AN=42;AO=1010;CIGAR=1X;DP=2160;DPB=2160;DPRA=0;EPP=2196.2;EPPR=2500.2;GTI=1;LEN=1;MEANALT=1;MQM=59.6931;MQMR=60;NS=21;NUMALT=1;ODDS=8.03073;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36042;QR=40343;RO=1150;RPL=0;RPP=2196.2;RPPR=2491.53;RPR=1010;RUN=1;SAF=0;SAP=2196.2;SAR=1010;SRF=1;SRP=2491.53;SRR=1149;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:92,55:92:3157:55:1941:-130.595,0,-240.097 0/1:98:56,42:56:1959:42:1508:-106.514,0,-147.079 0/1:138:54,84:54:1944:84:2999:-228.597,0,-133.694 0/1:115:66,49:66:2364:49:1756:-123.701,0,-178.4 0/1:219:125,94:125:4362:94:3372:-237.77,0,-326.827 0/1:86:36,50:36:1213:50:1792:-135.645,0,-83.5717 0/1:129:75,54:75:2645:54:1936:-135.684,0,-199.461 0/0:129:127,2:127:4530:2:72:0,-31.9961,-401.028 0/1:206:121,85:121:4261:85:3029:-210.825,0,-321.654 0/1:20:13,7:13:449:7:252:-17.0084,0,-34.7169 0/1:8:6,2:6:216:2:72:-4.41989,0,-17.3823 0/1:40:23,17:23:813:17:612:-43.3722,0,-61.4479 0/1:119:86,33:86:2994:33:1184:-71.0388,0,-233.864 0/1:96:42,54:42:1508:54:1920:-144.178,0,-107.116 0/1:183:105,78:105:3670:78:2751:-192.734,0,-275.412 0/1:30:18,12:18:618:12:432:-30.1903,0,-46.9073 0/1:78:49,29:49:1662:29:1036:-69.8024,0,-126.374 0/1:78:43,35:43:1514:35:1256:-89.8557,0,-113.069 0/1:61:12,49:12:428:49:1764:-140.669,0,-20.496 1/1:139:0,139:0:0:139:4935:-444.232,-41.8432,0 1/1:41:1,40:1:36:40:1423:-124.706,-8.74396,0 chr02 19829913 . A G 17729.3 PASS AB=0.443111;ABP=56.871;AC=22;AF=0.52381;AN=42;AO=1028;CIGAR=1X;DP=2230;DPB=2230;DPRA=0.788346;EPP=2235.28;EPPR=2608.78;GTI=1;LEN=1;MEANALT=1.05;MQM=59.6809;MQMR=60;NS=21;NUMALT=1;ODDS=9.46737;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36850;QR=42968;RO=1200;RPL=1028;RPP=2235.28;RPPR=2608.78;RPR=0;RUN=1;SAF=0;SAP=2235.28;SAR=1028;SRF=0;SRP=2608.78;SRR=1200;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:96,54:96:3440:54:1940:-129.083,0,-264.658 0/1:101:58,43:58:2069:43:1540:-108.489,0,-156.075 0/1:139:54,85:54:1944:85:3048:-232.706,0,-133.393 0/1:115:66,49:66:2357:49:1760:-124.061,0,-177.768 0/1:230:135,95:135:4820:95:3404:-237.148,0,-364.717 0/1:87:38,49:38:1364:49:1760:-132.449,0,-96.8711 0/1:132:77,55:77:2732:55:1976:-138.379,0,-206.386 0/0:133:132,0:132:4725:0:0:0,-39.736,-425.196 0/1:214:124,89:124:4451:89:3192:-223.168,0,-336.428 0/1:21:13,8:13:468:8:288:-19.9458,0,-36.138 0/1:8:6,2:6:216:2:72:-4.41989,0,-17.3823 0/1:40:23,17:23:828:17:604:-42.6494,0,-62.8029 0/1:126:92,34:92:3285:34:1220:-72.1701,0,-257.939 0/1:98:41,57:41:1472:57:2040:-154.371,0,-103.275 0/1:194:114,80:114:4081:80:2864:-199.574,0,-309.074 0/1:33:20,13:20:720:13:468:-32.5247,0,-55.1948 0/1:82:52,30:52:1872:30:1063:-71.1648,0,-144.075 0/1:80:44,36:44:1584:36:1292:-92.4921,0,-118.769 0/1:66:13,53:13:468:53:1896:-151.038,0,-22.5917 1/1:138:0,138:0:0:138:4947:-445.317,-41.5421,0 1/1:43:2,41:2:72:41:1476:-126.013,-6.10757,0 chr02 19860215 . CAG CAT,AAT 54407.1 PASS AB=0.636918,0.360906;ABP=377.03,389.017;AC=20,22;AF=0.47619,0.52381;AN=42;AO=1678,947;CIGAR=2M1X,1X1M1X;DP=2630;DPB=2789.67;DPRA=2.93864,0.567371;EPP=3620.73,2059.39;EPPR=0;GTI=3;LEN=1,3;MEANALT=2.2,2.2;MQM=48.5453,29.2883;MQMR=0;NS=21;NUMALT=2;ODDS=2.05017;PAIRED=0,0;PAIREDR=0;PAO=0.5,477;PQA=18,8538;PQR=18;PRO=0.5;QA=59815,33474;QR=0;RO=0;RPL=813,0;RPP=6.5095,2059.39;RPPR=0;RPR=865,947;RUN=1,1;SAF=810,0;SAP=7.3636,2059.39;SAR=868,947;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:209:0,118,91:0:0:118,91:4228,3196:-540.453,-210.158,-174.636,-330.608,0,-303.215 1/2:71:0,30,41:0:0:30,41:1080,1452:-168.059,-79.9045,-70.8736,-88.1723,0,-75.8301 1/2:105:0,69,36:0:0:69,36:2444,1271:-272.052,-82.4875,-61.7164,-189.869,0,-179.032 1/2:182:0,144,38:0:0:144,38:5147,1342:-480.355,-86.004,-42.6557,-394.646,0,-383.207 1/2:216:0,160,56:0:0:160,56:5669,1952:-566.915,-127.463,-79.2983,-439.44,0,-422.583 1/2:50:0,14,36:0:0:14,36:504,1292:-110.731,-69.5932,-65.3788,-41.1431,0,-30.306 1/2:147:0,96,51:0:0:96,51:3436,1819:-381.879,-101.619,-72.7205,-280.294,0,-264.941 1/1:213:0,213,0:0:0:213,0:7600,0:-660.318,-64.1194,0,-660.318,-64.1194,-660.318 1/2:235:0,151,84:0:0:151,84:5404,3018:-626.964,-209.341,-163.886,-417.944,0,-392.657 1/2:23:0,17,6:0:0:17,6:612,216:-61.4782,-13.7098,-8.59226,-48.0671,0,-46.2609 1/2:13:0,5,8:0:0:5,8:180,286:-30.7339,-16.0215,-14.5163,-14.7245,0,-12.3163 1/2:65:0,30,35:0:0:30,35:1080,1212:-158.785,-76.0726,-67.0417,-83.022,0,-72.486 1/2:121:0,78,43:0:0:78,43:2762,1520:-315.884,-100.818,-77.3381,-215.375,0,-202.431 1/2:173:0,122,50:0:0:122,50:4304,1788:-449.246,-113.228,-76.5022,-336.115,0,-321.063 1/2:246:0,141,104:0:0:141,104:5049,3668:-635.289,-233.827,-191.382,-401.414,0,-370.107 1/2:105:0,74,31:0:0:74,31:2614,1098:-276.977,-74.1428,-51.8666,-203.144,0,-193.812 1/2:110:0,80,28:0:0:80,28:2840,998:-288.85,-69.3262,-45.2438,-219.553,0,-211.124 1/2:131:0,90,40:0:0:90,40:3228,1403:-327.932,-78.8852,-51.7925,-248.97,0,-236.929 1/2:95:0,44,51:0:0:44,51:1562,1793:-239.394,-117.131,-103.886,-122.413,0,-107.06 2/2:76:0,2,74:0:0:2,74:72,2614:-180.644,-174.994,-174.392,-22.2762,-16.5646,0 2/2:44:0,0,44:0:0:0,44:0,1536:-94.6851,-94.6851,-94.6851,-13.2453,-13.2453,0 chr02 19979478 . G C 28214.2 PASS AB=0.505772;ABP=3.81246;AC=22;AF=0.52381;AN=42;AO=1617;CIGAR=1X;DP=3168;DPB=3168;DPRA=0.839888;EPP=3514.28;EPPR=3362.28;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9951;MQMR=59.9987;NS=21;NUMALT=1;ODDS=10.8234;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57239;QR=54964;RO=1547;RPL=1617;RPP=3514.28;RPPR=3362.28;RPR=0;RUN=1;SAF=1617;SAP=3514.28;SAR=0;SRF=1547;SRP=3362.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:88,93:88:3121:93:3298:-242.193,0,-226.271 0/1:143:88,55:88:3099:55:1920:-130.026,0,-236.088 0/1:172:75,97:75:2684:97:3447:-258.664,0,-190.028 0/1:178:86,91:86:3048:91:3242:-238.359,0,-220.907 0/1:397:182,215:182:6468:215:7549:-559.948,0,-462.698 0/1:150:77,73:77:2747:73:2575:-186.844,0,-202.318 0/1:281:136,145:136:4845:145:5109:-375.364,0,-351.615 0/0:178:178,0:178:6307:0:0:0,-53.5833,-567.728 0/1:292:137,155:137:4859:155:5499:-407.136,0,-349.567 0/1:14:9,5:9:324:5:171:-11.511,0,-25.2914 0/1:21:9,12:9:320:12:413:-31.1772,0,-22.8207 0/1:67:26,41:26:919:41:1464:-111.887,0,-62.8572 0/1:149:67,82:67:2386:82:2906:-216.92,0,-170.143 0/1:149:83,66:83:2955:66:2355:-167.355,0,-221.33 0/1:174:96,78:96:3410:78:2795:-199.41,0,-254.736 0/1:100:54,46:54:1931:46:1614:-115.442,0,-143.963 0/1:151:86,64:86:3067:64:2282:-160.126,0,-230.745 0/1:83:43,40:43:1523:40:1409:-102.12,0,-112.377 0/1:69:25,44:25:879:44:1568:-120.641,0,-58.6557 1/1:169:2,166:2:72:166:5885:-522.926,-44.0961,0 1/1:49:0,49:0:0:49:1738:-156.704,-14.7505,0 chr02 19989195 . CA CG,TG 36261.1 PASS AB=0.487689,0.511517;ABP=4.66779,4.46082;AC=23,19;AF=0.547619,0.452381;AN=42;AO=894,871;CIGAR=1M1X,2X;DP=1768;DPB=1768.5;DPRA=0.344643,1.14459;EPP=1944.31,1894.36;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=2.05,2.05;MQM=59.9016,59.6326;MQMR=60;NS=21;NUMALT=2;ODDS=6.11253;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=31855,30813;QR=36;RO=1;RPL=0,0;RPP=1944.31,1894.36;RPPR=5.18177;RPR=894,871;RUN=1,1;SAF=894,871;SAP=1944.31,1894.36;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,29,37:0:0:29,37:1040,1319:-192.697,-107.87,-99.1406,-85.1845,0,-74.0464 1/2:27:0,16,11:0:0:16,11:557,381:-76.6025,-31.3104,-26.4939,-45.6391,0,-42.3278 1/2:49:0,27,22:0:0:27,22:972,790:-144.111,-64.8003,-56.6725,-79.6701,0,-73.0474 1/2:92:0,19,73:0:0:19,73:684,2594:-267.521,-211.709,-205.99,-56.1708,0,-34.1956 1/2:130:0,45,84:0:0:45,84:1601,2969:-372.26,-241.783,-228.237,-130.472,0,-105.185 1/2:52:0,21,31:0:0:21,31:756,1099:-151.574,-89.8856,-83.564,-62.0456,0,-52.7137 1/2:89:0,40,49:0:0:40,49:1410,1741:-257.014,-142.215,-130.174,-115.152,0,-100.402 2/2:224:0,0,224:0:0:0,224:0,7896:-710.409,-710.409,-710.409,-67.4307,-67.4307,0 1/2:137:0,58,79:0:0:58,79:2072,2784:-395.942,-227.006,-209.546,-169.291,0,-145.51 1/1:69:0,67,2:0:0:67,2:2370,72:-213.196,-20.169,0,-207.321,-13.9343,-206.719 1/2:33:0,28,5:0:0:28,5:1004,169:-95.9424,-14.0364,-5.60754,-82.247,0,-80.7419 1/2:48:0,34,14:0:0:34,14:1220,504:-140.988,-41.4755,-31.2404,-99.8718,0,-95.6574 1/2:123:0,54,69:0:0:54,69:1920,2460:-357.328,-200.877,-184.622,-156.806,0,-136.035 1/2:94:0,44,50:0:0:44,50:1576,1774:-273.035,-144.876,-131.63,-128.515,0,-113.463 1/2:93:0,54,39:0:0:54,39:1902,1353:-265.17,-110.32,-94.0647,-155.198,0,-143.458 1/2:43:0,31,12:0:0:31,12:1108,419:-124.286,-33.9346,-24.6027,-90.6991,0,-87.0867 1/2:22:0,17,5:0:0:17,5:612,180:-64.9503,-15.0426,-9.92507,-50.2674,0,-48.7623 1/2:102:0,63,39:0:0:63,39:2256,1402:-298.707,-114.728,-95.7627,-184.338,0,-172.598 1/2:59:0,34,25:0:0:34,25:1216,871:-170.331,-71.1715,-60.9365,-99.5115,0,-91.9858 1/1:142:1,139,1:1:36:139,1:4965,36:-443.38,-38.9158,0,-440.744,-38.9158,-443.38 1/1:74:0,74,0:0:0:74,0:2614,0:-235.503,-22.2762,0,-235.503,-22.2762,-235.503 chr02 20060856 . G A 17283.1 PASS AB=0.456455;ABP=35.1597;AC=22;AF=0.52381;AN=42;AO=1016;CIGAR=1X;DP=2187;DPB=2187;DPRA=0.953211;EPP=2209.23;EPPR=2524.12;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9961;MQMR=59.9855;NS=21;NUMALT=1;ODDS=0.333589;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36346;QR=41687;RO=1169;RPL=0;RPP=2209.23;RPPR=2532.78;RPR=1016;RUN=1;SAF=1016;SAP=2209.23;SAR=0;SRF=1168;SRP=2532.78;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:70,57:70:2493:57:2018:-143.659,0,-186.391 0/1:87:56,31:56:2012:31:1101:-73.2088,0,-155.163 0/1:129:70,59:70:2497:59:2094:-149.893,0,-186.148 0/1:127:70,57:70:2489:57:2052:-146.721,0,-186.031 0/1:221:115,105:115:4121:105:3776:-273.451,0,-304.486 0/1:174:92,82:92:3265:82:2918:-210.473,0,-241.689 0/1:164:85,79:85:3030:79:2806:-203.408,0,-223.558 0/0:109:109,0:109:3901:0:0:0,-32.8123,-351.282 0/1:151:79,72:79:2840:72:2573:-186.36,0,-210.382 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:43:17,26:17:593:26:917:-69.9003,0,-40.721 0/1:152:85,67:85:3026:67:2408:-171.22,0,-226.811 0/1:109:56,52:56:1952:52:1864:-135.168,0,-143.078 0/1:140:72,68:72:2584:68:2444:-178.07,0,-190.665 0/1:94:52,42:52:1857:42:1508:-107.718,0,-139.111 0/1:101:70,31:70:2501:31:1112:-69.9873,0,-194.937 0/1:72:40,32:40:1425:32:1148:-81.9557,0,-106.871 0/1:47:23,24:23:813:24:864:-63.9342,0,-59.3407 1/1:81:1,80:1:36:80:2871:-255.028,-20.7852,0 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 chr02 20061006 . T C 14456.2 PASS AB=0.454154;ABP=32.6773;AC=22;AF=0.52381;AN=42;AO=847;CIGAR=1X;DP=1783;DPB=1783;DPRA=1.80729;EPP=1842.25;EPPR=2033.34;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8855;MQMR=59.907;NS=21;NUMALT=1;ODDS=7.7012;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30347;QR=33500;RO=935;RPL=847;RPP=1842.25;RPPR=2033.34;RPR=0;RUN=1;SAF=0;SAP=1842.25;SAR=847;SRF=0;SRP=2033.34;SRR=935;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:13,16:13:468:16:572:-43.0836,0,-33.7298 0/1:58:30,28:30:1080:28:1000:-72.8475,0,-80.0535 0/1:96:58,38:58:2084:38:1368:-94.521,0,-158.931 0/1:92:43,49:43:1540:49:1746:-129.728,0,-111.142 0/1:205:120,85:120:4312:85:3048:-212.827,0,-326.543 0/1:80:47,33:47:1692:33:1188:-83.1462,0,-128.484 0/1:132:79,53:79:2809:53:1904:-131.902,0,-212.943 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/1:158:76,82:76:2701:82:2948:-217.987,0,-195.771 0/1:12:7,5:7:252:5:176:-12.5727,0,-19.4166 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:14:7,7:7:252:7:252:-18.8141,0,-18.8145 0/1:92:41,51:41:1472:51:1828:-137.105,0,-105.081 0/1:84:48,36:48:1720:36:1288:-90.9371,0,-129.798 0/1:146:86,60:86:3088:60:2144:-149.269,0,-234.197 0/1:89:54,35:54:1940:35:1252:-86.1888,0,-148.085 0/1:108:61,46:61:2173:46:1648:-116.031,0,-162.995 0/1:164:88,76:88:3145:76:2736:-197.11,0,-233.859 0/1:62:25,37:25:900:37:1324:-100.796,0,-62.6572 1/1:63:1,62:1:36:62:2216:-196.061,-15.3666,0 1/1:47:0,47:0:0:47:1673:-150.856,-14.1484,0 chr02 20413673 . T C 28292.3 PASS AB=0.481784;ABP=12.1872;AC=22;AF=0.52381;AN=42;AO=1638;CIGAR=1X;DP=3434;DPB=3434;DPRA=1.14236;EPP=3507.96;EPPR=3887.78;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9933;MQMR=59.9888;NS=21;NUMALT=1;ODDS=11.0833;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58615;QR=64112;RO=1793;RPL=6;RPP=3507.96;RPPR=3887.78;RPR=1632;RUN=1;SAF=1638;SAP=3559.88;SAR=0;SRF=1793;SRP=3896.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:39,18:39:1404:18:648:-41.4932,0,-109.371 0/1:37:25,12:25:896:12:428:-27.7207,0,-69.8222 0/1:58:34,24:34:1205:24:856:-59.9014,0,-91.2942 0/1:84:54,30:54:1932:30:1061:-70.5128,0,-148.87 0/1:94:44,50:44:1572:50:1787:-132.815,0,-113.475 0/1:41:24,17:24:845:17:608:-42.7098,0,-64.0249 0/1:85:49,36:49:1764:36:1291:-90.9061,0,-133.456 0/0:144:144,0:144:5145:0:0:0,-43.3483,-463.191 0/1:67:34,32:34:1216:32:1141:-82.7704,0,-89.5188 0/1:395:216,179:216:7708:179:6367:-454.214,0,-574.848 0/1:363:179,184:179:6394:184:6576:-482.646,0,-466.273 0/1:388:195,193:195:6970:193:6915:-505.616,0,-510.563 0/1:42:20,22:20:716:22:788:-58.6015,0,-52.1245 0/1:51:29,22:29:1044:22:788:-55.8923,0,-78.9223 0/1:130:74,56:74:2660:56:2008:-141.859,0,-200.511 0/1:52:32,20:32:1148:20:720:-49.4752,0,-87.9763 0/1:65:38,27:38:1360:27:972:-68.231,0,-103.134 0/1:1130:546,582:546:19521:582:20866:-1537.57,0,-1416.58 0/1:45:15,30:15:540:30:1080:-83.9669,0,-35.3902 1/1:75:1,74:1:36:74:2639:-234.159,-18.979,0 1/1:31:1,30:1:36:30:1076:-93.5546,-5.73366,0 chr02 20463660 . ATG GTA,GTG 15363.6 PASS AB=0.49554,0.499504;ABP=3.18462,3.01245;AC=23,19;AF=0.547619,0.452381;AN=42;AO=566,549;CIGAR=1X1M1X,1X2M;DP=1120;DPB=1120;DPRA=1.22273,5.50877;EPP=1232.06,1195.15;EPPR=0;GTI=1;LEN=3,1;MEANALT=2.1,2.15789;MQM=28.9205,46.0073;MQMR=0;NS=21;NUMALT=2;ODDS=0.145307;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20079,16988;QR=0;RO=0;RPL=566,549;RPP=1232.06,1195.15;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1232.06,1195.15;SAR=566,549;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,34,25:0:0:34,25:1209,686:-121.819,-50.6845,-40.4495,-71.3958,0,-63.87 1/2:67:0,35,30:0:0:35,30:1236,1076:-167.857,-87.735,-77.1989,-80.0961,0,-71.0652 1/2:48:0,22,26:0:0:22,26:784,807:-115.597,-62.6375,-56.0148,-53.2603,0,-45.4335 1/2:53:0,26,26:0:0:26,26:932,711:-101.458,-52.1284,-44.3016,-49.3596,0,-41.5329 1/2:149:0,72,77:0:0:72,77:2489,1943:-274.674,-137.045,-115.371,-137.868,0,-114.688 1/2:40:0,20,20:0:0:20,20:694,716:-105.373,-58.6727,-52.6521,-47.0256,0,-41.005 1/2:80:0,40,40:0:0:40,40:1440,1412:-210.987,-115.072,-103.031,-96.2405,0,-84.1993 2/2:44:0,0,44:0:0:0,44:0,1572:-141.505,-141.505,-141.505,-13.2453,-13.2453,0 1/2:60:0,25,35:0:0:25,35:888,1096:-141.749,-85.6671,-78.1414,-56.374,0,-45.838 1/2:5:0,1,4:0:0:1,4:36,144:-14.709,-12.0954,-11.7944,-2.94513,0,-1.74101 1/1:4:0,4,0:0:0:4,0:144,0:-11.5391,-1.20412,0,-11.5391,-1.20412,-11.5391 1/2:7:0,2,5:0:0:2,5:72,180:-19.7977,-15.0329,-14.4308,-5.08118,0,-3.57603 1/2:59:0,23,36:0:0:23,36:824,1011:-121.993,-75.2459,-68.3222,-47.0081,0,-36.171 1/2:60:0,32,28:0:0:32,28:1138,884:-136.135,-69.2394,-59.6064,-67.1829,0,-58.7541 1/2:87:0,42,44:0:0:42,44:1499,1400:-195.702,-109.577,-96.9341,-86.2035,0,-72.9581 1/2:53:0,16,37:0:0:16,37:567,1125:-119.851,-86.8577,-82.0412,-33.2649,0,-22.1268 1/2:83:0,50,33:0:0:50,33:1781,948:-175.944,-71.5938,-56.5423,-104.621,0,-94.6869 1/2:52:0,28,24:0:0:28,24:1000,864:-140.496,-70.7202,-62.2913,-70.1121,0,-62.8874 1/2:47:0,32,14:0:0:32,14:1136,377:-90.003,-27.5926,-17.9597,-62.4499,0,-58.2355 1/1:46:0,45,1:0:0:45,1:1607,36:-119.493,-13.5464,0,-116.568,-10.2643,-116.267 1/1:17:0,17,0:0:0:17,0:603,0:-46.2046,-5.11751,0,-46.2046,-5.11751,-46.2046 chr02 20555807 . A T 14047.3 PASS AB=0.547479;ABP=19.7126;AC=22;AF=0.52381;AN=42;AO=584;CIGAR=1X;DP=1014;DPB=1014;DPRA=1.12907;EPP=43.2272;EPPR=21.275;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9897;MQMR=60;NS=21;NUMALT=1;ODDS=8.83729;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20880;QR=15281;RO=428;RPL=0;RPP=1271.15;RPPR=932.4;RPR=584;RUN=1;SAF=344;SAP=43.2272;SAR=240;SRF=184;SRP=21.275;SRR=244;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:20,32:20:708:32:1148:-87.9763,0,-48.392 0/1:11:4,7:4:140:7:252:-19.7176,0,-9.63325 0/1:26:11,15:11:396:15:532:-40.3863,0,-28.156 0/1:45:20,25:20:705:25:888:-66.6927,0,-50.2264 0/1:75:31,44:31:1108:44:1572:-119.19,0,-77.4537 0/1:20:9,11:9:309:11:390:-29.4179,0,-22.1201 0/1:33:15,18:15:536:18:648:-48.7179,0,-38.6408 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/1:63:34,29:34:1224:29:1040:-74.9495,0,-91.5022 0/1:11:7,3:7:248:3:108:-6.70504,0,-19.2948 0/1:6:3,3:3:108:3:99:-7.4304,0,-8.26899 0/1:22:11,11:11:396:11:392:-28.9974,0,-29.3601 0/1:68:39,29:39:1386:29:1040:-73.4443,0,-104.567 0/1:66:32,34:32:1152:34:1216:-89.8786,0,-84.1222 0/1:64:33,31:33:1188:31:1087:-78.8725,0,-87.9627 0/1:25:6,19:6:216:19:684:-54.3646,0,-12.2648 0/1:17:7,10:7:248:10:360:-27.6268,0,-17.5467 0/1:103:52,51:52:1860:51:1832:-134.155,0,-136.674 0/1:146:51,95:51:1813:95:3401:-262.352,0,-119.499 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 1/1:70:0,69:0:0:69:2467:-221.924,-20.7711,0 chr02 20556731 . T G 13953.1 PASS AB=0.485486;ABP=5.5316;AC=22;AF=0.52381;AN=42;AO=803;CIGAR=1X;DP=1553;DPB=1553;DPRA=1.8439;EPP=1746.7;EPPR=1627.27;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9701;MQMR=59.9733;NS=21;NUMALT=1;ODDS=6.99194;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28487;QR=26513;RO=748;RPL=803;RPP=1746.7;RPPR=1627.27;RPR=0;RUN=1;SAF=803;SAP=1746.7;SAR=0;SRF=748;SRP=1627.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:31,44:31:1108:44:1545:-116.39,0,-77.094 0/1:52:30,22:30:1052:22:784:-55.2304,0,-79.3369 0/1:48:27,21:27:960:21:752:-53.5568,0,-72.2668 0/1:125:59,66:59:2120:66:2323:-171.701,0,-153.31 0/1:116:80,36:80:2846:36:1287:-81.2133,0,-221.458 0/1:86:37,49:37:1295:49:1738:-130.815,0,-90.9617 0/1:154:81,73:81:2876:73:2598:-187.709,0,-212.72 0/0:41:41,0:41:1455:0:0:0,-12.3422,-131.245 0/1:195:107,87:107:3766:87:3105:-220.916,0,-280.379 0/1:7:4,3:4:144:3:104:-7.5956,0,-11.2064 0/1:6:3,3:3:104:3:108:-8.26899,0,-7.89663 0/1:24:14,10:14:496:10:352:-24.7935,0,-37.7495 0/1:94:41,53:41:1443:53:1888:-141.901,0,-101.868 0/1:68:28,40:28:996:40:1421:-107.716,0,-69.4848 0/1:87:43,44:43:1523:44:1563:-114.771,0,-111.173 0/1:70:38,32:38:1334:32:1144:-82.1974,0,-99.2863 0/1:88:40,48:40:1436:48:1696:-126.433,0,-103.047 0/1:42:26,16:26:915:16:576:-39.5317,0,-70.0223 0/1:40:18,22:18:644:22:773:-57.8483,0,-46.2494 1/1:84:0,84:0:0:84:2979:-268.341,-25.2865,0 1/1:50:0,50:0:0:50:1751:-157.871,-15.0515,0 chr02 20556842 . A G 16321 PASS AB=0.511344;ABP=4.2912;AC=22;AF=0.52381;AN=42;AO=695;CIGAR=1X;DP=1287;DPB=1287;DPRA=2.16897;EPP=3.38835;EPPR=15.3495;GTI=0;LEN=1;MEANALT=1;MQM=59.9022;MQMR=60;NS=21;NUMALT=1;ODDS=5.51511;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24755;QR=21080;RO=592;RPL=342;RPP=3.38835;RPPR=15.3495;RPR=353;RUN=1;SAF=0;SAP=1512.18;SAR=695;SRF=0;SRP=1288.52;SRR=592;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:18,9:18:648:9:311:-20.1959,0,-50.5241 0/1:53:24,29:24:856:29:1023:-76.4271,0,-61.4065 0/1:74:44,30:44:1580:30:1076:-74.8766,0,-120.215 0/1:36:19,17:19:676:17:592:-42.7674,0,-50.3309 0/1:109:62,47:62:2207:47:1683:-118.944,0,-166.082 0/1:45:30,15:30:1068:15:536:-35.0285,0,-82.8857 0/1:90:30,60:30:1080:60:2144:-166.135,0,-70.4206 0/0:29:29,0:29:1028:0:0:0,-8.72987,-92.833 0/1:80:30,50:30:1035:50:1784:-136.76,0,-69.3729 0/1:15:7,8:7:248:8:277:-20.7467,0,-18.1487 0/1:9:4,5:4:140:5:180:-13.8394,0,-10.2353 0/1:32:17,15:17:608:15:536:-38.9419,0,-45.4191 0/1:84:36,48:36:1288:48:1711:-128.988,0,-90.9371 0/1:50:17,33:17:608:33:1171:-90.6452,0,-40.0005 0/1:110:64,46:64:2275:46:1656:-116.215,0,-171.899 0/1:37:25,12:25:900:12:432:-28.0831,0,-70.1829 0/1:24:8,16:8:288:16:562:-43.454,0,-19.0427 0/1:215:105,110:105:3742:110:3904:-286.83,0,-272.259 0/1:56:20,36:20:697:36:1292:-99.717,0,-46.193 1/1:64:2,62:2:72:62:2223:-193.497,-12.4292,0 1/1:48:1,47:1:36:47:1662:-146.266,-10.8512,0 chr02 20556851 . C A 12042.6 PASS AB=0.50302;ABP=3.10211;AC=22;AF=0.52381;AN=42;AO=688;CIGAR=1X;DP=1295;DPB=1295;DPRA=2.18276;EPP=1488.31;EPPR=1284.41;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9767;MQMR=60;NS=21;NUMALT=1;ODDS=6.59567;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24467;QR=21630;RO=606;RPL=687;RPP=1488.31;RPPR=1284.41;RPR=1;RUN=1;SAF=0;SAP=1496.98;SAR=688;SRF=0;SRP=1318.92;SRR=606;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:17,10:17:612:10:356:-24.2534,0,-47.2856 0/1:52:23,29:23:824:29:1027:-77.0886,0,-58.8298 0/1:72:42,30:42:1496:30:1067:-74.6671,0,-113.26 0/1:38:20,18:20:716:18:644:-46.8515,0,-53.3286 0/1:112:64,48:64:2269:48:1697:-119.299,0,-170.756 0/1:47:32,15:32:1140:15:540:-34.7881,0,-88.7608 0/1:95:34,61:34:1211:61:2170:-166.968,0,-80.6977 0/0:29:29,0:29:1025:0:0:0,-8.72987,-92.5607 0/1:81:31,50:31:1112:50:1779:-136.009,0,-76.0079 0/1:15:8,7:8:284:7:252:-18.4773,0,-21.3879 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:33:19,14:19:680:14:500:-35.4022,0,-51.5952 0/1:84:36,48:36:1296:48:1706:-128.538,0,-91.6574 0/1:50:17,33:17:597:33:1169:-90.4647,0,-39.0046 0/1:110:65,45:65:2327:45:1603:-111.446,0,-176.576 0/1:39:27,12:27:953:12:428:-27.1186,0,-74.3431 0/1:26:8,17:8:288:17:608:-47.268,0,-18.4773 0/1:216:107,109:107:3832:109:3880:-284.372,0,-280.054 0/1:54:21,33:21:752:33:1167:-89.0808,0,-51.7506 1/1:58:2,56:2:72:56:1974:-171.097,-10.623,0 1/1:49:0,49:0:0:49:1756:-158.324,-14.7505,0 chr02 20556884 . G A 5517.65 PASS AB=0.424955;ABP=30.0614;AC=22;AF=0.52381;AN=42;AO=322;CIGAR=1X;DP=682;DPB=682;DPRA=0.761905;EPP=702.224;EPPR=784.74;GTI=2;LEN=1;MEANALT=1;MQM=59.6211;MQMR=60;NS=21;NUMALT=1;ODDS=0.724608;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11503;QR=12909;RO=360;RPL=0;RPP=702.224;RPPR=784.74;RPR=322;RUN=1;SAF=322;SAP=702.224;SAR=0;SRF=360;SRP=784.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:24:20,4:20:712:4:144:-6.0889,0,-57.1819 0/1:22:16,6:16:576:6:216:-13.1679,0,-45.5523 0/1:31:17,14:17:612:14:500:-35.9904,0,-46.0815 0/1:31:18,13:18:640:13:468:-33.1277,0,-48.5974 0/1:54:25,29:25:900:29:1044:-78.0192,0,-65.0654 0/1:15:10,5:10:360:5:176:-11.6696,0,-28.2289 0/1:44:28,16:28:1004:16:572:-38.5658,0,-77.4305 0/0:42:42,0:42:1497:0:0:0,-12.6433,-135.023 0/1:69:33,36:33:1188:36:1281:-94.7652,0,-86.4575 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:25:16,9:16:572:9:324:-21.9801,0,-44.2877 0/1:29:18,11:18:644:11:396:-27.2529,0,-49.5607 0/1:35:16,19:16:576:19:665:-49.6367,0,-41.6389 0/1:19:8,11:8:288:11:396:-30.2632,0,-20.5478 0/1:23:13,10:13:468:10:360:-25.8197,0,-35.536 0/1:31:23,8:23:824:8:288:-16.9321,0,-65.1514 0/1:58:37,21:37:1332:21:748:-50.1833,0,-102.723 0/1:31:11,20:11:396:20:716:-55.4082,0,-26.6508 1/1:61:0,61:0:0:61:2173:-195.824,-18.3628,0 1/1:26:0,26:0:0:26:928:-83.8206,-7.82678,0 chr02 20556919 . AG AC,GC 13845.1 PASS AB=0.582143,0.416071;ABP=35.8306,37.273;AC=20,22;AF=0.47619,0.52381;AN=42;AO=370,319;CIGAR=1M1X,2X;DP=690;DPB=690;DPRA=0.73929,0.734091;EPP=806.455,695.71;EPPR=0;GTI=2;LEN=1,2;MEANALT=2,1.95;MQM=59.9649,59.5172;MQMR=0;NS=21;NUMALT=2;ODDS=1.25745;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=13238,11229;QR=0;RO=0;RPL=370,319;RPP=806.455,695.71;RPPR=0;RPR=0,0;RUN=1,1;SAF=370,319;SAP=806.455,695.71;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:24:0,20,4:0:0:20,4:711,144:-70.0455,-12.1095,-6.0889,-58.295,0,-57.0909 1/2:23:0,17,6:0:0:17,6:612,216:-67.9204,-17.9843,-12.8668,-50.2959,0,-48.4897 1/2:31:0,17,14:0:0:17,14:604,499:-90.2342,-41.0174,-35.8998,-49.5725,0,-45.3581 1/2:30:0,17,13:0:0:17,13:603,466:-87.4906,-38.3653,-33.2478,-49.482,0,-45.5686 1/2:55:0,26,29:0:0:26,29:928,1034:-160.299,-84.6444,-76.8176,-76.0115,0,-67.2816 1/2:15:0,10,5:0:0:10,5:360,180:-44.4211,-15.0469,-12.0366,-29.734,0,-28.2289 1/2:43:0,27,16:0:0:27,16:952,550:-122.525,-45.0065,-36.8787,-77.8653,0,-73.0488 1/1:44:0,44,0:0:0:44,0:1580,0:-142.481,-13.2453,0,-142.481,-13.2453,-142.481 1/2:69:0,33,36:0:0:33,36:1172,1277:-199.816,-104.317,-94.3827,-95.8535,0,-85.0164 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/2:6:0,5,1:0:0:5,1:180,36:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459 1/2:27:0,18,9:0:0:18,9:644,305:-77.596,-25.069,-19.6505,-52.8721,0,-50.1628 1/2:30:0,19,11:0:0:19,11:684,394:-88.196,-32.3833,-26.6637,-56.1708,0,-52.8594 1/2:35:0,18,17:0:0:18,17:648,599:-101.998,-49.1203,-43.7018,-53.2333,0,-48.1158 1/2:20:0,9,11:0:0:9,11:324,377:-57.3924,-30.9479,-28.2386,-26.7966,0,-23.4853 1/2:24:0,13,11:0:0:13,11:468,382:-69.5482,-31.3547,-27.4413,-38.5463,0,-35.2349 1/2:31:0,23,8:0:0:23,8:824,288:-91.0561,-23.8558,-16.9321,-67.5596,0,-65.1514 1/2:59:0,38,21:0:0:38,21:1368,737:-171.953,-60.3258,-48.8866,-111.982,0,-105.66 1/2:32:0,12,19:0:0:12,19:432,648:-87.9588,-52.7002,-49.0879,-35.3874,0,-29.6678 2/2:61:0,0,61:0:0:0,61:0,2138:-192.675,-192.675,-192.675,-18.3628,-18.3628,0 2/2:25:0,0,25:0:0:0,25:0,887:-80.1376,-80.1376,-80.1376,-7.52575,-7.52575,0 chr02 20642315 . ATTTG TTTTC,TTTTG 48160.3 PASS AB=0.618727,0.378169;ABP=239.683,252.22;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1522,878;CIGAR=1X3M1X,1X4M;DP=2409;DPB=2409;DPRA=0.798239,3.03846;EPP=3307.99,1909.56;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.3,2.35;MQM=59.9435,59.926;MQMR=0;NS=21;NUMALT=2;ODDS=9.04527;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53325,31394;QR=0;RO=0;RPL=0,0;RPP=3307.99,1909.56;RPPR=0;RPR=1522,878;RUN=1,1;SAF=0,0;SAP=3307.99,1909.56;SAR=1522,878;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,54,44:0:0:54,44:1895,1561:-281.755,-127.535,-111.28,-154.573,0,-141.328 1/2:82:0,60,22:0:0:60,22:2104,788:-235.835,-64.6221,-46.5603,-171.569,0,-164.946 1/2:87:0,62,23:0:0:62,23:2174,824:-244.109,-67.1999,-48.5361,-176.905,0,-169.981 1/2:63:0,42,20:0:0:42,20:1462,720:-177.622,-58.7483,-46.1051,-118.87,0,-112.85 1/2:289:0,175,114:0:0:175,114:6095,4069:-827.42,-331.795,-279.114,-495.979,0,-461.661 1/2:114:0,74,38:0:0:74,38:2603,1368:-323.568,-111.679,-89.4025,-211.942,0,-200.503 1/2:225:0,133,92:0:0:133,92:4687,3285:-649.772,-268.174,-228.137,-381.954,0,-354.259 2/2:142:0,0,141:0:0:0,141:0,5037:-453.254,-453.254,-453.254,-42.4452,-42.4452,0 1/2:178:0,111,67:0:0:111,67:3907,2408:-514.867,-196.807,-163.393,-318.416,0,-298.247 1/2:34:0,23,11:0:0:23,11:792,396:-96.9889,-32.6714,-25.7477,-64.6723,0,-61.361 1/2:7:0,6,1:0:0:6,1:208,32:-19.8182,-2.89828,-1.0921,-17.2436,0,-16.9426 1/2:51:0,33,18:0:0:33,18:1168,648:-148.37,-53.2333,-43.2994,-95.4943,0,-90.0757 1/2:127:0,65,62:0:0:65,62:2284,2212:-366.573,-180.681,-161.114,-186.246,0,-167.582 1/2:77:0,53,24:0:0:53,24:1863,860:-222.135,-70.4971,-54.5425,-151.993,0,-144.769 1/2:143:0,88,55:0:0:88,55:3070,1957:-409.536,-159.847,-133.356,-250.042,0,-233.486 1/2:87:0,57,30:0:0:57,30:1980,1076:-249.081,-88.122,-70.9632,-161.314,0,-152.283 1/2:54:0,33,21:0:0:33,21:1163,741:-155.379,-60.6885,-50.7545,-95.043,0,-88.7214 1/2:165:0,87,77:0:0:87,77:3038,2764:-472.572,-225.462,-199.272,-247.104,0,-223.925 1/2:52:0,40,12:0:0:40,12:1417,432:-151.036,-35.6088,-23.5676,-115.786,0,-112.174 1/1:295:0,287,6:0:0:287,6:10064,216:-905.369,-86.3956,0,-887.745,-68.7374,-885.939 1/1:39:0,39,0:0:0:39,0:1351,0:-121.887,-11.7402,0,-121.887,-11.7402,-121.887 chr02 20642328 . T G 13522 PASS AB=0.379979;ABP=241.74;AC=19;AF=0.452381;AN=42;AO=871;CIGAR=1X;DP=2382;DPB=2382;DPRA=5.5933;EPP=1894.36;EPPR=3271.08;GTI=0;LEN=1;MEANALT=1.10526;MQM=59.9231;MQMR=59.9516;NS=21;NUMALT=1;ODDS=9.9549;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30774;QR=54015;RO=1509;RPL=0;RPP=1894.36;RPPR=3271.08;RPR=871;RUN=1;SAF=0;SAP=1894.36;SAR=871;SRF=0;SRP=3279.76;SRR=1509;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:53,43:53:1900:43:1518:-108.013,0,-142.379 0/1:80:60,20:60:2129:20:716:-40.6853,0,-167.794 0/1:85:63,22:63:2268:22:767:-43.7619,0,-178.794 0/1:63:43,20:43:1540:20:716:-45.8028,0,-119.928 0/1:289:173,115:173:6199:115:4064:-278.617,0,-470.943 0/1:112:73,39:73:2612:39:1391:-91.7728,0,-201.61 0/1:226:133,93:133:4768:93:3263:-225.857,0,-361.234 1/1:140:0,140:0:0:140:4939:-444.665,-42.1442,0 0/1:174:108,66:108:3843:66:2339:-158.39,0,-293.689 0/1:34:23,11:23:824:11:396:-25.7477,0,-64.2483 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7617 0/1:50:32,18:32:1152:18:648:-43.6004,0,-88.9386 0/1:128:65,63:65:2315:63:2243:-163.601,0,-170.05 0/1:76:52,24:52:1860:24:835:-52.5883,0,-144.801 0/1:142:88,54:88:3168:54:1913:-129.7,0,-242.597 0/1:87:58,29:58:2061:29:1031:-66.913,0,-159.57 0/1:54:33,21:33:1188:21:747:-51.2927,0,-90.973 0/1:161:86,75:86:3076:75:2613:-186.949,0,-228.597 0/1:51:39,12:39:1400:12:432:-23.8687,0,-110.947 0/0:290:283,6:283:10145:6:203:0,-68.7532,-894.36 0/0:38:38,0:38:1351:0:0:0,-11.4391,-121.89 chr02 20645595 . C T 26012.5 PASS AB=0.499057;ABP=3.02669;AC=22;AF=0.52381;AN=42;AO=1191;CIGAR=1X;DP=2332;DPB=2332;DPRA=1.42595;EPP=281.748;EPPR=291.5;GTI=0;LEN=1;MEANALT=1.1;MQM=41.9748;MQMR=42.0509;NS=21;NUMALT=1;ODDS=27.2459;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42654;QR=40687;RO=1139;RPL=791;RPP=281.748;RPPR=291.5;RPR=400;RUN=1;SAF=0;SAP=2589.23;SAR=1191;SRF=0;SRP=2476.32;SRR=1139;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:49,43:49:1744:43:1540:-107.801,0,-126.296 0/1:64:35,29:35:1260:29:1040:-68.307,0,-83.9921 0/1:199:107,92:107:3828:92:3288:-230.635,0,-276.611 0/1:49:32,17:32:1144:17:597:-37.9521,0,-85.6932 0/1:253:129,124:129:4636:124:4456:-315.479,0,-329.636 0/1:87:44,43:44:1568:43:1528:-102.008,0,-103.933 0/1:207:121,86:121:4310:86:3081:-192.311,0,-296.109 0/0:79:79,0:79:2836:0:0:0,-23.7814,-236.998 0/1:195:99,95:99:3513:95:3412:-244.854,0,-252.007 0/1:22:14,8:14:500:8:288:-16.9167,0,-35.6326 0/1:12:5,7:5:176:7:252:-16.0245,0,-11.5728 0/1:18:10,8:10:356:8:284:-18.8029,0,-24.7899 0/1:99:55,44:55:1940:44:1584:-110.28,0,-140.875 0/1:145:62,83:62:2223:83:2965:-218.147,0,-151.722 0/1:281:119,162:119:4250:162:5812:-427.062,0,-290.089 0/1:103:56,47:56:1999:47:1678:-117.649,0,-146.457 0/1:115:57,57:57:2040:57:2048:-147.251,0,-147.431 0/1:114:46,68:46:1648:68:2406:-166.791,0,-102.819 0/1:65:20,45:20:716:45:1615:-122.946,0,-44.3266 1/1:80:0,80:0:0:80:2872:-237.632,-24.0824,0 1/1:53:0,53:0:0:53:1908:-155.624,-15.9546,0 chr02 20645599 . T C 18415.8 PASS AB=0.500936;ABP=3.02657;AC=20;AF=0.47619;AN=42;AO=1150;CIGAR=1X;DP=2351;DPB=2351;DPRA=1.72788;EPP=2491.53;EPPR=2567.7;GTI=0;LEN=1;MEANALT=1;MQM=41.9878;MQMR=41.9409;NS=21;NUMALT=1;ODDS=16.8662;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40969;QR=43022;RO=1201;RPL=1149;RPP=2491.53;RPPR=2567.7;RPR=1;RUN=1;SAF=0;SAP=2500.2;SAR=1150;SRF=0;SRP=2610.95;SRR=1201;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:45,48:45:1597:48:1715:-123.251,0,-112.347 0/1:63:28,35:28:993:35:1244:-84.0308,0,-64.5944 0/1:198:93,105:93:3340:105:3761:-271.286,0,-235.11 0/1:48:17,31:17:612:31:1112:-83.3171,0,-39.5669 0/1:254:126,128:126:4501:128:4566:-325.995,0,-319.327 0/1:87:42,45:42:1508:45:1616:-107.663,0,-99.5122 0/1:207:86,121:86:3069:121:4298:-294.79,0,-191.759 1/1:80:0,80:0:0:80:2855:-238.805,-24.0824,0 0/1:199:95,104:95:3401:104:3676:-264.613,0,-242.688 0/1:22:8,14:8:288:14:500:-35.6326,0,-16.9167 0/1:12:7,5:7:252:5:180:-11.8512,0,-16.0245 0/1:19:9,10:9:324:10:356:-24.4888,0,-20.9032 0/1:101:44,57:44:1580:57:2033:-148.061,0,-109.438 0/1:149:83,66:83:2980:66:2333:-160.552,0,-217.631 0/1:279:161,118:161:5780:118:4208:-286.83,0,-425.494 0/1:107:48,59:48:1724:59:2108:-154.303,0,-120.507 0/1:114:58,56:58:2088:56:1966:-140.838,0,-150.644 0/1:117:69,48:69:2457:48:1722:-108.341,0,-169.177 0/1:67:47,20:47:1692:20:720:-44.0591,0,-128.736 0/0:81:81,0:81:2892:0:0:0,-24.3834,-239.885 0/0:54:54,0:54:1944:0:0:0,-16.2556,-158.635 chr02 20729355 . C T 21339.2 PASS AB=0.603842;ABP=159.049;AC=22;AF=0.52381;AN=42;AO=1161;CIGAR=1X;DP=2000;DPB=2000;DPRA=0.514972;EPP=2524.09;EPPR=1824.88;GTI=0;LEN=1;MEANALT=1;MQM=57.4246;MQMR=59.7723;NS=21;NUMALT=1;ODDS=16.3245;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41452;QR=29777;RO=839;RPL=1161;RPP=2524.09;RPPR=1824.88;RPR=0;RUN=1;SAF=1161;SAP=2524.09;SAR=0;SRF=839;SRP=1824.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:23,82:23:801:82:2948:-233.625,0,-40.7879 0/1:52:17,35:17:612:35:1256:-97.5102,0,-39.7565 0/1:121:68,53:68:2427:53:1899:-134.708,0,-182.257 0/1:89:47,42:47:1675:42:1508:-109.1,0,-124.243 0/1:177:47,130:47:1668:130:4641:-363.457,0,-96.8059 0/1:73:27,46:27:959:46:1648:-126.16,0,-64.6485 0/1:114:39,75:39:1373:75:2676:-205.66,0,-89.5458 0/0:177:177,0:177:6308:0:0:0,-53.2823,-566.896 0/1:167:64,103:64:2256:103:3669:-279.628,0,-153.029 0/1:24:14,10:14:500:10:360:-25.4948,0,-38.1115 0/1:12:9,3:9:320:3:108:-6.45243,0,-25.5291 0/1:17:10,7:10:347:7:252:-17.9005,0,-26.4461 0/1:102:49,53:49:1748:53:1880:-138.626,0,-126.899 0/1:133:48,85:48:1687:85:3047:-234.327,0,-112.079 0/1:161:77,84:77:2740:84:3011:-222.328,0,-198.375 0/1:69:19,50:19:680:50:1787:-140.2,0,-40.7581 0/1:60:25,35:25:892:35:1247:-94.4723,0,-62.5379 0/1:128:59,69:59:2072:69:2444:-181.283,0,-148.209 0/1:62:18,44:18:644:44:1575:-122.56,0,-39.6267 1/1:120:2,118:2:68:118:4173:-368.804,-29.6659,0 1/1:37:0,37:0:0:37:1323:-118.358,-11.1381,0 chr02 20740017 . A T 9716.95 PASS AB=0.481848;ABP=10.8147;AC=20;AF=0.47619;AN=42;AO=1315;CIGAR=1X;DP=2784;DPB=2784;DPRA=0;EPP=2858.5;EPPR=3184.22;GTI=0;LEN=1;MEANALT=1.09524;MQM=26.0015;MQMR=51.6648;NS=21;NUMALT=1;ODDS=1.50425;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47011;QR=52465;RO=1465;RPL=0;RPP=2858.5;RPPR=3184.22;RPR=1315;RUN=1;SAF=1315;SAP=2858.5;SAR=0;SRF=1465;SRP=3184.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:218:93,125:93:3336:125:4482:-211.058,0,-234.828 0/1:140:57,83:57:2029:83:2980:-173.02,0,-140.736 0/1:90:39,51:39:1400:51:1832:-85.3791,0,-99.2035 0/1:170:69,101:69:2472:101:3596:-166.295,0,-171.551 0/1:269:143,126:143:5128:126:4505:-198.159,0,-326.314 0/1:96:33,63:33:1188:63:2221:-130.844,0,-78.3288 0/1:178:97,81:97:3488:81:2903:-158.384,0,-235.288 0/0:57:56,1:56:2016:1:36:0,-14.4225,-141.133 0/1:199:117,82:117:4185:82:2936:-103.691,0,-253.857 0/1:6:4,2:4:144:2:72:-3.3926,0,-9.1937 0/1:15:4,11:4:129:11:396:-24.713,0,-7.41221 0/1:38:14,24:14:500:24:863:-48.7338,0,-33.897 0/1:151:86,65:86:3077:65:2328:-98.0816,0,-191.548 0/1:135:76,59:76:2732:59:2115:-89.9911,0,-205.462 0/1:171:76,92:76:2702:92:3282:-154.797,0,-192.547 0/1:123:58,65:58:2084:65:2295:-91.5412,0,-150.799 0/1:125:77,48:77:2768:48:1720:-57.7097,0,-211.73 0/1:226:169,57:169:6030:57:2048:-70.6676,0,-414.321 0/1:103:62,41:62:2220:41:1472:-60.2692,0,-155.11 0/1:151:69,82:69:2469:82:2921:-153.832,0,-176.8 0/1:123:66,56:66:2368:56:2008:-107.967,0,-176.36 chr02 20740027 . G A 16438.9 PASS AB=0.396994;ABP=254.42;AC=20;AF=0.47619;AN=42;AO=1083;CIGAR=1X;DP=2785;DPB=2785;DPRA=2.39298;EPP=2346.04;EPPR=3696.68;GTI=2;LEN=1;MEANALT=1.05;MQM=59.7996;MQMR=26.4392;NS=21;NUMALT=1;ODDS=6.80568;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38538;QR=60805;RO=1701;RPL=1;RPP=2346.04;RPPR=3696.68;RPR=1082;RUN=1;SAF=1083;SAP=2354.71;SAR=0;SRF=1701;SRP=3696.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:218:125,93:125:4465:93:3320:-233.389,0,-210.581 0/1:139:83,56:83:2980:56:2004:-138.79,0,-173.467 0/1:90:51,39:51:1832:39:1366:-96.1407,0,-85.3791 0/1:171:101,70:101:3598:70:2504:-174.129,0,-166.046 0/1:270:189,81:189:6777:81:2861:-176.176,0,-344.909 0/1:94:63,31:63:2245:31:1104:-71.3738,0,-132.462 0/1:177:130,47:130:4642:47:1676:-97.7888,0,-290.283 0/0:57:57,0:57:2029:0:0:0,-17.1587,-145.176 0/1:197:138,59:138:4952:59:2101:-130.03,0,-224.109 0/1:6:5,1:5:180:1:36:-1.79209,0,-10.8584 0/1:16:12,4:12:428:4:140:-8.1281,0,-26.2661 0/1:38:24,14:24:864:14:504:-34.259,0,-48.7429 0/1:154:113,41:113:3996:41:1460:-85.3374,0,-208.291 0/1:137:61,76:61:2180:76:2685:-200.607,0,-93.7442 0/1:167:94,72:94:3350:72:2504:-175.379,0,-158.854 0/1:125:67,58:67:2378:58:2084:-150.197,0,-95.0623 0/1:124:48,76:48:1709:76:2716:-207.353,0,-57.3856 0/1:227:141,86:141:5055:86:3080:-209.067,0,-280.603 0/1:104:60,44:60:2145:44:1576:-110.823,0,-105.88 0/1:150:81,69:81:2912:69:2457:-176.022,0,-152.565 0/1:124:58,66:58:2088:66:2360:-175.33,0,-113.088 chr02 20740048 . TGAGG CGAGC 15124.6 PASS AB=0.59651;ABP=225.573;AC=22;AF=0.52381;AN=42;AO=1696;CIGAR=1X3M1X;DP=2808;DPB=2807.4;DPRA=0;EPP=3685.83;EPPR=2365.57;GTI=2;LEN=5;MEANALT=1.95238;MQM=26.4245;MQMR=59.8539;NS=21;NUMALT=1;ODDS=6.61292;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59096;QR=38298;RO=1088;RPL=1696;RPP=3685.83;RPPR=2365.57;RPR=0;RUN=1;SAF=1696;SAP=3685.83;SAR=0;SRF=1088;SRP=2365.57;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:219:93,125:93:3283:125:4343:-209.811,0,-229.882 0/1:140:56,84:56:1965:84:2890:-172.173,0,-134.98 0/1:90:39,51:39:1381:51:1799:-85.0706,0,-97.4932 0/1:172:70,101:70:2474:101:3523:-166.151,0,-171.239 0/1:272:81,189:81:2822:189:6576:-340.588,0,-172.683 0/1:97:32,60:32:1126:60:2099:-124.641,0,-73.6721 0/1:178:47,129:47:1638:129:4530:-285.963,0,-94.4614 1/1:57:1,55:1:36:55:1922:-134.935,-13.6147,0 0/1:201:59,139:59:2108:139:4908:-224.352,0,-130.108 0/1:6:1,5:1:36:5:178:-10.8277,0,-1.79209 0/1:16:4,12:4:139:12:412:-25.8442,0,-8.03573 0/1:38:14,23:14:499:23:806:-45.8409,0,-33.8287 0/1:155:41,113:41:1446:113:3869:-207.201,0,-83.8091 0/1:138:76,62:76:2643:62:2171:-95.0265,0,-196.526 0/1:172:75,96:75:2643:96:3339:-160.766,0,-186.398 0/1:126:58,68:58:2061:68:2357:-97.2977,0,-147.827 0/1:126:78,48:78:2732:48:1683:-57.1478,0,-208.192 0/1:226:86,139:86:2979:139:4819:-272.611,0,-200.396 0/1:104:43,61:43:1531:61:2119:-106.745,0,-106.775 0/1:150:67,80:67:2373:80:2800:-149.869,0,-169.242 0/1:125:67,56:67:2383:56:1953:-106.17,0,-177.409 chr02 20740059 . C T 16098.1 PASS AB=0.397321;ABP=249.162;AC=20;AF=0.47619;AN=42;AO=1069;CIGAR=1X;DP=2744;DPB=2744;DPRA=0;EPP=2324.31;EPPR=3638.06;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.8167;MQMR=26.4361;NS=21;NUMALT=1;ODDS=4.93703;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37978;QR=58985;RO=1674;RPL=1069;RPP=2324.31;RPPR=3638.06;RPR=0;RUN=1;SAF=1069;SAP=2324.31;SAR=0;SRF=1674;SRP=3638.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:212:123,89:123:4316:89:3173:-221.969,0,-207.648 0/1:137:82,55:82:2842:55:1938:-133.454,0,-167.377 0/1:87:48,39:48:1703:39:1381:-98.3948,0,-79.2364 0/1:168:99,68:99:3507:68:2419:-167.584,0,-164.367 0/1:261:184,77:184:6561:77:2760:-170.073,0,-335.692 0/1:93:60,33:60:2112:33:1172:-77.7908,0,-124.367 0/1:176:128,48:128:4510:48:1683:-98.7642,0,-283.384 0/0:56:55,1:55:1914:1:36:0,-13.2991,-134.265 0/1:200:140,60:140:4965:60:2144:-132.999,0,-226.347 0/1:6:5,1:5:180:1:36:-1.79209,0,-10.8584 0/1:15:11,4:11:392:4:144:-8.79817,0,-23.7534 0/1:38:24,14:24:860:14:491:-33.082,0,-48.6692 0/1:153:113,40:113:3939:40:1431:-83.0292,0,-208.408 0/1:131:59,72:59:2082:72:2576:-192.607,0,-90.7547 0/1:169:94,75:94:3314:75:2667:-189.398,0,-158.287 0/1:122:65,57:65:2288:57:2038:-146.964,0,-93.893 0/1:123:47,76:47:1640:76:2683:-204.684,0,-55.7182 0/1:226:141,85:141:4931:85:3001:-202.263,0,-277.148 0/1:102:60,42:60:2088:42:1468:-101.709,0,-104.63 0/1:147:79,68:79:2819:68:2421:-173.728,0,-147.911 0/1:122:57,65:57:2022:65:2316:-171.973,0,-110.083 chr02 20749359 . T A 8781.86 PASS AB=0.387931;ABP=142.209;AC=22;AF=0.52381;AN=42;AO=561;CIGAR=1X;DP=1402;DPB=1402;DPRA=1.13814;EPP=1221.21;EPPR=1829.22;GTI=2;LEN=1;MEANALT=1;MQM=59.7469;MQMR=59.937;NS=21;NUMALT=1;ODDS=2.033;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20076;QR=29915;RO=841;RPL=561;RPP=1221.21;RPPR=1829.22;RPR=0;RUN=1;SAF=561;SAP=1221.21;SAR=0;SRF=841;SRP=1829.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:39,37:39:1357:37:1332:-97.2994,0,-99.5451 0/1:58:43,15:43:1536:15:540:-31.4686,0,-121.06 0/1:55:47,8:47:1667:8:288:-9.68205,0,-133.76 0/1:93:67,26:67:2396:26:921:-55.1541,0,-187.901 0/1:169:109,60:109:3886:60:2147:-142.614,0,-299.058 0/1:58:40,18:40:1428:18:644:-40.8309,0,-111.358 0/1:114:52,62:52:1847:62:2219:-165.641,0,-132.192 0/0:59:59,0:59:2104:0:0:0,-17.7608,-189.625 0/1:140:78,62:78:2757:62:2218:-157.738,0,-206.227 0/1:15:10,5:10:356:5:176:-11.6649,0,-27.8658 0/1:4:3,1:3:108:1:36:-2.37893,0,-8.87105 0/1:10:6,4:6:216:4:140:-9.93428,0,-16.7802 0/1:51:35,16:35:1232:16:576:-36.8178,0,-95.8242 0/1:73:54,19:54:1940:19:680:-39.5516,0,-152.901 0/1:102:64,38:64:2283:38:1364:-92.351,0,-175.026 0/1:74:40,34:40:1432:34:1219:-87.7395,0,-106.901 0/1:77:41,36:41:1447:36:1281:-92.4102,0,-107.345 0/1:59:32,27:32:1144:27:968:-69.6766,0,-85.5045 0/1:48:21,27:21:743:27:968:-72.9856,0,-52.7439 1/1:31:1,30:1:36:30:1063:-92.3807,-5.73366,0 1/1:36:0,36:0:0:36:1296:-116.936,-10.8371,0 chr02 20765048 . A G 4538.74 PASS AB=0.417254;ABP=36.7905;AC=22;AF=0.52381;AN=42;AO=283;CIGAR=1X;DP=646;DPB=646;DPRA=0.959375;EPP=617.537;EPPR=789.083;GTI=1;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.43994;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10126;QR=12968;RO=362;RPL=283;RPP=617.537;RPPR=789.083;RPR=0;RUN=1;SAF=0;SAP=617.537;SAR=283;SRF=0;SRP=789.083;SRR=362;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:34:25,9:25:896:9:320:-18.9073,0,-70.7253 0/1:38:18,20:18:644:20:716:-53.3286,0,-46.8515 0/1:21:8,13:8:284:13:468:-36.138,0,-19.5817 0/1:37:20,17:20:712:17:612:-44.2753,0,-53.2685 0/1:44:30,14:30:1080:14:500:-32.0909,0,-84.2679 0/1:64:31,33:31:1116:33:1184:-87.6024,0,-81.4858 0/1:43:31,12:31:1116:12:424:-25.5516,0,-87.8074 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 0/1:47:24,23:24:864:23:827:-60.6056,0,-63.9342 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:10:6,4:6:212:4:144:-10.3033,0,-16.4145 0/1:40:28,12:28:1000:12:416:-25.7299,0,-78.2742 0/1:37:18,19:18:648:19:680:-50.3911,0,-47.5138 0/1:44:31,13:31:1108:13:468:-29.2143,0,-86.7857 0/1:29:23,6:23:820:6:216:-11.0606,0,-65.3926 0/1:29:12,16:12:432:16:576:-43.3863,0,-30.4325 0/1:25:17,8:17:604:8:288:-18.7417,0,-47.1649 0/1:18:4,14:4:144:14:500:-39.9176,0,-7.89508 1/1:26:0,26:0:0:26:927:-83.7474,-7.82678,0 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 chr02 20936428 . TA AG,AA 35600 PASS AB=0.506166,0.49075;ABP=3.65304,4.45646;AC=20,22;AF=0.47619,0.52381;AN=42;AO=1133,1132;CIGAR=2X,1X1M;DP=2272;DPB=2272.5;DPRA=2.13462,0.722789;EPP=2463.29,2461.12;EPPR=5.18177;GTI=1;LEN=2,1;MEANALT=2.25,2.2;MQM=29.0309,40.2465;MQMR=58;NS=21;NUMALT=2;ODDS=5.61954;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=39165,39281;QR=25;RO=1;RPL=1133,1132;RPP=2463.29,2461.12;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1133,1132;SAP=2463.29,2461.12;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:107:0,56,51:0:0:56,51:1951,1777:-266.245,-139.894,-123.036,-126.664,0,-111.311 1/2:120:0,54,66:0:0:54,66:1886,2333:-285.129,-178.199,-161.943,-107.161,0,-87.2932 1/2:109:0,56,53:0:0:56,53:1956,1876:-275.083,-148.146,-131.288,-127.253,0,-111.298 1/2:208:0,113,94:0:0:113,94:3904,3277:-510.415,-257.652,-223.636,-252.806,0,-224.509 1/2:146:0,60,86:0:0:60,86:2055,2963:-366.888,-234.04,-215.979,-133.15,0,-107.262 1/2:142:0,74,68:0:0:74,68:2536,2291:-320.288,-175.347,-153.071,-145.228,0,-124.758 1/2:157:0,60,97:0:0:60,97:2051,3404:-378.937,-260.667,-242.605,-118.553,0,-89.3532 1/1:147:0,146,0:0:0:146,0:5034,0:-350.941,-43.9504,0,-350.941,-43.9504,-350.941 1/2:134:0,65,69:0:0:65,69:2281,2444:-349.019,-195.277,-175.71,-154.063,0,-133.292 1/2:6:0,4,1:0:0:4,1:131,34:-10.6011,-2.48794,-1.28382,-8.10628,0,-7.80525 1/2:7:0,4,3:0:0:4,3:142,95:-15.6843,-7.64363,-6.43951,-8.32548,0,-7.42239 1/2:40:0,19,21:0:0:19,21:676,725:-97.2396,-56.3173,-50.5977,-41.2222,0,-34.9006 1/2:167:0,85,82:0:0:85,82:2888,2888:-416.754,-228.579,-202.992,-188.486,0,-163.801 1/2:86:0,43,43:0:0:43,43:1458,1500:-212.713,-118.041,-105.097,-94.9804,0,-82.0361 1/2:175:0,111,64:0:0:111,64:3831,2212:-421.713,-174.162,-140.748,-247.866,0,-228.6 1/2:118:1,72,45:1:25:72,45:2534,1584:-294.75,-124.187,-104.46,-168.991,0,-157.393 1/2:76:0,44,31:0:0:44,31:1510,1050:-184.393,-82.6493,-69.404,-101.812,0,-92.48 1/2:72:0,44,28:0:0:44,28:1547,986:-170.42,-77.1147,-63.8694,-93.6164,0,-85.1876 1/2:76:0,21,53:0:0:21,53:724,1800:-188.758,-141.866,-135.545,-46.9508,0,-30.9962 2/2:127:0,2,125:0:0:2,125:70,4275:-368.717,-364.425,-363.823,-37.6288,-33.0637,0 2/2:52:0,0,52:0:0:0,52:0,1767:-150.644,-150.644,-150.644,-15.6536,-15.6536,0 chr02 21011638 . ACAC GCAT,ACAT 36376.6 PASS AB=0.750965,0.245817;ABP=853.154,875.093;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1391,418;CIGAR=1X2M1X,3M1X;DP=1814;DPB=1815.75;DPRA=2.87581,1.43689;EPP=2997.53,910.686;EPPR=0;GTI=6;LEN=4,1;MEANALT=2.2,2.2;MQM=59.3379,59.9952;MQMR=0;NS=21;NUMALT=2;ODDS=1.70771;PAIRED=0,0;PAIREDR=0;PAO=3.5,3.5;PQA=120,120;PQR=0;PRO=0;QA=49417,14982;QR=0;RO=0;RPL=3,418;RPP=2997.53,910.686;RPPR=0;RPR=1388,0;RUN=1,1;SAF=1391,418;SAP=3023.53,910.686;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:101:0,74,25:0:0:74,25:2644,900:-289.041,-73.4863,-51.2101,-215.604,0,-208.079 1/2:52:0,42,10:0:0:42,10:1498,360:-151.793,-29.734,-17.0907,-122.418,0,-119.408 1/2:114:0,65,48:0:0:65,48:2299,1712:-326.777,-139.556,-119.989,-187.216,0,-172.766 1/2:72:0,51,21:0:0:51,21:1806,756:-209.147,-62.0456,-46.6931,-147.459,0,-141.138 1/2:167:0,129,38:0:0:129,38:4588,1368:-485.765,-111.982,-73.1488,-374.142,0,-362.703 1/2:128:0,112,16:0:0:112,16:3975,576:-371.07,-47.3585,-13.6431,-324.07,0,-319.254 1/2:116:0,99,17:0:0:99,17:3486,608:-333.666,-49.9336,-20.1316,-284.089,0,-278.972 2/2:31:0,0,31:0:0:0,31:0,1116:-100.752,-100.752,-100.752,-9.33193,-9.33193,0 1/2:219:0,171,48:0:0:171,48:6062,1707:-633.276,-139.466,-87.9895,-494.166,0,-479.716 1/2:11:0,7,4:0:0:7,4:250,144:-32.4902,-12.1095,-10.0023,-20.7395,0,-19.5354 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:22:0,20,2:0:0:20,2:699,72:-63.0862,-6.23466,-0.214062,-57.2104,0,-56.6084 1/2:62:0,45,17:0:0:45,17:1616,612:-182.05,-50.2393,-36.6929,-132.114,0,-126.997 1/2:123:0,91,31:0:0:91,31:3218,1112:-352.241,-90.6604,-63.2667,-261.538,0,-252.206 1/2:135:0,103,32:0:0:103,32:3678,1152:-394.16,-94.3572,-63.3511,-300.162,0,-290.529 1/1:61:0,57,4:0:0:57,4:2003,144:-179.815,-17.1587,0,-168.065,-5.04921,-166.861 1/2:44:0,32,12:0:0:32,12:1138,432:-128.259,-35.5537,-25.9207,-93.009,0,-89.3966 1/2:94:0,56,37:0:0:56,37:1995,1319:-269.656,-107.513,-90.6556,-162.139,0,-151.001 1/2:90:0,68,22:0:0:68,22:2443,784:-263.54,-64.2613,-43.7912,-199.635,0,-193.013 1/1:107:0,106,1:0:0:106,1:3764,36:-336.208,-31.9092,0,-333.27,-28.6119,-332.969 1/1:61:0,61,0:0:0:61,0:2183,0:-196.135,-18.3628,0,-196.135,-18.3628,-196.135 chr02 21055187 . C A 54035.4 PASS AB=0.500492;ABP=3.01885;AC=22;AF=0.52381;AN=42;AO=2324;CIGAR=1X;DP=4620;DPB=4620;DPRA=0.828327;EPP=5049.51;EPPR=4980.03;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9596;MQMR=59.9921;NS=21;NUMALT=1;ODDS=17.7894;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82059;QR=80765;RO=2292;RPL=1298;RPP=72.1386;RPPR=46.3981;RPR=1026;RUN=1;SAF=1298;SAP=72.1386;SAR=1026;SRF=1253;SRP=46.3981;SRR=1039;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:306:131,175:131:4610:175:6195:-465.522,0,-322.951 0/1:170:84,86:84:2999:86:3034:-222.117,0,-218.963 0/1:204:90,114:90:3184:114:4042:-302.558,0,-225.374 0/1:258:140,118:140:4939:118:4222:-302.495,0,-366.997 0/1:509:259,250:259:9097:250:8809:-639.424,0,-665.494 0/1:256:144,112:144:5105:112:3927:-276.561,0,-382.531 0/1:298:154,143:154:5404:143:5038:-363.915,0,-396.839 0/0:263:263,0:263:9309:0:0:0,-79.1709,-837.785 0/1:396:225,171:225:7864:171:6027:-423.331,0,-588.593 0/1:38:18,20:18:644:20:699:-51.7933,0,-46.8515 0/1:20:14,6:14:500:6:208:-13.0385,0,-39.3156 0/1:78:41,37:41:1455:37:1303:-94.0902,0,-107.765 0/1:287:135,152:135:4716:152:5378:-397.759,0,-338.206 0/1:219:106,112:106:3739:112:3955:-290.304,0,-270.874 0/1:346:171,174:171:6034:174:6121:-446.784,0,-438.953 0/1:165:77,88:77:2689:88:3102:-229.737,0,-192.584 0/1:130:64,66:64:2266:66:2359:-173.433,0,-165.066 0/1:215:112,102:112:3949:102:3589:-258.433,0,-290.826 0/1:169:61,108:61:2162:108:3763:-287.993,0,-143.972 1/1:200:2,198:2:68:198:7020:-625.408,-53.7483,0 1/1:93:1,92:1:32:92:3268:-291.143,-24.7965,0 chr02 21132290 . CAA AAA,AAG 35557.4 PASS AB=0.51436,0.483029;ABP=5.75441,6.84298;AC=22,20;AF=0.52381,0.47619;AN=42;AO=946,824;CIGAR=1X2M,1X1M1X;DP=1774;DPB=1774;DPRA=1.01867,1.18194;EPP=2048.55,1783.63;EPPR=7.35324;GTI=0;LEN=1,3;MEANALT=2.05,2.05;MQM=59.982,53.801;MQMR=60;NS=21;NUMALT=2;ODDS=3.63556;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33583,29190;QR=70;RO=2;RPL=1,1;RPP=2048.55,1783.63;RPPR=7.35324;RPR=945,823;RUN=1,1;SAF=946,824;SAP=2057.22,1792.3;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:71:0,34,37:0:0:34,37:1194,1293:-202.462,-105.285,-95.0503,-97.5262,0,-86.3881 1/2:106:0,44,62:0:0:44,62:1576,2178:-305.279,-176.748,-163.502,-128.886,0,-110.222 1/2:54:0,33,21:0:0:33,21:1169,751:-156.772,-61.5466,-51.6126,-95.5813,0,-89.2597 1/2:106:0,61,45:0:0:61,45:2191,1594:-307.878,-129.14,-110.777,-179.093,0,-165.546 1/2:178:0,109,69:0:0:109,69:3856,2459:-514.087,-200.017,-167.205,-314.424,0,-293.653 1/2:83:0,41,42:0:0:41,42:1453,1484:-238.986,-120.617,-108.275,-118.722,0,-106.078 1/2:150:2,67,81:2:70:67,81:2370,2876:-419.429,-226.998,-212.524,-187.341,0,-168.653 2/2:83:0,0,83:0:0:0,83:0,2922:-261.837,-261.837,-261.837,-24.9855,-24.9855,0 1/2:134:0,69,64:0:0:69,64:2471,2264:-385.568,-184.065,-163.294,-201.504,0,-182.238 1/2:15:0,6,9:0:0:6,9:201,319:-42.4461,-26.1771,-24.3709,-16.6109,0,-13.9016 1/2:4:0,2,2:0:0:2,2:72,72:-12.0928,-6.21747,-5.61541,-6.23466,0,-5.6326 1/2:14:0,9,4:0:0:9,4:324,144:-38.307,-11.8508,-9.14149,-26.5716,0,-25.3675 1/2:73:0,40,33:0:0:40,33:1421,1166:-210.975,-95.1846,-83.1434,-116.144,0,-106.21 1/2:65:0,24,41:0:0:24,41:848,1451:-187.178,-118.116,-110.891,-69.4149,0,-57.0727 1/2:133:0,71,62:0:0:71,62:2533,2209:-386.542,-180.051,-158.678,-206.847,0,-188.183 1/2:88:0,52,36:0:0:52,36:1806,1279:-251.3,-104.489,-88.8358,-147.162,0,-136.325 1/2:48:0,15,33:0:0:15,33:540,1181:-140.511,-96.4493,-91.9339,-44.4211,0,-34.4871 1/2:139:0,66,73:0:0:66,73:2332,2601:-401.337,-211.422,-191.554,-190.269,0,-168.294 1/2:71:0,45,26:0:0:45,26:1608,911:-205.451,-74.3393,-60.7929,-131.464,0,-123.637 1/1:72:0,72,0:0:0:72,0:2569,0:-231.458,-21.6742,0,-231.458,-21.6742,-231.458 1/1:87:0,86,1:0:0:86,1:3049,36:-274.28,-25.8886,0,-271.343,-22.5913,-271.042 chr02 21132323 . CGA TGA,TGC 58381.9 PASS AB=0.677672,0.317984;ABP=634.194,665.436;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1867,815;CIGAR=1X2M,1X1M1X;DP=2692;DPB=2692;DPRA=1.57169,0.817761;EPP=4057.15,1755.43;EPPR=7.35324;GTI=3;LEN=1,3;MEANALT=2.3,2.36842;MQM=45.5828,53.7558;MQMR=60;NS=21;NUMALT=2;ODDS=7.07742;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62391,28152;QR=72;RO=2;RPL=923,814;RPP=3.52322,1764.09;RPPR=7.35324;RPR=944,1;RUN=1,1;SAF=923,812;SAP=3.52322,1746.8;SAR=944,3;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:132:0,95,37:0:0:95,37:3180,1242:-342.869,-100.771,-72.1731,-242.428,0,-231.289 1/2:143:0,82,61:0:0:82,61:2592,2117:-369.229,-171.813,-147.129,-197.743,0,-179.38 1/2:98:0,77,21:0:0:77,21:2582,729:-256.766,-59.5634,-36.3841,-197.543,0,-191.221 1/2:148:0,102,45:0:0:102,45:3483,1560:-398.104,-126.182,-95.4767,-272.049,0,-258.503 1/2:280:0,210,69:0:0:210,69:7165,2391:-746.733,-193.627,-130.411,-553.264,0,-532.493 1/2:106:0,63,43:0:0:63,43:2046,1481:-278.267,-119.929,-100.964,-158.668,0,-145.724 1/2:192:2,110,78:2:72:110,78:3591,2690:-488.903,-211.452,-184.214,-272.155,0,-254.551 2/2:83:0,0,83:0:0:0,83:0,2874:-257.637,-257.637,-257.637,-24.9855,-24.9855,0 1/2:170:0,107,62:0:0:107,62:3757,2130:-468.181,-172.664,-140.454,-295.499,0,-276.835 1/2:31:0,21,10:0:0:21,10:664,318:-75.1568,-25.8034,-19.4818,-49.6629,0,-46.6526 1/2:9:0,7,2:0:0:7,2:211,72:-21.7256,-6.21747,-4.11026,-15.8496,0,-15.2476 1/2:38:0,33,5:0:0:33,5:1042,180:-92.306,-14.7528,-4.81884,-77.8989,0,-76.3938 1/2:119:0,85,33:0:0:85,33:2907,1116:-314.333,-90.4603,-64.8727,-223.993,0,-214.059 1/2:118:0,78,40:0:0:78,40:2595,1382:-308.004,-112.303,-88.8224,-196.034,0,-183.993 1/2:203:0,143,60:0:0:143,60:4869,2097:-545.789,-170.658,-127.611,-375.472,0,-357.41 1/2:138:0,101,36:0:0:101,36:3515,1253:-374.725,-101.91,-71.5062,-272.906,0,-262.069 1/2:78:0,45,33:0:0:45,33:1549,1153:-211.969,-93.9396,-80.3933,-118.368,0,-108.434 1/2:176:0,104,72:0:0:104,72:3480,2516:-475.721,-204.232,-172.925,-271.827,0,-250.153 1/2:123:0,97,25:0:0:97,25:3252,851:-318.737,-68.9222,-39.7223,-249.83,0,-242.304 1/1:179:0,179,0:0:0:179,0:5734,0:-486.862,-53.8844,0,-486.862,-53.8844,-486.862 1/1:128:0,128,0:0:0:128,0:4177,0:-363.951,-38.5318,0,-363.951,-38.5318,-363.951 chr02 21132334 . CAATG CAATA 9582.21 PASS AB=0.30491;ABP=770.634;AC=20;AF=0.47619;AN=42;AO=778;CIGAR=4M1X;DP=2718;DPB=2718;DPRA=0.791619;EPP=1683.74;EPPR=4187.44;GTI=3;LEN=1;MEANALT=1.36842;MQM=53.9949;MQMR=45.4094;NS=21;NUMALT=1;ODDS=10.0819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27030;QR=67307;RO=1927;RPL=777;RPP=1683.74;RPPR=4.55298;RPR=1;RUN=1;SAF=776;SAP=1675.09;SAR=2;SRF=945;SRP=4.55298;SRR=982;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:97,33:97:3376:33:1167:-65.9635,0,-238.332 0/1:147:88,59:88:3109:59:2056:-140.172,0,-200.48 0/1:103:82,21:82:2873:21:721:-34.1601,0,-207.904 0/1:145:102,42:102:3568:42:1458:-87.0716,0,-259.831 0/1:289:221,68:221:7709:68:2366:-125.259,0,-557.791 0/1:107:67,40:67:2290:40:1391:-92.6096,0,-156.545 0/1:192:115,77:115:3980:77:2685:-182.748,0,-266.659 1/1:77:0,70:0:0:70:2422:-217.37,-21.0721,0 0/1:166:106,60:106:3682:60:2078:-137.073,0,-269.095 0/1:31:21,9:21:743:9:297:-17.711,0,-48.1957 0/1:9:7,2:7:245:2:72:-4.11026,0,-16.2053 0/1:42:37,5:37:1284:5:172:-2.88626,0,-86.1605 0/1:118:87,31:87:3077:31:1072:-61.1128,0,-221.65 0/1:118:78,39:78:2708:39:1332:-84.075,0,-187.234 0/1:209:147,62:147:5180:62:2106:-126.685,0,-369.643 0/1:135:101,33:101:3513:33:1168:-64.7542,0,-258.543 0/1:79:46,33:46:1618:33:1141:-79.0454,0,-111.077 0/1:174:105,68:105:3655:68:2407:-163.757,0,-252.962 0/1:128:102,26:102:3579:26:919:-44.3551,0,-256.981 0/0:182:182,0:182:6396:0:0:0,-54.7875,-509.621 0/0:137:136,0:136:4722:0:0:0,-40.9401,-384.615 chr02 21278863 . TG CC,CG 40471.3 PASS AB=0.493678,0.502474;ABP=3.64181,3.107;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1055,968;CIGAR=2X,1X1M;DP=2031;DPB=2031;DPRA=1.90288,0;EPP=2293.91,2105;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.25,2.19048;MQM=58.7213,59.8833;MQMR=60;NS=21;NUMALT=2;ODDS=7.83096;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37277,34556;QR=36;RO=1;RPL=1055,968;RPP=2293.91,2105;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2293.91,2105;SAR=1055,968;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:62:0,22,40:0:0:22,40:769,1432:-179.691,-117.136,-110.514,-62.9072,0,-50.866 1/2:78:0,45,33:0:0:45,33:1614,1176:-226.897,-96.2109,-82.6646,-131.042,0,-121.108 1/2:95:0,49,46:0:0:49,46:1744,1644:-276.139,-134.401,-119.651,-142.094,0,-128.247 1/2:124:0,56,68:0:0:56,68:1987,2424:-359.779,-197.946,-181.089,-162.188,0,-141.718 1/2:215:0,90,125:0:0:90,125:3201,4438:-622.526,-361.742,-334.649,-261.139,0,-223.511 1/2:119:0,54,65:0:0:54,65:1944,2339:-349.561,-191.198,-174.942,-158.723,0,-139.156 1/2:134:0,52,81:0:0:52,81:1833,2904:-385.57,-236.851,-221.197,-148.714,0,-124.331 2/2:52:1,0,51:1:36:0,51:0,1816:-160.123,-160.424,-163.362,-12.0553,-15.3525,0 1/2:182:0,98,83:0:0:98,83:3469,2964:-524.125,-241.648,-212.147,-282.472,0,-257.487 1/2:16:0,8,8:0:0:8,8:276,273:-44.9154,-22.4919,-20.0837,-22.7664,0,-20.3582 1/2:8:0,3,5:0:0:3,5:106,180:-23.6748,-15.0469,-14.1438,-8.98354,0,-7.47839 1/2:38:0,19,18:0:0:19,18:678,640:-107.414,-52.2742,-46.5546,-55.2561,0,-49.8375 1/2:112:0,66,45:0:0:66,45:2340,1608:-321.69,-131.104,-111.236,-190.583,0,-177.036 1/2:86:0,52,34:0:0:52,34:1794,1201:-243.738,-98.1583,-82.5047,-145.929,0,-135.694 1/2:151:0,72,79:0:0:72,79:2513,2832:-435.723,-231.337,-209.663,-204.739,0,-180.958 1/2:115:0,58,54:0:0:58,54:2037,1921:-322.354,-156.571,-139.111,-165.803,0,-149.547 1/2:78:0,36,42:0:0:36,42:1255,1504:-225.053,-123.011,-112.174,-102.394,0,-89.7511 1/2:138:0,71,67:0:0:71,67:2520,2400:-401.245,-196.043,-174.67,-205.558,0,-185.389 1/2:68:0,47,21:0:0:47,21:1644,752:-195.393,-61.6846,-47.5362,-134.064,0,-127.742 1/1:80:0,78,2:0:0:78,2:2771,72:-249.162,-23.4803,0,-243.287,-17.2457,-242.685 1/1:80:0,79,1:0:0:79,1:2782,36:-250.011,-23.7814,0,-247.074,-20.4851,-246.773 chr02 21285897 . G C 18318.2 PASS AB=0.552025;ABP=40.7425;AC=20;AF=0.47619;AN=42;AO=1011;CIGAR=1X;DP=1829;DPB=1829;DPRA=1.83945;EPP=2198.37;EPPR=1774.93;GTI=1;LEN=1;MEANALT=1.10526;MQM=46.0069;MQMR=59.8395;NS=21;NUMALT=1;ODDS=6.67678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34933;QR=28366;RO=816;RPL=47;RPP=1809.11;RPPR=1697.62;RPR=964;RUN=1;SAF=47;SAP=1809.11;SAR=964;SRF=9;SRP=1697.62;SRR=807;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:71,105:71:2466:105:3583:-265.792,0,-169.215 0/1:93:23,70:23:751:70:2421:-186.393,0,-39.8826 0/1:109:33,76:33:1159:76:2600:-199.159,0,-71.8036 0/1:68:31,37:31:1099:37:1301:-95.9314,0,-78.7494 0/1:185:70,115:70:2456:115:3965:-298.166,0,-165.602 0/1:97:55,41:55:1903:41:1420:-96.2257,0,-142.272 0/1:114:54,60:54:1897:60:2077:-146.562,0,-136.631 1/1:125:0,125:0:0:125:4309:-381.004,-37.6288,0 0/1:143:70,73:70:2442:73:2587:-187.821,0,-176.987 0/1:13:6,7:6:201:7:229:-16.7951,0,-14.5037 0/1:6:5,1:5:176:1:36:-1.71483,0,-14.3788 0/1:23:5,18:5:167:18:640:-50.2475,0,-8.43472 0/1:126:67,59:67:2335:59:2059:-145.643,0,-172.476 0/1:61:25,36:25:883:36:1265:-93.9398,0,-61.3962 0/1:99:51,48:51:1766:48:1665:-119.205,0,-129.389 0/1:83:37,46:37:1293:46:1578:-116.737,0,-91.5898 0/1:70:23,47:23:824:47:1624:-124.454,0,-53.4112 0/1:71:40,30:40:1379:30:991:-65.475,0,-102.954 0/1:68:51,17:51:1748:17:583:-31.7619,0,-137.1 0/0:61:61,0:61:2104:0:0:0,-18.3628,-189.623 0/0:38:38,0:38:1317:0:0:0,-11.4391,-118.825 chr02 21285902 . G A 19695.8 PASS AB=0.558038;ABP=50.1451;AC=20;AF=0.47619;AN=42;AO=1029;CIGAR=1X;DP=1841;DPB=1841;DPRA=1.83263;EPP=2237.46;EPPR=1764.07;GTI=1;LEN=1;MEANALT=1.05263;MQM=46.0496;MQMR=59.8755;NS=21;NUMALT=1;ODDS=4.95961;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36718;QR=28686;RO=811;RPL=48;RPP=1839.98;RPPR=1678.29;RPR=981;RUN=1;SAF=48;SAP=1839.98;SAR=981;SRF=10;SRP=1678.29;SRR=801;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:70,106:70:2479:106:3771:-281.361,0,-170.38 0/1:96:24,72:24:830:72:2575:-198.632,0,-46.1007 0/1:107:34,73:34:1215:73:2616:-200.405,0,-77.4455 0/1:69:30,39:30:1067:39:1404:-104.709,0,-75.5701 0/1:187:72,115:72:2555:115:4114:-310.65,0,-173.905 0/1:98:57,41:57:1994:41:1472:-100.327,0,-150.218 0/1:113:50,63:50:1766:63:2216:-159.436,0,-125.205 1/1:130:0,130:0:0:130:4647:-410.404,-39.1339,0 0/1:146:70,75:70:2475:75:2653:-193.255,0,-178.995 0/1:12:5,7:5:180:7:252:-19.0981,0,-12.9397 0/1:5:4,1:4:144:1:36:-2.01586,0,-11.8085 0/1:23:5,18:5:180:18:648:-50.9171,0,-9.62837 0/1:126:66,60:66:2356:60:2152:-153.954,0,-174.369 0/1:63:23,40:23:801:40:1426:-107.89,0,-53.4418 0/1:97:49,48:49:1735:48:1698:-122.577,0,-127.206 0/1:85:38,47:38:1359:47:1684:-125.514,0,-96.9184 0/1:71:24,47:24:852:47:1692:-129.904,0,-55.6273 0/1:72:41,31:41:1449:31:1090:-73.3372,0,-109.007 0/1:65:49,16:49:1735:16:572:-31.6132,0,-136.867 0/0:62:62,0:62:2203:0:0:0,-18.6639,-198.535 0/0:38:38,0:38:1311:0:0:0,-11.4391,-118.284 chr02 21288207 . A G 7174.72 PASS AB=0.491547;ABP=3.48752;AC=20;AF=0.47619;AN=42;AO=424;CIGAR=1X;DP=906;DPB=906;DPRA=0.821154;EPP=923.715;EPPR=1040.99;GTI=0;LEN=1;MEANALT=1;MQM=59.9481;MQMR=59.9419;NS=21;NUMALT=1;ODDS=2.38359;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15137;QR=17247;RO=482;RPL=0;RPP=923.715;RPPR=1049.66;RPR=424;RUN=1;SAF=424;SAP=923.715;SAR=0;SRF=481;SRP=1040.99;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:23,23:23:828:23:824:-60.6359,0,-60.9967 0/1:41:25,16:25:892:16:572:-39.4712,0,-68.2575 0/1:20:11,9:11:396:9:320:-23.1218,0,-29.9621 0/1:52:29,23:29:1044:23:824:-58.8298,0,-78.6212 0/1:55:21,34:21:737:34:1216:-93.1899,0,-50.094 0/1:47:26,21:26:932:21:752:-53.8578,0,-70.0505 0/1:69:27,42:27:964:42:1500:-114.436,0,-66.3058 1/1:45:0,45:0:0:45:1608:-145.01,-13.5464,0 0/1:63:34,29:34:1224:29:1035:-74.499,0,-91.0112 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:13:8,5:8:288:5:165:-11.2602,0,-22.354 0/1:63:36,27:36:1273:27:968:-68.4725,0,-95.906 0/1:54:24,30:24:856:30:1061:-79.5437,0,-61.1055 0/1:51:24,27:24:849:27:964:-71.7243,0,-61.3753 0/1:20:6,14:6:216:14:500:-39.3156,0,-13.7699 0/1:26:13,13:13:464:13:468:-34.6329,0,-34.2707 0/1:69:35,34:35:1256:34:1220:-89.3357,0,-92.5742 0/1:68:42,26:42:1512:26:924:-63.0076,0,-115.905 0/0:40:39,1:39:1400:1:36:0,-8.44292,-122.701 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.399 chr02 21667611 . 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A T 62299.1 PASS AB=0.494574;ABP=4.44778;AC=21;AF=0.5;AN=42;AO=2780;CIGAR=1X;DP=5621;DPB=5621;DPRA=0;EPP=6039.7;EPPR=6172.16;GTI=0;LEN=1;MEANALT=1;MQM=59.9914;MQMR=59.9743;NS=21;NUMALT=1;ODDS=42.3217;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99556;QR=101712;RO=2841;RPL=1919;RPP=877.351;RPPR=73.183;RPR=861;RUN=1;SAF=861;SAP=877.351;SAR=1919;SRF=1572;SRP=73.183;SRR=1269;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:323:141,182:141:5041:182:6494:-487.311,0,-356.602 0/1:246:94,152:94:3353:152:5421:-413.967,0,-227.932 0/1:195:81,114:81:2908:114:4100:-310.483,0,-203.254 0/1:351:173,178:173:6196:178:6384:-468.986,0,-452.074 0/1:491:294,197:294:10509:197:7024:-484.419,0,-797.921 0/1:517:260,257:260:9324:257:9209:-673.089,0,-683.491 0/1:444:247,197:247:8805:197:7033:-499.375,0,-658.784 0/1:211:120,91:120:4288:91:3249:-229.113,0,-322.581 0/1:358:160,198:160:5740:198:7112:-532.367,0,-408.456 0/1:27:10,17:10:360:17:612:-47.2856,0,-24.6165 0/1:19:14,5:14:504:5:180:-10.8325,0,-39.9785 0/1:77:39,38:39:1396:38:1368:-100.242,0,-102.76 0/1:273:126,147:126:4508:147:5252:-390.637,0,-323.578 0/1:299:168,131:168:6028:131:4704:-333.51,0,-452.615 0/1:358:152,206:152:5440:206:7370:-555.576,0,-381.96 0/1:219:130,89:130:4656:89:3192:-221.578,0,-353.276 0/1:284:136,148:136:4876:148:5312:-392.717,0,-353.499 0/1:221:134,87:134:4804:87:3112:-213.78,0,-365.987 0/1:211:117,94:117:4200:94:3380:-240.897,0,-314.66 0/1:325:163,162:163:5840:162:5816:-425.716,0,-427.807 0/1:172:82,90:82:2936:90:3232:-239.324,0,-212.697 chr02 21886861 . C T 80983.3 PASS AB=0.515837;ABP=17.9355;AC=21;AF=0.5;AN=42;AO=3534;CIGAR=1X;DP=6851;DPB=6851;DPRA=0;EPP=114.519;EPPR=4.64841;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9658;MQMR=59.9879;NS=21;NUMALT=1;ODDS=73.4113;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=125014;QR=116729;RO=3314;RPL=3527;RPP=7616.31;RPPR=7095.42;RPR=7;RUN=1;SAF=1547;SAP=121.968;SAR=1987;SRF=1620;SRP=6.59841;SRR=1694;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:321:182,138:182:6385:138:4886:-343.189,0,-478.055 0/1:260:119,141:119:4148:141:5023:-373.948,0,-295.239 0/1:201:110,91:110:3923:91:3222:-229.694,0,-292.757 0/1:348:170,178:170:5930:178:6328:-464.858,0,-429.056 0/1:606:264,341:264:9332:341:11936:-891.6,0,-657.305 0/1:440:221,219:221:7827:219:7756:-565.627,0,-572.009 0/1:571:274,297:274:9653:297:10485:-771.693,0,-696.848 0/1:302:151,150:151:5345:150:5329:-388.777,0,-390.213 0/1:470:239,231:239:8384:231:8201:-596.627,0,-613.09 0/1:80:37,43:37:1311:43:1491:-110.395,0,-94.2085 0/1:38:13,25:13:436:25:900:-69.8819,0,-28.1207 0/1:102:58,44:58:2063:44:1561:-110.075,0,-155.236 0/1:318:157,161:157:5567:161:5688:-416.187,0,-405.429 0/1:314:145,169:145:5097:169:5963:-442.256,0,-364.354 0/1:508:235,273:235:8267:273:9685:-718.684,0,-591.124 0/1:264:123,141:123:4342:141:4982:-369.058,0,-311.486 0/1:343:172,171:172:6047:171:6077:-443.782,0,-441.078 0/1:531:227,304:227:8027:304:10691:-802.261,0,-562.612 0/1:303:152,151:152:5338:151:5374:-392.578,0,-389.345 0/1:337:161,176:161:5696:176:6245:-460.631,0,-411.312 0/1:194:104,90:104:3611:90:3191:-229.013,0,-266.795 chr02 21886870 . C T 8944.25 PASS AB=0.255559;ABP=1847;AC=20;AF=0.47619;AN=42;AO=908;CIGAR=1X;DP=3721;DPB=3721;DPRA=1.05744;EPP=1974.71;EPPR=6074.5;GTI=4;LEN=1;MEANALT=1.05;MQM=59.9493;MQMR=59.9929;NS=21;NUMALT=1;ODDS=10.2052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32499;QR=100117;RO=2812;RPL=908;RPP=1974.71;RPPR=6074.5;RPR=0;RUN=1;SAF=0;SAP=1974.71;SAR=908;SRF=0;SRP=6109.19;SRR=2812;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:159:125,33:125:4464:33:1188:-59.306,0,-354.009 0/1:144:123,21:123:4376:21:752:-24.6579,0,-350.666 0/1:143:97,46:97:3473:46:1648:-105.561,0,-269.732 0/1:154:119,35:119:4264:35:1238:-65.3639,0,-337.579 0/1:320:245,75:245:8659:75:2692:-146.195,0,-682.985 0/1:221:169,52:169:6046:52:1872:-102.231,0,-477.715 0/1:266:198,68:198:7028:68:2444:-140.141,0,-552.514 0/0:168:168,0:168:5983:0:0:0,-50.573,-538.58 0/1:271:218,53:218:7752:53:1900:-88.9213,0,-616.135 0/1:61:47,14:47:1670:14:504:-27.3353,0,-132.223 0/1:25:20,5:20:716:5:165:-7.64785,0,-57.242 0/1:65:43,22:43:1531:22:788:-51.6778,0,-118.515 0/1:151:125,26:125:4453:26:936:-39.1039,0,-355.485 0/1:149:117,32:117:4161:32:1144:-58.4161,0,-329.82 0/1:331:247,84:247:8776:84:3000:-170.589,0,-690.195 0/1:145:103,42:103:3680:42:1507:-92.2753,0,-287.754 0/1:190:142,48:142:5063:48:1720:-97.8898,0,-398.621 0/1:360:280,80:280:9991:80:2849:-148.275,0,-790.632 0/1:148:92,56:92:3253:56:2012:-136.798,0,-248.44 0/1:146:83,63:83:2967:63:2252:-158.993,0,-223.312 0/1:104:51,53:51:1811:53:1888:-138.89,0,-131.964 chr02 21886876 . C T 8806.05 PASS AB=0.255675;ABP=1830.2;AC=20;AF=0.47619;AN=42;AO=901;CIGAR=1X;DP=3688;DPB=3688;DPRA=1.07439;EPP=1959.51;EPPR=6050.56;GTI=4;LEN=1;MEANALT=1.1;MQM=59.9489;MQMR=59.9871;NS=21;NUMALT=1;ODDS=3.20018;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32226;QR=99275;RO=2785;RPL=901;RPP=1959.51;RPPR=6050.56;RPR=0;RUN=1;SAF=0;SAP=1959.51;SAR=901;SRF=0;SRP=6050.56;SRR=2785;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:123,32:123:4396:32:1148:-56.9702,0,-349.154 0/1:144:122,22:122:4345:22:769:-26.1803,0,-347.877 0/1:146:99,47:99:3548:47:1673:-106.905,0,-275.578 0/1:154:120,34:120:4292:34:1220:-63.7458,0,-340.099 0/1:317:241,76:241:8564:76:2709:-148.626,0,-674.561 0/1:226:173,52:173:6203:52:1868:-100.308,0,-490.273 0/1:265:197,68:197:7009:68:2436:-139.722,0,-551.101 0/0:164:164,0:164:5834:0:0:0,-49.3689,-525.173 0/1:268:214,54:214:7661:54:1935:-92.9722,0,-608.848 0/1:60:46,14:46:1648:14:504:-27.6363,0,-130.547 0/1:25:20,5:20:716:5:180:-9.02631,0,-57.242 0/1:64:42,22:42:1508:22:788:-51.9789,0,-116.749 0/1:149:122,27:122:4361:27:968:-42.5839,0,-347.81 0/1:152:120,32:120:4261:32:1123:-55.6184,0,-337.911 0/1:327:246,80:246:8766:80:2859:-159.052,0,-690.438 0/1:146:105,41:105:3725:41:1476:-89.1858,0,-291.502 0/1:189:142,47:142:5046:47:1692:-95.6722,0,-397.391 0/1:358:278,80:278:9892:80:2862:-150.047,0,-782.457 0/1:137:82,55:82:2923:55:1961:-135.52,0,-222.064 0/1:139:79,60:79:2801:60:2156:-152.464,0,-210.487 0/1:103:50,53:50:1776:53:1899:-140.182,0,-129.117 chr02 21886931 . A G 58981.7 PASS AB=0.360195;ABP=1393.42;AC=20;AF=0.47619;AN=42;AO=2950;CIGAR=1X;DP=8644;DPB=8644;DPRA=0.901982;EPP=6330.92;EPPR=12324;GTI=2;LEN=1;MEANALT=1.2;MQM=59.9939;MQMR=59.9794;NS=21;NUMALT=1;ODDS=29.1471;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=104060;QR=202936;RO=5690;RPL=1609;RPP=55.8794;RPPR=3.16295;RPR=1341;RUN=1;SAF=1618;SAP=63.2197;SAR=1332;SRF=2839;SRP=3.06525;SRR=2851;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:451:264,187:264:9415:187:6599:-458.231,0,-711.548 0/1:353:184,169:184:6584:169:5981:-432.132,0,-486.378 0/1:279:145,133:145:5182:133:4651:-334.682,0,-382.473 0/1:725:356,368:356:12711:368:13099:-960.417,0,-925.421 0/1:992:783,209:783:27943:209:7417:-368.956,0,-2214.65 0/1:414:215,199:215:7683:199:6965:-502.295,0,-566.88 0/1:500:406,94:406:14471:94:3299:-146.613,0,-1151.62 0/0:454:454,0:454:16149:0:0:0,-136.668,-1453.1 0/1:547:441,105:441:15753:105:3674:-166.288,0,-1252.89 0/1:51:41,10:41:1472:10:358:-17.2104,0,-117.424 0/1:28:16,12:16:576:12:395:-27.4367,0,-43.7461 0/1:126:60,66:60:2131:66:2326:-171.67,0,-154.128 0/1:571:461,110:461:16406:110:3909:-180.116,0,-1304.32 0/1:323:163,160:163:5788:160:5592:-406.177,0,-423.805 0/1:620:323,297:323:11491:297:10503:-758.559,0,-847.431 0/1:304:163,141:163:5842:141:5038:-362.052,0,-434.377 0/1:327:173,154:173:6180:154:5447:-391.925,0,-457.863 0/1:414:321,93:321:11451:93:3202:-163.778,0,-905.837 0/1:404:276,128:276:9842:128:4487:-282.385,0,-764.112 0/1:579:359,219:359:12791:219:7768:-524.803,0,-976.614 0/1:182:86,96:86:3075:96:3350:-246.934,0,-222.191 chr02 21886952 . C A 36370.3 PASS AB=0.272152;ABP=3565.32;AC=19;AF=0.452381;AN=42;AO=2152;CIGAR=1X;DP=8665;DPB=8665;DPRA=2.2793;EPP=4667.34;EPPR=14104.6;GTI=2;LEN=1;MEANALT=1.25;MQM=59.9679;MQMR=59.9963;NS=21;NUMALT=1;ODDS=22.4282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76872;QR=229999;RO=6506;RPL=1121;RPP=11.1836;RPPR=9.74033;RPR=1031;RUN=1;SAF=1120;SAP=10.8244;SAR=1032;SRF=3321;SRP=9.18361;SRR=3185;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:453:330,123:330:11630:123:4388:-258.726,0,-910.209 0/1:351:280,71:280:9888:71:2552:-124.268,0,-784.204 0/1:279:208,71:208:7389:71:2528:-143.784,0,-581.042 0/1:732:539,193:539:19019:193:6886:-399.419,0,-1490.93 0/1:992:731,260:731:25802:260:9293:-537.496,0,-2022.81 0/1:417:311,106:311:10993:106:3776:-214.509,0,-863.743 0/1:498:311,187:311:10949:187:6687:-451.994,0,-835.4 0/1:462:255,206:255:8982:206:7365:-523.892,0,-669.357 0/1:545:385,159:385:13659:159:5688:-348.068,0,-1065.13 0/1:51:43,8:43:1544:8:288:-10.9149,0,-123.901 0/1:29:22,7:22:769:7:238:-13.0206,0,-60.7987 0/1:128:95,33:95:3331:33:1188:-68.6968,0,-261.473 0/1:573:406,167:406:14392:167:5968:-364.731,0,-1122.55 0/1:322:247,75:247:8612:75:2658:-142.531,0,-678.152 0/1:627:496,131:496:17547:131:4687:-233.244,0,-1390.11 0/1:302:211,91:211:7509:91:3241:-201,0,-584.942 0/1:326:248,78:248:8811:78:2796:-153.744,0,-694.843 0/1:409:298,111:298:10583:111:3970:-234.364,0,-829.271 0/1:404:330,73:330:11706:73:2603:-112.843,0,-931.741 0/0:579:574,2:574:20273:2:72:0,-166.916,-1817.26 0/0:186:186,0:186:6611:0:0:0,-55.9916,-595.073 chr02 21886989 . 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T A 1658.38 PASS AB=0.413333;ABP=22.5825;AC=11;AF=0.261905;AN=42;AO=148;CIGAR=1X;DP=574;DPB=574;DPRA=1.27425;EPP=3.06899;EPPR=13.7963;GTI=1;LEN=1;MEANALT=1;MQM=26.8581;MQMR=19.0141;NS=21;NUMALT=1;ODDS=0.70757;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5270;QR=15157;RO=426;RPL=2;RPP=307.251;RPPR=316.518;RPR=146;RUN=1;SAF=77;SAP=3.5385;SAR=71;SRF=271;SRP=71.6003;SRR=155;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:11:11,0:11:388:0:0:0,-3.31133,-14.3274 0/0:9:9,0:9:324:0:0:0,-2.70927,-26.8689 0/0:13:11,2:11:396:2:72:0,-0.881395,-11.6633 0/0:32:32,0:32:1131:0:0:0,-9.63296,-46.1236 0/1:37:25,12:25:892:12:428:-22.8725,0,-23.988 0/1:8:5,3:5:180:3:104:-7.02769,0,-12.777 0/1:12:7,5:7:239:5:180:-12.3988,0,-16.7239 1/1:22:0,22:0:0:22:784:-45.0149,-6.62266,0 0/1:27:20,7:20:712:7:244:-9.5527,0,-18.1265 0/1:5:2,3:2:72:3:104:-1.56954,0,-1.14987 0/0:4:4,0:4:135:0:0:0,-1.20412,-11.4466 0/1:7:3,4:3:108:4:144:-8.49533,0,-3.25225 0/0:37:37,0:37:1323:0:0:0,-11.1381,-50.3297 0/0:39:39,0:39:1387:0:0:0,-11.7402,-54.7431 0/1:10:6,4:6:216:4:140:-6.29469,0,-4.85715 0/0:8:8,0:8:288:0:0:0,-2.40824,-10.8309 0/0:7:7,0:7:252:0:0:0,-2.10721,-10.5409 0/1:96:40,56:40:1419:56:1998:-66.085,0,-17.003 0/1:98:68,30:68:2411:30:1072:-48.6687,0,-64.1605 0/0:36:36,0:36:1284:0:0:0,-10.8371,-48.2757 0/0:56:56,0:56:2000:0:0:0,-16.8577,-161.263 chr02 22281000 . G C 8667.99 PASS AB=0.473792;ABP=8.81503;AC=17;AF=0.404762;AN=42;AO=509;CIGAR=1X;DP=1363;DPB=1363;DPRA=0.932931;EPP=1099.62;EPPR=1853.1;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=16.0166;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18200;QR=30458;RO=852;RPL=0;RPP=1108.29;RPPR=1853.1;RPR=509;RUN=1;SAF=508;SAP=1099.62;SAR=1;SRF=852;SRP=1853.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:32:22,10:22:792:10:352:-22.3852,0,-61.9727 0/1:92:52,38:52:1864:38:1360:-95.3383,0,-140.678 0/1:135:68,67:68:2429:67:2392:-174.898,0,-178.225 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/1:88:43,45:43:1525:45:1604:-118.16,0,-111.05 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 0/1:62:32,30:32:1148:30:1076:-78.489,0,-84.966 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 0/1:53:29,24:29:1036:24:860:-61.7672,0,-77.5993 0/1:29:9,20:9:320:20:716:-56.0378,0,-20.4125 0/1:22:9,13:9:324:13:453:-34.477,0,-22.8832 0/1:44:25,19:25:885:19:684:-48.645,0,-66.7212 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.186 0/0:114:114,0:114:4084:0:0:0,-34.3174,-367.746 0/1:53:31,22:31:1112:22:788:-55.2902,0,-84.4368 0/1:36:24,12:24:860:12:432:-28.3841,0,-66.8848 0/1:50:20,30:20:716:30:1076:-82.1014,0,-49.7162 0/1:212:107,105:107:3817:105:3751:-273.972,0,-279.908 0/1:54:35,19:35:1230:19:680:-45.2735,0,-94.7443 0/0:62:62,0:62:2216:0:0:0,-18.6639,-199.705 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 chr02 22296028 . GCCT CCCT,ACCC 29273.7 PASS AB=0.511719,0.472656;ABP=4.23175,9.66043;AC=26,16;AF=0.619048,0.380952;AN=42;AO=855,554;CIGAR=1X3M,1X2M1X;DP=1428;DPB=1428;DPRA=0.984783,1.28696;EPP=1765.3,1188.7;EPPR=0;GTI=1;LEN=1,4;MEANALT=2.5,2.75;MQM=59.9965,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.61382;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30469,19207;QR=0;RO=0;RPL=11,2;RPP=1765.3,1188.7;RPPR=0;RPR=844,552;RUN=1,1;SAF=855,554;SAP=1859.62,1206.01;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,29,21:0:0:29,21:1036,714:-142.73,-58.2535,-49.5236,-84.824,0,-78.5024 1/2:44:0,24,18:0:0:24,18:855,633:-121.263,-51.5687,-44.344,-69.7366,0,-64.3181 1/2:69:0,35,33:0:0:35,33:1260,1173:-198.505,-95.6911,-85.1551,-102.916,0,-92.9824 1/1:67:0,67,0:0:0:67,0:2388,0:-215.178,-20.169,0,-215.178,-20.169,-215.178 1/2:146:0,69,76:0:0:69,76:2459,2618:-413.182,-212.739,-191.968,-200.542,0,-177.663 1/2:79:0,37,41:0:0:37,41:1310,1410:-221.207,-114.493,-103.355,-106.704,0,-94.3613 1/2:129:0,71,57:0:0:71,57:2516,1962:-364.414,-159.444,-138.071,-205.067,0,-187.908 2/2:69:0,0,69:0:0:0,69:0,2409:-217.069,-217.069,-217.069,-20.7711,-20.7711,0 1/2:128:0,71,53:0:0:71,53:2513,1852:-355.376,-150.68,-129.307,-204.723,0,-188.768 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:13:0,2,11:0:0:2,11:72,385:-37.55,-31.6736,-31.0716,-6.23466,0,-2.92333 1/2:16:0,8,8:0:0:8,8:280,280:-45.9122,-23.131,-20.7228,-23.1311,0,-20.7228 1/1:93:0,91,0:0:0:91,0:3260,0:-293.295,-27.3937,0,-293.295,-27.3937,-293.295 1/1:86:0,86,0:0:0:86,0:3059,0:-275.54,-25.8886,0,-275.54,-25.8886,-275.54 1/2:146:0,70,75:0:0:70,75:2481,2584:-411.996,-209.875,-188.803,-202.112,0,-179.534 1/2:38:0,19,18:0:0:19,18:680,625:-106.37,-50.91,-45.1904,-55.5637,0,-50.1452 1/2:60:0,37,22:0:0:37,22:1328,771:-171.168,-62.8345,-51.6964,-108.431,0,-101.809 1/2:69:0,23,43:0:0:23,43:828,1495:-189.11,-121.545,-114.621,-67.5665,0,-54.6222 1/2:37:0,29,8:0:0:29,8:1031,260:-105.35,-21.309,-12.5792,-84.3727,0,-81.9645 1/1:56:0,55,1:0:0:55,1:1968,36:-177.035,-16.5567,0,-174.098,-13.2594,-173.797 1/1:29:0,28,0:0:0:28,0:1001,0:-90.055,-8.42884,0,-90.055,-8.42884,-90.055 chr02 22319816 . C T 23876.6 PASS AB=0.493359;ABP=3.616;AC=25;AF=0.595238;AN=42;AO=1283;CIGAR=1X;DP=2166;DPB=2166;DPRA=0;EPP=2789.01;EPPR=1892.28;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.1146;MQMR=59.7268;NS=21;NUMALT=1;ODDS=6.99519;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45075;QR=31388;RO=882;RPL=0;RPP=2789.01;RPPR=1892.28;RPR=1283;RUN=1;SAF=0;SAP=2789.01;SAR=1283;SRF=0;SRP=1918.25;SRR=882;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:43,34:43:1544:34:1177:-83.0427,0,-115.211 0/1:64:33,31:33:1184:31:1093:-79.405,0,-87.5991 0/1:159:74,85:74:2635:85:2995:-221.851,0,-189.531 1/1:112:0,112:0:0:112:3954:-356.034,-33.7154,0 0/1:161:83,78:83:2933:78:2752:-199.168,0,-215.738 0/1:114:71,43:71:2540:43:1502:-101.144,0,-194.53 0/1:162:70,92:70:2477:92:3211:-240.249,0,-174.415 0/0:81:80,1:80:2846:1:36:0,-20.7852,-251.849 0/1:263:129,134:129:4609:134:4708:-344.187,0,-334.865 0/1:15:8,7:8:288:7:252:-18.5135,0,-21.752 0/1:8:2,6:2:72:6:212:-17.0166,0,-4.42848 0/1:44:23,21:23:807:21:714:-51.323,0,-59.7038 1/1:127:0,127:0:0:127:4497:-404.681,-38.2308,0 1/1:123:0,123:0:0:123:4288:-385.155,-37.0267,0 0/1:160:83,76:83:2965:76:2663:-191.764,0,-218.857 0/1:83:47,36:47:1679:36:1269:-89.4975,0,-126.406 0/1:78:51,27:51:1797:27:933:-60.7984,0,-138.511 0/1:136:65,71:65:2300:71:2480:-182.061,0,-166.319 0/1:57:18,39:18:640:39:1373:-106.349,0,-40.7706 1/1:85:2,83:2:72:83:2950:-257.94,-18.7508,0 1/1:57:0,57:0:0:57:2016:-181.705,-17.1587,0 chr02 22372390 . T A 10516.8 PASS AB=0.523472;ABP=11.7768;AC=16;AF=0.380952;AN=42;AO=1056;CIGAR=1X;DP=2628;DPB=2628;DPRA=1.52139;EPP=2296.09;EPPR=3414.39;GTI=0;LEN=1;MEANALT=1.05882;MQM=28.3968;MQMR=32.9179;NS=21;NUMALT=1;ODDS=2.54412;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37546;QR=56159;RO=1571;RPL=0;RPP=2296.09;RPPR=3414.39;RPR=1056;RUN=1;SAF=1056;SAP=2296.09;SAR=0;SRF=1571;SRP=3414.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:67,30:67:2385:30:1065:-44.3056,0,-160.58 0/1:172:83,89:83:2969:89:3151:-166.78,0,-158.003 0/1:97:46,51:46:1652:51:1836:-95.5474,0,-102.122 0/0:198:197,1:197:7030:1:36:0,-56.8677,-557.914 0/1:286:140,146:140:5005:146:5188:-272.298,0,-311.981 0/1:89:54,35:54:1913:35:1230:-58.2237,0,-108.589 0/1:207:93,114:93:3314:114:4074:-219.085,0,-169.597 1/1:94:0,94:0:0:94:3327:-230.075,-28.2968,0 0/1:170:78,92:78:2796:92:3286:-174.35,0,-181.95 0/1:19:11,8:11:396:8:288:-14.2547,0,-24.8258 0/0:4:4,0:4:144:0:0:0,-1.20412,-10.438 0/1:40:14,26:14:504:26:936:-52.2596,0,-26.3279 0/0:161:161,0:161:5742:0:0:0,-48.4658,-457.466 0/0:119:119,0:119:4261:0:0:0,-35.8226,-337.12 0/1:218:72,146:72:2588:146:5199:-292.662,0,-140.712 0/1:116:59,56:59:2116:56:1970:-102.157,0,-142.149 0/1:169:77,92:77:2756:92:3239:-172.358,0,-175.516 0/1:85:37,48:37:1324:48:1713:-92.7839,0,-75.4318 0/1:67:41,26:41:1476:26:936:-43.8921,0,-97.5329 0/0:152:150,2:150:5344:2:72:0,-40.5578,-402.918 0/0:68:68,0:68:2444:0:0:0,-20.47,-169.737 chr02 22372409 . A G 10711.1 PASS AB=0.52011;ABP=9.38593;AC=16;AF=0.380952;AN=42;AO=1039;CIGAR=1X;DP=2613;DPB=2613;DPRA=1.51634;EPP=2207.36;EPPR=3287.52;GTI=0;LEN=1;MEANALT=1.11765;MQM=28.3965;MQMR=32.916;NS=21;NUMALT=1;ODDS=3.61396;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37080;QR=56436;RO=1572;RPL=1033;RPP=2207.36;RPPR=3287.52;RPR=6;RUN=1;SAF=1039;SAP=2259.17;SAR=0;SRF=1572;SRP=3416.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:67,29:67:2412:29:1044:-42.7896,0,-162.381 0/1:173:84,89:84:3016:89:3187:-168.276,0,-160.998 0/1:97:46,51:46:1644:51:1810:-94.8776,0,-101.761 0/0:200:199,1:199:7152:1:36:0,-57.4698,-564.737 0/1:286:140,146:140:5017:146:5198:-274.264,0,-312.153 0/1:89:54,35:54:1940:35:1248:-59.2933,0,-109.408 0/1:205:94,111:94:3372:111:3961:-212.786,0,-173.895 1/1:93:0,92:0:0:92:3288:-226.65,-27.6948,0 0/1:170:79,90:79:2840:90:3212:-168.797,0,-185.759 0/1:19:11,8:11:392:8:288:-14.2547,0,-24.6845 0/0:4:4,0:4:144:0:0:0,-1.20412,-10.438 0/1:40:14,26:14:504:26:936:-52.2596,0,-26.3279 0/0:161:161,0:161:5788:0:0:0,-48.4658,-459.984 0/0:121:121,0:121:4344:0:0:0,-36.4246,-344.901 0/1:214:71,143:71:2548:143:5096:-287.972,0,-138.747 0/1:114:59,55:59:2116:55:1968:-101.561,0,-142.637 0/1:162:74,88:74:2652:88:3148:-167.04,0,-168.872 0/1:83:36,47:36:1292:47:1656:-89.6636,0,-73.9091 0/1:67:41,26:41:1463:26:932:-43.8184,0,-96.8412 0/0:154:152,2:152:5464:2:72:0,-41.1598,-410.159 0/0:65:65,0:65:2336:0:0:0,-19.5669,-163.493 chr02 22763381 . TCTGCA ACTACC,TCTACC 28562.6 PASS AB=0.630533,0.366757;ABP=166.844,173.717;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1040,414;CIGAR=1X2M1X1M1X,3M1X1M1X;DP=1459;DPB=1458.67;DPRA=9.06875,1.0129;EPP=2261.34,902;EPPR=0;GTI=3;LEN=6,6;MEANALT=2,2.125;MQM=44.5692,56.2077;MQMR=0;NS=21;NUMALT=2;ODDS=2.94883;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36461,14438;QR=0;RO=0;RPL=0,0;RPP=2261.34,902;RPPR=0;RPR=1040,414;RUN=1,1;SAF=0,0;SAP=2261.34,902;SAR=1040,414;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:133:0,72,61:0:0:72,61:2506,2119:-371.709,-172.113,-150.439,-199.94,0,-181.577 1/2:72:0,42,29:0:0:42,29:1448,1021:-199.459,-83.1484,-70.5051,-116.375,0,-107.646 1/2:64:0,47,16:0:0:47,16:1639,563:-176.763,-45.6622,-31.5138,-131.174,0,-126.357 1/1:82:0,82,0:0:0:82,0:2860,0:-253.909,-24.6845,0,-253.909,-24.6845,-253.909 1/2:184:0,116,67:0:0:116,67:4100,2341:-518.199,-189.987,-155.067,-328.202,0,-308.033 1/2:65:0,46,19:0:0:46,19:1644,675:-187.19,-55.2732,-41.4258,-132.271,0,-126.552 1/2:118:0,69,49:0:0:69,49:2440,1669:-331.616,-135.536,-114.765,-196.424,0,-181.673 2/2:8:0,0,8:0:0:0,8:0,286:-26.0716,-26.0716,-26.0716,-2.40824,-2.40824,0 1/2:123:0,74,49:0:0:74,49:2607,1711:-348.041,-139.476,-117.2,-208.913,0,-194.163 1/2:11:0,4,7:0:0:4,7:144,250:-32.2989,-20.7291,-19.525,-11.9254,0,-9.81818 1/2:9:0,5,4:0:0:5,4:176,121:-24.179,-9.98285,-8.4777,-14.519,0,-13.3149 1/2:11:0,6,5:0:0:6,5:215,178:-30.6983,-14.8562,-13.05,-16.1848,0,-14.6796 1/1:53:0,53,0:0:0:53,0:1846,0:-164.442,-15.9546,0,-164.442,-15.9546,-164.442 1/1:80:0,79,0:0:0:79,0:2757,0:-243.255,-23.7814,0,-243.255,-23.7814,-243.255 1/2:109:0,82,27:0:0:82,27:2892,965:-310.925,-78.8954,-54.2109,-232.384,0,-224.257 1/2:85:0,53,32:0:0:53,32:1864,1107:-239.239,-90.2221,-74.2675,-149.362,0,-139.729 1/2:107:0,68,39:0:0:68,39:2378,1360:-299.569,-110.629,-90.1591,-189.286,0,-177.545 1/2:7:0,6,1:0:0:6,1:211,36:-20.2345,-3.29553,-1.48935,-17.2969,0,-16.9959 1/2:9:0,8,1:0:0:8,1:267,36:-24.0809,-3.20167,-0.793429,-21.2265,0,-20.9255 1/1:109:0,108,0:0:0:108,0:3758,0:-332.552,-32.5112,0,-332.552,-32.5112,-332.552 1/1:20:0,20,0:0:0:20,0:709,0:-63.4942,-6.0206,0,-63.4942,-6.0206,-63.4942 chr02 22765700 . C G 56265.8 PASS AB=0.564767;ABP=129.586;AC=19;AF=0.452381;AN=42;AO=3117;CIGAR=1X;DP=6012;DPB=6012;DPRA=1.50094;EPP=6771.49;EPPR=6272.05;GTI=1;LEN=1;MEANALT=1.26316;MQM=40.1675;MQMR=54.4506;NS=21;NUMALT=1;ODDS=21.4108;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=111777;QR=102937;RO=2887;RPL=3117;RPP=6771.49;RPPR=6272.05;RPR=0;RUN=1;SAF=0;SAP=6771.49;SAR=3117;SRF=0;SRP=6272.05;SRR=2887;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:203:83,120:83:2976:120:4287:-313.368,0,-206.734 0/1:185:98,87:98:3501:87:3124:-206.846,0,-258.541 0/1:276:110,166:110:3933:166:5917:-431.895,0,-270.5 0/0:337:337,0:337:11949:0:0:0,-101.447,-1073.18 0/1:490:198,292:198:7097:292:10472:-763.822,0,-488.214 0/1:293:187,106:187:6689:106:3812:-233.864,0,-509.885 0/1:382:199,183:199:7110:183:6564:-435.412,0,-522.925 1/1:306:0,306:0:0:306:10970:-940.501,-92.1152,0 0/1:395:183,211:183:6505:211:7564:-547.462,0,-465.906 1/1:236:12,223:12:417:223:7976:-641.774,-33.4029,0 0/1:24:11,13:11:396:13:464:-31.5262,0,-28.6306 1/1:651:32,618:32:1148:618:22192:-1790.47,-92.7208,0 0/0:497:496,1:496:17701:1:36:0,-146.109,-1582.48 0/0:259:257,2:257:9102:2:72:0,-71.3116,-811.051 0/1:325:184,139:184:6563:139:4992:-338.667,0,-491.446 0/1:185:72,110:72:2584:110:3952:-290.802,0,-177.548 0/1:243:86,157:86:3081:157:5621:-419.93,0,-204.105 0/1:383:37,346:37:1317:346:12436:-941.216,0,-2.79508 0/1:90:58,32:58:2084:32:1150:-73.393,0,-160.315 0/0:195:190,5:190:6751:5:176:0,-43.7639,-589.6 0/0:57:57,0:57:2033:0:0:0,-17.1587,-182.16 chr02 22787871 . A G 48692.7 PASS AB=0.50116;ABP=3.04557;AC=25;AF=0.595238;AN=42;AO=2538;CIGAR=1X;DP=4316;DPB=4316;DPRA=0.78;EPP=5514.21;EPPR=3863.89;GTI=0;LEN=1;MEANALT=1;MQM=59.7009;MQMR=59.9904;NS=21;NUMALT=1;ODDS=5.16926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90294;QR=62935;RO=1778;RPL=0;RPP=5514.21;RPPR=3863.89;RPR=2538;RUN=1;SAF=2538;SAP=5514.21;SAR=0;SRF=1778;SRP=3863.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:210:115,95:115:4072:95:3357:-239.073,0,-303.455 0/1:217:84,133:84:2939:133:4753:-362.486,0,-199.411 0/1:169:79,90:79:2820:90:3228:-239.83,0,-203.166 1/1:245:0,245:0:0:245:8685:-781.613,-73.7524,0 0/1:513:287,226:287:10211:226:8003:-565.796,0,-764.494 0/1:163:68,95:68:2394:95:3370:-254.439,0,-166.647 0/1:304:159,145:159:5629:145:5155:-372.519,0,-415.224 0/0:260:260,0:260:9194:0:0:0,-78.2678,-827.444 0/1:376:186,190:186:6579:190:6786:-497.13,0,-479.007 0/1:15:12,3:12:428:3:108:-5.55972,0,-34.3424 0/1:30:22,8:22:777:8:284:-16.8725,0,-61.2195 0/1:58:31,27:31:1104:27:942:-67.6219,0,-82.2109 1/1:269:0,269:0:0:269:9606:-864.44,-80.9771,0 1/1:195:0,195:0:0:195:6977:-627.466,-58.7009,0 0/1:443:231,212:231:8166:212:7532:-544.535,0,-601.609 0/1:197:88,109:88:3105:109:3848:-287.194,0,-220.376 0/1:141:75,66:75:2652:66:2368:-170.933,0,-196.483 0/1:66:31,35:31:1093:35:1248:-92.7569,0,-78.8097 0/1:115:37,78:37:1312:78:2792:-216.899,0,-83.7632 1/1:269:13,256:13:460:256:9064:-773.952,-39.2417,0 1/1:61:0,61:0:0:61:2188:-196.973,-18.3628,0 chr02 22787926 . TCAC TC 3642.5 PASS AB=0.291071;ABP=2257.82;AC=20;AF=0.47619;AN=42;AO=1731;CIGAR=1M2D1M;DP=6210;DPB=5344.5;DPRA=1.13061;EPP=3761.83;EPPR=9718.18;GTI=9;LEN=2;MEANALT=1.25;MQM=24.0479;MQMR=57.96;NS=21;NUMALT=1;ODDS=0.552393;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60420;QR=155356;RO=4474;RPL=2;RPP=3744.48;RPPR=8042.85;RPR=1729;RUN=1;SAF=2;SAP=3744.48;SAR=1729;SRF=4272;SRP=8042.85;SRR=202;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:294:212,82:212:7295:82:2905:-91.2835,0,-568.102 0/1:263:208,53:208:7248:53:1846:-20.4459,0,-573.475 0/1:255:167,88:167:5826:88:3086:-115.466,0,-447.684 0/1:386:242,144:242:8326:144:5054:-197.896,0,-633.163 0/1:624:514,110:514:17807:110:3864:-51.2603,0,-1414.44 0/1:245:158,87:158:5443:87:3020:-87.4827,0,-416.249 0/1:421:288,133:288:10054:133:4601:-123.616,0,-778.063 0/0:263:263,0:263:9219:0:0:0,-79.1709,-827.455 0/1:633:489,144:489:16991:144:5004:-149.614,0,-1169.2 0/1:32:15,17:15:526:17:581:-24.3153,0,-38.037 0/1:41:28,13:28:988:13:441:-11.7961,0,-76.891 0/1:89:59,30:59:2050:30:1056:-33.07,0,-157.972 0/1:425:269,156:269:9373:156:5440:-211.195,0,-715.585 0/1:322:193,129:193:6598:129:4556:-185.081,0,-496.979 0/1:622:446,176:446:15548:176:6218:-197.617,0,-1211.8 0/1:303:249,54:249:8691:54:1901:-35.6007,0,-609.034 0/1:221:179,41:179:6195:41:1434:-30.9691,0,-433.453 0/1:116:67,49:67:2310:49:1681:-63.2755,0,-172.304 0/1:171:116,55:116:4007:55:1874:-67.1161,0,-309.35 0/1:377:260,116:260:9040:116:4014:-118.776,0,-700.025 0/1:107:52,54:52:1821:54:1844:-68.9746,0,-131.887 chr02 22820898 . T A 30293.7 PASS AB=0.512837;ABP=5.29599;AC=25;AF=0.595238;AN=42;AO=1377;CIGAR=1X;DP=2328;DPB=2328;DPRA=0;EPP=2729.93;EPPR=1920.89;GTI=0;LEN=1;MEANALT=1.04762;MQM=37.6231;MQMR=48.9632;NS=21;NUMALT=1;ODDS=26.0244;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48857;QR=33807;RO=950;RPL=742;RPP=21.0649;RPPR=39.299;RPR=635;RUN=1;SAF=773;SAP=48.0498;SAR=604;SRF=555;SRP=61.5258;SRR=395;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:71,55:71:2531:55:1944:-118.932,0,-186.66 0/1:140:78,62:78:2775:62:2192:-123.635,0,-194.035 0/1:94:46,48:46:1630:48:1716:-109.983,0,-117.598 1/1:74:0,74:0:0:74:2648:-215.665,-22.2762,0 0/1:173:90,83:90:3215:83:2931:-185.133,0,-232.361 0/1:76:34,42:34:1220:42:1500:-89.381,0,-82.6125 0/1:167:80,87:80:2855:87:3104:-185.998,0,-198.233 0/0:171:169,1:169:5998:1:36:0,-47.9171,-523.198 0/1:176:83,93:83:2952:93:3320:-219.349,0,-208.752 0/1:26:13,13:13:452:13:449:-28.7555,0,-32.2655 0/1:15:5,10:5:180:10:360:-24.0473,0,-11.8419 0/1:24:15,9:15:525:9:320:-18.6452,0,-39.5436 1/1:142:0,142:0:0:142:5046:-407.546,-42.7463,0 1/1:138:1,137:1:32:137:4831:-393.034,-38.3835,0 0/1:148:78,70:78:2787:70:2480:-154.666,0,-200.534 0/1:36:14,22:14:504:22:780:-52.4804,0,-34.0715 0/1:24:13,11:13:460:11:379:-25.0815,0,-34.0134 0/1:221:107,114:107:3813:114:4042:-253.427,0,-269.723 0/1:151:51,100:51:1806:100:3551:-248.161,0,-115.613 1/1:83:2,81:2:72:81:2860:-219.158,-18.2433,0 1/1:123:0,123:0:0:123:4368:-344.071,-37.0267,0 chr02 22846350 . C T 14984.9 PASS AB=0.435573;ABP=48.6181;AC=25;AF=0.595238;AN=42;AO=837;CIGAR=1X;DP=1666;DPB=1666;DPRA=0.69375;EPP=1820.53;EPPR=1803.16;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.69406;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29710;QR=29380;RO=829;RPL=837;RPP=1820.53;RPPR=1803.16;RPR=0;RUN=1;SAF=837;SAP=1820.53;SAR=0;SRF=829;SRP=1803.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:69,47:69:2458:47:1683:-116.837,0,-186.554 0/1:70:45,25:45:1583:25:887:-59.076,0,-121.685 0/1:48:20,28:20:720:28:983:-74.3331,0,-50.6793 1/1:43:0,43:0:0:43:1536:-138.533,-12.9443,0 0/1:215:131,84:131:4604:84:2988:-204.429,0,-349.804 0/1:41:26,15:26:928:15:540:-36.5943,0,-71.496 0/1:113:61,52:61:2192:52:1855:-133.213,0,-163.529 0/0:112:112,0:112:3958:0:0:0,-33.7154,-356.412 0/1:153:91,62:91:3250:62:2184:-150.768,0,-246.663 0/1:12:5,7:5:180:7:243:-18.5951,0,-12.9397 0/1:5:3,2:3:99:2:72:-5.33157,0,-7.73143 0/1:31:12,19:12:428:19:684:-52.5584,0,-29.5269 1/1:98:1,97:1:36:97:3468:-308.734,-25.9027,0 1/1:55:0,55:0:0:55:1941:-174.964,-16.5567,0 0/1:148:102,46:102:3615:46:1625:-101.984,0,-281.003 0/1:37:18,19:18:622:19:672:-49.6682,0,-45.1639 0/1:55:35,20:35:1256:20:716:-48.2111,0,-96.7886 0/1:125:66,59:66:2307:59:2084:-150.199,0,-170.261 0/1:96:30,66:30:1072:66:2317:-179.892,0,-67.8936 1/1:43:2,41:2:72:41:1452:-124.139,-6.10757,0 1/1:50:0,50:0:0:50:1780:-160.483,-15.0515,0 chr02 23204012 . T C 20448 PASS AB=0.522881;ABP=9.07185;AC=17;AF=0.404762;AN=42;AO=865;CIGAR=1X;DP=2066;DPB=2066;DPRA=0.86452;EPP=1881.33;EPPR=2597.93;GTI=0;LEN=1;MEANALT=1.05882;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=22.0777;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30477;QR=42443;RO=1199;RPL=425;RPP=3.57513;RPPR=44.3045;RPR=440;RUN=1;SAF=425;SAP=3.57513;SAR=440;SRF=523;SRP=45.4056;SRR=676;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:132:56,76:56:1992:76:2693:-202.878,0,-139.818 0/1:69:38,31:38:1359:31:1107:-79.1691,0,-101.839 0/1:93:54,39:54:1915:39:1391:-97.4925,0,-144.631 0/0:90:90,0:90:3192:0:0:0,-27.0927,-287.506 0/1:126:58,68:58:2066:68:2405:-178.776,0,-148.28 0/1:61:23,38:23:813:38:1334:-101.995,0,-55.1263 0/1:125:53,72:53:1888:72:2521:-189.511,0,-132.57 1/1:170:2,167:2:72:167:5894:-523.74,-44.3972,0 0/1:122:54,68:54:1904:68:2402:-179.708,0,-134.91 0/1:10:5,5:5:176:5:180:-13.5418,0,-13.1747 0/1:14:8,6:8:284:6:197:-13.8369,0,-21.6889 0/1:32:16,16:16:559:16:553:-40.461,0,-41.0046 0/0:131:131,0:131:4640:0:0:0,-39.4349,-417.763 0/0:125:125,0:125:4431:0:0:0,-37.6287,-398.963 0/1:144:67,77:67:2383:77:2729:-202.503,0,-171.379 0/1:71:38,33:38:1360:33:1167:-83.9633,0,-101.327 0/1:49:28,21:28:987:21:743:-52.4429,0,-74.3926 0/1:164:64,100:64:2245:100:3470:-263.146,0,-152.944 0/1:121:74,47:74:2612:47:1655:-112.812,0,-198.903 0/0:96:95,0:95:3364:0:0:0,-28.5978,-302.617 0/0:121:120,1:120:4201:1:36:0,-32.8264,-374.678 chr02 23204030 . G A 11872.3 PASS AB=0.496394;ABP=3.10426;AC=17;AF=0.404762;AN=42;AO=481;CIGAR=1X;DP=1242;DPB=1242;DPRA=0.822368;EPP=14.7525;EPPR=38.851;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.45335;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17139;QR=27114;RO=760;RPL=265;RPP=13.8496;RPPR=117.298;RPR=216;RUN=1;SAF=50;SAP=658.339;SAR=431;SRF=44;SRP=1293.28;SRR=716;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:19,31:19:675:31:1108:-84.9795,0,-46.0255 0/1:27:16,11:16:572:11:396:-27.8549,0,-43.6856 0/1:43:27,16:27:964:16:576:-39.2307,0,-74.1325 0/0:73:73,0:73:2595:0:0:0,-21.9752,-233.799 0/1:81:40,41:40:1403:41:1456:-106.953,0,-102.18 0/1:28:13,15:13:468:15:540:-40.5077,0,-34.0308 0/1:88:38,50:38:1351:50:1792:-135.072,0,-95.399 1/1:68:0,68:0:0:68:2421:-218.145,-20.47,0 0/1:113:54,59:54:1932:59:2086:-153.994,0,-140.14 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:22:9,13:9:324:13:468:-35.837,0,-22.8832 0/0:68:68,0:68:2422:0:0:0,-20.47,-218.235 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 0/1:85:39,45:39:1383:45:1611:-119.78,0,-99.2679 0/1:65:35,30:35:1234:30:1060:-76.1443,0,-91.7957 0/1:47:31,16:31:1116:16:564:-36.9419,0,-86.6033 0/1:100:45,55:45:1599:55:1945:-145.221,0,-114.096 0/1:73:47,26:47:1688:26:936:-62.5843,0,-130.232 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/0:80:80,0:80:2872:0:0:0,-24.0824,-258.716 chr02 23204780 . CGAG TGAG,TGAA 124217 PASS AB=0.497876,0.498786;ABP=3.13943,3.05246;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2873,1824;CIGAR=1X3M,1X2M1X;DP=4715;DPB=4716;DPRA=1.26704,0.878573;EPP=6241.65,3963.78;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.65,2.58824;MQM=59.9791,59.9688;MQMR=0;NS=21;NUMALT=2;ODDS=46.7499;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=70,70;PQR=0;PRO=0;QA=101852,63707;QR=0;RO=0;RPL=1275,779;RPP=81.8643,87.2453;RPPR=0;RPR=1598,1045;RUN=1,1;SAF=1275,779;SAP=81.8643,87.2453;SAR=1598,1045;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:218:0,109,109:0:0:109,109:3879,3791:-624.697,-308.583,-275.77,-316.466,0,-283.654 1/2:197:0,111,85:0:0:111,85:3904,2988:-560.991,-243.202,-209.787,-317.781,0,-292.193 1/2:197:0,109,85:0:0:109,85:3862,2968:-556.033,-241.422,-208.609,-314.616,0,-289.029 1/1:244:0,243,1:0:0:243,1:8624,36:-775.801,-73.1503,0,-772.863,-69.853,-772.562 1/2:528:0,250,278:0:0:250,278:8863,9716:-1512.78,-790.727,-715.47,-722.404,0,-638.718 1/2:233:0,110,123:0:0:110,123:3895,4265:-664.284,-347.004,-313.89,-317.631,0,-280.605 1/2:337:0,159,177:0:0:159,177:5646,6164:-961.389,-501.342,-453.478,-460.148,0,-406.866 2/2:179:0,0,179:0:0:0,179:0,6283:-565.576,-565.576,-565.576,-53.8844,-53.8844,0 1/2:381:0,190,190:0:0:190,190:6696,6675:-1088.37,-543.213,-486.018,-545.093,0,-487.898 1/2:29:0,12,17:0:0:12,17:428,599:-84.0133,-49.1215,-45.5092,-35.2464,0,-30.1289 1/2:17:0,8,9:0:0:8,9:288,322:-50.0587,-26.5614,-24.1532,-23.8065,0,-21.0972 1/2:51:0,25,26:0:0:25,26:896,927:-148.998,-75.9211,-68.3954,-73.4346,0,-65.6078 1/1:322:0,320,0:0:0:320,0:11392,0:-1024.88,-96.3296,0,-1024.88,-96.3296,-1024.88 1/1:298:0,296,0:0:0:296,0:10421,0:-937.476,-89.1049,0,-937.476,-89.1049,-937.476 1/2:359:0,174,183:0:0:174,183:6163,6403:-1022.97,-520.93,-468.551,-502.04,0,-446.951 1/2:202:0,77,125:0:0:77,125:2741,4318:-574.501,-351.112,-327.933,-223.682,0,-186.053 1/2:132:0,61,71:0:0:61,71:2160,2475:-377.584,-201.632,-183.269,-176.304,0,-154.931 1/2:259:0,141,116:0:0:141,116:5002,4024:-734.689,-327.161,-284.716,-407.601,0,-372.682 1/2:156:0,105,50:0:0:105,50:3760,1753:-449.36,-142.721,-111.112,-306.711,0,-291.659 1/1:247:0,245,0:0:0:245,0:8686,0:-781.438,-73.7524,0,-781.438,-73.7524,-781.438 1/1:129:0,128,0:0:0:128,0:4546,0:-408.948,-38.5318,0,-408.948,-38.5318,-408.948 chr02 23204819 . C T 33181.9 PASS AB=0.493963;ABP=3.58713;AC=25;AF=0.595238;AN=42;AO=1672;CIGAR=1X;DP=2696;DPB=2696;DPRA=1.27157;EPP=3625.03;EPPR=2226.6;GTI=0;LEN=1;MEANALT=1;MQM=59.9767;MQMR=59.96;NS=21;NUMALT=1;ODDS=2.63313;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59950;QR=36520;RO=1024;RPL=1671;RPP=3625.03;RPPR=2226.6;RPR=1;RUN=1;SAF=0;SAP=3633.71;SAR=1672;SRF=0;SRP=2226.6;SRR=1024;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:66,45:66:2364:45:1607:-111.506,0,-179.604 0/1:120:58,62:58:2072:62:2220:-163.94,0,-150.582 0/1:92:34,58:34:1220:58:2088:-160.495,0,-82.412 1/1:182:0,182:0:0:182:6536:-588.32,-54.7875,0 0/1:312:172,140:172:6141:140:5007:-356.855,0,-458.868 0/1:143:77,66:77:2739:66:2372:-170.69,0,-203.688 0/1:188:102,86:102:3617:86:3096:-222.273,0,-269.143 0/0:102:102,0:102:3655:0:0:0,-30.7051,-329.153 0/1:190:102,88:102:3656:88:3163:-227.698,0,-272.037 0/1:13:7,6:7:239:6:216:-15.8771,0,-17.9293 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:23:11,12:11:392:12:428:-31.9351,0,-28.6964 1/1:201:0,201:0:0:201:7205:-648.499,-60.507,0 1/1:200:0,200:0:0:200:7182:-646.432,-60.206,0 0/1:198:93,105:93:3320:105:3760:-278.996,0,-239.413 0/1:132:76,56:76:2713:56:2008:-141.127,0,-204.675 0/1:87:49,38:49:1735:38:1364:-96.8711,0,-130.244 0/1:121:47,74:47:1670:74:2644:-201.773,0,-114.161 0/1:87:26,61:26:915:61:2172:-169.555,0,-56.476 1/1:117:0,117:0:0:117:4190:-377.281,-35.2205,0 1/1:72:0,72:0:0:72:2584:-232.809,-21.6742,0 chr02 23204831 . T C 17964.4 PASS AB=0.506288;ABP=3.63835;AC=17;AF=0.404762;AN=42;AO=1028;CIGAR=1X;DP=2706;DPB=2706;DPRA=0.778629;EPP=2235.28;EPPR=3644.57;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.964;MQMR=59.9499;NS=21;NUMALT=1;ODDS=2.67839;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36679;QR=60010;RO=1677;RPL=1028;RPP=2235.28;RPPR=3644.57;RPR=0;RUN=1;SAF=0;SAP=2235.28;SAR=1028;SRF=0;SRP=3644.57;SRR=1677;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:45,65:45:1616:65:2324:-176.307,0,-112.617 0/1:120:63,57:63:2264:57:2036:-147.344,0,-167.899 0/1:92:56,36:56:2004:36:1269:-86.816,0,-152.939 0/0:184:184,0:184:6596:0:0:0,-55.3895,-593.719 0/1:312:140,171:140:5024:171:6138:-458.537,0,-358.325 0/1:147:69,78:69:2450:78:2764:-204.741,0,-176.5 0/1:190:86,104:86:3076:104:3643:-270.881,0,-219.873 1/1:102:0,102:0:0:102:3648:-328.525,-30.7051,0 0/1:190:90,100:90:3216:100:3570:-264.31,0,-232.454 0/1:14:6,8:6:212:8:284:-21.6889,0,-15.2104 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:23:12,11:12:432:11:396:-29.0591,0,-32.2975 0/0:200:200,0:200:7152:0:0:0,-60.206,-643.737 0/0:201:201,0:201:7205:0:0:0,-60.507,-647.483 0/1:201:104,97:104:3728:97:3468:-251.825,0,-275.214 0/1:130:56,74:56:2004:74:2664:-200.87,0,-141.37 0/1:86:38,48:38:1356:48:1720:-129.197,0,-96.4519 0/1:121:74,47:74:2645:47:1683:-115.333,0,-201.857 0/1:88:60,28:60:2152:28:1000:-63.8247,0,-167.457 0/0:118:118,0:118:4186:0:0:0,-35.5215,-376.922 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.809 chr02 23289862 . T C 21155.8 PASS AB=0.525122;ABP=9.77459;AC=25;AF=0.595238;AN=42;AO=1089;CIGAR=1X;DP=1740;DPB=1740;DPRA=1.35323;EPP=2359.07;EPPR=1407.97;GTI=0;LEN=1;MEANALT=1;MQM=59.6924;MQMR=59.9416;NS=21;NUMALT=1;ODDS=9.39521;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38856;QR=23340;RO=651;RPL=1088;RPP=2359.07;RPPR=1407.97;RPR=1;RUN=1;SAF=0;SAP=2367.74;SAR=1089;SRF=0;SRP=1416.64;SRR=651;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:65,78:65:2321:78:2793:-208.559,0,-166.101 0/1:48:27,21:27:972:21:747:-53.1049,0,-73.3485 0/1:61:11,50:11:396:50:1770:-141.205,0,-17.6199 1/1:115:0,115:0:0:115:4085:-367.822,-34.6185,0 0/1:272:144,128:144:5161:128:4555:-328.145,0,-382.748 0/1:71:34,37:34:1216:37:1324:-98.0726,0,-88.3734 0/1:132:54,78:54:1944:78:2804:-212.839,0,-134.562 0/0:62:62,0:62:2202:0:0:0,-18.6639,-198.442 0/1:175:98,77:98:3520:77:2743:-194.426,0,-264.328 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:20:14,6:14:504:6:216:-13.7699,0,-39.6775 1/1:117:0,117:0:0:117:4167:-375.158,-35.2205,0 1/1:77:0,77:0:0:77:2738:-246.651,-23.1793,0 0/1:87:43,44:43:1548:44:1580:-116.112,0,-113.421 0/1:46:20,26:20:720:26:921:-69.3578,0,-51.2814 0/1:86:37,49:37:1332:49:1756:-132.433,0,-94.2938 0/1:35:19,16:19:680:16:570:-40.7186,0,-50.9931 0/1:39:12,27:12:428:27:972:-76.0577,0,-27.1186 1/1:100:3,97:3:108:97:3465:-301.9,-20.0278,0 1/1:35:0,35:0:0:35:1254:-113.108,-10.5361,0 chr02 23291571 . T A 19666.8 PASS AB=0.389544;ABP=272.604;AC=17;AF=0.404762;AN=42;AO=1017;CIGAR=1X;DP=3129;DPB=3129;DPRA=1.9154;EPP=2211.4;EPPR=4582.65;GTI=1;LEN=1;MEANALT=1.15789;MQM=59.943;MQMR=60;NS=21;NUMALT=1;ODDS=1.22652;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36436;QR=75352;RO=2109;RPL=829;RPP=880.313;RPPR=1170.83;RPR=188;RUN=1;SAF=829;SAP=880.313;SAR=188;SRF=1587;SRP=1170.83;SRR=522;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:55,31:55:1967:31:1112:-74.5028,0,-151.416 0/1:132:77,55:77:2768:55:1972:-138.019,0,-209.625 0/1:49:34,15:34:1224:15:534:-33.6432,0,-95.7166 0/0:131:130,1:130:4653:1:36:0,-35.8367,-415.332 0/1:213:116,97:116:4145:97:3473:-248.649,0,-309.113 0/1:60:51,9:51:1808:9:324:-11.4441,0,-144.937 0/1:122:79,43:79:2816:43:1544:-102.527,0,-216.952 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 0/1:123:72,51:72:2542:51:1836:-128.494,0,-192.002 0/1:435:284,151:284:10156:151:5413:-356.123,0,-783.022 0/1:534:340,193:340:12138:193:6900:-460.256,0,-931.46 0/1:33:26,7:26:932:7:248:-12.7302,0,-74.2649 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 0/0:121:120,1:120:4290:1:36:0,-32.8264,-382.678 0/1:125:79,45:79:2836:45:1616:-108.042,0,-217.79 0/1:53:27,26:27:964:26:932:-68.2443,0,-71.1222 0/1:52:33,19:33:1184:19:676:-45.5144,0,-91.2148 0/1:470:234,235:234:8365:235:8420:-616.299,0,-611.353 0/1:57:43,14:43:1502:14:504:-28.5394,0,-118.31 0/0:148:146,2:146:5229:2:72:0,-37.7157,-463.909 0/0:91:91,0:91:3245:0:0:0,-27.3937,-292.27 chr02 23291582 . C T 19816.2 PASS AB=0.392003;ABP=261.443;AC=17;AF=0.404762;AN=42;AO=1026;CIGAR=1X;DP=3132;DPB=3132;DPRA=1.60884;EPP=880.776;EPPR=1173.05;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.9922;MQMR=59.9905;NS=21;NUMALT=1;ODDS=2.14877;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36578;QR=74408;RO=2105;RPL=1025;RPP=2222.26;RPPR=4573.96;RPR=1;RUN=1;SAF=836;SAP=886.237;SAR=190;SRF=1585;SRP=1173.05;SRR=520;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:55,33:55:1972:33:1188:-80.738,0,-151.264 0/1:134:79,55:79:2768:55:1976:-137.777,0,-209.022 0/1:49:34,15:34:1179:15:532:-33.4626,0,-91.6604 0/0:130:130,0:130:4626:0:0:0,-39.1339,-416.505 0/1:216:116,100:116:4114:100:3579:-257.294,0,-305.368 0/1:59:50,9:50:1783:9:320:-11.3816,0,-142.991 0/1:121:79,42:79:2797:42:1503:-99.1392,0,-215.546 1/1:23:0,23:0:0:23:820:-74.1225,-6.92369,0 0/1:124:72,52:72:2572:52:1842:-128.731,0,-194.402 0/1:437:286,151:286:10097:151:5373:-352.154,0,-777.125 0/1:534:336,197:336:11829:197:7030:-471.947,0,-903.683 0/1:34:27,7:27:959:7:252:-12.7939,0,-76.3904 0/0:74:74,0:74:2604:0:0:0,-22.2762,-234.605 0/0:118:117,1:117:4078:1:36:0,-31.9233,-363.61 0/1:126:81,45:81:2881:45:1620:-108.16,0,-221.596 0/1:52:27,25:27:968:25:878:-63.6823,0,-71.7838 0/1:52:32,20:32:1123:20:712:-48.7531,0,-85.7236 0/1:468:234,234:234:8225:234:8305:-606.582,0,-599.392 0/1:57:42,15:42:1500:15:540:-31.7778,0,-118.136 0/0:146:144,2:144:5138:2:72:0,-37.1137,-455.726 0/0:90:90,0:90:3195:0:0:0,-27.0927,-287.775 chr02 23322609 . T C 29468.7 PASS AB=0.540892;ABP=49.8947;AC=21;AF=0.5;AN=42;AO=1746;CIGAR=1X;DP=3228;DPB=3228;DPRA=0;EPP=3794.4;EPPR=3013.88;GTI=0;LEN=1;MEANALT=1.04762;MQM=47.4129;MQMR=56.9635;NS=21;NUMALT=1;ODDS=24.0364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62446;QR=53009;RO=1481;RPL=0;RPP=3794.4;RPPR=3218.96;RPR=1746;RUN=1;SAF=1746;SAP=3794.4;SAR=0;SRF=1457;SRP=3013.88;SRR=24;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:243:107,136:107:3809:136:4868:-355.434,0,-265.601 0/1:124:61,63:61:2184:63:2248:-162.357,0,-152.58 0/1:210:79,131:79:2824:131:4712:-354.184,0,-184.457 0/1:151:58,93:58:2068:93:3327:-242.787,0,-128.777 0/1:314:124,190:124:4420:190:6781:-505.56,0,-296.548 0/1:150:63,87:63:2252:87:3116:-231.407,0,-156.643 0/1:179:76,103:76:2728:103:3688:-273.223,0,-191.05 0/1:209:97,112:97:3484:112:4004:-296.434,0,-245.358 0/1:281:139,142:139:4968:142:5100:-366.403,0,-359.744 0/1:26:10,16:10:360:16:576:-44.0924,0,-23.2642 0/1:15:4,11:4:144:11:388:-30.2202,0,-8.79817 0/1:48:24,24:24:864:24:860:-63.0283,0,-63.6308 0/1:216:100,116:100:3588:116:4160:-295.234,0,-249.901 0/1:203:89,114:89:3200:114:4080:-292.577,0,-225.389 0/1:154:93,60:93:3328:60:2152:-144.352,0,-253.265 0/1:102:42,60:42:1508:60:2148:-160.037,0,-103.927 0/1:125:53,72:53:1900:72:2584:-193.118,0,-132.112 0/1:191:109,82:109:3900:82:2924:-204.329,0,-282.424 0/1:86:54,32:54:1928:32:1082:-70.2481,0,-141.268 0/1:123:53,70:53:1900:70:2508:-187.828,0,-126.06 0/1:78:46,32:46:1652:32:1140:-76.7854,0,-125.451 chr02 23322620 . G A 21780.9 PASS AB=0.419549;ABP=189.937;AC=21;AF=0.5;AN=42;AO=1395;CIGAR=1X;DP=3325;DPB=3325;DPRA=0;EPP=3032.21;EPPR=3988.08;GTI=0;LEN=1;MEANALT=1;MQM=59.1362;MQMR=45.9606;NS=21;NUMALT=1;ODDS=10.1229;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49778;QR=68622;RO=1930;RPL=0;RPP=3032.21;RPPR=4193.95;RPR=1395;RUN=1;SAF=1395;SAP=3032.21;SAR=0;SRF=1906;SRP=3988.08;SRR=24;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:253:146,107:146:5214:107:3798:-265.659,0,-379.99 0/1:125:71,54:71:2518:54:1913:-134.817,0,-177.692 0/1:218:141,77:141:5030:77:2752:-179.916,0,-375.765 0/1:161:110,51:110:3918:51:1828:-116.107,0,-280.147 0/1:322:204,118:204:7263:118:4217:-282.176,0,-537.877 0/1:151:91,60:91:3244:60:2141:-147.095,0,-242.254 0/1:184:109,75:109:3841:75:2681:-186.056,0,-281.933 0/1:217:123,94:123:4348:94:3372:-238.022,0,-316.235 0/1:289:155,134:155:5538:134:4793:-344.422,0,-390.352 0/1:26:17,9:17:608:9:324:-21.6683,0,-45.6868 0/1:17:13,4:13:464:4:144:-8.19611,0,-35.0667 0/1:55:29,26:29:1044:26:921:-66.6355,0,-76.4994 0/1:217:120,97:120:4285:97:3461:-245.512,0,-300.528 0/1:209:120,89:120:4289:89:3196:-224.568,0,-304.313 0/1:157:61,96:61:2192:96:3406:-259.177,0,-147.06 0/1:112:68,44:68:2425:44:1565:-107.389,0,-177.293 0/1:129:77,52:77:2753:52:1872:-129.752,0,-204.102 0/1:192:114,78:114:4059:78:2754:-189.991,0,-296.157 0/1:90:52,38:52:1708:38:1359:-95.4807,0,-114.923 0/1:122:75,47:75:2684:47:1669:-113.712,0,-195.347 0/1:79:34,45:34:1197:45:1612:-121.56,0,-79.0174 chr02 23322633 . G A 28.7988 PASS AB=0.165493;ABP=279.032;AC=2;AF=0.047619;AN=42;AO=67;CIGAR=1X;DP=3261;DPB=3261;DPRA=1.62783;EPP=17.3031;EPPR=6798.24;GTI=1;LEN=1;MEANALT=1.1;MQM=34.2239;MQMR=51.8287;NS=21;NUMALT=1;ODDS=3.73128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2395;QR=114047;RO=3193;RPL=67;RPP=148.499;RPPR=6798.24;RPR=0;RUN=1;SAF=44;SAP=17.3031;SAR=23;SRF=3193;SRP=6936.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:247:245,2:245:8764:2:72:0,-68.2979,-773.464 0/0:122:119,3:119:4252:3:108:0,-27.8003,-364.873 0/0:213:213,0:213:7600:0:0:0,-64.1194,-671.365 0/0:156:154,2:154:5487:2:72:0,-40.9042,-463.709 0/0:313:310,3:310:11071:3:108:0,-85.297,-968.753 0/0:146:145,1:145:5168:1:36:0,-40.7628,-457.753 0/0:181:179,2:179:6397:2:72:0,-48.4299,-561.867 0/0:210:206,3:206:7326:3:108:0,-54.3386,-641.596 0/0:287:283,4:283:10127:4:144:0,-74.6014,-877.796 0/0:26:26,0:26:936:0:0:0,-7.82678,-82.6622 0/0:16:16,0:16:576:0:0:0,-4.81648,-50.2288 0/0:54:54,0:54:1944:0:0:0,-16.2556,-174.006 0/0:216:216,0:216:7704:0:0:0,-65.0225,-672.795 0/0:204:204,0:204:7299:0:0:0,-61.4101,-639.146 0/0:150:150,0:150:5354:0:0:0,-45.1545,-478.926 0/0:108:108,0:108:3861:0:0:0,-32.5112,-340.994 0/0:126:126,0:126:4512:0:0:0,-37.9298,-401.14 0/1:193:162,31:162:5778:31:1099:-30.5923,0,-459.922 0/1:91:75,16:75:2669:16:576:-19.2512,0,-204.385 0/0:123:123,0:123:4400:0:0:0,-37.0267,-386.102 0/0:79:79,0:79:2822:0:0:0,-23.7814,-247.583 chr02 23322641 . C T 21849.4 PASS AB=0.420224;ABP=185.596;AC=21;AF=0.5;AN=42;AO=1388;CIGAR=1X;DP=3303;DPB=3303;DPRA=0;EPP=3008.33;EPPR=3581.49;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.1369;MQMR=45.908;NS=21;NUMALT=1;ODDS=11.9101;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49630;QR=67861;RO=1914;RPL=1387;RPP=3008.33;RPPR=3777.53;RPR=1;RUN=1;SAF=1388;SAP=3017.01;SAR=0;SRF=1890;SRP=3953.36;SRR=24;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:252:146,106:146:5204:106:3786:-264.808,0,-379.676 0/1:126:72,54:72:2558:54:1936:-136.587,0,-181.519 0/1:217:141,76:141:5018:76:2706:-176.087,0,-373.731 0/1:158:107,50:107:3810:50:1796:-114.18,0,-272.648 0/1:314:199,115:199:7023:115:4093:-273.428,0,-518.332 0/1:152:92,60:92:3262:60:2151:-147.695,0,-243.314 0/1:182:107,75:107:3790:75:2694:-187.835,0,-277.962 0/1:215:122,93:122:4326:93:3343:-236.022,0,-316.603 0/1:287:154,133:154:5491:133:4759:-341.98,0,-387.617 0/1:26:17,9:17:608:9:324:-21.6683,0,-45.3408 0/1:15:11,4:11:368:4:144:-8.79817,0,-27.0564 0/1:55:29,26:29:1027:26:916:-66.1947,0,-74.9813 0/1:218:121,97:121:4316:97:3476:-246.509,0,-301.895 0/1:206:116,90:116:4081:90:3204:-226.347,0,-287.753 0/1:156:61,95:61:2167:95:3398:-258.847,0,-145.127 0/1:111:67,44:67:2384:44:1582:-109.225,0,-172.922 0/1:127:75,52:75:2684:52:1852:-128.562,0,-199.947 0/1:191:114,77:114:3991:77:2746:-189.778,0,-291.121 0/1:93:55,38:55:1926:38:1360:-94.6732,0,-134.565 0/1:123:75,48:75:2655:48:1712:-117.281,0,-192.492 0/1:79:33,46:33:1172:46:1652:-125.148,0,-75.8129 chr02 23322644 . C T 9604.92 PASS AB=0.308973;ABP=783.683;AC=16;AF=0.380952;AN=42;AO=763;CIGAR=1X;DP=3247;DPB=3247;DPRA=1.33657;EPP=1659.84;EPPR=5394.78;GTI=3;LEN=1;MEANALT=1.05556;MQM=53.9843;MQMR=51.124;NS=21;NUMALT=1;ODDS=11.5847;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27317;QR=88454;RO=2483;RPL=763;RPP=1659.84;RPPR=5394.78;RPR=0;RUN=1;SAF=763;SAP=1659.84;SAR=0;SRF=2483;SRP=5394.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:251:172,79:172:6119:79:2833:-177.09,0,-463.1 0/1:123:91,32:91:3218:32:1130:-64.6323,0,-242.579 0/1:215:134,81:134:4782:81:2912:-197.382,0,-352.823 0/0:156:156,0:156:5535:0:0:0,-46.9607,-474.869 0/1:313:209,104:209:7456:104:3736:-241.898,0,-558.551 0/1:147:101,46:101:3624:46:1652:-104.226,0,-278.18 0/1:184:136,48:136:4847:48:1692:-96.6818,0,-373.823 0/1:211:100,111:100:3549:111:3973:-293.543,0,-248.05 0/1:287:214,73:214:7663:73:2601:-147.698,0,-582.205 0/1:26:21,5:21:756:5:180:-8.68152,0,-58.6843 0/1:17:13,4:13:464:4:144:-8.15248,0,-35.0679 0/1:55:39,16:39:1391:16:572:-35.1689,0,-107.799 0/0:218:217,1:217:7708:1:36:0,-62.0289,-668.517 0/0:206:204,1:204:7249:1:36:0,-58.4194,-630.258 0/1:153:117,36:117:4184:36:1292:-70.4135,0,-327.636 0/1:113:91,22:91:3260:22:788:-37.1145,0,-250.876 0/1:129:87,42:87:3093:42:1508:-97.0486,0,-234.727 0/1:164:115,49:115:4087:49:1764:-108.343,0,-317.618 0/1:75:62,13:62:2215:13:468:-19.8464,0,-168.606 0/0:123:123,0:123:4397:0:0:0,-37.0267,-387.803 0/0:81:81,0:81:2857:0:0:0,-24.3834,-250.718 chr02 23322649 . GCA ACT 21247.5 PASS AB=0.423807;ABP=167.8;AC=21;AF=0.5;AN=42;AO=1385;CIGAR=1X1M1X;DP=3268;DPB=3268.33;DPRA=0;EPP=3010.5;EPPR=3926.86;GTI=0;LEN=3;MEANALT=2.33333;MQM=59.1394;MQMR=46.9579;NS=21;NUMALT=1;ODDS=13.6739;PAIRED=0;PAIREDR=0;PAO=1;PQA=32;PQR=0;PRO=0;QA=48609;QR=62627;RO=1807;RPL=1385;RPP=3010.5;RPPR=3926.86;RPR=0;RUN=1;SAF=1385;SAP=3010.5;SAR=0;SRF=1807;SRP=3926.86;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:249:144,104:144:4959:104:3632:-252.101,0,-361.996 0/1:123:69,53:69:2387:53:1889:-133.207,0,-168.6 0/1:219:138,77:138:4789:77:2728:-178.364,0,-357.086 0/1:157:101,49:101:3529:49:1715:-109.091,0,-253.968 0/1:318:194,117:194:6705:117:4078:-272.98,0,-497.602 0/1:151:90,60:90:3143:60:2089:-142.373,0,-234.059 0/1:184:105,75:105:3664:75:2634:-182.795,0,-270.896 0/1:213:115,93:115:3958:93:3282:-232.641,0,-291.481 0/1:288:143,134:143:4997:134:4715:-340.704,0,-358.372 0/1:26:17,9:17:594:9:322:-21.4867,0,-44.089 0/1:17:12,4:12:417:4:136:-7.52358,0,-32.3243 0/1:55:26,26:26:906:26:903:-65.5887,0,-65.6535 0/1:217:118,96:118:4087:96:3356:-236.701,0,-286.53 0/1:208:116,87:116:4009:87:3032:-211.661,0,-286.117 0/1:154:60,94:60:2072:94:3336:-253.95,0,-137.739 0/1:113:60,44:60:2074:44:1566:-109.585,0,-151.452 0/1:129:74,52:74:2558:52:1802:-124.185,0,-189.747 0/1:164:83,78:83:2884:78:2723:-196.417,0,-209.801 0/1:76:34,38:34:1120:38:1343:-99.2087,0,-76.5573 0/1:125:76,48:76:2647:48:1681:-113.913,0,-191.962 0/1:82:32,47:32:1128:47:1647:-124.438,0,-74.008 chr02 23419492 . C T 27384.3 PASS AB=0.444587;ABP=65.5813;AC=22;AF=0.52381;AN=42;AO=1569;CIGAR=1X;DP=4438;DPB=4438;DPRA=0.79053;EPP=3375.4;EPPR=6098.93;GTI=2;LEN=1;MEANALT=1.25;MQM=59.9554;MQMR=59.9899;NS=21;NUMALT=1;ODDS=0.563173;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56138;QR=102254;RO=2863;RPL=1565;RPP=3375.4;RPPR=6098.93;RPR=4;RUN=1;SAF=0;SAP=3410.05;SAR=1569;SRF=0;SRP=6219.94;SRR=2863;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:86,61:86:3050:61:2175:-151.405,0,-230.117 0/1:146:83,63:83:2976:63:2252:-158.993,0,-224.122 0/1:193:110,81:110:3924:81:2895:-202.702,0,-295.498 1/1:135:0,135:0:0:135:4846:-436.292,-40.6391,0 0/1:243:129,114:129:4632:114:4081:-294.313,0,-343.891 0/1:84:48,36:48:1716:36:1292:-91.2963,0,-129.439 0/1:247:150,97:150:5361:97:3472:-238.337,0,-407.949 0/0:264:264,0:264:9437:0:0:0,-79.4719,-849.291 0/1:244:117,127:117:4161:127:4545:-335.764,0,-301.222 0/0:574:558,16:558:19916:16:557:0,-122.336,-1741.51 0/0:281:276,4:276:9876:4:144:0,-71.3346,-875.467 0/0:477:464,13:464:16590:13:468:0,-101.132,-1450.3 1/1:91:0,91:0:0:91:3244:-292.179,-27.3937,0 1/1:105:1,104:1:36:104:3732:-332.482,-28.0099,0 0/1:335:186,149:186:6623:149:5348:-380.606,0,-495.303 0/1:129:61,67:61:2180:67:2408:-178.084,0,-157.575 0/1:143:95,47:95:3408:47:1673:-107.743,0,-263.828 0/1:342:192,150:192:6858:150:5378:-381.198,0,-514.338 0/1:92:41,51:41:1438:51:1824:-136.746,0,-102.017 1/1:85:2,83:2:72:83:2938:-257.816,-18.7508,0 1/1:80:0,80:0:0:80:2866:-258.177,-24.0824,0 chr02 23419501 . C T 59552.5 PASS AB=0.55973;ABP=76.4215;AC=20;AF=0.47619;AN=42;AO=2888;CIGAR=1X;DP=4463;DPB=4463;DPRA=2.29636;EPP=6084.59;EPPR=3364.46;GTI=2;LEN=1;MEANALT=1.5;MQM=59.8532;MQMR=59.9678;NS=21;NUMALT=1;ODDS=0.427378;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=103215;QR=55442;RO=1552;RPL=2844;RPP=5897.87;RPPR=3364.46;RPR=44;RUN=1;SAF=22;SAP=6084.59;SAR=2866;SRF=0;SRP=3373.14;SRR=1552;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:58,89:58:2064:89:3188:-242.835,0,-141.78 0/1:147:61,85:61:2196:85:3044:-229.823,0,-153.595 0/1:196:84,111:84:3016:111:3980:-299.301,0,-212.12 0/0:129:129,0:129:4616:0:0:0,-38.8329,-415.604 0/1:249:113,133:113:4036:133:4760:-354.116,0,-289.016 0/1:88:39,49:39:1385:49:1760:-132.136,0,-98.4562 0/1:248:96,151:96:3416:151:5335:-404.931,0,-232.942 1/1:268:0,268:0:0:268:9589:-862.765,-80.676,0 0/1:237:120,116:120:4296:116:4133:-300.692,0,-315.414 1/1:576:15,558:15:540:558:19902:-1741.77,-123.902,0 1/1:280:4,276:4:144:276:9859:-873.937,-70.9748,0 1/1:479:13,457:13:464:457:16355:-1429.52,-99.7452,0 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.382 0/0:106:105,1:105:3764:1:36:0,-28.3109,-335.361 0/1:342:150,192:150:5334:192:6881:-516.375,0,-377.242 0/1:129:67,62:67:2396:62:2220:-161.232,0,-177.064 0/1:141:46,95:46:1629:95:3400:-263.77,0,-104.393 0/1:351:148,200:148:5279:200:7157:-538.886,0,-370.126 0/1:94:50,43:50:1779:43:1544:-110.779,0,-132.037 0/0:83:81,2:81:2892:2:72:0,-18.1488,-253.68 0/0:83:83,0:83:2972:0:0:0,-24.9855,-267.713 chr02 23480466 . CTGA CTCG,CTCA 53774.7 PASS AB=0.557128,0.438679;ABP=57.0968,65.3275;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1625,1004;CIGAR=2M2X,2M1X1M;DP=2647;DPB=2647;DPRA=0.737798,1.43896;EPP=3531.65,2183.17;EPPR=0;GTI=0;LEN=2,1;MEANALT=2.4,2.58824;MQM=59.4905,60;MQMR=0;NS=21;NUMALT=2;ODDS=23.1522;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56947,35916;QR=0;RO=0;RPL=0,0;RPP=3531.65,2183.17;RPPR=0;RPR=1625,1004;RUN=1,1;SAF=1625,1004;SAP=3531.65,2183.17;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:156:0,100,55:0:0:100,55:3560,1965:-450.488,-160.354,-130.251,-290.277,0,-273.721 1/2:104:0,61,43:0:0:61,43:2175,1540:-303.034,-125.949,-107.586,-177.442,0,-164.498 1/2:122:0,72,50:0:0:72,50:2577,1800:-357.371,-147.231,-125.557,-210.5,0,-195.448 1/1:157:0,156,0:0:0:156,0:5541,0:-498.499,-46.9607,0,-498.499,-46.9607,-498.499 1/2:259:0,151,108:0:0:151,108:5392,3865:-755.112,-315.532,-270.077,-439.938,0,-407.426 1/2:84:0,62,22:0:0:62,22:2209,784:-244.289,-64.2613,-45.5974,-180.384,0,-173.762 1/2:211:0,110,100:0:0:110,100:3879,3584:-608.01,-292.304,-259.191,-315.702,0,-285.599 2/2:168:0,0,166:0:0:0,166:0,5956:-535.84,-535.84,-535.84,-49.971,-49.971,0 1/2:237:0,98,137:0:0:98,137:3448,4928:-682.833,-402.16,-372.659,-280.76,0,-239.519 1/2:16:0,8,8:0:0:8,8:288,288:-47.3585,-23.8592,-21.4509,-23.8592,0,-21.4509 1/2:15:0,8,7:0:0:8,7:288,252:-44.4211,-20.9217,-18.5135,-23.8592,0,-21.752 1/2:39:0,18,20:0:0:18,20:646,716:-111.073,-58.3874,-52.9688,-52.6838,0,-46.6632 1/1:68:0,68,0:0:0:68,0:2374,0:-213.894,-20.47,0,-213.894,-20.47,-213.894 1/1:199:0,193,1:0:0:193,1:6250,36:-561.106,-58.0988,0,-558.169,-55.1483,-557.868 1/2:290:0,155,134:0:0:155,134:5506,4771:-837.449,-388.871,-342.212,-448.593,0,-408.255 1/2:88:0,48,39:0:0:48,39:1705,1396:-252.855,-113.927,-99.4773,-139.012,0,-127.271 1/2:149:0,83,66:0:0:83,66:2904,2348:-427.953,-191.711,-166.726,-236.595,0,-216.727 1/2:67:0,41,26:0:0:41,26:1443,919:-192.33,-75.1988,-62.8566,-117.483,0,-109.657 1/2:71:0,48,22:0:0:48,22:1669,768:-198.256,-62.5616,-48.1121,-135.788,0,-129.165 1/1:91:0,90,0:0:0:90,0:3175,0:-285.603,-27.0927,0,-285.603,-27.0927,-285.603 1/1:56:0,55,0:0:0:55,0:1918,0:-172.585,-16.5567,0,-172.585,-16.5567,-172.585 chr02 23480514 . C G 29625.1 PASS AB=0.56041;ABP=61.7783;AC=25;AF=0.595238;AN=42;AO=1574;CIGAR=1X;DP=2551;DPB=2551;DPRA=0.742236;EPP=3420.91;EPPR=2122.37;GTI=0;LEN=1;MEANALT=1.05;MQM=59.4905;MQMR=60;NS=21;NUMALT=1;ODDS=19.8685;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55245;QR=33838;RO=976;RPL=1574;RPP=3420.91;RPPR=2122.37;RPR=0;RUN=1;SAF=1574;SAP=3420.91;SAR=0;SRF=976;SRP=2122.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:54,100:54:1878:100:3541:-272.524,0,-122.939 0/1:100:41,59:41:1452:59:2103:-159.164,0,-100.873 0/1:118:49,69:49:1717:69:2464:-186.491,0,-119.292 1/1:152:0,152:0:0:152:5393:-485.484,-45.7566,0 0/1:247:104,143:104:3631:143:5104:-385.126,0,-252.641 0/1:82:21,61:21:741:61:2158:-169.769,0,-42.3271 0/1:207:99,108:99:3387:108:3824:-281.092,0,-242.734 0/0:161:161,0:161:5547:0:0:0,-48.4658,-499.365 0/1:232:134,98:134:4676:98:3487:-244.198,0,-351.168 0/1:15:7,8:7:244:8:284:-21.3879,0,-17.784 0/1:15:7,8:7:235:8:288:-21.752,0,-16.9625 0/1:39:19,20:19:643:20:705:-52.0234,0,-46.4447 1/1:68:0,68:0:0:68:2377:-214.161,-20.47,0 1/1:179:1,178:1:36:178:5825:-520.192,-50.2861,0 0/1:282:131,150:131:4550:150:5303:-392.36,0,-324.724 0/1:84:36,48:36:1224:48:1708:-128.716,0,-85.1688 0/1:148:67,81:67:2303:81:2829:-210.278,0,-162.974 0/1:64:24,40:24:835:40:1411:-107.511,0,-56.2006 0/1:67:21,46:21:739:46:1626:-126.457,0,-46.6634 1/1:86:0,86:0:0:86:3043:-274.074,-25.8886,0 1/1:51:0,51:0:0:51:1772:-159.744,-15.3525,0 chr02 23480582 . T C 30154 PASS AB=0.526912;ABP=14.1137;AC=25;AF=0.595238;AN=42;AO=1563;CIGAR=1X;DP=2466;DPB=2466;DPRA=1.84692;EPP=3388.34;EPPR=1955.17;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.7758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55410;QR=31596;RO=903;RPL=1;RPP=3388.34;RPPR=1955.17;RPR=1562;RUN=1;SAF=0;SAP=3397.02;SAR=1563;SRF=0;SRP=1963.85;SRR=903;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:28,31:28:979:31:1108:-82.2702,0,-70.6613 0/1:113:51,62:51:1764:62:2205:-164.697,0,-125.024 0/1:128:63,65:63:2228:65:2291:-167.917,0,-162.253 1/1:150:1,149:1:36:149:5281:-471.832,-41.5562,0 0/1:275:144,131:144:5035:131:4641:-335.073,0,-370.524 0/1:60:26,34:26:923:34:1200:-90.2438,0,-65.325 0/1:179:86,93:86:3031:93:3295:-242.887,0,-219.139 0/0:65:65,0:65:2233:0:0:0,-19.5669,-201.232 0/1:265:129,136:129:4505:136:4830:-355.085,0,-325.853 0/1:21:7,14:7:248:14:500:-39.0145,0,-16.3426 0/1:6:4,2:4:140:2:63:-4.17697,0,-11.1384 0/1:20:11,9:11:371:9:324:-23.4853,0,-27.6946 1/1:149:0,149:0:0:149:5273:-474.71,-44.8535,0 1/1:123:0,123:0:0:123:4333:-390.149,-37.0267,0 0/1:213:98,115:98:3459:115:4085:-303.718,0,-247.407 0/1:120:59,61:59:2056:61:2179:-160.252,0,-149.186 0/1:122:48,74:48:1704:74:2594:-196.983,0,-116.92 0/1:125:59,66:59:2036:66:2340:-173.23,0,-145.882 0/1:59:22,37:22:776:37:1321:-101.431,0,-52.4014 1/1:123:1,122:1:36:122:4342:-387.358,-33.4284,0 1/1:91:1,90:1:36:90:3205:-285.074,-23.7955,0 chr02 23480639 . T G 15784.5 PASS AB=0.47046;ABP=16.8659;AC=17;AF=0.404762;AN=42;AO=933;CIGAR=1X;DP=2549;DPB=2549;DPRA=0.984643;EPP=2028.99;EPPR=3512.11;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.992;NS=21;NUMALT=1;ODDS=9.35795;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33399;QR=57485;RO=1616;RPL=933;RPP=2028.99;RPPR=3512.11;RPR=0;RUN=1;SAF=0;SAP=2028.99;SAR=933;SRF=0;SRP=3512.11;SRR=1616;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:33,28:33:1169:28:1008:-72.6735,0,-87.1525 0/1:118:65,53:65:2291:53:1889:-134.765,0,-170.925 0/1:139:69,70:69:2461:70:2508:-184.129,0,-179.888 0/0:158:157,1:157:5587:1:36:0,-43.9645,-499.353 0/1:285:137,148:137:4837:148:5304:-391.7,0,-349.689 0/1:59:33,26:33:1173:26:936:-66.7987,0,-88.1148 0/1:185:99,86:99:3526:86:3050:-219.037,0,-261.857 1/1:70:0,70:0:0:70:2493:-224.622,-21.0721,0 0/1:276:140,136:140:5017:136:4868:-355.189,0,-368.59 0/1:22:15,7:15:521:7:250:-16.224,0,-40.5937 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:20:9,11:9:294:11:396:-29.9621,0,-20.755 0/0:150:150,0:150:5346:0:0:0,-45.1545,-481.272 0/0:126:126,0:126:4483:0:0:0,-37.9298,-403.636 0/1:219:117,102:117:4181:102:3653:-263.046,0,-310.545 0/1:120:63,57:63:2268:57:2052:-148.828,0,-168.258 0/1:126:76,50:76:2705:50:1800:-124.352,0,-205.763 0/1:129:69,60:69:2465:60:2148:-154.755,0,-183.27 0/1:63:41,22:41:1460:22:792:-52.6408,0,-112.731 0/0:124:122,2:122:4346:2:72:0,-30.491,-384.477 0/0:93:93,0:93:3283:0:0:0,-27.9958,-295.688 chr02 23484294 . CAGGC TAGGT,TAGGC 69774.2 PASS AB=0.473048,0.519981;ABP=16.5881,10.4732;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1575,1279;CIGAR=1X3M1X,1X4M;DP=2873;DPB=2873;DPRA=0.870833,1.48448;EPP=1351.56,940.273;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.6,2.66667;MQM=48.9898,59.4769;MQMR=0;NS=21;NUMALT=2;ODDS=2.07712;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55125,45698;QR=0;RO=0;RPL=1282,1011;RPP=1351.56,940.273;RPPR=0;RPR=293,268;RUN=1,1;SAF=1575,1279;SAP=3423.08,2780.32;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:150:0,49,99:0:0:49,99:1733,3533:-426.695,-287.585,-272.835,-139.202,0,-109.4 1/2:182:0,82,98:0:0:82,98:2912,3499:-521.558,-285.289,-260.604,-236.319,0,-206.818 1/2:113:0,54,59:0:0:54,59:1911,2120:-326.992,-173.194,-156.939,-154.152,0,-136.392 1/1:136:0,135,0:0:0:135,0:4702,0:-418.182,-40.6391,0,-418.182,-40.6391,-418.182 1/2:135:0,87,47:0:0:87,47:3036,1684:-380.762,-137.399,-111.209,-243.444,0,-229.296 1/2:203:0,73,124:0:0:73,124:2564,4439:-568.477,-361.901,-339.926,-206.583,0,-169.255 1/2:269:0,119,150:0:0:119,150:4158,5343:-770.944,-435.118,-399.296,-336.176,0,-291.022 2/2:156:0,0,156:0:0:0,156:0,5538:-498.509,-498.509,-498.509,-46.9607,-46.9607,0 1/2:325:0,196,128:0:0:196,128:6845,4568:-926.625,-372.49,-313.488,-554.228,0,-515.696 1/2:11:0,3,7:0:0:3,7:108,244:-28.6629,-19.93,-19.0269,-8.80737,0,-6.70016 1/2:10:0,6,4:0:0:6,4:190,144:-27.2567,-12.1095,-10.3033,-15.4888,0,-14.2847 1/2:63:0,36,27:0:0:36,27:1259,968:-180.226,-79.1233,-68.2862,-101.455,0,-93.3276 1/1:85:0,84,0:0:0:84,0:2915,0:-258.949,-25.2865,0,-258.949,-25.2865,-258.949 1/1:145:0,142,2:0:0:142,2:4924,72:-436.863,-42.7463,0,-430.988,-36.7686,-430.386 1/2:275:0,111,164:0:0:111,164:3912,5868:-792.665,-478.443,-445.029,-314.574,0,-265.205 1/2:152:0,63,87:0:0:63,87:2191,3122:-431.364,-254.462,-235.497,-176.97,0,-150.78 1/2:97:0,37,60:0:0:37,60:1290,2156:-280.494,-176.244,-165.106,-104.602,0,-86.5401 1/2:77:0,43,34:0:0:43,34:1523,1216:-221.554,-99.5106,-86.5663,-122.397,0,-112.162 1/2:90:0,59,31:0:0:59,31:2075,1112:-256.524,-91.0287,-73.2679,-165.849,0,-156.518 1/1:130:0,127,2:0:0:127,2:4467,72:-394.037,-38.2308,0,-388.162,-32.322,-387.56 1/1:69:0,69,0:0:0:69,0:2410,0:-215.481,-20.7711,0,-215.481,-20.7711,-215.481 chr02 23484351 . TGAGT AGAGG,AGAGT 54876.8 PASS AB=0.503213,0.490855;ABP=3.1917,4.47977;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1560,1126;CIGAR=1X3M1X,1X4M;DP=2704;DPB=2704;DPRA=1.00625,1.60938;EPP=3364.5,2439.41;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.7,2.78947;MQM=59.9378,60;MQMR=60;NS=21;NUMALT=2;ODDS=0.505193;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54533,40333;QR=36;RO=1;RPL=1557,1125;RPP=3364.5,2439.41;RPPR=5.18177;RPR=3,1;RUN=1,1;SAF=0,0;SAP=3390.51,2448.09;SAR=1560,1126;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:236:0,107,129:0:0:107,129:3763,4640:-685.236,-378.927,-346.717,-306.664,0,-267.831 1/2:81:1,45,34:1:36:45,34:1585,1224:-225.742,-97.0054,-86.3966,-126.167,0,-118.869 1/2:130:0,70,58:0:0:70,58:2423,2080:-366.483,-169.651,-148.579,-196.826,0,-179.366 1/1:110:0,110,0:0:0:110,0:3845,0:-346.253,-33.1133,0,-346.253,-33.1133,-346.253 1/2:254:0,103,151:0:0:103,151:3634,5403:-736.852,-440.945,-409.939,-296.263,0,-250.807 1/2:193:0,121,71:0:0:121,71:4274,2552:-556.297,-208.236,-171.812,-348.097,0,-326.724 1/2:241:0,111,130:0:0:111,130:3878,4642:-694.262,-378.809,-345.394,-315.806,0,-276.672 2/2:128:0,0,128:0:0:0,128:0,4582:-412.544,-412.544,-412.544,-38.5318,-38.5318,0 1/2:236:0,120,114:0:0:120,114:4168,4079:-671.475,-332.663,-296.539,-338.849,0,-304.531 1/2:8:0,2,6:0:0:2,6:67,216:-23.404,-17.9843,-17.3823,-5.76078,0,-3.9546 1/2:7:0,5,2:0:0:5,2:169,72:-19.9185,-6.23466,-4.72951,-14.0374,0,-13.4354 1/2:22:0,7,14:0:0:7,14:248,504:-61.325,-41.1238,-39.0166,-20.198,0,-15.9836 1/1:137:0,135,1:0:0:135,1:4702,36:-422.99,-40.6391,0,-420.053,-37.7016,-419.752 1/1:145:0,143,1:0:0:143,1:4868,36:-437.932,-43.0473,0,-434.994,-40.1099,-434.693 1/2:254:0,120,132:0:0:120,132:4224,4727:-729.252,-385.492,-349.368,-343.755,0,-304.019 1/2:113:0,65,48:0:0:65,48:2256,1716:-323.657,-140.276,-120.709,-183.734,0,-169.285 1/2:83:0,44,38:0:0:44,38:1547,1353:-236.22,-110.299,-97.0534,-125.944,0,-114.505 1/2:70:0,35,34:0:0:35,34:1240,1211:-199.714,-98.7008,-88.1647,-101.008,0,-90.7733 1/2:95:0,63,32:0:0:63,32:2205,1152:-273.75,-94.3572,-75.3923,-179.749,0,-170.116 1/1:105:0,98,3:0:0:98,3:3460,108:-311.282,-29.5009,0,-302.47,-20.6684,-301.567 1/1:56:0,56,0:0:0:56,0:1977,0:-178.206,-16.8577,0,-178.206,-16.8577,-178.206 chr02 23518009 . G A 10689.9 PASS AB=0.391825;ABP=104.957;AC=25;AF=0.595238;AN=42;AO=605;CIGAR=1X;DP=1307;DPB=1307;DPRA=0.668132;EPP=1290.82;EPPR=1501.44;GTI=0;LEN=1;MEANALT=1;MQM=58.5669;MQMR=59.3048;NS=21;NUMALT=1;ODDS=1.17034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21663;QR=24988;RO=702;RPL=3;RPP=1290.82;RPPR=1501.44;RPR=602;RUN=1;SAF=0;SAP=1316.75;SAR=605;SRF=0;SRP=1527.38;SRR=702;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:51,28:51:1820:28:1008:-67.0157,0,-140.255 0/1:68:43,25:43:1528:25:892:-60.1296,0,-117.237 0/1:56:41,15:41:1446:15:540:-32.0732,0,-113.507 1/1:41:0,41:0:0:41:1468:-132.4,-12.3422,0 0/1:190:107,83:107:3794:83:2984:-211.429,0,-284.242 0/1:70:46,24:46:1652:24:860:-56.6497,0,-127.649 0/1:120:72,48:72:2572:48:1712:-118.202,0,-195.357 0/0:91:91,0:91:3243:0:0:0,-27.3937,-290.694 0/1:102:68,34:68:2415:34:1203:-76.2703,0,-186.826 0/1:11:4,7:4:144:7:252:-19.7176,0,-9.93082 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/1:20:14,6:14:504:6:216:-13.7699,0,-39.607 1/1:52:1,51:1:36:51:1828:-161.105,-12.0553,0 1/1:34:0,34:0:0:34:1220:-109.873,-10.235,0 0/1:57:35,22:35:1247:22:776:-52.9955,0,-95.3708 0/1:71:49,22:49:1751:22:784:-49.4924,0,-136.478 0/1:65:46,19:46:1652:19:684:-42.0288,0,-129.332 0/1:42:17,25:17:580:25:900:-68.6754,0,-39.8761 0/1:37:13,24:13:460:24:864:-66.879,0,-30.5973 1/1:56:0,56:0:0:56:2004:-180.539,-16.8577,0 1/1:30:0,30:0:0:30:1072:-96.7071,-9.0309,0 chr02 23518034 . C T 12578.7 PASS AB=0.607784;ABP=104.12;AC=17;AF=0.404762;AN=42;AO=700;CIGAR=1X;DP=1306;DPB=1306;DPRA=1.67336;EPP=1523.04;EPPR=1316.75;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.2129;MQMR=58.676;NS=21;NUMALT=1;ODDS=1.21555;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24891;QR=21618;RO=605;RPL=700;RPP=1523.04;RPPR=1316.75;RPR=0;RUN=1;SAF=0;SAP=1523.04;SAR=700;SRF=0;SRP=1316.75;SRR=605;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:28,51:28:1008:51:1806:-138.671,0,-66.6944 0/1:68:25,43:25:881:43:1525:-116.899,0,-59.1358 0/1:57:15,42:15:532:42:1504:-118.426,0,-31.049 0/0:41:41,0:41:1457:0:0:0,-12.3422,-131.409 0/1:191:83,108:83:2961:108:3826:-286.787,0,-209.06 0/1:70:24,46:24:864:46:1656:-128.011,0,-57.0105 0/1:121:48,73:48:1728:73:2612:-198.613,0,-119.34 1/1:90:0,90:0:0:90:3193:-286.231,-27.0927,0 0/1:102:32,70:32:1152:70:2501:-194.561,0,-73.1465 0/1:11:7,4:7:252:4:144:-9.93082,0,-19.7176 0/1:15:11,4:11:396:4:144:-8.79817,0,-31.4673 0/1:20:6,14:6:216:14:500:-39.2857,0,-13.7699 0/0:53:52,1:52:1849:1:36:0,-12.3563,-162.995 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.233 0/1:57:22,35:22:792:35:1256:-96.182,0,-54.4381 0/1:70:23,47:23:794:47:1673:-129.779,0,-50.6831 0/1:64:18,46:18:648:46:1607:-125.308,0,-39.3623 0/1:40:25,15:25:896:15:521:-35.1751,0,-68.9168 0/1:36:25,11:25:888:11:387:-24.3289,0,-69.1468 0/0:56:56,0:56:2000:0:0:0,-16.8577,-180.179 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.4278 chr02 23519211 . A G 13910.8 PASS AB=0.488604;ABP=4.59405;AC=17;AF=0.404762;AN=42;AO=792;CIGAR=1X;DP=2108;DPB=2108;DPRA=0.750789;EPP=1679.66;EPPR=2780.86;GTI=1;LEN=1;MEANALT=1.05882;MQM=59.9722;MQMR=60;NS=21;NUMALT=1;ODDS=1.56327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28155;QR=47136;RO=1315;RPL=5;RPP=1679.66;RPPR=2780.86;RPR=787;RUN=1;SAF=0;SAP=1722.82;SAR=792;SRF=0;SRP=2858.5;SRR=1315;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:54,81:54:1940:81:2869:-217.618,0,-134.237 0/1:95:44,51:44:1576:51:1810:-134.582,0,-113.534 0/1:124:63,61:63:2268:61:2158:-157.157,0,-167.054 0/0:173:173,0:173:6194:0:0:0,-52.0782,-557.556 0/1:156:90,66:90:3202:66:2364:-166.058,0,-241.443 0/1:102:32,70:32:1152:70:2495:-194.098,0,-73.2851 0/1:136:66,70:66:2372:70:2460:-180.715,0,-172.798 1/1:107:1,105:1:36:105:3739:-333.114,-28.6707,0 0/1:163:83,80:83:2988:80:2860:-208.57,0,-220.083 0/1:9:3,6:3:104:6:212:-16.7155,0,-6.99354 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/1:41:25,16:25:896:16:576:-39.8328,0,-68.6181 0/0:150:150,0:150:5367:0:0:0,-45.1545,-483.162 0/0:138:138,0:138:4960:0:0:0,-41.5421,-446.547 0/1:149:95,54:95:3403:54:1914:-127.682,0,-261.63 0/1:79:47,32:47:1692:32:1131:-78.3164,0,-128.785 0/1:103:50,53:50:1792:53:1891:-139.461,0,-130.556 0/1:42:16,26:16:572:26:924:-70.8344,0,-39.1702 0/1:59:41,18:41:1467:18:644:-40.5298,0,-114.565 0/0:94:93,1:93:3323:1:36:0,-24.6985,-295.69 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 chr02 23534408 . A C 27391.9 PASS AB=0.603212;ABP=198.893;AC=17;AF=0.404762;AN=42;AO=1486;CIGAR=1X;DP=2885;DPB=2885;DPRA=1.3657;EPP=3203.81;EPPR=2956.72;GTI=1;LEN=1;MEANALT=1.05882;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=12.562;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52830;QR=50013;RO=1396;RPL=3;RPP=3203.81;RPPR=2956.72;RPR=1483;RUN=1;SAF=1486;SAP=3229.82;SAR=0;SRF=1396;SRP=3034.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:77,57:77:2760:57:2044:-143.894,0,-208.304 0/1:179:87,92:87:3132:92:3253:-239.108,0,-228.22 0/1:143:37,106:37:1324:106:3782:-297.532,0,-76.4148 0/0:176:176,0:176:6312:0:0:0,-52.9813,-568.171 0/1:295:120,175:120:4300:175:6230:-471.995,0,-298.373 0/1:75:30,45:30:1080:45:1620:-123.513,0,-74.936 0/1:176:80,96:80:2872:96:3402:-253.414,0,-205.735 1/1:207:0,207:0:0:207:7336:-660.297,-62.3132,0 0/1:190:53,137:53:1874:137:4858:-380.18,0,-111.739 0/1:28:10,18:10:360:18:636:-49.1392,0,-24.3155 0/1:18:5,13:5:180:13:468:-37.0411,0,-11.1335 0/1:74:36,38:36:1288:38:1356:-100.064,0,-93.9474 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.093 0/0:107:107,0:107:3844:0:0:0,-32.2102,-346.155 0/1:316:96,220:96:3433:220:7817:-608.438,0,-214.056 0/1:112:36,76:36:1296:76:2711:-210.518,0,-83.2286 0/1:145:60,85:60:2156:85:2993:-225.954,0,-150.658 0/1:169:73,96:73:2609:96:3428:-257.859,0,-184.182 0/1:63:40,23:40:1440:23:824:-55.5184,0,-110.933 0/0:137:132,2:132:4702:2:72:0,-33.8611,-416.502 0/0:72:72,0:72:2575:0:0:0,-21.6742,-231.999 chr02 23534414 . G A 26897.7 PASS AB=0.397642;ABP=195.939;AC=25;AF=0.595238;AN=42;AO=1408;CIGAR=1X;DP=2895;DPB=2895;DPRA=0.645913;EPP=2855.54;EPPR=3088;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9787;MQMR=60;NS=21;NUMALT=1;ODDS=15.0408;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50529;QR=53001;RO=1484;RPL=24;RPP=2855.54;RPPR=3088;RPR=1384;RUN=1;SAF=1408;SAP=3060.44;SAR=0;SRF=1484;SRP=3225.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:61,77:61:2192:77:2749:-206.109,0,-156.003 0/1:181:93,88:93:3329:88:3145:-228.788,0,-245.339 0/1:143:105,38:105:3738:38:1368:-80.3735,0,-293.571 1/1:178:0,178:0:0:178:6400:-576.085,-53.5833,0 0/1:297:175,122:175:6245:122:4388:-305.657,0,-472.74 0/1:76:44,30:44:1576:30:1080:-74.8772,0,-119.496 0/1:174:96,78:96:3417:78:2808:-200.58,0,-255.365 0/0:208:208,0:208:7439:0:0:0,-62.6142,-669.555 0/1:188:135,53:135:4825:53:1896:-114.324,0,-377.81 0/1:28:17,11:17:612:11:396:-27.5539,0,-46.9846 0/1:18:13,5:13:468:5:180:-11.1335,0,-37.0411 0/1:75:39,36:39:1400:36:1288:-93.6463,0,-103.722 1/1:70:0,70:0:0:70:2493:-224.622,-21.0721,0 1/1:107:0,107:0:0:107:3840:-345.795,-32.2102,0 0/1:313:217,95:217:7722:95:3408:-212.653,0,-600.732 0/1:112:76,36:76:2736:36:1292:-82.8684,0,-212.766 0/1:145:84,61:84:2997:61:2181:-152.9,0,-226.311 0/1:167:94,73:94:3333:73:2626:-186.315,0,-249.914 0/1:65:25,40:25:900:40:1440:-110.331,0,-61.7541 1/1:138:2,136:2:72:136:4892:-433.593,-34.7054,0 1/1:74:0,74:0:0:74:2659:-239.555,-22.2762,0 chr02 23534492 . G C 13346.3 PASS AB=0.429574;ABP=82.8392;AC=16;AF=0.380952;AN=42;AO=840;CIGAR=1X;DP=2842;DPB=2842;DPRA=0.985928;EPP=1827.05;EPPR=4348.13;GTI=2;LEN=1;MEANALT=1.0625;MQM=59.531;MQMR=59.998;NS=21;NUMALT=1;ODDS=9.5301;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29840;QR=71601;RO=2001;RPL=840;RPP=1827.05;RPPR=4348.13;RPR=0;RUN=1;SAF=0;SAP=1827.05;SAR=840;SRF=0;SRP=4348.13;SRR=2001;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:48,77:48:1716:77:2737:-208.775,0,-117.097 0/1:152:108,44:108:3833:44:1580:-96.6697,0,-299.411 0/1:106:63,43:63:2256:43:1540:-106.979,0,-171.394 0/0:238:238,0:238:8540:0:0:0,-71.6451,-768.596 0/1:230:121,109:121:4340:109:3848:-277.273,0,-321.537 0/1:107:80,27:80:2864:27:964:-54.8216,0,-225.787 0/1:277:124,153:124:4427:153:5421:-404.483,0,-315.217 1/1:43:0,43:0:0:43:1527:-137.717,-12.9443,0 0/1:242:156,86:156:5592:86:3031:-200.168,0,-430.552 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:38:32,6:32:1152:6:216:-8.3467,0,-92.551 0/0:214:214,0:214:7656:0:0:0,-64.4204,-689.077 0/0:262:261,1:261:9325:1:36:0,-75.2716,-835.616 0/1:77:40,37:40:1436:37:1309:-94.9272,0,-106.358 0/1:184:102,82:102:3652:82:2925:-208.092,0,-273.495 0/1:109:61,48:61:2180:48:1720:-122.08,0,-163.654 0/1:92:42,49:42:1508:49:1726:-127.972,0,-108.407 0/1:110:77,33:77:2734:33:1188:-74.1106,0,-213.189 0/0:143:143,0:143:5140:0:0:0,-43.0473,-462.739 0/0:81:81,0:81:2890:0:0:0,-24.3834,-260.335 chr02 23599194 . AGAGTTG AGAGTAG,AG 25820.4 PASS AB=0.520045,0.473274;ABP=6.14418,8.58165;AC=25,17;AF=0.595238,0.404762;AN=42;AO=778,484;CIGAR=5M1X1M,1M5D1M;DP=1269;DPB=923.286;DPRA=1.02542,0.958534;EPP=1692.42,1054;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=1.95,2.125;MQM=59.9936,58.7335;MQMR=60;NS=21;NUMALT=2;ODDS=1.34802;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27890,16760;QR=28;RO=1;RPL=778,484;RPP=1692.42,1054;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1692.42,1054;SAR=778,484;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,44,48:0:0:44,48:1580,1679:-265.587,-136.694,-123.449,-128.994,0,-114.544 1/2:63:0,40,23:0:0:40,23:1432,812:-183.204,-66.422,-54.3808,-117.136,0,-110.213 1/2:66:0,29,35:0:0:29,35:1044,1209:-183.231,-98.0399,-89.31,-85.1851,0,-74.6491 1/1:17:0,17,0:0:0:17,0:608,0:-55.052,-5.11751,0,-55.052,-5.11751,-55.052 1/2:133:0,74,59:0:0:74,59:2648,2023:-378.991,-163.048,-140.772,-216.29,0,-198.53 1/2:68:0,37,31:0:0:37,31:1319,1066:-194.336,-86.8123,-75.6742,-107.873,0,-98.5411 1/2:50:0,19,31:0:0:19,31:680,1069:-142.586,-87.1289,-81.4093,-55.8096,0,-46.4777 2/2:59:0,0,59:0:0:0,59:0,2022:-181.856,-181.856,-181.856,-17.7608,-17.7608,0 1/2:148:0,68,80:0:0:68,80:2440,2767:-424.193,-225.161,-204.691,-199.385,0,-175.303 1/2:5:0,2,3:0:0:2,3:72,100:-14.2828,-8.39686,-7.7948,-6.23466,0,-5.33157 1/2:5:1,3,1:1:28:3,1:108,32:-8.94057,-0.399408,-1.69507,-6.67338,0,-8.57111 1/2:10:0,3,7:0:0:3,7:108,248:-29.3709,-20.557,-19.6539,-9.17208,0,-7.06487 1/1:108:0,107,0:0:0:107,0:3839,0:-345.365,-32.2102,0,-345.365,-32.2102,-345.365 1/1:76:0,76,0:0:0:76,0:2728,0:-245.763,-22.8783,0,-245.763,-22.8783,-245.763 1/2:99:0,52,47:0:0:52,47:1853,1652:-285.834,-134.794,-119.14,-151.394,0,-137.246 1/2:25:0,18,7:0:0:18,7:648,237:-72.4408,-19.5518,-14.1333,-53.2333,0,-51.1261 1/2:36:0,22,14:0:0:22,14:792,483:-104.215,-39.5829,-32.9602,-64.983,0,-60.7686 1/2:45:0,23,20:0:0:23,20:819,712:-124.508,-57.7556,-50.8319,-66.7484,0,-60.7278 1/2:52:0,33,19:0:0:33,19:1188,649:-149.937,-52.9909,-43.0569,-97.2946,0,-91.575 1/1:67:0,67,0:0:0:67,0:2408,0:-216.973,-20.169,0,-216.973,-20.169,-216.973 1/1:44:0,44,0:0:0:44,0:1576,0:-142.132,-13.2453,0,-142.132,-13.2453,-142.132 chr02 23727557 . C T 30363.2 PASS AB=0.494939;ABP=3.42794;AC=25;AF=0.595238;AN=42;AO=1564;CIGAR=1X;DP=2585;DPB=2585;DPRA=1.77042;EPP=3399.19;EPPR=2220.08;GTI=0;LEN=1;MEANALT=1;MQM=59.9719;MQMR=59.8717;NS=21;NUMALT=1;ODDS=15.9066;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56034;QR=36518;RO=1021;RPL=0;RPP=3399.19;RPPR=2220.08;RPR=1564;RUN=1;SAF=1564;SAP=3399.19;SAR=0;SRF=1021;SRP=2220.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:245:135,110:135:4828:110:3950:-281.938,0,-360.909 0/1:119:63,56:63:2260:56:2008:-145.167,0,-167.824 0/1:116:59,57:59:2112:57:2044:-149.312,0,-155.43 1/1:169:1,168:1:36:168:6039:-540.008,-47.2758,0 0/1:274:158,116:158:5664:116:4129:-289.206,0,-427.075 0/1:136:60,76:60:2133:76:2724:-204.463,0,-151.288 0/1:218:100,118:100:3584:118:4222:-314.535,0,-257.142 0/0:71:71,0:71:2536:0:0:0,-21.3731,-228.491 0/1:171:97,74:97:3460:74:2652:-187.45,0,-260.081 0/1:17:6,11:6:216:11:392:-30.5025,0,-14.673 0/1:10:6,4:6:216:4:140:-9.93428,0,-16.7802 0/1:33:16,17:16:572:17:608:-45.118,0,-41.8794 1/1:139:0,139:0:0:139:4984:-448.707,-41.8432,0 1/1:153:0,153:0:0:153:5500:-495.116,-46.0576,0 0/1:142:79,63:79:2828:63:2239:-159.026,0,-212.013 0/1:120:61,59:61:2184:59:2116:-154.585,0,-160.701 0/1:143:53,90:53:1881:90:3224:-247.335,0,-126.028 0/1:67:38,29:38:1364:29:1019:-71.8523,0,-102.892 0/1:66:17,49:17:608:49:1760:-138.816,0,-35.184 1/1:107:1,106:1:36:106:3804:-338.959,-28.6119,0 1/1:69:0,69:0:0:69:2480:-223.453,-20.7711,0 chr02 23727577 . C G 17404 PASS AB=0.499461;ABP=3.01498;AC=17;AF=0.404762;AN=42;AO=997;CIGAR=1X;DP=2557;DPB=2557;DPRA=1.03043;EPP=2116.17;EPPR=3364.5;GTI=0;LEN=1;MEANALT=1;MQM=59.8997;MQMR=59.9538;NS=21;NUMALT=1;ODDS=13.3243;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35549;QR=55668;RO=1560;RPL=6;RPP=2116.17;RPPR=3364.5;RPR=991;RUN=1;SAF=997;SAP=2167.97;SAR=0;SRF=1560;SRP=3390.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:245:112,133:112:3999:133:4750:-353.893,0,-286.348 0/1:116:56,60:56:1996:60:2144:-158.292,0,-144.991 0/1:113:56,57:56:2004:57:2044:-150.215,0,-146.617 0/0:170:169,1:169:6034:1:36:0,-47.5768,-539.563 0/1:264:116,148:116:4126:148:5254:-393.526,0,-292.003 0/1:137:77,60:77:2746:60:2136:-151.264,0,-206.14 0/1:220:120,100:120:4268:100:3572:-255.462,0,-318.07 1/1:68:0,68:0:0:68:2407:-216.887,-20.47,0 0/1:171:75,96:75:2687:96:3431:-257.527,0,-190.598 0/1:16:10,6:10:343:6:216:-14.974,0,-26.3841 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:32:15,17:15:540:17:602:-44.876,0,-39.3036 0/0:140:140,0:140:5024:0:0:0,-42.1442,-452.305 0/0:146:146,0:146:5199:0:0:0,-43.9504,-468.049 0/1:141:63,78:63:2260:78:2785:-208.444,0,-161.217 0/1:117:56,61:56:2003:61:2180:-161.245,0,-145.322 0/1:140:90,50:90:3216:50:1768:-116.828,0,-247.519 0/1:68:30,38:30:1067:38:1360:-101.801,0,-75.8696 0/1:67:50,17:50:1788:17:612:-35.2444,0,-141.034 0/0:107:106,1:106:3788:1:36:0,-28.6119,-337.521 0/0:70:70,0:70:2472:0:0:0,-21.0721,-222.646 chr02 23765303 . C T 26176.8 PASS AB=0.537302;ABP=19.0484;AC=25;AF=0.595238;AN=42;AO=1321;CIGAR=1X;DP=2031;DPB=2031;DPRA=1.0538;EPP=2871.53;EPPR=1501.63;GTI=0;LEN=1;MEANALT=1;MQM=59.6904;MQMR=59.9521;NS=21;NUMALT=1;ODDS=6.90381;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47208;QR=25294;RO=710;RPL=0;RPP=2871.53;RPPR=1510.21;RPR=1321;RUN=1;SAF=1321;SAP=2871.53;SAR=0;SRF=709;SRP=1536.08;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:32,58:32:1140:58:2073:-159.64,0,-75.8161 0/1:140:68,72:68:2435:72:2573:-189.637,0,-177.26 0/1:80:31,49:31:1112:49:1762:-134.776,0,-76.3089 1/1:144:0,144:0:0:144:5125:-461.38,-43.3483,0 0/1:182:84,98:84:2987:98:3516:-261.631,0,-213.499 0/1:124:68,56:68:2428:56:2008:-143.657,0,-181.448 0/1:130:58,72:58:2054:72:2555:-191.045,0,-145.996 0/0:92:92,0:92:3271:0:0:0,-27.6948,-294.611 0/1:93:44,49:44:1564:49:1764:-131.037,0,-113.056 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.6268 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:28:11,17:11:396:17:608:-46.615,0,-27.5539 1/1:122:0,122:0:0:122:4323:-389.191,-36.7257,0 1/1:171:2,169:2:68:169:6035:-536.73,-45.0184,0 0/1:141:71,70:71:2540:70:2511:-183.789,0,-186.406 0/1:91:40,51:40:1424:51:1832:-137.765,0,-101.064 0/1:88:43,45:43:1540:45:1620:-119.57,0,-112.402 0/1:62:33,29:33:1167:29:1031:-74.4342,0,-86.6725 0/1:54:17,37:17:600:37:1314:-102.298,0,-38.0736 1/1:121:2,119:2:64:119:4259:-377.405,-30.3459,0 1/1:54:0,54:0:0:54:1939:-174.752,-16.2556,0 chr02 23765326 . CTC ATT,CTT 88453 PASS AB=0.553183,0.444724;ABP=61.6764,66.3867;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2216,1183;CIGAR=1X1M1X,2M1X;DP=3407;DPB=3407.67;DPRA=1.40598,0.914921;EPP=4814.99,2571.86;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=2.15,2.16667;MQM=59.7559,59.9983;MQMR=60;NS=21;NUMALT=2;ODDS=22.2203;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=76650,42228;QR=36;RO=1;RPL=1337,683;RPP=208.559,64.4815;RPPR=5.18177;RPR=879,500;RUN=1,1;SAF=1337,683;SAP=208.559,64.4815;SAR=879,500;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:181:0,111,70:0:0:111,70:3783,2489:-509.861,-203.19,-169.776,-307.021,0,-285.949 1/2:212:0,112,100:0:0:112,100:3900,3561:-607.692,-290.595,-256.879,-317.449,0,-287.346 1/2:132:0,84,48:0:0:84,48:2912,1724:-377.66,-140.996,-115.709,-237.018,0,-222.569 1/1:180:0,178,0:0:0:178,0:6193,0:-557.11,-53.5833,0,-557.11,-53.5833,-557.11 1/2:323:1,181,141:1:36:181,141:6257,5034:-915.545,-407.464,-355.915,-505.437,0,-465.929 1/2:184:0,95,88:0:0:95,88:3265,3151:-522.222,-257.112,-228.514,-265.249,0,-238.758 1/2:201:0,109,91:0:0:109,91:3701,3240:-564.282,-264.156,-231.343,-300.204,0,-272.81 2/2:117:0,0,117:0:0:0,117:0,4188:-377.101,-377.101,-377.101,-35.2205,-35.2205,0 1/2:215:0,114,100:0:0:114,100:3913,3567:-608.475,-290.775,-256.458,-317.69,0,-287.587 1/2:28:0,14,14:0:0:14,14:465,504:-79.0904,-41.4837,-37.2693,-37.9526,0,-33.7382 1/2:21:0,13,8:0:0:13,8:447,280:-59.4247,-23.1311,-19.2177,-36.6412,0,-34.2329 1/2:62:0,40,22:0:0:40,22:1411,780:-178.784,-63.9004,-51.8592,-115.237,0,-108.615 1/1:186:0,185,1:0:0:185,1:6399,36:-575.631,-55.6906,0,-572.693,-52.3933,-572.392 1/1:244:0,243,0:0:0:243,0:8365,0:-752.585,-73.1503,0,-752.585,-73.1503,-752.585 1/2:276:0,143,132:0:0:143,132:4904,4701:-781.276,-383.156,-340.108,-398.11,0,-358.374 1/2:132:0,75,57:0:0:75,57:2596,2040:-377.672,-166.713,-144.136,-211.311,0,-194.153 1/2:131:0,67,64:0:0:67,64:2344,2296:-378.299,-187.635,-167.466,-191.018,0,-171.752 1/2:156:0,78,78:0:0:78,78:2721,2782:-448.44,-227.14,-203.66,-221.652,0,-198.171 1/2:134:0,85,49:0:0:85,49:2986,1756:-386.599,-143.574,-117.986,-243.381,0,-228.631 1/1:191:0,188,3:0:0:188,3:6532,99:-587.637,-56.5936,0,-579.634,-48.2602,-578.731 1/1:101:0,101,0:0:0:101,0:3556,0:-320.22,-30.404,0,-320.22,-30.404,-320.22 chr02 23765347 . G T 54850.4 PASS AB=0.55279;ABP=59.4089;AC=25;AF=0.595238;AN=42;AO=2156;CIGAR=1X;DP=3320;DPB=3320;DPRA=1.35678;EPP=4667.35;EPPR=2495.98;GTI=0;LEN=1;MEANALT=1;MQM=59.8006;MQMR=59.9725;NS=21;NUMALT=1;ODDS=20.3388;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76777;QR=41473;RO=1164;RPL=1273;RPP=156.202;RPPR=50.7678;RPR=883;RUN=1;SAF=1271;SAP=153.076;SAR=885;SRF=658;SRP=46.1114;SRR=506;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:68,109:68:2427:109:3891:-295.983,0,-165.403 0/1:202:94,108:94:3356:108:3852:-286.046,0,-241.449 0/1:131:49,82:49:1756:82:2936:-225.014,0,-118.889 1/1:176:0,176:0:0:176:6254:-562.943,-52.9813,0 0/1:322:146,176:146:5192:176:6261:-466.604,0,-369.713 0/1:186:92,94:92:3272:94:3349:-245.596,0,-238.708 0/1:189:86,103:86:3069:103:3700:-276.287,0,-219.543 0/0:118:118,0:118:4172:0:0:0,-35.5215,-375.665 0/1:207:96,111:96:3428:111:3964:-294.621,0,-246.421 0/1:26:14,12:14:500:12:419:-30.2159,0,-37.5094 0/1:22:8,14:8:269:14:481:-36.9922,0,-17.9135 0/1:61:21,40:21:752:40:1415:-109.283,0,-49.6434 1/1:178:1,177:1:36:177:6285:-562.118,-49.9851,0 1/1:229:0,229:0:0:229:8127:-731.422,-68.9359,0 0/1:266:128,138:128:4600:138:4930:-363.77,0,-334.088 0/1:127:54,73:54:1924:73:2581:-194.308,0,-135.206 0/1:129:65,64:65:2309:64:2292:-167.679,0,-169.237 0/1:151:73,78:73:2600:78:2786:-205.509,0,-188.791 0/1:134:48,86:48:1711:86:3057:-235.014,0,-113.937 1/1:190:3,187:3:100:187:6671:-591.125,-47.8653,0 1/1:99:0,99:0:0:99:3526:-317.517,-29.802,0 chr02 23797887 . A G 13951.5 PASS AB=0.495892;ABP=3.20653;AC=17;AF=0.404762;AN=42;AO=794;CIGAR=1X;DP=2043;DPB=2043;DPRA=0.685598;EPP=1727.16;EPPR=2713.01;GTI=0;LEN=1;MEANALT=1;MQM=59.9924;MQMR=60;NS=21;NUMALT=1;ODDS=1.05435;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28241;QR=44548;RO=1248;RPL=0;RPP=1727.16;RPPR=2713.01;RPR=794;RUN=1;SAF=0;SAP=1727.16;SAR=794;SRF=0;SRP=2713.01;SRR=1248;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:139:60,79:60:2136:79:2785:-209.045,0,-150.665 0/1:99:48,51:48:1724:51:1819:-134.189,0,-125.643 0/1:102:47,55:47:1692:55:1972:-147.05,0,-121.862 0/0:137:137,0:137:4915:0:0:0,-41.2411,-442.499 0/1:156:78,78:78:2757:78:2754:-201.14,0,-201.409 0/1:124:62,62:62:2215:62:2212:-162.017,0,-162.286 0/1:81:28,53:28:999:53:1888:-145.815,0,-65.8411 1/1:129:0,129:0:0:129:4581:-412.455,-38.8329,0 0/1:111:53,58:53:1880:58:2088:-154.775,0,-136.062 0/1:11:9,2:9:312:2:72:-3.52539,0,-25.104 0/1:21:14,7:14:491:7:252:-16.7073,0,-38.1995 0/1:48:23,25:23:824:25:870:-64.1626,0,-60.0339 0/0:176:176,0:176:6293:0:0:0,-52.9813,-566.462 0/0:135:135,0:135:4819:0:0:0,-40.639,-433.863 0/1:138:90,48:90:3215:48:1708:-112.464,0,-248.03 0/1:73:40,33:40:1440:33:1180:-84.5329,0,-107.923 0/1:107:56,51:56:2000:51:1817:-131.6,0,-148.064 0/1:73:30,43:30:1059:43:1535:-116.467,0,-73.6452 0/1:56:37,19:37:1303:19:672:-43.9492,0,-100.713 0/0:74:73,0:73:2615:0:0:0,-21.9752,-235.237 0/0:53:52,1:52:1859:1:36:0,-12.3563,-163.991 chr02 23797915 . T C 14264.5 PASS AB=0.507246;ABP=3.60824;AC=17;AF=0.404762;AN=42;AO=797;CIGAR=1X;DP=1984;DPB=1984;DPRA=0.833526;EPP=1725;EPPR=2494.42;GTI=0;LEN=1;MEANALT=1;MQM=59.9925;MQMR=60;NS=21;NUMALT=1;ODDS=4.32075;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28431;QR=41260;RO=1187;RPL=796;RPP=1725;RPPR=2494.42;RPR=1;RUN=1;SAF=0;SAP=1733.67;SAR=797;SRF=0;SRP=2580.55;SRR=1187;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:63,77:63:2153:77:2730:-203.799,0,-151.886 0/1:97:47,50:47:1616:50:1773:-130.651,0,-116.521 0/1:103:46,57:46:1644:57:2035:-152.415,0,-117.243 0/0:127:127,0:127:4501:0:0:0,-38.2308,-405.262 0/1:154:76,78:76:2629:78:2763:-202.551,0,-190.494 0/1:120:55,65:55:1925:65:2332:-174.016,0,-137.402 0/1:86:30,56:30:1053:56:2008:-155.105,0,-69.19 1/1:132:0,132:0:0:132:4715:-424.508,-39.736,0 0/1:105:48,57:48:1631:57:2052:-153.343,0,-115.461 0/1:10:8,2:8:265:2:72:-3.82642,0,-21.1618 0/1:19:12,7:12:413:7:252:-17.3094,0,-31.7783 0/1:49:23,26:23:801:26:924:-68.7272,0,-57.6562 0/0:164:164,0:164:5695:0:0:0,-49.3689,-512.677 0/0:131:131,0:131:4474:0:0:0,-39.4349,-402.835 0/1:131:84,47:84:2949:47:1684:-112.412,0,-226.211 0/1:71:38,33:38:1336:33:1176:-84.7746,0,-99.1668 0/1:103:52,51:52:1776:51:1820:-133.075,0,-129.109 0/1:68:27,41:27:951:41:1468:-111.946,0,-65.4343 0/1:55:37,18:37:1316:18:627:-40.1977,0,-102.185 0/0:71:71,0:71:2478:0:0:0,-21.3731,-223.273 0/0:48:48,0:48:1654:0:0:0,-14.4494,-149.143 chr02 23881747 . ATTTTTTATTGTC ATTTTTTTATTGAC,ATTTTTTATTGAC 34532.3 PASS AB=0.478018,0.514788;ABP=8.26106,5.3866;AC=25,17;AF=0.595238,0.404762;AN=42;AO=977,711;CIGAR=1M1I10M1X1M,11M1X1M;DP=1704;DPB=1779.92;DPRA=1.24091,1.12383;EPP=2124.54,1546.93;EPPR=5.18177;GTI=0;LEN=14,1;MEANALT=2.55,2.47059;MQM=55.6673,59.9873;MQMR=60;NS=21;NUMALT=2;ODDS=8.20573;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34389,25464;QR=27;RO=1;RPL=0,0;RPP=2124.54,1546.93;RPPR=5.18177;RPR=977,711;RUN=1,1;SAF=0,0;SAP=2124.54,1546.93;SAR=977,711;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,52,78:0:0:52,78:1849,2796:-378.819,-228.4,-212.746,-150.775,0,-127.295 1/2:61:0,24,37:0:0:24,37:856,1332:-178.307,-109.044,-101.82,-69.619,0,-58.4809 1/2:68:0,35,33:0:0:35,33:1209,1188:-195.462,-97.2937,-86.7576,-98.5207,0,-88.5867 1/1:106:0,103,0:0:0:103,0:3642,0:-327.417,-31.0061,0,-327.417,-31.0061,-327.417 1/2:212:0,115,96:0:0:115,96:4018,3444:-607.384,-280.953,-246.335,-326.464,0,-297.565 1/2:43:0,26,17:0:0:26,17:909,608:-123.519,-49.9345,-42.1077,-73.9382,0,-68.8207 1/2:111:0,53,54:0:0:53,54:1797,1940:-303.333,-158.277,-142.323,-145.061,0,-128.805 2/2:66:0,0,66:0:0:0,66:0,2359:-212.568,-212.568,-212.568,-19.868,-19.868,0 1/2:122:0,50,72:0:0:50,72:1783,2569:-355.089,-209.778,-194.726,-145.668,0,-123.994 1/2:20:0,11,9:0:0:11,9:396,311:-57.8922,-25.6145,-22.3031,-32.6295,0,-29.9202 1/2:7:0,5,2:0:0:5,2:180,72:-20.8691,-6.23466,-4.72951,-14.9939,0,-14.3919 1/2:39:0,21,18:0:0:21,18:747,644:-113.681,-52.8721,-46.5504,-61.1652,0,-55.7466 1/1:65:0,63,0:0:0:63,0:2241,0:-201.4,-18.9649,0,-201.4,-18.9649,-201.4 1/1:92:0,90,1:0:0:90,1:3157,36:-283.261,-27.0927,0,-280.324,-24.1533,-280.023 1/2:166:0,58,108:0:0:58,108:2017,3859:-478.778,-314.992,-297.533,-164.137,0,-131.625 1/2:80:0,41,39:0:0:41,39:1445,1400:-232.065,-114.559,-102.217,-117.861,0,-106.121 1/2:103:0,51,49:0:0:51,49:1800,1754:-289.536,-143.036,-127.683,-146.498,0,-131.747 1/2:50:1,23,26:1:27:23,26:804,936:-139.367,-74.3339,-69.5357,-63.2899,0,-57.5886 1/2:39:0,33,6:0:0:33,6:1171,216:-113.236,-17.9843,-8.05034,-95.6103,0,-93.8041 1/1:106:0,105,0:0:0:105,0:3728,0:-334.665,-31.6082,0,-334.665,-31.6082,-334.665 1/1:18:0,18,0:0:0:18,0:640,0:-57.7943,-5.41854,0,-57.7943,-5.41854,-57.7943 chr02 23893585 . TCG GCA,GCG 32509.5 PASS AB=0.611634,0.3858;ABP=129.548,135.433;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1064,527;CIGAR=1X1M1X,1X2M;DP=1599;DPB=1599;DPRA=1.03041,1.06207;EPP=2278.84,1130.07;EPPR=0;GTI=1;LEN=3,1;MEANALT=2.15,2.17647;MQM=59.4079,59.9127;MQMR=0;NS=21;NUMALT=2;ODDS=2.81072;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37255,18824;QR=0;RO=0;RPL=4,1;RPP=2278.84,1138.71;RPPR=0;RPR=1060,526;RUN=1,1;SAF=1064,526;SAP=2313.46,1138.71;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,34,16:0:0:34,16:1196,568:-143.976,-46.6354,-36.4004,-97.6941,0,-92.8776 1/2:68:0,47,20:0:0:47,20:1649,716:-192.562,-58.3882,-44.2398,-134.171,0,-128.15 1/2:109:0,54,55:0:0:54,55:1883,1968:-313.947,-160.83,-144.575,-153.47,0,-136.913 1/1:69:0,68,0:0:0:68,0:2341,0:-210.522,-20.47,0,-210.522,-20.47,-210.522 1/2:211:0,136,74:0:0:136,74:4760,2626:-601.265,-214.057,-173.117,-387.31,0,-365.033 1/2:62:0,40,22:0:0:40,22:1373,792:-176.404,-64.983,-52.9418,-111.775,0,-105.152 1/2:149:0,92,57:0:0:92,57:3223,2052:-429.791,-167.775,-140.08,-262.372,0,-245.213 2/2:74:0,0,73:0:0:0,73:0,2612:-234.947,-234.947,-234.947,-21.9752,-21.9752,0 1/2:86:0,54,32:0:0:54,32:1901,1144:-248.037,-93.6366,-77.3809,-154.755,0,-145.122 1/2:17:0,9,8:0:0:9,8:316,284:-49.2111,-23.4951,-20.7858,-26.069,0,-23.6608 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:37:0,17,20:0:0:17,20:588,720:-106.877,-59.1082,-53.9907,-48.1211,0,-42.1005 1/1:60:0,60,0:0:0:60,0:2096,0:-188.893,-18.0618,0,-188.893,-18.0618,-188.893 1/1:107:0,105,0:0:0:105,0:3664,0:-329.515,-31.6082,0,-329.515,-31.6082,-329.515 1/2:105:0,63,42:0:0:63,42:2220,1478:-301.406,-120.667,-101.702,-181.091,0,-168.448 1/2:46:0,27,19:0:0:27,19:951,684:-133.493,-56.1708,-48.0429,-77.6789,0,-71.9593 1/2:38:0,31,7:0:0:31,7:1107,252:-111.158,-20.9217,-11.5898,-90.5957,0,-88.4885 1/2:126:0,60,65:0:0:60,65:2152,2316:-364.364,-188.851,-170.789,-175.588,0,-156.021 1/2:60:0,48,12:0:0:48,12:1719,432:-175.783,-35.6088,-21.1594,-140.533,0,-136.921 1/1:66:0,63,3:0:0:63,3:2174,108:-195.548,-18.9649,0,-186.735,-9.79281,-185.832 1/1:54:0,53,0:0:0:53,0:1834,0:-165.085,-15.9546,0,-165.085,-15.9546,-165.085 chr02 23896594 . T A 30566.2 PASS AB=0.529747;ABP=15.1541;AC=25;AF=0.595238;AN=42;AO=1474;CIGAR=1X;DP=2313;DPB=2313;DPRA=1.235;EPP=2873.97;EPPR=1644.47;GTI=1;LEN=1;MEANALT=1.15;MQM=59.9885;MQMR=59.9712;NS=21;NUMALT=1;ODDS=2.04532;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52782;QR=29753;RO=834;RPL=39;RPP=2873.97;RPPR=1644.47;RPR=1435;RUN=1;SAF=1474;SAP=3203.76;SAR=0;SRF=834;SRP=1814.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:61,66:61:2179:66:2372:-175.147,0,-157.78 0/1:67:34,30:34:1224:30:1076:-77.5575,0,-90.8719 0/1:62:29,33:29:1035:33:1184:-88.2045,0,-74.7992 1/1:199:0,199:0:0:199:7138:-642.475,-59.905,0 0/1:265:132,133:132:4675:133:4753:-348.154,0,-341.14 0/1:135:48,87:48:1720:87:3111:-239.578,0,-114.446 0/1:143:69,74:69:2449:74:2635:-194.349,0,-177.617 0/0:90:90,0:90:3212:0:0:0,-27.0927,-289.304 0/1:237:106,130:106:3804:130:4660:-348.158,0,-271.154 0/1:10:3,7:3:95:7:252:-20.0187,0,-5.85391 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:22:6,16:6:216:16:568:-44.8292,0,-13.1679 1/1:164:0,164:0:0:164:5871:-528.499,-49.3689,0 1/1:115:0,115:0:0:115:4120:-370.982,-34.6185,0 0/1:154:82,72:82:2915:72:2576:-185.731,0,-216.227 0/1:115:59,56:59:2120:56:1998:-145.475,0,-156.394 0/1:84:43,41:43:1540:41:1476:-107.85,0,-113.606 0/1:76:38,38:38:1349:38:1368:-100.543,0,-98.83 0/1:75:22,53:22:788:53:1904:-149.06,0,-48.6675 1/1:113:5,108:5:180:108:3875:-332.392,-17.4643,0 1/1:52:1,51:1:36:51:1809:-159.491,-12.0553,0 chr02 23909102 . ATA TTA 11878.7 PASS AB=0.552953;ABP=26.9275;AC=17;AF=0.404762;AN=42;AO=657;CIGAR=1X2M;DP=1427;DPB=1427;DPRA=1.35791;EPP=1421;EPPR=1633.89;GTI=1;LEN=1;MEANALT=1.16667;MQM=59.9254;MQMR=59.9974;NS=21;NUMALT=1;ODDS=6.01785;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23332;QR=26849;RO=763;RPL=656;RPP=1421;RPPR=1633.89;RPR=1;RUN=1;SAF=657;SAP=1429.67;SAR=0;SRF=763;SRP=1659.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:21,37:21:752:37:1313:-101.01,0,-50.5467 0/1:52:15,37:15:534:37:1314:-102.906,0,-32.7407 0/1:44:20,20:20:692:20:712:-52.01,0,-50.2058 0/0:48:48,0:48:1672:0:0:0,-14.4494,-150.764 0/1:164:54,108:54:1896:108:3801:-293.141,0,-121.79 0/1:76:30,46:30:1056:46:1629:-124.019,0,-72.472 0/1:67:26,41:26:905:41:1464:-111.886,0,-61.5949 1/1:113:1,112:1:28:112:3988:-356.308,-31.2167,0 0/1:103:38,65:38:1329:65:2324:-178.413,0,-88.9007 0/1:6:3,3:3:104:3:108:-8.26899,0,-7.89663 0/1:9:1,8:1:36:8:288:-23.5581,0,-0.889005 0/1:20:12,8:12:421:8:288:-20.2468,0,-32.2034 0/0:115:114,1:114:4007:1:36:0,-31.0202,-357.226 0/0:46:46,0:46:1632:0:0:0,-13.8474,-147.168 0/1:89:42,47:42:1498:47:1680:-124.695,0,-108.324 0/1:36:19,17:19:659:17:590:-42.5862,0,-48.7946 0/1:54:19,35:19:658:35:1252:-96.7295,0,-43.2865 0/1:125:73,51:73:2562:51:1807:-125.221,0,-193.142 0/1:79:59,20:59:2081:20:702:-39.7184,0,-163.777 0/0:61:60,1:60:2119:1:36:0,-14.7646,-187.38 0/0:62:62,0:62:2208:0:0:0,-18.6639,-198.985 chr02 23931576 . C A 19034.6 PASS AB=0.533879;ABP=20.0777;AC=17;AF=0.404762;AN=42;AO=1057;CIGAR=1X;DP=2495;DPB=2495;DPRA=0.998133;EPP=2298.26;EPPR=3080.14;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.948;MQMR=59.9958;NS=21;NUMALT=1;ODDS=3.61724;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37792;QR=51391;RO=1437;RPL=0;RPP=2298.26;RPPR=3080.14;RPR=1057;RUN=1;SAF=1057;SAP=2298.26;SAR=0;SRF=1437;SRP=3123.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:51,70:51:1796:70:2508:-189.548,0,-125.493 0/1:98:39,59:39:1396:59:2105:-160.217,0,-96.4382 0/1:114:58,56:58:2063:56:2000:-145.956,0,-151.623 0/0:164:164,0:164:5850:0:0:0,-49.3689,-526.613 0/1:295:120,175:120:4299:175:6264:-474.892,0,-298.282 0/1:164:96,67:96:3437:67:2389:-165.838,0,-260.114 0/1:190:81,109:81:2916:109:3899:-293.903,0,-205.478 1/1:141:0,141:0:0:141:5048:-454.465,-42.4452,0 0/1:161:81,80:81:2908:80:2865:-209.62,0,-213.489 0/1:8:3,5:3:108:5:176:-13.7768,0,-7.66693 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:28:16,12:16:564:12:432:-30.7924,0,-42.6615 0/0:180:179,1:179:6405:1:32:0,-50.9922,-573.343 0/0:126:126,0:126:4503:0:0:0,-37.9298,-405.439 0/1:136:53,83:53:1904:83:2942:-224.073,0,-130.698 0/1:109:50,59:50:1792:59:2116:-157.896,0,-128.75 0/1:126:53,73:53:1904:73:2612:-197.398,0,-133.708 0/1:76:42,34:42:1499:34:1220:-87.2285,0,-112.326 0/1:80:53,27:53:1884:27:968:-63.355,0,-145.756 0/0:105:104,1:104:3719:1:36:0,-28.0099,-331.313 0/0:67:67,0:67:2408:0:0:0,-20.169,-216.976 chr02 23931609 . T C 26152.5 PASS AB=0.462085;ABP=24.087;AC=25;AF=0.595238;AN=42;AO=1403;CIGAR=1X;DP=2453;DPB=2453;DPRA=0.826071;EPP=3049.59;EPPR=2272.21;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9957;MQMR=59.9666;NS=21;NUMALT=1;ODDS=5.98327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49055;QR=37343;RO=1049;RPL=1403;RPP=3049.59;RPPR=2272.21;RPR=0;RUN=1;SAF=1403;SAP=3049.59;SAR=0;SRF=1049;SRP=2280.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:68,51:68:2419:51:1801:-126.547,0,-182.143 0/1:97:58,39:58:2084:39:1357:-93.2236,0,-158.63 0/1:111:55,56:55:1959:56:1988:-145.777,0,-143.17 1/1:158:0,158:0:0:158:5537:-498.461,-47.5627,0 0/1:292:176,116:176:6253:116:4050:-276.788,0,-474.648 0/1:161:66,95:66:2356:95:3340:-252.351,0,-163.833 0/1:190:109,81:109:3843:81:2840:-198.641,0,-288.87 0/0:140:140,0:140:4988:0:0:0,-42.1442,-449.068 0/1:158:80,78:80:2851:78:2714:-196.938,0,-209.265 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:6:5,1:5:176:1:30:-1.19339,0,-14.3788 0/1:26:12,14:12:432:14:472:-34.9732,0,-31.3944 1/1:171:0,171:0:0:171:5927:-533.543,-51.4761,0 1/1:125:0,125:0:0:125:4362:-392.758,-37.6288,0 0/1:135:82,53:82:2923:53:1876:-128.477,0,-222.666 0/1:107:58,49:58:2084:49:1744:-125.034,0,-155.62 0/1:123:73,50:73:2601:50:1759:-121.563,0,-197.31 0/1:76:34,42:34:1204:42:1476:-110.253,0,-85.7876 0/1:79:27,52:27:954:52:1778:-136.517,0,-62.3926 1/1:105:1,103:1:36:103:3599:-320.519,-28.0687,0 1/1:66:0,66:0:0:66:2297:-206.989,-19.868,0 chr02 23931671 . TCC ACC,ACT 51895.5 PASS AB=0.479606,0.516878;ABP=8.14731,6.52863;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1099,863;CIGAR=1X2M,1X1M1X;DP=1968;DPB=1968;DPRA=0.71875,1.18513;EPP=168.036,10.0783;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2,2.23529;MQM=59.9845,59.9143;MQMR=60;NS=21;NUMALT=2;ODDS=4.41775;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39259,30513;QR=20;RO=1;RPL=694,458;RPP=168.036,10.0783;RPPR=5.18177;RPR=405,405;RUN=1,1;SAF=0,0;SAP=2389.46,1876.99;SAR=1099,863;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:135:0,62,73:0:0:62,73:2215,2552:-388.552,-207.955,-189.291,-180.95,0,-158.975 1/2:96:0,48,48:0:0:48,48:1696,1690:-276.052,-137.934,-123.484,-138.471,0,-124.022 1/2:124:0,55,68:0:0:55,68:1979,2372:-354.378,-192.905,-176.348,-161.468,0,-140.998 1/1:53:0,53,0:0:0:53,0:1889,0:-170.287,-15.9546,0,-170.287,-15.9546,-170.287 1/2:179:0,97,81:0:0:97,81:3474,2865:-516.769,-233.452,-204.252,-283.421,0,-259.037 1/2:80:0,35,45:0:0:35,45:1252,1587:-231.666,-129.573,-119.037,-102.449,0,-88.9027 1/2:130:0,45,85:0:0:45,85:1616,3019:-378.151,-246.325,-232.778,-132.184,0,-106.596 2/2:128:0,0,127:0:0:0,127:0,4512:-405.891,-405.891,-405.891,-38.2308,-38.2308,0 1/2:163:1,67,94:1:20:67,94:2400,3328:-465.094,-269.664,-250.992,-194.309,0,-167.509 1/2:8:0,4,4:0:0:4,4:144,144:-23.8592,-12.1095,-10.9054,-12.1095,0,-10.9054 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:30:0,10,20:0:0:10,20:360,702:-86.8584,-57.4813,-54.471,-29.734,0,-23.7134 1/1:123:0,123,0:0:0:123,0:4367,0:-393.205,-37.0267,0,-393.205,-37.0267,-393.205 1/1:105:0,105,0:0:0:105,0:3744,0:-337.159,-31.6082,0,-337.159,-31.6082,-337.159 1/2:139:0,72,66:0:0:72,66:2576,2356:-402.247,-192.188,-170.514,-210.174,0,-190.306 1/2:72:0,32,40:0:0:32,40:1148,1425:-210.142,-116.503,-106.87,-93.9969,0,-81.9557 1/2:76:0,39,37:0:0:39,37:1384,1325:-221.177,-108.414,-96.6741,-113.119,0,-101.981 1/2:113:0,69,44:0:0:69,44:2472,1543:-327.467,-125.863,-105.092,-201.958,0,-188.713 1/2:73:0,45,28:0:0:45,28:1595,985:-210.474,-80.5339,-66.9875,-130.293,0,-121.864 1/1:92:0,91,1:0:0:91,1:3260,36:-293.261,-27.3937,0,-290.323,-24.0965,-290.022 1/1:45:0,45,0:0:0:45,0:1616,0:-145.73,-13.5464,0,-145.73,-13.5464,-145.73 chr02 23931676 . C A 21084.6 PASS AB=0.487926;ABP=4.79313;AC=25;AF=0.595238;AN=42;AO=1098;CIGAR=1X;DP=1946;DPB=1946;DPRA=0.722222;EPP=2352.67;EPPR=1792.67;GTI=0;LEN=1;MEANALT=1;MQM=59.9426;MQMR=59.9458;NS=21;NUMALT=1;ODDS=5.92317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39231;QR=30349;RO=848;RPL=1094;RPP=2352.67;RPPR=1792.67;RPR=4;RUN=1;SAF=0;SAP=2387.29;SAR=1098;SRF=0;SRP=1844.42;SRR=848;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:72,61:72:2569:61:2152:-153.909,0,-191.421 0/1:95:47,48:47:1665:48:1719:-126.396,0,-121.529 0/1:121:66,55:66:2356:55:1963:-140.521,0,-175.874 1/1:55:0,55:0:0:55:1959:-176.584,-16.5567,0 0/1:180:78,102:78:2804:102:3637:-273.35,0,-198.414 0/1:80:45,35:45:1616:35:1256:-89.2629,0,-121.648 0/1:130:84,46:84:3008:46:1652:-108.471,0,-231.806 0/0:126:126,0:126:4501:0:0:0,-37.9298,-405.258 0/1:162:92,70:92:3296:70:2490:-175.586,0,-248.092 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:5:2,3:2:72:3:108:-8.56158,0,-5.33157 0/1:28:19,9:19:684:9:324:-21.077,0,-53.4615 1/1:117:0,117:0:0:117:4181:-376.471,-35.2205,0 1/1:103:0,103:0:0:103:3658:-329.423,-31.0061,0 0/1:139:66,73:66:2376:73:2624:-194.564,0,-172.254 0/1:71:40,31:40:1421:31:1116:-79.3786,0,-106.809 0/1:76:37,39:37:1332:39:1384:-101.981,0,-97.3041 0/1:109:43,66:43:1533:66:2364:-180.204,0,-105.379 0/1:71:26,45:26:936:45:1612:-123.997,0,-63.1863 1/1:92:1,91:1:36:91:3272:-291.101,-24.0965,0 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 chr02 23931683 . G C 15023.5 PASS AB=0.507746;ABP=3.75044;AC=17;AF=0.404762;AN=42;AO=849;CIGAR=1X;DP=1963;DPB=1963;DPRA=1.18588;EPP=1846.59;EPPR=2413.35;GTI=0;LEN=1;MEANALT=1;MQM=59.9364;MQMR=59.9434;NS=21;NUMALT=1;ODDS=5.11847;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30267;QR=39696;RO=1114;RPL=849;RPP=1846.59;RPPR=2413.35;RPR=0;RUN=1;SAF=0;SAP=1846.59;SAR=849;SRF=0;SRP=2422.03;SRR=1114;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:64,69:64:2279:69:2441:-179.905,0,-165.335 0/1:92:47,45:47:1675:45:1589:-115.595,0,-123.34 0/1:120:56,64:56:1992:64:2300:-171.137,0,-143.431 0/0:55:55,0:55:1960:0:0:0,-16.5566,-176.673 0/1:185:104,81:104:3704:81:2885:-204.195,0,-277.873 0/1:79:35,44:35:1248:44:1580:-118.71,0,-88.8435 0/1:132:47,85:47:1671:85:3047:-234.711,0,-109.577 1/1:127:0,127:0:0:127:4534:-408.225,-38.2308,0 0/1:165:71,94:71:2535:94:3326:-249.886,0,-178.731 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.56158 0/1:29:10,19:10:356:19:669:-51.8041,0,-23.6514 0/0:119:119,0:119:4232:0:0:0,-35.8226,-381.06 0/0:105:105,0:105:3714:0:0:0,-31.6081,-334.462 0/1:143:76,67:76:2695:67:2393:-172.578,0,-199.748 0/1:70:31,39:31:1112:39:1382:-103.605,0,-79.3192 0/1:74:37,37:37:1328:37:1332:-97.9062,0,-97.546 0/1:114:70,44:70:2499:44:1569:-107.177,0,-190.84 0/1:72:45,27:45:1612:27:968:-65.7632,0,-123.696 0/0:91:90,1:90:3224:1:36:0,-23.7955,-286.784 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 chr02 23944551 . C G 5610.35 PASS AB=0.409091;ABP=36.1746;AC=25;AF=0.595238;AN=42;AO=326;CIGAR=1X;DP=693;DPB=693;DPRA=0.547414;EPP=710.91;EPPR=786.936;GTI=1;LEN=1;MEANALT=1.1;MQM=60;MQMR=59.9973;NS=21;NUMALT=1;ODDS=0.84359;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11495;QR=12828;RO=365;RPL=326;RPP=710.91;RPPR=795.598;RPR=0;RUN=1;SAF=326;SAP=710.91;SAR=0;SRF=364;SRP=786.936;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:35:30,5:30:1058:5:176:-5.64897,0,-84.9935 0/1:12:6,6:6:216:6:212:-15.8124,0,-16.1782 0/1:25:18,7:18:625:7:248:-15.1384,0,-49.0467 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:82:56,26:56:1978:26:919:-58.3417,0,-153.609 0/0:33:31,2:31:1104:2:72:0,-3.09727,-92.8339 0/1:46:20,26:20:703:26:894:-66.9218,0,-49.7461 0/0:58:58,0:58:2045:0:0:0,-17.4597,-184.32 0/1:35:26,9:26:924:9:324:-18.9698,0,-72.9416 1/1:17:2,15:2:53:15:521:-42.182,-0.0832145,0 1/1:53:3,50:3:108:50:1781:-150.497,-5.87942,0 0/1:43:22,21:22:788:21:748:-54.701,0,-58.3005 1/1:6:0,6:0:0:6:207:-18.9669,-1.80618,0 0/1:10:2,8:2:72:8:284:-22.8931,0,-3.82642 0/1:41:30,10:30:1043:10:356:-19.9806,0,-81.7755 0/1:22:10,12:10:351:12:432:-32.5985,0,-25.304 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06445 0/1:64:31,32:31:1074:32:1101:-80.0697,0,-77.6422 0/1:37:17,20:17:578:20:711:-53.1775,0,-41.1993 1/1:38:0,38:0:0:38:1337:-120.628,-11.4391,0 1/1:17:0,17:0:0:17:596:-53.9664,-5.11751,0 chr02 24021178 . A G 14382.9 PASS AB=0.494136;ABP=3.3923;AC=17;AF=0.404762;AN=42;AO=668;CIGAR=1X;DP=1524;DPB=1524;DPRA=1.75686;EPP=348.482;EPPR=55.6127;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.15468;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23633;QR=30508;RO=856;RPL=668;RPP=1453.55;RPPR=1861.79;RPR=0;RUN=1;SAF=497;SAP=348.482;SAR=171;SRF=500;SRP=55.6127;SRR=356;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:28,30:28:1008:30:1067:-78.8815,0,-73.5766 0/1:28:14,14:14:504:14:500:-36.9073,0,-37.2693 0/1:16:7,9:7:248:9:320:-24.3259,0,-17.8477 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/1:69:42,27:42:1500:27:960:-65.9452,0,-114.524 0/1:26:18,8:18:640:8:288:-18.4406,0,-50.1025 0/1:35:17,18:17:608:18:644:-47.7545,0,-44.516 1/1:35:0,35:0:0:35:1236:-111.544,-10.5361,0 0/1:63:33,30:33:1180:30:1059:-76.6555,0,-87.5432 0/1:125:62,63:62:2188:63:2212:-161.717,0,-159.558 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:90:26,64:26:928:64:2256:-176.211,0,-56.7456 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.772 0/0:52:52,0:52:1825:0:0:0,-15.6536,-164.529 0/1:44:23,21:23:824:21:748:-54.4,0,-61.238 0/1:17:8,9:8:284:9:320:-24.0248,0,-20.7858 0/1:29:14,15:14:504:15:536:-39.8449,0,-36.9682 0/1:613:303,310:303:10804:310:10960:-801.787,0,-787.739 0/1:62:50,12:50:1767:12:419:-19.3788,0,-140.649 0/0:30:29,1:29:1040:1:36:0,-5.43262,-90.3161 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 chr02 24021226 . G C,A 16573.7 PASS AB=0.5425,0.4575;ABP=9.28586,9.28586;AC=25,17;AF=0.595238,0.404762;AN=42;AO=406,221;CIGAR=1X,1X;DP=627;DPB=627;DPRA=0.845714,0.637179;EPP=7.82391,3.25594;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.85,1.94444;MQM=59.9975,59.9955;MQMR=0;NS=21;NUMALT=2;ODDS=1.12526;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=14377,7901;QR=0;RO=0;RPL=406,221;RPP=884.628,482.906;RPPR=0;RPR=0,0;RUN=1,1;SAF=218,113;SAP=7.82391,3.25594;SAR=188,108;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:21:0,14,7:0:0:14,7:504,248:-61.6846,-20.557,-16.3426,-41.4837,0,-39.3765 1/2:34:0,14,20:0:0:14,20:491,720:-99.0605,-59.1082,-54.8938,-40.3067,0,-34.2861 1/2:11:0,7,4:0:0:7,4:252,144:-32.6714,-12.1095,-10.0023,-20.9217,0,-19.7176 1/1:33:0,33,0:0:0:33,0:1175,0:-106.057,-9.93399,0,-106.057,-9.93399,-106.057 1/2:34:0,18,16:0:0:18,16:644,572:-99.5115,-46.9969,-41.5784,-52.8721,0,-48.0556 1/2:18:0,10,8:0:0:10,8:351,288:-52.4197,-23.8592,-20.8489,-28.9164,0,-26.5081 1/2:34:0,20,14:0:0:20,14:697,485:-96.4455,-39.7626,-33.742,-57.0301,0,-52.8156 2/2:35:0,0,35:0:0:0,35:0,1256:-113.345,-113.345,-113.345,-10.5361,-10.5361,0 1/2:40:0,19,21:0:0:19,21:676,752:-116.776,-61.6846,-55.9651,-55.4484,0,-49.1268 1/2:6:0,5,1:0:0:5,1:180,36:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459 1/2:6:0,4,2:0:0:4,2:140,72:-17.6186,-6.23466,-5.03054,-11.7405,0,-11.1384 1/2:14:0,6,8:0:0:6,8:212,284:-40.7598,-23.4951,-21.6889,-17.6186,0,-15.2104 1/1:38:0,36,2:0:0:36,2:1277,72:-114.872,-10.8371,0,-108.996,-4.60242,-108.394 1/1:37:0,37,0:0:0:37,0:1320,0:-119.101,-11.1381,0,-119.101,-11.1381,-119.101 1/2:30:0,17,13:0:0:17,13:589,464:-86.0477,-38.1841,-33.0666,-48.2158,0,-44.3024 1/2:13:0,6,7:0:0:6,7:216,252:-38.5463,-20.9217,-19.1156,-17.9843,0,-15.8771 1/2:11:0,4,7:0:0:4,7:125,252:-30.9466,-20.9217,-19.7176,-10.3545,0,-8.24729 1/2:71:0,33,38:0:0:33,38:1180,1356:-207.118,-110.901,-100.967,-96.5741,0,-85.1349 1/2:57:0,40,17:0:0:40,17:1405,612:-164.643,-50.2959,-38.2547,-114.704,0,-109.586 1/1:24:0,23,1:0:0:23,1:819,36:-73.6719,-6.92369,0,-70.7343,-3.62645,-70.4333 1/1:60:0,60,0:0:0:60,0:2124,0:-191.426,-18.0618,0,-191.426,-18.0618,-191.426 chr02 24021606 . C T 15707.4 PASS AB=0.53299;ABP=12.1797;AC=25;AF=0.595238;AN=42;AO=876;CIGAR=1X;DP=1371;DPB=1371;DPRA=1.66375;EPP=1905.22;EPPR=1075.72;GTI=0;LEN=1;MEANALT=1.05;MQM=39.2432;MQMR=59.5607;NS=21;NUMALT=1;ODDS=4.49229;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31330;QR=17510;RO=494;RPL=0;RPP=1905.22;RPPR=1075.72;RPR=876;RUN=1;SAF=0;SAP=1905.22;SAR=876;SRF=0;SRP=1075.72;SRR=494;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:36,59:36:1284:59:2099:-150.989,0,-87.2656 0/1:50:24,26:24:860:26:936:-66.0716,0,-62.6622 0/1:99:51,47:51:1781:47:1684:-114.509,0,-130.683 1/1:77:0,77:0:0:77:2756:-236.583,-23.1793,0 0/1:76:23,53:23:820:53:1904:-138.979,0,-51.238 0/1:73:34,39:34:1216:39:1404:-100.142,0,-87.7714 0/1:104:55,49:55:1950:49:1751:-120.785,0,-144.459 0/0:40:40,0:40:1415:0:0:0,-12.0412,-127.156 0/1:112:61,51:61:2147:51:1824:-122.253,0,-159.764 0/1:16:6,10:6:207:10:360:-26.6194,0,-14.1351 0/1:13:4,9:4:132:9:324:-24.1489,0,-8.29311 0/1:37:16,21:16:563:21:739:-53.1808,0,-39.8564 1/1:36:0,36:0:0:36:1288:-109.871,-10.8371,0 1/1:102:0,102:0:0:102:3648:-311.928,-30.7051,0 0/1:119:56,63:56:1992:63:2260:-156.669,0,-143.66 0/1:51:32,19:32:1152:19:668:-41.7499,0,-88.6239 0/1:74:35,39:35:1247:39:1395:-96.1031,0,-90.2497 0/1:24:8,16:8:280:16:567:-41.5391,0,-18.3146 0/1:27:11,16:11:392:16:567:-40.638,0,-27.3272 1/1:117:2,115:2:72:115:4116:-348.078,-28.3838,0 1/1:29:0,29:0:0:29:1040:-89.8881,-8.72987,0 chr02 24021653 . TGGG CGAA,CGAG 27429 PASS AB=0.526786,0.468254;ABP=9.29206,11.8341;AC=25,17;AF=0.595238,0.404762;AN=42;AO=896,514;CIGAR=1X1M2X,1X1M1X1M;DP=1418;DPB=1418;DPRA=1.7225,1.09929;EPP=1948.65,1119.15;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.2,2.29412;MQM=39.2109,59.2918;MQMR=0;NS=21;NUMALT=2;ODDS=11.5272;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31716,18100;QR=0;RO=0;RPL=896,514;RPP=1948.65,1119.15;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1948.65,1119.15;SAR=896,514;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,63,37:0:0:63,37:2236,1301:-278.433,-106.243,-87.2784,-172.536,0,-161.398 1/2:50:0,25,25:0:0:25,25:869,879:-139.944,-71.8963,-64.3706,-68.3909,0,-60.8652 1/2:104:0,49,54:0:0:49,54:1726,1925:-289.803,-156.84,-142.09,-132.949,0,-116.693 1/1:79:0,79,0:0:0:79,0:2806,0:-241.139,-23.7814,0,-241.139,-23.7814,-241.139 1/2:83:0,57,26:0:0:57,26:2035,907:-229.194,-73.8376,-56.6789,-155.701,0,-147.874 1/2:74:0,39,35:0:0:39,35:1382,1244:-210.17,-101.728,-89.9878,-108.791,0,-98.2554 1/2:108:0,49,58:0:0:49,58:1733,2056:-303.176,-167.494,-152.744,-135.681,0,-118.222 2/2:40:0,0,40:0:0:0,40:0,1419:-127.735,-127.735,-127.735,-12.0412,-12.0412,0 1/2:117:0,53,64:0:0:53,64:1857,2221:-323.792,-180.781,-164.826,-143.351,0,-124.085 1/2:17:0,11,6:0:0:11,6:393,216:-48.5523,-17.8766,-14.5652,-31.0285,0,-29.2223 1/2:14:0,9,5:0:0:9,5:321,177:-39.5989,-14.7717,-12.0624,-25.1761,0,-23.6709 1/2:38:0,22,16:0:0:22,16:785,567:-107.825,-46.5436,-39.921,-61.6307,0,-56.8143 1/1:36:0,36,0:0:0:36,0:1269,0:-108.396,-10.8371,0,-108.396,-10.8371,-108.396 1/1:106:0,104,0:0:0:104,0:3695,0:-316.212,-31.3071,0,-316.212,-31.3071,-316.212 1/2:123:0,64,58:0:0:64,58:2274,2041:-340.338,-166.071,-146.805,-174.251,0,-156.791 1/2:53:0,19,32:0:0:19,32:663,1134:-143.17,-92.459,-86.7395,-50.7737,0,-41.1408 1/2:74:0,39,35:0:0:39,35:1377,1242:-206.634,-101.545,-89.805,-105.433,0,-94.8971 1/2:26:0,16,10:0:0:16,10:572,340:-71.9747,-27.9155,-23.0991,-44.3989,0,-41.3886 1/2:27:0,16,11:0:0:16,11:570,361:-72.9163,-29.46,-24.6435,-43.7871,0,-40.4758 1/1:120:0,117,2:0:0:117,2:4138,70:-357.257,-35.2205,0,-351.561,-29.5083,-350.959 1/1:29:0,29,0:0:0:29,0:1015,0:-88.5227,-8.72987,0,-88.5227,-8.72987,-88.5227 chr02 24084846 . AAC AAT,GAT 24672.3 PASS AB=0.437984,0.559432;ABP=28.866,26.7562;AC=24,18;AF=0.571429,0.428571;AN=42;AO=699,501;CIGAR=2M1X,1X1M1X;DP=1204;DPB=1204;DPRA=1.81499,0.721781;EPP=1520.87,1090.92;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.94737,1.94118;MQM=60,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.16757;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24939,17423;QR=36;RO=1;RPL=699,501;RPP=1520.87,1090.92;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=699,501;SAP=1520.87,1090.92;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:72:0,18,54:0:0:18,54:644,1900:-207.535,-155.02,-149.601,-52.8721,0,-36.6164 1/2:25:0,5,20:0:0:5,20:180,714:-73.2546,-58.5669,-57.0618,-15.0469,0,-9.02631 1/2:63:0,32,31:0:0:32,31:1144,1099:-183.169,-89.8881,-80.2551,-93.6366,0,-84.3046 1/1:91:0,91,0:0:0:91,0:3260,0:-293.621,-27.3937,0,-293.621,-27.3937,-293.621 1/2:113:0,44,69:0:0:44,69:1571,2408:-324.286,-196.204,-182.959,-128.436,0,-107.664 1/2:48:0,23,25:0:0:23,25:824,845:-136.044,-68.8331,-61.9094,-67.5596,0,-60.0339 1/2:67:0,34,33:0:0:34,33:1220,1161:-194.379,-94.8628,-84.6278,-99.8718,0,-89.9378 2/2:60:0,0,60:0:0:0,60:0,2050:-184.767,-184.767,-184.767,-18.0618,-18.0618,0 1/2:118:0,53,64:0:0:53,64:1879,2243:-335.589,-182.508,-166.553,-153.074,0,-133.808 1/2:10:0,6,4:0:0:6,4:216,139:-29.2804,-11.6484,-9.8422,-17.9843,0,-16.7802 2/2:6:0,0,6:0:0:0,6:0,210:-19.2421,-19.2421,-19.2421,-1.80618,-1.80618,0 1/2:18:0,12,6:0:0:12,6:432,214:-53.0528,-17.8016,-14.1892,-35.6088,0,-33.8027 1/1:108:0,107,0:0:0:107,0:3815,0:-343.294,-32.2102,0,-343.294,-32.2102,-343.294 1/1:60:0,59,0:0:0:59,0:2116,0:-190.349,-17.7608,0,-190.349,-17.7608,-190.349 1/2:64:1,25,38:1:36:25,38:892,1299:-174.891,-102.469,-97.8808,-69.7767,0,-61.2751 1/2:42:0,19,23:0:0:19,23:667,812:-120.761,-66.4779,-60.7583,-54.6351,0,-47.7114 1/2:35:0,12,23:0:0:12,23:432,801:-100.735,-65.4823,-61.87,-35.6088,0,-28.6851 1/2:58:0,28,30:0:0:28,30:993,1013:-163.348,-82.4405,-74.0117,-81.2537,0,-72.2228 1/2:41:0,28,13:0:0:28,13:992,446:-117.373,-36.5542,-28.1254,-81.1656,0,-77.2522 1/1:68:0,66,2:0:0:66,2:2350,69:-211.414,-19.868,0,-205.809,-13.9175,-205.207 1/1:37:0,37,0:0:0:37,0:1312,0:-118.38,-11.1381,0,-118.38,-11.1381,-118.38 chr02 24098273 . CTG GTC 22737.5 PASS AB=0.491546;ABP=4.03834;AC=25;AF=0.595238;AN=42;AO=1331;CIGAR=1X1M1X;DP=2280;DPB=2280;DPRA=1.06765;EPP=2893.24;EPPR=2057.22;GTI=0;LEN=3;MEANALT=1.1;MQM=54.1901;MQMR=40.0803;NS=21;NUMALT=1;ODDS=2.94274;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44664;QR=33107;RO=946;RPL=0;RPP=2893.24;RPPR=2057.22;RPR=1331;RUN=1;SAF=0;SAP=2893.24;SAR=1331;SRF=0;SRP=2057.22;SRR=946;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:60,68:60:2090:68:2298:-168.032,0,-142.568 0/1:133:67,66:67:2355:66:2226:-159.536,0,-158.037 0/1:170:100,69:100:3535:69:2339:-159.072,0,-255.817 1/1:87:0,87:0:0:87:2888:-259.143,-26.1896,0 0/1:266:147,119:147:5148:119:4079:-286.457,0,-366.538 0/1:120:64,56:64:2229:56:1877:-131.854,0,-152.214 0/1:160:78,82:78:2740:82:2759:-199.464,0,-184.554 0/0:102:101,0:101:3429:0:0:0,-30.404,-294.95 0/1:138:74,64:74:2585:64:2136:-150.281,0,-185.924 0/1:14:10,4:10:352:4:117:-6.60127,0,-25.2944 0/1:4:1,3:1:36:3:99:-8.0145,0,-0.979031 0/1:19:8,11:8:286:11:379:-28.6818,0,-19.2987 1/1:132:1,131:1:36:131:4402:-392.343,-36.2333,0 1/1:161:1,160:1:36:160:5303:-473.183,-44.9631,0 0/1:186:87,99:87:3108:99:3319:-242.594,0,-212.476 0/1:84:45,39:45:1562:39:1307:-92.2729,0,-112.126 0/1:74:39,35:39:1384:35:1163:-82.6262,0,-99.6289 0/1:89:39,50:39:1347:50:1704:-125.959,0,-87.7639 0/1:70:21,49:21:746:49:1622:-125.04,0,-44.0741 1/1:92:3,89:3:103:89:3005:-260.928,-18.4011,0 1/1:50:0,50:0:0:50:1642:-147.577,-15.0515,0 chr02 24098280 . CAAAC CGAAC,TGAAG 44519.2 PASS AB=0.484812,0.509721;ABP=6.30841,4.3612;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1308,946;CIGAR=1M1X3M,2X2M1X;DP=2265;DPB=2265;DPRA=1.06029,1.64783;EPP=2834.62,2057.22;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.45,2.52632;MQM=54.2607,40.0412;MQMR=0;NS=21;NUMALT=2;ODDS=3.72718;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46512,32891;QR=0;RO=0;RPL=1,0;RPP=2834.62,2057.22;RPPR=0;RPR=1307,946;RUN=1,1;SAF=0,0;SAP=2843.3,2057.22;SAR=1308,946;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:129:0,69,60:0:0:69,60:2463,2069:-362.523,-161.974,-141.203,-200.893,0,-182.832 1/2:133:0,66,66:0:0:66,66:2357,2337:-367.936,-176.956,-157.088,-191.091,0,-171.223 1/2:169:0,67,100:0:0:67,100:2400,3476:-467.171,-272.142,-251.973,-195.05,0,-164.947 1/1:87:0,87,0:0:0:87,0:3086,0:-277.111,-26.1896,0,-277.111,-26.1896,-277.111 1/2:264:0,116,146:0:0:116,146:4142,5103:-735.718,-398.775,-363.855,-336.99,0,-293.04 1/2:120:0,56,64:0:0:56,64:1982,2224:-328.847,-168.843,-151.985,-160.343,0,-141.078 1/2:157:0,79,78:0:0:79,78:2803,2686:-433.186,-205.839,-182.058,-227.687,0,-204.206 2/2:102:0,0,102:0:0:0,102:0,3498:-300.286,-300.286,-300.286,-30.7051,-30.7051,0 1/2:137:0,62,74:0:0:62,74:2196,2574:-382.795,-204.377,-185.713,-178.411,0,-156.135 1/2:14:0,4,10:0:0:4,10:140,358:-38.4179,-27.0374,-25.8333,-11.7244,0,-8.71411 1/2:4:0,3,1:0:0:3,1:108,30:-10.7322,-1.83545,-0.932363,-9.14675,0,-8.84572 1/2:19:0,11,8:0:0:11,8:396,280:-54.4464,-22.1722,-18.8609,-32.6204,0,-30.2122 1/1:131:0,130,1:0:0:130,1:4614,35:-414.295,-39.1339,0,-411.517,-36.0139,-411.216 1/1:160:0,158,1:0:0:158,1:5599,30:-502.887,-47.5627,0,-500.512,-45.144,-500.211 1/2:186:0,96,88:0:0:96,88:3427,3101:-518.95,-239.985,-211.086,-279.003,0,-252.512 1/2:82:0,37,45:0:0:37,45:1316,1548:-229.777,-122.843,-111.705,-107.28,0,-93.7337 1/2:74:0,35,39:0:0:35,39:1235,1378:-210.43,-109.954,-99.4178,-100.825,0,-89.085 1/2:89:0,49,39:0:0:49,39:1760,1349:-245.86,-102.694,-87.9433,-143.27,0,-131.53 1/2:69:0,48,21:0:0:48,21:1695,711:-193.844,-56.0786,-41.6291,-138.102,0,-131.78 1/1:90:0,86,3:0:0:86,3:3072,104:-275.789,-25.8886,0,-267.642,-17.7488,-266.739 1/1:49:0,49,0:0:0:49,0:1721,0:-154.374,-14.7505,0,-154.374,-14.7505,-154.374 chr02 24098296 . CA CG,GG 45043.5 PASS AB=0.489388,0.508187;ABP=4.62343,3.97028;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1320,943;CIGAR=1M1X,2X;DP=2267;DPB=2267;DPRA=1.0835,1.64938;EPP=2869.35,2050.71;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.1,2.15789;MQM=54.1955,40.0435;MQMR=0;NS=21;NUMALT=2;ODDS=2.41673;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47028,33257;QR=0;RO=0;RPL=1320,943;RPP=2869.35,2050.71;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2869.35,2050.71;SAR=1320,943;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,70,60:0:0:70,60:2495,2091:-366.588,-163.466,-142.394,-203.467,0,-185.405 1/2:132:0,65,67:0:0:65,67:2332,2366:-367.955,-179.207,-159.64,-189.091,0,-168.922 1/2:170:0,68,101:0:0:68,101:2420,3576:-475.929,-279.35,-258.88,-196.697,0,-166.293 1/1:87:0,87,0:0:0:87,0:3093,0:-277.83,-26.1896,0,-277.83,-26.1896,-277.83 1/2:265:0,119,146:0:0:119,146:4255,5138:-747.423,-401.353,-365.531,-346.418,0,-302.467 1/2:121:0,57,64:0:0:57,64:2036,2285:-336.842,-172.7,-155.542,-164.485,0,-145.219 1/2:158:0,82,75:0:0:82,75:2911,2634:-437.008,-200.993,-176.308,-236.019,0,-213.441 2/2:100:0,0,100:0:0:0,100:0,3525:-301.036,-301.036,-301.036,-30.103,-30.103,0 1/2:137:0,63,74:0:0:63,74:2244,2605:-389.203,-206.992,-188.028,-182.56,0,-160.284 1/2:14:0,4,10:0:0:4,10:144,358:-38.72,-26.9802,-25.776,-12.0906,0,-9.08032 1/2:4:0,3,1:0:0:3,1:108,21:-10.465,-1.5466,-0.643508,-9.14675,0,-8.84572 1/2:19:0,11,8:0:0:11,8:396,284:-54.7433,-22.4715,-19.1602,-32.6204,0,-30.2122 1/1:132:0,131,1:0:0:131,1:4679,36:-420.127,-39.4349,0,-417.275,-36.2333,-416.974 1/1:157:0,156,1:0:0:156,1:5533,36:-496.882,-46.9607,0,-494.031,-43.759,-493.73 1/2:186:0,97,89:0:0:97,89:3467,3165:-527.407,-245.228,-216.028,-282.526,0,-255.734 1/2:81:0,36,45:0:0:36,45:1292,1567:-229.374,-124.577,-113.74,-105.147,0,-91.6002 1/2:74:0,35,38:0:0:35,38:1234,1364:-208.731,-108.348,-97.8116,-100.48,0,-89.0414 1/2:88:0,48,39:0:0:48,39:1706,1361:-242.145,-103.63,-89.1801,-138.511,0,-126.77 1/2:70:0,49,21:0:0:49,21:1740,739:-199.969,-58.4352,-43.6848,-141.879,0,-135.557 1/1:93:0,90,3:0:0:90,3:3208,106:-287.874,-27.0927,0,-279.587,-18.4649,-278.684 1/1:49:0,49,0:0:0:49,0:1735,0:-155.739,-14.7505,0,-155.739,-14.7505,-155.739 chr02 24105481 . A T 4637.78 PASS AB=0.183617;ABP=4089.39;AC=15;AF=0.357143;AN=42;AO=866;CIGAR=1X;DP=5551;DPB=5551;DPRA=2.93792;EPP=1866.17;EPPR=10120;GTI=6;LEN=1;MEANALT=1.05556;MQM=59.9423;MQMR=59.9174;NS=21;NUMALT=1;ODDS=4.4189;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30940;QR=167611;RO=4683;RPL=2;RPP=1866.17;RPPR=10120;RPR=864;RUN=1;SAF=866;SAP=1883.51;SAR=0;SRF=4683;SRP=10172;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:363:313,50:313:11155:50:1800:-53.0083,0,-893.831 0/1:264:224,40:224:7988:40:1425:-49.0674,0,-639.45 0/1:251:205,46:205:7304:46:1644:-72.6901,0,-581.849 0/0:216:215,1:215:7689:1:36:0,-61.4242,-688.44 0/1:622:505,117:505:18046:117:4182:-189.319,0,-1436.39 0/1:268:221,47:221:7917:47:1669:-69.8193,0,-631.839 0/1:436:371,65:371:13317:65:2336:-79.2456,0,-1066.98 0/1:496:362,134:362:12948:134:4775:-280.585,0,-1015.04 0/1:598:488,110:488:17476:110:3952:-175.854,0,-1392.43 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:17:13,4:13:468:4:144:-8.19611,0,-37.297 0/1:55:44,11:44:1572:11:396:-19.4261,0,-125.215 0/0:192:192,0:192:6836:0:0:0,-57.7978,-615.308 0/0:192:191,1:191:6841:1:36:0,-54.1995,-612.158 0/1:503:408,94:408:14619:94:3365:-151.587,0,-1163.18 0/1:228:190,38:190:6821:38:1364:-54.424,0,-545.321 0/1:250:201,49:201:7198:49:1730:-80.7233,0,-572.603 0/1:201:164,37:164:5900:37:1298:-56.6025,0,-470.599 0/1:148:127,21:127:4560:21:752:-23.4538,0,-366.012 0/0:145:144,1:144:5176:1:36:0,-40.0511,-462.371 0/0:95:94,0:94:3384:0:0:0,-28.2968,-303.714 chr02 24105483 . A G 23599 PASS AB=0.353645;ABP=873.16;AC=16;AF=0.380952;AN=42;AO=1655;CIGAR=1X;DP=5513;DPB=5513;DPRA=1.64195;EPP=3596.8;EPPR=8311.17;GTI=1;LEN=1;MEANALT=1.17647;MQM=59.9438;MQMR=59.9037;NS=21;NUMALT=1;ODDS=16.6987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58955;QR=137236;RO=3854;RPL=0;RPP=3596.8;RPPR=8311.17;RPR=1655;RUN=1;SAF=1655;SAP=3596.8;SAR=0;SRF=3854;SRP=8371.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:357:224,133:224:7981:133:4730:-318.391,0,-610.123 0/1:261:156,104:156:5495:104:3719:-256.273,0,-416.042 0/1:248:169,79:169:6007:79:2808:-178.303,0,-465.448 0/0:211:211,0:211:7476:0:0:0,-63.5173,-672.884 0/1:617:431,186:431:15355:186:6642:-412.121,0,-1195.92 0/1:271:158,113:158:5648:113:4022:-280.585,0,-426.855 0/1:432:289,142:289:10287:142:5070:-326.487,0,-795.641 0/1:490:258,232:258:9139:232:8175:-587.487,0,-674.987 0/1:596:406,188:406:14518:188:6740:-426.973,0,-1126.98 0/1:11:1,10:1:36:10:360:-29.433,0,-0.286945 0/1:17:14,3:14:500:3:108:-4.95766,0,-40.1735 0/1:54:39,15:39:1396:15:540:-32.6809,0,-109.683 0/0:193:193,0:193:6829:0:0:0,-58.0988,-614.682 0/0:192:192,0:192:6850:0:0:0,-57.7978,-616.568 0/1:499:344,155:344:12243:155:5522:-346.891,0,-951.505 0/1:227:130,97:130:4645:97:3460:-243.276,0,-349.877 0/1:249:140,109:140:4990:109:3897:-275.966,0,-374.279 0/1:201:145,56:145:5192:56:1978:-117.784,0,-406.723 0/1:147:115,32:115:4105:32:1148:-59.3784,0,-325.383 0/0:145:144,1:144:5152:1:36:0,-40.0511,-460.204 0/0:95:95,0:95:3392:0:0:0,-28.5978,-304.796 chr02 24105485 . C A 26097.1 PASS AB=0.33967;ABP=1236.16;AC=21;AF=0.5;AN=42;AO=1876;CIGAR=1X;DP=5523;DPB=5523;DPRA=0;EPP=4068.01;EPPR=7857.34;GTI=2;LEN=1;MEANALT=1.09524;MQM=59.8913;MQMR=59.9481;NS=21;NUMALT=1;ODDS=0.386108;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67299;QR=130491;RO=3645;RPL=1;RPP=4068.01;RPPR=7857.34;RPR=1875;RUN=1;SAF=1876;SAP=4076.69;SAR=0;SRF=3645;SRP=7918.03;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:362:241,120:241:8618:120:4305:-278.491,0,-665.953 0/1:262:175,87:175:6260:87:3128:-202.869,0,-484.59 0/1:249:179,70:179:6388:70:2520:-152.09,0,-500.053 0/1:214:111,103:111:3960:103:3689:-267.788,0,-292.172 0/1:617:399,218:399:14294:218:7813:-517.441,0,-1100.48 0/1:270:214,56:214:7660:56:2008:-99.6976,0,-608.125 0/1:431:282,149:282:10116:149:5352:-352.034,0,-780.496 0/1:494:371,123:371:13237:123:4428:-249.98,0,-1041.64 0/1:591:406,185:406:14534:185:6628:-418.676,0,-1129.9 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.433 0/1:17:11,6:11:396:6:216:-14.6274,0,-30.8652 0/1:55:38,17:38:1364:17:612:-38.8568,0,-106.504 0/1:191:109,82:109:3916:82:2926:-206.076,0,-295.135 0/1:193:92,100:92:3285:100:3570:-263.347,0,-237.711 0/1:503:328,175:328:11759:175:6277:-413.602,0,-906.744 0/1:226:162,64:162:5810:64:2291:-138.418,0,-454.973 0/1:251:194,57:194:6964:57:2052:-109.382,0,-551.263 0/1:201:131,70:131:4678:70:2520:-166.544,0,-360.587 0/1:147:93,54:93:3348:54:1944:-130.985,0,-257.284 0/1:144:61,83:61:2184:83:2972:-224.343,0,-153.478 0/1:94:38,56:38:1360:56:2012:-152.355,0,-94.4038 chr02 24105492 . A G 1295.51 PASS AB=0.143565;ABP=5567.98;AC=15;AF=0.357143;AN=42;AO=725;CIGAR=1X;DP=5839;DPB=5839;DPRA=2.01491;EPP=1577.33;EPPR=10950;GTI=10;LEN=1;MEANALT=1.0625;MQM=59.8469;MQMR=59.9247;NS=21;NUMALT=1;ODDS=0.573311;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25891;QR=180211;RO=5113;RPL=0;RPP=1577.33;RPPR=10950;RPR=725;RUN=1;SAF=725;SAP=1577.33;SAR=0;SRF=5113;SRP=11105.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:405:338,67:338:11844:67:2408:-95.0141,0,-943.773 0/1:269:241,28:241:8502:28:989:-8.33724,0,-684.159 0/1:272:233,39:233:8252:39:1400:-44.419,0,-660.815 0/0:195:195,0:195:6866:0:0:0,-58.7008,-618.011 0/1:655:568,87:568:20053:87:3120:-83.8394,0,-1607.03 0/1:278:246,31:246:8554:31:1108:-16.3699,0,-686.22 0/1:472:400,72:400:14062:72:2557:-88.2864,0,-1123.12 0/1:553:448,105:448:15901:105:3749:-171.135,0,-1264.32 0/1:641:547,94:547:19232:94:3334:-107.316,0,-1536.91 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/1:20:17,3:17:608:3:104:-3.68221,0,-48.9863 0/1:64:51,13:51:1801:13:468:-23.1891,0,-143.104 0/0:176:176,0:176:6148:0:0:0,-52.9813,-553.424 0/0:185:185,0:185:6551:0:0:0,-55.6905,-589.676 0/1:546:471,75:471:16717:75:2688:-77.7512,0,-1339.35 0/1:246:211,35:211:7457:35:1260:-39.6521,0,-597.12 0/1:258:231,27:231:8031:27:972:-10.126,0,-645.157 0/1:214:189,25:189:6719:25:885:-15.5461,0,-540.176 0/1:150:127,23:127:4434:23:813:-28.3346,0,-354.078 0/0:137:137,0:137:4831:0:0:0,-41.2411,-434.928 0/0:91:91,0:91:3252:0:0:0,-27.3937,-292.201 chr02 24105588 . G T 2422.76 PASS AB=0.159299;ABP=3971.42;AC=10;AF=0.238095;AN=42;AO=735;CIGAR=1X;DP=6841;DPB=6841;DPRA=2.66495;EPP=1599.04;EPPR=13257.7;GTI=6;LEN=1;MEANALT=1.125;MQM=59.951;MQMR=59.9631;NS=21;NUMALT=1;ODDS=24.3815;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26330;QR=216650;RO=6104;RPL=0;RPP=1599.04;RPPR=13257.7;RPR=735;RUN=1;SAF=0;SAP=1599.04;SAR=735;SRF=0;SRP=13257.7;SRR=6104;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:511:478,33:478:17036:33:1176:0,-47.6799,-1426.46 0/0:232:212,20:212:7565:20:720:0,-4.71018,-615.762 0/1:422:336,86:336:11926:86:3077:-150.123,0,-946.166 0/0:249:249,0:249:8823:0:0:0,-74.9565,-794.064 0/0:727:697,30:697:24699:30:1080:0,-121.336,-2124.46 0/1:226:197,29:197:7018:29:1036:-25.5211,0,-563.653 0/1:513:451,62:451:15894:62:2232:-46.7152,0,-1275.74 0/1:693:569,124:569:20202:124:4438:-190.968,0,-1608.94 0/1:695:611,84:611:21732:84:3023:-63.0838,0,-1746.12 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:6:6,0:6:207:0:0:0,-1.80618,-18.9669 0/1:22:16,6:16:576:6:212:-12.8021,0,-45.5523 0/0:358:358,0:358:12797:0:0:0,-107.769,-1151.55 0/0:249:248,1:248:8695:1:36:0,-71.3582,-778.879 0/1:704:571,133:571:20313:133:4763:-216.83,0,-1615.63 0/0:249:226,23:226:8046:23:824:0,-0.473149,-649.678 0/1:257:219,38:219:7807:38:1368:-46.0561,0,-625.287 0/1:242:196,44:196:6939:44:1557:-67.8128,0,-551.959 0/1:162:141,21:141:4914:21:752:-19.2394,0,-393.65 0/0:219:218,1:218:7748:1:36:0,-62.3273,-693.755 0/0:100:100,0:100:3533:0:0:0,-30.103,-318.181 chr02 24105610 . 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A G 33629 PASS AB=0.481456;ABP=7.35921;AC=25;AF=0.595238;AN=42;AO=1347;CIGAR=1X;DP=2209;DPB=2209;DPRA=1.01202;EPP=11.1368;EPPR=8.11742;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.04654;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47169;QR=30743;RO=861;RPL=0;RPP=2927.98;RPPR=1863.97;RPR=1347;RUN=1;SAF=638;SAP=11.1368;SAR=709;SRF=454;SRP=8.58148;SRR=407;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:48,40:48:1716:40:1413:-100.654,0,-127.914 0/1:57:33,24:33:1169:24:847:-59.39,0,-88.3566 0/1:46:31,15:31:1103:15:512:-32.555,0,-85.7324 1/1:103:0,103:0:0:103:3592:-323.49,-31.0061,0 0/1:150:83,67:83:2960:67:2343:-165.973,0,-221.477 0/1:101:56,45:56:1978:45:1589:-112.894,0,-147.887 0/1:138:83,55:83:2984:55:1952:-134.411,0,-227.249 0/0:104:104,0:104:3711:0:0:0,-31.3071,-334.192 0/1:169:78,91:78:2783:91:3178:-235.369,0,-199.837 0/1:17:7,10:7:252:10:345:-26.2633,0,-17.9114 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:38:16,22:16:572:22:777:-58.8112,0,-40.3743 1/1:173:1,172:1:36:172:6036:-539.75,-48.4799,0 1/1:127:0,127:0:0:127:4484:-403.731,-38.2308,0 0/1:140:87,53:87:3124:53:1823:-122.199,0,-239.242 0/1:79:45,34:45:1594:34:1224:-86.6857,0,-119.967 0/1:57:26,31:26:936:31:1067:-79.1752,0,-67.4008 0/1:170:89,81:89:3195:81:2831:-203.855,0,-236.597 0/1:200:70,130:70:2486:130:4543:-348.837,0,-163.787 1/1:82:1,81:1:36:81:2790:-247.74,-21.0862,0 1/1:164:1,163:1:36:163:5715:-510.876,-45.7706,0 chr02 24126026 . A G 19592.6 PASS AB=0.503063;ABP=3.13003;AC=17;AF=0.404762;AN=42;AO=845;CIGAR=1X;DP=2254;DPB=2254;DPRA=0.904367;EPP=4.61642;EPPR=16.0638;GTI=0;LEN=1;MEANALT=1.05263;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.82399;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29956;QR=50391;RO=1408;RPL=845;RPP=1837.9;RPPR=3034.44;RPR=0;RUN=1;SAF=435;SAP=4.61642;SAR=410;SRF=655;SRP=17.822;SRR=753;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:45,44:45:1616:44:1564:-114.26,0,-118.938 0/1:57:24,33:24:856:33:1184:-89.7096,0,-60.2024 0/1:42:14,28:14:504:28:992:-76.9511,0,-33.0548 0/0:104:104,0:104:3723:0:0:0,-31.3071,-335.271 0/1:155:73,81:73:2615:81:2896:-214.306,0,-189.026 0/1:101:43,58:43:1540:58:2064:-155.627,0,-108.489 0/1:140:59,81:59:2108:81:2864:-215.853,0,-147.845 1/1:102:0,102:0:0:102:3621:-326.095,-30.7051,0 0/1:167:92,75:92:3272:75:2652:-188.656,0,-244.427 0/1:16:9,7:9:324:7:243:-17.391,0,-24.6894 0/1:5:3,2:3:108:2:68:-4.95256,0,-8.57002 0/1:38:23,15:23:815:15:532:-36.7739,0,-62.2316 0/0:184:183,1:183:6568:1:36:0,-51.7912,-587.601 0/0:131:131,0:131:4704:0:0:0,-39.4349,-423.518 0/1:139:55,84:55:1967:84:2980:-226.589,0,-135.461 0/1:78:33,45:33:1184:45:1600:-120.809,0,-83.388 0/1:63:36,27:36:1269:27:960:-67.7514,0,-95.5459 0/1:174:84,90:84:3011:90:3170:-233.148,0,-218.841 0/1:205:136,69:136:4864:69:2430:-157.245,0,-376.203 0/0:85:84,1:84:3008:1:36:0,-21.9893,-267.353 0/0:179:177,2:177:6335:2:64:0,-47.8057,-564.162 chr02 24127214 . CCTCT TCTCT,TCTCC 54301.4 PASS AB=0.524846,0.472362;ABP=12.614,14.8934;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1576,998;CIGAR=1X4M,1X3M1X;DP=2581;DPB=2581.2;DPRA=0.84,1.17627;EPP=3425.25,2170.14;EPPR=7.35324;GTI=0;LEN=1,5;MEANALT=2.15,2.21053;MQM=34.8737,49.7876;MQMR=42;NS=21;NUMALT=2;ODDS=5.53366;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,32;PQR=0;PRO=0;QA=48457,35180;QR=72;RO=2;RPL=1303,557;RPP=1464.76,32.2882;RPPR=7.35324;RPR=273,441;RUN=1,1;SAF=1303,557;SAP=1464.76,32.2882;SAR=273,441;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:129:0,52,77:0:0:52,77:1550,2709:-324.206,-214.131,-198.477,-110.374,0,-87.1945 1/2:96:0,68,28:0:0:68,28:2189,966:-245.208,-78.7764,-58.3063,-166.765,0,-158.336 1/2:88:0,33,55:0:0:33,55:994,1955:-225.166,-154.332,-144.398,-71.1332,0,-54.5765 1/1:99:1,98,0:1:36:98,0:2938,0:-235.465,-26.2993,0,-235.766,-29.5009,-238.619 1/2:240:0,123,116:0:0:123,116:3671,4109:-585.338,-324.93,-287.903,-260.463,0,-225.544 1/2:165:0,94,69:0:0:94,69:3087,2422:-435.646,-197.101,-168.804,-238.522,0,-217.751 1/2:264:0,157,106:0:0:157,106:5167,3741:-703.518,-304.287,-257.025,-399.209,0,-367.3 2/2:145:0,0,145:0:0:0,145:0,5123:-461.195,-461.195,-461.195,-43.6494,-43.6494,0 1/2:170:0,89,81:0:0:89,81:2816,2848:-430.216,-227.162,-200.371,-203.371,0,-178.987 1/2:16:0,13,3:0:0:13,3:377,102:-35.0461,-8.61329,-4.6999,-26.7577,0,-25.8546 1/1:14:0,13,1:0:0:13,1:412,36:-34.8497,-3.91339,0,-31.9079,-0.616145,-31.6069 1/2:42:0,25,17:0:0:25,17:726,598:-100.022,-49.0292,-41.5034,-51.3075,0,-46.19 1/1:113:0,113,0:0:0:113,0:3367,0:-273.359,-34.0164,0,-273.359,-34.0164,-273.359 1/1:107:1,105,1:1:36:105,1:3156,31:-253.213,-28.735,0,-251.055,-29.1708,-253.606 1/2:202:0,81,121:0:0:81,121:2434,4305:-511.94,-338.953,-314.569,-173.287,0,-136.863 1/2:109:0,43,66:0:0:43,66:1335,2333:-281.61,-186.07,-173.126,-95.8459,0,-75.978 1/2:60:0,25,34:0:0:25,34:776,1209:-150.745,-95.2227,-87.6969,-55.5793,0,-45.3443 1/2:109:0,73,36:0:0:73,36:2127,1226:-249.981,-99.7992,-77.8241,-150.496,0,-139.659 1/2:101:0,64,37:0:0:64,37:1905,1288:-235.417,-100.376,-81.1106,-135.35,0,-124.212 1/1:140:0,137,3:0:0:137,3:3992,108:-323.45,-41.2411,0,-314.636,-32.069,-313.732 1/1:172:0,170,2:0:0:170,2:5438,71:-463.579,-51.1751,0,-457.793,-45.0351,-457.191 chr02 24127236 . A G 59564.8 PASS AB=0.535382;ABP=33.4357;AC=26;AF=0.619048;AN=42;AO=2521;CIGAR=1X;DP=3976;DPB=3976;DPRA=1.29324;EPP=3369.64;EPPR=539.229;GTI=0;LEN=1;MEANALT=1.1;MQM=44.499;MQMR=53.0213;NS=21;NUMALT=1;ODDS=0.585742;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89775;QR=52002;RO=1453;RPL=1558;RPP=307.951;RPPR=390.2;RPR=963;RUN=1;SAF=1286;SAP=5.25068;SAR=1235;SRF=554;SRP=180.89;SRR=899;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:236:137,99:137:4896:99:3513:-212.448,0,-362.859 0/1:99:31,68:31:1116:68:2422:-162.392,0,-70.9057 0/1:163:96,67:96:3428:67:2396:-147.13,0,-254.322 1/1:227:0,227:0:0:227:8075:-667.94,-68.3338,0 0/1:348:154,193:154:5492:193:6849:-441.055,0,-379.019 0/1:173:77,96:77:2746:96:3415:-227.282,0,-195.295 0/1:263:109,154:109:3908:154:5503:-373.434,0,-272.404 0/0:148:148,0:148:5311:0:0:0,-44.5524,-478.09 0/1:419:193,226:193:6905:226:8040:-554.154,0,-489.859 0/1:25:3,22:3:108:22:788:-54.8528,0,-2.54942 1/1:14:1,13:1:36:13:468:-33.2177,-0.616145,0 0/1:48:17,31:17:612:31:1108:-69.2789,0,-40.964 1/1:194:0,194:0:0:194:6911:-554.486,-58.3998,0 1/1:191:1,190:1:36:190:6714:-537.92,-53.994,0 0/1:381:212,169:212:7588:169:5990:-374.982,0,-556.07 0/1:175:97,78:97:3460:78:2776:-174.426,0,-254.804 0/1:134:68,65:68:2440:65:2313:-152.938,0,-175.953 0/1:147:36,111:36:1296:111:3961:-263.829,0,-72.6925 0/1:187:68,119:68:2444:119:4243:-285.727,0,-158.711 1/1:235:3,232:3:108:232:8306:-650.009,-60.6669,0 1/1:169:2,167:2:72:167:5984:-467.735,-44.0373,0 chr02 24233965 . G A 34402.7 PASS AB=0.541353;ABP=30.668;AC=25;AF=0.595238;AN=42;AO=1741;CIGAR=1X;DP=2682;DPB=2682;DPRA=1.56566;EPP=3774.86;EPPR=2037.69;GTI=1;LEN=1;MEANALT=1;MQM=59.6979;MQMR=59.7513;NS=21;NUMALT=1;ODDS=9.10507;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62279;QR=33714;RO=941;RPL=1740;RPP=3774.86;RPPR=2037.69;RPR=1;RUN=1;SAF=0;SAP=3783.54;SAR=1741;SRF=0;SRP=2046.37;SRR=941;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:192:95,97:95:3408:97:3480:-254.981,0,-249.129 0/1:83:33,50:33:1180:50:1794:-136.75,0,-81.5226 0/1:99:42,57:42:1494:57:2048:-154.715,0,-104.951 1/1:211:0,211:0:0:211:7548:-679.319,-63.5173,0 0/1:247:113,134:113:4029:134:4781:-356.062,0,-288.353 0/1:191:110,81:110:3935:81:2889:-202.722,0,-296.792 0/1:297:105,192:105:3764:192:6868:-528.733,0,-249.444 0/0:83:83,0:83:2984:0:0:0,-24.9855,-268.787 0/1:223:105,118:105:3776:118:4232:-311.559,0,-272.904 0/1:23:3,20:3:108:20:716:-57.7093,0,-3.15148 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:48:12,36:12:432:36:1292:-102.134,0,-24.7671 1/1:198:1,197:1:36:197:7072:-633.787,-56.8677,0 1/1:187:0,187:0:0:187:6681:-601.33,-56.2926,0 0/1:192:95,97:95:3400:97:3476:-255.251,0,-248.407 0/1:89:56,33:56:2012:33:1157:-77.6415,0,-154.555 0/1:98:47,51:47:1684:51:1805:-133.227,0,-122.344 0/1:42:25,17:25:900:17:608:-42.3995,0,-68.6731 0/1:33:9,24:9:320:24:864:-68.1486,0,-19.2084 1/1:110:3,107:3:108:107:3824:-334.26,-23.0381,0 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 chr02 24233978 . G C 15659.2 PASS AB=0.456757;ABP=33.0588;AC=17;AF=0.404762;AN=42;AO=932;CIGAR=1X;DP=2680;DPB=2680;DPRA=0.762472;EPP=2026.82;EPPR=3798.74;GTI=1;LEN=1;MEANALT=1;MQM=59.794;MQMR=59.6116;NS=21;NUMALT=1;ODDS=8.15133;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33338;QR=62584;RO=1748;RPL=932;RPP=2026.82;RPPR=3798.74;RPR=0;RUN=1;SAF=0;SAP=2026.82;SAR=932;SRF=0;SRP=3798.74;SRR=1748;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:191:99,92:99:3540:92:3289:-238.729,0,-260.682 0/1:84:50,34:50:1792:34:1220:-84.8121,0,-136.263 0/1:99:57,42:57:2040:42:1489:-104.501,0,-153.438 0/0:211:211,0:211:7522:0:0:0,-63.5173,-676.986 0/1:249:136,113:136:4872:113:4029:-287.751,0,-363.648 0/1:188:81,107:81:2904:107:3817:-287.097,0,-204.804 0/1:295:192,103:192:6896:103:3692:-243.568,0,-531.577 1/1:84:0,84:0:0:84:3012:-271.309,-25.2865,0 0/1:221:117,104:117:4181:104:3721:-268.558,0,-308.063 0/1:24:20,4:20:720:4:144:-6.0889,0,-57.7693 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:47:34,13:34:1216:13:453:-26.9466,0,-95.5982 0/0:199:199,0:199:7140:0:0:0,-59.905,-641.862 0/0:190:190,0:190:6800:0:0:0,-57.1957,-610.8 0/1:190:98,92:98:3500:92:3304:-240.373,0,-258.014 0/1:88:33,55:33:1184:55:1972:-151.257,0,-80.3768 0/1:97:50,47:50:1796:47:1684:-122.645,0,-132.72 0/1:40:15,25:15:540:25:900:-69.2752,0,-36.8861 0/1:31:22,9:22:792:9:324:-20.1739,0,-62.2737 0/0:114:111,3:111:3976:3:108:0,-24.2422,-346.991 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.637 chr02 24248448 . T C 12162.3 PASS AB=0.499142;ABP=3.01775;AC=17;AF=0.404762;AN=42;AO=684;CIGAR=1X;DP=1674;DPB=1674;DPRA=1.04771;EPP=1470.98;EPPR=2152.77;GTI=0;LEN=1;MEANALT=1;MQM=59.8304;MQMR=59.9404;NS=21;NUMALT=1;ODDS=0.485893;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24503;QR=35400;RO=990;RPL=1;RPP=1479.62;RPPR=2152.77;RPR=683;RUN=1;SAF=683;SAP=1479.62;SAR=1;SRF=990;SRP=2152.77;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:51,66:51:1832:66:2372:-178.517,0,-129.937 0/1:125:77,48:77:2753:48:1725:-117.825,0,-210.382 0/1:81:34,47:34:1220:47:1692:-128.183,0,-85.6775 0/0:96:96,0:96:3414:0:0:0,-28.8989,-307.472 0/1:154:81,73:81:2885:73:2600:-187.889,0,-213.527 0/1:88:50,38:50:1796:38:1364:-96.5701,0,-135.326 0/1:105:61,44:61:2188:44:1572:-110.163,0,-165.574 1/1:101:0,101:0:0:101:3628:-326.722,-30.404,0 0/1:129:50,79:50:1784:79:2836:-216.645,0,-122.01 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/1:7:3,4:3:108:4:140:-10.8374,0,-7.96796 0/1:17:5,12:5:180:12:424:-33.3789,0,-11.4346 0/0:100:99,1:99:3522:1:36:0,-26.5084,-313.589 0/0:105:105,0:105:3772:0:0:0,-31.6081,-339.678 0/1:89:34,55:34:1220:55:1972:-150.893,0,-83.3151 0/1:65:29,36:29:1025:36:1288:-96.6566,0,-72.9937 0/1:41:18,23:18:644:23:820:-61.6223,0,-45.9484 0/1:72:38,34:38:1364:34:1214:-87.8832,0,-101.383 0/1:67:45,22:45:1605:22:784:-50.7087,0,-124.569 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.801 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.755 chr02 24248535 . C T 24422.4 PASS AB=0.497888;ABP=3.07451;AC=24;AF=0.571429;AN=42;AO=1363;CIGAR=1X;DP=2342;DPB=2342;DPRA=16.6786;EPP=2962.73;EPPR=2126.71;GTI=0;LEN=1;MEANALT=1.05;MQM=40.485;MQMR=54.3783;NS=21;NUMALT=1;ODDS=8.29968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48772;QR=34773;RO=978;RPL=1363;RPP=2962.73;RPPR=2126.71;RPR=0;RUN=1;SAF=0;SAP=2962.73;SAR=1363;SRF=0;SRP=2126.71;SRR=978;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:81,64:81:2825:64:2289:-155.951,0,-210.123 0/1:123:64,59:64:2300:59:2120:-137.601,0,-169.086 0/1:127:63,64:63:2249:64:2296:-159.598,0,-164.274 1/1:165:0,165:0:0:165:5901:-508.859,-49.67,0 0/1:331:179,152:179:6379:152:5437:-374.748,0,-472.84 0/1:80:41,39:41:1464:39:1404:-93.5849,0,-107.18 0/1:149:53,96:53:1859:96:3422:-245.337,0,-121.598 0/0:139:138,1:138:4906:1:36:0,-38.3887,-436.484 0/1:173:79,94:79:2802:94:3372:-240.729,0,-200.095 0/1:8:3,5:3:108:5:180:-13.4209,0,-7.65264 0/0:7:7,0:7:237:0:0:0,-2.10721,-21.6092 0/1:35:14,21:14:504:21:744:-54.1142,0,-34.8988 1/1:84:2,82:2:72:82:2932:-246.557,-18.4547,0 1/1:116:0,116:0:0:116:4149:-362.299,-34.9195,0 0/1:149:93,55:93:3321:55:1957:-126.789,0,-253.175 0/1:117:59,58:59:2090:58:2084:-147.087,0,-152.816 0/1:93:45,48:45:1605:48:1716:-122.719,0,-116.646 0/1:54:25,29:25:900:29:1040:-72.7566,0,-64.9231 0/1:73:32,41:32:1152:41:1472:-106.151,0,-81.6584 1/1:116:0,116:0:0:116:4133:-354.899,-34.9195,0 1/1:58:0,58:0:0:58:2088:-174.032,-17.4597,0 chr02 24261018 . GTTG ATTT,ATTG 41066.7 PASS AB=0.519275,0.176625;ABP=17.0735,3803.31;AC=19,3;AF=0.452381,0.0714286;AN=42;AO=2263,739;CIGAR=1X2M1X,1X3M;DP=4559;DPB=4559;DPRA=0,0;EPP=4917.05,1607.73;EPPR=3362.28;GTI=3;LEN=4,1;MEANALT=2.35,2.36842;MQM=53.2722,59.9296;MQMR=59.6787;NS=21;NUMALT=2;ODDS=4.13825;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80267,26333;QR=54555;RO=1547;RPL=0,0;RPP=4917.05,1607.73;RPPR=3362.28;RPR=2263,739;RUN=1,1;SAF=2263,739;SAP=4917.05,1607.73;SAR=0,0;SRF=1547;SRP=3362.28;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:229:92,82,55:92:3243:82,55:2907,1976:-208.437,0,-239.357,-74.9307,-102.84,-322.42 0/1:198:89,78,31:89:3124:78,31:2774,1086:-198.018,0,-230.733,-136.447,-165.851,-381.327 0/1:238:71,128,39:71:2513:128,39:4530,1400:-345.651,0,-165.994,-252.822,-90.324,-445.612 0/1:256:85,119,51:85:2995:119,51:4216,1824:-317.07,0,-208.018,-194.195,-95.3771,-422.684 0/1:340:117,186,37:117:4135:186,37:6588,1332:-499.997,0,-280.754,-426.532,-228.059,-752.144 0/1:231:77,117,37:77:2707:117,37:4137,1332:-312.709,0,-185.081,-227.207,-111.619,-436.376 0/1:431:154,207,68:154:5410:207,68:7351,2380:-550.971,0,-377.886,-403.698,-246.567,-823.424 0/2:201:119,0,81:119:4228:0,81:0,2901:-200.807,-236.63,-580.981,0,-344.397,-320.014 0/1:402:137,212,53:137:4858:212,53:7494,1884:-567.218,0,-331.947,-454.932,-242.239,-834.744 0/1:22:7,8,7:7:252:8,7:288,252:-21.3515,0,-18.1537,-2.89657,-1.21602e-07,-21.3515 1/2:18:4,8,6:4:137:8,6:288,207:-27.9642,-5.69744,-14.4091,-12.3586,0,-21.6677 0/2:68:23,21,24:23:813:21,24:747,845:-61.8654,-8.12728,-68.0125,0,-5.54434,-58.9808 0/1:180:54,89,37:54:1908:89,37:3172,1313:-241.215,0,-128.596,-150.494,-48.4103,-294.744 0/1:289:90,163,33:90:3157:163,33:5790,1175:-443.035,0,-207.847,-374.36,-161.145,-621.338 0/1:367:145,168,54:145:5117:168,54:5949,1925:-438.29,0,-365.937,-325.025,-259.596,-725.283 0/1:188:54,106,28:54:1926:106,28:3757,1008:-287.983,0,-124.16,-221.994,-73.8245,-369.638 0/1:178:59,81,38:59:2077:81,38:2870,1360:-215.076,0,-144.592,-121.932,-58.0689,-279.471 0/1:198:63,98,36:63:2211:98,36:3492,1288:-264.906,0,-150.32,-178.848,-74.7962,-347.834 0/1:150:36,90,24:36:1249:90,24:3173,845:-246.505,0,-74.4296,-188.552,-32.7298,-282.851 0/1:233:51,182,0:51:1785:182,0:6473,0:-510.308,0,-90.7893,-525.661,-145.577,-670.887 0/1:142:20,120,0:20:710:120,0:4271,0:-341.01,0,-21.7689,-347.031,-57.8925,-404.881 chr02 24261041 . A G 38435.7 PASS AB=0.531325;ABP=38.6532;AC=20;AF=0.47619;AN=42;AO=2222;CIGAR=1X;DP=4368;DPB=4368;DPRA=1.12419;EPP=4802;EPPR=4598.04;GTI=0;LEN=1;MEANALT=1.1;MQM=53.2988;MQMR=59.7514;NS=21;NUMALT=1;ODDS=20.8174;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79401;QR=74482;RO=2144;RPL=2219;RPP=4802;RPPR=4598.04;RPR=3;RUN=1;SAF=2222;SAP=4828.02;SAR=0;SRF=2144;SRP=4658.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:219:139,79:139:4841:79:2825:-187.855,0,-369.875 0/1:190:112,78:112:3944:78:2784:-191.928,0,-297.94 0/1:229:102,127:102:3478:127:4537:-337.496,0,-244.136 0/1:246:128,118:128:4457:118:4181:-301.515,0,-326.757 0/1:323:145,178:145:4997:178:6383:-475.828,0,-352.65 0/1:228:111,117:111:3905:117:4195:-308.003,0,-282.981 0/1:410:205,204:205:7023:204:7278:-529.765,0,-508.585 0/0:186:186,0:186:6444:0:0:0,-55.9916,-579.856 0/1:380:175,205:175:6031:205:7364:-546.729,0,-428.514 0/1:20:12,8:12:420:8:288:-20.206,0,-32.1134 0/1:18:10,8:10:352:8:288:-20.8116,0,-26.5997 0/1:68:47,21:47:1617:21:741:-46.2957,0,-125.343 0/1:174:86,88:86:2993:88:3137:-229.131,0,-217.227 0/1:267:110,157:110:3840:157:5620:-423.696,0,-264.977 0/1:347:183,164:183:6411:164:5853:-419.707,0,-472.476 0/1:181:76,105:76:2628:105:3695:-276.986,0,-182.201 0/1:170:92,78:92:3167:78:2795:-199.686,0,-233.995 0/1:192:95,97:95:3340:97:3473:-254.172,0,-242.951 0/1:151:60,91:60:2135:91:3255:-246.168,0,-146.962 0/1:233:50,183:50:1747:183:6557:-517.907,0,-87.3687 0/1:136:20,116:20:712:116:4152:-332.228,0,-23.4666 chr02 24261152 . T A 3330.6 PASS AB=0.183633;ABP=3051.84;AC=18;AF=0.428571;AN=42;AO=646;CIGAR=1X;DP=3929;DPB=3929;DPRA=0.980246;EPP=1405.78;EPPR=7131.95;GTI=7;LEN=1;MEANALT=1;MQM=59.709;MQMR=59.9802;NS=21;NUMALT=1;ODDS=0.916907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22973;QR=117355;RO=3283;RPL=0;RPP=1405.78;RPPR=7131.95;RPR=646;RUN=1;SAF=0;SAP=1405.78;SAR=646;SRF=0;SRP=7131.95;SRR=3283;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:117,33:117:4167:33:1157:-59.2665,0,-330.06 0/1:156:125,31:125:4484:31:1104:-52.71,0,-356.767 0/1:177:158,19:158:5672:19:684:-8.60802,0,-457.315 0/1:224:182,42:182:6508:42:1486:-66.6023,0,-518.372 0/1:414:340,74:340:12135:74:2651:-114.198,0,-967.371 0/1:144:115,29:115:4132:29:1040:-50.5579,0,-328.703 0/1:325:276,49:276:9851:49:1716:-56.8795,0,-788.607 0/1:92:43,49:43:1548:49:1764:-131.349,0,-111.918 0/1:361:312,49:312:11144:49:1746:-48.7492,0,-894.178 0/1:12:8,4:8:288:4:144:-9.69654,0,-22.655 0/1:19:14,5:14:504:5:180:-10.8325,0,-39.9785 0/0:41:39,2:39:1376:2:72:0,-5.52911,-117.326 0/1:249:191,58:191:6839:58:2076:-112.134,0,-540.623 0/1:202:181,21:181:6457:21:748:-6.83448,0,-520.406 0/1:271:221,50:221:7915:50:1792:-79.9707,0,-630.795 0/1:163:125,38:125:4492:38:1337:-71.5549,0,-355.379 0/1:129:116,13:116:4148:13:446:-1.63259,0,-334.671 0/1:245:193,52:193:6908:52:1855:-93.4547,0,-548.035 0/1:174:146,28:146:5164:28:975:-35.6735,0,-412.526 0/0:212:212,0:212:7579:0:0:0,-63.8184,-682.132 0/0:169:169,0:169:6044:0:0:0,-50.8741,-544.063 chr02 24261164 . G T 3250.43 PASS AB=0.18606;ABP=2901.65;AC=18;AF=0.428571;AN=42;AO=632;CIGAR=1X;DP=3790;DPB=3790;DPRA=0.993765;EPP=1375.38;EPPR=6854.01;GTI=7;LEN=1;MEANALT=1.10526;MQM=59.6915;MQMR=59.9718;NS=21;NUMALT=1;ODDS=10.5902;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22385;QR=109124;RO=3155;RPL=0;RPP=1375.38;RPPR=6854.01;RPR=632;RUN=1;SAF=0;SAP=1375.38;SAR=632;SRF=0;SRP=6854.01;SRR=3155;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:116,31:116:4044:31:1084:-53.5269,0,-319.9 0/1:156:126,30:126:4307:30:1057:-48.4783,0,-340.851 0/1:168:147,21:147:5130:21:752:-17.4332,0,-411.278 0/1:215:174,41:174:6060:41:1447:-65.8037,0,-480.795 0/1:400:326,74:326:11282:74:2628:-116.344,0,-894.887 0/1:141:111,30:111:3777:30:1068:-53.9787,0,-297.685 0/1:305:258,47:258:8969:47:1684:-60.0247,0,-715.365 0/1:91:41,50:41:1451:50:1792:-134.169,0,-103.491 0/1:357:307,50:307:10557:50:1776:-52.6535,0,-842.608 0/1:11:8,3:8:269:3:108:-6.75908,0,-21.2248 0/1:19:13,6:13:436:6:208:-13.3395,0,-33.8402 0/0:41:39,2:39:1355:2:72:0,-5.52911,-115.432 0/1:236:180,56:180:6307:56:1985:-107.831,0,-496.686 0/1:199:180,19:180:6304:19:668:-0.540537,0,-507.557 0/1:255:209,46:209:7241:46:1615:-68.8602,0,-574.999 0/1:159:120,38:120:4225:38:1348:-73.6884,0,-332.513 0/1:126:112,14:112:3859:14:478:-5.41145,0,-309.152 0/1:237:187,48:187:6401:48:1683:-80.6429,0,-505.098 0/1:164:138,26:138:4684:26:932:-34.8272,0,-372.368 0/0:202:202,0:202:6986:0:0:0,-60.8081,-628.803 0/0:161:161,0:161:5480:0:0:0,-48.4658,-493.35 chr02 24261179 . CGA CAGA 35960.1 PASS AB=0.529305;ABP=31.7733;AC=20;AF=0.47619;AN=42;AO=2041;CIGAR=1M1I2M;DP=3953;DPB=4637.67;DPRA=1.98763;EPP=4245.96;EPPR=3892.82;GTI=0;LEN=1;MEANALT=1.95;MQM=59.9824;MQMR=59.8825;NS=21;NUMALT=1;ODDS=29.0452;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72514;QR=66460;RO=1890;RPL=2019;RPP=4245.96;RPPR=3892.82;RPR=22;RUN=1;SAF=0;SAP=4434.99;SAR=2041;SRF=0;SRP=4107.09;SRR=1890;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:76,80:76:2661:80:2844:-208.965,0,-192.484 0/1:160:80,80:80:2818:80:2855:-209.022,0,-205.695 0/1:178:77,100:77:2716:100:3526:-263.907,0,-191.041 0/1:223:112,109:112:3937:109:3871:-281.699,0,-287.638 0/1:417:213,202:213:7507:202:7184:-521.387,0,-550.442 0/1:149:77,70:77:2691:70:2472:-178.199,0,-197.891 0/1:327:181,143:181:6330:143:5090:-360.339,0,-471.983 0/0:97:97,0:97:3434:0:0:0,-29.1999,-309.275 0/1:360:168,188:168:5941:188:6653:-491.359,0,-427.308 0/1:12:8,4:8:278:4:140:-9.33222,0,-21.7398 0/1:19:9,10:9:314:10:360:-27.0247,0,-22.8771 0/1:40:21,19:21:753:19:680:-49.488,0,-56.0329 0/1:251:135,116:135:4789:116:4146:-297.764,0,-355.589 0/1:202:77,123:77:2697:123:4390:-334.771,0,-182.472 0/1:271:136,135:136:4751:135:4794:-350.04,0,-346.168 0/1:161:78,82:78:2742:82:2940:-216.418,0,-198.596 0/1:136:57,78:57:1957:78:2780:-209.443,0,-135.393 0/1:245:112,133:112:3910:133:4734:-352.468,0,-278.324 0/1:179:76,103:76:2682:103:3655:-275.269,0,-187.736 0/1:201:53,146:53:1884:146:5177:-405.901,0,-109.666 0/1:168:47,120:47:1668:120:4223:-329.618,0,-99.7745 chr02 24261196 . T C 3296.73 PASS AB=0.182371;ABP=3174.36;AC=18;AF=0.428571;AN=42;AO=662;CIGAR=1X;DP=4047;DPB=4047;DPRA=0.998364;EPP=1440.53;EPPR=7351.27;GTI=8;LEN=1;MEANALT=1.05263;MQM=59.6782;MQMR=59.9728;NS=21;NUMALT=1;ODDS=0.314174;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23594;QR=121075;RO=3384;RPL=662;RPP=1440.53;RPPR=7351.27;RPR=0;RUN=1;SAF=0;SAP=1440.53;SAR=662;SRF=0;SRP=7351.27;SRR=3384;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:130,33:130:4642:33:1154:-54.9894,0,-368.872 0/1:163:131,32:131:4689:32:1152:-54.9223,0,-373.1 0/1:180:160,20:160:5744:20:720:-10.9434,0,-462.888 0/1:229:186,43:186:6680:43:1544:-70.3172,0,-532.338 0/1:431:353,78:353:12635:78:2792:-121.769,0,-1007.15 0/1:149:120,29:120:4278:29:1044:-49.4132,0,-340.336 0/1:328:279,49:279:9998:49:1729:-57.1468,0,-801.002 0/1:96:44,52:44:1580:52:1842:-137.157,0,-113.593 0/1:375:325,50:325:11548:50:1781:-47.6828,0,-926.292 0/1:12:8,4:8:284:4:144:-9.69654,0,-22.291 0/1:20:15,5:15:525:5:180:-10.5315,0,-41.5575 0/0:42:40,2:40:1428:2:72:0,-5.83014,-122.004 0/1:253:194,59:194:6956:59:2105:-113.536,0,-549.943 0/1:208:185,23:185:6614:23:824:-11.8663,0,-532.723 0/1:274:224,50:224:7995:50:1769:-76.9964,0,-637.087 0/1:167:129,38:129:4613:38:1368:-73.1388,0,-365.06 0/1:138:121,16:121:4352:16:576:-10.7081,0,-349.973 0/1:251:200,51:200:7162:51:1817:-88.2289,0,-569.074 0/1:182:154,28:154:5540:28:981:-33.809,0,-443.934 0/0:215:215,0:215:7675:0:0:0,-64.7214,-690.782 0/0:171:171,0:171:6137:0:0:0,-51.4761,-552.424 chr02 24318523 . GGCAGAGAGC AGCAGAGC,GGCAGAGC 25073.6 PASS AB=0.553097,0.436947;ABP=25.1478,34.2276;AC=26,16;AF=0.619048,0.380952;AN=42;AO=811,455;CIGAR=1X2M2D5M,3M2D5M;DP=1279;DPB=1023.7;DPRA=0.998361,1.2293;EPP=1764.07,991.03;EPPR=0;GTI=0;LEN=8,2;MEANALT=2.3,2.6;MQM=46.9063,59.5055;MQMR=0;NS=21;NUMALT=2;ODDS=2.64973;PAIRED=0,0;PAIREDR=0;PAO=5,0;PQA=180,0;PQR=0;PRO=0;QA=28182,15936;QR=0;RO=0;RPL=811,455;RPP=1764.07,991.03;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1764.07,991.03;SAR=811,455;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:47:0,29,18:0:0:29,18:980,622:-129.11,-50.656,-41.9262,-78.5773,0,-73.1587 1/2:37:0,25,12:0:0:25,12:865,413:-103.371,-33.8855,-26.3597,-69.829,0,-66.2166 1/2:67:0,28,37:0:0:28,37:977,1296:-184.288,-105.506,-97.0773,-78.8623,0,-67.7241 1/1:81:0,79,0:0:0:79,0:2712,0:-241.201,-23.7814,0,-241.201,-23.7814,-241.201 1/2:161:0,87,73:0:0:87,73:3010,2552:-449.569,-207.633,-181.443,-241.962,0,-219.986 1/2:46:0,28,18:0:0:28,18:980,636:-130.879,-52.1495,-43.7207,-79.0794,0,-73.6609 1/2:99:0,53,45:0:0:53,45:1853,1547:-274.703,-125.636,-109.681,-149.14,0,-135.593 2/2:61:0,0,60:0:0:0,60:0,2132:-191.872,-191.872,-191.872,-18.0618,-18.0618,0 1/2:138:0,85,51:0:0:85,51:2978,1795:-386.137,-146.079,-120.492,-240.104,0,-224.752 1/1:14:0,14,0:0:0:14,0:498,0:-44.8091,-4.21442,0,-44.8091,-4.21442,-44.8091 1/2:6:0,4,2:0:0:4,2:144,72:-17.8433,-6.22815,-5.02403,-11.9735,0,-11.3714 1/2:22:0,9,13:0:0:9,13:301,445:-60.5665,-36.462,-33.7527,-24.4402,0,-20.5268 1/1:47:0,47,0:0:0:47,0:1621,0:-144.444,-14.1484,0,-144.444,-14.1484,-144.444 1/1:74:0,73,0:0:0:73,0:2523,0:-225.277,-21.9752,0,-225.277,-21.9752,-225.277 1/2:93:0,43,50:0:0:43,50:1494,1739:-262.04,-141.707,-128.763,-120.679,0,-105.628 1/2:57:0,30,27:0:0:30,27:1056,964:-163.731,-78.949,-69.9181,-85.1339,0,-77.0061 1/2:56:0,30,26:0:0:30,26:1057,907:-159.261,-73.9263,-64.8954,-85.6837,0,-77.857 1/2:38:0,22,14:0:0:22,14:781,500:-103.884,-40.7638,-34.1411,-63.1177,0,-58.9033 1/2:37:0,27,9:0:0:27,9:964,316:-103.426,-25.7665,-17.6387,-77.7542,0,-75.0449 1/1:63:0,63,0:0:0:63,0:2179,0:-194.396,-18.9649,0,-194.396,-18.9649,-194.396 1/1:35:0,35,0:0:0:35,0:1209,0:-107.645,-10.5361,0,-107.645,-10.5361,-107.645 chr02 24354766 . GCT CCC,CCT 30250.7 PASS AB=0.594972,0.395717;ABP=87.1518,104.459;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1006,520;CIGAR=1X1M1X,1X2M;DP=1536;DPB=1536.67;DPRA=0.758421,0.995402;EPP=2187.51,1132.18;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.2,2.5;MQM=59.7087,59.9923;MQMR=0;NS=21;NUMALT=2;ODDS=10.3347;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=34672,18158;QR=0;RO=0;RPL=1006,520;RPP=2187.51,1132.18;RPPR=0;RPR=0,0;RUN=1,1;SAF=1006,520;SAP=2187.51,1132.18;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,32,23:0:0:32,23:1096,804:-154.475,-65.509,-55.876,-89.067,0,-82.1433 1/2:62:0,44,18:0:0:44,18:1503,644:-174.809,-52.8721,-39.6267,-122.29,0,-116.872 1/2:84:0,50,34:0:0:50,34:1727,1212:-239.417,-99.1513,-84.0998,-140.617,0,-130.382 1/1:58:0,58,0:0:0:58,0:1982,0:-178.648,-17.4597,0,-178.648,-17.4597,-178.648 1/2:146:0,96,46:0:0:96,46:3296,1585:-396.296,-128.729,-99.8297,-267.553,0,-253.706 1/2:92:0,50,42:0:0:50,42:1723,1460:-258.984,-119.048,-103.997,-140.282,0,-127.639 1/2:79:0,37,42:0:0:37,42:1287,1493:-226.654,-122.019,-110.881,-104.986,0,-92.3432 2/2:95:0,0,95:0:0:0,95:0,3315:-298.567,-298.567,-298.567,-28.5979,-28.5979,0 1/2:115:0,60,54:0:0:60,54:2064,1891:-321.465,-153.85,-135.788,-167.603,0,-151.347 1/2:7:0,2,5:0:0:2,5:72,165:-19.5518,-13.6685,-13.0664,-6.23466,0,-4.72951 1/2:9:0,3,6:0:0:3,6:92,207:-24.5194,-17.1607,-16.2576,-7.67794,0,-5.87176 1/2:17:0,10,7:0:0:10,7:358,248:-49.7539,-20.557,-17.5467,-29.5526,0,-27.4454 1/1:96:0,96,0:0:0:96,0:3312,0:-298.144,-28.8989,0,-298.144,-28.8989,-298.144 1/1:98:0,98,0:0:0:98,0:3457,0:-311.342,-29.5009,0,-311.342,-29.5009,-311.342 1/2:79:0,42,36:0:0:42,36:1461,1264:-221.654,-102.863,-90.2199,-118.781,0,-107.944 1/2:66:0,43,22:0:0:43,22:1502,775:-185.337,-63.1654,-50.2211,-122.239,0,-115.616 1/2:81:0,45,35:0:0:45,35:1535,1206:-222.556,-98.0206,-84.4743,-124.596,0,-114.06 1/2:114:0,76,38:0:0:76,38:2543,1326:-314.098,-108.199,-85.3207,-206.243,0,-194.803 1/2:67:0,49,17:0:0:49,17:1675,563:-181.474,-45.5257,-30.7752,-135.943,0,-130.826 1/1:45:0,45,0:0:0:45,0:1563,0:-140.949,-13.5464,0,-140.949,-13.5464,-140.949 1/1:70:0,70,0:0:0:70,0:2424,0:-218.404,-21.0721,0,-218.404,-21.0721,-218.404 chr02 24445706 . G A 18427.8 PASS AB=0.555357;ABP=32.8215;AC=25;AF=0.595238;AN=42;AO=959;CIGAR=1X;DP=1523;DPB=1523;DPRA=1.13984;EPP=2076.78;EPPR=1227.72;GTI=1;LEN=1;MEANALT=1;MQM=54.6715;MQMR=59.8901;NS=21;NUMALT=1;ODDS=3.03563;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34175;QR=20140;RO=564;RPL=1;RPP=2076.78;RPPR=1227.72;RPR=958;RUN=1;SAF=0;SAP=2085.45;SAR=959;SRF=0;SRP=1227.72;SRR=564;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:12,17:12:432:17:612:-46.6436,0,-30.4913 0/1:77:28,49:28:1004:49:1750:-134.265,0,-67.4966 0/1:123:45,78:45:1595:78:2775:-212.273,0,-106.813 1/1:81:0,81:0:0:81:2882:-258.478,-24.3834,0 0/1:93:48,45:48:1724:45:1620:-117.426,0,-127.45 0/1:21:3,18:3:108:18:635:-51.0904,0,-3.75354 0/1:78:45,33:45:1616:33:1171:-82.1073,0,-122.232 0/0:64:64,0:64:2270:0:0:0,-19.2659,-204.432 0/1:39:16,23:16:576:23:820:-62.2498,0,-40.4348 0/1:22:18,4:18:648:4:144:-6.67208,0,-52.0292 0/1:12:7,5:7:248:5:180:-12.9227,0,-19.0518 0/1:53:21,32:21:748:32:1152:-87.8752,0,-51.6845 1/1:39:0,39:0:0:39:1400:-125.998,-11.7402,0 1/1:105:0,105:0:0:105:3768:-338.919,-31.6082,0 0/1:96:42,54:42:1508:54:1917:-143.125,0,-107.025 0/1:40:16,24:16:576:24:860:-65.6579,0,-40.1338 0/1:52:24,28:24:855:28:1004:-74.9305,0,-61.6166 0/1:314:146,168:146:5192:168:5922:-437.13,0,-372.895 0/1:71:27,44:27:968:44:1565:-119.379,0,-66.0642 1/1:54:2,52:2:72:52:1868:-161.306,-9.4189,0 1/1:60:0,60:0:0:60:2130:-191.178,-18.0618,0 chr02 24445730 . G A 18849.7 PASS AB=0.561233;ABP=39.9751;AC=25;AF=0.595238;AN=42;AO=979;CIGAR=1X;DP=1546;DPB=1546;DPRA=1.10373;EPP=2128.88;EPPR=1229.89;GTI=1;LEN=1;MEANALT=1.1;MQM=54.6619;MQMR=59.8796;NS=21;NUMALT=1;ODDS=3.7236;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34983;QR=20234;RO=565;RPL=979;RPP=2128.88;RPPR=1229.89;RPR=0;RUN=1;SAF=0;SAP=2128.88;SAR=979;SRF=0;SRP=1229.89;SRR=565;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:12,18:12:432:18:640:-48.8589,0,-30.1903 0/1:77:26,51:26:932:51:1828:-140.982,0,-61.0196 0/1:121:45,76:45:1592:76:2736:-209.401,0,-107.142 1/1:81:0,81:0:0:81:2893:-258.984,-24.3834,0 0/1:97:49,48:49:1760:48:1697:-123.128,0,-129.484 0/1:21:3,18:3:108:18:644:-51.8084,0,-3.75354 0/1:78:44,34:44:1576:34:1216:-86.1149,0,-118.634 0/0:67:67,0:67:2396:0:0:0,-20.169,-215.768 0/1:40:16,24:16:576:24:860:-65.6065,0,-40.1338 0/1:23:18,5:18:644:5:180:-9.6049,0,-51.3669 0/1:13:7,6:7:252:6:216:-15.7725,0,-19.1156 0/1:53:21,32:21:748:32:1129:-85.8066,0,-51.6882 1/1:39:0,39:0:0:39:1390:-125.192,-11.7402,0 1/1:107:0,107:0:0:107:3799:-341.708,-32.2102,0 0/1:96:42,54:42:1504:54:1932:-144.962,0,-106.714 0/1:41:16,25:16:576:25:900:-68.097,0,-39.8328 0/1:54:24,30:24:864:30:1068:-80.0791,0,-61.8269 0/1:317:147,168:147:5266:168:6028:-445.312,0,-378.965 0/1:74:26,48:26:936:48:1715:-131.956,0,-62.2832 1/1:56:2,54:2:72:54:1916:-165.621,-10.021,0 1/1:61:0,61:0:0:61:2196:-197.059,-18.3628,0 chr02 24468965 . G A 32381 PASS AB=0.514735;ABP=6.84984;AC=25;AF=0.595238;AN=42;AO=1690;CIGAR=1X;DP=2873;DPB=2873;DPRA=0;EPP=3672.8;EPPR=2571.86;GTI=0;LEN=1;MEANALT=1;MQM=59.9509;MQMR=59.962;NS=21;NUMALT=1;ODDS=17.7643;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60255;QR=42326;RO=1183;RPL=0;RPP=3672.8;RPPR=2571.86;RPR=1690;RUN=1;SAF=1690;SAP=3672.8;SAR=0;SRF=1183;SRP=2571.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:190:87,103:87:3116:103:3661:-272.499,0,-223.471 0/1:146:72,74:72:2569:74:2633:-193.261,0,-187.508 0/1:88:45,43:45:1616:43:1527:-111.231,0,-119.239 1/1:193:0,193:0:0:193:6913:-622.235,-58.0988,0 0/1:234:123,111:123:4389:111:3939:-284.261,0,-324.742 0/1:101:45,56:45:1593:56:2008:-150.589,0,-113.254 0/1:254:135,119:135:4841:119:4247:-305.922,0,-358.753 0/0:194:190,4:190:6806:4:144:0,-45.0862,-599.293 0/1:141:79,62:79:2821:62:2213:-156.988,0,-211.638 0/1:32:21,11:21:756:11:392:-25.9871,0,-58.7343 0/1:17:11,6:11:396:6:212:-14.3073,0,-30.8652 0/1:48:28,20:28:993:20:686:-47.6063,0,-75.2331 1/1:100:1,99:1:36:99:3518:-313.23,-26.5047,0 1/1:151:0,151:0:0:151:5361:-482.53,-45.4555,0 0/1:276:101,175:101:3628:175:6253:-479.754,0,-243.64 0/1:170:76,94:76:2713:94:3361:-251.53,0,-193.237 0/1:168:89,79:89:3192:79:2813:-202.831,0,-236.93 0/1:109:54,55:54:1929:55:1961:-143.953,0,-141.072 0/1:62:22,40:22:788:40:1440:-111.234,0,-52.5809 1/1:125:4,121:4:144:121:4321:-375.752,-24.3151,0 1/1:74:0,74:0:0:74:2652:-238.926,-22.2762,0 chr02 24468973 . T C 32635.8 PASS AB=0.517393;ABP=8.37355;AC=25;AF=0.595238;AN=42;AO=1694;CIGAR=1X;DP=2877;DPB=2877;DPRA=0;EPP=3681.48;EPPR=2569.69;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9451;MQMR=59.9932;NS=21;NUMALT=1;ODDS=15.7744;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60516;QR=42378;RO=1182;RPL=0;RPP=3681.48;RPPR=2569.69;RPR=1694;RUN=1;SAF=1694;SAP=3681.48;SAR=0;SRF=1182;SRP=2569.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:193:88,105:88:3148:105:3751:-279.674,0,-225.446 0/1:144:70,74:70:2512:74:2652:-195.574,0,-182.984 0/1:91:46,45:46:1652:45:1599:-116.806,0,-121.575 1/1:193:0,193:0:0:193:6900:-621.069,-58.0988,0 0/1:236:122,114:122:4357:114:4076:-295.984,0,-321.261 0/1:101:44,57:44:1576:57:2039:-153.377,0,-111.728 0/1:253:134,119:134:4800:119:4264:-307.749,0,-355.989 0/0:194:193,1:193:6932:1:36:0,-54.8015,-620.345 0/1:143:80,62:80:2854:62:2220:-157.088,0,-214.139 0/1:33:22,11:22:788:11:378:-24.4151,0,-61.3108 0/1:17:11,6:11:396:6:201:-13.2995,0,-30.8652 0/1:48:28,20:28:1004:20:720:-50.6793,0,-76.2264 1/1:100:1,99:1:36:99:3531:-314.401,-26.5047,0 1/1:150:0,150:0:0:150:5325:-479.3,-45.1545,0 0/1:273:100,173:100:3592:173:6212:-476.99,0,-241.304 0/1:174:77,97:77:2759:97:3470:-260.133,0,-196.172 0/1:165:86,79:86:3092:79:2806:-203.105,0,-228.837 0/1:108:54,54:54:1944:54:1936:-142.005,0,-142.725 0/1:62:22,40:22:792:40:1423:-109.703,0,-52.9418 1/1:124:4,120:4:144:120:4298:-373.683,-24.0141,0 1/1:75:0,75:0:0:75:2679:-241.355,-22.5773,0 chr02 24468979 . G A 33001.4 PASS AB=0.518137;ABP=8.83921;AC=25;AF=0.595238;AN=42;AO=1701;CIGAR=1X;DP=2879;DPB=2879;DPRA=0;EPP=3696.68;EPPR=2535.01;GTI=0;LEN=1;MEANALT=1;MQM=59.9394;MQMR=59.9992;NS=21;NUMALT=1;ODDS=20.0709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60959;QR=42136;RO=1178;RPL=0;RPP=3696.68;RPPR=2535.01;RPR=1701;RUN=1;SAF=1701;SAP=3696.68;SAR=0;SRF=1178;SRP=2561;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:197:90,107:90:3178:107:3843:-286.744,0,-226.938 0/1:142:70,72:70:2512:72:2584:-190.059,0,-183.586 0/1:90:45,45:45:1601:45:1616:-118.637,0,-117.285 1/1:195:0,195:0:0:195:6988:-628.983,-58.7009,0 0/1:237:122,115:122:4352:115:4132:-300.718,0,-320.51 0/1:98:43,55:43:1536:55:1980:-148.973,0,-109.032 0/1:252:133,119:133:4753:119:4272:-308.78,0,-352.067 0/0:192:191,1:191:6860:1:36:0,-54.1995,-613.868 0/1:144:81,63:81:2895:63:2256:-159.937,0,-217.437 0/1:33:22,11:22:788:11:383:-24.8693,0,-61.3108 0/1:16:10,6:10:360:6:216:-14.974,0,-27.9278 0/1:48:28,20:28:1004:20:720:-50.6793,0,-76.2264 1/1:99:0,99:0:0:99:3537:-318.538,-29.802,0 1/1:154:0,154:0:0:154:5481:-493.4,-46.3586,0 0/1:274:101,173:101:3609:173:6185:-474.258,0,-242.532 0/1:172:76,96:76:2724:96:3438:-257.856,0,-193.626 0/1:165:86,79:86:3088:79:2836:-205.803,0,-228.477 0/1:109:54,55:54:1944:55:1972:-144.943,0,-142.424 0/1:63:22,41:22:788:41:1476:-114.171,0,-52.2799 1/1:124:4,120:4:144:120:4308:-374.582,-24.0141,0 1/1:75:0,75:0:0:75:2700:-243.243,-22.5773,0 chr02 24468990 . TAAAATG TAAAAATG 18877.7 PASS AB=0.465706;ABP=23.5637;AC=17;AF=0.404762;AN=42;AO=1123;CIGAR=1M1I6M;DP=2847;DPB=3007.86;DPRA=1.04067;EPP=2432.9;EPPR=3701.05;GTI=0;LEN=1;MEANALT=1.70588;MQM=59.9813;MQMR=59.948;NS=21;NUMALT=1;ODDS=21.3403;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39305;QR=60278;RO=1711;RPL=1122;RPP=2432.9;RPPR=3701.05;RPR=1;RUN=1;SAF=1123;SAP=2441.57;SAR=0;SRF=1711;SRP=3718.4;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:191:108,82:108:3782:82:2873:-201.254,0,-283.027 0/1:144:73,71:73:2549:71:2497:-181.631,0,-186.315 0/1:88:45,42:45:1583:42:1458:-104.961,0,-116.212 0/0:196:196,0:196:6914:0:0:0,-59.0019,-622.343 0/1:229:115,113:115:4072:113:3983:-289.671,0,-297.677 0/1:98:57,40:57:2009:40:1415:-98.1747,0,-151.612 0/1:247:119,127:119:4206:127:4434:-324.827,0,-304.29 1/1:184:1,182:1:36:182:6384:-571.064,-51.85,0 0/1:139:62,75:62:2165:75:2571:-190.071,0,-153.59 0/1:33:11,22:11:390:22:780:-60.589,0,-25.5047 0/1:17:6,11:6:209:11:388:-30.1399,0,-14.0331 0/1:48:20,28:20:717:28:965:-72.7096,0,-50.4088 0/0:100:100,0:100:3524:0:0:0,-30.103,-317.375 0/0:154:154,0:154:5410:0:0:0,-46.3586,-487.005 0/1:273:175,96:175:6179:96:3350:-219.782,0,-474.272 0/1:170:95,74:95:3368:74:2587:-181.848,0,-252.107 0/1:164:80,83:80:2802:83:2880:-210.011,0,-202.995 0/1:108:57,51:57:2010:51:1820:-131.57,0,-148.661 0/1:63:41,22:41:1456:22:780:-51.5581,0,-112.372 0/0:126:122,4:122:4273:4:140:0,-24.9852,-371.813 0/0:75:74,0:74:2624:0:0:0,-22.2762,-236.05 chr02 24507115 . 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T A 22693.3 PASS AB=0.512195;ABP=4.33437;AC=25;AF=0.595238;AN=42;AO=1123;CIGAR=1X;DP=1735;DPB=1735;DPRA=0.745872;EPP=2441.57;EPPR=1331.95;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=17.5401;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40300;QR=21818;RO=612;RPL=1123;RPP=2441.57;RPPR=1331.95;RPR=0;RUN=1;SAF=0;SAP=2441.57;SAR=1123;SRF=0;SRP=1331.95;SRR=612;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:19,37:19:684:37:1324:-102.604,0,-45.0326 0/1:20:14,6:14:500:6:216:-13.7699,0,-39.3156 0/1:86:39,47:39:1392:47:1688:-126.318,0,-99.6904 1/1:115:0,115:0:0:115:4132:-372.062,-34.6185,0 0/1:95:45,50:45:1620:50:1796:-133.324,0,-117.492 0/1:92:46,46:46:1656:46:1644:-120.554,0,-121.634 0/1:64:32,32:32:1133:32:1144:-84.0036,0,-83.0107 0/0:109:109,0:109:3842:0:0:0,-32.8123,-345.975 0/1:186:96,90:96:3436:90:3230:-234.93,0,-253.462 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:44:20,24:20:716:24:860:-64.4765,0,-51.5224 1/1:192:2,190:2:72:190:6806:-605.772,-50.961,0 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 0/1:174:83,91:83:2950:91:3276:-242.679,0,-213.352 0/1:16:8,8:8:269:8:288:-21.4509,0,-19.7196 0/1:14:8,6:8:284:6:216:-15.5761,0,-21.6889 0/1:60:30,30:30:1076:30:1076:-79.0911,0,-79.0911 0/1:94:45,49:45:1612:49:1764:-130.747,0,-117.073 1/1:153:1,152:1:36:152:5456:-487.568,-42.4593,0 1/1:81:0,81:0:0:81:2908:-261.955,-24.3834,0 chr02 24637033 . G A 9348.06 PASS AB=0.542889;ABP=17.1665;AC=17;AF=0.404762;AN=42;AO=537;CIGAR=1X;DP=1109;DPB=1109;DPRA=1.78751;EPP=1169.09;EPPR=1225.61;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.4916;MQMR=59.951;NS=21;NUMALT=1;ODDS=4.48088;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19125;QR=20268;RO=571;RPL=537;RPP=1169.09;RPPR=1242.92;RPR=0;RUN=1;SAF=537;SAP=1169.09;SAR=0;SRF=569;SRP=1225.61;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:23,21:23:819:21:749:-54.4871,0,-60.7862 0/1:25:19,6:19:671:6:203:-11.0721,0,-53.19 0/1:49:25,24:25:887:24:864:-63.3297,0,-65.3976 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/1:63:31,32:31:1099:32:1152:-85.016,0,-80.1848 0/1:23:8,15:8:288:15:536:-41.6511,0,-19.3437 0/1:39:19,20:19:675:20:712:-52.5709,0,-49.3368 1/1:54:0,54:0:0:54:1932:-174.143,-16.2556,0 0/1:52:28,24:28:996:24:860:-62.0665,0,-74.3013 0/1:161:53,108:53:1883:108:3836:-296.471,0,-121.282 0/1:111:49,62:49:1740:62:2221:-166.712,0,-123.47 0/1:108:54,54:54:1921:54:1940:-142.351,0,-140.654 0/0:58:58,0:58:2054:0:0:0,-17.4597,-185.13 0/0:39:39,0:39:1384:0:0:0,-11.7402,-124.856 0/1:44:15,28:15:536:28:990:-76.1054,0,-35.2705 0/1:29:20,9:20:720:9:324:-20.7751,0,-56.3989 0/1:16:7,9:7:248:9:324:-24.6894,0,-17.8477 0/1:112:45,67:45:1582:67:2338:-176.923,0,-108.949 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/0:40:38,2:38:1349:2:72:0,-5.20448,-114.872 0/0:11:11,0:11:380:0:0:0,-3.31133,-34.532 chr02 24638402 . T C 27843.6 PASS AB=0.49697;ABP=3.12874;AC=25;AF=0.595238;AN=42;AO=1449;CIGAR=1X;DP=2328;DPB=2328;DPRA=0.859375;EPP=3149.47;EPPR=1909.56;GTI=0;LEN=1;MEANALT=1.05;MQM=59.4941;MQMR=59.5547;NS=21;NUMALT=1;ODDS=10.7605;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50646;QR=31448;RO=878;RPL=3;RPP=3123.47;RPPR=1909.56;RPR=1446;RUN=1;SAF=3;SAP=3123.47;SAR=1446;SRF=0;SRP=1909.56;SRR=878;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:124:48,76:48:1708:76:2661:-202.239,0,-116.566 0/1:47:24,23:24:856:23:780:-56.2778,0,-63.1768 0/1:113:50,63:50:1796:63:2180:-162.436,0,-127.748 1/1:181:0,180:0:0:180:6342:-570.07,-54.1854,0 0/1:228:120,108:120:4304:108:3807:-274.056,0,-318.789 0/1:94:58,36:58:2076:36:1250:-84.5011,0,-158.814 0/1:155:90,65:90:3232:65:2267:-157.596,0,-244.37 0/0:128:128,0:128:4592:0:0:0,-38.5318,-413.197 0/1:285:139,146:139:4988:146:5100:-373.108,0,-362.813 0/1:28:13,15:13:468:15:532:-39.7842,0,-34.0308 0/1:24:6,18:6:216:18:623:-49.1684,0,-12.5658 0/1:71:35,36:35:1248:36:1250:-91.3347,0,-91.2332 1/1:186:0,186:0:0:186:6465:-581.785,-55.9916,0 1/1:128:0,128:0:0:128:4501:-405.254,-38.5318,0 0/1:93:49,44:49:1748:44:1546:-111.008,0,-129.451 0/1:50:31,19:31:1112:19:663:-44.942,0,-85.3114 0/1:84:47,37:47:1672:37:1284:-90.5604,0,-125.481 0/1:51:27,24:27:968:24:811:-57.5746,0,-72.0848 0/1:38:10,28:10:356:28:974:-76.5315,0,-20.9421 1/1:186:3,183:3:108:183:6443:-569.219,-45.9164,0 1/1:34:0,34:0:0:34:1167:-105.33,-10.235,0 chr02 24638403 . G A 15626 PASS AB=0.510121;ABP=4.32901;AC=17;AF=0.404762;AN=42;AO=885;CIGAR=1X;DP=2315;DPB=2315;DPRA=0.800268;EPP=1924.76;EPPR=3103.87;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.5808;MQMR=59.549;NS=21;NUMALT=1;ODDS=17.9968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31567;QR=49019;RO=1428;RPL=0;RPP=1924.76;RPPR=3077.87;RPR=885;RUN=1;SAF=0;SAP=1924.76;SAR=885;SRF=3;SRP=3077.87;SRR=1425;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:73,48:73:2534:48:1716:-118.189,0,-191.705 0/1:43:19,24:19:634:24:852:-64.0524,0,-44.3913 0/1:114:63,51:63:2243:51:1826:-130.197,0,-167.805 0/0:170:170,0:170:5828:0:0:0,-51.1751,-523.86 0/1:225:104,121:104:3499:121:4314:-320.522,0,-247.312 0/1:95:37,58:37:1295:58:2065:-157.521,0,-88.2525 0/1:160:69,91:69:2346:91:3267:-246.013,0,-163.197 1/1:126:0,126:0:0:126:4496:-404.61,-37.9298,0 0/1:288:145,143:145:5001:143:5108:-372.754,0,-363.325 0/1:28:15,13:15:540:13:464:-33.6687,0,-40.5077 0/1:23:16,7:16:511:7:252:-16.1053,0,-39.3697 0/1:71:35,36:35:1206:36:1279:-94.0393,0,-87.3755 0/0:191:191,0:191:6573:0:0:0,-57.4967,-591.5 0/0:131:130,0:130:4422:0:0:0,-39.1339,-397.894 0/1:94:46,48:46:1611:48:1702:-125.168,0,-116.496 0/1:50:19,31:19:663:31:1112:-85.3114,0,-44.942 0/1:82:35,47:35:1224:47:1688:-127.522,0,-85.7459 0/1:51:22,28:22:759:28:966:-71.9426,0,-52.9509 0/1:37:27,10:27:918:10:352:-20.8801,0,-71.791 0/0:181:178,3:178:6061:3:108:0,-44.4113,-535.165 0/0:34:34,0:34:1151:0:0:0,-10.235,-103.889 chr02 24684889 . C T 51918.4 PASS AB=0.666788;ABP=668.688;AC=16;AF=0.380952;AN=42;AO=2090;CIGAR=1X;DP=4241;DPB=4241;DPRA=1.06742;EPP=4541.39;EPPR=4660.82;GTI=2;LEN=1;MEANALT=1.11765;MQM=59.7507;MQMR=59.893;NS=21;NUMALT=1;ODDS=7.7189;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74694;QR=76525;RO=2149;RPL=999;RPP=11.8042;RPPR=4660.82;RPR=1091;RUN=1;SAF=999;SAP=11.8042;SAR=1091;SRF=2149;SRP=4669.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:265:108,156:108:3848:156:5604:-424.646,0,-266.653 0/1:155:36,119:36:1277:119:4221:-333.125,0,-68.5633 0/1:223:95,128:95:3375:128:4570:-344.323,0,-236.835 0/0:196:196,0:196:7011:0:0:0,-59.0019,-631.027 0/1:485:146,338:146:5218:338:12110:-942.177,0,-323.686 0/1:225:85,140:85:3026:140:5024:-384.41,0,-204.835 0/0:188:186,2:186:6596:2:72:0,-49.7569,-586.881 1/1:245:0,245:0:0:245:8747:-786.932,-73.7524,0 0/1:395:172,223:172:6140:223:7963:-597.77,0,-433.761 0/1:37:9,28:9:324:28:1008:-79.7637,0,-18.3677 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/1:80:35,45:35:1237:45:1616:-121.643,0,-87.3597 0/0:327:327,0:327:11686:0:0:0,-98.4368,-1051.58 0/0:203:203,0:203:7137:0:0:0,-61.1091,-642.362 0/1:310:69,241:69:2462:241:8577:-678.59,0,-128.514 0/1:128:13,115:13:468:115:4101:-330.462,0,-3.9274 0/1:156:58,98:58:2088:98:3482:-266.625,0,-141.225 0/1:181:36,145:36:1284:145:5191:-412.652,0,-61.3751 0/1:104:47,57:47:1663:57:2052:-153.644,0,-118.649 0/0:287:281,6:281:10024:6:212:0,-66.9708,-882.457 0/0:40:40,0:40:1409:0:0:0,-12.0412,-127.103 chr02 24773135 . T G 35842.8 PASS AB=0.482066;ABP=8.85178;AC=26;AF=0.619048;AN=42;AO=1850;CIGAR=1X;DP=3036;DPB=3036;DPRA=0;EPP=4020.23;EPPR=2578.38;GTI=0;LEN=1;MEANALT=1;MQM=59.4238;MQMR=59.9578;NS=21;NUMALT=1;ODDS=15.801;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65887;QR=42421;RO=1186;RPL=1850;RPP=4020.23;RPPR=2578.38;RPR=0;RUN=1;SAF=1850;SAP=4020.23;SAR=0;SRF=1186;SRP=2578.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:55,58:55:1972:58:2076:-153.056,0,-143.725 0/1:203:101,102:101:3597:102:3645:-266.831,0,-262.827 0/1:141:79,62:79:2836:62:2208:-156.54,0,-213.033 1/1:190:0,190:0:0:190:6786:-610.724,-57.1957,0 0/1:349:182,167:182:6527:167:5972:-432.226,0,-482.219 0/1:197:117,80:117:4182:80:2844:-196.679,0,-317.258 1/1:202:2,200:2:72:200:7154:-636.794,-53.9713,0 0/0:97:96,1:96:3448:1:36:0,-25.6016,-306.934 0/1:344:190,154:190:6778:154:5518:-393.119,0,-506.54 0/1:23:12,11:12:432:11:392:-28.6964,0,-32.2975 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/1:24:13,11:13:468:11:396:-28.7354,0,-35.2349 1/1:143:2,141:2:72:141:5008:-443.862,-36.2106,0 1/1:126:2,124:2:72:124:4381:-387.529,-31.0931,0 0/1:269:126,143:126:4494:143:5074:-375.8,0,-323.645 0/1:140:72,68:72:2580:68:2436:-177.25,0,-190.305 0/1:127:73,54:73:2624:54:1922:-135,0,-198.176 0/1:81:40,41:40:1403:41:1440:-105.51,0,-102.18 0/1:69:17,52:17:612:52:1851:-146.071,0,-34.6424 1/1:150:1,149:1:36:149:5268:-470.504,-41.5562,0 1/1:37:0,37:0:0:37:1300:-117.263,-11.1381,0 chr02 24773233 . C T 21807.7 PASS AB=0.501512;ABP=3.0497;AC=16;AF=0.380952;AN=42;AO=1213;CIGAR=1X;DP=3260;DPB=3260;DPRA=0.855791;EPP=2637.01;EPPR=4445.84;GTI=0;LEN=1;MEANALT=1;MQM=59.4666;MQMR=59.7014;NS=21;NUMALT=1;ODDS=9.42271;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43385;QR=72889;RO=2046;RPL=1213;RPP=2637.01;RPPR=4445.84;RPR=0;RUN=1;SAF=0;SAP=2637.01;SAR=1213;SRF=0;SRP=4445.84;SRR=2046;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:56,57:56:1974:57:2048:-150.519,0,-143.91 0/1:199:94,105:94:3361:105:3760:-278.554,0,-242.798 0/1:170:83,87:83:2972:87:3096:-227.654,0,-216.538 0/0:193:193,0:193:6897:0:0:0,-58.0988,-620.645 0/1:282:141,141:141:4991:141:5008:-365.078,0,-364.438 0/1:110:56,54:56:2008:54:1936:-141.244,0,-147.88 0/0:296:296,0:296:10532:0:0:0,-89.1049,-947.249 1/1:216:0,216:0:0:216:7756:-697.834,-65.0225,0 0/1:395:185,210:185:6599:210:7523:-558.118,0,-475.069 0/1:27:19,8:19:661:8:287:-18.0376,0,-51.6758 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:41:19,22:19:680:22:792:-59.2634,0,-49.186 0/0:143:142,0:142:5051:0:0:0,-42.7463,-454.381 0/0:177:177,0:177:6310:0:0:0,-53.2823,-567.968 0/1:187:88,99:88:3125:99:3541:-262.52,0,-225.179 0/1:152:74,78:74:2637:78:2773:-203.702,0,-191.811 0/1:98:59,39:59:2116:39:1388:-95.6896,0,-161.111 0/1:131:62,69:62:2202:69:2477:-183.567,0,-158.998 0/1:72:49,23:49:1760:23:820:-52.3922,0,-137.006 0/0:188:186,2:186:6616:2:72:0,-49.7569,-588.551 0/0:63:63,0:63:2253:0:0:0,-18.9649,-202.968 chr02 24812353 . ACCGC ACCTG,TCCTG 33325.9 PASS AB=0.453782,0.540616;ABP=22.882,18.3566;AC=26,16;AF=0.619048,0.380952;AN=42;AO=944,691;CIGAR=3M2X,1X2M2X;DP=1647;DPB=1647.2;DPRA=0,0.942835;EPP=2052.88,1503.5;EPPR=0;GTI=1;LEN=2,5;MEANALT=2.2381,2.375;MQM=59.9905,59.9667;MQMR=0;NS=21;NUMALT=2;ODDS=6.98998;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=33136,24211;QR=0;RO=0;RPL=944,691;RPP=2052.88,1503.5;RPPR=0;RPR=0,0;RUN=1,1;SAF=944,691;SAP=2052.88,1503.5;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:90:0,39,50:0:0:39,50:1382,1735:-253.654,-141.069,-129.329,-112.625,0,-97.5738 1/2:64:0,26,37:0:0:26,37:927,1302:-181.559,-105.992,-98.165,-75.5711,0,-64.433 1/2:91:0,52,39:0:0:52,39:1844,1362:-261.372,-111.137,-95.4832,-150.586,0,-138.846 1/1:104:0,102,0:0:0:102,0:3553,0:-319.645,-30.7051,0,-319.645,-30.7051,-319.645 1/2:164:0,89,75:0:0:89,75:3102,2617:-465.469,-213.202,-186.411,-252.615,0,-230.038 1/2:68:0,17,50:0:0:17,50:591,1720:-187.767,-139.717,-134.6,-48.0841,0,-33.0326 1/1:114:0,111,0:0:0:111,0:3911,0:-351.868,-33.4143,0,-351.868,-33.4143,-351.868 2/2:111:0,1,110:0:0:1,110:34,3841:-345.553,-342.795,-342.494,-33.1133,-30.0154,0 1/2:106:0,52,54:0:0:52,54:1837,1885:-303.275,-153.671,-138.018,-149.955,0,-133.7 1/2:9:0,2,7:0:0:2,7:61,252:-25.7958,-20.9217,-20.3197,-5.19117,0,-3.08396 1/2:10:0,5,5:0:0:5,5:180,178:-29.5526,-14.8635,-13.3583,-15.0469,0,-13.5418 1/2:38:0,15,23:0:0:15,23:516,826:-109.639,-67.7402,-63.2247,-42.2485,0,-35.3249 1/1:77:0,77,0:0:0:77,0:2682,0:-241.624,-23.1793,0,-241.624,-23.1793,-241.624 1/1:73:0,73,0:0:0:73,0:2544,0:-229.21,-21.9752,0,-229.21,-21.9752,-229.21 1/2:128:0,57,70:0:0:57,70:2019,2492:-367.57,-203.103,-185.944,-164.462,0,-143.39 1/2:52:0,14,38:0:0:14,38:491,1351:-150.406,-110.451,-106.237,-40.3064,0,-28.8673 1/2:69:0,30,39:0:0:30,39:1028,1383:-196.473,-113.028,-103.998,-83.7927,0,-72.0525 1/2:126:0,53,71:0:0:53,71:1869,2458:-351.922,-199.74,-183.785,-152.172,0,-130.799 1/2:56:0,35,21:0:0:35,21:1232,738:-160.716,-60.4205,-49.8844,-100.647,0,-94.3258 1/1:55:0,52,2:0:0:52,2:1859,71:-167.233,-15.6536,0,-161.448,-9.87173,-160.846 1/1:42:0,42,0:0:0:42,0:1474,0:-132.948,-12.6433,0,-132.948,-12.6433,-132.948 chr02 24847822 . C A 31256.4 PASS AB=0.543353;ABP=25.6037;AC=26;AF=0.619048;AN=42;AO=1544;CIGAR=1X;DP=2306;DPB=2306;DPRA=0.879839;EPP=3347.08;EPPR=1636;GTI=0;LEN=1;MEANALT=1.1;MQM=59.5946;MQMR=59.5987;NS=21;NUMALT=1;ODDS=3.35032;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55286;QR=27230;RO=760;RPL=1;RPP=3347.08;RPPR=1636;RPR=1543;RUN=1;SAF=1544;SAP=3355.76;SAR=0;SRF=760;SRP=1653.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:57,80:57:2044:80:2876:-217.816,0,-142.969 0/1:125:78,46:78:2800:46:1637:-109.921,0,-214.516 0/1:96:38,58:38:1360:58:2080:-158.562,0,-93.7568 1/1:152:1,151:1:36:151:5406:-482.891,-42.1583,0 0/1:161:58,103:58:2076:103:3696:-284.365,0,-138.49 0/1:77:31,46:31:1116:46:1637:-124.401,0,-77.5715 1/1:194:2,192:2:72:192:6847:-609.231,-51.5717,0 0/0:124:124,0:124:4448:0:0:0,-37.3277,-400.468 0/1:246:105,140:105:3755:140:5036:-379.201,0,-263.999 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/1:9:4,5:4:144:5:176:-13.3426,0,-10.6043 0/1:40:23,17:23:819:17:612:-43.364,0,-61.9806 1/1:147:0,147:0:0:147:5270:-474.301,-44.2514,0 1/1:140:0,140:0:0:140:4991:-449.323,-42.1442,0 0/1:102:57,45:57:2032:45:1608:-114.294,0,-152.401 0/1:114:51,63:51:1824:63:2245:-167.994,0,-130.117 0/1:92:45,47:45:1616:47:1684:-124.137,0,-118.026 0/1:61:37,24:37:1328:24:864:-59.6788,0,-101.441 0/1:115:38,77:38:1368:77:2765:-213.904,0,-88.7902 1/1:98:2,96:2:68:96:3444:-303.578,-23.0432,0 1/1:67:1,66:1:36:66:2376:-210.438,-16.5707,0 chr02 24847861 . C G 12772.7 PASS AB=0.45549;ABP=26.207;AC=16;AF=0.380952;AN=42;AO=743;CIGAR=1X;DP=2261;DPB=2261;DPRA=0.906933;EPP=1616.41;EPPR=3294.96;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.5949;MQMR=59.6642;NS=21;NUMALT=1;ODDS=4.78067;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26444;QR=53558;RO=1516;RPL=740;RPP=1590.46;RPPR=3294.96;RPR=3;RUN=1;SAF=740;SAP=1590.46;SAR=3;SRF=1516;SRP=3294.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:132:77,55:77:2702:55:1967:-137.547,0,-203.666 0/1:120:44,76:44:1544:76:2703:-207.37,0,-103.117 0/1:95:57,38:57:1999:38:1340:-92.2836,0,-151.576 0/0:149:148,1:148:5222:1:36:0,-41.2552,-466.16 0/1:155:100,55:100:3508:55:1944:-128.519,0,-269.258 0/1:74:44,30:44:1533:30:1068:-74.1549,0,-115.959 0/0:191:189,2:189:6690:2:72:0,-50.6686,-594.925 1/1:125:0,124:0:0:124:4431:-398.578,-37.3277,0 0/1:239:135,104:135:4823:104:3684:-259.79,0,-362.226 0/1:9:1,8:1:32:8:288:-23.5581,0,-0.490043 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:40:17,23:17:590:23:824:-62.4373,0,-41.3819 0/0:145:145,0:145:5139:0:0:0,-43.6493,-462.635 0/0:137:137,0:137:4789:0:0:0,-41.2411,-431.158 0/1:101:46,55:46:1648:55:1951:-145.419,0,-118.191 0/1:112:62,50:62:2219:50:1767:-125.593,0,-166.258 0/1:90:47,43:47:1652:43:1533:-111.164,0,-121.862 0/1:59:23,36:23:828:36:1288:-98.4358,0,-57.0506 0/1:115:77,37:77:2725:37:1332:-85.4929,0,-209.702 0/0:97:95,2:95:3373:2:72:0,-22.3718,-296.853 0/0:69:69,0:69:2434:0:0:0,-20.7711,-219.261 chr02 24958606 . A G 29680.9 PASS AB=0.720408;ABP=416.53;AC=26;AF=0.619048;AN=42;AO=1211;CIGAR=1X;DP=1563;DPB=1563;DPRA=0.951923;EPP=1113.62;EPPR=758.707;GTI=3;LEN=1;MEANALT=1;MQM=59.9752;MQMR=59.9773;NS=21;NUMALT=1;ODDS=6.1029;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43189;QR=12568;RO=352;RPL=1203;RPP=2563.64;RPPR=758.707;RPR=8;RUN=1;SAF=204;SAP=1159.23;SAR=1007;SRF=0;SRP=767.369;SRR=352;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:22,67:22:788:67:2391:-188.655,0,-44.4531 0/1:30:11,19:11:396:19:676:-52.1371,0,-26.9518 0/1:62:31,31:31:1108:31:1107:-81.2763,0,-81.3671 1/1:67:0,67:0:0:67:2387:-215.087,-20.169,0 0/1:126:40,86:40:1417:86:3054:-237.153,0,-89.8874 0/1:32:8,24:8:288:24:860:-68.0889,0,-16.6344 1/1:127:0,127:0:0:127:4529:-407.777,-38.2308,0 0/0:78:78,0:78:2788:0:0:0,-23.4803,-251.161 0/1:166:36,130:36:1292:130:4648:-368.512,0,-66.6128 0/1:15:8,7:8:288:7:252:-18.5135,0,-21.752 0/1:5:2,3:2:68:3:104:-8.19766,0,-4.95256 0/1:22:11,11:11:383:11:396:-29.3601,0,-28.1806 1/1:74:0,74:0:0:74:2630:-236.946,-22.2762,0 1/1:78:0,78:0:0:78:2776:-250.07,-23.4803,0 0/1:97:37,60:37:1324:60:2119:-161.776,0,-90.2622 0/1:95:13,82:13:460:82:2936:-235.876,0,-13.1375 0/1:130:13,117:13:464:117:4183:-337.519,0,-2.96361 0/1:52:28,24:28:1000:24:851:-61.2559,0,-74.6618 0/1:59:14,45:14:504:45:1620:-128.329,0,-27.9373 1/1:86:0,86:0:0:86:3064:-275.99,-25.8886,0 1/1:73:0,73:0:0:73:2606:-234.787,-21.9752,0 chr02 24958629 . 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AGTT GGTA,AGTA 79704.5 PASS AB=0.449405,0.545635;ABP=47.8357,39.4772;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1739,1383;CIGAR=1X2M1X,3M1X;DP=3136;DPB=3137.25;DPRA=0.518116,0.87037;EPP=3779.2,3006.16;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.5,2.61111;MQM=50.64,48.8879;MQMR=0;NS=21;NUMALT=2;ODDS=6.05001;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=72,72;PQR=0;PRO=1;QA=59353,49415;QR=0;RO=0;RPL=978,565;RPP=61.8099,103.512;RPPR=0;RPR=761,818;RUN=1,1;SAF=978,565;SAP=61.8099,103.512;SAR=761,818;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:258:0,120,136:0:0:120,136:4058,4848:-709.467,-387.242,-351.119,-322.354,0,-281.414 1/2:76:0,17,59:0:0:17,59:590,2099:-216.118,-168.159,-163.042,-48.3061,0,-30.5453 1/2:212:0,103,109:0:0:103,109:3559,3897:-592.18,-309.764,-278.758,-282.759,0,-249.947 1/1:217:0,213,2:0:0:213,2:7099,72:-620.314,-64.1194,0,-614.439,-58.1793,-613.837 1/2:308:0,146,159:0:0:146,159:5003,5692:-855.003,-456.276,-412.326,-398.806,0,-350.942 1/2:69:0,13,56:0:0:13,56:448,2012:-197.477,-161.09,-157.176,-36.6783,0,-19.8206 1/1:124:0,124,0:0:0:124,0:4311,0:-388.172,-37.3277,0,-388.172,-37.3277,-388.172 2/2:276:0,0,276:0:0:0,276:0,9878:-860.636,-860.636,-860.636,-83.0843,-83.0843,0 1/2:347:0,172,173:0:0:172,173:5829,6184:-960.139,-498.014,-446.236,-462.163,0,-410.085 1/2:38:0,11,27:0:0:11,27:390,972:-108.739,-76.9651,-73.6537,-32.1271,0,-23.9993 1/2:9:0,3,6:0:0:3,6:108,216:-26.1538,-17.3376,-16.4346,-9.17208,0,-7.3659 1/2:61:0,16,45:0:0:16,45:575,1605:-175.14,-128.229,-123.413,-47.2118,0,-33.6654 1/1:145:0,144,0:0:0:144,0:4918,0:-431.805,-43.3483,0,-431.805,-43.3483,-431.805 1/1:235:0,235,0:0:0:235,0:7972,0:-701.776,-70.7421,0,-701.776,-70.7421,-701.776 1/2:255:0,113,140:0:0:113,140:3838,4986:-700.454,-398.667,-364.651,-301.843,0,-259.698 1/2:57:0,22,35:0:0:22,35:747,1247:-158.74,-100.895,-94.272,-58.1817,0,-47.6456 1/2:80:0,38,42:0:0:38,42:1296,1508:-224.851,-122.235,-110.796,-102.96,0,-90.3163 1/2:133:0,52,80:0:0:52,80:1798,2867:-375.41,-229.312,-213.658,-146.233,0,-122.15 1/2:113:0,80,33:0:0:80,33:2712,1152:-310.846,-92.9806,-68.8982,-218.208,0,-208.274 1/1:50:0,48,2:0:0:48,2:1691,72:-152.123,-14.4494,0,-146.378,-8.35137,-145.775 1/1:73:0,69,3:0:0:69,3:2411,108:-216.892,-20.7711,0,-208.291,-12.1763,-207.388 chr02 25165384 . 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C G 10503 PASS AB=0.544974;ABP=19.6123;AC=13;AF=0.309524;AN=42;AO=589;CIGAR=1X;DP=1711;DPB=1711;DPRA=0.984802;EPP=1282.01;EPPR=2437.23;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.73578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21008;QR=39624;RO=1121;RPL=589;RPP=1282.01;RPPR=2437.23;RPR=0;RUN=1;SAF=589;SAP=1282.01;SAR=0;SRF=1121;SRP=2437.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:39,36:39:1400:36:1280:-92.926,0,-103.722 0/1:100:42,58:42:1495:58:2068:-156.288,0,-104.741 0/1:108:57,50:57:2032:50:1784:-128.273,0,-150.583 0/0:48:48,0:48:1712:0:0:0,-14.4494,-154.366 0/1:187:66,121:66:2327:121:4314:-332.144,0,-153.395 0/1:100:45,55:45:1595:55:1960:-146.571,0,-113.737 0/0:136:136,0:136:4760:0:0:0,-40.9401,-428.559 1/1:73:0,73:0:0:73:2583:-232.718,-21.9752,0 0/1:124:53,71:53:1888:71:2539:-191.433,0,-132.871 0/1:28:9,19:9:316:19:680:-53.1003,0,-20.35 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:51:26,25:26:908:25:900:-65.9685,0,-66.68 0/0:105:105,0:105:3702:0:0:0,-31.6081,-333.383 0/0:125:125,0:125:4408:0:0:0,-37.6287,-396.897 0/0:97:97,0:97:3433:0:0:0,-29.1999,-309.185 0/0:35:34,1:34:1224:1:36:0,-6.93777,-106.869 0/1:46:12,34:12:417:34:1220:-96.2594,0,-24.0128 0/1:65:38,27:38:1352:27:960:-67.1493,0,-102.413 0/1:61:42,19:42:1470:19:684:-43.5275,0,-114.23 0/0:92:92,0:92:3238:0:0:0,-27.6948,-291.642 0/0:48:48,0:48:1699:0:0:0,-14.4494,-153.195 chr02 25367997 . 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T A 8817.97 PASS AB=0.286785;ABP=1846.64;AC=13;AF=0.309524;AN=42;AO=1346;CIGAR=1X;DP=8206;DPB=8206;DPRA=0.838476;EPP=2925.81;EPPR=14890.6;GTI=4;LEN=1;MEANALT=1.125;MQM=36.0884;MQMR=35.5419;NS=21;NUMALT=1;ODDS=5.64496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48092;QR=244313;RO=6856;RPL=650;RPP=6.424;RPPR=3.03057;RPR=696;RUN=1;SAF=650;SAP=6.424;SAR=696;SRF=3424;SRP=3.03057;SRR=3432;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:490:361,129:361:12837:129:4623:-89.6051,0,-722.012 0/1:474:329,145:329:11710:145:5216:-135.704,0,-699.452 0/1:281:226,55:226:8071:55:1972:-44.2987,0,-506.517 0/0:453:453,0:453:16141:0:0:0,-136.367,-969.781 0/1:613:436,177:436:15544:177:6352:-225.81,0,-934.853 0/1:396:293,101:293:10478:101:3578:-98.9612,0,-568.69 0/0:500:499,0:499:17808:0:0:0,-150.214,-1049.83 0/1:429:171,257:171:6098:257:9164:-332.544,0,-414.815 0/1:567:422,145:422:15080:145:5179:-205.156,0,-909.465 0/1:137:94,43:94:3349:43:1526:-58.8644,0,-195.518 0/1:51:33,18:33:1171:18:648:-20.6647,0,-67.3634 0/1:163:120,43:120:4295:43:1534:-41.2831,0,-249.201 0/0:423:422,1:422:14991:1:36:0,-123.737,-811.943 0/0:554:554,0:554:19789:0:0:0,-166.771,-1127.92 0/0:627:626,1:626:22245:1:36:0,-185.148,-1299.86 0/0:507:507,0:507:18105:0:0:0,-152.622,-1060.05 0/1:312:235,77:235:8378:77:2756:-42.7171,0,-480.69 0/1:429:324,105:324:11487:105:3725:-115.354,0,-666.459 0/1:327:283,44:283:10062:44:1580:-6.53094,0,-556.013 0/0:259:254,5:254:9084:5:167:0,-62.6084,-507.643 0/0:214:214,0:214:7590:0:0:0,-64.4204,-447.406 chr02 25368015 . C T 26234.8 PASS AB=0.506638;ABP=5.83539;AC=21;AF=0.5;AN=42;AO=3740;CIGAR=1X;DP=7382;DPB=7382;DPRA=0;EPP=1131.27;EPPR=680.913;GTI=0;LEN=1;MEANALT=1.09524;MQM=20.4115;MQMR=51.1783;NS=21;NUMALT=1;ODDS=83.256;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=133713;QR=129409;RO=3640;RPL=2869;RPP=2320.8;RPPR=2394.02;RPR=871;RUN=1;SAF=1696;SAP=73.3242;SAR=2044;SRF=1534;SRP=198.195;SRR=2106;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:491:236,255:236:8367:255:9095:-215.293,0,-595.99 0/1:245:132,113:132:4732:113:4052:-174.467,0,-346.058 0/1:270:157,113:157:5529:113:4056:-105.34,0,-412.504 0/1:447:235,212:235:8302:212:7590:-69.1482,0,-608.324 0/1:609:313,296:313:11150:296:10557:-346.516,0,-805.082 0/1:170:61,109:61:2166:109:3904:-177.047,0,-139.61 0/1:303:148,154:148:5293:154:5524:-64.1537,0,-379.833 0/1:441:172,269:172:6106:269:9640:-351.19,0,-414.132 0/1:563:307,256:307:10905:256:9122:-302.8,0,-803.247 0/1:138:65,72:65:2321:72:2561:-88.2585,0,-165.64 0/1:33:21,12:21:733:12:428:-19.8432,0,-55.6112 0/1:163:81,82:81:2896:82:2944:-81.9596,0,-210.292 0/1:423:184,239:184:6531:239:8561:-107.591,0,-454.942 0/1:540:253,287:253:8863:287:10258:-134.312,0,-623.408 0/1:622:310,312:310:11034:312:11170:-127.354,0,-796.469 0/1:502:252,250:252:9010:250:8923:-93.2858,0,-654.23 0/1:308:152,156:152:5415:156:5567:-128.2,0,-390.437 0/1:420:214,206:214:7638:206:7330:-222.187,0,-554.005 0/1:333:181,152:181:6489:152:5452:-107.641,0,-477.728 0/1:261:120,141:120:4296:141:5045:-75.7038,0,-305.714 0/1:100:46,54:46:1633:54:1934:-25.386,0,-113.267 chr02 25403693 . CCA ACT,GCC 56696.7 PASS AB=0.506484,0.489193;ABP=3.51719,4.41832;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1845,898;CIGAR=1X1M1X,1X1M1X;DP=2757;DPB=2758;DPRA=0.594159,1.09402;EPP=4009.38,1952.99;EPPR=0;GTI=0;LEN=3,3;MEANALT=2.35,2.47059;MQM=59.929,59.9265;MQMR=0;NS=21;NUMALT=2;ODDS=6.87464;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=32,32;PQR=0;PRO=1;QA=64242,31358;QR=0;RO=0;RPL=1845,898;RPP=4009.38,1952.99;RPPR=0;RPR=0,0;RUN=1,1;SAF=1845,898;SAP=4009.38,1952.99;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:224:0,121,103:0:0:121,103:4224,3555:-632.726,-289.151,-252.727,-343.922,0,-312.916 1/2:100:0,43,56:0:0:43,56:1513,1914:-278.486,-155.315,-142.37,-123.159,0,-106.301 1/2:156:0,89,67:0:0:89,67:3100,2354:-444.036,-191.948,-165.156,-252.438,0,-232.269 1/1:137:0,135,0:0:0:135,0:4699,0:-422.718,-40.6391,0,-422.718,-40.6391,-422.718 1/2:180:0,97,82:0:0:97,82:3370,2834:-504.404,-230.428,-201.228,-274.135,0,-249.45 1/2:136:0,64,72:0:0:64,72:2217,2513:-384.912,-204.74,-185.474,-180.52,0,-158.846 1/1:234:0,233,0:0:0:233,0:8057,0:-724.961,-70.14,0,-724.961,-70.14,-724.961 2/2:214:0,0,212:0:0:0,212:0,7483:-673.23,-673.23,-673.23,-63.8184,-63.8184,0 1/2:264:0,127,136:0:0:127,136:4485,4759:-751.785,-387.171,-348.941,-364.605,0,-323.665 1/2:28:0,12,16:0:0:12,16:426,547:-79.4515,-44.7351,-41.1228,-35.0656,0,-30.2491 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:43:0,23,20:0:0:23,20:793,700:-121.714,-57.3015,-50.3778,-64.7601,0,-58.7395 1/1:79:0,79,0:0:0:79,0:2733,0:-246.211,-23.7814,0,-246.211,-23.7814,-246.211 1/1:165:0,162,1:0:0:162,1:5568,28:-500.942,-48.7669,0,-498.723,-46.5614,-498.422 1/1:307:0,305,1:0:0:305,1:10671,36:-959.999,-91.8142,0,-957.062,-88.8368,-956.761 1/1:95:0,94,1:0:0:94,1:3288,36:-295.783,-28.2968,0,-292.845,-24.9996,-292.544 1/2:144:0,68,74:0:0:68,74:2357,2581:-401.459,-209.9,-189.43,-191.547,0,-169.271 1/2:72:0,34,37:0:0:34,37:1174,1313:-202.39,-107.059,-96.8243,-95.4069,0,-84.2688 1/2:37:0,23,14:0:0:23,14:793,492:-104.811,-40.3976,-33.4739,-64.7619,0,-60.5475 1/1:100:0,96,4:0:0:96,4:3375,141:-303.617,-28.8989,0,-292.136,-17.0661,-290.932 1/1:38:0,38,0:0:0:38,0:1327,0:-119.407,-11.4391,0,-119.407,-11.4391,-119.407 chr02 25403743 . C T 10618.9 PASS AB=0.476371;ABP=8.14138;AC=14;AF=0.333333;AN=42;AO=536;CIGAR=1X;DP=2186;DPB=2186;DPRA=0.799621;EPP=460.381;EPPR=1603.16;GTI=1;LEN=1;MEANALT=1.11765;MQM=59.9254;MQMR=59.9466;NS=21;NUMALT=1;ODDS=4.1301;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18848;QR=59011;RO=1648;RPL=436;RPP=460.381;RPPR=1603.16;RPR=100;RUN=1;SAF=0;SAP=1166.92;SAR=536;SRF=0;SRP=3581.6;SRR=1648;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:28,33:28:1008:33:1164:-86.7041,0,-72.6735 0/1:129:72,56:72:2588:56:1929:-134.986,0,-194.276 0/1:77:32,45:32:1152:45:1596:-120.751,0,-80.8108 0/0:170:170,0:170:6112:0:0:0,-51.1751,-549.986 0/1:258:135,123:135:4833:123:4355:-314.192,0,-357.412 0/1:107:45,62:45:1605:62:2185:-164.705,0,-112.528 0/0:191:189,2:189:6777:2:64:0,-51.418,-603.92 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 0/1:211:118,93:118:4214:93:3273:-231.274,0,-315.864 0/1:7:2,5:2:72:5:165:-13.0664,0,-4.72951 0/1:5:2,3:2:72:3:104:-8.19766,0,-5.33157 0/1:41:21,20:21:756:20:712:-52.0644,0,-56.025 0/0:180:180,0:180:6430:0:0:0,-54.1854,-578.785 0/0:127:126,1:126:4516:1:32:0,-35.0315,-403.408 0/0:101:101,0:101:3617:0:0:0,-30.404,-325.734 0/0:126:125,1:125:4477:1:36:0,-34.3315,-399.497 0/1:78:47,30:47:1669:30:1037:-70.0962,0,-126.956 0/1:39:18,21:18:636:21:744:-55.5442,0,-45.8255 0/1:45:32,13:32:1144:13:448:-27.0888,0,-89.7232 0/0:162:159,3:159:5694:3:108:0,-38.6917,-502.477 0/0:46:46,0:46:1639:0:0:0,-13.8474,-147.78 chr02 25403754 . A G 34135.6 PASS AB=0.509225;ABP=3.81158;AC=28;AF=0.666667;AN=42;AO=1643;CIGAR=1X;DP=2209;DPB=2209;DPRA=4.19808;EPP=3570.74;EPPR=1232.06;GTI=2;LEN=1;MEANALT=1;MQM=59.8911;MQMR=59.9099;NS=21;NUMALT=1;ODDS=0.419615;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58612;QR=20276;RO=566;RPL=1643;RPP=3570.74;RPPR=1232.06;RPR=0;RUN=1;SAF=0;SAP=3570.74;SAR=1643;SRF=0;SRP=1232.06;SRR=566;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:36,27:36:1296:27:964:-68.1119,0,-97.979 0/1:132:60,72:60:2143:72:2559:-190.824,0,-153.401 0/1:78:46,32:46:1648:32:1148:-80.1495,0,-125.128 1/1:169:0,169:0:0:169:6028:-542.435,-50.8741,0 0/1:270:136,134:136:4888:134:4745:-345.658,0,-358.504 0/1:108:62,46:62:2215:46:1636:-115.018,0,-167.103 1/1:194:2,192:2:72:192:6867:-611.071,-51.5631,0 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/1:215:96,119:96:3418:119:4228:-315.923,0,-243.109 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/1:42:21,21:21:756:21:741:-54.3242,0,-55.724 1/1:175:0,175:0:0:175:6272:-564.573,-52.6803,0 1/1:130:1,129:1:36:129:4595:-410.116,-35.5356,0 1/1:102:0,102:0:0:102:3660:-329.581,-30.7051,0 1/1:124:1,123:1:36:123:4357:-388.69,-33.7294,0 0/1:79:33,46:33:1188:46:1652:-125.187,0,-83.4472 0/1:39:21,18:21:756:18:648:-46.9094,0,-56.6271 0/1:45:13,32:13:468:32:1146:-89.9031,0,-28.8995 1/1:160:3,157:3:100:157:5623:-496.837,-38.8344,0 1/1:45:1,44:1:36:44:1563:-137.345,-9.94808,0 chr02 25436282 . C T 30372.6 PASS AB=0.467335;ABP=35.3547;AC=13;AF=0.309524;AN=42;AO=1805;CIGAR=1X;DP=5880;DPB=5880;DPRA=2.64168;EPP=3887.85;EPPR=8687.5;GTI=0;LEN=1;MEANALT=1;MQM=59.974;MQMR=59.974;NS=21;NUMALT=1;ODDS=64.7848;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63667;QR=145631;RO=4075;RPL=1801;RPP=3887.85;RPPR=8687.5;RPR=4;RUN=1;SAF=0;SAP=3922.52;SAR=1805;SRF=0;SRP=8851.76;SRR=4075;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:164:76,88:76:2720:88:3108:-230.581,0,-195.675 0/1:110:45,65:45:1595:65:2304:-174.508,0,-110.726 0/1:139:72,67:72:2565:67:2364:-171.177,0,-189.255 0/0:109:109,0:109:3881:0:0:0,-32.8123,-349.456 0/1:251:93,158:93:3328:158:5597:-428.299,0,-224.179 0/1:80:43,37:43:1544:37:1318:-94.8396,0,-115.171 0/0:172:172,0:172:6134:0:0:0,-51.7772,-552.159 1/1:168:0,168:0:0:168:5925:-533.368,-50.573,0 0/1:217:115,102:115:4120:102:3615:-260.235,0,-305.632 0/1:750:452,298:452:16167:298:10485:-717.727,0,-1228.93 0/0:1123:1122,1:1122:40035:1:32:0,-334.857,-3598.62 0/1:898:508,390:508:18179:390:13634:-956.561,0,-1365.38 0/0:134:134,0:134:4812:0:0:0,-40.338,-433.234 0/0:234:232,2:232:8274:2:72:0,-63.6043,-737.827 0/0:132:132,0:132:4698:0:0:0,-39.736,-422.966 0/0:143:141,2:141:5051:2:72:0,-36.2106,-447.898 0/1:107:53,54:53:1892:54:1873:-136.637,0,-138.348 0/1:692:349,343:349:12497:343:12204:-889.901,0,-916.116 0/1:82:53,29:53:1896:29:1028:-68.1486,0,-146.234 0/0:100:99,1:99:3556:1:36:0,-26.5047,-316.649 0/0:75:75,0:75:2687:0:0:0,-22.5772,-242.074 chr02 25436291 . TGAT CGAC,TGAC 126418 PASS AB=0.532941,0.463134;ABP=36.6295,45.1181;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4185,1831;CIGAR=1X2M1X,3M1X;DP=6038;DPB=6038.25;DPRA=1.69509,2.61289;EPP=9090.62,3978.98;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.75,3;MQM=59.9728,59.9743;MQMR=0;NS=21;NUMALT=2;ODDS=67.4112;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=147702,65495;QR=0;RO=0;RPL=4185,1831;RPP=9090.62,3978.98;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=9090.62,3978.98;SAR=4185,1831;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:170:0,78,92:0:0:78,92:2737,3276:-490.104,-267.365,-243.885,-223.092,0,-195.397 1/2:115:0,47,67:0:0:47,67:1654,2395:-329.922,-195.278,-181.129,-134.639,0,-114.47 1/2:140:0,74,66:0:0:74,66:2618,2368:-406.746,-193.51,-171.234,-213.592,0,-193.724 1/1:110:0,109,0:0:0:109,0:3834,0:-344.912,-32.8123,0,-344.912,-32.8123,-344.912 1/2:257:0,99,158:0:0:99,158:3525,5657:-748.988,-461.686,-431.884,-287.659,0,-240.096 1/2:81:0,44,37:0:0:44,37:1563,1328:-236.043,-108.684,-95.4388,-127.716,0,-116.578 1/1:180:0,179,0:0:0:179,0:6357,0:-571.877,-53.8844,0,-571.877,-53.8844,-571.877 2/2:173:0,0,173:0:0:0,173:0,6192:-557.378,-557.378,-557.378,-52.0782,-52.0782,0 1/2:224:0,121,102:0:0:121,102:4255,3656:-644.525,-298.179,-261.754,-346.342,0,-315.637 1/2:774:0,462,310:0:0:462,310:16332,11056:-2231.26,-901.174,-762.099,-1330.13,0,-1236.81 1/1:1164:0,1161,1:0:0:1161,1:40797,36:-3670.16,-349.496,0,-3667.22,-346.532,-3666.92 1/2:919:0,519,397:0:0:519,397:18376,14224:-2656.94,-1160.08,-1003.85,-1496.89,0,-1377.38 1/1:139:0,138,0:0:0:138,0:4919,0:-442.583,-41.5421,0,-442.583,-41.5421,-442.583 1/1:238:0,235,2:0:0:235,2:8304,72:-746.983,-70.7421,0,-741.108,-64.8672,-740.506 1/1:140:0,140,0:0:0:140,0:4930,0:-443.853,-42.1442,0,-443.853,-42.1442,-443.853 1/1:148:0,146,2:0:0:146,2:5205,72:-468.229,-43.9504,0,-462.354,-37.7157,-461.752 1/2:105:0,52,53:0:0:52,53:1845,1899:-305.552,-155.233,-139.579,-150.676,0,-134.721 1/2:701:0,355,341:0:0:355,341:12593,12200:-2020.81,-994.89,-888.025,-1025.97,0,-923.32 1/2:81:0,50,29:0:0:50,29:1684,1028:-220.181,-83.7437,-68.6922,-136.426,0,-127.696 1/1:103:0,100,1:0:0:100,1:3507,36:-315.502,-30.103,0,-312.565,-27.1556,-312.264 1/1:76:0,76,0:0:0:76,0:2667,0:-240.275,-22.8783,0,-240.275,-22.8783,-240.275 chr02 25443574 . G A 44412.8 PASS AB=0.481189;ABP=8.07531;AC=29;AF=0.690476;AN=42;AO=2149;CIGAR=1X;DP=3084;DPB=3084;DPRA=2.06233;EPP=4660.82;EPPR=2031.17;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7315;MQMR=59.9668;NS=21;NUMALT=1;ODDS=21.6185;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76779;QR=33379;RO=934;RPL=0;RPP=4669.5;RPPR=2031.17;RPR=2149;RUN=1;SAF=2148;SAP=4660.82;SAR=1;SRF=934;SRP=2031.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:76,62:76:2701:62:2213:-157.869,0,-201.791 0/1:155:89,66:89:3196:66:2338:-163.258,0,-241.195 0/1:129:59,70:59:2101:70:2503:-186.685,0,-150.525 1/1:192:0,192:0:0:192:6836:-614.377,-57.7978,0 0/1:405:227,177:227:8102:177:6337:-448.602,0,-607.298 0/1:156:79,77:79:2832:77:2729:-198.871,0,-208.158 1/1:180:1,179:1:36:179:6417:-574.001,-50.5871,0 0/0:73:73,0:73:2601:0:0:0,-21.9752,-234.337 0/1:240:123,117:123:4386:117:4189:-304.916,0,-322.664 0/1:26:13,13:13:468:13:468:-34.6329,0,-34.6329 1/1:17:0,17:0:0:17:597:-54.0561,-5.11751,0 0/1:48:22,26:22:788:26:936:-70.1054,0,-56.7954 1/1:132:0,132:0:0:132:4715:-424.497,-39.736,0 1/1:175:0,175:0:0:175:6239:-561.501,-52.6803,0 1/1:252:0,252:0:0:252:9045:-813.983,-75.8596,0 1/1:170:0,170:0:0:170:6068:-545.997,-51.1751,0 0/1:105:46,59:46:1648:59:2116:-159.039,0,-117 0/1:154:86,68:86:3084:68:2441:-173.578,0,-231.429 0/1:92:34,58:34:1220:58:2069:-158.783,0,-82.412 1/1:167:6,161:6:216:161:5746:-497.451,-30.4815,0 1/1:78:0,78:0:0:78:2777:-250.17,-23.4803,0 chr02 25448516 . AA GA 34650.5 PASS AB=0.445277;ABP=37.7083;AC=29;AF=0.690476;AN=42;AO=1674;CIGAR=1X1M;DP=2513;DPB=2513;DPRA=1.34611;EPP=3594.76;EPPR=1798.83;GTI=1;LEN=1;MEANALT=1.3;MQM=59.9869;MQMR=60;NS=21;NUMALT=1;ODDS=9.51425;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59765;QR=29235;RO=831;RPL=1674;RPP=3638.06;RPPR=1798.83;RPR=0;RUN=1;SAF=5;SAP=3594.76;SAR=1669;SRF=0;SRP=1807.5;SRR=831;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:14,23:14:493:23:828:-63.706,0,-33.5636 0/1:132:74,58:74:2632:58:2072:-147.015,0,-197.389 0/1:117:65,52:65:2317:52:1860:-132.459,0,-173.57 1/1:154:0,154:0:0:154:5502:-495.306,-46.3586,0 0/1:278:166,112:166:5810:112:3995:-276.054,0,-439.33 0/1:106:65,41:65:2249:41:1449:-98.7947,0,-170.759 1/1:120:0,120:0:0:120:4285:-385.827,-36.1236,0 0/0:90:90,0:90:3152:0:0:0,-27.0927,-283.904 0/1:203:129,74:129:4560:74:2641:-176.827,0,-349.457 0/1:29:14,15:14:491:15:536:-39.8449,0,-35.7904 1/1:16:0,13:0:0:13:464:-41.7383,-3.91339,0 0/1:60:34,26:34:1188:26:932:-66.1371,0,-89.16 1/1:123:0,122:0:0:122:4336:-390.056,-36.7257,0 1/1:118:1,116:1:36:116:4144:-369.54,-31.9821,0 1/1:233:0,233:0:0:233:8316:-748.447,-70.14,0 1/1:84:0,84:0:0:84:3008:-270.951,-25.2865,0 0/1:101:64,37:64:2271:37:1320:-88.6979,0,-174.248 0/1:152:78,73:78:2752:73:2620:-190.232,0,-202.105 0/1:119:35,83:35:1212:83:2947:-229.583,0,-73.4977 1/1:153:1,152:1:36:152:5435:-485.681,-42.4593,0 1/1:88:1,86:1:36:86:3075:-273.39,-22.9412,0 chr02 25492018 . A G 44527.7 PASS AB=0.528267;ABP=14.4274;AC=29;AF=0.690476;AN=42;AO=2141;CIGAR=1X;DP=3100;DPB=3100;DPRA=0.820787;EPP=4600.16;EPPR=2083.28;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=14.559;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76440;QR=34189;RO=958;RPL=2135;RPP=4600.16;RPPR=2083.28;RPR=6;RUN=1;SAF=0;SAP=4652.13;SAR=2141;SRF=0;SRP=2083.28;SRR=958;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:36,39:36:1284:39:1396:-103.362,0,-93.2862 0/1:144:76,68:76:2694:68:2432:-175.787,0,-199.354 0/1:178:83,95:83:2942:95:3371:-250.023,0,-211.429 1/1:179:1,178:1:36:178:6359:-568.803,-50.2861,0 0/1:328:150,178:150:5371:178:6349:-472.764,0,-384.783 0/1:154:76,78:76:2724:78:2775:-203.632,0,-199.044 1/1:181:2,179:2:72:179:6351:-564.845,-47.6497,0 0/0:178:178,0:178:6349:0:0:0,-53.5833,-571.502 0/1:240:114,125:114:4045:125:4475:-330.613,0,-291.931 0/1:23:10,13:10:360:13:468:-35.536,0,-25.8206 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:32:17,15:17:608:15:536:-38.9419,0,-45.4191 1/1:212:0,212:0:0:212:7548:-679.364,-63.8184,0 1/1:181:0,181:0:0:181:6476:-582.926,-54.4864,0 1/1:170:0,170:0:0:170:6083:-547.57,-51.1751,0 1/1:116:0,116:0:0:116:4156:-374.223,-34.9195,0 0/1:149:69,80:69:2476:80:2861:-212.874,0,-178.24 0/1:225:114,111:114:4084:111:3981:-290.747,0,-300.014 0/1:97:30,67:30:1072:67:2394:-186.516,0,-67.5925 1/1:160:1,159:1:36:159:5678:-507.542,-44.5665,0 1/1:68:1,67:1:36:67:2391:-211.849,-16.8718,0 chr02 25504013 . G C 46109.4 PASS AB=0.679763;ABP=381.65;AC=29;AF=0.690476;AN=42;AO=2201;CIGAR=1X;DP=2724;DPB=2724;DPRA=1.55235;EPP=4782.42;EPPR=1138.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9278;MQMR=47.7438;NS=21;NUMALT=1;ODDS=2.81644;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78699;QR=18698;RO=523;RPL=2201;RPP=4782.42;RPPR=1138.69;RPR=0;RUN=1;SAF=2201;SAP=4782.42;SAR=0;SRF=523;SRP=1138.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:48,99:48:1705:99:3551:-275.545,0,-108.262 0/1:110:27,83:27:968:83:2984:-235.677,0,-53.5648 0/1:116:27,89:27:968:89:3187:-252.133,0,-51.4889 1/1:162:0,162:0:0:162:5785:-520.156,-48.7669,0 0/1:211:68,143:68:2429:143:5105:-396.074,0,-151.853 0/1:126:38,88:38:1368:88:3156:-246.334,0,-84.3829 1/1:248:1,247:1:36:247:8813:-789.574,-71.0767,0 0/0:85:85,0:85:3032:0:0:0,-25.5875,-270.51 0/1:190:56,134:56:1999:134:4803:-375.228,0,-121.155 0/1:19:11,8:11:396:8:288:-20.5478,0,-30.0245 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:35:11,24:11:396:24:860:-67.1858,0,-24.9056 1/1:119:0,119:0:0:119:4258:-383.396,-35.8226,0 1/1:138:0,138:0:0:138:4910:-441.353,-41.5421,0 1/1:281:0,281:0:0:281:10047:-904.162,-84.5894,0 1/1:126:0,126:0:0:126:4516:-406.606,-37.9298,0 0/1:93:20,73:20:716:73:2620:-208.051,0,-35.7392 0/1:198:93,105:93:3329:105:3748:-277.91,0,-237.167 0/1:104:33,71:33:1176:71:2548:-198.262,0,-73.9655 1/1:128:5,123:5:180:123:4404:-380.058,-22.094,0 1/1:82:0,82:0:0:82:2904:-261.594,-24.6845,0 chr02 25519269 . A G 13266.3 PASS AB=0.484402;ABP=5.44897;AC=13;AF=0.309524;AN=42;AO=633;CIGAR=1X;DP=2621;DPB=2621;DPRA=1.4233;EPP=538.246;EPPR=2261.7;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9975;NS=21;NUMALT=1;ODDS=22.7596;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22578;QR=71222;RO=1988;RPL=514;RPP=538.246;RPPR=2261.7;RPR=119;RUN=1;SAF=633;SAP=1377.55;SAR=0;SRF=1988;SRP=4319.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:62,64:62:2224:64:2269:-166.541,0,-162.494 0/1:72:31,41:31:1116:41:1456:-109.662,0,-79.0771 0/1:93:56,37:56:2004:37:1328:-91.8264,0,-152.638 0/0:91:91,0:91:3253:0:0:0,-27.3937,-292.989 0/1:189:79,110:79:2821:110:3948:-298.616,0,-197.233 0/1:70:38,32:38:1364:32:1144:-82.1974,0,-101.989 0/0:190:190,0:190:6813:0:0:0,-57.1957,-613.235 1/1:68:0,68:0:0:68:2436:-219.495,-20.47,0 0/1:186:102,84:102:3656:84:3003:-214.51,0,-273.252 0/1:31:11,20:11:392:20:697:-53.7187,0,-26.2881 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:36:22,14:22:792:14:504:-34.861,0,-60.7686 0/0:101:101,0:101:3628:0:0:0,-30.404,-326.724 0/0:120:120,0:120:4301:0:0:0,-36.1236,-387.264 0/0:650:647,3:647:23163:3:104:0,-185.967,-2074.34 0/0:109:108,1:108:3884:1:36:0,-29.214,-346.154 0/1:108:68,40:68:2425:40:1432:-96.6664,0,-185.993 0/1:188:87,101:87:3132:101:3573:-265.183,0,-225.511 0/1:55:39,16:39:1404:16:576:-35.6183,0,-110.103 0/0:65:63,2:63:2230:2:72:0,-12.7302,-194.124 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.068 chr02 25569605 . 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T C 35446.2 PASS AB=0.5704;ABP=56.8211;AC=29;AF=0.690476;AN=42;AO=1704;CIGAR=1X;DP=2342;DPB=2342;DPRA=1.1449;EPP=3668.54;EPPR=1345.32;GTI=0;LEN=1;MEANALT=1;MQM=59.9912;MQMR=60;NS=21;NUMALT=1;ODDS=5.75611;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60742;QR=22781;RO=638;RPL=1700;RPP=3668.54;RPPR=1345.32;RPR=4;RUN=1;SAF=1704;SAP=3703.2;SAR=0;SRF=638;SRP=1388.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:246:111,135:111:3962:135:4828:-360.622,0,-282.718 0/1:90:44,46:44:1564:46:1644:-121.156,0,-113.959 0/1:95:52,43:52:1860:43:1540:-110.295,0,-139.082 1/1:62:0,62:0:0:62:2223:-200.334,-18.6639,0 0/1:352:132,220:132:4717:220:7862:-601.641,0,-318.726 0/1:103:50,53:50:1796:53:1884:-138.833,0,-130.916 1/1:238:0,238:0:0:238:8461:-761.497,-71.6451,0 0/0:98:98,0:98:3503:0:0:0,-29.5009,-315.48 0/1:169:65,104:65:2328:104:3686:-281.071,0,-158.906 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:10:4,6:4:144:6:212:-16.4145,0,-10.3033 1/1:83:1,82:1:36:82:2934:-260.696,-21.3872,0 1/1:87:1,86:1:36:86:2963:-263.31,-22.5913,0 1/1:288:0,288:0:0:288:10310:-927.821,-86.6966,0 1/1:152:0,152:0:0:152:5443:-489.998,-45.7566,0 0/1:71:33,38:33:1171:38:1347:-100.156,0,-84.3235 0/1:69:31,38:31:1088:38:1368:-102.65,0,-77.4554 0/1:35:11,24:11:396:24:845:-65.831,0,-25.4467 1/1:48:1,47:1:36:47:1688:-148.609,-10.8512,0 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 chr02 25625143 . A C 21343.4 PASS AB=0.477679;ABP=11.735;AC=12;AF=0.285714;AN=42;AO=1204;CIGAR=1X;DP=4224;DPB=4224;DPRA=2.01967;EPP=2617.46;EPPR=6543.5;GTI=0;LEN=1;MEANALT=1;MQM=59.9568;MQMR=59.9798;NS=21;NUMALT=1;ODDS=15.7599;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42972;QR=107045;RO=3020;RPL=1204;RPP=2617.46;RPPR=6543.5;RPR=0;RUN=1;SAF=1204;SAP=2617.46;SAR=0;SRF=3020;SRP=6560.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:225:129,96:129:4570:96:3402:-238.663,0,-343.724 0/1:69:31,38:31:1104:38:1355:-101.479,0,-78.8996 0/1:240:129,111:129:4557:111:3959:-284.146,0,-338.054 0/0:211:211,0:211:7516:0:0:0,-63.5173,-676.487 0/1:375:176,199:176:6209:199:7108:-526.895,0,-446.031 0/1:337:169,168:169:6006:168:5987:-437.481,0,-438.345 0/0:289:288,1:288:10149:1:36:0,-83.3994,-909.753 1/1:235:1,234:1:36:234:8389:-751.413,-67.1438,0 0/1:441:238,203:238:8437:203:7229:-517.91,0,-626.589 0/0:28:27,1:27:968:1:36:0,-4.83056,-83.8391 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:73:45,28:45:1596:28:1000:-68.3402,0,-121.955 0/0:330:329,1:329:11684:1:36:0,-95.7416,-1047.84 0/0:325:324,1:324:11476:1:36:0,-94.2365,-1029.13 0/0:341:340,1:340:12041:1:36:0,-99.0529,-1079.96 0/0:102:102,0:102:3632:0:0:0,-30.7051,-327.087 0/1:101:52,49:52:1860:49:1747:-127.109,0,-137.276 0/1:83:35,48:35:1239:48:1720:-130.1,0,-86.8282 0/1:72:49,23:49:1760:23:824:-52.8092,0,-137.01 0/0:271:270,1:270:9529:1:36:0,-77.9809,-853.982 0/0:67:66,1:66:2356:1:36:0,-16.5707,-208.701 chr02 25625156 . G A 130266 PASS AB=0.540832;ABP=50.0031;AC=29;AF=0.690476;AN=42;AO=4890;CIGAR=1X;DP=6806;DPB=6806;DPRA=0;EPP=10621.5;EPPR=4152.69;GTI=1;LEN=1;MEANALT=1.2381;MQM=59.9157;MQMR=59.9267;NS=21;NUMALT=1;ODDS=8.5879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=174011;QR=67592;RO=1911;RPL=3016;RPP=582.142;RPPR=232.09;RPR=1874;RUN=1;SAF=3016;SAP=582.142;SAR=1874;SRF=1180;SRP=232.09;SRR=731;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:338:159,179:159:5587:179:6334:-468.406,0,-401.207 0/1:144:77,66:77:2699:66:2342:-167.649,0,-199.764 0/1:367:157,210:157:5575:210:7442:-559.316,0,-390.344 1/1:358:0,357:0:0:357:12718:-1143.82,-107.468,0 0/1:590:287,303:287:10138:303:10786:-792.89,0,-734.757 0/1:432:219,212:219:7748:212:7573:-551.634,0,-567.38 1/1:442:2,439:2:72:439:15604:-1396.64,-126.277,0 0/0:414:413,1:413:14627:1:36:0,-121.028,-1311.96 0/1:732:298,434:298:10575:434:15466:-1171.29,0,-731.301 0/1:41:5,36:5:180:36:1284:-103.521,0,-4.20983 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:114:45,69:45:1603:69:2459:-187.247,0,-110.242 1/1:565:2,563:2:72:563:20052:-1797.17,-163.245,0 1/1:551:1,550:1:36:550:19601:-1759.98,-162.269,0 1/1:585:1,584:1:36:584:20821:-1869.78,-172.504,0 1/1:156:0,156:0:0:156:5530:-497.825,-46.9607,0 0/1:155:82,72:82:2916:72:2571:-184.92,0,-215.958 0/1:173:102,71:102:3573:71:2510:-174.075,0,-269.702 0/1:159:56,103:56:1975:103:3649:-280.481,0,-130.161 1/1:342:3,339:3:108:339:12033:-1072.75,-92.8771,0 1/1:134:2,132:2:72:132:4700:-416.267,-33.5013,0 chr02 25625199 . TCT TT 12572.5 PASS AB=0.435294;ABP=49.3776;AC=13;AF=0.309524;AN=42;AO=741;CIGAR=1M1D1M;DP=2716;DPB=2469.33;DPRA=0.977693;EPP=1612.07;EPPR=4287.33;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.7638;MQMR=59.6477;NS=21;NUMALT=1;ODDS=2.65343;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=26022;QR=70312;RO=1973;RPL=741;RPP=1612.07;RPPR=4287.33;RPR=0;RUN=1;SAF=0;SAP=1612.07;SAR=741;SRF=0;SRP=4287.33;SRR=1973;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:51,63:51:1812:63:2209:-164.749,0,-129.041 0/1:75:36,38:36:1281:38:1322:-96.6593,0,-92.9758 0/1:134:83,51:83:2974:51:1768:-118.627,0,-227.52 0/0:152:152,0:152:5421:0:0:0,-45.7566,-487.511 0/1:232:138,94:138:4938:94:3267:-224.351,0,-374.084 0/1:106:49,57:49:1735:57:1983:-146.687,0,-124.524 0/0:154:154,0:154:5482:0:0:0,-46.3586,-492.3 1/1:183:0,183:0:0:183:6467:-582.108,-55.0885,0 0/1:305:208,97:208:7383:97:3427:-216.827,0,-571.315 0/1:16:11,5:11:394:5:165:-10.2489,0,-30.985 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:47:25,22:25:900:22:753:-53.9337,0,-67.1726 0/0:262:261,1:261:9273:1:36:0,-75.2716,-830.099 0/0:229:228,0:228:8114:0:0:0,-68.6348,-729.866 0/0:253:253,0:253:9037:0:0:0,-76.1606,-813.101 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.747 0/1:59:21,38:21:753:38:1352:-104.149,0,-50.3358 0/1:97:42,55:42:1487:55:1945:-146.124,0,-104.923 0/1:90:55,35:55:1957:35:1256:-86.2526,0,-148.456 0/0:77:75,2:75:2679:2:72:0,-16.3426,-234.343 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.265 chr02 25625202 . CTGTCTCTCTTTG CTTTCTCTTTG,CTGTCTCTTTG 56773.9 PASS AB=0.565978,0.432432;ABP=50.5756,52.8955;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1946,723;CIGAR=1M2D1M1X8M,3M2D8M;DP=2677;DPB=2275.69;DPRA=0.710511,0.967654;EPP=4228.7,1572.98;EPPR=0;GTI=0;LEN=11,2;MEANALT=2,2.07143;MQM=59.6845,59.8216;MQMR=0;NS=21;NUMALT=2;ODDS=9.95386;PAIRED=0,0;PAIREDR=0;PAO=7,13;PQA=239.667,450.667;PQR=450.667;PRO=13;QA=69302,25187;QR=0;RO=0;RPL=1946,723;RPP=4228.7,1572.98;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4228.7,1572.98;SAR=1946,723;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:112:0,49,63:0:0:49,63:1748,2209:-322.425,-179.932,-165.181,-142.686,0,-123.721 1/2:73:0,37,35:0:0:37,35:1326,1214:-206.636,-98.4881,-87.35,-107.968,0,-97.4318 1/2:131:0,83,48:0:0:83,48:2932,1663:-374.184,-135.441,-110.456,-239.033,0,-224.584 1/1:151:0,149,0:0:0:149,0:5298,0:-476.606,-44.8535,0,-476.606,-44.8535,-476.606 1/2:233:0,138,95:0:0:138,95:4922,3282:-667.634,-266.94,-225.398,-400.984,0,-372.387 1/2:106:0,49,57:0:0:49,57:1746,2008:-306.01,-163.69,-148.94,-142.674,0,-125.515 1/1:154:0,153,0:0:0:153,0:5446,0:-489.743,-46.0576,0,-489.743,-46.0576,-489.743 2/2:176:0,0,176:0:0:0,176:0,6101:-548.99,-548.99,-548.99,-52.9813,-52.9813,0 1/2:304:0,208,96:0:0:208,96:7399,3349:-875.125,-272.697,-210.082,-602.78,0,-573.881 1/2:17:0,10,6:0:0:10,6:358,216:-46.7116,-17.517,-14.5067,-29.1929,0,-27.3868 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:46:0,25,21:0:0:25,21:898,733:-133.229,-59.9678,-52.4421,-73.615,0,-67.2934 1/1:255:0,254,1:0:0:254,1:9019,36:-810.54,-76.4616,0,-807.603,-73.1644,-807.302 1/1:227:0,225,0:0:0:225,0:7991,0:-718.68,-67.7318,0,-718.68,-67.7318,-718.68 1/1:251:0,250,0:0:0:250,0:8938,0:-803.758,-75.2575,0,-803.758,-75.2575,-803.758 1/1:55:0,55,0:0:0:55,0:1974,0:-177.927,-16.5567,0,-177.927,-16.5567,-177.927 1/2:56:0,20,36:0:0:20,36:716,1269:-161.952,-103.562,-97.5413,-58.64,0,-47.8029 1/2:94:0,41,53:0:0:41,53:1476,1842:-270.427,-149.988,-137.646,-120.684,0,-104.729 1/2:86:0,52,34:0:0:52,34:1826,1197:-246.255,-97.6449,-81.9913,-148.809,0,-138.574 1/1:76:0,74,2:0:0:74,2:2652,68:-238.273,-22.2762,0,-232.758,-16.447,-232.155 1/1:69:0,69,0:0:0:69,0:2457,0:-220.775,-20.7711,0,-220.775,-20.7711,-220.775 chr02 25632056 . CGAC CGAG,TGAG 109948 PASS AB=0.511993,0.48524;ABP=5.71863,7.11286;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2880,1226;CIGAR=3M1X,1X2M1X;DP=4124;DPB=4124.5;DPRA=1.17738,1.1351;EPP=6256.85,2665.24;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.45,2.66667;MQM=59.9024,59.9853;MQMR=0;NS=21;NUMALT=2;ODDS=23.6254;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=0;QA=101539,42545;QR=0;RO=0;RPL=1305,496;RPP=57.9757,99.9933;RPPR=0;RPR=1575,730;RUN=1,1;SAF=1305,496;SAP=57.9757,99.9933;SAR=1575,730;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:139:0,77,62:0:0:77,62:2714,2129:-394.178,-173.212,-150.033,-221.313,0,-202.649 1/2:168:0,85,83:0:0:85,83:3044,2887:-483.32,-235.085,-209.497,-248.588,0,-223.602 1/2:223:0,112,109:0:0:112,109:3930,3811:-629.898,-310.067,-276.352,-319.866,0,-287.053 1/1:237:0,237,0:0:0:237,0:8419,0:-757.713,-71.3441,0,-757.713,-71.3441,-757.713 1/2:436:0,207,228:0:0:207,228:7339,7940:-1243.61,-645.712,-583.398,-597.945,0,-529.311 1/2:218:0,107,111:0:0:107,111:3777,3872:-622.819,-315.266,-283.056,-307.904,0,-274.489 1/1:259:0,256,1:0:0:256,1:8939,36:-803.669,-77.0637,0,-800.732,-74.113,-800.431 2/2:168:0,0,166:0:0:0,166:0,5696:-512.508,-512.508,-512.508,-49.971,-49.971,0 1/2:301:0,146,152:0:0:146,152:5125,5223:-841.289,-424.19,-380.239,-417.168,0,-371.411 1/2:31:0,11,20:0:0:11,20:392,689:-88.2661,-56.3094,-52.998,-32.3087,0,-26.2881 1/1:14:0,14,0:0:0:14,0:484,0:-43.8885,-4.21442,0,-43.8885,-4.21442,-43.8885 1/2:81:0,44,37:0:0:44,37:1564,1297:-233.346,-105.892,-92.6472,-127.806,0,-116.668 1/1:277:0,277,0:0:0:277,0:9876,0:-888.769,-83.3853,0,-888.769,-83.3853,-888.769 1/1:206:0,202,3:0:0:202,3:6974,104:-627.403,-60.8081,0,-618.95,-52.2823,-618.046 1/1:318:0,314,1:0:0:314,1:11027,35:-992.035,-94.5234,0,-989.187,-91.6565,-988.886 1/1:154:0,152,1:0:0:152,1:5386,36:-484.439,-45.7566,0,-481.501,-42.7892,-481.2 1/2:137:0,79,58:0:0:79,58:2756,2019:-388.612,-164.522,-140.741,-224.438,0,-206.979 1/2:297:0,146,151:0:0:146,151:5165,5248:-847.698,-427.017,-383.067,-421.031,0,-375.576 1/2:137:0,96,41:0:0:96,41:3413,1453:-396.793,-118.666,-89.7668,-278.423,0,-266.081 1/1:179:0,175,1:0:0:175,1:6149,34:-553.192,-52.6803,0,-550.434,-49.9148,-550.133 1/1:144:0,143,1:0:0:143,1:5066,36:-455.719,-43.0473,0,-452.782,-39.75,-452.481 chr02 25647066 . G A 9914.85 PASS AB=0.257333;ABP=386.626;AC=29;AF=0.690476;AN=42;AO=548;CIGAR=1X;DP=1242;DPB=1242;DPRA=0.416917;EPP=1167.06;EPPR=1473.3;GTI=5;LEN=1;MEANALT=1;MQM=59.6113;MQMR=59.9711;NS=21;NUMALT=1;ODDS=2.28801;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19633;QR=24780;RO=693;RPL=548;RPP=1192.98;RPPR=1507.84;RPR=0;RUN=1;SAF=545;SAP=1167.06;SAR=3;SRF=689;SRP=1473.3;SRR=4;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:41,11:41:1457:11:396:-20.3246,0,-115.77 0/1:42:31,11:31:1112:11:396:-23.3395,0,-87.7481 0/1:72:57,15:57:2048:15:532:-26.5297,0,-162.917 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 0/1:179:148,31:148:5288:31:1108:-46.1466,0,-422.172 0/1:51:41,10:41:1463:10:360:-17.3918,0,-116.613 1/1:41:0,41:0:0:41:1457:-131.405,-12.3422,0 0/0:133:132,0:132:4740:0:0:0,-39.736,-426.397 0/1:180:142,38:142:5088:38:1364:-68.8721,0,-403.876 0/1:5:2,3:2:72:3:104:-8.19766,0,-5.33157 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:16:6,10:6:216:10:356:-27.5648,0,-14.974 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 1/1:28:0,28:0:0:28:1004:-90.6643,-8.42884,0 1/1:26:0,26:0:0:26:936:-84.5533,-7.82678,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:46:41,5:41:1445:5:176:-2.33764,0,-116.473 0/1:52:26,26:26:923:26:932:-68.2249,0,-67.7332 0/1:55:22,33:22:788:33:1188:-90.665,0,-54.6881 1/1:153:4,149:4:140:149:5340:-467.708,-33.113,0 1/1:33:0,33:0:0:33:1188:-107.158,-9.93399,0 chr02 25648202 . GACTACTA GACTA 13540.6 PASS AB=0.446856;ABP=35.7839;AC=13;AF=0.309524;AN=42;AO=804;CIGAR=1M3D4M;DP=2797;DPB=2494.62;DPRA=0.963504;EPP=1740.2;EPPR=4287.33;GTI=0;LEN=3;MEANALT=1.625;MQM=59.944;MQMR=59.9402;NS=21;NUMALT=1;ODDS=15.9915;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27841;QR=69258;RO=1973;RPL=2;RPP=1731.55;RPPR=4252.65;RPR=802;RUN=1;SAF=1;SAP=1740.2;SAR=803;SRF=4;SRP=4252.65;SRR=1969;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:160:108,52:108:3811:52:1796:-113.468,0,-295.03 0/1:111:76,35:76:2681:35:1222:-76.8677,0,-208.125 0/1:147:72,75:72:2497:75:2609:-190.806,0,-180.734 0/0:97:97,0:97:3407:0:0:0,-29.1999,-306.721 0/1:296:139,154:139:4897:154:5332:-391.519,0,-352.386 0/1:58:29,29:29:1009:29:1004:-73.2079,0,-73.6598 0/0:193:192,1:192:6756:1:36:0,-54.5005,-604.192 1/1:204:0,201:0:0:201:6940:-624.354,-60.507,0 0/1:276:144,132:144:5049:132:4651:-335.673,0,-371.484 0/1:21:11,10:11:382:10:314:-22.2421,0,-28.3909 0/0:4:4,0:4:136:0:0:0,-1.20412,-12.5756 0/1:18:7,11:7:234:11:361:-27.3884,0,-15.9685 0/0:164:158,0:158:5547:0:0:0,-47.5627,-499.029 0/0:107:106,1:106:3693:1:36:0,-28.6119,-328.985 0/0:343:342,0:342:12052:0:0:0,-102.952,-1083.97 0/0:130:126,2:126:4417:2:72:0,-32.0549,-390.876 0/1:57:34,21:34:1167:21:712:-47.5521,0,-88.4907 0/1:97:52,44:52:1837:44:1530:-108.82,0,-136.441 0/1:95:60,34:60:2117:34:1158:-75.95,0,-162.232 0/0:142:140,2:140:4885:2:68:0,-36.2885,-433.356 0/0:77:76,0:76:2684:0:0:0,-22.8783,-241.13 chr02 25648240 . G A 15856.6 PASS AB=0.465605;ABP=17.2011;AC=13;AF=0.309524;AN=42;AO=869;CIGAR=1X;DP=2852;DPB=2852;DPRA=0.992405;EPP=1855.44;EPPR=4265.72;GTI=0;LEN=1;MEANALT=1;MQM=59.9816;MQMR=60;NS=21;NUMALT=1;ODDS=11.5254;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31108;QR=71008;RO=1983;RPL=865;RPP=1855.44;RPPR=4265.72;RPR=4;RUN=1;SAF=0;SAP=1890.02;SAR=869;SRF=0;SRP=4309.04;SRR=1983;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:108,53:108:3832:53:1893:-122.18,0,-296.611 0/1:118:79,39:79:2836:39:1400:-90.7776,0,-219.956 0/1:148:70,78:70:2504:78:2792:-206.968,0,-181.06 0/0:96:96,0:96:3448:0:0:0,-28.8989,-310.532 0/1:309:143,166:143:5099:166:5941:-441.778,0,-366.037 0/1:61:29,32:29:1040:32:1129:-83.5501,0,-75.5515 0/0:194:193,1:193:6919:1:36:0,-54.8015,-619.176 1/1:220:0,220:0:0:220:7873:-708.595,-66.2266,0 0/1:289:145,144:145:5212:144:5168:-378.261,0,-382.218 0/1:22:11,11:11:396:11:392:-28.996,0,-29.3601 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:17:6,11:6:216:11:388:-30.1399,0,-14.673 0/0:164:164,0:164:5862:0:0:0,-49.3689,-527.691 0/0:105:104,1:104:3723:1:36:0,-28.0099,-331.672 0/0:343:343,0:343:12315:0:0:0,-103.253,-1108.18 0/0:126:124,2:124:4444:2:72:0,-31.0931,-393.294 0/1:60:33,27:33:1176:27:972:-69.7361,0,-88.086 0/1:102:55,47:55:1976:47:1688:-121.502,0,-147.41 0/1:94:59,35:59:2115:35:1256:-85.0485,0,-162.321 0/0:143:141,2:141:5048:2:72:0,-36.2106,-447.629 0/0:76:76,0:76:2703:0:0:0,-22.8783,-243.512 chr02 25656339 . TAC AAC,AAG 21197.1 PASS AB=0.505654,0.491115;ABP=3.18219,3.43477;AC=29,13;AF=0.690476,0.309524;AN=42;AO=705,334;CIGAR=1X2M,1X1M1X;DP=1041;DPB=1041;DPRA=2.032,1.37906;EPP=1533.9,728.282;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.7,2;MQM=54.4681,41.2246;MQMR=60;NS=21;NUMALT=2;ODDS=6.94546;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25193,11627;QR=27;RO=1;RPL=0,0;RPP=1533.9,728.282;RPPR=5.18177;RPR=705,334;RUN=1,1;SAF=0,0;SAP=1533.9,728.282;SAR=705,334;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,29,31:0:0:29,31:1027,1070:-168.262,-84.8109,-76.081,-83.7962,0,-74.4642 1/2:21:0,11,10:0:0:11,10:396,351:-59.0201,-26.965,-23.6537,-32.3977,0,-29.3874 1/2:42:0,20,22:0:0:20,22:716,757:-117.623,-59.323,-53.3024,-58.6452,0,-52.0225 1/1:31:0,31,0:0:0:31,0:1108,0:-99.9245,-9.33193,0,-99.9245,-9.33193,-99.9245 1/2:121:0,71,50:0:0:71,50:2548,1766:-347.605,-140.031,-118.658,-207.924,0,-192.872 1/2:32:0,11,21:0:0:11,21:385,748:-87.357,-56.5199,-53.2086,-31.1772,0,-24.8556 1/1:90:0,88,2:0:0:88,2:3149,72:-281.801,-26.4906,0,-276.305,-20.6563,-275.703 2/2:25:0,0,25:0:0:0,25:0,866:-74.8309,-74.8309,-74.8309,-7.52575,-7.52575,0 1/2:139:1,67,71:1:27:67,71:2394,2467:-389.387,-194.843,-176.802,-192.796,0,-173.55 1/2:17:0,4,13:0:0:4,13:144,463:-47.5253,-35.8291,-34.625,-12.0493,0,-8.13592 1/1:5:0,5,0:0:0:5,0:180,0:-16.325,-1.50515,0,-16.325,-1.50515,-16.325 1/2:13:0,8,5:0:0:8,5:288,173:-37.0466,-13.5645,-11.1563,-23.8219,0,-22.3168 1/1:61:0,61,0:0:0:61,0:2179,0:-195.836,-18.3628,0,-195.836,-18.3628,-195.836 1/1:45:0,45,0:0:0:45,0:1594,0:-143.644,-13.5464,0,-143.644,-13.5464,-143.644 1/1:66:0,66,0:0:0:66,0:2372,0:-213.135,-19.868,0,-213.135,-19.868,-213.135 1/1:32:0,32,0:0:0:32,0:1137,0:-102.547,-9.63296,0,-102.547,-9.63296,-102.547 1/2:67:0,31,36:0:0:31,36:1108,1242:-189.247,-98.9234,-89.5914,-90.672,0,-79.8349 1/2:76:0,39,36:0:0:39,36:1396,1249:-210.012,-96.6434,-84.9032,-113.46,0,-102.623 1/2:31:0,22,9:0:0:22,9:779,311:-88.2017,-24.7872,-18.1645,-63.7551,0,-61.0458 1/1:30:0,27,3:0:0:27,3:961,92:-86.3682,-8.12781,0,-79.1889,-0.64338,-78.2858 1/1:37:0,37,0:0:0:37,0:1332,0:-119.883,-11.1381,0,-119.883,-11.1381,-119.883 chr02 25710162 . G A 9649.2 PASS AB=0.525164;ABP=8.03747;AC=13;AF=0.309524;AN=42;AO=547;CIGAR=1X;DP=1701;DPB=1701;DPRA=1.16406;EPP=1190.81;EPPR=2506.72;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9817;MQMR=60;NS=21;NUMALT=1;ODDS=5.98377;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19611;QR=41057;RO=1153;RPL=547;RPP=1190.81;RPPR=2506.72;RPR=0;RUN=1;SAF=0;SAP=1190.81;SAR=547;SRF=0;SRP=2506.72;SRR=1153;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:41,39:41:1464:39:1392:-101.497,0,-107.974 0/1:66:36,30:36:1273:30:1076:-77.2849,0,-95.0029 0/1:73:36,37:36:1284:37:1332:-98.2072,0,-93.8882 0/0:82:82,0:82:2912:0:0:0,-24.6845,-262.317 0/1:245:111,133:111:3955:133:4762:-355.075,0,-282.48 0/1:85:35,50:35:1244:50:1800:-136.695,0,-86.6771 0/0:132:131,1:131:4667:1:36:0,-36.1377,-416.595 1/1:64:1,63:1:32:63:2253:-199.832,-16.0666,0 0/1:153:77,76:77:2740:76:2728:-199.691,0,-200.786 0/1:18:6,12:6:216:12:432:-33.8027,0,-14.372 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/0:78:78,0:78:2788:0:0:0,-23.4803,-251.161 0/0:96:95,1:95:3376:1:32:0,-25.6996,-300.859 0/0:154:154,0:154:5488:0:0:0,-46.3586,-494.05 0/0:64:63,1:63:2252:1:36:0,-15.6676,-199.345 0/1:101:37,64:37:1312:64:2300:-176.857,0,-87.9776 0/1:53:29,24:29:1032:24:856:-61.4065,0,-77.2389 0/1:25:21,4:21:740:4:144:-5.78787,0,-59.3976 0/0:71:70,1:70:2508:1:36:0,-17.7749,-222.374 0/0:42:42,0:42:1490:0:0:0,-12.6433,-134.393 chr02 25748368 . G A 10401.6 PASS AB=0.535211;ABP=12.9501;AC=12;AF=0.285714;AN=42;AO=578;CIGAR=1X;DP=1937;DPB=1937;DPRA=1.00418;EPP=1249.45;EPPR=2899.98;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8547;MQMR=35.7761;NS=21;NUMALT=1;ODDS=5.8503;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20710;QR=48628;RO=1358;RPL=577;RPP=1249.45;RPPR=2899.98;RPR=1;RUN=1;SAF=578;SAP=1258.12;SAR=0;SRF=1358;SRP=2951.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:75,65:75:2692:65:2317:-165.451,0,-172.397 0/1:105:60,44:60:2160:44:1576:-110.607,0,-150.344 0/1:97:49,48:49:1737:48:1716:-125.526,0,-111.716 0/0:90:90,0:90:3228:0:0:0,-27.0927,-261.266 0/1:213:80,133:80:2868:133:4761:-364.526,0,-166.95 0/1:162:71,91:71:2548:91:3272:-245.899,0,-165.858 0/0:148:148,0:148:5282:0:0:0,-44.5524,-444.354 1/1:80:0,80:0:0:80:2860:-257.636,-24.0824,0 0/1:134:62,72:62:2228:72:2588:-192.828,0,-140.205 0/1:19:11,8:11:392:8:288:-20.5478,0,-27.8975 0/0:7:7,0:7:248:0:0:0,-2.10721,-21.4202 0/1:25:11,14:11:396:14:504:-38.17,0,-25.6784 0/0:91:91,0:91:3252:0:0:0,-27.3937,-261.495 0/0:80:79,1:79:2836:1:36:0,-20.4841,-223.84 0/0:151:151,0:151:5413:0:0:0,-45.4555,-431.59 0/0:102:102,0:102:3664:0:0:0,-30.7051,-296.46 0/0:143:143,0:143:5113:0:0:0,-43.0473,-417.154 0/1:16:4,12:4:144:12:432:-34.4047,0,-7.71764 0/1:12:5,7:5:176:7:252:-19.4166,0,-10.2352 0/0:118:115,3:115:4107:3:108:0,-25.4464,-336.836 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.5341 chr02 25748372 . TT GA,TA 38557.1 PASS AB=0.466165,0.531686;ABP=12.2676,11.1294;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1376,580;CIGAR=2X,1M1X;DP=1958;DPB=1958;DPRA=1.15864,0.995475;EPP=2904.73,1253.79;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.7,2.07692;MQM=35.7413,59.8879;MQMR=0;NS=21;NUMALT=2;ODDS=6.99359;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48883,20800;QR=0;RO=0;RPL=10,579;RPP=2904.73,1253.79;RPPR=0;RPR=1366,1;RUN=1,1;SAF=1376,580;SAP=2990.96,1262.46;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:141:0,77,64:0:0:77,64:2735,2300:-382.448,-187.988,-164.809,-194.799,0,-175.533 1/2:105:0,59,45:0:0:59,45:2111,1620:-292.297,-132.326,-114.565,-160.102,0,-146.556 1/2:96:0,49,47:0:0:49,47:1738,1684:-264.146,-137.699,-122.948,-126.787,0,-112.639 1/1:93:0,93,0:0:0:93,0:3318,0:-268.407,-27.9958,0,-268.407,-27.9958,-268.407 1/2:215:0,82,133:0:0:82,133:2905,4780:-600.417,-390.315,-365.631,-210.435,0,-170.398 1/2:164:0,73,91:0:0:73,91:2605,3264:-463.929,-266.552,-244.577,-197.722,0,-170.328 1/1:148:0,148,0:0:0:148,0:5270,0:-444.631,-44.5524,0,-444.631,-44.5524,-444.631 2/2:81:0,0,81:0:0:0,81:0,2896:-260.874,-260.874,-260.874,-24.3834,-24.3834,0 1/2:138:0,63,75:0:0:63,75:2257,2676:-381.869,-218.492,-199.528,-163.714,0,-141.137 1/2:19:0,11,7:0:0:11,7:392,252:-50.5178,-20.5619,-17.2506,-29.9478,0,-27.8406 1/1:7:0,7,0:0:0:7,0:234,0:-20.2841,-2.10721,0,-20.2841,-2.10721,-20.2841 1/2:25:0,11,14:0:0:11,14:396,500:-70.6692,-41.1194,-37.8081,-29.8928,0,-25.6784 1/1:94:0,94,0:0:0:94,0:3322,0:-267.796,-28.2968,0,-267.796,-28.2968,-267.796 1/1:80:0,79,1:0:0:79,1:2812,36:-225.76,-23.7814,0,-222.822,-20.4841,-222.521 1/1:155:0,155,0:0:0:155,0:5459,0:-437.649,-46.6597,0,-437.649,-46.6597,-437.649 1/1:103:0,103,0:0:0:103,0:3654,0:-296.464,-31.0061,0,-296.464,-31.0061,-296.464 1/1:143:0,143,0:0:0:143,0:5084,0:-416.06,-43.0473,0,-416.06,-43.0473,-416.06 1/2:16:0,4,12:0:0:4,12:144,432:-46.5948,-35.6088,-34.4047,-11.33,0,-7.71764 1/2:12:0,5,7:0:0:5,7:169,252:-32.8372,-20.9217,-19.4166,-12.2397,0,-10.1325 1/1:118:0,115,3:0:0:115,3:4100,108:-346.202,-34.6185,0,-337.389,-25.4464,-336.486 1/1:5:0,5,0:0:0:5,0:178,0:-15.4605,-1.50515,0,-15.4605,-1.50515,-15.4605 chr02 25748383 . T A 24393.3 PASS AB=0.463124;ABP=13.9006;AC=30;AF=0.714286;AN=42;AO=1358;CIGAR=1X;DP=1937;DPB=1937;DPRA=1.16063;EPP=2951.87;EPPR=1258.12;GTI=0;LEN=1;MEANALT=1.05;MQM=35.7099;MQMR=59.9273;NS=21;NUMALT=1;ODDS=5.8503;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48644;QR=20670;RO=578;RPL=1358;RPP=2951.87;RPPR=1258.12;RPR=0;RUN=1;SAF=1358;SAP=2951.87;SAR=0;SRF=578;SRP=1258.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:63,75:63:2268:75:2688:-172.481,0,-162.833 0/1:105:45,60:45:1604:60:2148:-148.972,0,-113.042 0/1:96:47,49:47:1688:49:1756:-113.393,0,-123.308 1/1:92:0,92:0:0:92:3296:-266.093,-27.6948,0 0/1:214:135,79:135:4803:79:2810:-162.032,0,-368.001 0/1:161:90,71:90:3232:71:2533:-164.99,0,-242.629 1/1:147:0,147:0:0:147:5265:-442.656,-44.2514,0 0/0:80:80,0:80:2848:0:0:0,-24.0824,-256.554 0/1:137:73,63:73:2628:63:2264:-142.328,0,-195.494 0/1:18:8,10:8:284:10:360:-25.4086,0,-20.4848 1/1:6:0,6:0:0:6:216:-18.6318,-1.80618,0 0/1:25:14,11:14:504:11:396:-25.6784,0,-38.17 1/1:93:0,93:0:0:93:3344:-267.901,-27.9958,0 1/1:78:1,77:1:36:77:2760:-217.825,-19.8821,0 1/1:154:0,154:0:0:154:5532:-441.017,-46.3586,0 1/1:101:0,101:0:0:101:3592:-291.105,-30.404,0 1/1:143:0,143:0:0:143:5128:-418.207,-43.0473,0 0/1:16:12,4:12:432:4:144:-7.71764,0,-34.4047 0/1:12:7,5:7:235:5:176:-10.0485,0,-17.8656 1/1:117:3,114:3:108:114:4092:-335.09,-25.1453,0 1/1:4:0,4:0:0:4:144:-12.5341,-1.20412,0 chr02 25748564 . GCATTGT TCATTGT,TCATTGTGT 26612.3 PASS AB=0.557461,0.433962;ABP=19.7303,25.0938;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1033,291;CIGAR=1X6M,1X3M2I3M;DP=1334;DPB=1417.43;DPRA=1.7527,0.942893;EPP=2246.14,634.909;EPPR=0;GTI=1;LEN=1,9;MEANALT=2.05,2.41667;MQM=58.4956,31.4399;MQMR=0;NS=21;NUMALT=2;ODDS=1.64886;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36870,9115;QR=0;RO=0;RPL=1033,291;RPP=2246.14,634.909;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2246.14,634.909;SAR=1033,291;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,72,36:0:0:72,36:2571,1179:-295.306,-86.1446,-64.4704,-209.48,0,-198.642 1/2:86:0,55,29:0:0:55,29:1972,812:-217.084,-56.4041,-39.8474,-160.618,0,-151.888 1/2:44:0,23,21:0:0:23,21:813,675:-115.439,-49.2372,-42.3135,-66.5233,0,-60.2016 1/1:64:0,64,0:0:0:64,0:2270,0:-204.222,-19.2659,0,-204.222,-19.2659,-204.222 1/2:36:0,14,22:0:0:14,22:504,718:-93.7275,-52.6364,-48.4219,-41.4266,0,-34.8039 1/2:101:0,65,36:0:0:65,36:2328,1004:-259.499,-70.0299,-50.4629,-189.757,0,-178.92 1/1:123:0,121,1:0:0:121,1:4260,28:-381.537,-36.4246,0,-379.59,-34.5287,-379.289 2/2:37:0,0,37:0:0:0,37:0,1103:-89.5639,-89.5639,-89.5639,-11.1381,-11.1381,0 1/2:139:0,68,69:0:0:68,69:2430,2374:-372.358,-174.516,-154.046,-197.822,0,-177.05 1/2:8:0,4,4:0:0:4,4:144,120:-20.5775,-8.78287,-7.57875,-12.1095,0,-10.9054 1/1:7:0,7,0:0:0:7,0:252,0:-23.0225,-2.10721,0,-23.0225,-2.10721,-23.0225 1/2:31:0,19,12:0:0:19,12:672,356:-80.0388,-25.5261,-19.8065,-54.8128,0,-51.2004 1/1:57:0,55,0:0:0:55,0:1957,0:-175.773,-16.5567,0,-175.773,-16.5567,-175.773 1/1:68:0,68,0:0:0:68,0:2432,0:-218.983,-20.47,0,-218.983,-20.47,-218.983 1/1:130:0,130,0:0:0:130,0:4653,0:-418.667,-39.1339,0,-418.667,-39.1339,-418.667 1/1:103:0,103,0:0:0:103,0:3704,0:-333.357,-31.0061,0,-333.357,-31.0061,-333.357 1/1:117:0,115,0:0:0:115,0:4124,0:-370.897,-34.6185,0,-370.897,-34.6185,-370.897 1/2:12:0,2,10:0:0:2,10:72,300:-27.4412,-21.5523,-20.9502,-6.23371,0,-3.22341 1/2:18:0,3,14:0:0:3,14:108,446:-40.9304,-32.1066,-31.2035,-8.84219,0,-4.62777 1/1:33:0,33,0:0:0:33,0:1180,0:-106.489,-9.93399,0,-106.489,-9.93399,-106.489 1/1:12:0,12,0:0:0:12,0:424,0:-38.4865,-3.61236,0,-38.4865,-3.61236,-38.4865 chr02 25753035 . GAAGC AAAGT,AAAGC 52439.3 PASS AB=0.49518,0.500438;ABP=3.24058,3.0122;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1777,671;CIGAR=1X3M1X,1X4M;DP=2455;DPB=2455;DPRA=1.21546,0.990109;EPP=3853.04,1434.13;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.95,2.30769;MQM=53.8447,56.7809;MQMR=0;NS=21;NUMALT=2;ODDS=15.3036;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62861,24013;QR=0;RO=0;RPL=1,3;RPP=3853.04,1434.13;RPPR=0;RPR=1776,668;RUN=1,1;SAF=1777,671;SAP=3861.72,1460.07;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:190:0,101,87:0:0:101,87:3567,3132:-544.752,-255.204,-224.8,-289.631,0,-263.442 1/2:60:0,26,34:0:0:26,34:934,1220:-175.694,-99.7697,-91.9429,-76.2827,0,-66.0476 1/2:116:0,54,62:0:0:54,62:1921,2228:-338.018,-181.867,-165.611,-156.508,0,-137.844 1/1:214:0,214,0:0:0:214,0:7531,0:-675.454,-64.4204,0,-675.454,-64.4204,-675.454 1/2:281:0,137,143:0:0:137,143:4840,5109:-809.271,-416.116,-374.875,-393.192,0,-350.144 1/2:168:0,87,81:0:0:87,81:3090,2874:-485.656,-234.433,-208.243,-251.577,0,-227.194 1/1:140:0,139,1:0:0:139,1:4884,36:-438.058,-41.8432,0,-435.121,-38.5469,-434.82 2/2:97:0,0,97:0:0:0,97:0,3469:-311.977,-311.977,-311.977,-29.1999,-29.1999,0 1/2:171:0,80,91:0:0:80,91:2847,3268:-497.703,-266.25,-242.167,-231.81,0,-204.416 1/2:15:0,9,6:0:0:9,6:319,216:-43.9461,-17.9797,-15.2705,-26.3239,0,-24.5177 1/1:8:0,8,0:0:0:8,0:270,0:-24.6124,-2.40824,0,-24.6124,-2.40824,-24.6124 1/2:21:0,7,14:0:0:7,14:247,504:-61.3759,-41.4709,-39.3637,-20.2578,0,-16.0434 1/1:249:0,249,0:0:0:249,0:8809,0:-790.118,-74.9565,0,-790.118,-74.9565,-790.118 1/1:125:0,124,0:0:0:124,0:4381,0:-392.956,-37.3277,0,-392.956,-37.3277,-392.956 1/1:149:0,149,0:0:0:149,0:5302,0:-476.015,-44.8535,0,-476.015,-44.8535,-476.015 1/1:52:0,51,0:0:0:51,0:1801,0:-161.864,-15.3525,0,-161.864,-15.3525,-161.864 1/1:80:0,80,0:0:0:80,0:2824,0:-254.024,-24.0824,0,-254.024,-24.0824,-254.024 1/2:65:0,34,31:0:0:34,31:1219,1108:-190.02,-90.6727,-80.4377,-99.7047,0,-90.3728 1/2:54:0,30,22:0:0:30,22:1064,792:-150.866,-64.6281,-55.5972,-86.2936,0,-79.6709 1/1:136:0,134,2:0:0:134,2:4733,57:-424.802,-40.338,0,-420.278,-35.5278,-419.676 1/1:64:0,64,0:0:0:64,0:2278,0:-205.095,-19.2659,0,-205.095,-19.2659,-205.095 chr02 25753051 . A T 11644 PASS AB=0.50266;ABP=3.0796;AC=12;AF=0.285714;AN=42;AO=662;CIGAR=1X;DP=2420;DPB=2420;DPRA=0.985939;EPP=1440.53;EPPR=3820.46;GTI=0;LEN=1;MEANALT=1;MQM=56.7915;MQMR=53.8732;NS=21;NUMALT=1;ODDS=14.6351;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23670;QR=62948;RO=1758;RPL=662;RPP=1440.53;RPPR=3820.46;RPR=0;RUN=1;SAF=662;SAP=1440.53;SAR=0;SRF=1758;SRP=3820.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:188:101,87:101:3628:87:3087:-221.229,0,-269.035 0/1:59:26,33:26:936:33:1184:-89.0093,0,-66.5227 0/1:115:53,62:53:1881:62:2226:-165.782,0,-134.53 0/0:211:211,0:211:7548:0:0:0,-63.5173,-676.487 0/1:274:134,140:134:4808:140:5010:-368.093,0,-349.066 0/1:165:86,79:86:3072:79:2832:-205.37,0,-226.474 0/0:137:136,1:136:4852:1:36:0,-37.6438,-431.966 1/1:92:0,92:0:0:92:3308:-297.288,-27.6948,0 0/1:173:80,93:80:2872:93:3307:-245.073,0,-205.942 0/1:14:9,5:9:324:5:180:-12.333,0,-25.2725 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2485 0/1:21:7,14:7:252:14:504:-39.3637,0,-16.2591 0/0:244:244,0:244:8737:0:0:0,-73.4513,-783.338 0/0:122:122,0:122:4357:0:0:0,-36.7257,-391.328 0/0:149:149,0:149:5348:0:0:0,-44.8535,-480.051 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.343 0/0:80:80,0:80:2853:0:0:0,-24.0824,-256.643 0/1:65:34,31:34:1215:31:1104:-80.0782,0,-90.0112 0/1:54:31,23:31:1112:23:824:-58.1287,0,-83.5589 0/0:133:131,2:131:4693:2:68:0,-33.5806,-414.771 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.082 chr02 25753150 . G A 29207.2 PASS AB=0.53125;ABP=12.2391;AC=30;AF=0.714286;AN=42;AO=1760;CIGAR=1X;DP=2363;DPB=2363;DPRA=1.30805;EPP=3824.8;EPPR=1308.07;GTI=0;LEN=1;MEANALT=1.05;MQM=35.7108;MQMR=59.9268;NS=21;NUMALT=1;ODDS=17.745;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62868;QR=21458;RO=601;RPL=1760;RPP=3824.8;RPPR=1308.07;RPR=0;RUN=1;SAF=0;SAP=3824.8;SAR=1760;SRF=0;SRP=1308.07;SRR=601;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:58,50:58:2068:50:1770:-100.219,0,-153.88 0/1:33:20,13:20:712:13:468:-26.6031,0,-54.4727 0/1:158:51,107:51:1824:107:3780:-237.527,0,-116.833 1/1:141:1,140:1:36:140:5013:-373.343,-38.847,0 0/1:219:113,106:113:4025:106:3788:-219.319,0,-296.513 0/1:118:48,70:48:1705:70:2512:-157.92,0,-118.177 1/1:183:0,183:0:0:183:6557:-509.794,-55.0885,0 0/0:87:87,0:87:3124:0:0:0,-26.1896,-281.341 0/1:242:119,123:119:4252:123:4397:-320.271,0,-310.011 0/1:10:6,4:6:216:4:144:-8.58497,0,-16.7802 1/1:12:0,12:0:0:12:432:-33.7884,-3.61236,0 0/1:29:11,18:11:392:18:648:-39.8564,0,-26.8902 1/1:166:0,166:0:0:166:5945:-445.14,-49.971,0 1/1:161:0,161:0:0:161:5742:-433.476,-48.4658,0 1/1:254:2,250:2:72:250:8931:-662.582,-69.3287,0 1/1:33:0,33:0:0:33:1173:-105.318,-9.93399,0 1/1:78:1,77:1:36:77:2753:-243.299,-19.8821,0 0/1:87:48,39:48:1716:39:1400:-78.1112,0,-128.536 0/1:84:36,48:36:1280:48:1709:-103.384,0,-90.2167 1/1:113:0,113:0:0:113:4018:-301.996,-34.0164,0 1/1:47:0,47:0:0:47:1688:-130.473,-14.1484,0 chr02 25785120 . CAG CAA,AAA 17424.9 PASS AB=0.525381,0.474619;ABP=5.21484,5.21484;AC=30,12;AF=0.714286,0.285714;AN=42;AO=636,237;CIGAR=2M1X,1X1M1X;DP=874;DPB=874;DPRA=0.841837,0.93509;EPP=1384.07,517.649;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.6,1.91667;MQM=45.7972,32.6456;MQMR=0;NS=21;NUMALT=2;ODDS=0.83259;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22733,8419;QR=0;RO=0;RPL=0,0;RPP=1384.07,517.649;RPPR=0;RPR=636,237;RUN=1,1;SAF=636,237;SAP=1384.07,517.649;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:47:0,29,18:0:0:29,18:1029,646:-128.238,-46.339,-37.6091,-82.228,0,-76.8094 1/2:17:0,8,9:0:0:8,9:288,319:-43.6145,-20.7991,-18.3908,-23.1356,0,-20.4263 1/2:40:0,15,25:0:0:15,25:540,885:-105.225,-61.6689,-57.1535,-43.8937,0,-36.3679 1/1:29:0,28,0:0:0:28,0:1000,0:-88.4464,-8.42884,0,-88.4464,-8.42884,-88.4464 1/2:85:0,44,41:0:0:44,41:1561,1452:-229.053,-103.91,-90.6647,-125.474,0,-113.132 1/2:15:0,6,9:0:0:6,9:216,317:-38.1398,-20.9069,-19.1008,-17.5594,0,-14.8501 1/1:56:0,56,0:0:0:56,0:2016,0:-177.811,-16.8577,0,-177.811,-16.8577,-177.811 2/2:49:0,0,49:0:0:0,49:0,1744:-131.206,-131.206,-131.206,-14.7505,-14.7505,0 1/2:82:0,42,40:0:0:42,40:1493,1417:-223.648,-102.789,-90.1453,-121.195,0,-109.154 1/2:4:0,2,2:0:0:2,2:72,70:-10.9497,-5.13803,-4.53597,-6.14012,0,-5.53806 1/1:5:0,5,0:0:0:5,0:180,0:-16.1966,-1.50515,0,-16.1966,-1.50515,-16.1966 1/2:6:0,2,4:0:0:2,4:57,140:-14.1703,-9.97395,-9.37189,-4.47516,0,-3.27104 1/1:42:0,41,1:0:0:41,1:1472,36:-131.269,-12.3422,0,-128.702,-9.45564,-128.401 1/1:62:0,62,0:0:0:62,0:2219,0:-197.432,-18.6639,0,-197.432,-18.6639,-197.432 1/1:102:0,102,0:0:0:102,0:3661,0:-323.056,-30.7051,0,-323.056,-30.7051,-323.056 1/1:30:0,30,0:0:0:30,0:1080,0:-96.666,-9.0309,0,-96.666,-9.0309,-96.666 1/1:48:0,48,0:0:0:48,0:1709,0:-153.209,-14.4494,0,-153.209,-14.4494,-153.209 1/2:75:0,40,35:0:0:40,35:1427,1251:-197.924,-84.5003,-72.4591,-113.747,0,-103.211 1/2:23:0,19,4:0:0:19,4:676,142:-64.9676,-10.4051,-4.68556,-54.883,0,-53.6789 1/1:25:0,25,0:0:0:25,0:900,0:-80.1716,-7.52575,0,-80.1716,-7.52575,-80.1716 1/1:32:0,32,0:0:0:32,0:1137,0:-99.8234,-9.63296,0,-99.8234,-9.63296,-99.8234 chr02 25796873 . T C 17898 PASS AB=0.475687;ABP=12.7245;AC=12;AF=0.285714;AN=42;AO=1046;CIGAR=1X;DP=3725;DPB=3725;DPRA=1.18705;EPP=2274.37;EPPR=5757.53;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.9407;MQMR=59.9301;NS=21;NUMALT=1;ODDS=17.5638;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37153;QR=94663;RO=2674;RPL=0;RPP=2274.37;RPPR=5757.53;RPR=1046;RUN=1;SAF=1046;SAP=2274.37;SAR=0;SRF=2674;SRP=5809.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:264:116,148:116:4111:148:5260:-394.067,0,-290.701 0/1:163:79,84:79:2786:84:2988:-220.079,0,-201.912 0/1:183:94,87:94:3376:87:3109:-225.264,0,-249.281 0/0:239:238,0:238:8333:0:0:0,-71.6451,-749.622 0/1:478:276,202:276:9667:202:7195:-503.714,0,-726.05 0/1:244:126,118:126:4455:118:4187:-303.564,0,-327.672 0/0:215:214,1:214:7594:1:32:0,-61.5221,-680.297 1/1:137:0,137:0:0:137:4875:-438.774,-41.2411,0 0/1:367:208,159:208:7329:159:5613:-394.793,0,-549.1 0/1:13:5,8:5:180:8:284:-21.99,0,-12.6387 0/0:10:10,0:10:344:0:0:0,-3.0103,-31.2921 0/1:26:10,16:10:360:16:563:-43.173,0,-24.9175 0/0:247:247,0:247:8768:0:0:0,-74.3544,-789.112 0/0:156:155,1:155:5468:1:36:0,-43.3624,-488.566 0/0:263:263,0:263:9337:0:0:0,-79.1709,-840.211 0/0:141:140,0:140:5004:0:0:0,-42.1442,-449.76 0/0:148:148,0:148:5244:0:0:0,-44.5524,-472.092 0/1:75:26,49:26:936:49:1744:-134.667,0,-61.9822 0/1:79:50,29:50:1796:29:1019:-68.2399,0,-138.141 0/0:221:213,7:213:7567:7:248:0,-43.9214,-657.631 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.992 chr02 25796908 . T C 53440.7 PASS AB=0.517857;ABP=8.28388;AC=30;AF=0.714286;AN=42;AO=2675;CIGAR=1X;DP=3742;DPB=3742;DPRA=1.3058;EPP=5811.7;EPPR=2317.8;GTI=0;LEN=1;MEANALT=1.05;MQM=59.926;MQMR=59.9493;NS=21;NUMALT=1;ODDS=15.3838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93124;QR=37847;RO=1066;RPL=2675;RPP=5811.7;RPPR=2309.12;RPR=0;RUN=1;SAF=2675;SAP=5811.7;SAR=0;SRF=1065;SRP=2309.12;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:272:154,118:154:5476:118:4119:-289.015,0,-411.087 0/1:168:88,80:88:3126:80:2804:-202.025,0,-230.99 0/1:183:87,96:87:3087:96:3330:-244.829,0,-222.968 1/1:239:1,238:1:36:238:8335:-746.569,-68.3479,0 0/1:475:201,274:201:7145:274:9440:-706.547,0,-500.115 0/1:248:121,127:121:4292:127:4300:-312.525,0,-311.797 1/1:221:2,219:2:57:219:7576:-676.29,-61.1143,0 0/0:138:138,0:138:4897:0:0:0,-41.5421,-440.753 0/1:362:159,203:159:5675:203:7112:-531.089,0,-401.895 0/1:13:8,5:8:284:5:171:-11.8121,0,-21.99 1/1:9:0,9:0:0:9:311:-28.3229,-2.70927,0 0/1:26:16,10:16:567:10:352:-24.1914,0,-43.5339 1/1:244:0,244:0:0:244:8531:-767.797,-73.4513,0 1/1:162:0,162:0:0:162:5682:-511.413,-48.7669,0 1/1:257:0,257:0:0:257:9032:-812.858,-77.3647,0 1/1:143:0,143:0:0:143:4973:-447.296,-43.0473,0 1/1:149:0,149:0:0:149:5225:-470.383,-44.8535,0 0/1:78:52,26:52:1839:26:899:-57.7428,0,-142.309 0/1:79:32,47:32:1118:47:1654:-125.365,0,-77.1446 1/1:219:7,211:7:248:211:7336:-637.637,-43.3195,0 1/1:57:0,57:0:0:57:1942:-175.051,-17.1587,0 chr02 25796955 . G T 35184.4 PASS AB=0.524214;ABP=9.00445;AC=30;AF=0.714286;AN=42;AO=1692;CIGAR=1X;DP=2601;DPB=2601;DPRA=0;EPP=3668.46;EPPR=1976.88;GTI=1;LEN=1;MEANALT=1;MQM=59.9935;MQMR=59.9791;NS=21;NUMALT=1;ODDS=4.53649;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60391;QR=32432;RO=909;RPL=1;RPP=3668.46;RPPR=1976.88;RPR=1691;RUN=1;SAF=0;SAP=3677.14;SAR=1692;SRF=0;SRP=1976.88;SRR=909;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:111,63:111:3962:63:2260:-151.283,0,-304.392 0/1:92:43,49:43:1548:49:1747:-129.819,0,-111.918 0/1:101:51,50:51:1827:50:1788:-130.799,0,-134.306 1/1:50:0,50:0:0:50:1788:-161.203,-15.0515,0 0/1:226:103,123:103:3663:123:4361:-324.634,0,-261.84 0/1:81:40,41:40:1432:41:1472:-108.393,0,-104.794 1/1:209:1,208:1:36:208:7432:-665.326,-59.317,0 0/0:347:345,2:345:12271:2:72:0,-97.6207,-1097.37 0/1:208:75,133:75:2677:133:4720:-362.346,0,-178.559 0/1:13:3,10:3:108:10:356:-28.4679,0,-6.16178 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:22:8,14:8:288:14:500:-38.7135,0,-19.6447 1/1:81:0,81:0:0:81:2908:-261.955,-24.3834,0 1/1:103:1,102:1:36:102:3648:-324.926,-27.4078,0 1/1:267:0,267:0:0:267:9535:-858.105,-80.375,0 1/1:110:0,110:0:0:110:3932:-354.072,-33.1133,0 1/1:116:0,116:0:0:116:4130:-371.884,-34.9195,0 0/1:200:106,94:106:3796:94:3368:-243.13,0,-281.632 0/1:60:20,40:20:716:40:1424:-110.396,0,-46.7059 1/1:85:2,83:2:72:83:2951:-258.985,-18.7508,0 1/1:45:0,45:0:0:45:1607:-144.919,-13.5464,0 chr02 25804393 . CACT AACT,AACA 59916.5 PASS AB=0.619225,0.377794;ABP=168.702,177.091;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2163,605;CIGAR=1X3M,1X2M1X;DP=2774;DPB=2774;DPRA=1.47418,1.08153;EPP=4656.58,1273.68;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.95,2.21429;MQM=59.9524,59.7455;MQMR=0;NS=21;NUMALT=2;ODDS=2.48582;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77547,21309;QR=0;RO=0;RPL=5,5;RPP=4656.58,1273.68;RPPR=0;RPR=2158,600;RUN=1,1;SAF=2163,605;SAP=4699.91,1316.75;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:162:0,78,83:0:0:78,83:2781,2920:-464.067,-237.372,-213.892,-226.689,0,-201.704 1/2:113:0,60,53:0:0:60,53:2147,1885:-329.052,-153.974,-135.912,-175.435,0,-159.48 1/2:195:0,130,65:0:0:130,65:4661,2288:-566.758,-186.596,-147.463,-380.515,0,-360.948 1/1:111:0,111,0:0:0:111,0:3984,0:-358.745,-33.4143,0,-358.745,-33.4143,-358.745 1/2:141:0,90,50:0:0:90,50:3236,1753:-406.7,-142.688,-115.595,-264.055,0,-249.004 1/2:216:0,147,68:0:0:147,68:5284,2377:-624.433,-193.344,-149.093,-431.082,0,-410.612 1/1:209:0,208,0:0:0:208,0:7449,0:-670.084,-62.6142,0,-670.084,-62.6142,-670.084 2/2:91:0,0,91:0:0:0,91:0,3218:-289.843,-289.843,-289.843,-27.3937,-27.3937,0 1/2:238:0,155,83:0:0:155,83:5552,2922:-690.779,-237.991,-191.331,-453.142,0,-428.157 1/2:51:0,35,16:0:0:35,16:1248,563:-147.918,-46.1825,-35.6464,-102.089,0,-97.2723 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:33:0,24,9:0:0:24,9:860,305:-95.2189,-25.0677,-17.843,-70.4953,0,-67.786 1/1:165:0,165,0:0:0:165,0:5924,0:-533.266,-49.67,0,-533.266,-49.67,-533.266 1/1:204:0,200,4:0:0:200,4:7180,132:-645.919,-60.206,0,-635.248,-49.2047,-634.044 1/1:237:0,237,0:0:0:237,0:8513,0:-766.165,-71.3441,0,-766.165,-71.3441,-766.165 1/1:109:0,108,1:0:0:108,1:3847,30:-346.165,-32.5112,0,-344.138,-30.2244,-343.837 1/1:103:0,102,0:0:0:102,0:3664,0:-329.7,-30.7051,0,-329.7,-30.7051,-329.7 1/2:99:0,49,50:0:0:49,50:1748,1772:-287.201,-144.706,-129.956,-142.85,0,-127.799 1/2:94:0,63,30:0:0:63,30:2260,1072:-271.849,-87.5062,-68.5413,-184.446,0,-175.415 1/1:151:0,149,2:0:0:149,2:5341,72:-480.398,-44.8535,0,-474.523,-38.6188,-473.921 1/1:46:0,46,0:0:0:46,0:1652,0:-148.968,-13.8474,0,-148.968,-13.8474,-148.968 chr02 25804423 . T G 108065 PASS AB=0.604874;ABP=242.128;AC=30;AF=0.714286;AN=42;AO=4027;CIGAR=1X;DP=5180;DPB=5180;DPRA=1.67667;EPP=8747.53;EPPR=2504.55;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9389;MQMR=59.9453;NS=21;NUMALT=1;ODDS=40.3911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=142949;QR=40930;RO=1152;RPL=2107;RPP=21.8666;RPPR=4.28453;RPR=1920;RUN=1;SAF=2107;SAP=21.8666;SAR=1920;SRF=563;SRP=4.28453;SRR=589;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:282:127,155:127:4532:155:5527:-412.663,0,-323.156 0/1:229:110,119:110:3928:119:4242:-313.025,0,-284.778 0/1:293:114,179:114:4036:179:6351:-483.481,0,-275.189 1/1:324:0,323:0:0:323:11504:-1034.86,-97.2327,0 0/1:466:190,276:190:6733:276:9773:-739.212,0,-465.764 0/1:321:121,200:121:4300:200:7117:-543.956,0,-290.547 1/1:376:0,376:0:0:376:13298:-1196.56,-113.187,0 0/0:150:150,0:150:5273:0:0:0,-45.1545,-474.71 0/1:401:141,260:141:5048:260:9191:-706.446,0,-333.263 0/1:57:17,40:17:594:40:1426:-111.478,0,-36.6269 1/1:19:0,19:0:0:19:664:-60.0824,-5.71957,0 0/1:66:22,44:22:788:44:1547:-119.648,0,-51.3768 1/1:341:1,340:1:36:340:12108:-1085.97,-99.053,0 1/1:322:3,319:3:108:319:11310:-1007.71,-86.8565,0 1/1:292:0,292:0:0:292:10349:-931.184,-87.9008,0 1/1:225:0,225:0:0:225:8055:-724.963,-67.7318,0 1/1:210:3,207:3:108:207:7339:-650.486,-53.1411,0 0/1:182:91,91:91:3237:91:3218:-235.057,0,-236.763 0/1:206:56,150:56:1993:150:5335:-418.271,0,-117.63 1/1:312:6,306:6:216:306:10820:-953.889,-74.1308,0 1/1:106:0,106:0:0:106:3775:-339.95,-31.9092,0 chr02 25804444 . CAG TAA,CAA 53455.1 PASS AB=0.58258,0.413311;ABP=75.0971,82.4484;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1941,576;CIGAR=1X1M1X,2M1X;DP=2531;DPB=2531;DPRA=1.89692,1.10801;EPP=4174.52,1236.47;EPPR=0;GTI=1;LEN=3,1;MEANALT=2.2,2.5;MQM=59.8784,59.9688;MQMR=0;NS=21;NUMALT=2;ODDS=11.4422;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68284,20492;QR=0;RO=0;RPL=1936,574;RPP=4174.52,1236.47;RPPR=0;RPR=5,2;RUN=1,1;SAF=0,0;SAP=4217.84,1253.78;SAR=1941,576;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:125:0,78,47:0:0:78,47:2759,1660:-360.255,-135.537,-112.057,-225.071,0,-210.922 1/2:122:0,61,61:0:0:61,61:2155,2153:-351.173,-175.673,-157.31,-175.853,0,-157.49 1/2:103:0,50,53:0:0:50,53:1771,1885:-298.223,-153.958,-138.907,-144.62,0,-128.666 1/1:221:0,216,0:0:0:216,0:7563,0:-680.357,-65.0225,0,-680.357,-65.0225,-680.357 1/2:333:0,192,140:0:0:192,140:6729,5000:-955.296,-407.792,-349.994,-547.647,0,-505.503 1/2:114:0,59,55:0:0:59,55:2098,1965:-330.907,-160.567,-142.806,-170.696,0,-154.139 1/1:174:0,174,0:0:0:174,0:6099,0:-549.012,-52.3792,0,-549.012,-52.3792,-549.012 2/2:65:0,0,65:0:0:0,65:0,2294:-206.721,-206.721,-206.721,-19.567,-19.567,0 1/2:177:0,114,62:0:0:114,62:3987,2208:-504.355,-180.011,-145.693,-324.387,0,-305.724 1/2:9:0,7,2:0:0:7,2:243,72:-25.9778,-6.23466,-4.12745,-20.1002,0,-19.4981 1/1:12:0,12,0:0:0:12,0:419,0:-38.0429,-3.61236,0,-38.0429,-3.61236,-38.0429 1/2:35:0,20,14:0:0:20,14:720,487:-98.4181,-39.6603,-33.6397,-58.8244,0,-54.61 1/1:179:0,177,1:0:0:177,1:6243,36:-561.686,-53.2823,0,-558.749,-50.27,-558.447 1/1:132:0,132,0:0:0:132,0:4614,0:-415.427,-39.736,0,-415.427,-39.736,-415.427 1/1:62:0,62,0:0:0:62,0:2182,0:-196.323,-18.6639,0,-196.323,-18.6639,-196.323 1/1:125:0,124,0:0:0:124,0:4373,0:-393.48,-37.3277,0,-393.48,-37.3277,-393.48 1/1:115:0,111,3:0:0:111,3:3864,108:-347.634,-33.4143,0,-338.822,-24.4897,-337.919 1/2:87:0,45,41:0:0:45,41:1591,1476:-250.089,-120.512,-106.966,-129.651,0,-117.308 1/2:112:0,83,28:0:0:83,28:2930,1004:-320.476,-81.8872,-56.9018,-238.586,0,-230.157 1/1:168:0,163,4:0:0:163,4:5770,144:-519.075,-49.0679,0,-507.325,-37.2537,-506.121 1/1:61:0,61,0:0:0:61,0:2174,0:-195.927,-18.3628,0,-195.927,-18.3628,-195.927 chr02 25804480 . G A 2613.77 PASS AB=0.460674;ABP=6.59689;AC=13;AF=0.309524;AN=42;AO=157;CIGAR=1X;DP=534;DPB=534;DPRA=1.1744;EPP=343.931;EPPR=821.655;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9363;NS=21;NUMALT=1;ODDS=8.15447;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5568;QR=13482;RO=377;RPL=0;RPP=343.931;RPPR=821.655;RPR=157;RUN=1;SAF=157;SAP=343.931;SAR=0;SRF=377;SRP=821.655;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:34:19,15:19:684:15:528:-37.6163,0,-51.6553 0/1:18:8,10:8:288:10:356:-26.9627,0,-20.8489 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/1:55:30,25:30:1072:25:880:-62.9611,0,-80.2358 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 1/1:23:0,23:0:0:23:820:-74.1225,-6.92369,0 0/1:50:24,26:24:860:26:928:-68.7868,0,-62.6141 0/1:8:4,4:4:144:4:140:-10.5363,0,-10.9054 0/0:8:8,0:8:269:0:0:0,-2.40824,-24.5361 0/1:12:4,8:4:144:8:284:-22.291,0,-9.70126 0/0:15:15,0:15:532:0:0:0,-4.51545,-48.2131 0/0:24:24,0:24:841:0:0:0,-7.22472,-76.0064 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.169 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:41:23,18:23:824:18:628:-44.5032,0,-62.1411 0/1:40:28,12:28:1000:12:432:-27.18,0,-78.2742 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 chr02 25804531 . T G 18215.8 PASS AB=0.534381;ABP=8.23634;AC=30;AF=0.714286;AN=42;AO=690;CIGAR=1X;DP=962;DPB=962;DPRA=1.32429;EPP=8.0456;EPPR=10.1953;GTI=0;LEN=1;MEANALT=1;MQM=59.971;MQMR=60;NS=21;NUMALT=1;ODDS=10.1495;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24435;QR=9715;RO=272;RPL=689;RPP=1492.65;RPPR=593.651;RPR=1;RUN=1;SAF=364;SAP=7.55466;SAR=326;SRF=151;SRP=10.1953;SRR=121;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:17,30:17:608:30:1072:-82.644,0,-40.9036 0/1:34:19,15:19:680:15:540:-38.7015,0,-51.2941 0/1:23:15,8:15:540:8:288:-19.3437,0,-42.0128 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 0/1:79:34,45:34:1208:45:1577:-118.435,0,-85.2447 0/1:22:14,8:14:500:8:288:-19.6447,0,-38.7135 1/1:62:0,62:0:0:62:2187:-197.096,-18.6639,0 0/0:35:35,0:35:1248:0:0:0,-10.536,-112.625 0/1:69:34,35:34:1216:35:1219:-89.2341,0,-88.9755 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 1/1:8:0,8:0:0:8:279:-25.4475,-2.40824,0 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 1/1:36:0,36:0:0:36:1273:-114.872,-10.8371,0 1/1:44:0,44:0:0:44:1553:-140.061,-13.2453,0 1/1:57:0,57:0:0:57:2030:-182.972,-17.1587,0 1/1:32:0,32:0:0:32:1140:-102.909,-9.63296,0 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 0/1:127:63,64:63:2251:64:2240:-163.632,0,-164.622 0/1:75:23,52:23:816:52:1819:-141.412,0,-51.1845 1/1:36:0,36:0:0:36:1284:-115.863,-10.8371,0 1/1:86:0,86:0:0:86:3066:-276.168,-25.8886,0 chr02 25806301 . CAAAACCACCG CAAACCACCC,CAAAACCACCC 37939.2 PASS AB=0.558528,0.428094;ABP=29.6998,43.2951;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1296,496;CIGAR=1M1D8M1X,10M1X;DP=1809;DPB=1690.36;DPRA=0.811429,1.24614;EPP=2808.56,1080.06;EPPR=0;GTI=0;LEN=10,1;MEANALT=2.5,2.78571;MQM=59.9159,60;MQMR=0;NS=21;NUMALT=2;ODDS=13.3246;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45759,17692;QR=0;RO=0;RPL=1295,496;RPP=2808.56,1080.06;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=2817.24,1080.06;SAR=1296,496;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:169:0,95,72:0:0:95,72:3366,2565:-483.266,-209.065,-180.467,-274.197,0,-252.523 1/2:31:0,10,20:0:0:10,20:345,705:-85.4159,-57.3927,-54.3824,-28.0121,0,-21.9915 1/2:61:0,37,24:0:0:37,24:1316,860:-177.688,-70.4971,-59.359,-107.548,0,-100.323 1/1:47:0,45,0:0:0:45,0:1595,0:-143.462,-13.5464,0,-143.462,-13.5464,-143.462 1/2:247:0,133,110:0:0:133,110:4695,3915:-701.448,-319.127,-279.09,-382.376,0,-349.262 1/2:89:0,45,43:0:0:45,43:1580,1525:-252.824,-124.237,-110.691,-128.58,0,-115.636 1/1:131:0,129,0:0:0:129,0:4576,0:-411.502,-38.8329,0,-411.502,-38.8329,-411.502 2/2:105:0,0,105:0:0:0,105:0,3742:-336.978,-336.978,-336.978,-31.6082,-31.6082,0 1/2:141:0,82,58:0:0:82,58:2906,2088:-407.104,-170.37,-145.686,-236.732,0,-219.272 1/2:14:0,8,6:0:0:8,6:288,216:-41.4837,-17.9843,-15.5761,-23.8592,0,-22.053 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/2:21:0,12,9:0:0:12,9:428,324:-61.6846,-26.7966,-23.1842,-35.2464,0,-32.5372 1/1:112:0,111,0:0:0:111,0:3898,0:-350.656,-33.4143,0,-350.656,-33.4143,-350.656 1/1:51:0,51,0:0:0:51,0:1804,0:-162.639,-15.3525,0,-162.639,-15.3525,-162.639 1/1:117:0,117,0:0:0:117,0:4097,0:-368.915,-35.2205,0,-368.915,-35.2205,-368.915 1/1:92:0,91,1:0:0:91,1:3197,36:-287.593,-27.3937,0,-284.655,-24.0965,-284.354 1/1:119:0,117,2:0:0:117,2:4121,72:-370.717,-35.2205,0,-364.842,-28.9858,-364.24 1/2:61:0,37,23:0:0:37,23:1296,820:-172.411,-66.9636,-55.8255,-105.565,0,-98.641 1/2:63:0,42,19:0:0:42,19:1504,680:-178.157,-55.4997,-42.8564,-122.704,0,-116.984 1/1:78:0,74,4:0:0:74,4:2644,144:-237.847,-22.2762,0,-226.097,-10.1667,-224.893 1/1:52:0,52,0:0:0:52,0:1819,0:-163.986,-15.6536,0,-163.986,-15.6536,-163.986 chr02 25807209 . C G 31875.9 PASS AB=0.486778;ABP=4.56074;AC=29;AF=0.690476;AN=42;AO=1533;CIGAR=1X;DP=2227;DPB=2227;DPRA=0.624848;EPP=3331.88;EPPR=1507.84;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9641;MQMR=59.9683;NS=21;NUMALT=1;ODDS=1.36947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54553;QR=24797;RO=693;RPL=0;RPP=3331.88;RPPR=1507.84;RPR=1533;RUN=1;SAF=1533;SAP=3331.88;SAR=0;SRF=693;SRP=1507.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:109,38:109:3896:38:1319:-74.752,0,-306.583 0/1:95:45,50:45:1608:50:1747:-128.91,0,-116.395 0/1:89:45,43:45:1597:43:1529:-111.051,0,-117.168 1/1:221:0,221:0:0:221:7887:-709.853,-66.5276,0 0/1:204:82,122:82:2944:122:4346:-329.903,0,-203.783 0/1:123:79,44:79:2829:44:1584:-105.825,0,-217.803 1/1:160:1,159:1:36:159:5617:-502.053,-44.5665,0 0/0:165:165,0:165:5919:0:0:0,-49.6699,-532.817 0/1:176:74,102:74:2648:102:3649:-275.614,0,-185.585 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:6:1,5:1:21:5:180:-14.7459,0,-0.293766 0/1:27:11,16:11:396:16:576:-44.0472,0,-27.8549 1/1:194:0,194:0:0:194:6893:-620.435,-58.3998,0 1/1:89:2,87:2:72:87:3097:-272.12,-19.9549,0 1/1:125:0,125:0:0:125:4458:-401.37,-37.6288,0 1/1:40:0,40:0:0:40:1420:-128.095,-12.0412,0 1/1:62:0,62:0:0:62:2187:-197.09,-18.6639,0 0/1:68:44,24:44:1575:24:864:-57.6125,0,-121.571 0/1:77:27,50:27:968:50:1783:-137.573,0,-64.2581 1/1:113:2,111:2:72:111:3977:-351.281,-27.1797,0 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 chr02 25817897 . G A 34600.2 PASS AB=0.619258;ABP=142.852;AC=30;AF=0.714286;AN=42;AO=1806;CIGAR=1X;DP=2294;DPB=2294;DPRA=2.07407;EPP=3924.69;EPPR=1060.52;GTI=1;LEN=1;MEANALT=1.05;MQM=39.6656;MQMR=50.9938;NS=21;NUMALT=1;ODDS=3.47385;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63654;QR=17429;RO=487;RPL=0;RPP=3924.69;RPPR=1060.52;RPR=1806;RUN=1;SAF=1806;SAP=3924.69;SAR=0;SRF=487;SRP=1060.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:54,104:54:1920:104:3675:-270.741,0,-124.586 0/1:128:41,87:41:1453:87:3021:-220.23,0,-91.4832 0/1:85:14,71:14:504:71:2525:-190.367,0,-19.5306 1/1:122:0,122:0:0:122:4297:-371.777,-36.7257,0 0/1:310:151,158:151:5412:158:5589:-387.073,0,-391.1 0/1:125:44,81:44:1576:81:2783:-202.336,0,-103.221 1/1:174:1,173:1:36:173:6113:-516.996,-48.8005,0 0/0:54:54,0:54:1936:0:0:0,-16.2556,-172.162 0/1:186:72,114:72:2588:114:4012:-287.732,0,-176.265 0/1:10:3,7:3:108:7:237:-17.8551,0,-7.06008 1/1:9:0,9:0:0:9:324:-28.444,-2.70927,0 0/1:36:14,22:14:504:22:784:-56.6847,0,-34.3761 1/1:166:0,166:0:0:166:5841:-502.861,-49.971,0 1/1:114:0,114:0:0:114:4025:-346.315,-34.3174,0 1/1:160:0,160:0:0:160:5706:-491.349,-48.1648,0 1/1:100:1,99:1:32:99:3499:-298.061,-27.1568,0 1/1:98:0,98:0:0:98:3448:-295.964,-29.5009,0 0/1:45:18,27:18:640:27:938:-68.1139,0,-43.9786 0/1:49:19,30:19:684:30:1076:-77.931,0,-46.8579 1/1:104:1,103:1:36:103:3645:-307.515,-27.7106,0 1/1:61:0,61:0:0:61:2116:-181.918,-18.3628,0 chr02 25825628 . T C 14136.6 PASS AB=0.501544;ABP=3.04383;AC=12;AF=0.285714;AN=42;AO=880;CIGAR=1X;DP=3087;DPB=3087;DPRA=1.97462;EPP=1913.91;EPPR=4754.25;GTI=0;LEN=1;MEANALT=1.06667;MQM=42.3557;MQMR=45.6874;NS=21;NUMALT=1;ODDS=32.0858;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31095;QR=78676;RO=2204;RPL=878;RPP=1896.57;RPPR=4754.25;RPR=2;RUN=1;SAF=878;SAP=1896.57;SAR=2;SRF=2204;SRP=4788.94;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:37,27:37:1308:27:940:-63.8201,0,-97.0171 0/1:49:26,23:26:924:23:813:-57.3387,0,-67.8945 0/1:70:31,39:31:1116:39:1404:-102.898,0,-78.6385 0/0:107:105,0:105:3764:0:0:0,-31.6081,-332.855 0/1:164:75,89:75:2677:89:3158:-227.09,0,-187.521 0/1:70:46,24:46:1644:24:843:-53.6827,0,-125.542 0/0:80:80,0:80:2854:0:0:0,-24.0824,-252.819 1/1:61:0,61:0:0:61:2145:-187.513,-18.3628,0 0/1:111:45,66:45:1611:66:2355:-172.36,0,-109.72 0/1:409:213,196:213:7628:196:6971:-484.212,0,-553.929 0/0:693:690,3:690:24575:3:99:0,-199.531,-2164.98 0/1:219:96,123:96:3440:123:4301:-309.105,0,-239.96 0/0:157:157,0:157:5598:0:0:0,-47.2617,-496.403 0/0:81:81,0:81:2898:0:0:0,-24.3834,-257.489 0/0:60:59,1:59:2107:1:36:0,-14.5408,-183.37 0/0:60:60,0:60:2144:0:0:0,-18.0618,-189.548 0/0:65:64,1:64:2296:1:32:0,-16.4001,-200.511 0/1:418:207,210:207:7381:210:7418:-522.991,0,-526.96 0/1:45:30,15:30:1068:15:512:-31.7241,0,-80.811 0/0:69:67,2:67:2391:2:68:0,-14.4176,-205.442 0/0:35:35,0:35:1252:0:0:0,-10.536,-110.209 chr02 25852943 . T C 9307.9 PASS AB=0.42233;ABP=24.5985;AC=30;AF=0.714286;AN=42;AO=469;CIGAR=1X;DP=778;DPB=778;DPRA=0.513768;EPP=1021.43;EPPR=671.824;GTI=1;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.22363;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16721;QR=11035;RO=308;RPL=0;RPP=1021.43;RPPR=671.824;RPR=469;RUN=1;SAF=0;SAP=1021.43;SAR=469;SRF=0;SRP=671.824;SRR=308;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:12,13:12:432:13:468:-34.9339,0,-31.6954 0/1:11:2,9:2:72:9:320:-25.831,0,-3.52539 0/1:64:46,18:46:1652:18:635:-38.211,0,-129.703 1/1:35:0,35:0:0:35:1232:-111.181,-10.5361,0 0/1:64:45,19:45:1611:19:667:-41.0887,0,-126.013 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 0/0:69:69,0:69:2456:0:0:0,-20.7711,-221.292 0/1:30:15,15:15:540:15:540:-39.9056,0,-39.9056 0/1:21:14,7:14:504:7:248:-16.3426,0,-39.3765 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:40:22,18:22:792:18:648:-46.6107,0,-59.5645 1/1:67:0,66:0:0:66:2359:-212.208,-19.868,0 1/1:32:0,32:0:0:32:1137:-102.638,-9.63296,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 0/1:100:58,42:58:2076:42:1508:-105.912,0,-157.008 0/1:46:19,27:19:684:27:968:-73.59,0,-48.0429 1/1:45:0,45:0:0:45:1603:-144.559,-13.5464,0 1/1:32:1,31:1:36:31:1096:-95.3517,-6.03469,0 chr02 25852949 . A T 5351.16 PASS AB=0.568922;ABP=19.4732;AC=12;AF=0.285714;AN=42;AO=294;CIGAR=1X;DP=769;DPB=769;DPRA=1.39814;EPP=641.423;EPPR=1034.46;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.979667;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10505;QR=16974;RO=475;RPL=0;RPP=641.423;RPPR=1034.46;RPR=294;RUN=1;SAF=0;SAP=641.423;SAR=294;SRF=0;SRP=1034.46;SRR=475;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:24:13,11:13:468:11:396:-28.758,0,-35.2349 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/1:63:18,45:18:648:45:1620:-127.125,0,-39.687 0/0:36:36,0:36:1283:0:0:0,-10.8371,-115.773 0/1:56:18,38:18:639:38:1360:-105.843,0,-40.9806 0/1:11:6,5:6:212:5:180:-13.2407,0,-16.1135 0/0:37:37,0:37:1310:0:0:0,-11.1381,-118.2 1/1:67:0,67:0:0:67:2376:-214.096,-20.169,0 0/1:29:14,15:14:491:15:521:-38.4865,0,-35.7912 0/1:21:7,14:7:252:14:504:-39.3765,0,-16.7073 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:41:18,23:18:644:23:828:-62.5019,0,-45.9484 0/0:70:70,0:70:2504:0:0:0,-21.0721,-225.613 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:20:20,0:20:708:0:0:0,-6.0206,-64.0456 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:97:42,55:42:1499:55:1968:-148.195,0,-106.004 0/1:46:27,19:27:968:19:680:-47.6818,0,-73.59 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 chr02 25933998 . C T 152827 PASS AB=0.506525;ABP=4.85219;AC=30;AF=0.714286;AN=42;AO=5839;CIGAR=1X;DP=8734;DPB=8734;DPRA=0;EPP=12673.6;EPPR=6282.91;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.995;MQMR=60;NS=21;NUMALT=1;ODDS=27.0419;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=207827;QR=102660;RO=2892;RPL=2385;RPP=427.993;RPPR=512.823;RPR=3454;RUN=1;SAF=2384;SAP=429.585;SAR=3455;SRF=1034;SRP=512.823;SRR=1858;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:339:169,170:169:6037:170:6061:-443.543,0,-441.384 0/1:281:146,135:146:5194:135:4803:-347.821,0,-383.012 0/1:304:144,160:144:5073:160:5711:-422.594,0,-365.204 1/1:274:1,273:1:36:273:9718:-870.973,-78.8839,0 0/1:646:335,311:335:11907:311:11029:-798.047,0,-877.026 0/1:348:170,177:170:6045:177:6345:-466.321,0,-439.337 1/1:248:1,247:1:36:247:8769:-785.606,-71.0572,0 0/0:426:424,1:424:15047:1:36:0,-124.699,-1350.37 0/1:444:207,237:207:7329:237:8402:-622.534,0,-526.006 0/1:861:416,445:416:14773:445:15837:-1165.85,0,-1070.13 1/1:845:3,842:3:108:842:30003:-2689.31,-244.295,0 0/1:882:438,444:438:15550:444:15826:-1158.53,0,-1133.71 1/1:288:0,288:0:0:288:10262:-923.509,-86.6966,0 1/1:269:0,268:0:0:268:9527:-857.031,-80.676,0 1/1:504:1,503:1:36:503:17911:-1608,-148.121,0 1/1:280:0,280:0:0:280:9977:-897.867,-84.2884,0 1/1:317:1,316:1:36:316:11254:-1009.15,-91.8282,0 0/1:762:391,371:391:13862:371:13207:-959.052,0,-1017.99 0/1:114:41,73:41:1447:73:2537:-194.26,0,-96.2077 1/1:210:3,207:3:108:207:7365:-652.824,-53.1411,0 1/1:92:1,91:1:36:91:3247:-288.853,-24.0965,0 chr02 25952981 . GAA TTC,TAC 28773.4 PASS AB=0.499246,0.494721;ABP=3.01358,3.17079;AC=30,12;AF=0.714286,0.285714;AN=42;AO=987,387;CIGAR=3X,1X1M1X;DP=1379;DPB=1379;DPRA=1.20364,1.02208;EPP=2146.25,843.37;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.9,2.21429;MQM=58.3739,59.8501;MQMR=0;NS=21;NUMALT=2;ODDS=9.40014;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34774,13524;QR=0;RO=0;RPL=0,0;RPP=2146.25,843.37;RPPR=0;RPR=987,387;RUN=1,1;SAF=0,0;SAP=2146.25,843.37;SAR=987,387;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,41,46:0:0:41,46:1450,1636:-251.674,-133.677,-121.335,-118.351,0,-104.504 1/2:15:0,11,4:0:0:11,4:380,144:-42.9445,-12.1095,-8.79817,-31.1909,0,-29.9868 1/2:65:0,41,23:0:0:41,23:1443,807:-183.073,-65.6646,-53.3224,-117.4,0,-110.477 1/1:78:0,77,0:0:0:77,0:2690,0:-241.58,-23.1793,0,-241.58,-23.1793,-241.58 1/2:157:0,66,90:0:0:66,90:2340,3159:-447.484,-257.082,-237.214,-190.394,0,-163.301 1/2:48:0,15,33:0:0:15,33:526,1150:-136.667,-93.8621,-89.3466,-43.1545,0,-33.2206 1/1:114:0,114,0:0:0:114,0:4018,0:-361.393,-34.3174,0,-361.393,-34.3174,-361.393 2/2:55:0,0,55:0:0:0,55:0,1858:-167.489,-167.489,-167.489,-16.5567,-16.5567,0 1/2:110:0,64,46:0:0:64,46:2262,1640:-318.154,-134.041,-114.775,-184.468,0,-170.62 1/2:6:0,2,4:0:0:2,4:72,136:-17.2523,-11.3708,-10.7688,-6.23466,0,-5.03054 1/1:9:0,9,0:0:0:9,0:318,0:-28.9607,-2.70927,0,-28.9607,-2.70927,-28.9607 1/2:27:0,13,13:0:0:13,13:450,444:-72.5997,-36.0323,-32.1189,-36.5709,0,-32.6575 1/1:63:0,63,0:0:0:63,0:2218,0:-199.285,-18.9649,0,-199.285,-18.9649,-199.285 1/1:110:0,110,0:0:0:110,0:3885,0:-349.698,-33.1133,0,-349.698,-33.1133,-349.698 1/1:97:0,95,2:0:0:95,2:3359,65:-302.048,-28.5979,0,-296.802,-23.0265,-296.2 1/1:36:0,36,0:0:0:36,0:1254,0:-113.118,-10.8371,0,-113.118,-10.8371,-113.118 1/1:43:0,43,0:0:0:43,0:1523,0:-137.242,-12.9443,0,-137.242,-12.9443,-137.242 1/2:91:0,42,48:0:0:42,48:1478,1662:-255.369,-135.193,-122.549,-120.31,0,-105.861 1/2:57:0,36,21:0:0:36,21:1258,753:-163.999,-61.7749,-50.9379,-102.579,0,-96.2575 1/1:65:0,64,1:0:0:64,1:2259,34:-203.136,-19.2659,0,-200.378,-16.168,-200.077 1/1:46:0,45,1:0:0:45,1:1591,36:-143.118,-13.5464,0,-140.181,-10.2491,-139.88 chr02 25978216 . CT GA,CA 35271.5 PASS AB=0.557769,0.440903;ABP=24.8375,25.8526;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1214,396;CIGAR=2X,1M1X;DP=1612;DPB=1612;DPRA=1.20938,1.13044;EPP=2527.47,845.629;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.55,2;MQM=59.4539,60;MQMR=0;NS=21;NUMALT=2;ODDS=8.46842;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43098,14179;QR=0;RO=0;RPL=13,2;RPP=2527.47,845.629;RPPR=0;RPR=1201,394;RUN=1,1;SAF=1214,396;SAP=2639.18,862.913;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,15,28:0:0:15,28:540,1008:-126.583,-82.6075,-78.0921,-44.3344,0,-35.9056 1/2:52:0,27,25:0:0:27,25:970,900:-152.906,-73.7953,-65.6675,-79.4702,0,-71.9445 1/2:69:0,38,31:0:0:38,31:1349,1101:-199.941,-90.0664,-78.6273,-110.23,0,-100.898 1/1:112:0,111,0:0:0:111,0:3974,0:-357.534,-33.4143,0,-357.534,-33.4143,-357.534 1/2:135:0,88,47:0:0:88,47:3106,1672:-389.523,-136.619,-110.128,-253.259,0,-239.11 1/2:134:0,76,57:0:0:76,57:2689,2044:-385.454,-166.713,-143.835,-218.738,0,-201.579 1/1:125:0,125,0:0:0:125,0:4427,0:-398.572,-37.6288,0,-398.572,-37.6288,-398.572 2/2:64:0,0,64:0:0:0,64:0,2290:-206.361,-206.361,-206.361,-19.2659,-19.2659,0 1/2:206:0,118,88:0:0:118,88:4203,3160:-600.693,-258.134,-222.612,-342.917,0,-316.426 1/2:7:0,4,3:0:0:4,3:142,108:-20.7395,-9.17208,-7.96796,-11.9251,0,-11.022 1/1:6:0,6,0:0:0:6,0:205,0:-18.7836,-1.80618,0,-18.7836,-1.80618,-18.7836 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:81:0,81,0:0:0:81,0:2887,0:-259.736,-24.3834,0,-259.736,-24.3834,-259.736 1/1:74:0,74,0:0:0:74,0:2556,0:-230.062,-22.2762,0,-230.062,-22.2762,-230.062 1/1:138:0,138,0:0:0:138,0:4907,0:-441.652,-41.5421,0,-441.652,-41.5421,-441.652 1/1:77:0,77,0:0:0:77,0:2744,0:-247.185,-23.1793,0,-247.185,-23.1793,-247.185 1/1:76:0,76,0:0:0:76,0:2698,0:-243.001,-22.8783,0,-243.001,-22.8783,-243.001 1/2:76:0,33,43:0:0:33,43:1173,1540:-221.53,-125.949,-116.015,-95.9375,0,-82.9932 1/2:31:0,21,10:0:0:21,10:738,356:-89.4355,-29.3709,-23.0493,-60.4189,0,-57.4086 1/1:65:0,65,0:0:0:65,0:2327,0:-209.674,-19.567,0,-209.674,-19.567,-209.674 1/1:34:0,34,0:0:0:34,0:1211,0:-109.29,-10.235,0,-109.29,-10.235,-109.29 chr02 25978239 . A G 24409.5 PASS AB=0.556757;ABP=23.7156;AC=30;AF=0.714286;AN=42;AO=1170;CIGAR=1X;DP=1565;DPB=1565;DPRA=1.15385;EPP=2543.63;EPPR=858.57;GTI=1;LEN=1;MEANALT=1.05;MQM=59.5009;MQMR=60;NS=21;NUMALT=1;ODDS=4.75792;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41550;QR=14055;RO=394;RPL=1170;RPP=2543.63;RPPR=858.57;RPR=0;RUN=1;SAF=1170;SAP=2543.63;SAR=0;SRF=394;SRP=858.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:29,15:29:1044:15:529:-34.6877,0,-81.0295 0/1:50:24,26:24:826:26:914:-67.5064,0,-59.6001 0/1:65:29,36:29:1040:36:1284:-96.2648,0,-74.3474 1/1:110:0,110:0:0:110:3910:-352.031,-33.1133,0 0/1:131:47,84:47:1692:84:2994:-230.255,0,-113.132 0/1:131:57,74:57:2040:74:2648:-198.858,0,-144.437 1/1:119:0,119:0:0:119:4234:-381.212,-35.8226,0 0/0:65:65,0:65:2294:0:0:0,-19.5669,-206.719 0/1:201:88,113:88:3156:113:4024:-301.824,0,-223.758 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:8:1,7:1:36:7:248:-20.256,0,-1.19003 1/1:78:0,78:0:0:78:2787:-250.857,-23.4803,0 1/1:69:0,69:0:0:69:2419:-217.815,-20.7711,0 1/1:133:0,133:0:0:133:4729:-425.423,-40.037,0 1/1:77:1,76:1:27:76:2695:-239.981,-20.4795,0 1/1:73:0,72:0:0:72:2538:-228.154,-21.6742,0 0/1:75:42,33:42:1504:33:1176:-83.5601,0,-113.077 0/1:29:9,20:9:324:20:696:-54.2298,0,-20.776 1/1:62:0,62:0:0:62:2193:-197.582,-18.6639,0 1/1:33:0,33:0:0:33:1176:-106.144,-9.93399,0 chr02 25978323 . A T 25593.6 PASS AB=0.512658;ABP=4.10978;AC=30;AF=0.714286;AN=42;AO=1275;CIGAR=1X;DP=1722;DPB=1722;DPRA=1.40932;EPP=2771.64;EPPR=971.487;GTI=0;LEN=1;MEANALT=1.05;MQM=48.3804;MQMR=57.4036;NS=21;NUMALT=1;ODDS=2.78721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44539;QR=15895;RO=446;RPL=0;RPP=2771.64;RPPR=971.487;RPR=1275;RUN=1;SAF=0;SAP=2771.64;SAR=1275;SRF=0;SRP=971.487;SRR=446;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:26:11,15:11:396:15:536:-40.072,0,-28.0619 0/1:78:39,39:39:1387:39:1362:-98.1482,0,-101.417 0/1:86:44,42:44:1572:42:1455:-104.235,0,-115.848 1/1:86:1,85:1:36:85:2951:-260.505,-22.3055,0 0/1:157:84,73:84:2999:73:2524:-176.994,0,-222.787 0/1:64:31,33:31:1103:33:1153:-83.7208,0,-80.2169 1/1:139:0,138:0:0:138:4817:-427.393,-41.5421,0 0/0:59:59,0:59:2099:0:0:0,-17.7608,-188.931 0/1:144:69,75:69:2440:75:2629:-191.799,0,-176.063 0/1:4:2,2:2:72:2:65:-4.91548,0,-5.62935 1/1:6:0,6:0:0:6:208:-18.8124,-1.80618,0 0/1:14:10,4:10:351:4:131:-7.53807,0,-27.6981 1/1:106:0,106:0:0:106:3701:-331.032,-31.9092,0 1/1:91:1,90:1:36:90:3135:-276.572,-23.7955,0 1/1:170:0,170:0:0:170:5970:-533.808,-51.1751,0 1/1:65:0,65:0:0:65:2298:-206.14,-19.567,0 1/1:95:0,95:0:0:95:3323:-298.034,-28.5979,0 0/1:148:73,75:73:2612:75:2624:-187.194,0,-190.541 0/1:69:22,47:22:792:47:1655:-127.563,0,-50.8246 1/1:74:0,74:0:0:74:2596:-232.026,-22.2762,0 1/1:41:0,41:0:0:41:1406:-125.554,-12.3422,0 chr02 26000885 . GAAAGA GAAAAAAA,GAAAA,GAAAAAA 19858.9 PASS AB=0.402913,0.533424,0.0943396;ABP=87.3393,10.1231,1442.37;AC=22,13,7;AF=0.52381,0.309524,0.166667;AN=42;AO=476,498,101;CIGAR=1M2I3M1X1M,4M1D1M,1M1I3M1X1M;DP=1214;DPB=1327.5;DPRA=0.51729,4.29524,0.562825;EPP=1036.63,1084.4,222.329;EPPR=0;GTI=8;LEN=8,1,7;MEANALT=4.65,4.92857,4.83333;MQM=45.9286,59.4598,52.396;MQMR=0;NS=21;NUMALT=3;ODDS=0.147013;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=16698,17681,3592;QR=0;RO=0;RPL=476,498,101;RPP=1036.63,1084.4,222.329;RPPR=0;RPR=0,0,0;RUN=1,1,1;SAF=476,498,101;SAP=1036.63,1084.4,222.329;SAR=0,0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:48:0,12,31,3:0:0:12,31,3:418,1097,106:-123.171,-89.3723,-85.76,-33.8129,0,-24.4809,-114.631,-80.8318,-25.2704,-113.727 1/2:15:0,4,5,1:0:0:4,5,1:143,180,31:-26.1963,-14.7034,-13.4993,-11.5011,0,-9.99596,-23.7137,-12.2214,-9.01889,-23.4127 1/2:120:0,24,78,5:0:0:24,78,5:844,2750,175:-291.456,-223.72,-216.496,-67.7395,0,-44.2592,-277.237,-209.501,-53.5197,-275.732 1/3:61:0,38,0,13:0:0:38,0,13:1331,0,468:-144.182,-37.7078,-26.2686,-144.182,-37.7078,-144.182,-106.483,0,-106.483,-102.57 1/2:95:0,25,59,2:0:0:25,59,2:871,2090,63:-239.299,-170.227,-162.702,-69.083,0,-51.3222,-234.507,-165.436,-64.2926,-233.905 1/2:51:0,13,27,6:0:0:13,27,6:453,964,214:-113.08,-77.3223,-73.4089,-35.7566,0,-27.6288,-95.6932,-59.9355,-18.3665,-93.887 1/1:62:0,49,2,5:0:0:49,2,5:1709,72,172:-149.912,-14.7505,0,-144.036,-8.86727,-143.434,-136.426,-1.25298,-130.551,-134.921 2/2:107:0,0,105,0:0:0:0,105,0:0,3729,0:-335.217,-335.217,-335.217,-31.6082,-31.6082,0,-335.217,-335.217,-31.6082,-335.217 1/2:136:0,22,97,9:0:0:22,97,9:776,3457,322:-344.386,-281.628,-275.006,-62.7617,0,-33.5618,-318.168,-255.41,-36.5409,-315.458 1/2:18:0,4,12,0:0:0:4,12,0:140,432,0:-46.5714,-35.279,-34.0749,-11.309,0,-7.69662,-46.5714,-35.279,-11.309,-46.5714 1/2:5:0,4,1,0:0:0:4,1,0:144,36,0:-14.8638,-3.29724,-2.09312,-11.9254,0,-11.6244,-14.8638,-3.29724,-11.9254,-14.8638 1/2:27:0,6,18,2:0:0:6,18,2:213,629,72:-68.1929,-51.154,-49.3478,-17.0324,0,-11.6138,-62.3297,-45.2906,-11.168,-61.7277 1/3:88:0,63,0,7:0:0:63,0,7:2207,0,252:-196.696,-20.5463,-1.58142,-196.696,-20.5463,-196.696,-176.159,0,-176.159,-174.051 1/3:60:0,35,0,14:0:0:35,0,14:1240,0,500:-140.346,-40.7291,-30.1931,-140.346,-40.7291,-140.346,-99.6231,0,-99.6231,-95.4087 1/3:48:0,35,0,7:0:0:35,0,7:1186,0,251:-114.822,-20.3071,-9.77107,-114.822,-20.3071,-114.822,-94.523,0,-94.523,-92.4158 1/1:15:0,12,0,1:0:0:12,0,1:412,0,36:-36.6416,-3.61236,0,-36.6416,-3.61236,-36.6416,-33.7063,-0.675963,-33.7063,-33.4053 1/3:15:0,11,0,2:0:0:11,0,2:395,0,72:-37.8004,-5.87075,-2.55942,-37.8004,-5.87075,-37.8004,-31.9341,0,-31.9341,-31.3321 1/2:92:0,26,51,7:0:0:26,51,7:930,1813,248:-222.334,-147.738,-139.911,-74.5981,0,-59.2456,-202.238,-127.643,-54.5024,-200.131 1/2:39:0,19,11,3:0:0:19,11,3:676,396,108:-86.3227,-32.3143,-26.5948,-54.0175,0,-50.7062,-77.5196,-23.5102,-45.2135,-76.6165 1/3:87:0,61,1,10:0:0:61,1,10:2166,36,358:-202.698,-29.1444,-10.7816,-199.76,-26.2058,-199.459,-173.569,0,-170.632,-170.559 1/3:25:0,13,0,4:0:0:13,0,4:444,0,144:-46.2286,-11.7278,-7.81445,-46.2286,-11.7278,-46.2286,-34.5146,0,-34.5146,-33.3105 chr02 26000895 . C A 3.10931e-07 PASS AB=0.134615;ABP=123.611;AC=2;AF=0.047619;AN=42;AO=45;CIGAR=1X;DP=1162;DPB=1162;DPRA=1.63603;EPP=100.727;EPPR=2426.37;GTI=1;LEN=1;MEANALT=1.07143;MQM=32.3556;MQMR=52.9391;NS=21;NUMALT=1;ODDS=16.4523;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1578;QR=39187;RO=1116;RPL=45;RPP=100.727;RPPR=2426.37;RPR=0;RUN=1;SAF=45;SAP=100.727;SAR=0;SRF=1116;SRP=2426.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:46,2:46:1619:2:72:0,-8.58017,-139.834 0/0:13:12,1:12:413:1:36:0,-0.858852,-33.9524 0/0:122:119,3:119:4252:3:108:0,-28.1085,-372.801 0/0:55:51,4:51:1779:4:140:0,-5.73055,-148.157 0/0:93:92,1:92:3232:1:36:0,-24.4473,-284.446 0/0:50:49,1:49:1726:1:32:0,-12.1053,-151.4 0/0:56:53,3:53:1821:3:93:0,-9.21595,-150.802 0/0:108:108,0:108:3860:0:0:0,-32.5112,-347.358 0/0:135:133,2:133:4703:2:72:0,-34.7041,-416.909 0/0:17:17,0:17:599:0:0:0,-5.11751,-53.6769 0/0:4:4,0:4:131:0:0:0,-1.20412,-12.0423 0/0:25:25,0:25:888:0:0:0,-7.52575,-80.0847 0/0:80:73,7:73:2568:7:248:0,-4.39985,-206.88 0/0:54:52,2:52:1808:2:72:0,-10.5922,-155.673 0/0:43:40,3:40:1370:3:93:0,-5.51803,-114.585 0/0:14:14,0:14:481:0:0:0,-4.21442,-42.4724 0/0:14:14,0:14:474:0:0:0,-4.21442,-42.8088 0/0:90:90,0:90:3155:0:0:0,-27.0927,-282.737 0/0:37:35,2:35:1233:2:72:0,-5.40458,-104.611 0/1:82:73,9:73:2507:9:324:-0.35848,0,-198.352 0/1:22:16,5:16:568:5:180:-7.61381,0,-42.8326 chr02 26001038 . T A 35207.6 PASS AB=0.524461;ABP=18.2017;AC=12;AF=0.285714;AN=42;AO=1657;CIGAR=1X;DP=4790;DPB=4790;DPRA=1.42172;EPP=1478.25;EPPR=1304.3;GTI=0;LEN=1;MEANALT=1.07692;MQM=46.1871;MQMR=59.9167;NS=21;NUMALT=1;ODDS=3.96576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59402;QR=111783;RO=3132;RPL=9;RPP=3523.39;RPPR=6614.31;RPR=1648;RUN=1;SAF=1368;SAP=1528.73;SAR=289;SRF=2273;SRP=1389.23;SRR=859;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:198:83,115:83:2945:115:4124:-305.261,0,-205.634 0/1:90:44,46:44:1572:46:1656:-119.683,0,-114.679 0/1:137:70,67:70:2496:67:2412:-171.817,0,-183.652 0/0:224:221,3:221:7871:3:108:0,-57.6232,-698.566 0/1:289:154,135:154:5496:135:4852:-340.621,0,-406.851 0/1:51:20,31:20:720:31:1107:-82.7296,0,-49.7762 0/0:119:119,0:119:4280:0:0:0,-35.8226,-385.376 1/1:119:0,119:0:0:119:4268:-379.825,-35.8226,0 0/1:222:117,105:117:4130:105:3753:-261.093,0,-304.953 0/1:329:97,232:97:3476:232:8303:-639.312,0,-214.012 0/0:409:409,0:409:14617:0:0:0,-123.121,-1315.27 0/1:774:385,388:385:13787:388:13911:-1003.31,0,-1007.58 0/0:158:158,0:158:5615:0:0:0,-47.5627,-505.463 0/0:138:138,0:138:4920:0:0:0,-41.5421,-442.953 0/0:236:236,0:236:8452:0:0:0,-71.0431,-760.529 0/0:172:172,0:172:6114:0:0:0,-51.7772,-550.308 0/0:176:176,0:176:6255:0:0:0,-52.9813,-563.047 0/1:686:328,358:328:11728:358:12840:-929.726,0,-848.852 0/1:147:91,56:91:3248:56:2000:-131.185,0,-248.291 0/0:77:75,2:75:2674:2:68:0,-16.7548,-234.478 0/0:39:39,0:39:1387:0:0:0,-11.7402,-125.114 chr02 26001050 . TACTA AACTG 42221.9 PASS AB=0.517879;ABP=12.1726;AC=12;AF=0.285714;AN=42;AO=1929;CIGAR=1X3M1X;DP=5618;DPB=5624.6;DPRA=1.45481;EPP=4191.78;EPPR=7954.94;GTI=0;LEN=5;MEANALT=2.92308;MQM=45.5645;MQMR=59.9143;NS=21;NUMALT=1;ODDS=30.1274;PAIRED=0;PAIREDR=0;PAO=3;PQA=72;PQR=0;PRO=0;QA=67719;QR=127688;RO=3662;RPL=1353;RPP=682.627;RPPR=529.194;RPR=576;RUN=1;SAF=1353;SAP=682.627;SAR=576;SRF=2302;SRP=529.194;SRR=1360;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:84,115:84:2916:115:4049:-298.663,0,-202.464 0/1:193:94,97:94:3248:97:3441:-244.19,0,-234.686 0/1:140:72,68:72:2531:68:2426:-172.606,0,-185.899 0/0:237:233,3:233:8067:3:106:0,-61.747,-716.386 0/1:296:153,140:153:5338:140:4900:-344.375,0,-392.065 0/1:185:86,99:86:3018:99:3421:-244.633,0,-216.159 0/0:265:265,0:265:9220:0:0:0,-79.7729,-829.783 1/1:214:0,213:0:0:213:7453:-659.89,-64.1194,0 0/1:226:118,107:118:4141:107:3800:-264.073,0,-304.768 0/1:337:101,234:101:3486:234:8101:-620.245,0,-212.787 0/0:417:417,0:417:14626:0:0:0,-125.53,-1316.12 0/1:805:400,397:400:14011:397:14041:-1009.63,0,-1020.57 0/0:163:163,0:163:5672:0:0:0,-49.0679,-510.598 0/0:139:139,0:139:4809:0:0:0,-41.8432,-432.976 0/0:246:246,0:246:8595:0:0:0,-74.0534,-773.536 0/0:179:179,0:179:6175:0:0:0,-53.8844,-555.833 0/0:179:179,0:179:6206:0:0:0,-53.8844,-558.655 0/1:768:366,395:366:12861:395:13834:-997.37,0,-927.898 0/1:150:92,57:92:3216:57:2007:-131.589,0,-244.579 0/0:197:193,4:193:6675:4:140:0,-46.5293,-588.052 0/0:82:82,0:82:2877:0:0:0,-24.6845,-259.164 chr02 26001077 . A G 28231.4 PASS AB=0.494277;ABP=3.28371;AC=30;AF=0.714286;AN=42;AO=1358;CIGAR=1X;DP=1945;DPB=1945;DPRA=0.963021;EPP=2934.52;EPPR=1134.28;GTI=0;LEN=1;MEANALT=1;MQM=59.7378;MQMR=42.2129;NS=21;NUMALT=1;ODDS=5.20996;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48400;QR=21030;RO=587;RPL=1356;RPP=2934.52;RPPR=1134.28;RPR=2;RUN=1;SAF=0;SAP=2951.87;SAR=1358;SRF=0;SRP=1277.66;SRR=587;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:55,43:55:1968:43:1531:-108.535,0,-143.012 0/1:102:52,50:52:1872:50:1782:-129.945,0,-131.974 0/1:64:36,28:36:1296:28:1004:-71.4091,0,-94.8472 1/1:139:3,136:3:104:136:4813:-423.781,-32.3188,0 0/1:228:105,123:105:3746:123:4385:-326.004,0,-260.384 0/1:136:71,65:71:2552:65:2317:-167.841,0,-181.969 1/1:144:0,144:0:0:144:5150:-463.623,-43.3483,0 0/0:96:96,0:96:3456:0:0:0,-28.8989,-302.485 0/1:148:79,69:79:2816:69:2467:-177.731,0,-199.055 0/1:7:3,4:3:108:4:144:-11.2048,0,-7.75161 1/1:4:0,4:0:0:4:144:-13.3102,-1.20412,0 0/1:23:13,10:13:468:10:360:-25.8191,0,-34.6242 1/1:104:0,104:0:0:104:3719:-334.889,-31.3071,0 1/1:56:0,56:0:0:56:1998:-180.092,-16.8577,0 1/1:119:0,119:0:0:119:4212:-379.213,-35.8226,0 1/1:100:0,100:0:0:100:3560:-320.449,-30.103,0 1/1:60:0,60:0:0:60:2144:-193.228,-18.0618,0 0/1:80:43,37:43:1532:37:1320:-95.0162,0,-111.192 0/1:75:29,46:29:1044:46:1647:-125.941,0,-67.5476 1/1:119:2,117:2:68:117:4159:-368.091,-29.4865,0 1/1:43:0,43:0:0:43:1544:-139.246,-12.9443,0 chr02 26001085 . 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C T 43595.9 PASS AB=0.549734;ABP=31.3054;AC=29;AF=0.690476;AN=42;AO=2056;CIGAR=1X;DP=2780;DPB=2780;DPRA=1.062;EPP=4450.2;EPPR=1575.16;GTI=1;LEN=1;MEANALT=1;MQM=59.9679;MQMR=60;NS=21;NUMALT=1;ODDS=12.3759;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73746;QR=25847;RO=724;RPL=2054;RPP=4450.2;RPPR=1575.16;RPR=2;RUN=1;SAF=0;SAP=4467.56;SAR=2056;SRF=0;SRP=1575.16;SRR=724;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:75,92:75:2696:92:3303:-247.216,0,-192.612 0/1:136:73,63:73:2615:63:2241:-161.013,0,-194.657 0/1:152:60,92:60:2152:92:3308:-252.181,0,-148.191 1/1:159:0,159:0:0:159:5708:-513.836,-47.8638,0 0/1:368:176,192:176:6268:192:6859:-506.583,0,-453.437 0/1:64:20,44:20:708:44:1580:-123.226,0,-44.7797 1/1:213:1,212:1:36:212:7616:-681.558,-60.5211,0 0/0:125:125,0:125:4459:0:0:0,-37.6287,-401.481 0/1:201:86,115:86:3049:115:4136:-311.915,0,-214.133 0/1:21:7,14:7:248:14:496:-38.6526,0,-16.3426 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:28:14,14:14:500:14:504:-37.2693,0,-36.9073 1/1:87:2,85:2:72:85:3048:-267.712,-19.3529,0 1/1:147:0,147:0:0:147:5264:-473.896,-44.2514,0 1/1:309:0,309:0:0:309:11099:-998.779,-93.0183,0 1/1:150:0,150:0:0:150:5388:-485.049,-45.1545,0 1/1:130:0,130:0:0:130:4664:-419.902,-39.1339,0 0/1:106:59,47:59:2116:47:1688:-120.298,0,-158.8 0/1:69:22,47:22:784:47:1688:-131.436,0,-50.1128 1/1:104:1,103:1:36:103:3684:-328.163,-27.7088,0 1/1:39:2,37:2:72:37:1328:-112.986,-4.90345,0 chr02 26088995 . TG CA,CG 30841 PASS AB=0.542936,0.455679;ABP=14.5714,15.3293;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1103,420;CIGAR=2X,1X1M;DP=1527;DPB=1527;DPRA=0.837791,1.12793;EPP=2398.14,915.029;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.8,2;MQM=40.6138,59.9762;MQMR=0;NS=21;NUMALT=2;ODDS=12.7048;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38792,15032;QR=0;RO=0;RPL=0,0;RPP=2398.14,915.029;RPPR=0;RPR=1103,420;RUN=1,1;SAF=1103,420;SAP=2398.14,915.029;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,54,52:0:0:54,52:1888,1856:-300.194,-151.666,-135.411,-148.876,0,-133.222 1/2:121:0,63,58:0:0:63,58:2237,2084:-338.819,-170.368,-151.403,-168.797,0,-151.337 1/2:39:0,23,16:0:0:23,16:805,576:-111.148,-47.3585,-40.4348,-64.142,0,-59.3255 1/1:123:0,123,0:0:0:123,0:4303,0:-376.337,-37.0267,0,-376.337,-37.0267,-376.337 1/2:150:0,76,74:0:0:76,74:2663,2644:-425.174,-215.931,-193.052,-209.591,0,-187.315 1/2:52:0,23,29:0:0:23,29:802,1044:-146.856,-85.5449,-78.6212,-61.654,0,-52.9241 1/1:58:0,58,0:0:0:58,0:2060,0:-173.779,-17.4597,0,-173.779,-17.4597,-173.779 2/2:86:0,0,86:0:0:0,86:0,3072:-276.709,-276.709,-276.709,-25.8886,-25.8886,0 1/2:25:0,13,12:0:0:13,12:447,432:-70.4096,-35.6065,-31.6931,-35.1491,0,-31.5368 1/2:11:0,6,5:0:0:6,5:203,180:-30.263,-15.0469,-13.2407,-15.5559,0,-14.0507 1/1:8:0,8,0:0:0:8,0:264,0:-23.0668,-2.40824,0,-23.0668,-2.40824,-23.0668 1/2:40:0,26,14:0:0:26,14:915,500:-111.575,-41.1218,-33.295,-70.8022,0,-66.5877 1/1:119:0,118,0:0:0:118,0:4144,0:-361.796,-35.5215,0,-361.796,-35.5215,-361.796 1/1:51:0,51,0:0:0:51,0:1800,0:-155.393,-15.3525,0,-155.393,-15.3525,-155.393 1/1:83:0,81,0:0:0:81,0:2878,0:-247.92,-24.3834,0,-247.92,-24.3834,-247.92 1/1:96:0,94,2:0:0:94,2:3287,68:-289.993,-28.2968,0,-284.477,-22.4416,-283.875 1/1:27:0,27,0:0:0:27,0:939,0:-83.5247,-8.12781,0,-83.5247,-8.12781,-83.5247 1/2:89:0,43,45:0:0:43,45:1516,1604:-247.974,-130.758,-117.814,-117.216,0,-103.67 1/2:89:0,65,24:0:0:65,24:2308,864:-250.963,-70.8578,-51.2909,-180.46,0,-173.235 1/1:86:0,84,2:0:0:84,2:2970,72:-255.563,-25.2865,0,-249.688,-19.0519,-249.086 1/1:68:0,67,1:0:0:67,1:2363,36:-199.453,-20.169,0,-196.515,-16.8718,-196.214 chr02 26089026 . G T 19594.3 PASS AB=0.30751;ABP=410.13;AC=30;AF=0.714286;AN=42;AO=1095;CIGAR=1X;DP=2143;DPB=2143;DPRA=0.603354;EPP=2380.77;EPPR=2278.71;GTI=4;LEN=1;MEANALT=1;MQM=40.5836;MQMR=44.9084;NS=21;NUMALT=1;ODDS=6.05377;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39123;QR=37057;RO=1048;RPL=1089;RPP=2328.94;RPPR=84.2416;RPR=6;RUN=1;SAF=1089;SAP=2328.94;SAR=6;SRF=425;SRP=84.2416;SRR=623;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:175:122,53:122:4338:53:1881:-111.62,0,-319.066 0/1:140:77,63:77:2715:63:2260:-147.176,0,-192.167 0/1:89:66,23:66:2314:23:811:-44.7881,0,-167.677 1/1:122:1,121:1:36:121:4334:-375.643,-33.4266,0 0/1:302:228,74:228:8058:74:2628:-137.549,0,-586.969 0/1:95:73,22:73:2584:22:792:-38.8154,0,-180.74 1/1:59:1,58:1:36:58:2066:-168.941,-14.1625,0 0/0:164:164,0:164:5826:0:0:0,-49.3689,-497.646 0/1:130:117,13:117:4095:13:464:-1.29263,0,-307.658 0/1:26:20,6:20:703:6:212:-10.3784,0,-48.7311 1/1:8:0,8:0:0:8:284:-24.5671,-2.40824,0 0/1:52:27,25:27:949:25:889:-60.7467,0,-66.2477 1/1:121:0,121:0:0:121:4327:-376.516,-36.4246,0 1/1:49:0,49:0:0:49:1742:-150.845,-14.7505,0 1/1:82:1,81:1:36:81:2895:-246.746,-21.0862,0 1/1:94:1,93:1:36:93:3348:-291.249,-24.6985,0 1/1:27:0,27:0:0:27:957:-84.9514,-8.12781,0 0/1:140:94,46:94:3350:46:1652:-98.2392,0,-239.649 0/1:116:52,64:52:1837:64:2283:-162.521,0,-122.764 1/1:85:3,82:3:108:82:2948:-243.903,-15.8957,0 1/1:67:1,66:1:36:66:2350:-194.967,-16.5707,0 chr02 26089042 . A C 18687.7 PASS AB=0.301587;ABP=433.858;AC=30;AF=0.714286;AN=42;AO=1079;CIGAR=1X;DP=2131;DPB=2131;DPRA=0.603681;EPP=2346.03;EPPR=2287.4;GTI=4;LEN=1;MEANALT=1;MQM=40.5097;MQMR=44.7605;NS=21;NUMALT=1;ODDS=7.54438;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37798;QR=37508;RO=1052;RPL=1072;RPP=2285.62;RPPR=88.9114;RPR=7;RUN=1;SAF=1072;SAP=2285.62;SAR=7;SRF=424;SRP=88.9114;SRR=628;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:173:120,53:120:4292:53:1864:-111.238,0,-312.982 0/1:138:78,60:78:2772:60:2113:-136.591,0,-197.717 0/1:84:65,19:65:2323:19:661:-33.0641,0,-169.134 1/1:121:1,120:1:36:120:4229:-367.203,-33.1256,0 0/1:304:231,73:231:8245:73:2527:-128.092,0,-598.446 0/1:93:71,22:71:2516:22:788:-39.1598,0,-175.358 1/1:59:1,58:1:36:58:2033:-166.332,-14.1625,0 0/0:163:163,0:163:5800:0:0:0,-49.0679,-492.112 0/1:127:114,13:114:4062:13:447:-1.05834,0,-304.069 0/1:30:24,6:24:860:6:204:-8.59067,0,-57.7212 1/1:8:0,8:0:0:8:269:-23.3844,-2.40824,0 0/1:53:27,26:27:972:26:907:-61.7877,0,-67.1495 1/1:119:0,119:0:0:119:4169:-362.916,-35.8226,0 1/1:50:0,50:0:0:50:1747:-150.887,-15.0515,0 1/1:80:1,79:1:36:79:2816:-239.507,-20.4841,0 1/1:91:2,89:2:72:89:3114:-267.985,-20.558,0 1/1:26:0,26:0:0:26:900:-80.0218,-7.82678,0 0/1:143:97,46:97:3454:46:1588:-92.9554,0,-247.851 0/1:115:53,62:53:1892:62:2163:-153.651,0,-126.539 1/1:87:3,84:3:104:84:2965:-245.723,-16.6843,0 1/1:67:1,66:1:36:66:2294:-191.084,-16.5707,0 chr02 26130498 . AA TG,TA 22381.9 PASS AB=0.472175,0.527825;ABP=6.99805,6.99805;AC=30,12;AF=0.714286,0.285714;AN=42;AO=706,367;CIGAR=2X,1X1M;DP=1073;DPB=1073;DPRA=0.962264,1.3241;EPP=1536.07,799.941;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.55,1.91667;MQM=59.9632,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.08852;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24758,13102;QR=0;RO=0;RPL=706,367;RPP=1536.07,799.941;RPPR=0;RPR=0,0;RUN=1,1;SAF=706,367;SAP=1536.07,799.941;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:63:0,31,32:0:0:31,32:1068,1140:-180.017,-93.2762,-83.9443,-87.0912,0,-77.4582 1/2:22:0,9,13:0:0:9,13:306,464:-62.9507,-38.1841,-35.4748,-25.113,0,-21.1996 1/2:67:0,26,41:0:0:26,41:905,1472:-194.017,-120.434,-112.607,-73.9353,0,-61.5931 1/1:24:0,24,0:0:0:24,0:818,0:-73.9297,-7.22472,0,-73.9297,-7.22472,-73.9297 1/2:125:0,57,68:0:0:57,68:1995,2431:-360.884,-198.575,-181.416,-162.662,0,-142.192 1/2:52:0,21,31:0:0:21,31:735,1107:-150.405,-90.6082,-84.2866,-60.1492,0,-50.8172 1/1:63:0,63,0:0:0:63,0:2183,0:-196.732,-18.9649,0,-196.732,-18.9649,-196.732 2/2:53:0,0,53:0:0:0,53:0,1889:-170.286,-170.286,-170.286,-15.9546,-15.9546,0 1/2:71:0,36,35:0:0:36,35:1268,1260:-206.397,-103.169,-92.3324,-103.583,0,-93.0471 1/2:17:0,4,13:0:0:4,13:133,464:-48.9395,-38.1841,-36.98,-11.0935,0,-7.18008 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/2:14:0,3,11:0:0:3,11:108,383:-40.3067,-31.4919,-30.5888,-9.17208,0,-5.86075 1/1:37:0,37,0:0:0:37,0:1311,0:-118.291,-11.1381,0,-118.291,-11.1381,-118.291 1/1:43:0,43,0:0:0:43,0:1500,0:-135.29,-12.9443,0,-135.29,-12.9443,-135.29 1/1:69:0,69,0:0:0:69,0:2460,0:-221.654,-20.7711,0,-221.654,-20.7711,-221.654 1/1:45:0,45,0:0:0:45,0:1568,0:-141.407,-13.5464,0,-141.407,-13.5464,-141.407 1/1:63:0,63,0:0:0:63,0:2220,0:-200.063,-18.9649,0,-200.063,-18.9649,-200.063 1/2:125:0,69,56:0:0:69,56:2417,1992:-359.356,-162.697,-141.925,-197.013,0,-180.155 1/2:37:0,24,13:0:0:24,13:850,464:-107.424,-38.1841,-30.9594,-69.5953,0,-65.6819 1/1:39:0,38,1:0:0:38,1:1352,36:-121.618,-11.4391,0,-118.681,-8.1419,-118.38 1/1:39:0,39,0:0:0:39,0:1385,0:-124.948,-11.7402,0,-124.948,-11.7402,-124.948 chr02 26130506 . G C 6449.79 PASS AB=0.537133;ABP=9.94476;AC=12;AF=0.285714;AN=42;AO=367;CIGAR=1X;DP=1047;DPB=1047;DPRA=1.3219;EPP=799.941;EPPR=1477.44;GTI=1;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9617;NS=21;NUMALT=1;ODDS=0.966372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13058;QR=24069;RO=679;RPL=367;RPP=799.941;RPPR=1477.44;RPR=0;RUN=1;SAF=367;SAP=799.941;SAR=0;SRF=679;SRP=1477.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:31,32:31:1085:32:1144:-84.3046,0,-78.9921 0/1:22:9,13:9:320:13:447:-33.935,0,-22.3269 0/1:66:24,42:24:844:42:1504:-115.787,0,-56.4109 0/0:23:23,0:23:820:0:0:0,-6.92369,-74.1225 0/1:122:54,68:54:1915:68:2428:-182.05,0,-135.901 0/1:50:21,29:21:752:29:1027:-77.6907,0,-52.9548 0/0:61:61,0:61:2176:0:0:0,-18.3628,-196.107 1/1:55:0,55:0:0:55:1955:-176.225,-16.5567,0 0/1:67:35,32:35:1247:32:1148:-83.4608,0,-92.3651 0/1:16:3,13:3:108:13:464:-37.281,0,-5.25869 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:14:3,11:3:108:11:370:-29.4093,0,-5.86075 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/0:43:43,0:43:1511:0:0:0,-12.9443,-136.282 0/0:67:67,0:67:2389:0:0:0,-20.169,-215.266 0/0:44:44,0:44:1556:0:0:0,-13.2453,-140.332 0/0:62:62,0:62:2198:0:0:0,-18.6639,-198.085 0/1:121:64,56:64:2234:56:1995:-143.34,0,-164.838 0/1:38:23,15:23:815:15:540:-37.4974,0,-62.2316 0/0:34:33,1:33:1176:1:36:0,-6.63674,-102.549 0/0:38:38,0:38:1343:0:0:0,-11.4391,-121.169 chr02 26182698 . A T 32779.5 PASS AB=0.477786;ABP=14.7802;AC=12;AF=0.285714;AN=42;AO=1452;CIGAR=1X;DP=4805;DPB=4805;DPRA=1.8143;EPP=3155.99;EPPR=7283.96;GTI=0;LEN=1;MEANALT=1;MQM=59.9848;MQMR=59.9809;NS=21;NUMALT=1;ODDS=51.1597;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51672;QR=119211;RO=3353;RPL=476;RPP=376.886;RPPR=150.363;RPR=976;RUN=1;SAF=476;SAP=376.886;SAR=976;SRF=1438;SRP=150.363;SRR=1915;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:92,85:92:3245:85:3002:-217.127,0,-238.988 0/1:114:72,42:72:2571:42:1494:-100.436,0,-197.286 0/1:160:96,64:96:3432:64:2291:-158.286,0,-260.929 0/0:186:186,0:186:6620:0:0:0,-55.9916,-595.877 0/1:333:183,150:183:6504:150:5356:-381.927,0,-485.202 0/1:122:62,60:62:2202:60:2113:-153.709,0,-161.719 0/0:288:288,0:288:10277:0:0:0,-86.6966,-924.856 1/1:139:1,138:1:21:138:4893:-438.423,-39.7432,0 0/1:302:161,141:161:5736:141:5058:-364.453,0,-425.446 0/1:274:135,139:135:4761:139:4948:-362.989,0,-346.166 0/0:360:359,1:359:12786:1:36:0,-104.773,-1146.97 0/1:600:320,280:320:11325:280:9982:-717.7,0,-838.521 0/0:173:173,0:173:6172:0:0:0,-52.0782,-555.578 0/0:155:155,0:155:5542:0:0:0,-46.6596,-498.904 0/0:343:342,1:342:12197:1:36:0,-99.655,-1093.35 0/0:125:125,0:125:4453:0:0:0,-37.6287,-400.941 0/0:73:73,0:73:2615:0:0:0,-21.9752,-235.597 0/1:555:237,318:237:8414:318:11309:-850.627,0,-590.196 0/1:109:76,33:76:2684:33:1154:-71.3525,0,-208.992 0/0:127:127,0:127:4492:0:0:0,-38.2308,-404.449 0/0:90:90,0:90:3162:0:0:0,-27.0927,-284.805 chr02 26182752 . C G,A 61668.4 PASS AB=0.522348,0.476575;ABP=11.0659,11.8611;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1939,979;CIGAR=1X,1X;DP=2921;DPB=2921;DPRA=1.52043,2.76645;EPP=4213.5,2128.88;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.65,2.08333;MQM=59.9603,59.9877;MQMR=60;NS=21;NUMALT=2;ODDS=2.91391;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69274,35095;QR=36;RO=1;RPL=1939,979;RPP=4213.5,2128.88;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4213.5,2128.88;SAR=1939,979;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:82:0,44,38:0:0:44,38:1568,1364:-239.43,-111.622,-98.3763,-128.166,0,-116.727 1/2:60:0,40,20:0:0:40,20:1436,716:-175.885,-58.7471,-46.7059,-117.496,0,-111.475 1/2:81:0,47,34:0:0:47,34:1688,1220:-237.569,-99.8718,-85.7234,-138.056,0,-127.821 1/1:69:0,69,0:0:0:69,0:2466,0:-222.192,-20.7711,0,-222.192,-20.7711,-222.192 1/2:136:0,83,53:0:0:83,53:2964,1896:-396.61,-154.959,-129.973,-242.008,0,-226.054 1/2:52:0,31,21:0:0:31,21:1108,756:-152.386,-62.0456,-52.7137,-90.6991,0,-84.3774 1/1:142:1,141,0:1:36:141,0:5028,0:-449.07,-39.148,0,-449.371,-42.4452,-452.309 2/2:93:0,0,93:0:0:0,93:0,3340:-300.816,-300.816,-300.816,-27.9958,-27.9958,0 1/2:145:0,74,70:0:0:74,70:2652,2508:-420.981,-204.688,-182.412,-216.438,0,-195.366 1/2:266:0,135,131:0:0:135,131:4801,4677:-772.908,-381.656,-341.017,-391.609,0,-352.174 1/1:348:0,347,1:0:0:347,1:12416,36:-1116.88,-104.457,0,-1113.94,-101.16,-1113.64 1/2:578:0,308,269:0:0:308,269:11001,9630:-1682.22,-785.31,-692.592,-896.91,0,-815.933 1/1:76:0,76,0:0:0:76,0:2725,0:-245.492,-22.8783,0,-245.492,-22.8783,-245.492 1/1:48:0,48,0:0:0:48,0:1712,0:-154.366,-14.4494,0,-154.366,-14.4494,-154.366 1/1:126:0,126,0:0:0:126,0:4473,0:-402.092,-37.9298,0,-402.092,-37.9298,-402.092 1/1:49:0,49,0:0:0:49,0:1756,0:-158.324,-14.7505,0,-158.324,-14.7505,-158.324 1/1:18:0,18,0:0:0:18,0:640,0:-57.9293,-5.41854,0,-57.9293,-5.41854,-57.9293 1/2:411:0,180,231:0:0:180,231:6452,8304:-1204.05,-677.826,-623.64,-526.58,0,-457.042 1/2:46:0,28,18:0:0:28,18:996,648:-134.401,-53.2333,-44.8045,-81.526,0,-76.1075 1/1:59:0,59,0:0:0:59,0:2112,0:-190.344,-17.7608,0,-190.344,-17.7608,-190.344 1/1:36:0,36,0:0:0:36,0:1280,0:-115.503,-10.8371,0,-115.503,-10.8371,-115.503 chr02 26218294 . T C 19755.4 PASS AB=0.605919;ABP=65.5704;AC=28;AF=0.666667;AN=42;AO=969;CIGAR=1X;DP=1298;DPB=1298;DPRA=1.06897;EPP=2107.17;EPPR=715.253;GTI=1;LEN=1;MEANALT=1.05;MQM=59.7337;MQMR=59.7713;NS=21;NUMALT=1;ODDS=8.00911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34552;QR=11733;RO=328;RPL=0;RPP=2107.17;RPPR=715.253;RPR=969;RUN=1;SAF=969;SAP=2107.17;SAR=0;SRF=328;SRP=715.253;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:8,13:8:284:13:468:-36.1357,0,-19.5794 0/1:6:5,1:5:180:1:32:-1.39313,0,-14.7455 0/1:56:28,28:28:1008:28:988:-72.3395,0,-74.1787 1/1:127:6,121:6:212:121:4321:-369.636,-18.8084,0 0/1:119:45,74:45:1603:74:2629:-200.875,0,-108.737 0/1:52:30,22:30:1080:22:788:-55.5775,0,-81.8597 1/1:44:1,43:1:36:43:1532:-134.575,-9.64705,0 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/1:80:26,54:26:927:54:1921:-149.069,0,-59.665 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.6504 0/1:6:1,5:1:36:5:180:-14.7376,0,-1.79209 0/1:30:18,12:18:640:12:432:-30.1903,0,-48.8846 1/1:110:5,105:5:180:105:3732:-319.437,-16.5612,0 0/1:86:14,72:14:504:72:2562:-204.94,0,-19.8095 1/1:55:1,54:1:36:54:1928:-170.196,-12.9584,0 1/1:35:0,35:0:0:35:1258:-113.522,-10.5361,0 1/1:28:2,26:2:72:26:924:-76.64,-1.59212,0 0/1:77:38,39:38:1355:39:1391:-102.291,0,-98.7551 0/1:97:32,65:32:1148:65:2323:-180.127,0,-74.4299 1/1:146:2,143:2:68:143:5107:-453.286,-37.5448,0 1/1:53:0,53:0:0:53:1892:-170.542,-15.9546,0 chr02 26243116 . TCCTTAAAGT TCCTTAAAAGT,TCCCTAAAAGT 18635.4 PASS AB=0.418234,0.565847;ABP=43.137,29.0334;AC=30,12;AF=0.714286,0.285714;AN=42;AO=802,473;CIGAR=5M1I5M,1M1I3M1X5M;DP=1293;DPB=1422;DPRA=0.78961,2.33553;EPP=1744.53,1030.12;EPPR=0;GTI=1;LEN=1,11;MEANALT=2.5,3;MQM=35.8342,25.0867;MQMR=0;NS=21;NUMALT=2;ODDS=1.66181;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27809,11843;QR=0;RO=0;RPL=0,0;RPP=1744.53,1030.12;RPPR=0;RPR=802,473;RUN=1,1;SAF=0,0;SAP=1744.53,1030.12;SAR=802,473;SRF=0;SRP=0;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,14,39:0:0:14,39:487,975:-101.468,-65.5067,-61.2923,-36.065,0,-24.3248 1/2:9:0,4,4:0:0:4,4:144,100:-17.581,-6.69067,-5.48655,-10.9098,0,-9.70563 1/2:118:0,50,68:0:0:50,68:1700,1709:-240.991,-115.222,-100.171,-126.043,0,-105.573 1/1:58:0,56,0:0:0:56,0:1920,0:-159.202,-16.8577,0,-159.202,-16.8577,-159.202 1/2:71:0,14,56:0:0:14,56:466,1398:-128.37,-93.9393,-89.7249,-34.5273,0,-17.6696 1/2:57:0,25,32:0:0:25,32:895,798:-121.469,-53.8367,-46.3109,-67.9163,0,-58.2834 1/1:102:0,99,2:0:0:99,2:3474,50:-291.912,-29.802,0,-288.557,-26.5113,-287.955 2/2:77:0,0,76:0:0:0,76:0,1905:-150.907,-150.907,-150.907,-22.8783,-22.8783,0 1/2:207:0,88,113:0:0:88,113:3104,2826:-424.847,-190.221,-163.73,-234.661,0,-200.645 1/2:12:0,5,6:0:0:5,6:180,155:-23.9025,-10.5198,-9.01467,-13.4235,0,-11.6173 1/1:9:0,9,0:0:0:9,0:304,0:-25.9174,-2.70927,0,-25.9174,-2.70927,-25.9174 1/2:41:0,27,13:0:0:27,13:941,322:-92.0335,-21.6637,-13.5359,-70.4004,0,-66.4871 1/1:25:0,25,0:0:0:25,0:857,0:-70.8973,-7.52575,0,-70.8973,-7.52575,-70.8973 1/1:88:0,87,0:0:0:87,0:2988,0:-247.209,-26.1896,0,-247.209,-26.1896,-247.209 1/1:124:0,121,1:0:0:121,1:4168,25:-344.217,-36.4246,0,-342.539,-34.7593,-342.238 1/1:14:0,14,0:0:0:14,0:492,0:-41.4871,-4.21442,0,-41.4871,-4.21442,-41.4871 1/1:8:0,8,0:0:0:8,0:284,0:-24.1847,-2.40824,0,-24.1847,-2.40824,-24.1847 1/2:69:0,27,42:0:0:27,42:932,1050:-140.126,-70.7237,-62.5959,-69.6824,0,-57.0391 1/2:53:0,35,18:0:0:35,18:1214,450:-120.542,-30.4359,-19.8998,-90.3598,0,-84.9412 1/1:71:0,68,3:0:0:68,3:2368,80:-196.678,-20.47,0,-191.196,-14.7479,-190.293 1/1:26:0,26,0:0:0:26,0:891,0:-75.1616,-7.82678,0,-75.1616,-7.82678,-75.1616 chr02 26326554 . T C 24025 PASS AB=0.509363;ABP=3.62026;AC=30;AF=0.714286;AN=42;AO=1068;CIGAR=1X;DP=1559;DPB=1559;DPRA=0.779255;EPP=1814.88;EPPR=876.634;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9831;MQMR=60;NS=21;NUMALT=1;ODDS=3.67571;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38066;QR=17612;RO=490;RPL=1065;RPP=2296.16;RPPR=1049.73;RPR=3;RUN=1;SAF=59;SAP=1837.99;SAR=1009;SRF=21;SRP=892.445;SRR=469;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:30,48:30:1080:48:1724:-131.965,0,-74.0329 0/1:52:25,27:25:900:27:964:-71.4233,0,-65.6675 0/1:85:43,42:43:1544:42:1474:-107.363,0,-113.666 1/1:47:0,47:0:0:47:1675:-151.024,-14.1484,0 0/1:129:74,55:74:2664:55:1952:-137.12,0,-201.172 0/1:41:15,26:15:540:26:936:-72.2172,0,-36.5943 1/1:83:0,82:0:0:82:2937:-264.35,-24.6845,0 0/0:94:94,0:94:3368:0:0:0,-28.2968,-303.336 0/1:145:63,82:63:2260:82:2918:-219.203,0,-160.013 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:24:15,9:15:540:9:320:-21.9176,0,-41.7118 1/1:56:0,56:0:0:56:1989:-179.282,-16.8577,0 1/1:100:0,100:0:0:100:3536:-318.448,-30.103,0 1/1:163:0,163:0:0:163:5803:-522.382,-49.0679,0 1/1:69:2,67:2:72:67:2400:-209.42,-13.9343,0 1/1:40:0,40:0:0:40:1416:-127.735,-12.0412,0 0/1:173:100,73:100:3600:73:2609:-182.978,0,-272.126 0/1:62:21,41:21:756:41:1476:-114.472,0,-49.7034 1/1:53:0,53:0:0:53:1893:-170.646,-15.9546,0 1/1:48:1,47:1:36:47:1684:-148.249,-10.8512,0 chr02 26404785 . TGTA CGTG,CGTA 29243.3 PASS AB=0.522911,0.475741;ABP=6.39335,6.80306;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1000,390;CIGAR=1X2M1X,1X3M;DP=1395;DPB=1395;DPRA=1.8875,1.11165;EPP=2174.48,849.885;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.8,2.08333;MQM=59.997,60;MQMR=0;NS=21;NUMALT=2;ODDS=7.32665;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35227,13916;QR=0;RO=0;RPL=1000,390;RPP=2174.48,849.885;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2174.48,849.885;SAR=1000,390;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,48,75:0:0:48,75:1680,2662:-353.929,-217.246,-202.797,-137.035,0,-114.458 1/2:66:0,39,27:0:0:39,27:1387,968:-192.341,-79.3096,-67.5694,-113.389,0,-105.261 1/2:45:0,26,19:0:0:26,19:927,676:-131.014,-55.4484,-47.6216,-75.9211,0,-70.2015 1/1:85:0,85,0:0:0:85,0:2992,0:-269.513,-25.5876,0,-269.513,-25.5876,-269.513 1/2:159:0,80,79:0:0:80,79:2798,2828:-458.602,-230.978,-206.895,-227.978,0,-204.196 1/2:65:0,34,31:0:0:34,31:1198,1097:-187.242,-89.7061,-79.4711,-97.8886,0,-88.5567 1/1:83:0,83,0:0:0:83,0:2935,0:-264.386,-24.9855,0,-264.386,-24.9855,-264.386 2/2:36:0,0,36:0:0:0,36:0,1292:-116.584,-116.584,-116.584,-10.8371,-10.8371,0 1/2:102:0,52,50:0:0:52,50:1843,1788:-296.292,-146.151,-130.498,-150.497,0,-135.445 1/2:13:0,8,5:0:0:8,5:287,180:-38.4558,-15.0469,-12.6387,-23.7682,0,-22.2631 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:11:0,8,3:0:0:8,3:280,108:-31.9457,-9.17208,-6.76384,-23.1307,0,-22.2277 1/1:70:0,70,0:0:0:70,0:2475,0:-223.004,-21.0721,0,-223.004,-21.0721,-223.004 1/1:46:0,45,0:0:0:45,0:1608,0:-144.719,-13.5464,0,-144.719,-13.5464,-144.719 1/1:97:0,96,0:0:0:96,0:3330,0:-299.583,-28.8989,0,-299.583,-28.8989,-299.583 1/1:72:0,72,0:0:0:72,0:2536,0:-228.491,-21.6742,0,-228.491,-21.6742,-228.491 1/1:46:0,45,0:0:0:45,0:1594,0:-143.449,-13.5464,0,-143.449,-13.5464,-143.449 1/2:88:0,47,41:0:0:47,41:1662,1457:-254.445,-119.082,-104.933,-135.717,0,-123.375 1/2:70:0,46,23:0:0:46,23:1610,824:-198.186,-67.1999,-53.3525,-130.981,0,-124.058 1/1:58:0,58,0:0:0:58,0:2058,0:-185.492,-17.4597,0,-185.492,-17.4597,-185.492 1/1:55:0,53,1:0:0:53,1:1847,36:-166.201,-15.9546,0,-163.264,-12.9623,-162.963 chr02 26441865 . CT CC,AC 31291.2 PASS AB=0.488211,0.511789;ABP=3.8807,3.8807;AC=30,12;AF=0.714286,0.285714;AN=42;AO=998,469;CIGAR=1M1X,2X;DP=1468;DPB=1469;DPRA=0.722632,1.93944;EPP=2144.16,1021.43;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.75,1.93333;MQM=60,59.9957;MQMR=0;NS=21;NUMALT=2;ODDS=12.8476;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=0;QA=35589,16476;QR=0;RO=0;RPL=3,0;RPP=2144.16,1021.43;RPPR=0;RPR=995,469;RUN=1,1;SAF=0,0;SAP=2170.14,1021.43;SAR=998,469;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:78:0,24,54:0:0:24,54:860,1921:-227.051,-156.911,-149.686,-70.4971,0,-54.2415 1/2:23:0,10,13:0:0:10,13:360,464:-67.5598,-38.1843,-35.174,-29.734,0,-25.8206 1/2:67:0,32,35:0:0:32,35:1140,1252:-195.369,-102.449,-92.8165,-93.2762,0,-82.7402 1/1:80:0,80,0:0:0:80,0:2844,0:-256.197,-24.0824,0,-256.197,-24.0824,-256.197 1/2:133:0,64,69:0:0:64,69:2289,2415:-383.482,-196.832,-177.566,-187.004,0,-166.233 1/2:47:0,18,29:0:0:18,29:629,1022:-134.667,-83.5029,-78.0844,-51.4584,0,-42.7286 1/1:73:0,72,1:0:0:72,1:2576,36:-231.73,-21.6742,0,-228.792,-18.3769,-228.491 2/2:95:0,0,95:0:0:0,95:0,3319:-298.868,-298.868,-298.868,-28.5979,-28.5979,0 1/2:126:0,64,62:0:0:64,62:2275,2171:-362.383,-176.991,-157.725,-185.745,0,-167.081 1/2:14:0,10,4:0:0:10,4:360,144:-41.4837,-12.1095,-9.0992,-29.734,0,-28.5299 1/1:19:0,19,0:0:0:19,0:684,0:-61.8903,-5.71957,0,-61.8903,-5.71957,-61.8903 1/2:33:0,16,17:0:0:16,17:576,588:-95.1308,-48.1253,-43.3088,-47.3585,0,-42.241 1/1:90:0,89,1:0:0:89,1:3154,36:-283.726,-26.7917,0,-280.788,-23.4944,-280.487 1/1:70:0,69,1:0:0:69,1:2468,36:-222.014,-20.7711,0,-219.077,-17.4738,-218.776 1/1:50:0,50,0:0:0:50,0:1784,0:-160.843,-15.0515,0,-160.843,-15.0515,-160.843 1/1:22:0,22,0:0:0:22,0:788,0:-71.2448,-6.62266,0,-71.2448,-6.62266,-71.2448 1/1:23:0,23,0:0:0:23,0:828,0:-74.8441,-6.92369,0,-74.8441,-6.92369,-74.8441 1/2:107:0,57,50:0:0:57,50:2026,1744:-307.289,-142.188,-125.029,-165.453,0,-150.401 1/2:93:0,57,36:0:0:57,36:2013,1258:-266.612,-102.683,-85.5243,-164.28,0,-153.443 1/1:168:0,166,2:0:0:166,2:5946,70:-534.896,-49.971,0,-529.201,-43.9257,-528.598 1/1:57:0,56,0:0:0:56,0:1989,0:-178.923,-16.8577,0,-178.923,-16.8577,-178.923 chr02 26441930 . G T 34738.4 PASS AB=0.527218;ABP=9.39338;AC=30;AF=0.714286;AN=42;AO=1645;CIGAR=1X;DP=2155;DPB=2155;DPRA=2.78553;EPP=3575.08;EPPR=1108.29;GTI=0;LEN=1;MEANALT=1.05;MQM=59.1514;MQMR=60;NS=21;NUMALT=1;ODDS=6.60882;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58792;QR=18217;RO=509;RPL=0;RPP=3575.08;RPPR=1108.29;RPR=1645;RUN=1;SAF=1645;SAP=3575.08;SAR=0;SRF=509;SRP=1108.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:69,59:69:2460:59:2082:-148.704,0,-183.123 0/1:55:24,31:24:860:31:1112:-83.8339,0,-61.1652 0/1:84:27,57:27:972:57:2036:-158.226,0,-62.5114 1/1:149:0,149:0:0:149:5338:-480.488,-44.8535,0 0/1:243:117,126:117:4177:126:4524:-333.601,0,-302.961 0/1:115:50,65:50:1800:65:2321:-174.424,0,-127.664 1/1:152:0,152:0:0:152:5448:-489.676,-45.7566,0 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/1:178:100,78:100:3584:78:2804:-198.986,0,-269.183 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:22:10,12:10:356:12:432:-32.5962,0,-25.7586 1/1:132:0,132:0:0:132:4711:-423.966,-39.736,0 1/1:131:0,131:0:0:131:4704:-422.664,-39.4349,0 1/1:200:0,200:0:0:200:7138:-642.109,-60.206,0 1/1:83:0,82:0:0:82:2913:-262.181,-24.6845,0 1/1:94:1,93:1:36:93:3340:-297.096,-24.6985,0 0/1:85:43,42:43:1540:42:1496:-109.346,0,-113.306 0/1:77:25,52:25:896:52:1863:-144.472,0,-57.781 1/1:115:1,114:1:36:114:4033:-359.309,-31.0202,0 1/1:60:0,60:0:0:60:2137:-192.042,-18.0618,0 chr02 26441958 . C G 33883.1 PASS AB=0.526585;ABP=9.01404;AC=30;AF=0.714286;AN=42;AO=1598;CIGAR=1X;DP=2101;DPB=2101;DPRA=2.86806;EPP=3378.14;EPPR=1093.09;GTI=0;LEN=1;MEANALT=1.05;MQM=59.1502;MQMR=60;NS=21;NUMALT=1;ODDS=6.56428;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56730;QR=17731;RO=502;RPL=1587;RPP=3378.14;RPPR=1093.09;RPR=11;RUN=1;SAF=1598;SAP=3473.02;SAR=0;SRF=502;SRP=1093.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:68,59:68:2415:59:2057:-147.108,0,-179.376 0/1:57:25,32:25:892:32:1141:-85.8326,0,-63.441 0/1:82:27,55:27:964:55:1972:-153.07,0,-62.3924 1/1:147:0,147:0:0:147:5222:-470.02,-44.2514,0 0/1:238:113,125:113:3977:125:4466:-329.998,0,-286.477 0/1:113:49,64:49:1730:64:2287:-171.881,0,-121.967 1/1:147:0,146:0:0:146:5134:-460.906,-43.9504,0 0/0:36:36,0:36:1248:0:0:0,-10.8371,-112.619 0/1:179:100,79:100:3547:79:2800:-198.309,0,-265.557 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 1/1:8:0,8:0:0:8:273:-24.9002,-2.40824,0 0/1:22:10,12:10:356:12:432:-32.5962,0,-25.7586 1/1:132:0,132:0:0:132:4693:-422.466,-39.736,0 1/1:117:0,117:0:0:117:4089:-367.672,-35.2205,0 1/1:194:0,194:0:0:194:6928:-623.262,-58.3998,0 1/1:84:0,84:0:0:84:3001:-270.313,-25.2865,0 1/1:92:2,90:2:72:90:3211:-281.667,-20.858,0 0/1:82:43,39:43:1521:39:1374:-99.2717,0,-112.497 0/1:73:24,49:24:833:49:1760:-136.411,0,-53.3097 1/1:110:1,109:1:36:109:3856:-343.37,-29.515,0 1/1:56:0,56:0:0:56:1998:-179.339,-16.8577,0 chr02 26441968 . G A 34708 PASS AB=0.535282;ABP=13.7363;AC=30;AF=0.714286;AN=42;AO=1655;CIGAR=1X;DP=2157;DPB=2157;DPRA=2.78816;EPP=3596.8;EPPR=1093.09;GTI=0;LEN=1;MEANALT=1;MQM=59.0713;MQMR=60;NS=21;NUMALT=1;ODDS=4.80261;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58887;QR=17889;RO=502;RPL=1655;RPP=3596.8;RPPR=1093.09;RPR=0;RUN=1;SAF=1655;SAP=3596.8;SAR=0;SRF=502;SRP=1093.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:72,59:72:2550:59:2076:-147.131,0,-190.313 0/1:56:24,32:24:856:32:1148:-86.7016,0,-60.5034 0/1:83:26,57:26:932:57:2040:-158.887,0,-59.2134 1/1:153:0,153:0:0:153:5452:-490.713,-46.0576,0 0/1:244:115,129:115:4119:129:4562:-336.751,0,-297.442 0/1:117:49,68:49:1764:68:2412:-181.954,0,-123.823 1/1:152:0,152:0:0:152:5416:-487.181,-45.7566,0 0/0:38:38,0:38:1327:0:0:0,-11.4391,-119.726 0/1:181:99,82:99:3518:82:2910:-207.595,0,-262.342 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:21:9,12:9:324:12:432:-32.8972,0,-23.1842 1/1:133:0,133:0:0:133:4763:-428.494,-40.037,0 1/1:131:0,131:0:0:131:4612:-414.448,-39.4349,0 1/1:197:0,197:0:0:197:7032:-632.623,-59.3029,0 1/1:85:0,85:0:0:85:3032:-273.099,-25.5876,0 1/1:95:2,93:2:72:93:3296:-289.854,-21.7611,0 0/1:82:41,41:41:1467:41:1455:-106.56,0,-107.641 0/1:72:22,50:22:788:50:1800:-140.324,0,-49.5706 1/1:113:1,112:1:32:112:4006:-357.232,-30.8171,0 1/1:59:0,59:0:0:59:2083:-187.359,-17.7608,0 chr02 26442042 . T C 20052.4 PASS AB=0.550111;ABP=22.5971;AC=30;AF=0.714286;AN=42;AO=1463;CIGAR=1X;DP=1979;DPB=1979;DPRA=0.841441;EPP=3179.87;EPPR=1123.49;GTI=0;LEN=1;MEANALT=1;MQM=33.9522;MQMR=42.2054;NS=21;NUMALT=1;ODDS=7.7956;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52336;QR=18413;RO=516;RPL=1463;RPP=3179.87;RPPR=1123.49;RPR=0;RUN=1;SAF=0;SAP=3179.87;SAR=1463;SRF=0;SRP=1123.49;SRR=516;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:46,61:46:1644:61:2173:-104.962,0,-106.161 0/1:81:30,51:30:1072:51:1828:-140.361,0,-72.409 0/1:67:39,28:39:1400:28:1008:-44.2882,0,-94.7889 1/1:118:0,118:0:0:118:4164:-264.107,-35.5215,0 0/1:118:56,62:56:2016:62:2224:-103.993,0,-131.609 0/1:132:65,67:65:2309:67:2408:-176.303,0,-168.333 1/1:148:0,148:0:0:148:5308:-477.853,-44.5524,0 0/0:111:111,0:111:3954:0:0:0,-33.4143,-331.16 0/1:125:43,82:43:1521:82:2948:-146.674,0,-87.7505 0/1:10:4,6:4:144:6:216:-11.5948,0,-9.60366 1/1:11:0,11:0:0:11:396:-35.965,-3.31133,0 0/1:25:19,6:19:661:6:216:-6.04223,0,-50.1015 1/1:174:0,174:0:0:174:6230:-389.942,-52.3792,0 1/1:68:0,68:0:0:68:2444:-155.249,-20.47,0 1/1:149:0,149:0:0:149:5303:-338.347,-44.8535,0 1/1:60:0,60:0:0:60:2141:-134.828,-18.0618,0 1/1:88:1,87:1:36:87:3124:-191.044,-23.1916,0 0/1:139:74,65:74:2652:65:2328:-108.729,0,-177.561 0/1:94:28,66:28:1004:66:2364:-123.303,0,-55.0629 1/1:110:0,110:0:0:110:3937:-252.936,-33.1133,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 chr02 26490181 . G T 26415 PASS AB=0.461576;ABP=29.0423;AC=12;AF=0.285714;AN=42;AO=1142;CIGAR=1X;DP=4136;DPB=4136;DPRA=1.20621;EPP=2482.83;EPPR=6495.71;GTI=0;LEN=1;MEANALT=1.26667;MQM=60;MQMR=59.9993;NS=21;NUMALT=1;ODDS=22.4141;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40563;QR=104666;RO=2990;RPL=532;RPP=14.5788;RPPR=46.9597;RPR=610;RUN=1;SAF=532;SAP=14.5788;SAR=610;SRF=1372;SRP=46.9597;SRR=1618;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:239:121,118:121:4307:118:4182:-304.616,0,-315.862 0/1:238:148,90:148:5182:90:3210:-217.479,0,-394.879 0/1:202:96,106:96:3395:106:3780:-279.592,0,-244.957 0/0:232:232,0:232:8131:0:0:0,-69.839,-731.823 0/1:374:187,186:187:6526:186:6599:-481.35,0,-474.79 0/1:173:94,78:94:3329:78:2788:-199.024,0,-247.692 0/0:302:302,0:302:10542:0:0:0,-90.9111,-948.718 1/1:195:0,195:0:0:195:6899:-620.986,-58.7009,0 0/1:390:208,182:208:7294:182:6497:-467.413,0,-539.119 0/1:24:18,6:18:636:6:216:-12.5658,0,-50.3433 0/0:14:14,0:14:471:0:0:0,-4.21442,-42.7088 0/1:84:42,42:42:1482:42:1508:-110.728,0,-108.386 0/0:261:260,1:260:9081:1:36:0,-74.9706,-813.686 0/0:176:176,0:176:6211:0:0:0,-52.9813,-559.092 0/0:265:263,1:263:9253:1:21:0,-77.6369,-830.598 0/0:212:212,0:212:7390:0:0:0,-63.8184,-665.163 0/0:199:198,1:198:6869:1:36:0,-56.3067,-614.695 0/1:172:87,85:87:2966:85:2979:-216.567,0,-215.398 0/1:134:89,44:89:3104:44:1560:-100.334,0,-239.231 0/0:156:149,7:149:5236:7:252:0,-23.9317,-448.355 0/0:94:94,0:94:3261:0:0:0,-28.2968,-293.715 chr02 26490634 . T C 22574.3 PASS AB=0.445698;ABP=21.1692;AC=30;AF=0.714286;AN=42;AO=1075;CIGAR=1X;DP=1529;DPB=1529;DPRA=1.2681;EPP=2337.34;EPPR=984.516;GTI=0;LEN=1;MEANALT=1.05;MQM=59.974;MQMR=60;NS=21;NUMALT=1;ODDS=3.04778;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38456;QR=16197;RO=452;RPL=0;RPP=2337.34;RPPR=984.516;RPR=1075;RUN=1;SAF=1075;SAP=2337.34;SAR=0;SRF=452;SRP=984.516;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:63,39:63:2256:39:1404:-95.9542,0,-172.598 0/1:46:34,12:34:1216:12:432:-25.3738,0,-95.8992 0/1:61:40,21:40:1436:21:752:-49.6434,0,-111.175 1/1:47:0,47:0:0:47:1692:-152.567,-14.1484,0 0/1:170:68,102:68:2417:102:3651:-277.613,0,-166.61 0/1:32:18,14:18:648:14:500:-35.7032,0,-49.0189 1/1:151:0,151:0:0:151:5399:-486.041,-45.4555,0 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.83 0/1:114:68,46:68:2444:46:1650:-114.471,0,-185.897 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:11:8,3:8:288:3:104:-6.39148,0,-22.9561 1/1:87:0,87:0:0:87:3124:-281.386,-26.1896,0 1/1:77:1,76:1:36:76:2732:-242.519,-19.581,0 1/1:122:0,122:0:0:122:4336:-390.415,-36.7257,0 1/1:65:0,65:0:0:65:2324:-209.42,-19.567,0 1/1:69:0,69:0:0:69:2459:-221.564,-20.7711,0 0/1:121:70,51:70:2512:51:1836:-129.096,0,-189.907 0/1:46:23,23:23:824:23:807:-59.1018,0,-60.6359 1/1:76:0,74:0:0:74:2648:-238.206,-22.2762,0 1/1:58:0,58:0:0:58:2066:-186.21,-17.4597,0 chr02 26490817 . ACAA ACAG,GCAG 30233 PASS AB=0.678571,0.319196;ABP=127.094,130.216;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1212,174;CIGAR=3M1X,1X2M1X;DP=1387;DPB=1387.75;DPRA=2.34138,0.478158;EPP=2634.83,380.846;EPPR=0;GTI=4;LEN=1,4;MEANALT=1.6,2;MQM=59.6741,59.3161;MQMR=0;NS=21;NUMALT=2;ODDS=3.5754;PAIRED=0,0;PAIREDR=0;PAO=0.5,2.5;PQA=18,90;PQR=0;PRO=0;QA=43417,6168;QR=0;RO=0;RPL=1212,174;RPP=2634.83,380.846;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2634.83,380.846;SAR=1212,174;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:28:0,20,8:0:0:20,8:720,288:-81.9767,-23.8568,-17.8362,-58.4787,0,-56.0705 1/2:49:0,28,21:0:0:28,21:989,745:-141.562,-61.023,-52.5942,-80.8932,0,-74.5715 1/2:52:0,37,15:0:0:37,15:1328,532:-151.881,-43.6109,-32.4728,-108.625,0,-104.11 1/1:154:0,154,0:0:0:154,0:5513,0:-496.248,-46.3586,0,-496.248,-46.3586,-496.248 1/2:72:0,44,28:0:0:44,28:1576,983:-208.885,-80.3536,-67.1083,-128.885,0,-120.456 1/2:60:0,40,20:0:0:40,20:1440,709:-175.236,-57.7433,-45.7021,-117.49,0,-111.469 1/1:108:0,108,0:0:0:108,0:3880,0:-349.355,-32.5112,0,-349.355,-32.5112,-349.355 2/2:29:0,0,29:0:0:0,29:0,1031:-92.7111,-92.7111,-92.7111,-8.72987,-8.72987,0 1/2:84:0,55,28:0:0:55,28:1964,1000:-241.562,-81.5693,-65.0126,-160.057,0,-151.628 1/2:10:0,7,3:0:0:7,3:252,106:-29.5526,-8.98607,-6.87886,-20.9217,0,-20.0187 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:20:0,16,4:0:0:16,4:576,137:-58.4668,-11.4633,-6.64679,-47.3494,0,-46.1453 1/1:151:0,151,0:0:0:151,0:5412,0:-486.932,-45.4555,0,-486.932,-45.4555,-486.932 1/1:129:0,129,0:0:0:129,0:4620,0:-414.334,-38.8329,0,-414.334,-38.8329,-414.334 1/1:121:0,121,0:0:0:121,0:4344,0:-391.067,-36.4246,0,-391.067,-36.4246,-391.067 1/1:56:0,56,0:0:0:56,0:2008,0:-180.993,-16.8577,0,-180.993,-16.8577,-180.993 1/1:62:0,62,0:0:0:62,0:2204,0:-198.619,-18.6639,0,-198.619,-18.6639,-198.619 1/2:42:0,32,10:0:0:32,10:1146,349:-122.069,-28.6809,-19.0479,-93.6855,0,-90.6752 1/2:31:0,25,6:0:0:25,6:900,216:-90.3627,-17.976,-10.4503,-72.7454,0,-70.9392 1/1:63:0,61,2:0:0:61,2:2181,72:-196.192,-18.3628,0,-190.317,-12.1282,-189.715 1/1:62:0,62,0:0:0:62,0:2220,0:-200.061,-18.6639,0,-200.061,-18.6639,-200.061 chr02 26515062 . GC AC,AA 31516.9 PASS AB=0.41769,0.579853;ABP=50.9107,48.0937;AC=30,12;AF=0.714286,0.285714;AN=42;AO=914,573;CIGAR=1X1M,2X;DP=1490;DPB=1490;DPRA=0.710204,1.37049;EPP=1979.06,1247.26;EPPR=5.18177;GTI=1;LEN=1,2;MEANALT=1.6,2.08333;MQM=59.9989,59.9145;MQMR=60;NS=21;NUMALT=2;ODDS=5.33604;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32723,20316;QR=25;RO=1;RPL=913,573;RPP=1979.06,1247.26;RPPR=5.18177;RPR=1,0;RUN=1,1;SAF=0,0;SAP=1987.74,1247.26;SAR=914,573;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:75:0,26,49:0:0:26,49:907,1740:-215.897,-142.131,-134.305,-74.1161,0,-59.3656 1/2:43:0,17,26:0:0:17,26:612,936:-126.665,-76.7293,-71.6118,-50.2959,0,-42.4691 1/2:133:0,53,80:0:0:53,80:1896,2841:-386.451,-231.844,-215.89,-154.963,0,-130.881 1/1:54:0,54,0:0:0:54,0:1944,0:-175.236,-16.2556,0,-175.236,-16.2556,-175.236 1/2:47:0,24,23:0:0:24,23:853,828:-137.428,-67.9204,-60.6957,-69.865,0,-62.9413 1/2:71:0,23,48:0:0:23,48:828,1693:-205.767,-138.204,-131.281,-67.9204,0,-53.471 1/1:87:0,87,0:0:0:87,0:3124,0:-281.386,-26.1896,0,-281.386,-26.1896,-281.386 2/2:98:0,0,97:0:0:0,97:0,3416:-307.402,-307.402,-307.402,-29.1999,-29.1999,0 1/2:141:1,59,81:1:25:59,81:2107,2859:-402.352,-230.87,-215.057,-169.939,0,-147.503 1/2:16:0,8,8:0:0:8,8:288,288:-47.3585,-23.8592,-21.4509,-23.8592,0,-21.4509 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:42:0,14,28:0:0:14,28:500,997:-122.38,-81.615,-77.4006,-41.1218,0,-32.6929 1/1:77:0,77,0:0:0:77,0:2745,0:-247.291,-23.1793,0,-247.291,-23.1793,-247.291 1/1:58:0,58,0:0:0:58,0:2068,0:-186.391,-17.4597,0,-186.391,-17.4597,-186.391 1/1:82:0,82,0:0:0:82,0:2946,0:-265.373,-24.6845,0,-265.373,-24.6845,-265.373 1/1:48:0,48,0:0:0:48,0:1724,0:-155.445,-14.4494,0,-155.445,-14.4494,-155.445 1/1:49:0,49,0:0:0:49,0:1760,0:-158.684,-14.7505,0,-158.684,-14.7505,-158.684 1/2:170:0,65,104:0:0:65,104:2336,3692:-491.389,-300.814,-281.247,-190.572,0,-159.265 1/2:76:0,51,25:0:0:51,25:1809,882:-219.555,-72.1711,-56.8186,-147.737,0,-140.211 1/1:51:0,47,4:0:0:47,4:1688,144:-151.847,-14.1484,0,-140.097,-2.03891,-138.893 1/1:63:0,63,0:0:0:63,0:2264,0:-204.022,-18.9649,0,-204.022,-18.9649,-204.022 chr02 26542160 . C G 44511.8 PASS AB=0.515112;ABP=6.02925;AC=30;AF=0.714286;AN=42;AO=2135;CIGAR=1X;DP=2969;DPB=2969;DPRA=1.58132;EPP=4639.1;EPPR=1800.99;GTI=0;LEN=1;MEANALT=1.3;MQM=59.9616;MQMR=59.9807;NS=21;NUMALT=1;ODDS=17.0332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76290;QR=29409;RO=828;RPL=0;RPP=4639.1;RPPR=1800.99;RPR=2135;RUN=1;SAF=2135;SAP=4639.1;SAR=0;SRF=828;SRP=1800.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:302:145,157:145:5152:157:5608:-413.931,0,-372.915 0/1:133:57,74:57:2020:74:2641:-198.212,0,-142.351 0/1:152:63,89:63:2232:89:3196:-242.106,0,-155.332 1/1:181:0,181:0:0:181:6481:-583.375,-54.4864,0 0/1:385:198,187:198:7055:187:6681:-485.47,0,-519.118 0/1:121:57,63:57:2036:63:2254:-166.64,0,-147.029 1/1:238:1,237:1:36:237:8444:-756.354,-68.0469,0 0/0:91:91,0:91:3224:0:0:0,-27.3937,-290.385 0/1:275:135,139:135:4816:139:4954:-363.206,0,-350.795 0/1:26:20,6:20:704:6:214:-11.778,0,-55.8578 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:23:15,8:15:532:8:288:-19.3437,0,-41.2894 1/1:164:0,164:0:0:164:5877:-529.038,-49.3689,0 1/1:172:0,172:0:0:172:6127:-551.516,-51.7772,0 1/1:237:0,237:0:0:237:8493:-764.367,-71.3441,0 1/1:96:0,96:0:0:96:3433:-309.181,-28.8989,0 1/1:123:1,122:1:36:122:4361:-388.738,-33.4284,0 0/1:61:29,32:29:1007:32:1148:-85.267,0,-72.5771 0/1:44:14,29:14:487:29:1026:-79.3474,0,-30.8559 1/1:101:2,98:2:72:98:3497:-308.103,-23.6261,0 1/1:33:0,33:0:0:33:1175:-106.057,-9.93399,0 chr02 26542170 . G A 15236.3 PASS AB=0.494852;ABP=3.36802;AC=12;AF=0.285714;AN=42;AO=870;CIGAR=1X;DP=2987;DPB=2987;DPRA=1.19716;EPP=1892.19;EPPR=4589.16;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9391;MQMR=59.982;NS=21;NUMALT=1;ODDS=13.0272;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31176;QR=75567;RO=2116;RPL=0;RPP=1892.19;RPPR=4589.16;RPR=870;RUN=1;SAF=870;SAP=1892.19;SAR=0;SRF=2116;SRP=4597.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:307:159,148:159:5671:148:5308:-385.421,0,-418.095 0/1:137:75,62:75:2680:62:2220:-158.822,0,-200.204 0/1:153:89,64:89:3188:64:2292:-160.428,0,-241.086 0/0:182:182,0:182:6472:0:0:0,-54.7875,-582.569 0/1:395:184,211:184:6598:211:7557:-561.233,0,-474.99 0/1:128:66,62:66:2364:62:2220:-161.533,0,-174.487 0/0:231:229,1:229:8130:1:36:0,-65.9984,-728.115 1/1:97:0,97:0:0:97:3478:-313.23,-29.1999,0 0/1:279:137,142:137:4916:142:5096:-374.794,0,-358.602 0/1:27:6,21:6:216:21:752:-59.8784,0,-11.658 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:23:7,16:7:252:16:565:-44.2559,0,-16.1053 0/0:162:162,0:162:5796:0:0:0,-48.7669,-521.754 0/0:166:166,0:166:5915:0:0:0,-49.971,-532.373 0/0:234:234,0:234:8371:0:0:0,-70.441,-753.395 0/0:94:94,0:94:3376:0:0:0,-28.2968,-304.054 0/0:126:125,1:125:4467:1:36:0,-34.3315,-398.602 0/1:61:31,30:31:1108:30:1076:-78.79,0,-81.6682 0/1:44:31,13:31:1091:13:468:-29.2143,0,-85.2534 0/0:99:97,2:97:3456:2:72:0,-22.9652,-304.414 0/0:31:31,0:31:1104:0:0:0,-9.33193,-99.6706 chr02 26551926 . A G 6355.85 PASS AB=0.409412;ABP=63.5969;AC=12;AF=0.285714;AN=42;AO=407;CIGAR=1X;DP=1766;DPB=1766;DPRA=0.913945;EPP=886.8;EPPR=2954.04;GTI=0;LEN=1;MEANALT=1;MQM=59.9386;MQMR=59.9154;NS=21;NUMALT=1;ODDS=7.96278;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14332;QR=48418;RO=1359;RPL=407;RPP=886.8;RPPR=2928.04;RPR=0;RUN=1;SAF=407;SAP=886.8;SAR=0;SRF=1356;SRP=2928.04;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:83,59:83:2941:59:2065:-143.368,0,-220.192 0/1:130:73,57:73:2604:57:2013:-142.308,0,-195.475 0/1:106:76,30:76:2716:30:1045:-62.4484,0,-212.775 0/0:70:70,0:70:2499:0:0:0,-21.0721,-225.161 0/1:198:100,98:100:3552:98:3452:-251.287,0,-260.287 0/1:59:35,24:35:1251:24:848:-58.8707,0,-95.1335 0/0:113:113,0:113:4039:0:0:0,-34.0164,-363.48 1/1:56:0,56:0:0:56:1978:-178.294,-16.8577,0 0/1:96:65,31:65:2301:31:1108:-71.1321,0,-178.451 0/1:17:11,6:11:396:6:207:-13.8494,0,-30.8652 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:36:18,18:18:644:18:644:-47.4535,0,-47.4535 0/0:66:66,0:66:2343:0:0:0,-19.868,-211.118 0/0:138:138,0:138:4929:0:0:0,-41.5421,-443.759 0/0:195:195,0:195:6943:0:0:0,-58.7008,-624.94 0/0:58:58,0:58:2056:0:0:0,-17.4597,-185.312 0/0:113:113,0:113:4038:0:0:0,-34.0164,-363.607 0/1:45:27,18:27:964:18:621:-42.6646,0,-73.5305 0/1:21:14,7:14:500:7:252:-16.7055,0,-39.0145 0/0:64:61,3:61:2188:3:99:0,-10.0293,-187.941 0/0:34:34,0:34:1194:0:0:0,-10.235,-107.764 chr02 26609946 . C T 9143.37 PASS AB=0.454981;ABP=21.3888;AC=11;AF=0.261905;AN=42;AO=547;CIGAR=1X;DP=2406;DPB=2406;DPRA=1.14151;EPP=1190.81;EPPR=4028.92;GTI=0;LEN=1;MEANALT=1;MQM=59.7843;MQMR=59.9828;NS=21;NUMALT=1;ODDS=5.58414;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19593;QR=66457;RO=1858;RPL=547;RPP=1190.81;RPPR=4028.92;RPR=0;RUN=1;SAF=0;SAP=1190.81;SAR=547;SRF=0;SRP=4037.61;SRR=1858;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:58,60:58:2072:60:2131:-156.533,0,-151.229 0/1:112:69,43:69:2467:43:1544:-105.453,0,-188.568 0/1:66:50,16:50:1792:16:572:-31.9454,0,-141.694 0/0:169:169,0:169:6052:0:0:0,-50.8741,-544.783 0/1:249:107,142:107:3816:142:5094:-383.636,0,-268.68 0/1:67:30,37:30:1057:37:1328:-99.6532,0,-75.27 0/0:208:206,2:206:7380:2:72:0,-55.7775,-657.41 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 0/1:265:139,126:139:4952:126:4520:-326.824,0,-366.059 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5231 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:24:18,6:18:640:6:212:-12.2001,0,-50.7046 0/0:150:150,0:150:5336:0:0:0,-45.1545,-480.374 0/0:136:136,0:136:4884:0:0:0,-40.9401,-439.711 0/0:224:224,0:224:8040:0:0:0,-67.4307,-723.617 0/0:98:97,0:97:3475:0:0:0,-29.1999,-312.601 0/0:94:94,0:94:3355:0:0:0,-28.2968,-302.167 0/1:62:38,24:38:1364:24:860:-59.0295,0,-104.397 0/1:81:60,21:60:2147:21:752:-43.5944,0,-169.113 0/0:136:130,6:130:4644:6:216:0,-21.1496,-398.333 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.425 chr02 26611944 . A G 13969.7 PASS AB=0.521105;ABP=8.05152;AC=12;AF=0.285714;AN=42;AO=796;CIGAR=1X;DP=2607;DPB=2607;DPRA=1.09352;EPP=1731.5;EPPR=3935.55;GTI=0;LEN=1;MEANALT=1;MQM=59.9648;MQMR=60;NS=21;NUMALT=1;ODDS=17.1683;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28267;QR=64913;RO=1811;RPL=0;RPP=1731.5;RPPR=3935.55;RPR=796;RUN=1;SAF=796;SAP=1731.5;SAR=0;SRF=1811;SRP=3935.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:75,95:75:2685:95:3378:-253.059,0,-190.718 0/1:153:68,85:68:2448:85:3060:-229.562,0,-174.517 0/1:53:34,19:34:1224:19:680:-45.5746,0,-94.5125 0/0:112:111,1:111:3992:1:36:0,-30.1171,-355.87 0/1:288:112,176:112:4009:176:6287:-479.224,0,-274.301 0/1:153:75,78:75:2700:78:2792:-205.463,0,-197.186 0/0:177:177,0:177:6352:0:0:0,-53.2823,-571.769 1/1:110:0,110:0:0:110:3854:-347.047,-33.1133,0 0/1:219:119,100:119:4268:100:3538:-252.703,0,-318.372 0/1:26:11,15:11:396:15:525:-39.7513,0,-28.156 0/0:23:23,0:23:820:0:0:0,-6.92369,-74.1225 0/1:41:20,21:20:701:21:726:-53.3137,0,-51.0695 0/0:156:155,1:155:5534:1:36:0,-43.3624,-494.585 0/0:127:127,0:127:4545:0:0:0,-38.2308,-409.215 0/0:277:277,0:277:9941:0:0:0,-83.3853,-894.624 0/0:94:94,0:94:3380:0:0:0,-28.2968,-304.414 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 0/1:121:61,60:61:2192:60:2114:-154.101,0,-161.121 0/1:79:49,30:49:1764:30:1065:-72.3738,0,-135.262 0/0:108:103,5:103:3666:5:176:0,-16.3262,-313.957 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 chr02 26611974 . G A 32038.2 PASS AB=0.494067;ABP=3.65442;AC=12;AF=0.285714;AN=42;AO=1368;CIGAR=1X;DP=4513;DPB=4513;DPRA=1.26503;EPP=2964.91;EPPR=6791.06;GTI=0;LEN=1;MEANALT=1.4375;MQM=56.3765;MQMR=59.9815;NS=21;NUMALT=1;ODDS=30.1136;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48170;QR=111556;RO=3138;RPL=759;RPP=38.7253;RPPR=85.8529;RPR=609;RUN=1;SAF=760;SAP=39.6841;SAR=608;SRF=1745;SRP=88.7509;SRR=1393;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:278:140,137:140:4978:137:4819:-349.74,0,-364.423 0/1:228:110,118:110:3913:118:4162:-305.592,0,-283.729 0/1:125:60,63:60:2143:63:2205:-161.119,0,-155.751 0/0:227:227,0:227:8062:0:0:0,-68.3338,-725.599 0/1:466:205,260:205:7304:260:9140:-681.797,0,-517.221 0/1:203:115,88:115:4076:88:3156:-222.896,0,-305.919 0/0:332:332,0:332:11760:0:0:0,-99.942,-1058.27 1/1:314:2,312:2:68:312:10958:-975.7,-88.0657,0 0/1:360:190,170:190:6767:170:5995:-431.04,0,-500.731 0/1:45:18,27:18:635:27:955:-72.6086,0,-43.9306 0/0:42:42,0:42:1491:0:0:0,-12.6433,-134.484 0/1:80:45,35:45:1583:35:1243:-87.9105,0,-118.672 0/0:235:233,2:233:8220:2:72:0,-63.9053,-732.982 0/0:238:235,2:235:8359:2:72:0,-64.8767,-745.47 0/0:399:395,3:395:14090:3:108:0,-110.095,-1257.79 0/0:181:181,0:181:6411:0:0:0,-54.4864,-577.081 0/0:119:117,1:117:4174:1:36:0,-32.2856,-372.244 0/1:196:98,98:98:3507:98:3444:-250.738,0,-256.838 0/1:126:81,45:81:2908:45:1553:-102.08,0,-224.025 0/0:207:200,7:200:7139:7:252:0,-39.3104,-619.559 0/0:112:112,0:112:3968:0:0:0,-33.7154,-357.312 chr02 26612025 . ACCG TCCG,TCCA 45798.3 PASS AB=0.507625,0.491285;ABP=3.47393,3.61585;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1421,693;CIGAR=1X3M,1X2M1X;DP=2116;DPB=2116.25;DPRA=0.396414,1.08383;EPP=3088.67,1507.84;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.75,2;MQM=59.9578,51.6234;MQMR=0;NS=21;NUMALT=2;ODDS=10.6447;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=50954,24716;QR=0;RO=0;RPL=1421,693;RPP=3088.67,1507.84;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3088.67,1507.84;SAR=1421,693;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,69,51:0:0:69,51:2484,1812:-349.537,-146.851,-126.08,-203.042,0,-187.689 1/2:80:0,45,35:0:0:45,35:1616,1234:-232.033,-100.204,-86.6576,-132.184,0,-121.648 1/2:83:0,31,52:0:0:31,52:1104,1855:-241.193,-151.21,-141.878,-90.3387,0,-74.6851 1/1:122:0,122,0:0:0:122,0:4384,0:-394.732,-36.7257,0,-394.732,-36.7257,-394.732 1/2:203:0,101,102:0:0:101,102:3612,3655:-592.213,-297.689,-267.285,-294.881,0,-264.176 1/2:69:0,42,27:0:0:42,27:1512,964:-201.574,-78.199,-65.5557,-123.731,0,-115.604 1/1:168:0,168,0:0:0:168,0:6028,0:-542.606,-50.573,0,-542.606,-50.573,-542.606 2/2:237:0,0,237:0:0:0,237:0,8467:-756.601,-756.601,-756.601,-71.3441,-71.3441,0 1/2:158:0,75,83:0:0:75,83:2700,2939:-459.726,-239.417,-216.84,-220.666,0,-195.681 1/2:24:0,7,17:0:0:7,17:252,604:-69.9518,-49.3882,-47.281,-20.9217,0,-15.8042 1/1:21:0,21,0:0:0:21,0:733,0:-66.2897,-6.32163,0,-66.2897,-6.32163,-66.2897 1/2:42:0,24,17:0:0:24,17:860,607:-119.415,-49.2735,-42.0488,-70.1662,0,-65.0487 1/1:84:0,84,0:0:0:84,0:3008,0:-270.951,-25.2865,0,-270.951,-25.2865,-270.951 1/1:126:0,124,2:0:0:124,2:4456,72:-400.717,-37.3277,0,-394.852,-31.1028,-394.25 1/1:127:0,126,0:0:0:126,0:4515,0:-406.147,-37.9298,0,-406.147,-37.9298,-406.147 1/1:91:0,91,0:0:0:91,0:3272,0:-294.698,-27.3937,0,-294.698,-27.3937,-294.698 1/1:63:0,62,1:0:0:62,1:2198,36:-197.722,-18.6639,0,-194.786,-15.3692,-194.485 1/2:87:0,39,48:0:0:39,48:1404,1716:-254.134,-139.573,-127.833,-114.919,0,-100.47 1/2:52:0,33,19:0:0:33,19:1188,683:-152.916,-55.9807,-46.0467,-97.2946,0,-91.575 1/1:104:0,102,2:0:0:102,2:3660,72:-329.24,-30.7051,0,-323.391,-24.4975,-322.789 1/1:55:0,55,0:0:0:55,0:1968,0:-177.395,-16.5567,0,-177.395,-16.5567,-177.395 chr02 26641152 . A G 21283.1 PASS AB=0.532872;ABP=8.43522;AC=30;AF=0.714286;AN=42;AO=803;CIGAR=1X;DP=1140;DPB=1140;DPRA=0.826923;EPP=3.0779;EPPR=18.4812;GTI=0;LEN=1;MEANALT=1;MQM=59.9813;MQMR=60;NS=21;NUMALT=1;ODDS=3.77564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28411;QR=12062;RO=337;RPL=5;RPP=1703.54;RPPR=726.136;RPR=798;RUN=1;SAF=404;SAP=3.0779;SAR=399;SRF=145;SRP=17.2441;SRR=192;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:26,26:26:928:26:932:-68.5453,0,-68.1847 0/1:38:16,22:16:576:22:765:-57.729,0,-40.7358 0/1:19:10,9:10:356:9:324:-23.7863,0,-26.6617 1/1:45:0,45:0:0:45:1591:-143.48,-13.5464,0 0/1:94:49,45:49:1752:45:1582:-114.37,0,-129.667 0/1:58:30,28:30:1080:28:987:-71.6833,0,-80.0535 1/1:56:0,56:0:0:56:1965:-177.122,-16.8577,0 0/0:65:65,0:65:2319:0:0:0,-19.5669,-208.97 0/1:115:53,62:53:1904:62:2211:-164.636,0,-137.019 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:11:8,3:8:288:3:108:-6.76384,0,-22.9561 1/1:66:0,66:0:0:66:2345:-211.309,-19.868,0 1/1:52:0,52:0:0:52:1843:-166.15,-15.6536,0 1/1:78:0,78:0:0:78:2756:-248.281,-23.4803,0 1/1:32:0,32:0:0:32:1096:-98.9411,-9.63296,0 1/1:21:0,21:0:0:21:737:-66.6506,-6.32163,0 0/1:99:45,54:45:1599:54:1885:-140.123,0,-114.397 0/1:87:29,58:29:1044:58:2076:-160.914,0,-68.0852 1/1:46:2,44:2:72:44:1571:-134.844,-7.01066,0 1/1:97:0,97:0:0:97:3457:-311.343,-29.1999,0 chr02 26800725 . TTTCTA ATTTTT,ATTTTA 52529.8 PASS AB=0.454098,0.540984;ABP=25.3373,20.8093;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1744,788;CIGAR=1X2M1X1M1X,1X2M1X2M;DP=2541;DPB=2540.83;DPRA=0.958333,1;EPP=3790.06,1714.13;EPPR=0;GTI=0;LEN=6,6;MEANALT=2,2.46154;MQM=46.793,58.7817;MQMR=0;NS=21;NUMALT=2;ODDS=3.43358;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61394,27837;QR=0;RO=0;RPL=0,0;RPP=3790.06,1714.13;RPPR=0;RPR=1744,788;RUN=1,1;SAF=1744,788;SAP=3790.06,1714.13;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:155:0,65,90:0:0:65,90:2296,3167:-443.267,-257.981,-238.414,-185.637,0,-158.544 1/2:118:0,46,72:0:0:46,72:1630,2543:-339.204,-207.242,-193.395,-132.314,0,-110.64 1/2:125:0,51,73:0:0:51,73:1792,2595:-355.904,-211.434,-196.081,-144.464,0,-122.488 1/1:298:0,298,0:0:0:298,0:10505,0:-936.718,-89.7069,0,-936.718,-89.7069,-936.718 1/2:213:0,106,107:0:0:106,107:3724,3773:-606.373,-307.205,-275.296,-299.517,0,-267.307 1/2:193:0,78,112:0:0:78,112:2745,3951:-542.304,-321.196,-297.715,-221.168,0,-187.453 1/1:197:0,197,0:0:0:197,0:6921,0:-618.167,-59.3029,0,-618.167,-59.3029,-618.167 2/2:126:0,0,125:0:0:0,125:0,4436:-398.822,-398.822,-398.822,-37.6288,-37.6288,0 1/2:218:0,100,116:0:0:100,116:3524,4107:-599.873,-334.526,-304.423,-265.395,0,-230.476 1/2:16:0,7,9:0:0:7,9:244,322:-46.2794,-26.615,-24.5078,-20.0153,0,-17.306 1/1:6:0,6,0:0:0:6,0:203,0:-18.52,-1.80618,0,-18.52,-1.80618,-18.52 1/2:35:0,12,23:0:0:12,23:428,806:-100.455,-65.9329,-62.3205,-34.874,0,-27.9503 1/1:118:0,117,0:0:0:117,0:4130,0:-367.801,-35.2205,0,-367.801,-35.2205,-367.801 1/1:167:0,167,0:0:0:167,0:5860,0:-523.088,-50.272,0,-523.088,-50.272,-523.088 1/1:110:0,108,2:0:0:108,2:3809,72:-339.751,-32.5112,0,-333.876,-26.2766,-333.274 1/1:67:0,66,0:0:0:66,0:2321,0:-193.99,-19.868,0,-193.99,-19.868,-193.99 1/1:82:0,82,0:0:0:82,0:2883,0:-241.94,-24.6845,0,-241.94,-24.6845,-241.94 1/2:85:0,48,37:0:0:48,37:1680,1292:-240.559,-105.124,-90.6748,-135.782,0,-124.644 1/2:62:0,41,21:0:0:41,21:1444,737:-177.093,-60.3016,-47.9594,-117.142,0,-110.82 1/1:117:0,116,1:0:0:116,1:4087,36:-365.354,-34.9195,0,-362.417,-31.6222,-362.116 1/1:33:0,33,0:0:0:33,0:1168,0:-104.828,-9.93399,0,-104.828,-9.93399,-104.828 chr02 26800803 . A G 29183.5 PASS AB=0.450132;ABP=27.483;AC=30;AF=0.714286;AN=42;AO=1439;CIGAR=1X;DP=2165;DPB=2165;DPRA=0;EPP=3127.76;EPPR=1572.98;GTI=1;LEN=1;MEANALT=1.14286;MQM=60;MQMR=59.9917;NS=21;NUMALT=1;ODDS=1.77142;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51036;QR=25812;RO=723;RPL=0;RPP=3127.76;RPPR=1572.98;RPR=1439;RUN=1;SAF=0;SAP=3127.76;SAR=1439;SRF=0;SRP=1572.98;SRR=723;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:63,57:63:2240:57:2019:-145.498,0,-165.38 0/1:76:34,42:34:1216:42:1512:-113.496,0,-86.8683 0/1:97:47,50:47:1688:50:1780:-131.282,0,-123.007 1/1:120:0,120:0:0:120:4295:-386.727,-36.1236,0 0/1:229:127,102:127:4544:102:3600:-255.272,0,-340.19 0/1:91:40,51:40:1409:51:1787:-133.715,0,-99.7115 1/1:129:0,129:0:0:129:4562:-410.746,-38.8329,0 0/0:100:98,2:98:3504:2:72:0,-23.2663,-308.734 0/1:262:163,99:163:5819:99:3471:-233.73,0,-444.955 0/1:19:12,7:12:432:7:237:-15.9395,0,-33.5016 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:57:37,20:37:1313:20:703:-46.4348,0,-101.311 1/1:112:0,111:0:0:111:3971:-357.221,-33.4143,0 1/1:101:0,101:0:0:101:3597:-323.936,-30.404,0 1/1:144:0,143:0:0:143:5058:-455.007,-43.0473,0 1/1:46:0,46:0:0:46:1639:-147.798,-13.8474,0 1/1:114:0,114:0:0:114:4011:-361.18,-34.3174,0 0/1:122:75,47:75:2679:47:1684:-115.121,0,-204.629 0/1:59:24,35:24:860:35:1240:-94.1426,0,-59.9611 1/1:93:1,92:1:36:92:3263:-290.292,-24.3975,0 1/1:67:2,65:2:72:65:2319:-202.133,-13.3323,0 chr02 26800833 . G A 13106.7 PASS AB=0.547849;ABP=25.6611;AC=12;AF=0.285714;AN=42;AO=724;CIGAR=1X;DP=2176;DPB=2176;DPRA=1.19055;EPP=1566.48;EPPR=3061.17;GTI=1;LEN=1;MEANALT=1;MQM=59.9862;MQMR=60;NS=21;NUMALT=1;ODDS=1.57083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25913;QR=51574;RO=1452;RPL=723;RPP=1566.48;RPPR=3061.17;RPR=1;RUN=1;SAF=0;SAP=1575.16;SAR=724;SRF=0;SRP=3155.99;SRR=1452;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:59,60:59:2098:60:2152:-158.125,0,-153.266 0/1:77:42,35:42:1478:35:1238:-88.5438,0,-110.134 0/1:98:50,48:50:1780:48:1720:-125.585,0,-130.982 0/0:121:121,0:121:4318:0:0:0,-36.4246,-388.796 0/1:229:101,128:101:3581:128:4588:-344.146,0,-253.562 0/1:94:53,41:53:1875:41:1467:-104.029,0,-140.731 0/0:129:129,0:129:4584:0:0:0,-38.8329,-412.729 1/1:101:2,99:2:72:99:3547:-312.601,-23.5673,0 0/1:261:99,162:99:3527:162:5790:-442.645,0,-239.071 0/1:20:7,13:7:252:13:464:-36.0751,0,-17.0084 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:57:21,36:21:740:36:1292:-99.4251,0,-49.7647 0/0:111:111,0:111:3947:0:0:0,-33.4143,-355.424 0/0:103:103,0:103:3657:0:0:0,-31.0061,-329.335 0/0:145:145,0:145:5163:0:0:0,-43.6493,-464.813 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/0:115:115,0:115:4071:0:0:0,-34.6184,-366.581 0/1:124:48,76:48:1679:76:2723:-207.986,0,-114.065 0/1:60:35,25:35:1240:25:896:-62.8986,0,-93.8427 0/0:95:94,1:94:3327:1:36:0,-24.9996,-296.052 0/0:65:65,0:65:2317:0:0:0,-19.5669,-208.789 chr02 26819376 . G C 11773.9 PASS AB=0.503036;ABP=3.10258;AC=12;AF=0.285714;AN=42;AO=691;CIGAR=1X;DP=2403;DPB=2403;DPRA=1.12845;EPP=1503.5;EPPR=3718.4;GTI=0;LEN=1;MEANALT=1.07692;MQM=44.4226;MQMR=57.8568;NS=21;NUMALT=1;ODDS=9.78604;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24758;QR=61078;RO=1711;RPL=0;RPP=1503.5;RPPR=3718.4;RPR=691;RUN=1;SAF=691;SAP=1503.5;SAR=0;SRF=1711;SRP=3718.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:45,32:45:1620:32:1152:-79.5835,0,-122.815 0/1:166:78,88:78:2804:88:3163:-226.527,0,-202.338 0/1:59:30,29:30:1076:29:1044:-74.5369,0,-79.3283 0/0:104:104,0:104:3713:0:0:0,-31.3071,-333.621 0/1:229:90,139:90:3221:139:4980:-370.544,0,-219.869 0/1:119:59,60:59:2097:60:2160:-152.798,0,-152.105 0/0:218:216,2:216:7680:2:72:0,-58.9694,-683.219 1/1:103:0,103:0:0:103:3676:-324.56,-31.0061,0 0/1:260:137,123:137:4905:123:4416:-316.027,0,-363.061 0/1:20:9,11:9:324:11:396:-29.3406,0,-23.477 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5355 0/1:17:10,7:10:360:7:244:-16.8199,0,-27.6176 0/0:63:63,0:63:2226:0:0:0,-18.9649,-200.409 0/0:132:132,0:132:4721:0:0:0,-39.736,-424.616 0/0:220:220,0:220:7861:0:0:0,-66.2266,-706.138 0/0:123:123,0:123:4416:0:0:0,-37.0267,-397.496 0/0:143:143,0:143:5041:0:0:0,-43.0473,-453.73 0/1:151:73,77:73:2605:77:2752:-197.737,0,-188.139 0/1:55:41,14:41:1468:14:491:-27.5046,0,-115.75 0/0:81:75,6:75:2684:6:212:0,-5.26721,-222.364 0/0:58:58,0:58:2076:0:0:0,-17.4597,-186.746 chr02 26819395 . C G 11450.6 PASS AB=0.495645;ABP=3.19945;AC=12;AF=0.285714;AN=42;AO=678;CIGAR=1X;DP=2396;DPB=2396;DPRA=1.12132;EPP=1466.6;EPPR=3566.05;GTI=0;LEN=1;MEANALT=1.15385;MQM=44.5516;MQMR=57.8794;NS=21;NUMALT=1;ODDS=11.0761;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24244;QR=61356;RO=1716;RPL=1;RPP=1466.6;RPPR=3566.05;RPR=677;RUN=1;SAF=678;SAP=1475.27;SAR=0;SRF=1716;SRP=3729.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:45,31:45:1612:31:1112:-76.3425,0,-122.397 0/1:167:79,88:79:2836:88:3155:-225.365,0,-204.838 0/1:59:29,29:29:1044:29:1044:-74.5171,0,-76.3635 0/0:105:105,0:105:3758:0:0:0,-31.6081,-337.664 0/1:227:91,135:91:3246:135:4824:-359.087,0,-223.098 0/1:119:59,60:59:2120:60:2148:-152.515,0,-154.373 0/0:218:215,3:215:7698:3:108:0,-55.7278,-681.641 1/1:100:0,100:0:0:100:3571:-315.318,-30.103,0 0/1:259:139,120:139:4975:120:4275:-304.033,0,-369.656 0/1:20:9,11:9:320:11:396:-29.3406,0,-23.1141 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5355 0/1:17:11,6:11:396:6:216:-14.3005,0,-30.8552 0/0:64:64,0:64:2284:0:0:0,-19.2659,-205.593 0/0:133:133,0:133:4721:0:0:0,-40.037,-424.761 0/0:217:217,0:217:7750:0:0:0,-65.3235,-697.015 0/0:124:124,0:124:4456:0:0:0,-37.3277,-401.094 0/0:143:143,0:143:5124:0:0:0,-43.0473,-461.149 0/1:150:74,76:74:2639:76:2719:-195.199,0,-192.17 0/1:54:41,13:41:1464:13:460:-25.0543,0,-115.692 0/0:81:75,6:75:2663:6:216:0,-4.93475,-220.182 0/0:58:58,0:58:2070:0:0:0,-17.4597,-186.278 chr02 26819422 . A C 34726.4 PASS AB=0.492576;ABP=3.55838;AC=30;AF=0.714286;AN=42;AO=1691;CIGAR=1X;DP=2382;DPB=2382;DPRA=1.11765;EPP=3674.97;EPPR=1501.33;GTI=0;LEN=1;MEANALT=1.05;MQM=57.8427;MQMR=44.4232;NS=21;NUMALT=1;ODDS=9.18805;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59862;QR=24470;RO=690;RPL=1691;RPP=3674.97;RPPR=1501.33;RPR=0;RUN=1;SAF=1691;SAP=3674.97;SAR=0;SRF=690;SRP=1501.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:31,43:31:1108:43:1529:-115.593,0,-76.6054 0/1:166:88,78:88:3119:78:2761:-198.394,0,-222.832 0/1:58:30,28:30:1055:28:1000:-72.8373,0,-75.9079 1/1:104:0,104:0:0:104:3686:-331.735,-31.3071,0 0/1:225:138,87:138:4870:87:3066:-207.762,0,-363.297 0/1:120:61,59:61:2160:59:2104:-152.833,0,-153.121 1/1:217:2,215:2:72:215:7601:-676.177,-58.6684,0 0/0:102:102,0:102:3627:0:0:0,-30.7051,-320.233 0/1:257:121,136:121:4296:136:4811:-355.524,0,-306.345 0/1:20:11,9:11:392:9:320:-23.1141,0,-29.0109 1/1:5:0,5:0:0:5:176:-16.1713,-1.50515,0 0/1:18:7,11:7:252:11:375:-28.6517,0,-17.1821 1/1:65:1,64:1:36:64:2258:-199.455,-15.9687,0 1/1:132:0,132:0:0:132:4679:-420.963,-39.736,0 1/1:216:0,216:0:0:216:7661:-688.167,-65.0225,0 1/1:123:0,123:0:0:123:4328:-389.615,-37.0267,0 1/1:141:0,141:0:0:141:5031:-452.803,-42.4452,0 0/1:152:79,72:79:2803:72:2526:-181.247,0,-201.765 0/1:55:14,41:14:504:41:1464:-115.391,0,-28.6174 1/1:77:5,72:5:176:72:2531:-211.864,-7.24681,0 1/1:55:0,55:0:0:55:1955:-176.025,-16.5567,0 chr02 26822755 . CCTT TTTT,TTTC 30751.7 PASS AB=0.494071,0.504611;ABP=3.24204,3.15049;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1061,430;CIGAR=2X2M,2X1M1X;DP=1494;DPB=1494.5;DPRA=1.86538,1.49733;EPP=2306.94,936.743;EPPR=0;GTI=0;LEN=2,4;MEANALT=1.8,2.14286;MQM=54.114,40.7605;MQMR=0;NS=21;NUMALT=2;ODDS=7.94803;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=0;QA=37476,15248;QR=0;RO=0;RPL=1061,430;RPP=2306.94,936.743;RPPR=0;RPR=0,0;RUN=1,1;SAF=1061,430;SAP=2306.94,936.743;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,50,56:0:0:50,56:1779,2007:-302.252,-157.417,-142.365,-145.127,0,-128.27 1/2:72:0,37,35:0:0:37,35:1330,1245:-202.461,-94.872,-83.7339,-107.934,0,-97.3975 1/2:79:0,33,45:0:0:33,45:1160,1594:-219.763,-125.555,-115.621,-94.2049,0,-80.6585 1/1:56:0,56,0:0:0:56,0:1979,0:-177.596,-16.8577,0,-177.596,-16.8577,-177.596 1/2:180:0,92,88:0:0:92,88:3249,3106:-507.992,-244.375,-216.68,-263.964,0,-237.473 1/2:61:0,37,24:0:0:37,24:1311,847:-171.739,-65.2189,-54.0808,-106.861,0,-99.6366 1/1:51:0,51,0:0:0:51,0:1785,0:-160.289,-15.3525,0,-160.289,-15.3525,-160.289 2/2:39:0,0,39:0:0:0,39:0,1393:-120.581,-120.581,-120.581,-11.7402,-11.7402,0 1/2:146:0,61,85:0:0:61,85:2150,3007:-414.059,-239.671,-221.308,-174.738,0,-149.15 1/2:20:0,6,14:0:0:6,14:203,504:-54.7319,-38.2982,-36.492,-16.7705,0,-12.5561 1/1:4:0,4,0:0:0:4,0:144,0:-13.2801,-1.20412,0,-13.2801,-1.20412,-13.2801 1/2:38:0,18,20:0:0:18,20:641,706:-107.124,-55.0767,-49.6581,-52.3936,0,-46.373 1/1:101:0,101,0:0:0:101,0:3576,0:-321.437,-30.404,0,-321.437,-30.404,-321.437 1/1:128:0,124,4:0:0:124,4:4392,142:-394.121,-37.3277,0,-382.939,-25.8014,-381.735 1/1:125:0,123,1:0:0:123,1:4308,29:-385.988,-37.0267,0,-383.698,-34.7179,-383.397 1/1:49:0,49,0:0:0:49,0:1753,0:-157.778,-14.7505,0,-157.778,-14.7505,-157.778 1/1:87:0,87,0:0:0:87,0:3062,0:-275.363,-26.1896,0,-275.363,-26.1896,-275.363 1/2:36:0,25,11:0:0:25,11:858,394:-99.84,-30.2947,-22.7689,-69.8298,0,-66.5184 1/2:21:0,16,5:0:0:16,5:569,174:-60.0866,-13.8642,-9.04774,-46.5613,0,-45.0561 1/1:69:0,65,3:0:0:65,3:2322,100:-208.072,-19.567,0,-200.25,-11.7706,-199.347 1/1:26:0,26,0:0:0:26,0:905,0:-81.5706,-7.82678,0,-81.5706,-7.82678,-81.5706 chr02 26826482 . T C 19876.4 PASS AB=0.487327;ABP=5.43194;AC=12;AF=0.285714;AN=42;AO=1080;CIGAR=1X;DP=3753;DPB=3753;DPRA=1.56701;EPP=2262.15;EPPR=5727.27;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9667;MQMR=60;NS=21;NUMALT=1;ODDS=14.7746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38653;QR=95346;RO=2672;RPL=10;RPP=2262.15;RPPR=5727.27;RPR=1070;RUN=1;SAF=0;SAP=2348.2;SAR=1080;SRF=0;SRP=5805.18;SRR=2672;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:132:64,68:64:2296:68:2433:-179.488,0,-167.165 0/1:183:99,84:99:3503:84:2983:-213.613,0,-260.39 0/1:188:96,92:96:3452:92:3289:-239.633,0,-254.298 0/0:187:185,2:185:6598:2:72:0,-49.4559,-587.063 0/1:366:191,175:191:6821:175:6262:-453.496,0,-503.784 0/1:107:55,52:55:1941:52:1872:-136.549,0,-142.754 0/0:202:202,0:202:7222:0:0:0,-60.8081,-650.031 1/1:225:0,225:0:0:225:8027:-722.378,-67.7318,0 0/1:375:191,184:191:6800:184:6608:-481.911,0,-499.183 0/1:38:20,18:20:716:18:648:-47.2127,0,-53.3286 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:35:25,10:25:896:10:360:-22.2083,0,-70.4243 0/0:184:184,0:184:6578:0:0:0,-55.3895,-592.098 0/0:149:148,1:148:5297:1:36:0,-41.2552,-473.265 0/0:487:485,2:485:17238:2:72:0,-139.765,-1544.23 0/0:174:172,2:172:6176:2:72:0,-45.5425,-549.099 0/0:158:158,0:158:5634:0:0:0,-47.5627,-507.18 0/1:213:98,115:98:3512:115:4131:-307.853,0,-252.17 0/1:99:50,48:50:1792:48:1716:-124.943,0,-131.78 0/0:171:169,2:169:6029:2:72:0,-44.6394,-535.878 0/0:70:70,0:70:2489:0:0:0,-21.0721,-224.262 chr02 26851785 . CATA TATG,CATG 56567.4 PASS AB=0.545391,0.452514;ABP=28.6373,31.0575;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1989,720;CIGAR=1X2M1X,3M1X;DP=2713;DPB=2713.5;DPRA=2.03692,1.2391;EPP=4322.07,1566.47;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.85,2.14286;MQM=45.9708,59.9083;MQMR=0;NS=21;NUMALT=2;ODDS=17.5025;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=70609,25646;QR=0;RO=0;RPL=1989,720;RPP=4322.07,1566.47;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4322.07,1566.47;SAR=1989,720;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:210:0,110,100:0:0:110,100:3896,3583:-601.348,-292.568,-259.454,-309.132,0,-279.029 1/2:152:0,70,82:0:0:70,82:2486,2919:-439.352,-238.261,-217.189,-201.445,0,-176.761 1/2:106:0,56,50:0:0:56,50:1989,1784:-303.369,-145.791,-128.933,-157.93,0,-142.879 1/1:158:0,158,0:0:0:158,0:5591,0:-493.63,-47.5627,0,-493.63,-47.5627,-493.63 1/2:368:0,205,162:0:0:205,162:7288,5746:-1050.06,-468.189,-406.477,-581.935,0,-533.168 1/2:184:0,84,100:0:0:84,100:2999,3551:-532.647,-289.693,-264.407,-243.309,0,-213.206 1/1:238:0,238,0:0:0:238,0:8463,0:-757.774,-71.6451,0,-757.774,-71.6451,-757.774 2/2:65:0,0,65:0:0:0,65:0,2320:-209.06,-209.06,-209.06,-19.567,-19.567,0 1/2:229:0,138,90:0:0:138,90:4905,3215:-658.935,-262.096,-220.554,-396.835,0,-369.742 1/2:25:0,7,17:0:0:7,17:244,608:-69.282,-49.7164,-47.6091,-19.6844,0,-14.5669 1/1:6:0,6,0:0:0:6,0:216,0:-19.266,-1.80618,0,-19.266,-1.80618,-19.266 1/2:28:0,18,10:0:0:18,10:647,356:-81.3565,-29.3709,-23.9524,-52.3409,0,-49.3306 1/1:112:0,110,2:0:0:110,2:3888,72:-343.051,-33.1133,0,-337.176,-26.8786,-336.574 1/1:86:0,86,0:0:0:86,0:3043,0:-269.73,-25.8886,0,-269.73,-25.8886,-269.73 1/1:208:0,206,2:0:0:206,2:7321,72:-646.986,-62.0122,0,-641.111,-55.7775,-640.509 1/1:132:0,132,0:0:0:132,0:4667,0:-416.065,-39.736,0,-416.065,-39.736,-416.065 1/1:111:0,110,0:0:0:110,0:3876,0:-345.542,-33.1133,0,-345.542,-33.1133,-345.542 1/2:74:0,49,25:0:0:49,25:1721,885:-209.071,-72.44,-57.6895,-136.982,0,-129.456 1/2:56:0,44,12:0:0:44,12:1577,428:-160.471,-35.2464,-22.0011,-125.58,0,-121.967 1/1:116:0,113,3:0:0:113,3:4038,107:-356.189,-34.0164,0,-347.573,-25.0474,-346.67 1/1:49:0,49,0:0:0:49,0:1754,0:-156.889,-14.7505,0,-156.889,-14.7505,-156.889 chr02 26922282 . CAACG AAACA 34942.7 PASS AB=0.485761;ABP=5.1747;AC=30;AF=0.714286;AN=42;AO=1831;CIGAR=1X3M1X;DP=2653;DPB=2653;DPRA=1.54819;EPP=3978.98;EPPR=1753.23;GTI=0;LEN=5;MEANALT=1.45;MQM=39.7018;MQMR=34.4222;NS=21;NUMALT=1;ODDS=12.6802;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64818;QR=28351;RO=810;RPL=0;RPP=3978.98;RPPR=1753.23;RPR=1831;RUN=1;SAF=1831;SAP=3978.98;SAR=0;SRF=810;SRP=1761.9;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:189:118,71:118:4165:71:2514:-161.028,0,-232.817 0/1:107:63,43:63:2236:43:1516:-96.5801,0,-124.268 0/1:119:84,35:84:2949:35:1233:-71.2423,0,-183.734 1/1:229:5,223:5:179:223:7895:-672.619,-61.6097,0 0/1:240:117,123:117:4081:123:4349:-303.722,0,-204.555 0/1:99:39,59:39:1338:59:2105:-148.018,0,-59.8535 1/1:131:15,116:15:516:116:4143:-333.806,-21.8066,0 0/0:83:83,0:83:2872:0:0:0,-24.9855,-227.337 0/1:218:99,118:99:3473:118:4197:-299.487,0,-168.718 0/1:14:6,7:6:209:7:251:-18.0325,0,-14.8856 1/1:8:1,7:1:36:7:251:-20.3242,-1.1103,0 0/1:22:15,7:15:528:7:248:-15.3589,0,-35.0464 1/1:173:16,157:16:555:157:5559:-458.495,-28.9805,0 1/1:113:6,107:6:208:107:3779:-314.913,-23.8644,0 1/1:196:12,182:12:426:182:6463:-537.745,-41.6901,0 1/1:79:5,74:5:179:74:2636:-221.876,-16.4417,0 1/1:133:6,123:6:216:123:4323:-365.726,-28.492,0 0/1:113:52,61:52:1831:61:2152:-153.837,0,-121.121 0/1:108:35,73:35:1215:73:2589:-192.027,0,-61.4802 1/1:156:21,134:21:716:134:4754:-382.827,-18.4167,0 1/1:123:12,111:12:423:111:3861:-312.749,-21.0465,0 chr02 26922323 . C T 33878 PASS AB=0.481636;ABP=6.51946;AC=30;AF=0.714286;AN=42;AO=1775;CIGAR=1X;DP=2572;DPB=2572;DPRA=1.51829;EPP=3857.37;EPPR=1725;GTI=0;LEN=1;MEANALT=1;MQM=39.7465;MQMR=34.5583;NS=21;NUMALT=1;ODDS=11.4362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62858;QR=28226;RO=797;RPL=1775;RPP=3857.37;RPPR=1733.67;RPR=0;RUN=1;SAF=1775;SAP=3857.37;SAR=0;SRF=796;SRP=1725;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:121,65:121:4312:65:2311:-144.239,0,-240.623 0/1:107:64,43:64:2288:43:1530:-97.527,0,-126.476 0/1:114:83,31:83:2934:31:1099:-61.1355,0,-182.481 1/1:223:5,218:5:180:218:7685:-655.139,-59.7891,0 0/1:230:114,116:114:4016:116:4126:-288.334,0,-205.722 0/1:95:38,57:38:1329:57:2023:-142.609,0,-59.7114 1/1:126:13,113:13:464:113:4020:-325.949,-22.7977,0 0/0:82:82,0:82:2881:0:0:0,-24.6845,-229.654 0/1:213:95,118:95:3358:118:4162:-298.254,0,-162.6 0/1:14:6,8:6:216:8:279:-20.3011,0,-15.4688 1/1:8:1,7:1:36:7:252:-20.3827,-1.1103,0 0/1:22:15,7:15:532:7:248:-15.3501,0,-35.376 1/1:166:16,150:16:572:150:5301:-436.025,-26.8378,0 1/1:112:6,106:6:212:106:3762:-313.092,-23.4686,0 1/1:188:11,177:11:392:177:6272:-523.322,-41.0022,0 1/1:77:5,72:5:180:72:2559:-215.255,-15.8387,0 1/1:125:5,120:5:176:120:4250:-360.158,-28.4696,0 0/1:112:52,60:52:1832:60:2090:-148.685,0,-121.204 0/1:105:33,72:33:1179:72:2550:-189.455,0,-57.9977 1/1:151:20,131:20:705:131:4651:-375.593,-18.3145,0 1/1:116:12,104:12:432:104:3688:-296.989,-18.9336,0 chr02 26925029 . G C 41163.9 PASS AB=0.50295;ABP=3.11279;AC=30;AF=0.714286;AN=42;AO=1973;CIGAR=1X;DP=2776;DPB=2776;DPRA=1.05159;EPP=4287.33;EPPR=1740.19;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9833;MQMR=59.8725;NS=21;NUMALT=1;ODDS=12.9291;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70332;QR=28616;RO=800;RPL=0;RPP=4287.33;RPPR=1740.19;RPR=1973;RUN=1;SAF=1973;SAP=4287.33;SAR=0;SRF=800;SRP=1740.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:92,63:92:3300:63:2252:-155.924,0,-250.162 0/1:128:54,74:54:1925:74:2644:-199.675,0,-134.992 0/1:105:56,49:56:2012:49:1764:-127.436,0,-149.74 1/1:167:0,167:0:0:167:5953:-535.88,-50.272,0 0/1:241:125,116:125:4449:116:4128:-299.157,0,-328.029 0/1:224:99,125:99:3564:125:4468:-334.857,0,-253.533 1/1:252:0,252:0:0:252:8931:-803.775,-75.8596,0 0/0:126:126,0:126:4489:0:0:0,-37.9298,-404.108 0/1:267:137,129:137:4881:129:4578:-331.752,0,-358.957 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1663 1/1:10:0,10:0:0:10:358:-32.5629,-3.0103,0 0/1:31:11,20:11:396:20:720:-55.7968,0,-26.6508 1/1:129:0,129:0:0:129:4611:-415.154,-38.8329,0 1/1:122:0,122:0:0:122:4306:-387.719,-36.7257,0 1/1:238:1,237:1:36:237:8488:-760.321,-68.0469,0 1/1:81:0,80:0:0:80:2863:-257.547,-24.0824,0 1/1:112:0,112:0:0:112:3985:-358.829,-33.7154,0 0/1:138:68,70:68:2448:70:2500:-183.709,0,-179.014 0/1:50:19,31:19:684:31:1104:-84.6191,0,-46.8388 1/1:118:1,117:1:36:117:4180:-372.785,-31.9233,0 1/1:65:0,65:0:0:65:2319:-208.968,-19.567,0 chr02 26925043 . TA TG,CG 59724.7 PASS AB=0.494845,0.502946;ABP=3.32371,3.11264;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1954,815;CIGAR=1M1X,2X;DP=2773;DPB=2773;DPRA=1.02481,1.53897;EPP=4220.05,1746.8;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.8,2.07143;MQM=59.9831,59.8294;MQMR=60;NS=21;NUMALT=2;ODDS=11.1643;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69761,28874;QR=36;RO=1;RPL=2,3;RPP=4228.71,1746.8;RPPR=5.18177;RPR=1952,812;RUN=1,1;SAF=1953,815;SAP=4237.39,1772.76;SAR=1,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:154:0,60,93:0:0:60,93:2131,3319:-444.126,-270.486,-252.425,-173.636,0,-145.64 1/2:129:0,75,54:0:0:75,54:2688,1944:-378.207,-158.979,-136.402,-219.587,0,-203.332 1/2:107:0,50,57:0:0:50,57:1788,2018:-310.528,-164.732,-149.681,-146.151,0,-128.992 1/1:161:0,160,0:0:0:160,0:5724,0:-514.918,-48.1648,0,-514.918,-48.1648,-514.918 1/2:240:1,112,127:1:36:112,127:3984,4481:-686.309,-361.93,-331.152,-321.738,0,-286.444 1/2:226:0,125,100:0:0:125,100:4480,3537:-653.459,-288.075,-250.446,-365.38,0,-335.277 1/1:251:0,250,1:0:0:250,1:8896,36:-800.261,-75.2575,0,-797.324,-71.9603,-797.023 2/2:129:0,0,129:0:0:0,129:0,4526:-407.496,-407.496,-407.496,-38.8329,-38.8329,0 1/2:267:0,127,140:0:0:127,140:4520,4970:-773.619,-405.236,-367.006,-368.738,0,-326.594 1/2:16:0,5,11:0:0:5,11:180,394:-47.1778,-32.4902,-30.985,-15.0469,0,-11.7356 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:31:0,20,11:0:0:20,11:720,394:-91.2397,-32.4902,-26.4696,-59.1082,0,-55.7968 1/1:126:0,126,0:0:0:126,0:4497,0:-404.897,-37.9298,0,-404.897,-37.9298,-404.897 1/1:127:0,127,0:0:0:127,0:4537,0:-408.496,-38.2308,0,-408.496,-38.2308,-408.496 1/1:236:0,235,1:0:0:235,1:8404,36:-756.003,-70.7421,0,-753.066,-67.4448,-752.765 1/1:79:0,79,0:0:0:79,0:2836,0:-255.478,-23.7814,0,-255.478,-23.7814,-255.478 1/1:114:0,114,0:0:0:114,0:4084,0:-367.709,-34.3174,0,-367.709,-34.3174,-367.709 1/2:137:0,68,69:0:0:68,69:2414,2429:-394.782,-198.089,-177.619,-197.047,0,-176.276 1/2:51:0,30,21:0:0:30,21:1061,754:-148.277,-61.8652,-52.8343,-86.7685,0,-80.4468 1/1:119:0,118,1:0:0:118,1:4193,36:-377.192,-35.5215,0,-374.255,-32.2243,-373.954 1/1:63:0,63,0:0:0:63,0:2264,0:-204.018,-18.9649,0,-204.018,-18.9649,-204.018 chr02 26925075 . C G 14179.3 PASS AB=0.496644;ABP=3.14146;AC=12;AF=0.285714;AN=42;AO=796;CIGAR=1X;DP=2751;DPB=2751;DPRA=1.21085;EPP=1731.5;EPPR=4235.21;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.858;MQMR=59.9918;NS=21;NUMALT=1;ODDS=12.5712;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28081;QR=68239;RO=1953;RPL=788;RPP=1662.71;RPPR=4243.9;RPR=8;RUN=1;SAF=788;SAP=1662.71;SAR=8;SRF=1952;SRP=4235.21;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:61,94:61:2106:94:3308:-251.276,0,-143.147 0/1:131:76,55:76:2689:55:1972:-138.319,0,-202.82 0/1:105:50,55:50:1770:55:1947:-143.895,0,-127.974 0/0:162:162,0:162:5698:0:0:0,-48.7669,-512.947 0/1:235:112,123:112:3889:123:4357:-321.563,0,-279.464 0/1:220:124,96:124:4371:96:3397:-239.718,0,-327.341 0/0:250:249,0:249:8653:0:0:0,-74.9565,-778.43 1/1:128:0,128:0:0:128:4461:-401.526,-38.5318,0 0/1:265:129,136:129:4461:136:4828:-354.841,0,-321.892 0/1:15:5,10:5:171:10:344:-26.7761,0,-11.21 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:31:20,11:20:685:11:383:-25.4713,0,-52.6356 0/0:127:127,0:127:4469:0:0:0,-38.2308,-402.385 0/0:124:124,0:124:4324:0:0:0,-37.3277,-389.34 0/0:237:236,1:236:8231:1:36:0,-67.7458,-737.218 0/0:79:79,0:79:2779:0:0:0,-23.7814,-250.351 0/0:110:110,0:110:3879:0:0:0,-33.1133,-349.299 0/1:134:68,66:68:2350:66:2296:-166.56,0,-171.42 0/1:50:30,20:30:1064:20:716:-49.7162,0,-81.0202 0/0:118:116,1:116:4022:1:36:0,-31.9271,-358.631 0/0:65:65,0:65:2268:0:0:0,-19.5669,-204.377 chr02 26940820 . G A 31661.3 PASS AB=0.602804;ABP=81.5892;AC=30;AF=0.714286;AN=42;AO=1494;CIGAR=1X;DP=1893;DPB=1893;DPRA=1.64018;EPP=3221.18;EPPR=858.592;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9846;MQMR=60;NS=21;NUMALT=1;ODDS=15.9059;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53166;QR=14173;RO=398;RPL=2;RPP=3229.84;RPPR=858.592;RPR=1492;RUN=1;SAF=1493;SAP=3238.51;SAR=1;SRF=398;SRP=867.256;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:20,62:20:701:62:2179:-171.687,0,-38.7273 0/1:65:22,43:22:777:43:1533:-118.694,0,-50.6834 0/1:82:32,50:32:1152:50:1796:-137.238,0,-79.3057 1/1:83:0,83:0:0:83:2954:-266.091,-24.9855,0 0/1:187:78,109:78:2773:109:3811:-286.88,0,-193.518 0/1:70:24,46:24:856:46:1622:-125.193,0,-56.289 1/1:149:0,149:0:0:149:5288:-476.053,-44.8535,0 0/0:56:56,0:56:1997:0:0:0,-16.8577,-180.002 0/1:158:59,99:59:2105:99:3535:-270.795,0,-142.155 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:20:10,10:10:336:10:356:-26.3606,0,-24.5426 1/1:129:0,129:0:0:129:4602:-414.342,-38.8329,0 1/1:103:0,103:0:0:103:3681:-331.492,-31.0061,0 1/1:196:0,196:0:0:196:6980:-628.261,-59.0019,0 1/1:79:0,79:0:0:79:2844:-256.197,-23.7814,0 1/1:69:0,69:0:0:69:2431:-219.041,-20.7711,0 0/1:128:67,60:67:2404:60:2156:-155.716,0,-178.026 0/1:57:26,31:26:928:31:1112:-83.2326,0,-66.6795 1/1:128:3,125:3:108:125:4450:-390.594,-28.4567,0 1/1:39:0,39:0:0:39:1404:-126.659,-11.7402,0 chr02 26940853 . T C 6108.92 PASS AB=0.39739;ABP=80.104;AC=12;AF=0.285714;AN=42;AO=393;CIGAR=1X;DP=1870;DPB=1870;DPRA=0.907801;EPP=856.399;EPPR=3201.6;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9851;NS=21;NUMALT=1;ODDS=15.7876;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13895;QR=52646;RO=1477;RPL=393;RPP=856.399;RPPR=3210.28;RPR=0;RUN=1;SAF=393;SAP=856.399;SAR=0;SRF=1476;SRP=3201.6;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:62,20:62:2183:20:688:-37.5531,0,-172.049 0/1:65:42,23:42:1508:23:813:-53.9222,0,-116.448 0/1:81:49,32:49:1742:32:1118:-76.5426,0,-132.679 0/0:82:82,0:82:2927:0:0:0,-24.6845,-263.665 0/1:182:105,77:105:3726:77:2721:-190.346,0,-280.755 0/1:68:46,22:46:1652:22:780:-50.053,0,-128.498 0/0:146:146,0:146:5189:0:0:0,-43.9504,-466.96 1/1:55:0,55:0:0:55:1960:-176.675,-16.5567,0 0/1:154:96,58:96:3424:58:2044:-137.871,0,-262.014 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/0:129:129,0:129:4579:0:0:0,-38.8329,-412.273 0/0:98:98,0:98:3511:0:0:0,-29.5009,-316.199 0/0:196:196,0:196:7031:0:0:0,-59.0019,-632.849 0/0:79:79,0:79:2827:0:0:0,-23.7814,-254.668 0/0:71:71,0:71:2535:0:0:0,-21.3731,-228.401 0/1:127:62,65:62:2214:65:2308:-169.751,0,-161.293 0/1:57:30,27:30:1071:27:959:-69.4667,0,-79.5429 0/0:126:123,3:123:4354:3:108:0,-27.8546,-381.958 0/0:39:39,0:39:1381:0:0:0,-11.7402,-124.587 chr03 272730 . C T 7132.34 PASS AB=0.42891;ABP=40.0591;AC=16;AF=0.380952;AN=42;AO=391;CIGAR=1X;DP=1169;DPB=1169;DPRA=1.07652;EPP=852.056;EPPR=1692.42;GTI=0;LEN=1;MEANALT=1;MQM=59.7673;MQMR=59.9434;NS=21;NUMALT=1;ODDS=4.48637;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13959;QR=27714;RO=778;RPL=359;RPP=596.855;RPPR=1278.47;RPR=32;RUN=1;SAF=359;SAP=596.855;SAR=32;SRF=727;SRP=1278.47;SRR=51;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:45,22:45:1603:22:780:-50.354,0,-124.39 0/1:75:38,37:38:1364:37:1316:-96.1646,0,-100.483 0/1:58:29,29:29:1018:29:1040:-76.4546,0,-74.4707 0/0:37:37,0:37:1301:0:0:0,-11.1381,-117.383 0/0:102:102,0:102:3643:0:0:0,-30.7051,-328.075 0/0:50:50,0:50:1774:0:0:0,-15.0515,-159.942 0/1:98:53,45:53:1900:45:1618:-116.407,0,-141.777 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 0/1:53:25,28:25:896:28:1000:-74.3565,0,-65.0058 0/1:14:9,5:9:324:5:180:-12.333,0,-25.2914 0/1:5:1,4:1:36:4:144:-11.7944,0,-2.09312 0/1:15:10,5:10:356:5:180:-12.0332,0,-27.8658 0/1:44:29,15:29:1040:15:540:-35.6912,0,-80.669 0/1:76:39,37:39:1385:37:1304:-94.774,0,-102.069 0/1:67:39,28:39:1377:28:999:-70.0485,0,-104.057 0/1:90:47,43:47:1660:43:1544:-112.16,0,-122.59 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.191 0/1:129:78,51:78:2791:51:1806:-123.959,0,-212.597 0/1:53:40,13:40:1424:13:468:-26.5051,0,-112.503 0/0:35:33,2:33:1188:2:72:0,-3.69933,-100.392 0/0:28:28,0:28:990:0:0:0,-8.42884,-89.4127 chr03 443700 . C T 2379.99 PASS AB=0.450935;ABP=11.96;AC=15;AF=0.357143;AN=42;AO=238;CIGAR=1X;DP=639;DPB=639;DPRA=1.27059;EPP=519.821;EPPR=873.771;GTI=1;LEN=1;MEANALT=1;MQM=29.2017;MQMR=40.2469;NS=21;NUMALT=1;ODDS=1.37509;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8444;QR=14207;RO=401;RPL=238;RPP=519.821;RPPR=873.771;RPR=0;RUN=1;SAF=238;SAP=519.821;SAR=0;SRF=401;SRP=873.771;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:19,18:19:672:18:640:-35.9686,0,-47.5024 0/1:33:17,16:17:612:16:572:-29.667,0,-41.1022 0/1:42:19,23:19:680:23:815:-47.2875,0,-46.7486 0/0:24:24,0:24:856:0:0:0,-7.22472,-75.0376 0/0:49:49,0:49:1730:0:0:0,-14.7505,-149.473 0/0:29:29,0:29:1011:0:0:0,-8.72987,-86.1147 0/1:42:23,19:23:828:19:676:-33.6837,0,-57.0692 1/1:44:0,44:0:0:44:1572:-108.084,-13.2453,0 0/1:35:18,17:18:644:17:603:-35.5425,0,-45.6983 0/1:9:7,2:7:252:2:72:-2.48951,0,-19.3383 0/0:5:5,0:5:176:0:0:0,-1.50515,-15.3209 0/1:19:16,3:16:572:3:108:-1.9418,0,-43.7196 0/1:25:13,12:13:445:12:419:-23.3218,0,-31.3169 0/1:53:32,21:32:1132:21:752:-38.3628,0,-83.0705 0/1:51:21,30:21:743:30:1072:-62.7245,0,-49.519 0/1:25:14,11:14:491:11:381:-22.1219,0,-36.2878 0/0:31:31,0:31:1082:0:0:0,-9.33193,-95.2829 0/1:45:29,16:29:1036:16:564:-25.9069,0,-75.0882 0/1:12:7,5:7:252:5:162:-8.97198,0,-18.3952 0/0:14:13,1:13:453:1:36:0,-1.47822,-35.4885 0/0:15:15,0:15:540:0:0:0,-4.51545,-44.9913 chr03 499477 . TGTCT CTTCT,CTTCG 32024.9 PASS AB=0.54386,0.454076;ABP=19.2011,20.7608;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1113,555;CIGAR=2X3M,2X2M1X;DP=1673;DPB=1673;DPRA=0.879444,1.10819;EPP=2419.86,1208.18;EPPR=0;GTI=1;LEN=2,5;MEANALT=2,2.1875;MQM=58.3702,31.8865;MQMR=0;NS=21;NUMALT=2;ODDS=0.0659539;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39416,19558;QR=0;RO=0;RPL=1113,555;RPP=2419.86,1208.18;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2419.86,1208.18;SAR=1113,555;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:111:0,53,58:0:0:53,58:1896,2058:-294.787,-140.331,-124.376,-154.787,0,-137.327 1/2:65:0,37,28:0:0:37,28:1297,983:-174.167,-68.673,-57.5349,-105.818,0,-97.3893 1/2:52:0,34,18:0:0:34,18:1216,647:-141.743,-42.5894,-32.3544,-99.4701,0,-94.0516 1/1:55:0,55,0:0:0:55,0:1954,0:-176.109,-16.5567,0,-176.109,-16.5567,-176.109 1/1:228:0,218,8:0:0:218,8:7711,283:-692.931,-65.6245,0,-673.536,-46.2711,-671.128 1/1:118:0,117,0:0:0:117,0:4141,0:-372.249,-35.2205,0,-372.249,-35.2205,-372.249 1/2:111:0,56,54:0:0:56,54:1968,1888:-291.762,-131.593,-114.735,-160.187,0,-143.931 2/2:90:0,0,90:0:0:0,90:0,3175:-242.774,-242.774,-242.774,-27.0927,-27.0927,0 1/2:129:0,70,58:0:0:70,58:2459,2060:-340.778,-140.769,-119.697,-200.084,0,-182.625 2/2:18:0,1,17:0:0:1,17:36,590:-45.4653,-42.5244,-42.2234,-5.11751,-1.82027,0 1/2:4:0,1,3:0:0:1,3:36,107:-10.7591,-7.8095,-7.50847,-3.29724,0,-2.39415 1/2:7:0,1,6:0:0:1,6:36,207:-17.5678,-14.6217,-14.3206,-3.29724,0,-1.49106 1/2:88:0,46,42:0:0:46,42:1624,1485:-232.179,-100.289,-86.4413,-132.215,0,-119.571 1/2:94:0,54,40:0:0:54,40:1903,1388:-250.516,-95.569,-79.3134,-155.268,0,-143.227 1/2:148:0,85,63:0:0:85,63:3031,2213:-397.113,-150.2,-124.613,-247.236,0,-228.271 1/2:52:0,25,27:0:0:25,27:884,946:-137.368,-65.4215,-57.8957,-72.2748,0,-64.147 1/1:76:0,76,0:0:0:76,0:2684,0:-241.341,-22.8783,0,-241.341,-22.8783,-241.341 1/2:44:0,25,19:0:0:25,19:882,667:-118.041,-46.2344,-38.7087,-72.1303,0,-66.4107 1/2:64:0,40,24:0:0:40,24:1440,861:-176.479,-58.975,-46.9338,-117.83,0,-110.605 1/1:87:0,87,0:0:0:87,0:3072,0:-276.532,-26.1896,0,-276.532,-26.1896,-276.532 1/1:32:0,32,0:0:0:32,0:1146,0:-103.394,-9.63296,0,-103.394,-9.63296,-103.394 chr03 499493 . A C 6634.49 PASS AB=0.456635;ABP=18.6417;AC=17;AF=0.404762;AN=42;AO=550;CIGAR=1X;DP=1649;DPB=1649;DPRA=1.10319;EPP=1197.32;EPPR=2387.29;GTI=0;LEN=1;MEANALT=1.0625;MQM=31.9055;MQMR=58.306;NS=21;NUMALT=1;ODDS=0.287783;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19585;QR=39226;RO=1098;RPL=550;RPP=1197.32;RPPR=2387.29;RPR=0;RUN=1;SAF=0;SAP=1197.32;SAR=550;SRF=0;SRP=2387.29;SRR=1098;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:52,58:52:1868:58:2065:-124.608,0,-135.12 0/1:64:36,28:36:1262:28:1004:-58.8034,0,-94.5405 0/1:51:33,18:33:1188:18:648:-32.6834,0,-91.8356 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.811 0/0:222:213,8:213:7610:8:288:0,-44.45,-661.163 0/0:115:115,0:115:4120:0:0:0,-34.6184,-370.719 0/1:108:55,53:55:1976:53:1885:-113.532,0,-145.122 1/1:88:0,88:0:0:88:3134:-238.333,-26.4906,0 0/1:129:70,59:70:2489:59:2090:-121.747,0,-184.727 1/1:18:1,17:1:36:17:612:-42.9175,-1.82027,0 0/1:4:1,3:1:36:3:108:-7.54207,0,-2.39415 0/1:7:1,6:1:36:6:212:-14.6927,0,-1.49106 0/1:88:46,42:46:1610:42:1508:-87.1637,0,-117.17 0/1:93:53,40:53:1904:40:1390:-78.9157,0,-143.479 0/1:146:85,61:85:3044:61:2165:-121.074,0,-230.027 0/1:52:25,27:25:900:27:972:-58.8772,0,-65.588 0/0:74:74,0:74:2637:0:0:0,-22.2762,-237.092 0/1:42:24,18:24:864:18:644:-37.005,0,-65.3704 0/1:63:39,24:39:1396:24:860:-47.178,0,-106.948 0/0:87:87,0:87:3105:0:0:0,-26.1896,-279.446 0/0:34:34,0:34:1205:0:0:0,-10.235,-108.692 chr03 511113 . A G 12971.1 PASS AB=0.506958;ABP=3.43337;AC=16;AF=0.380952;AN=42;AO=717;CIGAR=1X;DP=1734;DPB=1734;DPRA=1.34642;EPP=1559.96;EPPR=2211.4;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9882;NS=21;NUMALT=1;ODDS=17.73;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25507;QR=36206;RO=1017;RPL=717;RPP=1559.96;RPPR=2211.4;RPR=0;RUN=1;SAF=717;SAP=1559.96;SAR=0;SRF=1017;SRP=2211.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:34,32:34:1220:32:1132:-82.3192,0,-90.2388 0/1:65:33,32:33:1171:32:1143:-83.6117,0,-86.1297 0/1:92:39,53:39:1385:53:1879:-141.693,0,-97.2521 0/0:104:104,0:104:3697:0:0:0,-31.3071,-332.933 0/0:194:191,3:191:6801:3:108:0,-48.3246,-602.087 0/0:77:76,1:76:2693:1:36:0,-19.581,-239.016 0/1:108:48,60:48:1716:60:2113:-157.924,0,-122.214 1/1:199:1,198:1:36:198:7046:-630.602,-56.3067,0 0/1:139:81,58:81:2876:58:2080:-145.627,0,-217.233 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1663 0/1:14:8,6:8:284:6:212:-15.2104,0,-21.6889 0/1:19:13,6:13:468:6:216:-14.0709,0,-36.7401 0/1:72:46,26:46:1640:26:932:-62.5247,0,-126.215 0/1:83:42,41:42:1474:41:1457:-106.438,0,-107.965 0/1:124:61,63:61:2172:63:2247:-165.165,0,-158.419 0/1:69:34,35:34:1224:35:1260:-92.9344,0,-89.696 0/0:56:56,0:56:1989:0:0:0,-16.8577,-179.282 0/1:105:29,76:29:1040:76:2678:-209.657,0,-62.3062 0/1:34:17,17:17:600:17:608:-44.817,0,-44.0942 0/0:67:62,5:62:2224:5:180:0,-3.61694,-183.85 0/0:31:31,0:31:1100:0:0:0,-9.33193,-99.3103 chr03 533830 . C A 14865.6 PASS AB=0.507463;ABP=3.39922;AC=26;AF=0.619048;AN=42;AO=760;CIGAR=1X;DP=1216;DPB=1216;DPRA=1.07593;EPP=1653.33;EPPR=993.202;GTI=0;LEN=1;MEANALT=1;MQM=59.9171;MQMR=59.8202;NS=21;NUMALT=1;ODDS=17.449;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27242;QR=16308;RO=456;RPL=0;RPP=1653.33;RPPR=993.202;RPR=760;RUN=1;SAF=0;SAP=1653.33;SAR=760;SRF=0;SRP=993.202;SRR=456;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:25,29:25:896:29:1044:-78.0192,0,-64.7032 0/1:35:17,18:17:608:18:633:-46.759,0,-44.516 0/1:110:68,42:68:2440:42:1512:-103.261,0,-186.741 1/1:44:1,43:1:36:43:1542:-135.475,-9.64705,0 1/1:81:2,79:2:72:79:2829:-248.01,-17.5467,0 1/1:73:2,71:2:72:71:2540:-222.003,-15.1385,0 0/1:63:29,34:29:1044:34:1224:-91.5022,0,-75.3084 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 0/1:111:45,66:45:1597:66:2351:-178.431,0,-110.603 0/1:19:10,9:10:345:9:324:-23.7863,0,-25.6612 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:31:15,16:15:536:16:576:-42.8431,0,-39.1354 0/1:34:15,19:15:540:19:684:-51.6553,0,-38.7011 0/1:75:42,33:42:1504:33:1188:-84.6513,0,-113.076 0/1:122:64,58:64:2281:58:2075:-150.292,0,-168.787 0/1:44:23,21:23:828:21:756:-55.1081,0,-61.5988 1/1:44:0,44:0:0:44:1564:-141.052,-13.2453,0 0/1:64:28,36:28:993:36:1292:-97.3086,0,-70.4165 0/1:32:10,22:10:360:22:792:-61.9727,0,-23.1113 1/1:80:1,79:1:36:79:2844:-252.581,-20.4841,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 chr03 533835 . CG CA,TA 24829.6 PASS AB=0.5,0.4975;ABP=3.0103,3.05373;AC=26,16;AF=0.619048,0.380952;AN=42;AO=748,458;CIGAR=1M1X,2X;DP=1208;DPB=1208;DPRA=1.06852,1.50433;EPP=1627.27,997.545;EPPR=0;GTI=0;LEN=1,2;MEANALT=2,2.05263;MQM=59.9586,59.8428;MQMR=0;NS=21;NUMALT=2;ODDS=16.4411;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26702,16052;QR=0;RO=0;RPL=0,0;RPP=1627.27,997.545;RPPR=0;RPR=748,458;RUN=1,1;SAF=0,0;SAP=1627.27,997.545;SAR=748,458;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,29,25:0:0:29,25:1040,878:-156.639,-71.8091,-63.0793,-85.1845,0,-77.6587 1/2:35:0,18,17:0:0:18,17:629,606:-100.916,-49.7539,-44.3354,-51.5152,0,-46.3977 1/2:111:0,42,69:0:0:42,69:1499,2411:-318.683,-196.476,-183.833,-122.561,0,-101.789 1/1:43:0,42,1:0:0:42,1:1490,25:-134.141,-12.6433,0,-132.194,-10.4444,-131.893 1/1:84:0,82,2:0:0:82,2:2930,70:-263.583,-24.6845,0,-257.888,-18.6392,-257.286 1/1:70:0,68,2:0:0:68,2:2423,72:-217.966,-20.47,0,-212.091,-14.2354,-211.489 1/2:64:0,34,30:0:0:34,30:1212,1049:-184.485,-85.6867,-75.4516,-99.1513,0,-90.1204 2/2:54:0,0,54:0:0:0,54:0,1920:-173.078,-173.078,-173.078,-16.2556,-16.2556,0 1/2:108:0,63,45:0:0:63,45:2248,1576:-311.845,-128.582,-109.617,-183.615,0,-170.069 1/2:19:0,9,10:0:0:9,10:324,360:-56.1698,-29.7331,-27.0238,-26.7966,0,-23.7863 1/2:10:0,5,5:0:0:5,5:176,176:-29.0081,-14.6801,-13.1749,-14.6799,0,-13.1747 1/2:32:0,17,15:0:0:17,15:612,515:-91.8761,-41.9303,-36.8128,-50.2959,0,-45.7805 1/2:34:0,19,15:0:0:19,15:684,514:-97.888,-42.0674,-36.3478,-56.1708,0,-51.6553 1/2:71:0,30,41:0:0:30,41:1080,1434:-205.139,-117.012,-107.981,-88.4823,0,-76.1401 1/2:123:0,57,65:0:0:57,65:2052,2276:-352.696,-185.258,-168.1,-167.56,0,-147.993 1/2:44:0,21,23:0:0:21,23:743,811:-126.891,-66.3862,-60.0646,-60.8579,0,-53.9342 1/1:43:0,43,0:0:0:43,0:1540,0:-138.893,-12.9443,0,-138.893,-12.9443,-138.893 1/2:62:0,33,28:0:0:33,28:1188,989:-177.471,-80.533,-70.599,-96.9353,0,-88.5064 1/2:33:0,23,10:0:0:23,10:806,345:-93.9596,-28.3716,-21.4479,-65.9345,0,-62.9242 1/1:78:0,77,1:0:0:77,1:2747,25:-247.203,-23.1793,0,-245.256,-20.9805,-244.955 1/1:36:0,36,0:0:0:36,0:1279,0:-115.412,-10.8371,0,-115.412,-10.8371,-115.412 chr03 535216 . G A 4002.71 PASS AB=0.540761;ABP=8.32097;AC=17;AF=0.404762;AN=42;AO=230;CIGAR=1X;DP=570;DPB=570;DPRA=0.933333;EPP=493.801;EPPR=708.971;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.7478;MQMR=59.9881;NS=21;NUMALT=1;ODDS=3.00374;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8152;QR=12060;RO=337;RPL=1;RPP=493.801;RPPR=708.971;RPR=229;RUN=1;SAF=230;SAP=502.449;SAR=0;SRF=337;SRP=734.797;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:14:11,3:11:396:3:108:-5.86075,0,-31.7683 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/1:20:7,11:7:252:11:391:-29.722,0,-17.2506 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0802 0/1:41:15,26:15:528:26:924:-71.124,0,-35.5091 1/1:26:0,26:0:0:26:928:-83.8383,-7.82678,0 0/1:47:19,28:19:680:28:996:-75.8065,0,-47.3808 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:26:6,19:6:216:19:680:-53.6807,0,-11.9391 0/1:74:37,37:37:1324:37:1290:-94.1205,0,-97.1859 0/1:27:10,17:10:356:17:608:-46.9195,0,-24.2534 0/1:33:17,16:17:612:16:562:-40.9724,0,-45.4794 0/1:13:4,9:4:144:9:305:-23.8638,0,-9.40023 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:38:18,20:18:636:20:716:-53.3286,0,-46.1289 0/1:20:10,10:10:356:10:360:-26.7237,0,-26.3606 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 chr03 557811 . AGCAC AGCAG 9043.22 PASS AB=0.595668;ABP=47.0512;AC=26;AF=0.619048;AN=42;AO=692;CIGAR=4M1X;DP=954;DPB=954.4;DPRA=1.44063;EPP=1505.67;EPPR=558.907;GTI=1;LEN=1;MEANALT=1.2;MQM=28.948;MQMR=59.9883;NS=21;NUMALT=1;ODDS=2.6617;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=24641;QR=9038;RO=256;RPL=0;RPP=1505.67;RPPR=558.907;RPR=692;RUN=1;SAF=692;SAP=1505.67;SAR=0;SRF=256;SRP=558.907;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:23,31:23:810:31:1101:-62.2491,0,-56.6959 0/1:27:11,16:11:391:16:576:-28.552,0,-27.4018 0/1:46:25,21:25:889:21:741:-40.5326,0,-66.4816 1/1:35:0,34:0:0:34:1197:-87.4561,-10.235,0 1/1:131:3,128:3:108:128:4554:-321.991,-29.4398,0 1/1:50:0,49:0:0:49:1741:-111.509,-14.7505,0 0/1:50:13,37:13:459:37:1328:-69.6216,0,-26.5935 0/0:32:32,0:32:1131:0:0:0,-9.63296,-102.097 0/1:73:26,47:26:931:47:1677:-104.361,0,-62.1334 0/1:10:3,7:3:107:7:248:-14.1806,0,-6.97187 0/1:8:6,2:6:203:2:72:-2.4533,0,-16.1935 0/1:32:14,15:14:500:15:525:-27.5894,0,-36.3453 0/1:52:24,28:24:832:28:963:-55.3596,0,-59.5414 0/1:48:21,27:21:717:27:972:-55.4899,0,-50.3975 0/1:55:24,31:24:863:31:1101:-63.9495,0,-61.4358 0/1:17:6,11:6:211:11:396:-24.4595,0,-14.2157 1/1:62:0,62:0:0:62:2220:-164.856,-18.6639,0 0/1:47:17,30:17:604:30:1065:-58.4496,0,-40.5422 0/1:34:7,27:7:246:27:968:-60.1874,0,-12.2465 1/1:66:1,65:1:36:65:2336:-155.284,-16.2697,0 1/1:24:0,24:0:0:24:860:-54.9712,-7.22472,0 chr03 560738 . G A 31610.3 PASS AB=0.48021;ABP=8.85482;AC=26;AF=0.619048;AN=42;AO=1493;CIGAR=1X;DP=2486;DPB=2486;DPRA=1.28656;EPP=2618.49;EPPR=1945.44;GTI=0;LEN=1;MEANALT=1.05;MQM=59.3952;MQMR=59.9123;NS=21;NUMALT=1;ODDS=21.295;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53422;QR=35495;RO=992;RPL=1489;RPP=3210.37;RPPR=2131.13;RPR=4;RUN=1;SAF=72;SAP=2649.79;SAR=1421;SRF=22;SRP=1970.26;SRR=970;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:23,39:23:820:39:1392:-106.778,0,-55.4447 0/1:82:42,40:42:1512:40:1424:-103.773,0,-111.686 0/1:198:102,96:102:3632:96:3434:-249.666,0,-267.48 1/1:139:0,139:0:0:139:4971:-447.269,-41.8432,0 1/1:258:3,255:3:104:255:9111:-810.023,-67.9639,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 0/1:204:104,100:104:3723:100:3588:-261.716,0,-273.86 0/0:93:93,0:93:3323:0:0:0,-27.9958,-299.288 0/1:237:105,132:105:3756:132:4733:-354.782,0,-266.896 0/1:23:13,10:13:468:10:356:-25.4576,0,-35.536 0/1:13:5,8:5:176:8:288:-22.354,0,-12.2716 0/1:21:12,9:12:428:9:324:-23.1842,0,-32.5372 0/1:159:94,65:94:3376:65:2336:-162.635,0,-256.191 0/1:145:78,67:78:2766:67:2368:-169.726,0,-205.532 0/1:200:125,75:125:4496:75:2688:-181.946,0,-344.571 0/1:98:46,51:46:1652:51:1816:-133.191,0,-119.397 1/1:59:1,58:1:36:58:2072:-182.591,-14.1625,0 0/1:223:116,107:116:4147:107:3843:-278.887,0,-306.284 0/1:53:27,26:27:972:26:927:-67.7928,0,-71.8433 1/1:111:3,108:3:108:108:3863:-337.789,-23.3392,0 1/1:77:0,77:0:0:77:2772:-249.719,-23.1793,0 chr03 619500 . CA TG 9527.25 PASS AB=0.498969;ABP=3.01925;AC=16;AF=0.380952;AN=42;AO=570;CIGAR=2X;DP=1552;DPB=1552;DPRA=1.11721;EPP=1240.75;EPPR=2133.22;GTI=1;LEN=2;MEANALT=1.05882;MQM=59.8474;MQMR=59.9694;NS=21;NUMALT=1;ODDS=3.4908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19951;QR=34157;RO=981;RPL=0;RPP=1240.75;RPPR=2133.22;RPR=570;RUN=1;SAF=0;SAP=1240.75;SAR=570;SRF=0;SRP=2133.22;SRR=981;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:38,35:38:1316:35:1237:-89.6588,0,-96.7595 0/1:71:36,35:36:1241:35:1229:-89.5386,0,-90.6138 0/1:74:39,35:39:1364:35:1236:-89.2681,0,-100.778 0/0:74:74,0:74:2579:0:0:0,-22.2762,-232.358 0/0:156:154,2:154:5279:2:72:0,-40.124,-468.417 0/0:94:94,0:94:3289:0:0:0,-28.2968,-296.228 0/1:116:63,53:63:2189:53:1851:-131.947,0,-162.352 1/1:80:0,80:0:0:80:2789:-251.218,-24.0824,0 0/1:97:55,42:55:1926:42:1464:-102.851,0,-144.412 0/1:10:7,3:7:243:3:108:-7.06487,0,-19.1972 0/1:8:7,1:7:248:1:36:-1.19004,0,-20.2562 0/1:32:13,19:13:461:19:655:-49.6366,0,-32.1929 0/1:99:50,49:50:1724:49:1687:-122.307,0,-125.637 0/1:49:22,27:22:782:27:952:-71.016,0,-55.9525 0/1:178:69,108:69:2414:108:3790:-287.551,0,-163.872 0/1:46:28,18:28:978:18:608:-41.1878,0,-74.4832 0/0:71:71,0:71:2481:0:0:0,-21.3731,-223.542 0/1:58:20,38:20:703:38:1347:-104.07,0,-46.1337 0/1:59:38,21:38:1341:21:746:-49.7041,0,-103.228 0/0:76:72,4:72:2518:4:144:0,-9.56466,-213.554 0/0:31:31,0:31:1081:0:0:0,-9.33193,-97.584 chr03 619515 . C T 19423.6 PASS AB=0.507756;ABP=3.51555;AC=26;AF=0.619048;AN=42;AO=982;CIGAR=1X;DP=1547;DPB=1547;DPRA=0.893293;EPP=2118.06;EPPR=1229.89;GTI=1;LEN=1;MEANALT=1;MQM=59.9196;MQMR=59.9398;NS=21;NUMALT=1;ODDS=3.90832;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34951;QR=20043;RO=565;RPL=2;RPP=2118.06;RPPR=1229.89;RPR=980;RUN=1;SAF=0;SAP=2135.4;SAR=982;SRF=0;SRP=1229.89;SRR=565;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:36,38:36:1292:38:1341:-98.7118,0,-94.3075 0/1:71:35,36:35:1248:36:1284:-94.4903,0,-91.2517 0/1:74:35,39:35:1256:39:1388:-102.943,0,-91.0691 1/1:72:0,72:0:0:72:2557:-230.38,-21.6742,0 1/1:154:2,152:2:72:152:5417:-480.822,-39.5219,0 1/1:94:0,94:0:0:94:3368:-303.336,-28.2968,0 0/1:112:51,61:51:1809:61:2172:-162.031,0,-129.374 0/0:82:82,0:82:2881:0:0:0,-24.6845,-259.521 0/1:98:41,57:41:1445:57:2004:-151.095,0,-100.841 0/1:11:3,8:3:104:8:288:-22.9561,0,-6.39148 0/1:8:1,7:1:36:7:243:-19.7992,0,-1.19003 0/1:32:19,13:19:680:13:464:-32.4645,0,-51.8962 0/1:97:48,49:48:1720:49:1732:-126.964,0,-125.88 0/1:47:24,23:24:856:23:824:-60.3334,0,-63.2127 0/1:179:106,73:106:3743:73:2605:-180.495,0,-283.185 0/1:46:18,28:18:633:28:993:-75.8367,0,-43.4477 1/1:70:0,70:0:0:70:2492:-224.534,-21.0721,0 0/1:60:38,22:38:1351:22:779:-52.3709,0,-103.828 0/1:58:21,37:21:752:37:1328:-102.362,0,-50.5465 1/1:77:5,72:5:165:72:2564:-215.837,-8.00571,0 1/1:31:0,31:0:0:31:1108:-99.8407,-9.33193,0 chr03 619614 . CGAC TGAC,TGAT 70261 PASS AB=0.51611,0.476274;ABP=6.8584,11.3565;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1680,947;CIGAR=1X3M,1X2M1X;DP=2643;DPB=2643.75;DPRA=1.0072,1.18872;EPP=3651.08,2059.39;EPPR=7.35324;GTI=0;LEN=1,4;MEANALT=2.55,2.61111;MQM=59.9583,59.5639;MQMR=60;NS=21;NUMALT=2;ODDS=2.52068;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=0;QA=59968,33314;QR=72;RO=2;RPL=874,467;RPP=8.98702,3.39782;RPPR=7.35324;RPR=806,480;RUN=1,1;SAF=874,467;SAP=8.98702,3.39782;SAR=806,480;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:183:0,98,82:0:0:98,82:3516,2891:-522.216,-235.422,-205.921,-286.853,0,-262.169 1/2:61:0,39,21:0:0:39,21:1381,735:-172.362,-59.8669,-48.1268,-112.563,0,-106.241 1/2:91:0,36,54:0:0:36,54:1296,1879:-258.53,-152.778,-141.941,-105.757,0,-89.5013 1/1:147:0,146,0:0:0:146,0:5225,0:-470.136,-43.9504,0,-470.136,-43.9504,-470.136 1/1:229:0,224,5:0:0:224,5:7977,180:-717.596,-67.4307,0,-702.909,-52.3838,-701.404 1/1:89:0,87,2:0:0:87,2:3094,72:-278.298,-26.1896,0,-272.423,-19.9549,-271.821 1/2:188:0,98,89:0:0:98,89:3486,3157:-540.941,-256.845,-227.344,-284.16,0,-257.368 2/2:125:0,0,125:0:0:0,125:0,4387:-394.975,-394.975,-394.975,-37.6288,-37.6288,0 1/2:235:0,115,119:0:0:115,119:4096,4176:-673.608,-339.754,-305.136,-333.995,0,-298.173 1/2:8:0,6,2:0:0:6,2:212,72:-23.4951,-6.23466,-4.42848,-17.6186,0,-17.0166 1/2:8:0,5,3:0:0:5,3:180,108:-23.8592,-9.17208,-7.66693,-15.0469,0,-14.1438 1/2:48:2,18,28:2:72:18,28:648,980:-126.123,-73.8481,-74.305,-46.9987,0,-44.4447 1/2:143:0,67,76:0:0:67,76:2400,2679:-414.061,-218.337,-198.168,-196.02,0,-173.142 1/2:194:0,101,92:0:0:101,92:3615,3217:-556.431,-261.634,-231.23,-294.731,0,-267.037 1/2:221:0,120,100:0:0:120,100:4303,3544:-639.76,-288.794,-252.67,-351.081,0,-320.978 1/2:63:0,29,32:0:0:29,32:1040,1134:-177.258,-92.4276,-83.6977,-84.9041,0,-75.2712 1/1:74:0,74,0:0:0:74,0:2639,0:-237.757,-22.2762,0,-237.757,-22.2762,-237.757 1/2:140:0,71,69:0:0:71,69:2536,2423:-404.172,-197.408,-176.035,-207.118,0,-186.347 1/2:124:0,78,46:0:0:78,46:2795,1620:-360.194,-132.239,-108.759,-228.309,0,-214.462 1/1:168:0,165,2:0:0:165,2:5860,60:-527.09,-49.67,0,-522.294,-44.8604,-521.692 1/1:104:0,103,0:0:0:103,0:3669,0:-330.132,-31.0061,0,-330.132,-31.0061,-330.132 chr03 622028 . GGAT AGAC,AGAT 35688.5 PASS AB=0.485965,0.513158;ABP=4.96082,4.72462;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1054,664;CIGAR=1X2M1X,1X3M;DP=1724;DPB=1724.25;DPRA=1.05513,1.26279;EPP=2291.74,1444.87;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.95,2.0625;MQM=59.7865,59.9127;MQMR=0;NS=21;NUMALT=2;ODDS=9.30239;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=37191,23808;QR=0;RO=0;RPL=0,0;RPP=2291.74,1444.87;RPPR=0;RPR=1054,664;RUN=1,1;SAF=1054,664;SAP=2291.74,1444.87;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:117:0,57,60:0:0:57,60:1995,2148:-337.831,-175.525,-158.367,-162.66,0,-144.598 1/2:87:0,37,50:0:0:37,50:1298,1800:-252.767,-147.231,-136.093,-105.891,0,-90.8394 1/2:60:0,29,31:0:0:29,31:1028,1112:-174.804,-91.0594,-82.3295,-84.1012,0,-74.7692 1/1:83:0,83,0:0:0:83,0:2920,0:-263.033,-24.9855,0,-263.033,-24.9855,-263.033 1/1:164:0,161,1:0:0:161,1:5686,36:-511.484,-48.4658,0,-508.547,-45.5084,-508.246 1/1:104:0,103,0:0:0:103,0:3625,0:-326.119,-31.0061,0,-326.119,-31.0061,-326.119 1/2:133:0,75,58:0:0:75,58:2654,2084:-386.518,-170.37,-147.793,-216.504,0,-199.044 2/2:78:0,0,78:0:0:0,78:0,2808:-252.941,-252.941,-252.941,-23.4803,-23.4803,0 1/2:159:0,66,93:0:0:66,93:2332,3324:-461.014,-271.102,-251.234,-190.267,0,-162.271 1/2:20:0,8,12:0:0:8,12:270,417:-56.1258,-34.2479,-31.8396,-22.2193,0,-18.607 1/2:10:0,7,3:0:0:7,3:245,108:-29.0987,-9.17208,-7.06487,-20.2835,0,-19.3804 1/2:32:0,18,14:0:0:18,14:632,496:-92.1946,-40.7598,-35.3413,-51.7875,0,-47.5731 1/2:115:0,50,65:0:0:50,65:1774,2331:-335.018,-190.483,-175.431,-144.891,0,-125.324 1/2:78:0,34,44:0:0:34,44:1183,1584:-225.77,-129.606,-119.371,-96.5168,0,-83.2715 1/2:123:0,67,56:0:0:67,56:2379,2004:-357.614,-163.776,-143.607,-194.194,0,-177.337 1/2:45:0,16,29:0:0:16,29:568,1040:-131.464,-85.1845,-80.368,-46.6354,0,-37.9055 1/1:88:0,86,0:0:0:86,0:3017,0:-271.402,-25.8886,0,-271.402,-25.8886,-271.402 1/2:100:0,49,50:0:0:49,50:1735,1796:-287.835,-146.511,-131.761,-141.32,0,-126.269 1/2:61:0,41,20:0:0:41,20:1461,720:-178.191,-59.1082,-46.7659,-119.441,0,-113.421 1/1:30:0,30,0:0:0:30,0:1070,0:-96.6109,-9.0309,0,-96.6109,-9.0309,-96.6109 1/1:37:0,37,0:0:0:37,0:1319,0:-119,-11.1381,0,-119,-11.1381,-119 chr03 626979 . A G 10343.7 PASS AB=0.452679;ABP=24.7948;AC=16;AF=0.380952;AN=42;AO=545;CIGAR=1X;DP=1824;DPB=1824;DPRA=0.697698;EPP=722.684;EPPR=1688.56;GTI=1;LEN=1;MEANALT=1.05882;MQM=57.9046;MQMR=59.5618;NS=21;NUMALT=1;ODDS=4.2663;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19529;QR=45697;RO=1278;RPL=485;RPP=722.684;RPPR=1688.56;RPR=60;RUN=1;SAF=545;SAP=1186.46;SAR=0;SRF=1278;SRP=2778.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:48,25:48:1701:25:900:-59.0664,0,-131.348 0/1:105:52,53:52:1834:53:1896:-135.7,0,-133.588 0/1:67:37,30:37:1332:30:1061:-75.6304,0,-100.012 0/0:134:134,0:134:4811:0:0:0,-40.338,-433.133 0/0:169:164,5:164:5865:5:180:0,-34.322,-511.111 0/0:43:42,1:42:1497:1:36:0,-9.34601,-131.367 0/1:134:91,43:91:3264:43:1548:-97.184,0,-253.601 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 0/1:115:53,62:53:1881:62:2232:-166.435,0,-134.948 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:23:11,12:11:396:12:432:-32.2975,0,-29.0591 0/1:92:55,37:55:1960:37:1332:-92.4179,0,-148.981 0/1:51:15,35:15:540:35:1248:-97.2136,0,-33.5237 0/1:117:60,57:60:2152:57:2052:-149.661,0,-158.694 0/1:105:55,50:55:1972:50:1784:-127.854,0,-146.111 0/0:136:136,0:136:4854:0:0:0,-40.9401,-436.986 0/1:116:61,55:61:2192:55:1952:-141.034,0,-162.626 0/1:107:66,41:66:2357:41:1476:-100.926,0,-180.177 0/0:96:96,0:96:3429:0:0:0,-28.8989,-308.822 0/0:94:94,0:94:3372:0:0:0,-28.2968,-303.695 chr03 682504 . T C 8334.04 PASS AB=0.605572;ABP=69.0332;AC=16;AF=0.380952;AN=42;AO=466;CIGAR=1X;DP=999;DPB=999;DPRA=1.10027;EPP=1014.92;EPPR=1160.41;GTI=1;LEN=1;MEANALT=1;MQM=52.573;MQMR=59.5572;NS=21;NUMALT=1;ODDS=3.07048;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16656;QR=19076;RO=533;RPL=466;RPP=1014.92;RPPR=1160.41;RPR=0;RUN=1;SAF=0;SAP=1014.92;SAR=466;SRF=0;SRP=1160.41;SRR=533;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:41,56:41:1461:56:1997:-150.229,0,-101.761 0/1:39:19,20:19:680:20:720:-53.0355,0,-49.789 0/1:38:9,29:9:324:29:1040:-82.219,0,-18.0667 0/0:33:32,1:32:1152:1:36:0,-6.34082,-100.389 0/0:85:85,0:85:3052:0:0:0,-25.5875,-274.887 0/0:33:33,0:33:1169:0:0:0,-9.93399,-105.475 0/1:83:40,43:40:1417:43:1533:-112.183,0,-102.839 1/1:50:0,50:0:0:50:1781:-159.371,-15.0515,0 0/1:86:23,63:23:824:63:2264:-177.577,0,-48.5947 0/1:10:3,7:3:108:7:252:-19.9608,0,-7.06487 0/1:6:2,4:2:72:4:144:-11.4353,0,-5.03054 0/1:12:8,4:8:288:4:144:-9.65811,0,-22.655 0/1:40:19,21:19:684:21:756:-56.2291,0,-49.8491 0/1:72:30,42:30:1080:42:1497:-113.159,0,-75.8345 0/1:96:34,62:34:1220:62:2209:-169.634,0,-81.0513 0/1:39:14,25:14:504:25:900:-69.3082,0,-33.9579 0/0:58:56,2:56:2008:2:72:0,-10.6279,-174.148 0/1:38:15,23:15:525:23:811:-61.567,0,-36.1389 0/1:26:12,14:12:432:14:500:-37.4295,0,-31.3944 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.903 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5115 chr03 729032 . CT AC,CC 61070.8 PASS AB=0.546784,0.450877;ABP=35.5189,38.851;AC=26,16;AF=0.619048,0.380952;AN=42;AO=2063,923;CIGAR=2X,1M1X;DP=2993;DPB=2993;DPRA=0.961149,0.944321;EPP=4456.74,2007.28;EPPR=0;GTI=1;LEN=2,1;MEANALT=2.2,2.22222;MQM=59.9147,59.9989;MQMR=0;NS=21;NUMALT=2;ODDS=8.80716;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71011,32832;QR=0;RO=0;RPL=2060,923;RPP=4456.74,2007.28;RPPR=0;RPR=3,0;RUN=1,1;SAF=2063,923;SAP=4482.76,2007.28;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:168:0,87,81:0:0:87,81:3074,2894:-486.643,-236.312,-210.122,-250.687,0,-226.303 1/2:109:0,68,41:0:0:68,41:2209,1468:-298.326,-120.074,-99.6038,-178.597,0,-166.255 1/2:107:0,61,46:0:0:61,46:2072,1632:-301.353,-133.32,-114.957,-168.381,0,-154.534 1/1:222:0,221,0:0:0:221,0:7553,0:-679.47,-66.5276,0,-679.47,-66.5276,-679.47 1/1:359:0,358,1:0:0:358,1:12262,28:-1103.08,-107.769,0,-1100.86,-105.27,-1100.56 1/1:155:0,153,2:0:0:153,2:5275,68:-474.546,-46.0576,0,-469.03,-40.2019,-468.428 1/2:149:0,69,79:0:0:69,79:2434,2789:-425.3,-227.109,-206.338,-198.184,0,-174.403 2/2:148:0,0,148:0:0:0,148:0,5270:-474.438,-474.438,-474.438,-44.5524,-44.5524,0 1/2:264:0,137,126:0:0:137,126:4749,4509:-753.665,-367.687,-326.446,-385.971,0,-348.041 1/2:15:0,7,8:0:0:7,8:252,284:-44.0594,-23.4951,-21.3879,-20.9217,0,-18.5135 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/2:31:0,17,14:0:0:17,14:571,482:-85.7387,-39.4916,-34.3741,-46.5874,0,-42.373 1/2:211:0,126,85:0:0:126,85:4327,3029:-598.569,-247.252,-209.322,-351.669,0,-326.081 1/2:131:0,66,65:0:0:66,65:2311,2294:-375.182,-187.153,-167.285,-188.38,0,-168.813 1/2:187:0,96,91:0:0:96,91:3365,3239:-538.154,-264.339,-235.44,-274.169,0,-246.775 1/2:123:0,76,46:0:0:76,46:2677,1639:-351.677,-133.737,-110.859,-218.081,0,-204.233 1/1:143:0,142,0:0:0:142,0:4938,0:-444.325,-42.7463,0,-444.325,-42.7463,-444.325 1/2:115:0,55,59:0:0:55,59:1895,2103:-325.332,-171.418,-154.862,-153.904,0,-136.143 1/2:94:0,67,27:0:0:67,27:2305,960:-265.774,-78.5885,-58.4195,-187.537,0,-179.41 1/1:172:0,170,1:0:0:170,1:5769,36:-518.962,-51.1751,0,-516.025,-48.2177,-515.724 1/1:84:0,84,0:0:0:84,0:2865,0:-257.768,-25.2865,0,-257.768,-25.2865,-257.768 chr03 741389 . A G 35431.2 PASS AB=0.572055;ABP=74.9845;AC=26;AF=0.619048;AN=42;AO=1758;CIGAR=1X;DP=2650;DPB=2650;DPRA=0.596341;EPP=3820.46;EPPR=1939.96;GTI=0;LEN=1;MEANALT=1;MQM=59.9306;MQMR=59.9922;NS=21;NUMALT=1;ODDS=8.55905;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62776;QR=31940;RO=892;RPL=0;RPP=3820.46;RPPR=1939.96;RPR=1758;RUN=1;SAF=1758;SAP=3820.46;SAR=0;SRF=892;SRP=1939.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:26,52:26:928:52:1860:-144.199,0,-60.3579 0/1:82:35,47:35:1256:47:1672:-126.083,0,-88.6608 0/1:119:61,58:61:2188:58:2061:-149.937,0,-161.363 1/1:172:0,172:0:0:172:6141:-552.79,-51.7772,0 1/1:256:2,254:2:72:254:9066:-809.08,-70.227,0 1/1:121:0,121:0:0:121:4336:-390.415,-36.4246,0 0/1:219:120,99:120:4282:99:3556:-254.308,0,-319.63 0/0:205:205,0:205:7318:0:0:0,-61.7111,-658.669 0/1:220:92,128:92:3296:128:4543:-342.757,0,-230.632 0/1:10:7,3:7:252:3:104:-6.69251,0,-20.0187 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:62:28,34:28:1000:34:1209:-90.4503,0,-71.6515 0/1:139:36,103:36:1292:103:3673:-288.928,0,-74.7406 0/1:145:58,87:58:2084:87:3120:-237.377,0,-144.181 0/1:188:84,104:84:3020:104:3725:-278.855,0,-215.432 0/1:110:55,55:55:1968:55:1949:-142.523,0,-144.281 1/1:96:1,95:1:36:95:3397:-302.274,-25.3006,0 0/1:141:56,85:56:2012:85:3041:-231.468,0,-138.908 0/1:73:20,53:20:720:53:1908:-150.022,0,-43.1536 1/1:150:1,149:1:36:149:5295:-473.077,-41.5562,0 1/1:54:0,54:0:0:54:1940:-174.874,-16.2556,0 chr03 741416 . 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T C 22172.6 PASS AB=0.527757;ABP=12.0514;AC=26;AF=0.619048;AN=42;AO=1145;CIGAR=1X;DP=1932;DPB=1932;DPRA=0;EPP=2480.67;EPPR=1632.51;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.3747;MQMR=59.757;NS=21;NUMALT=1;ODDS=10.2743;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40906;QR=28207;RO=786;RPL=1144;RPP=2480.67;RPPR=1632.51;RPR=1;RUN=1;SAF=0;SAP=2489.35;SAR=1145;SRF=0;SRP=1709.79;SRR=786;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:54,28:54:1944:28:995:-65.1454,0,-150.543 0/1:49:20,29:20:720:29:1020:-77.3137,0,-50.3701 0/1:146:75,71:75:2688:71:2544:-185.26,0,-198.198 1/1:85:0,85:0:0:85:3048:-274.372,-25.5876,0 1/1:68:0,68:0:0:68:2424:-218.416,-20.47,0 1/1:81:0,81:0:0:81:2894:-260.503,-24.3834,0 0/1:130:65,64:65:2328:64:2288:-166.918,0,-170.551 0/0:149:148,1:148:5303:1:36:0,-41.2552,-473.795 0/1:176:88,88:88:3156:88:3131:-228.896,0,-231.259 0/1:17:6,11:6:216:11:387:-30.0478,0,-14.6699 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:65:30,35:30:1076:35:1244:-92.6949,0,-77.5859 0/1:114:67,47:67:2404:47:1684:-117.471,0,-182.072 0/1:103:52,51:52:1864:51:1812:-132.316,0,-136.988 0/1:150:65,85:65:2336:85:3032:-227.857,0,-165.32 0/1:18:5,13:5:180:13:468:-36.9911,0,-11.1335 1/1:54:0,54:0:0:54:1940:-174.819,-16.2556,0 0/1:156:65,91:65:2336:91:3268:-247.049,0,-163.506 0/1:139:43,96:43:1548:96:3444:-268.276,0,-97.7699 1/1:102:1,101:1:36:101:3591:-319.729,-27.1068,0 1/1:42:0,42:0:0:42:1512:-136.357,-12.6433,0 chr03 846628 . C T 16145.9 PASS AB=0.4868;ABP=5.36075;AC=17;AF=0.404762;AN=42;AO=915;CIGAR=1X;DP=2469;DPB=2469;DPRA=1.53587;EPP=1989.91;EPPR=3375.31;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.9738;MQMR=59.9942;NS=21;NUMALT=1;ODDS=2.93117;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32713;QR=55381;RO=1553;RPL=0;RPP=1989.91;RPPR=3375.31;RPR=915;RUN=1;SAF=0;SAP=1989.91;SAR=915;SRF=0;SRP=3375.31;SRR=1553;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:178:79,99:79:2814:99:3529:-264.235,0,-199.916 0/1:107:66,41:66:2347:41:1461:-99.5738,0,-179.279 0/1:91:55,36:55:1960:36:1296:-89.5502,0,-149.282 0/0:102:102,0:102:3588:0:0:0,-30.7051,-323.127 0/0:286:282,4:282:10093:4:144:0,-72.781,-894.985 0/0:77:77,0:77:2743:0:0:0,-23.1793,-247.113 0/1:148:75,73:75:2663:73:2620:-191.495,0,-195.361 1/1:149:0,149:0:0:149:5332:-480.014,-44.8535,0 0/1:174:79,95:79:2816:95:3393:-253.205,0,-201.298 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:35:23,12:23:804:12:428:-28.3228,0,-62.1405 0/1:86:44,42:44:1576:42:1500:-109.405,0,-116.243 0/1:122:81,41:81:2885:41:1472:-96.0505,0,-223.16 0/1:373:168,205:168:6011:205:7319:-546.345,0,-428.811 0/1:84:47,37:47:1692:37:1320:-93.8154,0,-127.28 0/0:148:146,1:146:5227:1:36:0,-41.013,-466.969 0/1:86:33,53:33:1179:53:1895:-144.939,0,-80.5286 0/1:49:36,13:36:1277:13:468:-27.7092,0,-100.481 0/0:100:100,0:100:3568:0:0:0,-30.103,-321.326 0/0:49:49,0:49:1742:0:0:0,-14.7505,-157.063 chr03 846651 . C T 29756.3 PASS AB=0.509409;ABP=4.19538;AC=25;AF=0.595238;AN=42;AO=1519;CIGAR=1X;DP=2435;DPB=2435;DPRA=1.55913;EPP=3249.57;EPPR=1974.75;GTI=0;LEN=1;MEANALT=1;MQM=59.9862;MQMR=59.9956;NS=21;NUMALT=1;ODDS=4.26467;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53517;QR=32768;RO=916;RPL=6;RPP=3249.57;RPPR=1974.75;RPR=1513;RUN=1;SAF=0;SAP=3301.48;SAR=1519;SRF=0;SRP=1992.08;SRR=916;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:105,71:105:3733:71:2507:-172.902,0,-283.187 0/1:105:39,66:39:1400:66:2332:-178.533,0,-94.691 0/1:94:37,57:37:1332:57:1999:-151.881,0,-91.8856 1/1:97:0,97:0:0:97:3419:-307.928,-29.1999,0 1/1:273:4,269:4:144:269:9453:-837.435,-68.8676,0 1/1:77:0,77:0:0:77:2717:-244.774,-23.1793,0 0/1:148:72,76:72:2580:76:2675:-196.444,0,-187.897 0/0:149:149,0:149:5336:0:0:0,-44.8535,-480.373 0/1:170:93,77:93:3326:77:2701:-192.161,0,-248.382 0/1:21:9,12:9:311:12:423:-32.0828,0,-22.0021 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:35:12,23:12:432:23:812:-62.8649,0,-28.6851 0/1:85:42,43:42:1508:43:1495:-109.254,0,-110.427 0/1:127:41,86:41:1472:86:3007:-232.635,0,-94.5453 0/1:364:203,161:203:7247:161:5665:-400.405,0,-542.705 0/1:81:36,45:36:1292:45:1576:-117.747,0,-92.2003 1/1:148:1,147:1:36:147:5244:-468.501,-40.9542,0 0/1:86:53,33:53:1899:33:1172:-79.8989,0,-145.299 0/1:49:14,35:14:504:35:1256:-98.5948,0,-30.9476 1/1:96:0,96:0:0:96:3364:-302.979,-28.8989,0 1/1:49:1,48:1:36:48:1700:-149.688,-11.1522,0 chr03 846660 . C T 16557.7 PASS AB=0.498062;ABP=3.0608;AC=17;AF=0.404762;AN=42;AO=930;CIGAR=1X;DP=2460;DPB=2460;DPRA=1.31348;EPP=2022.48;EPPR=3305.84;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9656;MQMR=59.9974;NS=21;NUMALT=1;ODDS=4.72121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33319;QR=54666;RO=1529;RPL=930;RPP=2022.48;RPPR=3305.84;RPR=0;RUN=1;SAF=0;SAP=2022.48;SAR=930;SRF=0;SRP=3323.19;SRR=1529;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:183:75,108:75:2658:108:3880:-294.304,0,-184.375 0/1:104:66,38:66:2367:38:1368:-92.1137,0,-181.98 0/1:96:58,38:58:2065:38:1353:-93.1695,0,-157.22 0/0:102:102,0:102:3636:0:0:0,-30.7051,-327.446 0/0:283:279,4:279:9958:4:144:0,-71.8779,-882.846 0/0:77:77,0:77:2755:0:0:0,-23.1793,-248.191 0/1:142:69,73:69:2476:73:2628:-194.02,0,-180.347 1/1:148:0,148:0:0:148:5324:-479.283,-44.5524,0 0/1:172:76,96:76:2728:96:3430:-257.134,0,-193.985 0/1:21:11,10:11:392:10:360:-26.4227,0,-29.2984 1/1:5:0,5:0:0:5:172:-15.818,-1.50515,0 0/1:35:22,13:22:780:13:468:-31.9236,0,-59.987 0/1:86:44,42:44:1572:42:1508:-110.126,0,-115.883 0/1:120:77,43:77:2757:43:1529:-101.777,0,-212.246 0/1:370:164,206:164:5881:206:7349:-549.987,0,-418.016 0/1:83:46,37:46:1656:37:1328:-94.8367,0,-124.343 0/0:150:148,1:148:5292:1:36:0,-41.615,-472.818 0/1:87:33,54:33:1188:54:1938:-148.506,0,-81.039 0/1:49:36,13:36:1288:13:468:-27.7092,0,-101.473 0/0:98:98,0:98:3520:0:0:0,-29.5009,-317.009 0/0:49:48,1:48:1697:1:36:0,-11.1522,-149.416 chr03 1018894 . AG GA,AA 25428 PASS AB=0.431793,0.56708;ABP=38.8531,37.678;AC=25,17;AF=0.595238,0.404762;AN=42;AO=670,616;CIGAR=2X,1M1X;DP=1288;DPB=1288;DPRA=1.11617,1.40286;EPP=1338.84,20.2834;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.89474,1.94118;MQM=56.7,32.7305;MQMR=0;NS=21;NUMALT=2;ODDS=2.44496;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23842,22014;QR=0;RO=0;RPL=14,273;RPP=1338.84,20.2834;RPPR=0;RPR=656,343;RUN=1,1;SAF=670,616;SAP=1457.9,1340.64;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:52:0,20,32:0:0:20,32:691,1129:-117.347,-61.3937,-55.3731,-56.2592,0,-46.6262 1/2:44:0,18,26:0:0:18,26:646,936:-93.7845,-41.1956,-35.777,-52.8857,0,-45.0589 1/2:70:0,26,44:0:0:26,44:925,1580:-164.087,-88.7219,-80.8951,-75.6841,0,-62.4387 1/1:38:0,37,1:0:0:37,1:1297,36:-116.766,-11.1381,0,-115.281,-9.44981,-114.98 1/1:67:0,66,1:0:0:66,1:2359,36:-211.965,-19.868,0,-209.036,-16.5798,-208.735 1/1:80:0,79,0:0:0:79,0:2817,0:-252.84,-23.7814,0,-252.84,-23.7814,-252.84 1/2:80:0,33,47:0:0:33,47:1175,1688:-176.01,-81.4184,-71.4844,-94.8913,0,-80.7429 2/2:100:0,0,100:0:0:0,100:0,3573:-221.505,-221.505,-221.505,-30.103,-30.103,0 1/2:100:0,47,53:0:0:47,53:1663,1893:-261.265,-125.817,-111.668,-135.775,0,-119.821 2/2:11:0,0,11:0:0:0,11:0,392:-28.9678,-28.9678,-28.9678,-3.31133,-3.31133,0 1/2:6:0,2,4:0:0:2,4:72,144:-9.54297,-3.59825,-2.99619,-6.22762,0,-5.0235 1/2:12:0,3,9:0:0:3,9:108,320:-23.2957,-14.4504,-13.5474,-9.16729,0,-6.45802 1/2:93:0,54,39:0:0:54,39:1891,1385:-236.303,-82.5967,-66.341,-154.008,0,-142.268 1/2:63:0,19,44:0:0:19,44:684,1561:-154.774,-98.9918,-93.2722,-56.1185,0,-42.8731 1/2:98:0,42,56:0:0:42,56:1498,2012:-227.64,-106.072,-93.4292,-121.875,0,-105.017 1/2:49:0,21,28:0:0:21,28:746,989:-125.851,-65.0675,-58.7459,-61.1104,0,-52.6816 1/1:36:0,36,0:0:0:36,0:1286,0:-116.043,-10.8371,0,-116.043,-10.8371,-116.043 1/2:168:0,62,105:0:0:62,105:2228,3768:-413.429,-232.321,-213.657,-181.185,0,-149.577 1/2:52:0,36,16:0:0:36,16:1286,572:-139.579,-34.7853,-23.9482,-105.093,0,-100.277 1/1:34:0,34,0:0:0:34,0:1218,0:-109.67,-10.235,0,-109.67,-10.235,-109.67 1/1:35:0,35,0:0:0:35,0:1252,0:-111.4,-10.5361,0,-111.4,-10.5361,-111.4 chr03 1018910 . T C 15170.3 PASS AB=0.717766;ABP=408.736;AC=28;AF=0.666667;AN=42;AO=1000;CIGAR=1X;DP=1279;DPB=1279;DPRA=0;EPP=2054.58;EPPR=574.606;GTI=2;LEN=1;MEANALT=1;MQM=44.024;MQMR=50.1254;NS=21;NUMALT=1;ODDS=5.60467;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35613;QR=9921;RO=279;RPL=14;RPP=2054.58;RPPR=557.857;RPR=986;RUN=1;SAF=1000;SAP=2174.48;SAR=0;SRF=277;SRP=591.604;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:10,43:10:348:43:1538:-89.0678,0,-15.4823 0/1:44:11,33:11:396:33:1180:-62.2985,0,-18.3624 0/1:70:17,53:17:608:53:1883:-109.343,0,-33.8419 1/1:38:0,38:0:0:38:1355:-120.76,-11.4391,0 1/1:67:1,66:1:36:66:2332:-206.333,-16.5798,0 1/1:80:0,80:0:0:80:2856:-256.692,-24.0824,0 0/1:82:23,59:23:824:59:2107:-108.92,0,-49.163 0/1:100:38,62:38:1336:62:2214:-69.5261,0,-89.5055 0/1:97:29,68:29:1023:68:2406:-160.583,0,-63.0946 0/1:11:7,4:7:248:4:144:-3.3238,0,-19.2637 1/1:5:0,5:0:0:5:180:-10.1963,-1.50515,0 0/1:12:2,10:2:72:10:360:-17.1787,0,-3.19543 0/1:94:19,75:19:680:75:2688:-183.382,0,-31.8954 0/1:61:23,38:23:828:38:1360:-77.3842,0,-55.666 0/1:97:16,81:16:564:81:2896:-176.61,0,-21.2584 0/1:48:16,32:16:563:32:1148:-75.0903,0,-35.4717 1/1:36:0,36:0:0:36:1283:-115.772,-10.8371,0 0/1:164:60,104:60:2143:104:3700:-211.858,0,-142.515 0/1:52:7,45:7:252:45:1584:-116.743,0,-6.95032 1/1:33:0,33:0:0:33:1175:-105.841,-9.93399,0 1/1:35:0,35:0:0:35:1224:-110.056,-10.5361,0 chr03 1018921 . T C 1524.37 PASS AB=0.422956;ABP=35.8009;AC=17;AF=0.404762;AN=42;AO=335;CIGAR=1X;DP=986;DPB=986;DPRA=0.92495;EPP=465.106;EPPR=611.186;GTI=5;LEN=1;MEANALT=1;MQM=18.5881;MQMR=56.6667;NS=21;NUMALT=1;ODDS=2.32681;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11925;QR=23327;RO=651;RPL=301;RPP=465.106;RPPR=599.845;RPR=34;RUN=1;SAF=335;SAP=730.454;SAR=0;SRF=649;SRP=1399.32;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:19,21:19:680:21:747:-25.5176,0,-49.3901 0/1:35:20,15:20:716:15:536:-7.11309,0,-50.2649 0/1:53:25,28:25:896:28:989:-34.1796,0,-64.9502 0/0:36:35,1:35:1252:1:36:0,-8.84775,-110.965 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.659 0/0:81:81,0:81:2899:0:0:0,-24.3834,-260.569 0/1:59:33,26:33:1171:26:932:-12.5579,0,-87.0958 1/1:61:0,61:0:0:61:2175:-97.9392,-18.3628,0 0/1:64:42,22:42:1495:22:780:-23.4231,0,-115.577 1/1:4:0,4:0:0:4:144:-6.63513,-1.20412,0 0/1:6:2,4:2:72:4:144:-2.99619,0,-5.0235 0/1:10:3,7:3:108:7:252:-8.0138,0,-7.06008 0/1:73:51,22:51:1836:22:779:-17.2714,0,-142.202 0/1:39:19,20:19:680:20:712:-24.0661,0,-49.7369 0/1:84:43,41:43:1548:41:1455:-49.5342,0,-113.731 0/1:34:23,11:23:824:11:396:-11.5965,0,-62.1702 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/1:96:53,43:53:1899:43:1533:-39.7236,0,-141.87 0/1:43:34,9:34:1215:9:315:-4.59636,0,-96.6078 0/0:34:34,0:34:1220:0:0:0,-10.235,-109.888 0/0:34:34,0:34:1224:0:0:0,-10.235,-108.699 chr03 1018932 . G T 609.849 PASS AB=0.408875;ABP=48.5217;AC=17;AF=0.404762;AN=42;AO=324;CIGAR=1X;DP=978;DPB=978;DPRA=0.940061;EPP=706.567;EPPR=1397.22;GTI=6;LEN=1;MEANALT=1;MQM=18.3981;MQMR=56.6177;NS=21;NUMALT=1;ODDS=0.506809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11577;QR=23399;RO=654;RPL=324;RPP=706.567;RPPR=1414.48;RPR=0;RUN=1;SAF=324;SAP=706.567;SAR=0;SRF=652;SRP=1405.83;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:19,21:19:684:21:756:-25.5787,0,-49.2592 0/1:36:21,15:21:752:15:540:-6.81487,0,-53.2001 0/1:53:25,28:25:900:28:1004:-34.273,0,-65.3106 0/0:37:36,1:36:1296:1:36:0,-9.14878,-114.852 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.018 0/0:78:78,0:78:2782:0:0:0,-23.4803,-250.07 0/1:61:34,27:34:1216:27:955:-13.1085,0,-90.5546 1/1:62:1,61:1:27:61:2177:-96.0993,-16.827,0 0/1:67:46,21:46:1652:21:747:-20.6342,0,-128.767 1/1:4:0,4:0:0:4:144:-6.63513,-1.20412,0 0/1:6:2,4:2:72:4:144:-2.99619,0,-5.0235 0/1:10:3,7:3:108:7:252:-8.0138,0,-7.06008 0/1:71:52,19:52:1872:19:675:-12.7822,0,-146.042 0/1:37:19,18:19:680:18:644:-21.0963,0,-50.339 0/1:82:43,39:43:1544:39:1391:-45.1766,0,-113.963 0/1:34:23,11:23:820:11:396:-11.5965,0,-61.8094 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.223 0/1:91:51,40:51:1800:40:1428:-36.5108,0,-134.549 0/1:43:35,8:35:1238:8:288:-1.48859,0,-98.668 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.208 0/0:32:32,0:32:1144:0:0:0,-9.63296,-102.874 chr03 1018934 . A T 13416.6 PASS AB=0.589704;ABP=47.8117;AC=25;AF=0.595238;AN=42;AO=660;CIGAR=1X;DP=990;DPB=990;DPRA=12.325;EPP=1418.86;EPPR=719.596;GTI=5;LEN=1;MEANALT=1;MQM=56.5485;MQMR=18.4061;NS=21;NUMALT=1;ODDS=0.678798;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23592;QR=11835;RO=330;RPL=660;RPP=1436.18;RPPR=719.596;RPR=0;RUN=1;SAF=658;SAP=1418.86;SAR=2;SRF=330;SRP=719.596;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:20,20:20:720:20:707:-51.3245,0,-23.7883 0/1:35:15,20:15:540:20:720:-50.6206,0,-7.1159 0/1:54:28,26:28:999:26:936:-68.2477,0,-33.925 1/1:37:1,36:1:36:36:1292:-114.563,-9.14878,0 1/1:65:0,65:0:0:65:2318:-208.675,-19.567,0 1/1:78:0,78:0:0:78:2800:-251.646,-23.4803,0 0/1:62:27,35:27:972:35:1234:-91.8644,0,-12.8258 0/0:63:62,1:62:2220:1:36:0,-17.0734,-97.7014 0/1:68:21,47:21:756:47:1684:-131.347,0,-20.307 0/0:4:4,0:4:144:0:0:0,-1.20412,-6.63513 0/1:5:3,2:3:108:2:72:-5.32453,0,-2.12907 0/1:10:7,3:7:252:3:108:-7.06008,0,-8.0138 0/1:74:22,52:22:784:52:1868:-144.779,0,-17.0225 0/1:36:18,18:18:648:18:643:-47.3414,0,-21.4115 0/1:84:40,44:40:1436:44:1580:-116.565,0,-46.426 0/1:33:11,22:11:392:22:774:-57.9677,0,-11.8754 1/1:36:0,36:0:0:36:1283:-115.773,-10.8371,0 0/1:99:44,55:44:1576:55:1976:-147.703,0,-40.5752 0/1:41:7,34:7:252:34:1198:-95.6822,0,-0.300074 1/1:34:0,34:0:0:34:1224:-110.208,-10.235,0 1/1:32:0,32:0:0:32:1139:-101.142,-9.63296,0 chr03 1018985 . G A 22179.4 PASS AB=0.587143;ABP=95.3537;AC=27;AF=0.642857;AN=42;AO=1338;CIGAR=1X;DP=1924;DPB=1924;DPRA=0;EPP=2908.44;EPPR=1247.4;GTI=1;LEN=1;MEANALT=1.04762;MQM=39.6271;MQMR=47.0325;NS=21;NUMALT=1;ODDS=6.1408;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47732;QR=20683;RO=585;RPL=0;RPP=2908.44;RPPR=1264.65;RPR=1338;RUN=1;SAF=0;SAP=2908.44;SAR=1338;SRF=2;SRP=1256.01;SRR=583;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:45,50:45:1578:50:1796:-121.058,0,-111.21 0/1:99:51,48:51:1798:48:1695:-111.58,0,-130.691 0/1:91:39,52:39:1372:52:1864:-123.341,0,-93.6877 1/1:88:1,87:1:36:87:3100:-242.246,-22.8924,0 1/1:180:3,177:3:108:177:6294:-485.493,-44.1983,0 1/1:71:0,71:0:0:71:2556:-201.58,-21.3731,0 0/1:144:35,109:35:1229:109:3882:-287.597,0,-66.505 0/1:137:77,60:77:2726:60:2134:-151.075,0,-201.728 0/1:172:77,95:77:2719:95:3403:-229.59,0,-189.101 0/1:9:2,7:2:72:7:252:-18.3881,0,-4.08025 0/1:8:4,4:4:144:4:144:-8.96665,0,-10.8135 0/1:20:13,7:13:455:7:252:-13.3363,0,-35.0104 0/1:134:50,84:50:1754:84:3005:-206.056,0,-116.475 0/1:99:45,54:45:1612:54:1913:-126.554,0,-112.12 0/1:151:60,90:60:2136:90:3218:-218.034,0,-145.142 0/1:62:28,34:28:988:34:1211:-79.6869,0,-69.7944 1/1:73:3,70:3:108:70:2499:-187.086,-12.6898,0 0/1:104:31,73:31:1096:73:2584:-185.492,0,-66.2147 0/1:75:20,55:20:716:55:1963:-141.832,0,-41.6101 1/1:72:1,71:1:36:71:2536:-200.372,-18.1007,0 1/1:40:0,40:0:0:40:1431:-116.194,-12.0412,0 chr03 1019005 . C G 8978.94 PASS AB=0.413229;ABP=94.9596;AC=15;AF=0.357143;AN=42;AO=588;CIGAR=1X;DP=1926;DPB=1926;DPRA=1.43833;EPP=1211.29;EPPR=2785.94;GTI=1;LEN=1;MEANALT=1.05556;MQM=47.017;MQMR=39.7913;NS=21;NUMALT=1;ODDS=1.86817;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20920;QR=47721;RO=1337;RPL=582;RPP=1228.25;RPPR=2785.94;RPR=6;RUN=1;SAF=2;SAP=1262.52;SAR=586;SRF=0;SRP=2906.27;SRR=1337;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:51,46:51:1823:46:1631:-115.668,0,-121.783 0/1:101:50,50:50:1788:50:1772:-127.666,0,-118.366 0/1:91:53,38:53:1900:38:1347:-92.1746,0,-124.734 0/0:91:91,0:91:3256:0:0:0,-27.3937,-257.823 0/0:177:174,3:174:6219:3:104:0,-43.6502,-479.416 0/0:70:70,0:70:2482:0:0:0,-21.0721,-196.675 0/1:143:107,36:107:3812:36:1288:-72.0504,0,-283.456 0/1:139:61,78:61:2180:78:2768:-204.754,0,-154.612 0/1:171:95,76:95:3416:76:2715:-189.156,0,-231.501 0/1:10:7,3:7:252:3:104:-6.63673,0,-18.0871 0/1:7:3,4:3:108:4:144:-11.1145,0,-6.98203 0/1:20:7,13:7:244:13:460:-35.471,0,-14.5084 0/1:135:85,50:85:2993:50:1780:-118.089,0,-205.879 0/1:101:54,47:54:1940:47:1662:-116.992,0,-127.035 0/1:148:90,58:90:3219:58:2078:-140.788,0,-218.87 0/1:62:33,29:33:1184:29:1029:-73.5819,0,-78.4195 0/0:72:69,3:69:2440:3:108:0,-12.3887,-182.546 0/1:107:74,33:74:2644:33:1178:-72.4052,0,-189.496 0/1:74:54,20:54:1932:20:716:-41.9111,0,-139.562 0/0:71:70,1:70:2504:1:36:0,-17.7997,-197.48 0/0:39:39,0:39:1385:0:0:0,-11.7402,-112.34 chr03 1019018 . T C 28488.4 PASS AB=0.770338;ABP=884.733;AC=28;AF=0.666667;AN=42;AO=1596;CIGAR=1X;DP=1916;DPB=1916;DPRA=0;EPP=3451.33;EPPR=682.709;GTI=6;LEN=1;MEANALT=1.14286;MQM=38.5752;MQMR=59.2461;NS=21;NUMALT=1;ODDS=5.97161;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56855;QR=11356;RO=317;RPL=1596;RPP=3468.68;RPPR=682.709;RPR=0;RUN=1;SAF=2;SAP=3451.33;SAR=1594;SRF=0;SRP=691.367;SRR=317;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:20,73:20:720:73:2581:-190.885,0,-36.9995 0/1:97:14,83:14:496:83:2944:-222.665,0,-15.7579 0/1:90:9,81:9:324:81:2896:-214.335,0,-2.41315 1/1:87:0,87:0:0:87:3085:-244.777,-26.1896,0 1/1:178:0,177:0:0:177:6287:-496.389,-53.2823,0 1/1:70:0,70:0:0:70:2516:-198.767,-21.0721,0 0/1:143:52,91:52:1864:91:3234:-229.431,0,-124.992 0/1:141:63,78:63:2264:78:2775:-204.844,0,-161.566 0/1:173:36,136:36:1292:136:4846:-356.115,0,-64.4469 0/1:10:1,9:1:36:9:324:-24.5028,0,-0.587975 1/1:8:0,8:0:0:8:284:-24.2133,-2.40824,0 0/1:21:2,19:2:72:19:684:-51.9818,0,-0.180159 0/1:134:27,107:27:968:107:3817:-280.254,0,-46.7811 0/1:99:11,87:11:392:87:3128:-232.852,0,-5.75959 0/1:148:25,123:25:892:123:4411:-324.249,0,-35.9078 0/1:62:9,53:9:320:53:1892:-139.549,0,-10.4785 1/1:74:0,74:0:0:74:2639:-208.505,-22.2762,0 0/1:105:28,77:28:1000:77:2743:-198.754,0,-57.1904 0/1:73:20,53:20:716:53:1874:-134.367,0,-42.7925 1/1:72:0,72:0:0:72:2564:-206.563,-21.6742,0 1/1:38:0,38:0:0:38:1331:-108.795,-11.4391,0 chr03 1019028 . G T 6733.23 PASS AB=0.38231;ABP=167.591;AC=15;AF=0.357143;AN=42;AO=529;CIGAR=1X;DP=1895;DPB=1895;DPRA=1.39797;EPP=1151.72;EPPR=2954.04;GTI=1;LEN=1;MEANALT=1.11765;MQM=47.0907;MQMR=39.702;NS=21;NUMALT=1;ODDS=5.30307;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17961;QR=48693;RO=1359;RPL=529;RPP=1151.72;RPPR=2954.04;RPR=0;RUN=1;SAF=0;SAP=1151.72;SAR=529;SRF=0;SRP=2954.04;SRR=1359;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:50,39:50:1796:39:1316:-89.7137,0,-122.13 0/1:94:49,40:49:1764:40:1326:-91.7575,0,-119.52 0/1:90:54,36:54:1940:36:1208:-80.742,0,-129.359 0/0:91:90,0:90:3220:0:0:0,-27.0927,-254.769 0/0:180:177,3:177:6332:3:93:0,-45.5684,-489.097 0/0:71:71,0:71:2548:0:0:0,-21.3731,-201.488 0/1:141:108,33:108:3864:33:1116:-57.6618,0,-287.335 0/1:135:63,72:63:2252:72:2386:-172.061,0,-162.294 0/1:168:97,71:97:3488:71:2484:-169.964,0,-238.141 0/1:9:7,2:7:252:2:72:-4.08025,0,-18.3881 0/1:8:4,4:4:140:4:144:-10.8135,0,-8.91503 0/1:19:8,11:8:288:11:354:-26.309,0,-16.8826 0/1:135:85,50:85:3044:50:1747:-115.523,0,-208.877 0/1:96:54,41:54:1940:41:1342:-90.7375,0,-128.655 0/1:145:93,52:93:3340:52:1781:-115.697,0,-229.516 0/1:62:35,27:35:1256:27:918:-63.4139,0,-82.898 0/0:74:71,3:71:2539:3:104:0,-13.3494,-189.831 0/1:106:77,29:77:2755:29:1032:-60.6376,0,-198.104 0/1:71:55,16:55:1980:16:538:-26.9689,0,-143.928 0/0:71:71,0:71:2528:0:0:0,-21.3731,-203.437 0/0:40:40,0:40:1427:0:0:0,-12.0412,-116.01 chr03 1147884 . A C 18795.1 PASS AB=0.450971;ABP=48.1512;AC=16;AF=0.380952;AN=42;AO=1122;CIGAR=1X;DP=3548;DPB=3548;DPRA=1.18033;EPP=2439.4;EPPR=5271;GTI=1;LEN=1;MEANALT=1;MQM=59.4822;MQMR=59.9077;NS=21;NUMALT=1;ODDS=8.41028;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39964;QR=86730;RO=2426;RPL=0;RPP=2439.4;RPPR=5271;RPR=1122;RUN=1;SAF=0;SAP=2439.4;SAR=1122;SRF=0;SRP=5271;SRR=2426;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:73,68:73:2624:68:2395:-173.25,0,-193.962 0/1:136:83,53:83:2972:53:1896:-129.931,0,-226.772 0/1:232:136,96:136:4868:96:3391:-235.358,0,-368.434 0/0:220:220,0:220:7889:0:0:0,-66.2266,-710.032 0/0:402:398,4:398:14191:4:144:0,-107.7,-1263.26 0/0:236:235,1:235:8403:1:36:0,-67.4448,-752.665 0/1:279:145,134:145:5179:134:4771:-344.611,0,-382.218 1/1:140:0,140:0:0:140:4995:-449.676,-42.1442,0 0/1:385:213,172:213:7634:172:6148:-437.288,0,-571.008 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.5702 0/1:9:5,4:5:180:4:135:-9.77324,0,-13.8428 0/1:32:20,12:20:716:12:423:-28.7721,0,-55.1348 0/1:225:130,95:130:4633:95:3385:-236.976,0,-349.364 0/1:196:95,101:95:3389:101:3596:-264.817,0,-246.222 0/1:224:131,93:131:4700:93:3344:-233.741,0,-355.721 0/1:137:67,70:67:2376:70:2504:-184.141,0,-172.855 0/0:150:150,0:150:5348:0:0:0,-45.1545,-481.255 0/1:74:25,49:25:896:49:1725:-133.211,0,-58.6841 0/1:75:54,21:54:1932:21:752:-45.4267,0,-151.562 0/0:169:167,2:167:5960:2:72:0,-44.0422,-529.622 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.453 chr03 1171940 . GCCA GCCG,ACCG 12117.9 PASS AB=0.538259,0.461741;ABP=7.82879,7.82879;AC=26,16;AF=0.619048,0.380952;AN=42;AO=322,189;CIGAR=3M1X,1X2M1X;DP=513;DPB=513;DPRA=1.78214,1.31;EPP=294.77,271.963;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.8,1.93333;MQM=59.9596,59.9577;MQMR=0;NS=21;NUMALT=2;ODDS=0.615105;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=11462,6613;QR=0;RO=0;RPL=265,171;RPP=294.77,271.963;RPPR=0;RPR=57,18;RUN=1,1;SAF=0,0;SAP=702.224,413.419;SAR=322,189;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:21:0,13,8:0:0:13,8:468,288:-62.0456,-23.8592,-19.9458,-38.5463,0,-36.138 1/2:9:0,4,5:0:0:4,5:144,168:-25.7042,-13.9439,-12.7398,-12.1095,0,-10.6043 1/2:32:0,23,9:0:0:23,9:820,306:-92.0139,-25.1595,-18.2358,-67.1988,0,-64.4896 1/1:29:0,28,0:0:0:28,0:974,0:-87.6096,-8.42884,0,-87.6096,-8.42884,-87.6096 1/2:41:0,37,4:0:0:37,4:1311,144:-118.903,-12.1095,-0.971387,-107.153,0,-105.949 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 1/2:17:0,8,9:0:0:8,9:288,320:-49.9349,-26.4334,-24.0252,-23.8592,0,-21.1499 2/2:14:0,0,14:0:0:0,14:0,485:-43.9785,-43.9785,-43.9785,-4.21442,-4.21442,0 1/2:41:0,23,18:0:0:23,18:820,624:-117.913,-51.0652,-44.1415,-67.1988,0,-61.7803 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:24:0,13,11:0:0:13,11:460,395:-70.0457,-32.5808,-28.6674,-37.8214,0,-34.5101 1/2:38:0,17,21:0:0:17,21:608,754:-111.436,-61.8653,-56.7478,-49.9283,0,-43.6067 1/2:30:0,17,13:0:0:17,13:603,454:-86.4084,-37.2778,-32.1603,-49.482,0,-45.5686 1/2:28:0,15,13:0:0:15,13:536,445:-80.1728,-36.4625,-31.9471,-44.0594,0,-40.146 1/2:15:0,6,9:0:0:6,9:212,317:-43.4262,-26.1603,-24.3541,-17.6186,0,-14.9093 1/1:12:0,12,0:0:0:12,0:422,0:-38.3143,-3.61236,0,-38.3143,-3.61236,-38.3143 1/2:53:0,10,43:0:0:10,43:356,1482:-149.743,-120.725,-117.715,-29.3709,0,-16.4267 1/2:25:0,14,11:0:0:14,11:500,395:-73.3445,-32.5808,-28.3664,-41.1218,0,-37.8104 1/1:42:0,41,0:0:0:41,0:1468,0:-132.052,-12.3422,0,-132.052,-12.3422,-132.052 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 chr03 1768922 . T G 10907.9 PASS AB=0.511853;ABP=4.14284;AC=16;AF=0.380952;AN=42;AO=611;CIGAR=1X;DP=1598;DPB=1598;DPRA=1.45732;EPP=1329.78;EPPR=2135.41;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.8871;MQMR=59.9767;NS=21;NUMALT=1;ODDS=5.52138;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21765;QR=35241;RO=986;RPL=0;RPP=1329.78;RPPR=2135.41;RPR=611;RUN=1;SAF=611;SAP=1329.78;SAR=0;SRF=986;SRP=2144.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:35,17:35:1256:17:578:-36.6838,0,-97.6917 0/1:33:22,11:22:788:11:391:-25.5953,0,-61.3108 0/1:64:33,31:33:1188:31:1112:-81.1146,0,-87.9627 0/0:69:69,0:69:2455:0:0:0,-20.7711,-221.205 0/0:182:179,3:179:6404:3:108:0,-44.7123,-566.314 0/0:70:69,1:69:2476:1:36:0,-17.4738,-219.495 0/1:125:43,82:43:1544:82:2925:-225.81,0,-101.624 1/1:130:0,130:0:0:130:4641:-417.852,-39.1339,0 0/1:120:37,83:37:1316:83:2940:-228.706,0,-82.6182 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:20:13,7:13:459:7:248:-16.6328,0,-35.6235 0/1:116:57,59:57:2020:59:2113:-155.517,0,-147.15 0/1:83:39,44:39:1392:44:1572:-116.785,0,-100.594 0/1:147:85,61:85:3048:61:2173:-151.643,0,-230.387 0/1:39:17,22:17:608:22:784:-59.1428,0,-43.3119 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/1:54:27,27:27:963:27:964:-70.8212,0,-70.7303 0/1:62:37,25:37:1328:25:892:-61.9358,0,-101.158 0/0:124:122,2:122:4351:2:72:0,-30.491,-384.929 0/0:59:59,0:59:2097:0:0:0,-17.7608,-188.998 chr03 1768937 . C A,G 39580.3 PASS AB=0.495208,0.504792;ABP=3.19762,3.19762;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1013,609;CIGAR=1X,1X;DP=1622;DPB=1622;DPRA=0.588583,1.46185;EPP=1385.23,576.368;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.85,1.94444;MQM=59.9812,59.9031;MQMR=0;NS=21;NUMALT=2;ODDS=0.822184;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36277,21718;QR=0;RO=0;RPL=908,505;RPP=1385.23,576.368;RPPR=0;RPR=105,104;RUN=1,1;SAF=1013,609;SAP=2202.71,1325.44;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:53:0,36,17:0:0:36,17:1292,608:-155.323,-49.9345,-39.0974,-105.747,0,-100.629 1/2:33:0,22,11:0:0:22,11:792,388:-96.5741,-31.946,-25.3234,-64.983,0,-61.6717 1/2:68:0,36,32:0:0:36,32:1292,1147:-199.272,-93.8973,-83.0603,-105.733,0,-96.1 1/1:69:0,69,0:0:0:69,0:2484,0:-223.813,-20.7711,0,-223.813,-20.7711,-223.813 1/1:189:0,185,4:0:0:185,4:6639,144:-597.226,-55.6906,0,-585.476,-43.5811,-584.272 1/1:74:0,72,2:0:0:72,2:2582,72:-232.269,-21.6742,0,-226.394,-15.4395,-225.792 1/2:129:0,45,84:0:0:45,84:1616,2993:-376.096,-244.27,-230.724,-132.184,0,-106.897 2/2:127:0,0,127:0:0:0,127:0,4520:-406.966,-406.966,-406.966,-38.2308,-38.2308,0 1/2:120:0,38,82:0:0:38,82:1360,2931:-350.239,-239.335,-227.896,-111.261,0,-86.577 1/2:8:0,5,3:0:0:5,3:180,108:-23.8592,-9.17208,-7.66693,-15.0469,0,-14.1438 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/2:21:0,13,8:0:0:13,8:460,273:-59.9671,-22.4916,-18.5782,-37.8214,0,-35.4132 1/2:113:0,56,57:0:0:56,57:1982,2044:-328.511,-167.071,-150.213,-161.796,0,-144.637 1/2:85:0,38,47:0:0:38,47:1368,1670:-248.062,-136.438,-124.999,-111.982,0,-97.8333 1/2:148:0,90,58:0:0:90,58:3236,2064:-432.582,-168.571,-141.478,-264.368,0,-246.908 1/2:39:0,17,22:0:0:17,22:612,784:-114.198,-64.2603,-59.1428,-50.2959,0,-43.6733 1/1:38:0,38,0:0:0:38,0:1341,0:-120.987,-11.4391,0,-120.987,-11.4391,-120.987 1/2:53:0,27,26:0:0:27,26:964,932:-154.963,-76.3721,-68.2443,-78.949,0,-71.1222 1/2:65:0,39,26:0:0:39,26:1377,932:-188.502,-76.3721,-64.6319,-112.487,0,-104.66 1/1:127:0,125,2:0:0:125,2:4468,72:-401.93,-37.6288,0,-396.055,-31.3941,-395.453 1/1:59:0,59,0:0:0:59,0:2124,0:-191.428,-17.7608,0,-191.428,-17.7608,-191.428 chr03 1946112 . C T 37332.6 PASS AB=0.51401;ABP=4.77475;AC=28;AF=0.666667;AN=42;AO=1415;CIGAR=1X;DP=2034;DPB=2034;DPRA=0.874545;EPP=11.1882;EPPR=23.8094;GTI=0;LEN=1;MEANALT=1;MQM=59.8071;MQMR=59.895;NS=21;NUMALT=1;ODDS=9.80321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49873;QR=21862;RO=619;RPL=1404;RPP=2980.84;RPPR=1304.07;RPR=11;RUN=1;SAF=660;SAP=16.8602;SAR=755;SRF=266;SRP=29.5626;SRR=353;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:47,69:47:1665:69:2441:-185.025,0,-115.216 0/1:83:39,44:39:1392:44:1555:-115.251,0,-100.594 0/1:50:25,25:25:873:25:844:-61.21,0,-63.833 1/1:101:0,101:0:0:101:3560:-320.608,-30.404,0 1/1:194:1,193:1:32:193:6754:-604.6,-55.2005,0 1/1:120:2,118:2:68:118:4188:-370.638,-29.6659,0 0/1:154:80,74:80:2852:74:2631:-190.674,0,-210.56 0/0:110:110,0:110:3882:0:0:0,-33.1133,-349.567 0/1:116:69,47:69:2439:47:1664:-115.128,0,-184.846 0/1:18:9,9:9:320:9:300:-21.9035,0,-23.7238 0/1:7:6,1:6:212:1:36:-1.49107,0,-17.3176 0/1:21:14,7:14:504:7:248:-16.3426,0,-39.3765 0/1:125:61,64:61:2155:64:2272:-167.114,0,-156.588 0/1:70:36,34:36:1260:34:1178:-85.2439,0,-92.6275 1/1:143:0,143:0:0:143:5002:-450.327,-43.0473,0 1/1:79:1,78:1:36:78:2784:-247.201,-20.1831,0 1/1:62:0,62:0:0:62:2194:-197.723,-18.6639,0 0/1:157:79,78:79:2749:78:2753:-200.741,0,-199.895 0/1:118:38,80:38:1355:80:2848:-221.021,0,-86.7175 1/1:78:2,76:2:68:76:2645:-231.828,-17.0226,0 1/1:112:0,112:0:0:112:3976:-358.021,-33.7154,0 chr03 1947689 . A G 36630 PASS AB=0.349934;ABP=890.665;AC=14;AF=0.333333;AN=42;AO=1839;CIGAR=1X;DP=9132;DPB=9132;DPRA=1.04218;EPP=3996.35;EPPR=15839.6;GTI=1;LEN=1;MEANALT=1;MQM=59.77;MQMR=59.9772;NS=21;NUMALT=1;ODDS=42.5333;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64962;QR=260105;RO=7293;RPL=903;RPP=4.29618;RPPR=2204.25;RPR=936;RUN=1;SAF=903;SAP=4.29618;SAR=936;SRF=2287;SRP=2204.25;SRR=5006;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:779:601,178:601:21442:178:6290:-331.688,0,-1694.73 0/1:367:204,163:204:7267:163:5744:-406.545,0,-543.606 0/1:354:252,102:252:8994:102:3585:-216.285,0,-702.875 0/0:429:429,0:429:15342:0:0:0,-129.142,-1380.49 0/0:857:846,11:846:30208:11:384:0,-223.088,-2682.76 0/0:646:646,0:646:22987:0:0:0,-194.465,-2068.18 0/1:591:326,265:326:11591:265:9356:-664.032,0,-865.149 1/1:221:0,221:0:0:221:7785:-700.429,-66.5276,0 0/1:685:468,217:468:16677:217:7731:-489.533,0,-1294.39 0/1:77:44,33:44:1572:33:1170:-82.4219,0,-118.592 0/1:35:22,13:22:774:13:453:-30.5625,0,-59.4431 0/1:150:92,58:92:3287:58:2048:-139.424,0,-250.895 0/1:407:277,130:277:9905:130:4592:-290.923,0,-768.872 0/1:503:286,217:286:10190:217:7649:-537.017,0,-765.615 0/0:876:874,2:874:31155:2:72:0,-256.866,-2796.11 0/0:390:390,0:390:13909:0:0:0,-117.402,-1251.57 0/0:433:430,3:430:15309:3:99:0,-121.109,-1368.29 0/1:315:182,133:182:6489:133:4688:-327.253,0,-489.264 0/1:275:196,79:196:7005:79:2816:-170.896,0,-547.729 0/0:525:511,14:511:18247:14:500:0,-112.705,-1596.48 0/0:217:217,0:217:7755:0:0:0,-65.3235,-697.98 chr03 1947737 . A G 105188 PASS AB=0.7229;ABP=1276.95;AC=28;AF=0.666667;AN=42;AO=5027;CIGAR=1X;DP=5974;DPB=5974;DPRA=2.61696;EPP=10919;EPPR=2039.86;GTI=2;LEN=1;MEANALT=1.25;MQM=59.9875;MQMR=59.896;NS=21;NUMALT=1;ODDS=12.7641;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=179663;QR=33735;RO=942;RPL=5027;RPP=10919;RPPR=2048.54;RPR=0;RUN=1;SAF=0;SAP=10919;SAR=5027;SRF=1;SRP=2039.86;SRR=941;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:675:121,554:121:4344:554:19813:-1579.5,0,-187.936 0/1:247:88,159:88:3160:159:5674:-436.426,0,-210.27 0/1:210:44,166:44:1576:166:5918:-469.514,0,-78.9153 1/1:221:0,220:0:0:220:7872:-708.147,-66.2266,0 1/1:551:4,547:4:144:547:19538:-1744.62,-152.554,0 1/1:451:0,450:0:0:450:16097:-1448.05,-135.464,0 0/1:319:134,185:134:4792:185:6635:-501.198,0,-334.899 0/0:112:112,0:112:4012:0:0:0,-33.7154,-361.269 0/1:439:97,342:97:3469:342:12220:-967.494,0,-180.266 0/1:56:25,30:25:896:30:1072:-80.0211,0,-64.188 0/1:26:8,18:8:284:18:644:-50.4556,0,-18.0766 0/1:102:29,73:29:1036:73:2606:-204.082,0,-62.8489 0/1:274:74,199:74:2656:199:7103:-556.79,0,-156.745 0/1:267:85,182:85:3035:182:6484:-503.271,0,-192.635 1/1:632:0,631:0:0:631:22551:-2028.64,-189.95,0 1/1:268:0,268:0:0:268:9595:-863.502,-80.676,0 1/1:340:3,337:3:104:337:12046:-1074.29,-92.6474,0 0/1:168:60,108:60:2143:108:3863:-297.292,0,-142.564 0/1:169:51,118:51:1832:118:4201:-327.397,0,-114.287 1/1:321:6,315:6:216:315:11260:-993.495,-76.8401,0 1/1:126:1,125:1:36:125:4471:-398.961,-34.3315,0 chr03 2030598 . C T 14156.7 PASS AB=0.448324;ABP=19.6178;AC=28;AF=0.666667;AN=42;AO=730;CIGAR=1X;DP=1221;DPB=1221;DPRA=0.64375;EPP=1588.19;EPPR=1069.2;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.676325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25912;QR=17355;RO=491;RPL=730;RPP=1588.19;RPPR=1069.2;RPR=0;RUN=1;SAF=730;SAP=1588.19;SAR=0;SRF=491;SRP=1069.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:21,20:21:752:20:711:-51.9734,0,-55.664 0/1:18:7,11:7:252:11:392:-30.2015,0,-17.6104 0/1:105:57,48:57:2030:48:1709:-122.487,0,-151.363 1/1:75:0,75:0:0:75:2672:-240.725,-22.5773,0 1/1:89:8,81:8:284:81:2873:-232.903,-0.888316,0 1/1:18:0,18:0:0:18:630:-57.0246,-5.41854,0 0/1:53:33,20:33:1168:20:720:-49.1742,0,-89.4726 0/0:88:88,0:88:3121:0:0:0,-26.4906,-281.117 0/1:120:76,44:76:2655:44:1559:-104.477,0,-203.07 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:22:9,13:9:306:13:464:-35.4748,0,-21.2459 0/1:90:45,45:45:1589:45:1611:-118.187,0,-116.206 0/1:99:67,32:67:2372:32:1144:-73.4676,0,-183.934 1/1:104:0,104:0:0:104:3693:-332.572,-31.3071,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:18:0,18:0:0:18:639:-57.8382,-5.41854,0 0/1:94:44,50:44:1546:50:1779:-132.095,0,-111.133 0/1:58:28,30:28:996:30:1041:-76.5374,0,-72.4951 1/1:59:0,59:0:0:59:2103:-189.539,-17.7608,0 1/1:48:0,48:0:0:48:1672:-150.764,-14.4494,0 chr03 2030727 . A G 7794.67 PASS AB=0.498663;ABP=3.02191;AC=14;AF=0.333333;AN=42;AO=447;CIGAR=1X;DP=1369;DPB=1369;DPRA=0.876457;EPP=973.658;EPPR=2002.94;GTI=0;LEN=1;MEANALT=1;MQM=59.8993;MQMR=59.962;NS=21;NUMALT=1;ODDS=3.31296;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15927;QR=32989;RO=921;RPL=447;RPP=973.658;RPPR=2002.94;RPR=0;RUN=1;SAF=447;SAP=973.658;SAR=0;SRF=921;SRP=2002.94;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:54,57:54:1932:57:2040:-150.458,0,-140.742 0/1:73:32,41:32:1144:41:1476:-111.161,0,-81.2943 0/1:48:28,20:28:1008:20:712:-49.9572,0,-76.5869 0/0:68:67,1:67:2404:1:36:0,-16.8718,-213.018 0/0:160:159,0:159:5699:0:0:0,-47.8638,-512.667 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/1:144:59,85:59:2115:85:3021:-228.751,0,-147.27 1/1:72:0,72:0:0:72:2576:-232.09,-21.6742,0 0/1:109:55,54:55:1964:54:1936:-141.704,0,-144.223 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:12:6,6:6:216:6:212:-15.8124,0,-16.1782 0/1:94:49,45:49:1764:45:1576:-113.818,0,-130.747 0/1:59:28,31:28:1008:31:1090:-80.6471,0,-73.2756 0/0:89:89,0:89:3188:0:0:0,-26.7917,-287.144 0/0:47:47,0:47:1692:0:0:0,-14.1484,-151.546 0/0:48:48,0:48:1709:0:0:0,-14.4494,-154.094 0/1:44:23,21:23:824:21:748:-54.4,0,-61.238 0/1:39:33,6:33:1175:6:216:-8.05034,0,-94.3168 0/0:52:51,1:51:1824:1:36:0,-12.0553,-160.843 0/0:45:45,0:45:1599:0:0:0,-13.5463,-144.199 chr03 2030733 . A T 7750.12 PASS AB=0.492617;ABP=3.36298;AC=14;AF=0.333333;AN=42;AO=442;CIGAR=1X;DP=1360;DPB=1360;DPRA=1.27332;EPP=962.801;EPPR=1996.42;GTI=0;LEN=1;MEANALT=1;MQM=59.8982;MQMR=59.9837;NS=21;NUMALT=1;ODDS=3.01576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15846;QR=32616;RO=918;RPL=442;RPP=962.801;RPPR=1996.42;RPR=0;RUN=1;SAF=442;SAP=962.801;SAR=0;SRF=918;SRP=1996.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:55,56:55:1964:56:2016:-148.299,0,-143.621 0/1:72:31,41:31:1112:41:1461:-110.11,0,-78.7172 0/1:47:27,20:27:964:20:720:-50.9804,0,-72.9284 0/0:68:67,1:67:2376:1:36:0,-16.8718,-210.501 0/0:157:156,1:156:5556:1:36:0,-43.6634,-496.57 0/0:40:40,0:40:1409:0:0:0,-12.0412,-127.105 0/1:142:59,83:59:2069:83:2969:-224.677,0,-143.734 1/1:72:0,72:0:0:72:2592:-233.528,-21.6742,0 0/1:107:56,51:56:1983:51:1836:-133.31,0,-146.534 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/1:13:7,6:7:248:6:216:-15.8771,0,-18.7508 0/1:94:49,45:49:1741:45:1603:-116.034,0,-128.676 0/1:58:27,31:27:956:31:1116:-83.292,0,-68.896 0/0:87:87,0:87:3092:0:0:0,-26.1896,-278.462 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 0/0:51:51,0:51:1816:0:0:0,-15.3525,-163.721 0/1:46:25,21:25:892:21:741:-53.1642,0,-66.7523 0/1:39:33,6:33:1172:6:216:-8.05034,0,-94.0473 0/0:50:49,1:49:1730:1:36:0,-11.4532,-152.382 0/0:45:45,0:45:1604:0:0:0,-13.5463,-144.65 chr03 2030871 . A G 9086.35 PASS AB=0.513609;ABP=4.36972;AC=14;AF=0.333333;AN=42;AO=519;CIGAR=1X;DP=1827;DPB=1827;DPRA=1.31149;EPP=1104.1;EPPR=2789.25;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9981;MQMR=60;NS=21;NUMALT=1;ODDS=11.3071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18431;QR=46487;RO=1307;RPL=516;RPP=1104.1;RPPR=2789.25;RPR=3;RUN=1;SAF=0;SAP=1130;SAR=519;SRF=0;SRP=2841.12;SRR=1307;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:39,50:39:1396:50:1774:-133.151,0,-99.1474 0/1:85:46,39:46:1633:39:1396:-100.352,0,-121.669 0/1:60:26,34:26:932:34:1196:-89.8822,0,-66.1371 0/0:107:107,0:107:3786:0:0:0,-32.2102,-340.939 0/0:192:189,2:189:6730:2:72:0,-51.0198,-598.942 0/0:42:41,1:41:1437:1:36:0,-9.04498,-126.026 0/1:146:63,83:63:2248:83:2955:-222.234,0,-158.633 1/1:78:0,78:0:0:78:2765:-249.089,-23.4803,0 0/1:113:57,56:57:2022:56:1989:-145.267,0,-148.235 0/1:13:4,9:4:144:9:324:-25.5925,0,-9.40023 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:38:16,22:16:567:22:784:-59.4448,0,-39.9216 0/1:42:29,13:29:1036:13:446:-27.8231,0,-80.9107 0/1:99:50,49:50:1752:49:1735:-126.631,0,-128.159 0/0:247:246,1:246:8742:1:36:0,-70.7561,-783.175 0/0:67:67,0:67:2384:0:0:0,-20.169,-214.818 0/0:132:131,1:131:4679:1:36:0,-36.1377,-417.673 0/1:110:50,60:50:1792:60:2135:-159.304,0,-128.449 0/1:43:30,13:30:1060:13:464:-29.1532,0,-82.767 0/0:85:83,2:83:2967:2:72:0,-18.7508,-260.426 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 chr03 2053204 . T C 17039.2 PASS AB=0.473164;ABP=7.43912;AC=28;AF=0.666667;AN=42;AO=857;CIGAR=1X;DP=1376;DPB=1376;DPRA=0.467293;EPP=1863.96;EPPR=1127.83;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8903;MQMR=59.7181;NS=21;NUMALT=1;ODDS=7.72019;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30463;QR=17749;RO=518;RPL=0;RPP=1863.96;RPPR=1127.83;RPR=857;RUN=1;SAF=0;SAP=1863.96;SAR=857;SRF=0;SRP=1127.83;SRR=518;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:28,46:28:923:46:1632:-124.888,0,-61.0941 0/1:30:23,7:23:800:7:252:-13.9981,0,-63.2876 0/1:91:57,34:57:1969:34:1216:-82.3528,0,-150.085 1/1:102:1,101:1:36:101:3559:-316.838,-27.1068,0 1/1:94:2,92:2:72:92:3274:-288.023,-21.4601,0 1/1:57:2,55:2:72:55:1959:-169.748,-10.322,0 0/1:80:40,40:40:1387:40:1416:-103.653,0,-101.039 0/0:133:133,0:133:4570:0:0:0,-40.037,-411.393 0/1:120:81,39:81:2734:39:1388:-89.0944,0,-210.175 0/1:11:5,6:5:176:6:216:-16.4792,0,-12.8737 0/1:10:2,8:2:68:8:273:-21.8899,0,-3.44741 0/1:23:9,14:9:316:14:500:-38.4125,0,-21.8552 0/1:113:54,59:54:1832:59:2099:-155.163,0,-131.139 0/1:108:56,52:56:1924:52:1843:-133.631,0,-140.876 1/1:74:2,71:2:72:71:2539:-221.924,-15.4983,0 1/1:26:0,26:0:0:26:912:-82.3947,-7.82678,0 1/1:36:1,35:1:36:35:1260:-110.106,-7.23881,0 0/1:20:6,14:6:216:14:495:-38.8624,0,-13.7652 0/1:28:12,16:12:402:16:567:-42.9295,0,-28.0683 1/1:122:4,118:4:144:118:4207:-365.491,-23.412,0 1/1:24:0,24:0:0:24:856:-77.3611,-7.22472,0 chr03 2053238 . TCCA TCCG,GCCG 31052.7 PASS AB=0.438392,0.560311;ABP=28.4286,27.3697;AC=28,14;AF=0.666667,0.333333;AN=42;AO=882,587;CIGAR=3M1X,1X2M1X;DP=1472;DPB=1472;DPRA=0.45411,2.87449;EPP=1900.92,1277.66;EPPR=0;GTI=0;LEN=1,4;MEANALT=2,2.10526;MQM=59.8991,59.6797;MQMR=0;NS=21;NUMALT=2;ODDS=6.03564;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31541,20717;QR=0;RO=0;RPL=880,587;RPP=1900.92,1277.66;RPPR=0;RPR=2,0;RUN=1,1;SAF=0,0;SAP=1918.25,1277.66;SAR=882,587;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:75:0,47,28:0:0:47,28:1684,997:-218.952,-81.615,-67.4666,-137.694,0,-129.265 1/2:32:0,7,25:0:0:7,25:248,880:-92.1906,-71.9872,-69.88,-20.557,0,-13.0312 1/2:94:0,35,59:0:0:35,59:1260,2084:-272.876,-170.064,-159.528,-103.169,0,-85.4087 1/1:105:0,104,1:0:0:104,1:3707,36:-333.439,-31.3071,0,-330.501,-28.0099,-330.2 1/1:96:0,93,3:0:0:93,3:3326,107:-299.154,-27.9958,0,-290.431,-18.9167,-289.528 1/1:59:0,58,1:0:0:58,1:2080,36:-187.11,-17.4597,0,-184.173,-14.1625,-183.872 1/2:113:0,40,73:0:0:40,73:1440,2590:-328.827,-211.33,-199.288,-117.856,0,-95.8804 2/2:146:0,0,145:0:0:0,145:0,5106:-459.301,-459.301,-459.301,-43.6494,-43.6494,0 1/2:130:0,39,90:0:0:39,90:1395,3158:-370.742,-256.99,-245.249,-113.748,0,-86.6558 1/2:11:0,6,5:0:0:6,5:216,180:-32.6714,-15.0469,-13.2407,-17.9843,0,-16.4792 1/2:13:0,8,5:0:0:8,5:288,174:-38.0028,-14.4961,-12.0879,-23.8592,0,-22.354 1/2:23:0,14,9:0:0:14,9:504,318:-67.379,-26.2511,-22.0367,-41.4837,0,-38.7744 1/2:116:0,60,56:0:0:60,56:2152,1974:-336.603,-161.074,-143.012,-175.885,0,-159.027 1/2:115:0,52,63:0:0:52,63:1847,2246:-333.866,-183.383,-167.73,-150.838,0,-131.873 1/1:80:0,79,1:0:0:79,1:2811,35:-252.878,-23.7814,0,-250.03,-20.5838,-249.729 1/1:27:0,27,0:0:0:27,0:960,0:-86.7163,-8.12781,0,-86.7163,-8.12781,-86.7163 1/1:36:0,35,1:0:0:35,1:1260,36:-113.345,-10.5361,0,-110.407,-7.23881,-110.106 1/2:21:0,14,7:0:0:14,7:504,240:-60.957,-19.8217,-15.6073,-41.4837,0,-39.3765 1/2:28:0,16,12:0:0:16,12:568,412:-80.0763,-33.7914,-28.975,-46.633,0,-43.0207 1/1:127:0,123,3:0:0:123,3:4399,108:-395.72,-37.0267,0,-386.907,-28.2143,-386.004 1/1:25:0,25,0:0:0:25,0:892,0:-80.5997,-7.52575,0,-80.5997,-7.52575,-80.5997 chr03 2320029 . AG CG,CA 35830.4 PASS AB=0.767717,0.228346;ABP=161.135,165.819;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1515,100;CIGAR=1X1M,2X;DP=1620;DPB=1620;DPRA=3.325,1.04204;EPP=3292.79,220.158;EPPR=7.35324;GTI=4;LEN=1,2;MEANALT=1.65,2;MQM=59.4601,54.9;MQMR=60;NS=21;NUMALT=2;ODDS=6.01958;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54220,3566;QR=61;RO=2;RPL=0,0;RPP=3292.79,220.158;RPPR=7.35324;RPR=1515,100;RUN=1,1;SAF=1515,100;SAP=3292.79,220.158;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,66,4:0:0:66,4:2364,144:-212.558,-19.868,0,-200.811,-7.7622,-199.607 1/1:40:0,39,1:0:0:39,1:1404,36:-126.257,-11.7402,0,-123.325,-8.44978,-123.024 1/2:54:1,35,18:1:36:35,18:1260,648:-152.297,-49.8286,-42.23,-99.8318,0,-97.3507 1/1:121:0,121,0:0:0:121,0:4318,0:-388.544,-36.4246,0,-388.544,-36.4246,-388.544 1/1:328:0,327,1:0:0:327,1:11720,25:-1054.02,-98.4368,0,-1052.07,-96.2381,-1051.77 1/1:85:0,85,0:0:0:85,0:3028,0:-272.73,-25.5876,0,-272.73,-25.5876,-272.73 1/1:107:0,103,2:0:0:103,2:3668,70:-329.954,-31.0061,0,-324.269,-25.326,-323.666 2/2:24:0,0,24:0:0:0,24:0,858:-77.0134,-77.0134,-77.0134,-7.22472,-7.22472,0 1/1:119:0,109,10:0:0:109,10:3920,360:-352.481,-32.8123,0,-323.115,-3.08651,-320.105 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:14:0,10,4:0:0:10,4:360,142:-41.2748,-11.9,-8.88968,-29.7306,0,-28.5265 1/2:52:0,45,7:0:0:45,7:1604,252:-151.615,-20.9153,-7.36896,-131.059,0,-128.952 1/2:67:0,54,13:0:0:54,13:1940,455:-195.501,-37.3332,-21.0776,-158.519,0,-154.606 1/1:122:0,122,0:0:0:122,0:4358,0:-392.148,-36.7257,0,-392.148,-36.7257,-392.148 1/1:115:0,115,0:0:0:115,0:4124,0:-371.323,-34.6185,0,-371.323,-34.6185,-371.323 1/1:127:0,126,0:0:0:126,0:4516,0:-406.234,-37.9298,0,-406.234,-37.9298,-406.234 1/2:36:0,24,12:0:0:24,12:864,432:-105.598,-35.2047,-27.98,-70.7503,0,-67.1379 1/2:31:0,27,4:0:0:27,4:972,144:-91.3942,-12.1063,-3.97848,-79.6476,0,-78.4435 1/1:56:1,55,0:1:25:55,0:1944,0:-172.451,-14.3578,0,-172.752,-16.5567,-174.699 1/1:43:0,43,0:0:0:43,0:1532,0:-137.875,-12.9443,0,-137.875,-12.9443,-137.875 chr03 2324321 . C T 20204.5 PASS AB=0.525424;ABP=7.31644;AC=28;AF=0.666667;AN=42;AO=981;CIGAR=1X;DP=1365;DPB=1365;DPRA=3.74167;EPP=2133.22;EPPR=832.513;GTI=2;LEN=1;MEANALT=1.1;MQM=59.9939;MQMR=59.9503;NS=21;NUMALT=1;ODDS=1.12535;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35084;QR=13691;RO=382;RPL=0;RPP=2133.22;RPPR=832.513;RPR=981;RUN=1;SAF=981;SAP=2133.22;SAR=0;SRF=382;SRP=832.513;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:41,41:41:1468:41:1470:-107.911,0,-107.732 0/1:30:16,14:16:576:14:500:-36.3053,0,-43.1441 0/1:108:53,54:53:1900:54:1910:-139.751,0,-138.854 1/1:72:0,72:0:0:72:2564:-231.011,-21.6742,0 1/1:143:1,142:1:32:142:5083:-454.413,-39.848,0 1/1:62:0,62:0:0:62:2224:-200.424,-18.6639,0 0/1:141:73,68:73:2607:68:2439:-177.318,0,-192.433 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:123:56,67:56:2008:67:2412:-180.309,0,-143.967 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/1:9:1,8:1:36:8:288:-23.5581,0,-0.811738 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/1:65:39,26:39:1396:26:928:-64.2713,0,-106.372 0/1:53:25,28:25:900:28:996:-74.0003,0,-65.3664 1/1:74:0,74:0:0:74:2621:-236.134,-22.2762,0 1/1:53:0,53:0:0:53:1904:-171.638,-15.9546,0 1/1:85:0,85:0:0:85:3048:-274.549,-25.5876,0 0/1:85:35,50:35:1256:50:1792:-135.975,0,-87.7577 0/1:49:16,33:16:576:33:1184:-92.1178,0,-37.4245 1/1:59:0,58:0:0:58:2080:-187.257,-17.4597,0 1/1:32:0,32:0:0:32:1137:-102.637,-9.63296,0 chr03 2324334 . T G 6346.33 PASS AB=0.471053;ABP=8.54184;AC=13;AF=0.309524;AN=42;AO=376;CIGAR=1X;DP=1372;DPB=1372;DPRA=1.26923;EPP=793.634;EPPR=2163.63;GTI=1;LEN=1;MEANALT=1;MQM=59.9947;MQMR=59.994;NS=21;NUMALT=1;ODDS=1.9283;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13462;QR=35720;RO=995;RPL=3;RPP=793.634;RPPR=2163.63;RPR=373;RUN=1;SAF=376;SAP=819.484;SAR=0;SRF=995;SRP=2163.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:41,40:41:1461:40:1425:-104.162,0,-107.401 0/1:31:14,17:14:500:17:608:-45.7201,0,-36.0042 0/1:108:55,53:55:1976:53:1908:-139.485,0,-145.603 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.211 0/0:147:146,1:146:5252:1:36:0,-40.6531,-469.216 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.541 0/1:141:70,71:70:2520:71:2537:-186.134,0,-184.604 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:123:68,55:68:2436:55:1958:-139.466,0,-182.469 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/1:64:26,38:26:928:38:1368:-104.155,0,-64.5723 0/1:53:28,25:28:1008:25:900:-65.3664,0,-75.0818 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.122 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.998 0/0:83:83,0:83:2984:0:0:0,-24.9855,-268.791 0/1:86:51,35:51:1827:35:1260:-87.8169,0,-138.822 0/1:51:35,16:35:1256:16:562:-35.5552,0,-97.9928 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.946 0/0:33:32,0:32:1152:0:0:0,-9.63296,-103.63 chr03 2331974 . TAG TAA,CAA 21370.8 PASS AB=0.572115,0.427885;ABP=21.8019,21.8019;AC=28,14;AF=0.666667,0.333333;AN=42;AO=784,222;CIGAR=2M1X,1X1M1X;DP=1008;DPB=1008;DPRA=1.21,0.823529;EPP=1705.44,485.077;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.85,2;MQM=59.9847,59.8198;MQMR=60;NS=21;NUMALT=2;ODDS=4.61367;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27857,7815;QR=36;RO=1;RPL=0,0;RPP=1705.44,485.077;RPPR=5.18177;RPR=784,222;RUN=1,1;SAF=784,222;SAP=1705.44,485.077;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:11:0,6,5:0:0:6,5:212,173:-31.674,-14.4046,-12.5984,-17.6186,0,-16.1135 1/2:36:0,23,13:0:0:23,13:820,468:-105.387,-38.5463,-31.6226,-67.1988,0,-63.2854 1/2:26:0,18,8:0:0:18,8:633,268:-73.574,-22.0375,-16.6189,-51.8765,0,-49.4683 1/1:99:0,99,0:0:0:99,0:3479,0:-313.321,-29.802,0,-313.321,-29.802,-313.321 1/1:117:0,115,1:0:0:115,1:4106,36:-369.362,-34.6185,0,-366.424,-31.681,-366.123 1/1:54:1,53,0:1:36:53,0:1871,0:-165.067,-12.6573,0,-165.368,-15.9546,-168.306 1/2:86:0,55,31:0:0:55,31:1964,1088:-249.022,-88.8964,-72.3398,-160.479,0,-151.147 2/2:40:0,0,40:0:0:0,40:0,1424:-128.457,-128.457,-128.457,-12.0412,-12.0412,0 1/2:53:0,30,23:0:0:30,23:1053,810:-151.621,-65.9238,-56.8929,-86.0477,0,-79.124 1/2:7:0,6,1:0:0:6,1:216,36:-20.9217,-3.29724,-1.49106,-17.9843,0,-17.6833 1/2:5:0,1,4:0:0:1,4:36,129:-13.6685,-10.7235,-10.4225,-3.29724,0,-2.09312 1/2:11:0,5,6:0:0:5,6:176,216:-32.3087,-17.9843,-16.4792,-14.6799,0,-12.8737 1/2:42:0,23,19:0:0:23,19:824,670:-122.111,-54.9067,-47.983,-67.5596,0,-61.8401 1/2:31:0,13,18:0:0:13,18:460,638:-89.7987,-52.3307,-48.4173,-37.822,0,-32.4034 1/1:75:0,74,1:0:0:74,1:2625,28:-236.216,-22.2762,0,-233.998,-19.7775,-233.697 1/1:30:0,30,0:0:0:30,0:1080,0:-97.5132,-9.0309,0,-97.5132,-9.0309,-97.5132 1/1:41:0,41,0:0:0:41,0:1434,0:-129.352,-12.3422,0,-129.352,-12.3422,-129.352 1/2:47:0,22,25:0:0:22,25:784,887:-136.528,-72.6226,-65.9999,-64.2613,0,-56.7355 1/2:61:0,36,25:0:0:36,25:1296,874:-177.203,-71.4502,-60.6131,-106.107,0,-98.5811 1/1:73:0,72,1:0:0:72,1:2568,34:-231.03,-21.6742,0,-228.272,-18.5763,-227.971 1/1:63:0,62,1:0:0:62,1:2220,36:-199.705,-18.6639,0,-196.767,-15.3666,-196.466 chr03 2332184 . A G 16958.5 PASS AB=0.494455;ABP=3.41966;AC=15;AF=0.357143;AN=42;AO=956;CIGAR=1X;DP=2842;DPB=2842;DPRA=1.5291;EPP=2078.94;EPPR=4094.06;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.999;MQMR=59.9889;NS=21;NUMALT=1;ODDS=5.14183;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34065;QR=67303;RO=1884;RPL=0;RPP=2078.94;RPPR=4085.38;RPR=956;RUN=1;SAF=0;SAP=2078.94;SAR=956;SRF=1;SRP=4085.38;SRR=1883;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:231:109,122:109:3916:122:4326:-319.977,0,-283.094 0/1:135:69,66:69:2471:66:2361:-172.108,0,-182.004 0/1:141:74,67:74:2660:67:2375:-171.56,0,-197.2 0/0:137:134,3:134:4820:3:108:0,-31.1659,-423.877 0/0:388:383,5:383:13659:5:180:0,-100.248,-1212.54 0/0:79:78,1:78:2777:1:36:0,-20.1831,-246.572 0/1:180:89,91:89:3174:91:3264:-239.795,0,-231.698 1/1:179:0,179:0:0:179:6407:-576.716,-53.8844,0 0/1:287:132,155:132:4726:155:5530:-411.428,0,-339.102 0/1:10:5,5:5:180:5:176:-13.1747,0,-13.5418 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:28:11,17:11:396:17:600:-45.9004,0,-27.5539 0/1:189:98,91:98:3453:91:3225:-233.578,0,-254.085 0/1:146:62,84:62:2200:84:2975:-224.031,0,-154.313 0/0:149:149,0:149:5343:0:0:0,-44.8535,-480.931 0/0:73:73,0:73:2600:0:0:0,-21.9752,-234.246 0/0:104:103,0:103:3675:0:0:0,-31.0061,-330.703 0/1:82:45,37:45:1620:37:1323:-94.6869,0,-121.406 0/1:104:80,23:80:2838:23:819:-42.6658,0,-224.293 0/0:138:137,1:137:4907:1:36:0,-37.9439,-438.182 0/0:53:53,0:53:1888:0:0:0,-15.9546,-170.198 chr03 2439144 . CAA AAG,CAG 19366.8 PASS AB=0.420945,0.574949;ABP=29.447,26.7716;AC=27,15;AF=0.642857,0.357143;AN=42;AO=590,327;CIGAR=1X1M1X,2M1X;DP=921;DPB=921;DPRA=2.00229,1.16245;EPP=1284.18,713.082;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.84211,2;MQM=59.9136,59.9817;MQMR=0;NS=21;NUMALT=2;ODDS=3.81258;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20886,11692;QR=0;RO=0;RPL=0,0;RPP=1284.18,713.082;RPPR=0;RPR=590,327;RUN=1,1;SAF=590,327;SAP=1284.18,713.082;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:58:0,23,35:0:0:23,35:801,1256:-167.94,-102.809,-95.8855,-65.4829,0,-54.9469 1/2:45:0,27,18:0:0:27,18:948,644:-130.022,-52.8721,-44.7442,-77.5051,0,-72.0866 1/2:32:0,13,19:0:0:13,19:466,680:-93.8168,-55.8096,-51.8962,-38.3653,0,-32.6457 1/1:40:0,40,0:0:0:40,0:1400,0:-126.295,-12.0412,0,-126.295,-12.0412,-126.295 1/1:111:0,110,1:0:0:110,1:3917,36:-352.365,-33.1133,0,-349.428,-29.8161,-349.127 1/1:37:0,37,0:0:0:37,0:1303,0:-117.567,-11.1381,0,-117.567,-11.1381,-117.567 1/2:63:0,29,34:0:0:29,34:1031,1209:-182.898,-98.8791,-90.1492,-84.3738,0,-74.1388 2/2:42:0,0,42:0:0:0,42:0,1497:-135.022,-135.022,-135.022,-12.6433,-12.6433,0 1/2:113:0,39,74:0:0:39,74:1378,2660:-329.589,-217.369,-205.629,-112.575,0,-90.2986 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:7:0,2,5:0:0:2,5:69,180:-20.6482,-15.0469,-14.4449,-5.95048,0,-4.44533 1/2:9:0,7,2:0:0:7,2:252,72:-26.7966,-6.23466,-4.12745,-20.9217,0,-20.3197 1/2:80:0,27,53:0:0:27,53:955,1874:-230.765,-152.981,-144.854,-78.1376,0,-62.183 1/2:28:0,10,18:0:0:10,18:343,648:-81.0745,-53.2333,-50.223,-28.1901,0,-22.7715 1/1:66:0,65,0:0:0:65,0:2308,0:-207.62,-19.567,0,-207.62,-19.567,-207.62 1/1:48:0,48,0:0:0:48,0:1712,0:-154.365,-14.4494,0,-154.365,-14.4494,-154.365 1/1:38:0,38,0:0:0:38,0:1334,0:-120.356,-11.4391,0,-120.356,-11.4391,-120.356 1/2:34:0,19,14:0:0:19,14:671,504:-95.7643,-41.1238,-35.4043,-54.6378,0,-50.4234 1/2:18:0,9,8:0:0:9,8:322,288:-49.831,-23.5703,-20.8611,-26.3272,0,-23.919 1/1:16:0,16,0:0:0:16,0:568,0:-51.4513,-4.81648,0,-51.4513,-4.81648,-51.4513 1/1:32:0,31,0:0:0:31,0:1108,0:-99.7108,-9.33193,0,-99.7108,-9.33193,-99.7108 chr03 2524955 . T G 9926.62 PASS AB=0.501078;ABP=3.01966;AC=14;AF=0.333333;AN=42;AO=564;CIGAR=1X;DP=1839;DPB=1839;DPRA=0.8199;EPP=1227.72;EPPR=2767.29;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9202;MQMR=59.9262;NS=21;NUMALT=1;ODDS=4.08685;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20069;QR=45324;RO=1273;RPL=0;RPP=1227.72;RPPR=2767.29;RPR=564;RUN=1;SAF=0;SAP=1227.72;SAR=564;SRF=0;SRP=2767.29;SRR=1273;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:54,62:54:1915:62:2193:-162.694,0,-137.707 0/1:81:39,42:39:1396:42:1495:-110.46,0,-101.556 0/1:72:37,35:37:1328:35:1252:-91.3109,0,-98.1481 0/0:113:113,0:113:4048:0:0:0,-34.0164,-364.507 0/0:182:181,1:181:6440:1:36:0,-51.1892,-576.091 0/0:106:106,0:106:3761:0:0:0,-31.9092,-338.666 0/1:98:45,53:45:1591:53:1881:-140.066,0,-113.979 1/1:97:0,97:0:0:97:3443:-310.072,-29.1999,0 0/1:193:94,99:94:3356:99:3521:-259,0,-244.159 0/1:8:2,6:2:72:6:199:-15.827,0,-4.42848 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:23:13,10:13:468:10:360:-25.8206,0,-35.536 0/1:141:62,79:62:2216:79:2834:-212.852,0,-157.26 0/1:105:54,51:54:1909:51:1815:-132.022,0,-140.478 0/0:133:133,0:133:4732:0:0:0,-40.037,-425.725 0/0:86:86,0:86:3080:0:0:0,-25.8886,-277.428 0/0:73:73,0:73:2593:0:0:0,-21.9752,-233.571 0/1:34:19,15:19:676:15:540:-38.7015,0,-50.7982 0/1:51:39,12:39:1384:12:428:-23.5063,0,-109.506 0/0:92:91,0:91:3228:0:0:0,-27.3937,-290.382 0/0:29:27,1:27:951:1:36:0,-5.19039,-82.3063 chr03 2524960 . GCC ACT,ACC 40645.5 PASS AB=0.514166,0.481637;ABP=4.67137,5.80154;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1377,556;CIGAR=1X1M1X,1X2M;DP=1939;DPB=1939;DPRA=0.959896,0.903039;EPP=2984.45,1201.68;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.95,2.28571;MQM=59.9405,59.9532;MQMR=0;NS=21;NUMALT=2;ODDS=8.18745;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48041,19829;QR=0;RO=0;RPL=1,1;RPP=2984.45,1201.68;RPPR=0;RPR=1376,555;RUN=1,1;SAF=0,0;SAP=2993.13,1210.35;SAR=1377,556;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,61,59:0:0:61,59:2128,2103:-344.847,-171.776,-153.413,-173.423,0,-155.663 1/2:81:0,41,40:0:0:41,40:1431,1427:-233.075,-116.686,-104.343,-116.743,0,-104.701 1/2:78:0,43,35:0:0:43,35:1509,1247:-224.801,-101.998,-89.0537,-123.156,0,-112.62 1/1:124:0,124,0:0:0:124,0:4362,0:-392.761,-37.3277,0,-392.761,-37.3277,-392.761 1/1:199:0,197,1:0:0:197,1:6852,36:-616.442,-59.3029,0,-613.504,-56.3256,-613.203 1/1:123:0,123,0:0:0:123,0:4306,0:-387.512,-37.0267,0,-387.512,-37.0267,-387.512 1/2:99:0,47,52:0:0:47,52:1627,1863:-284.509,-152.296,-138.148,-132.565,0,-116.911 2/2:96:0,0,96:0:0:0,96:0,3431:-308.994,-308.994,-308.994,-28.8989,-28.8989,0 1/2:196:0,95,99:0:0:95,99:3334,3527:-558.88,-287.551,-258.953,-271.395,0,-241.593 1/2:8:0,2,6:0:0:2,6:72,212:-23.4945,-17.618,-17.0159,-6.23466,0,-4.42848 1/2:6:0,5,1:0:0:5,1:178,36:-17.8016,-3.29724,-1.79209,-14.8635,0,-14.5625 1/2:23:0,13,10:0:0:13,10:450,360:-66.295,-29.734,-25.8206,-36.9148,0,-33.9045 1/2:145:0,65,79:0:0:65,79:2264,2813:-413.458,-229.356,-209.789,-184.182,0,-160.401 1/2:109:0,59,50:0:0:59,50:2042,1783:-311.631,-145.698,-127.937,-166.285,0,-151.233 1/1:140:0,140,0:0:0:140,0:4876,0:-439,-42.1442,0,-439,-42.1442,-439 1/1:95:0,95,0:0:0:95,0:3326,0:-299.559,-28.5979,0,-299.559,-28.5979,-299.559 1/1:75:0,74,0:0:0:74,0:2548,0:-229.309,-22.2762,0,-229.309,-22.2762,-229.309 1/2:35:0,18,16:0:0:18,16:612,576:-96.7738,-47.1402,-41.7217,-49.7628,0,-44.9463 1/2:53:0,41,12:0:0:41,12:1456,415:-152.713,-34.0679,-21.7257,-118.993,0,-115.38 1/1:100:0,100,0:0:0:100,0:3496,0:-314.853,-30.103,0,-314.853,-30.103,-314.853 1/1:34:0,34,0:0:0:34,0:1172,0:-105.781,-10.235,0,-105.781,-10.235,-105.781 chr03 2667237 . CCGATGA ACGACGA,ACGACGG 24183.6 PASS AB=0.580547,0.414894;ABP=40.0903,44.4069;AC=27,15;AF=0.642857,0.357143;AN=42;AO=834,349;CIGAR=1X3M1X2M,1X3M1X1M1X;DP=1197;DPB=1197;DPRA=1.64474,1.5767;EPP=1805.34,752.193;EPPR=0;GTI=2;LEN=7,7;MEANALT=2.31579,2.375;MQM=59.9197,58.9198;MQMR=0;NS=21;NUMALT=2;ODDS=0.93952;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29126,12095;QR=0;RO=0;RPL=1,1;RPP=1805.34,752.193;RPPR=0;RPR=833,348;RUN=1,1;SAF=834,349;SAP=1814.02,760.854;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,40,24:0:0:40,24:1399,812:-179.579,-65.7573,-53.7161,-113.805,0,-106.581 1/2:48:0,27,20:0:0:27,20:945,710:-134.741,-57.8565,-49.7287,-76.8963,0,-70.8757 1/2:44:0,22,22:0:0:22,22:766,742:-122.735,-60.4407,-53.818,-62.6367,0,-56.0141 1/1:28:0,28,0:0:0:28,0:975,0:-88.062,-8.42884,0,-88.062,-8.42884,-88.062 1/1:156:0,152,1:0:0:152,1:5290,36:-475.898,-45.7566,0,-472.961,-42.8167,-472.66 1/1:31:0,27,0:0:0:27,0:965,0:-86.8073,-8.12781,0,-86.8073,-8.12781,-86.8073 1/2:103:0,66,37:0:0:66,37:2322,1300:-295.085,-106.136,-86.2677,-189.301,0,-178.163 2/2:67:0,0,66:0:0:0,66:0,2292:-205.91,-205.91,-205.91,-19.868,-19.868,0 1/2:111:0,67,44:0:0:67,44:2338,1517:-313.669,-123.504,-103.335,-190.511,0,-177.266 1/2:12:0,4,8:0:0:4,8:143,275:-34.322,-22.6573,-21.4532,-12.0173,0,-9.60908 2/2:5:0,0,5:0:0:0,5:0,174:-16.0018,-16.0018,-16.0018,-1.50515,-1.50515,0 1/2:14:0,10,3:0:0:10,3:354,102:-36.8934,-8.24351,-5.23321,-28.6373,0,-27.7342 1/2:52:0,31,21:0:0:31,21:1072,724:-146.226,-59.1168,-49.7849,-87.4538,0,-81.1322 1/2:79:0,38,41:0:0:38,41:1305,1412:-220.933,-114.969,-103.53,-106.308,0,-93.9659 1/1:82:0,79,2:0:0:79,2:2778,70:-249.958,-23.7814,0,-244.263,-17.9927,-243.661 1/1:41:0,40,0:0:0:40,0:1403,0:-126.211,-12.0412,0,-126.211,-12.0412,-126.211 1/1:63:0,62,0:0:0:62,0:2142,0:-192.681,-18.6639,0,-192.681,-18.6639,-192.681 1/2:92:0,48,44:0:0:48,44:1701,1539:-264.061,-125.486,-111.037,-138.926,0,-125.681 1/2:38:0,29,9:0:0:29,9:991,319:-106.758,-26.3426,-17.6127,-80.7665,0,-78.0572 1/1:31:0,29,2:0:0:29,2:999,71:-89.8642,-8.72987,0,-84.0784,-2.58987,-83.4763 1/1:35:0,35,0:0:0:35,0:1238,0:-111.725,-10.5361,0,-111.725,-10.5361,-111.725 chr03 2785012 . G T 13089.4 PASS AB=0.464646;ABP=20.2066;AC=14;AF=0.333333;AN=42;AO=812;CIGAR=1X;DP=3196;DPB=3196;DPRA=0.82218;EPP=1766.25;EPPR=5179.8;GTI=1;LEN=1;MEANALT=1;MQM=54.9076;MQMR=59.7286;NS=21;NUMALT=1;ODDS=2.09077;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28647;QR=85256;RO=2384;RPL=812;RPP=1766.25;RPPR=5179.8;RPR=0;RUN=1;SAF=0;SAP=1766.25;SAR=812;SRF=0;SRP=5179.8;SRR=2384;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:229:124,105:124:4444:105:3704:-263.213,0,-331.19 0/1:122:60,62:60:2148:62:2204:-161.285,0,-156.841 0/1:141:74,67:74:2644:67:2304:-164.921,0,-195.757 0/0:252:252,0:252:9012:0:0:0,-75.8596,-811.035 0/0:365:364,1:364:12994:1:36:0,-106.28,-1165.58 0/0:227:227,0:227:8140:0:0:0,-68.3338,-732.492 0/1:205:95,110:95:3396:110:3880:-286.918,0,-244.131 1/1:71:0,71:0:0:71:2526:-226.993,-21.3731,0 0/1:284:165,119:165:5889:119:4178:-289.631,0,-444.31 0/1:25:9,16:9:316:16:564:-43.4989,0,-21.2451 0/1:22:8,14:8:280:14:500:-38.6685,0,-18.9133 0/1:55:20,35:20:716:35:1221:-93.4852,0,-48.2111 0/1:171:87,84:87:3101:84:2996:-217.496,0,-227.802 0/1:172:91,81:91:3252:81:2873:-206.594,0,-240.801 0/0:169:169,0:169:6040:0:0:0,-50.8741,-543.586 0/0:146:146,0:146:5236:0:0:0,-43.9504,-471.284 0/0:181:181,0:181:6476:0:0:0,-54.4864,-582.433 0/1:80:51,29:51:1820:29:1017:-67.5117,0,-139.998 0/1:78:64,14:64:2300:14:504:-22.1848,0,-183.778 0/0:130:126,4:126:4508:4:140:0,-26.2054,-392.928 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.104 chr03 2795566 . T C 5154.3 PASS AB=0.612981;ABP=49.1332;AC=21;AF=0.5;AN=42;AO=284;CIGAR=1X;DP=548;DPB=548;DPRA=0.671053;EPP=619.708;EPPR=576.279;GTI=4;LEN=1;MEANALT=1;MQM=59.7394;MQMR=59.9167;NS=21;NUMALT=1;ODDS=0.820757;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10171;QR=9439;RO=264;RPL=0;RPP=619.708;RPPR=576.279;RPR=284;RUN=1;SAF=284;SAP=619.708;SAR=0;SRF=264;SRP=576.279;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:6:4,2:4:144:2:72:-5.02195,0,-11.4934 0/1:32:16,16:16:576:16:576:-42.542,0,-42.542 0/1:27:5,22:5:180:22:780:-62.3952,0,-8.42425 0/1:22:2,20:2:72:20:720:-58.5061,0,-0.214062 1/1:9:0,9:0:0:9:315:-28.6872,-2.70927,0 0/1:47:21,26:21:741:26:932:-70.0505,0,-52.8632 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 0/1:62:30,32:30:1065:32:1144:-84.6057,0,-77.4959 0/0:31:30,1:30:1076:1:36:0,-5.73365,-93.5481 0/0:36:35,1:35:1252:1:32:0,-7.63777,-109.786 0/1:21:18,3:18:644:3:108:-3.74878,0,-51.969 0/1:44:15,29:15:525:29:1036:-80.3086,0,-34.3327 0/1:28:16,12:16:576:12:428:-30.4253,0,-43.7461 0/1:21:2,19:2:72:19:684:-55.5525,0,-0.515092 1/1:7:0,7:0:0:7:252:-23.0266,-2.10721,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:24:11,13:11:396:13:468:-35.2349,0,-28.758 0/1:12:10,2:10:356:2:72:-3.22436,0,-28.7689 0/1:60:7,53:7:252:53:1904:-153.55,0,-4.96716 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 chr03 2795576 . T C 7282.9 PASS AB=0.709751;ABP=171.533;AC=26;AF=0.619048;AN=42;AO=383;CIGAR=1X;DP=543;DPB=543;DPRA=0;EPP=834.684;EPPR=350.446;GTI=5;LEN=1;MEANALT=1;MQM=59.7911;MQMR=59.9625;NS=21;NUMALT=1;ODDS=1.06274;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13650;QR=5706;RO=160;RPL=0;RPP=834.684;RPPR=350.446;RPR=383;RUN=1;SAF=383;SAP=834.684;SAR=0;SRF=160;SRP=350.446;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:6:0,6:0:0:6:201:-18.4135,-1.80618,0 0/1:33:12,21:12:415:21:756:-58.4332,0,-27.7463 0/1:27:5,22:5:176:22:792:-63.4779,0,-8.05721 0/1:22:2,20:2:72:20:716:-58.1451,0,-0.214062 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:47:10,37:10:360:37:1310:-104.052,0,-18.5959 0/1:38:9,29:9:320:29:1026:-81.2122,0,-17.7032 0/1:60:14,46:14:491:46:1652:-130.907,0,-26.4593 0/1:31:28,3:28:1004:3:108:-0.74324,0,-81.3421 0/0:33:30,3:30:1072:3:104:0,-0.231185,-87.0897 0/1:21:15,6:15:540:6:216:-13.4642,0,-42.6149 0/1:44:11,33:11:396:33:1176:-92.9024,0,-22.7374 0/1:27:9,18:9:324:18:644:-50.1582,0,-21.378 0/1:21:2,19:2:72:19:673:-54.5624,0,-0.515092 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:11:0,11:0:0:11:388:-35.2574,-3.31133,0 1/1:25:2,23:2:72:23:828:-68.0074,-0.689028,0 1/1:12:0,12:0:0:12:424:-38.4964,-3.61236,0 0/1:60:7,53:7:248:53:1880:-151.393,0,-4.60239 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 chr03 3150351 . T C 21214.9 PASS AB=0.516343;ABP=7.55287;AC=14;AF=0.333333;AN=42;AO=1180;CIGAR=1X;DP=3656;DPB=3656;DPRA=1.83115;EPP=2496.33;EPPR=5316.78;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.8678;MQMR=59.9301;NS=21;NUMALT=1;ODDS=29.6521;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42143;QR=88467;RO=2475;RPL=1172;RPP=2496.33;RPPR=5316.78;RPR=8;RUN=1;SAF=0;SAP=2565.35;SAR=1180;SRF=0;SRP=5377.4;SRR=2475;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:225:100,125:100:3592:125:4460:-333.836,0,-255.753 0/1:181:81,100:81:2859:100:3581:-268.01,0,-203.044 0/1:193:96,97:96:3444:97:3480:-255.312,0,-252.074 0/0:151:151,0:151:5420:0:0:0,-45.4555,-487.923 0/0:272:267,5:267:9531:5:176:0,-65.6951,-841.552 0/0:153:152,1:152:5421:1:36:0,-42.4593,-484.422 0/1:266:120,146:120:4312:146:5224:-390.223,0,-308.181 1/1:156:0,156:0:0:156:5531:-497.476,-46.9607,0 0/1:354:174,180:174:6229:180:6410:-470.337,0,-454.103 0/1:33:14,19:14:496:19:684:-51.9563,0,-34.983 0/1:14:6,8:6:216:8:284:-21.6889,0,-15.5761 0/1:129:66,63:66:2357:63:2264:-165.172,0,-173.554 0/1:135:67,68:67:2393:68:2433:-178.585,0,-174.986 0/1:211:107,104:107:3828:104:3724:-271.826,0,-281.2 0/0:561:559,1:559:19979:1:36:0,-165.338,-1793.16 0/0:88:87,1:87:3120:1:36:0,-22.9119,-277.444 0/0:94:94,0:94:3338:0:0:0,-28.2968,-300.636 0/1:118:55,63:55:1976:63:2256:-167.777,0,-142.565 0/1:99:61,38:61:2124:38:1359:-92.8079,0,-161.62 0/0:163:158,5:158:5676:5:169:0,-33.6881,-495.576 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 chr03 3150368 . A T 51800 PASS AB=0.487595;ABP=5.65015;AC=28;AF=0.666667;AN=42;AO=2516;CIGAR=1X;DP=3694;DPB=3694;DPRA=1.13397;EPP=5466.43;EPPR=2558.83;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9273;MQMR=59.8963;NS=21;NUMALT=1;ODDS=24.3798;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89935;QR=42168;RO=1177;RPL=2516;RPP=5466.43;RPPR=2558.83;RPR=0;RUN=1;SAF=0;SAP=5466.43;SAR=2516;SRF=0;SRP=2558.83;SRR=1177;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:229:127,102:127:4544:102:3649:-259.672,0,-340.19 0/1:184:100,84:100:3577:84:3012:-215.899,0,-266.746 0/1:194:97,97:97:3484:97:3469:-254.02,0,-255.37 1/1:154:0,154:0:0:154:5524:-497.275,-46.3586,0 1/1:274:5,269:5:180:269:9615:-848.735,-65.9302,0 1/1:157:0,157:0:0:157:5599:-503.996,-47.2617,0 0/1:271:148,123:148:5296:123:4400:-314.594,0,-395.196 0/0:156:156,0:156:5604:0:0:0,-46.9607,-503.217 0/1:356:179,177:179:6409:177:6317:-461.433,0,-469.64 0/1:33:19,14:19:680:14:504:-35.6337,0,-51.5952 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:130:62,67:62:2224:67:2412:-178.143,0,-161.214 0/1:135:67,68:67:2385:68:2436:-178.856,0,-174.267 0/1:212:105,107:105:3757:107:3829:-280.987,0,-274.492 1/1:569:1,568:1:36:568:20271:-1820.13,-167.688,0 1/1:88:1,87:1:36:87:3082:-274.028,-22.9119,0 1/1:97:0,97:0:0:97:3459:-311.475,-29.1999,0 0/1:117:62,55:62:2228:55:1970:-142.35,0,-165.563 0/1:101:38,63:38:1368:63:2259:-173.169,0,-93.0168 1/1:162:3,159:3:108:159:5688:-501.962,-38.6917,0 1/1:62:0,62:0:0:62:2224:-200.424,-18.6639,0 chr03 3189100 . CCCATTTTTTGTGC TCCATTTTTGTGC,TACATTTTTGTGC 29903.2 PASS AB=0.568534,0.423123;ABP=37.2388,46.08;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1146,539;CIGAR=1X3M1D9M,2X2M1D9M;DP=1705;DPB=1583.29;DPRA=0.420994,1.41383;EPP=2491.52,1173.43;EPPR=0;GTI=1;LEN=13,13;MEANALT=2.7,2.86667;MQM=41.5724,28.833;MQMR=0;NS=21;NUMALT=2;ODDS=0.396226;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40481,15486;QR=0;RO=0;RPL=1146,539;RPP=2491.52,1173.43;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2491.52,1173.43;SAR=1146,539;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,39,31:0:0:39,31:1368,923:-174.683,-65.7963,-54.0561,-109.188,0,-99.8563 1/2:6:0,4,2:0:0:4,2:134,52:-14.2248,-3.76702,-2.5629,-10.7185,0,-10.1164 1/2:75:0,45,29:0:0:45,29:1607,864:-189.221,-61.2199,-47.6736,-128.03,0,-119.3 1/1:129:0,126,1:0:0:126,1:4458,24:-392.29,-37.9298,0,-390.519,-36.1775,-390.218 1/1:95:0,93,0:0:0:93,0:3285,0:-288.069,-27.9958,0,-288.069,-27.9958,-288.069 1/1:91:0,89,0:0:0:89,0:3121,0:-267.298,-26.7917,0,-267.298,-26.7917,-267.298 1/2:91:0,48,43:0:0:48,43:1704,1106:-206.684,-75.3082,-60.8588,-131.656,0,-118.711 2/2:181:0,0,181:0:0:0,181:0,5014:-402.809,-402.809,-402.809,-54.4864,-54.4864,0 1/2:164:0,91,72:0:0:91,72:3222,2280:-422.306,-164.658,-137.264,-257.673,0,-235.998 1/2:6:0,5,1:0:0:5,1:166,26:-14.8062,-1.99849,-0.493336,-13.0521,0,-12.7511 1/2:4:0,1,3:0:0:1,3:28,78:-7.65681,-5.53555,-5.23452,-2.3798,0,-1.47671 1/2:36:0,27,8:0:0:27,8:957,224:-90.7493,-15.5868,-7.45901,-75.1823,0,-72.7741 1/2:150:0,87,62:0:0:87,62:3100,1842:-376.282,-130.408,-104.218,-245.982,0,-227.318 1/2:114:0,58,54:0:0:58,54:2032,1585:-272.868,-112.093,-94.6329,-160.779,0,-144.523 1/1:88:0,86,0:0:0:86,0:3039,0:-267.028,-25.8886,0,-267.028,-25.8886,-267.028 1/1:19:0,19,0:0:0:19,0:677,0:-60.4127,-5.71957,0,-60.4127,-5.71957,-60.4127 1/1:35:0,35,0:0:0:35,0:1239,0:-109.851,-10.5361,0,-109.851,-10.5361,-109.851 1/2:55:0,21,34:0:0:21,34:743,947:-123.717,-66.0431,-59.7215,-57.9783,0,-47.7432 1/2:68:0,51,16:0:0:51,16:1791,465:-174.485,-32.8101,-17.4575,-141.758,0,-136.941 1/1:180:0,173,2:0:0:173,2:6118,56:-531.158,-52.0782,0,-527.262,-48.1815,-526.66 1/1:48:0,48,0:0:0:48,0:1692,0:-145.087,-14.4494,0,-145.087,-14.4494,-145.087 chr03 3396578 . ATTTTTCTTTCTA ATTTCTTGTTA,ATTTCTTTCTA 37996 PASS AB=0.455724,0.541037;ABP=18.7781,16.555;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1117,655;CIGAR=1M2D6M2X2M,1M2D10M;DP=1779;DPB=1505.46;DPRA=0.543,0.958015;EPP=2428.54,1425.32;EPPR=0;GTI=0;LEN=11,2;MEANALT=2,2.13333;MQM=59.4073,56.3115;MQMR=0;NS=21;NUMALT=2;ODDS=4.58671;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38756,23053;QR=0;RO=0;RPL=25,12;RPP=2216.26,1323;RPPR=0;RPR=1092,643;RUN=1,1;SAF=25,12;SAP=2216.26,1323;SAR=1092,643;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,44,69:0:0:44,69:1520,2451:-323.225,-199.905,-186.659,-123.67,0,-102.899 1/2:95:0,39,56:0:0:39,56:1386,1984:-274.713,-161.768,-150.028,-113.299,0,-96.4411 1/2:104:0,44,60:0:0:44,60:1542,2140:-299.983,-174.559,-161.313,-125.777,0,-107.715 1/1:76:0,75,0:0:0:75,0:2600,0:-233.754,-22.5773,0,-233.754,-22.5773,-233.754 1/1:122:0,120,2:0:0:120,2:4156,72:-373.801,-36.1236,0,-367.928,-29.8908,-367.326 1/1:53:0,53,0:0:0:53,0:1851,0:-166.765,-15.9546,0,-166.765,-15.9546,-166.765 1/2:96:0,34,62:0:0:34,62:1157,2151:-268.327,-174.532,-164.297,-94.1366,0,-75.4728 2/2:150:0,0,150:0:0:0,150:0,5256:-472.639,-472.639,-472.639,-45.1545,-45.1545,0 1/2:137:0,68,67:0:0:68,67:2337,2349:-380.922,-191.173,-170.703,-189.808,0,-169.639 1/2:31:0,10,21:0:0:10,21:356,720:-87.7671,-58.7476,-55.7373,-29.3709,0,-23.0493 1/2:6:0,3,3:0:0:3,3:99,108:-17.1345,-9.15779,-8.2547,-8.3211,0,-7.41801 1/2:49:0,22,27:0:0:22,27:767,940:-139.107,-76.7292,-70.1065,-62.7256,0,-54.5978 1/2:75:0,38,37:0:0:38,37:1327,1305:-214.412,-106.51,-95.0708,-108.253,0,-97.1147 1/2:91:0,55,35:0:0:55,35:1944,1248:-260.04,-101.73,-85.1732,-158.344,0,-147.808 1/1:210:0,209,0:0:0:209,0:7268,0:-653.712,-62.9153,0,-653.712,-62.9153,-653.712 1/1:58:0,56,0:0:0:56,0:1946,0:-175.008,-16.8577,0,-175.008,-16.8577,-175.008 1/1:83:0,83,0:0:0:83,0:2864,0:-257.886,-24.9855,0,-257.886,-24.9855,-257.886 1/2:85:0,40,45:0:0:40,45:1376,1577:-240.28,-128.571,-116.53,-112.056,0,-98.5093 1/2:44:0,25,19:0:0:25,19:844,680:-124.069,-55.6749,-48.1491,-68.743,0,-63.0234 1/1:57:0,55,2:0:0:55,2:1904,72:-170.947,-16.5567,0,-165.076,-10.3269,-164.474 1/1:44:0,44,0:0:0:44,0:1512,0:-136.364,-13.2453,0,-136.364,-13.2453,-136.364 chr03 3396599 . A T 13895.7 PASS AB=0.532692;ABP=12.665;AC=14;AF=0.333333;AN=42;AO=723;CIGAR=1X;DP=1959;DPB=1959;DPRA=1.02214;EPP=1564.31;EPPR=2658.78;GTI=0;LEN=1;MEANALT=1.06667;MQM=56.213;MQMR=59.3619;NS=21;NUMALT=1;ODDS=6.02337;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25941;QR=44261;RO=1235;RPL=14;RPP=1453.74;RPPR=2422.27;RPR=709;RUN=1;SAF=13;SAP=1462.1;SAR=710;SRF=28;SRP=2447.09;SRR=1207;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:57,77:57:2048:77:2772:-209.202,0,-144.053 0/1:103:40,63:40:1428:63:2249:-171.425,0,-97.8114 0/1:114:48,66:48:1724:66:2366:-178.452,0,-121.046 0/0:83:83,0:83:2980:0:0:0,-24.9855,-268.283 0/0:144:142,2:142:5074:2:72:0,-36.5135,-449.861 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.49 0/1:109:42,67:42:1504:67:2397:-182.455,0,-102.786 1/1:164:0,164:0:0:164:5890:-529.185,-49.3689,0 0/1:156:77,78:77:2759:78:2791:-204.181,0,-201.358 0/1:36:15,21:15:536:21:756:-57.4382,0,-37.7377 0/1:6:3,3:3:108:3:108:-8.2547,0,-8.17979 0/1:50:23,27:23:828:27:968:-72.3263,0,-59.7926 0/1:83:42,41:42:1508:41:1476:-108.044,0,-110.993 0/1:101:62,39:62:2228:39:1400:-95.8085,0,-170.316 0/0:216:216,0:216:7749:0:0:0,-65.0225,-697.23 0/0:61:61,0:61:2179:0:0:0,-18.3628,-195.901 0/0:86:86,0:86:3075:0:0:0,-25.8886,-276.897 0/1:93:47,46:47:1684:46:1652:-120.858,0,-123.368 0/1:55:29,26:29:1029:26:936:-67.8446,0,-76.3287 0/0:60:57,3:57:2048:3:108:0,-7.9939,-174.467 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.432 chr03 3396611 . GAC AAC,AAT 43564.1 PASS AB=0.471498,0.523671;ABP=10.3136,8.0477;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1243,712;CIGAR=1X2M,1X1M1X;DP=1967;DPB=1972.67;DPRA=0.535417,1;EPP=2253.49,1549.1;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.1,2.53333;MQM=59.3266,56.2416;MQMR=0;NS=21;NUMALT=2;ODDS=7.16202;PAIRED=0,0;PAIREDR=0;PAO=8.5,8.5;PQA=286,286;PQR=0;PRO=0;QA=44454,25180;QR=0;RO=0;RPL=1211,712;RPP=2431.36,1549.1;RPPR=0;RPR=32,0;RUN=1,1;SAF=22,0;SAP=2514.44,1549.1;SAR=1221,712;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:135:0,60,73:0:0:60,73:2140,2557:-382.294,-208.024,-189.962,-174.326,0,-152.351 1/2:92:0,38,54:0:0:38,54:1364,1899:-265.196,-153.936,-142.497,-110.86,0,-94.6042 1/2:114:0,48,65:0:0:48,65:1728,2319:-329.618,-188.703,-174.253,-140.92,0,-121.353 1/1:84:0,84,0:0:0:84,0:2999,0:-269.957,-25.2865,0,-269.957,-25.2865,-269.957 1/1:141:0,138,2:0:0:138,2:4917,72:-442.259,-41.5421,0,-436.386,-35.5818,-435.784 1/1:55:0,55,0:0:0:55,0:1958,0:-176.333,-16.5567,0,-176.333,-16.5567,-176.333 1/2:108:0,40,67:0:0:40,67:1428,2356:-307.418,-191.025,-178.984,-116.333,0,-96.1635 2/2:168:0,0,165:0:0:0,165:0,5850:-525.715,-525.715,-525.715,-49.67,-49.67,0 1/2:156:0,77,79:0:0:77,79:2756,2792:-452.216,-227.643,-204.463,-224.929,0,-201.147 1/2:36:0,14,22:0:0:14,22:504,779:-104.882,-63.7559,-59.5415,-41.4837,0,-34.861 1/2:6:0,3,3:0:0:3,3:108,108:-17.8827,-9.15779,-8.2547,-9.08288,0,-8.17979 1/2:50:0,24,26:0:0:24,26:864,931:-146.722,-76.2232,-68.9984,-70.8578,0,-63.0311 1/2:82:0,40,41:0:0:40,41:1440,1452:-235.676,-118.176,-106.135,-117.501,0,-105.158 1/2:107:0,67,40:0:0:67,40:2404,1402:-310.141,-114.365,-94.1958,-196.13,0,-184.088 1/1:224:0,223,0:0:0:223,0:7968,0:-716.639,-67.1297,0,-716.639,-67.1297,-716.639 1/1:61:0,61,0:0:0:61,0:2180,0:-196.149,-18.3628,0,-196.149,-18.3628,-196.149 1/1:89:0,88,0:0:0:88,0:3157,0:-283.816,-26.4906,0,-283.816,-26.4906,-283.816 1/2:93:0,47,46:0:0:47,46:1674,1642:-270.415,-134.11,-119.962,-136.66,0,-122.813 1/2:56:0,30,26:0:0:30,26:1063,928:-162.426,-75.8675,-66.8366,-86.9137,0,-79.087 1/1:61:0,57,3:0:0:57,3:2038,93:-183.054,-17.1587,0,-175.598,-9.78007,-174.694 1/1:49:0,49,0:0:0:49,0:1764,0:-159.032,-14.7505,0,-159.032,-14.7505,-159.032 chr03 3396642 . T C 13494.2 PASS AB=0.519931;ABP=5.00113;AC=28;AF=0.666667;AN=42;AO=672;CIGAR=1X;DP=983;DPB=983;DPRA=1.43939;EPP=1462.24;EPPR=676.167;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.16747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23875;QR=11112;RO=310;RPL=0;RPP=1462.24;RPPR=676.167;RPR=672;RUN=1;SAF=672;SAP=1462.24;SAR=0;SRF=310;SRP=676.167;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:14,16:14:500:16:572:-42.7825,0,-36.3053 0/1:20:9,11:9:324:11:388:-29.2368,0,-23.4853 0/1:59:33,26:33:1184:26:928:-66.0775,0,-89.1075 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 1/1:83:0,83:0:0:83:2936:-264.477,-24.9855,0 1/1:41:0,41:0:0:41:1441:-129.984,-12.3422,0 0/1:77:18,59:18:644:59:2092:-165.371,0,-35.1113 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/1:71:33,38:33:1180:38:1364:-101.688,0,-85.1349 0/1:13:3,10:3:108:10:346:-27.5593,0,-6.16178 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:52:28,24:28:1000:24:860:-62.0683,0,-74.6618 0/1:50:15,35:15:536:35:1248:-97.5734,0,-33.5233 1/1:55:0,55:0:0:55:1945:-175.324,-16.5567,0 1/1:34:0,33:0:0:33:1172:-105.428,-9.93399,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:117:78,39:78:2792:39:1392:-90.3585,0,-216.3 0/1:69:35,34:35:1260:34:1200:-87.5345,0,-92.9344 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 1/1:55:0,55:0:0:55:1939:-174.786,-16.5567,0 chr03 3396735 . G A 15559.3 PASS AB=0.611807;ABP=63.7066;AC=28;AF=0.666667;AN=42;AO=758;CIGAR=1X;DP=998;DPB=998;DPRA=2.72222;EPP=1648.99;EPPR=524.164;GTI=2;LEN=1;MEANALT=1;MQM=59.9617;MQMR=59.9667;NS=21;NUMALT=1;ODDS=1.65563;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27165;QR=8502;RO=240;RPL=0;RPP=1648.99;RPPR=524.164;RPR=758;RUN=1;SAF=0;SAP=1648.99;SAR=758;SRF=0;SRP=524.164;SRR=240;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:28,49:28:967:49:1760:-135.505,0,-64.1585 0/1:35:17,18:17:603:18:648:-48.1158,0,-44.0635 0/1:57:26,31:26:923:31:1112:-83.2326,0,-66.2281 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 1/1:116:2,114:2:72:114:4076:-360.185,-28.0828,0 1/1:38:2,36:2:72:36:1291:-109.657,-4.60242,0 0/1:50:22,28:22:779:28:995:-74.8117,0,-55.3806 0/0:18:18,0:18:624:0:0:0,-5.41854,-56.4814 0/1:40:7,33:7:252:33:1188:-95.1874,0,-10.9878 0/1:14:7,7:7:252:7:235:-17.2635,0,-18.8145 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:27:10,17:10:360:17:612:-47.2856,0,-24.6083 0/1:49:25,24:25:891:24:864:-63.3321,0,-65.7583 0/1:59:23,36:23:820:36:1296:-99.1832,0,-56.3617 1/1:75:0,75:0:0:75:2680:-241.445,-22.5773,0 1/1:43:0,43:0:0:43:1539:-138.803,-12.9443,0 1/1:49:1,48:1:36:48:1720:-151.487,-11.1522,0 0/1:79:31,48:31:1108:48:1713:-130.655,0,-76.2496 0/1:68:20,48:20:707:48:1728:-135.335,0,-43.4845 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:34:0,34:0:0:34:1224:-110.439,-10.235,0 chr03 3528037 . G A 25073.1 PASS AB=0.528479;ABP=15.0076;AC=14;AF=0.333333;AN=42;AO=1055;CIGAR=1X;DP=3224;DPB=3224;DPRA=1.42464;EPP=2293.91;EPPR=4712.93;GTI=0;LEN=1;MEANALT=1;MQM=59.8152;MQMR=59.9862;NS=21;NUMALT=1;ODDS=9.4862;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37755;QR=76833;RO=2169;RPL=584;RPP=29.2923;RPPR=80.94;RPR=471;RUN=1;SAF=584;SAP=29.2923;SAR=471;SRF=1224;SRP=80.94;SRR=945;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:65,82:65:2304:82:2944:-220.936,0,-163.368 0/1:178:79,99:79:2824:99:3544:-265.585,0,-200.816 0/1:135:55,80:55:1959:80:2872:-218.073,0,-135.946 0/0:154:154,0:154:5426:0:0:0,-46.3586,-488.448 0/0:370:364,6:364:12853:6:216:0,-91.5906,-1136.81 0/0:146:144,2:144:5151:2:72:0,-37.1137,-456.894 0/1:172:78,94:78:2784:94:3368:-251.521,0,-199.024 1/1:145:0,145:0:0:145:5186:-466.846,-43.6494,0 0/1:288:135,153:135:4804:153:5468:-405.545,0,-345.815 0/1:18:6,12:6:212:12:432:-33.8027,0,-14.0063 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:43:17,26:17:604:26:936:-71.6152,0,-41.7463 0/1:214:102,112:102:3606:112:4008:-296.355,0,-260.329 0/1:168:87,81:87:3037:81:2902:-210.82,0,-222.988 0/0:238:237,1:237:8405:1:36:0,-68.0469,-752.863 0/0:114:114,0:114:4063:0:0:0,-34.3174,-365.858 0/0:100:100,0:100:3542:0:0:0,-30.103,-318.991 0/1:193:87,106:87:3071:106:3774:-281.742,0,-218.52 0/1:142:89,53:89:3126:53:1889:-127.538,0,-238.821 0/0:165:164,1:164:5819:1:36:0,-46.0717,-520.228 0/0:89:89,0:89:3135:0:0:0,-26.7917,-282.366 chr03 3640860 . G T 21485.1 PASS AB=0.492208;ABP=3.41639;AC=28;AF=0.666667;AN=42;AO=1037;CIGAR=1X;DP=1451;DPB=1451;DPRA=3.76842;EPP=2254.83;EPPR=899.828;GTI=1;LEN=1;MEANALT=1.05;MQM=59.5988;MQMR=59.9346;NS=21;NUMALT=1;ODDS=0.52521;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37196;QR=14729;RO=413;RPL=0;RPP=2254.83;RPPR=899.828;RPR=1037;RUN=1;SAF=1037;SAP=2254.83;SAR=0;SRF=413;SRP=899.828;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:32,62:32:1137:62:2232:-172.836,0,-74.2538 0/1:65:34,31:34:1224:31:1112:-80.7495,0,-90.9001 0/1:85:36,49:36:1277:49:1751:-132.262,0,-89.6436 1/1:52:0,52:0:0:52:1868:-168.39,-15.6536,0 1/1:255:2,253:2:72:253:9080:-810.179,-69.9259,0 1/1:78:0,78:0:0:78:2774:-249.662,-23.4803,0 0/1:74:32,42:32:1140:42:1508:-113.721,0,-80.6306 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:180:127,53:127:4537:53:1904:-117.45,0,-354.308 0/1:11:9,2:9:320:2:72:-3.52539,0,-25.831 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:22:14,8:14:500:8:284:-19.2788,0,-38.7135 0/1:68:40,28:40:1428:28:1008:-70.5617,0,-108.347 0/1:71:28,43:28:974:43:1539:-117.408,0,-66.595 1/1:70:0,70:0:0:70:2516:-226.582,-21.0721,0 1/1:43:0,43:0:0:43:1548:-139.586,-12.9443,0 1/1:66:1,65:1:36:65:2336:-206.826,-16.2697,0 0/1:44:22,22:22:788:22:788:-57.9995,0,-57.9995 0/1:51:14,37:14:504:37:1324:-104.105,0,-30.3456 1/1:65:0,65:0:0:65:2328:-209.768,-19.567,0 1/1:33:0,32:0:0:32:1152:-103.6,-9.63296,0 chr03 3806214 . CCTAC CC 88078.9 PASS AB=0.427959;ABP=265.822;AC=28;AF=0.666667;AN=42;AO=4273;CIGAR=1M3D1M;DP=7870;DPB=5306.2;DPRA=1.5627;EPP=9281.71;EPPR=7742.14;GTI=2;LEN=3;MEANALT=2.2;MQM=59.9934;MQMR=59.9961;NS=21;NUMALT=1;ODDS=7.38158;PAIRED=0;PAIREDR=0;PAO=2.5;PQA=90;PQR=327;PRO=9.5;QA=138800;QR=121569;RO=3564;RPL=3217;RPP=2376.19;RPPR=3384.96;RPR=1056;RUN=1;SAF=3217;SAP=2376.19;SAR=1056;SRF=2960;SRP=3384.96;SRR=604;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:382:219,161:219:7541:161:5259:-358.776,0,-564.071 0/1:137:80,57:80:2737:57:1766:-117.639,0,-205.014 0/1:226:131,95:131:4555:95:3199:-220.106,0,-342.1 1/1:261:0,261:0:0:261:8391:-755.275,-78.5688,0 1/1:496:6,489:6:206:489:16075:-1427.68,-130.543,0 1/1:147:1,146:1:36:146:4718:-421.208,-41.013,0 0/1:178:90,86:90:3074:86:2757:-195.032,0,-223.556 0/0:244:242,0:242:8336:0:0:0,-72.8493,-749.946 0/1:398:202,196:202:6977:196:6712:-484.374,0,-508.213 0/1:866:510,350:510:17315:350:11278:-755.801,0,-1298.88 0/1:886:520,361:520:17654:361:11559:-774.776,0,-1323.08 0/1:984:545,436:545:18645:436:13999:-964.186,0,-1382.1 0/1:247:151,96:151:5257:96:3134:-207.934,0,-398.927 0/1:206:93,113:93:3150:113:3715:-272.55,0,-221.72 1/1:390:0,388:0:0:388:13064:-1175.29,-116.8,0 1/1:162:1,161:1:36:161:5366:-479.504,-45.1686,0 1/1:176:3,173:3:107:173:5773:-509.731,-42.9991,0 0/1:1202:718,476:718:24150:476:14731:-965.988,0,-1813.29 0/1:118:48,68:48:1676:68:2226:-165.325,0,-115.849 1/1:107:4,103:4:117:103:3309:-287.199,-21.4343,0 1/1:57:0,57:0:0:57:1769:-159.478,-17.1587,0 chr03 3843853 . C A 11047.5 PASS AB=0.477833;ABP=8.209;AC=14;AF=0.333333;AN=42;AO=653;CIGAR=1X;DP=2360;DPB=2360;DPRA=0.926844;EPP=1395.04;EPPR=3709.71;GTI=0;LEN=1;MEANALT=1;MQM=59.6953;MQMR=59.9941;NS=21;NUMALT=1;ODDS=2.79118;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23273;QR=60995;RO=1707;RPL=3;RPP=1395.04;RPPR=3709.71;RPR=650;RUN=1;SAF=0;SAP=1420.98;SAR=653;SRF=0;SRP=3709.71;SRR=1707;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:59,64:59:2116:64:2256:-165.544,0,-153.682 0/1:109:62,47:62:2232:47:1667:-117.369,0,-168.331 0/1:145:67,78:67:2404:78:2776:-206.431,0,-172.967 0/0:174:174,0:174:6225:0:0:0,-52.3792,-560.345 0/0:252:244,8:244:8742:8:288:0,-49.5921,-760.498 0/0:106:106,0:106:3770:0:0:0,-31.9092,-339.498 0/1:172:71,101:71:2556:101:3607:-273.031,0,-178.512 1/1:63:0,63:0:0:63:2244:-202.192,-18.9649,0 0/1:239:141,98:141:4999:98:3498:-242.993,0,-378.107 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:26:13,13:13:464:13:468:-34.6329,0,-34.2707 0/1:148:68,80:68:2423:80:2853:-212.422,0,-173.773 0/1:68:34,34:34:1207:34:1204:-88.1943,0,-88.4652 0/0:227:227,0:227:8107:0:0:0,-68.3338,-729.647 0/0:81:81,0:81:2862:0:0:0,-24.3834,-257.816 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/1:87:51,36:51:1817:36:1296:-90.7497,0,-137.62 0/1:80:58,22:58:2075:22:792:-47.5233,0,-162.937 0/0:113:113,0:113:4048:0:0:0,-34.0164,-364.507 0/0:56:56,0:56:2000:0:0:0,-16.8577,-180.274 chr03 3844031 . A G 24509.6 PASS AB=0.655573;ABP=274.619;AC=15;AF=0.357143;AN=42;AO=1085;CIGAR=1X;DP=2105;DPB=2105;DPRA=2.38439;EPP=2359.06;EPPR=2217.91;GTI=1;LEN=1;MEANALT=1;MQM=46.6857;MQMR=59.9186;NS=21;NUMALT=1;ODDS=1.5914;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38289;QR=36197;RO=1020;RPL=579;RPP=13.6755;RPPR=2200.57;RPR=506;RUN=1;SAF=579;SAP=13.6755;SAR=506;SRF=2;SRP=2200.57;SRR=1018;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:44,87:44:1560:87:3079:-225.695,0,-101.257 0/1:52:20,32:20:703:32:1143:-81.8733,0,-47.94 0/1:190:69,121:69:2450:121:4285:-312.2,0,-162.932 0/0:47:47,0:47:1671:0:0:0,-14.1484,-150.677 0/0:142:138,4:138:4885:4:140:0,-30.611,-427.669 0/0:82:79,3:79:2794:3:108:0,-15.9383,-242.955 0/1:167:40,127:40:1412:127:4449:-323.959,0,-77.0937 1/1:216:0,216:0:0:216:7602:-640.261,-65.0225,0 0/1:149:56,93:56:1995:93:3290:-236.638,0,-134.97 0/1:21:5,16:5:180:16:576:-44.2578,0,-10.2304 1/1:12:1,11:1:36:11:381:-27.6129,-0.0140851,0 0/1:38:14,24:14:495:24:856:-58.9681,0,-33.4439 0/1:189:61,128:61:2160:128:4507:-329.996,0,-137.77 0/1:157:61,96:61:2154:96:3387:-246.722,0,-146.865 0/0:117:116,1:116:4118:1:36:0,-31.6222,-367.209 0/0:48:47,1:47:1649:1:36:0,-11.1504,-143.945 0/0:42:42,0:42:1512:0:0:0,-12.6433,-136.375 0/1:106:31,75:31:1108:75:2639:-193.016,0,-68.1218 0/1:92:44,48:44:1563:48:1703:-119.067,0,-113.266 0/0:56:55,1:55:1964:1:36:0,-13.2594,-173.437 0/0:51:50,1:50:1788:1:36:0,-11.7543,-157.604 chr03 3844040 . G A 10979.1 PASS AB=0.512514;ABP=4.26026;AC=14;AF=0.333333;AN=42;AO=561;CIGAR=1X;DP=1592;DPB=1592;DPRA=0.946372;EPP=1221.21;EPPR=2233.11;GTI=0;LEN=1;MEANALT=1.05882;MQM=57.918;MQMR=59.9873;NS=21;NUMALT=1;ODDS=0.192435;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19960;QR=36468;RO=1027;RPL=45;RPP=861.694;RPPR=2233.11;RPR=516;RUN=1;SAF=45;SAP=861.694;SAR=516;SRF=0;SRP=2233.11;SRR=1027;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:44,39:44:1548:39:1391:-99.1384,0,-114.624 0/1:42:20,22:20:698:22:784:-58.2407,0,-50.4982 0/1:126:70,56:70:2508:56:1998:-142.163,0,-188.042 0/0:50:50,0:50:1764:0:0:0,-15.0515,-159.041 0/0:139:137,0:137:4837:0:0:0,-41.2411,-435.125 0/0:83:83,0:83:2945:0:0:0,-24.9855,-265.284 0/1:112:43,69:43:1527:69:2428:-185.057,0,-103.979 1/1:86:0,86:0:0:86:3057:-274.582,-25.8886,0 0/1:148:54,94:54:1936:94:3368:-244.598,0,-129.964 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:22:14,8:14:495:8:288:-19.6447,0,-38.2604 0/1:122:60,62:60:2156:62:2177:-159.467,0,-157.581 0/1:116:61,55:61:2156:55:1968:-142.476,0,-159.386 0/0:116:113,1:113:4004:1:36:0,-31.079,-356.953 0/0:48:47,1:47:1655:1:36:0,-11.1504,-145.935 0/0:45:45,0:45:1603:0:0:0,-13.5463,-144.559 0/1:66:31,35:31:1116:35:1245:-92.4838,0,-80.8837 0/1:63:45,18:45:1612:18:644:-39.3257,0,-126.405 0/0:56:55,1:55:1967:1:36:0,-13.2594,-173.706 0/0:50:49,1:49:1725:1:36:0,-11.4532,-151.935 chr03 3844150 . TC GG 12002.1 PASS AB=0.402724;ABP=45.2568;AC=27;AF=0.642857;AN=42;AO=493;CIGAR=2X;DP=832;DPB=832;DPRA=1.25;EPP=15.3828;EPPR=5.32269;GTI=2;LEN=2;MEANALT=1;MQM=56.3245;MQMR=59.9174;NS=21;NUMALT=1;ODDS=0.882641;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16951;QR=11681;RO=339;RPL=491;RPP=1056.24;RPPR=713.312;RPR=2;RUN=1;SAF=218;SAP=17.3209;SAR=275;SRF=159;SRP=5.83514;SRR=180;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:11:5,6:5:180:6:190:-13.9876,0,-13.2407 0/1:8:2,6:2:72:6:214:-17.1602,0,-4.42848 0/1:28:18,10:18:633:10:345:-22.9392,0,-48.8566 1/1:42:0,42:0:0:42:1439:-129.696,-12.6433,0 1/1:42:0,42:0:0:42:1473:-132.797,-12.6433,0 1/1:22:0,22:0:0:22:738:-66.6098,-6.62266,0 0/1:69:48,21:48:1596:21:725:-44.6189,0,-123.145 0/0:32:32,0:32:1097:0:0:0,-9.63296,-99.0323 0/1:60:40,20:40:1381:20:691:-44.3251,0,-106.519 0/1:5:4,1:4:131:1:36:-1.68247,0,-10.6075 0/1:5:4,1:4:137:1:36:-2.08133,0,-11.1622 0/1:18:11,7:11:376:7:247:-17.1204,0,-28.7493 0/1:64:40,24:40:1417:24:816:-54.4244,0,-108.562 0/1:34:19,15:19:665:15:533:-38.0409,0,-49.939 1/1:30:0,30:0:0:30:998:-90.0796,-9.0309,0 1/1:12:0,12:0:0:12:413:-37.457,-3.61236,0 0/1:4:1,3:1:36:3:108:-8.86917,0,-2.39415 0/1:109:69,40:69:2352:40:1356:-89.4468,0,-179.119 0/1:99:46,53:46:1608:53:1801:-132.44,0,-115.205 1/1:61:0,61:0:0:61:2113:-190.282,-18.3628,0 1/1:77:0,77:0:0:77:2679:-240.736,-23.1793,0 chr03 3844181 . C A,T 29166.7 PASS AB=0.545886,0.454114;ABP=14.5686,14.5686;AC=28,14;AF=0.666667,0.333333;AN=42;AO=763,321;CIGAR=1X,1X;DP=1084;DPB=1084;DPRA=1.59242,0.838272;EPP=1659.84,691.394;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.65,1.92857;MQM=57.8244,59.9128;MQMR=0;NS=21;NUMALT=2;ODDS=3.5427;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27271,11489;QR=0;RO=0;RPL=273,174;RPP=137.024,7.94177;RPPR=0;RPR=490,147;RUN=1,1;SAF=490,148;SAP=137.024,7.23824;SAR=273,173;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:34:0,19,15:0:0:19,15:680,536:-99.4007,-44.0594,-38.3398,-55.6985,0,-51.183 1/2:34:0,22,12:0:0:22,12:780,432:-99.0389,-35.6088,-28.9862,-63.7878,0,-60.1755 1/2:43:0,31,12:0:0:31,12:1112,428:-125.924,-35.2357,-25.9038,-91.0453,0,-87.433 1/1:68:0,68,0:0:0:68,0:2436,0:-219.419,-20.47,0,-219.419,-20.47,-219.419 1/1:67:0,67,0:0:0:67,0:2396,0:-215.835,-20.169,0,-215.835,-20.169,-215.835 1/1:19:0,19,0:0:0:19,0:684,0:-61.7514,-5.71957,0,-61.7514,-5.71957,-61.7514 1/2:80:0,41,39:0:0:41,39:1449,1392:-231.644,-113.828,-101.486,-118.17,0,-106.43 2/2:33:0,0,33:0:0:0,33:0,1173:-105.876,-105.876,-105.876,-9.93399,-9.93399,0 1/2:45:0,20,25:0:0:20,25:720,896:-132.166,-73.4328,-67.4122,-59.0927,0,-51.567 1/2:10:0,8,2:0:0:8,2:288,72:-29.3603,-6.23466,-3.82642,-23.4844,0,-22.8824 1/2:7:0,6,1:0:0:6,1:216,36:-20.911,-3.29724,-1.49106,-17.9735,0,-17.6725 1/2:24:0,10,14:0:0:10,14:360,500:-70.4496,-41.1171,-38.1068,-29.6908,0,-25.4764 1/2:57:0,27,30:0:0:27,30:960,1076:-166.304,-88.122,-79.9941,-78.5385,0,-69.5076 1/2:52:0,25,27:0:0:25,27:888,968:-151.642,-79.3096,-71.7838,-72.6889,0,-64.5611 1/1:70:0,70,0:0:0:70,0:2493,0:-224.583,-21.0721,0,-224.583,-21.0721,-224.583 1/1:31:0,31,0:0:0:31,0:1116,0:-100.724,-9.33193,0,-100.724,-9.33193,-100.724 1/1:14:0,13,1:0:0:13,1:468,36:-42.098,-3.91339,0,-39.1606,-0.616145,-38.8595 1/2:142:0,67,75:0:0:67,75:2404,2688:-415.607,-219.587,-199.418,-196.378,0,-173.801 1/2:104:0,69,35:0:0:69,35:2453,1256:-302.615,-102.809,-82.0382,-200.163,0,-189.627 1/1:67:0,67,0:0:0:67,0:2392,0:-215.358,-20.169,0,-215.358,-20.169,-215.358 1/1:83:0,83,0:0:0:83,0:2976,0:-267.487,-24.9855,0,-267.487,-24.9855,-267.487 chr03 3884177 . G A 18615.8 PASS AB=0.570715;ABP=29.1149;AC=28;AF=0.666667;AN=42;AO=901;CIGAR=1X;DP=1180;DPB=1180;DPRA=2.9;EPP=1959.51;EPPR=591.604;GTI=2;LEN=1;MEANALT=1;MQM=59.9734;MQMR=59.9892;NS=21;NUMALT=1;ODDS=1.67542;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32041;QR=9904;RO=279;RPL=901;RPP=1959.51;RPPR=591.604;RPR=0;RUN=1;SAF=0;SAP=1959.51;SAR=901;SRF=0;SRP=608.851;SRR=279;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:12,9:12:432:9:309:-21.8191,0,-32.8996 0/1:30:11,19:11:392:19:684:-52.8594,0,-26.5892 0/1:50:21,29:21:739:29:1025:-77.5092,0,-51.7809 1/1:76:0,76:0:0:76:2701:-243.333,-22.8783,0 1/1:122:0,122:0:0:122:4364:-392.935,-36.7257,0 1/1:56:0,56:0:0:56:1966:-177.212,-16.8577,0 0/1:72:22,50:22:788:50:1784:-139.169,0,-49.5706 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4067 0/1:110:47,63:47:1679:63:2232:-168.03,0,-118.282 0/1:6:2,4:2:64:4:144:-11.5074,0,-4.27251 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:77:34,43:34:1204:43:1536:-115.354,0,-85.4865 0/1:90:43,47:43:1515:47:1665:-123.043,0,-109.55 1/1:61:0,61:0:0:61:2164:-195.025,-18.3628,0 1/1:63:0,63:0:0:63:2264:-204.022,-18.9649,0 1/1:54:0,54:0:0:54:1906:-171.814,-16.2556,0 0/1:79:41,38:41:1447:38:1347:-97.7481,0,-106.744 0/1:54:20,34:20:716:34:1208:-92.7705,0,-48.5121 1/1:69:0,69:0:0:69:2452:-220.904,-20.7711,0 1/1:58:1,57:1:36:57:2038:-180.093,-13.8615,0 chr03 3904230 . GT AC,AT 24713.7 PASS AB=0.595395,0.404605;ABP=51.0684,51.0684;AC=28,14;AF=0.666667,0.333333;AN=42;AO=961,267;CIGAR=2X,1X1M;DP=1228;DPB=1228;DPRA=3.18158,0.699219;EPP=2089.8,582.793;EPPR=0;GTI=3;LEN=2,1;MEANALT=1.65,1.92857;MQM=59.9823,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.90726;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32625,9550;QR=0;RO=0;RPL=0,0;RPP=2089.8,582.793;RPPR=0;RPR=961,267;RUN=1,1;SAF=961,267;SAP=2089.8,582.793;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,23,20:0:0:23,20:771,701:-119.823,-57.3911,-50.4674,-62.7749,0,-56.7543 1/2:33:0,25,8:0:0:25,8:859,288:-93.5988,-23.8592,-16.3334,-70.0955,0,-67.6872 1/2:51:0,29,22:0:0:29,22:982,792:-144.586,-64.983,-56.2531,-79.9535,0,-73.3308 1/1:52:0,52,0:0:0:52,0:1766,0:-159.213,-15.6536,0,-159.213,-15.6536,-159.213 1/1:175:0,175,0:0:0:175,0:5979,0:-538.229,-52.6803,0,-538.229,-52.6803,-538.229 1/1:89:0,87,2:0:0:87,2:2834,72:-254.939,-26.1896,0,-249.064,-19.9549,-248.462 1/2:76:0,43,33:0:0:43,33:1438,1188:-213.705,-97.2946,-84.3503,-116.759,0,-106.825 2/2:19:0,0,19:0:0:0,19:0,680:-61.5292,-61.5292,-61.5292,-5.71957,-5.71957,0 1/2:108:0,55,53:0:0:55,53:1881,1904:-308.339,-155.683,-139.126,-153.006,0,-137.051 1/2:8:0,6,2:0:0:6,2:216,72:-23.8592,-6.23466,-4.42848,-17.9843,0,-17.3823 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/2:24:0,15,9:0:0:15,9:519,316:-68.2414,-26.0696,-21.5541,-42.5209,0,-39.8116 1/2:78:0,45,33:0:0:45,33:1576,1180:-224.801,-96.5741,-83.0277,-128.581,0,-118.648 1/2:71:0,40,31:0:0:40,31:1353,1101:-199.722,-90.0664,-78.0252,-110.004,0,-100.672 1/1:95:0,95,0:0:0:95,0:3254,0:-293.082,-28.5979,0,-293.082,-28.5979,-293.082 1/1:31:0,31,0:0:0:31,0:1067,0:-96.3332,-9.33193,0,-96.3332,-9.33193,-96.3332 1/1:33:0,33,0:0:0:33,0:1141,0:-102.992,-9.93399,0,-102.992,-9.93399,-102.992 1/2:55:0,31,24:0:0:31,24:1060,864:-156.877,-70.8578,-61.5259,-86.3709,0,-79.1462 1/2:55:0,47,8:0:0:47,8:1540,284:-147.873,-23.4951,-9.3467,-124.729,0,-122.32 1/1:79:0,79,0:0:0:79,0:2735,0:-246.391,-23.7814,0,-246.391,-23.7814,-246.391 1/1:47:0,47,0:0:0:47,0:1546,0:-139.417,-14.1484,0,-139.417,-14.1484,-139.417 chr03 3904270 . C T 3888.62 PASS AB=0.406091;ABP=48.2805;AC=14;AF=0.333333;AN=42;AO=262;CIGAR=1X;DP=1191;DPB=1191;DPRA=1.09342;EPP=571.936;EPPR=2020.31;GTI=3;LEN=1;MEANALT=1;MQM=60;MQMR=59.9656;NS=21;NUMALT=1;ODDS=2.38005;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9326;QR=32872;RO=929;RPL=262;RPP=571.936;RPPR=2020.31;RPR=0;RUN=1;SAF=262;SAP=571.936;SAR=0;SRF=929;SRP=2020.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:23,20:23:820:20:705:-50.8294,0,-61.1782 0/1:31:24,7:24:855:7:252:-13.697,0,-67.9382 0/1:52:30,22:30:1072:22:792:-55.9521,0,-81.1389 0/0:49:49,0:49:1730:0:0:0,-14.7505,-155.983 0/0:177:176,1:176:6237:1:36:0,-49.684,-557.828 0/0:85:83,2:83:2915:2:72:0,-18.7508,-255.744 0/1:74:41,33:41:1460:33:1184:-84.5921,0,-109.42 1/1:19:0,19:0:0:19:665:-60.1728,-5.71957,0 0/1:104:52,52:52:1851:52:1868:-137.092,0,-135.562 0/1:8:6,2:6:212:2:72:-4.42848,0,-17.0166 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:24:15,9:15:536:9:300:-20.0974,0,-41.3501 0/1:75:44,31:44:1576:31:1101:-76.8211,0,-119.554 0/1:66:36,30:36:1225:30:1063:-76.1128,0,-90.6768 0/0:89:89,0:89:3159:0:0:0,-26.7917,-284.534 0/0:30:30,0:30:1067:0:0:0,-9.0309,-96.3412 0/0:32:32,0:32:1128:0:0:0,-9.63296,-101.828 0/1:55:32,23:32:1144:23:824:-57.9267,0,-86.7129 0/1:53:45,8:45:1566:8:284:-9.94876,0,-125.275 0/0:75:75,0:75:2668:0:0:0,-22.5772,-240.364 0/0:44:44,0:44:1543:0:0:0,-13.2453,-139.158 chr03 3904277 . C G 3778 PASS AB=0.403087;ABP=50.5704;AC=14;AF=0.333333;AN=42;AO=257;CIGAR=1X;DP=1192;DPB=1192;DPRA=0.689621;EPP=561.079;EPPR=2031.17;GTI=3;LEN=1;MEANALT=1;MQM=60;MQMR=59.9722;NS=21;NUMALT=1;ODDS=2.1989;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9107;QR=32825;RO=934;RPL=257;RPP=561.079;RPPR=2031.17;RPR=0;RUN=1;SAF=257;SAP=561.079;SAR=0;SRF=934;SRP=2031.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:22,20:22:780:20:716:-52.1245,0,-57.8798 0/1:32:25,7:25:869:7:248:-13.0312,0,-68.8909 0/1:51:30,21:30:1067:21:756:-53.0147,0,-80.9887 0/0:51:50,0:50:1784:0:0:0,-15.0515,-160.483 0/0:178:178,0:178:6231:0:0:0,-53.5833,-560.891 0/0:88:86,2:86:3005:2:72:0,-19.6539,-263.838 0/1:74:42,32:42:1479:32:1124:-79.1912,0,-111.125 1/1:20:0,20:0:0:20:701:-63.4117,-6.0206,0 0/1:102:51,51:51:1798:51:1804:-131.934,0,-131.396 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:24:15,9:15:540:9:316:-21.5536,0,-41.7118 0/1:75:43,32:43:1522:32:1148:-81.0526,0,-114.694 0/1:64:36,28:36:1228:28:979:-69.1561,0,-91.5383 0/0:89:89,0:89:3149:0:0:0,-26.7917,-283.636 0/0:31:31,0:31:1103:0:0:0,-9.33193,-99.5798 0/0:32:32,0:32:1124:0:0:0,-9.63296,-101.465 0/1:54:32,22:32:1120:22:788:-54.9892,0,-84.8493 0/1:51:43,8:43:1482:8:275:-9.73095,0,-118.316 0/0:75:75,0:75:2674:0:0:0,-22.5772,-240.905 0/0:45:45,0:45:1546:0:0:0,-13.5463,-139.426 chr03 3904483 . C A 31494.9 PASS AB=0.510401;ABP=4.27511;AC=28;AF=0.666667;AN=42;AO=1558;CIGAR=1X;DP=2401;DPB=2401;DPRA=0.628249;EPP=3386.16;EPPR=1833.56;GTI=0;LEN=1;MEANALT=1;MQM=55.2991;MQMR=59.9502;NS=21;NUMALT=1;ODDS=4.90684;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55649;QR=30094;RO=843;RPL=0;RPP=3386.16;RPPR=1833.56;RPR=1558;RUN=1;SAF=0;SAP=3386.16;SAR=1558;SRF=0;SRP=1833.56;SRR=843;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:59,59:59:2115:59:2083:-151.723,0,-155.097 0/1:106:35,71:35:1260:71:2548:-197.017,0,-81.7963 0/1:148:87,61:87:3115:61:2192:-152.679,0,-236.024 1/1:164:0,164:0:0:164:5877:-528.29,-49.3689,0 1/1:183:2,181:2:72:181:6479:-575.198,-48.2518,0 1/1:33:1,32:1:36:32:1152:-100.182,-6.33572,0 0/1:160:94,66:94:3343:66:2341:-162.369,0,-252.924 0/0:177:177,0:177:6325:0:0:0,-53.2823,-569.332 0/1:230:106,124:106:3786:124:4410:-327.172,0,-271.701 0/1:16:4,12:4:144:12:428:-33.9937,0,-8.49714 0/1:5:3,2:3:104:2:72:-5.32453,0,-8.19766 0/1:20:7,13:7:252:13:468:-36.1296,0,-17.0084 0/1:222:101,121:101:3597:121:4344:-323.548,0,-257.108 0/1:136:80,56:80:2852:56:2000:-139.118,0,-215.979 1/1:112:0,112:0:0:112:4009:-360.319,-33.7154,0 1/1:106:1,105:1:21:105:3768:-336.767,-29.8603,0 1/1:107:0,107:0:0:107:3808:-342.123,-32.2102,0 0/1:118:60,58:60:2136:58:2048:-148.559,0,-156.984 0/1:67:23,44:23:828:44:1555:-119.8,0,-54.6751 1/1:85:1,84:1:36:84:3004:-266.499,-21.9893,0 1/1:88:2,86:2:72:86:3063:-268.397,-19.6539,0 chr03 3904503 . CA TG,TA 42509.5 PASS AB=0.542453,0.454403;ABP=22.9223,25.9815;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1573,746;CIGAR=2X,1X1M;DP=2329;DPB=2329;DPRA=0.664417,0.920824;EPP=3410.06,1614.25;EPPR=5.18177;GTI=1;LEN=2,1;MEANALT=2.2,2.23529;MQM=55.2721,59.9839;MQMR=60;NS=21;NUMALT=2;ODDS=2.46168;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48974,26089;QR=25;RO=1;RPL=1,1;RPP=3410.06,1614.25;RPPR=5.18177;RPR=1572,745;RUN=1,1;SAF=0,0;SAP=3418.74,1622.93;SAR=1573,746;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,56,50:0:0:56,50:1693,1697:-273.142,-137.954,-121.097,-135.509,0,-120.458 1/2:106:0,74,32:0:0:74,32:2272,1131:-274.302,-92.4654,-70.1892,-182.176,0,-172.543 1/2:138:0,61,77:0:0:61,77:1897,2647:-367.468,-215.29,-196.927,-152.503,0,-129.324 1/1:164:0,162,0:0:0:162,0:5104,0:-458.715,-48.7669,0,-458.715,-48.7669,-458.715 1/1:184:0,182,2:0:0:182,2:5822,72:-522.882,-54.7875,0,-517.006,-48.5528,-516.404 1/1:33:0,32,1:0:0:32,1:1002,36:-90.0422,-9.63296,0,-87.1034,-6.33572,-86.8023 1/2:156:0,71,85:0:0:71,85:2177,2986:-417.665,-243.385,-222.012,-174.606,0,-149.019 2/2:163:0,0,163:0:0:0,163:0,5715:-514.47,-514.47,-514.47,-49.0679,-49.0679,0 1/2:220:0,124,96:0:0:124,96:3896,3377:-588.066,-275.25,-237.922,-313.151,0,-284.252 1/2:14:0,12,2:0:0:12,2:338,68:-32.5933,-5.85565,-2.24329,-27.0692,0,-26.4671 1/2:4:0,2,2:0:0:2,2:59,68:-10.5376,-5.85565,-5.25359,-4.99927,0,-4.39721 1/2:19:0,14,5:0:0:14,5:452,180:-51.2237,-15.0469,-10.8325,-36.5264,0,-35.0212 1/2:208:0,120,88:0:0:120,88:3741,3083:-551.304,-251.207,-215.083,-300.431,0,-273.941 1/2:130:0,58,72:0:0:58,72:1773,2557:-350.593,-208.705,-191.245,-142.215,0,-120.541 1/1:115:0,114,1:0:0:114,1:3556,36:-319.326,-34.3174,0,-316.388,-31.0202,-316.087 1/1:111:0,110,0:0:0:110,0:3461,0:-311.041,-33.1133,0,-311.041,-33.1133,-311.041 1/1:111:0,111,0:0:0:111,0:3534,0:-317.817,-33.4143,0,-317.817,-33.4143,-317.817 1/2:111:0,57,53:0:0:57,53:1718,1850:-287.796,-150.619,-133.46,-137.299,0,-121.345 1/2:60:1,41,16:1:25:41,16:1189,550:-136.998,-42.8111,-32.4135,-92.6203,0,-89.7519 1/1:88:0,85,1:0:0:85,1:2708,36:-243.342,-25.5876,0,-240.404,-22.6285,-240.103 1/1:88:0,87,0:0:0:87,0:2582,0:-232.06,-26.1896,0,-232.06,-26.1896,-232.06 chr03 3915858 . 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T G 5278.22 PASS AB=0.540146;ABP=10.6818;AC=14;AF=0.333333;AN=42;AO=316;CIGAR=1X;DP=1068;DPB=1068;DPRA=1.37557;EPP=689.196;EPPR=1635.96;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.2793;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11324;QR=26960;RO=752;RPL=0;RPP=689.196;RPPR=1635.96;RPR=316;RUN=1;SAF=316;SAP=689.196;SAR=0;SRF=752;SRP=1635.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:18,19:18:648:19:672:-49.6687,0,-47.5138 0/1:58:32,26:32:1148:26:928:-66.3785,0,-86.1701 0/1:52:24,28:24:864:28:1008:-75.3828,0,-62.429 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/0:139:136,3:136:4865:3:108:0,-31.768,-427.926 0/0:48:47,1:47:1675:1:36:0,-10.8512,-147.438 0/1:72:32,40:32:1144:40:1432:-107.503,0,-81.5954 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:54:19,35:19:684:35:1252:-96.7295,0,-45.6347 0/1:12:10,2:10:360:2:72:-3.22436,0,-29.1319 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:70:24,46:24:864:46:1652:-127.896,0,-57.0105 0/1:36:12,24:12:428:24:864:-67.2455,0,-28.0217 0/0:98:97,1:97:3472:1:36:0,-25.9027,-309.094 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/1:88:41,47:41:1468:47:1684:-125.356,0,-105.925 0/1:48:32,16:32:1144:16:572:-37.364,0,-88.8201 0/0:68:64,4:64:2304:4:144:0,-7.15642,-194.307 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 chr03 3915866 . C T 5256.58 PASS AB=0.540441;ABP=10.7382;AC=14;AF=0.333333;AN=42;AO=315;CIGAR=1X;DP=1067;DPB=1067;DPRA=1.38444;EPP=687.024;EPPR=1635.96;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.9787;NS=21;NUMALT=1;ODDS=0.00811156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11279;QR=26921;RO=752;RPL=0;RPP=687.024;RPPR=1635.96;RPR=315;RUN=1;SAF=315;SAP=687.024;SAR=0;SRF=752;SRP=1635.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:18,18:18:648:18:644:-47.4535,0,-47.8148 0/1:59:32,27:32:1144:27:972:-70.0371,0,-85.5087 0/1:52:24,28:24:860:28:1008:-75.3828,0,-62.0683 0/0:44:44,0:44:1568:0:0:0,-13.2453,-141.412 0/0:144:141,3:141:5017:3:108:0,-33.2731,-441.603 0/0:46:45,1:45:1616:1:36:0,-10.2491,-142.132 0/1:71:33,38:33:1180:38:1356:-100.967,0,-85.1349 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:54:19,35:19:684:35:1260:-97.4499,0,-45.6347 0/1:12:10,2:10:360:2:72:-3.22436,0,-29.1319 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:71:24,47:24:860:47:1663:-128.584,0,-56.3487 0/1:36:12,24:12:428:24:860:-66.8848,0,-28.0217 0/0:98:97,1:97:3484:1:36:0,-25.9027,-310.116 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/1:86:40,46:40:1432:46:1644:-122.36,0,-103.289 0/1:46:30,16:30:1072:16:576:-38.3276,0,-82.9451 0/0:68:64,4:64:2292:4:144:0,-7.15642,-193.228 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 chr03 3925355 . C T 10075.8 PASS AB=0.465257;ABP=13.4216;AC=15;AF=0.357143;AN=42;AO=573;CIGAR=1X;DP=1411;DPB=1411;DPRA=1.81311;EPP=1247.26;EPPR=1820.53;GTI=2;LEN=1;MEANALT=1.07143;MQM=59.9825;MQMR=59.9438;NS=21;NUMALT=1;ODDS=4.47543;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20507;QR=29996;RO=837;RPL=0;RPP=1247.26;RPPR=1820.53;RPR=573;RUN=1;SAF=573;SAP=1247.26;SAR=0;SRF=837;SRP=1820.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:32,46:32:1148:46:1648:-125.128,0,-79.9592 0/1:69:30,39:30:1068:39:1400:-105.528,0,-75.661 0/1:98:50,48:50:1796:48:1716:-125.222,0,-132.421 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:90:81,9:81:2904:9:324:-2.41316,0,-234.503 0/0:48:48,0:48:1712:0:0:0,-14.4494,-154.358 0/1:118:72,46:72:2588:46:1647:-112.997,0,-197.647 1/1:113:1,111:1:36:111:3988:-355.506,-30.4769,0 0/1:121:58,63:58:2076:63:2260:-167.238,0,-150.686 0/1:19:11,8:11:388:8:284:-20.1838,0,-29.5378 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:31:12,19:12:432:19:676:-51.8361,0,-29.8893 0/1:55:38,17:38:1368:17:612:-38.8568,0,-106.864 0/1:93:27,66:27:964:66:2340:-182.862,0,-59.081 0/0:96:96,0:96:3448:0:0:0,-28.8989,-310.532 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/1:152:69,83:69:2464:83:2964:-221.237,0,-176.258 0/1:61:49,12:49:1760:12:432:-20.8584,0,-140.321 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.401 chr03 3964561 . GATCTC AATATT,AATCTC 40364.8 PASS AB=0.533654,0.4625;ABP=13.2413,15.7134;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1367,596;CIGAR=1X2M1X1M1X,1X5M;DP=1969;DPB=1969.17;DPRA=0.9345,2.09106;EPP=2971.41,1297.21;EPPR=0;GTI=0;LEN=6,1;MEANALT=2.05,2.3125;MQM=59.7703,59.9849;MQMR=0;NS=21;NUMALT=2;ODDS=10.8076;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=47388,21247;QR=0;RO=0;RPL=0,0;RPP=2971.41,1297.21;RPPR=0;RPR=1367,596;RUN=1,1;SAF=0,0;SAP=2971.41,1297.21;SAR=1367,596;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,54,72:0:0:54,72:1867,2556:-360.319,-208.615,-192.359,-152.054,0,-130.379 1/2:59:0,38,21:0:0:38,21:1313,739:-167.187,-60.5107,-49.0716,-107.026,0,-100.705 1/2:73:0,42,30:0:0:42,30:1472,1072:-207.283,-87.5082,-74.8649,-119.875,0,-110.844 1/1:82:0,82,0:0:0:82,0:2844,0:-256.197,-24.6845,0,-256.197,-24.6845,-256.197 1/1:244:0,237,6:0:0:237,6:8230,216:-740.375,-71.3441,0,-722.75,-53.6709,-720.944 1/1:50:0,50,0:0:0:50,0:1755,0:-158.204,-15.0515,0,-158.204,-15.0515,-158.204 1/2:156:0,92,63:0:0:92,63:3167,2251:-440.581,-183.528,-155.833,-257.045,0,-238.08 2/2:100:0,0,100:0:0:0,100:0,3575:-321.957,-321.957,-321.957,-30.103,-30.103,0 1/2:221:0,125,95:0:0:125,95:4318,3404:-628.591,-277.765,-240.136,-350.967,0,-322.369 1/2:17:0,8,8:0:0:8,8:280,288:-46.3513,-23.5703,-21.1621,-22.8436,0,-20.4354 1/1:4:0,4,0:0:0:4,0:141,0:-13.0371,-1.20412,0,-13.0371,-1.20412,-13.0371 1/2:14:0,8,6:0:0:8,6:274,216:-40.2156,-17.9843,-15.5761,-22.5836,0,-20.7774 1/2:98:0,34,64:0:0:34,64:1163,2280:-280.586,-186.196,-175.961,-94.7366,0,-75.4707 1/2:114:0,48,66:0:0:48,66:1646,2348:-325.31,-191.709,-177.259,-133.95,0,-114.082 1/1:134:0,132,1:0:0:132,1:4567,36:-410.86,-39.736,0,-407.923,-36.7736,-407.622 1/1:61:0,61,0:0:0:61,0:2089,0:-188.267,-18.3628,0,-188.267,-18.3628,-188.267 1/1:70:0,69,1:0:0:69,1:2388,36:-214.821,-20.7711,0,-211.883,-17.4738,-211.582 1/2:90:0,60,30:0:0:60,30:2083,1054:-255.462,-86.1383,-68.0765,-169.673,0,-160.643 1/2:72:0,46,26:0:0:46,26:1611,928:-207.075,-76.0115,-62.1641,-131.418,0,-123.591 1/1:125:0,118,7:0:0:118,7:4139,248:-372.343,-35.5215,0,-352.14,-14.9646,-350.033 1/1:59:0,59,0:0:0:59,0:2041,0:-183.962,-17.7608,0,-183.962,-17.7608,-183.962 chr03 3990078 . G A 6082.96 PASS AB=0.437984;ABP=20.2474;AC=14;AF=0.333333;AN=42;AO=274;CIGAR=1X;DP=925;DPB=925;DPRA=0.852339;EPP=14.4541;EPPR=49.5266;GTI=1;LEN=1;MEANALT=1;MQM=59.9526;MQMR=60;NS=21;NUMALT=1;ODDS=2.47521;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9712;QR=22909;RO=650;RPL=0;RPP=597.994;RPPR=1397.15;RPR=274;RUN=1;SAF=156;SAP=14.4541;SAR=118;SRF=386;SRP=52.7337;SRR=264;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:29,19:29:1024:19:680:-47.0797,0,-78.0232 0/1:40:17,23:17:608:23:819:-61.9904,0,-43.0108 0/1:20:8,12:8:284:12:419:-32.0221,0,-19.8828 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:55:55,0:55:1945:0:0:0,-16.5566,-175.324 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 0/1:69:37,32:37:1308:32:1135:-81.6833,0,-97.2477 1/1:47:0,47:0:0:47:1673:-150.855,-14.1484,0 0/1:38:22,16:22:783:16:557:-39.0164,0,-59.3538 0/1:7:2,5:2:72:5:176:-14.0778,0,-4.72951 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:12:5,7:5:180:7:237:-18.0467,0,-12.9397 0/1:51:28,23:28:978:23:828:-59.4916,0,-72.9786 0/1:42:18,24:18:639:24:848:-63.9964,0,-45.195 0/0:50:49,0:49:1683:0:0:0,-14.7505,-151.535 0/0:36:36,0:36:1254:0:0:0,-10.8371,-113.158 0/0:16:16,0:16:560:0:0:0,-4.81648,-50.7287 0/1:102:60,42:60:2144:42:1489:-103.597,0,-162.523 0/1:81:59,22:59:2047:22:779:-46.0486,0,-160.116 0/0:20:19,1:19:669:1:36:0,-2.42232,-56.9357 0/0:113:113,0:113:3975:0:0:0,-34.0164,-357.942 chr03 3996634 . AAAGC CAAGA,CAAGC 37297.8 PASS AB=0.504938,0.491358;ABP=3.18187,3.53574;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1233,511;CIGAR=1X3M1X,1X4M;DP=1749;DPB=1749.2;DPRA=0.745,0.849286;EPP=2680.44,1112.63;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.85,2.2;MQM=57.5556,59.6517;MQMR=0;NS=21;NUMALT=2;ODDS=2.72774;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=43795,18301;QR=0;RO=0;RPL=0,0;RPP=2680.44,1112.63;RPPR=0;RPR=1233,511;RUN=1,1;SAF=1233,511;SAP=2680.44,1112.63;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:124:0,66,58:0:0:66,58:2333,2080:-359.716,-169.99,-150.122,-190.082,0,-172.623 1/2:72:0,45,27:0:0:45,27:1615,968:-210.123,-79.3096,-65.7632,-131.171,0,-123.043 1/2:69:0,38,31:0:0:38,31:1361,1116:-202.044,-91.3839,-79.9448,-111.019,0,-101.687 1/1:90:0,90,0:0:0:90,0:3191,0:-286.821,-27.0927,0,-286.821,-27.0927,-286.821 1/1:206:0,202,4:0:0:202,4:7146,144:-642.591,-60.8081,0,-630.928,-48.787,-629.723 1/1:63:0,62,1:0:0:62,1:2205,36:-197.891,-18.6639,0,-194.954,-15.3666,-194.653 1/2:139:0,62,76:0:0:62,76:2197,2708:-398.647,-220.655,-201.991,-177.986,0,-155.108 2/2:110:0,0,108:0:0:0,108:0,3880:-349.018,-349.018,-349.018,-32.5112,-32.5112,0 1/2:95:0,44,51:0:0:44,51:1556,1832:-276.326,-149.801,-136.556,-126.88,0,-111.528 1/2:15:0,5,10:0:0:5,10:179,356:-43.9616,-29.3709,-27.8658,-14.9477,0,-11.9374 1/2:8:0,6,2:0:0:6,2:216,72:-23.735,-6.23466,-4.42848,-17.8596,0,-17.2575 1/2:15:0,4,11:0:0:4,11:144,396:-44.4149,-32.6714,-31.4673,-12.1032,0,-8.79184 1/2:55:0,23,31:0:0:23,31:821,1101:-156.593,-89.8118,-82.8882,-66.919,0,-57.5871 1/2:110:0,65,45:0:0:65,45:2300,1612:-318.901,-131.821,-112.254,-187.435,0,-173.889 1/1:164:0,164,0:0:0:164,0:5829,0:-524.424,-49.3689,0,-524.424,-49.3689,-524.424 1/1:73:0,73,0:0:0:73,0:2611,0:-235.134,-21.9752,0,-235.134,-21.9752,-235.134 1/1:102:0,102,0:0:0:102,0:3633,0:-327.106,-30.7051,0,-327.106,-30.7051,-327.106 1/2:62:0,26,35:0:0:26,35:923,1244:-176.532,-101.363,-93.536,-75.1643,0,-64.6283 1/2:46:0,25,21:0:0:25,21:894,756:-134.931,-62.0456,-54.5198,-73.2442,0,-66.9226 1/1:95:0,95,0:0:0:95,0:3354,0:-301.807,-28.5979,0,-301.807,-28.5979,-301.807 1/1:36:0,36,0:0:0:36,0:1287,0:-115.804,-10.8371,0,-115.804,-10.8371,-115.804 chr03 4088933 . T C 8354.16 PASS AB=0.449711;ABP=22.0113;AC=14;AF=0.333333;AN=42;AO=489;CIGAR=1X;DP=1683;DPB=1683;DPRA=0.933069;EPP=1064.86;EPPR=2587.07;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.46775;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17477;QR=42589;RO=1194;RPL=0;RPP=1064.86;RPPR=2595.75;RPR=489;RUN=1;SAF=489;SAP=1064.86;SAR=0;SRF=1193;SRP=2587.07;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:60,38:60:2144:38:1352:-92.4794,0,-163.727 0/1:114:55,59:55:1953:59:2101:-155.04,0,-141.726 0/1:45:30,15:30:1076:15:532:-34.6667,0,-83.6065 0/0:108:108,0:108:3872:0:0:0,-32.5112,-348.674 0/0:162:158,4:158:5661:4:144:0,-35.4532,-496.294 0/0:100:100,0:100:3505:0:0:0,-30.103,-315.657 0/1:111:54,57:54:1925:57:2044:-150.817,0,-140.111 1/1:95:0,95:0:0:95:3396:-305.855,-28.5979,0 0/1:154:92,62:92:3270:62:2220:-153.706,0,-248.16 0/1:17:10,7:10:345:7:252:-17.9114,0,-26.2633 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 0/1:22:14,8:14:504:8:280:-18.9166,0,-39.0754 0/1:96:42,54:42:1474:54:1940:-145.977,0,-104.052 0/1:100:63,37:63:2237:37:1324:-89.3591,0,-171.489 0/0:115:115,0:115:4136:0:0:0,-34.6184,-372.422 0/0:62:62,0:62:2209:0:0:0,-18.6639,-199.073 0/0:70:70,0:70:2505:0:0:0,-21.0721,-225.701 0/1:72:35,37:35:1241:37:1320:-97.4278,0,-90.3183 0/1:30:19,11:19:680:11:396:-26.9518,0,-52.4983 0/0:56:55,1:55:1980:1:36:0,-13.2594,-174.876 0/0:50:50,0:50:1800:0:0:0,-15.0515,-162.282 chr03 4326293 . A C 30886.7 PASS AB=0.561847;ABP=41.151;AC=28;AF=0.666667;AN=42;AO=1615;CIGAR=1X;DP=2227;DPB=2227;DPRA=1.07475;EPP=3509.94;EPPR=1329.78;GTI=1;LEN=1;MEANALT=1.05;MQM=40.4854;MQMR=53.7234;NS=21;NUMALT=1;ODDS=5.50725;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57276;QR=21935;RO=611;RPL=1615;RPP=3509.94;RPPR=1329.78;RPR=0;RUN=1;SAF=1615;SAP=3509.94;SAR=0;SRF=611;SRP=1329.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:49,63:49:1760:63:2255:-163.203,0,-123.989 0/1:86:31,55:31:1116:55:1940:-138.97,0,-74.24 0/1:80:48,32:48:1728:32:1143:-75.033,0,-131.444 1/1:120:0,120:0:0:120:4244:-370.266,-36.1236,0 1/1:251:4,247:4:144:247:8792:-754.399,-62.7551,0 1/1:122:1,121:1:36:121:4312:-355.229,-33.1364,0 0/1:217:82,135:82:2948:135:4759:-334.729,0,-199.162 0/0:99:99,0:99:3547:0:0:0,-29.802,-318.53 0/1:130:72,58:72:2584:58:2052:-141.976,0,-193.182 0/1:21:11,10:11:392:10:351:-24.4084,0,-29.2322 0/1:11:3,8:3:108:8:288:-21.3373,0,-6.73851 0/1:33:15,18:15:540:18:625:-44.4254,0,-38.9332 0/1:151:70,81:70:2516:81:2864:-204.599,0,-179.762 0/1:114:37,77:37:1328:77:2727:-203.328,0,-85.2517 1/1:115:0,115:0:0:115:4128:-359.554,-34.6185,0 1/1:109:0,109:0:0:109:3862:-338.24,-32.8123,0 1/1:87:2,84:2:68:84:2970:-254.123,-19.7758,0 0/1:129:68,61:68:2436:61:2134:-144.442,0,-179.752 0/1:64:17,47:17:612:47:1666:-126.292,0,-35.4684 1/1:113:2,111:2:72:111:3948:-328.821,-27.1931,0 1/1:63:0,63:0:0:63:2216:-186.228,-18.9649,0 chr03 4326380 . C T 8254.51 PASS AB=0.407826;ABP=87.8752;AC=14;AF=0.333333;AN=42;AO=574;CIGAR=1X;DP=2753;DPB=2753;DPRA=0.661552;EPP=1249.44;EPPR=4734.65;GTI=3;LEN=1;MEANALT=1;MQM=60;MQMR=59.9904;NS=21;NUMALT=1;ODDS=0.531015;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19377;QR=77632;RO=2179;RPL=0;RPP=1249.44;RPPR=4734.65;RPR=574;RUN=1;SAF=0;SAP=1249.44;SAR=574;SRF=0;SRP=4734.65;SRR=2179;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:96,54:96:3416:54:1725:-110.356,0,-262.499 0/1:75:53,22:53:1888:22:724:-42.8863,0,-147.621 0/1:127:72,55:72:2580:55:1893:-132.408,0,-194.218 0/0:212:210,2:210:7433:2:72:0,-56.9816,-662.183 0/0:273:272,1:272:9657:1:36:0,-78.5829,-865.488 0/0:274:274,0:274:9741:0:0:0,-82.4822,-876.641 0/1:178:95,83:95:3392:83:2836:-201.889,0,-251.913 1/1:98:0,98:0:0:98:3242:-291.989,-29.5009,0 0/1:228:127,101:127:4545:101:3450:-242.073,0,-340.58 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:12:7,5:7:248:5:180:-12.9397,0,-19.0518 0/1:41:33,8:33:1188:8:269:-12.1939,0,-94.8864 0/1:48:23,25:23:828:25:881:-65.1564,0,-60.3947 0/1:154:88,66:88:3119:66:2319:-162.607,0,-234.577 0/0:320:318,2:318:11362:2:72:0,-89.4929,-1015.47 0/0:115:115,0:115:4120:0:0:0,-34.6184,-370.984 0/0:165:165,0:165:5872:0:0:0,-49.6699,-528.593 0/1:75:36,39:36:1288:39:1252:-90.3826,0,-93.6463 0/1:57:47,10:47:1675:10:318:-11.7695,0,-133.878 0/0:98:97,1:97:3465:1:36:0,-25.9027,-308.462 0/0:48:47,1:47:1671:1:36:0,-10.8512,-147.078 chr03 4326407 . G A 9912.23 PASS AB=0.414141;ABP=79.0776;AC=14;AF=0.333333;AN=42;AO=603;CIGAR=1X;DP=2813;DPB=2813;DPRA=0.849759;EPP=1277.9;EPPR=4711.16;GTI=2;LEN=1;MEANALT=1.11765;MQM=59.9801;MQMR=60;NS=21;NUMALT=1;ODDS=5.70203;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21435;QR=78678;RO=2208;RPL=599;RPP=1277.9;RPPR=4711.16;RPR=4;RUN=1;SAF=0;SAP=1312.41;SAR=603;SRF=0;SRP=4797.62;SRR=2208;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:100,61:100:3533:61:2166:-146.74,0,-269.715 0/1:80:55,24:55:1952:24:856:-53.22,0,-151.815 0/1:132:72,60:72:2559:60:2143:-153.401,0,-190.824 0/0:215:214,1:214:7611:1:36:0,-61.1232,-681.433 0/0:282:280,1:280:9937:1:36:0,-81.351,-890.68 0/0:273:273,0:273:9737:0:0:0,-82.1812,-876.282 0/1:184:98,86:98:3503:86:3060:-220.241,0,-260.091 1/1:107:0,107:0:0:107:3772:-339.678,-32.2102,0 0/1:236:128,108:128:4572:108:3851:-275.744,0,-340.601 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:15:8,7:8:280:7:252:-18.5135,0,-21.0239 0/1:41:32,9:32:1148:9:320:-16.8001,0,-91.2876 0/1:50:24,26:24:860:26:928:-68.7868,0,-62.6703 0/1:151:91,60:91:3252:60:2119:-145.523,0,-247.446 0/0:316:315,1:315:11238:1:36:0,-91.5272,-1007.71 0/0:117:117,0:117:4173:0:0:0,-35.2205,-375.752 0/0:169:169,0:169:6018:0:0:0,-50.8741,-541.727 0/1:74:37,37:37:1310:37:1328:-97.546,0,-95.9239 0/1:59:46,13:46:1656:13:460:-23.9746,0,-131.568 0/0:95:94,1:94:3372:1:36:0,-24.9996,-300.097 0/0:51:51,0:51:1823:0:0:0,-15.3525,-164.35 chr03 4326541 . TCT TCC,ACC 43884 PASS AB=0.44374,0.553883;ABP=37.7057,34.8356;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1241,875;CIGAR=2M1X,1X1M1X;DP=2119;DPB=2119;DPRA=0.580655,1.75111;EPP=2697.81,1894.37;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.95,2.11765;MQM=59.938,59.5657;MQMR=0;NS=21;NUMALT=2;ODDS=5.2359;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44166,30527;QR=0;RO=0;RPL=1241,874;RPP=2697.81,1894.37;RPPR=0;RPR=0,1;RUN=1,1;SAF=0,0;SAP=2697.81,1903.05;SAR=1241,875;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,82,83:0:0:82,83:2931,2856:-471.23,-232.24,-207.555,-239.34,0,-214.355 1/2:92:0,36,56:0:0:36,56:1292,1991:-267.968,-162.579,-151.742,-105.747,0,-88.889 1/2:113:0,44,69:0:0:44,69:1567,2403:-323.45,-195.732,-182.487,-128.071,0,-107.3 1/1:58:0,58,0:0:0:58,0:2080,0:-187.47,-17.4597,0,-187.47,-17.4597,-187.47 1/1:218:0,213,5:0:0:213,5:7546,171:-678.834,-64.1194,0,-664.956,-49.8994,-663.451 1/1:72:0,71,1:0:0:71,1:2540,36:-228.488,-21.3731,0,-225.551,-18.0759,-225.25 1/2:150:0,72,77:0:0:72,77:2557,2716:-429.411,-221.058,-199.384,-208.349,0,-185.169 2/2:168:0,0,168:0:0:0,168:0,5896:-530.696,-530.696,-530.696,-50.573,-50.573,0 1/2:215:0,91,124:0:0:91,124:3247,4331:-617.299,-352.595,-325.201,-265.058,0,-227.73 1/2:16:0,4,12:0:0:4,12:144,413:-45.6113,-33.8576,-32.6535,-12.1095,0,-8.49714 1/2:11:0,8,3:0:0:8,3:284,100:-31.5828,-8.42677,-6.01853,-23.4951,0,-22.592 1/2:35:0,12,23:0:0:12,23:432,809:-101.456,-66.2046,-62.5923,-35.6088,0,-28.6851 1/2:127:0,58,69:0:0:58,69:2076,2392:-364.06,-194.762,-177.302,-169.651,0,-148.88 1/2:110:0,52,57:0:0:52,57:1852,1977:-311.714,-160.759,-145.106,-151.025,0,-133.866 1/1:92:0,92,0:0:0:92,0:3254,0:-293.08,-27.6948,0,-293.08,-27.6948,-293.08 1/1:55:0,55,0:0:0:55,0:1959,0:-176.584,-16.5567,0,-176.584,-16.5567,-176.584 1/1:85:0,84,1:0:0:84,1:2981,28:-268.234,-25.2865,0,-266.016,-22.7878,-265.715 1/2:135:0,48,86:0:0:48,86:1687,2960:-377.67,-240.355,-225.906,-137.304,0,-111.415 1/2:93:0,53,40:0:0:53,40:1884,1412:-268.715,-115.214,-99.2593,-153.855,0,-141.814 1/1:63:0,62,1:0:0:62,1:2201,36:-197.994,-18.6639,0,-195.057,-15.3666,-194.756 1/1:46:0,46,0:0:0:46,0:1652,0:-148.96,-13.8474,0,-148.96,-13.8474,-148.96 chr03 4327357 . A G 16996.1 PASS AB=0.548237;ABP=33.3864;AC=14;AF=0.333333;AN=42;AO=956;CIGAR=1X;DP=2635;DPB=2635;DPRA=2.8144;EPP=2070.26;EPPR=3648.91;GTI=0;LEN=1;MEANALT=1;MQM=59.9812;MQMR=60;NS=21;NUMALT=1;ODDS=19.7184;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33814;QR=59918;RO=1679;RPL=6;RPP=2027.15;RPPR=3648.91;RPR=950;RUN=1;SAF=5;SAP=2035.74;SAR=951;SRF=0;SRP=3648.91;SRR=1679;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:69,74:69:2476:74:2601:-191.283,0,-180.046 0/1:112:64,48:64:2291:48:1704:-119.929,0,-172.735 0/1:134:64,70:64:2295:70:2475:-182.666,0,-166.472 0/0:40:40,0:40:1423:0:0:0,-12.0412,-128.367 0/0:316:310,6:310:11021:6:216:0,-75.335,-971.998 0/0:133:130,3:130:4658:3:93:0,-31.3603,-410.703 0/1:178:73,105:73:2598:105:3717:-281.147,0,-180.485 1/1:116:0,116:0:0:116:4090:-368.286,-34.9195,0 0/1:290:111,179:111:3950:179:6376:-486.632,0,-268.394 0/1:32:13,19:13:459:19:671:-51.0828,0,-32.0111 0/1:14:10,4:10:360:4:144:-9.0992,0,-28.5299 0/1:39:10,29:10:356:29:1025:-80.8205,0,-20.6411 0/1:157:83,74:83:2976:74:2603:-187.251,0,-220.811 0/1:143:55,88:55:1963:88:3132:-239.057,0,-133.897 0/0:269:266,3:266:9495:3:108:0,-70.9019,-844.434 0/0:60:58,2:58:2059:2:68:0,-11.6041,-179.123 0/0:71:70,1:70:2516:1:36:0,-17.7749,-223.093 0/1:183:70,113:70:2508:113:3967:-302.133,0,-170.884 0/1:78:57,21:57:2030:21:752:-44.5259,0,-159.491 0/0:72:71,1:71:2521:1:36:0,-18.0759,-223.543 0/0:55:55,0:55:1963:0:0:0,-16.5566,-176.945 chr03 4328284 . T G 6903.05 PASS AB=0.512744;ABP=3.95116;AC=14;AF=0.333333;AN=42;AO=402;CIGAR=1X;DP=1260;DPB=1260;DPRA=1.07074;EPP=875.942;EPPR=1848.8;GTI=0;LEN=1;MEANALT=1;MQM=59.9751;MQMR=59.9988;NS=21;NUMALT=1;ODDS=1.63927;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14319;QR=30624;RO=858;RPL=402;RPP=875.942;RPPR=1848.8;RPR=0;RUN=1;SAF=0;SAP=875.942;SAR=402;SRF=0;SRP=1866.13;SRR=858;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:66,53:66:2376:53:1904:-135.815,0,-178.275 0/1:68:27,41:27:960:41:1468:-111.946,0,-66.2458 0/1:58:34,24:34:1205:24:852:-59.5406,0,-91.2942 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 0/0:125:124,1:124:4414:1:36:0,-34.0305,-393.833 0/0:94:91,3:91:3260:3:108:0,-18.2216,-283.545 0/1:123:50,73:50:1796:73:2586:-195.954,0,-124.896 1/1:54:0,54:0:0:54:1918:-172.896,-16.2556,0 0/1:99:44,55:44:1576:55:1955:-146.423,0,-112.33 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:9:1,8:1:36:8:288:-23.5581,0,-0.889005 0/1:19:7,12:7:248:12:432:-33.5016,0,-16.9446 0/1:53:26,27:26:917:27:964:-71.1222,0,-66.89 0/1:51:26,25:26:936:25:876:-63.8018,0,-69.2069 0/0:66:66,0:66:2349:0:0:0,-19.868,-211.668 0/0:50:49,1:49:1715:1:36:0,-11.4532,-151.031 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.211 0/1:30:18,12:18:644:12:432:-30.1903,0,-49.2597 0/1:34:24,10:24:852:10:356:-22.1453,0,-66.7654 0/0:43:42,1:42:1500:1:36:0,-9.34601,-131.696 0/0:33:33,0:33:1176:0:0:0,-9.93399,-106.148 chr03 4328289 . CAAG CAAA,TAAA 26449.2 PASS AB=0.479821,0.5142;ABP=5.37652,4.18205;AC=28,14;AF=0.666667,0.333333;AN=42;AO=847,406;CIGAR=3M1X,1X2M1X;DP=1258;DPB=1258;DPRA=1.09364,1.08135;EPP=1842.25,884.628;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.05,2.11111;MQM=59.9988,59.9754;MQMR=0;NS=21;NUMALT=2;ODDS=1.03408;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30304,14303;QR=0;RO=0;RPL=847,406;RPP=1842.25,884.628;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1842.25,884.628;SAR=847,406;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,65,53:0:0:65,53:2336,1871:-342.93,-152.354,-132.787,-190.572,0,-174.618 1/2:68:0,27,41:0:0:27,41:960,1445:-196.236,-118.002,-109.874,-78.5883,0,-66.2461 1/2:58:0,34,24:0:0:34,24:1224,826:-167.31,-67.4288,-57.1938,-100.232,0,-93.0073 1/1:56:0,55,1:0:0:55,1:1972,36:-177.395,-16.5567,0,-174.458,-13.2594,-174.157 1/1:124:0,123,1:0:0:123,1:4408,36:-396.532,-37.0267,0,-393.595,-33.7294,-393.294 1/1:92:0,89,3:0:0:89,3:3192,104:-287.156,-26.7917,0,-278.703,-17.992,-277.8 1/2:122:0,49,72:0:0:49,72:1752,2518:-347.697,-204.838,-190.087,-142.854,0,-121.18 2/2:55:0,0,55:0:0:0,55:0,1960:-176.676,-176.676,-176.676,-16.5567,-16.5567,0 1/2:101:0,45,56:0:0:45,56:1604,1986:-292.905,-162.157,-148.611,-131.103,0,-114.246 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:9:0,1,8:0:0:1,8:36,286:-26.615,-23.6773,-23.3763,-3.29724,0,-0.889005 1/2:19:0,7,12:0:0:7,12:252,416:-54.7251,-34.1583,-32.0511,-20.9217,0,-17.3094 1/2:53:0,24,28:0:0:24,28:864,1000:-152.026,-81.5267,-74.302,-70.498,0,-62.0692 1/2:52:0,26,26:0:0:26,26:928,892:-148.426,-72.7647,-64.9379,-76.0115,0,-68.1847 1/1:68:0,67,0:0:0:67,0:2396,0:-215.537,-20.169,0,-215.537,-20.169,-215.537 1/1:51:0,50,1:0:0:50,1:1783,36:-160.393,-15.0515,0,-157.455,-11.7543,-157.154 1/1:68:0,68,0:0:0:68,0:2440,0:-219.855,-20.47,0,-219.855,-20.47,-219.855 1/2:29:0,17,12:0:0:17,12:612,430:-85.3649,-35.4278,-30.3103,-50.2959,0,-46.6836 1/2:34:0,24,10:0:0:24,10:864,353:-99.6014,-29.0984,-21.8737,-70.8578,0,-67.8475 1/1:43:0,42,1:0:0:42,1:1465,36:-131.78,-12.6433,0,-128.842,-9.34602,-128.541 1/1:32:0,32,0:0:0:32,0:1144,0:-103.27,-9.63296,0,-103.27,-9.63296,-103.27 chr03 4367867 . C T 10343.5 PASS AB=0.523207;ABP=7.44487;AC=14;AF=0.333333;AN=42;AO=589;CIGAR=1X;DP=1654;DPB=1654;DPRA=1.18089;EPP=1282.01;EPPR=2313.46;GTI=0;LEN=1;MEANALT=1.07143;MQM=55.4975;MQMR=59.6222;NS=21;NUMALT=1;ODDS=10.0449;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20904;QR=37617;RO=1064;RPL=589;RPP=1282.01;RPPR=2313.46;RPR=0;RUN=1;SAF=589;SAP=1282.01;SAR=0;SRF=1064;SRP=2313.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:84,76:84:2972:76:2712:-195.352,0,-219.18 0/1:46:22,24:22:775:24:860:-63.8212,0,-56.2238 0/1:68:28,40:28:976:40:1432:-108.444,0,-67.0488 0/0:62:62,0:62:2175:0:0:0,-18.6639,-196.012 0/0:123:121,2:121:4244:2:72:0,-30.1941,-375.283 0/0:59:59,0:59:2099:0:0:0,-17.7608,-189.125 0/1:102:43,59:43:1530:59:2112:-159.366,0,-107.238 1/1:91:0,91:0:0:91:3226:-290.032,-27.3937,0 0/1:136:62,74:62:2172:74:2623:-195.021,0,-154.773 0/1:12:4,8:4:144:8:284:-22.2627,0,-9.69654 0/1:9:5,4:5:180:4:144:-10.5932,0,-13.8428 0/1:53:21,32:21:752:32:1135:-86.3165,0,-52.0517 0/1:109:49,60:49:1718:60:2082:-154.04,0,-122.079 0/1:97:47,50:47:1671:50:1772:-130.444,0,-121.447 0/0:195:195,0:195:6941:0:0:0,-58.7008,-624.732 0/0:45:45,0:45:1593:0:0:0,-13.5463,-143.657 0/0:42:42,0:42:1480:0:0:0,-12.6433,-133.473 0/1:71:30,41:30:1071:41:1467:-110.587,0,-75.306 0/1:84:56,28:56:1988:28:983:-63.3427,0,-153.903 0/0:58:58,0:58:2041:0:0:0,-17.4597,-183.944 0/0:31:31,0:31:1095:0:0:0,-9.33193,-98.8591 chr03 4568984 . C T 554.536 PASS AB=0.497674;ABP=3.0709;AC=13;AF=0.309524;AN=42;AO=763;CIGAR=1X;DP=2299;DPB=2299;DPRA=1.27392;EPP=1659.84;EPPR=3331.88;GTI=10;LEN=1;MEANALT=1.21429;MQM=15.9148;MQMR=42.3568;NS=21;NUMALT=1;ODDS=0.333148;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27238;QR=54920;RO=1533;RPL=0;RPP=1659.84;RPPR=3331.88;RPR=763;RUN=1;SAF=763;SAP=1659.84;SAR=0;SRF=1533;SRP=3331.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:108:108,0:108:3872:0:0:0,-32.5112,-339.43 0/0:104:104,0:104:3728:0:0:0,-31.3071,-327.52 0/0:112:112,0:112:4011:0:0:0,-33.7154,-351.283 0/0:132:130,1:130:4652:1:36:0,-38.0383,-406.046 0/1:250:137,113:137:4912:113:4030:-85.4603,0,-352.897 0/0:109:108,1:108:3876:1:36:0,-31.2165,-338.662 0/0:170:170,0:170:6072:0:0:0,-51.1751,-534.218 1/1:120:0,119:0:0:119:4207:-172.301,-35.8226,0 0/1:193:82,111:82:2924:111:3984:-94.4577,0,-197.612 0/1:11:8,2:8:288:2:72:-0.5544,0,-22.4673 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.3046 0/1:40:14,26:14:504:26:932:-26.6809,0,-32.6756 0/1:122:58,64:58:2088:64:2300:-56.9197,0,-146.643 0/1:94:46,48:46:1640:48:1720:-40.6104,0,-114.597 0/1:199:92,107:92:3300:107:3805:-92.368,0,-229.59 0/1:116:56,60:56:2016:60:2143:-45.9427,0,-141.676 0/1:94:52,42:52:1868:42:1512:-31.4725,0,-134.301 0/1:97:45,52:45:1616:52:1853:-47.9835,0,-113.515 0/1:74:57,17:57:2048:17:608:-2.11346,0,-157.464 0/0:99:99,0:99:3537:0:0:0,-29.802,-309.545 0/0:49:49,0:49:1752:0:0:0,-14.7505,-153.387 chr03 4568985 . G A 31053.2 PASS AB=0.505435;ABP=3.34074;AC=29;AF=0.690476;AN=42;AO=1542;CIGAR=1X;DP=2303;DPB=2303;DPRA=0.893852;EPP=3351.42;EPPR=1653.33;GTI=10;LEN=1;MEANALT=1;MQM=42.3178;MQMR=15.9145;NS=21;NUMALT=1;ODDS=1.47766;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55203;QR=27127;RO=760;RPL=0;RPP=3351.42;RPPR=1653.33;RPR=1542;RUN=1;SAF=1542;SAP=3351.42;SAR=0;SRF=760;SRP=1653.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:0,109:0:0:109:3886:-340.341,-32.8123,0 1/1:104:0,104:0:0:104:3740:-328.413,-31.3071,0 1/1:112:0,112:0:0:112:4012:-351.393,-33.7154,0 1/1:135:1,134:1:36:134:4804:-418.351,-39.0433,0 0/1:250:114,136:114:4036:136:4867:-349.442,0,-86.5151 1/1:109:1,108:1:36:108:3866:-338.068,-31.2165,0 1/1:170:0,170:0:0:170:6104:-536.839,-51.1751,0 0/0:122:121,0:121:4306:0:0:0,-36.4246,-175.287 0/1:194:110,84:110:3933:84:3008:-203.705,0,-92.5074 0/1:10:2,8:2:72:8:288:-22.6931,0,-0.760551 1/1:6:0,6:0:0:6:201:-17.9995,-1.80618,0 0/1:40:26,14:26:932:14:504:-32.6756,0,-26.6529 0/1:122:64,58:64:2300:58:2084:-146.333,0,-56.9035 0/1:93:48,45:48:1709:45:1607:-112.789,0,-40.8156 0/1:199:106,93:106:3801:93:3329:-232.083,0,-91.2486 0/1:117:60,57:60:2145:57:2039:-143.6,0,-45.577 0/1:96:42,54:42:1489:54:1932:-139.446,0,-30.4236 0/1:93:48,45:48:1720:45:1616:-114.719,0,-43.539 0/1:74:17,57:17:612:57:2040:-156.835,0,-2.11916 1/1:98:0,98:0:0:98:3495:-306.194,-29.5009,0 1/1:50:0,50:0:0:50:1781:-155.576,-15.0515,0 chr03 5243962 . ATAGAT TGAGAC,TGAGAT 28115.3 PASS AB=0.465602,0.527027;ABP=11.3761,8.17488;AC=28,14;AF=0.666667,0.333333;AN=42;AO=914,501;CIGAR=2X3M1X,2X4M;DP=1428;DPB=1428;DPRA=0.928082,1.1009;EPP=1987.74,1090.92;EPPR=0;GTI=0;LEN=6,2;MEANALT=2.15,2.42857;MQM=40.5766,53.8403;MQMR=0;NS=21;NUMALT=2;ODDS=2.45967;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31980,17687;QR=0;RO=0;RPL=0,0;RPP=1987.74,1090.92;RPPR=0;RPR=914,501;RUN=1,1;SAF=914,501;SAP=1987.74,1090.92;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:92:0,43,46:0:0:43,46:1505,1626:-250.289,-132.343,-119.398,-117.973,0,-104.126 1/2:89:0,47,42:0:0:47,42:1663,1470:-244.437,-118.374,-104.225,-126.402,0,-113.759 1/2:55:0,22,33:0:0:22,33:783,1188:-159.108,-97.2024,-90.5797,-62.2575,0,-52.3235 1/1:80:0,80,0:0:0:80,0:2805,0:-245.099,-24.0824,0,-245.099,-24.0824,-245.099 1/1:95:0,93,1:0:0:93,1:3265,31:-285.474,-27.9958,0,-282.987,-25.4983,-282.686 1/1:40:0,40,0:0:0:40,0:1413,0:-120.777,-12.0412,0,-120.777,-12.0412,-120.777 1/2:75:0,27,48:0:0:27,48:942,1684:-207.52,-136.851,-128.723,-71.0019,0,-56.5524 2/2:73:0,0,71:0:0:0,71:0,2469:-221.316,-221.316,-221.316,-21.3731,-21.3731,0 1/2:75:0,31,44:0:0:31,44:1089,1574:-215.124,-128.645,-119.313,-86.8276,0,-73.5823 1/2:27:0,20,7:0:0:20,7:701,237:-73.3408,-19.254,-13.2334,-54.4206,0,-52.3134 1/2:6:0,2,4:0:0:2,4:68,138:-16.3031,-11.0662,-10.4642,-5.56376,0,-4.35964 1/2:30:0,17,13:0:0:17,13:603,468:-85.4347,-38.486,-33.3685,-47.2997,0,-43.3863 1/2:69:0,29,40:0:0:29,40:994,1423:-194.09,-116.187,-107.457,-78.2447,0,-66.2035 1/2:74:0,34,39:0:0:34,39:1180,1402:-207.341,-114.219,-103.984,-93.1246,0,-81.3844 1/1:93:0,93,0:0:0:93,0:3264,0:-284.467,-27.9958,0,-284.467,-27.9958,-284.467 1/1:58:0,56,0:0:0:56,0:1956,0:-172.285,-16.8577,0,-172.285,-16.8577,-172.285 1/1:67:0,66,0:0:0:66,0:2293,0:-201.127,-19.868,0,-201.127,-19.868,-201.127 1/2:152:0,59,91:0:0:59,91:2022,3211:-417.227,-260.303,-242.543,-156.953,0,-129.559 1/2:70:0,48,22:0:0:48,22:1684,766:-194.46,-62.5874,-48.1379,-132.217,0,-125.594 1/1:43:0,42,0:0:0:42,0:1472,0:-127.454,-12.6433,0,-127.454,-12.6433,-127.454 1/1:65:0,65,0:0:0:65,0:2278,0:-190.688,-19.567,0,-190.688,-19.567,-190.688 chr03 5280827 . CTCTCCCA TTCTCCCG,TTCCCCCG 50552.5 PASS AB=0.616877,0.364694;ABP=125.339,166.958;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1517,520;CIGAR=1X6M1X,1X2M1X3M1X;DP=2067;DPB=2069.5;DPRA=0.698913,0.964056;EPP=3297.13,1132.18;EPPR=0;GTI=2;LEN=8,8;MEANALT=3.1,3.3125;MQM=59.7746,59.9654;MQMR=0;NS=21;NUMALT=2;ODDS=2.64629;PAIRED=0,0;PAIREDR=0;PAO=10.5,10.5;PQA=271,271;PQR=0;PRO=0;QA=53135,17564;QR=0;RO=0;RPL=922,520;RPP=156.071,1132.18;RPPR=0;RPR=595,0;RUN=1,1;SAF=922,520;SAP=156.071,1132.18;SAR=595,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:35:0,17,17:0:0:17,17:591,571:-94.322,-46.2699,-41.1524,-48.072,0,-42.9545 1/2:10:0,9,1:0:0:9,1:316,36:-29.0079,-3.29724,-0.587975,-26.0696,0,-25.7686 1/2:153:0,98,53:0:0:98,53:3453,1780:-425.099,-144.232,-114.731,-280.916,0,-264.962 1/1:170:0,169,0:0:0:169,0:5884,0:-528.948,-50.8741,0,-528.948,-50.8741,-528.948 1/1:158:0,155,3:0:0:155,3:5460,104:-491.081,-46.6597,0,-482.628,-37.8599,-481.725 1/1:48:0,46,0:0:0:46,0:1615,0:-145.332,-13.8474,0,-145.332,-13.8474,-145.332 1/2:105:0,51,53:0:0:51,53:1803,1805:-293.179,-146.328,-130.976,-146.75,0,-130.795 2/2:138:0,0,138:0:0:0,138:0,4638:-417.55,-417.55,-417.55,-41.5421,-41.5421,0 1/2:181:0,114,61:0:0:114,61:3931,2073:-487.521,-168.197,-133.879,-319.381,0,-301.018 1/2:10:0,7,3:0:0:7,3:252,106:-29.4984,-8.94588,-6.83867,-20.8702,0,-19.9671 1/2:9:0,5,3:0:0:5,3:180,108:-23.5881,-8.88714,-7.38199,-14.7703,0,-13.8672 1/2:47:0,25,22:0:0:25,22:880,740:-131.939,-60.2903,-52.7645,-71.992,0,-65.3693 1/2:96:0,53,41:0:0:53,41:1867,1416:-267.086,-115.096,-99.1412,-152.04,0,-139.698 1/2:133:0,74,55:0:0:74,55:2595,1864:-362.327,-151.162,-128.886,-211.189,0,-194.633 1/1:256:0,254,0:0:0:254,0:8953,0:-805.094,-76.4616,0,-805.094,-76.4616,-805.094 1/1:23:0,23,0:0:0:23,0:805,0:-72.7675,-6.92369,0,-72.7675,-6.92369,-72.7675 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:151:0,106,44:0:0:106,44:3731,1449:-420.84,-117.104,-85.1944,-303.722,0,-290.477 1/2:101:0,77,23:0:0:77,23:2668,774:-279.56,-62.7185,-39.5391,-216.85,0,-209.926 1/1:144:0,139,2:0:0:139,2:4889,69:-439.841,-41.8432,0,-434.236,-36.214,-433.634 1/1:90:0,86,1:0:0:86,1:2942,31:-264.658,-25.8886,0,-262.17,-23.4157,-261.869 chr03 5312180 . G C 9035.12 PASS AB=0.457763;ABP=16.5845;AC=14;AF=0.333333;AN=42;AO=527;CIGAR=1X;DP=1708;DPB=1708;DPRA=0.890427;EPP=1138.71;EPPR=2554.5;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.7552;MQMR=59.9958;NS=21;NUMALT=1;ODDS=22.7525;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18736;QR=42077;RO=1179;RPL=526;RPP=1138.71;RPPR=2554.5;RPR=1;RUN=1;SAF=527;SAP=1147.38;SAR=0;SRF=1179;SRP=2563.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:64,49:64:2274:49:1738:-122.686,0,-170.905 0/1:58:43,15:43:1539:15:540:-31.4768,0,-121.343 0/1:83:44,38:44:1576:38:1364:-97.9988,0,-117.087 0/0:107:107,0:107:3816:0:0:0,-32.2102,-343.636 0/0:145:139,6:139:4940:6:216:0,-23.8588,-424.961 0/0:46:45,1:45:1612:1:36:0,-10.2491,-141.772 0/1:95:43,52:43:1540:52:1860:-138.923,0,-110.295 1/1:115:0,115:0:0:115:4072:-366.014,-34.6185,0 0/1:116:63,53:63:2252:53:1893:-135.728,0,-168.024 0/1:17:8,9:8:288:9:324:-24.3883,0,-21.1499 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 0/1:42:21,21:21:747:21:752:-55.363,0,-54.911 0/1:46:22,24:22:784:24:834:-61.5259,0,-57.0365 0/1:101:49,52:49:1752:52:1849:-136.256,0,-127.56 0/0:117:115,1:115:4099:1:36:0,-31.681,-365.498 0/0:78:78,0:78:2799:0:0:0,-23.4803,-252.149 0/0:103:103,0:103:3662:0:0:0,-31.0061,-329.781 0/1:115:65,50:65:2319:50:1783:-126.134,0,-174.351 0/1:76:47,29:47:1692:29:1007:-68.0596,0,-129.689 0/0:52:49,3:49:1751:3:108:0,-5.57839,-147.798 0/0:69:69,0:69:2455:0:0:0,-20.7711,-221.205 chr03 5312308 . T C 9210.25 PASS AB=0.445804;ABP=32.1961;AC=14;AF=0.333333;AN=42;AO=579;CIGAR=1X;DP=2666;DPB=2666;DPRA=0.549948;EPP=1260.29;EPPR=4463.48;GTI=0;LEN=1;MEANALT=1;MQM=59.9879;MQMR=59.9981;NS=21;NUMALT=1;ODDS=5.24207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20687;QR=74549;RO=2086;RPL=0;RPP=1260.29;RPPR=4463.48;RPR=579;RUN=1;SAF=579;SAP=1260.29;SAR=0;SRF=2086;SRP=4532.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:76,45:76:2717:45:1603:-108.134,0,-208.347 0/1:121:72,49:72:2588:49:1756:-121.899,0,-196.744 0/1:106:61,45:61:2188:45:1608:-113.101,0,-165.277 0/0:225:225,0:225:8069:0:0:0,-67.7317,-726.224 0/0:264:261,3:261:9338:3:108:0,-69.3967,-830.309 0/0:150:148,2:148:5256:2:72:0,-38.3178,-466.343 0/1:203:121,82:121:4319:82:2918:-201.747,0,-327.778 1/1:63:0,63:0:0:63:2252:-202.943,-18.9649,0 0/1:156:68,88:68:2424:88:3138:-235.686,0,-171.456 0/1:13:2,11:2:72:11:396:-32.0694,0,-2.92333 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 0/1:29:12,17:12:432:17:612:-46.6836,0,-30.4913 0/1:117:60,57:60:2140:57:2040:-148.652,0,-157.648 0/1:115:81,34:81:2879:34:1212:-74.7655,0,-224.729 0/0:271:270,0:270:9645:0:0:0,-81.2781,-867.788 0/0:203:203,0:203:7226:0:0:0,-61.1091,-650.396 0/0:115:115,0:115:4100:0:0:0,-34.6184,-369.184 0/1:79:38,41:38:1356:41:1476:-109.355,0,-98.5591 0/1:67:36,31:36:1292:31:1100:-79.1413,0,-96.4148 0/0:152:152,0:152:5452:0:0:0,-45.7566,-490.807 0/0:79:78,1:78:2804:1:36:0,-20.1831,-249.001 chr03 5312317 . G A 44556.3 PASS AB=0.549479;ABP=27.5072;AC=28;AF=0.666667;AN=42;AO=2075;CIGAR=1X;DP=2664;DPB=2664;DPRA=2.03125;EPP=4260.45;EPPR=1279.84;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9908;MQMR=59.9949;NS=21;NUMALT=1;ODDS=6.98819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73537;QR=20983;RO=588;RPL=29;RPP=4260.45;RPPR=1279.84;RPR=2046;RUN=1;SAF=2075;SAP=4508.82;SAR=0;SRF=588;SRP=1279.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:48,75:48:1724:75:2643:-201.089,0,-118.417 0/1:123:50,73:50:1788:73:2592:-196.501,0,-124.176 0/1:105:44,61:44:1584:61:2162:-163.236,0,-111.243 1/1:222:0,222:0:0:222:7805:-702.485,-66.8287,0 1/1:259:2,257:2:72:257:9164:-817.893,-71.13,0 1/1:148:2,146:2:72:146:5194:-460.763,-37.7157,0 0/1:201:82,119:82:2906:119:4246:-321.81,0,-201.267 0/0:64:64,0:64:2270:0:0:0,-19.2659,-204.559 0/1:157:89,67:89:3166:67:2343:-163.844,0,-237.881 0/1:13:11,2:11:396:2:72:-2.92333,0,-32.0694 0/1:18:10,8:10:360:8:265:-18.7535,0,-27.3258 0/1:30:18,12:18:648:12:432:-30.1903,0,-49.621 0/1:115:57,58:57:2044:58:2057:-150.781,0,-149.613 0/1:114:33,81:33:1172:81:2862:-223.499,0,-71.4701 1/1:265:1,264:1:36:264:9399:-842.273,-76.1747,0 1/1:202:0,202:0:0:202:7170:-645.358,-60.8081,0 1/1:119:0,119:0:0:119:4212:-379.258,-35.8226,0 0/1:79:41,38:41:1468:38:1328:-96.0364,0,-108.635 0/1:74:35,39:35:1241:39:1377:-101.95,0,-89.7163 1/1:153:0,153:0:0:153:5405:-486.58,-46.0576,0 1/1:80:1,79:1:36:79:2809:-249.451,-20.4841,0 chr03 5312381 . G A 30024.7 PASS AB=0.503053;ABP=3.11639;AC=28;AF=0.666667;AN=42;AO=1486;CIGAR=1X;DP=2290;DPB=2290;DPRA=0.745139;EPP=3221.14;EPPR=1735.86;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9859;MQMR=59.9838;NS=21;NUMALT=1;ODDS=3.1226;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53032;QR=28595;RO=802;RPL=1;RPP=3221.14;RPPR=1735.86;RPR=1485;RUN=1;SAF=0;SAP=3229.82;SAR=1486;SRF=0;SRP=1744.53;SRR=802;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:196:80,116:80:2863:116:4107:-310.806,0,-198.905 0/1:93:59,34:59:2108:34:1212:-81.3905,0,-161.993 0/1:129:59,69:59:2098:69:2463:-183.18,0,-150.333 1/1:88:1,87:1:36:87:3101:-275.719,-22.8924,0 1/1:171:3,168:3:108:168:5984:-528.59,-41.401,0 1/1:102:1,101:1:36:101:3613:-321.777,-27.1068,0 0/1:147:87,60:87:3084:60:2156:-150.056,0,-233.536 0/0:144:144,0:144:5155:0:0:0,-43.3483,-464.09 0/1:216:122,94:122:4360:94:3367:-238.223,0,-327.553 0/1:28:11,17:11:388:17:608:-46.6232,0,-26.8285 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:37:23,14:23:824:14:489:-33.2008,0,-63.3452 0/1:117:72,45:72:2567:45:1616:-110.509,0,-196.059 0/1:141:48,93:48:1711:93:3323:-256.841,0,-111.83 1/1:208:1,207:1:36:207:7399:-662.359,-59.016,0 1/1:60:0,60:0:0:60:2135:-192.418,-18.0618,0 1/1:54:0,54:0:0:54:1937:-174.606,-16.2556,0 0/1:106:50,56:50:1768:56:1989:-147.374,0,-127.491 0/1:92:33,59:33:1165:59:2091:-160.762,0,-77.4602 1/1:89:2,86:2:72:86:3083:-270.861,-20.0134,0 1/1:64:0,64:0:0:64:2287:-206.091,-19.2659,0 chr03 5489163 . CTA CTG,ATG,TTG 11207.3 PASS AB=0.483607,0.391252,0.177847;ABP=5.00378,87.55,580.835;AC=21,15,6;AF=0.5,0.357143,0.142857;AN=42;AO=449,352,114;CIGAR=2M1X,1X1M1X,1X1M1X;DP=920;DPB=920;DPRA=0,0,1.76584;EPP=978.001,767.369,250.558;EPPR=7.35324;GTI=6;LEN=1,3,3;MEANALT=2.61905,2.65,3.09091;MQM=41.8151,17.0938,46.2895;MQMR=30;NS=21;NUMALT=3;ODDS=1.0511;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=16023,12392,3989;QR=72;RO=2;RPL=449,352,114;RPP=978.001,767.369,250.558;RPPR=7.35324;RPR=0,0,0;RUN=1,1,1;SAF=449,352,114;SAP=978.001,767.369,250.558;SAR=0,0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:26:0,14,11,1:0:0:14,11,1:483,394,36:-50.729,-13.2923,-9.07786,-37.3345,0,-34.0232,-47.8236,-10.375,-34.4311,-47.5226 1/2:8:0,4,4,0:0:0:4,4,0:144,144,0:-16.6842,-5.06618,-3.86206,-11.8795,0,-10.6754,-16.6842,-5.06618,-11.8795,-16.6842 1/2:43:0,27,16,0:0:0:27,16,0:968,545,0:-96.1427,-19.5821,-11.4543,-76.7957,0,-71.9793,-96.1427,-19.5821,-76.7957,-96.1427 1/2:97:0,36,54,7:0:0:36,54,7:1296,1910,250:-166.539,-66.1685,-55.3315,-100.305,0,-84.0496,-146.385,-46.0021,-80.1581,-144.278 1/2:29:0,20,8,1:0:0:20,8,1:712,283,36:-65.757,-9.17239,-3.15179,-56.4642,0,-54.056,-62.8532,-6.24926,-53.5621,-62.5521 1/1:42:0,34,8,0:0:0:34,8,0:1196,273,0:-102.38,-10.235,0,-92.7419,-0.397825,-90.3336,-102.38,-10.235,-92.7419,-102.38 1/2:34:0,13,21,0:0:0:13,21,0:468,753,0:-60.6332,-25.8724,-21.9591,-35.0293,0,-28.7077,-60.6332,-25.8724,-35.0293,-60.6332 1/3:31:0,26,0,5:0:0:26,0,5:936,0,178:-89.6138,-14.6941,-6.86734,-89.6138,-14.6941,-89.6138,-75.2721,0,-75.2721,-73.767 1/3:76:0,31,28,17:0:0:31,28,17:1100,990,588:-134.944,-47.3275,-37.9956,-100.428,-12.8536,-91.9992,-87.6641,0,-53.1672,-82.5466 1/3:42:0,5,6,31:0:0:5,6,31:180,208,1088:-102.094,-87.6827,-86.1776,-94.7994,-80.3911,-92.9932,-14.4913,0,-7.27145,-5.15938 1/3:40:0,15,6,19:0:0:15,6,19:525,206,678:-96.0764,-54.7728,-50.2574,-88.7987,-47.5126,-86.9926,-41.414,0,-34.1583,-35.6944 1/3:42:0,19,10,13:0:0:19,10,13:684,358,466:-90.9267,-37.6855,-31.966,-78.7304,-25.5271,-75.7201,-53.3241,0,-41.1455,-49.4107 1/3:88:0,56,20,11:0:0:56,20,11:2008,708,380:-187.606,-30.5755,-13.7178,-163.191,-6.22064,-157.171,-157.084,0,-132.675,-153.772 1/2:34:0,5,29,0:0:0:5,29,0:180,1019,0:-49.5047,-35.9281,-34.4229,-13.8871,0,-5.15725,-49.5047,-35.9281,-13.8871,-49.5047 1/2:9:1,3,5,0:1:36:3,5,0:104,180,0:-11.3388,-3.68862,-5.11712,-5.61667,0,-6.4141,-11.6399,-6.02021,-7.91925,-13.9582 2/2:24:0,2,22,0:0:0:2,22,0:72,758,0:-33.661,-28.2263,-27.6243,-6.62266,-0.867042,0,-33.661,-28.2263,-6.62266,-33.661 1/2:43:1,13,29,0:1:36:13,29,0:464,1017,0:-66.9486,-33.4263,-31.8284,-31.4969,0,-25.0762,-67.2497,-35.7418,-33.8061,-69.5628 1/2:134:0,92,33,8:0:0:92,33,8:3283,1169,253:-302.51,-41.0395,-13.3447,-261.415,0,-251.481,-282.349,-20.8516,-241.257,-279.941 1/2:36:0,22,13,1:0:0:22,13,1:792,465,36:-76.4688,-15.7365,-9.11381,-60.621,0,-56.7076,-73.5649,-12.8214,-57.7186,-73.2639 1/2:20:0,6,14,0:0:0:6,14,0:212,492,0:-33.9506,-17.7073,-15.9011,-16.5285,0,-12.3141,-33.9506,-17.7073,-16.5285,-33.9506 1/2:22:0,6,15,0:0:0:6,15,0:216,520,0:-34.6636,-18.3546,-16.5484,-16.4474,0,-11.932,-34.6636,-18.3546,-16.4474,-34.6636 chr03 5504922 . G T 18281.8 PASS AB=0.499173;ABP=3.02108;AC=14;AF=0.333333;AN=42;AO=1074;CIGAR=1X;DP=4163;DPB=4163;DPRA=0.96364;EPP=2309.19;EPPR=6617.6;GTI=1;LEN=1;MEANALT=1.05882;MQM=60;MQMR=59.9815;NS=21;NUMALT=1;ODDS=5.27527;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37686;QR=109927;RO=3086;RPL=1071;RPP=2309.19;RPPR=6617.6;RPR=3;RUN=1;SAF=0;SAP=2335.17;SAR=1074;SRF=0;SRP=6704.17;SRR=3086;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:202:119,83:119:4239:83:2902:-200.607,0,-320.883 0/1:244:106,138:106:3798:138:4814:-359.975,0,-268.565 0/1:207:103,104:103:3675:104:3648:-266.218,0,-268.64 0/0:345:342,3:342:12172:3:108:0,-93.7802,-1085.26 0/0:524:514,7:514:18274:7:248:0,-134.531,-1621.55 0/0:263:262,1:262:9337:1:36:0,-75.5726,-836.701 0/1:230:120,110:120:4287:110:3870:-279.262,0,-316.771 1/1:157:0,157:0:0:157:5498:-494.958,-47.2617,0 0/1:304:160,144:160:5687:144:5051:-363.229,0,-420.44 0/1:10:7,3:7:248:3:104:-6.69251,0,-19.6539 0/1:7:1,6:1:32:6:212:-17.3176,0,-1.0921 0/1:42:23,19:23:815:19:676:-48.5247,0,-61.0275 0/1:201:92,109:92:3284:109:3822:-283.675,0,-235.273 0/1:252:115,137:115:4115:137:4813:-357.475,0,-294.675 0/0:290:290,0:290:10325:0:0:0,-87.2987,-928.987 0/0:205:205,0:205:7314:0:0:0,-61.7111,-658.312 0/0:278:278,0:278:9856:0:0:0,-83.6863,-886.988 0/1:43:19,24:19:684:24:852:-64.0561,0,-48.946 0/1:71:43,28:43:1535:28:996:-68.5818,0,-117.069 0/0:244:243,1:243:8670:1:36:0,-69.853,-776.695 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 chr03 5504943 . 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T A 43211.7 PASS AB=0.563296;ABP=49.4668;AC=28;AF=0.666667;AN=42;AO=2038;CIGAR=1X;DP=2780;DPB=2780;DPRA=0.935816;EPP=4316.27;EPPR=1558.21;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9416;MQMR=60;NS=21;NUMALT=1;ODDS=11.2381;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73017;QR=26523;RO=740;RPL=13;RPP=4316.27;RPPR=1558.21;RPR=2025;RUN=1;SAF=2038;SAP=4428.47;SAR=0;SRF=740;SRP=1609.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:64,68:64:2296:68:2440:-179.759,0,-166.805 0/1:105:43,62:43:1540:62:2228:-169.176,0,-107.285 0/1:118:53,64:53:1904:64:2300:-171.68,0,-136.057 1/1:212:3,209:3:108:209:7476:-662.804,-53.7432,0 1/1:378:7,371:7:252:371:13305:-1174.19,-90.7604,0 1/1:115:2,113:2:72:113:4045:-357.396,-27.7817,0 0/1:172:62,110:62:2216:110:3940:-302.945,0,-147.928 0/0:141:141,0:141:5036:0:0:0,-42.4452,-453.387 0/1:158:52,106:52:1872:106:3800:-294.635,0,-121.196 0/1:38:16,22:16:576:22:792:-60.1665,0,-40.7358 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/1:64:31,33:31:1116:33:1180:-87.2421,0,-81.4858 0/1:164:82,82:82:2940:82:2937:-215.193,0,-215.465 0/1:146:72,74:72:2579:74:2632:-193.177,0,-188.408 1/1:186:0,186:0:0:186:6643:-597.943,-55.9916,0 1/1:64:0,64:0:0:64:2300:-207.261,-19.2659,0 1/1:108:0,108:0:0:108:3853:-346.964,-32.5112,0 0/1:131:72,59:72:2576:59:2120:-151.634,0,-192.655 0/1:95:31,64:31:1116:64:2300:-178.663,0,-72.1538 1/1:172:5,167:5:180:167:5990:-522.392,-35.2251,0 1/1:69:1,68:1:36:68:2448:-216.976,-17.1728,0 chr03 5531193 . G T,A 58554 PASS AB=0.561934,0.437311;ABP=47.122,48.2045;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2015,735;CIGAR=1X,1X;DP=2751;DPB=2751;DPRA=0.939568,1.11406;EPP=4378.53,1599.04;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.85,1.94444;MQM=59.9509,59.9946;MQMR=60;NS=21;NUMALT=2;ODDS=10.7904;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71821,26088;QR=36;RO=1;RPL=2015,735;RPP=4378.53,1599.04;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=2015,735;SAP=4378.53,1599.04;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:131:0,67,64:0:0:67,64:2404,2278:-382.105,-186.015,-165.846,-196.447,0,-177.182 1/2:109:0,65,44:0:0:65,44:2315,1563:-316.4,-127.716,-108.149,-189.04,0,-175.795 1/2:117:0,64,53:0:0:64,53:2284,1883:-339.993,-153.793,-134.527,-186.555,0,-170.601 1/1:206:0,203,3:0:0:203,3:7224,108:-649.85,-61.1091,0,-641.037,-51.937,-640.134 1/1:372:0,365,7:0:0:365,7:12972,252:-1166.86,-109.876,0,-1146.3,-88.9542,-1144.19 1/1:114:0,112,2:0:0:112,2:3982,72:-358.211,-33.7154,0,-352.337,-27.4807,-351.735 1/2:166:0,104,62:0:0:104,62:3700,2204:-481.501,-179.962,-148.655,-301.895,0,-283.231 2/2:139:0,0,139:0:0:0,139:0,4948:-445.473,-445.473,-445.473,-41.8432,-41.8432,0 1/2:155:0,102,53:0:0:102,53:3662,1874:-451.706,-152.983,-122.278,-299.078,0,-283.123 1/2:38:0,22,16:0:0:22,16:780,559:-109.37,-45.8211,-39.1985,-63.9004,0,-59.0839 1/2:11:0,8,3:0:0:8,3:288,108:-32.6714,-9.17208,-6.76384,-23.8592,0,-22.9561 1/2:64:0,34,30:0:0:34,30:1207,1060:-185.027,-86.6804,-76.4454,-98.7003,0,-89.6694 1/2:162:0,82,80:0:0:82,80:2922,2856:-471.367,-233.195,-208.51,-238.529,0,-214.447 1/2:145:0,72,73:0:0:72,73:2562,2597:-420.803,-212.003,-190.329,-209.155,0,-187.18 1/1:185:0,185,0:0:0:185,0:6592,0:-593.358,-55.6906,0,-593.358,-55.6906,-593.358 1/1:64:0,64,0:0:0:64,0:2300,0:-207.261,-19.2659,0,-207.261,-19.2659,-207.261 1/1:109:0,109,0:0:0:109,0:3895,0:-350.743,-32.8123,0,-350.743,-32.8123,-350.743 1/2:133:1,59,73:1:36:59,73:2095,2563:-376.053,-205.648,-190.825,-167.761,0,-148.724 1/2:93:0,65,28:0:0:65,28:2308,983:-268.413,-80.3537,-60.7867,-188.412,0,-179.983 1/1:170:0,166,4:0:0:166,4:5921,144:-532.487,-49.971,0,-520.737,-37.8615,-519.533 1/1:68:0,67,1:0:0:67,1:2408,36:-216.616,-20.169,0,-213.679,-16.8718,-213.378 chr03 5613415 . C G 27147.6 PASS AB=0.483712;ABP=5.34469;AC=28;AF=0.666667;AN=42;AO=1070;CIGAR=1X;DP=1689;DPB=1689;DPRA=0.955357;EPP=2326.49;EPPR=1336.31;GTI=0;LEN=1;MEANALT=1.05;MQM=56.1869;MQMR=59.7039;NS=21;NUMALT=1;ODDS=2.34512;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37954;QR=21973;RO=618;RPL=615;RPP=54.9633;RPPR=19.2577;RPR=455;RUN=1;SAF=615;SAP=54.9633;SAR=455;SRF=344;SRP=20.2275;SRR=274;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:31,44:31:1112:44:1571:-119.007,0,-77.8118 0/1:142:82,60:82:2915:60:2124:-147.964,0,-219.799 0/1:28:15,13:15:536:13:459:-33.1935,0,-40.146 1/1:67:0,67:0:0:67:2328:-209.271,-20.169,0 1/1:100:4,95:4:144:95:3367:-289.452,-16.848,0 1/1:71:3,68:3:104:68:2428:-208.485,-11.6703,0 0/1:121:68,53:68:2415:53:1900:-134.64,0,-181.164 0/0:84:84,0:84:2974:0:0:0,-25.2865,-267.88 0/1:94:50,44:50:1784:44:1547:-111.14,0,-132.543 0/1:15:10,5:10:360:5:180:-12.0095,0,-28.2206 0/1:10:8,2:8:288:2:72:-3.81783,0,-23.2489 0/1:44:15,29:15:513:29:1018:-78.5489,0,-33.2429 0/1:68:36,32:36:1281:32:1148:-82.8431,0,-95.1165 0/1:78:46,32:46:1644:32:1128:-78.1685,0,-124.768 1/1:122:1,121:1:36:121:4314:-384.1,-33.1274,0 1/1:27:0,27:0:0:27:960:-86.7018,-8.12781,0 1/1:39:0,39:0:0:39:1386:-124.877,-11.7402,0 0/1:248:130,118:130:4611:118:4182:-300.843,0,-340.331 0/1:90:32,58:32:1148:58:2067:-158.977,0,-76.5348 1/1:64:0,64:0:0:64:2292:-206.076,-19.2659,0 1/1:102:3,99:3:108:99:3483:-303.102,-20.6299,0 chr03 5613420 . G C,T 45373.9 PASS AB=0.485207,0.514793;ABP=4.93764,4.93764;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1085,613;CIGAR=1X,1X;DP=1698;DPB=1698;DPRA=0.985366,1.76235;EPP=2359.06,1334.12;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.8,1.94118;MQM=56.1032,59.5889;MQMR=0;NS=21;NUMALT=2;ODDS=3.09527;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38580,21778;QR=0;RO=0;RPL=633,339;RPP=68.5768,17.9768;RPPR=0;RPR=452,274;RUN=1,1;SAF=633,339;SAP=68.5768,17.9768;SAR=452,274;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:75:0,43,32:0:0:43,32:1516,1148:-217.33,-93.9945,-81.0502,-123.691,0,-114.058 1/2:138:0,59,79:0:0:59,79:2106,2821:-401.289,-230.283,-212.523,-171.362,0,-147.581 1/2:27:0,12,15:0:0:12,15:432,536:-79.2884,-44.0594,-40.447,-35.5876,0,-31.0722 1/1:68:0,68,0:0:0:68,0:2413,0:-216.871,-20.47,0,-216.871,-20.47,-216.871 1/1:103:0,99,4:0:0:99,4:3537,140:-317.745,-29.802,0,-306.355,-18.0615,-305.151 1/1:70:0,67,3:0:0:67,3:2388,108:-214.384,-20.169,0,-205.572,-10.9969,-204.669 1/2:123:0,55,68:0:0:55,68:1964,2393:-355.027,-195.127,-178.57,-160.254,0,-139.784 2/2:82:0,0,82:0:0:0,82:0,2900:-261.224,-261.224,-261.224,-24.6845,-24.6845,0 1/2:91:0,44,47:0:0:44,47:1547,1676:-262.808,-136.976,-123.73,-126.186,0,-112.038 1/2:15:0,5,10:0:0:5,10:180,354:-43.8495,-29.1871,-27.6819,-15.0198,0,-12.0095 1/2:10:0,2,8:0:0:2,8:72,279:-28.8999,-23.031,-22.429,-6.22607,0,-3.81783 1/2:47:0,30,17:0:0:30,17:1056,594:-134.094,-48.6073,-39.5764,-85.8358,0,-80.7183 1/2:69:0,32,37:0:0:32,37:1152,1309:-200.576,-106.964,-97.3314,-93.9676,0,-82.8295 1/2:80:0,34,46:0:0:34,46:1207,1635:-231.822,-133.591,-123.356,-98.5864,0,-84.739 1/1:126:0,125,1:0:0:125,1:4459,36:-400.298,-37.6288,0,-397.36,-34.3315,-397.059 1/1:26:0,26,0:0:0:26,0:932,0:-84.1847,-7.82678,0,-84.1847,-7.82678,-84.1847 1/1:39:0,39,0:0:0:39,0:1391,0:-125.332,-11.7402,0,-125.332,-11.7402,-125.332 1/2:248:0,117,131:0:0:117,131:4144,4665:-716.514,-379.933,-344.713,-336.935,0,-297.5 1/2:91:0,59,32:0:0:59,32:2100,1148:-264.904,-93.9945,-76.2338,-171.267,0,-161.634 1/1:67:0,67,0:0:0:67,0:2383,0:-214.179,-20.169,0,-214.179,-20.169,-214.179 1/1:103:0,102,1:0:0:102,1:3601,36:-323.421,-30.7051,0,-320.484,-27.4078,-320.183 chr03 6043093 . C A 6326.11 PASS AB=0.467719;ABP=9.3191;AC=14;AF=0.333333;AN=42;AO=390;CIGAR=1X;DP=1435;DPB=1435;DPRA=0.766626;EPP=849.885;EPPR=2244.04;GTI=0;LEN=1;MEANALT=1.05882;MQM=47.0103;MQMR=53.8697;NS=21;NUMALT=1;ODDS=7.08803;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13978;QR=37252;RO=1044;RPL=0;RPP=849.885;RPPR=2244.04;RPR=390;RUN=1;SAF=390;SAP=849.885;SAR=0;SRF=1044;SRP=2270.03;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:42,37:42:1504:37:1332:-94.9463,0,-110.92 0/1:24:14,10:14:504:10:360:-25.0394,0,-38.39 0/1:42:26,16:26:932:16:576:-39.0755,0,-71.2581 0/0:110:110,0:110:3925:0:0:0,-33.1133,-352.47 0/0:145:143,2:143:5103:2:72:0,-36.8724,-450.924 0/0:57:55,2:55:1976:2:72:0,-10.355,-170.998 0/1:99:51,48:51:1819:48:1705:-121.361,0,-133.897 1/1:55:0,55:0:0:55:1961:-174.089,-16.5567,0 0/1:115:50,65:50:1783:65:2332:-173.277,0,-125.604 0/1:15:7,8:7:248:8:288:-21.5706,0,-18.0731 0/1:6:2,4:2:72:4:144:-11.4353,0,-5.02863 0/1:47:26,21:26:932:21:752:-52.8534,0,-70.0222 0/1:68:34,33:34:1224:33:1188:-85.6375,0,-89.7448 0/1:62:34,28:34:1212:28:1004:-71.2328,0,-90.3547 0/0:66:66,0:66:2342:0:0:0,-19.868,-210.217 0/0:59:57,2:57:2035:2:72:0,-11.3441,-176.037 0/0:105:105,0:105:3743:0:0:0,-31.6081,-335.639 0/1:81:43,38:43:1513:38:1364:-97.0462,0,-111.896 0/1:59:41,18:41:1459:18:648:-39.72,0,-113.463 0/0:85:82,3:82:2935:3:108:0,-15.5819,-253.41 0/0:56:56,0:56:1991:0:0:0,-16.8577,-179.216 chr03 6266640 . AGAG AGAA,CGAA 44680.4 PASS AB=0.528128,0.471872;ABP=11.1948,11.1948;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1394,753;CIGAR=3M1X,1X2M1X;DP=2150;DPB=2150.5;DPRA=0,1.04676;EPP=3030.04,1638.13;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.7619,2;MQM=59.6851,56.4276;MQMR=60;NS=21;NUMALT=2;ODDS=24.6628;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,72;PQR=0;PRO=0;QA=49431,26171;QR=36;RO=1;RPL=1394,753;RPP=3030.04,1638.13;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1394,753;SAP=3030.04,1638.13;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:105:0,50,55:0:0:50,55:1766,1921:-300.246,-156.43,-141.378,-144.168,0,-127.611 1/2:93:0,35,58:0:0:35,58:1260,2040:-268.893,-166.097,-155.561,-103.153,0,-85.6934 1/2:121:0,74,47:0:0:74,47:2607,1609:-342.955,-130.845,-108.569,-212.456,0,-198.308 1/1:100:0,100,0:0:0:100,0:3553,0:-319.961,-30.103,0,-319.961,-30.103,-319.961 1/1:93:1,92,0:1:36:92,0:3276,0:-291.457,-24.3975,0,-291.758,-27.6948,-294.696 1/1:42:0,42,0:0:0:42,0:1493,0:-134.646,-12.6433,0,-134.646,-12.6433,-134.646 1/2:167:0,78,89:0:0:78,89:2764,3072:-474.761,-249.611,-226.131,-225.499,0,-198.708 2/2:191:0,2,189:0:0:2,189:72,6546:-588.347,-582.472,-581.87,-56.8947,-51.0198,0 1/2:164:0,95,69:0:0:95,69:3374,2386:-468.906,-193.99,-165.392,-275.266,0,-254.494 1/2:35:0,16,19:0:0:16,19:559,662:-99.5456,-54.073,-49.2565,-45.8211,0,-40.1016 1/2:15:0,7,8:0:0:7,8:252,283:-43.9628,-23.3979,-21.2907,-20.9217,0,-18.5135 1/2:71:0,43,28:0:0:43,28:1544,985:-205.986,-80.0681,-67.1238,-125.913,0,-117.484 1/2:58:0,32,26:0:0:32,26:1152,915:-167.83,-74.7012,-65.0682,-93.4826,0,-85.6559 1/2:155:0,86,69:0:0:86,69:3031,2404:-442.065,-195.29,-169.401,-247.125,0,-226.354 1/1:185:0,184,0:0:0:184,0:6539,0:-588.247,-55.3895,0,-588.247,-55.3895,-588.247 1/1:84:0,84,0:0:0:84,0:2954,0:-266.085,-25.2865,0,-266.085,-25.2865,-266.085 1/1:125:0,125,0:0:0:125,0:4422,0:-398.147,-37.6288,0,-398.147,-37.6288,-398.147 1/2:130:0,62,68:0:0:62,68:2212,2382:-374.309,-193.995,-175.331,-180.667,0,-160.197 1/2:77:0,51,26:0:0:51,26:1786,894:-218.046,-72.728,-57.3755,-145.664,0,-137.837 1/1:73:0,71,2:0:0:71,2:2518,72:-226.502,-21.3731,0,-220.63,-15.1417,-220.028 1/1:66:0,65,0:0:0:65,0:2297,0:-206.597,-19.567,0,-206.597,-19.567,-206.597 chr03 6266704 . C T 12096.4 PASS AB=0.52015;ABP=6.77324;AC=14;AF=0.333333;AN=42;AO=680;CIGAR=1X;DP=2381;DPB=2381;DPRA=0.837954;EPP=1479.61;EPPR=3688;GTI=1;LEN=1;MEANALT=1;MQM=54.05;MQMR=55.5015;NS=21;NUMALT=1;ODDS=9.4372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24336;QR=60715;RO=1701;RPL=680;RPP=1479.61;RPPR=3688;RPR=0;RUN=1;SAF=0;SAP=1479.61;SAR=680;SRF=0;SRP=3696.68;SRR=1701;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:79,72:79:2821:72:2572:-185.687,0,-207.774 0/1:72:30,42:30:1053:42:1504:-113.445,0,-73.189 0/1:106:61,45:61:2188:45:1598:-112.029,0,-164.828 0/0:104:104,0:104:3736:0:0:0,-31.3071,-335.661 0/0:360:358,2:358:12776:2:72:0,-101.574,-1140.35 0/0:71:71,0:71:2529:0:0:0,-21.3731,-226.593 0/1:119:32,87:32:1133:87:3112:-243.038,0,-66.2535 1/1:118:0,118:0:0:118:4240:-380.406,-35.5215,0 0/1:191:96,95:96:3444:95:3408:-248.863,0,-252.56 0/1:9:4,5:4:140:5:180:-13.8193,0,-10.1739 0/1:4:3,1:3:108:1:36:-2.38511,0,-8.70847 0/1:34:18,16:18:648:16:572:-41.4309,0,-48.2296 0/1:97:41,56:41:1464:56:2004:-151.149,0,-102.435 0/1:78:34,44:34:1216:44:1561:-116.764,0,-86.1055 0/0:187:185,2:185:6594:2:72:0,-49.4608,-586.015 0/0:132:132,0:132:4694:0:0:0,-39.736,-422.382 0/0:45:43,2:43:1517:2:72:0,-6.71154,-129.88 0/1:132:65,67:65:2313:67:2397:-175.799,0,-168.22 0/1:74:49,25:49:1756:25:900:-58.8572,0,-135.887 0/0:215:215,0:215:7681:0:0:0,-64.7214,-690.128 0/0:82:81,1:81:2904:1:36:0,-21.1635,-256.476 chr03 7080783 . CA TG,CC 54760.6 PASS AB=0.533825,0.466175;ABP=17.847,17.847;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1905,699;CIGAR=2X,1M1X;DP=2605;DPB=2605;DPRA=0,1.36071;EPP=4139.67,1520.87;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.71429,2;MQM=59.5459,59.7339;MQMR=0;NS=21;NUMALT=2;ODDS=19.0945;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67277,24998;QR=0;RO=0;RPL=0,0;RPP=4139.67,1520.87;RPPR=0;RPR=1905,699;RUN=1,1;SAF=0,0;SAP=4139.67,1520.87;SAR=1905,699;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:149:0,149,0:0:0:149,0:5257,0:-473.247,-44.8535,0,-473.247,-44.8535,-473.247 1/1:24:0,23,0:0:0:23,0:824,0:-74.2293,-6.92369,0,-74.2293,-6.92369,-74.2293 1/2:172:0,96,76:0:0:96,76:3416,2712:-499.792,-221.44,-192.541,-278.709,0,-255.83 1/1:150:0,150,0:0:0:150,0:5268,0:-474.226,-45.1545,0,-474.226,-45.1545,-474.226 1/1:289:0,287,2:0:0:287,2:10082,72:-906.778,-86.3956,0,-900.904,-80.1619,-900.302 1/2:168:0,78,90:0:0:78,90:2755,3215:-486.063,-261.922,-238.442,-224.495,0,-197.403 1/2:164:0,92,72:0:0:92,72:3278,2569:-476.763,-209.756,-182.061,-267.363,0,-245.689 1/2:212:0,95,117:0:0:95,117:3348,4191:-614.67,-342.14,-313.542,-272.885,0,-237.664 1/2:239:0,120,119:0:0:120,119:4283,4265:-697.354,-348.194,-312.07,-349.517,0,-313.695 1/2:19:0,12,7:0:0:12,7:423,252:-55.358,-20.9217,-17.3094,-34.7934,0,-32.6861 1/1:11:0,11,0:0:0:11,0:381,0:-34.6186,-3.31133,0,-34.6186,-3.31133,-34.6186 1/2:64:0,30,34:0:0:30,34:1063,1209:-185.462,-98.8777,-89.8468,-86.9386,0,-76.7036 1/1:171:0,171,0:0:0:171,0:6052,0:-544.716,-51.4761,0,-544.716,-51.4761,-544.716 1/1:145:0,145,0:0:0:145,0:5094,0:-458.243,-43.6494,0,-458.243,-43.6494,-458.243 1/2:254:0,156,98:0:0:156,98:5532,3509:-736.864,-286.373,-239.412,-450.847,0,-421.346 1/2:31:0,15,16:0:0:15,16:527,568:-89.5162,-46.6354,-42.1199,-43.2337,0,-38.4173 1/2:60:0,32,28:0:0:32,28:1106,1000:-171.744,-81.8865,-72.2536,-90.2091,0,-81.7803 1/2:50:0,25,25:0:0:25,25:896,896:-146.494,-73.4346,-65.9089,-73.4172,0,-65.8914 1/2:60:0,46,14:0:0:46,14:1631,504:-174.349,-41.4837,-27.6363,-133.224,0,-129.01 1/1:123:0,122,1:0:0:122,1:4301,36:-386.789,-36.7257,0,-383.852,-33.4284,-383.551 1/1:50:0,50,0:0:0:50,0:1760,0:-158.608,-15.0515,0,-158.608,-15.0515,-158.608 chr03 7080789 . A T 11638.4 PASS AB=0.472278;ABP=13.0031;AC=12;AF=0.285714;AN=42;AO=710;CIGAR=1X;DP=2590;DPB=2590;DPRA=1.38501;EPP=1544.76;EPPR=4083.21;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.7141;MQMR=59.5668;NS=21;NUMALT=1;ODDS=17.3326;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25341;QR=67365;RO=1879;RPL=0;RPP=1544.76;RPPR=4083.21;RPR=710;RUN=1;SAF=0;SAP=1544.76;SAR=710;SRF=0;SRP=4083.21;SRR=1879;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:147:147,0:147:5268:0:0:0,-44.2514,-474.232 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.6934 0/1:171:96,75:96:3444:75:2672:-189.241,0,-258.646 0/0:146:146,0:146:5236:0:0:0,-43.9504,-471.325 0/0:283:281,2:281:10069:2:72:0,-78.3557,-898.649 0/1:172:77,95:77:2768:95:3387:-252.704,0,-197.012 0/1:165:90,74:90:3224:74:2628:-187.012,0,-240.524 0/1:210:95,115:95:3416:115:4104:-306.297,0,-244.371 0/1:238:117,121:117:4195:121:4340:-319.12,0,-306.079 0/1:20:12,8:12:432:8:288:-20.2464,0,-33.2006 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9541 0/1:64:30,34:30:1065:34:1212:-90.102,0,-76.8762 0/0:167:167,0:167:5974:0:0:0,-50.272,-537.689 0/0:143:143,0:143:5102:0:0:0,-43.0473,-459.247 0/1:252:152,100:152:5456:100:3558:-244.454,0,-414.978 0/1:31:15,16:15:536:16:572:-42.4815,0,-39.2386 0/1:62:34,28:34:1216:28:1004:-71.9944,0,-91.0827 0/1:52:25,27:25:900:27:968:-71.7838,0,-65.6498 0/1:60:46,14:46:1656:14:500:-27.2744,0,-131.251 0/0:123:122,1:122:4392:1:36:0,-33.4284,-391.725 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.599 chr03 7102703 . CAAAATTAAAATAAAAAATAAAAAATTGAAG CAAAATTTAAAAAATCGAAG,CAAAAATTAAAAAATCGAAG 32618.9 PASS AB=0.510067,0.483221;ABP=3.79728,5.19635;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1206,506;CIGAR=7M11D8M1X4M,1M11D5M1X8M1X4M;DP=1727;DPB=1114.32;DPRA=1.27846,1.62871;EPP=2621.81,1101.78;EPPR=0;GTI=0;LEN=20,20;MEANALT=2.55,2.64706;MQM=45.194,35.832;MQMR=0;NS=21;NUMALT=2;ODDS=6.83097;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=4.66667,4.66667;PQR=4.66667;PRO=0.333333;QA=41335,17227;QR=0;RO=0;RPL=1206,506;RPP=2621.81,1101.78;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2621.81,1101.78;SAR=1206,506;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:147:0,79,68:0:0:79,68:2702,2361:-395.578,-178.795,-155.013,-217.114,0,-196.644 1/2:69:0,28,41:0:0:28,41:995,1335:-176.418,-97.1642,-88.7353,-79.5326,0,-67.1904 1/2:72:0,41,31:0:0:41,31:1438,1057:-195.619,-80.3451,-68.0028,-115.605,0,-106.273 1/1:66:0,65,1:0:0:65,1:2242,36:-198.892,-19.567,0,-196.182,-16.5218,-195.881 1/1:161:0,157,1:0:0:157,1:5297,27:-471.667,-47.2617,0,-469.575,-45.1714,-469.274 1/1:97:0,95,0:0:0:95,0:3248,0:-286.211,-28.5979,0,-286.211,-28.5979,-286.211 1/2:78:0,44,33:0:0:44,33:1517,1041:-195.956,-75.74,-62.4946,-120.226,0,-110.292 2/2:65:0,0,65:0:0:0,65:0,2217:-183.727,-183.727,-183.727,-19.567,-19.567,0 1/2:149:0,75,73:0:0:75,73:2559,2544:-400.978,-194.941,-172.364,-206.082,0,-184.107 1/2:11:0,2,9:0:0:2,9:68,301:-27.9639,-22.5062,-21.9041,-5.78887,0,-3.0796 1/1:6:0,6,0:0:0:6,0:197,0:-17.7176,-1.80618,0,-17.7176,-1.80618,-17.7176 1/2:15:0,9,6:0:0:9,6:308,204:-40.1843,-15.467,-12.7577,-25.0411,0,-23.2349 1/2:104:0,51,52:0:0:51,52:1753,1813:-277.637,-137.202,-121.849,-140.456,0,-124.802 1/2:82:0,42,39:0:0:42,39:1395,1345:-212.791,-101.699,-89.0556,-111.083,0,-99.3431 1/1:205:0,201,2:0:0:201,2:6907,68:-613.323,-60.507,0,-608.141,-55.291,-607.539 1/1:48:0,46,2:0:0:46,2:1619,68:-144.538,-13.8474,0,-139.3,-8.28362,-138.698 1/1:71:0,70,0:0:0:70,0:2398,0:-214.352,-21.0721,0,-214.352,-21.0721,-214.352 1/2:96:0,44,51:0:0:44,51:1511,1739:-249.856,-128.732,-115.487,-121.117,0,-105.765 1/2:71:0,41,29:0:0:41,29:1422,972:-187.179,-73.4837,-61.1415,-113.708,0,-104.979 1/1:70:0,66,3:0:0:66,3:2255,99:-199.868,-19.868,0,-192.451,-12.4459,-191.547 1/1:44:0,44,0:0:0:44,0:1504,0:-132.941,-13.2453,0,-132.941,-13.2453,-132.941 chr03 7203791 . G A 29203.9 PASS AB=0.515442;ABP=4.95514;AC=28;AF=0.666667;AN=42;AO=1444;CIGAR=1X;DP=1986;DPB=1986;DPRA=1.19125;EPP=3138.62;EPPR=1179.95;GTI=0;LEN=1;MEANALT=1;MQM=48.6122;MQMR=48.1531;NS=21;NUMALT=1;ODDS=0.77916;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51038;QR=18819;RO=542;RPL=0;RPP=3138.62;RPPR=1179.95;RPR=1444;RUN=1;SAF=0;SAP=3138.62;SAR=1444;SRF=0;SRP=1179.95;SRR=542;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:52,68:52:1797:68:2392:-176.483,0,-124.815 0/1:80:44,36:44:1512:36:1279:-89.7292,0,-110.183 0/1:101:49,52:49:1692:52:1859:-136.049,0,-121.136 1/1:123:0,123:0:0:123:4365:-390.225,-37.0267,0 1/1:160:1,159:1:36:159:5638:-498.883,-44.5818,0 1/1:157:3,154:3:104:154:5440:-471.69,-37.5741,0 0/1:128:63,65:63:2215:65:2308:-166.543,0,-157.115 0/0:80:80,0:80:2789:0:0:0,-24.0824,-248.074 0/1:180:98,82:98:3415:82:2901:-205.578,0,-251.971 0/1:9:8,1:8:275:1:36:-0.864164,0,-22.2261 0/1:11:4,7:4:144:7:252:-19.4638,0,-9.85555 0/1:25:11,14:11:384:14:488:-36.4967,0,-26.6595 0/1:101:49,52:49:1701:52:1841:-134.524,0,-122.151 0/1:82:45,37:45:1574:37:1292:-90.9039,0,-114.843 1/1:204:0,204:0:0:204:7191:-643.378,-61.4101,0 1/1:83:0,83:0:0:83:2939:-263.365,-24.9855,0 1/1:112:0,112:0:0:112:3948:-353.769,-33.7154,0 0/1:51:21,30:21:705:30:1080:-81.1608,0,-47.5176 0/1:51:11,40:11:368:40:1408:-111.128,0,-16.5519 1/1:96:3,93:3:108:93:3256:-280.659,-18.8933,0 1/1:32:0,32:0:0:32:1125:-99.3847,-9.63296,0 chr03 7203833 . 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T A 6405.37 PASS AB=0.435971;ABP=27.7588;AC=14;AF=0.333333;AN=42;AO=384;CIGAR=1X;DP=1242;DPB=1242;DPRA=1.08743;EPP=836.856;EPPR=1840.17;GTI=0;LEN=1;MEANALT=1;MQM=59.9661;MQMR=59.9744;NS=21;NUMALT=1;ODDS=4.25531;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13686;QR=30737;RO=858;RPL=384;RPP=836.856;RPPR=1840.17;RPR=0;RUN=1;SAF=0;SAP=836.856;SAR=384;SRF=0;SRP=1866.13;SRR=858;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:82,48:82:2919:48:1724:-116.312,0,-223.812 0/1:71:53,18:53:1904:18:644:-36.9175,0,-150.265 0/1:65:38,27:38:1353:27:964:-67.5099,0,-102.501 0/0:58:58,0:58:2088:0:0:0,-17.4597,-188.19 0/0:108:103,5:103:3696:5:180:0,-15.9592,-316.289 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.382 0/1:73:42,31:42:1508:31:1108:-78.0558,0,-114.039 1/1:75:0,75:0:0:75:2676:-241.086,-22.5773,0 0/1:68:37,31:37:1332:31:1112:-79.9213,0,-99.7123 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:18:10,8:10:356:8:280:-20.1208,0,-26.9627 0/1:78:36,42:36:1288:42:1479:-109.923,0,-92.7432 0/1:116:52,64:52:1864:64:2276:-170.155,0,-133.102 0/0:55:55,0:55:1976:0:0:0,-16.5566,-178.106 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/0:57:57,0:57:2033:0:0:0,-17.1587,-183.24 0/1:27:13,14:13:468:14:495:-36.7552,0,-34.3318 0/1:38:27,11:27:972:11:396:-24.5436,0,-76.3588 0/0:30:29,1:29:1032:1:36:0,-5.43262,-89.5946 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 chr03 7339420 . 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C G 69288.5 PASS AB=0.510706;ABP=5.19562;AC=28;AF=0.666667;AN=42;AO=2922;CIGAR=1X;DP=4183;DPB=4183;DPRA=0;EPP=6348.05;EPPR=2736.89;GTI=0;LEN=1;MEANALT=1.04762;MQM=45.0691;MQMR=45.309;NS=21;NUMALT=1;ODDS=18.3962;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=103707;QR=44858;RO=1259;RPL=1401;RPP=13.7116;RPPR=67.2559;RPR=1521;RUN=1;SAF=1401;SAP=13.7116;SAR=1521;SRF=533;SRP=67.2559;SRR=726;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:261:149,112:149:5317:112:3982:-251.786,0,-373.669 0/1:204:99,103:99:3547:103:3642:-218.601,0,-221.854 0/1:102:43,59:43:1540:59:2103:-144.343,0,-101.771 1/1:261:2,259:2:72:259:9159:-745.92,-71.9716,0 1/1:375:5,370:5:176:370:13152:-1088.6,-97.0423,0 1/1:177:2,175:2:72:175:6219:-449.833,-47.6229,0 0/1:283:135,148:135:4817:148:5267:-338.19,0,-299.37 0/0:171:170,1:170:6008:1:36:0,-47.8779,-494.701 0/1:424:204,220:204:7271:220:7835:-544.326,0,-501.439 0/1:17:9,8:9:324:8:288:-17.8246,0,-22.8918 0/1:8:6,2:6:212:2:72:-3.60951,0,-15.5305 0/1:46:26,20:26:915:20:716:-41.4561,0,-60.4432 0/1:216:117,99:117:4185:99:3512:-233.28,0,-293.845 0/1:190:97,93:97:3475:93:3316:-219.616,0,-239.276 1/1:321:0,321:0:0:321:11434:-965.342,-96.6306,0 1/1:178:0,178:0:0:178:6295:-534.162,-53.5833,0 1/1:159:0,159:0:0:159:5605:-470.028,-47.8638,0 0/1:172:79,93:79:2785:93:3280:-219.342,0,-181.197 0/1:272:108,164:108:3854:164:5768:-413.823,0,-255.746 1/1:196:5,191:5:180:191:6815:-534.691,-43.2054,0 1/1:150:3,147:3:108:147:5211:-404.316,-35.0793,0 chr03 7504596 . G A 24526.2 PASS AB=0.474359;ABP=9.69175;AC=28;AF=0.666667;AN=42;AO=1597;CIGAR=1X;DP=2336;DPB=2336;DPRA=0.948291;EPP=3470.85;EPPR=1607.73;GTI=0;LEN=1;MEANALT=1;MQM=31.3162;MQMR=34.5291;NS=21;NUMALT=1;ODDS=6.1141;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57234;QR=26429;RO=739;RPL=1597;RPP=3470.85;RPPR=1607.73;RPR=0;RUN=1;SAF=0;SAP=3470.85;SAR=1597;SRF=0;SRP=1607.73;SRR=739;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:89,67:89:3192:67:2389:-137.352,0,-212.698 0/1:140:73,67:73:2624:67:2391:-120.54,0,-155.173 0/1:57:25,32:25:888:32:1143:-72.2451,0,-55.6249 1/1:179:1,178:1:36:178:6395:-488.833,-50.5382,0 1/1:182:2,180:2:72:180:6448:-488.449,-48.4298,0 1/1:141:1,140:1:36:140:5005:-334.283,-39.3907,0 0/1:150:83,67:83:2968:67:2397:-118.508,0,-173.339 0/0:117:117,0:117:4170:0:0:0,-35.2205,-328.956 0/1:205:107,98:107:3828:98:3519:-217.366,0,-258.263 0/1:9:4,5:4:135:5:180:-10.4902,0,-8.56094 0/1:5:4,1:4:144:1:36:-1.23105,0,-9.58069 0/1:38:24,14:24:849:14:504:-25.1296,0,-56.352 0/1:105:61,44:61:2196:44:1576:-90.0586,0,-148.991 0/1:112:60,52:60:2144:52:1860:-106.514,0,-143.408 1/1:155:0,155:0:0:155:5567:-425.414,-46.6597,0 1/1:99:0,99:0:0:99:3548:-284.723,-29.802,0 1/1:109:0,109:0:0:109:3904:-312.972,-32.8123,0 0/1:87:45,42:45:1603:42:1508:-82.4248,0,-98.7816 0/1:106:40,66:40:1436:66:2368:-151.163,0,-87.8646 1/1:105:3,102:3:108:102:3660:-254.853,-22.6828,0 1/1:79:0,79:0:0:79:2836:-191.248,-23.7814,0 chr03 7600733 . C T 35068.3 PASS AB=0.535745;ABP=15.8951;AC=28;AF=0.666667;AN=42;AO=1682;CIGAR=1X;DP=2376;DPB=2376;DPRA=0.758163;EPP=3655.43;EPPR=1507.84;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=59.9784;NS=21;NUMALT=1;ODDS=1.0029;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60178;QR=24731;RO=693;RPL=0;RPP=3655.43;RPPR=1507.84;RPR=1682;RUN=1;SAF=1682;SAP=3655.43;SAR=0;SRF=693;SRP=1507.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:75,56:75:2680:56:2004:-141.198,0,-201.966 0/1:99:44,55:44:1560:55:1965:-147.321,0,-110.89 0/1:115:49,66:49:1748:66:2376:-179.479,0,-122.986 1/1:132:0,132:0:0:132:4748:-427.476,-39.736,0 1/1:207:2,205:2:72:205:7361:-655.697,-55.4765,0 1/1:221:2,219:2:72:219:7800:-695.191,-59.6909,0 0/1:107:48,59:48:1712:59:2124:-159.218,0,-122.156 0/0:147:147,0:147:5264:0:0:0,-44.2514,-473.896 0/1:218:106,112:106:3779:112:4005:-295.013,0,-274.685 0/1:26:20,6:20:712:6:216:-11.9637,0,-56.5799 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:30:14,16:14:500:16:572:-42.7825,0,-36.3053 0/1:114:42,72:42:1508:72:2577:-197.861,0,-101.697 0/1:139:56,83:56:1983:83:2968:-225.51,0,-136.901 1/1:156:0,156:0:0:156:5555:-500.073,-46.9607,0 1/1:104:1,103:1:21:103:3663:-327.772,-29.2072,0 1/1:118:0,117:0:0:117:4166:-374.91,-35.2205,0 0/1:103:55,48:55:1968:48:1724:-124.439,0,-146.389 0/1:72:27,45:27:972:45:1614:-123.876,0,-66.1237 1/1:77:2,75:2:72:75:2696:-236.047,-16.3426,0 1/1:53:0,53:0:0:53:1900:-171.278,-15.9546,0 chr03 7600745 . G C 12258.3 PASS AB=0.46741;ABP=13.7671;AC=14;AF=0.333333;AN=42;AO=698;CIGAR=1X;DP=2378;DPB=2378;DPRA=1.01214;EPP=1510.02;EPPR=3612.08;GTI=0;LEN=1;MEANALT=1;MQM=59.9785;MQMR=60;NS=21;NUMALT=1;ODDS=1.50196;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24919;QR=60119;RO=1678;RPL=1;RPP=1510.02;RPPR=3612.08;RPR=697;RUN=1;SAF=698;SAP=1518.7;SAR=0;SRF=1678;SRP=3646.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:55,76:55:1976:76:2686:-202.546,0,-138.68 0/1:100:55,45:55:1968:45:1616:-115.627,0,-147.292 0/1:117:68,49:68:2436:49:1747:-122.293,0,-184.275 0/0:133:133,0:133:4768:0:0:0,-40.037,-429.277 0/0:206:204,2:204:7305:2:72:0,-55.1755,-650.662 0/0:221:219,2:219:7847:2:72:0,-59.6909,-699.419 0/1:108:59,49:59:2116:49:1737:-124.102,0,-158.198 1/1:146:0,146:0:0:146:5227:-470.567,-43.9504,0 0/1:220:113,107:113:4060:107:3831:-278.759,0,-299.359 0/1:26:6,20:6:216:20:703:-55.7667,0,-11.9637 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:31:16,15:16:572:15:529:-38.6087,0,-42.4815 0/1:115:72,43:72:2588:43:1536:-103.915,0,-198.55 0/1:137:80,57:80:2849:57:2039:-142.54,0,-215.406 0/0:152:151,0:151:5409:0:0:0,-45.4555,-486.578 0/0:104:104,0:104:3732:0:0:0,-31.3071,-336.08 0/0:119:118,0:118:4201:0:0:0,-35.5215,-377.912 0/1:102:48,54:48:1720:54:1940:-144.171,0,-124.38 0/1:72:45,27:45:1616:27:968:-65.7632,0,-124.056 0/0:78:75,3:75:2700:3:108:0,-13.4052,-233.168 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 chr03 7633338 . CGTC TGTC,TGTT 31160.9 PASS AB=0.495353,0.501859;ABP=3.21211,3.04259;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1604,614;CIGAR=1X3M,1X2M1X;DP=2225;DPB=2225;DPRA=1.5169,0.633682;EPP=3486.05,1336.29;EPPR=9.52472;GTI=2;LEN=1,4;MEANALT=1.9,2.06667;MQM=30.2587,29.0782;MQMR=29.3333;NS=21;NUMALT=2;ODDS=3.75173;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48439,21470;QR=97;RO=3;RPL=0,0;RPP=3486.05,1336.29;RPPR=9.52472;RPR=1604,614;RUN=1,1;SAF=1604,614;SAP=3486.05,1336.29;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:150:1,77,72:1:25:77,72:2349,2511:-320.423,-153.339,-132.062,-165.512,0,-145.74 1/2:122:0,70,52:0:0:70,52:1887,1797:-245.53,-115.567,-94.4947,-130.226,0,-114.572 1/2:105:0,62,43:0:0:62,43:1908,1528:-231.656,-95.3877,-76.7238,-136.547,0,-123.602 1/1:90:0,90,0:0:0:90,0:2742,0:-222.909,-27.0927,0,-222.909,-27.0927,-222.909 1/1:320:1,317,0:1:36:317,0:9693,0:-785.716,-94.6149,0,-786.017,-95.4265,-786.883 1/1:170:0,168,2:0:0:168,2:4547,72:-364.075,-50.573,0,-359.761,-45.9867,-359.159 1/2:181:0,85,96:0:0:85,96:2292,3373:-372.32,-214.642,-189.055,-157.937,0,-129.038 2/2:71:0,0,71:0:0:0,71:0,2506:-181.967,-181.967,-181.967,-21.3731,-21.3731,0 1/2:239:0,108,130:0:0:108,130:3577,4511:-553.503,-292.751,-260.239,-260.83,0,-221.696 1/2:23:0,12,11:0:0:12,11:346,379:-48.4596,-24.1888,-20.5764,-24.5379,0,-21.2265 1/2:5:0,3,2:0:0:3,2:81,72:-10.3051,-4.75496,-3.85187,-5.81524,0,-5.21318 1/2:5:0,4,1:0:0:4,1:116,36:-10.7306,-2.60173,-1.39761,-8.41308,0,-8.11205 1/2:92:0,51,41:0:0:51,41:1546,1429:-198.226,-88.0107,-72.6581,-110.487,0,-98.1451 1/2:117:0,43,73:0:0:43,73:1323,2552:-252.086,-157.602,-144.657,-94.5011,0,-72.5259 1/1:199:1,198,0:1:36:198,0:6050,0:-488.109,-56.4243,0,-488.41,-59.6039,-491.242 1/1:107:0,107,0:0:0:107,0:3514,0:-287.665,-32.2102,0,-287.665,-32.2102,-287.665 1/1:109:0,109,0:0:0:109,0:3615,0:-296.376,-32.8123,0,-296.376,-32.8123,-296.376 1/2:21:0,8,13:0:0:8,13:232,453:-46.1501,-29.8538,-27.4455,-16.5662,0,-12.6528 1/2:16:0,10,6:0:0:10,6:310,215:-35.9445,-13.7645,-10.7542,-22.4619,0,-20.6557 1/1:47:0,46,1:0:0:46,1:1330,36:-107.298,-13.8474,0,-104.986,-11.2456,-104.685 1/1:36:0,36,0:0:0:36,0:981,0:-78.8353,-10.8371,0,-78.8353,-10.8371,-78.8353 chr03 7770910 . C T 5177.85 PASS AB=0.475;ABP=5.61607;AC=13;AF=0.309524;AN=42;AO=297;CIGAR=1X;DP=839;DPB=839;DPRA=1.68447;EPP=647.938;EPPR=1177.78;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.09112;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10645;QR=19227;RO=541;RPL=0;RPP=647.938;RPPR=1177.78;RPR=297;RUN=1;SAF=0;SAP=647.938;SAR=297;SRF=0;SRP=1177.78;SRR=541;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:25,18:25:888:18:648:-45.7076,0,-67.2947 0/1:31:19,12:19:684:12:428:-29.5269,0,-52.5584 0/1:38:19,19:19:680:19:680:-50.09,0,-50.09 0/0:19:19,0:19:675:0:0:0,-5.71957,-61.077 0/0:87:86,1:86:3017:1:36:0,-22.5913,-268.162 0/0:17:17,0:17:604:0:0:0,-5.11751,-54.6906 0/1:94:39,54:39:1383:54:1932:-145.801,0,-96.4126 1/1:66:0,66:0:0:66:2365:-213.108,-19.868,0 0/1:81:45,36:45:1616:36:1296:-92.5605,0,-121.347 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:24:9,15:9:320:15:540:-41.7118,0,-21.9176 0/1:50:23,27:23:824:27:964:-72.0253,0,-59.4318 0/1:39:22,17:22:788:17:612:-43.6733,0,-59.5046 0/0:80:80,0:80:2839:0:0:0,-24.0824,-255.749 0/0:15:14,1:14:500:1:36:0,-0.917175,-41.7379 0/0:30:29,1:29:1022:1:36:0,-5.43262,-88.6926 0/1:51:29,22:29:1036:22:784:-55.5314,0,-78.2014 0/1:24:17,7:17:608:7:252:-15.8042,0,-47.8273 0/0:26:26,0:26:927:0:0:0,-7.82678,-83.7474 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 chr03 7770922 . G T 10875 PASS AB=0.525424;ABP=5.66023;AC=29;AF=0.690476;AN=42;AO=543;CIGAR=1X;DP=834;DPB=834;DPRA=0.591538;EPP=1182.12;EPPR=634.909;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.67289;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19367;QR=10387;RO=291;RPL=0;RPP=1182.12;RPPR=634.909;RPR=543;RUN=1;SAF=0;SAP=1182.12;SAR=543;SRF=0;SRP=634.909;SRR=291;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:17,24:17:612:24:849:-64.3856,0,-43.0712 0/1:32:12,20:12:432:20:709:-54.5018,0,-29.5882 0/1:36:19,17:19:676:17:608:-44.2149,0,-50.3309 1/1:20:0,20:0:0:20:705:-63.7728,-6.0206,0 1/1:89:1,88:1:36:88:3128:-278.148,-23.1934,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 0/1:92:55,37:55:1963:37:1324:-91.7673,0,-149.25 0/0:65:65,0:65:2324:0:0:0,-19.5669,-209.42 0/1:82:36,46:36:1283:46:1652:-124.284,0,-91.0882 0/1:6:1,5:1:32:5:180:-14.7459,0,-1.39313 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:24:15,9:15:536:9:324:-22.2811,0,-41.3501 0/1:48:26,22:26:913:22:788:-56.7954,0,-68.0346 0/1:38:16,22:16:576:22:784:-59.4448,0,-40.7358 1/1:77:0,77:0:0:77:2749:-247.651,-23.1793,0 1/1:16:1,15:1:36:15:540:-45.3383,-1.21821,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 0/1:49:20,29:20:720:29:1039:-79.0737,0,-50.3783 0/1:24:7,17:7:248:17:608:-47.8273,0,-15.4395 1/1:28:0,28:0:0:28:968:-87.4265,-8.42884,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 chr03 7844970 . G A 4691.35 PASS AB=0.501099;ABP=3.01507;AC=14;AF=0.333333;AN=42;AO=271;CIGAR=1X;DP=849;DPB=849;DPRA=0.778614;EPP=591.479;EPPR=1253.78;GTI=0;LEN=1;MEANALT=1.14286;MQM=60;MQMR=59.9497;NS=21;NUMALT=1;ODDS=0.574598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9706;QR=20584;RO=576;RPL=271;RPP=591.479;RPPR=1253.78;RPR=0;RUN=1;SAF=271;SAP=591.479;SAR=0;SRF=576;SRP=1253.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:10,20:10:356:20:716:-55.7368,0,-23.3503 0/1:45:19,25:19:676:25:900:-67.7159,0,-47.5631 0/1:44:21,23:21:752:23:820:-60.8772,0,-54.7609 0/0:34:34,0:34:1202:0:0:0,-10.235,-108.484 0/0:84:84,0:84:3016:0:0:0,-25.2865,-271.67 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:72:42,30:42:1488:30:1072:-75.1183,0,-112.54 1/1:43:0,42:0:0:42:1512:-136.015,-12.6433,0 0/1:54:28,26:28:1008:26:921:-66.9496,0,-74.7807 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/1:25:12,13:12:428:13:468:-34.9339,0,-31.3331 0/1:32:17,15:17:599:15:525:-37.9451,0,-44.6051 0/0:82:82,0:82:2936:0:0:0,-24.6845,-264.46 0/0:19:18,1:18:644:1:36:0,-2.12129,-54.6923 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.801 0/1:98:46,52:46:1635:52:1872:-139.258,0,-117.892 0/1:32:16,16:16:576:16:576:-42.542,0,-42.542 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:34:34,0:34:1212:0:0:0,-10.235,-109.386 chr03 7939894 . G A 6072.35 PASS AB=0.490969;ABP=3.44174;AC=14;AF=0.333333;AN=42;AO=353;CIGAR=1X;DP=1182;DPB=1182;DPRA=0.847493;EPP=769.54;EPPR=1800.99;GTI=0;LEN=1;MEANALT=1;MQM=59.5014;MQMR=59.93;NS=21;NUMALT=1;ODDS=1.95051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12649;QR=29595;RO=828;RPL=0;RPP=769.54;RPPR=1800.99;RPR=353;RUN=1;SAF=353;SAP=769.54;SAR=0;SRF=828;SRP=1800.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:34,34:34:1208:34:1220:-89.6298,0,-88.556 0/1:47:23,24:23:820:24:856:-63.1852,0,-59.9741 0/1:40:17,23:17:612:23:828:-62.8006,0,-43.3722 0/0:109:109,0:109:3877:0:0:0,-32.8123,-349.125 0/0:94:92,2:92:3292:2:68:0,-21.8391,-290.023 0/0:73:72,0:72:2584:0:0:0,-21.6742,-232.449 0/1:112:51,61:51:1832:61:2196:-164.103,0,-131.445 1/1:51:0,51:0:0:51:1828:-164.729,-15.3525,0 0/1:111:49,62:49:1744:62:2224:-166.449,0,-123.83 0/1:5:3,2:3:108:2:72:-5.32673,0,-8.57002 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:18:14,4:14:504:4:144:-7.89508,0,-40.2796 0/1:71:36,35:36:1292:35:1256:-91.9694,0,-95.2106 0/1:58:34,24:34:1197:24:860:-60.2552,0,-90.5691 0/0:86:86,0:86:3076:0:0:0,-25.8886,-277.068 0/0:31:31,0:31:1097:0:0:0,-9.33193,-98.8101 0/0:51:51,0:51:1824:0:0:0,-15.3525,-164.441 0/1:35:20,15:20:716:15:529:-37.3998,0,-54.2317 0/1:39:28,11:28:1008:11:388:-23.5148,0,-79.2962 0/0:49:48,1:48:1728:1:36:0,-11.1522,-152.207 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 chr03 7939923 . GC TC,TT 74998.6 PASS AB=0.497914,0.500695;ABP=3.06466,3.01634;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1890,919;CIGAR=1X1M,2X;DP=2817;DPB=2817;DPRA=0.683594,1.23113;EPP=4107.09,1989.92;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.15,2.29412;MQM=54.2169,47.5811;MQMR=0;NS=21;NUMALT=2;ODDS=7.32458;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67293,32312;QR=0;RO=0;RPL=822,357;RPP=72.5388,102.31;RPPR=0;RPR=1068,562;RUN=1,1;SAF=822,358;SAP=72.5388,100.382;SAR=1068,561;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:163:0,74,88:0:0:74,88:2649,3109:-459.342,-244.185,-221.909,-215.158,0,-188.667 1/2:127:0,63,64:0:0:63,64:2234,2271:-360.282,-179.161,-160.196,-181.47,0,-162.204 1/2:102:0,43,59:0:0:43,59:1532,2088:-288.663,-164.57,-151.626,-124.442,0,-106.681 1/1:177:0,175,0:0:0:175,0:6198,0:-556.127,-52.6803,0,-556.127,-52.6803,-556.127 1/1:232:0,227,3:0:0:227,3:8042,108:-718.721,-68.3338,0,-710.015,-59.6243,-709.111 1/1:130:0,130,0:0:0:130,0:4599,0:-413.03,-39.1339,0,-413.03,-39.1339,-413.03 1/2:182:0,87,95:0:0:87,95:3106,3315:-517.543,-265.487,-239.298,-252.406,0,-223.808 2/2:192:0,0,192:0:0:0,192:0,6749:-587.527,-587.527,-587.527,-57.7978,-57.7978,0 1/2:195:0,78,117:0:0:78,117:2793,4142:-558.104,-330.886,-307.406,-227.571,0,-192.351 1/2:41:0,18,23:0:0:18,23:644,811:-114.51,-62.281,-56.8625,-52.5743,0,-45.6506 1/2:6:0,1,5:0:0:1,5:36,169:-16.9677,-14.0266,-13.7256,-3.29724,0,-1.79209 1/2:55:0,27,28:0:0:27,28:964,993:-156.865,-78.4511,-70.3233,-78.7637,0,-70.3349 1/2:175:0,90,85:0:0:90,85:3220,2961:-495.446,-235.269,-208.177,-260.524,0,-234.936 1/2:120:0,61,59:0:0:61,59:2192,2067:-343.424,-165.55,-147.187,-178.226,0,-160.465 1/1:308:0,305,1:0:0:305,1:10855,36:-971.55,-91.8142,0,-968.718,-88.9512,-968.417 1/1:82:0,82,0:0:0:82,0:2893,0:-259.383,-24.6845,0,-259.383,-24.6845,-259.383 1/1:97:0,96,1:0:0:96,1:3440,36:-308.266,-28.8989,0,-305.329,-25.6016,-305.028 1/2:152:0,84,67:0:0:84,67:3008,2344:-426.696,-181.916,-156.629,-244.917,0,-224.748 1/2:120:0,90,30:0:0:90,30:3228,1043:-345.016,-83.3992,-56.3065,-261.962,0,-252.931 1/1:98:0,96,2:0:0:96,2:3424,70:-307.3,-28.8989,0,-301.691,-22.945,-301.089 1/1:63:0,63,0:0:0:63,0:2236,0:-201,-18.9649,0,-201,-18.9649,-201 chr03 7941221 . C T 2264.27 PASS AB=0.429433;ABP=38.8671;AC=14;AF=0.333333;AN=42;AO=402;CIGAR=1X;DP=1651;DPB=1651;DPRA=0.936743;EPP=875.942;EPPR=2713.01;GTI=3;LEN=1;MEANALT=1.0625;MQM=24.5647;MQMR=36.9655;NS=21;NUMALT=1;ODDS=2.73769;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14398;QR=44697;RO=1248;RPL=0;RPP=875.942;RPPR=2713.01;RPR=402;RUN=1;SAF=402;SAP=875.942;SAR=0;SRF=1248;SRP=2713.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:42,79:42:1504:79:2828:-136.202,0,-90.156 0/1:106:45,60:45:1612:60:2133:-98.8506,0,-105.166 0/1:64:34,30:34:1224:30:1076:-45.1075,0,-83.4982 0/0:131:131,0:131:4704:0:0:0,-39.4349,-392.675 0/0:170:165,5:165:5907:5:180:0,-40.2569,-481.026 0/0:98:98,0:98:3516:0:0:0,-29.5009,-296.04 0/1:133:86,47:86:3072:47:1692:-62.3796,0,-220.44 1/1:37:0,37:0:0:37:1328:-83.1526,-11.1381,0 0/1:170:114,56:114:4080:56:2008:-68.3355,0,-285.364 0/1:9:7,2:7:252:2:72:-1.97785,0,-18.6526 0/1:5:3,2:3:108:2:72:-3.18197,0,-7.98013 0/1:16:10,6:10:356:6:201:-8.28266,0,-25.3009 0/1:78:55,23:55:1976:23:828:-26.058,0,-141.993 0/1:64:42,22:42:1512:22:792:-28.1363,0,-106.57 0/0:89:89,0:89:3179:0:0:0,-26.7917,-266.92 0/0:95:92,3:92:3289:3:108:0,-21.952,-265.009 0/0:107:106,1:106:3787:1:36:0,-29.8367,-311.08 0/1:33:16,17:16:572:17:612:-28.0564,0,-38.3446 0/1:30:18,12:18:631:12:432:-17.7944,0,-43.734 0/0:55:55,0:55:1976:0:0:0,-16.5566,-165.008 0/0:40:40,0:40:1440:0:0:0,-12.0412,-122.292 chr03 7941229 . GGCAAGC AGCTAGT,AGCGAGT 28305.4 PASS AB=0.562945,0.427553;ABP=31.9873,41.3953;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1263,403;CIGAR=1X2M1X2M1X,1X2M1X2M1X;DP=1679;DPB=1679;DPRA=2.15921,0.894027;EPP=2702.32,869.449;EPPR=0;GTI=2;LEN=7,7;MEANALT=2.1,2.4;MQM=36.9802,24.4268;MQMR=0;NS=21;NUMALT=2;ODDS=0.636716;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44216,14143;QR=0;RO=0;RPL=5,1;RPP=2702.32,869.449;RPPR=0;RPR=1258,402;RUN=1,1;SAF=1263,403;SAP=2745.58,878.114;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:124:0,43,76:0:0:43,76:1471,2644:-250.1,-138.263,-125.319,-111.794,0,-88.9152 1/2:109:0,46,62:0:0:46,62:1593,2176:-239.248,-117.131,-103.283,-122.295,0,-103.631 1/2:66:0,35,31:0:0:35,31:1222,1103:-149.823,-57.1264,-46.5903,-92.9762,0,-83.6443 1/1:134:0,133,0:0:0:133,0:4659,0:-391.89,-40.037,0,-391.89,-40.037,-391.89 1/1:173:0,167,5:0:0:167,5:5824,176:-489.379,-50.272,0,-480.232,-41.1369,-478.727 1/1:101:0,100,0:0:0:100,0:3489,0:-296.854,-30.103,0,-296.854,-30.103,-296.854 1/2:136:0,87,48:0:0:87,48:3045,1689:-324.127,-90.9729,-64.7833,-233.315,0,-218.865 2/2:38:0,0,37:0:0:0,37:0,1279:-80.7083,-80.7083,-80.7083,-11.1381,-11.1381,0 1/2:170:0,114,56:0:0:114,56:4004,1969:-399.654,-101.817,-67.5,-298.101,0,-281.243 1/2:9:0,7,2:0:0:7,2:237,72:-22.1306,-4.08506,-1.97785,-18.3083,0,-17.7062 1/2:5:0,3,2:0:0:3,2:108,72:-12.3837,-4.08506,-3.18197,-8.58219,0,-7.98013 1/2:17:0,10,7:0:0:10,7:347,242:-39.9734,-13.6572,-10.6469,-26.5951,0,-24.4879 1/2:78:0,54,23:0:0:54,23:1892,809:-185.729,-42.114,-25.8584,-143.632,0,-136.708 1/2:63:0,41,22:0:0:41,22:1432,777:-148.4,-40.5761,-28.2338,-108.092,0,-101.469 1/1:90:0,90,0:0:0:90,0:3156,0:-266.503,-27.0927,0,-266.503,-27.0927,-266.503 1/1:98:0,98,0:0:0:98,0:3453,0:-284.013,-29.5009,0,-284.013,-29.5009,-284.013 1/1:107:0,105,1:0:0:105,1:3701,36:-307.933,-31.6082,0,-306.099,-29.7905,-305.798 1/2:35:0,16,19:0:0:16,19:571,670:-79.7218,-36.5824,-31.7659,-43.4325,0,-37.7129 1/2:30:0,18,12:0:0:18,12:636,429:-70.7116,-23.1935,-17.775,-47.7962,0,-44.1838 1/1:56:0,56,0:0:0:56,0:1963,0:-165.193,-16.8577,0,-165.193,-16.8577,-165.193 1/1:40:0,40,0:0:0:40,0:1413,0:-120.47,-12.0412,0,-120.47,-12.0412,-120.47 chr03 7941458 . GCGT ACGC,GCGC 66259.6 PASS AB=0.534066,0.462271;ABP=16.7693,19.8873;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1737,789;CIGAR=1X2M1X,3M1X;DP=2541;DPB=2541.25;DPRA=0.844718,1.13125;EPP=3766.18,1707.63;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.45,2.5;MQM=53.601,59.6984;MQMR=0;NS=21;NUMALT=2;ODDS=14.1203;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=60091,28019;QR=0;RO=0;RPL=1045,437;RPP=158.788,22.8948;RPPR=0;RPR=692,352;RUN=1,1;SAF=1046,438;SAP=160.558,23.8416;SAR=691,351;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:189:0,96,92:0:0:96,92:3307,3259:-533.055,-265.477,-236.578,-267.577,0,-239.882 1/2:89:0,36,52:0:0:36,52:1250,1849:-252.198,-150.677,-139.84,-101.513,0,-85.8591 1/2:81:0,51,29:0:0:51,29:1786,1017:-227,-82.4277,-67.0751,-144.562,0,-135.832 1/1:137:0,135,0:0:0:135,0:4684,0:-419.879,-40.6391,0,-419.879,-40.6391,-419.879 1/1:310:0,297,11:0:0:297,11:10261,396:-918.85,-89.4059,0,-886.54,-57.1215,-883.228 1/1:62:0,60,0:0:0:60,0:2030,0:-182.352,-18.0618,0,-182.352,-18.0618,-182.352 1/2:236:0,104,132:0:0:104,132:3591,4687:-673.653,-382.188,-350.88,-291.815,0,-252.079 2/2:142:0,0,141:0:0:0,141:0,5015:-450.338,-450.338,-450.338,-42.4452,-42.4452,0 1/2:266:0,150,114:0:0:150,114:5207,4061:-752.783,-331.027,-285.872,-421.778,0,-387.461 1/2:16:0,8,8:0:0:8,8:281,280:-45.9214,-23.1277,-20.7195,-23.1435,0,-20.7353 1/2:10:0,2,8:0:0:2,8:72,288:-29.6628,-23.8592,-23.2571,-6.1603,0,-3.75206 1/2:33:0,20,13:0:0:20,13:693,459:-93.7575,-37.7307,-31.7101,-56.3765,0,-52.4631 1/2:161:0,90,71:0:0:90,71:3148,2500:-457.764,-203.873,-176.78,-254.241,0,-232.867 1/2:121:0,71,50:0:0:71,50:2467,1778:-344.538,-145.248,-123.874,-199.642,0,-184.59 1/1:164:0,163,0:0:0:163,0:5599,0:-501.676,-49.0679,0,-501.676,-49.0679,-501.676 1/1:105:0,105,0:0:0:105,0:3660,0:-328.39,-31.6082,0,-328.39,-31.6082,-328.39 1/1:82:0,81,0:0:0:81,0:2812,0:-252.005,-24.3834,0,-252.005,-24.3834,-252.005 1/2:70:0,31,39:0:0:31,39:1070,1399:-200.798,-114.458,-105.126,-86.6898,0,-74.9496 1/2:93:0,70,23:0:0:70,23:2414,815:-262.468,-66.74,-45.6679,-196.08,0,-189.156 1/1:138:0,133,5:0:0:133,5:4575,180:-409.666,-40.037,0,-394.983,-24.9948,-393.478 1/1:36:0,34,1:0:0:34,1:1184,36:-106.194,-10.235,0,-103.256,-7.29374,-102.955 chr03 7941494 . C T 18261.6 PASS AB=0.539216;ABP=11.1853;AC=27;AF=0.642857;AN=42;AO=882;CIGAR=1X;DP=1238;DPB=1238;DPRA=1.83975;EPP=1875.07;EPPR=756.609;GTI=1;LEN=1;MEANALT=1.05263;MQM=50.4864;MQMR=59.6592;NS=21;NUMALT=1;ODDS=3.07227;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31572;QR=12671;RO=355;RPL=877;RPP=1875.07;RPPR=756.609;RPR=5;RUN=1;SAF=0;SAP=1918.25;SAR=882;SRF=0;SRP=773.883;SRR=355;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:52,48:52:1855:48:1720:-123.347,0,-137.123 0/1:72:30,42:30:1072:42:1496:-113.061,0,-75.1174 0/1:49:18,31:18:648:31:1112:-84.2147,0,-43.8944 1/1:69:0,69:0:0:69:2480:-221.897,-20.7711,0 1/1:143:6,137:6:216:137:4907:-417.819,-23.2592,0 1/1:76:0,76:0:0:76:2724:-244.493,-22.8783,0 0/1:76:44,32:44:1557:32:1140:-79.9569,0,-117.471 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.652 0/1:114:55,59:55:1952:59:2112:-154.512,0,-141.637 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9412 0/1:8:5,3:5:180:3:108:-7.65966,0,-14.1438 0/1:13:6,7:6:212:7:248:-18.462,0,-15.5114 0/1:66:25,41:25:900:41:1476:-111.048,0,-61.3662 0/1:52:26,26:26:932:26:932:-68.2001,0,-68.543 1/1:81:0,80:0:0:80:2880:-257.483,-24.0824,0 1/1:54:0,54:0:0:54:1937:-173.066,-16.2556,0 1/1:37:0,37:0:0:37:1316:-117.653,-11.1381,0 0/1:26:11,15:11:387:15:536:-40.1643,0,-27.3392 0/1:36:10,26:10:360:26:932:-73.0184,0,-21.9072 1/1:67:0,67:0:0:67:2380:-212.479,-20.169,0 1/1:32:0,32:0:0:32:1136:-102.006,-9.63296,0 chr03 7941557 . C T 13145.1 PASS AB=0.457971;ABP=24.1837;AC=27;AF=0.642857;AN=42;AO=794;CIGAR=1X;DP=1594;DPB=1594;DPRA=1.544;EPP=1727.16;EPPR=1729.33;GTI=3;LEN=1;MEANALT=1.15;MQM=59.9081;MQMR=59.9811;NS=21;NUMALT=1;ODDS=0.91676;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27661;QR=28313;RO=795;RPL=794;RPP=1727.16;RPPR=1729.33;RPR=0;RUN=1;SAF=794;SAP=1727.16;SAR=0;SRF=795;SRP=1729.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:19,10:19:659:10:345:-22.651,0,-50.9024 0/1:30:15,15:15:540:15:532:-39.1822,0,-39.9056 0/1:45:29,16:29:1023:16:576:-38.6286,0,-78.8354 1/1:25:0,25:0:0:25:862:-77.8917,-7.52575,0 1/1:34:2,32:2:72:32:1105:-92.9177,-3.3983,0 0/1:41:4,37:4:144:37:1316:-106.4,0,-0.971387 0/1:48:24,24:24:852:24:849:-62.2793,0,-62.5509 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/1:39:22,17:22:788:17:585:-41.2317,0,-59.5 0/1:208:111,97:111:3937:97:3388:-242.493,0,-291.909 0/1:230:125,105:125:4480:105:3708:-264.685,0,-334.132 0/1:297:150,143:150:5342:143:5011:-362.62,0,-392.405 0/1:29:21,8:21:752:8:288:-17.5375,0,-59.2764 0/1:35:17,18:17:596:18:614:-45.0434,0,-43.4317 1/1:49:0,49:0:0:49:1727:-155.713,-14.7505,0 1/1:30:0,30:0:0:30:1056:-95.3509,-9.0309,0 1/1:14:0,14:0:0:14:478:-43.3441,-4.21442,0 0/1:342:204,137:204:7268:137:4653:-316.073,0,-551.295 0/1:7:2,5:2:72:5:167:-13.2512,0,-4.72951 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:5:0,5:0:0:5:153:-14.0722,-1.50515,0 chr03 7950522 . G A 8.88154 PASS AB=0.524815;ABP=8.07554;AC=28;AF=0.666667;AN=42;AO=1251;CIGAR=1X;DP=1779;DPB=1779;DPRA=1.15203;EPP=2719.52;EPPR=1147.38;GTI=14;LEN=1;MEANALT=1.05;MQM=10.5556;MQMR=10.9791;NS=21;NUMALT=1;ODDS=1.90632;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44743;QR=18835;RO=527;RPL=1251;RPP=2719.52;RPPR=1147.38;RPR=0;RUN=1;SAF=0;SAP=2719.52;SAR=1251;SRF=0;SRP=1147.38;SRR=527;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:42,37:42:1496:37:1324:-9.67322,0,-17.9438 0/1:100:49,51:49:1748:51:1813:-20.1327,0,-18.6329 0/1:85:46,39:46:1643:39:1404:-9.84794,0,-20.0005 1/1:67:0,67:0:0:67:2412:-63.0436,-20.169,0 1/1:261:2,259:2:72:259:9204:-240.352,-76.4812,0 1/1:67:0,67:0:0:67:2404:-65.8209,-20.169,0 0/1:145:82,63:82:2929:63:2260:-18.2161,0,-37.6004 0/0:74:74,0:74:2643:0:0:0,-22.2762,-73.2728 0/1:122:45,77:45:1616:77:2756:-34.9437,0,-7.79134 0/1:16:8,8:8:284:8:288:-3.11331,0,-3.20257 0/1:6:2,4:2:68:4:144:-2.25915,0,-0.185284 0/1:27:13,14:13:468:14:504:-5.64524,0,-4.83729 0/1:85:34,51:34:1212:51:1809:-20.6969,0,-7.86842 0/1:107:60,47:60:2152:47:1684:-10.505,0,-26.3293 1/1:99:0,98:0:0:98:3520:-88.6527,-29.5009,0 1/1:104:0,104:0:0:104:3713:-93.6665,-31.3071,0 1/1:42:0,42:0:0:42:1512:-37.8628,-12.6433,0 0/1:94:40,54:40:1432:54:1936:-24.8484,0,-11.3642 0/1:81:29,52:29:1036:52:1860:-22.6461,0,-4.39999 1/1:75:0,75:0:0:75:2684:-73.8188,-22.5773,0 1/1:43:1,42:1:36:42:1512:-42.349,-11.8456,0 chr03 7967448 . T C 13846.6 PASS AB=0.540835;ABP=10.9908;AC=28;AF=0.666667;AN=42;AO=684;CIGAR=1X;DP=990;DPB=990;DPRA=0.98125;EPP=1488.3;EPPR=665.309;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8173;MQMR=59.8885;NS=21;NUMALT=1;ODDS=5.94983;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24422;QR=10932;RO=305;RPL=0;RPP=1488.3;RPPR=665.309;RPR=684;RUN=1;SAF=684;SAP=1488.3;SAR=0;SRF=305;SRP=665.309;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:33,29:33:1184:29:1044:-75.6094,0,-88.2045 0/1:48:25,23:25:896:23:828:-60.3947,0,-66.508 0/1:37:15,22:15:540:22:792:-60.4676,0,-37.7984 1/1:49:0,49:0:0:49:1760:-158.682,-14.7505,0 1/1:90:2,87:2:72:87:3099:-271.555,-20.2415,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 0/1:98:52,46:52:1856:46:1639:-118.297,0,-137.815 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/1:27:16,11:16:572:11:383:-26.6754,0,-43.6856 0/1:9:3,6:3:108:6:212:-16.7155,0,-7.3659 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:6:4,2:4:144:2:72:-5.02892,0,-11.5074 0/1:38:13,25:13:460:25:887:-68.709,0,-30.2962 0/1:55:21,34:21:752:34:1220:-93.5471,0,-51.4496 1/1:58:0,58:0:0:58:2076:-187.107,-17.4597,0 1/1:43:0,43:0:0:43:1517:-136.812,-12.9443,0 1/1:40:0,40:0:0:40:1432:-129.168,-12.0412,0 0/1:113:54,59:54:1940:59:2108:-155.954,0,-140.702 0/1:52:14,38:14:500:38:1352:-106.325,0,-29.6826 1/1:36:2,34:2:72:34:1201:-101.555,-4.00036,0 1/1:60:0,60:0:0:60:2156:-194.303,-18.0618,0 chr03 7967653 . T C 29744.4 PASS AB=0.477863;ABP=8.58651;AC=28;AF=0.666667;AN=42;AO=1478;CIGAR=1X;DP=2291;DPB=2291;DPRA=0.946087;EPP=3212.45;EPPR=1746.75;GTI=0;LEN=1;MEANALT=1.1;MQM=59.8173;MQMR=59.9901;NS=21;NUMALT=1;ODDS=3.34816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52824;QR=28987;RO=811;RPL=0;RPP=3212.45;RPPR=1755.4;RPR=1478;RUN=1;SAF=1478;SAP=3212.45;SAR=0;SRF=810;SRP=1755.4;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:89,88:89:3200:88:3156:-230.962,0,-234.94 0/1:127:67,60:67:2392:60:2140:-154.629,0,-177.307 0/1:54:21,33:21:756:33:1184:-90.6127,0,-52.1116 1/1:138:0,137:0:0:137:4865:-437.613,-41.2411,0 1/1:213:5,208:5:176:208:7460:-655.225,-47.9344,0 1/1:89:0,89:0:0:89:3192:-287.467,-26.7917,0 0/1:178:117,61:117:4204:61:2192:-143.962,0,-324.956 0/0:115:115,0:115:4095:0:0:0,-34.6184,-368.734 0/1:272:137,135:137:4901:135:4836:-353.511,0,-359.359 0/1:24:7,17:7:252:17:608:-47.8273,0,-15.8042 0/1:9:2,7:2:72:7:239:-19.1334,0,-4.12745 0/1:30:25,5:25:896:5:180:-7.52116,0,-71.9295 0/1:149:83,66:83:2960:66:2364:-167.383,0,-221.781 0/1:151:82,69:82:2907:69:2434:-173.831,0,-216.404 1/1:73:2,70:2:72:70:2488:-217.329,-15.1973,0 1/1:91:1,90:1:32:90:3228:-287.54,-24.1944,0 1/1:102:0,102:0:0:102:3622:-326.182,-30.7051,0 0/1:64:27,37:27:964:37:1328:-100.555,0,-67.8109 0/1:75:27,48:27:964:48:1712:-131.784,0,-64.4996 1/1:83:1,82:1:36:82:2932:-260.51,-21.3872,0 1/1:77:3,74:3:108:74:2664:-229.918,-13.1041,0 chr03 8010842 . TTTCTTTT AGTTTTTC,ATTTTTTC 54591.6 PASS AB=0.366849,0.628885;ABP=255.712,239.78;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1782,1108;CIGAR=2X1M1X3M1X,1X2M1X3M1X;DP=2907;DPB=2908.62;DPRA=4.02987,1.04136;EPP=3872.57,2409;EPPR=0;GTI=1;LEN=8,8;MEANALT=2.52632,2.57143;MQM=29.0993,52.1588;MQMR=0;NS=21;NUMALT=2;ODDS=2.89738;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=71,71;PQR=68;PRO=3;QA=62545,38854;QR=0;RO=0;RPL=1782,456;RPP=3872.57,78.2985;RPPR=0;RPR=0,652;RUN=1,1;SAF=1782,456;SAP=3872.57,78.2985;SAR=0,652;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:278:0,107,170:0:0:107,170:3757,5977:-722.567,-480.917,-448.707,-241.599,0,-190.424 1/2:218:0,97,119:0:0:97,119:3375,4188:-520.95,-331.111,-301.912,-189.887,0,-154.064 1/2:141:0,53,88:0:0:53,88:1889,3095:-371.088,-250.34,-234.386,-121.058,0,-94.5673 1/1:195:0,193,1:0:0:193,1:6820,36:-498.587,-58.0988,0,-495.651,-55.1282,-495.35 1/1:185:0,183,0:0:0:183,0:6421,0:-468.419,-55.0885,0,-468.419,-55.0885,-468.419 1/1:113:0,113,0:0:0:113,0:3978,0:-255.408,-34.0164,0,-255.408,-34.0164,-255.408 1/2:227:0,75,151:0:0:75,151:2611,5307:-569.051,-420.794,-398.217,-148.221,0,-102.766 2/2:67:0,0,67:0:0:0,67:0,2312:-204.072,-204.072,-204.072,-20.169,-20.169,0 1/2:162:0,53,109:0:0:53,109:1851,3848:-438.721,-311.587,-295.633,-127.45,0,-94.6382 1/2:48:0,7,41:0:0:7,41:243,1435:-130.946,-116.01,-113.903,-15.2182,0,-2.87597 2/2:7:0,0,7:0:0:0,7:0,248:-22.5047,-22.5047,-22.5047,-2.10721,-2.10721,0 1/1:8:0,8,0:0:0:8,0:281,0:-19.8011,-2.40824,0,-19.8011,-2.40824,-19.8011 1/2:211:0,76,134:0:0:76,134:2626,4695:-547.203,-377.917,-355.038,-169.378,0,-129.04 1/2:168:0,54,113:0:0:54,113:1889,3951:-441.423,-319.812,-303.557,-121.724,0,-87.7072 1/1:198:0,197,0:0:0:197,0:6960,0:-505.406,-59.3029,0,-505.406,-59.3029,-505.406 1/1:184:0,183,0:0:0:183,0:6452,0:-492.708,-55.0885,0,-492.708,-55.0885,-492.708 1/1:134:0,132,0:0:0:132,0:4625,0:-353.764,-39.736,0,-353.764,-39.736,-353.764 1/2:91:0,22,68:0:0:22,68:777,2398:-238.944,-193.592,-186.969,-45.4632,0,-24.9932 1/2:97:0,58,39:0:0:58,39:2045,1328:-238.028,-106.844,-89.384,-131.5,0,-119.76 1/1:121:0,120,0:0:0:120,0:4169,0:-285.924,-36.1236,0,-285.924,-36.1236,-285.924 1/1:54:0,51,1:0:0:51,1:1776,36:-115.072,-15.3525,0,-112.29,-12.549,-111.989 chr03 8010893 . C T 10492.8 PASS AB=0.432285;ABP=61.239;AC=13;AF=0.309524;AN=42;AO=659;CIGAR=1X;DP=2892;DPB=2892;DPRA=0.790376;EPP=1434.01;EPPR=4851.91;GTI=1;LEN=1;MEANALT=1;MQM=59.8149;MQMR=60;NS=21;NUMALT=1;ODDS=3.65152;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23581;QR=79914;RO=2233;RPL=659;RPP=1434.01;RPPR=4851.91;RPR=0;RUN=1;SAF=0;SAP=1434.01;SAR=659;SRF=0;SRP=4851.91;SRR=2233;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:110,90:110:3936:90:3223:-230.072,0,-294.226 0/1:155:101,54:101:3628:54:1932:-127.495,0,-280.064 0/1:126:68,58:68:2444:58:2084:-149.897,0,-182.285 0/0:138:137,1:137:4912:1:36:0,-37.9456,-438.634 0/0:375:375,0:375:13402:0:0:0,-112.886,-1205.97 0/0:106:106,0:106:3797:0:0:0,-31.9092,-341.926 0/1:173:80,93:80:2868:93:3312:-246.22,0,-206.279 1/1:26:0,26:0:0:26:936:-84.5579,-7.82678,0 0/1:205:126,79:126:4516:79:2828:-193.043,0,-344.896 0/1:50:19,31:19:668:31:1104:-84.6161,0,-45.3942 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:175:108,67:108:3853:67:2394:-162.998,0,-294.285 0/1:179:98,81:98:3497:81:2900:-207.337,0,-261.055 0/0:305:305,0:305:10906:0:0:0,-91.8141,-981.437 0/0:155:155,0:155:5552:0:0:0,-46.6596,-499.804 0/0:147:147,0:147:5272:0:0:0,-44.2514,-474.615 0/1:119:65,54:65:2324:54:1944:-139.412,0,-173.598 0/1:71:51,20:51:1815:20:708:-42.6703,0,-142.258 0/0:116:116,0:116:4148:0:0:0,-34.9195,-373.504 0/0:55:55,0:55:1980:0:0:0,-16.5566,-178.474 chr03 8414045 . A T 87768.1 PASS AB=0.599026;ABP=440.387;AC=28;AF=0.666667;AN=42;AO=4469;CIGAR=1X;DP=6716;DPB=6716;DPRA=1.78497;EPP=9707.32;EPPR=4882.31;GTI=0;LEN=1;MEANALT=1;MQM=59.9843;MQMR=59.992;NS=21;NUMALT=1;ODDS=56.8853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=159956;QR=80459;RO=2247;RPL=0;RPP=9707.32;RPPR=4882.31;RPR=4469;RUN=1;SAF=4469;SAP=9707.32;SAR=0;SRF=2247;SRP=4882.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:189:88,101:88:3132:101:3612:-268.392,0,-225.213 0/1:142:76,66:76:2713:66:2364:-170.272,0,-201.666 0/1:131:52,79:52:1868:79:2824:-214.964,0,-128.964 1/1:214:0,214:0:0:214:7664:-689.795,-64.4204,0 1/1:349:3,346:3:108:346:12349:-1101.18,-94.9843,0 1/1:183:0,183:0:0:183:6564:-590.84,-55.0885,0 0/1:199:75,124:75:2700:124:4452:-340.944,0,-183.338 0/0:183:183,0:183:6499:0:0:0,-55.0885,-584.996 0/1:239:95,144:95:3404:144:5137:-390.526,0,-234.628 0/1:805:347,458:347:12460:458:16389:-1231.63,0,-878.894 0/1:734:140,594:140:4997:594:21308:-1696.22,0,-228.917 0/1:1160:506,654:506:18124:654:23422:-1758.15,0,-1281.55 0/1:155:61,94:61:2196:94:3372:-257.036,0,-151.245 0/1:130:56,74:56:2012:74:2632:-197.994,0,-142.215 1/1:175:0,175:0:0:175:6256:-563.136,-52.6803,0 1/1:118:0,118:0:0:118:4224:-380.34,-35.5215,0 1/1:152:0,152:0:0:152:5413:-487.302,-45.7566,0 0/1:1160:534,626:534:19145:626:22428:-1668.58,0,-1373.4 0/1:91:29,62:29:1029:62:2228:-173.39,0,-65.5274 1/1:141:2,139:2:72:139:4942:-438.097,-35.6085,0 1/1:66:0,66:0:0:66:2376:-214.097,-19.868,0 chr03 8414114 . AACC AACA,GACG 65361.9 PASS AB=0.519316,0.478784;ABP=8.12749,9.18366;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2227,861;CIGAR=3M1X,1X2M1X;DP=3095;DPB=3095.25;DPRA=1.51313,0.72291;EPP=4838.88,1872.65;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.1,2.23529;MQM=59.714,59.5587;MQMR=0;NS=21;NUMALT=2;ODDS=11.0752;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=79346,30086;QR=0;RO=0;RPL=0,0;RPP=4838.88,1872.65;RPPR=0;RPR=2227,861;RUN=1,1;SAF=0,0;SAP=4838.88,1872.65;SAR=2227,861;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:162:0,84,78:0:0:84,78:3004,2697:-463.874,-218.93,-193.643,-245.295,0,-221.815 1/2:218:0,109,109:0:0:109,109:3875,3844:-629.047,-313.314,-280.501,-316.087,0,-283.275 1/2:128:0,67,61:0:0:67,61:2397,2158:-371.568,-176.12,-155.951,-195.804,0,-177.441 1/1:184:0,183,1:0:0:183,1:6508,36:-585.41,-55.0885,0,-582.473,-51.7912,-582.172 1/1:202:0,202,0:0:0:202,0:7179,0:-646.153,-60.8081,0,-646.153,-60.8081,-646.153 1/1:177:0,177,0:0:0:177,0:6310,0:-567.95,-53.2823,0,-567.95,-53.2823,-567.95 1/2:158:0,78,79:0:0:78,79:2761,2770:-450.267,-225.403,-201.923,-224.876,0,-201.095 2/2:99:0,0,99:0:0:0,99:0,3436:-309.446,-309.446,-309.446,-29.802,-29.802,0 1/2:229:0,110,119:0:0:110,119:3916,4190:-659.979,-341.44,-308.327,-318.893,0,-283.07 1/2:21:0,13,8:0:0:13,8:449,287:-60.225,-23.7636,-19.8502,-36.8148,0,-34.4066 1/2:13:0,6,7:0:0:6,7:212,246:-37.6407,-20.3744,-18.5682,-17.6186,0,-15.5114 1/2:49:0,23,26:0:0:23,26:819,907:-140.506,-73.7508,-66.8271,-66.7482,0,-58.9214 1/2:235:0,127,108:0:0:127,108:4530,3774:-675.567,-306.487,-268.256,-369.432,0,-336.92 1/2:211:0,130,79:0:0:130,79:4659,2718:-600.712,-220.742,-181.608,-380.072,0,-356.291 1/1:341:0,340,0:0:0:340,0:12124,0:-1090.75,-102.35,0,-1090.75,-102.35,-1090.75 1/1:155:0,154,1:0:0:154,1:5497,24:-494.614,-46.3586,0,-492.756,-44.2598,-492.455 1/1:149:0,145,1:0:0:145,1:5191,34:-466.987,-43.6494,0,-464.23,-40.8888,-463.929 1/2:77:0,35,42:0:0:35,42:1245,1476:-221.909,-120.45,-109.914,-101.813,0,-89.1693 1/2:78:0,38,40:0:0:38,40:1344,1381:-221.94,-112.471,-101.032,-109.818,0,-97.777 1/1:169:0,166,3:0:0:166,3:5916,108:-531.967,-49.971,0,-523.155,-40.7989,-522.252 1/1:40:0,40,0:0:0:40,0:1410,0:-127.187,-12.0412,0,-127.187,-12.0412,-127.187 chr03 8414150 . CTAT TTAC,TTAT 66223.6 PASS AB=0.523087,0.473751;ABP=10.3296,12.4722;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2267,856;CIGAR=1X2M1X,1X3M;DP=3128;DPB=3128;DPRA=1.49851,0.718074;EPP=4925.74,1861.79;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=1.95,2.11765;MQM=59.6299,59.5386;MQMR=60;NS=21;NUMALT=2;ODDS=8.22057;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80223,30587;QR=32;RO=1;RPL=2267,856;RPP=4925.74,1861.79;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4925.74,1861.79;SAR=2267,856;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:166:0,87,79:0:0:87,79:3085,2804:-479.595,-228.271,-202.081,-251.678,0,-227.897 1/2:219:0,110,107:0:0:110,107:3903,3803:-627.779,-309.876,-276.763,-317.899,0,-285.689 1/2:126:0,67,59:0:0:67,59:2377,2109:-365.964,-172.312,-152.143,-194.008,0,-176.247 1/1:190:0,189,1:0:0:189,1:6677,36:-600.583,-56.8947,0,-597.645,-53.5974,-597.344 1/1:204:0,204,0:0:0:204,0:7247,0:-652.275,-61.4101,0,-652.275,-61.4101,-652.275 1/1:181:0,181,0:0:0:181,0:6431,0:-578.833,-54.4864,0,-578.833,-54.4864,-578.833 1/2:154:0,75,79:0:0:75,79:2651,2844:-448.263,-232.385,-209.808,-216.234,0,-192.453 2/2:101:0,0,101:0:0:0,101:0,3601:-324.272,-324.272,-324.272,-30.404,-30.404,0 1/2:231:1,111,119:1:32:111,119:3910,4280:-663.983,-346.513,-315.677,-315.228,0,-281.984 1/2:22:0,14,8:0:0:14,8:479,288:-62.712,-23.8545,-19.6401,-39.2107,0,-36.8025 1/2:12:0,5,7:0:0:5,7:180,237:-34.2479,-19.5518,-18.0467,-15.0469,0,-12.9397 1/2:51:0,25,26:0:0:25,26:879,932:-147.914,-76.3675,-68.8417,-71.901,0,-64.0742 1/2:234:0,127,107:0:0:127,107:4504,3811:-677.521,-310.693,-272.463,-367.183,0,-334.973 1/2:211:0,131,79:0:0:131,79:4648,2833:-609.234,-230.755,-191.32,-378.535,0,-354.754 1/1:347:0,347,0:0:0:347,0:12270,0:-1103.52,-104.457,0,-1103.52,-104.457,-1103.52 1/1:161:0,160,1:0:0:160,1:5656,36:-508.805,-48.1648,0,-505.868,-44.8676,-505.566 1/1:149:0,148,1:0:0:148,1:5256,36:-472.495,-44.5524,0,-469.557,-41.2552,-469.256 1/2:76:0,34,41:0:0:34,41:1214,1461:-218.093,-119.126,-108.891,-99.04,0,-86.6978 1/2:79:0,41,38:0:0:41,38:1412,1368:-226.568,-111.977,-99.6348,-114.943,0,-103.504 1/1:174:0,171,3:0:0:171,3:6036,108:-542.792,-51.4761,0,-533.98,-42.3041,-533.077 1/1:40:0,40,0:0:0:40,0:1408,0:-127.007,-12.0412,0,-127.007,-12.0412,-127.007 chr03 8630273 . C T 41419.7 PASS AB=0.475264;ABP=15.5791;AC=28;AF=0.666667;AN=42;AO=2021;CIGAR=1X;DP=3383;DPB=3383;DPRA=1.40819;EPP=3926.83;EPPR=2770.38;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9738;MQMR=59.9949;NS=21;NUMALT=1;ODDS=16.5084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72361;QR=48767;RO=1361;RPL=54;RPP=3935.05;RPPR=2770.38;RPR=1967;RUN=1;SAF=2020;SAP=4382.87;SAR=1;SRF=1361;SRP=2958.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:42,62:42:1508:62:2203:-167.226,0,-104.707 0/1:108:48,60:48:1724:60:2156:-161.796,0,-122.934 0/1:88:50,38:50:1796:38:1364:-96.5701,0,-135.432 1/1:178:0,178:0:0:178:6392:-575.366,-53.5833,0 1/1:219:1,218:1:36:218:7824:-700.583,-62.3273,0 1/1:70:2,68:2:72:68:2444:-213.378,-14.2354,0 0/1:192:109,83:109:3920:83:2980:-210.634,0,-295.193 0/0:116:116,0:116:4145:0:0:0,-34.9195,-373.232 0/1:169:82,87:82:2940:87:3113:-229.521,0,-213.96 0/1:318:167,150:167:6000:150:5338:-384.76,0,-444.312 0/1:745:427,318:427:15274:318:11347:-796.702,0,-1150.11 0/1:89:39,50:39:1404:50:1792:-134.763,0,-99.8676 0/1:112:59,53:59:2101:53:1896:-137.199,0,-155.642 0/1:110:46,64:46:1652:64:2300:-174.147,0,-115.855 1/1:114:0,114:0:0:114:4074:-366.843,-34.3174,0 1/1:94:0,94:0:0:94:3364:-302.976,-28.2968,0 1/1:111:0,111:0:0:111:3980:-358.389,-33.4143,0 0/1:281:157,124:157:5623:124:4442:-315.36,0,-421.601 0/1:49:14,35:14:500:35:1256:-98.5948,0,-30.5857 1/1:68:2,66:2:72:66:2368:-206.541,-13.6333,0 1/1:48:0,48:0:0:48:1728:-155.805,-14.4494,0 chr03 8633900 . A G 13436.5 PASS AB=0.571429;ABP=17.9004;AC=29;AF=0.690476;AN=42;AO=508;CIGAR=1X;DP=687;DPB=687;DPRA=0.960294;EPP=4.72012;EPPR=5.7398;GTI=1;LEN=1;MEANALT=1;MQM=59.9882;MQMR=60;NS=21;NUMALT=1;ODDS=1.88694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18017;QR=6419;RO=179;RPL=508;RPP=1106.12;RPPR=391.704;RPR=0;RUN=1;SAF=244;SAP=4.72012;SAR=264;SRF=82;SRP=5.7398;SRR=97;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:7,18:7:252:18:644:-50.7648,0,-15.5032 0/1:11:5,6:5:180:6:212:-16.1135,0,-13.2407 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 1/1:31:0,31:0:0:31:1076:-97.1446,-9.33193,0 1/1:48:0,48:0:0:48:1704:-153.645,-14.4494,0 1/1:26:0,26:0:0:26:923:-83.3868,-7.82678,0 0/1:40:19,21:19:680:21:743:-55.1521,0,-49.488 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/1:41:16,25:16:576:25:896:-68.6181,0,-39.8328 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:5:1,4:1:36:4:140:-11.4394,0,-2.09312 0/1:27:15,12:15:540:12:427:-30.6388,0,-40.8087 0/1:33:17,16:17:612:16:576:-42.241,0,-45.4794 1/1:46:0,46:0:0:46:1622:-146.267,-13.8474,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:22:0,22:0:0:22:784:-70.8839,-6.62266,0 0/1:68:32,36:32:1148:36:1270:-94.1313,0,-83.1598 0/1:72:24,48:24:851:48:1698:-131.43,0,-55.2353 1/1:38:1,37:1:36:37:1328:-116.224,-7.84087,0 1/1:80:0,80:0:0:80:2822:-254.22,-24.0824,0 chr03 8635236 . T C 11117.2 PASS AB=0.460251;ABP=19.4099;AC=14;AF=0.333333;AN=42;AO=654;CIGAR=1X;DP=2264;DPB=2264;DPRA=1.22889;EPP=1423.15;EPPR=3444.99;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=59.9969;NS=21;NUMALT=1;ODDS=9.81476;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23272;QR=57580;RO=1609;RPL=654;RPP=1423.15;RPPR=3462.25;RPR=0;RUN=1;SAF=0;SAP=1423.15;SAR=654;SRF=2;SRP=3479.56;SRR=1607;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:52,23:52:1849:23:813:-50.9119,0,-144.111 0/1:111:48,63:48:1724:63:2252:-169.529,0,-122.031 0/1:64:41,23:41:1442:23:813:-54.2232,0,-110.806 0/0:141:141,0:141:5068:0:0:0,-42.4452,-456.262 0/0:228:226,1:226:8052:1:36:0,-65.0204,-721.172 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 0/1:122:56,66:56:2012:66:2376:-177.372,0,-144.627 1/1:101:0,101:0:0:101:3540:-318.805,-30.404,0 0/1:194:113,81:113:4064:81:2901:-202.924,0,-307.545 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:13:7,6:7:252:6:212:-15.5114,0,-19.1156 0/1:40:14,26:14:504:26:925:-71.5255,0,-33.6569 0/1:139:62,77:62:2228:77:2749:-205.807,0,-158.941 0/1:81:39,42:39:1400:42:1489:-109.919,0,-101.916 0/0:193:192,1:192:6889:1:36:0,-54.5005,-616.476 0/0:88:87,1:87:3098:1:36:0,-22.8924,-275.447 0/0:93:93,0:93:3310:0:0:0,-27.9958,-298.116 0/1:250:137,113:137:4898:113:4018:-286.551,0,-365.711 0/1:96:71,25:71:2556:25:896:-52.0615,0,-201.391 0/0:89:89,0:89:3170:0:0:0,-26.7917,-285.522 0/0:79:79,0:79:2836:0:0:0,-23.7814,-255.478 chr03 8635510 . C A 73158.7 PASS AB=0.513215;ABP=6.16681;AC=28;AF=0.666667;AN=42;AO=2777;CIGAR=1X;DP=3978;DPB=3978;DPRA=1.04286;EPP=6033.19;EPPR=2608.78;GTI=1;LEN=1;MEANALT=1;MQM=59.9625;MQMR=59.965;NS=21;NUMALT=1;ODDS=12.4555;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98215;QR=42306;RO=1200;RPL=1221;RPP=90.7645;RPPR=82.8119;RPR=1556;RUN=1;SAF=1221;SAP=90.7645;SAR=1556;SRF=495;SRP=82.8119;SRR=705;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:302:157,145:157:5527:145:5155:-373.181,0,-406.647 0/1:158:86,72:86:3065:72:2537:-181.016,0,-228.197 0/1:148:82,66:82:2857:66:2345:-166.756,0,-212.813 1/1:239:0,239:0:0:239:8343:-750.892,-71.9462,0 1/1:456:1,455:1:36:455:16121:-1446.87,-133.671,0 1/1:115:2,113:2:68:113:4010:-354.632,-28.1607,0 0/1:283:143,140:143:5043:140:4979:-363.069,0,-368.819 0/0:182:181,0:181:6351:0:0:0,-54.4864,-571.322 0/1:224:114,110:114:4013:110:3868:-280.886,0,-293.928 0/1:29:3,26:3:99:26:912:-73.6595,0,-0.506707 0/1:16:11,5:11:388:5:180:-11.7356,0,-30.4409 0/1:53:22,31:22:775:31:1104:-83.7114,0,-54.1166 0/1:211:113,98:113:4009:98:3491:-250.884,0,-297.481 0/1:186:82,104:82:2913:104:3687:-276.016,0,-206.413 1/1:291:1,290:1:36:290:10311:-924.321,-84.0015,0 1/1:148:0,148:0:0:148:5268:-474.256,-44.5524,0 1/1:163:1,162:1:36:162:5687:-508.356,-45.4696,0 0/1:226:115,111:115:4047:111:3916:-284.603,0,-296.386 0/1:245:85,160:85:3007:160:5599:-430.29,0,-197.108 1/1:175:1,174:1:36:174:6188:-553.417,-49.082,0 1/1:128:0,128:0:0:128:4514:-406.431,-38.5318,0 chr03 8635515 . C T 26462 PASS AB=0.472797;ABP=16.3601;AC=14;AF=0.333333;AN=42;AO=1162;CIGAR=1X;DP=4003;DPB=4003;DPRA=0.997796;EPP=2526.26;EPPR=6169.99;GTI=1;LEN=1;MEANALT=1.05263;MQM=59.9415;MQMR=59.9563;NS=21;NUMALT=1;ODDS=6.21903;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40977;QR=100347;RO=2840;RPL=477;RPP=83.8593;RPPR=52.3394;RPR=685;RUN=1;SAF=477;SAP=83.8593;SAR=685;SRF=1293;SRP=52.3394;SRR=1547;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:302:144,158:144:5149:158:5607:-413.844,0,-372.633 0/1:156:75,81:75:2678:81:2823:-207.317,0,-194.303 0/1:147:70,77:70:2481:77:2738:-202.409,0,-179.291 0/0:252:252,0:252:8876:0:0:0,-75.8596,-798.83 0/0:459:458,1:458:16129:1:36:0,-134.574,-1447.55 0/0:116:114,2:114:4024:2:72:0,-28.0828,-355.51 0/1:277:142,134:142:5035:134:4744:-343.668,0,-369.854 1/1:173:0,173:0:0:173:6093:-548.473,-52.0782,0 0/1:235:118,117:118:4181:117:4138:-301.864,0,-305.73 0/1:33:28,5:28:999:5:172:-5.88398,0,-80.2859 0/1:18:5,13:5:176:13:453:-35.6811,0,-10.7665 0/1:54:31,23:31:1097:23:824:-58.2277,0,-82.7778 0/1:211:101,110:101:3552:110:3852:-283.358,0,-256.369 0/1:182:103,79:103:3637:79:2763:-194.098,0,-272.719 0/0:297:296,1:296:10454:1:36:0,-85.8076,-937.187 0/0:151:150,1:150:5327:1:36:0,-41.8573,-475.967 0/0:170:169,1:169:5974:1:36:0,-47.5768,-534.152 0/1:222:113,109:113:3957:109:3863:-281.038,0,-289.497 0/1:240:164,76:164:5790:76:2664:-167.761,0,-448.973 0/0:178:177,1:177:6241:1:27:0,-50.8836,-559.086 0/0:130:130,0:130:4590:0:0:0,-39.1339,-413.268 chr03 8635624 . C A 25747.8 PASS AB=0.539457;ABP=13.4631;AC=28;AF=0.666667;AN=42;AO=981;CIGAR=1X;DP=1402;DPB=1402;DPRA=1.17982;EPP=23.8374;EPPR=33.5914;GTI=0;LEN=1;MEANALT=1;MQM=59.9297;MQMR=59.9287;NS=21;NUMALT=1;ODDS=3.98722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35060;QR=14891;RO=421;RPL=980;RPP=2124.55;RPPR=917.2;RPR=1;RUN=1;SAF=538;SAP=22.9874;SAR=443;SRF=172;SRP=33.5914;SRR=249;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:41,31:41:1463:31:1112:-78.7172,0,-110.291 0/1:61:32,29:32:1128:29:1044:-75.912,0,-83.4654 0/1:33:17,16:17:599:16:576:-42.241,0,-44.3041 1/1:70:1,69:1:36:69:2459:-217.966,-17.4738,0 1/1:93:1,92:1:36:92:3291:-292.81,-24.3975,0 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 0/1:101:41,60:41:1451:60:2146:-162.376,0,-100.481 0/0:57:57,0:57:2036:0:0:0,-17.1587,-183.512 0/1:74:39,35:39:1391:35:1248:-90.3486,0,-103.212 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:33:20,13:20:707:13:468:-32.5257,0,-54.0206 0/1:85:38,47:38:1352:47:1677:-125.628,0,-96.3928 0/1:80:41,39:41:1426:39:1388:-101.137,0,-104.178 1/1:85:2,83:2:72:83:2971:-260.785,-18.7508,0 1/1:42:0,42:0:0:42:1499:-135.204,-12.6433,0 1/1:32:1,31:1:36:31:1101:-95.7924,-6.03469,0 0/1:106:51,55:51:1766:55:1949:-143.775,0,-127.307 0/1:112:28,84:28:996:84:3004:-236.876,0,-56.2395 1/1:80:2,78:2:72:78:2775:-243.137,-17.2457,0 1/1:122:1,121:1:36:121:4344:-387.536,-33.1274,0 chr03 8771287 . G A 4184.15 PASS AB=0.444284;ABP=21.6422;AC=14;AF=0.333333;AN=42;AO=364;CIGAR=1X;DP=1505;DPB=1505;DPRA=0.831813;EPP=750.593;EPPR=2335.2;GTI=1;LEN=1;MEANALT=1;MQM=30.9396;MQMR=56.5486;NS=21;NUMALT=1;ODDS=1.5046;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13010;QR=40798;RO=1141;RPL=5;RPP=750.593;RPPR=2394.56;RPR=359;RUN=1;SAF=364;SAP=793.426;SAR=0;SRF=1134;SRP=2420.23;SRR=7;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:53,40:53:1896:40:1436:-77.1011,0,-142.351 0/1:59:29,30:29:1040:30:1076:-64.2494,0,-76.1536 0/1:54:32,22:32:1137:22:769:-40.5289,0,-86.1424 0/0:54:54,0:54:1902:0:0:0,-16.2556,-171.266 0/0:206:205,1:205:7308:1:36:0,-59.1094,-653.485 0/0:107:106,1:106:3796:1:36:0,-29.1557,-338.498 0/1:78:42,36:42:1500:36:1273:-74.62,0,-111.814 1/1:53:0,53:0:0:53:1896:-145.162,-15.9546,0 0/1:55:27,28:27:972:28:1000:-54.7146,0,-71.1528 0/1:25:15,10:15:540:10:360:-20.2705,0,-41.4108 0/1:7:5,2:5:167:2:72:-3.69641,0,-12.7508 0/1:18:12,6:12:432:6:216:-11.1674,0,-33.8027 0/1:89:39,50:39:1400:50:1788:-103.638,0,-99.3525 0/1:68:45,23:45:1612:23:824:-39.8116,0,-124.721 0/0:104:104,0:104:3736:0:0:0,-31.3071,-335.795 0/0:68:68,0:68:2444:0:0:0,-20.47,-218.995 0/0:107:107,0:107:3825:0:0:0,-32.2102,-342.829 0/1:92:49,43:49:1756:43:1544:-91.1982,0,-130.629 0/1:53:36,17:36:1296:17:612:-28.748,0,-100.795 0/0:78:78,0:78:2787:0:0:0,-23.4803,-251.07 0/0:37:35,2:35:1252:2:72:0,-5.33449,-107.181 chr03 8771295 . CCTCATTG TCTCGTTG,TCTCGTTC 30306.9 PASS AB=0.551136,0.43892;ABP=19.0002,25.8231;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1151,365;CIGAR=1X3M1X3M,1X3M1X2M1X;DP=1537;DPB=1537.12;DPRA=1.37315,0.951209;EPP=2502.38,795.598;EPPR=0;GTI=1;LEN=8,8;MEANALT=2.7,2.6;MQM=56.695,30.9315;MQMR=0;NS=21;NUMALT=2;ODDS=3.96787;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=10.6667,10.6667;PQR=0;PRO=0;QA=40575,12833;QR=0;RO=0;RPL=1145,365;RPP=2450.53,795.598;RPPR=0;RPR=6,0;RUN=1,1;SAF=1145,365;SAP=2450.53,795.598;SAR=6,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:95:0,54,40:0:0:54,40:1887,1421:-245.534,-92.4144,-76.1587,-153.165,0,-141.124 1/2:60:0,30,30:0:0:30,30:1041,1045:-156.427,-71.7815,-62.7506,-84.9679,0,-75.937 1/2:54:0,30,22:0:0:30,22:1079,755:-137.581,-49.7439,-40.713,-87.8264,0,-81.2037 1/1:55:0,54,0:0:0:54,0:1891,0:-169.803,-16.2556,0,-169.803,-16.2556,-169.803 1/1:214:0,211,1:0:0:211,1:7447,36:-669.058,-63.5173,0,-666.747,-61.2062,-666.446 1/1:110:0,108,1:0:0:108,1:3793,36:-341.014,-32.5112,0,-338.566,-30.0884,-338.265 1/2:79:0,43,36:0:0:43,36:1522,1258:-211.068,-87.0647,-74.1204,-124.329,0,-113.491 2/2:54:0,0,54:0:0:0,54:0,1914:-147.245,-147.245,-147.245,-16.2556,-16.2556,0 1/2:55:0,27,28:0:0:27,28:943,982:-138.997,-62.3375,-54.2097,-76.9745,0,-68.5457 1/2:26:0,15,11:0:0:15,11:537,387:-70.6282,-26.8034,-22.288,-44.1499,0,-40.8385 1/2:7:0,4,2:0:0:4,2:144,71:-16.7098,-4.91516,-3.71104,-11.8502,0,-11.2482 1/2:20:0,13,7:0:0:13,7:446,248:-53.3244,-17.0863,-13.1729,-36.5531,0,-34.4459 1/2:90:0,40,49:0:0:40,49:1411,1724:-226.806,-112.034,-99.9929,-114.803,0,-100.053 1/2:69:0,45,24:0:0:45,24:1561,839:-182.53,-55.6951,-42.1488,-127.145,0,-119.92 1/1:107:0,106,0:0:0:106,0:3774,0:-339.02,-31.9092,0,-339.02,-31.9092,-339.02 1/1:69:0,65,0:0:0:65,0:2311,0:-207.414,-19.567,0,-207.414,-19.567,-207.414 1/1:108:0,105,0:0:0:105,0:3731,0:-334.334,-31.6082,0,-334.334,-31.6082,-334.334 1/2:94:0,50,42:0:0:50,42:1769,1492:-246.301,-102.187,-87.1352,-144.118,0,-131.475 1/2:55:0,37,18:0:0:37,18:1318,625:-148.535,-41.2517,-30.1136,-107.592,0,-102.173 1/1:79:0,79,0:0:0:79,0:2757,0:-248.373,-23.7814,0,-248.373,-23.7814,-248.373 1/1:37:0,35,0:0:0:35,0:1213,0:-109.176,-10.5361,0,-109.176,-10.5361,-109.176 chr03 8771456 . GAA TAC,TAA 46126.3 PASS AB=0.550251,0.448911;ABP=29.1989,30.0791;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1515,661;CIGAR=1X1M1X,1X2M;DP=2177;DPB=2177;DPRA=0.857083,1.29961;EPP=3292.79,1438.35;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.8,2;MQM=59.9472,59.9818;MQMR=0;NS=21;NUMALT=2;ODDS=6.98561;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53764,23677;QR=0;RO=0;RPL=0,0;RPP=3292.79,1438.35;RPPR=0;RPR=1515,661;RUN=1,1;SAF=1515,661;SAP=3292.79,1438.35;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:168:0,109,59:0:0:109,59:3842,2120:-486.093,-173.285,-140.473,-313.164,0,-295.403 1/2:100:0,50,50:0:0:50,50:1793,1785:-292.123,-145.879,-130.828,-146.601,0,-131.549 1/2:71:0,44,27:0:0:44,27:1563,972:-207.028,-79.6701,-66.4248,-127.716,0,-119.588 1/1:75:0,75,0:0:0:75,0:2671,0:-240.634,-22.5773,0,-240.634,-22.5773,-240.634 1/1:205:0,203,2:0:0:203,2:7195,72:-647.24,-61.1091,0,-641.365,-54.8744,-640.763 1/1:76:0,76,0:0:0:76,0:2701,0:-243.334,-22.8783,0,-243.334,-22.8783,-243.334 1/2:300:0,149,151:0:0:149,151:5300,5409:-873.407,-441.482,-396.629,-432.282,0,-386.826 2/2:120:0,0,120:0:0:0,120:0,4304:-387.536,-387.536,-387.536,-36.1236,-36.1236,0 1/2:183:0,93,90:0:0:93,90:3327,3210:-533.306,-262.029,-234.033,-271.634,0,-244.541 1/2:19:0,10,9:0:0:10,9:353,324:-55.5387,-26.7966,-23.7863,-29.0987,0,-26.3894 1/2:8:0,7,1:0:0:7,1:252,36:-23.8592,-3.29724,-1.19003,-20.9217,0,-20.6207 1/2:44:0,27,17:0:0:27,17:966,612:-129.067,-50.2959,-42.1681,-79.1296,0,-74.0121 1/2:92:0,46,46:0:0:46,46:1640,1648:-268.444,-134.761,-120.914,-134.041,0,-120.193 1/2:75:0,40,35:0:0:40,35:1413,1245:-216.887,-101.817,-89.7755,-115.425,0,-104.889 1/1:181:0,179,2:0:0:179,2:6340,72:-570.336,-53.8844,0,-564.461,-47.6497,-563.859 1/1:88:0,88,0:0:0:88,0:3088,0:-278.15,-26.4906,0,-278.15,-26.4906,-278.15 1/1:72:0,72,0:0:0:72,0:2566,0:-230.699,-21.6742,0,-230.699,-21.6742,-230.699 1/2:70:0,36,34:0:0:36,34:1256,1224:-202.366,-100.232,-89.3949,-102.488,0,-92.2531 1/2:64:0,46,17:0:0:46,17:1650,608:-184.237,-49.6502,-35.8029,-134.66,0,-129.542 1/1:111:0,111,0:0:0:111,0:3940,0:-354.793,-33.4143,0,-354.793,-33.4143,-354.793 1/1:55:0,54,1:0:0:54,1:1908,36:-171.635,-16.2556,0,-168.698,-12.9584,-168.397 chr03 9043829 . CG TT 35722.8 PASS AB=0.527473;ABP=11.3621;AC=28;AF=0.666667;AN=42;AO=2300;CIGAR=2X;DP=3020;DPB=3020;DPRA=1.44505;EPP=4997.4;EPPR=1542.58;GTI=2;LEN=2;MEANALT=1.4;MQM=31.5704;MQMR=29.7828;NS=21;NUMALT=1;ODDS=7.32466;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80032;QR=24824;RO=709;RPL=2300;RPP=4997.4;RPPR=1542.58;RPR=0;RUN=1;SAF=2300;SAP=4997.4;SAR=0;SRF=709;SRP=1542.58;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:60,77:60:2104:77:2711:-168.303,0,-112.971 0/1:91:50,41:50:1751:41:1452:-69.709,0,-102.568 0/1:158:67,91:67:2389:91:3177:-196.345,0,-126.226 1/1:203:0,202:0:0:202:6993:-539.99,-60.8081,0 1/1:496:3,489:3:106:489:16882:-1284.98,-140.452,0 1/1:135:3,131:3:106:131:4570:-297.581,-32.3179,0 0/1:163:80,83:80:2795:83:2898:-146.948,0,-159.919 0/0:101:101,0:101:3513:0:0:0,-30.404,-255.784 0/1:295:133,162:133:4665:162:5682:-370.663,0,-243.34 0/1:5:2,3:2:72:3:108:-6.62259,0,-4.0101 0/1:5:1,4:1:36:4:142:-8.10972,0,-1.4756 0/1:16:9,7:9:308:7:252:-14.2386,0,-18.3882 0/1:157:72,85:72:2531:85:2985:-182.058,0,-138.509 0/1:155:77,78:77:2680:78:2658:-159.213,0,-149.963 1/1:454:0,451:0:0:451:15672:-1204.73,-135.765,0 1/1:100:0,100:0:0:100:3529:-287.523,-30.103,0 1/1:71:0,71:0:0:71:2501:-202.601,-21.3731,0 0/1:48:33,15:33:1129:15:519:-24.2935,0,-69.4414 0/1:44:18,26:18:639:26:896:-55.2369,0,-33.7137 1/1:137:0,135:0:0:135:4686:-342.909,-40.6391,0 1/1:49:0,49:0:0:49:1719:-115.602,-14.7505,0 chr03 9045720 . G A 36843.7 PASS AB=0.506525;ABP=3.46372;AC=28;AF=0.666667;AN=42;AO=1429;CIGAR=1X;DP=2147;DPB=2147;DPRA=0.992233;EPP=3106.04;EPPR=1559.96;GTI=0;LEN=1;MEANALT=1.05;MQM=59.2449;MQMR=59.9749;NS=21;NUMALT=1;ODDS=21.7225;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50690;QR=25503;RO=717;RPL=571;RPP=128.176;RPPR=3.1587;RPR=858;RUN=1;SAF=571;SAP=128.176;SAR=858;SRF=355;SRP=3.1587;SRR=362;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:68,77:68:2415:77:2690:-198.676,0,-173.957 0/1:58:35,23:35:1234:23:824:-56.8331,0,-93.9029 0/1:66:37,29:37:1328:29:1035:-73.5843,0,-99.9519 1/1:109:0,109:0:0:109:3904:-351.51,-32.8123,0 1/1:189:7,181:7:248:181:6426:-555.619,-34.1574,0 1/1:68:1,67:1:36:67:2400:-212.623,-16.8718,0 0/1:142:74,68:74:2617:68:2421:-174.912,0,-193.031 0/0:103:103,0:103:3671:0:0:0,-31.0061,-330.59 0/1:164:76,88:76:2728:88:3138:-232.715,0,-196.393 0/1:18:11,7:11:383:7:238:-16.3226,0,-29.3847 0/1:17:5,12:5:180:12:428:-33.7413,0,-11.4346 0/1:55:25,30:25:896:30:1074:-79.6956,0,-64.4037 0/1:102:49,53:49:1747:53:1863:-136.946,0,-126.808 0/1:165:84,81:84:2991:81:2860:-207.629,0,-219.752 1/1:146:1,145:1:36:145:5184:-462.879,-40.3521,0 1/1:63:0,63:0:0:63:2252:-202.925,-18.9649,0 1/1:58:0,58:0:0:58:2040:-183.856,-17.4597,0 0/1:192:103,89:103:3641:89:3149:-225.804,0,-270.097 0/1:102:38,64:38:1352:64:2256:-172.414,0,-91.2753 1/1:58:0,58:0:0:58:2065:-186.115,-17.4597,0 1/1:127:0,127:0:0:127:4443:-399.967,-38.2308,0 chr03 9045739 . T C 30692.1 PASS AB=0.508612;ABP=3.64612;AC=28;AF=0.666667;AN=42;AO=1213;CIGAR=1X;DP=1766;DPB=1766;DPRA=1.49912;EPP=441.646;EPPR=139.105;GTI=1;LEN=1;MEANALT=1.05;MQM=59.3553;MQMR=59.9511;NS=21;NUMALT=1;ODDS=4.10709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43027;QR=19749;RO=552;RPL=1211;RPP=2619.66;RPPR=1184.35;RPR=2;RUN=1;SAF=357;SAP=448.764;SAR=856;SRF=181;SRP=145.021;SRR=371;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:68,74:68:2440:74:2622:-193.384,0,-177.109 0/1:30:18,12:18:648:12:428:-29.8279,0,-49.621 0/1:64:37,26:37:1316:26:932:-64.8742,0,-99.4149 1/1:116:0,116:0:0:116:4097:-368.892,-34.9195,0 1/1:182:7,175:7:252:175:6204:-535.333,-31.7585,0 1/1:49:1,48:1:36:48:1719:-151.387,-11.1522,0 0/1:95:49,46:49:1756:46:1648:-119.991,0,-129.726 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 0/1:164:78,86:78:2781:86:2984:-218.595,0,-201.09 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/1:27:12,15:12:428:15:536:-40.3603,0,-30.731 0/1:100:51,49:51:1824:49:1739:-126.296,0,-134.338 0/1:161:83,78:83:2964:78:2780:-201.769,0,-218.526 1/1:143:1,142:1:36:142:5057:-450.843,-39.449,0 1/1:65:0,65:0:0:65:2316:-208.683,-19.567,0 1/1:61:1,60:1:36:60:2112:-186.737,-14.7646,0 0/1:84:44,40:44:1576:40:1428:-103.513,0,-116.845 0/1:106:39,67:39:1392:67:2349:-179.662,0,-93.6698 1/1:49:0,49:0:0:49:1748:-157.6,-14.7505,0 1/1:57:1,56:1:36:56:2004:-176.993,-13.5604,0 chr03 9215264 . C T 37916.6 PASS AB=0.370851;ABP=203.807;AC=25;AF=0.595238;AN=42;AO=1844;CIGAR=1X;DP=3590;DPB=3590;DPRA=1.745;EPP=4007.21;EPPR=3766.22;GTI=1;LEN=1;MEANALT=1.05;MQM=59.6123;MQMR=59.8888;NS=21;NUMALT=1;ODDS=12.0129;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66140;QR=62307;RO=1745;RPL=1844;RPP=4007.21;RPPR=3766.22;RPR=0;RUN=1;SAF=0;SAP=4007.21;SAR=1844;SRF=0;SRP=3792.23;SRR=1745;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:218:126,92:126:4500:92:3308:-232.289,0,-339.491 0/1:127:73,54:73:2608:54:1940:-136.643,0,-196.738 0/1:131:72,58:72:2584:58:2088:-148.653,0,-192.688 1/1:226:1,225:1:32:225:8065:-722.318,-64.8335,0 1/1:265:1,264:1:36:264:9481:-849.529,-76.1747,0 1/1:163:0,163:0:0:163:5860:-527.277,-49.0679,0 0/1:178:114,64:114:4083:64:2296:-153.314,0,-314.071 0/0:100:100,0:100:3565:0:0:0,-30.103,-321.055 0/1:169:115,54:115:4128:54:1936:-123.29,0,-320.801 0/0:335:329,6:329:11771:6:216:0,-81.0545,-1038.53 0/0:355:348,7:348:12370:7:252:0,-83.8367,-1089.83 0/0:98:94,4:94:3355:4:144:0,-16.1873,-288.853 0/1:151:70,81:70:2507:81:2908:-216.489,0,-180.426 0/1:122:78,44:78:2804:44:1576:-105.392,0,-215.873 1/1:238:0,238:0:0:238:8527:-767.284,-71.6451,0 1/1:108:0,108:0:0:108:3876:-348.786,-32.5112,0 1/1:137:0,137:0:0:137:4884:-439.693,-41.2411,0 0/1:241:211,30:211:7505:30:1076:-24.4143,0,-602.943 0/1:49:12,37:12:423:37:1324:-104.697,0,-23.6546 1/1:137:1,136:1:36:136:4875:-435.083,-37.6428,0 1/1:42:0,42:0:0:42:1508:-136.01,-12.6433,0 chr03 9215369 . 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C T 9125.31 PASS AB=0.424607;ABP=56.3811;AC=14;AF=0.333333;AN=42;AO=549;CIGAR=1X;DP=2206;DPB=2206;DPRA=0.698265;EPP=1195.15;EPPR=3547.04;GTI=1;LEN=1;MEANALT=1.05882;MQM=59.6266;MQMR=59.9807;NS=21;NUMALT=1;ODDS=12.1606;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19702;QR=59127;RO=1656;RPL=549;RPP=1195.15;RPPR=3547.04;RPR=0;RUN=1;SAF=0;SAP=1195.15;SAR=549;SRF=0;SRP=3598.97;SRR=1656;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:74,40:74:2648:40:1406:-92.5056,0,-204.249 0/1:82:38,44:38:1356:44:1584:-118.053,0,-97.656 0/1:111:76,35:76:2728:35:1252:-79.5692,0,-212.348 0/0:172:172,0:172:6148:0:0:0,-51.7772,-552.791 0/0:153:152,1:152:5381:1:36:0,-42.4593,-480.821 0/0:123:121,1:121:4321:1:36:0,-33.4872,-385.467 0/1:115:68,47:68:2436:47:1688:-117.574,0,-184.877 1/1:86:0,86:0:0:86:3092:-278.487,-25.8886,0 0/1:143:97,46:97:3476:46:1656:-106.252,0,-270.004 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49869 0/1:27:14,13:14:500:13:468:-34.3272,0,-37.2084 0/1:226:95,131:95:3391:131:4704:-355.341,0,-237.373 0/1:108:64,44:64:2300:44:1584:-110.334,0,-174.75 0/0:190:190,0:190:6781:0:0:0,-57.1957,-610.364 0/0:91:91,0:91:3245:0:0:0,-27.3937,-292.27 0/0:103:103,0:103:3688:0:0:0,-31.0061,-332.123 0/1:73:44,29:44:1576:29:1044:-72.2834,0,-120.156 0/1:69:46,23:46:1640:23:828:-54.0684,0,-127.118 0/0:147:146,1:146:5196:1:36:0,-40.6531,-464.182 0/0:60:59,1:59:2104:1:36:0,-14.4635,-186.031 chr03 9215396 . 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C T 35113.3 PASS AB=0.460565;ABP=21.1641;AC=27;AF=0.642857;AN=42;AO=1702;CIGAR=1X;DP=2564;DPB=2564;DPRA=1.97085;EPP=3698.86;EPPR=1874.82;GTI=1;LEN=1;MEANALT=1;MQM=59.6463;MQMR=59.9571;NS=21;NUMALT=1;ODDS=2.8354;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61017;QR=30774;RO=862;RPL=1702;RPP=3698.86;RPPR=1874.82;RPR=0;RUN=1;SAF=0;SAP=3698.86;SAR=1702;SRF=0;SRP=1874.82;SRR=862;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:116,58:116:4118:58:2084:-135.448,0,-318.425 0/1:148:76,72:76:2721:72:2588:-188.596,0,-200.579 0/1:134:78,56:78:2788:56:2004:-140.283,0,-210.823 1/1:169:1,168:1:36:168:6031:-538.589,-47.2758,0 1/1:248:0,248:0:0:248:8919:-802.543,-74.6554,0 1/1:129:0,129:0:0:129:4621:-415.777,-38.8329,0 0/1:275:123,152:123:4390:152:5459:-408.62,0,-312.06 0/0:125:125,0:125:4465:0:0:0,-37.6287,-402.014 0/1:189:103,86:103:3704:86:3096:-221.969,0,-276.666 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:4:1,3:1:32:3:108:-8.87105,0,-1.99519 0/1:22:16,6:16:576:6:216:-13.1679,0,-45.5523 0/1:159:101,58:101:3591:58:2087:-140.195,0,-275.529 0/1:62:36,26:36:1280:26:917:-64.176,0,-96.8394 1/1:120:0,120:0:0:120:4293:-386.523,-36.1236,0 1/1:131:1,130:1:36:130:4649:-414.909,-35.8367,0 1/1:121:2,119:2:72:119:4231:-374.121,-29.5879,0 0/1:99:54,45:54:1925:45:1620:-116.283,0,-143.723 0/1:78:21,57:21:752:57:2037:-160.115,0,-44.5259 1/1:121:3,118:3:108:118:4240:-371.627,-26.3495,0 1/1:51:0,51:0:0:51:1817:-163.785,-15.3525,0 chr03 9216114 . G T 39260.3 PASS AB=0.379934;ABP=231.401;AC=28;AF=0.666667;AN=42;AO=1576;CIGAR=1X;DP=2814;DPB=2814;DPRA=1.5309;EPP=3425.25;EPPR=2689.12;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8522;MQMR=59.9733;NS=21;NUMALT=1;ODDS=10.9736;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56044;QR=43573;RO=1237;RPL=783;RPP=3.14808;RPPR=607.879;RPR=793;RUN=1;SAF=783;SAP=3.14808;SAR=793;SRF=325;SRP=607.879;SRR=912;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:49,53:49:1755:53:1870:-137.87,0,-127.528 0/1:74:41,33:41:1468:33:1175:-83.7684,0,-110.14 0/1:99:48,51:48:1699:51:1815:-133.829,0,-123.393 1/1:93:0,92:0:0:92:3284:-295.568,-27.6948,0 1/1:209:11,198:11:396:198:7083:-601.494,-26.9325,0 1/1:80:1,79:1:36:79:2786:-247.375,-20.4841,0 0/1:203:117,86:117:4110:86:3076:-215.953,0,-308.977 0/0:89:89,0:89:3123:0:0:0,-26.7917,-281.298 0/1:167:78,89:78:2780:89:3159:-234.26,0,-200.17 0/1:20:5,15:5:180:15:540:-42.9021,0,-10.5315 0/1:5:2,3:2:53:3:108:-8.57002,0,-3.52915 0/1:34:17,17:17:599:17:608:-44.817,0,-44.0031 0/1:131:76,55:76:2670:55:1940:-135.439,0,-201.109 0/1:114:49,65:49:1701:65:2282:-171.284,0,-118.967 1/1:156:2,154:2:72:154:5510:-489.169,-40.124,0 1/1:61:0,61:0:0:61:2192:-197.535,-18.3628,0 1/1:41:0,41:0:0:41:1463:-131.944,-12.3422,0 0/1:731:596,135:596:20949:135:4770:-209.383,0,-1664.88 0/1:144:53,91:53:1874:91:3231:-247.647,0,-125.589 1/1:113:1,112:1:36:112:3985:-355.243,-30.4181,0 1/1:148:2,146:2:72:146:5167:-458.308,-37.7157,0 chr03 9796101 . G A 11427.8 PASS AB=0.494845;ABP=3.12223;AC=29;AF=0.690476;AN=42;AO=570;CIGAR=1X;DP=903;DPB=903;DPRA=0.468966;EPP=1240.75;EPPR=726.111;GTI=0;LEN=1;MEANALT=1;MQM=52.9351;MQMR=59.958;NS=21;NUMALT=1;ODDS=4.25462;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20481;QR=11937;RO=333;RPL=0;RPP=1240.75;RPPR=726.111;RPR=570;RUN=1;SAF=570;SAP=1240.75;SAR=0;SRF=333;SRP=726.111;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:21,18:21:756:18:644:-46.4834,0,-56.6271 0/1:33:25,8:25:885:8:288:-16.054,0,-70.0325 0/1:65:33,32:33:1188:32:1148:-83.449,0,-87.6543 1/1:70:0,70:0:0:70:2517:-224.9,-21.0721,0 1/1:70:0,70:0:0:70:2520:-226.045,-21.0721,0 1/1:32:0,32:0:0:32:1144:-101.114,-9.63296,0 0/1:40:31,9:31:1112:9:324:-17.3905,0,-88.3501 0/0:87:87,0:87:3108:0:0:0,-26.1896,-279.946 0/1:61:27,34:27:972:34:1216:-89.3027,0,-69.4351 0/1:16:2,14:2:72:14:504:-40.691,0,-2.02024 1/1:10:0,10:0:0:10:360:-32.4673,-3.0103,0 0/1:11:6,5:6:216:5:180:-13.0245,0,-16.4792 0/1:56:17,39:17:612:39:1404:-109.317,0,-38.5558 0/1:54:18,36:18:648:36:1292:-98.6939,0,-42.3963 1/1:54:0,54:0:0:54:1940:-174.334,-16.2556,0 1/1:17:0,17:0:0:17:612:-55.0848,-5.11751,0 1/1:24:0,24:0:0:24:864:-77.0934,-7.22472,0 0/1:84:50,34:50:1792:34:1224:-83.525,0,-136.276 0/1:26:15,11:15:540:11:392:-27.4567,0,-41.1098 1/1:29:1,28:1:36:28:1008:-87.0548,-5.1316,0 1/1:25:0,25:0:0:25:900:-79.0802,-7.52575,0 chr03 9796116 . C T 11090.4 PASS AB=0.490644;ABP=3.37597;AC=29;AF=0.690476;AN=42;AO=558;CIGAR=1X;DP=890;DPB=890;DPRA=0.467442;EPP=1214.69;EPPR=629.398;GTI=0;LEN=1;MEANALT=1.05;MQM=53.0125;MQMR=59.9879;NS=21;NUMALT=1;ODDS=4.61796;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19945;QR=11791;RO=331;RPL=0;RPP=1214.69;RPPR=629.398;RPR=558;RUN=1;SAF=558;SAP=1214.69;SAR=0;SRF=331;SRP=721.768;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:21,18:21:752:18:648:-46.8433,0,-56.2661 0/1:33:25,8:25:896:8:288:-16.054,0,-71.0264 0/1:64:32,32:32:1144:32:1135:-82.4799,0,-84.0034 1/1:66:0,66:0:0:66:2351:-210.48,-19.868,0 1/1:68:0,68:0:0:68:2436:-218.571,-20.47,0 1/1:31:0,31:0:0:31:1085:-96.5944,-9.33193,0 0/1:40:31,9:31:1104:9:320:-17.0319,0,-87.6294 0/0:86:86,0:86:3045:0:0:0,-25.8886,-274.279 0/1:61:28,33:28:987:33:1183:-86.974,0,-70.7802 0/1:16:2,14:2:72:14:504:-40.691,0,-2.02024 1/1:10:0,10:0:0:10:360:-32.4673,-3.0103,0 0/1:11:6,5:6:216:5:180:-13.0245,0,-16.4792 0/1:55:16,38:16:576:38:1368:-106.323,0,-35.5595 0/1:52:17,35:17:608:35:1241:-95.0814,0,-39.3985 1/1:54:0,54:0:0:54:1927:-173.287,-16.2556,0 1/1:17:0,17:0:0:17:612:-55.0848,-5.11751,0 1/1:23:0,23:0:0:23:828:-74.0453,-6.92369,0 0/1:84:51,33:51:1828:33:1188:-80.514,0,-139.514 0/1:26:15,11:15:527:11:387:-27.0032,0,-39.9334 1/1:29:1,28:1:36:28:1008:-87.0548,-5.1316,0 1/1:25:0,25:0:0:25:896:-78.7244,-7.52575,0 chr03 10120566 . T A 31919.2 PASS AB=0.487121;ABP=4.91198;AC=28;AF=0.666667;AN=42;AO=1684;CIGAR=1X;DP=2546;DPB=2546;DPRA=0.681609;EPP=3539.18;EPPR=1769.87;GTI=0;LEN=1;MEANALT=1.05;MQM=38.8866;MQMR=59.9466;NS=21;NUMALT=1;ODDS=2.84208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59707;QR=30816;RO=861;RPL=14;RPP=3539.18;RPPR=1769.87;RPR=1670;RUN=1;SAF=1684;SAP=3659.77;SAR=0;SRF=861;SRP=1872.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:59,59:59:2116:59:2112:-143,0,-155.181 0/1:105:42,63:42:1496:63:2203:-160.841,0,-103.326 0/1:130:73,57:73:2606:57:2022:-133.013,0,-195.647 1/1:154:0,154:0:0:154:5456:-465.586,-46.3586,0 1/1:248:6,242:6:216:242:8588:-705.351,-54.8649,0 1/1:74:3,71:3:108:71:2548:-210.416,-12.2011,0 0/1:201:88,113:88:3124:113:4017:-288.5,0,-220.879 0/0:174:174,0:174:6236:0:0:0,-52.3792,-561.335 0/1:226:128,98:128:4579:98:3468:-228.49,0,-344.085 0/1:28:17,11:17:608:11:392:-24.5331,0,-46.6232 0/1:6:1,5:1:36:5:178:-13.4894,0,-1.79209 0/1:34:21,13:21:752:13:449:-28.8635,0,-57.7712 0/1:114:67,47:67:2404:47:1649:-104.603,0,-182.298 0/1:144:77,67:77:2768:67:2377:-158.987,0,-206.012 1/1:206:0,206:0:0:206:7292:-618.905,-62.0122,0 1/1:99:1,98:1:36:98:3463:-290.783,-26.2037,0 1/1:148:0,147:0:0:147:5210:-442.424,-44.2514,0 0/1:151:85,66:85:3047:66:2364:-156.316,0,-228.995 0/1:63:19,44:19:684:44:1561:-113.349,0,-42.9254 1/1:70:0,70:0:0:70:2488:-214.208,-21.0721,0 1/1:53:0,53:0:0:53:1870:-161.889,-15.9546,0 chr03 10120575 . TGGCATT GGGTATG,GGGTATT 50471.6 PASS AB=0.48015,0.51161;ABP=7.57934,4.57343;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1684,866;CIGAR=1X2M1X2M1X,1X2M1X3M;DP=2570;DPB=2570;DPRA=0.692775,0.948293;EPP=3659.77,1883.51;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.7,2.875;MQM=38.8581,59.9584;MQMR=0;NS=21;NUMALT=2;ODDS=3.18271;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59172,30374;QR=0;RO=0;RPL=1684,866;RPP=3659.77,1883.51;RPPR=0;RPR=0,0;RUN=1,1;SAF=1684,866;SAP=3659.77,1883.51;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:117:0,59,58:0:0:59,58:2082,2050:-326.204,-167.304,-149.544,-159.243,0,-141.784 1/2:105:0,63,42:0:0:63,42:2233,1453:-294.168,-118.417,-99.4517,-176.097,0,-163.453 1/2:132:0,59,72:0:0:59,72:2074,2522:-363.937,-205.278,-187.517,-158.718,0,-137.044 1/1:157:0,156,0:0:0:156,0:5520,0:-470.669,-46.9607,0,-470.669,-46.9607,-470.669 1/1:251:0,244,6:0:0:244,6:8548,202:-723.52,-73.4513,0,-707.153,-57.0234,-705.346 1/1:74:0,70,3:0:0:70,3:2472,96:-214.719,-21.0721,0,-206.986,-13.2925,-206.083 1/2:204:0,112,89:0:0:112,89:3919,3123:-561.493,-254.21,-220.495,-307.333,0,-280.541 2/2:173:0,0,173:0:0:0,173:0,6126:-551.447,-551.447,-551.447,-52.0782,-52.0782,0 1/2:231:0,98,131:0:0:98,131:3454,4580:-638.261,-372.546,-343.045,-265.697,0,-226.262 1/2:28:0,11,17:0:0:11,17:367,589:-76.3631,-48.2168,-44.9055,-28.4754,0,-23.3579 1/2:6:0,5,1:0:0:5,1:170,36:-16.2172,-3.29724,-1.79209,-13.2733,0,-12.9723 1/2:34:0,13,21:0:0:13,21:447,744:-95.8504,-60.9619,-57.0485,-35.2287,0,-28.9071 1/2:117:0,48,69:0:0:48,69:1664,2411:-322.006,-196.472,-182.023,-125.869,0,-105.097 1/2:145:0,66,77:0:0:66,77:2285,2692:-394.833,-219.031,-199.163,-175.827,0,-152.647 1/1:207:0,205,0:0:0:205,0:7213,0:-613.915,-61.7112,0,-613.915,-61.7112,-613.915 1/1:100:0,97,1:0:0:97,1:3410,36:-290.491,-29.1999,0,-287.553,-26.2341,-287.252 1/1:150:0,148,0:0:0:148,0:5198,0:-444.007,-44.5524,0,-444.007,-44.5524,-444.007 1/2:153:0,65,86:0:0:65,86:2306,3020:-423.648,-245.875,-226.308,-177.848,0,-151.959 1/2:63:0,42,20:0:0:42,20:1484,694:-169.997,-56.4935,-43.8502,-113.58,0,-107.559 1/1:71:0,71,0:0:0:71,0:2525,0:-217.505,-21.3731,0,-217.505,-21.3731,-217.505 1/1:52:0,52,0:0:0:52,0:1801,0:-156.228,-15.6536,0,-156.228,-15.6536,-156.228 chr03 10120588 . A G 31012.2 PASS AB=0.484434;ABP=5.78194;AC=28;AF=0.666667;AN=42;AO=1667;CIGAR=1X;DP=2527;DPB=2527;DPRA=0.693235;EPP=3622.85;EPPR=1868.31;GTI=0;LEN=1;MEANALT=1.05;MQM=38.8386;MQMR=59.9173;NS=21;NUMALT=1;ODDS=3.25922;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59261;QR=30736;RO=859;RPL=1667;RPP=3622.85;RPPR=1868.31;RPR=0;RUN=1;SAF=1667;SAP=3622.85;SAR=0;SRF=859;SRP=1868.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:59,58:59:2116:58:2067:-140.239,0,-155.482 0/1:104:41,63:41:1472:63:2256:-165.474,0,-101.469 0/1:130:71,59:71:2548:59:2078:-137.44,0,-190.43 1/1:154:0,154:0:0:154:5504:-468.778,-46.3586,0 1/1:242:6,236:6:216:236:8366:-684.924,-53.0587,0 1/1:73:3,69:3:108:69:2450:-202.593,-11.95,0 0/1:203:91,112:91:3251:112:3992:-285.485,0,-231.596 0/0:170:170,0:170:6088:0:0:0,-51.1751,-548.021 0/1:225:128,97:128:4546:97:3457:-227.463,0,-341.418 0/1:28:17,11:17:608:11:379:-23.5186,0,-46.6232 0/1:6:1,5:1:36:5:180:-13.5201,0,-1.79209 0/1:33:21,12:21:756:12:428:-27.4308,0,-58.4332 0/1:114:66,48:66:2356:48:1698:-107.576,0,-177.981 0/1:143:77,66:77:2755:66:2351:-157.003,0,-205.144 1/1:203:0,203:0:0:203:7245:-613.821,-61.1091,0 1/1:99:1,98:1:36:98:3478:-291.761,-26.2037,0 1/1:148:0,148:0:0:148:5241:-445.636,-44.5524,0 0/1:153:87,66:87:3128:66:2335:-153.927,0,-235.675 0/1:61:20,41:20:716:41:1475:-106.956,0,-46.4049 1/1:70:0,70:0:0:70:2480:-213.235,-21.0721,0 1/1:51:0,51:0:0:51:1801:-155.34,-15.3525,0 chr03 10120618 . TGT TTT,TT 38205.3 PASS AB=0.473684,0.526316;ABP=8.49612,8.49612;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1312,550;CIGAR=1M1X1M,1M1D1M;DP=1862;DPB=1678.67;DPRA=1.67407,1.05985;EPP=2851.98,1197.32;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.75,1.9375;MQM=44.9604,40.1491;MQMR=0;NS=21;NUMALT=2;ODDS=0.190151;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46767,19551;QR=0;RO=0;RPL=0,0;RPP=2851.98,1197.32;RPPR=0;RPR=1312,550;RUN=1,1;SAF=0,0;SAP=2851.98,1197.32;SAR=1312,550;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:111:0,61,50:0:0:61,50:2184,1783:-314.521,-139.479,-121.116,-175.389,0,-160.337 1/2:82:0,49,33:0:0:49,33:1746,1176:-232.723,-92.4286,-77.6781,-140.641,0,-130.707 1/2:91:0,34,57:0:0:34,57:1220,2032:-255.197,-157.259,-147.024,-98.2856,0,-81.1269 1/1:76:0,76,0:0:0:76,0:2719,0:-241.013,-22.8783,0,-241.013,-22.8783,-241.013 1/1:203:0,195,8:0:0:195,8:6928,288:-612.469,-58.7009,0,-589.912,-35.7963,-587.503 1/1:89:0,83,6:0:0:83,6:2938,216:-261.036,-24.9855,0,-243.969,-7.56891,-242.163 1/2:178:0,68,110:0:0:68,110:2439,3903:-502.463,-306.471,-286.001,-196.341,0,-163.228 2/2:54:0,0,54:0:0:0,54:0,1904:-164.476,-164.476,-164.476,-16.2556,-16.2556,0 1/1:106:0,105,1:0:0:105,1:3749,32:-332.141,-31.6082,0,-329.62,-28.773,-329.319 1/2:16:0,13,3:0:0:13,3:462,108:-45.4862,-8.76948,-4.85609,-37.0625,0,-36.1594 1/2:6:0,4,2:0:0:4,2:144,68:-17.3489,-5.69571,-4.49159,-11.9931,0,-11.391 1/2:36:0,8,28:0:0:8,28:281,996:-99.9888,-77.6083,-75.2001,-22.7239,0,-14.295 1/2:88:0,35,53:0:0:35,53:1222,1896:-245.623,-147.891,-137.355,-98.0747,0,-82.1201 1/2:115:0,48,67:0:0:48,67:1703,2369:-320.554,-184.053,-169.604,-136.846,0,-116.677 1/1:150:0,150,0:0:0:150,0:5353,0:-474.27,-45.1545,0,-474.27,-45.1545,-474.27 1/1:50:0,50,0:0:0:50,0:1788,0:-158.564,-15.0515,0,-158.564,-15.0515,-158.564 1/1:74:0,74,0:0:0:74,0:2640,0:-233.502,-22.2762,0,-233.502,-22.2762,-233.502 1/2:112:0,65,47:0:0:65,47:2320,1668:-314.489,-128.666,-109.099,-186.166,0,-172.017 1/2:77:0,47,30:0:0:47,30:1684,1076:-218.988,-83.6929,-69.5445,-135.642,0,-126.611 1/1:74:0,74,0:0:0:74,0:2639,0:-234.74,-22.2762,0,-234.74,-22.2762,-234.74 1/1:74:0,73,1:0:0:73,1:2608,36:-231.515,-21.9752,0,-228.606,-18.7094,-228.305 chr03 10120681 . T A 10499.5 PASS AB=0.490924;ABP=3.87746;AC=15;AF=0.357143;AN=42;AO=662;CIGAR=1X;DP=1980;DPB=1980;DPRA=1.16071;EPP=1440.53;EPPR=2865.01;GTI=1;LEN=1;MEANALT=1;MQM=40.932;MQMR=45.2382;NS=21;NUMALT=1;ODDS=3.74576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23696;QR=47126;RO=1318;RPL=662;RPP=1440.53;RPPR=2821.75;RPR=0;RUN=1;SAF=0;SAP=1440.53;SAR=662;SRF=5;SRP=2821.75;SRR=1313;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:62,49:62:2201:49:1760:-118.987,0,-161.29 0/1:81:46,35:46:1644:35:1256:-84.9313,0,-121.677 0/1:93:36,57:36:1288:57:2028:-146.24,0,-86.747 0/0:76:74,2:74:2641:2:68:0,-16.6172,-227.613 0/0:216:207,9:207:7412:9:324:0,-37.3501,-626.288 0/1:83:75,8:75:2665:8:288:-0.423586,0,-212.325 0/1:180:70,110:70:2489:110:3936:-287.284,0,-166.728 1/1:56:0,56:0:0:56:2000:-172.439,-16.8577,0 0/1:212:110,102:110:3940:102:3664:-260.361,0,-285.613 0/1:15:12,3:12:432:3:108:-5.15712,0,-33.4833 0/1:6:4,2:4:144:2:68:-4.49159,0,-11.391 0/1:39:8,31:8:288:31:1100:-82.8665,0,-13.8483 0/1:86:35,51:35:1256:51:1820:-131.392,0,-85.4812 0/1:117:48,69:48:1720:69:2480:-177.972,0,-117.827 0/0:147:147,0:147:5268:0:0:0,-44.2514,-466.505 0/0:54:54,0:54:1917:0:0:0,-16.2556,-169.992 0/0:75:75,0:75:2688:0:0:0,-22.5772,-237.425 0/1:111:64,47:64:2292:47:1684:-110.616,0,-169.591 0/1:78:47,31:47:1688:31:1112:-72.3368,0,-126.688 0/0:73:73,0:73:2620:0:0:0,-21.9752,-232.814 0/0:71:71,0:71:2533:0:0:0,-21.3731,-224.648 chr03 10742605 . GT AC,AT 34324.4 PASS AB=0.472917,0.526042;ABP=9.12661,8.66518;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1038,586;CIGAR=2X,1X1M;DP=1625;DPB=1626;DPRA=0.991667,0.926531;EPP=2257,1275.49;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.75,2;MQM=59.9952,59.9898;MQMR=0;NS=21;NUMALT=2;ODDS=8.18839;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=36984,20982;QR=0;RO=0;RPL=0,0;RPP=2257,1275.49;RPPR=0;RPR=1038,586;RUN=1,1;SAF=1038,586;SAP=2257,1275.49;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:99:0,45,54:0:0:45,54:1586,1924:-286.304,-157.177,-143.63,-129.481,0,-113.226 1/2:106:0,45,61:0:0:45,61:1601,2173:-307.948,-177.472,-163.926,-130.832,0,-112.469 1/2:61:0,23,38:0:0:23,38:807,1360:-176.933,-111.261,-104.338,-66.0246,0,-54.5855 1/1:67:0,67,0:0:0:67,0:2399,0:-216.166,-20.169,0,-216.166,-20.169,-216.166 1/1:173:0,173,0:0:0:173,0:6164,0:-554.499,-52.0782,0,-554.499,-52.0782,-554.499 1/1:72:0,72,0:0:0:72,0:2564,0:-231.009,-21.6742,0,-231.009,-21.6742,-231.009 1/2:113:0,40,73:0:0:40,73:1402,2605:-326.802,-212.722,-200.68,-114.433,0,-92.4583 2/2:78:0,0,78:0:0:0,78:0,2804:-252.599,-252.599,-252.599,-23.4803,-23.4803,0 1/2:149:0,74,74:0:0:74,74:2658,2652:-433.121,-216.29,-194.014,-216.83,0,-194.554 1/2:14:0,9,5:0:0:9,5:322,180:-41.3028,-15.0469,-12.3376,-26.6149,0,-25.1098 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/2:29:0,18,11:0:0:18,11:648,396:-85.1851,-32.3116,-26.8931,-52.8735,0,-49.5622 1/2:100:0,46,54:0:0:46,54:1635,1940:-291.853,-158.621,-144.773,-133.59,0,-117.334 1/2:92:0,38,54:0:0:38,54:1355,1940:-269.073,-158.621,-147.181,-110.81,0,-94.5547 1/1:76:0,76,0:0:0:76,0:2730,0:-245.943,-22.8783,0,-245.943,-22.8783,-245.943 1/1:63:0,63,0:0:0:63,0:2251,0:-202.849,-18.9649,0,-202.849,-18.9649,-202.849 1/1:53:0,51,2:0:0:51,2:1817,72:-163.451,-15.3525,0,-157.576,-9.11787,-156.974 1/2:103:0,59,44:0:0:59,44:2091,1580:-299.587,-129.246,-111.485,-170.698,0,-157.453 1/2:88:0,54,34:0:0:54,34:1916,1212:-255.255,-99.1513,-82.8957,-156.46,0,-146.225 1/1:39:0,39,0:0:0:39,0:1400,0:-126.299,-11.7402,0,-126.299,-11.7402,-126.299 1/1:44:0,43,1:0:0:43,1:1530,36:-137.632,-12.9443,0,-134.695,-9.64705,-134.394 chr03 10967107 . C T 6199.83 PASS AB=0.504854;ABP=3.13679;AC=15;AF=0.357143;AN=42;AO=364;CIGAR=1X;DP=1143;DPB=1143;DPRA=0.987879;EPP=793.426;EPPR=1685.9;GTI=1;LEN=1;MEANALT=1.16667;MQM=59.9313;MQMR=59.9303;NS=21;NUMALT=1;ODDS=2.50388;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13013;QR=26848;RO=775;RPL=364;RPP=793.426;RPPR=1685.9;RPR=0;RUN=1;SAF=364;SAP=793.426;SAR=0;SRF=775;SRP=1685.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:64,32:64:2263:32:1147:-74.6382,0,-175.03 0/1:39:26,13:26:911:13:453:-29.3603,0,-69.2857 0/1:48:18,29:18:640:29:1025:-78.1483,0,-43.516 0/0:43:43,0:43:1506:0:0:0,-12.9443,-135.832 0/0:132:130,2:130:4479:2:72:0,-32.8992,-396.451 0/0:69:68,0:68:2387:0:0:0,-20.47,-214.729 0/1:87:24,63:24:830:63:2264:-177.804,0,-48.8253 1/1:39:0,39:0:0:39:1404:-126.659,-11.7402,0 0/1:115:57,58:57:1992:58:2084:-153.212,0,-144.934 0/1:4:3,1:3:99:1:36:-2.39415,0,-8.03246 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:14:7,7:7:239:7:252:-18.8145,0,-17.6283 0/1:62:31,31:31:1059:31:1110:-81.5471,0,-76.9491 0/1:49:26,23:26:896:23:812:-58.6491,0,-66.1984 0/0:66:65,1:65:2261:1:36:0,-16.2697,-200.152 0/0:45:44,1:44:1535:1:36:0,-9.94807,-134.84 0/0:53:53,0:53:1805:0:0:0,-15.9546,-162.724 0/1:72:23,48:23:762:48:1706:-132.092,0,-47.1547 0/1:32:25,7:25:862:7:252:-13.396,0,-68.2603 0/0:44:41,2:41:1418:2:72:0,-6.36751,-121.124 0/0:28:27,1:27:904:1:36:0,-4.83056,-78.0674 chr03 11182487 . C T 4810.07 PASS AB=0.46056;ABP=8.32019;AC=15;AF=0.357143;AN=42;AO=214;CIGAR=1X;DP=606;DPB=606;DPRA=1.33143;EPP=3.17265;EPPR=3.56425;GTI=1;LEN=1;MEANALT=1;MQM=59.8832;MQMR=60;NS=21;NUMALT=1;ODDS=1.64005;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7628;QR=13784;RO=392;RPL=1;RPP=459.06;RPPR=836.944;RPR=213;RUN=1;SAF=110;SAP=3.37559;SAR=104;SRF=193;SRP=3.20972;SRR=199;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:14,7:14:496:7:248:-16.3138,0,-38.6526 0/1:21:12,9:12:424:9:324:-23.1616,0,-32.1748 0/1:10:5,5:5:176:5:180:-13.5418,0,-13.1747 0/0:23:23,0:23:820:0:0:0,-6.92369,-74.1225 0/0:22:22,0:22:773:0:0:0,-6.62266,-69.8895 0/0:23:23,0:23:811:0:0:0,-6.92369,-73.31 0/1:31:22,9:22:776:9:320:-19.8104,0,-60.8302 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 0/1:37:17,20:17:608:20:703:-52.4554,0,-43.9139 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:5:1,4:1:36:4:140:-11.4394,0,-2.09312 0/1:14:6,8:6:216:8:284:-21.6889,0,-15.5761 0/1:36:15,21:15:531:21:746:-56.6275,0,-37.2848 0/1:23:9,14:9:316:14:500:-38.4125,0,-21.8552 0/0:36:36,0:36:1275:0:0:0,-10.8371,-115.052 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:11:10,1:10:352:1:36:-0.286945,0,-28.7069 0/1:97:48,49:48:1648:49:1743:-127.954,0,-119.404 0/1:79:49,30:49:1698:30:1076:-73.3715,0,-129.32 0/0:25:25,0:25:883:0:0:0,-7.52575,-79.7875 0/0:41:40,1:40:1405:1:36:0,-8.74395,-123.147 chr03 11258341 . AC GA 14292.9 PASS AB=0.378914;ABP=369.014;AC=21;AF=0.5;AN=42;AO=1089;CIGAR=2X;DP=2874;DPB=2874;DPRA=0;EPP=2367.74;EPPR=464.794;GTI=0;LEN=2;MEANALT=1.57143;MQM=59.8779;MQMR=50.2235;NS=21;NUMALT=1;ODDS=0.126487;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36961;QR=62059;RO=1767;RPL=0;RPP=2367.74;RPPR=3840;RPR=1089;RUN=1;SAF=0;SAP=2367.74;SAR=1089;SRF=577;SRP=464.794;SRR=1190;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:67,75:67:2376:75:2555:-187.097,0,-168.665 0/1:110:64,46:64:2270:46:1551:-106.761,0,-168.805 0/1:66:26,40:26:930:40:1372:-103.906,0,-62.7797 0/1:94:60,34:60:2127:34:1187:-78.8367,0,-160.592 0/1:270:199,69:199:6888:69:2364:-132.041,0,-529.893 0/1:46:35,10:35:1247:10:347:-17.6947,0,-96.9357 0/1:218:94,124:94:3257:124:4107:-303.886,0,-225.055 0/1:135:99,36:99:3447:36:1251:-72.2512,0,-265.315 0/1:258:145,112:145:5101:112:3818:-266.21,0,-374.889 0/1:18:14,4:14:493:4:133:-6.87905,0,-38.8575 0/1:4:2,2:2:72:2:70:-5.44321,0,-5.5097 0/1:27:7,20:7:252:20:655:-51.1289,0,-14.7231 0/1:147:108,39:108:3804:39:1341:-76.7352,0,-294.265 0/1:105:59,45:59:2040:45:1477:-101.701,0,-149.291 0/1:285:143,141:143:5042:141:4793:-345.78,0,-362.111 0/1:129:95,32:95:3380:32:1095:-60.2641,0,-258.228 0/1:95:64,30:64:2258:30:989:-60.7191,0,-170.568 0/1:211:158,50:158:5524:50:1747:-94.6121,0,-427.912 0/1:199:154,45:154:5453:45:1565:-81.2343,0,-425.018 0/1:192:89,102:89:3115:102:3451:-252.757,0,-222.32 0/1:119:85,33:85:2983:33:1093:-62.9113,0,-232.174 chr03 11258347 . G T 5731.18 PASS AB=0.277444;ABP=790.747;AC=11;AF=0.261905;AN=42;AO=515;CIGAR=1X;DP=2842;DPB=2842;DPRA=1.28415;EPP=1121.32;EPPR=1381.26;GTI=1;LEN=1;MEANALT=1.2;MQM=45.7146;MQMR=55.8032;NS=21;NUMALT=1;ODDS=3.55592;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18426;QR=82758;RO=2322;RPL=0;RPP=1121.32;RPPR=5027.81;RPR=515;RUN=1;SAF=0;SAP=1121.32;SAR=515;SRF=556;SRP=1372.2;SRR=1766;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:145,1:145:5187:1:25:0,-41.4769,-462.092 0/0:109:109,0:109:3903:0:0:0,-32.8123,-348.781 0/0:67:67,0:67:2389:0:0:0,-20.169,-213.997 0/0:92:92,0:92:3288:0:0:0,-27.6948,-293.518 0/1:266:190,75:190:6776:75:2688:-158.04,0,-523.538 0/0:45:43,2:43:1544:2:72:0,-6.78679,-130.823 0/0:216:215,0:215:7650:0:0:0,-64.7214,-683.188 0/1:132:56,76:56:1999:76:2723:-202.011,0,-139.698 0/1:255:186,69:186:6611:69:2470:-138.834,0,-518.155 0/1:17:10,7:10:360:7:248:-17.1631,0,-27.6096 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.1939 0/0:27:25,2:25:891:2:72:0,-1.31349,-73.5451 0/1:146:85,61:85:3027:61:2192:-151.324,0,-226.535 0/1:105:83,22:83:2943:22:788:-38.4759,0,-231.004 0/1:281:205,74:205:7340:74:2648:-151.521,0,-572.513 0/1:129:97,32:97:3479:32:1144:-61.0405,0,-270.358 0/1:90:64,25:64:2296:25:880:-50.4304,0,-177.36 0/1:212:168,44:168:5940:44:1580:-75.3467,0,-465.516 0/1:198:175,23:175:6233:23:824:-13.7983,0,-496.584 0/0:187:187,0:187:6660:0:0:0,-56.2926,-598.743 0/0:118:116,2:116:4098:2:72:0,-28.7794,-360.664 chr03 11258364 . TCT TTT,ACC 30329.5 PASS AB=0.42098,0.235991;ABP=159.158,1331.89;AC=19,4;AF=0.452381,0.0952381;AN=42;AO=1212,518;CIGAR=1M1X1M,1X1M1X;DP=2879;DPB=2879.33;DPRA=0,0;EPP=26.2945,459.523;EPPR=1224.06;GTI=1;LEN=1,3;MEANALT=2.09524,2.4;MQM=52.0767,45.7201;MQMR=59.7677;NS=21;NUMALT=2;ODDS=13.57;PAIRED=0,0;PAIREDR=0;PAO=0.5,0;PQA=18,0;PQR=18;PRO=0.5;QA=43069,18185;QR=40253;RO=1141;RPL=1107,424;RPP=1801.83,459.523;RPPR=1224.06;RPR=105,94;RUN=1,1;SAF=558,0;SAP=19.5221,1127.83;SAR=654,518;SRF=0;SRP=2480.66;SRR=1141;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:82,62,1:82:2905:62,1:2193,36:-151.731,0,-217.966,-173.705,-233.919,-410.017 0/1:111:49,62,0:49:1715:62,0:2185,0:-161.103,0,-121.22,-175.853,-139.884,-315.388 0/1:67:41,26,0:41:1419:26,0:932,0:-62.6074,0,-107.834,-74.9497,-115.661,-190.261 0/1:93:34,59,0:34:1212:59,0:2078,0:-156.648,0,-81.3893,-166.883,-99.15,-265.68 0/1:270:76,119,75:76:2640:119,75:4228,2590:-316.849,0,-177.891,-132.036,-6.02168,-323.168 0/1:45:11,32,2:11:396:32,2:1152,72:-89.0172,0,-22.6797,-86.5267,-26.5116,-118.235 0/1:219:127,90,0:127:4480:90,0:3192,0:-218.974,0,-337.247,-257.205,-364.339,-621.499 0/2:136:38,23,74:38:1343:23,74:815,2582:-195.897,-141.91,-244.367,0,-43.9564,-87.1044 0/1:262:116,73,71:116:4066:73,71:2624,2507:-179.012,0,-308.889,-15.7263,-132.655,-325.208 1/2:18:4,7,7:4:142:7,7:252,236:-26.5344,-7.17957,-16.6511,-8.97935,0,-18.4407 0/1:5:3,2,0:3:108:2,0:72,0:-5.20867,0,-8.57002,-6.11176,-9.17208,-14.9279 0/1:27:20,5,2:20:716:5,2:172,72:-7.85874,0,-56.8836,-8.02101,-52.5351,-65.821 1/2:146:39,45,61:39:1388:45,61:1596,2161:-177.002,-60.7518,-160.33,-14.8616,0,-109.625 0/1:107:48,35,23:48:1700:35,23:1237,793:-84.0132,0,-127.957,-34.7033,-74.737,-166.268 0/2:286:145,67,74:145:5073:67,74:2400,2634:-168.359,-20.0854,-412.55,0,-220.71,-390.358 0/1:129:38,58,33:38:1349:58,33:2065,1168:-152.942,0,-92.4573,-72.6692,-18.209,-172.648 0/1:94:31,37,26:31:1103:37,26:1324,926:-96.2927,0,-78.269,-32.3261,-16.1102,-113.904 0/1:215:56,114,44:56:2001:114,44:4059,1529:-310.302,0,-128.467,-205.801,-41.4295,-355.332 0/1:197:45,129,23:45:1616:129,23:4590,807:-356.333,0,-93.0001,-305.159,-67.1162,-430.062 0/1:189:104,85,0:104:3669:85,0:3010,0:-213.798,0,-273.251,-245.105,-298.838,-543.591 0/1:118:34,82,2:34:1212:82,2:2893,72:-224.409,0,-74.1116,-228.859,-93.0108,-327.053 chr03 11258371 . C T 40116.1 PASS AB=0.611111;ABP=309.912;AC=21;AF=0.5;AN=42;AO=1749;CIGAR=1X;DP=2862;DPB=2862;DPRA=0;EPP=481.803;EPPR=2365.85;GTI=0;LEN=1;MEANALT=1.04762;MQM=50.1572;MQMR=59.705;NS=21;NUMALT=1;ODDS=4.39214;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62439;QR=39664;RO=1112;RPL=1746;RPP=3774.9;RPPR=2365.85;RPR=3;RUN=1;SAF=561;SAP=491.1;SAR=1188;SRF=0;SRP=2417.69;SRR=1112;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:80,67:80:2834:67:2374:-167.093,0,-211.009 0/1:112:49,63:49:1760:63:2248:-166.167,0,-124.969 0/1:66:40,26:40:1436:26:936:-63.2691,0,-109.668 0/1:91:33,58:33:1176:58:2084:-157.579,0,-78.7531 0/1:269:69,200:69:2431:200:7115:-546.856,0,-137.931 0/1:45:11,34:11:396:34:1220:-94.8665,0,-22.434 0/1:216:127,89:127:4537:89:3171:-217.583,0,-341.554 0/1:133:37,96:37:1328:96:3433:-265.253,0,-79.7852 0/1:259:114,145:114:4019:145:5196:-382.49,0,-283.885 0/1:18:4,14:4:144:14:504:-39.8412,0,-7.89508 0/1:5:3,2:3:108:2:72:-5.20867,0,-8.57002 0/1:27:20,7:20:720:7:252:-14.7231,0,-57.001 0/1:144:38,106:38:1368:106:3777:-292.463,0,-80.0721 0/1:105:45,60:45:1578:60:2143:-157.644,0,-110.698 0/1:286:140,146:140:5010:146:5240:-378.966,0,-364.578 0/1:127:36,90:36:1280:90:3184:-241.156,0,-77.2083 0/1:92:28,64:28:991:64:2280:-173.167,0,-61.8088 0/1:216:56,160:56:2016:160:5687:-440.277,0,-115.379 0/1:199:45,154:45:1620:154:5512:-430.352,0,-86.1846 0/1:187:102,85:102:3660:85:3048:-217.901,0,-273.04 0/1:118:35,83:35:1252:83:2963:-230.795,0,-76.525 chr03 11258377 . A T,C 10698.1 PASS AB=0.230522,0.251957;ABP=1379.31,1095.33;AC=11,8;AF=0.261905,0.190476;AN=42;AO=504,517;CIGAR=1X,1X;DP=2732;DPB=2732;DPRA=1.55098,0.743106;EPP=60.9852,1116.99;EPPR=2000.22;GTI=7;LEN=1,1;MEANALT=1.83333,2;MQM=45.9544,45.6712;MQMR=59.4792;NS=21;NUMALT=2;ODDS=0.158965;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17995,18462;QR=60943;RO=1707;RPL=504,516;RPP=1097.43,1116.99;RPPR=3675.05;RPR=0,1;RUN=1,1;SAF=194,0;SAP=60.9852,1125.66;SAR=310,517;SRF=223;SRP=2025.8;SRR=1484;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:109,36,1:109:3911:36,1:1270,36:-68.6173,0,-308.161,-98.7194,-316.288,-417.402 0/1:70:59,11,0:59:2105:11,0:388,0:-14.057,0,-168.645,-31.8178,-171.956,-203.422 0/1:66:47,19,0:47:1684:19,0:684,0:-40.5981,0,-131.977,-54.7465,-137.697,-192.09 0/1:92:58,34,0:58:2032:34,0:1220,0:-79.7856,0,-155.452,-97.2453,-165.687,-262.582 0/2:268:124,71,73:124:4412:71,73:2527,2575:-169.029,-6.16694,-343.373,0,-158.392,-336.605 0/1:25:15,7,2:15:540:7,2:252,72:-15.9355,0,-41.9564,-14.6497,-38.2623,-58.1099 0/1:180:143,37,0:143:5124:37,0:1317,0:-63.8251,0,-405.919,-106.872,-417.057,-523.575 0/2:135:45,15,75:45:1616:15,75:535,2658:-199.311,-170.478,-297.781,0,-89.4461,-109.246 0/2:257:185,0,72:185:6585:0,72:0,2588:-148.414,-204.105,-740.643,0,-536.889,-515.215 0/2:17:10,0,7:10:360:0,7:0,252:-17.487,-20.4973,-49.872,0,-29.7306,-27.6234 0/1:4:3,1,0:3:108:1,0:36,0:-2.38236,0,-8.87105,-3.28545,-9.17208,-12.0986 0/1:27:20,5,2:20:716:5,2:180,72:-8.51081,0,-56.8834,-8.67716,-52.5349,-66.4655 0/2:146:53,32,61:53:1900:32,61:1152,2188:-160.252,-84.2672,-229.331,0,-62.76,-136.336 0/1:104:54,28,22:54:1940:28,22:996,773:-62.3545,0,-149.841,-16.3886,-96.0524,-168.036 0/2:285:160,51,74:160:5736:51,74:1828,2644:-164.724,-67.3177,-519.386,0,-321.853,-445.147 0/2:131:64,32,33:64:2292:32,33:1152,1188:-74.0589,-3.39578,-180.62,0,-96.9319,-176.924 0/2:94:46,22,26:46:1637:22,26:780,936:-60.1663,-12.8002,-139.102,0,-71.7163,-125.102 0/1:212:107,60,44:107:3817:60,44:2138,1580:-138.976,0,-291.646,-45.8466,-184.369,-342.308 0/1:197:132,42,23:132:4712:42,23:1504,828:-78.0647,0,-371.501,-51.339,-317.686,-428.566 0/0:191:190,1,0:190:6751:1,0:36,0:0,-54.0422,-603.714,-57.1957,-604.015,-606.823 0/0:85:83,0,2:83:2965:0,2:0,72:0,-24.9855,-265.786,-18.8454,-260,-259.398 chr03 11309557 . 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T G,A 22048.9 PASS AB=0.587459,0.412541;ABP=43.2721,43.2721;AC=27,15;AF=0.642857,0.357143;AN=42;AO=708,344;CIGAR=1X,1X;DP=1053;DPB=1053;DPRA=0.562209,0.884398;EPP=1540.41,749.997;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.9,1.94737;MQM=59.6172,59.7064;MQMR=60;NS=21;NUMALT=2;ODDS=1.264;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25250,12318;QR=36;RO=1;RPL=708,344;RPP=1540.41,749.997;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1540.41,749.997;SAR=708,344;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:39:0,27,12:0:0:27,12:964,428:-113.834,-35.2464,-27.1186,-78.9444,0,-75.332 1/2:18:0,15,3:0:0:15,3:536,108:-52.8678,-9.17208,-4.65663,-44.0551,0,-43.152 1/2:68:0,37,31:0:0:37,31:1328,1108:-199.01,-90.6991,-79.561,-108.669,0,-99.3369 1/1:48:1,46,1:1:36:46,1:1629,36:-143.283,-10.91,0,-140.647,-10.91,-143.283 1/1:87:0,86,1:0:0:86,1:3072,36:-276.337,-25.8886,0,-273.399,-22.5913,-273.098 1/2:24:0,20,4:0:0:20,4:712,144:-70.1297,-12.1095,-6.0889,-58.3793,0,-57.1752 1/2:71:0,45,26:0:0:45,26:1596,932:-206.286,-76.3721,-62.8257,-130.271,0,-122.444 2/2:86:0,0,86:0:0:0,86:0,3054:-275.057,-275.057,-275.057,-25.8886,-25.8886,0 1/2:108:0,59,49:0:0:59,49:2116,1760:-316.487,-143.905,-126.144,-172.941,0,-158.191 1/2:12:0,6,6:0:0:6,6:212,216:-35.2464,-17.9843,-16.1782,-17.6186,0,-15.8124 1/2:6:0,2,4:0:0:2,4:64,144:-17.2495,-12.1061,-11.504,-5.47663,0,-4.27251 1/2:52:0,36,16:0:0:36,16:1292,576:-152.72,-47.3523,-36.5153,-105.727,0,-100.911 1/2:84:0,42,42:0:0:42,42:1500,1512:-246.017,-123.727,-111.083,-122.649,0,-110.006 1/2:55:0,31,24:0:0:31,24:1116,860:-161.399,-70.4971,-61.1652,-91.2605,0,-84.0357 1/1:73:0,73,0:0:0:73,0:2616,0:-235.563,-21.9752,0,-235.563,-21.9752,-235.563 1/1:35:0,33,2:0:0:33,2:1180,72:-106.146,-9.93399,0,-100.271,-3.69933,-99.669 1/1:39:0,39,0:0:0:39,0:1366,0:-123.23,-11.7402,0,-123.23,-11.7402,-123.23 1/2:49:0,21,28:0:0:21,28:735,1008:-142.385,-82.5891,-76.2674,-60.1498,0,-51.7209 1/2:20:0,15,5:0:0:15,5:540,180:-59.1082,-15.0469,-10.5315,-44.4211,0,-42.9159 1/1:47:0,45,2:0:0:45,2:1608,72:-144.646,-13.5464,0,-138.771,-7.31169,-138.169 1/1:32:0,30,2:0:0:30,2:1068,72:-96.0593,-9.0309,0,-90.1842,-2.79624,-89.5821 chr03 11655942 . 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G T 13854.8 PASS AB=0.536128;ABP=15.7195;AC=14;AF=0.333333;AN=42;AO=748;CIGAR=1X;DP=2152;DPB=2152;DPRA=1.21065;EPP=1601.32;EPPR=2722.42;GTI=0;LEN=1;MEANALT=1;MQM=59.9759;MQMR=59.6859;NS=21;NUMALT=1;ODDS=20.8603;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26738;QR=50104;RO=1404;RPL=3;RPP=1601.32;RPPR=2722.42;RPR=745;RUN=1;SAF=748;SAP=1627.27;SAR=0;SRF=1404;SRP=3051.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:53,36:53:1904:36:1283:-88.981,0,-144.84 0/1:147:50,97:50:1791:97:3484:-269.519,0,-117.214 0/1:92:39,53:39:1400:53:1894:-143.044,0,-98.6044 0/0:93:93,0:93:3323:0:0:0,-27.9958,-299.269 0/0:213:213,0:213:7592:0:0:0,-64.1194,-683.287 0/0:39:39,0:39:1380:0:0:0,-11.7402,-124.456 0/1:161:84,77:84:2991:77:2722:-196.752,0,-220.904 1/1:146:0,146:0:0:146:5236:-471.376,-43.9504,0 0/1:156:75,81:75:2676:81:2895:-213.825,0,-194.122 0/1:22:8,14:8:284:14:500:-38.7135,0,-19.2807 0/1:13:6,7:6:212:7:252:-19.1156,0,-15.5114 0/1:36:12,24:12:432:24:864:-67.2455,0,-28.3725 0/1:66:22,44:22:779:44:1572:-121.904,0,-50.5503 0/1:98:46,52:46:1633:52:1854:-137.637,0,-117.731 0/0:256:255,1:255:9093:1:36:0,-73.4654,-814.716 0/0:109:109,0:109:3904:0:0:0,-32.8123,-351.524 0/0:55:55,0:55:1955:0:0:0,-16.5566,-176.049 0/1:173:79,94:79:2831:94:3363:-250.808,0,-202.893 0/1:68:46,22:46:1643:22:783:-50.3229,0,-127.682 0/0:55:55,0:55:1957:0:0:0,-16.5566,-176.404 0/0:65:65,0:65:2324:0:0:0,-19.5669,-209.378 chr03 12661258 . G A 27482.1 PASS AB=0.464801;ABP=14.9338;AC=28;AF=0.666667;AN=42;AO=1385;CIGAR=1X;DP=2127;DPB=2127;DPRA=0.683448;EPP=3010.5;EPPR=1612.07;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6874;MQMR=59.9757;NS=21;NUMALT=1;ODDS=15.4826;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48596;QR=26374;RO=741;RPL=1385;RPP=3010.5;RPPR=1594.75;RPR=0;RUN=1;SAF=1385;SAP=3010.5;SAR=0;SRF=739;SRP=1594.75;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:37,53:37:1332:53:1857:-140.309,0,-93.0897 0/1:145:96,49:96:3415:49:1738:-113.047,0,-263.916 0/1:90:52,38:52:1859:38:1343:-94.0767,0,-140.496 1/1:92:1,91:1:36:91:3172:-282.095,-24.0965,0 1/1:207:0,207:0:0:207:7270:-654.347,-62.3132,0 1/1:37:0,37:0:0:37:1291:-116.437,-11.1381,0 0/1:159:76,83:76:2716:83:2906:-213.873,0,-196.783 0/0:145:145,0:145:5137:0:0:0,-43.6493,-462.473 0/1:152:79,73:79:2814:73:2579:-186.586,0,-207.742 0/1:23:15,8:15:532:8:284:-18.9797,0,-41.2894 0/1:11:6,5:6:212:5:171:-12.4141,0,-16.1135 0/1:33:23,10:23:824:10:356:-22.4365,0,-64.5493 0/1:66:44,22:44:1572:22:762:-49.0183,0,-121.904 0/1:97:52,44:52:1848:44:1542:-109.799,0,-137.341 1/1:248:3,245:3:108:245:8539:-758.421,-64.5803,0 1/1:112:0,112:0:0:112:3919:-352.877,-33.7154,0 1/1:55:0,55:0:0:55:1941:-174.961,-16.5567,0 0/1:174:92,82:92:3261:82:2902:-208.981,0,-241.332 0/1:68:20,48:20:708:48:1669:-130.023,0,-43.5756 1/1:57:0,57:0:0:57:2016:-181.713,-17.1587,0 1/1:66:0,66:0:0:66:2339:-210.689,-19.868,0 chr03 12910943 . AGCTT AGA 20330.7 PASS AB=0.484225;ABP=4.58603;AC=28;AF=0.666667;AN=42;AO=988;CIGAR=2M2D1X;DP=1475;DPB=1075;DPRA=0.726316;EPP=2148.43;EPPR=1008.57;GTI=0;LEN=3;MEANALT=1.35;MQM=58.0324;MQMR=59.9705;NS=21;NUMALT=1;ODDS=1.33256;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35397;QR=16783;RO=475;RPL=988;RPP=2148.43;RPPR=1025.79;RPR=0;RUN=1;SAF=0;SAP=2148.43;SAR=988;SRF=2;SRP=1017.16;SRR=473;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:44,53:44:1546:53:1904:-142.361,0,-110.229 0/1:84:37,46:37:1299:46:1652:-123.494,0,-91.8748 0/1:70:37,33:37:1311:33:1173:-84.743,0,-97.2197 1/1:75:0,74:0:0:74:2656:-238.75,-22.2762,0 1/1:155:4,148:4:144:148:5293:-462.59,-32.7901,0 1/1:43:0,40:0:0:40:1436:-128.416,-12.0412,0 0/1:95:65,30:65:2305:30:1071:-67.7787,0,-179.112 0/0:95:95,0:95:3361:0:0:0,-28.5978,-302.708 0/1:128:67,60:67:2351:60:2160:-155.948,0,-173.261 0/1:12:10,2:10:337:2:72:-3.22245,0,-27.042 0/1:4:2,2:2:71:2:72:-5.62767,0,-5.53794 0/1:9:8,1:8:287:1:36:-0.887999,0,-23.4672 0/1:50:20,30:20:713:30:1068:-81.3802,0,-49.4454 0/1:68:36,32:36:1280:32:1148:-83.1185,0,-95.0334 1/1:164:0,164:0:0:164:5858:-526.836,-49.3689,0 1/1:58:0,58:0:0:58:2076:-185.794,-17.4597,0 1/1:49:0,46:0:0:46:1656:-148.177,-13.8474,0 0/1:74:39,35:39:1390:35:1260:-90.9624,0,-103.123 0/1:38:9,29:9:316:29:1034:-81.849,0,-17.3397 1/1:55:0,55:0:0:55:1972:-177.084,-16.5567,0 1/1:52:2,50:2:72:50:1800:-155.328,-8.81684,0 chr03 13193591 . C G 13762.3 PASS AB=0.486622;ABP=3.93989;AC=27;AF=0.642857;AN=42;AO=687;CIGAR=1X;DP=1047;DPB=1047;DPRA=1.04063;EPP=1494.81;EPPR=771.736;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9651;MQMR=59.9777;NS=21;NUMALT=1;ODDS=0.873563;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24500;QR=12451;RO=358;RPL=0;RPP=1494.81;RPPR=771.736;RPR=687;RUN=1;SAF=687;SAP=1494.81;SAR=0;SRF=358;SRP=780.397;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:42,25:42:1460:25:885:-59.7686,0,-111.514 0/1:39:20,19:20:704:19:684:-50.1502,0,-51.9444 0/1:46:22,24:22:759:24:836:-61.7073,0,-54.7803 1/1:40:0,40:0:0:40:1425:-128.545,-12.0412,0 1/1:110:3,107:3:108:107:3829:-334.73,-23.0381,0 0/1:33:4,29:4:144:29:1040:-83.9804,0,-3.37963 0/1:64:44,20:44:1515:20:716:-45.5018,0,-117.375 0/0:48:48,0:48:1671:0:0:0,-14.4494,-150.676 0/1:77:41,36:41:1398:36:1292:-93.4045,0,-102.935 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:10:8,2:8:284:2:61:-2.78293,0,-22.8931 0/1:11:4,6:4:140:6:216:-16.4204,0,-9.57644 0/1:57:33,24:33:1152:24:845:-59.2084,0,-86.8274 0/1:32:20,12:20:686:12:428:-29.2258,0,-52.4253 1/1:72:0,72:0:0:72:2568:-231.37,-21.6742,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 1/1:45:1,44:1:36:44:1576:-138.533,-9.94808,0 0/1:71:34,37:34:1182:37:1319:-97.638,0,-85.3099 0/1:87:32,55:32:1140:55:1963:-150.755,0,-76.7196 1/1:52:0,51:0:0:51:1824:-164.12,-15.3525,0 1/1:41:0,41:0:0:41:1453:-131.064,-12.3422,0 chr03 13370681 . TTTGT TTTGC 18199.5 PASS AB=0.45279;ABP=21.0531;AC=28;AF=0.666667;AN=42;AO=930;CIGAR=4M1X;DP=1555;DPB=1555;DPRA=0.719802;EPP=2013.8;EPPR=1314.64;GTI=0;LEN=1;MEANALT=1.5;MQM=59.9065;MQMR=59.9477;NS=21;NUMALT=1;ODDS=16.0303;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33031;QR=21492;RO=612;RPL=1;RPP=2013.8;RPPR=1314.64;RPR=929;RUN=1;SAF=930;SAP=2022.48;SAR=0;SRF=612;SRP=1331.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:55,48:55:1942:48:1703:-122.189,0,-143.69 0/1:72:41,31:41:1432:31:1088:-76.5523,0,-107.499 0/1:105:57,48:57:1998:48:1716:-123.117,0,-148.483 1/1:39:1,38:1:36:38:1352:-118.382,-8.1419,0 1/1:121:1,118:1:36:118:4152:-370.185,-32.5807,0 1/1:58:3,54:3:108:54:1940:-164.816,-7.36842,0 0/1:112:63,49:63:2228:49:1739:-123.071,0,-167.069 0/0:101:101,0:101:3513:0:0:0,-30.404,-316.156 0/1:136:64,72:64:2271:72:2557:-189.439,0,-163.713 0/1:29:15,13:15:531:13:453:-32.3118,0,-39.3344 0/1:25:17,8:17:586:8:288:-18.7417,0,-45.5373 0/1:42:29,13:29:1014:13:464:-29.4257,0,-78.927 0/1:30:18,12:18:639:12:424:-29.4655,0,-48.8081 0/1:89:66,22:66:2327:22:775:-43.2779,0,-182.9 1/1:115:0,115:0:0:115:4106:-369.725,-34.6185,0 1/1:45:0,41:0:0:41:1468:-132.056,-12.3422,0 1/1:30:0,30:0:0:30:1056:-95.3509,-9.0309,0 0/1:145:67,77:67:2354:77:2756:-204.517,0,-168.41 0/1:43:14,29:14:477:29:1031:-80.1583,0,-30.3097 1/1:67:0,66:0:0:66:2341:-210.599,-19.868,0 1/1:47:0,46:0:0:46:1622:-145.908,-13.8474,0 chr03 13749916 . A G 11242.5 PASS AB=0.478299;ABP=7.62829;AC=14;AF=0.333333;AN=42;AO=651;CIGAR=1X;DP=1812;DPB=1812;DPRA=1.37967;EPP=1416.64;EPPR=2524.09;GTI=0;LEN=1;MEANALT=1;MQM=59.9232;MQMR=41.4634;NS=21;NUMALT=1;ODDS=7.39136;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23245;QR=41495;RO=1161;RPL=0;RPP=1416.64;RPPR=2524.09;RPR=651;RUN=1;SAF=651;SAP=1416.64;SAR=0;SRF=1161;SRP=2524.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:62,56:62:2224:56:2004:-145.112,0,-154.646 0/1:87:48,39:48:1709:39:1377:-98.0365,0,-126.216 0/1:109:46,63:46:1652:63:2251:-170.039,0,-108.225 0/0:58:58,0:58:2084:0:0:0,-17.4597,-179.052 0/0:98:90,8:90:3228:8:284:0,-3.59758,-251.135 0/0:69:69,0:69:2457:0:0:0,-20.7711,-218.357 0/1:115:63,52:63:2237:52:1868:-133.78,0,-163.802 1/1:103:0,103:0:0:103:3643:-328.072,-31.0061,0 0/1:157:68,89:68:2440:89:3204:-241.319,0,-160.291 0/1:27:18,9:18:644:9:324:-21.378,0,-48.2474 0/1:13:5,8:5:180:8:288:-22.354,0,-12.4939 0/1:46:23,23:23:824:23:817:-59.9974,0,-59.5466 0/1:59:37,22:37:1328:22:784:-53.1231,0,-95.8377 0/1:134:74,60:74:2645:60:2144:-152.889,0,-184.713 0/0:172:172,0:172:6169:0:0:0,-51.7772,-523.332 0/0:53:53,0:53:1900:0:0:0,-15.9546,-161.834 0/0:66:66,0:66:2353:0:0:0,-19.868,-200.808 0/1:200:106,94:106:3789:94:3365:-242.822,0,-275.339 0/1:64:39,25:39:1381:25:892:-61.3338,0,-99.1033 0/0:9:9,0:9:324:0:0:0,-2.70927,-28.7811 0/0:55:55,0:55:1927:0:0:0,-16.5566,-171.781 chr03 13749939 . A G 21154 PASS AB=0.541667;ABP=21.1059;AC=27;AF=0.642857;AN=42;AO=1115;CIGAR=1X;DP=1776;DPB=1776;DPRA=0.795714;EPP=2295.67;EPPR=1382.37;GTI=1;LEN=1;MEANALT=1.05;MQM=41.4574;MQMR=59.8832;NS=21;NUMALT=1;ODDS=4.81832;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39748;QR=23617;RO=659;RPL=15;RPP=2295.67;RPPR=1382.37;RPR=1100;RUN=1;SAF=1115;SAP=2424.2;SAR=0;SRF=659;SRP=1434.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:60,57:60:2148:57:2021:-138.212,0,-158.367 0/1:86:39,47:39:1373:47:1684:-124.298,0,-97.9604 0/1:109:63,46:63:2264:46:1640:-107.44,0,-171.21 1/1:57:0,57:0:0:57:2040:-175.425,-17.1587,0 0/1:95:9,86:9:324:86:3060:-235.023,0,-0.908004 1/1:69:0,69:0:0:69:2460:-218.695,-20.7711,0 0/1:109:50,59:50:1796:59:2103:-154.55,0,-129.109 0/0:105:105,0:105:3772:0:0:0,-31.6081,-339.678 0/1:153:87,66:87:3116:66:2324:-152.512,0,-234.609 0/1:26:10,16:10:360:16:576:-42.9357,0,-24.9175 0/1:13:8,5:8:288:5:180:-12.4939,0,-22.354 0/1:44:25,19:25:888:19:680:-47.7596,0,-66.9643 0/1:58:22,36:22:788:36:1288:-92.7843,0,-53.7851 0/1:127:58,69:58:2084:69:2449:-170.922,0,-149.598 1/1:169:4,163:4:144:163:5838:-482.037,-37.3317,0 1/1:51:0,51:0:0:51:1824:-155.398,-15.3525,0 1/1:64:0,64:0:0:64:2251:-192.803,-19.2659,0 0/1:198:93,105:93:3344:105:3748:-272.929,0,-241.535 0/1:65:26,39:26:928:39:1395:-99.6832,0,-64.2713 1/1:8:0,8:0:0:8:288:-26.0377,-2.40824,0 1/1:53:0,53:0:0:53:1899:-168.863,-15.9546,0 chr03 13749948 . 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A G 49241.2 PASS AB=0.480147;ABP=8.61474;AC=28;AF=0.666667;AN=42;AO=1961;CIGAR=1X;DP=2967;DPB=2967;DPRA=0.994718;EPP=4261.27;EPPR=2185.34;GTI=0;LEN=1;MEANALT=1.05;MQM=51.4289;MQMR=59.9413;NS=21;NUMALT=1;ODDS=18.0671;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69359;QR=35346;RO=1005;RPL=744;RPP=250.752;RPPR=35.6991;RPR=1217;RUN=1;SAF=744;SAP=250.752;SAR=1217;SRF=564;SRP=35.6991;SRR=441;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:216:101,115:101:3563:115:4074:-293.051,0,-255.857 0/1:125:76,49:76:2652:49:1731:-117.998,0,-201.292 0/1:156:75,81:75:2651:81:2854:-202.711,0,-191.877 1/1:203:0,203:0:0:203:7178:-637.662,-61.1091,0 1/1:232:9,222:9:320:222:7869:-666.562,-40.755,0 1/1:118:2,116:2:72:116:4082:-359.995,-28.6848,0 0/1:201:139,62:139:4917:62:2202:-137.494,0,-382.175 0/0:142:142,0:142:5007:0:0:0,-42.7463,-450.755 0/1:222:117,105:117:4112:105:3714:-256.397,0,-303.439 0/1:20:15,5:15:536:5:171:-9.64767,0,-42.5542 0/1:18:10,8:10:352:8:284:-20.4561,0,-26.5997 0/1:80:38,42:38:1368:42:1490:-110.299,0,-99.2687 0/1:111:48,63:48:1662:63:2232:-161.569,0,-116.446 0/1:197:75,122:75:2621:122:4324:-316.939,0,-176.836 1/1:222:0,222:0:0:222:7891:-680.287,-66.8287,0 1/1:137:0,137:0:0:137:4885:-430.261,-41.2411,0 1/1:127:0,127:0:0:127:4473:-393.111,-38.2308,0 0/1:166:127,39:127:4438:39:1364:-72.7125,0,-349.59 0/1:125:30,95:30:1039:95:3337:-256.454,0,-56.1869 1/1:80:1,79:1:36:79:2805:-248.973,-20.4841,0 1/1:69:0,69:0:0:69:2399:-215.913,-20.7711,0 chr03 13749974 . 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T A 28415.3 PASS AB=0.543353;ABP=17.1311;AC=29;AF=0.690476;AN=42;AO=1362;CIGAR=1X;DP=1871;DPB=1871;DPRA=0.792793;EPP=2960.56;EPPR=1108.29;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.38732;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48449;QR=18116;RO=509;RPL=1362;RPP=2960.56;RPPR=1108.29;RPR=0;RUN=1;SAF=1362;SAP=2960.56;SAR=0;SRF=509;SRP=1108.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:35,28:35:1248:28:996:-70.99,0,-93.66 0/1:49:20,29:20:716:29:1036:-78.8034,0,-50.0172 0/1:112:62,50:62:2215:50:1771:-125.957,0,-165.899 1/1:120:0,120:0:0:120:4269:-384.389,-36.1236,0 1/1:175:2,173:2:72:173:6065:-539.123,-45.8435,0 1/1:47:1,46:1:36:46:1632:-143.571,-10.5501,0 0/1:106:65,41:65:2320:41:1460:-99.7868,0,-177.151 0/0:111:111,0:111:3938:0:0:0,-33.4143,-354.614 0/1:86:33,53:33:1184:53:1900:-145.389,0,-80.9797 0/1:28:12,16:12:428:16:568:-43.023,0,-30.43 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:31:20,11:20:711:11:392:-26.2881,0,-54.9837 0/1:102:37,65:37:1313:65:2324:-178.715,0,-87.7646 0/1:113:44,69:44:1544:69:2471:-188.628,0,-105.233 1/1:198:0,198:0:0:198:7066:-636.002,-59.6039,0 1/1:68:0,68:0:0:68:2435:-219.405,-20.47,0 1/1:106:0,106:0:0:106:3788:-341.119,-31.9092,0 0/1:127:59,68:59:2103:68:2418:-179.645,0,-151.308 0/1:48:8,40:8:288:40:1431:-114.637,0,-11.818 1/1:117:0,117:0:0:117:4143:-373.058,-35.2205,0 1/1:57:0,57:0:0:57:2032:-183.153,-17.1587,0 chr03 14750906 . C T 9558.77 PASS AB=0.489595;ABP=3.8689;AC=14;AF=0.333333;AN=42;AO=563;CIGAR=1X;DP=1700;DPB=1700;DPRA=1.82864;EPP=1225.55;EPPR=2467.63;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.9893;MQMR=60;NS=21;NUMALT=1;ODDS=3.66657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19809;QR=39987;RO=1135;RPL=562;RPP=1216.88;RPPR=2467.63;RPR=1;RUN=1;SAF=562;SAP=1216.88;SAR=1;SRF=1135;SRP=2467.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:77,52:77:2720:52:1852:-128.127,0,-206.21 0/1:64:30,34:30:1076:34:1204:-89.3999,0,-77.8869 0/1:60:26,34:26:915:34:1216:-91.6829,0,-64.6038 0/0:87:86,1:86:3040:1:36:0,-22.5913,-270.232 0/0:180:176,4:176:6200:4:140:0,-41.2408,-545.158 0/0:62:61,1:61:2125:1:36:0,-15.0656,-187.914 0/1:125:64,60:64:2292:60:2126:-153.92,0,-168.854 1/1:106:0,106:0:0:106:3745:-337.252,-31.9092,0 0/1:136:63,73:63:2192:73:2599:-193.218,0,-156.602 0/1:10:5,5:5:171:5:161:-11.7963,0,-12.7152 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:12:5,7:5:180:7:243:-18.5951,0,-12.9397 0/1:130:70,60:70:2425:60:2090:-149.233,0,-179.371 0/1:88:41,46:41:1427:46:1640:-121.452,0,-102.285 0/0:142:140,2:140:4959:2:72:0,-35.9095,-439.625 0/0:54:54,0:54:1899:0:0:0,-16.2556,-171.187 0/0:48:48,0:48:1690:0:0:0,-14.4494,-152.385 0/1:87:43,44:43:1511:44:1462:-105.678,0,-110.093 0/1:67:39,28:39:1370:28:971:-67.5321,0,-103.428 0/0:68:66,2:66:2327:2:72:0,-13.6333,-202.851 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 chr03 15548830 . G T 8306.69 PASS AB=0.460526;ABP=12.2676;AC=15;AF=0.357143;AN=42;AO=424;CIGAR=1X;DP=1326;DPB=1326;DPRA=1.13704;EPP=616.123;EPPR=1961.68;GTI=1;LEN=1;MEANALT=1;MQM=53.9316;MQMR=59.9889;NS=21;NUMALT=1;ODDS=3.35172;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14703;QR=32145;RO=902;RPL=410;RPP=806.127;RPPR=1590.31;RPR=14;RUN=1;SAF=25;SAP=719.371;SAR=399;SRF=857;SRP=1590.31;SRR=45;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:38,22:38:1360:22:760:-50.4551,0,-104.639 0/1:33:23,10:23:805:10:344:-19.9115,0,-62.8335 0/1:48:42,6:42:1504:6:208:-4.57948,0,-121.205 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.349 0/0:113:113,0:113:4010:0:0:0,-34.0164,-361.084 0/0:66:66,0:66:2345:0:0:0,-19.868,-211.308 0/1:52:31,21:31:1095:21:736:-50.7468,0,-83.2055 1/1:42:0,42:0:0:42:1469:-132.233,-12.6433,0 0/1:110:55,55:55:1976:55:1929:-140.424,0,-145.001 0/1:52:8,44:8:288:44:1549:-123.74,0,-10.6138 1/1:66:0,66:0:0:66:2228:-200.303,-19.868,0 0/1:59:18,41:18:640:41:1394:-107.823,0,-40.1685 0/1:56:46,10:46:1648:10:352:-15.1148,0,-131.751 0/1:36:28,8:28:1004:8:280:-14.6597,0,-79.8388 0/0:129:128,1:128:4556:1:36:0,-35.2397,-406.613 0/0:38:38,0:38:1348:0:0:0,-11.4391,-121.618 0/0:58:58,0:58:2056:0:0:0,-17.4597,-185.309 0/1:122:32,90:32:1148:90:3130:-244.45,0,-66.9042 0/1:56:48,8:48:1711:8:288:-9.3597,0,-137.417 0/0:38:38,0:38:1355:0:0:0,-11.4391,-122.25 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 chr03 15548857 . GCA CCA,CCG 29632.7 PASS AB=0.532203,0.466102;ABP=8.32489,8.89904;AC=26,16;AF=0.619048,0.380952;AN=42;AO=943,448;CIGAR=1X2M,1X1M1X;DP=1396;DPB=1396.67;DPRA=1.37449,0.887674;EPP=2050.71,975.83;EPPR=5.18177;GTI=2;LEN=1,3;MEANALT=1.7,1.92857;MQM=58.9035,53.5112;MQMR=60;NS=21;NUMALT=2;ODDS=1.52077;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=33444,15798;QR=21;RO=1;RPL=0,448;RPP=2050.71,975.83;RPPR=5.18177;RPR=943,0;RUN=1,1;SAF=0,0;SAP=2050.71,975.83;SAR=943,448;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:48:0,22,26:0:0:22,26:770,902:-136.065,-73.4614,-66.8387,-62.9517,0,-55.1249 1/2:24:0,15,9:0:0:15,9:536,321:-68.509,-24.8274,-20.312,-44.0253,0,-41.316 1/2:52:0,46,6:0:0:46,6:1628,216:-150.503,-17.9466,-4.09926,-132.915,0,-131.109 1/1:60:0,60,0:0:0:60,0:2143,0:-193.046,-18.0618,0,-193.046,-18.0618,-193.046 1/1:75:0,75,0:0:0:75,0:2678,0:-241.13,-22.5773,0,-241.13,-22.5773,-241.13 1/1:88:0,84,0:0:0:84,0:2996,0:-269.369,-25.2865,0,-269.369,-25.2865,-269.369 1/2:61:0,38,23:0:0:38,23:1368,806:-177.396,-65.7963,-54.3571,-111.953,0,-105.03 2/2:49:0,0,49:0:0:0,49:0,1732:-155.903,-155.903,-155.903,-14.7505,-14.7505,0 1/2:97:1,62,34:1:21:62,34:2196,1214:-275.534,-97.1585,-80.0794,-177.232,0,-168.584 1/2:51:0,5,46:0:0:5,46:176,1622:-146.431,-132.103,-130.598,-14.6799,0,-0.832489 2/2:77:0,1,76:0:0:1,76:36,2655:-238.361,-235.424,-235.123,-22.8783,-19.581,0 2/2:48:0,1,47:0:0:1,47:36,1665:-149.448,-146.546,-146.245,-14.1484,-10.8908,0 1/2:39:0,27,12:0:0:27,12:937,425:-111.057,-34.9146,-26.7867,-76.4943,0,-72.882 1/2:45:0,35,10:0:0:35,10:1219,358:-128.611,-29.4925,-18.9565,-99.4738,0,-96.4635 1/1:129:0,128,1:0:0:128,1:4520,33:-405.45,-38.5318,0,-402.784,-35.5363,-402.483 1/1:58:0,58,0:0:0:58,0:2067,0:-185.969,-17.4597,0,-185.969,-17.4597,-185.969 1/1:81:0,81,0:0:0:81,0:2893,0:-260.261,-24.3834,0,-260.261,-24.3834,-260.261 1/2:118:0,20,98:0:0:20,98:712,3459:-338.51,-280.515,-274.494,-58.3502,0,-28.8492 1/2:55:0,44,11:0:0:44,11:1563,390:-159.422,-32.065,-18.8197,-127.711,0,-124.4 1/1:106:0,106,0:0:0:106,0:3719,0:-334.343,-31.9092,0,-334.343,-31.9092,-334.343 1/1:35:0,35,0:0:0:35,0:1251,0:-112.55,-10.5361,0,-112.55,-10.5361,-112.55 chr03 15548954 . CACT CACC,AACC 36971.9 PASS AB=0.466157,0.529476;ABP=12.1229,9.92298;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1097,652;CIGAR=3M1X,1X2M1X;DP=1753;DPB=1753;DPRA=0.48773,1.71961;EPP=2350.5,1350.18;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.8,2.23077;MQM=60,59.8405;MQMR=0;NS=21;NUMALT=2;ODDS=2.24604;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38951,22430;QR=0;RO=0;RPL=1093,643;RPP=2350.5,1341.72;RPPR=0;RPR=4,9;RUN=1,1;SAF=1097,651;SAP=2385.12,1410.14;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:119:0,67,51:0:0:67,51:2404,1745:-337.716,-141.618,-121.449,-196.088,0,-180.735 1/2:64:0,38,26:0:0:38,26:1355,904:-184.298,-73.8387,-62.3995,-110.811,0,-102.984 1/2:89:0,40,49:0:0:40,49:1415,1718:-255.405,-140.152,-128.111,-115.605,0,-100.855 1/1:99:0,99,0:0:0:99,0:3515,0:-316.562,-29.802,0,-316.562,-29.802,-316.562 1/1:212:0,208,4:0:0:208,4:7409,143:-666.499,-62.6142,0,-654.839,-50.5969,-653.635 1/1:54:0,54,0:0:0:54,0:1940,0:-174.876,-16.2556,0,-174.876,-16.2556,-174.876 1/2:89:0,39,49:0:0:39,49:1383,1721:-252.317,-139.641,-127.901,-112.736,0,-97.9853 2/2:163:0,0,163:0:0:0,163:0,5569:-501.354,-501.354,-501.354,-49.0679,-49.0679,0 1/2:154:0,66,88:0:0:66,88:2332,3033:-436.605,-246.684,-226.816,-190.27,0,-163.78 1/2:7:0,3,4:0:0:3,4:108,137:-20.2833,-11.4635,-10.5604,-9.17208,0,-7.96796 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:20:0,7,12:0:0:7,12:252,414:-54.2987,-33.7287,-31.6215,-20.6668,0,-17.0544 1/2:138:0,48,90:0:0:48,90:1698,3011:-382.428,-244.12,-229.67,-138.655,0,-111.562 1/2:55:0,24,31:0:0:24,31:847,1078:-156.966,-87.9925,-80.7678,-69.324,0,-59.9921 1/1:121:0,121,0:0:0:121,0:4303,0:-387.447,-36.4246,0,-387.447,-36.4246,-387.447 1/1:44:0,44,0:0:0:44,0:1545,0:-139.339,-13.2453,0,-139.339,-13.2453,-139.339 1/1:69:0,69,0:0:0:69,0:2438,0:-219.675,-20.7711,0,-219.675,-20.7711,-219.675 1/2:100:0,45,54:0:0:45,54:1616,1884:-285.051,-153.222,-139.676,-131.824,0,-115.568 1/2:81:0,50,31:0:0:50,31:1726,1073:-227.764,-87.5444,-72.4929,-140.565,0,-131.233 1/1:41:0,41,0:0:0:41,0:1451,0:-130.885,-12.3422,0,-130.885,-12.3422,-130.885 1/1:28:0,28,0:0:0:28,0:998,0:-90.1352,-8.42884,0,-90.1352,-8.42884,-90.1352 chr03 15549045 . A T 22955.7 PASS AB=0.494118;ABP=3.26577;AC=28;AF=0.666667;AN=42;AO=1169;CIGAR=1X;DP=1716;DPB=1716;DPRA=0;EPP=2541.46;EPPR=1190.81;GTI=3;LEN=1;MEANALT=1;MQM=40.4551;MQMR=18.6216;NS=21;NUMALT=1;ODDS=1.8767;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41828;QR=19603;RO=547;RPL=1169;RPP=2541.46;RPPR=1190.81;RPR=0;RUN=1;SAF=0;SAP=2541.46;SAR=1169;SRF=0;SRP=1190.81;SRR=547;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:26,37:26:932:37:1320:-95.8588,0,-27.3275 0/1:58:24,34:24:856:34:1220:-83.4644,0,-13.6305 0/1:88:58,30:58:2080:30:1080:-67.0205,0,-75.7473 1/1:104:0,104:0:0:104:3724:-322.626,-31.3071,0 1/1:208:0,208:0:0:208:7422:-643.834,-62.6142,0 1/1:104:0,104:0:0:104:3724:-311.915,-31.3071,0 0/1:127:55,72:55:1972:72:2588:-178.06,0,-31.9053 0/0:118:117,1:117:4212:1:36:0,-32.067,-183.851 0/1:133:57,76:57:2016:76:2713:-196.959,0,-69.8607 0/1:6:3,3:3:108:3:108:-7.86639,0,-3.03094 0/1:4:2,2:2:72:2:72:-5.23232,0,-1.26196 0/1:12:6,6:6:216:6:216:-15.3873,0,-5.61401 0/1:137:86,51:86:3079:51:1830:-117.271,0,-108.81 0/1:104:56,48:56:2008:48:1724:-118.335,0,-68.7756 1/1:103:0,103:0:0:103:3670:-319.233,-31.0061,0 1/1:73:0,73:0:0:73:2609:-227.652,-21.9752,0 1/1:46:0,46:0:0:46:1640:-144.35,-13.8474,0 0/1:58:35,23:35:1260:23:820:-53.1078,0,-38.9715 0/1:60:22,38:22:792:38:1368:-100.894,0,-20.9005 1/1:67:0,67:0:0:67:2396:-206.825,-20.169,0 1/1:43:0,43:0:0:43:1548:-129.475,-12.9443,0 chr03 15551648 . G A 8860.89 PASS AB=0.529842;ABP=9.36073;AC=15;AF=0.357143;AN=42;AO=507;CIGAR=1X;DP=1554;DPB=1554;DPRA=0.835052;EPP=1103.95;EPPR=2274.37;GTI=0;LEN=1;MEANALT=1;MQM=58.3057;MQMR=59.9809;NS=21;NUMALT=1;ODDS=4.36707;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17974;QR=37286;RO=1046;RPL=0;RPP=1103.95;RPPR=2274.37;RPR=507;RUN=1;SAF=507;SAP=1103.95;SAR=0;SRF=1046;SRP=2274.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:63,65:63:2253:65:2324:-170.75,0,-164.499 0/1:76:28,48:28:1000:48:1693:-129.74,0,-67.4371 0/1:64:37,27:37:1305:27:926:-64.2742,0,-98.4835 0/0:54:54,0:54:1906:0:0:0,-16.2556,-171.814 0/0:186:185,0:185:6633:0:0:0,-55.6905,-596.685 0/0:124:124,0:124:4452:0:0:0,-37.3277,-400.849 0/1:125:70,55:70:2474:55:1961:-139.079,0,-185.283 1/1:59:0,59:0:0:59:2082:-187.467,-17.7608,0 0/1:167:54,113:54:1917:113:3986:-308.189,0,-122.533 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:9:6,3:6:216:3:104:-6.99354,0,-17.0812 0/1:22:12,10:12:432:10:352:-25.3955,0,-32.5985 0/1:78:34,44:34:1216:44:1566:-117.073,0,-86.2662 0/1:36:16,20:16:576:20:716:-53.3615,0,-41.3379 0/0:80:79,1:79:2817:1:36:0,-20.4846,-250.17 0/0:48:48,0:48:1713:0:0:0,-14.4494,-154.454 0/0:69:69,0:69:2434:0:0:0,-20.7711,-219.313 0/1:57:30,27:30:1042:27:972:-70.6346,0,-76.9253 0/1:59:36,23:36:1292:23:828:-56.084,0,-98.823 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.302 0/0:38:38,0:38:1352:0:0:0,-11.4391,-121.98 chr03 15551695 . C T 8702.12 PASS AB=0.523926;ABP=7.06283;AC=15;AF=0.357143;AN=42;AO=494;CIGAR=1X;DP=1545;DPB=1545;DPRA=0.818259;EPP=1075.72;EPPR=2283.06;GTI=0;LEN=1;MEANALT=1;MQM=58.3826;MQMR=59.9743;NS=21;NUMALT=1;ODDS=4.24288;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17644;QR=37002;RO=1050;RPL=494;RPP=1075.72;RPPR=2283.06;RPR=0;RUN=1;SAF=494;SAP=1075.72;SAR=0;SRF=1050;SRP=2283.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:60,65:60:2105:65:2323:-171.562,0,-152.087 0/1:73:27,46:27:964:46:1640:-125.877,0,-65.1016 0/1:64:36,28:36:1264:28:1008:-71.6185,0,-94.7939 0/0:54:54,0:54:1931:0:0:0,-16.2556,-174.066 0/0:184:183,0:183:6439:0:0:0,-55.0885,-579.241 0/0:126:126,0:126:4450:0:0:0,-37.9298,-400.673 0/1:124:70,54:70:2467:54:1940:-137.25,0,-184.955 1/1:54:0,54:0:0:54:1936:-174.363,-16.2556,0 0/1:166:56,110:56:1977:110:3930:-303.698,0,-128.232 1/1:12:0,12:0:0:12:423:-38.4051,-3.61236,0 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 0/1:22:12,10:12:423:10:352:-25.3955,0,-31.7824 0/1:80:36,44:36:1260:44:1565:-116.332,0,-89.6172 0/1:35:17,18:17:604:18:644:-47.2039,0,-44.1546 0/0:78:77,1:77:2703:1:36:0,-19.8825,-239.916 0/0:49:49,0:49:1739:0:0:0,-14.7505,-156.793 0/0:68:68,0:68:2409:0:0:0,-20.47,-217.066 0/1:57:30,27:30:1046:27:959:-69.4648,0,-77.2837 0/1:60:38,22:38:1336:22:780:-52.4027,0,-102.475 0/0:68:68,0:68:2377:0:0:0,-20.47,-214.181 0/0:37:37,0:37:1296:0:0:0,-11.1381,-116.938 chr03 15897846 . AGAAC TGAAC,TGAAT 49125.9 PASS AB=0.38561,0.611156;ABP=143.601,135.765;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1329,1006;CIGAR=1X4M,1X3M1X;DP=2352;DPB=2352.4;DPRA=0.456897,1.28186;EPP=2888.9,2187.51;EPPR=13.8677;GTI=0;LEN=1,5;MEANALT=2.25,2.3125;MQM=59.9834,59.9225;MQMR=60;NS=21;NUMALT=2;ODDS=16.3858;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=47482,35154;QR=134;RO=5;RPL=1327,1005;RPP=2871.55,2178.83;RPPR=13.8677;RPR=2,1;RUN=1,1;SAF=1327,1005;SAP=2871.55,2178.83;SAR=2,1;SRF=5;SRP=13.8677;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:149:0,46,102:0:0:46,102:1637,3596:-426.339,-292.924,-279.076,-133.546,0,-102.841 1/2:99:0,49,50:0:0:49,50:1753,1749:-285.59,-142.64,-127.89,-143.303,0,-128.251 1/2:98:1,21,76:1:30:21,76:747,2659:-274.549,-213.972,-210.048,-58.5341,0,-38.0519 1/1:102:1,97,0:1:27:97,0:3484,0:-310.999,-27.0891,0,-311.3,-29.1999,-313.428 1/1:156:1,148,5:1:28:148,5:5279,176:-472.399,-42.3401,0,-458.372,-30.1795,-459.085 1/1:130:0,130,0:0:0:130,0:4647,0:-418.333,-39.1339,0,-418.333,-39.1339,-418.333 1/2:233:0,96,137:0:0:96,137:3433,4779:-668.964,-389.034,-360.135,-280.284,0,-239.043 2/2:232:0,0,232:0:0:0,232:0,8071:-726.433,-726.433,-726.433,-69.839,-69.839,0 1/2:169:0,55,113:0:0:55,113:1976,3924:-480.185,-318.983,-302.427,-161.197,0,-127.181 1/2:16:0,8,8:0:0:8,8:280,282:-46.093,-23.3131,-20.9048,-23.1311,0,-20.7228 2/2:12:1,1,10:1:27:1,10:36,338:-27.5086,-24.8697,-26.6918,-0.92645,-0.027958,0 1/2:54:0,31,22:0:0:31,22:1108,784:-154.362,-64.0164,-54.6845,-90.4555,0,-83.8328 1/2:117:0,46,71:0:0:46,71:1656,2474:-336.668,-201.542,-187.695,-135.481,0,-114.108 1/2:164:0,40,124:0:0:40,124:1401,4371:-470.223,-356.243,-344.202,-114.331,0,-77.0031 1/1:166:1,164,1:1:22:164,1:5854,36:-524.701,-47.7599,0,-522.065,-46.3616,-523.442 1/1:89:0,88,0:0:0:88,0:3142,0:-282.783,-26.4906,0,-282.783,-26.4906,-282.783 1/1:93:0,93,0:0:0:93,0:3336,0:-300.457,-27.9958,0,-300.457,-27.9958,-300.457 1/2:64:0,33,31:0:0:33,31:1180,1065:-183.046,-86.8219,-76.8879,-96.5741,0,-87.2421 1/2:74:0,52,22:0:0:52,22:1868,778:-216.111,-63.7201,-48.0665,-152.746,0,-146.123 1/1:88:0,85,2:0:0:85,2:3049,72:-274.281,-25.5876,0,-268.407,-19.7061,-267.804 1/1:47:0,46,0:0:0:46,0:1616,0:-145.367,-13.8474,0,-145.367,-13.8474,-145.367 chr03 15897913 . T C 28834.1 PASS AB=0.493558;ABP=3.37401;AC=28;AF=0.666667;AN=42;AO=1380;CIGAR=1X;DP=2015;DPB=2015;DPRA=0.841593;EPP=2930.56;EPPR=1325.93;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9906;MQMR=60;NS=21;NUMALT=1;ODDS=11.479;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49297;QR=22636;RO=633;RPL=1373;RPP=2939.15;RPPR=1325.93;RPR=7;RUN=1;SAF=1;SAP=2990.96;SAR=1379;SRF=0;SRP=1377.55;SRR=633;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:64,57:64:2281:57:2052:-148.527,0,-169.126 0/1:63:17,46:17:593:46:1648:-129.644,0,-34.7298 0/1:92:41,51:41:1464:51:1809:-135.395,0,-104.361 1/1:104:0,104:0:0:104:3707:-333.834,-31.3071,0 1/1:177:4,173:4:140:173:6184:-543.714,-40.3377,0 1/1:83:0,82:0:0:82:2935:-264.024,-24.6845,0 0/1:135:78,57:78:2800:57:2044:-143.593,0,-211.601 0/0:113:113,0:113:4052:0:0:0,-34.0164,-364.867 0/1:176:95,80:95:3377:80:2872:-205.676,0,-251.106 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:33:18,15:18:644:15:536:-38.6408,0,-48.3566 0/1:96:53,43:53:1885:43:1536:-109.634,0,-141.028 0/1:87:51,36:51:1836:36:1281:-89.4017,0,-139.331 1/1:239:0,239:0:0:239:8538:-768.419,-71.9462,0 1/1:72:1,71:1:36:71:2529:-224.262,-18.0759,0 1/1:92:2,90:2:72:90:3195:-280.932,-20.858,0 0/1:119:58,61:58:2088:61:2183:-160.914,0,-152.367 0/1:72:27,45:27:972:45:1616:-124.056,0,-66.1237 1/1:85:3,82:3:108:82:2921:-253.049,-15.5124,0 1/1:41:0,41:0:0:41:1459:-131.605,-12.3422,0 chr03 15942328 . A T 50509.1 PASS AB=0.541191;ABP=27.518;AC=28;AF=0.666667;AN=42;AO=2445;CIGAR=1X;DP=3373;DPB=3373;DPRA=1.07433;EPP=5312.26;EPPR=2013.79;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9562;MQMR=60;NS=21;NUMALT=1;ODDS=1.39403;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87004;QR=32942;RO=926;RPL=0;RPP=5312.26;RPPR=2013.79;RPR=2445;RUN=1;SAF=0;SAP=5312.26;SAR=2445;SRF=0;SRP=2013.79;SRR=926;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:165:82,83:82:2931:83:2956:-216.541,0,-214.354 0/1:202:88,114:88:3152:114:4054:-304.232,0,-223.097 0/1:166:79,87:79:2811:87:3116:-230.696,0,-203.259 1/1:247:0,247:0:0:247:8799:-791.9,-74.3544,0 1/1:364:7,357:7:252:357:12716:-1121.24,-86.546,0 1/1:160:4,156:4:144:156:5527:-484.245,-34.8512,0 0/1:164:65,99:65:2296:99:3502:-266.02,0,-157.531 0/0:150:150,0:150:5304:0:0:0,-45.1545,-477.497 0/1:256:114,142:114:4071:142:5088:-380.51,0,-289.513 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.974 0/1:19:7,12:7:248:12:428:-33.1392,0,-16.9446 0/1:142:70,72:70:2467:72:2542:-186.285,0,-179.536 0/1:157:74,83:74:2644:83:2956:-219.013,0,-190.945 0/1:242:122,120:122:4338:120:4279:-312.44,0,-317.748 1/1:212:0,212:0:0:212:7535:-678.194,-63.8184,0 1/1:161:3,158:3:108:158:5651:-498.635,-38.3907,0 1/1:224:0,224:0:0:224:7952:-715.704,-67.4307,0 0/1:59:29,30:29:1036:30:1074:-79.212,0,-75.7931 0/1:75:25,48:25:888:48:1708:-131.671,0,-57.9044 1/1:142:0,142:0:0:142:5042:-453.926,-42.7463,0 1/1:50:1,49:1:36:49:1719:-151.289,-11.4532,0 chr03 15942337 . T C 50929 PASS AB=0.541219;ABP=27.7137;AC=28;AF=0.666667;AN=42;AO=2454;CIGAR=1X;DP=3386;DPB=3386;DPRA=1.08624;EPP=5331.8;EPPR=2026.82;GTI=0;LEN=1;MEANALT=1;MQM=59.9377;MQMR=60;NS=21;NUMALT=1;ODDS=0.668045;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87599;QR=33395;RO=932;RPL=0;RPP=5331.8;RPPR=2026.82;RPR=2454;RUN=1;SAF=0;SAP=5331.8;SAR=2454;SRF=0;SRP=2026.82;SRR=932;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:169:84,85:84:3008:85:3027:-221.716,0,-220.077 0/1:204:88,116:88:3152:116:4105:-308.223,0,-222.495 0/1:164:79,85:79:2831:85:3044:-224.821,0,-205.659 1/1:244:0,244:0:0:244:8709:-783.801,-73.4513,0 1/1:365:7,358:7:252:358:12725:-1121.96,-86.847,0 1/1:165:4,161:4:144:161:5739:-503.313,-36.3563,0 0/1:165:65,100:65:2324:100:3549:-269.947,0,-159.75 0/0:149:149,0:149:5352:0:0:0,-44.8535,-481.81 0/1:255:114,141:114:4081:141:5046:-377.031,0,-290.712 0/1:16:6,10:6:212:10:356:-27.5648,0,-14.6083 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 0/1:143:69,74:69:2467:74:2660:-196.598,0,-179.236 0/1:157:76,81:76:2720:81:2882:-212.355,0,-197.782 0/1:246:126,120:126:4516:120:4299:-313.033,0,-332.554 1/1:211:0,211:0:0:211:7556:-680.078,-63.5173,0 1/1:161:3,158:3:108:158:5680:-501.241,-38.3907,0 1/1:222:0,222:0:0:222:7971:-717.405,-66.8287,0 0/1:59:29,30:29:1044:30:1068:-78.6713,0,-76.514 0/1:77:25,52:25:896:52:1854:-143.96,0,-57.781 1/1:144:0,144:0:0:144:5126:-461.475,-43.3483,0 1/1:51:1,50:1:36:50:1771:-155.966,-11.7543,0 chr03 15942364 . A G 51743.3 PASS AB=0.544266;ABP=31.6549;AC=28;AF=0.666667;AN=42;AO=2478;CIGAR=1X;DP=3410;DPB=3410;DPRA=1.08667;EPP=5357.89;EPPR=2007.32;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9657;MQMR=60;NS=21;NUMALT=1;ODDS=0.17456;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=88568;QR=33262;RO=931;RPL=2475;RPP=5357.89;RPPR=2007.32;RPR=3;RUN=1;SAF=0;SAP=5383.92;SAR=2478;SRF=0;SRP=2024.65;SRR=931;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:84,84:84:3016:84:2997:-219.381,0,-221.097 0/1:207:87,119:87:3100:119:4236:-319.187,0,-217.002 0/1:164:77,87:77:2756:87:3104:-230.217,0,-198.913 1/1:249:0,249:0:0:249:8905:-801.43,-74.9565,0 1/1:367:7,360:7:252:360:12841:-1132.39,-87.4491,0 1/1:165:5,160:5:180:160:5728:-499.083,-33.1179,0 0/1:167:65,102:65:2328:102:3643:-277.798,0,-159.508 0/0:150:150,0:150:5368:0:0:0,-45.1545,-483.252 0/1:255:115,140:115:4097:140:5024:-375.542,0,-292.15 0/1:16:6,10:6:212:10:360:-27.9278,0,-14.6083 0/1:19:7,12:7:252:12:428:-33.1392,0,-17.3094 0/1:143:69,74:69:2450:74:2622:-193.179,0,-177.704 0/1:157:76,81:76:2732:81:2878:-211.993,0,-198.861 0/1:251:127,124:127:4533:124:4442:-324.392,0,-332.578 1/1:214:0,214:0:0:214:7667:-690.064,-64.4204,0 1/1:163:2,161:2:72:161:5764:-512.039,-42.2312,0 1/1:226:0,226:0:0:226:8074:-726.679,-68.0328,0 0/1:59:28,31:28:993:31:1112:-82.6306,0,-71.9217 0/1:77:25,52:25:885:52:1856:-144.14,0,-56.7872 1/1:142:0,142:0:0:142:5104:-459.496,-42.7463,0 1/1:51:1,50:1:36:50:1783:-157.142,-11.7543,0 chr03 16960699 . C A 8115.64 PASS AB=0.472932;ABP=9.24081;AC=14;AF=0.333333;AN=42;AO=525;CIGAR=1X;DP=2056;DPB=2056;DPRA=0.977149;EPP=1143.03;EPPR=3327.53;GTI=2;LEN=1;MEANALT=1;MQM=40.2057;MQMR=56.7583;NS=21;NUMALT=1;ODDS=6.50035;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18797;QR=54612;RO=1531;RPL=525;RPP=1143.03;RPPR=3327.53;RPR=0;RUN=1;SAF=0;SAP=1143.03;SAR=525;SRF=0;SRP=3327.53;SRR=1531;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:58,45:58:2065:45:1616:-107.737,0,-154.988 0/1:91:39,52:39:1381:52:1856:-134.611,0,-96.9665 0/1:60:36,24:36:1273:24:864:-56.2304,0,-96.6659 0/0:153:153,0:153:5427:0:0:0,-46.0576,-487.918 0/0:270:269,1:269:9604:1:36:0,-77.8545,-859.421 0/0:151:149,2:149:5337:2:72:0,-38.8422,-472.715 0/1:180:97,83:97:3492:83:2968:-203.378,0,-259.431 1/1:54:0,54:0:0:54:1925:-166.752,-16.2556,0 0/1:185:91,94:91:3260:94:3360:-240.103,0,-237.703 0/1:11:9,2:9:324:2:72:-3.2522,0,-26.1881 0/1:6:4,2:4:144:2:72:-4.80714,0,-11.4937 0/1:34:15,19:15:532:19:684:-49.2059,0,-37.9557 0/1:94:40,54:40:1410:54:1940:-136.091,0,-98.8603 0/1:98:58,40:58:2046:40:1436:-93.8459,0,-154.789 0/0:112:112,0:112:4005:0:0:0,-33.7154,-360.399 0/0:73:73,0:73:2597:0:0:0,-21.9752,-233.793 0/0:118:117,1:117:4162:1:32:0,-32.3629,-371.06 0/1:60:33,27:33:1188:27:972:-64.333,0,-89.1328 0/1:57:36,21:36:1284:21:752:-46.9755,0,-98.5218 0/0:85:81,4:81:2893:4:140:0,-13.0389,-247.904 0/0:61:61,0:61:2188:0:0:0,-18.3628,-196.713 chr03 16991481 . T A,G 25297.3 PASS AB=0.545603,0.454397;ABP=14.1011,14.1011;AC=28,14;AF=0.666667,0.333333;AN=42;AO=944,311;CIGAR=1X,1X;DP=1255;DPB=1255;DPRA=2.19107,0.952546;EPP=2052.88,678.338;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.65,1.92857;MQM=53.3125,37.2862;MQMR=0;NS=21;NUMALT=2;ODDS=0.804846;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32944,11104;QR=0;RO=0;RPL=0,0;RPP=2052.88,678.338;RPPR=0;RPR=944,311;RUN=1,1;SAF=944,311;SAP=2052.88,678.338;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:99:0,52,47:0:0:52,47:1836,1665:-272.807,-124.973,-109.319,-148.172,0,-134.024 1/2:38:0,19,19:0:0:19,19:664,684:-104.958,-51.8341,-46.1146,-53.4627,0,-47.7432 1/2:51:0,20,31:0:0:20,31:704,1116:-141.738,-84.485,-78.4644,-57.5984,0,-48.2664 1/1:31:0,31,0:0:0:31,0:1073,0:-96.4851,-9.33193,0,-96.4851,-9.33193,-96.4851 1/1:181:0,177,4:0:0:177,4:6105,144:-547.635,-53.2823,0,-536.644,-41.9523,-535.44 1/1:46:0,46,0:0:0:46,0:1624,0:-145.256,-13.8474,0,-145.256,-13.8474,-145.256 1/2:85:0,55,30:0:0:55,30:1901,1065:-232.077,-80.4086,-63.8519,-152.002,0,-142.971 2/2:28:0,0,28:0:0:0,28:0,1004:-85.1165,-85.1165,-85.1165,-8.42884,-8.42884,0 1/2:147:0,72,75:0:0:72,75:2498,2677:-403.213,-201.793,-180.119,-201.758,0,-179.18 1/2:7:0,4,3:0:0:4,3:144,108:-20.3437,-8.61579,-7.41167,-12.076,0,-11.1729 1/2:4:0,3,1:0:0:3,1:108,36:-11.834,-3.04512,-2.14203,-9.12945,0,-8.82842 1/2:25:0,16,9:0:0:16,9:560,320:-70.2971,-24.9902,-20.1737,-45.6484,0,-42.9391 1/2:67:0,41,26:0:0:41,26:1441,932:-187.973,-71.1566,-58.8144,-117.158,0,-109.332 1/2:57:0,30,27:0:0:30,27:1052,957:-156.958,-72.6379,-63.607,-84.6585,0,-76.5307 1/1:76:0,76,0:0:0:76,0:2615,0:-235.148,-22.8783,0,-235.148,-22.8783,-235.148 1/1:81:0,81,0:0:0:81,0:2852,0:-255.418,-24.3834,0,-255.418,-24.3834,-255.418 1/1:88:0,88,0:0:0:88,0:3090,0:-277.528,-26.4906,0,-277.528,-26.4906,-277.528 1/2:17:0,12,5:0:0:12,5:420,180:-48.2661,-14.1772,-10.5648,-34.4322,0,-32.9271 1/2:17:0,11,6:0:0:11,6:384,216:-47.8636,-16.6632,-13.3519,-31.5407,0,-29.7345 1/1:88:0,88,0:0:0:88,0:3085,0:-277.349,-26.4906,0,-277.349,-26.4906,-277.349 1/1:22:0,22,0:0:0:22,0:788,0:-70.7663,-6.62266,0,-70.7663,-6.62266,-70.7663 chr03 16991491 . C T 4419.57 PASS AB=0.456911;ABP=12.9285;AC=14;AF=0.333333;AN=42;AO=313;CIGAR=1X;DP=1261;DPB=1261;DPRA=0.952765;EPP=674.023;EPPR=2052.89;GTI=1;LEN=1;MEANALT=1;MQM=37.2907;MQMR=53.462;NS=21;NUMALT=1;ODDS=0.843671;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11186;QR=33678;RO=948;RPL=1;RPP=674.023;RPPR=2052.89;RPR=312;RUN=1;SAF=313;SAP=682.681;SAR=0;SRF=948;SRP=2061.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:50,47:50:1788:47:1684:-111.391,0,-131.733 0/1:38:19,19:19:672:19:680:-45.8743,0,-48.449 0/1:54:22,32:22:792:32:1139:-79.6756,0,-55.267 0/0:31:31,0:31:1074:0:0:0,-9.33193,-96.7349 0/0:184:180,4:180:6413:4:144:0,-42.8554,-562.183 0/0:46:46,0:46:1648:0:0:0,-13.8474,-147.478 0/1:83:52,31:52:1856:31:1116:-68.6009,0,-140.003 1/1:28:0,28:0:0:28:1000:-85.0752,-8.42884,0 0/1:145:71,74:71:2535:74:2651:-177.643,0,-183.676 0/1:7:4,3:4:144:3:108:-7.41167,0,-11.1729 0/1:5:4,1:4:131:1:36:-1.841,0,-10.5715 0/1:25:16,9:16:572:9:320:-20.1737,0,-44.0057 0/1:68:42,26:42:1496:26:936:-58.7383,0,-113.972 0/1:59:31,28:31:1095:28:976:-64.888,0,-80.3688 0/0:81:81,0:81:2892:0:0:0,-24.3834,-259.981 0/0:82:82,0:82:2892:0:0:0,-24.6845,-259.16 0/0:88:88,0:88:3067:0:0:0,-26.4906,-275.877 0/1:17:12,5:12:432:5:180:-10.5648,0,-33.9714 0/1:17:11,6:11:387:6:216:-13.3519,0,-30.0015 0/0:87:87,0:87:3116:0:0:0,-26.1896,-280.083 0/0:19:19,0:19:676:0:0:0,-5.71957,-60.9661 chr03 16991499 . ATTATATAC AATATGT,AATATAT 24673.4 PASS AB=0.542571,0.45409;ABP=12.4393,13.9764;AC=28,14;AF=0.666667,0.333333;AN=42;AO=916,303;CIGAR=1M2D4M2X,1M2D5M1X;DP=1225;DPB=952.778;DPRA=2.21852,0.961814;EPP=1992.08,660.966;EPPR=0;GTI=2;LEN=7,7;MEANALT=1.95,2.14286;MQM=53.6288,37.3135;MQMR=0;NS=21;NUMALT=2;ODDS=0.600785;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32098,10661;QR=0;RO=0;RPL=916,303;RPP=1992.08,660.966;RPPR=0;RPR=0,0;RUN=1,1;SAF=916,303;SAP=1992.08,660.966;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:95:0,50,45:0:0:50,45:1734,1583:-260.232,-119.634,-104.583,-140.934,0,-127.387 1/2:37:0,18,19:0:0:18,19:618,680:-101.103,-51.5939,-46.1753,-49.8457,0,-44.1261 1/2:52:0,22,30:0:0:22,30:770,1055:-142.848,-80.2639,-73.6413,-62.9246,0,-53.8937 1/1:30:0,29,0:0:0:29,0:1011,0:-90.7413,-8.72987,0,-90.7413,-8.72987,-90.7413 1/1:180:0,175,4:0:0:175,4:6092,144:-546.758,-52.6803,0,-535.767,-41.6403,-534.563 1/1:43:0,43,0:0:0:43,0:1516,0:-135.782,-12.9443,0,-135.782,-12.9443,-135.782 1/2:79:0,49,30:0:0:49,30:1717,1043:-218.497,-79.3037,-64.5533,-139.528,0,-130.498 2/2:27:0,0,27:0:0:0,27:0,940:-80.7461,-80.7461,-80.7461,-8.12781,-8.12781,0 1/2:143:0,68,73:0:0:68,73:2371,2567:-386.684,-194.088,-173.618,-192.682,0,-170.707 1/2:7:0,4,3:0:0:4,3:144,108:-20.3437,-8.61579,-7.41167,-12.076,0,-11.1729 1/2:4:0,3,1:0:0:3,1:104,36:-11.4734,-3.04512,-2.14203,-8.76557,0,-8.46454 1/2:23:0,15,8:0:0:15,8:536,288:-65.9306,-22.4855,-17.97,-43.7911,0,-41.3828 1/2:69:0,42,27:0:0:42,27:1491,948:-193.664,-72.6538,-60.0105,-121.35,0,-113.223 1/2:57:0,31,26:0:0:31,26:1067,913:-155.682,-69.4549,-60.123,-86.5621,0,-78.7353 1/1:74:0,74,0:0:0:74,0:2615,0:-235.222,-22.2762,0,-235.222,-22.2762,-235.222 1/1:81:0,79,0:0:0:79,0:2781,0:-250.028,-23.7814,0,-250.028,-23.7814,-250.028 1/1:81:0,81,0:0:0:81,0:2891,0:-259.73,-24.3834,0,-259.73,-24.3834,-259.73 1/2:16:0,12,4:0:0:12,4:432,140:-46.2539,-11.1167,-7.50437,-35.4766,0,-34.2725 1/2:17:0,11,6:0:0:11,6:396,216:-48.9395,-16.6632,-13.3519,-32.6204,0,-30.8142 1/1:88:0,88,0:0:0:88,0:3050,0:-274.22,-26.4906,0,-274.22,-26.4906,-274.22 1/1:22:0,22,0:0:0:22,0:762,0:-68.6781,-6.62266,0,-68.6781,-6.62266,-68.6781 chr03 17999851 . A G 16420.2 PASS AB=0.45262;ABP=37.9911;AC=14;AF=0.333333;AN=42;AO=960;CIGAR=1X;DP=3464;DPB=3464;DPRA=0.996448;EPP=2078.95;EPPR=5373.23;GTI=1;LEN=1;MEANALT=1.1875;MQM=59.9312;MQMR=59.9904;NS=21;NUMALT=1;ODDS=13.4013;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34269;QR=89638;RO=2501;RPL=1;RPP=2078.95;RPPR=5373.23;RPR=959;RUN=1;SAF=960;SAP=2087.62;SAR=0;SRF=2501;SRP=5433.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:91,87:91:3249:87:3120:-227.083,0,-238.687 0/1:140:59,81:59:2120:81:2900:-219.092,0,-148.924 0/1:163:89,74:89:3196:74:2616:-186.616,0,-238.795 0/0:279:279,0:279:9997:0:0:0,-83.9874,-899.664 0/0:285:284,1:284:10188:1:36:0,-82.1953,-913.248 0/0:185:182,3:182:6525:3:108:0,-45.6154,-577.255 0/1:346:220,126:220:7881:126:4496:-300.649,0,-605.157 1/1:142:0,142:0:0:142:5083:-457.561,-42.7463,0 0/1:300:156,144:156:5585:144:5146:-372.969,0,-412.192 0/1:13:4,8:4:144:8:288:-22.3307,0,-9.37335 0/1:6:4,2:4:144:2:68:-4.65153,0,-11.5074 0/1:34:20,14:20:720:14:500:-35.1012,0,-54.8938 0/1:202:111,90:111:3984:90:3232:-230.23,0,-297.882 0/1:227:117,110:117:4162:110:3904:-283.215,0,-306.428 0/0:194:194,0:194:6938:0:0:0,-58.3998,-624.483 0/0:131:131,0:131:4700:0:0:0,-39.4349,-423.159 0/0:145:145,0:145:5212:0:0:0,-43.6493,-469.216 0/1:67:38,29:38:1368:29:1032:-73.0199,0,-103.252 0/1:117:70,47:70:2516:47:1668:-115.185,0,-191.471 0/0:231:229,2:229:8209:2:72:0,-62.7012,-731.982 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.24 chr03 17999909 . TAAT CAAC,CAAT 45271.7 PASS AB=0.551037,0.446473;ABP=30.2735,32.9982;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1548,643;CIGAR=1X2M1X,1X3M;DP=2199;DPB=2199;DPRA=1.00721,1.14206;EPP=3364.45,1399.27;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.95,2.30769;MQM=59.9884,60;MQMR=0;NS=21;NUMALT=2;ODDS=11.9454;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53702,22867;QR=0;RO=0;RPL=0,0;RPP=3364.45,1399.27;RPPR=0;RPR=1548,643;RUN=1,1;SAF=0,0;SAP=3364.45,1399.27;SAR=1548,643;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:125:0,67,57:0:0:67,57:2286,2002:-348.486,-163.001,-142.832,-185.54,0,-168.382 1/2:51:0,22,29:0:0:22,29:756,1035:-146.118,-84.7332,-78.1105,-61.7336,0,-53.0037 1/2:141:0,90,51:0:0:90,51:3125,1807:-401.587,-147.558,-120.465,-254.381,0,-239.029 1/1:87:0,87,0:0:0:87,0:3014,0:-271.494,-26.1896,0,-271.494,-26.1896,-271.494 1/1:111:0,111,0:0:0:111,0:3859,0:-347.511,-33.4143,0,-347.511,-33.4143,-347.511 1/1:120:0,116,1:0:0:116,1:3996,36:-359.51,-34.9195,0,-356.572,-31.9712,-356.271 1/2:119:0,44,74:0:0:44,74:1557,2651:-343.13,-216.309,-203.063,-126.924,0,-104.648 2/2:104:0,0,104:0:0:0,104:0,3720:-335.002,-335.002,-335.002,-31.3071,-31.3071,0 1/2:201:0,114,87:0:0:114,87:3894,3101:-569.118,-253.127,-218.809,-316.342,0,-290.152 1/2:25:0,16,9:0:0:16,9:556,324:-71.9914,-26.7966,-21.9801,-45.5502,0,-42.8409 1/1:4:0,3,0:0:0:3,0:100,0:-9.02185,-0.90309,0,-9.02185,-0.90309,-9.02185 1/2:45:0,16,29:0:0:16,29:547,1040:-129.572,-85.1845,-80.368,-44.7353,0,-36.0054 1/2:104:0,59,45:0:0:59,45:2070,1609:-300.009,-131.554,-113.793,-168.81,0,-155.263 1/2:151:0,90,61:0:0:90,61:3113,2173:-430.429,-177.472,-150.379,-253.309,0,-234.946 1/1:194:0,194,0:0:0:194,0:6756,0:-608.133,-58.3998,0,-608.133,-58.3998,-608.133 1/1:91:0,91,0:0:0:91,0:3158,0:-284.448,-27.3937,0,-284.448,-27.3937,-284.448 1/1:116:0,116,0:0:0:116,0:4059,0:-365.503,-34.9195,0,-365.503,-34.9195,-365.503 1/2:140:0,70,69:0:0:70,69:2409,2419:-392.479,-196.832,-175.76,-195.635,0,-174.864 1/2:103:0,76,27:0:0:76,27:2652,950:-293.383,-77.6856,-54.8073,-216.049,0,-207.921 1/1:107:0,106,0:0:0:106,0:3712,0:-333.926,-31.9092,0,-333.926,-31.9092,-333.926 1/1:60:0,60,0:0:0:60,0:2083,0:-187.74,-18.0618,0,-187.74,-18.0618,-187.74 chr03 17999914 . G A 10424.6 PASS AB=0.437659;ABP=42.8096;AC=13;AF=0.309524;AN=42;AO=619;CIGAR=1X;DP=2164;DPB=2164;DPRA=1.10534;EPP=1347.15;EPPR=3338.4;GTI=0;LEN=1;MEANALT=1.21429;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=14.2105;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22007;QR=54788;RO=1540;RPL=0;RPP=1347.15;RPPR=3347.08;RPR=619;RUN=1;SAF=0;SAP=1347.15;SAR=619;SRF=1;SRP=3338.4;SRR=1539;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:67,54:67:2400:54:1919:-136.562,0,-179.832 0/1:51:22,29:22:788:29:1036:-78.2014,0,-55.8923 0/1:137:89,48:89:3179:48:1705:-112.493,0,-245.093 0/0:87:87,0:87:3081:0:0:0,-26.1896,-277.516 0/0:111:111,0:111:3941:0:0:0,-33.4143,-354.883 0/0:120:119,1:119:4235:1:32:0,-32.9243,-378.13 0/1:115:42,71:42:1508:71:2524:-193.035,0,-101.638 1/1:101:0,101:0:0:101:3607:-324.836,-30.404,0 0/1:195:111,83:111:3957:83:2966:-208.412,0,-297.561 0/1:25:16,9:16:576:9:324:-21.9801,0,-44.6492 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:45:16,29:16:576:29:1029:-79.3764,0,-38.6286 0/1:107:60,46:60:2139:46:1630:-114.767,0,-160.557 0/1:149:90,59:90:3215:59:2095:-143.966,0,-244.719 0/0:189:189,0:189:6712:0:0:0,-56.8947,-604.152 0/0:90:89,1:89:3162:1:27:0,-24.3929,-282.103 0/0:117:117,0:117:4162:0:0:0,-35.2205,-374.764 0/1:133:70,63:70:2484:63:2225:-160.477,0,-183.775 0/1:101:76,25:76:2704:25:888:-49.835,0,-213.198 0/0:106:105,0:105:3718:0:0:0,-31.6081,-334.469 0/0:60:60,0:60:2111:0:0:0,-18.0618,-190.254 chr03 18186189 . T C 56230.2 PASS AB=0.522099;ABP=22.9734;AC=23;AF=0.547619;AN=42;AO=2546;CIGAR=1X;DP=4796;DPB=4796;DPRA=0;EPP=1631.98;EPPR=2166.76;GTI=0;LEN=1;MEANALT=1.19048;MQM=55.2891;MQMR=59.8963;NS=21;NUMALT=1;ODDS=4.7827;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91015;QR=80408;RO=2246;RPL=582;RPP=1631.98;RPPR=2166.76;RPR=1964;RUN=1;SAF=2546;SAP=5531.58;SAR=0;SRF=2246;SRP=4880.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:298:103,195:103:3692:195:6981:-538.144,0,-242.775 0/1:175:71,104:71:2548:104:3712:-281.271,0,-176.889 0/1:161:56,105:56:2012:105:3729:-287.081,0,-132.03 0/1:453:222,231:222:7929:231:8253:-605.382,0,-577.258 0/1:705:430,274:430:15379:274:9772:-666.102,0,-1171.7 0/1:227:88,139:88:3149:139:4972:-378.65,0,-215.3 0/1:289:126,163:126:4498:163:5812:-435.624,0,-317.859 1/1:77:0,77:0:0:77:2763:-248.869,-23.1793,0 0/1:307:105,202:105:3760:202:7220:-556.909,0,-246.172 1/1:13:1,12:1:36:12:432:-35.5858,-0.315115,0 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:72:25,47:25:900:47:1673:-129.051,0,-59.6469 0/1:160:59,101:59:2120:101:3616:-277.22,0,-142.904 0/1:187:59,128:59:2120:128:4558:-353.814,0,-134.775 0/1:476:240,235:240:8567:235:8456:-616.703,0,-627.767 0/1:257:131,126:131:4685:126:4513:-328.402,0,-344.436 0/1:417:248,168:248:8881:168:6020:-415.568,0,-673.52 0/1:93:47,46:47:1688:46:1631:-118.963,0,-124.21 0/1:78:45,33:45:1612:33:1175:-82.4314,0,-121.889 0/1:252:135,116:135:4856:116:4160:-298.278,0,-361.412 0/1:91:53,38:53:1904:38:1351:-94.3213,0,-144.244 chr03 18186193 . T G 37213 PASS AB=0.477916;ABP=22.7677;AC=20;AF=0.47619;AN=42;AO=2229;CIGAR=1X;DP=4735;DPB=4735;DPRA=3.28451;EPP=4834.54;EPPR=5416.52;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8609;MQMR=55.2846;NS=21;NUMALT=1;ODDS=2.8149;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79544;QR=89701;RO=2505;RPL=2228;RPP=4834.54;RPPR=5416.52;RPR=1;RUN=1;SAF=2229;SAP=4843.22;SAR=0;SRF=2505;SRP=5442.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:295:193,102:193:6923:102:3638:-238.82,0,-533.833 0/1:172:104,68:104:3710:68:2436:-167.718,0,-281.983 0/1:162:105,57:105:3748:57:2040:-133.915,0,-288.266 0/1:446:228,218:228:8139:218:7803:-568.038,0,-597.247 0/1:694:272,421:272:9755:421:15009:-1141.08,0,-667.762 0/1:229:138,91:138:4942:91:3260:-224.685,0,-375.353 0/1:287:160,127:160:5725:127:4512:-319.834,0,-428.416 0/0:71:71,0:71:2556:0:0:0,-21.3731,-230.29 0/1:303:199,104:199:7108:104:3691:-241.177,0,-548.043 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.4051 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:71:46,25:46:1652:25:896:-59.5872,0,-127.468 0/1:158:98,60:98:3508:60:2140:-145.305,0,-268.114 0/1:181:123,58:123:4424:58:2052:-130.462,0,-343.549 0/1:471:235,236:235:8423:236:8439:-617.705,0,-615.223 0/1:259:128,131:128:4571:131:4674:-342.845,0,-333.02 0/1:413:164,249:164:5884:249:8897:-676.215,0,-404.594 0/1:88:44,44:44:1572:44:1562:-114.38,0,-115.157 0/1:78:33,45:33:1173:45:1620:-122.609,0,-82.2477 0/1:249:112,137:112:4024:137:4867:-363.225,0,-286.886 0/1:89:36,53:36:1288:53:1900:-144.486,0,-89.2625 chr03 18522329 . CGTA TATG,CATG 84888.2 PASS AB=0.48902,0.507766;ABP=4.96544,3.98845;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2914,1120;CIGAR=2X1M1X,1M1X1M1X;DP=4043;DPB=4043;DPRA=1.19784,1.07895;EPP=6330.68,2435.06;EPPR=5.18177;GTI=1;LEN=4,4;MEANALT=2.1,2.3125;MQM=49.1507,59.4652;MQMR=60;NS=21;NUMALT=2;ODDS=9.95628;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=102995,39289;QR=29;RO=1;RPL=2913,1119;RPP=6322,2426.38;RPPR=5.18177;RPR=1,1;RUN=1,1;SAF=2913,1119;SAP=6322,2426.38;SAR=1,1;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:225:0,104,118:0:0:104,118:3684,4119:-633.17,-334.971,-303.663,-298.226,0,-262.704 1/2:187:0,104,83:0:0:104,83:3701,2914:-535.963,-237.44,-206.133,-298.874,0,-273.889 1/2:147:0,63,84:0:0:63,84:2222,2962:-421.136,-241.504,-222.539,-179.983,0,-154.697 1/1:176:0,176,0:0:0:176,0:6225,0:-555.498,-52.9813,0,-555.498,-52.9813,-555.498 1/1:454:0,450,3:0:0:450,3:15825,108:-1413.65,-135.464,0,-1404.85,-126.587,-1403.95 1/1:254:0,254,0:0:0:254,0:9020,0:-804.008,-76.4616,0,-804.008,-76.4616,-804.008 1/2:349:1,157,191:1:29:157,191:5514,6708:-987.47,-542.755,-497.802,-442.767,0,-387.579 2/2:162:0,0,162:0:0:0,162:0,5702:-513.256,-513.256,-513.256,-48.7669,-48.7669,0 1/2:379:0,198,181:0:0:198,181:7009,6308:-1080.78,-513.296,-453.692,-567.836,0,-513.349 1/2:13:0,9,4:0:0:9,4:322,141:-37.975,-11.8328,-9.12352,-26.4958,0,-25.2917 1/2:9:0,1,8:0:0:1,8:36,281:-26.1348,-23.2142,-22.9132,-3.27774,0,-0.869497 1/2:37:0,21,16:0:0:21,16:754,568:-107.587,-46.6215,-40.2998,-61.3207,0,-56.5042 1/2:224:0,107,116:0:0:107,116:3806,4086:-640.776,-332.68,-300.469,-308.149,0,-273.23 1/2:175:0,90,85:0:0:90,85:3162,2977:-498.224,-242.445,-215.353,-256.128,0,-230.541 1/1:312:0,311,1:0:0:311,1:10982,34:-979.649,-93.6203,0,-976.891,-90.5224,-976.59 1/1:200:0,200,0:0:0:200,0:7095,0:-635.51,-60.206,0,-635.51,-60.206,-635.51 1/1:203:0,202,0:0:0:202,0:7156,0:-639.531,-60.8081,0,-639.531,-60.8081,-639.531 1/2:60:0,31,29:0:0:31,29:1098,1015:-171.959,-82.921,-73.5891,-89.3887,0,-80.6588 1/2:62:0,28,33:0:0:28,33:1005,1159:-175.91,-94.3039,-85.8751,-81.6023,0,-71.6683 1/1:340:0,333,6:0:0:333,6:11725,207:-1047.04,-100.243,0,-1030.23,-83.4368,-1028.43 1/1:75:0,75,0:0:0:75,0:2654,0:-237.336,-22.5773,0,-237.336,-22.5773,-237.336 chr03 18565348 . T G 9075.22 PASS AB=0.460391;ABP=17.6318;AC=14;AF=0.333333;AN=42;AO=550;CIGAR=1X;DP=1920;DPB=1920;DPRA=1.08837;EPP=1171.4;EPPR=2958.41;GTI=2;LEN=1;MEANALT=1.06667;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.56024;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19415;QR=48950;RO=1369;RPL=547;RPP=1171.4;RPPR=2958.41;RPR=3;RUN=1;SAF=550;SAP=1197.32;SAR=0;SRF=1369;SRP=2975.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:53,76:53:1878:76:2710:-205.31,0,-130.465 0/1:77:47,30:47:1676:30:1054:-71.9899,0,-127.948 0/1:96:37,59:37:1328:59:2078:-158.391,0,-90.9234 0/0:101:101,0:101:3604:0:0:0,-30.404,-324.565 0/0:205:199,6:199:7116:6:207:0,-42.7443,-621.53 0/0:77:76,1:76:2724:1:36:0,-19.581,-241.805 0/1:114:70,44:70:2512:44:1525:-103.22,0,-192.014 1/1:49:0,49:0:0:49:1733:-156.253,-14.7505,0 0/1:150:82,68:82:2948:68:2387:-169.932,0,-220.398 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:36:19,17:19:684:17:612:-44.5764,0,-51.0532 0/1:168:92,76:92:3286:76:2683:-191.141,0,-245.386 0/1:125:69,55:69:2442:55:1959:-138.897,0,-182.345 0/0:74:74,0:74:2645:0:0:0,-22.2762,-238.295 0/0:56:56,0:56:2003:0:0:0,-16.8577,-180.543 0/0:66:66,0:66:2357:0:0:0,-19.868,-212.387 0/1:72:36,36:36:1280:36:1288:-94.5494,0,-93.8291 0/1:93:62,31:62:2211:31:1071:-68.7,0,-171.259 0/0:159:159,0:159:5704:0:0:0,-47.8638,-513.476 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 chr03 18613191 . CGGTTTA TGGTGTG,CGGTGTG 82687.8 PASS AB=0.475089,0.513642;ABP=12.098,5.73559;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2123,1027;CIGAR=1X3M1X1M1X,4M1X1M1X;DP=3188;DPB=3188.86;DPRA=0.965287,1.25009;EPP=4552.45,2198.5;EPPR=0;GTI=0;LEN=7,7;MEANALT=3.4,3.58824;MQM=56.0721,59.7186;MQMR=0;NS=21;NUMALT=2;ODDS=9.05529;PAIRED=0,0;PAIREDR=0;PAO=6,0;PQA=212,0;PQR=0;PRO=0;QA=73381,35880;QR=0;RO=0;RPL=784,457;RPP=318.068,30.0089;RPPR=0;RPR=1339,570;RUN=1,1;SAF=777,453;SAP=334.163,33.967;SAR=1346,574;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:218:0,104,111:0:0:104,111:3565,3894:-604.997,-316.49,-285.183,-288.553,0,-255.139 1/2:122:0,68,53:0:0:68,53:2365,1843:-342.128,-149.833,-129.363,-192.282,0,-176.328 1/2:99:0,47,49:0:0:47,49:1631,1708:-271.167,-138.903,-124.754,-132.289,0,-117.538 1/1:179:0,175,0:0:0:175,0:6025,0:-541.457,-52.6803,0,-541.457,-52.6803,-541.457 1/1:309:0,302,4:0:0:302,4:10433,144:-934.993,-90.9111,0,-923.243,-79.1329,-922.039 1/1:133:0,132,0:0:0:132,0:4532,0:-407.738,-39.736,0,-407.738,-39.736,-407.738 1/2:174:0,63,109:0:0:63,109:2152,3828:-486.172,-311.533,-292.568,-174.63,0,-141.818 2/2:157:0,0,153:0:0:0,153:0,5293:-476.156,-476.156,-476.156,-46.0576,-46.0576,0 1/2:318:0,150,166:0:0:150,166:5220,5805:-895.138,-472.227,-427.073,-422.912,0,-372.941 1/2:19:0,9,10:0:0:9,10:302,350:-53.2385,-28.8259,-26.1166,-24.7546,0,-21.7443 1/2:4:0,1,3:0:0:1,3:36,100:-11.3708,-8.42677,-8.12574,-3.29724,0,-2.39415 1/2:59:0,25,34:0:0:25,34:856,1201:-167.53,-98.1575,-90.6317,-69.719,0,-59.484 1/2:200:0,101,98:0:0:101,98:3511,3428:-563.347,-278.714,-248.31,-284.621,0,-255.12 1/2:183:0,86,91:0:0:86,91:2944,3164:-495.621,-257.257,-231.368,-238.401,0,-211.007 1/1:248:0,247,1:0:0:247,1:8585,36:-769.723,-74.3544,0,-766.786,-71.4131,-766.485 1/1:120:0,119,0:0:0:119,0:4117,0:-369.172,-35.8226,0,-369.172,-35.8226,-369.172 1/1:150:0,148,1:0:0:148,1:5076,36:-455.637,-44.5524,0,-452.7,-41.5651,-452.399 1/2:138:0,53,84:0:0:53,84:1841,2921:-386.06,-237.081,-221.127,-149.082,0,-123.796 1/2:152:0,94,58:0:0:94,58:3267,2057:-432.755,-167.938,-139.641,-265.169,0,-247.709 1/1:133:0,128,2:0:0:128,2:4464,72:-401.225,-38.5318,0,-395.35,-32.642,-394.748 1/1:73:0,71,0:0:0:71,0:2459,0:-221.252,-21.3731,0,-221.252,-21.3731,-221.252 chr03 18673127 . ACAGA GCAGA,TCAGG 40812.2 PASS AB=0.524499,0.46882;ABP=7.69178,10.5935;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1357,489;CIGAR=1X4M,1X3M1X;DP=1859;DPB=1871.4;DPRA=1.2971,0.667127;EPP=2686.59,1004.93;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=2.1,2.38462;MQM=59.6197,59.5726;MQMR=60;NS=21;NUMALT=2;ODDS=6.39357;PAIRED=0,0;PAIREDR=0;PAO=62,0;PQA=2224,0;PQR=0;PRO=0;QA=48314,17152;QR=36;RO=1;RPL=1326,482;RPP=2686.59,1004.93;RPPR=5.18177;RPR=31,7;RUN=1,1;SAF=0,0;SAP=2949.7,1064.86;SAR=1357,489;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:49:0,29,20:0:0:29,20:1032,693:-140.626,-56.6706,-47.9407,-84.3058,0,-78.2852 1/2:53:0,21,32:0:0:21,32:743,1110:-150.723,-90.2143,-83.8927,-60.5038,0,-50.8708 1/2:122:0,73,48:0:0:73,48:2620,1705:-352.726,-139.012,-117.037,-213.798,0,-199.348 1/1:99:0,99,0:0:0:99,0:3534,0:-317.899,-29.802,0,-317.899,-29.802,-317.899 1/1:204:0,203,0:0:0:203,0:7252,0:-652.082,-61.1091,0,-652.082,-61.1091,-652.082 1/1:82:0,80,0:0:0:80,0:2850,0:-256.362,-24.0824,0,-256.362,-24.0824,-256.362 1/2:103:0,55,48:0:0:55,48:1955,1702:-298.27,-138.979,-122.423,-159.645,0,-145.196 2/2:69:0,0,68:0:0:0,68:0,2406:-216.505,-216.505,-216.505,-20.47,-20.47,0 1/2:180:0,89,88:0:0:89,88:3184,3066:-508.956,-249.332,-222.54,-259.675,0,-233.184 1/2:4:0,3,1:0:0:3,1:104,36:-11.7405,-3.29724,-2.39415,-8.79971,0,-8.49868 1/2:9:0,5,4:0:0:5,4:180,143:-26.7058,-12.0173,-10.5122,-15.0469,0,-13.8428 1/2:29:0,11,18:0:0:11,18:396,617:-82.7451,-50.427,-47.1157,-32.6714,0,-27.2529 1/2:102:0,47,55:0:0:47,55:1676,1943:-295.2,-158.582,-144.434,-136.973,0,-120.416 1/2:77:0,30,46:0:0:30,46:1080,1576:-215.96,-127.831,-118.8,-88.1238,0,-74.2764 1/1:142:0,139,0:0:0:139,0:4898,0:-440.538,-41.8432,0,-440.538,-41.8432,-440.538 1/1:107:0,107,0:0:0:107,0:3766,0:-338.686,-32.2102,0,-338.686,-32.2102,-338.686 1/1:103:0,103,0:0:0:103,0:3659,0:-329.116,-31.0061,0,-329.116,-31.0061,-329.116 1/2:104:0,61,43:0:0:61,43:2188,1515:-302.154,-123.695,-105.332,-178.814,0,-165.869 1/2:66:1,47,18:1:36:47,18:1665,640:-184.533,-49.2085,-37.9978,-132.684,0,-130.203 1/1:102:0,102,0:0:0:102,0:3646,0:-328.329,-30.7051,0,-328.329,-30.7051,-328.329 1/1:53:0,53,0:0:0:53,0:1886,0:-169.684,-15.9546,0,-169.684,-15.9546,-169.684 chr03 18673135 . T A 28890.2 PASS AB=0.527374;ABP=8.83567;AC=28;AF=0.666667;AN=42;AO=1359;CIGAR=1X;DP=1851;DPB=1851;DPRA=1.2913;EPP=2884.96;EPPR=1026.22;GTI=1;LEN=1;MEANALT=1.05;MQM=59.5224;MQMR=59.444;NS=21;NUMALT=1;ODDS=3.46543;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48557;QR=17562;RO=491;RPL=1351;RPP=2884.96;RPPR=1026.22;RPR=8;RUN=1;SAF=0;SAP=2954.04;SAR=1359;SRF=0;SRP=1069.2;SRR=491;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:19,28:19:676:28:984:-74.6947,0,-47.0196 0/1:53:32,21:32:1148:21:752:-52.0403,0,-87.6671 0/1:122:48,73:48:1701:73:2597:-197.19,0,-116.585 1/1:98:0,98:0:0:98:3490:-314.273,-29.5009,0 1/1:205:0,205:0:0:205:7295:-655.708,-61.7112,0 1/1:82:0,82:0:0:82:2948:-265.406,-24.6845,0 0/1:104:48,56:48:1720:56:2003:-149.214,0,-123.726 0/0:69:69,0:69:2472:0:0:0,-20.7711,-222.685 0/1:177:87,90:87:3116:90:3236:-238.146,0,-226.028 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:9:4,5:4:129:5:180:-13.8428,0,-9.21839 0/1:29:18,11:18:648:11:396:-27.2529,0,-49.9128 0/1:101:56,45:56:2012:45:1612:-114.96,0,-150.94 0/1:78:47,31:47:1688:31:1110:-76.7271,0,-128.63 1/1:136:0,136:0:0:136:4863:-437.481,-40.9401,0 1/1:107:0,107:0:0:107:3827:-344.503,-32.2102,0 1/1:101:0,101:0:0:101:3617:-325.501,-30.404,0 0/1:104:42,62:42:1504:62:2216:-168.391,0,-104.344 0/1:67:20,47:20:712:47:1692:-132.392,0,-44.2329 1/1:104:0,104:0:0:104:3710:-334.081,-31.3071,0 1/1:54:0,54:0:0:54:1925:-173.439,-16.2556,0 chr03 18875297 . A G 18911.2 PASS AB=0.516529;ABP=4.73312;AC=28;AF=0.666667;AN=42;AO=922;CIGAR=1X;DP=1361;DPB=1361;DPRA=0.760119;EPP=2005.11;EPPR=956.287;GTI=0;LEN=1;MEANALT=1;MQM=59.449;MQMR=59.4784;NS=21;NUMALT=1;ODDS=5.39602;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33028;QR=15660;RO=439;RPL=0;RPP=2005.11;RPPR=956.287;RPR=922;RUN=1;SAF=922;SAP=2005.11;SAR=0;SRF=439;SRP=956.287;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:34,27:34:1224:27:937:-66.2633,0,-92.098 0/1:27:20,7:20:716:7:252:-14.8929,0,-56.4818 0/1:77:38,39:38:1356:39:1385:-101.767,0,-99.1505 1/1:99:0,99:0:0:99:3556:-320.125,-29.802,0 1/1:92:1,91:1:36:91:3264:-290.301,-24.0965,0 1/1:32:0,32:0:0:32:1152:-103.974,-9.63296,0 0/1:152:69,83:69:2438:83:2977:-222.341,0,-173.863 0/0:84:84,0:84:3004:0:0:0,-25.2865,-270.567 0/1:141:56,85:56:2008:85:3056:-232.753,0,-138.54 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 0/1:35:6,29:6:216:29:1044:-83.7249,0,-9.24978 0/1:32:22,10:22:788:10:356:-22.7483,0,-61.4414 0/1:86:39,47:39:1377:47:1688:-126.078,0,-98.318 1/1:115:0,115:0:0:115:4125:-371.386,-34.6185,0 1/1:30:0,30:0:0:30:1080:-97.3228,-9.0309,0 1/1:30:1,29:1:36:29:1030:-89.3323,-5.43263,0 0/1:56:34,22:34:1224:22:777:-53.3917,0,-93.5917 0/1:39:22,17:22:769:17:597:-42.3097,0,-57.7798 1/1:129:2,127:2:72:127:4568:-404.415,-31.9961,0 1/1:24:0,24:0:0:24:860:-77.7215,-7.22472,0 chr03 18875300 . T G 7668.5 PASS AB=0.490305;ABP=3.59979;AC=14;AF=0.333333;AN=42;AO=439;CIGAR=1X;DP=1353;DPB=1353;DPRA=1.24;EPP=956.287;EPPR=1985.56;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.5034;MQMR=59.5071;NS=21;NUMALT=1;ODDS=6.21226;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15651;QR=32559;RO=913;RPL=0;RPP=956.287;RPPR=1985.56;RPR=439;RUN=1;SAF=439;SAP=956.287;SAR=0;SRF=913;SRP=1985.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:26,35:26:921:35:1230:-92.6309,0,-64.6845 0/1:27:7,20:7:252:20:701:-55.1258,0,-14.8929 0/1:76:38,38:38:1368:38:1364:-100.172,0,-100.542 0/0:98:98,0:98:3512:0:0:0,-29.5009,-316.167 0/0:92:91,1:91:3219:1:36:0,-24.0965,-286.251 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.629 0/1:150:81,68:81:2867:68:2436:-174.298,0,-213.114 1/1:82:0,82:0:0:82:2940:-264.816,-24.6845,0 0/1:141:84,57:84:2990:57:2048:-142.143,0,-226.814 0/1:9:2,7:2:72:7:252:-20.3197,0,-4.12745 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/1:37:29,8:29:1040:8:288:-15.12,0,-82.7624 0/1:32:10,22:10:345:22:788:-61.4414,0,-21.7479 0/1:86:46,40:46:1641:40:1391:-99.5858,0,-121.847 0/0:117:117,0:117:4200:0:0:0,-35.2205,-378.135 0/0:30:30,0:30:1065:0:0:0,-9.0309,-96.121 0/0:29:29,0:29:1025:0:0:0,-8.72987,-92.55 0/1:54:21,33:21:752:33:1188:-90.9554,0,-51.7497 0/1:38:16,22:16:576:22:773:-58.4379,0,-40.7296 0/0:127:125,2:125:4461:2:72:0,-31.3941,-394.795 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0817 chr03 18923232 . AC TT 21496.5 PASS AB=0.467547;ABP=11.3259;AC=28;AF=0.666667;AN=42;AO=983;CIGAR=2X;DP=1573;DPB=1573;DPRA=0.777895;EPP=2060.11;EPPR=1206.95;GTI=0;LEN=2;MEANALT=1.2;MQM=34.1261;MQMR=58.5;NS=21;NUMALT=1;ODDS=7.36234;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34512;QR=19147;RO=586;RPL=575;RPP=64.6178;RPPR=1206.95;RPR=408;RUN=1;SAF=584;SAP=78.6142;SAR=399;SRF=586;SRP=1275.49;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:45,36:45:1484:36:1266:-77.8676,0,-108.995 0/1:55:24,30:24:720:30:1065:-68.6556,0,-48.4313 0/1:59:40,19:40:1319:19:647:-35.2527,0,-101.224 1/1:76:0,75:0:0:75:2620:-208.208,-22.5773,0 1/1:92:2,90:2:72:90:3156:-247.162,-20.8589,0 1/1:50:3,47:3:106:47:1649:-120.43,-5.1624,0 0/1:132:76,55:76:2471:55:1921:-112.098,0,-182.708 0/0:95:95,0:95:3045:0:0:0,-28.5978,-274.146 0/1:137:85,51:85:2820:51:1804:-103.457,0,-212.559 0/1:5:2,3:2:70:3:97:-6.22897,0,-5.14218 0/1:7:4,3:4:123:3:108:-6.84665,0,-9.26731 0/1:33:13,20:13:415:20:720:-47.9922,0,-27.7219 0/1:116:69,47:69:2315:47:1633:-95.3984,0,-172.862 0/1:86:61,25:61:1934:25:870:-43.7454,0,-148.367 1/1:104:1,103:1:25:103:3680:-289.758,-28.8082,0 1/1:45:1,44:1:36:44:1521:-121.406,-9.94808,0 1/1:40:0,40:0:0:40:1425:-114.504,-12.0412,0 0/1:121:41,80:41:1384:80:2812:-188.293,0,-88.3963 0/1:77:21,56:21:700:56:1971:-135.283,0,-40.0751 1/1:52:3,49:3:108:49:1697:-126.892,-5.57839,0 1/1:110:0,110:0:0:110:3850:-309.104,-33.1133,0 chr03 18955029 . T C 41472.3 PASS AB=0.503784;ABP=3.42119;AC=28;AF=0.666667;AN=42;AO=2464;CIGAR=1X;DP=4190;DPB=4190;DPRA=2.6359;EPP=5353.52;EPPR=3744.46;GTI=0;LEN=1;MEANALT=1.15;MQM=40.8336;MQMR=53.686;NS=21;NUMALT=1;ODDS=15.5444;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87070;QR=61539;RO=1723;RPL=2464;RPP=5353.52;RPPR=3744.46;RPR=0;RUN=1;SAF=2464;SAP=5353.52;SAR=0;SRF=1723;SRP=3744.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:42,54:42:1490:54:1886:-130.436,0,-105.089 0/1:81:41,40:41:1468:40:1425:-103.476,0,-108.025 0/1:89:42,47:42:1503:47:1663:-112.846,0,-108.162 1/1:91:1,90:1:36:90:3196:-265.285,-23.8072,0 1/1:179:3,176:3:108:176:6212:-514.941,-43.8422,0 1/1:70:1,69:1:36:69:2443:-214.158,-17.4738,0 0/1:137:44,93:44:1572:93:3287:-254.093,0,-100.511 0/0:78:78,0:78:2783:0:0:0,-23.4803,-250.141 0/1:157:73,83:73:2611:83:2949:-198.595,0,-186.592 0/1:546:298,248:298:10670:248:8682:-567.134,0,-792.445 0/1:589:338,250:338:12010:250:8862:-615.967,0,-902.679 0/1:567:252,315:252:9012:315:11186:-776.528,0,-637.734 0/1:68:36,32:36:1296:32:1140:-75.1626,0,-95.9242 0/1:93:40,53:40:1440:53:1881:-130.825,0,-100.956 1/1:117:0,117:0:0:117:4144:-350.8,-35.2205,0 1/1:66:0,66:0:0:66:2349:-196.176,-19.868,0 1/1:87:1,86:1:36:86:3050:-253.043,-22.6066,0 0/1:804:397,406:397:14180:406:14289:-960.597,0,-1028.7 0/1:76:33,43:33:1180:43:1517:-106.399,0,-83.3003 1/1:140:3,137:3:108:137:4842:-400.571,-32.0944,0 1/1:59:0,59:0:0:59:2067:-185.233,-17.7608,0 chr03 18955208 . A C,T 31058.6 PASS AB=0.593671,0.406329;ABP=63.2178,63.2178;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1109,378;CIGAR=1X,1X;DP=1487;DPB=1487;DPRA=1.40784,0.960616;EPP=2411.17,815.164;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.75,1.9375;MQM=60,59.9709;MQMR=0;NS=21;NUMALT=2;ODDS=2.49885;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39119,13385;QR=0;RO=0;RPL=0,1;RPP=2411.17,815.164;RPPR=0;RPR=1109,377;RUN=1,1;SAF=0,0;SAP=2411.17,823.827;SAR=1109,378;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:134:0,72,62:0:0:72,62:2537,2212:-387.233,-180.681,-159.007,-206.907,0,-188.243 1/2:50:0,27,23:0:0:27,23:968,824:-146.511,-67.5596,-59.4318,-79.3096,0,-72.3859 1/2:69:0,44,25:0:0:44,25:1554,892:-199.624,-73.0739,-59.8286,-126.905,0,-119.379 1/1:86:0,84,2:0:0:84,2:2950,68:-265.396,-25.2865,0,-259.881,-19.4309,-259.279 1/1:143:0,141,2:0:0:141,2:4967,72:-446.825,-42.4452,0,-440.951,-36.2106,-440.348 1/1:47:0,47,0:0:0:47,0:1660,0:-149.688,-14.1484,0,-149.688,-14.1484,-149.688 1/2:88:0,48,40:0:0:48,40:1704,1424:-255.24,-116.399,-101.949,-139.196,0,-127.155 2/2:51:0,0,51:0:0:0,51:0,1796:-161.922,-161.922,-161.922,-15.3525,-15.3525,0 1/2:135:0,80,55:0:0:80,55:2835,1939:-389.181,-158.226,-134.144,-231.307,0,-214.751 1/2:9:0,4,5:0:0:4,5:144,180:-26.7966,-15.0469,-13.8428,-12.1095,0,-10.6043 1/2:9:0,5,4:0:0:5,4:180,144:-26.7966,-12.1095,-10.6043,-15.0469,0,-13.8428 1/2:22:0,13,9:0:0:13,9:468,324:-64.983,-26.7966,-22.8832,-38.5463,0,-35.837 1/2:53:0,29,24:0:0:29,24:1040,833:-152.892,-68.06,-59.3301,-85.1845,0,-77.9598 1/2:70:0,50,20:0:0:50,20:1752,690:-198.962,-56.3987,-41.3472,-142.91,0,-136.889 1/1:76:0,76,0:0:0:76,0:2683,0:-241.714,-22.8783,0,-241.714,-22.8783,-241.714 1/1:80:0,80,0:0:0:80,0:2767,0:-249.27,-24.0824,0,-249.27,-24.0824,-249.27 1/1:100:0,100,0:0:0:100,0:3497,0:-314.943,-30.103,0,-314.943,-30.103,-314.943 1/2:88:0,49,39:0:0:49,39:1720,1383:-253.007,-113.028,-98.2774,-140.332,0,-128.592 1/2:63:0,48,15:0:0:48,15:1702,532:-182.358,-43.6976,-29.2482,-139.015,0,-134.5 1/1:62:0,62,0:0:0:62,0:2215,0:-199.614,-18.6639,0,-199.614,-18.6639,-199.614 1/1:52:0,50,2:0:0:50,2:1776,72:-159.763,-15.0515,0,-153.888,-8.81684,-153.286 chr03 19031420 . G T 16817.7 PASS AB=0.565657;ABP=32.6652;AC=28;AF=0.666667;AN=42;AO=688;CIGAR=1X;DP=1053;DPB=1053;DPRA=2.45714;EPP=197.13;EPPR=309.569;GTI=0;LEN=1;MEANALT=1;MQM=59.9026;MQMR=59.8849;NS=21;NUMALT=1;ODDS=9.7731;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24315;QR=12943;RO=365;RPL=688;RPP=1496.98;RPPR=795.598;RPR=0;RUN=1;SAF=468;SAP=197.13;SAR=220;SRF=296;SRP=309.569;SRR=69;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 0/1:27:7,20:7:252:20:699:-55.1037,0,-14.8443 0/1:8:3,5:3:104:5:180:-14.1429,0,-7.29457 1/1:35:0,35:0:0:35:1237:-111.631,-10.5361,0 1/1:36:0,36:0:0:36:1292:-116.582,-10.8371,0 1/1:25:0,25:0:0:25:892:-80.5931,-7.52575,0 0/1:41:12,29:12:432:29:1040:-81.5689,0,-26.8625 0/0:21:21,0:21:744:0:0:0,-6.32163,-67.2843 0/1:45:21,24:21:718:24:856:-63.8148,0,-51.3877 0/1:88:33,55:33:1168:55:1920:-146.584,0,-78.9366 0/1:104:45,59:45:1593:59:2043:-152.83,0,-112.351 0/1:94:42,52:42:1512:52:1833:-136.952,0,-108.078 0/1:42:16,26:16:576:26:928:-71.195,0,-39.5317 0/1:16:9,7:9:324:7:248:-17.8471,0,-24.6894 1/1:29:0,29:0:0:29:1032:-93.1911,-8.72987,0 1/1:26:0,26:0:0:26:920:-83.1171,-7.82678,0 1/1:21:0,21:0:0:21:739:-66.8315,-6.32163,0 0/1:254:130,124:130:4588:124:4341:-314.404,0,-336.612 0/1:58:21,37:21:752:37:1328:-102.362,0,-50.5465 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 1/1:43:0,43:0:0:43:1531:-138.08,-12.9443,0 chr03 19080750 . CAAAAAAATGAAAAC CAAAAAAAATGAAAAC 47512.8 PASS AB=0.721274;ABP=376.832;AC=31;AF=0.738095;AN=42;AO=2272;CIGAR=1M1I14M;DP=2654;DPB=2806.53;DPRA=1.52976;EPP=4936.6;EPPR=795.598;GTI=2;LEN=1;MEANALT=1.75;MQM=58.5836;MQMR=59.989;NS=21;NUMALT=1;ODDS=0.748214;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80425;QR=12926;RO=365;RPL=0;RPP=4936.6;RPPR=795.598;RPR=2272;RUN=1;SAF=2272;SAP=4936.6;SAR=0;SRF=365;SRP=795.598;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:32,44:32:1130:44:1554:-117.253,0,-79.131 0/1:41:13,28:13:463:28:984:-76.5116,0,-29.6652 0/1:75:41,33:41:1460:33:1172:-83.0921,0,-109.061 1/1:128:1,127:1:36:127:4489:-400.547,-34.9336,0 1/1:184:6,177:6:204:177:6297:-547.667,-36.718,0 1/1:21:0,21:0:0:21:748:-67.3299,-6.32163,0 0/1:73:30,42:30:1059:42:1500:-113.315,0,-73.7334 0/0:84:84,0:84:2994:0:0:0,-25.2865,-269.694 0/1:30:14,14:14:491:14:504:-36.9098,0,-35.7354 1/1:330:10,318:10:357:318:11236:-977.919,-66.6239,0 1/1:274:7,265:7:247:265:9368:-819.336,-59.6063,0 1/1:306:12,294:12:428:294:10350:-891.561,-53.2562,0 0/1:28:10,17:10:355:17:604:-46.2565,0,-23.9398 0/1:74:35,39:35:1228:39:1380:-102.165,0,-88.5477 1/1:127:0,127:0:0:127:4529:-407.548,-38.2308,0 1/1:79:2,77:2:72:77:2736:-239.572,-16.9446,0 1/1:104:2,102:2:71:102:3630:-320.151,-24.5651,0 0/1:455:51,398:51:1803:398:14134:-1133.89,0,-27.0519 0/1:27:8,19:8:285:19:637:-48.6037,0,-17.8668 1/1:100:6,94:6:207:94:3306:-278.455,-11.1352,0 1/1:38:1,36:1:36:36:1267:-110.327,-7.89768,0 chr03 19087438 . ATTAGATTCGT GTTGGAGTCGT,GTTAGAGTCTGT 32824.6 PASS AB=0.528684,0.456693;ABP=9.36351,17.4925;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1093,512;CIGAR=1X2M1X2M1X4M,1X5M1X2M1I2M;DP=1629;DPB=1683.18;DPRA=0.711215,1.62991;EPP=2376.43,1114.8;EPPR=0;GTI=0;LEN=11,12;MEANALT=2.55,3.2;MQM=57.6377,59.7109;MQMR=0;NS=21;NUMALT=2;ODDS=10.0682;PAIRED=0,0;PAIREDR=0;PAO=31,27;PQA=1079.5,935.5;PQR=0;PRO=0;QA=38406,17577;QR=0;RO=0;RPL=1093,512;RPP=2376.43,1114.8;RPPR=0;RPR=0,0;RUN=1,1;SAF=1093,512;SAP=2376.43,1114.8;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:96:0,57,38:0:0:57,38:2008,1309:-269.219,-106.036,-88.8776,-162.902,0,-151.463 1/2:31:0,10,21:0:0:10,21:351,711:-86.3747,-57.8098,-54.7995,-28.752,0,-22.4304 1/2:73:0,42,30:0:0:42,30:1494,1039:-206.007,-84.2794,-71.6362,-121.66,0,-112.629 1/1:104:0,104,0:0:0:104,0:3648,0:-326.928,-31.3071,0,-326.928,-31.3071,-326.928 1/1:156:0,152,2:0:0:152,2:5330,66:-476.471,-45.7566,0,-471.135,-40.4689,-470.533 1/1:40:0,39,1:0:0:39,1:1358,29:-121.949,-11.7402,0,-119.642,-9.14154,-119.341 1/2:133:0,66,65:0:0:66,65:2316,2201:-366.339,-178.424,-158.556,-187.9,0,-168.333 2/2:107:0,0,102:0:0:0,102:0,3482:-313.222,-313.222,-313.222,-30.7051,-30.7051,0 1/2:199:0,116,81:0:0:116,81:4076,2824:-560.716,-229.504,-194.585,-331.096,0,-306.713 1/1:9:0,9,0:0:0:9,0:312,0:-28.4129,-2.70927,0,-28.4129,-2.70927,-28.4129 1/2:6:0,3,3:0:0:3,3:104,99:-16.765,-8.33421,-7.43112,-8.76845,0,-7.86536 1/2:33:0,17,16:0:0:17,16:597,570:-95.3915,-46.8159,-41.6984,-48.9291,0,-44.1127 1/2:137:0,58,75:0:0:58,75:2035,2562:-372.508,-207.869,-190.409,-164.615,0,-142.038 1/2:88:0,54,33:0:0:54,33:1881,1141:-245.115,-92.5207,-76.2651,-152.407,0,-142.473 1/1:127:0,125,0:0:0:125,0:4412,0:-395.923,-37.6288,0,-395.923,-37.6288,-395.923 1/1:30:0,29,0:0:0:29,0:1027,0:-92.2572,-8.72987,0,-92.2572,-8.72987,-92.2572 1/1:19:0,19,0:0:0:19,0:675,0:-60.9516,-5.71957,0,-60.9516,-5.71957,-60.9516 1/2:52:0,19,33:0:0:19,33:676,1135:-147.488,-92.4579,-86.7383,-55.3245,0,-45.3905 1/2:41:0,28,11:0:0:28,11:977,373:-109.077,-30.1835,-21.7547,-78.9191,0,-75.6078 1/1:116:0,114,1:0:0:114,1:4015,36:-360.541,-34.3174,0,-357.604,-31.3875,-357.303 1/1:32:0,32,0:0:0:32,0:1114,0:-99.7456,-9.63296,0,-99.7456,-9.63296,-99.7456 chr03 19341170 . G A 3415.51 PASS AB=0.345679;ABP=86.7862;AC=12;AF=0.285714;AN=42;AO=173;CIGAR=1X;DP=844;DPB=844;DPRA=0.903284;EPP=3.62534;EPPR=1457.9;GTI=2;LEN=1;MEANALT=1.07692;MQM=59.4798;MQMR=59.8746;NS=21;NUMALT=1;ODDS=2.30064;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6043;QR=23965;RO=670;RPL=0;RPP=378.675;RPPR=1457.9;RPR=173;RUN=1;SAF=83;SAP=3.62534;SAR=90;SRF=670;SRP=1457.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:14:8,6:8:284:6:216:-15.5761,0,-21.6889 0/1:30:24,6:24:864:6:193:-8.65471,0,-69.0517 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:75:75,0:75:2654:0:0:0,-22.5772,-239.104 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.54 0/0:40:39,1:39:1400:1:36:0,-8.44393,-122.683 0/1:40:27,13:27:964:13:445:-28.2982,0,-75.0347 1/1:31:0,31:0:0:31:1096:-98.9272,-9.33193,0 0/1:75:62,13:62:2205:13:434:-16.7993,0,-176.135 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:13:11,2:11:396:2:72:-2.92333,0,-32.0694 0/1:63:39,24:39:1404:24:826:-55.611,0,-107.693 0/1:31:19,11:19:675:11:381:-25.231,0,-51.6865 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.139 0/0:42:42,0:42:1508:0:0:0,-12.6433,-135.927 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/1:75:39,36:39:1391:36:1276:-92.5658,0,-102.911 0/1:55:27,28:27:968:28:996:-73.3982,0,-70.8631 0/0:26:25,1:25:892:1:36:0,-4.2285,-77.0014 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 chr03 19341355 . G A 8308.5 PASS AB=0.533537;ABP=9.41879;AC=14;AF=0.333333;AN=42;AO=461;CIGAR=1X;DP=1147;DPB=1147;DPRA=1.41076;EPP=1004.06;EPPR=1415.49;GTI=1;LEN=1;MEANALT=1;MQM=53.3015;MQMR=58.5496;NS=21;NUMALT=1;ODDS=7.14922;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16509;QR=24420;RO=686;RPL=461;RPP=1004.06;RPPR=1415.49;RPR=0;RUN=1;SAF=0;SAP=1004.06;SAR=461;SRF=0;SRP=1492.64;SRR=686;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:24,38:24:860:38:1368:-104.627,0,-58.9484 0/1:58:27,31:27:968:31:1116:-82.957,0,-69.8413 0/1:98:37,61:37:1319:61:2170:-165.648,0,-89.3781 0/0:63:63,0:63:2260:0:0:0,-18.9649,-202.438 0/0:86:83,3:83:2952:3:108:0,-15.8325,-254.197 0/0:69:69,0:69:2468:0:0:0,-20.7711,-221.792 0/1:89:44,45:44:1572:45:1612:-117.714,0,-114.958 1/1:105:0,105:0:0:105:3759:-336.316,-31.6082,0 0/1:67:40,27:40:1406:27:960:-66.3911,0,-106.552 0/1:7:1,6:1:36:6:216:-17.5281,0,-1.49106 0/1:6:3,3:3:104:3:108:-8.24366,0,-7.85018 0/1:12:5,7:5:180:7:252:-19.3839,0,-12.935 0/1:73:34,39:34:1220:39:1397:-103.81,0,-88.1246 0/1:61:30,31:30:1043:31:1116:-82.1996,0,-75.7988 0/0:62:61,1:61:2163:1:36:0,-15.0682,-190.535 0/0:19:19,0:19:653:0:0:0,-5.71957,-59.0424 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 0/1:66:24,42:24:856:42:1503:-115.34,0,-57.4757 0/1:57:37,20:37:1320:20:716:-47.4313,0,-101.909 0/0:30:28,2:28:1004:2:72:0,-2.20762,-83.8434 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.589 chr03 19418855 . GAACA ATACG,ATACA 57463.1 PASS AB=0.513017,0.48392;ABP=4.93237,5.94328;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2017,783;CIGAR=2X2M1X,2X3M;DP=2804;DPB=2804;DPRA=0.93042,0.779729;EPP=4382.87,1024.82;EPPR=0;GTI=1;LEN=5,2;MEANALT=2,2.17647;MQM=37.8964,56.447;MQMR=0;NS=21;NUMALT=2;ODDS=16.9886;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71301,27145;QR=0;RO=0;RPL=2017,695;RPP=4382.87,1024.82;RPPR=0;RPR=0,88;RUN=1,1;SAF=2017,783;SAP=4382.87,1703.27;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:140:0,75,65:0:0:75,65:2664,2328:-393.77,-190.214,-167.636,-203.903,0,-184.336 1/2:183:0,97,86:0:0:97,86:3434,3039:-509.713,-247.84,-218.64,-262.216,0,-236.328 1/2:113:0,52,60:0:0:52,60:1843,2131:-314.636,-173.651,-157.997,-140.99,0,-122.929 1/1:239:0,238,1:0:0:238,1:8379,36:-711.414,-71.6451,0,-708.481,-68.353,-708.18 1/1:183:0,180,3:0:0:180,3:6354,108:-539.762,-54.1854,0,-530.949,-45.0133,-530.046 1/1:199:0,199,0:0:0:199,0:7054,0:-599.515,-59.905,0,-599.515,-59.905,-599.515 1/2:176:0,106,69:0:0:106,69:3772,2461:-488.799,-200.613,-168.704,-288.175,0,-267.404 2/2:143:0,0,143:0:0:0,143:0,5008:-450.738,-450.738,-450.738,-43.0473,-43.0473,0 1/2:182:0,92,89:0:0:92,89:3221,2561:-426.534,-180.672,-152.977,-245.819,0,-219.027 1/2:30:0,15,15:0:0:15,15:538,538:-85.332,-44.2403,-39.7249,-41.4399,0,-36.9244 1/2:15:0,13,2:0:0:13,2:461,61:-40.4747,-5.19117,-1.27778,-35.5924,0,-34.9904 1/2:46:0,23,23:0:0:23,23:827,814:-129.792,-66.6574,-59.7337,-63.4805,0,-56.5568 1/2:160:0,76,84:0:0:76,84:2701,2990:-450.273,-244.044,-221.166,-206.574,0,-181.287 1/2:139:0,61,78:0:0:61,78:2155,2789:-392.585,-227.77,-209.407,-165.16,0,-141.679 1/1:251:0,251,0:0:0:251,0:8871,0:-753.309,-75.5585,0,-753.309,-75.5585,-753.309 1/1:142:0,142,0:0:0:142,0:5003,0:-424.837,-42.7463,0,-424.837,-42.7463,-424.837 1/1:139:0,138,1:0:0:138,1:4859,29:-413.168,-41.5421,0,-411.13,-39.2439,-410.829 1/2:60:0,23,37:0:0:23,37:803,1293:-167.077,-105.53,-98.6058,-61.8853,0,-50.7472 1/2:62:0,37,24:0:0:37,24:1308,851:-169.092,-69.3729,-58.2348,-99.7537,0,-92.529 1/1:144:0,141,3:0:0:141,3:5019,108:-425.438,-42.4452,0,-416.625,-33.2732,-415.722 1/1:58:0,58,0:0:0:58,0:2035,0:-173.573,-17.4597,0,-173.573,-17.4597,-173.573 chr03 19443678 . A T 16273.5 PASS AB=0.485549;ABP=5.20688;AC=28;AF=0.666667;AN=42;AO=1269;CIGAR=1X;DP=2174;DPB=2174;DPRA=0.351107;EPP=2758.61;EPPR=1914.15;GTI=1;LEN=1;MEANALT=1.2;MQM=28.9582;MQMR=39.96;NS=21;NUMALT=1;ODDS=0.245987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45140;QR=32155;RO=900;RPL=1269;RPP=2758.61;RPPR=1914.15;RPR=0;RUN=1;SAF=1269;SAP=2758.61;SAR=0;SRF=900;SRP=1957.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:49,58:49:1756:58:2080:-118.795,0,-119.382 0/1:95:62,33:62:2212:33:1184:-46.7651,0,-157.616 0/1:141:66,75:66:2347:75:2688:-151.739,0,-163.181 1/1:73:0,73:0:0:73:2616:-188.938,-21.9752,0 1/1:120:9,111:9:320:111:3900:-256.498,-7.71495,0 1/1:63:0,63:0:0:63:2256:-144.936,-18.9649,0 0/1:191:85,106:85:3040:106:3780:-185.56,0,-198.607 0/0:271:271,0:271:9673:0:0:0,-81.5791,-827.745 0/1:137:69,68:69:2461:68:2410:-141.866,0,-175.999 0/1:41:27,14:27:964:14:504:-22.2465,0,-70.504 0/1:15:6,9:6:216:9:324:-16.1238,0,-14.1163 0/1:74:47,27:47:1671:27:968:-43.666,0,-122.151 0/1:86:55,31:55:1968:31:1112:-55.5289,0,-146.626 0/1:106:48,55:48:1724:55:1907:-107.461,0,-117.358 1/1:242:0,241:0:0:241:8565:-617.917,-72.5482,0 1/1:69:0,68:0:0:68:2427:-181.207,-20.47,0 1/1:53:0,53:0:0:53:1895:-143.733,-15.9546,0 0/1:178:93,85:93:3335:85:3030:-154.143,0,-232.14 0/1:40:13,27:13:468:27:948:-57.3175,0,-29.1751 1/1:17:0,17:0:0:17:603:-41.3982,-5.11751,0 1/1:55:0,55:0:0:55:1943:-126.324,-16.5567,0 chr03 19484169 . G A 28663.1 PASS AB=0.4873;ABP=4.49948;AC=28;AF=0.666667;AN=42;AO=1403;CIGAR=1X;DP=2099;DPB=2099;DPRA=0.733209;EPP=3049.59;EPPR=1514.36;GTI=0;LEN=1;MEANALT=1;MQM=59.4968;MQMR=59.9885;NS=21;NUMALT=1;ODDS=1.25206;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50163;QR=24835;RO=696;RPL=0;RPP=3049.59;RPPR=1514.36;RPR=1403;RUN=1;SAF=0;SAP=3049.59;SAR=1403;SRF=0;SRP=1514.36;SRR=696;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:183:89,94:89:3191:94:3363:-247.728,0,-232.316 0/1:126:72,54:72:2561:54:1936:-136.476,0,-192.809 0/1:59:28,31:28:992:31:1097:-81.2493,0,-71.8336 1/1:77:0,77:0:0:77:2760:-248.628,-23.1793,0 1/1:294:10,284:10:356:284:10141:-879.98,-56.1216,0 1/1:85:1,84:1:36:84:2996:-266.209,-21.9893,0 0/1:159:65,94:65:2310:94:3350:-253.789,0,-160.296 0/0:134:134,0:134:4808:0:0:0,-40.338,-432.874 0/1:152:91,61:91:3237:61:2188:-151.415,0,-245.795 0/1:15:9,6:9:324:6:207:-14.4514,0,-24.9904 0/1:10:9,1:9:315:1:36:-0.587975,0,-25.6769 0/1:41:23,18:23:813:18:644:-45.9484,0,-61.1469 0/1:75:41,34:41:1472:34:1220:-87.5291,0,-110.199 0/1:98:55,43:55:1967:43:1532:-108.664,0,-147.803 1/1:129:0,129:0:0:129:4616:-415.422,-38.8329,0 1/1:86:0,86:0:0:86:3075:-276.807,-25.8886,0 1/1:57:0,57:0:0:57:2044:-184.14,-17.1587,0 0/1:77:39,38:39:1385:38:1364:-99.8532,0,-101.768 0/1:68:24,44:24:852:44:1584:-122.368,0,-56.5303 1/1:125:5,120:5:180:120:4286:-369.331,-21.0767,0 1/1:49:1,48:1:36:48:1724:-151.827,-11.1522,0 chr03 19763225 . GT AC,GC 37338.5 PASS AB=0.485893,0.509927;ABP=4.66443,3.82942;AC=26,16;AF=0.619048,0.380952;AN=42;AO=878,573;CIGAR=2X,1M1X;DP=1457;DPB=1457;DPRA=0.849383,0.973396;EPP=44.8074,9.38071;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.1,2.16667;MQM=59.3724,59.9546;MQMR=60;NS=21;NUMALT=2;ODDS=2.05707;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29734,20318;QR=34;RO=1;RPL=1,2;RPP=1900.89,1229.95;RPPR=5.18177;RPR=877,571;RUN=1,1;SAF=505,268;SAP=46.1034,8.19834;SAR=373,305;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:61:0,31,30:0:0:31,30:1026,1076:-171.002,-88.122,-78.79,-83.2246,0,-74.1937 1/2:48:0,22,25:0:0:22,25:725,866:-128.525,-70.3661,-63.7434,-58.1366,0,-50.6109 1/2:17:0,3,14:0:0:3,14:108,495:-49.482,-40.6686,-39.7655,-9.17208,0,-4.95766 1/1:66:0,66,0:0:0:66,0:2259,0:-202.919,-19.868,0,-202.919,-19.868,-202.919 1/1:97:0,94,2:0:0:94,2:3192,68:-287.182,-28.2968,0,-281.666,-22.7211,-281.064 1/1:55:0,54,1:0:0:54,1:1784,36:-160.47,-16.2556,0,-157.532,-12.9584,-157.231 1/2:93:0,43,50:0:0:43,50:1476,1780:-265.26,-145.431,-132.487,-120.178,0,-105.127 2/2:81:0,0,81:0:0:0,81:0,2883:-259.707,-259.707,-259.707,-24.3834,-24.3834,0 1/2:115:1,52,62:1:34:52,62:1748,2198:-317.618,-176.323,-163.427,-138.843,0,-122.937 1/2:5:0,2,3:0:0:2,3:72,108:-15.0469,-9.17208,-8.57002,-6.23466,0,-5.33157 1/2:6:0,2,4:0:0:2,4:59,144:-16.7772,-12.1095,-11.5074,-4.98365,0,-3.77953 1/2:20:0,9,11:0:0:9,11:324,392:-58.7425,-32.3041,-29.5948,-26.7966,0,-23.4853 1/2:54:0,22,31:0:0:22,31:755,1108:-151.741,-90.4457,-83.8231,-61.3889,0,-52.057 1/2:53:0,33,20:0:0:33,20:1098,720:-147.703,-59.1082,-49.1742,-88.944,0,-82.9234 1/2:157:0,73,84:0:0:73,84:2506,2993:-447.733,-244.311,-222.336,-203.771,0,-178.484 1/2:44:0,26,18:0:0:26,18:898,640:-125.464,-52.5108,-44.684,-73.304,0,-67.8854 1/1:27:0,27,0:0:0:27,0:944,0:-85.2703,-8.12781,0,-85.2703,-8.12781,-85.2703 1/2:165:0,80,85:0:0:80,85:2748,2991:-466.93,-243.836,-219.753,-223.441,0,-197.854 1/2:119:0,67,51:0:0:67,51:2262,1788:-328.913,-145.595,-125.426,-183.41,0,-168.057 1/1:54:0,53,1:0:0:53,1:1806,32:-162.457,-15.9546,0,-159.879,-13.0563,-159.578 1/1:120:0,119,0:0:0:119,0:3944,0:-354.777,-35.8226,0,-354.777,-35.8226,-354.777 chr03 19763236 . T A 22523.5 PASS AB=0.482438;ABP=5.6035;AC=26;AF=0.619048;AN=42;AO=886;CIGAR=1X;DP=1473;DPB=1473;DPRA=0.848171;EPP=1918.26;EPPR=1266.82;GTI=0;LEN=1;MEANALT=1.05;MQM=59.3634;MQMR=59.9556;NS=21;NUMALT=1;ODDS=1.05629;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31703;QR=21012;RO=586;RPL=508;RPP=44.43;RPPR=11.548;RPR=378;RUN=1;SAF=509;SAP=45.7143;SAR=377;SRF=270;SRP=10.8513;SRR=316;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:34,31:34:1220:31:1097:-79.3857,0,-90.5399 0/1:49:28,21:28:1004:21:748:-52.3785,0,-75.9172 0/1:19:15,4:15:536:4:139:-7.12812,0,-42.8552 1/1:67:0,67:0:0:67:2400:-215.614,-20.169,0 1/1:98:2,96:2:72:96:3440:-302.949,-22.6642,0 1/1:55:1,54:1:36:54:1940:-171.278,-12.9584,0 0/1:98:53,45:53:1900:45:1605:-115.228,0,-141.777 0/0:82:82,0:82:2932:0:0:0,-24.6845,-264.115 0/1:117:65,52:65:2328:52:1856:-131.595,0,-174.559 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:7:5,2:5:176:2:60:-3.57236,0,-14.0778 0/1:19:10,9:10:360:9:324:-23.7863,0,-27.0201 0/1:54:30,24:30:1080:24:860:-61.4662,0,-81.2576 0/1:51:20,31:20:720:31:1112:-84.9066,0,-49.7762 0/1:156:84,72:84:3016:72:2585:-185.898,0,-224.687 0/1:43:17,26:17:608:26:936:-71.6143,0,-42.1077 1/1:27:0,27:0:0:27:968:-87.434,-8.12781,0 0/1:168:88,80:88:3168:80:2871:-207.998,0,-234.77 0/1:117:49,68:49:1748:68:2440:-184.623,0,-122.384 1/1:55:0,55:0:0:55:1976:-178.029,-16.5567,0 1/1:121:0,120:0:0:120:4274:-384.313,-36.1236,0 chr03 19763347 . AAGAAC TAAAAC,TAAAA 30348.2 PASS AB=0.541713,0.45495;ABP=16.5971,18.8579;AC=26,16;AF=0.619048,0.380952;AN=42;AO=997,480;CIGAR=1X1M1X3M,1X1M1D2M1X;DP=1483;DPB=1403;DPRA=1.07348,1.29586;EPP=2167.97,1045.32;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.1,2.22222;MQM=59.3791,47.2417;MQMR=0;NS=21;NUMALT=2;ODDS=10.1575;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35178,17055;QR=0;RO=0;RPL=997,480;RPP=2167.97,1045.32;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2167.97,1045.32;SAR=997,480;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:85:0,51,34:0:0:51,34:1780,1213:-242.339,-97.8303,-82.4778,-144.86,0,-134.624 1/2:48:0,27,21:0:0:27,21:963,751:-138.248,-59.7489,-51.6211,-78.8508,0,-72.5292 1/2:67:0,38,29:0:0:38,29:1334,1035:-192.136,-83.8447,-72.4056,-108.643,0,-99.9134 1/1:48:0,48,0:0:0:48,0:1675,0:-151.022,-14.4494,0,-151.022,-14.4494,-151.022 1/1:197:0,192,3:0:0:192,3:6769,106:-608.797,-57.7978,0,-600.236,-49.1902,-599.333 1/1:65:0,65,0:0:0:65,0:2274,0:-204.641,-19.567,0,-204.641,-19.567,-204.641 1/2:79:0,40,39:0:0:40,39:1423,1359:-224.583,-108.633,-96.5914,-116.299,0,-104.559 2/2:66:0,0,66:0:0:0,66:0,2359:-208.544,-208.544,-208.544,-19.868,-19.868,0 1/2:89:0,53,34:0:0:53,34:1886,1204:-250.614,-96.9259,-80.9713,-153.681,0,-143.446 1/2:22:0,15,7:0:0:15,7:536,248:-63.184,-19.4772,-14.9618,-44.0503,0,-41.9431 1/2:9:0,2,7:0:0:2,7:72,249:-25.7785,-19.9002,-19.2981,-6.23466,0,-4.12745 1/2:30:0,16,14:0:0:16,14:562,502:-86.1842,-40.5529,-35.7365,-45.9828,0,-41.7683 1/2:63:0,34,29:0:0:34,29:1203,1030:-181.234,-83.254,-73.0189,-98.3328,0,-89.6029 1/2:76:0,36,39:0:0:36,39:1245,1399:-214.314,-113.157,-102.32,-101.206,0,-89.4663 1/2:126:0,63,63:0:0:63,63:2229,2224:-360.442,-178.89,-159.925,-181.903,0,-162.938 1/2:59:0,26,33:0:0:26,33:920,1175:-170.282,-95.3482,-87.5214,-75.2876,0,-65.3536 1/1:34:0,32,1:0:0:32,1:1132,36:-101.855,-9.63296,0,-98.9255,-6.67338,-98.6245 1/2:93:0,47,46:0:0:47,46:1662,1626:-266.406,-131.157,-117.008,-135.601,0,-121.753 1/2:53:0,39,14:0:0:39,14:1386,503:-154.077,-41.1404,-29.4002,-113.293,0,-109.079 1/1:118:0,117,1:0:0:117,1:4146,36:-372.942,-35.2205,0,-370.033,-31.9547,-369.732 1/1:56:0,56,0:0:0:56,0:1981,0:-178.538,-16.8577,0,-178.538,-16.8577,-178.538 chr03 19767693 . AAGG CAGG,CAGA 130339 PASS AB=0.479059,0.517397;ABP=14.8331,11.1701;AC=26,16;AF=0.619048,0.380952;AN=42;AO=3086,1852;CIGAR=1X3M,1X2M1X;DP=4955;DPB=4956;DPRA=1.05111,1.82651;EPP=6695.49,4024.58;EPPR=11.6962;GTI=0;LEN=1,4;MEANALT=2.55,2.57895;MQM=59.9796,59.8823;MQMR=60;NS=21;NUMALT=2;ODDS=45.4576;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=50,50;PQR=0;PRO=1;QA=109183,64102;QR=132;RO=4;RPL=1587,1120;RPP=8.45939,179.523;RPPR=3.0103;RPR=1499,732;RUN=1,1;SAF=1588,1120;SAP=8.70989,179.523;SAR=1498,732;SRF=2;SRP=3.0103;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:249:1,115,132:1:35:115,132:4032,4537:-693.354,-365.551,-333.78,-325.23,0,-288.341 1/2:193:0,87,106:0:0:87,106:3068,3685:-549.759,-299.949,-273.76,-250.16,0,-218.251 1/2:183:0,85,97:0:0:85,97:2999,3393:-520.384,-276.177,-250.59,-244.343,0,-215.143 1/1:250:0,249,1:0:0:249,1:8816,35:-793.086,-74.9565,0,-790.238,-71.7589,-789.937 1/1:543:1,531,9:1:36:531,9:18765,321:-1684.51,-156.909,0,-1658.64,-133.672,-1658.87 1/1:309:0,306,3:0:0:306,3:10868,108:-977.67,-92.1152,0,-968.858,-82.9431,-967.955 1/2:374:0,197,175:0:0:197,175:6948,6061:-1058.38,-492.639,-433.336,-565.802,0,-513.122 2/2:225:0,0,225:0:0:0,225:0,7705:-692.497,-692.497,-692.497,-67.7318,-67.7318,0 1/2:370:0,172,198:0:0:172,198:6125,6801:-1051.75,-552.521,-500.744,-499.575,0,-439.971 1/2:47:0,22,25:0:0:22,25:784,847:-132.927,-69.014,-62.3914,-64.2613,0,-56.7355 1/2:19:0,8,11:0:0:8,11:284,396:-55.8096,-32.6714,-30.2632,-23.4951,0,-20.1838 1/2:107:0,56,51:0:0:56,51:2012,1797:-310.791,-146.651,-129.793,-164.495,0,-149.143 1/2:279:1,123,154:1:36:123,154:4369,5325:-785.503,-429.796,-395.707,-353.116,0,-309.695 1/2:255:0,117,137:0:0:117,137:4103,4736:-718.861,-384.971,-349.75,-334.041,0,-292.8 1/2:465:0,210,253:0:0:210,253:7428,8769:-1317.69,-712.681,-649.464,-605.049,0,-528.888 1/2:239:0,115,123:0:0:115,123:4068,4281:-679.428,-348.088,-313.469,-331.332,0,-294.305 1/1:162:0,161,0:0:0:161,0:5712,0:-513.991,-48.4658,0,-513.991,-48.4658,-513.991 1/2:169:0,78,91:0:0:78,91:2749,3160:-481.051,-257.231,-233.75,-224.17,0,-196.776 1/2:155:0,102,53:0:0:102,53:3584,1861:-443.529,-151.815,-121.109,-292.065,0,-276.111 1/1:254:1,244,8:1:25:244,8:8654,284:-776.267,-71.513,0,-753.428,-50.2711,-752.968 1/1:108:0,108,0:0:0:108,0:3815,0:-343.549,-32.5112,0,-343.549,-32.5112,-343.549 chr03 19803511 . C G 34798.6 PASS AB=0.487969;ABP=7.86957;AC=16;AF=0.380952;AN=42;AO=2032;CIGAR=1X;DP=4524;DPB=4524;DPRA=3.73514;EPP=4415.44;EPPR=5388.27;GTI=1;LEN=1;MEANALT=1.31579;MQM=59.7613;MQMR=59.9565;NS=21;NUMALT=1;ODDS=1.46823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72671;QR=88611;RO=2484;RPL=2032;RPP=4415.44;RPPR=5388.27;RPR=0;RUN=1;SAF=2032;SAP=4415.44;SAR=0;SRF=2484;SRP=5396.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:37,50:37:1328:50:1768:-133.209,0,-93.6326 0/1:79:46,33:46:1610:33:1150:-80.0122,0,-121.401 0/1:98:39,59:39:1392:59:2107:-160.308,0,-96.0781 0/0:107:107,0:107:3840:0:0:0,-32.2102,-345.795 0/0:134:129,4:129:4615:4:144:0,-27.0832,-402.197 0/0:139:138,1:138:4922:1:36:0,-38.2449,-439.531 0/1:155:104,51:104:3721:51:1824:-117.772,0,-288.421 1/1:138:1,137:1:36:137:4899:-437.457,-37.9439,0 0/1:128:64,64:64:2287:64:2287:-167.558,0,-167.559 0/1:546:284,261:284:10123:261:9350:-676.95,0,-746.584 0/1:629:323,305:323:11507:305:10909:-792.236,0,-845.895 0/1:1129:551,574:551:19690:574:20607:-1514.96,0,-1432.61 0/1:115:69,46:69:2439:46:1652:-114.345,0,-185.145 0/1:96:40,56:40:1436:56:1953:-147.138,0,-100.639 0/1:50:27,23:27:953:23:824:-59.4318,0,-71.0318 0/1:45:21,24:21:756:24:860:-64.1746,0,-54.8209 0/0:85:84,1:84:3004:1:36:0,-21.9893,-266.993 0/1:656:328,327:328:11680:327:11693:-854.612,0,-853.557 0/1:52:39,13:39:1383:13:464:-26.4412,0,-109.115 0/0:39:36,3:36:1277:3:108:0,-1.665,-105.156 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 chr03 19998972 . T C 9120.73 PASS AB=0.471831;ABP=9.86114;AC=16;AF=0.380952;AN=42;AO=555;CIGAR=1X;DP=1788;DPB=1788;DPRA=0.988372;EPP=1199.51;EPPR=2680.44;GTI=1;LEN=1;MEANALT=1;MQM=59.9117;MQMR=59.9327;NS=21;NUMALT=1;ODDS=6.49657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19567;QR=43987;RO=1233;RPL=1;RPP=1199.51;RPPR=2680.44;RPR=554;RUN=1;SAF=555;SAP=1208.18;SAR=0;SRF=1233;SRP=2680.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:68,36:68:2415:36:1257:-82.1221,0,-186.299 0/1:81:43,38:43:1531:38:1348:-97.2368,0,-113.699 0/1:54:24,30:24:856:30:1051:-78.644,0,-61.1055 0/0:164:164,0:164:5847:0:0:0,-49.3689,-526.344 0/0:269:261,8:261:9278:8:275:0,-55.8936,-809.8 0/0:55:54,1:54:1928:1:36:0,-12.9584,-170.198 0/1:100:52,48:52:1868:48:1664:-119.937,0,-138.296 1/1:75:0,75:0:0:75:2653:-239.013,-22.5773,0 0/1:42:27,15:27:956:15:527:-35.1169,0,-72.5911 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:43:22,21:22:792:21:735:-53.5271,0,-58.6614 0/1:110:54,56:54:1923:56:2004:-147.52,0,-140.233 0/1:83:41,42:41:1460:42:1490:-109.394,0,-106.711 0/1:167:81,86:81:2908:86:3029:-222.542,0,-211.683 0/1:27:17,10:17:604:10:356:-24.2534,0,-46.5628 0/0:43:43,0:43:1535:0:0:0,-12.9443,-138.442 0/1:103:45,58:45:1616:58:2034:-152.326,0,-114.724 0/1:63:41,22:41:1434:22:784:-51.919,0,-110.389 0/0:137:135,2:135:4852:2:72:0,-34.4044,-429.984 0/0:51:51,0:51:1824:0:0:0,-15.3525,-164.441 chr03 19999014 . G A 72024.2 PASS AB=0.593312;ABP=170.379;AC=26;AF=0.619048;AN=42;AO=2544;CIGAR=1X;DP=3686;DPB=3686;DPRA=0.747835;EPP=418.871;EPPR=7.57972;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9619;MQMR=59.9886;NS=21;NUMALT=1;ODDS=2.71762;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91005;QR=40717;RO=1141;RPL=1974;RPP=1685.57;RPPR=187.083;RPR=570;RUN=1;SAF=1051;SAP=169.766;SAR=1493;SRF=180;SRP=1163.85;SRR=961;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:252:71,181:71:2535:181:6458:-505.447,0,-152.539 0/1:68:38,30:38:1356:30:1080:-77.0432,0,-101.87 0/1:119:44,75:44:1572:75:2680:-205.623,0,-105.949 1/1:252:1,251:1:36:251:8951:-801.973,-72.2613,0 1/1:445:6,439:6:216:439:15697:-1392.52,-114.168,0 1/1:132:0,132:0:0:132:4717:-424.688,-39.736,0 0/1:187:97,90:97:3447:90:3185:-230.578,0,-254.152 0/0:231:231,0:231:8238:0:0:0,-69.5379,-741.43 0/1:304:156,148:156:5573:148:5302:-384.338,0,-410.18 0/1:31:14,17:14:488:17:612:-46.0815,0,-34.9185 0/1:12:5,7:5:180:7:248:-19.0518,0,-12.9397 0/1:100:52,48:52:1845:48:1724:-125.342,0,-136.225 0/1:182:50,131:50:1791:131:4704:-368.672,0,-106.626 0/1:146:53,93:53:1891:93:3339:-256.775,0,-126.517 0/1:346:122,224:122:4368:224:8044:-619.819,0,-289.138 0/1:131:65,66:65:2324:66:2357:-172.952,0,-169.985 1/1:97:0,97:0:0:97:3454:-311.073,-29.1999,0 0/1:215:110,105:110:3921:105:3741:-272.169,0,-288.361 0/1:120:22,98:22:792:98:3516:-280.526,0,-35.4821 1/1:237:4,233:4:144:233:8356:-738.718,-58.0305,0 1/1:79:0,79:0:0:79:2840:-255.838,-23.7814,0 chr03 20002722 . CACAG CACTG,GACTGAT 30872.8 PASS AB=0.473333,0.518095;ABP=9.49576,5.99659;AC=26,16;AF=0.619048,0.380952;AN=42;AO=877,660;CIGAR=3M1X1M,1X2M2I1M1X;DP=1550;DPB=1814.8;DPRA=0.623913,1.11633;EPP=1907.39,1436.18;EPPR=0;GTI=0;LEN=1,7;MEANALT=2.35,2.5625;MQM=59.9852,40.753;MQMR=0;NS=21;NUMALT=2;ODDS=10.2925;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31331,23034;QR=0;RO=0;RPL=877,660;RPP=1907.39,1436.18;RPPR=0;RPR=0,0;RUN=1,1;SAF=877,660;SAP=1907.39,1436.18;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:57:0,35,20:0:0:35,20:1256,674:-155.636,-53.1646,-42.6285,-102.516,0,-96.4952 1/2:68:0,27,41:0:0:27,41:968,1463:-190.838,-111.877,-103.75,-79.3096,0,-66.9673 1/2:72:0,37,35:0:0:37,35:1332,1230:-205.332,-96.6369,-85.4988,-109.044,0,-98.5082 1/1:75:0,75,0:0:0:75,0:2676,0:-241.083,-22.5773,0,-241.083,-22.5773,-241.083 1/1:109:0,109,0:0:0:109,0:3874,0:-348.851,-32.8123,0,-348.851,-32.8123,-348.851 1/1:35:0,33,0:0:0:33,0:1180,0:-106.192,-9.93399,0,-106.192,-9.93399,-106.192 1/2:118:0,49,68:0:0:49,68:1756,2339:-326.798,-183.572,-168.822,-143.292,0,-122.822 2/2:115:0,0,114:0:0:0,114:0,4013:-346.644,-346.644,-346.644,-34.3174,-34.3174,0 1/2:97:0,44,52:0:0:44,52:1563,1824:-272.456,-145.09,-131.845,-127.356,0,-111.702 1/2:29:0,16,13:0:0:16,13:576,442:-80.8358,-33.815,-28.9986,-47.3585,0,-43.4451 1/2:10:0,5,5:0:0:5,5:180,176:-28.9055,-14.2093,-12.7042,-15.0469,0,-13.5418 1/2:20:0,13,7:0:0:13,7:468,241:-57.4382,-19.2346,-15.3213,-38.5463,0,-36.439 1/2:81:0,29,52:0:0:29,52:1040,1816:-227.749,-142.915,-134.186,-85.1845,0,-69.5309 1/2:80:0,40,40:0:0:40,40:1415,1380:-223.902,-108.64,-96.599,-115.605,0,-103.564 1/2:183:0,79,102:0:0:79,102:2808,3531:-506.12,-277.29,-253.509,-228.822,0,-198.117 1/2:39:0,12,27:0:0:12,27:432,950:-111.283,-76.0295,-72.4172,-35.6088,0,-27.481 1/1:77:0,76,0:0:0:76,0:2718,0:-244.583,-22.8783,0,-244.583,-22.8783,-244.583 1/2:126:0,65,59:0:0:65,59:2336,2067:-350.928,-160.342,-140.775,-190.622,0,-172.861 1/2:70:0,46,23:0:0:46,23:1642,820:-198.212,-64.34,-50.4926,-133.87,0,-126.946 1/1:46:0,44,2:0:0:44,2:1571,68:-141.35,-13.2453,0,-136.022,-7.58628,-135.42 1/1:43:0,43,0:0:0:43,0:1540,0:-138.885,-12.9443,0,-138.885,-12.9443,-138.885 chr03 20003059 . TACCT CACCA,CACCT 58666.6 PASS AB=0.740375,0.252715;ABP=511.407,541.057;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2316,428;CIGAR=1X3M1X,1X4M;DP=2764;DPB=2763.8;DPRA=0.883784,0.760652;EPP=4980.16,923.735;EPPR=0;GTI=4;LEN=5,1;MEANALT=2.45,2.64706;MQM=51.9922,59.6589;MQMR=0;NS=21;NUMALT=2;ODDS=13.759;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=81843,15334;QR=0;RO=0;RPL=2310,427;RPP=4980.16,923.735;RPPR=0;RPR=6,1;RUN=1,1;SAF=0,0;SAP=5032.14,932.4;SAR=2316,428;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:228:0,210,17:0:0:210,17:7430,597:-666.027,-63.2163,0,-617.448,-14.6086,-612.331 1/1:67:0,64,3:0:0:64,3:2275,108:-203.791,-19.2659,0,-194.979,-10.0938,-194.076 1/2:139:0,95,43:0:0:95,43:3376,1548:-400.786,-126.368,-97.7698,-274.475,0,-261.531 1/1:214:0,214,0:0:0:214,0:7558,0:-677.108,-64.4204,0,-677.108,-64.4204,-677.108 1/1:360:0,356,3:0:0:356,3:12552,104:-1124.12,-107.167,0,-1115.66,-98.7129,-1114.76 1/1:190:0,187,1:0:0:187,1:6579,36:-588.833,-56.2926,0,-585.896,-53.3471,-585.595 1/2:147:0,128,19:0:0:128,19:4519,684:-421.96,-56.1708,-17.6389,-366.148,0,-360.429 2/2:148:0,0,144:0:0:0,144:0,5154:-463.59,-463.59,-463.59,-43.3483,-43.3483,0 1/2:223:0,167,55:0:0:167,55:5872,1976:-636.809,-161.178,-110.906,-475.629,0,-459.073 1/2:10:0,9,1:0:0:9,1:318,36:-29.1509,-3.29724,-0.587975,-26.2127,0,-25.9117 1/2:7:0,5,2:0:0:5,2:171,72:-20.0634,-6.23466,-4.72951,-14.1832,0,-13.5812 1/1:25:0,24,1:0:0:24,1:847,36:-75.8996,-7.22472,0,-72.9618,-3.92748,-72.6608 1/2:140:0,76,64:0:0:76,64:2677,2291:-404.157,-187.174,-164.296,-217.338,0,-198.072 1/2:140:0,112,25:0:0:112,25:3940,900:-393.029,-73.4213,-39.706,-319.617,0,-312.091 1/2:146:0,124,20:0:0:124,20:4429,716:-418.439,-58.4019,-21.0742,-360.05,0,-354.029 1/1:80:0,75,3:0:0:75,3:2667,108:-238.145,-22.5773,0,-229.333,-13.7545,-228.429 1/1:195:0,195,0:0:0:195,0:6896,0:-617.692,-58.7009,0,-617.692,-58.7009,-617.692 1/2:32:0,18,14:0:0:18,14:643,504:-93.3369,-41.4837,-36.0651,-52.2103,0,-47.9959 1/2:29:0,16,13:0:0:16,13:567,464:-84.1212,-38.1779,-33.3614,-46.2982,0,-42.3848 1/1:203:0,200,0:0:0:200,0:7066,0:-633.244,-60.206,0,-633.244,-60.206,-633.244 1/1:41:0,41,0:0:0:41,0:1461,0:-130.656,-12.3422,0,-130.656,-12.3422,-130.656 chr03 20006034 . AA GT,AT 104961 PASS AB=0.502292,0.495743;ABP=3.14966,3.49095;AC=26,16;AF=0.619048,0.380952;AN=42;AO=3174,1716;CIGAR=2X,1M1X;DP=4901;DPB=4905;DPRA=1.25346,1.69856;EPP=6886.58,3729.26;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.4,2.47368;MQM=59.9417,59.9977;MQMR=43;NS=21;NUMALT=2;ODDS=49.5633;PAIRED=0,0;PAIREDR=0;PAO=4.5,3.5;PQA=160,124;PQR=0;PRO=0;QA=112165,61368;QR=25;RO=1;RPL=3131,1698;RPP=6526.83,3574.55;RPPR=5.18177;RPR=43,18;RUN=1,1;SAF=3132,1698;SAP=6535.28,3574.55;SAR=42,18;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:206:0,104,102:0:0:104,102:3684,3663:-599.258,-299.167,-267.86,-300.447,0,-269.742 1/2:293:0,143,149:0:0:143,149:5084,5320:-848.041,-433.798,-390.75,-414.319,0,-369.465 1/2:291:0,159,132:0:0:159,132:5637,4736:-845.892,-386.661,-338.798,-459.587,0,-419.851 1/1:309:0,307,1:0:0:307,1:10841,32:-974.89,-92.4162,0,-972.311,-89.8578,-972.01 1/1:507:0,500,5:0:0:500,5:17697,180:-1591.97,-150.515,0,-1577.28,-135.828,-1575.78 1/1:209:0,209,0:0:0:209,0:7372,0:-663.532,-62.9153,0,-663.532,-62.9153,-663.532 1/2:372:0,174,197:0:0:174,197:6201,7010:-1076.84,-571.388,-519.008,-505.535,0,-446.232 2/2:188:0,0,188:0:0:0,188:0,6718:-604.693,-604.693,-604.693,-56.5936,-56.5936,0 1/2:424:0,198,226:0:0:198,226:6992,8108:-1230.82,-661.46,-601.856,-569.475,0,-501.443 1/2:30:0,13,17:0:0:13,17:466,612:-88.3023,-50.2959,-46.3825,-38.3653,0,-33.2478 1/2:29:0,10,19:0:0:10,19:358,665:-83.6516,-54.4541,-51.4438,-29.5526,0,-23.833 1/2:63:0,35,28:0:0:35,28:1245,1004:-183.707,-82.247,-71.711,-101.817,0,-93.3884 1/2:215:1,118,96:1:25:118,96:4148,3436:-615.687,-278.362,-244.783,-335.789,0,-308.832 1/2:339:0,155,183:0:0:155,183:5474,6546:-979.628,-533.851,-487.192,-445.851,0,-390.763 1/2:298:0,152,145:0:0:152,145:5360,5154:-856.552,-420.139,-374.383,-436.555,0,-392.906 1/2:231:0,107,123:0:0:107,123:3775,4428:-668.604,-361.223,-329.012,-307.298,0,-270.272 1/1:189:0,186,2:0:0:186,2:6542,72:-588.523,-55.9916,0,-582.648,-50.0836,-582.046 1/2:143:0,84,59:0:0:84,59:2948,2116:-412.499,-172.588,-147.302,-239.906,0,-222.146 1/2:120:0,82,38:0:0:82,38:2866,1352:-343.679,-110.541,-85.8568,-233.492,0,-222.053 1/1:368:0,361,6:0:0:361,6:12756,216:-1147.49,-108.672,0,-1129.87,-91.0473,-1128.06 1/1:77:0,77,0:0:0:77,0:2719,0:-244.952,-23.1793,0,-244.952,-23.1793,-244.952 chr03 20045364 . T C 36271.4 PASS AB=0.530748;ABP=17.8329;AC=26;AF=0.619048;AN=42;AO=1818;CIGAR=1X;DP=2795;DPB=2795;DPRA=1.08618;EPP=3950.75;EPPR=2122.37;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9274;MQMR=59.9857;NS=21;NUMALT=1;ODDS=7.38585;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65037;QR=34967;RO=976;RPL=0;RPP=3950.75;RPPR=2122.37;RPR=1818;RUN=1;SAF=1818;SAP=3950.75;SAR=0;SRF=976;SRP=2122.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:197:81,116:81:2908:116:4164:-315.625,0,-202.652 0/1:154:84,70:84:2976:70:2493:-178.263,0,-221.714 0/1:112:73,39:73:2611:39:1404:-92.9439,0,-201.522 1/1:103:0,103:0:0:103:3671:-330.594,-31.0061,0 1/1:347:4,343:4:144:343:12296:-1093.16,-91.1438,0 1/1:131:1,130:1:36:130:4663:-416.232,-35.8367,0 0/1:202:99,103:99:3544:103:3660:-268.796,0,-258.361 0/0:123:123,0:123:4400:0:0:0,-37.0267,-396.137 0/1:239:106,133:106:3796:133:4776:-358.03,0,-269.892 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:8:4,4:4:144:4:140:-10.5363,0,-10.9054 0/1:56:30,26:30:1076:26:932:-67.3412,0,-80.2952 0/1:182:84,98:84:3016:98:3524:-262.581,0,-216.883 0/1:121:46,75:46:1652:75:2681:-205.109,0,-112.544 0/1:224:104,120:104:3740:120:4299:-319.616,0,-269.368 0/1:135:61,74:61:2188:74:2637:-196.918,0,-156.547 1/1:112:0,112:0:0:112:3998:-359.993,-33.7154,0 0/1:86:43,43:43:1548:43:1548:-113.707,0,-113.724 0/1:81:28,53:28:1008:53:1887:-145.724,0,-66.6529 1/1:120:1,118:1:36:118:4193:-374.023,-32.5092,0 1/1:54:0,54:0:0:54:1927:-173.706,-16.2556,0 chr03 20045374 . A C 36499.9 PASS AB=0.527671;ABP=15.1479;AC=26;AF=0.619048;AN=42;AO=1821;CIGAR=1X;DP=2810;DPB=2810;DPRA=1.11116;EPP=3931.25;EPPR=2150.6;GTI=0;LEN=1;MEANALT=1;MQM=59.9028;MQMR=60;NS=21;NUMALT=1;ODDS=3.37643;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65185;QR=35338;RO=989;RPL=3;RPP=3931.25;RPPR=2150.6;RPR=1818;RUN=1;SAF=1821;SAP=3957.26;SAR=0;SRF=989;SRP=2150.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:198:83,115:83:2980:115:4103:-309.849,0,-208.828 0/1:156:84,72:84:2978:72:2582:-185.65,0,-221.29 0/1:112:73,39:73:2594:39:1400:-92.5838,0,-199.99 1/1:103:0,103:0:0:103:3692:-332.482,-31.0061,0 1/1:346:4,342:4:144:342:12223:-1086.6,-90.8428,0 1/1:128:1,127:1:36:127:4568:-407.685,-34.9336,0 0/1:208:104,104:104:3728:104:3712:-271.668,0,-273.106 0/0:121:121,0:121:4321:0:0:0,-36.4246,-389.065 0/1:238:108,130:108:3865:130:4645:-346.548,0,-276.398 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:56:30,26:30:1076:26:936:-67.7018,0,-80.2952 0/1:185:84,101:84:2997:101:3624:-270.674,0,-214.27 0/1:122:48,74:48:1690:74:2660:-202.92,0,-115.657 0/1:229:107,122:107:3829:122:4369:-324.442,0,-275.869 0/1:135:62,73:62:2224:73:2614:-194.811,0,-159.785 1/1:112:0,112:0:0:112:4018:-361.779,-33.7154,0 0/1:88:43,45:43:1544:45:1616:-119.22,0,-112.762 0/1:83:29,54:29:1044:54:1906:-146.821,0,-69.2893 1/1:122:1,121:1:36:121:4333:-386.466,-33.1274,0 1/1:53:0,53:0:0:53:1896:-170.918,-15.9546,0 chr03 20152404 . A G 39245.3 PASS AB=0.501294;ABP=3.05528;AC=26;AF=0.619048;AN=42;AO=2122;CIGAR=1X;DP=3757;DPB=3757;DPRA=2.03722;EPP=4610.87;EPPR=3546.85;GTI=0;LEN=1;MEANALT=1.15;MQM=59.6348;MQMR=59.9779;NS=21;NUMALT=1;ODDS=11.4763;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75732;QR=58268;RO=1632;RPL=2122;RPP=4610.87;RPPR=3546.85;RPR=0;RUN=1;SAF=0;SAP=4610.87;SAR=2122;SRF=0;SRP=3546.85;SRR=1632;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:62,36:62:2216:36:1296:-87.443,0,-170.204 0/1:87:37,50:37:1332:50:1788:-134.895,0,-93.9928 0/1:86:44,42:44:1565:42:1511:-110.392,0,-115.251 1/1:118:1,117:1:36:117:4176:-372.372,-31.9233,0 1/1:176:1,175:1:36:175:6257:-559.432,-49.383,0 1/1:84:0,84:0:0:84:2971:-267.608,-25.2865,0 0/1:101:48,53:48:1724:53:1874:-138.528,0,-125.041 0/0:90:90,0:90:3221:0:0:0,-27.0927,-290.11 0/1:163:74,89:74:2645:89:3192:-238.254,0,-189.227 0/1:318:172,146:172:6125:146:5191:-371.582,0,-455.62 0/1:472:263,209:263:9356:209:7451:-528.491,0,-699.913 0/1:1034:504,529:504:17980:529:18906:-1389.12,0,-1306.48 0/1:85:47,38:47:1680:38:1348:-96.0291,0,-125.9 0/1:115:49,64:49:1752:64:2296:-172.53,0,-123.607 0/1:43:18,25:18:648:25:896:-68.0161,0,-45.7076 0/1:79:39,40:39:1396:40:1413:-103.676,0,-102.158 1/1:93:0,93:0:0:93:3329:-299.776,-27.9958,0 0/1:376:175,201:175:6268:201:7161:-531.328,0,-451.026 0/1:33:6,27:6:216:27:956:-76.4199,0,-9.85652 1/1:70:2,68:2:72:68:2432:-212.295,-14.2354,0 1/1:36:0,36:0:0:36:1288:-116.211,-10.8371,0 chr03 20175854 . CCCT TCCA,CCCA 40674.2 PASS AB=0.498485,0.49697;ABP=3.03662,3.11558;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1177,813;CIGAR=1X2M1X,3M1X;DP=1998;DPB=1998;DPRA=0.602941,1.30625;EPP=2558.83,1768.42;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.3,2.26316;MQM=59.7103,59.9459;MQMR=0;NS=21;NUMALT=2;ODDS=8.09146;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41088,28882;QR=0;RO=0;RPL=1177,813;RPP=2558.83,1768.42;RPPR=0;RPR=0,0;RUN=1,1;SAF=1177,813;SAP=2558.83,1768.42;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,49,47:0:0:49,47:1699,1672:-274.372,-136.288,-121.537,-138.104,0,-123.956 1/2:43:0,22,21:0:0:22,21:781,752:-125.319,-61.6846,-55.062,-63.9908,0,-57.6692 1/2:98:0,47,50:0:0:47,50:1660,1776:-280.056,-144.868,-130.72,-135.337,0,-120.285 1/1:84:0,83,1:0:0:83,1:2866,36:-257.813,-24.9855,0,-254.876,-21.6882,-254.575 1/1:135:0,134,1:0:0:134,1:4637,36:-417.106,-40.338,0,-414.169,-37.0408,-413.868 1/1:69:0,68,1:0:0:68,1:2407,36:-216.525,-20.47,0,-213.588,-17.1728,-213.287 1/2:200:0,95,105:0:0:95,105:3276,3751:-572.275,-306.182,-277.584,-266.444,0,-234.835 2/2:153:0,0,153:0:0:0,153:0,5433:-488.969,-488.969,-488.969,-46.0576,-46.0576,0 1/2:154:0,103,51:0:0:103,51:3654,1836:-447.862,-150.168,-119.162,-298.052,0,-282.7 1/2:26:0,13,13:0:0:13,13:464,463:-75.9214,-38.0935,-34.1801,-38.1843,0,-34.2709 1/2:11:0,8,2:0:0:8,2:273,72:-27.838,-5.98139,-3.57315,-21.9562,0,-21.3541 1/2:39:0,24,15:0:0:24,15:827,540:-111.588,-44.4211,-37.1964,-67.5203,0,-63.0049 1/2:18:0,8,10:0:0:8,10:284,360:-52.8724,-29.734,-27.3258,-23.4955,0,-20.4852 1/2:77:0,32,44:0:0:32,44:1095,1558:-215.886,-127.013,-117.38,-88.9665,0,-75.7212 1/2:191:0,84,106:0:0:84,106:2963,3792:-550.44,-309.21,-283.923,-241.225,0,-209.316 1/2:53:0,32,21:0:0:32,21:1105,748:-151.093,-61.3237,-51.6907,-90.1215,0,-83.7999 1/1:87:0,85,0:0:0:85,0:2980,0:-268.056,-25.5876,0,-268.056,-25.5876,-268.056 1/2:235:0,96,139:0:0:96,139:3366,4876:-671.05,-397.148,-368.249,-274.252,0,-232.409 1/2:77:0,45,32:0:0:45,32:1556,1109:-216.916,-90.4816,-76.9352,-126.78,0,-117.147 1/1:88:0,87,1:0:0:87,1:3038,36:-273.251,-26.1896,0,-270.314,-22.8924,-270.013 1/1:62:0,62,0:0:0:62,0:2157,0:-194.389,-18.6639,0,-194.389,-18.6639,-194.389 chr03 20197940 . CGTT TCTC,TCTT 55725.4 PASS AB=0.491576,0.504212;ABP=4.03463,3.26638;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1672,1014;CIGAR=2X1M1X,2X2M;DP=2696;DPB=2696;DPRA=2.58998,0.94193;EPP=3625.03,2204.88;EPPR=0;GTI=1;LEN=4,2;MEANALT=2.38889,2.26316;MQM=54.4121,59.6834;MQMR=0;NS=21;NUMALT=2;ODDS=4.50441;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59181,35954;QR=0;RO=0;RPL=1672,1014;RPP=3633.71,2204.88;RPPR=0;RPR=0,0;RUN=1,1;SAF=1,0;SAP=3625.03,2204.88;SAR=1671,1014;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:218:0,113,102:0:0:113,102:3978,3623:-618.343,-295.208,-261.192,-323.129,0,-292.424 1/2:127:0,62,65:0:0:62,65:2188,2293:-364.671,-187.045,-168.382,-177.978,0,-158.411 1/2:123:0,60,63:0:0:60,63:2116,2244:-355.2,-183.256,-165.194,-172.298,0,-153.333 1/1:119:0,118,0:0:0:118,0:4192,0:-376.523,-35.5215,0,-376.523,-35.5215,-376.523 1/1:280:0,276,4:0:0:276,4:9768,144:-877.252,-83.0843,0,-865.505,-70.9772,-864.301 1/1:152:0,152,0:0:0:152,0:5386,0:-482.629,-45.7566,0,-482.629,-45.7566,-482.629 1/2:194:0,83,111:0:0:83,111:2939,3951:-560.739,-322.13,-297.145,-238.963,0,-205.549 2/2:143:0,0,143:0:0:0,143:0,5051:-454.714,-454.714,-454.714,-43.0473,-43.0473,0 1/2:172:0,81,91:0:0:81,91:2899,3250:-501.64,-265.319,-240.936,-236.678,0,-209.284 2/2:14:0,0,14:0:0:0,14:0,482:-43.7053,-43.7053,-43.7053,-4.21442,-4.21442,0 2/2:6:0,0,6:0:0:0,6:0,214:-19.6025,-19.6025,-19.6025,-1.80618,-1.80618,0 1/2:43:0,21,22:0:0:21,22:754,774:-124.717,-63.358,-57.0364,-61.7138,0,-55.0911 1/2:181:0,81,97:0:0:81,97:2872,3420:-511.662,-278.371,-253.987,-233.285,0,-204.085 1/2:152:0,85,66:0:0:85,66:3028,2314:-434.779,-188.424,-162.837,-246.5,0,-226.632 1/2:182:0,82,100:0:0:82,100:2921,3584:-530.466,-292.565,-267.881,-238.257,0,-208.154 1/2:114:0,53,61:0:0:53,61:1870,2155:-327.155,-175.849,-159.894,-151.658,0,-133.295 1/1:125:0,124,1:0:0:124,1:4378,36:-393.576,-37.3277,0,-390.639,-34.0305,-390.338 1/2:84:0,48,36:0:0:48,36:1693,1281:-241.805,-104.749,-90.2997,-137.409,0,-126.572 1/2:72:0,48,24:0:0:48,24:1654,850:-203.572,-69.5073,-55.0579,-134.415,0,-127.19 1/1:124:0,117,7:0:0:117,7:4127,252:-369.99,-35.2205,0,-349.427,-14.2988,-347.32 1/1:71:0,68,1:0:0:68,1:2418,36:-216.515,-20.47,0,-213.578,-17.5226,-213.277 chr03 20198120 . CG TT,CT 42180.5 PASS AB=0.563244,0.436012;ABP=49.7034,50.8085;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1421,636;CIGAR=2X,1M1X;DP=2060;DPB=2060;DPRA=2.18913,1.34665;EPP=3088.67,1384.07;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.9,2;MQM=49.6692,59.3931;MQMR=0;NS=21;NUMALT=2;ODDS=12.3248;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50120,22651;QR=0;RO=0;RPL=0,0;RPP=3088.67,1384.07;RPPR=0;RPR=1421,636;RUN=1,1;SAF=1421,636;SAP=3088.67,1384.07;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:122:0,68,54:0:0:68,54:2359,1932:-347.498,-157.887,-137.417,-189.962,0,-173.707 1/2:58:0,37,21:0:0:37,21:1306,752:-167.372,-61.6764,-50.5383,-106.051,0,-99.7289 1/2:112:0,52,60:0:0:52,60:1842,2139:-323.533,-174.702,-159.048,-149.185,0,-131.123 1/1:106:0,105,0:0:0:105,0:3685,0:-329.519,-31.6082,0,-329.519,-31.6082,-329.519 1/1:249:0,246,3:0:0:246,3:8673,104:-775.123,-74.0534,0,-766.687,-65.2723,-765.784 1/1:106:0,106,0:0:0:106,0:3729,0:-334.455,-31.9092,0,-334.455,-31.9092,-334.455 1/2:211:0,121,89:0:0:121,89:4276,3177:-604.839,-258.881,-222.456,-346.002,0,-319.211 2/2:46:0,0,46:0:0:0,46:0,1652:-148.958,-148.958,-148.958,-13.8474,-13.8474,0 1/2:155:0,84,71:0:0:84,71:2978,2518:-445.629,-205.21,-179.924,-240.771,0,-219.398 1/2:17:0,10,7:0:0:10,7:349,235:-47.6659,-19.3695,-16.3592,-28.637,0,-26.5298 1/1:8:0,8,0:0:0:8,0:288,0:-26.2096,-2.40824,0,-26.2096,-2.40824,-26.2096 1/2:53:0,19,34:0:0:19,34:676,1216:-154.405,-99.5009,-93.7813,-55.2599,0,-45.0249 1/2:113:0,80,33:0:0:80,33:2822,1184:-323.1,-96.9068,-72.8244,-226.549,0,-216.615 1/2:139:0,84,55:0:0:84,55:2914,1937:-392.895,-157.997,-132.71,-235.248,0,-218.691 1/2:156:0,70,86:0:0:70,86:2503,3045:-450.444,-248.317,-227.245,-202.481,0,-176.593 1/2:78:0,40,38:0:0:40,38:1429,1364:-227.453,-111.622,-99.5804,-116.189,0,-104.75 1/1:68:0,68,0:0:0:68,0:2379,0:-212.48,-20.47,0,-212.48,-20.47,-212.48 1/2:68:0,45,23:0:0:45,23:1596,824:-196.194,-67.5596,-54.0133,-128.99,0,-122.066 1/2:62:0,47,15:0:0:47,15:1656,536:-177.856,-44.0594,-29.911,-134.152,0,-129.636 1/1:100:0,99,0:0:0:99,0:3514,0:-314.556,-29.802,0,-314.556,-29.802,-314.556 1/1:33:0,32,1:0:0:32,1:1146,36:-102.566,-9.63296,0,-99.6289,-6.33572,-99.3279 chr03 20198208 . ACCTCCTCCTCTTTA ACCTCCACTTTA 9852.94 PASS AB=0.423077;ABP=60.4708;AC=17;AF=0.404762;AN=42;AO=599;CIGAR=1M3D5M1X5M;DP=1943;DPB=1822.47;DPRA=0.939967;EPP=1303.72;EPPR=2871.53;GTI=1;LEN=12;MEANALT=1.94118;MQM=53.5225;MQMR=59.9682;NS=21;NUMALT=1;ODDS=2.66426;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21162;QR=46233;RO=1321;RPL=599;RPP=1303.72;RPPR=2871.53;RPR=0;RUN=1;SAF=0;SAP=1303.72;SAR=599;SRF=0;SRP=2871.53;SRR=1321;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:52,36:52:1827:36:1271:-87.7708,0,-138.222 0/1:72:41,31:41:1453:31:1116:-78.8709,0,-109.392 0/1:65:36,29:36:1241:29:1024:-72.6623,0,-92.4239 0/0:167:165,0:165:5758:0:0:0,-49.6699,-517.999 0/0:239:229,2:229:8001:2:57:0,-64.4209,-714.706 0/0:60:60,0:60:2095:0:0:0,-18.0618,-188.821 0/1:139:79,60:79:2760:60:2117:-148.765,0,-206.803 1/1:119:0,119:0:0:119:4227:-379.969,-35.8226,0 0/1:157:92,62:92:3193:62:2201:-151.332,0,-240.936 0/1:14:6,7:6:212:7:248:-18.3619,0,-15.1525 1/1:4:0,4:0:0:4:132:-12.199,-1.20412,0 0/1:21:11,10:11:391:10:360:-26.3775,0,-29.2081 0/1:97:59,37:59:2061:37:1301:-87.8507,0,-156.505 0/1:78:42,33:42:1471:33:1150:-80.5235,0,-109.784 0/1:121:58,61:58:2028:61:2133:-155.465,0,-146.671 0/1:113:70,43:70:2468:43:1521:-102.67,0,-188.362 0/0:114:113,0:113:3936:0:0:0,-34.0164,-354.079 0/1:89:42,47:42:1487:47:1672:-123.689,0,-107.334 0/1:64:46,17:46:1606:17:596:-34.4505,0,-125.505 0/0:74:73,1:73:2579:1:36:0,-18.683,-228.771 0/0:48:47,0:47:1666:0:0:0,-14.1484,-149.869 chr03 20202459 . T A 12042.5 PASS AB=0.517737;ABP=5.86049;AC=15;AF=0.357143;AN=42;AO=680;CIGAR=1X;DP=1663;DPB=1663;DPRA=1.987;EPP=1479.61;EPPR=2137.57;GTI=0;LEN=1;MEANALT=1;MQM=59.5971;MQMR=59.9878;NS=21;NUMALT=1;ODDS=0.0735253;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24275;QR=35137;RO=983;RPL=0;RPP=1479.61;RPPR=2137.57;RPR=680;RUN=1;SAF=0;SAP=1479.61;SAR=680;SRF=0;SRP=2137.57;SRR=983;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:34,43:34:1212:43:1520:-113.904,0,-86.207 0/1:39:28,11:28:1004:11:392:-23.8799,0,-78.9357 0/1:68:31,37:31:1116:37:1332:-99.7123,0,-80.2817 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.261 0/0:150:142,8:142:5068:8:280:0,-19.6161,-430.726 0/0:53:53,0:53:1892:0:0:0,-15.9546,-170.558 0/1:102:52,50:52:1860:50:1796:-131.181,0,-136.975 1/1:128:0,128:0:0:128:4579:-412.169,-38.5318,0 0/1:135:52,83:52:1864:83:2960:-225.935,0,-127.399 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:17:11,6:11:392:6:216:-14.673,0,-30.5025 0/1:104:45,59:45:1612:59:2099:-157.867,0,-114.063 0/1:88:44,44:44:1580:44:1576:-115.621,0,-116.001 0/1:143:71,72:71:2536:72:2562:-187.771,0,-185.444 0/1:46:18,28:18:648:28:1004:-76.8267,0,-44.8045 0/0:56:56,0:56:1996:0:0:0,-16.8577,-179.914 0/1:128:56,72:56:2012:72:2555:-191.65,0,-142.821 0/1:92:59,33:59:2108:33:1188:-79.5268,0,-162.294 0/0:116:112,4:112:4008:4:144:0,-21.6059,-347.591 0/0:49:49,0:49:1717:0:0:0,-14.7505,-154.813 chr03 20320634 . CGTCTATG CGTTTATG,TGTTTATA 26837.1 PASS AB=0.479393,0.513015;ABP=6.41117,4.36688;AC=26,16;AF=0.619048,0.380952;AN=42;AO=797,559;CIGAR=3M1X4M,1X2M1X3M1X;DP=1364;DPB=1364.12;DPRA=0.761905,1.09892;EPP=1733.67,1216.86;EPPR=9.52472;GTI=0;LEN=1,8;MEANALT=2,2.25;MQM=59.7114,38.5742;MQMR=60;NS=21;NUMALT=2;ODDS=2.84914;PAIRED=0,0;PAIREDR=0;PAO=0,3;PQA=0,100;PQR=0;PRO=0;QA=28379,19479;QR=108;RO=3;RPL=0,0;RPP=1733.67,1216.86;RPPR=9.52472;RPR=797,559;RUN=1,1;SAF=0,0;SAP=1733.67,1216.86;SAR=797,559;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,62,38:0:0:62,38:2220,1330:-285.228,-104.181,-85.5174,-181.391,0,-169.952 1/2:52:0,26,26:0:0:26,26:932,906:-145.27,-69.2489,-61.4221,-76.3639,0,-68.5371 1/2:42:0,22,20:0:0:22,20:792,712:-120.578,-55.9457,-49.3231,-64.983,0,-58.9624 1/1:59:0,59,0:0:0:59,0:2104,0:-189.62,-17.7608,0,-189.62,-17.7608,-189.62 1/1:148:0,148,0:0:0:148,0:5316,0:-478.457,-44.5524,0,-478.457,-44.5524,-478.457 1/1:33:0,33,0:0:0:33,0:1161,0:-104.795,-9.93399,0,-104.795,-9.93399,-104.795 1/2:114:0,52,61:0:0:52,61:1824,2127:-310.673,-162.241,-146.588,-148.434,0,-130.071 2/2:84:0,0,84:0:0:0,84:0,2936:-251.932,-251.932,-251.932,-25.2865,-25.2865,0 1/2:110:0,49,61:0:0:49,61:1741,2129:-300.305,-158.467,-143.716,-142.178,0,-123.815 1/2:20:0,12,8:0:0:12,8:428,267:-56.0124,-21.1018,-17.4894,-35.2464,0,-32.8382 1/2:5:0,4,1:0:0:4,1:144,33:-14.2029,-2.3798,-1.17568,-12.1095,0,-11.8085 1/2:19:0,6,13:0:0:6,13:204,454:-52.3465,-35.7981,-33.9919,-16.8872,0,-12.9738 1/2:50:0,22,27:0:0:22,27:792,937:-138.046,-73.4149,-66.7923,-64.7237,0,-56.5959 1/2:52:0,26,26:0:0:26,26:928,910:-146.422,-70.7695,-62.9427,-75.9976,0,-68.1709 1/2:163:3,71,88:3:108:71,88:2514,3078:-433.464,-229.581,-217.021,-195.974,0,-178.296 1/2:74:0,32,41:0:0:32,41:1152,1434:-201.376,-107.386,-97.7526,-94.0231,0,-81.6809 1/1:44:0,44,0:0:0:44,0:1569,0:-141.482,-13.2453,0,-141.482,-13.2453,-141.482 1/2:74:0,33,41:0:0:33,41:1137,1402:-202.178,-109.825,-99.8911,-92.6905,0,-80.3483 1/2:47:0,25,22:0:0:25,22:888,753:-131.671,-59.3083,-51.7826,-72.7051,0,-66.0824 1/1:56:0,53,2:0:0:53,2:1889,71:-169.843,-15.9546,0,-164.294,-10.3438,-163.692 1/1:18:0,18,0:0:0:18,0:644,0:-58.2906,-5.41854,0,-58.2906,-5.41854,-58.2906 chr03 20323116 . TTTA TTTG,CTTG 98543.2 PASS AB=0.624689,0.373654;ABP=329.005,337.726;AC=26,16;AF=0.619048,0.380952;AN=42;AO=2793,1000;CIGAR=3M1X,1X2M1X;DP=3803;DPB=3963.25;DPRA=1.99462,1.05825;EPP=6067.93,2165.81;EPPR=9.52472;GTI=1;LEN=1,4;MEANALT=2,2.25;MQM=59.9893,59.94;MQMR=60;NS=21;NUMALT=2;ODDS=1.79084;PAIRED=0,0;PAIREDR=0;PAO=108,219;PQA=3659,7543;PQR=3659;PRO=108;QA=99030,34774;QR=99;RO=3;RPL=1459,157;RPP=15.1583,1024.9;RPPR=9.52472;RPR=1334,843;RUN=1,1;SAF=1459,156;SAP=15.1583,1030.86;SAR=1334,844;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:274:0,186,87:0:0:186,87:6614,2995:-782.218,-243.216,-187.224,-538.971,0,-512.782 1/2:103:0,62,41:0:0:62,41:2189,1416:-293.276,-115.029,-96.3647,-178.239,0,-165.897 1/2:182:0,122,60:0:0:122,60:4322,2087:-521.76,-169.678,-132.952,-352.072,0,-334.011 1/1:329:0,329,0:0:0:329,0:11719,0:-1054.58,-99.0389,0,-1054.58,-99.0389,-1054.58 1/1:429:3,419,6:3:99:419,6:14811,208:-1323.49,-118.133,0,-1307.49,-109.22,-1313.68 1/1:104:0,103,0:0:0:103,0:3636,0:-327.076,-31.0061,0,-327.076,-31.0061,-327.076 1/2:157:0,83,74:0:0:83,74:2940,2574:-448.746,-209.262,-184.277,-239.47,0,-217.194 2/2:93:0,0,92:0:0:0,92:0,3200:-287.844,-287.844,-287.844,-27.6948,-27.6948,0 1/2:379:0,179,200:0:0:179,200:6339,6926:-1079.59,-563.222,-509.338,-516.721,0,-456.515 1/2:19:0,14,5:0:0:14,5:500,169:-54.8152,-14.0364,-9.82196,-41.1218,0,-39.6166 1/2:14:0,5,9:0:0:5,9:180,298:-38.6928,-24.0035,-22.4984,-14.6226,0,-11.9133 1/2:85:0,63,22:0:0:63,22:2264,777:-247.972,-63.27,-44.3051,-184.698,0,-178.075 1/2:208:0,131,77:0:0:131,77:4629,2706:-597.597,-220.607,-181.172,-377.342,0,-354.163 1/2:178:0,141,36:0:0:141,36:4991,1260:-509.069,-102.525,-60.0801,-406.556,0,-395.719 1/2:328:0,229,99:0:0:229,99:8166,3448:-946.028,-280.357,-211.421,-665.662,0,-635.86 1/2:233:0,105,126:0:0:105,126:3707,4396:-659.44,-357.565,-325.957,-301.898,0,-263.968 1/1:181:0,181,0:0:0:181,0:6419,0:-577.803,-54.4864,0,-577.803,-54.4864,-577.803 1/2:117:0,76,41:0:0:76,41:2669,1438:-334.204,-116.979,-94.101,-217.219,0,-204.877 1/2:137:0,112,25:0:0:112,25:3945,876:-392.806,-71.6311,-37.9158,-321.526,0,-314 1/1:207:0,207,0:0:0:207,0:7379,0:-664.133,-62.3132,0,-664.133,-62.3132,-664.133 1/1:46:0,46,0:0:0:46,0:1611,0:-145.276,-13.8474,0,-145.276,-13.8474,-145.276 chr03 20391440 . C T 11885.8 PASS AB=0.508687;ABP=3.68941;AC=16;AF=0.380952;AN=42;AO=618;CIGAR=1X;DP=1649;DPB=1649;DPRA=1.62963;EPP=1097.05;EPPR=1871.62;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.9223;MQMR=59.9806;NS=21;NUMALT=1;ODDS=1.51752;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22135;QR=36722;RO=1029;RPL=616;RPP=1327.66;RPPR=2202.85;RPR=2;RUN=1;SAF=28;SAP=1112.79;SAR=590;SRF=40;SRP=1903.53;SRR=989;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:47,30:47:1673:30:1076:-73.9735,0,-127.676 0/1:56:26,30:26:936:30:1072:-79.9346,0,-67.7018 0/1:49:20,29:20:701:29:1032:-78.443,0,-48.6613 0/0:75:74,1:74:2664:1:36:0,-18.979,-236.404 0/0:180:177,2:177:6317:2:72:0,-47.4075,-561.786 0/0:63:63,0:63:2252:0:0:0,-18.9649,-202.943 0/1:114:45,69:45:1608:69:2480:-188.115,0,-110.693 1/1:85:0,85:0:0:85:3041:-273.918,-25.5876,0 0/1:154:77,77:77:2768:77:2749:-201.294,0,-202.946 0/1:11:7,4:7:233:4:144:-10.0023,0,-17.983 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:26:8,18:8:284:18:644:-50.4638,0,-18.0766 0/1:118:48,70:48:1705:70:2520:-191.53,0,-118.212 0/1:81:39,42:39:1388:42:1508:-111.631,0,-100.835 0/1:97:54,43:54:1936:43:1529:-108.7,0,-145.316 0/1:66:40,25:40:1424:25:896:-61.0336,0,-108.531 0/0:41:41,0:41:1453:0:0:0,-12.3422,-131.064 0/1:99:45,54:45:1600:54:1940:-145.074,0,-114.488 0/1:84:51,33:51:1832:33:1180:-81.2192,0,-139.874 0/0:120:117,3:117:4164:3:108:0,-26.0484,-364.867 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.604 chr03 20418790 . A G 42314.9 PASS AB=0.523351;ABP=12.8473;AC=27;AF=0.642857;AN=42;AO=2088;CIGAR=1X;DP=3232;DPB=3232;DPRA=0;EPP=4528.36;EPPR=2467.66;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9693;MQMR=59.9703;NS=21;NUMALT=1;ODDS=13.1133;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74486;QR=40984;RO=1143;RPL=2072;RPP=4399.14;RPPR=2416;RPR=16;RUN=1;SAF=2073;SAP=4407.69;SAR=15;SRF=1137;SRP=2433.16;SRR=6;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:232:110,122:110:3936:122:4367:-323.365,0,-284.102 0/1:146:67,79:67:2403:79:2823:-210.355,0,-172.575 0/1:209:117,92:117:4185:92:3296:-233.944,0,-313.915 1/1:232:1,231:1:36:231:8239:-737.298,-66.2407,0 1/1:307:3,304:3:104:304:10880:-969.396,-82.7134,0 1/1:97:1,96:1:36:96:3443:-306.483,-25.6016,0 0/1:222:112,110:112:4005:110:3892:-283.649,0,-293.809 0/0:148:147,1:147:5280:1:36:0,-40.9542,-471.735 0/1:235:127,108:127:4572:108:3841:-275.144,0,-340.901 0/1:22:7,15:7:248:15:536:-41.9522,0,-16.0415 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:36:24,12:24:860:12:432:-28.3841,0,-66.8848 0/1:114:55,59:55:1972:59:2116:-156.391,0,-143.437 0/1:207:98,109:98:3516:109:3884:-287.436,0,-254.336 0/1:335:135,199:135:4847:199:7098:-537.977,0,-335.478 0/1:141:65,76:65:2324:76:2715:-202.148,0,-166.975 1/1:169:0,169:0:0:169:6005:-540.556,-50.8741,0 0/1:105:41,64:41:1476:64:2251:-171.243,0,-101.528 0/1:73:31,42:31:1116:42:1472:-110.797,0,-78.7765 1/1:145:2,143:2:68:143:5120:-454.485,-37.1916,0 1/1:51:0,51:0:0:51:1824:-164.441,-15.3525,0 chr03 20418845 . C A 35496.9 PASS AB=0.50442;ABP=3.29821;AC=27;AF=0.642857;AN=42;AO=1767;CIGAR=1X;DP=2716;DPB=2716;DPRA=1.32172;EPP=3831.32;EPPR=2046.4;GTI=0;LEN=1;MEANALT=1;MQM=59.9344;MQMR=59.9705;NS=21;NUMALT=1;ODDS=0.288912;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63238;QR=33875;RO=949;RPL=1;RPP=3831.32;RPPR=2046.4;RPR=1766;RUN=1;SAF=0;SAP=3840;SAR=1767;SRF=0;SRP=2063.74;SRR=949;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:144:80,64:80:2872:64:2295:-163.462,0,-215.364 0/1:120:74,46:74:2639:46:1656:-113.205,0,-201.633 0/1:132:59,73:59:2116:73:2615:-195.824,0,-150.973 1/1:130:0,130:0:0:130:4668:-420.28,-39.1339,0 1/1:314:9,305:9:309:305:10894:-952.207,-66.3827,0 1/1:152:0,152:0:0:152:5412:-487.137,-45.7566,0 0/1:189:99,90:99:3529:90:3203:-231.599,0,-260.918 0/0:99:99,0:99:3540:0:0:0,-29.802,-318.809 0/1:243:104,139:104:3698:139:4966:-373.914,0,-259.87 0/1:20:3,17:3:108:17:608:-49.0314,0,-4.05457 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 0/1:58:26,32:26:932:32:1152:-86.5258,0,-66.7391 0/1:160:95,65:95:3389:65:2328:-161.615,0,-257.015 0/1:110:59,51:59:2103:51:1824:-131.328,0,-156.426 0/1:171:79,92:79:2821:92:3304:-246.1,0,-202.652 0/1:101:62,39:62:2196:39:1389:-94.9029,0,-167.499 1/1:133:0,133:0:0:133:4772:-429.633,-40.037,0 0/1:149:67,82:67:2399:82:2921:-218.27,0,-171.313 0/1:100:34,66:34:1224:66:2376:-183.994,0,-80.364 1/1:97:0,97:0:0:97:3484:-313.766,-29.1999,0 1/1:67:0,67:0:0:67:2399:-216.166,-20.169,0 chr03 20476574 . TTTTGAT TT 8530.78 PASS AB=0.442678;ABP=37.116;AC=15;AF=0.357143;AN=42;AO=581;CIGAR=1M5D1M;DP=2111;DPB=1695.71;DPRA=1.22166;EPP=1264.64;EPPR=3310.16;GTI=2;LEN=5;MEANALT=1.3125;MQM=46.988;MQMR=59.8752;NS=21;NUMALT=1;ODDS=1.49946;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20202;QR=53801;RO=1523;RPL=0;RPP=1264.64;RPPR=3310.16;RPR=581;RUN=1;SAF=0;SAP=1264.64;SAR=581;SRF=0;SRP=3310.16;SRR=1523;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:52,52:52:1833:52:1776:-127.342,0,-133.944 0/1:97:54,43:54:1904:43:1491:-103.083,0,-142.438 0/1:39:20,19:20:711:19:665:-48.1243,0,-52.5764 0/0:122:121,1:121:4286:1:36:0,-33.1469,-382.139 0/0:319:311,8:311:10995:8:288:0,-69.9036,-963.238 0/0:119:119,0:119:4187:0:0:0,-35.8226,-377.02 0/1:200:91,107:91:3219:107:3703:-265.549,0,-229.976 1/1:45:2,43:2:65:43:1506:-126.533,-7.37282,0 0/1:191:115,76:115:4065:76:2635:-178.279,0,-308.543 0/1:4:2,2:2:64:2:72:-5.57282,0,-4.87342 0/0:6:6,0:6:208:0:0:0,-1.80618,-19.0592 0/1:27:15,12:15:539:12:417:-29.3579,0,-40.7184 0/1:93:53,39:53:1876:39:1343:-92.6329,0,-141.187 0/1:125:67,57:67:2340:57:1984:-138.569,0,-173.172 0/1:157:91,66:91:3231:66:2342:-162.083,0,-243.753 0/1:102:63,39:63:2221:39:1340:-88.7835,0,-169.448 0/0:163:163,0:163:5776:0:0:0,-49.0679,-519.778 0/1:35:22,12:22:765:12:428:-27.3735,0,-58.3853 0/1:21:16,5:16:569:5:176:-9.77335,0,-45.2206 0/0:111:110,0:110:3891:0:0:0,-33.1133,-350.177 0/0:31:30,0:30:1056:0:0:0,-9.0309,-94.977 chr03 20476585 . TAAAATATC TGTAATATC,TAATATC 43511.6 PASS AB=0.564475,0.426132;ABP=45.2919,58.5099;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1521,544;CIGAR=1M2X6M,1M2D6M;DP=2082;DPB=1960.22;DPRA=2.61923,1.19707;EPP=3075.46,1184.29;EPPR=0;GTI=2;LEN=2,2;MEANALT=2.45,2.875;MQM=59.8869,47.1801;MQMR=0;NS=21;NUMALT=2;ODDS=5.56795;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53932,18499;QR=0;RO=0;RPL=27,544;RPP=3075.46,1184.29;RPPR=0;RPR=1494,0;RUN=1,1;SAF=0,0;SAP=3305.82,1184.29;SAR=1521,544;SRF=0;SRP=0;SRR=0;TYPE=mnp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:0,51,45:0:0:51,45:1808,1549:-271.99,-124.689,-109.337,-147.308,0,-133.762 1/2:97:0,54,43:0:0:54,43:1925,1483:-275.807,-118.883,-102.628,-157.271,0,-144.326 1/2:37:0,20,17:0:0:20,17:709,577:-104.67,-46.9009,-40.8803,-58.1141,0,-52.9966 1/1:123:0,121,1:0:0:121,1:4306,36:-387.078,-36.4246,0,-384.158,-33.5057,-383.857 1/1:318:0,308,7:0:0:308,7:10948,244:-984.737,-92.7172,0,-964.996,-72.9308,-962.888 1/1:119:0,119,0:0:0:119,0:4239,0:-381.691,-35.8226,0,-381.691,-35.8226,-381.691 1/2:190:0,92,97:0:0:92,97:3291,3291:-530.144,-261.775,-234.08,-268.433,0,-239.234 2/2:39:0,0,37:0:0:0,37:0,1234:-109.612,-109.612,-109.612,-11.1381,-11.1381,0 1/2:193:0,114,77:0:0:114,77:4005,2631:-538.737,-212.757,-178.439,-326.086,0,-302.907 1/2:4:0,2,2:0:0:2,2:70,64:-11.1611,-5.45227,-4.85021,-6.04304,0,-5.44098 1/1:6:0,6,0:0:0:6,0:205,0:-18.7836,-1.80618,0,-18.7836,-1.80618,-18.7836 1/2:25:0,15,10:0:0:15,10:536,322:-69.7391,-26.0137,-21.4983,-44.0596,0,-41.0493 1/2:93:0,54,39:0:0:54,39:1927,1321:-263.425,-106.589,-90.3339,-157.18,0,-145.44 1/2:119:0,68,50:0:0:68,50:2409,1703:-333.279,-137.025,-116.555,-196.414,0,-181.363 1/2:160:0,91,66:0:0:91,66:3203,2244:-441.488,-180.735,-153.341,-260.764,0,-240.896 1/2:100:0,62,36:0:0:62,36:2176,1247:-278.1,-101.009,-82.3456,-177.089,0,-166.251 1/1:164:0,164,0:0:0:164,0:5765,0:-518.79,-49.3689,0,-518.79,-49.3689,-518.79 1/2:35:0,22,12:0:0:22,12:768,385:-93.0533,-30.5668,-23.9441,-62.4891,0,-58.8767 1/2:21:0,16,5:0:0:16,5:548,168:-58.3657,-13.8771,-9.06064,-44.8249,0,-43.3197 1/1:111:0,111,0:0:0:111,0:3980,0:-358.387,-33.4143,0,-358.387,-33.4143,-358.387 1/1:31:0,31,0:0:0:31,0:1114,0:-100.54,-9.33193,0,-100.54,-9.33193,-100.54 chr03 20479019 . TG TT 81321.8 PASS AB=0.49553;ABP=3.55386;AC=26;AF=0.619048;AN=42;AO=3143;CIGAR=1M1X;DP=4958;DPB=4958;DPRA=1.0469;EPP=6819.26;EPPR=3922.52;GTI=1;LEN=1;MEANALT=1.3;MQM=59.9701;MQMR=59.9939;NS=21;NUMALT=1;ODDS=6.48636;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=111906;QR=62784;RO=1805;RPL=1632;RPP=13.1256;RPPR=58.6204;RPR=1511;RUN=1;SAF=1631;SAP=12.794;SAR=1512;SRF=1010;SRP=58.6204;SRR=795;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:346:190,156:190:6560:156:5560:-396.371,0,-486.34 0/1:127:67,60:67:2355:60:2135:-154.187,0,-173.976 0/1:224:104,120:104:3617:120:4308:-320.465,0,-258.305 1/1:409:0,409:0:0:409:14618:-1315.35,-123.121,0 1/1:381:5,376:5:178:376:13291:-1179.26,-98.3238,0 1/1:273:1,272:1:36:272:9732:-872.229,-78.5829,0 0/1:339:173,166:173:6074:166:5931:-431.85,0,-444.724 0/0:226:226,0:226:7886:0:0:0,-68.0328,-709.785 0/1:486:257,229:257:8938:229:8199:-591.582,0,-658.123 0/1:27:8,16:8:283:16:572:-44.2293,0,-18.2294 0/1:11:1,10:1:36:10:351:-28.6153,0,-0.286945 0/1:92:48,43:48:1657:43:1543:-111.556,0,-121.804 0/1:281:155,126:155:5407:126:4477:-318.512,0,-402.179 0/1:276:145,127:145:5008:127:4530:-325.628,0,-368.627 0/1:448:214,234:214:7456:234:8305:-612.6,0,-536.238 0/1:163:73,90:73:2535:90:3195:-238.704,0,-179.333 1/1:122:0,122:0:0:122:4327:-389.606,-36.7257,0 0/1:129:69,58:69:2393:58:2059:-146.99,0,-177.035 0/1:183:66,117:66:2270:117:4134:-317.16,0,-149.47 1/1:289:3,286:3:95:286:10164:-905.83,-78.1338,0 1/1:126:0,126:0:0:126:4475:-402.923,-37.9298,0 chr03 20487551 . 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C T 12960.9 PASS AB=0.476728;ABP=9.68092;AC=15;AF=0.357143;AN=42;AO=757;CIGAR=1X;DP=2005;DPB=2005;DPRA=1.39475;EPP=1638.14;EPPR=2713.01;GTI=0;LEN=1;MEANALT=1;MQM=59.8917;MQMR=59.9952;NS=21;NUMALT=1;ODDS=4.65202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26985;QR=44095;RO=1248;RPL=756;RPP=1638.14;RPPR=2713.01;RPR=1;RUN=1;SAF=757;SAP=1646.81;SAR=0;SRF=1248;SRP=2713.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:69,97:69:2442:97:3454:-261.099,0,-170.064 0/1:70:44,26:44:1561:26:916:-61.6834,0,-119.708 0/1:122:56,66:56:2000:66:2356:-175.567,0,-143.548 0/0:64:63,1:63:2219:1:36:0,-15.6676,-196.374 0/0:205:205,0:205:7237:0:0:0,-61.7111,-651.39 0/0:72:72,0:72:2539:0:0:0,-21.6742,-228.76 0/1:98:58,40:58:2026:40:1432:-99.6748,0,-153.108 1/1:79:0,79:0:0:79:2799:-251.983,-23.7814,0 0/1:204:100,104:100:3571:104:3703:-272.063,0,-260.188 0/1:19:11,8:11:392:8:288:-20.5478,0,-29.9005 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:30:15,15:15:536:15:540:-39.9056,0,-39.5439 0/1:115:56,59:56:1985:59:2102:-154.83,0,-144.304 0/1:81:39,42:39:1387:42:1491:-110.1,0,-100.745 0/1:187:84,103:84:2983:103:3686:-275.62,0,-212.411 0/1:48:28,20:28:1000:20:720:-50.6793,0,-75.8659 0/0:30:30,0:30:1037:0:0:0,-9.0309,-93.6368 0/1:163:98,65:98:3437:65:2314:-159.224,0,-260.477 0/1:115:84,31:84:2953:31:1112:-65.7714,0,-231.384 0/0:77:76,1:76:2674:1:36:0,-19.581,-237.306 0/0:56:56,0:56:1972:0:0:0,-16.8577,-177.753 chr03 20642212 . 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G A 22458.4 PASS AB=0.369906;ABP=378.164;AC=13;AF=0.309524;AN=42;AO=1094;CIGAR=1X;DP=5272;DPB=5272;DPRA=0.87425;EPP=2378.6;EPPR=9066.74;GTI=0;LEN=1;MEANALT=1.05882;MQM=60;MQMR=59.9813;NS=21;NUMALT=1;ODDS=21.9927;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39079;QR=146585;RO=4174;RPL=604;RPP=28.806;RPPR=1560.03;RPR=490;RUN=1;SAF=604;SAP=28.806;SAR=490;SRF=2952;SRP=1560.03;SRR=1222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:241:116,125:116:3981:125:4450:-328.124,0,-285.934 0/1:169:111,58:111:3899:58:2061:-134.885,0,-300.231 0/1:163:83,80:83:2911:80:2853:-207.939,0,-213.158 0/0:248:247,0:247:8778:0:0:0,-74.3544,-788.819 0/0:473:470,3:470:16439:3:108:0,-132.312,-1469.13 0/0:173:173,0:173:6059:0:0:0,-52.0782,-545.422 0/1:309:194,115:194:6750:115:4117:-277.694,0,-514.568 1/1:123:0,123:0:0:123:4392:-395.452,-37.0267,0 0/1:304:196,108:196:6858:108:3842:-254.462,0,-525.783 0/0:241:233,8:233:8287:8:288:0,-46.2808,-719.572 0/0:588:586,0:586:20699:0:0:0,-176.404,-1862.03 0/0:443:429,14:429:15136:14:504:0,-87.6582,-1316.29 0/1:176:86,89:86:3026:89:3191:-234.372,0,-219.53 0/1:192:106,86:106:3708:86:3075:-219.18,0,-276.127 0/1:291:179,112:179:6312:112:3998:-272.41,0,-480.575 0/1:150:82,68:82:2888:68:2440:-174.7,0,-215.002 0/0:155:154,1:154:5399:1:36:0,-43.0614,-482.448 0/1:411:357,54:357:12506:54:1932:-50.4332,0,-1001.67 0/1:146:97,49:97:3380:49:1756:-114.374,0,-260.465 0/0:167:166,1:166:5811:1:36:0,-46.6737,-519.513 0/0:109:109,0:109:3758:0:0:0,-32.8123,-338.427 chr03 20736997 . 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T G 16710.2 PASS AB=0.404374;ABP=217.305;AC=20;AF=0.47619;AN=42;AO=1091;CIGAR=1X;DP=2767;DPB=2767;DPRA=1.95507;EPP=2372.09;EPPR=3642.4;GTI=1;LEN=1;MEANALT=1;MQM=59.2814;MQMR=59.8646;NS=21;NUMALT=1;ODDS=13.7717;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38953;QR=59800;RO=1676;RPL=1091;RPP=2372.09;RPPR=3642.4;RPR=0;RUN=1;SAF=0;SAP=2372.09;SAR=1091;SRF=0;SRP=3642.4;SRR=1676;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:97,58:97:3424:58:2088:-141.219,0,-261.71 0/1:93:57,36:57:2025:36:1286:-88.0372,0,-154.523 0/1:153:101,52:101:3628:52:1838:-119.617,0,-280.653 0/1:163:65,98:65:2324:98:3508:-266.455,0,-160.341 0/1:347:193,154:193:6887:154:5528:-392.87,0,-515.438 0/1:92:43,49:43:1544:49:1760:-130.907,0,-111.558 0/1:164:98,66:98:3475:66:2364:-163.278,0,-263.011 0/0:69:69,0:69:2446:0:0:0,-20.7711,-220.374 0/1:198:143,55:143:5114:55:1953:-116.331,0,-400.782 0/1:11:8,3:8:288:3:104:-6.34503,0,-22.9561 0/1:23:11,12:11:396:12:424:-31.5672,0,-29.0591 0/1:21:13,8:13:445:8:288:-19.9458,0,-34.0491 0/1:153:97,56:97:3458:56:1981:-132.353,0,-265.371 0/1:181:127,54:127:4552:54:1913:-117.954,0,-355.354 0/1:267:204,63:204:7252:63:2264:-123.365,0,-572.357 0/1:80:55,25:55:1976:25:896:-56.8603,0,-154.019 0/1:148:63,85:63:2264:85:3001:-225.601,0,-159.47 0/1:151:82,69:82:2944:69:2476:-177.603,0,-219.738 0/1:105:57,48:57:2029:48:1701:-121.752,0,-150.809 0/1:116:50,66:50:1800:66:2364:-178.088,0,-127.352 0/1:77:43,34:43:1529:34:1216:-86.5591,0,-114.722 chr03 20874826 . C T 11905.1 PASS AB=0.476307;ABP=8.9783;AC=15;AF=0.357143;AN=42;AO=689;CIGAR=1X;DP=1989;DPB=1989;DPRA=1.21094;EPP=1499.15;EPPR=2821.58;GTI=0;LEN=1;MEANALT=1.125;MQM=60;MQMR=59.9769;NS=21;NUMALT=1;ODDS=14.7806;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24691;QR=46360;RO=1298;RPL=0;RPP=1499.15;RPPR=2821.58;RPR=689;RUN=1;SAF=0;SAP=1499.15;SAR=689;SRF=0;SRP=2821.58;SRR=1298;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:57,39:57:2040:39:1400:-97.4003,0,-154.973 0/1:46:28,18:28:995:18:644:-44.4432,0,-76.0166 0/1:94:43,51:43:1531:51:1822:-135.963,0,-109.786 0/0:174:174,0:174:6231:0:0:0,-52.3792,-560.885 0/0:154:153,1:153:5473:1:36:0,-42.7603,-488.471 0/0:94:94,0:94:3347:0:0:0,-28.2968,-301.448 0/1:220:122,98:122:4354:98:3515:-250.333,0,-325.808 1/1:98:0,98:0:0:98:3524:-317.368,-29.5009,0 0/1:133:60,72:60:2126:72:2572:-191.634,0,-151.512 0/1:14:6,8:6:216:8:284:-21.6889,0,-15.5761 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:23:15,8:15:540:8:288:-19.3437,0,-42.0128 0/1:100:51,49:51:1820:49:1754:-128.041,0,-133.978 0/1:141:63,78:63:2244:78:2804:-210.154,0,-159.779 0/1:140:63,76:63:2264:76:2724:-203.2,0,-161.819 0/1:63:43,20:43:1522:20:716:-45.8028,0,-118.307 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.093 0/1:84:38,46:38:1360:46:1636:-122.242,0,-97.4141 0/1:70:50,20:50:1783:20:720:-44.0567,0,-139.68 0/0:105:98,7:98:3499:7:252:0,-8.57919,-292.092 0/0:62:62,0:62:2219:0:0:0,-18.6639,-199.974 chr03 20955285 . G A 20558.7 PASS AB=0.498799;ABP=3.03639;AC=16;AF=0.380952;AN=42;AO=1199;CIGAR=1X;DP=3016;DPB=3016;DPRA=1.07887;EPP=2597.93;EPPR=3948.58;GTI=0;LEN=1;MEANALT=1;MQM=55.8691;MQMR=59.6951;NS=21;NUMALT=1;ODDS=3.89465;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42283;QR=64426;RO=1817;RPL=0;RPP=2606.61;RPPR=3948.58;RPR=1199;RUN=1;SAF=1;SAP=2597.93;SAR=1198;SRF=0;SRP=3948.58;SRR=1817;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:97,87:97:3436:87:3078:-220.457,0,-254.049 0/1:190:73,117:73:2599:117:4073:-309.086,0,-176.933 0/1:187:95,92:95:3378:92:3256:-236.307,0,-247.903 0/0:107:107,0:107:3783:0:0:0,-32.2102,-340.658 0/0:289:289,0:289:10236:0:0:0,-86.9977,-920.294 0/0:103:103,0:103:3644:0:0:0,-31.0061,-328.113 0/1:202:80,122:80:2851:122:4334:-329.107,0,-195.968 1/1:158:1,157:1:36:157:5565:-496.873,-43.9645,0 0/1:306:166,140:166:5909:140:4938:-351.976,0,-439.743 0/1:15:4,11:4:144:11:388:-30.72,0,-8.79817 0/1:25:5,20:5:180:20:708:-55.2703,0,-9.02631 0/1:35:16,19:16:572:19:654:-48.5524,0,-41.2442 0/1:302:182,120:182:6460:120:4236:-289.529,0,-490.559 0/1:174:83,91:83:2861:91:3228:-235.705,0,-205.231 0/1:177:72,105:72:2541:105:3707:-279.856,0,-175.646 0/1:90:55,35:55:1959:35:1237:-84.488,0,-149.485 0/0:92:90,2:90:3201:2:72:0,-20.859,-281.474 0/1:102:55,47:55:1960:47:1659:-118.75,0,-145.97 0/1:92:60,32:60:2139:32:1078:-69.4746,0,-165.076 0/0:145:143,2:143:5087:2:72:0,-36.8877,-451.169 0/0:41:41,0:41:1450:0:0:0,-12.3422,-130.786 chr03 20955308 . G C 35492.7 PASS AB=0.489024;ABP=5.25074;AC=26;AF=0.619048;AN=42;AO=1823;CIGAR=1X;DP=3087;DPB=3087;DPRA=0;EPP=3918.29;EPPR=2728.24;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.695;MQMR=55.8036;NS=21;NUMALT=1;ODDS=0.375981;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65006;QR=44849;RO=1263;RPL=5;RPP=3918.29;RPPR=2719.58;RPR=1818;RUN=1;SAF=0;SAP=3961.6;SAR=1823;SRF=1;SRP=2736.9;SRR=1262;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:92,94:92:3288:94:3336:-244.432,0,-238.821 0/1:197:124,72:124:4414:72:2588:-173.784,0,-337.583 0/1:195:99,96:99:3556:96:3416:-248.909,0,-260.257 1/1:109:1,108:1:36:108:3855:-343.586,-29.2638,0 1/1:282:1,281:1:36:281:10051:-900.53,-81.2948,0 1/1:106:0,106:0:0:106:3789:-341.177,-31.9092,0 0/1:208:127,81:127:4521:81:2895:-198.114,0,-344.107 0/0:167:166,1:166:5898:1:36:0,-46.6737,-526.7 0/1:319:148,171:148:5259:171:6068:-450.142,0,-376.515 0/1:16:12,4:12:405:4:144:-8.49714,0,-31.9395 0/1:25:20,5:20:716:5:180:-9.02631,0,-55.9113 0/1:36:20,16:20:704:16:567:-40.4905,0,-52.7494 0/1:305:124,181:124:4414:181:6468:-490.374,0,-304.768 0/1:179:97,82:97:3370:82:2892:-206.593,0,-247.882 0/1:183:110,73:110:3923:73:2607:-179.775,0,-297.544 0/1:90:35,55:35:1243:55:1942:-147.953,0,-84.9958 1/1:93:1,92:1:36:92:3304:-293.975,-24.3975,0 0/1:105:52,53:52:1825:53:1874:-137.329,0,-132.725 0/1:97:33,64:33:1169:64:2279:-176.162,0,-76.0746 1/1:145:1,144:1:36:144:5139:-459.012,-40.0528,0 1/1:44:0,44:0:0:44:1576:-142.123,-13.2453,0 chr03 20955333 . GGGTCAC GGGCCAT,AGGCCAT 64456.3 PASS AB=0.485014,0.509991;ABP=7.30591,4.91946;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1854,1298;CIGAR=3M1X2M1X,1X2M1X2M1X;DP=3171;DPB=3171.71;DPRA=0,1.99048;EPP=4028.92,2821.58;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.71429,2.94444;MQM=59.6807,55.6633;MQMR=0;NS=21;NUMALT=2;ODDS=0.574061;PAIRED=0,0;PAIREDR=0;PAO=1,2;PQA=18,72;PQR=18;PRO=1;QA=65570,45632;QR=0;RO=0;RPL=1854,1298;RPP=4028.92,2821.58;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4028.92,2821.58;SAR=1854,1298;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:196:0,98,98:0:0:98,98:3438,3463:-561.017,-281.249,-251.749,-280.119,0,-250.618 1/2:205:0,75,130:0:0:75,130:2675,4525:-585.832,-367.796,-345.218,-218.389,0,-179.255 1/2:197:0,98,98:0:0:98,98:3440,3471:-561.566,-281.628,-252.127,-279.93,0,-250.43 1/1:108:0,104,1:0:0:104,1:3706,36:-333.411,-31.3071,0,-330.518,-28.4049,-330.217 1/1:294:0,290,1:0:0:290,1:10263,33:-921.92,-87.2987,0,-919.253,-84.6366,-918.952 1/1:108:0,108,0:0:0:108,0:3837,0:-345.493,-32.5112,0,-345.493,-32.5112,-345.493 1/2:211:0,83,126:0:0:83,126:2918,4464:-600.779,-363.313,-338.327,-237.459,0,-199.529 2/2:174:0,2,171:0:0:2,171:71,5988:-538.178,-532.392,-531.79,-51.4761,-45.6277,0 1/2:325:0,174,149:0:0:174,149:6137,5256:-926.749,-427.08,-374.701,-499.69,0,-454.837 1/2:16:0,4,12:0:0:4,12:144,412:-45.5307,-33.7768,-32.5727,-12.1095,0,-8.49714 1/2:25:0,5,20:0:0:5,20:180,712:-71.7985,-57.1092,-55.6041,-15.0469,0,-9.02631 1/2:38:0,16,22:0:0:16,22:552,767:-107.47,-62.6393,-57.8229,-45.1769,0,-38.5542 1/2:310:0,183,127:0:0:183,127:6513,4465:-893.471,-362.672,-307.584,-530.736,0,-492.505 1/2:193:0,83,108:0:0:83,108:2903,3728:-537.477,-301.353,-276.368,-236.113,0,-203.601 1/2:186:0,71,112:0:0:71,112:2510,3956:-525.919,-321.497,-300.123,-204.416,0,-170.701 1/2:93:0,56,36:0:0:56,36:1965,1275:-262.888,-102.982,-86.1239,-159.956,0,-149.118 1/1:94:0,93,0:0:0:93,0:3324,0:-299.017,-27.9958,0,-299.017,-27.9958,-299.017 1/2:110:0,58,52:0:0:58,52:2063,1843:-318.423,-150.296,-132.836,-168.481,0,-152.828 1/2:97:0,64,33:0:0:64,33:2227,1166:-276.148,-95.0777,-75.8118,-181.421,0,-171.487 1/1:148:0,146,2:0:0:146,2:5170,72:-465,-43.9504,0,-459.196,-37.7907,-458.594 1/1:43:0,43,0:0:0:43,0:1534,0:-138.345,-12.9443,0,-138.345,-12.9443,-138.345 chr03 20973930 . T C 9288.82 PASS AB=0.514658;ABP=4.72909;AC=15;AF=0.357143;AN=42;AO=542;CIGAR=1X;DP=1475;DPB=1475;DPRA=1.60807;EPP=1171.28;EPPR=2020.32;GTI=0;LEN=1;MEANALT=1;MQM=59.7269;MQMR=59.9946;NS=21;NUMALT=1;ODDS=8.84812;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19126;QR=33394;RO=933;RPL=1;RPP=1171.28;RPPR=2020.32;RPR=541;RUN=1;SAF=542;SAP=1179.95;SAR=0;SRF=933;SRP=2028.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:60,45:60:2152:45:1573:-110.25,0,-162.339 0/1:67:25,42:25:896:42:1460:-111.482,0,-60.7913 0/1:77:40,37:40:1421:37:1306:-94.6367,0,-105.006 0/0:79:79,0:79:2811:0:0:0,-23.7814,-253.23 0/0:180:179,1:179:6423:1:36:0,-50.5871,-574.555 0/0:96:96,0:96:3443:0:0:0,-28.8989,-310.082 0/1:47:26,21:26:928:21:730:-51.8629,0,-69.6898 1/1:64:0,64:0:0:64:2272:-204.74,-19.2659,0 0/1:177:78,99:78:2781:99:3519:-263.639,0,-197.247 0/1:16:9,7:9:324:7:237:-16.8426,0,-24.6894 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:8:4,4:4:144:4:140:-10.5363,0,-10.9054 0/1:123:46,77:46:1652:77:2705:-206.618,0,-111.942 0/1:63:28,35:28:1004:35:1238:-92.7564,0,-71.711 0/1:130:70,60:70:2491:60:2126:-152.474,0,-185.309 0/1:51:30,21:30:1080:21:748:-52.2924,0,-82.1607 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5995 0/1:28:12,16:12:432:16:568:-43.0184,0,-30.7924 0/1:29:19,10:19:680:10:360:-24.0144,0,-52.7993 0/0:70:67,3:67:2400:3:108:0,-10.9969,-206.182 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 chr03 20983524 . G A 23888.2 PASS AB=0.590824;ABP=79.5323;AC=28;AF=0.666667;AN=42;AO=1188;CIGAR=1X;DP=1720;DPB=1720;DPRA=0.916292;EPP=2582.72;EPPR=1158.23;GTI=1;LEN=1;MEANALT=1;MQM=59.968;MQMR=59.9474;NS=21;NUMALT=1;ODDS=1.62784;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42415;QR=18963;RO=532;RPL=0;RPP=2582.72;RPPR=1158.23;RPR=1188;RUN=1;SAF=1188;SAP=2582.72;SAR=0;SRF=532;SRP=1158.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:50,30:50:1792:30:1072:-72.7101,0,-137.48 0/1:39:12,27:12:428:27:968:-75.6972,0,-27.1186 0/1:131:58,73:58:2084:73:2601:-194.902,0,-148.395 1/1:92:0,92:0:0:92:3273:-294.788,-27.6948,0 1/1:186:4,182:4:144:182:6489:-570.776,-42.678,0 1/1:78:2,76:2:72:76:2709:-237.216,-16.6436,0 0/1:95:33,62:33:1146:62:2209:-170.475,0,-74.8341 0/0:89:89,0:89:3177:0:0:0,-26.7917,-286.148 0/1:182:63,119:63:2234:119:4237:-326.708,0,-146.529 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:32:17,15:17:597:15:532:-38.5801,0,-44.4228 0/1:92:31,61:31:1112:61:2180:-168.771,0,-72.6966 0/1:124:32,92:32:1129:92:3289:-258.9,0,-64.5886 0/1:115:62,53:62:2228:53:1900:-136.659,0,-166.165 0/1:25:4,21:4:140:21:756:-60.8415,0,-5.41883 1/1:52:0,52:0:0:52:1849:-166.688,-15.6536,0 0/1:78:50,28:50:1784:28:1008:-67.556,0,-137.362 0/1:75:25,50:25:896:50:1791:-138.893,0,-58.3831 1/1:87:0,87:0:0:87:3116:-280.662,-26.1896,0 1/1:54:0,54:0:0:54:1932:-174.157,-16.2556,0 chr03 20983540 . ACTTTGATT TCTTCGATT,ACTTCGTTG 35585.6 PASS AB=0.587581,0.405931;ABP=74.8983,85.9428;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1190,532;CIGAR=1X3M1X4M,4M1X1M1X1M1X;DP=1738;DPB=1738;DPRA=0.915556,1.90199;EPP=2569.72,1158.23;EPPR=0;GTI=1;LEN=9,9;MEANALT=2.4,2.73333;MQM=59.942,59.9586;MQMR=0;NS=21;NUMALT=2;ODDS=3.82192;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41996,18685;QR=0;RO=0;RPL=2,0;RPP=2569.72,1158.23;RPPR=0;RPR=1188,532;RUN=1,1;SAF=1190,532;SAP=2587.06,1158.23;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:0,31,51:0:0:31,51:1083,1797:-234.394,-146.299,-136.967,-88.0864,0,-72.7338 1/2:40:0,28,12:0:0:28,12:976,431:-114.885,-35.5183,-27.0895,-79.7222,0,-76.1098 1/2:132:0,73,59:0:0:73,59:2582,2075:-379.562,-169.259,-147.284,-210.655,0,-192.894 1/1:93:0,92,0:0:0:92,0:3242,0:-291.732,-27.6948,0,-291.732,-27.6948,-291.732 1/1:188:0,181,4:0:0:181,4:6406,144:-576.276,-54.4864,0,-564.527,-42.7273,-563.322 1/1:79:0,77,2:0:0:77,2:2723,72:-244.952,-23.1793,0,-239.077,-16.9446,-238.475 1/2:97:0,62,35:0:0:62,35:2181,1186:-274.048,-96.4987,-77.8348,-177.893,0,-167.357 2/2:90:0,0,88:0:0:0,88:0,3130:-281.661,-281.661,-281.661,-26.4906,-26.4906,0 1/2:182:0,118,61:0:0:118,61:4166,2136:-513.084,-173.843,-138.322,-339.292,0,-320.93 1/1:10:0,9,0:0:0:9,0:316,0:-28.4649,-2.70927,0,-28.4649,-2.70927,-28.4649 1/1:4:0,4,0:0:0:4,0:143,0:-13.2214,-1.20412,0,-13.2214,-1.20412,-13.2214 1/2:32:0,16,16:0:0:16,16:568,553:-91.564,-45.2784,-40.4619,-46.6358,0,-41.8193 1/2:94:0,63,31:0:0:63,31:2232,1081:-270.093,-88.2649,-69.3,-182.179,0,-172.847 1/2:125:0,92,32:0:0:92,32:3226,1127:-354.29,-91.774,-64.0792,-262.537,0,-252.904 1/2:115:0,52,62:0:0:52,62:1839,2187:-327.855,-178.072,-162.418,-149.776,0,-131.112 1/2:25:0,21,4:0:0:21,4:741,130:-71.1783,-10.816,-4.4944,-60.6915,0,-59.4874 1/1:52:0,50,0:0:0:50,0:1762,0:-158.504,-15.0515,0,-158.504,-15.0515,-158.504 1/2:79:0,29,50:0:0:29,50:1033,1753:-227.201,-143.001,-134.271,-84.5541,0,-69.5026 1/2:75:0,49,25:0:0:49,25:1736,883:-213.322,-71.9018,-57.1513,-141.414,0,-133.888 1/1:88:0,88,0:0:0:88,0:3082,0:-277.61,-26.4906,0,-277.61,-26.4906,-277.61 1/1:55:0,55,0:0:0:55,0:1959,0:-176.585,-16.5567,0,-176.585,-16.5567,-176.585 chr03 20990565 . T G,C 28537.8 PASS AB=0.554863,0.44389;ABP=23.9777,24.9416;AC=28,14;AF=0.666667,0.333333;AN=42;AO=885,483;CIGAR=1X,1X;DP=1369;DPB=1369;DPRA=0,3.42513;EPP=1924.76,1051.83;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.85714,2.05882;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.406883;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31258,17205;QR=0;RO=0;RPL=1,0;RPP=1916.09,1051.83;RPPR=0;RPR=884,483;RUN=1,1;SAF=1,0;SAP=1916.09,1051.83;SAR=884,483;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,23,27:0:0:23,27:815,959:-144.89,-78.4976,-71.5739,-66.7471,0,-58.6193 1/2:36:0,16,20:0:0:16,20:572,720:-105.747,-59.1082,-54.2917,-46.9969,0,-40.9763 1/2:61:0,42,19:0:0:42,19:1508,671:-178.013,-54.9962,-42.353,-123.371,0,-117.652 1/1:89:0,88,1:0:0:88,1:3105,36:-279.316,-26.4906,0,-276.379,-23.1934,-276.078 1/1:136:0,135,1:0:0:135,1:4786,36:-430.536,-40.6391,0,-427.598,-37.3418,-427.297 1/1:68:0,67,1:0:0:67,1:2386,36:-214.637,-20.169,0,-211.699,-16.8718,-211.398 1/2:134:0,58,76:0:0:58,76:2045,2702:-387.05,-220.543,-203.083,-166.861,0,-143.982 2/2:122:0,1,121:0:0:1,121:36,4298:-386.637,-383.699,-383.398,-36.4246,-33.1274,0 1/2:159:0,103,55:0:0:103,55:3646,1943:-455.36,-158.374,-127.368,-297.127,0,-280.57 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:4:0,1,3:0:0:1,3:32,108:-11.7405,-9.17208,-8.87105,-2.89828,0,-1.99519 1/2:94:0,50,44:0:0:50,44:1751,1572:-270.991,-128.526,-113.475,-142.819,0,-129.574 1/2:43:0,20,23:0:0:20,23:704,824:-124.869,-67.5596,-61.539,-57.6639,0,-50.7402 1/2:83:0,49,34:0:0:49,34:1743,1212:-241.198,-99.1513,-84.4008,-142.403,0,-132.168 1/2:39:0,26,13:0:0:26,13:894,468:-111.135,-38.5463,-30.7195,-72.9432,0,-69.0298 1/1:31:0,31,0:0:0:31,0:1072,0:-96.7851,-9.33193,0,-96.7851,-9.33193,-96.7851 1/2:52:0,28,24:0:0:28,24:975,864:-150.136,-70.8578,-62.429,-79.6327,0,-72.408 1/2:47:0,29,18:0:0:29,18:1020,648:-136.259,-53.2333,-44.5035,-83.3823,0,-77.9637 1/1:64:0,61,3:0:0:61,3:2145,108:-192.956,-18.3628,0,-184.143,-9.19075,-183.24 1/1:41:0,41,0:0:0:41,0:1455,0:-131.245,-12.3422,0,-131.245,-12.3422,-131.245 chr03 21087983 . A G 22808.1 PASS AB=0.501629;ABP=3.03859;AC=27;AF=0.642857;AN=42;AO=1162;CIGAR=1X;DP=1871;DPB=1871;DPRA=1.01307;EPP=2526.26;EPPR=1540.41;GTI=0;LEN=1;MEANALT=1.05;MQM=59.932;MQMR=59.9831;NS=21;NUMALT=1;ODDS=9.808;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41571;QR=25404;RO=708;RPL=1162;RPP=2526.26;RPPR=1540.41;RPR=0;RUN=1;SAF=0;SAP=2526.26;SAR=1162;SRF=0;SRP=1540.41;SRR=708;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:89,74:89:3200:74:2656:-190.218,0,-239.154 0/1:83:49,34:49:1756:34:1220:-85.1213,0,-133.321 0/1:75:44,31:44:1580:31:1108:-77.4537,0,-119.914 1/1:79:0,79:0:0:79:2829:-254.834,-23.7814,0 1/1:161:4,157:4:144:157:5600:-490.805,-35.1522,0 1/1:79:2,77:2:72:77:2731:-239.195,-16.9446,0 0/1:159:86,73:86:3088:73:2628:-188.903,0,-230.283 0/0:88:88,0:88:3145:0:0:0,-26.4906,-283.274 0/1:181:80,101:80:2876:101:3617:-271.22,0,-204.59 0/1:11:5,6:5:171:6:216:-16.4792,0,-12.4141 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:31:17,14:17:612:14:500:-36.0042,0,-46.0815 0/1:118:58,60:58:2088:60:2148:-158.066,0,-152.668 0/1:72:38,34:38:1368:34:1216:-88.0642,0,-101.747 0/1:103:52,51:52:1868:51:1828:-133.795,0,-137.393 0/1:95:45,50:45:1604:50:1796:-133.324,0,-116.052 1/1:110:0,110:0:0:110:3932:-353.756,-33.1133,0 0/1:85:35,50:35:1260:50:1774:-134.348,0,-88.1179 0/1:52:14,38:14:500:38:1356:-106.687,0,-29.6826 1/1:73:1,71:1:36:71:2548:-225.991,-18.4158,0 1/1:42:1,41:1:36:41:1472:-129.178,-9.04499,0 chr03 21134813 . CGAGTCG TGAATCG,TGAATCA 13015.4 PASS AB=0.696822,0.298289;ABP=140.631,147.554;AC=28,14;AF=0.666667,0.333333;AN=42;AO=498,145;CIGAR=1X2M1X3M,1X2M1X2M1X;DP=645;DPB=710.143;DPRA=1.48571,0.97234;EPP=1084.4,317.874;EPPR=0;GTI=1;LEN=7,7;MEANALT=1.8,2.06667;MQM=58.7851,49.4483;MQMR=0;NS=21;NUMALT=2;ODDS=1.1539;PAIRED=0,0;PAIREDR=0;PAO=0,402;PQA=0,8024;PQR=0;PRO=0;QA=17584,5093;QR=0;RO=0;RPL=0,0;RPP=1084.4,317.874;RPPR=0;RPR=498,145;RUN=1,1;SAF=498,145;SAP=1084.4,317.874;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:21:0,14,7:0:0:14,7:493,242:-59.7128,-19.5754,-15.361,-40.1281,0,-38.0209 1/2:24:0,16,8:0:0:16,8:559,280:-68.2505,-22.7366,-17.9201,-45.5686,0,-43.1604 1/1:12:0,11,1:0:0:11,1:395,36:-35.5315,-3.31133,0,-32.6078,-0.388376,-32.3068 1/1:12:0,12,0:0:0:12,0:425,0:-38.2242,-3.61236,0,-38.2242,-3.61236,-38.2242 1/1:40:0,40,0:0:0:40,0:1422,0:-128.055,-12.0412,0,-128.055,-12.0412,-128.055 1/1:29:0,29,0:0:0:29,0:1023,0:-92.0788,-8.72987,0,-92.0788,-8.72987,-92.0788 1/2:19:0,13,6:0:0:13,6:467,214:-55.2437,-17.3671,-13.4537,-37.8849,0,-36.0788 2/2:21:0,0,21:0:0:0,21:0,727:-64.585,-64.585,-64.585,-6.32163,-6.32163,0 1/2:41:0,25,16:0:0:25,16:891,554:-116.696,-44.0581,-36.5323,-72.662,0,-67.8455 1/2:6:0,3,3:0:0:3,3:104,104:-17.2269,-8.77328,-7.87019,-8.79971,0,-7.89662 1/1:4:0,4,0:0:0:4,0:136,0:-12.3137,-1.20412,0,-12.3137,-1.20412,-12.3137 1/2:12:0,8,4:0:0:8,4:288,141:-34.725,-11.2471,-8.83883,-23.492,0,-22.2879 1/2:20:0,12,8:0:0:12,8:430,287:-58.3906,-23.3207,-19.7084,-35.087,0,-32.6787 1/2:15:0,11,4:0:0:11,4:374,139:-41.6001,-11.278,-7.9667,-30.341,0,-29.1369 1/2:13:0,9,4:0:0:9,4:315,135:-36.4961,-10.8584,-8.14912,-25.6513,0,-24.4472 1/2:17:0,9,8:0:0:9,8:321,281:-49.3111,-23.1462,-20.437,-26.518,0,-24.1097 1/1:14:0,14,0:0:0:14,0:488,0:-43.5747,-4.21442,0,-43.5747,-4.21442,-43.5747 1/2:137:0,92,44:0:0:92,44:3221,1562:-388.27,-126.448,-98.7537,-261.855,0,-248.61 1/2:84:0,73,10:0:0:73,10:2601,355:-240.608,-28.6036,-6.62842,-212.021,0,-209.011 1/1:15:0,14,1:0:0:14,1:497,36:-44.6031,-4.21442,0,-41.6748,-1.28437,-41.3738 1/1:89:0,89,0:0:0:89,0:3134,0:-281.779,-26.7917,0,-281.779,-26.7917,-281.779 chr03 21134861 . AGCAG GGCAG,GGCAC 29487.2 PASS AB=0.578578,0.416155;ABP=64.0956,72.5603;AC=22,20;AF=0.52381,0.47619;AN=42;AO=688,474;CIGAR=1X4M,1X3M1X;DP=1168;DPB=1168;DPRA=0,1.96379;EPP=9.68884,17.3768;EPPR=0;GTI=1;LEN=1,5;MEANALT=2.2381,2.3;MQM=57.5858,58.6034;MQMR=0;NS=21;NUMALT=2;ODDS=0.864125;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24415,16538;QR=0;RO=0;RPL=688,474;RPP=1496.98,1032.29;RPPR=0;RPR=0,0;RUN=1,1;SAF=367,265;SAP=9.68884,17.3768;SAR=321,209;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:45:0,35,10:0:0:35,10:1231,358:-129.664,-29.5515,-19.0155,-100.469,0,-97.4586 1/2:34:0,27,6:0:0:27,6:949,212:-94.3668,-17.2558,-9.12797,-77.105,0,-75.2988 1/2:17:0,11,6:0:0:11,6:388,215:-49.2391,-17.6603,-14.349,-31.9322,0,-30.126 1/2:36:0,17,19:0:0:17,19:608,680:-105.375,-55.7988,-50.6813,-49.9341,0,-44.2145 1/2:87:0,47,39:0:0:47,39:1676,1368:-247.923,-111.298,-97.1493,-136.624,0,-124.884 1/2:56:0,32,24:0:0:32,24:1124,833:-159.535,-68.0484,-58.4154,-91.835,0,-84.6103 1/2:53:0,34,19:0:0:34,19:1201,656:-151.098,-53.6095,-43.3745,-97.8358,0,-92.1162 1/1:29:0,29,0:0:0:29,0:1023,0:-91.2003,-8.72987,0,-91.2003,-8.72987,-91.2003 1/2:70:0,47,23:0:0:47,23:1676,827:-204.302,-67.8303,-53.6819,-136.83,0,-129.906 1/2:6:0,4,2:0:0:4,2:144,71:-17.8606,-6.14,-4.93588,-12.0768,0,-11.4747 1/2:5:0,1,4:0:0:1,4:32,140:-14.3115,-11.7392,-11.4381,-2.89828,0,-1.69416 1/2:20:0,10,10:0:0:10,10:351,359:-57.8963,-29.598,-26.5877,-28.6514,0,-25.6411 1/2:52:0,34,18:0:0:34,18:1216,626:-150.288,-51.2416,-41.0066,-99.3969,0,-93.9783 1/2:38:0,24,14:0:0:24,14:856,464:-107.609,-37.8597,-30.635,-70.0895,0,-65.8751 1/2:31:0,17,14:0:0:17,14:612,502:-90.9508,-41.3005,-36.183,-50.0085,0,-45.7941 1/2:29:0,17,12:0:0:17,12:612,420:-84.335,-34.4989,-29.3814,-50.1897,0,-46.5773 1/2:22:0,8,13:0:0:8,13:288,451:-59.6406,-36.1354,-33.7271,-23.4993,0,-19.5859 1/2:161:0,106,54:0:0:106,54:3784,1852:-457.739,-150.276,-118.367,-307.45,0,-291.195 1/2:150:0,82,67:0:0:82,67:2895,2353:-426.848,-191.446,-166.762,-235.394,0,-215.225 1/2:36:0,17,18:0:0:17,18:604,607:-98.2893,-49.0738,-43.9563,-49.2029,0,-43.7843 1/2:191:0,89,102:0:0:89,102:3145,3544:-544.418,-288.331,-261.539,-256.438,0,-225.733 chr03 21155493 . T G 13156.7 PASS AB=0.518459;ABP=4.85413;AC=27;AF=0.642857;AN=42;AO=657;CIGAR=1X;DP=1047;DPB=1047;DPRA=0.573214;EPP=1386.57;EPPR=830.431;GTI=0;LEN=1;MEANALT=1.05;MQM=59.5312;MQMR=59.9434;NS=21;NUMALT=1;ODDS=2.58221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23430;QR=13907;RO=389;RPL=5;RPP=1386.57;RPPR=830.431;RPR=652;RUN=1;SAF=657;SAP=1429.67;SAR=0;SRF=389;SRP=847.713;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:15,27:15:540:27:967:-74.6998,0,-36.2933 0/1:42:19,23:19:684:23:817:-61.2064,0,-49.2471 0/1:39:20,18:20:720:18:620:-44.0896,0,-53.3298 1/1:88:1,87:1:36:87:3114:-276.855,-22.8924,0 1/1:87:0,87:0:0:87:3096:-278.482,-26.1896,0 1/1:38:1,37:1:36:37:1332:-116.576,-7.84087,0 0/1:92:47,45:47:1667:45:1599:-116.488,0,-122.622 0/0:84:84,0:84:3004:0:0:0,-25.2865,-270.587 0/1:104:51,53:51:1824:53:1900:-139.967,0,-133.111 0/1:4:1,3:1:36:3:108:-8.86153,0,-2.39415 1/1:5:0,5:0:0:5:171:-15.5316,-1.50515,0 0/1:14:3,11:3:108:11:375:-29.8611,0,-5.86075 0/1:63:40,23:40:1423:23:816:-54.7935,0,-109.402 0/1:52:24,28:24:856:28:991:-73.8134,0,-61.7075 0/1:56:35,21:35:1260:21:752:-51.1486,0,-96.8478 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 0/1:59:19,40:19:669:40:1440:-112.128,0,-42.7732 0/1:42:17,25:17:612:25:892:-67.9555,0,-42.7702 1/1:58:3,55:3:108:55:1964:-166.955,-7.38457,0 1/1:37:1,36:1:36:36:1288:-112.609,-7.53984,0 chr03 21210364 . ACC CCG,ACG 17809.7 PASS AB=0.457407,0.537037;ABP=11.5193,9.44429;AC=27,15;AF=0.642857,0.357143;AN=42;AO=557,312;CIGAR=1X1M1X,2M1X;DP=872;DPB=872;DPRA=2.37222,1.09942;EPP=1178.03,654.703;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.9,2.125;MQM=43.9048,59.8013;MQMR=0;NS=21;NUMALT=2;ODDS=2.78741;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19524,11153;QR=0;RO=0;RPL=4,3;RPP=1178.03,654.703;RPPR=0;RPR=553,309;RUN=1,1;SAF=557,312;SAP=1212.52,680.51;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:62:0,33,28:0:0:33,28:1155,1008:-174.354,-82.1915,-72.2575,-92.1555,0,-83.7267 1/2:48:0,15,33:0:0:15,33:528,1160:-136.808,-94.7699,-90.2545,-42.3847,0,-32.4507 1/2:28:0,11,15:0:0:11,15:360,540:-72.7421,-44.0852,-40.7739,-28.6619,0,-24.1465 1/1:39:0,39,0:0:0:39,0:1345,0:-118.692,-11.7402,0,-118.692,-11.7402,-118.692 1/1:71:0,68,3:0:0:68,3:2416,108:-213.664,-20.47,0,-204.851,-11.298,-203.948 1/1:76:0,76,0:0:0:76,0:2669,0:-237.321,-22.8783,0,-237.321,-22.8783,-237.321 1/2:101:0,52,49:0:0:52,49:1816,1756:-289.209,-143.574,-127.92,-145.987,0,-131.237 2/2:18:0,0,18:0:0:0,18:0,648:-58.6519,-58.6519,-58.6519,-5.41854,-5.41854,0 1/2:97:0,45,52:0:0:45,52:1556,1872:-274.846,-153.085,-139.539,-122.106,0,-106.453 1/2:8:0,4,4:0:0:4,4:142,129:-22.1445,-10.7235,-9.51942,-11.7573,0,-10.5532 1/1:4:0,4,0:0:0:4,0:137,0:-12.5197,-1.20412,0,-12.5197,-1.20412,-12.5197 1/2:17:0,3,14:0:0:3,14:106,504:-50.0187,-41.4837,-40.5806,-8.88643,0,-4.67201 1/2:33:0,20,13:0:0:20,13:702,468:-94.8829,-38.5463,-32.5257,-56.6912,0,-52.7778 1/2:37:0,19,18:0:0:19,18:671,640:-105.858,-52.4545,-46.7349,-53.7539,0,-48.3354 1/2:42:0,15,27:0:0:15,27:533,960:-120.843,-78.5885,-74.073,-42.6043,0,-34.4765 1/2:40:0,17,23:0:0:17,23:609,824:-115.472,-67.5596,-62.4421,-48.2637,0,-41.34 1/1:54:0,54,0:0:0:54,0:1910,0:-164.717,-16.2556,0,-164.717,-16.2556,-164.717 1/2:13:0,5,8:0:0:5,8:178,288:-38.1555,-23.8592,-22.354,-14.6509,0,-12.2426 1/2:14:0,8,6:0:0:8,6:286,212:-40.6363,-17.6186,-15.2104,-23.3709,0,-21.5647 1/1:50:0,49,1:0:0:49,1:1709,36:-151.471,-14.7505,0,-148.533,-11.4532,-148.232 1/1:20:0,20,0:0:0:20,0:696,0:-62.2073,-6.0206,0,-62.2073,-6.0206,-62.2073 chr03 21210392 . C T 10177.5 PASS AB=0.45591;ABP=12.0099;AC=27;AF=0.642857;AN=42;AO=542;CIGAR=1X;DP=854;DPB=854;DPRA=2.32222;EPP=1179.95;EPPR=680.51;GTI=0;LEN=1;MEANALT=1;MQM=43.9446;MQMR=59.9038;NS=21;NUMALT=1;ODDS=2.59798;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19277;QR=11091;RO=312;RPL=542;RPP=1179.95;RPPR=680.51;RPR=0;RUN=1;SAF=542;SAP=1179.95;SAR=0;SRF=312;SRP=680.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:29,32:29:1040:32:1139:-82.6533,0,-75.5515 0/1:47:32,15:32:1121:15:540:-33.6635,0,-87.0473 0/1:27:16,11:16:553:11:392:-26.4947,0,-41.9662 1/1:37:0,37:0:0:37:1313:-115.741,-11.1381,0 1/1:67:3,64:3:108:64:2258:-189.937,-10.0938,0 1/1:76:0,76:0:0:76:2696:-239.431,-22.8783,0 0/1:99:48,51:48:1716:51:1807:-131,0,-124.924 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:96:52,44:52:1856:44:1576:-107.854,0,-138.401 0/1:8:4,4:4:140:4:144:-10.7213,0,-10.5363 1/1:4:0,4:0:0:4:144:-13.1295,-1.20412,0 0/1:17:14,3:14:504:3:108:-4.84159,0,-40.5806 0/1:32:13,19:13:468:19:669:-50.0887,0,-32.8267 0/1:36:17,19:17:593:19:680:-49.4605,0,-42.8576 0/1:42:27,15:27:968:15:532:-34.385,0,-74.7941 0/1:40:23,17:23:800:17:612:-41.5615,0,-60.2746 1/1:51:0,51:0:0:51:1816:-156.168,-15.3525,0 0/1:14:9,5:9:324:5:180:-12.1088,0,-25.2914 0/1:14:6,8:6:216:8:288:-21.7305,0,-15.5761 1/1:50:1,49:1:36:49:1735:-150.436,-11.4532,0 1/1:18:0,18:0:0:18:648:-57.8499,-5.41854,0 chr03 21210693 . T C 25079.9 PASS AB=0.55451;ABP=35.9162;AC=27;AF=0.642857;AN=42;AO=1151;CIGAR=1X;DP=1964;DPB=1964;DPRA=0.362605;EPP=1738.08;EPPR=1291.01;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=59.984;NS=21;NUMALT=1;ODDS=4.00261;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41005;QR=29020;RO=812;RPL=96;RPP=1738.08;RPPR=1291.01;RPR=1055;RUN=1;SAF=0;SAP=2502.38;SAR=1151;SRF=0;SRP=1766.25;SRR=812;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:35,53:35:1252:53:1900:-144.787,0,-86.4944 0/1:71:40,31:40:1436:31:1089:-76.9436,0,-108.165 0/1:129:81,48:81:2900:48:1705:-114.901,0,-222.403 1/1:80:0,80:0:0:80:2868:-258.357,-24.0824,0 1/1:131:6,125:6:216:125:4464:-382.139,-19.6444,0 1/1:46:0,46:0:0:46:1649:-148.699,-13.8474,0 0/1:152:67,85:67:2400:85:2989:-223.486,0,-170.5 0/0:238:238,0:238:8501:0:0:0,-71.6451,-765.088 0/1:128:57,71:57:2031:71:2528:-189.238,0,-144.502 0/1:11:6,5:6:212:5:176:-12.8737,0,-16.1135 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:53:25,28:25:873:28:1008:-75.0818,0,-62.9299 0/1:42:14,27:14:500:27:955:-73.563,0,-32.6343 0/1:100:40,60:40:1423:60:2140:-162.765,0,-98.2637 0/1:205:73,132:73:2600:132:4710:-362.348,0,-172.535 0/1:29:13,16:13:464:16:576:-43.4451,0,-33.3676 1/1:49:0,49:0:0:49:1749:-157.692,-14.7505,0 0/1:179:94,85:94:3384:85:3019:-218.057,0,-250.89 0/1:88:22,66:22:792:66:2353:-185.538,0,-45.115 1/1:83:1,82:1:36:82:2920:-259.436,-21.3872,0 1/1:49:0,49:0:0:49:1743:-157.154,-14.7505,0 chr03 21258759 . G A 9039.12 PASS AB=0.464886;ABP=13.8376;AC=15;AF=0.357143;AN=42;AO=528;CIGAR=1X;DP=1500;DPB=1500;DPRA=1.72549;EPP=1098.02;EPPR=2010.74;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.4171;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18843;QR=34685;RO=972;RPL=522;RPP=1098.02;RPPR=2010.74;RPR=6;RUN=1;SAF=0;SAP=1149.55;SAR=528;SRF=0;SRP=2113.68;SRR=972;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:48,31:48:1728:31:1108:-76.2496,0,-132.024 0/1:47:19,28:19:676:28:989:-75.1736,0,-47.0196 0/1:67:47,20:47:1692:20:716:-44.5987,0,-132.398 0/0:52:52,0:52:1856:0:0:0,-15.6536,-167.32 0/0:144:140,4:140:4993:4:144:0,-30.0347,-436.204 0/0:56:56,0:56:1996:0:0:0,-16.8577,-179.914 0/1:117:62,55:62:2202:55:1948:-140.374,0,-163.224 1/1:51:0,51:0:0:51:1828:-164.801,-15.3525,0 0/1:139:71,68:71:2529:68:2424:-176.573,0,-186.017 0/1:27:21,6:21:752:6:216:-11.6627,0,-59.8784 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:47:23,24:23:820:24:856:-63.2127,0,-59.9741 0/1:79:38,41:38:1360:41:1464:-108.275,0,-98.9192 0/1:71:43,28:43:1532:28:999:-68.8522,0,-116.8 0/1:111:55,56:55:1955:56:2004:-147.219,0,-142.811 0/1:31:13,18:13:459:18:648:-49.32,0,-32.3122 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.14 0/1:131:57,74:57:2009:74:2647:-199.041,0,-141.644 0/1:65:44,21:44:1562:21:748:-48.0783,0,-121.303 0/0:71:70,1:70:2508:1:32:0,-18.1738,-222.773 0/0:43:41,2:41:1472:2:72:0,-6.10757,-125.939 chr03 21259903 . GCAAAAAAAAGAAAATTATT GAAAAAAAGATAAATTATT,GCAAAAAAGATAAATTATT 37070 PASS AB=0.489601,0.498267;ABP=4.09415,3.04041;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1058,731;CIGAR=1M2D9M1I8M,2M2D8M1I8M;DP=1807;DPB=1716.6;DPRA=0.564626,1.89612;EPP=2214.39,1538.67;EPPR=0;GTI=1;LEN=19,19;MEANALT=2.7,2.88889;MQM=58.741,59.1819;MQMR=0;NS=21;NUMALT=2;ODDS=2.30059;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37102,25587;QR=0;RO=0;RPL=1053,726;RPP=2257.2,1547.22;RPPR=0;RPR=5,5;RUN=1,1;SAF=5,1;SAP=2257.2,1581.68;SAR=1053,730;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:0,24,19:0:0:24,19:832,649:-120.271,-52.6503,-45.4255,-67.6061,0,-61.8866 1/2:46:0,19,25:0:0:19,25:661,880:-125.296,-71.6068,-65.8872,-53.7244,0,-46.1987 1/2:116:0,66,50:0:0:66,50:2306,1745:-329.723,-142.234,-122.366,-187.838,0,-172.786 1/1:95:0,95,0:0:0:95,0:3324,0:-299.274,-28.5979,0,-299.274,-28.5979,-299.274 1/1:149:0,143,4:0:0:143,4:4974,140:-447.343,-43.0473,0,-435.953,-31.6159,-434.749 1/1:65:0,64,1:0:0:64,1:2261,36:-203.228,-19.2659,0,-200.292,-15.9704,-199.991 1/2:117:0,48,69:0:0:48,69:1700,2418:-335.367,-196.941,-182.492,-138.778,0,-118.007 2/2:147:0,0,147:0:0:0,147:0,5176:-465.91,-465.91,-465.91,-44.2514,-44.2514,0 1/2:220:0,122,95:0:0:122,95:4276,3321:-617.833,-269.909,-233.183,-347.985,0,-319.387 1/2:21:0,4,17:0:0:4,17:140,608:-61.3201,-49.9325,-48.7284,-11.7389,0,-6.62137 1/1:6:0,6,0:0:0:6,0:208,0:-19.0544,-1.80618,0,-19.0544,-1.80618,-19.0544 1/2:24:0,7,17:0:0:7,17:252,568:-66.8803,-46.3154,-44.2082,-20.9171,0,-15.7995 1/2:132:0,64,68:0:0:64,68:2250,2389:-377.774,-194.732,-175.466,-183.393,0,-162.923 1/2:127:0,64,62:0:0:64,62:2256,2156:-358.879,-175.272,-156.006,-183.597,0,-164.933 1/2:137:0,56,77:0:0:56,77:1984,2707:-381.916,-220.315,-203.458,-161.638,0,-138.459 1/2:29:0,13,16:0:0:13,16:459,559:-83.196,-45.8165,-41.9031,-37.7307,0,-32.9142 1/1:29:0,28,1:0:0:28,1:987,36:-88.7294,-8.42884,0,-85.7917,-5.1316,-85.4907 1/2:72:0,30,40:0:0:30,40:1045,1379:-196.955,-112.016,-102.985,-84.9476,0,-72.9064 1/2:69:0,48,20:0:0:48,20:1669,712:-193.709,-58.0273,-43.5778,-135.677,0,-129.656 1/1:117:0,112,3:0:0:112,3:3941,108:-354.4,-33.7154,0,-345.588,-24.8854,-344.685 1/1:45:0,45,0:0:0:45,0:1577,0:-141.929,-13.5464,0,-141.929,-13.5464,-141.929 chr03 21269154 . ACCC GCCT,ACCT 88645.5 PASS AB=0.527238,0.46613;ABP=16.6141,24.0451;AC=27,15;AF=0.642857,0.357143;AN=42;AO=2128,1216;CIGAR=1X2M1X,3M1X;DP=3369;DPB=3369.25;DPRA=0.719178,1.52149;EPP=4623.9,2643.52;EPPR=18.2106;GTI=0;LEN=4,1;MEANALT=2.7,2.84211;MQM=59.9164,59.9984;MQMR=60;NS=21;NUMALT=2;ODDS=18.7834;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=74424,43444;QR=241;RO=7;RPL=989,560;RPP=25.9699,19.4678;RPPR=5.80219;RPR=1139,656;RUN=1,1;SAF=989,560;SAP=25.9699,19.4678;SAR=1139,656;SRF=2;SRP=5.80219;SRR=5;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:152:0,85,65:0:0:85,65:2995,2315:-432.598,-188.767,-163.179,-243.908,0,-224.341 1/2:131:0,76,55:0:0:76,55:2681,1963:-378.683,-160.387,-137.509,-218.651,0,-202.094 1/2:103:0,55,48:0:0:55,48:1927,1720:-297.16,-140.636,-124.079,-156.878,0,-142.428 1/1:200:0,200,0:0:0:200,0:6998,0:-629.832,-60.206,0,-629.832,-60.206,-629.832 1/1:227:0,217,6:0:0:217,6:7559,216:-680.031,-65.3235,0,-662.406,-47.669,-660.6 1/1:127:0,126,1:0:0:126,1:4431,36:-398.607,-37.9298,0,-395.67,-34.6325,-395.369 1/2:306:1,153,150:1:36:153,150:5348,5386:-871.204,-436.453,-393.333,-432.145,0,-389.928 2/2:219:1,0,217:1:35:0,217:0,7743:-693.464,-693.765,-696.612,-62.4158,-65.3235,0 1/2:212:0,105,106:0:0:105,106:3672,3787:-607.545,-308.819,-277.211,-298.779,0,-266.869 1/2:48:0,27,20:0:0:27,20:942,712:-134.639,-58.0264,-49.8986,-76.6059,0,-70.5853 1/1:18:0,18,0:0:0:18,0:645,0:-58.381,-5.41854,0,-58.381,-5.41854,-58.381 1/2:65:0,33,30:0:0:33,30:1147,1067:-180.253,-87.0022,-77.0683,-93.2929,0,-84.262 1/2:136:0,72,63:0:0:72,63:2529,2251:-389.361,-183.528,-161.854,-205.828,0,-186.863 1/2:191:0,107,84:0:0:107,84:3682,2988:-542.891,-243.864,-211.654,-299.377,0,-274.091 1/2:286:0,149,136:0:0:149,136:5233,4848:-821.152,-395.244,-350.391,-425.971,0,-385.031 1/2:133:1,68,64:1:30:68,64:2407,2292:-380.337,-184.577,-166.505,-193.718,0,-176.85 1/1:152:0,150,1:0:0:150,1:5266,36:-473.714,-45.1545,0,-470.777,-42.217,-470.476 1/2:205:0,94,110:0:0:94,110:3275,3932:-586.934,-320.61,-292.313,-266.327,0,-233.214 1/2:143:1,89,53:1:32:89,53:3111,1900:-405.198,-152.425,-128.211,-250.531,0,-237.154 1/1:188:0,182,5:0:0:182,5:6363,180:-572.396,-54.7875,0,-557.709,-40.0921,-556.203 1/1:127:3,122,2:3:108:122,2:4213,72:-369.275,-27.9134,0,-364.303,-30.8508,-372.514 chr03 21557332 . TG CA 9221.76 PASS AB=0.470474;ABP=10.8322;AC=15;AF=0.357143;AN=42;AO=554;CIGAR=2X;DP=1406;DPB=1406.5;DPRA=2.59149;EPP=1206.01;EPPR=1850.93;GTI=0;LEN=2;MEANALT=1.06667;MQM=59.3971;MQMR=60;NS=21;NUMALT=1;ODDS=4.09218;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=19559;QR=30069;RO=851;RPL=0;RPP=1206.01;RPPR=1850.93;RPR=554;RUN=1;SAF=554;SAP=1206.01;SAR=0;SRF=851;SRP=1850.93;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:49,63:49:1710:63:2231:-167.24,0,-120.465 0/1:87:41,46:41:1448:46:1632:-120.979,0,-104.424 0/1:70:35,35:35:1225:35:1236:-90.4724,0,-89.4782 0/0:25:25,0:25:870:0:0:0,-7.52575,-78.6137 0/0:118:117,1:117:4103:1:36:0,-31.9233,-365.86 0/0:33:33,0:33:1162:0:0:0,-9.93399,-104.884 0/1:82:59,23:59:2086:23:820:-49.3832,0,-163.324 1/1:67:0,67:0:0:67:2385:-214.885,-20.169,0 0/1:73:33,40:33:1165:40:1424:-106.481,0,-83.1803 0/1:16:8,8:8:288:8:286:-21.269,0,-21.4509 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:25:9,15:9:324:15:532:-40.6173,0,-21.9213 0/1:45:21,24:21:742:24:825:-61.0153,0,-53.557 0/1:80:49,31:49:1743:31:1075:-72.9629,0,-133.071 0/1:154:78,76:78:2783:76:2675:-194.591,0,-204.352 0/1:76:51,25:51:1791:25:877:-56.366,0,-138.59 0/0:57:57,0:57:2038:0:0:0,-17.1587,-183.692 0/1:167:81,86:81:2885:86:3032:-222.006,0,-209.255 0/1:46:32,14:32:1139:14:493:-30.8497,0,-88.9707 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/0:33:33,0:33:1135:0:0:0,-9.93399,-102.449 chr03 21557371 . AC GC,GA 78168.7 PASS AB=0.738691,0.260245;ABP=932.859,941.171;AC=27,15;AF=0.642857,0.357143;AN=42;AO=2552,557;CIGAR=1X1M,2X;DP=3111;DPB=3113;DPRA=2.27164,1.19334;EPP=5544.61,1212.52;EPPR=5.18177;GTI=3;LEN=1,2;MEANALT=1.75,2;MQM=59.9992,59.4004;MQMR=60;NS=21;NUMALT=2;ODDS=0.470111;PAIRED=0,0;PAIREDR=0;PAO=0,4;PQA=0,144;PQR=0;PRO=0;QA=89807,19752;QR=36;RO=1;RPL=832,557;RPP=673.975,1212.52;RPPR=5.18177;RPR=1720,0;RUN=1,1;SAF=832,557;SAP=673.975,1212.52;SAR=1720,0;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:191:0,129,62:0:0:129,62:4552,2185:-548.888,-178.224,-139.391,-371.016,0,-352.353 1/2:126:0,80,46:0:0:80,46:2835,1646:-365.171,-134.221,-110.139,-230.947,0,-217.1 1/2:133:0,98,35:0:0:98,35:3435,1256:-382.316,-102.809,-73.3085,-279.863,0,-269.327 1/1:167:0,167,0:0:0:167,0:5836,0:-525.359,-50.272,0,-525.359,-50.272,-525.359 1/1:384:0,383,1:0:0:383,1:13281,36:-1194.76,-115.294,0,-1191.83,-111.997,-1191.53 1/1:233:0,233,0:0:0:233,0:8253,0:-742.792,-70.14,0,-742.792,-70.14,-742.792 1/2:212:1,187,23:1:36:187,23:6656,809:-605.051,-62.8702,-9.51545,-539.56,0,-535.574 2/2:67:0,0,67:0:0:0,67:0,2383:-214.344,-214.344,-214.344,-20.169,-20.169,0 1/2:165:0,125,40:0:0:125,40:4388,1438:-474.79,-117.676,-80.0469,-357.471,0,-345.43 1/2:19:0,11,8:0:0:11,8:387,288:-55.3574,-23.8592,-20.5478,-31.8546,0,-29.4464 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/2:42:0,26,16:0:0:26,16:928,572:-122.629,-46.9749,-39.1481,-76.0115,0,-71.195 1/2:117:0,93,24:0:0:93,24:3290,864:-338.817,-70.8497,-42.8539,-268.325,0,-261.101 1/2:146:0,115,31:0:0:115,31:4036,1096:-418.071,-89.6115,-54.9931,-328.813,0,-319.481 1/2:251:0,175,76:0:0:175,76:6202,2655:-721.516,-216.266,-163.586,-505.6,0,-482.722 1/2:127:0,100,27:0:0:100,27:3530,935:-363.789,-76.3303,-46.2273,-287.807,0,-279.679 1/1:125:0,125,0:0:0:125,0:4384,0:-394.738,-37.6288,0,-394.738,-37.6288,-394.738 1/2:203:0,116,87:0:0:116,87:4138,3093:-589.342,-252.013,-217.094,-337.684,0,-311.495 1/2:147:0,133,14:0:0:133,14:4676,496:-421.37,-40.7554,-0.718434,-380.969,0,-376.754 1/1:158:0,158,0:0:0:158,0:5500,0:-495.138,-47.5627,0,-495.138,-47.5627,-495.138 1/1:86:0,86,0:0:0:86,0:3068,0:-276.35,-25.8886,0,-276.35,-25.8886,-276.35 chr03 21557429 . CGGGGGCA CGGGGGGCA 18860.3 PASS AB=0.510903;ABP=4.99913;AC=15;AF=0.357143;AN=42;AO=1096;CIGAR=1M1I7M;DP=2977;DPB=3115.12;DPRA=3.37738;EPP=2382.94;EPPR=4002.86;GTI=0;LEN=1;MEANALT=2.72222;MQM=59.9617;MQMR=59.9875;NS=21;NUMALT=1;ODDS=3.79729;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38943;QR=64624;RO=1842;RPL=1096;RPP=2382.94;RPPR=4002.86;RPR=0;RUN=1;SAF=0;SAP=2382.94;SAR=1096;SRF=0;SRP=4002.86;SRR=1842;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:194:85,106:85:2974:106:3775:-281.821,0,-210.042 0/1:104:41,62:41:1451:62:2189:-165.909,0,-99.5189 0/1:125:66,59:66:2336:59:2084:-150.202,0,-172.872 0/0:155:153,1:153:5348:1:36:0,-43.1202,-477.868 0/0:293:285,5:285:10022:5:176:0,-71.4705,-885.754 0/0:224:221,2:221:7767:2:68:0,-61.0252,-692.62 0/1:302:144,156:144:5091:156:5565:-410.305,0,-367.654 1/1:99:0,98:0:0:98:3500:-314.852,-29.5009,0 0/1:229:93,126:93:3271:126:4486:-337.627,0,-228.331 0/1:13:3,9:3:104:9:320:-25.1706,0,-5.73394 0/0:6:6,0:6:215:0:0:0,-1.80618,-19.6992 0/1:38:16,22:16:570:22:788:-59.8057,0,-40.1938 0/1:172:81,91:81:2848:91:3200:-236.451,0,-204.785 0/1:147:74,73:74:2574:73:2608:-190.717,0,-187.662 0/1:239:109,125:109:3801:125:4444:-329.355,0,-271.516 0/1:146:54,89:54:1873:89:3145:-239.87,0,-125.442 0/0:76:74,0:74:2597:0:0:0,-22.2762,-233.621 0/1:85:43,42:43:1507:42:1496:-109.347,0,-110.335 0/1:132:105,24:105:3649:24:855:-38.1223,0,-289.483 0/0:140:131,6:131:4600:6:208:0,-22.5374,-395.11 0/0:58:58,0:58:2026:0:0:0,-17.4597,-182.612 chr03 21632589 . AAGA AAGAGA 13581.4 PASS AB=0.477685;ABP=9.21278;AC=15;AF=0.357143;AN=42;AO=814;CIGAR=1M2I3M;DP=2340;DPB=2747.5;DPRA=1.53877;EPP=1770.59;EPPR=3299.31;GTI=0;LEN=2;MEANALT=1.25;MQM=59.613;MQMR=59.9427;NS=21;NUMALT=1;ODDS=4.72493;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28407;QR=53770;RO=1518;RPL=0;RPP=1770.59;RPPR=3299.31;RPR=814;RUN=1;SAF=814;SAP=1770.59;SAR=0;SRF=1518;SRP=3299.31;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:69,68:69:2438:68:2361:-171.173,0,-178.114 0/1:101:58,43:58:2052:43:1498:-104.689,0,-154.547 0/1:95:46,48:46:1634:48:1674:-122.22,0,-118.731 0/0:140:140,0:140:4972:0:0:0,-42.1442,-447.63 0/0:287:286,1:286:10131:1:32:0,-83.1963,-908.53 0/0:93:93,0:93:3242:0:0:0,-27.9958,-291.974 0/1:204:117,87:117:4160:87:3073:-215.349,0,-313.173 1/1:126:0,125:0:0:125:4331:-389.501,-37.6288,0 0/1:220:107,113:107:3784:113:3978:-291.954,0,-274.537 0/1:6:4,2:4:138:2:72:-5.03054,0,-10.9536 0/0:11:11,0:11:391:0:0:0,-3.31133,-35.5293 0/1:10:6,4:6:214:4:144:-10.3033,0,-16.5975 0/1:127:58,69:58:2059:69:2369:-175.224,0,-147.351 0/1:121:67,54:67:2369:54:1881:-133.065,0,-177.044 0/1:177:88,89:88:3136:89:3096:-225.578,0,-229.186 0/1:86:44,42:44:1553:42:1461:-105.893,0,-114.173 0/0:94:91,0:91:3216:0:0:0,-27.3937,-289.299 0/1:75:28,47:28:992:47:1665:-127.554,0,-67.0103 0/1:74:55,19:55:1955:19:668:-38.1694,0,-153.935 0/0:98:93,3:93:3305:3:104:0,-19.5056,-287.988 0/0:57:57,0:57:2029:0:0:0,-17.1587,-182.883 chr03 21632608 . GTGT ATAC,ATAT 49941.4 PASS AB=0.509642,0.48416;ABP=4.18278,6.17479;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1509,841;CIGAR=1X1M2X,1X1M1X1M;DP=2364;DPB=2364;DPRA=0.845455,1.43496;EPP=3167.82,1701.25;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.5,2.72222;MQM=59.939,59.5886;MQMR=0;NS=21;NUMALT=2;ODDS=10.9632;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53322,29627;QR=0;RO=0;RPL=13,15;RPP=3167.82,1701.25;RPPR=0;RPR=1496,826;RUN=1,1;SAF=1509,841;SAP=3279.76,1829.22;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:138:0,67,69:0:0:67,69:2379,2429:-391.609,-197.762,-177.593,-193.874,0,-173.103 1/2:101:0,58,43:0:0:58,43:2066,1530:-293.434,-125.039,-107.579,-168.751,0,-155.807 1/2:95:0,45,48:0:0:45,48:1592,1692:-267.381,-137.711,-124.165,-129.663,0,-115.214 1/1:140:0,140,0:0:0:140,0:4959,0:-446.461,-42.1442,0,-446.461,-42.1442,-446.461 1/1:286:0,284,1:0:0:284,1:10084,34:-907.191,-85.4925,0,-904.433,-82.7046,-904.132 1/1:93:0,91,1:0:0:91,1:3194,36:-287.323,-27.3937,0,-284.385,-24.4563,-284.084 1/2:205:0,115,88:0:0:115,88:4063,3091:-582.462,-251.575,-216.957,-330.912,0,-304.422 2/2:132:0,0,131:0:0:0,131:0,4630:-416.513,-416.513,-416.513,-39.4349,-39.4349,0 1/2:223:0,104,116:0:0:104,116:3636,4082:-628.097,-332.308,-301.001,-295.806,0,-260.886 1/2:7:0,4,3:0:0:4,3:137,106:-20.1007,-8.98601,-7.78189,-11.4633,0,-10.5602 1/1:11:0,11,0:0:0:11,0:395,0:-35.8922,-3.31133,0,-35.8922,-3.31133,-35.8922 1/2:10:0,6,4:0:0:6,4:215,144:-29.6433,-12.1095,-10.3033,-17.893,0,-16.6889 1/2:130:0,59,71:0:0:59,71:2069,2514:-373.496,-205.132,-187.372,-168.715,0,-147.342 1/2:123:0,67,56:0:0:67,56:2372,1983:-354.834,-161.62,-141.451,-193.569,0,-176.711 1/2:178:0,87,91:0:0:87,91:3079,3188:-510.54,-259.742,-233.552,-251.15,0,-223.756 1/2:87:0,44,43:0:0:44,43:1558,1513:-250.429,-123.516,-110.27,-127.266,0,-114.322 1/1:95:0,95,0:0:0:95,0:3320,0:-299.008,-28.5979,0,-299.008,-28.5979,-299.008 1/2:79:0,28,51:0:0:28,51:993,1772:-225.279,-144.381,-135.953,-81.2496,0,-65.8971 1/2:76:0,56,20:0:0:56,20:1973,709:-218.728,-58.1146,-41.2569,-160.967,0,-154.946 1/1:98:0,93,3:0:0:93,3:3286,104:-295.63,-27.9958,0,-287.177,-19.5144,-286.274 1/1:57:0,55,2:0:0:55,2:1952,70:-175.605,-16.5567,0,-169.91,-10.5114,-169.308 chr03 21925449 . C T 25576.1 PASS AB=0.439877;ABP=54.1878;AC=27;AF=0.642857;AN=42;AO=1363;CIGAR=1X;DP=2444;DPB=2444;DPRA=0.764667;EPP=2962.73;EPPR=2350.37;GTI=1;LEN=1;MEANALT=1;MQM=59.65;MQMR=59.9611;NS=21;NUMALT=1;ODDS=2.40207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48377;QR=38291;RO=1081;RPL=0;RPP=2962.73;RPPR=2350.37;RPR=1363;RUN=1;SAF=0;SAP=2962.73;SAR=1363;SRF=0;SRP=2350.37;SRR=1081;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:47,49:47:1669:49:1744:-128.322,0,-121.596 0/1:149:81,68:81:2892:68:2410:-172.291,0,-215.663 0/1:109:54,55:54:1905:55:1931:-140.971,0,-138.912 1/1:169:0,169:0:0:169:6049:-544.479,-50.8741,0 1/1:228:11,217:11:396:217:7680:-655.142,-32.6521,0 1/1:57:1,56:1:21:56:1993:-177.343,-15.0588,0 0/1:303:179,124:179:6373:124:4366:-301.733,0,-482.448 0/0:150:150,0:150:5330:0:0:0,-45.1545,-479.832 0/1:113:67,46:67:2378:46:1611:-111.247,0,-180.258 0/1:9:4,5:4:144:5:165:-12.4643,0,-10.6043 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:45:24,21:24:856:21:756:-54.8163,0,-63.7698 0/1:125:67,58:67:2374:58:2054:-147.493,0,-176.286 0/1:192:115,77:115:4032:77:2768:-191.547,0,-305.269 0/1:152:108,44:108:3812:44:1580:-96.7019,0,-297.515 0/1:141:82,59:82:2909:59:2091:-145.97,0,-219.589 1/1:65:4,61:4:140:61:2192:-184.601,-6.62237,0 0/1:97:56,41:56:1956:41:1476:-103.932,0,-147.111 0/1:99:29,70:29:1036:70:2413:-187.617,0,-63.7519 1/1:82:2,80:2:68:80:2849:-250.174,-18.2268,0 1/1:53:0,53:0:0:53:1889:-170.264,-15.9546,0 chr03 21940320 . G C,A 18118.3 PASS AB=0.554577,0.445423;ABP=17.706,17.706;AC=27,15;AF=0.642857,0.357143;AN=42;AO=568,297;CIGAR=1X,1X;DP=865;DPB=865;DPRA=1.05897,2.05155;EPP=1219.1,630.683;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.8,1.94118;MQM=59.963,59.8081;MQMR=0;NS=21;NUMALT=2;ODDS=8.26035;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20253,10610;QR=0;RO=0;RPL=2,2;RPP=1219.1,630.683;RPPR=0;RPR=566,295;RUN=1,1;SAF=568,297;SAP=1236.41,647.938;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,29,21:0:0:29,21:1036,752:-146.123,-61.6562,-52.9263,-84.824,0,-78.5024 1/2:56:0,26,30:0:0:26,30:927,1065:-162.694,-87.1289,-79.3021,-75.9206,0,-66.8897 1/2:49:0,25,24:0:0:25,24:892,845:-141.862,-69.1424,-61.6166,-73.0739,0,-65.8492 1/1:20:0,20,0:0:0:20,0:707,0:-63.9546,-6.0206,0,-63.9546,-6.0206,-63.9546 1/1:100:0,98,2:0:0:98,2:3488,72:-313.772,-29.5009,0,-307.897,-23.2663,-307.295 1/1:42:0,42,0:0:0:42,0:1504,0:-135.655,-12.6433,0,-135.655,-12.6433,-135.655 1/2:80:0,48,32:0:0:48,32:1716,1148:-233.915,-93.9969,-79.5474,-140.276,0,-130.643 2/2:39:0,0,39:0:0:0,39:0,1400:-126.299,-126.299,-126.299,-11.7402,-11.7402,0 1/2:56:0,34,22:0:0:34,22:1208,792:-163.412,-64.983,-54.748,-98.787,0,-92.1644 1/2:12:0,3,9:0:0:3,9:108,324:-35.6088,-26.7966,-25.8935,-9.17208,0,-6.46281 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:20:0,13,7:0:0:13,7:468,252:-59.1082,-20.9217,-17.0084,-38.5463,0,-36.439 1/2:28:0,11,17:0:0:11,17:387,612:-81.7957,-50.2959,-46.9846,-31.8546,0,-26.7371 1/2:28:0,19,9:0:0:19,9:680,305:-80.5326,-25.0679,-19.3483,-55.8096,0,-53.1003 1/2:73:0,45,28:0:0:45,28:1603,1004:-212.047,-81.3889,-67.8426,-131.013,0,-122.584 1/2:45:0,20,25:0:0:20,25:703,896:-130.649,-73.4321,-67.4115,-57.5714,0,-50.0456 1/1:36:0,34,2:0:0:34,2:1220,72:-109.747,-10.235,0,-103.872,-4.00036,-103.27 1/2:35:0,19,16:0:0:19,16:680,572:-102.449,-46.9969,-41.2774,-55.8096,0,-50.9931 1/2:36:0,23,13:0:0:23,13:824,463:-105.296,-38.0935,-31.1698,-67.5596,0,-63.6462 1/1:33:0,32,1:0:0:32,1:1144,36:-102.91,-9.63296,0,-99.9723,-6.33572,-99.6712 1/1:23:0,23,0:0:0:23,0:814,0:-73.5811,-6.92369,0,-73.5811,-6.92369,-73.5811 chr03 21940342 . CAC TAC,TAT 17568.5 PASS AB=0.551237,0.443463;ABP=15.9164,18.7247;AC=27,15;AF=0.642857,0.357143;AN=42;AO=566,295;CIGAR=1X2M,1X1M1X;DP=864;DPB=864;DPRA=1.05769,1.99871;EPP=1232.06,643.595;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.95,2.11765;MQM=59.9682,59.7864;MQMR=0;NS=21;NUMALT=2;ODDS=8.92353;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20223,10191;QR=0;RO=0;RPL=566,295;RPP=1232.06,643.595;RPPR=0;RPR=0,0;RUN=1,1;SAF=566,295;SAP=1232.06,643.595;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:48:0,28,20:0:0:28,20:993,685:-136.851,-55.9447,-47.5158,-81.2537,0,-75.2331 1/2:55:0,25,30:0:0:25,30:900,1044:-158.679,-85.2381,-77.7124,-73.7953,0,-64.7644 1/2:49:0,25,24:0:0:25,24:896,840:-141.774,-68.6929,-61.1672,-73.4346,0,-66.2099 1/1:20:0,20,0:0:0:20,0:716,0:-64.7677,-6.0206,0,-64.7677,-6.0206,-64.7677 1/1:99:0,97,2:0:0:97,2:3460,68:-311.266,-29.1999,0,-305.75,-23.344,-305.148 1/1:44:0,44,0:0:0:44,0:1569,0:-141.5,-13.2453,0,-141.5,-13.2453,-141.5 1/2:80:0,48,32:0:0:48,32:1724,1105:-230.767,-90.1223,-75.6729,-140.996,0,-131.363 2/2:39:0,0,39:0:0:0,39:0,1357:-122.427,-122.427,-122.427,-11.7402,-11.7402,0 1/2:55:0,32,22:0:0:32,22:1140,757:-154.392,-61.465,-51.832,-92.9165,0,-86.2939 1/2:14:0,4,10:0:0:4,10:129,337:-38.0412,-27.6441,-26.44,-10.7235,0,-7.71324 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:20:0,13,7:0:0:13,7:468,250:-58.9278,-20.7395,-16.8261,-38.5463,0,-36.439 1/2:28:0,11,17:0:0:11,17:392,577:-79.0909,-47.1318,-43.8204,-32.3087,0,-27.1912 1/2:28:0,18,9:0:0:18,9:648,300:-77.2425,-24.3472,-18.9287,-52.9681,0,-50.2588 1/2:74:0,46,28:0:0:46,28:1637,976:-212.823,-79.4038,-65.5564,-133.769,0,-125.341 1/2:45:0,20,24:0:0:20,24:716,794:-122.642,-64.2536,-58.233,-58.4497,0,-51.2249 1/1:35:0,33,2:0:0:33,2:1188,72:-106.869,-9.93399,0,-100.994,-3.69933,-100.392 1/2:35:0,19,16:0:0:19,16:680,565:-101.819,-46.3647,-40.6451,-55.8096,0,-50.9931 1/2:35:0,23,12:0:0:23,12:824,428:-102.449,-35.2467,-28.323,-67.5596,0,-63.9473 1/1:34:0,33,1:0:0:33,1:1184,36:-106.509,-9.93399,0,-103.571,-6.63675,-103.27 1/1:23:0,23,0:0:0:23,0:815,0:-73.6708,-6.92369,0,-73.6708,-6.92369,-73.6708 chr03 21940353 . A G 10460.4 PASS AB=0.547619;ABP=13.7643;AC=27;AF=0.642857;AN=42;AO=544;CIGAR=1X;DP=835;DPB=835;DPRA=1.02051;EPP=1184.29;EPPR=634.909;GTI=0;LEN=1;MEANALT=1;MQM=59.9614;MQMR=59.7835;NS=21;NUMALT=1;ODDS=6.88631;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19266;QR=10366;RO=291;RPL=544;RPP=1184.29;RPPR=634.909;RPR=0;RUN=1;SAF=544;SAP=1184.29;SAR=0;SRF=291;SRP=634.909;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:20,27:20:720:27:957:-72.2955,0,-50.9519 0/1:53:29,24:29:1031:24:851:-60.9549,0,-77.148 0/1:48:23,25:23:824:25:896:-66.5109,0,-60.0339 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 1/1:94:2,92:2:72:92:3244:-285.339,-21.4601,0 1/1:42:0,42:0:0:42:1495:-134.844,-12.6433,0 0/1:76:31,45:31:1112:45:1595:-120.961,0,-77.5131 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 0/1:56:22,34:22:777:34:1196:-91.0845,0,-53.3927 0/1:12:9,3:9:320:3:104:-6.09045,0,-25.5253 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:20:7,13:7:252:13:460:-35.7148,0,-17.0084 0/1:27:17,10:17:608:10:356:-24.2534,0,-46.9242 0/1:27:9,18:9:305:18:640:-49.8015,0,-19.647 0/1:70:27,43:27:972:43:1540:-117.821,0,-65.8676 0/1:43:25,18:25:865:18:636:-44.61,0,-65.2127 1/1:36:2,34:2:72:34:1192:-100.747,-4.00036,0 0/1:34:16,18:16:572:18:625:-46.3391,0,-41.5784 0/1:33:12,21:12:428:21:748:-57.7113,0,-28.9248 1/1:34:1,33:1:36:33:1176:-102.549,-6.63675,0 1/1:21:0,21:0:0:21:731:-66.1104,-6.32163,0 chr03 21946379 . C G 9061.55 PASS AB=0.368794;ABP=171.677;AC=14;AF=0.333333;AN=42;AO=540;CIGAR=1X;DP=1983;DPB=1983;DPRA=1.53209;EPP=1090.36;EPPR=2823.31;GTI=1;LEN=1;MEANALT=1;MQM=54.4481;MQMR=59.3701;NS=21;NUMALT=1;ODDS=5.05569;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19306;QR=51613;RO=1443;RPL=530;RPP=1090.36;RPPR=2848.08;RPR=10;RUN=1;SAF=0;SAP=1175.61;SAR=540;SRF=3;SRP=3110.44;SRR=1440;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:85,50:85:3018:50:1796:-120.969,0,-231.153 0/1:79:53,26:53:1908:26:915:-58.4329,0,-148.01 0/1:69:35,34:35:1256:34:1209:-88.1385,0,-92.5605 0/0:119:119,0:119:4264:0:0:0,-35.8226,-383.561 0/0:205:204,1:204:7275:1:36:0,-58.1281,-650.75 0/0:123:121,2:121:4344:2:72:0,-30.197,-384.194 0/1:82:55,27:55:1957:27:972:-62.3361,0,-151.717 1/1:118:0,118:0:0:118:4235:-380.853,-35.5215,0 0/1:134:87,47:87:3098:47:1688:-111.578,0,-238.544 0/0:23:21,2:21:756:2:72:0,-0.0934392,-61.537 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2665 0/1:20:16,4:16:576:4:144:-7.27109,0,-46.1437 0/1:157:96,61:96:3452:61:2153:-146.596,0,-263.15 0/1:83:47,36:47:1688:36:1292:-89.6242,0,-127.135 0/1:141:89,52:89:3189:52:1850:-124.03,0,-244.763 0/1:45:25,20:25:896:20:716:-51.1466,0,-67.4058 0/0:58:58,0:58:2057:0:0:0,-17.4597,-185.159 0/1:86:51,35:51:1836:35:1260:-87.5159,0,-139.506 0/1:97:73,24:73:2605:24:864:-48.7401,0,-205.289 0/0:122:121,1:121:4337:1:32:0,-33.567,-384.495 0/0:79:79,0:79:2813:0:0:0,-23.7814,-253.354 chr03 21946382 . G A 30007.2 PASS AB=0.636119;ABP=182.13;AC=28;AF=0.666667;AN=42;AO=1430;CIGAR=1X;DP=1952;DPB=1952;DPRA=0.829279;EPP=3004.86;EPPR=1104.1;GTI=1;LEN=1;MEANALT=1.1;MQM=59.4021;MQMR=54.3834;NS=21;NUMALT=1;ODDS=6.10061;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51202;QR=18209;RO=519;RPL=1421;RPP=3030.53;RPPR=1104.1;RPR=9;RUN=1;SAF=3;SAP=3082.21;SAR=1427;SRF=0;SRP=1130;SRR=519;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:50,85:50:1759:85:3047:-233.763,0,-117.631 0/1:79:26,53:26:928:53:1904:-147.636,0,-59.4041 0/1:66:31,35:31:1073:35:1245:-92.4822,0,-76.8256 1/1:119:0,119:0:0:119:4251:-382.571,-35.8226,0 1/1:200:1,198:1:27:198:7096:-635.393,-57.4517,0 1/1:123:2,121:2:72:121:4319:-381.954,-30.197,0 0/1:85:29,56:29:1010:56:2008:-155.404,0,-64.8155 0/0:111:111,0:111:3876:0:0:0,-33.4143,-348.529 0/1:132:46,86:46:1636:86:3069:-236.538,0,-107.539 1/1:22:1,21:1:36:21:756:-64.7707,-3.0261,0 1/1:8:0,8:0:0:8:288:-26.2665,-2.40824,0 0/1:20:4,16:4:144:16:576:-46.1437,0,-7.27109 0/1:145:52,91:52:1814:91:3257:-249.502,0,-120.025 0/1:81:34,47:34:1203:47:1676:-126.705,0,-82.5926 0/1:141:51,90:51:1780:90:3240:-249.333,0,-117.725 0/1:45:20,25:20:708:25:900:-67.7665,0,-50.4285 1/1:57:0,57:0:0:57:2031:-182.829,-17.1587,0 0/1:87:36,51:36:1267:51:1819:-137.646,0,-87.5958 0/1:97:24,73:24:844:73:2612:-205.781,0,-46.9514 1/1:121:1,120:1:32:120:4304:-383.053,-33.266,0 1/1:78:0,78:0:0:78:2804:-252.544,-23.4803,0 chr03 21957159 . ATTAT GTTGC,ATTGC 43516 PASS AB=0.545194,0.446198;ABP=27.7408,38.0592;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1681,696;CIGAR=1X2M2X,3M2X;DP=2391;DPB=2391;DPRA=1.76136,1.26718;EPP=3635.9,1514.36;EPPR=5.18177;GTI=0;LEN=5,2;MEANALT=2.4,2.75;MQM=34.5062,47.556;MQMR=60;NS=21;NUMALT=2;ODDS=23.7484;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59140,24618;QR=36;RO=1;RPL=2,0;RPP=3635.9,1514.36;RPPR=5.18177;RPR=1679,696;RUN=1,1;SAF=1681,696;SAP=3653.26,1514.36;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:149:0,45,103:0:0:45,103:1577,3656:-407.571,-294.297,-280.751,-113.372,0,-82.3655 1/2:109:1,62,46:1:36:62,46:2202,1634:-274.416,-127.287,-111.561,-144.459,0,-133.55 1/2:112:0,68,44:0:0:68,44:2405,1562:-302.52,-125.461,-104.991,-177.398,0,-164.152 1/1:180:0,180,0:0:0:180,0:6354,0:-520.191,-54.1854,0,-520.191,-54.1854,-520.191 1/1:348:0,341,6:0:0:341,6:11952,216:-980.895,-102.651,0,-963.375,-85.0272,-961.569 1/1:110:0,107,2:0:0:107,2:3751,72:-283.207,-32.2102,0,-277.421,-26.3116,-276.819 1/2:137:0,84,51:0:0:84,51:2931,1804:-344.48,-144.346,-119.059,-200.233,0,-184.88 2/2:66:0,0,66:0:0:0,66:0,2328:-206.987,-206.987,-206.987,-19.868,-19.868,0 1/2:180:0,96,82:0:0:96,82:3367,2852:-483.559,-229.532,-200.633,-254.091,0,-229.407 1/2:16:0,6,10:0:0:6,10:205,355:-43.4528,-28.668,-26.8619,-15.1075,0,-12.0972 1/1:9:0,9,0:0:0:9,0:318,0:-23.9775,-2.70927,0,-23.9775,-2.70927,-23.9775 1/2:18:0,7,11:0:0:7,11:244,385:-48.437,-31.3845,-29.2773,-17.3734,0,-14.0621 1/2:154:0,85,68:0:0:85,68:3009,2420:-416.169,-195.81,-170.222,-220.368,0,-199.898 1/2:98:0,54,43:0:0:54,43:1893,1521:-261.408,-122.574,-106.318,-138.813,0,-125.869 1/2:101:0,57,43:0:0:57,43:1997,1522:-270.479,-123.287,-106.128,-147.282,0,-134.338 1/2:97:0,50,46:0:0:50,46:1772,1628:-264.85,-131.497,-116.445,-133.355,0,-119.508 1/1:88:0,88,0:0:0:88,0:3113,0:-257.354,-26.4906,0,-257.354,-26.4906,-257.354 1/2:121:0,66,53:0:0:66,53:2330,1875:-314.743,-149.377,-129.509,-165.401,0,-149.446 1/2:102:0,80,22:0:0:80,22:2826,788:-270.49,-63.3986,-39.3162,-207.437,0,-200.814 1/1:116:0,116,0:0:0:116,0:4085,0:-325.082,-34.9195,0,-325.082,-34.9195,-325.082 1/1:80:0,80,0:0:0:80,0:2809,0:-213.706,-24.0824,0,-213.706,-24.0824,-213.706 chr03 21957225 . GAAGG TGAGG,TGAGA 60548.8 PASS AB=0.482107,0.510437;ABP=8.60519,4.91412;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1739,1224;CIGAR=2X3M,2X2M1X;DP=2984;DPB=2984;DPRA=0.735263,1.72353;EPP=3779.2,2660.89;EPPR=0;GTI=1;LEN=2,5;MEANALT=2.75,3.0625;MQM=59.8775,59.857;MQMR=0;NS=21;NUMALT=2;ODDS=6.55137;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61337,42919;QR=0;RO=0;RPL=0,0;RPP=3779.2,2660.89;RPPR=0;RPR=1739,1224;RUN=1,1;SAF=0,0;SAP=3779.2,2660.89;SAR=1739,1224;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:252:0,104,145:0:0:104,145:3682,5078:-712.878,-413.223,-381.916,-299.715,0,-256.065 1/2:49:0,22,27:0:0:22,27:752,950:-138.7,-77.6751,-71.0524,-61.3706,0,-53.2428 1/2:191:0,88,103:0:0:88,103:3091,3647:-548.947,-297.428,-270.938,-251.87,0,-220.864 1/1:126:0,125,0:0:0:125,0:4391,0:-394.732,-37.6288,0,-394.732,-37.6288,-394.732 1/1:188:0,181,6:0:0:181,6:6431,205:-578.514,-54.4864,0,-561.878,-37.8654,-560.072 1/1:126:0,125,0:0:0:125,0:4388,0:-394.73,-37.6288,0,-394.73,-37.6288,-394.73 1/2:155:0,96,59:0:0:96,59:3381,2081:-445.008,-169.776,-140.877,-275.585,0,-257.824 2/2:190:0,0,189:0:0:0,189:0,6611:-594.76,-594.76,-594.76,-56.8947,-56.8947,0 1/2:385:0,198,185:0:0:198,185:6953,6514:-1096.2,-530.31,-470.706,-565.886,0,-510.196 1/2:19:0,9,10:0:0:9,10:309,347:-53.641,-28.5534,-25.8442,-25.4325,0,-22.4222 1/1:4:0,4,0:0:0:4,0:133,0:-12.2976,-1.20412,0,-12.2976,-1.20412,-12.2976 1/2:36:0,18,17:0:0:18,17:635,609:-101.475,-49.769,-44.3505,-51.8028,0,-46.6853 1/2:196:0,97,97:0:0:97,97:3418,3407:-555.578,-277.296,-248.096,-278.284,0,-249.084 1/2:136:0,70,65:0:0:70,65:2409,2221:-375.925,-180.276,-159.204,-195.682,0,-176.115 1/2:263:0,112,149:0:0:112,149:3985,5250:-752.253,-427.487,-393.771,-324.814,0,-279.961 1/2:131:0,49,80:0:0:49,80:1708,2796:-366.46,-227.556,-212.806,-139.007,0,-114.924 1/1:130:0,129,0:0:0:129,0:4597,0:-413.609,-38.8329,0,-413.609,-38.8329,-413.609 1/2:103:0,51,51:0:0:51,51:1826,1792:-294.812,-145.898,-130.545,-148.967,0,-133.615 1/2:96:0,56,39:0:0:56,39:2004,1339:-272.201,-108.773,-91.9149,-163.485,0,-151.745 1/1:136:0,133,2:0:0:133,2:4699,72:-422.679,-40.037,0,-416.804,-34.1622,-416.202 1/1:72:0,72,0:0:0:72,0:2545,0:-229.3,-21.6742,0,-229.3,-21.6742,-229.3 chr03 21957253 . A G 33382.3 PASS AB=0.485168;ABP=6.81065;AC=27;AF=0.642857;AN=42;AO=1726;CIGAR=1X;DP=2941;DPB=2941;DPRA=0.757967;EPP=3750.97;EPPR=2634.83;GTI=1;LEN=1;MEANALT=1.15;MQM=59.883;MQMR=59.8515;NS=21;NUMALT=1;ODDS=6.2859;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61587;QR=43321;RO=1212;RPL=1726;RPP=3750.97;RPPR=2634.83;RPR=0;RUN=1;SAF=0;SAP=3750.97;SAR=1726;SRF=0;SRP=2634.83;SRR=1212;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:246:144,101:144:5149:101:3612:-251.175,0,-389.424 0/1:49:27,22:27:968:22:761:-54.0529,0,-72.6753 0/1:189:104,85:104:3724:85:3035:-216.473,0,-278.459 1/1:121:0,120:0:0:120:4284:-384.82,-36.1236,0 1/1:183:6,177:6:212:177:6301:-547.665,-35.6637,0 1/1:126:0,126:0:0:126:4486:-403.866,-37.9298,0 0/1:157:60,97:60:2148:97:3453:-263.698,0,-146.272 0/0:182:182,0:182:6472:0:0:0,-54.7875,-582.518 0/1:385:185,199:185:6609:199:7096:-522.892,0,-479.068 0/1:19:10,9:10:345:9:324:-23.7863,0,-25.6613 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:36:19,17:19:684:17:612:-44.5764,0,-51.0451 0/1:193:97,96:97:3469:96:3432:-250.995,0,-254.286 0/1:131:61,70:61:2192:70:2493:-185.187,0,-158.093 0/1:258:147,111:147:5265:111:3957:-278.651,0,-396.318 0/1:127:78,49:78:2804:49:1756:-120.092,0,-214.368 1/1:130:0,130:0:0:130:4648:-417.993,-39.1339,0 0/1:104:52,52:52:1844:52:1863:-136.641,0,-134.907 0/1:95:38,57:38:1364:57:2036:-154.914,0,-94.4629 1/1:135:2,133:2:72:133:4755:-421.251,-33.8023,0 1/1:71:0,71:0:0:71:2539:-228.761,-21.3731,0 chr03 21961324 . A G 30884 PASS AB=0.490623;ABP=4.27272;AC=27;AF=0.642857;AN=42;AO=1568;CIGAR=1X;DP=2550;DPB=2550;DPRA=0.938372;EPP=3399.2;EPPR=2128.88;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9222;MQMR=34.2176;NS=21;NUMALT=1;ODDS=7.83425;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56021;QR=35015;RO=979;RPL=1;RPP=3399.2;RPPR=2128.88;RPR=1567;RUN=1;SAF=1568;SAP=3407.88;SAR=0;SRF=979;SRP=2128.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:62,40:62:2201:40:1436:-98.8326,0,-145.729 0/1:122:63,59:63:2260:59:2120:-154.343,0,-138.333 0/1:131:68,63:68:2444:63:2251:-163.413,0,-154.767 1/1:86:0,86:0:0:86:3065:-276.03,-25.8886,0 1/1:242:2,240:2:72:240:8574:-764.88,-66.7928,0 1/1:111:0,111:0:0:111:3974:-357.849,-33.4143,0 0/1:221:149,72:149:5307:72:2580:-165.913,0,-348.479 0/0:129:129,0:129:4586:0:0:0,-38.8329,-358.689 0/1:201:82,119:82:2944:119:4264:-323.431,0,-169.864 0/1:14:9,5:9:324:5:176:-11.9706,0,-21.3994 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:30:11,19:11:396:19:667:-51.3237,0,-21.2627 0/1:162:63,98:63:2256:98:3504:-266.819,0,-133.231 0/1:127:103,24:103:3696:24:848:-38.4088,0,-256.011 0/1:142:67,73:67:2412:73:2599:-191.692,0,-151.013 0/1:126:54,72:54:1925:72:2541:-190.999,0,-109.043 1/1:98:1,97:1:36:97:3458:-308.378,-26.4464,0 0/1:138:75,63:75:2688:63:2248:-161.039,0,-166.654 0/1:137:33,104:33:1180:104:3732:-294.839,0,-51.6803 1/1:151:6,145:6:216:145:5196:-450.599,-28.2755,0 1/1:69:2,67:2:72:67:2396:-209.067,-13.9414,0 chr03 21961334 . TCCACAA TCACAA 11666.1 PASS AB=0.490543;ABP=4.28351;AC=15;AF=0.357143;AN=42;AO=940;CIGAR=1M1D5M;DP=2552;DPB=2417.29;DPRA=1.88651;EPP=2044.19;EPPR=2477.43;GTI=0;LEN=1;MEANALT=1.47059;MQM=34.1926;MQMR=59.943;NS=21;NUMALT=1;ODDS=11.3166;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30926;QR=56162;RO=1597;RPL=0;RPP=2044.19;RPPR=2477.43;RPR=940;RUN=1;SAF=940;SAP=2044.19;SAR=0;SRF=1597;SRP=3470.85;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:42,57:42:1476:57:1918:-129.259,0,-103.139 0/1:122:60,61:60:2143:61:1992:-126.891,0,-156.531 0/1:127:58,63:58:2072:63:2118:-137.938,0,-149.993 0/0:87:85,0:85:2955:0:0:0,-25.5875,-265.823 0/0:249:246,2:246:8633:2:68:0,-69.1104,-770.436 0/0:114:114,0:114:4002:0:0:0,-34.3174,-360.378 0/1:218:73,145:73:2555:145:4726:-322.653,0,-164.573 1/1:127:0,127:0:0:127:4145:-340.242,-38.2308,0 0/1:204:123,80:123:4302:80:2600:-153.589,0,-325.898 0/1:14:5,9:5:178:9:297:-20.378,0,-12.1542 0/0:11:11,0:11:390:0:0:0,-3.31133,-35.4389 0/1:31:20,11:20:698:11:350:-19.5214,0,-53.8101 0/1:160:102,58:102:3578:58:1920:-110.863,0,-274.067 0/1:124:25,99:25:861:99:3293:-235.066,0,-40.4767 0/1:143:74,69:74:2648:69:2329:-150.122,0,-195.52 0/1:123:72,51:72:2556:51:1625:-95.9615,0,-193.266 0/0:99:98,1:98:3447:1:32:0,-26.9029,-307.55 0/1:136:66,69:66:2303:69:2265:-145.762,0,-166.709 0/1:137:105,32:105:3674:32:1050:-45.332,0,-289.631 0/0:155:148,6:148:5229:6:198:0,-30.215,-454.254 0/0:71:70,0:70:2462:0:0:0,-21.0721,-221.468 chr03 22085099 . T C 8218.49 PASS AB=0.323456;ABP=542.016;AC=20;AF=0.47619;AN=42;AO=644;CIGAR=1X;DP=2201;DPB=2201;DPRA=0.474048;EPP=1401.44;EPPR=3383.99;GTI=3;LEN=1;MEANALT=1;MQM=59.8602;MQMR=59.9396;NS=21;NUMALT=1;ODDS=9.21871;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22986;QR=55689;RO=1557;RPL=644;RPP=1401.44;RPPR=3383.99;RPR=0;RUN=1;SAF=0;SAP=1401.44;SAR=644;SRF=0;SRP=3383.99;SRR=1557;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:109,46:109:3920:46:1652:-102.309,0,-306.325 0/1:63:36,27:36:1296:27:972:-68.8154,0,-97.979 0/1:98:78,20:78:2792:20:720:-35.6278,0,-222.019 0/1:53:25,28:25:892:28:1004:-74.7213,0,-64.6451 0/1:209:109,100:109:3912:100:3554:-257.151,0,-289.357 0/1:82:35,47:35:1252:47:1680:-126.785,0,-88.3006 0/1:186:146,40:146:5221:40:1436:-73.5445,0,-413.718 0/0:210:210,0:210:7476:0:0:0,-63.2163,-672.881 0/1:230:178,52:178:6381:52:1852:-97.7178,0,-505.139 0/1:19:14,5:14:504:5:180:-10.8325,0,-39.9785 0/1:11:6,5:6:212:5:180:-13.2407,0,-16.1135 0/1:37:26,11:26:913:11:396:-24.8446,0,-71.3459 0/1:141:112,29:112:4012:29:1044:-51.8296,0,-318.815 0/1:86:62,24:62:2205:24:864:-52.1878,0,-172.335 0/1:147:113,34:113:4044:34:1220:-65.7993,0,-319.896 0/1:60:41,19:41:1472:19:654:-41.1158,0,-114.714 0/1:38:24,14:24:837:14:481:-32.1045,0,-64.2065 0/1:86:74,12:74:2648:12:432:-13.3326,0,-212.678 0/1:106:70,36:70:2508:36:1280:-83.5941,0,-194.063 0/1:107:42,65:42:1508:65:2313:-176.206,0,-103.577 0/1:77:47,30:47:1684:30:1072:-73.6131,0,-128.668 chr03 22096938 . G A 25287.7 PASS AB=0.522968;ABP=8.19728;AC=27;AF=0.642857;AN=42;AO=1071;CIGAR=1X;DP=1689;DPB=1689;DPRA=1.12292;EPP=971.112;EPPR=155.027;GTI=0;LEN=1;MEANALT=1;MQM=59.9767;MQMR=60;NS=21;NUMALT=1;ODDS=2.80521;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38256;QR=22111;RO=618;RPL=881;RPP=971.112;RPPR=155.027;RPR=190;RUN=1;SAF=1071;SAP=2328.66;SAR=0;SRF=618;SRP=1344.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:36,64:36:1268:64:2277:-175.077,0,-84.317 0/1:66:24,42:24:860:42:1496:-115.066,0,-57.8539 0/1:109:62,47:62:2216:47:1680:-118.675,0,-166.892 1/1:47:0,47:0:0:47:1680:-151.487,-14.1484,0 1/1:196:3,193:3:108:193:6875:-608.742,-48.9267,0 1/1:57:0,57:0:0:57:2048:-184.592,-17.1587,0 0/1:142:65,77:65:2316:77:2756:-205.536,0,-165.955 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.809 0/1:149:63,86:63:2256:86:3092:-233.653,0,-158.449 0/1:11:9,2:9:320:2:72:-3.52539,0,-25.831 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:32:19,13:19:680:13:464:-32.4645,0,-51.8962 0/1:69:39,30:39:1396:30:1072:-76.0214,0,-105.168 0/1:83:41,42:41:1472:42:1496:-109.949,0,-107.791 0/1:208:107,101:107:3852:101:3615:-262.941,0,-284.259 0/1:50:31,19:31:1108:19:684:-46.8388,0,-84.9795 1/1:68:1,67:1:36:67:2381:-210.948,-16.8718,0 0/1:71:33,38:33:1171:38:1359:-101.237,0,-84.3235 0/1:42:11,31:11:396:31:1093:-86.0344,0,-23.3395 1/1:67:2,65:2:72:65:2336:-203.663,-13.3323,0 1/1:43:0,43:0:0:43:1532:-138.163,-12.9443,0 chr03 22138991 . A C 19137.9 PASS AB=0.46039;ABP=26.7494;AC=15;AF=0.357143;AN=42;AO=924;CIGAR=1X;DP=2897;DPB=2897;DPRA=1.43132;EPP=2009.45;EPPR=4282.98;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.6677;MQMR=59.9721;NS=21;NUMALT=1;ODDS=14.2286;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32352;QR=70366;RO=1971;RPL=191;RPP=693.379;RPPR=1683.37;RPR=733;RUN=1;SAF=191;SAP=693.379;SAR=733;SRF=368;SRP=1683.37;SRR=1603;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:88,63:88:3118:63:2206:-153.314,0,-235.389 0/1:79:55,24:55:1958:24:852:-53.0203,0,-152.713 0/1:144:78,66:78:2792:66:2271:-161.282,0,-208.172 0/0:231:230,0:230:8218:0:0:0,-69.2369,-739.273 0/0:379:377,1:377:13438:1:36:0,-110.551,-1205.61 0/0:100:97,3:97:3424:3:108:0,-20.0278,-298.297 0/1:144:73,71:73:2624:71:2496:-181.511,0,-193.059 1/1:115:0,115:0:0:115:4070:-366.344,-34.6185,0 0/1:216:109,107:109:3893:107:3689:-267.152,0,-285.541 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2868 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:37:21,16:21:756:16:549:-38.5943,0,-57.2291 0/1:196:99,97:99:3533:97:3456:-252.247,0,-259.176 0/1:135:79,56:79:2823:56:1961:-136.119,0,-213.583 0/1:281:132,149:132:4710:149:5226:-385.895,0,-339.471 0/1:99:57,42:57:2039:42:1442:-100.252,0,-153.979 0/0:103:103,0:103:3696:0:0:0,-31.0061,-332.833 0/1:133:66,67:66:2350:67:2358:-172.323,0,-171.721 0/1:113:74,39:74:2643:39:1344:-87.2365,0,-204.1 0/0:152:149,3:149:5335:3:108:0,-35.6814,-470.207 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.847 chr03 22138999 . CAGTG CAGTA,TAGTA 48630.4 PASS AB=0.520679,0.476366;ABP=8.03965,9.57924;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1577,753;CIGAR=4M1X,1X3M1X;DP=2339;DPB=2339;DPRA=1.09657,1.37864;EPP=3427.42,1638.13;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=2.15,2.35294;MQM=59.9677,59.4861;MQMR=60;NS=21;NUMALT=2;ODDS=0.368031;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55852,26587;QR=36;RO=1;RPL=0,0;RPP=3427.42,1638.13;RPPR=5.18177;RPR=1577,753;RUN=1,1;SAF=0,0;SAP=3427.42,1638.13;SAR=1577,753;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:131:0,73,56:0:0:73,56:2578,1956:-369.031,-159.087,-137.112,-209.974,0,-193.116 1/2:79:0,54,25:0:0:54,25:1912,871:-226.688,-70.9356,-54.68,-156.102,0,-148.576 1/2:111:0,57,54:0:0:57,54:1989,1903:-317.048,-155.275,-138.116,-162.124,0,-145.869 1/1:184:0,184,0:0:0:184,0:6514,0:-586.35,-55.3895,0,-586.35,-55.3895,-586.35 1/1:314:1,311,1:1:36:311,1:11046,30:-990.482,-90.6546,0,-988.384,-91.2234,-991.021 1/1:98:0,94,3:0:0:94,3:3324,107:-299.034,-28.2968,0,-290.311,-19.5393,-289.408 1/2:145:0,73,72:0:0:73,72:2564,2541:-415.92,-207.237,-185.262,-209.035,0,-187.361 2/2:102:0,0,101:0:0:0,101:0,3568:-320.708,-320.708,-320.708,-30.404,-30.404,0 1/2:149:0,71,78:0:0:71,78:2499,2742:-426.905,-223.465,-202.092,-203.791,0,-180.311 1/2:11:0,8,3:0:0:8,3:288,105:-32.3948,-8.89288,-6.48464,-23.8545,0,-22.9514 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:27:0,13,13:0:0:13,13:452,459:-74.1483,-37.3999,-33.4866,-36.7665,0,-32.8532 1/2:179:0,88,91:0:0:88,91:3135,3238:-519.771,-264.241,-237.751,-255.886,0,-228.492 1/2:90:0,49,41:0:0:49,41:1715,1455:-258.423,-118.899,-104.149,-139.877,0,-127.534 1/2:180:0,85,94:0:0:85,94:3001,3315:-514.176,-269.794,-244.207,-244.375,0,-216.078 1/2:75:0,45,30:0:0:45,30:1596,1058:-216.519,-86.4882,-72.9418,-130.384,0,-121.353 1/1:82:0,82,0:0:0:82,0:2914,0:-262.494,-24.6845,0,-262.494,-24.6845,-262.494 1/2:105:0,48,57:0:0:48,57:1708,2022:-304.217,-165.016,-150.566,-139.556,0,-122.398 1/2:72:0,41,31:0:0:41,31:1476,1110:-211.313,-90.8774,-78.5352,-120.794,0,-111.462 1/1:130:0,127,3:0:0:127,3:4509,107:-405.626,-38.2308,0,-396.903,-29.1517,-396 1/1:68:0,67,0:0:0:67,0:2380,0:-214.107,-20.169,0,-214.107,-20.169,-214.107 chr03 22199612 . T C 58667.4 PASS AB=0.633608;ABP=361.025;AC=27;AF=0.642857;AN=42;AO=2858;CIGAR=1X;DP=3809;DPB=3809;DPRA=2.02011;EPP=6209.08;EPPR=2068.08;GTI=2;LEN=1;MEANALT=1;MQM=56.1564;MQMR=59.9716;NS=21;NUMALT=1;ODDS=30.0758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102536;QR=34080;RO=951;RPL=0;RPP=6209.08;RPPR=2068.08;RPR=2858;RUN=1;SAF=2858;SAP=6209.08;SAR=0;SRF=951;SRP=2068.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:276:66,210:66:2360:210:7528:-592.713,0,-129.574 0/1:123:16,107:16:568:107:3844:-308.192,0,-14.4252 0/1:227:111,116:111:3972:116:4164:-306.306,0,-289.337 1/1:280:1,279:1:36:279:10024:-897.43,-80.6901,0 1/1:398:5,393:5:180:393:14095:-1248.95,-103.258,0 1/1:237:2,235:2:72:235:8436:-749.358,-64.5074,0 0/1:322:124,198:124:4456:198:7099:-540.155,0,-304.241 0/0:92:92,0:92:3296:0:0:0,-27.6948,-296.859 0/1:391:156,235:156:5560:235:8432:-640.484,0,-382.823 0/1:23:13,10:13:468:10:356:-25.437,0,-35.536 1/1:10:0,10:0:0:10:352:-31.9545,-3.0103,0 0/1:29:15,14:15:540:14:504:-36.9219,0,-40.2067 0/1:311:139,172:139:4992:172:6176:-461.506,0,-355.803 0/1:217:93,124:93:3344:124:4448:-334.772,0,-235.852 0/1:158:47,111:47:1684:111:3984:-310.78,0,-104.282 0/1:96:11,85:11:392:85:3060:-246.626,0,-6.72118 1/1:182:0,182:0:0:182:6520:-586.172,-54.7875,0 0/1:75:33,42:33:1188:42:1500:-112.415,0,-84.6513 0/1:61:22,39:22:792:39:1392:-107.172,0,-53.2428 1/1:236:5,231:5:180:231:8292:-728.004,-54.491,0 1/1:65:0,65:0:0:65:2330:-209.028,-19.567,0 chr03 22199667 . G T 92437.2 PASS AB=0.733484;ABP=1465.21;AC=28;AF=0.666667;AN=42;AO=4983;CIGAR=1X;DP=5920;DPB=5920;DPRA=3.27584;EPP=10823.5;EPPR=2033.34;GTI=5;LEN=1;MEANALT=1.1;MQM=38.3743;MQMR=59.9401;NS=21;NUMALT=1;ODDS=0.819051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=177145;QR=32428;RO=935;RPL=2843;RPP=218.375;RPPR=2024.66;RPR=2140;RUN=1;SAF=2843;SAP=218.375;SAR=2140;SRF=934;SRP=2024.66;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:399:66,333:66:2301:333:11782:-703.895,0,-87.2378 0/1:123:16,107:16:568:107:3814:-305.776,0,-14.4252 0/1:327:108,218:108:3742:218:7743:-406.988,0,-238.49 1/1:496:1,495:1:36:495:17610:-1172.24,-145.713,0 1/1:858:5,853:5:176:853:30318:-1841.22,-242.099,0 1/1:236:2,234:2:72:234:8346:-742.339,-64.2064,0 0/1:324:123,201:123:4250:201:7145:-543.707,0,-285.138 0/0:89:89,0:89:3077:0:0:0,-26.7917,-277.162 0/1:565:153,412:153:5263:412:14674:-842.28,0,-303.731 0/1:36:13,23:13:464:23:824:-33.068,0,-31.2604 1/1:9:0,9:0:0:9:315:-28.63,-2.70927,0 0/1:48:15,33:15:520:33:1176:-47.4197,0,-32.6785 0/1:426:137,289:137:4734:289:10307:-580.488,0,-297.985 0/1:301:89,212:89:3112:212:7538:-424.352,0,-189.697 0/1:326:46,280:46:1601:280:9979:-483.759,0,-46.2413 1/1:265:10,255:10:360:255:9089:-497.821,-47.0286,0 1/1:349:0,349:0:0:349:12377:-832.011,-105.059,0 0/1:102:34,68:34:1156:68:2399:-125.4,0,-73.6324 0/1:111:22,89:22:780:89:3130:-164.514,0,-37.1087 1/1:465:6,458:6:216:458:16292:-920.106,-121.333,0 1/1:65:0,65:0:0:65:2287:-205.558,-19.567,0 chr03 22251155 . G A 29498.3 PASS AB=0.540275;ABP=17.3531;AC=27;AF=0.642857;AN=42;AO=1137;CIGAR=1X;DP=1677;DPB=1677;DPRA=1.22045;EPP=2471.97;EPPR=1173.43;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=18.1916;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40466;QR=19207;RO=539;RPL=598;RPP=9.65841;RPPR=11.1684;RPR=539;RUN=1;SAF=598;SAP=9.65841;SAR=539;SRF=292;SRP=11.1684;SRR=247;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:50,69:50:1765:69:2464:-186.19,0,-123.309 0/1:73:37,36:37:1328:36:1284:-93.8882,0,-97.847 0/1:49:22,27:22:783:27:937:-69.8895,0,-56.0425 1/1:91:0,91:0:0:91:3260:-293.621,-27.3937,0 1/1:158:2,156:2:72:156:5564:-494.047,-40.726,0 1/1:65:1,64:1:36:64:2258:-199.882,-15.9687,0 0/1:98:44,54:44:1560:54:1932:-144.656,0,-111.191 0/0:66:66,0:66:2355:0:0:0,-19.868,-212.208 0/1:98:47,51:47:1675:51:1832:-135.66,0,-121.536 0/1:15:8,7:8:288:7:252:-18.5135,0,-21.752 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:20:9,11:9:324:11:396:-29.9621,0,-23.4853 0/1:122:57,65:57:2035:65:2291:-169.721,0,-146.696 0/1:70:33,37:33:1179:37:1332:-99.1103,0,-85.3451 0/1:67:24,43:24:856:43:1533:-118.094,0,-57.1921 0/1:49:24,25:24:848:25:885:-65.2161,0,-61.8892 1/1:51:0,50:0:0:50:1788:-160.951,-15.0515,0 0/1:136:67,69:67:2375:69:2449:-179.725,0,-173.065 0/1:102:46,56:46:1656:56:1974:-147.226,0,-118.623 1/1:115:1,114:1:36:114:4038:-360.008,-31.0202,0 1/1:104:1,103:1:36:103:3673:-327.174,-27.7088,0 chr03 22351750 . G A 23466.2 PASS AB=0.709524;ABP=243.237;AC=30;AF=0.714286;AN=42;AO=1122;CIGAR=1X;DP=1361;DPB=1361;DPRA=1.60976;EPP=2439.4;EPPR=508.963;GTI=1;LEN=1;MEANALT=1.15;MQM=59.9822;MQMR=59.9914;NS=21;NUMALT=1;ODDS=5.6302;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40094;QR=8292;RO=233;RPL=0;RPP=2439.4;RPPR=508.963;RPR=1122;RUN=1;SAF=1122;SAP=2439.4;SAR=0;SRF=233;SRP=508.963;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:51:4,47:4:140:47:1673:-137.911,-2.40795,0 1/1:36:2,34:2:72:34:1208:-102.189,-4.00036,0 0/1:93:27,66:27:972:66:2364:-185.023,0,-59.8021 1/1:96:0,96:0:0:96:3436:-309.453,-28.8989,0 1/1:161:0,161:0:0:161:5760:-518.516,-48.4658,0 1/1:55:1,54:1:36:54:1932:-170.558,-12.9584,0 0/1:48:21,27:21:744:27:968:-72.9879,0,-52.8345 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/1:104:27,77:27:957:77:2772:-218.413,0,-55.1367 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 1/1:26:0,26:0:0:26:917:-82.8446,-7.82678,0 0/1:30:8,22:8:273:22:788:-62.2139,0,-15.8693 0/1:68:21,47:21:748:47:1680:-131.017,0,-47.1753 0/1:58:15,43:15:536:43:1518:-119.449,0,-31.1151 0/1:76:18,58:18:648:58:2084:-164.952,0,-35.7736 1/1:40:3,37:3:108:37:1328:-109.747,-1.96603,0 1/1:78:0,74:0:0:74:2660:-239.286,-22.2762,0 0/1:96:33,62:33:1158:62:2228:-171.72,0,-75.5676 0/1:50:10,39:10:360:39:1365:-108.036,0,-17.634 1/1:83:1,82:1:36:82:2932:-260.516,-21.3872,0 1/1:64:0,64:0:0:64:2269:-204.471,-19.2659,0 chr03 22454691 . GGT AGT,AGA 94182.3 PASS AB=0.503153,0.494379;ABP=3.32527,4.01119;AC=27,15;AF=0.642857,0.357143;AN=42;AO=2756,1927;CIGAR=1X2M,1X1M1X;DP=4695;DPB=4695;DPRA=1.828,2.04334;EPP=5987.59,4187.44;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.05,2.42857;MQM=59.8509,56.7001;MQMR=0;NS=21;NUMALT=2;ODDS=8.106;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=96732,67614;QR=0;RO=0;RPL=0,0;RPP=5987.59,4187.44;RPPR=0;RPR=2756,1927;RUN=1,1;SAF=2756,1927;SAP=5987.59,4187.44;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:132:0,63,69:0:0:63,69:2194,2409:-374.516,-196.116,-177.151,-178.749,0,-157.978 1/2:73:0,46,27:0:0:46,27:1581,938:-204.786,-76.4086,-62.5612,-128.722,0,-120.595 1/2:97:0,48,49:0:0:48,49:1676,1714:-275.866,-139.538,-125.089,-136.677,0,-121.927 1/1:43:0,43,0:0:0:43,0:1485,0:-133.941,-12.9443,0,-133.941,-12.9443,-133.941 1/1:108:0,108,0:0:0:108,0:3744,0:-337.163,-32.5112,0,-337.163,-32.5112,-337.163 1/1:43:0,43,0:0:0:43,0:1532,0:-138.17,-12.9443,0,-138.17,-12.9443,-138.17 1/2:89:0,48,41:0:0:48,41:1669,1451:-253.753,-118.061,-103.612,-136.042,0,-123.7 2/2:125:0,0,124:0:0:0,124:0,4347:-390.501,-390.501,-390.501,-37.3277,-37.3277,0 1/2:90:0,31,59:0:0:31,59:1089,2031:-253.91,-165.272,-155.94,-88.9862,0,-71.2255 1/2:777:0,389,386:0:0:389,386:13698,13529:-2214.1,-1099.05,-981.946,-1115.05,0,-998.852 1/1:566:0,564,0:0:0:564,0:19801,0:-1781.29,-169.781,0,-1781.29,-169.781,-1781.29 1/2:859:0,435,422:0:0:435,422:15097,14703:-2420.9,-1193.71,-1062.77,-1227.23,0,-1100.2 1/2:91:0,39,52:0:0:39,52:1372,1833:-261.14,-149.454,-137.713,-112.038,0,-96.3844 1/2:73:0,32,41:0:0:32,41:1105,1450:-207.648,-117.876,-108.243,-90.1207,0,-77.7785 1/2:140:0,69,69:0:0:69,69:2394,2442:-393.466,-198.89,-178.119,-194.578,0,-173.807 1/2:45:0,26,19:0:0:26,19:916,657:-128.314,-53.7323,-45.9055,-74.9297,0,-69.2101 1/1:59:0,59,0:0:0:59,0:2027,0:-182.693,-17.7608,0,-182.693,-17.7608,-182.693 1/2:1126:0,570,553:0:0:570,553:20280,19539:-3241.97,-1589.28,-1417.7,-1652.71,0,-1486.24 1/2:55:0,39,16:0:0:39,16:1388,571:-160.022,-46.8995,-35.1593,-113.479,0,-108.662 1/1:68:0,68,0:0:0:68,0:2404,0:-216.613,-20.47,0,-216.613,-20.47,-216.613 1/1:36:0,36,0:0:0:36,0:1280,0:-115.503,-10.8371,0,-115.503,-10.8371,-115.503 chr03 22457057 . GAAGCGCA AAACCGCG,GAACCGCG 41042.5 PASS AB=0.512949,0.472013;ABP=4.75365,11.1538;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1349,676;CIGAR=1X2M1X3M1X,3M1X3M1X;DP=2053;DPB=2053;DPRA=0.986869,1.64374;EPP=2932.33,1470.93;EPPR=0;GTI=0;LEN=8,8;MEANALT=3.1,3.27778;MQM=59.9451,59.9896;MQMR=0;NS=21;NUMALT=2;ODDS=15.7231;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46724,23739;QR=0;RO=0;RPL=0,0;RPP=2932.33,1470.93;RPPR=0;RPR=1349,676;RUN=1,1;SAF=1349,676;SAP=2932.33,1470.93;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:133:0,64,67:0:0:64,67:2216,2351:-371.496,-191.404,-172.138,-180.163,0,-159.994 1/2:75:0,39,33:0:0:39,33:1355,1158:-204.448,-94.2874,-82.5472,-110.204,0,-100.27 1/2:45:0,25,20:0:0:25,20:884,695:-128.852,-56.8516,-49.3258,-72.3508,0,-66.3302 1/1:126:0,126,0:0:0:126,0:4367,0:-393.218,-37.9298,0,-393.218,-37.9298,-393.218 1/1:244:0,234,6:0:0:234,6:8184,213:-736.272,-70.441,0,-718.917,-53.0481,-717.111 1/1:68:0,64,3:0:0:64,3:2222,108:-199.884,-19.2659,0,-191.071,-10.4462,-190.168 1/2:231:0,112,113:0:0:112,113:3864,3954:-635.62,-321.716,-288,-313.926,0,-279.91 2/2:99:0,0,99:0:0:0,99:0,3480:-313.415,-313.415,-313.415,-29.802,-29.802,0 1/2:90:0,55,35:0:0:55,35:1923,1245:-258.256,-101.818,-85.2618,-156.791,0,-146.255 1/2:13:0,7,6:0:0:7,6:229,210:-35.9193,-17.4357,-15.3285,-18.8229,0,-17.0167 1/1:6:0,6,0:0:0:6,0:215,0:-19.6992,-1.80618,0,-19.6992,-1.80618,-19.6992 1/2:23:0,8,15:0:0:8,15:278,516:-64.8526,-42.2498,-39.8416,-22.949,0,-18.4335 1/2:66:0,34,31:0:0:34,31:1175,1087:-183.911,-88.4482,-78.2132,-95.452,0,-86.1201 1/2:96:0,49,47:0:0:49,47:1699,1659:-273.543,-135.448,-120.697,-138.445,0,-124.296 1/2:217:0,95,119:0:0:95,119:3241,4179:-603.102,-340.131,-311.534,-262.972,0,-227.15 1/2:75:0,46,29:0:0:46,29:1606,1009:-213.023,-82.3901,-68.5427,-130.982,0,-122.252 1/1:126:0,122,2:0:0:122,2:4224,71:-380.017,-36.7257,0,-374.231,-30.9206,-373.629 1/2:67:0,36,29:0:0:36,29:1252,1035:-186.204,-84.4101,-73.573,-101.828,0,-93.0983 1/2:66:0,44,21:0:0:44,21:1541,738:-185.469,-60.0899,-46.8446,-125.399,0,-119.078 1/1:130:0,128,1:0:0:128,1:4380,31:-394.1,-38.5318,0,-391.612,-36.0234,-391.311 1/1:57:0,55,0:0:0:55,0:1869,0:-168.138,-16.5567,0,-168.138,-16.5567,-168.138 chr03 22478688 . G A 54283.7 PASS AB=0.474941;ABP=14.6549;AC=27;AF=0.642857;AN=42;AO=2130;CIGAR=1X;DP=3425;DPB=3425;DPRA=1.10709;EPP=4628.25;EPPR=2815.07;GTI=0;LEN=1;MEANALT=1;MQM=59.9502;MQMR=59.9923;NS=21;NUMALT=1;ODDS=7.53878;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75769;QR=45900;RO=1295;RPL=1137;RPP=24.15;RPPR=70.7552;RPR=993;RUN=1;SAF=1137;SAP=24.15;SAR=993;SRF=748;SRP=70.7552;SRR=547;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:193:111,82:111:3893:82:2927:-205.559,0,-292.466 0/1:140:64,76:64:2288:76:2724:-203.259,0,-164.038 0/1:104:50,54:50:1775:54:1936:-143.209,0,-128.725 1/1:190:0,190:0:0:190:6778:-610.047,-57.1957,0 1/1:327:10,317:10:330:317:11162:-974.459,-68.4195,0 1/1:173:2,171:2:72:171:6080:-540.468,-45.2415,0 0/1:270:162,108:162:5752:108:3853:-265.679,0,-436.518 0/0:148:148,0:148:5239:0:0:0,-44.5524,-471.651 0/1:271:152,119:152:5396:119:4246:-300.736,0,-404.194 0/1:19:15,4:15:531:4:144:-7.59405,0,-42.4023 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:53:29,24:29:1035:24:856:-61.4065,0,-77.5085 0/1:280:132,148:132:4667:148:5269:-390.037,0,-335.904 0/1:211:93,118:93:3308:118:4220:-316.463,0,-234.42 0/1:213:115,98:115:4088:98:3494:-250.553,0,-303.987 0/1:87:68,19:68:2404:19:684:-35.7007,0,-190.42 1/1:153:1,152:1:36:152:5391:-481.717,-42.4593,0 0/1:151:81,70:81:2871:70:2483:-178.264,0,-213.17 0/1:143:49,94:49:1747:94:3342:-257.95,0,-114.466 1/1:212:9,203:9:324:203:7238:-621.97,-34.3125,0 1/1:79:4,75:4:144:75:2658:-226.152,-10.4678,0 chr03 22487070 . C T 31745.4 PASS AB=0.464143;ABP=19.8284;AC=27;AF=0.642857;AN=42;AO=1282;CIGAR=1X;DP=2250;DPB=2250;DPRA=0.690132;EPP=2778.16;EPPR=2100.65;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9602;MQMR=60;NS=21;NUMALT=1;ODDS=1.8207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45311;QR=34178;RO=966;RPL=550;RPP=59.1163;RPPR=45.8193;RPR=732;RUN=1;SAF=549;SAP=60.3561;SAR=733;SRF=414;SRP=45.8193;SRR=552;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:52,27:52:1831:27:948:-61.8505,0,-141.286 0/1:31:12,19:12:432:19:680:-52.1972,0,-29.8893 0/1:121:57,64:57:2031:64:2272:-168.318,0,-146.637 1/1:128:0,128:0:0:128:4522:-407.152,-38.5318,0 1/1:111:2,109:2:72:109:3873:-341.928,-26.5776,0 1/1:62:4,58:4:144:58:2068:-173.077,-5.35024,0 0/1:166:96,70:96:3394:70:2491:-174.464,0,-255.704 0/0:152:152,0:152:5375:0:0:0,-45.7566,-483.886 0/1:226:121,105:121:4323:105:3705:-265.622,0,-321.213 0/1:35:20,15:20:705:15:517:-36.3196,0,-53.2367 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:37:19,18:19:672:18:617:-44.7118,0,-49.6687 0/1:183:101,82:101:3568:82:2901:-206.237,0,-266.241 0/1:160:100,60:100:3527:60:2101:-140.963,0,-269.476 0/1:122:69,52:69:2441:52:1848:-129.816,0,-183.16 0/1:34:18,16:18:640:16:568:-41.2168,0,-47.6943 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:188:105,83:105:3687:83:2958:-209.86,0,-275.442 0/1:124:36,88:36:1264:88:3050:-237.4,0,-76.7321 1/1:164:1,162:1:36:162:5720:-511.326,-45.8294,0 1/1:111:1,110:1:36:110:3896:-347.239,-29.8161,0 chr03 22505363 . AG GG,GT 72300.5 PASS AB=0.650442,0.348925;ABP=314.011,316.63;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2111,655;CIGAR=1X1M,2X;DP=2769;DPB=2771.5;DPRA=1.48833,2.48563;EPP=4578.31,1425.32;EPPR=0;GTI=0;LEN=1,2;MEANALT=2,2.11111;MQM=59.9702,59.7985;MQMR=0;NS=21;NUMALT=2;ODDS=0.764901;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=90,90;PQR=0;PRO=0;QA=74467,23066;QR=0;RO=0;RPL=1021,97;RPP=7.90769,707.565;RPPR=0;RPR=1090,558;RUN=1,1;SAF=1020,97;SAP=8.19571,707.565;SAR=1091,558;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:52:0,34,18:0:0:34,18:1204,644:-150.944,-52.8699,-42.6349,-98.4308,0,-93.0123 1/2:116:0,82,34:0:0:82,34:2909,1182:-333.365,-96.3535,-71.6691,-237.361,0,-227.126 1/2:133:0,99,34:0:0:99,34:3516,1199:-384.475,-97.9772,-68.1752,-286.851,0,-276.616 1/1:210:0,209,1:0:0:209,1:7402,36:-665.817,-62.9153,0,-662.879,-59.618,-662.578 1/1:324:0,317,7:0:0:317,7:11122,201:-1000.6,-95.4265,0,-984.62,-79.1617,-982.513 1/1:82:0,79,3:0:0:79,3:2828,108:-254.399,-23.7814,0,-245.588,-14.6102,-244.685 1/2:138:0,92,46:0:0:92,46:3273,1647:-401.348,-134.611,-106.916,-267.036,0,-253.188 2/2:90:0,0,90:0:0:0,90:0,3175:-285.974,-285.974,-285.974,-27.0927,-27.0927,0 1/2:216:0,114,102:0:0:114,102:4045,3604:-623.402,-293.835,-259.517,-329.921,0,-299.216 1/2:22:0,14,8:0:0:14,8:504,273:-63.6286,-22.4928,-18.2784,-41.4837,0,-39.0754 1/1:8:0,8,0:0:0:8,0:284,0:-25.8507,-2.40824,0,-25.8507,-2.40824,-25.8507 1/1:62:0,62,0:0:0:62,0:2208,0:-198.984,-18.6639,0,-198.984,-18.6639,-198.984 1/2:116:0,85,31:0:0:85,31:2976,1101:-332.193,-90.0652,-64.4776,-242.482,0,-233.15 1/2:170:0,104,66:0:0:104,66:3616,2330:-484.071,-190.083,-158.776,-294.339,0,-274.471 1/2:184:0,134,50:0:0:134,50:4761,1767:-532.212,-144.258,-103.92,-388.308,0,-373.256 1/2:129:0,65,64:0:0:65,64:2309,2279:-374.252,-186.106,-166.539,-188.502,0,-169.237 1/1:104:0,104,0:0:0:104,0:3671,0:-330.535,-31.3071,0,-330.535,-31.3071,-330.535 1/2:173:0,97,75:0:0:97,75:3421,2618:-491.359,-212.806,-183.606,-278.426,0,-255.848 1/2:133:0,109,24:0:0:109,24:3793,830:-376.199,-67.789,-34.9767,-308.756,0,-301.531 1/1:198:0,196,1:0:0:196,1:6886,36:-619.455,-59.0019,0,-616.518,-56.0645,-616.217 1/1:109:0,107,1:0:0:107,1:3739,36:-336.35,-32.2102,0,-333.412,-29.2728,-333.111 chr03 22629132 . A G 28511.5 PASS AB=0.727723;ABP=730.905;AC=21;AF=0.5;AN=42;AO=1176;CIGAR=1X;DP=1616;DPB=1616;DPRA=0;EPP=3.0103;EPPR=3.13396;GTI=4;LEN=1;MEANALT=1.04762;MQM=59.9949;MQMR=59.9863;NS=21;NUMALT=1;ODDS=2.46488;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41801;QR=15722;RO=439;RPL=1176;RPP=2556.66;RPPR=956.287;RPR=0;RUN=1;SAF=588;SAP=3.0103;SAR=588;SRF=222;SRP=3.13396;SRR=217;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:8,47:8:288:47:1672:-134.211,0,-9.71076 0/1:44:11,33:11:396:33:1178:-93.0823,0,-22.7374 0/1:28:6,22:6:216:22:783:-62.3641,0,-11.3617 0/1:56:18,38:18:636:38:1336:-103.681,0,-40.7104 0/1:117:45,71:45:1620:71:2536:-193.212,0,-110.811 0/1:66:23,43:23:805:43:1540:-119.025,0,-52.8995 0/1:123:36,87:36:1296:87:3111:-243.19,0,-79.9172 0/1:81:12,69:12:432:69:2444:-195.83,0,-14.8378 0/1:97:23,74:23:824:74:2630:-207.747,0,-45.2834 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:13:3,10:3:108:10:356:-28.4679,0,-6.16178 0/1:118:39,79:39:1400:79:2787:-215.547,0,-90.7776 0/1:67:29,38:29:1036:38:1356:-102.171,0,-73.3849 0/1:69:21,48:21:756:48:1702:-132.695,0,-47.5962 0/1:36:9,27:9:324:27:964:-76.2397,0,-18.6688 0/1:25:7,18:7:252:18:640:-50.4036,0,-15.5032 0/1:158:34,124:34:1224:124:4421:-350.5,0,-62.9043 0/1:169:31,138:31:1116:138:4901:-390.368,0,-49.873 0/1:90:20,70:20:708:70:2477:-196.091,0,-36.9529 0/1:191:61,130:61:2177:130:4607:-357.3,0,-138.698 chr03 22629133 . T G 7186.62 PASS AB=0.273296;ABP=716.819;AC=20;AF=0.47619;AN=42;AO=437;CIGAR=1X;DP=1605;DPB=1605;DPRA=13.325;EPP=3.01527;EPPR=3.42968;GTI=4;LEN=1;MEANALT=1.1;MQM=59.9863;MQMR=59.9948;NS=21;NUMALT=1;ODDS=2.86906;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15512;QR=41263;RO=1165;RPL=437;RPP=951.944;RPPR=2532.78;RPR=0;RUN=1;SAF=219;SAP=3.01527;SAR=218;SRF=575;SRP=3.42968;SRR=590;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:48,8:48:1688:8:280:-8.68162,0,-135.349 0/1:44:33,11:33:1141:11:377:-21.0126,0,-89.7453 0/1:26:21,5:21:752:5:180:-8.72528,0,-60.1795 0/1:54:36,18:36:1273:18:640:-41.6737,0,-98.6153 0/1:119:76,43:76:2669:43:1540:-103.071,0,-204.631 0/1:61:41,20:41:1459:20:720:-46.7659,0,-113.242 0/1:121:85,36:85:3029:36:1278:-78.8983,0,-236.415 0/1:81:68,13:68:2426:13:459:-17.2607,0,-194.211 0/1:95:72,23:72:2533:23:813:-44.8913,0,-199.621 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/1:13:10,3:10:360:3:104:-5.78942,0,-28.8309 0/1:118:77,40:77:2727:40:1402:-91.0002,0,-210.202 0/1:72:41,31:41:1464:31:1100:-77.6361,0,-110.382 0/1:72:51,21:51:1809:21:752:-46.3321,0,-141.416 0/1:34:25,9:25:879:9:324:-19.2708,0,-69.1918 0/1:23:16,7:16:552:7:248:-15.7405,0,-43.0792 0/1:159:123,36:123:4361:36:1275:-67.1885,0,-344.803 0/1:165:135,30:135:4828:30:1056:-45.6793,0,-385.001 0/1:90:67,21:67:2370:21:744:-40.4845,0,-186.761 0/1:191:131,60:131:4623:60:2148:-136.091,0,-358.738 chr03 22644837 . A G 17856.4 PASS AB=0.725469;ABP=403.502;AC=15;AF=0.357143;AN=42;AO=934;CIGAR=1X;DP=1379;DPB=1379;DPRA=4.64552;EPP=2031.17;EPPR=969.316;GTI=7;LEN=1;MEANALT=1;MQM=59.9936;MQMR=60;NS=21;NUMALT=1;ODDS=3.81871;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33315;QR=15843;RO=445;RPL=0;RPP=2031.17;RPPR=969.316;RPR=934;RUN=1;SAF=934;SAP=2031.17;SAR=0;SRF=445;SRP=969.316;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:13,35:13:460:35:1256:-98.8958,0,-27.2859 0/1:22:9,13:9:309:13:468:-35.837,0,-21.5181 0/1:38:16,22:16:572:22:792:-60.1665,0,-40.3743 0/0:22:22,0:22:772:0:0:0,-6.62266,-69.8013 0/0:61:60,1:60:2125:1:36:0,-14.7646,-187.919 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:43:18,25:18:633:25:879:-66.4826,0,-44.3508 1/1:104:0,104:0:0:104:3691:-332.394,-31.3071,0 0/1:81:30,51:30:1076:51:1813:-139.066,0,-72.7694 1/1:173:2,171:2:68:171:6133:-545.61,-45.6205,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:50:14,36:14:496:36:1279:-100.361,0,-29.9228 0/1:27:15,12:15:532:12:432:-31.0934,0,-40.0853 0/1:73:28,45:28:1008:45:1603:-122.585,0,-69.0612 0/1:21:6,15:6:208:15:536:-42.2532,0,-12.7375 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/1:456:66,390:66:2368:390:13900:-1113.51,0,-76.1083 0/1:48:34,14:34:1208:14:497:-30.6149,0,-94.5766 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 chr03 22670027 . GACT AACC,GACC 71861.4 PASS AB=0.524611,0.471028;ABP=11.454,14.7119;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1852,862;CIGAR=1X2M1X,3M1X;DP=2723;DPB=2723;DPRA=1.38316,2.1554;EPP=273.155,86.4533;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.2,2.41176;MQM=59.5281,59.9188;MQMR=0;NS=21;NUMALT=2;ODDS=15.4611;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65027,30783;QR=0;RO=0;RPL=1166,522;RPP=273.155,86.4533;RPPR=0;RPR=686,340;RUN=1,1;SAF=0,0;SAP=4024.58,1874.82;SAR=1852,862;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:202:0,97,103:0:0:97,103:3390,3662:-574.265,-298.525,-269.325,-275.84,0,-244.833 1/2:128:0,59,69:0:0:59,69:2089,2480:-372.452,-202.682,-184.921,-170.126,0,-149.355 1/2:85:0,40,45:0:0:40,45:1411,1605:-246.076,-131.192,-119.151,-115.239,0,-101.693 1/1:213:0,211,1:0:0:211,1:7423,36:-667.616,-63.5173,0,-664.679,-60.5749,-664.378 1/1:205:0,204,1:0:0:204,1:7112,36:-639.741,-61.4101,0,-636.804,-58.1129,-636.503 1/1:208:0,204,3:0:0:204,3:7193,108:-646.661,-61.4101,0,-637.849,-52.597,-636.946 1/2:148:0,72,75:0:0:72,75:2505,2668:-420.992,-217.427,-195.753,-203.557,0,-180.98 2/2:95:0,0,95:0:0:0,95:0,3404:-306.574,-306.574,-306.574,-28.5979,-28.5979,0 1/2:151:0,84,67:0:0:84,67:2965,2404:-437.885,-196.447,-171.161,-241.793,0,-221.624 1/2:9:0,2,7:0:0:2,7:71,252:-26.7058,-20.9217,-20.3197,-6.14,0,-4.03279 1/1:15:0,15,0:0:0:15,0:528,0:-47.8503,-4.51545,0,-47.8503,-4.51545,-47.8503 1/1:39:0,39,0:0:0:39,0:1352,0:-121.967,-11.7402,0,-121.967,-11.7402,-121.967 1/2:189:0,94,95:0:0:94,95:3321,3400:-548.074,-277.617,-249.32,-270.813,0,-242.215 1/2:134:0,68,66:0:0:68,66:2372,2341:-383.987,-191.081,-170.611,-193.257,0,-173.389 1/2:239:0,142,95:0:0:142,95:5001,3389:-682.973,-276.29,-233.544,-406.741,0,-378.143 1/2:89:0,49,40:0:0:49,40:1733,1427:-257.706,-116.616,-101.865,-141.445,0,-129.404 1/1:135:0,135,0:0:0:135,0:4784,0:-430.701,-40.6391,0,-430.701,-40.6391,-430.701 1/2:86:0,41,44:0:0:41,44:1434,1567:-244.428,-127.775,-115.432,-116.704,0,-103.459 1/2:145:0,94,50:0:0:94,50:3295,1788:-413.871,-145.769,-117.472,-268.156,0,-253.104 1/1:129:0,123,6:0:0:123,6:4334,216:-389.785,-37.0267,0,-372.16,-19.0424,-370.354 1/1:79:0,79,0:0:0:79,0:2714,0:-244.464,-23.7814,0,-244.464,-23.7814,-244.464 chr03 22708840 . T C 21557.2 PASS AB=0.530319;ABP=18.0212;AC=14;AF=0.333333;AN=42;AO=1195;CIGAR=1X;DP=2909;DPB=2909;DPRA=5.67229;EPP=2571.93;EPPR=3685.91;GTI=1;LEN=1;MEANALT=1.10526;MQM=59.9414;MQMR=59.9492;NS=21;NUMALT=1;ODDS=5.05831;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42734;QR=61276;RO=1712;RPL=3;RPP=2571.93;RPPR=3685.91;RPR=1192;RUN=1;SAF=1195;SAP=2597.92;SAR=0;SRF=1712;SRP=3720.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:183:86,97:86:3092:97:3482:-258.502,0,-223.418 0/1:156:69,87:69:2446:87:3128:-234.785,0,-173.431 0/1:175:81,94:81:2897:94:3335:-247.686,0,-208.284 0/0:182:181,1:181:6500:1:36:0,-51.1892,-581.483 0/0:214:212,1:212:7578:1:36:0,-60.806,-678.362 0/0:74:71,3:71:2541:3:108:0,-12.201,-218.864 0/1:274:120,154:120:4300:154:5502:-412.818,0,-304.649 1/1:185:0,185:0:0:185:6595:-593.543,-55.6906,0 0/1:206:109,96:109:3916:96:3444:-248.12,0,-290.709 0/1:20:6,14:6:216:14:500:-39.3156,0,-13.7699 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:48:47,1:47:1684:1:36:0,-10.8512,-148.249 0/1:121:69,52:69:2484:52:1853:-130.623,0,-187.388 0/1:132:53,79:53:1904:79:2808:-213.223,0,-131.902 0/1:299:137,162:137:4890:162:5815:-433.453,0,-350.242 0/1:101:44,57:44:1565:57:2044:-153.828,0,-110.736 0/0:120:117,3:117:4150:3:104:0,-26.4208,-363.783 0/1:119:53,66:53:1900:66:2360:-176.836,0,-135.455 0/1:94:55,39:55:1976:39:1404:-98.3625,0,-149.818 0/0:153:149,4:149:5329:4:144:0,-32.744,-466.411 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 chr03 22731641 . G A 10250.5 PASS AB=0.464413;ABP=15.3746;AC=13;AF=0.309524;AN=42;AO=599;CIGAR=1X;DP=1890;DPB=1890;DPRA=1.48113;EPP=1303.72;EPPR=2804.21;GTI=0;LEN=1;MEANALT=1;MQM=59.9683;MQMR=59.9915;NS=21;NUMALT=1;ODDS=8.3061;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21431;QR=46051;RO=1290;RPL=0;RPP=1303.72;RPPR=2804.21;RPR=599;RUN=1;SAF=599;SAP=1303.72;SAR=0;SRF=1290;SRP=2804.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:65,66:65:2294:66:2360:-173.201,0,-167.284 0/1:55:32,23:32:1152:23:820:-57.5653,0,-87.4335 0/1:77:40,37:40:1436:37:1316:-95.5625,0,-106.358 0/0:107:106,0:106:3789:0:0:0,-31.9092,-340.847 0/0:191:191,0:191:6779:0:0:0,-57.4967,-610.184 0/0:108:107,1:107:3821:1:36:0,-28.913,-340.488 0/1:174:101,73:101:3616:73:2624:-184.028,0,-273.266 1/1:75:0,75:0:0:75:2692:-242.524,-22.5773,0 0/1:165:79,86:79:2805:86:3077:-227.487,0,-203.019 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:108:55,53:55:1960:53:1881:-137.056,0,-144.164 0/1:92:46,46:46:1652:46:1648:-120.914,0,-121.274 0/1:101:52,49:52:1872:49:1756:-127.914,0,-138.355 0/1:106:69,37:69:2469:37:1313:-86.5605,0,-190.553 0/0:104:104,0:104:3716:0:0:0,-31.3071,-334.642 0/1:54:26,28:26:913:28:1008:-74.7807,0,-66.2284 0/1:61:37,24:37:1324:24:864:-59.7197,0,-101.093 0/0:106:105,1:105:3757:1:36:0,-28.3109,-334.73 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 chr03 22731843 . A G 8486.52 PASS AB=0.48125;ABP=5.94179;AC=14;AF=0.333333;AN=42;AO=504;CIGAR=1X;DP=1602;DPB=1602;DPRA=1.18987;EPP=1097.43;EPPR=2367.78;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9881;MQMR=59.9991;NS=21;NUMALT=1;ODDS=4.44019;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17958;QR=39260;RO=1097;RPL=504;RPP=1097.43;RPPR=2367.78;RPR=0;RUN=1;SAF=504;SAP=1097.43;SAR=0;SRF=1097;SRP=2385.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:25,39:25:881:39:1396:-106.673,0,-60.3399 0/1:94:39,54:39:1400:54:1940:-146.521,0,-97.9436 0/1:47:28,19:28:993:19:684:-47.7419,0,-75.5341 0/0:155:155,0:155:5572:0:0:0,-46.6596,-501.601 0/0:127:126,1:126:4512:1:36:0,-34.6325,-402.649 0/0:97:97,0:97:3469:0:0:0,-29.1999,-312.42 0/1:125:76,49:76:2732:49:1760:-121.055,0,-208.493 1/1:41:0,41:0:0:41:1464:-132.056,-12.3422,0 0/1:164:84,80:84:3005:80:2858:-208.089,0,-221.311 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/1:92:47,45:47:1673:45:1602:-116.773,0,-123.16 0/1:74:36,38:36:1292:38:1313:-96.1883,0,-94.3075 0/1:67:41,26:41:1468:26:932:-64.0299,0,-112.247 0/1:99:49,50:49:1730:50:1749:-127.886,0,-126.179 0/0:101:101,0:101:3609:0:0:0,-30.404,-325.015 0/1:61:32,29:32:1148:29:1044:-75.912,0,-85.267 0/1:69:38,31:38:1364:31:1108:-79.2599,0,-102.29 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.998 chr03 22762370 . A G 12031.9 PASS AB=0.397806;ABP=160.124;AC=14;AF=0.333333;AN=42;AO=782;CIGAR=1X;DP=3905;DPB=3905;DPRA=0.515869;EPP=1649.39;EPPR=6603.34;GTI=0;LEN=1;MEANALT=1;MQM=53.7148;MQMR=59.5796;NS=21;NUMALT=1;ODDS=3.60084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27879;QR=111148;RO=3123;RPL=6;RPP=1649.39;RPPR=6603.34;RPR=776;RUN=1;SAF=782;SAP=1701.1;SAR=0;SRF=3123;SRP=6784.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:70,34:70:2512:34:1220:-78.5068,0,-195.02 0/1:29:7,22:7:248:22:788:-62.0514,0,-13.9178 0/1:58:39,19:39:1388:19:680:-44.0262,0,-107.666 0/0:79:79,0:79:2813:0:0:0,-23.7814,-253.307 0/0:160:158,2:158:5668:2:72:0,-41.333,-503.396 0/0:77:77,0:77:2734:0:0:0,-23.1793,-246.273 0/1:74:51,23:51:1808:23:828:-52.2501,0,-140.722 1/1:91:0,91:0:0:91:3226:-289.267,-27.3937,0 0/1:86:61,25:61:2188:25:900:-55.4083,0,-171.293 0/1:249:154,95:154:5496:95:3348:-225.799,0,-419.733 0/0:522:522,0:522:18594:0:0:0,-157.138,-1670.95 0/0:1027:1027,0:1027:36312:0:0:0,-309.158,-3266.03 0/1:66:38,28:38:1360:28:995:-69.9235,0,-102.744 0/1:71:52,19:52:1837:19:684:-40.3884,0,-144.232 0/1:65:44,21:44:1576:21:747:-47.9172,0,-122.56 0/1:59:31,28:31:1108:28:1000:-72.4716,0,-82.2702 0/0:103:103,0:103:3673:0:0:0,-31.0061,-330.769 0/1:782:428,354:428:15333:354:12643:-898.598,0,-1143.91 0/1:89:68,21:68:2420:21:748:-40.7207,0,-191.258 0/0:54:54,0:54:1928:0:0:0,-16.2556,-173.754 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.939 chr03 22765959 . A G 17387.9 PASS AB=0.485748;ABP=4.49577;AC=28;AF=0.666667;AN=42;AO=871;CIGAR=1X;DP=1412;DPB=1412;DPRA=0.642157;EPP=1851.18;EPPR=1151.86;GTI=0;LEN=1;MEANALT=1;MQM=59.9966;MQMR=60;NS=21;NUMALT=1;ODDS=4.86769;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30991;QR=19324;RO=541;RPL=4;RPP=1859.78;RPPR=1151.86;RPR=867;RUN=1;SAF=870;SAP=1885.69;SAR=1;SRF=541;SRP=1177.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:23,31:23:824:31:1071:-80.4361,0,-58.2277 0/1:28:13,15:13:468:15:540:-40.5077,0,-34.0308 0/1:60:29,31:29:1040:31:1101:-81.3366,0,-75.8526 1/1:65:0,65:0:0:65:2322:-209.24,-19.567,0 1/1:130:3,127:3:108:127:4518:-396.712,-29.0587,0 1/1:54:0,54:0:0:54:1917:-172.805,-16.2556,0 0/1:56:30,26:30:1076:26:921:-66.3475,0,-80.2952 0/0:102:102,0:102:3657:0:0:0,-30.7051,-329.331 0/1:143:87,56:87:3068:56:1974:-134.884,0,-233.297 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 0/1:104:50,54:50:1785:54:1929:-142.578,0,-129.624 0/1:93:49,44:49:1745:44:1561:-112.784,0,-129.337 0/1:149:92,57:92:3285:57:2048:-139.738,0,-251.015 0/1:37:12,25:12:432:25:881:-68.4668,0,-28.0831 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 0/1:42:24,18:24:864:18:648:-46.0086,0,-65.4393 0/1:69:20,49:20:720:49:1749:-136.921,0,-44.3577 1/1:90:3,87:3:108:87:3079:-267.26,-17.0175,0 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 chr03 22766020 . 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G A 13433.9 PASS AB=0.572779;ABP=27.348;AC=29;AF=0.690476;AN=42;AO=661;CIGAR=1X;DP=939;DPB=939;DPRA=0.908163;EPP=1438.35;EPPR=602.337;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9546;MQMR=59.9928;NS=21;NUMALT=1;ODDS=6.29241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23576;QR=9859;RO=276;RPL=661;RPP=1438.35;RPPR=602.337;RPR=0;RUN=1;SAF=0;SAP=1438.35;SAR=661;SRF=0;SRP=602.337;SRR=276;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:34,24:34:1216:24:860:-60.2621,0,-92.2859 0/1:40:25,15:25:891:15:532:-36.1719,0,-68.4676 0/1:47:20,27:20:716:27:972:-73.6495,0,-50.6193 1/1:35:0,35:0:0:35:1233:-111.272,-10.5361,0 1/1:72:0,72:0:0:72:2570:-231.512,-21.6742,0 1/1:39:0,39:0:0:39:1385:-124.947,-11.7402,0 0/1:37:21,16:21:756:16:576:-41.0369,0,-57.2291 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/1:63:22,41:22:779:41:1472:-113.811,0,-51.4672 0/1:10:4,6:4:144:6:208:-16.0488,0,-10.3033 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:31:0,31:0:0:31:1101:-99.3938,-9.33193,0 0/1:79:22,57:22:788:57:2033:-159.459,0,-47.4634 0/1:37:17,20:17:593:20:708:-52.9075,0,-42.5566 0/1:51:30,20:30:1068:20:712:-49.0717,0,-81.0983 1/1:24:2,22:2:72:22:792:-64.7689,-0.387998,0 1/1:37:0,37:0:0:37:1298:-117.117,-11.1381,0 0/1:58:22,36:22:788:36:1292:-99.124,0,-53.7851 0/1:49:8,41:8:288:41:1464:-117.306,0,-11.5169 1/1:67:0,67:0:0:67:2389:-215.266,-20.169,0 1/1:50:0,49:0:0:49:1763:-158.741,-14.7505,0 chr03 22803953 . G A 4603.23 PASS AB=0.508696;ABP=3.31242;AC=14;AF=0.333333;AN=42;AO=267;CIGAR=1X;DP=761;DPB=761;DPRA=1.13203;EPP=582.793;EPPR=1075.72;GTI=0;LEN=1;MEANALT=1;MQM=59.9288;MQMR=59.9919;NS=21;NUMALT=1;ODDS=6.50598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9557;QR=17670;RO=494;RPL=267;RPP=582.793;RPPR=1075.72;RPR=0;RUN=1;SAF=0;SAP=582.793;SAR=267;SRF=0;SRP=1075.72;SRR=494;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:12,15:12:432:15:536:-40.447,0,-31.091 0/1:41:15,26:15:532:26:936:-72.2172,0,-35.8709 0/1:15:5,10:5:180:10:356:-27.8658,0,-12.0366 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.449 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5997 0/1:46:20,26:20:711:26:928:-69.9624,0,-50.4683 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/1:56:25,31:25:896:31:1112:-83.5291,0,-64.1027 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/1:32:18,14:18:644:14:496:-35.3407,0,-48.6576 0/1:28:14,14:14:496:14:504:-37.2693,0,-36.5454 0/1:37:17,20:17:608:20:716:-53.6296,0,-43.9139 0/1:28:20,8:20:708:8:288:-17.8386,0,-55.6168 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:105:51,54:51:1836:54:1925:-141.917,0,-133.912 0/1:39:25,14:25:887:14:504:-33.9579,0,-68.4079 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 chr03 22809199 . C A 3948.68 PASS AB=0.454315;ABP=17.2957;AC=14;AF=0.333333;AN=42;AO=422;CIGAR=1X;DP=1239;DPB=1239;DPRA=2.51369;EPP=128.235;EPPR=40.6483;GTI=0;LEN=1;MEANALT=1;MQM=22.0071;MQMR=35.1322;NS=21;NUMALT=1;ODDS=1.6376;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14942;QR=29222;RO=817;RPL=133;RPP=128.235;RPPR=40.6483;RPR=289;RUN=1;SAF=422;SAP=919.372;SAR=0;SRF=817;SRP=1777.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:32,41:32:1148:41:1428:-58.5241,0,-68.6647 0/1:63:29,34:29:1040:34:1220:-40.9156,0,-70.0035 0/1:59:47,12:47:1692:12:417:-6.50404,0,-111.97 0/0:61:61,0:61:2175:0:0:0,-18.3628,-170.508 0/0:126:121,5:121:4325:5:176:0,-26.624,-323.161 0/0:48:47,1:47:1680:1:32:0,-12.0282,-139.056 0/1:87:48,39:48:1716:39:1392:-42.5238,0,-120.715 1/1:55:0,55:0:0:55:1945:-108.267,-16.5567,0 0/1:122:58,64:58:2064:64:2288:-98.875,0,-129.709 0/1:16:10,6:10:360:6:216:-7.08813,0,-23.8789 0/0:6:6,0:6:212:0:0:0,-1.80618,-18.5027 0/0:15:15,0:15:536:0:0:0,-4.51545,-42.2265 0/1:66:30,36:30:1063:36:1276:-52.4175,0,-66.0032 0/1:50:32,18:32:1140:18:632:-21.1099,0,-75.3427 0/1:103:49,54:49:1747:54:1896:-75.8021,0,-102.157 0/1:42:21,21:21:756:21:748:-31.8698,0,-47.6122 0/0:37:37,0:37:1324:0:0:0,-11.1381,-103.215 0/1:69:46,23:46:1652:23:816:-21.8759,0,-105.536 0/1:38:28,10:28:1000:10:352:-7.67619,0,-65.7185 0/0:85:82,3:82:2944:3:108:0,-19.7451,-227.834 0/0:18:18,0:18:648:0:0:0,-5.41854,-53.3226 chr03 22868964 . C T 62250.9 PASS AB=0.457274;ABP=92.8197;AC=14;AF=0.333333;AN=42;AO=2850;CIGAR=1X;DP=10946;DPB=10946;DPRA=2.79703;EPP=6191.71;EPPR=17576.7;GTI=0;LEN=1;MEANALT=1.10526;MQM=54.2435;MQMR=56.1991;NS=21;NUMALT=1;ODDS=76.7247;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=101416;QR=288915;RO=8093;RPL=1891;RPP=664.832;RPPR=3846.95;RPR=959;RUN=1;SAF=1891;SAP=664.832;SAR=959;SRF=5939;SRP=3846.95;SRR=2154;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:458:229,227:229:8173:227:8119:-591.434,0,-592.296 0/1:333:183,150:183:6542:150:5315:-377.285,0,-483.21 0/1:300:172,128:172:6180:128:4556:-318,0,-463.525 0/0:461:460,1:460:16476:1:36:0,-135.32,-1474.35 0/0:718:703,15:703:25097:15:540:0,-167.252,-2197.81 0/0:344:337,7:337:12078:7:244:0,-81.3231,-1055.25 0/1:433:256,177:256:9142:177:6314:-435.734,0,-684.912 1/1:230:0,230:0:0:230:8158:-731.884,-69.2369,0 0/1:510:276,234:276:9886:234:8285:-590.172,0,-733.009 0/1:808:453,355:453:16125:355:12667:-891.567,0,-1206.68 0/0:1250:1248,2:1248:44574:2:68:0,-369.839,-4001.31 0/0:1516:1514,1:1514:53973:1:36:0,-452.83,-4847.97 0/1:301:178,123:178:6344:123:4377:-302.634,0,-477.711 0/1:331:187,144:187:6682:144:5055:-354.277,0,-497.832 0/1:552:280,272:280:9984:272:9726:-707.627,0,-726.329 0/1:233:137,96:137:4878:96:3444:-239.207,0,-367.429 0/0:260:260,0:260:9280:0:0:0,-78.2678,-833.496 0/1:1240:602,638:602:21464:638:22723:-1663.15,0,-1555.5 0/1:165:119,46:119:4251:46:1609:-95.2591,0,-331.071 0/0:366:362,4:362:12914:4:144:0,-97.3388,-1140.81 0/0:137:137,0:137:4872:0:0:0,-41.2411,-434.256 chr03 22869014 . TCTGC TC 39189.8 PASS AB=0.48538;ABP=7.13737;AC=28;AF=0.666667;AN=42;AO=2095;CIGAR=1M3D1M;DP=3391;DPB=2132.8;DPRA=1.17862;EPP=4552.24;EPPR=2802.04;GTI=0;LEN=3;MEANALT=1.3;MQM=46.8745;MQMR=59.8379;NS=21;NUMALT=1;ODDS=5.31087;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73480;QR=45728;RO=1289;RPL=2095;RPP=4552.24;RPPR=2802.04;RPR=0;RUN=1;SAF=0;SAP=4552.24;SAR=2095;SRF=0;SRP=2802.04;SRR=1289;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:251:134,115:134:4746:115:4028:-282.698,0,-352.06 0/1:182:93,89:93:3310:89:3104:-219.84,0,-243.297 0/1:155:69,85:69:2444:85:2937:-215.877,0,-173.496 1/1:158:0,158:0:0:158:5565:-496.843,-47.5627,0 1/1:314:10,304:10:353:304:10628:-915.88,-62.4146,0 1/1:159:0,158:0:0:158:5527:-488.799,-47.5627,0 0/1:285:158,126:158:5599:126:4476:-310.314,0,-418.326 0/0:138:137,0:137:4853:0:0:0,-41.2411,-436.55 0/1:327:167,160:167:5938:160:5546:-397.388,0,-436.068 0/1:23:10,13:10:360:13:434:-31.9856,0,-25.8206 1/1:20:0,20:0:0:20:693:-61.7732,-6.0206,0 1/1:38:0,38:0:0:38:1348:-119.982,-11.4391,0 0/1:156:69,87:69:2465:87:3039:-224.991,0,-175.142 0/1:182:99,83:99:3492:83:2984:-210.58,0,-259.683 0/1:404:224,179:224:7935:179:6298:-439.311,0,-592.483 0/1:93:38,55:38:1361:55:1953:-146.731,0,-94.7767 1/1:102:0,102:0:0:102:3580:-320.864,-30.7051,0 0/1:85:53,32:53:1870:32:1121:-73.8901,0,-142.972 0/1:80:25,55:25:896:55:1923:-147.493,0,-56.8783 1/1:186:3,183:3:106:183:6418:-560.067,-46.1025,0 1/1:53:0,53:0:0:53:1878:-165.024,-15.9546,0 chr03 22876318 . CTCC GTCG,CTCG 44066.4 PASS AB=0.420213,0.575228;ABP=75.7777,67.6991;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1253,886;CIGAR=1X2M1X,3M1X;DP=2149;DPB=2149.25;DPRA=0.8096,1.52237;EPP=2723.87,1926.93;EPPR=0;GTI=2;LEN=4,1;MEANALT=2.15,2.375;MQM=59.996,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.15022;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=43730,31540;QR=0;RO=0;RPL=0,0;RPP=2723.87,1926.93;RPPR=0;RPR=1253,886;RUN=1,1;SAF=0,0;SAP=2723.87,1926.93;SAR=1253,886;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:142:0,56,84:0:0:56,84:1901,3002:-398.933,-244.774,-227.916,-154.156,0,-128.869 1/2:94:0,34,60:0:0:34,60:1182,2152:-271.982,-175.885,-165.65,-96.4477,0,-78.3859 1/2:143:0,60,82:0:0:60,82:2116,2908:-409.204,-236.911,-218.85,-172.286,0,-147.601 1/1:143:0,143,0:0:0:143,0:5047,0:-454.322,-43.0473,0,-454.322,-43.0473,-454.322 1/1:232:0,231,1:0:0:231,1:8086,36:-727.414,-69.5379,0,-724.476,-66.2407,-724.175 1/1:119:0,118,0:0:0:118,0:4118,0:-370.45,-35.5215,0,-370.45,-35.5215,-370.45 1/2:197:0,91,106:0:0:91,106:3128,3776:-562.137,-308.13,-280.736,-254.356,0,-222.447 2/2:125:0,0,124:0:0:0,124:0,4428:-398.331,-398.331,-398.331,-37.3277,-37.3277,0 1/2:235:0,92,142:0:0:92,142:3233,5054:-675.135,-411.99,-384.295,-263.227,0,-220.481 1/2:8:0,2,6:0:0:2,6:66,216:-23.3128,-17.9843,-17.3823,-5.66589,0,-3.85971 1/1:7:0,7,0:0:0:7,0:241,0:-22.0257,-2.10721,0,-22.0257,-2.10721,-22.0257 1/1:19:0,18,0:0:0:18,0:613,0:-55.1301,-5.41854,0,-55.1301,-5.41854,-55.1301 1/2:68:0,33,35:0:0:33,35:1162,1247:-196.596,-101.998,-92.064,-94.9524,0,-84.4164 1/2:103:0,48,55:0:0:48,55:1668,1932:-293.204,-157.598,-143.148,-135.956,0,-119.399 1/2:166:0,68,98:0:0:68,98:2391,3495:-479.884,-285.26,-264.79,-194.977,0,-165.476 1/2:93:0,39,54:0:0:39,54:1372,1924:-268.866,-157.181,-145.441,-112.038,0,-95.7828 1/1:78:0,78,0:0:0:78,0:2708,0:-243.966,-23.4803,0,-243.966,-23.4803,-243.966 1/2:28:0,8,18:0:0:8,18:274,644:-74.7831,-52.5439,-50.1357,-22.2566,0,-16.838 1/2:39:0,22,17:0:0:22,17:764,582:-109.695,-47.5822,-40.9595,-62.4571,0,-57.3396 1/1:71:0,68,2:0:0:68,2:2351,72:-211.495,-20.47,0,-205.62,-14.5819,-205.018 1/1:39:0,37,2:0:0:37,2:1309,72:-117.752,-11.1381,0,-111.877,-4.90345,-111.275 chr03 22876374 . C A 28638.1 PASS AB=0.464092;ABP=19.5406;AC=28;AF=0.666667;AN=42;AO=1489;CIGAR=1X;DP=2429;DPB=2429;DPRA=0.84963;EPP=3236.33;EPPR=2033.35;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9893;MQMR=59.9723;NS=21;NUMALT=1;ODDS=3.2607;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52399;QR=33636;RO=939;RPL=0;RPP=3236.33;RPPR=2042.02;RPR=1489;RUN=1;SAF=1489;SAP=3236.33;SAR=0;SRF=938;SRP=2033.35;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:84,51:84:3016:51:1790:-120.739,0,-231.031 0/1:142:73,69:73:2628:69:2384:-172.067,0,-194.02 0/1:124:74,50:74:2640:50:1781:-123.243,0,-200.52 1/1:180:2,178:2:72:178:6338:-563.675,-47.3487,0 1/1:205:9,196:9:324:196:6898:-591.386,-32.2053,0 1/1:147:0,146:0:0:146:5115:-460.133,-43.9504,0 0/1:168:81,87:81:2900:87:3041:-223.343,0,-210.663 0/0:135:135,0:135:4832:0:0:0,-40.639,-435.035 0/1:151:88,63:88:3148:63:2225:-155.058,0,-238.09 0/1:14:3,11:3:108:11:396:-31.7683,0,-5.86075 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:47:0,47:0:0:47:1577:-142.207,-14.1484,0 0/1:186:86,100:86:3084:100:3518:-260.84,0,-221.605 0/1:192:98,94:98:3512:94:3280:-237.621,0,-258.492 0/1:178:112,66:112:4012:66:2341:-157.365,0,-307.685 0/1:43:28,15:28:996:15:525:-34.6338,0,-77.0106 1/1:85:0,85:0:0:85:3002:-270.411,-25.5876,0 0/1:69:41,28:41:1472:28:1004:-69.9048,0,-112.005 0/1:74:23,51:23:824:51:1792:-139.238,0,-52.2071 1/1:101:1,100:1:32:100:3562:-317.586,-27.2047,0 1/1:39:1,38:1:36:38:1330:-116.397,-8.1419,0 chr03 22897763 . GAGGC AAGGT 13730.5 PASS AB=0.424312;ABP=46.3999;AC=28;AF=0.666667;AN=42;AO=744;CIGAR=1X3M1X;DP=1313;DPB=1313;DPRA=1.18868;EPP=1618.59;EPPR=1219.05;GTI=2;LEN=5;MEANALT=1.25;MQM=59.7648;MQMR=60;NS=21;NUMALT=1;ODDS=0.884557;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26186;QR=19402;RO=564;RPL=744;RPP=1618.59;RPPR=1219.05;RPR=0;RUN=1;SAF=744;SAP=1618.59;SAR=0;SRF=564;SRP=1227.72;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:43,11:43:1481:11:382:-18.4564,0,-117.325 0/1:40:24,16:24:847:16:572:-39.769,0,-64.508 0/1:69:43,26:43:1479:26:921:-62.4355,0,-112.63 1/1:50:0,49:0:0:49:1722:-154.896,-14.7505,0 1/1:145:7,137:7:239:137:4773:-407.815,-21.8194,0 1/1:60:2,57:2:66:57:2003:-174.03,-11.8424,0 0/1:100:56,44:56:1901:44:1567:-111.215,0,-141.261 0/0:53:53,0:53:1842:0:0:0,-15.9546,-166.059 0/1:105:67,38:67:2288:38:1352:-90.372,0,-174.572 0/1:13:11,2:11:384:2:72:-2.92333,0,-30.9812 1/1:6:0,6:0:0:6:209:-19.1494,-1.80618,0 1/1:15:0,15:0:0:15:512:-46.4004,-4.51545,0 0/1:105:57,48:57:1965:48:1696:-121.316,0,-145.516 0/1:74:38,36:38:1322:36:1255:-90.9745,0,-97.0018 0/1:89:49,39:49:1690:39:1387:-98.3663,0,-125.621 0/1:45:20,25:20:687:25:891:-66.9634,0,-48.6017 1/1:31:0,31:0:0:31:1097:-99.04,-9.33193,0 0/1:126:72,53:72:2448:53:1861:-129.777,0,-182.587 0/1:52:20,32:20:694:32:1125:-85.9002,0,-47.128 1/1:34:2,32:2:69:32:1134:-95.8142,-3.68248,0 1/1:47:0,47:0:0:47:1655:-149.233,-14.1484,0 chr03 22900017 . ATCGT TTTGT,TTTGC 38111.6 PASS AB=0.410468,0.58494;ABP=78.8324,71.2552;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1109,754;CIGAR=1X1M1X2M,1X1M1X1M1X;DP=1869;DPB=1869;DPRA=0.791892,1.50229;EPP=2402.5,1640.3;EPPR=5.18177;GTI=1;LEN=5,5;MEANALT=1.95,2.2;MQM=59.8674,41.7029;MQMR=60;NS=21;NUMALT=2;ODDS=2.43715;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39317,26513;QR=36;RO=1;RPL=3,0;RPP=2385.19,1640.3;RPPR=5.18177;RPR=1106,754;RUN=1,1;SAF=2,0;SAP=2393.83,1640.3;SAR=1107,754;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:122:0,38,84:0:0:38,84:1351,2969:-344.389,-234.29,-222.851,-110.451,0,-85.1644 1/2:52:0,23,29:0:0:23,29:820,1007:-144.513,-77.658,-70.7343,-67.1993,0,-58.4694 1/2:60:0,31,29:0:0:31,29:1107,1039:-173.393,-83.1371,-73.8052,-90.6091,0,-81.8792 1/1:108:0,108,0:0:0:108,0:3850,0:-346.693,-32.5112,0,-346.693,-32.5112,-346.693 1/1:184:0,180,4:0:0:180,4:6397,144:-575.438,-54.1854,0,-563.827,-42.2188,-562.623 1/1:92:0,90,2:0:0:90,2:3173,71:-285.448,-27.0927,0,-279.95,-21.2556,-279.348 1/2:86:1,27,57:1:36:27,57:943,1984:-225.255,-148.848,-143.658,-73.7908,0,-59.57 2/2:111:0,0,111:0:0:0,111:0,3885:-334.133,-334.133,-334.133,-33.4143,-33.4143,0 1/2:134:0,51,83:0:0:51,83:1808,2926:-380.459,-233.432,-218.08,-147.378,0,-122.392 1/2:9:0,5,4:0:0:5,4:172,143:-25.5694,-11.6023,-10.0972,-14.3123,0,-13.1081 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:44:0,44,0:0:0:44,0:1574,0:-141.951,-13.2453,0,-141.951,-13.2453,-141.951 1/2:135:0,62,72:0:0:62,72:2191,2515:-376.786,-198.351,-179.687,-178.43,0,-156.756 1/2:119:0,57,61:0:0:57,61:2010,2122:-329.486,-165.818,-148.659,-163.653,0,-145.29 1/2:120:0,40,80:0:0:40,80:1431,2828:-341.967,-225.274,-213.233,-117.047,0,-92.9644 1/2:96:0,26,69:0:0:26,69:899,2433:-267.308,-194.259,-186.433,-73.1034,0,-52.3324 1/1:94:0,94,0:0:0:94,0:3336,0:-300.459,-28.2968,0,-300.459,-28.2968,-300.459 1/2:80:0,35,45:0:0:35,45:1250,1600:-226.32,-124.415,-113.879,-102.255,0,-88.7084 1/2:76:0,52,24:0:0:52,24:1852,847:-218.108,-67.1582,-51.5047,-151.297,0,-144.072 1/1:79:0,79,0:0:0:79,0:2786,0:-250.98,-23.7814,0,-250.98,-23.7814,-250.98 1/1:60:0,59,0:0:0:59,0:2079,0:-186.988,-17.7608,0,-186.988,-17.7608,-186.988 chr03 22900025 . ATTATC ATATC 12652.8 PASS AB=0.578257;ABP=59.7677;AC=14;AF=0.333333;AN=42;AO=729;CIGAR=1M1D4M;DP=1843;DPB=1720.67;DPRA=1.48061;EPP=1534.33;EPPR=2169.78;GTI=1;LEN=1;MEANALT=1.4;MQM=41.749;MQMR=59.8835;NS=21;NUMALT=1;ODDS=0.923054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25758;QR=39147;RO=1107;RPL=723;RPP=1534.33;RPPR=2186.3;RPR=6;RUN=1;SAF=0;SAP=1586.01;SAR=729;SRF=2;SRP=2389.49;SRR=1105;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:38,82:38:1356:82:2895:-217.882,0,-85.9177 0/1:50:23,27:23:803:27:955:-66.7789,0,-57.5378 0/1:59:31,28:31:1101:28:1008:-71.3207,0,-81.64 0/0:108:108,0:108:3826:0:0:0,-32.5112,-344.541 0/0:184:181,2:181:6429:2:68:0,-49.0864,-572.238 0/0:91:88,2:88:3110:2:72:0,-20.9419,-273.617 0/1:83:28,55:28:972:55:1939:-140.526,0,-62.8041 1/1:109:0,108:0:0:108:3778:-327.687,-32.5112,0 0/1:132:51,81:51:1790:81:2865:-213.702,0,-121.455 0/1:9:5,4:5:178:4:144:-10.1693,0,-13.6594 0/0:8:8,0:8:281:0:0:0,-2.40824,-25.6303 0/0:44:44,0:44:1564:0:0:0,-13.2453,-141.052 0/1:132:62,70:62:2185:70:2480:-178.317,0,-157.174 0/1:115:57,58:57:1994:58:2021:-142.585,0,-145.116 0/1:119:40,79:40:1401:79:2813:-211.953,0,-90.5631 0/1:93:26,65:26:918:65:2320:-177.966,0,-55.2389 0/0:94:94,0:94:3313:0:0:0,-28.2968,-298.392 0/1:78:35,42:35:1247:42:1482:-105.093,0,-89.0817 0/1:76:50,26:50:1769:26:918:-58.0915,0,-136.615 0/0:79:79,0:79:2796:0:0:0,-23.7814,-251.88 0/0:59:59,0:59:2114:0:0:0,-17.7608,-190.484 chr03 23002466 . GG GA,AA 56386.8 PASS AB=0.480115,0.517003;ABP=8.96902,7.36701;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1658,1067;CIGAR=1M1X,2X;DP=2733;DPB=2733;DPRA=0.768263,2.14878;EPP=3603.31,2319.97;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.1,2.375;MQM=59.9777,59.9278;MQMR=0;NS=21;NUMALT=2;ODDS=10.352;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59052,36930;QR=0;RO=0;RPL=1656,1065;RPP=3585.96,2302.63;RPPR=0;RPR=2,2;RUN=1,1;SAF=1656,1065;SAP=3585.96,2302.63;SAR=2,2;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:193:0,92,98:0:0:92,98:3280,3396:-543.396,-276.021,-248.326,-267.408,0,-237.907 1/2:137:0,75,62:0:0:75,62:2688,2142:-393.617,-174.381,-151.804,-219.587,0,-200.923 1/2:129:0,64,65:0:0:64,65:2275,2290:-371.816,-186.423,-167.157,-185.746,0,-166.179 1/1:80:0,79,0:0:0:79,0:2794,0:-251.34,-23.7814,0,-251.34,-23.7814,-251.34 1/1:261:0,259,1:0:0:259,1:9252,36:-832.261,-77.9668,0,-829.323,-75.0294,-829.022 1/1:154:0,154,0:0:0:154,0:5485,0:-493.779,-46.3586,0,-493.779,-46.3586,-493.779 1/2:200:0,89,111:0:0:89,111:3169,3863:-572.724,-314.434,-287.642,-258.642,0,-225.228 2/2:167:0,0,166:0:0:0,166:0,5759:-518.076,-518.076,-518.076,-49.971,-49.971,0 1/2:266:0,118,148:0:0:118,148:4220,5134:-761.762,-417.656,-382.134,-344.459,0,-299.906 1/2:49:0,21,27:0:0:21,27:752,930:-136.933,-75.5992,-69.2775,-61.4011,0,-53.2733 1/1:29:0,29,0:0:0:29,0:1044,0:-94.2748,-8.72987,0,-94.2748,-8.72987,-94.2748 1/1:51:0,51,0:0:0:51,0:1816,0:-163.721,-15.3525,0,-163.721,-15.3525,-163.721 1/2:208:0,84,124:0:0:84,124:2951,4284:-588.6,-348.414,-323.127,-240.535,0,-203.208 1/2:188:0,102,86:0:0:102,86:3628,2946:-535.124,-239.455,-208.75,-296.017,0,-270.129 1/2:167:0,84,83:0:0:84,83:2993,2876:-478.053,-234.09,-208.803,-244.314,0,-219.329 1/2:45:0,18,27:0:0:18,27:644,917:-127.23,-74.7084,-69.2898,-52.8721,0,-44.7442 1/1:104:0,103,1:0:0:103,1:3653,36:-328.586,-31.0061,0,-325.649,-27.7088,-325.348 1/2:101:0,55,46:0:0:55,46:1953,1604:-289.935,-130.798,-114.241,-159.488,0,-145.641 1/2:52:0,31,20:0:0:31,20:1103,647:-142.174,-52.2609,-42.9289,-89.9954,0,-83.9748 1/1:119:0,117,2:0:0:117,2:4181,70:-376.121,-35.2205,0,-370.426,-29.1752,-369.823 1/1:33:0,33,0:0:0:33,0:1171,0:-105.697,-9.93399,0,-105.697,-9.93399,-105.697 chr03 23002626 . G T 15861.5 PASS AB=0.490467;ABP=4.21096;AC=14;AF=0.333333;AN=42;AO=899;CIGAR=1X;DP=2638;DPB=2638;DPRA=1.43406;EPP=1955.16;EPPR=3779.2;GTI=0;LEN=1;MEANALT=1;MQM=59.9377;MQMR=59.9787;NS=21;NUMALT=1;ODDS=5.73588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32151;QR=62176;RO=1739;RPL=899;RPP=1955.16;RPPR=3779.2;RPR=0;RUN=1;SAF=0;SAP=1955.16;SAR=899;SRF=0;SRP=3779.2;SRR=1739;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:49,71:49:1740:71:2542:-192.906,0,-120.716 0/1:82:46,36:46:1656:36:1288:-91.5349,0,-124.644 0/1:123:64,59:64:2304:59:2116:-153.682,0,-170.594 0/0:210:210,0:210:7532:0:0:0,-63.2163,-677.919 0/0:262:260,2:260:9312:2:72:0,-72.0331,-831.209 0/0:171:171,0:171:6112:0:0:0,-51.4761,-550.095 0/1:173:87,86:87:3112:86:3067:-224.17,0,-228.229 1/1:146:0,146:0:0:146:5206:-468.677,-43.9504,0 0/1:194:85,109:85:3040:109:3889:-291.802,0,-215.43 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.659 0/1:267:147,120:147:5243:120:4293:-306.171,0,-391.634 0/1:157:83,74:83:2964:74:2648:-191.3,0,-219.732 0/1:180:90,90:90:3216:90:3218:-235.585,0,-235.478 0/1:87:48,39:48:1712:39:1400:-100.11,0,-128.176 0/0:129:128,1:128:4549:1:36:0,-35.2346,-405.98 0/1:67:29,38:29:1026:38:1368:-103.252,0,-72.4823 0/1:60:38,22:38:1359:22:792:-53.5439,0,-104.548 0/0:108:104,4:104:3716:4:144:0,-19.1976,-321.329 0/0:44:44,0:44:1567:0:0:0,-13.2453,-141.321 chr03 23040438 . C T 9385.56 PASS AB=0.521837;ABP=6.70885;AC=14;AF=0.333333;AN=42;AO=539;CIGAR=1X;DP=1383;DPB=1383;DPRA=2.037;EPP=1173.43;EPPR=1824.89;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9814;MQMR=59.9953;NS=21;NUMALT=1;ODDS=0.527599;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19247;QR=30123;RO=843;RPL=0;RPP=1173.43;RPPR=1824.89;RPR=539;RUN=1;SAF=0;SAP=1173.43;SAR=539;SRF=0;SRP=1833.56;SRR=843;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:57,45:57:2033:45:1611:-114.574,0,-152.535 0/1:60:25,35:25:896:35:1260:-95.6437,0,-62.8986 0/1:60:29,31:29:1040:31:1096:-80.8868,0,-75.8526 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/0:161:157,4:157:5617:4:144:0,-35.1522,-492.336 0/0:34:34,0:34:1209:0:0:0,-10.235,-109.114 0/1:77:31,46:31:1112:46:1641:-124.797,0,-77.212 1/1:67:0,67:0:0:67:2389:-215.266,-20.169,0 0/1:18:5,13:5:171:13:468:-37.0411,0,-10.3069 0/1:12:3,9:3:108:9:324:-25.8935,0,-6.46281 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/1:68:29,39:29:1044:39:1404:-106.189,0,-73.8024 0/1:70:32,38:32:1140:38:1355:-101.177,0,-81.8371 0/1:214:104,109:104:3717:109:3883:-285.18,0,-270.251 0/1:46:14,32:14:500:32:1148:-89.7825,0,-31.4888 0/0:86:86,0:86:3076:0:0:0,-25.8886,-277.069 0/1:113:56,57:56:1987:57:2024:-148.409,0,-145.087 0/1:53:41,12:41:1468:12:428:-22.9042,0,-116.462 0/0:35:35,0:35:1241:0:0:0,-10.536,-111.993 0/0:35:33,2:33:1184:2:72:0,-3.69933,-100.032 chr03 23040439 . G A 16779.9 PASS AB=0.481398;ABP=5.67629;AC=28;AF=0.666667;AN=42;AO=850;CIGAR=1X;DP=1383;DPB=1383;DPRA=0.98209;EPP=1840.09;EPPR=1160.41;GTI=0;LEN=1;MEANALT=1;MQM=59.9953;MQMR=59.9812;NS=21;NUMALT=1;ODDS=1.31161;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30478;QR=19084;RO=533;RPL=1;RPP=1840.09;RPPR=1160.41;RPR=849;RUN=1;SAF=0;SAP=1848.76;SAR=850;SRF=0;SRP=1160.41;SRR=533;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:45,56:45:1612:56:2004:-150.23,0,-114.966 0/1:59:34,25:34:1224:25:892:-62.8389,0,-92.7063 0/1:58:29,29:29:1040:29:1044:-76.8151,0,-76.4546 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 1/1:165:4,161:4:144:161:5780:-506.999,-36.3563,0 1/1:35:0,35:0:0:35:1260:-113.705,-10.5361,0 0/1:76:46,30:46:1648:30:1071:-73.8242,0,-125.73 0/0:67:67,0:67:2396:0:0:0,-20.169,-215.897 0/1:17:12,5:12:432:5:180:-11.4346,0,-34.1037 0/1:11:8,3:8:288:3:108:-6.76384,0,-22.9561 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:38:0,38:0:0:38:1368:-123.421,-11.4391,0 0/1:69:39,30:39:1404:30:1080:-76.7398,0,-105.888 0/1:68:36,32:36:1296:32:1144:-82.7995,0,-96.4739 0/1:216:109,107:109:3883:107:3833:-280.143,0,-284.638 0/1:47:31,16:31:1112:16:572:-37.665,0,-86.2429 1/1:86:0,86:0:0:86:3066:-276.166,-25.8886,0 0/1:112:59,53:59:2105:53:1900:-137.563,0,-155.997 0/1:53:12,41:12:428:41:1472:-116.822,0,-22.9042 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 1/1:34:2,32:2:72:32:1152:-97.1534,-3.3983,0 chr03 23040456 . T C 9079.53 PASS AB=0.511236;ABP=3.98624;AC=14;AF=0.333333;AN=42;AO=527;CIGAR=1X;DP=1385;DPB=1385;DPRA=1.98793;EPP=1147.38;EPPR=1812.21;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.981;MQMR=59.9953;NS=21;NUMALT=1;ODDS=1.28699;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18765;QR=30632;RO=857;RPL=527;RPP=1147.38;RPPR=1812.21;RPR=0;RUN=1;SAF=0;SAP=1147.38;SAR=527;SRF=0;SRP=1863.96;SRR=857;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:58,44:58:2080:44:1561:-110.075,0,-156.765 0/1:60:25,35:25:900:35:1233:-93.2103,0,-63.2592 0/1:61:30,31:30:1072:31:1085:-79.5941,0,-78.4296 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:162:158,4:158:5634:4:144:0,-35.4532,-493.866 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:75:31,44:31:1108:44:1576:-119.554,0,-77.4537 1/1:66:0,66:0:0:66:2328:-209.779,-19.868,0 0/1:18:5,13:5:176:13:468:-37.0411,0,-10.7665 0/1:12:3,9:3:108:9:316:-25.1665,0,-6.46281 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 0/1:68:30,38:30:1072:38:1364:-102.591,0,-76.3201 0/1:69:34,35:34:1212:35:1260:-92.9344,0,-88.6153 0/1:213:104,108:104:3705:108:3864:-283.775,0,-269.474 0/1:46:17,29:17:608:29:1044:-80.4274,0,-41.2046 0/0:88:88,0:88:3137:0:0:0,-26.4906,-282.555 0/1:113:56,57:56:2004:57:2018:-147.871,0,-146.617 0/1:53:41,12:41:1472:12:432:-23.2666,0,-116.822 0/0:36:36,0:36:1280:0:0:0,-10.8371,-115.503 0/0:35:33,2:33:1188:2:72:0,-3.69933,-100.392 chr03 23047454 . C T 11030.3 PASS AB=0.392063;ABP=194.265;AC=20;AF=0.47619;AN=42;AO=741;CIGAR=1X;DP=1961;DPB=1961;DPRA=1.33099;EPP=1612.07;EPPR=2650.04;GTI=1;LEN=1;MEANALT=1.05;MQM=52.0054;MQMR=41.6932;NS=21;NUMALT=1;ODDS=7.05624;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26477;QR=43006;RO=1219;RPL=741;RPP=1612.07;RPPR=2650.04;RPR=0;RUN=1;SAF=741;SAP=1612.07;SAR=0;SRF=1219;SRP=2650.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:84,24:84:2952:24:860:-45.0192,0,-212.436 0/1:35:22,13:22:788:13:468:-31.8427,0,-52.2457 0/1:77:56,21:56:1973:21:739:-43.4981,0,-142.531 0/1:84:53,31:53:1877:31:1116:-75.2119,0,-112.021 0/1:197:109,88:109:3846:88:3143:-223.104,0,-226.265 0/1:73:32,41:32:1140:41:1472:-110.551,0,-51.8202 0/1:128:69,59:69:2456:59:2112:-151.464,0,-150.264 0/0:71:71,0:71:2492:0:0:0,-21.3731,-224.53 0/1:230:179,51:179:6324:51:1817:-94.0516,0,-468.589 0/1:17:14,3:14:483:3:108:-4.93233,0,-31.85 0/1:8:3,5:3:108:5:180:-14.1123,0,-4.75614 0/1:44:27,17:27:959:17:608:-41.6723,0,-53.1825 0/1:176:123,53:123:4358:53:1895:-117.426,0,-305.293 0/1:90:50,40:50:1738:40:1436:-102.123,0,-112.412 0/1:125:66,59:66:2308:59:2120:-152.963,0,-153.773 0/1:40:14,26:14:491:26:927:-71.4408,0,-29.0699 0/1:75:29,46:29:1036:46:1648:-125.555,0,-57.6821 0/1:61:47,14:47:1631:14:500:-26.8634,0,-114.3 0/1:53:37,16:37:1323:16:567:-35.2821,0,-86.4651 0/1:206:109,96:109:3839:96:3401:-241.938,0,-204.014 0/1:63:25,38:25:884:38:1360:-103.508,0,-39.2896 chr03 23047491 . 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C G 10380.8 PASS AB=0.5;ABP=3.0103;AC=14;AF=0.333333;AN=42;AO=620;CIGAR=1X;DP=1954;DPB=1954;DPRA=0.945266;EPP=1349.32;EPPR=2888.9;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.5581;MQMR=59.9571;NS=21;NUMALT=1;ODDS=14.6708;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21821;QR=47181;RO=1329;RPL=0;RPP=1349.32;RPPR=2888.9;RPR=620;RUN=1;SAF=0;SAP=1349.32;SAR=620;SRF=0;SRP=2888.9;SRR=1329;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:50,50:50:1779:50:1742:-126.581,0,-129.929 0/1:93:41,52:41:1443:52:1839:-137.776,0,-102.169 0/1:87:34,53:34:1220:53:1879:-143.193,0,-83.9172 0/0:165:164,0:164:5852:0:0:0,-49.3689,-526.429 0/0:253:251,0:251:8911:0:0:0,-75.5585,-801.618 0/0:94:93,0:93:3315:0:0:0,-27.9958,-298.209 0/1:136:47,89:47:1679:89:3120:-240.05,0,-110.266 1/1:60:0,60:0:0:60:2103:-189.524,-18.0618,0 0/1:160:89,71:89:3157:71:2517:-178.611,0,-236.134 0/1:14:8,6:8:284:6:216:-15.5761,0,-21.6889 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:141:74,67:74:2604:67:2367:-170.832,0,-192.163 0/1:65:45,20:45:1592:20:706:-44.2967,0,-124.003 0/1:102:48,54:48:1701:54:1910:-141.434,0,-122.662 0/1:90:43,47:43:1527:47:1672:-123.341,0,-110.627 0/0:110:110,0:110:3918:0:0:0,-33.1133,-352.814 0/1:69:37,32:37:1301:32:1090:-77.6012,0,-96.6182 0/1:54:39,15:39:1383:15:516:-30.4948,0,-108.512 0/0:106:102,4:102:3594:4:144:0,-18.5956,-310.354 0/0:28:28,0:28:989:0:0:0,-8.42884,-89.322 chr03 23069303 . C A 10870.5 PASS AB=0.500888;ABP=3.01801;AC=14;AF=0.333333;AN=42;AO=629;CIGAR=1X;DP=1983;DPB=1983;DPRA=0.935354;EPP=1360.19;EPPR=2891.3;GTI=0;LEN=1;MEANALT=1;MQM=59.5564;MQMR=59.9778;NS=21;NUMALT=1;ODDS=14.3349;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22469;QR=48374;RO=1354;RPL=628;RPP=1360.19;RPPR=2891.3;RPR=1;RUN=1;SAF=0;SAP=1368.87;SAR=629;SRF=0;SRP=2943.18;SRR=1354;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:52,50:52:1860:50:1788:-130.486,0,-136.975 0/1:93:42,51:42:1508:51:1832:-137.147,0,-108.019 0/1:87:34,53:34:1216:53:1904:-145.441,0,-83.557 0/0:171:171,0:171:6129:0:0:0,-51.4761,-551.705 0/0:260:260,0:260:9286:0:0:0,-78.2678,-835.706 0/0:94:93,1:93:3324:1:36:0,-24.6985,-295.78 0/1:143:50,93:50:1796:93:3310:-255.028,0,-118.867 1/1:60:0,60:0:0:60:2139:-192.752,-18.0618,0 0/1:159:88,71:88:3164:71:2540:-180.98,0,-237.12 0/1:14:8,6:8:284:6:216:-15.5761,0,-21.6889 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:144:74,70:74:2644:70:2500:-181.881,0,-194.859 0/1:64:44,20:44:1580:20:720:-45.8582,0,-123.225 0/1:104:51,53:51:1813:53:1887:-138.767,0,-132.138 0/1:94:44,50:44:1568:50:1800:-133.621,0,-113.111 0/0:110:110,0:110:3907:0:0:0,-33.1133,-351.823 0/1:68:36,32:36:1273:32:1148:-82.9614,0,-94.4009 0/1:54:39,15:39:1389:15:505:-29.5084,0,-109.051 0/0:109:105,4:105:3733:4:144:0,-19.4987,-322.858 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 chr03 23069314 . C T 28240.3 PASS AB=0.502191;ABP=3.05788;AC=28;AF=0.666667;AN=42;AO=1382;CIGAR=1X;DP=2017;DPB=2017;DPRA=1.57661;EPP=2995.31;EPPR=1373.22;GTI=0;LEN=1;MEANALT=1;MQM=59.9074;MQMR=59.5118;NS=21;NUMALT=1;ODDS=15.6324;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49365;QR=22628;RO=635;RPL=1381;RPP=2995.31;RPPR=1373.22;RPR=1;RUN=1;SAF=0;SAP=3003.99;SAR=1382;SRF=0;SRP=1381.9;SRR=635;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:52,52:52:1845:52:1843:-134.841,0,-135.008 0/1:93:51,42:51:1802:42:1497:-107.027,0,-134.445 0/1:88:54,34:54:1940:34:1198:-81.6329,0,-148.379 1/1:175:0,175:0:0:175:6234:-560.527,-52.6803,0 1/1:263:1,262:1:36:262:9397:-842.089,-75.5726,0 1/1:96:0,96:0:0:96:3426:-308.551,-28.8989,0 0/1:143:92,51:92:3308:51:1828:-121.555,0,-254.846 0/0:62:62,0:62:2209:0:0:0,-18.6639,-199.056 0/1:163:73,90:73:2579:90:3221:-240.987,0,-183.196 0/1:14:6,8:6:216:8:284:-21.6889,0,-15.5761 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 1/1:19:0,19:0:0:19:665:-60.1728,-5.71957,0 0/1:146:70,76:70:2501:76:2671:-196.682,0,-181.364 0/1:67:21,46:21:741:46:1656:-129.159,0,-46.8424 0/1:104:53,51:53:1885:51:1828:-133.489,0,-138.585 0/1:95:50,45:50:1770:45:1612:-116.767,0,-130.617 1/1:111:0,111:0:0:111:3980:-358.39,-33.4143,0 0/1:69:32,37:32:1148:37:1328:-99.0512,0,-82.6603 0/1:55:14,41:14:504:41:1472:-116.133,0,-29.0322 1/1:113:4,109:4:144:109:3897:-337.601,-20.7028,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 chr03 23069739 . AA GA,GG 61499.5 PASS AB=0.503474,0.494923;ABP=3.20644,3.42927;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1871,1037;CIGAR=1X1M,2X;DP=2911;DPB=2911;DPRA=1.31028,1.76916;EPP=3970.85,2211.61;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.9,2.125;MQM=59.9054,59.6287;MQMR=0;NS=21;NUMALT=2;ODDS=6.30517;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66615,36620;QR=0;RO=0;RPL=11,4;RPP=3970.85,2220.22;RPPR=0;RPR=1860,1033;RUN=1,1;SAF=1871,1036;SAP=4065.84,2246.15;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:232:0,105,127:0:0:105,127:3765,4482:-672.4,-365.317,-333.709,-307.439,0,-269.208 1/2:163:0,78,85:0:0:78,85:2793,2997:-472.03,-244.275,-220.794,-228.111,0,-202.523 1/2:180:0,108,72:0:0:108,72:3861,2551:-522.919,-208.147,-175.635,-315.128,0,-293.454 1/1:159:0,159,0:0:0:159,0:5660,0:-509.512,-47.8638,0,-509.512,-47.8638,-509.512 1/1:198:0,197,1:0:0:197,1:7011,36:-630.351,-59.3029,0,-627.414,-56.0057,-627.113 1/1:195:0,194,1:0:0:194,1:6932,36:-623.586,-58.3998,0,-620.649,-55.1026,-620.348 1/2:207:0,109,98:0:0:109,98:3848,3457:-595.187,-281.839,-249.026,-313.701,0,-284.2 2/2:107:0,0,107:0:0:0,107:0,3746:-337.325,-337.325,-337.325,-32.2102,-32.2102,0 1/2:217:0,112,105:0:0:112,105:3982,3694:-624.489,-300.01,-266.295,-324.831,0,-293.223 1/2:20:0,10,10:0:0:10,10:356,358:-58.5667,-29.5526,-26.5423,-29.3709,0,-26.3606 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/1:57:0,57,0:0:0:57,0:2048,0:-184.578,-17.1587,0,-184.578,-17.1587,-184.578 1/2:148:0,82,66:0:0:82,66:2948,2338:-431.306,-190.794,-166.11,-240.868,0,-221 1/2:200:0,101,99:0:0:101,99:3583,3490:-576.349,-284.435,-254.031,-292.268,0,-262.466 1/2:222:0,102,117:0:0:102,117:3595,4161:-631.023,-338.555,-307.85,-292.461,0,-257.241 1/2:128:0,60,68:0:0:60,68:2130,2421:-371.223,-197.675,-179.613,-173.903,0,-153.433 1/1:165:0,165,0:0:0:165,0:5790,0:-521.105,-49.67,0,-521.105,-49.67,-521.105 1/2:73:0,29,44:0:0:29,44:1040,1567:-212.891,-128.064,-119.334,-85.1845,0,-71.9392 1/2:81:0,46,35:0:0:46,35:1656,1214:-234.145,-99.0166,-85.1692,-135.481,0,-124.945 1/1:103:0,101,2:0:0:101,2:3609,72:-324.655,-30.404,0,-318.78,-24.1694,-318.178 1/1:47:0,47,0:0:0:47,0:1688,0:-152.204,-14.1484,0,-152.204,-14.1484,-152.204 chr03 23118409 . GCACAGC CCACAGC,CCACGGA 28500 PASS AB=0.654867,0.341593;ABP=120.712,126.154;AC=29,13;AF=0.690476,0.309524;AN=42;AO=867,241;CIGAR=1X6M,1X3M1X1M1X;DP=1117;DPB=1117.43;DPRA=0,0.915507;EPP=7.2205,374.314;EPPR=0;GTI=1;LEN=1,7;MEANALT=1.95238,2.16667;MQM=59.7405,39.0664;MQMR=0;NS=21;NUMALT=2;ODDS=2.45163;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=34,34;PQR=0;PRO=0;QA=30737,8367;QR=0;RO=0;RPL=867,241;RPP=1885.68,526.335;RPPR=0;RPR=0,0;RUN=1,1;SAF=413,19;SAP=7.2205,374.314;SAR=454,222;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,23,20:0:0:23,20:828,707:-121.376,-53.8061,-46.8824,-67.9142,0,-61.8936 1/2:33:0,23,10:0:0:23,10:816,352:-92.6544,-26.1505,-19.2268,-66.8347,0,-63.8244 1/2:32:0,23,9:0:0:23,9:824,320:-92.3039,-25.0886,-18.1649,-67.5596,0,-64.8504 1/1:65:0,64,0:0:0:64,0:2264,0:-203.378,-19.2659,0,-203.378,-19.2659,-203.378 1/1:86:0,83,0:0:0:83,0:2966,0:-266.808,-24.9855,0,-266.808,-24.9855,-266.808 1/1:76:0,74,0:0:0:74,0:2595,0:-233.438,-22.2762,0,-233.438,-22.2762,-233.438 1/2:58:0,38,20:0:0:38,20:1337,705:-160.421,-51.5623,-40.1232,-109.189,0,-103.168 2/2:49:0,1,48:0:0:1,48:36,1656:-139.213,-136.274,-135.973,-14.4494,-11.1522,0 1/2:79:0,46,33:0:0:46,33:1628,1143:-223.861,-91.2491,-77.4017,-132.958,0,-123.024 1/2:7:0,5,2:0:0:5,2:165,69:-18.9156,-5.57357,-4.06842,-13.6685,0,-13.0664 1/1:14:0,14,0:0:0:14,0:496,0:-44.9645,-4.21442,0,-44.9645,-4.21442,-44.9645 1/1:20:0,20,0:0:0:20,0:720,0:-65.1074,-6.0206,0,-65.1074,-6.0206,-65.1074 1/1:68:0,68,0:0:0:68,0:2431,0:-219.024,-20.47,0,-219.024,-20.47,-219.024 1/2:66:0,39,26:0:0:39,26:1391,885:-180.159,-66.7581,-55.018,-113.377,0,-105.55 1/2:51:0,33,17:0:0:33,17:1153,597:-139.988,-46.191,-36.257,-93.7786,0,-88.661 1/2:36:0,18,18:0:0:18,18:633,643:-101.689,-50.1685,-44.75,-51.8671,0,-46.4485 1/1:38:0,37,0:0:0:37,0:1315,0:-118.289,-11.1381,0,-118.289,-11.1381,-118.289 1/2:67:0,55,12:0:0:55,12:1951,411:-190.012,-31.0283,-14.4716,-159.309,0,-155.696 1/2:93:0,67,26:0:0:67,26:2366,879:-260.508,-67.8174,-47.6484,-192.964,0,-185.137 1/1:38:0,38,0:0:0:38,0:1356,0:-122.33,-11.4391,0,-122.33,-11.4391,-122.33 1/1:98:0,98,0:0:0:98,0:3466,0:-312.128,-29.5009,0,-312.128,-29.5009,-312.128 chr03 23118480 . CTC CTCCTCATC,ATC 8742.84 PASS AB=0.534426,0.298361;ABP=6.15004,110.722;AC=30,12;AF=0.714286,0.285714;AN=42;AO=363,109;CIGAR=1M6I2M,1X2M;DP=539;DPB=1451;DPRA=1.36842,1.99556;EPP=791.255,239.701;EPPR=9.52472;GTI=4;LEN=6,1;MEANALT=2.4,2.73333;MQM=45.3747,37.3303;MQMR=48.3333;NS=21;NUMALT=2;ODDS=0.0370898;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=12521,3713;QR=98;RO=3;RPL=0,0;RPP=791.255,239.701;RPPR=9.52472;RPR=363,109;RUN=1,1;SAF=363,109;SAP=791.255,239.701;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=ins,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:47:0,30,10:0:0:30,10:1055,345:-110.216,-25.4807,-16.4498,-84.7751,0,-81.7648 1/2:15:0,8,2:0:0:8,2:265,60:-25.1368,-4.26107,-1.85283,-20.8839,0,-20.2818 1/2:39:0,26,8:0:0:26,8:881,265:-88.9328,-19.3144,-11.4876,-69.6591,0,-67.2509 1/1:22:0,20,2:0:0:20,2:690,63:-59.888,-6.0206,0,-55.096,-0.925821,-54.4939 1/1:46:0,45,1:0:0:45,1:1561,36:-137.103,-13.5464,0,-134.251,-10.3447,-133.95 1/1:18:0,17,0:0:0:17,0:573,0:-50.3957,-5.11751,0,-50.3957,-5.11751,-50.3957 1/2:18:0,6,6:0:0:6,6:201,202:-31.1711,-15.3914,-13.5852,-15.8207,0,-14.0146 2/2:19:0,0,12:0:0:0,12:0,419:-36.0035,-36.0035,-36.0035,-3.61236,-3.61236,0 1/2:34:1,21,6:1:36:21,6:727,216:-72.7185,-14.4827,-11.0742,-55.6579,0,-56.762 1/2:4:0,2,2:0:0:2,2:72,72:-11.651,-6.0956,-5.49354,-5.90278,0,-5.30072 1/1:6:0,6,0:0:0:6,0:212,0:-18.7448,-1.80618,0,-18.7448,-1.80618,-18.7448 1/1:20:0,20,0:0:0:20,0:676,0:-59.5452,-6.0206,0,-59.5452,-6.0206,-59.5452 1/1:35:1,32,2:1:28:32,2:1080,72:-90.5438,-7.44082,0,-84.9696,-3.70677,-86.585 1/2:25:0,11,5:0:0:11,5:376,146:-40.8522,-10.5601,-7.24877,-30.3065,0,-28.8014 1/2:54:1,27,16:1:34:27,16:949,544:-113.702,-37.822,-32.3238,-73.5925,0,-71.4043 1/1:14:0,7,0:0:0:7,0:244,0:-21.9353,-2.10721,0,-21.9353,-2.10721,-21.9353 1/1:10:0,10,0:0:0:10,0:348,0:-31.4909,-3.0103,0,-31.4909,-3.0103,-31.4909 1/2:41:0,18,22:0:0:18,22:632,750:-107.301,-56.9192,-51.5007,-50.4775,0,-43.8549 1/2:28:0,14,14:0:0:14,14:496,487:-74.9944,-36.2543,-32.0399,-39.0699,0,-34.8555 1/1:22:0,21,1:0:0:21,1:715,36:-63.6308,-6.32163,0,-60.6947,-3.02698,-60.3936 1/1:22:0,22,0:0:0:22,0:768,0:-67.3742,-6.62266,0,-67.3742,-6.62266,-67.3742 chr03 23127198 . A G 17954.8 PASS AB=0.477075;ABP=10.8757;AC=13;AF=0.309524;AN=42;AO=1010;CIGAR=1X;DP=3028;DPB=3028;DPRA=1.51956;EPP=2161.59;EPPR=4229.94;GTI=0;LEN=1;MEANALT=1.17647;MQM=60;MQMR=59.9335;NS=21;NUMALT=1;ODDS=5.08478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36056;QR=72314;RO=2014;RPL=1006;RPP=2161.59;RPPR=4229.94;RPR=4;RUN=1;SAF=1010;SAP=2196.2;SAR=0;SRF=2014;SRP=4376.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:88,88:88:3160:88:3144:-230.205,0,-231.643 0/1:115:57,58:57:2052:58:2084:-153.212,0,-150.333 0/1:166:88,78:88:3156:78:2772:-199.75,0,-234.288 0/0:147:147,0:147:5272:0:0:0,-44.2514,-474.524 0/0:299:296,3:296:10624:3:108:0,-79.9328,-945.952 0/0:148:147,1:147:5269:1:32:0,-41.3531,-470.517 0/1:113:61,52:61:2196:52:1857:-133.392,0,-163.889 1/1:180:0,180:0:0:180:6437:-579.416,-54.1854,0 0/1:227:102,124:102:3660:124:4420:-329.58,0,-261.21 0/1:37:21,16:21:756:16:568:-40.3138,0,-57.2291 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:36:35,1:35:1260:1:36:0,-7.2388,-110.107 0/0:154:154,0:154:5532:0:0:0,-46.3586,-498 0/1:124:63,61:63:2264:61:2176:-158.779,0,-166.695 0/1:274:161,113:161:5776:113:4027:-280.136,0,-437.469 0/1:125:59,65:59:2124:65:2321:-171.461,0,-153.741 0/0:97:97,0:97:3473:0:0:0,-29.1999,-312.78 0/1:267:135,132:135:4856:132:4710:-343.685,0,-356.71 0/1:99:64,35:64:2300:35:1260:-83.9035,0,-177.459 0/0:144:140,2:140:5024:2:72:0,-36.2692,-445.468 0/0:92:91,1:91:3272:1:32:0,-24.4954,-291.492 chr03 23127201 . G A 42324.7 PASS AB=0.52194;ABP=10.2519;AC=29;AF=0.690476;AN=42;AO=2030;CIGAR=1X;DP=3046;DPB=3046;DPRA=0.796111;EPP=4281.77;EPPR=2168.11;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9197;MQMR=60;NS=21;NUMALT=1;ODDS=5.42391;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72801;QR=36169;RO=1013;RPL=2015;RPP=4281.77;RPPR=2168.11;RPR=15;RUN=1;SAF=2030;SAP=4411.1;SAR=0;SRF=1013;SRP=2202.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:89,87:89:3152:87:3128:-228.764,0,-230.924 0/1:116:60,56:60:2156:56:2016:-146.793,0,-159.387 0/1:164:76,87:76:2704:87:3128:-232.419,0,-194.283 1/1:147:0,147:0:0:147:5265:-473.893,-44.2514,0 1/1:303:3,300:3:108:300:10744:-956.696,-81.1369,0 1/1:150:1,149:1:32:149:5330:-475.697,-41.9552,0 0/1:116:54,62:54:1923:62:2228:-165.864,0,-138.427 0/0:180:180,0:180:6456:0:0:0,-54.1854,-581.125 0/1:231:127,102:127:4534:102:3668:-261.08,0,-338.985 0/1:37:15,22:15:536:22:792:-60.4676,0,-37.4367 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:36:1,35:1:36:35:1256:-109.747,-7.23881,0 1/1:155:0,155:0:0:155:5552:-499.799,-46.6597,0 0/1:126:61,65:61:2174:65:2328:-171.85,0,-157.995 0/1:281:116,165:116:4160:165:5924:-448.675,0,-289.993 0/1:126:68,58:68:2418:58:2072:-148.821,0,-179.946 1/1:99:0,99:0:0:99:3541:-318.896,-29.802,0 0/1:264:128,136:128:4571:136:4881:-359.958,0,-332.081 0/1:95:31,64:31:1116:64:2296:-178.303,0,-72.1538 1/1:144:2,142:2:72:142:5096:-451.933,-36.5116,0 1/1:92:1,91:1:21:91:3268:-292.231,-25.5948,0 chr03 23127207 . TGAC CGAT,TGAT 64249.3 PASS AB=0.524798,0.470012;ABP=12.2722,16.5551;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2027,1002;CIGAR=1X2M1X,3M1X;DP=3043;DPB=3043;DPRA=0.790608,1.40399;EPP=4275.26,2144.22;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.25,2.5;MQM=59.9364,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.98561;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71211,35697;QR=0;RO=0;RPL=2012,998;RPP=4275.26,2144.22;RPPR=0;RPR=15,4;RUN=1,1;SAF=2027,1002;SAP=4404.58,2178.83;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:173:0,88,85:0:0:88,85:3055,3048:-497.301,-248.962,-222.471,-248.692,0,-223.104 1/2:119:0,58,60:0:0:58,60:2053,2156:-343.259,-176.033,-158.573,-167.369,0,-149.307 1/2:167:0,87,78:0:0:87,78:3010,2760:-469.494,-224.898,-198.709,-244.682,0,-221.202 1/1:144:0,144,0:0:0:144,0:5080,0:-457.344,-43.3483,0,-457.344,-43.3483,-457.344 1/1:303:0,298,3:0:0:298,3:10459,108:-940.927,-89.7069,0,-932.115,-80.8405,-931.212 1/1:149:0,148,0:0:0:148,0:5200,0:-467.725,-44.5524,0,-467.725,-44.5524,-467.725 1/2:115:0,63,52:0:0:63,52:2224,1864:-333.489,-152.386,-133.421,-181.459,0,-165.805 2/2:181:0,0,181:0:0:0,181:0,6469:-582.295,-582.295,-582.295,-54.4864,-54.4864,0 1/2:231:0,103,128:0:0:103,128:3637,4558:-668.03,-371.853,-340.847,-296.531,0,-257.999 1/2:36:0,22,14:0:0:22,14:782,504:-105.206,-41.4837,-34.861,-64.0807,0,-59.8663 1/1:8:0,8,0:0:0:8,0:286,0:-26.0856,-2.40824,0,-26.0856,-2.40824,-26.0856 1/1:35:0,34,1:0:0:34,1:1203,36:-108.215,-10.235,0,-105.278,-6.93778,-104.977 1/1:155:0,155,0:0:0:155,0:5459,0:-491.445,-46.6597,0,-491.445,-46.6597,-491.445 1/2:124:0,64,55:0:0:64,55:2223,1971:-341.508,-160.792,-141.526,-180.753,0,-164.196 1/2:277:0,164,113:0:0:164,113:5746,4018:-795.334,-327.791,-278.422,-467.896,0,-433.88 1/2:125:0,59,66:0:0:59,66:2081,2364:-362.594,-193.15,-175.39,-169.798,0,-149.93 1/1:98:0,98,0:0:0:98,0:3436,0:-309.432,-29.5009,0,-309.432,-29.5009,-309.432 1/2:268:0,138,129:0:0:138,129:4878,4533:-766.227,-368.951,-327.408,-397.269,0,-358.436 1/2:99:0,64,35:0:0:64,35:2270,1236:-285.952,-101.008,-81.7423,-185.298,0,-174.762 1/1:144:0,142,1:0:0:142,1:4996,36:-449.428,-42.7463,0,-446.491,-39.8088,-446.19 1/1:92:0,90,1:0:0:90,1:3133,36:-281.875,-27.0927,0,-278.937,-24.1203,-278.636 chr03 23127243 . T C 15186.2 PASS AB=0.527715;ABP=11.7968;AC=13;AF=0.309524;AN=42;AO=850;CIGAR=1X;DP=2249;DPB=2249;DPRA=1.73652;EPP=1848.76;EPPR=3040.9;GTI=1;LEN=1;MEANALT=1;MQM=59.9871;MQMR=59.9671;NS=21;NUMALT=1;ODDS=3.15305;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30105;QR=50147;RO=1399;RPL=4;RPP=1814.18;RPPR=2912.01;RPR=846;RUN=1;SAF=4;SAP=1814.18;SAR=846;SRF=15;SRP=2912.01;SRR=1384;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:66,68:66:2372:68:2432:-178.798,0,-173.392 0/1:89:42,47:42:1504:47:1662:-123.074,0,-108.863 0/1:94:37,57:37:1332:57:2012:-153.054,0,-91.8856 0/0:103:103,0:103:3700:0:0:0,-31.0061,-333.201 0/0:194:191,3:191:6850:3:108:0,-48.3246,-606.487 0/0:80:80,0:80:2872:0:0:0,-24.0824,-258.716 0/1:202:91,111:91:3256:111:3890:-289.484,0,-232.453 1/1:146:0,146:0:0:146:5185:-466.791,-43.9504,0 0/1:179:82,97:82:2944:97:3448:-256.649,0,-211.308 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7137 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:19:18,1:18:644:1:36:0,-2.12129,-54.6923 0/0:129:128,1:128:4592:1:32:0,-35.6336,-410.244 0/1:133:65,68:65:2332:68:2403:-176.488,0,-170.103 0/1:198:83,115:83:2976:115:4090:-308.681,0,-208.468 0/1:87:38,49:38:1364:49:1718:-128.714,0,-96.8711 0/0:93:93,0:93:3319:0:0:0,-27.9958,-298.921 0/1:94:38,56:38:1364:56:1982:-150.356,0,-94.7639 0/1:98:74,24:74:2639:24:855:-47.7701,0,-208.256 0/0:101:97,4:97:3475:4:144:0,-17.0904,-299.647 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.056 chr03 23127249 . T G 26216 PASS AB=0.464865;ABP=16.896;AC=29;AF=0.690476;AN=42;AO=1352;CIGAR=1X;DP=2201;DPB=2201;DPRA=0.698639;EPP=2938.84;EPPR=1842.25;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9896;MQMR=59.9728;NS=21;NUMALT=1;ODDS=2.37242;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47561;QR=30340;RO=847;RPL=0;RPP=2938.84;RPPR=1842.25;RPR=1352;RUN=1;SAF=0;SAP=2938.84;SAR=1352;SRF=0;SRP=1842.25;SRR=847;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:66,62:66:2372:62:2178:-157.754,0,-175.206 0/1:85:45,38:45:1612:38:1335:-95.1042,0,-120.025 0/1:96:59,37:59:2120:37:1316:-89.8429,0,-162.17 1/1:93:0,93:0:0:93:3243:-292.094,-27.9958,0 1/1:186:3,183:3:108:183:6456:-571.057,-45.9164,0 1/1:80:0,80:0:0:80:2824:-254.399,-24.0824,0 0/1:200:114,86:114:4084:86:3008:-210.745,0,-307.522 0/0:147:147,0:147:5233:0:0:0,-44.2514,-471.109 0/1:174:96,78:96:3435:78:2742:-194.641,0,-256.984 0/1:9:3,6:3:108:6:190:-14.7015,0,-7.3659 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:20:1,19:1:36:19:680:-57.9309,-2.42233,0 1/1:125:0,125:0:0:125:4432:-399.053,-37.6288,0 0/1:129:65,64:65:2332:64:2255:-164.379,0,-171.307 0/1:197:116,81:116:4156:81:2861:-198.424,0,-314.92 0/1:88:48,40:48:1724:40:1419:-101.516,0,-128.952 1/1:90:0,90:0:0:90:3134:-282.289,-27.0927,0 0/1:94:56,38:56:2012:38:1348:-93.3234,0,-153.056 0/1:95:23,72:23:828:72:2488:-195.572,0,-46.2463 1/1:100:4,96:4:144:96:3395:-292.452,-16.7894,0 1/1:60:1,59:1:36:59:2077:-183.61,-14.4726,0 chr03 23142652 . TTT ATT,ATA 39050.2 PASS AB=0.5194,0.478836;ABP=6.71751,7.42218;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1221,666;CIGAR=1X2M,1X1M1X;DP=1891;DPB=1892;DPRA=0.801802,2.48702;EPP=2654.38,1449.21;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.9,2.13333;MQM=59.4439,44.5676;MQMR=0;NS=21;NUMALT=2;ODDS=6.49656;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=1;QA=43699,23374;QR=0;RO=0;RPL=1221,666;RPP=2654.38,1449.21;RPPR=0;RPR=0,0;RUN=1,1;SAF=1221,666;SAP=2654.38,1449.21;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:128:0,49,78:0:0:49,78:1734,2735:-360.472,-219.504,-204.753,-141.066,0,-117.586 1/2:30:0,26,4:0:0:26,4:925,136:-86.5128,-11.1431,-3.31633,-75.7063,0,-74.5022 1/2:113:0,72,41:0:0:72,41:2592,1439:-326.849,-115.383,-93.7087,-211.816,0,-199.474 1/1:47:0,47,0:0:0:47,0:1669,0:-150.436,-14.1484,0,-150.436,-14.1484,-150.436 1/1:166:0,162,3:0:0:162,3:5787,104:-520.106,-48.7669,0,-511.755,-40.3426,-510.852 1/1:68:0,67,0:0:0:67,0:2412,0:-216.891,-20.169,0,-216.891,-20.169,-216.891 1/2:137:0,53,84:0:0:53,84:1900,2936:-389.492,-234.549,-218.594,-155.295,0,-130.008 2/2:111:0,0,111:0:0:0,111:0,3898:-345.368,-345.368,-345.368,-33.4143,-33.4143,0 1/2:210:0,108,102:0:0:108,102:3868,3569:-600.731,-285.33,-252.819,-315.751,0,-285.046 1/2:23:0,16,7:0:0:16,7:576,244:-66.9031,-19.9111,-15.0946,-47.3408,0,-45.2336 1/1:14:0,14,0:0:0:14,0:504,0:-45.6981,-4.21442,0,-45.6981,-4.21442,-45.6981 1/1:16:0,16,0:0:0:16,0:576,0:-52.175,-4.81648,0,-52.175,-4.81648,-52.175 1/1:102:0,98,4:0:0:98,4:3512,142:-315.894,-29.5009,0,-304.488,-17.7436,-303.284 1/2:86:0,44,42:0:0:44,42:1576,1469:-245.566,-117.058,-103.813,-128.799,0,-116.156 1/2:162:0,77,85:0:0:77,85:2755,2967:-461.691,-237.102,-213.923,-224.939,0,-199.352 1/2:30:0,17,13:0:0:17,13:608,462:-87.0725,-37.4918,-32.3743,-49.9345,0,-46.0211 1/1:52:0,52,0:0:0:52,0:1860,0:-167.68,-15.6536,0,-167.68,-15.6536,-167.68 1/2:111:0,60,51:0:0:60,51:2160,1808:-320.689,-144.516,-126.454,-176.526,0,-161.173 1/2:104:0,67,36:0:0:67,36:2373,1285:-296.082,-102.811,-82.6419,-193.285,0,-182.448 1/1:116:0,111,5:0:0:111,5:3976,180:-357.55,-33.4143,0,-343.087,-18.7056,-341.582 1/1:65:0,65,0:0:0:65,0:2336,0:-210.377,-19.567,0,-210.377,-19.567,-210.377 chr03 23253715 . C T 19283.7 PASS AB=0.464924;ABP=18.5481;AC=13;AF=0.309524;AN=42;AO=833;CIGAR=1X;DP=2604;DPB=2604;DPRA=1.8346;EPP=1811.85;EPPR=3848.69;GTI=0;LEN=1;MEANALT=1;MQM=59.7947;MQMR=59.9678;NS=21;NUMALT=1;ODDS=12.4473;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29608;QR=62834;RO=1771;RPL=406;RPP=4.1599;RPPR=15.518;RPR=427;RUN=1;SAF=406;SAP=4.1599;SAR=427;SRF=835;SRP=15.518;SRR=936;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:72,63:72:2498:63:2234:-160.656,0,-184.428 0/1:36:18,18:18:640:18:644:-47.4535,0,-47.0922 0/1:149:77,72:77:2755:72:2555:-185.343,0,-203.338 0/0:144:143,1:143:5049:1:32:0,-40.149,-451.357 0/0:211:209,2:209:7404:2:72:0,-56.6806,-659.551 0/0:91:91,0:91:3228:0:0:0,-27.3937,-290.741 0/1:136:67,69:67:2391:69:2451:-179.819,0,-174.502 1/1:149:0,149:0:0:149:5332:-480.003,-44.8535,0 0/1:171:95,76:95:3362:76:2692:-189.942,0,-251.32 0/1:25:6,19:6:216:19:680:-54.0003,0,-12.2648 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/0:57:57,0:57:1993:0:0:0,-17.1587,-179.639 0/0:157:155,2:155:5518:2:72:0,-40.5616,-490.046 0/1:194:117,77:117:4179:77:2700:-184.845,0,-317.893 0/1:243:110,133:110:3948:133:4740:-353.607,0,-282.352 0/1:60:37,23:37:1324:23:807:-54.8874,0,-101.4 0/0:29:29,0:29:1031:0:0:0,-8.72987,-93.1026 0/1:145:71,74:71:2518:74:2629:-193.2,0,-183.218 0/1:160:108,52:108:3831:52:1860:-119.508,0,-296.825 0/0:190:190,0:190:6732:0:0:0,-57.1957,-605.959 0/0:110:107,3:107:3794:3:108:0,-23.0381,-331.585 chr03 23291192 . A G 27727.6 PASS AB=0.519558;ABP=6.91747;AC=29;AF=0.690476;AN=42;AO=1387;CIGAR=1X;DP=2164;DPB=2164;DPRA=0.507732;EPP=3014.84;EPPR=1685.9;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9986;MQMR=60;NS=21;NUMALT=1;ODDS=7.4773;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49376;QR=27648;RO=775;RPL=0;RPP=3014.84;RPPR=1685.9;RPR=1387;RUN=1;SAF=1387;SAP=3014.84;SAR=0;SRF=775;SRP=1685.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:94,89:94:3357:89:3172:-230.405,0,-247.045 0/1:146:64,82:64:2285:82:2929:-219.892,0,-161.96 0/1:62:24,38:24:860:38:1368:-104.757,0,-59.058 1/1:98:0,98:0:0:98:3502:-315.391,-29.5009,0 1/1:167:9,158:9:309:158:5599:-475.893,-22.1313,0 1/1:96:4,92:4:144:92:3244:-278.864,-15.5853,0 0/1:168:67,101:67:2389:101:3605:-274.082,0,-164.693 0/0:194:194,0:194:6908:0:0:0,-58.3998,-621.784 0/1:145:80,65:80:2861:65:2313:-164.78,0,-214.076 0/1:16:10,6:10:356:6:216:-14.974,0,-27.5648 1/1:17:0,17:0:0:17:604:-54.6906,-5.11751,0 1/1:40:0,40:0:0:40:1420:-128.095,-12.0412,0 1/1:115:1,114:1:36:114:4069:-362.798,-31.0202,0 0/1:103:45,58:45:1586:58:2054:-154.122,0,-112.02 0/1:146:74,72:74:2641:72:2582:-188.679,0,-193.985 0/1:75:43,32:43:1544:32:1148:-81.0526,0,-116.676 1/1:69:0,69:0:0:69:2431:-219.045,-20.7711,0 0/1:82:46,35:46:1652:35:1240:-87.1608,0,-124.225 0/1:49:16,33:16:576:33:1188:-92.4781,0,-37.4245 1/1:148:1,147:1:36:147:5250:-469.036,-40.9542,0 1/1:44:3,41:3:108:41:1442:-119.999,-3.17015,0 chr03 23311103 . C T 24093 PASS AB=0.504348;ABP=3.16136;AC=29;AF=0.690476;AN=42;AO=1162;CIGAR=1X;DP=1718;DPB=1718;DPRA=0.854211;EPP=2500.27;EPPR=1193.04;GTI=0;LEN=1;MEANALT=1;MQM=59.9966;MQMR=60;NS=21;NUMALT=1;ODDS=3.9455;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41661;QR=19870;RO=556;RPL=3;RPP=2500.27;RPPR=1193.04;RPR=1159;RUN=1;SAF=1162;SAP=2526.26;SAR=0;SRF=556;SRP=1210.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:58,58:58:2065:58:2080:-152.551,0,-151.2 0/1:70:35,35:35:1244:35:1242:-91.011,0,-91.1926 0/1:98:44,54:44:1580:54:1931:-144.565,0,-112.991 1/1:101:0,101:0:0:101:3612:-325.283,-30.404,0 1/1:271:3,268:3:108:268:9630:-856.572,-71.504,0 1/1:35:1,34:1:36:34:1224:-106.869,-6.93778,0 0/1:143:76,67:76:2713:67:2408:-173.929,0,-201.365 0/0:95:95,0:95:3407:0:0:0,-28.5978,-306.843 0/1:118:62,56:62:2220:56:2012:-145.832,0,-164.543 0/1:5:3,2:3:108:2:60:-4.19311,0,-8.57002 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:116:0,116:0:0:116:4148:-373.504,-34.9195,0 0/1:88:49,39:49:1734:39:1404:-100.169,0,-129.853 0/1:106:52,54:52:1855:54:1932:-142.247,0,-135.32 0/1:85:42,43:42:1504:43:1544:-113.666,0,-110.067 1/1:68:0,68:0:0:68:2434:-219.316,-20.47,0 0/1:53:23,30:23:828:30:1080:-81.5587,0,-58.8895 0/1:38:12,26:12:432:26:932:-72.7597,0,-27.7821 1/1:51:1,50:1:36:50:1792:-157.964,-11.7543,0 1/1:35:0,35:0:0:35:1260:-113.705,-10.5361,0 chr03 23370290 . GATTA GACTT,AACTT 56874.7 PASS AB=0.46307,0.535645;ABP=21.4546,20.1938;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1892,840;CIGAR=2M1X1M1X,1X1M1X1M1X;DP=2738;DPB=2738;DPRA=0,1.36512;EPP=4025.04,1827.05;EPPR=0;GTI=0;LEN=5,5;MEANALT=1.95238,2.21429;MQM=44.0365,59.3571;MQMR=0;NS=21;NUMALT=2;ODDS=2.75589;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67186,29768;QR=0;RO=0;RPL=10,840;RPP=4025.04,1827.05;RPPR=0;RPR=1882,0;RUN=1,1;SAF=0,0;SAP=4111.44,1827.05;SAR=1892,840;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:178:0,87,91:0:0:87,91:3082,3220:-508.388,-262.613,-236.424,-246.126,0,-218.732 1/2:126:0,37,89:0:0:37,89:1302,3142:-360.222,-256.105,-244.967,-104.465,0,-77.6729 1/2:151:0,73,78:0:0:73,78:2605,2777:-434.872,-226.519,-204.544,-208.706,0,-185.225 1/1:171:0,171,0:0:0:171,0:6071,0:-535.565,-51.4761,0,-535.565,-51.4761,-535.565 1/1:306:0,302,4:0:0:302,4:10689,139:-942.602,-90.9111,0,-931.313,-79.2746,-930.109 1/1:141:0,138,2:0:0:138,2:4908,72:-432.507,-41.5421,0,-426.632,-35.6098,-426.03 1/2:172:0,76,96:0:0:76,96:2697,3427:-494.681,-279.693,-256.815,-215.339,0,-186.44 1/2:154:0,69,85:0:0:69,85:2461,3011:-442.49,-245.565,-224.794,-197.277,0,-171.689 1/2:279:0,123,154:0:0:123,154:4364,5421:-787.827,-440.975,-403.948,-346.926,0,-300.567 1/2:5:0,3,2:0:0:3,2:106,63:-13.8855,-5.38109,-4.478,-8.83239,0,-8.23033 1/1:4:0,4,0:0:0:4,0:144,0:-13.0837,-1.20412,0,-13.0837,-1.20412,-13.0837 1/1:18:0,18,0:0:0:18,0:644,0:-57.3538,-5.41854,0,-57.3538,-5.41854,-57.3538 1/1:166:0,165,0:0:0:165,0:5902,0:-518.143,-49.67,0,-518.143,-49.67,-518.143 1/2:109:0,62,47:0:0:62,47:2178,1678:-310.632,-137.159,-118.495,-173.824,0,-159.676 1/2:213:0,106,107:0:0:106,107:3787,3796:-611.18,-309.505,-277.595,-302.028,0,-269.817 1/2:74:0,36,38:0:0:36,38:1280,1356:-212.08,-110.866,-100.029,-101.565,0,-90.126 1/1:62:0,61,0:0:0:61,0:2176,0:-192.61,-18.3628,0,-192.61,-18.3628,-192.61 1/2:46:0,16,30:0:0:16,30:576,1055:-132.28,-86.1757,-81.3592,-46.4573,0,-37.4264 1/2:50:0,33,17:0:0:33,17:1176,611:-143.224,-49.816,-39.882,-93.7615,0,-88.644 1/1:273:0,272,0:0:0:272,0:9624,0:-849.201,-81.8802,0,-849.201,-81.8802,-849.201 1/1:40:0,40,0:0:0:40,0:1414,0:-125.205,-12.0412,0,-125.205,-12.0412,-125.205 chr03 23370303 . A G 37494.1 PASS AB=0.474172;ABP=11.7595;AC=30;AF=0.714286;AN=42;AO=1883;CIGAR=1X;DP=2684;DPB=2684;DPRA=0;EPP=4091.89;EPPR=1740.19;GTI=0;LEN=1;MEANALT=1.04762;MQM=43.9761;MQMR=59.38;NS=21;NUMALT=1;ODDS=5.73253;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67384;QR=27977;RO=800;RPL=1883;RPP=4091.89;RPPR=1740.19;RPR=0;RUN=1;SAF=0;SAP=4091.89;SAR=1883;SRF=0;SRP=1740.19;SRR=800;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:171:85,86:85:2992:86:3076:-220.085,0,-218.019 0/1:123:86,37:86:3015:37:1328:-80.7524,0,-234.468 0/1:148:75,73:75:2644:73:2616:-187.01,0,-193.546 1/1:169:1,168:1:36:168:6040:-528.294,-47.2758,0 1/1:305:4,301:4:140:301:10771:-937.07,-78.8814,0 1/1:141:2,139:2:68:139:4968:-431.31,-35.9875,0 0/1:164:88,76:88:3072:76:2708:-189.801,0,-227.31 0/1:149:80,69:80:2805:69:2476:-174.44,0,-207.785 0/1:269:147,122:147:5098:122:4384:-303.959,0,-377.537 0/1:4:1,3:1:36:3:108:-8.69702,0,-2.39415 1/1:4:0,4:0:0:4:144:-13.0837,-1.20412,0 1/1:18:0,18:0:0:18:640:-57.0382,-5.41854,0 1/1:164:0,164:0:0:164:5892:-516.961,-49.3689,0 0/1:107:46,61:46:1624:61:2168:-159.52,0,-114.239 0/1:209:103,106:103:3586:106:3789:-270.402,0,-259.877 0/1:73:37,36:37:1296:36:1296:-91.6167,0,-94.9307 1/1:62:0,62:0:0:62:2220:-195.99,-18.6639,0 0/1:44:28,15:28:984:15:532:-34.136,0,-75.5227 0/1:49:17,32:17:581:32:1148:-86.4496,0,-37.8233 1/1:271:0,271:0:0:271:9648:-850.522,-81.5791,0 1/1:40:0,40:0:0:40:1432:-126.769,-12.0412,0 chr03 23387242 . TG GA,GG 30838.3 PASS AB=0.53462,0.46311;ABP=12.1818,13.424;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1091,412;CIGAR=2X,1X1M;DP=1505;DPB=1505;DPRA=0,1.54484;EPP=2363.41,897.657;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.7619,2.14286;MQM=46.2438,59.6335;MQMR=0;NS=21;NUMALT=2;ODDS=13.1647;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38470,14487;QR=0;RO=0;RPL=1,0;RPP=2363.41,897.657;RPPR=0;RPR=1090,412;RUN=1,1;SAF=0,0;SAP=2372.09,897.657;SAR=1091,412;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:61:0,24,37:0:0:24,37:841,1300:-173.617,-106.142,-98.9178,-67.8227,0,-56.6846 1/2:41:0,18,23:0:0:18,23:621,801:-115.507,-65.483,-60.0645,-50.3683,0,-43.4446 1/2:74:0,52,21:0:0:52,21:1838,743:-208.436,-60.5122,-44.8586,-147.917,0,-141.595 1/1:90:0,90,0:0:0:90,0:3151,0:-279.603,-27.0927,0,-279.603,-27.0927,-279.603 1/1:153:0,150,3:0:0:150,3:5300,108:-469.442,-45.1545,0,-460.63,-35.9824,-459.727 1/1:57:0,57,0:0:0:57,0:2001,0:-178.973,-17.1587,0,-178.973,-17.1587,-178.973 1/2:90:0,53,36:0:0:53,36:1852,1241:-250.143,-100.887,-84.9328,-149.348,0,-138.51 1/2:79:0,32,47:0:0:32,47:1144,1663:-227.129,-135.802,-126.169,-91.6785,0,-77.5301 1/2:74:0,34,40:0:0:34,40:1198,1415:-211.068,-115.601,-105.366,-95.8159,0,-83.7747 1/2:13:0,5,8:0:0:5,8:178,288:-38.2328,-23.8592,-22.354,-14.7292,0,-12.3209 1/1:9:0,9,0:0:0:9,0:324,0:-29.2742,-2.70927,0,-29.2742,-2.70927,-29.2742 1/1:38:0,38,0:0:0:38,0:1348,0:-120.585,-11.4391,0,-120.585,-11.4391,-120.585 1/1:85:0,85,0:0:0:85,0:3026,0:-269.116,-25.5876,0,-269.116,-25.5876,-269.116 1/2:110:0,71,39:0:0:71,39:2500,1395:-315.156,-113.919,-92.5454,-201.592,0,-189.852 1/2:114:0,63,51:0:0:63,51:2172,1767:-318.482,-143.954,-124.99,-174.872,0,-159.519 1/2:61:0,33,28:0:0:33,28:1157,985:-173.823,-80.5269,-70.5929,-93.6458,0,-85.2169 1/1:33:0,33,0:0:0:33,0:1179,0:-105.551,-9.93399,0,-105.551,-9.93399,-105.551 1/2:110:0,51,59:0:0:51,59:1786,2078:-313.05,-169.497,-154.144,-143.902,0,-126.141 1/2:54:0,35,19:0:0:35,19:1237,667:-154.249,-54.6344,-44.0984,-99.9652,0,-94.2456 1/1:103:0,102,1:0:0:102,1:3644,36:-323.791,-30.7051,0,-320.854,-27.4088,-320.553 1/1:56:0,56,0:0:0:56,0:1973,0:-176.403,-16.8577,0,-176.403,-16.8577,-176.403 chr03 23489147 . A G 32561.8 PASS AB=0.556044;ABP=40.2499;AC=30;AF=0.714286;AN=42;AO=1581;CIGAR=1X;DP=2190;DPB=2190;DPRA=0;EPP=3384.19;EPPR=1286.58;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9677;MQMR=59.9984;NS=21;NUMALT=1;ODDS=16.8607;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56497;QR=21568;RO=607;RPL=6;RPP=3384.19;RPPR=1286.58;RPR=1575;RUN=1;SAF=1581;SAP=3436.11;SAR=0;SRF=607;SRP=1321.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:36,37:36:1276:37:1298:-95.142,0,-93.1679 0/1:58:36,22:36:1292:22:779:-52.9723,0,-99.124 0/1:111:53,58:53:1876:58:2084:-154.416,0,-135.705 1/1:102:0,102:0:0:102:3652:-328.884,-30.7051,0 1/1:246:3,243:3:108:243:8708:-773.63,-63.9782,0 1/1:86:0,86:0:0:86:3065:-276.068,-25.8886,0 0/1:161:65,96:65:2308:96:3397:-257.472,0,-159.516 0/1:124:40,84:40:1428:84:3012:-233.983,0,-91.4898 0/1:136:63,73:63:2248:73:2612:-194.386,0,-161.643 0/1:25:12,13:12:428:13:468:-34.9339,0,-31.3331 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:53:0,53:0:0:53:1900:-171.278,-15.9546,0 1/1:95:0,95:0:0:95:3412:-307.293,-28.5979,0 0/1:113:50,62:50:1746:62:2191:-163.418,0,-123.384 0/1:175:77,98:77:2736:98:3524:-264.688,0,-193.804 0/1:60:28,32:28:977:32:1144:-85.2077,0,-70.1787 1/1:104:0,104:0:0:104:3711:-334.192,-31.3071,0 0/1:166:84,81:84:2993:81:2876:-209.046,0,-219.571 0/1:163:60,103:60:2152:103:3680:-282.336,0,-144.879 1/1:73:0,73:0:0:73:2616:-235.688,-21.9752,0 1/1:53:0,53:0:0:53:1900:-171.25,-15.9546,0 chr03 23489170 . G C 30777.7 PASS AB=0.556134;ABP=39.822;AC=30;AF=0.714286;AN=42;AO=1560;CIGAR=1X;DP=2160;DPB=2160;DPRA=0;EPP=3390.51;EPPR=1305.89;GTI=0;LEN=1;MEANALT=1;MQM=59.9686;MQMR=60;NS=21;NUMALT=1;ODDS=16.709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54528;QR=21278;RO=600;RPL=1559;RPP=3381.83;RPPR=1305.89;RPR=1;RUN=1;SAF=1559;SAP=3381.83;SAR=1;SRF=600;SRP=1305.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:35,38:35:1252:38:1336:-98.5628,0,-91.0099 0/1:56:36,20:36:1276:20:679:-44.5667,0,-98.2854 0/1:110:54,56:54:1909:56:1966:-144.098,0,-138.972 1/1:103:0,103:0:0:103:3623:-326.144,-31.0061,0 1/1:243:3,240:3:108:240:8440:-749.537,-63.0751,0 1/1:84:0,84:0:0:84:2906:-261.771,-25.2865,0 0/1:155:63,92:63:2247:92:3201:-241.654,0,-155.833 0/1:121:42,79:42:1488:79:2747:-211.047,0,-97.7871 0/1:134:60,74:60:2147:74:2604:-194.269,0,-153.159 0/1:26:12,14:12:424:14:500:-37.5094,0,-30.6696 1/1:13:0,13:0:0:13:457:-41.4626,-3.91339,0 1/1:53:0,53:0:0:53:1849:-166.688,-15.9546,0 1/1:94:0,94:0:0:94:3300:-297.218,-28.2968,0 0/1:111:50,61:50:1765:61:2153:-160.622,0,-125.717 0/1:170:73,97:73:2606:97:3380:-253.241,0,-183.612 0/1:58:27,31:27:964:31:1084:-80.4064,0,-69.6171 1/1:103:0,103:0:0:103:3634:-327.263,-31.0061,0 0/1:167:83,84:83:2885:84:2904:-211.323,0,-209.616 0/1:164:62,102:62:2207:102:3527:-268.274,0,-149.526 1/1:71:0,71:0:0:71:2476:-223.09,-21.3731,0 1/1:51:0,51:0:0:51:1762:-158.859,-15.3525,0 chr03 23539543 . T A 91800.8 PASS AB=0.482213;ABP=12.0481;AC=30;AF=0.714286;AN=42;AO=3534;CIGAR=1X;DP=5249;DPB=5249;DPRA=0;EPP=7676.99;EPPR=3709.72;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9445;MQMR=59.9807;NS=21;NUMALT=1;ODDS=8.28224;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=125441;QR=60899;RO=1711;RPL=1748;RPP=3.89757;RPPR=3.93549;RPR=1786;RUN=1;SAF=1748;SAP=3.89757;SAR=1786;SRF=868;SRP=3.8035;SRR=843;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:233:117,116:117:4176:116:4100:-299.048,0,-305.884 0/1:256:145,111:145:5192:111:3936:-277.372,0,-390.356 0/1:210:111,99:111:3957:99:3517:-253.525,0,-293.105 1/1:312:1,311:1:36:311:10973:-983.883,-90.3231,0 1/1:344:2,341:2:72:341:12070:-1078.7,-96.7764,0 1/1:452:0,450:0:0:450:16048:-1443.64,-135.464,0 0/1:328:181,147:181:6480:147:5247:-373.603,0,-484.547 0/1:325:186,139:186:6594:139:4957:-348.445,0,-495.71 0/1:486:258,228:258:9136:228:8092:-581.897,0,-675.83 0/1:27:10,17:10:356:17:594:-45.6578,0,-24.2534 1/1:8:0,8:0:0:8:280:-25.5393,-2.40824,0 1/1:125:1,124:1:36:124:4414:-393.829,-34.0305,0 1/1:199:0,199:0:0:199:7066:-635.997,-59.905,0 0/1:273:146,127:146:5173:127:4475:-320.722,0,-383.53 0/1:529:296,232:296:10581:232:8257:-583.833,0,-792.897 0/1:258:128,130:128:4519:130:4627:-338.93,0,-329.213 1/1:207:0,207:0:0:207:7343:-660.922,-62.3132,0 0/1:191:77,114:77:2723:114:4031:-305.465,0,-187.815 0/1:173:47,126:47:1688:126:4436:-347.334,0,-100.129 1/1:189:5,184:5:180:184:6542:-572.315,-40.3426,0 1/1:124:0,124:0:0:124:4436:-399.412,-37.3277,0 chr03 23597072 . A G 6928.47 PASS AB=0.493552;ABP=3.31833;AC=12;AF=0.285714;AN=42;AO=427;CIGAR=1X;DP=1777;DPB=1777;DPRA=2.95644;EPP=921.563;EPPR=2908.5;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=23.9622;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15164;QR=48346;RO=1350;RPL=1;RPP=921.563;RPPR=2908.5;RPR=426;RUN=1;SAF=427;SAP=930.229;SAR=0;SRF=1350;SRP=2934.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:39,53:39:1404:53:1882:-141.963,0,-98.9645 0/1:55:33,22:33:1168:22:754:-51.6175,0,-88.8706 0/1:67:36,31:36:1288:31:1097:-78.869,0,-96.0546 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 0/0:188:187,1:187:6663:1:36:0,-52.9954,-596.148 0/0:57:56,1:56:2001:1:36:0,-13.5604,-176.763 0/1:103:54,49:54:1921:49:1747:-126.507,0,-142.159 0/1:65:29,36:29:1044:36:1288:-96.6566,0,-74.7079 0/1:43:25,18:25:900:18:617:-42.9043,0,-68.3767 0/1:14:6,8:6:216:8:284:-21.6889,0,-15.5761 0/0:20:20,0:20:705:0:0:0,-6.0206,-63.7728 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/0:443:441,2:441:15812:2:72:0,-126.52,-1415.93 0/1:59:27,32:27:968:32:1132:-84.4278,0,-69.6766 0/1:127:68,59:68:2444:59:2108:-151.758,0,-181.984 0/1:46:15,31:15:540:31:1108:-86.1836,0,-35.0892 0/0:59:58,1:58:2084:1:36:0,-14.1625,-184.232 0/1:92:43,49:43:1544:49:1756:-130.629,0,-111.558 0/1:90:57,33:57:2048:33:1175:-78.9643,0,-157.499 0/0:46:45,1:45:1612:1:36:0,-10.2491,-141.772 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 chr03 23609825 . G T 27799.5 PASS AB=0.440421;ABP=49.8435;AC=30;AF=0.714286;AN=42;AO=1434;CIGAR=1X;DP=2291;DPB=2291;DPRA=0;EPP=3116.9;EPPR=1863.96;GTI=1;LEN=1;MEANALT=1;MQM=59.9017;MQMR=59.9988;NS=21;NUMALT=1;ODDS=5.22823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50836;QR=30375;RO=857;RPL=0;RPP=3116.9;RPPR=1863.96;RPR=1434;RUN=1;SAF=0;SAP=3116.9;SAR=1434;SRF=0;SRP=1863.96;SRR=857;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:76,54:76:2707:54:1920:-133.943,0,-204.74 0/1:130:79,51:79:2780:51:1816:-124.588,0,-211.305 0/1:108:75,33:75:2653:33:1169:-73.004,0,-206.502 1/1:76:0,76:0:0:76:2714:-244.502,-22.8783,0 1/1:212:4,208:4:140:208:7362:-649.648,-50.8738,0 1/1:46:1,45:1:36:45:1601:-140.78,-10.2491,0 0/1:186:102,84:102:3603:84:2984:-212.799,0,-268.486 0/1:187:97,90:97:3443:90:3179:-230.039,0,-253.79 0/1:258:155,103:155:5532:103:3675:-253.287,0,-420.339 0/1:28:10,18:10:356:18:644:-49.8408,0,-23.9524 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:157:1,156:1:36:156:5557:-496.654,-43.6634,0 0/1:121:75,46:75:2640:46:1614:-109.12,0,-201.419 0/1:106:50,56:50:1781:56:2008:-149.084,0,-128.662 0/1:111:64,47:64:2262:47:1675:-117.622,0,-170.425 1/1:69:0,69:0:0:69:2426:-218.583,-20.7711,0 0/1:69:41,28:41:1442:28:975:-67.2804,0,-109.303 0/1:85:26,59:26:932:59:2058:-159.899,0,-58.6113 1/1:121:1,120:1:32:120:4223:-377.006,-33.2253,0 1/1:65:0,65:0:0:65:2304:-207.535,-19.567,0 chr03 23609844 . C G 37017.3 PASS AB=0.439589;ABP=52.3345;AC=30;AF=0.714286;AN=42;AO=1462;CIGAR=1X;DP=2340;DPB=2340;DPRA=0;EPP=178.772;EPPR=60.9715;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9384;MQMR=59.9989;NS=21;NUMALT=1;ODDS=5.34767;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52153;QR=31431;RO=877;RPL=903;RPP=178.772;RPPR=60.9715;RPR=559;RUN=1;SAF=0;SAP=3177.7;SAR=1462;SRF=0;SRP=1907.39;SRR=877;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:78,55:78:2796:55:1954:-136.097,0,-211.843 0/1:132:80,52:80:2860:52:1852:-127.224,0,-217.902 0/1:113:78,35:78:2804:35:1256:-79.3289,0,-218.582 1/1:79:0,79:0:0:79:2802:-252.42,-23.7814,0 1/1:212:4,208:4:144:208:7443:-656.587,-50.5047,0 1/1:47:1,46:1:36:46:1648:-145.01,-10.5501,0 0/1:187:104,83:104:3720:83:2971:-211.33,0,-278.709 0/1:192:100,92:100:3600:92:3288:-238.342,0,-266.407 0/1:255:153,101:153:5472:101:3598:-247.35,0,-415.936 0/1:30:10,20:10:360:20:697:-54.0019,0,-23.7134 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 1/1:164:1,163:1:36:163:5824:-520.676,-45.7706,0 0/1:126:78,48:78:2792:48:1728:-117.876,0,-213.591 0/1:108:51,57:51:1819:57:2020:-149.559,0,-131.479 0/1:111:64,47:64:2300:47:1667:-116.902,0,-173.846 1/1:71:0,71:0:0:71:2530:-227.949,-21.3731,0 0/1:71:45,26:45:1612:26:936:-63.1165,0,-123.997 0/1:98:30,68:30:1080:68:2420:-188.556,0,-68.0123 1/1:121:0,121:0:0:121:4296:-386.817,-36.4246,0 1/1:63:0,63:0:0:63:2251:-202.663,-18.9649,0 chr03 23622368 . ATATG CTATG,CTATC 25975.3 PASS AB=0.552174,0.443478;ABP=19.3247,22.157;AC=30,12;AF=0.714286,0.285714;AN=42;AO=920,310;CIGAR=1X4M,1X3M1X;DP=1235;DPB=1235.2;DPRA=0,1.53795;EPP=2000.76,667.509;EPPR=7.35324;GTI=0;LEN=1,5;MEANALT=1.80952,2.07143;MQM=59.9337,59.9903;MQMR=48.5;NS=21;NUMALT=2;ODDS=12.1955;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=32785,11007;QR=58;RO=2;RPL=920,309;RPP=2000.76,667.509;RPPR=7.35324;RPR=0,1;RUN=1,1;SAF=920,310;SAP=2000.76,676.167;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:36:0,23,13:0:0:23,13:798,463:-102.954,-38.0937,-31.17,-65.2126,0,-61.2992 1/2:14:0,9,5:0:0:9,5:319,180:-40.9951,-15.0469,-12.3376,-26.3058,0,-24.8007 1/2:69:0,29,40:0:0:29,40:1040,1410:-199.984,-115.155,-106.425,-85.1845,0,-73.1433 1/1:64:0,64,0:0:0:64,0:2266,0:-204.195,-19.2659,0,-204.195,-19.2659,-204.195 1/1:131:0,130,1:0:0:130,1:4618,36:-415.367,-39.1339,0,-412.429,-35.8367,-412.128 1/1:33:0,32,0:0:0:32,0:1144,0:-102.91,-9.63296,0,-102.91,-9.63296,-102.91 1/2:83:0,49,34:0:0:49,34:1733,1215:-240.568,-99.4215,-84.671,-141.502,0,-131.267 1/2:49:0,23,26:0:0:23,26:820,924:-142.494,-75.6508,-68.7271,-67.1988,0,-59.372 1/2:103:1,46,56:1:22:46,56:1639,1984:-293.385,-160.091,-147.908,-132.065,0,-116.871 1/2:18:0,12,6:0:0:12,6:428,211:-52.4203,-17.5271,-13.9147,-35.2464,0,-33.4403 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:32:0,32,0:0:0:32,0:1152,0:-103.99,-9.63296,0,-103.99,-9.63296,-103.99 1/1:105:0,104,0:0:0:104,0:3728,0:-335.4,-31.3071,0,-335.4,-31.3071,-335.4 1/2:90:0,54,35:0:0:54,35:1924,1246:-258.414,-101.588,-85.3323,-156.861,0,-146.325 1/2:83:1,51,31:1:36:51,31:1828,1108:-236.19,-87.4019,-74.9869,-146.15,0,-139.755 1/2:14:0,7,7:0:0:7,7:252,239:-40.3063,-19.736,-17.6288,-20.9208,0,-18.8136 1/1:20:0,20,0:0:0:20,0:712,0:-64.4067,-6.0206,0,-64.4067,-6.0206,-64.4067 1/2:78:0,41,37:0:0:41,37:1464,1309:-226.332,-106.974,-94.6316,-119.714,0,-108.576 1/2:53:0,37,16:0:0:37,16:1328,574:-155.503,-47.1779,-36.0398,-108.684,0,-103.868 1/1:111:0,108,3:0:0:108,3:3844,108:-345.796,-32.5112,0,-336.983,-23.3392,-336.08 1/1:43:0,43,0:0:0:43,0:1532,0:-138.085,-12.9443,0,-138.085,-12.9443,-138.085 chr03 23622374 . A G 18509.7 PASS AB=0.555721;ABP=21.1597;AC=30;AF=0.714286;AN=42;AO=904;CIGAR=1X;DP=1207;DPB=1207;DPRA=0;EPP=1966.02;EPPR=660.966;GTI=0;LEN=1;MEANALT=1;MQM=59.9115;MQMR=59.9901;NS=21;NUMALT=1;ODDS=12.0998;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32174;QR=10884;RO=303;RPL=904;RPP=1966.02;RPPR=660.966;RPR=0;RUN=1;SAF=904;SAP=1966.02;SAR=0;SRF=303;SRP=660.966;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:35:13,22:13:464:22:779:-59.896,0,-31.5615 0/1:14:5,9:5:180:9:320:-24.8826,0,-12.3376 0/1:68:39,29:39:1404:29:1035:-72.993,0,-106.188 1/1:59:0,59:0:0:59:2088:-188.17,-17.7608,0 1/1:132:1,131:1:36:131:4682:-417.942,-36.1377,0 1/1:33:0,33:0:0:33:1180:-106.508,-9.93399,0 0/1:80:33,47:33:1184:47:1679:-127.314,0,-82.7859 0/1:48:26,22:26:936:22:788:-56.7954,0,-70.11 0/1:100:54,46:54:1940:46:1623:-116.24,0,-144.773 0/1:17:6,11:6:216:11:396:-30.8652,0,-14.673 1/1:6:0,6:0:0:6:207:-18.9669,-1.80618,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:103:0,103:0:0:103:3696:-332.842,-31.0061,0 0/1:88:33,55:33:1188:55:1956:-149.825,0,-80.738 0/1:83:31,52:31:1116:52:1856:-142.333,0,-75.7662 0/1:12:6,6:6:216:6:207:-15.3536,0,-16.1782 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 0/1:77:37,40:37:1324:40:1420:-104.918,0,-96.2828 0/1:51:16,35:16:572:35:1243:-96.8213,0,-36.4609 1/1:108:3,105:3:108:105:3719:-324.835,-22.4361,0 1/1:42:0,42:0:0:42:1472:-132.701,-12.6433,0 chr03 23622469 . G A 6764.63 PASS AB=0.501241;ABP=3.02108;AC=10;AF=0.238095;AN=42;AO=412;CIGAR=1X;DP=1431;DPB=1431;DPRA=1.61399;EPP=897.657;EPPR=2215.74;GTI=0;LEN=1;MEANALT=1;MQM=59.801;MQMR=59.9764;NS=21;NUMALT=1;ODDS=0.57943;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14754;QR=36399;RO=1019;RPL=412;RPP=897.657;RPPR=2215.74;RPR=0;RUN=1;SAF=0;SAP=897.657;SAR=412;SRF=0;SRP=2215.74;SRR=1019;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:36,53:36:1296:53:1896:-144.117,0,-90.1523 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:88:60,28:60:2148:28:1000:-63.8183,0,-167.097 0/0:111:111,0:111:3956:0:0:0,-33.4143,-356.23 0/0:87:80,7:80:2860:7:252:0,-3.16065,-234.609 0/0:69:69,0:69:2471:0:0:0,-20.7711,-222.643 0/0:40:40,0:40:1411:0:0:0,-12.0412,-127.287 0/1:119:51,68:51:1824:68:2421:-182.314,0,-128.619 0/1:137:60,77:60:2152:77:2772:-208.387,0,-152.706 0/1:21:9,12:9:320:12:432:-32.8996,0,-22.8207 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/0:131:131,0:131:4657:0:0:0,-39.4349,-419.289 0/1:146:71,75:71:2527:75:2677:-197.214,0,-183.731 0/1:88:41,47:41:1476:47:1688:-125.716,0,-106.646 0/1:35:19,16:19:684:16:576:-41.6389,0,-51.3543 0/0:24:24,0:24:855:0:0:0,-7.22472,-77.1838 0/1:48:32,16:32:1152:16:572:-37.3594,0,-89.5407 0/1:35:23,12:23:828:12:432:-28.6851,0,-64.3081 0/0:84:83,1:83:2967:1:36:0,-21.6882,-263.664 0/0:37:37,0:37:1315:0:0:0,-11.1381,-118.651 chr03 23622481 . A G 6910.12 PASS AB=0.506782;ABP=3.33428;AC=10;AF=0.238095;AN=42;AO=419;CIGAR=1X;DP=1422;DPB=1422;DPRA=1.64126;EPP=912.857;EPPR=2178.83;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.7184;MQMR=59.976;NS=21;NUMALT=1;ODDS=0.627469;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15014;QR=35820;RO=1002;RPL=419;RPP=912.857;RPPR=2178.83;RPR=0;RUN=1;SAF=0;SAP=912.857;SAR=419;SRF=0;SRP=2178.83;SRR=1002;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:36,55:36:1280:55:1963:-149.414,0,-88.1095 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:88:60,28:60:2145:28:1008:-64.5365,0,-166.825 0/0:109:109,0:109:3893:0:0:0,-32.8123,-350.563 0/0:85:78,7:78:2788:7:252:0,-2.55859,-228.132 0/0:69:69,0:69:2472:0:0:0,-20.7711,-222.734 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/1:120:51,69:51:1832:69:2469:-186.33,0,-129.037 0/1:140:61,79:61:2192:79:2831:-212.784,0,-155.401 0/1:21:9,12:9:324:12:432:-32.8996,0,-23.1842 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/0:128:128,0:128:4569:0:0:0,-38.5318,-411.371 0/1:148:70,78:70:2516:78:2796:-207.318,0,-182.139 0/1:88:41,47:41:1472:47:1692:-126.076,0,-106.285 0/1:35:19,16:19:684:16:572:-41.2774,0,-51.3543 0/0:25:25,0:25:885:0:0:0,-7.52575,-79.8801 0/1:47:31,15:31:1097:15:540:-34.7247,0,-84.831 0/1:33:21,12:21:737:12:423:-28.4711,0,-56.7166 0/0:80:79,1:79:2821:1:36:0,-20.4841,-250.529 0/0:35:35,0:35:1241:0:0:0,-10.536,-111.993 chr03 23636092 . CATTTTTTTTTTCAAC GATTTTTTTCAAC,CATTTTTTTCAAC 33350.3 PASS AB=0.546914,0.438272;ABP=18.4948,29.8186;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1349,365;CIGAR=1X1M3D11M,2M3D11M;DP=1734;DPB=1410.12;DPRA=0,2.19898;EPP=2932.33,795.598;EPPR=0;GTI=0;LEN=13,3;MEANALT=2.42857,3.33333;MQM=38.2246,51.4384;MQMR=0;NS=21;NUMALT=2;ODDS=15.446;PAIRED=0,0;PAIREDR=0;PAO=26,1;PQA=823,34;PQR=34;PRO=1;QA=47283,12616;QR=0;RO=0;RPL=1349,365;RPP=2932.33,795.598;RPPR=0;RPR=0,0;RUN=1,1;SAF=1349,365;SAP=2932.33,795.598;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:157:0,95,58:0:0:95,58:3339,2016:-418.039,-163.441,-134.843,-254.64,0,-237.18 1/1:45:0,45,0:0:0:45,0:1560,0:-134.371,-13.5464,0,-134.371,-13.5464,-134.371 1/2:36:0,21,15:0:0:21,15:747,513:-98.6601,-41.7915,-35.4699,-57.1518,0,-52.6363 1/1:73:0,73,0:0:0:73,0:2582,0:-219.167,-21.9752,0,-219.167,-21.9752,-219.167 1/1:248:0,235,9:0:0:235,9:8249,320:-700.02,-70.7421,0,-674.028,-44.7295,-671.319 1/1:85:0,85,0:0:0:85,0:2969,0:-255.246,-25.5876,0,-255.246,-25.5876,-255.246 1/1:65:0,65,0:0:0:65,0:2312,0:-198.293,-19.567,0,-198.293,-19.567,-198.293 1/2:103:0,49,53:0:0:49,53:1730,1859:-282.91,-150.756,-136.005,-132.175,0,-116.22 1/2:141:0,71,69:0:0:71,69:2494,2407:-389.133,-194.893,-173.52,-194.236,0,-173.464 1/2:12:0,6,6:0:0:6,6:214,203:-33.1567,-16.7574,-14.9513,-16.7366,0,-14.9304 1/1:7:0,7,0:0:0:7,0:237,0:-20.7433,-2.10721,0,-20.7433,-2.10721,-20.7433 1/1:31:0,31,0:0:0:31,0:1077,0:-92.3233,-9.33193,0,-92.3233,-9.33193,-92.3233 1/1:235:0,232,1:0:0:232,1:8139,32:-690.422,-69.839,0,-687.848,-67.2643,-687.547 1/2:100:0,48,50:0:0:48,50:1688,1724:-268.555,-139.698,-125.248,-128.917,0,-113.866 1/2:82:0,43,38:0:0:43,38:1492,1305:-219.212,-105.363,-92.4185,-113.836,0,-102.397 1/2:44:0,29,14:0:0:29,14:1007,492:-118.079,-39.8476,-31.1178,-78.2305,0,-74.0161 1/1:63:0,62,0:0:0:62,0:2176,0:-188.323,-18.6639,0,-188.323,-18.6639,-188.323 1/2:62:0,31,30:0:0:31,30:1062,1006:-162.032,-81.1293,-71.7973,-80.9919,0,-71.961 1/2:73:0,50,22:0:0:50,22:1721,739:-191.615,-59.6368,-44.5853,-131.984,0,-125.362 1/1:41:0,41,0:0:0:41,0:1451,0:-124.045,-12.3422,0,-124.045,-12.3422,-124.045 1/1:31:0,30,0:0:0:30,0:1037,0:-89.0101,-9.0309,0,-89.0101,-9.0309,-89.0101 chr03 23646263 . TCT ACA,ATT 50505.3 PASS AB=0.549629,0.445645;ABP=34.6939,41.0162;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1748,667;CIGAR=1X1M1X,2X1M;DP=2429;DPB=2429;DPRA=0,2.02294;EPP=3798.74,1451.38;EPPR=0;GTI=0;LEN=3,2;MEANALT=2.28571,2.66667;MQM=59.5755,59.9235;MQMR=0;NS=21;NUMALT=2;ODDS=4.90904;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61355,23699;QR=0;RO=0;RPL=5,6;RPP=3755.44,1399.74;RPPR=0;RPR=1743,661;RUN=1,1;SAF=5,6;SAP=3755.44,1399.74;SAR=1743,661;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,34,30:0:0:34,30:1202,1078:-185.837,-87.9425,-77.7074,-97.8911,0,-88.8602 1/2:172:0,89,83:0:0:89,83:3119,2944:-493.834,-240.207,-213.415,-253.979,0,-228.994 1/2:109:0,72,37:0:0:72,37:2489,1310:-309.201,-107.061,-85.387,-202.491,0,-191.353 1/1:153:0,152,1:0:0:152,1:5335,28:-479.798,-45.7566,0,-477.58,-43.2579,-477.279 1/1:260:0,254,4:0:0:254,4:8922,142:-802.521,-76.4616,0,-790.951,-64.8946,-789.747 1/1:126:0,123,0:0:0:123,0:4299,0:-386.462,-37.0267,0,-386.462,-37.0267,-386.462 1/2:187:0,114,73:0:0:114,73:4006,2620:-540.073,-214.064,-179.747,-326.364,0,-304.389 1/2:127:0,74,53:0:0:74,53:2623,1881:-367.279,-153.598,-131.322,-214.036,0,-198.081 1/2:172:0,105,67:0:0:105,67:3709,2359:-494.359,-192.312,-160.703,-302.4,0,-282.23 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:10:0,10,0:0:0:10,0:350,0:-31.8316,-3.0103,0,-31.8316,-3.0103,-31.8316 1/1:114:0,113,0:0:0:113,0:3922,0:-352.603,-34.0164,0,-352.603,-34.0164,-352.603 1/2:109:0,53,53:0:0:53,53:1859,1906:-306.72,-155.532,-139.577,-151.212,0,-135.257 1/2:171:0,74,96:0:0:74,96:2644,3390:-491.707,-276.136,-253.859,-215.645,0,-186.746 1/2:109:0,53,55:0:0:53,55:1887,1948:-312.623,-158.826,-142.871,-153.938,0,-137.382 1/1:63:0,63,0:0:0:63,0:2157,0:-194.388,-18.9649,0,-194.388,-18.9649,-194.388 1/2:140:0,70,69:0:0:70,69:2486,2444:-401.636,-199.082,-178.01,-202.549,0,-181.778 1/2:114:0,72,42:0:0:72,42:2522,1510:-328.721,-123.551,-101.877,-205.525,0,-192.882 1/1:134:0,131,2:0:0:131,2:4600,67:-413.767,-39.4349,0,-408.342,-33.9273,-407.74 1/1:83:0,83,0:0:0:83,0:2900,0:-261.213,-24.9855,0,-261.213,-24.9855,-261.213 chr03 23646296 . CC GT,GC 50465.3 PASS AB=0.552505,0.445436;ABP=37.8984,40.6884;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1744,657;CIGAR=2X,1X1M;DP=2405;DPB=2405;DPRA=0,1.9871;EPP=3790.06,1429.67;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.90476,2.26667;MQM=59.5585,59.9498;MQMR=0;NS=21;NUMALT=2;ODDS=4.06766;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61981,23481;QR=0;RO=0;RPL=1744,657;RPP=3790.06,1429.67;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3790.06,1429.67;SAR=1744,657;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:61:0,31,30:0:0:31,30:1084,1076:-176.302,-88.122,-78.79,-88.5342,0,-79.5033 1/2:166:0,87,79:0:0:87,79:3092,2820:-482.046,-230.258,-204.069,-252.144,0,-228.363 1/2:109:0,72,36:0:0:72,36:2556,1288:-313.278,-105.046,-83.372,-208.248,0,-197.411 1/1:150:0,148,1:0:0:148,1:5251,36:-472.174,-44.5524,0,-469.237,-41.5751,-468.936 1/1:261:0,256,5:0:0:256,5:9068,180:-815.537,-77.0637,0,-800.849,-62.0168,-799.344 1/1:127:0,127,0:0:0:127,0:4480,0:-402.813,-38.2308,0,-402.813,-38.2308,-402.813 1/2:185:0,113,71:0:0:113,71:4045,2528:-535.887,-206.109,-172.093,-329.853,0,-308.479 1/2:125:0,73,51:0:0:73,51:2589,1824:-359.569,-148.643,-126.667,-210.923,0,-195.571 1/2:172:0,105,67:0:0:105,67:3761,2381:-501.095,-194.379,-162.771,-307.073,0,-286.904 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:10:0,10,0:0:0:10,0:360,0:-32.7397,-3.0103,0,-32.7397,-3.0103,-32.7397 1/1:116:0,116,0:0:0:116,0:4097,0:-368.836,-34.9195,0,-368.836,-34.9195,-368.836 1/2:108:0,55,53:0:0:55,53:1961,1896:-314.72,-154.963,-138.407,-160.114,0,-144.159 1/2:169:0,74,95:0:0:74,95:2660,3400:-494.622,-277.617,-255.341,-217.363,0,-188.765 1/2:106:0,52,54:0:0:52,54:1853,1920:-307.86,-156.822,-141.168,-151.394,0,-135.139 1/1:62:0,62,0:0:0:62,0:2174,0:-195.923,-18.6639,0,-195.923,-18.6639,-195.923 1/2:137:0,69,68:0:0:69,68:2480,2440:-401.692,-199.385,-178.613,-202.667,0,-182.197 1/2:113:0,70,43:0:0:70,43:2496,1548:-330.089,-126.669,-105.597,-203.779,0,-190.835 1/1:134:0,132,2:0:0:132,2:4690,72:-421.774,-39.736,0,-415.904,-33.5061,-415.301 1/1:83:0,83,0:0:0:83,0:2960,0:-266.613,-24.9855,0,-266.613,-24.9855,-266.613 chr03 23646340 . GG AT,GT 81421.2 PASS AB=0.533188,0.466268;ABP=20.5947,21.176;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2188,865;CIGAR=2X,1M1X;DP=3056;DPB=3056;DPRA=0,1.31165;EPP=147.832,44.7854;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.90476,2.125;MQM=59.9872,59.9861;MQMR=0;NS=21;NUMALT=2;ODDS=21.347;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77066,30713;QR=0;RO=0;RPL=903,368;RPP=147.832,44.7854;RPPR=0;RPR=1285,497;RUN=1,1;SAF=2188,865;SAP=4754.19,1881.33;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:211:0,113,98:0:0:113,98:4013,3493:-612.062,-285.08,-251.064,-327.338,0,-297.837 1/2:115:0,56,59:0:0:56,59:1981,2112:-333.939,-172.588,-155.731,-161.706,0,-143.945 1/2:157:0,74,83:0:0:74,83:2622,2924:-452.007,-238.408,-216.132,-213.952,0,-188.966 1/1:127:0,126,1:0:0:126,1:4389,36:-394.827,-37.9298,0,-391.89,-34.6325,-391.589 1/1:312:0,312,0:0:0:312,0:11060,0:-995.298,-93.9214,0,-995.298,-93.9214,-995.298 1/1:157:0,153,4:0:0:153,4:5377,140:-483.712,-46.0576,0,-472.321,-34.3171,-471.117 1/2:190:0,88,102:0:0:88,102:3099,3639:-549.303,-297.01,-270.519,-252.647,0,-221.942 1/2:184:0,101,83:0:0:101,83:3595,2940:-532.849,-239.85,-209.446,-293.354,0,-268.368 1/2:286:0,155,131:0:0:155,131:5484,4657:-826.535,-379.859,-333.199,-447.03,0,-407.595 1/2:26:0,18,7:0:0:18,7:631,252:-72.0077,-20.6581,-15.2396,-51.4419,0,-49.3346 1/1:19:0,19,0:0:0:19,0:684,0:-61.8903,-5.71957,0,-61.8903,-5.71957,-61.8903 1/1:70:0,69,0:0:0:69,0:2438,0:-219.423,-20.7711,0,-219.423,-20.7711,-219.423 1/1:167:0,165,1:0:0:165,1:5749,36:-517.237,-49.67,0,-514.3,-46.6676,-513.999 1/2:111:0,64,47:0:0:64,47:2180,1658:-312.206,-135.359,-116.093,-177.194,0,-163.046 1/2:201:0,104,97:0:0:104,97:3657,3472:-581.162,-283.487,-252.18,-298.029,0,-268.829 1/2:96:0,54,42:0:0:54,42:1901,1508:-278.125,-123.371,-107.116,-155.109,0,-142.466 1/1:119:0,119,0:0:0:119,0:4188,0:-377.103,-35.8226,0,-377.103,-35.8226,-377.103 1/2:163:0,77,86:0:0:77,86:2715,3018:-467.02,-245.959,-222.78,-221.413,0,-195.524 1/2:98:0,76,22:0:0:76,22:2672,765:-280.042,-62.5451,-39.6668,-217.845,0,-211.222 1/1:179:0,177,2:0:0:177,2:6259,63:-563.094,-53.2823,0,-558.028,-47.9012,-557.426 1/1:68:0,68,0:0:0:68,0:2372,0:-213.734,-20.47,0,-213.734,-20.47,-213.734 chr03 23678245 . C G 10368.5 PASS AB=0.497845;ABP=3.04774;AC=12;AF=0.285714;AN=42;AO=465;CIGAR=1X;DP=1486;DPB=1486;DPRA=1.57542;EPP=1012.74;EPPR=2211.41;GTI=0;LEN=1;MEANALT=1;MQM=59.8774;MQMR=60;NS=21;NUMALT=1;ODDS=5.77612;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16513;QR=36328;RO=1021;RPL=245;RPP=5.92895;RPPR=97.698;RPR=220;RUN=1;SAF=245;SAP=5.92895;SAR=220;SRF=404;SRP=99.5015;SRR=617;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:38,33:38:1335:33:1165:-83.7819,0,-99.0732 0/1:57:23,34:23:819:34:1196:-90.7839,0,-56.8729 0/1:31:15,16:15:540:16:576:-42.8407,0,-39.6046 0/0:65:65,0:65:2307:0:0:0,-19.5669,-207.891 0/0:140:139,1:139:4959:1:36:0,-38.5459,-442.862 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 0/1:104:50,54:50:1777:54:1924:-142.127,0,-128.904 0/1:70:21,49:21:748:49:1738:-135.629,0,-46.5732 0/1:79:37,42:37:1328:42:1475:-109.259,0,-96.0409 0/1:5:2,3:2:72:3:104:-8.19766,0,-5.33157 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 0/0:67:67,0:67:2363:0:0:0,-20.169,-212.926 0/1:51:28,23:28:985:23:815:-58.3155,0,-73.609 0/1:142:62,80:62:2220:80:2856:-214.304,0,-157.318 0/1:42:20,22:20:720:22:788:-58.6015,0,-52.4855 0/0:39:39,0:39:1373:0:0:0,-11.7402,-123.867 0/1:159:90,69:90:3200:69:2475:-175.134,0,-240.358 0/1:117:80,37:80:2849:37:1293:-81.4462,0,-221.426 0/0:60:58,2:58:2063:2:72:0,-11.2251,-179.104 0/0:93:93,0:93:3302:0:0:0,-27.9958,-297.397 chr03 23678263 . C A 10276.2 PASS AB=0.494054;ABP=3.29435;AC=12;AF=0.285714;AN=42;AO=460;CIGAR=1X;DP=1471;DPB=1471;DPRA=1.61351;EPP=6.20142;EPPR=94.4276;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.7935;MQMR=60;NS=21;NUMALT=1;ODDS=5.73561;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16383;QR=35496;RO=1008;RPL=460;RPP=1001.89;RPPR=2183.18;RPR=0;RUN=1;SAF=243;SAP=6.20142;SAR=217;SRF=400;SRP=96.2113;SRR=608;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:39,33:39:1372:33:1181:-84.924,0,-102.102 0/1:59:24,35:24:843:35:1247:-94.7732,0,-58.4272 0/1:30:14,16:14:500:16:563:-41.9659,0,-36.3053 0/0:62:62,0:62:2204:0:0:0,-18.6639,-198.626 0/0:136:135,1:135:4712:1:36:0,-37.3418,-420.647 0/0:53:53,0:53:1868:0:0:0,-15.9546,-168.399 0/1:106:52,54:52:1843:54:1928:-141.886,0,-134.24 0/1:69:21,48:21:744:48:1704:-132.873,0,-46.5133 0/1:74:38,36:38:1353:36:1296:-94.6677,0,-99.7922 0/1:5:2,3:2:72:3:104:-8.19766,0,-5.33157 0/0:8:8,0:8:280:0:0:0,-2.40824,-25.5393 0/0:31:31,0:31:1092:0:0:0,-9.33193,-98.5896 0/0:61:61,0:61:2172:0:0:0,-18.3628,-195.747 0/1:50:27,23:27:919:23:815:-58.6168,0,-67.9657 0/1:140:59,80:59:2056:80:2842:-213.798,0,-143.107 0/1:43:21,22:21:737:22:784:-57.9396,0,-53.7063 0/0:40:40,0:40:1407:0:0:0,-12.0412,-126.926 0/1:162:91,71:91:3219:71:2523:-178.547,0,-241.168 0/1:115:79,36:79:2812:36:1288:-81.5684,0,-218.702 0/0:62:60,2:60:2089:2:72:0,-11.8271,-181.44 0/0:93:91,0:91:3202:0:0:0,-27.3937,-288.044 chr03 23692634 . ACAAAAGAC ATAAAGAC,ACAAAGAC 27050.1 PASS AB=0.47079,0.519759;ABP=11.6365,6.95775;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1276,618;CIGAR=1M1D1X6M,2M1D6M;DP=1906;DPB=1694.11;DPRA=0,1.72731;EPP=2773.81,1344.98;EPPR=0;GTI=0;LEN=8,1;MEANALT=2.19048,2.5625;MQM=27.7524,54.0113;MQMR=0;NS=21;NUMALT=2;ODDS=2.13306;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35368,21997;QR=0;RO=0;RPL=1276,618;RPP=2773.81,1344.98;RPPR=0;RPR=0,0;RUN=1,1;SAF=1276,618;SAP=2773.81,1344.98;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:0,46,35:0:0:46,35:1283,1251:-190.57,-101.452,-87.6051,-89.1345,0,-78.5985 1/2:104:0,43,61:0:0:43,61:1201,2162:-259.87,-176.404,-163.46,-83.7587,0,-65.3959 1/2:80:0,42,37:0:0:42,37:1174,1332:-189.889,-108.295,-95.6522,-81.5481,0,-70.4099 1/1:122:0,122,0:0:0:122,0:3403,0:-273.505,-36.7257,0,-273.505,-36.7257,-273.505 1/1:209:0,200,9:0:0:200,9:5577,324:-447.903,-60.206,0,-421.557,-33.5061,-418.848 1/1:78:0,78,0:0:0:78,0:2190,0:-176.322,-23.4803,0,-176.322,-23.4803,-176.322 1/2:135:0,57,73:0:0:57,73:1558,2607:-320.169,-212.376,-195.217,-107.741,0,-85.7653 1/2:95:0,39,56:0:0:39,56:1048,1992:-234.66,-162.678,-150.938,-72.2686,0,-55.411 1/2:190:0,85,105:0:0:85,105:2369,3739:-467.846,-303.271,-277.684,-164.87,0,-133.262 1/2:9:0,2,7:0:0:2,7:54,252:-24.612,-20.9217,-20.3197,-3.95681,0,-1.8496 1/1:7:0,7,0:0:0:7,0:192,0:-15.6304,-2.10721,0,-15.6304,-2.10721,-15.6304 1/1:23:0,23,0:0:0:23,0:616,0:-49.4562,-6.92369,0,-49.4562,-6.92369,-49.4562 1/1:114:0,113,1:0:0:113,1:3158,36:-253.533,-34.0164,0,-250.605,-30.7309,-250.304 1/2:88:0,36,52:0:0:36,52:1000,1864:-221.024,-151.647,-140.81,-69.6694,0,-54.0158 1/2:186:0,86,99:0:0:86,99:2385,3518:-450.925,-285.085,-259.196,-165.804,0,-136.002 1/2:63:0,42,19:0:0:42,19:1162,645:-132.838,-51.9233,-39.2801,-80.9283,0,-75.2087 1/1:62:0,62,0:0:0:62,0:1724,0:-138.631,-18.6639,0,-138.631,-18.6639,-138.631 1/2:79:0,33,46:0:0:33,46:881,1644:-194.632,-134.252,-124.318,-60.6666,0,-46.8192 1/2:52:0,37,15:0:0:37,15:1027,532:-114.538,-43.3321,-32.194,-71.5277,0,-67.0122 1/1:83:0,80,2:0:0:80,2:2162,63:-172.89,-24.0824,0,-167.822,-18.9662,-167.22 1/1:44:0,43,1:0:0:43,1:1204,36:-96.6301,-12.9443,0,-93.8199,-9.79083,-93.5189 chr03 23692646 . G C 15741.8 PASS AB=0.468085;ABP=13.4056;AC=30;AF=0.714286;AN=42;AO=1290;CIGAR=1X;DP=1927;DPB=1927;DPRA=0;EPP=2804.21;EPPR=1384.07;GTI=0;LEN=1;MEANALT=1.04762;MQM=27.7752;MQMR=53.8302;NS=21;NUMALT=1;ODDS=0.542423;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45976;QR=22693;RO=636;RPL=1290;RPP=2804.21;RPPR=1384.07;RPR=0;RUN=1;SAF=1290;SAP=2804.21;SAR=0;SRF=636;SRP=1384.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:40,48:40:1432:48:1704:-90.9154,0,-101.324 0/1:102:60,42:60:2141:42:1500:-72.5332,0,-162.176 0/1:78:37,41:37:1324:41:1472:-77.5254,0,-95.5663 1/1:122:0,122:0:0:122:4323:-297.816,-36.7257,0 1/1:214:9,205:9:324:205:7302:-472.267,-35.0113,0 1/1:79:0,79:0:0:79:2809:-194.233,-23.7814,0 0/1:138:78,60:78:2781:60:2109:-101.991,0,-208.63 0/1:96:58,38:58:2069:38:1355:-61.2338,0,-157.534 0/1:195:109,86:109:3886:86:3064:-151.65,0,-289.294 0/1:9:7,2:7:248:2:72:-2.32307,0,-19.9549 1/1:6:0,6:0:0:6:216:-15.0491,-1.80618,0 1/1:23:0,23:0:0:23:824:-54.5977,-6.92369,0 1/1:117:1,116:1:36:116:4159:-281.452,-31.634,0 0/1:89:53,35:53:1896:35:1243:-58.6673,0,-143.409 0/1:185:100,85:100:3555:85:3019:-152,0,-262.595 0/1:64:21,43:21:737:43:1535:-86.5637,0,-46.7083 1/1:63:0,63:0:0:63:2250:-154.069,-18.9649,0 0/1:80:46,34:46:1652:34:1215:-56.0917,0,-124.737 0/1:51:15,36:15:540:36:1296:-72.8338,0,-33.2057 1/1:84:2,82:2:72:82:2933:-188.311,-18.4498,0 1/1:44:0,44:0:0:44:1576:-109.128,-13.2453,0 chr03 23709980 . G C 9417.57 PASS AB=0.465854;ABP=15.4671;AC=12;AF=0.285714;AN=42;AO=579;CIGAR=1X;DP=2088;DPB=2088;DPRA=1.4661;EPP=1260.29;EPPR=3268.9;GTI=1;LEN=1;MEANALT=1.28571;MQM=59.7047;MQMR=33.5259;NS=21;NUMALT=1;ODDS=2.23889;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20687;QR=53760;RO=1504;RPL=0;RPP=1260.29;RPPR=3268.9;RPR=579;RUN=1;SAF=579;SAP=1260.29;SAR=0;SRF=1504;SRP=3268.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:68,44:68:2406:44:1546:-105.704,0,-158.146 0/1:62:55,7:55:1961:7:248:-4.00033,0,-133.505 0/1:140:74,65:74:2645:65:2328:-167.537,0,-170.454 0/0:82:82,0:82:2944:0:0:0,-24.6845,-233.249 0/0:228:226,1:226:8077:1:36:0,-65.0294,-638.752 0/0:135:135,0:135:4836:0:0:0,-40.639,-383.703 0/1:147:72,75:72:2565:75:2653:-194.758,0,-160.044 0/1:135:66,69:66:2376:69:2476:-182.403,0,-140.523 0/1:243:104,137:104:3717:137:4904:-368.603,0,-208.466 0/1:17:6,11:6:216:11:396:-30.8366,0,-12.2665 0/0:13:13,0:13:468:0:0:0,-3.91339,-36.7685 0/0:34:34,0:34:1220:0:0:0,-10.235,-95.2794 0/0:168:168,0:168:6012:0:0:0,-50.573,-479.211 0/1:68:36,32:36:1281:32:1152:-83.5201,0,-82.3689 0/1:163:81,81:81:2904:81:2904:-212.549,0,-181.236 0/1:41:36,5:36:1292:5:180:-4.20984,0,-86.0572 0/0:39:39,0:39:1400:0:0:0,-11.7402,-107.184 0/1:41:17,24:17:612:24:864:-65.7403,0,-35.1933 0/1:61:38,23:38:1368:23:824:-56.1089,0,-91.1468 0/0:99:94,5:94:3319:5:176:0,-13.6169,-238.793 0/0:60:60,0:60:2141:0:0:0,-18.0618,-173.103 chr03 23709997 . TTCCAGCTCTACCTTTCG CTCCCTACTTTCG,TTCCAGCTCTACCTTCG 34709.6 PASS AB=0.554608,0.425768;ABP=33.3664,59.1054;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1497,504;CIGAR=1X3M4D3M1D6M,13M1D4M;DP=2034;DPB=1583.72;DPRA=0,1.41525;EPP=3253.7,1097.43;EPPR=0;GTI=2;LEN=13,1;MEANALT=3.04762,3.78571;MQM=33.5605,59.9206;MQMR=0;NS=21;NUMALT=2;ODDS=7.07733;PAIRED=0,0;PAIREDR=0;PAO=0.5,0;PQA=18,0;PQR=0;PRO=0;QA=49461,17481;QR=0;RO=0;RPL=1497,504;RPP=3253.7,1097.43;RPPR=0;RPR=0,0;RUN=1,1;SAF=1497,504;SAP=3253.7,1097.43;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,68,37:0:0:68,37:2263,1311:-273.307,-106.966,-86.4957,-166.491,0,-155.353 1/2:60:0,53,6:0:0:53,6:1718,212:-142.793,-17.3882,-1.43359,-125.521,0,-123.715 1/2:133:0,74,57:0:0:74,57:2524,2020:-350.01,-164.537,-142.261,-185.45,0,-168.292 1/1:83:0,82,0:0:0:82,0:2727,0:-225.102,-24.6845,0,-225.102,-24.6845,-225.102 1/1:232:0,227,1:0:0:227,1:7610,36:-627.271,-68.3338,0,-624.334,-65.3714,-624.033 1/1:135:0,135,0:0:0:135,0:4516,0:-373.384,-40.6391,0,-373.384,-40.6391,-373.384 1/2:133:0,69,59:0:0:69,59:2331,1998:-333.688,-162.048,-141.277,-171.685,0,-153.925 1/2:128:0,67,58:0:0:67,58:2134,2009:-317.602,-163.327,-143.158,-154.306,0,-136.846 1/2:232:0,106,123:0:0:106,123:3299,4270:-584.534,-347.125,-315.216,-237.39,0,-200.363 1/2:15:0,6,8:0:0:6,8:200,275:-36.9546,-22.3172,-20.511,-14.6065,0,-12.1982 1/1:12:0,12,0:0:0:12,0:407,0:-33.8026,-3.61236,0,-33.8026,-3.61236,-33.8026 1/1:34:0,34,0:0:0:34,0:1111,0:-91.2995,-10.235,0,-91.2995,-10.235,-91.2995 1/1:169:0,166,0:0:0:166,0:5565,0:-459.515,-49.971,0,-459.515,-49.971,-459.515 1/2:66:0,36,30:0:0:36,30:1193,1025:-171.68,-83.5247,-72.6876,-88.4806,0,-79.4497 1/2:155:0,80,72:0:0:80,72:2680,2517:-401.556,-204.865,-180.782,-196.779,0,-175.105 1/2:43:0,38,5:0:0:38,5:1203,172:-101.053,-14.3128,-2.87368,-87.0776,0,-85.5725 1/1:39:0,39,0:0:0:39,0:1237,0:-101.465,-11.7402,0,-101.465,-11.7402,-101.465 1/2:40:0,16,22:0:0:16,22:522,755:-99.194,-61.3379,-56.5214,-37.8702,0,-31.2476 1/2:61:0,37,22:0:0:37,22:1260,746:-153.611,-60.6199,-49.4817,-93.1073,0,-86.4846 1/1:99:0,94,4:0:0:94,4:3002,135:-245.776,-28.2968,0,-234.833,-17.2539,-233.629 1/1:59:0,58,0:0:0:58,0:1959,0:-162.1,-17.4597,0,-162.1,-17.4597,-162.1 chr03 23721757 . TAAC CAAT,CAAC 30040 PASS AB=0.537473,0.461456;ABP=14.4024,15.0627;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1025,442;CIGAR=1X2M1X,1X3M;DP=1469;DPB=1469.25;DPRA=0,1.74608;EPP=2228.77,962.801;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.85714,2.0625;MQM=59.9356,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.62046;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=35912,15779;QR=0;RO=0;RPL=1025,442;RPP=2228.77,962.801;RPPR=0;RPR=0,0;RUN=1,1;SAF=1025,442;SAP=2228.77,962.801;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:90:0,42,48:0:0:42,48:1481,1700:-259.421,-138.834,-126.191,-120.94,0,-106.491 1/2:49:0,26,23:0:0:26,23:906,820:-140.873,-67.1988,-59.372,-74.0265,0,-67.1028 1/2:52:0,33,19:0:0:33,19:1172,684:-151.666,-56.1708,-46.2368,-95.8536,0,-90.134 1/1:64:0,63,1:0:0:63,1:2199,36:-197.815,-18.9649,0,-194.878,-15.6676,-194.577 1/1:154:0,152,2:0:0:152,2:5289,72:-475.798,-45.7566,0,-469.923,-39.5219,-469.321 1/1:60:0,55,5:0:0:55,5:1919,180:-172.627,-16.5567,0,-157.939,-1.50974,-156.433 1/2:89:0,54,35:0:0:54,35:1891,1256:-256.653,-102.809,-86.5536,-154.199,0,-143.663 1/2:50:0,20,30:0:0:20,30:719,1076:-146.781,-88.122,-82.1014,-59.018,0,-49.9871 1/2:130:0,60,70:0:0:60,70:2079,2495:-372.635,-203.671,-185.609,-169.256,0,-148.184 1/2:18:0,10,8:0:0:10,8:359,288:-53.1431,-23.8592,-20.8489,-29.6433,0,-27.2351 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:21:0,21,0:0:0:21,0:750,0:-67.8262,-6.32163,0,-67.8262,-6.32163,-67.8262 1/1:90:0,89,0:0:0:89,0:3096,0:-278.579,-26.7917,0,-278.579,-26.7917,-278.579 1/2:82:0,49,33:0:0:49,33:1730,1173:-236.821,-95.9416,-81.1911,-141.234,0,-131.3 1/2:134:0,59,75:0:0:59,75:2087,2692:-389.929,-219.947,-202.186,-170.338,0,-147.76 1/2:54:0,26,27:0:0:26,27:923,968:-154.262,-79.0557,-71.2289,-75.3069,0,-67.1791 1/1:68:0,68,0:0:0:68,0:2358,0:-212.478,-20.47,0,-212.478,-20.47,-212.478 1/2:111:0,71,40:0:0:71,40:2478,1427:-318.162,-116.686,-95.3124,-201.83,0,-189.789 1/2:75:0,52,23:0:0:52,23:1815,804:-213.38,-65.7529,-50.0993,-147.976,0,-141.052 1/1:34:0,31,3:0:0:31,3:1096,108:-98.5663,-9.33193,0,-89.7535,-0.15985,-88.8504 1/1:40:0,40,0:0:0:40,0:1421,0:-128.187,-12.0412,0,-128.187,-12.0412,-128.187 chr03 23721812 . C A 29049.8 PASS AB=0.445371;ABP=34.0901;AC=30;AF=0.714286;AN=42;AO=1434;CIGAR=1X;DP=2108;DPB=2108;DPRA=0;EPP=3108.22;EPPR=1457.9;GTI=0;LEN=1;MEANALT=1.09524;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.38262;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50992;QR=23867;RO=670;RPL=0;RPP=3116.9;RPPR=1457.9;RPR=1434;RUN=1;SAF=1;SAP=3108.22;SAR=1433;SRF=0;SRP=1457.9;SRR=670;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:105,49:105:3726:49:1724:-108.749,0,-288.85 0/1:63:36,27:36:1283:27:972:-68.833,0,-96.8077 0/1:81:46,35:46:1641:35:1260:-89.3221,0,-123.593 1/1:123:0,123:0:0:123:4392:-395.454,-37.0267,0 1/1:211:4,206:4:140:206:7344:-648.094,-50.5097,0 1/1:102:4,98:4:140:98:3507:-302.895,-17.7605,0 0/1:141:83,58:83:2952:58:2063:-143.495,0,-223.47 0/1:109:67,42:67:2400:42:1500:-102.482,0,-183.445 0/1:164:92,72:92:3300:72:2564:-181.64,0,-247.85 0/1:7:5,2:5:180:2:63:-3.87594,0,-14.4449 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:28:0,28:0:0:28:985:-88.9615,-8.42884,0 1/1:228:0,228:0:0:228:8082:-727.404,-68.6348,0 0/1:154:82,72:82:2906:72:2543:-182.762,0,-215.418 0/1:150:68,82:68:2420:82:2940:-219.679,0,-172.902 0/1:62:28,34:28:1004:34:1179:-87.747,0,-72.012 1/1:108:0,108:0:0:108:3832:-345.076,-32.5112,0 0/1:49:23,26:23:819:26:918:-68.1848,0,-59.2811 0/1:62:27,35:27:956:35:1243:-93.51,0,-67.6919 1/1:51:0,51:0:0:51:1809:-163.09,-15.3525,0 1/1:52:0,52:0:0:52:1860:-167.68,-15.6536,0 chr03 23805973 . A G 108903 PASS AB=0.495719;ABP=3.56804;AC=30;AF=0.714286;AN=42;AO=4171;CIGAR=1X;DP=5960;DPB=5960;DPRA=0;EPP=9060.22;EPPR=3868.25;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9398;MQMR=59.8372;NS=21;NUMALT=1;ODDS=10.381;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=148006;QR=64048;RO=1788;RPL=2365;RPP=165.692;RPPR=16.146;RPR=1806;RUN=1;SAF=2365;SAP=165.692;SAR=1806;SRF=944;SRP=15.155;SRR=844;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:344:197,147:197:7035:147:5178:-362.327,0,-529.659 0/1:202:96,106:96:3440:106:3784:-279.949,0,-249.005 0/1:240:111,129:111:3988:129:4597:-341.639,0,-286.861 1/1:360:1,359:1:36:359:12803:-1149.42,-105.722,0 1/1:652:8,644:8:288:644:22835:-2028.06,-170.004,0 1/1:304:4,300:4:144:300:10601:-940.54,-78.1995,0 0/1:425:225,200:225:8080:200:7116:-512.517,0,-599.277 0/1:351:193,158:193:6898:158:5573:-395.991,0,-515.226 0/1:563:264,299:264:9475:299:10602:-784.594,0,-683.202 0/1:33:26,7:26:936:7:252:-13.095,0,-74.6255 1/1:17:1,16:1:36:16:572:-49.7268,-3.03093,0 1/1:71:0,71:0:0:71:2518:-226.872,-21.3731,0 1/1:390:2,388:2:72:388:13760:-1234.22,-113.437,0 0/1:321:173,148:173:6170:148:5227:-373.939,0,-458.761 0/1:460:243,217:243:8686:217:7730:-557.26,0,-641.898 0/1:150:77,73:77:2772:73:2587:-187.922,0,-204.566 1/1:159:0,159:0:0:159:5633:-507.091,-47.8638,0 0/1:236:115,120:115:4128:120:4214:-308.342,0,-300.601 0/1:179:46,133:46:1648:133:4757:-374.402,0,-93.7027 1/1:386:5,381:5:180:381:13556:-1203.27,-99.6455,0 1/1:117:1,116:1:36:116:4111:-368.089,-33.1339,0 chr03 23810485 . A G 18852.5 PASS AB=0.438086;ABP=38.5035;AC=30;AF=0.714286;AN=42;AO=964;CIGAR=1X;DP=1565;DPB=1565;DPRA=0;EPP=2096.31;EPPR=1308.07;GTI=1;LEN=1;MEANALT=1;MQM=59.9813;MQMR=59.9617;NS=21;NUMALT=1;ODDS=5.25697;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34522;QR=21522;RO=601;RPL=0;RPP=2096.31;RPPR=1308.07;RPR=964;RUN=1;SAF=964;SAP=2096.31;SAR=0;SRF=601;SRP=1308.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:65,31:65:2332:31:1116:-71.8528,0,-181.241 0/1:49:30,19:30:1076:19:684:-47.1399,0,-82.4024 0/1:95:59,36:59:2108:36:1296:-88.3461,0,-161.391 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 1/1:150:1,149:1:36:149:5343:-477.317,-41.5562,0 1/1:50:0,50:0:0:50:1785:-160.931,-15.0515,0 0/1:97:49,48:49:1741:48:1709:-124.894,0,-127.773 0/1:55:23,32:23:816:32:1152:-87.4335,0,-57.2051 0/1:217:126,91:126:4528:91:3253:-227.666,0,-342.362 0/1:16:12,4:12:432:4:144:-8.49714,0,-34.4047 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 1/1:89:1,88:1:36:88:3143:-279.496,-23.1934,0 0/1:110:56,54:56:2004:54:1921:-140.052,0,-147.52 0/1:146:86,60:86:3084:60:2156:-150.357,0,-233.61 0/1:59:38,21:38:1368:21:756:-50.6065,0,-105.66 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:68:36,32:36:1296:32:1129:-81.4463,0,-96.4739 0/1:58:19,39:19:665:39:1404:-109.2,0,-42.713 1/1:72:0,72:0:0:72:2584:-232.809,-21.6742,0 1/1:44:0,44:0:0:44:1567:-141.321,-13.2453,0 chr03 23842108 . CAATAACG CAAAAATA,CAAATAATG 92526.5 PASS AB=0.545589,0.44899;ABP=39.6385,48.8681;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2625,931;CIGAR=3M1X2M2X,1M1I5M1X1M;DP=3571;DPB=3687.75;DPRA=0,1.70183;EPP=5703.13,2024.65;EPPR=0;GTI=0;LEN=8,9;MEANALT=2.47619,2.8125;MQM=54.336,49.6305;MQMR=0;NS=21;NUMALT=2;ODDS=31.8397;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=91655,31670;QR=0;RO=0;RPL=1507,505;RPP=128.187,17.5669;RPPR=0;RPR=1118,426;RUN=1,1;SAF=1507,505;SAP=128.187,17.5669;SAR=1118,426;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:213:0,117,92:0:0:117,92:4054,3104:-575.936,-247.227,-212.006,-328.738,0,-301.043 1/2:189:0,101,88:0:0:101,88:3531,3022:-526.551,-240.533,-210.128,-286.36,0,-259.87 1/2:111:0,58,53:0:0:58,53:1997,1807:-306.714,-144.693,-127.233,-162.361,0,-146.406 1/1:233:0,231,0:0:0:231,0:8059,0:-723.292,-69.5379,0,-723.292,-69.5379,-723.292 1/1:427:0,421,5:0:0:421,5:14658,176:-1316.74,-126.734,0,-1302.58,-112.546,-1301.08 1/1:165:0,164,1:0:0:164,1:5799,36:-519.726,-49.3689,0,-516.789,-46.0727,-516.488 1/2:211:0,96,115:0:0:96,115:3348,3848:-577.215,-305.718,-276.819,-271.837,0,-237.218 1/2:185:0,102,83:0:0:102,83:3577,2839:-517.776,-227.508,-196.803,-290.611,0,-265.626 1/2:184:0,105,78:0:0:105,78:3613,2586:-500.464,-207.508,-175.9,-292.98,0,-269.5 1/2:30:0,12,18:0:0:12,18:418,617:-83.5283,-49.5795,-45.9671,-34.2924,0,-28.8739 1/1:19:0,19,0:0:0:19,0:662,0:-59.7408,-5.71957,0,-59.7408,-5.71957,-59.7408 1/1:47:0,47,0:0:0:47,0:1628,0:-146.614,-14.1484,0,-146.614,-14.1484,-146.614 1/1:194:0,187,6:0:0:187,6:6552,216:-587.298,-56.2926,0,-569.673,-38.6668,-567.867 1/2:129:0,65,63:0:0:65,63:2242,2116:-351.725,-170.029,-150.463,-181.724,0,-162.759 1/2:238:0,127,111:0:0:127,111:4400,3841:-666.927,-310.198,-271.967,-357.074,0,-323.66 1/2:186:0,106,79:0:0:106,79:3706,2724:-521.102,-219.819,-187.909,-301.271,0,-277.49 1/1:152:0,152,0:0:0:152,0:5345,0:-480.608,-45.7566,0,-480.608,-45.7566,-480.608 1/2:200:0,109,90:0:0:109,90:3824,3040:-552.852,-242.474,-209.662,-310.517,0,-283.424 1/2:153:0,109,41:0:0:109,41:3845,1422:-426.886,-114.081,-81.2687,-312.813,0,-300.471 1/1:202:0,194,8:0:0:194,8:6793,276:-609.755,-58.3998,0,-587.604,-35.9068,-585.196 1/1:103:0,103,0:0:0:103,0:3604,0:-322.854,-31.0061,0,-322.854,-31.0061,-322.854 chr03 23842169 . A T 7650.2 PASS AB=0.367568;ABP=228.468;AC=12;AF=0.285714;AN=42;AO=551;CIGAR=1X;DP=2968;DPB=2968;DPRA=0.882073;EPP=1199.49;EPPR=5251.46;GTI=1;LEN=1;MEANALT=1;MQM=54.2178;MQMR=29.923;NS=21;NUMALT=1;ODDS=8.86366;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19748;QR=86348;RO=2417;RPL=0;RPP=1199.49;RPPR=5251.46;RPR=551;RUN=1;SAF=551;SAP=1199.49;SAR=0;SRF=2417;SRP=5251.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:52,29:52:1864:29:1040:-69.3811,0,-112.081 0/1:123:99,24:99:3524:24:864:-40.8393,0,-198.291 0/1:118:84,34:84:2976:34:1216:-74.1472,0,-186.209 0/0:308:308,0:308:10995:0:0:0,-92.7172,-808.955 0/0:324:324,0:324:11588:0:0:0,-97.5337,-855.994 0/0:166:165,1:165:5908:1:36:0,-46.3764,-389.336 0/1:162:108,54:108:3876:54:1936:-125.097,0,-207.602 0/1:125:64,61:64:2288:61:2180:-158.44,0,-124.322 0/1:203:101,102:101:3601:102:3660:-268.134,0,-220.661 0/1:20:13,7:13:468:7:248:-16.3601,0,-27.2682 0/0:5:5,0:5:180:0:0:0,-1.50515,-12.1836 0/0:33:33,0:33:1165:0:0:0,-9.93399,-83.154 0/0:242:240,2:240:8585:2:72:0,-66.0175,-626.119 0/1:212:156,56:156:5604:56:2012:-117.397,0,-350.376 0/1:179:103,76:103:3684:76:2724:-190.599,0,-215.87 0/1:82:52,30:52:1864:30:1076:-72.2317,0,-120.771 0/0:169:169,0:169:6029:0:0:0,-50.8741,-466.535 0/1:94:40,54:40:1436:54:1936:-145.363,0,-73.3007 0/1:81:64,17:64:2300:17:604:-30.18,0,-145.317 0/0:154:150,4:150:5289:4:144:0,-33.0639,-362.334 0/0:87:87,0:87:3124:0:0:0,-26.1896,-206.034 chr03 23842195 . AATCATTTCC AACTTCT,AATCACTTCT 58540.2 PASS AB=0.625668,0.370321;ABP=208.22,221.528;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2411,563;CIGAR=1M3D1M1X3M1X,5M1X3M1X;DP=2990;DPB=2263.4;DPRA=0,0.887406;EPP=1888.8,1191.05;EPPR=0;GTI=1;LEN=7,10;MEANALT=2.42857,2.66667;MQM=29.9249,54.2718;MQMR=0;NS=21;NUMALT=2;ODDS=7.21325;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84961,19847;QR=0;RO=0;RPL=482,559;RPP=1888.8,1191.05;RPPR=0;RPR=1929,4;RUN=1,1;SAF=2411,563;SAP=5238.43,1225.55;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:84:0,52,32:0:0:52,32:1834,1129:-212.034,-92.1321,-76.4785,-120.231,0,-110.598 1/2:124:0,100,24:0:0:100,24:3528,842:-275.285,-68.6962,-38.5932,-206.922,0,-199.697 1/2:118:0,84,34:0:0:84,34:2954,1200:-293.468,-97.9965,-72.71,-195.806,0,-185.571 1/1:307:0,304,0:0:0:304,0:10801,0:-798.219,-91.5131,0,-798.219,-91.5131,-798.219 1/1:327:0,325,0:0:0:325,0:11398,0:-851.065,-97.8348,0,-851.065,-97.8348,-851.065 1/1:169:0,168,1:0:0:168,1:5890,34:-397.011,-50.573,0,-394.254,-47.4775,-393.953 1/2:163:0,108,54:0:0:108,54:3796,1908:-376.884,-154.872,-122.36,-221.975,0,-205.719 1/2:127:0,64,63:0:0:64,63:2277,2210:-322.11,-179.912,-160.646,-142.513,0,-123.548 1/2:204:0,101,103:0:0:101,103:3559,3606:-543.137,-293.417,-263.013,-250.048,0,-219.042 1/2:20:0,13,7:0:0:13,7:462,251:-49.4788,-20.5454,-16.632,-29.2619,0,-27.1547 1/1:5:0,5,0:0:0:5,0:179,0:-12.1722,-1.50515,0,-12.1722,-1.50515,-12.1722 1/1:33:0,33,0:0:0:33,0:1150,0:-82.8961,-9.93399,0,-82.8961,-9.93399,-82.8961 1/1:242:0,236,2:0:0:236,2:8335,72:-621.484,-71.0431,0,-615.613,-65.1328,-615.011 1/2:212:0,155,57:0:0:155,57:5483,2032:-528.881,-165.859,-119.2,-363.361,0,-346.203 1/2:180:0,103,76:0:0:103,76:3615,2700:-455.849,-219.499,-188.493,-236.379,0,-213.501 1/2:82:0,51,31:0:0:51,31:1797,1097:-215.744,-89.4462,-74.0937,-126.634,0,-117.302 1/1:169:0,168,0:0:0:168,0:5880,0:-460.711,-50.573,0,-460.711,-50.573,-460.711 1/2:97:0,41,53:0:0:41,53:1456,1842:-240.339,-149.253,-136.911,-91.065,0,-75.1104 1/2:85:0,64,20:0:0:64,20:2246,709:-206.913,-57.7931,-38.5272,-149.253,0,-143.232 1/1:154:0,148,6:0:0:148,6:5229,215:-371.662,-44.5524,0,-354.153,-26.6893,-352.347 1/1:88:0,88,0:0:0:88,0:3092,0:-207.498,-26.4906,0,-207.498,-26.4906,-207.498 chr03 23842223 . G A 33977.7 PASS AB=0.621473;ABP=189.235;AC=30;AF=0.714286;AN=42;AO=2315;CIGAR=1X;DP=2874;DPB=2874;DPRA=0;EPP=5029.97;EPPR=1216.86;GTI=1;LEN=1;MEANALT=1;MQM=29.9235;MQMR=54.1199;NS=21;NUMALT=1;ODDS=3.77858;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82462;QR=19925;RO=559;RPL=2315;RPP=5029.97;RPPR=1216.86;RPR=0;RUN=1;SAF=2315;SAP=5029.97;SAR=0;SRF=559;SRP=1216.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:29,49:29:1044:49:1746:-105.527,0,-70.6425 0/1:120:24,96:24:856:96:3440:-192.572,0,-41.0427 0/1:116:34,82:34:1224:82:2940:-183.35,0,-75.4669 1/1:298:0,298:0:0:298:10579:-781.948,-89.7069,0 1/1:307:0,307:0:0:307:10903:-808.166,-92.4162,0 1/1:162:0,162:0:0:162:5720:-382.986,-48.7669,0 0/1:156:55,101:55:1939:101:3587:-192.124,0,-127.335 0/1:126:63,63:63:2225:63:2264:-121.745,0,-162.127 0/1:198:99,99:99:3534:99:3524:-216.729,0,-258.322 0/1:19:7,12:7:252:12:428:-24.9418,0,-17.0231 1/1:4:0,4:0:0:4:140:-9.73718,-1.20412,0 1/1:31:0,31:0:0:31:1112:-78.7466,-9.33193,0 1/1:231:2,229:2:72:229:8195:-597.841,-62.7061,0 0/1:209:57,152:57:2048:152:5436:-339.788,0,-121.536 0/1:175:77,98:77:2743:98:3484:-202.647,0,-193.769 0/1:82:31,51:31:1108:51:1824:-117.8,0,-75.0164 1/1:158:0,158:0:0:158:5637:-436.708,-47.5627,0 0/1:95:54,41:54:1912:41:1455:-75.0623,0,-142.922 0/1:79:20,59:20:716:59:2080:-131.399,0,-40.8508 1/1:147:6,141:6:216:141:5051:-337.012,-24.4936,0 1/1:83:1,82:1:36:82:2917:-190.745,-22.3369,0 chr03 23917828 . TACA TG,TA 38416.7 PASS AB=0.539683,0.457672;ABP=18.5208,20.6578;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1347,522;CIGAR=1M2D1X,1M2D1M;DP=1872;DPB=936.5;DPRA=0,1.37862;EPP=2927.98,1136.52;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.85714,2.2;MQM=44.1299,57.9234;MQMR=0;NS=21;NUMALT=2;ODDS=12.2656;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48148,18474;QR=0;RO=0;RPL=1347,522;RPP=2927.98,1136.52;RPPR=0;RPR=0,0;RUN=1,1;SAF=1347,522;SAP=2927.98,1136.52;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,71,49:0:0:71,49:2544,1733:-343.175,-141.327,-119.953,-202.2,0,-187.45 1/2:81:0,47,34:0:0:47,34:1692,1220:-231.254,-99.633,-85.4846,-131.973,0,-121.738 1/2:111:0,68,43:0:0:68,43:2440,1529:-320.119,-124.919,-104.449,-195.554,0,-182.61 1/1:87:0,86,1:0:0:86,1:3049,36:-270.123,-25.8886,0,-267.185,-22.5913,-266.884 1/1:164:0,164,0:0:0:164,0:5873,0:-516.911,-49.3689,0,-516.911,-49.3689,-516.911 1/1:164:0,163,1:0:0:163,1:5841,36:-508.027,-49.0679,0,-505.091,-45.7732,-504.79 1/2:116:0,62,54:0:0:62,54:2194,1901:-323.546,-154.344,-135.68,-169.547,0,-153.291 1/2:127:0,68,58:0:0:68,58:2444,2047:-358.813,-166.369,-145.899,-192.441,0,-174.981 1/2:99:0,43,56:0:0:43,56:1544,1981:-285.908,-161.68,-148.736,-124.581,0,-107.724 1/2:12:0,6,6:0:0:6,6:201,216:-33.9494,-17.97,-16.1638,-16.3241,0,-14.5179 1/1:8:0,8,0:0:0:8,0:288,0:-25.5697,-2.40824,0,-25.5697,-2.40824,-25.5697 1/1:30:0,30,0:0:0:30,0:1068,0:-94.069,-9.0309,0,-94.069,-9.0309,-94.069 1/1:108:0,108,0:0:0:108,0:3862,0:-343.65,-32.5112,0,-343.65,-32.5112,-343.65 1/2:156:0,71,85:0:0:71,85:2529,3003:-445.68,-244.497,-223.124,-201.533,0,-175.946 1/2:146:0,83,61:0:0:83,61:2952,2161:-412.875,-176.01,-151.024,-236.949,0,-218.586 1/2:60:0,36,24:0:0:36,24:1292,839:-172.613,-68.6024,-57.7654,-104.362,0,-97.137 1/1:77:0,77,0:0:0:77,0:2760,0:-245.396,-23.1793,0,-245.396,-23.1793,-245.396 1/2:56:0,22,34:0:0:22,34:792,1200:-161.232,-97.9291,-91.3065,-63.6555,0,-53.4205 1/2:50:0,35,15:0:0:35,15:1256,536:-144.434,-44.0184,-33.4824,-100.771,0,-96.256 1/1:66:0,65,1:0:0:65,1:2327,36:-204.401,-19.567,0,-201.465,-16.2707,-201.164 1/1:34:0,34,0:0:0:34,0:1200,0:-105.101,-10.235,0,-105.101,-10.235,-105.101 chr03 23917904 . A C 25662.5 PASS AB=0.483412;ABP=6.03595;AC=30;AF=0.714286;AN=42;AO=1283;CIGAR=1X;DP=1946;DPB=1946;DPRA=0;EPP=2754.37;EPPR=1431.85;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.5464;MQMR=59.997;NS=21;NUMALT=1;ODDS=1.44961;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45867;QR=23674;RO=662;RPL=4;RPP=2754.37;RPPR=1431.85;RPR=1279;RUN=1;SAF=0;SAP=2789.01;SAR=1283;SRF=0;SRP=1440.53;SRR=662;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:78,53:78:2804:53:1900:-131.745,0,-213.164 0/1:86:48,38:48:1701:38:1349:-95.1946,0,-127.485 0/1:92:55,37:55:1980:37:1328:-92.1251,0,-150.78 1/1:73:0,73:0:0:73:2620:-236.04,-21.9752,0 1/1:206:1,205:1:36:205:7318:-654.957,-58.4139,0 1/1:73:0,73:0:0:73:2616:-235.389,-21.9752,0 0/1:188:103,84:103:3675:84:2986:-211.675,0,-274.301 0/1:90:48,42:48:1720:42:1512:-109.277,0,-127.993 0/1:186:74,112:74:2637:112:3985:-302.842,0,-181.584 0/1:10:4,6:4:144:6:216:-16.7755,0,-10.3033 1/1:12:0,12:0:0:12:417:-37.8511,-3.61236,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:113:0,113:0:0:113:4039:-363.655,-34.0164,0 0/1:79:52,27:52:1872:27:968:-63.656,0,-144.978 0/1:143:64,79:64:2270:79:2840:-212.783,0,-161.514 0/1:100:43,57:43:1544:57:2039:-153.677,0,-109.15 1/1:77:1,76:1:36:76:2709:-240.452,-19.581,0 0/1:88:54,34:54:1931:34:1216:-83.2513,0,-147.575 0/1:73:30,43:30:1072:43:1540:-116.918,0,-74.8173 1/1:66:6,60:6:216:60:2149:-173.818,-0.0774679,0 1/1:49:1,48:1:36:48:1724:-151.737,-11.1522,0 chr03 23917933 . CC TT,TC 41224.8 PASS AB=0.486381,0.51284;ABP=5.08038,4.85056;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1306,666;CIGAR=2X,1X1M;DP=1973;DPB=1973;DPRA=0,1.87139;EPP=2838.95,1449.21;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=1.66667,2;MQM=59.5061,59.997;MQMR=60;NS=21;NUMALT=2;ODDS=1.74909;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46568,23793;QR=36;RO=1;RPL=1306,666;RPP=2838.95,1449.21;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2838.95,1449.21;SAR=1306,666;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:133:0,54,79:0:0:54,79:1888,2836:-385.219,-231.697,-215.441,-153.875,0,-130.094 1/2:85:0,38,47:0:0:38,47:1340,1654:-243.478,-134.996,-123.557,-108.833,0,-94.6846 1/2:95:0,39,56:0:0:39,56:1404,2012:-279.053,-164.495,-152.755,-114.917,0,-98.0591 1/1:73:0,73,0:0:0:73,0:2620,0:-235.55,-21.9752,0,-235.55,-21.9752,-235.55 1/1:204:0,203,1:0:0:203,1:7244,36:-651.517,-61.1091,0,-648.579,-57.8118,-648.278 1/1:75:0,75,0:0:0:75,0:2673,0:-240.512,-22.5773,0,-240.512,-22.5773,-240.512 1/2:189:0,87,102:0:0:87,102:3112,3636:-549.563,-296.738,-270.549,-253.181,0,-222.476 1/2:91:0,43,48:0:0:43,48:1523,1720:-264.693,-140.636,-127.692,-124.413,0,-109.963 1/2:188:0,113,75:0:0:113,75:4026,2684:-547.308,-219.228,-185.211,-328.437,0,-305.86 1/2:11:0,7,4:0:0:7,4:241,129:-30.3061,-10.7235,-8.61633,-19.9128,0,-18.7087 1/1:12:0,12,0:0:0:12,0:428,0:-38.8529,-3.61236,0,-38.8529,-3.61236,-38.8529 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:116:0,116,0:0:0:116,0:4155,0:-374.091,-34.9195,0,-374.091,-34.9195,-374.091 1/2:81:0,29,52:0:0:29,52:1040,1857:-236.579,-151.754,-143.024,-85.1824,0,-69.5288 1/2:147:0,80,67:0:0:80,67:2858,2385:-427.748,-194.737,-170.655,-233.368,0,-213.199 1/2:103:0,57,46:0:0:57,46:2033,1648:-300.487,-134.761,-117.602,-166.083,0,-152.236 1/1:78:0,78,0:0:0:78,0:2768,0:-249.357,-23.4803,0,-249.357,-23.4803,-249.357 1/2:88:1,34,53:1:36:34,53:1220,1908:-251.953,-152.746,-145.448,-96.5701,0,-83.553 1/2:74:0,44,30:0:0:44,30:1556,1076:-214.85,-88.122,-74.8766,-127.084,0,-118.054 1/1:68:0,62,6:0:0:62,6:2213,212:-199.01,-18.6639,0,-181.745,-1.04524,-179.938 1/1:51:0,51,0:0:0:51,0:1830,0:-164.87,-15.3525,0,-164.87,-15.3525,-164.87 chr03 23939699 . TAGC CAGC,CAGA 50767.6 PASS AB=0.664263,0.335737;ABP=295.498,295.498;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1954,424;CIGAR=1X3M,1X2M1X;DP=2378;DPB=2378.25;DPRA=0,1.77493;EPP=4246.07,923.715;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.7619,2;MQM=59.956,59.8892;MQMR=0;NS=21;NUMALT=2;ODDS=12.7102;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=70000,15060;QR=0;RO=0;RPL=0,0;RPP=4246.07,923.715;RPPR=0;RPR=1954,424;RUN=1,1;SAF=1954,424;SAP=4246.07,923.715;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:117:0,93,24:0:0:93,24:3328,855:-341.432,-70.0462,-42.0504,-271.742,0,-264.517 1/2:116:0,70,46:0:0:70,46:2512,1626:-337.684,-132.779,-111.707,-205.26,0,-191.412 1/2:88:0,49,39:0:0:49,39:1756,1397:-257.505,-114.289,-99.5387,-143.574,0,-131.833 1/1:163:0,162,1:0:0:162,1:5796,36:-521.395,-48.7669,0,-518.457,-45.4696,-518.156 1/1:322:0,321,1:0:0:321,1:11496,36:-1034.06,-96.6306,0,-1031.12,-93.3334,-1030.82 1/1:152:0,151,1:0:0:151,1:5392,29:-485.115,-45.4555,0,-482.807,-42.8569,-482.506 1/2:154:0,93,61:0:0:93,61:3340,2168:-449.485,-177.022,-149.026,-272.82,0,-254.457 1/2:85:0,67,18:0:0:67,18:2400,631:-247.426,-51.6964,-31.5274,-196.082,0,-190.663 1/2:209:0,146,63:0:0:146,63:5224,2239:-608.781,-182.798,-138.848,-426.339,0,-407.374 1/2:9:0,5,4:0:0:5,4:180,143:-26.7058,-12.0173,-10.5122,-15.0469,0,-13.8428 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 1/1:170:0,170,0:0:0:170,0:6088,0:-548.021,-51.1751,0,-548.021,-51.1751,-548.021 1/2:111:0,68,43:0:0:68,43:2428,1524:-322.429,-124.479,-104.009,-198.306,0,-185.362 1/2:186:0,127,59:0:0:127,59:4556,2093:-542.497,-170.879,-132.648,-371.974,0,-354.214 1/2:71:0,49,22:0:0:49,22:1760,780:-207.477,-63.8993,-49.1488,-143.933,0,-137.311 1/1:94:0,94,0:0:0:94,0:3380,0:-304.352,-28.2968,0,-304.352,-28.2968,-304.352 1/2:44:0,22,22:0:0:22,22:792,791:-129.516,-64.8929,-58.2702,-64.983,0,-58.3604 1/2:58:0,40,18:0:0:40,18:1432,648:-170.006,-53.2333,-41.1921,-117.132,0,-111.713 1/1:137:0,135,2:0:0:135,2:4832,64:-434.714,-40.6391,0,-429.558,-35.1627,-428.956 1/1:63:0,63,0:0:0:63,0:2268,0:-204.38,-18.9649,0,-204.38,-18.9649,-204.38 chr03 23985178 . C T 20265 PASS AB=0.51706;ABP=4.9367;AC=29;AF=0.690476;AN=42;AO=782;CIGAR=1X;DP=1152;DPB=1152;DPRA=0;EPP=8.88605;EPPR=6.12333;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9552;MQMR=60;NS=21;NUMALT=1;ODDS=1.89273;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27962;QR=13101;RO=369;RPL=368;RPP=8.88605;RPPR=6.12333;RPR=414;RUN=1;SAF=782;SAP=1701.1;SAR=0;SRF=369;SRP=804.284;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:32,36:32:1139:36:1296:-96.4739,0,-82.3483 0/1:22:16,6:16:576:6:216:-13.1679,0,-45.5523 0/1:63:34,28:34:1202:28:1004:-71.7969,0,-89.6063 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 1/1:122:2,120:2:72:120:4307:-380.968,-29.8889,0 0/1:27:3,24:3:104:24:856:-69.2333,0,-1.575 0/1:84:27,57:27:960:57:2015:-156.336,0,-61.4298 0/1:77:31,46:31:1103:46:1636:-124.349,0,-76.4005 0/1:98:62,36:62:2210:36:1279:-85.9115,0,-169.663 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 1/1:47:0,47:0:0:47:1664:-149.817,-14.1484,0 0/1:48:24,24:24:855:24:856:-62.9117,0,-62.8207 0/1:81:37,44:37:1312:44:1584:-118.468,0,-93.9982 0/1:20:12,8:12:423:8:288:-20.2468,0,-32.3845 1/1:20:0,20:0:0:20:718:-64.9484,-6.0206,0 0/1:109:59,50:59:2088:50:1783:-127.94,0,-155.376 0/1:59:25,34:25:877:34:1224:-92.7063,0,-61.4844 1/1:69:0,69:0:0:69:2476:-223.093,-20.7711,0 1/1:72:0,72:0:0:72:2576:-232.09,-21.6742,0 chr03 23985205 . C T 12404.6 PASS AB=0.491289;ABP=3.76691;AC=12;AF=0.285714;AN=42;AO=570;CIGAR=1X;DP=1847;DPB=1847;DPRA=1.68701;EPP=1240.75;EPPR=2773.81;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9965;MQMR=59.9726;NS=21;NUMALT=1;ODDS=4.17722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20101;QR=44358;RO=1276;RPL=353;RPP=73.4727;RPPR=123.422;RPR=217;RUN=1;SAF=353;SAP=73.4727;SAR=217;SRF=771;SRP=123.422;SRR=505;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:58,52:58:2022:52:1860:-134.566,0,-149.136 0/1:37:14,23:14:500:23:812:-62.2628,0,-34.1981 0/1:89:39,50:39:1346:50:1771:-132.881,0,-94.6423 0/0:79:79,0:79:2781:0:0:0,-23.7814,-250.532 0/0:193:191,2:191:6660:2:72:0,-51.2621,-592.652 0/0:42:39,3:39:1344:3:108:0,-2.56809,-111.18 0/1:130:83,47:83:2816:47:1653:-109.922,0,-214.54 0/1:104:65,38:65:2273:38:1351:-90.5238,0,-173.464 0/1:153:67,86:67:2333:86:3021:-226.063,0,-164.167 0/1:13:3,10:3:108:10:351:-28.0133,0,-6.16178 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:25:25,0:25:883:0:0:0,-7.52575,-79.7875 0/0:90:90,0:90:3134:0:0:0,-27.0927,-281.585 0/1:72:34,38:34:1160:38:1348:-99.9461,0,-83.0235 0/1:130:68,62:68:2366:62:2204:-159.492,0,-174.063 0/1:35:11,24:11:392:24:851:-66.3734,0,-25.084 0/0:30:30,0:30:1060:0:0:0,-9.0309,-95.7113 0/1:157:69,88:69:2361:88:3074:-229.627,0,-165.487 0/1:118:72,46:72:2475:46:1589:-107.774,0,-187.481 0/0:125:125,0:125:4375:0:0:0,-37.6287,-393.926 0/0:110:109,1:109:3793:1:36:0,-29.515,-337.976 chr03 24020155 . C T 13414.5 PASS AB=0.439637;ABP=62.2572;AC=12;AF=0.285714;AN=42;AO=837;CIGAR=1X;DP=2988;DPB=2988;DPRA=1.65744;EPP=1785.96;EPPR=4624;GTI=0;LEN=1;MEANALT=1.1875;MQM=59.9737;MQMR=60;NS=21;NUMALT=1;ODDS=22.0192;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29941;QR=76515;RO=2148;RPL=4;RPP=1785.96;RPPR=4624;RPR=833;RUN=1;SAF=0;SAP=1820.53;SAR=837;SRF=0;SRP=4667.33;SRR=2148;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:77,56:77:2756:56:2004:-140.595,0,-208.245 0/1:167:90,77:90:3223:77:2764:-198.729,0,-240.019 0/1:89:58,31:58:2080:31:1112:-73.5997,0,-160.679 0/0:143:142,1:142:5054:1:36:0,-39.449,-451.409 0/0:260:249,10:249:8870:10:357:0,-45.8541,-765.815 0/0:106:104,2:104:3716:2:72:0,-25.0725,-327.805 0/1:182:85,96:85:3008:96:3402:-251.548,0,-216.105 0/1:216:121,95:121:4289:95:3416:-242.63,0,-321.165 0/1:192:120,72:120:4312:72:2584:-175.011,0,-330.457 0/1:36:17,19:17:608:19:676:-50.3309,0,-44.2149 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:62:62,0:62:2211:0:0:0,-18.6639,-199.254 0/0:212:212,0:212:7521:0:0:0,-63.8184,-676.934 0/1:155:86,69:86:3058:69:2459:-174.905,0,-228.79 0/1:268:143,125:143:5108:125:4468:-321.614,0,-379.188 0/1:113:67,46:67:2391:46:1640:-113.872,0,-181.43 0/0:133:132,1:132:4724:1:36:0,-36.4387,-421.721 0/1:216:106,110:106:3747:110:3947:-290.393,0,-272.409 0/1:105:77,27:77:2748:27:968:-55.7705,0,-215.896 0/0:98:98,0:98:3472:0:0:0,-29.5009,-312.692 0/0:84:84,0:84:2975:0:0:0,-25.2865,-267.982 chr03 24034698 . TATG AATT,GATT 56470 PASS AB=0.484564,0.513782;ABP=6.76429,6.00296;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1849,939;CIGAR=1X2M1X,1X2M1X;DP=2794;DPB=2794;DPRA=0,1.9852;EPP=4018.06,2042.02;EPPR=0;GTI=1;LEN=4,4;MEANALT=2.04762,2.3125;MQM=59.9789,59.9894;MQMR=0;NS=21;NUMALT=2;ODDS=1.69403;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64599,32604;QR=0;RO=0;RPL=1849,939;RPP=4018.06,2042.02;RPPR=0;RPR=0,0;RUN=1,1;SAF=1849,939;SAP=4018.06,2042.02;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:269:0,122,146:0:0:122,146:4294,5071:-761.919,-412.348,-375.623,-349.669,0,-305.718 1/2:126:0,80,46:0:0:80,46:2783,1591:-355.916,-129.631,-105.548,-226.631,0,-212.784 1/2:136:0,61,74:0:0:61,74:2142,2572:-383.534,-209.196,-190.834,-174.425,0,-152.149 1/1:99:0,99,0:0:0:99,0:3422,0:-308.202,-29.802,0,-308.202,-29.802,-308.202 1/1:238:0,233,4:0:0:233,4:8107,132:-728.873,-70.14,0,-718.201,-59.4041,-716.997 1/1:164:0,163,0:0:0:163,0:5736,0:-516.063,-49.0679,0,-516.063,-49.0679,-516.063 1/2:156:0,69,87:0:0:69,87:2397,2972:-436.402,-241.528,-220.757,-195.218,0,-169.029 1/2:294:0,128,166:0:0:128,166:4459,5794:-834.228,-471.618,-433.086,-362.958,0,-312.987 1/2:226:0,110,115:0:0:110,115:3872,3979:-638.668,-323.449,-290.336,-315.327,0,-280.708 1/2:28:0,10,18:0:0:10,18:356,618:-79.5432,-50.5234,-47.5131,-29.3711,0,-23.9526 1/1:11:0,11,0:0:0:11,0:393,0:-35.711,-3.31133,0,-35.711,-3.31133,-35.711 1/1:52:0,52,0:0:0:52,0:1778,0:-160.299,-15.6536,0,-160.299,-15.6536,-160.299 1/1:153:0,152,1:0:0:152,1:5291,29:-476.049,-45.7566,0,-473.741,-43.1579,-473.44 1/2:150:0,60,90:0:0:60,90:2118,3158:-429.831,-257.356,-239.294,-172.827,0,-145.734 1/2:191:0,84,107:0:0:84,107:2930,3729:-541.913,-303.609,-278.322,-238.653,0,-206.443 1/2:74:0,39,35:0:0:39,35:1387,1220:-212.603,-99.5667,-87.8265,-113.388,0,-102.852 1/1:75:0,74,1:0:0:74,1:2570,22:-231.33,-22.2762,0,-229.653,-20.3773,-229.352 1/2:67:0,42,25:0:0:42,25:1479,868:-191.322,-70.9102,-58.2669,-120.761,0,-113.235 1/2:97:0,74,23:0:0:74,23:2612,816:-279.538,-66.8383,-44.5621,-213.054,0,-206.131 1/1:134:0,132,1:0:0:132,1:4590,33:-412.999,-39.736,0,-410.331,-37.0027,-410.03 1/1:54:0,54,0:0:0:54,0:1883,0:-169.749,-16.2556,0,-169.749,-16.2556,-169.749 chr03 24132232 . GTAA ATAC 9286.64 PASS AB=0.495163;ABP=3.24139;AC=12;AF=0.285714;AN=42;AO=573;CIGAR=1X2M1X;DP=1816;DPB=1816;DPRA=1.36649;EPP=1247.26;EPPR=2671.76;GTI=0;LEN=4;MEANALT=1.3125;MQM=59.3246;MQMR=59.9473;NS=21;NUMALT=1;ODDS=6.26523;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20340;QR=43715;RO=1233;RPL=0;RPP=1247.26;RPPR=2671.76;RPR=573;RUN=1;SAF=573;SAP=1247.26;SAR=0;SRF=1233;SRP=2680.44;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:55,50:55:1943:50:1784:-128.874,0,-143.182 0/1:66:29,36:29:1016:36:1286:-95.7349,0,-71.8245 0/1:96:45,51:45:1571:51:1814:-134.532,0,-112.768 0/0:130:129,0:129:4587:0:0:0,-38.8329,-412.636 0/0:189:186,3:186:6608:3:106:0,-47.0056,-584.915 0/0:69:66,3:66:2304:3:108:0,-10.7128,-197.559 0/1:190:88,102:88:3137:102:3611:-267.432,0,-225.361 0/1:97:43,54:43:1539:54:1917:-143.473,0,-109.604 0/1:156:71,84:71:2534:84:3008:-223.931,0,-181.292 0/1:6:4,2:4:141:2:72:-5.03054,0,-11.2307 0/0:10:10,0:10:359:0:0:0,-3.0103,-32.6536 0/0:25:24,1:24:859:1:36:0,-3.92747,-74.0335 0/0:58:55,3:55:1949:3:108:0,-7.38457,-165.61 0/1:92:40,52:40:1406:52:1836:-137.754,0,-99.1403 0/1:115:65,50:65:2301:50:1749:-122.594,0,-172.616 0/1:49:32,16:32:1145:16:571:-36.9765,0,-88.618 0/0:40:38,0:38:1337:0:0:0,-11.4391,-120.269 0/1:79:40,39:40:1432:39:1378:-100.536,0,-105.397 0/1:82:55,27:55:1944:27:956:-61.5872,0,-150.551 0/0:104:104,0:104:3708:0:0:0,-31.3071,-333.922 0/0:54:54,0:54:1895:0:0:0,-16.2556,-170.826 chr03 24153526 . AT AA,GA 24260.5 PASS AB=0.557464,0.437252;ABP=24.7222,28.8987;AC=30,12;AF=0.714286,0.285714;AN=42;AO=840,333;CIGAR=1M1X,2X;DP=1181;DPB=1181;DPRA=0,1.43764;EPP=1827.05,726.111;EPPR=11.6962;GTI=0;LEN=1,2;MEANALT=1.7619,2.23077;MQM=59.9512,59.6156;MQMR=56.75;NS=21;NUMALT=2;ODDS=4.09532;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29957,11593;QR=110;RO=4;RPL=0,0;RPP=1827.05,726.111;RPPR=11.6962;RPR=840,333;RUN=1,1;SAF=0,0;SAP=1827.05,726.111;SAR=840,333;SRF=0;SRP=11.6962;SRR=4;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,36,30:0:0:36,30:1288,1016:-187.73,-82.6908,-71.8537,-105.387,0,-96.3556 1/2:25:0,12,13:0:0:12,13:432,455:-72.6232,-37.3694,-33.7571,-35.6088,0,-31.6954 1/2:98:0,68,30:0:0:68,30:2428,1016:-280.668,-82.7061,-62.2361,-198.306,0,-189.275 1/1:53:0,53,0:0:0:53,0:1888,0:-170.195,-15.9546,0,-170.195,-15.9546,-170.195 1/1:70:0,68,2:0:0:68,2:2416,72:-217.333,-20.47,0,-211.458,-14.2354,-210.856 1/1:80:1,79,0:1:36:79,0:2828,0:-251.161,-20.4841,0,-251.462,-23.7814,-254.399 1/2:112:0,59,53:0:0:59,53:2107,1829:-320.7,-148.914,-131.153,-172.136,0,-156.182 1/2:83:0,32,51:0:0:32,51:1143,1806:-240.658,-147.468,-137.835,-93.5457,0,-78.1932 1/2:134:0,81,51:0:0:81,51:2903,1797:-383.124,-146.356,-121.972,-236.825,0,-221.472 1/2:9:0,2,7:0:0:2,7:72,248:-26.4333,-20.5572,-19.9551,-6.23466,0,-4.12745 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:20:1,19,0:1:23:19,0:684,0:-59.5904,-3.72069,0,-59.8914,-5.71957,-61.6538 1/1:88:2,86,0:2:51:86,0:3014,0:-266.62,-21.649,0,-267.222,-25.8886,-271.205 1/2:82:0,37,44:0:0:37,44:1302,1538:-231.094,-125.103,-113.965,-105.982,0,-92.7368 1/2:60:0,30,30:0:0:30,30:1076,1051:-173.626,-85.8582,-76.8273,-88.122,0,-79.0911 1/2:24:0,17,7:0:0:17,7:612,248:-70.358,-20.4246,-15.3071,-50.2877,0,-48.1805 1/1:22:0,22,0:0:0:22,0:792,0:-71.6057,-6.62266,0,-71.6057,-6.62266,-71.6057 1/2:38:0,28,10:0:0:28,10:992,355:-110.091,-29.2801,-20.8512,-81.1656,0,-78.1553 1/2:26:0,20,5:0:0:20,5:716,162:-71.4534,-13.0422,-7.02157,-58.3904,0,-56.8852 1/1:59:0,59,0:0:0:59,0:2112,0:-190.349,-17.7608,0,-190.349,-17.7608,-190.349 1/1:25:0,25,0:0:0:25,0:900,0:-81.321,-7.52575,0,-81.321,-7.52575,-81.321 chr03 24185052 . T A 41490 PASS AB=0.485473;ABP=6.4803;AC=29;AF=0.690476;AN=42;AO=2054;CIGAR=1X;DP=3040;DPB=3040;DPRA=0;EPP=4463.21;EPPR=2144.08;GTI=0;LEN=1;MEANALT=1;MQM=59.9732;MQMR=60;NS=21;NUMALT=1;ODDS=7.65912;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73564;QR=35284;RO=986;RPL=0;RPP=4463.21;RPPR=2144.08;RPR=2054;RUN=1;SAF=2054;SAP=4463.21;SAR=0;SRF=986;SRP=2144.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:204:105,99:105:3760:99:3536:-257.039,0,-277.189 0/1:138:79,59:79:2823:59:2124:-149.886,0,-212.767 0/1:178:104,74:104:3728:74:2645:-184.711,0,-282.137 1/1:176:1,175:1:36:175:6279:-561.602,-49.383,0 1/1:347:6,341:6:216:341:12227:-1080.2,-84.6669,0 1/1:145:0,145:0:0:145:5205:-468.584,-43.6494,0 0/1:236:109,127:109:3877:127:4568:-340.24,0,-278.082 0/1:163:76,87:76:2724:87:3124:-232.318,0,-196.335 0/1:294:144,150:144:5160:150:5366:-394.567,0,-376.037 0/1:16:11,5:11:396:5:176:-11.3685,0,-31.1663 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:30:0,30:0:0:30:1061:-95.7994,-9.0309,0 1/1:161:0,161:0:0:161:5773:-519.682,-48.4658,0 0/1:171:87,84:87:3112:84:3001:-218.845,0,-228.831 0/1:198:103,95:103:3684:95:3405:-247.058,0,-272.159 0/1:151:92,59:92:3304:59:2124:-145.973,0,-252.122 1/1:118:1,117:1:36:117:4136:-368.823,-31.9233,0 0/1:70:43,27:43:1536:27:968:-66.3653,0,-117.461 0/1:68:20,48:20:712:48:1706:-133.356,0,-43.9366 1/1:109:4,105:4:144:105:3772:-326.364,-19.4987,0 1/1:61:0,61:0:0:61:2188:-197.186,-18.3628,0 chr03 24185057 . T A 16915.9 PASS AB=0.521485;ABP=10.5684;AC=13;AF=0.309524;AN=42;AO=996;CIGAR=1X;DP=3009;DPB=3009;DPRA=1.57083;EPP=2157.12;EPPR=4356.83;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.999;NS=21;NUMALT=1;ODDS=10.4448;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35559;QR=71843;RO=2013;RPL=1;RPP=2157.12;RPPR=4356.83;RPR=995;RUN=1;SAF=996;SAP=2165.8;SAR=0;SRF=2013;SRP=4374.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:205:99,106:99:3529:106:3743:-275.358,0,-256.108 0/1:139:59,80:59:2104:80:2871:-216.783,0,-147.786 0/1:182:75,107:75:2647:107:3848:-291.727,0,-183.685 0/0:171:170,1:170:6045:1:36:0,-47.8779,-540.558 0/0:337:331,6:331:11795:6:213:0,-81.9308,-1041.9 0/0:141:141,0:141:5060:0:0:0,-42.4452,-455.543 0/1:234:126,108:126:4495:108:3838:-275.175,0,-334.279 0/1:163:85,78:85:3048:78:2800:-203.172,0,-225.481 0/1:289:146,143:146:5197:143:5132:-375.022,0,-380.873 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/0:160:160,0:160:5744:0:0:0,-48.1648,-517.074 0/1:167:78,89:78:2760:89:3159:-234.26,0,-198.369 0/1:196:93,103:93:3309:103:3666:-271.139,0,-239.026 0/1:152:59,93:59:2108:93:3324:-253.622,0,-144.233 0/0:118:116,2:116:4143:2:57:0,-30.1082,-367.641 0/1:70:27,43:27:972:43:1540:-117.821,0,-66.7258 0/1:68:47,21:47:1684:21:756:-47.8972,0,-131.377 0/0:106:102,4:102:3647:4:144:0,-18.5956,-315.12 0/0:61:61,0:61:2192:0:0:0,-18.3628,-197.545 chr03 24219124 . GA CG,CA 56722.7 PASS AB=0.568429,0.430793;ABP=55.3148,56.5102;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1723,554;CIGAR=2X,1X1M;DP=2282;DPB=2282.5;DPRA=0,0.968373;EPP=1912.8,319.152;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.80952,2.08333;MQM=59.96,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.06801;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=60981,19723;QR=0;RO=0;RPL=1477,419;RPP=1912.8,319.152;RPPR=0;RPR=246,135;RUN=1,1;SAF=1723,554;SAP=3744.46,1206.01;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,60,63:0:0:60,63:2092,2248:-353.75,-183.619,-165.557,-170.483,0,-151.518 1/2:109:0,65,44:0:0:65,44:2299,1561:-314.782,-127.534,-107.967,-187.602,0,-174.357 1/2:62:0,42,20:0:0:42,20:1502,712:-180.861,-58.3861,-45.7428,-122.831,0,-116.81 1/1:128:0,128,0:0:0:128,0:4563,0:-410.835,-38.5318,0,-410.835,-38.5318,-410.835 1/1:290:0,290,0:0:0:290,0:10289,0:-925.938,-87.2987,0,-925.938,-87.2987,-925.938 1/1:142:0,141,0:0:0:141,0:4996,0:-449.429,-42.4452,0,-449.429,-42.4452,-449.429 1/2:196:0,115,80:0:0:115,80:4042,2852:-561.468,-232.474,-197.855,-328.989,0,-304.906 1/2:52:0,33,19:0:0:33,19:1155,680:-149.716,-55.7526,-45.8186,-94.2619,0,-88.5424 1/2:230:0,120,110:0:0:120,110:4289,3916:-669.226,-319.519,-283.396,-350.063,0,-316.95 1/2:10:0,7,3:0:0:7,3:228,108:-27.5529,-9.17208,-7.06487,-18.7304,0,-17.8273 1/1:7:0,7,0:0:0:7,0:250,0:-22.8467,-2.10721,0,-22.8467,-2.10721,-22.8467 1/1:63:0,62,0:0:0:62,0:2185,0:-196.661,-18.6639,0,-196.661,-18.6639,-196.661 1/1:148:0,148,0:0:0:148,0:5255,0:-473.087,-44.5524,0,-473.087,-44.5524,-473.087 1/2:67:0,46,21:0:0:46,21:1611,752:-192.757,-61.6846,-47.8372,-131.428,0,-125.107 1/2:252:0,138,114:0:0:138,114:4901,4059:-730.397,-331.181,-289.639,-399.571,0,-365.253 1/2:55:0,30,25:0:0:30,25:1076,872:-159.037,-71.2679,-62.237,-88.1222,0,-80.5964 1/1:86:0,86,0:0:0:86,0:2973,0:-266.944,-25.8886,0,-266.944,-25.8886,-266.944 1/2:61:0,35,26:0:0:35,26:1239,932:-177.292,-76.3721,-65.836,-101.277,0,-93.45 1/2:69:0,40,29:0:0:40,29:1425,1031:-200.522,-84.3727,-72.3315,-116.505,0,-107.775 1/1:85:0,84,0:0:0:84,0:2991,0:-269.142,-25.2865,0,-269.142,-25.2865,-269.142 1/1:47:0,46,0:0:0:46,0:1620,0:-145.835,-13.8474,0,-145.835,-13.8474,-145.835 chr03 24235651 . C T 39281.3 PASS AB=0.544203;ABP=26.4307;AC=29;AF=0.690476;AN=42;AO=1539;CIGAR=1X;DP=2392;DPB=2392;DPRA=0;EPP=3344.91;EPPR=1853.1;GTI=1;LEN=1;MEANALT=1.04762;MQM=49.7895;MQMR=59.9953;NS=21;NUMALT=1;ODDS=1.07859;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55074;QR=30301;RO=852;RPL=846;RPP=36.0395;RPPR=63.4547;RPR=693;RUN=1;SAF=846;SAP=36.0395;SAR=693;SRF=349;SRP=63.4547;SRR=503;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:126,44:126:4467:44:1580:-88.8563,0,-351.026 0/1:52:40,12:40:1432:12:423:-20.2142,0,-113.524 0/1:111:38,73:38:1345:73:2620:-200.68,0,-87.9338 1/1:124:0,124:0:0:124:4448:-388.617,-37.3277,0 1/1:135:2,133:2:72:133:4757:-413.687,-33.8023,0 1/1:41:0,41:0:0:41:1476:-126.603,-12.3422,0 0/1:46:21,25:21:741:25:896:-63.2525,0,-53.1633 0/1:136:23,113:23:824:113:4030:-318.193,0,-33.5432 0/1:142:47,94:47:1692:94:3376:-259.343,0,-109.761 0/0:225:221,4:221:7853:4:140:0,-54.8341,-693.901 1/1:7:0,7:0:0:7:252:-21.2025,-2.10721,0 1/1:39:0,39:0:0:39:1400:-123.217,-11.7402,0 1/1:225:0,225:0:0:225:8030:-709.453,-67.7318,0 0/1:103:34,69:34:1215:69:2461:-188.725,0,-78.6497 0/1:191:81,110:81:2883:110:3948:-294.578,0,-202.21 0/1:92:77,15:77:2750:15:527:-19.5539,0,-220.046 1/1:10:0,10:0:0:10:332:-29.924,-3.0103,0 0/1:195:115,80:115:4063:80:2864:-193.667,0,-307.158 0/1:142:26,116:26:932:116:4155:-326.611,0,-41.4526 1/1:144:0,144:0:0:144:5175:-459.256,-43.3483,0 1/1:62:1,61:1:32:61:2184:-181.688,-15.4645,0 chr03 24235657 . 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T G 7349.82 PASS AB=0.55609;ABP=20.0619;AC=13;AF=0.309524;AN=42;AO=347;CIGAR=1X;DP=940;DPB=940;DPRA=1.21519;EPP=325.471;EPPR=890.908;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.86729;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12444;QR=21196;RO=592;RPL=287;RPP=325.471;RPPR=890.908;RPR=60;RUN=1;SAF=347;SAP=756.511;SAR=0;SRF=592;SRP=1288.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:9,19:9:324:19:680:-53.1003,0,-21.077 0/1:17:6,11:6:216:11:392:-30.5025,0,-14.673 0/1:103:41,62:41:1468:62:2228:-169.778,0,-101.41 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 0/1:33:29,4:29:1040:4:144:-3.37963,0,-83.9804 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:28:20,8:20:711:8:288:-17.8386,0,-55.8868 0/1:76:23,53:23:824:53:1884:-146.96,0,-51.605 0/1:78:26,52:26:921:52:1860:-144.199,0,-59.7249 0/1:13:10,3:10:360:3:108:-6.16178,0,-28.8309 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:26:26,0:26:927:0:0:0,-7.82678,-83.7474 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/1:67:26,40:26:932:40:1440:-109.709,0,-64.0095 0/1:69:21,48:21:756:48:1728:-135.034,0,-47.5962 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:55:31,24:31:1101:24:864:-61.5259,0,-82.8417 0/1:47:27,20:27:972:20:720:-50.9804,0,-73.6495 0/0:108:108,0:108:3868:0:0:0,-32.5112,-348.315 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 chr03 24235987 . C T 16464.5 PASS AB=0.523748;ABP=6.8264;AC=30;AF=0.714286;AN=42;AO=827;CIGAR=1X;DP=1202;DPB=1202;DPRA=0;EPP=1798.82;EPPR=800.033;GTI=0;LEN=1;MEANALT=1;MQM=59.9686;MQMR=59.984;NS=21;NUMALT=1;ODDS=4.40366;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29469;QR=13174;RO=375;RPL=827;RPP=1798.82;RPPR=800.033;RPR=0;RUN=1;SAF=827;SAP=1798.82;SAR=0;SRF=375;SRP=817.312;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:70:31,39:31:1095:39:1400:-105.227,0,-77.787 0/1:24:10,14:10:352:14:495:-37.6583,0,-24.7935 0/1:75:31,44:31:1091:44:1580:-119.914,0,-75.9215 1/1:48:0,48:0:0:48:1728:-155.805,-14.4494,0 1/1:91:3,88:3:108:88:3134:-272.209,-17.3186,0 1/1:34:0,34:0:0:34:1196:-107.943,-10.235,0 0/1:54:18,36:18:623:36:1288:-99.968,0,-40.1375 0/1:95:51,44:51:1774:44:1568:-112.814,0,-131.339 0/1:127:69,58:69:2417:58:2060:-147.438,0,-179.556 0/1:18:8,10:8:271:10:360:-27.3258,0,-19.3009 1/1:5:0,5:0:0:5:165:-15.1736,-1.50515,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:75:0,75:0:0:75:2668:-240.365,-22.5773,0 0/1:81:40,41:40:1420:41:1467:-107.942,0,-103.714 0/1:123:68,55:68:2392:55:1972:-140.728,0,-178.51 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 1/1:15:1,14:1:36:14:504:-42.0998,-0.917175,0 0/1:61:26,35:26:915:35:1222:-91.9011,0,-64.3027 0/1:39:11,28:11:392:28:1008:-79.2962,0,-23.8799 1/1:83:0,83:0:0:83:2939:-264.74,-24.9855,0 1/1:41:0,41:0:0:41:1459:-131.605,-12.3422,0 chr03 24277115 . T G 12119.1 PASS AB=0.372796;ABP=114.603;AC=30;AF=0.714286;AN=42;AO=648;CIGAR=1X;DP=1149;DPB=1149;DPRA=0;EPP=1401.45;EPPR=1082.25;GTI=2;LEN=1;MEANALT=1;MQM=59.5941;MQMR=60;NS=21;NUMALT=1;ODDS=7.3579;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23085;QR=17865;RO=501;RPL=1;RPP=1401.45;RPPR=1082.25;RPR=647;RUN=1;SAF=648;SAP=1410.12;SAR=0;SRF=501;SRP=1090.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:45,30:45:1589:30:1076:-74.5756,0,-120.721 0/1:59:39,20:39:1396:20:716:-47.0069,0,-108.178 0/1:46:31,15:31:1112:15:528:-34.0034,0,-86.544 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 1/1:99:1,98:1:36:98:3475:-309.223,-26.2037,0 1/1:38:1,37:1:36:37:1332:-116.556,-7.84087,0 0/1:106:76,30:76:2732:30:1065:-62.885,0,-214.213 0/1:50:34,16:34:1212:16:572:-36.7619,0,-94.3348 0/1:90:62,28:62:2204:28:1004:-63.5823,0,-171.533 0/1:18:11,7:11:392:7:246:-17.0618,0,-30.2015 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:42:0,42:0:0:42:1497:-135.023,-12.6433,0 0/1:77:46,31:46:1625:31:1107:-76.7608,0,-123.358 0/1:100:58,42:58:2080:42:1499:-105.09,0,-157.367 0/1:30:19,11:19:684:11:378:-25.3179,0,-52.8594 1/1:32:0,32:0:0:32:1134:-102.33,-9.63296,0 0/1:94:53,41:53:1876:41:1463:-102.021,0,-140.822 0/1:49:24,25:24:855:25:896:-66.2099,0,-62.5197 1/1:59:1,58:1:36:58:2070:-182.781,-14.1625,0 1/1:45:0,45:0:0:45:1591:-143.471,-13.5464,0 chr03 24277134 . T A 9586.62 PASS AB=0.340674;ABP=173.229;AC=30;AF=0.714286;AN=42;AO=564;CIGAR=1X;DP=1075;DPB=1075;DPRA=0;EPP=1227.72;EPPR=1112.63;GTI=2;LEN=1;MEANALT=1;MQM=59.5691;MQMR=60;NS=21;NUMALT=1;ODDS=0.0388694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19387;QR=18270;RO=511;RPL=564;RPP=1227.72;RPPR=1112.63;RPR=0;RUN=1;SAF=564;SAP=1227.72;SAR=0;SRF=511;SRP=1112.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:44,29:44:1576:29:989:-67.3396,0,-120.156 0/1:56:39,17:39:1400:17:568:-34.5766,0,-109.442 0/1:45:32,13:32:1143:13:453:-27.5533,0,-89.6323 1/1:21:0,21:0:0:21:736:-66.5624,-6.32163,0 1/1:81:1,80:1:36:80:2745:-243.661,-20.7852,0 1/1:38:1,37:1:36:37:1300:-113.673,-7.84087,0 0/1:103:75,28:75:2675:28:981:-57.1039,0,-209.989 0/1:51:37,14:37:1328:14:488:-28.8979,0,-104.47 0/1:89:66,23:66:2376:23:784:-44.0803,0,-187.306 0/1:15:12,3:12:424:3:104:-5.18736,0,-33.981 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:35:0,35:0:0:35:1228:-110.824,-10.5361,0 0/1:75:48,27:48:1716:27:940:-62.3363,0,-132.148 0/1:97:58,39:58:2067:39:1339:-91.6017,0,-157.1 0/1:26:19,7:19:684:7:240:-14.1065,0,-54.0635 1/1:30:0,30:0:0:30:1023:-92.3643,-9.0309,0 0/1:94:55,39:55:1949:39:1332:-91.5332,0,-147.387 0/1:48:24,24:24:860:24:811:-58.8519,0,-63.2724 1/1:51:0,51:0:0:51:1678:-151.207,-15.3525,0 1/1:37:0,37:0:0:37:1288:-116.22,-11.1381,0 chr03 24309112 . CTCGTC TTTGTC,TTCGTC 30293.7 PASS AB=0.469847,0.525653;ABP=11.7841,9.36054;AC=30,12;AF=0.714286,0.285714;AN=42;AO=988,585;CIGAR=1X1M1X3M,1X5M;DP=1585;DPB=1585;DPRA=0,1.62174;EPP=2148.43,1273.32;EPPR=0;GTI=1;LEN=6,1;MEANALT=2.09524,2.46154;MQM=37.9484,59.4667;MQMR=0;NS=21;NUMALT=2;ODDS=6.49414;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34460,20951;QR=0;RO=0;RPL=0,0;RPP=2148.43,1273.32;RPPR=0;RPR=988,585;RUN=1,1;SAF=988,585;SAP=2148.43,1273.32;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:85:0,17,68:0:0:17,68:595,2439:-245.341,-199.256,-194.138,-46.425,0,-25.9549 1/2:55:0,20,35:0:0:20,35:679,1260:-153.733,-103.169,-97.1479,-50.8956,0,-40.3595 1/2:110:0,54,56:0:0:54,56:1904,2016:-310.961,-164.685,-148.43,-146.623,0,-129.765 1/1:61:0,61,0:0:0:61,0:2137,0:-183.549,-18.3628,0,-183.549,-18.3628,-183.549 1/1:43:0,42,0:0:0:42,0:1477,0:-126.74,-12.6433,0,-126.74,-12.6433,-126.74 1/1:72:0,72,0:0:0:72,0:2463,0:-204.197,-21.6742,0,-204.197,-21.6742,-204.197 1/2:93:0,39,54:0:0:39,54:1343,1940:-257.638,-158.55,-146.81,-99.4217,0,-83.166 1/2:214:0,122,92:0:0:122,92:4228,3277:-586.678,-267.327,-230.601,-319.694,0,-291.999 1/2:122:0,54,67:0:0:54,67:1915,2389:-345.09,-194.808,-178.552,-150.351,0,-130.182 1/2:13:0,6,7:0:0:6,7:212,252:-36.9507,-20.9217,-19.1156,-16.373,0,-14.2658 1/1:6:0,6,0:0:0:6,0:210,0:-17.5947,-1.80618,0,-17.5947,-1.80618,-17.5947 1/1:26:0,26,0:0:0:26,0:913,0:-76.7418,-7.82678,0,-76.7418,-7.82678,-76.7418 1/1:133:0,132,0:0:0:132,0:4661,0:-398.891,-39.736,0,-398.891,-39.736,-398.891 1/2:144:0,70,73:0:0:70,73:2422,2604:-398.084,-211.866,-190.794,-186.218,0,-164.243 1/2:82:0,28,52:0:0:28,52:1001,1866:-229.498,-152.274,-143.845,-77.2922,0,-61.6387 1/2:33:0,13,20:0:0:13,20:466,716:-95.4056,-58.7428,-54.8295,-37.0139,0,-30.9933 1/1:38:0,36,1:0:0:36,1:1253,36:-109.267,-10.8371,0,-106.329,-7.8608,-106.028 1/2:85:0,45,39:0:0:45,39:1554,1404:-232.267,-114.613,-101.067,-117.722,0,-105.982 1/2:75:0,54,21:0:0:54,21:1880,752:-206.854,-61.5266,-45.271,-145.678,0,-139.356 1/1:48:0,48,0:0:0:48,0:1683,0:-141.997,-14.4494,0,-141.997,-14.4494,-141.997 1/1:47:0,43,0:0:0:43,0:1464,0:-120.32,-12.9443,0,-120.32,-12.9443,-120.32 chr03 24309138 . A G 17169 PASS AB=0.50396;ABP=3.1479;AC=30;AF=0.714286;AN=42;AO=975;CIGAR=1X;DP=1478;DPB=1478;DPRA=0;EPP=2111.52;EPPR=1095.26;GTI=2;LEN=1;MEANALT=1;MQM=38.039;MQMR=59.4016;NS=21;NUMALT=1;ODDS=0.150112;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34644;QR=17586;RO=503;RPL=974;RPP=2111.52;RPPR=1095.26;RPR=1;RUN=1;SAF=975;SAP=2120.2;SAR=0;SRF=503;SRP=1095.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:60,17:60:2106:17:612:-29.6978,0,-166.437 0/1:48:29,19:29:1002:19:667:-40.6089,0,-76.0383 0/1:103:50,53:50:1764:53:1895:-129.169,0,-127.865 1/1:59:0,59:0:0:59:2094:-179.245,-17.7608,0 1/1:42:0,42:0:0:42:1487:-127.181,-12.6433,0 1/1:71:0,71:0:0:71:2540:-208.372,-21.3731,0 0/1:88:50,38:50:1760:38:1349:-83.5801,0,-132.14 0/1:191:74,117:74:2582:117:4187:-293.135,0,-174.884 0/1:115:61,54:61:2139:54:1919:-132.594,0,-158.152 0/1:12:6,6:6:216:6:212:-14.5482,0,-16.1782 1/1:6:0,6:0:0:6:216:-17.8539,-1.80618,0 1/1:26:0,26:0:0:26:912:-76.6263,-7.82678,0 1/1:132:1,131:1:32:131:4679:-395.1,-36.5394,0 0/1:133:68,65:68:2363:65:2301:-155.329,0,-172.492 0/1:76:47,29:47:1657:29:1032:-65.227,0,-126.519 0/1:28:15,13:15:540:13:464:-32.3419,0,-40.5034 1/1:38:1,37:1:36:37:1323:-110.408,-7.84087,0 0/1:78:33,45:33:1124:45:1571:-109.079,0,-77.9662 0/1:61:8,53:8:265:53:1888:-143.601,0,-5.80925 1/1:48:0,48:0:0:48:1688:-142.176,-14.4494,0 1/1:46:0,46:0:0:46:1608:-127.541,-13.8474,0 chr03 24309208 . AC GA 21687.9 PASS AB=0.477516;ABP=7.11145;AC=30;AF=0.714286;AN=42;AO=1093;CIGAR=2X;DP=1593;DPB=1593;DPRA=0;EPP=2376.43;EPPR=1084.4;GTI=0;LEN=2;MEANALT=1.09524;MQM=59.9625;MQMR=60;NS=21;NUMALT=1;ODDS=4.82967;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38654;QR=17498;RO=498;RPL=0;RPP=2376.43;RPPR=1084.4;RPR=1093;RUN=1;SAF=0;SAP=2376.43;SAR=1093;SRF=0;SRP=1084.4;SRR=498;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:51,42:51:1778:42:1492:-106.578,0,-132.303 0/1:42:21,21:21:745:21:731:-53.4663,0,-54.7302 0/1:51:30,21:30:1016:21:743:-51.8405,0,-76.3897 1/1:84:0,84:0:0:84:2976:-268.07,-25.2865,0 1/1:189:2,187:2:72:187:6606:-587.788,-50.0579,0 1/1:71:1,70:1:36:70:2466:-218.593,-17.7749,0 0/1:113:57,56:57:2009:56:1974:-143.916,0,-147.065 0/1:59:36,23:36:1282:23:817:-56.0914,0,-97.9233 0/1:106:63,43:63:2220:43:1501:-103.471,0,-168.153 0/1:11:8,3:8:270:3:108:-6.76384,0,-21.3161 1/1:6:0,6:0:0:6:211:-19.3333,-1.80618,0 1/1:11:0,11:0:0:11:383:-34.4292,-3.31133,0 1/1:111:2,108:2:72:108:3832:-338.281,-26.5495,0 0/1:78:53,25:53:1877:25:875:-55.5854,0,-145.728 0/1:108:64,44:64:2238:44:1552:-107.459,0,-169.169 0/1:57:23,34:23:801:34:1205:-91.5965,0,-55.2466 1/1:45:2,43:2:72:43:1515:-129.804,-6.70963,0 0/1:112:52,60:52:1853:60:2131:-158.342,0,-133.334 0/1:104:29,74:29:1023:74:2627:-205.312,0,-61.0155 1/1:68:4,64:4:134:64:2274:-192.532,-8.07999,0 1/1:74:0,74:0:0:74:2635:-237.398,-22.2762,0 chr03 24309234 . A G 10703.8 PASS AB=0.515184;ABP=4.85676;AC=12;AF=0.285714;AN=42;AO=486;CIGAR=1X;DP=1574;DPB=1574;DPRA=1.94325;EPP=55.1256;EPPR=128.866;GTI=0;LEN=1;MEANALT=1.05882;MQM=60;MQMR=59.9457;NS=21;NUMALT=1;ODDS=5.58677;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17293;QR=38715;RO=1087;RPL=297;RPP=55.1256;RPPR=128.866;RPR=189;RUN=1;SAF=0;SAP=1058.35;SAR=486;SRF=0;SRP=2363.4;SRR=1087;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:41,48:41:1464:48:1710:-127.394,0,-105.264 0/1:43:22,21:22:780:21:730:-53.0752,0,-57.5787 0/1:50:22,28:22:788:28:996:-74.9034,0,-56.1933 0/0:84:84,0:84:3003:0:0:0,-25.2865,-270.501 0/0:184:182,2:182:6463:2:72:0,-48.5528,-574.926 0/0:70:69,1:69:2454:1:32:0,-17.8728,-217.915 0/1:111:56,55:56:1976:55:1960:-143.261,0,-144.698 0/1:58:23,35:23:809:35:1242:-94.6246,0,-55.6686 0/1:105:41,64:41:1456:64:2284:-174.214,0,-99.7278 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/0:6:6,0:6:207:0:0:0,-1.80618,-18.9669 0/0:9:9,0:9:324:0:0:0,-2.70927,-28.4751 0/0:115:113,2:113:4039:2:72:0,-27.7817,-356.775 0/1:77:23,53:23:816:53:1884:-146.754,0,-50.6735 0/1:109:47,62:47:1684:62:2208:-166.171,0,-119.035 0/1:56:34,22:34:1215:22:792:-54.748,0,-92.7981 0/0:47:45,2:45:1620:2:72:0,-7.31169,-139.251 0/1:110:58,52:58:2079:52:1848:-133.484,0,-154.266 0/1:104:76,28:76:2719:28:995:-58.5569,0,-213.646 0/0:66:62,4:62:2187:4:144:0,-6.55436,-183.782 0/0:71:71,0:71:2524:0:0:0,-21.3731,-227.409 chr03 24309294 . T C 21570.8 PASS AB=0.472422;ABP=11.2744;AC=29;AF=0.690476;AN=42;AO=1101;CIGAR=1X;DP=1764;DPB=1764;DPRA=0;EPP=2350.57;EPPR=1438.35;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9864;MQMR=60;NS=21;NUMALT=1;ODDS=4.92486;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39222;QR=23668;RO=661;RPL=5;RPP=2350.57;RPPR=1438.35;RPR=1096;RUN=1;SAF=1101;SAP=2393.8;SAR=0;SRF=661;SRP=1438.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:160:87,73:87:3109:73:2596:-185.722,0,-231.871 0/1:32:13,19:13:468:19:661:-50.1787,0,-32.8267 0/1:91:57,34:57:2044:34:1216:-82.3528,0,-156.838 1/1:70:0,70:0:0:70:2487:-224.083,-21.0721,0 1/1:141:0,140:0:0:140:5006:-450.364,-42.1442,0 1/1:45:1,44:1:36:44:1559:-137.002,-9.94808,0 0/1:136:75,61:75:2673:61:2178:-155.342,0,-199.874 0/1:143:87,56:87:3113:56:2004:-137.586,0,-237.348 0/1:190:99,91:99:3552:91:3247:-235.255,0,-262.692 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 1/1:83:0,83:0:0:83:2944:-265.193,-24.9855,0 0/1:118:69,48:69:2457:48:1697:-117.431,0,-185.803 0/1:178:87,91:87:3124:91:3256:-239.677,0,-227.802 0/1:28:13,15:13:468:15:536:-40.146,0,-34.0308 0/1:27:4,23:4:144:23:801:-64.2789,0,-5.18581 0/1:83:41,42:41:1472:42:1492:-109.589,0,-107.791 0/1:51:19,32:19:684:32:1144:-87.917,0,-46.5378 1/1:85:1,84:1:36:84:2990:-265.734,-21.9893,0 1/1:47:0,47:0:0:47:1680:-151.487,-14.1484,0 chr03 24333136 . T C 9498.07 PASS AB=0.49444;ABP=3.32423;AC=12;AF=0.285714;AN=42;AO=583;CIGAR=1X;DP=1875;DPB=1875;DPRA=1.91003;EPP=1268.98;EPPR=2802.04;GTI=0;LEN=1;MEANALT=1.14286;MQM=60;MQMR=59.9736;NS=21;NUMALT=1;ODDS=3.49734;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20636;QR=46113;RO=1289;RPL=0;RPP=1268.98;RPPR=2802.04;RPR=583;RUN=1;SAF=583;SAP=1268.98;SAR=0;SRF=1289;SRP=2802.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:54,55:54:1932:55:1953:-143.232,0,-141.344 0/1:42:23,19:23:824:19:672:-48.1636,0,-61.8401 0/1:113:45,67:45:1604:67:2384:-180.743,0,-110.575 0/0:90:90,0:90:3209:0:0:0,-27.0927,-289.032 0/0:193:192,1:192:6884:1:36:0,-54.5005,-616.029 0/0:124:124,0:124:4432:0:0:0,-37.3277,-399.052 0/1:123:47,76:47:1680:76:2678:-204.24,0,-114.46 0/1:108:44,64:44:1572:64:2250:-170.252,0,-109.26 0/1:231:134,97:134:4820:97:3428:-239.2,0,-364.414 0/1:14:5,9:5:180:9:320:-24.9279,0,-12.3376 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/0:73:73,0:73:2624:0:0:0,-21.9752,-236.407 0/1:118:56,62:56:1943:62:2191:-161.934,0,-139.619 0/1:172:103,69:103:3700:69:2440:-168.077,0,-281.424 0/1:80:51,28:51:1828:28:1004:-66.5347,0,-140.66 0/0:60:60,0:60:2137:0:0:0,-18.0618,-192.596 0/1:32:11,21:11:396:21:748:-58.0123,0,-26.3498 0/1:27:16,11:16:572:11:392:-27.4922,0,-43.6856 0/0:124:120,4:120:4312:4:140:0,-24.3831,-374.534 0/0:28:27,0:27:968:0:0:0,-8.12781,-87.0776 chr03 24333146 . G A 25938 PASS AB=0.509197;ABP=3.88906;AC=30;AF=0.714286;AN=42;AO=1312;CIGAR=1X;DP=1904;DPB=1904;DPRA=0;EPP=2843.3;EPPR=1266.87;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9741;MQMR=60;NS=21;NUMALT=1;ODDS=3.71678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46228;QR=20948;RO=590;RPL=1;RPP=2843.3;RPPR=1266.87;RPR=1311;RUN=1;SAF=1312;SAP=2851.98;SAR=0;SRF=590;SRP=1284.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:56,58:56:1984:58:2023:-148.02,0,-144.514 0/1:42:19,23:19:684:23:820:-61.4793,0,-49.2471 0/1:118:70,47:70:2481:47:1645:-112.756,0,-187.962 1/1:91:0,91:0:0:91:3205:-288.675,-27.3937,0 1/1:196:2,194:2:72:194:6778:-603.262,-52.1652,0 1/1:124:0,124:0:0:124:4433:-399.14,-37.3277,0 0/1:123:75,47:75:2679:47:1653:-111.97,0,-204.269 0/1:115:67,48:67:2396:48:1689:-117.676,0,-181.279 0/1:233:98,135:98:3475:135:4805:-362.468,0,-242.819 0/1:15:10,5:10:360:5:180:-12.0366,0,-28.2289 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:9:0,9:0:0:9:313:-28.5051,-2.70927,0 1/1:72:0,72:0:0:72:2568:-231.369,-21.6742,0 0/1:120:57,63:57:2002:63:2204:-162.5,0,-144.327 0/1:177:73,104:73:2577:104:3674:-277.582,0,-178.894 0/1:79:28,51:28:991:51:1767:-135.526,0,-65.7222 1/1:61:0,61:0:0:61:2129:-191.878,-18.3628,0 0/1:32:21,11:21:752:11:396:-26.3498,0,-58.3733 0/1:28:11,17:11:387:17:604:-46.2618,0,-26.7371 1/1:122:3,119:3:108:119:4162:-364.529,-26.6505,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 chr03 24333329 . C T 33118.7 PASS AB=0.485411;ABP=5.10113;AC=30;AF=0.714286;AN=42;AO=1599;CIGAR=1X;DP=2195;DPB=2195;DPRA=0;EPP=3475.19;EPPR=1295.04;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9819;MQMR=60;NS=21;NUMALT=1;ODDS=18.1595;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57181;QR=21255;RO=595;RPL=0;RPP=3475.19;RPPR=1295.04;RPR=1599;RUN=1;SAF=0;SAP=3475.19;SAR=1599;SRF=0;SRP=1295.04;SRR=595;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:15:6,9:6:216:9:324:-24.9904,0,-15.2751 0/1:55:32,23:32:1148:23:824:-57.9267,0,-87.0732 0/1:112:61,51:61:2141:51:1828:-131.086,0,-159.239 1/1:150:0,150:0:0:150:5352:-481.812,-45.1545,0 1/1:365:5,360:5:180:360:12876:-1142.1,-93.3239,0 1/1:95:2,93:2:72:93:3320:-292.182,-21.7611,0 0/1:154:63,91:63:2256:91:3252:-246.543,0,-156.944 0/1:113:53,60:53:1899:60:2141:-158.94,0,-137.171 0/1:211:107,104:107:3836:104:3713:-270.855,0,-281.919 0/1:12:9,3:9:324:3:108:-6.46281,0,-25.8935 1/1:19:0,19:0:0:19:675:-61.077,-5.71957,0 1/1:51:0,51:0:0:51:1828:-164.801,-15.3525,0 1/1:152:0,152:0:0:152:5424:-488.258,-45.7566,0 0/1:118:69,49:69:2461:49:1745:-121.812,0,-186.221 0/1:116:65,50:65:2323:50:1796:-126.944,0,-174.351 0/1:143:76,67:76:2715:67:2399:-173.119,0,-201.546 1/1:86:1,85:1:36:85:3056:-271.67,-22.2903,0 0/1:48:30,18:30:1072:18:648:-44.2024,0,-82.343 0/1:34:10,24:10:360:24:864:-67.8475,0,-22.5093 1/1:119:6,113:6:216:113:4040:-343.997,-16.0321,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 chr03 24333354 . T A 33291.9 PASS AB=0.482487;ABP=6.05264;AC=30;AF=0.714286;AN=42;AO=1601;CIGAR=1X;DP=2207;DPB=2207;DPRA=0;EPP=3479.54;EPPR=1318.92;GTI=0;LEN=1;MEANALT=1;MQM=59.9819;MQMR=60;NS=21;NUMALT=1;ODDS=20.4026;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57445;QR=21647;RO=606;RPL=1601;RPP=3479.54;RPPR=1318.92;RPR=0;RUN=1;SAF=0;SAP=3479.54;SAR=1601;SRF=0;SRP=1318.92;SRR=606;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:16:7,9:7:237:9:324:-24.6894,0,-16.8426 0/1:58:34,24:34:1220:24:860:-60.2621,0,-92.6471 0/1:115:62,53:62:2209:53:1908:-137.379,0,-164.455 1/1:151:0,151:0:0:151:5387:-484.958,-45.4555,0 1/1:363:4,359:4:144:359:12886:-1146.24,-95.9603,0 1/1:99:3,96:3:108:96:3448:-300.457,-19.7268,0 0/1:156:64,92:64:2292:92:3308:-250.977,0,-159.581 0/1:116:56,60:56:1989:60:2152:-159.028,0,-144.363 0/1:210:107,103:107:3818:103:3696:-269.625,0,-280.598 0/1:12:9,3:9:324:3:108:-6.46281,0,-25.8935 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:51:0,51:0:0:51:1836:-165.521,-15.3525,0 1/1:152:0,152:0:0:152:5452:-490.761,-45.7566,0 0/1:116:68,48:68:2444:48:1724:-120.526,0,-185.295 0/1:119:66,53:66:2376:53:1900:-135.455,0,-178.275 0/1:145:79,66:79:2817:66:2376:-170.448,0,-210.119 1/1:84:1,83:1:36:83:2977:-264.564,-21.6882,0 0/1:46:29,17:29:1029:17:612:-41.5661,0,-79.0738 0/1:33:10,23:10:360:23:828:-64.9101,0,-22.8103 1/1:119:7,112:7:244:112:4011:-338.879,-13.5231,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 chr03 24395293 . A G 7265.51 PASS AB=0.407502;ABP=90.1821;AC=12;AF=0.285714;AN=42;AO=478;CIGAR=1X;DP=2004;DPB=2004;DPRA=1.05866;EPP=1040.97;EPPR=3312.33;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.977;MQMR=59.9875;NS=21;NUMALT=1;ODDS=2.40489;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17029;QR=54582;RO=1524;RPL=478;RPP=1040.97;RPPR=3312.33;RPR=0;RUN=1;SAF=0;SAP=1040.97;SAR=478;SRF=0;SRP=3312.33;SRR=1524;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:46,48:46:1637:48:1704:-125.348,0,-119.32 0/1:112:47,64:47:1688:64:2296:-173.127,0,-118.433 0/1:64:44,20:44:1568:20:716:-45.5018,0,-122.146 0/0:80:80,0:80:2843:0:0:0,-24.0824,-256.107 0/0:263:263,0:263:9415:0:0:0,-79.1709,-847.311 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.14 0/1:134:74,60:74:2648:60:2129:-151.538,0,-198.228 0/1:25:15,10:15:536:10:356:-24.8555,0,-41.0491 0/1:238:154,84:154:5524:84:2995:-198.137,0,-425.639 0/1:36:29,7:29:1044:7:248:-11.8271,0,-83.4377 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/0:98:98,0:98:3520:0:0:0,-29.5009,-317.009 0/1:51:27,24:27:964:24:856:-62.0086,0,-71.7243 0/1:113:62,50:62:2220:50:1792:-127.487,0,-165.989 0/1:68:47,21:47:1688:21:756:-47.8972,0,-131.737 0/0:66:66,0:66:2364:0:0:0,-19.868,-213.018 0/1:150:82,68:82:2944:68:2397:-170.832,0,-219.994 0/1:88:66,22:66:2372:22:784:-44.3933,0,-187.247 0/0:139:139,0:139:4976:0:0:0,-41.8432,-447.989 0/0:70:70,0:70:2507:0:0:0,-21.0721,-225.882 chr03 24476716 . GAATC CAATT,CAATC 46653.6 PASS AB=0.597222,0.395468;ABP=115.324,132.848;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1668,555;CIGAR=1X3M1X,1X4M;DP=2240;DPB=2240;DPRA=0,1.61321;EPP=3538.69,1190.87;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.2381,2.71429;MQM=59.5893,55.1514;MQMR=0;NS=21;NUMALT=2;ODDS=2.64938;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58853,19807;QR=0;RO=0;RPL=1658,553;RPP=3538.69,1190.87;RPPR=0;RPR=10,2;RUN=1,1;SAF=1668,555;SAP=3625.03,1208.18;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:128:0,65,62:0:0:65,62:2307,2201:-366.855,-178.903,-159.336,-188.044,0,-169.381 1/2:104:0,77,27:0:0:77,27:2719,968:-300.039,-78.6628,-55.4835,-221.731,0,-213.603 1/2:89:0,50,37:0:0:50,37:1765,1315:-250.358,-106.822,-91.7705,-143.539,0,-132.401 1/1:161:0,157,0:0:0:157,0:5533,0:-497.733,-47.2617,0,-497.733,-47.2617,-497.733 1/1:209:0,198,10:0:0:198,10:6994,360:-629.091,-59.6039,0,-599.735,-30.1941,-596.725 1/1:52:0,52,0:0:0:52,0:1812,0:-163.343,-15.6536,0,-163.343,-15.6536,-163.343 1/2:124:0,77,47:0:0:77,47:2724,1680:-358.548,-136.695,-113.516,-222.208,0,-208.06 1/2:106:0,76,30:0:0:76,30:2692,1065:-306.317,-87.1289,-64.2506,-219.543,0,-210.512 1/2:141:0,98,41:0:0:98,41:3462,1472:-401.776,-119.838,-90.3374,-282.015,0,-269.673 1/2:6:0,4,2:0:0:4,2:142,72:-17.7887,-6.22122,-5.0171,-11.9252,0,-11.3231 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:28:0,28,0:0:0:28,0:1001,0:-90.406,-8.42884,0,-90.406,-8.42884,-90.406 1/1:97:0,97,0:0:0:97,0:3402,0:-306.381,-29.1999,0,-306.381,-29.1999,-306.381 1/2:163:0,107,53:0:0:107,53:3760,1886:-459.414,-153.376,-121.165,-306.08,0,-290.125 1/2:259:0,129,128:0:0:129,128:4542,4572:-741.91,-372.189,-333.356,-369.76,0,-331.228 1/2:90:0,54,36:0:0:54,36:1922,1279:-261.124,-104.479,-88.2231,-157.001,0,-146.164 1/1:144:0,143,0:0:0:143,0:5063,0:-455.197,-43.0473,0,-455.197,-43.0473,-455.197 1/2:97:0,46,51:0:0:46,51:1626,1821:-280.678,-148.283,-134.435,-132.749,0,-117.397 1/2:61:0,34,27:0:0:34,27:1199,972:-177.29,-79.6678,-69.4327,-97.9785,0,-89.8507 1/1:133:0,128,4:0:0:128,4:4478,144:-402.721,-38.5318,0,-390.981,-26.7916,-389.777 1/1:41:0,41,0:0:0:41,0:1458,0:-131.428,-12.3422,0,-131.428,-12.3422,-131.428 chr03 24476744 . C T 33186.6 PASS AB=0.463905;ABP=40.1621;AC=12;AF=0.285714;AN=42;AO=1546;CIGAR=1X;DP=5409;DPB=5409;DPRA=1.44818;EPP=3360.11;EPPR=8387.07;GTI=0;LEN=1;MEANALT=1.11765;MQM=54.6151;MQMR=59.5183;NS=21;NUMALT=1;ODDS=26.8353;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54865;QR=136630;RO=3861;RPL=549;RPP=284.914;RPPR=194.168;RPR=997;RUN=1;SAF=549;SAP=284.914;SAR=997;SRF=1639;SRP=194.168;SRR=2222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:306:149,157:149:5281:157:5562:-405.018,0,-383.124 0/1:288:172,116:172:6052:116:4086:-279.563,0,-457.639 0/1:254:124,130:124:4384:130:4634:-339.35,0,-317.446 0/0:360:360,0:360:12742:0:0:0,-108.371,-1146.45 0/0:492:478,14:478:16911:14:500:0,-102.879,-1475.95 0/0:221:220,1:220:7831:1:36:0,-63.14,-700.413 0/1:347:184,163:184:6534:163:5814:-416.443,0,-483.583 0/1:239:139,100:139:4904:100:3553:-247.156,0,-369.462 0/1:421:236,185:236:8331:185:6550:-462.228,0,-623.048 0/1:26:7,19:7:248:19:658:-51.3477,0,-14.8374 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.1916 0/0:70:69,1:69:2480:1:36:0,-17.4789,-219.838 0/0:303:302,1:302:10711:1:36:0,-87.6164,-960.042 0/1:337:206,131:206:7249:131:4639:-315,0,-550.993 0/1:488:242,246:242:8574:246:8785:-642.021,0,-623.94 0/1:271:128,143:128:4534:143:5037:-370.87,0,-326.585 0/0:290:290,0:290:10244:0:0:0,-87.2987,-921.868 0/1:163:92,71:92:3240:71:2538:-178.719,0,-242.712 0/1:143:80,62:80:2823:62:2185:-152.878,0,-211.193 0/0:284:277,6:277:9823:6:216:0,-65.779,-863 0/0:84:84,0:84:2946:0:0:0,-25.2865,-265.167 chr03 24476756 . G A 16830.6 PASS AB=0.505793;ABP=3.58899;AC=12;AF=0.285714;AN=42;AO=1012;CIGAR=1X;DP=3296;DPB=3296;DPRA=1.59811;EPP=2200.54;EPPR=4945.29;GTI=0;LEN=1;MEANALT=1.23529;MQM=54.2737;MQMR=59.3697;NS=21;NUMALT=1;ODDS=10.6202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36039;QR=81149;RO=2280;RPL=0;RPP=2200.54;RPPR=4945.29;RPR=1012;RUN=1;SAF=0;SAP=2200.54;SAR=1012;SRF=0;SRP=4953.97;SRR=2280;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:84,100:84:2969:100:3535:-261.457,0,-211.833 0/1:191:101,89:101:3602:89:3178:-227.71,0,-266.814 0/1:171:79,92:79:2783:92:3287:-243.696,0,-198.571 0/0:204:204,0:204:7266:0:0:0,-61.4101,-653.842 0/0:295:292,3:292:10429:3:99:0,-79.5845,-927.958 0/0:172:170,1:170:6022:1:36:0,-48.4374,-538.327 0/1:233:112,121:112:3986:121:4322:-316.412,0,-288.603 0/1:143:73,70:73:2591:70:2492:-179.903,0,-189.899 0/1:284:137,146:137:4903:146:5217:-383.793,0,-355.917 0/1:21:4,17:4:144:17:604:-47.5377,0,-6.99199 0/0:16:16,0:16:563:0:0:0,-4.81648,-50.9724 0/0:44:43,1:43:1526:1:36:0,-9.65215,-134.016 0/0:216:214,1:214:7592:1:36:0,-61.4555,-679.569 0/1:183:102,81:102:3639:81:2871:-202.614,0,-272.416 0/1:238:116,122:116:4133:122:4357:-319.521,0,-299.605 0/1:188:79,109:79:2832:109:3886:-292.689,0,-198.255 0/0:158:158,0:158:5640:0:0:0,-47.5627,-507.552 0/1:67:46,21:46:1633:21:756:-47.8325,0,-127.076 0/1:82:46,36:46:1656:36:1255:-88.0146,0,-124.637 0/0:161:159,2:159:5645:2:72:0,-41.6388,-501.328 0/0:45:45,0:45:1595:0:0:0,-13.5463,-143.795 chr03 24476759 . C T 41924.4 PASS AB=0.478534;ABP=10.6548;AC=30;AF=0.714286;AN=42;AO=2118;CIGAR=1X;DP=3128;DPB=3128;DPRA=0;EPP=4584.83;EPPR=2194.03;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.2965;MQMR=54.4182;NS=21;NUMALT=1;ODDS=4.46224;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74729;QR=35849;RO=1009;RPL=2;RPP=4584.83;RPPR=2194.03;RPR=2116;RUN=1;SAF=0;SAP=4602.19;SAR=2118;SRF=0;SRP=2194.03;SRR=1009;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:95,84:95:3365:84:2952:-211.233,0,-247.926 0/1:186:91,95:91:3225:95:3364:-246.506,0,-233.39 0/1:162:88,74:88:3143:74:2576:-183.239,0,-233.449 1/1:192:0,192:0:0:192:6820:-613.727,-57.7978,0 1/1:270:3,267:3:108:267:9430:-837.91,-71.297,0 1/1:152:4,148:4:140:148:5241:-458.029,-33.0069,0 0/1:217:120,96:120:4242:96:3386:-239.495,0,-313.689 0/1:141:70,71:70:2491:71:2526:-184.949,0,-180.989 0/1:272:147,125:147:5247:125:4441:-317.957,0,-390.069 0/1:20:16,4:16:576:4:144:-7.29302,0,-45.9476 1/1:14:0,14:0:0:14:492:-44.559,-4.21442,0 1/1:43:3,40:3:108:40:1432:-119.09,-2.87388,0 1/1:207:1,206:1:36:206:7226:-646.619,-58.7175,0 0/1:181:82,99:82:2910:99:3511:-261.613,0,-206.893 0/1:229:122,107:122:4342:107:3774:-270.731,0,-320.889 0/1:177:107,70:107:3811:70:2449:-167.232,0,-289.255 1/1:147:0,147:0:0:147:5162:-464.582,-44.2514,0 0/1:65:21,44:21:741:44:1521:-117.603,0,-47.0834 0/1:81:36,45:36:1256:45:1586:-118.638,0,-88.6737 1/1:152:2,150:2:72:150:5296:-469.941,-38.9295,0 1/1:41:1,40:1:36:40:1400:-122.645,-8.74396,0 chr03 24476768 . TGCG CCCG,CCCA 68314.7 PASS AB=0.488048,0.503486;ABP=5.50187,3.22226;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2273,1021;CIGAR=2X2M,2X1M1X;DP=3321;DPB=3321.25;DPRA=0,1.29376;EPP=4895.43,2202.75;EPPR=0;GTI=0;LEN=2,4;MEANALT=3,3.11111;MQM=59.33,54.2644;MQMR=0;NS=21;NUMALT=2;ODDS=5.66161;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=79756,36080;QR=0;RO=0;RPL=2268,1019;RPP=4895.43,2202.75;RPPR=0;RPR=5,2;RUN=1,1;SAF=0,0;SAP=4938.77,2220.08;SAR=2273,1021;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:187:0,88,99:0:0:88,99:3030,3479:-527.714,-281.908,-255.418,-246.152,0,-216.35 1/2:194:0,101,93:0:0:101,93:3532,3294:-554.703,-267.591,-237.187,-287.462,0,-259.467 1/2:170:0,80,88:0:0:80,88:2758,3104:-475.871,-251.992,-227.91,-223.871,0,-197.381 1/1:204:0,202,0:0:0:202,0:7189,0:-646.562,-60.8081,0,-646.562,-60.8081,-646.562 1/1:296:0,293,3:0:0:293,3:10279,99:-923.98,-88.2018,0,-915.995,-79.8879,-915.092 1/1:172:0,166,1:0:0:166,1:5787,30:-520.306,-49.971,0,-517.965,-47.6404,-517.664 1/2:234:0,109,121:0:0:109,121:3840,4290:-659.916,-347.364,-314.551,-312.607,0,-276.182 1/2:143:0,72,70:0:0:72,70:2534,2451:-405.12,-198.841,-177.167,-206.433,0,-185.36 1/2:290:0,138,147:0:0:138,147:4863,5204:-819.405,-423.535,-381.992,-395.869,0,-351.618 1/2:21:0,3,17:0:0:3,17:108,596:-56.9243,-48.11,-47.207,-8.84966,0,-3.73215 1/1:16:0,15,0:0:0:15,0:528,0:-47.4469,-4.51545,0,-47.4469,-4.51545,-47.4469 1/1:44:0,43,1:0:0:43,1:1512,36:-135.997,-12.9443,0,-133.064,-9.65215,-132.763 1/1:215:0,213,1:0:0:213,1:7428,36:-668.026,-64.1194,0,-665.091,-61.1843,-664.79 1/2:186:0,101,85:0:0:101,85:3550,3000:-532.304,-243.552,-213.148,-289.103,0,-263.516 1/2:241:0,117,121:0:0:117,121:4131,4288:-684.896,-348.7,-313.479,-336.204,0,-299.78 1/2:189:0,78,111:0:0:78,111:2769,3939:-545.879,-320.35,-296.87,-225.883,0,-192.469 1/1:159:0,158,0:0:0:158,0:5528,0:-497.242,-47.5627,0,-497.242,-47.5627,-497.242 1/2:68:0,46,21:0:0:46,21:1625,748:-193.01,-60.6797,-46.8323,-132.4,0,-126.079 1/2:85:0,47,38:0:0:47,38:1675,1342:-245.058,-108.53,-94.3811,-136.881,0,-125.442 1/1:161:0,159,2:0:0:159,2:5544,72:-498.719,-47.8638,0,-492.853,-41.6388,-492.251 1/1:46:0,44,2:0:0:44,2:1546,72:-139.038,-13.2453,0,-133.179,-7.02785,-132.577 chr03 24476780 . G A 45911 PASS AB=0.491184;ABP=4.35038;AC=30;AF=0.714286;AN=42;AO=2258;CIGAR=1X;DP=3276;DPB=3276;DPRA=0;EPP=4906.2;EPPR=2213.57;GTI=0;LEN=1;MEANALT=1;MQM=59.3481;MQMR=54.2181;NS=21;NUMALT=1;ODDS=8.15333;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80796;QR=36408;RO=1018;RPL=2258;RPP=4906.2;RPPR=2213.57;RPR=0;RUN=1;SAF=0;SAP=4906.2;SAR=2258;SRF=0;SRP=2213.57;SRR=1018;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:102,84:102:3648:84:2959:-210.368,0,-269.801 0/1:194:92,102:92:3296:102:3660:-270.013,0,-237.411 0/1:168:91,77:91:3264:77:2736:-195.864,0,-242.474 1/1:202:0,202:0:0:202:7233:-650.868,-60.8081,0 1/1:287:3,284:3:108:284:10145:-902.176,-76.4145,0 1/1:168:1,167:1:36:167:5988:-534.884,-47.1854,0 0/1:236:123,113:123:4402:113:4051:-293.533,0,-322.373 0/1:142:71,71:71:2516:71:2552:-187.179,0,-182.703 0/1:284:147,137:147:5251:137:4924:-357.745,0,-386.843 0/1:20:16,4:16:568:4:129:-5.90706,0,-44.8589 1/1:15:0,15:0:0:15:536:-48.548,-4.51545,0 1/1:43:1,42:1:36:42:1508:-132.399,-9.35112,0 1/1:208:1,207:1:36:207:7416:-663.178,-59.0186,0 0/1:179:79,100:79:2819:100:3579:-268.417,0,-199.078 0/1:237:120,117:120:4308:117:4168:-303.342,0,-315.413 0/1:186:110,76:110:3940:76:2724:-189.142,0,-297.857 1/1:160:0,160:0:0:160:5729:-515.563,-48.1648,0 0/1:68:21,47:21:756:47:1688:-131.725,0,-47.5314 0/1:85:38,47:38:1352:47:1680:-125.893,0,-94.8137 1/1:162:2,160:2:72:160:5735:-508.933,-41.9398,0 1/1:46:0,46:0:0:46:1656:-149.271,-13.8474,0 chr03 24486178 . TA TT,TG 25392.1 PASS AB=0.489598,0.499307;ABP=3.68794,3.01331;AC=30,12;AF=0.714286,0.285714;AN=42;AO=854,362;CIGAR=1M1X,1M1X;DP=1225;DPB=1225;DPRA=0,1.67199;EPP=1857.45,789.083;EPPR=11.6962;GTI=0;LEN=1,1;MEANALT=1.80952,2.14286;MQM=59.4227,58.5773;MQMR=60;NS=21;NUMALT=2;ODDS=8.27892;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30374,12811;QR=144;RO=4;RPL=854,362;RPP=1857.45,789.083;RPPR=11.6962;RPR=0,0;RUN=1,1;SAF=854,362;SAP=1857.45,789.083;SAR=0,0;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,39,30:0:0:39,30:1364,1065:-198.091,-87.1289,-75.3887,-111.315,0,-102.284 1/2:18:4,5,9:4:144:5,9:180,320:-27.7869,-14.3069,-24.5528,-2.93272,0,-11.9732 1/2:83:0,38,45:0:0:38,45:1345,1600:-239.691,-130.283,-118.843,-109.762,0,-96.2161 1/1:86:0,85,0:0:0:85,0:3031,0:-272.718,-25.5876,0,-272.718,-25.5876,-272.718 1/1:125:0,124,1:0:0:124,1:4413,36:-396.93,-37.3277,0,-394.021,-34.0619,-393.72 1/1:76:0,76,0:0:0:76,0:2702,0:-243.24,-22.8783,0,-243.24,-22.8783,-243.24 1/2:82:0,40,42:0:0:40,42:1431,1486:-237.964,-121.32,-109.279,-116.999,0,-104.356 1/2:63:0,24,39:0:0:24,39:856,1371:-181.55,-111.854,-104.63,-70.05,0,-58.3098 1/2:98:0,50,48:0:0:50,48:1776,1691:-282.576,-137.861,-122.809,-145.068,0,-130.619 1/2:18:0,8,10:0:0:8,10:288,343:-51.6971,-28.1903,-25.782,-23.8592,0,-20.8489 1/1:8:0,8,0:0:0:8,0:288,0:-25.6328,-2.40824,0,-25.6328,-2.40824,-25.6328 1/1:19:0,19,0:0:0:19,0:676,0:-61.168,-5.71957,0,-61.168,-5.71957,-61.168 1/1:46:0,46,0:0:0:46,0:1640,0:-147.86,-13.8474,0,-147.86,-13.8474,-147.86 1/2:106:0,56,50:0:0:56,50:2003,1772:-306.207,-142.961,-126.104,-163.599,0,-148.547 1/2:124:0,60,64:0:0:60,64:2148,2288:-361.939,-186.806,-168.744,-175.49,0,-156.225 1/2:23:0,15,5:0:0:15,5:531,176:-57.5352,-14.3277,-9.81223,-43.2075,0,-41.7023 1/1:35:0,35,0:0:0:35,0:1252,0:-112.969,-10.5361,0,-112.969,-10.5361,-112.969 1/2:23:0,10,13:0:0:10,13:360,460:-67.1254,-37.7768,-34.7665,-29.7054,0,-25.792 1/2:14:0,8,5:0:0:8,5:288,167:-37.0103,-13.4985,-11.0903,-23.5001,0,-21.995 1/1:97:0,96,1:0:0:96,1:3385,36:-304.36,-28.8989,0,-301.422,-25.6016,-301.121 1/1:12:0,12,0:0:0:12,0:417,0:-37.8602,-3.61236,0,-37.8602,-3.61236,-37.8602 chr03 24486621 . G A 39252.9 PASS AB=0.444444;ABP=49.5763;AC=30;AF=0.714286;AN=42;AO=1941;CIGAR=1X;DP=2916;DPB=2916;DPRA=0;EPP=3969.71;EPPR=2017.25;GTI=1;LEN=1;MEANALT=1;MQM=59.5966;MQMR=59.961;NS=21;NUMALT=1;ODDS=4.68223;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68017;QR=34842;RO=975;RPL=29;RPP=3969.71;RPPR=2017.25;RPR=1912;RUN=1;SAF=1941;SAP=4217.84;SAR=0;SRF=975;SRP=2120.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:197:106,91:106:3796:91:3191:-228.105,0,-282.535 0/1:125:83,42:83:2961:42:1469:-94.8661,0,-229.093 0/1:164:91,73:91:3268:73:2510:-176.71,0,-244.971 1/1:210:2,208:2:72:208:7262:-646.722,-56.3796,0 1/1:311:1,310:1:32:310:10867:-974.365,-90.421,0 1/1:162:1,161:1:36:161:5658:-505.645,-45.1686,0 0/1:201:95,106:95:3387:106:3741:-276.253,0,-244.539 0/1:125:77,48:77:2749:48:1661:-112.135,0,-209.993 0/1:245:134,111:134:4785:111:3823:-270.494,0,-356.983 0/1:28:22,6:22:788:6:216:-11.357,0,-62.816 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:27:0,27:0:0:27:948:-85.6266,-8.12781,0 1/1:201:0,201:0:0:201:7049:-634.457,-60.507,0 0/1:199:127,72:127:4529:72:2524:-167.487,0,-347.872 0/1:180:108,72:108:3851:72:2520:-172.869,0,-292.601 0/1:101:44,57:44:1576:57:2020:-151.658,0,-111.728 1/1:103:0,103:0:0:103:3625:-326.202,-31.0061,0 0/1:88:48,40:48:1724:40:1412:-100.872,0,-128.955 0/1:84:30,54:30:1080:54:1912:-146.802,0,-72.2267 1/1:111:6,105:6:208:105:3701:-313.906,-14.3552,0 1/1:48:0,48:0:0:48:1696:-152.907,-14.4494,0 chr03 24495456 . C T 40442.7 PASS AB=0.520963;ABP=16.4845;AC=12;AF=0.285714;AN=42;AO=1868;CIGAR=1X;DP=5874;DPB=5874;DPRA=1.91631;EPP=4059.32;EPPR=8684.56;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.8994;MQMR=59.9963;NS=21;NUMALT=1;ODDS=15.3328;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66164;QR=141993;RO=4002;RPL=1367;RPP=874.803;RPPR=3102.38;RPR=501;RUN=1;SAF=1367;SAP=874.803;SAR=501;SRF=3197;SRP=3107.57;SRR=805;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:561:264,297:264:9341:297:10529:-778.635,0,-671.786 0/1:286:128,158:128:4566:158:5587:-416.856,0,-325.012 0/1:215:114,100:114:4038:100:3549:-254.837,0,-298.831 0/0:376:376,0:376:13318:0:0:0,-113.187,-1198.43 0/0:647:629,18:629:22359:18:640:0,-136.837,-1953.77 0/0:270:265,5:265:9441:5:180:0,-64.726,-833.103 0/1:330:140,190:140:4975:190:6735:-506.883,0,-348.56 0/1:325:143,182:143:5065:182:6461:-483.737,0,-358.162 0/1:405:209,196:209:7427:196:6906:-499.697,0,-546.562 0/1:55:23,32:23:824:32:1144:-86.7129,0,-57.9267 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:59:59,0:59:2093:0:0:0,-17.7608,-188.638 0/0:336:335,1:335:11924:1:36:0,-97.5478,-1069.42 0/1:328:153,172:153:5417:172:6058:-447.169,0,-389.515 0/1:378:194,184:194:6881:184:6541:-474.885,0,-505.573 0/1:307:132,175:132:4707:175:6212:-466.761,0,-331.375 0/0:227:225,2:225:7892:2:72:0,-61.4971,-703.476 0/1:183:80,103:80:2846:103:3636:-272.333,0,-201.289 0/1:157:107,50:107:3796:50:1770:-112.314,0,-294.577 0/0:283:281,2:281:9948:2:72:0,-78.3548,-888.432 0/0:111:110,1:110:3879:1:36:0,-29.8161,-345.709 chr03 24495465 . G A 8495.71 PASS AB=0.553738;ABP=24.4815;AC=13;AF=0.309524;AN=42;AO=491;CIGAR=1X;DP=1307;DPB=1307;DPRA=2.20041;EPP=1069.2;EPPR=1766.26;GTI=0;LEN=1;MEANALT=1;MQM=59.8045;MQMR=60;NS=21;NUMALT=1;ODDS=1.86904;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17579;QR=29067;RO=816;RPL=1;RPP=1060.54;RPPR=1766.26;RPR=490;RUN=1;SAF=1;SAP=1060.54;SAR=490;SRF=2;SRP=1757.6;SRR=814;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:42,64:42:1472:64:2304:-175.664,0,-100.862 0/1:27:10,17:10:352:17:603:-46.4713,0,-23.8904 0/1:67:25,42:25:900:42:1508:-115.843,0,-61.152 0/0:53:53,0:53:1890:0:0:0,-15.9546,-170.377 0/0:148:146,2:146:5188:2:72:0,-37.7157,-460.225 0/0:46:46,0:46:1635:0:0:0,-13.8474,-147.438 0/1:82:33,49:33:1165:49:1748:-132.91,0,-80.4705 0/1:140:65,75:65:2313:75:2696:-200.73,0,-166.285 0/1:78:35,43:35:1247:43:1548:-116.132,0,-89.0537 1/1:14:1,13:1:36:13:468:-38.8614,-0.616145,0 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:46:46,0:46:1637:0:0:0,-13.8474,-147.617 0/1:65:32,33:32:1143:33:1188:-87.6616,0,-83.6117 0/1:108:46,62:46:1640:62:2213:-166.919,0,-115.377 0/1:46:24,22:24:851:22:788:-57.3974,0,-63.0621 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/1:70:26,44:26:936:44:1566:-120.14,0,-63.4874 0/1:67:44,23:44:1584:23:805:-52.5955,0,-122.683 0/0:47:45,2:45:1608:2:72:0,-7.31169,-138.173 0/0:42:42,0:42:1490:0:0:0,-12.6433,-134.393 chr03 24504447 . C G 7355.03 PASS AB=0.479657;ABP=6.36748;AC=12;AF=0.285714;AN=42;AO=455;CIGAR=1X;DP=1608;DPB=1608;DPRA=1.39623;EPP=991.03;EPPR=2452.7;GTI=0;LEN=1;MEANALT=1;MQM=59.556;MQMR=59.9575;NS=21;NUMALT=1;ODDS=8.56523;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16230;QR=41226;RO=1152;RPL=0;RPP=991.03;RPPR=2452.7;RPR=455;RUN=1;SAF=455;SAP=991.03;SAR=0;SRF=1152;SRP=2504.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:67,48:67:2408:48:1719:-120.27,0,-182.358 0/1:87:50,37:50:1787:37:1317:-92.45,0,-134.922 0/1:91:44,47:44:1580:47:1658:-122.089,0,-115.098 0/0:96:96,0:96:3444:0:0:0,-28.8989,-310.112 0/0:173:171,2:171:6097:2:72:0,-45.2415,-541.989 0/0:118:117,0:117:4170:0:0:0,-35.2205,-375.123 0/1:132:72,60:72:2588:60:2133:-152.431,0,-193.432 0/1:48:18,30:18:648:30:1080:-83.0429,0,-44.2024 0/1:175:91,84:91:3264:84:2994:-217.008,0,-241.3 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:93:93,0:93:3340:0:0:0,-27.9958,-300.816 0/1:141:71,70:71:2518:70:2489:-181.782,0,-184.416 0/1:42:17,25:17:612:25:900:-68.6778,0,-42.7702 0/1:52:30,22:30:1068:22:792:-55.9384,0,-80.7785 0/0:59:59,0:59:2107:0:0:0,-17.7608,-189.899 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/1:33:20,13:20:716:13:468:-32.5257,0,-54.8337 0/0:77:72,5:72:2588:5:180:0,-6.62724,-216.608 0/0:39:39,0:39:1391:0:0:0,-11.7402,-125.488 chr03 24505101 . CTTTAT CTTAC,CTTTAC 76385.6 PASS AB=0.497283,0.49683;ABP=3.15192,3.20306;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2514,1106;CIGAR=1M1D3M1X,5M1X;DP=3634;DPB=3214.17;DPRA=0,1.70058;EPP=5453.41,2370.04;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.33333,2.8;MQM=58.9125,59.9792;MQMR=60;NS=21;NUMALT=2;ODDS=12.4955;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=89213,39573;QR=36;RO=1;RPL=1,4;RPP=5453.41,2370.04;RPPR=5.18177;RPR=2513,1102;RUN=1,1;SAF=2514,1106;SAP=5462.09,2404.66;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:168:0,74,94:0:0:74,94:2621,3372:-488.867,-275.399,-253.122,-213.824,0,-185.527 1/2:167:0,72,95:0:0:72,95:2561,3408:-486.795,-278.333,-256.659,-208.819,0,-180.221 1/2:102:0,52,50:0:0:52,50:1849,1783:-296.345,-145.701,-130.047,-151,0,-135.949 1/1:192:0,192,0:0:0:192,0:6819,0:-613.611,-57.7978,0,-613.611,-57.7978,-613.611 1/1:316:0,314,2:0:0:314,2:11115,72:-998.737,-94.5234,0,-992.862,-88.2888,-992.26 1/1:164:0,164,0:0:0:164,0:5825,0:-524.063,-49.3689,0,-524.063,-49.3689,-524.063 1/2:291:1,137,152:1:36:137,152:4841,5447:-834.564,-441.296,-402.993,-390.627,0,-347.808 1/2:185:0,86,99:0:0:86,99:3041,3539:-536.488,-288.917,-263.028,-247.927,0,-218.125 1/2:379:0,218,157:0:0:218,157:7766,5608:-1090.19,-457.268,-391.643,-632.972,0,-585.71 1/2:19:0,10,9:0:0:10,9:354,324:-55.5999,-26.7966,-23.7863,-29.1602,0,-26.4509 1/1:18:0,18,0:0:0:18,0:627,0:-56.7293,-5.41854,0,-56.7293,-5.41854,-56.7293 1/1:25:0,25,0:0:0:25,0:875,0:-79.0635,-7.52575,0,-79.0635,-7.52575,-79.0635 1/1:202:0,201,0:0:0:201,0:7139,0:-642.153,-60.507,0,-642.153,-60.507,-642.153 1/2:185:0,92,91:0:0:92,91:3261,3254:-530.981,-265.327,-237.632,-265.652,0,-238.258 1/2:318:0,154,162:0:0:154,162:5484,5779:-917.999,-471.164,-424.806,-446.895,0,-398.128 1/2:153:0,72,79:0:0:72,79:2521,2828:-435.519,-230.671,-208.997,-204.895,0,-181.113 1/1:141:0,140,1:0:0:140,1:4986,36:-448.462,-42.1442,0,-445.525,-38.847,-445.224 1/2:173:0,80,92:0:0:80,92:2845,3303:-501.088,-269.434,-245.351,-231.652,0,-203.957 1/2:68:0,51,17:0:0:51,17:1821,608:-198.363,-49.9345,-34.582,-148.786,0,-143.668 1/1:277:0,271,6:0:0:271,6:9611,212:-863.681,-81.5791,0,-846.416,-63.9605,-844.609 1/1:91:0,91,0:0:0:91,0:3251,0:-292.351,-27.3937,0,-292.351,-27.3937,-292.351 chr03 24522213 . A G 19015.7 PASS AB=0.66004;ABP=114.912;AC=31;AF=0.738095;AN=42;AO=733;CIGAR=1X;DP=908;DPB=908;DPRA=0;EPP=6.6393;EPPR=5.45633;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.8827;MQMR=58.3966;NS=21;NUMALT=1;ODDS=2.94072;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25585;QR=6178;RO=174;RPL=0;RPP=1594.7;RPPR=380.846;RPR=733;RUN=1;SAF=349;SAP=6.6393;SAR=384;SRF=94;SRP=5.45633;SRR=80;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:15,21:15:536:21:739:-55.9953,0,-37.7377 0/1:29:15,14:15:540:14:491:-35.7902,0,-40.1082 0/1:20:2,18:2:72:18:635:-51.4564,0,-0.816122 1/1:47:1,46:1:36:46:1603:-140.96,-10.5501,0 1/1:60:0,60:0:0:60:2064:-186.025,-18.0618,0 0/1:16:3,13:3:104:13:460:-36.9189,0,-4.85989 0/1:35:14,21:14:491:21:744:-56.7483,0,-33.6222 1/1:25:2,23:2:72:23:806:-66.0215,-0.689028,0 0/1:43:12,31:12:399:31:1095:-85.9148,0,-23.2837 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:11:0,11:0:0:11:392:-35.6154,-3.31133,0 1/1:45:0,45:0:0:45:1568:-141.401,-13.5464,0 0/1:32:8,24:8:288:24:840:-66.2852,0,-16.6344 0/1:46:8,38:8:288:38:1348:-107.772,0,-12.42 0/1:17:7,10:7:248:10:343:-26.0831,0,-17.5288 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:140:62,78:62:2212:78:2723:-202.543,0,-156.632 0/1:89:25,64:25:892:64:2222:-173.448,0,-53.808 1/1:46:0,46:0:0:46:1571:-141.674,-13.8474,0 1/1:135:0,134:0:0:134:4649:-418.148,-40.338,0 chr03 24522220 . G A 3158.04 PASS AB=0.337917;ABP=119.156;AC=11;AF=0.261905;AN=42;AO=175;CIGAR=1X;DP=924;DPB=924;DPRA=1.05701;EPP=5.80219;EPPR=5.12379;GTI=1;LEN=1;MEANALT=1;MQM=58.16;MQMR=59.8785;NS=21;NUMALT=1;ODDS=3.46987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6147;QR=26513;RO=749;RPL=0;RPP=383.018;RPPR=1629.44;RPR=175;RUN=1;SAF=95;SAP=5.80219;SAR=80;SRF=361;SRP=5.12379;SRR=388;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:22,16:22:739:16:563:-39.56,0,-55.3789 0/1:32:17,15:17:578:15:532:-38.5014,0,-42.7019 0/1:19:17,2:17:612:2:72:-1.11715,0,-49.6939 0/0:50:49,1:49:1728:1:36:0,-11.4532,-152.204 0/0:61:61,0:61:2157:0:0:0,-18.3628,-194.396 0/1:16:13,3:13:455:3:108:-5.22567,0,-36.4655 0/1:36:21,15:21:748:15:508:-34.5652,0,-56.8082 0/0:25:23,2:23:801:2:72:0,-0.689027,-65.57 0/1:40:30,10:30:1046:10:348:-19.6139,0,-82.4047 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:4:4,0:4:129:0:0:0,-1.20412,-11.9277 0/0:12:12,0:12:402:0:0:0,-3.61236,-36.4946 0/0:51:51,0:51:1811:0:0:0,-15.3525,-163.26 0/1:33:25,8:25:892:8:273:-14.9662,0,-70.6657 0/1:47:39,8:39:1391:8:275:-10.9351,0,-111.339 0/1:16:9,7:9:324:7:248:-17.8405,0,-24.6894 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/1:140:78,62:78:2762:62:2188:-154.155,0,-206.05 0/1:92:66,26:66:2372:26:924:-55.7829,0,-186.04 0/0:44:44,0:44:1557:0:0:0,-13.2453,-140.42 0/0:137:137,0:137:4897:0:0:0,-41.2411,-440.809 chr03 24522233 . CG TT,CT 25349.5 PASS AB=0.659574,0.338491;ABP=117.359,120.148;AC=31,11;AF=0.738095,0.261905;AN=42;AO=765,178;CIGAR=2X,1M1X;DP=944;DPB=944;DPRA=0,1.03497;EPP=1655.51,6.13332;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.66667,2.07692;MQM=59.915,58.236;MQMR=0;NS=21;NUMALT=2;ODDS=2.86523;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26838,6325;QR=0;RO=0;RPL=366,13;RPP=6.10145,284.863;RPPR=0;RPR=399,165;RUN=1,1;SAF=367,94;SAP=5.73812,4.23023;SAR=398,84;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:38:0,22,16:0:0:22,16:769,567:-109.098,-46.5442,-39.9216,-62.9062,0,-58.0897 1/2:32:0,17,15:0:0:17,15:594,536:-92.2733,-43.9609,-38.8433,-48.6655,0,-44.1501 1/2:20:0,18,2:0:0:18,2:628,72:-57.3018,-6.23466,-0.816122,-51.4259,0,-50.8238 1/1:50:0,49,1:0:0:49,1:1688,36:-151.841,-14.7505,0,-148.903,-11.4532,-148.602 1/1:62:0,62,0:0:0:62,0:2159,0:-194.572,-18.6639,0,-194.572,-18.6639,-194.572 1/2:16:0,13,3:0:0:13,3:446,108:-45.3356,-9.13906,-5.22567,-36.5522,0,-35.6491 1/2:36:0,20,15:0:0:20,15:703,540:-100.492,-43.2726,-37.252,-57.2132,0,-52.6978 1/1:25:0,23,2:0:0:23,2:824,72:-74.1238,-6.92369,0,-68.2489,-0.689028,-67.6468 1/2:44:0,31,13:0:0:31,13:1088,468:-127.061,-38.5237,-29.1918,-88.8947,0,-84.9813 1/1:11:0,11,0:0:0:11,0:385,0:-34.9842,-3.31133,0,-34.9842,-3.31133,-34.9842 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:11:0,11,0:0:0:11,0:389,0:-35.3434,-3.31133,0,-35.3434,-3.31133,-35.3434 1/1:52:0,52,0:0:0:52,0:1845,0:-166.321,-15.6536,0,-166.321,-15.6536,-166.321 1/2:33:0,25,8:0:0:25,8:883,288:-95.7626,-23.8592,-16.3334,-72.2616,0,-69.8534 1/2:47:0,39,8:0:0:39,8:1365,288:-134.905,-23.8592,-12.119,-111.404,0,-108.996 1/2:17:0,10,7:0:0:10,7:332,252:-47.7462,-20.9039,-17.8936,-27.1904,0,-25.0832 1/1:22:0,22,0:0:0:22,0:760,0:-68.7169,-6.62266,0,-68.7169,-6.62266,-68.7169 1/2:143:0,80,63:0:0:80,63:2825,2198:-409.098,-179.043,-154.961,-230.405,0,-211.441 1/2:91:0,66,25:0:0:66,25:2320,900:-262.628,-73.7953,-53.9273,-189.19,0,-181.664 1/1:47:0,47,0:0:0:47,0:1670,0:-150.586,-14.1484,0,-150.586,-14.1484,-150.586 1/1:143:0,143,0:0:0:143,0:5021,0:-452.031,-43.0473,0,-452.031,-43.0473,-452.031 chr03 24533897 . TTCCGTCG CTCTATCC,CTCTGTCG 11964.9 PASS AB=0.535593,0.454237;ABP=6.25647,8.37641;AC=29,13;AF=0.690476,0.309524;AN=42;AO=347,134;CIGAR=1X2M2X2M1X,1X2M1X4M;DP=486;DPB=486;DPRA=0,0.950463;EPP=42.0655,19.6042;EPPR=0;GTI=0;LEN=8,8;MEANALT=1.85714,2.23077;MQM=42.2939,59.8582;MQMR=0;NS=21;NUMALT=2;ODDS=0.127546;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=11798,4656;QR=0;RO=0;RPL=345,132;RPP=739.24,276.875;RPPR=0;RPR=2,2;RUN=1,1;SAF=211,81;SAP=38.2107,15.715;SAR=136,53;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:14:0,9,5:0:0:9,5:312,172:-39.0683,-14.3123,-11.603,-25.0982,0,-23.5931 1/2:20:0,8,12:0:0:8,12:267,429:-55.8257,-35.3373,-32.9291,-20.8223,0,-17.2099 1/2:5:0,4,1:0:0:4,1:143,36:-13.993,-3.29724,-2.09312,-11.0498,0,-10.7488 1/1:16:0,16,0:0:0:16,0:550,0:-48.8146,-4.81648,0,-48.8146,-4.81648,-48.8146 1/1:29:0,28,0:0:0:28,0:991,0:-86.2312,-8.42884,0,-86.2312,-8.42884,-86.2312 1/2:21:0,12,9:0:0:12,9:409,305:-57.2013,-25.0685,-21.4561,-32.4683,0,-29.759 1/2:23:0,9,14:0:0:9,14:286,489:-62.6926,-40.1254,-37.4161,-22.8939,0,-18.6795 1/2:18:0,8,10:0:0:8,10:277,332:-49.1562,-27.1911,-24.7828,-22.3007,0,-19.2904 1/2:25:0,13,12:0:0:13,12:439,412:-68.5711,-33.7922,-29.8788,-35.1161,0,-31.5037 1/2:8:0,4,4:0:0:4,4:143,137:-22.7981,-11.4631,-10.259,-11.6803,0,-10.4762 1/1:4:0,4,0:0:0:4,0:135,0:-12.2188,-1.20412,0,-12.2188,-1.20412,-12.2188 1/1:8:0,8,0:0:0:8,0:284,0:-24.0854,-2.40824,0,-24.0854,-2.40824,-24.0854 1/1:26:0,26,0:0:0:26,0:875,0:-76.1719,-7.82678,0,-76.1719,-7.82678,-76.1719 1/2:16:0,9,7:0:0:9,7:313,247:-45.0918,-20.4657,-17.7564,-24.9722,0,-22.865 1/2:19:0,11,7:0:0:11,7:352,252:-47.326,-20.5621,-17.2507,-26.7453,0,-24.638 1/2:10:0,6,4:0:0:6,4:209,144:-28.0021,-12.1095,-10.3033,-16.2397,0,-15.0356 1/1:10:0,10,0:0:0:10,0:354,0:-30.2374,-3.0103,0,-30.2374,-3.0103,-30.2374 1/2:60:0,31,28:0:0:31,28:1050,981:-163.901,-79.9,-70.5681,-84.0711,0,-75.6423 1/2:56:0,34,21:0:0:34,21:1175,720:-151.696,-58.5171,-48.2821,-93.2431,0,-86.9215 1/1:16:0,16,0:0:0:16,0:511,0:-45.2208,-4.81648,0,-45.2208,-4.81648,-45.2208 1/1:82:0,81,0:0:0:81,0:2723,0:-240.653,-24.3834,0,-240.653,-24.3834,-240.653 chr03 24534221 . C T 19112.7 PASS AB=0.502569;ABP=3.06609;AC=29;AF=0.690476;AN=42;AO=976;CIGAR=1X;DP=1466;DPB=1466;DPRA=0;EPP=2122.37;EPPR=1067.03;GTI=0;LEN=1;MEANALT=1;MQM=59.9857;MQMR=60;NS=21;NUMALT=1;ODDS=3.80327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34622;QR=17443;RO=490;RPL=976;RPP=2122.37;RPPR=1067.03;RPR=0;RUN=1;SAF=0;SAP=2122.37;SAR=976;SRF=0;SRP=1067.03;SRR=490;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:31,32:31:1108:32:1140:-83.9443,0,-81.0661 0/1:50:25,25:25:883:25:896:-65.9089,0,-64.736 0/1:83:43,40:43:1528:40:1420:-103.112,0,-112.828 1/1:59:0,59:0:0:59:2104:-189.63,-17.7608,0 1/1:124:3,121:3:108:121:4287:-375.936,-27.2526,0 0/1:59:32,27:32:1148:27:964:-69.3161,0,-85.8691 0/1:83:48,35:48:1720:35:1256:-88.3598,0,-130.1 0/1:77:48,29:48:1716:29:1036:-70.3746,0,-131.546 0/1:96:37,59:37:1316:59:2067:-157.402,0,-89.8429 0/1:17:9,8:9:324:8:280:-20.4218,0,-24.3883 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:12:0,12:0:0:12:419:-38.0427,-3.61236,0 1/1:116:0,116:0:0:116:4136:-372.426,-34.9195,0 0/1:68:39,29:39:1378:29:1007:-70.4699,0,-103.847 0/1:124:66,58:66:2348:58:2036:-146.185,0,-174.252 0/1:55:31,24:31:1099:24:856:-60.8045,0,-82.6628 1/1:40:3,37:3:108:37:1304:-107.578,-1.96603,0 0/1:121:51,70:51:1816:70:2492:-188.104,0,-127.297 0/1:77:24,53:24:843:53:1900:-148.099,0,-53.0087 1/1:94:0,94:0:0:94:3321:-299.112,-28.2968,0 1/1:44:0,44:0:0:44:1557:-140.421,-13.2453,0 chr03 24595832 . TTA ATG 13950.2 PASS AB=0.424708;ABP=137.73;AC=21;AF=0.5;AN=42;AO=1162;CIGAR=1X1M1X;DP=2736;DPB=2736.67;DPRA=0;EPP=2526.26;EPPR=3416.56;GTI=0;LEN=3;MEANALT=1.09524;MQM=34.5422;MQMR=59.8702;NS=21;NUMALT=1;ODDS=30.4003;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=1;QA=40823;QR=54229;RO=1572;RPL=1162;RPP=2526.26;RPPR=3373.27;RPR=0;RUN=1;SAF=1162;SAP=2526.26;SAR=0;SRF=1567;SRP=3373.27;SRR=5;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:42,29:42:1464:29:1038:-63.4052,0,-110.676 0/1:95:58,37:58:2001:37:1301:-74.1064,0,-151.764 0/1:133:84,49:84:2895:49:1734:-99.6414,0,-220.752 0/1:167:84,82:84:2914:82:2875:-184.68,0,-212.165 0/1:282:155,127:155:5362:127:4514:-282.44,0,-397.683 0/1:87:55,32:55:1921:32:1081:-60.0125,0,-146.921 0/1:144:109,35:109:3709:35:1243:-54.606,0,-290.671 0/1:189:102,87:102:3511:87:3051:-185.133,0,-259.313 0/1:228:142,86:142:4885:86:3005:-180.237,0,-370.99 0/1:22:13,9:13:461:9:324:-18.9912,0,-35.2035 0/1:14:3,11:3:91:11:396:-27.022,0,-4.27523 0/1:59:38,21:38:1315:21:743:-41.005,0,-100.887 0/1:311:101,209:101:3454:209:7352:-502.428,0,-217.433 0/1:127:67,60:67:2288:60:2110:-134.264,0,-167.943 0/1:128:92,36:92:3177:36:1276:-65.6895,0,-247.621 0/1:82:57,25:57:1961:25:879:-48.6675,0,-152.08 0/1:81:44,37:44:1497:37:1296:-84.2983,0,-110.636 0/1:153:108,45:108:3772:45:1547:-75.7353,0,-293.628 0/1:132:69,63:69:2384:63:2215:-140.485,0,-175.022 0/1:161:115,46:115:4007:46:1617:-79.2113,0,-312.357 0/1:70:34,36:34:1160:36:1226:-76.9522,0,-83.6289 chr03 24595845 . AATGA GATGG,AATGG 46603 PASS AB=0.451373,0.54549;ABP=55.3845,48.8445;AC=21,21;AF=0.5,0.5;AN=42;AO=1151,1391;CIGAR=1X3M1X,4M1X;DP=2550;DPB=2550.2;DPRA=0,0;EPP=2502.38,2980.26;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.33333,2.33333;MQM=34.3788,59.8879;MQMR=60;NS=21;NUMALT=2;ODDS=36.5397;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=40430,49479;QR=36;RO=1;RPL=1151,1391;RPP=2502.38,3023.53;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1151,1386;SAP=2502.38,2980.26;SAR=0,5;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:71:0,29,42:0:0:29,42:1033,1499:-198.006,-122.557,-113.827,-75.7851,0,-63.1419 1/2:77:0,37,40:0:0:37,40:1304,1432:-208.79,-117.136,-105.998,-91.9858,0,-79.9446 1/2:130:0,49,81:0:0:49,81:1738,2904:-361.798,-237.212,-222.461,-124.918,0,-100.535 1/2:164:0,83,80:0:0:83,80:2911,2846:-445.495,-231.932,-206.947,-213.541,0,-189.459 1/2:275:0,126,149:0:0:126,149:4429,5284:-754.548,-430.743,-392.813,-324.14,0,-279.287 1/2:67:0,31,35:0:0:31,35:1075,1256:-178.286,-102.462,-93.1305,-75.8634,0,-65.3274 1/2:118:0,35,83:0:0:35,83:1213,2936:-324.999,-239.486,-228.95,-85.8316,0,-60.8461 1/2:146:0,84,62:0:0:84,62:2963,2210:-388.84,-180.5,-155.213,-208.676,0,-190.012 1/2:221:1,85,135:1:36:85,135:2955,4765:-603.795,-384.968,-362.318,-216.163,0,-178.462 1/2:20:0,9,11:0:0:9,11:324,388:-54.5201,-31.946,-29.2368,-22.9046,0,-19.5932 1/2:13:0,11,2:0:0:11,2:388,68:-33.1075,-5.85565,-2.54432,-27.5869,0,-26.9849 1/2:58:0,20,37:0:0:20,37:686,1328:-156.939,-108.374,-102.353,-48.5783,0,-37.4402 1/2:306:0,209,95:0:0:209,95:7361,3368:-807.28,-274.414,-211.499,-532.887,0,-504.289 1/2:125:0,58,65:0:0:58,65:2050,2309:-337.848,-188.215,-170.755,-149.69,0,-130.123 1/2:123:0,36,87:0:0:36,87:1263,3120:-347.22,-254.831,-243.994,-92.7198,0,-66.5302 1/2:78:0,25,53:0:0:25,53:884,1887:-220.084,-154.153,-146.627,-66.2667,0,-50.3121 1/2:80:0,37,43:0:0:37,43:1308,1532:-223.535,-125.229,-114.091,-98.6472,0,-85.7029 1/2:125:0,45,80:0:0:45,80:1570,2851:-342.278,-232.637,-219.09,-109.965,0,-85.8822 1/2:130:0,63,67:0:0:63,67:2231,2384:-356.872,-194.646,-175.681,-162.563,0,-142.394 1/2:156:0,45,111:0:0:45,111:1575,3932:-430.916,-320.657,-307.111,-110.579,0,-77.1646 1/2:67:0,34,33:0:0:34,33:1169,1180:-178.744,-96.2143,-85.9793,-82.502,0,-72.568 chr03 24628708 . T G,C 23680.9 PASS AB=0.643347,0.356653;ABP=133.123,133.123;AC=29,13;AF=0.690476,0.309524;AN=42;AO=869,263;CIGAR=1X,1X;DP=1132;DPB=1132;DPRA=0,1.5;EPP=1890.02,574.108;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.66667,2;MQM=59.9678,59.9924;MQMR=0;NS=21;NUMALT=2;ODDS=3.38791;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31003,9424;QR=0;RO=0;RPL=0,0;RPP=1890.02,574.108;RPPR=0;RPR=869,263;RUN=1,1;SAF=869,263;SAP=1890.02,574.108;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,33,18:0:0:33,18:1184,644:-149.448,-52.8721,-42.9381,-96.9343,0,-91.5158 1/2:38:0,14,24:0:0:14,24:504,860:-111.622,-70.4971,-66.2827,-41.4837,0,-34.259 1/2:35:0,23,12:0:0:23,12:824,432:-102.809,-35.6088,-28.6851,-67.5596,0,-63.9473 1/1:40:0,40,0:0:0:40,0:1436,0:-129.538,-12.0412,0,-129.538,-12.0412,-129.538 1/1:120:0,117,3:0:0:117,3:4154,108:-373.682,-35.2205,0,-364.87,-26.0484,-363.967 1/2:33:0,18,15:0:0:18,15:629,536:-95.221,-44.0594,-38.6408,-51.5152,0,-46.9998 1/2:73:0,44,29:0:0:44,29:1580,1040:-214.069,-85.1845,-71.9392,-129.243,0,-120.513 1/2:62:0,40,22:0:0:40,22:1421,788:-180.408,-64.6221,-52.5809,-116.143,0,-109.521 1/2:118:0,85,33:0:0:85,33:3037,1184:-344.546,-96.9343,-71.3468,-247.97,0,-238.036 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/1:78:0,78,0:0:0:78,0:2804,0:-252.599,-23.4803,0,-252.599,-23.4803,-252.599 1/2:49:0,33,16:0:0:33,16:1146,572:-140.151,-46.9969,-37.063,-93.5077,0,-88.6912 1/2:85:0,62,23:0:0:62,23:2205,820:-246.892,-67.1988,-48.535,-180.05,0,-173.126 1/2:32:0,19,13:0:0:19,13:684,460:-93.6357,-37.8211,-32.1015,-56.1708,0,-52.2574 1/1:60:0,60,0:0:0:60,0:2133,0:-192.236,-18.0618,0,-192.236,-18.0618,-192.236 1/2:84:0,50,34:0:0:50,34:1781,1224:-245.393,-100.232,-85.1805,-145.519,0,-135.284 1/2:63:0,44,19:0:0:44,19:1561,684:-183.347,-56.1708,-42.9254,-127.534,0,-121.815 1/1:54:0,54,0:0:0:54,0:1944,0:-175.234,-16.2556,0,-175.234,-16.2556,-175.234 1/1:30:0,30,0:0:0:30,0:1076,0:-97.1529,-9.0309,0,-97.1529,-9.0309,-97.1529 chr03 24628750 . TGTGC TGTAA,GGTGA 22847.6 PASS AB=0.634615,0.357143;ABP=117.597,132.058;AC=29,13;AF=0.690476,0.309524;AN=42;AO=864,263;CIGAR=3M2X,1X3M1X;DP=1133;DPB=1133.4;DPRA=0,1.49472;EPP=1879.16,574.108;EPPR=0;GTI=1;LEN=2,5;MEANALT=1.85714,2.28571;MQM=59.9676,59.9924;MQMR=0;NS=21;NUMALT=2;ODDS=3.22728;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,32;PQR=0;PRO=0;QA=30225,9216;QR=0;RO=0;RPL=864,263;RPP=1879.16,574.108;RPPR=0;RPR=0,0;RUN=1,1;SAF=864,263;SAP=1879.16,574.108;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,32,19:0:0:32,19:1105,661:-143.701,-53.9158,-44.2829,-89.9499,0,-84.2304 1/2:39:0,14,25:0:0:14,25:487,863:-110.056,-70.4581,-66.2437,-39.9451,0,-32.4193 1/2:34:0,22,11:0:0:22,11:770,390:-94.5092,-31.8593,-25.2366,-62.7337,0,-59.4224 1/1:39:0,39,0:0:0:39,0:1353,0:-122.065,-11.7402,0,-122.065,-11.7402,-122.065 1/1:121:0,118,3:0:0:118,3:4099,107:-368.742,-35.5215,0,-360.019,-26.4425,-359.116 1/2:32:0,17,15:0:0:17,15:575,531:-90.2109,-43.6078,-38.4903,-46.9496,0,-42.4342 1/2:72:0,44,27:0:0:44,27:1534,938:-201,-76.2445,-62.9992,-124.744,0,-116.617 1/2:62:0,40,22:0:0:40,22:1397,756:-175.37,-61.7332,-49.692,-113.982,0,-107.359 1/2:119:0,86,33:0:0:86,33:3021,1167:-341.282,-95.403,-69.5144,-246.232,0,-236.298 1/2:6:0,4,2:0:0:4,2:142,72:-17.8016,-6.23466,-5.03054,-11.9251,0,-11.323 1/1:9:0,9,0:0:0:9,0:322,0:-29.3242,-2.70927,0,-29.3242,-2.70927,-29.3242 1/1:13:0,13,0:0:0:13,0:453,0:-41.1007,-3.91339,0,-41.1007,-3.91339,-41.1007 1/1:79:0,79,0:0:0:79,0:2773,0:-249.811,-23.7814,0,-249.811,-23.7814,-249.811 1/2:49:0,33,16:0:0:33,16:1152,564:-139.973,-46.2737,-36.3397,-94.0504,0,-89.2339 1/2:85:0,61,23:0:0:61,23:2143,804:-239.818,-65.3951,-47.0323,-174.413,0,-167.489 1/2:32:0,19,13:0:0:19,13:656,450:-90.2112,-36.9162,-31.1967,-53.6406,0,-49.7272 1/1:60:0,60,0:0:0:60,0:2112,0:-190.348,-18.0618,0,-190.348,-18.0618,-190.348 1/2:83:0,46,34:0:0:46,34:1617,1207:-229.971,-98.3546,-84.5072,-131.623,0,-121.388 1/2:64:0,44,20:0:0:44,20:1545,706:-183.587,-57.8447,-44.5994,-126.095,0,-120.074 1/1:54:0,54,0:0:0:54,0:1915,0:-172.626,-16.2556,0,-172.626,-16.2556,-172.626 1/1:30:0,30,0:0:0:30,0:1054,0:-95.169,-9.0309,0,-95.169,-9.0309,-95.169 chr03 24628843 . TGAG TG 13452.9 PASS AB=0.591864;ABP=58.8644;AC=29;AF=0.690476;AN=42;AO=942;CIGAR=1M2D1M;DP=1257;DPB=785;DPRA=0;EPP=2013.94;EPPR=149.812;GTI=1;LEN=2;MEANALT=1.19048;MQM=30.1115;MQMR=38.0193;NS=21;NUMALT=1;ODDS=3.65535;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33021;QR=10950;RO=311;RPL=938;RPP=2013.94;RPPR=149.812;RPR=4;RUN=1;SAF=0;SAP=2048.54;SAR=942;SRF=0;SRP=678.338;SRR=311;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:18,39:18:636:39:1380:-85.8632,0,-36.8822 0/1:30:12,18:12:413:18:626:-33.4641,0,-26.1658 0/1:37:25,12:25:897:12:411:-20.5986,0,-64.4124 1/1:61:0,61:0:0:61:2146:-160.303,-18.3628,0 1/1:125:1,124:1:35:124:4365:-323.922,-34.2743,0 0/1:87:29,57:29:1027:57:1999:-109.079,0,-59.8095 0/1:82:37,45:37:1291:45:1575:-81.7461,0,-83.5915 0/1:52:20,32:20:707:32:1131:-66.9599,0,-43.3392 0/1:75:30,45:30:1071:45:1603:-103.252,0,-71.074 0/1:8:2,6:2:70:6:204:-12.84,0,-3.83304 1/1:4:0,4:0:0:4:140:-9.73718,-1.20412,0 1/1:5:0,5:0:0:5:171:-12.6704,-1.50515,0 1/1:110:0,110:0:0:110:3845:-287.91,-33.1133,0 0/1:64:33,31:33:1154:31:1091:-59.7425,0,-79.0794 0/1:90:34,56:34:1188:56:1963:-119.685,0,-74.0615 0/1:44:12,32:12:420:32:1135:-72.8488,0,-23.7607 1/1:87:0,86:0:0:86:2997:-236.391,-25.8886,0 0/1:82:37,45:37:1288:45:1509:-86.3331,0,-84.1337 0/1:53:19,33:19:681:33:1171:-72.3016,0,-42.8365 1/1:61:2,59:2:72:59:2071:-141.936,-12.0052,0 1/1:42:0,42:0:0:42:1488:-100.101,-12.6433,0 chr03 24628864 . A C 3855.4 PASS AB=0.388535;ABP=87.7254;AC=13;AF=0.309524;AN=42;AO=308;CIGAR=1X;DP=1308;DPB=1308;DPRA=1.20491;EPP=671.824;EPPR=2174.48;GTI=1;LEN=1;MEANALT=1;MQM=37.8831;MQMR=30.092;NS=21;NUMALT=1;ODDS=4.19096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11036;QR=35495;RO=1000;RPL=308;RPP=671.824;RPPR=2174.48;RPR=0;RUN=1;SAF=0;SAP=671.824;SAR=308;SRF=0;SRP=2174.48;SRR=1000;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:40,18:40:1432:18:648:-37.573,0,-88.1286 0/1:30:18,12:18:636:12:432:-27.5643,0,-33.8127 0/1:39:14,25:14:492:25:900:-63.9978,0,-25.7493 0/0:66:66,0:66:2350:0:0:0,-19.868,-174.207 0/0:134:133,1:133:4720:1:36:0,-36.9144,-348.947 0/1:89:60,29:60:2124:29:1040:-59.0863,0,-115.913 0/1:82:47,35:47:1648:35:1248:-78.7472,0,-86.6163 0/1:56:36,20:36:1280:20:720:-42.9119,0,-76.2072 0/1:80:50,30:50:1780:30:1080:-70.2444,0,-115.832 0/1:9:6,3:6:212:3:104:-5.87291,0,-12.7175 0/0:5:5,0:5:176:0:0:0,-1.50515,-11.7811 0/0:6:6,0:6:212:0:0:0,-1.80618,-15.4267 0/0:115:115,0:115:4108:0:0:0,-34.6184,-303.51 0/1:64:32,32:32:1136:32:1140:-77.8205,0,-62.8104 0/1:91:57,34:57:2008:34:1220:-76.0726,0,-122.81 0/1:48:36,12:36:1276:12:428:-23.1884,0,-82.6138 0/0:91:91,0:91:3240:0:0:0,-27.3937,-252.706 0/1:84:48,36:48:1677:36:1284:-82.7019,0,-95.658 0/1:55:36,19:36:1284:19:684:-42.3293,0,-80.0092 0/0:63:61,2:61:2168:2:72:0,-12.6072,-147.526 0/0:43:43,0:43:1536:0:0:0,-12.9443,-102.648 chr03 24668688 . TGTT CGTC,TGTC 25396.4 PASS AB=0.554364,0.433384;ABP=19.7735,28.1801;AC=29,13;AF=0.690476,0.309524;AN=42;AO=697,286;CIGAR=1X2M1X,3M1X;DP=993;DPB=993;DPRA=0,1.21613;EPP=1516.53,624.051;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.19048,2.5;MQM=59.6198,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.334087;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23941,10107;QR=0;RO=0;RPL=369,130;RPP=8.24738,8.14287;RPPR=0;RPR=328,156;RUN=1,1;SAF=369,130;SAP=8.24738,8.14287;SAR=328,156;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:42:0,23,17:0:0:23,17:777,599:-111.782,-48.8152,-41.8915,-63.0063,0,-57.8888 1/2:30:0,15,15:0:0:15,15:532,523:-86.2291,-42.883,-38.3676,-43.6976,0,-39.1821 1/2:25:0,14,11:0:0:14,11:497,392:-72.7169,-32.3087,-28.0943,-40.7635,0,-37.4521 1/1:43:0,41,1:0:0:41,1:1400,36:-125.93,-12.3422,0,-122.992,-9.39983,-122.691 1/1:65:0,64,1:0:0:64,1:2148,36:-193.181,-19.2659,0,-190.243,-15.9687,-189.942 1/2:28:0,17,11:0:0:17,11:566,387:-77.6381,-31.8546,-26.7371,-46.1277,0,-42.8164 1/2:32:0,14,18:0:0:14,18:479,635:-90.9331,-52.0584,-47.844,-39.2213,0,-33.8028 1/2:33:0,18,15:0:0:18,15:629,527:-94.4098,-43.2447,-37.8262,-51.5154,0,-47 1/2:57:0,26,30:0:0:26,30:885,1067:-158.789,-87.0569,-79.2301,-71.8238,0,-62.7929 1/2:6:0,5,1:0:0:5,1:167,36:-16.7942,-3.29724,-1.79209,-13.8524,0,-13.5514 1/1:4:0,4,0:0:0:4,0:142,0:-13.1292,-1.20412,0,-13.1292,-1.20412,-13.1292 1/1:17:0,17,0:0:0:17,0:605,0:-54.7812,-5.11751,0,-54.7812,-5.11751,-54.7812 1/1:33:0,32,0:0:0:32,0:1110,0:-99.9412,-9.63296,0,-99.9412,-9.63296,-99.9412 1/2:35:0,18,16:0:0:18,16:628,564:-97.0774,-45.999,-40.5805,-51.1523,0,-46.3359 1/2:73:0,35,38:0:0:35,38:1193,1359:-207.955,-111.171,-100.635,-97.1334,0,-85.6943 1/2:29:0,13,16:0:0:13,16:444,568:-82.6606,-46.6354,-42.722,-36.3726,0,-31.5562 1/1:18:0,18,0:0:0:18,0:635,0:-57.4779,-5.41854,0,-57.4779,-5.41854,-57.4779 1/2:146:0,81,62:0:0:81,62:2795,2192:-405.638,-178.584,-154.2,-227.108,0,-208.444 1/2:117:0,83,33:0:0:83,33:2871,1150:-326.858,-93.5667,-68.5812,-233.337,0,-223.403 1/1:29:0,28,1:0:0:28,1:989,36:-88.96,-8.42884,0,-86.0223,-5.1316,-85.7213 1/1:131:0,131,0:0:0:131,0:4449,0:-400.567,-39.4349,0,-400.567,-39.4349,-400.567 chr03 24726378 . TAGA CAGA 9460.54 PASS AB=0.457165;ABP=23.4736;AC=13;AF=0.309524;AN=42;AO=592;CIGAR=1X3M;DP=1944;DPB=1944;DPRA=1.49659;EPP=1288.52;EPPR=2899.78;GTI=0;LEN=1;MEANALT=1.33333;MQM=60;MQMR=59.9851;NS=21;NUMALT=1;ODDS=15.2519;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21058;QR=46798;RO=1342;RPL=0;RPP=1288.52;RPPR=2899.78;RPR=592;RUN=1;SAF=0;SAP=1288.52;SAR=592;SRF=0;SRP=2917.13;SRR=1342;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:45,40:45:1572:40:1428:-103.23,0,-116.179 0/1:75:34,41:34:1204:41:1457:-108.848,0,-86.0877 0/1:111:47,61:47:1644:61:2183:-163.886,0,-115.397 0/0:122:121,0:121:4256:0:0:0,-36.4246,-382.866 0/0:170:169,1:169:5886:1:36:0,-47.5768,-526.265 0/1:50:25,22:25:880:22:780:-56.0324,0,-65.0279 0/1:133:66,67:66:2296:67:2381:-174.509,0,-166.865 0/1:105:66,39:66:2270:39:1373:-92.2584,0,-172.951 0/1:130:91,39:91:3180:39:1383:-85.6342,0,-247.282 0/1:20:14,6:14:496:6:216:-13.7699,0,-38.9538 0/0:13:13,0:13:450:0:0:0,-3.91339,-40.829 0/0:44:44,0:44:1560:0:0:0,-13.2453,-140.692 0/0:74:74,0:74:2509:0:0:0,-22.2762,-226.06 0/1:117:58,59:58:2032:59:2080:-152.248,0,-147.932 0/1:192:95,97:95:3347:97:3454:-253.275,0,-243.65 0/1:75:35,39:35:1191:39:1400:-103.663,0,-84.8526 0/0:97:97,0:97:3303:0:0:0,-29.1999,-297.492 0/1:131:80,50:80:2811:50:1780:-120.989,0,-213.739 0/1:60:33,27:33:1173:27:963:-68.9241,0,-87.816 0/0:80:76,4:76:2647:4:144:0,-10.7688,-225.164 0/0:60:59,0:59:2091:0:0:0,-17.7608,-188.099 chr03 24726421 . G A 26632.4 PASS AB=0.526439;ABP=10.8181;AC=29;AF=0.690476;AN=42;AO=1327;CIGAR=1X;DP=1942;DPB=1942;DPRA=0;EPP=2884.55;EPPR=1334.12;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9631;MQMR=59.9266;NS=21;NUMALT=1;ODDS=13.7883;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47494;QR=21952;RO=613;RPL=1327;RPP=2884.55;RPPR=1334.12;RPR=0;RUN=1;SAF=0;SAP=2884.55;SAR=1327;SRF=0;SRP=1334.12;SRR=613;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:44,45:44:1572:45:1616:-118.938,0,-114.503 0/1:77:43,34:43:1536:34:1204:-85.4865,0,-115.354 0/1:109:62,47:62:2224:47:1680:-118.674,0,-167.612 1/1:122:0,122:0:0:122:4353:-391.944,-36.7257,0 1/1:170:1,169:1:36:169:6049:-540.913,-47.5768,0 0/1:51:26,25:26:936:25:896:-65.6078,0,-69.2069 0/1:134:70,64:70:2496:64:2304:-167.282,0,-184.555 0/1:102:39,63:39:1400:63:2254:-172.417,0,-95.5941 0/1:129:41,88:41:1464:88:3145:-244.383,0,-93.2232 0/1:19:6,13:6:216:13:468:-36.7401,0,-14.0709 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 1/1:71:0,71:0:0:71:2517:-226.781,-21.3731,0 0/1:115:59,56:59:2116:56:1996:-145.295,0,-156.09 0/1:193:100,93:100:3592:93:3348:-243.437,0,-265.387 0/1:76:39,37:39:1396:37:1328:-96.944,0,-103.061 1/1:97:0,97:0:0:97:3445:-310.245,-29.1999,0 0/1:134:54,80:54:1932:80:2876:-218.738,0,-133.819 0/1:58:26,32:26:928:32:1152:-86.5304,0,-66.3785 1/1:80:3,75:3:108:75:2691:-232.397,-13.7045,0 1/1:59:0,59:0:0:59:2124:-191.428,-17.7608,0 chr03 24727091 . G T 40173.5 PASS AB=0.533774;ABP=23.9855;AC=29;AF=0.690476;AN=42;AO=2028;CIGAR=1X;DP=3016;DPB=3016;DPRA=0;EPP=4406.76;EPPR=2146.25;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9615;MQMR=59.9959;NS=21;NUMALT=1;ODDS=4.21029;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72294;QR=35187;RO=987;RPL=0;RPP=4406.76;RPPR=2146.25;RPR=2028;RUN=1;SAF=2028;SAP=4406.76;SAR=0;SRF=987;SRP=2146.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:236:113,123:113:4014:123:4355:-321.008,0,-290.405 0/1:115:39,76:39:1404:76:2707:-209.253,0,-92.0408 0/1:170:93,77:93:3332:77:2747:-196.297,0,-248.922 1/1:143:0,143:0:0:143:5095:-458.696,-43.0473,0 1/1:164:0,164:0:0:164:5873:-528.679,-49.3689,0 0/1:163:45,118:45:1603:118:4197:-328.842,0,-95.4915 0/1:245:114,131:114:4049:131:4679:-347.518,0,-290.844 0/1:242:124,118:124:4444:118:4220:-307.129,0,-327.281 0/1:260:112,148:112:3997:148:5255:-394.747,0,-281.651 0/1:16:9,7:9:324:7:252:-18.2125,0,-24.6894 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:40:0,40:0:0:40:1432:-129.178,-12.0412,0 1/1:189:0,189:0:0:189:6712:-604.157,-56.8947,0 0/1:201:112,89:112:3988:89:3185:-226.365,0,-298.604 0/1:139:63,75:63:2260:75:2676:-199.332,0,-161.908 0/1:135:66,69:66:2315:69:2461:-181.105,0,-167.967 1/1:147:1,146:1:36:146:5195:-464.092,-40.6531,0 0/1:97:59,38:59:2097:38:1360:-93.5007,0,-159.798 0/1:98:37,61:37:1324:61:2176:-166.606,0,-89.9612 1/1:145:0,145:0:0:145:5187:-466.97,-43.6494,0 1/1:66:0,66:0:0:66:2350:-211.76,-19.868,0 chr03 24781003 . C T 22869.4 PASS AB=0.612935;ABP=114.347;AC=29;AF=0.690476;AN=42;AO=1141;CIGAR=1X;DP=1537;DPB=1537;DPRA=0;EPP=2480.66;EPPR=862.913;GTI=1;LEN=1;MEANALT=1;MQM=59.9825;MQMR=60;NS=21;NUMALT=1;ODDS=3.17574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40623;QR=13994;RO=396;RPL=0;RPP=2480.66;RPPR=862.913;RPR=1141;RUN=1;SAF=0;SAP=2480.66;SAR=1141;SRF=0;SRP=862.913;SRR=396;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:19,30:19:680:30:1065:-81.4093,0,-46.7787 0/1:68:21,47:21:748:47:1675:-130.566,0,-47.1753 0/1:62:35,27:35:1260:27:938:-66.0674,0,-95.0416 1/1:71:0,71:0:0:71:2508:-225.971,-21.3731,0 1/1:150:2,148:2:72:148:5281:-468.591,-38.3178,0 0/1:81:32,49:32:1116:49:1748:-133.218,0,-76.3609 0/1:173:58,115:58:2072:115:4095:-316.659,0,-134.673 0/1:50:22,28:22:784:28:1004:-75.6244,0,-55.8324 0/1:146:59,87:59:2055:87:3107:-235.884,0,-141.269 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 1/1:21:0,21:0:0:21:739:-66.8324,-6.32163,0 1/1:37:0,37:0:0:37:1300:-117.298,-11.1381,0 1/1:85:1,84:1:36:84:3008:-267.353,-21.9893,0 0/1:68:24,44:24:843:44:1572:-121.302,0,-55.718 0/1:79:31,48:31:1112:48:1714:-130.763,0,-76.61 0/1:66:34,32:34:1200:32:1148:-83.7619,0,-88.4376 1/1:32:0,32:0:0:32:1136:-102.548,-9.63296,0 0/1:97:36,61:36:1249:61:2188:-167.986,0,-83.5097 0/1:59:16,43:16:551:43:1523:-119.602,0,-32.1537 1/1:88:4,84:4:144:84:2989:-255.928,-13.177,0 1/1:48:0,48:0:0:48:1705:-153.734,-14.4494,0 chr03 24837385 . G A 11739.4 PASS AB=0.45798;ABP=26.5513;AC=13;AF=0.309524;AN=42;AO=711;CIGAR=1X;DP=2243;DPB=2243;DPRA=1.47823;EPP=1478.22;EPPR=3141.36;GTI=0;LEN=1;MEANALT=1;MQM=53.6835;MQMR=59.8629;NS=21;NUMALT=1;ODDS=9.43879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25383;QR=54121;RO=1532;RPL=8;RPP=1478.22;RPPR=3141.36;RPR=703;RUN=1;SAF=0;SAP=1546.93;SAR=711;SRF=0;SRP=3329.71;SRR=1532;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:43,37:43:1532:37:1301:-92.9985,0,-114.062 0/1:99:47,52:47:1659:52:1849:-136.069,0,-119.791 0/1:113:77,36:77:2748:36:1296:-82.6086,0,-213.546 0/0:102:100,2:100:3559:2:72:0,-24.0391,-313.853 0/0:121:118,3:118:4135:3:108:0,-26.3637,-362.26 0/1:107:55,52:55:1939:52:1842:-133.499,0,-142.549 0/1:149:82,67:82:2924:67:2403:-171.249,0,-218.523 0/1:117:69,48:69:2417:48:1724:-119.937,0,-182.563 0/1:252:131,121:131:4657:121:4322:-312.527,0,-342.656 0/1:13:10,3:10:356:3:108:-6.1488,0,-28.4679 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2439 0/0:45:45,0:45:1575:0:0:0,-13.5463,-142.029 0/0:197:197,0:197:6963:0:0:0,-59.3029,-626.447 0/1:89:43,46:43:1531:46:1631:-120.011,0,-111.291 0/1:252:138,114:138:4870:114:4076:-288.613,0,-362.597 0/1:85:34,51:34:1191:51:1836:-139.416,0,-81.9068 0/0:106:105,1:105:3672:1:32:0,-28.7119,-327.441 0/1:120:63,57:63:2219:57:2035:-146.892,0,-163.844 0/1:59:40,19:40:1420:19:680:-43.6834,0,-110.337 0/0:71:69,2:69:2438:2:68:0,-14.9222,-213.224 0/0:44:44,0:44:1528:0:0:0,-13.2453,-137.808 chr03 24837413 . T G 29671.7 PASS AB=0.534069;ABP=18.546;AC=29;AF=0.690476;AN=42;AO=1505;CIGAR=1X;DP=2234;DPB=2234;DPRA=0;EPP=3271.08;EPPR=1579.5;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.8372;MQMR=53.8774;NS=21;NUMALT=1;ODDS=12.0224;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53675;QR=26010;RO=726;RPL=1505;RPP=3271.08;RPPR=1579.5;RPR=0;RUN=1;SAF=0;SAP=3271.08;SAR=1505;SRF=0;SRP=1579.5;SRR=726;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:38,45:38:1360:45:1620:-121.076,0,-97.3724 0/1:98:52,45:52:1856:45:1604:-115.103,0,-137.538 0/1:113:39,74:39:1385:74:2652:-204.91,0,-90.4495 1/1:102:1,101:1:36:101:3604:-320.805,-27.1119,0 1/1:118:4,113:4:144:113:4024:-349.037,-22.2855,0 0/1:109:54,55:54:1921:55:1941:-142.127,0,-139.841 0/1:151:70,81:70:2504:81:2891:-214.961,0,-179.721 0/1:121:50,71:50:1800:71:2536:-192.064,0,-125.556 0/1:258:126,132:126:4524:132:4724:-346.683,0,-328.803 0/1:12:3,9:3:108:9:324:-25.8935,0,-6.44983 1/1:22:0,22:0:0:22:779:-70.4312,-6.62266,0 1/1:43:1,42:1:36:42:1504:-132.048,-9.34602,0 1/1:198:0,198:0:0:198:7032:-632.934,-59.6039,0 0/1:91:48,43:48:1724:43:1532:-110.779,0,-127.755 0/1:244:107,137:107:3832:137:4892:-366.953,0,-270.977 0/1:87:54,33:54:1940:33:1172:-79.5979,0,-148.14 1/1:99:1,97:1:36:97:3465:-308.242,-26.2673,0 0/1:119:58,61:58:2088:61:2188:-161.363,0,-151.947 0/1:55:18,37:18:644:37:1311:-101.734,0,-41.6536 1/1:71:2,69:2:72:69:2460:-214.828,-14.5461,0 1/1:40:0,40:0:0:40:1420:-128.096,-12.0412,0 chr03 24873871 . A T 15138.5 PASS AB=0.410468;ABP=53.5583;AC=27;AF=0.642857;AN=42;AO=763;CIGAR=1X;DP=1255;DPB=1255;DPRA=0;EPP=1651.17;EPPR=1069.2;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9332;MQMR=60;NS=21;NUMALT=1;ODDS=2.1664;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27247;QR=17529;RO=491;RPL=1;RPP=1651.17;RPPR=1069.2;RPR=762;RUN=1;SAF=763;SAP=1659.84;SAR=0;SRF=491;SRP=1069.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:65,13:65:2313:13:467:-18.8889,0,-184.949 0/1:60:50,9:50:1777:9:324:-11.3853,0,-142.09 0/1:82:46,36:46:1652:36:1292:-91.8993,0,-124.284 1/1:93:1,92:1:36:92:3293:-292.99,-24.3975,0 1/1:68:3,65:3:108:65:2300:-197.184,-10.3949,0 0/1:71:58,13:58:2084:13:468:-21.0865,0,-166.457 0/1:87:52,35:52:1852:35:1260:-87.5159,0,-140.77 0/1:37:15,22:15:525:22:788:-60.1067,0,-36.4399 0/1:128:57,71:57:2006:71:2529:-189.3,0,-142.278 0/1:21:7,14:7:252:14:500:-39.0145,0,-16.7073 1/1:20:0,20:0:0:20:711:-64.3156,-6.0206,0 1/1:34:0,34:0:0:34:1193:-107.673,-10.235,0 1/1:75:0,75:0:0:75:2664:-240.004,-22.5773,0 0/1:90:45,45:45:1616:45:1616:-118.637,0,-118.637 0/1:20:15,5:15:540:5:180:-10.5315,0,-42.9159 0/0:62:60,2:60:2160:2:72:0,-11.8271,-187.83 0/1:9:1,8:1:36:8:288:-23.5535,0,-0.889005 0/1:18:8,10:8:288:10:360:-27.3258,0,-20.8489 0/1:25:8,17:8:284:17:612:-47.8877,0,-18.3776 1/1:144:0,144:0:0:144:5146:-463.278,-43.3483,0 1/1:33:0,33:0:0:33:1184:-106.09,-9.93399,0 chr03 24873878 . T C 15002.4 PASS AB=0.410615;ABP=52.6994;AC=27;AF=0.642857;AN=42;AO=753;CIGAR=1X;DP=1239;DPB=1239;DPRA=0;EPP=1603.57;EPPR=1047.51;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9243;MQMR=60;NS=21;NUMALT=1;ODDS=1.19583;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26804;QR=17372;RO=485;RPL=4;RPP=1603.57;RPPR=1047.51;RPR=749;RUN=1;SAF=753;SAP=1638.13;SAR=0;SRF=485;SRP=1056.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:63,13:63:2260:13:467:-19.4909,0,-180.784 0/1:59:50,9:50:1788:9:315:-10.9265,0,-143.442 0/1:81:47,34:47:1684:34:1215:-85.2723,0,-127.464 1/1:94:1,93:1:36:93:3300:-293.621,-24.6985,0 1/1:68:3,65:3:108:65:2298:-197.006,-10.3949,0 0/1:72:59,13:59:2120:13:460:-20.0612,0,-169.394 0/1:85:50,35:50:1792:35:1260:-88.1179,0,-135.975 0/1:37:15,22:15:540:22:770:-58.4812,0,-37.7984 0/1:125:55,70:55:1959:70:2512:-188.675,0,-138.956 0/1:20:7,13:7:252:13:468:-36.439,0,-17.0084 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:33:0,33:0:0:33:1173:-105.876,-9.93399,0 1/1:74:0,74:0:0:74:2632:-237.128,-22.2762,0 0/1:90:45,45:45:1612:45:1608:-117.917,0,-118.277 0/1:20:15,5:15:540:5:171:-9.70485,0,-42.9159 0/0:61:59,2:59:2120:2:72:0,-11.5261,-184.232 0/1:9:1,8:1:36:8:280:-22.8254,0,-0.889005 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 0/1:25:8,17:8:273:17:596:-46.4415,0,-17.3744 1/1:141:0,141:0:0:141:5015:-451.494,-42.4452,0 1/1:33:0,32:0:0:32:1148:-102.492,-9.63296,0 chr03 24902957 . 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C G 12642.4 PASS AB=0.594112;ABP=89.2513;AC=13;AF=0.309524;AN=42;AO=668;CIGAR=1X;DP=1725;DPB=1725;DPRA=2.18427;EPP=1252.58;EPPR=2036.89;GTI=1;LEN=1;MEANALT=1;MQM=58.979;MQMR=59.9111;NS=21;NUMALT=1;ODDS=4.76254;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23867;QR=37627;RO=1057;RPL=24;RPP=1252.58;RPPR=2036.89;RPR=644;RUN=1;SAF=668;SAP=1453.55;SAR=0;SRF=1057;SRP=2298.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:32,85:32:1131:85:3033:-237.943,0,-66.8772 0/1:84:24,60:24:856:60:2144:-167.941,0,-52.0746 0/1:93:43,50:43:1540:50:1796:-133.915,0,-110.897 0/0:64:64,0:64:2270:0:0:0,-19.2659,-204.549 0/0:184:183,1:183:6505:1:36:0,-51.803,-581.949 0/1:108:45,63:45:1612:63:2256:-170.792,0,-112.859 0/1:154:57,97:57:2040:97:3463:-265.523,0,-137.492 0/1:118:63,55:63:2216:55:1957:-140.536,0,-164.155 0/1:117:47,70:47:1684:70:2493:-189.386,0,-116.626 0/1:22:9,13:9:320:13:468:-35.744,0,-22.5197 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:37:37,0:37:1316:0:0:0,-11.1381,-118.731 0/0:100:100,0:100:3566:0:0:0,-30.103,-321.147 0/1:83:28,55:28:1004:55:1968:-152.367,0,-65.6904 0/1:106:53,53:53:1877:53:1900:-139.344,0,-137.298 0/1:59:17,42:17:604:42:1493:-116.898,0,-36.9298 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.341 0/1:27:17,10:17:612:10:356:-24.1723,0,-47.2856 0/1:33:20,13:20:716:13:468:-32.5164,0,-54.8337 0/0:153:152,1:152:5394:1:36:0,-42.4644,-481.993 0/0:24:24,0:24:856:0:0:0,-7.22472,-77.3611 chr03 24915236 . T A 11035.5 PASS AB=0.517378;ABP=6.33097;AC=13;AF=0.309524;AN=42;AO=657;CIGAR=1X;DP=1996;DPB=1996;DPRA=1.00811;EPP=1429.67;EPPR=2899.75;GTI=0;LEN=1;MEANALT=1.13333;MQM=58.9985;MQMR=59.7144;NS=21;NUMALT=1;ODDS=5.77295;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23340;QR=47827;RO=1334;RPL=0;RPP=1429.67;RPPR=2899.75;RPR=657;RUN=1;SAF=657;SAP=1429.67;SAR=0;SRF=1334;SRP=2899.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:68,45:68:2440:45:1601:-110.344,0,-185.75 0/1:90:42,46:42:1500:46:1621:-119.31,0,-107.807 0/1:100:44,56:44:1584:56:1997:-149.877,0,-112.746 0/0:105:105,0:105:3772:0:0:0,-31.6081,-339.518 0/0:242:242,0:242:8680:0:0:0,-72.8493,-781.165 0/1:96:45,51:45:1612:51:1794:-132.82,0,-116.46 0/1:89:42,47:42:1500:47:1650:-121.975,0,-108.5 0/1:87:41,46:41:1472:46:1637:-121.409,0,-106.091 0/1:177:87,90:87:3112:90:3213:-236.074,0,-227.024 0/1:24:11,13:11:396:13:468:-35.2297,0,-28.758 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2702 0/0:145:145,0:145:5200:0:0:0,-43.6493,-468.03 0/1:94:43,51:43:1540:51:1802:-134.142,0,-110.535 0/1:193:64,127:64:2304:127:4517:-348.811,0,-149.668 0/1:90:43,47:43:1544:47:1684:-124.736,0,-112.16 0/0:70:69,1:69:2468:1:36:0,-17.4743,-218.771 0/1:46:29,17:29:1036:17:608:-41.198,0,-79.7065 0/1:67:48,19:48:1719:19:676:-40.9918,0,-134.823 0/0:93:92,1:92:3288:1:36:0,-24.398,-292.523 0/0:39:38,0:38:1364:0:0:0,-11.4391,-122.701 chr03 24943495 . T G 13909.9 PASS AB=0.421121;ABP=44.4608;AC=29;AF=0.690476;AN=42;AO=731;CIGAR=1X;DP=1177;DPB=1177;DPRA=0;EPP=1581.68;EPPR=962.821;GTI=1;LEN=1;MEANALT=1;MQM=59.8632;MQMR=59.9574;NS=21;NUMALT=1;ODDS=1.13663;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25566;QR=15906;RO=446;RPL=0;RPP=1590.36;RPPR=971.487;RPR=731;RUN=1;SAF=1;SAP=1581.68;SAR=730;SRF=1;SRP=962.821;SRR=445;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:44,36:44:1572:36:1268:-90.3373,0,-117.687 0/1:37:20,17:20:716:17:578:-41.1993,0,-53.6296 0/1:24:11,13:11:396:13:453:-33.8749,0,-28.758 1/1:44:0,44:0:0:44:1543:-139.155,-13.2453,0 1/1:186:2,184:2:72:184:6426:-571.558,-49.1549,0 0/1:31:19,12:19:676:12:428:-29.5269,0,-51.8361 0/1:101:74,27:74:2636:27:943:-54.7792,0,-207.084 0/1:73:49,24:49:1756:24:856:-55.3859,0,-136.349 0/1:98:60,38:60:2156:38:1355:-92.7488,0,-164.806 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:5:0,5:0:0:5:161:-14.8066,-1.50515,0 1/1:13:0,13:0:0:13:453:-41.0973,-3.91339,0 1/1:43:0,43:0:0:43:1506:-135.827,-12.9443,0 0/1:50:31,19:31:1100:19:680:-46.4777,0,-84.2588 0/1:79:26,53:26:924:53:1842:-142.269,0,-59.6963 0/1:62:47,15:47:1675:15:531:-29.458,0,-132.373 1/1:54:0,54:0:0:54:1910:-172.176,-16.2556,0 0/1:83:46,37:46:1631:37:1275:-89.9315,0,-122.048 0/1:45:14,31:14:488:31:1046:-80.8944,0,-30.7041 1/1:39:0,39:0:0:39:1375:-124.047,-11.7402,0 1/1:26:0,26:0:0:26:901:-81.4036,-7.82678,0 chr03 24943586 . ACTGC GATGC 18542.6 PASS AB=0.563152;ABP=32.9052;AC=29;AF=0.690476;AN=42;AO=951;CIGAR=2X3M;DP=1337;DPB=1337;DPRA=0;EPP=2068.08;EPPR=819.484;GTI=0;LEN=2;MEANALT=1.28571;MQM=59.9464;MQMR=60;NS=21;NUMALT=1;ODDS=18.9989;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33350;QR=13104;RO=376;RPL=951;RPP=2068.08;RPPR=819.484;RPR=0;RUN=1;SAF=951;SAP=2068.08;SAR=0;SRF=376;SRP=819.484;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:45,57:45:1558:57:1991:-148.756,0,-109.802 0/1:60:20,37:20:686:37:1273:-97.3469,0,-44.5402 0/1:56:27,29:27:947:29:1042:-77.237,0,-68.6857 1/1:89:0,89:0:0:89:3132:-282.104,-26.7917,0 1/1:100:3,95:3:95:95:3376:-295.19,-20.9558,0 0/1:57:30,26:30:1051:26:917:-65.6279,0,-77.6825 0/1:89:48,41:48:1695:41:1455:-104.435,0,-126.045 0/1:50:25,25:25:877:25:876:-64.1034,0,-64.1955 0/1:50:31,16:31:1077:16:569:-37.0347,0,-82.7306 0/1:11:6,5:6:210:5:178:-13.0573,0,-15.9306 1/1:15:0,15:0:0:15:536:-48.575,-4.51545,0 1/1:17:0,17:0:0:17:596:-53.9665,-5.11751,0 1/1:99:0,98:0:0:98:3422:-307.832,-29.5009,0 0/1:56:20,36:20:669:36:1278:-98.4625,0,-43.6646 0/1:58:18,40:18:628:40:1395:-108.384,0,-39.3854 0/1:49:18,31:18:630:31:1083:-82.9902,0,-42.2756 1/1:31:1,30:1:36:30:1039:-90.2189,-5.73366,0 0/1:134:56,78:56:1957:78:2709:-203.713,0,-136.068 0/1:91:26,65:26:924:65:2267:-176.895,0,-56.0841 1/1:44:0,44:0:0:44:1521:-137.176,-13.2453,0 1/1:79:2,77:2:64:77:2695:-236.715,-17.7027,0 chr03 24943795 . T C 9020.7 PASS AB=0.539337;ABP=15.9942;AC=13;AF=0.309524;AN=42;AO=523;CIGAR=1X;DP=1369;DPB=1369;DPRA=2.00175;EPP=1112.78;EPPR=1762.73;GTI=1;LEN=1;MEANALT=1;MQM=59.5296;MQMR=59.9598;NS=21;NUMALT=1;ODDS=2.1143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18499;QR=30034;RO=846;RPL=517;RPP=1087.17;RPPR=1745.77;RPR=6;RUN=1;SAF=520;SAP=1112.78;SAR=3;SRF=844;SRP=1822.75;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:47,63:47:1676:63:2220:-166.912,0,-117.977 0/1:38:15,23:15:540:23:805:-61.3202,0,-37.4974 0/1:60:14,46:14:500:46:1625:-128.475,0,-27.2744 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.585 0/0:79:78,1:78:2780:1:36:0,-20.1831,-246.843 0/1:89:47,42:47:1658:42:1487:-107.287,0,-122.712 0/1:82:36,46:36:1258:46:1615:-120.647,0,-88.8338 0/1:89:40,49:40:1420:49:1743:-130.332,0,-101.297 0/1:96:42,54:42:1504:54:1927:-144.804,0,-106.756 0/1:8:3,5:3:104:5:180:-14.1438,0,-7.29457 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:79:79,0:79:2813:0:0:0,-23.7814,-253.408 0/1:72:38,34:38:1356:34:1196:-86.2661,0,-100.666 0/1:111:54,57:54:1919:57:2040:-150.453,0,-139.572 0/1:39:15,24:15:531:24:851:-65.1666,0,-36.3817 0/0:38:38,0:38:1311:0:0:0,-11.4391,-118.283 0/1:104:47,57:47:1671:57:2002:-149.044,0,-119.369 0/1:68:47,21:47:1638:21:740:-46.4464,0,-127.234 0/0:96:95,1:95:3383:1:32:0,-25.6996,-301.487 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 chr03 24962803 . AGCC GGCT,GGCC 94039.5 PASS AB=0.524947,0.46823;ABP=15.6863,23.5684;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2462,1114;CIGAR=1X2M1X,1X3M;DP=3598;DPB=3599;DPRA=0,2.78736;EPP=5349.18,2422.03;EPPR=7.35324;GTI=0;LEN=4,1;MEANALT=2.71429,3;MQM=59.4777,59.9345;MQMR=60;NS=21;NUMALT=2;ODDS=23.6165;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=52,52;PQR=0;PRO=0;QA=86080,39456;QR=58;RO=2;RPL=1018,567;RPP=163.071,3.79;RPPR=3.0103;RPR=1444,547;RUN=1,1;SAF=1018,567;SAP=163.071,3.79;SAR=1444,547;SRF=1;SRP=3.0103;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:211:0,113,96:0:0:113,96:3946,3351:-593.531,-272.576,-238.56,-321.007,0,-292.108 1/2:174:0,90,83:0:0:90,83:3181,2941:-498.624,-239.609,-212.517,-259.067,0,-234.082 1/2:121:0,68,52:0:0:68,52:2373,1851:-343.789,-150.856,-130.386,-192.926,0,-177.272 1/1:198:0,195,2:0:0:195,2:6807,72:-612.235,-58.7009,0,-606.36,-52.826,-605.758 1/1:291:0,284,5:0:0:284,5:9936,180:-893.419,-85.4925,0,-878.731,-70.7842,-877.226 1/2:196:0,98,98:0:0:98,98:3449,3476:-564.262,-283.551,-254.05,-281.064,0,-251.563 1/2:279:0,147,132:0:0:147,132:5088,4651:-791.458,-379.019,-334.767,-412.788,0,-373.052 1/2:182:0,88,93:0:0:88,93:3075,3298:-518.751,-268.681,-242.191,-250.062,0,-222.066 1/2:215:0,103,110:0:0:103,110:3600,3923:-612.418,-319.703,-288.697,-292.708,0,-259.594 1/2:20:0,13,7:0:0:13,7:464,252:-58.7473,-20.9217,-17.0084,-38.1843,0,-36.0771 1/1:23:0,23,0:0:0:23,0:824,0:-74.4771,-6.92369,0,-74.4771,-6.92369,-74.4771 1/1:41:0,40,1:0:0:40,1:1416,36:-127.376,-12.0412,0,-124.438,-8.74396,-124.137 1/1:337:0,333,2:0:0:333,2:11615,72:-1044.57,-100.243,0,-1038.69,-94.368,-1038.09 1/2:185:1,85,98:1:28:85,98:2955,3492:-522.326,-282.452,-259.083,-237.988,0,-210.705 1/2:289:0,160,128:0:0:160,128:5599,4483:-820.17,-364.75,-316.585,-455.411,0,-416.879 1/2:128:0,64,64:0:0:64,64:2237,2292:-369.242,-187.275,-168.01,-182.32,0,-163.054 1/1:96:0,96,0:0:0:96,0:3362,0:-302.789,-28.8989,0,-302.789,-28.8989,-302.789 1/2:170:1,77,90:1:30:77,90:2701,3202:-478.07,-258.626,-237.844,-217.417,0,-192.722 1/2:175:0,125,47:0:0:125,47:4332,1668:-487.98,-135.967,-98.3379,-352.075,0,-337.927 1/1:183:0,176,6:0:0:176,6:6167,216:-554.634,-52.9813,0,-537.01,-35.2541,-535.203 1/1:84:0,84,0:0:0:84,0:2953,0:-265.99,-25.2865,0,-265.99,-25.2865,-265.99 chr03 25019036 . TTA GTA,GTT 76906.9 PASS AB=0.540357,0.458794;ABP=36.3111,37.728;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2542,1089;CIGAR=1X2M,1X1M1X;DP=3637;DPB=3637;DPRA=0,2.21319;EPP=5384.79,2350.4;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.95238,2.25;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.5525;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=90821,38355;QR=0;RO=0;RPL=2526,1087;RPP=5384.79,2350.4;RPPR=0;RPR=16,2;RUN=1,1;SAF=0,0;SAP=5522.89,2367.74;SAR=2542,1089;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:362:0,173,189:0:0:173,189:6176,6650:-1045.2,-541.691,-489.613,-503.862,0,-446.967 1/2:131:0,64,66:0:0:64,66:2279,2319:-374.574,-188.821,-169.555,-185.825,0,-165.957 1/2:113:0,57,56:0:0:57,56:2036,1996:-329.053,-163.056,-145.898,-166.354,0,-149.496 1/1:166:0,166,0:0:0:166,0:5931,0:-533.897,-49.971,0,-533.897,-49.971,-533.897 1/1:262:0,261,1:0:0:261,1:9321,36:-838.497,-78.5688,0,-835.56,-75.2716,-835.259 1/2:195:0,104,91:0:0:104,91:3724,3222:-566.508,-262.81,-231.503,-304.054,0,-276.66 1/2:244:0,144,100:0:0:144,100:5160,3510:-706.847,-286.009,-242.66,-421.192,0,-391.089 1/2:120:0,57,63:0:0:57,63:2029,2221:-346.557,-181.189,-164.031,-165.722,0,-146.757 1/2:565:0,340,225:0:0:340,225:12154,7961:-1639.79,-648.788,-546.438,-991.359,0,-923.627 1/2:11:0,9,2:0:0:9,2:316,72:-31.946,-6.23466,-3.52539,-26.0696,0,-25.4675 1/1:17:0,17,0:0:0:17,0:597,0:-54.057,-5.11751,0,-54.057,-5.11751,-54.057 1/1:32:0,32,0:0:0:32,0:1139,0:-102.819,-9.63296,0,-102.819,-9.63296,-102.819 1/1:174:0,174,0:0:0:174,0:6206,0:-558.638,-52.3792,0,-558.638,-52.3792,-558.638 1/2:198:0,93,105:0:0:93,105:3305,3642:-565.699,-296.377,-268.382,-269.673,0,-238.065 1/2:147:0,74,72:0:0:74,72:2637,2539:-421.672,-206.726,-184.45,-214.94,0,-193.266 1/2:132:0,71,61:0:0:71,61:2528,2178:-383.963,-177.924,-156.55,-206.396,0,-188.033 1/1:413:0,408,1:0:0:408,1:14601,36:-1313.48,-122.82,0,-1310.54,-119.88,-1310.24 1/2:53:0,39,14:0:0:39,14:1400,498:-155.144,-40.9411,-29.2009,-114.559,0,-110.345 1/2:83:0,47,36:0:0:47,36:1671,1227:-236.071,-99.8898,-85.7414,-136.528,0,-125.691 1/1:158:0,151,7:0:0:151,7:5423,248:-487.842,-45.4555,0,-467.64,-24.8983,-465.532 1/1:61:0,61,0:0:0:61,0:2188,0:-197.186,-18.3628,0,-197.186,-18.3628,-197.186 chr03 25046235 . AACGT GACA,GACAT 22504 PASS AB=0.481417,0.513397;ABP=6.48053,4.81392;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1089,596;CIGAR=1X2M1D1X,1X2M1X1M;DP=1691;DPB=1472.8;DPRA=0,1.93241;EPP=2367.74,1297.21;EPPR=0;GTI=1;LEN=5,5;MEANALT=1.95238,2.33333;MQM=26.0432,34.2265;MQMR=0;NS=21;NUMALT=2;ODDS=0.383283;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=7,7;PQR=0;PRO=0;QA=38495,19899;QR=0;RO=0;RPL=1089,596;RPP=2367.74,1297.21;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2367.74,1297.21;SAR=1089,596;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,30,30:0:0:30,30:1055,1036:-138.841,-76.804,-67.7731,-62.3266,0,-53.2957 1/2:92:0,44,48:0:0:44,48:1555,1519:-186.093,-109.821,-96.5758,-76.5275,0,-62.0781 1/2:46:0,27,19:0:0:27,19:964,647:-103.955,-47.884,-39.7562,-56.3629,0,-50.6434 1/1:75:0,75,0:0:0:75,0:2645,0:-177.79,-22.5773,0,-177.79,-22.5773,-177.79 1/1:162:0,161,1:0:0:161,1:5681,36:-380.658,-48.4658,0,-377.989,-45.4678,-377.688 1/2:94:0,40,54:0:0:40,54:1418,1697:-192.265,-122.573,-110.531,-69.9444,0,-53.6888 1/2:103:0,52,51:0:0:52,51:1802,1558:-201.096,-111.612,-95.9583,-89.7348,0,-74.3822 1/2:114:0,64,49:0:0:64,49:2245,1639:-242.055,-120.047,-100.781,-122.063,0,-107.312 1/2:134:0,59,73:0:0:59,73:2076,2550:-320.594,-194.801,-177.04,-125.889,0,-103.914 1/2:21:0,17,4:0:0:17,4:597,125:-41.4353,-9.24582,-4.12831,-32.4646,0,-31.2605 1/1:6:0,6,0:0:0:6,0:216,0:-12.5338,-1.80618,0,-12.5338,-1.80618,-12.5338 1/1:4:0,4,0:0:0:4,0:137,0:-9.0239,-1.20412,0,-9.0239,-1.20412,-9.0239 1/1:102:0,102,0:0:0:102,0:3591,0:-241.397,-30.7051,0,-241.397,-30.7051,-241.397 1/2:83:0,46,36:0:0:46,36:1625,1226:-186.541,-91.4108,-77.5635,-95.1564,0,-84.3193 1/2:175:0,81,94:0:0:81,94:2900,3253:-408.701,-239.996,-215.612,-168.994,0,-140.697 1/2:81:0,29,51:0:0:29,51:1016,1740:-194.616,-132.235,-123.505,-62.4529,0,-47.1004 1/1:56:0,56,0:0:0:56,0:1983,0:-136.652,-16.8577,0,-136.652,-16.8577,-136.652 1/2:91:0,31,60:0:0:31,60:1097,1985:-204.52,-145.3,-135.968,-59.485,0,-41.4232 1/2:63:0,37,25:0:0:37,25:1324,852:-139.618,-62.8357,-51.6976,-76.852,0,-69.3262 1/1:82:0,81,1:0:0:81,1:2880,36:-179.264,-24.3834,0,-177.345,-22.2176,-177.044 1/1:47:0,47,0:0:0:47,0:1688,0:-96.4301,-14.1484,0,-96.4301,-14.1484,-96.4301 chr03 25053410 . A G 9906.02 PASS AB=0.510443;ABP=4.14411;AC=13;AF=0.309524;AN=42;AO=617;CIGAR=1X;DP=2143;DPB=2143;DPRA=2.10828;EPP=1334.14;EPPR=3305.83;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.987;MQMR=59.9744;NS=21;NUMALT=1;ODDS=24.1567;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21494;QR=54334;RO=1525;RPL=1;RPP=1334.14;RPPR=3305.83;RPR=616;RUN=1;SAF=0;SAP=1342.81;SAR=617;SRF=0;SRP=3314.51;SRR=1525;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:33,19:33:1167:19:671:-45.0622,0,-89.6828 0/1:36:19,17:19:665:17:590:-42.5871,0,-49.3357 0/1:25:13,12:13:464:12:416:-30.2459,0,-34.5718 0/0:42:40,2:40:1423:2:72:0,-5.80654,-121.53 0/0:81:81,0:81:2869:0:0:0,-24.3834,-258.447 0/1:29:19,10:19:684:10:352:-23.2883,0,-53.1605 0/1:63:37,26:37:1324:26:907:-62.9775,0,-100.497 0/1:40:22,18:22:784:18:626:-44.6221,0,-58.8427 0/1:34:20,14:20:716:14:481:-33.38,0,-54.5327 0/1:168:64,104:64:2292:104:3639:-277.144,0,-155.968 0/0:367:366,1:366:13066:1:36:0,-106.88,-1172.15 0/0:318:316,1:316:11253:1:32:0,-92.5671,-1009.44 0/0:51:51,0:51:1824:0:0:0,-15.3525,-164.441 0/1:39:19,20:19:672:20:687:-50.4072,0,-49.0667 0/1:55:33,22:33:1180:22:775:-53.5145,0,-89.9514 0/1:33:17,16:17:612:16:547:-39.617,0,-45.4794 0/0:25:25,0:25:872:0:0:0,-7.52575,-78.7936 0/1:583:270,313:270:9622:313:10918:-807.043,0,-689.417 0/1:40:20,20:20:720:20:677:-49.2039,0,-53.0876 0/0:27:26,1:26:932:1:32:0,-4.9285,-80.9995 0/0:35:34,1:34:1193:1:36:0,-6.93777,-104.075 chr03 25072989 . G A 11863.1 PASS AB=0.475133;ABP=9.05802;AC=13;AF=0.309524;AN=42;AO=540;CIGAR=1X;DP=1806;DPB=1806;DPRA=1.23373;EPP=3.41242;EPPR=401.498;GTI=0;LEN=1;MEANALT=1;MQM=59.9963;MQMR=59.9921;NS=21;NUMALT=1;ODDS=24.9318;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19101;QR=44550;RO=1266;RPL=1;RPP=1166.94;RPPR=2752.09;RPR=539;RUN=1;SAF=266;SAP=3.26766;SAR=274;SRF=392;SRP=401.498;SRR=874;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:21,15:21:756:15:540:-38.0995,0,-57.5301 0/1:49:31,18:31:1104:18:610:-40.4652,0,-84.9202 0/1:17:11,6:11:392:6:216:-14.673,0,-30.5025 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:84:81,3:81:2824:3:99:0,-16.0499,-245.16 0/1:39:21,18:21:728:18:644:-46.5495,0,-54.0975 0/1:33:17,16:17:608:16:572:-41.8794,0,-45.118 0/1:40:28,12:28:992:12:428:-26.8176,0,-77.5486 0/1:47:22,25:22:792:25:883:-65.639,0,-57.4573 0/1:149:86,63:86:2975:63:2236:-156.651,0,-223.128 0/0:128:128,0:128:4458:0:0:0,-38.5318,-401.397 0/0:196:195,1:195:6889:1:36:0,-55.4036,-616.488 0/0:82:82,0:82:2869:0:0:0,-24.6845,-258.447 0/1:43:32,11:32:1118:11:381:-21.6763,0,-87.9792 0/1:52:26,26:26:936:26:913:-66.8304,0,-68.9059 0/1:35:18,17:18:648:17:612:-44.8774,0,-48.1158 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/1:493:208,285:208:7250:285:10071:-757.924,0,-504.158 0/1:93:70,23:70:2460:23:828:-46.8483,0,-193.658 0/0:35:34,1:34:1203:1:32:0,-7.33674,-105.376 0/0:87:87,0:87:3116:0:0:0,-26.1896,-280.667 chr03 25073044 . 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CTTTTTTATTATTCTG CTTTTTATTATTCTG 43212.3 PASS AB=0.471898;ABP=15.3371;AC=31;AF=0.738095;AN=42;AO=2165;CIGAR=1M1D14M;DP=3137;DPB=3000.19;DPRA=0;EPP=4704.25;EPPR=2039.85;GTI=0;LEN=1;MEANALT=2.47619;MQM=59.9039;MQMR=60;NS=21;NUMALT=1;ODDS=4.94497;PAIRED=0;PAIREDR=0;PAO=1;PQA=23;PQR=23;PRO=1;QA=76118;QR=32480;RO=938;RPL=2165;RPP=4704.25;RPPR=2039.85;RPR=0;RUN=1;SAF=2165;SAP=4704.25;SAR=0;SRF=938;SRP=2039.85;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:0,136:0:0:136:4809:-432.609,-40.9401,0 1/1:123:0,121:0:0:121:4275:-384.688,-36.4246,0 0/1:189:106,79:106:3725:79:2781:-194.508,0,-279.44 1/1:215:0,214:0:0:214:7518:-675.987,-64.4204,0 1/1:284:4,274:4:134:274:9642:-855.373,-71.6212,0 0/1:71:44,27:44:1514:27:944:-63.901,0,-115.178 0/1:251:120,130:120:4162:130:4612:-339.716,0,-299.253 0/1:163:92,70:92:3178:70:2447:-171.355,0,-237.127 0/1:346:172,169:172:5924:169:5925:-430.4,0,-430.34 0/1:25:9,16:9:301:16:576:-44.6492,0,-19.8898 1/1:18:0,18:0:0:18:625:-56.5725,-5.41854,0 1/1:61:0,61:0:0:61:2156:-194.301,-18.3628,0 1/1:205:1,203:1:36:203:7141:-639.147,-58.1716,0 0/1:208:113,95:113:3866:95:3296:-234.248,0,-285.541 0/1:286:149,136:149:5174:136:4802:-346.244,0,-379.727 0/1:115:67,47:67:2318:47:1621:-111.491,0,-174.205 1/1:105:0,104:0:0:104:3625:-326.205,-31.3071,0 0/1:59:24,34:24:844:34:1204:-90.8467,0,-58.4605 0/1:84:36,45:36:1268:45:1594:-119.006,0,-89.6814 1/1:132:1,128:1:36:128:4512:-402.682,-35.5836,0 1/1:59:0,58:0:0:58:2013:-181.119,-17.4597,0 chr03 25374979 . 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GTA GGA,AGT 40837.7 PASS AB=0.528736,0.465959;ABP=11.1221,14.3937;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1475,527;CIGAR=1M1X1M,3X;DP=2012;DPB=2012;DPRA=0,1.16706;EPP=3171.28,1138.71;EPPR=13.8677;GTI=0;LEN=1,3;MEANALT=1.71429,2.27273;MQM=58.581,34.6774;MQMR=54.4;NS=21;NUMALT=2;ODDS=9.24184;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52528,18515;QR=153;RO=5;RPL=1471,526;RPP=3171.28,1138.71;RPPR=13.8677;RPR=4,1;RUN=1,1;SAF=0,0;SAP=3205.93,1147.38;SAR=1475,527;SRF=0;SRP=13.8677;SRR=5;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1924,0:-173.302,-16.2556,0,-173.302,-16.2556,-173.302 1/1:65:1,64,0:1:25:64,0:2279,0:-202.766,-17.0671,0,-203.067,-19.2659,-205.014 1/2:113:0,44,69:0:0:44,69:1564,2422:-304.855,-177.425,-164.179,-127.771,0,-107 1/1:104:1,103,0:1:36:103,0:3644,0:-324.118,-27.7088,0,-324.419,-31.0061,-327.356 1/1:246:1,245,0:1:28:245,0:8748,0:-784.284,-71.3987,0,-784.585,-73.7524,-786.673 1/2:69:0,29,39:0:0:29,39:1023,1371:-182.596,-99.2819,-90.5521,-83.3147,0,-71.5745 1/2:119:1,62,55:1:36:62,55:2194,1963:-317.072,-138.734,-123.008,-175.739,0,-162.12 1/2:99:0,59,40:0:0:59,40:2099,1414:-274.856,-103.79,-86.0291,-171.401,0,-159.36 1/2:182:0,105,75:0:0:105,75:3728,2655:-495.327,-191.852,-160.244,-303.512,0,-280.935 1/2:15:0,7,8:0:0:7,8:252,272:-40.8088,-20.2236,-18.1164,-20.9217,0,-18.5135 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/1:35:0,35,0:0:0:35,0:1260,0:-113.705,-10.5361,0,-113.705,-10.5361,-113.705 1/1:167:0,166,0:0:0:166,0:5918,0:-531.997,-49.971,0,-531.997,-49.971,-531.997 1/2:101:1,48,52:1:28:48,52:1696,1799:-266.416,-128.593,-116.362,-135.959,0,-122.523 1/2:155:0,69,86:0:0:69,86:2467,3010:-418.867,-217.791,-197.02,-201.414,0,-175.525 1/2:88:0,56,32:0:0:56,32:2000,1133:-245.985,-83.068,-66.2104,-163.251,0,-153.618 1/1:88:0,88,0:0:0:88,0:3131,0:-281.559,-26.4906,0,-281.559,-26.4906,-281.559 1/2:111:0,65,46:0:0:65,46:2323,1615:-306.785,-117.374,-97.8067,-189.745,0,-175.898 1/2:79:0,54,25:0:0:54,25:1944,861:-221.798,-63.2552,-46.9996,-158.871,0,-151.345 1/1:74:0,74,0:0:0:74,0:2622,0:-236.21,-22.2762,0,-236.21,-22.2762,-236.21 1/1:42:0,42,0:0:0:42,0:1500,0:-135.277,-12.6433,0,-135.277,-12.6433,-135.277 chr03 25388396 . GC GT,AT 93140.4 PASS AB=0.635802,0.363636;ABP=288.465,290.829;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2919,665;CIGAR=1M1X,2X;DP=3588;DPB=3588;DPRA=0,1.55334;EPP=6341.54,1447.04;EPPR=9.52472;GTI=0;LEN=1,2;MEANALT=1.85714,2.05882;MQM=52.5207,47.5624;MQMR=60;NS=21;NUMALT=2;ODDS=11.0033;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=102309,23262;QR=97;RO=3;RPL=1702,167;RPP=177.996,360.768;RPPR=3.73412;RPR=1217,498;RUN=1,1;SAF=1702,167;SAP=177.996,360.768;SAR=1217,498;SRF=2;SRP=3.73412;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:0,167,5:0:0:167,5:5848,157:-522.246,-50.272,0,-509.647,-37.3586,-508.142 1/1:264:0,263,1:0:0:263,1:9277,36:-830.442,-79.1709,0,-827.505,-75.8736,-827.204 1/2:170:0,128,42:0:0:128,42:4447,1481:-480.42,-120.551,-82.0196,-360.219,0,-347.576 1/1:280:0,280,0:0:0:280,0:9834,0:-880.452,-84.2884,0,-880.452,-84.2884,-880.452 1/1:405:1,400,4:1:36:400,4:14063,139:-1252.27,-117.472,0,-1241.29,-109.139,-1243.03 1/2:96:0,68,28:0:0:68,28:2369,1000:-272.247,-80.8255,-60.3555,-191.772,0,-183.344 1/2:222:1,157,64:1:25:157,64:5523,2237:-623.304,-178.253,-132.939,-443.5,0,-426.182 1/2:156:0,100,56:0:0:100,56:3463,1925:-436.437,-155.959,-125.856,-280.821,0,-263.964 1/2:264:0,134,130:0:0:134,130:4732,4536:-701.073,-319.274,-278.936,-382.126,0,-342.992 1/2:14:0,5,9:0:0:5,9:180,306:-39.262,-24.6362,-23.1311,-14.9751,0,-12.2659 1/1:24:0,24,0:0:0:24,0:852,0:-76.7541,-7.22472,0,-76.7541,-7.22472,-76.7541 1/1:75:0,75,0:0:0:75,0:2623,0:-235.507,-22.5773,0,-235.507,-22.5773,-235.507 1/1:184:1,182,1:1:36:182,1:6438,36:-571.428,-51.8497,0,-568.797,-51.8566,-571.434 1/2:156:0,111,45:0:0:111,45:3894,1574:-441.492,-127.727,-94.3123,-314.113,0,-300.566 1/2:327:0,204,123:0:0:204,123:7137,4330:-928.99,-351.304,-289.893,-578.036,0,-541.009 1/2:156:0,67,89:0:0:67,89:2348,3160:-401.578,-211.921,-191.752,-189.984,0,-163.192 1/1:113:0,111,1:0:0:111,1:3874,34:-344.766,-33.4143,0,-342.064,-30.7188,-341.763 1/2:124:0,83,41:0:0:83,41:2883,1414:-348.719,-115.039,-90.0537,-234.025,0,-221.683 1/2:97:0,76,21:0:0:76,21:2584,719:-266.373,-58.3554,-35.4771,-208.357,0,-202.036 1/1:196:0,191,5:0:0:191,5:6725,178:-602.23,-57.4967,0,-587.744,-42.655,-586.239 1/1:93:0,93,0:0:0:93,0:3215,0:-288.36,-27.9958,0,-288.36,-27.9958,-288.36 chr03 25388415 . G T 30744.3 PASS AB=0.573814;ABP=56.8659;AC=31;AF=0.738095;AN=42;AO=1511;CIGAR=1X;DP=2012;DPB=2012;DPRA=0;EPP=3284.11;EPPR=1090.92;GTI=0;LEN=1;MEANALT=1;MQM=59.2469;MQMR=53.5828;NS=21;NUMALT=1;ODDS=16.1562;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53756;QR=17827;RO=501;RPL=0;RPP=3284.11;RPPR=1090.92;RPR=1511;RUN=1;SAF=0;SAP=3284.11;SAR=1511;SRF=0;SRP=1090.92;SRR=501;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:5,108:5:180:108:3842:-329.263,-17.4958,0 1/1:115:1,114:1:36:114:4050:-360.764,-31.0202,0 0/1:134:43,91:43:1544:91:3215:-249.183,0,-98.5127 1/1:150:0,150:0:0:150:5316:-476.721,-45.1545,0 1/1:186:4,182:4:136:182:6444:-567.208,-43.4315,0 0/1:57:26,31:26:924:31:1101:-82.2044,0,-66.2279 0/1:126:58,68:58:2050:68:2432:-180.906,0,-146.355 0/1:146:57,89:57:2032:89:3173:-241.803,0,-138.959 0/1:94:45,49:45:1589:49:1746:-129.094,0,-114.662 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.287 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 1/1:33:0,33:0:0:33:1173:-105.853,-9.93399,0 1/1:69:1,68:1:36:68:2417:-214.162,-17.1796,0 0/1:105:45,60:45:1603:60:2136:-160.822,0,-112.549 0/1:266:123,143:123:4395:143:5106:-379.529,0,-314.02 0/1:28:15,13:15:536:13:468:-34.0299,0,-40.0927 1/1:37:0,37:0:0:37:1324:-119.455,-11.1381,0 0/1:100:43,57:43:1523:57:2044:-154.072,0,-107.075 0/1:73:23,50:23:811:50:1746:-135.436,0,-50.9193 1/1:117:5,112:5:180:112:4027:-345.767,-18.6919,0 1/1:45:0,45:0:0:45:1604:-144.604,-13.5464,0 chr03 25388438 . T G 7567.82 PASS AB=0.425458;ABP=58.3686;AC=11;AF=0.261905;AN=42;AO=503;CIGAR=1X;DP=2030;DPB=2030;DPRA=1.66616;EPP=1095.26;EPPR=3292.84;GTI=0;LEN=1;MEANALT=1;MQM=53.4851;MQMR=59.2502;NS=21;NUMALT=1;ODDS=16.4198;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17915;QR=54683;RO=1527;RPL=503;RPP=1095.26;RPPR=3292.84;RPR=0;RUN=1;SAF=0;SAP=1095.26;SAR=503;SRF=0;SRP=3318.85;SRR=1527;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:111,5:111:3969:5:180:0,-18.3989,-340.839 0/0:116:116,0:116:4164:0:0:0,-34.9195,-374.586 0/1:133:90,43:90:3232:43:1536:-98.0984,0,-251.01 0/0:154:154,0:154:5502:0:0:0,-46.3586,-493.414 0/0:186:182,4:182:6517:4:144:0,-42.7001,-573.046 0/1:57:32,25:32:1148:25:875:-61.8021,0,-86.4319 0/1:127:66,61:66:2376:61:2173:-157.183,0,-175.567 0/1:148:90,58:90:3232:58:2067:-141.502,0,-246.499 0/1:92:50,42:50:1781:42:1508:-107.972,0,-132.873 0/1:10:2,8:2:68:8:279:-22.4041,0,-3.44741 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.28 0/0:68:67,1:67:2404:1:36:0,-16.8786,-212.941 0/1:108:62,46:62:2205:46:1642:-114.779,0,-166.049 0/1:266:142,124:142:5096:124:4426:-316.81,0,-378.641 0/1:29:14,15:14:500:15:540:-40.1514,0,-36.6054 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.58 0/1:101:57,44:57:2040:44:1563:-110.358,0,-153.411 0/1:76:54,22:54:1936:22:766:-46.1049,0,-151.613 0/0:120:115,5:115:4105:5:180:0,-19.595,-352.754 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.314 chr03 25525705 . CGACA TGACG,TGACA 46233.6 PASS AB=0.517992,0.474477;ABP=6.37018,9.77185;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1706,572;CIGAR=1X3M1X,1X4M;DP=2292;DPB=2292.8;DPRA=0,1.64206;EPP=3586.94,1245.09;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.2381,2.78571;MQM=41.5985,38.8846;MQMR=0;NS=21;NUMALT=2;ODDS=13.3358;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=72,72;PQR=0;PRO=0;QA=59452,20249;QR=0;RO=0;RPL=30,1;RPP=3451.55,1236.42;RPPR=0;RPR=1676,571;RUN=1,1;SAF=16,1;SAP=3569.87,1236.42;SAR=1690,571;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:269:0,263,2:0:0:263,2:9142,72:-799.123,-79.1709,0,-793.507,-73.5496,-792.905 1/1:100:0,100,0:0:0:100,0:3480,0:-303.901,-30.103,0,-303.901,-30.103,-303.901 1/2:115:0,65,50:0:0:65,50:2281,1780:-318.694,-139.191,-119.624,-179.785,0,-164.734 1/1:123:0,122,0:0:0:122,0:4251,0:-371.783,-36.7257,0,-371.783,-36.7257,-371.783 1/1:219:0,218,1:0:0:218,1:7627,36:-667.047,-65.6245,0,-664.111,-62.3299,-663.81 1/2:110:0,54,55:0:0:54,55:1868,1918:-288.708,-142.809,-126.554,-145.979,0,-129.422 1/2:163:0,84,79:0:0:84,79:2905,2788:-435.246,-207.917,-182.63,-227.659,0,-203.878 1/2:93:0,37,56:0:0:37,56:1270,1979:-249.856,-150.896,-139.758,-99.2908,0,-82.4332 1/2:169:0,92,77:0:0:92,77:3209,2708:-467.747,-213.542,-185.848,-254.545,0,-231.366 1/2:26:0,19,7:0:0:19,7:661,248:-70.1998,-19.232,-13.5124,-51.3008,0,-49.1936 1/1:6:0,6,0:0:0:6,0:216,0:-18.4892,-1.80618,0,-18.4892,-1.80618,-18.4892 1/1:31:0,31,0:0:0:31,0:1089,0:-93.9202,-9.33193,0,-93.9202,-9.33193,-93.9202 1/1:74:0,72,2:0:0:72,2:2470,63:-214.403,-21.6742,0,-209.525,-16.49,-208.922 1/2:127:0,54,71:0:0:54,71:1887,2532:-345.701,-196.941,-180.686,-148.744,0,-127.371 1/2:197:0,99,95:0:0:99,95:3454,3387:-536.219,-263.619,-233.817,-272.627,0,-244.029 1/2:101:0,58,42:0:0:58,42:2019,1494:-278.767,-117.944,-100.484,-160.824,0,-148.181 1/1:167:0,167,0:0:0:167,0:5861,0:-517.569,-50.272,0,-517.569,-50.272,-517.569 1/2:62:0,33,27:0:0:33,27:1138,956:-161.2,-72.6402,-62.7062,-88.5416,0,-80.4138 1/2:32:0,24,8:0:0:24,8:846,288:-89.5762,-22.8095,-15.5848,-67.1114,0,-64.7032 1/1:77:0,77,0:0:0:77,0:2685,0:-230.604,-23.1793,0,-230.604,-23.1793,-230.604 1/1:31:0,31,0:0:0:31,0:1093,0:-93.9617,-9.33193,0,-93.9617,-9.33193,-93.9617 chr03 25525746 . C A 8750.89 PASS AB=0.487927;ABP=4.53087;AC=11;AF=0.261905;AN=42;AO=590;CIGAR=1X;DP=2293;DPB=2293;DPRA=1.26605;EPP=1284.18;EPPR=3657.73;GTI=0;LEN=1;MEANALT=1;MQM=38.7339;MQMR=41.5537;NS=21;NUMALT=1;ODDS=11.5842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21119;QR=60719;RO=1703;RPL=590;RPP=1284.18;RPPR=3657.73;RPR=0;RUN=1;SAF=0;SAP=1284.18;SAR=590;SRF=0;SRP=3701.03;SRR=1703;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:266:264,2:264:9447:2:72:0,-73.5104,-815.289 0/0:99:99,0:99:3526:0:0:0,-29.802,-306.531 0/1:116:66,50:66:2345:50:1800:-120.818,0,-169.722 0/0:122:122,0:122:4361:0:0:0,-36.7257,-379.836 0/0:212:212,0:212:7517:0:0:0,-63.8184,-656.963 0/1:112:52,60:52:1864:60:2156:-143.172,0,-127.676 0/1:166:84,82:84:2997:82:2929:-191.839,0,-209.523 0/1:93:36,57:36:1292:57:2044:-143.831,0,-83.537 0/1:166:90,76:90:3176:76:2732:-187.853,0,-228.276 0/1:26:19,7:19:680:7:237:-12.6688,0,-50.5346 0/0:6:6,0:6:216:0:0:0,-1.80618,-18.4892 0/0:33:33,0:33:1184:0:0:0,-9.93399,-101.831 0/0:76:74,2:74:2607:2:68:0,-16.724,-219.485 0/1:128:54,74:54:1910:74:2626:-187.325,0,-128.947 0/1:199:100,99:100:3596:99:3552:-245.103,0,-253.006 0/1:103:57,46:57:2029:46:1652:-111.677,0,-147.203 0/0:167:167,0:167:5951:0:0:0,-50.272,-524.862 0/1:60:33,27:33:1188:27:972:-64.042,0,-84.8689 0/1:32:24,8:24:864:8:279:-14.877,0,-66.03 0/0:79:79,0:79:2821:0:0:0,-23.7814,-241.565 0/0:32:32,0:32:1148:0:0:0,-9.63296,-98.214 chr03 25554786 . AG AA,GA 33492.8 PASS AB=0.582266,0.416749;ABP=62.6755,64.1132;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1305,431;CIGAR=1M1X,2X;DP=1738;DPB=1738;DPRA=0,1.78268;EPP=2707.99,921.624;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.66667,2.07692;MQM=37.1563,37.0255;MQMR=48;NS=21;NUMALT=2;ODDS=11.3305;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46720,15293;QR=25;RO=1;RPL=15,2;RPP=2707.99,921.624;RPPR=5.18177;RPR=1290,429;RUN=1,1;SAF=1305,431;SAP=2836.78,938.915;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,87,0:0:0:87,0:3120,0:-260.995,-26.1896,0,-260.995,-26.1896,-260.995 1/1:24:0,24,0:0:0:24,0:864,0:-73.2098,-7.22472,0,-73.2098,-7.22472,-73.2098 1/2:107:0,73,34:0:0:73,34:2620,1224:-288.669,-92.055,-70.0798,-196.947,0,-186.712 1/1:94:0,94,0:0:0:94,0:3376,0:-279.927,-28.2968,0,-279.927,-28.2968,-279.927 1/1:151:0,144,7:0:0:144,7:5172,252:-430.038,-43.3483,0,-411.064,-24.0402,-408.957 1/2:69:0,30,39:0:0:30,39:1071,1396:-184.554,-105.626,-96.5955,-79.2569,0,-67.5167 1/2:124:0,75,49:0:0:75,49:2678,1729:-331.314,-129.111,-106.533,-202.532,0,-187.782 1/2:103:0,62,41:0:0:62,41:2216,1442:-270.116,-106.725,-88.0613,-163.714,0,-151.372 1/2:192:0,109,83:0:0:109,83:3912,2937:-524.879,-225.527,-192.714,-299.689,0,-274.704 1/2:7:0,2,5:0:0:2,5:72,169:-18.5103,-13.0843,-12.4822,-5.75562,0,-4.25047 1/1:4:0,4,0:0:0:4,0:140,0:-11.7158,-1.20412,0,-11.7158,-1.20412,-11.7158 1/1:25:0,25,0:0:0:25,0:900,0:-75.6229,-7.52575,0,-75.6229,-7.52575,-75.6229 1/1:144:0,144,0:0:0:144,0:5129,0:-427.744,-43.3483,0,-427.744,-43.3483,-427.744 1/2:113:0,67,46:0:0:67,46:2404,1624:-301.171,-120.022,-99.8527,-181.477,0,-167.629 1/2:143:0,86,57:0:0:86,57:3088,2006:-382.932,-151.204,-125.315,-232.058,0,-214.9 1/2:17:0,6,11:0:0:6,11:216,392:-47.4512,-30.7694,-28.9632,-17.0236,0,-13.7123 1/1:23:0,23,0:0:0:23,0:828,0:-70.3283,-6.92369,0,-70.3283,-6.92369,-70.3283 1/2:62:0,28,33:0:0:28,33:1000,1186:-160.714,-85.8232,-77.3944,-74.8605,0,-64.9265 1/2:78:0,53,25:0:0:53,25:1896,900:-209.056,-67.6786,-51.7241,-141.709,0,-134.183 1/1:126:1,124,1:1:25:124,1:4402,36:-363.47,-35.4231,0,-361.06,-34.5748,-362.706 1/1:45:0,45,0:0:0:45,0:1616,0:-136.761,-13.5464,0,-136.761,-13.5464,-136.761 chr03 25554813 . GC AT,GT 31792.2 PASS AB=0.58794,0.41206;ABP=69.8458,69.8458;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1297,417;CIGAR=2X,1M1X;DP=1715;DPB=1715;DPRA=0,1.76697;EPP=2819.41,908.514;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.66667,2.07692;MQM=36.8874,36.9592;MQMR=0;NS=21;NUMALT=2;ODDS=11.3324;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45667,14789;QR=0;RO=0;RPL=1297,417;RPP=2819.41,908.514;RPPR=0;RPR=0,0;RUN=1,1;SAF=1297,417;SAP=2819.41,908.514;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,87,0:0:0:87,0:3057,0:-256.6,-26.1896,0,-256.6,-26.1896,-256.6 1/1:24:0,24,0:0:0:24,0:852,0:-72.4877,-7.22472,0,-72.4877,-7.22472,-72.4877 1/2:104:0,71,33:0:0:71,33:2518,1188:-278.169,-89.307,-67.9339,-189.194,0,-179.26 1/1:94:0,94,0:0:0:94,0:3331,0:-277.138,-28.2968,0,-277.138,-28.2968,-277.138 1/1:151:0,144,6:0:0:144,6:5091,212:-423.703,-43.3483,0,-407.678,-27.2316,-405.872 1/2:69:0,30,39:0:0:30,39:1053,1357:-181.137,-103.124,-94.093,-78.3374,0,-66.5972 1/2:118:0,73,45:0:0:73,45:2573,1587:-312.422,-118.907,-96.9318,-193.842,0,-180.296 1/2:103:0,62,41:0:0:62,41:2202,1424:-268.226,-106.068,-87.4046,-162.479,0,-150.137 1/2:190:0,107,83:0:0:107,83:3747,2975:-513.892,-226.894,-194.684,-287.332,0,-262.347 1/2:6:0,2,4:0:0:2,4:72,144:-16.5976,-11.1766,-10.5746,-5.75562,0,-4.5515 1/1:4:0,4,0:0:0:4,0:144,0:-11.7674,-1.20412,0,-11.7674,-1.20412,-11.7674 1/1:25:0,25,0:0:0:25,0:885,0:-74.6125,-7.52575,0,-74.6125,-7.52575,-74.6125 1/1:142:0,142,0:0:0:142,0:4997,0:-418.265,-42.7463,0,-418.265,-42.7463,-418.265 1/2:108:0,67,41:0:0:67,41:2334,1458:-284.285,-107.999,-87.8297,-176.612,0,-164.27 1/2:139:0,84,55:0:0:84,55:2967,1952:-369.304,-146.894,-121.607,-222.74,0,-206.183 1/2:16:0,6,10:0:0:6,10:216,360:-44.8257,-28.1445,-26.3383,-17.0236,0,-14.0133 1/1:23:0,23,0:0:0:23,0:813,0:-69.1733,-6.92369,0,-69.1733,-6.92369,-69.1733 1/2:63:0,28,35:0:0:28,35:969,1236:-163.207,-90.095,-81.6662,-73.4337,0,-62.8976 1/2:79:0,55,24:0:0:55,24:1896,860:-206.693,-64.5047,-47.9481,-142.515,0,-135.291 1/1:126:0,125,1:0:0:125,1:4384,36:-364.998,-37.6288,0,-362.287,-34.5836,-361.986 1/1:44:0,44,0:0:0:44,0:1566,0:-132.95,-13.2453,0,-132.95,-13.2453,-132.95 chr03 25566211 . ATTTTTCTG ATTTTCTG 18281.6 PASS AB=0.588595;ABP=36.4846;AC=31;AF=0.738095;AN=42;AO=944;CIGAR=1M1D7M;DP=1148;DPB=1042.78;DPRA=0;EPP=2052.88;EPPR=428.619;GTI=0;LEN=1;MEANALT=1.33333;MQM=38.5964;MQMR=46.3214;NS=21;NUMALT=1;ODDS=1.34719;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33320;QR=6916;RO=196;RPL=0;RPP=2052.88;RPPR=428.619;RPR=944;RUN=1;SAF=944;SAP=2052.88;SAR=0;SRF=196;SRP=428.619;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,124:0:0:124:4364:-373.648,-37.3277,0 1/1:57:0,57:0:0:57:2000:-172.964,-17.1587,0 0/1:56:23,33:23:806:33:1157:-82.1178,0,-54.7542 1/1:68:0,68:0:0:68:2411:-207.045,-20.47,0 1/1:135:0,135:0:0:135:4806:-412.037,-40.6391,0 0/1:56:17,38:17:607:38:1339:-98.7098,0,-37.5101 0/1:38:25,13:25:881:13:455:-27.8339,0,-67.0566 0/1:37:17,20:17:594:20:716:-50.5832,0,-42.33 0/1:97:28,66:28:996:66:2326:-169.252,0,-60.2449 0/1:11:4,7:4:141:7:252:-18.5997,0,-9.64177 1/1:4:0,4:0:0:4:144:-12.7816,-1.20412,0 1/1:13:0,13:0:0:13:460:-39.8492,-3.91339,0 1/1:93:0,93:0:0:93:3271:-280.229,-27.9958,0 0/1:58:29,28:29:1020:28:987:-67.1322,0,-73.7504 0/1:67:30,37:30:1063:37:1294:-90.8688,0,-74.5035 0/1:42:12,29:12:417:29:1028:-75.1052,0,-24.933 1/1:90:0,89:0:0:89:3135:-266.077,-26.7917,0 0/1:14:6,8:6:213:8:284:-20.53,0,-15.1764 0/1:15:5,10:5:178:10:347:-25.6814,0,-11.7201 1/1:53:0,53:0:0:53:1868:-160.615,-15.9546,0 1/1:19:0,19:0:0:19:676:-58.8409,-5.71957,0 chr03 25566247 . T A 2762.9 PASS AB=0.400402;ABP=45.8324;AC=11;AF=0.261905;AN=42;AO=199;CIGAR=1X;DP=1161;DPB=1161;DPRA=0.680449;EPP=435.133;EPPR=2091.97;GTI=0;LEN=1;MEANALT=1;MQM=45.9246;MQMR=38.5353;NS=21;NUMALT=1;ODDS=1.6779;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7137;QR=34384;RO=962;RPL=199;RPP=435.133;RPPR=2091.97;RPR=0;RUN=1;SAF=199;SAP=435.133;SAR=0;SRF=962;SRP=2091.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:125:125,0:125:4466:0:0:0,-37.6287,-378.423 0/0:58:58,0:58:2084:0:0:0,-17.4597,-178.436 0/1:56:33,23:33:1184:23:828:-56.6296,0,-82.7929 0/0:69:69,0:69:2471:0:0:0,-20.7711,-210.979 0/0:137:137,0:137:4894:0:0:0,-41.2411,-418.432 0/1:58:41,17:41:1476:17:608:-36.405,0,-108.666 0/1:38:13,25:13:468:25:900:-68.6195,0,-28.2937 0/1:37:21,16:21:747:16:568:-39.9803,0,-53.2596 0/1:101:70,31:70:2504:31:1116:-68.0637,0,-181.135 0/1:11:7,4:7:252:4:144:-9.90425,0,-18.5997 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.7816 0/0:13:13,0:13:468:0:0:0,-3.91339,-40.3985 0/0:93:93,0:93:3328:0:0:0,-27.9958,-283.795 0/1:59:30,29:30:1067:29:1044:-75.4039,0,-70.8972 0/1:67:37,30:37:1312:30:1065:-74.4642,0,-91.7263 0/1:43:30,13:30:1080:13:468:-28.8109,0,-78.9247 0/0:93:93,0:93:3319:0:0:0,-27.9958,-279.955 0/1:13:7,6:7:248:6:216:-15.7405,0,-17.7348 0/1:14:9,5:9:305:5:180:-12.1929,0,-22.3713 0/0:53:53,0:53:1900:0:0:0,-15.9546,-162.963 0/0:19:19,0:19:667:0:0:0,-5.71957,-58.1387 chr03 25624215 . T C 10185.3 PASS AB=0.434255;ABP=58.6881;AC=11;AF=0.261905;AN=42;AO=651;CIGAR=1X;DP=2659;DPB=2659;DPRA=1.96356;EPP=1416.64;EPPR=4363.33;GTI=0;LEN=1;MEANALT=1;MQM=59.6037;MQMR=59.9402;NS=21;NUMALT=1;ODDS=16.5385;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23218;QR=71995;RO=2008;RPL=651;RPP=1416.64;RPPR=4363.33;RPR=0;RUN=1;SAF=0;SAP=1416.64;SAR=651;SRF=0;SRP=4363.33;SRR=2008;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:145,1:145:5208:1:36:0,-40.3521,-465.257 0/0:121:121,0:121:4318:0:0:0,-36.4246,-388.472 0/1:140:85,55:85:3044:55:1972:-135.604,0,-232.046 0/0:148:148,0:148:5308:0:0:0,-44.5524,-477.853 0/0:246:245,1:245:8777:1:36:0,-70.4551,-786.297 0/1:92:52,40:52:1872:40:1410:-99.4861,0,-141.064 0/1:168:84,84:84:3016:84:3012:-220.734,0,-221.097 0/1:225:134,91:134:4793:91:3229:-221.631,0,-363.747 0/1:188:107,81:107:3825:81:2892:-203.906,0,-287.851 0/1:26:15,11:15:540:11:396:-27.6617,0,-41.1098 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:55:55,0:55:1980:0:0:0,-16.5566,-178.474 0/0:184:181,3:181:6485:3:108:0,-45.3143,-573.653 0/1:152:97,55:97:3473:55:1956:-130.52,0,-267.023 0/1:252:131,121:131:4708:121:4336:-314.553,0,-348.018 0/1:65:32,33:32:1144:33:1174:-85.0332,0,-83.7026 0/0:71:71,0:71:2556:0:0:0,-21.3731,-230.29 0/1:112:56,56:56:2008:56:1977:-144.481,0,-147.26 0/1:63:46,17:46:1656:17:612:-36.4485,0,-130.364 0/0:150:148,2:148:5308:2:72:0,-38.3178,-470.995 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 chr03 25682709 . T C 38090.5 PASS AB=0.502467;ABP=3.07459;AC=30;AF=0.714286;AN=42;AO=1464;CIGAR=1X;DP=2085;DPB=2085;DPRA=26.0125;EPP=3164.7;EPPR=1351.49;GTI=0;LEN=1;MEANALT=1;MQM=59.9351;MQMR=59.9855;NS=21;NUMALT=1;ODDS=1.00428;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51871;QR=22231;RO=621;RPL=697;RPP=10.2782;RPPR=3.79707;RPR=767;RUN=1;SAF=699;SAP=9.47132;SAR=765;SRF=303;SRP=3.79707;SRR=318;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:6,94:6:212:94:3291:-276.985,-10.6782,0 1/1:94:0,94:0:0:94:3343:-301.085,-28.2968,0 0/1:50:25,25:25:896:25:892:-65.5478,0,-65.9089 1/1:68:2,66:2:72:66:2360:-205.822,-13.6333,0 1/1:182:0,182:0:0:182:6456:-581.019,-54.7875,0 0/1:114:65,49:65:2331:49:1752:-123.647,0,-175.731 0/1:121:68,53:68:2420:53:1896:-134.493,0,-181.629 0/1:110:50,60:50:1796:60:2125:-158.4,0,-128.809 0/1:188:104,84:104:3728:84:2979:-211.747,0,-279.127 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 1/1:5:0,5:0:0:5:165:-15.1736,-1.50515,0 1/1:43:0,43:0:0:43:1531:-138.082,-12.9443,0 1/1:106:1,105:1:36:105:3742:-333.382,-28.3109,0 0/1:89:48,41:48:1724:41:1467:-105.534,0,-128.654 0/1:253:132,121:132:4736:121:4262:-307.601,0,-350.226 0/1:61:34,27:34:1200:27:964:-68.714,0,-89.9428 1/1:39:1,38:1:36:38:1355:-118.594,-8.1419,0 0/1:114:56,58:56:2012:58:2020:-147.752,0,-147.036 0/1:116:23,93:23:816:93:3328:-264.818,0,-38.8422 1/1:100:2,98:2:72:98:3451:-303.961,-23.2663,0 1/1:128:0,128:0:0:128:4492:-404.454,-38.5318,0 chr03 25690420 . C G 44051 PASS AB=0.500286;ABP=3.01154;AC=31;AF=0.738095;AN=42;AO=2149;CIGAR=1X;DP=3034;DPB=3034;DPRA=0;EPP=4669.5;EPPR=1916.08;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.8353;MQMR=60;NS=21;NUMALT=1;ODDS=4.09584;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76807;QR=31442;RO=881;RPL=0;RPP=4669.5;RPPR=1916.08;RPR=2149;RUN=1;SAF=2149;SAP=4669.5;SAR=0;SRF=881;SRP=1916.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:153:0,153:0:0:153:5451:-490.714,-46.0576,0 1/1:146:0,146:0:0:146:5216:-469.514,-43.9504,0 0/1:149:83,66:83:2976:66:2353:-167.17,0,-223.219 1/1:135:0,134:0:0:134:4762:-428.39,-40.338,0 1/1:253:6,247:6:212:247:8848:-776.852,-56.7358,0 0/1:114:57,57:57:2032:57:2040:-149.555,0,-148.835 0/1:271:131,140:131:4664:140:4982:-366.927,0,-338.345 0/1:92:47,45:47:1672:45:1620:-118.395,0,-123.073 0/1:285:145,138:145:5196:138:4936:-358.814,0,-382.227 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:56:0,56:0:0:56:2012:-181.308,-16.8577,0 1/1:242:1,241:1:36:241:8623:-772.297,-69.251,0 0/1:180:79,101:79:2808:101:3598:-269.421,0,-198.776 0/1:213:106,107:106:3776:107:3820:-279.867,0,-275.921 0/1:134:75,59:75:2684:59:2117:-150.443,0,-201.467 1/1:104:0,104:0:0:104:3713:-334.089,-31.3071,0 0/1:231:124,107:124:4414:107:3840:-276.257,0,-327.896 0/1:66:20,46:20:720:46:1648:-128.741,0,-45.2608 1/1:130:1,128:1:36:128:4572:-408.028,-35.5944,0 1/1:56:1,55:1:36:55:1972:-174.152,-13.2594,0 chr03 25690426 . C T 43965.7 PASS AB=0.498278;ABP=3.05518;AC=31;AF=0.738095;AN=42;AO=2143;CIGAR=1X;DP=3025;DPB=3025;DPRA=0;EPP=4656.48;EPPR=1918.25;GTI=0;LEN=1;MEANALT=1;MQM=59.8567;MQMR=59.966;NS=21;NUMALT=1;ODDS=3.72508;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76603;QR=31500;RO=882;RPL=0;RPP=4656.48;RPPR=1918.25;RPR=2143;RUN=1;SAF=2143;SAP=4656.48;SAR=0;SRF=882;SRP=1918.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:148:0,148:0:0:148:5257:-473.247,-44.5524,0 1/1:142:0,142:0:0:142:5083:-457.607,-42.7463,0 0/1:148:83,65:83:2980:65:2328:-165.224,0,-223.879 1/1:136:0,136:0:0:136:4845:-436.201,-40.9401,0 1/1:258:5,253:5:176:253:9055:-798.233,-61.4807,0 0/1:111:55,56:55:1963:56:2016:-148.299,0,-143.53 0/1:275:130,145:130:4637:145:5180:-383.532,0,-334.083 0/1:92:48,44:48:1708:44:1572:-114.077,0,-126.311 0/1:285:148,137:148:5308:137:4908:-356.069,0,-392.06 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:57:0,57:0:0:57:2040:-183.827,-17.1587,0 1/1:241:1,240:1:36:240:8579:-768.34,-68.95,0 0/1:174:77,97:77:2751:97:3456:-258.678,0,-195.452 0/1:213:107,106:107:3824:106:3785:-276.7,0,-280.238 0/1:132:75,57:75:2692:57:2014:-141.796,0,-202.788 1/1:102:0,102:0:0:102:3630:-326.892,-30.7051,0 0/1:231:125,106:125:4442:106:3808:-273.378,0,-330.415 0/1:67:21,46:21:731:46:1648:-128.44,0,-45.9414 1/1:131:1,130:1:36:130:4676:-417.352,-35.8367,0 1/1:58:1,57:1:36:57:2039:-180.179,-13.8615,0 chr03 25695562 . G A 17681.7 PASS AB=0.518742;ABP=7.56836;AC=31;AF=0.738095;AN=42;AO=1905;CIGAR=1X;DP=2647;DPB=2647;DPRA=0;EPP=4139.67;EPPR=1612.07;GTI=0;LEN=1;MEANALT=1.04762;MQM=23.6415;MQMR=29.9163;NS=21;NUMALT=1;ODDS=14.3469;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67881;QR=26511;RO=741;RPL=0;RPP=4139.67;RPPR=1612.07;RPR=1905;RUN=1;SAF=1905;SAP=4139.67;SAR=0;SRF=741;SRP=1612.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:157:5,152:5:176:152:5425:-300.197,-34.0148,0 1/1:147:0,147:0:0:147:5241:-331.319,-44.2514,0 0/1:160:68,91:68:2425:91:3239:-138.189,0,-129.272 1/1:140:0,140:0:0:140:5001:-286.874,-42.1442,0 1/1:217:10,207:10:360:207:7397:-396.792,-39.5415,0 0/1:148:70,78:70:2512:78:2784:-135.016,0,-139.208 0/1:213:118,95:118:4228:95:3388:-154.065,0,-241.623 0/1:135:65,70:65:2332:70:2508:-104.091,0,-125.853 0/1:171:82,89:82:2944:89:3169:-131.302,0,-161.052 0/1:64:16,48:16:576:48:1724:-80.2016,0,-22.6732 1/1:17:0,17:0:0:17:593:-38.8306,-5.11751,0 1/1:97:0,97:0:0:97:3446:-196.856,-29.1999,0 1/1:112:0,112:0:0:112:3968:-230.957,-33.7154,0 0/1:151:78,73:78:2800:73:2581:-106.164,0,-156.953 0/1:228:129,99:129:4596:99:3525:-134.016,0,-262.567 0/1:83:38,45:38:1330:45:1601:-65.3144,0,-73.0514 1/1:82:2,80:2:72:80:2827:-155.312,-18.5675,0 0/1:91:41,50:41:1476:50:1796:-76.2415,0,-78.7561 0/1:50:13,37:13:468:37:1323:-60.6405,0,-19.5128 1/1:120:4,116:4:144:116:4138:-227.841,-25.3834,0 1/1:64:2,62:2:72:62:2207:-136.832,-13.7507,0 chr03 25779990 . CAG CAA,AAA 41416 PASS AB=0.481621,0.515551;ABP=6.12322,5.23908;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1387,555;CIGAR=2M1X,1X1M1X;DP=1949;DPB=1949.67;DPRA=0,2.09486;EPP=2954.35,1208.18;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.95238,2.125;MQM=59.4412,57.3982;MQMR=60;NS=21;NUMALT=2;ODDS=4.6161;PAIRED=0,0;PAIREDR=0;PAO=0.666667,0.666667;PQA=9,9;PQR=0;PRO=0;QA=49354,19575;QR=28;RO=1;RPL=10,1;RPP=2928.61,1199.51;RPPR=5.18177;RPR=1377,554;RUN=1,1;SAF=3,1;SAP=2988.84,1199.51;SAR=1384,554;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,101,2:0:0:101,2:3594,69:-323.264,-30.404,0,-317.659,-24.4542,-317.057 1/1:88:1,86,0:1:28:86,0:3047,0:-271.52,-23.6938,0,-271.821,-25.8886,-274.039 1/2:102:0,46,56:0:0:46,56:1656,1972:-295.372,-160.702,-146.855,-135.025,0,-118.168 1/1:72:0,70,1:0:0:70,1:2504,36:-225.177,-21.0721,0,-222.24,-18.0549,-221.939 1/1:248:0,246,2:0:0:246,2:8744,72:-786.265,-74.0534,0,-780.391,-67.8196,-779.789 1/2:95:0,54,41:0:0:54,41:1920,1454:-275.021,-118.686,-102.431,-156.689,0,-144.347 1/2:139:0,61,78:0:0:61,78:2170,2778:-403.046,-226.235,-207.872,-177.166,0,-153.686 1/2:94:0,62,32:0:0:62,32:2181,1099:-267.011,-89.4681,-70.8043,-177.889,0,-168.256 1/2:131:0,65,66:0:0:65,66:2310,2337:-378.503,-190.637,-171.07,-188.22,0,-168.352 1/2:25:0,7,15:0:0:7,15:252,514:-62.2645,-41.6982,-39.591,-20.5667,0,-16.0512 1/1:6:0,6,0:0:0:6,0:203,0:-18.3269,-1.80618,0,-18.3269,-1.80618,-18.3269 1/1:36:0,36,0:0:0:36,0:1287,0:-116.133,-10.8371,0,-116.133,-10.8371,-116.133 1/1:114:0,112,2:0:0:112,2:3973,69:-357.331,-33.7154,0,-351.726,-27.7919,-351.124 1/2:119:0,63,56:0:0:63,56:2250,1979:-344.57,-161.411,-142.446,-183.514,0,-166.656 1/2:171:0,64,107:0:0:64,107:2300,3775:-495.166,-307.532,-288.266,-187.99,0,-155.78 1/2:88:0,45,43:0:0:45,43:1599,1523:-254.619,-124.342,-110.796,-130.631,0,-117.686 1/1:88:0,87,0:0:0:87,0:3108,0:-279.653,-26.1896,0,-279.653,-26.1896,-279.653 1/2:48:0,23,25:0:0:23,25:797,870:-135.818,-71.0431,-64.1194,-65.1222,0,-57.5965 1/2:49:0,21,28:0:0:21,28:752,992:-142.438,-81.1099,-74.7882,-61.6846,0,-53.2558 1/1:98:0,97,1:0:0:97,1:3460,36:-311.191,-29.1999,0,-308.254,-25.9027,-307.953 1/1:35:0,35,0:0:0:35,0:1247,0:-112.533,-10.5361,0,-112.533,-10.5361,-112.533 chr03 25780032 . ATGTTA GTGGTT,ATGGTT 34244.2 PASS AB=0.426349,0.567427;ABP=48.431,41.0786;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1116,554;CIGAR=1X2M1X1M1X,3M1X1M1X;DP=1678;DPB=1678;DPRA=0,2.0231;EPP=2426.37,1206.01;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.09524,2.4;MQM=59.2428,57.3303;MQMR=0;NS=21;NUMALT=2;ODDS=4.96309;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39065,19433;QR=0;RO=0;RPL=1116,554;RPP=2426.37,1206.01;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2426.37,1206.01;SAR=1116,554;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,86,2:0:0:86,2:3019,72:-271.531,-25.8886,0,-265.656,-19.6548,-265.054 1/1:74:0,72,0:0:0:72,0:2526,0:-227.217,-21.6742,0,-227.217,-21.6742,-227.217 1/2:95:0,39,56:0:0:39,56:1371,1996:-274.218,-162.831,-151.091,-111.739,0,-94.8816 1/1:48:0,47,1:0:0:47,1:1629,36:-146.173,-14.1484,0,-143.236,-10.8516,-142.935 1/1:215:0,213,2:0:0:213,2:7451,70:-670.124,-64.1194,0,-664.429,-58.0748,-663.827 1/2:94:0,52,41:0:0:52,41:1807,1445:-264.364,-117.558,-101.904,-146.835,0,-134.493 1/2:133:0,55,78:0:0:55,78:1902,2758:-379.02,-224.545,-207.988,-154.823,0,-131.343 1/2:73:0,41,31:0:0:41,31:1442,1072:-204.398,-87.0128,-74.6706,-117.403,0,-108.071 1/2:115:0,53,62:0:0:53,62:1858,2179:-328.538,-177.649,-161.694,-151.24,0,-132.576 1/2:25:0,7,17:0:0:7,17:252,568:-66.5102,-45.9414,-43.8342,-20.5621,0,-15.4446 1/1:5:0,5,0:0:0:5,0:165,0:-14.9426,-1.50515,0,-14.9426,-1.50515,-14.9426 1/1:27:0,27,0:0:0:27,0:931,0:-84.0795,-8.12781,0,-84.0795,-8.12781,-84.0795 1/1:86:0,84,2:0:0:84,2:2968,69:-266.814,-25.2865,0,-261.209,-19.3367,-260.607 1/2:111:0,54,57:0:0:54,57:1862,1964:-310.045,-159.735,-143.479,-150.654,0,-133.495 1/2:154:0,44,109:0:0:44,109:1562,3841:-439.764,-312.499,-299.254,-127.259,0,-94.4467 1/2:82:0,38,42:0:0:38,42:1327,1487:-228.542,-121.05,-109.611,-107.484,0,-94.8405 1/1:80:0,80,0:0:0:80,0:2815,0:-253.54,-24.0824,0,-253.54,-24.0824,-253.54 1/2:41:0,14,27:0:0:14,27:496,943:-117.212,-76.8036,-72.5892,-40.7602,0,-32.6323 1/2:41:0,14,27:0:0:14,27:496,933:-116.532,-76.123,-71.9085,-40.7601,0,-32.6323 1/1:66:0,66,0:0:0:66,0:2309,0:-208.055,-19.868,0,-208.055,-19.868,-208.055 1/1:25:0,25,0:0:0:25,0:877,0:-79.247,-7.52575,0,-79.247,-7.52575,-79.247 chr03 25816610 . CA TC,CC 99359.5 PASS AB=0.459711,0.535165;ABP=33.2804,26.0712;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2620,1172;CIGAR=2X,1M1X;DP=3808;DPB=3814.5;DPRA=0,2.08669;EPP=5692.27,2547.98;EPPR=7.35324;GTI=1;LEN=2,1;MEANALT=2.33333,2.5625;MQM=59.9866,59.9761;MQMR=60;NS=21;NUMALT=2;ODDS=5.9486;PAIRED=0,0;PAIREDR=0;PAO=13,0;PQA=460,0;PQR=0;PRO=0;QA=90857,40845;QR=72;RO=2;RPL=1114,632;RPP=130.368,18.6923;RPPR=7.35324;RPR=1506,540;RUN=1,1;SAF=1114,632;SAP=130.368,18.6923;SAR=1506,540;SRF=2;SRP=7.35324;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:268:0,261,6:0:0:261,6:9040,212:-813.247,-78.5688,0,-795.982,-61.3084,-794.176 1/1:51:0,50,0:0:0:50,0:1726,0:-155.27,-15.0515,0,-155.27,-15.0515,-155.27 1/2:225:0,131,94:0:0:131,94:4503,3276:-632.42,-266.768,-227.333,-365.999,0,-337.702 1/1:315:0,314,0:0:0:314,0:10934,0:-983.74,-94.5234,0,-983.74,-94.5234,-983.74 1/1:391:1,379,11:1:36:379,11:13119,374:-1176.98,-111.151,0,-1146.94,-83.7551,-1146.57 1/2:146:0,44,101:0:0:44,101:1516,3500:-407.588,-284.449,-271.204,-123.124,0,-92.7204 1/2:231:0,85,146:0:0:85,146:2937,5105:-653.92,-415.291,-389.703,-238.617,0,-194.666 1/2:166:0,55,110:0:0:55,110:1881,3832:-464.269,-311.609,-295.052,-152.645,0,-119.532 1/2:401:0,169,228:0:0:169,228:5911,7866:-1119.91,-639.016,-588.142,-480.924,0,-412.289 1/2:15:0,3,12:0:0:3,12:104,420:-42.9744,-34.5217,-33.6186,-8.79993,0,-5.18757 1/1:8:0,8,0:0:0:8,0:275,0:-25.0832,-2.40824,0,-25.0832,-2.40824,-25.0832 1/1:43:0,42,0:0:0:42,0:1448,0:-130.25,-12.6433,0,-130.25,-12.6433,-130.25 1/1:327:0,325,2:0:0:325,2:11354,63:-1021.44,-97.8348,0,-1016.37,-92.781,-1015.77 1/2:205:0,111,94:0:0:111,94:3836,3271:-577.635,-265.955,-232.541,-311.667,0,-283.37 1/2:286:0,148,137:0:0:148,137:5150,4782:-807.803,-389.056,-344.503,-418.845,0,-377.604 1/2:97:0,44,52:0:0:44,52:1528,1848:-274.798,-150.587,-137.341,-124.202,0,-108.549 1/1:79:0,79,0:0:0:79,0:2758,0:-248.463,-23.7814,0,-248.463,-23.7814,-248.463 1/2:175:1,67,106:1:36:67,106:2309,3725:-487.496,-300.245,-283.013,-184.602,0,-155.63 1/2:200:0,130,69:0:0:130,69:4491,2427:-562.436,-197.555,-158.421,-364.871,0,-344.1 1/1:120:0,117,3:0:0:117,3:4018,108:-361.455,-35.2205,0,-352.642,-26.4083,-351.739 1/1:59:0,58,1:0:0:58,1:2019,36:-181.62,-17.4597,0,-178.682,-14.1625,-178.381 chr03 25816650 . G C 9015.88 PASS AB=0.480531;ABP=6.73063;AC=11;AF=0.261905;AN=42;AO=553;CIGAR=1X;DP=2098;DPB=2098;DPRA=1.38211;EPP=1203.83;EPPR=3331.9;GTI=0;LEN=1;MEANALT=1.25;MQM=59.9584;MQMR=59.9747;NS=21;NUMALT=1;ODDS=11.4001;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19783;QR=55118;RO=1541;RPL=553;RPP=1203.83;RPPR=3331.9;RPR=0;RUN=1;SAF=0;SAP=1203.83;SAR=553;SRF=0;SRP=3349.25;SRR=1541;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:139:139,0:139:4983:0:0:0,-41.8432,-448.617 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.638 0/1:66:37,29:37:1328:29:1044:-74.4068,0,-99.907 0/0:145:145,0:145:5187:0:0:0,-43.6493,-466.967 0/0:230:220,10:220:7853:10:360:0,-36.4926,-674.054 0/1:104:43,61:43:1536:61:2184:-165.519,0,-107.226 0/1:160:86,74:86:3071:74:2652:-190.761,0,-228.454 0/1:109:55,53:55:1980:53:1889:-137.415,0,-145.603 0/1:157:67,90:67:2404:90:3209:-241.701,0,-169.337 0/1:10:3,7:3:108:7:248:-19.6539,0,-7.06487 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.135 0/0:130:130,0:130:4647:0:0:0,-39.1339,-418.392 0/1:42:23,19:23:816:19:676:-48.5247,0,-61.1185 0/1:166:92,74:92:3283:74:2633:-187.245,0,-245.719 0/1:51:25,26:25:892:26:936:-69.2069,0,-65.2472 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/1:140:69,70:69:2467:70:2516:-184.484,0,-180.08 0/1:125:84,40:84:2994:40:1436:-91.8501,0,-232.004 0/0:124:124,0:124:4439:0:0:0,-37.3277,-399.68 0/0:62:61,0:61:2174:0:0:0,-18.3628,-195.565 chr03 25819966 . C T 1197.48 PASS AB=0.380567;ABP=33.6131;AC=10;AF=0.238095;AN=42;AO=97;CIGAR=1X;DP=598;DPB=598;DPRA=0.770339;EPP=213.643;EPPR=1086.58;GTI=2;LEN=1;MEANALT=1.16667;MQM=46.2474;MQMR=57.3948;NS=21;NUMALT=1;ODDS=4.91947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3471;QR=17155;RO=499;RPL=97;RPP=213.643;RPPR=1086.58;RPR=0;RUN=1;SAF=97;SAP=213.643;SAR=0;SRF=499;SRP=1086.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:25,0:25:863:0:0:0,-7.52575,-77.7929 0/0:15:15,0:15:528:0:0:0,-4.51545,-47.8514 0/1:20:8,12:8:284:12:432:-30.4524,0,-19.4391 0/0:20:20,0:20:686:0:0:0,-6.0206,-61.8191 0/1:27:23,4:23:820:4:144:-4.25293,0,-65.7728 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 0/1:27:8,19:8:271:19:684:-53.7625,0,-16.5916 0/0:25:23,2:23:774:2:72:0,-0.689027,-63.1261 0/1:13:6,7:6:212:7:248:-17.2593,0,-15.4861 0/0:31:29,1:29:1003:1:36:0,-5.71754,-87.0516 0/0:83:83,0:83:2838:0:0:0,-24.9855,-255.613 0/0:99:99,0:99:3425:0:0:0,-29.802,-308.454 0/0:15:15,0:15:519:0:0:0,-4.51545,-46.5432 0/1:17:6,11:6:185:11:396:-28.344,0,-11.8081 0/1:23:12,11:12:416:11:396:-26.767,0,-30.6416 0/1:16:7,9:7:237:9:311:-21.7537,0,-16.8191 0/0:15:15,0:15:517:0:0:0,-4.51545,-46.4292 0/1:83:73,9:73:2480:9:324:-4.46157,0,-198.386 0/1:10:5,5:5:176:5:176:-12.1378,0,-13.127 0/0:16:16,0:16:546:0:0:0,-4.81648,-49.4618 0/0:7:7,0:7:231:0:0:0,-2.10721,-21.1132 chr03 25823865 . TACC GACT 5689.77 PASS AB=0.515419;ABP=4.4165;AC=11;AF=0.261905;AN=42;AO=355;CIGAR=1X2M1X;DP=1055;DPB=1055;DPRA=1.71639;EPP=739.531;EPPR=1467.03;GTI=1;LEN=4;MEANALT=1.14286;MQM=54.369;MQMR=59.9699;NS=21;NUMALT=1;ODDS=2.30815;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12323;QR=24314;RO=698;RPL=351;RPP=739.531;RPPR=1467.03;RPR=4;RUN=1;SAF=355;SAP=773.883;SAR=0;SRF=698;SRP=1518.7;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1310:1:34:0,-8.3429,-114.799 0/0:42:42,0:42:1484:0:0:0,-12.6433,-133.854 0/1:80:33,47:33:1161:47:1640:-123.554,0,-80.714 0/0:53:53,0:53:1867:0:0:0,-15.9546,-168.307 0/0:53:51,2:51:1787:2:72:0,-9.12033,-154.276 0/1:50:23,27:23:799:27:940:-68.9492,0,-57.1759 0/1:97:47,50:47:1618:50:1771:-130.065,0,-116.705 0/1:63:37,26:37:1282:26:897:-61.8484,0,-96.7106 0/1:111:57,54:57:1973:54:1843:-132.592,0,-144.43 0/1:8:1,6:1:36:6:215:-17.268,0,-1.16781 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9449 0/0:13:13,0:13:455:0:0:0,-3.91339,-41.2823 0/0:44:43,1:43:1479:1:30:0,-10.2462,-130.402 0/1:66:26,40:26:887:40:1326:-99.6963,0,-60.2715 0/1:114:55,59:55:1922:59:2086:-152.667,0,-138.938 0/1:12:5,7:5:179:7:249:-19.108,0,-12.848 0/0:38:38,0:38:1335:0:0:0,-11.4391,-120.449 0/1:40:20,19:20:703:19:658:-47.3268,0,-51.4931 0/1:40:24,16:24:827:16:562:-38.8319,0,-62.7036 0/0:47:47,0:47:1639:0:0:0,-14.1484,-147.794 0/0:41:41,0:41:1431:0:0:0,-12.3422,-129.082 chr03 25826139 . AAA GAA,GAG 113466 PASS AB=0.512331,0.482498;ABP=6.33056,9.6992;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3075,1226;CIGAR=1X2M,1X1M1X;DP=4323;DPB=4324.67;DPRA=0,3.30932;EPP=6680.29,2665.24;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2.52381,2.9375;MQM=59.8946,59.9144;MQMR=60;NS=21;NUMALT=2;ODDS=9.64037;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=52,52;PQR=0;PRO=2;QA=108238,42733;QR=28;RO=1;RPL=1833,838;RPP=249.662,361.675;RPPR=5.18177;RPR=1242,388;RUN=1,1;SAF=1833,838;SAP=249.662,361.675;SAR=1242,388;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:298:0,295,1:0:0:295,1:10340,28:-930.212,-88.8039,0,-927.994,-86.575,-927.693 1/1:65:0,65,0:0:0:65,0:2340,0:-210.787,-19.567,0,-210.787,-19.567,-210.787 1/2:219:0,99,120:0:0:99,120:3536,4152:-626.007,-337.731,-307.929,-288.628,0,-252.504 1/1:280:0,277,1:0:0:277,1:9767,36:-878.682,-83.3853,0,-875.744,-80.4196,-875.443 1/1:466:0,458,8:0:0:458,8:16127,286:-1450.56,-137.872,0,-1427.24,-114.194,-1424.83 1/2:104:0,54,48:0:0:54,48:1895,1690:-291.766,-137.549,-121.293,-154.181,0,-139.731 1/2:299:0,203,93:0:0:203,93:7100,3235:-840.685,-263.091,-201.982,-577.655,0,-549.659 1/2:221:0,105,115:0:0:105,115:3708,3987:-626.005,-324.043,-292.435,-301.952,0,-267.333 1/2:526:0,230,295:0:0:230,295:8111,10300:-1498.16,-837.746,-768.509,-660.403,0,-571.6 1/2:34:0,25,8:0:0:25,8:896,282:-96.1656,-23.0787,-15.553,-73.2047,0,-70.7964 1/1:17:0,17,0:0:0:17,0:593,0:-53.6938,-5.11751,0,-53.6938,-5.11751,-53.6938 1/1:64:0,64,0:0:0:64,0:2261,0:-203.75,-19.2659,0,-203.75,-19.2659,-203.75 1/1:170:0,167,1:0:0:167,1:5786,28:-520.569,-50.272,0,-518.35,-48.0583,-518.049 1/2:270:0,110,158:0:0:110,158:3880,5516:-764.661,-448.73,-415.616,-315.996,0,-268.433 1/2:355:0,191,164:0:0:191,164:6758,5737:-1017.53,-467.076,-409.579,-550.803,0,-501.434 1/2:145:0,63,81:0:0:63,81:2202,2814:-407.897,-228.768,-209.803,-179.138,0,-154.754 1/1:125:1,123,0:1:28:123,0:4391,0:-392.643,-34.7663,0,-392.944,-37.0267,-395.162 1/2:161:0,88,71:0:0:88,71:3068,2467:-450.11,-200.598,-174.107,-249.544,0,-228.17 1/2:180:0,120,60:0:0:120,60:4223,2103:-515.243,-171.468,-135.344,-344.126,0,-326.065 1/1:222:0,219,2:0:0:219,2:7729,72:-695.228,-65.9256,0,-689.353,-60.0507,-688.751 1/1:102:0,102,0:0:0:102,0:3527,0:-317.643,-30.7051,0,-317.643,-30.7051,-317.643 chr03 25826989 . C T 4626.9 PASS AB=0.534113;ABP=8.19559;AC=11;AF=0.261905;AN=42;AO=276;CIGAR=1X;DP=827;DPB=827;DPRA=1.80247;EPP=602.337;EPPR=1199.49;GTI=1;LEN=1;MEANALT=1;MQM=59.9674;MQMR=59.9819;NS=21;NUMALT=1;ODDS=0.428377;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9890;QR=19646;RO=551;RPL=0;RPP=602.337;RPPR=1199.49;RPR=276;RUN=1;SAF=276;SAP=602.337;SAR=0;SRF=551;SRP=1199.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:68:68,0:68:2424:0:0:0,-20.47,-218.416 0/0:36:36,0:36:1284:0:0:0,-10.8371,-115.863 0/1:39:18,21:18:644:21:756:-56.6271,0,-46.5504 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:71:69,2:69:2460:2:72:0,-14.5364,-214.817 0/1:32:20,12:20:704:12:420:-28.5005,0,-54.0516 0/1:47:21,26:21:752:26:923:-69.2277,0,-53.8497 0/1:43:19,24:19:676:24:864:-65.1383,0,-48.2237 0/1:61:30,31:30:1064:31:1112:-82.0285,0,-77.7088 0/1:9:3,6:3:104:6:216:-17.0812,0,-6.99354 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/1:61:22,39:22:788:39:1391:-107.125,0,-52.882 0/1:101:45,56:45:1604:56:2012:-150.949,0,-114.246 0/1:40:18,22:18:644:22:792:-59.5645,0,-46.2494 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 0/1:49:18,31:18:631:31:1116:-86.0012,0,-42.3652 0/1:31:25,6:25:883:6:216:-10.4586,0,-70.4555 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 chr03 25826994 . T G 10989.5 PASS AB=0.457854;ABP=11.0639;AC=31;AF=0.738095;AN=42;AO=555;CIGAR=1X;DP=840;DPB=840;DPRA=0;EPP=1208.18;EPPR=621.88;GTI=1;LEN=1;MEANALT=1;MQM=59.9802;MQMR=59.9684;NS=21;NUMALT=1;ODDS=1.08032;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19765;QR=10202;RO=285;RPL=0;RPP=1208.18;RPPR=621.88;RPR=555;RUN=1;SAF=555;SAP=1208.18;SAR=0;SRF=285;SRP=621.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69:0:0:69:2435:-219.401,-20.7711,0 1/1:38:0,38:0:0:38:1364:-123.061,-11.4391,0 0/1:40:21,19:21:756:19:672:-48.7651,0,-56.326 1/1:20:0,20:0:0:20:686:-62.0557,-6.0206,0 1/1:70:2,68:2:72:68:2418:-211.037,-14.2354,0 0/1:32:12,20:12:432:20:716:-55.1348,0,-29.5882 0/1:47:26,21:26:921:21:756:-54.2106,0,-69.0565 0/1:43:24,19:24:860:19:675:-48.1333,0,-64.7775 0/1:62:33,29:33:1184:29:1040:-75.2505,0,-88.2045 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 0/1:63:40,23:40:1421:23:805:-53.8022,0,-109.221 0/1:105:59,46:59:2112:46:1641:-116.369,0,-158.741 0/1:41:23,18:23:828:18:644:-45.9484,0,-62.5019 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 0/1:50:32,18:32:1148:18:648:-43.6004,0,-88.5783 0/1:30:7,23:7:252:23:813:-64.4582,0,-13.9981 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 chr03 25873427 . AAAAC AAAAT,CAAAT 25964.8 PASS AB=0.569353,0.429326;ABP=34.6358,35.852;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1057,334;CIGAR=4M1X,1X3M1X;DP=1395;DPB=1395;DPRA=0,1.10811;EPP=2298.26,728.282;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=1.85714,2.2;MQM=40.5686,28.9132;MQMR=58;NS=21;NUMALT=2;ODDS=3.69582;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37947,11757;QR=31;RO=1;RPL=1057,334;RPP=2298.26,728.282;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2298.26,728.282;SAR=1057,334;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,46,1:0:0:46,1:1656,36:-143.944,-13.8474,0,-142.027,-11.6815,-141.726 1/1:81:0,81,0:0:0:81,0:2912,0:-245.443,-24.3834,0,-245.443,-24.3834,-245.443 1/2:43:0,27,16:0:0:27,16:972,560:-113.764,-36.7359,-28.6081,-77.338,0,-72.5216 1/1:101:0,101,0:0:0:101,0:3624,0:-317.188,-30.404,0,-317.188,-30.404,-317.188 1/1:109:0,105,4:0:0:105,4:3768,143:-328.888,-31.6082,0,-319.664,-22.0924,-318.46 1/2:103:0,68,35:0:0:68,35:2435,1248:-253.871,-70.0083,-49.5383,-184.144,0,-173.608 1/2:79:0,52,27:0:0:52,27:1868,943:-196.057,-54.4402,-38.7866,-141.901,0,-133.773 1/2:100:0,49,51:0:0:49,51:1744,1809:-245.381,-109.367,-94.6168,-136.321,0,-120.969 1/2:94:0,56,38:0:0:56,38:2016,1345:-250.493,-91.8986,-75.0409,-158.914,0,-147.475 1/2:4:0,3,1:0:0:3,1:108,36:-10.9131,-2.43517,-1.53208,-8.76948,0,-8.46845 1/1:5:0,5,0:0:0:5,0:176,0:-15.2394,-1.50515,0,-15.2394,-1.50515,-15.2394 1/1:29:0,29,0:0:0:29,0:1040,0:-88.2732,-8.72987,0,-88.2732,-8.72987,-88.2732 1/1:93:0,93,0:0:0:93,0:3348,0:-292.261,-27.9958,0,-292.261,-27.9958,-292.261 1/2:96:0,60,36:0:0:60,36:2148,1246:-250.214,-81.35,-63.2882,-169.171,0,-158.334 1/2:81:0,41,39:0:0:41,39:1472,1380:-205.387,-89.3859,-77.0436,-116.058,0,-104.318 1/2:41:0,19,22:0:0:19,22:684,778:-106.128,-51.7866,-46.067,-54.6658,0,-48.0431 1/1:61:1,60,0:1:31:60,0:2156,0:-187.167,-15.2637,0,-187.468,-18.0618,-189.955 1/2:68:0,26,42:0:0:26,42:936,1475:-161.867,-89.5378,-81.711,-72.6441,0,-60.0008 1/2:48:0,30,18:0:0:30,18:1076,615:-125.099,-40.6037,-31.5728,-84.8019,0,-79.3834 1/1:73:0,70,2:0:0:70,2:2516,71:-215.733,-21.0721,0,-211.425,-16.7621,-210.823 1/1:39:0,36,2:0:0:36,2:1292,72:-108.55,-10.8371,0,-103.054,-5.26595,-102.452 chr03 25881573 . T C 11366 PASS AB=0.478502;ABP=8.79889;AC=11;AF=0.261905;AN=42;AO=700;CIGAR=1X;DP=2562;DPB=2562;DPRA=1.45872;EPP=1505.72;EPPR=3981.38;GTI=0;LEN=1;MEANALT=1.14286;MQM=60;MQMR=59.9828;NS=21;NUMALT=1;ODDS=7.68306;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24916;QR=66680;RO=1860;RPL=1;RPP=1514.37;RPPR=3981.38;RPR=699;RUN=1;SAF=699;SAP=1514.37;SAR=1;SRF=1860;SRP=4041.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:117:114,2:114:4096:2:72:0,-28.3622,-362.026 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.549 0/1:111:51,60:51:1836:60:2130:-158.553,0,-132.106 0/0:173:173,0:173:6204:0:0:0,-52.0782,-558.455 0/0:234:227,7:227:8127:7:252:0,-47.4121,-708.416 0/1:164:89,75:89:3200:75:2687:-192.705,0,-238.853 0/1:133:73,60:73:2611:60:2133:-152.201,0,-195.2 0/1:128:58,70:58:2080:70:2504:-187.081,0,-148.161 0/1:246:138,108:138:4964:108:3846:-272.283,0,-372.853 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 0/0:179:179,0:179:6413:0:0:0,-53.8844,-577.255 0/1:193:92,101:92:3291:101:3573:-263.678,0,-238.31 0/1:232:111,121:111:3973:121:4320:-319.137,0,-287.92 0/1:78:45,32:45:1612:32:1148:-80.0907,0,-121.831 0/0:114:114,0:114:4061:0:0:0,-34.3174,-365.677 0/1:75:34,41:34:1224:41:1432:-106.596,0,-87.8898 0/1:72:52,20:52:1872:20:711:-42.6415,0,-147.085 0/0:115:114,1:114:4084:1:36:0,-31.0202,-364.147 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 chr03 25881594 . T G 37248.4 PASS AB=0.519526;ABP=7.75907;AC=31;AF=0.738095;AN=42;AO=1831;CIGAR=1X;DP=2533;DPB=2533;DPRA=0;EPP=3978.98;EPPR=1510.02;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9836;MQMR=60;NS=21;NUMALT=1;ODDS=6.99319;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65085;QR=24845;RO=698;RPL=1831;RPP=3978.98;RPPR=1518.7;RPR=0;RUN=1;SAF=1831;SAP=3978.98;SAR=0;SRF=697;SRP=1510.02;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:2,115:2:72:115:4074:-360.01,-28.3838,0 1/1:85:0,85:0:0:85:3032:-273.11,-25.5876,0 0/1:109:58,51:58:2071:51:1823:-131.538,0,-153.848 1/1:170:0,169:0:0:169:6005:-540.196,-50.8741,0 1/1:229:6,222:6:216:222:7927:-693.666,-49.2042,0 0/1:159:75,84:75:2663:84:2994:-221.828,0,-192.05 0/1:137:62,75:62:2200:75:2653:-197.774,0,-157.022 0/1:126:70,56:70:2512:56:2003:-142.613,0,-188.402 0/1:240:101,138:101:3612:138:4915:-370.331,0,-253.119 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 1/1:173:0,173:0:0:173:6119:-550.815,-52.0782,0 0/1:192:102,90:102:3625:90:3219:-232.134,0,-268.658 0/1:233:123,110:123:4375:110:3907:-281.682,0,-323.783 0/1:78:32,46:32:1152:46:1625:-123.056,0,-80.5098 1/1:112:0,112:0:0:112:3986:-358.931,-33.7154,0 0/1:74:41,32:41:1411:32:1135:-80.1232,0,-104.945 0/1:76:21,55:21:756:55:1952:-153.076,0,-45.4889 1/1:114:1,113:1:36:113:4002:-356.759,-30.7191,0 1/1:57:2,55:2:72:55:1922:-166.416,-10.322,0 chr03 25904443 . C T 37579.9 PASS AB=0.594247;ABP=104.928;AC=31;AF=0.738095;AN=42;AO=1812;CIGAR=1X;DP=2360;DPB=2360;DPRA=0;EPP=3937.72;EPPR=1192.98;GTI=0;LEN=1;MEANALT=1;MQM=59.9592;MQMR=59.938;NS=21;NUMALT=1;ODDS=4.79359;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64870;QR=19441;RO=548;RPL=0;RPP=3937.72;RPPR=1192.98;RPR=1812;RUN=1;SAF=1812;SAP=3937.72;SAR=0;SRF=548;SRP=1192.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:140:0,140:0:0:140:5019:-451.856,-42.1442,0 1/1:93:0,93:0:0:93:3324:-299.378,-27.9958,0 0/1:122:55,67:55:1968:67:2400:-179.531,0,-140.669 1/1:82:0,82:0:0:82:2948:-265.551,-24.6845,0 1/1:253:1,252:1:36:252:9016:-807.797,-72.5623,0 0/1:107:45,62:45:1600:62:2216:-167.494,0,-112.08 0/1:140:60,80:60:2122:80:2850:-214.589,0,-149.104 0/1:52:17,35:17:591:35:1260:-98.0519,0,-37.2308 0/1:209:69,140:69:2463:140:5009:-388.041,0,-159.009 0/1:27:6,21:6:212:21:756:-60.2394,0,-11.297 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 1/1:133:1,132:1:36:132:4693:-418.931,-36.4387,0 0/1:147:69,78:69:2434:78:2762:-204.555,0,-175.064 0/1:218:98,120:98:3490:120:4308:-322.266,0,-248.687 0/1:70:23,47:23:820:47:1681:-130.505,0,-53.0504 1/1:86:0,86:0:0:86:3092:-278.507,-25.8886,0 0/1:138:69,69:69:2443:69:2476:-181.549,0,-178.583 0/1:91:25,66:25:870:66:2376:-186.704,0,-51.2208 1/1:135:9,126:9:320:126:4516:-377.452,-11.4967,0 1/1:58:1,57:1:36:57:2048:-180.993,-13.8615,0 chr03 25904452 . T A 8324.11 PASS AB=0.401813;ABP=113.88;AC=11;AF=0.261905;AN=42;AO=544;CIGAR=1X;DP=2351;DPB=2351;DPRA=1.65777;EPP=1158.38;EPPR=3849;GTI=0;LEN=1;MEANALT=1.26667;MQM=59.9982;MQMR=59.9617;NS=21;NUMALT=1;ODDS=7.36309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19490;QR=64568;RO=1803;RPL=3;RPP=1158.38;RPPR=3849;RPR=541;RUN=1;SAF=544;SAP=1184.29;SAR=0;SRF=1803;SRP=3918.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:138,0:138:4940:0:0:0,-41.5421,-444.75 0/0:91:91,0:91:3256:0:0:0,-27.3937,-293.261 0/1:125:69,56:69:2476:56:2016:-144.084,0,-185.465 0/0:83:83,0:83:2968:0:0:0,-24.9855,-267.351 0/0:249:247,1:247:8830:1:36:0,-71.417,-791.066 0/1:107:62,45:62:2215:45:1612:-113.159,0,-167.404 0/1:139:78,61:78:2799:61:2169:-153.633,0,-210.294 0/1:50:35,15:35:1243:15:540:-33.885,0,-97.1224 0/1:211:140,70:140:5010:70:2502:-161.856,0,-387.47 0/1:29:22,7:22:792:7:241:-13.2948,0,-62.8758 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:49:49,0:49:1751:0:0:0,-14.7505,-157.873 0/0:129:128,1:128:4587:1:32:0,-35.6336,-409.794 0/1:147:80,66:80:2841:66:2360:-168.387,0,-211.645 0/1:215:119,96:119:4284:96:3452:-246.17,0,-321.009 0/1:69:46,23:46:1652:23:828:-54.073,0,-128.197 0/0:87:87,0:87:3103:0:0:0,-26.1896,-279.497 0/1:140:71,68:71:2556:68:2448:-178.371,0,-188.082 0/1:92:67,25:67:2412:25:894:-53.0854,0,-189.641 0/0:134:125,9:125:4492:9:324:0,-10.8322,-374.94 0/0:58:57,1:57:2037:1:36:0,-13.8615,-180.002 chr03 25905080 . C A 12840.4 PASS AB=0.508021;ABP=3.32383;AC=31;AF=0.738095;AN=42;AO=640;CIGAR=1X;DP=917;DPB=917;DPRA=0;EPP=1392.75;EPPR=602.337;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9875;MQMR=60;NS=21;NUMALT=1;ODDS=6.47478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22722;QR=9864;RO=276;RPL=0;RPP=1392.75;RPPR=602.337;RPR=640;RUN=1;SAF=640;SAP=1392.75;SAR=0;SRF=276;SRP=602.337;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 1/1:23:0,23:0:0:23:775:-70.0575,-6.92369,0 0/1:58:26,32:26:920:32:1144:-85.8098,0,-65.6573 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 1/1:60:0,60:0:0:60:2133:-192.236,-18.0618,0 0/1:27:12,15:12:428:15:525:-39.4502,0,-30.731 0/1:58:34,24:34:1220:24:864:-60.6228,0,-92.6471 0/1:39:18,21:18:644:21:737:-54.9105,0,-46.5504 0/1:35:18,17:18:644:17:612:-44.8774,0,-47.7545 0/1:13:7,6:7:252:6:197:-14.1379,0,-19.1156 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:28:0,28:0:0:28:969:-87.5174,-8.42884,0 1/1:39:0,39:0:0:39:1374:-123.955,-11.7402,0 0/1:48:30,18:30:1072:18:633:-42.8456,0,-82.343 0/1:124:89,35:89:3176:35:1207:-71.599,0,-248.737 0/1:19:10,9:10:360:9:324:-23.7863,0,-27.0247 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 0/1:90:24,66:24:860:66:2364:-185.926,0,-50.6291 0/1:50:8,42:8:288:42:1504:-120.603,0,-11.2159 1/1:60:0,59:0:0:59:2124:-191.068,-17.7608,0 1/1:39:0,39:0:0:39:1400:-126.291,-11.7402,0 chr03 25937531 . C A 41704.3 PASS AB=0.515075;ABP=5.36728;AC=31;AF=0.738095;AN=42;AO=1686;CIGAR=1X;DP=2275;DPB=2275;DPRA=0;EPP=1219.84;EPPR=206.609;GTI=0;LEN=1;MEANALT=1;MQM=59.8944;MQMR=59.9864;NS=21;NUMALT=1;ODDS=2.47618;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59400;QR=20957;RO=589;RPL=357;RPP=1219.84;RPPR=203.158;RPR=1329;RUN=1;SAF=1686;SAP=3664.11;SAR=0;SRF=588;SRP=1273.34;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,119:0:0:119:4178:-376.204,-35.8226,0 1/1:103:1,102:1:36:102:3580:-318.812,-27.4078,0 0/1:95:46,49:46:1612:49:1723:-126.737,0,-116.769 1/1:176:0,176:0:0:176:6221:-559.992,-52.9813,0 1/1:223:4,219:4:144:219:7734:-682.792,-53.8161,0 0/1:80:41,39:41:1464:39:1368:-99.3361,0,-107.974 0/1:242:125,117:125:4455:117:4157:-301.465,0,-328.265 0/1:89:42,47:42:1482:47:1641:-121.184,0,-106.881 0/1:120:66,54:66:2326:54:1893:-134.452,0,-173.476 0/1:5:1,4:1:36:4:140:-11.4394,0,-2.09312 1/1:11:0,11:0:0:11:380:-34.532,-3.31133,0 1/1:45:1,44:1:36:44:1525:-133.942,-9.94808,0 1/1:141:0,141:0:0:141:4958:-446.38,-42.4452,0 0/1:93:49,44:49:1734:44:1548:-111.558,0,-128.347 0/1:159:79,80:79:2824:80:2828:-206.889,0,-206.536 0/1:141:63,78:63:2252:78:2719:-202.051,0,-160.498 1/1:98:0,98:0:0:98:3411:-307.134,-29.5009,0 0/1:73:37,36:37:1332:36:1276:-93.1679,0,-98.2072 0/1:97:30,67:30:1080:67:2384:-185.618,0,-68.3133 1/1:109:4,105:4:144:105:3732:-322.77,-19.4987,0 1/1:56:0,56:0:0:56:2004:-180.634,-16.8577,0 chr03 25937587 . A G 35637.9 PASS AB=0.522476;ABP=8.96465;AC=31;AF=0.738095;AN=42;AO=1735;CIGAR=1X;DP=2385;DPB=2385;DPRA=0;EPP=3744.5;EPPR=1403.62;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9833;MQMR=59.98;NS=21;NUMALT=1;ODDS=4.63401;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61539;QR=23234;RO=649;RPL=1732;RPP=3744.5;RPPR=1403.62;RPR=3;RUN=1;SAF=0;SAP=3770.51;SAR=1735;SRF=0;SRP=1412.3;SRR=649;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:197:0,197:0:0:197:6967:-627.102,-59.3029,0 1/1:54:0,53:0:0:53:1886:-169.647,-15.9546,0 0/1:71:32,39:32:1144:39:1396:-104.566,0,-81.8964 1/1:70:1,69:1:36:69:2438:-216.077,-17.4738,0 1/1:282:0,282:0:0:282:10001:-900.04,-84.8905,0 0/1:106:53,53:53:1900:53:1895:-138.918,0,-139.369 0/1:156:91,65:91:3263:65:2299:-160.21,0,-246.929 0/1:122:65,57:65:2340:57:2015:-144.897,0,-174.133 0/1:203:101,102:101:3615:102:3627:-265.528,0,-264.446 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 1/1:8:0,8:0:0:8:275:-25.0835,-2.40824,0 1/1:41:0,41:0:0:41:1433:-129.263,-12.3422,0 1/1:114:0,114:0:0:114:4066:-366.126,-34.3174,0 0/1:98:43,55:43:1540:55:1956:-146.814,0,-109.392 0/1:337:160,177:160:5718:177:6277:-463.571,0,-413.29 0/1:76:31,45:31:1103:45:1578:-119.429,0,-76.7015 1/1:82:0,82:0:0:82:2907:-261.867,-24.6845,0 0/1:94:43,51:43:1539:51:1807:-134.614,0,-110.506 0/1:86:28,58:28:1000:58:2050:-158.882,0,-64.3984 1/1:110:0,110:0:0:110:3919:-352.904,-33.1133,0 1/1:70:0,70:0:0:70:2495:-224.803,-21.0721,0 chr03 26039411 . T C 12415.6 PASS AB=0.525788;ABP=11.074;AC=11;AF=0.261905;AN=42;AO=751;CIGAR=1X;DP=2790;DPB=2790;DPRA=1.67808;EPP=1633.79;EPPR=4413.29;GTI=0;LEN=1;MEANALT=1;MQM=59.984;MQMR=59.9956;NS=21;NUMALT=1;ODDS=11.8034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26604;QR=72991;RO=2039;RPL=0;RPP=1633.79;RPPR=4413.29;RPR=751;RUN=1;SAF=751;SAP=1633.79;SAR=0;SRF=2039;SRP=4430.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:122,1:122:4372:1:36:0,-33.4284,-390.055 0/0:106:105,1:105:3735:1:36:0,-28.3109,-332.752 0/1:91:35,56:35:1260:56:1992:-152.16,0,-86.3118 0/0:256:255,1:255:9114:1:36:0,-73.4654,-816.637 0/0:281:269,12:269:9647:12:416:0,-46.8178,-830.407 0/1:117:63,54:63:2268:54:1927:-138.486,0,-169.162 0/1:204:97,107:97:3484:107:3786:-279.527,0,-252.36 0/1:147:70,77:70:2508:77:2706:-199.533,0,-181.721 0/1:128:55,73:55:1972:73:2600:-195.717,0,-139.223 0/1:24:13,11:13:460:11:384:-27.67,0,-34.5107 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:40:40,0:40:1428:0:0:0,-12.0412,-128.818 0/0:203:203,0:203:7245:0:0:0,-61.1091,-652.1 0/1:89:50,39:50:1772:39:1392:-98.7873,0,-132.971 0/1:217:85,132:85:3048:132:4678:-355.86,0,-209.226 0/1:113:55,58:55:1980:58:2055:-151.205,0,-144.458 0/0:116:116,0:116:4151:0:0:0,-34.9195,-373.773 0/1:161:72,89:72:2580:89:3154:-235.619,0,-183.983 0/1:105:67,38:67:2404:38:1334:-88.7502,0,-185.008 0/0:190:188,2:188:6740:2:72:0,-50.359,-599.836 0/0:70:70,0:70:2499:0:0:0,-21.0721,-225.162 chr03 26049104 . ATC ACT,GCC 109381 PASS AB=0.479621,0.513792;ABP=11.7722,7.02337;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2878,1263;CIGAR=1M2X,2X1M;DP=4163;DPB=4163.33;DPRA=0,2.0374;EPP=6235.15,2736.9;EPPR=0;GTI=1;LEN=2,2;MEANALT=2.66667,2.94118;MQM=59.9204,59.9857;MQMR=0;NS=21;NUMALT=2;ODDS=1.25092;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=100672,43724;QR=0;RO=0;RPL=1284,643;RPP=75.5185,3.91981;RPPR=0;RPR=1594,620;RUN=1,1;SAF=1282,642;SAP=77.4017,3.76851;SAR=1596,621;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:221:0,219,1:0:0:219,1:7663,34:-689.365,-65.9256,0,-686.607,-63.1774,-686.306 1/1:150:0,150,0:0:0:150,0:5287,0:-475.795,-45.1545,0,-475.795,-45.1545,-475.795 1/2:195:0,95,100:0:0:95,100:3351,3489:-556.977,-284.118,-255.52,-273.209,0,-243.106 1/1:261:0,259,1:0:0:259,1:9062,36:-815.168,-77.9668,0,-812.231,-74.9644,-811.93 1/1:426:0,421,4:0:0:421,4:14613,144:-1314.45,-126.734,0,-1302.7,-114.984,-1301.5 1/2:155:0,44,110:0:0:44,110:1555,3873:-441.934,-315.291,-302.046,-126.636,0,-93.5223 1/2:230:0,59,170:0:0:59,170:2068,5929:-650.571,-482.306,-464.545,-168.363,0,-117.188 1/2:273:0,141,130:0:0:141,130:4950,4426:-761.95,-359.087,-316.642,-402.912,0,-363.778 1/2:525:0,259,264:0:0:259,264:9083,9071:-1475.7,-736.558,-658.591,-739.129,0,-659.657 1/2:21:0,14,7:0:0:14,7:504,235:-60.5104,-19.3704,-15.156,-41.4837,0,-39.3765 1/1:15:0,15,0:0:0:15,0:525,0:-47.5789,-4.51545,0,-47.5789,-4.51545,-47.5789 1/1:53:0,52,1:0:0:52,1:1829,34:-164.549,-15.6536,0,-161.791,-12.5557,-161.49 1/1:222:0,221,0:0:0:221,0:7712,0:-693.767,-66.5276,0,-693.767,-66.5276,-693.767 1/2:223:0,114,109:0:0:114,109:3904,3760:-622.682,-305.787,-271.47,-317.239,0,-284.426 1/2:331:0,174,149:0:0:174,149:6149,5169:-920.954,-420.168,-367.789,-500.801,0,-455.948 1/2:167:0,82,85:0:0:82,85:2874,2957:-474.638,-240.776,-216.092,-234.211,0,-208.623 1/1:184:0,180,3:0:0:180,3:6260,106:-563.147,-54.1854,0,-554.514,-45.5576,-553.611 1/2:139:0,71,67:0:0:71,67:2496,2344:-393.925,-190.757,-169.384,-203.227,0,-183.058 1/2:170:0,112,57:0:0:112,57:3878,1941:-472.705,-157.548,-123.833,-315.247,0,-298.088 1/1:158:0,153,5:0:0:153,5:5399,176:-485.691,-46.0576,0,-471.363,-31.3775,-469.858 1/1:44:0,43,0:0:0:43,0:1510,0:-135.977,-12.9443,0,-135.977,-12.9443,-135.977 chr03 26069197 . G A 15025.1 PASS AB=0.465529;ABP=18.1306;AC=11;AF=0.261905;AN=42;AO=684;CIGAR=1X;DP=2443;DPB=2443;DPRA=1.63857;EPP=1488.3;EPPR=3820.46;GTI=0;LEN=1;MEANALT=1.07692;MQM=54.9795;MQMR=59.8823;NS=21;NUMALT=1;ODDS=7.11403;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24384;QR=62177;RO=1758;RPL=274;RPP=61.7289;RPPR=58.5249;RPR=410;RUN=1;SAF=274;SAP=61.7289;SAR=410;SRF=773;SRP=58.5249;SRR=985;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:99:99,0:99:3516:0:0:0,-29.802,-316.643 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5288 0/1:120:52,68:52:1844:68:2415:-180.816,0,-130.114 0/0:157:157,0:157:5517:0:0:0,-47.2617,-496.631 0/0:175:174,1:174:6127:1:36:0,-49.0888,-547.943 0/1:68:33,35:33:1165:35:1260:-91.8334,0,-84.685 0/1:133:64,69:64:2270:69:2480:-181.763,0,-164.525 0/1:202:111,91:111:3956:91:3252:-231.668,0,-295.327 0/1:190:110,80:110:3844:80:2845:-198.256,0,-288.948 0/1:13:7,6:7:252:6:207:-14.5398,0,-19.1156 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:31:31,0:31:1095:0:0:0,-9.33193,-98.7675 0/0:136:134,1:134:4720:1:36:0,-37.4006,-421.362 0/1:160:82,78:82:2908:78:2775:-201.341,0,-213.79 0/1:213:100,113:100:3566:113:4044:-298.755,0,-257.025 0/1:16:7,9:7:248:9:324:-24.6584,0,-17.8477 0/0:29:29,0:29:1032:0:0:0,-8.72987,-93.1935 0/1:157:82,75:82:2859:75:2664:-192.482,0,-210.158 0/1:193:135,58:135:4753:58:2046:-125.896,0,-369.832 0/0:212:212,0:212:7552:0:0:0,-63.8184,-679.693 0/0:111:111,0:111:3949:0:0:0,-33.4143,-355.594 chr03 26069235 . CCG GCG,GCA 29463.2 PASS AB=0.509692,0.486887;ABP=3.72587,4.32012;AC=32,10;AF=0.761905,0.238095;AN=42;AO=984,428;CIGAR=1X2M,1X1M1X;DP=1421;DPB=1421;DPRA=0,1.96801;EPP=2139.74,932.4;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.80952,2.27273;MQM=59.8283,51.8785;MQMR=0;NS=21;NUMALT=2;ODDS=1.84317;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35111,15018;QR=0;RO=0;RPL=984,428;RPP=2139.74,932.4;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2139.74,932.4;SAR=984,428;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,39,0:0:0:39,0:1400,0:-125.932,-11.7402,0,-125.932,-11.7402,-125.932 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:75:0,29,46:0:0:29,46:1032,1622:-216.05,-131.946,-123.216,-84.4574,0,-70.61 1/1:65:0,65,0:0:0:65,0:2319,0:-208.952,-19.567,0,-208.952,-19.567,-208.952 1/1:95:0,94,1:0:0:94,1:3347,36:-301.089,-28.2968,0,-298.157,-25.0064,-297.856 1/2:51:0,23,28:0:0:23,28:819,988:-146.272,-79.5163,-72.5927,-67.1079,0,-58.679 1/2:95:0,38,57:0:0:38,57:1348,1994:-271.353,-161.524,-150.084,-110.181,0,-93.0224 1/2:120:0,63,54:0:0:63,54:2255,1910:-339.069,-155.177,-136.212,-183.914,0,-167.658 1/2:154:0,89,65:0:0:89,65:3192,2257:-443.461,-183.101,-156.309,-260.711,0,-241.144 1/1:4:0,2,0:0:0:2,0:72,0:-6.49742,-0.60206,0,-6.49742,-0.60206,-6.49742 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:15:0,14,0:0:0:14,0:491,0:-44.2473,-4.21442,0,-44.2473,-4.21442,-44.2473 1/1:104:0,104,0:0:0:104,0:3698,0:-333.016,-31.3071,0,-333.016,-31.3071,-333.016 1/2:78:0,36,42:0:0:36,42:1284,1482:-225.256,-120.583,-109.746,-105.026,0,-92.3831 1/2:114:0,53,61:0:0:53,61:1900,2113:-325.941,-170.973,-155.019,-155.32,0,-136.957 1/2:6:0,2,4:0:0:2,4:72,144:-17.9532,-12.0781,-11.476,-6.23466,0,-5.03054 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/2:73:0,40,33:0:0:40,33:1419,1170:-210.777,-95.2954,-83.2542,-115.835,0,-105.901 1/2:111:0,74,37:0:0:74,37:2636,1302:-320.71,-105.922,-83.6461,-215.14,0,-204.002 1/1:121:0,121,0:0:0:121,0:4316,0:-388.54,-36.4246,0,-388.54,-36.4246,-388.54 1/1:66:0,66,0:0:0:66,0:2359,0:-212.568,-19.868,0,-212.568,-19.868,-212.568 chr03 26107600 . TGT TT 14332.9 PASS AB=0.498561;ABP=3.04155;AC=11;AF=0.261905;AN=42;AO=882;CIGAR=1M1D1M;DP=3246;DPB=2951;DPRA=1.78592;EPP=1918.25;EPPR=5112.48;GTI=0;LEN=1;MEANALT=1.5;MQM=59.8923;MQMR=59.9601;NS=21;NUMALT=1;ODDS=12.0002;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31167;QR=82334;RO=2353;RPL=882;RPP=1918.25;RPPR=5112.48;RPR=0;RUN=1;SAF=882;SAP=1918.25;SAR=0;SRF=2353;SRP=5112.48;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:317:314,3:314:10995:3:108:0,-85.3513,-979.389 0/0:137:137,0:137:4780:0:0:0,-41.2411,-430.333 0/1:217:105,110:105:3664:110:3903:-286.383,0,-264.883 0/0:141:141,0:141:4958:0:0:0,-42.4452,-446.374 0/0:347:337,9:337:11756:9:320:0,-75.3734,-1028.78 0/1:206:113,93:113:3970:93:3305:-235.655,0,-295.482 0/1:194:96,93:96:3369:93:3234:-234.059,0,-246.207 0/1:140:67,73:67:2316:73:2583:-190.576,0,-166.551 0/1:217:106,111:106:3750:111:3946:-290.01,0,-272.376 0/1:27:8,18:8:275:18:635:-49.2931,0,-16.9001 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:45:45,0:45:1560:0:0:0,-13.5463,-140.686 0/0:182:182,0:182:6358:0:0:0,-54.7875,-572.317 0/1:211:100,111:100:3520:111:3908:-288.239,0,-253.493 0/1:307:138,169:138:4869:169:5972:-445.116,0,-345.951 0/1:79:46,33:46:1598:33:1173:-82.095,0,-120.323 0/0:127:127,0:127:4423:0:0:0,-38.2308,-398.246 0/1:71:31,40:31:1052:40:1411:-105.913,0,-73.6086 0/1:68:53,15:53:1867:15:525:-27.1089,0,-147.839 0/0:135:130,4:130:4550:4:144:0,-27.3842,-396.358 0/0:67:66,0:66:2308:0:0:0,-19.868,-207.62 chr03 26107768 . C G 42485.1 PASS AB=0.559805;ABP=41.1904;AC=31;AF=0.738095;AN=42;AO=1620;CIGAR=1X;DP=2175;DPB=2175;DPRA=0;EPP=7.83579;EPPR=52.1781;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=12.0851;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57192;QR=19247;RO=554;RPL=1614;RPP=3468.87;RPPR=1171.51;RPR=6;RUN=1;SAF=774;SAP=9.95901;SAR=846;SRF=217;SRP=59.4529;SRR=337;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:2,136:2:72:136:4841:-429.008,-34.7054,0 1/1:130:0,130:0:0:130:4570:-411.469,-39.1339,0 0/1:79:27,52:27:948:52:1864:-144.258,0,-61.8533 1/1:93:1,92:1:32:92:3262:-290.602,-24.7965,0 1/1:144:6,138:6:212:138:4858:-417.952,-23.9235,0 0/1:70:37,33:37:1228:33:1175:-84.9849,0,-89.738 0/1:134:67,67:67:2260:67:2381:-174.209,0,-163.317 0/1:109:53,56:53:1859:56:1947:-142.691,0,-134.774 0/1:175:79,96:79:2737:96:3388:-252.457,0,-193.891 0/1:16:4,12:4:144:12:413:-32.6824,0,-8.49714 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:34:0,34:0:0:34:1180:-106.501,-10.235,0 1/1:101:0,101:0:0:101:3572:-321.689,-30.404,0 0/1:84:32,52:32:1115:52:1835:-140.143,0,-75.3672 0/1:207:90,117:90:3190:117:4124:-309.033,0,-225.012 0/1:59:27,32:27:945:32:1127:-83.9767,0,-67.6015 1/1:70:1,69:1:32:69:2425:-215.306,-17.8728,0 0/1:161:85,76:85:2978:76:2683:-193.248,0,-219.785 0/1:135:40,95:40:1391:95:3352:-261.257,0,-84.8444 1/1:104:2,102:2:68:102:3595:-317.298,-24.8494,0 1/1:127:1,125:1:36:125:4424:-394.734,-34.6913,0 chr03 26107852 . TCACATTT ACACGTTG,TCACCTTG 41660.5 PASS AB=0.520679,0.470838;ABP=6.51275,9.97605;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1565,452;CIGAR=1X3M1X2M1X,4M1X2M1X;DP=2047;DPB=2047;DPRA=0,0.917088;EPP=3401.36,984.516;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.71429,2.76923;MQM=59.9093,59.9535;MQMR=0;NS=21;NUMALT=2;ODDS=7.15836;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54480,15598;QR=0;RO=0;RPL=1565,452;RPP=3401.36,984.516;RPPR=0;RPR=0,0;RUN=1,1;SAF=1565,452;SAP=3401.36,984.516;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,86,1:0:0:86,1:2965,21:-266.877,-25.8886,0,-265.29,-24.0897,-264.989 1/1:103:0,101,0:0:0:101,0:3535,0:-318.041,-30.404,0,-318.041,-30.404,-318.041 1/2:62:0,28,34:0:0:28,34:974,1139:-171.77,-92.5702,-84.1413,-79.5421,0,-69.3071 1/1:108:0,103,0:0:0:103,0:3607,0:-324.505,-31.0061,0,-324.505,-31.0061,-324.505 1/1:195:0,185,7:0:0:185,7:6460,241:-581.136,-55.6906,0,-561.562,-36.0932,-559.455 1/2:148:0,70,75:0:0:70,75:2423,2575:-406.011,-209.101,-188.029,-196.93,0,-174.353 1/2:103:0,58,45:0:0:58,45:2015,1538:-288.977,-125.162,-107.702,-164.159,0,-150.613 1/2:87:0,38,46:0:0:38,46:1319,1577:-235.28,-128.056,-116.617,-107.255,0,-93.4077 1/2:115:0,61,53:0:0:61,53:2098,1843:-320.291,-149.909,-131.546,-170.444,0,-154.489 1/2:8:0,4,4:0:0:4,4:141,144:-23.5862,-12.1095,-10.9054,-11.8328,0,-10.6287 1/1:11:0,11,0:0:0:11,0:387,0:-35.1668,-3.31133,0,-35.1668,-3.31133,-35.1668 1/1:31:0,31,0:0:0:31,0:1105,0:-99.7614,-9.33193,0,-99.7614,-9.33193,-99.7614 1/1:338:0,332,0:0:0:332,0:11559,0:-1039.88,-99.942,0,-1039.88,-99.942,-1039.88 1/2:101:0,50,51:0:0:50,51:1732,1790:-286.733,-146.027,-130.976,-141.054,0,-125.702 1/2:110:0,68,42:0:0:68,42:2362,1466:-311.604,-119.588,-99.1179,-192.364,0,-179.721 1/2:56:0,27,29:0:0:27,29:960,1006:-160.356,-82.1201,-73.9923,-78.5873,0,-69.8575 1/1:82:0,82,0:0:0:82,0:2859,0:-257.552,-24.6845,0,-257.552,-24.6845,-257.552 1/2:59:0,31,27:0:0:31,27:1077,942:-164.094,-76.5361,-67.2042,-87.5461,0,-79.4183 1/2:94:0,56,38:0:0:56,38:1965,1316:-267.218,-107.299,-90.441,-160.267,0,-148.828 1/1:96:0,95,0:0:0:95,0:3304,0:-297.284,-28.5979,0,-297.284,-28.5979,-297.284 1/1:53:0,48,0:0:0:48,0:1633,0:-146.918,-14.4494,0,-146.918,-14.4494,-146.918 chr03 26107872 . T C 6921.48 PASS AB=0.474704;ABP=8.17368;AC=11;AF=0.261905;AN=42;AO=449;CIGAR=1X;DP=2007;DPB=2007;DPRA=0.924612;EPP=978.001;EPPR=3381.82;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9065;MQMR=59.8792;NS=21;NUMALT=1;ODDS=7.16139;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15727;QR=55497;RO=1556;RPL=449;RPP=978.001;RPPR=3381.82;RPR=0;RUN=1;SAF=449;SAP=978.001;SAR=0;SRF=1556;SRP=3381.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:87:86,1:86:3088:1:36:0,-22.5913,-274.549 0/0:102:102,0:102:3623:0:0:0,-30.7051,-326.277 0/1:59:27,32:27:968:32:1108:-82.264,0,-69.6766 0/0:106:106,0:106:3789:0:0:0,-31.9092,-341.178 0/0:189:181,7:181:6447:7:252:0,-33.7925,-557.307 0/1:147:70,77:70:2486:77:2666:-195.933,0,-179.73 0/1:101:57,44:57:2026:44:1543:-108.754,0,-152.205 0/1:85:38,47:38:1355:47:1613:-119.867,0,-96.6622 0/1:113:59,54:59:2094:54:1905:-137.697,0,-154.712 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 0/0:331:331,0:331:11822:0:0:0,-99.6409,-1063.12 0/1:101:49,51:49:1743:51:1775:-129.658,0,-126.623 0/1:109:68,41:68:2417:41:1472:-99.9639,0,-184.843 0/1:56:27,29:27:964:29:1023:-75.5235,0,-70.2173 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/1:58:32,26:32:1128:26:911:-64.8159,0,-84.3658 0/1:92:56,36:56:1996:36:1279:-87.7177,0,-152.219 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.349 0/0:51:51,0:51:1811:0:0:0,-15.3525,-163.253 chr03 26111446 . C T 25297.9 PASS AB=0.547672;ABP=20.8154;AC=31;AF=0.738095;AN=42;AO=1238;CIGAR=1X;DP=1656;DPB=1656;DPRA=0;EPP=2691.29;EPPR=910.686;GTI=0;LEN=1;MEANALT=1;MQM=59.9838;MQMR=60;NS=21;NUMALT=1;ODDS=17.3702;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43978;QR=14760;RO=418;RPL=0;RPP=2691.29;RPPR=910.686;RPR=1238;RUN=1;SAF=0;SAP=2691.29;SAR=1238;SRF=0;SRP=910.686;SRR=418;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:1,62:1:36:62:2197:-194.397,-15.3666,0 1/1:54:0,54:0:0:54:1932:-174.157,-16.2556,0 0/1:40:16,24:16:576:24:864:-66.0414,0,-40.1338 1/1:68:0,68:0:0:68:2389:-215.266,-20.47,0 1/1:172:1,171:1:36:171:6070:-542.736,-48.1789,0 0/1:83:36,47:36:1280:47:1675:-126.051,0,-90.5177 0/1:89:34,55:34:1173:55:1947:-148.712,0,-79.0801 0/1:72:41,31:41:1468:31:1105:-78.0854,0,-110.742 0/1:145:66,79:66:2342:79:2815:-209.94,0,-167.389 0/1:17:12,5:12:424:5:176:-11.0675,0,-33.3789 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:42:0,42:0:0:42:1487:-134.124,-12.6433,0 1/1:139:2,137:2:72:137:4844:-429.282,-35.0064,0 0/1:77:38,39:38:1355:39:1365:-99.9674,0,-99.0704 0/1:111:48,63:48:1688:63:2260:-170.248,0,-118.789 0/1:78:38,40:38:1347:40:1421:-104.705,0,-98.0491 1/1:69:1,68:1:36:68:2415:-214.008,-17.1728,0 0/1:111:47,64:47:1633:64:2266:-170.788,0,-113.842 0/1:79:32,47:32:1118:47:1642:-124.282,0,-77.1446 1/1:71:4,67:4:140:67:2412:-204.391,-8.42855,0 1/1:62:1,61:1:36:61:2192:-193.947,-15.0656,0 chr03 26111490 . A T 6431.58 PASS AB=0.446645;ABP=25.4871;AC=11;AF=0.261905;AN=42;AO=415;CIGAR=1X;DP=1680;DPB=1680;DPRA=1.83036;EPP=904.171;EPPR=2745.58;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9928;MQMR=59.9976;NS=21;NUMALT=1;ODDS=18.3639;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14756;QR=45320;RO=1263;RPL=415;RPP=904.171;RPPR=2745.58;RPR=0;RUN=1;SAF=0;SAP=904.171;SAR=415;SRF=0;SRP=2745.58;SRR=1263;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2192:1:36:0,-15.0656,-193.947 0/0:59:59,0:59:2093:0:0:0,-17.7608,-188.638 0/1:41:25,16:25:900:16:572:-39.4696,0,-68.9788 0/0:68:67,0:67:2396:0:0:0,-20.169,-215.537 0/0:176:175,1:175:6292:1:36:0,-49.383,-562.771 0/1:84:46,38:46:1656:38:1325:-94.2611,0,-124.042 0/1:89:54,35:54:1928:35:1260:-86.9138,0,-147.005 0/1:73:32,41:32:1152:41:1461:-109.809,0,-82.015 0/1:151:86,64:86:3088:64:2285:-160.396,0,-232.633 0/1:17:4,13:4:144:13:464:-36.98,0,-8.19611 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 0/0:143:142,1:142:5108:1:36:0,-39.449,-456.262 0/1:75:38,37:38:1356:37:1313:-95.8924,0,-99.7632 0/1:109:63,46:63:2268:46:1631:-114.265,0,-171.57 0/1:78:40,38:40:1436:38:1368:-99.9405,0,-106.057 0/0:71:70,1:70:2516:1:36:0,-17.7749,-223.093 0/1:111:66,45:66:2363:45:1597:-110.604,0,-179.513 0/1:81:48,33:48:1724:33:1164:-80.6835,0,-131.062 0/0:74:69,5:69:2472:5:172:0,-6.45824,-206.916 0/0:62:62,0:62:2228:0:0:0,-18.6639,-200.784 chr03 26126765 . T C 25147.7 PASS AB=0.538462;ABP=15.8721;AC=31;AF=0.738095;AN=42;AO=1237;CIGAR=1X;DP=1706;DPB=1706;DPRA=0;EPP=2689.12;EPPR=1021.43;GTI=0;LEN=1;MEANALT=1;MQM=59.979;MQMR=60;NS=21;NUMALT=1;ODDS=10.5593;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44049;QR=16752;RO=469;RPL=1237;RPP=2689.12;RPPR=1021.43;RPR=0;RUN=1;SAF=0;SAP=2689.12;SAR=1237;SRF=0;SRP=1021.43;SRR=469;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:3,112:3:108:112:3993:-349.484,-24.5433,0 1/1:77:0,77:0:0:77:2760:-248.642,-23.1793,0 0/1:82:27,55:27:972:55:1950:-151.088,0,-63.1134 1/1:72:0,72:0:0:72:2569:-231.459,-21.6742,0 1/1:99:2,97:2:72:97:3384:-297.85,-22.9652,0 0/1:57:29,28:29:1029:28:1004:-73.5172,0,-75.7624 0/1:134:77,57:77:2768:57:2048:-144.254,0,-209.023 0/1:63:38,25:38:1319:25:894:-61.8145,0,-100.039 0/1:155:72,83:72:2580:83:2949:-218.983,0,-185.79 0/1:16:7,9:7:248:9:324:-24.6894,0,-17.8477 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:53:0,53:0:0:53:1894:-170.738,-15.9546,0 1/1:98:0,98:0:0:98:3497:-314.941,-29.5009,0 0/1:106:40,66:40:1423:66:2334:-178.405,0,-96.4575 0/1:229:101,128:101:3620:128:4573:-342.799,0,-257.069 0/1:49:21,28:21:756:28:974:-73.2177,0,-53.6168 1/1:47:1,46:1:36:46:1652:-145.37,-10.5501,0 0/1:51:28,23:28:993:23:824:-59.1308,0,-74.33 0/1:59:22,37:22:792:37:1317:-101.069,0,-53.8449 1/1:85:1,84:1:36:84:2989:-265.643,-21.9893,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 chr03 26204356 . C T 18064.7 PASS AB=0.519135;ABP=4.92163;AC=31;AF=0.738095;AN=42;AO=876;CIGAR=1X;DP=1173;DPB=1173;DPRA=0;EPP=1896.54;EPPR=645.766;GTI=0;LEN=1;MEANALT=1.04762;MQM=53.9772;MQMR=59.4696;NS=21;NUMALT=1;ODDS=11.7827;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31257;QR=10556;RO=296;RPL=875;RPP=1896.54;RPPR=645.766;RPR=1;RUN=1;SAF=876;SAP=1905.22;SAR=0;SRF=296;SRP=645.766;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:3,79:3:99:79:2823:-244.695,-15.4479,0 1/1:51:0,51:0:0:51:1815:-163,-15.3525,0 0/1:33:15,18:15:532:18:648:-48.6329,0,-38.2782 1/1:77:1,76:1:36:76:2710:-240.214,-19.581,0 1/1:110:1,109:1:36:109:3852:-342.812,-29.515,0 0/1:48:19,29:19:680:29:1035:-78.4194,0,-46.8006 0/1:64:41,23:41:1455:23:828:-54.7629,0,-111.94 0/1:65:22,43:22:792:43:1540:-118.795,0,-52.0387 0/1:76:40,36:40:1436:36:1281:-92.4343,0,-106.659 0/1:18:11,7:11:396:7:248:-17.058,0,-30.5642 1/1:8:0,8:0:0:8:288:-26.2014,-2.40824,0 1/1:34:0,34:0:0:34:1198:-107.929,-10.235,0 1/1:79:2,77:2:72:77:2748:-240.063,-16.9496,0 0/1:40:17,23:17:599:23:828:-62.5959,0,-42.1945 0/1:52:22,30:22:792:30:1076:-81.3795,0,-55.9513 0/1:29:16,13:16:572:13:468:-33.6737,0,-43.0817 1/1:37:0,37:0:0:37:1332:-120.062,-11.1381,0 0/1:111:59,51:59:2104:51:1823:-130.392,0,-156.073 0/1:65:26,39:26:923:39:1381:-104.562,0,-63.8081 1/1:32:0,32:0:0:32:1148:-103.458,-9.63296,0 1/1:62:1,61:1:32:61:2187:-192.265,-15.4645,0 chr03 26204366 . TGTC CGTT,CGTC 23689.9 PASS AB=0.517647,0.480672;ABP=4.61974,4.9409;AC=31,11;AF=0.738095,0.261905;AN=42;AO=868,294;CIGAR=1X2M1X,1X3M;DP=1168;DPB=1169.25;DPRA=0,1.92676;EPP=1887.85,632.767;EPPR=0;GTI=0;LEN=4,1;MEANALT=2,2.3125;MQM=53.9735,59.4524;MQMR=0;NS=21;NUMALT=2;ODDS=11.6944;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=90,90;PQR=0;PRO=0;QA=30129,10242;QR=0;RO=0;RPL=868,294;RPP=1887.85,641.423;RPPR=0;RPR=0,0;RUN=1,1;SAF=868,293;SAP=1887.85,632.767;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,75,3:0:0:75,3:2584,108:-232.153,-22.5773,0,-223.34,-13.7583,-222.437 1/1:51:0,51,0:0:0:51,0:1768,0:-158.821,-15.3525,0,-158.821,-15.3525,-158.821 1/2:31:0,18,13:0:0:18,13:608,436:-84.8522,-35.6441,-30.2255,-49.5442,0,-45.6308 1/1:77:0,75,1:0:0:75,1:2635,36:-236.794,-22.5773,0,-233.857,-19.61,-233.556 1/1:109:0,108,1:0:0:108,1:3719,36:-334.139,-32.5112,0,-331.202,-29.214,-330.901 1/2:50:0,29,21:0:0:29,21:1016,735:-141.968,-59.8708,-51.141,-82.4459,0,-76.1242 1/2:64:0,23,41:0:0:23,41:815,1411:-180.71,-114.895,-107.972,-66.1631,0,-53.8209 1/2:64:0,42,22:0:0:42,22:1478,784:-184.005,-64.2038,-51.5605,-120.098,0,-113.476 1/2:75:0,35,40:0:0:35,40:1204,1406:-212.238,-114.736,-104.2,-97.791,0,-85.7498 1/2:18:0,7,11:0:0:7,11:232,396:-51.3685,-32.6714,-30.5642,-19.0389,0,-15.7276 1/1:8:0,8,0:0:0:8,0:286,0:-26.0229,-2.40824,0,-26.0229,-2.40824,-26.0229 1/1:34:0,34,0:0:0:34,0:1215,0:-109.444,-10.235,0,-109.444,-10.235,-109.444 1/1:83:0,81,2:0:0:81,2:2774,72:-249.153,-24.3834,0,-243.283,-18.1537,-242.681 1/2:40:0,22,18:0:0:22,18:764,629:-113.544,-51.5143,-44.8916,-62.378,0,-56.9594 1/2:53:0,31,22:0:0:31,22:1085,769:-151.101,-62.9051,-53.5732,-88.5449,0,-81.9223 1/2:27:0,12,15:0:0:12,15:411,503:-74.4308,-41.072,-37.4596,-33.698,0,-29.1825 1/1:38:0,38,0:0:0:38,0:1290,0:-116.33,-11.4391,0,-116.33,-11.4391,-116.33 1/2:110:0,51,58:0:0:51,58:1768,2022:-307.889,-164.48,-149.128,-143.523,0,-126.063 1/2:63:0,38,25:0:0:38,25:1331,863:-178.359,-70.4481,-59.0089,-108.257,0,-100.731 1/1:32:0,32,0:0:0:32,0:1110,0:-100.072,-9.63296,0,-100.072,-9.63296,-100.072 1/1:60:0,58,1:0:0:58,1:2036,36:-181.775,-17.4597,0,-178.837,-14.487,-178.536 chr03 26204372 . C T 4561.24 PASS AB=0.481293;ABP=4.7977;AC=11;AF=0.261905;AN=42;AO=290;CIGAR=1X;DP=1149;DPB=1149;DPRA=1.67964;EPP=624.081;EPPR=1861.79;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.4379;MQMR=54.1016;NS=21;NUMALT=1;ODDS=11.562;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10244;QR=30258;RO=856;RPL=290;RPP=632.737;RPPR=1861.79;RPR=0;RUN=1;SAF=289;SAP=624.081;SAR=1;SRF=856;SRP=1861.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:79:76,3:76:2671:3:104:0,-14.0786,-230.599 0/0:51:50,0:50:1775:0:0:0,-15.0515,-159.103 0/1:32:18,14:18:635:14:504:-36.0628,0,-47.7875 0/0:76:75,1:75:2656:1:36:0,-19.28,-235.373 0/0:106:104,1:104:3678:1:36:0,-28.2947,-327.322 0/1:48:28,20:28:987:20:716:-50.0393,0,-74.1222 0/1:64:23,41:23:811:41:1437:-110.309,0,-53.344 0/1:64:42,22:42:1499:22:774:-50.7143,0,-115.41 0/1:74:35,39:35:1243:39:1387:-102.852,0,-89.3766 0/1:17:6,11:6:207:11:387:-30.0484,0,-13.8031 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2014 0/0:34:33,0:33:1180:0:0:0,-9.93399,-105.982 0/0:79:77,2:77:2728:2:72:0,-16.9496,-238.637 0/1:38:21,17:21:717:17:608:-43.6105,0,-53.356 0/1:51:30,21:30:1052:21:752:-52.6529,0,-79.528 0/1:28:13,15:13:450:15:531:-39.6925,0,-32.3835 0/0:38:38,0:38:1333:0:0:0,-11.4391,-120.201 0/1:109:51,58:51:1799:58:2035:-150.519,0,-128.92 0/1:63:38,25:38:1356:25:865:-59.1891,0,-102.845 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.088 0/0:58:58,0:58:2049:0:0:0,-17.4597,-182.869 chr03 26204446 . C G 9295.18 PASS AB=0.438839;ABP=50.0249;AC=11;AF=0.261905;AN=42;AO=651;CIGAR=1X;DP=3247;DPB=3247;DPRA=1.49447;EPP=1407.97;EPPR=5629.3;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.5499;MQMR=59.9626;NS=21;NUMALT=1;ODDS=21.8925;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22462;QR=91774;RO=2591;RPL=0;RPP=1416.64;RPPR=5629.3;RPR=651;RUN=1;SAF=1;SAP=1407.97;SAR=650;SRF=0;SRP=5629.3;SRR=2591;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:104:104,0:104:3676:0:0:0,-31.3071,-331.01 0/0:123:123,0:123:4386:0:0:0,-37.0267,-394.906 0/1:112:61,51:61:2120:51:1774:-126.211,0,-157.347 0/0:146:144,0:144:5099:0:0:0,-43.3483,-458.697 0/0:430:418,12:418:14822:12:428:0,-90.5841,-1294.87 0/1:86:48,38:48:1702:38:1315:-92.7488,0,-127.576 0/1:186:112,74:112:4004:74:2555:-174.176,0,-304.558 0/1:72:43,28:43:1536:28:982:-66.9544,0,-116.8 0/1:221:96,125:96:3400:125:4324:-322.7,0,-239.687 0/1:22:10,12:10:332:12:402:-29.8756,0,-23.5775 0/0:14:14,0:14:495:0:0:0,-4.21442,-44.883 0/0:47:47,0:47:1671:0:0:0,-14.1484,-150.677 0/0:373:372,1:372:13164:1:27:0,-109.584,-1181.85 0/1:162:81,81:81:2892:81:2820:-205.215,0,-211.743 0/1:142:94,48:94:3327:48:1650:-106.022,0,-256.901 0/1:67:40,27:40:1423:27:960:-66.5391,0,-108.198 0/0:330:330,0:330:11741:0:0:0,-99.3399,-1056.56 0/1:88:41,47:41:1411:47:1598:-117.538,0,-100.791 0/1:289:183,104:183:6456:104:3519:-230.154,0,-494.369 0/0:183:180,3:180:6373:3:108:0,-45.0133,-563.592 0/0:50:50,0:50:1744:0:0:0,-15.0515,-157.241 chr03 26321815 . C A 5684.46 PASS AB=0.550247;ABP=16.3217;AC=11;AF=0.261905;AN=42;AO=340;CIGAR=1X;DP=1098;DPB=1098;DPRA=2.27273;EPP=741.311;EPPR=1644.64;GTI=0;LEN=1;MEANALT=1.14286;MQM=58.6059;MQMR=59.9563;NS=21;NUMALT=1;ODDS=1.766;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12122;QR=26991;RO=756;RPL=0;RPP=741.311;RPPR=1644.64;RPR=340;RUN=1;SAF=0;SAP=741.311;SAR=340;SRF=0;SRP=1644.64;SRR=756;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:76,2:76:2713:2:72:0,-16.6436,-237.575 0/0:24:24,0:24:855:0:0:0,-7.22472,-77.2693 0/1:46:9,37:9:324:37:1324:-105.344,0,-15.6585 0/0:43:43,0:43:1535:0:0:0,-12.9443,-138.442 0/0:120:117,3:117:4191:3:108:0,-26.0484,-367.293 0/1:50:19,31:19:675:31:1097:-83.6993,0,-46.0245 0/1:100:47,52:47:1679:52:1852:-136.587,0,-121.232 0/1:45:25,20:25:884:20:716:-51.1496,0,-66.332 0/1:104:49,54:49:1743:54:1940:-143.532,0,-125.825 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:95:94,1:94:3359:1:36:0,-24.9996,-298.926 0/1:77:29,48:29:1032:48:1704:-130.436,0,-70.0108 0/1:102:52,50:52:1851:50:1769:-128.716,0,-136.162 0/1:25:10,15:10:360:15:540:-41.3823,0,-25.2186 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/1:28:14,14:14:504:14:496:-36.4007,0,-37.2693 0/1:22:14,8:14:500:8:288:-19.6432,0,-38.7135 0/0:60:60,0:60:2138:0:0:0,-18.0618,-192.687 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3145 chr03 26343438 . ACAAG ACAAT,CCAAT 28270.6 PASS AB=0.471795,0.525641;ABP=8.40001,7.4646;AC=31,11;AF=0.738095,0.261905;AN=42;AO=939,414;CIGAR=4M1X,1X3M1X;DP=1356;DPB=1356.4;DPRA=0,1.24725;EPP=2042.02,902;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.7619,2.23077;MQM=59.9553,59.8164;MQMR=0;NS=21;NUMALT=2;ODDS=0.460527;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,72;PQR=0;PRO=0;QA=33525,14364;QR=0;RO=0;RPL=939,414;RPP=2042.02,902;RPPR=0;RPR=0,0;RUN=1,1;SAF=939,414;SAP=2042.02,902;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:118:0,118,0:0:0:118,0:4215,0:-379.531,-35.5215,0,-379.531,-35.5215,-379.531 1/1:55:0,55,0:0:0:55,0:1963,0:-176.945,-16.5567,0,-176.945,-16.5567,-176.945 1/2:68:0,28,40:0:0:28,40:986,1373:-192.085,-111.824,-103.395,-80.6096,0,-68.5684 1/1:43:0,41,1:0:0:41,1:1468,36:-132.061,-12.3422,0,-129.124,-9.39983,-128.823 1/1:85:0,82,3:0:0:82,3:2944,105:-264.737,-24.6845,0,-256.198,-15.7955,-255.295 1/2:84:0,37,47:0:0:37,47:1324,1598:-237.568,-129.594,-118.456,-107.964,0,-93.8158 1/2:71:0,25,46:0:0:25,46:900,1599:-203.781,-130.341,-122.815,-73.7953,0,-59.9479 1/2:70:0,37,33:0:0:37,33:1332,1121:-199.588,-90.8935,-79.7554,-108.684,0,-98.7505 1/2:145:0,62,83:0:0:62,83:2193,2902:-415.038,-236.42,-217.756,-178.97,0,-153.985 1/2:7:0,4,2:0:0:4,2:140,72:-17.2686,-5.88175,-4.67763,-11.3909,0,-10.7889 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:20:0,20,0:0:0:20,0:712,0:-64.4067,-6.0206,0,-64.4067,-6.0206,-64.4067 1/1:119:0,119,0:0:0:119,0:4224,0:-380.341,-35.8226,0,-380.341,-35.8226,-380.341 1/2:130:0,64,66:0:0:64,66:2264,2311:-372.772,-188.38,-169.114,-184.744,0,-164.876 1/2:80:0,35,45:0:0:35,45:1260,1584:-232.112,-129.299,-118.763,-103.169,0,-89.6231 1/2:26:0,10,15:0:0:10,15:352,514:-70.4744,-41.8126,-38.8023,-28.7486,0,-24.2332 1/1:38:0,38,0:0:0:38,0:1364,0:-123.061,-11.4391,0,-123.061,-11.4391,-123.061 1/2:53:0,30,23:0:0:30,23:1072,806:-153.341,-65.9325,-56.9016,-87.7616,0,-80.8379 1/2:46:0,36,10:0:0:36,10:1284,343:-132.871,-28.1906,-17.3535,-105.026,0,-102.016 1/1:63:0,63,0:0:0:63,0:2268,0:-204.382,-18.9649,0,-204.382,-18.9649,-204.382 1/1:31:0,31,0:0:0:31,0:1116,0:-100.752,-9.33193,0,-100.752,-9.33193,-100.752 chr03 26365188 . G T 3131.74 PASS AB=0.457014;ABP=10.1044;AC=12;AF=0.285714;AN=42;AO=208;CIGAR=1X;DP=820;DPB=820;DPRA=1.11869;EPP=454.677;EPPR=1331.95;GTI=1;LEN=1;MEANALT=1;MQM=59.9135;MQMR=60;NS=21;NUMALT=1;ODDS=2.26996;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7376;QR=21861;RO=612;RPL=208;RPP=454.677;RPPR=1331.95;RPR=0;RUN=1;SAF=208;SAP=454.677;SAR=0;SRF=612;SRP=1331.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:88:88,0:88:3164:0:0:0,-26.4906,-284.984 0/0:45:45,0:45:1604:0:0:0,-13.5463,-144.65 0/1:29:14,15:14:504:15:525:-38.7615,0,-36.9682 0/0:30:30,0:30:1057:0:0:0,-9.0309,-95.439 0/0:87:81,6:81:2900:6:212:0,-6.76481,-241.811 0/1:17:7,10:7:248:10:352:-26.9007,0,-17.5467 0/1:75:39,36:39:1404:36:1292:-94.0065,0,-104.082 0/1:50:24,26:24:864:26:921:-68.1537,0,-63.0311 0/1:46:24,22:24:852:22:788:-57.3974,0,-63.153 0/1:6:3,3:3:104:3:93:-6.87055,0,-7.89663 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/1:48:31,17:31:1112:17:601:-39.969,0,-85.9419 0/1:79:43,36:43:1527:36:1288:-92.4422,0,-113.941 0/1:37:20,17:20:697:17:596:-42.8274,0,-51.9126 0/0:59:59,0:59:2100:0:0:0,-17.7608,-189.27 0/1:35:24,11:24:864:11:392:-25.084,0,-67.5465 0/1:15:7,8:7:248:8:280:-21.0239,0,-18.1487 0/0:29:29,0:29:1032:0:0:0,-8.72987,-93.1935 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 chr03 26371646 . C T 26224.2 PASS AB=0.492788;ABP=3.38613;AC=31;AF=0.738095;AN=42;AO=1237;CIGAR=1X;DP=1667;DPB=1667;DPRA=0;EPP=2620.08;EPPR=919.452;GTI=0;LEN=1;MEANALT=1;MQM=59.9935;MQMR=60;NS=21;NUMALT=1;ODDS=12.6535;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44257;QR=15294;RO=430;RPL=1229;RPP=2620.08;RPPR=919.452;RPR=8;RUN=1;SAF=0;SAP=2689.12;SAR=1237;SRF=0;SRP=936.743;SRR=430;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:3,120:3:108:120:4306:-377.64,-26.9515,0 1/1:83:0,83:0:0:83:2971:-267.622,-24.9855,0 0/1:93:49,44:49:1740:44:1572:-113.776,0,-128.889 1/1:132:0,132:0:0:132:4722:-425.14,-39.736,0 1/1:223:3,220:3:108:220:7841:-695.643,-57.0545,0 0/1:41:22,19:22:788:19:666:-47.9211,0,-58.9026 0/1:119:63,56:63:2242:56:2008:-145.171,0,-166.22 0/1:73:45,28:45:1599:28:1000:-68.3402,0,-122.224 0/1:109:55,54:55:1956:54:1932:-141.344,0,-143.503 0/1:10:7,3:7:244:3:104:-6.69251,0,-19.2891 1/1:9:0,9:0:0:9:312:-28.4154,-2.70927,0 1/1:35:0,35:0:0:35:1252:-112.985,-10.5361,0 1/1:55:1,54:1:36:54:1928:-170.198,-12.9584,0 0/1:111:68,43:68:2423:43:1544:-105.839,0,-184.911 0/1:100:36,64:36:1288:64:2304:-177.517,0,-86.1206 0/1:71:32,39:32:1131:39:1391:-104.114,0,-80.7246 1/1:83:0,83:0:0:83:2984:-268.791,-24.9855,0 0/1:65:32,33:32:1140:33:1184:-87.3014,0,-83.3423 0/1:40:13,27:13:455:27:972:-75.7567,0,-29.2408 1/1:55:1,54:1:36:54:1932:-170.558,-12.9584,0 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 chr03 26470911 . CTGTGCGGTTG CTGTACGCTTG,TTGTACGCTTA 24985.5 PASS AB=0.52437,0.465546;ABP=6.07956,9.14517;AC=32,10;AF=0.761905,0.238095;AN=42;AO=910,282;CIGAR=4M1X2M1X3M,1X3M1X2M1X2M1X;DP=1209;DPB=1208.82;DPRA=0,1.34768;EPP=1979.05,615.366;EPPR=0;GTI=0;LEN=11,11;MEANALT=2.38095,2.92308;MQM=59.9791,59.5674;MQMR=0;NS=21;NUMALT=2;ODDS=7.75672;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32101,9898;QR=0;RO=0;RPL=910,282;RPP=1979.05,615.366;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1979.05,615.366;SAR=910,282;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,43,0:0:0:43,0:1516,0:-136.508,-12.9443,0,-136.508,-12.9443,-136.508 1/1:24:0,24,0:0:0:24,0:861,0:-77.8123,-7.22472,0,-77.8123,-7.22472,-77.8123 1/2:65:0,39,26:0:0:39,26:1364,916:-185.895,-74.9304,-63.1902,-111.315,0,-103.489 1/1:68:0,68,0:0:0:68,0:2401,0:-216.347,-20.47,0,-216.347,-20.47,-216.347 1/1:136:0,130,1:0:0:130,1:4549,36:-409.253,-39.1339,0,-406.316,-36.1898,-406.015 1/2:53:0,23,29:0:0:23,29:802,985:-145.173,-79.9435,-73.0198,-65.2997,0,-56.5699 1/2:46:0,30,15:0:0:30,15:1042,525:-127.444,-42.7396,-33.7087,-84.7311,0,-80.2156 1/2:75:0,22,51:0:0:22,51:779,1778:-208.044,-144.586,-137.964,-63.4687,0,-48.1161 1/2:57:0,28,29:0:0:28,29:984,1021:-163.247,-83.155,-74.7262,-80.4427,0,-71.7128 1/1:13:0,12,1:0:0:12,1:412,36:-37.0493,-3.61236,0,-34.1106,-0.315115,-33.8095 1/1:15:0,15,0:0:0:15,0:515,0:-46.6736,-4.51545,0,-46.6736,-4.51545,-46.6736 1/1:50:0,49,0:0:0:49,0:1733,0:-155.933,-14.7505,0,-155.933,-14.7505,-155.933 1/1:97:0,96,0:0:0:96,0:3420,0:-307.784,-28.8989,0,-307.784,-28.8989,-307.784 1/2:55:0,32,23:0:0:32,23:1137,807:-158.647,-65.995,-56.362,-93.0049,0,-86.0812 1/2:98:0,45,52:0:0:45,52:1594,1844:-280.075,-150.228,-136.681,-129.852,0,-114.198 1/2:21:0,15,6:0:0:15,6:533,215:-61.3234,-17.893,-13.3775,-43.7877,0,-41.9815 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:54:0,30,23:0:0:30,23:1070,811:-153.25,-66.0234,-56.9925,-87.2215,0,-80.2978 1/2:71:0,48,23:0:0:48,23:1692,818:-204.78,-67.0187,-52.5693,-138.116,0,-131.192 1/1:86:0,82,3:0:0:82,3:2876,106:-258.722,-24.6845,0,-250.089,-16.0566,-249.186 1/1:72:0,70,0:0:0:70,0:2497,0:-224.623,-21.0721,0,-224.623,-21.0721,-224.623 chr03 26475252 . G A 7624.39 PASS AB=0.447493;ABP=28.3222;AC=11;AF=0.261905;AN=42;AO=479;CIGAR=1X;DP=1981;DPB=1981;DPRA=1.50913;EPP=1034.48;EPPR=3080.37;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9875;MQMR=59.972;NS=21;NUMALT=1;ODDS=7.68341;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17095;QR=53474;RO=1500;RPL=1;RPP=1034.48;RPPR=3080.37;RPR=478;RUN=1;SAF=0;SAP=1043.15;SAR=479;SRF=0;SRP=3260.22;SRR=1500;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:158:157,0:157:5636:0:0:0,-47.2617,-506.999 0/0:92:92,0:92:3278:0:0:0,-27.6948,-295.24 0/1:70:36,34:36:1292:34:1224:-89.3949,0,-95.5117 0/0:137:136,1:136:4832:1:36:0,-37.6428,-431.435 0/0:159:154,4:154:5461:4:144:0,-34.4891,-478.333 0/1:124:72,52:72:2566:52:1859:-130.261,0,-193.861 0/1:168:82,86:82:2887:86:3080:-226.855,0,-209.477 0/1:111:68,43:68:2436:43:1530:-104.578,0,-186.081 0/1:148:72,76:72:2575:76:2713:-199.859,0,-187.446 0/1:6:3,3:3:104:3:108:-8.26899,0,-7.89663 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:135:134,1:134:4787:1:36:0,-37.0408,-427.389 0/1:88:42,46:42:1500:46:1631:-120.585,0,-108.804 0/1:149:91,58:91:3249:58:2067:-141.445,0,-247.776 0/1:53:20,33:20:720:33:1168:-89.4707,0,-49.1742 0/0:82:82,0:82:2936:0:0:0,-24.6845,-264.474 0/1:88:60,28:60:2131:28:999:-63.7339,0,-165.567 0/1:52:38,14:38:1351:14:500:-29.6826,0,-106.236 0/0:88:88,0:88:3138:0:0:0,-26.4906,-281.868 0/0:52:52,0:52:1839:0:0:0,-15.6536,-165.79 chr03 26476831 . C T 11011.9 PASS AB=0.482482;ABP=6.66218;AC=11;AF=0.261905;AN=42;AO=673;CIGAR=1X;DP=2710;DPB=2710;DPRA=2.34228;EPP=1464.41;EPPR=4413.28;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9629;MQMR=59.9749;NS=21;NUMALT=1;ODDS=27.7281;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24070;QR=72722;RO=2035;RPL=673;RPP=1464.41;RPPR=4413.28;RPR=0;RUN=1;SAF=673;SAP=1464.41;SAR=0;SRF=2035;SRP=4421.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:239:237,2:237:8482:2:72:0,-65.1094,-756.543 0/0:94:94,0:94:3364:0:0:0,-28.2968,-302.976 0/1:115:63,52:63:2264:52:1860:-133.058,0,-169.404 0/0:91:91,0:91:3229:0:0:0,-27.3937,-290.83 0/0:307:302,5:302:10796:5:180:0,-75.8641,-954.692 0/1:127:68,59:68:2418:59:2116:-152.478,0,-179.642 0/1:207:98,108:98:3511:108:3864:-285.584,0,-253.827 0/1:145:89,56:89:3160:56:1996:-136.246,0,-240.975 0/1:208:101,107:101:3600:107:3844:-283.541,0,-261.591 0/1:18:6,12:6:216:12:413:-32.0793,0,-14.372 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/0:285:284,1:284:10182:1:36:0,-82.1953,-912.701 0/1:138:57,81:57:2039:81:2893:-219.062,0,-142.239 0/1:152:71,81:71:2547:81:2901:-215.558,0,-183.723 0/1:89:53,36:53:1900:36:1292:-89.7921,0,-144.486 0/0:77:76,0:76:2728:0:0:0,-22.8783,-245.403 0/1:78:42,36:42:1490:36:1292:-93.1034,0,-110.913 0/1:93:60,33:60:2113:33:1167:-77.3406,0,-162.442 0/0:130:127,3:127:4532:3:108:0,-29.0587,-397.971 0/0:60:59,1:59:2103:1:36:0,-14.4635,-185.941 chr03 26520136 . ATTTC GTTTT,GTTTC 21933 PASS AB=0.456693,0.531496;ABP=11.2858,7.38744;AC=31,11;AF=0.738095,0.261905;AN=42;AO=596,274;CIGAR=1X3M1X,1X4M;DP=876;DPB=876.6;DPRA=0,1.65764;EPP=31.2249,82.2611;EPPR=3.0103;GTI=0;LEN=5,1;MEANALT=1.85714,2.28571;MQM=43.1225,59.781;MQMR=60;NS=21;NUMALT=2;ODDS=1.39521;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=20823,9743;QR=72;RO=2;RPL=0,0;RPP=1297.21,597.994;RPPR=7.35324;RPR=596,274;RUN=1,1;SAF=254,87;SAP=31.2249,82.2611;SAR=342,187;SRF=1;SRP=3.0103;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35,0:0:0:35,0:1227,0:-105.1,-10.5361,0,-105.1,-10.5361,-105.1 1/1:45:0,45,0:0:0:45,0:1575,0:-139.554,-13.5464,0,-139.554,-13.5464,-139.554 1/2:14:0,5,9:0:0:5,9:180,320:-40.2022,-26.4331,-24.9279,-14.1143,0,-11.4051 1/1:43:0,43,0:0:0:43,0:1445,0:-121.866,-12.9443,0,-121.866,-12.9443,-121.866 1/1:85:0,83,2:0:0:83,2:2875,72:-245.461,-24.9855,0,-239.586,-18.7508,-238.984 1/2:25:0,15,10:0:0:15,10:524,360:-70.6061,-29.734,-25.2186,-41.2225,0,-38.2122 1/2:60:0,25,33:0:0:25,33:890,1163:-165.298,-94.7581,-87.2323,-70.6027,0,-60.6687 1/2:32:0,14,18:0:0:14,18:503,622:-89.5105,-50.8835,-46.6691,-38.9694,0,-33.5509 1/2:57:0,19,38:0:0:19,38:671,1355:-162.697,-110.781,-105.062,-52.2588,0,-40.8196 1/2:6:0,3,3:0:0:3,3:108,108:-17.7007,-9.17208,-8.26899,-8.88326,0,-7.98017 1/1:4:0,4,0:0:0:4,0:142,0:-12.2674,-1.20412,0,-12.2674,-1.20412,-12.2674 1/1:12:0,12,0:0:0:12,0:418,0:-35.6168,-3.61236,0,-35.6168,-3.61236,-35.6168 1/1:35:0,35,0:0:0:35,0:1231,0:-108.195,-10.5361,0,-108.195,-10.5361,-108.195 1/2:33:0,14,19:0:0:14,19:487,660:-90.4209,-53.6424,-49.428,-36.7576,0,-31.038 1/2:77:1,40,35:1:36:40,35:1411,1252:-207.231,-99.1727,-90.069,-105.433,0,-97.8348 1/2:23:1,7,15:1:36:7,15:251,540:-60.6291,-41.1238,-41.9541,-16.8608,0,-15.2842 1/1:29:0,29,0:0:0:29,0:1032,0:-89.8785,-8.72987,0,-89.8785,-8.72987,-89.8785 1/2:116:0,50,65:0:0:50,65:1736,2323:-321.999,-189.368,-174.316,-132.613,0,-113.046 1/2:65:0,40,25:0:0:40,25:1376,896:-178.408,-73.4346,-61.3934,-105.319,0,-97.7929 1/1:14:0,13,1:0:0:13,1:451,36:-38.1272,-3.91339,0,-35.1874,-0.616145,-34.8863 1/1:66:0,65,1:0:0:65,1:2290,36:-199.161,-19.567,0,-196.223,-16.2697,-195.922 chr03 26520155 . CG TA,TG 21937 PASS AB=0.461089,0.533074;ABP=9.76975,7.894;AC=31,11;AF=0.738095,0.261905;AN=42;AO=600,278;CIGAR=2X,1X1M;DP=881;DPB=881;DPRA=0,1.66995;EPP=1305.89,606.68;EPPR=3.73412;GTI=0;LEN=2,1;MEANALT=1.66667,2;MQM=43.255,59.8201;MQMR=60;NS=21;NUMALT=2;ODDS=1.17832;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20785,9944;QR=93;RO=3;RPL=252,89;RPP=36.3641,81.1208;RPPR=3.73412;RPR=348,189;RUN=1,1;SAF=252,89;SAP=36.3641,81.1208;SAR=348,189;SRF=2;SRP=3.73412;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35,0:0:0:35,0:1207,0:-102.786,-10.5361,0,-102.786,-10.5361,-102.786 1/1:46:0,46,0:0:0:46,0:1516,0:-134.33,-13.8474,0,-134.33,-13.8474,-134.33 1/2:14:0,5,9:0:0:5,9:174,316:-39.4393,-26.0696,-24.5644,-13.7077,0,-10.9984 1/1:43:0,43,0:0:0:43,0:1482,0:-123.329,-12.9443,0,-123.329,-12.9443,-123.329 1/1:84:0,82,2:0:0:82,2:2840,72:-241.435,-24.6845,0,-235.559,-18.4498,-234.957 1/2:26:0,16,10:0:0:16,10:557,360:-73.0172,-29.734,-24.9175,-43.6331,0,-40.6228 1/2:61:0,25,36:0:0:25,36:892,1296:-176.553,-106.107,-98.5811,-70.7983,0,-59.9612 1/2:32:1,14,17:1:21:14,17:500,608:-86.2248,-48.1356,-45.5019,-36.9382,0,-33.4011 1/2:57:1,19,37:1:36:19,37:672,1328:-156.934,-105.359,-102.577,-48.9224,0,-40.7229 1/2:6:0,3,3:0:0:3,3:106,108:-17.5196,-9.17208,-8.26899,-8.69893,0,-7.79584 1/1:4:0,4,0:0:0:4,0:133,0:-11.5736,-1.20412,0,-11.5736,-1.20412,-11.5736 1/1:11:0,11,0:0:0:11,0:369,0:-31.0818,-3.31133,0,-31.0818,-3.31133,-31.0818 1/1:35:0,35,0:0:0:35,0:1182,0:-103.604,-10.5361,0,-103.604,-10.5361,-103.604 1/2:33:0,15,18:0:0:15,18:518,644:-91.9971,-52.8721,-48.3566,-39.464,0,-34.0455 1/2:78:0,41,37:0:0:41,37:1444,1309:-217.585,-106.968,-94.6259,-110.961,0,-99.8231 1/2:22:1,7,14:1:36:7,14:225,504:-55.6547,-38.1864,-39.0166,-14.8025,0,-13.531 1/1:29:0,29,0:0:0:29,0:981,0:-85.451,-8.72987,0,-85.451,-8.72987,-85.451 1/2:119:0,51,68:0:0:51,68:1791,2435:-335.148,-198.922,-183.57,-136.568,0,-116.098 1/2:66:0,41,25:0:0:41,25:1439,892:-182.098,-73.0739,-60.7317,-109.37,0,-101.845 1/1:14:0,13,1:0:0:13,1:457,36:-38.1123,-3.91339,0,-35.1725,-0.616145,-34.8714 1/1:66:0,65,1:0:0:65,1:2300,36:-199.75,-19.567,0,-196.813,-16.2697,-196.512 chr03 26573893 . A G 14150.3 PASS AB=0.512069;ABP=3.74411;AC=31;AF=0.738095;AN=42;AO=704;CIGAR=1X;DP=990;DPB=990;DPRA=0;EPP=1531.73;EPPR=624.051;GTI=0;LEN=1;MEANALT=1;MQM=59.9389;MQMR=60;NS=21;NUMALT=1;ODDS=3.80536;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24887;QR=9952;RO=286;RPL=703;RPP=1523.05;RPPR=624.051;RPR=1;RUN=1;SAF=703;SAP=1523.05;SAR=1;SRF=286;SRP=624.051;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:1,57:1:36:57:2018:-178.294,-13.8615,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:36:17,19:17:592:19:675:-50.2399,0,-42.7693 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 1/1:119:2,117:2:64:117:4131:-365.895,-29.7439,0 0/1:53:24,29:24:848:29:1027:-76.7876,0,-60.6851 0/1:50:27,23:27:948:23:822:-59.2515,0,-70.5831 0/1:35:23,12:23:797:12:428:-28.3228,0,-61.5099 0/1:127:50,77:50:1772:77:2721:-206.9,0,-121.532 0/1:12:8,4:8:273:4:144:-9.70126,0,-21.2878 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 1/1:61:0,61:0:0:61:2141:-192.683,-18.3628,0 0/1:50:20,30:20:691:30:1041:-78.9446,0,-47.4588 0/1:87:45,42:45:1571:42:1468:-106.222,0,-115.487 0/1:47:27,20:27:941:20:701:-49.2633,0,-70.8533 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 0/1:56:31,25:31:1038:25:867:-61.4871,0,-76.8629 0/1:27:11,16:11:381:16:564:-42.9625,0,-26.4928 1/1:16:0,16:0:0:16:560:-50.7287,-4.81648,0 1/1:24:0,24:0:0:24:847:-76.5487,-7.22472,0 chr03 26576826 . G A 2949.78 PASS AB=0.256757;ABP=535.432;AC=11;AF=0.261905;AN=42;AO=267;CIGAR=1X;DP=1823;DPB=1823;DPRA=1.55177;EPP=531.849;EPPR=3134.63;GTI=2;LEN=1;MEANALT=1;MQM=59.9288;MQMR=59.9974;NS=21;NUMALT=1;ODDS=8.14105;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9530;QR=55489;RO=1556;RPL=6;RPP=531.849;RPPR=3134.63;RPR=261;RUN=1;SAF=267;SAP=582.793;SAR=0;SRF=1556;SRP=3381.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:91,0:91:3248:0:0:0,-27.3937,-292.542 0/0:100:100,0:100:3584:0:0:0,-30.103,-322.767 0/1:64:46,18:46:1648:18:640:-38.6634,0,-129.343 0/0:113:113,0:113:4018:0:0:0,-34.0164,-361.809 0/0:193:192,1:192:6826:1:36:0,-54.5005,-610.818 0/1:94:61,33:61:2175:33:1180:-78.2107,0,-167.719 0/1:93:63,30:63:2240:30:1064:-68.0643,0,-173.868 0/1:73:55,18:55:1947:18:648:-36.6767,0,-153.53 0/1:149:129,20:129:4597:20:720:-20.2753,0,-369.041 0/1:11:10,1:10:356:1:36:-0.286945,0,-29.0699 0/0:4:4,0:4:135:0:0:0,-1.20412,-12.4825 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:97:97,0:97:3451:0:0:0,-29.1999,-310.804 0/1:81:54,27:54:1940:27:972:-63.4145,0,-150.493 0/1:237:182,55:182:6511:55:1953:-104.7,0,-514.73 0/1:49:30,19:30:1068:19:676:-46.4175,0,-81.6816 0/0:52:52,0:52:1852:0:0:0,-15.6536,-166.96 0/1:120:89,31:89:3175:31:1101:-63.2753,0,-249.851 0/1:65:51,14:51:1832:14:504:-26.1311,0,-145.594 0/0:74:74,0:74:2643:0:0:0,-22.2762,-238.116 0/0:40:40,0:40:1419:0:0:0,-12.0412,-128.007 chr03 26579930 . T C 24475.7 PASS AB=0.520097;ABP=5.89061;AC=31;AF=0.738095;AN=42;AO=1177;CIGAR=1X;DP=1575;DPB=1575;DPRA=0;EPP=2558.83;EPPR=862.913;GTI=0;LEN=1;MEANALT=1.04762;MQM=54.1886;MQMR=59.803;NS=21;NUMALT=1;ODDS=15.3759;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42166;QR=14161;RO=396;RPL=0;RPP=2558.83;RPPR=862.913;RPR=1177;RUN=1;SAF=1177;SAP=2558.83;SAR=0;SRF=396;SRP=862.913;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91:0:0:91:3257:-291.863,-27.3937,0 1/1:109:1,108:1:36:108:3856:-341.829,-29.214,0 0/1:61:25,36:25:896:36:1288:-97.7167,0,-62.5975 1/1:88:0,88:0:0:88:3152:-283.275,-26.4906,0 1/1:165:3,162:3:108:162:5820:-512.422,-39.5948,0 0/1:21:6,13:6:216:13:468:-36.0856,0,-13.7115 0/1:85:44,41:44:1568:41:1468:-106.018,0,-115.81 0/1:83:52,31:52:1856:31:1108:-74.7184,0,-142.205 0/1:79:30,49:30:1080:49:1752:-133.991,0,-73.7319 0/1:17:7,10:7:252:10:360:-27.5804,0,-17.9114 1/1:12:0,12:0:0:12:432:-39.117,-3.61236,0 1/1:37:0,37:0:0:37:1314:-117.995,-11.1381,0 1/1:65:0,65:0:0:65:2340:-210.329,-19.567,0 0/1:98:46,52:46:1620:52:1868:-137.493,0,-116.586 0/1:118:51,67:51:1836:67:2404:-179.876,0,-129.999 0/1:96:58,38:58:2088:38:1360:-93.6509,0,-159.289 1/1:46:0,46:0:0:46:1641:-147.878,-13.8474,0 0/1:102:53,49:53:1889:49:1756:-127.335,0,-139.076 0/1:61:20,41:20:716:41:1476:-114.675,0,-46.4049 1/1:91:0,91:0:0:91:3256:-291.305,-27.3937,0 1/1:50:0,50:0:0:50:1790:-160.733,-15.0515,0 chr03 26579987 . C T 68182 PASS AB=0.490909;ABP=4.23422;AC=31;AF=0.738095;AN=42;AO=2575;CIGAR=1X;DP=3453;DPB=3453;DPRA=0;EPP=5594.55;EPPR=1909.56;GTI=0;LEN=1;MEANALT=1;MQM=57.4695;MQMR=59.9134;NS=21;NUMALT=1;ODDS=22.5712;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90974;QR=30786;RO=878;RPL=1112;RPP=106.905;RPPR=23.0432;RPR=1463;RUN=1;SAF=1112;SAP=106.905;SAR=1463;SRF=394;SRP=23.0432;SRR=484;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:228:0,228:0:0:228:7973:-716.208,-68.6348,0 1/1:232:1,231:1:36:231:8192:-732.223,-66.2407,0 0/1:122:64,58:64:2275:58:2043:-147.287,0,-168.286 1/1:225:0,225:0:0:225:7980:-717.765,-67.7318,0 1/1:386:7,379:7:252:379:13452:-1186.06,-93.1686,0 0/1:122:75,47:75:2620:47:1659:-112.579,0,-199.318 0/1:180:90,90:90:3200:90:3205:-234.018,0,-234.023 0/1:162:78,84:78:2722:84:2979:-219.456,0,-196.324 0/1:183:93,90:93:3288:90:3206:-233.491,0,-241.051 0/1:32:16,16:16:568:16:576:-42.4958,0,-41.8189 1/1:16:0,16:0:0:16:576:-52.0848,-4.81648,0 1/1:69:0,69:0:0:69:2431:-218.744,-20.7711,0 1/1:134:0,134:0:0:134:4781:-429.92,-40.338,0 0/1:186:100,86:100:3502:86:2985:-212.033,0,-259.397 0/1:236:114,122:114:3985:122:4314:-316.343,0,-287.799 0/1:196:111,85:111:3919:85:3009:-211.937,0,-293.903 1/1:167:0,167:0:0:167:5924:-533.167,-50.272,0 0/1:169:81,88:81:2760:88:3067:-225.101,0,-197.725 0/1:117:46,71:46:1591:71:2512:-191.029,0,-108.255 1/1:165:0,165:0:0:165:5789:-519.888,-49.67,0 1/1:126:2,124:2:68:124:4321:-382.275,-31.4725,0 chr03 26580117 . G A 19414.8 PASS AB=0.553785;ABP=53.4646;AC=11;AF=0.261905;AN=42;AO=1121;CIGAR=1X;DP=4549;DPB=4549;DPRA=1.87918;EPP=2437.23;EPPR=7444.65;GTI=0;LEN=1;MEANALT=1.07143;MQM=53.4264;MQMR=59.8739;NS=21;NUMALT=1;ODDS=34.2628;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40165;QR=122482;RO=3427;RPL=1121;RPP=2437.23;RPPR=7444.65;RPR=0;RUN=1;SAF=0;SAP=2437.23;SAR=1121;SRF=0;SRP=7444.65;SRR=3427;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:197:197,0:197:7048:0:0:0,-59.3029,-634.382 0/0:133:133,0:133:4755:0:0:0,-40.037,-427.323 0/1:68:25,43:25:896:43:1540:-117.847,0,-60.4903 0/0:184:184,0:184:6592:0:0:0,-55.3895,-593.36 0/0:194:194,0:194:6928:0:0:0,-58.3998,-623.586 0/1:124:56,68:56:1988:68:2444:-181.648,0,-141.803 0/1:130:64,66:64:2283:66:2372:-173.508,0,-166.588 0/1:150:52,98:52:1868:98:3493:-268.713,0,-123.245 0/1:160:48,112:48:1708:112:4028:-313.966,0,-105.841 0/1:597:279,317:279:9988:317:11332:-832.651,0,-719.044 0/0:911:906,5:906:32348:5:180:0,-257.728,-2891.13 0/0:590:588,2:588:21026:2:72:0,-170.771,-1884.86 0/0:118:118,0:118:4224:0:0:0,-35.5215,-380.34 0/1:83:29,54:29:1036:54:1936:-147.491,0,-68.5684 0/1:109:39,70:39:1392:70:2516:-193.52,0,-92.7667 0/1:91:44,47:44:1576:47:1684:-124.409,0,-114.738 0/0:85:85,0:85:3036:0:0:0,-25.5875,-273.415 0/1:444:221,223:221:7892:223:7992:-582.392,0,-576.587 0/1:52:38,14:38:1334:14:504:-30.0116,0,-104.705 0/0:84:82,2:82:2948:2:72:0,-18.4595,-258.72 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.73 chr03 26580122 . T C 19193.3 PASS AB=0.550099;ABP=46.9611;AC=11;AF=0.261905;AN=42;AO=1116;CIGAR=1X;DP=4597;DPB=4597;DPRA=1.18533;EPP=2426.37;EPPR=7561.91;GTI=0;LEN=1;MEANALT=1;MQM=53.4785;MQMR=59.8477;NS=21;NUMALT=1;ODDS=32.4571;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39836;QR=124886;RO=3481;RPL=1116;RPP=2426.37;RPPR=7561.91;RPR=0;RUN=1;SAF=0;SAP=2426.37;SAR=1116;SRF=0;SRP=7561.91;SRR=3481;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:200:200,0:200:7169:0:0:0,-60.206,-644.892 0/0:132:132,0:132:4710:0:0:0,-39.736,-423.278 0/1:70:25,45:25:896:45:1597:-122.352,0,-59.8883 0/0:190:190,0:190:6817:0:0:0,-57.1957,-613.592 0/0:198:198,0:198:7096:0:0:0,-59.6039,-638.693 0/1:127:58,69:58:2088:69:2460:-182.359,0,-149.895 0/1:131:66,65:66:2376:65:2313:-168.102,0,-174.653 0/1:150:52,98:52:1868:98:3524:-271.351,0,-123.245 0/1:162:49,113:49:1764:113:4029:-313.46,0,-110.275 0/1:598:283,315:283:10153:315:11238:-824.151,0,-733.383 0/0:925:920,5:920:33017:5:180:0,-261.942,-2950.98 0/0:597:597,0:597:21414:0:0:0,-179.715,-1926.51 0/0:122:122,0:122:4376:0:0:0,-36.7257,-394.001 0/1:83:29,54:29:1044:54:1905:-145.083,0,-69.2893 0/1:109:37,72:37:1324:72:2584:-199.641,0,-86.6498 0/1:93:46,47:46:1637:47:1676:-123.088,0,-119.621 0/0:87:87,0:87:3128:0:0:0,-26.1896,-281.689 0/1:441:224,217:224:8060:217:7754:-562.373,0,-592.562 0/1:52:38,14:38:1360:14:504:-30.0116,0,-107.047 0/0:85:83,2:83:2969:2:72:0,-18.7605,-260.609 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 chr03 26601579 . A G 24916.5 PASS AB=0.493136;ABP=3.39782;AC=31;AF=0.738095;AN=42;AO=1217;CIGAR=1X;DP=1709;DPB=1709;DPRA=0;EPP=2628.35;EPPR=1043.3;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9918;MQMR=60;NS=21;NUMALT=1;ODDS=4.8716;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43390;QR=17544;RO=491;RPL=1215;RPP=2628.35;RPPR=1043.3;RPR=2;RUN=1;SAF=1217;SAP=2645.69;SAR=0;SRF=491;SRP=1069.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:122:6,116:6:216:116:4159:-354.701,-16.9351,0 1/1:43:1,42:1:36:42:1482:-130.075,-9.34602,0 0/1:58:33,25:33:1172:25:900:-63.8613,0,-88.3278 1/1:68:0,68:0:0:68:2419:-217.966,-20.47,0 1/1:164:2,161:2:72:161:5740:-509.914,-42.5178,0 0/1:65:43,22:43:1540:22:792:-52.0387,0,-119.326 0/1:196:93,103:93:3336:103:3676:-272.04,0,-241.455 0/1:87:38,49:38:1352:49:1747:-131.324,0,-95.7908 0/1:162:88,74:88:3164:74:2643:-189.349,0,-236.217 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:115:0,115:0:0:115:4111:-370.175,-34.6185,0 0/1:106:45,61:45:1600:61:2165:-163.206,0,-112.381 0/1:90:54,36:54:1917:36:1292:-89.4911,0,-145.713 0/1:41:23,18:23:819:18:631:-44.7735,0,-61.6893 1/1:44:0,44:0:0:44:1576:-142.131,-13.2453,0 0/1:82:40,42:40:1424:42:1487:-109.439,0,-103.773 0/1:56:22,34:22:788:34:1210:-92.3486,0,-54.3871 1/1:95:2,93:2:72:93:3327:-292.811,-21.7611,0 1/1:91:0,91:0:0:91:3209:-289.034,-27.3937,0 chr03 26601602 . A G 8054.09 PASS AB=0.50264;ABP=3.06762;AC=11;AF=0.261905;AN=42;AO=488;CIGAR=1X;DP=1721;DPB=1721;DPRA=1.5896;EPP=1036.79;EPPR=2678.26;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.998;MQMR=60;NS=21;NUMALT=1;ODDS=5.71149;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17339;QR=44052;RO=1232;RPL=485;RPP=1036.79;RPPR=2678.26;RPR=3;RUN=1;SAF=488;SAP=1062.69;SAR=0;SRF=1232;SRP=2678.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:117,7:117:4167:7:252:0,-14.2988,-352.185 0/0:43:42,1:42:1504:1:36:0,-9.34601,-132.056 0/1:60:25,35:25:892:35:1228:-92.7589,0,-62.5379 0/0:70:70,0:70:2504:0:0:0,-21.0721,-225.613 0/0:164:162,2:162:5792:2:72:0,-42.5322,-514.558 0/1:64:22,42:22:792:42:1492:-115.309,0,-52.3398 0/1:194:103,91:103:3655:91:3233:-232.792,0,-270.754 0/1:89:51,38:51:1832:38:1356:-95.5488,0,-138.369 0/1:164:76,88:76:2728:88:3140:-233.458,0,-196.394 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:117:117,0:117:4168:0:0:0,-35.2205,-375.302 0/1:102:59,43:59:2116:43:1540:-108.188,0,-160.004 0/1:92:37,54:37:1320:54:1903:-143.794,0,-91.3485 0/1:41:18,23:18:644:23:820:-61.7803,0,-45.9484 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 0/1:80:42,38:42:1512:38:1352:-97.898,0,-112.292 0/1:57:34,23:34:1220:23:811:-56.1513,0,-92.9481 0/0:97:95,2:95:3412:2:68:0,-22.7422,-300.836 0/0:93:93,0:93:3318:0:0:0,-27.9958,-298.838 chr03 26601751 . C G 22682.7 PASS AB=0.446328;ABP=25.1544;AC=31;AF=0.738095;AN=42;AO=1113;CIGAR=1X;DP=1612;DPB=1612;DPRA=0;EPP=2419.86;EPPR=1086.58;GTI=0;LEN=1;MEANALT=1;MQM=59.9865;MQMR=60;NS=21;NUMALT=1;ODDS=1.97763;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39761;QR=17796;RO=499;RPL=1113;RPP=2419.86;RPPR=1086.58;RPR=0;RUN=1;SAF=0;SAP=2419.86;SAR=1113;SRF=0;SRP=1086.58;SRR=499;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:1,52:1:36:52:1872:-165.161,-12.3563,0 1/1:54:0,54:0:0:54:1926:-173.617,-16.2556,0 0/1:107:64,43:64:2304:43:1540:-106.683,0,-175.41 1/1:113:0,113:0:0:113:4037:-363.515,-34.0164,0 1/1:199:5,194:5:180:194:6931:-607.303,-43.3529,0 0/1:49:23,26:23:828:26:936:-69.809,0,-60.0936 0/1:161:89,72:89:3143:72:2570:-183.083,0,-234.627 0/1:37:25,12:25:892:12:428:-27.7207,0,-69.4616 0/1:100:50,50:50:1800:50:1780:-130.38,0,-132.179 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 1/1:87:1,86:1:36:86:3065:-272.48,-22.5913,0 0/1:139:81,58:81:2863:58:2069:-144.637,0,-216.061 0/1:88:55,33:55:1980:33:1171:-79.2052,0,-151.984 0/1:62:37,25:37:1317:25:900:-62.6572,0,-100.166 1/1:54:0,54:0:0:54:1928:-173.797,-16.2556,0 0/1:78:45,33:45:1593:33:1175:-82.5766,0,-120.178 0/1:55:16,39:16:572:39:1391:-108.931,0,-35.2568 1/1:97:2,95:2:72:95:3390:-298.478,-22.3632,0 1/1:44:0,44:0:0:44:1572:-141.772,-13.2453,0 chr03 26718372 . CTT TTT,TTG 24096 PASS AB=0.529517,0.468694;ABP=7.24059,7.76889;AC=31,11;AF=0.738095,0.261905;AN=42;AO=865,265;CIGAR=1X2M,1X1M1X;DP=1135;DPB=1135;DPRA=0,1.25294;EPP=1881.33,578.45;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.80952,2.16667;MQM=59.9318,59.5208;MQMR=0;NS=21;NUMALT=2;ODDS=10.9118;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30848,9384;QR=0;RO=0;RPL=865,265;RPP=1881.33,578.45;RPPR=0;RPR=0,0;RUN=1,1;SAF=865,265;SAP=1881.33,578.45;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:0,84,0:0:0:84,0:3007,0:-270.521,-25.2865,0,-270.521,-25.2865,-270.521 1/1:67:0,67,0:0:0:67,0:2397,0:-215.985,-20.169,0,-215.985,-20.169,-215.985 1/2:50:0,28,22:0:0:28,22:1008,784:-146.51,-64.2607,-55.8318,-82.6075,0,-75.9849 1/1:47:0,47,0:0:0:47,0:1684,0:-151.847,-14.1484,0,-151.847,-14.1484,-151.847 1/1:151:0,147,3:0:0:147,3:5261,108:-473.284,-44.2514,0,-464.474,-35.3817,-463.571 1/2:31:0,13,18:0:0:13,18:468,620:-88.8771,-50.6841,-46.7707,-38.5463,0,-33.1277 1/2:67:0,40,27:0:0:40,27:1417,968:-194.706,-79.2788,-67.2376,-115.784,0,-107.656 1/2:25:0,12,13:0:0:12,13:428,468:-73.4346,-38.5463,-34.9339,-35.2464,0,-31.3331 1/2:101:0,58,42:0:0:58,42:2061,1506:-290.609,-122.936,-105.477,-167.776,0,-155.133 1/2:13:0,5,8:0:0:5,8:180,280:-37.8214,-23.1305,-21.6253,-15.0469,0,-12.6387 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:21:0,20,0:0:0:20,0:720,0:-64.8727,-6.0206,0,-64.8727,-6.0206,-64.8727 1/1:59:0,59,0:0:0:59,0:2077,0:-187.17,-17.7608,0,-187.17,-17.7608,-187.17 1/2:77:0,43,34:0:0:43,34:1522,1216:-223.478,-99.5086,-86.5643,-124.325,0,-114.09 1/2:101:0,43,58:0:0:43,58:1531,2003:-287.849,-163.063,-150.119,-125.137,0,-107.678 1/2:31:0,18,13:0:0:18,13:644,463:-90.6033,-38.0879,-32.6693,-52.8721,0,-48.9587 1/1:36:0,36,0:0:0:36,0:1283,0:-115.773,-10.8371,0,-115.773,-10.8371,-115.773 1/2:35:0,16,19:0:0:16,19:576,682:-102.976,-55.9764,-51.1599,-47.3585,0,-41.6389 1/2:28:0,20,8:0:0:20,8:711,286:-81.6068,-23.6684,-17.6478,-58.295,0,-55.8868 1/1:78:0,77,0:0:0:77,0:2721,0:-244.88,-23.1793,0,-244.88,-23.1793,-244.88 1/1:28:0,28,0:0:0:28,0:1008,0:-91.0364,-8.42884,0,-91.0364,-8.42884,-91.0364 chr03 26788035 . GATCA CATCG 44420.3 PASS AB=0.55283;ABP=28.7074;AC=32;AF=0.761905;AN=42;AO=1706;CIGAR=1X3M1X;DP=2211;DPB=2211;DPRA=0;EPP=385.251;EPPR=6.49889;GTI=0;LEN=5;MEANALT=1.61905;MQM=59.4179;MQMR=59.9611;NS=21;NUMALT=1;ODDS=38.1857;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59640;QR=16940;RO=488;RPL=1677;RPP=3459.93;RPPR=1054.02;RPR=29;RUN=1;SAF=554;SAP=458.185;SAR=1152;SRF=257;SRP=6.01832;SRR=231;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,76:0:0:76:2634:-236.744,-22.8783,0 1/1:65:0,64:0:0:64:2236:-201.232,-19.2659,0 0/1:33:18,15:18:637:15:540:-39.0025,0,-47.7243 1/1:97:1,91:1:35:91:3148:-279.778,-24.5323,0 1/1:106:2,104:2:67:104:3576:-315.656,-25.5463,0 0/1:92:49,42:49:1702:42:1455:-103.505,0,-125.827 0/1:117:61,56:61:2060:56:1964:-141.608,0,-150.446 0/1:81:48,33:48:1656:33:1153:-79.6898,0,-124.941 0/1:89:40,48:40:1345:48:1665:-123.417,0,-94.6264 1/1:154:11,140:11:382:140:4948:-410.747,-11.047,0 1/1:266:1,264:1:36:264:9216:-825.444,-76.5094,0 1/1:61:1,59:1:35:59:2094:-185.226,-14.918,0 1/1:106:0,106:0:0:106:3721:-335.064,-31.9092,0 0/1:60:35,25:35:1197:25:870:-60.538,0,-89.9679 0/1:127:67,60:67:2382:60:2109:-151.827,0,-176.408 0/1:42:17,25:17:602:25:861:-65.1559,0,-41.8673 1/1:38:0,38:0:0:38:1323:-119.199,-11.4391,0 0/1:274:89,184:89:3100:184:6406:-494.007,0,-196.75 0/1:145:47,98:47:1668:98:3497:-271.279,0,-106.758 1/1:55:1,53:1:36:53:1852:-163.318,-13.0172,0 1/1:126:0,125:0:0:125:4372:-393.249,-37.6288,0 chr03 26788059 . C T 9353.03 PASS AB=0.438356;ABP=36.7425;AC=10;AF=0.238095;AN=42;AO=465;CIGAR=1X;DP=2148;DPB=2148;DPRA=1.34083;EPP=4.69611;EPPR=459.787;GTI=0;LEN=1;MEANALT=1;MQM=59.9333;MQMR=59.4308;NS=21;NUMALT=1;ODDS=39.6476;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16120;QR=58759;RO=1683;RPL=465;RPP=1012.74;RPPR=3657.6;RPR=0;RUN=1;SAF=242;SAP=4.69611;SAR=223;SRF=544;SRP=459.787;SRR=1139;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:76,0:76:2613:0:0:0,-22.8783,-235.352 0/0:65:65,0:65:2234:0:0:0,-19.5669,-201.295 0/1:31:15,16:15:528:16:551:-40.5826,0,-38.5194 0/0:89:88,1:88:3053:1:36:0,-23.1934,-270.734 0/0:104:102,2:102:3509:2:63:0,-25.324,-309.994 0/1:90:40,50:40:1378:50:1783:-133.637,0,-97.0721 0/1:108:55,53:55:1889:53:1796:-129.406,0,-137.564 0/1:77:31,46:31:1088:46:1624:-123.27,0,-75.0499 0/1:85:48,37:48:1653:37:1265:-88.5577,0,-123.464 0/0:150:139,11:139:4937:11:380:0,-10.653,-409.846 0/0:263:262,1:262:9340:1:36:0,-75.5726,-836.109 0/0:60:59,1:59:2085:1:36:0,-14.4635,-184.319 0/0:102:102,0:102:3563:0:0:0,-30.7051,-320.867 0/1:59:25,34:25:872:34:1125:-83.7837,0,-61.0167 0/1:123:59,64:59:2043:64:2212:-162.316,0,-147.106 0/1:41:24,17:24:845:17:592:-41.2641,0,-64.0167 0/0:38:38,0:38:1314:0:0:0,-11.4391,-118.438 0/1:265:179,86:179:6293:86:2985:-189.111,0,-486.471 0/1:143:98,45:98:3444:45:1600:-101.243,0,-267.12 0/0:54:53,1:53:1801:1:36:0,-12.6573,-158.726 0/0:125:125,0:125:4277:0:0:0,-37.6287,-385.07 chr03 26796976 . G A 10367.5 PASS AB=0.456814;ABP=19.8903;AC=11;AF=0.261905;AN=42;AO=488;CIGAR=1X;DP=1965;DPB=1965;DPRA=1.53627;EPP=1062.69;EPPR=3208.1;GTI=0;LEN=1;MEANALT=1;MQM=59.6291;MQMR=59.9688;NS=21;NUMALT=1;ODDS=11.8798;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17251;QR=51646;RO=1476;RPL=236;RPP=4.14943;RPPR=21.4649;RPR=252;RUN=1;SAF=236;SAP=4.14943;SAR=252;SRF=682;SRP=21.4649;SRR=794;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:79:79,0:79:2771:0:0:0,-23.7814,-249.627 0/0:19:19,0:19:659:0:0:0,-5.71957,-59.6323 0/1:85:45,40:45:1575:40:1423:-102.774,0,-116.449 0/0:115:115,0:115:4037:0:0:0,-34.6184,-363.521 0/0:125:114,11:114:4058:11:392:0,-2.00869,-329.788 0/1:69:40,29:40:1404:29:1012:-70.6092,0,-105.883 0/1:134:77,57:77:2694:57:1998:-139.734,0,-202.329 0/1:82:46,36:46:1567:36:1256:-88.5104,0,-116.627 0/1:198:94,104:94:3278:104:3692:-272.878,0,-235.636 0/1:17:13,4:13:450:4:144:-8.19611,0,-35.7064 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:39:39,0:39:1353:0:0:0,-11.7402,-122.066 0/0:200:200,0:200:6993:0:0:0,-60.206,-629.443 0/1:126:56,70:56:1927:70:2467:-184.346,0,-135.772 0/1:64:33,31:33:1175:31:1096:-79.681,0,-86.791 0/1:32:23,9:23:816:9:324:-19.8729,0,-64.1288 0/0:25:25,0:25:845:0:0:0,-7.52575,-76.3571 0/1:109:53,56:53:1860:56:1983:-144.987,0,-134.867 0/1:126:86,40:86:3035:40:1428:-90.8821,0,-235.452 0/0:236:235,1:235:8245:1:36:0,-67.4448,-738.464 0/0:79:78,0:78:2692:0:0:0,-23.4803,-242.163 chr03 26796979 . T G 38187.6 PASS AB=0.54211;ABP=18.9211;AC=31;AF=0.738095;AN=42;AO=1462;CIGAR=1X;DP=1949;DPB=1949;DPRA=0;EPP=3177.7;EPPR=1056.17;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9788;MQMR=59.6804;NS=21;NUMALT=1;ODDS=11.9228;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51445;QR=17345;RO=485;RPL=677;RPP=20.3346;RPPR=4.30423;RPR=785;RUN=1;SAF=677;SAP=20.3346;SAR=785;SRF=234;SRP=4.30423;SRR=251;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77:0:0:77:2717:-244.772,-23.1793,0 1/1:19:0,19:0:0:19:665:-60.1728,-5.71957,0 0/1:83:40,43:40:1432:43:1501:-110.393,0,-104.145 1/1:114:0,114:0:0:114:4055:-365.139,-34.3174,0 1/1:125:11,113:11:396:113:3924:-317.374,-1.7048,0 0/1:70:28,42:28:995:42:1477:-112.15,0,-68.7837 0/1:135:59,75:59:2103:75:2612:-194.543,0,-148.815 0/1:81:35,46:35:1248:46:1623:-121.975,0,-88.1116 0/1:191:100,91:100:3565:91:3204:-231.085,0,-263.556 0/1:17:4,13:4:144:13:451:-35.7977,0,-8.19611 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:40:0,40:0:0:40:1409:-127.105,-12.0412,0 1/1:200:0,200:0:0:200:7057:-635.196,-60.206,0 0/1:126:70,56:70:2520:56:1964:-139.102,0,-189.115 0/1:62:30,32:30:1080:32:1129:-83.2525,0,-78.8461 0/1:32:9,23:9:324:23:824:-64.8504,0,-19.8729 1/1:24:0,24:0:0:24:826:-74.6516,-7.22472,0 0/1:110:56,54:56:1990:54:1905:-138.613,0,-145.266 0/1:126:41,85:41:1476:85:3002:-232.483,0,-95.1994 1/1:234:1,233:1:36:233:8190:-733.528,-66.8427,0 1/1:77:1,76:1:36:76:2698:-239.466,-19.581,0 chr03 26797029 . C A 3857.89 PASS AB=0.41791;ABP=38.3048;AC=12;AF=0.285714;AN=42;AO=253;CIGAR=1X;DP=1044;DPB=1044;DPRA=1.41131;EPP=552.393;EPPR=1716.3;GTI=1;LEN=1;MEANALT=1.15385;MQM=59.5534;MQMR=59.9632;NS=21;NUMALT=1;ODDS=1.92262;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9052;QR=28137;RO=789;RPL=253;RPP=552.393;RPPR=1716.3;RPR=0;RUN=1;SAF=0;SAP=552.393;SAR=253;SRF=0;SRP=1716.3;SRR=789;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:55,0:55:1980:0:0:0,-16.5566,-178.473 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:61:34,27:34:1208:27:972:-69.3878,0,-90.6633 0/0:68:68,0:68:2436:0:0:0,-20.47,-219.495 0/1:78:67,10:67:2404:10:360:-9.20517,0,-193.077 0/1:26:14,12:14:504:12:428:-31.0229,0,-37.8713 0/1:78:42,36:42:1496:36:1292:-93.0776,0,-111.454 0/1:26:16,10:16:576:10:348:-23.8284,0,-44.3482 0/1:108:47,61:47:1684:61:2188:-164.674,0,-119.336 0/1:15:11,3:11:388:3:108:-5.50131,0,-30.6842 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:123:123,0:123:4359:0:0:0,-37.0267,-392.397 0/1:62:32,30:32:1144:30:1068:-77.7622,0,-84.6057 0/1:23:12,11:12:428:11:396:-29.0567,0,-31.9351 0/1:15:9,6:9:324:6:216:-15.2751,0,-24.9904 0/0:10:10,0:10:337:0:0:0,-3.0103,-30.6547 0/1:49:21,28:21:752:28:1000:-74.9356,0,-53.2558 0/1:62:44,18:44:1548:18:640:-39.2598,0,-120.943 0/0:124:123,1:123:4381:1:36:0,-33.7294,-390.866 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 chr03 26807711 . 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C T 25576.8 PASS AB=0.620056;ABP=91.6481;AC=31;AF=0.738095;AN=42;AO=1210;CIGAR=1X;DP=1481;DPB=1481;DPRA=0;EPP=2621.81;EPPR=589.308;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9736;MQMR=60;NS=21;NUMALT=1;ODDS=5.56313;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43105;QR=9616;RO=270;RPL=0;RPP=2630.49;RPPR=589.308;RPR=1210;RUN=1;SAF=1;SAP=2621.81;SAR=1209;SRF=0;SRP=589.308;SRR=270;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:166:1,165:1:36:165:5886:-526.252,-46.3727,0 1/1:85:0,85:0:0:85:2995:-269.782,-25.5876,0 0/1:82:37,45:37:1300:45:1612:-120.685,0,-92.614 1/1:49:0,49:0:0:49:1756:-158.324,-14.7505,0 1/1:173:0,173:0:0:173:6178:-556.119,-52.0782,0 0/1:66:26,40:26:924:40:1412:-107.504,0,-63.6097 0/1:78:24,54:24:851:54:1928:-150.316,0,-53.4291 0/1:70:22,48:22:788:48:1716:-133.654,0,-50.1727 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/1:24:6,18:6:216:18:640:-50.7046,0,-12.5658 1/1:6:0,6:0:0:6:208:-19.0591,-1.80618,0 1/1:40:0,40:0:0:40:1432:-129.177,-12.0412,0 1/1:57:0,57:0:0:57:2025:-182.522,-17.1587,0 0/1:75:25,50:25:900:50:1771:-137.094,0,-58.7438 0/1:100:52,48:52:1837:48:1720:-124.983,0,-135.506 0/1:93:41,52:41:1476:52:1872:-140.763,0,-105.14 1/1:103:0,103:0:0:103:3652:-328.885,-31.0061,0 0/1:69:23,46:23:820:46:1652:-128.197,0,-53.3514 0/1:38:5,33:5:180:33:1158:-93.0859,0,-5.11292 1/1:63:0,62:0:0:62:2200:-197.899,-18.6639,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 chr03 27134507 . C T 7671.78 PASS AB=0.491979;ABP=3.53285;AC=11;AF=0.261905;AN=42;AO=461;CIGAR=1X;DP=1730;DPB=1730;DPRA=1.08522;EPP=1004.06;EPPR=2754.27;GTI=0;LEN=1;MEANALT=1.16667;MQM=60;MQMR=59.9684;NS=21;NUMALT=1;ODDS=11.717;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16477;QR=44903;RO=1267;RPL=0;RPP=1004.06;RPPR=2754.27;RPR=461;RUN=1;SAF=0;SAP=1004.06;SAR=461;SRF=0;SRP=2754.27;SRR=1267;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:165:165,0:165:5873:0:0:0,-49.6699,-528.68 0/0:68:68,0:68:2409:0:0:0,-20.47,-217.066 0/1:56:32,24:32:1122:24:855:-60.4125,0,-84.4205 0/0:47:47,0:47:1663:0:0:0,-14.1484,-149.957 0/0:179:179,0:179:6358:0:0:0,-53.8844,-572.316 0/1:58:33,25:33:1180:25:900:-63.8613,0,-89.0483 0/1:136:59,76:59:2090:76:2732:-205.123,0,-147.37 0/1:68:43,25:43:1517:25:892:-60.1296,0,-116.342 0/1:135:59,76:59:2073:76:2720:-204.404,0,-146.198 0/1:9:3,6:3:104:6:212:-16.7155,0,-6.85934 0/0:11:11,0:11:383:0:0:0,-3.31133,-34.8032 0/0:23:23,0:23:815:0:0:0,-6.92369,-73.6708 0/0:80:80,0:80:2860:0:0:0,-24.0824,-257.638 0/1:41:20,21:20:712:21:748:-55.3031,0,-52.0644 0/1:160:78,82:78:2764:82:2944:-217.029,0,-200.836 0/1:117:61,56:61:2169:56:1993:-144.422,0,-160.254 0/0:75:75,0:75:2649:0:0:0,-22.5772,-238.656 0/1:93:47,46:47:1655:46:1636:-119.533,0,-121.241 0/1:62:39,23:39:1380:23:809:-54.4644,0,-105.835 0/0:88:86,1:86:3045:1:36:0,-22.9512,-270.682 0/0:59:59,0:59:2082:0:0:0,-17.7608,-187.649 chr03 27134538 . A G 27930.2 PASS AB=0.516367;ABP=5.21387;AC=31;AF=0.738095;AN=42;AO=1306;CIGAR=1X;DP=1765;DPB=1765;DPRA=0;EPP=2693.22;EPPR=914.75;GTI=0;LEN=1;MEANALT=1;MQM=59.9648;MQMR=60;NS=21;NUMALT=1;ODDS=13.1699;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46632;QR=16456;RO=459;RPL=1289;RPP=2693.22;RPPR=914.75;RPR=17;RUN=1;SAF=0;SAP=2838.95;SAR=1306;SRF=0;SRP=999.716;SRR=459;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:169:0,169:0:0:169:6041:-543.793,-50.8741,0 1/1:73:0,73:0:0:73:2601:-234.337,-21.9752,0 0/1:57:24,33:24:864:33:1180:-89.3461,0,-60.9239 1/1:47:0,47:0:0:47:1671:-150.677,-14.1484,0 1/1:185:0,185:0:0:185:6610:-594.98,-55.6906,0 0/1:59:25,34:25:900:34:1220:-92.346,0,-63.5602 0/1:139:79,60:79:2836:60:2134:-150.483,0,-213.635 0/1:70:26,44:26:932:44:1568:-120.34,0,-63.1268 0/1:137:75,62:75:2692:62:2211:-158.013,0,-201.283 0/1:10:7,3:7:244:3:108:-6.93067,0,-19.2891 1/1:11:0,11:0:0:11:388:-35.2574,-3.31133,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 1/1:82:0,82:0:0:82:2936:-264.474,-24.6845,0 0/1:42:21,21:21:748:21:747:-54.911,0,-55.002 0/1:163:80,83:80:2868:83:2962:-217.731,0,-209.289 0/1:115:53,62:53:1896:62:2220:-165.446,0,-136.3 1/1:76:0,76:0:0:76:2696:-242.883,-22.8783,0 0/1:93:45,48:45:1620:48:1724:-127.45,0,-118.094 0/1:62:23,39:23:820:39:1384:-106.193,0,-55.4587 1/1:91:1,90:1:36:90:3232:-287.503,-23.7955,0 1/1:60:0,60:0:0:60:2139:-192.777,-18.0618,0 chr03 27134691 . A G 26194.6 PASS AB=0.491055;ABP=3.78721;AC=31;AF=0.738095;AN=42;AO=1325;CIGAR=1X;DP=1904;DPB=1904;DPRA=0;EPP=2880.21;EPPR=1258.12;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9502;MQMR=60;NS=21;NUMALT=1;ODDS=2.14219;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46593;QR=20738;RO=578;RPL=1325;RPP=2880.21;RPPR=1258.12;RPR=0;RUN=1;SAF=0;SAP=2880.21;SAR=1325;SRF=0;SRP=1258.12;SRR=578;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:3,70:3:108:70:2442:-209.958,-11.9,0 1/1:46:0,46:0:0:46:1621:-146.177,-13.8474,0 0/1:123:68,55:68:2436:55:1960:-139.649,0,-182.469 1/1:84:0,84:0:0:84:2956:-266.275,-25.2865,0 1/1:272:6,266:6:216:266:9324:-819.301,-62.0896,0 0/1:63:41,22:41:1476:22:775:-51.1063,0,-114.171 0/1:173:76,96:76:2736:96:3378:-252.102,0,-194.345 0/1:78:51,27:51:1828:27:959:-63.1451,0,-141.321 0/1:157:78,79:78:2791:79:2802:-205.158,0,-204.168 0/1:17:9,8:9:320:8:271:-19.6019,0,-24.0248 1/1:8:0,8:0:0:8:286:-26.0855,-2.40824,0 1/1:36:0,36:0:0:36:1259:-113.609,-10.8371,0 1/1:69:0,69:0:0:69:2433:-219.225,-20.7711,0 0/1:94:35,59:35:1260:59:2051:-156.562,0,-85.4087 0/1:210:112,98:112:4015:98:3451:-247.589,0,-298.321 0/1:62:26,36:26:932:36:1276:-96.4792,0,-65.535 1/1:82:0,82:0:0:82:2884:-259.797,-24.6845,0 0/1:86:50,36:50:1792:36:1257:-87.5414,0,-135.674 0/1:55:22,33:22:792:33:1167:-88.7798,0,-55.049 1/1:71:1,70:1:36:70:2463:-218.327,-17.7749,0 1/1:45:0,45:0:0:45:1578:-142.309,-13.5464,0 chr03 27184095 . GTAT TTAC,GTAC 26554.8 PASS AB=0.512129,0.487871;ABP=3.95849,3.95849;AC=31,11;AF=0.738095,0.261905;AN=42;AO=973,370;CIGAR=1X2M1X,3M1X;DP=1345;DPB=1345.5;DPRA=0,1.26509;EPP=2115.85,806.455;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.7619,2.07143;MQM=50.8047,58.7676;MQMR=0;NS=21;NUMALT=2;ODDS=9.21766;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=33152,13114;QR=0;RO=0;RPL=0,0;RPP=2115.85,806.455;RPPR=0;RPR=973,370;RUN=1,1;SAF=973,370;SAP=2115.85,806.455;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32,0:0:0:32,0:1114,0:-99.5757,-9.63296,0,-99.5757,-9.63296,-99.5757 1/1:59:0,59,0:0:0:59,0:2018,0:-179.494,-17.7608,0,-179.494,-17.7608,-179.494 1/2:48:0,24,24:0:0:24,24:785,856:-133.171,-70.0603,-62.8356,-63.3949,0,-56.1702 1/1:100:0,100,0:0:0:100,0:3360,0:-299.263,-30.103,0,-299.263,-30.103,-299.263 1/1:134:0,133,0:0:0:133,0:4457,0:-397.958,-40.037,0,-397.958,-40.037,-397.958 1/2:56:0,14,42:0:0:14,42:494,1480:-160.425,-120.823,-116.608,-39.9511,0,-27.3079 1/2:92:0,45,47:0:0:45,47:1531,1652:-256.057,-134.798,-121.252,-121.601,0,-107.452 1/2:68:0,39,29:0:0:39,29:1318,1019:-188.494,-83.194,-71.4539,-105.643,0,-96.9134 1/2:74:0,31,43:0:0:31,43:1057,1512:-208.387,-123.402,-114.07,-85.3286,0,-72.3843 1/2:7:0,3,4:0:0:3,4:106,140:-19.7594,-11.2948,-10.3917,-8.80755,0,-7.60343 1/1:9:0,9,0:0:0:9,0:303,0:-27.5392,-2.70927,0,-27.5392,-2.70927,-27.5392 1/1:17:0,17,0:0:0:17,0:602,0:-54.3149,-5.11751,0,-54.3149,-5.11751,-54.3149 1/1:92:0,89,3:0:0:89,3:3022,108:-268.856,-26.7917,0,-260.043,-17.6196,-259.14 1/2:83:0,40,43:0:0:40,43:1403,1532:-237.143,-125.161,-113.12,-112.332,0,-99.3876 1/2:77:0,40,37:0:0:40,37:1306,1316:-212.405,-107.506,-95.4647,-105.24,0,-94.1019 1/2:67:0,33,34:0:0:33,34:1120,1208:-187.793,-98.766,-88.8321,-89.3706,0,-79.1355 1/1:30:0,30,0:0:0:30,0:1026,0:-91.4454,-9.0309,0,-91.4454,-9.0309,-91.4454 1/2:74:0,51,23:0:0:51,23:1776,819:-209.198,-67.063,-51.7105,-142.487,0,-135.563 1/2:96:0,60,36:0:0:60,36:2081,1292:-270.739,-105.558,-87.4958,-165.533,0,-154.696 1/1:80:0,75,4:0:0:75,4:2548,144:-226.583,-22.5773,0,-214.84,-10.7716,-213.636 1/1:50:0,49,1:0:0:49,1:1725,36:-151.339,-14.7505,0,-148.406,-11.4583,-148.105 chr03 27196616 . C G 13355.3 PASS AB=0.47122;ABP=12.3845;AC=11;AF=0.261905;AN=42;AO=623;CIGAR=1X;DP=2467;DPB=2467;DPRA=1.41152;EPP=1347.17;EPPR=3996.35;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9647;MQMR=60;NS=21;NUMALT=1;ODDS=17.7662;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21809;QR=64844;RO=1839;RPL=338;RPP=12.8011;RPPR=17.5588;RPR=285;RUN=1;SAF=339;SAP=13.554;SAR=284;SRF=864;SRP=17.5588;SRR=975;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:133,0:133:4694:0:0:0,-40.037,-422.624 0/0:76:76,0:76:2705:0:0:0,-22.8783,-243.693 0/1:43:20,23:20:716:23:796:-59.0107,0,-51.8234 0/0:100:99,0:99:3473:0:0:0,-29.802,-312.424 0/0:241:235,6:235:8263:6:216:0,-52.7577,-723.9 0/1:113:55,58:55:1947:58:2047:-150.482,0,-141.489 0/1:160:83,77:83:2893:77:2688:-193.996,0,-212.439 0/1:121:54,67:54:1901:67:2360:-176.232,0,-134.939 0/1:193:90,103:90:3216:103:3588:-265.029,0,-231.564 0/1:23:15,8:15:531:8:288:-19.3437,0,-41.1982 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:55:55,0:55:1948:0:0:0,-16.5566,-175.593 0/0:189:188,0:188:6669:0:0:0,-56.5936,-599.931 0/1:98:49,49:49:1713:49:1713:-124.95,0,-124.95 0/1:120:65,54:65:2302:54:1900:-135.093,0,-171.256 0/1:69:27,42:27:944:42:1459:-110.829,0,-64.5003 0/0:39:39,0:39:1383:0:0:0,-11.7402,-124.768 0/1:159:93,65:93:3209:65:2271:-156.721,0,-241.108 0/1:204:136,68:136:4798:68:2384:-153.405,0,-370.57 0/0:174:171,3:171:6020:3:99:0,-43.1426,-532.673 0/0:145:144,0:144:5087:0:0:0,-43.3483,-457.656 chr03 27197269 . C A 33617.8 PASS AB=0.488409;ABP=4.4701;AC=31;AF=0.738095;AN=42;AO=1612;CIGAR=1X;DP=2255;DPB=2255;DPRA=0;EPP=3468.77;EPPR=1379.78;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.4622;MQMR=59.9564;NS=21;NUMALT=1;ODDS=8.75379;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57717;QR=22897;RO=642;RPL=4;RPP=3468.77;RPPR=1379.78;RPR=1608;RUN=1;SAF=1612;SAP=3503.42;SAR=0;SRF=642;SRP=1397.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:0,105:0:0:105:3756:-337.938,-31.6082,0 1/1:86:0,86:0:0:86:3092:-278.39,-25.8886,0 0/1:87:49,38:49:1751:38:1364:-96.8549,0,-131.684 1/1:145:0,145:0:0:145:5203:-468.369,-43.6494,0 1/1:246:1,245:1:36:245:8770:-785.522,-70.4551,0 0/1:110:56,54:56:1999:54:1940:-141.756,0,-147.07 0/1:150:87,63:87:3116:63:2254:-157.806,0,-235.512 0/1:112:48,64:48:1698:64:2289:-172.541,0,-119.379 0/1:206:107,99:107:3820:99:3510:-253.55,0,-281.984 0/1:18:5,13:5:180:13:468:-37.0411,0,-11.1335 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:54:0,53:0:0:53:1907:-171.539,-15.9546,0 1/1:142:1,141:1:36:141:5064:-452.247,-39.148,0 0/1:101:55,46:55:1945:46:1652:-118.564,0,-144.92 0/1:209:105,104:105:3764:104:3717:-271.787,0,-276.035 0/1:72:43,29:43:1528:29:1036:-71.1592,0,-116.139 1/1:81:0,81:0:0:81:2897:-260.904,-24.3834,0 0/1:104:57,47:57:2020:47:1669:-119.113,0,-150.766 0/1:82:28,54:28:1004:54:1940:-150.164,0,-65.9914 1/1:82:0,82:0:0:82:2940:-264.66,-24.6845,0 1/1:50:0,50:0:0:50:1785:-160.923,-15.0515,0 chr03 27197321 . ACG TCT,ACT 55656.5 PASS AB=0.550882,0.44844;ABP=36.1569,37.0467;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1989,669;CIGAR=1X1M1X,2M1X;DP=2660;DPB=2660;DPRA=0,1.01481;EPP=4107.65,1370.16;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.7619,2.07143;MQM=48.2398,59.2003;MQMR=0;NS=21;NUMALT=2;ODDS=30.8778;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69224,23580;QR=0;RO=0;RPL=1964,658;RPP=4107.65,1361.75;RPPR=0;RPR=25,11;RUN=1,1;SAF=0,1;SAP=4322.07,1447.05;SAR=1989,668;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,123,1:0:0:123,1:4286,36:-381.354,-37.0267,0,-378.416,-33.7294,-378.115 1/1:89:0,88,1:0:0:88,1:3075,36:-270.429,-26.4906,0,-267.492,-23.1934,-267.191 1/2:97:0,60,37:0:0:60,37:2075,1281:-271.783,-104.395,-86.3333,-167.733,0,-156.595 1/1:144:0,143,0:0:0:143,0:4948,0:-441.559,-43.0473,0,-441.559,-43.0473,-441.559 1/1:341:0,341,0:0:0:341,0:11852,0:-1059.28,-102.651,0,-1059.28,-102.651,-1059.28 1/2:125:0,69,56:0:0:69,56:2420,1989:-354.457,-162.313,-141.542,-192.493,0,-175.635 1/2:172:0,104,68:0:0:104,68:3633,2428:-488.92,-198.16,-166.852,-291.112,0,-270.642 1/2:211:0,102,109:0:0:102,109:3581,3856:-602.054,-314.075,-283.37,-288.329,0,-255.517 1/2:213:0,134,78:0:0:134,78:4665,2757:-602.185,-224.571,-184.233,-377.685,0,-354.204 1/2:13:0,5,8:0:0:5,8:178,283:-37.7675,-23.3634,-21.8582,-14.7575,0,-12.3493 1/1:39:0,39,0:0:0:39,0:1343,0:-118.671,-11.7402,0,-118.671,-11.7402,-118.671 1/1:43:0,43,0:0:0:43,0:1463,0:-131.116,-12.9443,0,-131.116,-12.9443,-131.116 1/1:167:0,167,0:0:0:167,0:5779,0:-515.2,-50.272,0,-515.2,-50.272,-515.2 1/2:143:0,73,70:0:0:73,70:2557,2461:-407.236,-200.528,-178.553,-207.058,0,-185.986 1/2:188:0,101,87:0:0:101,87:3512,3031:-529.711,-246.565,-216.161,-283.493,0,-257.303 1/2:99:0,55,44:0:0:55,44:1895,1513:-276.514,-123.131,-106.574,-153.726,0,-140.481 1/1:77:0,77,0:0:0:77,0:2710,0:-242.623,-23.1793,0,-242.623,-23.1793,-242.623 1/2:133:0,56,77:0:0:56,77:1897,2725:-372.554,-221.466,-204.609,-151.429,0,-128.25 1/2:80:0,53,27:0:0:53,27:1875,968:-230.426,-79.282,-63.3274,-151.499,0,-143.371 1/1:95:0,89,6:0:0:89,6:3131,216:-277.833,-26.7917,0,-260.23,-8.83011,-258.424 1/1:67:0,67,0:0:0:67,0:2349,0:-208.831,-20.169,0,-208.831,-20.169,-208.831 chr03 27276214 . C A 10054.3 PASS AB=0.431227;ABP=47.2147;AC=11;AF=0.261905;AN=42;AO=472;CIGAR=1X;DP=1967;DPB=1967;DPRA=2.18787;EPP=25.5531;EPPR=7.09034;GTI=0;LEN=1;MEANALT=1;MQM=59.8898;MQMR=59.8154;NS=21;NUMALT=1;ODDS=19.5382;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16879;QR=52881;RO=1495;RPL=0;RPP=1027.95;RPPR=3240.68;RPR=472;RUN=1;SAF=201;SAP=25.5531;SAR=271;SRF=722;SRP=6.78823;SRR=773;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:70,3:70:2449:3:108:0,-11.9024,-210.59 0/0:98:98,0:98:3487:0:0:0,-29.5009,-314.018 0/1:45:21,24:21:756:24:856:-63.8148,0,-54.8209 0/0:86:85,1:85:3008:1:36:0,-22.2903,-267.345 0/0:175:174,1:174:6167:1:36:0,-49.082,-551.519 0/1:91:59,32:59:2088:32:1148:-76.2361,0,-160.786 0/1:101:75,26:75:2620:26:924:-53.0736,0,-205.592 0/1:86:54,32:54:1896:32:1144:-77.3809,0,-144.999 0/1:193:83,110:83:2921:110:3913:-294.265,0,-205.026 0/1:15:9,6:9:316:6:216:-15.2751,0,-24.2591 0/0:12:12,0:12:424:0:0:0,-3.61236,-38.4964 0/0:19:19,0:19:667:0:0:0,-5.71957,-60.349 0/0:135:134,1:134:4750:1:36:0,-37.0408,-424.049 0/1:84:47,37:47:1680:37:1328:-94.5311,0,-126.198 0/1:113:52,61:52:1835:61:2196:-163.886,0,-131.411 0/1:56:28,28:28:976:28:1004:-73.8173,0,-71.2947 0/0:62:62,0:62:2173:0:0:0,-18.6639,-195.834 0/1:171:106,65:106:3762:65:2326:-158.106,0,-287.257 0/1:121:78,43:78:2768:43:1536:-102.103,0,-212.936 0/0:78:77,1:77:2748:1:36:0,-19.8821,-243.964 0/0:153:152,1:152:5390:1:36:0,-42.4593,-481.594 chr03 27276247 . T C 40707.5 PASS AB=0.578899;ABP=61.9469;AC=31;AF=0.738095;AN=42;AO=1531;CIGAR=1X;DP=1998;DPB=1998;DPRA=0;EPP=5.6328;EPPR=22.6558;GTI=0;LEN=1;MEANALT=1;MQM=59.8112;MQMR=59.8972;NS=21;NUMALT=1;ODDS=21.1537;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54408;QR=16695;RO=467;RPL=1528;RPP=3301.53;RPPR=1017.09;RPR=3;RUN=1;SAF=741;SAP=6.41572;SAR=790;SRF=201;SRP=22.6558;SRR=266;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:2,71:2:72:71:2543:-222.279,-15.1385,0 1/1:99:0,99:0:0:99:3540:-318.784,-29.802,0 0/1:48:24,24:24:856:24:864:-63.6331,0,-62.9117 1/1:86:2,84:2:72:84:3012:-264.467,-19.0519,0 1/1:179:1,178:1:36:178:6319:-565.203,-50.2861,0 0/1:87:29,58:29:1032:58:2084:-161.629,0,-67.0039 0/1:103:26,77:26:924:77:2698:-211.999,0,-52.4716 0/1:84:29,55:29:1040:55:1968:-152.109,0,-68.6278 0/1:198:110,88:110:3940:88:3105:-220.071,0,-295.187 0/1:15:6,9:6:216:9:324:-24.9797,0,-15.2751 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 1/1:20:0,20:0:0:20:720:-65.1022,-6.0206,0 1/1:139:1,138:1:36:138:4921:-439.436,-38.2449,0 0/1:84:36,48:36:1288:48:1687:-126.827,0,-90.9325 0/1:113:60,53:60:2156:53:1886:-135.998,0,-160.288 0/1:62:29,33:29:1036:33:1146:-84.7802,0,-74.8892 1/1:63:0,63:0:0:63:2235:-201.412,-18.9649,0 0/1:177:66,111:66:2351:111:3955:-302.813,0,-158.547 0/1:119:44,75:44:1568:75:2670:-204.723,0,-105.581 1/1:82:1,81:1:36:81:2895:-257.187,-21.0862,0 1/1:155:1,154:1:36:154:5408:-483.213,-43.0614,0 chr03 27277544 . TTACA CTACC,CTACA 22159.7 PASS AB=0.848684,0.151316;ABP=484.563,484.563;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1095,77;CIGAR=1X3M1X,1X4M;DP=1172;DPB=1172.2;DPRA=0,0.976006;EPP=2380.77,170.214;EPPR=0;GTI=7;LEN=5,1;MEANALT=1.47619,2;MQM=36.6584,46.5195;MQMR=0;NS=21;NUMALT=2;ODDS=2.56791;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=38683,2737;QR=0;RO=0;RPL=0,0;RPP=2380.77,170.214;RPPR=0;RPR=1095,77;RUN=1,1;SAF=1095,77;SAP=2380.77,170.214;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:0,109,0:0:0:109,0:3826,0:-324.919,-32.8123,0,-324.919,-32.8123,-324.919 1/1:100:0,100,0:0:0:100,0:3549,0:-287.249,-30.103,0,-287.249,-30.103,-287.249 1/2:31:0,28,3:0:0:28,3:1002,108:-85.813,-9.12945,-0.70061,-77.0399,0,-76.1368 1/1:26:0,26,0:0:0:26,0:926,0:-79.7991,-7.82678,0,-79.7991,-7.82678,-79.7991 1/1:99:0,99,0:0:0:99,0:3486,0:-294.557,-29.802,0,-294.557,-29.802,-294.557 1/2:47:0,39,8:0:0:39,8:1366,288:-122.972,-23.5697,-11.8295,-99.7515,0,-97.3433 1/2:63:0,52,11:0:0:52,11:1860,393:-166.085,-31.7662,-16.1126,-134.664,0,-131.353 1/2:35:0,31,4:0:0:31,4:1082,140:-83.962,-11.4376,-2.10567,-72.8605,0,-71.6564 1/1:95:0,87,8:0:0:87,8:3071,287:-266.016,-26.1896,0,-242.931,-2.75253,-240.523 1/1:14:0,14,0:0:0:14,0:499,0:-37.7236,-4.21442,0,-37.7236,-4.21442,-37.7236 1/1:5:0,5,0:0:0:5,0:180,0:-14.9323,-1.50515,0,-14.9323,-1.50515,-14.9323 1/1:29:0,29,0:0:0:29,0:1030,0:-77.593,-8.72987,0,-77.593,-8.72987,-77.593 1/1:44:0,44,0:0:0:44,0:1570,0:-134.592,-13.2453,0,-134.592,-13.2453,-134.592 1/2:56:0,48,8:0:0:48,8:1691,284:-152.036,-23.0002,-8.55073,-129.382,0,-126.973 1/2:86:0,71,15:0:0:71,15:2515,525:-233.86,-42.5334,-21.1603,-191.67,0,-187.155 1/2:46:0,40,6:0:0:40,6:1410,216:-126.729,-17.7118,-5.67055,-109.37,0,-107.564 1/1:97:0,97,0:0:0:97,0:3425,0:-295.872,-29.1999,0,-295.872,-29.1999,-295.872 1/2:60:0,51,9:0:0:51,9:1790,320:-145.33,-25.635,-10.2824,-120.033,0,-117.323 1/2:32:0,27,5:0:0:27,5:931,176:-86.626,-14.6182,-6.49038,-72.3551,0,-70.85 1/1:62:0,62,0:0:0:62,0:2194,0:-164.016,-18.6639,0,-164.016,-18.6639,-164.016 1/1:36:0,36,0:0:0:36,0:1280,0:-103.795,-10.8371,0,-103.795,-10.8371,-103.795 chr03 27312684 . C T 22713 PASS AB=0.583454;ABP=44.6906;AC=31;AF=0.738095;AN=42;AO=1101;CIGAR=1X;DP=1388;DPB=1388;DPRA=0;EPP=2393.8;EPPR=626.223;GTI=1;LEN=1;MEANALT=1;MQM=59.9319;MQMR=60;NS=21;NUMALT=1;ODDS=1.13458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38391;QR=10039;RO=287;RPL=7;RPP=2333.39;RPPR=583.55;RPR=1094;RUN=1;SAF=7;SAP=2333.39;SAR=1094;SRF=5;SRP=583.55;SRR=282;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,121:0:0:121:4183:-376.567,-36.4246,0 1/1:74:0,74:0:0:74:2570:-231.549,-22.2762,0 0/1:41:17,24:17:604:24:827:-62.4029,0,-42.3484 1/1:81:0,81:0:0:81:2865:-258.086,-24.3834,0 1/1:160:0,160:0:0:160:5638:-507.492,-48.1648,0 0/1:81:34,47:34:1216:47:1634:-122.962,0,-85.3631 0/1:103:47,56:47:1604:56:1992:-148.548,0,-113.637 0/1:51:23,28:23:815:28:962:-71.5367,0,-58.3182 0/1:95:40,55:40:1413:55:1914:-143.939,0,-98.8674 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:83:0,83:0:0:83:2886:-259.979,-24.9855,0 0/1:69:21,48:21:743:48:1659:-128.823,0,-46.4223 0/1:145:64,81:64:2240:81:2813:-209.764,0,-158.213 0/1:57:27,30:27:927:30:1019:-74.8551,0,-66.5796 1/1:79:0,79:0:0:79:2731:-246.033,-23.7814,0 0/1:21:6,15:6:197:15:517:-40.533,0,-11.7297 0/1:19:4,15:4:140:15:514:-40.864,0,-7.22501 1/1:51:0,51:0:0:51:1814:-163.542,-15.3525,0 1/1:35:0,35:0:0:35:1213:-109.472,-10.5361,0 chr03 27312709 . TGGGGTC TGGGTC 21924.8 PASS AB=0.551429;ABP=19.0916;AC=31;AF=0.738095;AN=42;AO=1043;CIGAR=1M1D5M;DP=1363;DPB=1212.43;DPRA=0;EPP=2072.49;EPPR=545.73;GTI=0;LEN=1;MEANALT=1.57143;MQM=59.9521;MQMR=60;NS=21;NUMALT=1;ODDS=0.260212;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36258;QR=10316;RO=307;RPL=1023;RPP=2097.47;RPPR=585.623;RPR=20;RUN=1;SAF=3;SAP=2241.87;SAR=1040;SRF=5;SRP=626.93;SRR=302;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:0,113:0:0:113:3904:-351.011,-34.0164,0 1/1:58:0,58:0:0:58:2038:-183.691,-17.4597,0 0/1:43:20,23:20:677:23:824:-61.539,0,-48.3029 1/1:83:0,81:0:0:81:2852:-256.621,-24.3834,0 1/1:155:0,153:0:0:153:5316:-478.253,-46.0576,0 0/1:75:36,39:36:1198:39:1353:-99.4887,0,-85.5418 0/1:104:49,54:49:1671:54:1854:-135.769,0,-119.31 0/1:53:26,27:26:844:27:922:-67.335,0,-60.3094 0/1:96:41,54:41:1398:54:1899:-142.23,0,-97.1574 0/1:7:4,3:4:138:3:104:-7.5956,0,-10.6526 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:11:0,11:0:0:11:383:-34.8032,-3.31133,0 1/1:81:0,81:0:0:81:2814:-253.504,-24.3834,0 0/1:72:25,47:25:819:47:1658:-127.832,0,-52.3414 0/1:146:65,77:65:2209:77:2676:-198.013,0,-156.004 0/1:59:28,31:28:939:31:1083:-80.0173,0,-67.0562 1/1:74:0,74:0:0:74:2563:-230.921,-22.2762,0 0/1:25:9,16:9:290:16:547:-42.0272,0,-18.8878 0/1:20:4,15:4:133:15:519:-40.9956,0,-6.25652 1/1:50:0,49:0:0:49:1703:-153.195,-14.7505,0 1/1:33:0,33:0:0:33:1106:-99.8387,-9.93399,0 chr03 27319032 . TGCAC TGCAT,CGCAT 33643 PASS AB=0.560624,0.430972;ABP=29.6024,37.4854;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1185,365;CIGAR=4M1X,1X3M1X;DP=1565;DPB=1565;DPRA=19.5125,1.44247;EPP=2456.04,795.598;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=2.25,2.53846;MQM=59.9899,59.6466;MQMR=60;NS=21;NUMALT=2;ODDS=11.2522;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42400,12888;QR=35;RO=1;RPL=1171,365;RPP=2456.04,795.598;RPPR=5.18177;RPR=14,0;RUN=1,1;SAF=1185,365;SAP=2576.21,795.598;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:146:1,145,0:1:35:145,0:5204,0:-464.999,-40.4518,0,-465.3,-43.6494,-468.147 1/1:69:0,69,0:0:0:69,0:2468,0:-222.374,-20.7711,0,-222.374,-20.7711,-222.374 1/2:51:0,27,24:0:0:27,24:972,840:-147.92,-68.6044,-60.4766,-79.6701,0,-72.4454 1/1:65:0,64,0:0:0:64,0:2283,0:-205.372,-19.2659,0,-205.372,-19.2659,-205.372 1/1:145:0,144,1:0:0:144,1:5160,36:-464.177,-43.3483,0,-461.24,-40.0511,-460.939 1/2:72:0,36,36:0:0:36,36:1296,1253:-207.982,-102.229,-91.3916,-106.107,0,-95.2698 1/2:111:0,71,39:0:0:71,39:2552,1373:-320.039,-111.836,-90.4626,-208.276,0,-196.536 1/2:79:0,49,29:0:0:49,29:1751,1035:-227.121,-84.3545,-69.6041,-142.773,0,-134.043 1/2:157:0,85,71:0:0:85,71:3032,2498:-450.567,-203.397,-177.809,-247.223,0,-225.85 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:15:0,14,0:0:0:14,0:500,0:-44.9765,-4.21442,0,-44.9765,-4.21442,-44.9765 1/1:115:0,112,1:0:0:112,1:3988,36:-358.824,-33.7154,0,-355.887,-30.738,-355.586 1/2:66:0,29,36:0:0:29,36:1040,1278:-189,-104.172,-95.4418,-84.9116,0,-74.0745 1/2:90:0,53,35:0:0:53,35:1886,1244:-255.118,-101.411,-85.4564,-153.745,0,-143.209 1/2:109:0,70,38:0:0:70,38:2488,1357:-313.463,-110.719,-89.6469,-202.828,0,-191.389 1/1:61:0,60,0:0:0:60,0:2148,0:-193.287,-18.0618,0,-193.287,-18.0618,-193.287 1/2:57:0,29,28:0:0:29,28:1040,995:-166.259,-81.4313,-72.7014,-85.1845,0,-76.7557 1/2:41:0,18,23:0:0:18,23:648,799:-118.181,-65.3016,-59.8831,-53.2333,0,-46.3097 1/1:73:0,71,0:0:0:71,0:2544,0:-228.895,-21.3731,0,-228.895,-21.3731,-228.895 1/1:35:0,35,0:0:0:35,0:1256,0:-113.345,-10.5361,0,-113.345,-10.5361,-113.345 chr03 27319161 . A C,T 32558.8 PASS AB=0.543056,0.456944;ABP=14.6035,14.6035;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1176,335;CIGAR=1X,1X;DP=1511;DPB=1511;DPRA=15.06,0.918999;EPP=2547.98,730.454;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.55,1.91667;MQM=60,59.994;MQMR=0;NS=21;NUMALT=2;ODDS=12.7872;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41900,12007;QR=0;RO=0;RPL=1,0;RPP=2547.98,730.454;RPPR=0;RPR=1175,335;RUN=1,1;SAF=0,0;SAP=2556.66,730.454;SAR=1176,335;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88,0:0:0:88,0:3121,0:-281.117,-26.4906,0,-281.117,-26.4906,-281.117 1/1:75:0,75,0:0:0:75,0:2684,0:-241.804,-22.5773,0,-241.804,-22.5773,-241.804 1/2:75:0,50,25:0:0:50,25:1775,900:-218.418,-73.7953,-58.7438,-144.981,0,-137.455 1/1:142:0,142,0:0:0:142,0:5065,0:-455.994,-42.7463,0,-455.994,-42.7463,-455.994 1/1:145:0,145,0:0:0:145,0:5175,0:-465.891,-43.6494,0,-465.891,-43.6494,-465.891 1/2:73:0,36,37:0:0:36,37:1292,1332:-214.432,-109.044,-98.2072,-105.747,0,-94.6086 1/2:103:0,60,43:0:0:60,43:2120,1527:-297.427,-124.777,-106.715,-173.005,0,-160.06 1/2:60:0,36,24:0:0:36,24:1280,864:-175.166,-70.8578,-60.0208,-104.666,0,-97.4414 1/2:146:0,79,67:0:0:79,67:2828,2412:-427.785,-197.167,-173.385,-230.978,0,-210.809 2/2:5:0,0,5:0:0:0,5:0,180:-16.5521,-16.5521,-16.5521,-1.50515,-1.50515,0 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:18:0,18,0:0:0:18,0:644,0:-58.2906,-5.41854,0,-58.2906,-5.41854,-58.2906 1/1:74:0,74,0:0:0:74,0:2629,0:-236.856,-22.2762,0,-236.856,-22.2762,-236.856 1/2:78:0,38,40:0:0:38,40:1364,1424:-227.679,-116.414,-104.975,-111.622,0,-99.5804 1/2:79:0,41,38:0:0:41,38:1444,1352:-228.098,-110.541,-98.1984,-117.911,0,-106.472 1/2:27:0,18,9:0:0:18,9:648,324:-79.6701,-26.7966,-21.378,-53.2333,0,-50.5241 1/1:85:0,85,0:0:0:85,0:3034,0:-273.289,-25.5876,0,-273.289,-25.5876,-273.289 1/2:44:0,10,34:0:0:10,34:360,1224:-129.606,-100.232,-97.2217,-29.734,0,-19.499 1/2:35:0,23,12:0:0:23,12:820,432:-102.449,-35.6088,-28.6851,-67.1988,0,-63.5865 1/1:107:0,106,1:0:0:106,1:3799,36:-341.747,-31.9092,0,-338.81,-28.6119,-338.509 1/1:47:0,47,0:0:0:47,0:1638,0:-147.704,-14.1484,0,-147.704,-14.1484,-147.704 chr03 27363323 . A C 4069.73 PASS AB=0.519305;ABP=4.68711;AC=11;AF=0.261905;AN=42;AO=270;CIGAR=1X;DP=966;DPB=966;DPRA=1.07035;EPP=589.308;EPPR=1512.18;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.2667;MQMR=59.8201;NS=21;NUMALT=1;ODDS=4.72841;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9163;QR=24253;RO=695;RPL=270;RPP=589.308;RPPR=1512.18;RPR=0;RUN=1;SAF=270;SAP=589.308;SAR=0;SRF=695;SRP=1512.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:36,0:36:1251:0:0:0,-10.8371,-112.891 0/0:33:33,0:33:1145:0:0:0,-9.93399,-103.353 0/1:53:27,25:27:928:25:870:-62.597,0,-67.8164 0/0:88:88,0:88:3101:0:0:0,-26.4906,-279.317 0/0:96:96,0:96:3372:0:0:0,-28.8989,-302.68 0/1:27:12,15:12:412:15:517:-38.6396,0,-29.2814 0/1:73:40,33:40:1383:33:1167:-83.3436,0,-102.788 0/1:32:14,18:14:481:18:594:-44.1292,0,-33.9821 0/1:62:27,35:27:951:35:1190:-88.7263,0,-66.218 0/1:8:5,3:5:176:3:78:-4.87005,0,-13.7768 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:13:13,0:13:460:0:0:0,-3.91339,-41.7354 0/0:58:58,0:58:2037:0:0:0,-17.4597,-183.595 0/1:73:28,45:28:978:45:1509:-113.988,0,-66.356 0/1:25:14,11:14:496:11:378:-26.823,0,-37.4485 0/1:32:11,21:11:392:21:700:-53.6751,0,-25.9871 0/0:23:23,0:23:808:0:0:0,-6.92369,-73.0401 0/1:74:31,43:31:1070:43:1450:-108.509,0,-74.3299 0/1:59:39,20:39:1340:20:678:-43.5514,0,-103.134 0/0:47:47,0:47:1676:0:0:0,-14.1484,-151.127 0/0:50:49,1:49:1652:1:32:0,-11.8522,-145.728 chr03 27372089 . A G 10250.1 PASS AB=0.533451;ABP=14.0512;AC=11;AF=0.261905;AN=42;AO=614;CIGAR=1X;DP=1793;DPB=1793;DPRA=1.48737;EPP=1336.29;EPPR=2563.18;GTI=1;LEN=1;MEANALT=1;MQM=59.9283;MQMR=60;NS=21;NUMALT=1;ODDS=4.56526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21849;QR=42053;RO=1179;RPL=0;RPP=1336.29;RPPR=2563.18;RPR=614;RUN=1;SAF=0;SAP=1336.29;SAR=614;SRF=0;SRP=2563.18;SRR=1179;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:63,1:63:2256:1:36:0,-15.6676,-199.705 0/0:68:68,0:68:2427:0:0:0,-20.47,-218.685 0/1:109:52,57:52:1864:57:2040:-151.06,0,-135.227 0/0:64:64,0:64:2279:0:0:0,-19.2659,-205.372 0/0:154:154,0:154:5480:0:0:0,-46.3586,-493.329 0/1:68:33,35:33:1184:35:1252:-92.515,0,-86.3983 0/1:128:66,62:66:2338:62:2171:-157.122,0,-172.147 0/1:86:27,59:27:964:59:2097:-163.109,0,-61.1882 0/1:210:82,128:82:2936:128:4559:-347.259,0,-201.258 0/1:8:3,5:3:104:5:176:-13.7768,0,-7.29457 0/0:10:10,0:10:347:0:0:0,-3.0103,-31.5636 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/0:80:78,2:78:2785:2:72:0,-17.2457,-244.052 0/1:130:64,66:64:2274:66:2330:-170.824,0,-165.787 0/1:182:94,88:94:3372:88:3141:-228.127,0,-248.908 0/1:41:14,27:14:500:27:972:-74.4333,0,-32.9939 0/0:52:51,1:51:1824:1:36:0,-12.0553,-160.843 0/1:98:49,49:49:1728:49:1752:-128.463,0,-126.304 0/1:76:46,30:46:1644:30:1071:-73.8233,0,-125.37 0/0:81:77,4:77:2744:4:144:0,-11.0698,-233.89 0/0:63:63,0:63:2251:0:0:0,-18.9649,-202.853 chr03 27435217 . G T 12826.5 PASS AB=0.514696;ABP=5.7547;AC=11;AF=0.261905;AN=42;AO=757;CIGAR=1X;DP=2316;DPB=2316;DPRA=1.63653;EPP=1638.14;EPPR=3370.99;GTI=1;LEN=1;MEANALT=1;MQM=59.9921;MQMR=60;NS=21;NUMALT=1;ODDS=8.36154;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27031;QR=55618;RO=1559;RPL=1;RPP=1638.14;RPPR=3370.99;RPR=756;RUN=1;SAF=757;SAP=1646.81;SAR=0;SRF=1559;SRP=3388.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:175:175,0:175:6211:0:0:0,-52.6802,-559.088 0/0:59:58,1:58:2080:1:36:0,-14.1625,-183.872 0/1:161:73,88:73:2597:88:3133:-233.73,0,-185.512 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.211 0/0:126:126,0:126:4505:0:0:0,-37.9298,-405.617 0/1:114:59,55:59:2109:55:1953:-141.726,0,-155.76 0/1:153:53,100:53:1876:100:3575:-275.9,0,-123.059 0/1:110:63,47:63:2256:47:1692:-119.454,0,-170.19 0/1:337:132,205:132:4717:205:7314:-556.863,0,-323.241 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:30:30,0:30:1050:0:0:0,-9.0309,-94.8063 0/0:156:154,2:154:5486:2:72:0,-40.124,-487.03 0/1:83:45,38:45:1593:38:1368:-98.4353,0,-118.673 0/1:265:152,113:152:5425:113:4013:-281.585,0,-408.607 0/1:75:42,33:42:1504:33:1184:-84.2911,0,-113.077 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.738 0/1:91:39,52:39:1392:52:1872:-141.365,0,-98.1853 0/1:69:48,21:48:1716:21:747:-46.7832,0,-133.955 0/0:96:95,1:95:3396:1:36:0,-25.3006,-302.257 0/0:69:69,0:69:2465:0:0:0,-20.7711,-222.102 chr03 27561120 . C T 45793.9 PASS AB=0.580055;ABP=63.8532;AC=31;AF=0.738095;AN=42;AO=2144;CIGAR=1X;DP=2707;DPB=2707;DPRA=1.34536;EPP=4658.65;EPPR=1223.38;GTI=0;LEN=1;MEANALT=1.05;MQM=51.4963;MQMR=59.4751;NS=21;NUMALT=1;ODDS=26.4333;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76859;QR=20125;RO=562;RPL=0;RPP=4658.65;RPPR=1223.38;RPR=2144;RUN=1;SAF=0;SAP=4658.65;SAR=2144;SRF=0;SRP=1223.38;SRR=562;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:204:0,204:0:0:204:7340:-657.268,-61.4101,0 1/1:149:1,148:1:36:148:5301:-471.805,-41.2552,0 0/1:88:41,47:41:1472:47:1688:-125.109,0,-106.269 0/1:140:63,77:63:2255:77:2742:-204.085,0,-161.025 1/1:252:2,250:2:72:250:8984:-798.702,-69.0228,0 0/1:136:38,98:38:1353:98:3514:-273.953,0,-81.1119 0/1:247:112,135:112:4020:135:4830:-358.386,0,-287.585 0/0:97:97,0:97:3480:0:0:0,-29.1999,-312.438 0/1:187:78,109:78:2784:109:3888:-292.658,0,-194.389 0/1:25:11,14:11:396:14:504:-38.0575,0,-28.4406 1/1:12:0,12:0:0:12:432:-38.681,-3.61236,0 1/1:36:0,36:0:0:36:1281:-114.866,-10.8371,0 1/1:133:0,133:0:0:133:4780:-428.783,-40.037,0 0/1:92:40,52:40:1436:52:1868:-139.764,0,-101.835 1/1:204:1,203:1:36:203:7274:-647.898,-57.8118,0 1/1:155:1,154:1:36:154:5523:-492.072,-43.0614,0 1/1:235:1,233:1:36:233:8323:-742.808,-67.2021,0 0/1:91:46,45:46:1633:45:1615:-117.287,0,-119.847 0/1:87:30,57:30:1080:57:2052:-158.262,0,-71.3236 1/1:83:0,83:0:0:83:2984:-267.459,-24.9855,0 1/1:54:0,54:0:0:54:1936:-172.806,-16.2556,0 chr03 27564002 . CCC CCT,TCT 80186.8 PASS AB=0.362416,0.630262;ABP=272.491,244.574;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1907,1339;CIGAR=2M1X,1X1M1X;DP=3268;DPB=3268;DPRA=0.517361,1.57164;EPP=4144.01,2910.61;EPPR=16.0391;GTI=2;LEN=1,3;MEANALT=2.45,2.73333;MQM=58.7583,59.3196;MQMR=60;NS=21;NUMALT=2;ODDS=1.16258;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67781,45912;QR=201;RO=6;RPL=1703,809;RPP=2561.64,129.246;RPPR=3.0103;RPR=204,530;RUN=1,1;SAF=1703,809;SAP=2561.64,129.246;SAR=204,530;SRF=3;SRP=3.0103;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:222:0,217,4:0:0:217,4:7738,144:-696.036,-65.3235,0,-684.286,-53.5738,-683.082 1/1:121:0,121,0:0:0:121,0:4323,0:-389.246,-36.4246,0,-389.246,-36.4246,-389.246 1/2:159:0,54,104:0:0:54,104:1914,3568:-445.663,-289.734,-273.478,-155.998,0,-124.691 1/2:162:1,26,132:1:36:26,132:927,4424:-430.43,-355.163,-350.274,-72.6754,0,-35.8772 1/1:223:0,215,7:0:0:215,7:7635,244:-686.837,-64.7215,0,-666.994,-44.8882,-664.886 1/2:174:0,56,117:0:0:56,117:1996,3969:-484.483,-321.778,-304.92,-162.775,0,-127.555 1/2:267:0,93,173:0:0:93,173:3311,5949:-752.744,-482.885,-454.889,-269.999,0,-217.921 2/2:288:0,0,288:0:0:0,288:0,9977:-897.858,-897.858,-897.858,-86.6966,-86.6966,0 1/2:326:0,147,177:0:0:147,177:5245,6060:-918.347,-491.899,-447.648,-426.511,0,-373.229 1/2:26:0,14,12:0:0:14,12:495,413:-74.2006,-33.8803,-29.6659,-40.6686,0,-37.0563 1/1:4:0,4,0:0:0:4,0:129,0:-11.9277,-1.20412,0,-11.9277,-1.20412,-11.9277 1/1:30:0,30,0:0:0:30,0:1080,0:-97.5132,-9.0309,0,-97.5132,-9.0309,-97.5132 1/1:74:0,72,2:0:0:72,2:2559,72:-230.198,-21.6742,0,-224.324,-15.4395,-223.721 1/2:201:0,59,141:0:0:59,141:2093,4759:-556.106,-385.605,-367.845,-170.491,0,-128.045 1/1:178:1,176,0:1:36:176,0:6205,0:-554.993,-49.9989,0,-555.294,-52.9813,-558.231 1/1:173:0,172,0:0:0:172,0:6152,0:-551.253,-51.7772,0,-551.253,-51.7772,-551.253 1/1:157:4,152,0:4:129:152,0:5406,0:-472.959,-35.2975,0,-474.163,-45.7566,-484.564 1/2:233:0,98,133:0:0:98,133:3453,4614:-656.163,-375.031,-345.53,-281.176,0,-241.139 1/2:91:0,47,44:0:0:47,44:1662,1544:-261.372,-126.007,-111.859,-135.718,0,-122.472 1/1:115:0,112,3:0:0:112,3:3958,106:-356.062,-33.7154,0,-347.474,-24.7758,-346.571 1/1:44:0,42,2:0:0:42,2:1500,69:-134.949,-12.6433,0,-129.344,-6.69278,-128.742 chr03 27564016 . A T 43100.2 PASS AB=0.370536;ABP=231.286;AC=31;AF=0.738095;AN=42;AO=1887;CIGAR=1X;DP=3150;DPB=3150;DPRA=0.546591;EPP=4040;EPPR=2719.58;GTI=2;LEN=1;MEANALT=1;MQM=58.8426;MQMR=59.3112;NS=21;NUMALT=1;ODDS=4.57158;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66912;QR=44957;RO=1263;RPL=1700;RPP=2637.28;RPPR=116.568;RPR=187;RUN=1;SAF=1693;SAP=2588.76;SAR=194;SRF=757;SRP=111.328;SRR=506;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:212:0,212:0:0:212:7509:-675.861,-63.8184,0 1/1:119:0,119:0:0:119:4216:-379.623,-35.8226,0 0/1:156:102,54:102:3635:54:1932:-127.193,0,-280.35 0/1:152:126,26:126:4452:26:932:-38.44,0,-354.779 1/1:222:6,216:6:216:216:7696:-672.887,-47.0381,0 0/1:162:108,54:108:3829:54:1902:-122.69,0,-295.698 0/1:260:167,93:167:5971:93:3263:-215.621,0,-458.054 0/0:264:264,0:264:9395:0:0:0,-79.4719,-845.351 0/1:311:167,144:167:5934:144:5102:-364.917,0,-440.405 0/1:23:10,13:10:356:13:464:-35.1738,0,-25.4576 1/1:4:0,4:0:0:4:134:-12.3908,-1.20412,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 1/1:73:2,71:2:72:71:2537:-221.726,-15.1385,0 0/1:194:137,57:137:4873:57:2010:-122.765,0,-379.679 1/1:183:0,183:0:0:183:6483:-583.56,-55.0885,0 1/1:169:0,169:0:0:169:5988:-537.306,-50.8741,0 1/1:151:0,151:0:0:151:5366:-481.167,-45.4555,0 0/1:225:129,96:129:4620:96:3413:-239.652,0,-348.186 0/1:85:41,44:41:1464:44:1528:-112.221,0,-106.469 1/1:111:2,109:2:72:109:3883:-342.829,-26.5776,0 1/1:45:2,43:2:68:43:1510:-129.734,-7.08864,0 chr03 27599245 . C T 59439.1 PASS AB=0.497969;ABP=3.07205;AC=31;AF=0.738095;AN=42;AO=2804;CIGAR=1X;DP=3854;DPB=3854;DPRA=1.02654;EPP=6091.82;EPPR=2263.55;GTI=0;LEN=1;MEANALT=1;MQM=59.8855;MQMR=59.939;NS=21;NUMALT=1;ODDS=23.4694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=100338;QR=37468;RO=1049;RPL=0;RPP=6091.82;RPPR=2263.55;RPR=2804;RUN=1;SAF=2804;SAP=6091.82;SAR=0;SRF=1049;SRP=2280.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:192:1,191:1:36:191:6864:-614.194,-54.1995,0 1/1:173:0,173:0:0:173:6184:-556.338,-52.0782,0 0/1:151:86,65:86:3057:65:2332:-164.684,0,-229.903 0/1:339:141,198:141:5056:198:7071:-534.391,0,-353.135 1/1:340:1,339:1:36:339:12109:-1085.89,-98.7519,0 0/1:176:104,72:104:3716:72:2577:-179.152,0,-281.661 0/1:293:169,124:169:6043:124:4448:-312.273,0,-455.666 0/0:179:178,0:178:6356:0:0:0,-53.5833,-571.638 0/1:333:155,178:155:5548:178:6387:-474.643,0,-399.145 0/1:33:14,19:14:500:19:680:-51.5952,0,-35.4022 1/1:28:0,28:0:0:28:1000:-90.315,-8.42884,0 1/1:52:0,52:0:0:52:1864:-168.039,-15.6536,0 1/1:246:1,245:1:36:245:8757:-783.887,-70.4551,0 0/1:250:136,114:136:4833:114:4092:-292.835,0,-359.869 1/1:278:2,276:2:72:276:9852:-879.787,-76.8496,0 1/1:214:0,214:0:0:214:7665:-689.87,-64.4204,0 1/1:198:0,198:0:0:198:7074:-636.713,-59.6039,0 0/1:84:36,48:36:1287:48:1716:-129.436,0,-90.8463 0/1:64:24,40:24:856:40:1440:-110.631,0,-58.0952 1/1:175:1,174:1:36:174:6218:-556.08,-49.082,0 1/1:56:0,56:0:0:56:2008:-180.993,-16.8577,0 chr03 27599257 . T A 59457.9 PASS AB=0.501767;ABP=3.05634;AC=31;AF=0.738095;AN=42;AO=2809;CIGAR=1X;DP=3837;DPB=3837;DPRA=1.04629;EPP=6093.99;EPPR=2181.3;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8782;MQMR=59.9348;NS=21;NUMALT=1;ODDS=25.5476;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=100240;QR=36648;RO=1027;RPL=1;RPP=6093.99;RPPR=2181.3;RPR=2808;RUN=1;SAF=2809;SAP=6102.68;SAR=0;SRF=1027;SRP=2233.11;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:191:1,189:1:36:189:6758:-604.691,-53.9573,0 1/1:169:0,169:0:0:169:6026:-542.384,-50.8741,0 0/1:149:85,64:85:3020:64:2284:-160.968,0,-227.176 0/1:340:144,196:144:5142:196:7006:-528.246,0,-360.571 1/1:347:1,346:1:36:346:12345:-1107.16,-100.859,0 0/1:168:98,70:98:3495:70:2489:-173.686,0,-264.188 0/1:287:163,124:163:5814:124:4401:-309.834,0,-436.933 0/0:175:175,0:175:6215:0:0:0,-52.6802,-559.448 0/1:333:153,180:153:5483:180:6433:-478.794,0,-393.223 0/1:32:13,19:13:460:19:680:-51.8962,0,-32.1024 1/1:28:0,28:0:0:28:989:-89.3216,-8.42884,0 1/1:50:0,50:0:0:50:1792:-161.562,-15.0515,0 1/1:250:1,249:1:36:249:8913:-797.913,-71.6592,0 0/1:247:134,113:134:4795:113:4026:-287.944,0,-357.124 1/1:279:2,277:2:72:277:9860:-880.511,-77.1506,0 1/1:219:0,219:0:0:219:7806:-702.558,-65.9256,0 1/1:199:0,199:0:0:199:7116:-640.494,-59.905,0 0/1:80:34,46:34:1216:46:1635:-123.35,0,-85.6642 0/1:62:22,40:22:792:40:1436:-110.873,0,-52.9418 1/1:175:1,174:1:36:174:6193:-553.864,-49.082,0 1/1:57:0,57:0:0:57:2052:-184.951,-17.1587,0 chr03 27599260 . G T 19818.3 PASS AB=0.504075;ABP=3.25803;AC=11;AF=0.261905;AN=42;AO=1051;CIGAR=1X;DP=3841;DPB=3841;DPRA=1.71917;EPP=2089.82;EPPR=5824.83;GTI=0;LEN=1;MEANALT=1;MQM=59.9172;MQMR=59.8938;NS=21;NUMALT=1;ODDS=21.3844;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37627;QR=99740;RO=2788;RPL=22;RPP=2098.14;RPPR=5833.35;RPR=1029;RUN=1;SAF=1050;SAP=2276.55;SAR=1;SRF=2787;SRP=6048.39;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:189:188,1:188:6756:1:36:0,-53.2964,-604.439 0/0:174:172,0:172:6176:0:0:0,-51.7772,-555.265 0/1:151:66,85:66:2347:85:3060:-230.172,0,-166.033 0/1:341:195,146:195:6958:146:5231:-368.275,0,-523.631 0/0:336:335,1:335:11984:1:36:0,-97.5478,-1074.68 0/1:174:71,103:71:2533:103:3671:-278.214,0,-175.796 0/1:295:126,169:126:4508:169:6058:-456.411,0,-317.049 1/1:179:0,179:0:0:179:6402:-576.246,-53.8844,0 0/1:333:178,155:178:6361:155:5549:-399.162,0,-472.29 0/1:32:18,14:18:648:14:500:-35.7032,0,-49.0189 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1985 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/0:248:247,1:247:8780:1:36:0,-71.0572,-785.955 0/1:245:111,134:111:3976:134:4789:-357.307,0,-284.276 0/0:273:271,2:271:9693:2:72:0,-75.3445,-865.48 0/0:218:218,0:218:7794:0:0:0,-65.6245,-701.452 0/0:199:199,0:199:7126:0:0:0,-59.905,-641.389 0/1:83:47,36:47:1684:36:1287:-91.1473,0,-126.856 0/1:64:40,24:40:1440:24:864:-58.8166,0,-110.631 0/0:173:172,1:172:6172:1:36:0,-48.4799,-551.941 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.353 chr03 27599295 . C T 129748 PASS AB=0.51205;ABP=6.41203;AC=31;AF=0.738095;AN=42;AO=4779;CIGAR=1X;DP=6432;DPB=6432;DPRA=0;EPP=10285.2;EPPR=3525.4;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9142;MQMR=59.9764;NS=21;NUMALT=1;ODDS=50.4617;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=170055;QR=58242;RO=1650;RPL=2725;RPP=207.59;RPPR=173.57;RPR=2054;RUN=1;SAF=2714;SAP=194.395;SAR=2065;SRF=998;SRP=160.562;SRR=652;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:392:1,391:1:36:391:13908:-1247.83,-114.405,0 1/1:296:0,296:0:0:296:10487:-943.757,-89.1049,0 0/1:212:114,97:114:4016:97:3476:-249.156,0,-297.753 0/1:453:184,269:184:6478:269:9566:-724.527,0,-446.744 1/1:618:1,617:1:32:617:21958:-1972.37,-182.837,0 0/1:263:148,115:148:5265:115:4112:-291.095,0,-394.817 0/1:474:260,214:260:9133:214:7571:-538.689,0,-679.265 0/0:323:322,1:322:11373:1:36:0,-93.6344,-1019.74 0/1:566:263,303:263:9336:303:10846:-805.476,0,-669.826 0/1:52:26,26:26:928:26:936:-68.9059,0,-68.1847 1/1:48:0,48:0:0:48:1711:-154.275,-14.4494,0 1/1:104:0,104:0:0:104:3719:-334.911,-31.3071,0 1/1:360:2,358:2:72:358:12702:-1135.54,-101.534,0 0/1:384:198,185:198:6942:185:6587:-477.257,0,-509.2 1/1:513:2,510:2:72:510:18170:-1628.03,-147.65,0 1/1:307:0,307:0:0:307:10894:-980.33,-92.4162,0 1/1:316:4,312:4:144:312:11112:-986.646,-81.8119,0 0/1:153:74,79:74:2609:79:2811:-207.171,0,-188.998 0/1:140:47,93:47:1662:93:3316:-256.514,0,-107.722 1/1:341:4,337:4:144:337:11978:-1064.51,-89.3376,0 1/1:117:0,117:0:0:117:4159:-374.495,-35.2205,0 chr03 27599303 . C G 45041.3 PASS AB=0.53389;ABP=13.7548;AC=31;AF=0.738095;AN=42;AO=2106;CIGAR=1X;DP=2767;DPB=2767;DPRA=0;EPP=4576.13;EPPR=1427.51;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9079;MQMR=59.9879;NS=21;NUMALT=1;ODDS=29.7187;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75236;QR=23529;RO=660;RPL=2106;RPP=4576.13;RPPR=1427.51;RPR=0;RUN=1;SAF=0;SAP=4576.13;SAR=2106;SRF=0;SRP=1436.18;SRR=660;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:212:0,212:0:0:212:7565:-680.884,-63.8184,0 1/1:134:0,134:0:0:134:4800:-432.155,-40.338,0 0/1:69:31,38:31:1112:38:1347:-100.74,0,-79.6203 0/1:135:53,81:53:1887:81:2892:-219.817,0,-129.41 1/1:295:0,295:0:0:295:10526:-947.237,-88.8039,0 0/1:104:56,48:56:2012:48:1715:-123.328,0,-150.046 0/1:192:96,96:96:3417:96:3412:-249.45,0,-249.946 0/0:152:151,1:151:5397:1:36:0,-42.1583,-482.262 0/1:251:115,136:115:4072:136:4852:-361.214,0,-291.097 0/1:23:14,9:14:504:9:324:-22.5822,0,-38.7744 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:50:0,50:0:0:50:1764:-159.041,-15.0515,0 1/1:119:1,118:1:36:118:4244:-378.538,-32.2243,0 0/1:147:70,77:70:2484:77:2756:-204.03,0,-179.56 1/1:239:0,239:0:0:239:8571:-771.355,-71.9462,0 1/1:97:0,97:0:0:97:3460:-311.587,-29.1999,0 1/1:127:4,123:4:144:123:4383:-381.324,-24.9172,0 0/1:76:40,36:40:1428:36:1279:-92.5342,0,-105.939 0/1:80:26,54:26:928:54:1936:-150.433,0,-59.7559 1/1:180:3,177:3:108:177:6326:-559.343,-44.1102,0 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 chr03 27651856 . 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G A 4929.01 PASS AB=0.472549;ABP=6.34841;AC=9;AF=0.214286;AN=42;AO=290;CIGAR=1X;DP=1228;DPB=1228;DPRA=1.35781;EPP=615.485;EPPR=2039.85;GTI=0;LEN=1;MEANALT=1;MQM=59.9828;MQMR=59.9861;NS=21;NUMALT=1;ODDS=4.47561;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10171;QR=33595;RO=938;RPL=2;RPP=615.485;RPPR=2039.85;RPR=288;RUN=1;SAF=290;SAP=632.737;SAR=0;SRF=938;SRP=2039.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.701 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/1:57:28,29:28:1004:29:1006:-73.6879,0,-73.5172 0/1:35:21,14:21:756:14:500:-34.7976,0,-57.8312 0/0:109:109,0:109:3911:0:0:0,-32.8123,-352.182 0/1:50:28,22:28:984:22:777:-55.1989,0,-73.8192 0/1:67:34,33:34:1220:33:1161:-84.6257,0,-89.9378 1/1:49:0,49:0:0:49:1722:-155.261,-14.7505,0 0/1:180:76,104:76:2709:104:3648:-274.338,0,-189.867 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.659 0/0:109:109,0:109:3901:0:0:0,-32.8123,-351.282 0/0:94:94,0:94:3364:0:0:0,-28.2968,-302.948 0/0:84:84,0:84:3016:0:0:0,-25.2865,-271.67 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/0:23:23,0:23:820:0:0:0,-6.92369,-74.1225 0/1:53:31,22:31:1107:22:757:-52.4914,0,-83.9856 0/1:68:51,17:51:1827:17:600:-33.8592,0,-144.24 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 chr03 27654338 . 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G A 6556.91 PASS AB=0.5;ABP=3.0103;AC=10;AF=0.238095;AN=42;AO=376;CIGAR=1X;DP=1333;DPB=1333;DPRA=1.53776;EPP=819.484;EPPR=2081.11;GTI=0;LEN=1;MEANALT=1;MQM=59.9521;MQMR=59.9958;NS=21;NUMALT=1;ODDS=1.26789;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13400;QR=33822;RO=957;RPL=376;RPP=819.484;RPPR=2081.11;RPR=0;RUN=1;SAF=376;SAP=819.484;SAR=0;SRF=957;SRP=2081.11;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:50,3:50:1775:3:108:0,-5.87942,-149.956 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/1:62:26,36:26:932:36:1281:-96.9283,0,-65.535 0/1:58:31,27:31:1108:27:968:-69.9776,0,-82.5713 0/0:111:110,1:110:3872:1:36:0,-29.8161,-345.078 0/1:96:47,49:47:1650:49:1718:-126.005,0,-119.887 0/1:92:47,45:47:1676:45:1598:-116.414,0,-123.432 1/1:72:0,72:0:0:72:2568:-231.368,-21.6742,0 0/1:158:67,91:67:2369:91:3263:-246.315,0,-165.905 0/1:15:10,5:10:360:5:180:-12.0366,0,-28.2289 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:24:24,0:24:856:0:0:0,-7.22472,-77.3611 0/0:53:53,0:53:1873:0:0:0,-15.9546,-168.847 0/0:82:82,0:82:2876:0:0:0,-24.6845,-259.078 0/0:120:120,0:120:4266:0:0:0,-36.1236,-384.12 0/0:37:37,0:37:1299:0:0:0,-11.1381,-117.21 0/0:42:42,0:42:1500:0:0:0,-12.6433,-135.295 0/1:79:50,29:50:1763:29:1040:-70.133,0,-135.171 0/1:38:21,17:21:721:17:604:-43.2515,0,-53.7674 0/0:62:61,1:61:2151:1:36:0,-15.0656,-190.257 0/0:40:40,0:40:1379:0:0:0,-12.0412,-124.403 chr03 27670729 . CAA TAG,CAG 72356.8 PASS AB=0.51045,0.48955;ABP=4.1903,4.1903;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2620,796;CIGAR=1X1M1X,2M1X;DP=3421;DPB=3423.67;DPRA=0,1.07486;EPP=5692.27,1731.5;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.71429,2.08333;MQM=59.9931,60;MQMR=0;NS=21;NUMALT=2;ODDS=14.4113;PAIRED=0,0;PAIREDR=0;PAO=8,0;PQA=280,0;PQR=0;PRO=0;QA=90925,28397;QR=0;RO=0;RPL=2620,796;RPP=5692.27,1731.5;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5692.27,1731.5;SAR=2620,796;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:250:0,249,1:0:0:249,1:8654,36:-778.547,-74.9565,0,-775.609,-71.9991,-775.308 1/1:161:0,161,0:0:0:161,0:5609,0:-504.587,-48.4658,0,-504.587,-48.4658,-504.587 1/2:163:0,85,78:0:0:85,78:2940,2792:-466.944,-228.04,-202.453,-239.256,0,-215.775 1/2:284:0,136,148:0:0:136,148:4731,5267:-814.284,-429.612,-388.672,-385.024,0,-340.471 1/1:418:0,417,0:0:0:417,0:14423,0:-1297.61,-125.53,0,-1297.61,-125.53,-1297.61 1/2:206:0,105,101:0:0:105,101:3688,3608:-594.69,-294.523,-262.915,-300.522,0,-270.118 1/2:174:0,71,103:0:0:71,103:2449,3668:-498.263,-299.319,-277.946,-199.293,0,-168.287 2/2:193:0,7,183:0:0:7,183:234,6544:-588.703,-569.759,-567.651,-55.0885,-36.1567,0 1/2:252:0,140,112:0:0:140,112:4808,4016:-717.951,-327.553,-285.409,-390.39,0,-356.674 1/2:19:0,8,11:0:0:8,11:284,384:-54.7263,-31.5833,-29.1751,-23.4953,0,-20.184 1/1:6:0,6,0:0:0:6,0:206,0:-18.8758,-1.80618,0,-18.8758,-1.80618,-18.8758 1/1:42:0,42,0:0:0:42,0:1434,0:-129.353,-12.6433,0,-129.353,-12.6433,-129.353 1/1:179:0,179,0:0:0:179,0:6230,0:-560.454,-53.8844,0,-560.454,-53.8844,-560.454 1/1:175:0,174,1:0:0:174,1:5968,36:-536.89,-52.3792,0,-533.953,-49.082,-533.652 1/1:278:0,278,0:0:0:278,0:9600,0:-863.913,-83.6863,0,-863.913,-83.6863,-863.913 1/1:99:0,98,0:0:0:98,0:3382,0:-304.325,-29.5009,0,-304.325,-29.5009,-304.325 1/1:153:0,151,2:0:0:151,2:5287,72:-475.635,-45.4555,0,-469.76,-39.5541,-469.158 1/2:47:0,22,25:0:0:22,25:773,888:-135.629,-72.7133,-66.0906,-63.2686,0,-55.7429 1/2:99:0,68,31:0:0:68,31:2405,1086:-284.6,-88.7131,-68.2431,-196.238,0,-186.906 1/1:166:0,166,0:0:0:166,0:5797,0:-521.861,-49.971,0,-521.861,-49.971,-521.861 1/1:57:0,57,0:0:0:57,0:2023,0:-182.343,-17.1587,0,-182.343,-17.1587,-182.343 chr03 27705518 . A C 13974.1 PASS AB=0.474638;ABP=4.55236;AC=32;AF=0.761905;AN=42;AO=646;CIGAR=1X;DP=830;DPB=830;DPRA=1.04211;EPP=1405.78;EPPR=402.561;GTI=1;LEN=1;MEANALT=1;MQM=59.8545;MQMR=60;NS=21;NUMALT=1;ODDS=0.58768;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23106;QR=6578;RO=184;RPL=0;RPP=1405.78;RPPR=402.561;RPR=646;RUN=1;SAF=646;SAP=1405.78;SAR=0;SRF=184;SRP=402.561;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 1/1:70:0,70:0:0:70:2512:-226.33,-21.0721,0 0/1:29:22,7:22:792:7:252:-14.2991,0,-62.8758 0/1:33:16,17:16:568:17:596:-44.0332,0,-41.5179 1/1:86:1,85:1:36:85:3056:-271.67,-22.2903,0 0/1:55:25,30:25:885:30:1065:-79.6031,0,-63.4099 0/1:87:54,33:54:1940:33:1188:-81.0214,0,-148.687 0/0:38:38,0:38:1353:0:0:0,-11.4391,-122.068 0/1:52:22,30:22:792:30:1080:-81.8597,0,-55.9521 0/1:4:2,2:2:68:2:72:-5.6326,0,-5.25359 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 1/1:24:0,24:0:0:24:860:-77.7203,-7.22472,0 1/1:34:0,34:0:0:34:1190:-107.325,-10.235,0 1/1:79:0,79:0:0:79:2829:-254.847,-23.7814,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 1/1:58:0,58:0:0:58:2071:-186.659,-17.4597,0 0/1:11:3,8:3:108:8:284:-22.592,0,-6.76384 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 1/1:7:0,7:0:0:7:243:-22.0988,-2.10721,0 chr03 27732206 . A G 4545.62 PASS AB=0.456767;ABP=11.6472;AC=10;AF=0.238095;AN=42;AO=285;CIGAR=1X;DP=1347;DPB=1347;DPRA=1.36768;EPP=621.88;EPPR=2306.94;GTI=0;LEN=1;MEANALT=1.07692;MQM=56.3649;MQMR=59.8662;NS=21;NUMALT=1;ODDS=16.0156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10039;QR=37718;RO=1061;RPL=0;RPP=621.88;RPPR=2306.94;RPR=285;RUN=1;SAF=0;SAP=621.88;SAR=285;SRF=0;SRP=2306.94;SRR=1061;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.631 0/0:14:14,0:14:481:0:0:0,-4.21442,-43.6151 0/1:110:71,39:71:2511:39:1378:-91.0004,0,-193.124 0/1:102:59,43:59:2104:43:1531:-107.317,0,-158.922 0/0:147:146,1:146:5210:1:36:0,-40.6536,-465.44 0/1:39:15,23:15:540:23:811:-61.1181,0,-37.1312 0/1:87:36,51:36:1279:51:1748:-130.825,0,-89.2004 1/1:37:0,37:0:0:37:1310:-117.81,-11.1381,0 0/1:62:41,21:41:1452:21:737:-47.9793,0,-112.301 0/1:13:6,7:6:212:7:248:-18.5995,0,-15.5114 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:50:50,0:50:1749:0:0:0,-15.0515,-157.688 0/0:115:115,0:115:4098:0:0:0,-34.6184,-368.961 0/0:139:139,0:139:4919:0:0:0,-41.8432,-442.859 0/0:87:86,1:86:3076:1:36:0,-22.5918,-273.471 0/0:21:21,0:21:741:0:0:0,-6.32163,-67.0116 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.036 0/1:65:33,32:33:1152:32:1136:-82.9001,0,-84.4149 0/1:54:27,27:27:964:27:960:-70.4451,0,-70.813 0/0:98:96,2:96:3439:2:72:0,-22.6675,-302.881 0/0:28:27,1:27:955:1:36:0,-4.83427,-82.6005 chr03 27761414 . G A 26701.3 PASS AB=0.489256;ABP=3.61688;AC=32;AF=0.761905;AN=42;AO=1230;CIGAR=1X;DP=1630;DPB=1630;DPRA=0.845604;EPP=2647.93;EPPR=828.713;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.49309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44001;QR=14220;RO=400;RPL=1227;RPP=2647.93;RPPR=828.713;RPR=3;RUN=1;SAF=0;SAP=2673.92;SAR=1230;SRF=0;SRP=871.599;SRR=400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66:0:0:66:2350:-211.757,-19.868,0 1/1:67:0,67:0:0:67:2389:-215.266,-20.169,0 0/1:103:56,47:56:1973:47:1688:-121.201,0,-146.837 0/1:85:48,37:48:1720:37:1328:-94.2347,0,-129.498 1/1:156:0,156:0:0:156:5592:-503.402,-46.9607,0 0/1:48:24,24:24:851:24:862:-63.4529,0,-62.46 0/1:106:62,44:62:2189:44:1576:-110.222,0,-165.365 0/0:91:91,0:91:3251:0:0:0,-27.3937,-292.811 0/1:119:56,63:56:2000:63:2264:-168.2,0,-144.451 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:58:0,58:0:0:58:2062:-185.85,-17.4597,0 1/1:141:0,141:0:0:141:5029:-452.757,-42.4452,0 1/1:193:0,193:0:0:193:6924:-623.225,-58.0988,0 1/1:53:0,53:0:0:53:1904:-171.638,-15.9546,0 1/1:58:0,58:0:0:58:2065:-186.12,-17.4597,0 0/1:70:37,33:37:1320:33:1175:-84.9849,0,-98.0298 0/1:69:24,45:24:844:45:1607:-124.148,0,-55.5079 1/1:69:0,69:0:0:69:2463:-221.924,-20.7711,0 1/1:46:0,46:0:0:46:1643:-148.158,-13.8474,0 chr03 27777875 . G A 32451.3 PASS AB=0.397392;ABP=325.639;AC=25;AF=0.595238;AN=42;AO=1990;CIGAR=1X;DP=4354;DPB=4354;DPRA=0.876383;EPP=4324.24;EPPR=5136.37;GTI=2;LEN=1;MEANALT=1;MQM=41.0854;MQMR=59.5749;NS=21;NUMALT=1;ODDS=28.3941;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71188;QR=84300;RO=2364;RPL=0;RPP=4324.24;RPPR=5136.37;RPR=1990;RUN=1;SAF=1990;SAP=4324.24;SAR=0;SRF=2364;SRP=5136.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:98,113:98:3505:113:4049:-289.347,0,-252.126 0/1:345:175,170:175:6273:170:6019:-419.172,0,-459.998 0/1:173:105,68:105:3714:68:2414:-157.396,0,-282.378 1/1:93:0,93:0:0:93:3340:-289.698,-27.9958,0 0/1:501:291,210:291:10345:210:7540:-502.584,0,-779.983 0/1:200:147,53:147:5249:53:1885:-104.203,0,-412.277 0/1:349:251,98:251:8884:98:3494:-194.391,0,-694.011 0/0:235:235,0:235:8361:0:0:0,-70.742,-752.194 0/1:305:202,103:202:7232:103:3708:-235.308,0,-558.879 0/1:43:34,9:34:1224:9:320:-15.0925,0,-97.4818 0/1:22:19,3:19:676:3:108:-3.12329,0,-54.5453 0/1:121:82,39:82:2925:39:1374:-79.5251,0,-227.044 1/1:135:0,135:0:0:135:4829:-420.676,-40.6391,0 1/1:124:0,124:0:0:124:4427:-381.818,-37.3277,0 0/1:446:250,196:250:8943:196:7025:-474.892,0,-670.509 0/1:189:84,105:84:2986:105:3772:-274.35,0,-211.938 0/1:205:108,97:108:3838:97:3480:-241.401,0,-283.702 0/1:288:225,63:225:8076:63:2268:-109.042,0,-639.795 0/1:130:55,75:55:1961:75:2677:-194.934,0,-137.62 1/1:151:3,148:3:108:148:5324:-447,-35.3804,0 1/1:88:0,88:0:0:88:3135:-270.2,-26.4906,0 chr03 27777888 . A G 31884.4 PASS AB=0.402933;ABP=282.082;AC=25;AF=0.595238;AN=42;AO=1949;CIGAR=1X;DP=4213;DPB=4213;DPRA=0.886222;EPP=4235.21;EPPR=4919.22;GTI=2;LEN=1;MEANALT=1;MQM=41.1611;MQMR=59.5649;NS=21;NUMALT=1;ODDS=23.4803;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69564;QR=80292;RO=2264;RPL=0;RPP=4235.21;RPPR=4919.22;RPR=1949;RUN=1;SAF=1949;SAP=4235.21;SAR=0;SRF=2264;SRP=4919.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:96,111:96:3393:111:3937:-281.404,0,-243.259 0/1:326:157,169:157:5566:169:6051:-426.733,0,-402.127 0/1:170:103,67:103:3642:67:2396:-156.591,0,-276.804 1/1:89:0,89:0:0:89:3177:-276.072,-26.7917,0 0/1:481:278,203:278:9844:203:7235:-484.689,0,-741.068 0/1:190:136,54:136:4821:54:1928:-110.863,0,-376.816 0/1:335:240,95:240:8509:95:3403:-192.335,0,-664.558 0/0:225:225,0:225:8003:0:0:0,-67.7317,-719.96 0/1:296:196,100:196:6932:100:3575:-226.426,0,-534.584 0/1:42:33,9:33:1180:9:324:-15.6836,0,-93.8258 0/1:22:19,3:19:680:3:108:-3.12329,0,-54.9065 0/1:116:78,38:78:2746:38:1347:-78.8545,0,-212.453 1/1:134:0,134:0:0:134:4765:-415.745,-40.338,0 1/1:121:0,121:0:0:121:4314:-372.325,-36.4246,0 0/1:434:240,194:240:8542:194:6944:-471.471,0,-638.09 0/1:183:83,100:83:2934:100:3577:-259.041,0,-209.139 0/1:202:106,96:106:3700:96:3430:-238.78,0,-272.181 0/1:280:218,62:218:7796:62:2216:-107.751,0,-616.912 0/1:126:53,73:53:1896:73:2584:-188.29,0,-132.789 1/1:148:3,145:3:108:145:5178:-435.021,-34.4773,0 1/1:86:0,86:0:0:86:3075:-265.178,-25.8886,0 chr03 27777938 . C T 18712.6 PASS AB=0.247353;ABP=2883.24;AC=14;AF=0.333333;AN=42;AO=1295;CIGAR=1X;DP=5894;DPB=5894;DPRA=2.22344;EPP=1183.35;EPPR=3154.59;GTI=2;LEN=1;MEANALT=1.11111;MQM=59.8587;MQMR=59.0028;NS=21;NUMALT=1;ODDS=4.23889;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46292;QR=163706;RO=4597;RPL=1273;RPP=2627.22;RPPR=5550.65;RPR=22;RUN=1;SAF=206;SAP=1310.4;SAR=1089;SRF=422;SRP=6656.31;SRR=4175;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:360:286,74:286:10242:74:2645:-129.924,0,-813.334 0/1:193:160,33:160:5709:33:1184:-48.7405,0,-455.829 0/1:236:178,58:178:6356:58:2064:-114.988,0,-501.088 0/0:110:110,0:110:3906:0:0:0,-33.1133,-351.735 0/1:534:413,121:413:14690:121:4321:-228.309,0,-1161.01 0/1:272:201,71:201:7195:71:2548:-147.69,0,-565.724 0/1:552:410,142:410:14613:142:5092:-292.254,0,-1148.69 0/1:541:355,185:355:12666:185:6633:-434.127,0,-976.852 0/1:870:616,254:616:21846:254:9033:-550.911,0,-1699.12 0/0:26:25,1:25:896:1:36:0,-4.2285,-77.3621 0/1:34:23,11:23:820:11:396:-25.7477,0,-63.8875 0/0:93:86,7:86:3075:7:252:0,-4.96683,-253.949 0/0:123:122,1:122:4364:1:36:0,-33.4284,-389.336 0/0:173:173,0:173:6180:0:0:0,-52.0782,-556.027 0/1:532:414,117:414:14791:117:4192:-217.253,0,-1170.72 0/1:425:346,79:346:12219:79:2824:-126.331,0,-965.92 0/1:337:259,78:259:9144:78:2772:-148.205,0,-714.14 0/1:158:121,37:121:4331:37:1332:-72.6196,0,-342.386 0/1:151:126,25:126:4502:25:896:-35.5048,0,-359.892 0/0:128:128,0:128:4568:0:0:0,-38.5318,-411.287 0/0:46:45,1:45:1593:1:36:0,-10.2491,-140.06 chr03 27777987 . T G 1452.81 PASS AB=0.149258;ABP=4033.54;AC=16;AF=0.380952;AN=42;AO=563;CIGAR=1X;DP=4144;DPB=4144;DPRA=3.16868;EPP=1225.55;EPPR=7735.68;GTI=11;LEN=1;MEANALT=1;MQM=59.8757;MQMR=57.85;NS=21;NUMALT=1;ODDS=3.1343;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20105;QR=128409;RO=3581;RPL=0;RPP=1225.55;RPPR=7735.68;RPR=563;RUN=1;SAF=563;SAP=1225.55;SAR=0;SRF=3581;SRP=7779.05;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:183,28:183:6580:28:1004:-27.1585,0,-526.949 0/1:259:230,29:230:8260:29:1040:-15.9476,0,-663.139 0/1:150:132,18:132:4740:18:644:-13.1361,0,-380.766 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.537 0/1:393:348,45:348:12492:45:1590:-25.0806,0,-1002.36 0/1:273:234,39:234:8389:39:1400:-44.118,0,-671.161 0/1:465:395,70:395:14114:70:2516:-86.7126,0,-1125.03 0/1:452:365,87:365:13074:87:3109:-143.969,0,-1038.29 0/1:392:328,64:328:11749:64:2273:-86.8266,0,-938.267 0/1:36:28,8:28:1008:8:270:-13.7911,0,-79.746 0/1:8:3,5:3:108:5:176:-13.7768,0,-6.89529 0/1:71:59,12:59:2120:12:432:-17.8399,0,-169.543 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.685 0/0:83:83,0:83:2972:0:0:0,-24.9855,-267.713 0/1:339:283,56:283:10149:56:2004:-78.5844,0,-808.345 0/1:208:170,38:170:6108:38:1343:-58.3625,0,-487.056 0/1:165:149,16:149:5348:16:576:-2.50504,0,-430.753 0/1:209:182,27:182:6536:27:972:-24.8542,0,-525.087 0/1:141:120,21:120:4295:21:756:-25.9204,0,-343.675 0/0:87:87,0:87:3123:0:0:0,-26.1896,-281.035 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.218 chr03 27777993 . G A 29794.1 PASS AB=0.291419;ABP=2103.69;AC=16;AF=0.380952;AN=42;AO=1625;CIGAR=1X;DP=6155;DPB=6155;DPRA=2.91304;EPP=663.417;EPPR=285.012;GTI=1;LEN=1;MEANALT=2;MQM=53.0388;MQMR=59.8151;NS=21;NUMALT=1;ODDS=28.2121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58007;QR=143088;RO=4014;RPL=4;RPP=3496.99;RPPR=8675.93;RPR=1621;RUN=1;SAF=1168;SAP=678.533;SAR=457;SRF=2373;SRP=292.878;SRR=1641;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:379:259,97:259:9263:97:3444:-200.241,0,-725.039 0/1:353:223,109:223:7972:109:3900:-249.205,0,-616.8 0/1:211:119,70:119:4256:70:2497:-166.647,0,-325.935 0/0:113:113,0:113:4024:0:0:0,-34.0164,-362.334 0/1:599:390,162:390:13872:162:5795:-351.038,0,-1081.68 0/1:363:233,106:233:8323:106:3777:-236.482,0,-645.837 0/1:645:401,200:401:14286:200:7135:-456.839,0,-1103.46 0/1:616:304,218:304:10854:218:7783:-539.947,0,-819.241 0/1:599:382,175:382:13533:175:6254:-393.203,0,-1049.61 0/1:58:32,19:32:1144:19:672:-44.7553,0,-87.5576 0/1:18:13,5:13:468:5:180:-10.3563,0,-37.0411 0/1:119:72,32:72:2564:32:1148:-71.6785,0,-199.328 0/0:120:120,0:120:4291:0:0:0,-36.1236,-386.204 0/0:124:124,0:124:4417:0:0:0,-37.3277,-397.699 0/1:497:324,133:324:11565:133:4746:-286.26,0,-902.79 0/1:267:181,63:181:6469:63:2245:-127.775,0,-508.455 0/1:221:104,87:104:3694:87:3100:-220.392,0,-274.81 0/1:341:192,86:192:6836:86:3071:-191.783,0,-531.252 0/1:273:199,58:199:7092:58:2084:-108.624,0,-559.168 0/0:136:126,5:126:4478:5:176:0,-23.6315,-386.429 0/0:103:103,0:103:3687:0:0:0,-31.0061,-332.016 chr03 27778025 . G T 2205.61 PASS AB=0.146004;ABP=3067.02;AC=8;AF=0.190476;AN=42;AO=417;CIGAR=1X;DP=5602;DPB=5602;DPRA=1.3476;EPP=81.7926;EPPR=694.542;GTI=2;LEN=1;MEANALT=1;MQM=59.7842;MQMR=57.7522;NS=21;NUMALT=1;ODDS=2.17582;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14784;QR=184070;RO=5185;RPL=416;RPP=899.849;RPPR=11063.2;RPR=1;RUN=1;SAF=269;SAP=79.2514;SAR=148;SRF=3212;SRP=645.917;SRR=1973;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:363:362,1:362:12852:1:36:0,-105.676,-1148.88 0/0:336:336,0:336:11881:0:0:0,-101.146,-1066.87 0/1:188:170,18:170:6001:18:640:-1.33232,0,-482.574 0/1:111:60,51:60:2115:51:1801:-128.957,0,-157.198 0/0:547:547,0:547:19442:0:0:0,-164.663,-1745.15 0/1:335:279,56:279:9897:56:1992:-78.5516,0,-788.305 0/1:586:513,73:513:18228:73:2586:-56.5099,0,-1459.57 0/1:516:450,66:450:15995:66:2329:-54.5378,0,-1281.13 0/1:544:472,72:472:16758:72:2552:-66.1475,0,-1342.73 0/0:50:48,2:48:1716:2:72:0,-8.21478,-147.354 0/0:18:18,0:18:648:0:0:0,-5.41854,-57.8868 0/0:103:103,0:103:3692:0:0:0,-31.0061,-332.2 0/0:117:117,0:117:4132:0:0:0,-35.2205,-371.857 0/0:127:127,0:127:4468:0:0:0,-38.2308,-402.292 0/0:458:458,0:458:16224:0:0:0,-137.872,-1456.67 0/0:240:238,2:238:8481:2:72:0,-65.4105,-755.696 0/0:193:193,0:193:6824:0:0:0,-58.0988,-613.241 0/1:280:243,37:243:8615:37:1320:-34.8136,0,-690.215 0/1:255:217,38:217:7756:38:1348:-44.8576,0,-618.444 0/0:131:130,1:130:4649:1:36:0,-35.8367,-414.89 0/0:104:104,0:104:3696:0:0:0,-31.3071,-332.826 chr03 27778040 . C T 23319.3 PASS AB=0.675591;ABP=513.176;AC=16;AF=0.380952;AN=42;AO=1288;CIGAR=1X;DP=2143;DPB=2143;DPRA=2.46115;EPP=2791.19;EPPR=1857.45;GTI=4;LEN=1;MEANALT=1.05882;MQM=56.4899;MQMR=59.7319;NS=21;NUMALT=1;ODDS=5.09678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46098;QR=30471;RO=854;RPL=1288;RPP=2799.87;RPPR=1857.45;RPR=0;RUN=1;SAF=1;SAP=2791.19;SAR=1287;SRF=0;SRP=1857.45;SRR=854;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:61,123:61:2180:123:4391:-338.406,0,-141.008 0/1:105:49,56:49:1764:56:2016:-149.732,0,-127.41 0/1:66:11,55:11:396:55:1976:-157.931,0,-16.1148 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.151 0/1:221:72,149:72:2576:149:5325:-411.929,0,-165.558 0/1:98:40,58:40:1406:58:2088:-158.479,0,-97.2978 0/1:198:43,155:43:1548:155:5565:-440.57,0,-79.9915 0/1:169:31,138:31:1116:138:4928:-391.454,0,-49.8776 0/1:211:59,152:59:2056:152:5439:-425.379,0,-121.78 0/1:23:5,18:5:180:18:648:-51.6321,0,-9.62837 0/1:11:2,9:2:72:9:324:-26.178,0,-3.52539 0/1:49:20,29:20:720:29:1044:-79.3883,0,-50.376 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.182 0/0:45:45,0:45:1604:0:0:0,-13.5463,-144.647 0/1:168:59,109:59:2120:109:3880:-298.14,0,-140.495 0/1:62:18,44:18:648:44:1576:-122.851,0,-39.988 0/1:63:19,44:19:672:44:1580:-123.368,0,-41.8419 0/1:143:48,94:48:1709:94:3372:-260.125,0,-111.009 0/1:134:80,54:80:2868:54:1925:-132.309,0,-216.567 0/0:51:50,1:50:1770:1:21:0,-13.2526,-157.475 0/0:51:51,0:51:1802:0:0:0,-15.3525,-162.453 chr03 27778065 . G A 50972.6 PASS AB=0.615735;ABP=207.079;AC=33;AF=0.785714;AN=42;AO=2442;CIGAR=1X;DP=3118;DPB=3118;DPRA=0;EPP=5305.75;EPPR=1470.93;GTI=0;LEN=1;MEANALT=1;MQM=53.9492;MQMR=59.8669;NS=21;NUMALT=1;ODDS=10.1957;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87576;QR=24170;RO=676;RPL=0;RPP=5305.75;RPPR=1470.93;RPR=2442;RUN=1;SAF=2442;SAP=5305.75;SAR=0;SRF=676;SRP=1470.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:0,129:0:0:129:4590:-412.05,-38.8329,0 1/1:80:0,80:0:0:80:2857:-254.846,-24.0824,0 0/1:197:56,141:56:1982:141:5064:-395.447,0,-119.348 0/1:185:117,68:117:4189:68:2444:-163.196,0,-321.485 1/1:229:2,227:2:72:227:8154:-724.77,-62.0991,0 0/1:163:56,107:56:2016:107:3840:-295.512,0,-132.609 0/1:235:67,168:67:2393:168:6025:-468.419,0,-144.827 0/1:500:224,276:224:7998:276:9916:-741.116,0,-569.287 0/1:284:104,180:104:3728:180:6438:-492.424,0,-249.91 0/1:13:4,9:4:144:9:324:-25.4018,0,-9.40023 1/1:5:0,5:0:0:5:180:-16.5037,-1.50515,0 1/1:102:0,102:0:0:102:3657:-327.892,-30.7051,0 1/1:188:0,188:0:0:188:6734:-601.683,-56.5936,0 1/1:86:0,86:0:0:86:3096:-277.046,-25.8886,0 1/1:213:0,213:0:0:213:7652:-687.425,-64.1194,0 1/1:76:0,76:0:0:76:2713:-243.723,-22.8783,0 1/1:93:0,93:0:0:93:3344:-300.835,-27.9958,0 0/1:75:21,54:21:752:54:1936:-151.088,0,-45.429 0/1:102:25,77:25:896:77:2764:-217.585,0,-50.2553 1/1:130:0,130:0:0:130:4660:-415.269,-39.1339,0 1/1:33:0,33:0:0:33:1188:-105.198,-9.93399,0 chr03 27778075 . CCTT CCTG,TCTG 63149.4 PASS AB=0.685503,0.310792;ABP=648.318,674.355;AC=18,24;AF=0.428571,0.571429;AN=42;AO=1965,1107;CIGAR=3M1X,1X2M1X;DP=3084;DPB=3084;DPRA=1.49676,0.267284;EPP=4261.27,2406.83;EPPR=0;GTI=4;LEN=1,4;MEANALT=2.5,2.25;MQM=58.8524,48.8257;MQMR=0;NS=21;NUMALT=2;ODDS=13.6167;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70249,39194;QR=0;RO=0;RPL=1,0;RPP=4261.27,2406.83;RPPR=0;RPR=1964,1107;RUN=1,1;SAF=1965,1107;SAP=4269.95,2406.83;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,74,52:0:0:74,52:2624,1810:-360.149,-146.561,-124.284,-213.938,0,-198.284 1/2:81:0,49,32:0:0:49,32:1760,1139:-234.26,-91.5966,-76.8461,-143.016,0,-133.383 1/2:196:0,156,37:0:0:156,37:5568,1296:-558.919,-105.072,-58.1114,-453.916,0,-442.778 1/2:179:0,110,69:0:0:110,69:3935,2441:-518.785,-197.91,-164.797,-321.229,0,-300.457 1/2:231:0,145,86:0:0:145,86:5173,3021:-666.509,-244.969,-201.32,-421.892,0,-396.004 1/2:162:0,135,25:0:0:135,25:4848,893:-467.112,-72.0133,-31.3742,-395.163,0,-387.637 1/2:229:0,170,58:0:0:170,58:6091,2039:-659.969,-163.446,-112.271,-496.512,0,-479.053 1/1:486:0,483,0:0:0:483,0:17279,0:-1553.83,-145.397,0,-1553.83,-145.397,-1553.83 1/2:282:0,231,51:0:0:231,51:8264,1813:-821.382,-147.581,-78.0434,-674.155,0,-658.803 1/2:13:0,10,2:0:0:10,2:360,71:-35.1093,-5.78779,-2.77749,-29.3644,0,-28.7623 1/2:5:0,4,1:0:0:4,1:144,36:-14.9986,-3.25759,-2.05347,-12.0976,0,-11.7965 1/2:102:0,42,60:0:0:42,60:1504,2139:-295.785,-173.177,-160.534,-122.964,0,-104.903 2/2:189:0,0,188:0:0:0,188:0,6658:-595.573,-595.573,-595.573,-56.5936,-56.5936,0 2/2:87:0,0,87:0:0:0,87:0,3095:-277.202,-277.202,-277.202,-26.1896,-26.1896,0 1/2:210:0,126,84:0:0:126,84:4505,2987:-609.886,-242.686,-204.756,-367.555,0,-342.269 1/2:77:0,46,31:0:0:46,31:1634,1106:-222.964,-89.8946,-76.0472,-133.424,0,-124.092 1/2:93:0,68,24:0:0:68,24:2444,858:-269.121,-69.8165,-49.3464,-199.389,0,-192.164 1/2:74:0,52,22:0:0:52,22:1860,760:-212.986,-61.3337,-45.6801,-151.998,0,-145.376 1/2:99:0,62,37:0:0:62,37:2184,1322:-285.314,-107.556,-88.8924,-178.112,0,-166.974 2/2:130:0,2,128:0:0:2,128:72,4532:-403.835,-397.962,-397.36,-38.5318,-32.2991,0 2/2:33:0,0,33:0:0:0,33:0,1178:-104.372,-104.372,-104.372,-9.93399,-9.93399,0 chr03 27778138 . A T 91580.6 PASS AB=0.794466;ABP=2480.15;AC=21;AF=0.5;AN=42;AO=3856;CIGAR=1X;DP=5008;DPB=5008;DPRA=4.18056;EPP=8376.21;EPPR=2498.03;GTI=9;LEN=1;MEANALT=1.16667;MQM=46.0244;MQMR=58.5422;NS=21;NUMALT=1;ODDS=4.38553;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=137083;QR=41093;RO=1149;RPL=1506;RPP=404.156;RPPR=2489.35;RPR=2350;RUN=1;SAF=1506;SAP=404.156;SAR=2350;SRF=1;SRP=2489.35;SRR=1148;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:427:63,364:63:2253:364:12896:-984.276,0,-74.4212 1/1:321:15,306:15:540:306:10898:-899.634,-47.8851,0 0/1:224:55,169:55:1968:169:6022:-448.041,0,-109.795 0/0:54:54,0:54:1935:0:0:0,-16.2556,-173.912 0/1:625:78,546:78:2764:546:19424:-1480.45,0,-60.651 0/1:205:31,174:31:1107:174:6211:-479.002,0,-37.91 0/1:382:63,319:63:2256:319:11329:-869.255,0,-88.0851 1/1:497:34,462:34:1220:462:16502:-1299.91,-39.6088,0 0/1:475:105,370:105:3764:370:13099:-996.41,0,-195.467 0/1:32:9,23:9:324:23:811:-62.6577,0,-19.8729 1/1:16:1,15:1:36:15:536:-42.5059,-1.21821,0 0/1:74:18,56:18:648:56:1988:-147.927,0,-36.3757 0/0:82:81,1:81:2894:1:32:0,-21.4851,-257.388 0/0:84:84,0:84:3011:0:0:0,-25.2865,-271.143 0/1:430:105,324:105:3764:324:11513:-854.929,0,-209.404 1/1:240:13,227:13:468:227:8055:-659.933,-29.7876,0 1/1:241:21,220:21:756:220:7832:-613.187,-4.20556,0 0/1:228:66,162:66:2350:162:5752:-412.539,0,-143.113 0/1:187:81,106:81:2904:106:3766:-264.067,0,-205.111 0/0:130:118,12:118:4216:12:417:0,-3.56385,-344.024 0/0:54:54,0:54:1915:0:0:0,-16.2556,-172.615 chr03 27778165 . C T 38557.8 PASS AB=0.744353;ABP=1518.42;AC=17;AF=0.404762;AN=42;AO=2322;CIGAR=1X;DP=3465;DPB=3465;DPRA=2.80685;EPP=5045.17;EPPR=2478.49;GTI=7;LEN=1;MEANALT=1.17647;MQM=37.2532;MQMR=58.5123;NS=21;NUMALT=1;ODDS=1.56643;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83033;QR=40783;RO=1140;RPL=2322;RPP=5045.17;RPPR=2478.49;RPR=0;RUN=1;SAF=0;SAP=5045.17;SAR=2322;SRF=0;SRP=2478.49;SRR=1140;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:261:62,198:62:2205:198:7054:-508.732,0,-120.018 0/1:167:16,151:16:576:151:5386:-402.151,0,-1.70385 0/1:157:54,103:54:1940:103:3689:-258.791,0,-127.451 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.271 0/1:371:76,295:76:2716:295:10518:-757.81,0,-132.915 0/1:120:31,89:31:1116:89:3181:-232.349,0,-63.6891 0/1:243:64,178:64:2292:178:6380:-465.999,0,-133.162 0/1:357:35,322:35:1256:322:11547:-856.514,0,-5.78772 0/1:337:109,228:109:3884:228:8163:-594.196,0,-247.755 0/1:14:9,5:9:324:5:180:-11.1779,0,-25.2914 0/1:10:1,9:1:36:9:324:-24.0128,0,-0.587975 0/1:57:18,39:18:644:39:1392:-99.2081,0,-41.1319 0/0:78:78,0:78:2792:0:0:0,-23.4803,-251.47 0/0:85:85,0:85:3056:0:0:0,-25.5875,-275.191 0/1:314:104,210:104:3717:210:7502:-530.149,0,-240.108 1/1:149:12,137:12:432:137:4881:-378.064,-5.63227,0 0/1:161:21,140:21:756:140:5019:-380.646,0,-19.8768 0/1:196:64,132:64:2277:132:4736:-330.197,0,-146.169 0/1:157:80,76:80:2844:76:2736:-179.965,0,-208.705 0/0:126:116,10:116:4164:10:345:0,-8.62357,-345.612 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.896 chr03 28021628 . T C 6865.13 PASS AB=0.487931;ABP=3.74411;AC=10;AF=0.238095;AN=42;AO=387;CIGAR=1X;DP=1950;DPB=1950;DPRA=0.704747;EPP=826.088;EPPR=3351.56;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9871;MQMR=59.9974;NS=21;NUMALT=1;ODDS=16.0731;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13758;QR=55832;RO=1562;RPL=385;RPP=826.088;RPPR=3351.56;RPR=2;RUN=1;SAF=0;SAP=843.37;SAR=387;SRF=0;SRP=3394.85;SRR=1562;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:102,1:102:3656:1:36:0,-27.4078,-325.645 0/0:86:86,0:86:3063:0:0:0,-25.8886,-275.899 0/1:43:23,20:23:813:20:704:-50.7402,0,-60.5448 0/1:101:58,43:58:2072:43:1527:-107.318,0,-156.347 0/0:210:210,0:210:7508:0:0:0,-63.2163,-675.763 0/1:95:51,43:51:1816:43:1507:-107.302,0,-135.104 0/1:112:40,72:40:1440:72:2557:-196.665,0,-96.1824 1/1:97:0,97:0:0:97:3465:-312.062,-29.1999,0 0/1:113:65,48:65:2324:48:1707:-119.898,0,-175.404 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/0:139:139,0:139:4961:0:0:0,-41.8432,-446.639 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/0:224:224,0:224:7982:0:0:0,-67.4307,-718.404 0/0:63:63,0:63:2241:0:0:0,-18.9649,-201.952 0/0:128:128,0:128:4588:0:0:0,-38.5318,-413.082 0/0:51:50,1:50:1796:1:36:0,-11.7543,-158.324 0/0:102:101,1:101:3620:1:36:0,-27.1068,-322.407 0/1:44:21,23:21:752:23:824:-61.238,0,-54.7609 0/1:62:34,28:34:1208:28:999:-71.5613,0,-90.3622 0/0:108:104,4:104:3724:4:144:0,-19.1976,-322.047 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 chr03 28021638 . G A 34438.4 PASS AB=0.511073;ABP=3.63548;AC=32;AF=0.761905;AN=42;AO=1578;CIGAR=1X;DP=1971;DPB=1971;DPRA=0.9355;EPP=3429.59;EPPR=856.399;GTI=0;LEN=1;MEANALT=1;MQM=59.9975;MQMR=60;NS=21;NUMALT=1;ODDS=16.9082;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56437;QR=14046;RO=393;RPL=1578;RPP=3429.59;RPPR=856.399;RPR=0;RUN=1;SAF=0;SAP=3429.59;SAR=1578;SRF=0;SRP=856.399;SRR=393;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:0,105:0:0:105:3768:-339.318,-31.6082,0 1/1:87:0,87:0:0:87:3083:-277.695,-26.1896,0 0/1:45:21,24:21:748:24:864:-64.5362,0,-54.0989 0/1:101:44,57:44:1563:57:2040:-153.467,0,-110.557 1/1:213:0,213:0:0:213:7602:-684.218,-64.1194,0 0/1:95:43,52:43:1540:52:1844:-137.64,0,-110.295 0/1:115:74,41:74:2652:41:1457:-96.8055,0,-204.308 0/0:100:100,0:100:3567:0:0:0,-30.103,-321.238 0/1:113:48,65:48:1712:65:2332:-176.123,0,-120.349 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 1/1:140:0,140:0:0:140:5020:-451.945,-42.1442,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:223:0,223:0:0:223:8001:-720.107,-67.1297,0 1/1:63:0,63:0:0:63:2264:-204.022,-18.9649,0 1/1:129:0,129:0:0:129:4609:-414.971,-38.8329,0 1/1:52:1,51:1:36:51:1826:-161.022,-12.0553,0 1/1:104:1,103:1:36:103:3676:-327.443,-27.7088,0 0/1:44:23,21:23:828:21:752:-54.7609,0,-61.5988 0/1:65:28,37:28:1004:37:1332:-100.615,0,-71.1089 1/1:110:4,106:4:144:106:3775:-326.634,-19.7997,0 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 chr03 28069676 . T C 7106.29 PASS AB=0.543253;ABP=17.0986;AC=32;AF=0.761905;AN=42;AO=1521;CIGAR=1X;DP=1980;DPB=1980;DPRA=1.75;EPP=44.7565;EPPR=15.8305;GTI=3;LEN=1;MEANALT=1.05;MQM=10.4892;MQMR=11.3821;NS=21;NUMALT=1;ODDS=1.82989;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53903;QR=16324;RO=458;RPL=3;RPP=3279.81;RPPR=988.878;RPR=1518;RUN=1;SAF=849;SAP=47.7375;SAR=672;SRF=256;SRP=16.8357;SRR=202;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69:0:0:69:2442:-62.5246,-20.7711,0 1/1:73:2,71:2:72:71:2513:-72.4519,-19.7929,0 0/1:44:14,30:14:504:30:1046:-15.275,0,-1.07002 0/1:82:44,38:44:1584:38:1353:-9.82575,0,-20.7403 1/1:177:4,173:4:144:173:6126:-152.377,-49.2171,0 0/1:77:41,36:41:1460:36:1296:-12.2596,0,-17.3754 0/1:113:63,50:63:2249:50:1788:-15.3516,0,-33.5886 0/0:55:55,0:55:1945:0:0:0,-16.5566,-56.0712 0/1:127:49,78:49:1751:78:2753:-33.5664,0,-8.70285 0/1:16:9,7:9:324:7:240:-2.11119,0,-4.37468 1/1:7:0,7:0:0:7:252:-6.84958,-2.10721,0 1/1:30:0,30:0:0:30:1053:-29.3764,-9.0309,0 1/1:107:1,106:1:36:106:3785:-94.9046,-31.1115,0 1/1:71:0,71:0:0:71:2528:-64.5436,-21.3731,0 1/1:132:1,131:1:36:131:4659:-118.902,-38.7369,0 1/1:66:0,66:0:0:66:2364:-59.4376,-19.868,0 1/1:55:0,55:0:0:55:1921:-49.4863,-16.5567,0 0/1:219:109,109:109:3877:109:3839:-42.4738,0,-44.1763 0/1:189:66,123:66:2342:123:4337:-54.383,0,-8.15551 1/1:84:0,84:0:0:84:2993:-82.783,-25.2865,0 1/1:187:0,187:0:0:187:6615:-184.509,-56.2926,0 chr03 28151039 . C T 17506.6 PASS AB=0.429792;ABP=38.0747;AC=31;AF=0.738095;AN=42;AO=981;CIGAR=1X;DP=1560;DPB=1560;DPRA=0;EPP=3.01251;EPPR=351.89;GTI=1;LEN=1;MEANALT=1;MQM=38.4373;MQMR=59.7547;NS=21;NUMALT=1;ODDS=2.18128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35062;QR=20575;RO=579;RPL=0;RPP=2133.22;RPPR=1200.23;RPR=981;RUN=1;SAF=491;SAP=3.01251;SAR=490;SRF=449;SRP=384.653;SRR=130;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:1,36:1:36:36:1292:-88.6145,-8.95496,0 1/1:42:0,42:0:0:42:1512:-91.7061,-12.6433,0 0/1:29:8,21:8:288:21:744:-43.7508,0,-17.5375 0/1:62:23,39:23:804:39:1404:-63.3148,0,-52.5604 1/1:94:2,92:2:72:92:3231:-211.271,-21.4601,0 0/1:46:17,29:17:608:29:1040:-46.0205,0,-41.2042 0/1:53:22,31:22:784:31:1116:-57.281,0,-54.9293 0/0:34:33,1:33:1147:1:36:0,-6.63719,-99.9344 0/1:98:35,63:35:1248:63:2252:-102.052,0,-83.1239 0/0:82:76,6:76:2720:6:216:0,-10.1301,-230.489 1/1:6:0,6:0:0:6:216:-14.5544,-1.80618,0 1/1:19:0,19:0:0:19:684:-39.4855,-5.71957,0 1/1:45:0,45:0:0:45:1616:-113.44,-13.5464,0 1/1:48:0,48:0:0:48:1700:-105.596,-14.4494,0 1/1:66:0,66:0:0:66:2359:-175.574,-19.868,0 1/1:40:0,40:0:0:40:1428:-88.2794,-12.0412,0 1/1:26:0,26:0:0:26:932:-72.1433,-7.82678,0 0/1:436:337,99:337:11977:99:3556:-137.866,0,-944.965 0/1:95:25,70:25:891:70:2496:-134.789,0,-51.9109 1/1:63:0,63:0:0:63:2248:-128.823,-18.9649,0 1/1:139:0,139:0:0:139:4984:-367.427,-41.8432,0 chr03 28207160 . CGAGA CGACC,TGACC 22472.1 PASS AB=0.546535,0.449505;ABP=12.5089,14.1945;AC=31,11;AF=0.738095,0.261905;AN=42;AO=769,300;CIGAR=3M2X,1X2M2X;DP=1075;DPB=1075;DPRA=0.740441,1.64243;EPP=1672.87,654.452;EPPR=0;GTI=1;LEN=2,5;MEANALT=1.9,2.15385;MQM=59.9116,59.9167;MQMR=0;NS=21;NUMALT=2;ODDS=2.73333;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27271,10407;QR=0;RO=0;RPL=0,0;RPP=1672.87,654.452;RPPR=0;RPR=769,300;RUN=1,1;SAF=769,300;SAP=1672.87,654.452;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:0,61,2:0:0:61,2:2156,72:-193.943,-18.3628,0,-188.068,-12.1282,-187.466 1/1:46:0,46,0:0:0:46,0:1625,0:-146.538,-13.8474,0,-146.538,-13.8474,-146.538 1/2:37:0,19,18:0:0:19,18:673,624:-105.892,-51.0654,-45.3458,-55.1764,0,-49.7579 1/2:48:0,24,24:0:0:24,24:850,846:-138.416,-69.2326,-62.0078,-69.5369,0,-62.3121 1/1:93:0,91,2:0:0:91,2:3199,72:-287.764,-27.3937,0,-281.889,-21.1591,-281.287 1/2:54:0,27,27:0:0:27,27:964,950:-156.283,-77.6876,-69.5597,-78.9494,0,-70.8216 1/2:72:0,31,41:0:0:31,41:1091,1410:-203.666,-114.852,-105.52,-89.162,0,-76.8197 2/2:68:0,0,68:0:0:0,68:0,2341:-210.914,-210.914,-210.914,-20.47,-20.47,0 1/2:96:0,52,44:0:0:52,44:1860,1538:-277.139,-125.465,-109.812,-152.026,0,-138.781 1/2:12:0,6,6:0:0:6,6:216,202:-34.3401,-16.7039,-14.8977,-17.9843,0,-16.1782 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:7:0,6,0:0:0:6,0:205,0:-18.4949,-1.80618,0,-18.4949,-1.80618,-18.4949 1/1:61:0,61,0:0:0:61,0:2169,0:-195.477,-18.3628,0,-195.477,-18.3628,-195.477 1/1:53:0,51,1:0:0:51,1:1815,30:-163.301,-15.3525,0,-160.903,-12.9839,-160.602 1/1:64:0,63,0:0:0:63,0:2253,0:-202.67,-18.9649,0,-202.67,-18.9649,-202.67 1/2:20:0,18,2:0:0:18,2:644,66:-58.2055,-5.66589,-0.247349,-52.8723,0,-52.2702 1/1:11:0,11,0:0:0:11,0:392,0:-35.6203,-3.31133,0,-35.6203,-3.31133,-35.6203 1/2:112:0,63,49:0:0:63,49:2218,1695:-318.653,-138.084,-119.119,-180.917,0,-166.167 1/2:54:0,36,16:0:0:36,16:1290,561:-150.857,-45.6443,-34.8072,-105.207,0,-100.39 1/1:48:0,47,0:0:0:47,0:1668,0:-150.095,-14.1484,0,-150.095,-14.1484,-150.095 1/1:51:0,51,0:0:0:51,0:1803,0:-162.55,-15.3525,0,-162.55,-15.3525,-162.55 chr03 28207182 . T A 26387.4 PASS AB=0.521173;ABP=5.40104;AC=32;AF=0.761905;AN=42;AO=1012;CIGAR=1X;DP=1380;DPB=1380;DPRA=0.964706;EPP=556.744;EPPR=288.606;GTI=0;LEN=1;MEANALT=1;MQM=59.9407;MQMR=59.8995;NS=21;NUMALT=1;ODDS=3.87186;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36186;QR=13194;RO=368;RPL=12;RPP=2097.55;RPPR=759.273;RPR=1000;RUN=1;SAF=772;SAP=610.302;SAR=240;SRF=299;SRP=315.159;SRR=69;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:2,63:2:72:63:2264:-197.181,-12.7302,0 1/1:47:0,47:0:0:47:1687:-152.117,-14.1484,0 0/1:37:19,18:19:684:18:633:-46.157,0,-50.7522 0/1:48:24,24:24:860:24:853:-62.5841,0,-63.269 1/1:94:2,92:2:72:92:3292:-289.658,-21.4601,0 0/1:53:26,27:26:936:27:964:-71.1222,0,-68.6049 0/1:72:41,31:41:1467:31:1101:-77.7169,0,-110.651 0/0:68:68,0:68:2432:0:0:0,-20.47,-218.984 0/1:226:112,114:112:4007:114:4068:-298.275,0,-292.786 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:61:0,61:0:0:61:2196:-197.905,-18.3628,0 1/1:52:0,52:0:0:52:1872:-168.759,-15.6536,0 1/1:63:0,63:0:0:63:2244:-202.221,-18.9649,0 1/1:134:2,132:2:72:132:4676:-414.17,-33.5013,0 1/1:71:0,71:0:0:71:2532:-228.132,-21.3731,0 0/1:111:48,63:48:1728:63:2268:-170.967,0,-122.391 0/1:55:18,37:18:648:37:1332:-103.625,0,-42.0952 1/1:48:0,48:0:0:48:1728:-155.777,-14.4494,0 1/1:51:0,51:0:0:51:1832:-165.161,-15.3525,0 chr03 28254804 . A G 67268.2 PASS AB=0.56769;ABP=47.1061;AC=32;AF=0.761905;AN=42;AO=2476;CIGAR=1X;DP=3130;DPB=3130;DPRA=0.892771;EPP=270.238;EPPR=75.9611;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9883;MQMR=60;NS=21;NUMALT=1;ODDS=32.3901;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87593;QR=23257;RO=652;RPL=2468;RPP=5310.31;RPPR=1375.71;RPR=8;RUN=1;SAF=954;SAP=285.954;SAR=1522;SRF=247;SRP=86.1524;SRR=405;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:163:0,163:0:0:163:5728:-515.642,-49.0679,0 1/1:92:0,92:0:0:92:3284:-295.78,-27.6948,0 0/1:101:60,41:60:2152:41:1452:-100.571,0,-163.543 0/1:156:58,98:58:2068:98:3479:-266.363,0,-139.43 1/1:391:1,390:1:36:390:13710:-1230.1,-114.104,0 0/1:76:36,40:36:1292:40:1432:-106.299,0,-93.7055 0/1:115:39,76:39:1395:76:2688:-207.545,0,-91.2299 0/0:166:166,0:166:5911:0:0:0,-49.971,-532.103 0/1:271:120,151:120:4255:151:5325:-397.813,0,-301.551 0/1:32:10,22:10:356:22:780:-60.8901,0,-22.7483 1/1:18:0,18:0:0:18:639:-57.8382,-5.41854,0 1/1:42:0,42:0:0:42:1488:-134.215,-12.6433,0 1/1:203:0,203:0:0:203:7164:-644.818,-61.1091,0 1/1:208:2,205:2:72:205:7255:-646.174,-55.8363,0 1/1:256:2,253:2:72:253:8971:-800.543,-70.2858,0 1/1:138:1,137:1:36:137:4838:-431.978,-37.9439,0 1/1:85:0,85:0:0:85:3030:-272.93,-25.5876,0 0/1:202:105,97:105:3752:97:3452:-250.086,0,-277.073 0/1:155:51,104:51:1824:104:3706:-287.082,0,-117.781 1/1:183:0,183:0:0:183:6483:-583.564,-55.0885,0 1/1:77:1,76:1:36:76:2689:-238.658,-19.581,0 chr03 28254828 . G C 32917.5 PASS AB=0.548105;ABP=16.7988;AC=32;AF=0.761905;AN=42;AO=1516;CIGAR=1X;DP=1924;DPB=1924;DPRA=0.973404;EPP=3251.68;EPPR=865.171;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9835;MQMR=60;NS=21;NUMALT=1;ODDS=1.58436;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54022;QR=14429;RO=405;RPL=1511;RPP=3251.68;RPPR=865.171;RPR=5;RUN=1;SAF=0;SAP=3294.96;SAR=1516;SRF=0;SRP=882.457;SRR=405;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:0,65:0:0:65:2279:-205.368,-19.567,0 1/1:89:0,89:0:0:89:3188:-287.144,-26.7917,0 0/1:50:30,20:30:1080:20:716:-49.7153,0,-82.4618 0/1:123:51,72:51:1820:72:2580:-195.422,0,-127.055 1/1:248:1,246:1:21:246:8774:-787.475,-72.5394,0 0/1:76:36,40:36:1280:40:1440:-107.019,0,-92.625 0/1:115:38,76:38:1360:76:2689:-207.577,0,-88.0234 0/0:94:93,0:93:3316:0:0:0,-27.9958,-298.3 0/1:148:87,61:87:3084:61:2177:-151.642,0,-233.238 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 1/1:18:0,18:0:0:18:629:-56.9338,-5.41854,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 1/1:126:0,126:0:0:126:4462:-401.723,-37.9298,0 1/1:114:0,114:0:0:114:4072:-366.668,-34.3174,0 1/1:116:0,116:0:0:116:4164:-374.941,-34.9195,0 1/1:92:1,91:1:36:91:3234:-287.681,-24.0965,0 1/1:65:0,65:0:0:65:2313:-208.429,-19.567,0 0/1:91:45,46:45:1604:46:1640:-120.495,0,-117.256 0/1:74:20,54:20:720:54:1931:-151.79,0,-42.8526 1/1:106:0,106:0:0:106:3792:-341.474,-31.9092,0 1/1:76:1,75:1:36:75:2650:-235.146,-19.28,0 chr03 28254927 . C T 33640.7 PASS AB=0.531758;ABP=8.94095;AC=32;AF=0.761905;AN=42;AO=1252;CIGAR=1X;DP=1675;DPB=1675;DPRA=0.79596;EPP=4.57126;EPPR=5.5008;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7955;MQMR=59.5308;NS=21;NUMALT=1;ODDS=8.51955;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44190;QR=14886;RO=422;RPL=1249;RPP=2695.7;RPPR=902.082;RPR=3;RUN=1;SAF=638;SAP=4.00932;SAR=614;SRF=220;SRP=4.6775;SRR=202;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:72:1,71:1:36:71:2524:-223.179,-18.0759,0 1/1:79:1,78:1:36:78:2724:-241.792,-20.1831,0 0/1:49:28,21:28:996:21:748:-52.8948,0,-75.1988 0/1:74:34,39:34:1200:39:1373:-101.666,0,-86.0995 1/1:118:0,118:0:0:118:4172:-375.652,-35.5215,0 0/1:57:30,27:30:1068:27:962:-69.7369,0,-78.3334 0/1:158:82,76:82:2894:76:2701:-195.771,0,-213.128 0/0:99:99,0:99:3458:0:0:0,-29.802,-310.667 0/1:113:54,59:54:1928:59:2074:-152.909,0,-139.778 0/1:11:6,5:6:201:5:180:-13.2407,0,-15.1017 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:29:0,29:0:0:29:1008:-91.0279,-8.72987,0 1/1:93:1,92:1:36:92:3272:-291.096,-24.3975,0 1/1:91:1,90:1:36:90:3161:-281.106,-23.7955,0 1/1:135:1,134:1:36:134:4722:-421.536,-37.0408,0 1/1:49:0,49:0:0:49:1747:-157.512,-14.7505,0 1/1:49:0,49:0:0:49:1751:-157.872,-14.7505,0 0/1:102:47,55:47:1671:55:1936:-143.809,0,-119.969 0/1:113:35,78:35:1222:78:2736:-212.273,0,-76.2631 1/1:67:2,65:2:68:65:2308:-201.515,-13.7113,0 1/1:109:0,109:0:0:109:3803:-342.467,-32.8123,0 chr03 28270051 . T C 21707.6 PASS AB=0.51278;ABP=3.89831;AC=32;AF=0.761905;AN=42;AO=1031;CIGAR=1X;DP=1385;DPB=1385;DPRA=1.48889;EPP=2241.8;EPPR=771.712;GTI=0;LEN=1;MEANALT=1;MQM=59.579;MQMR=59.9548;NS=21;NUMALT=1;ODDS=5.61881;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36835;QR=12703;RO=354;RPL=0;RPP=2241.8;RPPR=754.438;RPR=1031;RUN=1;SAF=0;SAP=2241.8;SAR=1031;SRF=2;SRP=754.438;SRR=352;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:1,98:1:36:98:3497:-311.271,-26.2037,0 1/1:44:0,44:0:0:44:1565:-141.14,-13.2453,0 0/1:72:33,39:33:1180:39:1389:-103.619,0,-84.8339 0/1:61:31,30:31:1116:30:1072:-78.4296,0,-82.3889 1/1:109:3,106:3:108:106:3797:-331.807,-22.7371,0 0/1:66:27,39:27:972:39:1400:-106.368,0,-67.9299 0/1:103:64,39:64:2296:39:1395:-94.8422,0,-175.895 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/1:144:79,65:79:2831:65:2313:-164.994,0,-211.672 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:43:0,43:0:0:43:1534:-138.158,-12.9443,0 1/1:98:0,98:0:0:98:3488:-313.954,-29.5009,0 1/1:79:0,79:0:0:79:2820:-254.021,-23.7814,0 1/1:74:0,74:0:0:74:2660:-239.59,-22.2762,0 1/1:48:0,48:0:0:48:1716:-154.726,-14.4494,0 1/1:37:0,37:0:0:37:1309:-118.075,-11.1381,0 0/1:90:38,52:38:1364:52:1872:-141.639,0,-95.968 0/1:78:28,50:28:1008:50:1792:-138.081,0,-67.556 1/1:34:0,34:0:0:34:1212:-109.386,-10.235,0 1/1:44:0,44:0:0:44:1572:-141.753,-13.2453,0 chr03 28270063 . C T 22125.2 PASS AB=0.521531;ABP=5.53503;AC=32;AF=0.761905;AN=42;AO=1045;CIGAR=1X;DP=1394;DPB=1394;DPRA=1.49889;EPP=2272.2;EPPR=760.854;GTI=0;LEN=1;MEANALT=1;MQM=59.4986;MQMR=60;NS=21;NUMALT=1;ODDS=7.23299;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37465;QR=12473;RO=349;RPL=1045;RPP=2272.2;RPPR=760.854;RPR=0;RUN=1;SAF=0;SAP=2272.2;SAR=1045;SRF=0;SRP=760.854;SRR=349;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:1,99:1:36:99:3550:-315.619,-26.5047,0 1/1:47:0,47:0:0:47:1688:-152.048,-14.1484,0 0/1:72:32,40:32:1144:40:1430:-107.092,0,-81.5954 0/1:59:29,30:29:1040:30:1080:-79.7525,0,-76.1536 1/1:109:3,106:3:108:106:3807:-332.703,-22.7371,0 0/1:66:27,39:27:964:39:1400:-106.368,0,-67.2088 0/1:106:66,40:66:2360:40:1421:-96.2762,0,-180.749 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/1:143:77,66:77:2744:66:2372:-169.834,0,-204.156 0/1:12:5,7:5:165:7:252:-19.4166,0,-11.5612 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:43:0,43:0:0:43:1529:-137.793,-12.9443,0 1/1:100:0,100:0:0:100:3576:-321.834,-30.103,0 1/1:81:0,81:0:0:81:2912:-262.27,-24.3834,0 1/1:73:0,73:0:0:73:2620:-235.992,-21.9752,0 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 1/1:36:0,36:0:0:36:1284:-115.819,-10.8371,0 0/1:91:37,54:37:1332:54:1932:-146.629,0,-92.7887 0/1:78:27,51:27:968:51:1836:-142.04,0,-63.957 1/1:35:0,35:0:0:35:1260:-113.148,-10.5361,0 1/1:44:0,44:0:0:44:1580:-142.473,-13.2453,0 chr03 28300418 . CGA AGA 8376.37 PASS AB=0.467742;ABP=4.69144;AC=32;AF=0.761905;AN=42;AO=395;CIGAR=1X2M;DP=537;DPB=537;DPRA=0.675676;EPP=852.078;EPPR=302.673;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.03544;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14035;QR=4763;RO=138;RPL=1;RPP=852.078;RPPR=302.673;RPR=394;RUN=1;SAF=0;SAP=860.742;SAR=395;SRF=0;SRP=302.673;SRR=138;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:0,63:0:0:63:2233:-201.233,-18.9649,0 1/1:16:0,16:0:0:16:568:-51.4519,-4.81648,0 0/1:18:13,5:13:458:5:172:-10.3989,0,-36.1353 0/1:14:7,7:7:236:7:252:-18.8145,0,-17.3542 1/1:60:2,58:2:72:58:2067:-179.464,-11.2251,0 0/1:13:7,6:7:219:6:212:-15.5114,0,-16.1032 0/1:21:10,11:10:346:11:388:-28.9357,0,-25.1509 0/0:37:37,0:37:1272:0:0:0,-11.1381,-114.777 0/1:46:25,21:25:859:21:745:-53.5268,0,-63.7752 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 1/1:56:0,52:0:0:52:1855:-166.888,-15.6536,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:11:0,11:0:0:11:372:-33.8038,-3.31133,0 0/1:49:30,19:30:1051:19:680:-46.7787,0,-80.1496 0/1:20:6,14:6:214:14:491:-38.5005,0,-13.5872 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 chr03 28328781 . G A 18514.1 PASS AB=0.533654;ABP=7.10269;AC=32;AF=0.761905;AN=42;AO=694;CIGAR=1X;DP=933;DPB=933;DPRA=1.0878;EPP=1510.01;EPPR=521.992;GTI=0;LEN=1;MEANALT=1;MQM=51.9885;MQMR=59.7531;NS=21;NUMALT=1;ODDS=6.57332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24763;QR=8549;RO=239;RPL=336;RPP=4.5247;RPPR=11.7416;RPR=358;RUN=1;SAF=336;SAP=4.5247;SAR=358;SRF=104;SRP=11.7416;SRR=135;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:0,46:0:0:46:1651:-148.554,-13.8474,0 1/1:14:0,14:0:0:14:500:-44.8644,-4.21442,0 0/1:20:11,9:11:396:9:316:-22.7205,0,-29.9621 0/1:36:17,19:17:612:19:684:-50.9563,0,-44.5764 1/1:66:0,66:0:0:66:2344:-209.024,-19.868,0 0/1:31:18,13:18:644:13:468:-32.8139,0,-48.954 0/1:65:35,30:35:1260:30:1080:-76.4047,0,-94.1385 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.769 0/1:65:28,37:28:999:37:1309:-98.1529,0,-70.6552 0/1:9:4,5:4:144:5:180:-13.8012,0,-10.6043 1/1:6:0,6:0:0:6:212:-19.3172,-1.80618,0 1/1:12:0,12:0:0:12:432:-39.1226,-3.61236,0 1/1:55:0,55:0:0:55:1967:-176.076,-16.5567,0 1/1:49:0,49:0:0:49:1749:-157.327,-14.7505,0 1/1:44:3,41:3:108:41:1456:-120.563,-3.17015,0 1/1:20:0,20:0:0:20:716:-64.6511,-6.0206,0 1/1:10:0,10:0:0:10:360:-32.6338,-3.0103,0 0/1:82:41,41:41:1442:41:1468:-106.61,0,-105.37 0/1:108:40,68:40:1436:68:2435:-186.43,0,-97.0172 1/1:55:1,54:1:36:54:1916:-166.826,-12.9584,0 1/1:99:0,99:0:0:99:3520:-314.546,-29.802,0 chr03 28342162 . CGCT TGCT,TGCC 13150.5 PASS AB=0.522222,0.472222;ABP=3.78238,4.21667;AC=32,10;AF=0.761905,0.238095;AN=42;AO=506,100;CIGAR=1X3M,1X2M1X;DP=609;DPB=609;DPRA=2.125,0.695979;EPP=1101.78,220.158;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.6,2;MQM=59.913,59.82;MQMR=0;NS=21;NUMALT=2;ODDS=1.71195;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18007,3504;QR=0;RO=0;RPL=0,0;RPP=1101.78,220.158;RPPR=0;RPR=506,100;RUN=1,1;SAF=506,100;SAP=1101.78,220.158;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74,0:0:0:74,0:2633,0:-237.216,-22.2762,0,-237.216,-22.2762,-237.216 1/1:28:0,28,0:0:0:28,0:1000,0:-90.3154,-8.42884,0,-90.3154,-8.42884,-90.3154 1/2:12:0,7,5:0:0:7,5:252,173:-34.8156,-14.4042,-12.297,-20.762,0,-19.2569 1/2:9:0,1,8:0:0:1,8:36,288:-26.7966,-23.8592,-23.5581,-3.29724,0,-0.889005 1/1:75:0,75,0:0:0:75,0:2643,0:-238.111,-22.5773,0,-238.111,-22.5773,-238.111 1/2:34:0,16,18:0:0:16,18:576,638:-99.331,-52.3297,-47.5133,-47.3585,0,-41.94 1/2:25:0,9,16:0:0:9,16:319,543:-70.3613,-44.368,-41.6588,-26.3421,0,-21.5256 2/2:14:0,0,14:0:0:0,14:0,483:-43.7935,-43.7935,-43.7935,-4.21442,-4.21442,0 1/2:65:0,44,20:0:0:44,20:1572,697:-184.925,-56.748,-43.5027,-128.245,0,-122.224 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:14:0,14,0:0:0:14,0:500,0:-45.3362,-4.21442,0,-45.3362,-4.21442,-45.3362 1/1:27:0,27,0:0:0:27,0:964,0:-87.0768,-8.12781,0,-87.0768,-8.12781,-87.0768 1/1:28:0,27,0:0:0:27,0:972,0:-87.4381,-8.12781,0,-87.4381,-8.12781,-87.4381 1/1:41:0,41,0:0:0:41,0:1472,0:-132.77,-12.3422,0,-132.77,-12.3422,-132.77 1/1:41:0,40,0:0:0:40,0:1402,0:-126.114,-12.0412,0,-126.114,-12.0412,-126.114 1/1:42:0,41,1:0:0:41,1:1449,36:-130.344,-12.3422,0,-127.407,-9.04499,-127.106 1/2:18:0,7,11:0:0:7,11:252,395:-53.1431,-32.5808,-30.4736,-20.9217,0,-17.6104 1/2:11:0,7,4:0:0:7,4:252,143:-32.5808,-12.0173,-9.91011,-20.9217,0,-19.7176 1/1:28:0,28,0:0:0:28,0:993,0:-89.6825,-8.42884,0,-89.6825,-8.42884,-89.6825 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 chr03 28342192 . C T 11225.9 PASS AB=0.544944;ABP=6.13332;AC=32;AF=0.761905;AN=42;AO=515;CIGAR=1X;DP=612;DPB=612;DPRA=2.13571;EPP=1112.65;EPPR=211.472;GTI=1;LEN=1;MEANALT=1.05;MQM=59.932;MQMR=59.8125;NS=21;NUMALT=1;ODDS=2.41034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18340;QR=3435;RO=96;RPL=513;RPP=1104.01;RPPR=211.472;RPR=2;RUN=1;SAF=514;SAP=1112.65;SAR=1;SRF=96;SRP=211.472;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,75:0:0:75:2658:-239.464,-22.5773,0 1/1:28:0,28:0:0:28:1000:-90.312,-8.42884,0 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 1/1:79:0,78:0:0:78:2774:-249.628,-23.4803,0 0/1:34:18,16:18:648:16:563:-40.7641,0,-48.4169 0/1:23:14,9:14:500:9:320:-22.2187,0,-38.4009 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3348 0/1:64:18,46:18:648:46:1635:-128.172,0,-39.386 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:25:0,25:0:0:25:880:-79.5171,-7.52575,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 1/1:42:0,42:0:0:42:1508:-136.015,-12.6433,0 1/1:42:0,42:0:0:42:1512:-136.375,-12.6433,0 1/1:44:1,43:1:36:43:1518:-133.311,-9.64705,0 0/1:18:11,7:11:383:7:252:-17.6104,0,-29.3847 0/1:11:4,7:4:144:7:248:-19.3529,0,-10.0023 1/1:27:0,27:0:0:27:952:-85.9952,-8.12781,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 chr03 28342193 . G A 1474.48 PASS AB=0.461111;ABP=5.37479;AC=10;AF=0.238095;AN=42;AO=97;CIGAR=1X;DP=610;DPB=610;DPRA=0.694118;EPP=213.643;EPPR=1108.31;GTI=1;LEN=1;MEANALT=1;MQM=59.8144;MQMR=59.963;NS=21;NUMALT=1;ODDS=2.93658;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3459;QR=18345;RO=513;RPL=97;RPP=213.643;RPPR=1099.67;RPR=0;RUN=1;SAF=97;SAP=213.643;SAR=0;SRF=512;SRP=1108.31;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.282 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6725 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/0:78:78,0:78:2777:0:0:0,-23.4803,-250.155 0/1:33:16,17:16:576:17:608:-45.118,0,-42.241 0/1:25:9,16:9:324:16:556:-42.8362,0,-21.9801 1/1:13:0,13:0:0:13:468:-42.4563,-3.91339,0 0/1:67:47,20:47:1688:20:720:-44.9598,0,-132.038 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:25:25,0:25:877:0:0:0,-7.52575,-79.2452 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/0:40:40,0:40:1428:0:0:0,-12.0412,-128.818 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/0:43:42,1:42:1495:1:36:0,-9.34601,-131.246 0/1:18:7,11:7:252:11:387:-29.7474,0,-17.6104 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 chr03 28355717 . 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GAA AAG,AAA 12276 PASS AB=0.343137,0.656863;ABP=46.6101,46.6101;AC=32,10;AF=0.761905,0.238095;AN=42;AO=415,151;CIGAR=1X1M1X,1X2M;DP=567;DPB=567;DPRA=1.61765,0.851638;EPP=904.171,330.903;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.45,1.88889;MQM=59.4771,59.9205;MQMR=0;NS=21;NUMALT=2;ODDS=1.7067;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=14765,5394;QR=0;RO=0;RPL=415,151;RPP=904.171,330.903;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=904.171,330.903;SAR=415,151;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:0,36,0:0:0:36,0:1277,0:-114.859,-10.8371,0,-114.859,-10.8371,-114.859 1/1:36:0,36,0:0:0:36,0:1289,0:-116.308,-10.8371,0,-116.308,-10.8371,-116.308 1/2:18:0,4,14:0:0:4,14:142,500:-52.6915,-41.1218,-39.9176,-11.9251,0,-7.71067 1/2:24:0,12,12:0:0:12,12:430,417:-69.3151,-34.2471,-30.6348,-35.4207,0,-31.8083 1/1:26:0,26,0:0:0:26,0:923,0:-83.3802,-7.82678,0,-83.3802,-7.82678,-83.3802 1/2:20:0,5,15:0:0:5,15:180,532:-58.3576,-43.6976,-42.1925,-15.018,0,-10.5025 1/2:38:0,6,32:0:0:6,32:208,1137:-109.718,-93.004,-91.1978,-17.0592,0,-7.42625 2/2:17:0,0,17:0:0:0,17:0,612:-55.4134,-55.4134,-55.4134,-5.11751,-5.11751,0 1/2:67:0,26,41:0:0:26,41:916,1476:-195.312,-120.794,-112.967,-74.8732,0,-62.531 1/2:6:0,1,5:0:0:1,5:36,180:-17.9843,-15.0469,-14.7459,-3.29724,0,-1.79209 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:24:0,24,0:0:0:24,0:860,0:-77.0865,-7.22472,0,-77.0865,-7.22472,-77.0865 1/1:34:0,34,0:0:0:34,0:1208,0:-109.016,-10.235,0,-109.016,-10.235,-109.016 1/1:24:0,24,0:0:0:24,0:862,0:-77.8823,-7.22472,0,-77.8823,-7.22472,-77.8823 1/1:88:0,88,0:0:0:88,0:3125,0:-281.467,-26.4906,0,-281.467,-26.4906,-281.467 1/1:26:0,26,0:0:0:26,0:917,0:-82.8446,-7.82678,0,-82.8446,-7.82678,-82.8446 1/1:26:0,26,0:0:0:26,0:922,0:-83.2959,-7.82678,0,-83.2959,-7.82678,-83.2959 1/2:15:0,6,9:0:0:6,9:212,324:-44.0596,-26.7966,-24.9904,-17.6188,0,-14.9096 1/2:16:0,10,6:0:0:10,6:360,216:-47.3585,-17.9843,-14.974,-29.734,0,-27.9278 1/1:15:0,15,0:0:0:15,0:538,0:-48.7558,-4.51545,0,-48.7558,-4.51545,-48.7558 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 chr03 28383792 . A T 20769.6 PASS AB=0.498239;ABP=3.02559;AC=32;AF=0.761905;AN=42;AO=1133;CIGAR=1X;DP=1492;DPB=1492;DPRA=1.03116;EPP=2250.93;EPPR=687.788;GTI=0;LEN=1;MEANALT=1.05;MQM=33.8711;MQMR=42.8994;NS=21;NUMALT=1;ODDS=7.479;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40515;QR=12838;RO=358;RPL=25;RPP=2250.93;RPPR=687.788;RPR=1108;RUN=1;SAF=1133;SAP=2463.29;SAR=0;SRF=358;SRP=780.397;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:2,105:2:72:105:3738:-287.139,-25.5203,0 1/1:29:1,28:1:32:28:1004:-73.9807,-5.57124,0 0/1:69:32,37:32:1148:37:1324:-85.5359,0,-80.3952 0/1:97:45,52:45:1620:52:1864:-119.49,0,-112.972 1/1:182:0,182:0:0:182:6536:-518.421,-54.7875,0 0/1:66:38,28:38:1368:28:1004:-57.7627,0,-100.706 0/1:90:41,49:41:1457:49:1745:-108.092,0,-100.696 0/0:69:69,0:69:2469:0:0:0,-20.7711,-214.485 0/1:174:97,77:97:3484:77:2768:-170.072,0,-254.19 0/1:7:5,2:5:180:2:72:-3.69641,0,-13.904 1/1:6:0,6:0:0:6:212:-16.6575,-1.80618,0 1/1:7:0,7:0:0:7:252:-19.7551,-2.10721,0 1/1:78:0,78:0:0:78:2777:-220.462,-23.4803,0 1/1:70:0,70:0:0:70:2473:-195.464,-21.0721,0 1/1:114:0,114:0:0:114:4095:-321.473,-34.3174,0 1/1:74:0,74:0:0:74:2621:-211.459,-22.2762,0 1/1:75:0,75:0:0:75:2684:-215.092,-22.5773,0 0/1:41:19,22:19:684:22:792:-47.8503,0,-47.6521 0/1:24:8,16:8:288:16:576:-38.1723,0,-18.0196 1/1:69:1,68:1:36:68:2444:-185.093,-17.2904,0 1/1:44:0,43:0:0:43:1534:-118.083,-12.9443,0 chr03 28416247 . C A 30622 PASS AB=0.538101;ABP=13.7658;AC=32;AF=0.761905;AN=42;AO=1455;CIGAR=1X;DP=2005;DPB=2005;DPRA=0.605229;EPP=3162.5;EPPR=1190.81;GTI=0;LEN=1;MEANALT=1.1;MQM=49.9361;MQMR=59.9397;NS=21;NUMALT=1;ODDS=6.13526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52067;QR=19587;RO=547;RPL=0;RPP=3162.5;RPPR=1190.81;RPR=1455;RUN=1;SAF=1455;SAP=3162.5;SAR=0;SRF=547;SRP=1190.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:141:0,141:0:0:141:5068:-454.235,-42.4452,0 1/1:36:0,36:0:0:36:1288:-115.228,-10.8371,0 0/1:185:82,103:82:2948:103:3662:-272.223,0,-209.862 0/1:81:27,54:27:972:54:1928:-148.638,0,-63.4145 1/1:188:2,186:2:72:186:6613:-584.947,-49.7569,0 0/1:72:33,37:33:1184:37:1332:-97.3135,0,-85.4574 0/1:128:62,66:62:2224:66:2345:-170.583,0,-161.892 0/0:153:153,0:153:5472:0:0:0,-46.0576,-492.513 0/1:103:46,57:46:1644:57:2048:-152.806,0,-117.243 0/1:23:15,8:15:536:8:288:-18.8484,0,-41.6511 1/1:13:0,13:0:0:13:464:-41.3339,-3.91339,0 1/1:36:0,36:0:0:36:1296:-115.699,-10.8371,0 1/1:146:1,145:1:36:145:5151:-458.409,-40.3521,0 1/1:118:0,118:0:0:118:4224:-378.849,-35.5215,0 1/1:112:0,112:0:0:112:4024:-360.755,-33.7154,0 1/1:31:0,31:0:0:31:1116:-100.408,-9.33193,0 1/1:61:0,61:0:0:61:2196:-197.226,-18.3628,0 0/1:158:90,67:90:3211:67:2408:-167.865,0,-241.591 0/1:103:36,67:36:1288:67:2412:-185.17,0,-85.2175 1/1:62:0,62:0:0:62:2224:-198.522,-18.6639,0 1/1:55:0,55:0:0:55:1980:-176.387,-16.5567,0 chr03 28416256 . TAAAGGT TGAGGT,TAAGGT 42925.6 PASS AB=0.539181,0.45731;ABP=14.4112,16.5445;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1448,541;CIGAR=1M1D1X4M,1M1D5M;DP=1996;DPB=1711.14;DPRA=0.624324,1.83191;EPP=3147.3,1177.78;EPPR=0;GTI=0;LEN=6,1;MEANALT=1.8,2.27273;MQM=49.942,59.9482;MQMR=0;NS=21;NUMALT=2;ODDS=6.48488;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51839,19263;QR=0;RO=0;RPL=0,0;RPP=3147.3,1177.78;RPPR=0;RPR=1448,541;RUN=1,1;SAF=1448,541;SAP=3147.3,1177.78;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:140:0,139,0:0:0:139,0:4939,0:-442.539,-41.8432,0,-442.539,-41.8432,-442.539 1/1:35:0,35,0:0:0:35,0:1260,0:-112.695,-10.5361,0,-112.695,-10.5361,-112.695 1/2:185:0,104,81:0:0:104,81:3708,2867:-534.235,-233.88,-202.573,-300.709,0,-276.326 1/2:84:0,55,29:0:0:55,29:1980,1044:-246.288,-85.5449,-68.9883,-161.102,0,-152.372 1/1:187:0,185,2:0:0:185,2:6616,68:-591.671,-55.6906,0,-586.155,-49.8349,-585.553 1/2:73:0,39,34:0:0:39,34:1403,1201:-211.138,-98.1302,-86.3901,-113.362,0,-103.127 1/2:130:0,64,65:0:0:64,65:2293,2324:-374.463,-189.493,-170.228,-184.965,0,-165.398 2/2:148:0,0,147:0:0:0,147:0,5276:-474.61,-474.61,-474.61,-44.2514,-44.2514,0 1/2:103:0,58,45:0:0:58,45:2081,1596:-299.349,-130.384,-112.924,-169.321,0,-155.775 1/2:23:0,8,15:0:0:8,15:279,517:-64.6161,-42.3392,-39.9309,-22.6203,0,-18.1049 1/1:13:0,13,0:0:0:13,0:464,0:-41.5085,-3.91339,0,-41.5085,-3.91339,-41.5085 1/1:35:0,35,0:0:0:35,0:1258,0:-112.393,-10.5361,0,-112.393,-10.5361,-112.393 1/1:144:0,143,1:0:0:143,1:5125,36:-459.496,-43.0473,0,-456.558,-39.75,-456.257 1/1:120:0,119,0:0:0:119,0:4256,0:-381.372,-35.8226,0,-381.372,-35.8226,-381.372 1/1:112:0,112,0:0:0:112,0:4013,0:-359.661,-33.7154,0,-359.661,-33.7154,-359.661 1/1:31:0,31,0:0:0:31,0:1116,0:-100.408,-9.33193,0,-100.408,-9.33193,-100.408 1/1:60:0,60,0:0:0:60,0:2152,0:-193.281,-18.0618,0,-193.281,-18.0618,-193.281 1/2:156:0,66,88:0:0:66,88:2367,3125:-446.331,-254.68,-234.812,-191.7,0,-165.209 1/2:101:0,67,34:0:0:67,34:2408,1209:-294.177,-98.8791,-78.7101,-195.654,0,-185.419 1/1:61:0,61,0:0:0:61,0:2184,0:-195.157,-18.3628,0,-195.157,-18.3628,-195.157 1/1:55:0,54,0:0:0:54,0:1937,0:-172.46,-16.2556,0,-172.46,-16.2556,-172.46 chr03 28491844 . A G 9107.64 PASS AB=0.446933;ABP=28.1313;AC=10;AF=0.238095;AN=42;AO=545;CIGAR=1X;DP=2426;DPB=2426;DPRA=1.04264;EPP=1186.46;EPPR=4087.55;GTI=0;LEN=1;MEANALT=1;MQM=50.4147;MQMR=59.4125;NS=21;NUMALT=1;ODDS=16.2747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19481;QR=67357;RO=1881;RPL=545;RPP=1186.46;RPPR=4087.55;RPR=0;RUN=1;SAF=0;SAP=1186.46;SAR=545;SRF=0;SRP=4087.55;SRR=1881;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:128:128,0:128:4596:0:0:0,-38.5318,-413.612 0/0:98:98,0:98:3520:0:0:0,-29.5009,-316.98 0/1:161:77,84:77:2756:84:2996:-219.813,0,-199.525 0/1:108:65,43:65:2332:43:1544:-105.169,0,-177.628 0/0:259:259,0:259:9261:0:0:0,-77.9668,-832.76 0/1:101:47,54:47:1692:54:1932:-143.418,0,-122.142 0/1:187:102,85:102:3641:85:3040:-216.936,0,-271.577 1/1:81:0,81:0:0:81:2906:-261.17,-24.3834,0 0/1:248:131,117:131:4681:117:4175:-295.499,0,-346.608 0/1:38:29,9:29:1032:9:312:-16.9312,0,-81.7413 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/0:54:54,0:54:1944:0:0:0,-16.2556,-175.143 0/0:78:77,1:77:2752:1:36:0,-19.8889,-244.218 0/0:147:147,0:147:5256:0:0:0,-44.2514,-472.592 0/0:195:195,0:195:6962:0:0:0,-58.7008,-626.353 0/0:96:96,0:96:3440:0:0:0,-28.8989,-308.857 0/0:77:77,0:77:2760:0:0:0,-23.1793,-248.579 0/1:104:61,43:61:2192:43:1540:-106.916,0,-165.923 0/1:80:56,24:56:2012:24:856:-52.5344,0,-157.254 0/0:110:106,4:106:3804:4:144:0,-19.9803,-329.421 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.659 chr03 28491912 . GTTAA GTAA,GTAG 19560.6 PASS AB=0.413223,0.584022;ABP=26.7529,25.2694;AC=31,11;AF=0.738095,0.261905;AN=42;AO=621,288;CIGAR=1M1D3M,1M1D2M1X;DP=911;DPB=728.8;DPRA=1.22661,2.86508;EPP=1351.49,602.608;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.63158,2;MQM=59.8663,57.0868;MQMR=0;NS=21;NUMALT=2;ODDS=1.75113;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22075,10158;QR=0;RO=0;RPL=0,3;RPP=1351.49,602.608;RPPR=0;RPR=621,285;RUN=1,1;SAF=621,288;SAP=1351.49,628.394;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35,0:0:0:35,0:1239,0:-111.814,-10.5361,0,-111.814,-10.5361,-111.814 1/1:15:0,15,0:0:0:15,0:540,0:-48.9155,-4.51545,0,-48.9155,-4.51545,-48.9155 1/2:65:0,19,46:0:0:19,46:676,1609:-186.2,-131.105,-125.386,-55.4484,0,-41.601 1/2:44:0,17,27:0:0:17,27:608,958:-127.974,-78.3957,-73.2782,-49.9345,0,-41.8067 1/1:79:0,78,1:0:0:78,1:2759,36:-248.191,-23.4803,0,-245.253,-20.1831,-244.952 1/2:28:0,14,14:0:0:14,14:500,504:-82.146,-41.3836,-37.1692,-41.1204,0,-36.906 1/2:80:0,27,53:0:0:27,53:955,1878:-230.371,-152.593,-144.466,-78.1303,0,-62.1757 2/2:66:0,0,66:0:0:0,66:0,2305:-207.573,-207.573,-207.573,-19.868,-19.868,0 1/2:69:0,36,32:0:0:36,32:1281,1135:-196.937,-92.5356,-81.6985,-104.473,0,-94.8401 2/2:6:0,0,6:0:0:0,6:0,207:-18.8481,-18.8481,-18.8481,-1.80618,-1.80618,0 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:14:0,14,0:0:0:14,0:496,0:-44.9743,-4.21442,0,-44.9743,-4.21442,-44.9743 1/1:25:0,25,0:0:0:25,0:896,0:-80.9604,-7.52575,0,-80.9604,-7.52575,-80.9604 1/1:21:0,21,0:0:0:21,0:748,0:-67.6453,-6.32163,0,-67.6453,-6.32163,-67.6453 1/1:184:0,181,2:0:0:181,2:6426,72:-578.044,-54.4864,0,-572.169,-48.5783,-571.567 1/1:25:0,25,0:0:0:25,0:887,0:-80.1481,-7.52575,0,-80.1481,-7.52575,-80.1481 1/1:26:0,26,0:0:0:26,0:917,0:-82.8391,-7.82678,0,-82.8391,-7.82678,-82.8391 1/2:60:0,31,29:0:0:31,29:1112,1027:-174.314,-83.6106,-74.2787,-91.0585,0,-82.3286 1/2:17:0,6,11:0:0:6,11:216,393:-50.0216,-32.3961,-30.5899,-17.9843,0,-14.673 1/1:24:0,23,1:0:0:23,1:828,34:-74.4992,-6.92369,0,-71.7426,-3.82644,-71.4416 1/1:22:0,22,0:0:0:22,0:775,0:-70.0607,-6.62266,0,-70.0607,-6.62266,-70.0607 chr03 28531402 . A G 13611 PASS AB=0.516082;ABP=6.08338;AC=10;AF=0.238095;AN=42;AO=799;CIGAR=1X;DP=3351;DPB=3351;DPRA=3.64955;EPP=1738.02;EPPR=5494.75;GTI=0;LEN=1;MEANALT=1.13333;MQM=55.9061;MQMR=56.3331;NS=21;NUMALT=1;ODDS=29.7401;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28184;QR=91302;RO=2549;RPL=0;RPP=1738.02;RPPR=5494.75;RPR=799;RUN=1;SAF=0;SAP=1738.02;SAR=799;SRF=0;SRP=5538.09;SRR=2549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:88:86,2:86:3075:2:72:0,-19.6588,-269.595 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.6 0/1:56:32,24:32:1152:24:843:-59.2147,0,-87.0583 0/1:41:10,31:10:360:31:1112:-87.9176,0,-20.3807 0/0:174:173,1:173:6173:1:36:0,-48.7835,-550.2 0/1:66:32,34:32:1152:34:1195:-87.7363,0,-84.0256 0/1:104:56,48:56:2012:48:1707:-122.497,0,-149.927 1/1:85:0,85:0:0:85:3004:-270.079,-25.5876,0 0/1:124:54,70:54:1919:70:2444:-181.564,0,-135.461 0/1:395:180,215:180:6421:215:7591:-562.8,0,-456.873 0/0:709:708,1:708:25373:1:36:0,-210.131,-2274.95 0/0:500:496,2:496:17774:2:72:0,-143.543,-1589.46 0/0:56:55,1:55:1963:1:36:0,-13.2594,-172.529 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.203 0/0:88:88,0:88:3159:0:0:0,-26.4906,-283.644 0/0:42:42,0:42:1508:0:0:0,-12.6433,-134.437 0/0:44:44,0:44:1571:0:0:0,-13.2453,-141.581 0/1:539:270,268:270:9686:268:9428:-684.215,0,-706.271 0/1:43:27,16:27:964:16:572:-38.791,0,-74.0721 0/0:40:39,1:39:1404:1:36:0,-8.44463,-122.799 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.77 chr03 28531420 . G A 54687.9 PASS AB=0.47957;ABP=8.06773;AC=32;AF=0.761905;AN=42;AO=2566;CIGAR=1X;DP=3391;DPB=3391;DPRA=1.81319;EPP=5575.01;EPPR=1790.13;GTI=0;LEN=1;MEANALT=1.1;MQM=56.325;MQMR=55.9891;NS=21;NUMALT=1;ODDS=29.3019;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91750;QR=29413;RO=823;RPL=2566;RPP=5575.01;RPPR=1790.13;RPR=0;RUN=1;SAF=0;SAP=5575.01;SAR=2566;SRF=0;SRP=1790.13;SRR=823;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:2,86:2:72:86:3084:-270.357,-19.6588,0 1/1:67:0,67:0:0:67:2412:-217.128,-20.169,0 0/1:57:25,32:25:884:32:1148:-86.3991,0,-62.6015 0/1:41:31,10:31:1112:10:360:-20.3807,0,-87.8927 1/1:177:3,174:3:108:174:6237:-549.499,-43.2413,0 0/1:66:33,32:33:1184:32:1144:-83.2549,0,-86.7058 0/1:107:50,57:50:1796:57:2043:-151.811,0,-129.592 0/0:91:91,0:91:3235:0:0:0,-27.3937,-290.803 0/1:124:70,54:70:2491:54:1936:-136.967,0,-185.629 0/1:402:221,181:221:7901:181:6476:-459.639,0,-588.368 1/1:707:0,707:0:0:707:25246:-2267.55,-212.828,0 1/1:501:0,501:0:0:501:17905:-1608.44,-150.816,0 1/1:56:1,55:1:36:55:1971:-173.711,-13.2594,0 1/1:57:0,57:0:0:57:2043:-183.762,-17.1587,0 1/1:90:0,89:0:0:89:3179:-284.863,-26.7917,0 1/1:42:0,42:0:0:42:1504:-135.457,-12.6433,0 1/1:45:0,45:0:0:45:1592:-143.481,-13.5464,0 0/1:555:279,276:279:9990:276:9855:-717.188,0,-730.32 0/1:43:16,27:16:568:27:968:-74.4281,0,-38.4308 1/1:42:1,41:1:36:41:1463:-128.119,-9.0467,0 1/1:33:0,33:0:0:33:1184:-106.77,-9.93399,0 chr03 28539028 . C T 11713.6 PASS AB=0.620968;ABP=34.5317;AC=32;AF=0.761905;AN=42;AO=557;CIGAR=1X;DP=665;DPB=665;DPRA=2.50769;EPP=1212.52;EPPR=237.529;GTI=2;LEN=1;MEANALT=1;MQM=46.3788;MQMR=58.7407;NS=21;NUMALT=1;ODDS=0.330088;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19871;QR=3843;RO=108;RPL=0;RPP=1212.52;RPPR=237.529;RPR=557;RUN=1;SAF=0;SAP=1212.52;SAR=557;SRF=0;SRP=237.529;SRR=108;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:20:0,20:0:0:20:708:-63.7132,-6.0206,0 1/1:15:0,15:0:0:15:540:-47.5877,-4.51545,0 0/1:7:3,4:3:108:4:144:-11.0435,0,-7.96796 0/1:10:1,9:1:36:9:309:-24.9749,0,-0.587975 1/1:40:1,39:1:36:39:1400:-121.824,-8.44293,0 0/1:6:1,5:1:36:5:176:-14.1263,0,-1.79209 0/1:15:3,12:3:100:12:432:-34.0709,0,-4.81499 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4236 0/1:25:11,14:11:392:14:504:-37.9876,0,-28.0943 0/1:80:31,49:31:1104:49:1734:-130.372,0,-75.3779 1/1:100:0,100:0:0:100:3568:-315.334,-30.103,0 1/1:146:0,146:0:0:146:5215:-462.472,-43.9504,0 1/1:19:0,19:0:0:19:680:-60.8922,-5.71957,0 1/1:14:0,14:0:0:14:504:-45.4325,-4.21442,0 1/1:13:0,13:0:0:13:464:-41.8779,-3.91339,0 1/1:9:0,9:0:0:9:324:-29.4092,-2.70927,0 1/1:5:0,5:0:0:5:180:-16.4515,-1.50515,0 0/1:98:42,56:42:1491:56:1993:-146.849,0,-104.764 0/1:7:2,5:2:72:5:176:-13.9988,0,-4.69962 1/1:8:0,8:0:0:8:284:-25.6121,-2.40824,0 1/1:15:0,15:0:0:15:536:-47.2589,-4.51545,0 chr03 28539088 . T A 11267.2 PASS AB=0.611814;ABP=28.7473;AC=32;AF=0.761905;AN=42;AO=536;CIGAR=1X;DP=642;DPB=642;DPRA=2.41923;EPP=1166.92;EPPR=233.186;GTI=2;LEN=1;MEANALT=1;MQM=46.1847;MQMR=58.5566;NS=21;NUMALT=1;ODDS=0.916952;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19145;QR=3800;RO=106;RPL=536;RPP=1166.92;RPPR=233.186;RPR=0;RUN=1;SAF=0;SAP=1166.92;SAR=536;SRF=0;SRP=233.186;SRR=106;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:19:0,19:0:0:19:680:-61.2041,-5.71957,0 1/1:15:0,15:0:0:15:540:-47.5877,-4.51545,0 0/1:7:3,4:3:108:4:144:-11.0435,0,-7.96796 0/1:10:1,9:1:36:9:316:-25.5965,0,-0.587975 1/1:36:1,35:1:36:35:1248:-108.215,-7.23881,0 0/1:6:1,5:1:36:5:180:-14.46,0,-1.79209 0/1:14:3,11:3:108:11:396:-31.1468,0,-5.86075 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4236 0/1:24:11,13:11:392:13:464:-34.6943,0,-28.3953 0/1:75:30,45:30:1068:45:1588:-118.631,0,-73.6381 1/1:99:0,99:0:0:99:3536:-310.491,-29.802,0 1/1:141:0,141:0:0:141:5033:-446.492,-42.4452,0 1/1:18:0,18:0:0:18:644:-57.6711,-5.41854,0 1/1:15:0,15:0:0:15:532:-47.9466,-4.51545,0 1/1:12:0,12:0:0:12:432:-39.0086,-3.61236,0 1/1:9:0,9:0:0:9:324:-29.4092,-2.70927,0 1/1:5:0,5:0:0:5:180:-16.4515,-1.50515,0 0/1:95:41,54:41:1476:54:1936:-142.671,0,-102.697 0/1:6:2,4:2:72:4:144:-11.4353,0,-5.00065 1/1:8:0,8:0:0:8:288:-25.9591,-2.40824,0 1/1:15:0,15:0:0:15:540:-47.5877,-4.51545,0 chr03 28547258 . T C 7740.47 PASS AB=0.554593;ABP=17.9472;AC=10;AF=0.238095;AN=42;AO=430;CIGAR=1X;DP=1342;DPB=1342;DPRA=1.51689;EPP=928.078;EPPR=1983.39;GTI=0;LEN=1;MEANALT=1;MQM=59.4721;MQMR=59.9375;NS=21;NUMALT=1;ODDS=0.14232;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15190;QR=32535;RO=912;RPL=429;RPP=928.078;RPPR=1983.39;RPR=1;RUN=1;SAF=430;SAP=936.743;SAR=0;SRF=912;SRP=1983.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/1:70:31,39:31:1104:39:1384:-103.782,0,-78.5985 0/1:103:37,66:37:1319:66:2323:-178.243,0,-88.0051 0/0:90:88,2:88:3120:2:72:0,-20.2584,-274.098 0/1:40:18,22:18:644:22:792:-59.3739,0,-46.2494 0/1:59:20,39:20:707:39:1348:-103.805,0,-46.1938 1/1:106:0,106:0:0:106:3772:-339.651,-31.9092,0 0/1:110:51,59:51:1828:59:2067:-153.175,0,-131.688 0/1:22:13,9:13:468:9:316:-21.659,0,-35.837 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:56:56,0:56:1987:0:0:0,-16.8577,-178.974 0/0:78:77,1:77:2753:1:36:0,-19.8821,-244.394 0/0:62:62,0:62:2228:0:0:0,-18.6639,-200.784 0/0:104:104,0:104:3715:0:0:0,-31.3071,-334.552 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/0:37:37,0:37:1319:0:0:0,-11.1381,-119.011 0/1:123:59,64:59:2089:64:2256:-166.214,0,-151.252 0/1:50:28,22:28:985:22:788:-56.1933,0,-73.91 0/0:65:65,0:65:2327:0:0:0,-19.5669,-209.689 0/0:47:46,1:46:1634:1:36:0,-10.5501,-143.749 chr03 28577302 . C A 5937.09 PASS AB=0.317544;ABP=167.829;AC=10;AF=0.238095;AN=42;AO=344;CIGAR=1X;DP=1479;DPB=1479;DPRA=1.46259;EPP=749.997;EPPR=2463.29;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9938;NS=21;NUMALT=1;ODDS=1.69732;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12243;QR=40414;RO=1133;RPL=344;RPP=749.997;RPPR=2463.29;RPR=0;RUN=1;SAF=0;SAP=749.997;SAR=344;SRF=0;SRP=2463.29;SRR=1133;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/0:26:26,0:26:921:0:0:0,-7.82678,-83.2052 0/1:111:81,30:81:2889:30:1075:-63.6483,0,-226.831 0/1:70:48,22:48:1720:22:784:-49.8118,0,-134.013 0/0:158:158,0:158:5660:0:0:0,-47.5627,-509.519 0/1:31:19,12:19:684:12:432:-29.8893,0,-52.5584 0/1:95:66,29:66:2364:29:1044:-65.677,0,-184.42 1/1:159:0,159:0:0:159:5632:-507.001,-47.8638,0 0/1:126:77,48:77:2749:48:1716:-116.737,0,-209.662 0/1:12:3,9:3:108:9:313:-24.8935,0,-6.46281 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:33:32,0:32:1140:0:0:0,-9.63296,-102.549 0/0:131:130,1:130:4574:1:36:0,-35.8367,-408.224 0/0:78:78,0:78:2766:0:0:0,-23.4803,-249.173 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/0:28:27,1:27:972:1:36:0,-4.83056,-84.1996 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/1:61:39,22:39:1396:22:783:-52.4301,0,-107.576 0/1:64:55,9:55:1968:9:320:-9.87644,0,-158.129 0/0:78:77,1:77:2745:1:36:0,-19.8821,-243.693 0/0:75:74,1:74:2626:1:36:0,-18.979,-232.986 chr03 28580058 . T G 3293.39 PASS AB=0.280467;ABP=253.759;AC=10;AF=0.238095;AN=42;AO=239;CIGAR=1X;DP=1759;DPB=1759;DPRA=0.91572;EPP=521.992;EPPR=3303.65;GTI=1;LEN=1;MEANALT=1;MQM=59.9456;MQMR=43.2671;NS=21;NUMALT=1;ODDS=17.4903;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8521;QR=54349;RO=1520;RPL=1;RPP=513.343;RPPR=3303.65;RPR=238;RUN=1;SAF=238;SAP=513.343;SAR=1;SRF=1520;SRP=3303.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:120:120,0:120:4300:0:0:0,-36.1236,-376.528 0/0:134:134,0:134:4816:0:0:0,-40.338,-416.461 0/1:86:69,17:69:2472:17:600:-28.4406,0,-192.782 0/1:72:47,25:47:1665:25:888:-58.5649,0,-123.755 0/0:170:168,2:168:5961:2:68:0,-44.7174,-514.275 0/1:55:35,20:35:1247:20:716:-48.1934,0,-89.1453 0/1:104:78,26:78:2788:26:928:-52.5302,0,-209.44 1/1:66:0,66:0:0:66:2364:-213.018,-19.868,0 0/1:80:62,18:62:2224:18:648:-34.5695,0,-170.573 0/1:16:13,3:13:464:3:108:-5.25869,0,-35.758 0/0:11:11,0:11:392:0:0:0,-3.31133,-34.3965 0/0:57:57,0:57:2044:0:0:0,-17.1587,-179.607 0/0:121:121,0:121:4331:0:0:0,-36.4246,-377.929 0/0:143:143,0:143:5123:0:0:0,-43.0473,-450.551 0/0:71:71,0:71:2540:0:0:0,-21.3731,-224.81 0/0:63:63,0:63:2256:0:0:0,-18.9649,-199.255 0/0:72:72,0:72:2538:0:0:0,-21.6742,-223.291 0/1:103:63,40:63:2256:40:1413:-96.4592,0,-166.834 0/1:83:64,19:64:2292:19:680:-36.5437,0,-176.687 0/0:61:59,2:59:2120:2:72:0,-11.5261,-176.089 0/0:71:70,1:70:2520:1:36:0,-17.7749,-214.083 chr03 28639744 . T C 27137.3 PASS AB=0.541056;ABP=12.9953;AC=32;AF=0.761905;AN=42;AO=1504;CIGAR=1X;DP=1898;DPB=1898;DPRA=1.25;EPP=3191.2;EPPR=841.287;GTI=0;LEN=1;MEANALT=1;MQM=33.8677;MQMR=44.6777;NS=21;NUMALT=1;ODDS=12.9511;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53838;QR=14085;RO=394;RPL=1495;RPP=3191.2;RPPR=841.287;RPR=9;RUN=1;SAF=0;SAP=3268.9;SAR=1504;SRF=0;SRP=858.57;SRR=394;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:2,96:2:72:96:3418:-266.903,-23.0286,0 1/1:64:0,64:0:0:64:2296:-172.886,-19.2659,0 0/1:84:41,43:41:1476:43:1548:-97.5896,0,-103.589 0/1:100:42,58:42:1508:58:2069:-134.423,0,-104.331 1/1:193:0,193:0:0:193:6917:-553.447,-58.0988,0 0/1:103:52,51:52:1823:51:1832:-107.106,0,-127.831 0/1:111:40,71:40:1436:71:2533:-156.355,0,-91.2522 0/0:73:73,0:73:2609:0:0:0,-21.9752,-229.634 0/1:150:82,68:82:2944:68:2437:-154.736,0,-217.542 0/1:9:5,4:5:180:4:144:-8.96183,0,-13.6139 1/1:6:0,6:0:0:6:212:-16.2636,-1.80618,0 1/1:28:0,28:0:0:28:1004:-80.346,-8.42884,0 1/1:190:0,190:0:0:190:6815:-547.716,-57.1957,0 1/1:109:0,109:0:0:109:3899:-309.044,-32.8123,0 1/1:137:0,137:0:0:137:4901:-392.616,-41.2411,0 1/1:62:0,62:0:0:62:2224:-183.514,-18.6639,0 1/1:68:1,67:1:36:67:2408:-194.823,-16.8913,0 0/1:61:31,30:31:1116:30:1076:-66.6385,0,-80.2947 0/1:64:20,44:20:705:44:1580:-107.431,0,-43.9598 1/1:131:5,126:5:180:126:4489:-336.272,-23.1371,0 1/1:57:0,57:0:0:57:2036:-153.577,-17.1587,0 chr03 28656677 . ACTTTG GCTCTG,GCTCTC 45135.5 PASS AB=0.408894,0.586768;ABP=69.4828,63.3028;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1540,599;CIGAR=1X2M1X2M,1X2M1X1M1X;DP=2150;DPB=2150;DPRA=1.80345,1.08128;EPP=3347.08,1303.72;EPPR=0;GTI=0;LEN=6,6;MEANALT=1.95,2.63636;MQM=59.5565,59.5159;MQMR=0;NS=21;NUMALT=2;ODDS=0.316726;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54103,20893;QR=0;RO=0;RPL=0,0;RPP=3347.08,1303.72;RPPR=0;RPR=1540,599;RUN=1,1;SAF=1540,599;SAP=3347.08,1303.72;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:118:0,118,0:0:0:118,0:4130,0:-371.859,-35.5215,0,-371.859,-35.5215,-371.859 1/1:61:0,60,0:0:0:60,0:2119,0:-190.618,-18.0618,0,-190.618,-18.0618,-190.618 1/2:76:0,40,36:0:0:40,36:1411,1247:-216.484,-101.691,-89.6498,-115.142,0,-104.305 1/2:177:0,72,105:0:0:72,105:2538,3655:-504.027,-297.393,-275.719,-206.984,0,-175.376 1/1:252:0,252,0:0:0:252,0:8808,0:-792.455,-75.8596,0,-792.455,-75.8596,-792.455 1/2:123:0,48,75:0:0:48,75:1679,2651:-352.841,-216.253,-201.804,-136.939,0,-114.361 1/2:164:0,55,107:0:0:55,107:1926,3715:-458.562,-301.862,-285.305,-156.69,0,-124.479 2/2:58:0,0,56:0:0:0,56:0,1916:-172.342,-172.342,-172.342,-16.8577,-16.8577,0 1/2:199:0,60,137:0:0:60,137:2112,4810:-563.324,-391.404,-373.343,-171.912,0,-130.671 1/2:10:0,5,5:0:0:5,5:174,179:-29.0985,-14.9552,-13.4501,-14.4961,0,-12.991 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:31:0,31,0:0:0:31,0:1084,0:-97.8064,-9.33193,0,-97.8064,-9.33193,-97.8064 1/1:101:0,101,0:0:0:101,0:3598,0:-324.022,-30.404,0,-324.022,-30.404,-324.022 1/1:150:0,149,0:0:0:149,0:5157,0:-463.775,-44.8535,0,-463.775,-44.8535,-463.775 1/1:136:0,136,0:0:0:136,0:4809,0:-432.916,-40.9401,0,-432.916,-40.9401,-432.916 1/1:61:0,60,0:0:0:60,0:2119,0:-190.678,-18.0618,0,-190.678,-18.0618,-190.678 1/1:107:0,105,1:0:0:105,1:3689,36:-331.834,-31.6082,0,-328.897,-28.6707,-328.596 1/2:93:0,40,53:0:0:40,53:1422,1850:-266.377,-150.494,-138.452,-116.236,0,-100.281 1/2:80:0,57,23:0:0:57,23:2012,798:-229.041,-65.2064,-48.0477,-164.183,0,-157.259 1/1:81:0,79,1:0:0:79,1:2779,36:-249.975,-23.7814,0,-247.038,-20.844,-246.737 1/1:64:0,64,0:0:0:64,0:2249,0:-202.403,-19.2659,0,-202.403,-19.2659,-202.403 chr03 28656714 . AAAG GAAA,GAAG 43765.4 PASS AB=0.40989,0.585714;ABP=67.1904,61.0817;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1522,594;CIGAR=1X2M1X,1X3M;DP=2126;DPB=2128.25;DPRA=1.81491,1.19919;EPP=3307.99,1292.86;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2,2.53846;MQM=59.5795,59.6364;MQMR=60;NS=21;NUMALT=2;ODDS=0.507731;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=108;PRO=3;QA=52089,21233;QR=36;RO=1;RPL=1522,594;RPP=3307.99,1292.86;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1522,594;SAP=3307.99,1292.86;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:116:0,113,2:0:0:113,2:3820,72:-343.658,-34.0164,0,-337.783,-28.0683,-337.181 1/1:60:0,60,0:0:0:60,0:2080,0:-187.466,-18.0618,0,-187.466,-18.0618,-187.466 1/2:76:0,39,36:0:0:39,36:1326,1292:-212.827,-105.385,-93.6444,-107.433,0,-96.5958 1/2:176:0,72,104:0:0:72,104:2502,3709:-505.495,-302.096,-280.422,-203.372,0,-172.065 1/1:249:0,249,0:0:0:249,0:8587,0:-772.549,-74.9565,0,-772.549,-74.9565,-772.549 1/2:121:0,47,73:0:0:47,73:1552,2612:-338.558,-213.092,-198.944,-125.555,0,-103.579 1/2:165:0,56,108:0:0:56,108:1932,3872:-472.662,-315.725,-298.867,-157.065,0,-124.554 2/2:57:0,0,56:0:0:0,56:0,1995:-179.426,-179.426,-179.426,-16.8577,-16.8577,0 1/2:193:0,59,133:0:0:59,133:2015,4748:-550.496,-386.991,-369.231,-163.492,0,-123.455 1/2:10:0,5,5:0:0:5,5:150,180:-27.0085,-15.0469,-13.5418,-12.2914,0,-10.7863 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/1:30:0,30,0:0:0:30,0:1027,0:-92.6939,-9.0309,0,-92.6939,-9.0309,-92.6939 1/1:101:0,101,0:0:0:101,0:3469,0:-312.007,-30.404,0,-312.007,-30.404,-312.007 1/1:148:0,148,0:0:0:148,0:5033,0:-452.925,-44.5524,0,-452.925,-44.5524,-452.925 1/1:136:0,134,1:0:0:134,1:4580,36:-411.987,-40.338,0,-409.049,-37.4003,-408.748 1/1:61:0,61,0:0:0:61,0:2111,0:-190.259,-18.3628,0,-190.259,-18.3628,-190.259 1/1:106:0,104,1:0:0:104,1:3599,36:-323.714,-31.3071,0,-320.776,-28.3997,-320.475 1/2:91:0,39,52:0:0:39,52:1332,1857:-259.206,-151.117,-139.376,-108.077,0,-92.4238 1/2:78:0,56,22:0:0:56,22:1888,788:-217.594,-64.6173,-47.7596,-153.329,0,-146.706 1/1:80:0,79,1:0:0:79,1:2701,36:-242.963,-23.7814,0,-240.025,-20.4841,-239.724 1/1:64:1,62,0:1:36:62,0:2101,0:-185.821,-15.6627,0,-186.122,-18.6639,-189.06 chr03 28656941 . TC CT,TT 165103 PASS AB=0.520101,0.479899;ABP=9.99393,9.99393;AC=32,10;AF=0.761905,0.238095;AN=42;AO=4689,1316;CIGAR=2X,1M1X;DP=6018;DPB=6018;DPRA=0.827259,2.43534;EPP=10185,2860.67;EPPR=0;GTI=0;LEN=2,1;MEANALT=2.15,2.26667;MQM=59.6515,59.8389;MQMR=0;NS=21;NUMALT=2;ODDS=41.1056;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=164979,46868;QR=0;RO=0;RPL=2662,780;RPP=189.743,101.248;RPPR=0;RPR=2027,536;RUN=1,1;SAF=2662,780;SAP=189.743,101.248;SAR=2027,536;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:496:0,491,1:0:0:491,1:17327,36:-1558.23,-147.806,0,-1555.29,-144.856,-1554.99 1/1:270:0,268,0:0:0:268,0:9372,0:-842.687,-80.676,0,-842.687,-80.676,-842.687 1/2:240:0,124,116:0:0:124,116:4378,4143:-694.525,-338.132,-300.804,-356.748,0,-321.829 1/2:307:0,163,144:0:0:163,144:5645,5085:-873.16,-414.436,-365.368,-459.074,0,-415.725 1/1:699:0,688,9:0:0:688,9:24217,320:-2178.42,-207.109,0,-2152.34,-180.99,-2149.63 1/2:238:0,107,131:0:0:107,131:3817,4664:-691.575,-380.469,-348.259,-311.462,0,-272.027 1/2:346:0,161,185:0:0:161,185:5638,6583:-995.399,-536.829,-488.363,-458.922,0,-403.232 2/2:343:0,0,343:0:0:0,343:0,12204:-1097.82,-1097.82,-1097.82,-103.253,-103.253,0 1/2:452:0,225,227:0:0:225,227:7900,8125:-1305.72,-662.837,-595.105,-643.239,0,-574.905 1/2:48:0,26,22:0:0:26,22:934,784:-140.456,-64.2613,-56.4345,-76.5525,0,-69.9298 1/1:19:0,19,0:0:0:19,0:650,0:-58.788,-5.71957,0,-58.788,-5.71957,-58.788 1/1:67:0,67,0:0:0:67,0:2382,0:-214.622,-20.169,0,-214.622,-20.169,-214.622 1/1:479:0,474,3:0:0:474,3:16729,108:-1504.86,-142.688,0,-1496.04,-133.809,-1495.14 1/1:374:0,372,2:0:0:372,2:13025,72:-1170.89,-111.983,0,-1165.01,-105.748,-1164.41 1/1:406:0,404,2:0:0:404,2:14216,72:-1278.17,-121.616,0,-1272.29,-115.381,-1271.69 1/1:155:0,154,0:0:0:154,0:5427,0:-488.09,-46.3586,0,-488.09,-46.3586,-488.09 1/1:195:0,194,0:0:0:194,0:6871,0:-618.2,-58.3998,0,-618.2,-58.3998,-618.2 1/2:161:0,89,72:0:0:89,72:3112,2560:-462.038,-208.9,-182.109,-253.491,0,-231.816 1/2:198:0,140,58:0:0:140,58:4927,2076:-570.722,-169.651,-127.507,-401.427,0,-383.968 1/1:382:0,380,1:0:0:380,1:13399,36:-1205.29,-114.391,0,-1202.35,-111.454,-1202.05 1/1:143:0,143,0:0:0:143,0:5013,0:-451.076,-43.0473,0,-451.076,-43.0473,-451.076 chr03 28656958 . T A 26940.6 PASS AB=0.439386;ABP=61.1874;AC=10;AF=0.238095;AN=42;AO=1143;CIGAR=1X;DP=5764;DPB=5764;DPRA=2.37115;EPP=2485;EPPR=10033;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.8451;MQMR=59.6785;NS=21;NUMALT=1;ODDS=55.3718;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40877;QR=164950;RO=4619;RPL=626;RPP=25.5818;RPPR=189.008;RPR=517;RUN=1;SAF=626;SAP=25.5818;SAR=517;SRF=2624;SRP=189.008;SRR=1995;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:478:477,1:477:17001:1:36:0,-140.294,-1525.32 0/0:265:265,0:265:9468:0:0:0,-79.7729,-851.732 0/1:236:123,113:123:4395:113:4052:-293.821,0,-324.559 0/1:301:161,140:161:5720:140:4996:-359.165,0,-424.264 0/0:688:679,9:679:24306:9:320:0,-177.966,-2157.47 0/1:175:106,69:106:3804:69:2462:-169.151,0,-289.816 0/1:261:156,105:156:5570:105:3762:-260.163,0,-422.76 1/1:324:0,324:0:0:324:11597:-1042.95,-97.5337,0 0/1:446:222,223:222:7914:223:7949:-581.111,0,-577.943 0/1:46:25,21:25:885:21:756:-54.5198,0,-66.1191 0/0:19:19,0:19:671:0:0:0,-5.71957,-60.6864 0/0:66:66,0:66:2340:0:0:0,-19.868,-210.847 0/0:473:470,3:470:16809:3:108:0,-132.312,-1502.19 0/0:365:363,2:363:12934:2:68:0,-103.418,-1156.72 0/0:403:401,2:401:14323:2:72:0,-114.478,-1281.18 0/0:153:153,0:153:5483:0:0:0,-46.0576,-493.534 0/0:192:192,0:192:6876:0:0:0,-57.7978,-618.839 0/1:160:88,71:88:3130:71:2552:-181.634,0,-233.685 0/1:198:139,59:139:4968:59:2111:-130.654,0,-387.647 0/0:378:377,1:377:13487:1:36:0,-110.191,-1209.95 0/0:137:137,0:137:4866:0:0:0,-41.2411,-437.852 chr03 28656991 . C A 43532.2 PASS AB=0.502697;ABP=3.06886;AC=32;AF=0.761905;AN=42;AO=2020;CIGAR=1X;DP=2569;DPB=2569;DPRA=1.59679;EPP=4389.38;EPPR=1195.15;GTI=1;LEN=1;MEANALT=1;MQM=59.5911;MQMR=59.8215;NS=21;NUMALT=1;ODDS=2.68922;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72206;QR=19592;RO=549;RPL=2020;RPP=4389.38;RPPR=1195.15;RPR=0;RUN=1;SAF=0;SAP=4389.38;SAR=2020;SRF=0;SRP=1195.15;SRR=549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,159:0:0:159:5708:-513.567,-47.8638,0 1/1:106:0,106:0:0:106:3788:-340.815,-31.9092,0 0/1:106:44,62:44:1580:62:2232:-169.23,0,-110.582 0/1:124:51,73:51:1824:73:2608:-197.638,0,-127.113 1/1:326:6,320:6:216:320:11481:-1013.17,-78.3453,0 0/1:120:75,45:75:2677:45:1605:-108.562,0,-205.049 0/1:198:115,83:115:4102:83:2972:-208.002,0,-309.607 0/0:78:78,0:78:2789:0:0:0,-23.4803,-251.246 0/1:201:108,93:108:3842:93:3306:-237.221,0,-285.411 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 1/1:4:0,4:0:0:4:144:-13.2845,-1.20412,0 1/1:34:0,34:0:0:34:1220:-110.093,-10.235,0 1/1:238:2,236:2:72:236:8411:-749.931,-64.8084,0 1/1:157:0,157:0:0:157:5556:-499.963,-47.2617,0 1/1:157:1,156:1:21:156:5570:-498.586,-45.1618,0 1/1:59:0,59:0:0:59:2120:-191.01,-17.7608,0 1/1:78:0,78:0:0:78:2786:-250.97,-23.4803,0 0/1:73:31,42:31:1101:42:1508:-114.03,0,-77.4232 0/1:96:35,61:35:1260:61:2192:-168.635,0,-84.8066 1/1:181:1,180:1:36:180:6415:-573.774,-50.8882,0 1/1:65:0,65:0:0:65:2336:-210.462,-19.567,0 chr03 28686336 . T A 18201.5 PASS AB=0.503041;ABP=3.10274;AC=10;AF=0.238095;AN=42;AO=770;CIGAR=1X;DP=3297;DPB=3297;DPRA=1.42357;EPP=1675.04;EPPR=5483.81;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.7857;MQMR=59.9917;NS=21;NUMALT=1;ODDS=13.6305;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27335;QR=90087;RO=2524;RPL=354;RPP=13.8507;RPPR=18.4584;RPR=416;RUN=1;SAF=354;SAP=13.8507;SAR=416;SRF=1195;SRP=18.4584;SRR=1329;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:145:143,2:143:5100:2:72:0,-36.8126,-452.306 0/0:55:55,0:55:1980:0:0:0,-16.5566,-178.474 0/1:171:92,78:92:3292:78:2783:-199.147,0,-244.965 0/1:246:110,136:110:3944:136:4831:-360.522,0,-281.098 0/0:324:317,7:317:11286:7:237:0,-75.8747,-993.967 0/1:96:44,52:44:1576:52:1860:-138.776,0,-113.233 0/1:104:49,55:49:1756:55:1933:-142.928,0,-127.017 1/1:177:0,177:0:0:177:6294:-566.509,-53.2823,0 0/1:209:86,122:86:3079:122:4293:-323.573,0,-214.364 0/1:48:26,22:26:936:22:787:-56.7036,0,-70.11 0/0:4:4,0:4:135:0:0:0,-1.20412,-12.4825 0/0:59:59,0:59:2108:0:0:0,-17.7608,-189.989 0/0:254:254,0:254:9054:0:0:0,-76.4616,-814.838 0/0:282:281,1:281:10001:1:36:0,-81.2922,-896.376 0/0:283:283,0:283:10109:0:0:0,-85.1915,-909.744 0/0:142:141,0:141:5048:0:0:0,-42.4452,-454.106 0/0:97:96,1:96:3387:1:21:0,-27.1042,-302.948 0/1:164:91,73:91:3252:73:2608:-185.542,0,-243.533 0/1:113:72,41:72:2553:41:1472:-98.7597,0,-196.003 0/0:264:261,3:261:9352:3:108:0,-69.3967,-831.568 0/0:60:60,0:60:2139:0:0:0,-18.0618,-192.777 chr03 28686341 . T C 27961.7 PASS AB=0.521292;ABP=5.69196;AC=32;AF=0.761905;AN=42;AO=1314;CIGAR=1X;DP=1733;DPB=1733;DPRA=0.957558;EPP=2856.33;EPPR=912.857;GTI=0;LEN=1;MEANALT=1;MQM=59.984;MQMR=59.6468;NS=21;NUMALT=1;ODDS=8.00131;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46812;QR=15025;RO=419;RPL=1;RPP=2847.65;RPPR=912.857;RPR=1313;RUN=1;SAF=1;SAP=2847.65;SAR=1313;SRF=0;SRP=912.857;SRR=419;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71:0:0:71:2491:-224.44,-21.3731,0 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 0/1:108:46,62:46:1652:62:2220:-167.553,0,-116.426 0/1:90:40,50:40:1440:50:1784:-133.75,0,-101.614 1/1:150:5,145:5:180:145:5165:-448.438,-28.6024,0 0/1:94:51,43:51:1824:43:1521:-108.884,0,-136.139 0/1:104:55,49:55:1957:49:1747:-126.206,0,-145.081 0/0:86:86,0:86:3092:0:0:0,-25.8886,-278.444 0/1:78:40,38:40:1432:38:1364:-99.5804,0,-105.689 0/1:42:20,22:20:716:22:792:-58.9624,0,-52.1198 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 1/1:92:0,92:0:0:92:3272:-294.699,-27.6948,0 1/1:170:1,169:1:36:169:6012:-537.579,-47.5768,0 1/1:108:0,108:0:0:108:3884:-349.753,-32.5112,0 1/1:68:0,68:0:0:68:2410:-217.154,-20.47,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 0/1:112:53,59:53:1904:59:2111:-156.543,0,-137.865 0/1:53:21,32:21:756:32:1111:-84.3388,0,-52.4126 1/1:110:1,109:1:36:109:3865:-344.445,-29.515,0 1/1:57:0,57:0:0:57:2031:-183.063,-17.1587,0 chr03 28698339 . G T 75010.6 PASS AB=0.54717;ABP=28.6173;AC=32;AF=0.761905;AN=42;AO=2752;CIGAR=1X;DP=3504;DPB=3504;DPRA=1.24778;EPP=5970.22;EPPR=1633.79;GTI=0;LEN=1;MEANALT=1.05;MQM=59.911;MQMR=60;NS=21;NUMALT=1;ODDS=25.0455;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98038;QR=26457;RO=751;RPL=1560;RPP=109.867;RPPR=42.5912;RPR=1192;RUN=1;SAF=1561;SAP=111.032;SAR=1191;SRF=434;SRP=42.5912;SRR=317;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:3,147:3:108:147:5242:-461.841,-35.0793,0 1/1:137:0,137:0:0:137:4907:-441.779,-41.2411,0 0/1:138:72,66:72:2535:66:2351:-170.3,0,-186.858 0/1:193:76,117:76:2675:117:4154:-315.943,0,-182.896 1/1:504:8,496:8:284:496:17688:-1565.5,-125.816,0 0/1:133:59,74:59:2088:74:2640:-197.81,0,-148.154 0/1:304:137,167:137:4860:167:5971:-445.974,0,-346.046 0/0:135:135,0:135:4735:0:0:0,-40.639,-426.311 0/1:175:87,88:87:3069:88:3111:-226.681,0,-223.76 0/1:28:11,17:11:369:17:603:-46.1707,0,-25.1037 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:59:1,58:1:36:58:2044:-180.609,-14.1625,0 1/1:207:0,207:0:0:207:7349:-661.451,-62.3132,0 1/1:176:0,176:0:0:176:6270:-564.337,-52.9813,0 1/1:325:1,324:1:36:324:11537:-1034.45,-94.2365,0 1/1:79:0,79:0:0:79:2810:-253.052,-23.7814,0 1/1:130:2,128:2:72:128:4574:-404.985,-32.2972,0 0/1:203:112,90:112:3981:90:3195:-226.596,0,-297.311 0/1:151:45,106:45:1537:106:3777:-294.673,0,-93.1579 1/1:172:2,170:2:72:170:6051:-537.856,-44.9404,0 1/1:98:0,98:0:0:98:3512:-316.29,-29.5009,0 chr03 28703829 . A C 30201 PASS AB=0.509702;ABP=3.64236;AC=32;AF=0.761905;AN=42;AO=1408;CIGAR=1X;DP=1928;DPB=1928;DPRA=0;EPP=2974.2;EPPR=1038.65;GTI=0;LEN=1;MEANALT=1;MQM=59.9964;MQMR=60;NS=21;NUMALT=1;ODDS=5.89372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50027;QR=18208;RO=520;RPL=10;RPP=2974.2;RPPR=1038.65;RPR=1398;RUN=1;SAF=1408;SAP=3060.44;SAR=0;SRF=520;SRP=1132.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:1,138:1:32:138:4920:-439.752,-38.6439,0 1/1:95:0,95:0:0:95:3378:-304.236,-28.5979,0 0/1:124:59,65:59:2036:65:2286:-168.671,0,-146.178 0/1:64:30,34:30:1023:34:1211:-90.0296,0,-73.1057 1/1:156:0,156:0:0:156:5584:-502.683,-46.9607,0 0/1:60:27,33:27:956:33:1175:-87.9943,0,-68.2939 0/1:139:88,51:88:3109:51:1820:-122.238,0,-238.192 0/0:138:137,1:137:4778:1:27:0,-38.8424,-427.48 0/1:142:60,82:60:2136:82:2927:-220.918,0,-149.762 0/1:22:12,10:12:405:10:360:-26.1216,0,-30.1504 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:38:0,38:0:0:38:1352:-121.98,-11.4391,0 1/1:95:0,95:0:0:95:3376:-304.055,-28.5979,0 1/1:116:1,115:1:36:115:4086:-364.327,-31.3212,0 1/1:171:0,171:0:0:171:6075:-546.854,-51.4761,0 1/1:42:0,42:0:0:42:1499:-135.204,-12.6433,0 1/1:69:0,69:0:0:69:2439:-219.764,-20.7711,0 0/1:166:87,79:87:3076:79:2787:-201.099,0,-227.1 0/1:56:16,40:16:549:40:1419:-111.149,0,-32.8748 1/1:53:2,51:2:72:51:1789:-154.454,-9.11787,0 1/1:32:0,32:0:0:32:1125:-101.556,-9.63296,0 chr03 28704631 . A G 18451.7 PASS AB=0.549632;ABP=26.2898;AC=10;AF=0.238095;AN=42;AO=953;CIGAR=1X;DP=3001;DPB=3001;DPRA=1.30355;EPP=2055.09;EPPR=4372.36;GTI=1;LEN=1;MEANALT=1;MQM=59.9307;MQMR=59.9912;NS=21;NUMALT=1;ODDS=3.75027;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34090;QR=73287;RO=2048;RPL=951;RPP=2055.09;RPPR=4372.36;RPR=2;RUN=1;SAF=0;SAP=2072.42;SAR=953;SRF=0;SRP=4450.19;SRR=2048;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:150:150,0:150:5384:0:0:0,-45.1545,-484.69 0/0:151:151,0:151:5390:0:0:0,-45.4555,-485.229 0/1:125:62,63:62:2220:63:2264:-166.394,0,-162.436 0/1:179:83,96:83:2984:96:3452:-257.007,0,-214.907 0/0:268:266,2:266:9511:2:72:0,-73.8393,-849.021 0/1:165:82,83:82:2929:83:2984:-219.121,0,-214.173 0/1:203:78,125:78:2800:125:4479:-342.169,0,-191.13 1/1:351:1,350:1:36:350:12468:-1118.17,-102.063,0 0/1:269:105,164:105:3776:164:5859:-446.379,0,-259.06 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:192:192,0:192:6862:0:0:0,-57.7978,-617.647 0/0:215:215,0:215:7660:0:0:0,-64.7214,-689.433 0/0:172:172,0:172:6145:0:0:0,-51.7772,-553.149 0/0:77:77,0:77:2742:0:0:0,-23.1793,-247.019 0/0:127:127,0:127:4552:0:0:0,-38.2308,-409.846 0/1:69:33,36:33:1184:36:1292:-95.8081,0,-86.0972 0/1:73:43,30:43:1540:30:1076:-75.1777,0,-116.918 0/0:104:104,0:104:3736:0:0:0,-31.3071,-336.439 0/0:61:58,3:58:2080:3:108:0,-8.28766,-177.395 chr03 28704637 . A G 18115.8 PASS AB=0.548504;ABP=25.5499;AC=10;AF=0.238095;AN=42;AO=951;CIGAR=1X;DP=2995;DPB=2995;DPRA=1.32082;EPP=2059.4;EPPR=4415.48;GTI=1;LEN=1;MEANALT=1;MQM=59.9306;MQMR=59.9892;NS=21;NUMALT=1;ODDS=3.73726;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33831;QR=73202;RO=2044;RPL=950;RPP=2059.4;RPPR=4415.48;RPR=1;RUN=1;SAF=0;SAP=2068.08;SAR=951;SRF=0;SRP=4441.5;SRR=2044;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:146,0:146:5208:0:0:0,-43.9504,-468.858 0/0:151:151,0:151:5396:0:0:0,-45.4555,-485.769 0/1:126:63,63:63:2264:63:2256:-165.373,0,-166.093 0/1:181:84,97:84:3020:97:3451:-256.317,0,-217.543 0/0:268:266,2:266:9532:2:72:0,-73.8393,-850.962 0/1:168:83,85:83:2976:85:3018:-221.278,0,-217.499 0/1:205:80,125:80:2863:125:4469:-340.668,0,-196.196 1/1:343:2,341:2:72:341:12127:-1084.36,-96.4166,0 0/1:275:108,167:108:3876:167:5894:-447.727,0,-266.251 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:189:189,0:189:6770:0:0:0,-56.8947,-609.371 0/0:208:208,0:208:7460:0:0:0,-62.6142,-671.442 0/0:174:174,0:174:6221:0:0:0,-52.3792,-559.985 0/0:78:78,0:78:2770:0:0:0,-23.4803,-249.541 0/0:128:128,0:128:4595:0:0:0,-38.5318,-413.712 0/1:69:33,36:33:1171:36:1288:-95.4479,0,-84.9256 0/1:74:43,31:43:1544:31:1112:-78.1151,0,-116.977 0/0:102:102,0:102:3664:0:0:0,-30.7051,-329.963 0/0:60:57,3:57:2044:3:108:0,-7.98663,-174.157 chr03 28711737 . G A 14044 PASS AB=0.531573;ABP=10.5519;AC=10;AF=0.238095;AN=42;AO=628;CIGAR=1X;DP=1941;DPB=1941;DPRA=1.71071;EPP=1366.69;EPPR=2851.98;GTI=1;LEN=1;MEANALT=1;MQM=50.0207;MQMR=55.4634;NS=21;NUMALT=1;ODDS=5.6878;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22232;QR=46342;RO=1312;RPL=250;RPP=59.6622;RPPR=168.281;RPR=378;RUN=1;SAF=250;SAP=59.6622;SAR=378;SRF=498;SRP=168.281;SRR=814;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2628:0:0:0,-22.2762,-235.926 0/0:31:30,1:30:1050:1:36:0,-5.73365,-90.4476 0/1:54:17,37:17:608:37:1323:-97.2304,0,-38.7412 0/1:140:57,83:57:2023:83:2976:-218.667,0,-140.034 0/0:100:99,1:99:3487:1:32:0,-26.9037,-309.499 0/1:63:25,38:25:875:38:1337:-93.6992,0,-59.791 0/1:114:51,63:51:1823:63:2230:-154.242,0,-128.998 1/1:159:1,158:1:36:158:5558:-479.134,-44.2655,0 0/1:203:87,116:87:3057:116:4103:-298.417,0,-214.043 0/1:7:5,2:5:180:2:72:-4.06049,0,-14.4449 0/0:7:7,0:7:252:0:0:0,-2.10721,-22.595 0/0:41:41,0:41:1414:0:0:0,-12.3422,-127.309 0/0:174:174,0:174:6113:0:0:0,-52.3792,-548.822 0/0:114:113,1:113:3972:1:36:0,-30.7191,-352.33 0/0:110:109,1:109:3874:1:27:0,-30.4647,-342.92 0/0:27:27,0:27:960:0:0:0,-8.12781,-86.4361 0/0:20:20,0:20:703:0:0:0,-6.0206,-63.5002 0/1:152:71,81:71:2509:81:2873:-200.515,0,-179.441 0/1:138:95,43:95:3361:43:1521:-89.174,0,-259.969 0/0:117:114,3:114:4037:3:108:0,-26.1313,-352.72 0/0:96:95,0:95:3380:0:0:0,-28.5978,-302.196 chr03 28711782 . A G 17977.4 PASS AB=0.492754;ABP=3.26206;AC=33;AF=0.785714;AN=42;AO=859;CIGAR=1X;DP=1249;DPB=1249;DPRA=0;EPP=1859.63;EPPR=849.885;GTI=2;LEN=1;MEANALT=1;MQM=59.7905;MQMR=59.9821;NS=21;NUMALT=1;ODDS=2.00974;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30700;QR=13919;RO=390;RPL=858;RPP=1859.63;RPPR=849.885;RPR=1;RUN=1;SAF=0;SAP=1868.31;SAR=859;SRF=0;SRP=849.885;SRR=390;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,44:0:0:44:1572:-141.768,-13.2453,0 1/1:12:1,11:1:36:11:388:-31.6591,-0.0140851,0 0/1:36:23,13:23:828:13:464:-31.2604,0,-64.007 0/1:108:61,47:61:2188:47:1674:-118.394,0,-164.674 1/1:53:1,52:1:36:52:1868:-164.801,-12.3563,0 0/1:37:21,16:21:752:16:576:-41.0369,0,-56.8681 0/1:74:39,35:39:1404:35:1247:-90.2579,0,-104.383 0/0:109:108,1:108:3829:1:36:0,-29.214,-341.209 0/1:138:71,67:71:2518:67:2396:-174.355,0,-185.325 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:7:0,7:0:0:7:252:-22.595,-2.10721,0 1/1:35:0,35:0:0:35:1238:-111.724,-10.5361,0 1/1:133:0,133:0:0:133:4758:-428.351,-40.037,0 1/1:74:0,74:0:0:74:2647:-238.476,-22.2762,0 1/1:68:0,68:0:0:68:2435:-218.698,-20.47,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:93:44,49:44:1576:49:1760:-130.688,0,-114.136 0/1:66:21,45:21:752:45:1591:-123.605,0,-48.1383 1/1:66:0,66:0:0:66:2355:-212.209,-19.868,0 1/1:60:0,60:0:0:60:2151:-193.855,-18.0618,0 chr03 28711811 . C A 20540 PASS AB=0.597403;ABP=47.4268;AC=32;AF=0.761905;AN=42;AO=963;CIGAR=1X;DP=1226;DPB=1226;DPRA=1.31222;EPP=2094.14;EPPR=565.455;GTI=0;LEN=1;MEANALT=1;MQM=59.9907;MQMR=60;NS=21;NUMALT=1;ODDS=8.78037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34531;QR=9403;RO=263;RPL=0;RPP=2094.14;RPPR=574.108;RPR=963;RUN=1;SAF=963;SAP=2094.14;SAR=0;SRF=262;SRP=565.455;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,57:0:0:57:2048:-184.592,-17.1587,0 1/1:36:0,36:0:0:36:1280:-115.503,-10.8371,0 0/1:31:15,16:15:528:16:576:-42.8431,0,-38.5194 0/1:56:23,33:23:824:33:1173:-89.0179,0,-57.6256 1/1:95:0,95:0:0:95:3408:-306.934,-28.5979,0 0/1:47:26,21:26:927:21:741:-52.8632,0,-69.599 0/1:89:45,44:45:1608:44:1580:-115.7,0,-118.218 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 0/1:91:40,51:40:1432:51:1836:-138.127,0,-101.784 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 1/1:24:0,24:0:0:24:864:-78.0719,-7.22472,0 1/1:105:0,105:0:0:105:3776:-340.037,-31.6082,0 1/1:73:0,73:0:0:73:2620:-236.047,-21.9752,0 1/1:96:1,95:1:36:95:3397:-302.345,-25.3006,0 1/1:26:0,26:0:0:26:924:-83.4777,-7.82678,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 0/1:66:20,46:20:720:46:1656:-129.46,0,-45.2608 0/1:154:45,109:45:1612:109:3912:-305.914,0,-99.0114 1/1:38:0,38:0:0:38:1368:-123.421,-11.4391,0 1/1:50:0,50:0:0:50:1788:-161.203,-15.0515,0 chr03 28743410 . C T 25039.2 PASS AB=0.556351;ABP=18.4281;AC=32;AF=0.761905;AN=42;AO=1181;CIGAR=1X;DP=1490;DPB=1490;DPRA=1.30455;EPP=2567.52;EPPR=673.995;GTI=0;LEN=1;MEANALT=1;MQM=59.978;MQMR=60;NS=21;NUMALT=1;ODDS=6.53004;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41882;QR=11032;RO=309;RPL=0;RPP=2567.52;RPPR=673.995;RPR=1181;RUN=1;SAF=0;SAP=2567.52;SAR=1181;SRF=0;SRP=673.995;SRR=309;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:4,100:4:144:100:3572:-308.375,-17.9935,0 1/1:44:0,44:0:0:44:1542:-139.068,-13.2453,0 0/1:39:19,20:19:684:20:716:-53.0275,0,-50.1502 0/1:80:37,43:37:1328:43:1532:-114.091,0,-95.7398 1/1:139:0,139:0:0:139:4933:-444.123,-41.8432,0 0/1:109:48,61:48:1716:61:2171:-162.844,0,-121.913 0/1:57:27,30:27:968:30:1064:-78.912,0,-70.2787 0/0:55:55,0:55:1967:0:0:0,-16.5566,-177.304 0/1:128:50,78:50:1788:78:2751:-209.3,0,-122.671 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:8:0,8:0:0:8:280:-25.5393,-2.40824,0 1/1:15:0,15:0:0:15:532:-48.2131,-4.51545,0 1/1:94:0,94:0:0:94:3346:-301.356,-28.2968,0 1/1:48:0,48:0:0:48:1712:-154.366,-14.4494,0 1/1:228:0,228:0:0:228:8015:-721.368,-68.6348,0 1/1:56:0,56:0:0:56:2012:-181.353,-16.8577,0 1/1:61:0,61:0:0:61:2171:-195.656,-18.3628,0 0/1:92:51,41:51:1797:41:1459:-103.91,0,-134.315 0/1:49:13,36:13:460:36:1292:-101.833,0,-26.9849 1/1:50:2,48:2:72:48:1678:-144.468,-8.21478,0 1/1:29:0,29:0:0:29:1032:-93.1935,-8.72987,0 chr03 28787096 . AACGTTGTT ACGTT,AGGTT 49716.6 PASS AB=0.553571,0.439732;ABP=25.3454,31.2782;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1695,580;CIGAR=1M4D1X3M,1M4D1X3M;DP=2286;DPB=1270.44;DPRA=0.57459,1.39581;EPP=3631.73,1262.46;EPPR=5.18177;GTI=0;LEN=5,5;MEANALT=1.9,2.5;MQM=59.8218,59.9034;MQMR=60;NS=21;NUMALT=2;ODDS=10.0119;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60441,20572;QR=34;RO=1;RPL=0,0;RPP=3683.66,1262.46;RPPR=5.18177;RPR=1695,580;RUN=1,1;SAF=6,0;SAP=3631.73,1262.46;SAR=1689,580;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:144:0,144,0:0:0:144,0:5136,0:-462.373,-43.3483,0,-462.373,-43.3483,-462.373 1/1:44:0,44,0:0:0:44,0:1580,0:-142.487,-13.2453,0,-142.487,-13.2453,-142.487 1/2:144:0,74,70:0:0:74,70:2643,2452:-415.344,-199.86,-177.584,-215.837,0,-194.765 1/2:104:0,50,54:0:0:50,54:1800,1917:-303.419,-156.547,-141.495,-147.23,0,-130.974 1/1:238:0,236,2:0:0:236,2:8375,63:-753.367,-71.0431,0,-748.304,-65.665,-747.702 1/2:84:0,58,25:0:0:58,25:2067,891:-241.099,-72.6238,-55.1641,-168.472,0,-160.946 1/2:157:1,79,75:1:34:79,75:2836,2675:-446.357,-215.323,-194.3,-228.607,0,-208.787 2/2:183:0,0,182:0:0:0,182:0,6442:-579.592,-579.592,-579.592,-54.7875,-54.7875,0 1/2:193:0,101,91:0:0:101,91:3596,3259:-558.833,-265.776,-235.372,-293.053,0,-265.66 1/2:12:0,8,4:0:0:8,4:288,144:-35.6088,-12.1095,-9.70126,-23.8592,0,-22.655 1/1:12:0,12,0:0:0:12,0:428,0:-38.8588,-3.61236,0,-38.8588,-3.61236,-38.8588 1/1:29:0,29,0:0:0:29,0:1031,0:-93.1026,-8.72987,0,-93.1026,-8.72987,-93.1026 1/1:182:0,182,0:0:0:182,0:6532,0:-587.765,-54.7875,0,-587.765,-54.7875,-587.765 1/1:110:0,109,1:0:0:109,1:3871,36:-348.219,-32.8123,0,-345.281,-29.515,-344.98 1/1:197:0,197,0:0:0:197,0:7046,0:-634.197,-59.3029,0,-634.197,-59.3029,-634.197 1/1:55:0,55,0:0:0:55,0:1948,0:-175.553,-16.5567,0,-175.553,-16.5567,-175.553 1/1:60:0,56,1:0:0:56,1:2008,36:-180.634,-16.8577,0,-177.697,-13.9194,-177.396 1/2:114:0,64,50:0:0:64,50:2265,1775:-329.395,-144.976,-125.71,-184.774,0,-169.722 1/2:88:0,62,25:0:0:62,25:2202,882:-251.298,-71.8701,-53.2062,-179.48,0,-171.955 1/1:73:0,73,0:0:0:73,0:2616,0:-235.68,-21.9752,0,-235.68,-21.9752,-235.68 1/1:63:0,62,0:0:0:62,0:2173,0:-195.408,-18.6639,0,-195.408,-18.6639,-195.408 chr03 28787258 . T C 7882.2 PASS AB=0.448437;ABP=17.7899;AC=10;AF=0.238095;AN=42;AO=352;CIGAR=1X;DP=1360;DPB=1360;DPRA=1.43884;EPP=767.369;EPPR=2174.52;GTI=0;LEN=1;MEANALT=1;MQM=59.8068;MQMR=59.9127;NS=21;NUMALT=1;ODDS=4.48137;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12511;QR=35941;RO=1008;RPL=207;RPP=26.7238;RPPR=25.423;RPR=145;RUN=1;SAF=207;SAP=26.7238;SAR=145;SRF=553;SRP=23.6996;SRR=455;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1578:1:36:0,-10.2491,-138.619 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/1:36:21,15:21:756:15:536:-37.7377,0,-57.5301 0/1:67:40,27:40:1417:27:959:-66.4388,0,-107.643 0/0:111:108,3:108:3852:3:104:0,-23.7115,-336.398 0/1:51:24,27:24:864:27:964:-71.676,0,-62.73 0/1:89:57,32:57:2026:32:1136:-75.7435,0,-155.82 1/1:60:0,60:0:0:60:2128:-191.785,-18.0618,0 0/1:86:38,48:38:1359:48:1720:-129.196,0,-96.7212 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.093 0/0:51:51,0:51:1820:0:0:0,-15.3525,-164.081 0/0:73:73,0:73:2620:0:0:0,-21.9752,-236.045 0/0:36:36,0:36:1273:0:0:0,-10.8371,-114.815 0/0:37:36,1:36:1292:1:36:0,-7.53983,-112.985 0/1:174:76,98:76:2720:98:3469:-260.027,0,-192.664 0/1:130:94,36:94:3363:36:1279:-76.2785,0,-263.75 0/0:42:42,0:42:1491:0:0:0,-12.6433,-134.484 0/0:137:137,0:137:4858:0:0:0,-41.2411,-437.375 chr03 28803405 . G A 9218.33 PASS AB=0.443548;ABP=20.1719;AC=10;AF=0.238095;AN=42;AO=390;CIGAR=1X;DP=1665;DPB=1665;DPRA=1.05891;EPP=849.885;EPPR=2769.47;GTI=0;LEN=1;MEANALT=1;MQM=59.9282;MQMR=59.9969;NS=21;NUMALT=1;ODDS=9.45784;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13906;QR=45068;RO=1274;RPL=196;RPP=3.03257;RPPR=25.9454;RPR=194;RUN=1;SAF=196;SAP=3.03257;SAR=194;SRF=695;SRP=25.9454;SRR=579;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:91,0:91:3223:0:0:0,-27.3937,-290.292 0/0:19:19,0:19:672:0:0:0,-5.71957,-60.8068 0/1:68:34,34:34:1207:34:1220:-89.6368,0,-88.4652 0/1:53:24,29:24:860:29:1040:-77.9598,0,-61.7672 0/0:114:114,0:114:4042:0:0:0,-34.3174,-363.968 0/1:66:30,36:30:1057:36:1276:-95.2726,0,-75.571 0/1:95:47,48:47:1657:48:1720:-126.488,0,-120.818 1/1:117:2,115:2:72:115:4092:-361.627,-28.3838,0 0/1:98:48,50:48:1704:50:1792:-132.062,0,-124.145 0/1:14:8,6:8:288:6:212:-15.2104,0,-22.053 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:34:34,0:34:1199:0:0:0,-10.235,-108.215 0/0:206:205,0:205:7261:0:0:0,-61.7111,-653.186 0/0:113:113,0:113:4004:0:0:0,-34.0164,-360.549 0/0:87:87,0:87:3100:0:0:0,-26.1896,-279.226 0/0:37:37,0:37:1305:0:0:0,-11.1381,-117.749 0/0:30:30,0:30:1071:0:0:0,-9.0309,-96.7016 0/1:98:59,39:59:2083:39:1378:-94.7962,0,-158.239 0/1:128:95,33:95:3373:33:1176:-67.6159,0,-265.254 0/0:100:100,0:100:3532:0:0:0,-30.103,-318.088 0/0:92:92,0:92:3182:0:0:0,-27.6948,-286.604 chr03 28805796 . A G 10236.6 PASS AB=0.475524;ABP=7.47473;AC=10;AF=0.238095;AN=42;AO=567;CIGAR=1X;DP=2392;DPB=2392;DPRA=1.46755;EPP=1234.24;EPPR=3965.95;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9764;NS=21;NUMALT=1;ODDS=18.1191;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20251;QR=65116;RO=1825;RPL=0;RPP=1234.24;RPPR=3965.95;RPR=567;RUN=1;SAF=567;SAP=1234.24;SAR=0;SRF=1825;SRP=3965.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:128:126,2:126:4520:2:72:0,-31.6951,-400.111 0/0:112:112,0:112:3990:0:0:0,-33.7154,-359.288 0/1:105:59,46:59:2108:46:1621:-114.569,0,-158.381 0/1:135:89,46:89:3172:46:1642:-107.43,0,-245.066 0/0:170:170,0:170:6100:0:0:0,-51.1751,-549.099 0/1:47:20,27:20:716:27:964:-72.9284,0,-50.6193 0/1:143:72,71:72:2557:71:2548:-186.523,0,-187.332 1/1:156:1,155:1:32:155:5548:-496.245,-43.7614,0 0/1:178:77,101:77:2741:101:3624:-272.781,0,-193.348 0/1:25:11,14:11:392:14:485:-36.4512,0,-28.0943 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/0:57:57,0:57:2036:0:0:0,-17.1587,-183.512 0/0:150:149,1:149:5293:1:36:0,-41.5562,-472.91 0/0:291:290,1:290:10373:1:36:0,-84.0015,-929.893 0/0:144:144,0:144:5118:0:0:0,-43.3483,-460.763 0/0:126:126,0:126:4470:0:0:0,-37.9298,-402.47 0/1:158:75,83:75:2684:83:2963:-219.34,0,-193.752 0/1:67:47,20:47:1688:20:712:-44.2376,0,-132.038 0/0:73:73,0:73:2574:0:0:0,-21.9752,-231.908 0/0:66:66,0:66:2364:0:0:0,-19.868,-213.018 chr03 28805797 . A T 39698.6 PASS AB=0.528655;ABP=9.1082;AC=32;AF=0.761905;AN=42;AO=1840;CIGAR=1X;DP=2411;DPB=2411;DPRA=0.708176;EPP=3998.52;EPPR=1234.24;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9918;MQMR=60;NS=21;NUMALT=1;ODDS=18.8177;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65760;QR=20217;RO=567;RPL=0;RPP=3998.52;RPPR=1234.24;RPR=1840;RUN=1;SAF=1840;SAP=3998.52;SAR=0;SRF=567;SRP=1234.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:134:3,131:3:93:131:4680:-412.665,-31.6613,0 1/1:114:0,114:0:0:114:4079:-367.295,-34.3174,0 0/1:102:41,61:41:1457:61:2184:-166.121,0,-100.719 0/1:137:46,90:46:1637:90:3212:-248.001,0,-106.317 1/1:172:0,172:0:0:172:6164:-554.858,-51.7772,0 0/1:49:29,20:29:1013:20:712:-49.6562,0,-76.7289 0/1:144:71,73:71:2517:73:2620:-192.699,0,-183.433 0/0:159:159,0:159:5684:0:0:0,-47.8638,-511.68 0/1:174:99,75:99:3556:75:2691:-190.054,0,-267.868 0/1:26:15,11:15:536:11:396:-28.156,0,-40.748 1/1:16:0,16:0:0:16:552:-50.0029,-4.81648,0 1/1:46:0,46:0:0:46:1633:-147.257,-13.8474,0 1/1:58:0,58:0:0:58:2072:-186.75,-17.4597,0 1/1:151:1,150:1:36:150:5322:-475.518,-41.8573,0 1/1:298:1,297:1:36:297:10610:-951.213,-86.1087,0 1/1:148:0,145:0:0:145:5193:-467.148,-43.6494,0 1/1:124:0,124:0:0:124:4438:-399.591,-37.3277,0 0/1:156:81,75:81:2900:75:2683:-194.754,0,-214.275 0/1:67:20,47:20:716:47:1692:-132.398,0,-44.5987 1/1:70:0,70:0:0:70:2495:-224.802,-21.0721,0 1/1:66:1,65:1:36:65:2332:-206.541,-16.2697,0 chr03 28812930 . T G 13138.5 PASS AB=0.478844;ABP=6.77732;AC=10;AF=0.238095;AN=42;AO=718;CIGAR=1X;DP=2471;DPB=2471;DPRA=1.80598;EPP=1544.8;EPPR=3631.35;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.9861;MQMR=59.964;NS=21;NUMALT=1;ODDS=1.80197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25364;QR=62616;RO=1750;RPL=716;RPP=1544.8;RPPR=3631.35;RPR=2;RUN=1;SAF=0;SAP=1562.13;SAR=718;SRF=0;SRP=3803.09;SRR=1750;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:166:163,3:163:5836:3:108:0,-39.8958,-515.277 0/0:80:80,0:80:2876:0:0:0,-24.0824,-259.076 0/1:102:55,47:55:1972:47:1682:-120.962,0,-147.05 0/1:121:65,56:65:2317:56:1984:-142.409,0,-172.364 0/0:164:160,1:160:5665:1:36:0,-45.2274,-506.37 0/1:147:65,82:65:2332:82:2862:-213.567,0,-165.888 0/1:193:90,103:90:3232:103:3647:-270.334,0,-233.002 1/1:247:0,247:0:0:247:8752:-787.679,-74.3544,0 0/1:268:140,128:140:5013:128:4520:-326.296,0,-370.635 0/1:20:14,6:14:504:6:208:-13.0385,0,-39.6775 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/0:195:194,1:194:6968:1:36:0,-55.1026,-623.583 0/0:129:129,0:129:4621:0:0:0,-38.8329,-416.049 0/0:141:141,0:141:4999:0:0:0,-42.4452,-450.02 0/0:75:75,0:75:2681:0:0:0,-22.5772,-241.533 0/0:73:73,0:73:2620:0:0:0,-21.9752,-236.047 0/1:56:32,24:32:1140:24:830:-58.1578,0,-86.0515 0/1:62:44,18:44:1584:18:631:-38.4525,0,-124.188 0/0:102:100,2:100:3584:2:68:0,-24.2474,-316.27 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 chr03 28819918 . A G 14338.2 PASS AB=0.464126;ABP=7.99592;AC=32;AF=0.761905;AN=42;AO=609;CIGAR=1X;DP=971;DPB=971;DPRA=0.357983;EPP=760.783;EPPR=246.029;GTI=3;LEN=1;MEANALT=1.05;MQM=60;MQMR=59.8892;NS=21;NUMALT=1;ODDS=0.25334;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21776;QR=12890;RO=361;RPL=535;RPP=760.783;RPPR=246.029;RPR=74;RUN=1;SAF=609;SAP=1325.44;SAR=0;SRF=361;SRP=786.912;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,46:0:0:46:1647:-148.158,-13.8474,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:74:42,32:42:1489:32:1140:-80.633,0,-112.026 0/1:41:21,20:21:748:20:708:-51.7034,0,-55.3031 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 0/1:34:24,10:24:841:10:356:-22.1462,0,-65.7713 0/1:43:22,21:22:772:21:737:-53.7063,0,-56.857 0/0:119:119,0:119:4268:0:0:0,-35.8226,-384.297 0/1:121:75,46:75:2688:46:1648:-112.184,0,-204.29 0/1:12:8,4:8:284:4:144:-9.70126,0,-22.291 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:74:1,73:1:36:73:2620:-232.449,-18.6779,0 1/1:47:0,47:0:0:47:1686:-152.027,-14.1484,0 1/1:71:0,71:0:0:71:2535:-228.401,-21.3731,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:17:1,16:1:36:16:572:-48.2152,-1.51924,0 0/1:78:35,43:35:1260:43:1527:-114.241,0,-90.2251 0/1:43:12,31:12:432:31:1116:-87.8074,0,-26.2769 1/1:42:1,41:1:36:41:1476:-129.538,-9.04499,0 1/1:40:0,40:0:0:40:1424:-128.457,-12.0412,0 chr03 28823931 . 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T C 9824.25 PASS AB=0.372283;ABP=55.1492;AC=31;AF=0.738095;AN=42;AO=491;CIGAR=1X;DP=808;DPB=808;DPRA=0.455;EPP=1069.2;EPPR=689.196;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9735;MQMR=59.8987;NS=21;NUMALT=1;ODDS=0.0631284;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17494;QR=11360;RO=316;RPL=491;RPP=1069.2;RPPR=689.196;RPR=0;RUN=1;SAF=0;SAP=1069.2;SAR=491;SRF=0;SRP=689.196;SRR=316;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:14:1,13:1:36:13:468:-38.8614,-0.616145,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:77:52,24:52:1868:24:845:-53.2731,0,-145.308 0/1:53:30,23:30:1080:23:828:-58.8895,0,-81.5587 0/1:28:3,25:3:108:25:896:-72.5315,0,-1.64633 0/1:17:14,3:14:504:3:108:-4.95766,0,-40.5806 0/1:57:47,10:47:1684:10:345:-14.2221,0,-134.688 0/0:80:80,0:80:2880:0:0:0,-24.0824,-258.659 0/1:70:52,18:52:1868:18:640:-36.8572,0,-147.327 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 1/1:59:0,59:0:0:59:2099:-189.179,-17.7608,0 1/1:55:2,53:2:72:53:1870:-161.739,-9.71993,0 1/1:47:0,47:0:0:47:1688:-152.207,-14.1484,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:22:12,10:12:432:10:360:-26.1216,0,-32.5985 0/1:35:14,21:14:504:21:748:-57.1092,0,-35.162 1/1:94:3,91:3:108:91:3243:-282.017,-18.2217,0 1/1:21:0,21:0:0:21:740:-66.9201,-6.32163,0 chr03 28933306 . A G 6844.08 PASS AB=0.412671;ABP=41.6952;AC=10;AF=0.238095;AN=42;AO=311;CIGAR=1X;DP=1375;DPB=1375;DPRA=1.38972;EPP=678.338;EPPR=2313.46;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.97599;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11018;QR=37888;RO=1064;RPL=143;RPP=7.37419;RPPR=8.96144;RPR=168;RUN=1;SAF=143;SAP=7.37419;SAR=168;SRF=559;SRP=8.96144;SRR=505;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.086 0/0:62:61,1:61:2187:1:32:0,-15.4645,-193.896 0/1:27:11,16:11:388:16:567:-43.2329,0,-27.1296 0/1:69:36,33:36:1287:33:1176:-85.3767,0,-95.3617 0/0:126:123,3:123:4379:3:108:0,-27.8546,-384.21 0/1:30:16,14:16:563:14:504:-36.6672,0,-41.9683 0/1:87:42,45:42:1508:45:1604:-118.461,0,-109.825 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 0/1:91:57,34:57:2048:34:1212:-81.992,0,-157.198 0/1:22:18,4:18:648:4:144:-6.69096,0,-52.0292 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:78:77,1:77:2748:1:36:0,-19.8821,-243.964 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 0/0:85:85,0:85:3036:0:0:0,-25.5875,-273.471 0/0:39:38,1:38:1347:1:36:0,-8.14189,-117.931 0/0:37:37,0:37:1276:0:0:0,-11.1381,-115.135 0/1:124:69,55:69:2464:55:1912:-135.024,0,-184.687 0/1:134:94,40:94:3330:40:1395:-85.5055,0,-259.581 0/0:66:66,0:66:2352:0:0:0,-19.868,-211.939 0/0:118:118,0:118:4175:0:0:0,-35.5215,-375.934 chr03 28933771 . CG AT,AG 47887.9 PASS AB=0.537659,0.458864;ABP=13.6412,15.6944;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1714,498;CIGAR=2X,1X1M;DP=2219;DPB=2219;DPRA=1.15598,1.3752;EPP=3707.56,1075.74;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.95,2.30769;MQM=58.9597,60;MQMR=0;NS=21;NUMALT=2;ODDS=15.5367;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60718,17878;QR=0;RO=0;RPL=2,1;RPP=3707.56,1075.74;RPPR=0;RPR=1712,497;RUN=1,1;SAF=1714,498;SAP=3724.91,1084.4;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:0,150,0:0:0:150,0:5293,0:-475.556,-45.1545,0,-475.556,-45.1545,-475.556 1/1:58:0,57,0:0:0:57,0:2032,0:-182.73,-17.1587,0,-182.73,-17.1587,-182.73 1/2:101:0,47,54:0:0:47,54:1652,1939:-292.968,-158.531,-144.382,-134.792,0,-118.536 1/2:101:0,54,47:0:0:54,47:1917,1680:-293.205,-137.339,-121.083,-156.222,0,-142.073 1/1:197:0,195,2:0:0:195,2:6872,72:-617.908,-58.7009,0,-612.033,-52.4662,-611.431 1/2:110:0,54,56:0:0:54,56:1923,2012:-321.202,-164.495,-148.24,-157.064,0,-140.206 1/2:138:0,81,57:0:0:81,57:2871,2036:-400.195,-166.354,-141.97,-234.198,0,-217.039 2/2:92:0,0,92:0:0:0,92:0,3307:-297.848,-297.848,-297.848,-27.6948,-27.6948,0 1/2:200:0,107,93:0:0:107,93:3775,3340:-579.154,-272.821,-240.61,-306.689,0,-278.693 1/2:19:0,12,7:0:0:12,7:419,252:-54.9959,-20.9217,-17.3094,-34.43,0,-32.3228 1/1:7:0,7,0:0:0:7,0:244,0:-22.2985,-2.10721,0,-22.2985,-2.10721,-22.2985 1/1:22:0,22,0:0:0:22,0:788,0:-71.2444,-6.62266,0,-71.2444,-6.62266,-71.2444 1/1:127:0,127,0:0:0:127,0:4490,0:-404.211,-38.2308,0,-404.211,-38.2308,-404.211 1/1:168:0,168,0:0:0:168,0:5962,0:-536.121,-50.573,0,-536.121,-50.573,-536.121 1/1:184:0,181,2:0:0:181,2:6416,72:-576.856,-54.4864,0,-570.981,-48.6116,-570.379 1/1:82:0,82,0:0:0:82,0:2948,0:-265.374,-24.6845,0,-265.374,-24.6845,-265.374 1/1:71:0,71,0:0:0:71,0:2504,0:-225.354,-21.3731,0,-225.354,-21.3731,-225.354 1/2:109:0,54,53:0:0:54,53:1919,1908:-312.01,-155.683,-139.428,-156.324,0,-140.37 1/2:85:0,55,29:0:0:55,29:1948,1044:-243.88,-85.2237,-68.667,-158.692,0,-149.963 1/1:113:0,108,4:0:0:108,4:3848,144:-346.021,-32.5112,0,-334.271,-20.7616,-333.067 1/1:84:0,82,2:0:0:82,2:2897,72:-260.551,-24.6845,0,-254.676,-18.4498,-254.074 chr03 28933801 . C T 99609.8 PASS AB=0.530894;ABP=16.8298;AC=32;AF=0.761905;AN=42;AO=3626;CIGAR=1X;DP=4632;DPB=4632;DPRA=1.05813;EPP=7876.77;EPPR=2178.83;GTI=0;LEN=1;MEANALT=1;MQM=59.3544;MQMR=59.9742;NS=21;NUMALT=1;ODDS=37.3101;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=129377;QR=35475;RO=1006;RPL=1651;RPP=65.8764;RPPR=4.70258;RPR=1975;RUN=1;SAF=1651;SAP=65.8764;SAR=1975;SRF=488;SRP=4.95297;SRR=518;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:363:2,361:2:72:361:12875:-1151.02,-102.437,0 1/1:171:0,171:0:0:171:6111:-549.977,-51.4761,0 0/1:139:73,66:73:2537:66:2348:-169.707,0,-186.737 0/1:216:100,116:100:3579:116:4157:-308.847,0,-257.294 1/1:399:2,397:2:72:397:14146:-1265.71,-113.274,0 0/1:222:104,118:104:3684:118:4182:-309.703,0,-264.934 0/1:260:122,138:122:4261:138:4952:-366.53,0,-305.405 0/0:209:209,0:209:7437:0:0:0,-62.9153,-669.379 0/1:474:227,247:227:8060:247:8825:-650.919,0,-582.604 0/1:36:18,18:18:609:18:633:-46.4498,0,-44.2875 1/1:20:0,20:0:0:20:703:-63.5934,-6.0206,0 1/1:63:0,63:0:0:63:2264:-203.24,-18.9649,0 1/1:256:0,256:0:0:256:9126:-820.768,-77.0637,0 1/1:338:0,338:0:0:338:12064:-1085.03,-101.748,0 1/1:412:4,408:4:144:408:14575:-1297.75,-110.711,0 1/1:197:0,197:0:0:197:7028:-632.269,-59.3029,0 1/1:184:0,184:0:0:184:6586:-592.627,-55.3895,0 0/1:160:81,79:81:2817:79:2797:-203.368,0,-205.608 0/1:160:57,103:57:1951:103:3681:-283.292,0,-127.696 1/1:216:7,209:7:252:209:7453:-647.619,-41.9935,0 1/1:137:0,137:0:0:137:4871:-438.492,-41.2411,0 chr03 28933810 . CGC TGT,CGT 80911.1 PASS AB=0.422188,0.57473;ABP=71.2728,65.973;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2258,967;CIGAR=1X1M1X,2M1X;DP=3233;DPB=3238.33;DPRA=0.738537,1.35166;EPP=2834.83,3.3898;EPPR=5.18177;GTI=1;LEN=3,1;MEANALT=2,2.28571;MQM=59.2976,59.9669;MQMR=60;NS=21;NUMALT=2;ODDS=6.46863;PAIRED=0,0;PAIREDR=0;PAO=16,0;PQA=537,0;PQR=0;PRO=0;QA=78357,34134;QR=36;RO=1;RPL=2233,959;RPP=4691.45,2033.91;RPPR=5.18177;RPR=25,8;RUN=1,1;SAF=246,469;SAP=3002.25,4.89883;SAR=2012,498;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:223:0,220,2:0:0:220,2:7667,72:-689.418,-66.2266,0,-683.543,-60.3486,-682.941 1/1:118:0,117,0:0:0:117,0:4064,0:-365.554,-35.2205,0,-365.554,-35.2205,-365.554 1/2:94:0,23,71:0:0:23,71:790,2552:-272.698,-208.557,-201.633,-64.4882,0,-43.115 1/2:166:0,64,102:0:0:64,102:2200,3636:-475.263,-296.741,-277.475,-178.87,0,-148.165 1/1:223:0,221,2:0:0:221,2:7688,68:-691.585,-66.5276,0,-686.069,-60.672,-685.467 1/2:167:0,68,99:0:0:68,99:2383,3475:-476.696,-282.799,-262.329,-193.888,0,-164.086 1/2:180:0,63,116:0:0:63,116:2166,4104:-510.028,-334.346,-315.381,-175.742,0,-140.822 2/2:205:0,0,205:0:0:0,205:0,7218:-649.683,-649.683,-649.683,-61.7112,-61.7112,0 1/2:453:0,244,208:0:0:244,208:8528,7290:-1286.51,-593.193,-519.741,-693.351,0,-630.737 1/2:24:0,7,16:0:0:7,16:243,553:-64.7475,-44.9937,-42.8865,-19.8109,0,-14.9944 1/1:14:0,14,0:0:0:14,0:485,0:-43.6183,-4.21442,0,-43.6183,-4.21442,-43.6183 1/1:45:0,45,0:0:0:45,0:1570,0:-140.807,-13.5464,0,-140.807,-13.5464,-140.807 1/1:133:0,133,0:0:0:133,0:4576,0:-411.665,-40.037,0,-411.665,-40.037,-411.665 1/1:179:0,179,0:0:0:179,0:6205,0:-558.521,-53.8844,0,-558.521,-53.8844,-558.521 1/1:242:0,237,4:0:0:237,4:8232,136:-740.465,-71.3441,0,-729.433,-60.3285,-728.229 1/1:196:0,196,0:0:0:196,0:6815,0:-612.895,-59.0019,0,-612.895,-59.0019,-612.895 1/1:188:0,187,0:0:0:187,0:6422,0:-577.519,-56.2926,0,-577.519,-56.2926,-577.519 1/2:109:0,28,81:0:0:28,81:980,2875:-314.001,-234.273,-225.844,-79.746,0,-55.3625 1/2:105:1,51,53:1:36:51,53:1767,1871:-292.718,-149.417,-137.002,-140.655,0,-127.638 1/1:109:0,103,6:0:0:103,6:3574,212:-321.472,-31.0061,0,-304.206,-13.3875,-302.4 1/1:60:0,58,2:0:0:58,2:2002,72:-180.083,-17.4597,0,-174.207,-11.5749,-173.605 chr03 28957785 . A G 36261.2 PASS AB=0.526891;ABP=10.4845;AC=32;AF=0.761905;AN=42;AO=1739;CIGAR=1X;DP=2352;DPB=2352;DPRA=2.302;EPP=3779.2;EPPR=1334.12;GTI=0;LEN=1;MEANALT=1;MQM=59.9914;MQMR=60;NS=21;NUMALT=1;ODDS=18.2796;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61900;QR=21917;RO=613;RPL=0;RPP=3779.2;RPPR=1334.12;RPR=1739;RUN=1;SAF=0;SAP=3779.2;SAR=1739;SRF=0;SRP=1334.12;SRR=613;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66:0:0:66:2352:-211.939,-19.868,0 1/1:61:0,61:0:0:61:2183:-196.735,-18.3628,0 0/1:48:16,32:16:576:32:1140:-88.4598,0,-37.7255 0/1:28:18,10:18:648:10:352:-23.5894,0,-50.223 1/1:90:0,90:0:0:90:3190:-287.322,-27.0927,0 0/1:40:28,12:28:984:12:428:-26.8176,0,-76.8295 0/1:59:27,32:27:968:32:1148:-85.8691,0,-69.6766 0/0:50:50,0:50:1777:0:0:0,-15.0515,-160.211 0/1:80:42,38:42:1508:38:1356:-98.2581,0,-111.932 0/1:377:170,207:170:6074:207:7372:-550.021,0,-433.272 1/1:338:0,338:0:0:338:12032:-1082.74,-101.748,0 1/1:223:0,223:0:0:223:7979:-718.132,-67.1297,0 1/1:61:0,61:0:0:61:2134:-192.324,-18.3628,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:72:0,72:0:0:72:2568:-231.37,-21.6742,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 1/1:49:0,49:0:0:49:1740:-156.884,-14.7505,0 0/1:531:253,278:253:9058:278:9885:-729.751,0,-655.348 0/1:27:9,18:9:324:18:644:-50.1628,0,-21.378 1/1:58:0,58:0:0:58:2054:-185.13,-17.4597,0 1/1:36:0,36:0:0:36:1259:-113.609,-10.8371,0 chr03 28958006 . C G 40529.9 PASS AB=0.558458;ABP=26.8749;AC=32;AF=0.761905;AN=42;AO=1880;CIGAR=1X;DP=2339;DPB=2339;DPRA=1.10792;EPP=4085.38;EPPR=995.373;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9899;MQMR=60;NS=21;NUMALT=1;ODDS=21.9681;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66902;QR=16337;RO=457;RPL=0;RPP=4085.38;RPPR=995.373;RPR=1880;RUN=1;SAF=1880;SAP=4085.38;SAR=0;SRF=457;SRP=995.373;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,44:0:0:44:1546:-139.428,-13.2453,0 1/1:110:0,110:0:0:110:3929:-353.801,-33.1133,0 0/1:93:40,53:40:1425:53:1870:-140.574,0,-100.55 0/1:135:46,89:46:1640:89:3177:-245.514,0,-107.25 1/1:433:2,431:2:72:431:15383:-1377.34,-123.509,0 0/1:102:48,53:48:1716:53:1896:-140.154,0,-123.962 0/1:159:73,86:73:2616:86:3020:-224.163,0,-187.824 0/0:101:101,0:101:3604:0:0:0,-30.404,-324.567 0/1:214:91,123:91:3256:123:4390:-330.85,0,-228.841 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 1/1:155:0,155:0:0:155:5488:-494.047,-46.6597,0 1/1:125:0,125:0:0:125:4415:-397.523,-37.6288,0 1/1:174:0,174:0:0:174:6177:-556.016,-52.3792,0 1/1:106:0,106:0:0:106:3785:-340.848,-31.9092,0 1/1:117:0,117:0:0:117:4200:-378.18,-35.2205,0 0/1:59:35,23:35:1256:23:809:-55.3091,0,-95.5257 0/1:30:12,18:12:428:18:648:-49.621,0,-29.8279 1/1:96:1,95:1:36:95:3380:-300.817,-25.3006,0 1/1:49:0,49:0:0:49:1749:-157.692,-14.7505,0 chr03 28960480 . T C 23332.1 PASS AB=0.569489;ABP=55.5211;AC=11;AF=0.261905;AN=42;AO=1193;CIGAR=1X;DP=3117;DPB=3117;DPRA=1.59552;EPP=2593.58;EPPR=4178.75;GTI=2;LEN=1;MEANALT=1.1;MQM=59.7703;MQMR=59.9433;NS=21;NUMALT=1;ODDS=3.40046;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42766;QR=68812;RO=1923;RPL=0;RPP=2593.58;RPPR=4178.75;RPR=1193;RUN=1;SAF=1193;SAP=2593.58;SAR=0;SRF=1923;SRP=4178.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:141:141,0:141:5030:0:0:0,-42.4452,-452.844 0/0:99:98,1:98:3528:1:36:0,-26.2037,-314.129 0/1:139:76,63:76:2705:63:2245:-160.373,0,-201.85 0/1:151:91,60:91:3260:60:2156:-148.831,0,-248.057 0/0:212:212,0:212:7612:0:0:0,-63.8184,-685.114 0/1:138:70,68:70:2508:68:2427:-177.129,0,-184.43 0/1:234:124,110:124:4418:110:3948:-285.04,0,-327.043 1/1:198:1,197:1:32:197:7042:-630.599,-56.4046,0 0/1:124:64,60:64:2281:60:2152:-156.619,0,-168.223 1/1:296:13,282:13:464:282:10116:-868.236,-46.9268,0 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:36:36,0:36:1273:0:0:0,-10.8371,-114.871 0/0:104:104,0:104:3724:0:0:0,-31.3071,-335.349 0/0:152:152,0:152:5428:0:0:0,-45.7566,-488.651 0/0:251:251,0:251:9012:0:0:0,-75.5585,-811.045 0/0:89:89,0:89:3180:0:0:0,-26.7917,-286.425 0/0:112:112,0:112:4020:0:0:0,-33.7154,-361.987 0/1:383:43,340:43:1544:340:12212:-983.245,0,-23.9586 0/1:83:71,12:71:2544:12:432:-14.2334,0,-204.225 0/0:106:106,0:106:3796:0:0:0,-31.9092,-341.838 0/0:63:63,0:63:2237:0:0:0,-18.9649,-201.584 chr03 28960518 . C G 22700 PASS AB=0.566343;ABP=50.2627;AC=11;AF=0.261905;AN=42;AO=1177;CIGAR=1X;DP=3093;DPB=3093;DPRA=1.61498;EPP=2558.83;EPPR=4152.69;GTI=2;LEN=1;MEANALT=1.36364;MQM=59.785;MQMR=59.9498;NS=21;NUMALT=1;ODDS=4.93235;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41870;QR=67834;RO=1911;RPL=1177;RPP=2558.83;RPPR=4152.69;RPR=0;RUN=1;SAF=1177;SAP=2558.83;SAR=0;SRF=1911;SRP=4152.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:137:137,0:137:4886:0:0:0,-41.2411,-439.893 0/0:99:98,1:98:3499:1:36:0,-26.2037,-311.522 0/1:137:75,61:75:2665:61:2175:-154.625,0,-198.795 0/1:150:90,59:90:3194:59:2085:-142.72,0,-242.385 0/0:208:207,0:207:7354:0:0:0,-62.3132,-661.55 0/1:137:69,68:69:2442:68:2432:-177.877,0,-178.794 0/1:236:124,111:124:4387:111:3979:-287.202,0,-323.643 1/1:201:0,201:0:0:201:7123:-641.074,-60.507,0 0/1:123:62,61:62:2215:61:2179:-159.349,0,-162.587 1/1:288:13,274:13:464:274:9765:-836.671,-44.6577,0 0/0:7:7,0:7:234:0:0:0,-2.10721,-21.386 0/0:37:37,0:37:1319:0:0:0,-11.1381,-119.011 0/0:105:105,0:105:3692:0:0:0,-31.6081,-332.483 0/0:155:154,1:154:5454:1:36:0,-43.0614,-487.391 0/0:253:253,0:253:9019:0:0:0,-76.1606,-811.68 0/0:88:88,0:88:3156:0:0:0,-26.4906,-284.265 0/0:112:112,0:112:4007:0:0:0,-33.7154,-360.818 0/1:372:44,328:44:1545:328:11640:-935.132,0,-27.3564 0/1:81:69,12:69:2399:12:420:-13.7482,0,-191.778 0/0:103:103,0:103:3652:0:0:0,-31.0061,-328.885 0/0:64:64,0:64:2251:0:0:0,-19.2659,-202.85 chr03 28960521 . GTACC TTACT,GTACT 67155.1 PASS AB=0.433227,0.562003;ABP=51.7286,45.0174;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1944,1191;CIGAR=1X3M1X,4M1X;DP=3147;DPB=3147;DPRA=0.740704,1.81549;EPP=4224.35,2589.23;EPPR=0;GTI=2;LEN=5,1;MEANALT=2.1,2.41667;MQM=59.9455,59.7607;MQMR=0;NS=21;NUMALT=2;ODDS=5.78501;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68482,42532;QR=0;RO=0;RPL=1944,1191;RPP=4224.35,2589.23;RPPR=0;RPR=0,0;RUN=1,1;SAF=1944,1191;SAP=4224.35,2589.23;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:143:0,140,0:0:0:140,0:4927,0:-443.228,-42.1442,0,-443.228,-42.1442,-443.228 1/1:103:0,102,1:0:0:102,1:3597,36:-323.581,-30.7051,0,-320.643,-27.4078,-320.342 1/2:140:0,75,63:0:0:75,63:2645,2247:-398.443,-183.078,-160.501,-215.36,0,-196.396 1/2:153:0,93,60:0:0:93,60:3262,2143:-440.5,-175.067,-147.071,-265.788,0,-247.726 1/1:215:0,214,1:0:0:214,1:7571,36:-681.086,-64.4204,0,-678.205,-61.1853,-677.904 1/2:137:0,70,66:0:0:70,66:2465,2351:-392.282,-191.602,-170.53,-200.674,0,-180.806 1/2:241:0,129,112:0:0:129,112:4509,4014:-694.424,-327.709,-288.876,-367.069,0,-333.353 2/2:199:0,0,199:0:0:0,199:0,7130:-641.695,-641.695,-641.695,-59.905,-59.905,0 1/2:124:0,64,60:0:0:64,60:2210,2148:-355.072,-175.526,-156.26,-179.898,0,-161.836 2/2:296:0,14,282:0:0:14,282:495,10070:-905.848,-865.533,-861.318,-84.8905,-44.2211,0 1/1:7:0,6,0:0:0:6,0:216,0:-19.4307,-1.80618,0,-19.4307,-1.80618,-19.4307 1/1:38:0,38,0:0:0:38,0:1316,0:-118.737,-11.4391,0,-118.737,-11.4391,-118.737 1/1:106:0,106,0:0:0:106,0:3727,0:-335.633,-31.9092,0,-335.633,-31.9092,-335.633 1/1:156:0,155,1:0:0:155,1:5431,36:-488.571,-46.6597,0,-485.633,-43.3624,-485.332 1/1:256:0,255,0:0:0:255,0:9034,0:-812.685,-76.7627,0,-812.685,-76.7627,-812.685 1/1:89:0,89,0:0:0:89,0:3158,0:-284.447,-26.7917,0,-284.447,-26.7917,-284.447 1/1:112:0,111,0:0:0:111,0:3948,0:-355.303,-33.4143,0,-355.303,-33.4143,-355.303 1/2:381:0,44,334:0:0:44,334:1560,11904:-1097.37,-970.275,-957.029,-127.103,0,-26.5591 1/2:82:0,70,12:0:0:70,12:2455,417:-234.029,-34.2455,-13.1734,-200.132,0,-196.519 1/1:105:0,105,0:0:0:105,0:3696,0:-332.848,-31.6082,0,-332.848,-31.6082,-332.848 1/1:64:0,64,0:0:0:64,0:2260,0:-203.655,-19.2659,0,-203.655,-19.2659,-203.655 chr03 28960596 . GA CA,CG 50211.7 PASS AB=0.487179,0.510921;ABP=4.51363,4.10119;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1699,638;CIGAR=1X1M,2X;DP=2342;DPB=2342;DPRA=1.20914,1.55799;EPP=3692.34,1388.41;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.75,2.18182;MQM=59.196,53.7931;MQMR=0;NS=21;NUMALT=2;ODDS=3.51052;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60696,22597;QR=0;RO=0;RPL=0,0;RPP=3692.34,1388.41;RPPR=0;RPR=1699,638;RUN=1,1;SAF=0,0;SAP=3692.34,1388.41;SAR=1699,638;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:0,114,0:0:0:114,0:4054,0:-364.422,-34.3174,0,-364.422,-34.3174,-364.422 1/1:78:0,77,0:0:0:77,0:2760,0:-247.542,-23.1793,0,-247.542,-23.1793,-247.542 1/2:204:0,98,106:0:0:98,106:3508,3766:-592.616,-306.59,-277.089,-286.382,0,-254.473 1/2:128:0,49,79:0:0:49,79:1756,2823:-373.122,-229.967,-215.216,-143.512,0,-119.731 1/1:238:0,238,0:0:0:238,0:8478,0:-762.519,-71.6451,0,-762.519,-71.6451,-762.519 1/2:99:0,57,42:0:0:57,42:2032,1479:-285.7,-120.387,-103.228,-165.666,0,-153.022 1/2:193:0,82,111:0:0:82,111:2906,3917:-552.801,-316.503,-291.818,-236.65,0,-203.236 2/2:93:0,0,93:0:0:0,93:0,3293:-295.031,-295.031,-295.031,-27.9958,-27.9958,0 1/2:212:0,91,120:0:0:91,120:3253,4276:-613.096,-347.977,-320.583,-265.116,0,-228.992 1/2:19:0,6,13:0:0:6,13:216,454:-54.56,-36.9598,-35.1536,-17.9555,0,-14.0421 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:28:0,28,0:0:0:28,0:1000,0:-90.2836,-8.42884,0,-90.2836,-8.42884,-90.2836 1/1:142:0,136,6:0:0:136,6:4870,211:-437.692,-40.9401,0,-420.529,-23.4257,-418.723 1/1:94:0,94,0:0:0:94,0:3366,0:-302.969,-28.2968,0,-302.969,-28.2968,-302.969 1/1:191:0,189,1:0:0:189,1:6772,36:-609.048,-56.8947,0,-606.113,-53.9597,-605.812 1/1:78:0,78,0:0:0:78,0:2796,0:-251.73,-23.4803,0,-251.73,-23.4803,-251.73 1/1:64:0,64,0:0:0:64,0:2296,0:-206.856,-19.2659,0,-206.856,-19.2659,-206.856 1/2:114:0,72,41:0:0:72,41:2533,1439:-322.26,-116.451,-94.7765,-205.8,0,-193.458 1/2:84:0,58,26:0:0:58,26:2080,903:-242.885,-73.323,-55.8632,-169.911,0,-162.085 1/1:107:0,107,0:0:0:107,0:3836,0:-345.249,-32.2102,0,-345.249,-32.2102,-345.249 1/1:51:0,51,0:0:0:51,0:1824,0:-164.438,-15.3525,0,-164.438,-15.3525,-164.438 chr03 28960618 . ATCT GTT,GTTT 50867.2 PASS AB=0.492523,0.503738;ABP=3.52983,3.14018;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1740,639;CIGAR=1X1M1D1M,1X1M1X1M;DP=2383;DPB=1948;DPRA=1.23118,1.55269;EPP=3781.37,1381.91;EPPR=0;GTI=0;LEN=3,4;MEANALT=1.7,2.27273;MQM=59.1161,53.8013;MQMR=0;NS=21;NUMALT=2;ODDS=4.7169;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61746,22697;QR=0;RO=0;RPL=1740,638;RPP=3781.37,1381.91;RPPR=0;RPR=0,1;RUN=1,1;SAF=0,0;SAP=3781.37,1390.58;SAR=1740,639;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117,0:0:0:117,0:4159,0:-374.191,-35.2205,0,-374.191,-35.2205,-374.191 1/1:81:0,81,0:0:0:81,0:2864,0:-257.604,-24.3834,0,-257.604,-24.3834,-257.604 1/2:205:0,97,107:0:0:97,107:3443,3787:-588.423,-307.942,-278.742,-280.477,0,-248.267 1/2:129:0,50,79:0:0:50,79:1796,2813:-375.521,-229.074,-214.023,-146.804,0,-123.022 1/1:244:0,244,0:0:0:244,0:8649,0:-777.456,-73.4513,0,-777.456,-73.4513,-777.456 1/2:101:0,59,42:0:0:59,42:2074,1486:-289.248,-120.986,-103.225,-168.613,0,-155.97 1/2:196:0,85,111:0:0:85,111:3007,3955:-563.879,-320.083,-294.495,-244.15,0,-210.735 2/2:93:0,0,93:0:0:0,93:0,3281:-294.219,-294.219,-294.219,-27.9958,-27.9958,0 1/2:219:0,96,122:0:0:96,122:3390,4349:-629.675,-353.733,-324.834,-275.936,0,-239.211 1/2:20:0,7,12:0:0:7,12:250,430:-54.8914,-34.7972,-32.69,-20.1011,0,-16.4888 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:28:0,28,0:0:0:28,0:998,0:-90.1057,-8.42884,0,-90.1057,-8.42884,-90.1057 1/1:145:0,139,6:0:0:139,6:4962,216:-445.934,-41.8432,0,-428.323,-23.8731,-426.517 1/1:95:0,95,0:0:0:95,0:3346,0:-301.078,-28.5979,0,-301.078,-28.5979,-301.078 1/1:195:0,194,1:0:0:194,1:6924,28:-622.834,-58.3998,0,-620.616,-55.9015,-620.315 1/1:81:0,81,0:0:0:81,0:2879,0:-259.119,-24.3834,0,-259.119,-24.3834,-259.119 1/1:66:0,66,0:0:0:66,0:2336,0:-210.453,-19.868,0,-210.453,-19.868,-210.453 1/2:116:0,75,41:0:0:75,41:2630,1458:-331.229,-118.539,-95.9621,-213.041,0,-200.699 1/2:84:0,58,25:0:0:58,25:2065,894:-240.604,-72.4092,-54.9495,-168.2,0,-160.674 1/1:107:0,107,0:0:0:107,0:3802,0:-342.213,-32.2102,0,-342.213,-32.2102,-342.213 1/1:51:0,51,0:0:0:51,0:1812,0:-163.356,-15.3525,0,-163.356,-15.3525,-163.356 chr03 29009747 . T C 28897.4 PASS AB=0.481894;ABP=5.05475;AC=32;AF=0.761905;AN=42;AO=1368;CIGAR=1X;DP=1832;DPB=1832;DPRA=1.00287;EPP=2973.58;EPPR=1010.57;GTI=0;LEN=1;MEANALT=1;MQM=59.9971;MQMR=60;NS=21;NUMALT=1;ODDS=5.92931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48544;QR=16607;RO=464;RPL=0;RPP=2973.58;RPPR=1010.57;RPR=1368;RUN=1;SAF=0;SAP=2973.58;SAR=1368;SRF=0;SRP=1010.57;SRR=464;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:1,120:1:36:120:4265:-380.431,-32.8264,0 1/1:72:0,72:0:0:72:2517:-226.779,-21.6742,0 0/1:77:36,41:36:1275:41:1449:-107.525,0,-91.873 0/1:107:47,60:47:1688:60:2104:-157.415,0,-119.997 1/1:178:2,176:2:72:176:6220:-553.063,-46.7466,0 0/1:109:59,50:59:2112:50:1778:-127.489,0,-157.537 0/1:115:77,38:77:2764:38:1364:-88.4423,0,-214.383 0/0:87:87,0:87:3116:0:0:0,-26.1896,-280.667 0/1:160:86,74:86:3064:74:2614:-187.341,0,-227.825 0/1:5:1,4:1:36:4:140:-11.4394,0,-2.09312 1/1:5:0,5:0:0:5:172:-15.818,-1.50515,0 1/1:22:0,22:0:0:22:784:-70.8839,-6.62266,0 1/1:139:0,139:0:0:139:4937:-444.479,-41.8432,0 1/1:92:0,92:0:0:92:3293:-296.587,-27.6948,0 1/1:120:1,119:1:36:119:4231:-377.372,-32.5253,0 1/1:42:0,42:0:0:42:1504:-135.655,-12.6433,0 1/1:62:0,62:0:0:62:2208:-198.985,-18.6639,0 0/1:75:39,36:39:1404:36:1276:-92.5658,0,-104.082 0/1:70:27,43:27:968:43:1522:-116.2,0,-66.3653 1/1:130:1,129:1:36:129:4590:-409.665,-35.5356,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 chr03 29037501 . A G 37655.1 PASS AB=0.518466;ABP=5.09541;AC=32;AF=0.761905;AN=42;AO=1405;CIGAR=1X;DP=1820;DPB=1820;DPRA=1.32879;EPP=119.891;EPPR=95.5673;GTI=0;LEN=1;MEANALT=1;MQM=58.4178;MQMR=57.8482;NS=21;NUMALT=1;ODDS=9.90088;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49738;QR=14833;RO=415;RPL=0;RPP=3053.93;RPPR=904.171;RPR=1405;RUN=1;SAF=840;SAP=119.891;SAR=565;SRF=274;SRP=95.5673;SRR=141;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,103:0:0:103:3640:-327.671,-31.0061,0 1/1:102:0,102:0:0:102:3622:-325.943,-30.7051,0 0/1:42:24,18:24:855:18:640:-45.1968,0,-64.5889 0/1:84:38,46:38:1356:46:1617:-120.503,0,-97.032 1/1:134:1,133:1:36:133:4682:-417.711,-36.7397,0 0/1:68:38,30:38:1364:30:1063:-75.508,0,-102.462 0/1:135:52,83:52:1864:83:2956:-225.413,0,-127.226 0/0:66:66,0:66:2355:0:0:0,-19.868,-212.106 0/1:120:61,59:61:2159:59:2082:-151.518,0,-158.383 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 1/1:8:0,8:0:0:8:272:-24.807,-2.40824,0 1/1:30:0,30:0:0:30:1064:-95.9889,-9.0309,0 1/1:98:0,98:0:0:98:3468:-312.192,-29.5009,0 1/1:72:1,71:1:36:71:2481:-219.824,-18.0759,0 1/1:126:0,126:0:0:126:4476:-402.2,-37.9298,0 1/1:74:0,74:0:0:74:2634:-237.014,-22.2762,0 1/1:56:2,54:2:72:54:1912:-165.403,-10.0214,0 0/1:137:74,63:74:2648:63:2222:-158.816,0,-197.011 0/1:112:47,65:47:1692:65:2302:-172.758,0,-117.775 1/1:113:5,108:5:180:108:3839:-329.12,-17.4737,0 1/1:134:1,133:1:36:133:4730:-421.908,-36.7397,0 chr03 29037526 . G A 9242.46 PASS AB=0.479374;ABP=5.60804;AC=10;AF=0.238095;AN=42;AO=412;CIGAR=1X;DP=1833;DPB=1833;DPRA=1.01232;EPP=94.8446;EPPR=151.869;GTI=0;LEN=1;MEANALT=1.07692;MQM=57.7791;MQMR=58.4718;NS=21;NUMALT=1;ODDS=10.5508;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14703;QR=50544;RO=1420;RPL=411;RPP=888.992;RPPR=2966.1;RPR=1;RUN=1;SAF=271;SAP=92.0828;SAR=141;SRF=852;SRP=126.35;SRR=568;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:110:110,0:110:3908:0:0:0,-33.1133,-351.607 0/0:103:103,0:103:3687:0:0:0,-31.0061,-331.863 0/1:42:18,24:18:644:24:852:-64.3248,0,-45.5595 0/1:83:44,39:44:1526:39:1392:-100.464,0,-112.617 0/0:128:127,1:127:4536:1:36:0,-34.9336,-404.6 0/1:69:31,38:31:1112:38:1359:-101.719,0,-79.6169 0/1:135:84,51:84:2992:51:1815:-122.826,0,-228.755 1/1:66:0,66:0:0:66:2348:-211.469,-19.868,0 0/1:122:61,61:61:2177:61:2179:-159.527,0,-159.458 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7288 0/0:29:29,0:29:1031:0:0:0,-8.72987,-93.0218 0/0:98:98,0:98:3503:0:0:0,-29.5009,-314.576 0/0:74:72,1:72:2546:1:36:0,-18.6617,-225.767 0/0:130:130,0:130:4644:0:0:0,-39.1339,-416.964 0/0:77:77,0:77:2716:0:0:0,-23.1793,-244.489 0/0:58:56,2:56:2000:2:72:0,-10.6234,-173.38 0/1:134:61,73:61:2184:73:2606:-194.294,0,-156.312 0/1:112:66,46:66:2321:46:1652:-114.176,0,-174.884 0/0:111:106,5:106:3796:5:176:0,-17.2387,-325.618 0/0:136:136,0:136:4825:0:0:0,-40.9401,-433.941 chr03 29070169 . G T 4485.01 PASS AB=0.458;ABP=10.6713;AC=10;AF=0.238095;AN=42;AO=273;CIGAR=1X;DP=1237;DPB=1237;DPRA=1.06672;EPP=595.822;EPPR=2096.31;GTI=0;LEN=1;MEANALT=1;MQM=44.7802;MQMR=59.8371;NS=21;NUMALT=1;ODDS=9.8007;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9796;QR=34430;RO=964;RPL=0;RPP=595.822;RPPR=2096.31;RPR=273;RUN=1;SAF=273;SAP=595.822;SAR=0;SRF=964;SRP=2096.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:75,0:75:2688:0:0:0,-22.5772,-241.975 0/0:66:65,1:65:2321:1:36:0,-16.347,-205.613 0/1:34:18,16:18:644:16:576:-41.4672,0,-48.0556 0/1:50:28,22:28:1004:22:784:-54.211,0,-75.6244 0/0:100:100,0:100:3524:0:0:0,-30.103,-317.335 0/1:75:43,32:43:1544:32:1148:-78.2653,0,-116.673 0/1:122:60,62:60:2129:62:2224:-158.918,0,-155.149 1/1:43:0,43:0:0:43:1544:-137.299,-12.9443,0 0/1:108:60,48:60:2129:48:1724:-121.424,0,-159.357 0/1:12:8,4:8:284:4:144:-9.51715,0,-22.291 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.1885 0/0:62:62,0:62:2205:0:0:0,-18.6639,-198.714 0/0:72:72,0:72:2573:0:0:0,-21.6742,-231.818 0/0:110:110,0:110:3952:0:0:0,-33.1133,-355.865 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:50:20,30:20:716:30:1080:-79.6151,0,-49.7162 0/1:49:34,15:34:1205:15:536:-33.053,0,-94.0034 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.586 0/0:42:42,0:42:1512:0:0:0,-12.6433,-136.356 chr03 29070206 . GCAAATTTTTTAC GCAAATTTTTAC,GAAAATTTTTAC 61901.6 PASS AB=0.52669,0.461447;ABP=8.22647,13.8934;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1789,473;CIGAR=5M1D7M,1M1D3M1X7M;DP=2287;DPB=2111.23;DPRA=1.36173,1.23295;EPP=3887.77,1030.12;EPPR=0;GTI=0;LEN=1,12;MEANALT=2.7,2.91667;MQM=59.8603,50.6004;MQMR=0;NS=21;NUMALT=2;ODDS=19.6334;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63023,16746;QR=0;RO=0;RPL=893,275;RPP=3.02122,30.2295;RPPR=0;RPR=896,198;RUN=1,1;SAF=893,275;SAP=3.02122,30.2295;SAR=896,198;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:122:0,121,0:0:0:121,0:4288,0:-385.474,-36.4246,0,-385.474,-36.4246,-385.474 1/1:143:0,142,1:0:0:142,1:4994,36:-449.245,-42.7463,0,-446.378,-39.5263,-446.077 1/2:54:0,26,28:0:0:26,28:905,992:-154.199,-80.6132,-72.7865,-73.936,0,-65.5072 1/2:93:0,52,38:0:0:52,38:1816,1348:-256.742,-109.027,-93.3733,-147.741,0,-136.302 1/1:246:0,242,1:0:0:242,1:8565,36:-770.225,-72.8493,0,-767.288,-69.8998,-766.987 1/2:113:0,65,47:0:0:65,47:2296,1670:-320.561,-133.58,-114.013,-186.973,0,-172.824 1/2:194:0,95,98:0:0:95,98:3360,3470:-552.424,-278.767,-250.169,-273.738,0,-244.237 2/2:81:0,0,81:0:0:0,81:0,2867:-256.378,-256.378,-256.378,-24.3834,-24.3834,0 1/2:143:0,68,73:0:0:68,73:2408,2585:-405.752,-209.599,-189.129,-196.242,0,-174.267 1/2:40:0,20,20:0:0:20,20:708,706:-115.314,-57.6414,-51.6208,-58.025,0,-52.0044 1/1:7:0,7,0:0:0:7,0:244,0:-22.2994,-2.10721,0,-22.2994,-2.10721,-22.2994 1/1:64:0,64,0:0:0:64,0:2268,0:-204.369,-19.2659,0,-204.369,-19.2659,-204.369 1/1:106:0,104,0:0:0:104,0:3686,0:-331.582,-31.3071,0,-331.582,-31.3071,-331.582 1/1:115:0,115,0:0:0:115,0:4019,0:-361.9,-34.6185,0,-361.9,-34.6185,-361.9 1/1:184:0,180,0:0:0:180,0:6402,0:-575.899,-54.1854,0,-575.899,-54.1854,-575.899 1/1:95:0,95,0:0:0:95,0:3314,0:-298.477,-28.5979,0,-298.477,-28.5979,-298.477 1/1:77:0,73,0:0:0:73,0:2526,0:-227.28,-21.9752,0,-227.28,-21.9752,-227.28 1/2:102:0,50,51:0:0:50,51:1755,1801:-287.793,-144.963,-129.912,-142.888,0,-127.535 1/2:104:0,68,34:0:0:68,34:2400,1201:-292.272,-96.8385,-76.3685,-195.426,0,-185.191 1/1:109:0,108,1:0:0:108,1:3784,34:-340.146,-32.5112,0,-337.388,-29.4134,-337.087 1/1:95:0,94,0:0:0:94,0:3285,0:-295.588,-28.2968,0,-295.588,-28.2968,-295.588 chr03 29074098 . C T 3241.34 PASS AB=0.494774;ABP=3.07839;AC=10;AF=0.238095;AN=42;AO=186;CIGAR=1X;DP=916;DPB=916;DPRA=0.772862;EPP=406.904;EPPR=1586.01;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.0637;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6645;QR=25971;RO=729;RPL=186;RPP=406.904;RPPR=1586.01;RPR=0;RUN=1;SAF=186;SAP=406.904;SAR=0;SRF=729;SRP=1586.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:62:62,0:62:2198:0:0:0,-18.6639,-198.082 0/1:18:11,7:11:396:7:248:-17.2457,0,-30.5642 0/1:59:35,24:35:1236:24:864:-60.3218,0,-93.7807 0/0:162:162,0:162:5749:0:0:0,-48.7669,-517.525 0/1:35:25,10:25:892:10:360:-22.2083,0,-70.0636 0/1:43:23,20:23:828:20:697:-50.1058,0,-61.8998 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 0/1:57:31,26:31:1112:26:928:-66.6795,0,-83.2326 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:15:15,0:15:527:0:0:0,-4.51545,-47.7602 0/0:63:62,0:62:2191:0:0:0,-18.6639,-197.133 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/0:63:63,0:63:2251:0:0:0,-18.9649,-202.853 0/0:55:55,0:55:1960:0:0:0,-16.5566,-176.675 0/1:58:13,45:13:464:45:1612:-127.91,0,-24.6378 0/1:10:4,6:4:140:6:216:-16.7802,0,-9.93428 0/0:48:47,1:47:1688:1:32:0,-11.2501,-149.008 0/0:15:15,0:15:523:0:0:0,-4.51545,-47.3985 chr03 29075024 . G A 7025.22 PASS AB=0.494152;ABP=3.21348;AC=10;AF=0.238095;AN=42;AO=409;CIGAR=1X;DP=1808;DPB=1808;DPRA=1.07838;EPP=891.143;EPPR=3036.56;GTI=0;LEN=1;MEANALT=1;MQM=59.6235;MQMR=59.9148;NS=21;NUMALT=1;ODDS=11.7744;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14471;QR=49952;RO=1397;RPL=0;RPP=891.143;RPPR=3036.56;RPR=409;RUN=1;SAF=409;SAP=891.143;SAR=0;SRF=1397;SRP=3036.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:94,0:94:3360:0:0:0,-28.2968,-302.617 0/0:71:70,0:70:2512:0:0:0,-21.0721,-225.783 0/1:51:24,27:24:852:27:968:-72.0792,0,-61.6479 0/1:93:45,48:45:1612:48:1670:-122.58,0,-117.374 0/0:182:181,0:181:6472:0:0:0,-54.4864,-582.193 0/1:37:19,18:19:680:18:648:-47.4961,0,-50.3911 0/1:156:68,88:68:2432:88:3114:-233.502,0,-172.175 1/1:70:1,69:1:36:69:2456:-217.501,-17.4738,0 0/1:160:95,65:95:3393:65:2282:-157.47,0,-257.419 0/1:11:4,7:4:144:7:252:-19.713,0,-10.0023 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:43:43,0:43:1548:0:0:0,-12.9443,-139.612 0/0:91:91,0:91:3229:0:0:0,-27.3937,-290.829 0/0:86:86,0:86:3088:0:0:0,-25.8886,-277.973 0/0:128:128,0:128:4565:0:0:0,-38.5318,-410.993 0/0:101:100,1:100:3565:1:36:0,-26.8058,-317.459 0/0:83:83,0:83:2965:0:0:0,-24.9855,-267.076 0/1:81:37,44:37:1328:44:1568:-117.013,0,-95.4388 0/1:95:54,41:54:1940:41:1441:-101.38,0,-146.278 0/0:126:125,1:125:4480:1:36:0,-34.3315,-399.766 0/0:44:44,0:44:1571:0:0:0,-13.2453,-141.673 chr03 29100213 . A G 18198.8 PASS AB=0.48325;ABP=6.42925;AC=10;AF=0.238095;AN=42;AO=805;CIGAR=1X;DP=3739;DPB=3739;DPRA=1.50333;EPP=1751.05;EPPR=6363.26;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.877;MQMR=59.8704;NS=21;NUMALT=1;ODDS=27.4388;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28309;QR=104415;RO=2933;RPL=399;RPP=3.14248;RPPR=10.2666;RPR=406;RUN=1;SAF=399;SAP=3.14248;SAR=406;SRF=1418;SRP=9.97634;SRR=1515;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:344:344,0:344:12312:0:0:0,-103.554,-1107.9 0/0:142:142,0:142:5049:0:0:0,-42.7463,-454.49 0/1:139:66,72:66:2346:72:2560:-188.742,0,-169.496 0/1:164:80,84:80:2828:84:2972:-218.34,0,-205.384 0/0:493:488,5:488:17370:5:163:0,-133.417,-1547.92 0/1:139:85,54:85:3007:54:1901:-129.514,0,-229.001 0/1:332:158,174:158:5633:174:6088:-448.087,0,-407.086 1/1:113:0,113:0:0:113:3940:-354.746,-34.0164,0 0/1:352:187,165:187:6607:165:5837:-419.424,0,-488.747 0/1:28:9,19:9:324:19:662:-51.472,0,-21.077 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.373 0/0:33:33,0:33:1165:0:0:0,-9.93399,-105.127 0/0:229:227,2:227:8097:2:72:0,-62.0991,-721.81 0/0:201:198,3:198:7064:3:108:0,-50.4367,-625.747 0/0:232:232,0:232:8311:0:0:0,-69.839,-747.994 0/0:151:151,0:151:5341:0:0:0,-45.4555,-480.818 0/0:96:96,0:96:3392:0:0:0,-28.8989,-305.479 0/1:126:64,62:64:2295:62:2169:-157.543,0,-168.881 0/1:123:75,48:75:2664:48:1693:-115.628,0,-202.975 0/0:214:210,4:210:7489:4:144:0,-51.1068,-660.722 0/0:78:78,0:78:2765:0:0:0,-23.4803,-249.091 chr03 29100261 . C T 32286.3 PASS AB=0.482419;ABP=4.91912;AC=32;AF=0.761905;AN=42;AO=1536;CIGAR=1X;DP=1942;DPB=1942;DPRA=2.89242;EPP=3338.39;EPPR=884.628;GTI=0;LEN=1;MEANALT=1;MQM=59.6543;MQMR=59.7167;NS=21;NUMALT=1;ODDS=11.5819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54002;QR=14447;RO=406;RPL=1536;RPP=3338.39;RPPR=884.628;RPR=0;RUN=1;SAF=0;SAP=3338.39;SAR=1536;SRF=0;SRP=884.628;SRR=406;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:187:0,187:0:0:187:6613:-595.231,-56.2926,0 1/1:78:0,78:0:0:78:2768:-249.285,-23.4803,0 0/1:80:51,29:51:1813:29:1028:-68.7506,0,-138.735 0/1:80:41,39:41:1457:39:1385:-100.858,0,-107.337 1/1:251:3,248:3:108:248:8669:-769.264,-65.4834,0 0/1:88:40,48:40:1436:48:1677:-124.708,0,-103.025 0/1:170:100,70:100:3550:70:2428:-167.517,0,-268.525 0/0:33:33,0:33:1176:0:0:0,-9.93399,-106.101 0/1:164:81,83:81:2885:83:2941:-215.55,0,-210.459 0/1:14:7,7:7:252:7:252:-18.8145,0,-18.813 1/1:7:0,7:0:0:7:222:-20.2809,-2.10721,0 1/1:21:0,21:0:0:21:752:-67.9778,-6.32163,0 1/1:147:2,145:2:72:145:5069:-449.498,-37.4147,0 1/1:123:0,123:0:0:123:4336:-390.353,-37.0267,0 1/1:90:0,90:0:0:90:3150:-283.724,-27.0927,0 1/1:87:0,87:0:0:87:3096:-278.861,-26.1896,0 1/1:68:0,68:0:0:68:2370:-213.514,-20.47,0 0/1:48:26,22:26:910:22:784:-56.4345,0,-67.7646 0/1:67:22,45:22:788:45:1581:-122.407,0,-51.0758 1/1:95:0,95:0:0:95:3335:-300.344,-28.5979,0 1/1:44:0,44:0:0:44:1546:-139.424,-13.2453,0 chr03 29100281 . CGGAG AGGAC,AGGAG 46298.1 PASS AB=0.504673,0.482477;ABP=3.17265,5.29339;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1666,514;CIGAR=1X3M1X,1X4M;DP=2196;DPB=2196;DPRA=1.09375,1.31133;EPP=3620.68,1119.15;EPPR=13.8677;GTI=0;LEN=5,1;MEANALT=2,2.5;MQM=59.9256,60;MQMR=60;NS=21;NUMALT=2;ODDS=14.186;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58289,18350;QR=180;RO=5;RPL=0,0;RPP=3620.68,1119.15;RPPR=13.8677;RPR=1666,514;RUN=1,1;SAF=1666,514;SAP=3620.68,1119.15;SAR=0,0;SRF=5;SRP=13.8677;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:189:0,187,2:0:0:187,2:6548,72:-589.057,-56.2926,0,-583.182,-50.0579,-582.58 1/1:78:0,77,1:0:0:77,1:2712,36:-243.954,-23.1793,0,-241.016,-19.8821,-240.715 1/2:114:0,47,66:0:0:47,66:1648,2357:-326.304,-192.198,-178.05,-134.138,0,-114.27 1/2:76:0,31,45:0:0:31,45:1070,1612:-218.747,-131.824,-122.492,-87.2733,0,-73.7269 1/1:178:0,175,3:0:0:175,3:6147,108:-552.984,-52.6803,0,-544.171,-43.5082,-543.268 1/2:82:0,33,48:0:0:33,48:1159,1701:-232.904,-138.575,-128.641,-94.3317,0,-79.8822 1/2:128:5,58,64:5:180:58,64:2018,2296:-335.162,-172.588,-169.816,-149.385,0,-144.807 2/2:96:0,0,95:0:0:0,95:0,3401:-306.091,-306.091,-306.091,-28.5979,-28.5979,0 1/2:246:0,155,89:0:0:155,89:5393,3158:-695.796,-257.292,-210.632,-438.497,0,-411.705 1/2:17:0,6,11:0:0:6,11:215,396:-50.2057,-32.6714,-30.8652,-17.893,0,-14.5817 1/1:10:0,10,0:0:0:10,0:345,0:-31.3823,-3.0103,0,-31.3823,-3.0103,-31.3823 1/1:22:0,22,0:0:0:22,0:771,0:-69.7113,-6.62266,0,-69.7113,-6.62266,-69.7113 1/1:119:0,119,0:0:0:119,0:4152,0:-373.874,-35.8226,0,-373.874,-35.8226,-373.874 1/1:143:0,140,0:0:0:140,0:4869,0:-438.061,-42.1442,0,-438.061,-42.1442,-438.061 1/1:189:0,189,0:0:0:189,0:6658,0:-599.092,-56.8947,0,-599.092,-56.8947,-599.092 1/1:70:0,70,0:0:0:70,0:2426,0:-218.597,-21.0721,0,-218.597,-21.0721,-218.597 1/1:110:0,109,0:0:0:109,0:3813,0:-343.015,-32.8123,0,-343.015,-32.8123,-343.015 1/2:99:0,43,55:0:0:43,55:1509,1968:-283.322,-160.518,-147.574,-122.837,0,-106.28 1/2:94:0,59,35:0:0:59,35:2073,1245:-270.487,-101.817,-84.0559,-169.024,0,-158.488 1/1:92:0,92,0:0:0:92,0:3212,0:-289.303,-27.6948,0,-289.303,-27.6948,-289.303 1/1:44:0,44,0:0:0:44,0:1551,0:-139.881,-13.2453,0,-139.881,-13.2453,-139.881 chr03 29100353 . C T 16113.8 PASS AB=0.443535;ABP=19.9307;AC=32;AF=0.761905;AN=42;AO=884;CIGAR=1X;DP=1382;DPB=1382;DPRA=0;EPP=1922.59;EPPR=1084.4;GTI=2;LEN=1;MEANALT=1;MQM=59.9683;MQMR=59.9598;NS=21;NUMALT=1;ODDS=2.73407;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29361;QR=17408;RO=498;RPL=0;RPP=1922.59;RPPR=1084.4;RPR=884;RUN=1;SAF=0;SAP=1922.59;SAR=884;SRF=0;SRP=1084.4;SRR=498;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:1,73:1:36:73:2420:-214.459,-18.6779,0 1/1:60:1,59:1:36:59:1925:-169.925,-14.4635,0 0/1:65:42,23:42:1478:23:762:-49.3225,0,-113.746 0/1:100:62,38:62:2216:38:1240:-81.7884,0,-169.602 1/1:124:3,121:3:104:121:3998:-350.326,-27.6249,0 0/1:42:19,23:19:668:23:758:-55.8854,0,-47.8024 0/1:143:88,55:88:3107:55:1850:-123.73,0,-236.812 0/0:151:150,1:150:5194:1:32:0,-42.2562,-464.415 0/1:58:31,27:31:1079:27:932:-66.7321,0,-79.9579 0/1:13:9,4:9:324:4:140:-9.03119,0,-25.5925 1/1:6:0,6:0:0:6:204:-18.6934,-1.80618,0 1/1:10:0,10:0:0:10:328:-29.8371,-3.0103,0 1/1:48:0,48:0:0:48:1617:-145.813,-14.4494,0 1/1:24:0,24:0:0:24:800:-72.2205,-7.22472,0 1/1:103:3,100:3:100:100:3339:-291.41,-21.6756,0 1/1:63:0,63:0:0:63:2101:-189.357,-18.9649,0 1/1:26:0,26:0:0:26:869:-78.5165,-7.82678,0 0/1:126:72,54:72:2471:54:1755:-120.293,0,-184.584 0/1:64:17,47:17:595:47:1559:-121.327,0,-34.6108 1/1:53:0,53:0:0:53:1792:-161.558,-15.9546,0 1/1:29:0,29:0:0:29:940:-84.8986,-8.72987,0 chr03 29100378 . T C 24563.9 PASS AB=0.493056;ABP=3.31189;AC=32;AF=0.761905;AN=42;AO=1170;CIGAR=1X;DP=1703;DPB=1703;DPRA=0.485535;EPP=2517.64;EPPR=1158.23;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9744;MQMR=59.9248;NS=21;NUMALT=1;ODDS=4.37734;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41738;QR=19016;RO=532;RPL=3;RPP=2517.64;RPPR=1158.23;RPR=1167;RUN=1;SAF=0;SAP=2543.63;SAR=1170;SRF=0;SRP=1158.23;SRR=532;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:2,98:2:72:98:3516:-309.813,-23.2663,0 1/1:78:1,77:1:32:77:2732:-242.922,-20.281,0 0/1:71:43,28:43:1548:28:996:-68.5818,0,-118.24 0/1:118:66,52:66:2364:52:1834:-129.815,0,-177.497 1/1:176:3,173:3:108:173:6195:-547.567,-42.9061,0 0/1:51:19,32:19:684:32:1144:-87.917,0,-46.5378 0/1:175:94,80:94:3353:80:2861:-205.135,0,-249.396 0/0:159:159,0:159:5666:0:0:0,-47.8638,-509.929 0/1:69:33,36:33:1188:36:1292:-95.8127,0,-86.4575 0/1:16:9,7:9:324:7:252:-18.2125,0,-24.6894 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:60:0,60:0:0:60:2140:-192.868,-18.0618,0 1/1:31:0,31:0:0:31:1101:-99.3916,-9.33193,0 1/1:136:3,133:3:108:133:4752:-417.762,-30.8649,0 1/1:83:0,83:0:0:83:2946:-265.373,-24.9855,0 1/1:29:0,29:0:0:29:1032:-93.1847,-8.72987,0 0/1:146:81,65:81:2889:65:2309:-164.119,0,-216.165 0/1:74:19,55:19:680:55:1944:-152.957,0,-39.2529 1/1:73:0,73:0:0:73:2620:-236.047,-21.9752,0 1/1:37:0,37:0:0:37:1320:-119.102,-11.1381,0 chr03 29103838 . A G 8046.7 PASS AB=0.475813;ABP=9.41795;AC=10;AF=0.238095;AN=42;AO=766;CIGAR=1X;DP=3204;DPB=3204;DPRA=1.78912;EPP=1666.36;EPPR=5297.06;GTI=0;LEN=1;MEANALT=1;MQM=28.7258;MQMR=57.1911;NS=21;NUMALT=1;ODDS=16.0381;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27360;QR=86847;RO=2438;RPL=0;RPP=1666.36;RPPR=5297.06;RPR=766;RUN=1;SAF=766;SAP=1666.36;SAR=0;SRF=2438;SRP=5297.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:142:142,0:142:5054:0:0:0,-42.7463,-453.542 0/0:100:100,0:100:3562:0:0:0,-30.103,-319.658 0/1:171:79,92:79:2840:92:3281:-182.532,0,-203.942 0/1:187:108,79:108:3850:79:2787:-142.32,0,-288.875 0/0:385:378,7:378:13496:7:252:0,-96.8807,-1192.97 0/1:135:79,56:79:2813:56:2012:-89.2281,0,-211.901 0/1:220:121,99:121:4344:99:3537:-161.58,0,-321.963 1/1:153:0,153:0:0:153:5477:-374.768,-46.0576,0 0/1:324:168,156:168:5972:156:5567:-327.269,0,-438.822 0/1:34:12,22:12:413:22:788:-44.2131,0,-26.9745 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.936 0/0:44:44,0:44:1554:0:0:0,-13.2453,-139.873 0/0:157:157,0:157:5537:0:0:0,-47.2617,-497.841 0/0:182:181,1:181:6504:1:36:0,-51.8847,-581.432 0/0:264:262,2:262:9352:2:72:0,-73.9567,-835.033 0/0:141:141,0:141:4959:0:0:0,-42.4452,-446.222 0/0:178:178,0:178:6351:0:0:0,-53.5833,-569.888 0/1:112:50,62:50:1755:62:2228:-118.093,0,-124.259 0/1:78:44,34:44:1550:34:1215:-64.066,0,-115.51 0/0:139:136,3:136:4869:3:108:0,-34.1818,-430.256 0/0:47:47,0:47:1676:0:0:0,-14.1484,-150.742 chr03 29103871 . AGTAC AGTAT,TGTAT 63123.5 PASS AB=0.516,0.4752;ABP=5.78978,9.68801;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2394,762;CIGAR=4M1X,1X3M1X;DP=3173;DPB=3173.2;DPRA=0.980195,1.99058;EPP=5201.52,1657.67;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.3,2.64286;MQM=57.3764,28.7047;MQMR=60;NS=21;NUMALT=2;ODDS=15.1177;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,27;PQR=0;PRO=0;QA=85510,26680;QR=36;RO=1;RPL=2393,762;RPP=5192.83,1657.67;RPPR=5.18177;RPR=1,0;RUN=1,1;SAF=2393,762;SAP=5192.83,1657.67;SAR=1,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:140:0,139,0:0:0:139,0:4974,0:-447.01,-41.8432,0,-447.01,-41.8432,-447.01 1/1:99:0,99,0:0:0:99,0:3552,0:-319.016,-29.802,0,-319.016,-29.802,-319.016 1/2:169:0,78,91:0:0:78,91:2773,3168:-427.93,-202.05,-178.57,-226.2,0,-198.806 1/2:184:0,104,78:0:0:104,78:3720,2720:-474.864,-172.299,-140.992,-302.612,0,-279.132 1/1:379:0,372,7:0:0:372,7:13257,242:-1191.49,-111.983,0,-1175.19,-95.3945,-1173.09 1/2:135:0,80,54:0:0:80,54:2864,1929:-340.821,-108.075,-83.993,-232.686,0,-216.43 1/2:217:0,114,98:0:0:114,98:4080,3413:-524.565,-194.213,-159.896,-330.327,0,-300.826 2/2:154:0,0,154:0:0:0,154:0,5418:-375.278,-375.278,-375.278,-46.3586,-46.3586,0 1/2:325:0,167,157:0:0:167,157:5996,5481:-863.669,-375.687,-325.415,-487.954,0,-440.692 1/2:32:0,11,21:0:0:11,21:396,743:-77.7199,-45.397,-42.0856,-32.6525,0,-26.3309 1/1:11:0,11,0:0:0:11,0:396,0:-35.936,-3.31133,0,-35.936,-3.31133,-35.936 1/1:43:0,43,0:0:0:43,0:1531,0:-137.81,-12.9443,0,-137.81,-12.9443,-137.81 1/1:158:0,157,0:0:0:157,0:5594,0:-502.461,-47.2617,0,-502.461,-47.2617,-502.461 1/1:183:0,181,1:0:0:181,1:6464,36:-580.577,-54.4864,0,-578.266,-52.1447,-577.965 1/1:260:0,256,2:0:0:256,2:9144,71:-821.905,-77.0637,0,-817.303,-72.4571,-816.701 1/1:141:0,140,0:0:0:140,0:5005,0:-450.031,-42.1442,0,-450.031,-42.1442,-450.031 1/1:174:0,173,1:0:0:173,1:6190,34:-555.156,-52.0782,0,-552.427,-49.0124,-552.126 1/2:110:0,48,61:0:0:48,61:1704,2120:-268.144,-129.601,-115.152,-138.612,0,-120.249 1/2:78:1,43,34:1:36:43,34:1524,1197:-196.618,-73.0879,-63.0832,-120.848,0,-113.55 1/1:136:0,133,3:0:0:133,3:4730,108:-425.204,-40.037,0,-418.721,-33.2787,-417.818 1/1:45:0,45,0:0:0:45,0:1616,0:-145.345,-13.5464,0,-145.345,-13.5464,-145.345 chr03 29152924 . C A 32701.7 PASS AB=0.454363;ABP=21.0464;AC=32;AF=0.761905;AN=42;AO=1565;CIGAR=1X;DP=2216;DPB=2216;DPRA=1.03627;EPP=3401.36;EPPR=1405.79;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9706;MQMR=60;NS=21;NUMALT=1;ODDS=4.94605;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55777;QR=23224;RO=650;RPL=0;RPP=3401.36;RPPR=1405.79;RPR=1565;RUN=1;SAF=0;SAP=3401.36;SAR=1565;SRF=0;SRP=1414.47;SRR=650;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2948:-265.553,-24.6845,0 1/1:130:0,130:0:0:130:4616:-415.603,-39.1339,0 0/1:146:87,59:87:3109:59:2112:-146.399,0,-236.085 0/1:151:82,69:82:2898:69:2467:-176.828,0,-215.599 1/1:245:2,243:2:72:243:8625:-769.256,-66.9156,0 0/1:95:51,44:51:1832:44:1572:-113.174,0,-136.563 0/1:186:101,85:101:3589:85:3035:-217.389,0,-267.226 0/0:102:102,0:102:3652:0:0:0,-30.7051,-328.884 0/1:208:107,101:107:3840:101:3603:-261.862,0,-283.181 0/1:28:8,20:8:284:20:712:-55.9778,0,-17.4745 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:117:0,117:0:0:117:4180:-376.382,-35.2205,0 1/1:94:0,94:0:0:94:3349:-301.626,-28.2968,0 1/1:137:0,137:0:0:137:4877:-439.083,-41.2411,0 1/1:81:0,80:0:0:80:2867:-257.907,-24.0824,0 1/1:73:1,72:1:36:72:2560:-227.051,-18.3769,0 0/1:105:69,36:69:2476:36:1279:-83.8043,0,-191.485 0/1:78:39,39:39:1400:39:1395:-102.368,0,-102.819 1/1:94:1,93:1:36:93:3301:-293.71,-24.6985,0 1/1:44:0,44:0:0:44:1563:-140.961,-13.2453,0 chr03 29178874 . TAAACA CAAATG,CGAACG 19635.1 PASS AB=0.486957,0.504348;ABP=3.52012,3.06695;AC=32,10;AF=0.761905,0.238095;AN=42;AO=658,228;CIGAR=1X3M2X,2X3M1X;DP=891;DPB=891;DPRA=0.806731,1.13767;EPP=1167.41,480.887;EPPR=0;GTI=0;LEN=6,6;MEANALT=1.65,2.3;MQM=50.8906,51.6447;MQMR=0;NS=21;NUMALT=2;ODDS=3.35339;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23151,8031;QR=0;RO=0;RPL=32,2;RPP=1167.41,480.887;RPPR=0;RPR=626,226;RUN=1,1;SAF=0,0;SAP=1431.84,498.106;SAR=658,228;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35,0:0:0:35,0:1235,0:-111.269,-10.5361,0,-111.269,-10.5361,-111.269 1/1:20:0,20,0:0:0:20,0:706,0:-61.2492,-6.0206,0,-61.2492,-6.0206,-61.2492 1/2:43:0,22,21:0:0:22,21:783,737:-123.03,-60.2442,-53.6215,-63.1358,0,-56.8142 1/2:66:0,36,29:0:0:36,29:1254,1023:-184.782,-83.1564,-72.3193,-101.616,0,-92.8861 1/1:84:0,84,0:0:0:84,0:2954,0:-263.943,-25.2865,0,-263.943,-25.2865,-263.943 1/2:60:0,31,29:0:0:31,29:1082,1034:-170.544,-83.9455,-74.6136,-86.947,0,-78.2172 1/2:49:0,19,30:0:0:19,30:654,1061:-136.963,-85.8595,-80.14,-51.4429,0,-42.412 2/2:52:0,0,51:0:0:0,51:0,1781:-159.821,-159.821,-159.821,-15.3525,-15.3525,0 1/2:47:0,20,26:0:0:20,26:711,911:-130.483,-74.0998,-68.0792,-56.4132,0,-48.5865 1/2:4:0,1,3:0:0:1,3:36,106:-11.5835,-8.83801,-8.53698,-3.08657,0,-2.18348 1/1:7:0,7,0:0:0:7,0:243,0:-22.1093,-2.10721,0,-22.1093,-2.10721,-22.1093 1/1:21:0,21,0:0:0:21,0:747,0:-67.2128,-6.32163,0,-67.2128,-6.32163,-67.2128 1/1:66:0,66,0:0:0:66,0:2336,0:-209.962,-19.868,0,-209.962,-19.868,-209.962 1/1:44:0,44,0:0:0:44,0:1526,0:-136.527,-13.2453,0,-136.527,-13.2453,-136.527 1/1:60:0,59,0:0:0:59,0:2077,0:-183.894,-17.7608,0,-183.894,-17.7608,-183.894 1/1:30:0,30,0:0:0:30,0:1060,0:-88.5478,-9.0309,0,-88.5478,-9.0309,-88.5478 1/1:39:0,39,0:0:0:39,0:1388,0:-118.491,-11.7402,0,-118.491,-11.7402,-118.491 1/2:49:0,23,25:0:0:23,25:817,876:-137.385,-71.0047,-64.081,-66.382,0,-58.8562 1/2:27:0,16,11:0:0:16,11:564,394:-78.2128,-32.4409,-27.6244,-46.127,0,-42.8157 1/1:56:0,53,3:0:0:53,3:1879,108:-168.011,-15.9546,0,-159.223,-6.80784,-158.319 1/1:32:0,32,0:0:0:32,0:1099,0:-98.6177,-9.63296,0,-98.6177,-9.63296,-98.6177 chr03 29233739 . G A 33148.7 PASS AB=0.553806;ABP=22.1717;AC=32;AF=0.761905;AN=42;AO=1238;CIGAR=1X;DP=1704;DPB=1704;DPRA=0;EPP=222.817;EPPR=174.79;GTI=0;LEN=1;MEANALT=1;MQM=59.9378;MQMR=60;NS=21;NUMALT=1;ODDS=1.89152;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44317;QR=16577;RO=466;RPL=796;RPP=222.817;RPPR=174.79;RPR=442;RUN=1;SAF=0;SAP=2691.29;SAR=1238;SRF=0;SRP=1014.92;SRR=466;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,101:0:0:101:3623:-326.274,-30.404,0 1/1:76:0,76:0:0:76:2720:-245.043,-22.8783,0 0/1:81:32,49:32:1131:49:1751:-133.49,0,-77.7143 0/1:82:39,43:39:1392:43:1544:-114.569,0,-100.895 1/1:108:0,108:0:0:108:3866:-348.135,-32.5112,0 0/1:49:28,21:28:988:21:752:-53.2558,0,-74.4834 0/1:176:81,95:81:2871:95:3395:-252.784,0,-205.647 0/0:126:125,1:125:4428:1:36:0,-34.3315,-395.096 0/1:124:45,79:45:1612:79:2824:-217.072,0,-108.042 0/1:13:7,6:7:252:6:216:-15.8688,0,-19.1156 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 1/1:99:0,99:0:0:99:3542:-318.988,-29.802,0 1/1:125:0,125:0:0:125:4492:-404.447,-37.6288,0 1/1:40:0,40:0:0:40:1423:-128.367,-12.0412,0 1/1:89:0,89:0:0:89:3191:-286.985,-26.7917,0 0/1:170:86,84:86:3075:84:2992:-218.335,0,-225.803 0/1:67:22,45:22:792:45:1608:-124.839,0,-51.4367 1/1:85:1,84:1:36:84:3011:-266.845,-21.9893,0 1/1:38:0,38:0:0:38:1355:-122.25,-11.4391,0 chr04 75540 . T A,C 77349.6 PASS AB=0.376727,0.622742;ABP=251.421,249.284;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1811,1450;CIGAR=1X,1X;DP=3264;DPB=3264;DPRA=0.572901,5.10048;EPP=3814.88,3065.39;EPPR=5.18177;GTI=2;LEN=1,1;MEANALT=2,2.05263;MQM=59.9409,59.931;MQMR=60;NS=21;NUMALT=2;ODDS=0.985044;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64324,51391;QR=32;RO=1;RPL=1794,908;RPP=3789.27,203.618;RPPR=5.18177;RPR=17,542;RUN=1,1;SAF=1808,918;SAP=3909.53,226.142;SAR=3,532;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:0,158,4:0:0:158,4:5631,144:-506.46,-47.5627,0,-494.71,-35.4532,-493.506 1/1:62:0,62,0:0:0:62,0:2200,0:-198.266,-18.6639,0,-198.266,-18.6639,-198.266 1/1:108:0,106,2:0:0:106,2:3789,72:-340.847,-31.9092,0,-334.972,-25.6745,-334.37 1/1:204:0,202,1:0:0:202,1:7148,36:-643.023,-60.8081,0,-640.086,-57.8706,-639.785 1/2:325:0,111,214:0:0:111,214:3968,7590:-942.248,-618.709,-585.295,-323.895,0,-259.475 1/1:147:0,145,2:0:0:145,2:5159,72:-464.094,-43.6494,0,-458.219,-37.4147,-457.617 1/1:167:1,165,1:1:32:165,1:5834,36:-521.875,-47.1115,0,-519.239,-46.7126,-521.516 2/2:262:0,0,262:0:0:0,262:0,9278:-834.956,-834.956,-834.956,-78.8699,-78.8699,0 1/2:274:0,108,166:0:0:108,166:3844,5914:-795.678,-482.393,-449.882,-313.641,0,-263.67 1/2:27:0,8,19:0:0:8,19:280,671:-77.7757,-54.9954,-52.5872,-23.1311,0,-17.4115 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:57:0,19,38:0:0:19,38:680,1337:-164.642,-109.189,-103.469,-55.8096,0,-44.3705 1/2:241:0,93,148:0:0:93,148:3294,5258:-697.123,-428.793,-400.798,-268.684,0,-224.132 1/2:173:0,70,103:0:0:70,103:2480,3669:-501.433,-299.406,-278.334,-202.382,0,-171.376 1/2:359:0,138,221:0:0:138,221:4904,7848:-1039.44,-639.823,-598.281,-399.969,0,-333.442 1/2:77:0,26,51:0:0:26,51:913,1801:-221.323,-147.018,-139.191,-74.6572,0,-59.3047 1/2:77:0,31,46:0:0:31,46:1116,1615:-222.851,-131.788,-122.456,-91.4189,0,-77.5715 1/2:163:0,52,110:0:0:52,110:1819,3866:-462.646,-314.662,-299.009,-147.975,0,-114.861 1/2:109:0,53,56:0:0:53,56:1879,1977:-314.418,-161.341,-145.387,-153.43,0,-136.572 1/1:194:0,189,5:0:0:189,5:6735,180:-605.867,-56.8947,0,-591.18,-41.8478,-589.675 1/1:72:0,71,1:0:0:71,1:2507,27:-225.612,-21.3731,0,-223.485,-18.9744,-223.184 chr04 134799 . CGACTTTC TGATTTTT,TGATTTTC 22218.7 PASS AB=0.533742,0.461656;ABP=9.45811,11.3365;AC=29,13;AF=0.690476,0.309524;AN=42;AO=749,337;CIGAR=1X2M1X3M1X,1X2M1X4M;DP=1094;DPB=1093.75;DPRA=1.46944,1.38828;EPP=1629.44,734.797;EPPR=0;GTI=0;LEN=8,8;MEANALT=1.95,2.30769;MQM=52.7517,59.2285;MQMR=0;NS=21;NUMALT=2;ODDS=7.97073;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26291,11825;QR=0;RO=0;RPL=0,0;RPP=1629.44,734.797;RPPR=0;RPR=749,337;RUN=1,1;SAF=0,0;SAP=1629.44,734.797;SAR=749,337;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:0,37,0:0:0:37,0:1299,0:-116.536,-11.1381,0,-116.536,-11.1381,-116.536 1/1:27:0,26,0:0:0:26,0:904,0:-81.1194,-7.82678,0,-81.1194,-7.82678,-81.1194 1/1:62:0,62,0:0:0:62,0:2172,0:-194.532,-18.6639,0,-194.532,-18.6639,-194.532 1/1:36:0,35,0:0:0:35,0:1215,0:-109.009,-10.5361,0,-109.009,-10.5361,-109.009 1/2:87:0,43,44:0:0:43,44:1514,1543:-248.818,-125.887,-112.942,-123.282,0,-110.037 1/1:34:0,34,0:0:0:34,0:1206,0:-108.586,-10.235,0,-108.586,-10.235,-108.586 1/1:95:0,95,0:0:0:95,0:3316,0:-296.822,-28.5979,0,-296.822,-28.5979,-296.822 2/2:36:0,0,35:0:0:0,35:0,1233:-110.945,-110.945,-110.945,-10.5361,-10.5361,0 1/2:95:0,39,55:0:0:39,55:1374,1911:-266.823,-155.081,-143.34,-111.741,0,-95.1847 1/2:12:0,6,6:0:0:6,6:209,210:-34.3623,-17.4355,-15.6293,-17.2752,0,-15.469 1/1:5:0,5,0:0:0:5,0:175,0:-16.0594,-1.50515,0,-16.0594,-1.50515,-16.0594 1/2:16:0,8,8:0:0:8,8:285,288:-46.8013,-23.8592,-21.4509,-23.2981,0,-20.8899 1/2:60:0,39,20:0:0:39,20:1365,700:-167.373,-57.0424,-45.3023,-110.422,0,-104.402 1/2:38:0,22,16:0:0:22,16:754,552:-106.082,-45.1746,-38.5519,-61.251,0,-56.4345 1/2:127:0,76,50:0:0:76,50:2659,1768:-359.981,-144.119,-121.241,-215.996,0,-200.945 1/2:19:0,7,12:0:0:7,12:236,424:-53.9903,-34.8833,-32.7761,-19.4498,0,-15.8375 1/2:25:0,12,13:0:0:12,13:432,459:-72.8122,-37.7315,-34.1191,-35.4364,0,-31.5231 1/2:115:0,56,59:0:0:56,59:1960,2055:-325.287,-167.38,-150.522,-158.254,0,-140.493 1/2:58:0,40,18:0:0:40,18:1412,646:-167.876,-53.0447,-41.0035,-115.188,0,-109.769 1/1:70:0,68,1:0:0:68,1:2419,36:-216.713,-20.47,0,-213.776,-17.4818,-213.475 1/1:40:0,39,0:0:0:39,0:1385,0:-124.105,-11.7402,0,-124.105,-11.7402,-124.105 chr04 138754 . CTGA ATGC,ATGA 52664.9 PASS AB=0.498708,0.498708;ABP=3.02713,3.02713;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1463,981;CIGAR=1X2M1X,1X3M;DP=2451;DPB=2451;DPRA=0,1.32;EPP=3102.18,2081.43;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.95238,2.26667;MQM=59.7129,59.9776;MQMR=0;NS=21;NUMALT=2;ODDS=10.3535;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51446,35129;QR=0;RO=0;RPL=2,3;RPP=3162.53,2107.25;RPPR=0;RPR=1461,978;RUN=1,1;SAF=1456,978;SAP=3119.36,2107.25;SAR=7,3;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,147,2:0:0:147,2:5136,72:-462.022,-44.2514,0,-456.147,-38.3766,-455.545 1/1:71:0,71,0:0:0:71,0:2517,0:-226.756,-21.3731,0,-226.756,-21.3731,-226.756 1/1:151:0,151,0:0:0:151,0:5295,0:-476.422,-45.4555,0,-476.422,-45.4555,-476.422 1/1:55:0,53,0:0:0:53,0:1872,0:-168.503,-15.9546,0,-168.503,-15.9546,-168.503 1/2:109:0,59,50:0:0:59,50:2087,1800:-317.203,-147.231,-129.47,-170.33,0,-155.278 1/1:88:0,87,1:0:0:87,1:3053,36:-274.635,-26.1896,0,-271.698,-22.8924,-271.397 1/1:225:0,225,0:0:0:225,0:7892,0:-710.279,-67.7318,0,-710.279,-67.7318,-710.279 2/2:400:0,1,398:0:0:1,398:30,14222:-1279.47,-1277.07,-1276.77,-119.81,-117.366,0 1/2:253:0,121,130:0:0:121,130:4256,4656:-726.099,-379.678,-343.253,-346.417,0,-307.283 1/2:24:0,10,14:0:0:10,14:358,504:-70.6777,-41.4837,-38.4734,-29.5526,0,-25.3382 1/1:11:0,11,0:0:0:11,0:392,0:-35.6202,-3.31133,0,-35.6202,-3.31133,-35.6202 1/2:49:0,23,26:0:0:23,26:807,936:-142.404,-76.7327,-69.809,-66.026,0,-58.1992 1/2:36:0,15,21:0:0:15,21:533,741:-104.124,-60.69,-56.1745,-43.7879,0,-37.4663 1/2:81:0,32,49:0:0:32,49:1117,1764:-235.141,-144.293,-134.66,-91.201,0,-76.4505 1/2:280:0,138,141:0:0:138,141:4876,5042:-808.182,-411.117,-369.575,-397.06,0,-354.615 1/2:55:0,29,26:0:0:29,26:1028,936:-160.479,-76.7327,-68.0028,-84.1031,0,-76.2763 1/2:96:0,48,48:0:0:48,48:1656,1728:-275.84,-141.356,-126.906,-134.836,0,-120.387 1/2:114:0,61,53:0:0:61,53:2154,1900:-330.731,-155.323,-136.96,-175.764,0,-159.809 1/2:64:0,43,21:0:0:43,21:1524,756:-186.195,-62.0456,-49.1013,-124.508,0,-118.186 1/1:82:0,81,1:0:0:81,1:2866,36:-257.748,-24.3834,0,-254.811,-21.0862,-254.51 1/1:57:0,57,0:0:0:57,0:1997,0:-179.989,-17.1587,0,-179.989,-17.1587,-179.989 chr04 153629 . GCCGG ACCAA,ACCGA 43577.5 PASS AB=0.482545,0.506594;ABP=6.42165,3.49715;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1460,756;CIGAR=1X2M2X,1X3M1X;DP=2235;DPB=2237.8;DPRA=1.0675,1.33592;EPP=3087.1,1610.08;EPPR=5.18177;GTI=0;LEN=5,5;MEANALT=2.45,2.8;MQM=38.0486,55.1032;MQMR=60;NS=21;NUMALT=2;ODDS=3.40392;PAIRED=0,0;PAIREDR=0;PAO=7,7;PQA=252,252;PQR=0;PRO=0;QA=51206,26464;QR=36;RO=1;RPL=10,4;RPP=3087.1,1610.08;RPPR=5.18177;RPR=1450,752;RUN=1,1;SAF=0,0;SAP=3173.36,1644.64;SAR=1460,756;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,110,1:0:0:110,1:3866,36:-328.252,-33.1133,0,-325.316,-30.123,-325.015 1/1:60:0,60,0:0:0:60,0:2123,0:-174.19,-18.0618,0,-174.19,-18.0618,-174.19 1/1:82:0,81,1:0:0:81,1:2819,36:-239.76,-24.3834,0,-236.825,-21.0888,-236.524 1/1:122:0,121,0:0:0:121,0:4241,0:-360.885,-36.4246,0,-360.885,-36.4246,-360.885 1/2:244:0,97,139:0:0:97,139:3404,4863:-656.864,-395.026,-365.826,-261.839,0,-219.996 1/1:137:0,135,1:0:0:135,1:4755,36:-390.492,-40.6391,0,-387.563,-37.6814,-387.262 1/1:183:1,181,0:1:36:181,0:6316,0:-514.918,-51.5202,0,-515.219,-54.4864,-518.157 2/2:100:0,0,100:0:0:0,100:0,3479:-312.247,-312.247,-312.247,-30.103,-30.103,0 1/2:215:0,106,108:0:0:106,108:3725,3748:-595.842,-303.929,-272.02,-291.606,0,-259.095 1/2:14:0,4,10:0:0:4,10:144,357:-40.2785,-29.2919,-28.0878,-11.33,0,-8.3197 1/1:7:0,7,0:0:0:7,0:251,0:-21.0654,-2.10721,0,-21.0654,-2.10721,-21.0654 1/2:29:0,16,13:0:0:16,13:569,460:-81.2879,-37.7626,-32.9461,-43.8708,0,-39.9574 1/2:186:0,86,99:0:0:86,99:2994,3477:-513.019,-282.749,-256.861,-230.28,0,-200.478 1/2:91:0,55,35:0:0:55,35:1909,1216:-245.112,-98.5207,-81.9641,-146.467,0,-135.931 1/2:182:0,85,97:0:0:85,97:3011,3394:-508.423,-275.533,-249.945,-233.056,0,-203.856 1/2:91:0,41,50:0:0:41,50:1455,1744:-256.537,-142.073,-129.73,-114.811,0,-99.7591 1/2:82:0,52,30:0:0:52,30:1801,1058:-228.02,-86.2115,-70.5579,-142.154,0,-133.123 1/2:78:0,29,48:0:0:29,48:1010,1704:-213.532,-138.57,-129.84,-75.0196,0,-60.5702 1/2:77:0,51,24:0:0:51,24:1796,856:-208.953,-69.7082,-54.3557,-139.304,0,-132.079 1/1:88:0,88,0:0:0:88,0:3107,0:-262.781,-26.4906,0,-262.781,-26.4906,-262.781 1/1:55:0,55,0:0:0:55,0:1910,0:-157.682,-16.5567,0,-157.682,-16.5567,-157.682 chr04 170525 . G A 21013.7 PASS AB=0.454783;ABP=23.4335;AC=29;AF=0.690476;AN=42;AO=1138;CIGAR=1X;DP=1850;DPB=1850;DPRA=1.07805;EPP=2474.15;EPPR=1546.93;GTI=1;LEN=1;MEANALT=1.05;MQM=40.6555;MQMR=54.7792;NS=21;NUMALT=1;ODDS=5.94692;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40663;QR=25114;RO=711;RPL=1138;RPP=2474.15;RPPR=1546.93;RPR=0;RUN=1;SAF=0;SAP=2474.15;SAR=1138;SRF=0;SRP=1546.93;SRR=711;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:0,90:0:0:90:3224:-281.286,-27.0927,0 1/1:60:0,60:0:0:60:2160:-180.409,-18.0618,0 1/1:105:0,105:0:0:105:3752:-328.061,-31.6082,0 1/1:133:0,133:0:0:133:4753:-413.429,-40.037,0 0/1:37:24,13:24:856:13:468:-30.15,0,-65.9149 1/1:61:1,60:1:36:60:2148:-171.931,-14.7736,0 1/1:81:2,79:2:72:79:2813:-229.083,-17.5639,0 0/0:82:82,0:82:2908:0:0:0,-24.6845,-260.439 0/1:233:123,110:123:4372:110:3931:-274.938,0,-321.421 0/1:19:12,7:12:432:7:252:-16.3892,0,-33.32 1/1:5:0,5:0:0:5:176:-15.3209,-1.50515,0 0/1:22:12,10:12:428:10:356:-24.5235,0,-32.1833 0/1:104:45,59:45:1604:59:2096:-151.683,0,-112.15 0/1:92:61,31:61:2048:31:1082:-66.9234,0,-156.136 0/1:187:110,77:110:3899:77:2748:-183.882,0,-294.135 0/1:136:72,64:72:2584:64:2285:-159.002,0,-191.337 0/1:111:60,50:60:2113:50:1800:-124.553,0,-156.592 0/1:126:75,51:75:2651:51:1820:-117.659,0,-200.274 0/1:83:32,51:32:1111:51:1823:-134.589,0,-75.1344 1/1:33:0,33:0:0:33:1180:-100.784,-9.93399,0 1/1:50:0,50:0:0:50:1796:-152.126,-15.0515,0 chr04 202772 . TCACCAC TCACCACACCAC 2450.21 PASS AB=0.494937;ABP=3.18622;AC=13;AF=0.309524;AN=42;AO=478;CIGAR=1M5I6M;DP=1474;DPB=1816.14;DPRA=1.58519;EPP=1040.97;EPPR=2139.74;GTI=0;LEN=5;MEANALT=1.46667;MQM=24.9017;MQMR=57.9909;NS=21;NUMALT=1;ODDS=1.35459;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11847;QR=34707;RO=984;RPL=478;RPP=1040.97;RPPR=2139.74;RPR=0;RUN=1;SAF=0;SAP=1040.97;SAR=478;SRF=0;SRP=2139.74;SRR=984;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:96:95,1:95:3316:1:25:0,-26.6992,-295.094 0/0:43:43,0:43:1493:0:0:0,-12.9443,-133.818 0/0:61:59,0:59:2074:0:0:0,-17.7608,-186.439 0/0:74:73,0:73:2578:0:0:0,-21.9752,-231.693 0/1:118:55,62:55:1946:62:1534:-86.3672,0,-138.843 0/0:56:55,0:55:1945:0:0:0,-16.5566,-174.785 0/0:159:157,1:157:5556:1:23:0,-45.8387,-496.639 1/1:83:0,83:0:0:83:2045:-162.116,-24.9855,0 0/1:138:84,53:84:2920:53:1318:-63.1983,0,-220.936 0/1:4:1,3:1:36:3:75:-4.95492,0,-2.39415 0/0:6:6,0:6:215:0:0:0,-1.80618,-19.6938 0/1:20:13,7:13:461:7:175:-8.05721,0,-35.7355 0/1:35:17,17:17:597:17:421:-23.0695,0,-42.8367 0/1:55:25,30:25:898:30:752:-43.2345,0,-64.5097 0/1:132:65,65:65:2305:65:1615:-88.8644,0,-168.286 0/1:47:20,27:20:713:27:667:-39.0818,0,-50.3203 0/1:60:24,36:24:860:36:890:-52.8059,0,-59.6427 0/1:121:58,62:58:2062:62:1536:-85.3577,0,-148.935 0/1:60:31,29:31:1106:29:721:-39.2086,0,-81.6527 0/0:49:47,2:47:1659:2:50:0,-10.5711,-145.354 0/0:57:56,0:56:1967:0:0:0,-16.8577,-176.762 chr04 252199 . C T 7347.55 PASS AB=0.424658;ABP=39.0032;AC=13;AF=0.309524;AN=42;AO=363;CIGAR=1X;DP=1459;DPB=1459;DPRA=0.881629;EPP=316.713;EPPR=637.722;GTI=0;LEN=1;MEANALT=1;MQM=57.0992;MQMR=59.8641;NS=21;NUMALT=1;ODDS=0.455525;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12964;QR=39027;RO=1096;RPL=67;RPP=316.713;RPPR=637.722;RPR=296;RUN=1;SAF=363;SAP=791.255;SAR=0;SRF=1096;SRP=2382.94;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:69:69,0:69:2461:0:0:0,-20.7711,-221.735 0/0:95:95,0:95:3384:0:0:0,-28.5978,-304.774 0/0:95:95,0:95:3351:0:0:0,-28.5978,-301.805 0/0:105:104,1:104:3702:1:36:0,-28.0103,-329.774 0/1:82:45,37:45:1612:37:1332:-95.2211,0,-120.686 0/0:58:58,0:58:2068:0:0:0,-17.4597,-186.391 0/0:45:44,1:44:1564:1:36:0,-9.94908,-137.448 1/1:51:0,51:0:0:51:1804:-162.41,-15.3525,0 0/1:79:34,45:34:1189:45:1609:-121.113,0,-83.529 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:50:25,25:25:896:25:900:-66.2535,0,-65.9089 0/1:101:69,32:69:2468:32:1144:-72.7155,0,-191.19 0/1:85:51,34:51:1788:34:1220:-84.2085,0,-135.609 0/1:87:49,38:49:1739:38:1351:-94.2263,0,-130.591 0/1:47:18,29:18:644:29:1029:-78.7458,0,-44.1413 0/1:32:20,12:20:699:12:428:-29.2154,0,-53.5995 0/1:102:57,45:57:2035:45:1607:-114.154,0,-152.717 0/1:55:44,11:44:1584:11:396:-19.3926,0,-126.293 0/0:166:166,0:166:5952:0:0:0,-49.971,-535.785 0/0:39:39,0:39:1387:0:0:0,-11.7402,-125.119 chr04 252209 . T G 22347 PASS AB=0.568846;ABP=32.6106;AC=29;AF=0.690476;AN=42;AO=1069;CIGAR=1X;DP=1439;DPB=1439;DPRA=1.389;EPP=2306.98;EPPR=786.912;GTI=1;LEN=1;MEANALT=1.3;MQM=59.8559;MQMR=57.0471;NS=21;NUMALT=1;ODDS=0.763243;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38147;QR=12922;RO=361;RPL=1067;RPP=2306.98;RPPR=786.912;RPR=2;RUN=1;SAF=1069;SAP=2324.31;SAR=0;SRF=361;SRP=786.912;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2372:-213.729,-20.169,0 1/1:93:0,89:0:0:89:3204:-288.221,-26.7917,0 1/1:95:0,95:0:0:95:3384:-304.771,-28.5979,0 1/1:100:1,97:1:36:97:3449:-307.002,-26.2563,0 0/1:84:38,46:38:1364:46:1652:-123.682,0,-97.4953 1/1:58:0,58:0:0:58:2057:-185.4,-17.4597,0 1/1:44:1,42:1:32:42:1503:-132.343,-10.0852,0 0/0:50:50,0:50:1788:0:0:0,-15.0515,-160.973 0/1:77:46,31:46:1648:31:1108:-76.8517,0,-125.174 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:50:24,26:24:864:26:932:-69.1474,0,-63.016 0/1:99:35,64:35:1260:64:2279:-175.296,0,-83.7519 0/1:83:34,48:34:1216:48:1724:-130.398,0,-84.3919 0/1:85:35,50:35:1256:50:1796:-136.246,0,-86.2866 0/1:47:28,19:28:1000:19:665:-46.0243,0,-75.515 0/1:32:12,20:12:432:20:716:-55.1348,0,-29.5773 0/1:97:43,54:43:1522:54:1914:-143.336,0,-108.013 0/1:54:11,43:11:396:43:1544:-122.995,0,-19.7051 1/1:169:0,168:0:0:168:5984:-538.305,-50.573,0 1/1:38:0,38:0:0:38:1360:-122.695,-11.4391,0 chr04 252210 . C T 5999.08 PASS AB=0.434605;ABP=30.275;AC=13;AF=0.309524;AN=42;AO=370;CIGAR=1X;DP=1464;DPB=1464;DPRA=1.2312;EPP=806.455;EPPR=2361.26;GTI=1;LEN=1;MEANALT=1;MQM=57.1;MQMR=59.8501;NS=21;NUMALT=1;ODDS=1.82556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13197;QR=38905;RO=1094;RPL=370;RPP=806.455;RPPR=2361.26;RPR=0;RUN=1;SAF=370;SAP=806.455;SAR=0;SRF=1094;SRP=2378.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:67,0:67:2391:0:0:0,-20.169,-215.441 0/0:96:96,0:96:3440:0:0:0,-28.8989,-309.812 0/0:95:95,0:95:3380:0:0:0,-28.5978,-304.412 0/0:106:105,1:105:3718:1:36:0,-28.3113,-331.188 0/1:82:44,38:44:1563:38:1346:-96.5954,0,-116.276 0/0:57:57,0:57:2035:0:0:0,-17.1587,-183.422 0/0:45:44,1:44:1540:1:36:0,-9.94908,-135.285 1/1:48:0,48:0:0:48:1709:-153.993,-14.4494,0 0/1:83:34,49:34:1208:49:1741:-131.729,0,-84.0382 0/1:11:8,3:8:288:3:104:-6.39148,0,-22.9561 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:51:26,25:26:919:25:900:-65.9525,0,-67.6736 0/1:100:65,35:65:2310:35:1260:-83.4509,0,-177.563 0/1:83:51,32:51:1801:32:1140:-77.7365,0,-137.377 0/1:87:50,37:50:1796:37:1315:-91.6375,0,-135.645 0/1:48:18,30:18:640:30:1066:-81.5032,0,-43.479 0/1:30:18,12:18:644:12:432:-30.1793,0,-49.2597 0/1:103:57,46:57:2008:46:1644:-117.182,0,-149.985 0/1:56:44,12:44:1565:12:432:-22.3277,0,-124.282 0/0:172:171,1:171:6084:1:36:0,-48.1789,-544.063 0/0:39:39,0:39:1395:0:0:0,-11.7402,-125.829 chr04 277686 . CAATC CATAATC,CATGATC 38882.7 PASS AB=0.515547,0.481444;ABP=5.10336,5.99199;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1261,601;CIGAR=1M2I4M,2M2I3M;DP=1868;DPB=2614.6;DPRA=0.741525,1.19777;EPP=2741.24,1308.07;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.9,2.15385;MQM=55.4671,55.4093;MQMR=0;NS=21;NUMALT=2;ODDS=7.21434;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44431,21209;QR=0;RO=0;RPL=1261,601;RPP=2741.24,1308.07;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2741.24,1308.07;SAR=1261,601;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:108:0,107,0:0:0:107,0:3767,0:-338.286,-32.2102,0,-338.286,-32.2102,-338.286 1/1:45:0,45,0:0:0:45,0:1589,0:-143.201,-13.5464,0,-143.201,-13.5464,-143.201 1/1:73:0,73,0:0:0:73,0:2582,0:-232.23,-21.9752,0,-232.23,-21.9752,-232.23 1/1:72:0,72,0:0:0:72,0:2521,0:-226.541,-21.6742,0,-226.541,-21.6742,-226.541 1/2:148:0,69,78:0:0:69,78:2434,2777:-423.694,-225.793,-205.022,-197.903,0,-174.423 1/1:100:0,100,0:0:0:100,0:3518,0:-316.233,-30.103,0,-316.233,-30.103,-316.233 1/1:144:0,142,0:0:0:142,0:4985,0:-448.009,-42.7463,0,-448.009,-42.7463,-448.009 2/2:118:0,0,118:0:0:0,118:0,4133:-371.279,-371.279,-371.279,-35.5215,-35.5215,0 1/2:133:0,77,55:0:0:77,55:2726,1949:-380.279,-158.403,-135.224,-221.876,0,-205.319 1/2:18:0,6,12:0:0:6,12:212,424:-52.1042,-34.8514,-33.0452,-17.6058,0,-13.9934 1/1:6:0,6,0:0:0:6,0:212,0:-19.412,-1.80618,0,-19.412,-1.80618,-19.412 1/2:26:0,15,11:0:0:15,11:521,384:-73.8829,-31.5616,-27.0462,-42.6693,0,-39.3579 1/2:86:0,46,40:0:0:46,40:1634,1397:-246.219,-113.889,-100.041,-132.681,0,-120.64 1/2:109:0,62,47:0:0:62,47:2170,1661:-311.361,-135.209,-116.545,-176.504,0,-162.355 1/2:129:0,60,68:0:0:60,68:2140,2416:-370.653,-196.334,-178.272,-174.34,0,-153.87 1/2:66:0,29,37:0:0:29,37:1017,1304:-188.831,-106.319,-97.5891,-82.8624,0,-71.7243 1/2:57:0,21,36:0:0:21,36:741,1292:-165.825,-105.537,-99.215,-60.6429,0,-49.8058 1/2:126:0,69,57:0:0:69,57:2414,2001:-358.822,-162.83,-142.059,-196.341,0,-179.183 1/2:99:0,60,39:0:0:60,39:2100,1367:-281.982,-111.508,-93.4466,-170.824,0,-159.084 1/1:119:0,116,3:0:0:116,3:4080,104:-366.01,-34.9195,0,-357.562,-26.1256,-356.659 1/1:86:0,86,0:0:0:86,0:3068,0:-275.563,-25.8886,0,-275.563,-25.8886,-275.563 chr04 383641 . CAAACAAG CAACAAG 1743.68 PASS AB=0.374914;ABP=200.207;AC=9;AF=0.214286;AN=42;AO=546;CIGAR=1M1D6M;DP=2669;DPB=2600.75;DPRA=1.37777;EPP=1162.72;EPPR=2212.68;GTI=3;LEN=1;MEANALT=1.45455;MQM=24.7839;MQMR=27.6766;NS=21;NUMALT=1;ODDS=8.57495;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13514;QR=74104;RO=2112;RPL=543;RPP=1162.72;RPPR=3840.74;RPR=3;RUN=1;SAF=540;SAP=1137.09;SAR=6;SRF=1705;SRP=1735.26;SRR=407;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:161:161,0:161:5695:0:0:0,-48.4658,-382.486 0/0:151:151,0:151:5326:0:0:0,-45.4555,-383.866 0/0:64:64,0:64:2261:0:0:0,-19.2659,-157.937 0/0:116:114,1:114:4029:1:26:0,-32.6012,-269.064 0/1:288:189,97:189:6622:97:2509:-113.493,0,-369.134 0/1:101:71,30:71:2514:30:660:-21.0952,0,-132.258 0/1:190:109,81:109:3806:81:1791:-82.3819,0,-171.788 0/1:163:47,116:47:1632:116:2767:-169.103,0,-48.0058 0/1:205:135,70:135:4751:70:1953:-95.606,0,-282.204 0/1:25:17,7:17:575:7:168:-6.00424,0,-27.3721 0/0:29:29,0:29:982:0:0:0,-8.72987,-56.4256 0/0:41:40,1:40:1400:1:24:0,-10.2424,-86.5515 0/1:160:79,81:79:2770:81:2097:-118.893,0,-135.522 0/0:165:164,0:164:5745:0:0:0,-49.3689,-399.379 0/0:164:164,0:164:5768:0:0:0,-49.3689,-391.878 0/0:73:73,0:73:2574:0:0:0,-21.9752,-184.805 0/0:62:61,0:61:2122:0:0:0,-18.3628,-149.036 0/1:182:142,38:142:4936:38:900:-16.5988,0,-219.336 0/1:137:113,24:113:3920:24:619:-8.20708,0,-204.654 0/0:81:80,0:80:2818:0:0:0,-24.0824,-201.976 0/0:111:109,0:109:3858:0:0:0,-32.8123,-210.766 chr04 389242 . CTCC CCA,CCT 15202.3 PASS AB=0.536131,0.461538;ABP=7.8746,8.5225;AC=29,13;AF=0.690476,0.309524;AN=42;AO=523,208;CIGAR=1M1D1M1X,1M1D1M1X;DP=732;DPB=549;DPRA=3.61,1.12372;EPP=1138.69,454.677;EPPR=0;GTI=1;LEN=3,3;MEANALT=1.6,2;MQM=59.8031,59.9904;MQMR=0;NS=21;NUMALT=2;ODDS=1.31505;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18473,7371;QR=0;RO=0;RPL=0,0;RPP=1138.69,454.677;RPPR=0;RPR=523,208;RUN=1,1;SAF=0,0;SAP=1138.69,454.677;SAR=523,208;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,41,0:0:0:41,0:1443,0:-130.128,-12.3422,0,-130.128,-12.3422,-130.128 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/1:9:0,9,0:0:0:9,0:320,0:-29.1426,-2.70927,0,-29.1426,-2.70927,-29.1426 1/1:20:0,20,0:0:0:20,0:701,0:-63.3884,-6.0206,0,-63.3884,-6.0206,-63.3884 1/2:36:0,16,20:0:0:16,20:548,691:-100.97,-56.4883,-51.6718,-44.8251,0,-38.8045 1/1:14:0,14,0:0:0:14,0:502,0:-45.5172,-4.21442,0,-45.5172,-4.21442,-45.5172 1/1:28:0,28,0:0:0:28,0:1004,0:-90.6693,-8.42884,0,-90.6693,-8.42884,-90.6693 2/2:10:0,0,10:0:0:0,10:0,338:-30.746,-30.746,-30.746,-3.0103,-3.0103,0 1/2:22:0,13,9:0:0:13,9:468,324:-64.983,-26.7966,-22.8832,-38.5463,0,-35.837 1/2:49:0,25,24:0:0:25,24:885,862:-142.763,-70.6776,-63.1518,-72.4418,0,-65.2171 1/1:145:0,145,0:0:0:145,0:5137,0:-462.471,-43.6494,0,-462.471,-43.6494,-462.471 1/2:148:0,89,59:0:0:89,59:3158,2094:-428.249,-170.968,-144.176,-257.637,0,-239.876 1/2:12:0,4,8:0:0:4,8:144,288:-35.6088,-23.8592,-22.655,-12.1095,0,-9.70126 1/2:20:0,8,12:0:0:8,12:277,428:-57.7533,-35.2467,-32.8384,-22.8569,0,-19.2445 1/2:28:0,19,9:0:0:19,9:678,313:-81.0746,-25.7958,-20.0762,-55.6293,0,-52.9201 1/2:22:0,12,10:0:0:12,10:428,352:-63.9,-29.0073,-25.395,-35.2467,0,-32.2364 1/2:13:0,7,5:0:0:7,5:252,180:-35.249,-14.6871,-12.5799,-20.5619,0,-19.0568 1/2:72:0,34,38:0:0:34,38:1145,1357:-203.755,-110.99,-100.755,-93.1109,0,-81.6717 1/2:7:0,3,4:0:0:3,4:106,144:-20.7216,-12.1095,-11.2064,-8.9678,0,-7.76368 1/1:18:0,18,0:0:0:18,0:629,0:-56.8975,-5.41854,0,-56.8975,-5.41854,-56.8975 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 chr04 439609 . CGTA TGTC,TGTG 46470.1 PASS AB=0.498081,0.500384;ABP=3.05196,3.01197;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1455,807;CIGAR=1X2M1X,1X2M1X;DP=2270;DPB=2270.25;DPRA=0.682258,1.46028;EPP=3162.5,1755.39;EPPR=0;GTI=1;LEN=4,4;MEANALT=1.9,2.15385;MQM=59.9478,59.9033;MQMR=0;NS=21;NUMALT=2;ODDS=2.08555;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=50768,28219;QR=0;RO=0;RPL=1455,807;RPP=3162.5,1755.39;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3162.5,1755.39;SAR=1455,807;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:0,129,0:0:0:129,0:4461,0:-401.668,-38.8329,0,-401.668,-38.8329,-401.668 1/1:93:0,93,0:0:0:93,0:3265,0:-294.073,-27.9958,0,-294.073,-27.9958,-294.073 1/1:134:0,132,0:0:0:132,0:4649,0:-418.219,-39.736,0,-418.219,-39.736,-418.219 1/1:94:0,92,0:0:0:92,0:3186,0:-286.648,-27.6948,0,-286.648,-27.6948,-286.648 1/2:172:0,63,109:0:0:63,109:2198,3843:-492.019,-313.25,-294.285,-179.119,0,-146.307 1/1:62:0,61,0:0:0:61,0:2103,0:-189.287,-18.3628,0,-189.287,-18.3628,-189.287 1/1:96:0,96,0:0:0:96,0:3347,0:-301.389,-28.8989,0,-301.389,-28.8989,-301.389 2/2:155:0,0,154:0:0:0,154:0,5433:-488.749,-488.749,-488.749,-46.3586,-46.3586,0 1/2:238:0,123,115:0:0:123,115:4339,4055:-683.833,-330.523,-293.496,-353.663,0,-319.045 1/2:30:0,18,12:0:0:18,12:632,430:-86.8605,-35.4278,-30.0093,-51.7879,0,-48.1756 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/2:71:0,29,42:0:0:29,42:998,1415:-196.054,-114.997,-106.268,-81.3974,0,-68.7541 1/2:71:0,36,35:0:0:36,35:1268,1219:-202.709,-99.4753,-88.6382,-103.584,0,-93.048 1/2:130:0,71,58:0:0:71,58:2439,1985:-359.214,-161.165,-139.792,-198.101,0,-180.641 1/2:206:0,88,117:0:0:88,117:3088,4089:-583.928,-332.618,-306.127,-251.301,0,-216.08 1/2:46:0,26,20:0:0:26,20:898,706:-130.801,-57.8445,-50.0177,-73.306,0,-67.2854 1/2:84:0,43,41:0:0:43,41:1509,1444:-240.718,-117.913,-104.968,-123.157,0,-110.815 1/2:159:0,80,79:0:0:80,79:2796,2789:-454.919,-227.47,-203.388,-227.8,0,-204.018 1/2:96:0,72,24:0:0:72,24:2524,776:-268.324,-62.9153,-41.2411,-205.739,0,-198.515 1/1:139:0,138,1:0:0:138,1:4801,35:-431.903,-41.5421,0,-429.055,-38.3445,-428.754 1/1:60:0,60,0:0:0:60,0:2091,0:-188.459,-18.0618,0,-188.459,-18.0618,-188.459 chr04 441281 . G A 26991.6 PASS AB=0.568053;ABP=45.5695;AC=29;AF=0.690476;AN=42;AO=1317;CIGAR=1X;DP=1836;DPB=1836;DPRA=1.56053;EPP=2819.57;EPPR=1119.16;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6371;MQMR=60;NS=21;NUMALT=1;ODDS=18.1771;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46783;QR=18564;RO=518;RPL=5;RPP=2819.57;RPPR=1119.16;RPR=1312;RUN=1;SAF=1317;SAP=2862.84;SAR=0;SRF=518;SRP=1127.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:137:4,133:4:144:133:4751:-414.196,-27.9275,0 1/1:78:0,78:0:0:78:2776:-249.974,-23.4803,0 1/1:116:0,116:0:0:116:4122:-371.146,-34.9195,0 1/1:63:0,63:0:0:63:2232:-201.092,-18.9649,0 0/1:186:79,107:79:2835:107:3831:-288.707,0,-199.396 1/1:63:0,63:0:0:63:2244:-202.199,-18.9649,0 1/1:112:0,111:0:0:111:3914:-352.089,-33.4143,0 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.951 0/1:112:34,78:34:1212:78:2736:-212.765,0,-75.671 0/1:18:7,11:7:252:11:384:-29.4719,0,-17.6104 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:39:18,21:18:648:21:756:-56.4946,0,-46.9117 0/1:119:61,58:61:2179:58:2076:-151.281,0,-160.553 0/1:96:52,44:52:1864:44:1514:-107.645,0,-139.141 0/1:173:70,103:70:2503:103:3680:-279.299,0,-173.444 0/1:43:27,16:27:972:16:572:-38.8691,0,-74.8536 0/1:73:27,46:27:959:46:1648:-126.61,0,-64.6502 0/1:89:43,46:43:1548:46:1629:-120.101,0,-112.821 0/1:110:39,71:39:1396:71:2506:-192.671,0,-92.8258 1/1:90:0,90:0:0:90:3209:-288.982,-27.0927,0 1/1:52:0,52:0:0:52:1843:-166.136,-15.6536,0 chr04 456515 . T C 30574.2 PASS AB=0.555195;ABP=27.4605;AC=29;AF=0.690476;AN=42;AO=1452;CIGAR=1X;DP=1969;DPB=1969;DPRA=0.9345;EPP=3104.09;EPPR=1104.01;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9945;MQMR=60;NS=21;NUMALT=1;ODDS=21.8246;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51670;QR=18394;RO=515;RPL=6;RPP=3104.09;RPPR=1104.01;RPR=1446;RUN=1;SAF=1452;SAP=3155.99;SAR=0;SRF=515;SRP=1121.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,125:0:0:125:4419:-397.886,-37.6288,0 1/1:145:1,144:1:36:144:5127:-457.977,-40.0511,0 1/1:59:0,58:0:0:58:2080:-187.258,-17.4597,0 1/1:144:0,144:0:0:144:5119:-460.853,-43.3483,0 0/1:129:67,62:67:2367:62:2193:-158.801,0,-174.456 1/1:126:1,125:1:36:125:4426:-394.917,-34.3315,0 1/1:167:0,167:0:0:167:5980:-538.304,-50.272,0 0/0:100:100,0:100:3588:0:0:0,-30.103,-323.126 0/1:146:69,77:69:2460:77:2748:-203.612,0,-177.704 0/1:12:8,4:8:284:4:144:-9.70126,0,-22.291 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:53:28,24:28:995:24:864:-62.165,0,-73.9472 0/1:74:32,42:32:1152:42:1493:-112.387,0,-81.7139 0/1:112:40,72:40:1416:72:2542:-195.315,0,-94.022 0/1:124:53,71:53:1892:71:2544:-191.882,0,-133.231 0/1:73:36,37:36:1296:37:1316:-96.7666,0,-94.9687 0/1:66:25,41:25:896:41:1467:-112.458,0,-61.0924 0/1:58:25,33:25:900:33:1175:-88.5972,0,-63.8613 0/1:77:27,50:27:972:50:1775:-136.853,0,-64.6186 1/1:107:3,104:3:104:104:3702:-323.68,-22.5074,0 1/1:64:0,64:0:0:64:2268:-204.383,-19.2659,0 chr04 463476 . G A 56697 PASS AB=0.506024;ABP=3.55971;AC=29;AF=0.690476;AN=42;AO=2174;CIGAR=1X;DP=3160;DPB=3160;DPRA=0;EPP=4715.11;EPPR=2141.91;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9531;MQMR=60;NS=21;NUMALT=1;ODDS=15.3286;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77443;QR=35041;RO=985;RPL=800;RPP=332.103;RPPR=76.8382;RPR=1374;RUN=1;SAF=799;SAP=334.401;SAR=1375;SRF=401;SRP=76.8382;SRR=584;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:165:2,163:2:72:163:5825:-517.526,-42.8332,0 1/1:142:0,142:0:0:142:5088:-458.063,-42.7463,0 1/1:130:1,129:1:36:129:4624:-412.724,-35.5356,0 1/1:204:0,204:0:0:204:7227:-650.487,-61.4101,0 0/1:361:165,195:165:5866:195:6934:-515.487,0,-419.411 1/1:153:0,153:0:0:153:5442:-489.892,-46.0576,0 1/1:246:3,243:3:108:243:8641:-767.604,-63.9782,0 0/0:118:116,2:116:4132:2:68:0,-29.0638,-365.606 0/1:193:95,98:95:3359:98:3507:-257.741,0,-244.428 0/1:19:15,4:15:536:4:144:-7.59405,0,-42.8552 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:48:21,27:21:748:27:960:-72.2668,0,-53.1959 0/1:159:91,68:91:3224:68:2414:-169.649,0,-242.518 0/1:161:66,95:66:2363:95:3362:-254.329,0,-164.462 0/1:312:157,155:157:5602:155:5552:-405.879,0,-410.382 0/1:120:64,56:64:2273:56:2001:-144.238,0,-168.707 0/1:98:59,39:59:2111:39:1392:-96.0781,0,-160.757 0/1:159:80,79:80:2824:79:2811:-205.366,0,-206.535 0/1:113:47,66:47:1679:66:2330:-175.942,0,-117.38 1/1:158:2,156:2:72:156:5539:-491.602,-40.726,0 1/1:89:1,88:1:36:88:3154:-280.482,-23.1934,0 chr04 491558 . A G 28366.7 PASS AB=0.501706;ABP=3.03994;AC=29;AF=0.690476;AN=42;AO=1397;CIGAR=1X;DP=2233;DPB=2233;DPRA=0.402024;EPP=3036.56;EPPR=1814.02;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9062;MQMR=60;NS=21;NUMALT=1;ODDS=5.50842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49851;QR=29919;RO=834;RPL=0;RPP=3036.56;RPPR=1814.02;RPR=1397;RUN=1;SAF=1397;SAP=3036.56;SAR=0;SRF=834;SRP=1814.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:108:1,107:1:36:107:3821:-340.488,-28.913,0 1/1:62:0,62:0:0:62:2220:-200.064,-18.6639,0 1/1:84:0,83:0:0:83:2976:-267.713,-24.9855,0 1/1:88:0,88:0:0:88:3140:-282.826,-26.4906,0 0/1:216:118,98:118:4240:98:3497:-249.917,0,-316.755 1/1:99:0,99:0:0:99:3520:-316.64,-29.802,0 1/1:187:1,186:1:36:186:6641:-594.141,-52.6943,0 0/0:247:247,0:247:8842:0:0:0,-74.3544,-795.762 0/1:226:111,115:111:3984:115:4096:-300.791,0,-290.716 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:42:22,20:22:792:20:716:-52.1245,0,-58.9624 0/1:194:77,116:77:2764:116:4133:-313.727,0,-190.582 0/1:71:41,30:41:1476:30:1068:-75.0589,0,-111.763 0/1:214:134,80:134:4797:80:2868:-193.933,0,-367.464 0/1:25:10,15:10:360:15:525:-40.0523,0,-25.2186 0/1:27:11,16:11:396:16:568:-43.3241,0,-27.8549 0/1:64:23,41:23:828:41:1443:-110.899,0,-55.5782 0/1:81:28,53:28:1008:53:1900:-146.894,0,-66.6529 1/1:131:2,129:2:72:129:4624:-409.481,-32.5982,0 1/1:50:0,50:0:0:50:1771:-159.601,-15.0515,0 chr04 491652 . GATCT GATCC,AATAC 37029.9 PASS AB=0.432286,0.564464;ABP=39.7701,36.3258;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1117,624;CIGAR=4M1X,1X2M2X;DP=1747;DPB=1747;DPRA=0.814851,1.45414;EPP=2368.12,1340.69;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.95,2.21429;MQM=59.9543,44.7163;MQMR=0;NS=21;NUMALT=2;ODDS=0.543257;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39864,22020;QR=0;RO=0;RPL=7,622;RPP=2368.12,1340.69;RPPR=0;RPR=1110,2;RUN=1,1;SAF=0,0;SAP=2428.54,1358.01;SAR=1117,624;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,52,0:0:0:52,0:1860,0:-167.68,-15.6536,0,-167.68,-15.6536,-167.68 1/1:64:0,64,0:0:0:64,0:2280,0:-205.462,-19.2659,0,-205.462,-19.2659,-205.462 1/1:86:0,86,0:0:0:86,0:3076,0:-277.069,-25.8886,0,-277.069,-25.8886,-277.069 1/1:199:0,197,1:0:0:197,1:7020,35:-630.256,-59.3029,0,-627.444,-56.4682,-627.143 1/2:188:0,67,121:0:0:67,121:2400,4265:-537.468,-341.734,-321.565,-196.088,0,-159.663 1/1:77:0,76,1:0:0:76,1:2728,36:-245.406,-22.8783,0,-242.497,-19.6125,-242.196 1/1:98:0,97,0:0:0:97,0:3472,0:-312.332,-29.1999,0,-312.332,-29.1999,-312.332 2/2:101:0,0,101:0:0:0,101:0,3519:-312.72,-312.72,-312.72,-30.404,-30.404,0 1/2:95:0,36,59:0:0:36,59:1283,2104:-273.167,-168.585,-157.748,-104.936,0,-87.1748 1/2:4:0,2,2:0:0:2,2:72,72:-12.0361,-6.15931,-5.55725,-6.23466,0,-5.6326 1/1:9:0,9,0:0:0:9,0:316,0:-28.7789,-2.70927,0,-28.7789,-2.70927,-28.7789 1/2:35:0,19,16:0:0:19,16:662,561:-99.3247,-45.4894,-39.7698,-54.1828,0,-49.3664 1/2:131:0,57,73:0:0:57,73:2025,2582:-370.632,-205.62,-188.462,-165.081,0,-143.106 1/2:94:0,45,48:0:0:45,48:1589,1711:-265.403,-136.001,-122.455,-129.443,0,-114.993 1/2:136:0,52,84:0:0:52,84:1863,2946:-387.969,-236.027,-220.374,-152.295,0,-127.009 1/2:48:0,28,20:0:0:28,20:1004,715:-139.249,-57.3558,-48.927,-82.247,0,-76.2264 1/2:71:0,26,45:0:0:26,45:928,1596:-203.086,-127.428,-119.601,-76.0115,0,-62.4651 1/2:60:0,22,38:0:0:22,38:792,1350:-172.991,-108.364,-101.741,-64.983,0,-53.5439 1/2:61:0,45,15:0:0:45,15:1620,528:-174.594,-42.3993,-28.8529,-132.235,0,-127.72 1/1:94:0,93,0:0:0:93,0:3311,0:-297.85,-27.9958,0,-297.85,-27.9958,-297.85 1/1:44:0,44,0:0:0:44,0:1563,0:-140.961,-13.2453,0,-140.961,-13.2453,-140.961 chr04 491664 . G A 10973 PASS AB=0.561213;ABP=33.051;AC=13;AF=0.309524;AN=42;AO=620;CIGAR=1X;DP=1754;DPB=1754;DPRA=1.42747;EPP=1349.32;EPPR=2452.44;GTI=0;LEN=1;MEANALT=1.07143;MQM=44.7419;MQMR=59.9187;NS=21;NUMALT=1;ODDS=1.33036;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22200;QR=40433;RO=1132;RPL=620;RPP=1349.32;RPPR=2452.44;RPR=0;RUN=1;SAF=0;SAP=1349.32;SAR=620;SRF=0;SRP=2461.12;SRR=1132;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,0:54:1932:0:0:0,-16.2556,-173.797 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 0/0:85:85,0:85:3028:0:0:0,-25.5875,-272.752 0/0:200:198,1:198:7052:1:36:0,-56.6938,-629.934 0/1:186:69,117:69:2460:117:4204:-316.464,0,-165.663 0/0:76:75,1:75:2683:1:36:0,-19.3115,-238.148 0/0:100:100,0:100:3583:0:0:0,-30.103,-322.676 1/1:100:0,100:0:0:100:3575:-317.033,-30.103,0 0/1:95:36,59:36:1288:59:2111:-158.308,0,-87.6257 0/1:4:2,2:2:72:2:72:-5.55725,0,-5.6326 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:35:19,16:19:672:16:576:-41.0639,0,-50.2708 0/1:132:60,72:60:2147:72:2567:-186.37,0,-153.761 0/1:91:42,49:42:1500:49:1752:-126.957,0,-107.882 0/1:138:54,84:54:1928:84:2999:-224.269,0,-131.884 0/1:48:28,20:28:989:20:720:-49.3482,0,-74.8726 0/1:71:26,45:26:936:45:1612:-120.908,0,-63.1863 0/1:62:24,38:24:852:38:1364:-102.272,0,-58.3365 0/1:61:45,16:45:1616:16:576:-33.0749,0,-127.367 0/0:97:97,0:97:3471:0:0:0,-29.1999,-312.601 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 chr04 553012 . C T 10121 PASS AB=0.506629;ABP=3.41334;AC=14;AF=0.333333;AN=42;AO=589;CIGAR=1X;DP=1641;DPB=1641;DPRA=1.2864;EPP=1282.01;EPPR=2285.23;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8846;MQMR=59.9296;NS=21;NUMALT=1;ODDS=3.92169;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20931;QR=37415;RO=1051;RPL=0;RPP=1282.01;RPPR=2285.23;RPR=589;RUN=1;SAF=589;SAP=1282.01;SAR=0;SRF=1051;SRP=2285.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:60:60,0:60:2137:0:0:0,-18.0618,-192.59 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 0/1:61:33,27:33:1172:27:957:-68.1669,0,-87.5033 0/0:69:69,0:69:2453:0:0:0,-20.7711,-220.753 0/1:215:112,103:112:3980:103:3634:-262.271,0,-293.669 0/0:88:88,0:88:3124:0:0:0,-26.4906,-281.388 0/0:154:154,0:154:5508:0:0:0,-46.3586,-495.847 1/1:54:0,54:0:0:54:1928:-173.789,-16.2556,0 0/1:168:65,103:65:2324:103:3666:-279.547,0,-158.843 0/1:11:3,8:3:104:8:284:-22.592,0,-6.39148 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:29:18,11:18:636:11:392:-26.8902,0,-48.8382 0/1:83:47,36:47:1665:36:1280:-90.5173,0,-125.141 0/1:68:26,42:26:928:42:1481:-113.112,0,-63.3682 0/1:152:63,89:63:2248:89:3165:-239.316,0,-156.827 0/1:47:24,23:24:864:23:824:-60.3303,0,-63.9342 0/1:55:28,27:28:1004:27:972:-71.2413,0,-74.1192 0/1:132:72,60:72:2561:60:2132:-152.41,0,-191.003 0/1:35:29,6:29:1028:6:216:-9.25446,0,-82.297 0/0:71:71,0:71:2512:0:0:0,-21.3731,-226.329 0/0:42:42,0:42:1487:0:0:0,-12.6433,-134.124 chr04 553192 . T C 20328.3 PASS AB=0.535794;ABP=12.9592;AC=28;AF=0.666667;AN=42;AO=1003;CIGAR=1X;DP=1514;DPB=1514;DPRA=0.738542;EPP=2181;EPPR=1112.63;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.67289;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35850;QR=17602;RO=511;RPL=1003;RPP=2181;RPPR=1112.63;RPR=0;RUN=1;SAF=0;SAP=2181;SAR=1003;SRF=0;SRP=1112.63;SRR=511;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:2216:-199.705,-18.6639,0 1/1:60:0,60:0:0:60:2145:-193.316,-18.0618,0 0/1:101:31,70:31:1097:70:2512:-195.928,0,-68.634 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 0/1:128:66,62:66:2273:62:2194:-159.191,0,-166.294 1/1:58:0,58:0:0:58:2061:-185.759,-17.4597,0 1/1:174:0,174:0:0:174:6237:-561.422,-52.3792,0 0/0:96:96,0:96:3278:0:0:0,-28.8989,-295.234 0/1:89:50,39:50:1732:39:1370:-96.8028,0,-129.365 0/1:16:8,8:8:288:8:288:-21.4509,0,-21.4509 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:20:9,11:9:324:11:381:-28.6,0,-23.4853 0/1:61:38,23:38:1300:23:828:-56.4813,0,-98.928 0/1:87:42,45:42:1452:45:1601:-118.189,0,-104.777 0/1:100:47,53:47:1650:53:1904:-141.535,0,-118.681 0/1:43:22,21:22:743:21:756:-55.4229,0,-54.2346 0/1:56:21,35:21:737:35:1256:-96.4876,0,-49.7929 0/1:112:46,66:46:1577:66:2376:-180.382,0,-108.494 0/1:81:35,46:35:1151:46:1648:-124.225,0,-79.4924 1/1:42:0,42:0:0:42:1485:-133.943,-12.6433,0 1/1:57:0,57:0:0:57:2048:-184.592,-17.1587,0 chr04 758547 . G A 25922.8 PASS AB=0.573404;ABP=47.0034;AC=28;AF=0.666667;AN=42;AO=1255;CIGAR=1X;DP=1680;DPB=1680;DPRA=3.76818;EPP=2728.21;EPPR=925.886;GTI=1;LEN=1;MEANALT=1;MQM=59.9618;MQMR=59.9106;NS=21;NUMALT=1;ODDS=0.51085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44913;QR=15208;RO=425;RPL=0;RPP=2728.21;RPPR=925.886;RPR=1255;RUN=1;SAF=1255;SAP=2728.21;SAR=0;SRF=425;SRP=925.886;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,110:0:0:110:3935:-354.341,-33.1133,0 1/1:65:1,64:1:36:64:2285:-202.206,-15.9687,0 0/1:75:35,40:35:1245:40:1440:-107.32,0,-89.7755 1/1:92:0,92:0:0:92:3297:-296.947,-27.6948,0 0/1:172:79,93:79:2816:93:3325:-247.689,0,-201.903 1/1:119:0,119:0:0:119:4261:-383.638,-35.8226,0 1/1:136:1,135:1:36:135:4842:-432.334,-37.3418,0 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/1:149:55,94:55:1976:94:3357:-257.492,0,-133.261 0/1:8:3,5:3:108:5:176:-13.7768,0,-7.66693 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:26:12,14:12:432:14:504:-37.8713,0,-31.3944 0/1:96:53,43:53:1904:43:1533:-109.364,0,-142.739 0/1:98:41,57:41:1472:57:2033:-153.739,0,-103.261 0/1:94:44,50:44:1576:50:1781:-132.272,0,-113.835 0/1:42:13,29:13:464:29:1040:-81.2711,0,-29.4542 0/1:54:22,32:22:784:32:1152:-87.7345,0,-54.1365 0/1:50:18,32:18:648:32:1148:-88.5783,0,-43.6004 0/1:76:26,50:26:919:50:1781:-137.693,0,-60.1479 1/1:141:0,141:0:0:141:5056:-455.182,-42.4452,0 1/1:49:0,49:0:0:49:1755:-158.234,-14.7505,0 chr04 760196 . CC GG,GC 68799.3 PASS AB=0.484594,0.512045;ABP=6.69025,5.25963;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1778,1031;CIGAR=2X,1X1M;DP=2821;DPB=2821;DPRA=0,1.16505;EPP=301.052,2138.78;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.19048,2.6;MQM=59.4274,59.9806;MQMR=60;NS=21;NUMALT=2;ODDS=6.7663;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62434,36840;QR=36;RO=1;RPL=1136,12;RPP=301.052,2138.78;RPPR=5.18177;RPR=642,1019;RUN=1,1;SAF=1778,1031;SAP=3863.89,2241.8;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:201:0,201,0:0:0:201,0:6996,0:-629.396,-60.507,0,-629.396,-60.507,-629.396 1/1:78:0,78,0:0:0:78,0:2722,0:-245.161,-23.4803,0,-245.161,-23.4803,-245.161 1/2:163:0,79,84:0:0:79,84:2808,3011:-474.735,-245.934,-222.152,-229.159,0,-203.872 1/1:125:0,125,0:0:0:125,0:4400,0:-396.158,-37.6288,0,-396.158,-37.6288,-396.158 1/2:351:0,180,171:0:0:180,171:6313,6132:-1014.12,-500.502,-446.317,-513.973,0,-462.497 1/1:146:1,145,0:1:36:145,0:5115,0:-456.484,-40.3521,0,-456.785,-43.6494,-459.722 1/1:157:0,156,0:0:0:156,0:5487,0:-492.913,-46.9607,0,-492.913,-46.9607,-492.913 2/2:116:0,1,113:0:0:1,113:34,4019:-361.545,-358.788,-358.486,-34.0164,-31.265,0 1/2:245:0,123,120:0:0:123,120:4335,4255:-699.343,-346.722,-309.695,-352.693,0,-316.569 1/2:16:0,12,4:0:0:12,4:432,144:-47.3134,-12.1095,-8.49714,-35.5636,0,-34.3595 1/1:14:0,14,0:0:0:14,0:502,0:-45.4813,-4.21442,0,-45.4813,-4.21442,-45.4813 1/2:25:0,10,15:0:0:10,15:345,540:-72.4413,-44.4211,-41.4108,-28.3711,0,-23.8556 1/2:172:0,83,87:0:0:83,87:2903,3119:-490.568,-254.439,-229.454,-236.176,0,-209.986 1/2:172:0,89,83:0:0:89,83:3132,2952:-495.831,-240.93,-214.138,-255.255,0,-230.269 1/2:268:0,111,157:0:0:111,157:3903,5620:-776.299,-458.656,-425.242,-317.997,0,-270.735 1/2:109:0,46,63:0:0:46,63:1615,2245:-314.758,-183.347,-169.499,-131.764,0,-112.799 1/2:142:0,69,71:0:0:69,71:2408,2548:-403.653,-207.821,-187.05,-195.826,0,-174.453 1/2:44:0,19,25:0:0:19,25:664,900:-127.759,-73.7953,-68.0757,-54.3179,0,-46.7921 1/2:78:0,44,34:0:0:44,34:1533,1211:-223.712,-99.0605,-85.8152,-125.004,0,-114.769 1/1:152:0,148,3:0:0:148,3:5193,108:-467.098,-44.5524,0,-458.286,-35.7402,-457.383 1/1:47:0,45,1:0:0:45,1:1594,36:-143.306,-13.5464,0,-140.369,-10.6089,-140.068 chr04 763773 . A C 20670.4 PASS AB=0.53557;ABP=11.1978;AC=29;AF=0.690476;AN=42;AO=842;CIGAR=1X;DP=1246;DPB=1246;DPRA=1.1037;EPP=567.861;EPPR=880.285;GTI=1;LEN=1;MEANALT=1;MQM=59.8076;MQMR=59.995;NS=21;NUMALT=1;ODDS=4.69152;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29860;QR=14274;RO=404;RPL=841;RPP=1822.71;RPPR=880.285;RPR=1;RUN=1;SAF=188;SAP=563.044;SAR=654;SRF=404;SRP=880.285;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:2,38:2:72:38:1326:-112.788,-5.20448,0 1/1:18:0,18:0:0:18:644:-58.2824,-5.41854,0 0/1:29:16,13:16:572:13:443:-31.4657,0,-43.0836 1/1:51:0,51:0:0:51:1823:-164.35,-15.3525,0 0/1:102:59,43:59:2075:43:1523:-106.551,0,-156.316 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 0/0:54:54,0:54:1932:0:0:0,-16.2556,-174.157 0/1:88:51,37:51:1791:37:1292:-90.0903,0,-134.981 0/1:78:8,70:8:288:70:2500:-201.683,0,-2.78707 1/1:157:0,157:0:0:157:5617:-505.608,-47.2617,0 1/1:55:0,55:0:0:55:1953:-176.037,-16.5567,0 0/1:62:41,21:41:1454:21:713:-45.8207,0,-112.491 0/1:47:21,26:21:739:26:924:-69.3292,0,-52.684 0/1:65:47,18:47:1653:18:644:-38.7236,0,-129.488 0/1:30:22,8:22:780:8:273:-15.8693,0,-61.4921 0/1:39:34,5:34:1208:5:180:-4.8119,0,-97.2859 0/1:155:25,130:25:872:130:4597:-366.38,0,-32.1367 0/1:50:22,28:22:770:28:987:-74.0915,0,-54.5678 1/1:41:2,39:2:68:39:1392:-119.121,-5.88452,0 1/1:37:0,37:0:0:37:1309:-118.108,-11.1381,0 chr04 763863 . A T,G 38081.5 PASS AB=0.628267,0.371733;ABP=150.63,150.63;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1400,436;CIGAR=1X,1X;DP=1836;DPB=1836;DPRA=1.71538,0.889071;EPP=3034.39,949.772;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.6,1.92308;MQM=59.6307,59.6376;MQMR=0;NS=21;NUMALT=2;ODDS=3.61236;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49191,15288;QR=0;RO=0;RPL=1,0;RPP=3034.39,949.772;RPPR=0;RPR=1399,436;RUN=1,1;SAF=0,0;SAP=3043.07,949.772;SAR=1400,436;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102,0:0:0:102,0:3605,0:-324.023,-30.7051,0,-324.023,-30.7051,-324.023 1/1:119:0,119,0:0:0:119,0:4203,0:-378.428,-35.8226,0,-378.428,-35.8226,-378.428 1/2:118:0,91,27:0:0:91,27:3198,951:-338.071,-77.7742,-50.3804,-260.648,0,-252.52 1/1:106:0,106,0:0:0:106,0:3727,0:-335.633,-31.9092,0,-335.633,-31.9092,-335.633 1/2:99:0,27,72:0:0:27,72:952,2532:-283.782,-206.273,-198.146,-77.8603,0,-56.1862 1/1:148:0,148,0:0:0:148,0:5228,0:-470.634,-44.5524,0,-470.634,-44.5524,-470.634 1/1:138:0,138,0:0:0:138,0:4838,0:-434.641,-41.5421,0,-434.641,-41.5421,-434.641 2/2:52:0,0,52:0:0:0,52:0,1868:-168.329,-168.329,-168.329,-15.6536,-15.6536,0 1/2:171:0,120,51:0:0:120,51:4201,1759:-484.989,-143.23,-107.107,-342.105,0,-326.752 1/2:9:0,7,2:0:0:7,2:248,60:-25.3412,-5.0962,-2.98899,-20.557,0,-19.9549 1/1:12:0,12,0:0:0:12,0:424,0:-38.4964,-3.61236,0,-38.4964,-3.61236,-38.4964 1/2:19:0,8,11:0:0:8,11:279,381:-54.001,-31.3093,-28.9011,-23.0393,0,-19.728 1/2:126:0,78,48:0:0:78,48:2772,1687:-363.552,-137.666,-114.185,-226.239,0,-211.789 1/2:117:0,67,50:0:0:67,50:2320,1765:-332.44,-143.989,-123.82,-188.8,0,-173.749 1/2:136:0,92,44:0:0:92,44:3234,1532:-388.153,-124.918,-97.2227,-263.584,0,-250.339 1/2:48:0,38,10:0:0:38,10:1336,341:-136.764,-28.0075,-16.5683,-109.1,0,-106.089 1/2:70:0,44,26:0:0:44,26:1560,911:-201.569,-74.4763,-61.231,-127.445,0,-119.618 1/2:73:0,42,31:0:0:42,31:1468,1086:-208.101,-88.7156,-76.0724,-119.735,0,-110.404 1/2:47:0,35,12:0:0:35,12:1240,415:-135.088,-34.0679,-23.5319,-101.367,0,-97.7551 1/1:85:0,85,0:0:0:85,0:2937,0:-264.289,-25.5876,0,-264.289,-25.5876,-264.289 1/1:41:0,41,0:0:0:41,0:1421,0:-128.175,-12.3422,0,-128.175,-12.3422,-128.175 chr04 767703 . C T 11168.3 PASS AB=0.473837;ABP=9.14597;AC=14;AF=0.333333;AN=42;AO=633;CIGAR=1X;DP=1668;DPB=1668;DPRA=1.31699;EPP=1377.55;EPPR=2250.48;GTI=0;LEN=1;MEANALT=1;MQM=51.0348;MQMR=59.6551;NS=21;NUMALT=1;ODDS=2.87481;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22636;QR=36806;RO=1035;RPL=0;RPP=1377.55;RPPR=2250.48;RPR=633;RUN=1;SAF=0;SAP=1377.55;SAR=633;SRF=0;SRP=2250.48;SRR=1035;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:114:114,0:114:4060:0:0:0,-34.3174,-365.574 0/0:34:33,1:33:1188:1:36:0,-6.65197,-103.646 0/1:76:31,45:31:1104:45:1616:-121.908,0,-76.7867 0/0:63:63,0:63:2251:0:0:0,-18.9649,-202.826 0/1:115:66,49:66:2349:49:1760:-122.963,0,-176.941 0/0:69:69,0:69:2431:0:0:0,-20.7711,-218.996 0/0:76:76,0:76:2703:0:0:0,-22.8783,-243.484 1/1:143:0,143:0:0:143:5116:-457.732,-43.0473,0 0/1:266:123,143:123:4398:143:5117:-378.208,0,-315.868 0/1:23:16,7:16:572:7:237:-14.655,0,-44.8897 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:31:21,10:21:737:10:347:-22.1227,0,-57.3187 0/1:102:52,50:52:1842:50:1794:-129.954,0,-135.351 0/1:87:44,43:44:1576:43:1540:-111.867,0,-115.94 0/1:139:74,65:74:2636:65:2328:-167.002,0,-195.628 0/1:18:10,8:10:356:8:288:-20.5473,0,-26.9627 0/1:35:24,11:24:864:11:392:-24.9628,0,-67.5383 0/1:86:46,40:46:1636:40:1432:-102.581,0,-121.626 0/1:54:36,18:36:1279:18:633:-40.7823,0,-99.1407 0/0:86:86,0:86:3048:0:0:0,-25.8886,-274.539 0/0:43:43,0:43:1488:0:0:0,-12.9443,-134.138 chr04 867361 . G A 31979.4 PASS AB=0.538102;ABP=21.8742;AC=28;AF=0.666667;AN=42;AO=1677;CIGAR=1X;DP=2502;DPB=2502;DPRA=0;EPP=3644.57;EPPR=1794.48;GTI=0;LEN=1;MEANALT=1;MQM=41.2815;MQMR=54.6194;NS=21;NUMALT=1;ODDS=16.1954;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60038;QR=29434;RO=825;RPL=0;RPP=3644.57;RPPR=1794.48;RPR=1677;RUN=1;SAF=1677;SAP=3644.57;SAR=0;SRF=825;SRP=1794.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:178:1,177:1:36:177:6344:-549.208,-49.9877,0 1/1:111:1,110:1:36:110:3956:-338.447,-29.8198,0 0/1:85:55,30:55:1972:30:1065:-66.8923,0,-151.803 1/1:169:1,168:1:36:168:5984:-516.712,-47.2784,0 0/1:223:101,122:101:3596:122:4361:-312.285,0,-256.414 1/1:103:0,103:0:0:103:3685:-318.784,-31.0061,0 1/1:147:1,146:1:36:146:5252:-452.708,-41.0053,0 0/0:127:126,1:126:4505:1:36:0,-34.6325,-400.473 0/1:208:90,118:90:3198:118:4198:-295.984,0,-223.393 0/1:37:16,21:16:576:21:756:-54.7424,0,-40.9831 1/1:12:0,12:0:0:12:428:-36.8004,-3.61236,0 0/1:45:15,30:15:527:30:1080:-80.8867,0,-34.1628 0/1:224:122,102:122:4372:102:3656:-248.985,0,-324.927 0/1:118:34,84:34:1197:84:3005:-224.481,0,-71.7679 0/1:177:95,82:95:3396:82:2936:-203.341,0,-249.649 0/1:73:32,41:32:1148:41:1463:-104.521,0,-81.4265 0/1:119:57,62:57:2044:62:2205:-155.355,0,-147.492 0/1:105:51,54:51:1787:54:1932:-136.697,0,-128.32 0/1:82:23,59:23:828:59:2124:-160.827,0,-50.0998 1/1:82:3,79:3:108:79:2844:-237.8,-14.6197,0 1/1:77:1,76:1:36:76:2728:-233.366,-19.6583,0 chr04 867379 . G C 31930.6 PASS AB=0.533955;ABP=18.0516;AC=28;AF=0.666667;AN=42;AO=1671;CIGAR=1X;DP=2502;DPB=2502;DPRA=0;EPP=3605.53;EPPR=1805.33;GTI=0;LEN=1;MEANALT=1.04762;MQM=41.2226;MQMR=54.5422;NS=21;NUMALT=1;ODDS=14.8701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59695;QR=29687;RO=830;RPL=1668;RPP=3605.53;RPPR=1805.33;RPR=3;RUN=1;SAF=1671;SAP=3631.54;SAR=0;SRF=830;SRP=1805.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:1,178:1:36:178:6339:-549.291,-50.2887,0 1/1:110:1,109:1:36:109:3897:-333.362,-29.5187,0 0/1:85:54,31:54:1944:31:1108:-70.8041,0,-149.282 1/1:168:1,167:1:36:167:5984:-516.209,-46.9774,0 0/1:224:102,122:102:3640:122:4371:-313.038,0,-259.198 1/1:100:0,100:0:0:100:3588:-310.437,-30.103,0 1/1:148:1,147:1:36:147:5272:-454.049,-41.3063,0 0/0:124:123,1:123:4424:1:36:0,-33.7294,-393.183 0/1:206:90,116:90:3228:116:4111:-287.962,0,-227.56 0/1:38:17,21:17:599:21:752:-54.1409,0,-41.9655 1/1:11:0,11:0:0:11:396:-34.807,-3.31133,0 0/1:45:15,30:15:540:30:1080:-80.8867,0,-35.298 0/1:224:122,102:122:4380:102:3644:-248.339,0,-325.326 0/1:117:33,84:33:1184:84:2995:-223.958,0,-70.901 0/1:181:99,82:99:3506:82:2925:-201.146,0,-258.324 0/1:74:33,41:33:1184:41:1476:-105.214,0,-84.358 0/1:117:58,59:58:2056:59:2107:-147.403,0,-149.39 0/1:106:51,55:51:1823:55:1959:-138.704,0,-131.648 0/1:85:26,59:26:927:59:2111:-158.814,0,-58.011 1/1:81:3,77:3:108:77:2738:-228.768,-14.377,0 1/1:79:0,79:0:0:79:2806:-244.267,-23.7814,0 chr04 873549 . T C 16571.3 PASS AB=0.515263;ABP=4.66741;AC=28;AF=0.666667;AN=42;AO=902;CIGAR=1X;DP=1348;DPB=1348;DPRA=1.41522;EPP=1961.68;EPPR=967.144;GTI=0;LEN=1;MEANALT=1.1;MQM=39.3503;MQMR=55.6126;NS=21;NUMALT=1;ODDS=8.30498;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32137;QR=15882;RO=444;RPL=0;RPP=1961.68;RPPR=967.144;RPR=902;RUN=1;SAF=0;SAP=1961.68;SAR=902;SRF=0;SRP=967.144;SRR=444;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:1,101:1:36:101:3588:-306.011,-27.4643,0 1/1:49:0,49:0:0:49:1741:-144.666,-14.7505,0 0/1:42:25,17:25:900:17:600:-39.5888,0,-68.5061 1/1:82:0,82:0:0:82:2911:-249.612,-24.6845,0 0/1:117:56,61:56:2008:61:2178:-153.269,0,-144.805 1/1:82:0,82:0:0:82:2936:-248.284,-24.6845,0 1/1:92:0,91:0:0:91:3232:-271.479,-27.3937,0 0/0:46:46,0:46:1643:0:0:0,-13.8474,-147.923 0/1:119:53,66:53:1895:66:2348:-167.239,0,-134.715 0/1:18:10,8:10:360:8:288:-19.3109,0,-27.2793 1/1:4:0,4:0:0:4:144:-12.5341,-1.20412,0 0/1:24:13,11:13:460:11:392:-26.3923,0,-34.268 0/1:66:31,35:31:1108:35:1247:-87.1934,0,-80.1093 0/1:110:48,62:48:1712:62:2203:-157.83,0,-120.099 0/1:82:54,28:54:1924:28:1004:-62.0267,0,-148.396 0/1:64:31,33:31:1108:33:1188:-85.5929,0,-80.6755 0/1:69:35,34:35:1256:34:1211:-84.748,0,-92.5165 0/1:60:30,30:30:1080:30:1076:-71.5518,0,-78.9334 0/1:48:11,37:11:392:37:1319:-97.6749,0,-21.156 1/1:32:0,32:0:0:32:1139:-93.7524,-9.63296,0 1/1:39:0,39:0:0:39:1392:-116.394,-11.7402,0 chr04 1118867 . 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T C 19712.1 PASS AB=0.507277;ABP=3.67393;AC=14;AF=0.333333;AN=42;AO=905;CIGAR=1X;DP=2431;DPB=2431;DPRA=1.23137;EPP=649.32;EPPR=422.851;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.8983;MQMR=59.9993;NS=21;NUMALT=1;ODDS=2.82902;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31702;QR=54553;RO=1525;RPL=712;RPP=649.32;RPPR=422.851;RPR=193;RUN=1;SAF=905;SAP=1968.19;SAR=0;SRF=1525;SRP=3314.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:143:142,1:142:5076:1:32:0,-39.848,-453.783 0/0:126:126,0:126:4505:0:0:0,-37.9298,-405.617 0/1:127:50,76:50:1796:76:2684:-203.455,0,-123.633 0/0:114:113,1:113:4045:1:36:0,-30.7191,-360.637 0/1:272:132,140:132:4731:140:4937:-362.6,0,-344.067 0/0:82:82,0:82:2908:0:0:0,-24.6845,-261.955 0/0:173:173,0:173:6199:0:0:0,-52.0782,-558.006 1/1:169:0,169:0:0:169:5874:-528.777,-50.8741,0 0/1:209:101,108:101:3623:108:3776:-277.124,0,-263.359 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:17:13,4:13:459:4:144:-8.19611,0,-36.5266 0/1:153:80,73:80:2859:73:2567:-185.221,0,-211.49 0/1:133:52,81:52:1864:81:2854:-217.062,0,-128.002 0/1:171:80,91:80:2876:91:3224:-238.906,0,-207.6 0/1:127:58,69:58:2072:69:2412:-179.091,0,-148.52 0/1:72:40,32:40:1440:32:1121:-79.2939,0,-108.224 0/1:84:50,34:50:1785:34:1126:-76.3465,0,-135.644 0/1:68:46,22:46:1635:22:771:-49.2397,0,-126.968 0/0:115:114,1:114:4072:1:36:0,-31.0202,-363.066 0/0:57:56,1:56:1996:1:36:0,-13.5604,-176.316 chr04 1149266 . T A 7952.02 PASS AB=0.473272;ABP=7.76942;AC=14;AF=0.333333;AN=42;AO=460;CIGAR=1X;DP=1206;DPB=1206;DPRA=1.56898;EPP=1001.89;EPPR=1614.25;GTI=0;LEN=1;MEANALT=1;MQM=59.987;MQMR=59.929;NS=21;NUMALT=1;ODDS=1.83634;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16454;QR=26703;RO=746;RPL=0;RPP=1001.89;RPPR=1614.25;RPR=460;RUN=1;SAF=0;SAP=1001.89;SAR=460;SRF=0;SRP=1622.93;SRR=746;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:70,5:70:2493:5:180:0,-6.02518,-208.07 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/1:81:36,45:36:1280:45:1620:-121.707,0,-91.1198 0/0:64:64,0:64:2283:0:0:0,-19.2659,-205.731 0/1:77:45,32:45:1608:32:1143:-79.9994,0,-121.64 0/0:27:26,1:26:928:1:36:0,-4.52953,-80.24 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.449 1/1:92:1,91:1:36:91:3240:-288.222,-24.0965,0 0/1:111:61,50:61:2180:50:1796:-128.508,0,-163.052 0/1:23:16,7:16:568:7:252:-16.1053,0,-44.5282 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:59:19,40:19:684:40:1419:-110.246,0,-44.1296 0/1:123:62,61:62:2232:61:2188:-160.159,0,-163.747 0/1:43:27,16:27:972:16:576:-39.2307,0,-74.8536 0/1:87:49,38:49:1751:38:1363:-96.781,0,-131.684 0/1:16:9,7:9:320:7:252:-18.2125,0,-24.3259 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 0/1:93:46,47:46:1656:47:1673:-122.859,0,-121.333 0/1:40:25,15:25:900:15:536:-36.5336,0,-69.2798 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 chr04 1149287 . G A 14550.8 PASS AB=0.558167;ABP=28.0192;AC=27;AF=0.642857;AN=42;AO=746;CIGAR=1X;DP=1216;DPB=1216;DPRA=0.603763;EPP=1622.93;EPPR=1021.43;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9638;MQMR=60;NS=21;NUMALT=1;ODDS=1.38976;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26696;QR=16688;RO=469;RPL=746;RPP=1622.93;RPPR=1021.43;RPR=0;RUN=1;SAF=0;SAP=1622.93;SAR=746;SRF=0;SRP=1021.43;SRR=469;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:7,69:7:252:69:2458:-198.595,0,-0.150679 1/1:43:0,43:0:0:43:1548:-139.613,-12.9443,0 0/1:81:45,36:45:1603:36:1296:-92.5605,0,-120.176 1/1:63:0,63:0:0:63:2232:-201.143,-18.9649,0 0/1:75:33,42:33:1168:42:1504:-113.077,0,-82.85 1/1:26:1,25:1:36:25:891:-76.9105,-4.22851,0 1/1:73:0,73:0:0:73:2616:-235.687,-21.9752,0 0/0:93:93,0:93:3297:0:0:0,-27.9958,-296.95 0/1:115:53,62:53:1875:62:2232:-166.525,0,-134.41 0/1:24:7,17:7:248:17:608:-47.8273,0,-15.4395 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:61:42,19:42:1483:19:684:-43.5275,0,-115.401 0/1:126:61,65:61:2188:65:2316:-170.58,0,-159.256 0/1:45:16,29:16:563:29:1044:-80.7285,0,-37.4528 0/1:84:35,48:35:1256:48:1716:-129.38,0,-88 0/1:15:7,8:7:248:8:288:-21.752,0,-18.1487 0/1:15:5,10:5:180:10:356:-27.8658,0,-12.0366 0/1:94:49,45:49:1764:45:1612:-117.073,0,-130.747 0/1:40:15,25:15:527:25:891:-68.4676,0,-35.719 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 1/1:34:0,34:0:0:34:1216:-109.747,-10.235,0 chr04 1149314 . CTCGGGT GTCTGGG,GTCGGGG 34685.9 PASS AB=0.505873,0.48473;ABP=3.3929,5.59668;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1473,738;CIGAR=1X2M1X2M1X,1X5M1X;DP=2226;DPB=2226.43;DPRA=0.909483,1.06101;EPP=3201.59,1605.56;EPPR=5.18177;GTI=0;LEN=7,7;MEANALT=2.3,2.64286;MQM=28.4657,40.9621;MQMR=60;NS=21;NUMALT=2;ODDS=12.8961;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=35,0;PQR=0;PRO=0;QA=51221,25809;QR=36;RO=1;RPL=0,0;RPP=3201.59,1605.56;RPPR=5.18177;RPR=1473,738;RUN=1,1;SAF=1473,738;SAP=3201.59,1605.56;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:164:0,162,0:0:0:162,0:5580,0:-411.726,-48.7669,0,-411.726,-48.7669,-411.726 1/1:94:0,94,0:0:0:94,0:3281,0:-211.537,-28.2968,0,-211.537,-28.2968,-211.537 1/2:116:1,53,60:1:36:53,60:1866,2078:-279.83,-159.986,-146.969,-117.248,0,-102.125 1/1:123:0,123,0:0:0:123,0:4241,0:-311.029,-37.0267,0,-311.029,-37.0267,-311.029 1/2:231:0,123,103:0:0:123,103:4279,3594:-560.124,-282.333,-245.307,-277.829,0,-246.823 1/1:111:0,111,0:0:0:111,0:3841,0:-252.942,-33.4143,0,-252.942,-33.4143,-252.942 1/1:154:0,153,0:0:0:153,0:5343,0:-350.217,-46.0576,0,-350.217,-46.0576,-350.217 2/2:116:0,0,116:0:0:0,116:0,3997:-344.6,-344.6,-344.6,-34.9195,-34.9195,0 1/2:136:0,69,67:0:0:69,67:2417,2367:-353.647,-188.145,-167.374,-165.825,0,-145.656 1/2:17:0,12,5:0:0:12,5:401,176:-39.0762,-14.0311,-10.4187,-25.3617,0,-23.8566 1/1:15:0,15,0:0:0:15,0:530,0:-34.6789,-4.51545,0,-34.6789,-4.51545,-34.6789 1/2:35:0,16,19:0:0:16,19:571,670:-86.8452,-52.377,-47.5605,-34.7709,0,-29.0513 1/2:140:0,77,63:0:0:77,63:2681,2194:-345.724,-172.544,-149.365,-173.492,0,-154.528 1/2:102:0,46,56:0:0:46,56:1601,1947:-256.797,-153.526,-139.679,-103.578,0,-86.7207 1/2:174:0,83,89:0:0:83,89:2903,3124:-431.526,-245.365,-220.379,-186.229,0,-159.438 1/2:92:0,33,58:0:0:33,58:1149,2053:-242.982,-163.856,-153.922,-79.0939,0,-61.6342 1/2:56:0,24,32:0:0:24,32:837,1132:-147.475,-90.642,-83.4173,-57.151,0,-47.518 1/2:100:0,59,41:0:0:59,41:2051,1467:-238.616,-114.829,-97.0678,-124.1,0,-111.757 1/2:78:0,51,26:0:0:51,26:1740,910:-184.354,-71.1238,-55.7713,-113.259,0,-105.432 1/1:120:0,117,3:0:0:117,3:4102,100:-284.439,-35.2205,0,-276.873,-27.3425,-275.97 1/1:52:0,52,0:0:0:52,0:1807,0:-117.974,-15.6536,0,-117.974,-15.6536,-117.974 chr04 1181221 . T C 11833.4 PASS AB=0.488453;ABP=4.01329;AC=14;AF=0.333333;AN=42;AO=512;CIGAR=1X;DP=1589;DPB=1589;DPRA=0.91119;EPP=3.16298;EPPR=4.48013;GTI=0;LEN=1;MEANALT=1;MQM=59.9785;MQMR=59.9981;NS=21;NUMALT=1;ODDS=14.3437;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18151;QR=38354;RO=1077;RPL=512;RPP=1114.8;RPPR=2341.69;RPR=0;RUN=1;SAF=259;SAP=3.16298;SAR=253;SRF=552;SRP=4.48013;SRR=525;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:71,4:71:2521:4:144:0,-9.26363,-213.827 0/0:97:97,0:97:3476:0:0:0,-29.1999,-313.051 0/1:51:24,27:24:852:27:972:-72.4454,0,-61.6479 0/0:80:80,0:80:2830:0:0:0,-24.0824,-254.94 0/1:109:50,59:50:1780:59:2105:-156.906,0,-127.671 0/0:79:79,0:79:2828:0:0:0,-23.7814,-254.758 0/0:100:100,0:100:3539:0:0:0,-30.103,-318.719 1/1:85:0,85:0:0:85:2977:-268.159,-25.5876,0 0/1:127:69,58:69:2476:58:2045:-146.09,0,-184.863 0/1:9:4,5:4:135:5:171:-13.0162,0,-9.77324 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:12:7,5:7:248:5:180:-12.9397,0,-19.0518 0/1:75:36,39:36:1288:39:1400:-103.722,0,-93.6463 0/1:84:35,49:35:1241:49:1737:-131.326,0,-86.706 0/1:79:36,43:36:1284:43:1511:-112.5,0,-92.082 0/1:54:24,30:24:856:30:1071:-80.446,0,-61.1055 0/1:40:20,20:20:720:20:720:-53.0876,0,-53.0876 0/1:114:59,55:59:2099:55:1955:-141.908,0,-154.862 0/1:112:79,33:79:2827:33:1163:-71.2608,0,-220.953 0/0:74:74,0:74:2625:0:0:0,-22.2762,-236.497 0/0:123:123,0:123:4373:0:0:0,-37.0267,-393.745 chr04 1185817 . TG CG,CA 27437.8 PASS AB=0.612447,0.387553;ABP=80.6581,80.6581;AC=28,14;AF=0.666667,0.333333;AN=42;AO=976,333;CIGAR=1X1M,2X;DP=1312;DPB=1312;DPRA=1.10088,0.952932;EPP=2079.16,726.111;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.85,2.125;MQM=59.9273,49.6426;MQMR=0;NS=21;NUMALT=2;ODDS=9.62018;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34472,11736;QR=0;RO=0;RPL=5,0;RPP=2079.16,726.111;RPPR=0;RPR=971,333;RUN=1,1;SAF=976,333;SAP=2122.37,726.111;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,84,1:0:0:84,1:2940,36:-264.476,-25.2865,0,-261.549,-22.3603,-261.248 1/1:60:0,60,0:0:0:60,0:2130,0:-191.968,-18.0618,0,-191.968,-18.0618,-191.968 1/2:72:0,43,29:0:0:43,29:1531,1005:-205.457,-80.6659,-67.7216,-125.138,0,-116.408 1/1:127:0,127,0:0:0:127,0:4503,0:-405.44,-38.2308,0,-405.44,-38.2308,-405.44 1/2:128:0,66,62:0:0:66,62:2331,2176:-366.165,-176.334,-156.466,-190.181,0,-171.518 1/1:44:0,44,0:0:0:44,0:1572,0:-141.772,-13.2453,0,-141.772,-13.2453,-141.772 1/1:102:0,101,1:0:0:101,1:3559,36:-320.15,-30.404,0,-317.241,-27.1382,-316.94 2/2:57:0,0,56:0:0:0,56:0,1962:-175.35,-175.35,-175.35,-16.8577,-16.8577,0 1/2:37:0,20,17:0:0:20,17:707,604:-107.081,-49.5009,-43.4803,-57.934,0,-52.8165 1/2:14:0,4,10:0:0:4,10:135,354:-39.9684,-29.0315,-27.8274,-11.2784,0,-8.26809 1/1:6:0,6,0:0:0:6,0:208,0:-19.0591,-1.80618,0,-19.0591,-1.80618,-19.0591 1/2:27:0,16,11:0:0:16,11:576,388:-78.7431,-31.7471,-26.9306,-47.3503,0,-44.039 1/2:50:0,31,19:0:0:31,19:1112,651:-143.106,-52.3924,-43.0605,-91.0594,0,-85.3398 1/2:81:0,51,30:0:0:51,30:1802,1073:-233.04,-86.2852,-70.9326,-147.107,0,-138.076 1/2:65:0,41,24:0:0:41,24:1434,849:-184.816,-68.1524,-55.8101,-117.012,0,-109.787 1/2:36:0,27,9:0:0:27,9:955,315:-103.007,-25.2138,-17.086,-78.137,0,-75.4278 1/2:79:0,61,18:0:0:61,18:2120,646:-225.289,-52.9713,-34.6085,-172.673,0,-167.255 1/2:74:0,42,32:0:0:42,32:1496,1143:-214.394,-92.4568,-79.8135,-122.291,0,-112.658 1/2:44:0,31,13:0:0:31,13:1094,462:-126.914,-37.8302,-28.4983,-89.4369,0,-85.5235 1/1:87:0,87,0:0:0:87,0:3059,0:-275.537,-26.1896,0,-275.537,-26.1896,-275.537 1/1:36:0,34,1:0:0:34,1:1208,36:-108.742,-10.235,0,-105.804,-7.21769,-105.503 chr04 1185823 . T A 5297.17 PASS AB=0.388571;ABP=78.5031;AC=14;AF=0.333333;AN=42;AO=332;CIGAR=1X;DP=1310;DPB=1310;DPRA=1.03956;EPP=689.614;EPPR=1946.06;GTI=0;LEN=1;MEANALT=1.06667;MQM=49.6988;MQMR=59.9099;NS=21;NUMALT=1;ODDS=20.9082;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11855;QR=34991;RO=977;RPL=4;RPP=689.614;RPPR=1946.06;RPR=328;RUN=1;SAF=332;SAP=723.939;SAR=0;SRF=977;SRP=2124.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:85:84,1:84:3016:1:36:0,-22.0011,-268.082 0/0:60:60,0:60:2133:0:0:0,-18.0618,-192.236 0/1:72:43,28:43:1540:28:1000:-66.2931,0,-117.161 0/0:131:131,0:131:4689:0:0:0,-39.4349,-422.159 0/1:128:67,61:67:2393:61:2150:-153.975,0,-177.091 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/0:103:102,1:102:3660:1:36:0,-27.4393,-326.02 1/1:58:0,58:0:0:58:2072:-185.536,-17.4597,0 0/1:38:20,18:20:720:18:648:-47.126,0,-53.6896 0/1:14:4,10:4:144:10:356:-27.9999,0,-9.0992 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:27:16,11:16:576:11:392:-27.2962,0,-44.039 0/1:49:30,19:30:1072:19:684:-46.2825,0,-82.042 0/1:80:50,30:50:1785:30:1065:-70.4345,0,-136.848 0/1:65:42,23:42:1512:23:828:-54.852,0,-116.808 0/1:33:24,9:24:864:9:324:-18.6453,0,-68.1486 0/1:78:60,18:60:2141:18:644:-34.7299,0,-169.366 0/1:74:42,32:42:1512:32:1152:-80.5955,0,-114.098 0/1:42:29,13:29:1044:13:468:-29.6315,0,-81.6315 0/0:86:86,0:86:3062:0:0:0,-25.8886,-275.806 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.478 chr04 1186705 . T G 2411.32 PASS AB=0.3;ABP=173.254;AC=14;AF=0.333333;AN=42;AO=183;CIGAR=1X;DP=948;DPB=948;DPRA=0.925874;EPP=400.39;EPPR=1664.19;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.12987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6544;QR=27241;RO=765;RPL=0;RPP=400.39;RPPR=1664.19;RPR=183;RUN=1;SAF=0;SAP=400.39;SAR=183;SRF=0;SRP=1664.19;SRR=765;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2639:0:0:0,-22.2762,-237.757 0/0:77:77,0:77:2742:0:0:0,-23.1793,-247.022 0/1:51:41,10:41:1460:10:360:-17.3918,0,-116.343 0/0:49:49,0:49:1744:0:0:0,-14.7505,-157.244 0/1:91:66,25:66:2352:25:892:-53.206,0,-184.546 0/0:64:64,0:64:2283:0:0:0,-19.2659,-205.731 0/0:106:105,1:105:3734:1:36:0,-28.3109,-332.663 1/1:34:0,34:0:0:34:1212:-109.386,-10.235,0 0/1:68:48,20:48:1711:20:716:-44.2977,0,-133.805 0/1:8:6,2:6:212:2:72:-4.42848,0,-17.0166 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:22:15,7:15:540:7:252:-16.4063,0,-42.3139 0/1:25:16,9:16:576:9:320:-21.6166,0,-44.6492 0/1:55:28,27:28:991:27:964:-70.5202,0,-72.9469 0/1:48:35,13:35:1252:13:464:-27.6481,0,-98.5356 0/1:40:25,15:25:896:15:540:-36.8953,0,-68.9192 0/1:44:33,11:33:1172:11:392:-22.3747,0,-92.5422 0/1:22:16,6:16:572:6:216:-13.1679,0,-45.1908 0/1:16:14,2:14:504:2:72:-2.02024,0,-40.8816 0/0:32:31,1:31:1085:1:36:0,-6.03468,-94.3587 0/0:14:14,0:14:488:0:0:0,-4.21442,-44.2504 chr04 1186712 . TCATT ACATT,ACATC 19864.6 PASS AB=0.695918,0.3;ABP=166.376,173.254;AC=28,14;AF=0.666667,0.333333;AN=42;AO=764,183;CIGAR=1X4M,1X3M1X;DP=950;DPB=950;DPRA=1.34706,0.938028;EPP=1662.02,400.39;EPPR=7.35324;GTI=2;LEN=1,5;MEANALT=1.75,2;MQM=60,60;MQMR=60;NS=21;NUMALT=2;ODDS=7.16266;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27182,6454;QR=60;RO=2;RPL=0,0;RPP=1662.02,400.39;RPPR=7.35324;RPR=764,183;RUN=1,1;SAF=0,0;SAP=1662.02,400.39;SAR=764,183;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74,0:0:0:74,0:2628,0:-236.766,-22.2762,0,-236.766,-22.2762,-236.766 1/1:76:1,75,0:1:35:75,0:2675,0:-237.497,-19.3797,0,-237.798,-22.5773,-240.645 1/2:51:0,41,10:0:0:41,10:1436,353:-145.937,-29.0989,-16.7567,-117.191,0,-114.181 1/1:49:0,49,0:0:0:49,0:1725,0:-155.533,-14.7505,0,-155.533,-14.7505,-155.533 1/2:91:0,65,25:0:0:65,25:2319,886:-261.359,-72.3076,-52.7407,-189.181,0,-181.655 1/1:64:0,64,0:0:0:64,0:2296,0:-206.901,-19.2659,0,-206.901,-19.2659,-206.901 1/1:109:0,108,1:0:0:108,1:3844,36:-345.799,-32.5112,0,-342.861,-29.214,-342.56 2/2:34:0,0,34:0:0:0,34:0,1183:-106.774,-106.774,-106.774,-10.235,-10.235,0 1/2:69:0,49,20:0:0:49,20:1745,711:-200.523,-58.2963,-43.5458,-142.582,0,-136.561 1/2:8:0,6,2:0:0:6,2:212,72:-23.4951,-6.23466,-4.42848,-17.6186,0,-17.0166 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:22:0,15,7:0:0:15,7:531,251:-64.0801,-20.8306,-16.3152,-43.6065,0,-41.4992 1/2:25:0,16,9:0:0:16,9:563,317:-71.9911,-26.1603,-21.3438,-46.1827,0,-43.4734 1/2:55:0,28,27:0:0:28,27:1000,940:-158.319,-76.7851,-68.3562,-81.8865,0,-73.7587 1/2:48:0,35,13:0:0:35,13:1260,467:-141.266,-38.4558,-27.9198,-103.169,0,-99.256 1/2:41:0,26,15:0:0:26,15:924,522:-118.094,-42.7934,-34.9666,-75.6509,0,-71.1354 1/2:44:1,32,11:1:25:32,11:1129,393:-121.827,-30.2006,-22.5076,-90.0845,0,-88.719 1/2:21:0,15,6:0:0:15,6:531,216:-61.2327,-17.9843,-13.4689,-43.6065,0,-41.8003 1/2:15:0,13,2:0:0:13,2:464,71:-43.969,-6.14,-2.22661,-38.1841,0,-37.5821 1/1:33:0,32,1:0:0:32,1:1148,36:-103.27,-9.63296,0,-100.333,-6.33572,-100.032 1/1:13:0,13,0:0:0:13,0:464,0:-42.0975,-3.91339,0,-42.0975,-3.91339,-42.0975 chr04 1195106 . A G 16098.2 PASS AB=0.472333;ABP=14.6654;AC=14;AF=0.333333;AN=42;AO=949;CIGAR=1X;DP=2686;DPB=2686;DPRA=1.65325;EPP=2063.74;EPPR=3746.67;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=12.1087;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33800;QR=62078;RO=1736;RPL=0;RPP=2063.74;RPPR=3746.67;RPR=949;RUN=1;SAF=0;SAP=2063.74;SAR=949;SRF=0;SRP=3772.69;SRR=1736;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:102,1:102:3648:1:36:0,-27.4078,-324.926 0/0:80:80,0:80:2863:0:0:0,-24.0824,-257.907 0/1:143:76,67:76:2704:67:2404:-173.569,0,-200.555 0/0:158:158,0:158:5657:0:0:0,-47.5627,-509.248 0/1:343:156,187:156:5561:187:6638:-494.247,0,-397.361 0/0:95:95,0:95:3403:0:0:0,-28.5978,-306.484 0/0:198:194,4:194:6948:4:140:0,-46.6594,-612.438 1/1:110:0,110:0:0:110:3875:-348.944,-33.1133,0 0/1:241:118,123:118:4224:123:4395:-323.175,0,-307.792 0/1:23:11,12:11:392:12:421:-31.2998,0,-28.6964 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/1:34:20,14:20:720:14:500:-35.1012,0,-54.8938 0/1:145:83,62:83:2979:62:2224:-156.775,0,-224.692 0/1:133:69,64:69:2472:64:2279:-165.335,0,-182.697 0/1:151:90,60:90:3218:60:2147:-147.983,0,-244.327 0/1:91:54,37:54:1936:37:1307:-90.537,0,-147.123 0/1:110:55,55:55:1980:55:1965:-144.01,0,-145.361 0/1:273:149,124:149:5300:124:4452:-318.668,0,-394.955 0/1:66:43,23:43:1530:23:801:-52.5382,0,-118.124 0/0:95:89,6:89:3180:6:216:0,-8.80734,-266.634 0/0:79:79,0:79:2827:0:0:0,-23.7814,-254.668 chr04 1195793 . ACC GCC,GCT 61028.8 PASS AB=0.482794,0.510628;ABP=8.09172,4.9488;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1785,1132;CIGAR=1X2M,1X1M1X;DP=2933;DPB=2933;DPRA=1.17208,2.51841;EPP=3801.31,2435.13;EPPR=11.6962;GTI=0;LEN=1,3;MEANALT=2.2,2.6;MQM=59.9894,59.924;MQMR=60;NS=21;NUMALT=2;ODDS=4.72349;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63576,39831;QR=135;RO=4;RPL=1776,1129;RPP=3801.31,2435.13;RPPR=11.6962;RPR=9,3;RUN=1,1;SAF=0,0;SAP=3879.09,2461.12;SAR=1785,1132;SRF=0;SRP=11.6962;SRR=4;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117,0:0:0:117,0:4187,0:-377.011,-35.2205,0,-377.011,-35.2205,-377.011 1/2:31:0,28,3:0:0:28,3:1000,108:-90.6991,-9.17208,-0.74324,-81.8865,0,-80.9834 1/2:76:0,33,42:0:0:33,42:1171,1473:-215.348,-119.938,-110.004,-95.4805,0,-82.8373 1/1:48:0,48,0:0:0:48,0:1712,0:-154.363,-14.4494,0,-154.363,-14.4494,-154.363 1/2:59:0,26,32:0:0:26,32:928,1135:-168.2,-92.5435,-84.7167,-75.7287,0,-66.0957 1/1:50:0,50,0:0:0:50,0:1765,0:-159.131,-15.0515,0,-159.131,-15.0515,-159.131 1/1:111:1,110,0:1:36:110,0:3943,0:-351.462,-29.8161,0,-351.763,-33.1133,-354.701 2/2:120:0,0,120:0:0:0,120:0,4220:-379.983,-379.983,-379.983,-36.1236,-36.1236,0 1/2:105:0,50,55:0:0:50,55:1787,1952:-305.08,-159.375,-144.324,-146.06,0,-129.504 1/2:463:2,253,203:2:63:253,203:8990,7135:-1307.7,-575.731,-504.637,-727.542,0,-671.499 1/1:435:1,430,3:1:36:430,3:15322,103:-1375.11,-126.503,0,-1367.05,-121.09,-1369.08 1/2:372:0,169,200:0:0:169,200:6030,7070:-1067.4,-575.831,-524.957,-491.598,0,-431.392 1/2:88:0,42,46:0:0:42,46:1495,1596:-251.904,-130.055,-117.412,-122.201,0,-108.353 1/2:64:0,31,33:0:0:31,33:1108,1148:-184.037,-93.6904,-84.3585,-90.6991,0,-80.7651 1/2:75:0,31,44:0:0:31,44:1112,1573:-219.317,-128.616,-119.284,-91.0594,0,-77.8141 1/2:41:0,11,30:0:0:11,30:380,1036:-115.39,-84.5145,-81.2031,-31.2206,0,-22.1897 1/2:75:0,40,34:0:0:40,34:1432,1164:-211.22,-94.4317,-82.3905,-116.874,0,-106.639 1/2:461:0,197,264:0:0:197,264:6989,9319:-1328.64,-759.219,-699.916,-569.771,0,-490.3 1/2:66:0,43,23:0:0:43,23:1517,799:-188.831,-65.3031,-52.3588,-123.877,0,-116.953 1/1:31:0,31,0:0:0:31,0:1105,0:-99.7596,-9.33193,0,-99.7596,-9.33193,-99.7596 1/1:45:0,45,0:0:0:45,0:1603,0:-144.559,-13.5464,0,-144.559,-13.5464,-144.559 chr04 1204306 . ATA GTA,GTG 68996.3 PASS AB=0.475083,0.521041;ABP=12.7495,9.95516;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2152,1161;CIGAR=1X2M,1X1M1X;DP=3323;DPB=3323.33;DPRA=0,1.03853;EPP=4676.02,2524.09;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.19048,2.53333;MQM=59.1794,58.7364;MQMR=0;NS=21;NUMALT=2;ODDS=6.40871;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=76336,40042;QR=0;RO=0;RPL=2152,1161;RPP=4676.02,2524.09;RPPR=0;RPR=0,0;RUN=1,1;SAF=2152,1161;SAP=4676.02,2524.09;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:394:0,392,0:0:0:392,0:13851,0:-1244.96,-118.004,0,-1244.96,-118.004,-1244.96 1/1:145:0,145,0:0:0:145,0:5158,0:-463.995,-43.6494,0,-463.995,-43.6494,-463.995 1/2:170:0,80,90:0:0:80,90:2855,3128:-487.033,-254.344,-230.261,-233.041,0,-205.949 1/1:219:0,217,1:0:0:217,1:7679,34:-690.154,-65.3235,0,-687.396,-62.5202,-687.095 1/2:267:0,132,134:0:0:132,134:4708,4604:-756.639,-373.21,-333.474,-383.57,0,-343.232 1/1:92:0,92,0:0:0:92,0:3245,0:-292.261,-27.6948,0,-292.261,-27.6948,-292.261 1/1:222:0,222,0:0:0:222,0:7919,0:-712.63,-66.8287,0,-712.63,-66.8287,-712.63 2/2:219:0,1,218:0:0:1,218:36,7504:-674.429,-671.492,-671.191,-65.6245,-62.3273,0 1/2:230:0,93,135:0:0:93,135:3307,4591:-640.708,-371.255,-343.259,-269.554,0,-228.915 1/2:14:0,6,8:0:0:6,8:216,278:-40.5702,-22.9403,-21.1341,-17.9843,0,-15.5761 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:29:0,17,12:0:0:17,12:612,429:-85.2169,-35.3085,-30.191,-50.2665,0,-46.6542 1/2:104:0,59,45:0:0:59,45:2100,1602:-301.885,-130.893,-113.132,-171.348,0,-157.802 1/2:201:0,83,116:0:0:83,116:2946,4020:-566.165,-326.215,-301.229,-239.982,0,-205.063 1/2:353:0,154,197:0:0:154,197:5472,6833:-1000.67,-555.008,-508.649,-445.698,0,-386.395 1/2:146:0,79,67:0:0:79,67:2799,2317:-416.36,-188.612,-164.831,-228.098,0,-207.929 1/2:119:0,48,71:0:0:48,71:1692,2400:-332.574,-194.811,-180.361,-138.11,0,-116.736 1/2:99:0,55,44:0:0:55,44:1938,1488:-278.512,-120.758,-104.202,-158.039,0,-144.794 1/2:74:0,52,22:0:0:52,22:1826,778:-211.966,-63.7199,-48.0664,-148.599,0,-141.976 1/1:155:0,154,1:0:0:154,1:5456,36:-490.066,-46.3586,0,-487.128,-43.0614,-486.827 1/1:64:0,64,0:0:0:64,0:2269,0:-204.454,-19.2659,0,-204.454,-19.2659,-204.454 chr04 1204313 . C G 45277.9 PASS AB=0.507412;ABP=3.8472;AC=28;AF=0.666667;AN=42;AO=2214;CIGAR=1X;DP=3273;DPB=3273;DPRA=0.820479;EPP=4810.65;EPPR=2291.74;GTI=0;LEN=1;MEANALT=1.15;MQM=59.0407;MQMR=58.8691;NS=21;NUMALT=1;ODDS=16.0821;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78765;QR=36963;RO=1054;RPL=2214;RPP=4810.65;RPPR=2291.74;RPR=0;RUN=1;SAF=2214;SAP=4810.65;SAR=0;SRF=1054;SRP=2291.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:394:0,391:0:0:391:13926:-1251.37,-117.703,0 1/1:150:0,150:0:0:150:5338:-480.408,-45.1545,0 0/1:162:82,80:82:2908:80:2859:-208.715,0,-212.9 1/1:225:1,223:1:36:223:7912:-708.117,-64.1271,0 0/1:264:126,138:126:4416:138:4889:-360.572,0,-316.755 1/1:97:0,97:0:0:97:3461:-311.501,-29.1999,0 1/1:235:0,235:0:0:235:8371:-753.101,-70.7421,0 0/0:188:188,0:188:6648:0:0:0,-56.5936,-596.981 0/1:223:124,99:124:4322:99:3539:-250.315,0,-320.838 0/1:12:6,6:6:203:6:216:-16.1782,0,-14.9888 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:28:12,16:12:428:16:576:-43.7167,0,-30.4014 0/1:96:40,56:40:1419:56:1990:-150.347,0,-99.0784 0/1:193:106,87:106:3703:87:3101:-221.128,0,-274.499 0/1:343:181,162:181:6339:162:5784:-416.906,0,-466.241 0/1:153:63,90:63:2220:90:3209:-242.643,0,-154.001 0/1:111:61,50:61:2159:50:1766:-125.803,0,-160.998 0/1:99:43,56:43:1450:56:1988:-149.34,0,-100.789 0/1:70:20,50:20:676:50:1762:-137.305,0,-40.0538 1/1:156:1,155:1:36:155:5478:-488.675,-43.3624,0 1/1:67:0,66:0:0:66:2348:-211.169,-19.868,0 chr04 1204372 . C T 14992.2 PASS AB=0.485946;ABP=5.75685;AC=14;AF=0.333333;AN=42;AO=869;CIGAR=1X;DP=2648;DPB=2648;DPRA=1.11858;EPP=1890.02;EPPR=3863.89;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9264;MQMR=59.9927;NS=21;NUMALT=1;ODDS=16.54;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30999;QR=63490;RO=1778;RPL=869;RPP=1890.02;RPPR=3863.89;RPR=0;RUN=1;SAF=0;SAP=1890.02;SAR=869;SRF=0;SRP=3863.89;SRR=1778;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:139:138,1:138:4956:1:36:0,-38.2449,-442.589 0/0:92:92,0:92:3312:0:0:0,-27.6948,-298.297 0/1:110:65,45:65:2302:45:1582:-109.553,0,-174.325 0/0:155:155,0:155:5528:0:0:0,-46.6596,-497.644 0/1:288:148,140:148:5251:140:4989:-362.145,0,-386.03 0/0:107:107,0:107:3825:0:0:0,-32.2102,-344.445 0/0:177:177,0:177:6281:0:0:0,-53.2823,-565.381 1/1:90:0,90:0:0:90:3232:-291.079,-27.0927,0 0/1:265:123,142:123:4397:142:5046:-374.513,0,-316.115 0/1:14:9,5:9:320:5:180:-12.3376,0,-24.9279 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:42:19,23:19:684:23:824:-61.8401,0,-49.2471 0/1:113:58,55:58:2054:55:1953:-142.027,0,-151.111 0/1:136:81,55:81:2900:55:1967:-136.365,0,-220.296 0/1:218:99,119:99:3552:119:4249:-316.962,0,-254.263 0/1:121:59,62:59:2108:62:2213:-163.008,0,-153.565 0/1:105:55,50:55:1949:50:1796:-130.311,0,-144.076 0/1:100:47,53:47:1676:53:1892:-140.455,0,-121.024 0/1:89:59,29:59:2111:29:1040:-67.0456,0,-163.408 0/0:179:179,0:179:6432:0:0:0,-53.8844,-578.964 0/0:90:90,0:90:3208:0:0:0,-27.0927,-288.941 chr04 1227871 . C T 7906.81 PASS AB=0.433705;ABP=33.8172;AC=13;AF=0.309524;AN=42;AO=454;CIGAR=1X;DP=1357;DPB=1357;DPRA=1.49873;EPP=980.192;EPPR=1927.09;GTI=0;LEN=1;MEANALT=1;MQM=59.9824;MQMR=60;NS=21;NUMALT=1;ODDS=0.0560025;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16228;QR=32187;RO=902;RPL=1;RPP=980.192;RPPR=1927.09;RPR=453;RUN=1;SAF=454;SAP=988.859;SAR=0;SRF=902;SRP=1961.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:50,0:50:1787:0:0:0,-15.0515,-161.112 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/1:77:40,37:40:1436:37:1313:-95.2904,0,-106.358 0/0:83:83,0:83:2938:0:0:0,-24.9855,-264.652 0/1:63:34,29:34:1202:29:1044:-75.3099,0,-89.5193 0/0:52:51,1:51:1796:1:36:0,-12.0553,-158.321 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.324 1/1:103:0,103:0:0:103:3691:-332.391,-31.0061,0 0/1:179:89,90:89:3167:90:3224:-236.497,0,-231.368 0/1:4:1,3:1:36:3:93:-7.47261,0,-2.39415 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:11:10,1:10:351:1:36:-0.286945,0,-28.6153 0/1:122:77,45:77:2763:45:1612:-108.644,0,-212.185 0/1:71:42,29:42:1499:29:1044:-72.9017,0,-113.831 0/1:117:61,56:61:2180:56:1987:-143.882,0,-161.246 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/0:18:18,0:18:640:0:0:0,-5.41854,-57.9293 0/1:74:48,26:48:1705:26:928:-61.5602,0,-131.458 0/1:78:48,30:48:1720:30:1076:-73.6725,0,-131.605 0/0:109:109,0:109:3912:0:0:0,-32.8123,-352.272 0/0:57:56,0:56:2003:0:0:0,-16.8577,-180.222 chr04 1253091 . 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G A 19513.3 PASS AB=0.557513;ABP=30.7354;AC=27;AF=0.642857;AN=42;AO=992;CIGAR=1X;DP=1497;DPB=1497;DPRA=1.00423;EPP=2157.11;EPPR=1090.94;GTI=0;LEN=1;MEANALT=1;MQM=59.9254;MQMR=60;NS=21;NUMALT=1;ODDS=9.08178;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35304;QR=17922;RO=505;RPL=0;RPP=2157.11;RPPR=1099.6;RPR=992;RUN=1;SAF=992;SAP=2157.11;SAR=0;SRF=504;SRP=1090.94;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:53,45:53:1896:45:1578:-112.789,0,-141.417 0/1:25:14,11:14:504:11:392:-28.0943,0,-38.1723 0/1:54:25,29:25:900:29:1025:-76.3051,0,-65.0654 1/1:58:1,57:1:36:57:2033:-179.642,-13.8615,0 0/1:154:58,96:58:2073:96:3422:-261.833,0,-140.48 1/1:65:0,65:0:0:65:2286:-205.974,-19.567,0 1/1:103:1,102:1:36:102:3664:-326.362,-27.4078,0 0/0:71:71,0:71:2488:0:0:0,-21.3731,-224.168 0/1:168:69,99:69:2476:99:3541:-268.324,0,-172.52 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:23:14,9:14:504:9:320:-21.2715,0,-38.7744 0/1:70:27,43:27:957:43:1529:-116.829,0,-65.3718 0/1:75:40,35:40:1338:35:1248:-90.0476,0,-98.1268 0/1:144:55,89:55:1980:89:3170:-242.173,0,-135.126 0/1:27:14,13:14:504:13:468:-34.3318,0,-37.5703 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 0/1:61:27,34:27:972:34:1209:-90.7513,0,-69.4351 0/1:59:26,33:26:898:33:1188:-89.4678,0,-63.369 1/1:151:4,147:4:144:147:5205:-455.272,-32.1419,0 1/1:44:1,43:1:36:43:1514:-132.951,-9.64705,0 chr04 1424966 . C T 6700.39 PASS AB=0.45582;ABP=15.0981;AC=14;AF=0.333333;AN=42;AO=396;CIGAR=1X;DP=1292;DPB=1292;DPRA=1.2;EPP=862.913;EPPR=1948.65;GTI=0;LEN=1;MEANALT=1;MQM=59.9848;MQMR=59.9955;NS=21;NUMALT=1;ODDS=2.78078;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14091;QR=32061;RO=896;RPL=0;RPP=862.913;RPPR=1948.65;RPR=396;RUN=1;SAF=396;SAP=862.913;SAR=0;SRF=896;SRP=1948.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:18,40:18:648:40:1407:-109.463,0,-41.1921 0/1:43:17,26:17:612:26:913:-69.5392,0,-42.4691 0/1:38:23,15:23:820:15:540:-37.4974,0,-62.6834 0/0:88:88,0:88:3152:0:0:0,-26.4906,-283.905 0/1:136:70,66:70:2504:66:2344:-170.276,0,-184.673 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.161 0/0:97:97,0:97:3468:0:0:0,-29.1999,-312.332 1/1:69:0,69:0:0:69:2446:-220.394,-20.7711,0 0/1:94:54,40:54:1936:40:1432:-100.881,0,-146.22 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:10:4,6:4:140:6:216:-16.7802,0,-9.93428 0/1:81:50,31:50:1796:31:1112:-76.0079,0,-137.539 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/1:58:30,28:30:1072:28:985:-71.5018,0,-79.3327 0/1:28:12,16:12:432:16:576:-43.7461,0,-30.7924 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:51:26,25:26:927:25:896:-65.6078,0,-68.3948 0/1:111:81,30:81:2881:30:1080:-64.0989,0,-226.109 0/0:130:128,2:128:4565:2:72:0,-32.2972,-404.179 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.759 chr04 1424972 . A G 17820.2 PASS AB=0.54096;ABP=13.3279;AC=28;AF=0.666667;AN=42;AO=879;CIGAR=1X;DP=1281;DPB=1281;DPRA=0.815541;EPP=1911.73;EPPR=875.942;GTI=0;LEN=1;MEANALT=1;MQM=59.9954;MQMR=59.9851;NS=21;NUMALT=1;ODDS=4.39707;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31282;QR=14361;RO=402;RPL=0;RPP=1911.73;RPPR=875.942;RPR=879;RUN=1;SAF=879;SAP=1911.73;SAR=0;SRF=402;SRP=875.942;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:43,19:43:1528:19:684:-43.2265,0,-119.147 0/1:43:26,17:26:928:17:612:-42.4691,0,-70.894 0/1:38:15,23:15:540:23:811:-61.8708,0,-37.4974 1/1:85:0,85:0:0:85:3040:-273.83,-25.5876,0 0/1:130:62,68:62:2217:68:2440:-180.721,0,-160.659 1/1:50:0,50:0:0:50:1784:-160.843,-15.0515,0 1/1:95:0,95:0:0:95:3375:-303.965,-28.5979,0 0/0:74:74,0:74:2628:0:0:0,-22.2762,-236.766 0/1:93:41,52:41:1476:52:1843:-138.154,0,-105.14 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:10:6,4:6:216:4:140:-9.93428,0,-16.7802 0/1:82:31,51:31:1108:51:1828:-140.116,0,-75.3465 1/1:68:0,68:0:0:68:2389:-215.265,-20.47,0 0/1:58:29,29:29:1036:29:1040:-76.4546,0,-76.0942 0/1:28:16,12:16:572:12:432:-30.7924,0,-43.3846 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 0/1:51:24,27:24:864:27:968:-72.0848,0,-62.73 0/1:109:30,79:30:1068:79:2771:-216.82,0,-63.6198 1/1:126:3,123:3:108:123:4377:-384.029,-27.8546,0 1/1:50:0,50:0:0:50:1788:-161.203,-15.0515,0 chr04 1438179 . C T 16924.4 PASS AB=0.4522;ABP=42.2451;AC=14;AF=0.333333;AN=42;AO=1007;CIGAR=1X;DP=3376;DPB=3376;DPRA=1.33594;EPP=2189.68;EPPR=5147.23;GTI=0;LEN=1;MEANALT=1;MQM=57.6018;MQMR=59.97;NS=21;NUMALT=1;ODDS=27.2482;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35986;QR=84761;RO=2369;RPL=0;RPP=2189.68;RPPR=5147.23;RPR=1007;RUN=1;SAF=0;SAP=2189.68;SAR=1007;SRF=0;SRP=5147.23;SRR=2369;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:44,92:44:1584:92:3292:-255.389,0,-101.911 0/1:140:92,48:92:3312:48:1720:-112.65,0,-256.13 0/1:155:86,69:86:3083:69:2480:-176.168,0,-231.035 0/0:215:214,1:214:7658:1:36:0,-61.1546,-685.582 0/1:406:265,141:265:9457:141:5018:-328.901,0,-728.872 0/0:203:203,0:203:7266:0:0:0,-61.1091,-653.986 0/0:261:259,2:259:9308:2:72:0,-71.7391,-830.851 1/1:108:0,108:0:0:108:3816:-342.542,-32.5112,0 0/1:250:125,125:125:4485:125:4466:-326.726,0,-328.559 0/1:46:20,26:20:720:26:926:-69.6404,0,-51.2814 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:73:41,32:41:1472:32:1132:-80.1686,0,-110.801 0/1:164:86,78:86:3069:78:2800:-202.606,0,-227.069 0/0:153:153,0:153:5451:0:0:0,-46.0576,-490.717 0/1:214:115,99:115:4123:99:3560:-255.62,0,-306.833 0/1:155:71,84:71:2529:84:3016:-224.754,0,-181.2 0/0:208:208,0:208:7421:0:0:0,-62.6142,-667.931 0/1:156:86,70:86:3059:70:2504:-178.345,0,-228.579 0/1:82:52,30:52:1856:30:1080:-72.7086,0,-142.635 0/0:175:173,2:173:6184:2:68:0,-46.2267,-550.205 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.377 chr04 1438184 . ATTA GCTA,GCTT 71823.5 PASS AB=0.54113,0.453915;ABP=32.662,40.2374;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2405,1034;CIGAR=2X2M,2X1M1X;DP=3452;DPB=3452;DPRA=1.46404,1.18167;EPP=5208.04,2248.31;EPPR=0;GTI=0;LEN=2,4;MEANALT=2.2,2.53333;MQM=59.9726,57.6596;MQMR=0;NS=21;NUMALT=2;ODDS=26.6256;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=85143,36187;QR=0;RO=0;RPL=2,0;RPP=5208.04,2248.31;RPPR=0;RPR=2403,1034;RUN=1,1;SAF=0,0;SAP=5225.4,2248.31;SAR=2405,1034;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:141:0,46,95:0:0:46,95:1634,3297:-401.421,-268.274,-254.427,-133.499,0,-104.901 1/2:141:0,93,48:0:0:93,48:3329,1713:-411.088,-139.636,-111.64,-271.809,0,-257.36 1/2:158:0,86,72:0:0:86,72:3088,2517:-456.395,-204.491,-178.603,-252.257,0,-230.583 1/1:218:0,217,0:0:0:217,0:7656,0:-688.722,-65.3235,0,-688.722,-65.3235,-688.722 1/2:413:0,267,145:0:0:267,145:9419,5084:-1180.43,-413.479,-333.104,-767.022,0,-723.373 1/1:207:0,207,0:0:0:207,0:7307,0:-657.613,-62.3132,0,-657.613,-62.3132,-657.613 1/1:270:0,268,2:0:0:268,2:9470,66:-851.913,-80.676,0,-846.582,-75.0146,-845.98 2/2:114:0,0,114:0:0:0,114:0,3954:-355.179,-355.179,-355.179,-34.3174,-34.3174,0 1/2:255:0,125,128:0:0:125,128:4459,4502:-729.836,-366.338,-328.71,-363.493,0,-324.961 1/2:45:0,20,24:0:0:20,24:705,845:-126.07,-68.6677,-62.6471,-57.4512,0,-50.2265 1/1:10:0,10,0:0:0:10,0:339,0:-30.8366,-3.0103,0,-30.8366,-3.0103,-30.8366 1/2:75:0,42,33:0:0:42,33:1486,1151:-214.957,-93.9191,-81.2759,-121.389,0,-111.455 1/2:168:0,87,81:0:0:87,81:3091,2792:-478.851,-226.972,-200.782,-252.229,0,-227.845 1/1:157:0,157,0:0:0:157,0:5483,0:-493.602,-47.2617,0,-493.602,-47.2617,-493.602 1/2:217:0,113,101:0:0:113,101:4036,3573:-619.571,-290.515,-256.499,-329.051,0,-298.647 1/2:161:0,73,87:0:0:73,87:2575,3066:-459.063,-249.392,-227.417,-209.663,0,-183.474 1/1:214:0,214,0:0:0:214,0:7570,0:-681.344,-64.4204,0,-681.344,-64.4204,-681.344 1/2:160:0,88,70:0:0:88,70:3144,2461:-456.354,-200.012,-173.522,-256.336,0,-235.264 1/2:84:0,52,32:0:0:52,32:1840,1111:-240.516,-90.6398,-74.9862,-150.226,0,-140.593 1/1:177:0,173,2:0:0:173,2:6141,55:-552.472,-52.0782,0,-548.127,-47.7742,-547.525 1/1:67:0,67,0:0:0:67,0:2371,0:-213.647,-20.169,0,-213.647,-20.169,-213.647 chr04 1440538 . A G 38024.4 PASS AB=0.521309;ABP=8.19275;AC=28;AF=0.666667;AN=42;AO=1573;CIGAR=1X;DP=2308;DPB=2308;DPRA=1.07039;EPP=3221.88;EPPR=1528.14;GTI=0;LEN=1;MEANALT=1.05;MQM=44.9313;MQMR=58.7316;NS=21;NUMALT=1;ODDS=15.6103;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56156;QR=26306;RO=734;RPL=732;RPP=19.4116;RPPR=8.73778;RPR=841;RUN=1;SAF=709;SAP=36.176;SAR=864;SRF=337;SRP=13.6606;SRR=397;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:37,37:37:1332:37:1320:-88.0044,0,-97.4905 0/1:150:82,68:82:2932:68:2423:-152.57,0,-218.764 0/1:60:27,33:27:972:33:1188:-77.6318,0,-69.7361 1/1:145:0,145:0:0:145:5182:-437.618,-43.6494,0 0/1:196:89,107:89:3192:107:3840:-266.726,0,-228.34 1/1:116:0,116:0:0:116:4160:-333.012,-34.9195,0 1/1:185:0,185:0:0:185:6584:-523.93,-55.6906,0 0/0:103:103,0:103:3688:0:0:0,-31.0061,-331.886 0/1:182:88,93:88:3164:93:3317:-231.588,0,-229.642 0/1:13:6,7:6:216:7:243:-17.7083,0,-15.8693 1/1:8:0,8:0:0:8:288:-24.9981,-2.40824,0 0/1:23:10,13:10:356:13:464:-31.175,0,-25.4498 0/1:105:54,51:54:1919:51:1824:-120.292,0,-141.207 1/1:119:0,119:0:0:119:4251:-355.423,-35.8226,0 0/1:136:59,77:59:2120:77:2772:-187.484,0,-150.072 0/1:104:46,58:46:1652:58:2084:-148.227,0,-117.616 1/1:96:0,96:0:0:96:3400:-290.649,-28.8989,0 0/1:144:83,61:83:2976:61:2168:-136.88,0,-224.492 0/1:127:47,80:47:1679:80:2854:-204.899,0,-113.121 1/1:118:2,116:2:72:116:4139:-334.038,-28.6848,0 1/1:104:1,103:1:36:103:3655:-294.608,-27.7206,0 chr04 1440543 . CATACTTC GATTCTTT,GATACTTT 58220.2 PASS AB=0.529412,0.464477;ABP=12.8458,17.3579;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1599,716;CIGAR=1X2M1X3M1X,1X6M1X;DP=2326;DPB=2326.12;DPRA=1.05762,0.950363;EPP=35.6367,21.4617;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.25,2.53333;MQM=44.9619,58.5992;MQMR=0;NS=21;NUMALT=2;ODDS=18.4909;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=56255,25352;QR=0;RO=0;RPL=1599,716;RPP=3475.19,1557.78;RPPR=0;RPR=0,0;RUN=1,1;SAF=722,319;SAP=35.6367,21.4617;SAR=877,397;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:72:0,36,35:0:0:36,35:1260,1237:-196.014,-100.782,-89.945,-95.3108,0,-84.7748 1/2:150:0,72,77:0:0:72,77:2523,2738:-408.189,-222.679,-201.005,-185.428,0,-162.249 1/2:61:0,34,27:0:0:34,27:1209,963:-166.193,-78.8581,-68.6231,-87.6751,0,-79.5473 1/1:149:0,149,0:0:0:149,0:5248,0:-445.219,-44.8535,0,-445.219,-44.8535,-445.219 1/2:197:0,109,86:0:0:109,86:3829,3063:-541.966,-249.428,-216.616,-292.583,0,-266.695 1/1:119:0,118,0:0:0:118,0:4128,0:-331.889,-35.5215,0,-331.889,-35.5215,-331.889 1/1:192:0,191,0:0:0:191,0:6696,0:-534.789,-57.4967,0,-534.789,-57.4967,-534.789 2/2:105:0,0,105:0:0:0,105:0,3716:-334.097,-334.097,-334.097,-31.6082,-31.6082,0 1/2:180:0,93,86:0:0:93,86:3280,3015:-500.719,-245.225,-217.229,-255.558,0,-229.669 1/2:13:0,7,6:0:0:7,6:248,212:-37.0017,-17.6117,-15.5045,-19.7376,0,-17.9314 1/1:9:0,9,0:0:0:9,0:314,0:-27.4001,-2.70927,0,-27.4001,-2.70927,-27.4001 1/2:23:0,13,10:0:0:13,10:466,347:-62.4507,-28.5455,-24.6321,-34.2418,0,-31.2315 1/2:108:0,52,55:0:0:52,55:1830,1937:-293.396,-157.565,-141.911,-135.849,0,-119.292 1/1:123:0,123,0:0:0:123,0:4295,0:-360.627,-37.0267,0,-360.627,-37.0267,-360.627 1/2:136:0,77,58:0:0:77,58:2724,2080:-371.262,-169.635,-146.456,-201.652,0,-184.192 1/2:103:0,59,44:0:0:59,44:2063,1534:-285.411,-125.092,-107.331,-160.662,0,-147.417 1/1:97:0,97,0:0:0:97,0:3387,0:-289.885,-29.1999,0,-289.885,-29.1999,-289.885 1/2:142:0,62,79:0:0:62,79:2195,2815:-392.581,-229.303,-210.639,-163.274,0,-139.493 1/2:124:0,79,45:0:0:79,45:2816,1587:-344.843,-129.526,-105.745,-215.663,0,-202.117 1/1:119:0,117,2:0:0:117,2:4141,72:-341.635,-35.2205,0,-335.76,-28.9858,-335.158 1/1:104:0,102,1:0:0:102,1:3603,36:-295.072,-30.7051,0,-292.145,-27.7129,-291.844 chr04 1461918 . A G 6231.23 PASS AB=0.496047;ABP=3.21629;AC=28;AF=0.666667;AN=42;AO=1308;CIGAR=1X;DP=2202;DPB=2202;DPRA=0.82381;EPP=2843.3;EPPR=1944.31;GTI=2;LEN=1;MEANALT=1;MQM=19.6414;MQMR=34.821;NS=21;NUMALT=1;ODDS=0.106419;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46628;QR=32046;RO=894;RPL=0;RPP=2843.3;RPPR=1944.31;RPR=1308;RUN=1;SAF=1308;SAP=2843.3;SAR=0;SRF=894;SRP=1944.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:79,89:79:2844:89:3192:-105.583,0,-183.484 0/1:109:54,55:54:1944:55:1965:-45.7049,0,-114.81 0/1:134:82,52:82:2944:52:1872:-60.0411,0,-199.718 1/1:57:0,57:0:0:57:2021:-103.351,-17.1587,0 0/1:207:106,101:106:3812:101:3620:-125.885,0,-249.442 1/1:94:2,92:2:57:92:3277:-132.004,-23.4313,0 1/1:118:0,118:0:0:118:4206:-172.67,-35.5215,0 0/0:126:126,0:126:4509:0:0:0,-37.9298,-353.37 0/1:169:101,68:101:3598:68:2399:-87.3034,0,-247.707 0/1:56:25,31:25:900:31:1097:-32.0144,0,-55.1826 1/1:24:0,24:0:0:24:841:-31.2183,-7.22472,0 0/1:49:24,25:24:864:25:900:-30.7577,0,-54.2339 0/1:47:28,19:28:1004:19:680:-23.2179,0,-67.5063 1/1:75:0,75:0:0:75:2647:-139.84,-22.5773,0 0/1:251:106,145:106:3797:145:5178:-198.455,0,-233.241 0/1:71:39,32:39:1389:32:1140:-44.621,0,-94.0223 1/1:66:1,65:1:36:65:2332:-122.818,-16.569,0 0/1:136:78,58:78:2804:58:2080:-58.9226,0,-182.237 0/1:121:43,78:43:1544:78:2800:-104.153,0,-89.2535 1/1:83:0,83:0:0:83:2920:-154.289,-24.9855,0 1/1:41:0,41:0:0:41:1461:-54.7974,-12.3422,0 chr04 1462017 . GTTTCCTTG GTTCCTTG 9441.55 PASS AB=0.436246;ABP=62.8168;AC=28;AF=0.666667;AN=42;AO=1697;CIGAR=1M1D7M;DP=2834;DPB=2644.56;DPRA=0.788462;EPP=3688;EPPR=2430.72;GTI=4;LEN=1;MEANALT=1.6;MQM=23.1161;MQMR=28.5948;NS=21;NUMALT=1;ODDS=4.7406;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38335;QR=39627;RO=1118;RPL=1697;RPP=3688;RPPR=2430.72;RPR=0;RUN=1;SAF=0;SAP=3688;SAR=1697;SRF=0;SRP=2430.72;SRR=1118;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:85,53:85:3005:53:1126:-46.0535,0,-171.733 0/1:170:99,71:99:3516:71:1823:-94.3594,0,-196.196 0/1:124:76,47:76:2691:47:1000:-40.575,0,-148.595 1/1:176:0,175:0:0:175:3729:-289.557,-52.6803,0 0/1:314:168,145:168:5943:145:3043:-140.849,0,-323.754 1/1:160:4,156:4:135:156:4079:-316.673,-38.279,0 1/1:189:0,186:0:0:186:4791:-382.127,-55.9916,0 0/0:169:169,0:169:6008:0:0:0,-50.8741,-426.119 0/1:200:116,82:116:4118:82:1772:-78.868,0,-231.572 0/1:6:3,3:3:108:3:63:-3.23578,0,-6.09285 1/1:6:0,6:0:0:6:151:-12.3558,-1.80618,0 0/1:42:18,24:18:639:24:519:-28.0572,0,-32.885 0/1:181:111,69:111:3938:69:1447:-57.4266,0,-219.066 1/1:138:0,138:0:0:138:2983:-232.935,-41.5421,0 0/1:189:106,83:106:3746:83:1754:-79.0587,0,-207.325 0/1:133:84,49:84:2972:49:1044:-41.1754,0,-171.378 1/1:130:0,128:0:0:128:2715:-210.42,-38.5318,0 0/1:98:44,54:44:1568:54:1141:-59.094,0,-81.7348 0/1:92:32,59:32:1132:59:1264:-70.8383,0,-52.111 1/1:99:1,98:1:36:98:2056:-156.001,-26.9809,0 1/1:73:2,71:2:72:71:1835:-141.335,-16.6958,0 chr04 1568061 . A G 16357.1 PASS AB=0.476913;ABP=10.0289;AC=14;AF=0.333333;AN=42;AO=910;CIGAR=1X;DP=2834;DPB=2834;DPRA=1.2819;EPP=1953.08;EPPR=4172.24;GTI=0;LEN=1;MEANALT=1;MQM=59.9934;MQMR=60;NS=21;NUMALT=1;ODDS=18.9362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32489;QR=68773;RO=1924;RPL=3;RPP=1953.08;RPPR=4172.24;RPR=907;RUN=1;SAF=910;SAP=1979.05;SAR=0;SRF=1924;SRP=4180.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:59,41:59:2097:41:1472:-102.673,0,-158.895 0/1:111:52,59:52:1856:59:2111:-156.844,0,-133.905 0/1:107:40,67:40:1421:67:2370:-181.347,0,-95.9752 0/0:202:201,1:201:7170:1:36:0,-57.2098,-641.758 0/1:232:130,102:130:4668:102:3648:-258.686,0,-350.441 0/0:124:124,0:124:4460:0:0:0,-37.3277,-401.568 0/0:169:169,0:169:6019:0:0:0,-50.8741,-541.813 1/1:185:0,185:0:0:185:6575:-591.83,-55.6906,0 0/1:171:79,92:79:2825:92:3291:-244.933,0,-203.011 0/1:15:7,8:7:248:8:288:-21.752,0,-18.1487 0/0:12:12,0:12:424:0:0:0,-3.61236,-38.4964 0/1:36:18,18:18:640:18:648:-47.8148,0,-47.0922 0/1:211:117,94:117:4196:94:3364:-239.459,0,-314.303 0/0:173:173,0:173:6169:0:0:0,-52.0782,-555.31 0/1:180:91,89:91:3242:89:3200:-234.037,0,-237.813 0/1:135:85,50:85:3040:50:1782:-120.024,0,-233.191 0/0:257:256,1:256:9153:1:36:0,-73.7664,-820.142 0/1:125:57,68:57:2032:68:2425:-180.876,0,-145.524 0/1:93:58,35:58:2084:35:1243:-84.1781,0,-159.834 0/0:127:127,0:127:4549:0:0:0,-38.2308,-409.574 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.453 chr04 1619784 . G A 10098.8 PASS AB=0.50542;ABP=3.19861;AC=15;AF=0.357143;AN=42;AO=434;CIGAR=1X;DP=1168;DPB=1168;DPRA=1.04644;EPP=945.429;EPPR=1594.7;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.818;MQMR=59.9945;NS=21;NUMALT=1;ODDS=4.93908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15488;QR=25717;RO=733;RPL=247;RPP=21.0225;RPPR=6.6393;RPR=187;RUN=1;SAF=247;SAP=21.0225;SAR=187;SRF=349;SRP=6.6393;SRR=384;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:44,19:44:1529:19:671:-41.7508,0,-118.932 0/1:26:14,12:14:495:12:432:-31.3944,0,-37.0563 0/1:26:12,14:12:419:14:500:-37.5094,0,-30.2159 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 0/1:73:18,55:18:644:55:1955:-154.245,0,-36.3154 0/0:47:46,1:46:1548:1:36:0,-10.5501,-136.003 0/0:61:61,0:61:2170:0:0:0,-18.3628,-195.563 1/1:60:0,60:0:0:60:2133:-192.236,-18.0618,0 0/1:79:26,53:26:928:53:1896:-147.137,0,-60.0569 0/1:6:2,4:2:68:4:144:-11.5074,0,-4.65153 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:13:5,8:5:176:8:288:-22.354,0,-12.2716 0/1:61:24,37:24:847:37:1324:-101.099,0,-58.1859 0/0:58:58,0:58:2031:0:0:0,-17.4597,-183.06 0/1:91:36,55:36:1261:55:1969:-150.045,0,-86.3967 0/1:24:13,11:13:468:11:383:-27.5782,0,-35.2349 0/0:31:31,0:31:1080:0:0:0,-9.33193,-97.5058 0/1:132:68,63:68:2386:63:2249:-162.868,0,-175.201 0/1:140:99,41:99:3497:41:1472:-90.6192,0,-272.799 0/0:33:33,0:33:1162:0:0:0,-9.93399,-104.885 0/0:94:94,0:94:3256:0:0:0,-28.2968,-293.259 chr04 1742717 . CAA TAA,TAG 153245 PASS AB=0.425867,0.570937;ABP=197.15,180.769;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3318,2618;CIGAR=1X2M,1X1M1X;DP=5952;DPB=5953;DPRA=0.979758,2.32498;EPP=7199.27,5687.93;EPPR=9.52472;GTI=1;LEN=1,3;MEANALT=2.3,2.52941;MQM=59.4575,59.6986;MQMR=60;NS=21;NUMALT=2;ODDS=3.50074;PAIRED=0,0;PAIREDR=0;PAO=1,1.5;PQA=18,54;PQR=0;PRO=0.5;QA=116678,91274;QR=104;RO=3;RPL=1207,845;RPP=537.839,717.31;RPPR=3.73412;RPR=2111,1773;RUN=1,1;SAF=1206,845;SAP=540.208,717.31;SAR=2112,1773;SRF=2;SRP=3.73412;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:284:0,141,143:0:0:141,143:5017,4968:-812.829,-404.228,-361.782,-408.953,0,-365.906 1/2:170:0,77,93:0:0:77,93:2724,3260:-487.203,-265.608,-242.429,-221.946,0,-193.95 1/2:153:0,47,106:0:0:47,106:1668,3669:-434.354,-298.449,-284.301,-136.257,0,-104.347 1/1:180:0,180,0:0:0:180,0:6355,0:-572.04,-54.1854,0,-572.04,-54.1854,-572.04 1/2:339:0,132,207:0:0:132,207:4644,7243:-967.479,-589.54,-549.804,-378.231,0,-315.918 1/1:130:0,128,2:0:0:128,2:4560,72:-410.206,-38.5318,0,-404.331,-32.2972,-403.729 1/1:237:2,234,1:2:70:234,1:8242,36:-734.678,-64.7523,0,-732.342,-67.5003,-737.737 2/2:289:0,0,289:0:0:0,289:0,10033:-902.878,-902.878,-902.878,-86.9977,-86.9977,0 1/2:395:0,165,227:0:0:165,227:5868,7906:-1121.11,-642.903,-593.233,-478.212,0,-409.878 1/2:575:0,215,359:0:0:215,359:7462,12493:-1621.48,-1015.47,-950.752,-606.111,0,-498.041 1/1:489:0,488,1:0:0:488,1:17035,36:-1531.83,-146.903,0,-1528.89,-143.605,-1528.59 1/2:944:0,357,585:0:0:357,585:12571,20438:-2685.25,-1662.4,-1554.93,-1022.86,0,-846.753 1/2:190:0,69,121:0:0:69,121:2457,4199:-541.93,-341.671,-320.9,-200.612,0,-164.187 1/1:147:0,147,0:0:0:147,0:5188,0:-466.8,-44.2514,0,-466.8,-44.2514,-466.8 1/2:402:0,140,259:0:0:140,259:4955,9027:-1137.64,-734.09,-691.946,-403.604,0,-325.638 1/2:185:0,81,101:0:0:81,101:2880,3562:-524.54,-290.036,-265.652,-234.508,0,-204.104 1/1:144:0,144,0:0:0:144,0:5102,0:-459.209,-43.3483,0,-459.209,-43.3483,-459.209 1/2:327:0,239,88:0:0:239,88:8171,3087:-914.036,-251.532,-179.586,-662.852,0,-636.362 1/2:103:0,69,33:0:0:69,33:2407,1141:-288.382,-92.6668,-71.8958,-195.702,0,-185.768 1/1:193:1,189,3:1:34:189,3:6706,104:-599.914,-54.1383,0,-591.762,-48.4365,-593.616 1/1:76:0,76,0:0:0:76,0:2666,0:-240.175,-22.8783,0,-240.175,-22.8783,-240.175 chr04 1742755 . T G 46023.7 PASS AB=0.463935;ABP=36.3721;AC=28;AF=0.666667;AN=42;AO=2403;CIGAR=1X;DP=4180;DPB=4180;DPRA=1.05;EPP=5221.06;EPPR=3859.55;GTI=1;LEN=1;MEANALT=1.05;MQM=59.0058;MQMR=59.5614;NS=21;NUMALT=1;ODDS=5.41574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85909;QR=63604;RO=1776;RPL=2403;RPP=5221.06;RPPR=3859.55;RPR=0;RUN=1;SAF=0;SAP=5221.06;SAR=2403;SRF=0;SRP=3859.55;SRR=1776;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:54,61:54:1940:61:2192:-162.914,0,-140.248 0/1:90:41,49:41:1472:49:1751:-130.765,0,-105.675 0/1:79:56,23:56:2012:23:828:-51.0604,0,-156.94 1/1:47:0,47:0:0:47:1692:-152.555,-14.1484,0 0/1:135:85,50:85:3037:50:1786:-120.36,0,-232.868 1/1:37:0,37:0:0:37:1332:-120.174,-11.1381,0 1/1:127:1,126:1:36:126:4514:-401.454,-34.6325,0 0/0:190:190,0:190:6816:0:0:0,-57.1957,-613.188 0/1:164:89,75:89:3192:75:2676:-191.71,0,-238.123 0/1:597:357,240:357:12780:240:8573:-589.994,0,-969.431 1/1:542:1,541:1:36:541:19347:-1733.14,-159.56,0 0/1:984:577,407:577:20631:407:14531:-1010.01,0,-1559.73 0/1:66:45,21:45:1616:21:752:-48.1359,0,-125.86 1/1:70:0,70:0:0:70:2508:-225.625,-21.0721,0 0/1:251:156,95:156:5584:95:3392:-229.902,0,-427.019 0/1:102:51,51:51:1832:51:1820:-132.814,0,-134.451 1/1:84:0,83:0:0:83:2951:-263.967,-24.9855,0 0/1:322:56,266:56:2008:266:9512:-756.484,0,-84.0163 0/1:48:16,32:16:576:32:1135:-87.9506,0,-37.6947 1/1:105:1,104:1:36:104:3721:-330.902,-28.0099,0 1/1:25:0,25:0:0:25:896:-80.9358,-7.52575,0 chr04 1750934 . GAGG AAGA,GAGA 11335.1 PASS AB=0.384958,0.426038;ABP=235.334,104.834;AC=22,19;AF=0.52381,0.452381;AN=42;AO=916,913;CIGAR=1X2M1X,3M1X;DP=2303;DPB=2303;DPRA=0,1.40987;EPP=1992.08,1985.56;EPPR=980.173;GTI=4;LEN=4,1;MEANALT=2.7,2.63158;MQM=21.9913,21.9222;MQMR=13.7311;NS=21;NUMALT=2;ODDS=0.691341;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32014,32617;QR=15700;RO=450;RPL=916,913;RPP=1992.08,1985.56;RPPR=621.465;RPR=0,0;RUN=1,1;SAF=916,913;SAP=1992.08,1985.56;SAR=0,0;SRF=404;SRP=621.465;SRR=46;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:118:1,59,54:1:36:59,54:2067,1940:-185.428,-87.8479,-71.0425,-96.9656,0,-81.6654 1/2:78:2,47,29:2:71:47,29:1660,1032:-124.937,-46.8304,-34.0504,-77.4419,0,-70.0829 1/2:94:28,27,39:28:982:27,39:927,1400:-75.3128,-39.1898,-56.7,-18.9613,0,-32.8522 1/2:164:59,40,65:59:2054:40,65:1401,2320:-98.6934,-50.3238,-94.9955,-9.45783,0,-46.5941 1/2:364:128,148,87:128:4463:148,87:5204,3124:-227.832,-21.2871,-99.5757,-122.267,0,-218.928 1/2:135:50,51,34:50:1743:51,34:1796,1224:-78.6318,-9.07778,-40.7234,-37.6397,0,-74.4101 1/2:174:1,72,97:1:36:72,97:2475,3445:-276.903,-159.111,-139.101,-116.421,0,-88.8851 0/2:122:45,0,76:45:1579:0,76:0,2697:-112.272,-125.818,-168.991,0,-43.0954,-20.2172 1/2:121:2,58,61:2:61:58,61:2019,2192:-195.375,-100.403,-84.1257,-94.506,0,-77.3254 1/2:12:0,7,5:0:0:7,5:244,180:-20.1455,-8.53734,-6.43013,-11.8262,0,-10.3211 1/2:12:4,3,4:4:144:3,4:107,144:-6.6799,-2.89165,-5.78581,-1.22068,0,-3.81183 1/2:27:0,9,18:0:0:9,18:311,648:-45.0654,-30.1668,-27.4575,-15.1163,0,-9.69773 1/2:85:0,41,43:0:0:41,43:1412,1540:-138.769,-71.2167,-58.8744,-67.5301,0,-54.5859 1/2:105:30,29,42:30:1056:29,42:1012,1496:-79.7693,-40.9572,-60.7638,-19.3442,0,-35.2318 1/2:166:1,60,104:1:36:60,104:2106,3713:-270.321,-170.457,-154.231,-98.3242,0,-68.8526 1/2:43:0,22,20:0:0:22,20:773,716:-69.7649,-33.2669,-26.6443,-36.5102,0,-30.4896 1/2:94:0,33,61:0:0:33,61:1135,2154:-154.59,-100.341,-90.4068,-54.4648,0,-36.1019 1/2:136:58,36,40:58:2019:36,40:1267,1432:-57.9338,-15.9467,-55.2664,-9.32295,0,-47.4367 1/2:93:23,36,34:23:798:36,34:1284,1220:-87.7038,-34.795,-45.4087,-38.4298,0,-49.6463 1/1:108:4,101,0:4:142:101,0:3503,0:-192.715,-26.9987,0,-193.919,-30.404,-197.383 1/1:52:14,37,0:14:480:37,0:1311,0:-59.4224,-2.58344,0,-63.6368,-11.1381,-72.2338 chr04 1856104 . CAA CAT,TAT 21582.7 PASS AB=0.519174,0.476401;ABP=5.17537,6.28993;AC=28,14;AF=0.666667,0.333333;AN=42;AO=656,383;CIGAR=2M1X,1X1M1X;DP=1044;DPB=1044;DPRA=0.85,1.65702;EPP=1427.5,826.021;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.85,2.14286;MQM=59.9573,59.8251;MQMR=60;NS=21;NUMALT=2;ODDS=4.32925;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23491,13422;QR=36;RO=1;RPL=0,1;RPP=1427.5,826.021;RPPR=5.18177;RPR=656,382;RUN=1,1;SAF=0,0;SAP=1427.5,834.684;SAR=656,383;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:22:0,16,6:0:0:16,6:576,214:-64.8027,-17.8016,-12.9851,-47.3585,0,-45.5523 1/2:23:0,13,10:0:0:13,10:464,346:-66.2966,-28.4631,-24.5497,-38.1841,0,-35.1738 1/2:64:0,31,33:0:0:31,33:1108,1165:-185.567,-95.2229,-85.8909,-90.6991,0,-80.7651 1/1:34:0,34,0:0:0:34,0:1220,0:-110.107,-10.235,0,-110.107,-10.235,-110.107 1/2:95:0,56,39:0:0:56,39:2008,1371:-275.729,-111.948,-95.0899,-164.136,0,-152.395 1/1:43:0,43,0:0:0:43,0:1531,0:-138.082,-12.9443,0,-138.082,-12.9443,-138.082 1/1:52:0,52,0:0:0:52,0:1861,0:-167.611,-15.6536,0,-167.611,-15.6536,-167.611 2/2:58:0,0,58:0:0:0,58:0,2049:-184.652,-184.652,-184.652,-17.4597,-17.4597,0 1/2:106:0,46,60:0:0:46,60:1644,2111:-306.242,-172.196,-158.349,-134.401,0,-116.339 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/2:16:0,9,7:0:0:9,7:324,244:-46.5885,-20.1449,-17.4356,-26.7966,0,-24.6894 1/2:68:0,34,34:0:0:34,34:1216,1172:-194.695,-95.5342,-85.2991,-99.5115,0,-89.2765 1/1:48:0,47,0:0:0:47,0:1680,0:-151.206,-14.1484,0,-151.206,-14.1484,-151.206 1/2:126:0,67,58:0:0:67,58:2408,2009:-359.715,-163.26,-143.091,-196.447,0,-178.988 1/2:17:0,4,13:0:0:4,13:144,451:-48.7584,-37.0057,-35.8016,-12.1095,0,-8.19611 1/1:20:0,20,0:0:0:20,0:720,0:-65.1288,-6.0206,0,-65.1288,-6.0206,-65.1288 1/2:86:0,37,47:0:0:37,47:1323,1665:-243.634,-135.754,-124.616,-107.997,0,-93.8485 1/2:51:0,36,15:0:0:36,15:1292,525:-148.459,-43.0643,-32.2273,-105.747,0,-101.231 1/1:66:0,64,2:0:0:64,2:2288,64:-205.861,-19.2659,0,-200.706,-13.7899,-200.104 1/1:40:1,39,0:1:36:39,0:1400,0:-122.701,-8.44293,0,-123.002,-11.7402,-125.939 chr04 1884867 . A T 14403 PASS AB=0.659851;ABP=122.417;AC=28;AF=0.666667;AN=42;AO=726;CIGAR=1X;DP=1007;DPB=1007;DPRA=0.463776;EPP=1579.5;EPPR=613.194;GTI=2;LEN=1;MEANALT=1;MQM=44.5083;MQMR=60;NS=21;NUMALT=1;ODDS=2.07407;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25783;QR=9975;RO=281;RPL=726;RPP=1579.5;RPPR=604.539;RPR=0;RUN=1;SAF=726;SAP=1579.5;SAR=0;SRF=280;SRP=604.539;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:13,41:13:468:41:1472:-114.26,0,-26.204 0/1:27:4,23:4:144:23:815:-64.314,0,-5.18581 0/1:29:4,25:4:144:25:888:-69.5116,0,-4.58375 1/1:45:0,45:0:0:45:1574:-139.391,-13.5464,0 0/1:100:35,65:35:1235:65:2314:-174.858,0,-81.3505 1/1:59:0,59:0:0:59:2094:-185.564,-17.7608,0 1/1:98:0,98:0:0:98:3475:-306.933,-29.5009,0 0/0:98:98,0:98:3467:0:0:0,-29.5009,-312.245 0/1:89:29,60:29:1036:60:2148:-162.711,0,-66.7622 0/1:4:2,2:2:72:2:72:-5.53806,0,-5.6326 1/1:7:0,7:0:0:7:252:-21.9798,-2.10721,0 0/1:12:2,10:2:72:10:350:-27.2531,0,-3.22436 0/1:29:9,20:9:324:20:720:-55.4983,0,-20.776 1/1:65:0,65:0:0:65:2298:-202.914,-19.567,0 0/1:58:27,31:27:942:31:1108:-80.4586,0,-67.6326 0/1:40:14,26:14:504:26:919:-69.6775,0,-33.6569 1/1:32:0,32:0:0:32:1125:-98.4079,-9.63296,0 0/1:62:33,29:33:1184:29:1032:-73.3501,0,-88.2045 0/1:34:11,23:11:383:23:815:-62.4413,0,-24.5682 1/1:43:0,43:0:0:43:1535:-136.14,-12.9443,0 1/1:22:0,22:0:0:22:777:-68.7813,-6.62266,0 chr04 1884874 . C A 14296.6 PASS AB=0.654649;ABP=112.486;AC=28;AF=0.666667;AN=42;AO=717;CIGAR=1X;DP=1003;DPB=1003;DPRA=0.432212;EPP=1559.96;EPPR=611.053;GTI=1;LEN=1;MEANALT=1.1;MQM=44.5467;MQMR=60;NS=21;NUMALT=1;ODDS=2.16692;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25550;QR=9913;RO=284;RPL=717;RPP=1559.96;RPPR=619.708;RPR=0;RUN=1;SAF=717;SAP=1559.96;SAR=0;SRF=283;SRP=611.053;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:13,40:13:449:40:1414:-109.834,0,-24.7829 0/1:25:4,20:4:144:20:720:-56.3738,0,-5.73224 0/1:30:5,25:5:180:25:900:-69.8259,0,-7.52116 1/1:45:0,45:0:0:45:1608:-142.2,-13.5464,0 0/1:97:35,62:35:1228:62:2228:-167.502,0,-81.6239 1/1:59:0,59:0:0:59:2095:-185.683,-17.7608,0 1/1:98:0,98:0:0:98:3488:-307.854,-29.5009,0 0/0:104:104,0:104:3647:0:0:0,-31.3071,-328.435 0/1:87:29,57:29:1002:57:2039:-153.637,0,-64.2442 0/1:4:2,2:2:63:2:72:-5.53806,0,-4.77903 1/1:7:0,7:0:0:7:248:-21.6364,-2.10721,0 0/1:13:2,11:2:59:11:379:-28.7929,0,-1.69075 0/1:28:8,20:8:288:20:716:-55.5097,0,-17.8386 1/1:66:0,66:0:0:66:2356:-207.722,-19.868,0 0/1:58:26,32:26:884:32:1133:-82.6779,0,-62.4064 0/1:38:14,24:14:500:24:847:-63.8864,0,-33.897 1/1:32:0,32:0:0:32:1128:-99.37,-9.63296,0 0/1:60:32,28:32:1122:28:1000:-71.0924,0,-83.2245 0/1:34:10,24:10:347:24:843:-64.9666,0,-21.3286 1/1:43:0,43:0:0:43:1544:-136.912,-12.9443,0 1/1:22:0,22:0:0:22:792:-69.6147,-6.62266,0 chr04 1893199 . C T 17330.2 PASS AB=0.494393;ABP=3.27814;AC=28;AF=0.666667;AN=42;AO=889;CIGAR=1X;DP=1469;DPB=1469;DPRA=0.845732;EPP=1933.45;EPPR=1262.46;GTI=1;LEN=1;MEANALT=1;MQM=55.2846;MQMR=59.281;NS=21;NUMALT=1;ODDS=2.28118;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31563;QR=20775;RO=580;RPL=5;RPP=1890.26;RPPR=1262.46;RPR=884;RUN=1;SAF=5;SAP=1890.26;SAR=884;SRF=0;SRP=1262.46;SRR=580;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:53,54:53:1890:54:1928:-141.36,0,-137.935 0/1:50:28,22:28:1000:22:792:-56.5003,0,-75.2559 0/1:72:35,37:35:1252:37:1305:-95.8867,0,-91.1693 1/1:47:0,47:0:0:47:1672:-150.635,-14.1484,0 0/1:145:63,82:63:2253:82:2886:-215.285,0,-159.369 1/1:69:0,69:0:0:69:2469:-221.803,-20.7711,0 1/1:71:1,70:1:36:70:2492:-220.613,-17.7749,0 0/0:82:82,0:82:2944:0:0:0,-24.6845,-264.526 0/1:141:67,74:67:2392:74:2606:-191.673,0,-172.974 0/1:7:5,2:5:180:2:72:-4.72458,0,-14.4425 1/1:5:0,5:0:0:5:165:-15.164,-1.50515,0 0/1:32:12,20:12:432:20:712:-54.6232,0,-29.5882 0/1:67:30,37:30:1076:37:1316:-98.2865,0,-76.9792 1/1:62:0,62:0:0:62:2210:-199.007,-18.6639,0 0/1:181:107,74:107:3836:74:2614:-180.254,0,-289.934 0/1:40:26,14:26:936:14:500:-33.0395,0,-72.3034 1/1:44:0,44:0:0:44:1540:-138.589,-13.2453,0 0/1:91:47,44:47:1684:44:1584:-114.323,0,-124.445 0/1:48:23,25:23:828:25:888:-65.7352,0,-60.39 1/1:77:0,77:0:0:77:2753:-247.468,-23.1793,0 1/1:31:1,30:1:36:30:1059:-91.9581,-5.73366,0 chr04 1904998 . GATAC CATAG 37735.1 PASS AB=0.527254;ABP=15.6752;AC=28;AF=0.666667;AN=42;AO=1989;CIGAR=1X3M1X;DP=3020;DPB=3020;DPRA=1.46;EPP=4141.59;EPPR=1997.84;GTI=0;LEN=5;MEANALT=1.5;MQM=40.6843;MQMR=59.9725;NS=21;NUMALT=1;ODDS=23.9701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70182;QR=36071;RO=1020;RPL=21;RPP=4141.59;RPPR=1997.84;RPR=1968;RUN=1;SAF=1989;SAP=4322.07;SAR=0;SRF=1020;SRP=2217.91;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:40,56:40:1404:56:1966:-143.386,0,-97.7563 0/1:111:46,65:46:1606:65:2317:-161.664,0,-111.414 0/1:141:67,74:67:2385:74:2620:-187.22,0,-172.462 1/1:161:0,161:0:0:161:5675:-496.694,-48.4658,0 0/1:337:161,173:161:5673:173:6099:-433.058,0,-409.846 1/1:141:0,141:0:0:141:4964:-417.468,-42.4452,0 1/1:181:0,181:0:0:181:6392:-542.553,-54.4864,0 0/0:100:100,0:100:3530:0:0:0,-30.103,-317.898 0/1:203:104,98:104:3663:98:3458:-244.056,0,-268.762 0/1:37:18,19:18:645:19:672:-47.4982,0,-47.2431 1/1:27:0,27:0:0:27:946:-80.9107,-8.12781,0 0/1:55:36,19:36:1261:19:662:-41.1178,0,-97.2346 0/1:170:75,95:75:2644:95:3336:-238.73,0,-187.033 1/1:151:0,151:0:0:151:5316:-465.243,-45.4555,0 0/1:350:156,191:156:5568:191:6776:-487.183,0,-396.475 0/1:143:74,69:74:2596:69:2459:-174.628,0,-190.841 1/1:141:0,138:0:0:138:4883:-429.772,-41.5421,0 0/1:240:114,125:114:4057:125:4399:-307.088,0,-293.097 0/1:80:29,51:29:1039:51:1802:-132.821,0,-69.7422 1/1:86:0,86:0:0:86:2997:-257.925,-25.8886,0 1/1:69:0,69:0:0:69:2443:-206.293,-20.7711,0 chr04 1905007 . G A 44925.5 PASS AB=0.536269;ABP=25.0626;AC=28;AF=0.666667;AN=42;AO=1985;CIGAR=1X;DP=2978;DPB=2978;DPRA=1.48505;EPP=2059.23;EPPR=895.918;GTI=0;LEN=1;MEANALT=1;MQM=40.664;MQMR=59.8892;NS=21;NUMALT=1;ODDS=25.7564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71176;QR=35396;RO=993;RPL=1678;RPP=2059.23;RPPR=895.918;RPR=307;RUN=1;SAF=1985;SAP=4313.38;SAR=0;SRF=993;SRP=2159.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:37,56:37:1324:56:1989:-145.831,0,-91.4663 0/1:106:43,63:43:1530:63:2253:-159.141,0,-104.718 0/1:137:63,74:63:2260:74:2641:-189.368,0,-162.422 1/1:159:0,159:0:0:159:5709:-498.246,-47.8638,0 0/1:332:157,175:157:5578:175:6254:-444.962,0,-402.202 1/1:141:0,141:0:0:141:5051:-422.572,-42.4452,0 1/1:180:0,180:0:0:180:6453:-546.136,-54.1854,0 0/0:97:97,0:97:3476:0:0:0,-29.1999,-313.029 0/1:200:102,98:102:3645:98:3516:-249.32,0,-268.047 0/1:37:18,19:18:640:19:684:-48.3311,0,-46.7912 1/1:27:0,27:0:0:27:972:-82.8302,-8.12781,0 0/1:55:36,19:36:1292:19:680:-42.4963,0,-100.027 0/1:168:73,95:73:2599:95:3412:-244.616,0,-183.586 1/1:150:0,150:0:0:150:5377:-468.813,-45.1545,0 0/1:345:154,191:154:5503:191:6872:-494.197,0,-391.539 0/1:143:74,69:74:2614:69:2476:-176.044,0,-192.458 1/1:140:0,140:0:0:140:5036:-441.989,-42.1442,0 0/1:235:110,125:110:3895:125:4496:-314.843,0,-279.998 0/1:79:28,51:28:1004:51:1824:-134.704,0,-66.8945 1/1:86:0,86:0:0:86:3078:-263.783,-25.8886,0 1/1:68:1,67:1:36:67:2403:-201.327,-18.3835,0 chr04 1921831 . C T 9254.82 PASS AB=0.477639;ABP=5.43815;AC=28;AF=0.666667;AN=42;AO=537;CIGAR=1X;DP=888;DPB=888;DPRA=0.728947;EPP=1160.42;EPPR=747.924;GTI=1;LEN=1;MEANALT=1;MQM=37.8585;MQMR=38.3818;NS=21;NUMALT=1;ODDS=0.254678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19061;QR=12415;RO=351;RPL=1;RPP=1160.42;RPPR=747.924;RPR=536;RUN=1;SAF=0;SAP=1169.09;SAR=537;SRF=0;SRP=765.197;SRR=351;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:28,19:28:1008:19:662:-42.5392,0,-71.8741 0/1:34:21,13:21:743:13:455:-26.7557,0,-50.578 0/1:44:27,17:27:964:17:608:-37.7999,0,-68.7022 1/1:29:0,29:0:0:29:1036:-89.2731,-8.72987,0 0/1:73:36,37:36:1288:37:1316:-90.3544,0,-88.4455 1/1:32:1,31:1:36:31:1095:-85.9024,-6.3868,0 1/1:21:0,21:0:0:21:748:-60.7659,-6.32163,0 0/0:57:57,0:57:2015:0:0:0,-17.1587,-167.794 0/1:40:23,17:23:819:17:608:-40.2576,0,-59.4724 0/1:6:4,2:4:144:2:72:-4.5515,0,-10.5746 1/1:9:0,9:0:0:9:315:-26.0324,-2.70927,0 0/1:15:10,5:10:322:5:180:-10.8768,0,-23.1584 0/1:63:34,29:34:1212:29:1023:-67.9586,0,-83.9532 1/1:43:0,43:0:0:43:1527:-128.974,-12.9443,0 0/1:49:25,24:25:896:24:860:-59.1981,0,-62.0365 0/1:20:9,11:9:320:11:396:-27.5871,0,-22.2647 1/1:31:0,31:0:0:31:1107:-95.0491,-9.33193,0 0/1:93:50,43:50:1750:43:1540:-101.507,0,-120.12 0/1:75:25,50:25:877:50:1748:-127.232,0,-52.4673 1/1:59:1,58:1:21:58:2062:-169.006,-15.6715,0 1/1:48:0,48:0:0:48:1703:-138.54,-14.4494,0 chr04 1921840 . 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T A 23860.1 PASS AB=0.495283;ABP=3.21516;AC=28;AF=0.666667;AN=42;AO=1175;CIGAR=1X;DP=1758;DPB=1758;DPRA=1.90333;EPP=2537.15;EPPR=1221.58;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9813;MQMR=59.9983;NS=21;NUMALT=1;ODDS=15.7128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41967;QR=20802;RO=581;RPL=2;RPP=2537.15;RPPR=1221.58;RPR=1173;RUN=1;SAF=1175;SAP=2554.49;SAR=0;SRF=581;SRP=1264.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:45,32:45:1616:32:1152:-80.8108,0,-122.551 0/1:44:19,25:19:684:25:891:-67.2635,0,-48.645 0/1:100:53,47:53:1888:47:1673:-120.753,0,-140.095 1/1:92:0,92:0:0:92:3292:-296.499,-27.6948,0 0/1:206:91,115:91:3230:115:4101:-307.263,0,-228.91 1/1:82:0,82:0:0:82:2925:-263.484,-24.6845,0 1/1:94:0,94:0:0:94:3353:-301.986,-28.2968,0 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 0/1:126:63,63:63:2264:63:2244:-164.294,0,-166.093 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:36:17,19:17:612:19:665:-49.3356,0,-44.5764 0/1:93:52,41:52:1868:41:1476:-105.14,0,-140.403 1/1:152:1,151:1:36:151:5372:-480.014,-42.1583,0 0/1:193:111,82:111:3984:82:2932:-206.016,0,-300.65 0/1:50:21,29:21:752:29:1032:-78.142,0,-52.9548 1/1:78:0,78:0:0:78:2789:-251.163,-23.4803,0 0/1:55:32,23:32:1144:23:828:-58.2875,0,-86.7129 0/1:69:25,44:25:900:44:1580:-121.72,0,-60.5499 1/1:100:0,99:0:0:99:3542:-318.668,-29.802,0 1/1:41:0,40:0:0:40:1440:-129.538,-12.0412,0 chr04 2135623 . CACCTCTCG CCCCTCTCA,CCCCTTTCA 41023.8 PASS AB=0.385947,0.588595;ABP=113.963,69.9589;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1249,692;CIGAR=1M1X6M1X,1M1X3M1X2M1X;DP=1978;DPB=1978;DPRA=0.825221,1.38381;EPP=2594.94,1361.64;EPPR=0;GTI=0;LEN=9,9;MEANALT=3.05,3.64286;MQM=59.952,59.2558;MQMR=0;NS=21;NUMALT=2;ODDS=0.0494185;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43025,24127;QR=0;RO=0;RPL=11,675;RPP=2620.48,1361.64;RPPR=0;RPR=1238,17;RUN=1,1;SAF=1246,692;SAP=2689.18,1505.67;SAR=3,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,17,30:0:0:17,30:583,1034:-131.328,-83.9967,-78.8792,-47.3348,0,-38.3039 1/2:93:0,30,61:0:0:30,61:1052,2120:-257.842,-172.231,-163.201,-85.6247,0,-67.2619 1/2:97:0,40,55:0:0:40,55:1391,1941:-271.096,-158.001,-145.96,-113.091,0,-96.5346 1/1:142:0,141,1:0:0:141,1:4863,36:-437.454,-42.4452,0,-434.517,-39.148,-434.215 1/1:216:0,211,2:0:0:211,2:7220,69:-649.478,-63.5173,0,-643.872,-57.9177,-643.27 1/1:80:0,80,0:0:0:80,0:2768,0:-249.365,-24.0824,0,-249.365,-24.0824,-249.365 1/1:130:0,127,0:0:0:127,0:4347,0:-391.064,-38.2308,0,-391.064,-38.2308,-391.064 2/2:113:0,0,111:0:0:0,111:0,3876:-348.657,-348.657,-348.657,-33.4143,-33.4143,0 1/2:191:0,55,135:0:0:55,135:1919,4702:-538.259,-382.178,-365.621,-156.073,0,-115.433 1/2:17:0,13,4:0:0:13,4:448,132:-47.4043,-11.0021,-7.08867,-36.7356,0,-35.5315 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:39:0,24,15:0:0:24,15:835,527:-110.802,-42.9081,-35.6834,-68.2418,0,-63.7264 1/2:135:0,49,79:0:0:49,79:1692,2751:-361.081,-223.61,-208.86,-137.498,0,-113.716 1/1:122:0,120,0:0:0:120,0:4139,0:-372.383,-36.1236,0,-372.383,-36.1236,-372.383 1/2:136:0,41,89:0:0:41,89:1407,3098:-366.074,-251.836,-239.494,-114.247,0,-87.4556 1/2:102:0,40,59:0:0:40,59:1367,2054:-277.751,-166.811,-154.769,-110.945,0,-93.1839 1/1:89:0,88,0:0:0:88,0:3038,0:-273.295,-26.4906,0,-273.295,-26.4906,-273.295 1/2:72:0,38,34:0:0:38,34:1284,1187:-200.937,-96.8642,-85.4251,-104.416,0,-94.1812 1/2:49:0,32,17:0:0:32,17:1123,600:-140.595,-49.2032,-39.5702,-91.7442,0,-86.6267 1/1:51:0,51,0:0:0:51,0:1748,0:-157.601,-15.3525,0,-157.601,-15.3525,-157.601 1/1:47:0,46,0:0:0:46,0:1585,0:-142.578,-13.8474,0,-142.578,-13.8474,-142.578 chr04 2150912 . TCAA GCAA,GCAT 55247.2 PASS AB=0.531008,0.468217;ABP=13.7835,14.3289;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1823,756;CIGAR=1X3M,1X2M1X;DP=2580;DPB=2580.75;DPRA=0.81,1.20635;EPP=3961.6,1644.64;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.7,2;MQM=57.1404,59.9907;MQMR=0;NS=21;NUMALT=2;ODDS=1.63387;PAIRED=0,0;PAIREDR=0;PAO=0.5,2.5;PQA=16,88;PQR=0;PRO=0;QA=65093,26877;QR=0;RO=0;RPL=0,0;RPP=3961.6,1644.64;RPPR=0;RPR=1823,756;RUN=1,1;SAF=1823,756;SAP=3961.6,1644.64;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:178:0,76,102:0:0:76,102:2720,3619:-516.595,-294.852,-271.973,-221.74,0,-191.035 1/2:98:0,53,44:0:0:53,44:1908,1573:-283.603,-128.256,-112.302,-155.344,0,-142.099 1/2:182:0,98,84:0:0:98,84:3486,2977:-526.386,-242.517,-213.016,-283.863,0,-258.577 1/1:135:0,135,0:0:0:135,0:4829,0:-434.442,-40.6391,0,-434.442,-40.6391,-434.442 1/1:272:0,271,1:0:0:271,1:9701,36:-871.62,-81.5791,0,-868.688,-78.2887,-868.387 1/1:112:0,111,1:0:0:111,1:3959,36:-355.133,-33.4143,0,-352.195,-30.1171,-351.894 1/1:204:0,204,0:0:0:204,0:7268,0:-653.128,-61.4101,0,-653.128,-61.4101,-653.128 2/2:150:0,0,150:0:0:0,150:0,5321:-479.027,-479.027,-479.027,-45.1545,-45.1545,0 1/2:236:0,116,120:0:0:116,120:4145,4280:-686.858,-349.257,-314.338,-337.957,0,-301.834 1/2:6:0,4,2:0:0:4,2:130,66:-16.1031,-5.66589,-4.46177,-10.765,0,-10.1629 1/1:9:0,9,0:0:0:9,0:324,0:-29.4713,-2.70927,0,-29.4713,-2.70927,-29.4713 1/2:27:0,17,10:0:0:17,10:612,359:-79.5104,-29.6433,-24.5258,-50.2261,0,-47.2158 1/2:137:0,83,54:0:0:83,54:2964,1936:-399.607,-158.261,-133.276,-241.704,0,-225.448 1/1:144:0,144,0:0:0:144,0:5148,0:-462.129,-43.3483,0,-462.129,-43.3483,-462.129 1/2:225:0,126,99:0:0:126,99:4524,3513:-654.977,-286.58,-248.65,-368.754,0,-338.952 1/2:92:0,55,37:0:0:55,37:1938,1321:-265.551,-108.054,-91.4974,-157.852,0,-146.714 1/1:98:0,98,0:0:0:98,0:3485,0:-313.396,-29.5009,0,-313.396,-29.5009,-313.396 1/2:55:0,25,30:0:0:25,30:900,1050:-159.132,-85.777,-78.2513,-73.7096,0,-64.6787 1/2:54:0,32,22:0:0:32,22:1152,790:-158.751,-64.8027,-55.1698,-94.3078,0,-87.6851 1/1:123:0,123,0:0:0:123,0:4356,0:-391.481,-37.0267,0,-391.481,-37.0267,-391.481 1/1:43:0,43,0:0:0:43,0:1544,0:-138.848,-12.9443,0,-138.848,-12.9443,-138.848 chr04 2150942 . CATTTGTATAAAA CA 30435.2 PASS AB=0.48843;ABP=4.41727;AC=29;AF=0.690476;AN=42;AO=1532;CIGAR=1M11D1M;DP=2305;DPB=1007;DPRA=0.708224;EPP=3260.58;EPPR=1657.72;GTI=0;LEN=11;MEANALT=1.15;MQM=57.5255;MQMR=60;NS=21;NUMALT=1;ODDS=3.25824;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53065;QR=26975;RO=770;RPL=8;RPP=3260.58;RPPR=1657.72;RPR=1524;RUN=1;SAF=1532;SAP=3329.71;SAR=0;SRF=770;SRP=1675.04;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:103,64:103:3611:64:2217:-149.106,0,-274.574 0/1:89:45,44:45:1577:44:1540:-111.975,0,-115.43 0/1:174:85,89:85:2980:89:3093:-226.082,0,-216.061 1/1:108:0,108:0:0:108:3731:-335.949,-32.5112,0 1/1:230:0,229:0:0:229:7932:-713.178,-68.9359,0 1/1:99:1,98:1:36:98:3328:-295.487,-26.2037,0 1/1:172:0,172:0:0:172:5967:-536.361,-51.7772,0 0/0:152:152,0:152:5319:0:0:0,-45.7566,-478.865 0/1:227:128,99:128:4472:99:3454:-242.69,0,-334.332 0/1:4:2,2:2:71:2:68:-5.25131,0,-5.53794 1/1:6:0,6:0:0:6:197:-18.0362,-1.80618,0 0/1:24:10,14:10:344:14:496:-37.7297,0,-24.0681 0/1:130:55,74:55:1941:74:2544:-190.026,0,-135.81 1/1:111:0,111:0:0:111:3864:-347.627,-33.4143,0 0/1:213:100,113:100:3498:113:3931:-289.662,0,-250.921 0/1:83:37,46:37:1290:46:1559:-115.589,0,-91.4171 1/1:77:0,77:0:0:77:2685:-241.865,-23.1793,0 0/1:50:30,20:30:1056:20:699:-48.1432,0,-80.3002 0/1:48:22,26:22:780:26:897:-66.5835,0,-56.0742 1/1:101:0,101:0:0:101:3522:-316.823,-30.404,0 1/1:39:0,39:0:0:39:1341:-120.71,-11.7402,0 chr04 2150966 . C T 13402.6 PASS AB=0.47459;ABP=10.1835;AC=13;AF=0.309524;AN=42;AO=758;CIGAR=1X;DP=2556;DPB=2556;DPRA=0.932768;EPP=1648.99;EPPR=3894.29;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=57.167;NS=21;NUMALT=1;ODDS=3.37917;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27028;QR=63588;RO=1796;RPL=758;RPP=1648.99;RPPR=3894.29;RPR=0;RUN=1;SAF=758;SAP=1648.99;SAR=0;SRF=1796;SRP=3902.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:171:70,101:70:2465:101:3580:-270.93,0,-170.564 0/1:99:53,46:53:1871:46:1647:-118.716,0,-137.416 0/1:180:96,84:96:3411:84:3012:-217.125,0,-252.942 0/0:133:133,0:133:4724:0:0:0,-40.037,-423.686 0/0:272:272,0:272:9562:0:0:0,-81.8802,-859.824 0/0:111:110,1:110:3912:1:36:0,-29.8161,-347.63 0/0:201:201,0:201:7113:0:0:0,-60.507,-639.28 1/1:150:0,150:0:0:150:5348:-481.452,-45.1545,0 0/1:239:114,125:114:4065:125:4448:-328.545,0,-293.936 0/1:7:5,2:5:167:2:72:-4.72951,0,-13.1789 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.4713 0/1:26:16,10:16:572:10:360:-24.9175,0,-43.9192 0/1:137:82,55:82:2922:55:1972:-136.514,0,-221.624 0/0:144:143,0:143:5004:0:0:0,-43.0473,-448.796 0/1:226:130,96:130:4642:96:3412:-239.261,0,-349.313 0/1:86:49,37:49:1752:37:1320:-93.2134,0,-131.806 0/0:95:94,0:94:3322:0:0:0,-28.2968,-298.139 0/1:55:26,29:26:915:29:1029:-76.3645,0,-66 0/1:53:31,22:31:1087:22:792:-55.6511,0,-82.1579 0/0:120:120,0:120:4268:0:0:0,-36.1236,-383.839 0/0:42:42,0:42:1490:0:0:0,-12.6433,-134.122 chr04 2150996 . C T 32248 PASS AB=0.496683;ABP=3.12554;AC=30;AF=0.714286;AN=42;AO=1566;CIGAR=1X;DP=2361;DPB=2361;DPRA=0.595082;EPP=3403.54;EPPR=1729.33;GTI=1;LEN=1;MEANALT=1;MQM=59.9687;MQMR=60;NS=21;NUMALT=1;ODDS=0.0508123;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55978;QR=28315;RO=795;RPL=0;RPP=3403.54;RPPR=1729.33;RPR=1566;RUN=1;SAF=0;SAP=3403.54;SAR=1566;SRF=0;SRP=1729.33;SRR=795;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:149:68,81:68:2412:81:2879:-214.494,0,-172.481 1/1:30:1,29:1:36:29:1040:-90.3161,-5.43263,0 0/1:118:63,55:63:2245:55:1980:-142.953,0,-166.79 1/1:122:0,122:0:0:122:4341:-390.376,-36.7257,0 1/1:151:0,151:0:0:151:5365:-482.983,-45.4555,0 1/1:104:0,104:0:0:104:3720:-335.002,-31.3071,0 1/1:155:0,155:0:0:155:5528:-497.61,-46.6597,0 0/0:183:183,0:183:6528:0:0:0,-55.0885,-587.604 0/1:269:145,124:145:5192:124:4449:-319.601,0,-386.442 0/1:9:6,3:6:201:3:108:-7.3659,0,-15.7078 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:23:10,13:10:360:13:468:-35.536,0,-25.8206 0/1:79:39,40:39:1377:40:1428:-105.036,0,-100.445 1/1:144:0,144:0:0:144:5172:-465.618,-43.3483,0 0/1:295:157,138:157:5564:138:4921:-354.238,0,-412.079 0/1:123:59,64:59:2108:64:2300:-170.234,0,-152.963 1/1:113:3,110:3:108:110:3944:-345.072,-23.9412,0 0/1:64:36,28:36:1288:28:1004:-71.4099,0,-96.9577 0/1:77:24,53:24:860:53:1900:-148.099,0,-54.5425 1/1:89:1,88:1:36:88:3143:-279.497,-23.1934,0 1/1:53:0,53:0:0:53:1896:-170.918,-15.9546,0 chr04 2309971 . T C 37985.9 PASS AB=0.524683;ABP=10.514;AC=29;AF=0.690476;AN=42;AO=1841;CIGAR=1X;DP=2654;DPB=2654;DPRA=0.986719;EPP=4000.69;EPPR=1757.56;GTI=0;LEN=1;MEANALT=1.25;MQM=59.9207;MQMR=59.9443;NS=21;NUMALT=1;ODDS=15.3701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65862;QR=28934;RO=808;RPL=0;RPP=4000.69;RPPR=1757.56;RPR=1841;RUN=1;SAF=1841;SAP=4000.69;SAR=0;SRF=808;SRP=1757.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:221:99,121:99:3548:121:4324:-322.898,0,-253.08 0/1:153:65,88:65:2315:88:3136:-236.409,0,-162.553 0/1:114:53,61:53:1908:61:2188:-162.868,0,-137.68 1/1:94:0,94:0:0:94:3351:-301.801,-28.2968,0 1/1:215:2,213:2:72:213:7617:-678.596,-57.8847,0 1/1:98:0,98:0:0:98:3520:-317.009,-29.5009,0 1/1:203:1,202:1:36:202:7227:-646.883,-57.5108,0 0/0:128:128,0:128:4584:0:0:0,-38.5318,-412.696 0/1:263:128,134:128:4581:134:4808:-353.633,0,-333.117 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:39:22,17:22:792:17:612:-43.6729,0,-59.8655 0/1:137:69,68:69:2446:68:2444:-178.973,0,-179.151 1/1:181:3,176:3:108:176:6280:-555.165,-44.169,0 0/1:207:109,98:109:3908:98:3512:-253.977,0,-289.6 0/1:114:58,56:58:2080:56:1996:-145.588,0,-153.153 1/1:101:0,100:0:0:100:3572:-321.32,-30.103,0 0/1:71:38,33:38:1368:33:1188:-85.8555,0,-102.048 0/1:82:24,58:24:864:58:2067:-161.614,0,-53.3981 1/1:127:0,127:0:0:127:4542:-408.943,-38.2308,0 1/1:79:2,77:2:72:77:2762:-241.958,-16.9446,0 chr04 2346180 . AAA CAA,GAG 48381.5 PASS AB=0.525547,0.471715;ABP=9.22356,10.6263;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1667,599;CIGAR=1X2M,1X1M1X;DP=2275;DPB=2275;DPRA=1.46667,1.23402;EPP=3622.85,1303.72;EPPR=7.35324;GTI=0;LEN=1,3;MEANALT=1.95,2.23077;MQM=59.9634,59.9299;MQMR=60;NS=21;NUMALT=2;ODDS=7.78904;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59471,21198;QR=56;RO=2;RPL=0,0;RPP=3622.85,1303.72;RPPR=7.35324;RPR=1667,599;RUN=1,1;SAF=0,0;SAP=3622.85,1303.72;SAR=1667,599;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:195:0,91,103:0:0:91,103:3247,3614:-558.408,-294.105,-266.711,-264.317,0,-233.311 1/2:154:0,85,69:0:0:85,69:3039,2453:-448.046,-200.251,-174.664,-248.151,0,-227.379 1/2:56:0,25,31:0:0:25,31:896,1104:-163.416,-90.3384,-82.8126,-73.4346,0,-64.1027 1/1:79:0,78,0:0:0:78,0:2799,0:-251.917,-23.4803,0,-251.917,-23.4803,-251.917 1/1:347:0,339,7:0:0:339,7:12048,252:-1083.82,-102.049,0,-1063.25,-81.4872,-1061.15 1/1:86:0,86,0:0:0:86,0:3074,0:-276.887,-25.8886,0,-276.887,-25.8886,-276.887 1/1:170:0,170,0:0:0:170,0:6058,0:-545.322,-51.1751,0,-545.322,-51.1751,-545.322 2/2:75:0,0,75:0:0:0,75:0,2662:-239.827,-239.827,-239.827,-22.5773,-22.5773,0 1/2:194:0,103,89:0:0:103,89:3689,3160:-558.392,-257.543,-226.537,-300.913,0,-274.122 1/2:11:0,6,5:0:0:6,5:212,177:-32.0368,-14.7717,-12.9655,-17.6186,0,-16.1135 1/1:11:0,10,0:0:0:10,0:360,0:-32.4026,-3.0103,0,-32.4026,-3.0103,-32.4026 1/2:15:0,7,8:0:0:7,8:248,288:-44.0594,-23.8592,-21.752,-20.557,0,-18.1487 1/2:95:0,54,41:0:0:54,41:1923,1458:-275.909,-119.174,-102.918,-157.091,0,-144.748 1/1:96:1,95,0:1:20:95,0:3379,0:-302.324,-26.8989,0,-302.625,-28.5979,-304.122 1/2:157:0,101,56:0:0:101,56:3609,1979:-455.752,-161.496,-131.092,-294.611,0,-277.753 1/2:105:0,54,51:0:0:54,51:1932,1818:-306.093,-148.549,-132.293,-157.901,0,-142.548 1/1:137:0,136,0:0:0:136,0:4827,0:-434.375,-40.9401,0,-434.375,-40.9401,-434.375 1/2:60:0,22,38:0:0:22,38:788,1305:-170.571,-106.302,-99.6789,-64.6221,0,-53.183 1/2:54:0,28,26:0:0:28,26:996,928:-157.182,-76.0119,-67.5831,-81.526,0,-73.6993 1/1:114:1,113,0:1:36:113,0:4064,0:-362.333,-30.7191,0,-362.634,-34.0164,-365.571 1/1:64:0,64,0:0:0:64,0:2283,0:-205.731,-19.2659,0,-205.731,-19.2659,-205.731 chr04 2347902 . A G 14982.5 PASS AB=0.567844;ABP=46.0281;AC=13;AF=0.309524;AN=42;AO=801;CIGAR=1X;DP=2069;DPB=2069;DPRA=1.28979;EPP=1742.36;EPPR=2739.07;GTI=1;LEN=1;MEANALT=1.28571;MQM=59.9363;MQMR=59.9858;NS=21;NUMALT=1;ODDS=8.52331;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28678;QR=45373;RO=1264;RPL=0;RPP=1742.36;RPPR=2739.07;RPR=801;RUN=1;SAF=801;SAP=1742.36;SAR=0;SRF=1264;SRP=2747.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:37,38:37:1332:38:1364:-100.483,0,-97.6051 0/1:65:27,38:27:968:38:1364:-103.465,0,-67.8704 0/1:83:45,37:45:1616:37:1328:-94.777,0,-120.686 0/0:127:127,0:127:4552:0:0:0,-38.2308,-409.846 0/0:130:130,0:130:4641:0:0:0,-39.1339,-417.852 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.378 0/0:100:100,0:100:3592:0:0:0,-30.103,-323.486 1/1:188:0,187:0:0:187:6692:-601.996,-56.2926,0 0/1:158:54,104:54:1936:104:3721:-287.527,0,-126.954 0/1:21:8,13:8:288:13:468:-36.138,0,-19.9458 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:61:27,34:27:968:34:1220:-91.744,0,-69.0745 0/1:158:73,85:73:2616:85:3036:-225.905,0,-188.125 0/0:95:94,1:94:3380:1:36:0,-24.9996,-300.816 0/1:211:71,140:71:2544:140:5013:-387.798,0,-165.607 0/1:69:29,38:29:1044:38:1356:-101.831,0,-73.7646 0/0:65:65,0:65:2340:0:0:0,-19.5669,-210.859 0/1:93:41,52:41:1476:52:1864:-140.043,0,-105.14 0/1:82:50,32:50:1800:32:1144:-78.4987,0,-137.598 0/0:132:130,2:130:4676:2:72:0,-32.8992,-414.162 0/0:86:86,0:86:3092:0:0:0,-25.8886,-278.507 chr04 2364595 . CC TT,TC 58114.1 PASS AB=0.553191,0.443009;ABP=35.3514,40.1365;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1857,867;CIGAR=2X,1X1M;DP=2731;DPB=2731;DPRA=0.435943,1.34527;EPP=4035.43,1885.68;EPPR=7.35324;GTI=0;LEN=2,1;MEANALT=1.85,2.14286;MQM=59.2838,59.9804;MQMR=60;NS=21;NUMALT=2;ODDS=16.0407;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65601,31082;QR=61;RO=2;RPL=0,0;RPP=4035.43,1885.68;RPPR=7.35324;RPR=1857,867;RUN=1,1;SAF=1857,867;SAP=4035.43,1885.68;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:110:1,65,44:1:25:65,44:2251,1575:-309.205,-126.598,-108.977,-181.063,0,-169.765 1/2:71:0,41,30:0:0:41,30:1465,1072:-207.153,-87.7616,-75.4193,-119.748,0,-110.717 1/2:141:0,90,51:0:0:90,51:3162,1824:-406.33,-149.089,-121.996,-257.597,0,-242.244 1/1:142:0,142,0:0:0:142,0:5024,0:-452.106,-42.7463,0,-452.106,-42.7463,-452.106 1/1:321:0,319,1:0:0:319,1:11262,36:-1012.94,-96.0286,0,-1010,-93.0362,-1009.7 1/1:97:0,97,0:0:0:97,0:3441,0:-309.81,-29.1999,0,-309.81,-29.1999,-309.81 1/1:181:0,181,0:0:0:181,0:6313,0:-567.846,-54.4864,0,-567.846,-54.4864,-567.846 2/2:281:0,0,281:0:0:0,281:0,10092:-908.208,-908.208,-908.208,-84.5894,-84.5894,0 1/2:217:1,116,100:1:36:116,100:4087,3580:-621.333,-289.007,-257.025,-329.685,0,-302.519 1/2:15:0,6,9:0:0:6,9:214,315:-43.4144,-25.978,-24.1718,-17.7902,0,-15.0809 1/1:17:0,17,0:0:0:17,0:596,0:-53.5931,-5.11751,0,-53.5931,-5.11751,-53.5931 1/2:47:0,28,19:0:0:28,19:998,684:-137.519,-56.1708,-47.7419,-81.7066,0,-75.987 1/2:87:0,44,43:0:0:44,43:1545,1540:-251.646,-125.931,-112.686,-126.069,0,-113.125 1/1:108:0,108,0:0:0:108,0:3853,0:-346.745,-32.5112,0,-346.745,-32.5112,-346.745 1/2:278:0,147,129:0:0:147,129:5192,4628:-800.279,-377.489,-333.238,-422.786,0,-383.953 1/2:88:0,53,34:0:0:53,34:1895,1212:-253.464,-98.9468,-82.9922,-154.668,0,-144.433 1/1:74:0,74,0:0:0:74,0:2626,0:-236.424,-22.2762,0,-236.424,-22.2762,-236.424 1/2:172:0,77,95:0:0:77,95:2748,3412:-502.596,-278.696,-255.516,-224.258,0,-195.66 1/2:90:0,61,29:0:0:61,29:2133,1040:-258.605,-85.1799,-66.8171,-173.78,0,-165.05 1/1:121:0,120,0:0:0:120,0:4283,0:-385.334,-36.1236,0,-385.334,-36.1236,-385.334 1/1:73:0,71,2:0:0:71,2:2513,72:-225.655,-21.3731,0,-219.78,-15.1385,-219.178 chr04 2364618 . C T 38032.5 PASS AB=0.554273;ABP=36.2444;AC=29;AF=0.690476;AN=42;AO=1819;CIGAR=1X;DP=2681;DPB=2681;DPRA=0.430466;EPP=3952.92;EPPR=1874.82;GTI=0;LEN=1;MEANALT=1;MQM=59.3266;MQMR=59.993;NS=21;NUMALT=1;ODDS=14.4587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65017;QR=30631;RO=862;RPL=1816;RPP=3926.9;RPPR=1805.98;RPR=3;RUN=1;SAF=1816;SAP=3926.9;SAR=3;SRF=854;SRP=1805.98;SRR=8;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:48,64:48:1693:64:2259:-169.835,0,-118.939 0/1:75:34,41:34:1201:41:1458:-108.881,0,-85.8164 0/1:140:51,89:51:1812:89:3187:-244.757,0,-121.217 1/1:137:0,137:0:0:137:4884:-439.574,-41.2411,0 1/1:310:1,309:1:36:309:11053:-990.49,-89.721,0 1/1:96:0,96:0:0:96:3452:-310.825,-28.8989,0 1/1:175:0,175:0:0:175:6261:-562.96,-52.6803,0 0/0:279:279,0:279:9917:0:0:0,-83.9874,-892.477 0/1:213:99,114:99:3521:114:4078:-302.985,0,-252.98 0/1:15:9,6:9:320:6:216:-15.2572,0,-24.6269 1/1:16:0,16:0:0:16:576:-51.7852,-4.81648,0 0/1:46:19,27:19:672:27:968:-73.59,0,-46.9595 0/1:86:41,45:41:1464:45:1620:-120.148,0,-106.167 1/1:106:1,105:1:36:105:3752:-334.072,-28.3109,0 0/1:271:126,145:126:4495:145:5182:-384.907,0,-323.141 0/1:85:32,53:32:1128:53:1904:-146.049,0,-76.2407 1/1:72:0,72:0:0:72:2579:-232.225,-21.6742,0 0/1:167:91,76:91:3252:76:2702:-193.017,0,-242.627 0/1:89:29,60:29:1012:60:2143:-166.189,0,-64.5922 1/1:120:0,120:0:0:120:4284:-385.663,-36.1236,0 1/1:71:2,69:2:72:69:2459:-214.621,-14.5364,0 chr04 2388320 . A T 10677.4 PASS AB=0.47084;ABP=11.6217;AC=13;AF=0.309524;AN=42;AO=609;CIGAR=1X;DP=2343;DPB=2343;DPRA=1.71572;EPP=1223.26;EPPR=3485;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.6552;MQMR=59.97;NS=21;NUMALT=1;ODDS=12.4794;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21859;QR=62161;RO=1733;RPL=597;RPP=1223.26;RPPR=3485;RPR=12;RUN=1;SAF=0;SAP=1325.44;SAR=609;SRF=0;SRP=3766.17;SRR=1733;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:234:135,99:135:4835:99:3564:-250.505,0,-364.84 0/1:146:77,69:77:2764:69:2469:-178.38,0,-205.051 0/1:83:52,31:52:1872:31:1116:-75.7273,0,-143.774 0/0:127:127,0:127:4540:0:0:0,-38.2308,-408.768 0/0:288:283,5:283:10168:5:180:0,-70.1446,-898.488 0/0:103:103,0:103:3691:0:0:0,-31.0061,-332.391 0/0:234:233,1:233:8367:1:36:0,-66.8427,-749.433 1/1:51:0,51:0:0:51:1817:-163.77,-15.3525,0 0/1:183:97,86:97:3479:86:3092:-223.411,0,-258.232 0/1:26:18,8:18:648:8:284:-18.0766,0,-50.6343 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:22:13,9:13:468:9:320:-22.509,0,-35.837 0/1:94:40,54:40:1436:54:1944:-146.929,0,-101.241 0/0:117:116,1:116:4160:1:36:0,-31.6222,-370.984 0/1:154:81,73:81:2904:73:2628:-190.384,0,-215.237 0/1:96:38,58:38:1364:58:2069:-157.58,0,-94.1618 0/0:83:83,0:83:2976:0:0:0,-24.9855,-268.072 0/1:64:26,37:26:936:37:1332:-100.832,0,-65.2347 0/1:64:39,25:39:1400:25:900:-62.0444,0,-107.033 0/0:126:124,2:124:4429:2:72:0,-31.0931,-391.935 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 chr04 2417183 . A G 9331.47 PASS AB=0.43501;ABP=38.0088;AC=13;AF=0.309524;AN=42;AO=493;CIGAR=1X;DP=1951;DPB=1951;DPRA=1.59363;EPP=649.118;EPPR=2244.69;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.931;MQMR=59.9945;NS=21;NUMALT=1;ODDS=1.4715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17519;QR=50961;RO=1456;RPL=438;RPP=649.118;RPPR=2244.69;RPR=55;RUN=1;SAF=493;SAP=1073.55;SAR=0;SRF=1456;SRP=3164.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:38,24:38:1332:24:851:-58.2456,0,-101.516 0/1:117:63,53:63:2144:53:1879:-134.108,0,-157.942 0/1:54:23,31:23:782:31:1099:-82.9638,0,-54.4353 0/0:129:129,0:129:4557:0:0:0,-38.8329,-410.301 0/0:253:248,5:248:8665:5:167:0,-60.8022,-764.504 0/0:71:71,0:71:2460:0:0:0,-21.3731,-221.651 0/0:186:184,1:184:6476:1:36:0,-52.4072,-579.381 1/1:66:0,66:0:0:66:2351:-211.849,-19.868,0 0/1:206:119,87:119:4179:87:3079:-215.311,0,-314.283 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:5:5,0:5:172:0:0:0,-1.50515,-15.818 0/1:21:12,9:12:432:9:324:-23.1796,0,-32.8996 0/1:134:77,57:77:2696:57:2042:-143.711,0,-202.547 0/0:78:77,1:77:2659:1:36:0,-19.8821,-235.958 0/1:137:69,68:69:2430:68:2402:-175.196,0,-177.712 0/1:67:44,23:44:1552:23:815:-53.5018,0,-119.803 0/0:67:64,3:64:2238:3:108:0,-10.0938,-191.606 0/1:76:44,32:44:1568:32:1152:-81.1119,0,-118.533 0/1:76:48,28:48:1644:28:1002:-67.6175,0,-125.361 0/0:96:94,2:94:3338:2:68:0,-22.4412,-294.178 0/0:46:46,0:46:1601:0:0:0,-13.8474,-144.375 chr04 2417270 . C T 27818.1 PASS AB=0.569635;ABP=39.9055;AC=29;AF=0.690476;AN=42;AO=1356;CIGAR=1X;DP=1886;DPB=1886;DPRA=0.570395;EPP=2947.53;EPPR=1153.89;GTI=0;LEN=1;MEANALT=1;MQM=44.8171;MQMR=59.9811;NS=21;NUMALT=1;ODDS=13.5822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48496;QR=18976;RO=530;RPL=0;RPP=2947.53;RPPR=1153.89;RPR=1356;RUN=1;SAF=1356;SAP=2947.53;SAR=0;SRF=530;SRP=1153.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:27,28:27:972:28:1004:-72.6426,0,-71.2413 0/1:31:11,20:11:396:20:716:-54.7847,0,-26.6508 0/1:89:30,59:30:1072:59:2108:-160.227,0,-70.0004 1/1:119:0,119:0:0:119:4264:-375.597,-35.8226,0 1/1:178:0,178:0:0:178:6362:-562.378,-53.5833,0 1/1:52:1,51:1:36:51:1832:-159.367,-12.0553,0 1/1:167:0,167:0:0:167:5972:-529.838,-50.272,0 0/0:152:152,0:152:5448:0:0:0,-45.7566,-490.448 0/1:185:77,108:77:2760:108:3852:-284.122,0,-192.95 0/1:11:5,6:5:180:6:216:-16.2148,0,-13.2407 1/1:11:0,11:0:0:11:396:-35.6119,-3.31133,0 0/1:26:16,10:16:572:10:356:-24.1282,0,-43.9866 0/1:172:61,111:61:2180:111:3980:-301.334,0,-144.689 1/1:110:0,110:0:0:110:3944:-348.943,-33.1133,0 0/1:118:59,59:59:2104:59:2105:-151.243,0,-154.107 0/1:17:6,11:6:212:11:396:-30.2437,0,-14.3073 1/1:33:0,33:0:0:33:1184:-104.835,-9.93399,0 0/1:94:58,36:58:2076:36:1292:-86.2792,0,-158.814 0/1:78:27,51:27:968:51:1805:-136.304,0,-63.9566 1/1:135:0,135:0:0:135:4832:-428.33,-40.6391,0 1/1:53:0,53:0:0:53:1880:-167.716,-15.9546,0 chr04 2417318 . TTCA CTCG,CTCA 40146 PASS AB=0.567873,0.432127;ABP=38.3827,38.3827;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1371,541;CIGAR=1X2M1X,1X3M;DP=1916;DPB=1916.25;DPRA=0.556329,1.00157;EPP=2980.1,1169.11;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.8,2;MQM=44.7469,59.9039;MQMR=0;NS=21;NUMALT=2;ODDS=13.8647;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=48432,19313;QR=0;RO=0;RPL=1371,541;RPP=2980.1,1177.78;RPPR=0;RPR=0,0;RUN=1,1;SAF=1371,540;SAP=2980.1,1169.11;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,28,26:0:0:28,26:980,936:-155.108,-76.7327,-68.3038,-78.7274,0,-70.9006 1/2:30:0,18,12:0:0:18,12:643,423:-86.6166,-34.7927,-29.3742,-52.1767,0,-48.5643 1/2:88:0,56,32:0:0:56,32:1963,1139:-250.171,-93.1263,-76.2686,-157.339,0,-147.706 1/1:121:0,119,0:0:0:119,0:4200,0:-370.413,-35.8226,0,-370.413,-35.8226,-370.413 1/1:183:0,182,1:0:0:182,1:6399,36:-565.573,-54.7875,0,-562.636,-51.4907,-562.335 1/1:53:0,52,1:0:0:52,1:1862,36:-165.302,-15.6536,0,-162.365,-12.3563,-162.064 1/1:165:0,164,0:0:0:164,0:5742,0:-509.511,-49.3689,0,-509.511,-49.3689,-509.511 2/2:158:0,0,157:0:0:0,157:0,5632:-506.592,-506.592,-506.592,-47.2617,-47.2617,0 1/2:190:0,111,79:0:0:111,79:3899,2799:-538.827,-228.362,-194.948,-310.815,0,-287.034 1/2:11:0,6,5:0:0:6,5:210,180:-31.8916,-15.0469,-13.2407,-17.198,0,-15.6928 1/1:12:0,12,0:0:0:12,0:420,0:-37.7498,-3.61236,0,-37.7498,-3.61236,-37.7498 1/2:26:0,10,16:0:0:10,16:357,557:-74.3226,-45.6391,-42.6288,-29.034,0,-24.2176 1/2:173:0,112,61:0:0:112,61:4009,2177:-499.411,-177.831,-144.116,-321.935,0,-303.572 1/1:114:0,114,0:0:0:114,0:4016,0:-356.449,-34.3174,0,-356.449,-34.3174,-356.449 1/2:117:0,58,59:0:0:58,59:2043,2110:-335.943,-172.407,-154.947,-163.888,0,-146.127 1/2:17:0,11,6:0:0:11,6:387,212:-48.5819,-17.6186,-14.3073,-31.314,0,-29.5078 1/1:33:0,33,0:0:0:33,0:1170,0:-103.686,-9.93399,0,-103.686,-9.93399,-103.686 1/2:97:0,38,59:0:0:38,59:1329,2104:-277.703,-171.851,-160.412,-106.2,0,-88.4395 1/2:81:0,54,27:0:0:54,27:1910,972:-232.265,-79.6697,-63.4141,-152.951,0,-144.823 1/1:139:0,139,0:0:0:139,0:4967,0:-440.661,-41.8432,0,-440.661,-41.8432,-440.661 1/1:54:0,54,0:0:0:54,0:1926,0:-171.759,-16.2556,0,-171.759,-16.2556,-171.759 chr04 2417354 . T G 10554.6 PASS AB=0.471754;ABP=10.0025;AC=13;AF=0.309524;AN=42;AO=613;CIGAR=1X;DP=1916;DPB=1916;DPRA=1.32129;EPP=1334.12;EPPR=2832.44;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.4075;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21629;QR=46663;RO=1303;RPL=0;RPP=1334.12;RPPR=2832.44;RPR=613;RUN=1;SAF=0;SAP=1334.12;SAR=613;SRF=0;SRP=2832.44;SRR=1303;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:48,25:48:1728:25:892:-58.6245,0,-133.83 0/1:18:12,6:12:432:6:216:-14.372,0,-33.8027 0/1:133:42,91:42:1508:91:3229:-250.795,0,-95.9776 0/0:121:121,0:121:4343:0:0:0,-36.4246,-391.043 0/0:146:141,5:141:5056:5:180:0,-27.3983,-438.632 0/0:50:50,0:50:1777:0:0:0,-15.0515,-160.211 0/0:104:103,1:103:3696:1:36:0,-27.7088,-329.243 1/1:131:0,131:0:0:131:4630:-416.866,-39.4349,0 0/1:212:105,107:105:3764:107:3782:-276.761,0,-275.141 0/1:19:11,8:11:396:8:284:-20.1838,0,-30.2632 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:35:13,22:13:464:22:766:-58.7224,0,-31.5615 0/1:160:87,73:87:3119:73:2577:-184.012,0,-232.771 0/0:112:112,0:112:3990:0:0:0,-33.7154,-359.288 0/1:124:82,42:82:2948:42:1483:-96.436,0,-228.225 0/1:22:13,9:13:464:9:324:-22.8832,0,-35.4748 0/0:19:19,0:19:665:0:0:0,-5.71957,-60.1728 0/1:134:64,70:64:2292:70:2438:-179.336,0,-166.203 0/1:79:56,23:56:2008:23:792:-47.8142,0,-157.212 0/0:148:148,0:148:5304:0:0:0,-44.5524,-477.494 0/0:68:68,0:68:2421:0:0:0,-20.47,-218.145 chr04 2505035 . G A 8548.81 PASS AB=0.482676;ABP=5.19215;AC=14;AF=0.333333;AN=42;AO=489;CIGAR=1X;DP=1565;DPB=1565;DPRA=0.864646;EPP=1056.19;EPPR=2236.45;GTI=1;LEN=1;MEANALT=1;MQM=59.9632;MQMR=59.9359;NS=21;NUMALT=1;ODDS=4.20403;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17439;QR=38301;RO=1076;RPL=488;RPP=1056.19;RPPR=2236.45;RPR=1;RUN=1;SAF=0;SAP=1064.86;SAR=489;SRF=0;SRP=2339.51;SRR=1076;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:62,51:62:2199:51:1819:-129.974,0,-164.159 0/1:93:49,44:49:1748:44:1568:-113.416,0,-129.608 0/1:69:28,41:28:1008:41:1470:-111.825,0,-70.2653 0/0:78:78,0:78:2795:0:0:0,-23.4803,-251.789 0/0:99:98,1:98:3477:1:36:0,-26.2037,-309.544 0/0:117:117,0:117:4187:0:0:0,-35.2205,-377.011 0/0:137:137,0:137:4879:0:0:0,-41.2411,-439.159 1/1:82:0,82:0:0:82:2931:-264.024,-24.6845,0 0/1:111:61,50:61:2172:50:1771:-126.187,0,-162.332 0/1:19:12,7:12:424:7:252:-17.3094,0,-32.7768 0/1:8:7,1:7:235:1:36:-1.19004,0,-19.0697 0/1:40:20,20:20:712:20:720:-53.0876,0,-52.3655 0/1:77:35,42:35:1233:42:1496:-111.755,0,-88.0928 0/0:52:50,2:50:1784:2:72:0,-8.81684,-153.142 0/1:126:54,72:54:1923:72:2553:-192.09,0,-135.416 0/1:37:15,22:15:540:22:784:-59.7458,0,-37.7984 0/0:39:39,0:39:1380:0:0:0,-11.7402,-124.499 0/1:86:48,38:48:1698:38:1355:-96.3611,0,-127.216 0/1:58:42,16:42:1476:16:576:-34.7152,0,-115.675 0/0:81:81,0:81:2887:0:0:0,-24.3834,-260.067 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 chr04 2526978 . G A 1720.11 PASS AB=0.478007;ABP=24.5965;AC=21;AF=0.5;AN=42;AO=2456;CIGAR=1X;DP=5138;DPB=5138;DPRA=0;EPP=5336.15;EPPR=5809.54;GTI=20;LEN=1;MEANALT=1;MQM=11.3628;MQMR=10.365;NS=21;NUMALT=1;ODDS=16.7715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87755;QR=95349;RO=2682;RPL=1;RPP=5327.46;RPPR=5809.54;RPR=2455;RUN=1;SAF=1;SAP=5327.46;SAR=2455;SRF=0;SRP=5826.9;SRR=2682;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:300:139,161:139:4952:161:5754:-68.4871,0,-35.5467 0/1:213:110,103:110:3920:103:3670:-39.1647,0,-44.3576 0/1:317:151,166:151:5409:166:5914:-67.815,0,-40.6794 0/1:314:151,163:151:5383:163:5827:-66.56,0,-41.4762 0/1:482:283,199:283:10101:199:7122:-50.9243,0,-110.646 0/1:195:121,74:121:4286:74:2656:-15.3899,0,-60.4545 0/1:265:109,156:109:3830:156:5608:-82.2472,0,-27.7291 0/1:262:157,105:157:5555:105:3776:-27.321,0,-75.4884 0/1:385:192,193:192:6830:193:6917:-85.4629,0,-56.9439 0/1:54:25,29:25:896:29:1040:-12.7096,0,-8.57413 0/1:39:19,20:19:680:20:703:-8.31388,0,-7.15633 0/1:88:40,48:40:1425:48:1724:-21.4425,0,-12.9604 0/1:147:62,85:62:2214:85:3046:-39.9953,0,-11.8479 0/1:262:136,126:136:4749:126:4476:-45.5926,0,-43.7503 0/1:470:305,165:305:10872:165:5887:-21.1917,0,-133.672 0/1:254:115,139:115:4114:139:4960:-64.5656,0,-27.2016 0/1:313:154,159:154:5482:159:5673:-71.4345,0,-45.5769 0/1:315:163,152:163:5769:152:5387:-57.9801,0,-65.9669 0/1:128:71,57:71:2515:57:2040:-17.7582,0,-26.0166 0/1:222:120,102:120:4264:102:3655:-36.5657,0,-51.1882 0/1:113:59,54:59:2103:54:1920:-24.529,0,-23.9743 chr04 2526998 . A C 0.170388 PASS AB=0.525613;ABP=32.0432;AC=21;AF=0.5;AN=42;AO=2678;CIGAR=1X;DP=5095;DPB=5095;DPRA=0;EPP=5792.18;EPPR=5111.23;GTI=21;LEN=1;MEANALT=1.04762;MQM=10.363;MQMR=11.3982;NS=21;NUMALT=1;ODDS=3.21855;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=95690;QR=86339;RO=2416;RPL=2675;RPP=5792.18;RPPR=5111.23;RPR=3;RUN=1;SAF=0;SAP=5818.21;SAR=2678;SRF=0;SRP=5249.29;SRR=2416;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:298:156,142:156:5600:142:5057:-38.6561,0,-67.0019 0/1:207:100,107:100:3577:107:3824:-43.1439,0,-40.1956 0/1:313:163,150:163:5844:150:5371:-40.9909,0,-67.3805 0/1:307:157,150:157:5608:150:5372:-42.7216,0,-62.6259 0/1:480:198,282:198:7071:282:10018:-109.785,0,-50.3938 0/1:192:73,119:73:2603:119:4238:-59.2922,0,-15.203 0/1:259:152,107:152:5421:107:3810:-27.7001,0,-81.2677 0/1:258:105,153:105:3760:153:5467:-72.8882,0,-26.2663 0/1:381:187,193:187:6716:193:6915:-59.3038,0,-80.6095 0/1:57:30,27:30:1076:27:972:-9.65049,0,-12.7954 0/1:37:19,18:19:669:18:648:-6.77125,0,-7.90711 0/1:87:46,41:46:1639:41:1453:-14.3369,0,-19.7542 0/1:149:86,63:86:3065:63:2241:-12.1232,0,-40.4378 0/1:261:125,136:125:4460:136:4836:-44.0363,0,-46.0198 0/1:469:164,305:164:5850:305:10935:-136.189,0,-22.6182 0/1:254:137,117:137:4848:117:4196:-28.9195,0,-64.6059 0/1:307:154,153:154:5504:153:5500:-45.4256,0,-68.1487 0/1:313:149,164:149:5335:164:5851:-67.4863,0,-54.7868 0/1:130:60,70:60:2141:70:2516:-24.1722,0,-20.1899 0/1:223:102,121:102:3660:121:4313:-51.9586,0,-36.2703 0/1:113:53,60:53:1892:60:2157:-24.9749,0,-23.5442 chr04 2527004 . T C 1.13645e-07 PASS AB=0.5225;ABP=25.8759;AC=21;AF=0.5;AN=42;AO=2717;CIGAR=1X;DP=5200;DPB=5200;DPRA=0;EPP=5902.9;EPPR=5331.98;GTI=20;LEN=1;MEANALT=1.04762;MQM=10.364;MQMR=11.3876;NS=21;NUMALT=1;ODDS=17.5053;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=96831;QR=86856;RO=2482;RPL=2717;RPP=5902.9;RPPR=5331.98;RPR=0;RUN=1;SAF=0;SAP=5902.9;SAR=2717;SRF=0;SRP=5392.6;SRR=2482;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:308:166,142:166:5681:142:5055:-35.5889,0,-73.2779 0/1:214:103,111:103:3554:111:3957:-45.0503,0,-40.7478 0/1:316:163,152:163:5747:152:5428:-42.0511,0,-66.5358 0/1:316:164,152:164:5798:152:5437:-41.7867,0,-68.1584 0/1:484:202,282:202:7110:282:10095:-108.678,0,-52.8995 0/1:196:77,119:77:2625:119:4235:-58.1421,0,-17.7532 0/1:267:156,111:156:5404:111:3909:-29.0647,0,-82.0722 0/1:262:106,156:106:3767:156:5576:-74.5558,0,-25.9579 0/1:390:194,196:194:6836:196:7013:-59.069,0,-82.4381 0/1:57:30,27:30:1061:27:968:-9.64877,0,-12.762 0/1:39:20,19:20:705:19:669:-7.12457,0,-8.29387 0/1:88:46,42:46:1603:42:1493:-14.9368,0,-19.363 0/1:155:90,65:90:3115:65:2336:-12.2411,0,-42.2959 0/1:272:131,141:131:4606:141:4881:-45.0752,0,-49.5435 0/1:478:170,308:170:6005:308:11023:-135.233,0,-25.7665 0/1:256:139,117:139:4793:117:4170:-28.4461,0,-62.5805 0/1:317:158,159:158:5522:159:5688:-47.8905,0,-68.9257 0/1:315:151,164:151:5379:164:5853:-66.755,0,-57.099 0/1:132:59,73:59:2011:73:2609:-26.3316,0,-18.3904 0/1:226:103,123:103:3624:123:4360:-52.8592,0,-36.1872 0/1:112:54,58:54:1910:58:2076:-23.2946,0,-23.4544 chr04 2549971 . T C 27132.7 PASS AB=0.54256;ABP=51.4374;AC=21;AF=0.5;AN=42;AO=1670;CIGAR=1X;DP=3078;DPB=3078;DPRA=0;EPP=3629.37;EPPR=3058.27;GTI=0;LEN=1;MEANALT=1.04762;MQM=44.321;MQMR=42.6006;NS=21;NUMALT=1;ODDS=10.7359;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59686;QR=50418;RO=1407;RPL=0;RPP=3629.37;RPPR=3058.27;RPR=1670;RUN=1;SAF=1670;SAP=3629.37;SAR=0;SRF=1407;SRP=3058.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:68,78:68:2444:78:2787:-203.269,0,-169.643 0/1:183:100,83:100:3581:83:2967:-197.994,0,-257.141 0/1:164:73,91:73:2594:91:3268:-238.617,0,-179.022 0/1:142:50,92:50:1800:92:3292:-241.987,0,-115.691 0/1:304:133,171:133:4765:171:6123:-437.412,0,-326.255 0/1:129:54,75:54:1932:75:2686:-180.221,0,-129.489 0/1:185:88,97:88:3145:97:3461:-226.577,0,-217.016 0/1:200:88,112:88:3156:112:4008:-299.868,0,-213.576 0/1:252:146,106:146:5236:106:3791:-258.792,0,-388.138 0/1:12:6,6:6:216:6:216:-15.958,0,-15.4776 0/1:9:1,8:1:32:8:288:-20.6171,0,-0.449362 0/1:26:11,15:11:396:15:540:-39.3498,0,-26.7181 0/1:132:57,75:57:2048:75:2677:-196.407,0,-139.971 0/1:117:29,88:29:1044:88:3139:-236.55,0,-56.111 0/1:230:97,133:97:3465:133:4757:-351.184,0,-233.147 0/1:237:102,135:102:3652:135:4817:-353.212,0,-252.765 0/1:237:117,120:117:4204:120:4277:-298.858,0,-299.257 0/1:106:52,54:52:1868:54:1918:-134.968,0,-129.68 0/1:95:41,54:41:1472:54:1923:-138.888,0,-101.397 0/1:94:55,38:55:1976:38:1360:-86.6166,0,-143.131 0/1:78:39,39:39:1392:39:1391:-90.1995,0,-98.1978 chr04 2550015 . C G 14469.5 PASS AB=0.392934;ABP=282;AC=20;AF=0.47619;AN=42;AO=1101;CIGAR=1X;DP=3003;DPB=3003;DPRA=0.697015;EPP=2393.8;EPPR=4126.64;GTI=2;LEN=1;MEANALT=1.15;MQM=39.1462;MQMR=46.1248;NS=21;NUMALT=1;ODDS=2.55135;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39031;QR=66265;RO=1899;RPL=1101;RPP=2393.8;RPPR=4126.64;RPR=0;RUN=1;SAF=1101;SAP=2393.8;SAR=0;SRF=1899;SRP=4126.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:121,24:121:4213:24:860:-30.3046,0,-328.455 0/1:177:136,41:136:4738:41:1455:-64.8105,0,-364.274 0/1:162:117,45:117:4085:45:1608:-90.5202,0,-314.384 0/1:140:50,90:50:1752:90:3200:-234.837,0,-112.447 0/1:295:130,165:130:4499:165:5843:-416.336,0,-307.339 0/1:123:53,70:53:1843:70:2493:-166.028,0,-124.135 0/1:180:86,94:86:2999:94:3326:-217.282,0,-207.515 0/0:201:201,0:201:7003:0:0:0,-60.507,-620.871 0/1:245:199,46:199:6984:46:1627:-66.9463,0,-548.446 0/1:10:9,1:9:316:1:36:-0.3773,0,-25.3693 0/1:8:2,6:2:72:6:210:-14.7835,0,-4.13754 0/1:25:16,9:16:572:9:324:-20.2526,0,-42.8912 0/1:133:94,38:94:3324:38:1351:-77.464,0,-254.704 0/1:116:29,87:29:1019:87:3069:-230.934,0,-54.6464 0/1:221:162,58:162:5672:58:2048:-110.848,0,-436.781 0/1:229:159,70:159:5549:70:2476:-145.992,0,-426.134 0/1:231:117,114:117:4065:114:4047:-281.039,0,-290.001 0/1:103:71,32:71:2480:32:1117:-64.4175,0,-186.691 0/1:92:55,37:55:1907:37:1298:-84.2049,0,-141.932 0/1:93:55,38:55:1908:38:1360:-86.7134,0,-138.487 0/1:73:37,36:37:1265:36:1283:-83.4092,0,-89.1925 chr04 2550018 . 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T C 13465.5 PASS AB=0.554968;ABP=47.6512;AC=24;AF=0.571429;AN=42;AO=1370;CIGAR=1X;DP=2149;DPB=2149;DPRA=0;EPP=2977.93;EPPR=1694.59;GTI=2;LEN=1;MEANALT=1;MQM=26.1234;MQMR=45.1605;NS=21;NUMALT=1;ODDS=5.28816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48751;QR=27775;RO=779;RPL=0;RPP=2977.93;RPPR=1396.35;RPR=1370;RUN=1;SAF=0;SAP=2977.93;SAR=1370;SRF=36;SRP=1396.35;SRR=743;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:47,37:47:1673:37:1308:-55.9012,0,-82.1763 0/1:113:52,61:52:1847:61:2166:-126.737,0,-132.461 0/1:65:26,39:26:932:39:1391:-64.3036,0,-28.1151 0/1:54:26,28:26:936:28:1008:-43.6227,0,-68.3038 0/1:163:64,99:64:2292:99:3499:-161.681,0,-150.96 0/1:57:31,26:31:1104:26:912:-50.1383,0,-82.5119 0/1:136:62,74:62:2197:74:2651:-152.539,0,-157.038 0/1:57:24,33:24:856:33:1184:-62.7845,0,-4.51734 0/1:199:101,98:101:3601:98:3469:-108.708,0,-150.73 1/1:232:1,231:1:36:231:8248:-551.617,-68.8399,0 1/1:86:3,83:3:108:83:2976:-207.01,-15.8134,0 1/1:130:18,112:18:644:112:3999:-234.608,-3.93076,0 0/1:74:24,50:24:855:50:1787:-87.2927,0,-35.4648 0/1:69:25,44:25:888:44:1571:-74.853,0,-59.3816 0/1:102:67,35:67:2397:35:1239:-44.0201,0,-101.896 0/1:86:44,42:44:1576:42:1500:-46.1751,0,-71.1865 0/1:72:37,35:37:1290:35:1251:-35.8753,0,-94.6257 0/1:215:48,167:48:1719:167:5909:-333.275,0,-36.6138 0/1:57:26,31:26:932:31:1079:-50.7677,0,-49.6847 0/1:50:25,25:25:888:25:896:-44.8112,0,-65.1168 0/1:48:28,20:28:1004:20:708:-36.4438,0,-76.2264 chr04 2595952 . T C 8197.46 PASS AB=0.436802;ABP=62.0205;AC=18;AF=0.428571;AN=42;AO=765;CIGAR=1X;DP=2153;DPB=2153;DPRA=0;EPP=1664.19;EPPR=3014.84;GTI=2;LEN=1;MEANALT=1.04762;MQM=44.6876;MQMR=26.0663;NS=21;NUMALT=1;ODDS=3.40294;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27281;QR=49519;RO=1387;RPL=23;RPP=1470.42;RPPR=3014.84;RPR=742;RUN=1;SAF=23;SAP=1470.42;SAR=742;SRF=0;SRP=3014.84;SRR=1387;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:37,46:37:1324:46:1639:-79.7756,0,-56.5384 0/1:101:60,40:60:2124:40:1436:-99.0504,0,-126.674 0/1:65:39,26:39:1404:26:927:-28.1073,0,-65.057 0/1:56:29,27:29:1021:27:968:-70.5797,0,-44.7685 0/1:167:102,65:102:3641:65:2310:-151.364,0,-168.002 0/1:56:25,31:25:885:31:1108:-83.1733,0,-48.1692 0/1:137:75,62:75:2692:62:2216:-158.455,0,-155.59 0/1:57:33,24:33:1188:24:864:-4.52001,0,-62.8456 0/1:197:95,102:95:3379:102:3634:-150.904,0,-104.635 0/0:232:230,2:230:8205:2:68:0,-67.9422,-549.666 0/0:88:85,3:85:3056:3:104:0,-16.7878,-212.609 0/0:132:115,17:115:4098:17:612:0,-5.42377,-240.194 0/1:73:49,24:49:1752:24:860:-36.2175,0,-85.5137 0/1:70:44,26:44:1572:26:928:-62.7505,0,-74.421 0/1:101:34,67:34:1216:67:2396:-101.184,0,-42.3584 0/1:87:43,44:43:1540:44:1568:-71.5916,0,-47.2669 0/1:72:38,34:38:1355:34:1197:-86.254,0,-41.7359 0/1:228:183,45:183:6523:45:1599:-20.3563,0,-361.598 0/1:56:29,27:29:1036:27:968:-53.227,0,-46.334 0/1:50:24,26:24:864:26:920:-68.0244,0,-42.6529 0/1:45:18,27:18:644:27:959:-73.079,0,-32.0728 chr04 2595960 . A G 5955.98 PASS AB=0.305158;ABP=533.569;AC=17;AF=0.404762;AN=42;AO=502;CIGAR=1X;DP=2112;DPB=2112;DPRA=0.669356;EPP=1084.42;EPPR=3490.4;GTI=3;LEN=1;MEANALT=1;MQM=59.5618;MQMR=24.2019;NS=21;NUMALT=1;ODDS=0.703543;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17683;QR=57589;RO=1610;RPL=1;RPP=1084.42;RPPR=3490.4;RPR=501;RUN=1;SAF=0;SAP=1093.09;SAR=502;SRF=0;SRP=3499.08;SRR=1610;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:58,21:58:2076:21:747:-43.7706,0,-81.2194 0/1:102:64,38:64:2300:38:1356:-91.6109,0,-140.886 0/1:64:56,8:56:2000:8:288:-7.00149,0,-83.5853 0/1:56:28,28:28:1000:28:991:-72.5897,0,-43.0378 0/1:161:103,58:103:3700:58:2061:-137.283,0,-168.481 0/1:56:26,30:26:936:30:1039:-76.958,0,-51.5536 0/1:136:73,63:73:2612:63:2226:-159.659,0,-150.688 0/0:57:57,0:57:2036:0:0:0,-17.1587,-102.815 0/1:192:154,38:154:5492:38:1360:-64.9001,0,-185.949 0/0:230:230,0:230:8223:0:0:0,-69.2369,-548.406 0/0:88:85,3:85:3047:3:99:0,-17.2541,-212.734 0/0:128:120,8:120:4289:8:288:0,-14.6363,-250.685 0/1:72:58,14:58:2064:14:504:-24.0239,0,-95.7968 0/1:68:42,26:42:1504:26:915:-62.1799,0,-70.9715 0/1:100:72,28:72:2576:28:992:-59.4441,0,-84.6922 0/1:80:65,15:65:2328:15:523:-23.3079,0,-77.7296 0/1:66:37,29:37:1328:29:1027:-72.8719,0,-41.968 0/1:221:199,22:199:7106:22:765:-2.6401,0,-369.441 0/1:58:39,19:39:1400:19:629:-39.4574,0,-60.0332 0/1:50:24,26:24:856:26:920:-68.0115,0,-42.5305 0/1:48:20,28:20:716:28:953:-71.6254,0,-36.652 chr04 2595993 . C T 5662.7 PASS AB=0.412805;ABP=111.314;AC=18;AF=0.428571;AN=42;AO=695;CIGAR=1X;DP=2090;DPB=2090;DPRA=0;EPP=1512.18;EPPR=3032.21;GTI=3;LEN=1;MEANALT=1;MQM=45.4259;MQMR=26.0616;NS=21;NUMALT=1;ODDS=1.35024;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23377;QR=49862;RO=1395;RPL=695;RPP=1512.18;RPPR=3032.21;RPR=0;RUN=1;SAF=0;SAP=1512.18;SAR=695;SRF=0;SRP=3032.21;SRR=1395;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:37,36:37:1324:36:1167:-51.5102,0,-59.4221 0/1:101:62,39:62:2205:39:1226:-80.2031,0,-132.349 0/1:65:39,26:39:1400:26:872:-27.9458,0,-65.0235 0/1:54:28,26:28:996:26:913:-66.1722,0,-43.5335 0/1:162:102,60:102:3630:60:2084:-132.551,0,-168.526 0/1:54:26,28:26:913:28:969:-71.2639,0,-51.1759 0/1:133:75,58:75:2680:58:2029:-142.838,0,-156.556 0/1:56:34,22:34:1220:22:735:-2.94008,0,-65.4692 0/1:187:98,89:98:3501:89:2936:-125.292,0,-114.268 0/0:232:231,1:231:8269:1:36:0,-68.8399,-551.192 0/0:87:84,3:84:3020:3:108:0,-16.1144,-209.704 0/0:131:117,14:117:4185:14:474:0,-9.26973,-248.07 0/1:74:51,23:51:1828:23:828:-35.2052,0,-89.5183 0/1:69:44,25:44:1569:25:877:-58.4711,0,-74.6048 0/1:97:36,61:36:1292:61:2013:-87.3872,0,-47.7981 0/1:75:42,33:42:1493:33:1096:-43.7113,0,-48.1394 0/1:64:35,29:35:1241:29:987:-69.8642,0,-38.8253 0/1:226:180,46:180:6448:46:1598:-27.6016,0,-355.148 0/1:54:29,25:29:1036:25:823:-42.925,0,-48.1696 0/1:50:25,25:25:900:25:775:-54.9356,0,-44.8724 0/1:46:20,26:20:712:26:831:-61.2323,0,-37.15 chr04 2614592 . G A 12139.4 PASS AB=0.471939;ABP=5.6914;AC=30;AF=0.714286;AN=42;AO=581;CIGAR=1X;DP=815;DPB=815;DPRA=1.45926;EPP=1264.64;EPPR=511.135;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.72331;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20799;QR=8386;RO=234;RPL=0;RPP=1264.64;RPPR=502.486;RPR=581;RUN=1;SAF=0;SAP=1264.64;SAR=581;SRF=1;SRP=502.486;SRR=233;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:19,9:19:684:9:315:-20.2584,0,-53.4615 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 0/1:39:13,26:13:468:26:925:-71.827,0,-30.7195 1/1:34:0,34:0:0:34:1214:-109.567,-10.235,0 1/1:64:0,64:0:0:64:2288:-206.182,-19.2659,0 1/1:50:0,50:0:0:50:1791:-161.472,-15.0515,0 1/1:81:0,81:0:0:81:2908:-261.955,-24.3834,0 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/1:70:39,31:39:1404:31:1112:-79.3192,0,-105.587 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:13:7,6:7:243:6:216:-15.8771,0,-18.2941 0/1:40:21,19:21:756:19:684:-49.8491,0,-56.326 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 0/1:64:38,26:38:1364:26:932:-64.9329,0,-103.795 0/1:16:11,5:11:392:5:180:-11.7356,0,-30.8036 1/1:23:0,23:0:0:23:822:-74.303,-6.92369,0 0/1:70:36,34:36:1288:34:1220:-89.0347,0,-95.1515 0/1:33:16,17:16:567:17:612:-45.4794,0,-41.4267 1/1:58:0,58:0:0:58:2064:-186.031,-17.4597,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 chr04 2619465 . CAAA AAAG,AAAA 55804.1 PASS AB=0.506472,0.491909;ABP=3.46005,3.71304;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1814,783;CIGAR=1X2M1X,1X3M;DP=2601;DPB=2601.25;DPRA=0.742988,1.96614;EPP=3924.71,1694.6;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.95,2.11765;MQM=59.9961,60;MQMR=0;NS=21;NUMALT=2;ODDS=21.3497;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64580,27941;QR=0;RO=0;RPL=2,1;RPP=3924.71,1694.6;RPPR=0;RPR=1812,782;RUN=1,1;SAF=1814,783;SAP=3942.06,1703.27;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:184:0,79,104:0:0:79,104:2828,3717:-533.753,-303.132,-279.351,-230.687,0,-199.38 1/2:82:0,28,54:0:0:28,54:994,1936:-239.25,-158.261,-149.832,-81.3457,0,-65.0901 1/2:126:0,70,55:0:0:70,55:2489,1968:-363.313,-160.479,-139.407,-202.831,0,-186.275 1/1:200:0,199,1:0:0:199,1:7080,36:-636.904,-59.905,0,-633.966,-56.6077,-633.665 1/1:294:0,286,6:0:0:286,6:10197,216:-917.306,-86.0946,0,-899.681,-68.4701,-897.875 1/1:103:0,102,1:0:0:102,1:3648,36:-328.166,-30.7051,0,-325.228,-27.4078,-324.927 1/1:192:0,190,2:0:0:190,2:6744,72:-606.679,-57.1957,0,-600.804,-50.961,-600.202 2/2:164:0,0,164:0:0:0,164:0,5791:-521.306,-521.306,-521.306,-49.3689,-49.3689,0 1/2:259:0,135,124:0:0:135,124:4780,4436:-751.449,-362.084,-321.445,-389.721,0,-352.393 1/2:14:0,7,7:0:0:7,7:252,252:-41.4837,-20.9217,-18.8145,-20.9217,0,-18.8145 1/1:17:0,17,0:0:0:17,0:607,0:-54.9618,-5.11751,0,-54.9618,-5.11751,-54.9618 1/2:24:0,16,8:0:0:16,8:571,288:-70.407,-23.8592,-19.0427,-46.9066,0,-44.4984 1/2:202:0,112,90:0:0:112,90:4002,3229:-590.036,-263.739,-230.023,-326.655,0,-299.563 1/1:153:0,153,0:0:0:153,0:5429,0:-488.743,-46.0576,0,-488.743,-46.0576,-488.743 1/2:160:0,87,73:0:0:87,73:3095,2596:-464.149,-211.914,-185.725,-252.59,0,-230.615 1/2:80:0,25,55:0:0:25,55:891,1968:-233.466,-160.838,-153.313,-72.9838,0,-56.4271 1/1:62:0,62,0:0:0:62,0:2210,0:-199.164,-18.6639,0,-199.164,-18.6639,-199.164 1/2:39:0,16,23:0:0:16,23:558,828:-113.297,-67.9204,-63.1039,-45.7299,0,-38.8062 1/2:66:0,51,15:0:0:51,15:1821,536:-192.521,-44.0594,-28.7068,-148.819,0,-144.303 1/1:134:0,133,1:0:0:133,1:4749,36:-427.209,-40.037,0,-424.272,-36.7397,-423.971 1/1:46:0,46,0:0:0:46,0:1635,0:-147.438,-13.8474,0,-147.438,-13.8474,-147.438 chr04 2626922 . C G 21032.6 PASS AB=0.505895;ABP=3.29192;AC=29;AF=0.690476;AN=42;AO=1052;CIGAR=1X;DP=1588;DPB=1588;DPRA=1.05278;EPP=2287.4;EPPR=1162.58;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9667;MQMR=59.9925;NS=21;NUMALT=1;ODDS=6.15767;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37317;QR=18994;RO=534;RPL=0;RPP=2287.4;RPPR=1162.58;RPR=1052;RUN=1;SAF=0;SAP=2287.4;SAR=1052;SRF=0;SRP=1162.58;SRR=534;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:54,43:54:1910:43:1527:-108.522,0,-142.974 0/1:49:34,15:34:1215:15:536:-33.8243,0,-94.9053 0/1:125:75,50:75:2683:50:1791:-123.843,0,-204.086 1/1:62:0,62:0:0:62:2188:-197.183,-18.6639,0 1/1:89:1,88:1:36:88:3148:-279.947,-23.1934,0 1/1:64:0,64:0:0:64:2270:-204.562,-19.2659,0 1/1:94:1,93:1:36:93:3304:-293.944,-24.6985,0 0/0:72:71,0:71:2509:0:0:0,-21.3731,-225.702 0/1:199:91,108:91:3249:108:3836:-285.531,0,-232.725 0/1:23:13,10:13:460:10:323:-22.4588,0,-34.8117 1/1:8:0,8:0:0:8:280:-25.5393,-2.40824,0 0/1:33:12,21:12:432:21:748:-57.7113,0,-29.2872 0/1:144:69,75:69:2467:75:2684:-198.457,0,-178.935 1/1:117:0,116:0:0:116:4114:-370.085,-34.9195,0 0/1:125:61,64:61:2166:64:2277:-167.563,0,-157.574 0/1:20:8,12:8:280:12:423:-32.3845,0,-19.5187 1/1:56:0,56:0:0:56:1984:-178.832,-16.8577,0 0/1:73:32,41:32:1132:41:1431:-107.107,0,-80.2134 0/1:45:12,33:12:419:33:1179:-92.8709,0,-24.4963 1/1:43:0,43:0:0:43:1515:-136.64,-12.9443,0 1/1:50:0,50:0:0:50:1759:-158.593,-15.0515,0 chr04 2721756 . AGTCTA CGTCTT,CATCTT 27751.6 PASS AB=0.469078,0.528588;ABP=10.1278,9.09397;AC=29,13;AF=0.690476,0.309524;AN=42;AO=909,534;CIGAR=1X4M1X,2X3M1X;DP=1447;DPB=1447;DPRA=0.854375,1.25533;EPP=1976.88,1162.58;EPPR=0;GTI=1;LEN=6,6;MEANALT=1.75,2.15385;MQM=59.6634,33.5524;MQMR=0;NS=21;NUMALT=2;ODDS=1.63297;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31962,18615;QR=0;RO=0;RPL=909,534;RPP=1976.88,1162.58;RPPR=0;RPR=0,0;RUN=1,1;SAF=909,534;SAP=1976.88,1162.58;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:61:0,21,40:0:0:21,40:732,1396:-157.383,-97.8397,-91.518,-59.877,0,-47.8358 1/2:75:0,29,46:0:0:29,46:1002,1578:-191.489,-110.062,-101.332,-81.7548,0,-67.9074 1/2:56:0,30,26:0:0:30,26:1065,921:-152.375,-65.5783,-56.5474,-87.1289,0,-79.3021 1/1:47:0,47,0:0:0:47,0:1652,0:-148.925,-14.1484,0,-148.925,-14.1484,-148.925 1/1:137:0,137,0:0:0:137,0:4854,0:-436.914,-41.2411,0,-436.914,-41.2411,-436.914 1/1:34:0,32,2:0:0:32,2:1135,72:-102.161,-9.63296,0,-97.4933,-4.66817,-96.8912 1/1:73:0,73,0:0:0:73,0:2575,0:-231.947,-21.9752,0,-231.947,-21.9752,-231.947 2/2:80:0,0,79:0:0:0,79:0,2774:-222.333,-222.333,-222.333,-23.7814,-23.7814,0 1/2:155:0,74,81:0:0:74,81:2603,2836:-415.097,-203.192,-180.916,-212.238,0,-187.854 1/2:11:0,3,8:0:0:3,8:108,263:-28.31,-19.4814,-18.5783,-9.17208,0,-6.76384 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:20:0,6,14:0:0:6,14:216,494:-51.4634,-33.8779,-32.0717,-17.9267,0,-13.7122 1/2:194:0,90,104:0:0:90,104:3157,3585:-514.74,-257.866,-230.773,-257.206,0,-225.899 1/1:67:0,67,0:0:0:67,0:2380,0:-214.426,-20.169,0,-214.426,-20.169,-214.426 1/2:71:0,22,49:0:0:22,49:784,1715:-186.797,-122.878,-116.255,-64.2613,0,-49.5108 1/2:32:0,20,12:0:0:20,12:695,427:-86.5005,-30.0011,-23.9805,-56.8223,0,-53.21 1/1:20:0,20,0:0:0:20,0:699,0:-63.2325,-6.0206,0,-63.2325,-6.0206,-63.2325 1/2:84:0,36,46:0:0:36,46:1271,1623:-220.037,-116.548,-105.711,-103.47,0,-89.6224 1/2:98:0,71,27:0:0:71,27:2450,931:-266.672,-67.6387,-46.2655,-199.354,0,-191.226 1/1:75:0,75,0:0:0:75,0:2646,0:-238.367,-22.5773,0,-238.367,-22.5773,-238.367 1/1:53:0,52,0:0:0:52,0:1794,0:-161.273,-15.6536,0,-161.273,-15.6536,-161.273 chr04 2721769 . T C 7301 PASS AB=0.525029;ABP=7.6844;AC=13;AF=0.309524;AN=42;AO=530;CIGAR=1X;DP=1459;DPB=1459;DPRA=1.22824;EPP=1153.89;EPPR=2020.31;GTI=1;LEN=1;MEANALT=1;MQM=33.5906;MQMR=59.62;NS=21;NUMALT=1;ODDS=3.15205;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18849;QR=32993;RO=929;RPL=530;RPP=1153.89;RPPR=2020.31;RPR=0;RUN=1;SAF=530;SAP=1153.89;SAR=0;SRF=929;SRP=2020.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:20,40:20:703:40:1414:-92.7883,0,-45.5317 0/1:76:31,45:31:1104:45:1591:-99.8642,0,-76.4743 0/1:56:31,25:31:1116:25:888:-53.8911,0,-83.894 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.552 0/0:138:138,0:138:4922:0:0:0,-41.5421,-443.046 0/0:36:34,2:34:1212:2:72:0,-5.27023,-103.819 0/0:77:77,0:77:2742:0:0:0,-23.1793,-246.962 1/1:77:0,77:0:0:77:2740:-217.96,-23.1793,0 0/1:152:71,81:71:2547:81:2900:-185.314,0,-183.695 0/1:11:3,8:3:108:8:288:-19.9583,0,-6.76384 0/0:5:5,0:5:172:0:0:0,-1.50515,-15.818 0/1:19:3,16:3:108:16:576:-39.3097,0,-4.3556 0/1:198:95,103:95:3372:103:3654:-231.509,0,-244.035 0/0:67:67,0:67:2388:0:0:0,-20.169,-215.138 0/1:71:22,49:22:773:49:1752:-118.073,0,-48.5164 0/1:30:18,12:18:640:12:432:-24.8018,0,-48.8699 0/0:20:20,0:20:708:0:0:0,-6.0206,-64.0171 0/1:84:39,45:39:1391:45:1604:-103.352,0,-100.116 0/1:102:75,27:75:2603:27:938:-45.3263,0,-203.775 0/0:80:80,0:80:2834:0:0:0,-24.0824,-255.225 0/0:54:54,0:54:1902:0:0:0,-16.2556,-171.351 chr04 2757568 . C T 36005.2 PASS AB=0.441842;ABP=40.6441;AC=29;AF=0.690476;AN=42;AO=1744;CIGAR=1X;DP=2531;DPB=2531;DPRA=1.83881;EPP=3790.06;EPPR=1703.28;GTI=0;LEN=1;MEANALT=1;MQM=59.9839;MQMR=60;NS=21;NUMALT=1;ODDS=13.3002;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62081;QR=27979;RO=787;RPL=1;RPP=3781.38;RPPR=227.124;RPR=1743;RUN=1;SAF=1;SAP=3781.38;SAR=1743;SRF=252;SRP=223.99;SRR=535;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:76,67:76:2711:67:2378:-171.231,0,-201.186 0/1:30:17,13:17:604:13:468:-33.4287,0,-45.6597 0/1:72:34,38:34:1209:38:1360:-101.026,0,-87.44 1/1:202:0,202:0:0:202:7204:-648.417,-60.8081,0 1/1:263:4,259:4:144:259:9255:-819.604,-65.8573,0 1/1:127:0,127:0:0:127:4516:-406.608,-38.2308,0 1/1:157:0,157:0:0:157:5599:-504.032,-47.2617,0 0/0:67:67,0:67:2384:0:0:0,-20.169,-214.818 0/1:321:238,83:238:8487:83:2959:-169.913,0,-667.204 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 1/1:10:0,10:0:0:10:348:-31.6551,-3.0103,0 0/1:32:14,18:14:495:18:637:-48.018,0,-35.2501 0/1:144:67,77:67:2368:77:2751:-204.483,0,-170.028 1/1:91:0,91:0:0:91:3225:-290.457,-27.3937,0 0/1:163:69,94:69:2448:94:3363:-253.818,0,-171.505 0/1:162:113,49:113:4022:49:1752:-109.197,0,-313.403 1/1:121:1,120:1:36:120:4234:-377.644,-32.8264,0 0/1:122:58,64:58:2044:64:2267:-167.567,0,-147.504 0/1:75:22,53:22:775:53:1872:-146.181,0,-47.4939 1/1:117:0,117:0:0:117:4174:-375.844,-35.2205,0 1/1:95:0,95:0:0:95:3359:-302.53,-28.5979,0 chr04 2769281 . G A 32839.3 PASS AB=0.538296;ABP=14.8187;AC=29;AF=0.690476;AN=42;AO=1533;CIGAR=1X;DP=2024;DPB=2024;DPRA=1.60902;EPP=3271.35;EPPR=1054.02;GTI=1;LEN=1;MEANALT=1.15;MQM=59.9993;MQMR=60;NS=21;NUMALT=1;ODDS=14.4464;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54836;QR=17456;RO=488;RPL=7;RPP=3271.35;RPPR=1054.02;RPR=1526;RUN=1;SAF=1533;SAP=3331.88;SAR=0;SRF=488;SRP=1062.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:62,58:62:2213:58:2068:-150.267,0,-163.309 0/1:85:35,49:35:1260:49:1761:-133.128,0,-88.0591 0/1:68:30,38:30:1061:38:1364:-102.591,0,-75.3293 1/1:119:0,119:0:0:119:4280:-385.376,-35.8226,0 1/1:297:0,297:0:0:297:10572:-951.392,-89.4059,0 1/1:94:0,94:0:0:94:3335:-300.364,-28.2968,0 1/1:179:0,179:0:0:179:6414:-577.345,-53.8844,0 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.186 0/1:188:97,91:97:3476:91:3247:-235.856,0,-256.458 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 1/1:8:0,8:0:0:8:282:-25.7211,-2.40824,0 0/1:17:12,5:12:428:5:180:-11.4346,0,-33.7413 0/1:77:30,46:30:1076:46:1656:-126.237,0,-74.0598 1/1:95:1,94:1:36:94:3359:-298.927,-24.9996,0 0/1:146:69,77:69:2457:77:2749:-203.7,0,-177.433 0/1:104:48,56:48:1728:56:2001:-149.055,0,-124.498 1/1:114:0,114:0:0:114:4092:-368.465,-34.3174,0 0/1:50:20,30:20:705:30:1080:-82.4618,0,-48.7213 0/1:65:22,43:22:792:43:1548:-120.046,0,-52.0387 1/1:95:0,95:0:0:95:3412:-307.293,-28.5979,0 1/1:35:0,34:0:0:34:1220:-109.747,-10.235,0 chr04 2769313 . A C 31558 PASS AB=0.550276;ABP=22.8799;AC=29;AF=0.690476;AN=42;AO=1517;CIGAR=1X;DP=1985;DPB=1985;DPRA=1.66121;EPP=3297.13;EPPR=1019.26;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=15.6418;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53657;QR=16679;RO=468;RPL=1517;RPP=3297.13;RPPR=1019.26;RPR=0;RUN=1;SAF=1517;SAP=3297.13;SAR=0;SRF=468;SRP=1019.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:58,55:58:2059:55:1900:-137.256,0,-151.564 0/1:84:35,49:35:1252:49:1707:-128.623,0,-87.6986 0/1:64:27,37:27:964:37:1308:-98.7556,0,-67.8109 1/1:119:0,119:0:0:119:4220:-379.982,-35.8226,0 1/1:290:1,289:1:36:289:10192:-913.624,-83.7004,0 1/1:98:0,98:0:0:98:3503:-315.48,-29.5009,0 1/1:177:0,177:0:0:177:6303:-567.365,-53.2823,0 0/0:58:58,0:58:2064:0:0:0,-17.4597,-186.031 0/1:182:93,89:93:3316:89:3163:-230.106,0,-243.872 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 1/1:8:0,8:0:0:8:279:-25.4475,-2.40824,0 0/1:16:11,5:11:392:5:180:-11.7356,0,-30.8036 0/1:75:28,47:28:1000:47:1665:-127.558,0,-67.7381 1/1:90:1,89:1:36:89:3165:-281.477,-23.4944,0 0/1:147:68,79:68:2432:79:2803:-208.259,0,-174.884 0/1:102:46,56:46:1644:56:1993:-148.938,0,-117.544 1/1:113:0,113:0:0:113:4007:-360.82,-34.0164,0 0/1:51:20,31:20:712:31:1091:-83.1457,0,-49.0541 0/1:64:20,44:20:704:44:1551:-120.615,0,-44.4186 1/1:91:0,91:0:0:91:3198:-288.044,-27.3937,0 1/1:36:1,35:1:32:35:1213:-106.272,-7.63777,0 chr04 2769482 . GTT CTC,GTC 62526.6 PASS AB=0.578947,0.421053;ABP=14.3248,14.3248;AC=40,2;AF=0.952381,0.047619;AN=42;AO=2696,90;CIGAR=1X1M1X,2M1X;DP=2793;DPB=2793.33;DPRA=0,0.910515;EPP=5857.3,198.443;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.28571,2;MQM=58.4462,59.4556;MQMR=0;NS=21;NUMALT=2;ODDS=48.8187;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=95387,3228;QR=0;RO=0;RPL=2696,90;RPP=5857.3,198.443;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5857.3,198.443;SAR=2696,90;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,101,0:0:0:101,0:3574,0:-321.121,-30.404,0,-321.121,-30.404,-321.121 1/1:97:0,96,0:0:0:96,0:3434,0:-306.122,-28.8989,0,-306.122,-28.8989,-306.122 1/1:155:0,155,0:0:0:155,0:5471,0:-491.382,-46.6597,0,-491.382,-46.6597,-491.382 1/1:131:0,131,0:0:0:131,0:4627,0:-413.402,-39.4349,0,-413.402,-39.4349,-413.402 1/1:291:0,291,0:0:0:291,0:10327,0:-928.316,-87.5997,0,-928.316,-87.5997,-928.316 1/1:130:0,130,0:0:0:130,0:4630,0:-416.156,-39.1339,0,-416.156,-39.1339,-416.156 1/1:240:0,240,0:0:0:240,0:8477,0:-760.794,-72.2472,0,-760.794,-72.2472,-760.794 1/1:170:0,165,0:0:0:165,0:5803,0:-519.001,-49.67,0,-519.001,-49.67,-519.001 1/1:250:0,250,0:0:0:250,0:8785,0:-789.673,-75.2575,0,-789.673,-75.2575,-789.673 1/1:26:0,25,0:0:0:25,0:894,0:-80.0799,-7.52575,0,-80.0799,-7.52575,-80.0799 1/1:18:0,18,0:0:0:18,0:635,0:-57.463,-5.41854,0,-57.463,-5.41854,-57.463 1/1:43:0,43,0:0:0:43,0:1532,0:-138.091,-12.9443,0,-138.091,-12.9443,-138.091 1/1:120:0,120,0:0:0:120,0:4280,0:-385.023,-36.1236,0,-385.023,-36.1236,-385.023 1/1:207:0,207,0:0:0:207,0:7214,0:-646.056,-62.3132,0,-646.056,-62.3132,-646.056 1/1:196:0,196,0:0:0:196,0:6951,0:-622.502,-59.0019,0,-622.502,-59.0019,-622.502 1/1:78:0,78,0:0:0:78,0:2786,0:-250.886,-23.4803,0,-250.886,-23.4803,-250.886 1/1:159:0,157,2:0:0:157,2:5569,72:-500.619,-47.2617,0,-494.745,-41.027,-494.142 1/2:146:0,82,64:0:0:82,64:2901,2300:-423.376,-187.654,-162.969,-236.079,0,-216.813 1/2:63:0,39,24:0:0:39,24:1379,856:-181.365,-70.134,-58.3939,-111.585,0,-104.361 1/1:124:0,124,0:0:0:124,0:4397,0:-391.042,-37.3277,0,-391.042,-37.3277,-391.042 1/1:48:0,48,0:0:0:48,0:1721,0:-155.153,-14.4494,0,-155.153,-14.4494,-155.153 chr04 2800647 . CCGCC CCGCT,TGGCT 35575.5 PASS AB=0.328173,0.663571;ABP=251.506,228.2;AC=29,13;AF=0.690476,0.309524;AN=42;AO=966,707;CIGAR=4M1X,2X2M1X;DP=1686;DPB=1686;DPRA=1.26719,1.61109;EPP=2057.45,1512.29;EPPR=0;GTI=1;LEN=1,5;MEANALT=2.2,2.61538;MQM=59.9979,59.6308;MQMR=0;NS=21;NUMALT=2;ODDS=10.4481;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34533,24971;QR=0;RO=0;RPL=5,3;RPP=2057.45,1512.29;RPPR=0;RPR=961,704;RUN=1,1;SAF=966,707;SAP=2100.65,1538.24;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,27,77:0:0:27,77:960,2722:-299.907,-221.675,-213.547,-78.2276,0,-55.0483 1/2:99:0,33,66:0:0:33,66:1180,2348:-287.881,-191.664,-181.73,-96.5741,0,-76.7061 1/2:96:0,26,69:0:0:26,69:932,2438:-274.537,-198.522,-190.695,-76.0123,0,-55.2412 1/1:43:0,43,0:0:0:43,0:1532,0:-138.173,-12.9443,0,-138.173,-12.9443,-138.173 1/1:187:0,186,1:0:0:186,1:6668,27:-599.926,-55.9916,0,-597.797,-53.5928,-597.496 1/1:74:0,73,0:0:0:73,0:2592,0:-233.276,-21.9752,0,-233.276,-21.9752,-233.276 1/1:102:0,100,0:0:0:100,0:3565,0:-320.751,-30.103,0,-320.751,-30.103,-320.751 2/2:64:0,0,63:0:0:0,63:0,2235:-201.067,-201.067,-201.067,-18.9649,-18.9649,0 1/2:168:0,58,108:0:0:58,108:2088,3776:-477.536,-307.162,-289.702,-170.37,0,-137.859 1/2:14:0,8,6:0:0:8,6:280,215:-40.6694,-17.893,-15.4848,-23.1311,0,-21.3249 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:34:0,13,21:0:0:13,21:468,740:-98.7813,-60.5919,-56.6785,-38.5463,0,-32.2246 1/2:103:0,34,67:0:0:34,67:1220,2380:-293.31,-193.795,-183.56,-99.5639,0,-79.3949 1/1:74:0,74,0:0:0:74,0:2640,0:-237.847,-22.2762,0,-237.847,-22.2762,-237.847 1/2:201:0,60,140:0:0:60,140:2152,4918:-575.858,-400.328,-382.267,-175.604,0,-133.46 1/2:68:0,17,51:0:0:17,51:612,1809:-197.674,-147.737,-142.62,-50.2959,0,-34.9434 1/1:54:0,53,0:0:0:53,0:1891,0:-170.215,-15.9546,0,-170.215,-15.9546,-170.215 1/2:52:0,23,29:0:0:23,29:828,1041:-152.836,-85.2748,-78.3511,-67.9204,0,-59.1906 1/2:28:0,19,9:0:0:19,9:671,322:-81.2444,-26.6043,-20.8847,-54.9962,0,-52.287 1/1:71:0,71,0:0:0:71,0:2552,0:-229.93,-21.3731,0,-229.93,-21.3731,-229.93 1/1:41:0,41,0:0:0:41,0:1450,0:-130.794,-12.3422,0,-130.794,-12.3422,-130.794 chr04 2800678 . A T 19295.8 PASS AB=0.350538;ABP=183.462;AC=29;AF=0.690476;AN=42;AO=970;CIGAR=1X;DP=1637;DPB=1637;DPRA=1.27016;EPP=2109.34;EPPR=1449.21;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9876;MQMR=59.6637;NS=21;NUMALT=1;ODDS=7.26932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34638;QR=23427;RO=666;RPL=970;RPP=2109.34;RPPR=1449.21;RPR=0;RUN=1;SAF=970;SAP=2109.34;SAR=0;SRF=666;SRP=1449.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:74,27:74:2637:27:959:-56.2214,0,-207.158 0/1:89:55,33:55:1972:33:1184:-80.0198,0,-150.89 0/1:92:65,27:65:2281:27:972:-60.1031,0,-177.839 1/1:41:0,41:0:0:41:1472:-132.776,-12.3422,0 1/1:186:1,185:1:36:185:6586:-589.224,-52.3933,0 1/1:76:0,76:0:0:76:2723:-245.312,-22.8783,0 1/1:101:0,101:0:0:101:3600:-324.205,-30.404,0 0/0:62:62,0:62:2160:0:0:0,-18.6639,-194.644 0/1:164:104,60:104:3607:60:2152:-144.578,0,-275.423 0/1:15:6,9:6:186:9:320:-24.6269,0,-12.5281 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:36:21,15:21:737:15:525:-36.741,0,-55.8054 0/1:99:64,35:64:2269:35:1260:-83.9035,0,-173.864 1/1:73:0,73:0:0:73:2587:-233.078,-21.9752,0 0/1:189:128,61:128:4523:61:2174:-139.031,0,-350.318 0/1:68:51,17:51:1783:17:612:-34.9434,0,-140.274 1/1:55:0,55:0:0:55:1958:-176.492,-16.5567,0 0/1:49:26,23:26:916:23:828:-60.0936,0,-68.006 0/1:28:9,19:9:320:19:684:-53.4615,0,-20.7092 1/1:70:0,70:0:0:70:2494:-224.713,-21.0721,0 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 chr04 2814285 . ACT AA,AAT 79586.1 PASS AB=0.614064,0.385936;ABP=141.219,141.219;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2335,609;CIGAR=1M1D1X,1M1X1M;DP=2948;DPB=2169.67;DPRA=1.14837,1.07347;EPP=5056.04,1316.77;EPPR=0;GTI=2;LEN=2,1;MEANALT=2,2;MQM=47.7974,59.5829;MQMR=0;NS=21;NUMALT=2;ODDS=1.51006;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=83471,21717;QR=0;RO=0;RPL=1088,233;RPP=26.5208,75.924;RPPR=0;RPR=1247,376;RUN=1,1;SAF=1090,234;SAP=25.3528,73.8987;SAR=1245,375;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:154:0,107,47:0:0:107,47:3836,1680:-444.339,-137.322,-105.112,-307.372,0,-293.223 1/1:52:0,48,3:0:0:48,3:1704,108:-147.134,-14.4494,0,-138.325,-5.5408,-137.422 1/2:108:0,60,48:0:0:60,48:2156,1724:-312.101,-140.323,-122.261,-172.132,0,-157.683 1/1:208:0,207,1:0:0:207,1:7401,25:-653.91,-62.3132,0,-651.962,-60.1148,-651.66 1/1:345:0,342,3:0:0:342,3:12210,104:-1084.46,-102.952,0,-1076.24,-94.3879,-1075.33 1/1:135:0,134,1:0:0:134,1:4816,36:-413.928,-40.338,0,-410.993,-37.0445,-410.692 1/1:257:0,255,0:0:0:255,0:9123,0:-793.871,-76.7627,0,-793.871,-76.7627,-793.871 2/2:123:0,0,123:0:0:0,123:0,4375:-393.839,-393.839,-393.839,-37.0267,-37.0267,0 1/2:270:0,166,104:0:0:166,104:5937,3710:-778.567,-302.786,-252.815,-476.136,0,-444.829 1/2:11:0,7,4:0:0:7,4:244,144:-31.7044,-12.1032,-9.99595,-19.9555,0,-18.7514 1/1:9:0,9,0:0:0:9,0:324,0:-29.2423,-2.70927,0,-29.2423,-2.70927,-29.2423 1/2:25:0,17,8:0:0:17,8:612,284:-72.7791,-23.4834,-18.3659,-49.6507,0,-47.2424 1/2:214:0,127,87:0:0:127,87:4507,3094:-612.046,-252.496,-214.265,-359.903,0,-333.713 1/1:180:0,179,0:0:0:179,0:6379,0:-565.728,-53.8844,0,-565.728,-53.8844,-565.728 1/2:188:0,108,80:0:0:108,80:3869,2864:-542.45,-233.538,-201.027,-308.907,0,-284.824 1/2:58:0,51,7:0:0:51,7:1832,252:-168.042,-20.9217,-5.56922,-147.479,0,-145.372 1/1:84:0,84,0:0:0:84,0:2999,0:-268.053,-25.2865,0,-268.053,-25.2865,-268.053 1/2:91:0,42,49:0:0:42,49:1495,1752:-261.393,-143.213,-130.57,-118.531,0,-103.78 1/2:104:0,66,38:0:0:66,38:2368,1349:-300.102,-110.241,-90.3728,-190.216,0,-178.776 1/1:243:0,239,4:0:0:239,4:8561,144:-750.167,-71.9462,0,-738.417,-59.8367,-737.213 1/1:89:0,87,2:0:0:87,2:3098,72:-267.109,-26.1896,0,-261.28,-20.0038,-260.678 chr04 2858728 . G A 22865.4 PASS AB=0.565841;ABP=31.8906;AC=29;AF=0.690476;AN=42;AO=1106;CIGAR=1X;DP=1505;DPB=1505;DPRA=1.20417;EPP=2404.66;EPPR=867.256;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9123;MQMR=60;NS=21;NUMALT=1;ODDS=5.58113;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39448;QR=14253;RO=398;RPL=0;RPP=2404.66;RPPR=867.256;RPR=1106;RUN=1;SAF=1106;SAP=2404.66;SAR=0;SRF=398;SRP=867.256;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:38,93:38:1364:93:3297:-257.495,0,-83.6258 0/1:53:35,18:35:1248:18:628:-40.8886,0,-96.6703 0/1:69:27,42:27:972:42:1504:-114.884,0,-67.0268 1/1:67:0,67:0:0:67:2401:-216.346,-20.169,0 1/1:148:1,147:1:32:147:5242:-468.714,-41.3531,0 1/1:108:3,105:3:108:105:3730:-325.821,-22.4361,0 1/1:121:2,119:2:72:119:4253:-376.097,-29.5879,0 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 0/1:99:50,48:50:1788:48:1720:-125.225,0,-131.342 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:9:5,4:5:165:4:144:-10.6043,0,-12.4643 0/1:134:57,77:57:2044:77:2754:-207.206,0,-143.894 1/1:98:0,98:0:0:98:3488:-314.131,-29.5009,0 0/1:90:40,50:40:1428:50:1800:-135.189,0,-101.725 0/1:63:36,27:36:1292:27:968:-68.4725,0,-97.6189 1/1:50:0,50:0:0:50:1769:-159.491,-15.0515,0 0/1:62:27,35:27:972:35:1256:-94.6814,0,-69.134 0/1:53:16,37:16:576:37:1324:-103.421,0,-36.2204 1/1:56:0,56:0:0:56:1982:-178.651,-16.8577,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 chr04 2873958 . TGAA TGAT,CGAT 68932.9 PASS AB=0.6028,0.395726;ABP=127.572,131.169;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2568,631;CIGAR=3M1X,1X2M1X;DP=3204;DPB=3204;DPRA=1.77045,1.06284;EPP=5579.35,1373.21;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.95,2.125;MQM=59.9716,59.9937;MQMR=0;NS=21;NUMALT=2;ODDS=17.2514;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=91737,22279;QR=0;RO=0;RPL=2568,631;RPP=5579.35,1373.21;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5579.35,1373.21;SAR=2568,631;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:177:0,96,81:0:0:96,81:3418,2858:-511.655,-233.076,-204.177,-278.933,0,-254.549 1/2:179:0,102,76:0:0:102,76:3660,2698:-518.467,-219.925,-189.22,-298.637,0,-275.759 1/2:156:0,107,49:0:0:107,49:3829,1741:-454.376,-142.224,-110.013,-312.509,0,-297.758 1/1:239:0,238,1:0:0:238,1:8518,36:-766.127,-71.6451,0,-763.189,-68.3479,-762.888 1/1:444:0,443,1:0:0:443,1:15769,36:-1418.54,-133.356,0,-1415.6,-130.059,-1415.3 1/1:102:0,102,0:0:0:102,0:3672,0:-330.681,-30.7051,0,-330.681,-30.7051,-330.681 1/1:312:0,310,0:0:0:310,0:11111,0:-999.522,-93.3193,0,-999.522,-93.3193,-999.522 2/2:88:0,0,88:0:0:0,88:0,3132:-282.107,-282.107,-282.107,-26.4906,-26.4906,0 1/2:288:0,190,97:0:0:190,97:6802,3405:-831.805,-277.107,-219.911,-554.692,0,-525.492 1/2:18:0,13,5:0:0:13,5:468,165:-51.848,-13.6685,-9.75506,-38.5177,0,-37.0125 1/1:14:0,14,0:0:0:14,0:504,0:-45.6981,-4.21442,0,-45.6981,-4.21442,-45.6981 1/2:55:0,30,25:0:0:30,25:1080,883:-160.388,-72.2621,-63.2312,-88.4823,0,-80.9566 1/2:112:0,67,45:0:0:67,45:2389,1583:-323.956,-129.213,-109.044,-195.097,0,-181.55 1/1:241:0,241,0:0:0:241,0:8581,0:-772.094,-72.5482,0,-772.094,-72.5482,-772.094 1/2:171:0,90,81:0:0:90,81:3210,2854:-494.387,-232.714,-205.622,-262.027,0,-237.644 1/2:119:0,73,46:0:0:73,46:2605,1618:-344.428,-132.06,-110.084,-212.722,0,-198.874 1/1:192:0,189,2:0:0:189,2:6766,72:-608.676,-56.8947,0,-602.801,-50.9666,-602.199 1/2:42:0,24,18:0:0:24,18:864,637:-122.741,-52.2398,-45.015,-70.8578,0,-65.4393 1/2:40:0,26,14:0:0:26,14:906,493:-114.162,-40.4882,-32.6615,-74.0242,0,-69.8097 1/1:156:0,154,2:0:0:154,2:5484,68:-493.343,-46.3586,0,-487.827,-40.503,-487.225 1/1:59:0,59,0:0:0:59,0:2101,0:-189.358,-17.7608,0,-189.358,-17.7608,-189.358 chr04 2883731 . A T 9151.29 PASS AB=0.43346;ABP=33.3531;AC=13;AF=0.309524;AN=42;AO=413;CIGAR=1X;DP=1592;DPB=1592;DPRA=0.801509;EPP=16.6858;EPPR=331.282;GTI=0;LEN=1;MEANALT=1;MQM=59.9685;MQMR=59.9567;NS=21;NUMALT=1;ODDS=20.5358;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14715;QR=42171;RO=1178;RPL=232;RPP=16.6858;RPPR=331.282;RPR=181;RUN=1;SAF=0;SAP=899.828;SAR=413;SRF=0;SRP=2561;SRR=1178;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:60,59:60:2143:59:2116:-154.886,0,-157.314 0/1:59:35,24:35:1260:24:856:-59.6003,0,-95.9447 0/1:42:22,20:22:792:20:712:-51.7634,0,-58.9624 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.261 0/0:259:259,0:259:9246:0:0:0,-77.9668,-832.106 0/0:38:37,1:37:1332:1:36:0,-7.84086,-116.584 0/0:108:107,0:107:3832:0:0:0,-32.2102,-344.716 1/1:65:0,65:0:0:65:2317:-208.79,-19.567,0 0/1:86:58,28:58:2072:28:999:-64.3366,0,-160.845 0/1:21:13,8:13:456:8:284:-19.5817,0,-35.047 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:31:18,13:18:640:13:464:-32.7656,0,-48.5928 0/1:57:22,35:22:783:35:1237:-94.4752,0,-53.6342 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.232 0/1:113:67,46:67:2412:46:1636:-113.509,0,-183.319 0/1:52:28,24:28:1000:24:845:-60.7135,0,-74.6618 0/0:125:123,2:123:4399:2:72:0,-30.7955,-389.249 0/1:144:81,63:81:2892:63:2264:-160.674,0,-217.15 0/1:65:43,22:43:1548:22:769:-49.9617,0,-120.046 0/0:45:42,3:42:1508:3:108:0,-3.47118,-125.939 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 chr04 2883743 . A T 6906.75 PASS AB=0.43609;ABP=31.3211;AC=13;AF=0.309524;AN=42;AO=418;CIGAR=1X;DP=1597;DPB=1597;DPRA=0.807561;EPP=910.686;EPPR=2563.18;GTI=0;LEN=1;MEANALT=1;MQM=59.8995;MQMR=59.9262;NS=21;NUMALT=1;ODDS=20.2004;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14957;QR=42153;RO=1179;RPL=418;RPP=910.686;RPPR=2563.18;RPR=0;RUN=1;SAF=0;SAP=910.686;SAR=418;SRF=0;SRP=2563.18;SRR=1179;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:61,64:61:2188:64:2296:-169.143,0,-159.555 0/1:59:35,24:35:1260:24:849:-58.9671,0,-95.9447 0/1:42:22,20:22:784:20:720:-52.4855,0,-58.2407 0/0:65:65,0:65:2295:0:0:0,-19.5669,-206.804 0/0:257:257,0:257:9167:0:0:0,-77.3647,-824.983 0/0:36:35,1:35:1260:1:36:0,-7.2388,-110.107 0/0:107:107,0:107:3813:0:0:0,-32.2102,-343.367 1/1:64:0,64:0:0:64:2304:-207.62,-19.2659,0 0/1:88:59,29:59:2120:29:1029:-66.4302,0,-164.532 0/1:20:12,8:12:428:8:288:-20.2468,0,-32.8382 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:32:19,13:19:684:13:468:-32.8267,0,-52.2527 0/1:59:24,35:24:864:35:1256:-95.5845,0,-60.3218 0/0:60:60,0:60:2129:0:0:0,-18.0618,-191.877 0/1:113:68,45:68:2436:45:1605:-110.714,0,-185.479 0/1:51:27,24:27:972:24:849:-61.3753,0,-72.4454 0/0:123:121,2:121:4321:2:72:0,-30.1935,-382.232 0/1:144:80,64:80:2872:64:2300:-163.912,0,-215.353 0/1:65:43,22:43:1548:22:777:-50.6834,0,-120.046 0/0:47:44,3:44:1580:3:108:0,-4.07324,-132.416 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 chr04 2883750 . T C 24063.1 PASS AB=0.562183;ABP=29.4758;AC=29;AF=0.690476;AN=42;AO=1163;CIGAR=1X;DP=1580;DPB=1580;DPRA=1.22419;EPP=2528.43;EPPR=902;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9544;MQMR=59.9106;NS=21;NUMALT=1;ODDS=16.1183;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41522;QR=14791;RO=414;RPL=1163;RPP=2528.43;RPPR=902;RPR=0;RUN=1;SAF=0;SAP=2528.43;SAR=1163;SRF=0;SRP=902;SRR=414;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:61,62:61:2150:62:2228:-163.755,0,-156.608 0/1:59:24,35:24:864:35:1260:-95.9447,0,-60.3218 0/1:43:20,23:20:720:23:824:-61.539,0,-52.1845 1/1:63:1,62:1:36:62:2213:-195.832,-15.3666,0 1/1:257:1,256:1:36:256:9105:-815.743,-73.7664,0 1/1:37:1,35:1:36:35:1251:-109.296,-7.59863,0 1/1:106:0,105:0:0:105:3744:-336.802,-31.6082,0 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 0/1:86:29,57:29:1036:57:2037:-157.712,0,-67.6547 0/1:19:7,12:7:252:12:428:-33.1346,0,-17.3094 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:31:13,18:13:464:18:639:-48.5063,0,-32.7656 0/1:59:35,24:35:1244:24:864:-60.3218,0,-94.5039 1/1:59:0,59:0:0:59:2112:-190.349,-17.7608,0 0/1:112:43,68:43:1544:68:2432:-185.362,0,-105.471 0/1:51:24,27:24:849:27:964:-71.7243,0,-61.3753 1/1:122:1,121:1:36:121:4323:-385.645,-33.1274,0 0/1:143:64,79:64:2296:79:2810:-210.09,0,-163.854 0/1:62:24,38:24:864:38:1355:-103.586,0,-59.4187 1/1:45:3,42:3:108:42:1508:-125.939,-3.47118,0 1/1:32:1,31:1:36:31:1101:-95.801,-6.03469,0 chr04 2883759 . C T 24713.6 PASS AB=0.567259;ABP=33.9731;AC=29;AF=0.690476;AN=42;AO=1188;CIGAR=1X;DP=1598;DPB=1598;DPRA=1.19844;EPP=2582.72;EPPR=893.314;GTI=0;LEN=1;MEANALT=1;MQM=59.9049;MQMR=59.978;NS=21;NUMALT=1;ODDS=16.9804;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42415;QR=14616;RO=410;RPL=1188;RPP=2582.72;RPPR=893.314;RPR=0;RUN=1;SAF=0;SAP=2582.72;SAR=1188;SRF=0;SRP=893.314;SRR=410;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:62,61:62:2224:61:2176:-159.079,0,-163.397 0/1:57:24,33:24:860:33:1173:-88.7168,0,-60.5631 0/1:42:20,22:20:720:22:784:-58.2407,0,-52.4855 1/1:65:0,65:0:0:65:2332:-210.137,-19.567,0 1/1:259:0,259:0:0:259:9219:-829.584,-77.9668,0 1/1:38:1,37:1:36:37:1332:-116.584,-7.84087,0 1/1:111:0,111:0:0:111:3953:-355.691,-33.4143,0 0/0:64:64,0:64:2258:0:0:0,-19.2659,-203.48 0/1:88:29,59:29:1044:59:2090:-161.857,0,-67.7735 0/1:20:8,12:8:273:12:413:-31.4772,0,-18.8796 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:31:12,19:12:428:19:680:-52.1926,0,-29.5269 0/1:59:35,24:35:1244:24:864:-60.3218,0,-94.5039 1/1:60:0,60:0:0:60:2130:-191.965,-18.0618,0 0/1:112:44,68:44:1568:68:2440:-186.14,0,-107.696 0/1:48:21,27:21:756:27:968:-72.9879,0,-53.9178 1/1:125:1,124:1:36:124:4441:-396.257,-34.0305,0 0/1:142:63,79:63:2233:79:2820:-211.286,0,-158.486 0/1:66:23,43:23:828:43:1544:-119.385,0,-54.9761 1/1:47:3,44:3:108:44:1584:-132.776,-4.07324,0 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 chr04 2898756 . TTTTA CTTTT,GTTTT 42049.3 PASS AB=0.510638,0.48227;ABP=3.98053,5.70539;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1409,568;CIGAR=1X3M1X,1X3M1X;DP=1992;DPB=1992;DPRA=1.0691,1.05382;EPP=2993.52,1219.1;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.25,2.71429;MQM=52.2775,52.8768;MQMR=0;NS=21;NUMALT=2;ODDS=12.4677;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49748,20125;QR=0;RO=0;RPL=8,2;RPP=2993.52,1219.1;RPPR=0;RPR=1401,566;RUN=1,1;SAF=1409,568;SAP=3062.61,1236.41;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,55,58:0:0:55,58:1929,2044:-322.972,-166.396,-149.84,-156.926,0,-139.466 1/2:109:0,53,55:0:0:53,55:1858,1972:-309.497,-159.58,-143.625,-149.93,0,-133.374 1/2:82:0,52,28:0:0:52,28:1844,998:-231.143,-81.1663,-65.5127,-150.006,0,-141.577 1/1:155:0,155,0:0:0:155,0:5508,0:-493.442,-46.6597,0,-493.442,-46.6597,-493.442 1/1:181:0,175,1:0:0:175,1:6181,36:-554.67,-52.6803,0,-551.737,-49.7401,-551.436 1/1:91:0,91,0:0:0:91,0:3213,0:-286.358,-27.3937,0,-286.358,-27.3937,-286.358 1/1:167:0,167,0:0:0:167,0:5887,0:-525.717,-50.272,0,-525.717,-50.272,-525.717 2/2:89:0,0,89:0:0:0,89:0,3142:-281.583,-281.583,-281.583,-26.7917,-26.7917,0 1/2:219:0,106,111:0:0:106,111:3730,3917:-620.857,-317.735,-285.826,-303.126,0,-269.711 1/2:7:0,2,5:0:0:2,5:71,180:-20.7744,-15.0053,-14.4032,-6.12456,0,-4.61941 1/1:4:0,4,0:0:0:4,0:144,0:-13.2414,-1.20412,0,-13.2414,-1.20412,-13.2414 1/2:31:0,16,15:0:0:16,15:569,532:-89.5487,-43.5101,-38.6936,-46.3918,0,-41.8763 1/2:146:0,62,84:0:0:62,84:2199,2960:-418.926,-240.787,-222.123,-178.491,0,-153.205 1/1:91:0,91,0:0:0:91,0:3190,0:-286.538,-27.3937,0,-286.538,-27.3937,-286.538 1/2:96:0,53,43:0:0:53,43:1873,1534:-277.346,-125.087,-109.132,-152.614,0,-139.669 1/2:75:0,44,31:0:0:44,31:1541,1097:-214.557,-89.5917,-76.3463,-125.317,0,-115.985 1/1:117:0,115,0:0:0:115,0:4076,0:-365.79,-34.6185,0,-365.79,-34.6185,-365.79 1/2:44:0,23,20:0:0:23,20:813,712:-123.638,-57.6065,-50.6829,-66.0449,0,-60.0243 1/2:65:0,38,26:0:0:38,26:1349,929:-185.29,-75.6253,-64.1862,-109.66,0,-101.834 1/1:94:0,91,2:0:0:91,2:3213,72:-288.017,-27.3937,0,-282.158,-21.4825,-281.556 1/1:16:0,16,0:0:0:16,0:560,0:-50.3002,-4.81648,0,-50.3002,-4.81648,-50.3002 chr04 2901392 . G A 18917.7 PASS AB=0.509194;ABP=4.04843;AC=13;AF=0.309524;AN=42;AO=808;CIGAR=1X;DP=2541;DPB=2541;DPRA=1.29389;EPP=11.4382;EPPR=70.4914;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.7191;MQMR=59.9584;NS=21;NUMALT=1;ODDS=12.635;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28875;QR=61971;RO=1732;RPL=432;RPP=11.4382;RPPR=69.333;RPR=376;RUN=1;SAF=0;SAP=1757.56;SAR=808;SRF=1;SRP=3755.32;SRR=1731;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:26,28:26:936:28:983:-72.3536,0,-68.3038 0/1:160:71,89:71:2539:89:3165:-236.896,0,-180.596 0/1:117:61,56:61:2159:56:2012:-146.119,0,-159.354 0/0:115:115,0:115:4123:0:0:0,-34.6184,-371.253 0/0:224:220,4:220:7833:4:144:0,-54.1171,-691.677 0/0:131:131,0:131:4682:0:0:0,-39.4349,-421.409 0/0:176:176,0:176:6303:0:0:0,-52.9813,-567.348 1/1:84:0,84:0:0:84:2985:-268.534,-25.2865,0 0/1:156:65,90:65:2336:90:3223:-243.272,0,-163.48 0/1:44:16,28:16:572:28:1008:-77.791,0,-38.5681 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/1:66:36,30:36:1292:30:1057:-75.5704,0,-96.7158 0/1:133:62,71:62:2212:71:2532:-187.595,0,-159.308 0/0:152:152,0:152:5439:0:0:0,-45.7566,-489.639 0/1:259:147,112:147:5276:112:4020:-283.659,0,-397.007 0/1:90:38,52:38:1355:52:1868:-141.303,0,-95.157 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/1:250:117,133:117:4199:133:4762:-353.458,0,-302.832 0/1:85:54,31:54:1936:31:1116:-75.1641,0,-148.929 0/0:104:104,0:104:3720:0:0:0,-31.3071,-334.979 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.759 chr04 2921907 . A T 13205.6 PASS AB=0.45339;ABP=11.917;AC=29;AF=0.690476;AN=42;AO=736;CIGAR=1X;DP=1071;DPB=1071;DPRA=0.664;EPP=1601.21;EPPR=730.454;GTI=0;LEN=1;MEANALT=1;MQM=39.159;MQMR=59.8388;NS=21;NUMALT=1;ODDS=5.09964;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25995;QR=11999;RO=335;RPL=0;RPP=1601.21;RPPR=730.454;RPR=736;RUN=1;SAF=0;SAP=1601.21;SAR=736;SRF=0;SRP=730.454;SRR=335;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:33:13,20:13:464:20:697:-46.1864,0,-32.162 0/1:44:25,19:25:892:19:676:-47.3124,0,-67.3544 0/1:44:25,19:25:900:19:672:-39.7997,0,-68.0726 1/1:77:0,77:0:0:77:2709:-212.095,-23.1793,0 1/1:110:0,110:0:0:110:3888:-302.926,-33.1133,0 1/1:35:0,35:0:0:35:1225:-109.463,-10.5361,0 1/1:69:0,69:0:0:69:2456:-218.528,-20.7711,0 0/0:75:75,0:75:2696:0:0:0,-22.5772,-242.883 0/1:83:51,32:51:1803:32:1129:-68.5495,0,-136.542 0/1:6:2,4:2:68:4:144:-11.4638,0,-4.65153 1/1:7:0,7:0:0:7:252:-22.8276,-2.10721,0 0/1:10:4,6:4:144:6:212:-16.3465,0,-10.3033 0/1:50:25,25:25:896:25:892:-55.2528,0,-65.9058 1/1:76:0,76:0:0:76:2677:-211.175,-22.8783,0 0/1:56:27,29:27:972:29:1032:-66.4653,0,-70.9387 0/1:61:42,19:42:1508:19:676:-36.6735,0,-117.652 1/1:68:0,68:0:0:68:2366:-192.948,-20.47,0 0/1:58:31,27:31:1116:27:960:-67.0936,0,-83.292 0/1:27:13,14:13:468:14:504:-34.808,0,-34.3318 1/1:50:2,48:2:72:48:1711:-146.802,-8.21478,0 1/1:32:0,32:0:0:32:1117:-99.6147,-9.63296,0 chr04 2921916 . CTC ATT,ATC 22804.8 PASS AB=0.479592,0.518367;ABP=4.78293,4.44613;AC=29,13;AF=0.690476,0.309524;AN=42;AO=783,332;CIGAR=1X1M1X,1X2M;DP=1116;DPB=1116;DPRA=0.684211,0.766445;EPP=1476.84,715.279;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.65,2;MQM=39.281,59.7801;MQMR=0;NS=21;NUMALT=2;ODDS=3.5567;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27603,11866;QR=0;RO=0;RPL=756,331;RPP=1476.84,715.279;RPPR=0;RPR=27,1;RUN=1,1;SAF=0,0;SAP=1703.27,723.939;SAR=783,332;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:32:0,20,12:0:0:20,12:710,432:-86.2084,-35.6073,-29.5867,-50.9441,0,-47.3317 1/2:46:0,22,24:0:0:22,24:768,855:-131.753,-70.0461,-63.4234,-62.0573,0,-54.8326 1/2:46:0,21,25:0:0:21,25:743,900:-126.616,-73.7922,-67.4705,-53.1582,0,-45.6324 1/1:79:0,79,0:0:0:79,0:2789,0:-217.568,-23.7814,0,-217.568,-23.7814,-217.568 1/1:113:0,113,0:0:0:113,0:3972,0:-310.277,-34.0164,0,-310.277,-34.0164,-310.277 1/1:37:0,37,0:0:0:37,0:1296,0:-115.574,-11.1381,0,-115.574,-11.1381,-115.574 1/1:74:0,74,0:0:0:74,0:2625,0:-233.76,-22.2762,0,-233.76,-22.2762,-233.76 2/2:76:0,0,76:0:0:0,76:0,2709:-244.052,-244.052,-244.052,-22.8783,-22.8783,0 1/2:83:0,33,50:0:0:33,50:1171,1767:-230.287,-143.977,-134.043,-86.6453,0,-71.5938 1/2:7:0,5,2:0:0:5,2:180,72:-20.8678,-6.23466,-4.72951,-14.9927,0,-14.3906 1/1:8:0,8,0:0:0:8,0:278,0:-25.0199,-2.40824,0,-25.0199,-2.40824,-25.0199 1/2:10:0,6,4:0:0:6,4:216,144:-29.6601,-12.1095,-10.3033,-17.9099,0,-16.7058 1/2:52:0,27,25:0:0:27,25:944,896:-140.343,-73.4315,-65.3037,-67.2456,0,-59.7199 1/1:84:0,84,0:0:0:84,0:2948,0:-234.155,-25.2865,0,-234.155,-25.2865,-234.155 1/2:62:0,34,28:0:0:34,28:1208,999:-169.223,-81.7958,-71.5608,-87.7672,0,-79.3384 1/2:63:0,22,41:0:0:22,41:769,1472:-176.489,-120.434,-113.811,-56.3864,0,-44.0441 1/1:70:0,70,0:0:0:70,0:2448,0:-198.003,-21.0721,0,-198.003,-21.0721,-198.003 1/2:61:0,30,30:0:0:30,30:1076,1080:-173.337,-88.1225,-79.0916,-85.209,0,-76.1781 1/2:28:0,15,13:0:0:15,13:534,468:-78.8471,-38.5463,-34.0308,-40.6478,0,-36.7344 1/1:53:0,51,2:0:0:51,2:1799,72:-161.226,-15.3525,0,-155.35,-9.11787,-154.748 1/1:32:0,32,0:0:0:32,0:1129,0:-100.611,-9.63296,0,-100.611,-9.63296,-100.611 chr04 2939089 . T C 28918.8 PASS AB=0.540217;ABP=15.9353;AC=29;AF=0.690476;AN=42;AO=1439;CIGAR=1X;DP=1941;DPB=1941;DPRA=1.29792;EPP=3093.11;EPPR=1088.75;GTI=1;LEN=1;MEANALT=1.1;MQM=53.6734;MQMR=59.716;NS=21;NUMALT=1;ODDS=6.55316;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49984;QR=17253;RO=500;RPL=1435;RPP=3093.11;RPPR=1088.75;RPR=4;RUN=1;SAF=1439;SAP=3127.76;SAR=0;SRF=500;SRP=1088.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:51,69:51:1776:69:2411:-180.849,0,-123.991 0/1:59:23,36:23:803:36:1272:-96.1538,0,-54.8244 0/1:116:50,66:50:1689:66:2280:-169.751,0,-117.367 1/1:43:0,43:0:0:43:1448:-130.491,-12.9443,0 1/1:282:3,278:3:104:278:9671:-858.047,-75.1107,0 1/1:92:0,92:0:0:92:3228:-288.647,-27.6948,0 1/1:167:2,165:2:72:165:5666:-500.848,-43.4357,0 0/0:72:72,0:72:2501:0:0:0,-21.6742,-225.25 0/1:176:84,91:84:2903:91:3191:-234.103,0,-208.469 0/1:11:4,7:4:140:7:248:-19.2074,0,-9.62392 1/1:7:0,7:0:0:7:233:-21.2494,-2.10721,0 0/1:22:4,18:4:116:18:632:-50.1178,0,-4.10486 0/1:156:81,75:81:2804:75:2603:-187.318,0,-205.642 1/1:132:0,132:0:0:132:4570:-410.534,-39.736,0 0/1:126:62,64:62:2109:64:2200:-159.883,0,-152.147 0/1:69:27,42:27:936:42:1463:-110.838,0,-63.7819 1/1:104:0,104:0:0:104:3649:-328.155,-31.3071,0 0/1:39:25,14:25:876:14:468:-29.8703,0,-67.4169 0/1:26:11,15:11:388:15:528:-39.9258,0,-27.4167 1/1:97:0,97:0:0:97:3393:-300.749,-29.1999,0 1/1:25:1,24:1:36:24:830:-71.0841,-3.92748,0 chr04 2969971 . C A 10719.9 PASS AB=0.362637;ABP=92.4941;AC=29;AF=0.690476;AN=42;AO=552;CIGAR=1X;DP=958;DPB=958;DPRA=0.820909;EPP=1201.66;EPPR=882.457;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9964;MQMR=60;NS=21;NUMALT=1;ODDS=0.142562;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19626;QR=14523;RO=405;RPL=0;RPP=1201.66;RPPR=882.457;RPR=552;RUN=1;SAF=552;SAP=1201.66;SAR=0;SRF=405;SRP=882.457;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:44,14:44:1580:14:504:-28.2384,0,-125.032 0/1:27:14,13:14:504:13:460:-33.6076,0,-37.5703 0/1:26:5,21:5:176:21:752:-60.1795,0,-8.35824 1/1:34:0,34:0:0:34:1209:-109.114,-10.235,0 1/1:98:1,97:1:36:97:3439:-306.122,-25.9027,0 1/1:46:0,46:0:0:46:1596:-143.921,-13.8474,0 1/1:63:0,62:0:0:62:2200:-197.904,-18.6639,0 0/0:55:55,0:55:1968:0:0:0,-16.5566,-177.395 0/1:126:92,34:92:3304:34:1224:-72.5364,0,-259.648 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:11:0,11:0:0:11:381:-34.6206,-3.31133,0 0/1:6:4,2:4:144:2:68:-4.65153,0,-11.5074 0/1:55:42,13:42:1504:13:464:-25.5409,0,-119.098 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 0/1:115:76,39:76:2736:39:1389:-90.6885,0,-211.863 0/1:86:47,39:47:1680:39:1391:-99.5997,0,-125.599 1/1:25:1,24:1:36:24:864:-74.4843,-3.92748,0 0/1:30:18,12:18:639:12:432:-30.1903,0,-48.8073 0/1:12:3,9:3:108:9:309:-24.5283,0,-6.46281 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 chr04 2969982 . G A 7330.06 PASS AB=0.635359;ABP=89.4253;AC=13;AF=0.309524;AN=42;AO=401;CIGAR=1X;DP=952;DPB=952;DPRA=1.55172;EPP=873.771;EPPR=1186.48;GTI=2;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9964;NS=21;NUMALT=1;ODDS=0.380194;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14350;QR=19597;RO=549;RPL=0;RPP=873.771;RPPR=1186.48;RPR=401;RUN=1;SAF=401;SAP=873.771;SAR=0;SRF=549;SRP=1195.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:14,44:14:504:44:1569:-124.04,0,-28.2384 0/1:29:14,15:14:485:15:540:-40.2067,0,-35.2471 0/1:25:20,5:20:705:5:180:-9.02631,0,-56.247 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 0/0:98:96,1:96:3424:1:36:0,-25.9165,-304.818 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 0/0:60:59,0:59:2116:0:0:0,-17.7608,-190.349 1/1:54:0,54:0:0:54:1936:-174.516,-16.2556,0 0/1:124:34,90:34:1220:90:3224:-253.054,0,-72.7782 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:54:13,41:13:468:41:1457:-115.168,0,-26.204 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/1:114:39,75:39:1374:75:2684:-207.488,0,-89.6372 0/1:85:39,46:39:1377:46:1644:-122.661,0,-98.6391 0/0:25:24,1:24:864:1:36:0,-3.92747,-74.4843 0/1:30:12,18:12:432:18:648:-49.621,0,-30.1903 0/1:12:9,3:9:316:3:108:-6.46281,0,-25.1665 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 chr04 2976376 . A T 26776.6 PASS AB=0.488499;ABP=4.05917;AC=29;AF=0.690476;AN=42;AO=1296;CIGAR=1X;DP=1877;DPB=1877;DPRA=0;EPP=2817.24;EPPR=1264.64;GTI=0;LEN=1;MEANALT=1;MQM=59.9938;MQMR=59.8967;NS=21;NUMALT=1;ODDS=18.1071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46321;QR=20736;RO=581;RPL=1296;RPP=2817.24;RPPR=1264.64;RPR=0;RUN=1;SAF=0;SAP=2817.24;SAR=1296;SRF=0;SRP=1264.64;SRR=581;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:64,48:64:2296:48:1712:-120.65,0,-173.08 0/1:140:71,69:71:2507:69:2465:-179.958,0,-183.734 0/1:43:26,17:26:932:17:597:-41.1118,0,-71.2546 1/1:116:1,115:1:36:115:4136:-370.53,-33.028,0 1/1:136:6,130:6:216:130:4646:-398.509,-21.1496,0 1/1:107:0,107:0:0:107:3781:-340.485,-32.2102,0 1/1:179:2,177:2:72:177:6341:-563.942,-47.0476,0 0/0:104:103,1:103:3674:1:36:0,-27.7088,-327.262 0/1:132:74,58:74:2649:58:2088:-148.454,0,-198.918 0/1:16:9,7:9:324:7:252:-18.2125,0,-24.6894 1/1:17:0,17:0:0:17:597:-54.0561,-5.11751,0 0/1:35:18,17:18:644:17:612:-44.8774,0,-47.7545 0/1:110:54,56:54:1928:56:1993:-146.53,0,-140.683 1/1:85:0,85:0:0:85:3029:-272.839,-25.5876,0 0/1:79:48,31:48:1709:31:1112:-76.61,0,-130.312 0/1:122:59,63:59:2093:63:2256:-166.577,0,-151.913 1/1:67:0,67:0:0:67:2393:-215.625,-20.169,0 0/1:73:31,42:31:1116:42:1512:-114.399,0,-78.7765 0/1:51:13,38:13:468:38:1364:-107.708,0,-27.1071 1/1:86:1,85:1:36:85:3033:-269.601,-22.2903,0 1/1:67:1,66:1:36:66:2366:-209.6,-16.5707,0 chr04 2978097 . A G 21940.6 PASS AB=0.647863;ABP=114.104;AC=29;AF=0.690476;AN=42;AO=1031;CIGAR=1X;DP=1284;DPB=1284;DPRA=1.31596;EPP=2189.99;EPPR=543.741;GTI=1;LEN=1;MEANALT=1;MQM=59.9079;MQMR=60;NS=21;NUMALT=1;ODDS=3.93683;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36660;QR=9023;RO=253;RPL=6;RPP=2189.99;RPPR=543.741;RPR=1025;RUN=1;SAF=0;SAP=2241.8;SAR=1031;SRF=0;SRP=552.393;SRR=253;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:16,48:16:572:48:1698:-133.839,0,-32.5475 0/1:23:3,20:3:108:20:716:-57.844,0,-3.15148 0/1:59:24,35:24:856:35:1260:-95.9447,0,-59.6003 1/1:50:0,50:0:0:50:1774:-159.937,-15.0515,0 1/1:162:0,162:0:0:162:5752:-517.782,-48.7669,0 1/1:78:0,78:0:0:78:2785:-250.889,-23.4803,0 1/1:126:0,126:0:0:126:4478:-403.188,-37.9298,0 0/0:47:47,0:47:1669:0:0:0,-14.1484,-150.495 0/1:106:41,65:41:1456:65:2340:-178.95,0,-99.4268 0/1:15:5,10:5:180:10:356:-27.8658,0,-12.0366 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:32:11,21:11:392:21:733:-56.6581,0,-25.9871 0/1:65:23,42:23:815:42:1471:-113.098,0,-54.1038 1/1:74:0,74:0:0:74:2647:-238.431,-22.2762,0 0/1:81:19,62:19:684:62:2206:-174.421,0,-37.5069 0/1:33:18,15:18:648:15:533:-38.3691,0,-48.7179 1/1:61:0,61:0:0:61:2156:-194.307,-18.3628,0 0/1:67:30,37:30:1071:37:1313:-98.3015,0,-76.5326 0/1:40:16,24:16:572:24:864:-66.0414,0,-39.7722 1/1:66:0,66:0:0:66:2331:-210.041,-19.868,0 1/1:27:0,27:0:0:27:959:-86.6254,-8.12781,0 chr04 2978109 . G A 22027.6 PASS AB=0.64467;ABP=110.449;AC=29;AF=0.690476;AN=42;AO=1039;CIGAR=1X;DP=1301;DPB=1301;DPRA=1.22549;EPP=2250.49;EPPR=567.593;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9143;MQMR=60;NS=21;NUMALT=1;ODDS=4.16231;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37129;QR=9301;RO=260;RPL=1038;RPP=2250.49;RPPR=567.593;RPR=1;RUN=1;SAF=0;SAP=2259.17;SAR=1039;SRF=0;SRP=567.593;SRR=260;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:17,47:17:612:47:1673:-131.586,0,-36.1475 0/1:21:3,18:3:108:18:648:-52.3303,0,-3.75354 0/1:61:25,36:25:896:36:1281:-97.2284,0,-62.5975 1/1:50:0,50:0:0:50:1777:-160.174,-15.0515,0 1/1:166:0,165:0:0:165:5901:-530.973,-49.67,0 1/1:80:0,80:0:0:80:2876:-259.076,-24.0824,0 1/1:126:0,126:0:0:126:4489:-404.175,-37.9298,0 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.801 0/1:109:41,68:41:1433:68:2414:-184.701,0,-96.4487 0/1:15:5,10:5:180:10:345:-26.8654,0,-12.0366 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:32:11,21:11:396:21:752:-58.3733,0,-26.3498 0/1:65:23,41:23:828:41:1456:-111.857,0,-55.362 1/1:75:0,75:0:0:75:2680:-241.437,-22.5773,0 0/1:80:18,62:18:648:62:2232:-177.061,0,-34.5695 0/1:34:18,16:18:644:16:568:-41.2168,0,-48.0556 1/1:62:0,62:0:0:62:2232:-201.144,-18.6639,0 0/1:68:31,37:31:1116:37:1328:-99.3522,0,-80.2817 0/1:42:17,25:17:612:25:900:-68.6778,0,-42.7702 1/1:65:0,65:0:0:65:2321:-209.062,-19.567,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 chr04 2981684 . C T 3614.75 PASS AB=0.407514;ABP=28.7165;AC=13;AF=0.309524;AN=42;AO=210;CIGAR=1X;DP=742;DPB=742;DPRA=1.24835;EPP=459.02;EPPR=1158.23;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.04968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7491;QR=18943;RO=532;RPL=1;RPP=450.375;RPPR=1098.23;RPR=209;RUN=1;SAF=1;SAP=450.375;SAR=209;SRF=7;SRP=1098.23;SRR=525;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:13:4,9:4:144:9:320:-25.229,0,-9.40023 0/1:20:12,8:12:432:8:288:-20.2468,0,-33.2006 0/1:32:23,9:23:811:9:324:-19.8729,0,-63.677 0/0:68:68,0:68:2418:0:0:0,-20.47,-217.875 0/0:33:33,0:33:1160:0:0:0,-9.93399,-104.704 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:35:35,0:35:1247:0:0:0,-10.536,-112.534 1/1:67:0,67:0:0:67:2396:-215.897,-20.169,0 0/1:43:28,15:28:1004:15:529:-34.9964,0,-77.7316 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:12:10,2:10:360:2:72:-3.22436,0,-29.1319 0/1:61:33,28:33:1180:28:1008:-72.6735,0,-88.1452 0/0:51:51,0:51:1798:0:0:0,-15.3525,-162.101 0/1:33:16,17:16:572:17:612:-45.4794,0,-41.8794 0/1:11:7,4:7:248:4:144:-10.0023,0,-19.3529 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:54:26,28:26:920:28:995:-73.6084,0,-66.8614 0/1:59:42,17:42:1485:17:587:-35.3917,0,-116.182 0/0:84:82,2:82:2936:2:72:0,-18.4498,-257.638 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 chr04 2983930 . TGTTT TGTTC,AGTTC 19484.2 PASS AB=0.525229,0.470183;ABP=5.42083,6.37708;AC=30,12;AF=0.714286,0.285714;AN=42;AO=654,258;CIGAR=4M1X,1X3M1X;DP=916;DPB=916;DPRA=0.798148,1.04567;EPP=1423.15,563.25;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.65,2.18182;MQM=60,59.969;MQMR=0;NS=21;NUMALT=2;ODDS=1.94016;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23294,9144;QR=0;RO=0;RPL=0,0;RPP=1423.15,563.25;RPPR=0;RPR=654,258;RUN=1,1;SAF=654,258;SAP=1423.15,563.25;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:27:0,14,13:0:0:14,13:500,454:-78.0475,-37.2786,-33.0642,-41.1218,0,-37.2084 1/2:34:0,17,17:0:0:17,17:600,604:-98.431,-49.5732,-44.4557,-49.2117,0,-44.0942 1/2:43:0,14,28:0:0:14,28:500,996:-121.961,-81.195,-76.9806,-40.79,0,-32.3612 1/1:62:0,62,0:0:0:62,0:2212,0:-199.345,-18.6639,0,-199.345,-18.6639,-199.345 1/1:49:0,49,0:0:0:49,0:1756,0:-158.324,-14.7505,0,-158.324,-14.7505,-158.324 1/1:42:0,42,0:0:0:42,0:1496,0:-134.935,-12.6433,0,-134.935,-12.6433,-134.935 1/1:53:0,53,0:0:0:53,0:1857,0:-167.408,-15.9546,0,-167.408,-15.9546,-167.408 2/2:54:0,0,53:0:0:0,53:0,1886:-169.708,-169.708,-169.708,-15.9546,-15.9546,0 1/2:36:0,12,24:0:0:12,24:428,845:-104.033,-69.1411,-65.5287,-35.2464,0,-28.0217 1/2:11:0,9,2:0:0:9,2:320,72:-32.3087,-6.23466,-3.52539,-26.4331,0,-25.831 1/1:14:0,14,0:0:0:14,0:500,0:-45.3362,-4.21442,0,-45.3362,-4.21442,-45.3362 1/2:22:0,14,8:0:0:14,8:491,288:-63.8094,-23.8592,-19.6447,-40.3067,0,-37.8985 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:51:0,51,0:0:0:51,0:1812,0:-163.362,-15.3525,0,-163.362,-15.3525,-163.362 1/2:56:0,25,31:0:0:25,31:896,1092:-162.337,-89.2578,-81.7321,-73.4346,0,-64.1027 1/2:32:0,16,16:0:0:16,16:562,565:-92.1044,-46.3643,-41.5479,-46.0921,0,-41.2756 1/1:56:0,56,0:0:0:56,0:2004,0:-180.634,-16.8577,0,-180.634,-16.8577,-180.634 1/2:99:0,53,46:0:0:53,46:1888,1631:-287.12,-133.231,-117.277,-154.244,0,-140.396 1/2:76:0,55,20:0:0:55,20:1968,711:-218.418,-57.9361,-41.3795,-160.479,0,-154.458 1/1:43:0,43,0:0:0:43,0:1544,0:-139.253,-12.9443,0,-139.253,-12.9443,-139.253 1/1:49:0,48,0:0:0:48,0:1708,0:-153.646,-14.4494,0,-153.646,-14.4494,-153.646 chr04 2985489 . T C 15549.4 PASS AB=0.552301;ABP=14.3674;AC=29;AF=0.690476;AN=42;AO=744;CIGAR=1X;DP=992;DPB=992;DPRA=1.5;EPP=1618.59;EPPR=541.535;GTI=1;LEN=1;MEANALT=1;MQM=59.9946;MQMR=60;NS=21;NUMALT=1;ODDS=0.116365;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26624;QR=8882;RO=248;RPL=0;RPP=1618.59;RPPR=541.535;RPR=744;RUN=1;SAF=744;SAP=1618.59;SAR=0;SRF=248;SRP=541.535;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:25,27:25:900:27:968:-71.7838,0,-65.6675 0/1:41:17,24:17:612:24:860:-65.3796,0,-43.0712 0/1:43:24,19:24:849:19:680:-48.5849,0,-63.7835 1/1:49:0,49:0:0:49:1752:-157.962,-14.7505,0 1/1:94:0,94:0:0:94:3365:-303.064,-28.2968,0 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 1/1:71:0,71:0:0:71:2521:-227.141,-21.3731,0 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/1:67:35,32:35:1256:32:1152:-83.8211,0,-93.1763 0/1:7:4,3:4:129:3:108:-7.96796,0,-9.82045 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:61:40,21:40:1440:21:752:-49.6434,0,-111.535 1/1:59:0,59:0:0:59:2090:-188.368,-17.7608,0 0/1:40:11,29:11:396:29:1040:-81.8732,0,-23.9415 0/1:40:15,25:15:540:25:892:-68.5585,0,-36.8953 1/1:58:0,58:0:0:58:2080:-187.47,-17.4597,0 0/1:57:25,32:25:892:32:1144:-86.1108,0,-63.441 0/1:65:16,49:16:572:49:1764:-139.477,0,-32.2465 1/1:61:0,61:0:0:61:2180:-196.466,-18.3628,0 1/1:54:2,52:2:72:52:1872:-161.922,-9.4189,0 chr04 2985527 . T C 11699.1 PASS AB=0.42069;ABP=58.4652;AC=13;AF=0.309524;AN=42;AO=520;CIGAR=1X;DP=1977;DPB=1977;DPRA=1.08413;EPP=1132.18;EPPR=3164.67;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.8808;MQMR=60;NS=21;NUMALT=1;ODDS=13.438;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18506;QR=52114;RO=1456;RPL=247;RPP=5.83321;RPPR=3.73214;RPR=273;RUN=1;SAF=247;SAP=5.83321;SAR=273;SRF=739;SRP=3.73214;SRR=717;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:79,54:79:2840:54:1940:-134.837,0,-215.801 0/1:82:57,25:57:2040:25:884:-55.1857,0,-159.188 0/1:70:34,36:34:1216:36:1270:-93.5269,0,-88.6745 0/0:82:82,0:82:2914:0:0:0,-24.6845,-262.495 0/0:158:156,1:156:5591:1:36:0,-44.0233,-499.713 0/0:104:104,0:104:3714:0:0:0,-31.3071,-334.461 0/0:130:130,0:130:4652:0:0:0,-39.1339,-418.842 1/1:91:0,91:0:0:91:3264:-293.915,-27.3937,0 0/1:139:78,61:78:2796:61:2142:-151.201,0,-210.037 0/1:16:11,5:11:392:5:180:-11.7356,0,-30.8036 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:17:8,9:8:288:9:320:-24.0248,0,-21.1499 0/1:142:69,73:69:2475:73:2599:-191.411,0,-180.256 0/0:96:96,0:96:3433:0:0:0,-28.8989,-309.182 0/1:92:46,46:46:1648:46:1652:-121.274,0,-120.914 0/1:73:46,27:46:1647:27:959:-64.6502,0,-126.543 0/0:89:88,1:88:3156:1:36:0,-23.1934,-280.666 0/1:119:67,52:67:2382:52:1850:-130.947,0,-178.814 0/1:132:93,39:93:3344:39:1374:-84.2206,0,-261.44 0/0:111:111,0:111:3971:0:0:0,-33.4143,-357.58 0/0:97:97,0:97:3471:0:0:0,-29.1999,-312.601 chr04 2986954 . T C 49277.9 PASS AB=0.525205;ABP=15.8174;AC=29;AF=0.690476;AN=42;AO=2444;CIGAR=1X;DP=3674;DPB=3674;DPRA=1.4196;EPP=5310.09;EPPR=2669.58;GTI=0;LEN=1;MEANALT=1.1;MQM=59.7795;MQMR=59.9511;NS=21;NUMALT=1;ODDS=24.4424;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87382;QR=43942;RO=1228;RPL=2444;RPP=5310.09;RPPR=2669.58;RPR=0;RUN=1;SAF=0;SAP=5310.09;SAR=2444;SRF=0;SRP=2669.58;SRR=1228;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:53,83:53:1866:83:2974:-226.886,0,-127.275 0/1:85:55,30:55:1957:30:1055:-69.667,0,-150.816 0/1:75:27,48:27:972:48:1716:-132.138,0,-65.2207 1/1:91:0,91:0:0:91:3244:-292.171,-27.3937,0 1/1:171:2,169:2:72:169:6041:-536.947,-44.6394,0 1/1:65:0,65:0:0:65:2324:-209.417,-19.567,0 1/1:168:0,168:0:0:168:6024:-542.261,-50.573,0 0/0:125:125,0:125:4420:0:0:0,-37.6287,-397.97 0/1:157:75,81:75:2688:81:2908:-214.629,0,-194.844 0/1:358:172,186:172:6192:186:6634:-489.337,0,-449.377 1/1:422:0,422:0:0:422:15101:-1358.71,-127.035,0 0/1:428:203,225:203:7266:225:8046:-595.2,0,-524.92 0/1:145:72,73:72:2576:73:2620:-192.391,0,-188.44 1/1:105:0,105:0:0:105:3748:-337.481,-31.6082,0 0/1:99:39,60:39:1388:60:2139:-162.564,0,-95.417 0/1:65:36,29:36:1292:29:1044:-74.7079,0,-97.0168 1/1:88:0,88:0:0:88:3152:-283.904,-26.4906,0 0/1:707:343,363:343:12317:363:12992:-956.093,0,-895.468 0/1:66:25,41:25:900:41:1459:-111.735,0,-61.453 1/1:80:1,79:1:36:79:2801:-248.727,-20.4841,0 1/1:38:0,38:0:0:38:1360:-122.63,-11.4391,0 chr04 3004100 . CTT TTT 7871.87 PASS AB=0.475222;ABP=7.20701;AC=13;AF=0.309524;AN=42;AO=452;CIGAR=1X2M;DP=1644;DPB=1644;DPRA=0.832798;EPP=984.516;EPPR=2574.03;GTI=0;LEN=1;MEANALT=1.41667;MQM=59.9668;MQMR=60;NS=21;NUMALT=1;ODDS=8.60634;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16143;QR=41418;RO=1184;RPL=0;RPP=984.516;RPPR=2574.03;RPR=452;RUN=1;SAF=452;SAP=984.516;SAR=0;SRF=1184;SRP=2574.03;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:48,41:48:1682:41:1472:-105.984,0,-124.872 0/1:19:9,7:9:313:7:252:-17.8573,0,-23.3375 0/1:64:39,25:39:1389:25:900:-62.0551,0,-106.043 0/0:115:115,0:115:4044:0:0:0,-34.6184,-364.152 0/0:159:159,0:159:5550:0:0:0,-47.8638,-499.632 0/0:69:69,0:69:2438:0:0:0,-20.7711,-219.676 0/0:139:139,0:139:4834:0:0:0,-41.8432,-435.224 1/1:78:0,78:0:0:78:2762:-248.82,-23.4803,0 0/1:114:57,57:57:1994:57:2036:-149.195,0,-145.414 0/1:18:4,14:4:135:14:500:-39.9176,0,-7.06397 0/0:9:9,0:9:316:0:0:0,-2.70927,-28.7783 0/1:10:6,4:6:204:4:144:-10.3033,0,-15.6824 0/1:108:61,46:61:2146:46:1644:-115.718,0,-160.874 0/0:85:85,0:85:2942:0:0:0,-25.5875,-265.013 0/1:145:56,87:56:1978:87:3116:-237.26,0,-134.888 0/1:22:16,6:16:552:6:216:-13.1679,0,-43.3817 0/0:46:46,0:46:1612:0:0:0,-13.8474,-145.368 0/1:96:46,49:46:1636:49:1756:-129.366,0,-118.57 0/1:102:64,38:64:2235:38:1345:-90.5982,0,-170.706 0/0:88:88,0:88:3035:0:0:0,-26.4906,-273.382 0/0:69:68,0:68:2383:0:0:0,-20.47,-214.367 chr04 3021124 . C T 14322.4 PASS AB=0.465347;ABP=17.7591;AC=13;AF=0.309524;AN=42;AO=823;CIGAR=1X;DP=2494;DPB=2494;DPRA=1.76042;EPP=1790.13;EPPR=3631.54;GTI=0;LEN=1;MEANALT=1;MQM=59.9781;MQMR=60;NS=21;NUMALT=1;ODDS=7.41648;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29308;QR=59607;RO=1671;RPL=823;RPP=1790.13;RPPR=3631.54;RPR=0;RUN=1;SAF=0;SAP=1790.13;SAR=823;SRF=0;SRP=3631.54;SRR=1671;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:219:115,104:115:4087:104:3712:-268.357,0,-302.087 0/1:121:57,64:57:2048:64:2300:-170.836,0,-148.167 0/1:135:66,69:66:2368:69:2449:-180.025,0,-172.739 0/0:110:110,0:110:3914:0:0:0,-33.1133,-352.452 0/0:274:268,6:268:9578:6:208:0,-63.4231,-842.914 0/0:84:84,0:84:2997:0:0:0,-25.2865,-269.961 0/0:109:109,0:109:3889:0:0:0,-32.8123,-350.204 1/1:160:1,159:1:32:159:5693:-509.287,-44.9655,0 0/1:189:108,81:108:3812:81:2845:-199.391,0,-286.38 0/1:36:13,23:13:468:23:828:-64.007,0,-31.6226 0/0:9:9,0:9:316:0:0:0,-2.70927,-28.7789 0/1:24:15,9:15:540:9:313:-21.2804,0,-41.7118 0/1:184:106,78:106:3785:78:2784:-195.375,0,-285.458 0/0:97:97,0:97:3480:0:0:0,-29.1999,-313.411 0/1:156:85,71:85:3033:71:2521:-180.18,0,-226.238 0/1:115:66,49:66:2364:49:1748:-122.986,0,-178.4 0/0:98:98,0:98:3516:0:0:0,-29.5009,-316.649 0/1:159:74,85:74:2640:85:3019:-224.076,0,-189.984 0/1:76:51,25:51:1813:25:888:-57.3607,0,-140.571 0/0:78:78,0:78:2735:0:0:0,-23.4803,-246.39 0/0:61:61,0:61:2192:0:0:0,-18.3628,-197.545 chr04 3025958 . CCA CGG,TGG 60807 PASS AB=0.479514,0.517451;ABP=7.81456,6.49652;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1999,867;CIGAR=1M2X,3X;DP=2874;DPB=2874;DPRA=0.743923,0.821987;EPP=4343.78,1885.68;EPPR=5.18177;GTI=0;LEN=2,3;MEANALT=1.95,2.28571;MQM=59.8564,59.5559;MQMR=60;NS=21;NUMALT=2;ODDS=3.81022;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70512,30628;QR=34;RO=1;RPL=0,0;RPP=4343.78,1885.68;RPPR=5.18177;RPR=1999,867;RUN=1,1;SAF=1999,867;SAP=4343.78,1885.68;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:132:0,59,73:0:0:59,73:2076,2611:-381.92,-212.928,-195.167,-169.346,0,-147.371 1/2:116:0,54,62:0:0:54,62:1918,2175:-333.566,-177.279,-161.024,-156.64,0,-137.976 1/2:153:0,65,86:0:0:65,86:2301,3071:-437.824,-250.396,-230.829,-187.514,0,-161.626 1/1:191:0,190,0:0:0:190,0:6694,0:-602.143,-57.1957,0,-602.143,-57.1957,-602.143 1/1:252:0,252,0:0:0:252,0:8924,0:-802.894,-75.8596,0,-802.894,-75.8596,-802.894 1/1:166:0,166,0:0:0:166,0:5835,0:-525.263,-49.971,0,-525.263,-49.971,-525.263 1/1:245:1,243,0:1:34:243,0:8536,0:-764.896,-70.3473,0,-765.197,-73.1503,-767.955 2/2:181:0,0,180:0:0:0,180:0,6313:-567.842,-567.842,-567.842,-54.1854,-54.1854,0 1/2:241:0,133,108:0:0:133,108:4686,3834:-694.215,-312.712,-272.675,-381.856,0,-349.345 1/2:18:0,2,16:0:0:2,16:72,543:-50.0894,-44.2122,-43.6101,-6.23466,0,-1.41818 1/1:14:0,14,0:0:0:14,0:502,0:-45.5172,-4.21442,0,-45.5172,-4.21442,-45.5172 1/2:31:0,20,11:0:0:20,11:710,385:-89.5261,-31.6734,-25.6528,-58.2043,0,-54.893 1/2:177:0,79,98:0:0:79,98:2785,3434:-506.282,-279.526,-255.745,-227.107,0,-197.607 1/1:160:0,160,0:0:0:160,0:5634,0:-507.107,-48.1648,0,-507.107,-48.1648,-507.107 1/2:200:0,85,114:0:0:85,114:2989,4039:-572.256,-328.956,-303.369,-243.42,0,-209.103 1/2:122:0,53,68:0:0:53,68:1866,2391:-346.478,-194.759,-178.805,-151.857,0,-131.387 1/1:115:0,111,4:0:0:111,4:3929,144:-353.443,-33.4143,0,-341.693,-21.3048,-340.489 1/2:42:0,19,23:0:0:19,23:673,824:-122.377,-67.5565,-61.8369,-55.1764,0,-48.2527 1/2:86:0,63,23:0:0:63,23:2233,828:-249.807,-67.9142,-48.9493,-182.251,0,-175.328 1/1:173:0,172,1:0:0:172,1:6066,36:-545.656,-51.7772,0,-542.718,-48.4799,-542.417 1/1:59:0,59,0:0:0:59,0:2083,0:-187.738,-17.7608,0,-187.738,-17.7608,-187.738 chr04 3025968 . T C 15812.7 PASS AB=0.519817;ABP=7.48565;AC=13;AF=0.309524;AN=42;AO=868;CIGAR=1X;DP=2864;DPB=2864;DPRA=0.812557;EPP=1887.85;EPPR=4319.91;GTI=0;LEN=1;MEANALT=1;MQM=59.5518;MQMR=59.8597;NS=21;NUMALT=1;ODDS=3.63646;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31039;QR=71272;RO=1996;RPL=0;RPP=1887.85;RPPR=4319.91;RPR=868;RUN=1;SAF=868;SAP=1887.85;SAR=0;SRF=1996;SRP=4337.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:58,71:58:2065:71:2529:-188.986,0,-147.286 0/1:117:54,63:54:1944:63:2268:-169.079,0,-140.015 0/1:153:65,88:65:2308:88:3155:-238.048,0,-161.921 0/0:187:187,0:187:6614:0:0:0,-56.2926,-595.315 0/0:252:252,0:252:9026:0:0:0,-75.8596,-812.058 0/0:164:163,1:163:5856:1:36:0,-45.7706,-523.548 0/0:244:244,0:244:8730:0:0:0,-73.4513,-785.687 1/1:181:0,181:0:0:181:6460:-581.305,-54.4864,0 0/1:240:132,108:132:4724:108:3868:-275.748,0,-352.942 0/1:18:2,16:2:72:16:555:-44.5272,0,-1.41818 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:30:19,11:19:684:11:396:-26.9518,0,-52.8594 0/1:177:79,98:79:2836:98:3483:-260.33,0,-202.196 0/0:158:158,0:158:5574:0:0:0,-47.5627,-501.595 0/1:198:84,114:84:3016:114:4081:-307.541,0,-212.064 0/1:121:55,66:55:1951:66:2376:-177.669,0,-139.248 0/0:116:112,4:112:3986:4:144:0,-21.6059,-345.613 0/1:42:19,23:19:676:23:824:-61.8367,0,-48.5247 0/1:87:63,24:63:2264:24:864:-51.8868,0,-177.814 0/0:176:176,0:176:6301:0:0:0,-52.9813,-566.936 0/0:60:60,0:60:2141:0:0:0,-18.0618,-192.956 chr04 3025983 . A C 40878.5 PASS AB=0.476664;ABP=9.19243;AC=29;AF=0.690476;AN=42;AO=1965;CIGAR=1X;DP=2840;DPB=2840;DPRA=0.721739;EPP=4209.37;EPPR=1846.95;GTI=0;LEN=1;MEANALT=1.1;MQM=59.8504;MQMR=59.5613;NS=21;NUMALT=1;ODDS=1.32868;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69442;QR=31266;RO=873;RPL=1958;RPP=4209.37;RPPR=1846.95;RPR=7;RUN=1;SAF=1965;SAP=4269.95;SAR=0;SRF=873;SRP=1898.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:73,58:73:2616:58:2064:-146.596,0,-195.808 0/1:114:62,52:62:2232:52:1860:-133.362,0,-166.744 0/1:149:87,62:87:3124:62:2220:-155.211,0,-236.464 1/1:183:0,183:0:0:183:6456:-580.891,-55.0885,0 1/1:253:0,253:0:0:253:8899:-800.565,-76.1606,0 1/1:161:0,161:0:0:161:5702:-513.297,-48.4658,0 1/1:237:1,236:1:32:236:8358:-749.034,-68.1448,0 0/0:184:184,0:184:6592:0:0:0,-55.3895,-593.186 0/1:240:109,131:109:3890:131:4625:-344.147,0,-277.723 0/1:18:16,2:16:576:2:68:-1.03917,0,-45.5515 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:31:11,20:11:396:20:691:-53.1761,0,-26.6508 0/1:178:98,80:98:3516:80:2830:-201.356,0,-262.926 1/1:158:0,157:0:0:157:5542:-498.354,-47.2617,0 0/1:197:115,82:115:4104:82:2865:-198.781,0,-309.909 0/1:121:67,54:67:2400:54:1923:-136.729,0,-179.829 1/1:112:4,108:4:144:108:3777:-326.816,-20.4017,0 0/1:43:23,20:23:824:20:697:-50.1054,0,-61.5357 0/1:85:23,62:23:820:62:2200:-172.656,0,-48.5288 1/1:172:0,171:0:0:171:6065:-545.564,-51.4761,0 1/1:59:0,59:0:0:59:2100:-189.27,-17.7608,0 chr04 3081132 . A G 28828.8 PASS AB=0.480702;ABP=5.77607;AC=29;AF=0.690476;AN=42;AO=1378;CIGAR=1X;DP=1920;DPB=1920;DPRA=0.982258;EPP=2995.3;EPPR=1175.61;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9971;MQMR=60;NS=21;NUMALT=1;ODDS=4.809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49062;QR=19367;RO=540;RPL=0;RPP=2995.3;RPPR=1175.61;RPR=1378;RUN=1;SAF=1378;SAP=2995.3;SAR=0;SRF=540;SRP=1175.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:46,37:46:1652:37:1317:-93.8443,0,-123.983 0/1:59:24,35:24:860:35:1256:-95.5845,0,-59.9611 0/1:78:42,36:42:1512:36:1266:-90.7583,0,-112.894 1/1:127:1,126:1:36:126:4507:-402.198,-34.6325,0 1/1:252:0,252:0:0:252:8947:-805.21,-75.8596,0 1/1:92:1,91:1:36:91:3261:-290.11,-24.0965,0 1/1:232:2,230:2:72:230:8203:-731.443,-63.0022,0 0/0:93:93,0:93:3329:0:0:0,-27.9958,-299.826 0/1:159:87,71:87:3113:71:2489:-176.337,0,-232.472 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:21:8,12:8:288:12:432:-32.8408,0,-19.887 0/1:84:39,45:39:1404:45:1601:-119.092,0,-101.373 1/1:86:0,86:0:0:86:3057:-275.359,-25.8886,0 0/1:122:70,52:70:2505:52:1860:-130.954,0,-188.975 0/1:77:48,29:48:1724:29:1040:-70.7351,0,-132.266 1/1:54:0,54:0:0:54:1940:-174.876,-16.2556,0 0/1:100:54,46:54:1944:46:1637:-117.514,0,-145.133 0/1:66:23,43:23:820:43:1521:-117.313,0,-54.2545 1/1:77:1,76:1:36:76:2701:-239.735,-19.581,0 1/1:42:0,42:0:0:42:1487:-134.122,-12.6433,0 chr04 3081283 . C T 20544.8 PASS AB=0.459579;ABP=15.8251;AC=29;AF=0.690476;AN=42;AO=1009;CIGAR=1X;DP=1584;DPB=1584;DPRA=0.860345;EPP=2150.81;EPPR=1242.94;GTI=0;LEN=1;MEANALT=1;MQM=59.553;MQMR=59.4609;NS=21;NUMALT=1;ODDS=3.54155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35937;QR=20524;RO=575;RPL=1004;RPP=2150.81;RPPR=1242.94;RPR=5;RUN=1;SAF=0;SAP=2194.03;SAR=1009;SRF=0;SRP=1251.61;SRR=575;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:42,22:42:1508:22:788:-51.9743,0,-116.732 0/1:75:40,35:40:1436:35:1260:-91.1201,0,-106.949 0/1:107:71,36:71:2540:36:1288:-83.9996,0,-196.627 1/1:58:0,58:0:0:58:2060:-185.644,-17.4597,0 1/1:116:0,116:0:0:116:4116:-370.295,-34.9195,0 1/1:65:0,65:0:0:65:2309:-207.941,-19.567,0 1/1:107:0,107:0:0:107:3801:-342.241,-32.2102,0 0/0:87:87,0:87:3089:0:0:0,-26.1896,-278.221 0/1:207:115,92:115:4106:92:3271:-232.292,0,-306.284 0/1:17:5,12:5:176:12:432:-34.0991,0,-11.0447 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:16:7,9:7:252:9:320:-24.3259,0,-18.2078 0/1:78:51,27:51:1809:27:960:-63.2084,0,-139.527 1/1:94:0,94:0:0:94:3364:-302.868,-28.2968,0 0/1:147:69,78:69:2463:78:2788:-206.867,0,-177.631 0/1:42:25,17:25:896:17:612:-42.7684,0,-68.3033 1/1:52:0,52:0:0:52:1842:-166.057,-15.6536,0 0/1:85:45,40:45:1616:40:1436:-103.95,0,-120.133 0/1:65:18,47:18:633:47:1657:-129.817,0,-37.7005 1/1:36:0,36:0:0:36:1265:-114.148,-10.8371,0 1/1:55:0,55:0:0:55:1972:-177.695,-16.5567,0 chr04 3081289 . CGGCC TGGCC,TGGCG 27833.2 PASS AB=0.408333,0.583333;ABP=64.3182,53.678;AC=29,13;AF=0.690476,0.309524;AN=42;AO=827,575;CIGAR=1X4M,1X3M1X;DP=1418;DPB=1418;DPRA=0.764943,1.41599;EPP=1798.82,1251.61;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=2.2,2.66667;MQM=59.6626,59.4783;MQMR=60;NS=21;NUMALT=2;ODDS=2.84507;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28534,19641;QR=27;RO=1;RPL=827,575;RPP=1798.82,1251.61;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1798.82,1251.61;SAR=827,575;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,17,42:0:0:17,42:588,1454:-166.269,-118.488,-113.37,-48.1274,0,-35.4842 1/2:68:0,28,40:0:0:28,40:939,1364:-187.048,-111.011,-102.582,-76.3749,0,-64.3337 1/2:102:0,31,71:0:0:31,71:1062,2477:-288.001,-201.8,-192.468,-86.5454,0,-65.1723 1/1:41:0,40,0:0:0:40,0:1313,0:-118.233,-12.0412,0,-118.233,-12.0412,-118.233 1/1:99:0,97,0:0:0:97,0:3363,0:-302.574,-29.1999,0,-302.574,-29.1999,-302.574 1/1:52:1,51,0:1:27:51,0:1781,0:-157.642,-12.9538,0,-157.943,-15.3525,-160.071 1/1:89:0,89,0:0:0:89,0:3076,0:-277.053,-26.7917,0,-277.053,-26.7917,-277.053 2/2:87:0,0,85:0:0:0,85:0,2855:-256.826,-256.826,-256.826,-25.5876,-25.5876,0 1/2:190:0,73,114:0:0:73,114:2535,3838:-516.828,-310.748,-288.772,-206.096,0,-171.779 1/2:15:0,10,5:0:0:10,5:356,173:-43.3993,-14.3818,-11.3715,-29.3663,0,-27.8612 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:13:0,6,7:0:0:6,7:193,232:-34.6481,-19.0947,-17.2885,-15.8794,0,-13.7722 1/2:77:0,24,51:0:0:24,51:829,1763:-210.57,-143.221,-135.997,-67.3637,0,-52.0112 1/1:76:0,74,0:0:0:74,0:2518,0:-226.492,-22.2762,0,-226.492,-22.2762,-226.492 1/2:141:0,69,71:0:0:69,71:2374,2418:-388.911,-196.126,-175.355,-192.768,0,-171.395 1/2:39:0,14,25:0:0:14,25:496,859:-110.5,-70.0918,-65.8774,-40.7589,0,-33.2332 1/1:46:0,46,0:0:0:46,0:1574,0:-141.943,-13.8474,0,-141.943,-13.8474,-141.943 1/2:82:0,36,46:0:0:36,46:1260,1582:-231.336,-128.818,-117.981,-102.865,0,-89.0179 1/2:54:0,35,18:0:0:35,18:1220,626:-150.09,-50.877,-40.341,-99.2119,0,-93.7933 1/1:30:0,30,0:0:0:30,0:1041,0:-93.9752,-9.0309,0,-93.9752,-9.0309,-93.9752 1/1:47:0,46,0:0:0:46,0:1620,0:-145.678,-13.8474,0,-145.678,-13.8474,-145.678 chr04 3098422 . CGTTT TGTTG,CGTTG 23294.2 PASS AB=0.561028,0.432548;ABP=18.1176,21.4655;AC=29,13;AF=0.690476,0.309524;AN=42;AO=651,234;CIGAR=1X3M1X,4M1X;DP=892;DPB=892.4;DPRA=1.43667,1.11594;EPP=1373.54,485.411;EPPR=0;GTI=1;LEN=5,1;MEANALT=2,2.21429;MQM=59.6728,59.9915;MQMR=0;NS=21;NUMALT=2;ODDS=1.71916;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=22359,8291;QR=0;RO=0;RPL=294,91;RPP=16.2493,28.1029;RPPR=0;RPR=357,143;RUN=1,1;SAF=289,88;SAP=20.7857,34.2275;SAR=362,146;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:34:0,13,20:0:0:13,20:449,686:-92.2849,-55.8023,-51.8889,-36.5867,0,-30.5661 1/2:19:0,5,14:0:0:5,14:171,496:-54.6358,-40.7598,-39.2547,-14.221,0,-10.0066 1/2:23:0,16,7:0:0:16,7:568,252:-67.1989,-20.9217,-16.1053,-46.6355,0,-44.5283 1/1:46:0,45,0:0:0:45,0:1559,0:-140.234,-13.5464,0,-140.234,-13.5464,-140.234 1/1:82:0,80,1:0:0:80,1:2761,36:-248.339,-24.0824,0,-245.402,-21.12,-245.101 1/1:45:0,44,0:0:0:44,0:1508,0:-135.737,-13.2453,0,-135.737,-13.2453,-135.737 1/1:42:0,42,0:0:0:42,0:1421,0:-128.176,-12.6433,0,-128.176,-12.6433,-128.176 2/2:30:0,0,30:0:0:0,30:0,1071:-96.7016,-96.7016,-96.7016,-9.0309,-9.0309,0 1/2:42:0,25,17:0:0:25,17:868,612:-120.849,-50.2959,-42.7702,-70.9077,0,-65.7902 1/2:8:0,4,4:0:0:4,4:141,144:-23.5862,-12.1095,-10.9054,-11.8328,0,-10.6287 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:5:0,4,1:0:0:4,1:141,36:-14.7718,-3.29724,-2.09312,-11.8329,0,-11.5319 1/2:44:0,27,17:0:0:27,17:935,608:-125.908,-49.9345,-41.8067,-76.3261,0,-71.2086 1/1:48:0,47,0:0:0:47,0:1601,0:-144.074,-14.1484,0,-144.074,-14.1484,-144.074 1/2:47:0,26,21:0:0:26,21:913,739:-134.458,-60.1513,-52.3245,-74.2989,0,-67.9773 1/2:24:0,13,11:0:0:13,11:441,392:-68.0614,-32.3087,-28.3953,-36.101,0,-32.7897 1/1:20:0,20,0:0:0:20,0:681,0:-61.6064,-6.0206,0,-61.6064,-6.0206,-61.6064 1/2:107:0,47,59:0:0:47,59:1624,2092:-302.329,-170.428,-156.279,-131.891,0,-114.13 1/2:114:0,82,31:0:0:82,31:2785,1091:-314.666,-88.8072,-64.1228,-225.847,0,-216.515 1/1:37:0,36,1:0:0:36,1:1238,36:-111.284,-10.8371,0,-108.346,-7.53984,-108.045 1/1:69:0,69,0:0:0:69,0:2338,0:-210.677,-20.7711,0,-210.677,-20.7711,-210.677 chr04 3112454 . G A 4701.6 PASS AB=0.515075;ABP=3.79596;AC=13;AF=0.309524;AN=42;AO=267;CIGAR=1X;DP=685;DPB=685;DPRA=1.84975;EPP=574.14;EPPR=817.655;GTI=1;LEN=1;MEANALT=1;MQM=59.7678;MQMR=60;NS=21;NUMALT=1;ODDS=2.09289;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9469;QR=14908;RO=418;RPL=266;RPP=574.14;RPPR=817.655;RPR=1;RUN=1;SAF=267;SAP=582.793;SAR=0;SRF=418;SRP=910.686;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:12,24:12:428:24:830:-64.1753,0,-28.0217 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:53:28,25:28:1004:25:881:-63.545,0,-74.7213 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:48:48,0:48:1705:0:0:0,-14.4494,-153.734 0/0:28:28,0:28:989:0:0:0,-8.42884,-89.322 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 1/1:60:0,60:0:0:60:2141:-192.956,-18.0618,0 0/1:70:45,25:45:1605:25:900:-60.2489,0,-123.666 0/1:9:7,2:7:248:2:72:-4.12745,0,-19.9549 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:27:14,13:14:504:13:464:-33.9697,0,-37.5703 0/1:60:33,27:33:1184:27:964:-69.015,0,-88.8065 0/0:26:26,0:26:917:0:0:0,-7.82678,-82.8446 0/1:63:11,52:11:396:52:1834:-145.742,0,-17.0179 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:33:19,14:19:684:14:500:-35.3915,0,-51.9563 0/1:29:19,10:19:665:10:343:-22.4707,0,-51.4429 0/0:56:54,2:54:1927:2:72:0,-10.021,-166.869 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 chr04 3112893 . C T 4260.4 PASS AB=0.473094;ABP=5.81471;AC=14;AF=0.333333;AN=42;AO=252;CIGAR=1X;DP=942;DPB=942;DPRA=1.10477;EPP=550.221;EPPR=1499.15;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.8611;MQMR=59.9405;NS=21;NUMALT=1;ODDS=0.716064;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9048;QR=24547;RO=689;RPL=0;RPP=550.221;RPPR=1490.48;RPR=252;RUN=1;SAF=0;SAP=550.221;SAR=252;SRF=1;SRP=1490.48;SRR=688;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:40,27:40:1414:27:968:-67.266,0,-107.387 0/1:36:15,21:15:540:21:748:-56.8015,0,-38.0995 0/1:20:13,7:13:453:7:252:-17.0084,0,-35.079 0/0:40:40,0:40:1413:0:0:0,-12.0412,-127.465 0/0:120:117,2:117:4184:2:68:0,-29.718,-370.249 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.102 0/0:79:79,0:79:2809:0:0:0,-23.7814,-253.041 1/1:34:0,34:0:0:34:1224:-110.462,-10.235,0 0/1:69:40,29:40:1427:29:1044:-73.501,0,-107.956 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:9:2,7:2:72:7:252:-20.3197,0,-4.12745 0/1:67:33,34:33:1176:34:1220:-89.9374,0,-85.9788 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.985 0/1:86:47,39:47:1680:39:1404:-100.771,0,-125.599 0/1:42:15,27:15:536:27:972:-75.1537,0,-35.9316 0/0:49:49,0:49:1728:0:0:0,-14.7505,-155.802 0/1:26:11,15:11:396:15:540:-41.1051,0,-28.156 0/1:24:19,5:19:680:5:180:-9.32734,0,-54.3044 0/0:27:27,0:27:959:0:0:0,-8.12781,-86.6254 0/0:22:22,0:22:784:0:0:0,-6.62266,-70.8839 chr04 3128402 . T C 79113 PASS AB=0.504107;ABP=3.29567;AC=30;AF=0.714286;AN=42;AO=2956;CIGAR=1X;DP=4150;DPB=4150;DPRA=0;EPP=6421.88;EPPR=2584.9;GTI=0;LEN=1;MEANALT=1.04762;MQM=57.2919;MQMR=59.798;NS=21;NUMALT=1;ODDS=13.9376;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=105192;QR=42664;RO=1193;RPL=1627;RPP=68.2456;RPPR=46.7401;RPR=1329;RUN=1;SAF=1627;SAP=68.2456;SAR=1329;SRF=673;SRP=45.6188;SRR=520;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:289:149,140:149:5296:140:4947:-358.177,0,-389.776 0/1:180:92,88:92:3296:88:3156:-229.409,0,-242.656 0/1:142:85,57:85:3016:57:2017:-139.001,0,-228.847 1/1:255:1,254:1:36:254:9045:-809.554,-73.1644,0 1/1:199:2,197:2:68:197:7032:-626.032,-53.4497,0 1/1:157:2,155:2:68:155:5550:-491.719,-40.804,0 1/1:377:0,377:0:0:377:13415:-1204.6,-113.488,0 0/0:219:218,1:218:7824:1:33:0,-62.6273,-700.865 0/1:281:140,141:140:5020:141:4987:-363.288,0,-367.34 0/1:24:13,11:13:468:11:392:-28.289,0,-34.2064 1/1:8:0,8:0:0:8:288:-26.2179,-2.40824,0 0/1:43:21,22:21:732:22:784:-57.8732,0,-53.2544 1/1:181:1,180:1:36:180:6403:-572,-50.8882,0 1/1:235:0,235:0:0:235:8368:-752.568,-70.7421,0 0/1:528:244,284:244:8743:284:10132:-751.832,0,-627.891 0/1:194:113,81:113:4041:81:2881:-201.011,0,-305.462 1/1:245:0,245:0:0:245:8705:-782.635,-73.7524,0 0/1:135:69,66:69:2480:66:2357:-171.259,0,-182.751 0/1:132:40,92:40:1432:92:3235:-251.159,0,-89.437 1/1:227:3,223:3:108:223:7947:-704.396,-58.3171,0 1/1:99:0,99:0:0:99:3518:-316.295,-29.802,0 chr04 3135384 . TCT CCT,CCC 54628.9 PASS AB=0.560831,0.435608;ABP=57.1682,63.6943;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1862,774;CIGAR=1X2M,1X1M1X;DP=2646;DPB=2646.67;DPRA=3.95909,1.51047;EPP=4046.29,1683.73;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2.15,2.46667;MQM=59.9936,59.8747;MQMR=60;NS=21;NUMALT=2;ODDS=16.0023;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=66112,27107;QR=36;RO=1;RPL=1862,774;RPP=4046.29,1683.73;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4046.29,1683.73;SAR=1862,774;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,24,25:0:0:24,25:864,868:-141.054,-70.5497,-63.325,-70.498,0,-62.9723 1/2:40:0,21,19:0:0:21,19:737,659:-113.893,-53.9124,-47.5908,-60.329,0,-54.6094 1/2:49:0,27,22:0:0:27,22:968,776:-142.493,-63.539,-55.4112,-79.3096,0,-72.6869 1/1:46:0,45,0:0:0:45,0:1603,0:-144.199,-13.5464,0,-144.199,-13.5464,-144.199 1/1:143:0,141,1:0:0:141,1:5012,36:-450.867,-42.4452,0,-447.93,-39.5078,-447.629 1/1:40:0,40,0:0:0:40,0:1421,0:-128.185,-12.0412,0,-128.185,-12.0412,-128.185 1/1:88:0,87,1:0:0:87,1:3094,36:-278.325,-26.1896,0,-275.388,-22.8924,-275.087 2/2:33:0,0,33:0:0:0,33:0,1156:-104.345,-104.345,-104.345,-9.93399,-9.93399,0 1/2:129:0,69,59:0:0:69,59:2423,2074:-365.95,-168.751,-147.98,-197.132,0,-179.371 1/2:283:0,146,137:0:0:146,137:5200,4800:-814.69,-390.855,-346.904,-424.188,0,-382.947 1/1:292:1,291,0:1:36:291,0:10365,0:-929.174,-84.3025,0,-929.475,-87.5997,-932.413 1/2:433:0,256,175:0:0:256,175:9114,6178:-1245.77,-502.952,-425.888,-742.811,0,-690.131 1/1:65:0,65,0:0:0:65,0:2301,0:-207.35,-19.567,0,-207.35,-19.567,-207.35 1/1:77:0,77,0:0:0:77,0:2696,0:-242.88,-23.1793,0,-242.88,-23.1793,-242.88 1/2:57:0,27,30:0:0:27,30:972,1050:-165.092,-85.7769,-77.6491,-79.6701,0,-70.6392 1/2:40:0,21,19:0:0:21,19:756,666:-116.236,-54.5452,-48.2235,-62.0456,0,-56.326 1/1:41:0,38,3:0:0:38,3:1359,108:-122.25,-11.4391,0,-113.438,-2.26706,-112.535 1/2:564:0,327,235:0:0:327,235:11617,8192:-1612.82,-666.203,-567.766,-946.604,0,-875.862 1/2:40:0,27,13:0:0:27,13:923,436:-110.556,-35.6459,-27.5181,-75.2474,0,-71.334 1/1:102:0,99,2:0:0:99,2:3484,72:-313.409,-29.802,0,-307.534,-23.9271,-306.932 1/1:34:0,34,0:0:0:34,0:1203,0:-108.574,-10.235,0,-108.574,-10.235,-108.574 chr04 3157430 . A C 5267.29 PASS AB=0.476923;ABP=5.41562;AC=12;AF=0.285714;AN=42;AO=310;CIGAR=1X;DP=938;DPB=938;DPRA=1.70979;EPP=676.167;EPPR=1366.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9581;MQMR=59.9936;NS=21;NUMALT=1;ODDS=7.24556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10976;QR=22363;RO=628;RPL=310;RPP=676.167;RPPR=1366.69;RPR=0;RUN=1;SAF=310;SAP=676.167;SAR=0;SRF=628;SRP=1366.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:17,21:17:608:21:748:-56.2062,0,-43.6129 0/1:23:5,18:5:180:18:648:-51.7282,0,-9.62837 0/1:49:23,26:23:828:26:924:-68.7272,0,-60.0936 0/0:24:24,0:24:849:0:0:0,-7.22472,-76.7278 0/0:72:70,2:70:2500:2:72:0,-14.8374,-218.414 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 1/1:60:0,60:0:0:60:2130:-191.967,-18.0618,0 0/1:69:34,35:34:1216:35:1233:-90.5024,0,-88.9755 0/1:20:16,4:16:564:4:144:-7.29302,0,-45.0697 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:15:12,3:12:416:3:108:-5.55972,0,-33.2562 0/0:66:66,0:66:2360:0:0:0,-19.868,-212.659 0/0:37:37,0:37:1316:0:0:0,-11.1381,-118.742 0/1:86:54,32:54:1932:32:1152:-78.1016,0,-148.268 0/1:47:15,32:15:532:32:1131:-87.9493,0,-34.0647 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:158:89,69:89:3134:69:2407:-169.32,0,-234.723 0/1:15:7,8:7:244:8:279:-20.9321,0,-17.784 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 0/0:39:39,0:39:1388:0:0:0,-11.7402,-125.219 chr04 3171054 . G T 8741.29 PASS AB=0.509827;ABP=3.7358;AC=12;AF=0.285714;AN=42;AO=504;CIGAR=1X;DP=2038;DPB=2038;DPRA=1.0956;EPP=1097.43;EPPR=3295.05;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9365;MQMR=59.9373;NS=21;NUMALT=1;ODDS=14.9652;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18011;QR=54545;RO=1532;RPL=504;RPP=1097.43;RPPR=3295.05;RPR=0;RUN=1;SAF=504;SAP=1097.43;SAR=0;SRF=1532;SRP=3329.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:57,56:57:2044:56:2003:-146.526,0,-150.215 0/1:102:62,40:62:2209:40:1421:-97.481,0,-168.368 0/1:92:39,51:39:1404:51:1824:-136.987,0,-99.077 0/0:136:136,0:136:4848:0:0:0,-40.9401,-436.437 0/0:226:223,3:223:7985:3:108:0,-57.9576,-708.508 0/0:87:87,0:87:3099:0:0:0,-26.1896,-279.138 0/0:155:154,1:154:5496:1:36:0,-43.0614,-491.168 1/1:59:0,59:0:0:59:2088:-188.186,-17.7608,0 0/1:220:123,97:123:4385:97:3480:-247.184,0,-328.594 0/1:11:2,9:2:72:9:320:-25.671,0,-3.52539 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:46:20,26:20:705:26:936:-70.7121,0,-49.9254 0/0:110:110,0:110:3901:0:0:0,-33.1133,-351.283 0/0:112:112,0:112:3904:0:0:0,-33.7154,-351.559 0/1:82:31,51:31:1108:51:1824:-139.757,0,-75.3465 0/1:60:23,37:23:801:37:1328:-101.76,0,-54.3449 0/0:102:102,0:102:3640:0:0:0,-30.7051,-327.535 0/1:79:29,50:29:1044:50:1785:-137.149,0,-70.4934 0/1:60:36,24:36:1283:24:858:-59.4794,0,-97.7108 0/0:146:146,0:146:5190:0:0:0,-43.9504,-467.24 0/0:36:36,0:36:1283:0:0:0,-10.8371,-115.773 chr04 3179326 . A T 45965.9 PASS AB=0.506633;ABP=3.47124;AC=30;AF=0.714286;AN=42;AO=1775;CIGAR=1X;DP=2536;DPB=2536;DPRA=0.737578;EPP=868.273;EPPR=713.521;GTI=0;LEN=1;MEANALT=1;MQM=59.1628;MQMR=59.8134;NS=21;NUMALT=1;ODDS=12.3509;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63498;QR=27292;RO=761;RPL=1308;RPP=868.273;RPPR=713.521;RPR=467;RUN=1;SAF=0;SAP=3857.37;SAR=1775;SRF=0;SRP=1655.5;SRR=761;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:77,70:77:2759:70:2505:-181.385,0,-204.299 0/1:170:119,51:119:4280:51:1813:-112.272,0,-333.768 0/1:129:59,70:59:2124:70:2520:-188.176,0,-152.593 1/1:96:0,96:0:0:96:3418:-307.752,-28.8989,0 1/1:252:1,251:1:36:251:8981:-804.224,-72.2613,0 1/1:145:0,145:0:0:145:5184:-466.365,-43.6494,0 1/1:191:1,190:1:36:190:6797:-607.711,-54.016,0 0/0:161:161,0:161:5750:0:0:0,-48.4658,-517.609 0/1:251:122,129:122:4373:129:4624:-340.485,0,-318.172 0/1:15:7,8:7:252:8:284:-21.3705,0,-18.5135 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:17:9,8:9:324:8:288:-21.1499,0,-24.3883 1/1:121:1,120:1:36:120:4276:-380.582,-32.8264,0 1/1:120:0,120:0:0:120:4282:-384.859,-36.1236,0 0/1:202:95,107:95:3420:107:3827:-283.606,0,-247.159 0/1:97:31,66:31:1112:66:2363:-183.292,0,-70.4895 1/1:93:0,93:0:0:93:3331:-299.979,-27.9958,0 0/1:107:50,57:50:1782:57:2048:-152.013,0,-128.451 0/1:71:26,45:26:936:45:1620:-124.689,0,-63.1863 1/1:90:2,88:2:72:88:3156:-277.271,-20.256,0 1/1:47:0,47:0:0:47:1677:-150.109,-14.1484,0 chr04 3179350 . AGGGAT AGGGGAT,AGGGCAT 49489 PASS AB=0.494671,0.499112;ABP=3.288,3.01801;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1620,720;CIGAR=1M1I5M,4M1I2M;DP=2354;DPB=2746;DPRA=0.709355,1.32481;EPP=3520.8,1566.47;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=2.25,2.64286;MQM=59.3858,59.9125;MQMR=60;NS=21;NUMALT=2;ODDS=10.2979;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57072,25541;QR=36;RO=1;RPL=1620,720;RPP=3520.8,1566.47;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3520.8,1566.47;SAR=1620,720;SRF=0;SRP=5.18177;SRR=1;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:140:0,63,77:0:0:63,77:2212,2729:-402.58,-222.673,-203.708,-180.26,0,-157.08 1/2:155:0,47,107:0:0:47,107:1656,3771:-441.918,-307.147,-292.998,-134.89,0,-102.68 1/2:121:0,65,55:0:0:65,55:2261,1964:-343.939,-160.119,-140.552,-183.813,0,-167.256 1/1:85:0,84,0:0:0:84,0:2957,0:-265.96,-25.2865,0,-265.96,-25.2865,-265.96 1/1:234:0,231,1:0:0:231,1:8145,36:-732.464,-69.5379,0,-729.527,-66.6004,-729.226 1/1:135:0,134,0:0:0:134,0:4719,0:-424.182,-40.338,0,-424.182,-40.338,-424.182 1/1:176:0,176,0:0:0:176,0:6231,0:-560.628,-52.9813,0,-560.628,-52.9813,-560.628 2/2:155:0,0,154:0:0:0,154:0,5484:-493.108,-493.108,-493.108,-46.3586,-46.3586,0 1/2:230:0,113,114:0:0:113,114:3980,4064:-655.303,-331.285,-297.269,-324.034,0,-289.716 1/2:13:0,6,7:0:0:6,7:200,252:-37.0886,-20.9217,-19.1156,-16.5122,0,-14.405 1/1:14:0,14,0:0:0:14,0:500,0:-45.3362,-4.21442,0,-45.3362,-4.21442,-45.3362 1/2:17:0,8,9:0:0:8,9:284,324:-49.9345,-26.7966,-24.3883,-23.4951,0,-20.7858 1/1:106:0,105,1:0:0:105,1:3692,36:-331.763,-31.6082,0,-328.826,-28.3109,-328.525 1/1:107:1,105,0:1:36:105,0:3685,0:-328.075,-28.6707,0,-328.376,-31.6082,-331.314 1/2:190:0,99,90:0:0:99,90:3512,3170:-544.066,-258.027,-228.225,-286.032,0,-258.94 1/2:92:0,64,27:0:0:64,27:2252,953:-260.928,-77.6923,-58.4263,-183.325,0,-175.197 1/1:84:0,84,0:0:0:84,0:2980,0:-268.404,-25.2865,0,-268.404,-25.2865,-268.404 1/2:103:0,53,50:0:0:53,50:1864,1779:-296.874,-145.341,-129.386,-151.887,0,-136.836 1/2:65:0,39,26:0:0:39,26:1370,915:-186.33,-74.8388,-63.0986,-111.843,0,-104.016 1/1:88:0,86,2:0:0:86,2:3027,64:-272.23,-25.8886,0,-267.074,-20.4119,-266.472 1/1:44:0,44,0:0:0:44,0:1545,0:-139.339,-13.2453,0,-139.339,-13.2453,-139.339 chr04 3179375 . CAC CAT,GAT 15319.7 PASS AB=0.504532,0.492447;ABP=3.06934,3.17431;AC=30,12;AF=0.714286,0.285714;AN=42;AO=605,225;CIGAR=2M1X,1X1M1X;DP=831;DPB=831;DPRA=0.631148,0.868831;EPP=1282.24,491.592;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.6,2;MQM=59.8281,22.1244;MQMR=0;NS=21;NUMALT=2;ODDS=0.436395;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21677,7990;QR=0;RO=0;RPL=4,0;RPP=1282.24,491.592;RPPR=0;RPR=601,225;RUN=1,1;SAF=605,225;SAP=1316.75,491.592;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:25:0,11,14:0:0:11,14:396,492:-56.6508,-24.2842,-20.9729,-32.6668,0,-28.4524 1/2:12:0,4,8:0:0:4,8:144,288:-24.6239,-12.8238,-11.6197,-12.1095,0,-9.70126 1/2:48:0,32,16:0:0:32,16:1148,576:-119.914,-26.1787,-16.5457,-93.9969,0,-89.1804 1/1:19:0,19,0:0:0:19,0:680,0:-61.5292,-5.71957,0,-61.5292,-5.71957,-61.5292 1/1:68:0,68,0:0:0:68,0:2436,0:-219.001,-20.47,0,-219.001,-20.47,-219.001 1/1:33:0,33,0:0:0:33,0:1180,0:-106.508,-9.93399,0,-106.508,-9.93399,-106.508 1/1:54:0,53,1:0:0:53,1:1904,36:-171.422,-15.9546,0,-169.848,-14.169,-169.547 2/2:61:0,0,61:0:0:0,61:0,2158:-115.851,-115.851,-115.851,-18.3628,-18.3628,0 1/2:88:0,42,46:0:0:42,46:1508,1636:-194.079,-70.9929,-58.3496,-123.371,0,-109.524 1/2:7:0,3,4:0:0:3,4:104,144:-15.0285,-6.51624,-5.61315,-8.79971,0,-7.59559 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:15:0,6,9:0:0:6,9:216,320:-32.0718,-14.3868,-12.5806,-17.9843,0,-15.2751 1/1:86:0,86,0:0:0:86,0:3084,0:-277.788,-25.8886,0,-277.788,-25.8886,-277.788 1/1:44:0,44,0:0:0:44,0:1565,0:-141.14,-13.2453,0,-141.14,-13.2453,-141.14 1/2:66:0,33,32:0:0:33,32:1180,1128:-152.115,-55.8487,-45.9147,-96.449,0,-86.816 1/2:19:0,8,11:0:0:8,11:288,392:-40.22,-16.6579,-14.2496,-23.8545,0,-20.5432 1/1:30:0,30,0:0:0:30,0:1080,0:-97.5132,-9.0309,0,-97.5132,-9.0309,-97.5132 1/2:19:0,7,12:0:0:7,12:252,430:-39.7421,-19.1245,-17.0172,-20.9217,0,-17.3094 1/2:32:0,21,11:0:0:21,11:752,390:-78.9584,-17.5336,-11.212,-61.6846,0,-58.3733 1/1:68:0,68,0:0:0:68,0:2436,0:-218.475,-20.47,0,-218.475,-20.47,-218.475 1/1:32:0,32,0:0:0:32,0:1144,0:-103.265,-9.63296,0,-103.265,-9.63296,-103.265 chr04 3220489 . G C 17963.9 PASS AB=0.541521;ABP=24.4689;AC=12;AF=0.285714;AN=42;AO=968;CIGAR=1X;DP=2864;DPB=2864;DPRA=1.43877;EPP=2079.02;EPPR=4040.15;GTI=1;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9852;NS=21;NUMALT=1;ODDS=1.77613;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34631;QR=67403;RO=1895;RPL=965;RPP=2079.02;RPPR=4040.15;RPR=3;RUN=1;SAF=0;SAP=2105;SAR=968;SRF=0;SRP=4117.95;SRR=1895;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:246:105,141:105:3734:141:5021:-377.984,0,-262.208 0/1:171:71,100:71:2540:100:3588:-271.65,0,-177.375 0/1:127:42,84:42:1477:84:3004:-232.302,0,-94.9328 0/0:115:115,0:115:4067:0:0:0,-34.6184,-366.219 0/0:211:210,1:210:7497:1:36:0,-59.9191,-671.175 0/0:115:115,0:115:4108:0:0:0,-34.6184,-369.903 0/0:172:171,1:171:6098:1:36:0,-48.1789,-545.325 1/1:190:0,190:0:0:190:6808:-612.791,-57.1957,0 0/1:274:131,143:131:4640:143:5100:-376.661,0,-335.283 0/1:24:15,9:15:532:9:324:-22.2811,0,-40.9884 0/0:12:12,0:12:419:0:0:0,-3.61236,-38.0427 0/1:38:11,27:11:396:27:972:-76.3588,0,-24.5436 0/0:185:185,0:185:6611:0:0:0,-55.6905,-595.071 0/0:117:117,0:117:4151:0:0:0,-35.2205,-373.773 0/1:248:115,133:115:4098:133:4763:-354.171,0,-294.351 0/1:102:43,59:43:1496:59:2120:-160.363,0,-104.225 0/0:118:118,0:118:4206:0:0:0,-35.5215,-378.532 0/1:93:57,36:57:2011:36:1292:-88.588,0,-153.264 0/1:110:66,44:66:2364:44:1567:-108.208,0,-179.905 0/0:128:128,0:128:4564:0:0:0,-38.5318,-410.926 0/0:68:68,0:68:2394:0:0:0,-20.47,-215.717 chr04 3236051 . G T 48515.8 PASS AB=0.511817;ABP=4.49865;AC=30;AF=0.714286;AN=42;AO=2279;CIGAR=1X;DP=2985;DPB=2985;DPRA=0;EPP=4943.11;EPPR=1531.73;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9974;MQMR=60;NS=21;NUMALT=1;ODDS=24.6798;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81512;QR=25201;RO=704;RPL=0;RPP=4951.8;RPPR=1531.73;RPR=2279;RUN=1;SAF=2278;SAP=4943.11;SAR=1;SRF=704;SRP=1531.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:65,58:65:2328:58:2072:-149.724,0,-172.753 0/1:87:49,38:49:1756:38:1364:-96.8711,0,-132.134 0/1:85:38,47:38:1360:47:1665:-124.548,0,-97.113 1/1:275:3,272:3:108:272:9701:-862.968,-72.7081,0 1/1:381:2,379:2:68:379:13517:-1209.86,-108.235,0 1/1:101:0,100:0:0:100:3592:-323.126,-30.103,0 1/1:213:3,210:3:108:210:7495:-664.516,-54.0442,0 0/0:96:95,1:95:3385:1:32:0,-25.6996,-301.666 0/1:270:137,132:137:4892:132:4717:-343.352,0,-359.097 0/1:26:16,10:16:572:10:360:-24.9175,0,-43.9866 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:52:33,19:33:1188:19:684:-46.2368,0,-91.575 1/1:187:0,187:0:0:187:6695:-602.625,-56.2926,0 1/1:157:1,156:1:36:156:5585:-499.173,-43.6634,0 0/1:176:86,90:86:3080:90:3232:-238.12,0,-224.447 0/1:177:85,92:85:3048:92:3300:-243.936,0,-221.267 1/1:94:1,93:1:36:93:3332:-296.499,-24.6985,0 0/1:96:44,52:44:1584:52:1864:-139.141,0,-113.953 0/1:135:45,90:45:1616:90:3221:-249.471,0,-105.091 1/1:158:0,158:0:0:158:5668:-510.233,-47.5627,0 1/1:81:1,80:1:36:80:2876:-255.478,-20.7852,0 chr04 3236112 . G A 34141.4 PASS AB=0.479147;ABP=7.08558;AC=30;AF=0.714286;AN=42;AO=1588;CIGAR=1X;DP=2304;DPB=2304;DPRA=0.739041;EPP=3246;EPPR=1401.04;GTI=0;LEN=1;MEANALT=1.1;MQM=59.995;MQMR=60;NS=21;NUMALT=1;ODDS=6.54775;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56680;QR=25550;RO=714;RPL=25;RPP=3237.58;RPPR=1401.04;RPR=1563;RUN=1;SAF=1;SAP=3442.63;SAR=1587;SRF=0;SRP=1553.44;SRR=714;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:97,77:97:3479:77:2749:-195.271,0,-260.941 0/1:62:38,24:38:1360:24:849:-58.064,0,-104.037 0/1:117:66,51:66:2363:51:1836:-130.3,0,-177.707 1/1:98:2,96:2:72:96:3425:-301.627,-22.6642,0 1/1:165:1,164:1:36:164:5834:-521.576,-46.0717,0 1/1:114:1,113:1:36:113:4056:-361.628,-30.7191,0 1/1:197:2,195:2:72:195:6903:-614.505,-52.4662,0 0/0:146:146,0:146:5215:0:0:0,-43.9504,-469.489 0/1:213:124,88:124:4437:88:3138:-218.615,0,-335.47 0/1:25:5,20:5:180:20:711:-56.7899,0,-9.02631 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:53:16,37:16:567:37:1328:-103.868,0,-35.4061 1/1:111:0,111:0:0:111:3992:-359.468,-33.4143,0 1/1:147:0,147:0:0:147:5257:-473.266,-44.2514,0 0/1:179:108,70:108:3867:70:2478:-169.456,0,-294.41 0/1:80:44,36:44:1566:36:1296:-92.8615,0,-117.148 1/1:62:1,61:1:36:61:2177:-192.596,-15.0656,0 0/1:87:33,54:33:1188:54:1924:-147.247,0,-81.039 0/1:89:29,60:29:1040:60:2160:-167.875,0,-67.1227 1/1:104:1,103:1:36:103:3700:-329.603,-27.7088,0 1/1:72:0,72:0:0:72:2543:-229.119,-21.6742,0 chr04 3236117 . G T 13398 PASS AB=0.514445;ABP=4.95511;AC=12;AF=0.285714;AN=42;AO=706;CIGAR=1X;DP=2287;DPB=2287;DPRA=1.07548;EPP=1383.71;EPPR=3228.64;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9915;MQMR=59.9949;NS=21;NUMALT=1;ODDS=6.59671;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25102;QR=56228;RO=1580;RPL=18;RPP=1383.71;RPPR=3228.64;RPR=688;RUN=1;SAF=0;SAP=1536.07;SAR=706;SRF=0;SRP=3433.94;SRR=1580;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:78,99:78:2787:99:3524:-264.089,0,-197.788 0/1:62:25,37:25:881:37:1316:-100.078,0,-60.942 0/1:114:51,63:51:1828:63:2234:-167.007,0,-130.484 0/0:91:91,0:91:3226:0:0:0,-27.3937,-290.562 0/0:164:163,1:163:5789:1:36:0,-45.7706,-517.53 0/0:116:115,1:115:4100:1:36:0,-31.3212,-365.586 0/0:192:192,0:192:6830:0:0:0,-57.7978,-614.775 1/1:150:0,150:0:0:150:5323:-479.206,-45.1545,0 0/1:212:90,122:90:3202:122:4333:-326.329,0,-224.585 0/1:25:20,5:20:716:5:169:-8.01678,0,-57.242 0/0:9:9,0:9:316:0:0:0,-2.70927,-28.7789 0/1:53:38,15:38:1347:15:532:-32.2585,0,-105.575 0/0:110:110,0:110:3926:0:0:0,-33.1133,-353.532 0/0:148:148,0:148:5264:0:0:0,-44.5524,-473.895 0/1:177:69,108:69:2464:108:3851:-293.5,0,-168.732 0/1:75:34,41:34:1220:41:1464:-109.479,0,-87.5296 0/0:61:60,1:60:2148:1:36:0,-14.7646,-189.989 0/1:88:54,33:54:1921:33:1172:-79.2382,0,-146.616 0/1:90:61,29:61:2148:29:1040:-66.8217,0,-166.493 0/0:103:102,1:102:3631:1:36:0,-27.4078,-323.398 0/0:70:70,0:70:2484:0:0:0,-21.0721,-223.812 chr04 3287068 . G A 7803.58 PASS AB=0.510968;ABP=3.82005;AC=11;AF=0.261905;AN=42;AO=399;CIGAR=1X;DP=1577;DPB=1577;DPRA=0.942339;EPP=549.9;EPPR=999.683;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9779;NS=21;NUMALT=1;ODDS=11.0983;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14272;QR=42018;RO=1177;RPL=41;RPP=549.9;RPPR=999.683;RPR=358;RUN=1;SAF=399;SAP=869.428;SAR=0;SRF=1177;SRP=2558.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:51,49:51:1813:49:1755:-128.131,0,-133.347 0/1:75:41,34:41:1468:34:1216:-87.1693,0,-109.839 0/1:76:36,40:36:1288:40:1431:-106.209,0,-93.3453 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.809 0/0:198:198,0:198:7061:0:0:0,-59.6039,-635.553 0/0:26:26,0:26:927:0:0:0,-7.82678,-83.7474 0/0:98:98,0:98:3512:0:0:0,-29.5009,-316.29 0/1:74:34,40:34:1224:40:1436:-107.261,0,-88.1908 0/1:89:38,51:38:1356:51:1828:-138.009,0,-95.5488 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:29:16,13:16:572:13:468:-33.7298,0,-43.0836 0/0:96:96,0:96:3418:0:0:0,-28.8989,-307.832 0/0:103:102,1:102:3624:1:36:0,-27.4078,-322.767 0/1:135:56,79:56:1989:79:2836:-214.839,0,-138.643 0/1:59:36,23:36:1277:23:828:-57.0833,0,-97.0996 0/0:93:93,0:93:3309:0:0:0,-27.9958,-298.028 0/1:71:31,40:31:1112:40:1413:-106.092,0,-79.0182 0/1:61:37,24:37:1328:24:845:-58.0043,0,-101.459 0/0:76:74,2:74:2644:2:72:0,-16.0416,-231.37 0/0:29:28,0:28:1008:0:0:0,-8.42884,-90.6765 chr04 3287077 . A G 24879.3 PASS AB=0.494898;ABP=3.18756;AC=31;AF=0.738095;AN=42;AO=1196;CIGAR=1X;DP=1595;DPB=1595;DPRA=0;EPP=2591.41;EPPR=867.256;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9849;MQMR=60;NS=21;NUMALT=1;ODDS=9.78404;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42432;QR=14258;RO=398;RPL=1195;RPP=2591.41;RPPR=867.256;RPR=1;RUN=1;SAF=1196;SAP=2600.09;SAR=0;SRF=398;SRP=867.256;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:49,55:49:1756:55:1946:-144.107,0,-127.017 0/1:76:34,42:34:1220:42:1508:-113.136,0,-87.2285 0/1:78:41,37:41:1453:37:1313:-94.9894,0,-107.584 1/1:70:0,70:0:0:70:2440:-219.85,-21.0721,0 1/1:202:0,202:0:0:202:7191:-647.246,-60.8081,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 1/1:102:0,102:0:0:102:3587:-323.035,-30.7051,0 0/1:73:39,34:39:1381:34:1210:-87.2308,0,-102.612 0/1:88:49,39:49:1764:39:1373:-97.3759,0,-132.553 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:30:13,17:13:468:17:604:-45.6597,0,-33.4287 1/1:95:0,95:0:0:95:3383:-304.685,-28.5979,0 1/1:106:1,105:1:36:105:3678:-327.619,-28.3109,0 0/1:135:80,55:80:2872:55:1976:-137.476,0,-218.077 0/1:60:23,36:23:828:36:1284:-97.9,0,-56.8783 1/1:94:0,94:0:0:94:3361:-302.705,-28.2968,0 0/1:75:41,34:41:1472:34:1212:-86.8091,0,-110.199 0/1:59:23,36:23:828:36:1292:-98.823,0,-57.0833 1/1:75:2,73:2:72:73:2578:-225.431,-15.7405,0 1/1:28:0,28:0:0:28:996:-89.9549,-8.42884,0 chr04 3308171 . T C 3375.12 PASS AB=0.292779;ABP=380.088;AC=9;AF=0.214286;AN=42;AO=304;CIGAR=1X;DP=2672;DPB=2672;DPRA=0.851438;EPP=663.138;EPPR=5127.7;GTI=2;LEN=1;MEANALT=1;MQM=59.4868;MQMR=54.1727;NS=21;NUMALT=1;ODDS=8.02603;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10900;QR=84865;RO=2368;RPL=0;RPP=663.138;RPPR=5145.06;RPR=304;RUN=1;SAF=304;SAP=663.138;SAR=0;SRF=2366;SRP=5127.7;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:107,27:107:3828:27:972:-47.363,0,-303.269 0/1:44:25,19:25:900:19:680:-48.2675,0,-67.2388 0/1:140:100,40:100:3584:40:1432:-87.0334,0,-280.05 0/0:210:210,0:210:7508:0:0:0,-63.2163,-671.854 0/0:316:316,0:316:11312:0:0:0,-95.1255,-1014.84 0/0:164:163,1:163:5852:1:36:0,-45.7797,-518.802 0/0:182:182,0:182:6548:0:0:0,-54.7875,-585.213 0/1:185:125,60:125:4488:60:2148:-137.884,0,-344.881 0/1:174:117,57:117:4192:57:2048:-132.097,0,-323.035 0/0:7:7,0:7:252:0:0:0,-2.10721,-22.8695 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.7417 0/1:45:36,9:36:1292:9:324:-15.9595,0,-102.501 0/0:174:173,1:173:6216:1:36:0,-48.7809,-553.958 0/0:151:151,0:151:5368:0:0:0,-45.4555,-482.399 0/1:181:127,54:127:4560:54:1932:-119.574,0,-355.308 0/0:67:63,4:63:2260:4:140:0,-7.22443,-190.53 0/0:135:133,2:133:4776:2:72:0,-33.8023,-422.741 0/1:42:24,18:24:849:18:648:-45.9994,0,-63.7403 0/1:66:54,12:54:1936:12:432:-19.3532,0,-154.137 0/0:190:190,0:190:6808:0:0:0,-57.1957,-610.042 0/0:54:54,0:54:1940:0:0:0,-16.2556,-173.804 chr04 3308189 . ATGTC TCGTT,TCGTC 56493.9 PASS AB=0.704612,0.2895;ABP=373.565,395.199;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2378,303;CIGAR=2X2M1X,2X3M;DP=2704;DPB=2704;DPRA=0,0.84683;EPP=5149.41,660.966;EPPR=5.18177;GTI=2;LEN=5,2;MEANALT=2.47619,2.53846;MQM=54.1972,59.4653;MQMR=60;NS=21;NUMALT=2;ODDS=7.60303;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=83274,10701;QR=36;RO=1;RPL=0,0;RPP=5166.77,660.966;RPPR=5.18177;RPR=2378,303;RUN=1,1;SAF=2376,303;SAP=5149.41,660.966;SAR=2,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:136:0,109,27:0:0:109,27:3774,967:-385.063,-79.128,-46.3157,-306.29,0,-298.162 1/2:44:0,25,19:0:0:25,19:887,676:-127.044,-55.438,-47.9123,-71.9596,0,-66.24 1/2:141:0,101,40:0:0:101,40:3559,1438:-406.902,-117.677,-87.2726,-289.583,0,-277.541 1/1:214:0,207,0:0:0:207,0:7234,0:-648.832,-62.3132,0,-648.832,-62.3132,-648.832 1/1:318:0,317,0:0:0:317,0:11115,0:-997.517,-95.4265,0,-997.517,-95.4265,-997.517 1/1:166:1,164,1:1:36:164,1:5756,32:-510.957,-46.4114,0,-508.683,-46.814,-511.32 1/1:183:0,183,0:0:0:183,0:6417,0:-574.414,-55.0885,0,-574.414,-55.0885,-574.414 1/2:185:0,124,61:0:0:124,61:4311,2125:-520.991,-173.138,-135.81,-348.201,0,-329.838 1/2:176:0,118,56:0:0:118,56:4113,1969:-493.436,-160.273,-124.752,-333.225,0,-316.367 1/1:7:0,7,0:0:0:7,0:250,0:-22.7307,-2.10721,0,-22.7307,-2.10721,-22.7307 1/1:11:0,11,0:0:0:11,0:392,0:-35.434,-3.31133,0,-35.434,-3.31133,-35.434 1/2:46:0,35,10:0:0:35,10:1246,354:-130.067,-28.9138,-18.3778,-101.23,0,-98.2202 1/1:174:0,173,1:0:0:173,1:6151,36:-551.815,-52.0782,0,-548.878,-48.7809,-548.577 1/1:160:0,158,0:0:0:158,0:5388,0:-483.819,-47.5627,0,-483.819,-47.5627,-483.819 1/2:182:0,127,54:0:0:127,54:4494,1885:-518.667,-153.282,-115.051,-365.376,0,-349.12 1/1:67:0,63,4:0:0:63,4:2219,144:-199.435,-18.9649,0,-187.685,-6.85539,-186.481 1/1:140:0,137,2:0:0:137,2:4767,72:-428.508,-41.2411,0,-422.633,-35.3503,-422.031 1/2:43:0,25,17:0:0:25,17:877,612:-120.363,-50.0306,-42.5048,-70.4288,0,-65.3113 1/2:66:0,54,11:0:0:54,11:1890,391:-185.3,-31.8585,-15.6029,-153.437,0,-150.125 1/1:190:0,188,0:0:0:188,0:6597,0:-591.755,-56.5936,0,-591.755,-56.5936,-591.755 1/1:55:0,52,0:0:0:52,0:1837,0:-164.385,-15.6536,0,-164.385,-15.6536,-164.385 chr04 3308207 . G C 49199.4 PASS AB=0.706533;ABP=371.661;AC=33;AF=0.785714;AN=42;AO=2322;CIGAR=1X;DP=2622;DPB=2622;DPRA=0;EPP=5027.81;EPPR=652.281;GTI=2;LEN=1;MEANALT=1.04762;MQM=54.1697;MQMR=59.5251;NS=21;NUMALT=1;ODDS=7.84907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82132;QR=10625;RO=299;RPL=2322;RPP=5045.17;RPPR=652.281;RPR=0;RUN=1;SAF=2320;SAP=5027.81;SAR=2;SRF=299;SRP=652.281;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:27,107:27:968:107:3795:-300.761,0,-47.0521 0/1:44:19,25:19:676:25:892:-66.662,0,-47.9063 0/1:137:38,99:38:1345:99:3540:-276.935,0,-80.107 1/1:206:0,206:0:0:206:7262:-651.526,-62.0122,0 1/1:311:0,311:0:0:311:11073:-993.593,-93.6203,0 1/1:160:0,159:0:0:159:5653:-504.523,-47.8638,0 1/1:179:0,179:0:0:179:6309:-564.398,-53.8844,0 0/1:179:59,120:59:2112:120:4212:-323.549,0,-136.452 0/1:172:57,115:57:2040:115:4049:-311.502,0,-132.036 1/1:7:0,7:0:0:7:252:-22.8695,-2.10721,0 1/1:11:0,11:0:0:11:392:-35.3839,-3.31133,0 0/1:45:10,35:10:345:35:1252:-98.9401,0,-17.8345 1/1:173:1,172:1:36:172:6153:-548.304,-48.4799,0 1/1:138:0,138:0:0:138:4691:-421.705,-41.5421,0 0/1:177:53,124:53:1874:124:4399:-342.078,0,-115.638 1/1:67:4,63:4:144:63:2260:-190.161,-6.85539,0 1/1:132:2,130:2:68:130:4593:-406.711,-33.2783,0 0/1:42:17,25:17:603:25:877:-65.6212,0,-41.947 0/1:65:12,53:12:414:53:1900:-151.202,0,-18.022 1/1:188:0,188:0:0:188:6675:-598.505,-56.5936,0 1/1:55:0,55:0:0:55:1903:-170.723,-16.5567,0 chr04 3308353 . 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T A 4186.36 PASS AB=0.393305;ABP=73.9057;AC=11;AF=0.261905;AN=42;AO=289;CIGAR=1X;DP=1428;DPB=1428;DPRA=1.39623;EPP=630.566;EPPR=2476.32;GTI=1;LEN=1;MEANALT=1;MQM=59.9446;MQMR=59.986;NS=21;NUMALT=1;ODDS=4.06677;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10356;QR=40793;RO=1139;RPL=289;RPP=630.566;RPPR=2458.98;RPR=0;RUN=1;SAF=0;SAP=630.566;SAR=289;SRF=2;SRP=2458.98;SRR=1137;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:35,20:35:1260:20:712:-47.85,0,-97.1488 0/1:35:20,15:20:716:15:536:-38.0388,0,-54.2317 0/1:75:48,27:48:1705:27:968:-64.8601,0,-131.157 0/0:56:56,0:56:2016:0:0:0,-16.8577,-181.713 0/0:123:120,3:120:4308:3:108:0,-26.9515,-377.812 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/1:81:33,48:33:1169:48:1716:-130.333,0,-81.1319 0/1:114:72,42:72:2569:42:1512:-102.057,0,-197.141 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/0:4:4,0:4:125:0:0:0,-1.20412,-11.5553 0/1:22:14,8:14:489:8:288:-19.6447,0,-37.7162 0/0:127:126,1:126:4508:1:36:0,-34.6325,-402.29 0/0:80:78,2:78:2800:2:72:0,-17.2457,-245.403 0/1:134:86,48:86:3088:48:1716:-114.388,0,-237.809 0/1:36:16,20:16:572:20:716:-53.9306,0,-40.9763 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/1:92:53,39:53:1908:39:1400:-98.6044,0,-144.303 0/1:67:54,13:54:1940:13:468:-22.2883,0,-154.707 0/0:118:118,0:118:4232:0:0:0,-35.5215,-381.059 0/0:63:62,1:62:2224:1:36:0,-15.3666,-196.826 chr04 3370469 . 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AGAAT TGAAG,TGAAT 41463 PASS AB=0.552106,0.445676;ABP=24.2821,26.1309;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1534,408;CIGAR=1X3M1X,1X4M;DP=1951;DPB=1951;DPRA=0,0.773534;EPP=3290.76,888.971;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.14286,2.33333;MQM=59.8911,59.9804;MQMR=0;NS=21;NUMALT=2;ODDS=5.71345;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54069,14607;QR=0;RO=0;RPL=5,0;RPP=3290.76,888.971;RPPR=0;RPR=1529,408;RUN=1,1;SAF=1534,408;SAP=3334.05,888.971;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,41,25:0:0:41,25:1449,896:-191.442,-73.4346,-61.0924,-118.363,0,-110.838 1/2:99:0,52,47:0:0:52,47:1828,1683:-286.4,-137.609,-121.955,-149.146,0,-134.998 1/2:51:0,28,23:0:0:28,23:976,828:-147.287,-67.9204,-59.4916,-79.7217,0,-72.798 1/1:151:0,148,1:0:0:148,1:5164,30:-464.518,-44.5524,0,-462.12,-42.1722,-461.819 1/1:232:0,231,0:0:0:231,0:8173,0:-735.23,-69.5379,0,-735.23,-69.5379,-735.23 1/1:90:0,89,0:0:0:89,0:3132,0:-281.74,-26.7917,0,-281.74,-26.7917,-281.74 1/1:141:0,141,0:0:0:141,0:4974,0:-447.811,-42.4452,0,-447.811,-42.4452,-447.811 1/2:82:0,33,49:0:0:33,49:1173,1760:-239.52,-143.933,-133.999,-95.9438,0,-81.1933 1/2:103:0,57,46:0:0:57,46:2005,1652:-298.33,-135.121,-117.962,-163.565,0,-149.717 1/2:9:0,3,6:0:0:3,6:105,216:-26.5242,-17.9843,-17.0812,-8.893,0,-7.08682 1/1:5:0,5,0:0:0:5,0:179,0:-16.4604,-1.50515,0,-16.4604,-1.50515,-16.4604 1/2:30:0,23,7:0:0:23,7:821,252:-87.8515,-20.9217,-13.9981,-67.2889,0,-65.1817 1/1:84:0,83,1:0:0:83,1:2930,32:-263.616,-24.9855,0,-261.038,-22.0872,-260.737 1/1:78:0,77,0:0:0:77,0:2659,0:-239.167,-23.1793,0,-239.167,-23.1793,-239.167 1/2:179:0,97,81:0:0:97,81:3401,2893:-512.774,-236.027,-206.827,-276.91,0,-252.526 1/2:86:0,42,44:0:0:42,44:1485,1569:-249.145,-128.254,-115.611,-121.245,0,-108 1/1:119:0,118,0:0:0:118,0:4189,0:-376.845,-35.5215,0,-376.845,-35.5215,-376.845 1/2:120:0,72,47:0:0:72,47:2545,1684:-344.608,-137.339,-115.665,-207.266,0,-193.117 1/2:77:0,50,27:0:0:50,27:1760,968:-222.584,-79.3096,-64.2581,-143.63,0,-135.502 1/1:90:0,88,2:0:0:88,2:3125,72:-281.012,-26.4906,0,-275.137,-20.256,-274.535 1/1:59:0,56,2:0:0:56,2:1996,72:-179.596,-16.8577,0,-173.721,-10.8963,-173.119 chr04 3388478 . G T 36574.6 PASS AB=0.584677;ABP=64.7922;AC=31;AF=0.738095;AN=42;AO=1740;CIGAR=1X;DP=2159;DPB=2159;DPRA=0;EPP=3781.37;EPPR=910.686;GTI=0;LEN=1;MEANALT=1.04762;MQM=55.4167;MQMR=41.5646;NS=21;NUMALT=1;ODDS=19.0333;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61977;QR=14885;RO=418;RPL=1740;RPP=3781.37;RPPR=910.686;RPR=0;RUN=1;SAF=1740;SAP=3781.37;SAR=0;SRF=418;SRP=910.686;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:52,84:52:1864:84:3011:-230.005,0,-120.838 0/1:41:22,19:22:788:19:680:-49.1591,0,-53.1932 0/1:116:57,59:57:2032:59:2107:-154.79,0,-143.092 1/1:80:0,80:0:0:80:2867:-258.006,-24.0824,0 1/1:296:0,296:0:0:296:10526:-946.339,-89.1049,0 1/1:83:0,83:0:0:83:2940:-264.714,-24.9855,0 1/1:166:1,165:1:36:165:5844:-522.455,-46.5834,0 0/1:65:28,37:28:1008:37:1332:-100.53,0,-65.5232 0/1:186:79,107:79:2800:107:3827:-288.168,0,-191.597 0/1:21:10,11:10:360:11:377:-27.9149,0,-24.3997 1/1:4:0,4:0:0:4:144:-13.3073,-1.20412,0 0/1:23:13,10:13:464:10:360:-25.7986,0,-33.52 1/1:122:0,122:0:0:122:4368:-391.631,-36.7257,0 1/1:88:0,88:0:0:88:3123:-281.029,-26.4906,0 0/1:166:57,109:57:2036:109:3881:-298.683,0,-128.588 0/1:97:45,52:45:1588:52:1856:-137.893,0,-111.197 1/1:78:2,76:2:72:76:2728:-238.702,-16.7617,0 0/1:67:20,47:20:693:47:1667:-130.046,0,-39.2667 0/1:74:28,45:28:1000:45:1603:-122.081,0,-65.2836 1/1:193:4,189:4:144:189:6709:-590.362,-44.98,0 1/1:57:0,57:0:0:57:2027:-182.62,-17.1587,0 chr04 3405394 . C T 32033.2 PASS AB=0.521858;ABP=7.56683;AC=31;AF=0.738095;AN=42;AO=1508;CIGAR=1X;DP=2038;DPB=2038;DPRA=0;EPP=3182.74;EPPR=1127.98;GTI=0;LEN=1;MEANALT=1;MQM=59.9947;MQMR=60;NS=21;NUMALT=1;ODDS=11.8842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54078;QR=18940;RO=530;RPL=1497;RPP=3182.74;RPPR=1127.98;RPR=11;RUN=1;SAF=0;SAP=3277.59;SAR=1508;SRF=0;SRP=1153.89;SRR=530;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:51,80:51:1820:80:2862:-218.382,0,-124.646 0/1:80:36,44:36:1284:44:1580:-118.407,0,-91.781 0/1:153:97,56:97:3475:56:2004:-134.576,0,-266.903 1/1:43:0,43:0:0:43:1548:-139.613,-12.9443,0 1/1:189:2,187:2:68:187:6705:-597.065,-50.437,0 1/1:80:0,80:0:0:80:2856:-257.278,-24.0824,0 1/1:109:2,107:2:72:107:3840:-338.959,-25.9755,0 0/1:102:54,48:54:1931:48:1728:-125.1,0,-143.361 0/1:203:100,103:100:3580:103:3700:-272.092,0,-261.298 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:39:17,22:17:600:22:792:-59.8655,0,-42.589 1/1:99:0,99:0:0:99:3535:-318.359,-29.802,0 1/1:139:0,139:0:0:139:4983:-448.617,-41.8432,0 0/1:191:94,97:94:3358:97:3484:-256.273,0,-244.939 0/1:51:23,28:23:820:28:1008:-75.6838,0,-58.77 1/1:76:0,76:0:0:76:2718:-244.863,-22.8783,0 0/1:56:20,36:20:712:36:1292:-99.7261,0,-47.549 0/1:78:24,54:24:860:54:1935:-150.945,0,-54.2415 1/1:138:1,137:1:36:137:4924:-439.71,-37.9439,0 1/1:59:0,59:0:0:59:2120:-191.068,-17.7608,0 chr04 3443587 . A G 4282.27 PASS AB=0.526639;ABP=6.01832;AC=11;AF=0.261905;AN=42;AO=259;CIGAR=1X;DP=1087;DPB=1087;DPRA=0.900304;EPP=565.422;EPPR=1800.99;GTI=1;LEN=1;MEANALT=1;MQM=57.0425;MQMR=59.9614;NS=21;NUMALT=1;ODDS=1.63035;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9224;QR=29235;RO=828;RPL=0;RPP=565.422;RPPR=1800.99;RPR=259;RUN=1;SAF=259;SAP=565.422;SAR=0;SRF=828;SRP=1800.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:23,35:23:801:35:1226:-93.1495,0,-54.947 0/1:19:4,15:4:125:15:536:-42.6416,0,-5.83905 0/1:67:34,33:34:1201:33:1180:-85.7322,0,-88.2246 0/0:45:45,0:45:1577:0:0:0,-13.5463,-142.218 0/0:105:103,2:103:3647:2:72:0,-24.7759,-321.443 0/0:34:34,0:34:1178:0:0:0,-10.235,-106.32 0/0:98:98,0:98:3466:0:0:0,-29.5009,-312.152 0/1:32:17,15:17:589:15:521:-37.5354,0,-43.7003 0/1:126:69,57:69:2461:57:2037:-145.579,0,-183.795 0/1:5:4,1:4:129:1:36:-2.08942,0,-10.4225 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:31:15,16:15:525:16:572:-42.4298,0,-38.2461 0/0:78:78,0:78:2769:0:0:0,-23.4803,-249.451 0/0:55:55,0:55:1912:0:0:0,-16.5566,-172.35 0/1:35:14,21:14:504:21:756:-57.7431,0,-35.162 0/1:41:10,31:10:341:31:1108:-87.6517,0,-18.6755 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:37:16,21:16:553:21:748:-56.3349,0,-38.9559 0/1:37:25,12:25:896:12:432:-28.0721,0,-69.8222 0/0:120:120,0:120:4269:0:0:0,-36.1236,-384.389 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 chr04 3443589 . T C 17979.5 PASS AB=0.482759;ABP=4.28323;AC=31;AF=0.738095;AN=42;AO=849;CIGAR=1X;DP=1107;DPB=1107;DPRA=0;EPP=1846.59;EPPR=563.25;GTI=1;LEN=1;MEANALT=1;MQM=59.9623;MQMR=57.0426;NS=21;NUMALT=1;ODDS=2.46252;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30372;QR=9264;RO=258;RPL=0;RPP=1846.59;RPPR=563.25;RPR=849;RUN=1;SAF=849;SAP=1846.59;SAR=0;SRF=258;SRP=563.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:35,24:35:1260:24:856:-59.6003,0,-95.9081 0/1:20:15,5:15:540:5:180:-10.5315,0,-42.6986 0/1:71:34,37:34:1220:37:1324:-98.089,0,-87.8697 1/1:46:1,45:1:36:45:1604:-141.052,-10.2491,0 1/1:107:2,105:2:72:105:3737:-329.541,-25.378,0 1/1:34:0,34:0:0:34:1224:-110.467,-10.235,0 1/1:102:0,102:0:0:102:3655:-329.154,-30.7051,0 0/1:32:15,17:15:540:17:604:-45.0576,0,-39.2503 0/1:124:55,69:55:1972:69:2464:-184.68,0,-140.336 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.08942 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:31:16,15:16:572:15:536:-39.2429,0,-42.4298 1/1:79:0,79:0:0:79:2832:-255.118,-23.7814,0 1/1:56:0,56:0:0:56:2004:-180.634,-16.8577,0 0/1:35:21,14:21:756:14:504:-35.162,0,-57.7431 0/1:41:31,10:31:1112:10:360:-20.4021,0,-88.012 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 0/1:36:20,16:20:716:16:572:-40.9763,0,-53.7597 0/1:39:12,27:12:432:27:968:-75.6972,0,-27.4701 1/1:122:0,122:0:0:122:4368:-393.294,-36.7257,0 1/1:40:0,40:0:0:40:1432:-129.178,-12.0412,0 chr04 3443598 . A G 4251.93 PASS AB=0.51417;ABP=3.87186;AC=11;AF=0.261905;AN=42;AO=256;CIGAR=1X;DP=1109;DPB=1109;DPRA=0.887303;EPP=558.907;EPPR=1855.28;GTI=1;LEN=1;MEANALT=1;MQM=57.0586;MQMR=59.9625;NS=21;NUMALT=1;ODDS=2.67818;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9185;QR=30459;RO=853;RPL=0;RPP=558.907;RPPR=1855.28;RPR=256;RUN=1;SAF=256;SAP=558.907;SAR=0;SRF=853;SRP=1855.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:24,34:24:864:34:1220:-92.6143,0,-60.6228 0/1:21:6,15:6:212:15:540:-42.3976,0,-13.1032 0/1:70:36,34:36:1292:34:1209:-87.1784,0,-95.5117 0/0:45:45,0:45:1596:0:0:0,-13.5463,-143.93 0/0:107:105,2:105:3761:2:72:0,-25.378,-331.698 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/0:102:102,0:102:3637:0:0:0,-30.7051,-327.534 0/1:31:17,14:17:612:14:500:-35.9563,0,-46.0815 0/1:127:71,56:71:2529:56:2012:-143.031,0,-189.612 0/1:5:4,1:4:144:1:36:-2.08942,0,-11.8085 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:31:15,16:15:540:16:576:-42.7893,0,-39.6046 0/0:80:80,0:80:2838:0:0:0,-24.0824,-255.656 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 0/1:35:14,21:14:489:21:756:-57.7431,0,-33.8028 0/1:41:10,31:10:360:31:1116:-88.346,0,-20.4021 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:36:16,20:16:576:20:716:-53.7597,0,-41.3379 0/1:39:27,12:27:960:12:432:-27.4701,0,-74.9761 0/0:122:122,0:122:4345:0:0:0,-36.7257,-391.226 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 chr04 3443605 . ATTTATTC ATTATTC,ATCATTC 22999.9 PASS AB=0.470468,0.519348;ABP=6.72967,4.60684;AC=31,11;AF=0.738095,0.261905;AN=42;AO=816,257;CIGAR=1M1D6M,1M1D1M1X4M;DP=1086;DPB=950.25;DPRA=0,0.898785;EPP=1774.93,561.079;EPPR=0;GTI=2;LEN=1,7;MEANALT=2.09524,2.58333;MQM=60,57.1751;MQMR=0;NS=21;NUMALT=2;ODDS=1.44516;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29056,9126;QR=0;RO=0;RPL=0,0;RPP=1774.93,561.079;RPPR=0;RPR=816,257;RUN=1,1;SAF=816,257;SAP=1774.93,561.079;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:58:0,23,35:0:0:23,35:824,1221:-166.829,-99.6241,-92.7004,-67.5596,0,-57.0236 1/2:21:0,6,15:0:0:6,15:216,535:-61.3816,-43.7557,-41.9495,-17.9843,0,-13.4689 1/2:71:0,37,32:0:0:37,32:1316,1137:-199.757,-92.5054,-81.3673,-107.339,0,-97.7059 1/1:43:0,43,0:0:0:43,0:1540,0:-138.893,-12.9443,0,-138.893,-12.9443,-138.893 1/1:101:0,97,2:0:0:97,2:3432,72:-308.756,-29.1999,0,-302.885,-23.307,-302.283 1/1:33:0,32,0:0:0:32,0:1140,0:-102.549,-9.63296,0,-102.549,-9.63296,-102.549 1/1:102:0,102,0:0:0:102,0:3636,0:-327.446,-30.7051,0,-327.446,-30.7051,-327.446 1/2:32:0,17,15:0:0:17,15:604,536:-93.2269,-44.0098,-38.8923,-49.5731,0,-45.0576 1/2:123:0,64,57:0:0:64,57:2287,2028:-351.65,-165.182,-145.916,-186.465,0,-169.307 1/2:5:0,4,1:0:0:4,1:144,36:-15.0435,-3.29354,-2.08942,-12.1095,0,-11.8085 1/1:4:0,4,0:0:0:4,0:129,0:-11.9277,-1.20412,0,-11.9277,-1.20412,-11.9277 1/2:31:0,15,16:0:0:15,16:540,572:-91.0085,-46.9459,-42.4304,-44.4211,0,-39.6046 1/1:77:0,77,0:0:0:77,0:2729,0:-245.853,-23.1793,0,-245.853,-23.1793,-245.853 1/1:56:0,55,0:0:0:55,0:1951,0:-175.505,-16.5567,0,-175.505,-16.5567,-175.505 1/2:35:0,14,21:0:0:14,21:491,745:-100.919,-60.9645,-56.7501,-40.3067,0,-33.9851 1/2:40:0,10,29:0:0:10,29:360,1033:-113.619,-84.2429,-81.2326,-29.4386,0,-20.7088 1/1:23:0,20,0:0:0:20,0:720,0:-64.7689,-6.0206,0,-64.7689,-6.0206,-64.7689 1/2:37:0,15,22:0:0:15,22:540,779:-107.698,-63.6338,-59.1184,-44.4211,0,-37.7984 1/2:38:0,26,12:0:0:26,12:917,432:-110.258,-35.5979,-27.7711,-75.0178,0,-71.4055 1/1:117:0,116,0:0:0:116,0:4140,0:-372.425,-34.9195,0,-372.425,-34.9195,-372.425 1/1:39:0,39,0:0:0:39,0:1400,0:-126.299,-11.7402,0,-126.299,-11.7402,-126.299 chr04 3474327 . T C 7062.4 PASS AB=0.593284;ABP=63.7791;AC=11;AF=0.261905;AN=42;AO=480;CIGAR=1X;DP=1407;DPB=1407;DPRA=1.10251;EPP=104.798;EPPR=1989.99;GTI=0;LEN=1;MEANALT=1;MQM=27.5104;MQMR=59.7282;NS=21;NUMALT=1;ODDS=3.2482;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17171;QR=32749;RO=927;RPL=479;RPP=1036.65;RPPR=1972.77;RPR=1;RUN=1;SAF=164;SAP=107.531;SAR=316;SRF=2;SRP=1998.63;SRR=925;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:39,61:39:1366:61:2180:-102.827,0,-93.1314 0/1:38:18,20:18:644:20:720:-40.0713,0,-46.8481 0/1:66:17,49:17:593:49:1764:-90.2472,0,-33.8234 0/0:31:31,0:31:1074:0:0:0,-9.33193,-96.2545 0/0:78:77,1:77:2733:1:36:0,-20.8317,-243.403 0/0:50:50,0:50:1769:0:0:0,-15.0515,-159.488 0/0:135:135,0:135:4707:0:0:0,-40.639,-423.778 0/1:108:55,53:55:1941:53:1889:-121.72,0,-142.447 0/1:108:35,73:35:1226:73:2601:-137.811,0,-78.1251 0/1:11:8,3:8:288:3:108:-5.77792,0,-22.9561 0/0:17:17,0:17:593:0:0:0,-5.11751,-53.6947 0/1:22:7,15:7:252:15:540:-37.5251,0,-16.4063 0/0:52:51,1:51:1832:1:36:0,-13.4704,-162.974 0/0:65:65,0:65:2313:0:0:0,-19.5669,-208.426 0/1:142:47,95:47:1657:95:3404:-168.006,0,-106.666 0/1:53:18,35:18:625:35:1248:-59.9987,0,-40.6179 0/0:34:33,1:33:1150:1:36:0,-7.41394,-99.8749 0/1:70:36,34:36:1296:34:1220:-76.5465,0,-95.554 0/1:86:47,39:47:1676:39:1389:-58.057,0,-124.53 0/0:95:95,0:95:3362:0:0:0,-28.5978,-302.794 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.962 chr04 3475172 . G A 4328.98 PASS AB=0.454976;ABP=14.1558;AC=11;AF=0.261905;AN=42;AO=296;CIGAR=1X;DP=2084;DPB=2084;DPRA=1.12197;EPP=645.766;EPPR=3885.6;GTI=2;LEN=1;MEANALT=1;MQM=59.9595;MQMR=59.9704;NS=21;NUMALT=1;ODDS=1.51371;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10608;QR=63896;RO=1788;RPL=0;RPP=645.766;RPPR=3885.6;RPR=296;RUN=1;SAF=296;SAP=645.766;SAR=0;SRF=1788;SRP=3885.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:30,26:30:1076:26:928:-66.976,0,-80.2952 0/1:60:27,33:27:960:33:1184:-88.8065,0,-68.6545 0/1:67:42,25:42:1496:25:892:-60.4307,0,-114.766 0/0:186:185,1:185:6613:1:36:0,-52.3933,-591.651 0/0:358:354,4:354:12646:4:144:0,-94.4551,-1124.65 0/0:107:106,1:106:3777:1:36:0,-28.6119,-336.527 0/0:160:159,1:159:5696:1:36:0,-44.5665,-509.159 0/1:37:18,19:18:648:19:684:-50.7522,0,-47.5138 0/1:117:57,60:57:2048:60:2140:-157.643,0,-149.371 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:31:21,10:21:756:10:360:-23.4124,0,-59.0353 0/0:188:188,0:188:6737:0:0:0,-56.5936,-606.402 0/0:118:118,0:118:4201:0:0:0,-35.5215,-378.272 0/1:68:35,33:35:1229:33:1188:-86.7586,0,-90.1231 0/1:99:55,44:55:1972:44:1576:-112.33,0,-147.953 0/0:59:59,0:59:2108:0:0:0,-17.7608,-189.989 0/1:31:23,8:23:824:8:288:-16.9355,0,-65.1514 0/1:63:35,28:35:1256:28:1008:-72.0715,0,-94.3804 0/0:186:185,1:185:6593:1:36:0,-52.3933,-589.854 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 chr04 3475229 . G A 4375.85 PASS AB=0.458003;ABP=12.677;AC=11;AF=0.261905;AN=42;AO=297;CIGAR=1X;DP=2059;DPB=2059;DPRA=1.13995;EPP=647.938;EPPR=3829.14;GTI=2;LEN=1;MEANALT=1;MQM=59.8418;MQMR=59.9864;NS=21;NUMALT=1;ODDS=2.20861;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10582;QR=62445;RO=1762;RPL=296;RPP=639.281;RPPR=3829.14;RPR=1;RUN=1;SAF=296;SAP=639.281;SAR=1;SRF=1762;SRP=3829.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:30,27:30:1071:27:961:-69.2138,0,-79.5429 0/1:57:25,32:25:884:32:1139:-85.6586,0,-62.7197 0/1:63:39,24:39:1384:24:856:-58.3962,0,-105.894 0/0:183:182,1:182:6492:1:36:0,-51.4902,-580.767 0/0:351:347,4:347:12231:4:133:0,-93.3639,-1088.35 0/0:108:107,1:107:3814:1:36:0,-28.913,-339.753 0/0:161:160,1:160:5651:1:36:0,-44.8676,-505.118 0/1:39:19,20:19:676:20:708:-52.3054,0,-49.4278 0/1:116:57,59:57:2040:59:2112:-155.425,0,-148.953 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:8:8,0:8:279:0:0:0,-2.40824,-25.4475 0/1:31:21,10:21:743:10:351:-22.5947,0,-57.8614 0/0:182:182,0:182:6465:0:0:0,-54.7875,-581.938 0/0:114:114,0:114:4026:0:0:0,-34.3174,-362.53 0/1:66:33,33:33:1188:33:1171:-85.8287,0,-87.3606 0/1:103:57,46:57:2022:46:1652:-117.962,0,-151.246 0/0:59:59,0:59:2091:0:0:0,-17.7608,-188.46 0/1:32:24,8:24:838:8:284:-16.2704,0,-66.1034 0/1:63:35,28:35:1248:28:999:-71.2596,0,-93.66 0/0:182:181,1:181:6388:1:36:0,-51.1892,-571.415 0/0:80:80,0:80:2842:0:0:0,-24.0824,-256.018 chr04 3475265 . AACTC TACTT,GACTT 37666.2 PASS AB=0.458296,0.534529;ABP=19.8543,14.5571;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1193,600;CIGAR=1X3M1X,1X3M1X;DP=1803;DPB=1803;DPRA=0,1.60891;EPP=2507.45,1271.38;EPPR=0;GTI=1;LEN=5,5;MEANALT=2.19048,2.66667;MQM=59.1668,59.0533;MQMR=0;NS=21;NUMALT=2;ODDS=5.31553;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42068,21139;QR=0;RO=0;RPL=1183,596;RPP=2507.45,1271.38;RPPR=0;RPR=10,4;RUN=1,1;SAF=0,0;SAP=2593.58,1305.89;SAR=1193,600;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:141:0,57,81:0:0:57,81:1999,2862:-395.191,-232.596,-215.438,-162.6,0,-138.217 1/2:87:0,24,63:0:0:24,63:841,2216:-249.057,-180.642,-173.417,-68.7655,0,-49.8006 1/2:72:0,41,31:0:0:41,31:1449,1088:-206.852,-88.8547,-76.5125,-118.349,0,-109.017 1/1:60:0,60,0:0:0:60,0:2125,0:-191.48,-18.0618,0,-191.48,-18.0618,-191.48 1/1:116:0,116,0:0:0:116,0:4110,0:-370.005,-34.9195,0,-370.005,-34.9195,-370.005 1/1:49:0,47,1:0:0:47,1:1673,36:-150.476,-14.1484,0,-147.538,-11.1423,-147.237 1/1:123:0,122,1:0:0:122,1:4325,36:-388.851,-36.7257,0,-385.913,-33.4284,-385.612 1/2:120:0,68,52:0:0:68,52:2374,1820:-340.944,-148.301,-127.831,-192.992,0,-177.339 1/2:161:0,77,83:0:0:77,83:2712,2935:-459.318,-239.146,-215.966,-220.292,0,-195.306 1/2:44:0,19,25:0:0:19,25:672,872:-125.802,-71.2244,-65.5048,-54.9284,0,-47.4026 1/1:7:0,7,0:0:0:7,0:251,0:-22.9379,-2.10721,0,-22.9379,-2.10721,-22.9379 1/2:35:0,18,17:0:0:18,17:631,604:-100.866,-49.521,-44.1024,-51.6976,0,-46.5801 1/1:68:0,68,0:0:0:68,0:2388,0:-215.15,-20.47,0,-215.15,-20.47,-215.15 1/1:85:0,83,1:0:0:83,1:2907,30:-261.501,-24.9855,0,-259.103,-22.6168,-258.802 1/2:174:0,87,85:0:0:87,85:3062,3015:-494.652,-245.501,-219.311,-249.169,0,-223.581 1/2:49:0,20,28:0:0:20,28:704,996:-138.524,-81.2128,-75.1922,-57.3577,0,-48.9289 1/1:66:0,66,0:0:0:66,0:2317,0:-208.763,-19.868,0,-208.763,-19.868,-208.763 1/2:165:0,55,109:0:0:55,109:1940,3814:-467.26,-310.183,-293.627,-157.069,0,-124.257 1/2:67:0,45,22:0:0:45,22:1605,779:-194.416,-63.8043,-50.2579,-130.966,0,-124.344 1/1:72:0,71,1:0:0:71,1:2511,36:-225.823,-21.3731,0,-222.885,-18.0759,-222.584 1/1:42:0,42,0:0:0:42,0:1472,0:-132.744,-12.6433,0,-132.744,-12.6433,-132.744 chr04 3497735 . T A 43867.1 PASS AB=0.555306;ABP=38.5588;AC=31;AF=0.738095;AN=42;AO=2104;CIGAR=1X;DP=2710;DPB=2710;DPRA=0;EPP=4571.79;EPPR=1301.55;GTI=1;LEN=1;MEANALT=1.28571;MQM=59.9601;MQMR=60;NS=21;NUMALT=1;ODDS=5.44626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74703;QR=21382;RO=598;RPL=0;RPP=4571.79;RPPR=1301.55;RPR=2104;RUN=1;SAF=2104;SAP=4571.79;SAR=0;SRF=598;SRP=1301.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:191:77,113:77:2748:113:3995:-302.184,0,-190.007 0/1:106:43,63:43:1548:63:2264:-172.113,0,-107.704 0/1:134:60,74:60:2156:74:2648:-198.228,0,-153.969 1/1:141:0,141:0:0:141:5029:-452.757,-42.4452,0 1/1:337:2,334:2:72:334:11812:-1055.82,-94.6692,0 1/1:125:0,125:0:0:125:4408:-396.892,-37.6288,0 1/1:241:0,241:0:0:241:8578:-772.018,-72.5482,0 0/1:134:76,58:76:2704:58:2080:-147.132,0,-203.267 0/1:258:112,146:112:3993:146:5205:-390.906,0,-281.894 0/1:14:3,11:3:108:11:392:-31.4056,0,-5.86075 1/1:17:0,17:0:0:17:578:-52.3374,-5.11751,0 0/1:40:22,18:22:788:18:648:-46.6107,0,-59.2036 1/1:113:1,112:1:32:112:3962:-353.573,-30.8171,0 1/1:157:1,156:1:36:156:5565:-497.376,-43.6634,0 0/1:146:58,88:58:2069:88:3121:-237.166,0,-142.529 0/1:98:43,55:43:1536:55:1966:-147.686,0,-109.032 1/1:70:0,70:0:0:70:2443:-220.122,-21.0721,0 0/1:147:74,72:74:2660:72:2569:-187.148,0,-195.335 0/1:70:24,45:24:860:45:1620:-124.959,0,-56.591 1/1:119:2,114:2:72:114:4038:-356.757,-28.4373,0 1/1:52:0,51:0:0:51:1782:-160.299,-15.3525,0 chr04 3497824 . CAGAG CAAAC,GAAAC 40189 PASS AB=0.495959,0.496694;ABP=3.20336,3.13954;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2170,683;CIGAR=2M1X1M1X,1X1M1X1M1X;DP=2867;DPB=2866.8;DPRA=0,1.33844;EPP=4715.11,1486.13;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.19048,2.92308;MQM=31.4364,22.0073;MQMR=0;NS=21;NUMALT=2;ODDS=9.1552;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76077,24012;QR=0;RO=0;RPL=0,0;RPP=4715.11,1486.13;RPPR=0;RPR=2170,683;RUN=1,1;SAF=0,0;SAP=4715.11,1486.13;SAR=2170,683;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:256:0,129,127:0:0:129,127:4481,4467:-509.774,-203.688,-164.855,-306.339,0,-268.109 1/1:60:0,60,0:0:0:60,0:2127,0:-149.306,-18.0618,0,-149.306,-18.0618,-149.306 1/2:136:0,77,57:0:0:77,57:2732,1976:-277.42,-89.3451,-66.1658,-188.114,0,-170.955 1/1:188:0,185,1:0:0:185,1:6445,36:-494.464,-55.6906,0,-492.887,-54.114,-492.586 1/1:271:0,266,5:0:0:266,5:9386,167:-713.826,-80.074,0,-706.121,-72.1627,-704.616 1/1:120:0,120,0:0:0:120,0:4236,0:-294.559,-36.1236,0,-294.559,-36.1236,-294.559 1/1:222:0,222,0:0:0:222,0:7810,0:-541.27,-66.8287,0,-541.27,-66.8287,-541.27 1/2:171:0,87,83:0:0:87,83:3087,2901:-324.984,-123.142,-96.9523,-201.886,0,-176.9 1/2:302:0,145,154:0:0:145,154:5078,5416:-638.243,-275.97,-232.32,-362.278,0,-315.919 1/2:18:0,5,12:0:0:5,12:172,432:-29.1217,-17.8254,-16.3202,-11.3022,0,-7.68986 1/1:6:0,6,0:0:0:6,0:204,0:-14.6905,-1.80618,0,-14.6905,-1.80618,-14.6905 1/2:52:0,22,30:0:0:22,30:756,1068:-94.9159,-44.8359,-38.2132,-50.3292,0,-41.2983 1/1:200:0,200,0:0:0:200,0:6970,0:-531.73,-60.206,0,-531.73,-60.206,-531.73 1/1:140:0,140,0:0:0:140,0:4874,0:-373.92,-42.1442,0,-373.92,-42.1442,-373.92 1/2:177:0,71,104:0:0:71,104:2518,3665:-334.17,-165.415,-144.041,-168.763,0,-137.456 1/2:97:0,54,43:0:0:54,43:1888,1539:-209.314,-75.2499,-58.9943,-134.327,0,-121.383 1/1:107:0,107,0:0:0:107,0:3720,0:-299.079,-32.2102,0,-299.079,-32.2102,-299.079 1/2:78:0,47,30:0:0:47,30:1639,1044:-149.99,-45.538,-31.3896,-104.397,0,-95.3657 1/2:74:0,38,36:0:0:38,36:1348,1265:-148.992,-56.7179,-45.2788,-92.5279,0,-81.6908 1/1:144:0,141,1:0:0:141,1:4923,36:-358.005,-42.4452,0,-356.516,-40.9559,-356.215 1/1:48:0,48,0:0:0:48,0:1683,0:-119.058,-14.4494,0,-119.058,-14.4494,-119.058 chr04 3497862 . T C 2514.99 PASS AB=0.50228;ABP=3.0697;AC=10;AF=0.238095;AN=42;AO=668;CIGAR=1X;DP=2783;DPB=2783;DPRA=1.34189;EPP=1453.55;EPPR=4595.67;GTI=0;LEN=1;MEANALT=1;MQM=21.3563;MQMR=30.757;NS=21;NUMALT=1;ODDS=10.8813;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23912;QR=75554;RO=2115;RPL=668;RPP=1453.55;RPPR=4595.67;RPR=0;RUN=1;SAF=0;SAP=1453.55;SAR=668;SRF=0;SRP=4595.67;SRR=2115;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:244:121,123:121:4314:123:4415:-157.848,0,-251.88 0/0:57:57,0:57:2022:0:0:0,-17.1587,-139.505 0/1:134:77,57:77:2764:57:2043:-66.7497,0,-169.277 0/0:186:185,1:185:6629:1:36:0,-53.905,-499.257 0/0:264:259,5:259:9259:5:180:0,-69.8736,-685.681 0/0:118:118,0:118:4175:0:0:0,-35.5215,-287.488 0/0:216:216,0:216:7715:0:0:0,-65.0225,-528.351 0/1:167:84,83:84:2982:83:2944:-98.0037,0,-167.023 0/1:291:145,146:145:5181:146:5225:-211.083,0,-322.602 0/1:18:5,13:5:176:13:468:-18.7335,0,-7.82834 0/0:6:6,0:6:216:0:0:0,-1.80618,-14.9688 0/1:49:20,29:20:720:29:1040:-37.3559,0,-37.7896 0/0:193:193,0:193:6902:0:0:0,-58.0988,-518.572 0/0:134:134,0:134:4786:0:0:0,-40.338,-361.03 0/1:171:69,102:69:2461:102:3660:-140.837,0,-131.446 0/1:93:51,42:51:1836:42:1512:-58.1997,0,-115.349 0/0:105:105,0:105:3750:0:0:0,-31.6081,-298.373 0/1:75:45,30:45:1597:30:1076:-32.1447,0,-91.1199 0/1:74:38,36:38:1345:36:1277:-45.2145,0,-81.333 0/0:142:141,1:141:5068:1:36:0,-40.7569,-358.778 0/0:46:46,0:46:1656:0:0:0,-13.8474,-114.042 chr04 3497866 . C G 32680.3 PASS AB=0.49924;ABP=3.0169;AC=32;AF=0.761905;AN=42;AO=2112;CIGAR=1X;DP=2779;DPB=2779;DPRA=0;EPP=4589.16;EPPR=1451.38;GTI=0;LEN=1;MEANALT=1;MQM=30.7599;MQMR=21.3823;NS=21;NUMALT=1;ODDS=10.9696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75649;QR=23838;RO=667;RPL=2112;RPP=4589.16;RPPR=1451.38;RPR=0;RUN=1;SAF=0;SAP=4589.16;SAR=2112;SRF=0;SRP=1451.38;SRR=667;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:245:122,123:122:4346:123:4408:-258.638,0,-155.143 1/1:55:0,55:0:0:55:1976:-135.795,-16.5567,0 0/1:134:57,77:57:2048:77:2740:-167.877,0,-66.8071 1/1:185:1,184:1:36:184:6600:-497.621,-53.604,0 1/1:260:5,255:5:165:255:9127:-678.63,-68.9325,0 1/1:117:0,117:0:0:117:4188:-287.155,-35.2205,0 1/1:215:0,215:0:0:215:7701:-526.442,-64.7215,0 0/1:168:83,85:83:2976:85:3052:-171.088,0,-98.1867 0/1:290:146,144:146:5217:144:5164:-321.313,0,-211.16 0/1:18:13,5:13:464:5:180:-7.93418,0,-18.7193 1/1:6:0,6:0:0:6:216:-14.9688,-1.80618,0 0/1:51:30,21:30:1076:21:752:-39.6959,0,-38.5442 1/1:197:0,197:0:0:197:7059:-530.003,-59.3029,0 1/1:136:0,136:0:0:136:4857:-366.98,-40.9401,0 0/1:171:101,70:101:3594:70:2485:-134.285,0,-138.448 0/1:94:42,52:42:1512:52:1864:-117.657,0,-57.8987 1/1:105:0,105:0:0:105:3764:-298.984,-31.6082,0 0/1:72:29,43:29:1040:43:1548:-87.5763,0,-31.2574 0/1:73:36,37:36:1292:37:1328:-79.9378,0,-45.7334 1/1:141:1,140:1:36:140:5024:-355.872,-40.4559,0 1/1:46:1,45:1:36:45:1616:-107.404,-10.3929,0 chr04 3626022 . C T 7735.98 PASS AB=0.573813;ABP=39.8752;AC=11;AF=0.261905;AN=42;AO=450;CIGAR=1X;DP=1420;DPB=1420;DPRA=1.55836;EPP=980.173;EPPR=2109.34;GTI=1;LEN=1;MEANALT=1;MQM=59.9978;MQMR=59.9691;NS=21;NUMALT=1;ODDS=1.74241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16006;QR=34208;RO=970;RPL=450;RPP=980.173;RPPR=2109.34;RPR=0;RUN=1;SAF=450;SAP=980.173;SAR=0;SRF=970;SRP=2109.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:41,49:41:1468:49:1722:-128.169,0,-105.323 0/1:58:23,35:23:820:35:1241:-94.5328,0,-56.6628 0/1:78:22,56:22:775:56:1975:-154.541,0,-46.5908 0/0:104:104,0:104:3631:0:0:0,-31.3071,-326.995 0/0:164:162,2:162:5697:2:72:0,-42.5322,-506.017 0/0:23:23,0:23:806:0:0:0,-6.92369,-72.8582 0/0:56:56,0:56:1982:0:0:0,-16.8577,-178.651 0/1:94:34,60:34:1201:60:2132:-163.849,0,-80.0968 0/1:32:11,21:11:396:21:756:-58.7343,0,-26.3498 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:17:2,15:2:72:15:534:-43.2765,0,-1.71921 0/0:69:69,0:69:2420:0:0:0,-20.7711,-217.897 0/0:24:24,0:24:842:0:0:0,-7.22472,-76.0971 0/1:150:53,97:53:1891:97:3468:-267.177,0,-125.313 0/1:57:28,29:28:991:29:1040:-76.7557,0,-72.3448 0/0:50:50,0:50:1772:0:0:0,-15.0515,-159.763 0/1:116:64,52:64:2260:52:1863:-133.029,0,-168.742 0/1:82:53,29:53:1883:29:1023:-67.6973,0,-145.063 0/0:72:72,0:72:2524:0:0:0,-21.6742,-227.412 0/0:75:74,1:74:2597:1:36:0,-18.979,-230.379 chr04 3626190 . C T 9480.4 PASS AB=0.46709;ABP=14.8733;AC=11;AF=0.261905;AN=42;AO=590;CIGAR=1X;DP=2147;DPB=2147;DPRA=1.35766;EPP=1284.18;EPPR=3381.82;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9492;MQMR=60;NS=21;NUMALT=1;ODDS=12.0483;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20885;QR=55544;RO=1556;RPL=590;RPP=1284.18;RPPR=3381.82;RPR=0;RUN=1;SAF=0;SAP=1284.18;SAR=590;SRF=0;SRP=3381.82;SRR=1556;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:144:75,69:75:2684:69:2442:-176.684,0,-198.457 0/1:50:18,32:18:644:32:1129:-86.8648,0,-43.2391 0/1:120:60,60:60:2148:60:2141:-156.832,0,-157.464 0/0:43:43,0:43:1536:0:0:0,-12.9443,-138.533 0/0:122:121,1:121:4295:1:36:0,-33.1274,-383.127 0/0:69:69,0:69:2467:0:0:0,-20.7711,-222.283 0/0:153:153,0:153:5454:0:0:0,-46.0576,-490.987 0/1:213:115,97:115:4098:97:3397:-241.764,0,-304.825 0/1:216:116,100:116:4130:100:3493:-249.554,0,-306.86 0/1:22:11,11:11:392:11:392:-28.9974,0,-28.9974 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:40:22,18:22:784:18:629:-44.8926,0,-58.8427 0/0:165:165,0:165:5902:0:0:0,-49.6699,-531.286 0/0:134:134,0:134:4812:0:0:0,-40.338,-433.234 0/1:233:132,101:132:4717:101:3613:-254.607,0,-354.548 0/1:40:13,27:13:449:27:957:-74.4027,0,-28.6963 0/0:43:43,0:43:1525:0:0:0,-12.9443,-137.541 0/1:94:52,42:52:1855:42:1508:-107.718,0,-138.932 0/1:89:57,32:57:2032:32:1148:-76.8382,0,-156.361 0/0:86:86,0:86:3076:0:0:0,-25.8886,-277.069 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.232 chr04 3665679 . A T 21070.7 PASS AB=0.519886;ABP=5.42853;AC=31;AF=0.738095;AN=42;AO=1005;CIGAR=1X;DP=1345;DPB=1345;DPRA=0;EPP=2185.34;EPPR=724.041;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9471;NS=21;NUMALT=1;ODDS=10.2758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36050;QR=11887;RO=340;RPL=0;RPP=2185.34;RPPR=732.651;RPR=1005;RUN=1;SAF=1005;SAP=2185.34;SAR=0;SRF=339;SRP=732.651;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:34,37:34:1182:37:1332:-98.8093,0,-85.3074 0/1:50:18,32:18:633:32:1139:-87.7675,0,-42.2436 0/1:102:51,51:51:1791:51:1832:-134.456,0,-130.761 1/1:51:0,51:0:0:51:1836:-165.521,-15.3525,0 1/1:119:2,117:2:72:117:4196:-370.984,-28.9858,0 1/1:54:0,54:0:0:54:1936:-174.516,-16.2556,0 1/1:111:0,111:0:0:111:3984:-358.749,-33.4143,0 0/1:35:26,9:26:887:9:324:-18.9698,0,-69.6 0/1:147:67,80:67:2339:80:2872:-214.465,0,-166.515 0/1:19:12,7:12:409:7:252:-17.3094,0,-31.4159 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:30:17,13:17:612:13:468:-33.4287,0,-46.3825 1/1:72:0,72:0:0:72:2588:-233.168,-21.6742,0 1/1:83:0,83:0:0:83:2976:-268.072,-24.9855,0 0/1:71:36,35:36:1232:35:1248:-91.2517,0,-89.7137 0/1:44:20,24:20:693:24:864:-64.8372,0,-49.4443 1/1:28:0,28:0:0:28:995:-89.864,-8.42884,0 0/1:72:36,36:36:1281:36:1292:-94.9096,0,-93.9171 0/1:63:21,42:21:756:42:1508:-117.05,0,-49.4023 1/1:77:0,77:0:0:77:2768:-249.361,-23.1793,0 1/1:40:0,40:0:0:40:1424:-128.457,-12.0412,0 chr04 3697384 . A G 50424.7 PASS AB=0.580256;ABP=81.7817;AC=31;AF=0.738095;AN=42;AO=2389;CIGAR=1X;DP=2984;DPB=2984;DPRA=0;EPP=5190.66;EPPR=1277.68;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.8418;MQMR=59.9459;NS=21;NUMALT=1;ODDS=25.3398;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85080;QR=21179;RO=591;RPL=2389;RPP=5190.66;RPPR=1286.35;RPR=0;RUN=1;SAF=2389;SAP=5190.66;SAR=0;SRF=590;SRP=1277.68;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:67,67:67:2400:67:2392:-175.197,0,-175.142 0/1:124:64,60:64:2292:60:2122:-153.893,0,-169.214 0/1:133:44,88:44:1576:88:3126:-241.461,0,-102.036 1/1:190:0,189:0:0:189:6736:-605.891,-56.8947,0 1/1:354:0,353:0:0:353:12572:-1131.03,-106.264,0 1/1:154:0,154:0:0:154:5470:-492.395,-46.3586,0 1/1:174:0,174:0:0:174:6216:-559.522,-52.3792,0 0/1:137:56,81:56:1998:81:2889:-218.997,0,-138.851 0/1:248:88,160:88:3152:160:5686:-437.203,0,-209.25 0/1:13:10,3:10:360:3:104:-5.78942,0,-28.8309 1/1:10:0,10:0:0:10:360:-32.735,-3.0103,0 0/1:38:25,13:25:900:13:468:-31.0205,0,-69.8819 1/1:200:1,199:1:36:199:7120:-637.227,-56.6077,0 1/1:161:0,161:0:0:161:5751:-517.703,-48.4658,0 0/1:243:70,173:70:2501:173:6176:-482.785,0,-152.191 0/1:85:48,37:48:1720:37:1328:-94.2347,0,-129.498 1/1:128:0,128:0:0:128:4591:-413.351,-38.5318,0 0/1:153:83,70:83:2984:70:2469:-176.387,0,-222.734 0/1:100:35,65:35:1260:65:2250:-172.653,0,-83.6025 1/1:131:0,130:0:0:130:4628:-416.309,-39.1339,0 1/1:74:0,74:0:0:74:2626:-236.578,-22.2762,0 chr04 3697391 . C A 48072.7 PASS AB=0.593423;ABP=104.443;AC=31;AF=0.738095;AN=42;AO=2315;CIGAR=1X;DP=2861;DPB=2861;DPRA=0;EPP=5029.97;EPPR=1179.95;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.8147;MQMR=59.941;NS=21;NUMALT=1;ODDS=23.4365;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81515;QR=19044;RO=542;RPL=2315;RPP=5029.97;RPPR=1179.95;RPR=0;RUN=1;SAF=2315;SAP=5029.97;SAR=0;SRF=542;SRP=1179.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:57,64:57:2016:64:2255:-166.786,0,-144.511 0/1:120:62,58:62:2190:58:2031:-146.909,0,-161.242 0/1:128:41,87:41:1417:87:3063:-237.351,0,-89.289 1/1:181:0,181:0:0:181:6371:-573.425,-54.4864,0 1/1:340:0,340:0:0:340:11962:-1076.44,-102.35,0 1/1:153:0,153:0:0:153:5423:-488.172,-46.0576,0 1/1:171:0,171:0:0:171:5968:-537.219,-51.4761,0 0/1:130:51,79:51:1785:79:2798:-212.92,0,-121.796 0/1:232:78,154:78:2773:154:5445:-420.346,0,-179.971 0/1:13:10,3:10:360:3:104:-5.78942,0,-28.8309 1/1:10:0,10:0:0:10:344:-31.2856,-3.0103,0 0/1:36:22,13:22:784:13:464:-31.2019,0,-59.9882 1/1:187:1,185:1:36:185:6517:-583.084,-52.6782,0 1/1:147:0,147:0:0:147:5171:-465.533,-44.2514,0 0/1:230:66,164:66:2334:164:5771:-450.274,0,-141.082 0/1:83:44,39:44:1559:39:1354:-97.1641,0,-115.615 1/1:125:0,125:0:0:125:4424:-398.335,-37.6288,0 0/1:151:80,70:80:2768:70:2437:-174.201,0,-203.996 0/1:94:30,63:30:1022:63:2243:-173.767,0,-63.931 1/1:131:0,131:0:0:131:4632:-417.031,-39.4349,0 1/1:78:0,78:0:0:78:2738:-246.654,-23.4803,0 chr04 3773658 . GGTG AGTT 31280.1 PASS AB=0.520362;ABP=6.19382;AC=31;AF=0.738095;AN=42;AO=1503;CIGAR=1X2M1X;DP=1931;DPB=1931;DPRA=0;EPP=3240.73;EPPR=917.221;GTI=0;LEN=4;MEANALT=1.14286;MQM=53.7824;MQMR=60;NS=21;NUMALT=1;ODDS=17.9969;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53070;QR=14738;RO=425;RPL=1500;RPP=3240.73;RPPR=917.221;RPR=3;RUN=1;SAF=0;SAP=3266.73;SAR=1503;SRF=0;SRP=925.886;SRR=425;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:40,52:40:1389:52:1822:-136.013,0,-97.6105 0/1:81:33,48:33:1145:48:1700:-128.052,0,-78.9708 0/1:66:35,31:35:1230:31:1065:-76.0887,0,-91.1347 1/1:140:0,140:0:0:140:4971:-446.109,-42.1442,0 1/1:218:0,218:0:0:218:7679:-689.258,-65.6245,0 1/1:113:0,113:0:0:113:3977:-356.194,-34.0164,0 1/1:130:1,129:1:30:129:4557:-405.61,-36.1343,0 0/1:88:47,40:47:1613:40:1379:-97.5634,0,-118.907 0/1:169:78,91:78:2741:91:3209:-237.328,0,-196.061 0/1:17:14,3:14:491:3:107:-4.85134,0,-39.4044 1/1:4:0,4:0:0:4:144:-13.2801,-1.20412,0 0/1:19:13,6:13:439:6:209:-13.3821,0,-34.1133 1/1:124:0,124:0:0:124:4401:-395.29,-37.3277,0 1/1:135:2,133:2:66:133:4732:-418.767,-34.3711,0 0/1:115:53,61:53:1834:61:2136:-157.546,0,-130.661 0/1:80:38,41:38:1339:41:1442:-105.807,0,-96.7755 1/1:78:1,77:1:35:77:2732:-241.568,-19.9817,0 0/1:99:55,44:55:1877:44:1544:-108.755,0,-139.405 0/1:58:15,43:15:509:43:1533:-120.659,0,-28.6723 1/1:63:0,63:0:0:63:2240:-201.078,-18.9649,0 1/1:42:0,42:0:0:42:1491:-133.971,-12.6433,0 chr04 3892108 . CTC TTT 7034.08 PASS AB=0.458162;ABP=14.094;AC=11;AF=0.261905;AN=42;AO=337;CIGAR=1X1M1X;DP=1647;DPB=1647;DPRA=0.843393;EPP=61.1632;EPPR=232.748;GTI=0;LEN=3;MEANALT=1.14286;MQM=57.6647;MQMR=59.8349;NS=21;NUMALT=1;ODDS=1.85189;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11932;QR=45536;RO=1308;RPL=121;RPP=61.1632;RPPR=232.748;RPR=216;RUN=1;SAF=0;SAP=734.797;SAR=337;SRF=0;SRP=2843.3;SRR=1308;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:29,36:29:1027:36:1261:-94.0182,0,-73.1757 0/1:55:32,23:32:1105:23:826:-57.9812,0,-83.1781 0/1:111:70,41:70:2407:41:1444:-96.7044,0,-183.469 0/0:155:155,0:155:5334:0:0:0,-46.6596,-480.188 0/0:119:119,0:119:4112:0:0:0,-35.8226,-370.245 0/0:78:78,0:78:2756:0:0:0,-23.4803,-248.279 0/0:110:108,1:108:3796:1:36:0,-29.5747,-338.241 0/1:47:23,24:23:811:24:840:-60.8605,0,-59.1604 0/1:135:66,69:66:2266:69:2455:-179.591,0,-163.543 0/1:8:5,3:5:171:3:106:-7.48086,0,-13.3172 0/0:6:6,0:6:205:0:0:0,-1.80618,-18.7841 0/1:11:2,9:2:70:9:320:-25.8312,0,-3.336 0/0:95:94,1:94:3277:1:36:0,-24.9996,-291.06 0/0:107:107,0:107:3711:0:0:0,-32.2102,-334.187 0/1:100:58,41:58:2022:41:1442:-99.8292,0,-152.089 0/1:65:33,32:33:1160:32:1117:-80.3499,0,-85.1381 0/0:100:99,1:99:3434:1:36:0,-26.5057,-305.673 0/1:61:25,36:25:887:36:1294:-97.8195,0,-61.7866 0/1:71:51,20:51:1786:20:719:-43.6293,0,-139.647 0/0:92:92,0:92:3234:0:0:0,-27.6948,-291.284 0/0:56:56,0:56:1965:0:0:0,-16.8577,-177.122 chr04 3892120 . TGG CGA,TGA 34807.8 PASS AB=0.54558,0.453039;ABP=16.0751,16.8789;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1308,332;CIGAR=1X1M1X,2M1X;DP=1643;DPB=1643;DPRA=0,0.898814;EPP=2834.62,723.939;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.85714,2.06667;MQM=59.8333,57.7319;MQMR=0;NS=21;NUMALT=2;ODDS=0.900992;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46034,11849;QR=0;RO=0;RPL=1307,332;RPP=2834.62,723.939;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=2843.3,723.939;SAR=1308,332;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,29,35:0:0:29,35:1030,1242:-184.992,-101.063,-92.3333,-83.9458,0,-73.4098 1/2:54:0,32,22:0:0:32,22:1120,792:-155.869,-64.8575,-55.2246,-91.3672,0,-84.7445 1/2:111:0,70,41:0:0:70,41:2454,1472:-319.984,-120.299,-99.2271,-200.041,0,-187.699 1/1:155:0,155,0:0:0:155,0:5464,0:-491.879,-46.6597,0,-491.879,-46.6597,-491.879 1/1:119:0,118,0:0:0:118,0:4144,0:-372.769,-35.5215,0,-372.769,-35.5215,-372.769 1/1:78:0,78,0:0:0:78,0:2760,0:-248.638,-23.4803,0,-248.638,-23.4803,-248.638 1/1:110:0,109,1:0:0:109,1:3863,36:-347.505,-32.8123,0,-344.568,-29.516,-344.267 1/2:46:0,23,23:0:0:23,23:798,796:-129.581,-64.7142,-57.7905,-65.2127,0,-58.289 1/2:134:0,66,68:0:0:66,68:2313,2431:-385.813,-197.623,-177.755,-188.543,0,-168.073 1/2:8:0,5,3:0:0:5,3:177,108:-23.5862,-9.17208,-7.66693,-14.7717,0,-13.8686 1/1:6:0,6,0:0:0:6,0:206,0:-18.8758,-1.80618,0,-18.8758,-1.80618,-18.8758 1/2:11:0,2,9:0:0:2,9:72,320:-32.3087,-26.4331,-25.831,-6.23466,0,-3.52539 1/1:95:0,94,1:0:0:94,1:3328,36:-298.976,-28.2968,0,-296.039,-24.9996,-295.738 1/1:107:0,106,1:0:0:106,1:3725,36:-335.065,-31.9092,0,-332.128,-28.6119,-331.827 1/2:100:0,59,41:0:0:59,41:2075,1464:-288.525,-119.622,-101.861,-169.258,0,-156.916 1/2:64:0,33,31:0:0:33,31:1170,1116:-185.746,-90.4287,-80.4947,-95.6732,0,-86.3412 1/1:101:0,100,1:0:0:100,1:3498,36:-314.662,-30.103,0,-311.725,-26.8068,-311.424 1/2:60:0,25,35:0:0:25,35:887,1244:-173.452,-101.184,-93.6581,-72.6227,0,-62.0867 1/2:71:0,51,20:0:0:51,20:1760,720:-202.034,-59.0631,-43.7106,-143.326,0,-137.306 1/1:92:0,92,0:0:0:92,0:3232,0:-291.105,-27.6948,0,-291.105,-27.6948,-291.105 1/1:56:0,55,0:0:0:55,0:1958,0:-176.134,-16.5567,0,-176.134,-16.5567,-176.134 chr04 3986381 . A C,T 29656.6 PASS AB=0.550907,0.449093;ABP=19.1495,19.1495;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1067,323;CIGAR=1X,1X;DP=1390;DPB=1390;DPRA=0,1.08539;EPP=2319.97,704.396;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.57143,2;MQM=59.9981,59.9164;MQMR=0;NS=21;NUMALT=2;ODDS=14.3941;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37943,11549;QR=0;RO=0;RPL=1067,323;RPP=2319.97,704.396;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2319.97,704.396;SAR=1067,323;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,29,25:0:0:29,25:1010,884:-154.479,-72.3526,-63.6227,-82.4772,0,-74.9514 1/2:63:0,42,21:0:0:42,21:1497,752:-183.707,-61.6846,-49.0414,-122.379,0,-116.058 1/2:86:0,45,41:0:0:45,41:1612,1464:-251.18,-119.714,-106.167,-131.823,0,-119.481 1/1:60:0,60,0:0:0:60,0:2119,0:-190.977,-18.0618,0,-190.977,-18.0618,-190.977 1/1:118:0,118,0:0:0:118,0:4186,0:-376.921,-35.5215,0,-376.921,-35.5215,-376.921 1/1:59:0,59,0:0:0:59,0:2090,0:-188.366,-17.7608,0,-188.366,-17.7608,-188.366 1/1:99:0,99,0:0:0:99,0:3530,0:-317.907,-29.802,0,-317.907,-29.802,-317.907 1/2:54:0,30,24:0:0:30,24:1057,864:-156.896,-70.8441,-61.8132,-86.4081,0,-79.1833 1/2:109:0,64,45:0:0:64,45:2277,1612:-317.391,-131.824,-112.558,-185.925,0,-172.378 1/2:23:0,14,9:0:0:14,9:504,324:-67.9204,-26.7966,-22.5822,-41.4837,0,-38.7744 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:33:0,19,14:0:0:19,14:669,500:-95.5813,-41.1218,-35.4022,-54.8144,0,-50.6 1/1:105:0,104,1:0:0:104,1:3696,36:-332.48,-31.3071,0,-329.542,-28.0099,-329.241 1/1:85:0,85,0:0:0:85,0:3040,0:-273.83,-25.5876,0,-273.83,-25.5876,-273.83 1/2:110:0,56,54:0:0:56,54:2004,1921:-320.329,-156.91,-140.053,-163.776,0,-147.52 1/2:47:0,21,26:0:0:21,26:756,932:-138.059,-76.3721,-70.0504,-62.0456,0,-54.2188 1/1:27:0,27,0:0:0:27,0:953,0:-86.0833,-8.12781,0,-86.0833,-8.12781,-86.0833 1/2:81:0,40,41:0:0:40,41:1436,1476:-237.895,-120.758,-108.717,-117.496,0,-105.154 1/2:57:0,35,22:0:0:35,22:1256,784:-166.713,-64.2613,-53.7252,-102.809,0,-96.1866 1/1:76:0,76,0:0:0:76,0:2695,0:-242.793,-22.8783,0,-242.793,-22.8783,-242.793 1/1:37:0,37,0:0:0:37,0:1304,0:-117.659,-11.1381,0,-117.659,-11.1381,-117.659 chr04 4159517 . G A 21417.1 PASS AB=0.496259;ABP=3.10777;AC=31;AF=0.738095;AN=42;AO=1063;CIGAR=1X;DP=1473;DPB=1473;DPRA=0;EPP=2311.29;EPPR=884.649;GTI=0;LEN=1;MEANALT=1;MQM=59.8344;MQMR=59.9878;NS=21;NUMALT=1;ODDS=5.74168;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37521;QR=14586;RO=410;RPL=1063;RPP=2311.29;RPPR=876.027;RPR=0;RUN=1;SAF=1063;SAP=2311.29;SAR=0;SRF=409;SRP=884.649;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:56,29:56:1971:29:994:-64.1777,0,-152.074 0/1:44:18,26:18:618:26:909:-68.8616,0,-42.6929 0/1:73:39,34:39:1391:34:1216:-87.7714,0,-103.513 1/1:46:0,46:0:0:46:1637:-147.614,-13.8474,0 1/1:125:0,125:0:0:125:4391:-395.325,-37.6288,0 1/1:65:0,65:0:0:65:2301:-207.35,-19.567,0 1/1:85:0,85:0:0:85:3002:-270.411,-25.5876,0 0/1:120:73,47:73:2616:47:1676:-114.941,0,-199.561 0/1:148:72,76:72:2551:76:2677:-196.534,0,-185.286 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:14:6,8:6:212:8:288:-22.053,0,-15.2104 1/1:123:1,122:1:36:122:4334:-386.634,-33.4284,0 1/1:82:0,82:0:0:82:2850:-256.724,-24.6845,0 0/1:110:55,55:55:1972:55:1954:-143.021,0,-144.642 0/1:43:19,24:19:676:24:830:-62.0681,0,-48.2237 1/1:52:1,51:1:36:51:1820:-160.481,-12.0553,0 0/1:93:43,50:43:1535:50:1765:-131.136,0,-110.447 0/1:66:18,48:18:648:48:1672:-130.893,0,-38.7839 1/1:53:3,50:3:108:50:1788:-151.099,-5.87942,0 1/1:35:1,34:1:36:34:1201:-104.795,-6.93778,0 chr04 4193459 . G A 32990.5 PASS AB=0.540299;ABP=17.1864;AC=31;AF=0.738095;AN=42;AO=1560;CIGAR=1X;DP=2028;DPB=2028;DPRA=0;EPP=3373.16;EPPR=1017.09;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9596;MQMR=60;NS=21;NUMALT=1;ODDS=11.4495;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55892;QR=16662;RO=467;RPL=2;RPP=3373.16;RPPR=1017.09;RPR=1558;RUN=1;SAF=1560;SAP=3390.51;SAR=0;SRF=467;SRP=1017.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:41,38:41:1464:38:1364:-99.2747,0,-108.275 0/1:84:42,42:42:1487:42:1508:-110.728,0,-108.837 0/1:106:48,58:48:1719:58:2080:-155.561,0,-123.086 1/1:68:0,68:0:0:68:2444:-220.212,-20.47,0 1/1:199:1,198:1:36:198:7112:-636.537,-56.3067,0 1/1:81:0,81:0:0:81:2912:-262.311,-24.3834,0 1/1:150:0,150:0:0:150:5347:-481.347,-45.1545,0 0/1:86:41,45:41:1456:45:1612:-119.481,0,-105.447 0/1:132:62,69:62:2208:69:2476:-183.446,0,-159.338 0/1:21:11,10:11:388:10:360:-26.4227,0,-28.9357 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 0/1:50:10,40:10:356:40:1434:-114.306,0,-17.3297 1/1:119:1,118:1:36:118:4230:-377.281,-32.2243,0 1/1:106:0,106:0:0:106:3771:-339.59,-31.9092,0 0/1:163:67,96:67:2400:96:3429:-259.75,0,-167.189 0/1:68:36,32:36:1288:32:1148:-83.1598,0,-95.7535 1/1:114:2,112:2:72:112:4009:-354.159,-27.4807,0 0/1:136:72,64:72:2564:64:2296:-165.961,0,-190.071 0/1:80:31,49:31:1116:49:1760:-134.601,0,-76.6693 1/1:94:1,93:1:36:93:3344:-297.573,-24.6985,0 1/1:71:1,70:1:36:70:2500:-221.651,-17.7749,0 chr04 4348077 . CTCAGT CTTAT,TTCAGT 31314.7 PASS AB=0.488749,0.50495;ABP=4.23188,3.2468;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1316,563;CIGAR=2M1X1M1D1M,1X5M;DP=1894;DPB=1672.83;DPRA=0,1.2706;EPP=2860.67,1225.55;EPPR=7.35324;GTI=1;LEN=5,1;MEANALT=2.09524,2.38462;MQM=31.5752,37.1652;MQMR=56.5;NS=21;NUMALT=2;ODDS=0.316428;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46228,19798;QR=71;RO=2;RPL=0,0;RPP=2860.67,1225.55;RPPR=7.35324;RPR=1316,563;RUN=1,1;SAF=1316,563;SAP=2860.67,1225.55;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:99:0,58,41:0:0:58,41:2026,1461:-249.156,-111.829,-94.3696,-137.647,0,-125.304 1/2:92:0,34,57:0:0:34,57:1190,1997:-228.854,-148.842,-138.607,-80.1118,0,-62.9531 1/2:116:0,57,59:0:0:57,59:2017,2093:-296.366,-159.896,-142.738,-136.786,0,-119.026 1/1:85:0,84,0:0:0:84,0:2946,0:-224.887,-25.2865,0,-224.887,-25.2865,-224.887 1/1:106:0,105,1:0:0:105,1:3680,36:-276.413,-31.6082,0,-273.665,-28.5216,-273.364 1/1:59:0,59,0:0:0:59,0:2079,0:-157.552,-17.7608,0,-157.552,-17.7608,-157.552 1/1:133:0,132,0:0:0:132,0:4605,0:-353.021,-39.736,0,-353.021,-39.736,-353.021 1/2:123:0,62,60:0:0:62,60:2141,2107:-302.971,-156.479,-137.815,-146.618,0,-128.556 1/2:136:0,67,68:0:0:67,68:2351,2402:-343.283,-187.411,-167.242,-155.908,0,-135.438 1/2:26:0,11,15:0:0:11,15:392,536:-66.9277,-40.1296,-36.8183,-27.1125,0,-22.597 1/1:4:0,4,0:0:0:4,0:144,0:-11.3018,-1.20412,0,-11.3018,-1.20412,-11.3018 1/2:28:0,15,13:0:0:15,13:524,468:-70.2038,-35.0151,-30.4996,-35.5021,0,-31.5887 1/1:87:0,83,0:0:0:83,0:2930,0:-224.744,-24.9855,0,-224.744,-24.9855,-224.744 1/1:175:0,173,0:0:0:173,0:6079,0:-464.979,-52.0782,0,-464.979,-52.0782,-464.979 1/2:120:0,53,66:0:0:53,66:1876,2296:-301.607,-174.817,-158.863,-126.831,0,-106.963 1/2:65:0,25,39:0:0:25,39:898,1365:-165.667,-106.191,-98.6648,-59.6126,0,-47.8725 1/1:59:0,58,1:0:0:58,1:2015,36:-152.873,-17.4597,0,-150.064,-14.3063,-149.763 1/2:239:2,116,121:2:71:116,121:4107,4237:-585.265,-308.379,-279.241,-271.663,0,-241.02 1/2:67:0,45,22:0:0:45,22:1586,764:-166.973,-58.2267,-44.6803,-109.064,0,-102.442 1/1:22:0,22,0:0:0:22,0:778,0:-58.9927,-6.62266,0,-58.9927,-6.62266,-58.9927 1/1:53:0,53,0:0:0:53,0:1864,0:-143.945,-15.9546,0,-143.945,-15.9546,-143.945 chr04 4348091 . CA CG,TG 34608.5 PASS AB=0.469945,0.527322;ABP=11.625,10.1299;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1263,582;CIGAR=1M1X,2X;DP=1849;DPB=1849;DPRA=0,1.65501;EPP=1684.69,1266.81;EPPR=5.18177;GTI=1;LEN=1,2;MEANALT=1.80952,2.21429;MQM=31.5344,37.1856;MQMR=44;NS=21;NUMALT=2;ODDS=3.62049;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44882,20344;QR=36;RO=1;RPL=1126,582;RPP=1684.69,1266.81;RPPR=5.18177;RPR=137,0;RUN=1,1;SAF=1263,582;SAP=2745.58,1266.81;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:0,56,41:0:0:56,41:1996,1474:-247.194,-112.879,-96.0212,-134.638,0,-122.295 1/2:93:0,35,58:0:0:35,58:1239,2033:-233.386,-151.126,-140.59,-82.565,0,-65.1052 1/2:115:0,54,60:0:0:54,60:1936,2124:-292.279,-162.11,-145.854,-130.283,0,-112.222 1/1:83:0,83,0:0:0:83,0:2954,0:-223.812,-24.9855,0,-223.812,-24.9855,-223.812 1/1:98:0,97,1:0:0:97,1:3404,36:-257.438,-29.1999,0,-254.69,-26.1133,-254.389 1/1:57:0,57,0:0:0:57,0:2031,0:-152.76,-17.1587,0,-152.76,-17.1587,-152.76 1/1:131:0,131,0:0:0:131,0:4653,0:-353.89,-39.4349,0,-353.89,-39.4349,-353.89 1/2:117:0,58,59:0:0:58,59:2076,2083:-295.693,-154.135,-136.675,-141.872,0,-124.111 1/2:132:0,62,70:0:0:62,70:2198,2468:-337.838,-192.83,-174.166,-145.323,0,-124.251 1/2:26:0,11,15:0:0:11,15:392,518:-65.6248,-38.8424,-35.531,-27.0927,0,-22.5773 1/1:4:0,4,0:0:0:4,0:144,0:-11.3018,-1.20412,0,-11.3018,-1.20412,-11.3018 1/2:28:0,14,14:0:0:14,14:500,502:-70.828,-37.5821,-33.3677,-33.5591,0,-29.3447 1/1:81:0,81,0:0:0:81,0:2879,0:-217.98,-24.3834,0,-217.98,-24.3834,-217.98 1/1:167:0,165,1:0:0:165,1:5873,34:-447.713,-49.67,0,-445.811,-47.7975,-445.51 1/2:124:1,50,72:1:36:50,72:1784,2460:-303.018,-183.339,-171.17,-117.084,0,-98.2928 1/2:66:0,25,41:0:0:25,41:896,1453:-171.12,-112.609,-105.083,-58.8214,0,-46.4792 1/1:57:0,56,1:0:0:56,1:1999,36:-150.047,-16.8577,0,-147.238,-13.7042,-146.937 1/2:236:0,110,126:0:0:110,126:3892,4308:-580.951,-317.42,-284.307,-263.837,0,-225.908 1/2:64:0,41,23:0:0:41,23:1459,815:-160.833,-60.9633,-48.6211,-100.188,0,-93.2646 1/1:21:0,21,0:0:0:21,0:740,0:-57.1491,-6.32163,0,-57.1491,-6.32163,-57.1491 1/1:52:0,52,0:0:0:52,0:1837,0:-141.529,-15.6536,0,-141.529,-15.6536,-141.529 chr04 4787514 . CA CG,GG 39023.7 PASS AB=0.517939,0.480221;ABP=6.04876,6.704;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1326,523;CIGAR=1M1X,2X;DP=1852;DPB=1852;DPRA=0,1.23429;EPP=2882.38,1138.69;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.66667,2.16667;MQM=60,59.7533;MQMR=60;NS=21;NUMALT=2;ODDS=8.95009;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47346,18435;QR=36;RO=1;RPL=0,0;RPP=2882.38,1138.69;RPPR=5.18177;RPR=1326,523;RUN=1,1;SAF=1326,523;SAP=2882.38,1138.69;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:148:0,78,70:0:0:78,70:2778,2414:-422.867,-196.437,-172.956,-226.78,0,-205.708 1/2:113:0,58,55:0:0:58,55:2067,1948:-327.331,-158.846,-141.386,-168.841,0,-152.284 1/2:76:0,43,33:0:0:43,33:1544,1167:-221.354,-95.4011,-82.4568,-126.309,0,-116.375 1/1:61:0,61,0:0:0:61,0:2168,0:-195.384,-18.3628,0,-195.384,-18.3628,-195.384 1/1:186:0,186,0:0:0:186,0:6651,0:-598.667,-55.9916,0,-598.667,-55.9916,-598.667 1/1:58:0,58,0:0:0:58,0:2068,0:-186.391,-17.4597,0,-186.391,-17.4597,-186.391 1/1:96:0,96,0:0:0:96,0:3436,0:-309.453,-28.8989,0,-309.453,-28.8989,-309.453 1/2:64:0,26,38:0:0:26,38:932,1343:-185.744,-109.728,-101.901,-76.3721,0,-64.9329 1/2:123:0,72,51:0:0:72,51:2576,1803:-357.24,-147.18,-125.506,-210.415,0,-195.063 1/2:38:0,21,17:0:0:21,17:752,597:-110.27,-48.9395,-42.6178,-61.6846,0,-56.5671 1/1:12:0,12,0:0:0:12,0:424,0:-38.4964,-3.61236,0,-38.4964,-3.61236,-38.4964 1/2:37:0,15,21:0:0:15,21:536,739:-103.855,-60.1512,-55.6358,-43.6997,0,-37.3781 1/1:65:0,64,1:0:0:64,1:2288,36:-205.822,-19.2659,0,-202.884,-15.9687,-202.583 1/1:107:0,107,0:0:0:107,0:3828,0:-344.717,-32.2102,0,-344.717,-32.2102,-344.717 1/2:207:0,107,100:0:0:107,100:3799,3545:-598.419,-288.874,-256.664,-309.899,0,-279.796 1/2:60:0,30,29:0:0:30,29:1076,1001:-169.099,-81.3275,-72.2966,-87.8394,0,-79.1096 1/1:55:0,55,0:0:0:55,0:1967,0:-177.304,-16.5567,0,-177.304,-16.5567,-177.304 1/2:134:0,60,74:0:0:60,74:2147,2643:-390.917,-215.84,-197.778,-175.435,0,-153.159 1/2:87:0,53,34:0:0:53,34:1881,1199:-251.239,-97.9791,-82.0245,-153.613,0,-143.378 1/1:64:0,64,0:0:0:64,0:2280,0:-205.462,-19.2659,0,-205.462,-19.2659,-205.462 1/1:61:1,60,0:1:36:60,0:2148,0:-189.989,-14.7646,0,-190.29,-18.0618,-193.228 chr04 4787571 . C A 34323.1 PASS AB=0.639401;ABP=149.52;AC=31;AF=0.738095;AN=42;AO=1605;CIGAR=1X;DP=1920;DPB=1920;DPRA=0;EPP=3453.57;EPPR=650.361;GTI=1;LEN=1;MEANALT=1.19048;MQM=59.9963;MQMR=59.9645;NS=21;NUMALT=1;ODDS=3.2901;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57296;QR=11058;RO=310;RPL=1601;RPP=3453.57;RPPR=650.361;RPR=4;RUN=1;SAF=0;SAP=3488.22;SAR=1605;SRF=0;SRP=676.167;SRR=310;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:24,60:24:860:60:2126:-166.321,0,-52.4353 0/1:92:39,53:39:1392:53:1896:-143.223,0,-97.8843 0/1:63:17,44:17:612:44:1576:-123.409,0,-36.6908 1/1:166:0,165:0:0:165:5904:-531.11,-49.67,0 1/1:166:0,166:0:0:166:5932:-533.989,-49.971,0 1/1:88:0,88:0:0:88:3131:-282.017,-26.4906,0 1/1:135:0,135:0:0:135:4795:-431.707,-40.6391,0 0/1:119:29,90:29:1028:90:3236:-255.638,0,-57.0105 0/1:130:53,77:53:1891:77:2756:-209.148,0,-131.334 0/1:18:4,14:4:144:14:504:-40.2796,0,-7.87703 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:26:17,9:17:603:9:324:-21.6791,0,-46.7727 1/1:121:0,121:0:0:121:4327:-389.606,-36.4246,0 1/1:117:0,117:0:0:117:4155:-374.134,-35.2205,0 0/1:75:28,47:28:996:47:1675:-128.459,0,-67.3776 0/1:89:43,46:43:1536:46:1648:-121.817,0,-111.741 1/1:74:0,74:0:0:74:2633:-237.217,-22.2762,0 0/1:93:36,56:36:1280:56:2012:-153.299,0,-87.4488 0/1:79:20,59:20:716:59:2112:-166.568,0,-40.9863 1/1:88:0,88:0:0:88:3122:-281.207,-26.4906,0 1/1:90:0,89:0:0:89:3180:-286.104,-26.7917,0 chr04 4844744 . TCTCTCCCTCCC TCTCTCTCTCTC,TC 38659.8 PASS AB=0.45406,0.5;ABP=20.1686,3.0103;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1398,472;CIGAR=6M1X3M1X1M,1M10D1M;DP=2026;DPB=1609.42;DPRA=0,1.26174;EPP=3038.73,1027.95;EPPR=0;GTI=4;LEN=12,10;MEANALT=3.90476,4.07143;MQM=49.9013,42.1462;MQMR=0;NS=21;NUMALT=2;ODDS=17.3959;PAIRED=0,0;PAIREDR=0;PAO=0.25,0.25;PQA=0,0;PQR=0;PRO=0.25;QA=49501,16359;QR=0;RO=0;RPL=0,0;RPP=3038.73,1027.95;RPPR=0;RPR=1398,472;RUN=1,1;SAF=0,0;SAP=3038.73,1027.95;SAR=1398,472;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:89:0,31,55:0:0:31,55:1097,1927:-239.673,-150.898,-141.566,-88.7786,0,-72.222 1/2:84:0,51,29:0:0:51,29:1794,987:-218.915,-75.4298,-60.0773,-143.474,0,-134.744 1/2:62:0,27,35:0:0:27,35:949,1217:-173.279,-96.6664,-88.5386,-76.9569,0,-66.4209 1/1:116:0,102,0:0:0:102,0:3644,0:-325.998,-30.7051,0,-325.998,-30.7051,-325.998 1/1:208:0,189,1:0:0:189,1:6685,36:-598.545,-56.8947,0,-595.677,-54.0266,-595.376 1/1:105:0,94,0:0:0:94,0:3334,0:-296.848,-28.2968,0,-296.848,-28.2968,-296.848 1/1:213:0,192,1:0:0:192,1:6790,36:-604.335,-57.7978,0,-601.554,-55.0173,-601.253 1/2:60:0,26,32:0:0:26,32:932,1119:-162.902,-87.4937,-79.6669,-75.4058,0,-65.7729 1/2:179:0,71,94:0:0:71,94:2510,3227:-460.252,-256.64,-235.267,-203.606,0,-175.31 1/2:24:0,14,10:0:0:14,10:486,356:-67.4398,-28.3618,-24.1473,-39.4223,0,-36.412 1/1:18:0,14,0:0:0:14,0:493,0:-43.6734,-4.21442,0,-43.6734,-4.21442,-43.6734 1/2:27:0,8,18:0:0:8,18:276,632:-71.6609,-49.8021,-47.3939,-21.8836,0,-16.465 1/1:94:0,87,2:0:0:87,2:3098,59:-276.965,-26.1896,0,-272.304,-21.5441,-271.702 1/1:95:0,83,0:0:0:83,0:2936,0:-262.579,-24.9855,0,-262.579,-24.9855,-262.579 1/2:123:0,59,60:0:0:59,60:2110,2064:-333.743,-163.573,-145.812,-170.17,0,-152.109 1/2:117:0,53,58:0:0:53,58:1902,2014:-314.321,-159.893,-143.939,-154.422,0,-136.962 1/1:110:0,95,0:0:0:95,0:3352,0:-301.007,-28.5979,0,-301.007,-28.5979,-301.007 1/2:95:0,35,54:0:0:35,54:1241,1878:-247.335,-146.708,-136.172,-100.649,0,-84.3932 1/2:76:0,50,23:0:0:50,23:1752,807:-204.375,-62.2196,-47.1681,-142.151,0,-135.227 1/1:83:0,76,0:0:0:76,0:2694,0:-239.399,-22.8783,0,-239.399,-22.8783,-239.399 1/1:48:0,41,0:0:0:41,0:1426,0:-126.93,-12.3422,0,-126.93,-12.3422,-126.93 chr04 5046193 . TCAT TCAG,CCAG 44571.5 PASS AB=0.583333,0.411376;ABP=48.6112,54.5856;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1332,312;CIGAR=3M1X,1X2M1X;DP=1651;DPB=1651.75;DPRA=0,1.13658;EPP=1294.32,671.852;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.7619,2.3;MQM=59.8491,59.2628;MQMR=60;NS=21;NUMALT=2;ODDS=1.16299;PAIRED=0,0;PAIREDR=0;PAO=0,3;PQA=0,68;PQR=0;PRO=0;QA=47351,10679;QR=29;RO=1;RPL=1011,312;RPP=779.165,680.51;RPPR=5.18177;RPR=321,0;RUN=1,1;SAF=790,311;SAP=103.276,671.852;SAR=542,1;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:62:0,29,33:0:0:29,33:1040,1130:-176.902,-92.0686,-83.3387,-85.1845,0,-75.2505 1/2:65:0,55,10:0:0:55,10:1946,347:-187.027,-28.5243,-11.9676,-158.851,0,-155.84 1/2:60:0,24,35:0:0:24,35:864,1190:-167.014,-96.5083,-89.2836,-70.5172,0,-59.9811 1/1:83:0,82,1:0:0:82,1:2891,36:-260.054,-24.6845,0,-257.117,-21.3872,-256.816 1/1:136:0,136,0:0:0:136,0:4837,0:-435.486,-40.9401,0,-435.486,-40.9401,-435.486 1/1:95:0,95,0:0:0:95,0:3380,0:-304.416,-28.5979,0,-304.416,-28.5979,-304.416 1/1:136:0,136,0:0:0:136,0:4808,0:-432.735,-40.9401,0,-432.735,-40.9401,-432.735 1/2:87:0,44,43:0:0:44,43:1571,1463:-247.062,-118.982,-105.737,-128.427,0,-115.483 1/2:130:0,59,71:0:0:59,71:2095,2411:-366.517,-195.811,-178.05,-171.055,0,-149.682 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:13:0,12,0:0:0:12,0:432,0:-38.9445,-3.61236,0,-38.9445,-3.61236,-38.9445 1/1:16:0,16,0:0:0:16,0:572,0:-51.8052,-4.81648,0,-51.8052,-4.81648,-51.8052 1/1:114:0,113,0:0:0:113,0:4052,0:-364.462,-34.0164,0,-364.462,-34.0164,-364.462 1/1:74:0,74,0:0:0:74,0:2630,0:-236.947,-22.2762,0,-236.947,-22.2762,-236.947 1/2:114:0,58,55:0:0:58,55:2044,1881:-319.077,-152.654,-135.194,-166.44,0,-149.883 1/2:71:1,40,29:1:29:40,29:1440,1016:-197.308,-80.1167,-70.3822,-115.213,0,-108.79 1/1:75:0,75,0:0:0:75,0:2664,0:-240.004,-22.5773,0,-240.004,-22.5773,-240.004 1/2:77:0,59,18:0:0:59,18:2120,628:-224.21,-51.2481,-33.4873,-173.133,0,-167.715 1/2:90:0,73,17:0:0:73,17:2604,577:-259.419,-47.1288,-25.1536,-212.633,0,-207.515 1/1:74:0,74,0:0:0:74,0:2648,0:-238.558,-22.2762,0,-238.558,-22.2762,-238.558 1/1:74:0,73,0:0:0:73,0:2533,0:-227.722,-21.9752,0,-227.722,-21.9752,-227.722 chr04 5057091 . C T 24763.2 PASS AB=0.607843;ABP=178.176;AC=10;AF=0.238095;AN=42;AO=1058;CIGAR=1X;DP=3372;DPB=3372;DPRA=1.60871;EPP=35.5947;EPPR=5023.45;GTI=2;LEN=1;MEANALT=1.07692;MQM=59.965;MQMR=60;NS=21;NUMALT=1;ODDS=4.55611;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37371;QR=81843;RO=2312;RPL=1058;RPP=2300.43;RPPR=5023.45;RPR=0;RUN=1;SAF=466;SAP=35.5947;SAR=592;SRF=2312;SRP=5023.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:209:96,113:96:3403:113:4004:-297.635,0,-243.569 0/1:255:70,185:70:2492:185:6512:-509.404,0,-147.771 0/1:148:77,71:77:2745:71:2520:-182.498,0,-202.739 0/0:113:113,0:113:3994:0:0:0,-34.0164,-359.651 0/0:438:436,1:436:15378:1:36:0,-128.312,-1380.15 0/0:100:100,0:100:3517:0:0:0,-30.103,-316.741 0/0:288:287,0:287:10130:0:0:0,-86.3956,-911.324 0/1:135:48,87:48:1700:87:3071:-235.98,0,-112.644 0/1:370:146,224:146:5178:224:7897:-599.387,0,-354.781 0/1:17:2,15:2:72:15:512:-41.2851,0,-1.71921 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:8:8,0:8:280:0:0:0,-2.40824,-25.5393 0/0:184:184,0:184:6576:0:0:0,-55.3895,-591.92 0/0:125:123,2:123:4306:2:68:0,-31.171,-381.263 0/1:220:122,98:122:4342:98:3460:-245.388,0,-324.727 0/1:206:69,137:69:2431:137:4843:-373.633,0,-157.032 0/0:142:141,1:141:4979:1:36:0,-39.148,-444.665 0/1:75:15,60:15:527:60:2138:-170.109,0,-25.1829 0/1:99:35,64:35:1248:64:2274:-175.119,0,-82.8229 0/0:176:176,0:176:6269:0:0:0,-52.9813,-564.306 0/0:53:53,0:53:1884:0:0:0,-15.9546,-169.839 chr04 5101330 . GTTG GTC,GTCG 27439.5 PASS AB=0.352614,0.645161;ABP=172.634,167.552;AC=31,11;AF=0.738095,0.261905;AN=42;AO=761,587;CIGAR=1M1D1M1X,2M1X1M;DP=1350;DPB=1159.75;DPRA=0,1.88814;EPP=1655.5,1277.66;EPPR=0;GTI=2;LEN=3,1;MEANALT=1.80952,2.13333;MQM=49.2378,57.075;MQMR=0;NS=21;NUMALT=2;ODDS=4.2453;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23481,20726;QR=0;RO=0;RPL=760,388;RPP=1646.83,135.152;RPPR=0;RPR=1,199;RUN=1,1;SAF=760,388;SAP=1646.83,135.152;SAR=1,199;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,30,92:0:0:30,92:973,3226:-339.95,-262.112,-253.081,-77.9157,0,-50.221 1/2:69:0,12,57:0:0:12,57:370,2001:-192.091,-163.042,-159.43,-29.36,0,-12.2013 1/2:56:0,14,42:0:0:14,42:417,1488:-154.485,-121.292,-117.078,-33.5042,0,-20.861 1/1:33:0,33,0:0:0:33,0:1040,0:-93.4749,-9.93399,0,-93.4749,-9.93399,-93.4749 1/1:81:0,78,3:0:0:78,3:2296,108:-205.147,-23.4803,0,-196.357,-14.3336,-195.454 1/1:25:0,23,2:0:0:23,2:736,72:-65.9675,-6.92369,0,-60.0894,-0.689028,-59.4874 1/1:68:0,68,0:0:0:68,0:2051,0:-183.951,-20.47,0,-183.951,-20.47,-183.951 1/2:118:0,33,84:0:0:33,84:1046,3011:-328.648,-244.947,-235.013,-83.6696,0,-58.3831 1/2:142:0,73,69:0:0:73,69:2147,2413:-366.459,-196.227,-174.252,-170.553,0,-149.782 1/2:18:0,7,11:0:0:7,11:218,396:-50.094,-32.6527,-30.5455,-17.7709,0,-14.4596 1/1:6:0,6,0:0:0:6,0:182,0:-16.1585,-1.80618,0,-16.1585,-1.80618,-16.1585 1/2:29:0,7,22:0:0:7,22:238,777:-82.8015,-63.5781,-61.4709,-19.5655,0,-12.9428 1/1:35:0,35,0:0:0:35,0:1098,0:-98.7719,-10.5361,0,-98.7719,-10.5361,-98.7719 1/1:68:0,68,0:0:0:68,0:2223,0:-198.89,-20.47,0,-198.89,-20.47,-198.89 1/2:121:0,47,74:0:0:47,74:1472,2624:-331.595,-213.973,-199.825,-117.95,0,-95.6733 1/2:57:0,14,43:0:0:14,43:439,1532:-160.109,-124.901,-120.686,-35.5312,0,-22.5869 1/1:26:0,26,0:0:0:26,0:770,0:-69.4503,-7.82678,0,-69.4503,-7.82678,-69.4503 1/2:85:0,38,47:0:0:38,47:1138,1643:-224.317,-133.76,-122.321,-90.8774,0,-76.729 1/2:81:0,42,39:0:0:42,39:1346,1363:-218.654,-110.924,-98.2812,-108.064,0,-96.3234 1/1:49:0,48,1:0:0:48,1:1435,36:-128.756,-14.4494,0,-125.823,-11.159,-125.522 1/1:60:0,59,1:0:0:59,1:1846,36:-165.636,-17.7608,0,-162.702,-14.4686,-162.401 chr04 5212862 . A C 14155.1 PASS AB=0.565129;ABP=57.3177;AC=11;AF=0.261905;AN=42;AO=837;CIGAR=1X;DP=2486;DPB=2486;DPRA=1.73561;EPP=1820.53;EPPR=3549.11;GTI=1;LEN=1;MEANALT=1;MQM=45.7025;MQMR=59.7568;NS=21;NUMALT=1;ODDS=12.3714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29858;QR=59064;RO=1649;RPL=0;RPP=1820.53;RPPR=3549.11;RPR=837;RUN=1;SAF=837;SAP=1820.53;SAR=0;SRF=1649;SRP=3583.77;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:56,89:56:2004:89:3165:-237.652,0,-136.978 0/1:59:33,26:33:1188:26:928:-64.4672,0,-89.4655 0/1:146:64,82:64:2292:82:2923:-214.575,0,-162.562 0/0:126:126,0:126:4520:0:0:0,-37.9298,-406.836 0/0:207:206,1:206:7392:1:36:0,-58.7546,-661.667 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.397 0/0:109:109,0:109:3885:0:0:0,-32.8123,-349.77 0/1:182:91,91:91:3249:91:3243:-234.159,0,-237.839 0/1:121:52,69:52:1868:69:2462:-181.452,0,-131.964 0/1:24:6,18:6:216:18:644:-50.5699,0,-12.5658 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:14:6,8:6:216:8:288:-21.8233,0,-15.5761 0/0:96:96,0:96:3452:0:0:0,-28.8989,-310.888 0/0:112:110,2:110:3952:2:72:0,-26.954,-348.928 0/1:229:127,102:127:4545:102:3647:-254.794,0,-340.274 0/1:91:50,41:50:1800:41:1459:-100.825,0,-134.884 0/0:137:136,1:136:4854:1:36:0,-37.705,-433.145 0/1:371:96,275:96:3444:275:9807:-760.551,0,-198.487 0/1:92:60,32:60:2130:32:1148:-74.7751,0,-164.184 0/0:104:104,0:104:3713:0:0:0,-31.3071,-334.283 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.89 chr04 5212877 . AG CT,TT 51571.4 PASS AB=0.433401,0.564571;ABP=59.9898,56.5718;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1652,839;CIGAR=2X,2X;DP=2496;DPB=2496;DPRA=0,1.73256;EPP=3590.28,1824.88;EPPR=0;GTI=1;LEN=2,2;MEANALT=1.85714,2.28571;MQM=59.7355,45.7128;MQMR=0;NS=21;NUMALT=2;ODDS=10.7087;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58407,29626;QR=0;RO=0;RPL=1652,839;RPP=3590.28,1824.88;RPPR=0;RPR=0,0;RUN=1,1;SAF=1652,839;SAP=3590.28,1824.88;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:148:0,56,91:0:0:56,91:1980,3221:-419.954,-258.697,-241.839,-161.356,0,-133.963 1/2:60:0,34,26:0:0:34,26:1204,923:-172.058,-73.9913,-63.7563,-98.4173,0,-90.5905 1/2:147:0,63,84:0:0:63,84:2222,2960:-417.308,-236.383,-217.419,-181.274,0,-155.988 1/1:127:0,127,0:0:0:127,0:4460,0:-401.492,-38.2308,0,-401.492,-38.2308,-401.492 1/1:207:0,206,1:0:0:206,1:7285,36:-655.339,-62.0122,0,-652.437,-58.7546,-652.136 1/1:52:0,52,0:0:0:52,0:1845,0:-166.328,-15.6536,0,-166.328,-15.6536,-166.328 1/1:110:0,110,0:0:0:110,0:3874,0:-348.794,-33.1133,0,-348.794,-33.1133,-348.794 1/2:182:0,91,91:0:0:91,91:3231,3233:-523.81,-260.55,-233.156,-263.613,0,-236.22 1/2:120:0,52,68:0:0:52,68:1822,2407:-341.024,-192.78,-177.127,-148.593,0,-128.123 1/2:24:0,6,18:0:0:6,18:205,630:-67.7838,-51.1492,-49.343,-16.9775,0,-11.5589 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:14:0,6,8:0:0:6,8:216,284:-40.9103,-23.2824,-21.4763,-17.9843,0,-15.5761 1/1:96:0,96,0:0:0:96,0:3397,0:-305.942,-28.8989,0,-305.942,-28.8989,-305.942 1/1:113:0,109,2:0:0:109,2:3829,70:-344.306,-32.8123,0,-338.669,-27.1821,-338.067 1/2:230:0,128,102:0:0:128,102:4527,3628:-660.211,-291.522,-252.99,-369.04,0,-338.335 1/2:90:0,50,39:0:0:50,39:1776,1369:-253.506,-108.784,-93.7323,-144.784,0,-133.044 1/1:138:0,137,1:0:0:137,1:4887,36:-439.299,-41.2411,0,-436.418,-38.006,-436.117 1/2:372:0,95,276:0:0:95,276:3368,9701:-1054.25,-779.865,-751.267,-274.375,0,-191.291 1/2:92:0,60,32:0:0:60,32:2121,1128:-263.782,-91.1238,-73.062,-173.008,0,-163.375 1/1:105:0,105,0:0:0:105,0:3705,0:-333.563,-31.6082,0,-333.563,-31.6082,-333.563 1/1:64:0,64,0:0:0:64,0:2273,0:-204.825,-19.2659,0,-204.825,-19.2659,-204.825 chr04 5280457 . C T 7938.55 PASS AB=0.523364;ABP=7.06913;AC=11;AF=0.261905;AN=42;AO=456;CIGAR=1X;DP=1794;DPB=1794;DPRA=1.18761;EPP=933.334;EPPR=2695.04;GTI=0;LEN=1;MEANALT=1;MQM=59.9649;MQMR=59.9828;NS=21;NUMALT=1;ODDS=1.68686;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16312;QR=47582;RO=1334;RPL=449;RPP=933.334;RPPR=2695.04;RPR=7;RUN=1;SAF=0;SAP=993.202;SAR=456;SRF=0;SRP=2899.75;SRR=1334;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:27,23:27:941:23:820:-59.071,0,-69.9502 0/1:86:48,38:48:1711:38:1368:-97.5322,0,-128.386 0/1:59:29,30:29:1040:30:1076:-79.3921,0,-76.1536 0/0:114:114,0:114:4047:0:0:0,-34.3174,-364.415 0/0:127:124,3:124:4427:3:108:0,-28.1556,-388.527 0/0:115:112,3:112:3989:3:108:0,-24.5433,-349.125 0/0:160:159,1:159:5695:1:36:0,-44.5665,-509.063 0/1:89:28,61:28:993:61:2180:-169.675,0,-62.8908 0/1:163:72,91:72:2576:91:3255:-244.046,0,-183.022 0/1:11:9,2:9:320:2:72:-3.52539,0,-25.831 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:23:9,14:9:320:14:500:-38.4125,0,-22.2187 0/0:110:109,0:109:3912:0:0:0,-32.8123,-351.912 0/0:85:83,0:83:2968:0:0:0,-24.9855,-267.14 0/1:119:60,59:60:2141:59:2120:-155.246,0,-157.133 0/1:97:32,65:32:1144:65:2324:-180.22,0,-74.0614 0/0:66:66,0:66:2361:0:0:0,-19.868,-212.747 0/1:95:47,48:47:1671:48:1720:-126.488,0,-122.079 0/1:64:47,17:47:1668:17:589:-34.0674,0,-131.141 0/0:84:83,1:83:2968:1:36:0,-21.6882,-263.755 0/0:67:66,0:66:2330:0:0:0,-19.868,-209.745 chr04 5326109 . A G 16966.2 PASS AB=0.541056;ABP=22.9802;AC=11;AF=0.261905;AN=42;AO=747;CIGAR=1X;DP=2588;DPB=2588;DPRA=1.12359;EPP=1625.1;EPPR=3998.52;GTI=0;LEN=1;MEANALT=1;MQM=59.8153;MQMR=59.9326;NS=21;NUMALT=1;ODDS=1.46443;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26448;QR=65613;RO=1840;RPL=352;RPP=8.3852;RPPR=4.07243;RPR=395;RUN=1;SAF=352;SAP=8.3852;SAR=395;SRF=905;SRP=4.07243;SRR=935;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:45,78:45:1616:78:2760:-211.61,0,-108.701 0/1:70:22,48:22:788:48:1724:-134.373,0,-50.1727 0/1:133:66,67:66:2335:67:2340:-170.781,0,-170.371 0/0:129:128,0:128:4600:0:0:0,-38.5318,-413.912 0/0:164:159,5:159:5684:5:180:0,-32.8169,-495.122 0/0:71:69,2:69:2449:2:72:0,-14.5364,-213.827 0/0:132:132,0:132:4700:0:0:0,-39.736,-423.157 0/1:150:46,104:46:1632:104:3658:-284.267,0,-102.014 0/1:254:127,127:127:4547:127:4487:-327.528,0,-332.932 0/1:17:5,12:5:180:12:432:-34.0991,0,-11.4346 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:44:18,26:18:644:26:913:-69.2387,0,-45.0453 0/0:215:215,0:215:7617:0:0:0,-64.7214,-685.569 0/0:171:171,0:171:6109:0:0:0,-51.4761,-549.591 0/1:231:97,134:97:3440:134:4774:-360.264,0,-240.275 0/1:49:30,19:30:1072:19:672:-46.0555,0,-82.042 0/0:51:51,0:51:1820:0:0:0,-15.3525,-164.064 0/1:139:66,73:66:2343:73:2599:-192.255,0,-169.128 0/1:154:104,50:104:3736:50:1765:-112.77,0,-290.081 0/0:192:190,2:190:6762:2:72:0,-50.961,-601.816 0/0:95:95,0:95:3399:0:0:0,-28.5978,-306.124 chr04 5351006 . C A 12952.5 PASS AB=0.577614;ABP=67.0545;AC=12;AF=0.285714;AN=42;AO=861;CIGAR=1X;DP=2164;DPB=2164;DPRA=1.70816;EPP=1872.65;EPPR=2821.58;GTI=1;LEN=1;MEANALT=1;MQM=26.3717;MQMR=39.0917;NS=21;NUMALT=1;ODDS=0.547613;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30737;QR=46350;RO=1298;RPL=399;RPP=13.0203;RPPR=2821.58;RPR=462;RUN=1;SAF=399;SAP=13.0203;SAR=462;SRF=0;SRP=2821.58;SRR=1298;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:218:87,131:87:3109:131:4684:-234.896,0,-197.719 0/1:134:73,61:73:2620:61:2179:-109.091,0,-184.739 0/1:195:59,136:59:2109:136:4873:-257.257,0,-119.598 0/0:65:65,0:65:2321:0:0:0,-19.5669,-197.721 0/0:158:154,4:154:5513:4:144:0,-37.7144,-456.364 0/0:76:74,2:74:2645:2:72:0,-17.6795,-222.567 0/0:93:93,0:93:3336:0:0:0,-27.9958,-287.552 0/1:70:42,28:42:1508:28:1000:-47.7188,0,-109.576 1/1:156:9,147:9:320:147:5216:-304.232,-19.1628,0 0/1:34:24,10:24:826:10:356:-14.4287,0,-61.0544 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.8786 0/1:30:15,15:15:540:15:540:-28.0205,0,-37.262 0/0:60:59,1:59:2116:1:36:0,-15.5949,-177.157 0/0:106:101,0:101:3586:0:0:0,-30.404,-304.526 0/1:197:59,138:59:2078:138:4912:-257.629,0,-118.077 0/1:162:40,122:40:1436:122:4357:-233.201,0,-74.58 0/0:101:101,0:101:3588:0:0:0,-30.404,-306.138 0/1:110:76,34:76:2699:34:1220:-51.1019,0,-198.824 0/1:74:42,32:42:1508:32:1148:-52.3035,0,-104.403 0/0:81:81,0:81:2912:0:0:0,-24.3834,-249.824 0/0:40:40,0:40:1436:0:0:0,-12.0412,-125.353 chr04 6099563 . T C 29440.2 PASS AB=0.534932;ABP=13.1748;AC=31;AF=0.738095;AN=42;AO=1409;CIGAR=1X;DP=1858;DPB=1858;DPRA=0;EPP=3062.61;EPPR=978.001;GTI=0;LEN=1;MEANALT=1;MQM=59.983;MQMR=59.9822;NS=21;NUMALT=1;ODDS=16.8982;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50304;QR=16058;RO=449;RPL=0;RPP=3062.61;RPPR=978.001;RPR=1409;RUN=1;SAF=1409;SAP=3062.61;SAR=0;SRF=449;SRP=978.001;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:213:99,114:99:3532:114:4053:-300.709,0,-253.968 0/1:57:23,34:23:824:34:1211:-92.1368,0,-57.3246 0/1:90:51,39:51:1817:39:1396:-98.8464,0,-136.717 1/1:66:0,66:0:0:66:2360:-212.659,-19.868,0 1/1:180:2,178:2:72:178:6396:-568.887,-47.3487,0 1/1:90:1,89:1:36:89:3159:-280.934,-23.4944,0 1/1:131:0,131:0:0:131:4679:-421.272,-39.4349,0 0/1:67:25,42:25:900:42:1512:-116.206,0,-61.152 0/1:194:102,92:102:3652:92:3292:-238.1,0,-270.484 0/1:10:8,2:8:284:2:72:-3.82642,0,-22.8931 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 1/1:114:0,114:0:0:114:4083:-367.656,-34.3174,0 1/1:80:0,80:0:0:80:2822:-254.22,-24.0824,0 0/1:107:53,54:53:1889:54:1936:-142.306,0,-138.076 0/1:100:45,55:45:1612:55:1967:-147.201,0,-115.267 1/1:95:0,95:0:0:95:3380:-304.416,-28.5979,0 0/1:44:15,29:15:540:29:1036:-80.3086,0,-35.6912 0/1:58:18,40:18:648:40:1427:-111.267,0,-41.1921 1/1:93:0,93:0:0:93:3295:-296.769,-27.9958,0 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 chr04 7380925 . C T 11707.4 PASS AB=0.498545;ABP=3.02926;AC=11;AF=0.261905;AN=42;AO=517;CIGAR=1X;DP=1834;DPB=1834;DPRA=1.17607;EPP=17.631;EPPR=8.74978;GTI=0;LEN=1;MEANALT=1;MQM=59.9884;MQMR=60;NS=21;NUMALT=1;ODDS=6.57849;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18373;QR=46190;RO=1317;RPL=511;RPP=1074.15;RPPR=2776.64;RPR=6;RUN=1;SAF=282;SAP=12.2884;SAR=235;SRF=678;SRP=5.51813;SRR=639;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:35,57:35:1226:57:2012:-153.657,0,-82.9475 0/1:93:40,53:40:1387:53:1899:-143.191,0,-97.1251 0/1:61:25,36:25:850:36:1249:-94.3452,0,-58.4457 0/0:80:80,0:80:2794:0:0:0,-24.0824,-251.698 0/0:100:100,0:100:3574:0:0:0,-30.103,-321.867 0/0:73:71,2:71:2481:2:72:0,-15.1385,-216.705 0/0:104:104,0:104:3662:0:0:0,-31.3071,-329.783 0/1:94:52,42:52:1784:42:1499:-106.907,0,-132.54 0/1:149:63,86:63:2232:86:3077:-232.303,0,-156.289 0/1:26:14,12:14:500:12:417:-30.0334,0,-37.5094 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:37:16,21:16:563:21:740:-55.7806,0,-39.8611 0/0:81:81,0:81:2885:0:0:0,-24.3834,-259.885 0/0:98:98,0:98:3429:0:0:0,-29.5009,-308.826 0/1:116:48,68:48:1667:68:2418:-182.956,0,-115.394 0/1:63:37,26:37:1234:26:927:-64.7825,0,-92.3819 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/1:165:96,69:96:3351:69:2460:-171.982,0,-252.138 0/1:135:91,44:91:3176:44:1567:-100.682,0,-245.426 0/0:100:99,1:99:3483:1:36:0,-26.5047,-310.085 0/0:124:124,0:124:4368:0:0:0,-37.3277,-393.296 chr04 7533347 . C G 10446.8 PASS AB=0.525066;ABP=5.07864;AC=32;AF=0.761905;AN=42;AO=510;CIGAR=1X;DP=691;DPB=691;DPRA=0;EPP=1067.46;EPPR=393.875;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9843;MQMR=60;NS=21;NUMALT=1;ODDS=4.47784;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17893;QR=6410;RO=180;RPL=505;RPP=1067.46;RPPR=393.875;RPR=5;RUN=1;SAF=0;SAP=1110.46;SAR=510;SRF=0;SRP=393.875;SRR=180;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:9,16:9:320:16:559:-43.1119,0,-21.6166 0/1:16:11,5:11:396:5:163:-10.1749,0,-31.1663 0/1:44:19,25:19:667:25:880:-66.2724,0,-47.1093 1/1:31:0,31:0:0:31:1083:-97.7758,-9.33193,0 1/1:16:0,16:0:0:16:563:-50.9992,-4.81648,0 1/1:51:0,51:0:0:51:1816:-163.721,-15.3525,0 1/1:48:0,48:0:0:48:1687:-152.116,-14.4494,0 0/1:42:20,22:20:712:22:763:-56.3452,0,-51.7634 0/1:75:39,35:39:1387:35:1240:-89.2686,0,-102.492 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:14:6,8:6:216:8:280:-21.3249,0,-15.5761 1/1:34:0,34:0:0:34:1192:-107.585,-10.235,0 1/1:55:0,55:0:0:55:1947:-175.505,-16.5567,0 0/1:47:25,22:25:892:22:761:-54.6582,0,-66.4513 0/1:10:4,6:4:140:6:208:-16.0488,0,-9.93428 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:71:34,37:34:1212:37:1283:-94.3946,0,-88.0132 0/1:35:12,23:12:432:23:797:-61.5075,0,-28.6851 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 1/1:40:1,39:1:36:39:1355:-118.645,-8.44293,0 chr04 7741978 . GTT ATC,GTC 38943 PASS AB=0.539326,0.45046;ABP=16.1611,23.8799;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1458,442;CIGAR=1X1M1X,2M1X;DP=1916;DPB=1916;DPRA=0,0.962753;EPP=3169.02,962.801;EPPR=0;GTI=1;LEN=3,1;MEANALT=2.33333,2.83333;MQM=59.8272,59.9955;MQMR=0;NS=21;NUMALT=2;ODDS=0.419567;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50025,15722;QR=0;RO=0;RPL=1,0;RPP=3160.34,962.801;RPPR=0;RPR=1457,442;RUN=1,1;SAF=1,0;SAP=3160.34,962.801;SAR=1457,442;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:153:0,92,60:0:0:92,60:3166,2129:-430.575,-173.455,-145.76,-257.111,0,-239.049 1/2:71:0,39,32:0:0:39,32:1328,1139:-200.909,-93.1845,-81.4443,-108.073,0,-98.4399 1/2:75:0,31,44:0:0:31,44:1052,1580:-214.55,-129.246,-119.914,-85.6507,0,-72.4054 1/1:129:0,129,0:0:0:129,0:4448,0:-400.499,-38.8329,0,-400.499,-38.8329,-400.499 1/1:241:0,239,0:0:0:239,0:8348,0:-751.068,-71.9462,0,-751.068,-71.9462,-751.068 1/1:98:0,97,1:0:0:97,1:3320,36:-298.552,-29.1999,0,-295.614,-25.9027,-295.313 1/1:112:0,112,0:0:0:112,0:3777,0:-339.903,-33.7154,0,-339.903,-33.7154,-339.903 1/2:79:0,49,30:0:0:49,30:1659,1067:-221.799,-87.3103,-72.5598,-134.838,0,-125.807 1/2:119:0,58,59:0:0:58,59:1985,2097:-332.052,-170.94,-153.481,-161.163,0,-143.402 1/2:15:0,10,3:0:0:10,3:347,104:-36.6836,-8.46956,-5.45926,-28.2296,0,-27.3265 1/1:9:0,9,0:0:0:9,0:299,0:-27.2322,-2.70927,0,-27.2322,-2.70927,-27.2322 1/2:12:0,8,4:0:0:8,4:281,144:-34.9747,-12.1095,-9.70126,-23.2221,0,-22.018 1/1:100:0,100,0:0:0:100,0:3442,0:-309.991,-30.103,0,-309.991,-30.103,-309.991 1/1:60:0,59,0:0:0:59,0:1906,0:-171.533,-17.7608,0,-171.533,-17.7608,-171.533 1/2:120:0,53,66:0:0:53,66:1832,2360:-341.301,-192.51,-176.555,-148.86,0,-128.992 1/2:111:0,62,48:0:0:62,48:2177,1716:-317.093,-139.916,-121.253,-177.172,0,-162.722 1/1:51:0,50,0:0:0:50,0:1695,0:-152.586,-15.0515,0,-152.586,-15.0515,-152.586 1/2:123:0,65,58:0:0:65,58:2286,2055:-353.843,-167.761,-148.194,-186.434,0,-168.975 1/2:101:0,61,37:0:0:61,37:2097,1295:-275.743,-105.452,-87.0888,-170.376,0,-159.238 1/1:83:0,83,0:0:0:83,0:2822,0:-254.21,-24.9855,0,-254.21,-24.9855,-254.21 1/1:54:0,52,0:0:0:52,0:1758,0:-158.131,-15.6536,0,-158.131,-15.6536,-158.131 chr04 7979609 . G A 12937.4 PASS AB=0.471404;ABP=7.10862;AC=31;AF=0.738095;AN=42;AO=595;CIGAR=1X;DP=900;DPB=900;DPRA=0;EPP=351.471;EPPR=290.649;GTI=0;LEN=1;MEANALT=1;MQM=35.8622;MQMR=51.8393;NS=21;NUMALT=1;ODDS=0.396464;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21282;QR=10886;RO=305;RPL=595;RPP=1295.04;RPPR=665.309;RPR=0;RUN=1;SAF=452;SAP=351.471;SAR=143;SRF=253;SRP=290.649;SRR=52;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:23:12,11:12:432:11:396:-25.268,0,-32.1316 0/1:16:9,7:9:320:7:252:-15.6085,0,-24.0272 0/1:6:4,2:4:144:2:72:-4.46197,0,-11.4511 1/1:24:0,24:0:0:24:860:-70.6111,-7.22472,0 1/1:32:0,32:0:0:32:1152:-93.9266,-9.63296,0 1/1:32:0,32:0:0:32:1152:-88.9004,-9.63296,0 1/1:38:0,38:0:0:38:1359:-107.794,-11.4391,0 0/1:14:7,7:7:248:7:252:-17.5827,0,-18.2426 0/1:38:20,18:20:720:18:648:-42.4597,0,-53.1349 0/1:43:30,13:30:1072:13:464:-26.4313,0,-83.2874 1/1:100:0,100:0:0:100:3535:-285.033,-30.103,0 0/1:93:50,43:50:1788:43:1518:-99.2863,0,-132.774 1/1:24:0,24:0:0:24:860:-71.2185,-7.22472,0 1/1:12:0,12:0:0:12:423:-35.2674,-3.61236,0 0/1:24:12,12:12:432:12:432:-28.8478,0,-31.8305 0/1:10:6,4:6:216:4:144:-9.19609,0,-16.6965 1/1:7:0,7:0:0:7:252:-21.1138,-2.10721,0 0/1:247:139,108:139:4938:108:3880:-251.682,0,-368.192 0/1:63:16,47:16:576:47:1691:-120.694,0,-32.7197 1/1:14:0,14:0:0:14:504:-42.8017,-4.21442,0 1/1:40:0,40:0:0:40:1436:-114.817,-12.0412,0 chr04 8090318 . G C 24088.4 PASS AB=0.471014;ABP=20.1303;AC=11;AF=0.261905;AN=42;AO=1115;CIGAR=1X;DP=4902;DPB=4902;DPRA=1.13131;EPP=2424.2;EPPR=8213.35;GTI=0;LEN=1;MEANALT=1.23529;MQM=59.9498;MQMR=59.9796;NS=21;NUMALT=1;ODDS=39.4146;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38976;QR=132447;RO=3781;RPL=538;RPP=5.97246;RPPR=19.4132;RPR=577;RUN=1;SAF=538;SAP=5.97246;SAR=577;SRF=1806;SRP=19.4132;SRR=1975;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:122,89:122:4241:89:3103:-215.978,0,-318.358 0/1:173:94,77:94:3286:77:2679:-189.516,0,-244.124 0/1:261:122,139:122:4307:139:4874:-360.249,0,-309.241 0/0:379:378,1:378:13260:1:36:0,-110.492,-1189.63 0/0:443:442,0:442:15374:0:0:0,-133.055,-1383.09 0/0:217:216,1:216:7627:1:32:0,-62.1242,-683.279 0/0:357:356,1:356:12449:1:36:0,-103.869,-1116.67 0/1:274:155,119:155:5467:119:4094:-286.079,0,-409.682 0/1:300:146,154:146:5124:154:5436:-399.064,0,-370.998 0/1:38:15,23:15:513:23:808:-61.601,0,-35.0537 0/0:13:13,0:13:451:0:0:0,-3.91339,-40.9198 0/1:83:46,37:46:1601:37:1299:-92.225,0,-119.392 0/0:258:258,0:258:9097:0:0:0,-77.6657,-818.528 0/0:277:276,1:276:9615:1:36:0,-79.787,-861.723 0/1:519:279,239:279:9767:239:8317:-592.262,0,-722.692 0/1:155:73,82:73:2557:82:2892:-213.364,0,-183.719 0/0:265:264,1:264:9320:1:36:0,-76.1747,-835.134 0/1:204:99,105:99:3434:105:3681:-270.086,0,-247.866 0/1:128:86,41:86:2998:41:1437:-91.0331,0,-231.46 0/0:217:211,5:211:7386:5:180:0,-48.8302,-648.252 0/0:130:130,0:130:4573:0:0:0,-39.1339,-411.74 chr04 8275753 . A G 13075.3 PASS AB=0.494624;ABP=3.40724;AC=11;AF=0.261905;AN=42;AO=787;CIGAR=1X;DP=3232;DPB=3232;DPRA=1.11028;EPP=1711.96;EPPR=5312.26;GTI=0;LEN=1;MEANALT=1;MQM=59.9695;MQMR=59.9971;NS=21;NUMALT=1;ODDS=19.5532;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28034;QR=87197;RO=2445;RPL=0;RPP=1711.96;RPPR=5312.26;RPR=787;RUN=1;SAF=787;SAP=1711.96;SAR=0;SRF=2445;SRP=5312.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:201:103,98:103:3688:98:3478:-252.723,0,-271.616 0/1:133:50,83:50:1777:83:2961:-226.685,0,-120.174 0/1:138:68,70:68:2440:70:2493:-183.075,0,-178.313 0/0:199:199,0:199:7108:0:0:0,-59.905,-639.781 0/0:320:319,1:319:11402:1:36:0,-92.7313,-1022.46 0/0:207:207,0:207:7409:0:0:0,-62.3132,-666.854 0/0:183:183,0:183:6553:0:0:0,-55.0885,-589.85 0/1:178:107,71:107:3805:71:2540:-175.267,0,-289.065 0/1:294:138,156:138:4894:156:5530:-409.322,0,-352.111 0/1:17:8,9:8:288:9:320:-24.0248,0,-21.1499 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:46:30,16:30:1061:16:576:-38.3272,0,-81.952 0/0:201:201,0:201:7197:0:0:0,-60.507,-647.783 0/0:176:175,1:175:6161:1:32:0,-49.782,-551.387 0/1:283:142,141:142:5092:141:5045:-369.002,0,-373.231 0/1:140:68,72:68:2405:72:2580:-190.305,0,-174.562 0/0:144:143,1:143:5101:1:36:0,-39.75,-455.635 0/1:71:37,34:37:1328:34:1210:-87.8321,0,-98.4491 0/1:80:48,32:48:1697:32:1125:-77.4736,0,-128.932 0/0:155:153,2:153:5419:2:72:0,-39.8229,-481.005 0/0:59:59,0:59:2124:0:0:0,-17.7608,-191.428 chr04 8369068 . A G 35399.9 PASS AB=0.531963;ABP=14.6708;AC=29;AF=0.690476;AN=42;AO=1734;CIGAR=1X;DP=2457;DPB=2457;DPRA=1.16634;EPP=3768.34;EPPR=1568.64;GTI=1;LEN=1;MEANALT=1.1;MQM=59.5294;MQMR=59.9917;NS=21;NUMALT=1;ODDS=4.59271;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61503;QR=25848;RO=721;RPL=1734;RPP=3768.34;RPPR=1568.64;RPR=0;RUN=1;SAF=0;SAP=3768.34;SAR=1734;SRF=0;SRP=1568.64;SRR=721;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:149:1,147:1:36:147:5194:-463.925,-41.314,0 1/1:107:0,107:0:0:107:3805:-342.297,-32.2102,0 1/1:120:0,120:0:0:120:4285:-385.755,-36.1236,0 1/1:144:0,144:0:0:144:5106:-459.573,-43.3483,0 0/1:286:131,155:131:4695:155:5488:-407.809,0,-336.614 1/1:186:0,186:0:0:186:6594:-593.364,-55.9916,0 1/1:183:0,183:0:0:183:6509:-585.159,-55.0885,0 0/0:101:101,0:101:3601:0:0:0,-30.404,-324.291 0/1:199:97,102:97:3480:102:3613:-265.464,0,-253.506 0/1:9:1,8:1:36:8:284:-23.1941,0,-0.889005 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 0/1:37:19,18:19:684:18:644:-47.1432,0,-50.7522 0/1:159:89,70:89:3196:70:2479:-175.48,0,-239.999 0/1:113:60,53:60:2156:53:1890:-136.349,0,-160.291 0/1:182:78,104:78:2804:104:3679:-276.421,0,-197.812 0/1:92:32,60:32:1148:60:2144:-165.432,0,-75.9351 0/1:122:56,65:56:2008:65:2305:-170.868,0,-144.209 0/1:61:34,27:34:1216:27:960:-68.3534,0,-91.3837 0/1:54:17,37:17:612:37:1315:-102.394,0,-39.1578 1/1:115:5,110:5:176:110:3893:-334.354,-18.4334,0 1/1:34:0,34:0:0:34:1181:-106.57,-10.235,0 chr04 8369076 . A G 36177 PASS AB=0.537178;ABP=18.8334;AC=29;AF=0.690476;AN=42;AO=1750;CIGAR=1X;DP=2467;DPB=2467;DPRA=1.1835;EPP=3803.09;EPPR=1555.61;GTI=1;LEN=1;MEANALT=1.1;MQM=59.5011;MQMR=60;NS=21;NUMALT=1;ODDS=5.60289;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62560;QR=25539;RO=715;RPL=1750;RPP=3803.09;RPPR=1555.61;RPR=0;RUN=1;SAF=0;SAP=3803.09;SAR=1750;SRF=0;SRP=1555.61;SRR=715;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:148:1,147:1:36:147:5269:-470.596,-40.9542,0 1/1:107:0,107:0:0:107:3803:-342.049,-32.2102,0 1/1:121:0,121:0:0:121:4340:-390.627,-36.4246,0 1/1:147:0,146:0:0:146:5240:-471.257,-43.9504,0 0/1:287:131,156:131:4685:156:5588:-416.567,0,-335.414 1/1:182:0,182:0:0:182:6486:-583.682,-54.7875,0 1/1:186:0,186:0:0:186:6668:-599.559,-55.9916,0 0/0:100:100,0:100:3588:0:0:0,-30.103,-323.126 0/1:197:95,102:95:3355:102:3633:-267.864,0,-242.862 0/1:9:1,8:1:36:8:288:-23.5581,0,-0.889005 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:37:18,19:18:648:19:680:-50.3818,0,-47.5138 0/1:160:89,71:89:3192:71:2552:-181.724,0,-239.338 0/1:115:60,55:60:2125:55:1968:-142.279,0,-156.899 0/1:181:77,104:77:2764:104:3682:-277.062,0,-194.515 0/1:92:31,61:31:1116:61:2196:-170.12,0,-73.0569 0/1:122:56,66:56:1993:66:2375:-177.223,0,-142.916 0/1:63:34,28:34:1209:28:995:-70.9852,0,-90.2361 0/1:55:17,38:17:612:38:1356:-105.006,0,-38.8568 1/1:116:5,111:5:180:111:3954:-339.475,-18.3674,0 1/1:37:0,37:0:0:37:1307:-117.897,-11.1381,0 chr04 8452459 . T A 10124 PASS AB=0.382573;ABP=147.335;AC=23;AF=0.547619;AN=42;AO=601;CIGAR=1X;DP=1358;DPB=1358;DPRA=16.925;EPP=1308.07;EPPR=1646.81;GTI=2;LEN=1;MEANALT=1;MQM=59.9451;MQMR=59.8732;NS=21;NUMALT=1;ODDS=4.1808;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21544;QR=26803;RO=757;RPL=7;RPP=1247.97;RPPR=464.272;RPR=594;RUN=1;SAF=594;SAP=1247.97;SAR=7;SRF=178;SRP=464.272;SRR=579;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:77,35:77:2714:35:1256:-79.6158,0,-210.498 0/1:83:61,22:61:2192:22:792:-46.6202,0,-172.558 0/1:44:36,8:36:1292:8:288:-13.0217,0,-103.338 0/1:41:5,36:5:176:36:1292:-104.24,0,-3.84279 1/1:75:5,70:5:180:70:2512:-209.836,-6.08237,0 0/1:83:47,36:47:1665:36:1280:-90.5177,0,-125.136 0/1:139:77,62:77:2666:62:2228:-158.941,0,-198.336 0/1:95:77,18:77:2696:18:644:-29.6927,0,-214.282 0/1:77:53,24:53:1873:24:860:-54.5421,0,-145.668 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:38:32,6:32:1133:6:216:-8.35137,0,-90.8375 1/1:31:2,29:2:72:29:1044:-87.4381,-2.49521,0 1/1:43:2,41:2:57:41:1460:-126.28,-7.53098,0 0/1:139:89,50:89:3176:50:1796:-120.079,0,-244.219 0/1:43:28,15:28:1008:15:540:-35.9922,0,-78.0921 0/1:18:3,15:3:93:15:536:-43.1559,0,-3.2576 0/1:84:49,35:49:1760:35:1256:-88.058,0,-133.397 0/1:66:34,32:34:1216:32:1140:-83.0408,0,-89.8786 0/1:72:42,30:42:1485:30:1080:-75.8387,0,-112.264 0/1:62:26,36:26:917:36:1288:-97.5597,0,-64.1807 chr04 8452462 . A T 4851.73 PASS AB=0.295141;ABP=505.685;AC=16;AF=0.380952;AN=42;AO=416;CIGAR=1X;DP=1669;DPB=1669;DPRA=3.15962;EPP=906.343;EPPR=2723.87;GTI=3;LEN=1;MEANALT=1;MQM=59.976;MQMR=59.6409;NS=21;NUMALT=1;ODDS=0.544061;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14787;QR=44820;RO=1253;RPL=416;RPP=906.343;RPPR=2706.52;RPR=0;RUN=1;SAF=0;SAP=906.343;SAR=416;SRF=1251;SRP=2706.52;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:92,18:92:3289:18:648:-25.5248,0,-262.802 0/1:95:63,32:63:2264:32:1148:-75.032,0,-175.417 0/1:44:28,16:28:1004:16:572:-38.5681,0,-77.4247 0/0:57:53,4:53:1885:4:144:0,-3.84509,-156.611 0/0:105:104,1:104:3725:1:36:0,-28.0099,-331.846 0/1:100:57,43:57:2048:43:1517:-106.718,0,-154.489 0/1:186:111,75:111:3984:75:2680:-185.454,0,-302.756 0/1:96:66,30:66:2353:30:1065:-67.2609,0,-182.976 0/1:71:60,11:60:2140:11:366:-11.8854,0,-171.485 0/1:9:5,4:5:176:4:144:-10.6043,0,-13.4757 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:46:18,28:18:644:28:985:-75.1141,0,-44.4365 0/0:42:39,3:39:1381:3:104:0,-2.94045,-114.884 0/0:60:59,1:59:2116:1:36:0,-14.4635,-187.106 0/1:163:133,30:133:4776:30:1061:-46.7315,0,-380.909 0/1:48:42,6:42:1508:6:216:-5.34107,0,-121.558 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8379 0/1:148:119,29:119:4234:29:1044:-49.7224,0,-336.56 0/1:79:62,17:62:2220:17:597:-30.2748,0,-176.273 0/1:95:56,39:56:2008:39:1400:-97.7013,0,-152.38 0/1:84:59,25:59:2101:25:880:-54.2312,0,-164.071 chr04 8574626 . T C 0 PASS AB=0.388424;ABP=597.093;AC=20;AF=0.47619;AN=42;AO=2140;CIGAR=1X;DP=5576;DPB=5576;DPRA=0;EPP=4649.96;EPPR=7433.8;GTI=19;LEN=1;MEANALT=1.2381;MQM=14.685;MQMR=25.8324;NS=21;NUMALT=1;ODDS=52.6315;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76659;QR=122881;RO=3430;RPL=0;RPP=4649.96;RPPR=7451.16;RPR=2140;RUN=1;SAF=2140;SAP=4649.96;SAR=0;SRF=3428;SRP=7433.8;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:437:297,139:297:10660:139:4988:-52.2992,0,-560.398 0/1:314:206,108:206:7392:108:3880:-42.4188,0,-376.919 0/1:226:150,76:150:5364:76:2720:-34.4494,0,-287.628 0/1:337:235,101:235:8416:101:3620:-30.1454,0,-433.204 0/1:644:375,268:375:13436:268:9604:-157.458,0,-457.271 0/1:262:123,139:123:4408:139:4976:-111.783,0,-194.925 0/1:361:164,197:164:5884:197:7040:-143.773,0,-277.296 0/1:535:348,187:348:12440:187:6663:-87.713,0,-339.98 0/1:242:149,93:149:5328:93:3328:-41.8046,0,-170.813 0/0:82:76,6:76:2720:6:216:0,-15.7115,-92.2812 0/1:78:57,19:57:2048:19:680:-2.41216,0,-63.2931 0/1:186:148,38:148:5312:38:1364:-0.427747,0,-183.964 0/1:364:215,149:215:7724:149:5352:-75.251,0,-310.977 0/1:214:127,86:127:4552:86:3088:-44.7474,0,-237.741 0/1:277:182,95:182:6508:95:3404:-33.8544,0,-417.723 0/1:253:125,128:125:4484:128:4596:-84.9304,0,-249.332 0/1:276:164,112:164:5868:112:4012:-64.669,0,-334.639 0/1:127:89,38:89:3181:38:1364:-11.0782,0,-130.88 0/1:114:68,46:68:2432:46:1652:-24.4622,0,-109.549 0/1:156:77,79:77:2752:79:2824:-53.4988,0,-170.972 0/1:91:55,36:55:1972:36:1288:-17.617,0,-138.572 chr04 8574635 . TAGAGGGAGAGGT TGGAGGGAGAGGT,TAGAGAGAAGT 32720 PASS AB=0.341833,0.104059;ABP=1451.71,4766.16;AC=21,0;AF=0.5,0;AN=42;AO=2279,364;CIGAR=1M1X11M,4M2D4M1X2M;DP=6667;DPB=6608.69;DPRA=0,0;EPP=4951.8,793.426;EPPR=8604.21;GTI=3;LEN=1,11;MEANALT=4,4.72727;MQM=44.3295,28.0577;MQMR=23.226;NS=21;NUMALT=2;ODDS=11.7626;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=81305,10114;QR=139617;RO=3961;RPL=0,0;RPP=4951.8,793.426;RPPR=8604.21;RPR=2279,364;RUN=1,1;SAF=2279,364;SAP=4951.8,793.426;SAR=0,0;SRF=3961;SRP=8604.21;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:506:276,165,59:276:9763:165,59:5848,1664:-384.044,0,-458.131,-350.775,-391.422,-840.763 0/1:391:187,141,59:187:6629:141,59:5046,1617:-347.501,0,-277.535,-291.22,-207.371,-593.388 0/1:231:150,56,19:150:5303:56,19:1987,525:-113.897,0,-262.727,-122.486,-242.996,-396.297 0/1:413:229,176,0:229:8057:176,0:6286,0:-433.82,0,-397.728,-502.756,-450.71,-953.463 0/1:746:505,238,0:505:17778:238,0:8500,0:-528.206,0,-602.916,-680.226,-674.561,-1354.82 0/1:402:200,182,15:200:7011:182,15:6499,406:-459.753,0,-246.322,-491.801,-272.941,-788.373 0/1:448:265,127,52:265:9319:127,52:4548,1449:-283.846,0,-332.767,-262.763,-270.104,-618.05 0/1:474:312,75,85:312:11019:75,85:2700,2374:-122.294,0,-244.667,-50.7186,-101.669,-292.292 0/1:296:178,116,0:178:6282:116,0:4141,0:-277.61,0,-185.996,-331.193,-220.916,-552.143 0/1:23:17,4,2:17:604:4,2:144,56:-6.47753,0,-20.8908,-7.7329,-18.1907,-29.148 0/1:35:30,5,0:30:1068:5,0:180,0:-5.73012,0,-46.1607,-14.761,-47.6658,-62.0938 0/1:90:66,22,0:66:2322:22,0:788,0:-43.2631,0,-115.462,-63.1311,-122.084,-185.178 0/1:579:303,272,0:303:10714:272,0:9675,0:-682.386,0,-350.037,-773.598,-431.918,-1205.5 0/1:289:167,118,1:167:5836:118,1:4197,28:-285.29,0,-265.246,-333.614,-298.819,-634.099 0/1:341:242,93,0:242:8543:93,0:3313,0:-192.027,0,-466.87,-264.876,-494.865,-759.757 0/1:310:219,90,0:219:7719:90,0:3217,0:-191.525,0,-342.086,-257.451,-369.179,-626.659 0/1:385:197,133,50:197:6950:133,50:4737,1386:-319.588,0,-303.533,-282.36,-247.008,-610.828 0/1:157:87,58,12:87:3078:58,12:2072,329:-139.743,0,-107.461,-143.199,-102.163,-264.457 0/1:192:91,90,10:91:3182:90,10:3236,280:-231.749,0,-106.278,-239.669,-113.882,-370.008 0/1:234:147,86,0:147:5146:86,0:3039,0:-198.613,0,-231.62,-242.865,-257.508,-500.428 0/1:125:93,32,0:93:3294:32,0:1152,0:-64.618,0,-177.712,-92.6138,-187.345,-279.63 chr04 8574668 . CTGGA TTGGT 10920.3 PASS AB=0.280903;ABP=2478.89;AC=20;AF=0.47619;AN=42;AO=1789;CIGAR=1X3M1X;DP=6325;DPB=6325.6;DPRA=0;EPP=3887.77;EPPR=9839.78;GTI=6;LEN=5;MEANALT=1.28571;MQM=33.8172;MQMR=30.0309;NS=21;NUMALT=1;ODDS=2.95772;PAIRED=0;PAIREDR=0;PAO=3;PQA=104;PQR=0;PRO=0;QA=62411;QR=159655;RO=4530;RPL=1789;RPP=3887.77;RPPR=9839.78;RPR=0;RUN=1;SAF=1789;SAP=3887.77;SAR=0;SRF=4530;SRP=9839.78;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:454:320,134:320:11218:134:4684:-267.597,0,-590.164 0/1:334:253,81:253:8931:81:2815:-143.093,0,-487.214 0/1:212:135,77:135:4752:77:2695:-171.11,0,-218.406 0/1:416:289,127:289:10162:127:4430:-260.2,0,-582.612 0/1:746:523,223:523:18315:223:7789:-225.954,0,-891.981 0/1:383:323,60:323:11364:60:2089:-58.6675,0,-646.939 0/1:394:328,66:328:11563:66:2294:-77.5099,0,-537.93 0/0:387:265,121:265:9347:121:4214:0,-7.50313,-376.537 0/1:299:215,84:215:7604:84:2932:-68.2323,0,-406.286 0/1:21:10,11:10:353:11:396:-12.6928,0,-14.882 0/1:36:27,8:27:949:8:279:-13.7387,0,-32.4675 0/1:93:64,29:64:2266:29:1020:-60.9237,0,-107.454 0/1:581:425,155:425:15101:155:5449:-162.484,0,-875.297 0/1:288:208,79:208:7296:79:2739:-152.289,0,-395.841 0/1:346:198,147:198:6988:147:5154:-344.973,0,-327.478 0/1:311:218,92:218:7735:92:3172:-180.405,0,-348.771 0/1:340:258,82:258:9101:82:2888:-148.134,0,-495.229 0/1:145:97,48:97:3391:48:1680:-55.5069,0,-187.242 0/1:182:139,43:139:4945:43:1492:-46.2166,0,-293.514 0/1:234:165,69:165:5798:69:2347:-130.212,0,-295.861 0/1:123:70,53:70:2476:53:1853:-122.576,0,-112.068 chr04 8575465 . C T 55335.3 PASS AB=0.53569;ABP=18.9751;AC=31;AF=0.738095;AN=42;AO=2598;CIGAR=1X;DP=3279;DPB=3279;DPRA=0;EPP=5566.59;EPPR=1377.22;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9734;MQMR=59.9632;NS=21;NUMALT=1;ODDS=10.1927;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=92431;QR=24317;RO=680;RPL=9;RPP=5566.59;RPPR=1377.22;RPR=2589;RUN=1;SAF=0;SAP=5644.5;SAR=2598;SRF=0;SRP=1479.61;SRR=680;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:57,83:57:2010:83:2937:-222.418,0,-139.026 0/1:143:57,85:57:2044:85:3043:-230.994,0,-140.967 0/1:128:63,65:63:2268:65:2306:-169.267,0,-165.85 1/1:180:0,180:0:0:180:6374:-573.741,-54.1854,0 1/1:455:6,449:6:212:449:16010:-1421.13,-117.544,0 1/1:161:2,159:2:72:159:5627:-499.657,-41.6291,0 1/1:243:0,243:0:0:243:8643:-777.865,-73.1503,0 0/1:109:53,56:53:1900:56:1986:-146.199,0,-138.466 0/1:333:171,162:171:6121:162:5738:-416.293,0,-450.745 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:27:10,17:10:360:17:612:-47.2856,0,-24.6165 1/1:219:0,219:0:0:219:7807:-702.66,-65.9256,0 1/1:100:0,100:0:0:100:3566:-321.145,-30.103,0 0/1:196:88,108:88:3136:108:3867:-289.222,0,-223.462 0/1:196:100,96:100:3579:96:3384:-245.774,0,-263.315 1/1:257:1,256:1:36:256:9139:-818.883,-73.7664,0 0/1:91:35,56:35:1256:56:2008:-153.6,0,-85.9516 0/1:68:28,40:28:999:40:1425:-108.075,0,-69.7545 1/1:145:2,143:2:72:143:5090:-451.384,-36.8126,0 1/1:69:0,69:0:0:69:2441:-219.944,-20.7711,0 chr04 8655726 . A G 5406.79 PASS AB=0.507132;ABP=3.28905;AC=11;AF=0.261905;AN=42;AO=321;CIGAR=1X;DP=1250;DPB=1250;DPRA=1.15549;EPP=691.394;EPPR=2018.14;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9657;MQMR=59.9989;NS=21;NUMALT=1;ODDS=8.62401;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11480;QR=33261;RO=928;RPL=320;RPP=691.394;RPPR=2018.14;RPR=1;RUN=1;SAF=0;SAP=700.053;SAR=321;SRF=0;SRP=2018.14;SRR=928;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:29,24:29:1040:24:849:-60.7732,0,-77.9598 0/1:21:13,8:13:468:8:284:-19.5817,0,-36.138 0/1:63:27,35:27:956:35:1252:-93.9615,0,-67.3323 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/0:127:126,1:126:4509:1:36:0,-34.6325,-402.378 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 0/0:107:107,0:107:3832:0:0:0,-32.2102,-345.077 0/1:19:9,10:9:324:10:360:-27.0247,0,-23.7863 0/1:100:49,51:49:1749:51:1825:-134.41,0,-127.589 0/1:18:11,7:11:396:7:252:-17.6104,0,-30.5642 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:26:10,16:10:360:16:572:-43.9866,0,-24.9175 0/0:112:112,0:112:4019:0:0:0,-33.7154,-361.897 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.449 0/1:104:48,56:48:1728:56:2003:-149.236,0,-124.498 0/1:32:16,16:16:576:16:572:-42.1805,0,-42.542 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/1:144:62,82:62:2224:82:2935:-221.035,0,-157.076 0/1:51:36,15:36:1292:15:540:-33.584,0,-101.231 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 0/0:39:39,0:39:1388:0:0:0,-11.7402,-125.219 chr04 8655854 . 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T C 37988.6 PASS AB=0.543895;ABP=19.5954;AC=33;AF=0.785714;AN=42;AO=1793;CIGAR=1X;DP=2252;DPB=2252;DPRA=0;EPP=3896.46;EPPR=999.716;GTI=0;LEN=1;MEANALT=1;MQM=59.9816;MQMR=60;NS=21;NUMALT=1;ODDS=15.0012;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63781;QR=16299;RO=459;RPL=1792;RPP=3887.78;RPPR=999.716;RPR=1;RUN=1;SAF=1792;SAP=3887.78;SAR=1;SRF=459;SRP=999.716;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:52,60:52:1864:60:2152:-160.232,0,-134.324 0/1:67:31,36:31:1116:36:1284:-95.6862,0,-80.5827 0/1:86:29,57:29:1040:57:2048:-158.703,0,-68.0258 1/1:58:0,58:0:0:58:2053:-185.042,-17.4597,0 1/1:186:2,184:2:72:184:6532:-581.132,-49.1549,0 1/1:86:0,86:0:0:86:3068:-276.35,-25.8886,0 1/1:192:0,192:0:0:192:6826:-614.414,-57.7978,0 0/1:164:89,75:89:3164:75:2680:-192.076,0,-235.618 0/1:163:67,96:67:2373:96:3398:-256.969,0,-164.759 0/1:40:20,20:20:701:20:716:-52.7265,0,-51.3705 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:53:29,24:29:1032:24:864:-62.128,0,-77.2389 1/1:56:0,56:0:0:56:2008:-180.993,-16.8577,0 1/1:85:1,84:1:36:84:2975:-264.385,-21.9893,0 1/1:276:0,276:0:0:276:9851:-886.537,-83.0843,0 1/1:54:0,54:0:0:54:1923:-173.346,-16.2556,0 1/1:113:1,112:1:36:112:3987:-355.423,-30.4181,0 0/1:239:110,129:110:3869:129:4583:-340.692,0,-276.461 0/1:67:25,42:25:888:42:1468:-112.198,0,-60.07 1/1:107:2,105:2:72:105:3720:-328.165,-25.3735,0 1/1:41:1,40:1:36:40:1397:-122.427,-8.74396,0 chr04 9019765 . C A 25991.6 PASS AB=0.543408;ABP=13.1904;AC=33;AF=0.785714;AN=42;AO=1317;CIGAR=1X;DP=1603;DPB=1603;DPRA=0;EPP=2854.16;EPPR=613.225;GTI=0;LEN=1;MEANALT=1.04762;MQM=39.3204;MQMR=59.8947;NS=21;NUMALT=1;ODDS=11.8956;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46865;QR=10191;RO=285;RPL=1;RPP=2854.16;RPPR=613.225;RPR=1316;RUN=1;SAF=1317;SAP=2862.84;SAR=0;SRF=285;SRP=621.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:75,62:75:2683:62:2232:-149.54,0,-200.258 0/1:41:15,26:15:528:26:932:-64.5329,0,-35.5064 0/1:79:43,36:43:1544:36:1266:-86.6678,0,-115.472 1/1:52:0,52:0:0:52:1860:-160.817,-15.6536,0 1/1:168:1,167:1:36:167:5931:-505.399,-46.9748,0 1/1:85:0,85:0:0:85:3037:-249.341,-25.5876,0 1/1:120:0,120:0:0:120:4289:-352.325,-36.1236,0 0/1:62:31,31:31:1108:31:1097:-74.166,0,-81.3625 0/1:151:57,94:57:2040:94:3364:-247.818,0,-138.411 0/1:11:5,6:5:180:6:186:-12.4314,0,-13.2407 1/1:7:0,7:0:0:7:252:-21.3761,-2.10721,0 0/1:16:7,9:7:248:9:316:-22.3456,0,-17.8477 1/1:93:0,93:0:0:93:3313:-284.021,-27.9958,0 1/1:87:0,87:0:0:87:3105:-267.434,-26.1896,0 1/1:140:0,140:0:0:140:4990:-429.866,-42.1442,0 1/1:60:1,59:1:36:59:2093:-179.436,-14.4635,0 1/1:69:0,69:0:0:69:2441:-210.269,-20.7711,0 0/1:64:30,34:30:1076:34:1207:-82.7576,0,-77.8869 0/1:60:20,40:20:712:40:1425:-104.698,0,-46.3449 1/1:54:0,54:0:0:54:1896:-159.888,-16.2556,0 1/1:46:0,46:0:0:46:1633:-134.821,-13.8474,0 chr04 9019794 . GTTG GTA,GTAG 31805.5 PASS AB=0.551613,0.443548;ABP=17.356,20.1719;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1329,281;CIGAR=1M1D1M1X,2M1X1M;DP=1614;DPB=1281.5;DPRA=0,1.25964;EPP=2888.9,613.194;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.90476,2.26667;MQM=39.3115,59.5943;MQMR=0;NS=21;NUMALT=2;ODDS=5.9147;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46322,9950;QR=0;RO=0;RPL=1329,281;RPP=2888.9,613.194;RPPR=0;RPR=0,0;RUN=1,1;SAF=1329,281;SAP=2888.9,613.194;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:140:0,63,76:0:0:63,76:2168,2695:-385.857,-219.677,-200.712,-166.279,0,-143.401 1/2:41:0,26,14:0:0:26,14:919,500:-108.722,-40.8623,-33.0355,-67.9476,0,-63.7332 1/2:80:0,39,41:0:0:39,41:1350,1406:-220.255,-114.22,-102.48,-106.373,0,-94.0311 1/1:52:0,52,0:0:0:52,0:1848,0:-159.364,-15.6536,0,-159.364,-15.6536,-159.364 1/1:174:0,173,1:0:0:173,1:5974,36:-514.398,-52.0782,0,-511.461,-48.7809,-511.159 1/1:86:0,86,0:0:0:86,0:3004,0:-248.099,-25.8886,0,-248.099,-25.8886,-248.099 1/1:119:0,118,1:0:0:118,1:4124,36:-340.533,-35.5215,0,-337.786,-32.435,-337.485 1/2:62:0,31,30:0:0:31,30:1088,1049:-168.049,-85.4005,-76.0685,-82.7053,0,-73.6744 1/2:147:0,94,53:0:0:94,53:3330,1904:-418.212,-155.683,-127.386,-262.882,0,-246.928 1/2:10:0,6,4:0:0:6,4:216,144:-28.1906,-12.1095,-10.3033,-16.4296,0,-15.2255 1/1:7:0,7,0:0:0:7,0:238,0:-20.3884,-2.10721,0,-20.3884,-2.10721,-20.3884 1/2:16:0,9,7:0:0:9,7:309,248:-44.0803,-20.557,-17.8477,-23.8643,0,-21.7571 1/1:93:0,91,1:0:0:91,1:3154,36:-272.091,-27.3937,0,-269.38,-24.6139,-269.079 1/1:89:0,88,1:0:0:88,1:3030,32:-262.149,-26.4906,0,-259.571,-23.5924,-259.27 1/1:141:0,141,0:0:0:141,0:4930,0:-425.747,-42.4452,0,-425.747,-42.4452,-425.747 1/1:59:0,58,1:0:0:58,1:2016,36:-176.545,-17.4597,0,-173.607,-14.1625,-173.306 1/1:71:0,70,1:0:0:70,1:2442,36:-210.191,-21.0721,0,-207.443,-17.9855,-207.142 1/2:64:0,34,30:0:0:34,30:1184,1076:-178.27,-88.122,-77.8869,-90.4926,0,-81.4617 1/2:60:0,40,20:0:0:40,20:1422,716:-168.253,-58.7471,-46.7059,-109.857,0,-103.836 1/1:56:0,56,0:0:0:56,0:1945,0:-164.471,-16.8577,0,-164.471,-16.8577,-164.471 1/1:47:0,47,0:0:0:47,0:1631,0:-135.67,-14.1484,0,-135.67,-14.1484,-135.67 chr04 9019893 . AAAATT GAAATG,GCAATG 23192 PASS AB=0.544974,0.439153;ABP=9.6511,15.1659;AC=33,9;AF=0.785714,0.214286;AN=42;AO=913,166;CIGAR=1X4M1X,2X3M1X;DP=1099;DPB=1099.17;DPRA=0,0.699029;EPP=1942.37,354.841;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.33333,2.66667;MQM=59.9934,59.9096;MQMR=0;NS=21;NUMALT=2;ODDS=5.84204;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31902,5776;QR=0;RO=0;RPL=908,165;RPP=1942.37,354.841;RPPR=0;RPR=5,1;RUN=1,1;SAF=0,0;SAP=1985.56,363.475;SAR=913,166;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:76:0,40,36:0:0:40,36:1415,1271:-219.108,-103.856,-91.8147,-115.605,0,-104.768 1/2:31:0,20,11:0:0:20,11:693,379:-87.4533,-31.1294,-25.1088,-56.669,0,-53.3577 1/2:33:0,18,15:0:0:18,15:610,539:-93.7805,-44.3307,-38.9122,-49.7997,0,-45.2842 1/1:68:0,66,0:0:0:66,0:2334,0:-209.998,-19.868,0,-209.998,-19.868,-209.998 1/1:146:0,142,0:0:0:142,0:4970,0:-447.161,-42.7463,0,-447.161,-42.7463,-447.161 1/1:73:0,72,0:0:0:72,0:2505,0:-225.453,-21.6742,0,-225.453,-21.6742,-225.453 1/1:66:0,64,0:0:0:64,0:2215,0:-199.3,-19.2659,0,-199.3,-19.2659,-199.3 1/2:21:0,13,8:0:0:13,8:442,252:-56.4472,-20.5808,-16.6675,-36.1908,0,-33.7825 1/2:77:0,33,41:0:0:33,41:1149,1438:-210.474,-117.043,-107.109,-93.4483,0,-81.1061 1/2:8:0,7,1:0:0:7,1:244,35:-23.0401,-3.1976,-1.09039,-20.1922,0,-19.8912 1/1:4:0,4,0:0:0:4,0:140,0:-12.9446,-1.20412,0,-12.9446,-1.20412,-12.9446 1/2:4:0,1,3:0:0:1,3:32,101:-11.0945,-8.52028,-8.21925,-2.89828,0,-1.99519 1/1:72:0,72,0:0:0:72,0:2542,0:-229.033,-21.6742,0,-229.033,-21.6742,-229.033 1/1:47:0,46,0:0:0:46,0:1615,0:-145.277,-13.8474,0,-145.277,-13.8474,-145.277 1/1:62:0,61,0:0:0:61,0:2139,0:-192.478,-18.3628,0,-192.478,-18.3628,-192.478 1/1:41:0,41,0:0:0:41,0:1447,0:-130.525,-12.3422,0,-130.525,-12.3422,-130.525 1/1:54:0,53,0:0:0:53,0:1869,0:-168.127,-15.9546,0,-168.127,-15.9546,-168.127 1/2:70:0,36,32:0:0:36,32:1232,1098:-189.207,-89.2093,-78.3722,-100.06,0,-90.4269 1/2:58:0,38,19:0:0:38,19:1317,663:-160.954,-53.9148,-42.4757,-107.028,0,-101.309 1/1:43:0,43,0:0:0:43,0:1502,0:-135.472,-12.9443,0,-135.472,-12.9443,-135.472 1/1:45:0,43,0:0:0:43,0:1490,0:-134.042,-12.9443,0,-134.042,-12.9443,-134.042 chr04 9231387 . GTG GTC,GTT 25395.6 PASS AB=0.43459,0.557095;ABP=70.0515,54.0905;AC=21,21;AF=0.5,0.5;AN=42;AO=936,1039;CIGAR=2M1X,2M1X;DP=1991;DPB=1991;DPRA=3.26833,0;EPP=1172.5,718.248;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=2.45,2.38095;MQM=23.3964,24.1396;MQMR=24;NS=21;NUMALT=2;ODDS=5.20781;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33284,37136;QR=36;RO=1;RPL=823,810;RPP=1172.5,708.501;RPPR=5.18177;RPR=113,229;RUN=1,1;SAF=936,1037;SAP=2035.51,2241.83;SAR=0,2;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:75:0,25,50:0:0:25,50:900,1788:-134.933,-90.3606,-82.8349,-44.8049,0,-29.7534 1/2:59:1,18,39:1:36:18,39:644,1382:-102.751,-70.7947,-67.2112,-30.424,0,-20.5193 1/2:92:0,46,46:0:0:46,46:1634,1652:-167.093,-84.6506,-70.8033,-82.6777,0,-68.8303 1/2:60:0,30,29:0:0:30,29:1080,1041:-104.386,-50.9325,-41.9016,-53.5685,0,-44.8387 1/2:115:0,39,76:0:0:39,76:1383,2728:-202.761,-133.846,-122.106,-69.1444,0,-46.2661 1/2:78:0,54,22:0:0:54,22:1905,790:-139.415,-43.3782,-27.1226,-96.0732,0,-89.4505 1/2:59:0,23,30:0:0:23,30:815,1072:-94.1942,-54.3317,-47.408,-39.9142,0,-30.8833 2/2:30:0,0,30:0:0:0,30:0,1056:-63.6177,-63.6177,-63.6177,-9.0309,-9.0309,0 1/2:133:0,46,87:0:0:46,87:1640,3107:-239.11,-157.992,-144.144,-81.3494,0,-55.1598 1/1:157:0,152,4:0:0:152,4:5404,144:-311.058,-45.7566,0,-304.146,-38.7522,-302.942 1/2:175:0,56,117:0:0:56,117:1973,4167:-318.193,-214.543,-197.685,-103.746,0,-68.5251 1/2:99:0,58,41:0:0:58,41:2067,1476:-175.673,-74.2034,-56.7437,-101.701,0,-89.3584 1/2:236:0,117,119:0:0:117,119:4183,4274:-424.52,-217.036,-181.815,-207.718,0,-171.895 1/2:101:0,26,75:0:0:26,75:923,2657:-184.078,-137.076,-129.25,-47.2366,0,-24.6594 1/2:114:0,41,73:0:0:41,73:1455,2597:-200.226,-128.696,-116.353,-71.7587,0,-49.7835 1/2:73:0,28,45:0:0:28,45:990,1616:-127.141,-79.2505,-70.8217,-48.1155,0,-34.5691 1/2:72:0,46,24:0:0:46,24:1620,864:-123.644,-42.8198,-28.9724,-80.8309,0,-73.6061 1/2:81:0,52,29:0:0:52,29:1859,1029:-143.744,-52.3841,-36.7306,-91.5913,0,-82.8614 1/2:50:0,16,34:0:0:16,34:572,1224:-90.6665,-61.269,-56.4525,-29.6335,0,-19.3985 1/2:59:0,25,34:0:0:25,34:896,1216:-104.232,-59.9232,-52.3974,-44.5383,0,-34.3033 1/2:73:0,38,35:0:0:38,35:1341,1256:-133.335,-65.0634,-53.6242,-68.5075,0,-57.9714 chr04 9362440 . TCTA CCTT,CCTA 31271.9 PASS AB=0.494336,0.504634;ABP=3.2809,3.19144;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1014,493;CIGAR=1X2M1X,1X3M;DP=1511;DPB=1511;DPRA=0,1.28184;EPP=2204.88,1073.55;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.85714,2.14286;MQM=58.3195,59.7181;MQMR=0;NS=21;NUMALT=2;ODDS=4.6921;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35926,17519;QR=0;RO=0;RPL=1014,493;RPP=2204.88,1073.55;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2204.88,1073.55;SAR=1014,493;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,38,62:0:0:38,62:1351,2210:-290.172,-180.23,-168.791,-110.297,0,-91.6335 1/2:68:0,36,32:0:0:36,32:1275,1122:-195.429,-91.6489,-80.8119,-104.132,0,-94.4991 1/2:105:0,56,49:0:0:56,49:1998,1729:-302.695,-141.131,-124.274,-161.917,0,-147.167 1/2:62:0,32,30:0:0:32,30:1136,1076:-180.566,-88.1216,-78.4886,-92.8013,0,-83.7704 1/2:125:0,66,59:0:0:66,59:2345,2090:-361.441,-170.516,-150.648,-191.279,0,-173.519 1/2:83:0,34,49:0:0:34,49:1211,1756:-242.196,-143.573,-133.338,-98.9797,0,-84.2292 1/2:104:0,46,58:0:0:46,58:1634,2037:-298.587,-166.133,-152.286,-132.806,0,-115.346 1/2:60:0,33,27:0:0:33,27:1162,968:-173.903,-79.3096,-69.3756,-94.9491,0,-86.8213 1/2:108:0,47,61:0:0:47,61:1652,2175:-312.003,-177.622,-163.473,-134.735,0,-116.372 1/2:13:0,3,10:0:0:3,10:100,360:-37.7927,-29.734,-28.8309,-8.39726,0,-5.38696 1/1:4:0,4,0:0:0:4,0:137,0:-12.6306,-1.20412,0,-12.6306,-1.20412,-12.6306 1/1:50:0,50,0:0:0:50,0:1778,0:-160.248,-15.0515,0,-160.248,-15.0515,-160.248 1/1:77:0,77,0:0:0:77,0:2693,0:-241.602,-23.1793,0,-241.602,-23.1793,-241.602 1/1:81:0,81,0:0:0:81,0:2895,0:-260.602,-24.3834,0,-260.602,-24.3834,-260.602 1/1:121:0,119,0:0:0:119,0:4219,0:-379.141,-35.8226,0,-379.141,-35.8226,-379.141 1/1:51:0,51,0:0:0:51,0:1809,0:-162.991,-15.3525,0,-162.991,-15.3525,-162.991 1/2:27:0,14,12:0:0:14,12:494,432:-75.5523,-35.3321,-31.1176,-40.2977,0,-36.6853 1/2:52:0,29,23:0:0:29,23:1036,828:-151.716,-67.9204,-59.1906,-84.1527,0,-77.229 1/2:64:0,46,18:0:0:46,18:1611,632:-182.613,-51.7882,-37.9408,-131.175,0,-125.757 1/1:116:0,112,3:0:0:112,3:3979,104:-357.726,-33.7154,0,-349.273,-25.2617,-348.37 1/1:40:0,40,0:0:0:40,0:1411,0:-127.23,-12.0412,0,-127.23,-12.0412,-127.23 chr04 9371409 . TT GC 31068 PASS AB=0.477088;ABP=15.349;AC=23;AF=0.547619;AN=42;AO=1903;CIGAR=2X;DP=3878;DPB=3878;DPRA=0;EPP=4057.52;EPPR=4196.48;GTI=0;LEN=2;MEANALT=1.33333;MQM=45.2722;MQMR=58.8993;NS=21;NUMALT=1;ODDS=3.25151;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67120;QR=69253;RO=1967;RPL=9;RPP=4057.52;RPPR=4196.48;RPR=1894;RUN=1;SAF=0;SAP=4135.32;SAR=1903;SRF=0;SRP=4274.3;SRR=1967;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:58,62:58:2043:62:2169:-158.671,0,-148.017 0/1:142:68,73:68:2394:73:2541:-184.124,0,-172.909 0/1:206:82,123:82:2923:123:4380:-329.133,0,-201.234 0/1:144:55,88:55:1942:88:3085:-233.072,0,-131.64 0/1:160:69,91:69:2428:91:3205:-238.87,0,-170.599 0/1:103:46,57:46:1633:57:2016:-149.534,0,-116.251 0/1:224:78,146:78:2769:146:5149:-391.558,0,-182.017 0/1:287:143,141:143:4908:141:4953:-357.832,0,-356.051 1/1:351:0,351:0:0:351:12393:-889.566,-105.662,0 1/1:45:3,42:3:97:42:1495:-124.253,-4.49636,0 0/0:213:204,9:204:7165:9:316:0,-35.5951,-616.329 0/0:375:351,24:351:12420:24:835:0,-38.0862,-1042.83 0/1:103:64,39:64:2267:39:1371:-92.1445,0,-173.285 0/1:178:73,105:73:2527:105:3705:-277.436,0,-174.094 0/1:226:110,115:110:3922:115:4081:-296.915,0,-285.169 0/1:95:40,55:40:1392:55:1946:-110.958,0,-79.2112 0/1:95:34,61:34:1201:61:2131:-126.466,0,-64.4767 0/1:549:470,79:470:16538:79:2776:-82.6913,0,-1322.81 0/1:74:18,56:18:648:56:1958:-153.502,0,-36.3757 1/1:121:1,120:1:36:120:4276:-379.197,-32.8264,0 1/1:67:0,66:0:0:66:2339:-208.405,-19.868,0 chr04 9541130 . G A 134681 PASS AB=0.619913;ABP=291.521;AC=34;AF=0.809524;AN=42;AO=5070;CIGAR=1X;DP=5979;DPB=5979;DPRA=0;EPP=10986.3;EPPR=1957.37;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.998;MQMR=59.9934;NS=21;NUMALT=1;ODDS=46.6828;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=178978;QR=32250;RO=908;RPL=1570;RPP=1598.38;RPPR=152.478;RPR=3500;RUN=1;SAF=1573;SAP=1588.47;SAR=3497;SRF=331;SRP=147.734;SRR=577;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:297:141,156:141:5021:156:5496:-405.367,0,-362.632 0/1:188:102,86:102:3652:86:3030:-216.339,0,-272.291 0/1:180:90,90:90:3202:90:3184:-232.602,0,-234.215 1/1:222:1,221:1:36:221:7773:-696.018,-63.2304,0 1/1:371:0,370:0:0:370:12952:-1165.28,-111.381,0 1/1:179:2,177:2:72:177:6267:-557.293,-47.0476,0 1/1:199:1,198:1:36:198:6953:-622.251,-56.3067,0 0/1:223:126,97:126:4474:97:3406:-239.625,0,-335.695 0/1:392:204,188:204:7192:188:6603:-476.357,0,-529.336 1/1:522:19,503:19:684:503:17830:-1542.43,-95.2473,0 1/1:844:2,842:2:68:842:29891:-2682.85,-247.612,0 0/1:392:38,354:38:1348:354:12539:-1010.35,0,-3.61649 1/1:230:1,229:1:36:229:8055:-721.385,-65.6386,0 1/1:205:0,205:0:0:205:7198:-647.886,-61.7112,0 1/1:275:0,275:0:0:275:9717:-874.494,-82.7833,0 1/1:197:0,197:0:0:197:6883:-619.553,-59.3029,0 1/1:156:0,156:0:0:156:5511:-496.123,-46.9607,0 0/1:471:114,357:114:4046:357:12661:-997.54,0,-222.542 0/1:167:63,104:63:2248:104:3696:-282.571,0,-152.312 1/1:192:3,189:3:108:189:6660:-589.409,-47.7226,0 1/1:77:1,76:1:27:76:2673:-238.116,-20.4795,0 chr04 9541169 . C T 8242.13 PASS AB=0.415757;ABP=82.037;AC=7;AF=0.166667;AN=42;AO=578;CIGAR=1X;DP=4127;DPB=4127;DPRA=2.56719;EPP=1258.12;EPPR=7674.84;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9896;MQMR=59.9983;NS=21;NUMALT=1;ODDS=57.8755;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20633;QR=126630;RO=3545;RPL=578;RPP=1258.12;RPPR=7700.88;RPR=0;RUN=1;SAF=0;SAP=1258.12;SAR=578;SRF=3;SRP=7674.84;SRR=3542;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:76,94:76:2696:94:3376:-252.88,0,-191.711 0/1:97:39,58:39:1392:58:2073:-157.639,0,-96.3791 0/1:143:68,75:68:2436:75:2673:-197.767,0,-176.448 0/0:90:90,0:90:3232:0:0:0,-27.0927,-291.101 0/0:152:152,0:152:5437:0:0:0,-45.7566,-489.458 0/0:108:108,0:108:3849:0:0:0,-32.5112,-346.605 0/0:128:127,1:127:4502:1:36:0,-34.9336,-401.751 0/1:156:65,91:65:2332:91:3245:-245.31,0,-163.179 0/1:222:108,114:108:3868:114:4073:-299.927,0,-281.486 0/0:514:495,16:495:17702:16:576:0,-102.011,-1540.62 0/0:851:849,2:849:30347:2:72:0,-249.34,-2723.48 0/0:375:352,23:352:12613:23:809:0,-39.7579,-1061.87 0/0:88:87,1:87:3113:1:36:0,-22.8924,-276.794 0/0:114:114,0:114:4022:0:0:0,-34.3174,-362.168 0/0:147:147,0:147:5265:0:0:0,-44.2514,-473.984 0/0:75:75,0:75:2684:0:0:0,-22.5772,-241.805 0/0:78:78,0:78:2777:0:0:0,-23.4803,-250.17 0/1:409:339,69:339:12067:69:2453:-97.8435,0,-962.705 0/1:85:53,32:53:1888:32:1139:-77.23,0,-144.611 0/0:91:89,2:89:3192:2:72:0,-20.557,-280.666 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 chr04 9676823 . G A 49219.1 PASS AB=0.494393;ABP=3.27814;AC=33;AF=0.785714;AN=42;AO=2270;CIGAR=1X;DP=2776;DPB=2776;DPRA=0;EPP=4932.25;EPPR=1097.43;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.5938;MQMR=59.8552;NS=21;NUMALT=1;ODDS=23.8121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81186;QR=18002;RO=504;RPL=0;RPP=4932.25;RPPR=1097.43;RPR=2270;RUN=1;SAF=2270;SAP=4932.25;SAR=0;SRF=504;SRP=1097.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:55,44:55:1968:44:1572:-111.871,0,-147.592 0/1:112:56,56:56:2016:56:1978:-144.576,0,-147.898 0/1:152:70,82:70:2508:82:2936:-218.717,0,-180.216 1/1:154:0,154:0:0:154:5505:-494.237,-46.3586,0 1/1:324:4,320:4:144:320:11489:-1020.45,-84.221,0 1/1:92:0,92:0:0:92:3274:-294.813,-27.6948,0 1/1:232:4,228:4:129:228:8184:-724.298,-57.9113,0 0/1:113:51,62:51:1820:62:2216:-165.688,0,-130.065 0/1:259:138,121:138:4905:121:4321:-311.009,0,-363.625 0/1:19:9,10:9:320:10:360:-27.0247,0,-23.4156 1/1:9:0,9:0:0:9:320:-29.1368,-2.70927,0 0/1:28:18,10:18:648:10:360:-24.3155,0,-50.223 1/1:144:0,143:0:0:143:5128:-460.507,-43.0473,0 1/1:140:0,139:0:0:139:4960:-446.043,-41.8432,0 1/1:260:0,260:0:0:260:9293:-836.315,-78.2678,0 1/1:107:0,107:0:0:107:3836:-345.431,-32.2102,0 1/1:119:0,119:0:0:119:4223:-380.207,-35.8226,0 0/1:118:65,53:65:2324:53:1908:-136.465,0,-173.853 0/1:81:34,47:34:1220:47:1673:-126.465,0,-85.7234 1/1:133:0,133:0:0:133:4757:-427.778,-40.037,0 1/1:81:0,81:0:0:81:2893:-260.453,-24.3834,0 chr04 9747132 . T C 5024.58 PASS AB=0.556604;ABP=17.7599;AC=10;AF=0.238095;AN=42;AO=298;CIGAR=1X;DP=1516;DPB=1516;DPRA=0.592385;EPP=650.109;EPPR=2639.18;GTI=1;LEN=1;MEANALT=1.16667;MQM=60;MQMR=59.9638;NS=21;NUMALT=1;ODDS=5.34892;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10596;QR=43348;RO=1214;RPL=0;RPP=650.109;RPPR=2639.18;RPR=298;RUN=1;SAF=298;SAP=650.109;SAR=0;SRF=1214;SRP=2639.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:29,59:29:1044:59:2108:-163.499,0,-67.7842 0/1:34:16,17:16:572:17:612:-45.1196,0,-41.5198 0/1:69:30,39:30:1080:39:1376:-103.368,0,-74.9333 0/0:96:96,0:96:3448:0:0:0,-28.8989,-310.532 0/0:110:110,0:110:3920:0:0:0,-33.1133,-352.995 0/0:106:106,0:106:3804:0:0:0,-31.9092,-342.557 0/0:195:195,0:195:6969:0:0:0,-58.7008,-627.274 0/1:117:48,68:48:1692:68:2412:-182.206,0,-117.431 0/1:105:46,59:46:1648:59:2104:-158.021,0,-117 0/1:8:5,3:5:158:3:108:-7.66693,0,-12.1236 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:21:7,14:7:252:14:504:-39.3765,0,-16.7073 0/0:60:59,0:59:2111:0:0:0,-17.7608,-190.046 0/0:78:77,0:77:2683:0:0:0,-23.1793,-241.357 0/0:117:117,0:117:4195:0:0:0,-35.2205,-377.73 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/0:64:63,1:63:2264:1:36:0,-15.6676,-200.424 0/1:37:18,19:18:644:19:676:-50.0299,0,-47.1525 0/1:47:31,16:31:1104:16:552:-35.8572,0,-85.5222 0/0:75:73,2:73:2600:2:72:0,-15.7405,-227.412 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.898 chr04 9747300 . G C 31554.8 PASS AB=0.499102;ABP=3.0142;AC=33;AF=0.785714;AN=42;AO=1453;CIGAR=1X;DP=1740;DPB=1740;DPRA=0;EPP=3158.16;EPPR=621.88;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9621;MQMR=60;NS=21;NUMALT=1;ODDS=1.54707;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51882;QR=10195;RO=285;RPL=1453;RPP=3158.16;RPPR=621.88;RPR=0;RUN=1;SAF=0;SAP=3158.16;SAR=1453;SRF=0;SRP=621.88;SRR=285;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:40,27:40:1428:27:968:-67.2684,0,-108.649 0/1:58:32,26:32:1148:26:928:-66.3785,0,-86.1701 0/1:70:28,42:28:995:42:1504:-114.582,0,-68.7919 1/1:114:0,114:0:0:114:4070:-366.484,-34.3174,0 1/1:241:2,238:2:72:238:8502:-758.342,-65.7703,0 1/1:54:0,54:0:0:54:1932:-174.157,-16.2556,0 1/1:150:1,149:1:36:149:5340:-477.134,-41.5562,0 0/1:61:34,27:34:1212:27:961:-68.4386,0,-91.0235 0/1:143:77,66:77:2764:66:2365:-170.061,0,-205.954 0/1:12:4,8:4:144:8:288:-22.655,0,-9.70126 1/1:11:0,11:0:0:11:387:-35.1659,-3.31133,0 0/1:15:9,6:9:324:6:208:-14.5436,0,-24.9904 1/1:121:1,120:1:36:120:4278:-381.598,-32.8264,0 1/1:87:0,86:0:0:86:3046:-273.999,-25.8886,0 1/1:153:0,153:0:0:153:5466:-492.061,-46.0576,0 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 1/1:89:0,89:0:0:89:3188:-287.139,-26.7917,0 0/1:84:38,46:38:1364:46:1643:-122.871,0,-97.7742 0/1:47:17,30:17:600:30:1063:-81.8316,0,-40.1808 1/1:72:1,71:1:36:71:2517:-223.153,-18.0759,0 1/1:32:1,31:1:36:31:1112:-96.7931,-6.03469,0 chr04 9857210 . A T 7913.01 PASS AB=0.484909;ABP=4.97642;AC=9;AF=0.214286;AN=42;AO=488;CIGAR=1X;DP=2848;DPB=2848;DPRA=0.957523;EPP=1062.69;EPPR=5114.66;GTI=0;LEN=1;MEANALT=1.14286;MQM=52.543;MQMR=59.5895;NS=21;NUMALT=1;ODDS=28.5333;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17477;QR=84389;RO=2358;RPL=0;RPP=1062.69;RPPR=5114.66;RPR=488;RUN=1;SAF=488;SAP=1062.69;SAR=0;SRF=2358;SRP=5123.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:229:103,126:103:3689:126:4495:-334.297,0,-263.252 0/1:122:64,58:64:2285:58:2084:-150.449,0,-169.142 0/1:143:59,84:59:2101:84:3011:-227.047,0,-146.29 0/0:210:210,0:210:7457:0:0:0,-63.2163,-671.076 0/0:271:270,1:270:9674:1:36:0,-77.9877,-866.304 0/0:92:92,0:92:3300:0:0:0,-27.6948,-297.218 0/0:160:159,1:159:5712:1:36:0,-44.5756,-509.934 0/1:147:73,74:73:2590:74:2652:-193.886,0,-189.051 0/1:59:40,19:40:1432:19:684:-44.0363,0,-111.411 0/1:18:7,11:7:252:11:392:-29.9866,0,-17.6104 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:43:29,14:29:1040:14:500:-32.3299,0,-80.9701 0/0:99:99,0:99:3560:0:0:0,-29.802,-320.431 0/0:151:151,0:151:5402:0:0:0,-45.4555,-485.888 0/0:251:250,1:250:8943:1:36:0,-71.9671,-801.04 0/0:208:208,0:208:7446:0:0:0,-62.6142,-670.15 0/0:211:211,0:211:7558:0:0:0,-63.5173,-679.403 0/1:116:62,53:62:2216:53:1899:-135.525,0,-164.716 0/1:117:73,43:73:2624:43:1544:-103.274,0,-200.883 0/0:133:131,2:131:4700:2:72:0,-33.21,-416.312 0/0:62:61,1:61:2192:1:36:0,-15.0746,-193.903 chr04 9857267 . 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G A 28002.3 PASS AB=0.5311;ABP=8.27794;AC=33;AF=0.785714;AN=42;AO=1335;CIGAR=1X;DP=1634;DPB=1634;DPRA=0;EPP=2901.93;EPPR=632.854;GTI=1;LEN=1;MEANALT=1.04762;MQM=48.8397;MQMR=59.396;NS=21;NUMALT=1;ODDS=2.41669;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47354;QR=10555;RO=298;RPL=0;RPP=2901.93;RPPR=632.854;RPR=1335;RUN=1;SAF=0;SAP=2901.93;SAR=1335;SRF=0;SRP=650.109;SRR=298;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:39,60:39:1391:60:2117:-159.325,0,-95.6863 0/1:49:27,22:27:964:22:792:-56.066,0,-72.2905 0/1:75:47,28:47:1665:28:986:-64.5621,0,-127.544 1/1:60:0,60:0:0:60:2134:-191.119,-18.0618,0 1/1:168:1,167:1:36:167:5922:-526.325,-46.9748,0 1/1:66:0,66:0:0:66:2372:-211.195,-19.868,0 1/1:109:0,108:0:0:108:3842:-340.777,-32.5112,0 0/1:73:34,39:34:1198:39:1383:-101.656,0,-86.097 0/1:136:62,74:62:2171:74:2648:-196.668,0,-154.696 0/1:9:2,7:2:72:7:252:-19.8615,0,-4.12745 1/1:5:0,5:0:0:5:168:-15.2882,-1.50515,0 0/1:31:14,17:14:487:17:608:-45.3375,0,-34.7858 1/1:95:0,95:0:0:95:3365:-300.51,-28.5979,0 1/1:79:0,79:0:0:79:2812:-252.045,-23.7814,0 1/1:123:2,121:2:72:121:4259:-374.705,-30.19,0 1/1:71:0,71:0:0:71:2523:-226.401,-21.3731,0 1/1:116:0,116:0:0:116:4111:-368.847,-34.9195,0 0/1:89:45,44:45:1603:44:1559:-112.334,0,-117.707 0/1:66:24,42:24:860:42:1470:-111.973,0,-57.7191 1/1:74:0,74:0:0:74:2607:-231.656,-22.2762,0 1/1:41:1,40:1:36:40:1424:-122.734,-8.74396,0 chr04 9997620 . 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T C 5866.25 PASS AB=0.45568;ABP=16.6762;AC=9;AF=0.214286;AN=42;AO=370;CIGAR=1X;DP=1959;DPB=1959;DPRA=1.50345;EPP=797.793;EPPR=3449.14;GTI=0;LEN=1;MEANALT=1.16667;MQM=60;MQMR=59.9962;NS=21;NUMALT=1;ODDS=15.8541;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13158;QR=56794;RO=1587;RPL=1;RPP=797.793;RPPR=3449.14;RPR=369;RUN=1;SAF=0;SAP=806.455;SAR=370;SRF=0;SRP=3449.14;SRR=1587;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:70:33,37:33:1184:37:1308:-96.9489,0,-85.7962 0/1:112:64,47:64:2292:47:1674:-117.171,0,-172.767 0/1:115:55,60:55:1976:60:2150:-159.149,0,-143.496 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/0:211:208,3:208:7431:3:108:0,-53.4422,-658.754 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:156:156,0:156:5589:0:0:0,-46.9607,-503.13 0/1:97:50,47:50:1792:47:1679:-122.196,0,-132.363 0/1:152:86,66:86:3084:66:2345:-165.551,0,-232.031 0/1:14:7,6:7:252:6:212:-15.281,0,-18.8868 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:30:13,17:13:468:17:590:-44.393,0,-33.4287 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/0:88:88,0:88:3156:0:0:0,-26.4906,-284.265 0/0:232:231,1:231:8266:1:36:0,-66.2407,-740.348 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.261 0/0:159:159,0:159:5681:0:0:0,-47.8638,-511.408 0/1:155:87,68:87:3111:68:2431:-172.385,0,-233.557 0/1:56:39,17:39:1389:17:589:-36.4756,0,-108.449 0/0:32:32,0:32:1124:0:0:0,-9.63296,-101.465 0/0:63:62,1:62:2207:1:36:0,-15.3666,-195.296 chr04 10419763 . 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C T 5289.47 PASS AB=0.459945;ABP=13.0998;AC=9;AF=0.214286;AN=42;AO=339;CIGAR=1X;DP=2055;DPB=2055;DPRA=1.05742;EPP=739.139;EPPR=3729.26;GTI=0;LEN=1;MEANALT=1;MQM=59.5103;MQMR=59.8957;NS=21;NUMALT=1;ODDS=23.7834;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12105;QR=60000;RO=1716;RPL=339;RPP=739.139;RPPR=3711.91;RPR=0;RUN=1;SAF=339;SAP=739.139;SAR=0;SRF=1714;SRP=3711.91;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:67,40:67:2313:40:1436:-97.3275,0,-176.216 0/1:41:29,12:29:1005:12:432:-26.8612,0,-78.4163 0/1:111:56,55:56:1941:55:1959:-143.134,0,-141.55 0/0:98:98,0:98:3367:0:0:0,-29.5009,-303.237 0/0:198:195,3:195:6868:3:108:0,-49.5288,-608.124 0/0:121:121,0:121:4254:0:0:0,-36.4246,-382.876 0/0:142:142,0:142:4965:0:0:0,-42.7463,-446.953 0/1:120:58,62:58:2064:62:2203:-162.387,0,-149.908 0/1:200:93,107:93:3264:107:3822:-282.974,0,-233.721 0/1:35:23,12:23:809:12:432:-28.6851,0,-62.5923 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:28:17,11:17:573:11:396:-27.5539,0,-43.456 0/0:161:161,0:161:5687:0:0:0,-48.4658,-511.918 0/0:108:108,0:108:3729:0:0:0,-32.5112,-335.802 0/0:160:160,0:160:5635:0:0:0,-48.1648,-506.417 0/0:65:65,0:65:2259:0:0:0,-19.5669,-203.572 0/0:59:59,0:59:2076:0:0:0,-17.7608,-187.109 0/1:43:21,22:21:726:22:777:-57.3061,0,-52.7142 0/1:39:27,12:27:923:12:432:-27.481,0,-71.6376 0/0:183:180,3:180:6280:3:108:0,-45.0133,-555.22 0/0:31:31,0:31:1086:0:0:0,-9.33193,-98.0476 chr04 10778811 . T C 16446.5 PASS AB=0.490128;ABP=4.72518;AC=9;AF=0.214286;AN=42;AO=998;CIGAR=1X;DP=3331;DPB=3331;DPRA=3.47002;EPP=2170.14;EPPR=5064.71;GTI=2;LEN=1;MEANALT=1.16667;MQM=59.986;MQMR=59.9974;NS=21;NUMALT=1;ODDS=2.6489;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35569;QR=83268;RO=2331;RPL=0;RPP=2170.14;RPPR=5056.03;RPR=998;RUN=1;SAF=0;SAP=2170.14;SAR=998;SRF=1;SRP=5056.03;SRR=2330;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:58,38:58:2084:38:1364:-94.1618,0,-158.931 0/1:35:21,14:21:748:14:504:-35.162,0,-57.1092 0/1:37:17,20:17:608:20:720:-53.9907,0,-43.9139 0/0:16:16,0:16:568:0:0:0,-4.81648,-51.4519 0/0:65:65,0:65:2320:0:0:0,-19.5669,-209.061 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 0/0:108:108,0:108:3852:0:0:0,-32.5112,-346.877 0/1:100:61,38:61:2168:38:1360:-92.5389,0,-165.225 0/1:150:68,82:68:2425:82:2902:-216.251,0,-173.35 0/1:352:164,188:164:5873:188:6726:-499.445,0,-422.716 0/0:635:634,1:634:22638:1:36:0,-187.556,-2033.23 0/1:208:135,73:135:4824:73:2620:-173.433,0,-371.702 0/0:46:46,0:46:1629:0:0:0,-13.8474,-146.897 0/0:31:30,1:30:1080:1:36:0,-5.73365,-93.915 0/0:140:140,0:140:5012:0:0:0,-42.1442,-451.227 0/0:87:87,0:87:3100:0:0:0,-26.1896,-279.229 0/0:47:44,3:44:1576:3:108:0,-4.07324,-132.056 0/1:954:447,506:447:15943:506:17973:-1329.94,0,-1147.32 0/1:94:60,34:60:2144:34:1220:-81.81,0,-164.931 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 chr04 10778813 . C G 48246.2 PASS AB=0.517326;ABP=8.35261;AC=33;AF=0.785714;AN=42;AO=2390;CIGAR=1X;DP=3384;DPB=3384;DPRA=0;EPP=5192.83;EPPR=2159.28;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.9971;MQMR=59.9849;NS=21;NUMALT=1;ODDS=0.414924;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84817;QR=35462;RO=993;RPL=1;RPP=5184.15;RPPR=2159.28;RPR=2389;RUN=1;SAF=1;SAP=5184.15;SAR=2389;SRF=0;SRP=2159.28;SRR=993;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:37,58:37:1332:58:2059:-156.981,0,-91.5845 0/1:35:14,21:14:495:21:752:-57.4702,0,-34.347 0/1:40:22,18:22:792:18:644:-46.2494,0,-59.5645 1/1:17:0,17:0:0:17:602:-54.5097,-5.11751,0 1/1:71:0,71:0:0:71:2511:-226.24,-21.3731,0 1/1:50:0,50:0:0:50:1787:-161.113,-15.0515,0 1/1:109:0,109:0:0:109:3867:-348.225,-32.8123,0 0/1:101:38,63:38:1353:63:2231:-170.651,0,-91.6644 0/1:149:80,69:80:2868:69:2430:-174.101,0,-213.5 0/1:353:186,167:186:6645:167:5968:-430.962,0,-491.863 1/1:645:0,644:0:0:644:22811:-2052.04,-193.863,0 0/1:215:74,141:74:2656:141:4998:-385.249,0,-174.564 1/1:45:0,45:0:0:45:1594:-143.749,-13.5464,0 1/1:31:1,30:1:36:30:1071:-93.1033,-5.73366,0 1/1:143:0,143:0:0:143:5112:-460.222,-43.0473,0 1/1:90:0,90:0:0:90:3170:-285.524,-27.0927,0 1/1:50:3,47:3:108:47:1666:-140.151,-4.97633,0 0/1:965:504,461:504:17961:461:16327:-1178.62,0,-1325.61 0/1:96:34,62:34:1216:62:2210:-170.266,0,-80.8477 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 1/1:34:0,34:0:0:34:1211:-109.296,-10.235,0 chr04 10780198 . G A 22142.8 PASS AB=0.487119;ABP=3.62564;AC=33;AF=0.785714;AN=42;AO=1027;CIGAR=1X;DP=1250;DPB=1250;DPRA=0;EPP=2233.11;EPPR=485.077;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9873;MQMR=60;NS=21;NUMALT=1;ODDS=13.3074;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36561;QR=7887;RO=222;RPL=1027;RPP=2233.11;RPPR=485.077;RPR=0;RUN=1;SAF=0;SAP=2233.11;SAR=1027;SRF=0;SRP=485.077;SRR=222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:39,22:39:1396:22:788:-52.882,0,-107.576 0/1:40:12,28:12:428:28:1008:-78.9952,0,-26.8176 0/1:69:34,35:34:1212:35:1251:-92.1238,0,-88.6153 1/1:92:0,92:0:0:92:3288:-296.14,-27.6948,0 1/1:130:2,128:2:68:128:4546:-402.846,-32.6762,0 1/1:49:0,49:0:0:49:1756:-158.319,-14.7505,0 1/1:52:0,52:0:0:52:1841:-165.968,-15.6536,0 0/1:35:14,21:14:492:21:744:-56.7483,0,-34.0763 0/1:52:27,25:27:964:25:879:-63.7724,0,-71.4233 0/1:11:10,1:10:356:1:36:-0.286945,0,-29.0699 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:26:17,9:17:600:9:324:-21.6791,0,-46.5024 1/1:87:0,87:0:0:87:3101:-279.316,-26.1896,0 1/1:58:0,58:0:0:58:2058:-185.488,-17.4597,0 1/1:49:0,49:0:0:49:1729:-155.893,-14.7505,0 1/1:61:1,59:1:36:59:2116:-187.183,-14.7484,0 1/1:66:0,66:0:0:66:2357:-212.387,-19.868,0 0/1:81:47,34:47:1655:34:1216:-85.3631,0,-124.853 0/1:52:19,33:19:680:33:1180:-90.8545,0,-45.8756 1/1:128:0,128:0:0:128:4519:-406.878,-38.5318,0 1/1:43:0,43:0:0:43:1536:-138.533,-12.9443,0 chr04 10782711 . T C 19214.3 PASS AB=0.494444;ABP=3.10681;AC=33;AF=0.785714;AN=42;AO=885;CIGAR=1X;DP=1071;DPB=1071;DPRA=0;EPP=1924.76;EPPR=398.218;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9299;MQMR=60;NS=21;NUMALT=1;ODDS=0.71273;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31592;QR=6489;RO=182;RPL=0;RPP=1924.76;RPPR=398.218;RPR=885;RUN=1;SAF=885;SAP=1924.76;SAR=0;SRF=182;SRP=398.218;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:27,32:27:972:32:1152:-86.2294,0,-70.0371 0/1:26:19,7:19:684:7:252:-15.2022,0,-54.0635 0/1:58:30,28:30:1063:28:1004:-73.2055,0,-78.5211 1/1:86:0,85:0:0:85:3047:-274.099,-25.5876,0 1/1:90:0,90:0:0:90:3192:-287.481,-27.0927,0 1/1:28:0,27:0:0:27:949:-85.3633,-8.12781,0 1/1:71:0,70:0:0:70:2482:-223.274,-21.0721,0 0/1:50:30,20:30:1076:20:695:-47.8199,0,-82.1014 0/1:46:28,18:28:999:18:648:-44.8045,0,-76.3771 0/1:7:6,1:6:195:1:36:-1.49107,0,-15.7625 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 1/1:59:0,59:0:0:59:2090:-188.368,-17.7608,0 1/1:74:0,74:0:0:74:2648:-238.566,-22.2762,0 1/1:71:0,71:0:0:71:2552:-229.929,-21.3731,0 1/1:58:0,58:0:0:58:2088:-188.189,-17.4597,0 0/1:61:27,34:27:960:34:1216:-91.3837,0,-68.3534 0/1:48:13,35:13:468:35:1239:-97.3642,0,-28.0102 1/1:85:0,84:0:0:84:2990:-268.967,-25.2865,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 chr04 10985911 . T C 32228.3 PASS AB=0.516378;ABP=4.21946;AC=33;AF=0.785714;AN=42;AO=1481;CIGAR=1X;DP=1735;DPB=1735;DPRA=0;EPP=3218.96;EPPR=554.564;GTI=0;LEN=1;MEANALT=1;MQM=59.5253;MQMR=59.7677;NS=21;NUMALT=1;ODDS=6.36651;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52785;QR=9073;RO=254;RPL=1481;RPP=3218.96;RPPR=554.564;RPR=0;RUN=1;SAF=0;SAP=3218.96;SAR=1481;SRF=0;SRP=554.564;SRR=254;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:54,24:54:1928:24:860:-54.1527,0,-150.316 0/1:53:23,30:23:820:30:1057:-79.4159,0,-58.1679 0/1:57:11,46:11:396:46:1652:-131.81,0,-18.8217 1/1:181:0,181:0:0:181:6436:-577.978,-54.4864,0 1/1:182:1,181:1:36:181:6441:-576.17,-51.1902,0 1/1:50:0,50:0:0:50:1792:-161.537,-15.0515,0 1/1:162:0,162:0:0:162:5776:-519.754,-48.7669,0 0/1:55:36,19:36:1288:19:684:-45.3337,0,-99.6623 0/1:108:58,50:58:2072:50:1776:-127.609,0,-154.237 0/1:12:8,4:8:288:4:144:-9.69654,0,-22.6541 1/1:9:0,9:0:0:9:316:-28.7706,-2.70927,0 0/1:38:19,19:19:669:19:679:-49.9924,0,-49.0948 1/1:108:0,108:0:0:108:3869:-348.391,-32.5112,0 1/1:90:0,90:0:0:90:3200:-288.206,-27.0927,0 1/1:98:0,98:0:0:98:3508:-315.911,-29.5009,0 1/1:90:0,90:0:0:90:3219:-289.919,-27.0927,0 1/1:69:0,69:0:0:69:2443:-219.68,-20.7711,0 0/1:57:27,30:27:964:30:1051:-77.6086,0,-69.9043 0/1:61:15,46:15:540:46:1632:-128.574,0,-30.3451 1/1:120:1,119:1:36:119:4251:-378.696,-32.5253,0 1/1:57:1,56:1:36:56:1999:-176.584,-13.5604,0 chr04 10985913 . A G 4125.7 PASS AB=0.492366;ABP=3.27552;AC=9;AF=0.214286;AN=42;AO=262;CIGAR=1X;DP=1741;DPB=1741;DPRA=1.02895;EPP=571.936;EPPR=3214.62;GTI=0;LEN=1;MEANALT=1;MQM=59.6145;MQMR=59.5571;NS=21;NUMALT=1;ODDS=1.31397;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9338;QR=52855;RO=1479;RPL=262;RPP=571.936;RPPR=3214.62;RPR=0;RUN=1;SAF=0;SAP=571.936;SAR=262;SRF=0;SRP=3214.62;SRR=1479;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:22,54:22:784:54:1924:-150.472,0,-48.0033 0/1:55:31,24:31:1103:24:856:-60.8045,0,-82.373 0/1:57:47,10:47:1684:10:360:-15.5832,0,-134.688 0/0:179:177,2:177:6301:2:70:0,-47.2411,-560.371 0/0:184:183,1:183:6527:1:36:0,-51.7922,-583.273 0/0:50:50,0:50:1768:0:0:0,-15.0515,-159.37 0/0:163:163,0:163:5832:0:0:0,-49.0679,-524.911 0/1:57:19,38:19:680:38:1363:-105.808,0,-44.3705 0/1:108:50,58:50:1787:58:2064:-153.52,0,-128.598 0/1:13:4,9:4:144:9:324:-25.5915,0,-9.39551 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.4976 0/1:37:18,19:18:640:19:676:-50.0299,0,-46.7912 0/0:111:111,0:111:3984:0:0:0,-33.4143,-358.727 0/0:90:90,0:90:3210:0:0:0,-27.0927,-289.103 0/0:98:98,0:98:3524:0:0:0,-29.5009,-317.345 0/0:87:87,0:87:3116:0:0:0,-26.1896,-280.659 0/0:71:71,0:71:2552:0:0:0,-21.3731,-229.195 0/1:60:29,31:29:1032:31:1112:-82.1858,0,-74.3528 0/1:61:46,15:46:1635:15:517:-28.4448,0,-128.844 0/0:120:119,1:119:4252:1:36:0,-32.5253,-378.768 0/0:55:55,0:55:1976:0:0:0,-16.5566,-178.114 chr04 10985946 . GGCT GAAG,AACG 21517.2 PASS AB=0.587654,0.412346;ABP=30.0384,30.0384;AC=33,9;AF=0.785714,0.214286;AN=42;AO=855,168;CIGAR=1M3X,2X1M1X;DP=1026;DPB=1026;DPRA=0,1.08721;EPP=1859.62,367.818;EPPR=0;GTI=1;LEN=3,4;MEANALT=1.61905,2.1;MQM=54.0468,54.7143;MQMR=0;NS=21;NUMALT=2;ODDS=3.03991;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30045,5778;QR=0;RO=0;RPL=0,0;RPP=1859.62,367.818;RPPR=0;RPR=855,168;RUN=1,1;SAF=855,168;SAP=1859.62,367.818;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:72:0,40,32:0:0:40,32:1400,1100:-202.777,-89.5818,-77.5406,-113.541,0,-103.908 1/2:47:0,29,18:0:0:29,18:1007,621:-131.355,-50.457,-41.7271,-81.2413,0,-75.8228 1/2:41:0,26,15:0:0:26,15:905,525:-116.412,-42.9032,-35.0764,-73.8573,0,-69.3419 1/1:61:0,61,0:0:0:61,0:2161,0:-194.411,-18.3628,0,-194.411,-18.3628,-194.411 1/1:105:0,103,1:0:0:103,1:3663,35:-328.744,-31.0061,0,-325.898,-28.1253,-325.597 1/1:50:0,50,0:0:0:50,0:1752,0:-156.985,-15.0515,0,-156.985,-15.0515,-156.985 1/1:63:0,63,0:0:0:63,0:2189,0:-196.8,-18.9649,0,-196.8,-18.9649,-196.8 1/2:53:0,35,18:0:0:35,18:1188,635:-148.191,-51.9855,-41.4494,-96.5533,0,-91.1348 1/2:90:0,43,47:0:0:43,47:1490,1591:-250.139,-129.151,-116.206,-121.331,0,-107.182 1/2:4:0,2,2:0:0:2,2:64,72:-11.3559,-6.22497,-5.62291,-5.47042,0,-4.86836 1/1:9:0,9,0:0:0:9,0:322,0:-29.2343,-2.70927,0,-29.2343,-2.70927,-29.2343 1/2:8:0,6,2:0:0:6,2:201,68:-22.0966,-5.84886,-4.04268,-16.586,0,-15.984 1/1:55:0,55,0:0:0:55,0:1930,0:-173.283,-16.5567,0,-173.283,-16.5567,-173.283 1/1:51:0,50,0:0:0:50,0:1726,0:-153.655,-15.0515,0,-153.655,-15.0515,-153.655 1/1:91:0,91,0:0:0:91,0:3230,0:-290.094,-27.3937,0,-290.094,-27.3937,-290.094 1/1:44:0,44,0:0:0:44,0:1574,0:-141.801,-13.2453,0,-141.801,-13.2453,-141.801 1/1:32:0,32,0:0:0:32,0:1122,0:-100.856,-9.63296,0,-100.856,-9.63296,-100.856 1/2:57:0,33,24:0:0:33,24:1173,815:-161.634,-66.3355,-56.4015,-95.6437,0,-88.4189 1/2:33:0,24,9:0:0:24,9:855,316:-95.6887,-26.0499,-18.8252,-69.9909,0,-67.2816 1/1:37:0,37,0:0:0:37,0:1305,0:-117.34,-11.1381,0,-117.34,-11.1381,-117.34 1/1:23:0,22,0:0:0:22,0:788,0:-70.4335,-6.62266,0,-70.4335,-6.62266,-70.4335 chr04 11146443 . GTCGTTCTC GTCGCTCTT,ATCGCTCTT 57068.9 PASS AB=0.520127,0.458686;ABP=6.33192,17.0053;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2242,442;CIGAR=4M1X3M1X,1X3M1X3M1X;DP=2734;DPB=2734;DPRA=0,1.24575;EPP=4828.12,962.801;EPPR=0;GTI=0;LEN=9,9;MEANALT=3.66667,4.07692;MQM=59.6798,52.8507;MQMR=0;NS=21;NUMALT=2;ODDS=30.8196;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=78272,15436;QR=0;RO=0;RPL=5,0;RPP=4828.12,962.801;RPPR=0;RPR=2237,442;RUN=1,1;SAF=2242,442;SAP=4871.45,962.801;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:160:0,85,72:0:0:85,72:2920,2513:-441.049,-203.961,-178.374,-237.103,0,-215.428 1/2:86:0,50,34:0:0:50,34:1748,1181:-237.741,-95.5537,-80.5022,-142.209,0,-131.974 1/2:180:0,85,92:0:0:85,92:2968,3233:-503.524,-262.325,-236.738,-241.223,0,-213.529 1/1:99:0,97,0:0:0:97,0:3333,0:-299.951,-29.1999,0,-299.951,-29.1999,-299.951 1/1:195:0,187,0:0:0:187,0:6499,0:-584.656,-56.2926,0,-584.656,-56.2926,-584.656 1/1:146:0,144,0:0:0:144,0:5015,0:-451.137,-43.3483,0,-451.137,-43.3483,-451.137 1/1:208:0,201,2:0:0:201,2:7058,72:-634.898,-60.507,0,-629.039,-54.6482,-628.437 1/2:113:0,59,50:0:0:59,50:2052,1745:-308.328,-141.491,-123.73,-166.871,0,-151.82 1/2:231:0,121,104:0:0:121,104:4170,3623:-632.735,-294.046,-257.621,-338.712,0,-307.405 1/2:23:0,7,15:0:0:7,15:238,530:-62.4975,-43.2095,-41.1023,-19.3779,0,-14.8625 1/1:8:0,7,0:0:0:7,0:241,0:-21.7113,-2.10721,0,-21.7113,-2.10721,-21.7113 1/2:26:0,10,16:0:0:10,16:356,566:-75.4006,-46.3842,-43.3739,-29.3712,0,-24.5547 1/1:154:0,151,0:0:0:151,0:5272,0:-474.27,-45.4555,0,-474.27,-45.4555,-474.27 1/1:168:0,166,0:0:0:166,0:5743,0:-516.69,-49.971,0,-516.69,-49.971,-516.69 1/1:443:0,439,2:0:0:439,2:15465,71:-1391.05,-132.152,0,-1385.27,-126.381,-1384.67 1/1:98:0,96,0:0:0:96,0:3385,0:-304.591,-28.8989,0,-304.591,-28.8989,-304.591 1/1:136:0,129,4:0:0:129,4:4478,137:-402.357,-38.8329,0,-391.251,-27.7147,-390.047 1/2:69:0,36,33:0:0:36,33:1278,1131:-195.598,-91.459,-80.622,-104.486,0,-94.552 1/2:56:0,38,17:0:0:38,17:1333,599:-156.826,-48.3563,-36.9172,-108.46,0,-103.342 1/1:99:0,98,1:0:0:98,1:3450,35:-310.366,-29.5009,0,-307.522,-26.3074,-307.221 1/1:36:0,36,0:0:0:36,0:1270,0:-114.599,-10.8371,0,-114.599,-10.8371,-114.599 chr04 11290776 . C T 2333.07 PASS AB=0.484177;ABP=3.69747;AC=9;AF=0.214286;AN=42;AO=157;CIGAR=1X;DP=870;DPB=870;DPRA=0.971636;EPP=343.931;EPPR=1551.27;GTI=1;LEN=1;MEANALT=1;MQM=59.6369;MQMR=59.9818;NS=21;NUMALT=1;ODDS=3.09572;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5477;QR=25463;RO=713;RPL=157;RPP=343.931;RPPR=1551.27;RPR=0;RUN=1;SAF=0;SAP=343.931;SAR=157;SRF=0;SRP=1551.27;SRR=713;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:18,18:18:629:18:648:-47.801,0,-46.0967 0/1:43:16,27:16:576:27:915:-69.6922,0,-39.2307 0/1:18:7,11:7:248:11:361:-27.3886,0,-17.2457 0/0:46:45,1:45:1604:1:36:0,-10.2491,-141.052 0/0:90:88,2:88:3118:2:68:0,-20.635,-274.387 0/0:50:50,0:50:1762:0:0:0,-15.0515,-158.859 0/0:73:73,0:73:2605:0:0:0,-21.9752,-234.697 0/1:46:26,20:26:936:20:712:-50.5455,0,-70.7121 0/1:69:29,40:29:1032:40:1392:-104.806,0,-72.4224 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:10:3,7:3:108:7:248:-19.6492,0,-7.06487 0/0:44:44,0:44:1569:0:0:0,-13.2453,-141.5 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/1:36:21,15:21:752:15:536:-37.7239,0,-57.1692 0/1:53:39,14:39:1400:14:489:-28.3705,0,-110.316 0/0:39:38,1:38:1364:1:36:0,-8.14189,-119.462 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 chr04 11600320 . A T 4272.72 PASS AB=0.472272;ABP=6.74337;AC=9;AF=0.214286;AN=42;AO=270;CIGAR=1X;DP=1329;DPB=1329;DPRA=1.00794;EPP=589.308;EPPR=2296.09;GTI=0;LEN=1;MEANALT=1.25;MQM=53.6852;MQMR=59.8807;NS=21;NUMALT=1;ODDS=10.0508;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9664;QR=37773;RO=1056;RPL=0;RPP=589.308;RPPR=2296.09;RPR=270;RUN=1;SAF=270;SAP=589.308;SAR=0;SRF=1056;SRP=2296.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:44,44:44:1565:44:1576:-115.346,0,-114.649 0/1:44:12,31:12:428:31:1112:-86.7592,0,-25.5549 0/1:54:21,32:21:737:32:1148:-87.0743,0,-50.3366 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.499 0/0:114:112,2:112:4020:2:68:0,-27.8632,-355.519 0/0:65:65,0:65:2336:0:0:0,-19.5669,-209.722 0/0:97:97,0:97:3469:0:0:0,-29.1999,-312.419 0/1:103:53,50:53:1908:50:1780:-129.101,0,-140.991 0/1:79:39,39:39:1404:39:1392:-101.445,0,-102.819 0/1:8:4,4:4:144:4:144:-10.8799,0,-10.9054 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:18:6,12:6:216:12:432:-33.722,0,-14.372 0/0:109:109,0:109:3901:0:0:0,-32.8123,-351.266 0/0:61:61,0:61:2169:0:0:0,-18.3628,-195.473 0/0:91:91,0:91:3264:0:0:0,-27.3937,-293.873 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.49 0/0:41:39,2:39:1359:2:72:0,-5.84884,-116.109 0/1:92:53,39:53:1892:39:1400:-97.6772,0,-142.862 0/1:73:60,13:60:2137:13:468:-20.448,0,-170.616 0/0:48:46,2:46:1652:2:72:0,-7.62241,-142.141 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.561 chr04 11600368 . CCA CCC,ACC 26160.9 PASS AB=0.517304,0.480874;ABP=4.43817,4.7546;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1029,270;CIGAR=2M1X,1X1M1X;DP=1303;DPB=1304.33;DPRA=0,1.00449;EPP=2237.46,589.308;EPPR=7.35324;GTI=0;LEN=1,3;MEANALT=1.66667,2.08333;MQM=59.8639,53.6148;MQMR=60;NS=21;NUMALT=2;ODDS=8.84497;PAIRED=0,0;PAIREDR=0;PAO=1,2;PQA=0,68;PQR=0;PRO=1;QA=35522,8763;QR=50;RO=2;RPL=1029,270;RPP=2237.46,589.308;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=1029,270;SAP=2237.46,589.308;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,42,45:0:0:42,45:1441,1446:-233.407,-116.404,-103.76,-116.977,0,-103.43 1/2:40:0,11,29:0:0:11,29:392,971:-110.602,-78.6437,-75.3324,-32.3087,0,-23.5789 1/2:55:0,22,33:0:0:22,33:746,1048:-145.034,-84.5361,-77.9135,-60.8284,0,-50.8944 1/1:66:0,66,0:0:0:66,0:2352,0:-211.939,-19.868,0,-211.939,-19.868,-211.939 1/1:112:0,109,2:0:0:109,2:3698,72:-332.68,-32.8123,0,-326.81,-26.8691,-326.208 1/1:63:0,63,0:0:0:63,0:2181,0:-196.06,-18.9649,0,-196.06,-18.9649,-196.06 1/1:94:0,94,0:0:0:94,0:3196,0:-287.864,-28.2968,0,-287.864,-28.2968,-287.864 1/2:97:1,51,45:1:28:51,45:1796,1438:-259.336,-113.405,-100.27,-144.048,0,-132.719 1/2:81:0,40,41:0:0:40,41:1388,1382:-224.941,-112.113,-100.072,-113.17,0,-100.828 1/2:8:0,4,4:0:0:4,4:144,131:-22.6575,-10.8914,-9.68727,-12.1095,0,-10.9054 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:19:0,6,13:0:0:6,13:212,425:-51.8733,-34.5994,-32.7932,-17.6186,0,-13.7052 1/1:108:0,108,0:0:0:108,0:3720,0:-334.987,-32.5112,0,-334.987,-32.5112,-334.987 1/1:61:0,61,0:0:0:61,0:2091,0:-188.453,-18.3628,0,-188.453,-18.3628,-188.453 1/1:87:0,87,0:0:0:87,0:2992,0:-269.501,-26.1896,0,-269.501,-26.1896,-269.501 1/1:44:1,42,0:1:22:42,0:1446,0:-128.213,-10.9793,0,-128.514,-12.6433,-130.19 1/1:42:0,40,2:0:0:40,2:1413,69:-127.131,-12.0412,0,-121.741,-6.31649,-121.139 1/2:88:0,49,39:0:0:49,39:1682,1257:-237.952,-101.373,-86.6229,-136.91,0,-125.17 1/2:74:0,59,15:0:0:59,15:2024,452:-200.807,-36.4465,-18.6857,-164.67,0,-160.154 1/1:43:0,41,2:0:0:41,2:1419,72:-127.643,-12.3422,0,-121.777,-6.11726,-121.175 1/1:30:0,30,0:0:0:30,0:1045,0:-94.1675,-9.0309,0,-94.1675,-9.0309,-94.1675 chr04 11600384 . T A 2623.09 PASS AB=0.428266;ABP=23.8834;AC=8;AF=0.190476;AN=42;AO=203;CIGAR=1X;DP=1605;DPB=1605;DPRA=0.952991;EPP=443.819;EPPR=3038.73;GTI=1;LEN=1;MEANALT=1.33333;MQM=38.7044;MQMR=45.3405;NS=21;NUMALT=1;ODDS=8.15352;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7173;QR=49883;RO=1398;RPL=0;RPP=443.819;RPPR=3038.73;RPR=203;RUN=1;SAF=0;SAP=443.819;SAR=203;SRF=0;SRP=3038.73;SRR=1398;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:56,39:56:1981:39:1370:-88.8085,0,-147.206 0/0:29:29,0:29:1020:0:0:0,-8.72987,-88.7784 0/1:32:17,14:17:612:14:504:-32.6808,0,-45.2538 0/0:100:100,0:100:3579:0:0:0,-30.103,-316.985 0/0:202:198,3:198:7053:3:99:0,-51.9522,-617.04 0/0:66:66,0:66:2352:0:0:0,-19.868,-207.068 0/0:176:175,0:175:6260:0:0:0,-52.6802,-548.804 0/1:33:17,16:17:603:16:576:-39.407,0,-43.1451 0/1:66:31,35:31:1112:35:1240:-84.8528,0,-79.4607 0/1:5:4,1:4:144:1:36:-1.94934,0,-11.5989 0/0:22:22,0:22:784:0:0:0,-6.62266,-68.8818 0/1:18:12,6:12:432:6:216:-13.5812,0,-33.2603 0/0:177:177,0:177:6310:0:0:0,-53.2823,-557.707 0/0:28:28,0:28:991:0:0:0,-8.42884,-87.1302 0/0:126:126,0:126:4472:0:0:0,-37.9298,-397.99 0/0:69:69,0:69:2466:0:0:0,-20.7711,-219.318 0/0:50:50,0:50:1792:0:0:0,-15.0515,-158.878 0/1:93:47,46:47:1692:46:1634:-111.256,0,-121.05 0/1:125:81,43:81:2892:43:1498:-90.2374,0,-220.181 0/0:58:58,0:58:2080:0:0:0,-17.4597,-183.135 0/0:35:35,0:35:1256:0:0:0,-10.536,-110.386 chr04 12631516 . GGTCG CGCCG,CGTCG 75585 PASS AB=0.468476,0.527145;ABP=12.8675,10.3195;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2187,610;CIGAR=1X1M1X2M,1X4M;DP=2808;DPB=2809.8;DPRA=0,1.2227;EPP=4752.02,1318.94;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.09524,2.35714;MQM=57.262,59.859;MQMR=0;NS=21;NUMALT=2;ODDS=14.0938;PAIRED=0,0;PAIREDR=0;PAO=2.66667,2.66667;PQA=96,96;PQR=0;PRO=1;QA=76342,21691;QR=0;RO=0;RPL=1252,273;RPP=102.786,17.5912;RPPR=0;RPR=935,337;RUN=1,1;SAF=1252,272;SAP=102.786,18.5167;SAR=935,338;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:162:0,69,93:0:0:69,93:2421,3302:-466.338,-269.381,-248.61,-197.31,0,-169.314 1/2:121:0,37,83:0:0:37,83:1283,2959:-345.072,-241.276,-230.138,-103.862,0,-78.8767 1/2:131:0,64,66:0:0:64,66:2247,2354:-374.505,-191.888,-172.622,-182.611,0,-162.743 1/1:164:0,164,0:0:0:164,0:5761,0:-518.321,-49.3689,0,-518.321,-49.3689,-518.321 1/1:245:0,242,2:0:0:242,2:8346,72:-749.769,-72.8493,0,-743.894,-66.9963,-743.292 1/1:120:0,118,0:0:0:118,0:4096,0:-367.908,-35.5215,0,-367.908,-35.5215,-367.908 1/1:164:0,163,1:0:0:163,1:5686,36:-510.298,-49.0679,0,-507.361,-45.7706,-507.06 1/2:155:0,74,81:0:0:74,81:2612,2895:-448.676,-236.388,-214.112,-212.642,0,-188.258 1/2:174:0,70,104:0:0:70,104:2421,3692:-497.868,-301.175,-280.103,-197.042,0,-165.735 1/2:28:0,14,11:0:0:14,11:502,383:-72.0306,-31.1436,-26.9291,-40.8921,0,-37.5807 1/1:11:0,11,0:0:0:11,0:388,0:-35.1056,-3.31133,0,-35.1056,-3.31133,-35.1056 1/2:65:0,19,46:0:0:19,46:654,1644:-187.442,-134.396,-128.676,-53.3938,0,-39.5464 1/1:128:0,127,1:0:0:127,1:4450,36:-400.046,-38.2308,0,-397.108,-34.9336,-396.807 1/1:208:0,206,1:0:0:206,1:7223,36:-648.803,-62.0122,0,-645.866,-59.07,-645.565 1/1:179:0,179,0:0:0:179,0:6288,0:-565.531,-53.8844,0,-565.531,-53.8844,-565.531 1/1:97:0,97,0:0:0:97,0:3315,0:-298.184,-29.1999,0,-298.184,-29.1999,-298.184 1/1:89:0,88,0:0:0:88,0:3096,0:-278.371,-26.4906,0,-278.371,-26.4906,-278.371 1/2:135:0,70,65:0:0:70,65:2404,2274:-379.994,-185.291,-164.219,-194.998,0,-175.431 1/2:171:0,118,53:0:0:118,53:4159,1900:-493.466,-155.243,-119.722,-338.527,0,-322.572 1/1:155:0,154,0:0:0:154,0:5399,0:-485.301,-46.3586,0,-485.301,-46.3586,-485.301 1/1:106:0,103,3:0:0:103,3:3591,108:-321.507,-31.0061,0,-312.695,-22.0032,-311.792 chr04 12631526 . A G 51968.3 PASS AB=0.477598;ABP=7.58302;AC=33;AF=0.785714;AN=42;AO=1918;CIGAR=1X;DP=2473;DPB=2473;DPRA=0;EPP=14.3318;EPPR=69.252;GTI=0;LEN=1;MEANALT=1.04762;MQM=56.9056;MQMR=59.8267;NS=21;NUMALT=1;ODDS=11.5057;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67767;QR=19584;RO=554;RPL=1902;RPP=4030.08;RPPR=1180.09;RPR=16;RUN=1;SAF=993;SAP=8.24538;SAR=925;SRF=209;SRP=75.5077;SRR=345;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:86,67:86:3026:67:2379:-168.241,0,-226.466 0/1:66:45,21:45:1603:21:731:-45.7167,0,-124.691 0/1:125:64,61:64:2251:61:2146:-155.432,0,-165.217 1/1:159:1,158:1:36:158:5564:-497.041,-44.2655,0 1/1:236:2,234:2:72:234:8238:-733.326,-64.2064,0 1/1:50:0,50:0:0:50:1773:-159.041,-15.0515,0 1/1:77:0,77:0:0:77:2702:-242.272,-23.1793,0 0/1:147:78,69:78:2729:69:2452:-176.249,0,-201.59 0/1:166:102,64:102:3563:64:2271:-154.652,0,-270.912 0/1:27:10,17:10:356:17:603:-46.0203,0,-24.2511 1/1:11:0,11:0:0:11:396:-35.8246,-3.31133,0 0/1:64:45,19:45:1612:19:667:-41.0198,0,-126.099 1/1:124:1,123:1:36:123:4373:-389.866,-33.7294,0 1/1:205:1,203:1:36:203:7166:-639.698,-58.1715,0 1/1:172:0,172:0:0:172:6097:-548.706,-51.7772,0 1/1:94:0,94:0:0:94:3292:-296.242,-28.2968,0 1/1:86:0,86:0:0:86:3051:-274.681,-25.8886,0 0/1:137:68,69:68:2432:69:2456:-179.022,0,-177.884 0/1:164:50,114:50:1796:114:3974:-308.244,0,-112.523 1/1:152:0,152:0:0:152:5404:-485.933,-45.7566,0 1/1:58:1,57:1:36:57:2032:-177.634,-13.8615,0 chr04 12631543 . A G 5491.76 PASS AB=0.528846;ABP=7.52028;AC=9;AF=0.214286;AN=42;AO=331;CIGAR=1X;DP=1263;DPB=1263;DPRA=1.40324;EPP=721.768;EPPR=2026.82;GTI=0;LEN=1;MEANALT=1;MQM=59.7734;MQMR=53.6706;NS=21;NUMALT=1;ODDS=4.1334;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11728;QR=33367;RO=932;RPL=331;RPP=721.768;RPPR=2026.82;RPR=0;RUN=1;SAF=0;SAP=721.768;SAR=331;SRF=0;SRP=2026.82;SRR=932;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:30,36:30:1076:36:1278:-95.4537,0,-77.2069 0/1:61:20,41:20:716:41:1444:-111.893,0,-45.7914 0/1:80:41,39:41:1464:39:1384:-100.772,0,-107.641 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.45 0/0:78:78,0:78:2769:0:0:0,-23.4803,-247.217 0/0:51:51,0:51:1836:0:0:0,-15.3525,-164.516 0/0:77:77,0:77:2755:0:0:0,-23.1793,-246.546 0/1:82:42,40:42:1512:40:1420:-103.399,0,-111.194 0/1:75:25,50:25:892:50:1763:-136.375,0,-57.9935 0/1:25:17,8:17:612:8:288:-18.7393,0,-47.4322 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.8246 0/1:56:17,39:17:612:39:1383:-107.905,0,-38.4772 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.205 0/0:84:83,1:83:2968:1:36:0,-21.6882,-263.076 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.254 0/0:35:35,0:35:1245:0:0:0,-10.536,-111.324 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.727 0/1:98:48,50:48:1724:50:1780:-130.968,0,-124.882 0/1:81:54,27:54:1923:27:952:-61.581,0,-148.445 0/0:61:61,0:61:2179:0:0:0,-18.3628,-195.678 0/0:59:59,0:59:2124:0:0:0,-17.7608,-188.745 chr04 12646607 . T G 3025.29 PASS AB=0.297954;ABP=280.292;AC=7;AF=0.166667;AN=42;AO=255;CIGAR=1X;DP=2272;DPB=2272;DPRA=2.49571;EPP=539.5;EPPR=4382.87;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.5662;NS=21;NUMALT=1;ODDS=28.0429;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8741;QR=71494;RO=2017;RPL=8;RPP=489.429;RPPR=4059.02;RPR=247;RUN=1;SAF=6;SAP=505.847;SAR=249;SRF=38;SRP=4059.02;SRR=1979;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:33,24:33:1171:24:819:-56.8622,0,-88.5262 0/1:61:33,28:33:1171:28:970:-69.2474,0,-87.3239 0/1:47:19,28:19:676:28:960:-72.5593,0,-47.0172 0/0:49:49,0:49:1731:0:0:0,-14.7505,-156.066 0/0:164:163,1:163:5772:1:32:0,-46.1696,-516.249 0/0:90:90,0:90:3177:0:0:0,-27.0927,-286.139 0/0:67:67,0:67:2404:0:0:0,-20.169,-216.6 0/1:75:33,42:33:1167:42:1448:-108.034,0,-82.7453 0/1:73:24,49:24:843:49:1688:-130.226,0,-54.2128 0/0:154:142,12:142:5050:12:405:0,-9.58558,-417.571 0/0:429:427,2:427:15166:2:68:0,-122.684,-1356.88 0/0:178:172,6:172:6078:6:194:0,-35.8058,-529.322 0/0:50:50,0:50:1771:0:0:0,-15.0515,-159.669 0/0:46:46,0:46:1616:0:0:0,-13.8474,-145.722 0/0:72:72,0:72:2551:0:0:0,-21.6742,-229.059 0/0:54:54,0:54:1900:0:0:0,-16.2556,-171.271 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.962 0/1:424:377,47:377:13351:47:1605:-17.097,0,-1073.63 0/1:45:30,15:30:1064:15:516:-33.2198,0,-82.5206 0/0:40:39,1:39:1384:1:36:0,-8.44292,-121.127 0/0:41:41,0:41:1443:0:0:0,-12.3422,-130.157 chr04 12646610 . G A 44958.2 PASS AB=0.692211;ABP=258.447;AC=35;AF=0.833333;AN=42;AO=2032;CIGAR=1X;DP=2299;DPB=2299;DPRA=0;EPP=4415.44;EPPR=565.552;GTI=1;LEN=1;MEANALT=1;MQM=59.6029;MQMR=60;NS=21;NUMALT=1;ODDS=30.6049;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71967;QR=9416;RO=267;RPL=37;RPP=4099.92;RPPR=507.255;RPR=1995;RUN=1;SAF=37;SAP=4099.92;SAR=1995;SRF=7;SRP=523.586;SRR=260;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:26,32:26:915:32:1121:-83.73,0,-65.2058 0/1:67:31,36:31:1071:36:1257:-93.2475,0,-76.5252 0/1:48:29,19:29:1032:19:667:-45.9028,0,-78.744 1/1:49:0,49:0:0:49:1745:-157.323,-14.7505,0 1/1:163:1,162:1:36:162:5755:-514.453,-45.4696,0 1/1:92:0,92:0:0:92:3275:-294.96,-27.6948,0 1/1:68:0,68:0:0:68:2415:-217.582,-20.47,0 0/1:81:45,36:45:1597:36:1288:-91.8263,0,-119.635 0/1:73:49,24:49:1728:24:838:-53.7611,0,-133.827 1/1:153:12,141:12:428:141:4986:-409.288,-7.19878,0 1/1:431:2,429:2:72:429:15234:-1363.63,-122.907,0 1/1:184:6,178:6:216:178:6326:-549.608,-35.599,0 1/1:50:0,50:0:0:50:1775:-160.029,-15.0515,0 1/1:46:0,46:0:0:46:1627:-146.713,-13.8474,0 1/1:71:0,71:0:0:71:2509:-226.058,-21.3731,0 1/1:55:0,55:0:0:55:1938:-174.688,-16.5567,0 1/1:58:0,58:0:0:58:2043:-184.134,-17.4597,0 0/1:423:50,373:50:1761:373:13166:-1057.29,0,-31.4358 0/1:46:15,31:15:528:31:1103:-85.7277,0,-34.004 1/1:40:1,39:1:32:39:1392:-122.241,-8.84189,0 1/1:43:0,43:0:0:43:1507:-135.911,-12.9443,0 chr04 12646655 . TTTT CTTC,CTTT 49338.4 PASS AB=0.699239,0.298223;ABP=274.709,281.675;AC=35,7;AF=0.833333,0.166667;AN=42;AO=2026,255;CIGAR=1X2M1X,1X3M;DP=2286;DPB=2286;DPRA=0,2.1606;EPP=4402.41,556.736;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.7619,2.45455;MQM=59.5286,60;MQMR=0;NS=21;NUMALT=2;ODDS=30.7954;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71881,9110;QR=0;RO=0;RPL=2026,255;RPP=4402.41,556.736;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4402.41,556.736;SAR=2026,255;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:53:0,29,24:0:0:29,24:1013,864:-153.246,-70.8578,-62.128,-82.7435,0,-75.5187 1/2:52:0,29,23:0:0:29,23:1025,828:-151.382,-67.9204,-59.1906,-83.818,0,-76.8943 1/2:49:0,19,30:0:0:19,30:673,1065:-141.95,-87.1289,-81.4093,-55.175,0,-46.1441 1/1:49:0,49,0:0:0:49,0:1734,0:-156.333,-14.7505,0,-156.333,-14.7505,-156.333 1/1:163:0,163,0:0:0:163,0:5771,0:-519.478,-49.0679,0,-519.478,-49.0679,-519.478 1/1:85:0,85,0:0:0:85,0:3021,0:-272.104,-25.5876,0,-272.104,-25.5876,-272.104 1/1:69:0,69,0:0:0:69,0:2429,0:-218.812,-20.7711,0,-218.812,-20.7711,-218.812 1/2:82:0,37,45:0:0:37,45:1312,1599:-237.525,-130.652,-119.514,-107.228,0,-93.682 1/2:73:0,24,49:0:0:24,49:857,1745:-212.452,-142.582,-135.357,-70.2268,0,-55.4764 1/1:156:0,143,12:0:0:143,12:5070,417:-455.731,-43.0473,0,-421.831,-9.1583,-418.219 1/1:440:0,437,1:0:0:437,1:15515,36:-1394.5,-131.55,0,-1391.56,-128.613,-1391.26 1/1:185:0,179,6:0:0:179,6:6377,216:-573.635,-53.8844,0,-556.01,-35.9,-554.204 1/1:50:0,50,0:0:0:50,0:1797,0:-162.008,-15.0515,0,-162.008,-15.0515,-162.008 1/1:47:0,47,0:0:0:47,0:1651,0:-148.874,-14.1484,0,-148.874,-14.1484,-148.874 1/1:68:0,68,0:0:0:68,0:2418,0:-217.501,-20.47,0,-217.501,-20.47,-217.501 1/1:48:0,48,0:0:0:48,0:1703,0:-153.552,-14.4494,0,-153.552,-14.4494,-153.552 1/1:55:0,55,0:0:0:55,0:1949,0:-175.683,-16.5567,0,-175.683,-16.5567,-175.683 1/2:433:0,382,49:0:0:382,49:13549,1764:-1247.35,-143.933,-28.94,-1103.41,0,-1088.66 1/2:46:0,31,15:0:0:31,15:1106,540:-134.576,-44.4211,-35.0892,-90.5141,0,-85.9987 1/1:40:0,39,1:0:0:39,1:1396,36:-125.441,-11.7402,0,-122.503,-8.44293,-122.202 1/1:43:0,43,0:0:0:43,0:1515,0:-136.634,-12.9443,0,-136.634,-12.9443,-136.634 chr04 12698375 . GCTAGT GCCAGC 6550.29 PASS AB=0.454139;ABP=19.3425;AC=9;AF=0.214286;AN=42;AO=414;CIGAR=2M1X2M1X;DP=2018;DPB=2018;DPRA=1.5002;EPP=867.592;EPPR=3338.66;GTI=1;LEN=6;MEANALT=2.07692;MQM=59.9831;MQMR=60;NS=21;NUMALT=1;ODDS=10.7217;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14522;QR=54059;RO=1564;RPL=410;RPP=867.592;RPPR=3338.66;RPR=4;RUN=1;SAF=0;SAP=902;SAR=414;SRF=0;SRP=3399.19;SRR=1564;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:39,48:39:1324:48:1686:-125.533,0,-92.9646 0/1:36:25,11:25:843:11:389:-24.5106,0,-65.3435 0/1:203:99,102:99:3452:102:3592:-262.623,0,-250.033 0/0:162:160,1:160:5523:1:36:0,-45.1575,-493.69 0/0:157:153,4:153:5312:4:144:0,-33.9481,-464.918 0/0:105:105,0:105:3620:0:0:0,-31.6081,-326.016 0/0:106:106,0:106:3663:0:0:0,-31.9092,-329.882 0/1:165:95,67:95:3226:67:2324:-160.296,0,-241.448 0/1:117:61,52:61:2132:52:1815:-129.292,0,-157.814 0/1:30:14,9:14:499:9:317:-21.5964,0,-37.972 0/0:9:4,0:4:136:0:0:0,-1.20412,-12.2262 0/1:59:24,31:24:836:31:1082:-80.7716,0,-58.6427 0/0:114:113,1:113:3860:1:36:0,-30.7191,-344.01 0/0:119:116,0:116:4027:0:0:0,-34.9195,-362.32 0/0:136:134,0:134:4714:0:0:0,-40.338,-424.069 0/0:17:17,0:17:589:0:0:0,-5.11751,-53.3347 0/0:53:52,0:52:1802:0:0:0,-15.6536,-162.101 0/1:103:50,51:50:1722:51:1811:-132.556,0,-124.549 0/1:92:53,35:53:1821:35:1218:-83.0849,0,-137.337 0/0:104:102,2:102:3540:2:72:0,-24.4704,-311.982 0/0:42:42,0:42:1418:0:0:0,-12.6433,-127.914 chr04 12699058 . T C 29259.8 PASS AB=0.524922;ABP=6.47383;AC=33;AF=0.785714;AN=42;AO=1365;CIGAR=1X;DP=1676;DPB=1676;DPRA=0;EPP=2967.07;EPPR=676.167;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9861;MQMR=59.9032;NS=21;NUMALT=1;ODDS=11.5843;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48640;QR=11110;RO=310;RPL=0;RPP=2967.07;RPPR=676.167;RPR=1365;RUN=1;SAF=1365;SAP=2967.07;SAR=0;SRF=310;SRP=676.167;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:28,35:28:1008:35:1246:-93.4796,0,-72.0715 0/1:53:25,28:25:892:28:986:-73.0976,0,-64.6451 0/1:77:47,30:47:1683:30:1067:-73.1619,0,-128.577 1/1:96:0,96:0:0:96:3440:-309.813,-28.8989,0 1/1:139:4,134:4:144:134:4792:-418.144,-28.5005,0 1/1:44:0,44:0:0:44:1563:-140.961,-13.2453,0 1/1:81:0,81:0:0:81:2904:-261.595,-24.3834,0 0/1:99:44,55:44:1576:55:1943:-145.342,0,-112.33 0/1:62:29,33:29:1044:33:1180:-87.8442,0,-75.6109 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:6:0,6:0:0:6:208:-19.0591,-1.80618,0 0/1:49:27,22:27:972:22:765:-54.4173,0,-73.0474 1/1:84:1,83:1:36:83:2976:-264.474,-21.6882,0 1/1:134:0,134:0:0:134:4783:-430.614,-40.338,0 1/1:184:0,184:0:0:184:6557:-590.211,-55.3895,0 1/1:54:0,54:0:0:54:1918:-172.896,-16.2556,0 1/1:81:0,81:0:0:81:2892:-260.516,-24.3834,0 0/1:155:78,77:78:2787:77:2751:-201.172,0,-204.04 0/1:79:23,56:23:824:56:1965:-153.342,0,-50.7019 1/1:79:0,79:0:0:79:2815:-253.59,-23.7814,0 1/1:52:0,52:0:0:52:1853:-167.049,-15.6536,0 chr04 12699074 . A G 5817.48 PASS AB=0.473684;ABP=6.89609;AC=9;AF=0.214286;AN=42;AO=312;CIGAR=1X;DP=1691;DPB=1691;DPRA=0.91437;EPP=424.192;EPPR=1356.17;GTI=0;LEN=1;MEANALT=1;MQM=59.9038;MQMR=59.9833;NS=21;NUMALT=1;ODDS=13.9878;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11133;QR=49257;RO=1379;RPL=33;RPP=424.192;RPPR=1356.17;RPR=279;RUN=1;SAF=312;SAP=680.51;SAR=0;SRF=1379;SRP=2997.47;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:37,29:37:1317:29:1028:-72.9651,0,-98.9619 0/1:55:29,26:29:1008:26:932:-67.6422,0,-74.4714 0/1:76:30,46:30:1076:46:1644:-125.37,0,-74.2746 0/0:95:95,0:95:3395:0:0:0,-28.5978,-305.765 0/0:140:136,4:136:4888:4:144:0,-28.8306,-426.754 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/0:82:82,0:82:2932:0:0:0,-24.6845,-264.115 0/1:97:54,43:54:1914:43:1528:-108.613,0,-143.33 0/1:62:34,28:34:1205:28:992:-70.9305,0,-90.09 0/1:6:1,5:1:36:5:165:-13.3674,0,-1.79209 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:52:23,29:23:813:29:1044:-78.6212,0,-57.8355 0/0:89:88,1:88:3126:1:36:0,-23.1934,-277.966 0/0:135:135,0:135:4825:0:0:0,-40.639,-434.39 0/0:184:184,0:184:6581:0:0:0,-55.3895,-592.37 0/0:56:56,0:56:1985:0:0:0,-16.8577,-178.923 0/0:80:80,0:80:2864:0:0:0,-24.0824,-257.997 0/1:153:76,77:76:2736:77:2756:-201.597,0,-200.424 0/1:79:56,23:56:2001:23:828:-51.0627,0,-156.58 0/0:81:81,0:81:2900:0:0:0,-24.3834,-261.236 0/0:54:53,1:53:1899:1:36:0,-12.6573,-167.588 chr04 12699242 . A C 25874.2 PASS AB=0.504587;ABP=3.12983;AC=33;AF=0.785714;AN=42;AO=1215;CIGAR=1X;DP=1547;DPB=1547;DPRA=0;EPP=2641.35;EPPR=721.768;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.977;MQMR=60;NS=21;NUMALT=1;ODDS=8.90679;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43289;QR=11826;RO=331;RPL=3;RPP=2615.36;RPPR=704.501;RPR=1212;RUN=1;SAF=3;SAP=2615.36;SAR=1212;SRF=2;SRP=704.501;SRR=329;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:14,16:14:500:16:572:-42.7825,0,-36.3053 0/1:20:15,5:15:525:5:176:-10.1644,0,-41.5575 0/1:126:73,53:73:2624:53:1878:-131.368,0,-198.477 1/1:93:0,93:0:0:93:3317:-298.747,-27.9958,0 1/1:121:2,119:2:72:119:4225:-373.592,-29.5879,0 1/1:40:2,38:2:72:38:1341:-114.151,-5.20448,0 1/1:81:0,81:0:0:81:2891:-260.426,-24.3834,0 0/1:86:47,39:47:1664:39:1400:-100.411,0,-124.156 0/1:165:88,77:88:3155:77:2759:-198.881,0,-234.504 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:28:11,17:11:383:17:608:-46.6232,0,-26.3744 1/1:139:1,138:1:36:138:4935:-440.702,-38.2449,0 1/1:112:0,112:0:0:112:3991:-359.374,-33.7154,0 1/1:86:0,86:0:0:86:3058:-275.449,-25.8886,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 1/1:26:0,26:0:0:26:917:-82.8446,-7.82678,0 0/1:120:48,72:48:1724:72:2563:-194.796,0,-119.322 0/1:69:24,44:24:855:44:1568:-120.582,0,-56.4407 1/1:138:2,136:2:72:136:4863:-430.984,-34.7054,0 1/1:32:1,31:1:36:31:1079:-93.8167,-6.03469,0 chr04 12699264 . C T 24844.3 PASS AB=0.501548;ABP=3.02375;AC=33;AF=0.785714;AN=42;AO=1182;CIGAR=1X;DP=1512;DPB=1512;DPRA=0;EPP=2517.84;EPPR=708.765;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9763;MQMR=59.9878;NS=21;NUMALT=1;ODDS=9.20346;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41601;QR=11794;RO=329;RPL=1176;RPP=2517.84;RPPR=708.765;RPR=6;RUN=1;SAF=0;SAP=2569.69;SAR=1182;SRF=0;SRP=717.425;SRR=329;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:12,15:12:432:15:525:-39.4502,0,-31.0934 0/1:22:15,7:15:536:7:248:-16.0415,0,-41.9522 0/1:122:71,51:71:2548:51:1794:-125.013,0,-192.845 1/1:84:0,84:0:0:84:2967:-267.26,-25.2865,0 1/1:122:2,120:2:72:120:4224:-373.503,-29.8889,0 1/1:39:2,37:2:72:37:1324:-112.625,-4.90345,0 1/1:82:0,82:0:0:82:2884:-259.792,-24.6845,0 0/1:89:47,42:47:1684:42:1500:-108.503,0,-125.055 0/1:164:89,75:89:3204:75:2650:-189.375,0,-239.213 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:29:11,18:11:396:18:610:-46.4858,0,-27.2529 1/1:136:0,135:0:0:135:4713:-424.118,-40.6391,0 1/1:111:0,111:0:0:111:3930:-353.763,-33.4143,0 1/1:83:0,83:0:0:83:2908:-261.953,-24.9855,0 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 1/1:24:0,24:0:0:24:856:-77.3611,-7.22472,0 0/1:117:48,69:48:1728:69:2457:-186.163,0,-120.585 0/1:66:26,40:26:906:40:1395:-105.973,0,-61.9806 1/1:129:2,127:2:72:127:4396:-388.976,-31.9961,0 1/1:31:1,30:1:36:30:1076:-93.5546,-5.73366,0 chr04 12864448 . A T 10828.7 PASS AB=0.570776;ABP=12.539;AC=33;AF=0.785714;AN=42;AO=503;CIGAR=1X;DP=598;DPB=598;DPRA=0;EPP=1095.26;EPPR=200.706;GTI=1;LEN=1;MEANALT=1;MQM=59.7594;MQMR=60;NS=21;NUMALT=1;ODDS=2.72655;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17944;QR=3404;RO=95;RPL=0;RPP=1095.26;RPPR=200.706;RPR=503;RUN=1;SAF=0;SAP=1095.26;SAR=503;SRF=0;SRP=209.3;SRR=95;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:12,10:12:428:10:360:-26.1216,0,-32.2361 0/1:10:3,7:3:104:7:252:-20.014,0,-6.69251 0/1:23:7,16:7:252:16:576:-45.2489,0,-16.1053 1/1:17:0,17:0:0:17:597:-54.0561,-5.11751,0 1/1:62:0,62:0:0:62:2220:-200.015,-18.6639,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 0/1:30:14,16:14:504:16:568:-42.4163,0,-36.6672 0/1:64:28,36:28:1004:36:1278:-95.9857,0,-71.4099 0/1:6:2,4:2:72:4:140:-11.1368,0,-5.03054 1/1:8:0,8:0:0:8:284:-25.8917,-2.40824,0 0/1:10:1,9:1:36:9:320:-26.1321,0,-0.587975 1/1:50:0,50:0:0:50:1788:-161.203,-15.0515,0 1/1:19:0,19:0:0:19:684:-61.888,-5.71957,0 1/1:49:0,49:0:0:49:1748:-157.581,-14.7505,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:31:16,15:16:576:15:519:-37.7015,0,-42.8431 0/1:23:11,12:11:392:12:432:-32.2966,0,-28.6964 1/1:39:1,38:1:36:38:1346:-117.84,-8.1419,0 1/1:24:0,24:0:0:24:852:-76.9985,-7.22472,0 chr04 12971395 . G A 7424.74 PASS AB=0.517202;ABP=5.2515;AC=9;AF=0.214286;AN=42;AO=455;CIGAR=1X;DP=3171;DPB=3171;DPRA=0.936445;EPP=991.03;EPPR=5900.73;GTI=0;LEN=1;MEANALT=1;MQM=59.8923;MQMR=60;NS=21;NUMALT=1;ODDS=7.99589;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16251;QR=97372;RO=2716;RPL=455;RPP=991.03;RPPR=5900.73;RPR=0;RUN=1;SAF=0;SAP=991.03;SAR=455;SRF=0;SRP=5900.73;SRR=2716;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:25,21:25:896:21:752:-54.1589,0,-67.113 0/1:147:83,64:83:2980:64:2279:-161.12,0,-224.18 0/1:145:51,94:51:1836:94:3359:-258.873,0,-121.871 0/0:284:284,0:284:10216:0:0:0,-85.4925,-919.36 0/0:499:497,2:497:17852:2:72:0,-143.377,-1599.44 0/0:148:148,0:148:5280:0:0:0,-44.5524,-475.338 0/0:204:204,0:204:7312:0:0:0,-61.4101,-658.129 0/1:121:55,66:55:1968:66:2368:-176.953,0,-140.97 0/1:126:53,73:53:1900:73:2594:-195.779,0,-133.348 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:34:9,25:9:320:25:887:-69.9093,0,-18.9073 0/0:203:203,0:203:7276:0:0:0,-61.1091,-654.891 0/0:96:96,0:96:3452:0:0:0,-28.8989,-310.891 0/0:199:199,0:199:7096:0:0:0,-59.905,-638.703 0/0:168:168,0:168:6040:0:0:0,-50.573,-543.7 0/0:178:178,0:178:6364:0:0:0,-53.5833,-572.851 0/1:111:51,60:51:1828:60:2144:-159.679,0,-131.387 0/1:131:91,40:91:3248:40:1436:-90.1004,0,-253.107 0/0:238:236,2:236:8476:2:72:0,-64.8084,-756.001 0/0:76:76,0:76:2712:0:0:0,-22.8783,-244.324 chr04 12975357 . C T 27173.5 PASS AB=0.492;ABP=3.28825;AC=33;AF=0.785714;AN=42;AO=1250;CIGAR=1X;DP=1508;DPB=1508;DPRA=0;EPP=2717.35;EPPR=563.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9224;MQMR=60;NS=21;NUMALT=1;ODDS=12.7587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44692;QR=9256;RO=258;RPL=0;RPP=2717.35;RPPR=563.25;RPR=1250;RUN=1;SAF=1250;SAP=2717.35;SAR=0;SRF=258;SRP=563.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:42,59:42:1496:59:2101:-158.954,0,-104.531 0/1:54:24,30:24:864:30:1080:-81.2576,0,-61.8269 0/1:65:36,29:36:1296:29:1040:-74.3474,0,-97.377 1/1:92:0,92:0:0:92:3312:-298.292,-27.6948,0 1/1:214:3,211:3:108:211:7542:-668.585,-54.3453,0 1/1:76:0,76:0:0:76:2720:-245.043,-22.8783,0 1/1:93:0,93:0:0:93:3336:-300.457,-27.9958,0 0/1:37:18,19:18:644:19:679:-50.3007,0,-47.1525 0/1:141:85,56:85:3052:56:1978:-135.846,0,-232.464 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 1/1:96:0,96:0:0:96:3417:-307.741,-28.8989,0 1/1:100:0,100:0:0:100:3553:-319.979,-30.103,0 1/1:77:1,76:1:36:76:2720:-241.445,-19.581,0 1/1:50:0,50:0:0:50:1780:-160.211,-15.0515,0 1/1:62:0,62:0:0:62:2228:-200.755,-18.6639,0 0/1:32:18,14:18:644:14:504:-36.0651,0,-48.6576 0/1:52:20,32:20:720:32:1150:-88.1556,0,-49.4752 1/1:88:0,88:0:0:88:3156:-284.265,-26.4906,0 1/1:56:0,56:0:0:56:2004:-180.633,-16.8577,0 chr04 13028081 . T A,G 51897.9 PASS AB=0.57289,0.42711;ABP=39.0978,39.0978;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2069,342;CIGAR=1X,1X;DP=2411;DPB=2411;DPRA=24.06,0.877588;EPP=4495.79,745.654;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.55,1.91667;MQM=59.7801,59.9825;MQMR=0;NS=21;NUMALT=2;ODDS=1.30261;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=73022,11907;QR=0;RO=0;RPL=0,0;RPP=4495.79,745.654;RPPR=0;RPR=2069,342;RUN=1,1;SAF=0,0;SAP=4495.79,745.654;SAR=2069,342;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,91,74:0:0:91,74:3205,2567:-469.853,-209.002,-181.608,-261.2,0,-238.924 1/2:60:0,35,25:0:0:35,25:1247,883:-173.897,-72.2617,-61.7257,-101.99,0,-94.4641 1/2:104:0,66,38:0:0:66,38:2334,1330:-298.656,-108.557,-88.6895,-190.449,0,-179.01 1/1:233:0,233,0:0:0:233,0:8203,0:-738.239,-70.14,0,-738.239,-70.14,-738.239 1/1:230:0,229,1:0:0:229,1:8086,36:-727.384,-68.9359,0,-724.446,-65.6386,-724.145 1/1:161:0,160,1:0:0:160,1:5642,36:-507.526,-48.1648,0,-504.588,-44.8676,-504.287 1/1:239:0,239,0:0:0:239,0:8474,0:-762.58,-71.9462,0,-762.58,-71.9462,-762.58 1/2:106:0,66,40:0:0:66,40:2337,1364:-301.38,-111.01,-91.1418,-190.716,0,-178.674 1/2:195:0,99,96:0:0:99,96:3480,3385:-559.2,-275.966,-246.164,-283.586,0,-254.687 2/2:5:0,0,5:0:0:0,5:0,180:-16.5521,-16.5521,-16.5521,-1.50515,-1.50515,0 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/2:26:0,13,13:0:0:13,13:460,460:-75.2857,-37.822,-33.9086,-37.8174,0,-33.904 1/1:124:0,124,0:0:0:124,0:4365,0:-393.004,-37.3277,0,-393.004,-37.3277,-393.004 1/1:178:0,178,0:0:0:178,0:6215,0:-559.446,-53.5833,0,-559.446,-53.5833,-559.446 1/1:119:0,119,0:0:0:119,0:4230,0:-380.878,-35.8226,0,-380.878,-35.8226,-380.878 1/1:76:0,76,0:0:0:76,0:2707,0:-243.867,-22.8783,0,-243.867,-22.8783,-243.867 1/1:103:0,103,0:0:0:103,0:3634,0:-327.264,-31.0061,0,-327.264,-31.0061,-327.264 1/2:66:0,38,28:0:0:38,28:1352,952:-187.743,-77.5577,-66.1185,-110.532,0,-102.103 1/2:60:0,40,20:0:0:40,20:1424,678:-171.385,-55.313,-43.2718,-116.416,0,-110.396 1/1:122:0,121,1:0:0:121,1:4248,36:-382.113,-36.4246,0,-379.18,-33.1325,-378.879 1/1:34:0,34,0:0:0:34,0:1203,0:-108.385,-10.235,0,-108.385,-10.235,-108.385 chr04 13028087 . GTGGTCG ATTGTCC,ATTGTCG 51394.1 PASS AB=0.564895,0.425216;ABP=32.603,42.3089;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2130,352;CIGAR=1X1M1X3M1X,1X1M1X4M;DP=2500;DPB=2500;DPRA=24.95,1.07393;EPP=4628.25,767.369;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.35,2.75;MQM=59.7695,59.9943;MQMR=0;NS=21;NUMALT=2;ODDS=0.236285;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72974,12190;QR=0;RO=0;RPL=0,0;RPP=4628.25,767.369;RPPR=0;RPR=2130,352;RUN=1,1;SAF=0,0;SAP=4628.25,767.369;SAR=2130,352;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:170:0,93,76:0:0:93,76:3154,2543:-461.65,-205.927,-177.931,-255.749,0,-232.871 1/2:64:0,37,27:0:0:37,27:1267,945:-180.071,-77.2344,-66.0963,-103.183,0,-95.0555 1/2:109:0,68,41:0:0:68,41:2356,1424:-307.592,-116.11,-95.64,-191.829,0,-179.487 1/1:240:0,239,0:0:0:239,0:8262,0:-743.293,-71.9462,0,-743.293,-71.9462,-743.293 1/1:239:0,236,1:0:0:236,1:8058,36:-724.959,-71.0431,0,-722.021,-68.079,-721.72 1/1:169:0,167,1:0:0:167,1:5699,28:-512.739,-50.272,0,-510.521,-48.0783,-510.22 1/1:250:0,249,1:0:0:249,1:8564,36:-770.417,-74.9565,0,-767.48,-71.6592,-767.179 1/2:107:0,64,40:0:0:64,40:2177,1407:-291.134,-114.553,-95.2874,-176.596,0,-164.555 1/2:203:0,103,98:0:0:103,98:3545,3409:-565.102,-277.208,-246.202,-287.921,0,-258.42 2/2:5:0,0,5:0:0:0,5:0,178:-16.3686,-16.3686,-16.3686,-1.50515,-1.50515,0 1/1:5:0,5,0:0:0:5,0:178,0:-16.3686,-1.50515,0,-16.3686,-1.50515,-16.3686 1/2:26:0,13,13:0:0:13,13:451,468:-75.1967,-38.5463,-34.6329,-37.0037,0,-33.0903 1/1:127:0,125,0:0:0:125,0:4312,0:-387.912,-37.6288,0,-387.912,-37.6288,-387.912 1/1:183:0,180,0:0:0:180,0:6086,0:-547.588,-54.1854,0,-547.588,-54.1854,-547.588 1/1:124:0,123,0:0:0:123,0:4185,0:-376.548,-37.0267,0,-376.548,-37.0267,-376.548 1/1:79:0,79,0:0:0:79,0:2734,0:-246.302,-23.7814,0,-246.302,-23.7814,-246.302 1/1:108:0,108,0:0:0:108,0:3680,0:-331.414,-32.5112,0,-331.414,-32.5112,-331.414 1/2:68:0,38,28:0:0:38,28:1314,989:-187.318,-80.5584,-69.1193,-106.773,0,-98.344 1/2:62:0,41,21:0:0:41,21:1384,727:-171.596,-59.4283,-47.0861,-112.51,0,-106.189 1/1:127:0,127,0:0:0:127,0:4352,0:-391.845,-38.2308,0,-391.845,-38.2308,-391.845 1/1:35:0,35,0:0:0:35,0:1216,0:-109.552,-10.5361,0,-109.552,-10.5361,-109.552 chr04 13484242 . C T 5368.01 PASS AB=0.483168;ABP=4.25298;AC=9;AF=0.214286;AN=42;AO=247;CIGAR=1X;DP=1193;DPB=1193;DPRA=1.1181;EPP=19.2656;EPPR=19.6123;GTI=0;LEN=1;MEANALT=1;MQM=59.996;MQMR=59.9566;NS=21;NUMALT=1;ODDS=10.1287;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8790;QR=33428;RO=945;RPL=0;RPP=539.364;RPPR=2055.05;RPR=247;RUN=1;SAF=145;SAP=19.2656;SAR=102;SRF=515;SRP=19.6123;SRR=430;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:25,24:25:879:24:844:-61.5285,0,-64.6763 0/1:45:21,24:21:752:24:860:-64.1751,0,-54.4599 0/1:27:12,15:12:432:15:540:-40.8087,0,-31.0934 0/0:48:48,0:48:1692:0:0:0,-14.4494,-152.563 0/0:84:82,2:82:2915:2:72:0,-18.4498,-255.749 0/0:50:50,0:50:1756:0:0:0,-15.0515,-158.324 0/0:69:69,0:69:2440:0:0:0,-20.7711,-219.839 0/1:51:33,18:33:1171:18:644:-42.9381,0,-90.3441 0/1:97:58,39:58:2045:39:1377:-95.0268,0,-155.121 0/1:8:3,5:3:104:5:180:-14.1438,0,-7.29457 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:17:6,11:6:192:11:392:-30.5025,0,-12.4759 0/0:88:88,0:88:3118:0:0:0,-26.4906,-280.475 0/0:58:58,0:58:2047:0:0:0,-17.4597,-184.502 0/0:59:59,0:59:2097:0:0:0,-17.7608,-188.998 0/0:25:25,0:25:887:0:0:0,-7.52575,-80.1481 0/0:30:29,0:29:1040:0:0:0,-8.72987,-93.6994 0/1:118:43,75:43:1523:75:2679:-205.834,0,-101.841 0/1:93:60,33:60:2115:33:1166:-77.2498,0,-162.623 0/0:69:68,1:68:2385:1:36:0,-17.1728,-211.309 0/0:102:102,0:102:3622:0:0:0,-30.7051,-326.187 chr04 13795497 . GTC ATG,GTG 14406.6 PASS AB=0.547297,0.449324;ABP=8.76177,9.61275;AC=33,9;AF=0.785714,0.214286;AN=42;AO=543,135;CIGAR=1X1M1X,2M1X;DP=679;DPB=679;DPRA=0,1.1911;EPP=1182.12,296.159;EPPR=5.18177;GTI=1;LEN=3,1;MEANALT=1.47619,2;MQM=59.6667,59.9481;MQMR=60;NS=21;NUMALT=2;ODDS=1.17713;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19150,4832;QR=28;RO=1;RPL=543,135;RPP=1182.12,296.159;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1182.12,296.159;SAR=543,135;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:32:0,18,14:0:0:18,14:625,504:-92.2828,-41.4837,-36.0651,-51.1534,0,-46.939 1/2:38:0,19,19:0:0:19,19:669,668:-109.19,-54.7261,-49.0065,-54.8156,0,-49.096 1/2:17:0,5,12:0:0:5,12:174,432:-49.7541,-35.6088,-34.1037,-14.4967,0,-10.8843 1/1:23:0,23,0:0:0:23,0:808,0:-73.0377,-6.92369,0,-73.0377,-6.92369,-73.0377 1/1:57:0,55,2:0:0:55,2:1929,72:-173.522,-16.5567,0,-167.646,-10.322,-167.044 1/1:45:0,45,0:0:0:45,0:1601,0:-144.286,-13.5464,0,-144.286,-13.5464,-144.286 1/1:44:0,44,0:0:0:44,0:1559,0:-140.559,-13.2453,0,-140.559,-13.2453,-140.559 1/2:29:1,19,9:1:28:19,9:655,324:-77.188,-24.2979,-20.7891,-51.0473,0,-50.5535 1/2:46:0,22,24:0:0:22,24:772,860:-133.318,-70.4971,-63.8745,-63.1755,0,-55.9508 1/2:6:0,5,1:0:0:5,1:175,36:-17.5271,-3.29724,-1.79209,-14.588,0,-14.287 1/1:8:0,8,0:0:0:8,0:285,0:-25.9944,-2.40824,0,-25.9944,-2.40824,-25.9944 1/2:15:0,6,9:0:0:6,9:208,320:-43.3353,-26.4331,-24.6269,-17.2523,0,-14.5431 1/1:45:0,45,0:0:0:45,0:1599,0:-144.194,-13.5464,0,-144.194,-13.5464,-144.194 1/1:27:0,27,0:0:0:27,0:934,0:-84.3715,-8.12781,0,-84.3715,-8.12781,-84.3715 1/1:36:0,36,0:0:0:36,0:1271,0:-114.674,-10.8371,0,-114.674,-10.8371,-114.674 1/1:20:0,20,0:0:0:20,0:701,0:-63.4052,-6.0206,0,-63.4052,-6.0206,-63.4052 1/1:15:0,15,0:0:0:15,0:538,0:-48.7558,-4.51545,0,-48.7558,-4.51545,-48.7558 1/2:61:0,30,31:0:0:30,31:1076,1116:-179.172,-91.4136,-82.3827,-88.1176,0,-78.7856 1/2:52:0,38,14:0:0:38,14:1360,500:-152.007,-41.1218,-29.6826,-111.242,0,-107.028 1/1:20:0,20,0:0:0:20,0:713,0:-64.4923,-6.0206,0,-64.4923,-6.0206,-64.4923 1/1:43:0,43,0:0:0:43,0:1498,0:-135.093,-12.9443,0,-135.093,-12.9443,-135.093 chr04 14089862 . C T 14379 PASS AB=0.514056;ABP=3.43762;AC=33;AF=0.785714;AN=42;AO=662;CIGAR=1X;DP=783;DPB=783;DPRA=0;EPP=1440.53;EPPR=265.758;GTI=0;LEN=1;MEANALT=1;MQM=59.929;MQMR=60;NS=21;NUMALT=1;ODDS=2.51996;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23608;QR=4340;RO=121;RPL=0;RPP=1440.53;RPPR=265.758;RPR=662;RUN=1;SAF=662;SAP=1440.53;SAR=0;SRF=121;SRP=265.758;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:33,15:33:1180:15:532:-33.7636,0,-92.0586 0/1:25:11,14:11:396:14:504:-38.1723,0,-28.457 0/1:42:19,23:19:684:23:824:-61.8401,0,-49.2471 1/1:16:0,16:0:0:16:561:-50.8171,-4.81648,0 1/1:129:0,129:0:0:129:4604:-414.522,-38.8329,0 1/1:41:0,41:0:0:41:1449:-130.704,-12.3422,0 1/1:74:0,74:0:0:74:2637:-237.576,-22.2762,0 0/1:19:6,13:6:216:13:449:-35.0118,0,-14.0709 0/1:28:16,12:16:576:12:432:-30.7924,0,-43.7461 0/1:10:3,7:3:108:7:248:-19.6539,0,-7.06487 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 0/1:19:5,14:5:176:14:489:-38.6193,0,-10.4654 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 1/1:73:0,73:0:0:73:2620:-236.047,-21.9752,0 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 0/1:37:17,20:17:608:20:707:-52.8165,0,-43.9139 0/1:21:11,10:11:396:10:360:-26.4227,0,-29.6611 1/1:43:0,43:0:0:43:1536:-138.533,-12.9443,0 1/1:22:0,22:0:0:22:780:-70.1516,-6.62266,0 chr04 14098004 . A G 1784.32 PASS AB=0.542079;ABP=9.22372;AC=9;AF=0.214286;AN=42;AO=221;CIGAR=1X;DP=844;DPB=844;DPRA=1.16439;EPP=482.906;EPPR=1355.84;GTI=0;LEN=1;MEANALT=1;MQM=26.8643;MQMR=38.4302;NS=21;NUMALT=1;ODDS=1.46794;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7860;QR=22342;RO=623;RPL=0;RPP=482.906;RPPR=1355.84;RPR=221;RUN=1;SAF=221;SAP=482.906;SAR=0;SRF=623;SRP=1355.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:25,29:25:900:29:1040:-55.0385,0,-59.9224 0/1:45:9,36:9:324:36:1292:-64.1945,0,-13.4042 0/1:46:9,37:9:324:37:1317:-76.7768,0,-14.159 0/0:47:47,0:47:1692:0:0:0,-14.1484,-145.534 0/0:51:51,0:51:1828:0:0:0,-15.3525,-156.53 0/0:30:28,2:28:1004:2:72:0,-4.52119,-78.2458 0/0:55:55,0:55:1965:0:0:0,-16.5566,-160.777 0/1:51:17,34:17:612:34:1175:-60.7199,0,-36.4379 0/1:65:36,29:36:1292:29:1032:-53.567,0,-92.7118 0/1:8:3,5:3:104:5:180:-9.36181,0,-4.58182 0/0:5:5,0:5:180:0:0:0,-1.50515,-15.4368 0/1:11:7,4:7:252:4:144:-6.15588,0,-18.3693 0/0:49:49,0:49:1760:0:0:0,-14.7505,-152.371 0/0:39:39,0:39:1400:0:0:0,-11.7402,-119.062 0/0:32:32,0:32:1144:0:0:0,-9.63296,-97.3618 0/0:4:4,0:4:125:0:0:0,-1.20412,-11.344 0/0:24:24,0:24:864:0:0:0,-7.22472,-74.776 0/1:62:35,27:35:1260:27:964:-43.5049,0,-88.1272 0/1:62:44,18:44:1580:18:644:-25.2875,0,-116.659 0/0:57:57,0:57:2052:0:0:0,-17.1587,-172.315 0/0:47:47,0:47:1680:0:0:0,-14.1484,-137.83 chr04 14098016 . C T 1927.85 PASS AB=0.548387;ABP=11.2059;AC=9;AF=0.214286;AN=42;AO=224;CIGAR=1X;DP=841;DPB=841;DPRA=1.25676;EPP=472.203;EPPR=1316.88;GTI=0;LEN=1;MEANALT=1;MQM=26.9732;MQMR=38.4457;NS=21;NUMALT=1;ODDS=1.07259;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8005;QR=22060;RO=617;RPL=2;RPP=472.203;RPPR=1316.88;RPR=222;RUN=1;SAF=224;SAP=489.42;SAR=0;SRF=617;SRP=1342.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:25,29:25:896:29:1029:-54.4665,0,-59.6346 0/1:45:7,38:7:252:38:1356:-70.1587,0,-7.46556 0/1:46:9,37:9:324:37:1324:-77.6874,0,-14.159 0/0:46:46,0:46:1648:0:0:0,-13.8474,-141.851 0/0:51:51,0:51:1824:0:0:0,-15.3525,-156.212 0/0:30:28,2:28:987:2:72:0,-4.52119,-77.3157 0/0:55:54,1:54:1940:1:36:0,-13.2576,-155.253 0/1:50:16,34:16:576:34:1216:-62.2343,0,-33.6293 0/1:66:36,30:36:1283:30:1068:-55.9091,0,-91.7105 0/1:8:3,5:3:104:5:180:-9.36181,0,-4.58182 0/0:5:5,0:5:172:0:0:0,-1.50515,-14.987 0/1:12:8,4:8:288:4:140:-5.80323,0,-21.1171 0/0:49:49,0:49:1756:0:0:0,-14.7505,-152.054 0/0:39:39,0:39:1385:0:0:0,-11.7402,-117.635 0/0:32:32,0:32:1133:0:0:0,-9.63296,-96.4643 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.0437 0/0:24:24,0:24:864:0:0:0,-7.22472,-74.776 0/1:60:34,26:34:1216:26:936:-41.2974,0,-85.2497 0/1:62:44,18:44:1580:18:648:-25.3614,0,-116.885 0/0:57:57,0:57:2040:0:0:0,-17.1587,-171.581 0/0:46:46,0:46:1648:0:0:0,-13.8474,-135.189 chr04 14272184 . GGACA GGA 34458 PASS AB=0.541485;ABP=13.2798;AC=33;AF=0.785714;AN=42;AO=1672;CIGAR=2M2D1M;DP=2007;DPB=1333.4;DPRA=0;EPP=3633.71;EPPR=702.224;GTI=0;LEN=2;MEANALT=1.47619;MQM=59.9504;MQMR=60;NS=21;NUMALT=1;ODDS=30.775;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57841;QR=11306;RO=322;RPL=0;RPP=3633.71;RPPR=702.224;RPR=1672;RUN=1;SAF=1672;SAP=3633.71;SAR=0;SRF=322;SRP=702.224;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:54,62:54:1906:62:2182:-161.363,0,-136.538 0/1:103:47,56:47:1629:56:1981:-147.557,0,-115.887 0/1:50:25,25:25:887:25:869:-63.4724,0,-65.0976 1/1:131:0,131:0:0:131:4491:-404.334,-39.4349,0 1/1:222:4,217:4:142:217:7534:-664.979,-53.7572,0 1/1:88:0,84:0:0:84:2838:-255.292,-25.2865,0 1/1:199:1,197:1:36:197:6786:-607.176,-56.3655,0 0/1:89:48,41:48:1673:41:1377:-97.4235,0,-124.064 1/1:121:0,120:0:0:120:4123:-370.896,-36.1236,0 1/1:14:0,14:0:0:14:492:-44.6123,-4.21442,0 1/1:22:0,22:0:0:22:784:-70.8839,-6.62266,0 0/1:29:17,11:17:609:11:396:-27.1941,0,-46.3541 1/1:134:0,134:0:0:134:4602:-414.348,-40.338,0 1/1:102:0,102:0:0:102:3507:-315.84,-30.7051,0 0/1:116:36,80:36:1274:80:2797:-217.05,0,-80.0439 0/1:55:35,20:35:1229:20:693:-46.133,0,-94.357 1/1:61:0,60:0:0:60:2067:-185.935,-18.0618,0 0/1:73:33,40:33:1140:40:1412:-105.397,0,-80.9271 0/1:55:18,37:18:644:37:1316:-102.185,0,-41.7342 1/1:155:2,150:2:65:150:5183:-460.445,-39.9048,0 1/1:71:2,69:2:72:69:2411:-210.406,-14.5364,0 chr04 14273452 . C T 81293.6 PASS AB=0.692604;ABP=421.245;AC=33;AF=0.785714;AN=42;AO=2989;CIGAR=1X;DP=3391;DPB=3391;DPRA=0;EPP=6450.18;EPPR=873.771;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9619;MQMR=60;NS=21;NUMALT=1;ODDS=32.3071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=105381;QR=14332;RO=401;RPL=1403;RPP=27.3397;RPPR=839.374;RPR=1586;RUN=1;SAF=1398;SAP=30.0712;SAR=1591;SRF=4;SRP=839.374;SRR=397;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:132:43,89:43:1540:89:3154:-244.348,0,-99.1571 0/1:125:55,70:55:1972:70:2372:-176.1,0,-140.126 0/1:122:44,78:44:1565:78:2762:-212.094,0,-104.414 1/1:219:0,219:0:0:219:7781:-699.624,-65.9256,0 1/1:267:1,265:1:36:265:9371:-839.762,-76.8355,0 1/1:179:0,179:0:0:179:6349:-571.503,-53.8844,0 1/1:200:0,200:0:0:200:7061:-635.516,-60.206,0 0/1:133:42,91:42:1512:91:3207:-248.815,0,-96.3376 1/1:300:0,300:0:0:300:10615:-954.641,-90.309,0 1/1:14:0,14:0:0:14:492:-44.6123,-4.21442,0 1/1:11:0,11:0:0:11:362:-32.8958,-3.31133,0 0/1:44:27,17:27:959:17:612:-42.1681,0,-73.3801 1/1:263:1,262:1:36:262:9234:-827.415,-75.5726,0 1/1:172:0,172:0:0:172:6073:-546.674,-51.7772,0 0/1:201:52,149:52:1860:149:5303:-416.899,0,-107.173 0/1:109:34,75:34:1212:75:2668:-207.552,0,-76.5741 1/1:164:0,164:0:0:164:5829:-524.723,-49.3689,0 0/1:162:57,105:57:2035:105:3687:-283.268,0,-134.655 0/1:270:45,225:45:1605:225:7816:-622.199,0,-63.46 1/1:153:0,153:0:0:153:5367:-483.17,-46.0576,0 1/1:151:0,151:0:0:151:5266:-474.08,-45.4555,0 chr04 14381752 . C T 40643 PASS AB=0.518299;ABP=5.9507;AC=33;AF=0.785714;AN=42;AO=2012;CIGAR=1X;DP=2504;DPB=2504;DPRA=0;EPP=4372.01;EPPR=1069.2;GTI=0;LEN=1;MEANALT=1.04762;MQM=40.4901;MQMR=40.8004;NS=21;NUMALT=1;ODDS=20.2374;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72081;QR=17549;RO=491;RPL=0;RPP=4372.01;RPPR=1069.2;RPR=2012;RUN=1;SAF=2012;SAP=4372.01;SAR=0;SRF=491;SRP=1069.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:66,57:66:2364:57:2044:-142.305,0,-168.423 0/1:197:101,96:101:3604:96:3452:-230.154,0,-246.179 0/1:90:48,42:48:1712:42:1500:-102.957,0,-123.164 1/1:151:1,150:1:36:150:5368:-462.914,-41.9528,0 1/1:251:1,250:1:36:250:8952:-776.736,-72.0558,0 1/1:146:1,145:1:36:145:5196:-433.381,-40.3612,0 1/1:196:0,196:0:0:196:7032:-589.605,-59.0019,0 0/1:140:56,84:56:2012:84:3001:-215.72,0,-131.719 1/1:188:1,187:1:36:187:6720:-588.924,-53.0575,0 1/1:10:0,10:0:0:10:356:-29.8085,-3.0103,0 1/1:12:0,12:0:0:12:428:-36.6661,-3.61236,0 0/1:39:20,19:20:720:19:684:-47.4758,0,-50.7861 1/1:144:1,143:1:36:143:5136:-441.902,-39.8456,0 1/1:132:0,132:0:0:132:4725:-409.673,-39.736,0 0/1:196:79,117:79:2813:117:4188:-304.771,0,-185.762 0/1:93:65,28:65:2332:28:1008:-60.5978,0,-177.234 1/1:111:0,111:0:0:111:3961:-345.671,-33.4143,0 0/1:63:25,38:25:888:38:1360:-98.6946,0,-57.6606 0/1:70:26,43:26:924:43:1529:-113.11,0,-60.1751 1/1:92:0,92:0:0:92:3285:-282.8,-27.6948,0 1/1:60:0,60:0:0:60:2156:-180.77,-18.0618,0 chr04 14381796 . AAGCG GAACG,GAACA 97048.4 PASS AB=0.658003,0.336525;ABP=320.033,342.372;AC=33,9;AF=0.785714,0.214286;AN=42;AO=3380,499;CIGAR=1X1M1X2M,1X1M1X1M1X;DP=3904;DPB=3904;DPRA=0,1.07801;EPP=7342.59,1086.58;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.61905,2.92857;MQM=48.2385,40.4649;MQMR=0;NS=21;NUMALT=2;ODDS=1.34397;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=116105,17590;QR=0;RO=0;RPL=2034,499;RPP=307.109,1086.58;RPPR=0;RPR=1346,0;RUN=1,1;SAF=2034,499;SAP=307.109,1086.58;SAR=1346,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:196:0,128,68:0:0:128,68:4383,2394:-539.188,-187.722,-149.19,-351.805,0,-331.335 1/2:266:0,165,100:0:0:165,100:5692,3535:-713.97,-269.144,-219.474,-444.856,0,-414.753 1/2:138:0,91,47:0:0:91,47:3137,1668:-382.584,-132.057,-104.663,-250.87,0,-236.721 1/1:250:0,246,3:0:0:246,3:8370,105:-739.753,-74.0534,0,-732.343,-66.6811,-731.44 1/1:382:0,377,1:0:0:377,1:13091,36:-1156.88,-113.488,0,-1154.03,-110.62,-1153.73 1/1:261:0,260,0:0:0:260,0:8990,0:-783.251,-78.2678,0,-783.251,-78.2678,-783.251 1/1:374:0,367,0:0:0:367,0:12607,0:-1098.48,-110.478,0,-1098.48,-110.478,-1098.48 1/2:174:0,114,58:0:0:114,58:3911,2048:-467.233,-159.721,-125.403,-307.553,0,-290.093 1/1:199:0,196,1:0:0:196,1:6803,36:-602.256,-59.0019,0,-599.374,-56.1018,-599.073 1/1:27:0,27,0:0:0:27,0:922,0:-81.7054,-8.12781,0,-81.7054,-8.12781,-81.7054 1/1:15:0,15,0:0:0:15,0:514,0:-44.5657,-4.51545,0,-44.5657,-4.51545,-44.5657 1/2:57:0,36,21:0:0:36,21:1235,735:-155.729,-57.8124,-46.9753,-98.2533,0,-91.9317 1/1:260:0,259,1:0:0:259,1:8846,35:-782.746,-77.9668,0,-779.968,-74.8468,-779.667 1/1:232:0,230,0:0:0:230,0:7716,0:-682.313,-69.2369,0,-682.313,-69.2369,-682.313 1/2:281:0,203,77:0:0:203,77:7013,2702:-772.101,-212.659,-151.55,-559.482,0,-536.302 1/2:96:0,29,66:0:0:29,66:1010,2327:-265.264,-184.66,-175.931,-80.6398,0,-60.7718 1/1:114:0,113,1:0:0:113,1:3885,36:-341.663,-34.0164,0,-339.215,-31.2629,-338.914 1/2:132:0,103,26:0:0:103,26:3548,905:-353.73,-70.0476,-39.0415,-283.663,0,-275.836 1/2:122:0,93,29:0:0:93,29:3186,1028:-337.104,-81.6584,-53.6627,-255.789,0,-247.059 1/1:219:0,219,0:0:0:219,0:7546,0:-667.832,-65.9256,0,-667.832,-65.9256,-667.832 1/1:109:0,109,0:0:0:109,0:3700,0:-322.564,-32.8123,0,-322.564,-32.8123,-322.564 chr04 14558656 . A G 6204.08 PASS AB=0.56891;ABP=28.7478;AC=9;AF=0.214286;AN=42;AO=360;CIGAR=1X;DP=1467;DPB=1467;DPRA=1.18782;EPP=784.74;EPPR=2404.66;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.6972;MQMR=60;NS=21;NUMALT=1;ODDS=2.00163;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12891;QR=39434;RO=1106;RPL=0;RPP=784.74;RPPR=2404.66;RPR=360;RUN=1;SAF=0;SAP=784.74;SAR=360;SRF=0;SRP=2404.66;SRR=1106;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:37,61:37:1312:61:2188:-167.646,0,-88.8807 0/1:40:6,34:6:212:34:1220:-98.0432,0,-7.3836 0/1:70:22,48:22:788:48:1720:-133.977,0,-50.1727 0/0:183:183,0:183:6548:0:0:0,-55.0885,-589.4 0/0:138:135,3:135:4822:3:108:0,-31.4678,-424.058 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/0:105:105,0:105:3739:0:0:0,-31.6081,-336.712 0/1:90:37,53:37:1320:53:1908:-144.891,0,-92.0092 0/0:62:62,0:62:2202:0:0:0,-18.6639,-198.444 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/0:84:84,0:84:2999:0:0:0,-25.2865,-270.142 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 0/1:75:27,47:27:954:47:1673:-128.215,0,-63.5382 0/1:30:8,22:8:288:22:778:-61.2413,0,-17.2365 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/1:92:48,44:48:1711:44:1576:-114.409,0,-126.58 0/1:119:78,41:78:2771:41:1472:-96.9532,0,-213.809 0/0:69:67,2:67:2356:2:68:0,-14.3134,-205.837 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 chr04 14558675 . T C 6367.6 PASS AB=0.564593;ABP=25.7328;AC=9;AF=0.214286;AN=42;AO=359;CIGAR=1X;DP=1486;DPB=1486;DPRA=1.16923;EPP=739.744;EPPR=2381.27;GTI=0;LEN=1;MEANALT=1;MQM=59.6741;MQMR=59.9823;NS=21;NUMALT=1;ODDS=2.75319;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12836;QR=40378;RO=1127;RPL=354;RPP=739.744;RPPR=2381.27;RPR=5;RUN=1;SAF=0;SAP=782.569;SAR=359;SRF=0;SRP=2450.26;SRR=1127;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:38,59:38:1345:59:2124:-162.189,0,-92.1482 0/1:38:6,32:6:212:32:1152:-92.5286,0,-7.98566 0/1:72:22,50:22:777:50:1781:-138.861,0,-48.5762 0/0:188:188,0:188:6733:0:0:0,-56.5936,-606.042 0/0:139:136,3:136:4888:3:108:0,-31.7688,-429.996 0/0:72:72,0:72:2565:0:0:0,-21.6742,-230.969 0/0:109:109,0:109:3908:0:0:0,-32.8123,-351.913 0/1:89:37,52:37:1332:52:1868:-141.594,0,-93.3907 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/0:85:85,0:85:3052:0:0:0,-25.5875,-274.909 0/0:41:41,0:41:1457:0:0:0,-12.3422,-131.424 0/1:78:29,49:29:1044:49:1730:-132.495,0,-70.7945 0/1:30:8,22:8:288:22:780:-61.3858,0,-17.2365 0/0:41:41,0:41:1449:0:0:0,-12.3422,-130.704 0/1:93:49,44:49:1756:44:1569:-113.476,0,-130.328 0/1:120:79,41:79:2844:41:1472:-96.6521,0,-220.074 0/0:70:68,2:68:2448:2:72:0,-14.2354,-213.738 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 chr04 14558750 . AGTC GGTC,GGTA 82679.2 PASS AB=0.651755,0.347557;ABP=293.657,296.3;AC=33,9;AF=0.785714,0.214286;AN=42;AO=3447,521;CIGAR=1X3M,1X2M1X;DP=3983;DPB=3983;DPRA=0,0.969303;EPP=7479.39,1134.35;EPPR=0;GTI=1;LEN=1,4;MEANALT=2.42857,2.52941;MQM=42.9156,59.9251;MQMR=0;NS=21;NUMALT=2;ODDS=8.27222;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=101293,17982;QR=0;RO=0;RPL=1908,520;RPP=88.7863,1125.68;RPPR=0;RPR=1539,1;RUN=1,1;SAF=1907,520;SAP=87.859,1125.68;SAR=1540,1;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:227:0,144,83:0:0:144,83:4250,2847:-553.495,-231.483,-188.134,-322.333,0,-297.347 1/2:136:0,87,49:0:0:87,49:2409,1715:-316.95,-139.883,-113.694,-177.384,0,-162.634 1/2:133:0,86,47:0:0:86,47:2494,1657:-322.942,-135.27,-109.381,-187.998,0,-173.849 1/1:212:0,210,2:0:0:210,2:6465,71:-562.495,-63.2163,0,-556.709,-57.0763,-556.107 1/1:450:0,446,3:0:0:446,3:12525,101:-1064,-134.259,0,-1055.81,-125.996,-1054.91 1/1:264:0,262,1:0:0:262,1:8299,35:-725.784,-78.8699,0,-722.936,-75.9622,-722.635 1/1:286:0,283,0:0:0:283,0:8423,0:-725.377,-85.1915,0,-725.377,-85.1915,-725.377 1/2:176:0,101,75:0:0:101,75:2919,2577:-429.436,-209.602,-179.198,-220.148,0,-197.571 1/1:247:0,244,2:0:0:244,2:7262,56:-623.577,-73.4513,0,-620.077,-69.9186,-619.475 1/1:36:0,32,3:0:0:32,3:1007,104:-88.1324,-9.63296,0,-79.676,-1.18975,-78.7729 1/1:28:0,28,0:0:0:28,0:768,0:-64.8596,-8.42884,0,-64.8596,-8.42884,-64.8596 1/2:71:0,42,29:0:0:42,29:1142,982:-163.279,-79.9548,-67.3116,-83.6278,0,-74.8979 1/1:241:0,236,3:0:0:236,3:7197,102:-624.278,-71.0431,0,-616.004,-62.7816,-615.1 1/1:260:0,260,0:0:0:260,0:7397,0:-630.547,-78.2678,0,-630.547,-78.2678,-630.547 1/2:329:0,212,117:0:0:212,117:6054,4073:-784.887,-331.542,-267.723,-453.666,0,-418.445 1/2:161:0,107,53:0:0:107,53:3254,1805:-395.335,-146.415,-114.204,-248.885,0,-232.931 1/1:204:0,203,0:0:0:203,0:5802,0:-492.797,-61.1091,0,-492.797,-61.1091,-492.797 1/2:118:0,96,22:0:0:96,22:2565,750:-246.614,-61.1918,-32.293,-185.745,0,-179.123 1/2:102:0,72,30:0:0:72,30:2074,1043:-240.59,-85.1474,-63.4733,-155.769,0,-146.738 1/1:199:0,195,1:0:0:195,1:5973,36:-519.32,-58.7009,0,-516.382,-55.745,-516.081 1/1:103:0,101,1:0:0:101,1:3014,28:-260.182,-30.404,0,-257.963,-28.1703,-257.662 chr04 14558794 . CAAAATATG CAAATATG 11421.6 PASS AB=0.43157;ABP=51.4518;AC=33;AF=0.785714;AN=42;AO=1686;CIGAR=1M1D7M;DP=2364;DPB=2176.67;DPRA=0;EPP=3664.11;EPPR=1468.75;GTI=2;LEN=1;MEANALT=1.14286;MQM=24.8108;MQMR=59.957;NS=21;NUMALT=1;ODDS=0.540295;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38482;QR=23670;RO=675;RPL=1686;RPP=3664.11;RPPR=1468.75;RPR=0;RUN=1;SAF=0;SAP=3664.11;SAR=1686;SRF=0;SRP=1468.75;SRR=675;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:67,70:67:2335:70:1608:-86.9445,0,-169.171 0/1:115:62,53:62:2182:53:1194:-59.2786,0,-162.03 0/1:96:54,42:54:1901:42:940:-45.4211,0,-142.47 1/1:81:0,81:0:0:81:1887:-151.412,-24.3834,0 1/1:254:1,253:1:35:253:5683:-446.405,-72.963,0 1/1:79:0,79:0:0:79:1765:-138.856,-23.7814,0 1/1:130:0,130:0:0:130:2906:-227.745,-39.1339,0 0/1:148:97,51:97:3394:51:1143:-45.8385,0,-261.128 1/1:123:0,123:0:0:123:2866:-226.634,-37.0267,0 1/1:13:0,13:0:0:13:321:-26.6814,-3.91339,0 1/1:17:0,17:0:0:17:388:-30.8018,-5.11751,0 0/1:51:26,25:26:904:25:568:-29.7612,0,-66.3223 1/1:92:0,92:0:0:92:2076:-164.148,-27.6948,0 1/1:142:0,142:0:0:142:3146:-247.741,-42.7463,0 0/1:303:185,117:185:6500:117:2732:-127.823,0,-493.832 0/1:117:70,47:70:2476:47:1102:-52.2847,0,-187.876 1/1:119:0,119:0:0:119:2777:-220.243,-35.8226,0 0/1:169:101,67:101:3526:67:1569:-74.5501,0,-266.553 0/1:55:12,42:12:417:42:990:-62.9682,0,-21.248 1/1:78:0,78:0:0:78:1789:-142.867,-23.4803,0 1/1:45:0,45:0:0:45:1032:-81.745,-13.5464,0 chr04 14706219 . C T 7368.71 PASS AB=0.460765;ABP=16.3013;AC=9;AF=0.214286;AN=42;AO=461;CIGAR=1X;DP=2768;DPB=2768;DPRA=0.784368;EPP=1004.06;EPPR=3647.96;GTI=0;LEN=1;MEANALT=1;MQM=59.9544;MQMR=59.6508;NS=21;NUMALT=1;ODDS=16.761;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16471;QR=81979;RO=2305;RPL=0;RPP=1004.06;RPPR=3647.96;RPR=461;RUN=1;SAF=461;SAP=1004.06;SAR=0;SRF=2305;SRP=5008.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:70,85:70:2500:85:3031:-226.347,0,-178.587 0/1:131:76,55:76:2704:55:1980:-139.04,0,-204.098 0/1:67:38,29:38:1356:29:1040:-73.7454,0,-102.171 0/0:175:175,0:175:6247:0:0:0,-52.6802,-561.574 0/0:214:213,0:213:7536:0:0:0,-64.1194,-677.924 0/0:137:136,0:136:4866:0:0:0,-40.9401,-436.411 0/0:250:249,1:249:8843:1:36:0,-71.6592,-792.183 0/1:119:64,55:64:2288:55:1980:-142.652,0,-170.359 0/0:279:279,0:279:9941:0:0:0,-83.9874,-894.098 0/0:14:13,1:13:468:1:36:0,-0.616145,-38.8614 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:39:23,16:23:828:16:572:-40.0733,0,-63.0709 0/0:165:165,0:165:5873:0:0:0,-49.6699,-527.177 0/0:146:146,0:146:5154:0:0:0,-43.9504,-463.992 0/1:198:100,98:100:3572:98:3474:-253.268,0,-261.179 0/1:144:66,78:66:2326:78:2782:-207.254,0,-166.244 0/0:168:168,0:168:5966:0:0:0,-50.573,-536.779 0/1:72:45,27:45:1599:27:972:-66.1237,0,-122.525 0/1:69:54,15:54:1920:15:532:-27.442,0,-151.989 0/0:157:156,1:156:5534:1:36:0,-43.6634,-494.208 0/0:63:63,0:63:2242:0:0:0,-18.9649,-202.041 chr04 14732647 . C T 4369.75 PASS AB=0.422156;ABP=38.1699;AC=9;AF=0.214286;AN=42;AO=286;CIGAR=1X;DP=1488;DPB=1488;DPRA=1.27625;EPP=624.051;EPPR=2613.12;GTI=1;LEN=1;MEANALT=1;MQM=54.8601;MQMR=59.6506;NS=21;NUMALT=1;ODDS=3.78834;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10229;QR=42922;RO=1202;RPL=286;RPP=624.051;RPPR=2613.12;RPR=0;RUN=1;SAF=286;SAP=624.051;SAR=0;SRF=1202;SRP=2613.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:55,68:55:1961:68:2432:-181.886,0,-139.727 0/1:106:59,47:59:2098:47:1680:-119.209,0,-157.171 0/1:69:39,30:39:1387:30:1076:-76.1928,0,-104.336 0/0:83:83,0:83:2956:0:0:0,-24.9855,-265.894 0/0:143:143,0:143:5108:0:0:0,-43.0473,-459.78 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4292 0/0:135:134,1:134:4767:1:36:0,-37.0498,-425.497 0/1:66:32,34:32:1143:34:1220:-89.6671,0,-83.3107 0/0:112:112,0:112:4006:0:0:0,-33.7154,-360.72 0/0:19:19,0:19:672:0:0:0,-5.71957,-59.9471 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:15:8,7:8:288:7:248:-18.0161,0,-21.752 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.821 0/0:61:61,0:61:2166:0:0:0,-18.3628,-195.201 0/1:143:97,46:97:3471:46:1637:-104.396,0,-268.987 0/1:103:60,43:60:2151:43:1544:-108.165,0,-162.849 0/0:75:75,0:75:2688:0:0:0,-22.5772,-242.163 0/1:30:26,4:26:932:4:144:-4.26384,0,-75.1541 0/1:13:10,3:10:360:3:104:-5.7836,0,-28.8309 0/0:66:63,3:63:2256:3:108:0,-9.82552,-193.256 0/0:28:28,0:28:996:0:0:0,-8.42884,-89.9017 chr04 14925364 . T G 34566 PASS AB=0.513333;ABP=4.16842;AC=33;AF=0.785714;AN=42;AO=1611;CIGAR=1X;DP=1982;DPB=1982;DPRA=0;EPP=3501.25;EPPR=808.627;GTI=0;LEN=1;MEANALT=1;MQM=59.905;MQMR=60;NS=21;NUMALT=1;ODDS=21.3397;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57411;QR=13309;RO=371;RPL=0;RPP=3501.25;RPPR=808.627;RPR=1611;RUN=1;SAF=1611;SAP=3501.25;SAR=0;SRF=371;SRP=808.627;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:65,65:65:2332:65:2328:-170.642,0,-171.006 0/1:88:34,54:34:1209:54:1921:-146.658,0,-82.6235 0/1:117:56,61:56:2012:61:2177:-160.969,0,-146.133 1/1:120:1,119:1:36:119:4264:-380.34,-32.5253,0 1/1:196:2,194:2:72:194:6903:-614.314,-52.1652,0 1/1:113:0,113:0:0:113:4048:-364.479,-34.0164,0 1/1:159:0,159:0:0:159:5666:-509.742,-47.8638,0 0/1:48:21,27:21:756:27:968:-72.9879,0,-53.9178 1/1:179:0,179:0:0:179:6349:-571.5,-53.8844,0 1/1:23:0,23:0:0:23:809:-73.1283,-6.92369,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:19:9,10:9:320:10:360:-27.0247,0,-23.4228 1/1:85:0,85:0:0:85:3010:-271.128,-25.5876,0 1/1:131:0,131:0:0:131:4648:-418.464,-39.4349,0 0/1:137:76,61:76:2724:61:2177:-154.953,0,-204.162 0/1:74:35,39:35:1256:39:1400:-104.023,0,-91.0691 1/1:67:1,66:1:36:66:2334:-206.717,-16.5707,0 0/1:66:38,28:38:1368:28:1008:-71.1684,0,-103.553 0/1:71:31,40:31:1116:40:1432:-107.804,0,-79.3786 1/1:81:2,79:2:72:79:2809:-246.211,-17.5467,0 1/1:67:0,67:0:0:67:2404:-216.616,-20.169,0 chr04 14925376 . C T 6020.42 PASS AB=0.489189;ABP=3.76151;AC=9;AF=0.214286;AN=42;AO=367;CIGAR=1X;DP=1936;DPB=1936;DPRA=0.932503;EPP=791.278;EPPR=3390.53;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9279;NS=21;NUMALT=1;ODDS=19.6395;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13094;QR=55808;RO=1568;RPL=0;RPP=799.941;RPPR=3390.53;RPR=367;RUN=1;SAF=366;SAP=791.278;SAR=1;SRF=1568;SRP=3407.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:67,62:67:2371:62:2220:-161.232,0,-174.793 0/1:84:52,32:52:1868:32:1136:-77.2624,0,-143.102 0/1:113:57,56:57:2028:56:2008:-146.977,0,-148.764 0/0:118:117,0:117:4171:0:0:0,-35.2205,-375.214 0/0:190:188,2:188:6674:2:72:0,-50.359,-593.749 0/0:106:106,0:106:3759:0:0:0,-31.9092,-338.484 0/0:154:154,0:154:5503:0:0:0,-46.3586,-495.239 0/1:45:24,21:24:864:21:756:-54.8209,0,-64.5362 0/0:173:173,0:173:6179:0:0:0,-52.0782,-556.209 0/0:23:23,0:23:815:0:0:0,-6.92369,-73.6708 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:19:10,9:10:356:9:316:-23.0593,0,-26.6617 0/0:84:84,0:84:2982:0:0:0,-25.2865,-268.613 0/0:130:130,0:130:4655:0:0:0,-39.1339,-419.083 0/1:139:62,77:62:2149:77:2755:-206.348,0,-151.831 0/1:72:37,35:37:1315:35:1219:-88.3354,0,-96.9769 0/0:65:64,1:64:2283:1:36:0,-15.9687,-202.128 0/1:66:29,37:29:1040:37:1324:-99.5941,0,-74.0464 0/1:73:40,33:40:1406:33:1180:-84.5329,0,-104.861 0/0:78:76,2:76:2712:2:72:0,-16.6436,-237.488 0/0:65:65,0:65:2322:0:0:0,-19.5669,-209.239 chr04 14925457 . C T 47692.7 PASS AB=0.464026;ABP=16.9151;AC=33;AF=0.785714;AN=42;AO=2258;CIGAR=1X;DP=2934;DPB=2934;DPRA=0;EPP=4906.2;EPPR=1470.93;GTI=0;LEN=1;MEANALT=1;MQM=54.0536;MQMR=29.1139;NS=21;NUMALT=1;ODDS=9.85157;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80548;QR=23998;RO=676;RPL=0;RPP=4906.2;RPPR=1470.93;RPR=2258;RUN=1;SAF=0;SAP=4906.2;SAR=2258;SRF=0;SRP=1470.93;SRR=676;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:173:94,79:94:3352:79:2828:-202.258,0,-190.364 0/1:113:61,52:61:2171:52:1856:-131.933,0,-106.153 0/1:183:89,94:89:3196:94:3354:-246.516,0,-175.815 1/1:220:1,219:1:36:219:7839:-700.052,-63.3238,0 1/1:270:8,262:8:284:262:9375:-819.951,-60.1929,0 1/1:192:1,191:1:36:191:6819:-606.615,-55.2391,0 1/1:140:0,140:0:0:140:5004:-448.039,-42.1442,0 0/1:203:122,81:122:4319:81:2896:-198.746,0,-237.406 1/1:234:1,233:1:36:233:8304:-741.086,-66.8427,0 1/1:35:0,35:0:0:35:1248:-112.054,-10.5361,0 1/1:11:0,11:0:0:11:396:-35.709,-3.31133,0 0/1:27:14,13:14:485:13:455:-32.9415,0,-25.8997 1/1:178:0,178:0:0:178:6384:-572.381,-53.5833,0 1/1:104:0,104:0:0:104:3688:-330.527,-31.3071,0 0/1:258:137,121:137:4841:121:4313:-309.354,0,-271.22 0/1:104:73,31:73:2611:31:1104:-68.2265,0,-163.306 1/1:114:0,114:0:0:114:4024:-361.628,-34.3174,0 0/1:112:56,56:56:1959:56:1987:-145.114,0,-103.022 0/1:64:17,47:17:600:47:1665:-130.249,0,-24.9731 1/1:140:0,140:0:0:140:4979:-445.104,-42.1442,0 1/1:59:2,57:2:72:57:2030:-175.426,-10.924,0 chr04 14925463 . TGAGC TGAGG,CGAGG 58476.3 PASS AB=0.45607,0.542332;ABP=23.9966,22.4981;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2253,690;CIGAR=4M1X,1X3M1X;DP=2959;DPB=2959;DPRA=0,1.42148;EPP=4895.34,1501.33;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.14286,2.5;MQM=54.186,28.9841;MQMR=60;NS=21;NUMALT=2;ODDS=8.01194;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80136,24240;QR=36;RO=1;RPL=0,0;RPP=4895.34,1501.33;RPPR=5.18177;RPR=2253,690;RUN=1,1;SAF=0,0;SAP=4895.34,1501.33;SAR=2253,690;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:172:0,77,95:0:0:77,95:2736,3324:-436.992,-214.363,-191.183,-222.953,0,-194.355 1/2:115:0,51,63:0:0:51,63:1809,2201:-271.324,-124.847,-109.494,-146.492,0,-127.527 1/2:186:0,94,92:0:0:94,92:3326,3231:-478.992,-208.502,-180.206,-270.808,0,-243.113 1/1:219:0,216,1:0:0:216,1:7660,35:-687.74,-65.0225,0,-685.449,-62.7515,-685.148 1/1:272:0,263,8:0:0:263,8:9334,286:-837.712,-79.1709,0,-819.262,-60.7726,-816.854 1/1:194:0,191,2:0:0:191,2:6786,67:-606.843,-57.4967,0,-602.424,-53.0749,-601.822 1/1:145:0,145,0:0:0:145,0:5186,0:-463.986,-43.6494,0,-463.986,-43.6494,-463.986 1/2:206:0,79,126:0:0:79,126:2827,4404:-498.621,-268.822,-245.041,-229.849,0,-191.919 1/1:237:0,236,0:0:0:236,0:8397,0:-753.351,-71.0431,0,-753.351,-71.0431,-753.351 1/1:35:0,35,0:0:0:35,0:1241,0:-111.42,-10.5361,0,-111.42,-10.5361,-111.42 1/1:11:0,11,0:0:0:11,0:396,0:-35.709,-3.31133,0,-35.709,-3.31133,-35.709 1/2:27:0,13,14:0:0:13,14:468,496:-68.1697,-30.3923,-26.4789,-38.0932,0,-33.8787 1/1:175:1,174,0:1:36:174,0:6192,0:-551.66,-49.082,0,-551.961,-52.3792,-554.899 1/1:105:0,104,0:0:0:104,0:3701,0:-332.58,-31.3071,0,-332.58,-31.3071,-332.58 1/2:262:0,120,142:0:0:120,142:4265,5014:-666.246,-319.744,-283.621,-346.823,0,-304.077 1/2:103:0,31,72:0:0:31,72:1103,2546:-259.892,-170.119,-160.787,-90.1106,0,-68.4364 1/1:112:0,110,0:0:0:110,0:3937,0:-353.785,-33.1133,0,-353.785,-33.1133,-353.785 1/2:116:0,58,58:0:0:58,58:2071,2028:-292.941,-124.406,-106.947,-168.849,0,-151.389 1/2:65:0,48,17:0:0:48,17:1700,608:-177.405,-39.3469,-24.8974,-138.363,0,-133.246 1/1:143:0,138,0:0:0:138,0:4912,0:-439.338,-41.5421,0,-439.338,-41.5421,-439.338 1/1:59:0,59,0:0:0:59,0:2089,0:-187.601,-17.7608,0,-187.601,-17.7608,-187.601 chr04 14925477 . CGCCGTCT TGCCGTTC,TGTCATTC 57197.6 PASS AB=0.4512,0.5424;ABP=28.8665,22.5292;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2247,688;CIGAR=1X5M2X,1X1M1X1M1X1M2X;DP=2955;DPB=2955;DPRA=0,1.42067;EPP=4770.05,1496.98;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.47619,3.08333;MQM=54.1331,28.8968;MQMR=0;NS=21;NUMALT=2;ODDS=7.93267;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77834,24228;QR=0;RO=0;RPL=2234,688;RPP=4770.05,1496.98;RPPR=0;RPR=13,0;RUN=1,1;SAF=0,0;SAP=4882.31,1496.98;SAR=2247,688;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:171:0,76,95:0:0:76,95:2591,3364:-425.967,-216.069,-193.19,-210.214,0,-181.617 1/2:116:0,53,63:0:0:53,63:1837,2213:-273.709,-125.571,-109.617,-148.441,0,-129.476 1/2:186:0,92,92:0:0:92,92:3202,3241:-468.87,-208.947,-181.253,-259.891,0,-232.196 1/1:220:0,218,1:0:0:218,1:7531,36:-676.002,-65.6245,0,-673.69,-63.3407,-673.389 1/1:271:0,261,8:0:0:261,8:9032,278:-811.084,-78.5688,0,-792.881,-60.4123,-790.473 1/1:193:0,190,1:0:0:190,1:6508,36:-582.34,-57.1957,0,-580.338,-55.2112,-580.037 1/1:146:0,145,0:0:0:145,0:5023,0:-449.552,-43.6494,0,-449.552,-43.6494,-449.552 1/2:208:0,80,126:0:0:80,126:2786,4424:-494.638,-268.812,-244.73,-225.841,0,-187.911 1/1:237:0,236,0:0:0:236,0:8252,0:-741.048,-71.0431,0,-741.048,-71.0431,-741.048 1/1:34:0,34,0:0:0:34,0:1175,0:-105.541,-10.235,0,-105.541,-10.235,-105.541 1/1:11:0,11,0:0:0:11,0:386,0:-34.8165,-3.31133,0,-34.8165,-3.31133,-34.8165 1/2:27:0,13,14:0:0:13,14:466,491:-67.8759,-30.2765,-26.3632,-37.9139,0,-33.6995 1/1:178:0,177,0:0:0:177,0:6039,0:-542.037,-53.2823,0,-542.037,-53.2823,-542.037 1/1:103:0,103,0:0:0:103,0:3574,0:-321.068,-31.0061,0,-321.068,-31.0061,-321.068 1/2:260:0,117,141:0:0:117,141:4038,4944:-643.064,-315.653,-280.432,-327.382,0,-284.937 1/2:105:0,32,73:0:0:32,73:1098,2573:-260.582,-171.517,-161.884,-89.3933,0,-67.4181 1/1:112:0,109,0:0:0:109,0:3798,0:-341.292,-32.8123,0,-341.292,-32.8123,-341.292 1/2:114:0,56,57:0:0:56,57:1975,2017:-282.511,-121.929,-105.071,-160.55,0,-143.391 1/2:63:0,45,17:0:0:45,17:1614,611:-170.395,-39.0674,-25.521,-131.289,0,-126.171 1/1:142:0,141,0:0:0:141,0:4855,0:-434.625,-42.4452,0,-434.625,-42.4452,-434.625 1/1:58:0,58,0:0:0:58,0:2054,0:-184.502,-17.4597,0,-184.502,-17.4597,-184.502 chr04 14939107 . C A 15909.3 PASS AB=0.469655;ABP=14.6075;AC=9;AF=0.214286;AN=42;AO=689;CIGAR=1X;DP=4033;DPB=4033;DPRA=1.22942;EPP=234.469;EPPR=1296.23;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9492;MQMR=59.9958;NS=21;NUMALT=1;ODDS=46.1944;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24578;QR=118866;RO=3343;RPL=613;RPP=911.842;RPPR=4664.91;RPR=76;RUN=1;SAF=404;SAP=47.6405;SAR=285;SRF=2045;SRP=365.47;SRR=1298;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:253:132,121:132:4679:121:4301:-310.917,0,-345.112 0/1:146:78,68:78:2792:68:2436:-175.545,0,-207.57 0/1:101:53,48:53:1900:48:1724:-125.041,0,-140.874 0/0:303:301,1:301:10633:1:36:0,-87.6726,-953.292 0/0:358:357,1:357:12691:1:36:0,-104.17,-1138.42 0/0:220:217,3:217:7729:3:108:0,-56.1514,-685.571 0/0:468:468,0:468:16653:0:0:0,-140.882,-1498.44 0/1:214:102,112:102:3619:112:3954:-291.632,0,-261.495 0/0:324:322,2:322:11465:2:72:0,-90.697,-1024.89 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:18:18,0:18:640:0:0:0,-5.41854,-57.9293 0/1:76:45,31:45:1612:31:1112:-77.5131,0,-122.492 0/0:230:230,0:230:8161:0:0:0,-69.2369,-734.505 0/0:212:211,1:211:7509:1:36:0,-60.2201,-672.255 0/1:244:129,115:129:4618:115:4128:-298.252,0,-342.331 0/1:100:49,51:49:1725:51:1815:-133.528,0,-125.43 0/0:118:118,0:118:4192:0:0:0,-35.5215,-377.462 0/1:154:70,84:70:2483:84:3012:-224.952,0,-177.362 0/1:162:111,51:111:3967:51:1808:-114.235,0,-308.454 0/0:186:186,0:186:6598:0:0:0,-55.9916,-593.902 0/0:126:126,0:126:4480:0:0:0,-37.9298,-403.37 chr04 14983182 . C T 5374.24 PASS AB=0.444737;ABP=23.1707;AC=9;AF=0.214286;AN=42;AO=340;CIGAR=1X;DP=1786;DPB=1786;DPRA=1.17121;EPP=741.311;EPPR=3063.1;GTI=0;LEN=1;MEANALT=1;MQM=51.9706;MQMR=59.6304;NS=21;NUMALT=1;ODDS=16.9969;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12189;QR=51715;RO=1445;RPL=0;RPP=741.311;RPPR=3063.1;RPR=340;RUN=1;SAF=340;SAP=741.311;SAR=0;SRF=1445;SRP=3140.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:39,29:39:1400:29:1028:-72.0819,0,-105.829 0/1:93:47,46:47:1688:46:1656:-120.688,0,-124.203 0/1:71:45,26:45:1604:26:936:-62.9901,0,-123.253 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.324 0/0:161:159,2:159:5691:2:72:0,-41.6463,-505.456 0/0:87:87,0:87:3111:0:0:0,-26.1896,-280.2 0/0:149:148,0:148:5270:0:0:0,-44.5524,-474.17 0/1:59:27,32:27:968:32:1148:-85.6194,0,-69.6602 0/0:137:137,0:137:4920:0:0:0,-41.2411,-442.889 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2592 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:15:8,7:8:288:7:252:-18.4556,0,-21.2558 0/0:81:81,0:81:2900:0:0:0,-24.3834,-261.214 0/0:122:122,0:122:4367:0:0:0,-36.7257,-393.146 0/1:193:103,90:103:3664:90:3217:-230.708,0,-271.853 0/1:73:45,28:45:1616:28:1004:-68.4767,0,-123.755 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.299 0/1:65:31,34:31:1108:34:1220:-90.2752,0,-80.4284 0/1:123:77,46:77:2748:46:1656:-111.29,0,-210.405 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.203 0/0:65:65,0:65:2340:0:0:0,-19.5669,-210.843 chr04 15060523 . C T 65326.7 PASS AB=0.520581;ABP=7.56881;AC=33;AF=0.785714;AN=42;AO=2400;CIGAR=1X;DP=3003;DPB=3003;DPRA=0;EPP=5179.86;EPPR=1310.24;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9404;MQMR=59.9784;NS=21;NUMALT=1;ODDS=18.0253;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85354;QR=21291;RO=602;RPL=1023;RPP=116.394;RPPR=107.255;RPR=1377;RUN=1;SAF=1021;SAP=118.971;SAR=1379;SRF=216;SRP=107.255;SRR=386;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:209:111,98:111:3967:98:3501:-252.384,0,-294.306 0/1:105:51,54:51:1824:54:1940:-143.268,0,-132.805 0/1:142:71,71:71:2512:71:2544:-186.464,0,-183.585 1/1:144:0,144:0:0:144:5126:-461.452,-43.3483,0 1/1:263:4,258:4:135:258:9138:-809.91,-66.6228,0 1/1:99:1,98:1:36:98:3484:-310.164,-26.2037,0 1/1:193:0,193:0:0:193:6844:-616.028,-58.0988,0 0/1:154:67,87:67:2367:87:3109:-233.672,0,-166.928 1/1:237:0,237:0:0:237:8401:-756.095,-71.3441,0 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:51:29,22:29:1044:22:784:-55.5314,0,-78.9223 1/1:195:1,194:1:36:194:6930:-620.164,-55.1026,0 1/1:183:0,183:0:0:183:6474:-582.742,-55.0885,0 0/1:239:120,119:120:4211:119:4244:-310.192,0,-307.225 0/1:86:40,46:40:1408:46:1626:-120.734,0,-101.126 1/1:85:0,85:0:0:85:3055:-275.178,-25.5876,0 0/1:111:53,58:53:1853:58:2068:-152.977,0,-133.631 0/1:142:52,90:52:1826:90:3154:-241.23,0,-121.873 1/1:230:0,230:0:0:230:8169:-735.19,-69.2369,0 1/1:113:2,111:2:72:111:3975:-351.103,-27.1797,0 chr04 15060547 . G A 6549.89 PASS AB=0.50194;ABP=3.03558;AC=9;AF=0.214286;AN=42;AO=390;CIGAR=1X;DP=1762;DPB=1762;DPRA=0.944865;EPP=841.221;EPPR=2958.41;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9564;MQMR=59.992;NS=21;NUMALT=1;ODDS=6.61768;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13927;QR=48997;RO=1369;RPL=390;RPP=849.885;RPPR=2975.76;RPR=0;RUN=1;SAF=1;SAP=841.221;SAR=389;SRF=2;SRP=2958.41;SRR=1367;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:68,77:68:2440:77:2741:-203.282,0,-176.206 0/1:74:29,45:29:1027:45:1612:-123.065,0,-70.466 0/1:61:25,36:25:888:36:1292:-98.2209,0,-61.8762 0/0:96:96,0:96:3432:0:0:0,-28.8989,-309.094 0/0:136:136,0:136:4840:0:0:0,-40.9401,-435.755 0/0:37:36,1:36:1292:1:36:0,-7.53983,-112.985 0/0:128:126,0:126:4516:0:0:0,-37.9298,-406.244 0/1:127:73,54:73:2612:54:1936:-136.286,0,-197.097 0/0:127:127,0:127:4556:0:0:0,-38.2308,-410.205 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:29:12,17:12:428:17:608:-46.3222,0,-30.1289 0/0:88:87,1:87:3120:1:36:0,-22.8924,-277.428 0/0:115:115,0:115:4119:0:0:0,-34.6184,-370.889 0/1:133:63,69:63:2260:69:2454:-181.016,0,-163.567 0/1:49:28,21:28:1004:21:751:-53.1654,0,-75.9254 0/0:58:58,0:58:2088:0:0:0,-17.4597,-188.19 0/1:72:36,36:36:1292:36:1277:-93.558,0,-94.9096 0/1:83:50,33:50:1783:33:1184:-81.8805,0,-135.767 0/0:118:118,0:118:4224:0:0:0,-35.5215,-380.34 0/0:76:76,0:76:2716:0:0:0,-22.8783,-244.684 chr04 15240524 . G A 46087.8 PASS AB=0.539349;ABP=15.8272;AC=32;AF=0.761905;AN=42;AO=2135;CIGAR=1X;DP=2585;DPB=2585;DPRA=0;EPP=4630.42;EPPR=969.335;GTI=1;LEN=1;MEANALT=1.04762;MQM=56.6773;MQMR=59.9376;NS=21;NUMALT=1;ODDS=22.639;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76457;QR=16075;RO=449;RPL=1;RPP=4630.42;RPPR=969.335;RPR=2134;RUN=1;SAF=2135;SAP=4639.1;SAR=0;SRF=449;SRP=978.001;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:70,83:70:2497:83:2971:-220.357,0,-178.562 0/1:101:44,57:44:1584:57:2033:-151.9,0,-112.443 0/1:89:50,39:50:1785:39:1400:-98.0376,0,-134.139 1/1:199:0,199:0:0:199:7117:-637.092,-59.905,0 1/1:319:10,309:10:356:309:11068:-962.23,-63.6473,0 1/1:126:0,126:0:0:126:4501:-404.242,-37.9298,0 1/1:157:0,157:0:0:157:5636:-505.432,-47.2617,0 0/1:86:48,38:48:1724:38:1363:-96.955,0,-129.557 1/1:149:1,148:1:36:148:5308:-473.424,-41.2552,0 0/1:10:1,9:1:36:9:320:-26.062,0,-0.587975 1/1:5:0,5:0:0:5:173:-15.8436,-1.50515,0 0/1:27:19,8:19:684:8:288:-17.824,0,-53.761 1/1:257:0,257:0:0:257:9199:-826.177,-77.3647,0 1/1:104:0,104:0:0:104:3726:-334.909,-31.3071,0 0/1:189:82,107:82:2936:107:3833:-287.429,0,-207.577 0/1:113:49,64:49:1741:64:2284:-170.952,0,-122.956 1/1:102:0,102:0:0:102:3652:-328.702,-30.7051,0 0/1:95:43,52:43:1548:52:1864:-139.093,0,-111.014 0/1:89:32,57:32:1148:57:2044:-157.282,0,-76.8374 1/1:149:0,149:0:0:149:5337:-479.331,-44.8535,0 1/1:65:0,65:0:0:65:2340:-210.148,-19.567,0 chr04 15251252 . C T 3179.7 PASS AB=0.507937;ABP=3.21711;AC=9;AF=0.214286;AN=42;AO=193;CIGAR=1X;DP=883;DPB=883;DPRA=1.24614;EPP=422.104;EPPR=1490.48;GTI=0;LEN=1;MEANALT=1;MQM=59.9793;MQMR=60;NS=21;NUMALT=1;ODDS=6.34361;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6909;QR=24599;RO=689;RPL=0;RPP=422.104;RPPR=1490.48;RPR=193;RUN=1;SAF=193;SAP=422.104;SAR=0;SRF=689;SRP=1499.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:24,25:24:855:25:900:-66.5705,0,-62.5197 0/1:12:8,4:8:284:4:144:-9.70126,0,-22.291 0/1:39:14,25:14:496:25:900:-69.5808,0,-33.2341 0/0:29:29,0:29:1032:0:0:0,-8.72987,-93.1935 0/0:91:90,1:90:3216:1:36:0,-23.7955,-286.065 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/1:45:18,27:18:640:27:963:-73.4396,0,-44.383 0/0:62:62,0:62:2196:0:0:0,-18.6639,-197.906 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:36:15,21:15:532:21:756:-57.5301,0,-37.376 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/0:85:85,0:85:3043:0:0:0,-25.5875,-274.099 0/1:75:36,39:36:1283:39:1378:-101.738,0,-93.1954 0/1:20:14,6:14:500:6:216:-13.7699,0,-39.3156 0/0:9:8,0:8:288:0:0:0,-2.40824,-25.9076 0/1:65:31,34:31:1108:34:1220:-90.5399,0,-80.464 0/1:37:26,11:26:923:11:396:-24.8446,0,-72.2487 0/0:44:44,0:44:1563:0:0:0,-13.2453,-140.961 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 chr04 15262315 . GC CT,CC 16714.5 PASS AB=0.637795,0.362205;ABP=44.9009,44.9009;AC=33,9;AF=0.785714,0.214286;AN=42;AO=680,95;CIGAR=2X,1X1M;DP=776;DPB=776;DPRA=0,0.972121;EPP=1479.61,209.3;EPPR=0;GTI=2;LEN=2,1;MEANALT=1.57143,2;MQM=59.8794,59.9895;MQMR=0;NS=21;NUMALT=2;ODDS=1.98256;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24081,3375;QR=0;RO=0;RPL=0,0;RPP=1479.61,209.3;RPPR=0;RPR=680,95;RUN=1,1;SAF=680,95;SAP=1479.61,209.3;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:35:0,16,19:0:0:16,19:576,672:-102.089,-55.0873,-50.2708,-47.3585,0,-41.6389 1/2:14:0,12,2:0:0:12,2:428,72:-41.1211,-6.23466,-2.6223,-35.2458,0,-34.6438 1/2:26:0,21,5:0:0:21,5:756,180:-76.7327,-15.0469,-8.72528,-62.0456,0,-60.5404 1/1:60:0,59,0:0:0:59,0:2122,0:-190.997,-17.7608,0,-190.997,-17.7608,-190.997 1/1:51:0,51,0:0:0:51,0:1800,0:-162.268,-15.3525,0,-162.268,-15.3525,-162.268 1/1:34:0,34,0:0:0:34,0:1220,0:-110.107,-10.235,0,-110.107,-10.235,-110.107 1/1:83:0,81,2:0:0:81,2:2869,72:-258.069,-24.3834,0,-252.194,-18.1488,-251.592 1/2:27:0,11,16:0:0:11,16:394,568:-78.7688,-46.6354,-43.3241,-32.4902,0,-27.6737 1/1:74:0,74,0:0:0:74,0:2602,0:-234.427,-22.2762,0,-234.427,-22.2762,-234.427 1/1:4:0,4,0:0:0:4,0:129,0:-11.9282,-1.20412,0,-11.9282,-1.20412,-11.9282 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:27:0,16,11:0:0:16,11:566,396:-78.7683,-32.6714,-27.8549,-46.4541,0,-43.1428 1/1:46:0,46,0:0:0:46,0:1603,0:-144.397,-13.8474,0,-144.397,-13.8474,-144.397 1/1:47:0,47,0:0:0:47,0:1629,0:-146.891,-14.1484,0,-146.891,-14.1484,-146.891 1/2:29:0,13,16:0:0:13,16:464,576:-85.1845,-47.3585,-43.4451,-38.1841,0,-33.3676 1/2:10:0,6,4:0:0:6,4:216,144:-29.734,-12.1095,-10.3033,-17.9843,0,-16.7802 1/1:13:0,13,0:0:0:13,0:466,0:-42.2787,-3.91339,0,-42.2787,-3.91339,-42.2787 1/2:43:0,31,12:0:0:31,12:1114,423:-125.678,-34.7927,-25.4608,-91.2397,0,-87.6273 1/2:43:0,36,7:0:0:36,7:1241,236:-120.271,-19.4604,-8.62334,-101.149,0,-99.0415 1/1:64:0,63,1:0:0:63,1:2246,36:-202.008,-18.9649,0,-199.071,-15.6676,-198.77 1/1:40:0,40,0:0:0:40,0:1424,0:-128.457,-12.0412,0,-128.457,-12.0412,-128.457 chr04 15262341 . T A 15505.6 PASS AB=0.636364;ABP=43.8735;AC=33;AF=0.785714;AN=42;AO=684;CIGAR=1X;DP=779;DPB=779;DPRA=0;EPP=1344.31;EPPR=192.294;GTI=1;LEN=1;MEANALT=1;MQM=59.8728;MQMR=59.9895;NS=21;NUMALT=1;ODDS=1.294;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24460;QR=3401;RO=95;RPL=17;RPP=1344.31;RPPR=192.294;RPR=667;RUN=1;SAF=684;SAP=1488.3;SAR=0;SRF=95;SRP=209.3;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:35:19,16:19:684:16:567:-40.8247,0,-51.3543 0/1:14:2,12:2:72:12:417:-33.6442,0,-2.6223 0/1:26:5,21:5:180:21:752:-60.1795,0,-8.72528 1/1:60:0,60:0:0:60:2156:-194.304,-18.0618,0 1/1:51:0,51:0:0:51:1828:-164.79,-15.3525,0 1/1:34:0,34:0:0:34:1224:-110.467,-10.235,0 1/1:84:2,82:2:72:82:2952:-259.058,-18.4498,0 0/1:26:15,11:15:536:11:396:-28.156,0,-40.748 1/1:75:0,75:0:0:75:2666:-240.183,-22.5773,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:28:12,16:12:432:16:576:-43.7461,0,-30.7924 1/1:47:0,47:0:0:47:1684:-151.689,-14.1484,0 1/1:48:0,48:0:0:48:1724:-155.417,-14.4494,0 0/1:29:16,13:16:576:13:468:-33.7298,0,-43.4451 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:43:12,31:12:417:31:1112:-87.4471,0,-24.9159 0/1:42:7,35:7:252:35:1241:-99.3488,0,-10.3853 1/1:63:0,63:0:0:63:2217:-199.745,-18.9649,0 1/1:40:1,39:1:36:39:1404:-123.061,-8.44293,0 chr04 15281731 . C T 21244.4 PASS AB=0.350949;ABP=145.421;AC=33;AF=0.785714;AN=42;AO=920;CIGAR=1X;DP=1417;DPB=1417;DPRA=0;EPP=2000.76;EPPR=1080.06;GTI=3;LEN=1;MEANALT=1.04762;MQM=59.8098;MQMR=59.9456;NS=21;NUMALT=1;ODDS=3.51908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32696;QR=17550;RO=496;RPL=797;RPP=1075.24;RPPR=6.44263;RPR=123;RUN=1;SAF=797;SAP=1075.24;SAR=123;SRF=262;SRP=6.44263;SRR=234;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:90,53:90:3170:53:1908:-128.948,0,-242.461 0/1:77:61,16:61:2144:16:568:-28.2726,0,-170.043 0/1:48:38,10:38:1360:10:356:-17.9314,0,-108.251 1/1:44:1,43:1:36:43:1515:-133.044,-9.64705,0 1/1:108:7,101:7:248:101:3620:-302.292,-9.84705,0 1/1:39:0,39:0:0:39:1387:-125.128,-11.7402,0 1/1:60:1,59:1:36:59:2108:-185.963,-14.4635,0 0/1:94:65,29:65:2296:29:1028:-64.5362,0,-178.606 1/1:183:1,182:1:36:182:6449:-576.895,-51.4902,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 0/1:26:18,8:18:648:8:288:-18.4406,0,-50.8251 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 1/1:32:1,31:1:36:31:1088:-94.6097,-6.03469,0 0/1:117:84,33:84:2986:33:1184:-71.6474,0,-233.749 0/1:45:27,18:27:964:18:627:-43.1509,0,-73.5305 1/1:65:1,63:1:36:63:2221:-196.543,-16.0275,0 0/1:137:76,61:76:2679:61:2167:-154.055,0,-200.112 0/1:51:20,31:20:695:31:1104:-84.3179,0,-47.5179 1/1:56:5,51:5:180:51:1819:-147.438,-0.305615,0 1/1:47:0,47:0:0:47:1652:-148.929,-14.1484,0 chr04 15281827 . CACAG TACAC,CACAC 38402.3 PASS AB=0.48575,0.508055;ABP=4.43373,3.46504;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1420,420;CIGAR=1X3M1X,4M1X;DP=1857;DPB=1860.2;DPRA=0,1.14232;EPP=3077.82,915.029;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.14286,2.33333;MQM=59.5887,60;MQMR=0;NS=21;NUMALT=2;ODDS=7.94854;PAIRED=0,0;PAIREDR=0;PAO=9,8;PQA=265.5,233.5;PQR=0;PRO=0;QA=49266,14922;QR=0;RO=0;RPL=1419,420;RPP=3077.82,915.029;RPPR=0;RPR=1,0;RUN=1,1;SAF=1420,420;SAP=3086.5,915.029;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,52,53:0:0:52,53:1809,1883:-300.495,-153.42,-137.766,-147.054,0,-131.1 1/2:62:0,34,28:0:0:34,28:1193,985:-177.607,-80.5327,-70.2977,-97.4257,0,-88.9969 1/2:75:0,25,50:0:0:25,50:870,1771:-215.345,-144.621,-137.095,-71.074,0,-56.0225 1/1:54:0,53,0:0:0:53,0:1841,0:-165.402,-15.9546,0,-165.402,-15.9546,-165.402 1/1:133:0,126,7:0:0:126,7:4367,248:-392.829,-37.9298,0,-372.626,-17.4759,-370.518 1/1:108:0,106,1:0:0:106,1:3672,36:-330.336,-31.9092,0,-327.398,-28.9367,-327.097 1/1:149:0,144,0:0:0:144,0:5009,0:-450.512,-43.3483,0,-450.512,-43.3483,-450.512 1/2:116:0,49,65:0:0:49,65:1690,2308:-325.347,-188.065,-173.315,-137.285,0,-117.718 1/1:171:0,170,0:0:0:170,0:5943,0:-534.541,-51.1751,0,-534.541,-51.1751,-534.541 1/1:27:0,26,0:0:0:26,0:907,0:-81.5588,-7.82678,0,-81.5588,-7.82678,-81.5588 1/1:7:0,7,0:0:0:7,0:242,0:-22.092,-2.10721,0,-22.092,-2.10721,-22.092 1/2:66:0,32,34:0:0:32,34:1093,1208:-187.468,-98.7911,-89.1581,-89.0255,0,-78.7904 1/1:116:0,114,0:0:0:114,0:3950,0:-355.275,-34.3174,0,-355.275,-34.3174,-355.275 1/1:128:0,128,0:0:0:128,0:4439,0:-399.509,-38.5318,0,-399.509,-38.5318,-399.509 1/2:117:0,53,64:0:0:53,64:1844,2279:-336.013,-186.106,-170.151,-150.258,0,-130.993 1/2:102:0,50,52:0:0:50,52:1731,1856:-292.336,-151.666,-136.615,-141.021,0,-125.368 1/1:46:0,45,0:0:0:45,0:1553,0:-139.637,-13.5464,0,-139.637,-13.5464,-139.637 1/2:96:0,49,47:0:0:49,47:1660,1664:-270.466,-135.896,-121.146,-134.916,0,-120.767 1/2:65:0,48,17:0:0:48,17:1664,612:-185.408,-50.1828,-35.7334,-135.469,0,-130.352 1/1:38:0,38,0:0:0:38,0:1334,0:-120.353,-11.4391,0,-120.353,-11.4391,-120.353 1/1:73:0,71,2:0:0:71,2:2455,72:-220.774,-21.3731,0,-214.899,-15.1686,-214.297 chr04 15281840 . ATGG ATTA,ATTG 97089.4 PASS AB=0.52851,0.470264;ABP=14.5254,15.5372;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2788,783;CIGAR=2M2X,2M1X1M;DP=3587;DPB=3587;DPRA=0,1.17988;EPP=6057.08,1703.27;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.95238,2.33333;MQM=59.7478,60;MQMR=0;NS=21;NUMALT=2;ODDS=15.2031;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=98237,27841;QR=0;RO=0;RPL=1418,417;RPP=4.8048,10.2236;RPPR=0;RPR=1370,366;RUN=1,1;SAF=1418,417;SAP=4.8048,10.2236;SAR=1370,366;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:157:0,87,70:0:0:87,70:3035,2466:-447.94,-201.122,-174.932,-247.169,0,-226.097 1/2:144:0,79,65:0:0:79,65:2791,2328:-417.497,-190.213,-166.432,-227.64,0,-208.073 1/2:153:0,66,87:0:0:66,87:2338,3101:-443.574,-253.127,-233.259,-190.802,0,-164.613 1/1:205:0,205,0:0:0:205,0:7255,0:-652.732,-61.7112,0,-652.732,-61.7112,-652.732 1/1:272:0,257,13:0:0:257,13:9085,464:-817.22,-77.3647,0,-779.393,-39.54,-775.479 1/1:143:0,142,1:0:0:142,1:4947,36:-444.988,-42.7463,0,-442.051,-39.449,-441.75 1/1:246:0,246,0:0:0:246,0:8646,0:-778.024,-74.0534,0,-778.024,-74.0534,-778.024 1/2:228:0,112,116:0:0:112,116:4006,4118:-662.533,-335.886,-302.171,-327.003,0,-292.084 1/1:247:0,243,0:0:0:243,0:8595,0:-773.281,-73.1503,0,-773.281,-73.1503,-773.281 1/1:43:0,42,0:0:0:42,0:1492,0:-134.318,-12.6433,0,-134.318,-12.6433,-134.318 1/1:11:0,11,0:0:0:11,0:385,0:-34.9595,-3.31133,0,-34.9595,-3.31133,-34.9595 1/2:113:0,60,53:0:0:60,53:2113,1876:-325.173,-153.163,-135.102,-172.362,0,-156.408 1/1:210:0,210,0:0:0:210,0:7375,0:-663.724,-63.2163,0,-663.724,-63.2163,-663.724 1/1:208:0,208,0:0:0:208,0:7360,0:-662.448,-62.6142,0,-662.448,-62.6142,-662.448 1/2:264:0,134,130:0:0:134,130:4707,4643:-761.944,-378.899,-338.561,-383.399,0,-344.265 1/2:201:0,110,90:0:0:110,90:3843,3184:-572.039,-259.44,-226.326,-312.7,0,-285.607 1/1:120:0,114,0:0:0:114,0:3974,0:-357.478,-34.3174,0,-357.478,-34.3174,-357.478 1/2:228:0,112,115:0:0:112,115:3957,4098:-656.254,-334.028,-300.312,-322.221,0,-287.603 1/2:143:0,102,41:0:0:102,41:3591,1455:-411.234,-118.903,-88.1979,-292.685,0,-280.342 1/1:104:0,104,0:0:0:104,0:3637,0:-327.512,-31.3071,0,-327.512,-31.3071,-327.512 1/1:147:0,144,2:0:0:144,2:5105,72:-459.21,-43.3483,0,-453.335,-37.3735,-452.733 chr04 15639513 . T C 29909.1 PASS AB=0.660417;ABP=217.588;AC=31;AF=0.738095;AN=42;AO=1773;CIGAR=1X;DP=2104;DPB=2104;DPRA=0;EPP=3853.03;EPPR=721.768;GTI=2;LEN=1;MEANALT=1;MQM=32.9064;MQMR=47.8489;NS=21;NUMALT=1;ODDS=1.24756;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63201;QR=11842;RO=331;RPL=0;RPP=3853.03;RPPR=721.768;RPR=1773;RUN=1;SAF=0;SAP=3853.03;SAR=1773;SRF=0;SRP=721.768;SRR=331;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:33,105:33:1175:105:3741:-252.907,0,-62.5804 0/1:89:27,62:27:968:62:2186:-140.111,0,-58.8744 0/1:102:40,62:40:1440:62:2224:-146.097,0,-98.2252 1/1:93:0,93:0:0:93:3323:-260.443,-27.9958,0 1/1:271:1,270:1:36:270:9645:-759.356,-78.0004,0 1/1:119:0,119:0:0:119:4253:-323.271,-35.8226,0 1/1:158:1,157:1:36:157:5586:-422.697,-44.0142,0 0/1:91:39,52:39:1392:52:1853:-120.926,0,-96.4438 0/1:150:50,100:50:1788:100:3543:-225.449,0,-114.728 0/1:18:6,12:6:216:12:432:-28.5011,0,-14.1989 1/1:14:0,14:0:0:14:500:-38.6516,-4.21442,0 0/1:28:18,10:18:648:10:360:-19.7516,0,-49.6996 1/1:108:0,108:0:0:108:3828:-303.63,-32.5112,0 1/1:143:0,143:0:0:143:5073:-402.476,-43.0473,0 0/1:199:74,125:74:2643:125:4468:-293.899,0,-176.183 0/1:52:14,38:14:504:38:1368:-87.295,0,-29.9296 1/1:101:1,100:1:36:100:3573:-269.016,-26.8148,0 0/1:51:18,33:18:640:33:1182:-77.3053,0,-40.299 0/1:42:7,35:7:248:35:1251:-87.2433,0,-9.86772 1/1:90:2,88:2:72:88:3136:-242.256,-20.3158,0 1/1:47:0,47:0:0:47:1676:-127.041,-14.1484,0 chr04 15639523 . T G 29121.3 PASS AB=0.667715;ABP=236.091;AC=31;AF=0.738095;AN=42;AO=1763;CIGAR=1X;DP=2088;DPB=2088;DPRA=0;EPP=3831.32;EPPR=704.396;GTI=2;LEN=1;MEANALT=1.04762;MQM=32.8724;MQMR=47.9226;NS=21;NUMALT=1;ODDS=1.85852;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61791;QR=11493;RO=323;RPL=0;RPP=3831.32;RPPR=704.396;RPR=1763;RUN=1;SAF=0;SAP=3831.32;SAR=1763;SRF=0;SRP=704.396;SRR=323;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:31,104:31:1112:104:3664:-248.781,0,-58.437 0/1:87:26,61:26:932:61:2136:-137.634,0,-56.2827 0/1:101:41,60:41:1439:60:2103:-138.943,0,-98.5111 1/1:88:0,88:0:0:88:3106:-244.668,-26.4906,0 1/1:276:1,275:1:36:275:9599:-756.811,-79.5055,0 1/1:116:0,116:0:0:116:4042:-309.709,-34.9195,0 1/1:162:1,161:1:36:161:5689:-432.653,-45.2183,0 0/1:91:38,53:38:1356:53:1830:-120.819,0,-93.3963 0/1:153:48,105:48:1716:105:3695:-236.448,0,-107.46 0/1:18:6,12:6:216:12:416:-27.9177,0,-14.1989 1/1:14:0,14:0:0:14:489:-37.8968,-4.21442,0 0/1:28:18,10:18:635:10:357:-19.7333,0,-48.5612 1/1:106:0,106:0:0:106:3679:-294.25,-31.9092,0 1/1:139:0,139:0:0:139:4888:-389.378,-41.8432,0 0/1:194:70,124:70:2504:124:4342:-287.809,0,-165.498 0/1:53:14,39:14:496:39:1369:-88.2166,0,-28.9146 1/1:98:1,97:1:36:97:3426:-258.139,-25.9117,0 0/1:51:17,34:17:604:34:1181:-78.104,0,-37.4124 0/1:43:8,35:8:276:35:1207:-84.3555,0,-12.0769 1/1:88:2,86:2:72:86:3037:-235.533,-19.7137,0 1/1:47:1,44:1:27:44:1536:-114.408,-11.1877,0 chr04 15639571 . T C 4067.41 PASS AB=0.333333;ABP=238.253;AC=11;AF=0.261905;AN=42;AO=331;CIGAR=1X;DP=2146;DPB=2146;DPRA=1.08755;EPP=721.768;EPPR=3944.23;GTI=2;LEN=1;MEANALT=1;MQM=47.8157;MQMR=32.8606;NS=21;NUMALT=1;ODDS=2.59888;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11854;QR=64899;RO=1815;RPL=331;RPP=721.768;RPPR=3944.23;RPR=0;RUN=1;SAF=0;SAP=721.768;SAR=331;SRF=0;SRP=3944.23;SRR=1815;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:108,33:108:3865:33:1169:-61.1478,0,-261 0/1:89:62,27:62:2232:27:968:-58.8744,0,-142.86 0/1:103:62,41:62:2228:41:1472:-100.795,0,-146.135 0/0:95:95,0:95:3404:0:0:0,-28.5978,-266.85 0/0:280:279,1:279:9955:1:36:0,-80.7096,-780.381 0/0:118:118,0:118:4224:0:0:0,-35.5215,-320.68 0/0:166:165,1:165:5932:1:36:0,-46.4225,-447.621 0/1:93:53,40:53:1896:40:1440:-100.082,0,-123.832 0/1:155:106,49:106:3784:49:1752:-109.989,0,-241.169 0/1:18:12,6:12:432:6:216:-14.1989,0,-28.5011 0/0:14:14,0:14:504:0:0:0,-4.21442,-38.7926 0/1:28:10,18:10:360:18:644:-49.3517,0,-19.7516 0/0:109:109,0:109:3916:0:0:0,-32.8123,-309.322 0/0:143:143,0:143:5057:0:0:0,-43.0473,-399.173 0/1:200:127,73:127:4526:73:2609:-173.061,0,-297.671 0/1:53:39,14:39:1392:14:504:-29.6286,0,-89.3224 0/0:102:101,1:101:3632:1:36:0,-27.1158,-272.278 0/1:50:34,16:34:1224:16:576:-34.969,0,-80.5606 0/1:45:37,8:37:1309:8:288:-12.5288,0,-90.1066 0/0:96:94,2:94:3350:2:72:0,-22.1219,-258.722 0/0:48:47,1:47:1677:1:36:0,-11.2033,-123.342 chr04 15712402 . C T 36615.7 PASS AB=0.479545;ABP=7.80728;AC=31;AF=0.738095;AN=42;AO=1756;CIGAR=1X;DP=2446;DPB=2446;DPRA=0;EPP=3816.12;EPPR=1496.98;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9863;MQMR=59.9913;NS=21;NUMALT=1;ODDS=6.33483;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62946;QR=24639;RO=688;RPL=0;RPP=3816.12;RPPR=1496.98;RPR=1756;RUN=1;SAF=1756;SAP=3816.12;SAR=0;SRF=688;SRP=1496.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:51,95:51:1836:95:3393:-261.633,0,-121.57 0/1:81:38,43:38:1352:43:1531:-113.699,0,-97.5969 0/1:125:67,58:67:2396:58:2072:-149.122,0,-178.268 1/1:154:0,154:0:0:154:5528:-497.643,-46.3586,0 1/1:218:0,218:0:0:218:7824:-704.149,-65.6245,0 1/1:60:0,60:0:0:60:2156:-194.307,-18.0618,0 1/1:162:0,162:0:0:162:5804:-522.473,-48.7669,0 0/1:123:98,25:98:3508:25:896:-43.9337,0,-278.904 0/1:304:193,111:193:6908:111:3984:-267.236,0,-530.27 0/1:16:7,9:7:252:9:320:-24.3259,0,-18.2125 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:22:19,3:19:680:3:108:-3.45251,0,-54.9065 1/1:194:0,194:0:0:194:6964:-626.822,-58.3998,0 1/1:95:0,95:0:0:95:3404:-306.572,-28.5979,0 0/1:190:83,106:83:2980:106:3812:-286.021,0,-211.177 0/1:86:35,51:35:1260:51:1832:-139.272,0,-87.8169 1/1:90:1,89:1:36:89:3177:-282.555,-23.4944,0 0/1:113:55,58:55:1963:58:2071:-152.644,0,-142.928 0/1:114:40,74:40:1432:74:2654:-204.789,0,-94.8602 1/1:71:1,69:1:36:69:2468:-218.849,-17.7587,0 1/1:73:0,73:0:0:73:2624:-236.407,-21.9752,0 chr04 15712470 . C T 63673.4 PASS AB=0.558044;ABP=52.6701;AC=31;AF=0.738095;AN=42;AO=2961;CIGAR=1X;DP=3715;DPB=3715;DPRA=0;EPP=6363.44;EPPR=1631.63;GTI=0;LEN=1;MEANALT=1;MQM=59.8997;MQMR=59.8607;NS=21;NUMALT=1;ODDS=22.206;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=106109;QR=27023;RO=754;RPL=8;RPP=6363.44;RPPR=1631.63;RPR=2953;RUN=1;SAF=0;SAP=6432.74;SAR=2961;SRF=0;SRP=1640.3;SRR=754;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:53,83:53:1893:83:2968:-226.407,0,-129.706 0/1:87:29,58:29:1040:58:2084:-161.595,0,-67.7201 0/1:170:86,84:86:3092:84:3020:-220.855,0,-227.262 1/1:226:0,226:0:0:226:8100:-728.925,-68.0328,0 1/1:322:1,321:1:36:321:11548:-1035.58,-93.3334,0 1/1:156:1,155:1:36:155:5556:-496.563,-43.3624,0 1/1:322:0,322:0:0:322:11521:-1036.75,-96.9317,0 0/1:203:82,121:82:2948:121:4337:-329.393,0,-204.437 0/1:421:182,239:182:6490:239:8542:-642.025,0,-457.353 0/1:13:10,3:10:360:3:108:-6.16178,0,-28.8309 1/1:20:0,20:0:0:20:716:-64.7654,-6.0206,0 0/1:32:16,16:16:572:16:572:-42.1805,0,-42.1805 1/1:275:0,275:0:0:275:9846:-886.076,-82.7833,0 1/1:187:0,187:0:0:187:6656:-599.079,-56.2926,0 0/1:316:151,165:151:5424:165:5913:-437.092,0,-393.15 0/1:110:49,61:49:1760:61:2192:-164.432,0,-125.564 1/1:166:0,166:0:0:166:5960:-536.484,-49.971,0 0/1:94:50,44:50:1792:44:1584:-114.555,0,-133.263 0/1:115:42,73:42:1508:73:2624:-201.788,0,-101.396 1/1:247:1,246:1:36:246:8817:-788.802,-70.7561,0 1/1:97:1,96:1:36:96:3445:-306.593,-25.6016,0 chr04 15712488 . T A 12157.3 PASS AB=0.45339;ABP=34.1838;AC=11;AF=0.261905;AN=42;AO=751;CIGAR=1X;DP=3590;DPB=3590;DPRA=0.877339;EPP=1633.79;EPPR=6143.95;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8735;MQMR=59.9087;NS=21;NUMALT=1;ODDS=25.72;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26933;QR=99911;RO=2836;RPL=751;RPP=1633.79;RPPR=6143.95;RPR=0;RUN=1;SAF=0;SAP=1633.79;SAR=751;SRF=0;SRP=6161.31;SRR=2836;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:76,53:76:2686:53:1908:-133.165,0,-203.148 0/1:84:56,28:56:1985:28:1000:-65.0242,0,-153.591 0/1:165:79,86:79:2801:86:3076:-227.369,0,-202.66 0/0:216:216,0:216:7652:0:0:0,-65.0225,-688.631 0/0:309:307,1:307:10835:1:36:0,-89.4788,-971.465 0/0:149:148,1:148:5223:1:36:0,-41.2552,-466.612 0/0:306:306,0:306:10590:0:0:0,-92.1152,-953.032 0/1:194:113,81:113:3956:81:2903:-203.105,0,-297.832 0/1:412:232,180:232:8147:180:6461:-457.502,0,-609.213 0/1:13:3,10:3:108:10:360:-28.8309,0,-6.16178 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4043 0/1:30:14,16:14:496:16:572:-42.7825,0,-35.9434 0/0:262:261,0:261:9154:0:0:0,-78.5688,-823.561 0/0:181:181,0:181:6368:0:0:0,-54.4864,-573.061 0/1:312:161,151:161:5718:151:5405:-392.646,0,-420.686 0/1:109:58,51:58:2053:51:1832:-132.342,0,-152.228 0/0:163:163,0:163:5762:0:0:0,-49.0679,-518.652 0/1:94:43,51:43:1528:51:1836:-137.221,0,-109.516 0/1:110:68,42:68:2413:42:1508:-102.901,0,-184.312 0/0:233:233,0:233:8254:0:0:0,-70.14,-742.861 0/0:99:98,0:98:3470:0:0:0,-29.5009,-312.08 chr04 15734436 . T G 37984.3 PASS AB=0.507884;ABP=3.66084;AC=31;AF=0.738095;AN=42;AO=1771;CIGAR=1X;DP=2367;DPB=2367;DPRA=0;EPP=3600.92;EPPR=1201.26;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9486;MQMR=59.9664;NS=21;NUMALT=1;ODDS=14.5912;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62822;QR=21234;RO=595;RPL=1742;RPP=3600.92;RPPR=1201.26;RPR=29;RUN=1;SAF=0;SAP=3848.69;SAR=1771;SRF=0;SRP=1295.04;SRR=595;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:57,85:57:2036:85:3026:-229.824,0,-140.766 0/1:100:61,39:61:2184:39:1392:-95.476,0,-166.723 0/1:167:90,77:90:3209:77:2748:-197.291,0,-238.76 1/1:166:0,166:0:0:166:5918:-532.36,-49.971,0 1/1:246:2,244:2:68:244:8644:-771.464,-67.5957,0 1/1:58:0,58:0:0:58:2063:-185.941,-17.4597,0 1/1:95:0,95:0:0:95:3380:-304.412,-28.5979,0 0/1:124:48,76:48:1712:76:2682:-204.297,0,-117.038 0/1:67:42,25:42:1504:25:900:-61.152,0,-115.486 0/1:16:11,5:11:380:5:171:-10.909,0,-29.7155 1/1:8:0,8:0:0:8:279:-25.4475,-2.40824,0 0/1:38:18,20:18:640:20:712:-52.9675,0,-46.4902 1/1:104:0,104:0:0:104:3679:-331.317,-31.3071,0 1/1:128:0,127:0:0:127:4498:-404.632,-38.2308,0 0/1:217:111,106:111:3956:106:3775:-274.626,0,-290.777 0/1:108:46,62:46:1637:62:2215:-167.103,0,-115.105 1/1:113:0,113:0:0:113:4002:-360.372,-34.0164,0 0/1:137:71,66:71:2552:66:2312:-167.096,0,-188.689 0/1:89:38,51:38:1356:51:1815:-136.839,0,-95.5488 1/1:164:0,164:0:0:164:5802:-522.301,-49.3689,0 1/1:80:0,80:0:0:80:2809:-253.046,-24.0824,0 chr04 15734768 . C T 11915.7 PASS AB=0.446826;ABP=32.8005;AC=11;AF=0.261905;AN=42;AO=546;CIGAR=1X;DP=2504;DPB=2504;DPRA=1.01208;EPP=1188.63;EPPR=4239.56;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.9634;MQMR=59.9407;NS=21;NUMALT=1;ODDS=22.754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19527;QR=69116;RO=1955;RPL=272;RPP=3.02621;RPPR=67.5225;RPR=274;RUN=1;SAF=272;SAP=3.02621;SAR=274;SRF=858;SRP=66.4562;SRR=1097;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:61,66:61:2111:66:2364:-174.781,0,-152.024 0/1:97:56,41:56:1993:41:1468:-103.216,0,-150.442 0/1:85:49,36:49:1741:36:1283:-90.1851,0,-131.385 0/0:193:193,0:193:6819:0:0:0,-58.0988,-613.782 0/0:251:248,2:248:8807:2:72:0,-68.6755,-785.837 0/0:117:115,1:115:4042:1:36:0,-31.681,-360.37 0/0:188:188,0:188:6650:0:0:0,-56.5936,-598.585 0/1:121:67,54:67:2329:54:1896:-134.488,0,-173.441 0/1:202:106,96:106:3754:96:3444:-249.364,0,-276.232 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:32:14,18:14:481:18:648:-49.0156,0,-33.9821 0/0:95:94,1:94:3332:1:36:0,-24.9996,-296.499 0/0:124:124,0:124:4350:0:0:0,-37.3277,-391.613 0/1:176:97,79:97:3405:79:2824:-201.418,0,-253.682 0/1:94:47,46:47:1676:46:1644:-119.892,0,-122.772 0/0:81:81,0:81:2871:0:0:0,-24.3834,-258.611 0/1:110:54,56:54:1928:56:2012:-148.238,0,-140.683 0/1:160:116,44:116:4144:44:1584:-94.6867,0,-324.98 0/0:142:142,0:142:5057:0:0:0,-42.7463,-455.274 0/0:94:94,0:94:3302:0:0:0,-28.2968,-296.773 chr04 15738460 . AATTCA AATTTTCA,AGTTTTCA 40949.8 PASS AB=0.411386,0.585392;ABP=66.5101,61.9759;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1431,551;CIGAR=2M2I4M,1M2I1X4M;DP=1990;DPB=2653;DPRA=0,1.05226;EPP=3110.39,1199.49;EPPR=0;GTI=0;LEN=2,8;MEANALT=2.04762,2.35714;MQM=59.8001,54.0653;MQMR=0;NS=21;NUMALT=2;ODDS=5.82594;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49396,19481;QR=0;RO=0;RPL=1431,551;RPP=3110.39,1199.49;RPPR=0;RPR=0,0;RUN=1,1;SAF=1431,551;SAP=3110.39,1199.49;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:122:0,54,66:0:0:54,66:1855,2319:-339.107,-188.485,-172.229,-150.671,0,-130.803 1/2:121:0,42,78:0:0:42,78:1456,2744:-340.672,-222.384,-209.74,-118.277,0,-94.7963 1/2:89:0,40,49:0:0:40,49:1373,1752:-254.576,-143.104,-131.063,-111.821,0,-97.0702 1/1:163:0,161,0:0:0:161,0:5584,0:-502.418,-48.4658,0,-502.418,-48.4658,-502.418 1/1:228:0,224,3:0:0:224,3:7725,106:-694.669,-67.4307,0,-686.042,-58.8091,-685.139 1/1:116:0,116,0:0:0:116,0:4002,0:-360.358,-34.9195,0,-360.358,-34.9195,-360.358 1/1:115:0,112,2:0:0:112,2:3882,72:-349.219,-33.7154,0,-343.36,-27.8574,-342.758 1/2:93:0,31,62:0:0:31,62:1059,2221:-267.068,-181.135,-171.803,-86.2794,0,-67.6155 1/2:138:0,38,100:0:0:38,100:1310,3543:-394.623,-288.218,-276.779,-106.752,0,-76.6493 1/2:6:0,5,1:0:0:5,1:172,36:-17.2482,-3.29214,-1.78699,-14.3128,0,-14.0118 1/1:6:0,6,0:0:0:6,0:203,0:-18.5918,-1.80618,0,-18.5918,-1.80618,-18.5918 1/2:53:0,23,30:0:0:23,30:801,1054:-151.117,-85.9831,-79.0594,-65.483,0,-56.4521 1/1:128:0,128,0:0:0:128,0:4389,0:-395.177,-38.5318,0,-395.177,-38.5318,-395.177 1/1:92:0,91,0:0:0:91,0:3168,0:-285.128,-27.3937,0,-285.128,-27.3937,-285.128 1/2:61:0,30,31:0:0:30,31:1022,1101:-172.903,-89.9981,-80.9672,-83.2526,0,-73.9207 1/2:114:0,42,72:0:0:42,72:1445,2507:-320.851,-203.506,-190.863,-117.69,0,-96.016 1/1:80:0,80,0:0:0:80,0:2786,0:-250.956,-24.0824,0,-250.956,-24.0824,-250.956 1/2:67:0,29,38:0:0:29,38:996,1349:-190.821,-109.952,-101.222,-81.2169,0,-69.7777 1/2:67:0,49,18:0:0:49,18:1723,643:-192.979,-52.7302,-37.9797,-140.604,0,-135.185 1/1:75:0,74,1:0:0:74,1:2539,34:-228.413,-22.2762,0,-225.658,-19.1816,-225.357 1/1:56:0,56,0:0:0:56,0:1906,0:-171.804,-16.8577,0,-171.804,-16.8577,-171.804 chr04 15739994 . A G 45914.7 PASS AB=0.529289;ABP=13.695;AC=31;AF=0.738095;AN=42;AO=2175;CIGAR=1X;DP=2854;DPB=2854;DPRA=0;EPP=4708.61;EPPR=1477.44;GTI=0;LEN=1;MEANALT=1;MQM=59.9393;MQMR=60;NS=21;NUMALT=1;ODDS=23.4759;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77803;QR=24309;RO=679;RPL=2175;RPP=4725.96;RPPR=1477.44;RPR=0;RUN=1;SAF=2;SAP=4708.61;SAR=2173;SRF=0;SRP=1477.44;SRR=679;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:189:82,107:82:2948:107:3834:-288.358,0,-208.658 0/1:117:52,65:52:1864:65:2332:-174.911,0,-132.819 0/1:92:52,40:52:1868:40:1420:-100.397,0,-140.705 1/1:206:0,206:0:0:206:7367:-663.076,-62.0122,0 1/1:234:0,234:0:0:234:8400:-756.001,-70.441,0 1/1:101:1,100:1:36:100:3588:-319.528,-26.8058,0 1/1:340:2,338:2:72:338:12068:-1078.63,-95.5135,0 0/1:192:92,100:92:3292:100:3572:-263.887,0,-238.702 0/1:212:112,100:112:4004:100:3576:-258.229,0,-296.732 0/1:33:12,21:12:428:21:756:-58.4332,0,-28.9248 1/1:12:0,12:0:0:12:416:-37.7698,-3.61236,0 0/1:75:42,33:42:1500:33:1188:-84.6513,0,-112.717 1/1:151:1,150:1:36:150:5379:-480.642,-41.8573,0 1/1:85:0,85:0:0:85:3052:-274.909,-25.5876,0 0/1:256:117,139:117:4165:139:4952:-368.769,0,-297.969 0/1:73:38,35:38:1364:35:1244:-90.2895,0,-101.086 1/1:75:0,75:0:0:75:2696:-242.884,-22.5773,0 0/1:106:53,53:53:1908:53:1895:-138.912,0,-140.088 0/1:89:23,66:23:824:66:2364:-186.227,0,-47.6916 1/1:137:0,137:0:0:137:4880:-439.342,-41.2411,0 1/1:79:0,79:0:0:79:2824:-254.399,-23.7814,0 chr04 15913630 . C G 21273.4 PASS AB=0.457045;ABP=17.0017;AC=31;AF=0.738095;AN=42;AO=1051;CIGAR=1X;DP=1526;DPB=1526;DPRA=0;EPP=2285.23;EPPR=1034.46;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.02999;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37319;QR=16969;RO=475;RPL=0;RPP=2285.23;RPPR=1034.46;RPR=1051;RUN=1;SAF=0;SAP=2285.23;SAR=1051;SRF=0;SRP=1034.46;SRR=475;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:53,39:53:1900:39:1396:-98.2443,0,-143.583 0/1:71:49,22:49:1748:22:792:-50.2325,0,-136.231 0/1:84:51,33:51:1828:33:1172:-80.5004,0,-139.514 1/1:44:0,44:0:0:44:1563:-140.961,-13.2453,0 1/1:143:0,143:0:0:143:5107:-459.774,-43.0473,0 1/1:98:1,97:1:36:97:3443:-306.484,-25.9027,0 1/1:108:0,108:0:0:108:3847:-346.427,-32.5112,0 0/1:170:79,91:79:2813:91:3228:-239.567,0,-202.233 0/1:124:73,51:73:2608:51:1808:-125.674,0,-197.641 0/1:10:5,5:5:167:5:180:-13.5418,0,-12.3481 1/1:9:0,9:0:0:9:316:-28.7789,-2.70927,0 0/1:16:6,10:6:216:10:356:-27.5648,0,-14.974 1/1:49:0,49:0:0:49:1713:-154.451,-14.7505,0 1/1:46:0,46:0:0:46:1625:-146.537,-13.8474,0 0/1:150:86,64:86:3084:64:2253:-157.875,0,-232.633 0/1:33:19,14:19:680:14:496:-35.0403,0,-51.5952 1/1:57:0,57:0:0:57:2032:-183.153,-17.1587,0 0/1:87:43,44:43:1529:44:1568:-115.222,0,-111.711 0/1:36:10,26:10:360:26:924:-72.6406,0,-21.9072 1/1:62:0,62:0:0:62:2184:-196.824,-18.6639,0 1/1:37:0,37:0:0:37:1316:-118.742,-11.1381,0 chr04 15930672 . G A,T 7791.17 PASS AB=0.530184,0.469816;ABP=6.02528,6.02528;AC=30,12;AF=0.714286,0.285714;AN=42;AO=497,189;CIGAR=1X,1X;DP=686;DPB=686;DPRA=3.38,1.20493;EPP=1082.23,413.419;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.5,1.90909;MQM=25.0845,25.3704;MQMR=0;NS=21;NUMALT=2;ODDS=1.18082;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17777,6780;QR=0;RO=0;RPL=497,189;RPP=1082.23,413.419;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1082.23,413.419;SAR=497,189;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:19:0,8,11:0:0:8,11:288,381:-35.7273,-20.3697,-17.9614,-15.6002,0,-12.2888 2/2:10:0,0,10:0:0:0,10:0,360:-21.5991,-21.5991,-21.5991,-3.0103,-3.0103,0 1/2:28:0,10,18:0:0:10,18:360,648:-55.2694,-35.9973,-32.987,-19.5221,0,-14.1035 1/1:17:0,17,0:0:0:17,0:605,0:-37.7498,-5.11751,0,-37.7498,-5.11751,-37.7498 1/1:45:0,45,0:0:0:45,0:1593,0:-98.6526,-13.5464,0,-98.6526,-13.5464,-98.6526 1/1:14:0,14,0:0:0:14,0:500,0:-30.1101,-4.21442,0,-30.1101,-4.21442,-30.1101 1/1:44:0,44,0:0:0:44,0:1567,0:-93.1575,-13.2453,0,-93.1575,-13.2453,-93.1575 1/2:45:0,25,20:0:0:25,20:896,720:-90.0337,-40.0382,-32.5124,-50.2506,0,-44.23 1/2:21:0,12,9:0:0:12,9:432,324:-39.1732,-17.1728,-13.5605,-22.2405,0,-19.5313 1/2:66:0,40,26:0:0:40,26:1436,936:-132.345,-52.1355,-40.0943,-80.4653,0,-72.6386 1/1:19:0,19,0:0:0:19,0:669,0:-40.2461,-5.71957,0,-40.2461,-5.71957,-40.2461 1/2:30:0,20,10:0:0:20,10:716,360:-60.0906,-20.3557,-14.3351,-39.9908,0,-36.9805 1/1:39:0,39,0:0:0:39,0:1404,0:-86.7482,-11.7402,0,-86.7482,-11.7402,-86.7482 1/1:24:0,24,0:0:0:24,0:860,0:-52.8028,-7.22472,0,-52.8028,-7.22472,-52.8028 1/2:60:0,24,36:0:0:24,36:864,1291:-114.322,-68.0944,-60.8697,-46.4731,0,-35.6361 1/2:10:0,5,5:0:0:5,5:176,180:-19.397,-9.84262,-8.33747,-9.80058,0,-8.29543 1/1:16:0,16,0:0:0:16,0:576,0:-35.7701,-4.81648,0,-35.7701,-4.81648,-35.7701 1/2:83:0,44,39:0:0:44,39:1576,1400:-165.829,-78.2759,-65.0306,-87.8086,0,-76.0685 1/2:19:0,14,5:0:0:14,5:504,180:-36.2702,-9.49272,-5.2783,-27.0184,0,-25.5132 1/1:56:0,56,0:0:0:56,0:2012,0:-129.241,-16.8577,0,-129.241,-16.8577,-129.241 1/1:21:0,21,0:0:0:21,0:743,0:-45.0128,-6.32163,0,-45.0128,-6.32163,-45.0128 chr04 15997946 . AG AT 37848.7 PASS AB=0.558795;ABP=33.9068;AC=31;AF=0.738095;AN=42;AO=1793;CIGAR=1M1X;DP=2251;DPB=2251;DPRA=0;EPP=3896.46;EPPR=973.678;GTI=1;LEN=1;MEANALT=1.33333;MQM=59.8544;MQMR=59.9667;NS=21;NUMALT=1;ODDS=8.06937;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63820;QR=15774;RO=451;RPL=0;RPP=3896.46;RPPR=973.678;RPR=1793;RUN=1;SAF=0;SAP=3896.46;SAR=1793;SRF=0;SRP=982.344;SRR=451;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:40,64:40:1374:64:2285:-174.244,0,-92.2855 0/1:93:34,58:34:1165:58:2031:-154.928,0,-77.0938 0/1:105:47,58:47:1672:58:2084:-156.222,0,-119.158 1/1:125:0,125:0:0:125:4458:-401.381,-37.6288,0 1/1:288:2,285:2:72:285:10095:-901.645,-79.9121,0 1/1:96:0,96:0:0:96:3424:-307.232,-28.8989,0 1/1:179:1,178:1:36:178:6340:-567.044,-50.2861,0 0/1:154:71,83:71:2518:83:2976:-221.709,0,-180.512 0/1:198:79,118:79:2735:118:4210:-319.441,0,-186.778 0/1:12:3,8:3:106:8:288:-22.6855,0,-6.26519 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:13:6,7:6:214:7:252:-19.1156,0,-15.6944 1/1:170:0,170:0:0:170:6070:-546.399,-51.1751,0 1/1:105:0,105:0:0:105:3748:-337.516,-31.6082,0 0/1:126:64,61:64:2282:61:2180:-158.553,0,-167.731 0/1:87:42,45:42:1478:45:1578:-116.117,0,-107.124 1/1:103:0,103:0:0:103:3659:-329.511,-31.0061,0 0/1:94:44,49:44:1512:49:1728:-127.416,0,-108.011 0/1:42:18,24:18:610:24:845:-63.7238,0,-42.5719 1/1:107:0,107:0:0:107:3815:-343.546,-32.2102,0 1/1:39:0,39:0:0:39:1398:-126.118,-11.7402,0 chr04 16445052 . C T 2882.86 PASS AB=0.428899;ABP=22.1551;AC=11;AF=0.261905;AN=42;AO=190;CIGAR=1X;DP=896;DPB=896;DPRA=1.09169;EPP=415.59;EPPR=1533.9;GTI=1;LEN=1;MEANALT=1;MQM=59.7316;MQMR=59.9078;NS=21;NUMALT=1;ODDS=0.868941;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6836;QR=25277;RO=705;RPL=0;RPP=415.59;RPPR=1533.9;RPR=190;RUN=1;SAF=190;SAP=415.59;SAR=0;SRF=705;SRP=1533.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:41,28:41:1460:28:1008:-70.2583,0,-110.925 0/1:48:29,19:29:1044:19:684:-47.44,0,-79.8254 0/1:49:24,25:24:864:25:900:-66.5705,0,-63.3321 0/0:48:47,0:47:1684:0:0:0,-14.1484,-150.549 0/0:94:93,1:93:3340:1:34:0,-24.8979,-297.411 0/0:40:40,0:40:1428:0:0:0,-12.0412,-128.818 0/0:71:71,0:71:2552:0:0:0,-21.3731,-229.93 0/1:16:13,3:13:468:3:108:-5.25869,0,-37.6432 0/1:85:46,39:46:1652:39:1402:-100.879,0,-123.373 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:1,9:1:36:9:324:-26.4956,0,-0.587975 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.912 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 0/1:37:24,13:24:860:13:468:-31.3192,0,-66.5837 0/1:22:15,7:15:525:7:252:-16.4054,0,-40.9554 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 0/1:49:18,31:18:644:31:1116:-85.9905,0,-43.5401 0/1:42:32,10:32:1144:10:360:-20.101,0,-90.6263 0/0:43:41,2:41:1476:2:72:0,-6.10757,-126.299 0/0:46:46,0:46:1640:0:0:0,-13.8474,-147.889 chr04 16499335 . G A 5195.74 PASS AB=0.451923;ABP=17.626;AC=11;AF=0.261905;AN=42;AO=331;CIGAR=1X;DP=1629;DPB=1629;DPRA=0.763517;EPP=721.768;EPPR=2812.9;GTI=1;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.443383;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11763;QR=46007;RO=1294;RPL=330;RPP=713.108;RPPR=2804.22;RPR=1;RUN=1;SAF=330;SAP=713.108;SAR=1;SRF=1293;SRP=2804.22;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:27,31:27:959:31:1108:-82.5713,0,-69.1657 0/1:30:15,15:15:532:15:528:-38.8191,0,-39.1822 0/1:102:47,55:47:1656:55:1960:-145.97,0,-118.62 0/0:109:108,1:108:3835:1:36:0,-29.214,-341.748 0/0:142:142,0:142:5042:0:0:0,-42.7463,-453.929 0/0:40:40,0:40:1424:0:0:0,-12.0412,-128.457 0/0:123:122,0:122:4359:0:0:0,-36.7257,-392.236 0/1:58:28,30:28:996:30:1064:-78.6119,0,-72.4951 0/1:165:87,76:87:3083:76:2710:-194.717,0,-228.272 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:14:6,8:6:212:8:284:-21.6889,0,-15.2104 0/0:204:204,0:204:7253:0:0:0,-61.4101,-652.828 0/0:116:116,0:116:4134:0:0:0,-34.9195,-372.244 0/1:132:78,54:78:2761:54:1920:-133.341,0,-208.995 0/1:28:18,10:18:636:10:341:-22.5889,0,-49.1392 0/0:56:55,0:55:1972:0:0:0,-16.5566,-177.395 0/1:76:42,34:42:1473:34:1204:-85.7876,0,-109.984 0/1:55:46,9:46:1636:9:320:-12.5857,0,-130.972 0/0:65:64,1:64:2288:1:36:0,-15.9687,-202.583 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 chr04 16775697 . ACCTT ACTT 0.598413 PASS AB=0.146953;ABP=305.063;AC=7;AF=0.166667;AN=42;AO=44;CIGAR=1M1D3M;DP=706;DPB=697.2;DPRA=1.12446;EPP=98.5551;EPPR=27.4179;GTI=6;LEN=1;MEANALT=1.22222;MQM=59.6818;MQMR=32.9985;NS=21;NUMALT=1;ODDS=1.92935;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1561;QR=22970;RO=658;RPL=0;RPP=98.5551;RPPR=27.4179;RPR=44;RUN=1;SAF=44;SAP=98.5551;SAR=0;SRF=658;SRP=1431.84;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:24,6:24:823:6:216:-10.7533,0,-46.5039 0/0:24:21,2:21:737:2:72:0,-0.363349,-40.3558 0/1:40:34,6:34:1181:6:216:-7.74931,0,-63.2873 0/0:34:34,0:34:1178:0:0:0,-10.235,-78.9253 0/0:34:34,0:34:1189:0:0:0,-10.235,-81.9995 0/0:22:22,0:22:767:0:0:0,-6.62266,-55.365 0/0:31:31,0:31:1093:0:0:0,-9.33193,-86.7541 0/1:43:37,6:37:1277:6:216:-6.84622,0,-70.9085 0/1:60:50,9:50:1753:9:316:-10.7694,0,-92.1977 0/0:8:8,0:8:287:0:0:0,-2.40824,-17.6539 0/0:5:4,0:4:142:0:0:0,-1.20412,-9.276 0/0:20:19,1:19:674:1:36:0,-2.42232,-36.9282 0/0:74:73,0:73:2571:0:0:0,-21.9752,-171.932 0/0:43:43,0:43:1455:0:0:0,-12.9443,-107.839 0/1:54:47,7:47:1645:7:237:-5.40344,0,-87.1006 0/0:14:14,0:14:473:0:0:0,-4.21442,-32.6059 0/0:18:18,0:18:636:0:0:0,-5.41854,-41.9215 0/1:29:25,4:25:856:4:144:-4.58375,0,-49.6147 0/1:23:20,3:20:707:3:108:-3.14508,0,-37.0845 0/0:79:79,0:79:2803:0:0:0,-23.7814,-192.637 0/0:21:21,0:21:723:0:0:0,-6.32163,-55.4083 chr04 16775703 . T A 1477.44 PASS AB=0.409692;ABP=51.2514;AC=22;AF=0.52381;AN=42;AO=286;CIGAR=1X;DP=689;DPB=689;DPRA=0;EPP=624.051;EPPR=3.27433;GTI=1;LEN=1;MEANALT=1;MQM=25.0559;MQMR=41.3648;NS=21;NUMALT=1;ODDS=16.7713;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10196;QR=14404;RO=403;RPL=286;RPP=624.051;RPPR=3.27433;RPR=0;RUN=1;SAF=286;SAP=624.051;SAR=0;SRF=403;SRP=878.114;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:21,9:21:744:9:324:-11.1977,0,-46.4479 0/1:24:4,20:4:144:20:710:-37.3174,0,-5.21045 0/1:40:25,15:25:900:15:536:-20.8565,0,-51.3381 0/1:34:21,13:21:744:13:456:-18.8334,0,-41.1452 0/1:34:21,13:21:756:13:468:-19.4079,0,-45.3787 0/1:22:12,10:12:424:10:360:-15.7412,0,-27.8615 0/1:31:21,10:21:756:10:356:-13.0753,0,-56.6876 0/1:41:26,15:26:936:15:536:-21.1663,0,-55.6454 0/1:60:30,30:30:1076:30:1072:-49.3126,0,-58.9504 1/1:8:1,7:1:36:7:252:-13.7016,-0.321655,0 0/1:5:2,3:2:72:3:100:-5.4688,0,-3.52719 0/1:19:11,8:11:396:8:288:-12.8881,0,-17.8948 0/1:73:43,30:43:1539:30:1061:-43.3398,0,-85.4543 0/1:37:16,21:16:563:21:737:-34.4582,0,-36.2623 0/1:54:27,27:27:960:27:964:-44.3853,0,-49.8828 0/1:12:5,7:5:180:7:252:-12.1758,0,-10.1582 0/1:18:14,4:14:504:4:144:-3.70901,0,-27.6716 0/1:28:18,10:18:640:10:360:-14.1853,0,-39.8172 0/1:22:15,7:15:540:7:252:-9.16554,0,-29.6186 0/1:77:55,22:55:1962:22:792:-25.9121,0,-116.392 0/1:20:15,5:15:532:5:176:-5.28513,0,-36.8835 chr04 17074215 . AGG CGA,CGG 68024.2 PASS AB=0.511557,0.484793;ABP=4.9176,6.31242;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2419,802;CIGAR=1X1M1X,1X2M;DP=3230;DPB=3230;DPRA=0,1.13959;EPP=5255.8,1744.53;EPPR=7.35324;GTI=0;LEN=3,1;MEANALT=1.95238,2.35714;MQM=59.9719,59.9626;MQMR=60;NS=21;NUMALT=2;ODDS=5.80687;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=85117,28651;QR=53;RO=2;RPL=0,0;RPP=5255.8,1744.53;RPPR=7.35324;RPR=2419,802;RUN=1,1;SAF=2419,802;SAP=5255.8,1744.53;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:124:0,58,66:0:0:58,66:2058,2338:-358.487,-190.81,-173.35,-168.031,0,-148.163 1/2:117:1,51,65:1:26:51,65:1796,2332:-334.078,-188.274,-174.959,-144.161,0,-126.631 1/2:181:0,100,80:0:0:100,80:3517,2868:-520.198,-233.915,-203.812,-286.279,0,-262.196 1/1:198:0,198,0:0:0:198,0:6962,0:-626.656,-59.6039,0,-626.656,-59.6039,-626.656 1/1:183:0,183,0:0:0:183,0:6412,0:-577.176,-55.0885,0,-577.176,-55.0885,-577.176 1/1:182:0,179,2:0:0:179,2:6278,72:-564.812,-53.8844,0,-558.937,-47.903,-558.335 1/1:236:0,236,0:0:0:236,0:8242,0:-741.809,-71.0431,0,-741.809,-71.0431,-741.809 1/2:172:0,80,91:0:0:80,91:2817,3256:-494.841,-265.507,-241.425,-229.328,0,-201.935 1/2:386:0,197,189:0:0:197,189:6977,6748:-1118.58,-550.231,-490.928,-568.7,0,-511.806 1/2:11:0,8,3:0:0:8,3:288,108:-32.6714,-9.17208,-6.76384,-23.8592,0,-22.9561 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:21:0,11,10:0:0:11,10:386,347:-59.9688,-28.5533,-25.242,-31.7642,0,-28.7539 1/1:284:0,282,1:0:0:282,1:10001,36:-899.718,-84.8905,0,-896.781,-81.9131,-896.48 1/1:127:0,126,0:0:0:126,0:4428,0:-398.338,-37.9298,0,-398.338,-37.9298,-398.338 1/2:291:1,148,142:1:27:148,142:5231,5071:-837.117,-411.39,-368.966,-423.984,0,-383.366 1/2:123:0,59,62:0:0:59,62:2063,2228:-349.584,-181.76,-163.999,-167.818,0,-149.154 1/1:174:0,174,0:0:0:174,0:6117,0:-550.637,-52.3792,0,-550.637,-52.3792,-550.637 1/2:151:0,84,67:0:0:84,67:2960,2383:-435.551,-194.557,-169.271,-241.348,0,-221.179 1/2:67:0,45,22:0:0:45,22:1572,792:-192.841,-64.983,-51.4367,-128.214,0,-121.591 1/1:135:0,133,2:0:0:133,2:4630,72:-416.511,-40.037,0,-410.636,-33.8023,-410.034 1/1:58:0,58,0:0:0:58,0:2058,0:-185.49,-17.4597,0,-185.49,-17.4597,-185.49 chr04 17074326 . G A 44424.6 PASS AB=0.523392;ABP=9.51202;AC=32;AF=0.761905;AN=42;AO=2115;CIGAR=1X;DP=2770;DPB=2770;DPRA=0;EPP=4595.67;EPPR=1392.87;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.8468;MQMR=59.819;NS=21;NUMALT=1;ODDS=11.3319;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75404;QR=23108;RO=652;RPL=0;RPP=4595.67;RPPR=1392.87;RPR=2115;RUN=1;SAF=0;SAP=4595.67;SAR=2115;SRF=0;SRP=1418.81;SRR=652;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:144:75,69:75:2654:69:2456:-177.944,0,-195.055 0/1:107:44,63:44:1563:63:2245:-169.828,0,-108.746 0/1:111:45,66:45:1586:66:2337:-177.145,0,-109.613 1/1:181:1,180:1:36:180:6390:-571.561,-50.8882,0 1/1:219:1,218:1:36:218:7762:-694.983,-62.3273,0 1/1:121:0,121:0:0:121:4335:-390.321,-36.4246,0 1/1:243:0,243:0:0:243:8676:-780.664,-73.1503,0 0/1:167:83,83:83:2929:83:2966:-216.83,0,-213.464 0/1:246:149,96:149:5309:96:3443:-235.952,0,-403.833 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:9:0,9:0:0:9:314:-28.5245,-2.70927,0 0/1:29:16,13:16:567:13:449:-32.0076,0,-42.6309 1/1:186:1,185:1:32:185:6604:-591.227,-52.7923,0 1/1:141:0,141:0:0:141:5039:-453.645,-42.4452,0 0/1:301:147,154:147:5234:154:5456:-400.527,0,-380.531 0/1:140:51,89:51:1817:89:3183:-244.532,0,-121.646 1/1:119:0,119:0:0:119:4263:-383.847,-35.8226,0 0/1:54:22,31:22:776:31:1112:-84.077,0,-53.8481 0/1:69:17,52:17:569:52:1864:-147.268,0,-30.7524 1/1:126:0,126:0:0:126:4482:-403.549,-37.9298,0 1/1:52:0,52:0:0:52:1848:-166.577,-15.6536,0 chr04 17074352 . TTCC TTCT 10916.3 PASS AB=0.474212;ABP=11.074;AC=10;AF=0.238095;AN=42;AO=663;CIGAR=3M1X;DP=2833;DPB=2833;DPRA=1.22114;EPP=1442.7;EPPR=4702.08;GTI=0;LEN=1;MEANALT=1.36364;MQM=59.822;MQMR=59.8013;NS=21;NUMALT=1;ODDS=11.6485;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23649;QR=76309;RO=2164;RPL=663;RPP=1442.7;RPPR=4702.08;RPR=0;RUN=1;SAF=0;SAP=1442.7;SAR=663;SRF=0;SRP=4702.08;SRR=2164;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:70,78:70:2450:78:2763:-203.334,0,-176.201 0/1:107:63,44:63:2226:44:1572:-109.556,0,-167.455 0/1:115:66,49:66:2315:49:1741:-122.352,0,-173.966 0/0:183:183,0:183:6416:0:0:0,-55.0885,-577.504 0/0:228:227,1:227:7975:1:36:0,-65.0366,-714.157 0/0:123:123,0:123:4337:0:0:0,-37.0267,-390.509 0/0:248:248,0:248:8765:0:0:0,-74.6554,-788.678 0/1:171:85,86:85:3010:86:3069:-224.909,0,-219.633 0/1:251:98,151:98:3437:151:5389:-409.873,0,-234.263 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:10:10,0:10:349:0:0:0,-3.0103,-31.5099 0/1:29:13,13:13:463:13:453:-32.9314,0,-33.8374 0/0:194:194,0:194:6802:0:0:0,-58.3998,-612.243 0/0:144:144,0:144:5096:0:0:0,-43.3483,-458.784 0/1:309:159,149:159:5609:149:5337:-387.435,0,-411.959 0/1:142:91,51:91:3230:51:1817:-121.054,0,-248.163 0/0:121:121,0:121:4273:0:0:0,-36.4246,-384.752 0/1:55:31,24:31:1102:24:864:-61.5259,0,-82.9335 0/1:69:52,17:52:1847:17:608:-34.281,0,-145.739 0/0:127:127,0:127:4511:0:0:0,-38.2308,-406.16 0/0:54:54,0:54:1916:0:0:0,-16.2556,-172.686 chr04 17450267 . G A 42672.5 PASS AB=0.477032;ABP=9.49402;AC=31;AF=0.738095;AN=42;AO=2031;CIGAR=1X;DP=2777;DPB=2777;DPRA=0;EPP=4404.59;EPPR=1609.91;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9675;MQMR=59.9315;NS=21;NUMALT=1;ODDS=13.9656;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72789;QR=26562;RO=744;RPL=1;RPP=4404.59;RPPR=1609.91;RPR=2030;RUN=1;SAF=2031;SAP=4413.27;SAR=0;SRF=744;SRP=1618.59;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:188:109,79:109:3874:79:2832:-198.524,0,-292.26 0/1:154:75,79:75:2672:79:2832:-208.76,0,-194.362 0/1:128:64,63:64:2284:63:2258:-164.892,0,-167.231 1/1:197:0,197:0:0:197:7063:-635.728,-59.3029,0 1/1:279:2,277:2:72:277:9956:-889.136,-77.1506,0 1/1:77:0,77:0:0:77:2768:-249.361,-23.1793,0 1/1:175:0,175:0:0:175:6273:-564.505,-52.6803,0 0/1:130:70,59:70:2491:59:2105:-150.525,0,-185.249 0/1:192:114,78:114:4087:78:2800:-194.442,0,-310.217 0/1:22:10,12:10:356:12:417:-31.2351,0,-25.7586 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:37:23,14:23:820:14:504:-34.56,0,-62.9829 1/1:90:0,90:0:0:90:3228:-290.742,-27.0927,0 1/1:126:0,126:0:0:126:4505:-405.617,-37.9298,0 0/1:226:103,123:103:3674:123:4404:-328.5,0,-262.827 0/1:132:73,59:73:2608:59:2116:-150.973,0,-195.232 1/1:203:2,201:2:72:201:7208:-641.936,-54.2724,0 0/1:120:61,59:61:2196:59:2124:-155.305,0,-161.778 0/1:86:36,50:36:1284:50:1788:-135.314,0,-89.9709 1/1:118:1,117:1:36:117:4169:-371.795,-31.9233,0 1/1:84:1,83:1:36:83:2975:-264.384,-21.6882,0 chr04 17450283 . A C 12242.4 PASS AB=0.518492;ABP=7.18645;AC=11;AF=0.261905;AN=42;AO=734;CIGAR=1X;DP=2759;DPB=2759;DPRA=1.31752;EPP=1596.87;EPPR=4400.24;GTI=0;LEN=1;MEANALT=1;MQM=59.9169;MQMR=59.9674;NS=21;NUMALT=1;ODDS=13.8588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25979;QR=72610;RO=2025;RPL=734;RPP=1596.87;RPPR=4400.24;RPR=0;RUN=1;SAF=734;SAP=1596.87;SAR=0;SRF=2025;SRP=4400.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:189:79,110:79:2836:110:3868:-291.416,0,-198.583 0/1:152:79,73:79:2825:73:2578:-186.503,0,-208.731 0/1:127:63,64:63:2264:64:2265:-165.879,0,-165.792 0/0:197:197,0:197:7055:0:0:0,-59.3029,-635.01 0/0:275:273,2:273:9792:2:72:0,-75.9465,-874.386 0/0:74:74,0:74:2656:0:0:0,-22.2762,-239.286 0/0:176:176,0:176:6324:0:0:0,-52.9813,-568.623 0/1:128:59,69:59:2112:69:2449:-182.129,0,-151.817 0/1:196:79,117:79:2840:117:4153:-314.953,0,-196.836 0/1:21:11,10:11:387:10:352:-25.6966,0,-28.7741 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:36:14,22:14:504:22:788:-60.4062,0,-34.861 0/0:91:91,0:91:3264:0:0:0,-27.3937,-293.98 0/0:127:127,0:127:4548:0:0:0,-38.2308,-409.486 0/1:225:124,101:124:4456:101:3545:-251.524,0,-333.477 0/1:131:58,73:58:2080:73:2599:-194.724,0,-148.035 0/0:201:199,2:199:7135:2:72:0,-53.6703,-635.369 0/1:118:59,59:59:2115:59:2086:-152.485,0,-155.097 0/1:83:52,31:52:1849:31:1116:-75.7623,0,-141.703 0/0:118:117,1:117:4196:1:36:0,-31.9233,-374.222 0/0:82:82,0:82:2940:0:0:0,-24.6845,-264.834 chr04 17450299 . AATA CATG 12533.2 PASS AB=0.520804;ABP=8.43145;AC=11;AF=0.261905;AN=42;AO=756;CIGAR=1X2M1X;DP=2809;DPB=2809.25;DPRA=1.32878;EPP=1644.64;EPPR=4445.84;GTI=0;LEN=4;MEANALT=1.42857;MQM=59.9272;MQMR=59.9761;NS=21;NUMALT=1;ODDS=13.3263;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=26643;QR=71592;RO=2046;RPL=756;RPP=1644.64;RPPR=4445.84;RPR=0;RUN=1;SAF=756;SAP=1644.64;SAR=0;SRF=2046;SRP=4445.84;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:194:80,112:80:2814:112:3911:-294.101,0,-195.412 0/1:157:80,77:80:2813:77:2694:-195.435,0,-206.152 0/1:128:63,64:63:2210:64:2262:-165.249,0,-160.574 0/0:198:198,0:198:6915:0:0:0,-59.6039,-622.437 0/0:281:279,2:279:9758:2:72:0,-77.7527,-871.361 0/0:76:76,0:76:2656:0:0:0,-22.8783,-239.288 0/0:177:177,0:177:6198:0:0:0,-53.2823,-557.673 0/1:132:61,71:61:2130:71:2521:-187.404,0,-152.233 0/1:202:80,122:80:2785:122:4309:-327.184,0,-190.085 0/1:21:11,10:11:385:10:355:-25.9689,0,-28.6636 0/0:13:13,0:13:451:0:0:0,-3.91339,-40.9203 0/1:37:14,23:14:478:23:804:-61.5392,0,-32.2071 0/0:91:91,0:91:3241:0:0:0,-27.3937,-291.915 0/0:129:129,0:129:4507:0:0:0,-38.8329,-405.807 0/1:230:126,104:126:4382:104:3684:-262.525,0,-325.327 0/1:134:59,74:59:2054:74:2609:-194.699,0,-144.773 0/0:200:198,2:198:6962:2:72:0,-53.3693,-619.822 0/1:119:59,59:59:2102:59:2096:-153.065,0,-153.608 0/1:88:52,35:52:1804:35:1218:-83.3702,0,-136.09 0/0:118:117,1:117:4058:1:36:0,-31.9233,-361.822 0/0:84:83,0:83:2889:0:0:0,-24.9855,-259.89 chr04 17450305 . G C 58729 PASS AB=0.450468;ABP=46.2482;AC=31;AF=0.738095;AN=42;AO=2693;CIGAR=1X;DP=3815;DPB=3815;DPRA=0;EPP=5850.79;EPPR=2437.23;GTI=0;LEN=1;MEANALT=1.04762;MQM=49.8429;MQMR=53.4541;NS=21;NUMALT=1;ODDS=2.26304;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=95643;QR=39814;RO=1121;RPL=2011;RPP=1427.2;RPPR=266.766;RPR=682;RUN=1;SAF=2011;SAP=1427.2;SAR=682;SRF=745;SRP=266.766;SRR=376;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:299:164,135:164:5802:135:4768:-261.001,0,-426.784 0/1:194:115,79:115:4095:79:2811:-194.831,0,-304.975 0/1:182:95,87:95:3404:87:3060:-185.978,0,-248.56 1/1:249:0,249:0:0:249:8826:-712.795,-74.9565,0 1/1:468:2,466:2:72:466:16560:-1210.84,-134.045,0 1/1:75:0,75:0:0:75:2669:-240.454,-22.5773,0 1/1:175:1,174:1:36:174:6159:-550.349,-49.1996,0 0/1:171:110,61:110:3905:61:2160:-143.189,0,-294.513 0/1:258:150,108:150:5314:108:3832:-222.821,0,-397.678 0/1:28:16,12:16:559:12:410:-28.7275,0,-41.6113 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:64:50,14:50:1764:14:496:-25.7083,0,-136.173 1/1:150:0,150:0:0:150:5346:-396.494,-45.1545,0 1/1:191:0,191:0:0:191:6778:-517.703,-57.4967,0 0/1:348:159,188:159:5652:188:6693:-403.799,0,-397.538 0/1:191:107,84:107:3820:84:3000:-175.382,0,-281.76 1/1:269:2,267:2:72:267:9509:-749.314,-74.1403,0 0/1:151:93,58:93:3312:58:2056:-139.853,0,-247.936 0/1:143:55,88:55:1935:88:3131:-187.465,0,-129.941 1/1:116:1,115:1:36:115:4091:-364.779,-31.3212,0 1/1:81:1,80:1:36:80:2860:-254.04,-20.7852,0 chr04 17450326 . C T 6027.88 PASS AB=0.524138;ABP=6.67934;AC=11;AF=0.261905;AN=42;AO=381;CIGAR=1X;DP=1451;DPB=1451;DPRA=0.953052;EPP=830.341;EPPR=2326.49;GTI=0;LEN=1;MEANALT=1;MQM=40.7113;MQMR=20.7551;NS=21;NUMALT=1;ODDS=7.36633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13655;QR=38225;RO=1070;RPL=0;RPP=830.341;RPPR=2326.49;RPR=381;RUN=1;SAF=0;SAP=830.341;SAR=381;SRF=0;SRP=2326.49;SRR=1070;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:56,53:56:1988:53:1891:-132.275,0,-67.4461 0/1:71:30,41:30:1076:41:1464:-105.069,0,-37.9403 0/1:56:25,31:25:900:31:1116:-80.6325,0,-28.2764 0/0:58:58,0:58:2084:0:0:0,-17.4597,-104.378 0/0:211:211,0:211:7526:0:0:0,-63.5173,-381.089 0/0:31:31,0:31:1092:0:0:0,-9.33193,-60.9318 0/0:87:86,1:86:3080:1:36:0,-22.7089,-165.797 0/1:64:23,41:23:816:41:1476:-108.49,0,-26.1643 0/1:64:32,32:32:1152:32:1148:-81.2794,0,-38.2258 0/1:12:5,7:5:180:7:248:-18.2494,0,-6.43013 0/0:4:4,0:4:144:0:0:0,-1.20412,-8.07766 0/1:39:13,26:13:468:26:932:-68.5973,0,-14.021 0/0:63:63,0:63:2252:0:0:0,-18.9649,-113.626 0/0:68:68,0:68:2410:0:0:0,-20.47,-122.244 0/1:123:64,59:64:2289:59:2116:-146.9,0,-77.5402 0/1:65:29,36:29:1040:36:1296:-92.0637,0,-33.2336 0/0:74:74,0:74:2664:0:0:0,-22.2762,-133.727 0/1:65:30,35:30:1076:35:1252:-88.4536,0,-39.5745 0/1:57:38,19:38:1360:19:680:-42.672,0,-51.3099 0/0:57:57,0:57:2048:0:0:0,-17.1587,-112.192 0/0:73:73,0:73:2580:0:0:0,-21.9752,-143.426 chr04 17450334 . A C 7847.37 PASS AB=0.478442;ABP=5.91264;AC=31;AF=0.738095;AN=42;AO=1072;CIGAR=1X;DP=1449;DPB=1449;DPRA=0;EPP=2330.83;EPPR=817.312;GTI=0;LEN=1;MEANALT=1.09524;MQM=20.7537;MQMR=40.704;NS=21;NUMALT=1;ODDS=7.95398;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38176;QR=13394;RO=375;RPL=0;RPP=2330.83;RPPR=817.312;RPR=1072;RUN=1;SAF=0;SAP=2330.83;SAR=1072;SRF=0;SRP=817.312;SRR=375;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:51,55:51:1810:55:1976:-67.0894,0,-126.114 0/1:72:41,31:41:1472:31:1100:-39.5382,0,-105.288 0/1:56:31,25:31:1104:25:883:-28.1792,0,-79.6287 1/1:59:0,59:0:0:59:2095:-106.043,-17.7608,0 1/1:213:0,212:0:0:212:7501:-382.667,-63.8184,0 1/1:31:0,31:0:0:31:1116:-61.4721,-9.33193,0 1/1:86:1,85:1:36:85:3039:-163.763,-22.4079,0 0/1:60:38,21:38:1368:21:748:-23.5457,0,-100.509 0/1:65:32,33:32:1152:33:1188:-39.7152,0,-81.2783 0/1:11:6,5:6:216:5:180:-6.73116,0,-15.7326 1/1:4:0,4:0:0:4:144:-8.07766,-1.20412,0 0/1:40:27,13:27:968:13:468:-13.72,0,-71.4054 1/1:64:0,64:0:0:64:2269:-115.261,-19.2659,0 1/1:68:0,68:0:0:68:2427:-122.364,-20.47,0 0/1:123:57,66:57:2027:66:2368:-81.3104,0,-139.261 0/1:64:36,28:36:1292:28:1004:-31.7443,0,-92.0649 1/1:73:0,73:0:0:73:2616:-131.895,-21.9752,0 0/1:64:35,29:35:1237:29:1021:-37.5856,0,-87.5268 0/1:58:20,38:20:712:38:1368:-51.0371,0,-45.2122 1/1:59:0,59:0:0:59:2116:-116.271,-17.7608,0 1/1:73:0,73:0:0:73:2549:-142.671,-21.9752,0 chr04 17450353 . AGTTAACATA GGTTGACAA,GGTTGACATA 16055.3 PASS AB=0.474324,0.516216;ABP=7.24761,4.70053;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1089,383;CIGAR=1X3M1X3M1D1M,1X3M1X5M;DP=1481;DPB=1371.7;DPRA=0,0.948394;EPP=2367.74,834.684;EPPR=0;GTI=0;LEN=9,10;MEANALT=2,2.66667;MQM=20.7585,40.8355;MQMR=0;NS=21;NUMALT=2;ODDS=7.81532;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37972,13263;QR=0;RO=0;RPL=1089,383;RPP=2367.74,834.684;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2367.74,834.684;SAR=1089,383;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,57,55:0:0:57,55:1974,1890:-234.258,-149.412,-132.253,-84.8441,0,-68.2875 1/2:72:0,31,40:0:0:31,40:1063,1367:-158.548,-107.288,-97.9557,-51.2767,0,-39.2355 1/2:58:0,26,31:0:0:26,31:905,1091:-125.144,-86.4426,-78.6159,-38.697,0,-29.3651 1/1:60:0,60,0:0:0:60,0:2071,0:-107.562,-18.0618,0,-107.562,-18.0618,-107.562 1/1:218:0,217,0:0:0:217,0:7514,0:-391.889,-65.3235,0,-391.889,-65.3235,-391.889 1/1:31:0,31,0:0:0:31,0:1095,0:-61.3596,-9.33193,0,-61.3596,-9.33193,-61.3596 1/1:87:0,85,1:0:0:85,1:2993,36:-166.73,-25.5876,0,-163.896,-22.6911,-163.595 1/2:65:0,24,41:0:0:24,41:814,1418:-150.923,-111.266,-104.041,-39.9178,0,-27.5756 1/2:66:0,33,32:0:0:33,32:1157,1129:-137.999,-89.0367,-79.1027,-48.9266,0,-39.2936 1/2:12:0,5,7:0:0:5,7:179,230:-26.619,-18.346,-16.8409,-8.53343,0,-6.42622 1/1:4:0,4,0:0:0:4,0:139,0:-8.05125,-1.20412,0,-8.05125,-1.20412,-8.05125 1/2:40:0,13,26:0:0:13,26:449,887:-90.7678,-69.2683,-65.3549,-21.4498,0,-13.6231 1/1:64:0,64,0:0:0:64,0:2226,0:-115.189,-19.2659,0,-115.189,-19.2659,-115.189 1/1:69:0,69,0:0:0:69,0:2404,0:-123.928,-20.7711,0,-123.928,-20.7711,-123.928 1/2:126:0,66,59:0:0:66,59:2333,2045:-259.594,-161.506,-141.638,-98.0897,0,-80.329 1/2:65:0,29,36:0:0:29,36:1022,1236:-140.931,-97.1837,-88.4539,-44.007,0,-33.17 1/1:75:0,75,0:0:0:75,0:2635,0:-135.292,-22.5773,0,-135.292,-22.5773,-135.292 1/2:65:0,29,35:0:0:29,35:1033,1228:-143.813,-95.6689,-86.9391,-48.1949,0,-37.6589 1/2:58:0,38,20:0:0:38,20:1327,706:-112.887,-56.2684,-44.8292,-56.9133,0,-50.8927 1/1:59:0,59,0:0:0:59,0:2064,0:-115.971,-17.7608,0,-115.971,-17.7608,-115.971 1/1:74:0,74,0:0:0:74,0:2575,0:-145.247,-22.2762,0,-145.247,-22.2762,-145.247 chr04 17761329 . T C 4954.76 PASS AB=0.313553;ABP=379.535;AC=11;AF=0.261905;AN=42;AO=392;CIGAR=1X;DP=2155;DPB=2155;DPRA=1.3879;EPP=854.227;EPPR=3820.46;GTI=1;LEN=1;MEANALT=1;MQM=47.9464;MQMR=59.9455;NS=21;NUMALT=1;ODDS=16.339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14026;QR=63097;RO=1762;RPL=392;RPP=854.227;RPPR=3820.46;RPR=0;RUN=1;SAF=0;SAP=854.227;SAR=392;SRF=0;SRP=3829.14;SRR=1762;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:90,38:90:3221:38:1360:-83.3434,0,-251.555 0/1:59:35,24:35:1256:24:864:-59.7828,0,-95.5845 0/1:97:63,34:63:2253:34:1216:-79.8155,0,-173.831 0/0:61:61,0:61:2180:0:0:0,-18.3628,-196.466 0/0:173:173,0:173:6174:0:0:0,-52.0782,-555.651 0/0:66:66,0:66:2376:0:0:0,-19.868,-214.097 0/0:156:155,0:155:5560:0:0:0,-46.6596,-500.163 0/1:100:69,31:69:2461:31:1108:-69.2639,0,-191.64 0/1:170:115,55:115:4132:55:1976:-125.712,0,-320.887 0/1:30:25,5:25:900:5:165:-6.05055,0,-72.2901 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:39:22,17:22:792:17:608:-42.9462,0,-59.8655 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.239 0/0:102:102,0:102:3633:0:0:0,-30.7051,-327.175 0/1:203:128,75:128:4554:75:2684:-179.075,0,-348.866 0/1:101:76,25:76:2732:25:900:-50.3556,0,-215.348 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.8 0/1:197:142,55:142:5104:55:1976:-116.166,0,-400.198 0/1:123:91,32:91:3249:32:1133:-64.5767,0,-255.603 0/0:152:151,1:151:5416:1:36:0,-42.1831,-483.993 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 chr04 17935283 . G A 8459.68 PASS AB=0.490961;ABP=3.75616;AC=11;AF=0.261905;AN=42;AO=522;CIGAR=1X;DP=2210;DPB=2210;DPRA=0.937127;EPP=1127.85;EPPR=3620.81;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9923;NS=21;NUMALT=1;ODDS=9.79733;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18500;QR=60159;RO=1686;RPL=0;RPP=1136.52;RPPR=3620.81;RPR=522;RUN=1;SAF=521;SAP=1127.85;SAR=1;SRF=1686;SRP=3664.11;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:55,42:55:1961:42:1485:-104.743,0,-147.564 0/1:128:52,76:52:1849:76:2641:-199.4,0,-128.156 0/1:130:77,53:77:2742:53:1866:-129.082,0,-207.885 0/0:123:122,1:122:4289:1:36:0,-33.4284,-382.588 0/0:221:221,0:221:7892:0:0:0,-66.5276,-710.301 0/0:121:121,0:121:4333:0:0:0,-36.4246,-390.143 0/0:132:132,0:132:4694:0:0:0,-39.736,-422.62 0/1:64:19,45:19:676:45:1597:-124.753,0,-41.9021 0/1:185:92,93:92:3300:93:3348:-245.845,0,-241.528 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1663 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/1:18:9,9:9:324:9:324:-24.0873,0,-24.0873 0/0:163:163,0:163:5837:0:0:0,-49.0679,-525.44 0/0:77:77,0:77:2760:0:0:0,-23.1793,-248.642 0/1:119:62,57:62:2220:57:1997:-144.177,0,-164.242 0/1:78:37,41:37:1302:41:1461:-108.304,0,-93.997 0/0:90:90,0:90:3209:0:0:0,-27.0927,-289.032 0/1:154:79,75:79:2840:75:2684:-195.446,0,-209.479 0/1:62:42,20:42:1493:20:705:-45.1098,0,-115.999 0/0:160:154,5:154:5494:5:176:0,-32.0372,-478.387 0/0:56:55,0:55:1972:0:0:0,-16.5566,-177.395 chr04 17935370 . G A 27426 PASS AB=0.523627;ABP=6.80691;AC=32;AF=0.761905;AN=42;AO=1294;CIGAR=1X;DP=1669;DPB=1669;DPRA=0;EPP=2804.22;EPPR=808.65;GTI=0;LEN=1;MEANALT=1;MQM=59.5464;MQMR=59.9653;NS=21;NUMALT=1;ODDS=10.8786;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46219;QR=13412;RO=375;RPL=1293;RPP=2804.22;RPPR=808.65;RPR=1;RUN=1;SAF=0;SAP=2812.9;SAR=1294;SRF=0;SRP=817.312;SRR=375;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:38,44:38:1355:44:1580:-117.799,0,-97.5652 0/1:102:47,55:47:1688:55:1961:-146.033,0,-121.502 0/1:85:37,48:37:1332:48:1705:-128.13,0,-94.5925 1/1:107:0,107:0:0:107:3806:-342.717,-32.2102,0 1/1:179:0,179:0:0:179:6408:-576.399,-53.8844,0 1/1:104:0,104:0:0:104:3710:-334.074,-31.3071,0 1/1:123:0,123:0:0:123:4424:-398.293,-37.0267,0 0/1:82:37,45:37:1315:45:1593:-118.946,0,-93.9666 0/1:153:79,74:79:2828:74:2643:-192.034,0,-208.701 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:10:0,10:0:0:10:355:-31.8568,-3.0103,0 0/1:18:11,7:11:392:7:248:-17.241,0,-30.2015 1/1:124:0,124:0:0:124:4452:-400.799,-37.3277,0 1/1:61:0,61:0:0:61:2156:-194.071,-18.3628,0 0/1:36:20,16:20:720:16:565:-40.3261,0,-54.2917 0/1:83:49,34:49:1755:34:1208:-84.0268,0,-133.247 1/1:67:0,67:0:0:67:2389:-215.264,-20.169,0 0/1:58:29,29:29:1035:29:1044:-76.8058,0,-76.0033 0/1:84:26,58:26:920:58:2056:-160.013,0,-57.8296 1/1:58:2,56:2:72:56:2016:-174.781,-10.623,0 1/1:49:0,49:0:0:49:1756:-158.281,-14.7505,0 chr04 17936869 . 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A G 16826.4 PASS AB=0.511202;ABP=3.54543;AC=31;AF=0.738095;AN=42;AO=800;CIGAR=1X;DP=1041;DPB=1041;DPRA=0;EPP=1740.19;EPPR=524.164;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9188;MQMR=60;NS=21;NUMALT=1;ODDS=6.33478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28546;QR=8588;RO=240;RPL=800;RPP=1740.19;RPPR=524.164;RPR=0;RUN=1;SAF=0;SAP=1740.19;SAR=800;SRF=0;SRP=524.164;SRR=240;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:30,18:30:1072:18:644:-43.8412,0,-82.343 0/1:28:9,19:9:324:19:671:-52.287,0,-21.077 0/1:58:25,33:25:900:33:1184:-89.4086,0,-63.8613 1/1:55:0,55:0:0:55:1966:-177.214,-16.5567,0 1/1:72:0,72:0:0:72:2576:-232.09,-21.6742,0 1/1:72:0,72:0:0:72:2564:-231.003,-21.6742,0 1/1:78:0,78:0:0:78:2796:-251.88,-23.4803,0 0/1:54:22,32:22:769:32:1140:-86.6436,0,-53.273 0/1:59:24,35:24:864:35:1252:-95.2243,0,-60.3218 0/1:8:3,5:3:108:5:172:-13.4097,0,-7.66693 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:20:7,13:7:252:13:468:-36.439,0,-17.0084 1/1:81:1,80:1:36:80:2852:-253.32,-20.7852,0 1/1:57:0,57:0:0:57:2001:-180.314,-17.1587,0 0/1:64:35,29:35:1256:29:1044:-75.0089,0,-94.0794 0/1:8:5,3:5:176:3:108:-7.66693,0,-13.7768 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 0/1:83:51,32:51:1836:32:1144:-78.284,0,-140.535 0/1:61:28,32:28:995:32:1135:-84.1819,0,-71.5872 1/1:56:0,56:0:0:56:2002:-180.454,-16.8577,0 1/1:57:0,57:0:0:57:2039:-183.782,-17.1587,0 chr04 19722976 . C G 16801.9 PASS AB=0.475217;ABP=11.6208;AC=11;AF=0.261905;AN=42;AO=774;CIGAR=1X;DP=2922;DPB=2922;DPRA=1.64223;EPP=1683.73;EPPR=4656.48;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9483;MQMR=59.9679;NS=21;NUMALT=1;ODDS=14.5527;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27410;QR=76412;RO=2147;RPL=274;RPP=146.305;RPPR=342.073;RPR=500;RUN=1;SAF=274;SAP=146.305;SAR=500;SRF=785;SRP=339.734;SRR=1362;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:67,80:67:2370:80:2850:-212.486,0,-169.304 0/1:235:125,110:125:4452:110:3848:-275.774,0,-330.108 0/1:82:42,39:42:1503:39:1355:-97.5017,0,-110.784 0/0:146:146,0:146:5204:0:0:0,-43.9504,-468.494 0/0:261:257,4:257:9148:4:144:0,-65.2552,-809.982 0/0:120:120,0:120:4269:0:0:0,-36.1236,-384.378 0/0:221:219,2:219:7812:2:72:0,-59.6909,-696.262 0/1:189:103,86:103:3644:86:3053:-217.736,0,-271.268 0/1:197:102,95:102:3663:95:3393:-246.282,0,-270.569 0/1:28:14,14:14:500:14:487:-35.7304,0,-36.9073 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:58:29,29:29:1032:29:1044:-76.8151,0,-75.7337 0/0:117:117,0:117:4152:0:0:0,-35.2205,-373.851 0/0:104:104,0:104:3678:0:0:0,-31.3071,-331.223 0/1:162:90,72:90:3210:72:2565:-182.332,0,-240.355 0/1:100:44,56:44:1580:56:1967:-147.199,0,-112.389 0/0:89:89,0:89:3191:0:0:0,-26.7917,-287.41 0/1:250:126,124:126:4444:124:4417:-322.436,0,-324.875 0/1:166:104,62:104:3689:62:2183:-146.763,0,-282.24 0/0:144:143,1:143:5091:1:32:0,-40.149,-455.134 0/0:94:94,0:94:3348:0:0:0,-28.2968,-301.536 chr04 19878405 . C T 7572.47 PASS AB=0.549107;ABP=17.0861;AC=11;AF=0.261905;AN=42;AO=370;CIGAR=1X;DP=1067;DPB=1067;DPRA=1.70475;EPP=369.813;EPPR=1516.53;GTI=2;LEN=1;MEANALT=1;MQM=47.7892;MQMR=59.9354;NS=21;NUMALT=1;ODDS=0.522789;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13225;QR=24858;RO=697;RPL=310;RPP=369.813;RPPR=1507.85;RPR=60;RUN=1;SAF=0;SAP=806.455;SAR=370;SRF=1;SRP=1507.85;SRR=696;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:20,10:20:711:10:356:-22.5652,0,-55.2847 0/1:13:6,7:6:216:7:252:-18.9142,0,-15.8771 0/1:29:22,7:22:788:7:248:-13.7069,0,-62.5067 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/0:86:86,0:86:3069:0:0:0,-25.8886,-276.437 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/0:69:68,1:68:2412:1:36:0,-17.1728,-213.723 0/1:34:29,5:29:1044:5:180:-6.1711,0,-84.0398 0/1:83:55,28:55:1960:28:1004:-65.0613,0,-151.69 0/1:99:11,88:11:392:88:3144:-248.583,0,-5.81809 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:84:23,61:23:828:61:2173:-168.68,0,-49.5576 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/0:45:45,0:45:1591:0:0:0,-13.5463,-143.48 0/1:48:35,13:35:1240:13:464:-27.0874,0,-97.4409 0/1:14:8,6:8:288:6:216:-15.4319,0,-22.053 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/1:199:63,136:63:2248:136:4864:-373.238,0,-142.668 0/1:39:31,8:31:1108:8:288:-14.1955,0,-88.2908 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:43:43,0:43:1523:0:0:0,-12.9443,-137.362 chr04 19878473 . GTCAGGAG GTCGGGAA,GTCGGGAG 25733.4 PASS AB=0.613043,0.376087;ABP=54.0682,64.3591;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1028,174;CIGAR=3M1X3M1X,3M1X4M;DP=1216;DPB=1215.88;DPRA=0,0.646631;EPP=2235.28,346.902;EPPR=0;GTI=1;LEN=8,1;MEANALT=2.09524,2.33333;MQM=53.7179,59.9425;MQMR=0;NS=21;NUMALT=2;ODDS=1.3165;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36304,6217;QR=0;RO=0;RPL=0,4;RPP=2235.28,346.902;RPPR=0;RPR=1028,170;RUN=1,1;SAF=1028,174;SAP=2235.28,380.846;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,40,25:0:0:40,25:1420,881:-187.696,-72.08,-60.0388,-115.969,0,-108.444 1/2:29:0,20,8:0:0:20,8:707,288:-80.9544,-23.5263,-17.5057,-57.4527,0,-55.0445 1/2:34:0,26,8:0:0:26,8:927,288:-99.3641,-23.8592,-16.0324,-75.8639,0,-73.4557 1/1:111:0,109,0:0:0:109,0:3832,0:-343.876,-32.8123,0,-343.876,-32.8123,-343.876 1/1:103:0,101,1:0:0:101,1:3561,36:-319.242,-30.404,0,-316.304,-27.429,-316.003 1/1:111:0,110,0:0:0:110,0:3878,0:-347.556,-33.1133,0,-347.556,-33.1133,-347.556 1/1:93:0,93,0:0:0:93,0:3296,0:-294.82,-27.9958,0,-294.82,-27.9958,-294.82 1/2:73:0,44,28:0:0:44,28:1551,1008:-207.703,-82.2477,-69.0024,-125.451,0,-117.022 1/2:72:0,33,39:0:0:33,39:1168,1392:-208.213,-113.839,-103.905,-94.7279,0,-82.9878 1/2:10:0,2,8:0:0:2,8:72,288:-29.7247,-23.8592,-23.2571,-6.22497,0,-3.81673 1/1:7:0,7,0:0:0:7,0:247,0:-22.5206,-2.10721,0,-22.5206,-2.10721,-22.5206 1/2:9:0,5,4:0:0:5,4:171,144:-25.9611,-12.1095,-10.6043,-14.2033,0,-12.9991 1/1:105:0,102,0:0:0:102,0:3625,0:-325.638,-30.7051,0,-325.638,-30.7051,-325.638 1/1:56:0,54,0:0:0:54,0:1900,0:-170.26,-16.2556,0,-170.26,-16.2556,-170.26 1/2:26:0,13,13:0:0:13,13:447,468:-74.7242,-38.5463,-34.6329,-36.5292,0,-32.6158 1/2:43:0,30,13:0:0:30,13:1060,464:-124.388,-38.1841,-29.1532,-86.559,0,-82.6456 1/1:45:0,45,0:0:0:45,0:1590,0:-143.265,-13.5464,0,-143.265,-13.5464,-143.265 1/2:52:0,32,20:0:0:32,20:1134,716:-150.433,-58.7425,-49.1095,-92.0455,0,-86.0249 1/2:47:0,37,7:0:0:37,7:1279,244:-123.612,-19.8502,-8.71209,-103.768,0,-101.66 1/1:78:0,78,0:0:0:78,0:2768,0:-248.435,-23.4803,0,-248.435,-23.4803,-248.435 1/1:47:0,47,0:0:0:47,0:1671,0:-150.129,-14.1484,0,-150.129,-14.1484,-150.129 chr04 19878486 . GTAGAT ACAGAC,ACAGAT 25420.7 PASS AB=0.620915,0.374728;ABP=61.2994,65.5761;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1031,174;CIGAR=2X3M1X,2X4M;DP=1215;DPB=1215;DPRA=0,0.687215;EPP=2233.12,380.846;EPPR=0;GTI=1;LEN=6,2;MEANALT=2.09524,2.30769;MQM=53.6305,59.9425;MQMR=0;NS=21;NUMALT=2;ODDS=0.868807;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36153,6215;QR=0;RO=0;RPL=1,0;RPP=2233.12,380.846;RPPR=0;RPR=1030,174;RUN=1,1;SAF=1031,174;SAP=2241.8,380.846;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:63:0,40,23:0:0:40,23:1408,826:-182.275,-67.7378,-55.6966,-114.893,0,-107.97 1/2:29:0,21,7:0:0:21,7:746,252:-81.1899,-20.5619,-14.2403,-60.6267,0,-58.5195 1/2:34:0,26,8:0:0:26,8:919,288:-98.6473,-23.8592,-16.0324,-75.1464,0,-72.7382 1/1:111:0,110,0:0:0:110,0:3842,0:-344.434,-33.1133,0,-344.434,-33.1133,-344.434 1/1:103:0,100,1:0:0:100,1:3508,36:-314.746,-30.103,0,-311.808,-27.1411,-311.507 1/1:111:0,111,0:0:0:111,0:3879,0:-347.847,-33.4143,0,-347.847,-33.4143,-347.847 1/1:93:0,91,0:0:0:91,0:3197,0:-286.097,-27.3937,0,-286.097,-27.3937,-286.097 1/2:73:0,44,29:0:0:44,29:1540,1029:-208.755,-84.1923,-70.947,-124.914,0,-116.184 1/2:72:0,33,39:0:0:33,39:1162,1395:-207.945,-114.109,-104.175,-94.1892,0,-82.4491 1/2:10:0,2,8:0:0:2,8:71,275:-28.454,-22.6749,-22.0729,-6.13129,0,-3.72305 1/1:7:0,6,0:0:0:6,0:207,0:-18.5728,-1.80618,0,-18.5728,-1.80618,-18.5728 1/2:9:0,5,4:0:0:5,4:176,144:-26.4137,-12.1095,-10.6043,-14.6603,0,-13.4562 1/1:105:0,105,0:0:0:105,0:3690,0:-331.619,-31.6082,0,-331.619,-31.6082,-331.619 1/1:55:0,54,0:0:0:54,0:1876,0:-168.177,-16.2556,0,-168.177,-16.2556,-168.177 1/2:25:0,12,12:0:0:12,12:419,428:-68.9032,-34.9333,-31.3209,-34.0075,0,-30.3952 1/2:43:0,30,13:0:0:30,13:1051,468:-123.912,-38.5463,-29.5154,-85.7226,0,-81.8092 1/1:45:0,44,0:0:0:44,0:1543,0:-138.683,-13.2453,0,-138.683,-13.2453,-138.683 1/2:53:0,32,21:0:0:32,21:1126,752:-152.62,-61.6819,-52.049,-91.2922,0,-84.9706 1/2:48:0,40,8:0:0:40,8:1400,288:-137.383,-23.8592,-11.818,-113.882,0,-111.473 1/1:79:0,78,1:0:0:78,1:2742,34:-245.743,-23.4803,0,-242.985,-20.3825,-242.684 1/1:47:0,47,0:0:0:47,0:1651,0:-148.349,-14.1484,0,-148.349,-14.1484,-148.349 chr04 20151424 . TTGG TTGA,CTGA 55359.3 PASS AB=0.634409,0.364247;ABP=119.756,122.103;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2238,271;CIGAR=3M1X,1X2M1X;DP=2516;DPB=2515.75;DPRA=0,0.559819;EPP=4862.77,591.479;EPPR=0;GTI=3;LEN=1,4;MEANALT=1.7619,2.11111;MQM=59.9705,59.6273;MQMR=0;NS=21;NUMALT=2;ODDS=6.7059;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=80098,9504;QR=0;RO=0;RPL=0,0;RPP=4862.77,591.479;RPPR=0;RPR=2238,271;RUN=1,1;SAF=2238,271;SAP=4862.77,591.479;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,82,48:0:0:82,48:2932,1676:-375.733,-136.655,-111.97,-239.43,0,-224.981 1/2:62:0,52,10:0:0:52,10:1852,348:-179.599,-28.6438,-12.9902,-151.305,0,-148.294 1/2:93:0,66,26:0:0:66,26:2357,921:-267.184,-75.0204,-55.1524,-192.161,0,-184.334 1/1:181:0,181,0:0:0:181,0:6504,0:-585.333,-54.4864,0,-585.333,-54.4864,-585.333 1/1:317:0,315,0:0:0:315,0:11305,0:-1017.04,-94.8245,0,-1017.04,-94.8245,-1017.04 1/1:125:0,125,0:0:0:125,0:4484,0:-403.723,-37.6288,0,-403.723,-37.6288,-403.723 1/1:177:0,176,0:0:0:176,0:6274,0:-564.385,-52.9813,0,-564.385,-52.9813,-564.385 1/2:106:0,52,54:0:0:52,54:1868,1892:-306.643,-154.252,-138.599,-152.746,0,-136.49 1/2:203:0,128,75:0:0:128,75:4565,2629:-586.402,-214.272,-175.74,-372.483,0,-349.906 1/2:14:0,9,5:0:0:9,5:324,180:-41.4837,-15.0469,-12.3376,-26.7966,0,-25.2914 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:16:0,11,5:0:0:11,5:396,180:-47.3539,-15.0422,-11.7309,-32.6714,0,-31.1663 1/1:121:0,121,0:0:0:121,0:4325,0:-389.425,-36.4246,0,-389.425,-36.4246,-389.425 1/1:124:0,124,0:0:0:124,0:4456,0:-401.209,-37.3277,0,-401.209,-37.3277,-401.209 1/1:189:0,188,0:0:0:188,0:6744,0:-606.782,-56.5936,0,-606.782,-56.5936,-606.782 1/1:145:0,145,0:0:0:145,0:5136,0:-462.321,-43.6494,0,-462.321,-43.6494,-462.321 1/1:185:0,184,0:0:0:184,0:6598,0:-593.639,-55.3895,0,-593.639,-55.3895,-593.639 1/2:62:0,36,26:0:0:36,26:1281,915:-179.239,-74.8383,-64.0012,-104.754,0,-96.9274 1/2:58:0,36,22:0:0:36,22:1277,763:-166.404,-62.3596,-51.5225,-104.394,0,-97.7714 1/1:150:0,149,0:0:0:149,0:5340,0:-480.473,-44.8535,0,-480.473,-44.8535,-480.473 1/1:52:0,52,0:0:0:52,0:1864,0:-168.039,-15.6536,0,-168.039,-15.6536,-168.039 chr04 20353649 . G T 103436 PASS AB=0.523522;ABP=10.9785;AC=33;AF=0.785714;AN=42;AO=3844;CIGAR=1X;DP=4649;DPB=4649;DPRA=0;EPP=8350.15;EPPR=1748.87;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.969;MQMR=60;NS=21;NUMALT=1;ODDS=46.7663;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=134951;QR=28542;RO=804;RPL=1538;RPP=336.201;RPPR=22.0674;RPR=2306;RUN=1;SAF=1538;SAP=336.201;SAR=2306;SRF=360;SRP=22.0674;SRR=444;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:260:121,139:121:4258:139:4860:-359.295,0,-305.132 0/1:226:92,133:92:3251:133:4664:-351.839,0,-224.72 0/1:157:86,71:86:3084:71:2474:-175.652,0,-230.526 1/1:190:1,189:1:36:189:6649:-594.879,-53.5974,0 1/1:404:8,396:8:288:396:13939:-1228.05,-95.3487,0 1/1:245:1,244:1:36:244:8604:-770.769,-70.1541,0 1/1:453:0,453:0:0:453:15837:-1425.04,-136.367,0 0/1:224:116,108:116:4119:108:3800:-274.769,0,-303.464 0/1:385:205,180:205:7301:180:6339:-454.713,0,-541.247 0/1:45:24,21:24:828:21:744:-53.738,0,-61.2869 1/1:13:0,13:0:0:13:443:-40.1955,-3.91339,0 0/1:68:25,43:25:896:43:1481:-113.111,0,-60.4903 1/1:326:1,325:1:36:325:11446:-1026.44,-94.5375,0 1/1:224:0,224:0:0:224:7872:-707.469,-67.4307,0 1/1:494:0,494:0:0:494:17314:-1557.94,-148.709,0 1/1:169:1,168:1:36:168:5877:-525.453,-47.2758,0 1/1:162:0,162:0:0:162:5697:-512.83,-48.7669,0 0/1:148:67,81:67:2382:81:2822:-209.671,0,-170.084 0/1:145:53,92:53:1883:92:3222:-246.555,0,-126.099 1/1:205:2,203:2:72:203:7164:-637.99,-54.8744,0 1/1:106:1,105:1:36:105:3703:-329.876,-28.3109,0 chr04 20560279 . TAAACAAT TAACAAT 1612.01 PASS AB=0.387302;ABP=37.7608;AC=9;AF=0.214286;AN=42;AO=128;CIGAR=1M1D6M;DP=943;DPB=926.875;DPRA=1.09644;EPP=272.341;EPPR=1746.75;GTI=1;LEN=1;MEANALT=1.23077;MQM=59.9844;MQMR=60;NS=21;NUMALT=1;ODDS=1.30881;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4529;QR=28409;RO=811;RPL=1;RPP=272.341;RPPR=1746.75;RPR=127;RUN=1;SAF=0;SAP=280.959;SAR=128;SRF=0;SRP=1764.07;SRR=811;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:24,31:24:844:31:1108:-83.4743,0,-59.7214 0/1:51:30,21:30:1047:21:732:-50.8489,0,-79.1869 0/1:42:25,16:25:874:16:557:-37.8294,0,-66.3514 0/0:42:42,0:42:1475:0:0:0,-12.6433,-133.044 0/0:116:112,3:112:3929:3:108:0,-24.9031,-343.735 0/0:97:96,1:96:3368:1:36:0,-25.6016,-299.743 0/0:87:87,0:87:3047:0:0:0,-26.1896,-274.464 0/1:50:28,22:28:964:22:776:-55.1107,0,-72.0187 0/1:59:44,15:44:1540:15:536:-30.814,0,-121.131 0/1:7:3,4:3:108:4:136:-10.468,0,-7.96796 0/0:6:6,0:6:214:0:0:0,-1.80618,-19.6078 0/1:10:7,3:7:243:3:108:-7.06487,0,-19.1982 0/0:22:22,0:22:781:0:0:0,-6.62266,-70.6129 0/0:43:41,1:41:1442:1:36:0,-9.40481,-126.479 0/0:75:74,0:74:2621:0:0:0,-22.2762,-235.878 0/0:38:38,0:38:1316:0:0:0,-11.4391,-118.738 0/0:50:50,0:50:1744:0:0:0,-15.0515,-157.244 0/1:20:15,5:15:515:5:180:-10.5315,0,-40.6548 0/1:21:16,5:16:551:5:180:-10.2304,0,-43.5939 0/0:33:32,1:32:1110:1:36:0,-6.33571,-96.6079 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.1682 chr04 20560447 . C T 35541.8 PASS AB=0.518519;ABP=5.42305;AC=33;AF=0.785714;AN=42;AO=1789;CIGAR=1X;DP=2180;DPB=2180;DPRA=0;EPP=3887.77;EPPR=843.392;GTI=0;LEN=1;MEANALT=1;MQM=40.7663;MQMR=54.8824;NS=21;NUMALT=1;ODDS=8.9872;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62686;QR=13963;RO=391;RPL=0;RPP=3887.77;RPPR=843.392;RPR=1789;RUN=1;SAF=0;SAP=3887.77;SAR=1789;SRF=0;SRP=852.056;SRR=391;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:85,97:85:3017:97:3409:-242.211,0,-216.601 0/1:72:26,46:26:928:46:1612:-115.924,0,-61.5945 0/1:90:50,40:50:1792:40:1403:-95.2113,0,-134.098 1/1:102:0,102:0:0:102:3592:-314.436,-30.7051,0 1/1:302:1,301:1:36:301:10527:-913.58,-87.3154,0 1/1:39:0,39:0:0:39:1358:-113.476,-11.7402,0 1/1:191:0,191:0:0:191:6665:-562.028,-57.4967,0 0/1:66:37,29:37:1319:29:1009:-67.9731,0,-98.7171 0/1:237:93,144:93:3336:144:5019:-371.337,0,-228.868 0/1:34:26,8:26:928:8:284:-14.6312,0,-73.1752 1/1:7:0,7:0:0:7:248:-21.4202,-2.10721,0 0/1:23:15,8:15:536:8:284:-17.8437,0,-41.5666 1/1:86:0,86:0:0:86:3040:-266.457,-25.8886,0 1/1:96:0,96:0:0:96:3362:-292.654,-28.8989,0 1/1:171:0,171:0:0:171:6001:-521.153,-51.4761,0 1/1:93:0,93:0:0:93:3288:-290.479,-27.9958,0 1/1:105:0,105:0:0:105:3673:-322.229,-31.6082,0 0/1:101:54,47:54:1927:47:1655:-110.877,0,-142.818 0/1:5:4,1:4:144:1:32:-1.65348,0,-11.7872 1/1:119:0,119:0:0:119:4154:-359.276,-35.8226,0 1/1:59:0,59:0:0:59:2071:-174.214,-17.7608,0 chr04 20560454 . ATACGC TTAGGT,TTAGGC 55634.3 PASS AB=0.518474,0.479142;ABP=5.49753,6.1808;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1874,404;CIGAR=1X2M1X1M1X,1X2M1X2M;DP=2297;DPB=2297;DPRA=0,1.33868;EPP=1503.63,602.616;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.19048,2.63636;MQM=40.8004,54.9332;MQMR=0;NS=21;NUMALT=2;ODDS=8.60485;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=65837,14281;QR=0;RO=0;RPL=1506,369;RPP=1503.63,602.616;RPPR=0;RPR=368,35;RUN=1,1;SAF=0,0;SAP=4072.35,880.285;SAR=1874,404;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:188:0,101,87:0:0:101,87:3553,3096:-530.751,-252.376,-221.972,-278.723,0,-252.533 1/2:75:0,49,26:0:0:49,26:1713,907:-204.736,-73.5035,-58.753,-131.517,0,-123.69 1/2:94:0,42,51:0:0:42,51:1461,1795:-260.822,-145.868,-133.225,-114.948,0,-99.5955 1/1:107:0,107,0:0:0:107,0:3784,0:-330.821,-32.2102,0,-330.821,-32.2102,-330.821 1/1:327:0,322,1:0:0:322,1:11310,36:-986.961,-96.9317,0,-984.026,-93.9811,-983.725 1/1:41:0,39,0:0:0:39,0:1369,0:-114.885,-11.7402,0,-114.885,-11.7402,-114.885 1/1:202:0,199,1:0:0:199,1:6996,36:-589.505,-59.905,0,-586.576,-56.9457,-586.275 1/2:67:0,29,38:0:0:29,38:1014,1354:-189.559,-110.295,-101.565,-79.6087,0,-68.1696 1/2:251:0,150,100:0:0:150,100:5271,3533:-707.402,-287.693,-242.539,-419.818,0,-389.715 1/2:35:0,8,27:0:0:8,27:282,936:-98.1529,-76.1636,-73.7554,-22.3296,0,-14.2018 1/1:7:0,7,0:0:0:7,0:246,0:-21.2985,-2.10721,0,-21.2985,-2.10721,-21.2985 1/2:23:0,8,15:0:0:8,15:280,526:-64.8286,-43.0743,-40.6661,-22.0949,0,-17.5795 1/1:89:0,89,0:0:0:89,0:3140,0:-275.286,-26.7917,0,-275.286,-26.7917,-275.286 1/1:103:0,103,0:0:0:103,0:3577,0:-312.397,-31.0061,0,-312.397,-31.0061,-312.397 1/1:184:0,183,0:0:0:183,0:6465,0:-562.596,-55.0885,0,-562.596,-55.0885,-562.596 1/1:98:0,97,0:0:0:97,0:3416,0:-302.025,-29.1999,0,-302.025,-29.1999,-302.025 1/1:110:0,105,0:0:0:105,0:3688,0:-324.194,-31.6082,0,-324.194,-31.6082,-324.194 1/2:101:0,47,54:0:0:47,54:1652,1918:-283.127,-156.069,-141.921,-127.401,0,-111.145 1/2:5:0,1,4:0:0:1,4:36,144:-14.9378,-12.0882,-11.7872,-3.20167,0,-1.99755 1/1:130:0,128,0:0:0:128,0:4458,0:-385.498,-38.5318,0,-385.498,-38.5318,-385.498 1/1:60:0,60,0:0:0:60,0:2126,0:-178.048,-18.0618,0,-178.048,-18.0618,-178.048 chr04 20560462 . G C 6279.56 PASS AB=0.476601;ABP=6.87188;AC=9;AF=0.214286;AN=42;AO=388;CIGAR=1X;DP=2243;DPB=2243;DPRA=1.12279;EPP=845.542;EPPR=4031.09;GTI=0;LEN=1;MEANALT=1;MQM=54.9485;MQMR=40.7968;NS=21;NUMALT=1;ODDS=6.78803;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13853;QR=66139;RO=1855;RPL=388;RPP=845.542;RPPR=4031.09;RPR=0;RUN=1;SAF=0;SAP=845.542;SAR=388;SRF=0;SRP=4031.09;SRR=1855;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:97,85:97:3464:85:3048:-219.451,0,-245.651 0/1:73:47,26:47:1672:26:928:-61.2846,0,-120.214 0/1:90:41,49:41:1437:49:1741:-129.513,0,-99.1494 0/0:106:106,0:106:3774:0:0:0,-31.9092,-329.408 0/0:321:320,1:320:11412:1:36:0,-93.0349,-987.602 0/0:41:41,0:41:1454:0:0:0,-12.3422,-120.973 0/0:195:195,0:195:6941:0:0:0,-58.7008,-583.917 0/1:63:28,35:28:1000:35:1256:-93.9524,0,-67.8584 0/1:244:149,95:149:5318:95:3376:-230.5,0,-394.503 0/1:34:8,26:8:288:26:928:-73.3319,0,-14.9217 0/0:7:7,0:7:243:0:0:0,-2.10721,-21.0217 0/1:23:8,15:8:284:15:532:-41.2077,0,-17.8437 0/0:88:88,0:88:3152:0:0:0,-26.4906,-276.045 0/0:102:102,0:102:3597:0:0:0,-30.7051,-312.595 0/0:182:182,0:182:6519:0:0:0,-54.7875,-566.035 0/0:95:95,0:95:3408:0:0:0,-28.5978,-300.982 0/0:108:108,0:108:3843:0:0:0,-32.5112,-336.006 0/1:98:46,52:46:1644:52:1864:-138.212,0,-111.017 0/1:5:1,4:1:36:4:144:-11.7872,0,-1.99755 0/0:127:127,0:127:4533:0:0:0,-38.2308,-390.177 0/0:59:59,0:59:2120:0:0:0,-17.7608,-176.974 chr04 20703825 . C T 43214.6 PASS AB=0.520196;ABP=5.90471;AC=33;AF=0.785714;AN=42;AO=1625;CIGAR=1X;DP=2022;DPB=2022;DPRA=0;EPP=3531.65;EPPR=865.085;GTI=0;LEN=1;MEANALT=1;MQM=50.6812;MQMR=52.073;NS=21;NUMALT=1;ODDS=14.7669;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57520;QR=13970;RO=397;RPL=835;RPP=5.71629;RPPR=16.1431;RPR=790;RUN=1;SAF=835;SAP=5.71629;SAR=790;SRF=174;SRP=16.1431;SRR=223;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:20,38:20:692:38:1336:-101.093,0,-44.7775 0/1:27:11,16:11:383:16:576:-43.5144,0,-25.6222 0/1:116:71,45:71:2536:45:1599:-106.546,0,-191.61 1/1:121:0,121:0:0:121:4276:-379.975,-36.4246,0 1/1:157:1,156:1:36:156:5540:-487.963,-43.6634,0 1/1:68:0,68:0:0:68:2407:-211.968,-20.47,0 1/1:77:0,77:0:0:77:2728:-241.12,-23.1793,0 0/1:146:66,80:66:2295:80:2847:-204.6,0,-159.69 0/1:182:96,86:96:3380:86:3028:-213.333,0,-248.565 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:5:0,5:0:0:5:176:-15.8138,-1.50515,0 0/1:40:23,17:23:816:17:608:-41.9116,0,-59.7456 1/1:167:0,167:0:0:167:5941:-529.385,-50.272,0 1/1:105:0,105:0:0:105:3702:-329.689,-31.6082,0 1/1:159:0,159:0:0:159:5626:-496.677,-47.8638,0 1/1:19:0,19:0:0:19:684:-61.4965,-5.71957,0 1/1:27:0,27:0:0:27:954:-85.541,-8.12781,0 0/1:107:62,45:62:2186:45:1579:-106.309,0,-163.229 0/1:136:39,97:39:1362:97:3427:-264.267,0,-81.5038 1/1:236:4,232:4:140:232:8213:-708.427,-58.1032,0 1/1:64:0,64:0:0:64:2237:-199.274,-19.2659,0 chr04 21017644 . A T 64048.1 PASS AB=0.487109;ABP=4.57792;AC=33;AF=0.785714;AN=42;AO=2858;CIGAR=1X;DP=3425;DPB=3425;DPRA=0;EPP=5951.24;EPPR=1130.04;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9276;MQMR=59.9594;NS=21;NUMALT=1;ODDS=11.3952;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102436;QR=20243;RO=566;RPL=2828;RPP=5951.24;RPPR=1113.47;RPR=30;RUN=1;SAF=2858;SAP=6209.08;SAR=0;SRF=564;SRP=1214.75;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:245:135,110:135:4809:110:3942:-281.219,0,-359.107 0/1:127:63,64:63:2241:64:2288:-167.946,0,-163.721 0/1:113:49,64:49:1756:64:2296:-172.885,0,-124.308 1/1:268:0,268:0:0:268:9632:-866.827,-80.676,0 1/1:451:5,446:5:180:446:15970:-1420.43,-119.212,0 1/1:250:1,249:1:36:249:8916:-798.763,-71.6592,0 1/1:246:0,246:0:0:246:8815:-793.331,-74.0534,0 0/1:94:55,39:55:1972:39:1389:-97.0101,0,-149.458 0/1:262:142,120:142:5085:120:4311:-309.294,0,-378.922 0/1:17:8,9:8:288:9:324:-24.3883,0,-21.1499 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:18:13,5:13:468:5:180:-11.1335,0,-37.0411 1/1:296:0,296:0:0:296:10611:-954.89,-89.1049,0 1/1:110:0,110:0:0:110:3943:-355.043,-33.1133,0 1/1:181:0,181:0:0:181:6482:-583.463,-54.4864,0 1/1:127:0,127:0:0:127:4552:-409.842,-38.2308,0 1/1:167:0,166:0:0:166:5944:-534.436,-49.971,0 0/1:116:66,50:66:2368:50:1792:-126.602,0,-178.459 0/1:94:26,68:26:932:68:2440:-191.558,0,-55.902 1/1:161:3,158:3:108:158:5676:-500.875,-38.3907,0 1/1:78:0,78:0:0:78:2793:-251.538,-23.4803,0 chr04 21017701 . GTTTCCG GTTTCTG,GTTTTCTG 155650 PASS AB=0.517372,0.478619;ABP=14.7798,20.8386;AC=33,9;AF=0.785714,0.214286;AN=42;AO=5206,2166;CIGAR=5M1X1M,1M1I4M1X1M;DP=7411;DPB=7721.29;DPRA=0,3.22038;EPP=11307.7,4689.06;EPPR=7.35324;GTI=1;LEN=1,8;MEANALT=3.28571,3.92857;MQM=59.9687,59.1477;MQMR=60;NS=21;NUMALT=2;ODDS=1.74809;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=186726,76241;QR=72;RO=2;RPL=0,2;RPP=11307.7,4689.06;RPPR=7.35324;RPR=5206,2164;RUN=1,1;SAF=0,0;SAP=11307.7,4706.42;SAR=5206,2166;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:172:0,92,77:0:0:92,77:3296,2747:-492.552,-223.745,-196.05,-268.804,0,-245.625 1/2:106:0,52,54:0:0:52,54:1860,1878:-304.624,-152.95,-137.297,-152.026,0,-135.77 1/2:122:0,68,54:0:0:68,54:2429,1908:-353.776,-155.737,-135.267,-198.394,0,-182.138 1/1:99:0,98,0:0:0:98,0:3524,0:-317.068,-29.5009,0,-317.068,-29.5009,-317.068 1/1:310:0,296,8:0:0:296,8:10597,261:-953.288,-89.1049,0,-932.486,-68.3013,-930.078 1/1:109:0,109,0:0:0:109,0:3916,0:-352.632,-32.8123,0,-352.632,-32.8123,-352.632 1/1:170:0,170,0:0:0:170,0:6100,0:-549.099,-51.1751,0,-549.099,-51.1751,-549.099 1/2:142:0,69,73:0:0:69,73:2480,2580:-412.799,-210.473,-189.702,-202.682,0,-180.707 1/2:210:0,127,81:0:0:127,81:4549,2842:-602.159,-231.167,-192.936,-371.097,0,-346.714 1/2:1233:0,584,645:0:0:584,645:20933,22655:-3549.32,-1842.05,-1666.25,-1707.32,0,-1513.15 1/1:1361:0,1353,2:0:0:1353,2:48565,68:-4368.48,-407.294,0,-4362.97,-401.771,-4362.37 1/2:1205:1,649,552:1:36:649,552:23282,19408:-3474.31,-1575.59,-1383.16,-1896.13,0,-1732.89 1/1:113:0,111,2:0:0:111,2:3988,72:-358.746,-33.4143,0,-352.872,-27.1797,-352.27 1/1:166:0,166,0:0:0:166,0:5956,0:-536.146,-49.971,0,-536.146,-49.971,-536.146 1/1:274:0,272,0:0:0:272,0:9752,0:-877.335,-81.8802,0,-877.335,-81.8802,-877.335 1/1:66:1,63,1:1:36:63,1:2256,36:-199.705,-16.0275,0,-197.068,-16.0275,-199.705 1/1:105:0,103,0:0:0:103,0:3704,0:-333.25,-31.0061,0,-333.25,-31.0061,-333.25 1/2:1220:0,634,581:0:0:634,581:22711,20529:-3522.49,-1670.35,-1479.5,-1852.17,0,-1677.27 1/2:80:0,48,32:0:0:48,32:1720,1113:-231.096,-90.812,-76.3626,-140.636,0,-131.003 1/1:75:0,71,4:0:0:71,4:2552,144:-229.57,-21.3731,0,-217.82,-9.26363,-216.616 1/1:73:0,71,0:0:0:71,0:2556,0:-229.975,-21.3731,0,-229.975,-21.3731,-229.975 chr04 21158105 . A G 2477.53 PASS AB=0.331783;ABP=161.541;AC=8;AF=0.190476;AN=42;AO=217;CIGAR=1X;DP=1689;DPB=1689;DPRA=0.925443;EPP=474.22;EPPR=3188.57;GTI=1;LEN=1;MEANALT=1.11111;MQM=40.2396;MQMR=54.3651;NS=21;NUMALT=1;ODDS=1.75766;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7767;QR=52480;RO=1471;RPL=217;RPP=474.22;RPPR=71.2471;RPR=0;RUN=1;SAF=217;SAP=474.22;SAR=0;SRF=844;SRP=72.5225;SRR=627;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:61,32:61:2169:32:1135:-71.6887,0,-167.329 0/1:39:26,13:26:936:13:468:-28.1959,0,-72.2064 0/1:65:47,18:47:1684:18:648:-36.4405,0,-131.798 0/0:124:124,0:124:4415:0:0:0,-37.3277,-396.751 0/0:102:102,0:102:3637:0:0:0,-30.7051,-326.727 0/0:47:47,0:47:1650:0:0:0,-14.1484,-147.577 0/0:85:85,0:85:3048:0:0:0,-25.5875,-273.135 0/1:55:35,20:35:1244:20:716:-45.259,0,-95.3074 0/1:172:107,64:107:3824:64:2292:-143.966,0,-291.577 0/0:7:7,0:7:252:0:0:0,-2.10721,-22.9963 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5105 0/1:18:13,5:13:468:5:180:-10.4336,0,-36.9809 0/0:117:117,0:117:4171:0:0:0,-35.2205,-374.851 0/0:117:117,0:117:4178:0:0:0,-35.2205,-375.212 0/0:124:124,0:124:4428:0:0:0,-37.3277,-397.97 0/0:82:82,0:82:2940:0:0:0,-24.6845,-264.33 0/0:39:39,0:39:1387:0:0:0,-11.7402,-124.936 0/1:68:40,28:40:1432:28:1004:-65.0413,0,-108.377 0/1:135:101,34:101:3592:34:1216:-64.9473,0,-281.641 0/0:148:148,0:148:5269:0:0:0,-44.5524,-472.508 0/0:47:44,3:44:1576:3:108:0,-4.66313,-131.75 chr04 21163322 . C A 42175 PASS AB=0.570142;ABP=36.214;AC=33;AF=0.785714;AN=42;AO=2065;CIGAR=1X;DP=2411;DPB=2411;DPRA=0;EPP=4487.1;EPPR=745.654;GTI=1;LEN=1;MEANALT=1.14286;MQM=40.8518;MQMR=59.5789;NS=21;NUMALT=1;ODDS=6.19836;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73539;QR=12121;RO=342;RPL=2065;RPP=4487.1;RPPR=745.654;RPR=0;RUN=1;SAF=2065;SAP=4487.1;SAR=0;SRF=342;SRP=745.654;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:56,78:56:1968:78:2788:-200.332,0,-137.04 0/1:61:22,39:22:784:39:1404:-100.756,0,-52.5047 0/1:100:50,50:50:1778:50:1775:-124.037,0,-130.182 1/1:222:1,221:1:36:221:7869:-678.412,-63.2304,0 1/1:167:4,163:4:144:163:5815:-490.428,-36.9584,0 1/1:185:0,185:0:0:185:6560:-561.019,-55.6906,0 1/1:192:0,191:0:0:191:6815:-578.876,-57.4967,0 0/1:103:52,51:52:1834:51:1820:-125.379,0,-133.842 0/1:221:82,139:82:2918:139:4972:-369.352,0,-196.322 0/1:7:4,3:4:144:3:108:-7.05042,0,-11.2064 1/1:8:0,8:0:0:8:288:-23.9731,-2.40824,0 0/1:46:20,26:20:720:26:928:-66.1321,0,-51.2768 1/1:124:0,124:0:0:124:4420:-386.854,-37.3277,0 1/1:175:0,172:0:0:172:6140:-533.774,-51.7772,0 1/1:143:0,143:0:0:143:5108:-445.677,-43.0473,0 1/1:111:0,111:0:0:111:3956:-348.899,-33.4143,0 1/1:119:0,119:0:0:119:4210:-370.003,-35.8226,0 0/1:45:22,23:22:768:23:816:-57.3829,0,-55.8774 0/1:60:26,34:26:919:34:1180:-85.9065,0,-64.9483 1/1:143:1,142:1:36:142:5064:-431.909,-39.449,0 1/1:45:2,43:2:72:43:1503:-122.062,-6.70963,0 chr04 21163328 . C A 43602.9 PASS AB=0.582908;ABP=49.8188;AC=33;AF=0.785714;AN=42;AO=2131;CIGAR=1X;DP=2468;DPB=2468;DPRA=0;EPP=4630.42;EPPR=732.625;GTI=1;LEN=1;MEANALT=1.04762;MQM=40.8376;MQMR=59.6845;NS=21;NUMALT=1;ODDS=8.81078;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76069;QR=11944;RO=336;RPL=2131;RPP=4630.42;RPPR=723.965;RPR=0;RUN=1;SAF=2131;SAP=4630.42;SAR=0;SRF=335;SRP=723.965;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:55,82:55:1959:82:2940:-212.489,0,-135.332 0/1:61:22,39:22:766:39:1396:-100.242,0,-50.8793 0/1:96:47,49:47:1680:49:1743:-122.399,0,-122.572 1/1:224:1,223:1:36:223:7940:-685.131,-63.8324,0 1/1:169:4,165:4:135:165:5902:-498.703,-38.3916,0 1/1:196:0,196:0:0:196:6988:-596.613,-59.0019,0 1/1:201:0,200:0:0:200:7156:-605.936,-60.206,0 0/1:101:50,51:50:1781:51:1811:-125.825,0,-130.167 0/1:231:84,147:84:3000:147:5228:-388.32,0,-200.686 0/1:7:4,3:4:144:3:108:-7.05042,0,-11.2064 1/1:8:0,8:0:0:8:288:-23.9731,-2.40824,0 0/1:46:20,26:20:712:26:920:-65.5567,0,-50.5547 1/1:131:0,131:0:0:131:4689:-408.624,-39.4349,0 1/1:177:0,177:0:0:177:6325:-550.12,-53.2823,0 1/1:145:0,145:0:0:145:5155:-450.38,-43.6494,0 1/1:114:0,114:0:0:114:4089:-361.028,-34.3174,0 1/1:124:0,124:0:0:124:4417:-387.994,-37.3277,0 0/1:44:20,24:20:699:24:851:-60.6977,0,-49.9733 0/1:61:25,36:25:888:36:1288:-94.7498,0,-61.8601 1/1:147:1,146:1:36:146:5223:-444.469,-40.6531,0 1/1:48:3,45:3:108:45:1612:-127.425,-4.37427,0 chr04 21163401 . C T 26926.1 PASS AB=0.624329;ABP=78.064;AC=34;AF=0.809524;AN=42;AO=1292;CIGAR=1X;DP=1505;DPB=1505;DPRA=0;EPP=2799.87;EPPR=463.362;GTI=1;LEN=1;MEANALT=1.04762;MQM=43.7167;MQMR=60;NS=21;NUMALT=1;ODDS=7.24823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45853;QR=7558;RO=212;RPL=1;RPP=2799.87;RPPR=463.362;RPR=1291;RUN=1;SAF=0;SAP=2808.55;SAR=1292;SRF=0;SRP=463.362;SRR=212;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:16,40:16:572:40:1410:-108.016,0,-34.9557 0/1:43:16,27:16:568:27:955:-69.4334,0,-38.5076 0/1:60:20,40:20:716:40:1413:-107.038,0,-46.7059 1/1:75:0,75:0:0:75:2673:-237.016,-22.5773,0 1/1:117:1,116:1:36:116:4124:-362.617,-31.6222,0 1/1:65:0,65:0:0:65:2310:-201.117,-19.567,0 1/1:136:0,136:0:0:136:4827:-420.52,-40.9401,0 0/1:59:26,33:26:913:33:1159:-84.8815,0,-64.7232 0/1:127:54,72:54:1940:72:2558:-190.194,0,-136.587 0/1:10:2,8:2:72:8:284:-22.3699,0,-3.82642 1/1:6:0,6:0:0:6:216:-18.9288,-1.80618,0 1/1:12:1,11:1:36:11:380:-30.3072,-0.0140851,0 1/1:99:0,99:0:0:99:3516:-311.163,-29.802,0 1/1:56:0,56:0:0:56:1963:-173.855,-16.8577,0 1/1:176:1,175:1:36:175:6205:-545.115,-49.383,0 1/1:32:0,32:0:0:32:1129:-100.575,-9.63296,0 1/1:47:0,47:0:0:47:1680:-150.027,-14.1484,0 0/1:138:58,80:58:2080:80:2856:-209.94,0,-145.928 0/1:66:17,49:17:589:49:1740:-133.994,0,-33.4653 1/1:85:0,85:0:0:85:3032:-267.106,-25.5876,0 1/1:40:0,40:0:0:40:1423:-124.334,-12.0412,0 chr04 21163425 . T A 27221 PASS AB=0.626335;ABP=80.9206;AC=34;AF=0.809524;AN=42;AO=1296;CIGAR=1X;DP=1509;DPB=1509;DPRA=0;EPP=2817.24;EPPR=465.534;GTI=1;LEN=1;MEANALT=1;MQM=43.7215;MQMR=60;NS=21;NUMALT=1;ODDS=7.23356;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46372;QR=7583;RO=213;RPL=1296;RPP=2817.24;RPPR=465.534;RPR=0;RUN=1;SAF=0;SAP=2817.24;SAR=1296;SRF=0;SRP=465.534;SRR=213;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:16,40:16:568:40:1432:-109.163,0,-34.5942 0/1:44:17,27:17:612:27:955:-69.0333,0,-42.1681 0/1:62:20,42:20:716:42:1512:-113.8,0,-46.1039 1/1:78:0,78:0:0:78:2800:-246.968,-23.4803,0 1/1:117:1,116:1:36:116:4156:-365.393,-31.6222,0 1/1:64:0,64:0:0:64:2300:-200.021,-19.2659,0 1/1:131:0,131:0:0:131:4692:-407.861,-39.4349,0 0/1:59:24,35:24:830:35:1256:-93.2499,0,-57.2516 0/1:127:55,72:55:1972:72:2588:-192.899,0,-139.524 0/1:10:2,8:2:72:8:284:-22.3699,0,-3.82642 1/1:5:0,5:0:0:5:180:-16.0112,-1.50515,0 1/1:12:1,11:1:36:11:396:-31.5752,-0.0140851,0 1/1:96:0,96:0:0:96:3447:-305.304,-28.8989,0 1/1:58:0,58:0:0:58:2069:-182.525,-17.4597,0 1/1:173:1,172:1:36:172:6142:-539.072,-48.4799,0 1/1:34:0,34:0:0:34:1203:-106.908,-10.235,0 1/1:49:0,49:0:0:49:1756:-156.79,-14.7505,0 0/1:137:59,78:59:2097:78:2795:-204.757,0,-147.757 0/1:67:17,50:17:608:50:1761:-136.033,0,-34.883 1/1:88:0,88:0:0:88:3153:-277.52,-26.4906,0 1/1:42:0,42:0:0:42:1495:-130.599,-12.6433,0 chr04 21163431 . T A 27170.5 PASS AB=0.616197;ABP=69.6225;AC=34;AF=0.809524;AN=42;AO=1294;CIGAR=1X;DP=1515;DPB=1515;DPRA=0;EPP=2812.9;EPPR=482.906;GTI=1;LEN=1;MEANALT=1;MQM=43.6917;MQMR=59.9955;NS=21;NUMALT=1;ODDS=6.17433;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46291;QR=7933;RO=221;RPL=1294;RPP=2812.9;RPPR=482.906;RPR=0;RUN=1;SAF=0;SAP=2812.9;SAR=1294;SRF=0;SRP=482.906;SRR=221;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:18,38:18:633:38:1359:-103.464,0,-40.4374 0/1:44:17,27:17:608:27:964:-69.8532,0,-41.8067 0/1:60:20,40:20:716:40:1432:-108.641,0,-46.7059 1/1:78:0,78:0:0:78:2796:-246.635,-23.4803,0 1/1:117:1,116:1:36:116:4125:-362.691,-31.6222,0 1/1:65:0,65:0:0:65:2319:-201.73,-19.567,0 1/1:135:0,135:0:0:135:4852:-421.539,-40.6391,0 0/1:61:27,34:27:972:34:1216:-89.0739,0,-69.4351 0/1:129:56,73:56:2016:73:2612:-194.466,0,-142.88 0/1:10:2,8:2:72:8:288:-22.6931,0,-3.82642 1/1:5:0,5:0:0:5:176:-15.7056,-1.50515,0 1/1:12:1,11:1:36:11:396:-31.5752,-0.0140851,0 1/1:95:0,95:0:0:95:3402:-301.492,-28.5979,0 1/1:55:0,55:0:0:55:1968:-174.041,-16.5567,0 1/1:172:1,171:1:36:171:6120:-537.118,-48.1789,0 1/1:35:0,35:0:0:35:1256:-111.554,-10.5361,0 1/1:48:0,48:0:0:48:1728:-154.239,-14.4494,0 0/1:142:61,81:61:2196:81:2878:-210.732,0,-155.159 0/1:66:17,49:17:612:49:1747:-134.293,0,-35.5455 1/1:88:0,88:0:0:88:3158:-277.951,-26.4906,0 1/1:42:0,42:0:0:42:1499:-130.899,-12.6433,0 chr04 21163437 . GGG TGC,CGC 32322.1 PASS AB=0.615789,0.380702;ABP=69.3888,73.4727;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1312,219;CIGAR=1X1M1X,1X1M1X;DP=1533;DPB=1533;DPRA=0,0.92437;EPP=2851.98,478.563;EPPR=0;GTI=1;LEN=3,3;MEANALT=1.57143,2.2;MQM=43.6364,60;MQMR=0;NS=21;NUMALT=2;ODDS=6.79805;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46595,7784;QR=0;RO=0;RPL=1312,219;RPP=2851.98,478.563;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2851.98,478.563;SAR=1312,219;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:57:0,39,17:0:0:39,17:1391,608:-159.914,-49.5797,-37.8396,-110.333,0,-105.216 1/2:43:0,26,17:0:0:26,17:912,604:-120.056,-49.5725,-41.7458,-70.831,0,-65.7135 1/2:61:0,41,19:0:0:41,19:1445,682:-170.165,-55.6305,-43.2883,-114.529,0,-108.809 1/1:78:0,78,0:0:0:78,0:2775,0:-245.252,-23.4803,0,-245.252,-23.4803,-245.252 1/1:118:0,117,1:0:0:117,1:4176,36:-370.474,-35.2205,0,-367.537,-31.9233,-367.236 1/1:66:0,66,0:0:0:66,0:2327,0:-202.662,-19.868,0,-202.662,-19.868,-202.662 1/1:137:0,137,0:0:0:137,0:4886,0:-425.186,-41.2411,0,-425.186,-41.2411,-425.186 1/2:60:0,33,27:0:0:33,27:1179,951:-171.677,-77.7763,-67.8423,-94.2514,0,-86.1236 1/2:131:0,73,58:0:0:73,58:2610,2060:-378.997,-168.21,-146.235,-211.142,0,-193.682 1/2:10:0,8,2:0:0:8,2:270,72:-27.6885,-6.23466,-3.82642,-21.8081,0,-21.206 1/1:6:0,6,0:0:0:6,0:206,0:-18.2894,-1.80618,0,-18.2894,-1.80618,-18.2894 1/1:12:0,11,1:0:0:11,1:390,36:-34.3559,-3.31133,0,-31.4174,-0.0140851,-31.1164 1/1:98:0,98,0:0:0:98,0:3461,0:-305.59,-29.5009,0,-305.59,-29.5009,-305.59 1/1:58:0,58,0:0:0:58,0:2067,0:-182.421,-17.4597,0,-182.421,-17.4597,-182.421 1/1:177:0,177,0:0:0:177,0:6265,0:-554.241,-53.2823,0,-554.241,-53.2823,-554.241 1/1:35:0,35,0:0:0:35,0:1245,0:-110.626,-10.5361,0,-110.626,-10.5361,-110.626 1/1:48:0,48,0:0:0:48,0:1704,0:-152.206,-14.4494,0,-152.206,-14.4494,-152.206 1/2:141:0,81,60:0:0:81,60:2884,2131:-403.26,-173.996,-149.613,-229.616,0,-211.554 1/2:67:0,50,17:0:0:50,17:1770,604:-190.723,-49.5725,-34.521,-141.504,0,-136.386 1/1:88:0,88,0:0:0:88,0:3140,0:-276.588,-26.4906,0,-276.588,-26.4906,-276.588 1/1:42:0,42,0:0:0:42,0:1492,0:-130.402,-12.6433,0,-130.402,-12.6433,-130.402 chr04 21240985 . CTTTTTTCA CTTTTTCA,CTTTCA 44535 PASS AB=0.569721,0.423639;ABP=34.8038,41.148;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1741,323;CIGAR=1M1D7M,1M3D5M;DP=2092;DPB=1787.33;DPRA=0,1.28062;EPP=3774.86,687.132;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.7619,3.38462;MQM=59.9753,59.743;MQMR=0;NS=21;NUMALT=2;ODDS=14.7695;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61588,11332;QR=0;RO=0;RPL=1,2;RPP=3774.86,687.132;RPPR=0;RPR=1740,321;RUN=1,1;SAF=0,0;SAP=3783.54,704.396;SAR=1741,323;SRF=0;SRP=0;SRR=0;TYPE=del,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:155:0,92,63:0:0:92,63:3213,2164:-437.393,-176.044,-148.35,-261.695,0,-242.73 1/2:33:0,20,13:0:0:20,13:693,464:-94.5005,-38.1841,-32.1635,-56.669,0,-52.7556 1/2:85:0,41,43:0:0:41,43:1464,1500:-241.342,-121.981,-109.639,-119.354,0,-106.41 1/1:102:0,102,0:0:0:102,0:3596,0:-323.844,-30.7051,0,-323.844,-30.7051,-323.844 1/1:262:0,252,1:0:0:252,1:8935,36:-803.788,-75.8596,0,-800.851,-72.9204,-800.55 1/1:57:0,57,0:0:0:57,0:2033,0:-183.24,-17.1587,0,-183.24,-17.1587,-183.24 1/1:189:0,187,0:0:0:187,0:6661,0:-599.203,-56.2926,0,-599.203,-56.2926,-599.203 1/2:106:0,50,55:0:0:50,55:1788,1945:-304.203,-158.407,-143.356,-145.791,0,-129.235 1/2:182:0,110,71:0:0:110,71:3798,2490:-511.112,-202.562,-169.449,-308.539,0,-287.165 1/2:20:0,12,8:0:0:12,8:432,288:-59.1082,-23.8592,-20.2468,-35.6088,0,-33.2006 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/2:26:0,16,9:0:0:16,9:538,320:-69.7219,-26.1456,-21.3291,-43.6364,0,-40.9271 1/1:130:0,130,0:0:0:130,0:4596,0:-413.803,-39.1339,0,-413.803,-39.1339,-413.803 1/1:110:0,106,1:0:0:106,1:3739,36:-336.352,-31.9092,0,-333.415,-28.9701,-333.114 1/1:181:0,177,1:0:0:177,1:6265,36:-563.586,-53.2823,0,-560.648,-50.3449,-560.347 1/1:63:0,61,0:0:0:61,0:2175,0:-195.675,-18.3628,0,-195.675,-18.3628,-195.675 1/1:93:0,92,0:0:0:92,0:3251,0:-292.449,-27.6948,0,-292.449,-27.6948,-292.449 1/2:56:0,20,35:0:0:20,35:712,1252:-160.119,-102.089,-96.0687,-58.0264,0,-47.4904 1/2:90:0,68,22:0:0:68,22:2421,769:-260.23,-62.9059,-42.4359,-197.675,0,-191.052 1/1:107:0,104,1:0:0:104,1:3711,32:-333.857,-31.3071,0,-331.279,-28.7354,-330.978 1/1:38:0,37,0:0:0:37,0:1319,0:-118.381,-11.1381,0,-118.381,-11.1381,-118.381 chr04 21241140 . CAAGTTGT CAAGATGG,CAAGTTGG 28737.3 PASS AB=0.57672,0.416226;ABP=31.9977,37.5739;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1135,240;CIGAR=4M1X2M1X,7M1X;DP=1387;DPB=1387;DPRA=0,1.29145;EPP=2467.63,524.164;EPPR=0;GTI=0;LEN=8,1;MEANALT=2,2.36364;MQM=59.8282,59.8792;MQMR=0;NS=21;NUMALT=2;ODDS=19.5908;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39321,8583;QR=0;RO=0;RPL=1135,240;RPP=2467.63,524.164;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2467.63,524.164;SAR=1135,240;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,66,40:0:0:66,40:2275,1428:-301.565,-116.776,-96.9084,-185.14,0,-173.099 1/2:54:0,29,25:0:0:29,25:1006,900:-155.55,-73.7953,-65.0654,-82.1083,0,-74.5826 1/2:83:0,42,41:0:0:42,41:1441,1460:-236.342,-119.354,-106.711,-117.337,0,-104.995 1/1:57:0,57,0:0:0:57,0:1978,0:-178.293,-17.1587,0,-178.293,-17.1587,-178.293 1/1:154:0,151,2:0:0:151,2:5262,72:-473.404,-45.4555,0,-467.529,-39.5139,-466.927 1/1:54:0,52,0:0:0:52,0:1786,0:-160.725,-15.6536,0,-160.725,-15.6536,-160.725 1/1:93:0,90,2:0:0:90,2:3125,72:-281.148,-27.0927,0,-275.273,-21.1646,-274.671 1/2:48:0,23,25:0:0:23,25:796,900:-138.475,-73.7953,-66.8716,-65.0325,0,-57.5068 1/2:39:0,15,21:0:0:15,21:515,752:-103.155,-61.3423,-56.8269,-41.8359,0,-35.5142 1/2:24:0,15,9:0:0:15,9:495,324:-66.7972,-26.7966,-22.2811,-40.3492,0,-37.6399 1/1:10:0,10,0:0:0:10,0:340,0:-30.9276,-3.0103,0,-30.9276,-3.0103,-30.9276 1/2:27:0,16,11:0:0:16,11:552,396:-77.5004,-32.6714,-27.8549,-45.1827,0,-41.8714 1/1:76:0,75,0:0:0:75,0:2632,0:-236.764,-22.5773,0,-236.764,-22.5773,-236.764 1/1:52:0,52,0:0:0:52,0:1811,0:-163.223,-15.6536,0,-163.223,-15.6536,-163.223 1/1:119:0,117,0:0:0:117,0:4108,0:-369.581,-35.2205,0,-369.581,-35.2205,-369.581 1/1:46:0,46,0:0:0:46,0:1588,0:-143.206,-13.8474,0,-143.206,-13.8474,-143.206 1/1:59:0,59,0:0:0:59,0:2031,0:-183.059,-17.7608,0,-183.059,-17.7608,-183.059 1/2:92:0,54,38:0:0:54,38:1854,1356:-261.401,-110.901,-94.6457,-150.851,0,-139.412 1/2:94:0,67,26:0:0:67,26:2315,923:-263.217,-75.1332,-54.9642,-188.095,0,-180.268 1/1:55:0,54,0:0:0:54,0:1873,0:-168.538,-16.2556,0,-168.538,-16.2556,-168.538 1/1:45:0,45,0:0:0:45,0:1538,0:-138.701,-13.5464,0,-138.701,-13.5464,-138.701 chr04 21486207 . A C 30631.4 PASS AB=0.556291;ABP=23.7903;AC=33;AF=0.785714;AN=42;AO=1432;CIGAR=1X;DP=1769;DPB=1769;DPRA=0;EPP=3112.56;EPPR=732.625;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9267;MQMR=60;NS=21;NUMALT=1;ODDS=1.2753;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51098;QR=12056;RO=336;RPL=1432;RPP=3112.56;RPPR=732.625;RPR=0;RUN=1;SAF=0;SAP=3112.56;SAR=1432;SRF=0;SRP=732.625;SRR=336;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:204:108,96:108:3876:96:3425:-247.053,0,-287.624 0/1:132:71,61:71:2544:61:2165:-155.334,0,-189.475 0/1:71:29,42:29:1044:42:1500:-113.921,0,-72.9017 1/1:64:0,63:0:0:63:2241:-201.504,-18.9649,0 1/1:129:0,129:0:0:129:4605:-414.614,-38.8329,0 1/1:72:0,72:0:0:72:2565:-231.099,-21.6742,0 1/1:129:0,129:0:0:129:4559:-410.474,-38.8329,0 0/1:40:8,32:8:288:32:1151:-91.859,0,-14.2262 0/1:90:51,39:51:1824:39:1400:-99.2065,0,-137.348 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 1/1:53:0,53:0:0:53:1893:-170.646,-15.9546,0 1/1:103:1,102:1:36:102:3668:-326.724,-27.4078,0 1/1:152:0,152:0:0:152:5397:-485.834,-45.7566,0 1/1:121:0,121:0:0:121:4310:-388.07,-36.4246,0 1/1:127:0,127:0:0:127:4541:-408.83,-38.2308,0 0/1:114:39,75:39:1400:75:2683:-207.34,0,-91.9818 0/1:84:23,61:23:828:61:2187:-171.809,0,-49.5576 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 chr04 21795982 . ACTAT CCTAT,CCTAAT 23858.1 PASS AB=0.443946,0.55157;ABP=21.2682,18.4638;AC=31,11;AF=0.738095,0.261905;AN=42;AO=776,373;CIGAR=1X4M,1X2M1I2M;DP=1153;DPB=1228.2;DPRA=0,1.49794;EPP=1688.07,812.97;EPPR=0;GTI=0;LEN=1,6;MEANALT=1.90476,2.2;MQM=59.7371,46.5469;MQMR=0;NS=21;NUMALT=2;ODDS=2.84214;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=27664,13060;QR=0;RO=0;RPL=776,373;RPP=1688.07,812.97;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1688.07,812.97;SAR=776,373;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:14:0,7,7:0:0:7,7:252,248:-40.9427,-20.3789,-18.2717,-20.9194,0,-18.8122 1/2:72:0,36,36:0:0:36,36:1284,1247:-205.03,-100.353,-89.5161,-105.026,0,-94.1893 1/2:58:0,20,37:0:0:20,37:716,1279:-160.992,-102.598,-96.5775,-58.3331,0,-47.195 1/1:39:0,39,0:0:0:39,0:1392,0:-125.578,-11.7402,0,-125.578,-11.7402,-125.578 1/1:98:0,97,1:0:0:97,1:3424,29:-308.071,-29.1999,0,-305.769,-26.6078,-305.468 1/1:33:0,32,1:0:0:32,1:1133,36:-101.911,-9.63296,0,-99.0091,-6.37537,-98.708 1/1:70:0,69,1:0:0:69,1:2476,35:-222.735,-20.7711,0,-219.916,-17.6053,-219.615 1/2:24:0,9,15:0:0:9,15:324,517:-68.5156,-42.0724,-39.3631,-26.7966,0,-22.2811 1/2:63:0,13,50:0:0:13,50:464,1744:-178.102,-140.272,-136.358,-38.1841,0,-23.1326 1/2:5:0,3,2:0:0:3,2:104,72:-14.6342,-6.18746,-5.28437,-8.79971,0,-8.19765 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:19:0,6,13:0:0:6,13:216,448:-53.857,-36.2309,-34.4247,-17.9797,0,-14.0663 1/1:45:0,45,0:0:0:45,0:1604,0:-144.645,-13.5464,0,-144.645,-13.5464,-144.645 1/1:36:0,36,0:0:0:36,0:1283,0:-115.767,-10.8371,0,-115.767,-10.8371,-115.767 1/2:98:0,55,42:0:0:55,42:1958,1473:-278.171,-118.861,-102.304,-159.323,0,-146.679 1/2:54:0,15,39:0:0:15,39:540,1381:-155.394,-111.33,-106.815,-44.4211,0,-32.6809 1/1:30:0,30,0:0:0:30,0:1072,0:-96.7912,-9.0309,0,-96.7912,-9.0309,-96.7912 1/2:199:0,94,105:0:0:94,105:3331,3706:-570.13,-298.792,-270.495,-271.69,0,-240.082 1/2:63:0,39,23:0:0:39,23:1395,809:-179.017,-65.2648,-53.5246,-113.745,0,-106.822 1/1:40:0,39,1:0:0:39,1:1392,36:-125.182,-11.7402,0,-122.267,-8.46777,-121.966 1/1:83:0,82,0:0:0:82,0:2944,0:-264.789,-24.6845,0,-264.789,-24.6845,-264.789 chr04 21997085 . ACA ACG,GCG 39573.1 PASS AB=0.582701,0.417299;ABP=42.1594,42.1594;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1554,275;CIGAR=2M1X,1X1M1X;DP=1833;DPB=1833;DPRA=0,0.748438;EPP=3368.8,600.165;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.61905,2;MQM=59.9749,54.9273;MQMR=0;NS=21;NUMALT=2;ODDS=11.8942;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55174,9564;QR=0;RO=0;RPL=1553,275;RPP=3368.8,600.165;RPPR=0;RPR=1,0;RUN=1,1;SAF=1554,275;SAP=3377.48,600.165;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,44,25:0:0:44,25:1567,860:-197.859,-70.1313,-56.886,-128.076,0,-120.55 1/2:81:0,53,28:0:0:53,28:1896,986:-234.736,-80.1251,-64.1705,-154.963,0,-146.535 1/2:62:0,31,31:0:0:31,31:1116,1052:-176.464,-85.3933,-76.0613,-91.4198,0,-82.0878 1/1:114:0,114,0:0:0:114,0:4056,0:-365.227,-34.3174,0,-365.227,-34.3174,-365.227 1/1:267:0,266,0:0:0:266,0:9467,0:-851.63,-80.074,0,-851.63,-80.074,-851.63 1/1:81:0,81,0:0:0:81,0:2855,0:-257.187,-24.3834,0,-257.187,-24.3834,-257.187 1/1:108:0,107,0:0:0:107,0:3812,0:-342.917,-32.2102,0,-342.917,-32.2102,-342.917 1/2:52:0,27,25:0:0:27,25:968,878:-150.664,-71.7092,-63.5813,-79.3096,0,-71.7838 1/2:161:0,93,68:0:0:93,68:3300,2348:-459.862,-190.989,-162.993,-269.222,0,-248.752 1/2:11:0,4,7:0:0:4,7:144,252:-32.5129,-20.7623,-19.5582,-12.1095,0,-10.0023 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:20:0,12,8:0:0:12,8:432,272:-57.6343,-22.373,-18.7607,-35.6088,0,-33.2006 1/1:82:0,81,0:0:0:81,0:2895,0:-260.534,-24.3834,0,-260.534,-24.3834,-260.534 1/1:79:0,79,0:0:0:79,0:2823,0:-254.309,-23.7814,0,-254.309,-23.7814,-254.309 1/1:87:0,86,0:0:0:86,0:3020,0:-271.67,-25.8886,0,-271.67,-25.8886,-271.67 1/1:101:0,101,0:0:0:101,0:3571,0:-321.584,-30.404,0,-321.584,-30.404,-321.584 1/1:71:0,71,0:0:0:71,0:2495,0:-224.802,-21.3731,0,-224.802,-21.3731,-224.802 1/2:112:0,67,45:0:0:67,45:2356,1570:-319.313,-127.536,-107.367,-192.126,0,-178.58 1/2:91:0,53,38:0:0:53,38:1878,1346:-262.816,-109.826,-93.8719,-153.343,0,-141.904 1/1:106:0,106,0:0:0:106,0:3768,0:-339.319,-31.9092,0,-339.319,-31.9092,-339.319 1/1:69:0,69,0:0:0:69,0:2431,0:-219.044,-20.7711,0,-219.044,-20.7711,-219.044 chr04 21997149 . GAAGCATC AAAGTATT,AAAGTATC 62599.9 PASS AB=0.565907,0.427156;ABP=41.0789,49.5151;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2469,432;CIGAR=1X3M1X2M1X,1X3M1X3M;DP=2919;DPB=2919.62;DPRA=0,0.910582;EPP=5364.38,941.086;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.2381,2.8;MQM=54.3605,59.6806;MQMR=0;NS=21;NUMALT=2;ODDS=21.1733;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=17.5,17.5;PQR=0;PRO=0;QA=87293,15366;QR=0;RO=0;RPL=2469,432;RPP=5364.38,941.086;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5364.38,941.086;SAR=2469,432;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:94:0,72,21:0:0:72,21:2561,735:-268.01,-59.7289,-38.0548,-208.216,0,-201.894 1/2:103:0,73,29:0:0:73,29:2563,1028:-290.805,-83.7344,-61.7592,-207.065,0,-198.335 1/2:148:0,73,74:0:0:73,74:2591,2641:-426.146,-215.339,-193.364,-210.861,0,-188.585 1/1:162:0,160,0:0:0:160,0:5650,0:-507.299,-48.1648,0,-507.299,-48.1648,-507.299 1/1:313:0,311,1:0:0:311,1:11011,36:-988.827,-93.6203,0,-985.891,-90.6679,-985.59 1/1:132:0,132,0:0:0:132,0:4670,0:-418.615,-39.736,0,-418.615,-39.736,-418.615 1/1:216:0,214,0:0:0:214,0:7556,0:-676.658,-64.4204,0,-676.658,-64.4204,-676.658 1/2:168:0,72,96:0:0:72,96:2536,3424:-485.072,-279.369,-257.695,-206.057,0,-177.158 1/2:228:0,137,90:0:0:137,90:4796,3208:-650.67,-261.539,-220.298,-389.174,0,-362.081 1/2:12:0,2,10:0:0:2,10:72,350:-34.6923,-28.8251,-28.223,-6.22497,0,-3.21467 1/1:5:0,5,0:0:0:5,0:180,0:-16.5105,-1.50515,0,-16.5105,-1.50515,-16.5105 1/2:51:0,22,29:0:0:22,29:773,1037:-147.71,-84.9146,-78.292,-63.1488,0,-54.4189 1/1:194:0,194,0:0:0:194,0:6874,0:-617.803,-58.3998,0,-617.803,-58.3998,-617.803 1/1:149:0,149,0:0:0:149,0:5256,0:-471.833,-44.8535,0,-471.833,-44.8535,-471.833 1/1:355:0,352,0:0:0:352,0:12517,0:-1123.81,-105.963,0,-1123.81,-105.963,-1123.81 1/1:102:0,102,0:0:0:102,0:3607,0:-324.457,-30.7051,0,-324.457,-30.7051,-324.457 1/1:76:0,74,0:0:0:74,0:2614,0:-234.985,-22.2762,0,-234.985,-22.2762,-234.985 1/2:109:0,54,53:0:0:54,53:1906,1877:-307.086,-152.891,-136.635,-154.199,0,-138.244 1/2:96:0,66,29:0:0:66,29:2300,1030:-270.566,-84.054,-64.1861,-186.638,0,-177.908 1/1:152:0,151,0:0:0:151,0:5352,0:-480.517,-45.4555,0,-480.517,-45.4555,-480.517 1/1:54:0,54,0:0:0:54,0:1908,0:-170.986,-16.2556,0,-170.986,-16.2556,-170.986 chr04 22298825 . GA AC,GC 25371.5 PASS AB=0.535637,0.462203;ABP=8.11772,8.75556;AC=33,9;AF=0.785714,0.214286;AN=42;AO=996,218;CIGAR=2X,1M1X;DP=1216;DPB=1216;DPRA=0,1.09615;EPP=2165.8,476.391;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.66667,2.08333;MQM=59.5311,60;MQMR=0;NS=21;NUMALT=2;ODDS=9.78139;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34569,7630;QR=0;RO=0;RPL=996,218;RPP=2165.8,476.391;RPPR=0;RPR=0,0;RUN=1,1;SAF=996,218;SAP=2165.8,476.391;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:15:0,7,7:0:0:7,7:239,252:-40.0464,-20.658,-18.5508,-19.4705,0,-17.3633 1/2:29:0,17,12:0:0:17,12:577,411:-80.4958,-33.7055,-28.588,-47.1314,0,-43.519 1/2:63:0,25,38:0:0:25,38:869,1342:-180.285,-109.639,-102.114,-70.9954,0,-59.5563 1/1:80:0,80,0:0:0:80,0:2820,0:-254.035,-24.0824,0,-254.035,-24.0824,-254.035 1/1:92:0,90,2:0:0:90,2:3139,72:-282.359,-27.0927,0,-276.484,-20.858,-275.882 1/1:97:0,96,1:0:0:96,1:3291,36:-296.016,-28.8989,0,-293.078,-25.6016,-292.777 1/1:70:0,69,1:0:0:69,1:2369,36:-213.102,-20.7711,0,-210.165,-17.4738,-209.864 1/2:71:0,37,34:0:0:37,34:1281,1168:-199.288,-95.184,-84.0459,-104.448,0,-94.2134 1/2:105:0,65,40:0:0:65,40:2231,1440:-298.046,-117.857,-98.2896,-180.542,0,-168.501 1/2:7:0,3,4:0:0:3,4:108,140:-20.557,-11.7405,-10.8374,-9.17208,0,-7.96796 1/1:5:0,5,0:0:0:5,0:175,0:-16.0905,-1.50515,0,-16.0905,-1.50515,-16.0905 1/2:24:0,9,15:0:0:9,15:324,522:-69.2285,-42.7918,-40.0826,-26.7919,0,-22.2765 1/1:105:0,105,0:0:0:105,0:3681,0:-331.328,-31.6082,0,-331.328,-31.6082,-331.328 1/1:69:0,69,0:0:0:69,0:2368,0:-213.274,-20.7711,0,-213.274,-20.7711,-213.274 1/1:74:0,73,0:0:0:73,0:2540,0:-228.575,-21.9752,0,-228.575,-21.9752,-228.575 1/1:32:0,32,0:0:0:32,0:1084,0:-97.8583,-9.63296,0,-97.8583,-9.63296,-97.8583 1/1:38:0,38,0:0:0:38,0:1350,0:-121.754,-11.4391,0,-121.754,-11.4391,-121.754 1/2:97:0,59,38:0:0:59,38:2048,1310:-273.224,-106.756,-88.9954,-166.813,0,-155.374 1/2:52:0,26,26:0:0:26,26:904,901:-147.074,-73.5754,-65.7486,-73.8456,0,-66.0188 1/1:58:0,58,0:0:0:58,0:2030,0:-182.936,-17.4597,0,-182.936,-17.4597,-182.936 1/1:33:0,33,0:0:0:33,0:1141,0:-102.975,-9.93399,0,-102.975,-9.93399,-102.975 chr04 23034640 . TT GC,TC 36399.9 PASS AB=0.470426,0.528198;ABP=8.53307,8.03127;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1312,389;CIGAR=2X,1M1X;DP=1707;DPB=1707;DPRA=0,1.30779;EPP=2851.98,847.713;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.80952,2.09091;MQM=54.3956,59.8201;MQMR=0;NS=21;NUMALT=2;ODDS=7.36457;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46440,13924;QR=0;RO=0;RPL=1312,389;RPP=2851.98,847.713;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2851.98,847.713;SAR=1312,389;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:109:0,45,64:0:0:45,64:1599,2296:-317.582,-187.63,-174.084,-130.308,0,-111.042 1/2:109:0,39,70:0:0:39,70:1395,2507:-318.238,-204.796,-193.055,-113.799,0,-92.7269 1/2:57:0,16,41:0:0:16,41:568,1472:-165.198,-119.731,-114.915,-45.818,0,-33.4758 1/1:118:0,118,0:0:0:118,0:4146,0:-372.486,-35.5215,0,-372.486,-35.5215,-372.486 1/1:158:0,156,2:0:0:156,2:5538,72:-497.415,-46.9607,0,-491.54,-40.726,-490.938 1/1:87:0,86,0:0:0:86,0:3054,0:-273.171,-25.8886,0,-273.171,-25.8886,-273.171 1/1:122:0,119,3:0:0:119,3:4243,108:-379.067,-35.8226,0,-370.254,-26.6505,-369.351 1/2:43:0,20,23:0:0:20,23:705,828:-125.231,-67.9204,-61.8998,-57.6665,0,-50.7428 1/1:126:0,124,0:0:0:124,0:4382,0:-394.058,-37.3277,0,-394.058,-37.3277,-394.058 1/1:8:0,7,0:0:0:7,0:250,0:-22.4568,-2.10721,0,-22.4568,-2.10721,-22.4568 1/1:13:0,13,0:0:0:13,0:455,0:-41.1855,-3.91339,0,-41.1855,-3.91339,-41.1855 1/2:37:0,18,18:0:0:18,18:646,648:-105.11,-52.874,-47.4555,-52.2349,0,-46.8164 1/1:78:0,78,0:0:0:78,0:2757,0:-248.08,-23.4803,0,-248.08,-23.4803,-248.08 1/1:71:0,70,0:0:0:70,0:2482,0:-222.752,-21.0721,0,-222.752,-21.0721,-222.752 1/2:151:0,79,72:0:0:79,72:2784,2561:-435.134,-209.062,-185.281,-226.425,0,-204.751 1/2:76:0,41,35:0:0:41,35:1446,1252:-220.15,-102.448,-90.1059,-118.057,0,-107.521 1/1:42:0,42,0:0:0:42,0:1480,0:-133.458,-12.6433,0,-133.458,-12.6433,-133.458 1/2:60:0,23,37:0:0:23,37:815,1320:-174.168,-107.963,-101.04,-66.5591,0,-55.421 1/2:85:0,61,24:0:0:61,24:2166,860:-246.742,-70.4971,-52.1343,-176.602,0,-169.377 1/1:92:0,92,0:0:0:92,0:3230,0:-290.494,-27.6948,0,-290.494,-27.6948,-290.494 1/1:65:0,65,0:0:0:65,0:2299,0:-206.259,-19.567,0,-206.259,-19.567,-206.259 chr04 23175838 . GC GT,AT 36105.3 PASS AB=0.506569,0.491971;ABP=3.26707,3.39387;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1336,343;CIGAR=1M1X,2X;DP=1680;DPB=1680;DPRA=0,1.35351;EPP=2904.1,747.825;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.61905,2.08333;MQM=53.89,42.7988;MQMR=0;NS=21;NUMALT=2;ODDS=14.4413;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47804,12235;QR=0;RO=0;RPL=0,0;RPP=2904.1,747.825;RPPR=0;RPR=1336,343;RUN=1,1;SAF=1336,343;SAP=2904.1,747.825;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:107:0,57,50:0:0:57,50:2048,1789:-310.343,-143.422,-126.263,-167.276,0,-152.224 1/2:97:0,48,49:0:0:48,49:1720,1736:-273.918,-134.358,-119.908,-139.907,0,-125.157 1/2:70:0,39,31:0:0:39,31:1396,1110:-203.152,-89.5342,-77.794,-113.972,0,-104.64 1/1:69:0,69,0:0:0:69,0:2480,0:-221.665,-20.7711,0,-221.665,-20.7711,-221.665 1/1:170:0,168,2:0:0:168,2:6036,72:-541.866,-50.573,0,-536.081,-44.4329,-535.479 1/1:70:0,70,0:0:0:70,0:2466,0:-221.047,-21.0721,0,-221.047,-21.0721,-221.047 1/1:138:0,138,0:0:0:138,0:4952,0:-443.81,-41.5421,0,-443.81,-41.5421,-443.81 1/2:61:0,23,38:0:0:23,38:828,1352:-172.418,-105.098,-98.1742,-67.672,0,-56.2329 1/1:160:0,159,1:0:0:159,1:5704,36:-512.543,-47.8638,0,-509.633,-44.598,-509.332 1/1:17:0,17,0:0:0:17,0:608,0:-54.7864,-5.11751,0,-54.7864,-5.11751,-54.7864 1/1:9:0,9,0:0:0:9,0:290,0:-26.3352,-2.70927,0,-26.3352,-2.70927,-26.3352 1/2:17:0,5,12:0:0:5,12:180,432:-48.5813,-33.9432,-32.438,-14.9927,0,-11.3803 1/1:96:0,96,0:0:0:96,0:3444,0:-309.405,-28.8989,0,-309.405,-28.8989,-309.405 1/1:80:0,80,0:0:0:80,0:2860,0:-257.007,-24.0824,0,-257.007,-24.0824,-257.007 1/2:113:0,59,54:0:0:59,54:2101,1936:-325.502,-154.899,-137.138,-170.956,0,-154.701 1/2:78:0,35,42:0:0:35,42:1245,1502:-222.412,-121.153,-110.617,-101.254,0,-88.6105 1/1:82:0,82,0:0:0:82,0:2925,0:-263.236,-24.6845,0,-263.236,-24.6845,-263.236 1/2:90:0,51,39:0:0:51,39:1836,1391:-257.208,-108.886,-93.5331,-148.671,0,-136.931 1/2:52:0,30,22:0:0:30,22:1076,771:-149.296,-61.5921,-52.5612,-88.053,0,-81.4304 1/1:66:0,63,3:0:0:63,3:2253,108:-202.014,-18.9649,0,-193.59,-10.1954,-192.687 1/1:38:0,38,0:0:0:38,0:1356,0:-121.681,-11.4391,0,-121.681,-11.4391,-121.681 chr04 23176382 . T A,G 26171.9 PASS AB=0.509615,0.490385;ABP=3.51141,3.51141;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1344,312;CIGAR=1X,1X;DP=1658;DPB=1658;DPRA=0,1.08678;EPP=2921.47,680.51;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=1.57143,2;MQM=30.4144,29.6442;MQMR=38;NS=21;NUMALT=2;ODDS=2.26555;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47937,11012;QR=72;RO=2;RPL=0,0;RPP=2921.47,680.51;RPPR=3.0103;RPR=1344,312;RUN=1,1;SAF=0,0;SAP=2921.47,680.51;SAR=1344,312;SRF=1;SRP=3.0103;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:118:0,36,82:0:0:36,82:1288,2866:-270.064,-185.169,-174.332,-85.1865,0,-60.502 1/2:55:0,13,42:0:0:13,42:464,1480:-120.363,-90.5726,-86.6592,-30.0749,0,-17.4316 1/2:49:0,30,19:0:0:30,19:1068,671:-114.463,-43.61,-34.5791,-71.1433,0,-65.4237 1/1:144:0,144,0:0:0:144,0:5150,0:-383.347,-43.3483,0,-383.347,-43.3483,-383.347 1/1:135:1,130,4:1:36:130,4:4599,129:-339.324,-36.2355,0,-331.139,-30.7151,-332.817 1/1:77:0,77,0:0:0:77,0:2734,0:-200.391,-23.1793,0,-200.391,-23.1793,-200.391 1/1:120:0,120,0:0:0:120,0:4260,0:-311.486,-36.1236,0,-311.486,-36.1236,-311.486 1/2:71:0,39,32:0:0:39,32:1387,1135:-165.406,-73.2859,-61.5457,-92.4109,0,-82.7779 1/1:121:0,121,0:0:0:121,0:4311,0:-306.039,-36.4246,0,-306.039,-36.4246,-306.039 1/1:5:0,5,0:0:0:5,0:176,0:-13.3436,-1.50515,0,-13.3436,-1.50515,-13.3436 1/1:7:0,7,0:0:0:7,0:244,0:-18.3673,-2.10721,0,-18.3673,-2.10721,-18.3673 1/2:22:0,16,6:0:0:16,6:572,212:-51.5805,-14.0536,-9.23709,-37.8169,0,-36.0107 1/1:104:0,103,1:0:0:103,1:3700,36:-274.842,-31.0061,0,-272.53,-28.4044,-272.229 1/1:118:0,117,1:0:0:117,1:4196,36:-313.109,-35.2205,0,-310.797,-32.6188,-310.496 1/2:102:0,66,36:0:0:66,36:2344,1279:-237.9,-82.8026,-62.9346,-155.387,0,-144.55 1/2:64:0,33,31:0:0:33,31:1188,1107:-145.596,-71.6032,-61.6692,-74.2784,0,-64.9465 1/1:54:0,54,0:0:0:54,0:1931,0:-137.829,-16.2556,0,-137.829,-16.2556,-137.829 1/2:56:0,21,35:0:0:21,35:752,1237:-128.699,-78.9443,-72.6227,-50.0465,0,-39.5104 1/2:87:0,64,23:0:0:64,23:2288,824:-202.912,-52.3672,-33.1013,-150.832,0,-143.908 1/1:106:0,106,0:0:0:106,0:3777,0:-281.85,-31.9092,0,-281.85,-31.9092,-281.85 1/1:43:1,42,0:1:36:42,0:1508,0:-107.414,-9.88975,0,-107.715,-12.6433,-110.164 chr04 23176389 . AGGGAGT AGGAGT 17662.3 PASS AB=0.49361;ABP=3.2323;AC=33;AF=0.785714;AN=42;AO=1284;CIGAR=1M1D5M;DP=1607;DPB=1423.57;DPRA=0;EPP=2791.18;EPPR=695.737;GTI=0;LEN=1;MEANALT=1;MQM=30.4579;MQMR=29.7678;NS=21;NUMALT=1;ODDS=6.90586;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38619;QR=11199;RO=323;RPL=0;RPP=2791.18;RPPR=687.132;RPR=1284;RUN=1;SAF=0;SAP=2791.18;SAR=1284;SRF=1;SRP=695.737;SRR=322;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:84,37:84:2904:37:1107:-54.3468,0,-178.619 0/1:56:43,13:43:1501:13:388:-14.8113,0,-89.0072 0/1:50:21,29:21:712:29:869:-56.2296,0,-38.6418 1/1:137:0,137:0:0:137:4184:-341.19,-41.2411,0 1/1:126:3,123:3:105:123:3721:-295.797,-29.8758,0 1/1:74:0,74:0:0:74:2212:-179.652,-22.2762,0 1/1:115:0,115:0:0:115:3407:-277.008,-34.6185,0 0/1:70:33,37:33:1136:37:1137:-71.7975,0,-63.4417 1/1:114:0,114:0:0:114:3271:-264.771,-34.3174,0 1/1:4:0,4:0:0:4:124:-10.3568,-1.20412,0 1/1:6:0,6:0:0:6:180:-14.8455,-1.80618,0 0/1:23:7,16:7:235:16:490:-33.1206,0,-10.9771 1/1:96:1,95:1:36:95:2927:-235.223,-25.9961,0 1/1:113:1,112:1:36:112:3416:-276.029,-31.1136,0 0/1:101:38,63:38:1319:63:1943:-127.92,0,-68.352 0/1:64:32,32:32:1116:32:928:-55.9925,0,-63.5638 1/1:48:0,48:0:0:48:1376:-111.858,-14.4494,0 0/1:56:35,21:35:1222:21:641:-35.7029,0,-72.602 0/1:85:24,61:24:841:61:1850:-125.605,0,-35.8419 1/1:105:0,105:0:0:105:3201:-261.1,-31.6082,0 1/1:43:1,42:1:36:42:1247:-98.7634,-9.88975,0 chr04 23176416 . T G 3112.06 PASS AB=0.488994;ABP=3.6795;AC=9;AF=0.214286;AN=42;AO=316;CIGAR=1X;DP=1683;DPB=1683;DPRA=1.082;EPP=689.196;EPPR=2971.41;GTI=0;LEN=1;MEANALT=1;MQM=29.5791;MQMR=30.4294;NS=21;NUMALT=1;ODDS=5.17753;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11262;QR=48904;RO=1367;RPL=316;RPP=689.196;RPPR=2971.41;RPR=0;RUN=1;SAF=0;SAP=689.196;SAR=316;SRF=0;SRP=2971.41;SRR=1367;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:39,82:39:1396:82:2915:-175.759,0,-67.6472 0/1:55:13,42:13:464:42:1487:-86.4467,0,-17.4316 0/1:53:32,21:32:1148:21:744:-38.7653,0,-69.7677 0/0:151:151,0:151:5379:0:0:0,-45.4555,-401.312 0/0:134:131,3:131:4681:3:108:0,-32.2103,-339.951 0/0:78:78,0:78:2808:0:0:0,-23.4803,-204.205 0/0:121:121,0:121:4337:0:0:0,-36.4246,-315.862 0/1:72:39,33:39:1400:33:1172:-63.8715,0,-82.9828 0/0:122:122,0:122:4353:0:0:0,-36.7257,-308.961 0/0:5:5,0:5:180:0:0:0,-1.50515,-13.4059 0/0:6:6,0:6:216:0:0:0,-1.80618,-15.9652 0/1:23:16,7:16:572:7:248:-11.4272,0,-35.7096 0/0:104:103,1:103:3670:1:36:0,-28.4044,-270.568 0/0:120:119,1:119:4242:1:36:0,-33.2208,-314.322 0/1:105:68,37:68:2410:37:1324:-65.5442,0,-148.504 0/1:64:33,31:33:1188:31:1116:-62.0115,0,-65.0907 0/0:57:57,0:57:2044:0:0:0,-17.1587,-145.769 0/1:55:21,34:21:756:34:1220:-71.2737,0,-39.9332 0/1:88:64,24:64:2304:24:856:-35.2947,0,-144.092 0/0:108:108,0:108:3888:0:0:0,-32.5112,-288.6 0/0:41:41,0:41:1468:0:0:0,-12.3422,-107.753 chr04 23196128 . AAACC AAACA,GAACA 17748.1 PASS AB=0.463563,0.532389;ABP=8.70712,7.51149;AC=33,9;AF=0.785714,0.214286;AN=42;AO=604,264;CIGAR=4M1X,1X3M1X;DP=873;DPB=873;DPRA=0,2.05888;EPP=1314.58,576.279;EPPR=0;GTI=1;LEN=1,5;MEANALT=1.71429,2.2;MQM=59.7649,37.2841;MQMR=0;NS=21;NUMALT=2;ODDS=0.97999;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21644,9277;QR=0;RO=0;RPL=0,0;RPP=1314.58,576.279;RPPR=0;RPR=604,264;RUN=1,1;SAF=0,0;SAP=1314.58,576.279;SAR=604,264;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:74:0,31,43:0:0:31,43:1116,1527:-207.207,-116.144,-106.812,-91.4116,0,-78.4673 1/2:54:0,26,27:0:0:26,27:921,942:-147.163,-72.1347,-64.3079,-75.0975,0,-66.9697 1/2:42:0,16,26:0:0:16,26:576,926:-117.711,-70.7029,-65.8864,-47.3585,0,-39.5317 1/1:12:0,12,0:0:0:12,0:432,0:-39.213,-3.61236,0,-39.213,-3.61236,-39.213 1/1:75:0,74,1:0:0:74,1:2652,36:-238.558,-22.2762,0,-235.629,-18.988,-235.328 1/1:37:0,37,0:0:0:37,0:1328,0:-119.786,-11.1381,0,-119.786,-11.1381,-119.786 1/1:52:0,50,0:0:0:50,0:1783,0:-160.537,-15.0515,0,-160.537,-15.0515,-160.537 1/2:57:0,26,31:0:0:26,31:936,1101:-159.156,-82.7799,-74.9531,-76.7216,0,-67.3897 1/1:43:0,43,0:0:0:43,0:1544,0:-139.245,-12.9443,0,-139.245,-12.9443,-139.245 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:21:0,12,9:0:0:12,9:432,319:-59.6819,-24.4163,-20.8039,-35.6088,0,-32.8996 1/1:20:0,20,0:0:0:20,0:720,0:-65.1288,-6.0206,0,-65.1288,-6.0206,-65.1288 1/1:32:0,32,0:0:0:32,0:1144,0:-103.258,-9.63296,0,-103.258,-9.63296,-103.258 1/2:71:0,31,40:0:0:31,40:1107,1422:-198.509,-108.248,-98.9158,-90.6082,0,-78.567 1/2:52:0,26,26:0:0:26,26:936,895:-143.407,-67.0132,-59.1864,-76.7327,0,-68.9059 1/1:58:0,57,0:0:0:57,0:2021,0:-181.945,-17.1587,0,-181.945,-17.1587,-181.945 1/2:100:0,49,50:0:0:49,50:1764,1725:-272.874,-128.942,-114.191,-144.049,0,-128.998 1/2:23:0,12,11:0:0:12,11:432,384:-64.9901,-29.7339,-26.1216,-35.6006,0,-32.2893 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:20:0,20,0:0:0:20,0:720,0:-65.1288,-6.0206,0,-65.1288,-6.0206,-65.1288 chr04 23196161 . G A 3744.89 PASS AB=0.531697;ABP=7.27775;AC=9;AF=0.214286;AN=42;AO=260;CIGAR=1X;DP=865;DPB=865;DPRA=1.73404;EPP=567.593;EPPR=1316.75;GTI=1;LEN=1;MEANALT=1;MQM=37.1731;MQMR=59.6843;NS=21;NUMALT=1;ODDS=0.633137;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9297;QR=21559;RO=605;RPL=260;RPP=567.593;RPPR=1316.75;RPR=0;RUN=1;SAF=0;SAP=567.593;SAR=260;SRF=0;SRP=1316.75;SRR=605;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:31,43:31:1108:43:1540:-107.594,0,-77.7515 0/1:52:26,26:26:932:26:936:-63.9876,0,-68.5071 0/1:41:15,26:15:536:26:909:-64.909,0,-36.2326 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.213 0/0:74:74,0:74:2652:0:0:0,-22.2762,-238.909 0/0:36:36,0:36:1243:0:0:0,-10.8371,-112.129 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.61 0/1:58:27,31:27:964:31:1112:-75.0553,0,-69.6124 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.165 0/0:12:12,0:12:409:0:0:0,-3.61236,-37.1354 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:20:11,9:11:396:9:320:-21.176,0,-29.9621 0/0:20:20,0:20:705:0:0:0,-6.0206,-63.7728 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.621 0/1:69:30,39:30:1076:39:1400:-97.2801,0,-76.3818 0/1:54:28,26:28:996:26:932:-60.7679,0,-73.6993 0/0:58:58,0:58:2057:0:0:0,-17.4597,-185.392 0/1:99:49,50:49:1760:50:1788:-117.872,0,-128.861 0/1:22:12,10:12:432:10:360:-24.2045,0,-32.5903 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 chr04 23274013 . GACTC AACTT,GACTT 37738.5 PASS AB=0.568,0.4256;ABP=28.1125,33.06;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1511,273;CIGAR=1X3M1X,4M1X;DP=1798;DPB=1798.2;DPRA=0,0.827193;EPP=3284.11,595.822;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.19048,2.33333;MQM=59.8187,59.9158;MQMR=0;NS=21;NUMALT=2;ODDS=13.3349;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=52621,9766;QR=0;RO=0;RPL=0,0;RPP=3284.11,595.822;RPPR=0;RPR=1511,273;RUN=1,1;SAF=1511,273;SAP=3284.11,595.822;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,31,33:0:0:31,33:1067,1184:-183.257,-96.6036,-87.2716,-86.6732,0,-76.7392 1/2:59:0,35,23:0:0:35,23:1227,820:-166.688,-66.8501,-56.314,-99.851,0,-92.9273 1/2:55:0,31,23:0:0:31,23:1088,828:-156.18,-67.6371,-58.3052,-88.6149,0,-81.6912 1/1:163:0,160,0:0:0:160,0:5633,0:-506.755,-48.1648,0,-506.755,-48.1648,-506.755 1/1:164:0,159,5:0:0:159,5:5506,180:-495.322,-47.8638,0,-480.636,-32.8184,-479.131 1/1:119:0,116,0:0:0:116,0:4032,0:-362.535,-34.9195,0,-362.535,-34.9195,-362.535 1/1:159:0,158,0:0:0:158,0:5471,0:-492.254,-47.5627,0,-492.254,-47.5627,-492.254 1/2:64:0,51,13:0:0:51,13:1767,468:-182.147,-38.5463,-23.1937,-143.958,0,-140.044 1/1:153:0,152,0:0:0:152,0:5305,0:-477.17,-45.7566,0,-477.17,-45.7566,-477.17 1/1:7:0,7,0:0:0:7,0:251,0:-22.9379,-2.10721,0,-22.9379,-2.10721,-22.9379 1/1:8:0,8,0:0:0:8,0:276,0:-25.1723,-2.40824,0,-25.1723,-2.40824,-25.1723 1/2:30:0,17,13:0:0:17,13:595,468:-86.9464,-38.5416,-33.4241,-48.7602,0,-44.8468 1/1:104:0,103,1:0:0:103,1:3606,36:-324.378,-31.0061,0,-321.441,-27.7088,-321.14 1/1:114:0,113,0:0:0:113,0:3871,0:-348.283,-34.0164,0,-348.283,-34.0164,-348.283 1/2:135:0,80,55:0:0:80,55:2838,1972:-392.305,-161.198,-137.116,-231.464,0,-214.907 1/2:58:0,29,28:0:0:29,28:979,987:-159.802,-80.4607,-71.7308,-79.4316,0,-71.0027 1/1:50:0,49,1:0:0:49,1:1711,36:-153.915,-14.7505,0,-150.977,-11.4532,-150.676 1/2:84:0,30,54:0:0:30,54:1061,1923:-243.498,-157.089,-148.058,-86.7628,0,-70.5072 1/2:75:0,51,24:0:0:51,24:1796,864:-217.043,-70.8578,-55.5053,-146.543,0,-139.318 1/1:83:0,82,0:0:0:82,0:2846,0:-256.045,-24.6845,0,-256.045,-24.6845,-256.045 1/1:49:0,49,0:0:0:49,0:1695,0:-152.833,-14.7505,0,-152.833,-14.7505,-152.833 chr04 23274025 . C T 4102.06 PASS AB=0.439868;ABP=22.0742;AC=9;AF=0.214286;AN=42;AO=274;CIGAR=1X;DP=1734;DPB=1734;DPRA=0.822551;EPP=589.34;EPPR=3002.02;GTI=0;LEN=1;MEANALT=1;MQM=59.8796;MQMR=59.8288;NS=21;NUMALT=1;ODDS=13.0868;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9766;QR=51545;RO=1460;RPL=1;RPP=589.34;RPPR=3002.02;RPR=273;RUN=1;SAF=274;SAP=597.994;SAR=0;SRF=1460;SRP=3173.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:30,33:30:1032:33:1180:-87.5432,0,-74.2206 0/1:58:35,23:35:1222:23:811:-55.842,0,-92.8082 0/1:53:29,24:29:1022:24:864:-62.128,0,-76.3363 0/0:159:159,0:159:5637:0:0:0,-47.8638,-507.307 0/0:155:150,5:150:5303:5:180:0,-30.1092,-460.855 0/0:114:114,0:114:4007:0:0:0,-34.3174,-360.518 0/0:154:154,0:154:5427:0:0:0,-46.3586,-488.563 0/1:58:46,12:46:1634:12:432:-21.7615,0,-129.888 0/0:150:150,0:150:5307:0:0:0,-45.1545,-477.652 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:7:7,0:7:243:0:0:0,-2.10721,-22.2071 0/1:30:17,13:17:599:13:455:-32.25,0,-45.2072 0/0:98:97,1:97:3439:1:36:0,-25.9027,-306.127 0/0:110:110,0:110:3893:0:0:0,-33.1133,-350.566 0/1:129:77,52:77:2719:52:1856:-128.487,0,-206.016 0/1:56:26,30:26:928:30:1067:-79.4832,0,-66.9806 0/0:47:46,1:46:1631:1:36:0,-10.5501,-143.479 0/1:87:30,57:30:1068:57:2036:-157.317,0,-70.2239 0/1:73:50,23:50:1749:23:813:-51.5139,0,-135.676 0/0:80:80,0:80:2818:0:0:0,-24.0824,-253.861 0/0:46:46,0:46:1615:0:0:0,-13.8474,-145.638 chr04 23322776 . G A 21429.9 PASS AB=0.530435;ABP=6.71124;AC=33;AF=0.785714;AN=42;AO=996;CIGAR=1X;DP=1215;DPB=1215;DPRA=0;EPP=2165.8;EPPR=478.563;GTI=0;LEN=1;MEANALT=1;MQM=59.7942;MQMR=59.9863;NS=21;NUMALT=1;ODDS=14.6481;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35581;QR=7785;RO=219;RPL=996;RPP=2165.8;RPPR=478.563;RPR=0;RUN=1;SAF=0;SAP=2165.8;SAR=996;SRF=0;SRP=478.563;SRR=219;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:35,37:35:1234:37:1300:-95.6243,0,-89.687 0/1:34:17,17:17:608:17:600:-44.0909,0,-44.817 0/1:75:33,42:33:1175:42:1496:-112.312,0,-83.4797 1/1:79:0,79:0:0:79:2832:-254.748,-23.7814,0 1/1:117:1,116:1:36:116:4138:-368.997,-31.6222,0 1/1:58:0,58:0:0:58:2084:-187.611,-17.4597,0 1/1:67:1,66:1:36:66:2363:-209.322,-16.5707,0 0/1:107:53,54:53:1883:54:1940:-142.61,0,-137.538 1/1:111:0,111:0:0:111:3977:-358.105,-33.4143,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:6:0,6:0:0:6:216:-19.7835,-1.80618,0 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 1/1:114:0,114:0:0:114:4070:-366.483,-34.3174,0 1/1:84:0,84:0:0:84:2978:-268.246,-25.2865,0 0/1:66:26,40:26:927:40:1440:-110.03,0,-63.8794 0/1:14:10,4:10:347:4:131:-7.89905,0,-27.3492 1/1:38:0,38:0:0:38:1356:-122.34,-11.4391,0 0/1:48:24,24:24:855:24:856:-62.9117,0,-62.8207 0/1:35:13,22:13:468:22:788:-60.7087,0,-31.9236 1/1:46:1,45:1:36:45:1612:-141.769,-10.2491,0 1/1:26:0,26:0:0:26:936:-84.5552,-7.82678,0 chr04 23360373 . G A 2999.32 PASS AB=0.442953;ABP=15.6456;AC=9;AF=0.214286;AN=42;AO=200;CIGAR=1X;DP=1210;DPB=1210;DPRA=1.30419;EPP=437.305;EPPR=2196.2;GTI=0;LEN=1;MEANALT=1;MQM=59.095;MQMR=59.905;NS=21;NUMALT=1;ODDS=18.3617;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7092;QR=35875;RO=1010;RPL=200;RPP=437.305;RPPR=2196.2;RPR=0;RUN=1;SAF=200;SAP=437.305;SAR=0;SRF=1010;SRP=2196.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:20,16:20:720:16:557:-39.6185,0,-54.2917 0/1:34:21,13:21:744:13:468:-32.2246,0,-57.0422 0/1:32:9,23:9:320:23:815:-63.8499,0,-19.5094 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/0:188:187,1:187:6662:1:36:0,-52.9954,-596.062 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/0:78:77,1:77:2740:1:36:0,-19.8821,-242.921 0/1:34:17,17:17:597:17:604:-44.4315,0,-43.8211 0/0:137:137,0:137:4881:0:0:0,-41.2411,-439.443 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:16:8,8:8:288:8:284:-21.0777,0,-21.4509 0/0:98:98,0:98:3512:0:0:0,-29.5009,-316.29 0/0:40:40,0:40:1383:0:0:0,-12.0412,-124.739 0/1:93:51,42:51:1828:42:1493:-106.285,0,-136.805 0/1:49:31,18:31:1112:18:644:-43.531,0,-85.6409 0/0:34:34,0:34:1199:0:0:0,-10.235,-108.17 0/1:81:48,33:48:1672:33:1171:-81.2737,0,-126.38 0/1:72:44,28:44:1550:28:984:-67.0249,0,-118.116 0/0:40:40,0:40:1409:0:0:0,-12.0412,-127.104 0/0:47:47,0:47:1638:0:0:0,-14.1484,-147.703 chr04 23360667 . A T 12593.8 PASS AB=0.480373;ABP=8.03951;AC=9;AF=0.214286;AN=42;AO=735;CIGAR=1X;DP=3759;DPB=3759;DPRA=2.13477;EPP=1454.8;EPPR=5884.83;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9841;NS=21;NUMALT=1;ODDS=26.5132;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26161;QR=108429;RO=3024;RPL=718;RPP=1454.8;RPPR=5884.83;RPR=17;RUN=1;SAF=0;SAP=1599.04;SAR=735;SRF=0;SRP=6569.54;SRR=3024;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:218:104,114:104:3731:114:4056:-299.605,0,-270.351 0/1:155:62,93:62:2219:93:3306:-251.097,0,-153.314 0/1:192:81,111:81:2912:111:3957:-298.523,0,-204.517 0/0:306:305,1:305:10959:1:36:0,-88.5169,-982.601 0/0:324:322,2:322:11535:2:68:0,-91.076,-1031.56 0/0:239:238,1:238:8547:1:36:0,-68.3479,-765.625 0/0:248:247,1:247:8872:1:36:0,-71.0572,-794.862 0/1:218:126,92:126:4510:92:3261:-228.087,0,-340.442 0/0:272:271,1:271:9700:1:36:0,-78.2819,-869.306 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:61:31,30:31:1112:30:1072:-78.4296,0,-82.0285 0/0:218:218,0:218:7824:0:0:0,-65.6245,-704.186 0/0:239:238,1:238:8523:1:36:0,-68.3479,-763.47 0/1:342:202,140:202:7232:140:5001:-347.285,0,-547.981 0/1:134:78,56:78:2804:56:1980:-138.134,0,-212.261 0/0:159:159,0:159:5678:0:0:0,-47.8638,-511.139 0/1:92:41,51:41:1476:51:1812:-135.664,0,-105.441 0/1:91:56,35:56:2012:35:1252:-85.5913,0,-153.959 0/0:148:142,6:142:5095:6:216:0,-24.7619,-438.901 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.851 chr04 23365708 . G C 3786.98 PASS AB=0.536264;ABP=8.20752;AC=9;AF=0.214286;AN=42;AO=246;CIGAR=1X;DP=1140;DPB=1140;DPRA=0.835185;EPP=71.3675;EPPR=64.6231;GTI=0;LEN=1;MEANALT=1.2;MQM=39.2683;MQMR=27.0707;NS=21;NUMALT=1;ODDS=7.77388;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8780;QR=31305;RO=891;RPL=79;RPP=71.3675;RPPR=64.6231;RPR=167;RUN=1;SAF=0;SAP=537.193;SAR=246;SRF=0;SRP=1937.79;SRR=891;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:21,17:21:743:17:597:-39.9463,0,-41.0651 0/1:36:15,21:15:528:21:756:-47.2893,0,-25.3089 0/1:103:51,52:51:1782:52:1856:-96.4451,0,-87.8921 0/0:83:83,0:83:2904:0:0:0,-24.9855,-204.389 0/0:37:35,2:35:1222:2:72:0,-5.64576,-83.4499 0/0:48:48,0:48:1708:0:0:0,-14.4494,-111.564 0/0:48:48,0:48:1674:0:0:0,-14.4494,-110.917 0/1:68:27,40:27:938:40:1432:-81.2296,0,-42.7093 0/0:129:129,0:129:4569:0:0:0,-38.8329,-289.639 0/0:12:12,0:12:411:0:0:0,-3.61236,-25.0748 0/0:5:5,0:5:176:0:0:0,-1.50515,-12.0216 0/1:20:14,6:14:495:6:216:-11.1755,0,-26.8933 0/0:67:67,0:67:2379:0:0:0,-20.169,-164.716 0/0:117:116,0:116:4086:0:0:0,-34.9195,-276.93 0/1:100:41,58:41:1438:58:2088:-119.883,0,-60.8238 0/1:23:13,10:13:459:10:356:-14.4227,0,-22.9523 0/0:22:22,0:22:780:0:0:0,-6.62266,-50.558 0/1:53:18,35:18:616:35:1227:-67.6428,0,-24.5588 0/1:14:9,5:9:320:5:180:-7.12999,0,-17.3934 0/0:92:92,0:92:3237:0:0:0,-27.6948,-213.051 0/0:25:25,0:25:840:0:0:0,-7.52575,-57.927 chr04 23368314 . TGTAT CGTAA,TGTAA 22528.1 PASS AB=0.533217,0.463287;ABP=8.49213,9.70694;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1262,268;CIGAR=1X3M1X,4M1X;DP=1535;DPB=1535;DPRA=0,0.741821;EPP=2743.41,584.965;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.85714,2.15385;MQM=28.3946,31.2799;MQMR=0;NS=21;NUMALT=2;ODDS=14.0622;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44382,9581;QR=0;RO=0;RPL=0,0;RPP=2743.41,584.965;RPPR=0;RPR=1262,268;RUN=1,1;SAF=0,0;SAP=2743.41,584.965;SAR=1262,268;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:88:0,43,45:0:0:43,45:1510,1608:-201.614,-106.59,-93.6456,-95.3116,0,-81.7652 1/2:36:0,15,21:0:0:15,21:524,752:-82.4254,-49.7796,-45.2642,-32.9295,0,-26.6078 1/2:92:0,56,35:0:0:56,35:1953,1260:-206.287,-82.8465,-65.9889,-123.468,0,-112.932 1/1:48:0,48,0:0:0:48,0:1693,0:-120.206,-14.4494,0,-120.206,-14.4494,-120.206 1/1:199:0,199,0:0:0:199,0:6974,0:-497.487,-59.905,0,-497.487,-59.905,-497.487 1/1:60:0,58,0:0:0:58,0:2045,0:-146.035,-17.4597,0,-146.035,-17.4597,-146.035 1/1:133:0,133,0:0:0:133,0:4687,0:-332.271,-40.037,0,-332.271,-40.037,-332.271 1/2:109:0,55,54:0:0:55,54:1937,1932:-248.185,-127.799,-111.243,-120.672,0,-104.417 1/1:167:0,167,0:0:0:167,0:5887,0:-384.973,-50.272,0,-384.973,-50.272,-384.973 1/2:8:0,7,1:0:0:7,1:251,36:-17.2868,-2.67972,-0.572512,-14.9011,0,-14.6001 1/1:7:0,7,0:0:0:7,0:245,0:-17.6286,-2.10721,0,-17.6286,-2.10721,-17.6286 1/2:52:0,22,30:0:0:22,30:778,1071:-120.247,-71.3863,-64.7636,-49.1482,0,-40.1173 1/1:117:0,116,1:0:0:116,1:4097,36:-288.967,-34.9195,0,-286.586,-32.2398,-286.285 1/1:80:0,79,1:0:0:79,1:2781,36:-199.269,-23.7814,0,-196.887,-21.1016,-196.586 1/2:69:0,43,25:0:0:43,25:1512,892:-155.59,-60.2087,-47.2644,-95.4127,0,-87.887 1/2:39:0,16,23:0:0:16,23:558,810:-81.3264,-50.0115,-45.195,-31.5753,0,-24.6516 1/1:34:0,33,0:0:0:33,0:1154,0:-77.1961,-9.93399,0,-77.1961,-9.93399,-77.1961 1/2:41:0,23,18:0:0:23,18:791,644:-94.1386,-43.6005,-36.6768,-50.8287,0,-45.4101 1/2:38:0,25,13:0:0:25,13:888,468:-87.0723,-31.9493,-24.4236,-55.4182,0,-51.5048 1/1:70:0,69,1:0:0:69,1:2444,36:-173.452,-20.7711,0,-171.07,-18.0913,-170.769 1/1:48:0,48,0:0:0:48,0:1673,0:-119.784,-14.4494,0,-119.784,-14.4494,-119.784 chr04 23538640 . GTAT GT 3303.34 PASS AB=0.386606;ABP=76.3876;AC=7;AF=0.166667;AN=42;AO=254;CIGAR=1M2D1M;DP=2743;DPB=2616;DPRA=0.629914;EPP=554.564;EPPR=5392.6;GTI=0;LEN=2;MEANALT=1.14286;MQM=60;MQMR=59.9678;NS=21;NUMALT=1;ODDS=28.9637;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8850;QR=88116;RO=2482;RPL=254;RPP=554.564;RPPR=5392.6;RPR=0;RUN=1;SAF=0;SAP=554.564;SAR=254;SRF=0;SRP=5392.6;SRR=2482;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:67,36:67:2368:36:1242:-81.0715,0,-182.372 0/1:96:63,33:63:2239:33:1149:-74.815,0,-172.875 0/1:102:63,39:63:2237:39:1376:-93.4336,0,-170.89 0/0:219:219,0:219:7767:0:0:0,-65.9256,-698.752 0/0:275:273,0:273:9674:0:0:0,-82.1812,-870.303 0/0:156:156,0:156:5577:0:0:0,-46.9607,-501.199 0/0:179:179,0:179:6330:0:0:0,-53.8844,-569.797 0/1:154:84,69:84:2981:69:2397:-169.571,0,-222.107 0/0:242:242,0:242:8638:0:0:0,-72.8493,-777.41 0/0:26:26,0:26:918:0:0:0,-7.82678,-82.9368 0/0:11:11,0:11:390:0:0:0,-3.31133,-35.4385 0/1:36:21,15:21:735:15:536:-37.7377,0,-55.6353 0/0:193:193,0:193:6848:0:0:0,-58.0988,-616.396 0/0:138:138,0:138:4885:0:0:0,-41.5421,-439.808 0/0:224:222,0:222:7892:0:0:0,-66.8287,-709.951 0/0:139:137,0:137:4849:0:0:0,-41.2411,-436.207 0/0:95:95,0:95:3387:0:0:0,-28.5978,-305.046 0/1:107:67,40:67:2377:40:1370:-91.3824,0,-181.978 0/1:59:37,22:37:1317:22:780:-52.7623,0,-101.071 0/0:122:122,0:122:4353:0:0:0,-36.7257,-391.947 0/0:67:67,0:67:2354:0:0:0,-20.169,-212.113 chr04 23598975 . C A,T 19424.2 PASS AB=0.488263,0.507042;ABP=3.26517,3.10205;AC=35,7;AF=0.833333,0.166667;AN=42;AO=766,110;CIGAR=1X,1X;DP=877;DPB=877;DPRA=0,0.937217;EPP=1666.36,233.265;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.42857,2;MQM=59.6384,60;MQMR=60;NS=21;NUMALT=2;ODDS=14.6618;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27300,3942;QR=32;RO=1;RPL=766,109;RPP=1666.36,233.265;RPPR=5.18177;RPR=0,1;RUN=1,1;SAF=766,110;SAP=1666.36,241.872;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:42:0,9,33:0:0:9,33:320,1174:-122.11,-96.0334,-93.3241,-26.4315,0,-16.4975 1/2:24:1,16,7:1:32:16,7:576,252:-64.6944,-18.0235,-15.7804,-44.4334,0,-44.9022 1/2:53:0,30,23:0:0:30,23:1080,828:-156.043,-67.9204,-58.8895,-88.4823,0,-81.5587 1/1:40:0,40,0:0:0:40,0:1424,0:-128.432,-12.0412,0,-128.432,-12.0412,-128.432 1/1:103:0,103,0:0:0:103,0:3652,0:-328.875,-31.0061,0,-328.875,-31.0061,-328.875 1/1:28:0,28,0:0:0:28,0:1008,0:-91.0282,-8.42884,0,-91.0282,-8.42884,-91.0282 1/1:63:0,62,1:0:0:62,1:2212,36:-198.977,-18.6639,0,-196.04,-15.3666,-195.739 1/2:17:0,9,8:0:0:9,8:320,288:-49.9345,-23.8592,-21.1499,-26.4331,0,-24.0248 1/1:66:0,66,0:0:0:66,0:2349,0:-211.662,-19.868,0,-211.662,-19.868,-211.662 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:17:0,8,9:0:0:8,9:273,320:-48.5723,-26.4331,-24.0248,-22.487,0,-19.7778 1/1:59:0,59,0:0:0:59,0:2104,0:-189.62,-17.7608,0,-189.62,-17.7608,-189.62 1/1:75:0,75,0:0:0:75,0:2643,0:-238.115,-22.5773,0,-238.115,-22.5773,-238.115 1/1:86:0,85,1:0:0:85,1:3048,36:-274.119,-25.5876,0,-271.182,-22.2903,-270.88 1/1:18:0,18,0:0:0:18,0:648,0:-58.651,-5.41854,0,-58.651,-5.41854,-58.651 1/1:28:0,28,0:0:0:28,0:1000,0:-90.1807,-8.42884,0,-90.1807,-8.42884,-90.1807 1/2:33:0,15,18:0:0:15,18:532,648:-96.5666,-53.2333,-48.7179,-43.6902,0,-38.2716 1/2:27:0,17,10:0:0:17,10:608,360:-79.3003,-29.734,-24.6165,-49.9252,0,-46.9149 1/1:69:0,69,0:0:0:69,0:2467,0:-222.248,-20.7711,0,-222.248,-20.7711,-222.248 1/1:10:0,10,0:0:0:10,0:352,0:-32.0173,-3.0103,0,-32.0173,-3.0103,-32.0173 chr04 23598985 . CCGGAGG ACGGGGA,CCGGGGA 18341 PASS AB=0.479452,0.515982;ABP=3.81345,3.49615;AC=35,7;AF=0.833333,0.166667;AN=42;AO=764,115;CIGAR=1X3M1X1M1X,4M1X1M1X;DP=893;DPB=893;DPRA=0,0.947637;EPP=1662.02,252.73;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.09524,2.44444;MQM=59.6636,60;MQMR=0;NS=21;NUMALT=2;ODDS=13.9362;PAIRED=0,0;PAIREDR=0;PAO=1,0.5;PQA=32,0;PQR=0;PRO=0.5;QA=26165,3953;QR=0;RO=0;RPL=764,115;RPP=1662.02,252.73;RPPR=0;RPR=0,0;RUN=1,1;SAF=764,115;SAP=1662.02,252.73;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:0,10,34:0:0:10,34:327,1163:-121.129,-94.7348,-91.7245,-26.7243,0,-16.4893 1/2:24:0,16,8:0:0:16,8:550,274:-67.2331,-22.5841,-17.7676,-44.9917,0,-42.5835 1/2:56:0,30,26:0:0:30,26:1028,912:-158.016,-74.5684,-65.5375,-83.7949,0,-75.9682 1/1:40:0,37,0:0:0:37,0:1273,0:-114.556,-11.1381,0,-114.556,-11.1381,-114.556 1/1:105:0,103,0:0:0:103,0:3576,0:-321.711,-31.0061,0,-321.711,-31.0061,-321.711 1/1:28:0,28,0:0:0:28,0:964,0:-87.068,-8.42884,0,-87.068,-8.42884,-87.068 1/1:65:0,63,1:0:0:63,1:2167,34:-194.945,-18.9649,0,-192.187,-16.2119,-191.886 1/2:17:0,9,8:0:0:9,8:309,271:-47.404,-22.3115,-19.6022,-25.4333,0,-23.0251 1/1:67:0,67,0:0:0:67,0:2298,0:-207.082,-20.169,0,-207.082,-20.169,-207.082 1/1:13:0,13,0:0:0:13,0:446,0:-40.4682,-3.91339,0,-40.4682,-3.91339,-40.4682 1/1:6:0,6,0:0:0:6,0:210,0:-19.2417,-1.80618,0,-19.2417,-1.80618,-19.2417 1/2:17:0,8,9:0:0:8,9:276,313:-48.2104,-25.7963,-23.3881,-22.7602,0,-20.0509 1/1:61:0,60,0:0:0:60,0:2060,0:-185.307,-18.0618,0,-185.307,-18.0618,-185.307 1/1:75:0,75,0:0:0:75,0:2515,0:-226.603,-22.5773,0,-226.603,-22.5773,-226.603 1/1:87:0,84,1:0:0:84,1:2863,36:-257.561,-25.2865,0,-254.623,-22.3408,-254.322 1/1:19:0,18,0:0:0:18,0:635,0:-57.1847,-5.41854,0,-57.1847,-5.41854,-57.1847 1/1:28:0,28,0:0:0:28,0:967,0:-87.3115,-8.42884,0,-87.3115,-8.42884,-87.3115 1/2:34:0,15,18:0:0:15,18:498,606:-89.3995,-49.1165,-44.601,-40.2959,0,-34.8774 1/2:27:0,17,10:0:0:17,10:572,344:-74.6184,-28.2816,-23.1641,-46.6778,0,-43.6675 1/1:71:0,68,0:0:0:68,0:2331,0:-209.745,-20.47,0,-209.745,-20.47,-209.745 1/1:9:0,9,0:0:0:9,0:300,0:-27.3236,-2.70927,0,-27.3236,-2.70927,-27.3236 chr04 23617138 . C T 65231.2 PASS AB=0.516556;ABP=5.16739;AC=35;AF=0.833333;AN=42;AO=2950;CIGAR=1X;DP=3407;DPB=3407;DPRA=0;EPP=6408.85;EPPR=993.202;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9966;MQMR=59.9715;NS=21;NUMALT=1;ODDS=28.7309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=105810;QR=16261;RO=456;RPL=2950;RPP=6408.85;RPPR=993.202;RPR=0;RUN=1;SAF=0;SAP=6408.85;SAR=2950;SRF=0;SRP=993.202;SRR=456;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:229:110,119:110:3914:119:4260:-314.642,0,-283.515 0/1:94:60,34:60:2148:34:1220:-81.81,0,-165.291 0/1:155:75,80:75:2688:80:2872:-212.057,0,-195.505 1/1:276:0,276:0:0:276:9894:-890.396,-83.0843,0 1/1:288:3,285:3:104:285:10210:-909.107,-76.9938,0 1/1:134:3,131:3:108:131:4697:-412.812,-30.2629,0 1/1:189:2,187:2:72:187:6724:-598.394,-50.0579,0 0/1:176:76,100:76:2690:100:3596:-270.864,0,-189.361 1/1:284:0,283:0:0:283:10168:-914.685,-85.1915,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:27:12,15:12:428:15:540:-40.8087,0,-30.731 1/1:244:0,244:0:0:244:8772:-789.463,-73.4513,0 1/1:175:2,173:2:72:173:6212:-552.337,-45.8435,0 1/1:341:2,339:2:68:339:12133:-1085.35,-96.1935,0 1/1:114:0,114:0:0:114:4069:-366.396,-34.3174,0 1/1:184:0,184:0:0:184:6609:-594.885,-55.3895,0 0/1:106:63,43:63:2264:43:1544:-107.344,0,-172.113 0/1:119:42,77:42:1489:77:2768:-213.538,0,-98.48 1/1:188:6,182:6:216:182:6529:-567.899,-36.8031,0 1/1:68:0,68:0:0:68:2425:-218.504,-20.47,0 chr04 23617143 . C T 7524.48 PASS AB=0.494481;ABP=3.24998;AC=7;AF=0.166667;AN=42;AO=465;CIGAR=1X;DP=3337;DPB=3337;DPRA=1.12894;EPP=1012.74;EPPR=6232.96;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.972;MQMR=59.9965;NS=21;NUMALT=1;ODDS=30.9151;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16674;QR=102503;RO=2869;RPL=465;RPP=1012.74;RPPR=6232.96;RPR=0;RUN=1;SAF=0;SAP=1012.74;SAR=465;SRF=0;SRP=6232.96;SRR=2869;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:231:117,114:117:4161:114:4096:-299.258,0,-305.136 0/1:98:35,63:35:1248:63:2264:-174.521,0,-83.1239 0/1:153:77,76:77:2752:76:2716:-198.626,0,-201.865 0/0:270:270,0:270:9630:0:0:0,-81.2781,-866.654 0/0:278:275,3:275:9801:3:100:0,-74.3565,-872.697 0/0:132:128,4:128:4572:4:144:0,-26.4223,-398.333 0/0:182:180,0:180:6425:0:0:0,-54.1854,-577.978 0/1:172:97,75:97:3473:75:2689:-190.477,0,-261.003 0/0:274:274,0:274:9809:0:0:0,-82.4822,-882.753 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:28:13,15:13:468:15:540:-40.5077,0,-34.0308 0/0:234:234,0:234:8381:0:0:0,-70.441,-754.293 0/0:173:170,2:170:6068:2:72:0,-45.3003,-539.388 0/0:333:331,2:331:11833:2:72:0,-93.4063,-1057.99 0/0:113:113,0:113:4029:0:0:0,-34.0164,-362.798 0/0:177:177,0:177:6336:0:0:0,-53.2823,-570.331 0/1:105:42,63:42:1504:63:2268:-172.774,0,-104.046 0/1:119:77,42:77:2768:42:1512:-100.552,0,-213.538 0/0:183:177,6:177:6314:6:201:0,-36.6714,-549.934 0/0:67:67,0:67:2395:0:0:0,-20.169,-215.806 chr04 23618444 . ACTTC TGTTT,AGTTC 62324.4 PASS AB=0.454203,0.540778;ABP=17.5295,14.5216;AC=35,7;AF=0.833333,0.166667;AN=42;AO=2445,442;CIGAR=2X2M1X,1M1X3M;DP=2904;DPB=2904;DPRA=0,1.21814;EPP=5303.58,962.801;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.28571,2.9;MQM=54.5157,59.9615;MQMR=0;NS=21;NUMALT=2;ODDS=18.815;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=85676,15786;QR=0;RO=0;RPL=2444,442;RPP=5303.58,962.801;RPPR=0;RPR=1,0;RUN=1,1;SAF=2445,442;SAP=5312.26,962.801;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:209:0,91,117:0:0:91,117:3176,4158:-596.739,-338.921,-311.527,-257.908,0,-222.688 1/2:148:0,64,84:0:0:64,84:2271,2997:-428.239,-244.662,-225.396,-183.931,0,-158.645 1/2:114:0,47,67:0:0:47,67:1630,2404:-328.828,-196.447,-182.299,-132.732,0,-112.563 1/1:152:0,151,0:0:0:151,0:5263,0:-472.122,-45.4555,0,-472.122,-45.4555,-472.122 1/1:313:0,304,8:0:0:304,8:10667,288:-957.556,-91.5131,0,-934.057,-67.9073,-931.649 1/1:172:0,171,0:0:0:171,0:5975,0:-535.712,-51.4761,0,-535.712,-51.4761,-535.712 1/1:213:0,212,0:0:0:212,0:7469,0:-669.129,-63.8184,0,-669.129,-63.8184,-669.129 1/2:159:0,71,86:0:0:71,86:2519,3084:-456.214,-251.583,-230.21,-204.67,0,-178.781 1/1:249:0,245,1:0:0:245,1:8573,36:-770.52,-73.7524,0,-767.583,-70.7894,-767.282 1/1:5:0,5,0:0:0:5,0:180,0:-16.5286,-1.50515,0,-16.5286,-1.50515,-16.5286 1/1:4:0,4,0:0:0:4,0:144,0:-13.2801,-1.20412,0,-13.2801,-1.20412,-13.2801 1/2:30:0,14,16:0:0:14,16:502,576:-88.1554,-47.3585,-43.1441,-41.1554,0,-36.3389 1/1:174:0,172,0:0:0:172,0:6021,0:-540.859,-51.7772,0,-540.859,-51.7772,-540.859 1/1:117:0,116,0:0:0:116,0:4055,0:-364.233,-34.9195,0,-364.233,-34.9195,-364.233 1/1:270:0,270,0:0:0:270,0:9442,0:-848.512,-81.2781,0,-848.512,-81.2781,-848.512 1/1:118:0,117,0:0:0:117,0:4146,0:-372.591,-35.2205,0,-372.591,-35.2205,-372.591 1/1:113:0,113,0:0:0:113,0:3954,0:-355.745,-34.0164,0,-355.745,-34.0164,-355.745 1/2:63:0,25,37:0:0:25,37:877,1324:-178.879,-108.071,-100.545,-70.9049,0,-59.7667 1/2:74:0,50,24:0:0:50,24:1765,847:-212.931,-69.324,-54.2725,-143.96,0,-136.735 1/1:167:0,164,2:0:0:164,2:5702,72:-511.148,-49.3689,0,-505.273,-43.4845,-504.671 1/1:40:0,39,0:0:0:39,0:1345,0:-120.532,-11.7402,0,-120.532,-11.7402,-120.532 chr04 23784090 . G A 1125.18 PASS AB=0.40099;ABP=20.2101;AC=7;AF=0.166667;AN=42;AO=82;CIGAR=1X;DP=723;DPB=723;DPRA=0.832897;EPP=181.071;EPPR=1394.92;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.78099;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2943;QR=22915;RO=641;RPL=0;RPP=181.071;RPPR=1394.92;RPR=82;RUN=1;SAF=82;SAP=181.071;SAR=0;SRF=641;SRP=1394.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:17:10,7:10:356:7:252:-17.9114,0,-27.2637 0/1:31:20,11:20:720:11:396:-26.6508,0,-55.7968 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.864 0/0:43:42,1:42:1512:1:36:0,-9.34601,-132.776 0/0:20:20,0:20:711:0:0:0,-6.0206,-64.3156 0/0:44:44,0:44:1568:0:0:0,-13.2453,-141.412 0/1:31:10,21:10:360:21:756:-59.0353,0,-23.4124 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.847 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:22:12,10:12:428:10:360:-26.1216,0,-32.2361 0/0:59:59,0:59:2108:0:0:0,-17.7608,-189.989 0/0:60:60,0:60:2139:0:0:0,-18.0618,-192.777 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:21:21,0:21:743:0:0:0,-6.32163,-67.1933 0/1:47:30,17:30:1080:17:603:-40.4511,0,-83.3648 0/1:46:34,12:34:1212:12:432:-25.3738,0,-95.5389 0/0:94:94,0:94:3372:0:0:0,-28.2968,-303.695 0/0:30:30,0:30:1059:0:0:0,-9.0309,-95.6204 chr04 23792894 . AG AC,TC 41888.1 PASS AB=0.549046,0.446866;ABP=18.3467,21.0093;AC=35,7;AF=0.833333,0.166667;AN=42;AO=1770,333;CIGAR=1M1X,2X;DP=2111;DPB=2111;DPRA=0,1.22798;EPP=3846.52,726.111;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.90476,2.45455;MQM=40.4209,39.1742;MQMR=0;NS=21;NUMALT=2;ODDS=16.4679;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62520,10847;QR=0;RO=0;RPL=0,0;RPP=3846.52,726.111;RPPR=0;RPR=1770,333;RUN=1,1;SAF=0,0;SAP=3846.52,726.111;SAR=1770,333;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:107:0,69,38:0:0:69,38:2436,1215:-285.508,-94.7957,-74.0247,-191.033,0,-179.594 1/2:63:0,30,33:0:0:30,33:1052,1106:-163.061,-84.3499,-75.319,-79.0318,0,-69.0979 1/2:118:0,67,50:0:0:67,50:2382,1647:-313.95,-127.417,-107.248,-186.639,0,-171.587 1/1:134:0,133,0:0:0:133,0:4723,0:-410.265,-40.037,0,-410.265,-40.037,-410.265 1/1:193:0,193,0:0:0:193,0:6755,0:-586.286,-58.0988,0,-586.286,-58.0988,-586.286 1/1:114:0,112,2:0:0:112,2:3934,72:-330.783,-33.7154,0,-326.034,-28.6684,-325.432 1/1:96:0,95,0:0:0:95,0:3355,0:-282.939,-28.5979,0,-282.939,-28.5979,-282.939 1/2:207:0,99,106:0:0:99,106:3489,3344:-528.013,-258.922,-229.12,-269.122,0,-237.213 1/1:158:0,157,1:0:0:157,1:5584,36:-491.589,-47.2617,0,-488.707,-44.0266,-488.406 1/1:18:0,18,0:0:0:18,0:638,0:-54.1922,-5.41854,0,-54.1922,-5.41854,-54.1922 1/1:9:0,9,0:0:0:9,0:320,0:-27.4381,-2.70927,0,-27.4381,-2.70927,-27.4381 1/2:53:0,32,21:0:0:32,21:1139,711:-143.847,-55.8232,-46.1903,-88.3553,0,-82.0336 1/1:156:0,156,0:0:0:156,0:5530,0:-478.588,-46.9607,0,-478.588,-46.9607,-478.588 1/1:153:0,152,0:0:0:152,0:5368,0:-466.056,-45.7566,0,-466.056,-45.7566,-466.056 1/1:117:0,115,1:0:0:115,1:4061,25:-351.957,-34.6185,0,-350.017,-32.7277,-349.716 1/1:24:0,24,0:0:0:24,0:860,0:-75.5699,-7.22472,0,-75.5699,-7.22472,-75.5699 1/1:59:0,59,0:0:0:59,0:2105,0:-186.013,-17.7608,0,-186.013,-17.7608,-186.013 1/2:121:0,60,61:0:0:60,61:2100,2058:-319.294,-156.838,-138.777,-162.782,0,-144.419 1/2:65:0,46,19:0:0:46,19:1614,608:-171.996,-45.9975,-32.1501,-126.31,0,-120.59 1/1:90:0,88,1:0:0:88,1:3133,25:-266.257,-26.4906,0,-264.468,-24.7566,-264.167 1/1:56:0,56,0:0:0:56,0:1942,0:-164.389,-16.8577,0,-164.389,-16.8577,-164.389 chr04 23792918 . G A 36440.1 PASS AB=0.555708;ABP=22.6073;AC=35;AF=0.833333;AN=42;AO=1794;CIGAR=1X;DP=2121;DPB=2121;DPRA=0;EPP=3898.63;EPPR=695.816;GTI=0;LEN=1;MEANALT=1;MQM=40.2815;MQMR=39.3578;NS=21;NUMALT=1;ODDS=17.8312;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64013;QR=11572;RO=327;RPL=1794;RPP=3898.63;RPPR=695.816;RPR=0;RUN=1;SAF=0;SAP=3898.63;SAR=1794;SRF=0;SRP=713.082;SRR=327;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:37,69:37:1324:69:2472:-181.648,0,-82.4909 0/1:63:32,31:32:1131:31:1095:-72.1859,0,-76.0991 0/1:116:50,66:50:1776:66:2347:-169.935,0,-115.799 1/1:135:0,135:0:0:135:4820:-417.082,-40.6391,0 1/1:190:0,190:0:0:190:6778:-585.925,-57.1957,0 1/1:113:1,112:1:27:112:4016:-331.728,-31.3495,0 1/1:97:0,97:0:0:97:3443:-290.297,-29.1999,0 0/1:204:104,100:104:3669:100:3556:-243.333,0,-254.216 1/1:161:2,159:2:68:159:5649:-490.44,-42.0675,0 1/1:19:0,19:0:0:19:684:-57.6422,-5.71957,0 1/1:9:0,9:0:0:9:324:-27.6976,-2.70927,0 0/1:53:20,33:20:711:33:1188:-85.5516,0,-45.8697 1/1:161:0,161:0:0:161:5752:-496.35,-48.4658,0 1/1:156:0,156:0:0:156:5562:-481.725,-46.9607,0 1/1:122:1,121:1:36:121:4332:-370.169,-33.223,0 1/1:23:0,23:0:0:23:811:-72.1315,-6.92369,0 1/1:59:0,59:0:0:59:2108:-184.471,-17.7608,0 0/1:117:60,57:60:2122:57:2036:-139.524,0,-143.577 0/1:68:20,48:20:708:48:1716:-127.717,0,-39.4316 1/1:90:0,90:0:0:90:3213:-273.021,-27.0927,0 1/1:59:0,59:0:0:59:2111:-176.801,-17.7608,0 chr04 23841989 . C G 5369.72 PASS AB=0.448928;ABP=20.9763;AC=7;AF=0.166667;AN=42;AO=368;CIGAR=1X;DP=3540;DPB=3540;DPRA=0.987565;EPP=802.112;EPPR=6884.41;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9899;NS=21;NUMALT=1;ODDS=41.2231;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13054;QR=111753;RO=3169;RPL=368;RPP=802.112;RPPR=6884.41;RPR=0;RUN=1;SAF=368;SAP=802.112;SAR=0;SRF=3169;SRP=6884.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:35,33:35:1228:33:1180:-86.038,0,-90.351 0/1:116:57,59:57:2018:59:2103:-154.619,0,-146.972 0/1:98:56,42:56:1961:42:1483:-104.263,0,-147.263 0/0:311:310,1:310:10995:1:36:0,-90.022,-985.427 0/0:332:325,7:325:11385:7:248:0,-77.2778,-1001.88 0/0:132:132,0:132:4627:0:0:0,-39.736,-416.598 0/0:236:236,0:236:8325:0:0:0,-71.0431,-749.268 0/1:219:113,106:113:3982:106:3729:-269.887,0,-292.647 0/0:281:278,2:278:9840:2:72:0,-77.8115,-878.714 0/0:28:27,0:27:968:0:0:0,-8.12781,-87.0776 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/1:50:30,20:30:1068:20:707:-48.9031,0,-81.3806 0/0:460:459,0:459:16198:0:0:0,-138.173,-1457.16 0/0:190:190,0:190:6697:0:0:0,-57.1957,-602.813 0/0:214:214,0:214:7517:0:0:0,-64.4204,-676.582 0/0:111:111,0:111:3929:0:0:0,-33.4143,-353.805 0/0:180:179,1:179:6337:1:36:0,-50.5871,-566.825 0/1:156:95,61:95:3363:61:2164:-148.067,0,-255.925 0/1:86:51,35:51:1773:35:1260:-87.8169,0,-133.962 0/0:115:114,1:114:4013:1:36:0,-31.0202,-357.763 0/0:133:133,0:133:4669:0:0:0,-40.037,-420.377 chr04 23853363 . A T 23524.4 PASS AB=0.533156;ABP=6.61022;AC=35;AF=0.833333;AN=42;AO=930;CIGAR=1X;DP=1107;DPB=1107;DPRA=0;EPP=1020.1;EPPR=385.189;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.6118;MQMR=59.4602;NS=21;NUMALT=1;ODDS=3.77299;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33180;QR=6277;RO=176;RPL=930;RPP=2022.48;RPPR=385.189;RPR=0;RUN=1;SAF=135;SAP=1020.1;SAR=795;SRF=0;SRP=385.189;SRR=176;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:30,29:30:1067:29:1044:-76.4407,0,-78.5795 0/1:26:12,14:12:428:14:504:-37.8713,0,-31.0143 0/1:22:12,10:12:424:10:356:-25.7539,0,-31.8738 1/1:34:0,34:0:0:34:1216:-109.727,-10.235,0 1/1:73:0,73:0:0:73:2611:-235.214,-21.9752,0 1/1:39:0,39:0:0:39:1396:-125.911,-11.7402,0 1/1:59:0,59:0:0:59:2105:-189.697,-17.7608,0 0/1:66:37,29:37:1328:29:1029:-73.0345,0,-99.9354 1/1:139:0,139:0:0:139:4972:-447.625,-41.8432,0 1/1:9:0,9:0:0:9:320:-29.1246,-2.70927,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.41989 1/1:56:0,56:0:0:56:1993:-178.705,-16.8577,0 1/1:38:0,38:0:0:38:1326:-119.633,-11.4391,0 1/1:77:1,76:1:36:76:2709:-240.43,-19.581,0 1/1:73:0,73:0:0:73:2600:-234.241,-21.9752,0 1/1:45:0,45:0:0:45:1597:-144.018,-13.5464,0 0/1:126:62,64:62:2223:64:2300:-169.25,0,-162.325 0/1:70:20,49:20:699:49:1745:-136.157,0,-42.0974 1/1:33:0,33:0:0:33:1188:-107.228,-9.93399,0 1/1:50:0,50:0:0:50:1773:-159.79,-15.0515,0 chr04 23853367 . C T 2939.34 PASS AB=0.485333;ABP=3.71096;AC=7;AF=0.166667;AN=42;AO=183;CIGAR=1X;DP=958;DPB=958;DPRA=1.43345;EPP=400.39;EPPR=1685.9;GTI=0;LEN=1;MEANALT=1;MQM=59.2404;MQMR=59.591;NS=21;NUMALT=1;ODDS=4.34825;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6525;QR=27594;RO=775;RPL=183;RPP=400.39;RPPR=1685.9;RPR=0;RUN=1;SAF=0;SAP=400.39;SAR=183;SRF=0;SRP=1685.9;SRR=775;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:28,30:28:982:30:1072:-79.3318,0,-71.2134 0/1:26:13,13:13:464:13:468:-34.5084,0,-34.2707 0/1:20:8,12:8:284:12:428:-32.8382,0,-19.8781 0/0:32:32,0:32:1135:0:0:0,-9.63296,-102.445 0/0:71:71,0:71:2508:0:0:0,-21.3731,-225.94 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.911 0/0:56:56,0:56:1996:0:0:0,-16.8577,-179.893 0/1:70:31,39:31:1103:39:1385:-103.866,0,-78.4961 0/0:73:73,0:73:2596:0:0:0,-21.9752,-233.885 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.4881 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:8:6,2:6:208:2:72:-4.41989,0,-16.6508 0/0:55:55,0:55:1964:0:0:0,-16.5566,-176.403 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.221 0/0:74:73,1:73:2608:1:36:0,-18.6779,-231.346 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:18:18,0:18:629:0:0:0,-5.41854,-56.9338 0/1:127:62,65:62:2197:65:2319:-170.662,0,-159.684 0/1:66:45,21:45:1612:21:745:-47.4645,0,-125.497 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.746 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.017 chr04 23986241 . CTTGA CTTTGA 844.267 PASS AB=0.228209;ABP=407.878;AC=7;AF=0.166667;AN=42;AO=150;CIGAR=1M1I4M;DP=3231;DPB=3260.6;DPRA=0.89735;EPP=328.731;EPPR=6667.26;GTI=3;LEN=1;MEANALT=1.36364;MQM=59.2867;MQMR=45.4187;NS=21;NUMALT=1;ODDS=14.2791;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5340;QR=108496;RO=3069;RPL=0;RPP=328.731;RPPR=6667.26;RPR=150;RUN=1;SAF=150;SAP=328.731;SAR=0;SRF=3069;SRP=6667.26;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:152:121,31:121:4282:31:1097:-53.1466,0,-335.229 0/1:121:108,13:108:3845:13:468:-6.03502,0,-300.997 0/1:107:75,31:75:2656:31:1095:-66.5552,0,-204.543 0/0:267:265,0:265:9344:0:0:0,-79.7729,-830.721 0/0:366:361,2:361:12747:2:68:0,-103.142,-1127.35 0/0:234:232,1:232:8222:1:32:0,-67.2374,-718.759 0/0:226:226,0:226:7957:0:0:0,-68.0328,-700.21 0/1:96:64,32:64:2238:32:1148:-74.731,0,-163.941 0/0:197:196,0:196:6948:0:0:0,-59.0019,-618.846 0/0:24:24,0:24:849:0:0:0,-7.22472,-73.4578 0/0:7:7,0:7:247:0:0:0,-2.10721,-22.1253 0/1:49:39,10:39:1382:10:356:-17.6252,0,-104.15 0/0:231:230,0:230:8121:0:0:0,-69.2369,-720.687 0/0:206:204,2:204:7215:2:72:0,-55.1755,-634.236 0/0:228:228,0:228:8059:0:0:0,-68.6348,-715.065 0/0:193:191,0:191:6784:0:0:0,-57.4967,-605.705 0/0:183:183,0:183:6473:0:0:0,-55.0885,-576.943 0/1:40:31,9:31:1082:9:324:-17.4647,0,-81.7454 0/1:66:48,18:48:1691:18:644:-38.4226,0,-130.293 0/0:168:167,1:167:5917:1:36:0,-46.9748,-508.596 0/0:70:69,0:69:2437:0:0:0,-20.7711,-214.399 chr04 23986247 . T G 66251.2 PASS AB=0.757009;ABP=371.349;AC=35;AF=0.833333;AN=42;AO=3061;CIGAR=1X;DP=3227;DPB=3227;DPRA=0;EPP=6649.89;EPPR=359.132;GTI=3;LEN=1;MEANALT=1.09524;MQM=45.3649;MQMR=59.2561;NS=21;NUMALT=1;ODDS=19.7599;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=109363;QR=5888;RO=164;RPL=0;RPP=6649.89;RPPR=359.132;RPR=3061;RUN=1;SAF=3061;SAP=6649.89;SAR=0;SRF=164;SRP=359.132;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:34,121:34:1224:121:4348:-339.718,0,-63.6726 0/1:123:15,108:15:536:108:3865:-301.949,0,-11.5481 0/1:107:31,76:31:1112:76:2732:-210.89,0,-68.1037 1/1:263:0,263:0:0:263:9373:-831.929,-79.1709,0 1/1:361:3,358:3:108:358:12771:-1124.57,-98.6431,0 1/1:230:1,228:1:36:228:8189:-714.081,-65.6936,0 1/1:226:0,226:0:0:226:8097:-711.446,-68.0328,0 0/1:102:37,65:37:1328:65:2332:-168.755,0,-89.1116 1/1:197:0,197:0:0:197:7048:-627.484,-59.3029,0 1/1:24:0,24:0:0:24:860:-74.3434,-7.22472,0 1/1:7:0,7:0:0:7:237:-21.2328,-2.10721,0 0/1:47:9,38:9:324:38:1368:-103.382,0,-15.3574 1/1:230:0,229:0:0:229:8187:-725.608,-68.9359,0 1/1:207:2,205:2:72:205:7247:-637.295,-55.4765,0 1/1:229:0,229:0:0:229:8149:-722.985,-68.9359,0 1/1:193:0,193:0:0:193:6909:-616.013,-58.0988,0 1/1:182:0,182:0:0:182:6486:-578.262,-54.7875,0 0/1:40:10,30:10:360:30:1076:-80.3385,0,-20.7031 0/1:68:20,48:20:716:48:1705:-131.211,0,-44.2977 1/1:167:1,166:1:36:166:5949:-510.893,-46.6737,0 1/1:69:1,68:1:36:68:2435:-209.715,-17.1728,0 chr04 23986275 . CC TT,CT 67083.3 PASS AB=0.755452,0.242991;ABP=366.898,371.349;AC=35,7;AF=0.833333,0.166667;AN=42;AO=3059,163;CIGAR=2X,1M1X;DP=3227;DPB=3227;DPRA=0,0.811452;EPP=6645.54,356.96;EPPR=0;GTI=3;LEN=2,1;MEANALT=1.80952,2.33333;MQM=45.3436,59.3436;MQMR=0;NS=21;NUMALT=2;ODDS=21.5363;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=105826,5830;QR=0;RO=0;RPL=3059,163;RPP=6645.54,356.96;RPPR=0;RPR=0,0;RUN=1,1;SAF=3059,163;SAP=6645.54,356.96;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:155:0,121,34:0:0:121,34:4165,1224:-434.128,-100.097,-63.6726,-334.386,0,-324.151 1/2:123:0,107,16:0:0:107,16:3689,576:-339.181,-47.3585,-15.1483,-292.179,0,-287.363 1/2:107:0,76,30:0:0:76,30:2626,1050:-296.278,-85.3766,-62.4983,-210.891,0,-201.86 1/1:266:0,266,0:0:0:266,0:9179,0:-816.581,-80.074,0,-816.581,-80.074,-816.581 1/1:362:0,360,2:0:0:360,2:12409,72:-1103.17,-108.371,0,-1097.3,-102.136,-1096.7 1/1:232:0,230,1:0:0:230,1:8017,36:-703.914,-69.2369,0,-700.977,-66.2445,-700.676 1/1:224:0,224,0:0:0:224,0:7735,0:-681.944,-67.4307,0,-681.944,-67.4307,-681.944 1/2:101:0,65,36:0:0:65,36:2260,1296:-280.149,-106.093,-86.5262,-174.405,0,-163.568 1/1:197:0,197,0:0:0:197,0:6885,0:-613.415,-59.3029,0,-613.415,-59.3029,-613.415 1/1:24:0,24,0:0:0:24,0:821,0:-71.2654,-7.22472,0,-71.2654,-7.22472,-71.2654 1/1:7:0,7,0:0:0:7,0:234,0:-21.0278,-2.10721,0,-21.0278,-2.10721,-21.0278 1/2:49:0,39,10:0:0:39,10:1331,356:-132.026,-29.3654,-17.6252,-103.01,0,-99.9996 1/1:231:0,230,0:0:0:230,0:7899,0:-701.256,-69.2369,0,-701.256,-69.2369,-701.256 1/1:205:0,201,2:0:0:201,2:6972,72:-619.89,-60.507,0,-614.015,-54.5672,-613.413 1/1:228:0,228,0:0:0:228,0:7888,0:-700.479,-68.6348,0,-700.479,-68.6348,-700.479 1/1:192:0,192,0:0:0:192,0:6693,0:-597.565,-57.7978,0,-597.565,-57.7978,-597.565 1/1:181:0,181,0:0:0:181,0:6295,0:-562.147,-54.4864,0,-562.147,-54.4864,-562.147 1/2:41:0,31,10:0:0:31,10:1040,356:-110.14,-29.3709,-20.039,-81.1167,0,-78.1064 1/2:66:0,46,20:0:0:46,20:1578,720:-185.972,-59.1082,-45.2608,-127.217,0,-121.197 1/1:166:0,165,1:0:0:165,1:5694,36:-493.427,-49.67,0,-490.49,-46.3727,-490.189 1/1:70:0,69,1:0:0:69,1:2416,36:-211.798,-20.7711,0,-208.86,-17.4738,-208.559 chr04 24056320 . C T 2745.19 PASS AB=0.558719;ABP=11.4257;AC=7;AF=0.166667;AN=42;AO=162;CIGAR=1X;DP=1066;DPB=1066;DPRA=0.971731;EPP=337.632;EPPR=1937.88;GTI=0;LEN=1;MEANALT=1.1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=14.1695;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5792;QR=32329;RO=903;RPL=160;RPP=337.632;RPPR=1937.88;RPR=2;RUN=1;SAF=0;SAP=354.789;SAR=162;SRF=0;SRP=1963.85;SRR=903;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:13,39:13:464:39:1392:-109.925,0,-26.4439 0/1:30:16,14:16:572:14:504:-36.6672,0,-42.7825 0/1:62:24,38:24:864:38:1364:-104.397,0,-59.4187 0/0:90:90,0:90:3228:0:0:0,-27.0927,-290.742 0/0:71:68,3:68:2421:3:108:0,-11.298,-208.069 0/0:63:62,1:62:2228:1:36:0,-15.3666,-197.186 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 0/1:59:31,27:31:1112:27:956:-68.5364,0,-82.5718 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:23:6,17:6:216:17:608:-48.1283,0,-12.8668 0/0:155:155,0:155:5547:0:0:0,-46.6596,-499.354 0/0:67:67,0:67:2391:0:0:0,-20.169,-215.447 0/0:54:54,0:54:1923:0:0:0,-16.2556,-173.346 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:27:13,14:13:459:14:504:-37.5703,0,-33.5163 0/1:28:20,8:20:716:8:284:-17.4745,0,-56.3389 0/0:85:84,1:84:3004:1:36:0,-21.9893,-266.993 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 chr04 24614885 . A T 1704.44 PASS AB=0.433824;ABP=13.3567;AC=7;AF=0.166667;AN=42;AO=121;CIGAR=1X;DP=1127;DPB=1127;DPRA=0.649077;EPP=265.758;EPPR=2187.51;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9215;NS=21;NUMALT=1;ODDS=1.99526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4298;QR=35631;RO=1006;RPL=0;RPP=265.758;RPPR=2187.51;RPR=121;RUN=1;SAF=121;SAP=265.758;SAR=0;SRF=1006;SRP=2187.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:44,38:44:1546:38:1364:-98.3763,0,-114.698 0/1:67:37,30:37:1328:30:1053:-74.9096,0,-99.6532 0/1:42:32,10:32:1140:10:360:-20.101,0,-90.2659 0/0:45:45,0:45:1597:0:0:0,-13.5463,-144.018 0/0:69:69,0:69:2415:0:0:0,-20.7711,-217.603 0/0:95:95,0:95:3381:0:0:0,-28.5978,-304.505 0/0:78:78,0:78:2789:0:0:0,-23.4803,-251.249 0/1:32:14,18:14:489:18:644:-48.6576,0,-34.7059 0/0:108:108,0:108:3838:0:0:0,-32.5112,-345.614 0/0:30:29,1:29:1010:1:36:0,-5.43262,-87.1753 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:25:14,11:14:485:11:377:-26.7322,0,-36.4512 0/0:67:65,2:65:2316:2:72:0,-13.3323,-201.828 0/0:54:54,0:54:1857:0:0:0,-16.2556,-167.4 0/0:144:144,0:144:5091:0:0:0,-43.3483,-458.31 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/0:62:62,0:62:2208:0:0:0,-18.6639,-198.985 0/1:14:6,8:6:216:8:284:-21.6889,0,-15.5761 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/0:52:52,0:52:1845:0:0:0,-15.6536,-166.328 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 chr04 24614927 . 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T C 20035.4 PASS AB=0.552;ABP=8.88196;AC=35;AF=0.833333;AN=42;AO=932;CIGAR=1X;DP=1050;DPB=1050;DPRA=0;EPP=2018.15;EPPR=257.073;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9646;MQMR=60;NS=21;NUMALT=1;ODDS=0.899292;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32679;QR=4180;RO=117;RPL=931;RPP=2018.15;RPPR=257.073;RPR=1;RUN=1;SAF=932;SAP=2026.82;SAR=0;SRF=117;SRP=257.073;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:37,40:37:1324:40:1388:-101.99,0,-96.2828 0/1:60:29,31:29:1036:31:1096:-80.8881,0,-75.4921 0/1:39:10,29:10:360:29:1027:-81.002,0,-21.0041 1/1:39:0,39:0:0:39:1328:-119.812,-11.7402,0 1/1:66:0,66:0:0:66:2328:-209.779,-19.868,0 1/1:87:0,87:0:0:87:3100:-279.229,-26.1896,0 1/1:75:0,75:0:0:75:2668:-240.367,-22.5773,0 0/1:31:17,14:17:604:14:491:-35.1892,0,-45.3587 1/1:104:0,104:0:0:104:3638:-327.625,-31.3071,0 1/1:29:2,26:2:72:26:890:-73.5736,-1.95195,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:22:9,13:9:320:13:447:-33.935,0,-22.5197 1/1:62:2,60:2:72:60:2101:-182.521,-11.8271,0 1/1:52:1,51:1:36:51:1751:-154.27,-12.0553,0 1/1:136:0,136:0:0:136:4754:-428.002,-40.9401,0 1/1:24:0,24:0:0:24:830:-75.0149,-7.22472,0 1/1:56:0,56:0:0:56:1967:-177.302,-16.8577,0 0/1:11:7,4:7:248:4:140:-9.63325,0,-19.3529 0/1:10:3,7:3:108:7:244:-19.2891,0,-7.06487 1/1:49:0,49:0:0:49:1739:-156.794,-14.7505,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 chr04 24699365 . AAAC CAAA,CAAC 22175 PASS AB=0.514085,0.482394;ABP=3.49965,3.7749;AC=35,7;AF=0.833333,0.166667;AN=42;AO=957,140;CIGAR=1X2M1X,1X3M;DP=1101;DPB=1101;DPRA=0,0.8125;EPP=2081.11,307.016;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.57143,2.25;MQM=42.0104,31.5214;MQMR=0;NS=21;NUMALT=2;ODDS=3.57165;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33734,4382;QR=0;RO=0;RPL=0,0;RPP=2081.11,307.016;RPPR=0;RPR=957,140;RUN=1,1;SAF=0,0;SAP=2081.11,307.016;SAR=957,140;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:24:0,12,12:0:0:12,12:416,384:-60.5205,-27.9879,-24.3755,-32.8448,0,-29.2324 1/2:32:0,11,21:0:0:11,21:394,623:-75.3617,-44.3304,-41.0191,-31.3505,0,-25.0288 1/2:73:0,36,36:0:0:36,36:1254,1145:-182.274,-82.8613,-72.0242,-99.3694,0,-88.5324 1/1:38:0,38,0:0:0:38,0:1320,0:-116.075,-11.4391,0,-116.075,-11.4391,-116.075 1/1:64:0,63,0:0:0:63,0:2189,0:-192.646,-18.9649,0,-192.646,-18.9649,-192.646 1/1:39:0,39,0:0:0:39,0:1383,0:-120.871,-11.7402,0,-120.871,-11.7402,-120.871 1/1:92:0,92,0:0:0:92,0:3265,0:-284.018,-27.6948,0,-284.018,-27.6948,-284.018 1/2:46:0,19,27:0:0:19,27:677,849:-115.208,-61.2564,-55.5369,-54.2741,0,-46.1463 1/1:76:0,76,0:0:0:76,0:2700,0:-236.611,-22.8783,0,-236.611,-22.8783,-236.611 1/1:17:0,17,0:0:0:17,0:609,0:-53.9858,-5.11751,0,-53.9858,-5.11751,-53.9858 1/1:9:0,9,0:0:0:9,0:323,0:-28.4706,-2.70927,0,-28.4706,-2.70927,-28.4706 1/2:23:0,18,5:0:0:18,5:636,160:-62.4543,-11.8307,-6.4122,-50.9256,0,-49.4204 1/1:64:0,64,0:0:0:64,0:2241,0:-197.258,-19.2659,0,-197.258,-19.2659,-197.258 1/1:83:0,79,3:0:0:79,3:2794,82:-243.693,-23.7814,0,-238.031,-18.1361,-237.128 1/1:117:0,117,0:0:0:117,0:4131,0:-362.295,-35.2205,0,-362.295,-35.2205,-362.295 1/1:27:0,27,0:0:0:27,0:957,0:-84.2761,-8.12781,0,-84.2761,-8.12781,-84.2761 1/1:28:0,27,0:0:0:27,0:969,0:-85.0325,-8.12781,0,-85.0325,-8.12781,-85.0325 1/2:53:0,31,22:0:0:31,22:1076,693:-135.064,-50.3169,-40.985,-85.0543,0,-78.4316 1/2:33:0,19,14:0:0:19,14:668,446:-83.0118,-32.4229,-26.7033,-50.8947,0,-46.6803 1/1:133:0,133,0:0:0:133,0:4673,0:-409.933,-40.037,0,-409.933,-40.037,-409.933 1/1:30:0,30,0:0:0:30,0:1059,0:-91.9781,-9.0309,0,-91.9781,-9.0309,-91.9781 chr04 24699373 . 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T G 68921.3 PASS AB=0.532575;ABP=11.923;AC=35;AF=0.833333;AN=42;AO=2580;CIGAR=1X;DP=3044;DPB=3044;DPRA=0;EPP=29.0814;EPPR=4.07013;GTI=0;LEN=1;MEANALT=1.14286;MQM=49.2081;MQMR=59.8612;NS=21;NUMALT=1;ODDS=26.296;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91710;QR=16514;RO=461;RPL=22;RPP=5415.95;RPPR=969.617;RPR=2558;RUN=1;SAF=1400;SAP=43.7464;SAR=1180;SRF=227;SRP=3.24111;SRR=234;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:92,84:92:3288:84:3002:-207.174,0,-242.517 0/1:141:72,69:72:2588:69:2460:-165.632,0,-190.723 0/1:99:49,49:49:1760:49:1743:-123.566,0,-128.823 1/1:173:1,172:1:36:172:6077:-524.263,-48.4799,0 1/1:219:3,215:3:108:215:7605:-659.876,-55.8934,0 1/1:158:1,157:1:36:157:5597:-475.686,-43.9645,0 1/1:196:0,196:0:0:196:6949:-592.78,-59.0019,0 0/1:131:47,84:47:1684:84:2980:-219.947,0,-112.412 1/1:226:2,223:2:72:223:7946:-691.756,-61.1675,0 1/1:23:0,23:0:0:23:828:-72.4488,-6.92369,0 1/1:13:0,13:0:0:13:453:-38.4713,-3.91339,0 0/1:71:38,33:38:1364:33:1161:-77.5063,0,-101.688 1/1:132:0,132:0:0:132:4666:-404.713,-39.736,0 1/1:128:1,127:1:36:127:4527:-392.629,-34.9336,0 1/1:262:1,261:1:36:261:9314:-813.887,-75.2911,0 1/1:123:0,123:0:0:123:4361:-382.266,-37.0267,0 1/1:142:0,142:0:0:142:5065:-446.465,-42.7463,0 0/1:175:89,86:89:3170:86:3053:-206.104,0,-232.844 0/1:174:64,110:64:2300:110:3915:-289.948,0,-154.877 1/1:157:1,156:1:36:156:5575:-481.799,-43.6634,0 1/1:125:0,125:0:0:125:4433:-371.035,-37.6288,0 chr04 24759020 . GACCG AACCA,GACCA 81031.9 PASS AB=0.531828,0.463039;ABP=11.5803,14.5677;AC=35,7;AF=0.833333,0.166667;AN=42;AO=2616,460;CIGAR=1X3M1X,4M1X;DP=3090;DPB=3092.8;DPRA=0,1.17005;EPP=46.9212,3.08583;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.19048,2.5;MQM=49.177,59.8543;MQMR=60;NS=21;NUMALT=2;ODDS=28.0327;PAIRED=0,0;PAIREDR=0;PAO=14,0;PQA=320,0;PQR=0;PRO=0;QA=91102,16369;QR=36;RO=1;RPL=2616,460;RPP=5683.58,1001.89;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1423,228;SAP=46.9212,3.08583;SAR=1193,232;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:180:0,86,94:0:0:86,94:3018,3318:-506.079,-270.501,-244.613,-235.923,0,-207.626 1/2:141:0,68,72:0:0:68,72:2379,2572:-389.795,-209.824,-189.354,-180.08,0,-158.406 1/2:99:0,49,50:0:0:49,50:1711,1784:-281.453,-145.789,-131.038,-136.013,0,-120.961 1/1:177:0,175,1:0:0:175,1:6093,36:-528.685,-52.6803,0,-525.747,-49.7381,-525.446 1/1:219:0,216,3:0:0:216,3:7442,108:-654.402,-65.0225,0,-645.589,-56.2102,-644.686 1/1:163:1,161,0:1:36:161,0:5602,0:-476.511,-45.5155,0,-476.812,-48.4658,-479.75 1/1:201:0,200,0:0:0:200,0:6932,0:-590.9,-60.206,0,-590.9,-60.206,-590.9 1/2:128:0,84,44:0:0:84,44:2931,1572:-357.929,-128.339,-103.052,-229.752,0,-216.507 1/1:227:0,225,2:0:0:225,2:7818,72:-687.808,-67.7318,0,-681.933,-61.8569,-681.331 1/1:22:0,21,0:0:0:21,0:727,0:-63.1869,-6.32163,0,-63.1869,-6.32163,-63.1869 1/1:14:0,14,0:0:0:14,0:484,0:-40.8287,-4.21442,0,-40.8287,-4.21442,-40.8287 1/2:73:0,33,40:0:0:33,40:1164,1424:-204.997,-116.398,-106.464,-88.9419,0,-76.9007 1/1:133:0,133,0:0:0:133,0:4654,0:-404.257,-40.037,0,-404.257,-40.037,-404.257 1/1:130:0,128,2:0:0:128,2:4461,72:-390.925,-38.5318,0,-385.052,-32.2996,-384.45 1/1:265:0,264,0:0:0:264,0:9265,0:-813.285,-79.4719,0,-813.285,-79.4719,-813.285 1/1:126:0,124,0:0:0:124,0:4334,0:-380.336,-37.3277,0,-380.336,-37.3277,-380.336 1/1:153:0,152,0:0:0:152,0:5247,0:-463.054,-45.7566,0,-463.054,-45.7566,-463.054 1/2:174:0,84,89:0:0:84,89:2963,3155:-482.908,-257.174,-231.888,-225.864,0,-199.072 1/2:179:0,114,62:0:0:114,62:3952,2220:-491.799,-181.105,-146.787,-310.753,0,-292.089 1/1:156:0,155,1:0:0:155,1:5402,36:-469.31,-46.6597,0,-466.372,-43.6618,-466.071 1/1:130:0,130,0:0:0:130,0:4523,0:-378.523,-39.1339,0,-378.523,-39.1339,-378.523 chr04 24759036 . GA AT,AA 28144.3 PASS AB=0.526423,0.471545;ABP=5.99387,6.47053;AC=35,7;AF=0.833333,0.166667;AN=42;AO=1199,234;CIGAR=2X,1X1M;DP=1435;DPB=1435;DPRA=0,1.21778;EPP=2606.61,511.135;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=1.47619,2.11111;MQM=36.6097,59.8846;MQMR=60;NS=21;NUMALT=2;ODDS=12.735;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42518,8366;QR=36;RO=1;RPL=1199,234;RPP=2606.61,511.135;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2606.61,511.135;SAR=1199,234;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:103:0,48,55:0:0:48,55:1685,1958:-287.331,-159.934,-145.485,-127.738,0,-111.181 1/2:74:0,35,39:0:0:35,39:1241,1400:-202.737,-114.559,-104.023,-88.5131,0,-76.7729 1/2:39:0,21,18:0:0:21,18:756,648:-110.924,-53.231,-46.9094,-58.0428,0,-52.6242 1/1:89:0,88,1:0:0:88,1:3095,36:-259.28,-26.4906,0,-256.342,-23.1934,-256.041 1/1:75:0,75,0:0:0:75,0:2678,0:-224.59,-22.5773,0,-224.59,-22.5773,-224.59 1/1:62:1,61,0:1:36:61,0:2190,0:-167.322,-15.0656,0,-167.623,-18.3628,-170.561 1/1:83:0,83,0:0:0:83,0:2963,0:-231.524,-24.9855,0,-231.524,-24.9855,-231.524 1/2:55:0,36,19:0:0:36,19:1273,669:-149.223,-54.8144,-43.9773,-94.751,0,-89.0314 1/1:104:0,103,1:0:0:103,1:3634,36:-310.117,-31.0061,0,-307.179,-27.7088,-306.878 1/1:10:0,10,0:0:0:10,0:341,0:-28.854,-3.0103,0,-28.854,-3.0103,-28.854 1/1:9:0,9,0:0:0:9,0:313,0:-25.4652,-2.70927,0,-25.4652,-2.70927,-25.4652 1/2:40:0,18,22:0:0:18,22:648,788:-111.142,-64.5771,-59.1586,-46.9027,0,-40.2801 1/1:78:0,78,0:0:0:78,0:2773,0:-233.299,-23.4803,0,-233.299,-23.4803,-233.299 1/1:57:0,57,0:0:0:57,0:2031,0:-171.518,-17.1587,0,-171.518,-17.1587,-171.518 1/1:109:0,109,0:0:0:109,0:3867,0:-326.901,-32.8123,0,-326.901,-32.8123,-326.901 1/1:69:0,69,0:0:0:69,0:2435,0:-209.124,-20.7711,0,-209.124,-20.7711,-209.124 1/1:70:0,70,0:0:0:70,0:2503,0:-215.446,-21.0721,0,-215.446,-21.0721,-215.446 1/2:96:0,51,45:0:0:51,45:1813,1620:-264.455,-132.544,-117.191,-132.253,0,-118.707 1/2:85:0,50,34:0:0:50,34:1757,1211:-229.38,-98.7013,-83.6498,-130.663,0,-120.428 1/1:54:0,54,0:0:0:54,0:1885,0:-153.529,-16.2556,0,-153.529,-16.2556,-153.529 1/1:74:0,74,0:0:0:74,0:2637,0:-207.802,-22.2762,0,-207.802,-22.2762,-207.802 chr04 24891870 . C T 27972.9 PASS AB=0.530997;ABP=6.10655;AC=35;AF=0.833333;AN=42;AO=1265;CIGAR=1X;DP=1441;DPB=1441;DPRA=0;EPP=2741.24;EPPR=385.189;GTI=0;LEN=1;MEANALT=1;MQM=59.4538;MQMR=59.5511;NS=21;NUMALT=1;ODDS=11.9883;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45183;QR=6294;RO=176;RPL=0;RPP=2749.92;RPPR=385.189;RPR=1265;RUN=1;SAF=1264;SAP=2741.24;SAR=1;SRF=176;SRP=385.189;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:34,22:34:1220:22:781:-53.5765,0,-93.2429 0/1:44:16,28:16:576:28:1000:-77.0455,0,-38.9133 0/1:38:11,27:11:392:27:964:-75.6239,0,-24.1809 1/1:98:0,98:0:0:98:3505:-315.547,-29.5009,0 1/1:135:1,134:1:36:134:4793:-426.866,-37.0408,0 1/1:62:0,62:0:0:62:2215:-199.523,-18.6639,0 1/1:112:0,112:0:0:112:4020:-361.841,-33.7154,0 0/1:37:19,18:19:676:18:644:-47.1418,0,-50.0253 1/1:139:1,138:1:36:138:4910:-438.237,-38.2449,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:14:6,8:6:212:8:275:-20.8432,0,-15.2104 1/1:62:0,62:0:0:62:2220:-200.064,-18.6639,0 1/1:106:0,106:0:0:106:3755:-338.076,-31.9092,0 1/1:95:0,95:0:0:95:3404:-306.506,-28.5979,0 1/1:45:0,45:0:0:45:1601:-144.379,-13.5464,0 1/1:43:0,43:0:0:43:1536:-138.507,-12.9443,0 0/1:106:66,40:66:2363:40:1440:-97.7382,0,-180.986 0/1:76:22,54:22:783:54:1936:-151.624,0,-47.9123 1/1:81:0,81:0:0:81:2889:-260.214,-24.3834,0 1/1:77:0,77:0:0:77:2755:-248.166,-23.1793,0 chr04 24891871 . G A 2713.68 PASS AB=0.467568;ABP=6.39075;AC=7;AF=0.166667;AN=42;AO=175;CIGAR=1X;DP=1457;DPB=1457;DPRA=1.07992;EPP=383.018;EPPR=2778.16;GTI=0;LEN=1;MEANALT=1;MQM=59.5657;MQMR=59.4298;NS=21;NUMALT=1;ODDS=12.2989;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6255;QR=45676;RO=1282;RPL=0;RPP=383.018;RPPR=2786.84;RPR=175;RUN=1;SAF=175;SAP=383.018;SAR=0;SRF=1281;SRP=2778.16;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:22,34:22:784:34:1220:-93.2444,0,-53.8483 0/1:44:28,16:28:1008:16:572:-38.5517,0,-77.7665 0/1:37:27,10:27:972:10:356:-21.2431,0,-76.646 0/0:98:98,0:98:3505:0:0:0,-29.5009,-315.547 0/0:139:138,1:138:4809:1:36:0,-38.2449,-428.297 0/0:62:62,0:62:2228:0:0:0,-18.6639,-200.693 0/0:114:114,0:114:4085:0:0:0,-34.3174,-367.686 0/1:37:18,19:18:644:19:679:-50.2972,0,-47.1418 0/0:143:142,1:142:5076:1:36:0,-39.449,-453.157 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.0207 0/0:64:64,0:64:2253:0:0:0,-19.2659,-203.03 0/0:108:108,0:108:3835:0:0:0,-32.5112,-345.258 0/0:95:95,0:95:3397:0:0:0,-28.5978,-305.875 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.858 0/1:106:40,66:40:1425:66:2360:-180.717,0,-96.3962 0/1:76:54,22:54:1921:22:780:-47.6424,0,-150.273 0/0:81:81,0:81:2893:0:0:0,-24.3834,-260.573 0/0:80:80,0:80:2857:0:0:0,-24.0824,-257.332 chr04 24891927 . C T 61724.6 PASS AB=0.532412;ABP=11.597;AC=35;AF=0.833333;AN=42;AO=2238;CIGAR=1X;DP=2685;DPB=2685;DPRA=0;EPP=101.128;EPPR=66.2849;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.6014;MQMR=59.583;NS=21;NUMALT=1;ODDS=12.4394;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79893;QR=15931;RO=446;RPL=2238;RPP=4862.77;RPPR=937.055;RPR=0;RUN=1;SAF=960;SAP=101.128;SAR=1278;SRF=162;SRP=75.4771;SRR=284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:101,78:101:3623:78:2791:-197.423,0,-272.372 0/1:94:49,44:49:1730:44:1572:-113.373,0,-127.607 0/1:82:33,49:33:1167:49:1764:-134.357,0,-80.6463 1/1:152:1,151:1:36:151:5420:-484.288,-42.1583,0 1/1:245:1,244:1:36:244:8688:-777.117,-70.1541,0 1/1:55:0,55:0:0:55:1950:-175.741,-16.5567,0 1/1:118:0,118:0:0:118:4197:-377.816,-35.5215,0 0/1:185:71,114:71:2544:114:4068:-310.598,0,-173.505 1/1:206:1,205:1:36:205:7304:-653.598,-58.4139,0 1/1:24:1,23:1:36:23:820:-70.5242,-3.62645,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:30:14,16:14:504:16:572:-42.7569,0,-36.6387 1/1:110:0,110:0:0:110:3913:-352.174,-33.1133,0 1/1:170:1,169:1:36:169:6015:-537.763,-47.5768,0 1/1:229:0,229:0:0:229:8183:-736.412,-68.9359,0 1/1:103:0,103:0:0:103:3699:-333.109,-31.0061,0 1/1:118:0,118:0:0:118:4223:-380.21,-35.5215,0 0/1:236:133,103:133:4747:103:3680:-260.075,0,-356.211 0/1:135:38,97:38:1364:97:3468:-271.675,0,-82.417 1/1:154:0,154:0:0:154:5495:-494.611,-46.3586,0 1/1:55:2,53:2:72:53:1891:-163.615,-9.71993,0 chr04 24891936 . TATG TATC,CATC 34397.2 PASS AB=0.536392,0.462025;ABP=10.2806,10.9266;AC=35,7;AF=0.833333,0.166667;AN=42;AO=1288,294;CIGAR=3M1X,1X2M1X;DP=1585;DPB=1585;DPRA=0,1.11833;EPP=2799.87,641.423;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.57143,2.11111;MQM=59.7415,59.449;MQMR=0;NS=21;NUMALT=2;ODDS=4.5304;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46022,10368;QR=0;RO=0;RPL=1288,294;RPP=2799.87,641.423;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2799.87,641.423;SAR=1288,294;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,60,70:0:0:60,70:2132,2464:-374.593,-200.902,-182.84,-174.045,0,-152.973 1/2:96:0,45,51:0:0:45,51:1620,1810:-279.941,-147.799,-134.253,-132.5,0,-117.147 1/2:47:0,23,23:0:0:23,23:824,796:-131.876,-64.669,-57.7453,-67.2,0,-60.2763 1/1:59:0,59,0:0:0:59,0:2104,0:-189.629,-17.7608,0,-189.629,-17.7608,-189.629 1/1:118:0,118,0:0:0:118,0:4209,0:-378.842,-35.5215,0,-378.842,-35.5215,-378.842 1/1:56:0,56,0:0:0:56,0:2012,0:-181.308,-16.8577,0,-181.308,-16.8577,-181.308 1/1:117:0,117,0:0:0:117,0:4192,0:-377.448,-35.2205,0,-377.448,-35.2205,-377.448 1/2:159:0,102,57:0:0:102,57:3648,2000:-460.558,-163.103,-132.398,-297.809,0,-280.65 1/1:67:0,67,0:0:0:67,0:2404,0:-216.616,-20.169,0,-216.616,-20.169,-216.616 1/1:17:0,16,1:0:0:16,1:576,36:-51.8152,-4.81648,0,-48.8777,-1.51924,-48.5767 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:16:0,8,8:0:0:8,8:284,283:-46.5223,-23.3812,-20.973,-23.4951,0,-21.0869 1/1:49:0,49,0:0:0:49,0:1752,0:-157.964,-14.7505,0,-157.964,-14.7505,-157.964 1/1:66:0,66,0:0:0:66,0:2345,0:-211.3,-19.868,0,-211.3,-19.868,-211.3 1/1:135:0,134,0:0:0:134,0:4780,0:-430.067,-40.338,0,-430.067,-40.338,-430.067 1/1:60:0,60,0:0:0:60,0:2160,0:-194.665,-18.0618,0,-194.665,-18.0618,-194.665 1/1:74:0,73,0:0:0:73,0:2597,0:-233.614,-21.9752,0,-233.614,-21.9752,-233.614 1/2:129:0,63,66:0:0:63,66:2251,2340:-374.397,-190.897,-171.932,-183.856,0,-163.988 1/2:55:0,38,17:0:0:38,17:1336,603:-158.226,-49.4802,-38.041,-109.1,0,-103.982 1/1:74:0,73,1:0:0:73,1:2608,36:-234.581,-21.9752,0,-231.648,-18.683,-231.347 1/1:56:0,56,0:0:0:56,0:2008,0:-180.977,-16.8577,0,-180.977,-16.8577,-180.977 chr04 25054424 . AAAATAGTA CAAACAGTA,CAAACAGTG 76935.1 PASS AB=0.557243,0.435748;ABP=27.3734,33.7052;AC=35,7;AF=0.833333,0.166667;AN=42;AO=3223,382;CIGAR=1X3M1X4M,1X3M1X3M1X;DP=3628;DPB=3628.56;DPRA=0,1.17932;EPP=7001.67,832.513;EPPR=0;GTI=1;LEN=9,9;MEANALT=2.71429,3.30769;MQM=59.9848,56.0785;MQMR=0;NS=21;NUMALT=2;ODDS=7.91672;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=2;QA=112387,12751;QR=0;RO=0;RPL=0,0;RPP=7001.67,832.513;RPPR=0;RPR=3223,382;RUN=1,1;SAF=0,0;SAP=7001.67,832.513;SAR=3223,382;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:208:0,122,82:0:0:122,82:4237,2747:-566.807,-222.354,-185.629,-344.49,0,-319.806 1/2:132:0,60,72:0:0:60,72:2096,2423:-366.928,-196.441,-178.38,-170.83,0,-149.156 1/2:153:0,77,75:0:0:77,75:2674,2484:-417.762,-200.376,-177.196,-217.366,0,-194.789 1/1:255:0,254,0:0:0:254,0:8875,0:-798.398,-76.4616,0,-798.398,-76.4616,-798.398 1/1:350:0,345,2:0:0:345,2:11972,67:-1077.06,-103.855,0,-1071.64,-98.4213,-1071.04 1/1:211:0,210,0:0:0:210,0:7325,0:-659.112,-63.2163,0,-659.112,-63.2163,-659.112 1/1:243:0,241,0:0:0:241,0:8423,0:-757.781,-72.5482,0,-757.781,-72.5482,-757.781 1/2:162:0,93,69:0:0:93,69:3197,2243:-440.828,-181.198,-153.202,-259.963,0,-239.192 1/1:394:0,390,1:0:0:390,1:13599,33:-1223.45,-117.402,0,-1220.79,-114.722,-1220.49 1/1:31:0,31,0:0:0:31,0:1076,0:-97.0888,-9.33193,0,-97.0888,-9.33193,-97.0888 1/1:12:0,12,0:0:0:12,0:426,0:-38.6776,-3.61236,0,-38.6776,-3.61236,-38.6776 1/2:26:0,16,9:0:0:16,9:545,295:-68.1297,-23.9029,-19.0864,-44.3081,0,-41.5988 1/1:221:0,218,2:0:0:218,2:7640,71:-687.34,-65.6245,0,-681.559,-59.7605,-680.957 1/1:212:0,209,1:0:0:209,1:7319,32:-658.43,-62.9153,0,-655.852,-60.3502,-655.551 1/1:246:0,245,0:0:0:245,0:8591,0:-773,-73.7524,0,-773,-73.7524,-773 1/1:160:0,160,0:0:0:160,0:5587,0:-502.961,-48.1648,0,-502.961,-48.1648,-502.961 1/1:161:0,158,1:0:0:158,1:5487,28:-493.68,-47.5627,0,-491.462,-45.3475,-491.161 1/2:101:0,56,45:0:0:56,45:1935,1554:-283.628,-126.407,-109.549,-157.566,0,-144.02 1/2:74:0,53,21:0:0:53,21:1859,708:-208.968,-57.6753,-41.7208,-151.634,0,-145.312 1/1:190:0,188,2:0:0:188,2:6588,66:-592.684,-56.5936,0,-587.348,-50.9278,-586.746 1/1:86:0,85,0:0:0:85,0:2936,0:-264.137,-25.5876,0,-264.137,-25.5876,-264.137 chr04 25054450 . A T 6667.76 PASS AB=0.461279;ABP=14.6134;AC=7;AF=0.166667;AN=42;AO=420;CIGAR=1X;DP=3645;DPB=3645;DPRA=0.946647;EPP=889.157;EPPR=6919.42;GTI=0;LEN=1;MEANALT=1;MQM=56.4452;MQMR=59.9845;NS=21;NUMALT=1;ODDS=8.12226;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15050;QR=115374;RO=3225;RPL=3;RPP=889.157;RPPR=6919.42;RPR=417;RUN=1;SAF=0;SAP=915.029;SAR=420;SRF=0;SRP=7006.01;SRR=3225;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:215:124,91:124:4444:91:3260:-228.589,0,-335.409 0/1:144:61,83:61:2171:83:2967:-223.54,0,-152.262 0/1:159:76,83:76:2717:83:2967:-218.333,0,-196.908 0/0:255:255,0:255:9135:0:0:0,-76.7626,-822.122 0/0:341:339,2:339:12138:2:72:0,-95.8194,-1085.42 0/0:211:211,0:211:7556:0:0:0,-63.5173,-680.08 0/0:241:241,0:241:8643:0:0:0,-72.5482,-777.861 0/1:169:93,76:93:3340:76:2728:-194.344,0,-249.939 0/0:384:384,0:384:13739:0:0:0,-115.596,-1236.28 0/0:31:31,0:31:1103:0:0:0,-9.33193,-99.5798 0/0:13:13,0:13:459:0:0:0,-3.91339,-41.6441 0/1:27:17,10:17:594:10:360:-24.6009,0,-45.6578 0/0:218:216,2:216:7715:2:72:0,-58.7927,-687.553 0/0:212:212,0:212:7587:0:0:0,-63.8184,-682.868 0/0:252:251,1:251:9001:1:36:0,-72.2613,-806.467 0/0:156:155,1:155:5556:1:36:0,-43.3624,-496.565 0/0:155:154,1:154:5492:1:36:0,-43.0624,-490.809 0/1:103:56,47:56:1977:47:1688:-120.649,0,-147.194 0/1:74:53,21:53:1900:21:756:-46.0178,0,-149.002 0/0:196:194,2:194:6945:2:72:0,-52.1661,-618.278 0/0:89:89,0:89:3162:0:0:0,-26.7917,-284.805 chr04 25054459 . C T 7263.08 PASS AB=0.463442;ABP=13.3303;AC=7;AF=0.166667;AN=42;AO=421;CIGAR=1X;DP=3677;DPB=3677;DPRA=0.938715;EPP=697.722;EPPR=6943.64;GTI=0;LEN=1;MEANALT=1;MQM=56.4513;MQMR=59.9791;NS=21;NUMALT=1;ODDS=13.4508;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14989;QR=116205;RO=3256;RPL=394;RPP=697.722;RPPR=6943.64;RPR=27;RUN=1;SAF=0;SAP=917.2;SAR=421;SRF=0;SRP=7073.32;SRR=3256;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:122,89:122:4338:89:3123:-217.596,0,-327.077 0/1:144:59,85:59:2105:85:3048:-230.822,0,-146.263 0/1:158:75,83:75:2672:83:2961:-218.029,0,-193.161 0/0:257:257,0:257:9168:0:0:0,-77.3647,-825.089 0/0:349:347,2:347:12433:2:72:0,-98.2277,-1111.93 0/0:212:212,0:212:7555:0:0:0,-63.8184,-679.989 0/0:242:242,0:242:8669:0:0:0,-72.8493,-780.2 0/1:171:94,77:94:3334:77:2764:-196.979,0,-248.797 0/0:399:399,0:399:14139:0:0:0,-120.111,-1272.26 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/0:13:13,0:13:453:0:0:0,-3.91339,-41.0996 0/1:28:17,11:17:597:11:369:-25.091,0,-45.6273 0/0:221:219,2:219:7838:2:72:0,-59.6958,-698.613 0/0:215:215,0:215:7680:0:0:0,-64.7214,-691.235 0/0:247:246,1:246:8824:1:36:0,-70.7561,-790.546 0/0:160:159,1:159:5682:1:32:0,-44.9655,-508.211 0/0:160:159,1:159:5662:1:36:0,-44.5675,-506.102 0/1:103:57,46:57:2037:46:1656:-117.771,0,-152.594 0/1:74:53,21:53:1908:21:748:-45.2987,0,-149.721 0/0:195:193,2:193:6871:2:72:0,-51.8651,-611.622 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.624 chr04 25062112 . T A 28553.2 PASS AB=0.618037;ABP=48.6343;AC=36;AF=0.857143;AN=42;AO=1272;CIGAR=1X;DP=1419;DPB=1419;DPRA=0;EPP=2678.95;EPPR=313.59;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=10.4667;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45428;QR=5264;RO=147;RPL=10;RPP=2678.95;RPPR=313.59;RPR=1262;RUN=1;SAF=0;SAP=2765.12;SAR=1272;SRF=0;SRP=322.217;SRR=147;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:11,47:11:396:47:1666:-132.766,0,-18.523 1/1:25:1,24:1:36:24:853:-73.4911,-3.92748,0 0/1:100:38,62:38:1364:62:2205:-168.611,0,-92.9577 1/1:81:0,81:0:0:81:2872:-258.716,-24.3834,0 1/1:140:1,139:1:36:139:4955:-442.5,-38.5459,0 1/1:76:0,76:0:0:76:2707:-243.875,-22.8783,0 1/1:94:0,94:0:0:94:3368:-303.336,-28.2968,0 0/1:56:23,33:23:824:33:1179:-89.5595,0,-57.6256 1/1:100:0,100:0:0:100:3577:-322.136,-30.103,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:27:16,11:16:576:11:392:-27.4922,0,-44.0472 1/1:59:0,59:0:0:59:2120:-191.068,-17.7608,0 1/1:79:0,79:0:0:79:2815:-253.59,-23.7814,0 1/1:122:0,122:0:0:122:4371:-393.563,-36.7257,0 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 1/1:46:0,46:0:0:46:1633:-147.258,-13.8474,0 0/1:61:33,28:33:1176:28:1008:-72.6735,0,-87.7849 0/1:75:23,52:23:820:52:1851:-144.291,0,-51.5453 1/1:94:0,94:0:0:94:3369:-303.425,-28.2968,0 1/1:49:1,48:1:36:48:1719:-151.397,-11.1522,0 chr04 25062130 . G A 28361.6 PASS AB=0.639344;ABP=64.7371;AC=36;AF=0.857143;AN=42;AO=1278;CIGAR=1X;DP=1411;DPB=1411;DPRA=0;EPP=2778.15;EPPR=289.645;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9977;MQMR=60;NS=21;NUMALT=1;ODDS=7.92529;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45718;QR=4629;RO=132;RPL=1278;RPP=2778.15;RPPR=289.645;RPR=0;RUN=1;SAF=0;SAP=2778.15;SAR=1278;SRF=0;SRP=289.645;SRR=132;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:11,46:11:388:46:1643:-130.999,0,-18.0987 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 0/1:98:38,60:38:1348:60:2136:-163.007,0,-92.1193 1/1:78:0,78:0:0:78:2800:-252.24,-23.4803,0 1/1:140:0,140:0:0:140:5007:-450.777,-42.1442,0 1/1:78:0,78:0:0:78:2788:-251.161,-23.4803,0 1/1:96:0,95:0:0:95:3395:-305.553,-28.5979,0 0/1:53:20,33:20:711:33:1180:-90.5535,0,-48.3611 1/1:101:0,101:0:0:101:3624:-326.365,-30.404,0 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:25:14,11:14:492:11:392:-28.0943,0,-37.0866 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 1/1:82:0,82:0:0:82:2936:-264.474,-24.6845,0 1/1:122:0,122:0:0:122:4359:-392.485,-36.7257,0 1/1:43:0,43:0:0:43:1540:-138.893,-12.9443,0 1/1:47:0,47:0:0:47:1667:-150.317,-14.1484,0 0/1:60:30,30:30:1035:30:1076:-79.0895,0,-75.3962 0/1:73:19,54:19:655:54:1927:-151.732,0,-37.2959 1/1:94:0,94:0:0:94:3372:-303.695,-28.2968,0 1/1:47:0,47:0:0:47:1688:-152.207,-14.1484,0 chr04 25120590 . G A 3180.95 PASS AB=0.454751;ABP=10.8708;AC=7;AF=0.166667;AN=42;AO=211;CIGAR=1X;DP=1534;DPB=1534;DPRA=1.25436;EPP=461.191;EPPR=2873.7;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9879;NS=21;NUMALT=1;ODDS=18.9471;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7555;QR=46775;RO=1322;RPL=0;RPP=461.191;RPPR=2856.35;RPR=211;RUN=1;SAF=0;SAP=461.191;SAR=211;SRF=2;SRP=2856.35;SRR=1320;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:30,32:30:1063:32:1144:-84.6057,0,-77.317 0/1:28:18,10:18:640:10:360:-24.3155,0,-49.5005 0/1:67:29,38:29:1024:38:1368:-103.252,0,-72.3036 0/0:147:144,3:144:5080:3:108:0,-34.1762,-447.275 0/0:139:138,1:138:4884:1:36:0,-38.2449,-436.118 0/0:58:55,3:55:1968:3:108:0,-7.38457,-167.32 0/0:101:101,0:101:3569:0:0:0,-30.404,-321.414 0/1:118:70,48:70:2492:48:1703:-118.033,0,-189.012 0/0:135:135,0:135:4754:0:0:0,-40.639,-428.02 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:16:9,7:9:320:7:252:-18.2125,0,-24.3259 0/0:82:81,1:81:2871:1:36:0,-21.0862,-255.03 0/0:92:89,2:89:3137:2:72:0,-20.8902,-275.734 0/0:84:84,0:84:2959:0:0:0,-25.2865,-266.543 0/0:50:50,0:50:1756:0:0:0,-15.0515,-158.318 0/0:36:36,0:36:1275:0:0:0,-10.8371,-115.052 0/1:106:53,53:53:1870:53:1900:-139.369,0,-136.666 0/1:45:32,13:32:1129:13:468:-28.9133,0,-88.37 0/0:99:99,0:99:3530:0:0:0,-29.802,-317.909 0/0:40:40,0:40:1423:0:0:0,-12.0412,-128.367 chr04 25489060 . 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G A 722.105 PASS AB=0.221532;ABP=328.331;AC=5;AF=0.119048;AN=42;AO=121;CIGAR=1X;DP=2598;DPB=2598;DPRA=1.73276;EPP=265.758;EPPR=5377.4;GTI=2;LEN=1;MEANALT=1;MQM=59.8926;MQMR=59.9325;NS=21;NUMALT=1;ODDS=15.7675;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4336;QR=88540;RO=2475;RPL=0;RPP=265.758;RPPR=5377.4;RPR=121;RUN=1;SAF=121;SAP=265.758;SAR=0;SRF=2475;SRP=5377.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:29,31:29:1036:31:1104:-81.6088,0,-75.4921 0/1:45:27,18:27:968:18:644:-44.7442,0,-73.891 0/0:76:76,0:76:2736:0:0:0,-22.8783,-246.482 0/0:77:77,0:77:2764:0:0:0,-23.1793,-248.997 0/0:133:133,0:133:4760:0:0:0,-40.037,-428.558 0/0:64:64,0:64:2277:0:0:0,-19.2659,-205.191 0/0:116:116,0:116:4164:0:0:0,-34.9195,-374.941 0/1:39:30,9:30:1080:9:324:-17.7657,0,-85.7731 0/0:112:112,0:112:3997:0:0:0,-33.7154,-359.886 0/0:514:512,2:512:18320:2:72:0,-147.893,-1641.48 0/0:368:366,0:366:13073:0:0:0,-110.177,-1175.82 0/0:209:197,12:197:7053:12:428:0,-24.0565,-595.97 0/0:100:100,0:100:3592:0:0:0,-30.103,-323.412 0/0:81:81,0:81:2908:0:0:0,-24.3834,-261.955 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.772 0/0:75:75,0:75:2692:0:0:0,-22.5772,-242.388 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.183 0/1:294:260,34:260:9255:34:1224:-21.9358,0,-744.416 0/1:45:30,15:30:1072:15:540:-35.3902,0,-83.2461 0/0:49:49,0:49:1737:0:0:0,-14.7505,-156.613 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 chr04 25578561 . G A 30518.4 PASS AB=0.469043;ABP=7.44695;AC=36;AF=0.857143;AN=42;AO=1463;CIGAR=1X;DP=1758;DPB=1758;DPRA=0;EPP=3179.87;EPPR=637.08;GTI=0;LEN=1;MEANALT=1.14286;MQM=43.4662;MQMR=53.2911;NS=21;NUMALT=1;ODDS=5.41691;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52048;QR=10375;RO=292;RPL=0;RPP=3179.87;RPPR=619.827;RPR=1463;RUN=1;SAF=0;SAP=3179.87;SAR=1463;SRF=2;SRP=619.827;SRR=290;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:24,25:24:860:25:900:-64.2327,0,-62.7728 0/1:116:70,45:70:2508:45:1603:-105.084,0,-190.393 1/1:71:0,71:0:0:71:2514:-222.933,-21.3731,0 1/1:119:1,118:1:36:118:4230:-369.618,-32.226,0 1/1:157:3,154:3:108:154:5498:-474.104,-37.1982,0 1/1:43:0,43:0:0:43:1544:-133.358,-12.9443,0 1/1:132:1,131:1:36:131:4629:-396.912,-36.1414,0 0/1:141:68,73:68:2408:73:2597:-185.539,0,-174.089 1/1:66:2,64:2:72:64:2288:-196.785,-14.4678,0 1/1:51:0,51:0:0:51:1812:-158.4,-15.3525,0 1/1:7:0,7:0:0:7:252:-22.2764,-2.10721,0 0/1:41:29,12:29:1011:12:428:-25.6784,0,-78.7939 1/1:69:0,68:0:0:68:2423:-213.358,-20.47,0 1/1:122:0,121:0:0:121:4321:-379.531,-36.4246,0 1/1:113:0,113:0:0:113:4012:-354.997,-34.0164,0 1/1:68:0,68:0:0:68:2414:-213.919,-20.47,0 1/1:93:0,93:0:0:93:3302:-294.589,-27.9958,0 0/1:128:70,58:70:2480:58:2063:-141.718,0,-184.203 0/1:58:21,37:21:752:37:1300:-98.2148,0,-50.4466 1/1:45:1,44:1:32:44:1539:-132.444,-10.3532,0 1/1:69:2,67:2:72:67:2379:-198.622,-13.9429,0 chr04 25578580 . GAAC GAGT,AAAT 37728.7 PASS AB=0.464945,0.531365;ABP=8.79555,7.64171;AC=36,6;AF=0.857143,0.142857;AN=42;AO=1487,294;CIGAR=2M2X,1X2M1X;DP=1792;DPB=1792;DPRA=0,1.28933;EPP=3018.49,541.447;EPPR=0;GTI=0;LEN=2,4;MEANALT=1.95238,2.5;MQM=43.5077,53.0714;MQMR=0;NS=21;NUMALT=2;ODDS=5.16811;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51020,10309;QR=0;RO=0;RPL=1462,282;RPP=3018.49,541.447;RPPR=0;RPR=25,12;RUN=1,1;SAF=0,0;SAP=3231.99,641.423;SAR=1487,294;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,26,24:0:0:26,24:882,846:-138.853,-69.095,-61.2683,-70.1,0,-62.8753 1/2:117:0,45,72:0:0:45,72:1538,2545:-327.706,-206.867,-193.321,-121.179,0,-99.5046 1/1:72:0,72,0:0:0:72,0:2528,0:-224.305,-21.6742,0,-224.305,-21.6742,-224.305 1/1:126:0,125,1:0:0:125,1:4242,36:-375.108,-37.6288,0,-372.172,-34.3332,-371.871 1/1:159:0,156,2:0:0:156,2:5433,72:-480.2,-46.9607,0,-474.328,-41.0884,-473.726 1/1:43:0,43,0:0:0:43,0:1425,0:-123.669,-12.9443,0,-123.669,-12.9443,-123.669 1/1:135:0,133,0:0:0:133,0:4561,0:-395.813,-40.037,0,-395.813,-40.037,-395.813 1/2:142:0,71,71:0:0:71,71:2415,2473:-392.084,-201.021,-179.648,-191.403,0,-170.03 1/1:69:0,66,2:0:0:66,2:2267,58:-200.981,-19.868,0,-196.684,-15.5262,-196.082 1/1:51:0,51,0:0:0:51,0:1764,0:-154.45,-15.3525,0,-154.45,-15.3525,-154.45 1/1:7:0,7,0:0:0:7,0:250,0:-22.1305,-2.10721,0,-22.1305,-2.10721,-22.1305 1/2:42:0,12,30:0:0:12,30:415,1051:-118.755,-85.7383,-82.1259,-33.3594,0,-24.3285 1/1:70:0,70,0:0:0:70,0:2365,0:-209.215,-21.0721,0,-209.215,-21.0721,-209.215 1/1:124:0,123,0:0:0:123,0:4166,0:-367.105,-37.0267,0,-367.105,-37.0267,-367.105 1/1:116:0,115,0:0:0:115,0:3980,0:-352.716,-34.6185,0,-352.716,-34.6185,-352.716 1/1:69:0,69,0:0:0:69,0:2355,0:-208.889,-20.7711,0,-208.889,-20.7711,-208.889 1/1:93:0,93,0:0:0:93,0:3165,0:-282.409,-27.9958,0,-282.409,-27.9958,-282.409 1/2:132:0,60,70:0:0:60,70:2072,2455:-362.336,-199.106,-181.045,-163.241,0,-142.169 1/2:59:0,38,21:0:0:38,21:1264,737:-161.116,-60.2322,-48.793,-101.226,0,-94.9048 1/1:45:0,44,0:0:0:44,0:1546,0:-136.257,-13.2453,0,-136.257,-13.2453,-136.257 1/1:71:0,68,1:0:0:68,1:2387,36:-206.264,-20.47,0,-203.335,-17.5261,-203.033 chr04 25625987 . AAC AAT,CAT 33960.8 PASS AB=0.616541,0.383459;ABP=34.3905,34.3905;AC=36,6;AF=0.857143,0.142857;AN=42;AO=1412,109;CIGAR=2M1X,1X1M1X;DP=1524;DPB=1524;DPRA=0,0.849266;EPP=3069.13,239.701;EPPR=0;GTI=2;LEN=1,3;MEANALT=1.57143,2.11111;MQM=59.9483,59.8165;MQMR=0;NS=21;NUMALT=2;ODDS=8.39702;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50426,3793;QR=0;RO=0;RPL=1412,109;RPP=3069.13,239.701;RPPR=0;RPR=0,0;RUN=1,1;SAF=1412,109;SAP=3069.13,239.701;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:8:0,7,1:0:0:7,1:252,36:-23.8592,-3.29724,-1.19003,-20.9217,0,-20.6207 1/2:54:0,36,18:0:0:36,18:1292,609:-155.109,-49.709,-38.8719,-105.745,0,-100.327 1/1:79:0,79,0:0:0:79,0:2832,0:-255.114,-23.7814,0,-255.114,-23.7814,-255.114 1/1:117:0,117,0:0:0:117,0:4179,0:-376.268,-35.2205,0,-376.268,-35.2205,-376.268 1/1:188:0,184,3:0:0:184,3:6552,105:-589.437,-55.3895,0,-580.894,-46.7627,-579.991 1/1:26:0,26,0:0:0:26,0:928,0:-83.8383,-7.82678,0,-83.8383,-7.82678,-83.8383 1/1:130:0,129,0:0:0:129,0:4609,0:-414.607,-38.8329,0,-414.607,-38.8329,-414.607 1/2:34:0,26,8:0:0:26,8:932,283:-99.4214,-23.404,-15.5772,-76.3721,0,-73.9638 1/1:92:0,92,0:0:0:92,0:3300,0:-297.193,-27.6948,0,-297.193,-27.6948,-297.193 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/2:11:0,8,3:0:0:8,3:288,97:-31.6735,-8.14757,-5.73933,-23.8592,0,-22.9561 1/1:126:0,126,0:0:0:126,0:4496,0:-404.809,-37.9298,0,-404.809,-37.9298,-404.809 1/1:74:0,73,1:0:0:73,1:2623,36:-235.957,-21.9752,0,-233.02,-18.6779,-232.719 1/1:115:0,115,0:0:0:115,0:4105,0:-369.635,-34.6185,0,-369.635,-34.6185,-369.635 1/1:74:0,74,0:0:0:74,0:2627,0:-236.658,-22.2762,0,-236.658,-22.2762,-236.658 1/1:58:0,58,0:0:0:58,0:2080,0:-187.47,-17.4597,0,-187.47,-17.4597,-187.47 1/2:88:0,39,49:0:0:39,49:1404,1709:-253.9,-139.336,-127.595,-114.919,0,-100.169 1/2:71:0,48,23:0:0:48,23:1703,810:-205.051,-66.2973,-51.8479,-139.107,0,-132.183 1/1:65:0,62,3:0:0:62,3:2205,108:-198.354,-18.6639,0,-189.541,-9.49178,-188.638 1/1:89:0,88,0:0:0:88,0:3119,0:-280.573,-26.4906,0,-280.573,-26.4906,-280.573 chr04 25626071 . G A 2492.77 PASS AB=0.393593;ABP=45.9876;AC=6;AF=0.142857;AN=42;AO=173;CIGAR=1X;DP=1550;DPB=1550;DPRA=1.34412;EPP=378.675;EPPR=2990.96;GTI=0;LEN=1;MEANALT=1;MQM=54.104;MQMR=59.9731;NS=21;NUMALT=1;ODDS=17.8432;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6165;QR=48621;RO=1376;RPL=0;RPP=378.675;RPPR=2990.96;RPR=173;RUN=1;SAF=0;SAP=378.675;SAR=173;SRF=0;SRP=2990.96;SRR=1376;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:82,52:82:2895:52:1863:-127.272,0,-220.447 0/1:93:56,37:56:1959:37:1319:-90.8389,0,-148.587 0/0:47:47,0:47:1683:0:0:0,-14.1484,-151.756 0/0:68:68,0:68:2406:0:0:0,-20.47,-216.792 0/0:186:185,1:185:6533:1:36:0,-52.3959,-584.465 0/0:113:113,0:113:4002:0:0:0,-34.0164,-360.37 0/0:94:93,0:93:3285:0:0:0,-27.9958,-295.509 0/1:59:39,20:39:1383:20:713:-46.3309,0,-107.007 0/0:89:89,0:89:3154:0:0:0,-26.7917,-284.086 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:27:18,9:18:644:9:324:-21.3375,0,-50.1628 0/0:69:69,0:69:2429:0:0:0,-20.7711,-218.863 0/0:92:92,0:92:3210:0:0:0,-27.6948,-288.896 0/0:123:123,0:123:4338:0:0:0,-37.0267,-390.596 0/0:66:66,0:66:2338:0:0:0,-19.868,-210.679 0/0:52:52,0:52:1850:0:0:0,-15.6536,-166.779 0/1:71:32,39:32:1123:39:1378:-102.36,0,-79.9958 0/1:53:38,15:38:1351:15:532:-32.2146,0,-105.935 0/0:58:58,0:58:2059:0:0:0,-17.4597,-185.581 0/0:38:38,0:38:1331:0:0:0,-11.4391,-120.089 chr04 25626103 . T C 2505.75 PASS AB=0.395833;ABP=43.7254;AC=6;AF=0.142857;AN=42;AO=172;CIGAR=1X;DP=1548;DPB=1548;DPRA=1.33621;EPP=376.504;EPPR=2990.96;GTI=0;LEN=1;MEANALT=1;MQM=54.3023;MQMR=59.9629;NS=21;NUMALT=1;ODDS=17.9973;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6153;QR=49075;RO=1376;RPL=172;RPP=376.504;RPPR=2990.96;RPR=0;RUN=1;SAF=0;SAP=376.504;SAR=172;SRF=0;SRP=2990.96;SRR=1376;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:132:82,50:82:2933:50:1789:-121.347,0,-224.467 0/1:91:52,39:52:1830:39:1388:-97.604,0,-137.583 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/0:73:73,0:73:2624:0:0:0,-21.9752,-236.402 0/0:188:187,1:187:6685:1:36:0,-52.998,-597.81 0/0:113:113,0:113:4020:0:0:0,-34.0164,-361.991 0/0:95:95,0:95:3397:0:0:0,-28.5978,-305.943 0/1:58:39,19:39:1365:19:684:-44.3454,0,-105.687 0/0:90:90,0:90:3190:0:0:0,-27.0927,-287.322 0/0:12:12,0:12:413:0:0:0,-3.61236,-37.4978 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:27:18,9:18:644:9:320:-20.9768,0,-50.1628 0/0:65:65,0:65:2301:0:0:0,-19.5669,-207.35 0/0:89:89,0:89:3169:0:0:0,-26.7917,-285.434 0/0:123:123,0:123:4396:0:0:0,-37.0267,-395.814 0/0:66:66,0:66:2352:0:0:0,-19.868,-211.939 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 0/1:71:32,39:32:1148:39:1396:-103.65,0,-82.2485 0/1:53:38,15:38:1364:15:540:-32.9352,0,-107.106 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 chr04 25660431 . T C 4527.9 PASS AB=0.526515;ABP=6.23461;AC=6;AF=0.142857;AN=42;AO=285;CIGAR=1X;DP=2827;DPB=2827;DPRA=1.01688;EPP=621.88;EPPR=5522.89;GTI=0;LEN=1;MEANALT=1;MQM=59.9263;MQMR=59.9748;NS=21;NUMALT=1;ODDS=37.8162;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10083;QR=90378;RO=2542;RPL=285;RPP=621.88;RPPR=5522.89;RPR=0;RUN=1;SAF=0;SAP=621.88;SAR=285;SRF=0;SRP=5522.89;SRR=2542;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:36,36:36:1292:36:1296:-95.2636,0,-94.9096 0/1:82:39,43:39:1385:43:1521:-112.496,0,-100.262 0/0:106:106,0:106:3778:0:0:0,-31.9092,-340.217 0/0:144:144,0:144:5097:0:0:0,-43.3483,-458.871 0/0:284:282,2:282:10030:2:72:0,-78.6558,-895.792 0/0:142:141,1:141:4977:1:36:0,-39.148,-444.479 0/0:268:266,2:266:9503:2:72:0,-73.8393,-848.353 0/1:135:52,83:52:1857:83:2920:-222.391,0,-126.663 0/0:297:297,0:297:10593:0:0:0,-89.4059,-953.279 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:40:10,30:10:360:30:1076:-85.1117,0,-20.7031 0/0:123:123,0:123:4360:0:0:0,-37.0267,-392.571 0/0:136:136,0:136:4787:0:0:0,-40.9401,-430.965 0/0:298:298,0:298:10569:0:0:0,-89.7069,-951.116 0/0:145:145,0:145:5145:0:0:0,-43.6493,-463.187 0/0:103:103,0:103:3644:0:0:0,-31.0061,-328.161 0/1:114:61,53:61:2188:53:1853:-132.727,0,-162.868 0/1:85:52,33:52:1857:33:1165:-79.5675,0,-141.819 0/0:136:134,2:134:4805:2:72:0,-34.1034,-425.766 0/0:88:88,0:88:3111:0:0:0,-26.4906,-280.214 chr04 25677799 . 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T C 1913.95 PASS AB=0.378307;ABP=51.6329;AC=6;AF=0.142857;AN=42;AO=144;CIGAR=1X;DP=2136;DPB=2136;DPRA=0.628923;EPP=315.702;EPPR=4319.9;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9824;NS=21;NUMALT=1;ODDS=13.7694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5145;QR=71087;RO=1992;RPL=0;RPP=315.702;RPPR=4319.9;RPR=144;RUN=1;SAF=0;SAP=315.702;SAR=144;SRF=0;SRP=4328.58;SRR=1992;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:40,41:40:1423:41:1450:-106.412,0,-103.983 0/1:29:25,4:25:892:4:144:-4.58375,0,-71.8698 0/0:105:105,0:105:3729:0:0:0,-31.6081,-335.809 0/0:232:232,0:232:8321:0:0:0,-69.839,-748.894 0/0:133:132,1:132:4721:1:36:0,-36.4387,-421.45 0/0:113:113,0:113:3998:0:0:0,-34.0164,-360.008 0/0:219:219,0:219:7790:0:0:0,-65.9256,-701.133 0/1:123:82,41:82:2929:41:1467:-95.2986,0,-226.772 0/0:264:264,0:264:9445:0:0:0,-79.4719,-850.009 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:20:11,9:11:392:9:324:-23.4853,0,-29.5995 0/0:118:118,0:118:4232:0:0:0,-35.5215,-381.059 0/0:131:131,0:131:4625:0:0:0,-39.4349,-416.416 0/0:99:99,0:99:3529:0:0:0,-29.802,-317.819 0/0:85:85,0:85:3037:0:0:0,-25.5875,-273.559 0/0:90:90,0:90:3232:0:0:0,-27.0927,-291.101 0/1:55:33,22:33:1160:22:792:-55.049,0,-88.1473 0/1:70:44,26:44:1580:26:932:-63.1268,0,-121.419 0/0:104:104,0:104:3728:0:0:0,-31.3071,-335.591 0/0:55:55,0:55:1968:0:0:0,-16.5566,-177.395 chr04 25709408 . T G 44737.5 PASS AB=0.615385;ABP=46.6068;AC=36;AF=0.857143;AN=42;AO=1995;CIGAR=1X;DP=2144;DPB=2144;DPRA=0;EPP=4335.1;EPPR=324.388;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9674;MQMR=60;NS=21;NUMALT=1;ODDS=13.026;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71355;QR=5308;RO=148;RPL=1995;RPP=4335.1;RPPR=324.388;RPR=0;RUN=1;SAF=0;SAP=4335.1;SAR=1995;SRF=0;SRP=324.388;SRR=148;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:42,40:42:1504:40:1440:-105.213,0,-110.97 0/1:29:5,24:5:176:24:864:-69.3527,0,-7.45515 1/1:106:0,106:0:0:106:3774:-339.86,-31.9092,0 1/1:235:1,234:1:36:234:8362:-748.987,-67.1438,0 1/1:133:1,132:1:36:132:4723:-421.63,-36.4387,0 1/1:113:1,111:1:36:111:3941:-351.282,-30.4769,0 1/1:220:0,220:0:0:220:7861:-707.328,-66.2266,0 0/1:123:42,81:42:1508:81:2904:-224.516,0,-98.9879 1/1:265:0,265:0:0:265:9473:-852.527,-79.773,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:20:9,11:9:320:11:392:-29.5995,0,-23.1218 1/1:119:0,119:0:0:119:4270:-384.477,-35.8226,0 1/1:129:0,129:0:0:129:4620:-415.963,-38.8329,0 1/1:99:0,99:0:0:99:3560:-320.607,-29.802,0 1/1:86:0,86:0:0:86:3068:-276.35,-25.8886,0 1/1:92:0,92:0:0:92:3288:-296.14,-27.6948,0 0/1:52:21,31:21:756:31:1108:-84.3774,0,-52.7137 0/1:71:26,45:26:936:45:1620:-124.717,0,-63.1863 1/1:104:0,104:0:0:104:3720:-334.977,-31.3071,0 1/1:56:0,56:0:0:56:2007:-180.903,-16.8577,0 chr04 25709481 . ATCCA CTCCG,CTCCA 42426.7 PASS AB=0.592516,0.407484;ABP=38.7696,38.7696;AC=36,6;AF=0.857143,0.142857;AN=42;AO=1742,206;CIGAR=1X3M1X,1X4M;DP=1951;DPB=1951.4;DPRA=0,0.950541;EPP=3785.72,450.334;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.57143,2.22222;MQM=58.7612,60;MQMR=0;NS=21;NUMALT=2;ODDS=15.7745;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=61395,7396;QR=0;RO=0;RPL=0,0;RPP=3785.72,450.334;RPPR=0;RPR=1742,206;RUN=1,1;SAF=1742,206;SAP=3785.72,450.334;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:79:0,47,32:0:0:47,32:1655,1152:-229.079,-94.3572,-80.2088,-135.079,0,-125.446 1/2:100:0,66,34:0:0:66,34:2303,1220:-286.941,-99.8718,-80.0038,-187.425,0,-177.19 1/1:98:0,98,0:0:0:98,0:3473,0:-312.598,-29.5009,0,-312.598,-29.5009,-312.598 1/1:153:0,153,0:0:0:153,0:5401,0:-485.785,-46.0576,0,-485.785,-46.0576,-485.785 1/1:210:0,203,6:0:0:203,6:7121,216:-639.988,-61.1091,0,-622.363,-43.3936,-620.557 1/1:46:0,45,1:0:0:45,1:1572,36:-141.362,-13.5464,0,-138.424,-10.2491,-138.123 1/1:142:0,141,0:0:0:141,0:4970,0:-446.777,-42.4452,0,-446.777,-42.4452,-446.777 1/2:100:0,54,46:0:0:54,46:1925,1656:-292.271,-135.481,-119.225,-157.148,0,-143.3 1/1:173:0,173,0:0:0:173,0:6115,0:-550.042,-52.0782,0,-550.042,-52.0782,-550.042 1/1:11:0,11,0:0:0:11,0:373,0:-33.8953,-3.31133,0,-33.8953,-3.31133,-33.8953 1/1:8:0,8,0:0:0:8,0:287,0:-26.1693,-2.40824,0,-26.1693,-2.40824,-26.1693 1/2:21:0,13,8:0:0:13,8:467,288:-61.955,-23.8592,-19.9458,-38.4554,0,-36.0472 1/1:113:0,113,0:0:0:113,0:3997,0:-359.667,-34.0164,0,-359.667,-34.0164,-359.667 1/1:106:0,106,0:0:0:106,0:3678,0:-330.966,-31.9092,0,-330.966,-31.9092,-330.966 1/1:111:0,111,0:0:0:111,0:3947,0:-354.165,-33.4143,0,-354.165,-33.4143,-354.165 1/1:87:0,87,0:0:0:87,0:3066,0:-276.139,-26.1896,0,-276.139,-26.1896,-276.139 1/1:95:0,95,0:0:0:95,0:3345,0:-300.869,-28.5979,0,-300.869,-28.5979,-300.869 1/2:95:0,54,41:0:0:54,41:1925,1476:-277.622,-120.794,-104.538,-157.186,0,-144.844 1/2:86:0,51,35:0:0:51,35:1781,1244:-246.458,-101.729,-86.3761,-145.082,0,-134.546 1/1:75:0,71,3:0:0:71,3:2504,108:-225.125,-21.3731,0,-216.312,-12.5609,-215.409 1/1:42:0,42,0:0:0:42,0:1490,0:-134.357,-12.6433,0,-134.357,-12.6433,-134.357 chr04 25709534 . GAAA AAAT,AAAA 42694 PASS AB=0.588115,0.409836;ABP=35.9206,37.4691;AC=36,6;AF=0.857143,0.142857;AN=42;AO=1759,214;CIGAR=1X2M1X,1X3M;DP=1980;DPB=1980;DPRA=0,1.25947;EPP=3813.95,467.705;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.85714,2.08333;MQM=58.7197,60;MQMR=0;NS=21;NUMALT=2;ODDS=15.9598;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61595,7642;QR=0;RO=0;RPL=1755,214;RPP=3787.97,467.705;RPPR=0;RPR=4,0;RUN=1,1;SAF=1756,214;SAP=3796.62,467.705;SAR=3,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:80:0,47,33:0:0:47,33:1635,1180:-229.496,-96.5741,-82.4256,-133.275,0,-123.341 1/2:102:0,65,36:0:0:65,36:2260,1275:-287.47,-103.972,-84.4052,-183.606,0,-172.769 1/1:99:0,97,2:0:0:97,2:3408,72:-306.376,-29.1999,0,-300.501,-22.9652,-299.899 1/1:157:0,156,1:0:0:156,1:5430,36:-488.015,-46.9607,0,-485.078,-43.6634,-484.777 1/1:215:0,209,6:0:0:209,6:7298,216:-655.499,-62.9153,0,-637.874,-44.9309,-636.068 1/1:48:0,48,0:0:0:48,0:1682,0:-151.555,-14.4494,0,-151.555,-14.4494,-151.555 1/1:144:0,144,0:0:0:144,0:5033,0:-452.736,-43.3483,0,-452.736,-43.3483,-452.736 1/2:101:0,55,46:0:0:55,46:1952,1648:-293.077,-134.761,-118.205,-158.671,0,-144.824 1/1:174:0,171,0:0:0:171,0:6010,0:-539.534,-51.4761,0,-539.534,-51.4761,-539.534 1/1:11:0,11,0:0:0:11,0:372,0:-33.805,-3.31133,0,-33.805,-3.31133,-33.805 1/1:8:0,8,0:0:0:8,0:278,0:-25.3515,-2.40824,0,-25.3515,-2.40824,-25.3515 1/2:21:0,13,8:0:0:13,8:465,288:-61.7747,-23.8592,-19.9458,-38.2744,0,-35.8662 1/1:113:0,113,0:0:0:113,0:3956,0:-356.1,-34.0164,0,-356.1,-34.0164,-356.1 1/1:106:0,105,0:0:0:105,0:3657,0:-328.765,-31.6082,0,-328.765,-31.6082,-328.765 1/1:113:0,112,1:0:0:112,1:3920,36:-351.705,-33.7154,0,-348.768,-30.4181,-348.467 1/1:92:0,91,1:0:0:91,1:3179,36:-285.942,-27.3937,0,-283.005,-24.0965,-282.704 1/1:94:0,93,0:0:0:93,0:3280,0:-294.793,-27.9958,0,-294.793,-27.9958,-294.793 1/2:97:0,54,43:0:0:54,43:1915,1532:-281.174,-125.229,-108.973,-156.3,0,-143.356 1/2:87:0,53,34:0:0:53,34:1867,1215:-251.281,-99.4207,-83.4661,-152.215,0,-141.98 1/1:77:0,74,3:0:0:74,3:2589,108:-232.722,-22.2762,0,-223.909,-13.1041,-223.006 1/1:41:0,40,0:0:0:40,0:1409,0:-126.715,-12.0412,0,-126.715,-12.0412,-126.715 chr04 25728041 . TAAAGGT TAAAAGGT 1085.02 PASS AB=0.5;ABP=3.0103;AC=5;AF=0.119048;AN=42;AO=78;CIGAR=1M1I6M;DP=1057;DPB=1068.29;DPRA=0.777924;EPP=172.385;EPPR=2122.37;GTI=0;LEN=1;MEANALT=1.28571;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=12.7155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2712;QR=33081;RO=976;RPL=0;RPP=172.385;RPPR=2122.37;RPR=78;RUN=1;SAF=0;SAP=172.385;SAR=78;SRF=0;SRP=2122.37;SRR=976;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:23,8:23:785:8:288:-16.9355,0,-61.6328 0/1:12:3,9:3:108:9:305:-24.1649,0,-6.46281 0/0:57:57,0:57:1952:0:0:0,-17.1587,-175.955 0/0:39:39,0:39:1297:0:0:0,-11.7402,-117.025 0/0:163:163,0:163:5555:0:0:0,-49.0679,-500.105 0/0:63:63,0:63:2119:0:0:0,-18.9649,-190.98 0/0:98:97,0:97:3279:0:0:0,-29.1999,-294.982 0/1:28:7,21:7:236:21:731:-57.6816,0,-13.1411 0/0:131:129,1:129:4417:1:32:0,-36.1995,-394.575 0/0:14:14,0:14:472:0:0:0,-4.21442,-42.8014 0/0:4:4,0:4:133:0:0:0,-1.20412,-12.2986 0/0:13:12,1:12:407:1:36:0,-0.315115,-33.3569 0/0:72:72,0:72:2440:0:0:0,-21.6742,-219.86 0/0:54:54,0:54:1799:0:0:0,-16.2556,-162.188 0/0:41:41,0:41:1383:0:0:0,-12.3422,-124.763 0/0:59:59,0:59:2011:0:0:0,-17.7608,-181.264 0/0:33:33,0:33:1098:0:0:0,-9.93399,-99.1184 0/1:43:22,21:22:754:21:735:-53.5278,0,-55.233 0/1:38:20,17:20:655:17:585:-41.6163,0,-47.9061 0/0:35:35,0:35:1207:0:0:0,-10.536,-108.933 0/0:29:29,0:29:974:0:0:0,-8.72987,-87.9659 chr04 26067389 . A C 37739.6 PASS AB=0.5;ABP=3.0103;AC=36;AF=0.857143;AN=42;AO=1686;CIGAR=1X;DP=1866;DPB=1866;DPRA=0;EPP=3664.11;EPPR=393.875;GTI=0;LEN=1;MEANALT=1;MQM=59.9656;MQMR=59.9944;NS=21;NUMALT=1;ODDS=27.3458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60323;QR=6448;RO=180;RPL=0;RPP=3664.11;RPPR=393.875;RPR=1686;RUN=1;SAF=1686;SAP=3664.11;SAR=0;SRF=180;SRP=393.875;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:27,42:27:964:42:1508:-115.214,0,-66.3053 0/1:26:12,14:12:432:14:500:-37.5094,0,-31.3944 1/1:130:0,130:0:0:130:4668:-420.277,-39.1339,0 1/1:139:0,139:0:0:139:4992:-449.423,-41.8432,0 1/1:174:3,171:3:108:171:6120:-540.822,-42.3041,0 1/1:77:0,77:0:0:77:2752:-247.922,-23.1793,0 1/1:169:0,169:0:0:169:6044:-544.064,-50.8741,0 0/1:62:41,21:41:1476:21:756:-49.7034,0,-114.472 1/1:198:0,198:0:0:198:7084:-637.615,-59.6039,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:8:0,8:0:0:8:284:-25.902,-2.40824,0 0/1:42:27,15:27:960:15:540:-36.2887,0,-74.073 1/1:166:0,166:0:0:166:5924:-533.271,-49.971,0 1/1:144:0,144:0:0:144:5148:-463.462,-43.3483,0 1/1:91:0,91:0:0:91:3256:-293.257,-27.3937,0 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 1/1:24:0,24:0:0:24:845:-76.3671,-7.22472,0 0/1:93:53,40:53:1896:40:1428:-100.822,0,-142.922 0/1:60:16,44:16:576:44:1572:-123.71,0,-34.1132 1/1:117:0,117:0:0:117:4174:-375.84,-35.2205,0 1/1:46:1,45:1:36:45:1616:-142.132,-10.2491,0 chr04 26081133 . T G 38898.3 PASS AB=0.438753;ABP=17.6399;AC=36;AF=0.857143;AN=42;AO=1405;CIGAR=1X;DP=1661;DPB=1661;DPRA=0;EPP=211.176;EPPR=91.2603;GTI=0;LEN=1;MEANALT=1;MQM=59.8712;MQMR=59.9102;NS=21;NUMALT=1;ODDS=7.02123;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50168;QR=9175;RO=256;RPL=519;RPP=211.176;RPPR=91.2603;RPR=886;RUN=1;SAF=1405;SAP=3053.93;SAR=0;SRF=256;SRP=558.907;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:57,39:57:2044:39:1390:-96.4938,0,-155.333 0/1:117:75,42:75:2700:42:1492:-99.3518,0,-208.023 1/1:53:0,53:0:0:53:1900:-170.96,-15.9546,0 1/1:112:0,112:0:0:112:4002:-360.364,-33.7154,0 1/1:195:2,193:2:72:193:6900:-614.215,-51.8641,0 1/1:100:0,100:0:0:100:3569:-321.408,-30.103,0 1/1:90:0,90:0:0:90:3205:-288.672,-27.0927,0 0/1:63:50,13:50:1783:13:468:-23.4948,0,-141.75 1/1:91:0,91:0:0:91:3233:-291.139,-27.3937,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:20:14,6:14:504:6:216:-13.7699,0,-39.6775 1/1:88:0,88:0:0:88:3156:-284.264,-26.4906,0 1/1:40:0,40:0:0:40:1426:-128.637,-12.0412,0 1/1:96:0,96:0:0:96:3431:-309.002,-28.8989,0 1/1:96:0,96:0:0:96:3411:-307.197,-28.8989,0 1/1:69:0,69:0:0:69:2446:-219.9,-20.7711,0 0/1:76:32,44:32:1148:44:1576:-119.253,0,-80.7516 0/1:77:24,53:24:852:53:1893:-147.468,0,-53.8211 1/1:105:1,104:1:36:104:3726:-331.941,-28.0099,0 1/1:63:1,62:1:36:62:2228:-197.186,-15.3666,0 chr04 26081152 . C A,T 36924 PASS AB=0.433107,0.566893;ABP=20.1507,20.1507;AC=36,6;AF=0.857143,0.142857;AN=42;AO=1402,253;CIGAR=1X,1X;DP=1656;DPB=1656;DPRA=0,1.25518;EPP=3047.41,552.393;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.42857,2;MQM=59.8609,60;MQMR=60;NS=21;NUMALT=2;ODDS=7.24501;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50276,9046;QR=36;RO=1;RPL=1402,253;RPP=3047.41,552.393;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1402,253;SAP=3047.41,552.393;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:90:0,35,55:0:0:35,55:1256,1965:-263.018,-160.567,-150.031,-102.808,0,-86.2518 1/2:116:0,40,76:0:0:40,76:1436,2723:-339.573,-222.435,-210.394,-117.496,0,-94.6182 1/1:53:0,53,0:0:0:53,0:1899,0:-171.057,-15.9546,0,-171.057,-15.9546,-171.057 1/1:115:0,115,0:0:0:115,0:4136,0:-372.374,-34.6185,0,-372.374,-34.6185,-372.374 1/1:193:1,191,1:1:36:191,1:6860,36:-613.849,-54.5593,0,-611.212,-54.5593,-613.849 1/1:98:0,98,0:0:0:98,0:3524,0:-317.359,-29.5009,0,-317.359,-29.5009,-317.359 1/1:93:0,93,0:0:0:93,0:3337,0:-300.547,-27.9958,0,-300.547,-27.9958,-300.547 1/2:64:0,14,50:0:0:14,50:500,1792:-187.275,-146.511,-142.297,-41.1218,0,-26.0703 1/1:94:0,94,0:0:0:94,0:3370,0:-303.251,-28.2968,0,-303.251,-28.2968,-303.251 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:20:0,6,14:0:0:6,14:216,500:-58.7471,-41.1218,-39.3156,-17.9843,0,-13.7699 1/1:89:0,89,0:0:0:89,0:3193,0:-287.591,-26.7917,0,-287.591,-26.7917,-287.591 1/1:42:0,42,0:0:0:42,0:1512,0:-136.374,-12.6433,0,-136.374,-12.6433,-136.374 1/1:95:0,95,0:0:0:95,0:3397,0:-305.934,-28.5979,0,-305.934,-28.5979,-305.934 1/1:92:0,92,0:0:0:92,0:3290,0:-296.317,-27.6948,0,-296.317,-27.6948,-296.317 1/1:68:0,68,0:0:0:68,0:2438,0:-219.482,-20.47,0,-219.482,-20.47,-219.482 1/2:75:0,43,32:0:0:43,32:1540,1143:-219.137,-93.5457,-80.6014,-125.949,0,-116.316 1/2:76:0,53,23:0:0:53,23:1885,815:-220.364,-66.7471,-50.7925,-153.972,0,-147.048 1/1:104:0,103,1:0:0:103,1:3700,36:-332.841,-31.0061,0,-329.904,-27.7088,-329.603 1/1:65:0,64,1:0:0:64,1:2287,36:-205.685,-19.2659,0,-202.747,-15.9687,-202.446 chr04 26081182 . T C 35932.3 PASS AB=0.479208;ABP=4.90658;AC=36;AF=0.857143;AN=42;AO=2224;CIGAR=1X;DP=2497;DPB=2497;DPRA=0;EPP=4832.36;EPPR=593.651;GTI=0;LEN=1;MEANALT=1.04762;MQM=31.0301;MQMR=59.8971;NS=21;NUMALT=1;ODDS=29.7838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75951;QR=9660;RO=272;RPL=0;RPP=4832.36;RPPR=593.651;RPR=2224;RUN=1;SAF=0;SAP=4832.36;SAR=2224;SRF=0;SRP=593.651;SRR=272;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:66,71:66:2356:71:2430:-147.053,0,-171.058 0/1:119:65,54:65:2324:54:1827:-93.617,0,-173.591 1/1:141:0,141:0:0:141:4823:-372.56,-42.4452,0 1/1:147:0,147:0:0:147:5036:-385.535,-44.2514,0 1/1:211:4,207:4:144:207:7082:-533.272,-50.2037,0 1/1:129:1,128:1:36:128:4419:-305.518,-35.2383,0 1/1:177:1,176:1:36:176:5961:-414.004,-49.684,0 0/1:109:56,53:56:1949:53:1792:-100.71,0,-142.827 1/1:291:0,290:0:0:290:9851:-790.36,-87.2987,0 1/1:8:0,8:0:0:8:275:-20.5875,-2.40824,0 1/1:7:0,7:0:0:7:239:-16.5783,-2.10721,0 0/1:25:15,10:15:540:10:356:-18.7847,0,-41.4108 1/1:149:0,149:0:0:149:5039:-389.738,-44.8535,0 1/1:136:0,136:0:0:136:4704:-364.419,-40.9401,0 1/1:208:2,206:2:72:206:7087:-539.197,-55.7779,0 1/1:118:1,117:1:36:117:4019:-318.132,-31.9233,0 1/1:107:0,107:0:0:107:3668:-293.946,-32.2102,0 0/1:51:31,20:31:1099:20:684:-34.6848,0,-83.8669 0/1:64:30,34:30:1068:34:1144:-68.7484,0,-77.1661 1/1:118:0,118:0:0:118:4038:-298.403,-35.5215,0 1/1:45:0,45:0:0:45:1477:-107.184,-13.5464,0 chr04 26081200 . GCAGA GAAA,GCAA 41858.5 PASS AB=0.507843,0.490196;ABP=3.2828,3.43608;AC=36,6;AF=0.857143,0.142857;AN=42;AO=2372,259;CIGAR=1M1D1M1X1M,3M1D1M;DP=2637;DPB=2110;DPRA=0,1.04627;EPP=5136.39,565.422;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.80952,2.36364;MQM=30.9637,59.8494;MQMR=0;NS=21;NUMALT=2;ODDS=28.2964;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=73038,8909;QR=0;RO=0;RPL=2,0;RPP=5136.39,565.422;RPPR=0;RPR=2370,259;RUN=1,1;SAF=0,0;SAP=5153.74,565.422;SAR=2372,259;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:138:0,77,61:0:0:77,61:2415,2099:-344.265,-170.813,-147.634,-173.769,0,-155.407 1/2:122:0,58,63:0:0:58,63:1606,2170:-287.702,-176.126,-158.666,-111.59,0,-92.6252 1/1:148:0,148,0:0:0:148,0:4629,0:-377.159,-44.5524,0,-377.159,-44.5524,-377.159 1/1:159:0,158,0:0:0:158,0:4971,0:-404.956,-47.5627,0,-404.956,-47.5627,-404.956 1/1:222:0,218,4:0:0:218,4:6786,136:-552.775,-65.6245,0,-541.742,-54.2531,-540.538 1/1:142:0,140,1:0:0:140,1:3860,36:-309.868,-42.1442,0,-306.933,-39.1394,-306.632 1/1:191:0,190,1:0:0:190,1:5254,36:-420.221,-57.1957,0,-417.283,-53.8985,-416.982 1/2:109:0,55,54:0:0:55,54:1623,1861:-266.468,-151.512,-134.956,-115.261,0,-99.0051 1/1:313:0,313,0:0:0:313,0:10274,0:-842.904,-94.2224,0,-842.904,-94.2224,-842.904 1/1:8:0,8,0:0:0:8,0:233,0:-19.2313,-2.40824,0,-19.2313,-2.40824,-19.2313 1/1:7:0,7,0:0:0:7,0:189,0:-15.3569,-2.10721,0,-15.3569,-2.10721,-15.3569 1/2:23:0,10,13:0:0:10,13:300,433:-56.6303,-35.3753,-32.365,-21.5523,0,-17.6389 1/1:161:0,161,0:0:0:161,0:5006,0:-408.273,-48.4658,0,-408.273,-48.4658,-408.273 1/1:145:0,145,0:0:0:145,0:4586,0:-374.404,-43.6494,0,-374.404,-43.6494,-374.404 1/1:218:0,215,2:0:0:215,2:6733,72:-548.653,-64.7215,0,-542.777,-58.7304,-542.175 1/1:128:0,126,1:0:0:126,1:4146,32:-339.692,-37.9298,0,-337.114,-35.3464,-336.813 1/1:111:0,110,0:0:0:110,0:3622,0:-297.079,-33.1133,0,-297.079,-33.1133,-297.079 1/2:55:0,25,30:0:0:25,30:711,998:-131.194,-81.0898,-73.564,-50.395,0,-41.3641 1/2:63:0,34,29:0:0:34,29:1045,1036:-159.928,-84.824,-74.589,-75.4255,0,-66.6956 1/1:125:0,125,0:0:0:125,0:3678,0:-298.265,-37.6288,0,-298.265,-37.6288,-298.265 1/1:49:0,49,0:0:0:49,0:1371,0:-110.38,-14.7505,0,-110.38,-14.7505,-110.38 chr04 26081231 . AGTA GGTT,GGTA 44746.7 PASS AB=0.506796,0.493204;ABP=3.21691,3.21691;AC=36,6;AF=0.857143,0.142857;AN=42;AO=2384,261;CIGAR=1X2M1X,1X3M;DP=2664;DPB=2664;DPRA=0,1.01887;EPP=5179.8,569.765;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.28571,2.5;MQM=31.0348,59.8429;MQMR=0;NS=21;NUMALT=2;ODDS=35.6785;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=82154,9116;QR=0;RO=0;RPL=2384,261;RPP=5179.8,569.765;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5179.8,569.765;SAR=2384,261;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:140:0,77,63:0:0:77,63:2617,2231:-361.737,-182.09,-158.911,-179.974,0,-161.009 1/2:123:0,59,64:0:0:59,64:2011,2252:-307.604,-183.661,-165.9,-124.251,0,-104.985 1/1:148:0,148,0:0:0:148,0:5149,0:-393.662,-44.5524,0,-393.662,-44.5524,-393.662 1/1:163:0,162,0:0:0:162,0:5643,0:-428.402,-48.7669,0,-428.402,-48.7669,-428.402 1/1:223:0,218,4:0:0:218,4:7516,135:-576.39,-65.6245,0,-565.448,-54.6041,-564.244 1/1:143:0,142,0:0:0:142,0:4829,0:-340.653,-42.7463,0,-340.653,-42.7463,-340.653 1/1:194:0,192,1:0:0:192,1:6622,36:-460.446,-57.7978,0,-457.508,-54.7915,-457.207 1/2:109:0,56,53:0:0:56,53:1896,1852:-276.015,-150.96,-134.103,-125.371,0,-109.417 1/1:318:0,314,0:0:0:314,0:10967,0:-870.094,-94.5234,0,-870.094,-94.5234,-870.094 1/1:8:0,8,0:0:0:8,0:281,0:-20.873,-2.40824,0,-20.873,-2.40824,-20.873 1/1:7:0,7,0:0:0:7,0:231,0:-16.4691,-2.10721,0,-16.4691,-2.10721,-16.4691 1/2:24:0,10,14:0:0:10,14:350,492:-63.2393,-40.3979,-37.3876,-23.1555,0,-18.941 1/1:162:0,160,0:0:0:160,0:5490,0:-422.783,-48.1648,0,-422.783,-48.1648,-422.783 1/1:147:0,145,0:0:0:145,0:5001,0:-386.903,-43.6494,0,-386.903,-43.6494,-386.903 1/1:221:0,218,1:0:0:218,1:7520,32:-579.602,-65.6245,0,-577.024,-63.0243,-576.723 1/1:128:0,126,1:0:0:126,1:4330,36:-344.708,-37.9298,0,-341.77,-34.9752,-341.469 1/1:113:0,111,0:0:0:111,0:3749,0:-300.067,-33.4143,0,-300.067,-33.4143,-300.067 1/2:55:0,24,31:0:0:24,31:816,1091:-140.969,-89.1668,-81.9421,-52.1097,0,-42.7778 1/2:64:0,35,29:0:0:35,29:1192,959:-158.449,-77.8788,-67.3427,-80.8817,0,-72.1519 1/1:124:0,122,0:0:0:122,0:4234,0:-311.396,-36.7257,0,-311.396,-36.7257,-311.396 1/1:50:0,50,0:0:0:50,0:1710,0:-120.693,-15.0515,0,-120.693,-15.0515,-120.693 chr04 26143505 . G A 13078.2 PASS AB=0.408397;ABP=22.106;AC=36;AF=0.857143;AN=42;AO=608;CIGAR=1X;DP=765;DPB=765;DPRA=0;EPP=1323.27;EPPR=343.931;GTI=1;LEN=1;MEANALT=1;MQM=59.9638;MQMR=60;NS=21;NUMALT=1;ODDS=1.17149;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21680;QR=5566;RO=157;RPL=0;RPP=1323.27;RPPR=343.931;RPR=608;RUN=1;SAF=0;SAP=1323.27;SAR=608;SRF=0;SRP=343.931;SRR=157;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:18,13:18:640:13:468:-33.1277,0,-48.5974 0/1:28:13,15:13:468:15:540:-40.5077,0,-34.0308 1/1:29:0,29:0:0:29:1035:-93.4631,-8.72987,0 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 1/1:45:1,44:1:36:44:1567:-137.723,-9.94808,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 0/1:62:30,32:30:1054:32:1136:-83.8841,0,-76.5053 1/1:48:0,48:0:0:48:1705:-153.706,-14.4494,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:4:0,4:0:0:4:131:-12.1126,-1.20412,0 0/1:30:19,11:19:684:11:392:-26.5892,0,-52.8594 1/1:38:0,38:0:0:38:1355:-122.25,-11.4391,0 1/1:63:0,63:0:0:63:2249:-202.671,-18.9649,0 1/1:80:0,80:0:0:80:2852:-256.915,-24.0824,0 1/1:10:0,10:0:0:10:351:-31.9267,-3.0103,0 1/1:11:0,11:0:0:11:387:-35.165,-3.31133,0 0/1:69:46,23:46:1635:23:824:-53.7107,0,-126.667 0/1:42:29,13:29:1013:13:449:-28.0951,0,-78.8359 1/1:77:1,76:1:36:76:2723:-241.714,-19.581,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 chr04 26314690 . A G 21530 PASS AB=0.551495;ABP=9.94314;AC=36;AF=0.857143;AN=42;AO=782;CIGAR=1X;DP=922;DPB=922;DPRA=0;EPP=9.95235;EPPR=9.30442;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9719;MQMR=60;NS=21;NUMALT=1;ODDS=6.81325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27781;QR=4940;RO=138;RPL=0;RPP=1701.1;RPPR=302.673;RPR=782;RUN=1;SAF=366;SAP=9.95235;SAR=416;SRF=79;SRP=9.30442;SRR=59;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:35:18,17:18:644:17:612:-44.8774,0,-47.7545 0/1:26:13,13:13:468:13:468:-34.6329,0,-34.6329 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 1/1:37:1,36:1:36:36:1279:-111.814,-7.53984,0 1/1:58:1,57:1:36:57:1984:-175.231,-13.8615,0 1/1:41:0,41:0:0:41:1442:-130.074,-12.3422,0 1/1:50:0,49:0:0:49:1720:-154.868,-14.7505,0 0/1:37:13,24:13:468:24:856:-66.223,0,-31.3215 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:21:11,10:11:392:10:360:-26.4227,0,-29.2984 1/1:73:0,73:0:0:73:2614:-235.508,-21.9752,0 1/1:42:0,42:0:0:42:1493:-134.663,-12.6433,0 1/1:58:0,58:0:0:58:2067:-186.3,-17.4597,0 1/1:30:0,29:0:0:29:1027:-92.3825,-8.72987,0 1/1:20:0,20:0:0:20:701:-63.4087,-6.0206,0 0/1:90:45,45:45:1604:45:1608:-117.917,0,-117.557 0/1:92:35,57:35:1256:57:2048:-156.897,0,-85.6505 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 1/1:105:1,104:1:36:104:3670:-326.905,-28.0099,0 chr04 26380541 . T A 18162.1 PASS AB=0.597345;ABP=21.6119;AC=35;AF=0.833333;AN=42;AO=781;CIGAR=1X;DP=873;DPB=873;DPRA=0;EPP=1464.44;EPPR=132.26;GTI=1;LEN=1;MEANALT=1;MQM=59.9641;MQMR=59.9565;NS=21;NUMALT=1;ODDS=7.53266;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27761;QR=3217;RO=92;RPL=28;RPP=1464.44;RPPR=132.26;RPR=753;RUN=1;SAF=0;SAP=1698.93;SAR=781;SRF=0;SRP=202.786;SRR=92;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:33:16,17:16:561:17:604:-44.7566,0,-40.8808 0/1:48:22,26:22:771:26:920:-68.6676,0,-55.2609 1/1:44:0,44:0:0:44:1584:-142.852,-13.2453,0 1/1:99:1,98:1:21:98:3484:-311.672,-27.702,0 1/1:90:0,90:0:0:90:3218:-289.835,-27.0927,0 1/1:49:0,49:0:0:49:1715:-154.634,-14.7505,0 0/1:57:23,34:23:803:34:1220:-92.9481,0,-55.4297 0/1:33:11,22:11:396:22:780:-60.589,0,-26.0488 1/1:76:0,76:0:0:76:2701:-243.333,-22.8783,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 1/1:52:0,52:0:0:52:1855:-167.229,-15.6536,0 1/1:66:0,66:0:0:66:2333:-210.227,-19.868,0 1/1:40:0,40:0:0:40:1428:-128.818,-12.0412,0 1/1:26:0,26:0:0:26:906:-81.8509,-7.82678,0 1/1:24:0,24:0:0:24:841:-76.0061,-7.22472,0 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 0/1:31:11,20:11:377:20:712:-55.0747,0,-24.926 1/1:41:0,41:0:0:41:1464:-132.056,-12.3422,0 1/1:28:0,28:0:0:28:992:-89.5944,-8.42884,0 chr04 26387423 . C A 4409.33 PASS AB=0.391473;ABP=82.1933;AC=7;AF=0.166667;AN=42;AO=312;CIGAR=1X;DP=2812;DPB=2812;DPRA=1.08185;EPP=680.51;EPPR=5429.52;GTI=0;LEN=1;MEANALT=1;MQM=59.9071;MQMR=59.9552;NS=21;NUMALT=1;ODDS=8.82714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11170;QR=89349;RO=2499;RPL=312;RPP=680.51;RPPR=5429.52;RPR=0;RUN=1;SAF=0;SAP=680.51;SAR=312;SRF=0;SRP=5429.52;SRR=2499;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:56,39:56:2001:39:1402:-97.7952,0,-151.764 0/1:32:22,10:22:792:10:360:-23.1113,0,-61.9727 0/0:155:155,0:155:5564:0:0:0,-46.6596,-500.882 0/0:144:144,0:144:5153:0:0:0,-43.3483,-462.862 0/0:374:369,5:369:13158:5:176:0,-96.4002,-1167.84 0/0:100:99,1:99:3548:1:36:0,-26.5047,-315.93 0/1:175:97,78:97:3484:78:2800:-199.542,0,-261.09 0/1:179:119,60:119:4280:60:2122:-137.361,0,-331.491 0/0:258:258,0:258:9228:0:0:0,-77.6657,-829.472 0/0:23:22,0:22:788:0:0:0,-6.62266,-70.885 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:33:20,13:20:720:13:468:-32.5257,0,-55.1948 0/0:223:222,1:222:7938:1:36:0,-63.5314,-710.842 0/0:210:210,0:210:7475:0:0:0,-63.2163,-672.634 0/0:167:167,0:167:5961:0:0:0,-50.272,-536.597 0/0:57:55,2:55:1946:2:72:0,-10.322,-168.575 0/0:87:87,0:87:3082:0:0:0,-26.1896,-277.607 0/1:109:60,49:60:2152:49:1764:-126.231,0,-161.135 0/1:151:97,54:97:3480:54:1934:-128.881,0,-267.955 0/0:167:167,0:167:5993:0:0:0,-50.272,-539.472 0/0:69:69,0:69:2462:0:0:0,-20.7711,-221.833 chr04 26559348 . ATAGT GTAGA 35860 PASS AB=0.526048;ABP=7.64848;AC=35;AF=0.833333;AN=42;AO=1695;CIGAR=1X3M1X;DP=2081;DPB=2081.2;DPRA=0;EPP=3683.66;EPPR=804.307;GTI=0;LEN=5;MEANALT=1.52381;MQM=59.9929;MQMR=59.9839;NS=21;NUMALT=1;ODDS=10.6314;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=59738;QR=13069;RO=373;RPL=0;RPP=3683.66;RPPR=812.97;RPR=1695;RUN=1;SAF=1695;SAP=3683.66;SAR=0;SRF=372;SRP=804.307;SRR=1;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:46,75:46:1631:75:2616:-198.903,0,-110.295 0/1:41:16,25:16:567:25:864:-65.7311,0,-39.0198 1/1:136:0,135:0:0:135:4781:-430.093,-40.6391,0 1/1:71:0,69:0:0:69:2420:-217.701,-20.7711,0 1/1:172:1,170:1:36:170:5969:-533.763,-48.2027,0 1/1:67:0,67:0:0:67:2388:-215.178,-20.169,0 0/1:173:94,78:94:3316:78:2752:-195.786,0,-246.526 0/1:131:75,55:75:2595:55:1949:-136.192,0,-194.308 1/1:181:0,179:0:0:179:6288:-565.683,-53.8844,0 1/1:18:0,18:0:0:18:623:-56.392,-5.41854,0 1/1:12:0,12:0:0:12:429:-38.9497,-3.61236,0 0/1:26:10,16:10:331:16:569:-43.7153,0,-22.283 1/1:113:0,113:0:0:113:3984:-358.756,-34.0164,0 1/1:77:0,76:0:0:76:2684:-241.447,-22.8783,0 1/1:180:0,178:0:0:178:6303:-567.01,-53.5833,0 1/1:41:0,41:0:0:41:1444:-130.255,-12.3422,0 1/1:49:0,49:0:0:49:1730:-155.984,-14.7505,0 0/1:207:103,104:103:3618:104:3652:-266.573,0,-263.514 0/1:88:27,61:27:939:61:2130:-165.477,0,-58.3317 1/1:99:1,97:1:36:97:3429:-305.228,-26.2625,0 1/1:78:0,77:0:0:77:2734:-245.944,-23.1793,0 chr04 26559366 . A T 6091.84 PASS AB=0.468992;ABP=9.47422;AC=7;AF=0.166667;AN=42;AO=366;CIGAR=1X;DP=2048;DPB=2048;DPRA=1.61095;EPP=754.933;EPPR=3569.08;GTI=0;LEN=1;MEANALT=1;MQM=59.9836;MQMR=59.9905;NS=21;NUMALT=1;ODDS=11.3228;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13051;QR=60204;RO=1682;RPL=4;RPP=763.405;RPPR=3569.08;RPR=362;RUN=1;SAF=365;SAP=789.107;SAR=1;SRF=1682;SRP=3655.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:75,46:75:2696:46:1656:-112.904,0,-206.459 0/1:41:25,16:25:892:16:576:-39.8328,0,-68.2575 0/0:133:133,0:133:4765:0:0:0,-40.037,-429.005 0/0:70:70,0:70:2497:0:0:0,-21.0721,-224.981 0/0:168:167,1:167:5939:1:36:0,-46.9748,-531.018 0/0:66:66,0:66:2356:0:0:0,-19.868,-212.299 0/1:170:77,93:77:2768:93:3344:-250.001,0,-198.186 0/1:127:54,73:54:1932:73:2579:-194.125,0,-135.926 0/0:179:179,0:179:6428:0:0:0,-53.8844,-578.605 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/1:26:16,10:16:572:10:360:-24.9175,0,-43.9866 0/0:111:111,0:111:3992:0:0:0,-33.4143,-359.468 0/0:76:76,0:76:2693:0:0:0,-22.8783,-242.614 0/0:178:177,1:177:6356:1:36:0,-49.9851,-568.53 0/0:40:40,0:40:1421:0:0:0,-12.0412,-128.185 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/1:203:103,100:103:3669:100:3536:-257.336,0,-269.282 0/1:86:61,25:61:2188:25:892:-54.7111,0,-171.297 0/0:97:96,1:96:3440:1:36:0,-25.6016,-306.215 0/0:78:78,0:78:2804:0:0:0,-23.4803,-252.599 chr04 26680287 . G C 15166.7 PASS AB=0.488215;ABP=4.44333;AC=29;AF=0.690476;AN=42;AO=1126;CIGAR=1X;DP=1735;DPB=1735;DPRA=0;EPP=2448.09;EPPR=1318.92;GTI=0;LEN=1;MEANALT=1.14286;MQM=29.8455;MQMR=41.0578;NS=21;NUMALT=1;ODDS=1.4862;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40273;QR=21460;RO=606;RPL=1126;RPP=2448.09;RPPR=1318.92;RPR=0;RUN=1;SAF=0;SAP=2448.09;SAR=1126;SRF=0;SRP=1318.92;SRR=606;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:54,30:54:1920:30:1080:-52.8051,0,-143.006 0/1:109:54,54:54:1924:54:1944:-95.7209,0,-129.817 0/1:65:35,30:35:1232:30:1068:-60.3863,0,-88.4085 0/1:158:70,88:70:2484:88:3156:-183.781,0,-168.626 0/1:166:100,66:100:3528:66:2341:-123.637,0,-255.392 0/1:116:50,65:50:1768:65:2336:-120.038,0,-116.528 0/1:141:71,69:71:2512:69:2460:-121.638,0,-172.82 0/1:84:45,39:45:1608:39:1384:-73.2213,0,-113.201 0/1:98:51,47:51:1796:47:1653:-100.776,0,-127.604 0/1:10:2,8:2:72:8:284:-17.6277,0,-3.60302 1/1:14:0,14:0:0:14:500:-33.5758,-4.21442,0 1/1:6:0,6:0:0:6:216:-15.5159,-1.80618,0 1/1:114:0,114:0:0:114:4076:-302.577,-34.3174,0 1/1:87:0,87:0:0:87:3112:-232.478,-26.1896,0 1/1:95:0,95:0:0:95:3408:-250.879,-28.5979,0 1/1:84:1,83:1:36:83:2976:-227.517,-21.7655,0 0/1:81:41,40:41:1448:40:1440:-86.2955,0,-102.67 0/1:29:18,11:18:640:11:392:-19.3925,0,-47.5104 0/1:47:14,33:14:492:33:1175:-71.295,0,-29.4393 1/1:112:0,112:0:0:112:4020:-283.781,-33.7154,0 1/1:35:0,35:0:0:35:1252:-83.4094,-10.5361,0 chr04 26705087 . G A 44277 PASS AB=0.556414;ABP=20.8956;AC=35;AF=0.833333;AN=42;AO=2045;CIGAR=1X;DP=2341;DPB=2341;DPRA=0;EPP=4443.67;EPPR=643.595;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9076;MQMR=60;NS=21;NUMALT=1;ODDS=27.2752;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72332;QR=10197;RO=295;RPL=0;RPP=4443.67;RPPR=643.595;RPR=2045;RUN=1;SAF=0;SAP=4443.67;SAR=2045;SRF=0;SRP=643.595;SRR=295;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:54,62:54:1893:62:2158:-159.564,0,-135.727 0/1:89:30,59:30:1043:59:2094:-161.937,0,-67.3844 1/1:138:0,138:0:0:138:4910:-442.036,-41.5421,0 1/1:101:0,101:0:0:101:3571:-321.595,-30.404,0 1/1:285:2,283:2:68:283:10036:-896.701,-79.3358,0 1/1:99:1,98:1:36:98:3471:-308.997,-26.2037,0 0/1:133:64,68:64:2195:68:2406:-176.684,0,-157.714 0/1:88:43,45:43:1501:45:1591:-116.986,0,-108.89 1/1:213:0,213:0:0:213:7531:-677.72,-64.1194,0 1/1:20:0,20:0:0:20:711:-64.3155,-6.0206,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:58:32,26:32:1089:26:909:-64.6637,0,-80.8505 1/1:138:2,136:2:72:136:4841:-429.007,-34.7054,0 1/1:139:2,137:2:72:137:4784:-423.873,-35.0064,0 1/1:197:0,197:0:0:197:6949:-625.483,-59.3029,0 1/1:80:0,80:0:0:80:2832:-255.116,-24.0824,0 1/1:79:0,79:0:0:79:2801:-252.33,-23.7814,0 0/1:94:42,52:42:1433:52:1830:-136.68,0,-100.962 0/1:69:21,48:21:723:48:1710:-133.414,0,-44.6174 1/1:130:1,129:1:36:129:4566:-407.238,-35.5356,0 1/1:70:1,69:1:36:69:2451:-217.247,-17.4738,0 chr04 26705093 . G A 45319.2 PASS AB=0.568;ABP=28.1125;AC=35;AF=0.833333;AN=42;AO=2061;CIGAR=1X;DP=2334;DPB=2334;DPRA=0;EPP=4478.41;EPPR=595.822;GTI=0;LEN=1;MEANALT=1;MQM=59.9127;MQMR=60;NS=21;NUMALT=1;ODDS=29.8755;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73433;QR=9445;RO=273;RPL=0;RPP=4478.41;RPPR=595.822;RPR=2061;RUN=1;SAF=0;SAP=4478.41;SAR=2061;SRF=0;SRP=595.822;SRR=273;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:51,60:51:1759:60:2150:-160.353,0,-125.173 0/1:83:25,58:25:884:58:2071:-161.675,0,-54.8929 1/1:140:0,140:0:0:140:5015:-451.478,-42.1442,0 1/1:101:0,101:0:0:101:3609:-325.009,-30.404,0 1/1:292:2,290:2:68:290:10347:-924.667,-81.4431,0 1/1:97:0,97:0:0:97:3456:-311.247,-29.1999,0 0/1:127:58,69:58:2010:69:2456:-183.045,0,-142.94 0/1:87:39,48:39:1364:48:1694:-126.553,0,-96.8688 1/1:214:0,214:0:0:214:7621:-685.813,-64.4204,0 1/1:22:0,22:0:0:22:767:-69.3461,-6.62266,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:58:34,24:34:1191:24:849:-59.2681,0,-90.0346 1/1:139:0,139:0:0:139:4932:-444.03,-41.8432,0 1/1:145:0,145:0:0:145:5157:-464.251,-43.6494,0 1/1:199:0,199:0:0:199:7087:-637.889,-59.905,0 1/1:79:0,79:0:0:79:2808:-252.959,-23.7814,0 1/1:79:0,79:0:0:79:2815:-253.544,-23.7814,0 0/1:89:40,49:40:1370:49:1750:-130.991,0,-96.798 0/1:70:23,47:23:763:47:1691:-131.405,0,-47.9027 1/1:126:0,126:0:0:126:4486:-403.909,-37.9298,0 1/1:71:1,70:1:36:70:2492:-220.935,-17.7749,0 chr04 26707784 . CGGGGGGTGCA CGGGGGGCACC,CGGGGGGGCGCA 33286.7 PASS AB=0.466552,0.51458;ABP=8.6755,4.08672;AC=35,7;AF=0.833333,0.166667;AN=42;AO=1287,302;CIGAR=7M2X1M1X,1M1I6M1X3M;DP=1612;DPB=1640.55;DPRA=0,1.09232;EPP=2797.7,658.795;EPPR=0;GTI=0;LEN=11,12;MEANALT=2.38095,3.375;MQM=59.2681,59.9636;MQMR=0;NS=21;NUMALT=2;ODDS=7.59205;PAIRED=0,0;PAIREDR=0;PAO=3,0;PQA=104,0;PQR=0;PRO=0;QA=44488,10580;QR=0;RO=0;RPL=0,0;RPP=2797.7,658.795;RPPR=0;RPR=1287,302;RUN=1,1;SAF=1287,302;SAP=2797.7,658.795;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,36,20:0:0:36,20:1253,678:-156.846,-54.9559,-44.1188,-101.875,0,-95.8545 1/2:24:0,17,7:0:0:17,7:590,248:-68.5127,-20.557,-15.4395,-48.3077,0,-46.2005 1/1:45:0,44,0:0:0:44,0:1562,0:-140.575,-13.2453,0,-140.575,-13.2453,-140.575 1/1:79:0,77,0:0:0:77,0:2643,0:-237.786,-23.1793,0,-237.786,-23.1793,-237.786 1/1:93:0,92,0:0:0:92,0:3163,0:-284.501,-27.6948,0,-284.501,-27.6948,-284.501 1/1:52:0,52,0:0:0:52,0:1774,0:-159.926,-15.6536,0,-159.926,-15.6536,-159.926 1/2:84:0,37,47:0:0:37,47:1297,1634:-238.721,-133.178,-122.04,-105.892,0,-91.7438 1/2:61:0,32,29:0:0:32,29:1121,1025:-175.026,-83.8308,-74.1979,-91.5469,0,-82.8171 1/1:123:0,122,0:0:0:122,0:4261,0:-383.326,-36.7257,0,-383.326,-36.7257,-383.326 1/1:122:0,122,0:0:0:122,0:4165,0:-374.874,-36.7257,0,-374.874,-36.7257,-374.874 1/1:151:0,151,0:0:0:151,0:5263,0:-473.431,-45.4555,0,-473.431,-45.4555,-473.431 1/2:200:0,113,83:0:0:113,83:3892,2900:-551.922,-235.955,-201.938,-316.021,0,-291.036 1/1:65:0,62,2:0:0:62,2:2152,72:-193.544,-18.6639,0,-187.669,-12.7358,-187.067 1/1:55:0,54,0:0:0:54,0:1856,0:-166.866,-16.2556,0,-166.866,-16.2556,-166.866 1/1:98:0,96,0:0:0:96,0:3341,0:-300.414,-28.8989,0,-300.414,-28.8989,-300.414 1/1:39:0,37,0:0:0:37,0:1301,0:-116.946,-11.1381,0,-116.946,-11.1381,-116.946 1/1:37:0,36,0:0:0:36,0:1253,0:-112.65,-10.8371,0,-112.65,-10.8371,-112.65 1/2:135:0,20,111:0:0:20,111:669,3915:-372.936,-318.788,-312.767,-54.1443,0,-20.73 1/2:20:0,17,3:0:0:17,3:529,108:-51.5537,-9.17208,-4.05457,-42.7341,0,-41.831 1/1:59:0,59,0:0:0:59,0:2027,0:-182.673,-17.7608,0,-182.673,-17.7608,-182.673 1/1:11:0,11,0:0:0:11,0:376,0:-34.1548,-3.31133,0,-34.1548,-3.31133,-34.1548 chr04 26707813 . T C 29264.5 PASS AB=0.474295;ABP=6.47097;AC=35;AF=0.833333;AN=42;AO=1316;CIGAR=1X;DP=1638;DPB=1638;DPRA=0;EPP=2664.38;EPPR=591.709;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.2941;MQMR=59.9657;NS=21;NUMALT=1;ODDS=6.16265;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46897;QR=11433;RO=321;RPL=23;RPP=2664.38;RPPR=591.709;RPR=1293;RUN=1;SAF=1316;SAP=2860.67;SAR=0;SRF=321;SRP=700.053;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:27,38:27:953:38:1364:-103.494,0,-66.5164 0/1:25:8,17:8:288:17:612:-47.8877,0,-18.7417 1/1:45:0,45:0:0:45:1616:-145.708,-13.5464,0 1/1:76:0,76:0:0:76:2686:-241.872,-22.8783,0 1/1:94:0,94:0:0:94:3365:-302.96,-28.2968,0 1/1:54:0,54:0:0:54:1902:-171.439,-16.2556,0 0/1:86:47,39:47:1684:39:1387:-99.2396,0,-125.941 0/1:62:28,34:28:1000:34:1215:-90.989,0,-71.6515 1/1:125:0,125:0:0:125:4440:-399.674,-37.6288,0 1/1:123:0,123:0:0:123:4383:-394.444,-37.0267,0 1/1:149:2,147:2:72:147:5268:-466.988,-38.0167,0 0/1:203:85,118:85:3048:118:4197:-316.618,0,-213.44 1/1:65:2,63:2:72:63:2245:-195.444,-12.7302,0 1/1:56:0,55:0:0:55:1947:-175.063,-16.5567,0 1/1:99:0,99:0:0:99:3527:-317.456,-29.802,0 1/1:40:0,40:0:0:40:1436:-129.424,-12.0412,0 1/1:38:0,38:0:0:38:1349:-121.645,-11.4391,0 0/1:142:119,23:119:4208:23:816:-30.993,0,-336.155 0/1:20:3,17:3:108:17:603:-48.5219,0,-4.05457 1/1:60:0,60:0:0:60:2160:-194.622,-18.0618,0 1/1:11:0,11:0:0:11:379:-34.4378,-3.31133,0 chr04 26720568 . 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T C 11221.6 PASS AB=0.465517;ABP=5.40641;AC=36;AF=0.857143;AN=42;AO=434;CIGAR=1X;DP=561;DPB=561;DPRA=0;EPP=65.7729;EPPR=13.8677;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9217;MQMR=60;NS=21;NUMALT=1;ODDS=1.29456;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15026;QR=4459;RO=125;RPL=434;RPP=945.429;RPPR=274.444;RPR=0;RUN=1;SAF=161;SAP=65.7729;SAR=273;SRF=50;SRP=13.8677;SRR=75;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:17:11,6:11:392:6:212:-14.3073,0,-30.5025 0/1:18:6,12:6:212:12:409:-31.7169,0,-14.0063 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:16:0,16:0:0:16:565:-51.1784,-4.81648,0 1/1:43:0,43:0:0:43:1481:-133.579,-12.9443,0 1/1:25:0,25:0:0:25:846:-76.4475,-7.52575,0 0/1:23:16,7:16:572:7:248:-15.7405,0,-44.8897 0/1:27:12,15:12:432:15:518:-38.8177,0,-31.0934 1/1:34:0,34:0:0:34:1153:-104.053,-10.235,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:5:0,5:0:0:5:172:-15.818,-1.50515,0 1/1:30:0,30:0:0:30:1028:-92.824,-9.0309,0 1/1:17:0,17:0:0:17:583:-52.7919,-5.11751,0 1/1:37:0,37:0:0:37:1282:-115.677,-11.1381,0 1/1:21:0,21:0:0:21:723:-65.387,-6.32163,0 1/1:13:0,13:0:0:13:459:-41.6441,-3.91339,0 0/1:89:55,34:55:1955:34:1193:-80.8815,0,-149.433 0/1:58:24,34:24:860:34:1165:-87.6904,0,-60.2621 1/1:20:0,20:0:0:20:689:-62.328,-6.0206,0 1/1:53:1,50:1:36:50:1764:-155.444,-12.1141,0 chr04 26788359 . 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T C 15490.7 PASS AB=0.45614;ABP=6.8199;AC=35;AF=0.833333;AN=42;AO=734;CIGAR=1X;DP=860;DPB=860;DPRA=0;EPP=1596.87;EPPR=274.444;GTI=0;LEN=1;MEANALT=1.04762;MQM=42.4564;MQMR=59.904;NS=21;NUMALT=1;ODDS=6.32426;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26210;QR=4475;RO=125;RPL=0;RPP=1596.87;RPPR=274.444;RPR=734;RUN=1;SAF=734;SAP=1596.87;SAR=0;SRF=125;SRP=274.444;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:19:11,8:11:396:8:273:-17.5512,0,-30.2632 0/1:24:9,15:9:324:15:540:-40.8666,0,-22.2811 1/1:45:0,45:0:0:45:1612:-141.507,-13.5464,0 1/1:25:0,25:0:0:25:888:-77.5757,-7.52575,0 1/1:55:0,55:0:0:55:1968:-173.625,-16.5567,0 1/1:41:0,41:0:0:41:1468:-129.328,-12.3422,0 0/1:57:36,21:36:1292:21:756:-49.7505,0,-99.4074 0/1:28:14,14:14:500:14:492:-35.3301,0,-36.9073 1/1:66:0,65:0:0:65:2324:-202.203,-19.567,0 1/1:4:0,4:0:0:4:144:-13.0277,-1.20412,0 1/1:4:0,4:0:0:4:144:-13.0837,-1.20412,0 0/1:9:3,6:3:108:6:216:-16.6563,0,-7.3659 1/1:41:1,40:1:36:40:1436:-121.173,-8.74396,0 1/1:46:0,46:0:0:46:1644:-144.058,-13.8474,0 1/1:182:0,182:0:0:182:6488:-568.497,-54.7875,0 1/1:35:0,35:0:0:35:1252:-107.867,-10.5361,0 1/1:38:0,38:0:0:38:1348:-117.281,-11.4391,0 0/1:77:47,30:47:1675:30:1061:-70.1636,0,-127.857 0/1:14:4,10:4:144:10:360:-27.8268,0,-9.0992 1/1:28:0,28:0:0:28:1004:-88.4098,-8.42884,0 1/1:22:0,22:0:0:22:792:-69.8665,-6.62266,0 chr04 27039724 . C A 15428.6 PASS AB=0.473684;ABP=4.38176;AC=35;AF=0.833333;AN=42;AO=734;CIGAR=1X;DP=855;DPB=855;DPRA=0;EPP=1596.87;EPPR=265.758;GTI=0;LEN=1;MEANALT=1;MQM=42.4687;MQMR=59.9008;NS=21;NUMALT=1;ODDS=5.79281;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26120;QR=4331;RO=121;RPL=734;RPP=1596.87;RPPR=265.758;RPR=0;RUN=1;SAF=734;SAP=1596.87;SAR=0;SRF=121;SRP=265.758;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:20:11,9:11:396:9:311:-20.6394,0,-29.9621 0/1:25:9,16:9:320:16:565:-42.617,0,-21.6166 1/1:45:0,45:0:0:45:1612:-141.507,-13.5464,0 1/1:25:0,25:0:0:25:887:-77.4642,-7.52575,0 1/1:54:0,54:0:0:54:1911:-168.799,-16.2556,0 1/1:41:0,41:0:0:41:1453:-128.295,-12.3422,0 0/1:57:35,22:35:1247:22:788:-52.9781,0,-95.3577 0/1:29:14,15:14:500:15:505:-36.2654,0,-36.6063 1/1:67:0,67:0:0:67:2396:-207.535,-20.169,0 1/1:4:0,4:0:0:4:140:-12.7001,-1.20412,0 1/1:4:0,4:0:0:4:144:-13.0837,-1.20412,0 0/1:9:3,6:3:108:6:216:-16.6563,0,-7.3659 1/1:38:1,37:1:36:37:1319:-111.744,-7.84087,0 1/1:47:0,47:0:0:47:1684:-147.623,-14.1484,0 1/1:182:0,182:0:0:182:6494:-569.307,-54.7875,0 1/1:35:0,35:0:0:35:1260:-108.522,-10.5361,0 1/1:37:0,37:0:0:37:1304:-114.196,-11.1381,0 0/1:74:44,30:44:1580:30:1067:-71.6015,0,-120.215 0/1:14:4,10:4:144:10:352:-27.1821,0,-9.0992 1/1:27:0,27:0:0:27:960:-84.6371,-8.12781,0 1/1:21:0,21:0:0:21:752:-66.3557,-6.32163,0 chr04 27056546 . G A 21853.8 PASS AB=0.588448;ABP=21.8323;AC=36;AF=0.857143;AN=42;AO=986;CIGAR=1X;DP=1100;DPB=1100;DPRA=0;EPP=2135.41;EPPR=248.387;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9746;MQMR=59.9292;NS=21;NUMALT=1;ODDS=15.9514;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35147;QR=4008;RO=113;RPL=985;RPP=2135.41;RPPR=248.387;RPR=1;RUN=1;SAF=0;SAP=2144.08;SAR=986;SRF=0;SRP=248.387;SRR=113;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:23,45:23:824:45:1612:-124.895,0,-54.0133 0/1:24:13,11:13:468:11:392:-28.392,0,-35.2349 1/1:53:0,53:0:0:53:1885:-169.927,-15.9546,0 1/1:60:0,60:0:0:60:2148:-193.579,-18.0618,0 1/1:164:0,164:0:0:164:5836:-525.355,-49.3689,0 1/1:97:0,97:0:0:97:3394:-305.675,-29.1999,0 0/1:74:22,51:22:765:51:1822:-142.073,0,-46.9733 0/1:43:23,20:23:824:20:708:-51.1013,0,-61.539 1/1:118:0,118:0:0:118:4200:-378.181,-35.5215,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:39:0,39:0:0:39:1396:-125.939,-11.7402,0 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 1/1:105:0,105:0:0:105:3765:-339.047,-31.6082,0 1/1:36:0,36:0:0:36:1284:-115.863,-10.8371,0 1/1:31:0,31:0:0:31:1097:-99.038,-9.33193,0 0/1:43:22,21:22:775:21:756:-55.4229,0,-57.1269 0/1:25:10,15:10:352:15:540:-41.4062,0,-24.4924 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 chr04 27073096 . C T 2069.19 PASS AB=0.496124;ABP=3.04397;AC=7;AF=0.166667;AN=42;AO=128;CIGAR=1X;DP=741;DPB=741;DPRA=1.06832;EPP=280.959;EPPR=1331.95;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9935;NS=21;NUMALT=1;ODDS=5.00616;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4576;QR=21917;RO=612;RPL=0;RPP=280.959;RPPR=1331.95;RPR=128;RUN=1;SAF=128;SAP=280.959;SAR=0;SRF=612;SRP=1331.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:34:13,21:13:468:21:752:-57.7712,0,-32.2223 0/1:13:7,6:7:248:6:216:-15.8771,0,-18.7508 0/0:72:72,0:72:2565:0:0:0,-21.6742,-231.099 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:27:8,19:8:288:19:680:-53.4014,0,-18.1396 0/1:88:48,40:48:1716:40:1440:-103.407,0,-128.235 0/0:64:63,0:63:2264:0:0:0,-18.9649,-203.662 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:17:4,13:4:140:13:464:-36.98,0,-7.82707 0/0:56:56,0:56:1996:0:0:0,-16.8577,-179.914 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/0:75:75,0:75:2692:0:0:0,-22.5772,-242.524 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:48:24,24:24:860:24:844:-61.8295,0,-63.2724 0/1:31:26,5:26:936:5:180:-7.22014,0,-75.2275 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 0/0:24:24,0:24:856:0:0:0,-7.22472,-77.3611 chr04 27073199 . GTA AAG,GAG 21491.3 PASS AB=0.386628,0.601744;ABP=41.4151,33.9412;AC=34,8;AF=0.809524,0.190476;AN=42;AO=783,222;CIGAR=3X,1M2X;DP=1011;DPB=1011;DPRA=0,1.10599;EPP=1703.27,485.077;EPPR=0;GTI=0;LEN=3,2;MEANALT=1.57143,2.42857;MQM=59.9502,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.6811;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27430,7850;QR=0;RO=0;RPL=0,0;RPP=1703.27,485.077;RPPR=0;RPR=783,222;RUN=1,1;SAF=0,0;SAP=1703.27,485.077;SAR=783,222;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:33:0,8,23:0:0:8,23:268,804:-87.1034,-65.4041,-62.9959,-21.6908,0,-14.7671 2/2:16:0,1,15:0:0:1,15:36,538:-48.396,-45.4585,-45.1575,-4.51545,-1.21821,0 1/1:64:0,64,0:0:0:64,0:2242,0:-202.034,-19.2659,0,-202.034,-19.2659,-202.034 1/1:78:0,78,0:0:0:78,0:2736,0:-246.48,-23.4803,0,-246.48,-23.4803,-246.48 1/1:50:0,50,0:0:0:50,0:1741,0:-156.97,-15.0515,0,-156.97,-15.0515,-156.97 1/1:7:0,7,0:0:0:7,0:243,0:-22.2081,-2.10721,0,-22.2081,-2.10721,-22.2081 1/2:87:0,25,62:0:0:25,62:897,2181:-251.057,-177.889,-170.363,-73.5248,0,-54.861 1/2:88:0,37,51:0:0:37,51:1286,1790:-250.564,-146.025,-134.887,-104.887,0,-89.5347 1/1:54:0,54,0:0:0:54,0:1904,0:-171.636,-16.2556,0,-171.636,-16.2556,-171.636 1/1:14:0,14,0:0:0:14,0:486,0:-44.069,-4.21442,0,-44.069,-4.21442,-44.069 1/1:13:0,13,0:0:0:13,0:455,0:-41.2822,-3.91339,0,-41.2822,-3.91339,-41.2822 1/2:41:0,19,20:0:0:19,20:659,713:-111.677,-58.1168,-52.3972,-53.5524,0,-47.5318 1/1:44:0,43,0:0:0:43,0:1524,0:-137.208,-12.9443,0,-137.208,-12.9443,-137.208 1/1:54:0,54,0:0:0:54,0:1850,0:-166.773,-16.2556,0,-166.773,-16.2556,-166.773 1/1:74:0,74,0:0:0:74,0:2610,0:-235.148,-22.2762,0,-235.148,-22.2762,-235.148 1/1:16:0,16,0:0:0:16,0:564,0:-51.0897,-4.81648,0,-51.0897,-4.81648,-51.0897 1/1:31:0,31,0:0:0:31,0:1069,0:-96.5142,-9.33193,0,-96.5142,-9.33193,-96.5142 1/2:49:0,20,29:0:0:20,29:712,1034:-142.674,-84.6436,-78.623,-58.3863,0,-49.6564 1/2:46:0,24,22:0:0:24,22:849,790:-133.95,-64.8027,-57.578,-69.5042,0,-62.8815 1/1:122:0,121,0:0:0:121,0:4236,0:-381.067,-36.4246,0,-381.067,-36.4246,-381.067 1/1:30:0,30,0:0:0:30,0:1063,0:-95.9819,-9.0309,0,-95.9819,-9.0309,-95.9819 chr04 27073452 . G C 28298 PASS AB=0.301587;ABP=218.434;AC=33;AF=0.785714;AN=42;AO=1340;CIGAR=1X;DP=1987;DPB=1987;DPRA=0;EPP=2912.78;EPPR=1403.61;GTI=2;LEN=1;MEANALT=1.09524;MQM=59.9993;MQMR=59.9504;NS=21;NUMALT=1;ODDS=9.49522;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47856;QR=23015;RO=645;RPL=0;RPP=2912.78;RPPR=1403.61;RPR=1340;RUN=1;SAF=1340;SAP=2912.78;SAR=0;SRF=645;SRP=1403.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:81,39:81:2904:39:1388:-89.0953,0,-225.472 0/1:87:76,11:76:2705:11:396:-9.79314,0,-217.503 1/1:95:0,95:0:0:95:3400:-306.215,-28.5979,0 1/1:124:1,122:1:36:122:4368:-389.696,-33.7882,0 1/1:103:4,99:4:144:99:3540:-305.496,-17.6925,0 1/1:122:0,122:0:0:122:4325:-389.427,-36.7257,0 0/1:104:79,25:79:2824:25:892:-49.2926,0,-223.092 0/1:124:67,57:67:2378:57:2034:-146.004,0,-176.947 1/1:127:0,126:0:0:126:4501:-404.898,-37.9298,0 0/1:11:4,7:4:125:7:248:-19.3529,0,-8.24729 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/0:211:197,14:197:7011:14:504:0,-17.8192,-584.578 1/1:178:0,178:0:0:178:6366:-573.031,-53.5833,0 1/1:95:0,95:0:0:95:3381:-304.505,-28.5979,0 1/1:110:2,108:2:72:108:3860:-340.759,-26.2766,0 1/1:37:0,37:0:0:37:1317:-118.83,-11.1381,0 1/1:46:0,46:0:0:46:1636:-147.529,-13.8474,0 0/1:144:120,24:120:4312:24:856:-34.0128,0,-344.906 0/1:40:13,27:13:468:27:972:-75.7567,0,-30.4184 1/1:72:1,71:1:36:71:2548:-225.972,-18.0759,0 1/1:33:0,33:0:0:33:1180:-106.508,-9.93399,0 chr04 27074441 . G A 5695.14 PASS AB=0.506726;ABP=3.27321;AC=7;AF=0.166667;AN=42;AO=344;CIGAR=1X;DP=2092;DPB=2092;DPRA=1.17167;EPP=749.997;EPPR=3798.74;GTI=0;LEN=1;MEANALT=1;MQM=59.9738;MQMR=60;NS=21;NUMALT=1;ODDS=12.2818;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12283;QR=62503;RO=1748;RPL=344;RPP=749.997;RPPR=3798.74;RPR=0;RUN=1;SAF=0;SAP=749.997;SAR=344;SRF=0;SRP=3798.74;SRR=1748;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:47,40:47:1676:40:1432:-102.988,0,-124.938 0/1:99:52,47:52:1848:47:1668:-120.597,0,-136.798 0/0:87:87,0:87:3100:0:0:0,-26.1896,-279.229 0/0:105:105,0:105:3760:0:0:0,-31.6081,-338.6 0/0:208:205,3:205:7328:3:108:0,-52.5391,-649.496 0/0:110:110,0:110:3929:0:0:0,-33.1133,-353.801 0/1:199:104,95:104:3716:95:3396:-245.95,0,-274.737 0/1:114:40,74:40:1428:74:2631:-202.719,0,-94.5001 0/0:204:204,0:204:7300:0:0:0,-61.4101,-657.051 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:23:13,10:13:464:10:356:-25.4576,0,-35.1738 0/0:66:65,1:65:2316:1:36:0,-16.2697,-205.103 0/0:136:135,1:135:4840:1:36:0,-37.3418,-432.155 0/0:176:176,0:176:6300:0:0:0,-52.9813,-567.093 0/0:80:80,0:80:2872:0:0:0,-24.0824,-258.716 0/0:111:111,0:111:3984:0:0:0,-33.4143,-358.749 0/1:79:33,46:33:1167:46:1656:-125.547,0,-81.555 0/1:68:41,27:41:1468:27:964:-66.6068,0,-111.946 0/0:70:70,0:70:2500:0:0:0,-21.0721,-225.253 0/0:56:56,0:56:2003:0:0:0,-16.8577,-180.543 chr04 27190951 . C T 26706.3 PASS AB=0.59604;ABP=43.4685;AC=35;AF=0.833333;AN=42;AO=1170;CIGAR=1X;DP=1383;DPB=1383;DPRA=0;EPP=2389.69;EPPR=431.443;GTI=0;LEN=1;MEANALT=1;MQM=59.9906;MQMR=60;NS=21;NUMALT=1;ODDS=12.8606;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41164;QR=7036;RO=213;RPL=1115;RPP=2088.37;RPPR=374.923;RPR=55;RUN=1;SAF=1133;SAP=2232.42;SAR=37;SRF=206;SRP=406.731;SRR=7;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:34,47:34:1170:47:1656:-124.942,0,-81.2161 0/1:20:9,11:9:309:11:387:-29.1453,0,-22.1201 1/1:57:2,55:2:68:55:1927:-167.245,-10.701,0 1/1:72:0,72:0:0:72:2515:-226.599,-21.6742,0 1/1:123:2,121:2:68:121:4313:-381.89,-30.569,0 1/1:66:2,64:2:57:64:2275:-199.599,-14.4547,0 0/1:81:33,48:33:1092:48:1672:-126.381,0,-74.1903 0/1:74:37,37:37:1219:37:1286:-93.763,0,-87.7258 1/1:97:0,97:0:0:97:3420:-308.015,-29.1999,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:47:19,28:19:627:28:995:-75.7156,0,-42.5918 1/1:111:0,111:0:0:111:3930:-353.895,-33.4143,0 1/1:24:0,24:0:0:24:830:-75.0146,-7.22472,0 1/1:128:0,128:0:0:128:4515:-406.522,-38.5318,0 1/1:24:0,24:0:0:24:829:-74.9175,-7.22472,0 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 0/1:116:52,64:52:1696:64:2223:-165.414,0,-117.996 0/1:86:20,66:20:622:66:2309:-182.182,0,-30.387 1/1:70:2,68:2:72:68:2418:-211.039,-14.2354,0 1/1:72:1,71:1:36:71:2448:-216.978,-18.0759,0 chr04 27208561 . C A,G 28959 PASS AB=0.497748,0.502252;ABP=3.02986,3.02986;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1087,223;CIGAR=1X,1X;DP=1310;DPB=1310;DPRA=0,0.833141;EPP=2363.4,487.249;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.38095,2;MQM=59.5244,59.2601;MQMR=0;NS=21;NUMALT=2;ODDS=1.03968;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38988,7950;QR=0;RO=0;RPL=1087,223;RPP=2363.4,487.249;RPPR=0;RPR=0,0;RUN=1,1;SAF=1087,223;SAP=2363.4,487.249;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:30:0,11,19:0:0:11,19:396,684:-88.4257,-56.1531,-52.8418,-32.6321,0,-26.9125 1/2:30:0,13,17:0:0:13,17:464,612:-88.1196,-50.2936,-46.3802,-38.1841,0,-33.0666 1/1:89:0,89,0:0:0:89,0:3177,0:-286.141,-26.7917,0,-286.141,-26.7917,-286.141 1/1:113:0,113,0:0:0:113,0:4064,0:-365.906,-34.0164,0,-365.906,-34.0164,-365.906 1/1:101:0,101,0:0:0:101,0:3628,0:-326.576,-30.404,0,-326.576,-30.404,-326.576 1/1:38:0,38,0:0:0:38,0:1360,0:-122.623,-11.4391,0,-122.623,-11.4391,-122.623 1/2:148:0,85,63:0:0:85,63:3048,2216:-428.967,-180.521,-154.934,-248.8,0,-229.835 1/2:121:0,51,70:0:0:51,70:1823,2507:-353.36,-204.79,-189.438,-148.928,0,-127.856 1/1:77:0,77,0:0:0:77,0:2764,0:-248.989,-23.1793,0,-248.989,-23.1793,-248.989 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:22:0,8,14:0:0:8,14:288,500:-64.6221,-41.1218,-38.7135,-23.8592,0,-19.6447 1/1:56:0,56,0:0:0:56,0:2008,0:-180.993,-16.8577,0,-180.993,-16.8577,-180.993 1/1:113:0,113,0:0:0:113,0:4056,0:-364.494,-34.0164,0,-364.494,-34.0164,-364.494 1/1:90:0,90,0:0:0:90,0:3236,0:-291.198,-27.0927,0,-291.198,-27.0927,-291.198 1/1:24:0,24,0:0:0:24,0:864,0:-78.077,-7.22472,0,-78.077,-7.22472,-78.077 1/1:36:0,36,0:0:0:36,0:1296,0:-116.921,-10.8371,0,-116.921,-10.8371,-116.921 1/2:36:0,16,20:0:0:16,20:568,711:-104.539,-58.2774,-53.4609,-46.6168,0,-40.5962 1/2:53:0,34,19:0:0:34,19:1216,684:-155.3,-56.1471,-45.912,-99.5115,0,-93.792 1/1:66:0,66,0:0:0:66,0:2368,0:-213.363,-19.868,0,-213.363,-19.868,-213.363 1/1:54:0,54,0:0:0:54,0:1936,0:-174.511,-16.2556,0,-174.511,-16.2556,-174.511 chr04 27233425 . G A 113677 PASS AB=0.523139;ABP=9.94416;AC=35;AF=0.833333;AN=42;AO=4115;CIGAR=1X;DP=4849;DPB=4849;DPRA=0;EPP=8938.62;EPPR=1590.36;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.8326;MQMR=60;NS=21;NUMALT=1;ODDS=37.727;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=146049;QR=25928;RO=731;RPL=2145;RPP=19.171;RPPR=137.781;RPR=1970;RUN=1;SAF=2145;SAP=19.171;SAR=1970;SRF=472;SRP=137.781;SRR=259;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:212:84,128:84:2967:128:4537:-344.615,0,-203.444 0/1:242:125,117:125:4453:117:4117:-297.839,0,-328.092 1/1:191:2,189:2:72:189:6731:-599.001,-50.66,0 1/1:337:2,335:2:72:335:11923:-1066.06,-94.6104,0 1/1:536:8,528:8:284:528:18696:-1656.21,-135.449,0 1/1:189:3,186:3:108:186:6617:-585.439,-46.8195,0 0/1:390:177,212:177:6251:212:7558:-562.754,0,-445.227 0/1:224:116,107:116:4101:107:3800:-274.818,0,-301.937 1/1:453:0,453:0:0:453:16079:-1446.68,-136.367,0 1/1:26:0,26:0:0:26:909:-82.0933,-7.82678,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:47:24,23:24:864:23:809:-58.9799,0,-63.9342 1/1:237:0,237:0:0:237:8473:-762.547,-71.3441,0 1/1:228:0,228:0:0:228:8079:-727.005,-68.6348,0 1/1:364:0,364:0:0:364:12945:-1164.83,-109.575,0 1/1:254:0,253:0:0:253:8991:-808.954,-76.1606,0 1/1:182:1,181:1:36:181:6364:-569.245,-51.1892,0 0/1:213:115,98:115:4098:98:3445:-246.083,0,-304.884 0/1:163:68,95:68:2406:95:3319:-249.854,0,-167.729 1/1:243:5,238:5:180:238:8506:-748.927,-56.5982,0 1/1:103:1,102:1:36:102:3611:-321.598,-27.4078,0 chr04 27235808 . CA TG,CG 37070.1 PASS AB=0.510909,0.489091;ABP=3.57883,3.57883;AC=35,7;AF=0.833333,0.166667;AN=42;AO=1451,271;CIGAR=2X,1M1X;DP=1724;DPB=1724;DPRA=0,0.76017;EPP=3153.82,591.479;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.52381,2;MQM=59.8732,60;MQMR=0;NS=21;NUMALT=2;ODDS=11.0042;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50970,9508;QR=0;RO=0;RPL=0,0;RPP=3153.82,591.479;RPPR=0;RPR=1451,271;RUN=1,1;SAF=0,0;SAP=3153.82,591.479;SAR=1451,271;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:94:0,63,31:0:0:63,31:2216,1097:-269.986,-89.7071,-70.7422,-180.632,0,-171.3 1/2:32:0,14,18:0:0:14,18:500,631:-92.465,-51.6971,-47.4827,-41.122,0,-35.7034 1/1:109:0,109,0:0:0:109,0:3837,0:-345.527,-32.8123,0,-345.527,-32.8123,-345.527 1/1:85:0,85,0:0:0:85,0:2991,0:-269.416,-25.5876,0,-269.416,-25.5876,-269.416 1/1:223:0,223,0:0:0:223,0:7849,0:-706.438,-67.1297,0,-706.438,-67.1297,-706.438 1/1:43:0,43,0:0:0:43,0:1528,0:-137.813,-12.9443,0,-137.813,-12.9443,-137.813 1/2:109:0,46,63:0:0:46,63:1628,2191:-311.079,-178.488,-164.64,-132.942,0,-113.977 1/2:123:0,65,58:0:0:65,58:2313,2058:-356.539,-168.03,-148.463,-188.863,0,-171.404 1/1:162:0,161,0:0:0:161,0:5601,0:-503.857,-48.4658,0,-503.857,-48.4658,-503.857 1/1:11:0,10,1:0:0:10,1:360,32:-32.4207,-3.0103,0,-29.846,-0.112017,-29.545 1/1:8:0,8,0:0:0:8,0:273,0:-24.9007,-2.40824,0,-24.9007,-2.40824,-24.9007 1/2:21:0,10,11:0:0:10,11:358,392:-61.5043,-32.3087,-29.2984,-29.5526,0,-26.2413 1/1:83:0,83,0:0:0:83,0:2955,0:-266.183,-24.9855,0,-266.183,-24.9855,-266.183 1/1:65:0,64,1:0:0:64,1:2182,32:-196.318,-19.2659,0,-193.74,-16.3676,-193.439 1/1:181:0,181,0:0:0:181,0:6369,0:-573.302,-54.4864,0,-573.302,-54.4864,-573.302 1/1:45:0,45,0:0:0:45,0:1560,0:-140.526,-13.5464,0,-140.526,-13.5464,-140.526 1/1:51:0,50,0:0:0:50,0:1746,0:-157.169,-15.0515,0,-157.169,-15.0515,-157.169 1/2:136:0,63,73:0:0:63,73:2204,2565:-388.432,-209.125,-190.16,-179.657,0,-157.682 1/2:35:0,20,15:0:0:20,15:704,510:-99.0208,-41.7041,-35.6835,-57.6617,0,-53.1462 1/1:67:0,67,0:0:0:67,0:2371,0:-213.646,-20.169,0,-213.646,-20.169,-213.646 1/1:41:0,41,0:0:0:41,0:1425,0:-128.171,-12.3422,0,-128.171,-12.3422,-128.171 chr04 27235840 . A G 30373.5 PASS AB=0.502655;ABP=3.04489;AC=34;AF=0.809524;AN=42;AO=1408;CIGAR=1X;DP=1691;DPB=1691;DPRA=0;EPP=3060.44;EPPR=615.366;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.8608;MQMR=60;NS=21;NUMALT=1;ODDS=6.04267;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49891;QR=10055;RO=282;RPL=1408;RPP=3060.44;RPPR=615.366;RPR=0;RUN=1;SAF=0;SAP=3060.44;SAR=1408;SRF=0;SRP=615.366;SRR=282;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:31,62:31:1112:62:2216:-171.578,0,-72.3956 0/1:35:20,15:20:720:15:522:-36.7712,0,-54.5927 1/1:105:0,105:0:0:105:3702:-333.384,-31.6082,0 1/1:82:0,82:0:0:82:2910:-262.137,-24.6845,0 1/1:212:0,212:0:0:212:7505:-675.472,-63.8184,0 1/1:39:0,39:0:0:39:1376:-124.138,-11.7402,0 0/1:110:65,45:65:2324:45:1572:-108.651,0,-176.307 0/1:125:62,63:62:2194:63:2248:-164.955,0,-160.094 1/1:159:0,158:0:0:158:5640:-507.498,-47.5627,0 0/1:9:1,8:1:36:8:280:-22.83,0,-0.889005 1/1:9:0,9:0:0:9:320:-29.1341,-2.70927,0 0/1:21:11,10:11:396:10:352:-25.6966,0,-29.6611 1/1:79:0,79:0:0:79:2797:-251.97,-23.7814,0 1/1:64:1,63:1:21:63:2240:-199.76,-17.166,0 1/1:180:0,180:0:0:180:6379:-574.203,-54.1854,0 1/1:44:0,44:0:0:44:1572:-140.99,-13.2453,0 1/1:48:0,48:0:0:48:1712:-154.366,-14.4494,0 0/1:138:75,63:75:2680:63:2228:-159.241,0,-199.903 0/1:34:16,18:16:572:18:636:-47.333,0,-41.5784 1/1:65:0,65:0:0:65:2314:-208.518,-19.567,0 1/1:40:0,40:0:0:40:1370:-123.46,-12.0412,0 chr04 27236027 . C T 3579.49 PASS AB=0.464789;ABP=6.83331;AC=8;AF=0.190476;AN=42;AO=168;CIGAR=1X;DP=890;DPB=890;DPRA=1.1238;EPP=3.83753;EPPR=3.25425;GTI=0;LEN=1;MEANALT=1.09091;MQM=60;MQMR=59.9945;NS=21;NUMALT=1;ODDS=4.7255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5994;QR=25510;RO=721;RPL=0;RPP=367.818;RPPR=1568.64;RPR=168;RUN=1;SAF=88;SAP=3.83753;SAR=80;SRF=365;SRP=3.25425;SRR=356;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:21,26:21:752:26:924:-69.3292,0,-53.8578 0/1:26:9,17:9:316:17:612:-47.5867,0,-20.9521 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:39:39,0:39:1347:0:0:0,-11.7402,-121.522 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:46:45,1:45:1603:1:36:0,-10.2491,-140.961 0/1:59:31,28:31:1099:28:987:-71.3823,0,-81.4587 0/1:40:18,21:18:616:21:743:-55.0936,0,-43.6598 0/0:57:57,0:57:2023:0:0:0,-17.1587,-182.342 0/1:11:9,2:9:315:2:72:-3.52539,0,-25.3759 0/0:8:8,0:8:279:0:0:0,-2.40824,-25.4475 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:48:47,1:47:1680:1:36:0,-10.8512,-147.889 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 0/0:75:75,0:75:2670:0:0:0,-22.5772,-240.545 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:87:49,38:49:1704:38:1360:-96.511,0,-127.453 0/1:79:51,28:51:1770:28:1008:-67.255,0,-135.798 0/0:43:42,1:42:1495:1:36:0,-9.34601,-131.246 0/0:93:93,0:93:3285:0:0:0,-27.9958,-295.871 chr04 27236055 . C A 20060.6 PASS AB=0.549451;ABP=10.7417;AC=34;AF=0.809524;AN=42;AO=731;CIGAR=1X;DP=898;DPB=898;DPRA=0;EPP=3.15586;EPPR=3.2196;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9945;MQMR=60;NS=21;NUMALT=1;ODDS=3.43057;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26135;QR=5940;RO=166;RPL=729;RPP=1573.03;RPPR=363.475;RPR=2;RUN=1;SAF=367;SAP=3.03703;SAR=364;SRF=85;SRP=3.2196;SRR=81;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:23,23:23:824:23:827:-60.9066,0,-60.6359 0/1:28:17,11:17:612:11:384:-26.4658,0,-46.9846 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 1/1:38:0,38:0:0:38:1364:-123.058,-11.4391,0 1/1:42:0,42:0:0:42:1512:-136.375,-12.6433,0 1/1:47:1,46:1:36:46:1652:-145.37,-10.5501,0 0/1:60:28,32:28:1004:32:1144:-85.2077,0,-72.6141 0/1:44:21,23:21:752:23:786:-57.8064,0,-54.7609 1/1:55:0,55:0:0:55:1949:-175.684,-16.5567,0 0/1:11:2,9:2:68:9:324:-26.1945,0,-3.14638 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:7:5,2:5:176:2:72:-4.72951,0,-14.0778 1/1:46:1,45:1:36:45:1616:-142.132,-10.2491,0 1/1:43:0,43:0:0:43:1525:-137.541,-12.9443,0 1/1:76:0,76:0:0:76:2724:-245.403,-22.8783,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:90:40,50:40:1424:50:1800:-135.189,0,-101.365 0/1:78:27,50:27:972:50:1781:-137.032,0,-64.2588 1/1:43:1,42:1:36:42:1508:-132.416,-9.34602,0 1/1:93:0,93:0:0:93:3339:-300.727,-27.9958,0 chr04 27236069 . G A 19734.7 PASS AB=0.546742;ABP=9.70926;AC=34;AF=0.809524;AN=42;AO=726;CIGAR=1X;DP=889;DPB=889;DPRA=0;EPP=3.02226;EPPR=3.02362;GTI=0;LEN=1;MEANALT=1;MQM=59.9945;MQMR=60;NS=21;NUMALT=1;ODDS=4.13873;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25779;QR=5757;RO=163;RPL=726;RPP=1579.5;RPPR=356.96;RPR=0;RUN=1;SAF=362;SAP=3.02226;SAR=364;SRF=82;SRP=3.02362;SRR=81;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:24,23:24:847:23:821:-60.0639,0,-62.4003 0/1:26:15,11:15:536:11:392:-27.7933,0,-40.748 1/1:16:0,16:0:0:16:565:-51.1796,-4.81648,0 1/1:40:0,40:0:0:40:1413:-127.463,-12.0412,0 1/1:42:0,42:0:0:42:1504:-135.655,-12.6433,0 1/1:46:1,45:1:36:45:1608:-141.412,-10.2491,0 0/1:56:26,30:26:924:30:1072:-79.9348,0,-66.62 0/1:42:21,21:21:744:21:735:-53.829,0,-54.6411 1/1:57:0,57:0:0:57:2027:-182.702,-17.1587,0 0/1:11:2,9:2:72:9:311:-25.0124,0,-3.52539 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:7:5,2:5:171:2:72:-4.72951,0,-13.6182 1/1:47:1,46:1:36:46:1611:-141.676,-10.5501,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 1/1:77:0,77:0:0:77:2729:-245.853,-23.1793,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:89:40,49:40:1391:49:1731:-129.282,0,-98.6918 0/1:75:27,48:27:964:48:1698:-130.527,0,-64.4996 1/1:41:1,40:1:36:40:1440:-126.299,-8.74396,0 1/1:92:0,92:0:0:92:3250:-292.721,-27.6948,0 chr04 27279986 . GTTCCC GCTCCG,GCTCCC 50160.4 PASS AB=0.504425,0.480826;ABP=3.1256,5.17537;AC=35,7;AF=0.833333,0.166667;AN=42;AO=2016,332;CIGAR=1M1X3M1X,1M1X4M;DP=2385;DPB=2384.83;DPRA=0,1.2375;EPP=4380.7,723.939;EPPR=0;GTI=0;LEN=6,1;MEANALT=3,3.5;MQM=59.6781,59.8645;MQMR=0;NS=21;NUMALT=2;ODDS=17.4402;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70233,11658;QR=0;RO=0;RPL=2016,332;RPP=4380.7,723.939;RPPR=0;RPR=0,0;RUN=1,1;SAF=2016,332;SAP=4380.7,723.939;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:92:0,37,52:0:0:37,52:1309,1824:-255.056,-148.439,-137.301,-106.659,0,-91.005 1/2:92:0,52,39:0:0:52,39:1797,1356:-256.129,-110.148,-94.4945,-145.968,0,-134.228 1/1:144:0,143,0:0:0:143,0:4969,0:-446.985,-43.0473,0,-446.985,-43.0473,-446.985 1/1:119:0,116,1:0:0:116,1:4039,36:-363.365,-34.9195,0,-360.428,-31.9604,-360.127 1/1:245:0,241,1:0:0:241,1:8400,36:-755.715,-72.5482,0,-752.778,-69.584,-752.477 1/1:75:0,68,1:0:0:68,1:2329,36:-209.431,-20.47,0,-206.493,-17.5297,-206.192 1/2:163:0,80,79:0:0:80,79:2732,2777:-447.755,-226.084,-202.002,-221.712,0,-197.931 1/2:145:0,67,78:0:0:67,78:2349,2752:-415.585,-224.439,-204.27,-191.497,0,-168.017 1/1:281:0,279,0:0:0:279,0:9667,0:-869.655,-83.9874,0,-869.655,-83.9874,-869.655 1/1:12:0,11,0:0:0:11,0:370,0:-33.2629,-3.31133,0,-33.2629,-3.31133,-33.2629 1/1:8:0,8,0:0:0:8,0:262,0:-23.8963,-2.40824,0,-23.8963,-2.40824,-23.8963 1/2:25:0,17,8:0:0:17,8:590,288:-71.811,-23.8592,-18.7417,-48.3076,0,-45.8993 1/1:131:0,128,0:0:0:128,0:4494,0:-404.312,-38.5318,0,-404.312,-38.5318,-404.312 1/1:144:0,141,0:0:0:141,0:4910,0:-441.724,-42.4452,0,-441.724,-42.4452,-441.724 1/1:272:0,267,1:0:0:267,1:9370,36:-842.692,-80.375,0,-839.755,-77.4221,-839.454 1/1:84:0,84,0:0:0:84,0:2970,0:-267.532,-25.2865,0,-267.532,-25.2865,-267.532 1/1:48:0,46,0:0:0:46,0:1636,0:-147.181,-13.8474,0,-147.181,-13.8474,-147.181 1/2:86:0,39,45:0:0:39,45:1363,1562:-237.831,-126.961,-115.221,-110.859,0,-97.3127 1/2:75:0,50,25:0:0:50,25:1751,883:-214.732,-72.2617,-57.2102,-142.823,0,-135.297 1/1:96:0,94,2:0:0:94,2:3292,72:-296.127,-28.2968,0,-290.252,-22.0622,-289.65 1/1:48:0,48,0:0:0:48,0:1634,0:-147.336,-14.4494,0,-147.336,-14.4494,-147.336 chr04 27282804 . ATT GTA,ATA 48033.5 PASS AB=0.59271,0.40412;ABP=50.1185,53.3947;AC=35,7;AF=0.833333,0.166667;AN=42;AO=1583,260;CIGAR=1X1M1X,2M1X;DP=1850;DPB=1850;DPRA=0,1.08123;EPP=3319.92,541.836;EPPR=7.35324;GTI=0;LEN=3,1;MEANALT=1.7619,2.27273;MQM=47.5003,56.4577;MQMR=60;NS=21;NUMALT=2;ODDS=17.3292;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55847,9269;QR=72;RO=2;RPL=829,132;RPP=10.7264,3.14393;RPPR=7.35324;RPR=754,128;RUN=1,1;SAF=843,135;SAP=17.5631,3.84548;SAR=740,125;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:1,31,38:1:36:31,38:1094,1332:-190.494,-105.412,-99.0178,-82.43,0,-73.9289 1/2:65:0,38,27:0:0:38,27:1310,956:-171.352,-78.138,-66.6989,-93.5481,0,-85.4203 1/1:53:0,51,1:0:0:51,1:1820,36:-154.966,-15.3525,0,-152.028,-12.37,-151.727 1/1:86:0,86,0:0:0:86,0:3055,0:-262.556,-25.8886,0,-262.556,-25.8886,-262.556 1/1:140:1,138,1:1:36:138,1:4835,36:-414.622,-38.6046,0,-411.987,-38.6072,-414.624 1/1:93:0,91,1:0:0:91,1:3206,36:-262.384,-27.3937,0,-259.454,-24.4301,-259.153 1/2:134:0,82,52:0:0:82,52:2886,1852:-366.749,-150.866,-126.181,-216.227,0,-200.573 1/2:69:0,44,25:0:0:44,25:1550,900:-191.98,-73.4555,-60.2102,-118.873,0,-111.348 1/1:178:0,178,0:0:0:178,0:6282,0:-541.748,-53.5833,0,-541.748,-53.5833,-541.748 1/1:8:0,8,0:0:0:8,0:285,0:-24.0094,-2.40824,0,-24.0094,-2.40824,-24.0094 1/1:4:0,4,0:0:0:4,0:142,0:-10.6957,-1.20412,0,-10.6957,-1.20412,-10.6957 1/2:27:0,17,10:0:0:17,10:610,360:-74.546,-29.7036,-24.5861,-45.1897,0,-42.1794 1/1:108:0,108,0:0:0:108,0:3798,0:-319.03,-32.5112,0,-319.03,-32.5112,-319.03 1/1:104:0,103,0:0:0:103,0:3599,0:-310.406,-31.0061,0,-310.406,-31.0061,-310.406 1/1:87:0,87,0:0:0:87,0:3067,0:-265.894,-26.1896,0,-265.894,-26.1896,-265.894 1/1:88:0,86,2:0:0:86,2:3053,72:-262.293,-25.8886,0,-256.42,-19.6558,-255.818 1/1:65:0,65,0:0:0:65,0:2290,0:-195.91,-19.567,0,-195.91,-19.567,-195.91 1/2:138:0,71,66:0:0:71,66:2509,2374:-373.487,-193.062,-171.689,-180.536,0,-160.668 1/2:128:0,91,37:0:0:91,37:3242,1315:-352.308,-107.371,-79.9773,-245.285,0,-234.147 1/1:89:0,89,0:0:0:89,0:3155,0:-265.931,-26.7917,0,-265.931,-26.7917,-265.931 1/1:116:0,115,0:0:0:115,0:4059,0:-328.071,-34.6185,0,-328.071,-34.6185,-328.071 chr04 27282837 . CACAGC TTTAGT,TGCAGT 15149.5 PASS AB=0.60443,0.389241;ABP=32.9436,36.6819;AC=35,7;AF=0.833333,0.166667;AN=42;AO=725,127;CIGAR=3X2M1X,2X3M1X;DP=859;DPB=859.167;DPRA=0,1.21593;EPP=1577.33,278.787;EPPR=5.18177;GTI=0;LEN=6,6;MEANALT=1.7619,2.4;MQM=32.72,52.5512;MQMR=60;NS=21;NUMALT=2;ODDS=10.0841;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=25727,4496;QR=34;RO=1;RPL=725,127;RPP=1577.33,278.787;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1577.33,278.787;SAR=725,127;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:24:0,10,13:0:0:10,13:356,456:-62.4757,-37.0717,-34.0614,-25.3787,0,-21.4653 1/2:33:0,22,11:0:0:22,11:782,392:-81.8983,-32.2242,-25.6015,-50.0059,0,-46.6946 1/1:24:0,24,0:0:0:24,0:858,0:-68.6821,-7.22472,0,-68.6821,-7.22472,-68.6821 1/1:35:0,35,0:0:0:35,0:1227,0:-97.317,-10.5361,0,-97.317,-10.5361,-97.317 1/1:50:1,48,1:1:34:48,1:1692,36:-130.895,-11.7013,0,-128.26,-11.5045,-130.718 1/1:40:0,38,1:0:0:38,1:1347,36:-93.3227,-11.4391,0,-90.3913,-8.49978,-90.0903 1/2:53:0,31,22:0:0:31,22:1108,765:-132.646,-61.9252,-52.5933,-71.0417,0,-64.419 1/2:24:0,18,6:0:0:18,6:630,216:-60.1685,-17.6407,-12.2222,-42.8671,0,-41.0609 1/1:88:0,87,0:0:0:87,0:3074,0:-253.783,-26.1896,0,-253.783,-26.1896,-253.783 1/1:4:0,4,0:0:0:4,0:144,0:-11.3018,-1.20412,0,-11.3018,-1.20412,-11.3018 1/1:4:0,4,0:0:0:4,0:144,0:-10.7402,-1.20412,0,-10.7402,-1.20412,-10.7402 1/2:15:0,10,5:0:0:10,5:360,168:-38.387,-13.9264,-10.9161,-24.786,0,-23.2808 1/1:62:0,62,0:0:0:62,0:2196,0:-175.246,-18.6639,0,-175.246,-18.6639,-175.246 1/1:38:0,38,0:0:0:38,0:1355,0:-107.943,-11.4391,0,-107.943,-11.4391,-107.943 1/1:25:0,25,0:0:0:25,0:881,0:-68.9683,-7.52575,0,-68.9683,-7.52575,-68.9683 1/1:45:0,42,2:0:0:42,2:1506,72:-122.975,-12.6433,0,-117.1,-6.76616,-116.498 1/1:32:0,32,0:0:0:32,0:1136,0:-91.6032,-9.63296,0,-91.6032,-9.63296,-91.6032 1/2:98:0,50,48:0:0:50,48:1778,1716:-258.796,-139.479,-124.427,-119.645,0,-105.195 1/2:69:0,50,18:0:0:50,18:1772,639:-177.471,-51.9828,-36.9313,-125.549,0,-120.13 1/1:37:0,37,0:0:0:37,0:1319,0:-100.517,-11.1381,0,-100.517,-11.1381,-100.517 1/1:59:0,58,0:0:0:58,0:2062,0:-149.307,-17.4597,0,-149.307,-17.4597,-149.307 chr04 27320452 . GACGT GGCGG,GGCGC 47952.2 PASS AB=0.497626,0.496676;ABP=3.06185,3.11135;AC=35,7;AF=0.833333,0.166667;AN=42;AO=1382,531;CIGAR=1M1X2M1X,1M1X2M1X;DP=1929;DPB=1929;DPRA=0,2.99806;EPP=630.607,565.88;EPPR=0;GTI=1;LEN=5,5;MEANALT=2.2381,2.91667;MQM=59.9349,59.9623;MQMR=0;NS=21;NUMALT=2;ODDS=0.324836;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48011,18603;QR=0;RO=0;RPL=3,4;RPP=2977.98,1121.58;RPPR=0;RPR=1379,527;RUN=1,1;SAF=1010,455;SAP=642.58,590.416;SAR=372,76;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:40:0,16,24:0:0:16,24:556,816:-111.734,-66.5274,-61.711,-45.5508,0,-38.3261 1/2:30:0,14,15:0:0:14,15:486,522:-81.9382,-42.4322,-38.2178,-39.4948,0,-34.9793 1/1:22:0,22,0:0:0:22,0:758,0:-68.5365,-6.62266,0,-68.5365,-6.62266,-68.5365 1/1:57:0,56,1:0:0:56,1:1913,36:-172.084,-16.8577,0,-169.147,-13.5604,-168.846 1/1:72:0,70,2:0:0:70,2:2395,72:-215.447,-21.0721,0,-209.572,-14.8374,-208.97 1/1:37:0,37,0:0:0:37,0:1280,0:-115.499,-11.1381,0,-115.499,-11.1381,-115.499 1/2:44:0,24,20:0:0:24,20:838,714:-126.726,-58.5668,-51.342,-68.5122,0,-62.4916 1/2:105:0,41,61:0:0:41,61:1416,2107:-286.261,-171.214,-158.872,-115.082,0,-96.7191 1/1:76:0,74,0:0:0:74,0:2600,0:-233.98,-22.2762,0,-233.98,-22.2762,-233.98 1/1:146:0,142,3:0:0:142,3:4967,106:-446.824,-42.7463,0,-438.191,-34.1184,-437.288 1/1:153:0,148,1:0:0:148,1:5112,36:-459.879,-44.5524,0,-456.941,-41.612,-456.64 1/2:175:0,95,80:0:0:95,80:3364,2810:-503.085,-229.058,-200.46,-274.379,0,-250.297 1/1:62:0,60,1:0:0:60,1:2056,36:-184.948,-18.0618,0,-182.011,-15.1244,-181.71 1/1:57:0,57,0:0:0:57,0:1963,0:-176.942,-17.1587,0,-176.942,-17.1587,-176.942 1/1:48:0,47,0:0:0:47,0:1602,0:-144.097,-14.1484,0,-144.097,-14.1484,-144.097 1/1:32:0,32,0:0:0:32,0:1118,0:-100.926,-9.63296,0,-100.926,-9.63296,-100.926 1/1:26:0,26,0:0:0:26,0:915,0:-82.2945,-7.82678,0,-82.2945,-7.82678,-82.2945 1/2:591:0,297,292:0:0:297,292:10370,10258:-1678.42,-834.932,-745.527,-843.511,0,-755.611 1/2:68:0,37,31:0:0:37,31:1294,1090:-194.349,-89.0775,-77.9394,-105.622,0,-96.2902 1/1:26:0,26,0:0:0:26,0:891,0:-80.4999,-7.82678,0,-80.4999,-7.82678,-80.4999 1/1:62:0,61,0:0:0:61,0:2117,0:-190.525,-18.3628,0,-190.525,-18.3628,-190.525 chr04 27324485 . TC TT,CT 67155.7 PASS AB=0.529613,0.465831;ABP=9.69784,11.9138;AC=35,7;AF=0.833333,0.166667;AN=42;AO=2656,417;CIGAR=1M1X,2X;DP=3079;DPB=3079;DPRA=0,1.03224;EPP=5770.44,908.514;EPPR=7.35324;GTI=0;LEN=1,2;MEANALT=1.7619,2.23077;MQM=59.8965,58.5995;MQMR=60;NS=21;NUMALT=2;ODDS=29.9485;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=94617,14156;QR=72;RO=2;RPL=2655,417;RPP=5761.76,908.514;RPPR=7.35324;RPR=1,0;RUN=1,1;SAF=2655,417;SAP=5761.76,908.514;SAR=1,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:167:0,90,76:0:0:90,76:3221,2604:-473.605,-210.947,-183.854,-262.756,0,-239.877 1/2:137:0,74,63:0:0:74,63:2593,2132:-384.096,-173.1,-150.824,-211.34,0,-192.375 1/1:219:0,219,0:0:0:219,0:7836,0:-705.263,-65.9256,0,-705.263,-65.9256,-705.263 1/1:255:1,252,2:1:36:252,2:8966,54:-803.376,-72.8922,0,-799.421,-71.6628,-801.757 1/1:200:0,200,0:0:0:200,0:7134,0:-642.113,-60.206,0,-642.113,-60.206,-642.113 1/1:120:1,118,1:1:36:118,1:4220,36:-376.381,-32.5841,0,-373.745,-32.5841,-376.381 1/2:156:0,84,72:0:0:84,72:2968,2435:-438.63,-196.912,-171.625,-242.063,0,-220.389 1/2:154:0,82,70:0:0:82,70:2905,2375:-429.251,-192.597,-167.912,-236.766,0,-215.693 1/1:257:0,256,1:0:0:256,1:9143,36:-822.377,-77.0637,0,-819.44,-73.7674,-819.139 1/1:23:0,23,0:0:0:23,0:816,0:-73.7604,-6.92369,0,-73.7604,-6.92369,-73.7604 1/1:7:0,7,0:0:0:7,0:252,0:-23.028,-2.10721,0,-23.028,-2.10721,-23.028 1/2:49:0,25,24:0:0:25,24:887,820:-139.16,-66.8854,-59.3597,-72.6224,0,-65.3976 1/1:264:0,264,0:0:0:264,0:9397,0:-845.676,-79.4719,0,-845.676,-79.4719,-845.676 1/1:228:0,228,0:0:0:228,0:8139,0:-732.519,-68.6348,0,-732.519,-68.6348,-732.519 1/1:209:0,207,2:0:0:207,2:7375,56:-663.46,-62.3132,0,-659.024,-57.5961,-658.422 1/1:112:0,111,1:0:0:111,1:3977,36:-357.751,-33.4143,0,-354.814,-30.1181,-354.513 1/1:148:0,148,0:0:0:148,0:5285,0:-475.773,-44.5524,0,-475.773,-44.5524,-475.773 1/2:120:0,45,74:0:0:45,74:1588,2546:-336.054,-206.744,-193.198,-129.3,0,-107.024 1/2:95:0,65,30:0:0:65,30:2302,990:-267.129,-79.5915,-60.0245,-187.874,0,-178.843 1/1:98:0,97,1:0:0:97,1:3441,36:-309.535,-29.1999,0,-306.597,-25.9027,-306.296 1/1:61:0,61,0:0:0:61,0:2172,0:-195.745,-18.3628,0,-195.745,-18.3628,-195.745 chr04 27324562 . T G 6372.2 PASS AB=0.454649;ABP=18.767;AC=8;AF=0.190476;AN=42;AO=406;CIGAR=1X;DP=3165;DPB=3165;DPRA=0.645351;EPP=884.628;EPPR=5985.42;GTI=1;LEN=1;MEANALT=1.18182;MQM=60;MQMR=59.9971;NS=21;NUMALT=1;ODDS=17.5721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14477;QR=98195;RO=2755;RPL=406;RPP=884.628;RPPR=5985.42;RPR=0;RUN=1;SAF=0;SAP=884.628;SAR=406;SRF=0;SRP=5985.42;SRR=2755;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:73,64:73:2600:64:2266:-162.962,0,-193.008 0/1:130:48,82:48:1728:82:2916:-223.541,0,-116.671 0/0:157:157,0:157:5608:0:0:0,-47.2617,-504.844 0/0:156:156,0:156:5541:0:0:0,-46.9607,-498.818 0/0:189:187,1:187:6650:1:36:0,-53.3552,-594.982 0/0:251:251,0:251:8945:0:0:0,-75.5585,-805.036 0/1:183:103,80:103:3685:80:2860:-202.549,0,-276.763 0/1:173:93,80:93:3344:80:2862:-205.739,0,-249.098 0/0:307:307,0:307:10960:0:0:0,-92.4162,-986.294 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:27:17,10:17:589:10:356:-24.2534,0,-45.2055 0/0:137:134,3:134:4804:3:108:0,-31.1659,-422.432 0/0:115:114,0:114:4038:0:0:0,-34.3174,-363.249 0/0:576:576,0:576:20504:0:0:0,-173.393,-1844.86 0/0:106:105,1:105:3700:1:36:0,-28.3109,-329.602 0/0:114:114,0:114:4076:0:0:0,-34.3174,-367.027 0/1:119:63,55:63:2260:55:1961:-140.921,0,-167.821 0/1:109:80,29:80:2856:29:1040:-61.1021,0,-224.466 0/0:108:107,0:107:3810:0:0:0,-32.2102,-342.736 0/0:52:52,0:52:1853:0:0:0,-15.6536,-167.048 chr04 27325152 . A T 10057.2 PASS AB=0.545912;ABP=17.566;AC=7;AF=0.166667;AN=42;AO=450;CIGAR=1X;DP=2121;DPB=2121;DPRA=1.10835;EPP=980.173;EPPR=3596.88;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9976;NS=21;NUMALT=1;ODDS=1.94254;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16072;QR=58940;RO=1671;RPL=233;RPP=4.24563;RPPR=58.6928;RPR=217;RUN=1;SAF=233;SAP=4.24563;SAR=217;SRF=941;SRP=60.8656;SRR=730;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:68,102:68:2385:102:3623:-275.097,0,-163.733 0/1:135:54,81:54:1912:81:2904:-220.956,0,-131.719 0/0:92:90,2:90:3161:2:72:0,-20.858,-277.881 0/0:107:107,0:107:3778:0:0:0,-32.2102,-340.22 0/0:129:122,7:122:4300:7:252:0,-15.8039,-364.15 0/0:74:74,0:74:2602:0:0:0,-22.2762,-234.427 0/1:142:67,75:67:2355:75:2687:-199.328,0,-169.464 0/1:111:51,60:51:1796:60:2140:-159.454,0,-128.508 0/0:205:205,0:205:7162:0:0:0,-61.7111,-644.655 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:36:17,19:17:593:19:684:-51.0532,0,-42.8576 0/0:128:128,0:128:4528:0:0:0,-38.5318,-407.693 0/0:147:147,0:147:5209:0:0:0,-44.2514,-468.953 0/0:106:106,0:106:3706:0:0:0,-31.9092,-333.747 0/0:72:71,1:71:2528:1:36:0,-18.0759,-224.174 0/0:62:62,0:62:2208:0:0:0,-18.6639,-198.985 0/1:84:40,44:40:1420:44:1567:-116.034,0,-102.811 0/1:117:64,53:64:2274:53:1895:-135.607,0,-169.698 0/0:76:71,5:71:2508:5:180:0,-6.32621,-209.422 0/0:101:100,1:100:3551:1:32:0,-27.2047,-316.601 chr04 27325171 . C A 9469.44 PASS AB=0.531486;ABP=9.84743;AC=7;AF=0.166667;AN=42;AO=438;CIGAR=1X;DP=2131;DPB=2131;DPRA=1.11276;EPP=4.27947;EPPR=68.0196;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9965;NS=21;NUMALT=1;ODDS=0.453555;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15356;QR=60093;RO=1691;RPL=437;RPP=945.449;RPPR=3666.29;RPR=1;RUN=1;SAF=228;SAP=4.61659;SAR=210;SRF=957;SRP=66.8691;SRR=734;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:70,100:70:2491:100:3464:-260.805,0,-173.268 0/1:136:59,77:59:2086:77:2707:-202.936,0,-147.067 0/0:94:92,2:92:3261:2:72:0,-21.4601,-286.872 0/0:110:108,0:108:3859:0:0:0,-32.5112,-347.156 0/0:129:123,6:123:4328:6:208:0,-19.7738,-370.637 0/0:74:74,0:74:2629:0:0:0,-22.2762,-236.856 0/1:140:67,73:67:2404:73:2541:-186.799,0,-174.472 0/1:110:51,59:51:1813:59:2076:-153.998,0,-130.336 0/0:212:212,0:212:7492:0:0:0,-63.8184,-674.328 0/0:19:19,0:19:671:0:0:0,-5.71957,-60.7158 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:36:17,19:17:612:19:676:-50.3309,0,-44.5764 0/0:130:130,0:130:4642:0:0:0,-39.1339,-417.942 0/0:148:148,0:148:5256:0:0:0,-44.5524,-473.179 0/0:107:105,2:105:3733:2:72:0,-25.3735,-329.334 0/0:72:71,1:71:2527:1:36:0,-18.0759,-224.083 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.947 0/1:81:41,40:41:1464:40:1416:-103.354,0,-107.673 0/1:121:67,54:67:2395:54:1912:-135.933,0,-179.382 0/0:77:72,5:72:2560:5:176:0,-6.99429,-214.463 0/0:99:99,0:99:3506:0:0:0,-29.802,-315.752 chr04 27356346 . C G 15333.3 PASS AB=0.384196;ABP=45.7593;AC=35;AF=0.833333;AN=42;AO=760;CIGAR=1X;DP=996;DPB=996;DPRA=0;EPP=1653.33;EPPR=508.963;GTI=1;LEN=1;MEANALT=1.14286;MQM=53.9987;MQMR=59.5365;NS=21;NUMALT=1;ODDS=2.52156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26346;QR=8221;RO=233;RPL=0;RPP=1653.33;RPPR=500.315;RPR=760;RUN=1;SAF=0;SAP=1653.33;SAR=760;SRF=1;SRP=500.315;SRR=232;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:48,13:48:1687:13:444:-21.4075,0,-133.747 0/1:25:19,6:19:676:6:216:-11.9929,0,-53.6259 1/1:67:0,66:0:0:66:2279:-204.828,-19.868,0 1/1:54:0,54:0:0:54:1916:-172.177,-16.2556,0 1/1:60:5,55:5:176:55:1896:-154.328,-1.9671,0 1/1:32:0,32:0:0:32:1123:-100.762,-9.63296,0 0/1:80:55,24:55:1941:24:840:-51.3433,0,-150.813 0/1:60:39,21:39:1395:21:740:-48.709,0,-107.772 1/1:90:0,90:0:0:90:3139:-282.313,-27.0927,0 1/1:4:0,4:0:0:4:140:-12.872,-1.20412,0 1/1:10:0,10:0:0:10:352:-31.7622,-3.0103,0 0/1:18:11,7:11:396:7:219:-14.446,0,-30.5416 1/1:79:0,79:0:0:79:2731:-245.398,-23.7814,0 1/1:58:0,58:0:0:58:1973:-176.408,-17.4597,0 1/1:68:0,68:0:0:68:2372:-213.377,-20.47,0 1/1:13:0,13:0:0:13:443:-40.0733,-3.91339,0 1/1:8:0,8:0:0:8:279:-25.441,-2.40824,0 0/1:83:37,46:37:1266:46:1598:-118.744,0,-89.2451 0/1:40:16,24:16:576:24:793:-59.484,0,-40.1291 1/1:34:3,31:3:108:31:1086:-86.8323,-0.15985,0 1/1:52:0,51:0:0:51:1767:-158.074,-15.3525,0 chr04 27356350 . 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A G 7257.58 PASS AB=0.495349;ABP=3.1719;AC=8;AF=0.190476;AN=42;AO=430;CIGAR=1X;DP=2380;DPB=2380;DPRA=1.14144;EPP=910.868;EPPR=4140.11;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9953;MQMR=59.9769;NS=21;NUMALT=1;ODDS=16.0804;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15349;QR=69683;RO=1945;RPL=3;RPP=910.868;RPPR=4140.11;RPR=427;RUN=1;SAF=430;SAP=936.743;SAR=0;SRF=1945;SRP=4226.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:78,88:78:2796:88:3106:-229.437,0,-201.549 0/1:116:54,62:54:1932:62:2232:-166.224,0,-139.237 0/0:124:124,0:124:4452:0:0:0,-37.3277,-400.849 0/0:110:110,0:110:3948:0:0:0,-33.1133,-355.511 0/0:243:240,3:240:8593:3:104:0,-63.4475,-763.532 0/0:68:67,0:67:2391:0:0:0,-20.169,-215.146 0/1:139:58,81:58:2088:81:2904:-219.752,0,-146.347 0/1:73:35,37:35:1256:37:1328:-97.7883,0,-91.3113 0/0:216:216,0:216:7744:0:0:0,-65.0225,-696.99 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:26:9,17:9:320:17:612:-47.5867,0,-21.3156 0/0:109:108,1:108:3868:1:36:0,-29.214,-344.717 0/1:163:94,69:94:3364:69:2456:-172.225,0,-253.909 0/0:235:233,0:233:8306:0:0:0,-70.14,-747.225 0/0:100:100,0:100:3584:0:0:0,-30.103,-322.767 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.624 0/1:84:32,52:32:1148:52:1860:-142.393,0,-78.3433 0/1:92:72,20:72:2588:20:711:-36.6209,0,-205.473 0/0:141:141,0:141:5053:0:0:0,-42.4452,-454.686 0/0:69:69,0:69:2484:0:0:0,-20.7711,-223.813 chr04 27452909 . 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CCTAC TCTAC,TCTAT 26467.5 PASS AB=0.436559,0.556989;ABP=19.266,16.1279;AC=34,8;AF=0.809524,0.190476;AN=42;AO=953,260;CIGAR=1X4M,1X3M1X;DP=1220;DPB=1220.2;DPRA=0,1.57143;EPP=2072.42,567.593;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=1.71429,2.44444;MQM=59.9475,59.8923;MQMR=60;NS=21;NUMALT=2;ODDS=5.44284;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=34126,9197;QR=36;RO=1;RPL=0,0;RPP=2072.42,567.593;RPPR=5.18177;RPR=953,260;RUN=1,1;SAF=953,260;SAP=2072.42,567.593;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:64:0,18,45:0:0:18,45:640,1599:-182.449,-130.293,-124.875,-52.1512,0,-38.6048 1/2:32:0,9,23:0:0:9,23:324,817:-93.3664,-66.9283,-64.2191,-26.7966,0,-19.8729 1/1:36:0,36,0:0:0:36,0:1280,0:-115.503,-10.8371,0,-115.503,-10.8371,-115.503 1/1:73:0,72,0:0:0:72,0:2576,0:-231.73,-21.6742,0,-231.73,-21.6742,-231.73 1/1:195:0,192,1:0:0:192,1:6884,36:-619.294,-57.7978,0,-616.356,-54.8454,-616.055 1/1:48:0,48,0:0:0:48,0:1701,0:-153.374,-14.4494,0,-153.374,-14.4494,-153.374 1/2:97:0,42,55:0:0:42,55:1508,1948:-281.694,-158.68,-146.036,-123.012,0,-106.455 1/2:42:0,12,30:0:0:12,30:424,1053:-120.566,-86.0347,-82.4223,-34.8841,0,-25.8532 1/1:92:0,91,0:0:0:91,0:3268,0:-294.128,-27.3937,0,-294.128,-27.3937,-294.128 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:33:0,20,13:0:0:20,13:716,462:-96.3937,-38.0028,-31.9822,-58.7471,0,-54.8337 1/1:86:0,86,0:0:0:86,0:3081,0:-277.516,-25.8886,0,-277.516,-25.8886,-277.516 1/2:80:0,32,48:0:0:32,48:1140,1682:-229.843,-137.192,-127.559,-93.0044,0,-78.5549 1/1:47:0,47,0:0:0:47,0:1688,0:-152.207,-14.1484,0,-152.207,-14.1484,-152.207 1/1:31:0,31,0:0:0:31,0:1116,0:-100.752,-9.33193,0,-100.752,-9.33193,-100.752 1/1:16:0,16,0:0:0:16,0:572,0:-51.8134,-4.81648,0,-51.8134,-4.81648,-51.8134 1/2:71:0,38,32:0:0:38,32:1360,1143:-204.079,-93.1866,-81.7474,-110.89,0,-101.257 1/2:46:1,32,13:1:36:32,13:1152,457:-127.955,-34.2528,-27.5579,-91.0599,0,-90.084 1/1:64:0,64,0:0:0:64,0:2292,0:-206.541,-19.2659,0,-206.541,-19.2659,-206.541 1/1:51:0,51,0:0:0:51,0:1828,0:-164.801,-15.3525,0,-164.801,-15.3525,-164.801 chr04 27493020 . G A 3265.72 PASS AB=0.368106;ABP=129.029;AC=8;AF=0.190476;AN=42;AO=309;CIGAR=1X;DP=2156;DPB=2156;DPRA=1.07778;EPP=673.995;EPPR=3.99904;GTI=1;LEN=1;MEANALT=1;MQM=34.0971;MQMR=35.0076;NS=21;NUMALT=1;ODDS=12.2075;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10950;QR=65662;RO=1847;RPL=0;RPP=673.995;RPPR=3910.17;RPR=309;RUN=1;SAF=0;SAP=673.995;SAR=309;SRF=950;SRP=6.31277;SRR=897;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:48,28:48:1705:28:991:-56.18,0,-109.91 0/1:84:43,41:43:1540:41:1468:-93.5051,0,-97.7652 0/0:93:92,1:92:3264:1:36:0,-24.8082,-255.113 0/0:94:94,0:94:3320:0:0:0,-28.2968,-265.015 0/0:198:198,0:198:7010:0:0:0,-59.6039,-551.104 0/0:88:88,0:88:3144:0:0:0,-26.4906,-245.913 0/1:152:113,39:113:4036:39:1392:-67.7952,0,-267.35 0/1:126:74,52:74:2590:52:1832:-109.75,0,-177.388 0/0:214:214,0:214:7619:0:0:0,-64.4204,-587.723 0/0:34:34,0:34:1200:0:0:0,-10.235,-97.5101 0/0:6:6,0:6:216:0:0:0,-1.80618,-16.8541 0/1:19:9,10:9:324:10:341:-22.5597,0,-20.9773 0/0:118:118,0:118:4199:0:0:0,-35.5215,-331.534 0/1:116:68,48:68:2403:48:1700:-100.359,0,-156.667 0/0:153:153,0:153:5454:0:0:0,-46.0576,-438.53 0/0:57:57,0:57:2040:0:0:0,-17.1587,-162.332 0/0:56:56,0:56:1979:0:0:0,-16.8577,-163.2 0/1:173:98,75:98:3486:75:2659:-158.266,0,-234.07 0/1:88:74,14:74:2605:14:495:-12.9078,0,-180.771 0/0:71:71,0:71:2540:0:0:0,-21.3731,-194.134 0/0:140:139,1:139:4988:1:36:0,-38.898,-382.9 chr04 27555543 . G T 9650.38 PASS AB=0.517841;ABP=6.03208;AC=9;AF=0.214286;AN=42;AO=574;CIGAR=1X;DP=2649;DPB=2649;DPRA=0.982805;EPP=1223.51;EPPR=4396.61;GTI=0;LEN=1;MEANALT=1;MQM=59.8833;MQMR=59.8969;NS=21;NUMALT=1;ODDS=9.50981;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20385;QR=74149;RO=2075;RPL=571;RPP=1223.51;RPPR=4396.61;RPR=3;RUN=1;SAF=574;SAP=1249.44;SAR=0;SRF=2075;SRP=4508.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:47,41:47:1664:41:1460:-105.16,0,-123.327 0/1:76:26,50:26:921:50:1792:-138.684,0,-60.3269 0/1:161:71,90:71:2540:90:3212:-240.838,0,-180.385 0/0:132:132,0:132:4723:0:0:0,-39.736,-425.034 0/0:291:288,3:288:10311:3:108:0,-77.5246,-917.179 0/0:110:109,1:109:3908:1:36:0,-29.515,-348.315 0/1:201:105,96:105:3768:96:3380:-243.909,0,-278.794 0/1:107:49,58:49:1756:58:2052:-152.739,0,-126.114 0/0:216:216,0:216:7722:0:0:0,-65.0225,-694.963 0/0:13:12,1:12:428:1:36:0,-0.315115,-35.2605 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:39:13,26:13:468:26:920:-71.3769,0,-30.7195 0/0:207:207,0:207:7415:0:0:0,-62.3132,-667.395 0/1:174:75,99:75:2679:99:3493:-262.199,0,-188.933 0/0:164:164,0:164:5863:0:0:0,-49.3689,-527.782 0/0:104:104,0:104:3691:0:0:0,-31.3071,-332.389 0/0:119:119,0:119:4264:0:0:0,-35.8226,-383.938 0/1:170:89,81:89:3143:81:2892:-209.306,0,-231.92 0/1:77:52,25:52:1847:25:900:-58.1417,0,-143.33 0/0:122:119,3:119:4255:3:104:0,-27.0229,-373.426 0/0:63:63,0:63:2243:0:0:0,-18.9649,-202.105 chr04 27555558 . T A,C 56741.2 PASS AB=0.492579,0.506494;ABP=3.52597,3.40511;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2072,555;CIGAR=1X,1X;DP=2628;DPB=2628;DPRA=0,0.873041;EPP=4502.3,1208.18;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.66667,2;MQM=59.8866,59.9207;MQMR=60;NS=21;NUMALT=2;ODDS=11.7301;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74048,19390;QR=36;RO=1;RPL=2072,555;RPP=4502.3,1208.18;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=2072,555;SAP=4502.3,1208.18;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:88:0,47,41:0:0:47,41:1686,1450:-255.901,-118.45,-104.301,-137.808,0,-125.465 1/2:76:0,26,50:0:0:26,50:932,1747:-218.476,-142.459,-134.633,-76.3721,0,-61.3206 1/2:163:0,75,88:0:0:75,88:2663,3121:-471.599,-254.626,-232.048,-217.328,0,-190.838 1/1:132:0,132,0:0:0:132,0:4723,0:-425.036,-39.736,0,-425.036,-39.736,-425.036 1/1:288:0,285,3:0:0:285,3:10182,104:-915.847,-85.7936,0,-907.394,-76.9938,-906.491 1/1:107:0,106,1:0:0:106,1:3794,36:-341.297,-31.9092,0,-338.359,-28.6119,-338.058 1/2:196:1,103,92:1:36:103,92:3670,3196:-555.716,-256.874,-228.805,-296.198,0,-271.44 1/2:107:0,50,57:0:0:50,57:1796,2019:-311.337,-164.823,-149.771,-146.871,0,-129.712 1/1:221:0,221,0:0:0:221,0:7883,0:-709.492,-66.5276,0,-709.492,-66.5276,-709.492 1/1:12:0,11,1:0:0:11,1:396,32:-35.6595,-3.31133,0,-33.0845,-0.413047,-32.7834 1/1:15:0,15,0:0:0:15,0:515,0:-46.6728,-4.51545,0,-46.6728,-4.51545,-46.6728 1/2:39:0,15,24:0:0:15,24:525,860:-113.207,-70.4971,-65.9817,-43.0626,0,-35.8379 1/1:203:0,203,0:0:0:203,0:7258,0:-653.271,-61.1091,0,-653.271,-61.1091,-653.271 1/2:167:0,75,92:0:0:75,92:2632,3112:-466.7,-252.606,-230.029,-214.439,0,-186.744 1/1:165:0,165,0:0:0:165,0:5912,0:-532.188,-49.67,0,-532.188,-49.67,-532.188 1/1:101:0,101,0:0:0:101,0:3632,0:-327.081,-30.404,0,-327.081,-30.404,-327.081 1/1:120:0,120,0:0:0:120,0:4302,0:-387.355,-36.1236,0,-387.355,-36.1236,-387.355 1/2:167:0,90,77:0:0:90,77:3224,2686:-481.424,-218.804,-191.712,-262.972,0,-239.793 1/2:75:0,50,25:0:0:50,25:1791,883:-218.327,-72.2617,-57.2102,-146.42,0,-138.895 1/1:121:0,118,3:0:0:118,3:4248,108:-382.137,-35.5215,0,-373.325,-26.3495,-372.421 1/1:65:0,64,1:0:0:64,1:2284,36:-205.458,-19.2659,0,-202.521,-15.9687,-202.22 chr04 27555563 . A G 43492.2 PASS AB=0.480543;ABP=6.64383;AC=33;AF=0.785714;AN=42;AO=2070;CIGAR=1X;DP=2652;DPB=2652;DPRA=0;EPP=4497.96;EPPR=1262.46;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9164;MQMR=59.9241;NS=21;NUMALT=1;ODDS=8.63701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73129;QR=20664;RO=580;RPL=2070;RPP=4497.96;RPPR=1262.46;RPR=0;RUN=1;SAF=2070;SAP=4497.96;SAR=0;SRF=580;SRP=1262.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:43,48:43:1532:48:1676:-123.62,0,-110.777 0/1:80:54,26:54:1906:26:924:-59.3953,0,-147.734 0/1:164:92,72:92:3291:72:2559:-181.192,0,-247.04 1/1:132:0,132:0:0:132:4624:-416.134,-39.736,0 1/1:286:2,284:2:72:284:10014:-894.351,-79.2579,0 1/1:108:1,106:1:36:106:3710:-330.504,-28.9718,0 0/1:199:93,105:93:3316:105:3725:-275.488,0,-238.696 0/1:106:57,49:57:2044:49:1733:-124.343,0,-152.321 1/1:218:0,218:0:0:218:7728:-695.301,-65.6245,0 1/1:13:1,12:1:36:12:404:-33.0834,-0.315115,0 1/1:13:0,13:0:0:13:450:-40.8285,-3.91339,0 0/1:39:26,13:26:936:13:464:-30.3573,0,-72.8193 1/1:204:0,204:0:0:204:7231:-650.85,-61.4101,0 0/1:179:103,76:103:3670:76:2668:-186.389,0,-276.49 1/1:166:0,166:0:0:166:5896:-530.752,-49.971,0 1/1:100:0,100:0:0:100:3588:-323.123,-30.103,0 1/1:118:0,118:0:0:118:4200:-378.181,-35.5215,0 0/1:172:81,91:81:2875:91:3191:-235.636,0,-207.175 0/1:75:24,51:24:846:51:1759:-136.011,0,-53.8805 1/1:122:3,119:3:104:119:4222:-370.457,-27.0229,0 1/1:67:0,67:0:0:67:2363:-212.898,-20.169,0 chr04 27555638 . T A 10748.8 PASS AB=0.501182;ABP=3.0257;AC=9;AF=0.214286;AN=42;AO=641;CIGAR=1X;DP=2628;DPB=2628;DPRA=1.61594;EPP=1394.92;EPPR=4300.37;GTI=1;LEN=1;MEANALT=1;MQM=59.9922;MQMR=60;NS=21;NUMALT=1;ODDS=0.494848;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22933;QR=70833;RO=1987;RPL=641;RPP=1394.92;RPPR=4300.37;RPR=0;RUN=1;SAF=0;SAP=1394.92;SAR=641;SRF=0;SRP=4317.73;SRR=1987;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:83,62:83:2927:62:2214:-155.875,0,-220.013 0/1:146:67,79:67:2392:79:2822:-210.269,0,-171.587 0/1:146:78,68:78:2796:68:2440:-175.905,0,-207.93 0/0:136:135,1:135:4813:1:36:0,-37.3418,-429.727 0/0:207:206,1:206:7364:1:36:0,-58.7149,-659.211 0/0:124:124,0:124:4406:0:0:0,-37.3277,-396.712 0/1:244:104,140:104:3700:140:5016:-378.132,0,-259.753 0/1:139:66,73:66:2348:73:2601:-192.494,0,-169.736 0/0:207:206,1:206:7349:1:36:0,-58.7149,-657.862 0/0:20:19,1:19:672:1:36:0,-2.42232,-57.2086 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:24:11,13:11:377:13:468:-35.2349,0,-27.0332 0/0:142:142,0:142:5084:0:0:0,-42.7463,-457.704 0/1:170:81,89:81:2884:89:3180:-235.249,0,-208.623 0/0:168:167,1:167:5953:1:36:0,-46.9748,-532.281 0/0:114:114,0:114:4050:0:0:0,-34.3174,-364.687 0/0:69:69,0:69:2449:0:0:0,-20.7711,-220.664 0/1:146:70,76:70:2508:76:2720:-201.093,0,-182.022 0/1:109:73,36:73:2605:36:1292:-83.7715,0,-201.884 0/0:92:92,0:92:3304:0:0:0,-27.6948,-297.578 0/0:76:76,0:76:2708:0:0:0,-22.8783,-243.965 chr04 27555692 . C T 26652 PASS AB=0.53831;ABP=9.49912;AC=33;AF=0.785714;AN=42;AO=933;CIGAR=1X;DP=1169;DPB=1169;DPRA=0;EPP=1379.35;EPPR=515.478;GTI=0;LEN=1;MEANALT=1;MQM=59.9914;MQMR=60;NS=21;NUMALT=1;ODDS=10.0145;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33350;QR=8367;RO=236;RPL=452;RPP=4.96765;RPPR=3.15752;RPR=481;RUN=1;SAF=534;SAP=45.4273;SAR=399;SRF=120;SRP=3.15752;SRR=116;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:24,28:24:856:28:1008:-75.3828,0,-61.7075 0/1:30:12,18:12:423:18:644:-49.2597,0,-29.3742 0/1:23:10,13:10:356:13:468:-35.536,0,-25.4576 1/1:52:0,52:0:0:52:1868:-168.399,-15.6536,0 1/1:82:0,82:0:0:82:2907:-261.865,-24.6845,0 1/1:41:0,41:0:0:41:1459:-131.605,-12.3422,0 0/1:65:29,36:29:1017:36:1292:-97.0168,0,-72.2729 0/1:43:20,23:20:716:23:816:-60.8174,0,-51.8234 1/1:94:0,94:0:0:94:3355:-302.167,-28.2968,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:17:8,9:8:288:9:324:-24.3883,0,-21.1499 1/1:90:0,90:0:0:90:3232:-291.101,-27.0927,0 0/1:67:37,30:37:1289:30:1072:-76.6234,0,-96.1396 1/1:55:0,55:0:0:55:1952:-175.953,-16.5567,0 1/1:50:0,50:0:0:50:1800:-162.282,-15.0515,0 1/1:25:0,25:0:0:25:892:-80.5997,-7.52575,0 0/1:109:57,52:57:2031:52:1853:-134.236,0,-150.25 0/1:103:38,65:38:1355:65:2325:-178.503,0,-91.2436 1/1:51:0,51:0:0:51:1815:-163.631,-15.3525,0 1/1:105:1,104:1:36:104:3728:-332.119,-28.0099,0 chr04 27555722 . A G 5123.56 PASS AB=0.467871;ABP=7.47534;AC=9;AF=0.214286;AN=42;AO=234;CIGAR=1X;DP=1137;DPB=1137;DPRA=1.24653;EPP=3.04742;EPPR=28.5221;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9911;NS=21;NUMALT=1;ODDS=9.30211;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8354;QR=32192;RO=903;RPL=234;RPP=511.135;RPPR=1963.85;RPR=0;RUN=1;SAF=116;SAP=3.04742;SAR=118;SRF=503;SRP=28.5221;SRR=400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:26,24:26:936:24:852:-61.9483,0,-69.508 0/1:28:16,12:16:576:12:428:-30.43,0,-43.7461 0/1:22:11,11:11:392:11:392:-28.9974,0,-28.9974 0/0:48:48,0:48:1708:0:0:0,-14.4494,-154.006 0/0:81:81,0:81:2888:0:0:0,-24.3834,-260.157 0/0:41:41,0:41:1467:0:0:0,-12.3422,-132.325 0/1:63:35,28:35:1248:28:988:-70.269,0,-93.66 0/1:42:22,20:22:769:20:716:-52.1245,0,-56.8853 0/0:88:88,0:88:3136:0:0:0,-26.4906,-282.467 0/0:5:5,0:5:165:0:0:0,-1.50515,-15.1736 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:18:10,8:10:356:8:288:-20.8489,0,-26.9627 0/0:86:86,0:86:3068:0:0:0,-25.8886,-276.35 0/1:63:28,35:28:1008:35:1247:-93.5692,0,-72.0715 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.755 0/0:49:49,0:49:1739:0:0:0,-14.7505,-156.794 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:109:53,56:53:1859:56:2003:-147.731,0,-134.771 0/1:103:64,39:64:2288:39:1404:-95.6532,0,-175.176 0/0:50:50,0:50:1777:0:0:0,-15.0515,-160.211 0/0:106:105,1:105:3768:1:36:0,-28.3109,-335.712 chr04 27604369 . CAAT AAAT,AAAC 72212.5 PASS AB=0.423417,0.572498;ABP=77.8441,70.0747;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2551,855;CIGAR=1X3M,1X2M1X;DP=3418;DPB=3418;DPRA=0,1.37081;EPP=5542.44,1859.62;EPPR=0;GTI=1;LEN=1,4;MEANALT=2.14286,2.53846;MQM=59.7268,59.9228;MQMR=0;NS=21;NUMALT=2;ODDS=0.579655;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=89831,30074;QR=0;RO=0;RPL=0,0;RPP=5542.44,1859.62;RPPR=0;RPR=2551,855;RUN=1,1;SAF=0,0;SAP=5542.44,1859.62;SAR=2551,855;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:326:0,124,200:0:0:124,200:4352,7007:-924.412,-570.24,-532.912,-354.261,0,-294.055 1/2:162:0,79,83:0:0:79,83:2768,2935:-464.626,-239.396,-215.615,-225.581,0,-200.595 1/2:135:0,60,74:0:0:60,74:2115,2593:-383.181,-210.975,-192.914,-172.199,0,-149.923 1/1:184:0,183,0:0:0:183,0:6421,0:-577.688,-55.0885,0,-577.688,-55.0885,-577.688 1/1:394:0,389,5:0:0:389,5:13703,168:-1232.46,-117.101,0,-1218.86,-103.17,-1217.36 1/1:109:0,109,0:0:0:109,0:3876,0:-349.026,-32.8123,0,-349.026,-32.8123,-349.026 1/2:324:0,130,194:0:0:130,194:4577,6848:-930.581,-557.984,-518.85,-372.95,0,-314.55 1/2:207:0,73,132:0:0:73,132:2574,4651:-588.25,-378.715,-356.74,-209.58,0,-169.844 1/1:284:0,282,0:0:0:282,0:9889,0:-889.571,-84.8905,0,-889.571,-84.8905,-889.571 1/1:20:0,20,0:0:0:20,0:720,0:-65.1242,-6.0206,0,-65.1242,-6.0206,-65.1242 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:39:0,18,21:0:0:18,21:618,743:-111.046,-60.8721,-55.4536,-50.5222,0,-44.2006 1/1:236:0,236,0:0:0:236,0:8311,0:-747.871,-71.0431,0,-747.871,-71.0431,-747.871 1/2:155:0,75,79:0:0:75,79:2642,2782:-441.546,-226.467,-203.89,-215.071,0,-191.289 1/1:194:0,192,1:0:0:192,1:6825,36:-613.971,-57.7978,0,-611.034,-54.8054,-610.733 1/1:152:0,151,1:0:0:151,1:5312,36:-477.817,-45.4555,0,-474.88,-42.1583,-474.578 1/1:160:0,158,0:0:0:158,0:5550,0:-499.385,-47.5627,0,-499.385,-47.5627,-499.385 1/2:71:0,26,45:0:0:26,45:914,1576:-202.946,-128.572,-120.745,-74.7249,0,-61.1785 1/2:50:0,37,13:0:0:37,13:1302,452:-143.077,-37.098,-25.9598,-106.328,0,-102.415 1/1:150:0,143,7:0:0:143,7:5049,247:-454.154,-43.0473,0,-434.041,-22.5816,-431.934 1/1:56:0,56,0:0:0:56,0:1953,0:-176.041,-16.8577,0,-176.041,-16.8577,-176.041 chr04 27604395 . T C 55204.5 PASS AB=0.428475;ABP=68.8636;AC=33;AF=0.785714;AN=42;AO=2595;CIGAR=1X;DP=3457;DPB=3457;DPRA=0;EPP=5637.98;EPPR=1857.49;GTI=0;LEN=1;MEANALT=1;MQM=59.7067;MQMR=59.8852;NS=21;NUMALT=1;ODDS=0.142135;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=92942;QR=30816;RO=862;RPL=2595;RPP=5637.98;RPPR=1857.49;RPR=0;RUN=1;SAF=0;SAP=5637.98;SAR=2595;SRF=0;SRP=1874.82;SRR=862;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:331:202,129:202:7207:129:4577:-312.437,0,-548.971 0/1:163:84,79:84:3001:79:2840:-206.77,0,-221.251 0/1:135:74,61:74:2630:61:2188:-156.533,0,-196.281 1/1:184:0,184:0:0:184:6596:-593.678,-55.3895,0 1/1:393:5,388:5:180:388:13898:-1233.73,-101.81,0 1/1:108:0,108:0:0:108:3869:-348.391,-32.5112,0 0/1:327:195,132:195:7000:132:4740:-328.301,0,-531.603 0/1:211:134,77:134:4781:77:2764:-185.435,0,-366.929 1/1:292:0,292:0:0:292:10465:-941.707,-87.9008,0 1/1:20:0,20:0:0:20:720:-65.1242,-6.0206,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:38:21,17:21:752:17:612:-43.9743,0,-56.5671 1/1:238:0,238:0:0:238:8514:-766.152,-71.6451,0 0/1:157:81,76:81:2897:76:2728:-198.481,0,-213.689 1/1:198:1,197:1:36:197:7061:-631.887,-56.0057,0 1/1:154:1,153:1:36:153:5472:-488.974,-42.7603,0 1/1:164:0,164:0:0:164:5870:-527.863,-49.3689,0 0/1:70:44,26:44:1580:26:932:-63.0459,0,-121.419 0/1:50:12,38:12:432:38:1368:-108.356,0,-24.1697 1/1:156:8,148:8:284:148:5295:-450.755,-21.0656,0 1/1:58:0,58:0:0:58:2073:-186.839,-17.4597,0 chr04 27604412 . G A 54412.1 PASS AB=0.430811;ABP=64.0084;AC=33;AF=0.785714;AN=42;AO=2563;CIGAR=1X;DP=3412;DPB=3412;DPRA=0;EPP=5568.49;EPPR=1846.59;GTI=0;LEN=1;MEANALT=1;MQM=59.7007;MQMR=59.9164;NS=21;NUMALT=1;ODDS=0.421768;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91664;QR=30399;RO=849;RPL=2563;RPP=5568.49;RPPR=1846.59;RPR=0;RUN=1;SAF=0;SAP=5568.49;SAR=2563;SRF=0;SRP=1846.59;SRR=849;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:326:198,128:198:7092:128:4585:-314.656,0,-540.046 0/1:163:83,80:83:2980:80:2861:-208.658,0,-219.362 0/1:133:72,61:72:2584:61:2188:-157.135,0,-192.763 1/1:181:0,181:0:0:181:6488:-583.658,-54.4864,0 1/1:385:4,381:4:144:381:13625:-1212.31,-102.583,0 1/1:106:0,106:0:0:106:3759:-338.496,-31.9092,0 0/1:324:193,131:193:6903:131:4677:-323.539,0,-523.783 0/1:208:133,75:133:4760:75:2692:-179.863,0,-365.944 1/1:285:0,285:0:0:285:10217:-919.389,-85.7936,0 1/1:20:0,20:0:0:20:720:-65.1242,-6.0206,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:39:21,18:21:744:18:648:-46.9117,0,-55.5442 1/1:237:0,237:0:0:237:8471:-762.076,-71.3441,0 0/1:155:79,76:79:2832:76:2724:-198.724,0,-208.445 1/1:198:1,197:1:36:197:7068:-632.518,-56.0057,0 1/1:153:2,151:2:72:151:5382:-477.626,-39.2209,0 1/1:160:0,160:0:0:160:5698:-512.89,-48.1648,0 0/1:68:43,25:43:1536:25:896:-60.4098,0,-118.063 0/1:51:13,38:13:468:38:1368:-108.055,0,-27.1071 1/1:153:7,146:7:248:146:5197:-445.159,-23.3934,0 1/1:57:0,57:0:0:57:2040:-183.866,-17.1587,0 chr04 27662886 . T C 8926.03 PASS AB=0.475109;ABP=9.17197;AC=9;AF=0.214286;AN=42;AO=545;CIGAR=1X;DP=2979;DPB=2979;DPRA=1.04879;EPP=1177.79;EPPR=5260.18;GTI=0;LEN=1;MEANALT=1.1;MQM=60;MQMR=59.9914;NS=21;NUMALT=1;ODDS=23.6156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19383;QR=87296;RO=2433;RPL=1;RPP=1177.79;RPPR=5260.18;RPR=544;RUN=1;SAF=545;SAP=1186.46;SAR=0;SRF=2433;SRP=5286.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:68,75:68:2448:75:2675:-197.948,0,-177.527 0/1:179:93,86:93:3331:86:3061:-221.834,0,-246.122 0/1:110:52,58:52:1864:58:2073:-153.727,0,-134.926 0/0:174:174,0:174:6239:0:0:0,-52.3792,-561.603 0/0:307:307,0:307:10997:0:0:0,-92.4162,-989.622 0/0:160:160,0:160:5748:0:0:0,-48.1648,-517.433 0/1:141:81,60:81:2912:60:2126:-149.162,0,-219.869 0/1:165:84,81:84:3024:81:2900:-211.566,0,-222.719 0/0:209:209,0:209:7503:0:0:0,-62.9153,-675.308 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:40:21,19:21:756:19:684:-49.8491,0,-56.326 0/0:309:307,1:307:11011:1:36:0,-89.4039,-987.357 0/1:149:66,83:66:2364:83:2892:-215.663,0,-168.165 0/0:218:218,0:218:7815:0:0:0,-65.6245,-703.377 0/0:75:75,0:75:2692:0:0:0,-22.5772,-242.524 0/0:134:134,0:134:4812:0:0:0,-40.338,-433.076 0/1:93:51,42:51:1824:42:1504:-107.659,0,-136.445 0/1:125:85,40:85:3052:40:1432:-91.5488,0,-237.28 0/0:133:133,0:133:4772:0:0:0,-40.037,-429.636 0/0:71:71,0:71:2552:0:0:0,-21.3731,-229.93 chr04 27663188 . TAGCTTTCA TA 19811.1 PASS AB=0.42707;ABP=38.1676;AC=33;AF=0.785714;AN=42;AO=1047;CIGAR=1M7D1M;DP=1487;DPB=672.667;DPRA=0;EPP=2276.54;EPPR=947.601;GTI=1;LEN=7;MEANALT=1.2381;MQM=57.7011;MQMR=59.9885;NS=21;NUMALT=1;ODDS=2.36075;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35390;QR=14993;RO=435;RPL=1047;RPP=2276.54;RPPR=921.723;RPR=0;RUN=1;SAF=1047;SAP=2276.54;SAR=0;SRF=432;SRP=921.723;SRR=3;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:42,37:42:1450:37:1296:-92.7542,0,-106.653 0/1:85:43,42:43:1510:42:1368:-97.7696,0,-110.605 0/1:123:75,46:75:2604:46:1580:-105.669,0,-197.828 1/1:57:0,57:0:0:57:1887:-169.973,-17.1587,0 1/1:101:0,101:0:0:101:3389:-305.046,-30.404,0 1/1:76:3,73:3:108:73:2534:-218.101,-12.8031,0 0/1:119:67,52:67:2294:52:1703:-117.688,0,-170.901 0/1:144:90,53:90:3125:53:1851:-123.592,0,-238.222 1/1:143:1,142:1:36:142:4789:-427.279,-39.449,0 1/1:11:0,11:0:0:11:367:-33.3291,-3.31133,0 1/1:4:0,4:0:0:4:136:-12.5755,-1.20412,0 0/1:14:10,4:10:344:4:132:-7.99117,0,-27.0777 1/1:81:0,81:0:0:81:2748:-247.51,-24.3834,0 0/1:86:45,41:45:1502:41:1341:-94.9755,0,-109.577 1/1:89:0,89:0:0:89:3020:-271.868,-26.7917,0 1/1:66:0,66:0:0:66:2273:-204.645,-19.868,0 1/1:48:0,48:0:0:48:1632:-147.055,-14.4494,0 0/1:76:47,29:47:1598:29:1008:-68.1251,0,-121.228 0/1:34:12,21:12:422:21:699:-52.8591,0,-28.0219 1/1:35:0,35:0:0:35:1148:-103.599,-10.5361,0 1/1:15:0,15:0:0:15:489:-44.265,-4.51545,0 chr04 27689203 . C T 5247.85 PASS AB=0.471669;ABP=7.56274;AC=9;AF=0.214286;AN=42;AO=313;CIGAR=1X;DP=1612;DPB=1612;DPRA=1.11782;EPP=682.681;EPPR=2806.41;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9954;NS=21;NUMALT=1;ODDS=11.7703;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11077;QR=46173;RO=1299;RPL=304;RPP=606.756;RPPR=1835.49;RPR=9;RUN=1;SAF=304;SAP=606.756;SAR=9;SRF=1175;SRP=1849.52;SRR=124;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:65,62:65:2328:62:2200:-160.032,0,-171.549 0/1:78:52,26:52:1846:26:932:-60.7185,0,-142.938 0/1:71:36,35:36:1288:35:1225:-89.1786,0,-94.8498 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.029 0/0:165:161,4:161:5712:4:144:0,-36.3563,-500.885 0/0:73:73,0:73:2578:0:0:0,-21.9752,-232.267 0/1:155:80,75:80:2823:75:2677:-194.514,0,-207.649 0/1:24:16,8:16:564:8:288:-19.0427,0,-43.8656 0/0:208:208,0:208:7388:0:0:0,-62.6142,-664.97 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:4:4,0:4:136:0:0:0,-1.20412,-12.5755 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1663 0/0:57:57,0:57:2035:0:0:0,-17.1587,-183.422 0/1:85:37,48:37:1324:48:1667:-124.723,0,-93.8745 0/0:95:95,0:95:3378:0:0:0,-28.5978,-304.236 0/0:102:102,0:102:3644:0:0:0,-30.7051,-328.165 0/0:91:91,0:91:3242:0:0:0,-27.3937,-291.999 0/1:58:20,38:20:720:38:1340:-103.44,0,-47.669 0/1:39:28,11:28:979:11:388:-23.5172,0,-76.6819 0/0:71:70,1:70:2481:1:36:0,-17.7749,-219.944 0/0:52:52,0:52:1847:0:0:0,-15.6536,-166.509 chr04 27693340 . TT GC,GG 39709.1 PASS AB=0.599739,0.397653;ABP=69.2841,72.7947;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1574,312;CIGAR=2X,2X;DP=1890;DPB=1890;DPRA=0,0.917647;EPP=3420.91,680.51;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.7619,2.16667;MQM=59.9416,59.9071;MQMR=0;NS=21;NUMALT=2;ODDS=4.67594;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55168,10846;QR=0;RO=0;RPL=1574,312;RPP=3420.91,680.51;RPPR=0;RPR=0,0;RUN=1,1;SAF=1574,312;SAP=3420.91,680.51;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:159:0,71,87:0:0:71,87:2515,2970:-445.966,-241.086,-219.713,-204.976,0,-178.786 1/2:52:0,30,22:0:0:30,22:1041,784:-148.874,-64.2615,-55.2306,-84.9649,0,-78.3422 1/2:95:0,54,41:0:0:54,41:1905,1429:-271.676,-116.559,-100.304,-155.467,0,-143.125 1/1:106:0,104,2:0:0:104,2:3663,72:-329.514,-31.3071,0,-323.639,-25.0725,-323.037 1/1:153:0,153,0:0:0:153,0:5378,0:-483.998,-46.0576,0,-483.998,-46.0576,-483.998 1/1:66:0,66,0:0:0:66,0:2266,0:-204.198,-19.868,0,-204.198,-19.868,-204.198 1/2:113:0,88,25:0:0:88,25:3057,872:-319.79,-71.2681,-44.7775,-248.87,0,-241.344 1/2:112:0,78,34:0:0:78,34:2704,1156:-313.877,-94.0965,-70.6162,-220.122,0,-209.887 1/1:174:0,172,0:0:0:172,0:6026,0:-542.137,-51.7772,0,-542.137,-51.7772,-542.137 1/1:14:0,14,0:0:0:14,0:469,0:-42.528,-4.21442,0,-42.528,-4.21442,-42.528 1/1:14:0,14,0:0:0:14,0:491,0:-44.5218,-4.21442,0,-44.5218,-4.21442,-44.5218 1/2:24:0,17,7:0:0:17,7:587,230:-66.6158,-18.9132,-13.7957,-48.0359,0,-45.9287 1/1:63:0,63,0:0:0:63,0:2204,0:-198.623,-18.9649,0,-198.623,-18.9649,-198.623 1/2:94:0,54,40:0:0:54,40:1833,1410:-263.793,-115.154,-98.8986,-148.985,0,-136.944 1/1:265:0,265,0:0:0:265,0:9329,0:-839.538,-79.773,0,-839.538,-79.773,-839.538 1/1:67:0,67,0:0:0:67,0:2386,0:-214.995,-20.169,0,-214.995,-20.169,-214.995 1/1:88:0,87,1:0:0:87,1:3087,36:-277.699,-26.1896,0,-274.761,-22.8924,-274.46 1/2:71:0,32,39:0:0:32,39:1093,1388:-202.168,-113.479,-103.846,-89.0363,0,-77.2961 1/2:47:0,36,10:0:0:36,10:1283,360:-133.951,-29.3742,-18.5371,-104.576,0,-101.566 1/1:79:0,75,4:0:0:75,4:2664,139:-239.658,-22.5773,0,-228.358,-10.9292,-227.153 1/1:34:0,34,0:0:0:34,0:1187,0:-107.132,-10.235,0,-107.132,-10.235,-107.132 chr04 27693371 . TAAAGTA TAAGTG,TGAGTG 55944.3 PASS AB=0.515717,0.477407;ABP=5.19457,7.52389;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2134,488;CIGAR=1M1D4M1X,1M1D1X3M1X;DP=2638;DPB=2261.57;DPRA=0,0.69827;EPP=4636.93,1062.69;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.28571,2.81818;MQM=59.3838,59.4754;MQMR=0;NS=21;NUMALT=2;ODDS=21.0034;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=75045,17116;QR=0;RO=0;RPL=0,0;RPP=4636.93,1062.69;RPPR=0;RPR=2134,488;RUN=1,1;SAF=0,0;SAP=4636.93,1062.69;SAR=2134,488;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:143:0,83,59:0:0:83,59:2906,2059:-403.953,-167.543,-142.558,-236.517,0,-218.756 1/2:148:0,80,66:0:0:80,66:2839,2315:-419.527,-188.418,-164.336,-231.15,0,-211.282 1/2:158:0,80,77:0:0:80,77:2795,2692:-446.203,-218.957,-194.874,-227.236,0,-204.056 1/1:229:0,228,0:0:0:228,0:8008,0:-720.35,-68.6348,0,-720.35,-68.6348,-720.35 1/1:203:0,202,0:0:0:202,0:7085,0:-637.264,-60.8081,0,-637.264,-60.8081,-637.264 1/1:132:0,130,0:0:0:130,0:4599,0:-413.703,-39.1339,0,-413.703,-39.1339,-413.703 1/2:128:0,49,79:0:0:49,79:1689,2752:-361.211,-224.028,-209.278,-137.529,0,-113.748 1/2:105:0,50,54:0:0:50,54:1779,1908:-300.288,-155.302,-140.251,-144.986,0,-128.73 1/1:265:0,265,0:0:0:265,0:9325,0:-839.139,-79.773,0,-839.139,-79.773,-839.139 1/1:15:0,14,1:0:0:14,1:496,36:-44.5863,-4.21442,0,-41.6485,-0.917175,-41.3474 1/1:22:0,22,0:0:0:22,0:784,0:-70.6115,-6.62266,0,-70.6115,-6.62266,-70.6115 1/2:26:0,13,13:0:0:13,13:455,466:-75.3799,-38.3654,-34.452,-37.3686,0,-33.4552 1/1:155:0,154,0:0:0:154,0:5419,0:-487.016,-46.3586,0,-487.016,-46.3586,-487.016 1/2:137:0,75,61:0:0:75,61:2629,2139:-387.921,-174.035,-151.458,-213.878,0,-195.516 1/1:174:0,174,0:0:0:174,0:6120,0:-550.68,-52.3792,0,-550.68,-52.3792,-550.68 1/1:90:0,90,0:0:0:90,0:3176,0:-286.055,-27.0927,0,-286.055,-27.0927,-286.055 1/1:153:0,153,0:0:0:153,0:5372,0:-483.537,-46.0576,0,-483.537,-46.0576,-483.537 1/2:109:0,53,56:0:0:53,56:1841,1978:-310.497,-161.185,-145.23,-149.661,0,-132.804 1/2:64:0,42,21:0:0:42,21:1499,735:-181.981,-59.7732,-47.13,-122.201,0,-115.879 1/1:113:0,110,1:0:0:110,1:3882,36:-348.955,-33.1133,0,-346.018,-30.1488,-345.717 1/1:69:0,67,0:0:0:67,0:2347,0:-211.118,-20.169,0,-211.118,-20.169,-211.118 chr04 27693402 . C T 49337.5 PASS AB=0.536232;ABP=14.8118;AC=33;AF=0.785714;AN=42;AO=2258;CIGAR=1X;DP=2740;DPB=2740;DPRA=0;EPP=4862.86;EPPR=1040.99;GTI=0;LEN=1;MEANALT=1;MQM=59.2356;MQMR=59.556;NS=21;NUMALT=1;ODDS=26.0838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80931;QR=17193;RO=482;RPL=2253;RPP=4862.86;RPPR=1040.99;RPR=5;RUN=1;SAF=0;SAP=4906.2;SAR=2258;SRF=0;SRP=1049.66;SRR=482;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:59,91:59:2103:91:3268:-249.071,0,-144.332 0/1:152:65,87:65:2315:87:3114:-234.46,0,-162.84 0/1:157:77,80:77:2739:80:2872:-211.313,0,-199.456 1/1:250:0,250:0:0:250:8969:-807.034,-75.2575,0 1/1:217:0,217:0:0:217:7770:-698.456,-65.3235,0 1/1:134:0,134:0:0:134:4786:-430.667,-40.338,0 0/1:129:78,51:78:2777:51:1836:-126.105,0,-211.327 0/1:105:51,54:51:1832:54:1936:-142.863,0,-133.468 1/1:288:0,288:0:0:288:10325:-929.053,-86.6966,0 1/1:16:1,15:1:36:15:540:-45.3097,-1.21821,0 1/1:23:0,23:0:0:23:813:-73.4179,-6.92369,0 0/1:27:13,14:13:468:14:504:-37.5703,0,-34.3318 1/1:159:0,159:0:0:159:5704:-512.984,-47.8638,0 0/1:139:59,80:59:2104:80:2856:-215.365,0,-147.75 1/1:179:0,179:0:0:179:6424:-578.128,-53.8844,0 1/1:95:0,95:0:0:95:3412:-307.21,-28.5979,0 1/1:159:0,159:0:0:159:5677:-510.973,-47.8638,0 0/1:111:57,54:57:2031:54:1940:-140.976,0,-149.245 0/1:65:21,44:21:752:44:1584:-123.18,0,-48.4207 1/1:116:1,115:1:36:115:4117:-366.57,-31.3212,0 1/1:69:0,69:0:0:69:2484:-223.224,-20.7711,0 chr04 27884541 . A C 16918 PASS AB=0.563529;ABP=62.6057;AC=9;AF=0.214286;AN=42;AO=969;CIGAR=1X;DP=3960;DPB=3960;DPRA=1.03789;EPP=2081.19;EPPR=6419.9;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8008;MQMR=59.9846;NS=21;NUMALT=1;ODDS=1.8959;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34533;QR=99865;RO=2987;RPL=3;RPP=2081.19;RPPR=6419.9;RPR=966;RUN=1;SAF=969;SAP=2107.17;SAR=0;SRF=2987;SRP=6489.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:91,116:91:3071:116:4138:-310.252,0,-214.299 0/1:213:96,117:96:3215:117:4162:-310.644,0,-225.451 0/1:278:117,161:117:3717:161:5737:-432.756,0,-251.042 0/0:265:265,0:265:8837:0:0:0,-79.7729,-795.312 0/0:324:318,5:318:10739:5:180:0,-81.0404,-949.889 0/0:200:197,3:197:6436:3:108:0,-50.1308,-569.266 0/1:276:96,180:96:3292:180:6429:-495.47,0,-213.412 0/1:214:108,106:108:3516:106:3759:-273.19,0,-252.224 0/0:325:325,0:325:10937:0:0:0,-97.8347,-984.256 0/0:30:28,2:28:962:2:72:0,-2.19418,-80.05 0/0:12:12,0:12:383:0:0:0,-3.61236,-34.7759 0/1:60:25,35:25:862:35:1260:-95.6437,0,-59.8289 0/0:232:231,1:231:7822:1:36:0,-66.2407,-700.43 0/1:286:131,155:131:4441:155:5504:-409.387,0,-313.765 0/0:324:324,0:324:10906:0:0:0,-97.5337,-981.43 0/0:183:180,0:180:6062:0:0:0,-54.1854,-545.331 0/0:158:158,0:158:5155:0:0:0,-47.5627,-464.093 0/1:82:31,51:31:1054:51:1816:-139.015,0,-70.4778 0/1:84:47,37:47:1529:37:1332:-94.8955,0,-112.596 0/0:154:154,0:154:5202:0:0:0,-46.3586,-468.322 0/0:53:53,0:53:1727:0:0:0,-15.9546,-155.694 chr04 27899783 . T C 21560.5 PASS AB=0.45441;ABP=15.0881;AC=32;AF=0.761905;AN=42;AO=834;CIGAR=1X;DP=1206;DPB=1206;DPRA=0;EPP=3.38523;EPPR=67.5399;GTI=1;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.846096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29407;QR=13267;RO=371;RPL=0;RPP=1814.02;RPPR=808.627;RPR=834;RUN=1;SAF=411;SAP=3.38523;SAR=423;SRF=133;SRP=67.5399;SRR=238;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:31,26:31:1104:26:900:-64.1529,0,-82.5119 0/1:28:7,21:7:244:21:756:-59.9384,0,-13.8706 0/1:20:12,8:12:428:8:288:-20.2468,0,-32.8382 1/1:56:0,56:0:0:56:1977:-178.203,-16.8577,0 1/1:92:3,89:3:108:89:3177:-276.078,-17.6196,0 1/1:24:0,24:0:0:24:848:-76.6397,-7.22472,0 0/1:66:21,45:21:756:45:1576:-122.261,0,-48.4992 0/1:43:14,29:14:500:29:1034:-80.4295,0,-32.3919 1/1:70:0,70:0:0:70:2466:-222.194,-21.0721,0 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:30:22,8:22:792:8:288:-17.2365,0,-62.5748 1/1:46:0,46:0:0:46:1621:-146.177,-13.8474,0 0/1:52:31,21:31:1104:21:756:-52.7137,0,-84.0171 1/1:44:0,44:0:0:44:1552:-139.97,-13.2453,0 1/1:15:1,14:1:36:14:500:-41.7379,-0.917175,0 1/1:31:0,31:0:0:31:1068:-96.4234,-9.33193,0 0/1:246:189,57:189:6755:57:2020:-108.018,0,-533.971 0/1:123:36,87:36:1296:87:3057:-238.334,0,-79.9172 1/1:56:1,55:1:36:55:1940:-171.275,-13.2594,0 1/1:99:1,97:1:36:97:3375:-300.37,-26.2625,0 chr04 27899789 . C T 9090.41 PASS AB=0.565642;ABP=29.808;AC=10;AF=0.238095;AN=42;AO=410;CIGAR=1X;DP=1274;DPB=1274;DPRA=1.4157;EPP=125.375;EPPR=3.13359;GTI=2;LEN=1;MEANALT=1;MQM=59.9854;MQMR=60;NS=21;NUMALT=1;ODDS=0.288473;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14540;QR=30587;RO=863;RPL=1;RPP=884.649;RPPR=1876.99;RPR=409;RUN=1;SAF=130;SAP=122.176;SAR=280;SRF=428;SRP=3.13359;SRR=435;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:28,31:28:987:31:1107:-82.1794,0,-71.3823 0/1:39:22,17:22:788:17:594:-42.0454,0,-59.5046 0/1:20:8,12:8:288:12:432:-33.2006,0,-20.2468 0/0:57:57,0:57:2007:0:0:0,-17.1587,-180.9 0/0:95:92,3:92:3244:3:108:0,-18.5227,-282.107 0/0:25:25,0:25:887:0:0:0,-7.52575,-80.1481 0/1:87:47,40:47:1652:40:1406:-100.647,0,-122.775 0/1:40:29,11:29:1040:11:392:-23.5789,0,-81.8732 0/0:73:72,0:72:2580:0:0:0,-21.6742,-232.089 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:32:9,23:9:308:23:811:-63.677,0,-18.4189 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 0/1:52:21,31:21:756:31:1103:-83.9262,0,-52.7137 0/0:44:44,0:44:1555:0:0:0,-13.2453,-140.241 0/0:18:17,1:17:604:1:36:0,-1.82026,-51.0923 0/0:32:32,0:32:1135:0:0:0,-9.63296,-102.458 0/1:260:58,202:58:2062:202:7166:-566.732,0,-107.582 0/1:122:87,35:87:3074:35:1241:-75.2679,0,-240.164 0/0:59:58,1:58:2063:1:36:0,-14.1625,-182.342 0/0:105:105,0:105:3697:0:0:0,-31.6081,-332.933 chr04 27919182 . A T 104437 PASS AB=0.486528;ABP=6.05261;AC=33;AF=0.785714;AN=42;AO=3863;CIGAR=1X;DP=4859;DPB=4859;DPRA=0;EPP=8391.41;EPPR=2163.63;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.7018;MQMR=59.8834;NS=21;NUMALT=1;ODDS=26.1735;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=136031;QR=35692;RO=995;RPL=1727;RPP=97.0424;RPPR=724.561;RPR=2136;RUN=1;SAF=1727;SAP=97.0424;SAR=2136;SRF=210;SRP=724.561;SRR=785;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:487:250,237:250:8983:237:8204:-591.74,0,-661.835 0/1:131:79,52:79:2831:52:1848:-126.963,0,-215.593 0/1:322:164,157:164:5888:157:5524:-400.438,0,-432.56 1/1:341:0,341:0:0:341:12113:-1090,-102.651,0 1/1:596:3,593:3:108:593:20906:-1870.07,-169.339,0 1/1:151:0,151:0:0:151:5307:-477.653,-45.4555,0 0/1:160:90,70:90:3236:70:2496:-176.245,0,-243.24 0/1:238:136,102:136:4872:102:3563:-249.191,0,-366.985 1/1:504:0,504:0:0:504:17666:-1589.45,-151.719,0 1/1:28:0,28:0:0:28:966:-87.239,-8.42884,0 1/1:13:0,13:0:0:13:464:-42.0621,-3.91339,0 0/1:45:20,25:20:720:25:866:-64.6874,0,-51.5824 1/1:311:0,311:0:0:311:10921:-982.658,-93.6203,0 0/1:323:147,176:147:5280:176:6216:-462.272,0,-377.472 1/1:406:0,406:0:0:406:14458:-1300.97,-122.218,0 1/1:222:0,222:0:0:222:7847:-706.26,-66.8287,0 1/1:207:0,207:0:0:207:7318:-658.679,-62.3132,0 0/1:94:53,41:53:1887:41:1421:-99.1176,0,-141.621 0/1:130:51,79:51:1815:79:2733:-207.044,0,-124.497 1/1:103:1,102:1:36:102:3569:-317.57,-27.4078,0 1/1:47:1,46:1:36:46:1625:-142.789,-10.5501,0 chr04 27941579 . CA CG,AG 15273 PASS AB=0.475219,0.521866;ABP=4.83991,4.43474;AC=33,9;AF=0.785714,0.214286;AN=42;AO=542,182;CIGAR=1M1X,2X;DP=725;DPB=725;DPRA=0,1.2448;EPP=1179.95,398.218;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.57143,2.09091;MQM=53.8524,42.5;MQMR=0;NS=21;NUMALT=2;ODDS=3.18986;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19332,6499;QR=0;RO=0;RPL=0,0;RPP=1179.95,398.218;RPPR=0;RPR=542,182;RUN=1,1;SAF=542,182;SAP=1179.95,398.218;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:38:0,25,13:0:0:25,13:877,464:-108.276,-37.1327,-29.6069,-71.4915,0,-67.5781 1/2:18:0,5,13:0:0:5,13:164,468:-50.8246,-37.6345,-36.1294,-13.5239,0,-9.61047 1/2:17:0,7,10:0:0:7,10:252,360:-49.4137,-28.8643,-26.7571,-20.9051,0,-17.8948 1/1:25:0,25,0:0:0:25,0:900,0:-81.1552,-7.52575,0,-81.1552,-7.52575,-81.1552 1/1:12:0,12,0:0:0:12,0:428,0:-38.8297,-3.61236,0,-38.8297,-3.61236,-38.8297 1/1:43:0,42,1:0:0:42,1:1504,36:-134.785,-12.6433,0,-131.917,-9.42328,-131.616 1/2:37:0,14,23:0:0:14,23:500,826:-106.251,-65.5982,-61.3838,-41.0062,0,-34.0825 1/2:37:0,13,24:0:0:13,24:468,840:-104.703,-66.591,-62.6776,-38.4645,0,-31.2398 1/1:56:0,56,0:0:0:56,0:2001,0:-180.08,-16.8577,0,-180.08,-16.8577,-180.08 1/1:6:0,6,0:0:0:6,0:216,0:-19.7588,-1.80618,0,-19.7588,-1.80618,-19.7588 1/1:4:0,4,0:0:0:4,0:144,0:-13.2801,-1.20412,0,-13.2801,-1.20412,-13.2801 1/2:6:0,2,4:0:0:2,4:72,136:-17.0184,-11.1442,-10.5421,-6.22497,0,-5.02085 1/1:54:0,54,0:0:0:54,0:1925,0:-173.259,-16.2556,0,-173.259,-16.2556,-173.259 1/2:46:0,19,27:0:0:19,27:672,970:-131.288,-76.6566,-70.937,-54.9826,0,-46.8548 1/1:36:0,36,0:0:0:36,0:1261,0:-113.677,-10.8371,0,-113.677,-10.8371,-113.677 1/1:31:0,31,0:0:0:31,0:1116,0:-100.646,-9.33193,0,-100.646,-9.33193,-100.646 1/1:20:0,20,0:0:0:20,0:720,0:-65.0632,-6.0206,0,-65.0632,-6.0206,-65.0632 1/2:82:0,44,37:0:0:44,37:1568,1321:-232.049,-104.835,-91.5896,-127.214,0,-116.075 1/2:62:0,34,28:0:0:34,28:1220,1006:-177.998,-78.6899,-68.4549,-99.6589,0,-91.23 1/1:33:0,31,2:0:0:31,2:1108,72:-99.5199,-9.33193,0,-93.7844,-3.24407,-93.1823 1/1:62:0,62,0:0:0:62,0:2216,0:-197.881,-18.6639,0,-197.881,-18.6639,-197.881 chr04 27941630 . AC AT,GT 36350.2 PASS AB=0.506608,0.491924;ABP=3.26858,3.39613;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1078,343;CIGAR=1M1X,2X;DP=1422;DPB=1422;DPRA=0,1.69889;EPP=3.04253,6.35931;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.7619,2.06667;MQM=49.3646,32.7959;MQMR=0;NS=21;NUMALT=2;ODDS=5.32667;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38544,12169;QR=0;RO=0;RPL=1078,343;RPP=2343.86,747.825;RPPR=0;RPR=0,0;RUN=1,1;SAF=541,183;SAP=3.04253,6.35931;SAR=537,160;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,37,33:0:0:37,33:1312,1147:-175.366,-69.4864,-58.3483,-106.186,0,-96.2518 1/2:40:0,27,13:0:0:27,13:964,466:-113.403,-37.4779,-29.3501,-76.2741,0,-72.3607 1/2:42:0,15,27:0:0:15,27:536,965:-101.318,-57.8181,-53.3027,-43.8246,0,-35.6968 1/1:71:0,70,1:0:0:70,1:2520,36:-224.156,-21.0721,0,-222.581,-19.2865,-222.28 1/1:66:0,65,1:0:0:65,1:2332,36:-207.346,-19.567,0,-205.598,-17.5891,-205.297 1/1:81:0,80,1:0:0:80,1:2876,36:-255.48,-24.0824,0,-252.612,-20.8624,-252.311 1/2:62:0,39,23:0:0:39,23:1388,813:-174.021,-64.5127,-52.7725,-109.852,0,-102.929 1/2:52:0,20,32:0:0:20,32:720,1135:-137.547,-79.3209,-73.3003,-58.5638,0,-48.9309 1/1:84:0,84,0:0:0:84,0:2993,0:-267.667,-25.2865,0,-267.667,-25.2865,-267.667 1/1:10:0,10,0:0:0:10,0:360,0:-32.5317,-3.0103,0,-32.5317,-3.0103,-32.5317 1/1:7:0,7,0:0:0:7,0:252,0:-22.7839,-2.10721,0,-22.7839,-2.10721,-22.7839 1/2:27:0,14,13:0:0:14,13:504,457:-65.1588,-25.7973,-21.5829,-39.6583,0,-35.7449 1/1:87:0,86,1:0:0:86,1:3071,31:-274.825,-25.8886,0,-272.346,-23.1004,-272.045 1/2:108:0,41,67:0:0:41,67:1468,2375:-263.227,-145.422,-133.08,-118.128,0,-97.9591 1/1:69:0,69,0:0:0:69,0:2445,0:-218.739,-20.7711,0,-218.739,-20.7711,-218.739 1/1:61:0,61,0:0:0:61,0:2188,0:-196.036,-18.3628,0,-196.036,-18.3628,-196.036 1/1:40:0,40,0:0:0:40,0:1436,0:-128.347,-12.0412,0,-128.347,-12.0412,-128.347 1/2:152:0,76,75:0:0:76,75:2715,2676:-379.893,-160.946,-138.068,-218.97,0,-196.392 1/2:128:0,76,52:0:0:76,52:2705,1856:-338.383,-120.71,-97.8317,-217.988,0,-202.334 1/1:64:0,61,3:0:0:61,3:2175,106:-192.855,-18.3628,0,-185.7,-10.9069,-184.797 1/1:101:0,100,1:0:0:100,1:3584,34:-315.191,-30.103,0,-313.453,-28.1371,-313.152 chr04 27978968 . TTTTCCACCAAA TTTGCCACCAAA,AAATCACCAAA 36440.7 PASS AB=0.523546,0.468144;ABP=6.48706,9.37434;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1461,341;CIGAR=3M1X8M,3X1M1D7M;DP=1829;DPB=1800.5;DPRA=0,1.17333;EPP=3175.53,743.482;EPPR=0;GTI=0;LEN=1,11;MEANALT=2.61905,2.9;MQM=59.6324,29.5396;MQMR=0;NS=21;NUMALT=2;ODDS=4.06343;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52174,10060;QR=0;RO=0;RPL=1461,341;RPP=3175.53,743.482;RPPR=0;RPR=0,0;RUN=1,1;SAF=1461,341;SAP=3175.53,743.482;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:22:0,14,8:0:0:14,8:492,225:-56.0388,-15.9285,-11.7141,-40.3979,0,-37.9897 1/2:77:0,53,24:0:0:53,24:1873,713:-203.29,-50.7155,-34.7609,-152.868,0,-145.643 1/2:119:0,60,58:0:0:60,58:2143,1682:-292.924,-118.182,-100.12,-174.75,0,-157.291 1/1:113:0,113,0:0:0:113,0:4037,0:-363.489,-34.0164,0,-363.489,-34.0164,-363.489 1/1:222:0,216,3:0:0:216,3:7669,85:-689.777,-65.0225,0,-683.843,-59.1219,-682.94 1/1:50:0,50,0:0:0:50,0:1768,0:-159.323,-15.0515,0,-159.323,-15.0515,-159.323 1/2:115:0,61,52:0:0:61,52:2188,1554:-288.848,-110.353,-91.9903,-178.552,0,-162.898 1/2:90:0,44,46:0:0:44,46:1576,1380:-226.732,-98.1689,-84.9236,-128.878,0,-115.031 1/1:117:0,114,0:0:0:114,0:4088,0:-367.708,-34.3174,0,-367.708,-34.3174,-367.708 1/1:17:0,17,0:0:0:17,0:603,0:-54.5995,-5.11751,0,-54.5995,-5.11751,-54.5995 1/1:13:0,13,0:0:0:13,0:460,0:-41.7354,-3.91339,0,-41.7354,-3.91339,-41.7354 1/2:29:0,14,14:0:0:14,14:496,420:-70.156,-29.7125,-25.4981,-40.4015,0,-36.1871 1/1:120:0,117,0:0:0:117,0:4204,0:-378.236,-35.2205,0,-378.236,-35.2205,-378.236 1/2:104:0,56,48:0:0:56,48:1996,1391:-260.528,-98.0875,-81.2298,-162.745,0,-148.295 1/1:155:0,153,0:0:0:153,0:5492,0:-494.015,-46.0576,0,-494.015,-46.0576,-494.015 1/1:81:0,76,0:0:0:76,0:2728,0:-245.266,-22.8783,0,-245.266,-22.8783,-245.266 1/1:85:0,81,0:0:0:81,0:2908,0:-261.644,-24.3834,0,-261.644,-24.3834,-261.644 1/2:118:0,47,70:0:0:47,70:1667,2088:-283.783,-147.972,-133.824,-135.773,0,-114.701 1/2:48:0,29,18:0:0:29,18:1044,522:-121.844,-36.6419,-27.912,-85.1917,0,-79.7732 1/1:89:0,88,0:0:0:88,0:3151,0:-283.465,-26.4906,0,-283.465,-26.4906,-283.465 1/1:45:0,45,0:0:0:45,0:1591,0:-143.463,-13.5464,0,-143.463,-13.5464,-143.463 chr04 28045651 . A T 26300.7 PASS AB=0.490011;ABP=3.83459;AC=33;AF=0.785714;AN=42;AO=1541;CIGAR=1X;DP=2026;DPB=2026;DPRA=0;EPP=3349.25;EPPR=1054;GTI=0;LEN=1;MEANALT=1.04762;MQM=32.9001;MQMR=45.0372;NS=21;NUMALT=1;ODDS=4.56838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55131;QR=17253;RO=484;RPL=5;RPP=3305.96;RPPR=1045.34;RPR=1536;RUN=1;SAF=5;SAP=3305.96;SAR=1536;SRF=1;SRP=1045.34;SRR=483;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:240:147,93:147:5261:93:3317:-186.694,0,-392.752 0/1:85:40,45:40:1432:45:1601:-101.839,0,-101.692 0/1:82:33,49:33:1175:49:1752:-112.19,0,-78.804 1/1:67:0,67:0:0:67:2378:-186.795,-20.169,0 1/1:109:0,109:0:0:109:3908:-302.106,-32.8123,0 1/1:64:0,64:0:0:64:2292:-181.261,-19.2659,0 0/1:148:81,67:81:2874:67:2387:-144.956,0,-211.011 0/1:44:19,25:19:680:25:900:-57.3489,0,-47.4306 1/1:169:0,169:0:0:169:6071:-469.785,-50.8741,0 1/1:26:0,26:0:0:26:927:-72.7223,-7.82678,0 1/1:8:0,8:0:0:8:288:-22.6958,-2.40824,0 0/1:36:17,19:17:604:19:684:-43.1442,0,-43.3313 1/1:71:0,71:0:0:71:2548:-197.518,-21.3731,0 0/1:120:60,59:60:2129:59:2102:-126.788,0,-152.991 1/1:290:0,290:0:0:290:10375:-806.977,-87.2987,0 1/1:100:0,100:0:0:100:3578:-276.985,-30.103,0 1/1:57:0,57:0:0:57:2033:-158.461,-17.1587,0 0/1:105:57,48:57:2030:48:1728:-101.835,0,-148.436 0/1:91:30,61:30:1068:61:2179:-141.361,0,-66.8081 1/1:60:0,60:0:0:60:2144:-168.413,-18.0618,0 1/1:54:0,54:0:0:54:1939:-152.222,-16.2556,0 chr04 28169140 . T C 22666.3 PASS AB=0.489712;ABP=3.4571;AC=33;AF=0.785714;AN=42;AO=1100;CIGAR=1X;DP=1352;DPB=1352;DPRA=0;EPP=2391.63;EPPR=545.878;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9264;MQMR=60;NS=21;NUMALT=1;ODDS=13.1959;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38081;QR=8962;RO=250;RPL=1100;RPP=2391.63;RPPR=545.878;RPR=0;RUN=1;SAF=1100;SAP=2391.63;SAR=0;SRF=250;SRP=545.878;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:64,43:64:2300:43:1476:-100.558,0,-174.691 0/1:51:24,27:24:855:27:935:-69.1068,0,-61.9176 0/1:59:35,24:35:1260:24:837:-57.8849,0,-95.9447 1/1:128:0,127:0:0:127:4386:-394.562,-38.2308,0 1/1:106:1,105:1:36:105:3644:-324.568,-28.3109,0 1/1:92:1,91:1:36:91:3145:-279.676,-24.0965,0 0/1:105:43,62:43:1544:62:2186:-165.397,0,-107.645 0/1:32:14,18:14:496:18:644:-48.6576,0,-35.3413 1/1:119:0,119:0:0:119:4175:-375.896,-35.8226,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:4:0,4:0:0:4:140:-12.9427,-1.20412,0 0/1:10:8,2:8:288:2:68:-3.44741,0,-23.2571 1/1:83:0,83:0:0:83:2892:-260.518,-24.9855,0 0/1:80:40,40:40:1427:40:1386:-100.912,0,-104.644 1/1:100:0,100:0:0:100:3420:-308.012,-30.103,0 1/1:40:0,40:0:0:40:1396:-125.934,-12.0412,0 1/1:71:0,71:0:0:71:2488:-224.173,-21.3731,0 0/1:22:7,15:7:252:15:502:-38.876,0,-16.4063 0/1:19:12,7:12:432:7:211:-13.567,0,-33.5016 1/1:86:1,85:1:36:85:2911:-258.625,-22.2903,0 1/1:30:0,30:0:0:30:991:-89.4698,-9.0309,0 chr04 28214398 . G A 23692.6 PASS AB=0.489879;ABP=3.66965;AC=33;AF=0.785714;AN=42;AO=1131;CIGAR=1X;DP=1512;DPB=1512;DPRA=0;EPP=2450.27;EPPR=825.998;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9416;MQMR=60;NS=21;NUMALT=1;ODDS=0.558347;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40321;QR=13473;RO=379;RPL=1130;RPP=2450.27;RPPR=825.998;RPR=1;RUN=1;SAF=1131;SAP=2458.95;SAR=0;SRF=379;SRP=825.998;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:84,60:84:2987:60:2136:-148.785,0,-225.355 0/1:22:10,12:10:345:12:428:-32.2361,0,-24.7582 0/1:73:43,30:43:1535:30:1076:-75.1777,0,-116.467 1/1:70:0,70:0:0:70:2482:-223.631,-21.0721,0 1/1:142:1,141:1:36:141:5056:-451.586,-39.148,0 1/1:41:1,40:1:36:40:1423:-124.768,-8.74396,0 0/1:96:44,52:44:1563:52:1856:-138.421,0,-112.062 0/1:145:71,74:71:2544:74:2643:-194.467,0,-185.561 1/1:92:0,92:0:0:92:3292:-296.499,-27.6948,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:23:14,9:14:504:9:324:-22.5822,0,-38.7744 1/1:117:0,117:0:0:117:4148:-373.233,-35.2205,0 0/1:78:36,41:36:1292:41:1452:-107.365,0,-93.0447 1/1:71:0,71:0:0:71:2509:-226.062,-21.3731,0 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:92:48,44:48:1686:44:1558:-112.817,0,-124.33 0/1:67:26,41:26:909:41:1472:-112.607,0,-61.9544 1/1:129:0,129:0:0:129:4607:-414.795,-38.8329,0 1/1:55:1,54:1:36:54:1927:-170.108,-12.9584,0 chr04 28214415 . G A 24005.6 PASS AB=0.556881;ABP=73.6618;AC=22;AF=0.52381;AN=42;AO=1405;CIGAR=1X;DP=2519;DPB=2519;DPRA=0;EPP=3053.93;EPPR=2422.03;GTI=1;LEN=1;MEANALT=1;MQM=59.9658;MQMR=59.6391;NS=21;NUMALT=1;ODDS=6.30661;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49454;QR=39266;RO=1114;RPL=1405;RPP=3053.93;RPPR=2413.35;RPR=0;RUN=1;SAF=1405;SAP=3053.93;SAR=0;SRF=1;SRP=2413.35;SRR=1113;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:160:29,131:29:1025:131:4599:-365.908,0,-44.3676 0/1:34:13,21:13:444:21:737:-56.4156,0,-30.049 0/1:166:97,69:97:3418:69:2448:-170.605,0,-257.839 0/1:123:56,67:56:1944:67:2370:-176.529,0,-138.204 0/1:224:90,134:90:3211:134:4740:-359.332,0,-220.059 0/1:45:11,34:11:387:34:1220:-96.5605,0,-21.6196 0/1:162:68,94:68:2413:94:3238:-242.872,0,-168.648 0/1:187:57,130:57:2024:130:4578:-355.895,0,-126.122 0/1:160:72,88:72:2554:88:3102:-231.243,0,-181.718 0/1:9:5,4:5:171:4:125:-8.84935,0,-12.3763 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:49:25,24:25:900:24:815:-58.9097,0,-66.5701 0/1:195:92,103:92:3223:103:3639:-269.018,0,-231.589 0/1:179:103,76:103:3656:76:2662:-185.91,0,-275.349 0/1:133:71,62:71:2496:62:2188:-157.147,0,-184.855 0/1:47:23,24:23:813:24:841:-61.858,0,-58.3854 0/1:30:14,16:14:496:16:568:-42.421,0,-35.9434 0/1:188:103,85:103:3589:85:2981:-211.928,0,-266.528 0/1:154:90,64:90:3156:64:2289:-159.913,0,-237.743 0/1:165:44,121:44:1544:121:4247:-332.742,0,-89.5791 0/1:104:51,53:51:1802:53:1887:-138.801,0,-130.836 chr04 28214417 . G A 2872.33 PASS AB=0.255075;ABP=593.361;AC=8;AF=0.190476;AN=42;AO=305;CIGAR=1X;DP=2577;DPB=2577;DPRA=1.43364;EPP=665.309;EPPR=4936.6;GTI=1;LEN=1;MEANALT=1;MQM=59.6262;MQMR=59.8402;NS=21;NUMALT=1;ODDS=1.40294;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10868;QR=80606;RO=2272;RPL=0;RPP=665.309;RPPR=404.335;RPR=305;RUN=1;SAF=0;SAP=665.309;SAR=305;SRF=1460;SRP=404.335;SRR=812;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:168:154,14:154:5501:14:504:0,-4.90334,-449.532 0/1:35:26,9:26:927:9:324:-18.9698,0,-73.2113 0/1:166:113,53:113:4029:53:1872:-118.763,0,-312.827 0/0:125:125,0:125:4437:0:0:0,-37.6287,-399.503 0/0:227:226,1:226:7965:1:36:0,-64.7355,-711.352 0/0:49:48,1:48:1695:1:36:0,-11.1522,-149.237 0/1:161:117,44:117:4140:44:1563:-92.4908,0,-324.32 0/1:199:159,40:159:5675:40:1423:-68.4616,0,-450.648 0/0:160:160,0:160:5672:0:0:0,-48.1648,-509.597 0/0:9:9,0:9:320:0:0:0,-2.70927,-28.5087 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:51:35,16:35:1247:16:576:-36.8174,0,-97.1815 0/0:203:203,0:203:7253:0:0:0,-61.1091,-652.823 0/1:181:140,41:140:4948:41:1468:-77.9084,0,-390.856 0/0:138:138,0:138:4898:0:0:0,-41.5421,-440.973 0/0:48:48,0:48:1716:0:0:0,-14.4494,-153.773 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/1:188:135,53:135:4769:53:1900:-114.587,0,-372.773 0/1:152:119,33:119:4249:33:1166:-59.4776,0,-336.515 0/0:173:173,0:173:6087:0:0:0,-52.0782,-547.937 0/0:107:107,0:107:3762:0:0:0,-32.2102,-338.462 chr04 28252006 . 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C T 50578.9 PASS AB=0.514239;ABP=5.1747;AC=33;AF=0.785714;AN=42;AO=1900;CIGAR=1X;DP=2512;DPB=2512;DPRA=0;EPP=4120.13;EPPR=1329.78;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.8711;MQMR=59.9804;NS=21;NUMALT=1;ODDS=7.28076;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67362;QR=21534;RO=611;RPL=884;RPP=22.9238;RPPR=37.8427;RPR=1016;RUN=1;SAF=883;SAP=23.5319;SAR=1017;SRF=256;SRP=37.8427;SRR=355;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:189:100,89:100:3544:89:3173:-228.897,0,-262.273 0/1:102:55,47:55:1936:47:1641:-117.267,0,-143.809 0/1:83:44,39:44:1572:39:1400:-101.314,0,-116.786 1/1:94:2,92:2:72:92:3285:-289.02,-21.4601,0 1/1:213:6,207:6:207:207:7346:-642.175,-45.1525,0 1/1:97:0,97:0:0:97:3430:-308.912,-29.1999,0 0/1:180:78,102:78:2787:102:3617:-271.55,0,-196.884 0/1:147:72,75:72:2546:75:2636:-193.231,0,-185.14 1/1:193:2,191:2:72:191:6840:-608.827,-51.2621,0 1/1:34:0,34:0:0:34:1203:-108.573,-10.235,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:50:24,25:24:832:25:896:-65.8501,0,-60.0842 1/1:145:1,144:1:36:144:5132:-458.419,-40.0511,0 0/1:157:95,62:95:3336:62:2201:-151.093,0,-253.198 1/1:153:0,153:0:0:153:5411:-487.029,-46.0576,0 1/1:64:0,64:0:0:64:2275:-205.007,-19.2659,0 1/1:66:0,66:0:0:66:2331:-210.049,-19.868,0 0/1:197:87,110:87:3030:110:3887:-290.72,0,-213.627 0/1:124:41,83:41:1424:83:2894:-223.358,0,-91.125 1/1:81:3,78:3:104:78:2771:-239.928,-14.6806,0 1/1:130:1,129:1:36:129:4529:-404.177,-35.5356,0 chr04 28418453 . 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T C 43609 PASS AB=0.472039;ABP=11.2676;AC=33;AF=0.785714;AN=42;AO=2057;CIGAR=1X;DP=2704;DPB=2704;DPRA=0;EPP=4469.73;EPPR=1405.78;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9752;MQMR=59.9923;NS=21;NUMALT=1;ODDS=2.4133;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73435;QR=22939;RO=646;RPL=2057;RPP=4469.73;RPPR=1405.78;RPR=0;RUN=1;SAF=0;SAP=4469.73;SAR=2057;SRF=0;SRP=1405.78;SRR=646;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:84,56:84:2985:56:2004:-138.489,0,-226.738 0/1:75:35,40:35:1248:40:1428:-106.24,0,-90.0476 0/1:146:77,69:77:2729:69:2460:-177.676,0,-201.902 1/1:147:0,147:0:0:147:5237:-471.467,-44.2514,0 1/1:264:2,262:2:68:262:9314:-831.772,-73.0142,0 1/1:116:1,115:1:36:115:4132:-368.458,-31.3212,0 0/1:258:138,120:138:4895:120:4265:-306.364,0,-363.032 0/1:157:90,67:90:3204:67:2396:-168.635,0,-241.323 1/1:255:0,255:0:0:255:9112:-819.965,-76.7627,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:43:24,19:24:841:19:676:-48.2237,0,-63.0621 1/1:110:1,109:1:36:109:3900:-347.596,-29.515,0 0/1:173:85,88:85:3017:88:3138:-230.566,0,-219.683 1/1:207:0,207:0:0:207:7416:-667.485,-62.3132,0 1/1:100:0,100:0:0:100:3576:-322.048,-30.103,0 1/1:115:0,115:0:0:115:4097:-368.914,-34.6185,0 0/1:131:76,55:76:2700:55:1972:-138.32,0,-203.811 0/1:93:33,60:33:1180:60:2136:-164.512,0,-78.5123 1/1:107:0,106:0:0:106:3776:-339.681,-31.9092,0 1/1:40:0,40:0:0:40:1432:-129.178,-12.0412,0 chr04 28538285 . A G 37564.8 PASS AB=0.530789;ABP=12.5041;AC=33;AF=0.785714;AN=42;AO=1763;CIGAR=1X;DP=2307;DPB=2307;DPRA=0;EPP=3719.23;EPPR=1164.81;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.5037;MQMR=59.9705;NS=21;NUMALT=1;ODDS=15.8967;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62812;QR=19397;RO=543;RPL=13;RPP=3719.23;RPPR=1164.81;RPR=1750;RUN=1;SAF=1763;SAP=3831.32;SAR=0;SRF=543;SRP=1182.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:82,92:82:2921:92:3254:-240.646,0,-210.742 0/1:131:59,72:59:2105:72:2566:-191.681,0,-150.283 0/1:113:50,63:50:1788:63:2245:-168.289,0,-127.186 1/1:83:0,83:0:0:83:2941:-264.804,-24.9855,0 1/1:132:2,130:2:72:130:4577:-405.07,-32.8992,0 1/1:111:1,110:1:36:110:3941:-351.206,-29.8161,0 0/1:116:60,56:60:2156:56:2008:-146.025,0,-159.387 0/1:166:64,101:64:2296:101:3607:-274.767,0,-156.871 1/1:97:0,97:0:0:97:3465:-312.005,-29.1999,0 1/1:30:0,30:0:0:30:1072:-96.7712,-9.0309,0 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 0/1:51:27,24:27:957:24:849:-61.354,0,-71.0913 1/1:61:0,61:0:0:61:2175:-195.981,-18.3628,0 0/1:126:77,49:77:2745:49:1736:-118.573,0,-209.361 1/1:243:0,243:0:0:243:8664:-779.656,-73.1503,0 1/1:88:0,88:0:0:88:3133:-282.182,-26.4906,0 1/1:115:0,115:0:0:115:4082:-367.48,-34.6185,0 0/1:203:98,105:98:3512:105:3776:-278.502,0,-255.17 0/1:73:23,50:23:809:50:1800:-140.288,0,-51.1531 1/1:97:0,97:0:0:97:3475:-312.939,-29.1999,0 1/1:74:0,74:0:0:74:2618:-235.829,-22.2762,0 chr04 28542855 . GTTTTTTTATGA GTTTTTTATGA,GTTTTTATGA 38268.2 PASS AB=0.532213,0.462185;ABP=9.44564,11.8787;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1473,335;CIGAR=1M1D10M,1M2D9M;DP=1824;DPB=1644.08;DPRA=0,1.08378;EPP=3201.59,730.454;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=2.28571,2.58333;MQM=59.7556,59.7701;MQMR=60;NS=21;NUMALT=2;ODDS=16.622;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51789,11605;QR=33;RO=1;RPL=1473,335;RPP=3201.59,730.454;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1473,335;SAP=3201.59,730.454;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=del,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:111:0,55,56:0:0:55,56:1956,1937:-317.146,-157.74,-141.184,-159.756,0,-142.898 1/2:76:0,49,26:0:0:49,26:1736,913:-215.796,-74.3784,-59.6279,-141.493,0,-133.666 1/2:85:0,42,42:0:0:42,42:1483,1484:-241.615,-120.849,-108.205,-120.76,0,-108.117 1/1:78:0,77,1:0:0:77,1:2695,32:-242.469,-23.1793,0,-239.891,-20.281,-239.59 1/1:160:0,156,3:0:0:156,3:5500,108:-494.809,-46.9607,0,-485.997,-38.0211,-485.093 1/1:126:0,123,1:0:0:123,1:4317,36:-388.368,-37.0267,0,-385.431,-34.0669,-385.13 1/2:118:0,69,49:0:0:69,49:2401,1679:-331.706,-136.479,-115.708,-195.571,0,-180.821 1/2:114:0,56,57:0:0:56,57:1980,1976:-321.913,-160.653,-143.796,-161.309,0,-144.15 1/1:174:0,171,0:0:0:171,0:6073,0:-546.328,-51.4761,0,-546.328,-51.4761,-546.328 1/1:17:0,17,0:0:0:17,0:591,0:-53.5131,-5.11751,0,-53.5131,-5.11751,-53.5131 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/2:13:0,6,7:0:0:6,7:212,248:-37.822,-20.557,-18.7508,-17.6186,0,-15.5114 1/1:107:0,106,0:0:0:106,0:3764,0:-338.587,-31.9092,0,-338.587,-31.9092,-338.587 1/2:80:0,32,47:0:0:32,47:1089,1656:-223.2,-134.924,-125.292,-88.3675,0,-74.2191 1/1:165:0,163,0:0:0:163,0:5737,0:-515.871,-49.0679,0,-515.871,-49.0679,-515.871 1/1:65:0,64,0:0:0:64,0:2252,0:-202.548,-19.2659,0,-202.548,-19.2659,-202.548 1/1:89:0,89,0:0:0:89,0:3114,0:-280.47,-26.7917,0,-280.47,-26.7917,-280.47 1/2:76:0,41,35:0:0:41,35:1427,1161:-210.283,-94.2438,-81.9016,-116.378,0,-105.842 1/2:41:0,30,11:0:0:30,11:1064,375:-117.463,-30.7665,-21.7356,-87.0408,0,-83.7294 1/1:84:0,83,0:0:0:83,0:2909,0:-261.762,-24.9855,0,-261.762,-24.9855,-261.762 1/1:40:1,39,0:1:33:39,0:1313,0:-115.163,-8.74207,0,-115.464,-11.7402,-118.132 chr04 28572409 . T C 30938.1 PASS AB=0.528914;ABP=8.15874;AC=33;AF=0.785714;AN=42;AO=1405;CIGAR=1X;DP=1741;DPB=1741;DPRA=0;EPP=211.176;EPPR=48.6112;GTI=0;LEN=1;MEANALT=1;MQM=33.0854;MQMR=36.994;NS=21;NUMALT=1;ODDS=13.4149;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50210;QR=12033;RO=336;RPL=886;RPP=211.176;RPPR=48.6112;RPR=519;RUN=1;SAF=0;SAP=3053.93;SAR=1405;SRF=0;SRP=732.625;SRR=336;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:31,37:31:1108:37:1328:-76.6642,0,-65.8618 0/1:43:22,21:22:788:21:756:-51.2285,0,-55.0267 0/1:96:50,46:50:1792:46:1652:-92.4582,0,-109.27 1/1:117:2,115:2:72:115:4111:-299.778,-29.4169,0 1/1:152:0,152:0:0:152:5447:-408.153,-45.7566,0 1/1:55:0,55:0:0:55:1976:-167.067,-16.5567,0 0/1:149:66,83:66:2356:83:2969:-206.532,0,-159.436 0/1:78:30,48:30:1076:48:1708:-111.119,0,-64.7867 1/1:174:0,174:0:0:174:6190:-425.979,-52.3792,0 1/1:14:0,14:0:0:14:500:-40.8018,-4.21442,0 1/1:4:0,4:0:0:4:144:-12.2341,-1.20412,0 0/1:17:10,7:10:360:7:248:-15.2314,0,-24.9044 1/1:118:0,118:0:0:118:4207:-312.129,-35.5215,0 0/1:80:39,41:39:1404:41:1449:-84.5905,0,-84.238 1/1:180:0,180:0:0:180:6457:-475.959,-54.1854,0 1/1:54:0,54:0:0:54:1940:-132.436,-16.2556,0 1/1:32:0,32:0:0:32:1144:-78.1916,-9.63296,0 0/1:136:72,64:72:2573:64:2283:-143.382,0,-172.97 0/1:42:14,28:14:504:28:1008:-61.4875,0,-26.1494 1/1:76:0,76:0:0:76:2713:-216.116,-22.8783,0 1/1:56:0,56:0:0:56:1980:-168.162,-16.8577,0 chr04 28607405 . TACG CACA,CACG 59513 PASS AB=0.572697,0.426193;ABP=44.3695,45.642;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1817,386;CIGAR=1X2M1X,1X3M;DP=2210;DPB=2210.25;DPRA=0,1.03959;EPP=3948.58,841.199;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.85714,2.09091;MQM=59.5801,59.7617;MQMR=0;NS=21;NUMALT=2;ODDS=21.518;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=63228,13657;QR=0;RO=0;RPL=915,192;RPP=3.21227,3.0328;RPPR=0;RPR=902,194;RUN=1,1;SAF=915,192;SAP=3.21227,3.0328;SAR=902,194;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,26,29:0:0:26,29:901,1017:-156.299,-83.1099,-75.2832,-73.5371,0,-64.8072 1/2:47:0,30,17:0:0:30,17:1052,599:-134.493,-48.8889,-39.858,-85.9549,0,-80.8374 1/2:95:0,58,37:0:0:58,37:2038,1311:-273.027,-107.147,-89.6875,-166.233,0,-155.095 1/1:152:0,151,0:0:0:151,0:5213,0:-468.288,-45.4555,0,-468.288,-45.4555,-468.288 1/1:171:0,170,1:0:0:170,1:5926,36:-533.024,-51.1751,0,-530.086,-47.8779,-529.785 1/1:83:0,83,0:0:0:83,0:2934,0:-264.28,-24.9855,0,-264.28,-24.9855,-264.28 1/2:155:0,74,81:0:0:74,81:2561,2883:-443.384,-235.318,-213.042,-208.417,0,-184.033 1/2:181:0,95,85:0:0:95,85:3292,2990:-510.545,-243.382,-214.784,-267.152,0,-241.564 1/1:207:0,207,0:0:0:207,0:7197,0:-647.717,-62.3132,0,-647.717,-62.3132,-647.717 1/1:8:0,8,0:0:0:8,0:286,0:-26.0855,-2.40824,0,-26.0855,-2.40824,-26.0855 1/1:5:0,5,0:0:0:5,0:178,0:-16.3687,-1.50515,0,-16.3687,-1.50515,-16.3687 1/2:27:0,16,11:0:0:16,11:549,396:-77.2331,-32.6699,-27.8534,-44.9162,0,-41.6049 1/1:190:0,189,0:0:0:189,0:6561,0:-589.217,-56.8947,0,-589.217,-56.8947,-589.217 1/2:94:0,52,42:0:0:52,42:1788,1488:-266.761,-121.57,-105.917,-145.54,0,-132.897 1/1:153:0,152,0:0:0:152,0:5286,0:-475.486,-45.7566,0,-475.486,-45.7566,-475.486 1/1:37:0,36,0:0:0:36,0:1246,0:-112.071,-10.8371,0,-112.071,-10.8371,-112.071 1/1:27:0,26,0:0:0:26,0:884,0:-79.5798,-7.82678,0,-79.5798,-7.82678,-79.5798 1/2:117:0,68,49:0:0:68,49:2352,1741:-333.34,-142.22,-121.75,-191.47,0,-176.72 1/2:130:0,97,33:0:0:97,33:3389,1169:-370.884,-95.2604,-66.0604,-275.656,0,-265.722 1/1:169:0,168,0:0:0:168,0:5884,0:-529.437,-50.573,0,-529.437,-50.573,-529.437 1/1:107:0,106,1:0:0:106,1:3711,27:-333.86,-31.9092,0,-331.741,-29.521,-331.44 chr04 28620714 . G A 8416.42 PASS AB=0.433871;ABP=50.1102;AC=9;AF=0.214286;AN=42;AO=541;CIGAR=1X;DP=3234;DPB=3234;DPRA=0.705882;EPP=1177.78;EPPR=5839.93;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.9667;MQMR=59.9985;NS=21;NUMALT=1;ODDS=4.43769;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19254;QR=96107;RO=2692;RPL=0;RPP=1177.78;RPPR=5805.27;RPR=541;RUN=1;SAF=0;SAP=1177.78;SAR=541;SRF=4;SRP=5813.92;SRR=2688;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:199:95,104:95:3396:104:3698:-273.118,0,-245.95 0/1:154:71,83:71:2539:83:2935:-218.025,0,-182.402 0/1:133:81,52:81:2904:52:1864:-128.002,0,-221.556 0/0:303:303,0:303:10819:0:0:0,-91.2121,-973.611 0/0:352:352,0:352:12579:0:0:0,-105.963,-1131.94 0/0:107:106,1:106:3800:1:36:0,-28.6119,-338.599 0/1:211:127,84:127:4524:84:2974:-204.375,0,-343.81 0/1:170:97,73:97:3456:73:2593:-182.443,0,-260.076 0/0:344:344,0:344:12266:0:0:0,-103.554,-1103.79 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:27:21,6:21:756:6:216:-11.6627,0,-60.2394 0/0:162:161,1:161:5728:1:36:0,-45.1686,-512.041 0/1:176:105,71:105:3750:71:2548:-176.589,0,-284.718 0/0:175:175,0:175:6225:0:0:0,-52.6802,-560.347 0/0:146:146,0:146:5211:0:0:0,-43.9504,-469.13 0/0:124:124,0:124:4424:0:0:0,-37.3277,-398.331 0/1:89:49,40:49:1752:40:1427:-101.879,0,-131.172 0/1:81:56,25:56:2008:25:891:-56.1253,0,-156.61 0/0:191:191,0:191:6834:0:0:0,-57.4967,-615.129 0/0:59:57,1:57:2024:1:36:0,-14.2213,-178.832 chr04 28620726 . A T,C 71220.4 PASS AB=0.564372,0.435628;ABP=47.4613,47.4613;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2690,542;CIGAR=1X,1X;DP=3232;DPB=3232;DPRA=0,0.702367;EPP=5800.92,1171.28;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.57143,2;MQM=59.9929,59.9668;MQMR=0;NS=21;NUMALT=2;ODDS=5.56258;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=96327,19329;QR=0;RO=0;RPL=2685,541;RPP=5800.92,1171.28;RPPR=0;RPR=5,1;RUN=1,1;SAF=0,0;SAP=5844.27,1179.95;SAR=2690,542;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:197:0,92,105:0:0:92,105:3287,3760:-574.988,-306.991,-279.297,-268.354,0,-236.746 1/2:151:0,69,82:0:0:69,82:2465,2913:-438.696,-237.72,-216.949,-201.332,0,-176.648 1/2:135:0,82,53:0:0:82,53:2933,1896:-394.125,-154.963,-130.279,-239.519,0,-223.565 1/1:305:0,305,0:0:0:305,0:10904,0:-981.262,-91.8142,0,-981.262,-91.8142,-981.262 1/1:352:0,352,0:0:0:352,0:12608,0:-1134.53,-105.963,0,-1134.53,-105.963,-1134.53 1/1:107:0,106,1:0:0:106,1:3804,36:-342.197,-31.9092,0,-339.26,-28.6119,-338.959 1/2:212:0,129,83:0:0:129,83:4620,2950:-617.521,-240.747,-201.914,-377.13,0,-352.145 1/2:167:0,95,72:0:0:95,72:3401,2563:-486.594,-209.246,-180.648,-277.705,0,-256.031 1/1:343:0,343,0:0:0:343,0:12296,0:-1106.48,-103.253,0,-1106.48,-103.253,-1106.48 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:26:0,20,6:0:0:20,6:708,207:-74.8388,-17.1607,-11.1401,-58.025,0,-56.2188 1/1:163:0,161,2:0:0:161,2:5780,72:-519.953,-48.4658,0,-514.078,-42.2312,-513.476 1/2:174:0,104,70:0:0:104,70:3728,2500:-508.237,-204.181,-172.874,-304.413,0,-283.341 1/1:176:0,176,0:0:0:176,0:6298,0:-566.913,-52.9813,0,-566.913,-52.9813,-566.913 1/1:147:0,147,0:0:0:147,0:5249,0:-472.545,-44.2514,0,-472.545,-44.2514,-472.545 1/1:125:0,125,0:0:0:125,0:4458,0:-401.391,-37.6288,0,-401.391,-37.6288,-401.391 1/2:90:0,49,41:0:0:49,41:1760,1468:-263.593,-120.018,-105.267,-143.933,0,-131.591 1/2:83:0,57,26:0:0:57,26:2044,928:-242.727,-76.0115,-58.8528,-167.073,0,-159.246 1/1:190:0,190,0:0:0:190,0:6820,0:-613.868,-57.1957,0,-613.868,-57.1957,-613.868 1/1:58:0,57,1:0:0:57,1:2048,36:-184.232,-17.1587,0,-181.294,-13.8615,-180.993 chr04 28660117 . 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CAA GGT,GGA 38910.8 PASS AB=0.640687,0.350066;ABP=133.152,150.822;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1681,266;CIGAR=3X,2X1M;DP=1966;DPB=1966;DPRA=0,0.896861;EPP=3653.26,580.622;EPPR=0;GTI=1;LEN=3,2;MEANALT=2.19048,2.8;MQM=54.7418,59.7895;MQMR=0;NS=21;NUMALT=2;ODDS=4.21407;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56575,9181;QR=0;RO=0;RPL=0,0;RPP=3653.26,580.622;RPPR=0;RPR=1681,266;RUN=1,1;SAF=0,0;SAP=3653.26,580.622;SAR=1681,266;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:114:0,82,31:0:0:82,31:2716,1044:-303.865,-84.5688,-59.8843,-219.273,0,-209.941 1/2:80:0,52,27:0:0:52,27:1768,943:-219.464,-76.7726,-61.119,-142.764,0,-134.636 1/2:131:0,71,58:0:0:71,58:2440,2027:-362.069,-164.906,-143.533,-197.189,0,-179.729 1/1:85:0,85,0:0:0:85,0:2843,0:-255.818,-25.5876,0,-255.818,-25.5876,-255.818 1/1:97:0,96,0:0:0:96,0:3232,0:-290.413,-28.8989,0,-290.413,-28.8989,-290.413 1/1:126:0,122,1:0:0:122,1:4058,36:-364.25,-36.7257,0,-361.313,-33.7781,-361.012 1/2:117:0,67,47:0:0:67,47:2273,1621:-314.455,-131.771,-111.602,-182.77,0,-168.622 1/2:94:0,61,33:0:0:61,33:2063,1126:-258.447,-91.6675,-73.3047,-167.12,0,-157.186 1/1:251:0,249,0:0:0:249,0:8297,0:-745.51,-74.9565,0,-745.51,-74.9565,-745.51 1/1:14:0,14,0:0:0:14,0:462,0:-41.8514,-4.21442,0,-41.8514,-4.21442,-41.8514 1/1:13:0,12,0:0:0:12,0:398,0:-35.7828,-3.61236,0,-35.7828,-3.61236,-35.7828 1/2:37:0,26,11:0:0:26,11:878,382:-102.468,-31.4017,-23.575,-71.4106,0,-68.0992 1/1:86:0,85,0:0:0:85,0:2904,0:-260.809,-25.5876,0,-260.809,-25.5876,-260.809 1/2:98:0,60,38:0:0:60,38:2005,1318:-269.688,-107.472,-89.4104,-162.557,0,-151.118 1/1:181:0,179,0:0:0:179,0:6091,0:-547.143,-53.8844,0,-547.143,-53.8844,-547.143 1/1:94:0,94,0:0:0:94,0:3158,0:-284.188,-28.2968,0,-284.188,-28.2968,-284.188 1/1:104:0,104,0:0:0:104,0:3507,0:-315.536,-31.3071,0,-315.536,-31.3071,-315.536 1/2:45:0,36,9:0:0:36,9:1198,306:-121.974,-25.1597,-14.3226,-97.1524,0,-94.4432 1/2:41:0,30,11:0:0:30,11:1003,378:-112.099,-31.0378,-22.0069,-81.4018,0,-78.0904 1/1:118:0,116,0:0:0:116,0:3922,0:-351.911,-34.9195,0,-351.911,-34.9195,-351.911 1/1:40:0,40,0:0:0:40,0:1359,0:-122.359,-12.0412,0,-122.359,-12.0412,-122.359 chr04 28803425 . 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GCAA TCAG,TCAA 13022.1 PASS AB=0.482436,0.517564;ABP=4.15452,4.15452;AC=33,9;AF=0.785714,0.214286;AN=42;AO=713,225;CIGAR=1X2M1X,1X3M;DP=939;DPB=939;DPRA=0,1.12338;EPP=1551.27,491.592;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.57143,2;MQM=27.6157,40.12;MQMR=0;NS=21;NUMALT=2;ODDS=4.02667;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25249,7904;QR=0;RO=0;RPL=713,225;RPP=1551.27,491.592;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1551.27,491.592;SAR=713,225;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:25:0,9,16:0:0:9,16:323,572:-67.503,-45.8514,-43.1421,-21.97,0,-17.1535 1/2:42:0,11,31:0:0:11,31:396,1095:-117.882,-87.4068,-84.0955,-30.8173,0,-21.4854 1/2:81:0,46,35:0:0:46,35:1633,1228:-183.436,-93.5118,-79.6644,-90.2198,0,-79.6837 1/1:55:0,55,0:0:0:55,0:1950,0:-125.424,-16.5567,0,-125.424,-16.5567,-125.424 1/1:54:0,51,3:0:0:51,3:1790,108:-122.475,-15.3525,0,-114.228,-6.77034,-113.325 1/1:38:0,37,1:0:0:37,1:1320,34:-80.131,-11.1381,0,-77.6411,-8.34008,-77.34 1/2:56:0,28,28:0:0:28,28:983,933:-116.956,-69.2376,-60.8088,-47.9832,0,-39.5544 1/2:41:0,17,24:0:0:17,24:597,842:-92.7663,-62.516,-57.3985,-30.5191,0,-23.2943 1/1:109:0,108,0:0:0:108,0:3829,0:-257.175,-32.5112,0,-257.175,-32.5112,-257.175 1/1:5:0,5,0:0:0:5,0:180,0:-10.9182,-1.50515,0,-10.9182,-1.50515,-10.9182 1/1:4:0,4,0:0:0:4,0:144,0:-8.07766,-1.20412,0,-8.07766,-1.20412,-8.07766 1/2:26:0,15,11:0:0:15,11:536,392:-56.4232,-29.3153,-24.7999,-27.3954,0,-24.0841 1/1:74:0,74,0:0:0:74,0:2622,0:-169.565,-22.2762,0,-169.565,-22.2762,-169.565 1/2:50:0,26,24:0:0:26,24:917,838:-114.587,-64.2587,-56.4319,-50.6191,0,-43.3944 1/1:27:0,27,0:0:0:27,0:948,0:-63.0493,-8.12781,0,-63.0493,-8.12781,-63.0493 1/1:19:0,19,0:0:0:19,0:671,0:-55.5251,-5.71957,0,-55.5251,-5.71957,-55.5251 1/1:20:0,20,0:0:0:20,0:710,0:-55.7489,-6.0206,0,-55.7489,-6.0206,-55.7489 1/2:69:0,29,40:0:0:29,40:1034,1430:-158.088,-106.292,-97.5617,-52.0689,0,-40.0277 1/2:37:0,25,12:0:0:25,12:894,432:-83.2078,-33.3125,-25.7867,-50.2071,0,-46.5947 1/1:90:0,90,0:0:0:90,0:3163,0:-190.091,-27.0927,0,-190.091,-27.0927,-190.091 1/1:17:0,17,0:0:0:17,0:609,0:-33.6059,-5.11751,0,-33.6059,-5.11751,-33.6059 chr04 28906912 . T C 22329.4 PASS AB=0.536946;ABP=10.2307;AC=33;AF=0.785714;AN=42;AO=1066;CIGAR=1X;DP=1356;DPB=1356;DPRA=0;EPP=2317.8;EPPR=630.566;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.5075;MQMR=59.8824;NS=21;NUMALT=1;ODDS=8.46208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37875;QR=10355;RO=289;RPL=1066;RPP=2317.8;RPPR=630.566;RPR=0;RUN=1;SAF=1066;SAP=2317.8;SAR=0;SRF=289;SRP=630.566;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:18,32:18:644:32:1146:-88.3233,0,-43.2391 0/1:74:42,32:42:1500:32:1139:-80.4395,0,-113.018 0/1:65:25,40:25:896:40:1432:-109.606,0,-61.3934 1/1:85:0,85:0:0:85:3019:-271.887,-25.5876,0 1/1:152:5,147:5:180:147:5223:-453.125,-29.2045,0 1/1:57:0,57:0:0:57:2023:-182.338,-17.1587,0 0/1:85:31,54:31:1116:54:1908:-146.382,0,-75.1641 0/1:74:38,36:38:1364:36:1276:-92.8668,0,-100.756 1/1:60:1,59:1:32:59:2091:-185.232,-14.8625,0 1/1:7:0,7:0:0:7:239:-21.8427,-2.10721,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:24:9,15:9:324:15:532:-40.9884,0,-22.2811 1/1:115:0,115:0:0:115:4106:-369.26,-34.6185,0 0/1:84:47,37:47:1679:37:1312:-93.082,0,-126.081 1/1:81:0,80:0:0:80:2856:-256.845,-24.0824,0 1/1:53:1,52:1:36:52:1851:-163.243,-12.3563,0 1/1:42:0,42:0:0:42:1492:-134.542,-12.6433,0 0/1:104:57,47:57:2044:47:1660:-118.332,0,-152.924 0/1:49:15,34:15:540:34:1216:-94.924,0,-34.1861 1/1:58:0,58:0:0:58:2063:-185.912,-17.4597,0 1/1:33:0,33:0:0:33:1147:-103.303,-9.93399,0 chr04 28980127 . C T 39066.5 PASS AB=0.568876;ABP=162.145;AC=21;AF=0.5;AN=42;AO=2197;CIGAR=1X;DP=3862;DPB=3862;DPRA=0;EPP=4773.74;EPPR=3614.17;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9458;MQMR=60;NS=21;NUMALT=1;ODDS=23.7747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78742;QR=59545;RO=1663;RPL=0;RPP=4773.74;RPPR=3614.17;RPR=2197;RUN=1;SAF=2197;SAP=4773.74;SAR=0;SRF=1663;SRP=3614.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:202:129,73:129:4624:73:2616:-174.835,0,-355.515 0/1:57:27,30:27:972:30:1072:-79.6337,0,-70.6392 0/1:192:97,95:97:3472:95:3412:-249.496,0,-254.894 0/1:158:34,124:34:1220:124:4448:-352.924,0,-62.5441 0/1:433:193,240:193:6905:240:8603:-643.903,0,-491.17 0/1:229:99,130:99:3552:130:4664:-350.985,0,-250.952 0/1:293:158,135:158:5639:135:4828:-346.474,0,-419.43 0/1:173:108,65:108:3880:65:2329:-157.79,0,-297.315 0/1:534:193,340:193:6916:340:12196:-936.519,0,-461.697 0/1:43:17,26:17:612:26:932:-71.253,0,-42.4691 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:64:47,17:47:1673:17:612:-36.1475,0,-131.589 0/1:230:52,178:52:1872:178:6396:-506.488,0,-99.5222 0/1:139:58,80:58:2060:80:2872:-216.918,0,-143.917 0/1:341:101,240:101:3604:240:8604:-671.701,0,-221.916 0/1:114:37,77:37:1332:77:2756:-213.965,0,-85.865 0/1:118:39,79:39:1404:79:2817:-218.246,0,-91.1377 0/1:114:80,34:80:2864:34:1220:-75.7894,0,-223.68 0/1:95:54,41:54:1923:41:1472:-104.178,0,-144.748 0/1:238:90,148:90:3221:148:5285:-404.14,0,-218.465 0/1:89:45,44:45:1620:44:1572:-114.935,0,-119.298 chr04 28980152 . AGA AGGA 36615.7 PASS AB=0.553146;ABP=95.7968;AC=21;AF=0.5;AN=42;AO=2092;CIGAR=1M1I2M;DP=3782;DPB=4480.67;DPRA=0;EPP=4502.4;EPPR=3573.33;GTI=0;LEN=1;MEANALT=1.47619;MQM=59.9484;MQMR=60;NS=21;NUMALT=1;ODDS=27.6846;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74305;QR=58704;RO=1680;RPL=2087;RPP=4502.4;RPPR=3573.33;RPR=5;RUN=1;SAF=2092;SAP=4545.73;SAR=0;SRF=1680;SRP=3651.08;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:198:130,68:130:4545:68:2431:-159.423,0,-349.618 0/1:56:27,29:27:933:29:1004:-73.5393,0,-67.4218 0/1:187:96,91:96:3381:91:3229:-234.54,0,-248.214 0/1:153:34,118:34:1209:118:4191:-331.335,0,-63.0769 0/1:423:196,226:196:6820:226:7966:-589.601,0,-486.532 0/1:225:97,127:97:3396:127:4535:-340.527,0,-238.066 0/1:291:160,131:160:5579:131:4661:-332.053,0,-414.644 0/1:170:108,62:108:3754:62:2201:-147.178,0,-286.888 0/1:520:200,318:200:6973:318:11330:-863.292,0,-471.356 0/1:42:16,25:16:574:25:888:-67.5372,0,-39.2923 0/1:6:5,1:5:172:1:36:-1.79209,0,-14.0112 0/1:65:48,17:48:1691:17:600:-34.7622,0,-132.909 0/1:218:52,166:52:1811:166:5948:-469.802,0,-97.644 0/1:139:59,79:59:2013:79:2776:-208.177,0,-139.536 0/1:336:102,234:102:3562:234:8279:-643.904,0,-219.641 0/1:110:37,73:37:1291:73:2620:-202.934,0,-83.3743 0/1:118:41,76:41:1425:76:2682:-206.041,0,-92.9622 0/1:114:81,32:81:2863:32:1135:-68.082,0,-223.532 0/1:94:55,38:55:1915:38:1364:-94.7054,0,-144.27 0/1:230:90,140:90:3203:140:4982:-379.295,0,-219.257 0/1:87:46,41:46:1594:41:1447:-104.336,0,-117.556 chr04 28980295 . T C 34546 PASS AB=0.620814;ABP=389.182;AC=16;AF=0.380952;AN=42;AO=2291;CIGAR=1X;DP=4106;DPB=4106;DPRA=4.6443;EPP=4977.85;EPPR=3939.89;GTI=8;LEN=1;MEANALT=1.10526;MQM=36.5063;MQMR=44.7601;NS=21;NUMALT=1;ODDS=10.7555;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81724;QR=64322;RO=1813;RPL=2291;RPP=4977.85;RPPR=3939.89;RPR=0;RUN=1;SAF=0;SAP=4977.85;SAR=2291;SRF=0;SRP=3939.89;SRR=1813;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:308:46,262:46:1656:262:9349:-683.871,0,-41.491 0/1:121:41,80:41:1461:80:2876:-208.572,0,-81.2229 0/1:294:84,210:84:2994:210:7499:-547.276,0,-170.619 0/1:400:142,258:142:5032:258:9170:-603.611,0,-283.077 0/1:356:274,82:274:9768:82:2946:-44.3588,0,-661.835 0/0:109:107,2:107:3746:2:72:0,-26.3074,-296.307 0/1:317:47,270:47:1673:270:9572:-722.391,0,-38.7758 1/1:380:19,360:19:684:360:12807:-1038.3,-57.8411,0 0/1:198:128,70:128:4527:70:2501:-76.873,0,-302.002 0/0:10:10,0:10:345:0:0:0,-3.0103,-27.8481 0/1:16:6,10:6:216:10:360:-26.1236,0,-12.5962 0/1:70:15,55:15:532:55:1961:-146.651,0,-19.5762 0/0:169:149,20:149:5341:20:720:0,-14.8672,-381.016 0/1:170:72,98:72:2524:98:3509:-211.872,0,-164.716 0/1:142:99,43:99:3470:43:1548:-34.4398,0,-242.417 0/0:117:107,10:107:3743:10:345:0,-15.8355,-287.114 0/1:164:88,75:88:3130:75:2700:-171.045,0,-201.554 0/1:273:34,239:34:1197:239:8513:-644.827,0,-14.8211 0/1:217:78,139:78:2785:139:4988:-315.67,0,-164.609 0/0:194:186,8:186:6605:8:288:0,-33.4075,-494.861 0/0:81:81,0:81:2893:0:0:0,-24.3834,-225.168 chr04 28980298 . TGA TA,TTA 3745.41 PASS AB=0.266482,0.142549;ABP=1202.75,516.852;AC=13,2;AF=0.309524,0.047619;AN=42;AO=764,98;CIGAR=1M1D1M,1M1X1M;DP=4112;DPB=3857.33;DPRA=0,1.22321;EPP=1662.02,215.815;EPPR=7049.44;GTI=6;LEN=1,1;MEANALT=1.47619,2.6;MQM=27.7435,59.3776;MQMR=42.5772;NS=21;NUMALT=2;ODDS=8.46317;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26886,3452;QR=115374;RO=3245;RPL=764,98;RPP=1662.02,215.815;RPPR=7049.44;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1662.02,215.815;SAR=764,98;SRF=0;SRP=7049.44;SRR=3245;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:309:279,16,13:279:9903:16,13:568,460:0,-50.8302,-787.678,-46.4825,-755.027,-784.312 0/1:120:104,15,0:104:3712:15,0:540,0:-1.12437,0,-284.781,-32.4315,-289.297,-321.712 0/2:293:245,13,35:245:8727:13,35:445,1225:-25.9736,-73.522,-742.534,0,-646.787,-662.476 0/1:401:343,58,0:343:12155:58,0:2045,0:-16.7995,0,-872.833,-120.053,-890.293,-1010.07 0/1:357:227,130,0:227:8090:130,0:4561,0:-201.757,0,-505.036,-270.091,-544.17,-813.984 0/1:110:64,46,0:64:2283:46,0:1632,0:-79.7547,0,-172.021,-99.0206,-185.868,-284.582 0/0:323:303,20,0:303:10787:20,0:712,0:0,-47.855,-875.542,-91.2121,-881.562,-924.643 0/0:380:373,5,1:373:13254:5,1:180,27:0,-101.853,-1124.57,-110.429,-1124.22,-1134.33 0/1:194:131,63,0:131:4620:63,0:2225,0:-100.314,0,-269.232,-139.749,-288.197,-427.667 0/1:10:5,5,0:5:180:5,0:165,0:-8.59639,0,-13.5371,-10.1015,-15.0423,-24.8378 0/1:16:13,3,0:13:466:3,0:108,0:-2.84489,0,-35.7067,-6.75828,-36.6098,-43.0814 0/0:72:63,9,0:63:2250:9,0:316,0:0,-0.0790452,-171.714,-18.9649,-174.423,-193.036 0/1:164:93,71,0:93:3300:71,0:2436,0:-116.899,0,-219.282,-144.895,-240.655,-385.264 0/2:170:124,14,31:124:4419:14,31:496,1096:-51.9907,-59.8224,-362.502,0,-277.447,-297.633 0/1:139:108,31,0:108:3840:31,0:1104,0:-32.621,0,-242.677,-65.1322,-252.009,-316.87 0/1:117:69,48,0:69:2476:48,0:1682,0:-85.4823,0,-175.228,-106.253,-189.677,-295.627 0/1:164:122,42,0:122:4320:42,0:1508,0:-57.3066,0,-315.141,-94.0322,-327.784,-421.522 0/0:277:261,15,0:261:9274:15,0:536,0:0,-45.5519,-757.963,-78.5688,-762.479,-795.48 0/0:218:176,24,18:176:6274:24,18:852,644:0,-3.23257,-438.086,-0.426716,-392.792,-437.17 0/1:196:107,89,0:107:3784:89,0:3125,0:-152.205,0,-279.444,-184.415,-306.235,-490.347 0/1:82:35,47,0:35:1260:47,0:1650,0:-90.2277,0,-88.2768,-100.764,-102.425,-202.868 chr04 28980314 . T C 19909.6 PASS AB=0.225008;ABP=8281.73;AC=11;AF=0.261905;AN=42;AO=2872;CIGAR=1X;DP=17718;DPB=17718;DPRA=2.10138;EPP=6239.48;EPPR=32234.2;GTI=2;LEN=1;MEANALT=1.16667;MQM=37.6563;MQMR=47.3315;NS=21;NUMALT=1;ODDS=22.4626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102924;QR=529964;RO=14843;RPL=0;RPP=6239.48;RPPR=32234.2;RPR=2872;RUN=1;SAF=2872;SAP=6239.48;SAR=0;SRF=14843;SRP=32234.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:1770:1320,450:1320:47158:450:16121:-814.249,0,-3583.44 0/1:1370:1020,350:1020:36499:350:12537:-648.406,0,-2708.26 0/1:1629:1278,351:1278:45666:351:12561:-558.137,0,-3469.78 0/1:1270:977,293:977:34999:293:10471:-490.655,0,-2651.8 0/0:974:962,11:962:34370:11:396:0,-259.661,-2927.78 0/0:322:319,3:319:11360:3:108:0,-87.4464,-981.874 0/1:1820:1294,526:1294:46106:526:18873:-1047.98,0,-3401.74 0/1:1138:907,231:907:32280:231:8284:-349.804,0,-2454.54 0/0:834:834,0:834:29732:0:0:0,-251.059,-2538.57 0/0:107:101,6:101:3586:6:212:0,-14.0497,-294.639 0/1:182:134,48:134:4797:48:1724:-91.6188,0,-356.649 0/1:507:401,106:401:14319:106:3792:-165.11,0,-1089.18 0/0:723:721,1:721:25722:1:36:0,-214.27,-2193.85 0/0:566:565,1:565:20185:1:36:0,-167.037,-1729.1 0/0:564:563,1:563:20148:1:36:0,-166.435,-1717.57 0/0:304:304,0:304:10869:0:0:0,-91.5131,-968.789 0/1:1247:1062,184:1062:37845:184:6608:-201.116,0,-2963.57 0/1:948:781,167:781:27892:167:6004:-216.237,0,-2116.72 0/1:723:593,130:593:21139:130:4676:-172.562,0,-1627.66 0/0:556:543,13:543:19419:13:449:0,-129.337,-1654 0/0:164:164,0:164:5873:0:0:0,-49.3689,-511.058 chr04 28980320 . GGA GGAATTGA 13034.5 PASS AB=0.295402;ABP=2217.29;AC=10;AF=0.238095;AN=42;AO=2461;CIGAR=1M5I2M;DP=17873;DPB=21979.7;DPRA=0;EPP=5347;EPPR=33450.2;GTI=4;LEN=5;MEANALT=1.38095;MQM=33.8753;MQMR=47.8602;NS=21;NUMALT=1;ODDS=12.8513;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81224;QR=545389;RO=15403;RPL=0;RPP=5347;RPPR=33450.2;RPR=2461;RUN=1;SAF=2461;SAP=5347;SAR=0;SRF=15403;SRP=33450.2;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:1799:1735,64:1735:61415:64:2054:0,-371.748,-5162.36 0/0:1382:1377,3:1377:48926:3:105:0,-406.808,-4168.94 0/0:1645:1467,177:1467:52006:177:5822:0,-14.8326,-4039.13 0/1:1288:1130,158:1130:39962:158:5210:-41.9896,0,-3091.02 0/1:979:683,295:683:24155:295:9613:-495.876,0,-1875.06 0/1:324:238,86:238:8468:86:2856:-139.436,0,-663.893 0/0:1841:1712,129:1712:60533:129:4302:0,-197.019,-4841.31 0/0:1157:1069,87:1069:37863:87:2929:0,-106.243,-3037.85 0/1:832:496,334:496:17489:334:10976:-653.767,0,-1323.33 0/1:108:82,26:82:2889:26:864:-39.6279,0,-224.382 0/0:180:172,8:172:6137:8:271:0,-31.3832,-503.756 0/0:509:483,26:483:17114:26:864:0,-81.0151,-1410 0/1:714:423,291:423:15027:291:9566:-574.142,0,-1136.88 0/1:568:367,201:367:12906:201:6599:-372.824,0,-990.067 0/1:561:343,218:343:12108:218:7176:-422.75,0,-919.962 0/0:307:284,23:284:10070:23:752:0,-29.9986,-843.825 0/0:1276:1246,30:1246:44034:30:999:0,-301.454,-3808.07 0/0:961:908,52:908:32070:52:1757:0,-143.989,-2616.91 0/0:726:662,63:662:23584:63:2096:0,-45.9632,-1886.69 0/1:554:408,146:408:14489:146:4925:-240.946,0,-1132.15 0/1:162:118,44:118:4144:44:1488:-74.3961,0,-324.06 chr04 28980330 . CTGAT CTGAC,ATGAC 140459 PASS AB=0.301352,0.363154;ABP=6165.41,2730.32;AC=18,11;AF=0.428571,0.261905;AN=42;AO=5418,6089;CIGAR=4M1X,1X3M1X;DP=17979;DPB=17979;DPRA=0,0;EPP=11517.5,13095.1;EPPR=13746.6;GTI=1;LEN=1,5;MEANALT=4.85714,5.16667;MQM=48.1203,40.2509;MQMR=49.075;NS=21;NUMALT=2;ODDS=36.0268;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=193703,214489;QR=225832;RO=6389;RPL=29,15;RPP=11517.5,13095.1;RPPR=13746.6;RPR=5389,6074;RUN=1,1;SAF=5418,6089;SAP=11768,13225.1;SAR=0,0;SRF=6389;SRP=13876.5;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:1790:391,571,815:391:13786:571,815:20431,28582:-2585,-1140.13,-2065.38,-465.425,0,-1317.22 1/2:1375:177,424,767:177:6255:424,767:15172,27098:-2667.73,-1550.2,-1931.03,-662.338,0,-939.915 1/2:1645:448,452,736:448:15859:452,736:16182,25983:-1921.54,-818.197,-1906.21,-14.1233,0,-1016.65 1/2:1286:333,434,514:333:11723:434,514:15502,18119:-1632.76,-535.809,-1297.99,-304.37,0,-1042.47 0/1:995:588,385,19:588:20785:385,19:13763,650:-942.667,0,-1451.8,-1068.18,-1516.21,-2630.14 0/1:330:216,112,2:216:7653:112,2:4007,60:-261.213,0,-559.58,-321.496,-588.555,-914.136 1/2:1846:432,666,738:432:15323:666,738:23794,26037:-2481.88,-773.321,-1776.53,-634.908,0,-1616.44 1/2:1160:318,351,486:318:11201:351,486:12559,17107:-1321.36,-445.711,-1219.3,-92.1192,0,-825.07 0/1:848:603,242,1:603:21370:242,1:8620,36:-521.177,0,-1534.69,-699.817,-1604.66,-2306.95 0/1:109:66,27,15:66:2300:27,15:964,522:-57.3723,0,-171.218,-36.6304,-138.73,-211.45 1/2:181:28,67,86:28:986:67,86:2400,3034:-331.645,-153.254,-210.453,-109.451,0,-160.928 0/2:510:124,127,259:124:4377:127,259:4507,9058:-666.062,-358.699,-667.989,0,-2.83721,-269.556 0/1:735:534,197,0:534:18913:197,0:7014,0:-410.6,0,-1366.71,-571.35,-1426.01,-1997.33 0/1:584:488,89,2:488:17129:89,2:3179,59:-112.095,0,-1287.37,-254.379,-1309.54,-1567.9 0/1:572:382,184,6:382:13543:184,6:6587,211:-421.954,0,-960.256,-520.232,-998.929,-1534.07 0/1:311:172,137,0:172:6091:137,0:4920,0:-349.571,0,-445.75,-401.348,-486.991,-888.344 1/2:1276:191,317,760:191:6749:317,760:11332,26739:-2437.89,-1590.18,-2031.81,-368.156,0,-676.421 0/2:964:200,199,559:200:7076:199,559:7147,19772:-1468.58,-984.175,-1481.53,0,-12.6505,-388.986 0/2:730:219,205,306:219:7793:205,306:7324,10797:-783.144,-283.051,-830.282,0,-42.9247,-516.827 0/1:566:369,177,18:369:13054:177,18:6319,625:-401.036,0,-958.586,-463.41,-963.16,-1469.84 0/1:166:110,55,0:110:3866:55,0:1980,0:-128.409,0,-281.64,-161.522,-298.196,-459.727 chr04 28980349 . CA TT,CG 109334 PASS AB=0.363587,0.145369;ABP=2708.06,19262.5;AC=11,9;AF=0.261905,0.214286;AN=42;AO=6085,2591;CIGAR=2X,1M1X;DP=17943;DPB=17943;DPRA=2.98006,0;EPP=13216.4,5629.3;EPPR=20056.6;GTI=2;LEN=2,1;MEANALT=2.77778,2.66667;MQM=40.1525,33.8614;MQMR=52.9374;NS=21;NUMALT=2;ODDS=15.0548;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=215311,92164;QR=328339;RO=9243;RPL=6085,2590;RPP=13216.4,5620.61;RPPR=20056.6;RPR=0,1;RUN=1,1;SAF=6085,2590;SAP=13216.4,5620.61;SAR=0,1;SRF=9243;SRP=20073.9;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:1789:913,813,63:913:32448:813,63:28699,2222:-1971.17,0,-2297,-2090.11,-2385.84,-4612.85 0/1:1376:604,766,4:604:21454:766,4:27128,144:-1874.45,0,-1452.02,-2045.9,-1672.24,-3727.3 0/1:1642:723,738,181:723:25686:738,181:26214,6476:-1839.23,0,-1791.32,-1597.61,-1554.21,-3556.58 0/1:1286:607,514,163:607:21551:514,163:18239,5765:-1252.21,0,-1536.57,-1024.73,-1281.09,-2666.94 0/2:997:664,17,314:664:23571:17,314:608,11241:-587.477,-739.259,-2652.35,0,-1870.08,-1823.66 0/2:327:237,1,89:237:8441:1,89:25,3151:-155.99,-225.405,-912.512,0,-685.558,-660.696 0/1:1841:958,741,139:958:34105:741,139:26108,4909:-1692.71,0,-2455.62,-1623.76,-2321.35,-4260.58 0/1:1160:580,487,92:580:20583:487,92:17316,3254:-1162.09,0,-1477.3,-1102.21,-1389.42,-2698.4 0/2:843:491,1,351:491:17478:1,351:36,12542:-738.729,-883.653,-2307.86,0,-1421.61,-1318.83 0/2:109:68,15,26:68:2423:15,26:524,928:-47.1458,-27.1733,-218.887,0,-155.789,-188.397 0/1:181:86,85,9:86:3040:85,9:3026,316:-203.617,0,-213.448,-206.392,-215.923,-442.696 0/1:509:224,257,28:224:7896:257,28:9091,986:-637.153,0,-543.017,-632.942,-548.741,-1244.88 0/2:730:423,0,305:423:14993:0,305:0,10830:-643.495,-770.831,-1992.03,0,-1221.3,-1129.49 0/2:579:366,1,212:366:12904:1,212:36,7509:-421.227,-528.553,-1578.65,0,-1047.53,-986.559 0/2:571:337,6,228:337:11951:6,228:214,8138:-473.487,-557.975,-1529.62,0,-956.473,-904.797 0/0:312:283,0,28:283:10088:0,28:0,995:0,-85.1915,-907.533,-13.9038,-836.207,-827.779 0/1:1276:475,763,34:475:16864:763,34:27068,1215:-2008.43,0,-1126.69,-2064.62,-1269.58,-3410.74 0/1:959:343,560,55:343:12187:560,55:19669,1964:-1416.26,0,-786.534,-1377.81,-813.415,-2316.35 0/1:728:357,301,67:357:12727:301,67:10650,2368:-729.534,0,-915.675,-668.435,-837.718,-1654.53 0/2:563:388,19,156:388:13814:19,156:660,5557:-285.312,-350.868,-1467.88,0,-1071.49,-1075.77 0/2:165:116,0,47:116:4135:0,47:0,1654:-84.3063,-119.226,-456.277,0,-337.037,-322.888 chr04 28980355 . ACG GCG,GTG,GCA 310957 PASS AB=0.681386,0.165349,0.150745;ABP=4992.62,16987.1,18501.9;AC=22,11,9;AF=0.52381,0.261905,0.214286;AN=42;AO=12177,2887,2660;CIGAR=1X2M,2X1M,1X1M1X;DP=17770;DPB=17770.3;DPRA=0,2.81613,0;EPP=26445,6272.05,5779.13;EPPR=7.35324;GTI=4;LEN=1,2,3;MEANALT=4.38095,4.45,4.38095;MQM=50.2647,37.5178,33.8323;MQMR=57;NS=21;NUMALT=3;ODDS=9.33617;PAIRED=0,0,0;PAIREDR=0;PAO=0.333333,0.333333,0.333333;PQA=12,12,12;PQR=0;PRO=0;QA=433675,101937,92596;QR=72;RO=2;RPL=12177,2887,2659;RPP=26445,6272.05,5770.44;RPPR=7.35324;RPR=0,0,1;RUN=1,1,1;SAF=12177,2887,2659;SAP=26445,6272.05,5770.44;SAR=0,0,1;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:1776:0,1248,452,69:0:0:1248,452,69:44318,15879,2401:-4728.29,-1196.46,-820.775,-3531.85,0,-3395.79,-4559.15,-1027.33,-3362.72,-4538.38 1/2:1358:0,1004,348,5:0:0:1004,348,5:35735,12306,180:-3707.14,-938.843,-636.609,-2768.32,0,-2663.56,-3693.83,-925.534,-2755.01,-3692.33 1/2:1633:0,1083,356,183:0:0:1083,356,183:38639,12623,6440:-4031.72,-950.13,-624.115,-3081.6,0,-2974.44,-3572.64,-491.053,-2622.53,-3517.55 1/2:1273:0,810,292,168:0:0:810,292,168:28810,10255,5796:-3074.6,-773.112,-529.278,-2301.5,0,-2213.6,-2659.95,-358.46,-1886.85,-2609.37 1/3:988:0,655,13,320:0:0:655,13,320:23428,453,11045:-2689.88,-780.875,-583.701,-2655.46,-746.452,-2651.55,-1909,0,-1874.58,-1812.67 1/3:328:0,233,3,91:0:0:233,3,91:8335,108,3179:-910.46,-230.964,-160.824,-902.217,-222.72,-901.313,-679.512,0,-671.269,-652.118 1/2:1803:0,1139,520,142:0:0:1139,520,142:40416,18354,4943:-4557.25,-1401,-1058.13,-3156.27,0,-2999.73,-4197.2,-1040.95,-2796.22,-4154.45 1/2:1141:0,807,234,97:0:0:807,234,97:28734,8247,3386:-2897.48,-621.249,-378.317,-2276.25,0,-2205.81,-2653.59,-377.355,-2032.36,-2624.39 1/3:841:0,481,1,358:0:0:481,1,358:17151,36,12477:-2284.99,-886.98,-742.184,-2282.05,-884.043,-2281.75,-1397.97,0,-1395.04,-1290.21 1/3:109:0,76,6,26:0:0:76,6,26:2700,216,918:-284.948,-67.1191,-44.2408,-268.685,-50.853,-266.879,-217.834,0,-201.572,-210.007 1/2:176:0,120,47,9:0:0:120,47,9:4281,1669,320:-460.819,-127.496,-91.3725,-333.336,0,-319.187,-437.525,-104.204,-310.043,-434.816 1/2:504:0,367,106,29:0:0:367,106,29:13079,3754,1005:-1315.32,-283.019,-172.541,-1032.32,0,-1000.41,-1241.93,-209.629,-958.93,-1233.2 1/3:730:0,410,2,315:0:0:410,2,315:14663,72,10960:-1976.78,-781.132,-657.709,-1971.14,-775.484,-1970.53,-1195.63,0,-1189.98,-1100.8 1/3:577:1,354,2,218:1:36:354,2,218:12578,61,7572:-1560.94,-536.364,-432.737,-1556.58,-534.642,-1558.92,-1021.97,0,-1020.25,-959.279 1/3:573:0,339,1,231:0:0:339,1,231:12113,36,8097:-1562.4,-575.256,-473.207,-1559.69,-572.545,-1559.39,-987.208,0,-984.497,-917.67 1/1:310:0,280,0,28:0:0:280,0,28:9990,0,977:-898.718,-84.2884,0,-898.718,-84.2884,-898.718,-828.143,-13.692,-828.143,-819.714 1/2:1257:0,1036,185,35:0:0:1036,185,35:36893,6556,1220:-3475.64,-517.303,-205.436,-2958.36,0,-2902.67,-3387.72,-429.396,-2870.45,-3377.19 1/2:953:1,725,168,58:1:36:725,168,58:25738,5957,2042:-2467.65,-445.726,-230.413,-2019.3,0,-1971.66,-2319.92,-300.63,-1874.21,-2305.39 1/2:724:0,519,136,69:0:0:519,136,69:18508,4824,2363:-1843.97,-363.044,-206.81,-1480.94,0,-1440,-1674.92,-193.999,-1311.89,-1654.14 1/3:554:0,381,14,159:0:0:381,14,159:13641,495,5531:-1512.63,-402.665,-287.973,-1475.3,-365.337,-1471.09,-1109.96,0,-1072.64,-1062.1 1/3:162:0,110,1,50:0:0:110,1,50:3925,36,1744:-446.062,-126.059,-92.9458,-443.124,-123.121,-442.823,-320.034,0,-317.096,-304.982 chr04 28980390 . G C 17318.2 PASS AB=0.249366;ABP=3661.42;AC=18;AF=0.428571;AN=42;AO=1711;CIGAR=1X;DP=7584;DPB=7584;DPRA=11.4409;EPP=3718.4;EPPR=12747.4;GTI=6;LEN=1;MEANALT=1.2;MQM=59.4237;MQMR=56.2667;NS=21;NUMALT=1;ODDS=3.33087;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61053;QR=209444;RO=5869;RPL=0;RPP=3718.4;RPPR=12747.4;RPR=1711;RUN=1;SAF=0;SAP=3718.4;SAR=1711;SRF=0;SRP=12747.4;SRR=5869;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:299:286,13:286:10196:13:468:0,-47.559,-870.567 0/0:547:521,26:521:18541:26:921:0,-81.4758,-1571.52 0/1:296:214,81:214:7665:81:2912:-173.128,0,-595.847 0/1:731:576,155:576:20573:155:5496:-274.535,0,-1630.6 0/1:665:509,156:509:18091:156:5592:-303.086,0,-1426.69 0/1:257:182,75:182:6518:75:2683:-164.189,0,-509.059 0/1:642:548,92:548:19580:92:3278:-102.143,0,-1547.29 0/1:301:271,30:271:9670:30:1067:-5.73083,0,-773.161 0/1:482:310,172:310:11059:172:6134:-406.8,0,-847.713 0/1:25:19,6:19:664:6:216:-12.2648,0,-52.0467 0/0:33:33,0:33:1169:0:0:0,-9.93399,-105.174 0/1:70:58,12:58:2035:12:432:-18.1491,0,-160.977 0/1:417:270,147:270:9626:147:5248:-346.694,0,-740.677 0/1:271:160,111:160:5714:111:3953:-274.015,0,-428.149 0/1:385:225,160:225:8040:160:5682:-395.402,0,-607.09 0/1:266:227,38:227:8111:38:1360:-42.5502,0,-648.661 0/1:523:448,75:448:16025:75:2656:-81.7751,0,-1282.4 0/1:372:318,54:318:11358:54:1932:-62.1218,0,-903.03 0/1:385:314,71:314:11234:71:2548:-113.63,0,-889.556 0/1:379:221,158:221:7912:158:5640:-393.606,0,-597.608 0/1:238:159,79:159:5663:79:2835:-183.708,0,-438.12 chr04 29009864 . T G 7705.97 PASS AB=0.493132;ABP=3.30858;AC=9;AF=0.214286;AN=42;AO=360;CIGAR=1X;DP=1768;DPB=1768;DPRA=1.05371;EPP=7.73928;EPPR=3.109;GTI=0;LEN=1;MEANALT=1;MQM=59.7889;MQMR=59.892;NS=21;NUMALT=1;ODDS=14.339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12432;QR=50009;RO=1408;RPL=0;RPP=784.74;RPPR=3051.76;RPR=360;RUN=1;SAF=194;SAP=7.73928;SAR=166;SRF=701;SRP=3.06582;SRR=707;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:36,31:36:1257:31:1072:-76.611,0,-93.2612 0/1:53:23,30:23:820:30:1036:-77.5916,0,-58.1679 0/1:33:14,19:14:504:19:652:-49.0643,0,-35.7641 0/0:84:84,0:84:2995:0:0:0,-25.2865,-269.782 0/0:137:136,1:136:4855:1:36:0,-37.6428,-432.057 0/0:84:84,0:84:2948:0:0:0,-25.2865,-265.555 0/1:116:53,63:53:1888:63:2207:-163.962,0,-135.274 0/1:76:45,31:45:1600:31:1043:-71.2894,0,-121.412 0/0:194:194,0:194:6914:0:0:0,-58.3998,-621.63 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:22:11,11:11:377:11:375:-27.447,0,-27.6353 0/0:76:76,0:76:2694:0:0:0,-22.8783,-242.696 0/1:102:52,50:52:1864:50:1722:-124.555,0,-137.334 0/0:130:130,0:130:4633:0:0:0,-39.1339,-417.125 0/0:63:63,0:63:2255:0:0:0,-18.9649,-202.192 0/0:38:38,0:38:1330:0:0:0,-11.4391,-119.998 0/1:139:53,86:53:1887:86:2986:-227.102,0,-128.256 0/1:120:82,38:82:2899:38:1303:-81.4391,0,-225.024 0/0:79:79,0:79:2798:0:0:0,-23.7814,-252.044 0/0:128:128,0:128:4523:0:0:0,-38.5318,-407.244 chr04 29147332 . G A 1154.07 PASS AB=0.302941;ABP=117.69;AC=9;AF=0.214286;AN=42;AO=104;CIGAR=1X;DP=778;DPB=778;DPRA=1.02886;EPP=228.843;EPPR=5.18822;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.9659;NS=21;NUMALT=1;ODDS=0.748321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3642;QR=23854;RO=674;RPL=104;RPP=228.843;RPPR=1440.64;RPR=0;RUN=1;SAF=104;SAP=228.843;SAR=0;SRF=321;SRP=6.30939;SRR=353;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:24,5:24:856:5:176:-7.45515,0,-68.6312 0/1:24:20,4:20:716:4:136:-5.35082,0,-57.5348 0/1:15:10,5:10:356:5:176:-11.6696,0,-27.8658 0/0:26:26,0:26:915:0:0:0,-7.82678,-82.6654 0/0:59:59,0:59:2094:0:0:0,-17.7608,-188.729 0/0:31:31,0:31:1090:0:0:0,-9.33193,-98.4079 0/1:46:27,19:27:955:19:655:-45.4237,0,-72.4175 0/1:38:25,13:25:892:13:460:-30.2962,0,-69.1605 0/0:54:54,0:54:1903:0:0:0,-16.2556,-171.547 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/0:46:46,0:46:1630:0:0:0,-13.8474,-146.987 0/1:22:13,9:13:449:9:316:-22.1562,0,-34.1148 0/0:40:40,0:40:1428:0:0:0,-12.0412,-128.806 0/0:20:20,0:20:707:0:0:0,-6.0206,-63.9546 0/0:17:17,0:17:595:0:0:0,-5.11751,-53.8767 0/1:82:46,36:46:1622:36:1267:-89.6475,0,-121.583 0/1:74:63,11:63:2226:11:388:-12.9811,0,-178.327 0/0:36:35,1:35:1229:1:32:0,-7.63777,-107.713 0/0:101:101,0:101:3583:0:0:0,-30.404,-322.679 chr04 29186161 . TGAA TGAG,CGAG 53159.3 PASS AB=0.522727,0.470779;ABP=7.15584,9.86313;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1892,444;CIGAR=3M1X,1X2M1X;DP=2346;DPB=2346;DPRA=0,0.853275;EPP=3705.09,825.138;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2,2.46154;MQM=60,59.9527;MQMR=60;NS=21;NUMALT=2;ODDS=19.6941;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67564,15668;QR=36;RO=1;RPL=0,0;RPP=4111.44,967.144;RPPR=5.18177;RPR=1892,444;RUN=1,1;SAF=1844,427;SAP=3705.09,825.138;SAR=48,17;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:49:0,29,20:0:0:29,20:1040,694:-141.594,-56.7606,-48.0308,-85.1845,0,-79.1639 1/2:38:0,16,22:0:0:16,22:576,787:-111.532,-64.5323,-59.7158,-47.3585,0,-40.7358 1/2:122:0,48,74:0:0:48,74:1728,2620:-354.769,-213.771,-199.322,-141.356,0,-119.08 1/1:143:0,142,1:0:0:142,1:5094,34:-458.262,-42.7463,0,-455.504,-39.6484,-455.203 1/1:186:0,180,4:0:0:180,4:6407,144:-576.358,-54.1854,0,-564.608,-42.4357,-563.404 1/1:73:0,70,3:0:0:70,3:2493,108:-224.262,-21.0721,0,-215.45,-11.9,-214.546 1/2:162:0,71,89:0:0:71,89:2526,3128:-460.459,-254.597,-233.224,-205.856,0,-179.064 1/2:186:0,108,78:0:0:108,78:3884,2751:-541.182,-224.296,-191.785,-317.241,0,-293.761 1/1:169:0,169,0:0:0:169,0:6046,0:-544.242,-50.8741,0,-544.242,-50.8741,-544.242 1/1:9:0,8,0:0:0:8,0:284,0:-25.5441,-2.40824,0,-25.5441,-2.40824,-25.5441 1/1:20:0,20,0:0:0:20,0:720,0:-65.1288,-6.0206,0,-65.1288,-6.0206,-65.1288 1/2:32:0,23,9:0:0:23,9:824,322:-93.8169,-26.615,-19.6913,-67.5596,0,-64.8504 1/1:423:0,422,0:0:0:422,0:15076,0:-1356.31,-127.035,0,-1356.31,-127.035,-1356.31 1/2:130:1,68,59:1:36:68,59:2429,2066:-362.891,-165.151,-147.619,-195.097,0,-180.273 1/1:139:0,139,0:0:0:139,0:4945,0:-445.199,-41.8432,0,-445.199,-41.8432,-445.199 1/1:19:0,19,0:0:0:19,0:657,0:-59.4504,-5.71957,0,-59.4504,-5.71957,-59.4504 1/1:37:0,36,1:0:0:36,1:1266,36:-113.879,-10.8371,0,-110.941,-7.53984,-110.64 1/2:107:0,56,51:0:0:56,51:2016,1810:-312.327,-147.829,-130.971,-164.855,0,-149.503 1/2:98:0,64,33:0:0:64,33:2271,1168:-280.164,-95.133,-75.8671,-185.025,0,-175.091 1/1:136:0,136,0:0:0:136,0:4849,0:-436.561,-40.9401,0,-436.561,-40.9401,-436.561 1/1:68:0,68,0:0:0:68,0:2433,0:-219.224,-20.47,0,-219.224,-20.47,-219.224 chr04 29190904 . ACCAGTT ACCGGTC,TCCGGTC 62983.1 PASS AB=0.522102,0.466222;ABP=8.09759,14.8927;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2469,569;CIGAR=3M1X2M1X,1X2M1X2M1X;DP=3090;DPB=3089.86;DPRA=0,2.11421;EPP=5115.44,1119.97;EPPR=0;GTI=0;LEN=7,7;MEANALT=3.52381,4.21429;MQM=59.9866,59.9104;MQMR=0;NS=21;NUMALT=2;ODDS=42.5511;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=83331,19477;QR=0;RO=0;RPL=2440,555;RPP=5115.44,1119.97;RPPR=0;RPR=29,14;RUN=1,1;SAF=0,0;SAP=5364.38,1238.58;SAR=2469,569;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:149:0,70,76:0:0:70,76:2422,2617:-409.442,-212.621,-191.549,-196.884,0,-174.005 1/2:85:0,42,41:0:0:42,41:1439,1401:-230.584,-113.765,-101.121,-116.882,0,-104.54 1/2:63:0,38,25:0:0:38,25:1281,870:-174.892,-71.0898,-59.6507,-104.146,0,-96.6203 1/1:121:0,117,1:0:0:117,1:3984,32:-358.465,-35.2205,0,-355.887,-32.6347,-355.586 1/1:283:0,277,1:0:0:277,1:9385,36:-844.357,-83.3853,0,-841.419,-80.4386,-841.118 1/1:134:0,132,0:0:0:132,0:4443,0:-399.75,-39.736,0,-399.75,-39.736,-399.75 1/2:149:0,83,63:0:0:83,63:2803,2157:-401.915,-174.725,-149.739,-227.191,0,-208.226 1/2:88:0,47,41:0:0:47,41:1562,1388:-239.251,-112.87,-98.7216,-126.716,0,-114.374 1/1:129:0,127,0:0:0:127,0:4295,0:-386.419,-38.2308,0,-386.419,-38.2308,-386.419 1/1:335:0,325,5:0:0:325,5:10884,178:-979.232,-97.8348,0,-964.724,-83.2791,-963.218 1/1:484:0,470,2:0:0:470,2:15798,67:-1421.35,-141.484,0,-1415.93,-136.051,-1415.32 1/2:128:0,60,65:0:0:60,65:2014,2255:-346.484,-183.355,-165.293,-163.177,0,-143.61 1/1:74:0,73,0:0:0:73,0:2448,0:-220.316,-21.9752,0,-220.316,-21.9752,-220.316 1/2:117:0,50,67:0:0:50,67:1686,2306:-324.267,-187.635,-172.584,-136.971,0,-116.802 1/1:87:0,83,0:0:0:83,0:2845,0:-255.992,-24.9855,0,-255.992,-24.9855,-255.992 1/1:67:0,63,0:0:0:63,0:2135,0:-192.116,-18.9649,0,-192.116,-18.9649,-192.116 1/1:77:0,76,1:0:0:76,1:2579,36:-232.002,-22.8783,0,-229.064,-19.581,-228.763 1/2:377:0,204,170:0:0:204,170:6830,5767:-1020.77,-467.701,-406.291,-553.108,0,-501.933 1/2:43:0,32,11:0:0:32,11:1113,367:-120.549,-30.0419,-20.4089,-90.8444,0,-87.5331 1/1:67:0,67,0:0:0:67,0:2258,0:-203.482,-20.169,0,-203.482,-20.169,-203.482 1/1:33:0,33,0:0:0:33,0:1127,0:-101.732,-9.93399,0,-101.732,-9.93399,-101.732 chr04 29207435 . TA AT,TC 48283.4 PASS AB=0.523522,0.466828;ABP=6.99439,10.9339;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1838,398;CIGAR=2X,1M1X;DP=2244;DPB=2244;DPRA=0,1.09091;EPP=3994.18,867.256;EPPR=11.6962;GTI=0;LEN=2,1;MEANALT=1.66667,2.27273;MQM=59.7029,59.9422;MQMR=60;NS=21;NUMALT=2;ODDS=22.5412;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65204,14235;QR=142;RO=4;RPL=1838,398;RPP=3994.18,867.256;RPPR=11.6962;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3994.18,867.256;SAR=1838,398;SRF=0;SRP=11.6962;SRR=4;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:68:1,37,30:1:36:37,30:1313,1061:-190.148,-83.4712,-75.2707,-104.035,0,-97.9413 1/2:117:0,71,45:0:0:71,45:2541,1616:-338.993,-131.824,-110.451,-207.168,0,-193.622 1/2:120:0,62,58:0:0:62,58:2211,2074:-349.664,-169.47,-150.806,-180.551,0,-163.091 1/1:119:0,119,0:0:0:119,0:4239,0:-381.673,-35.8226,0,-381.673,-35.8226,-381.673 1/1:304:0,296,8:0:0:296,8:10475,280:-942.082,-89.1049,0,-919.301,-65.9738,-916.893 1/1:78:0,78,0:0:0:78,0:2757,0:-248.364,-23.4803,0,-248.364,-23.4803,-248.364 1/2:185:0,91,92:0:0:91,92:3222,3296:-531.229,-268.804,-241.411,-262.421,0,-234.726 1/2:64:3,40,21:3:106:40,21:1417,756:-167.55,-53.0311,-49.6219,-106.794,0,-109.105 1/1:231:0,231,0:0:0:231,0:8192,0:-737.258,-69.5379,0,-737.258,-69.5379,-737.258 1/1:19:0,19,0:0:0:19,0:676,0:-61.1628,-5.71957,0,-61.1628,-5.71957,-61.1628 1/1:6:0,6,0:0:0:6,0:214,0:-19.6078,-1.80618,0,-19.6078,-1.80618,-19.6078 1/2:40:0,12,28:0:0:12,28:432,1004:-117.496,-82.247,-78.6347,-35.6088,0,-27.18 1/1:175:0,175,0:0:0:175,0:6214,0:-559.293,-52.6803,0,-559.293,-52.6803,-559.293 1/2:120:0,59,61:0:0:59,61:2089,2184:-348.621,-178.463,-160.702,-170.514,0,-152.151 1/1:142:0,142,0:0:0:142,0:5061,0:-455.49,-42.7463,0,-455.49,-42.7463,-455.49 1/1:75:0,75,0:0:0:75,0:2652,0:-238.879,-22.5773,0,-238.879,-22.5773,-238.879 1/1:112:0,112,0:0:0:112,0:3966,0:-357.13,-33.7154,0,-357.13,-33.7154,-357.13 1/2:67:0,31,36:0:0:31,36:1108,1280:-194.9,-104.663,-95.3311,-90.5933,0,-79.7562 1/2:48:0,31,16:0:0:31,16:1106,576:-137.154,-46.9987,-37.6667,-90.1541,0,-85.3376 1/1:91:0,88,3:0:0:88,3:3110,108:-279.751,-26.4906,0,-270.939,-17.3186,-270.036 1/1:63:0,63,0:0:0:63,0:2209,0:-199.066,-18.9649,0,-199.066,-18.9649,-199.066 chr04 29223634 . ATCTGAG TTTTGAG,TTTTGAA 24526.7 PASS AB=0.510242,0.482309;ABP=3.49959,4.47008;AC=33,9;AF=0.785714,0.214286;AN=42;AO=901,262;CIGAR=1X1M1X4M,1X1M1X3M1X;DP=1171;DPB=1171;DPRA=0,1.17178;EPP=1959.51,563.283;EPPR=0;GTI=0;LEN=7,7;MEANALT=1.85714,2.4;MQM=52.081,59.687;MQMR=0;NS=21;NUMALT=2;ODDS=5.80805;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31783,9211;QR=0;RO=0;RPL=0,1;RPP=1959.51,563.283;RPPR=0;RPR=901,261;RUN=1,1;SAF=901,262;SAP=1959.51,571.936;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:31:0,16,15:0:0:16,15:553,531:-88.1245,-43.607,-38.7906,-44.8658,0,-40.3504 1/2:21:0,10,11:0:0:10,11:356,393:-61.1752,-32.3914,-29.3811,-29.1389,0,-25.8276 1/2:81:0,40,40:0:0:40,40:1432,1414:-231.589,-115.087,-103.046,-116.559,0,-104.517 1/1:45:0,45,0:0:0:45,0:1578,0:-141.995,-13.5464,0,-141.995,-13.5464,-141.995 1/1:67:0,64,3:0:0:64,3:2243,100:-200.566,-19.2659,0,-192.472,-10.8386,-191.569 1/1:67:0,67,0:0:0:67,0:2366,0:-211.13,-20.169,0,-211.13,-20.169,-211.13 1/2:48:0,26,22:0:0:26,22:919,782:-138.458,-64.0669,-56.2401,-74.7448,0,-68.1221 1/2:139:0,67,70:0:0:67,70:2347,2460:-390.79,-200.317,-180.148,-190.565,0,-169.493 1/1:95:0,95,0:0:0:95,0:3389,0:-304.381,-28.5979,0,-304.381,-28.5979,-304.381 1/1:12:0,12,0:0:0:12,0:432,0:-39.1226,-3.61236,0,-39.1226,-3.61236,-39.1226 1/1:4:0,4,0:0:0:4,0:144,0:-13.2414,-1.20412,0,-13.2414,-1.20412,-13.2414 1/2:65:0,30,35:0:0:30,35:1042,1231:-184.499,-100.553,-91.5224,-84.2937,0,-73.7576 1/1:138:0,137,0:0:0:137,0:4823,0:-432.253,-41.2411,0,-432.253,-41.2411,-432.253 1/2:57:0,28,29:0:0:28,29:984,1024:-163.711,-83.7394,-75.3105,-80.3234,0,-71.5935 1/1:43:0,43,0:0:0:43,0:1529,0:-137.674,-12.9443,0,-137.674,-12.9443,-137.674 1/1:16:0,16,0:0:0:16,0:571,0:-51.5482,-4.81648,0,-51.5482,-4.81648,-51.5482 1/1:12:0,11,0:0:0:11,0:381,0:-34.0425,-3.31133,0,-34.0425,-3.31133,-34.0425 1/2:45:0,24,21:0:0:24,21:828,724:-126.073,-59.1566,-51.9319,-67.2606,0,-60.9389 1/2:50:0,33,16:0:0:33,16:1153,552:-138.606,-44.9708,-35.0368,-93.7625,0,-88.946 1/1:115:0,113,0:0:0:113,0:3993,0:-358.208,-34.0164,0,-358.208,-34.0164,-358.208 1/1:20:0,20,0:0:0:20,0:720,0:-64.754,-6.0206,0,-64.754,-6.0206,-64.754 chr04 29223646 . GAAG CAAA 18750 PASS AB=0.51487;ABP=4.04357;AC=33;AF=0.785714;AN=42;AO=906;CIGAR=1X2M1X;DP=1171;DPB=1171;DPRA=0;EPP=1970.36;EPPR=561.112;GTI=0;LEN=4;MEANALT=1.19048;MQM=52.0011;MQMR=59.7778;NS=21;NUMALT=1;ODDS=6.06726;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32072;QR=9153;RO=261;RPL=0;RPP=1970.36;RPPR=561.112;RPR=906;RUN=1;SAF=906;SAP=1970.36;SAR=0;SRF=261;SRP=569.765;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:15,15:15:526:15:514:-36.9781,0,-38.3843 0/1:22:11,11:11:376:11:389:-28.4716,0,-27.5379 0/1:81:38,41:38:1337:41:1472:-108.233,0,-96.4944 1/1:45:0,45:0:0:45:1584:-142.535,-13.5464,0 1/1:67:3,64:3:106:64:2273:-193.51,-10.2798,0 1/1:66:0,66:0:0:66:2333:-207.841,-19.868,0 0/1:48:22,26:22:777:26:930:-69.0832,0,-55.7959 0/1:139:71,68:71:2494:68:2413:-174.496,0,-182.855 1/1:95:0,95:0:0:95:3352:-301.019,-28.5979,0 1/1:12:0,12:0:0:12:425:-38.4961,-3.61236,0 1/1:4:0,4:0:0:4:144:-13.2414,-1.20412,0 0/1:65:35,30:35:1249:30:1043:-73.8472,0,-93.1423 1/1:138:0,137:0:0:137:4849:-434.263,-41.2411,0 0/1:57:29,28:29:1015:28:1007:-73.6595,0,-74.501 1/1:43:0,43:0:0:43:1540:-138.67,-12.9443,0 1/1:16:0,16:0:0:16:557:-50.2852,-4.81648,0 1/1:12:0,12:0:0:12:407:-36.5559,-3.61236,0 0/1:45:21,24:21:729:24:842:-62.1908,0,-52.3826 0/1:50:16,34:16:544:34:1217:-94.4733,0,-34.23 1/1:115:0,115:0:0:115:4062:-364.464,-34.6185,0 1/1:20:0,20:0:0:20:719:-64.6674,-6.0206,0 chr04 29223659 . C A 4153.22 PASS AB=0.484733;ABP=4.07117;AC=9;AF=0.214286;AN=42;AO=257;CIGAR=1X;DP=1144;DPB=1144;DPRA=1.16739;EPP=561.079;EPPR=1892.35;GTI=0;LEN=1;MEANALT=1;MQM=59.6809;MQMR=52.1479;NS=21;NUMALT=1;ODDS=5.87327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9178;QR=31631;RO=886;RPL=257;RPP=561.079;RPPR=1883.75;RPR=0;RUN=1;SAF=257;SAP=561.079;SAR=0;SRF=885;SRP=1918.26;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:14,15:14:481:15:536:-39.8449,0,-34.5376 0/1:22:11,11:11:396:11:392:-28.9892,0,-29.0949 0/1:80:41,39:41:1472:39:1404:-102.442,0,-108.283 0/0:44:43,0:43:1527:0:0:0,-12.9443,-137.322 0/0:65:62,3:62:2216:3:108:0,-9.49178,-188.238 0/0:66:66,0:66:2351:0:0:0,-19.868,-209.089 0/1:47:25,22:25:896:22:792:-57.4396,0,-66.3545 0/1:137:66,71:66:2363:71:2510:-184.894,0,-171.131 0/0:94:94,0:94:3363:0:0:0,-28.2968,-301.944 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.7651 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.8831 0/1:64:29,35:29:1036:35:1252:-93.713,0,-73.499 0/0:133:133,0:133:4737:0:0:0,-40.037,-425.026 0/1:56:28,28:28:999:28:1008:-74.1741,0,-73.2418 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.66 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.6381 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.4327 0/1:41:22,19:22:783:19:680:-49.1869,0,-58.2684 0/1:48:34,14:34:1215:14:496:-30.5248,0,-94.8885 0/0:112:112,0:112:4004:0:0:0,-33.7154,-359.354 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.5331 chr04 29223670 . G A 18716.5 PASS AB=0.519305;ABP=4.68711;AC=33;AF=0.785714;AN=42;AO=889;CIGAR=1X;DP=1141;DPB=1141;DPRA=0;EPP=1933.45;EPPR=550.221;GTI=0;LEN=1;MEANALT=1;MQM=52.009;MQMR=59.7421;NS=21;NUMALT=1;ODDS=6.49239;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31738;QR=8998;RO=252;RPL=888;RPP=1924.77;RPPR=550.221;RPR=1;RUN=1;SAF=888;SAP=1924.77;SAR=1;SRF=252;SRP=550.221;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:15,15:15:527:15:540:-39.4956,0,-38.7293 0/1:22:11,11:11:392:11:388:-28.4066,0,-28.9892 0/1:80:39,41:39:1391:41:1459:-107.166,0,-101.271 1/1:42:0,42:0:0:42:1500:-134.981,-12.6433,0 1/1:65:3,62:3:108:62:2213:-187.914,-9.49178,0 1/1:67:0,67:0:0:67:2360:-210.417,-20.169,0 0/1:45:20,25:20:716:25:892:-66.5841,0,-51.2214 0/1:130:65,65:65:2328:65:2332:-169.389,0,-170.638 1/1:93:0,93:0:0:93:3322:-298.319,-27.9958,0 1/1:11:0,11:0:0:11:388:-35.1767,-3.31133,0 1/1:4:0,4:0:0:4:144:-13.2414,-1.20412,0 0/1:64:35,29:35:1256:29:1032:-73.2648,0,-94.0732 1/1:138:0,138:0:0:138:4923:-441.081,-41.5421,0 0/1:56:28,28:28:1004:28:1008:-74.0496,0,-73.8136 1/1:43:0,43:0:0:43:1548:-139.375,-12.9443,0 1/1:16:0,16:0:0:16:576:-51.9968,-4.81648,0 1/1:12:0,12:0:0:12:423:-37.9989,-3.61236,0 0/1:44:20,24:20:712:24:864:-64.4492,0,-51.1613 0/1:47:16,31:16:564:31:1097:-84.6151,0,-36.9419 1/1:112:0,112:0:0:112:4009:-359.638,-33.7154,0 1/1:20:0,20:0:0:20:720:-64.754,-6.0206,0 chr04 29245783 . C T 3854.22 PASS AB=0.491416;ABP=3.30853;AC=9;AF=0.214286;AN=42;AO=234;CIGAR=1X;DP=1060;DPB=1060;DPRA=1.22271;EPP=493.912;EPPR=686.788;GTI=0;LEN=1;MEANALT=1;MQM=59.6496;MQMR=59.5121;NS=21;NUMALT=1;ODDS=7.35413;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8372;QR=29460;RO=826;RPL=2;RPP=493.912;RPPR=686.788;RPR=232;RUN=1;SAF=0;SAP=511.135;SAR=234;SRF=0;SRP=1796.65;SRR=826;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:10,15:10:360:15:536:-41.0491,0,-25.2186 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:42:23,19:23:820:19:680:-48.8859,0,-61.4793 0/0:47:47,0:47:1664:0:0:0,-14.1484,-150.013 0/0:92:87,5:87:3112:5:180:0,-11.1427,-263.719 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:57:38,19:38:1356:19:680:-44.3646,0,-105.182 0/1:74:31,43:31:1116:43:1540:-116.609,0,-77.3693 0/0:121:121,0:121:4331:0:0:0,-36.4246,-388.564 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:33:16,17:16:576:17:604:-44.7566,0,-42.1462 0/0:71:71,0:71:2499:0:0:0,-21.3731,-225.105 0/1:97:43,54:43:1540:54:1932:-144.957,0,-109.683 0/0:81:81,0:81:2875:0:0:0,-24.3834,-258.943 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7841 0/1:48:21,27:21:756:27:964:-72.5589,0,-53.9178 0/1:85:52,33:52:1855:33:1184:-81.2701,0,-141.631 0/0:81:81,0:81:2879:0:0:0,-24.3834,-259.297 0/0:37:37,0:37:1317:0:0:0,-11.1381,-118.811 chr04 29245805 . A T 15382.4 PASS AB=0.48913;ABP=3.48236;AC=32;AF=0.761905;AN=42;AO=751;CIGAR=1X;DP=993;DPB=993;DPRA=0;EPP=1633.79;EPPR=526.335;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.5233;MQMR=59.6722;NS=21;NUMALT=1;ODDS=0.992275;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26467;QR=8636;RO=241;RPL=751;RPP=1633.79;RPPR=526.335;RPR=0;RUN=1;SAF=0;SAP=1633.79;SAR=751;SRF=0;SRP=526.335;SRR=241;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:15,10:15:540:10:356:-24.8555,0,-41.4108 0/1:5:2,3:2:72:3:93:-7.17158,0,-5.33157 0/1:40:20,20:20:720:20:682:-49.6535,0,-53.0876 1/1:42:0,42:0:0:42:1486:-134.007,-12.6433,0 1/1:79:6,73:6:212:73:2581:-213.086,-4.35657,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:53:18,35:18:648:35:1214:-93.6045,0,-42.6939 0/1:73:44,29:44:1576:29:1040:-70.8327,0,-120.148 1/1:111:0,111:0:0:111:3932:-353.779,-33.4143,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:34:18,16:18:644:16:564:-40.8102,0,-48.0556 1/1:61:0,61:0:0:61:2160:-194.612,-18.3628,0 0/1:96:55,41:55:1964:41:1414:-98.642,0,-148.136 1/1:75:0,75:0:0:75:2626:-236.551,-22.5773,0 1/1:14:0,14:0:0:14:492:-44.6123,-4.21442,0 1/1:23:0,23:0:0:23:803:-72.5846,-6.92369,0 0/1:49:29,20:29:1040:20:697:-48.3002,0,-79.0872 0/1:79:33,46:33:1184:46:1636:-123.747,0,-83.074 1/1:76:0,75:0:0:75:2667:-239.883,-22.5773,0 1/1:36:0,36:0:0:36:1276:-115.128,-10.8371,0 chr04 29292360 . AACC AC 46922.4 PASS AB=0.429688;ABP=46.9826;AC=33;AF=0.785714;AN=42;AO=1770;CIGAR=1M2D1M;DP=2360;DPB=1475;DPRA=0;EPP=3.02993;EPPR=3.04348;GTI=0;LEN=2;MEANALT=1.04762;MQM=56.6678;MQMR=59.9779;NS=21;NUMALT=1;ODDS=1.1844;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62071;QR=20457;RO=589;RPL=0;RPP=3846.52;RPPR=1264.69;RPR=1770;RUN=1;SAF=887;SAP=3.02993;SAR=883;SRF=295;SRP=3.01399;SRR=294;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:73,49:73:2539:49:1756:-121.086,0,-191.677 0/1:90:38,52:38:1346:52:1839:-137.617,0,-94.3475 0/1:96:64,32:64:2181:32:1123:-71.9714,0,-167.656 1/1:126:0,126:0:0:126:4439:-398.435,-37.9298,0 1/1:255:1,254:1:36:254:8942:-800.572,-73.1644,0 1/1:77:1,76:1:32:76:2633:-231.382,-19.98,0 0/1:198:123,75:123:4306:75:2626:-175.485,0,-328.099 0/1:117:64,53:64:2212:53:1878:-133.859,0,-164.122 1/1:192:1,191:1:36:191:6681:-597.565,-54.1995,0 1/1:26:0,26:0:0:26:936:-84.3695,-7.82678,0 1/1:8:0,8:0:0:8:280:-24.6289,-2.40824,0 0/1:39:26,13:26:908:13:464:-30.3063,0,-70.2942 1/1:162:0,162:0:0:162:5618:-505.465,-48.7669,0 0/1:139:77,62:77:2660:62:2176:-154.176,0,-197.804 1/1:138:1,137:1:36:137:4779:-426.299,-37.9439,0 1/1:65:0,65:0:0:65:2264:-203.953,-19.567,0 1/1:42:0,42:0:0:42:1475:-133.023,-12.6433,0 0/1:106:68,38:68:2361:38:1324:-87.3112,0,-180.839 0/1:116:50,66:50:1732:66:2322:-174.145,0,-121.244 1/1:131:2,129:2:72:129:4525:-398.554,-32.5982,0 1/1:114:0,114:0:0:114:3991:-356.248,-34.3174,0 chr04 29373755 . G T 43043.9 PASS AB=0.437171;ABP=48.5785;AC=33;AF=0.785714;AN=42;AO=2052;CIGAR=1X;DP=2812;DPB=2812;DPRA=0;EPP=4458.87;EPPR=1653.33;GTI=1;LEN=1;MEANALT=1;MQM=59.981;MQMR=59.9987;NS=21;NUMALT=1;ODDS=0.591007;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73435;QR=27217;RO=760;RPL=2052;RPP=4458.87;RPPR=1653.33;RPR=0;RUN=1;SAF=0;SAP=4458.87;SAR=2052;SRF=0;SRP=1653.33;SRR=760;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:125,82:125:4472:82:2936:-202.147,0,-340.337 0/1:71:51,20:51:1832:20:720:-43.7556,0,-143.788 0/1:141:84,57:84:2997:57:2052:-142.506,0,-227.515 1/1:156:0,156:0:0:156:5599:-504.029,-46.9607,0 1/1:171:3,168:3:108:168:6013:-531.198,-41.401,0 1/1:115:2,113:2:72:113:4064:-359.108,-27.7817,0 0/1:200:108,92:108:3868:92:3289:-236.022,0,-288.109 0/1:169:91,78:91:3268:78:2793:-200.734,0,-243.465 1/1:249:1,248:1:36:248:8890:-796.479,-71.3582,0 1/1:34:0,34:0:0:34:1224:-110.467,-10.235,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 0/1:50:27,23:27:960:23:824:-59.4318,0,-71.6648 1/1:267:2,265:2:72:265:9430:-841.809,-73.5383,0 0/1:174:94,80:94:3372:80:2820:-201.655,0,-251.316 1/1:230:1,229:1:36:229:8230:-737.109,-65.6386,0 1/1:30:0,30:0:0:30:1072:-96.7925,-9.0309,0 1/1:36:0,36:0:0:36:1269:-114.511,-10.8371,0 0/1:170:82,88:82:2936:88:3164:-233.804,0,-213.299 0/1:147:86,61:86:3080:61:2180:-152.214,0,-233.177 1/1:119:3,116:3:108:116:4142:-362.886,-25.7474,0 1/1:58:0,58:0:0:58:2076:-187.111,-17.4597,0 chr04 29373781 . T C 55829.7 PASS AB=0.497473;ABP=3.08712;AC=33;AF=0.785714;AN=42;AO=2611;CIGAR=1X;DP=3318;DPB=3318;DPRA=0;EPP=5672.72;EPPR=1510.06;GTI=0;LEN=1;MEANALT=1.2381;MQM=59.9743;MQMR=59.9573;NS=21;NUMALT=1;ODDS=24.1685;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93189;QR=25056;RO=702;RPL=0;RPP=5672.72;RPPR=1510.06;RPR=2611;RUN=1;SAF=2611;SAP=5672.72;SAR=0;SRF=702;SRP=1527.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:85,78:85:3025:78:2779:-201.254,0,-223.412 0/1:111:62,49:62:2232:49:1749:-124.279,0,-167.729 0/1:159:73,86:73:2607:86:3086:-230.104,0,-186.787 1/1:168:0,168:0:0:168:6020:-541.904,-50.573,0 1/1:152:0,150:0:0:150:5353:-481.542,-45.1545,0 1/1:149:0,149:0:0:149:5306:-477.677,-44.8535,0 0/1:155:67,88:67:2403:88:3124:-234.726,0,-169.866 0/1:211:108,103:108:3876:103:3679:-267.796,0,-285.512 1/1:372:0,372:0:0:372:13290:-1195.9,-111.983,0 1/1:26:0,26:0:0:26:904:-81.6719,-7.82678,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:84:31,53:31:1076:53:1895:-145.541,0,-71.8589 1/1:235:0,234:0:0:234:8349:-751.2,-70.441,0 0/1:205:144,61:144:5141:61:2172:-134.036,0,-401.12 1/1:353:3,348:3:108:348:12427:-1108.22,-95.9012,0 1/1:160:0,160:0:0:160:5711:-514.105,-48.1648,0 1/1:75:1,74:1:36:74:2644:-234.609,-18.979,0 0/1:181:80,101:80:2824:101:3602:-269.9,0,-199.912 0/1:116:46,70:46:1656:70:2492:-189.612,0,-114.409 1/1:138:1,137:1:36:137:4896:-437.193,-37.9439,0 1/1:84:1,83:1:36:83:2959:-262.945,-21.6882,0 chr04 29373799 . G A 12186.6 PASS AB=0.509705;ABP=4.14833;AC=9;AF=0.214286;AN=42;AO=714;CIGAR=1X;DP=3315;DPB=3315;DPRA=1.18226;EPP=1536.12;EPPR=5648.84;GTI=0;LEN=1;MEANALT=1;MQM=59.9594;MQMR=59.9827;NS=21;NUMALT=1;ODDS=22.4604;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25529;QR=92918;RO=2600;RPL=712;RPP=1536.12;RPPR=5579.57;RPR=2;RUN=1;SAF=714;SAP=1553.44;SAR=0;SRF=2592;SRP=5579.57;SRR=8;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:77,86:77:2751:86:3069:-227.37,0,-198.763 0/1:113:49,64:49:1764:64:2281:-171.534,0,-125.027 0/1:156:82,74:82:2931:74:2652:-191.919,0,-217.063 0/0:171:171,0:171:6112:0:0:0,-51.4761,-550.179 0/0:153:153,0:153:5463:0:0:0,-46.0576,-491.796 0/0:149:149,0:149:5301:0:0:0,-44.8535,-477.227 0/1:156:89,67:89:3184:67:2404:-169.656,0,-239.823 0/1:214:104,110:104:3708:110:3940:-290.367,0,-269.5 0/0:376:376,0:376:13461:0:0:0,-113.187,-1211.28 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/1:84:52,32:52:1868:32:1148:-78.3433,0,-143.113 0/0:229:228,0:228:8196:0:0:0,-68.6348,-737.323 0/1:209:61,148:61:2180:148:5290:-413.32,0,-133.551 0/0:350:347,3:347:12388:3:108:0,-95.2853,-1104.68 0/0:161:161,0:161:5758:0:0:0,-48.4658,-518.332 0/0:72:72,0:72:2564:0:0:0,-21.6742,-230.99 0/1:180:98,82:98:3489:82:2935:-210.198,0,-260.035 0/1:116:70,46:70:2504:46:1630:-112.068,0,-190.693 0/0:133:131,2:131:4687:2:72:0,-33.2003,-415.154 0/0:82:82,0:82:2889:0:0:0,-24.6845,-260.245 chr04 29383651 . A G 6032.65 PASS AB=0.495924;ABP=3.11651;AC=11;AF=0.261905;AN=42;AO=370;CIGAR=1X;DP=1842;DPB=1842;DPRA=0.857338;EPP=806.455;EPPR=3199.42;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.58889;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13166;QR=51825;RO=1472;RPL=0;RPP=806.455;RPPR=3199.42;RPR=370;RUN=1;SAF=0;SAP=806.455;SAR=370;SRF=0;SRP=3199.42;SRR=1472;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:29,65:29:1027:65:2315:-180.313,0,-64.4454 0/1:78:17,61:17:612:61:2184:-173.346,0,-31.9331 0/1:115:53,62:53:1873:62:2194:-163.106,0,-134.228 0/0:69:69,0:69:2378:0:0:0,-20.7711,-214.275 0/0:132:132,0:132:4648:0:0:0,-39.736,-418.488 0/0:76:74,2:74:2624:2:72:0,-16.0416,-229.572 0/1:112:49,63:49:1724:63:2248:-168.868,0,-121.73 0/1:88:54,34:54:1895:34:1204:-82.1752,0,-144.337 0/0:236:235,1:235:8298:1:36:0,-67.4448,-743.243 0/1:17:15,2:15:532:2:72:-1.71921,0,-43.0956 0/1:7:6,1:6:208:1:36:-1.49107,0,-16.9519 0/1:51:27,24:27:959:24:864:-62.73,0,-71.2729 0/0:116:116,0:116:4100:0:0:0,-34.9195,-369.191 0/1:76:42,34:42:1466:34:1202:-85.6059,0,-109.355 0/0:162:162,0:162:5713:0:0:0,-48.7669,-514.297 0/0:99:98,1:98:3434:1:36:0,-26.2037,-305.678 0/0:59:59,0:59:2073:0:0:0,-17.7608,-186.84 0/1:58:46,12:46:1605:12:415:-20.2205,0,-127.277 0/1:40:33,7:33:1163:7:252:-10.9878,0,-92.9349 0/0:109:108,1:108:3809:1:36:0,-29.214,-339.413 0/0:48:48,0:48:1684:0:0:0,-14.4494,-151.846 chr04 29412144 . AATTTCCCTTTCT GGTTCCCTTTCCT,GGTTTCCCTTTCCT 20948.3 PASS AB=0.520747,0.454357;ABP=4.81235,11.7322;AC=33,9;AF=0.785714,0.214286;AN=42;AO=850,221;CIGAR=2X2M1X2M1X2M1X2M,2X9M1I2M;DP=1093;DPB=1110.62;DPRA=0,1.10232;EPP=1848.76,482.906;EPPR=0;GTI=0;LEN=13,14;MEANALT=2.42857,2.81818;MQM=40.3318,58.4751;MQMR=0;NS=21;NUMALT=2;ODDS=5.14075;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29131,7627;QR=0;RO=0;RPL=0,1;RPP=1848.76,474.259;RPPR=0;RPR=850,220;RUN=1,1;SAF=0,1;SAP=1848.76,474.259;SAR=850,220;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:95:0,38,54:0:0:38,54:1322,1818:-251.66,-147.326,-135.886,-104.361,0,-88.1056 1/2:38:0,27,9:0:0:27,9:898,324:-94.5454,-26.5596,-18.4318,-68.1039,0,-65.3946 1/2:47:0,25,18:0:0:25,18:860,629:-118.894,-51.1932,-43.6674,-67.7211,0,-62.3026 1/1:68:0,68,0:0:0:68,0:2308,0:-202.479,-20.47,0,-202.479,-20.47,-202.479 1/1:92:0,91,1:0:0:91,1:3101,36:-270.941,-27.3937,0,-268.004,-24.0965,-267.703 1/1:74:0,72,0:0:0:72,0:2475,0:-211.221,-21.6742,0,-211.221,-21.6742,-211.221 1/2:68:0,28,40:0:0:28,40:948,1393:-185.507,-113.449,-105.02,-72.3888,0,-60.3476 1/2:70:0,47,21:0:0:47,21:1588,731:-182.26,-59.128,-44.9796,-123.135,0,-116.813 1/1:88:0,85,0:0:0:85,0:2965,0:-261.832,-25.5876,0,-261.832,-25.5876,-261.832 1/1:8:0,8,0:0:0:8,0:280,0:-24.6164,-2.40824,0,-24.6164,-2.40824,-24.6164 1/1:4:0,4,0:0:0:4,0:133,0:-11.4685,-1.20412,0,-11.4685,-1.20412,-11.4685 1/2:5:0,3,2:0:0:3,2:104,72:-14.3747,-6.23466,-5.33157,-8.49008,0,-7.88802 1/1:64:0,63,0:0:0:63,0:2177,0:-191.298,-18.9649,0,-191.298,-18.9649,-191.298 1/2:91:0,42,48:0:0:42,48:1439,1661:-247.226,-134.932,-122.289,-112.364,0,-97.9149 1/1:93:0,89,0:0:0:89,0:3044,0:-266.784,-26.7917,0,-266.784,-26.7917,-266.784 1/1:33:0,33,0:0:0:33,0:1162,0:-103.227,-9.93399,0,-103.227,-9.93399,-103.227 1/1:25:0,24,1:0:0:24,1:836,36:-73.8006,-7.22472,0,-70.8648,-3.93007,-70.5638 1/2:36:0,15,21:0:0:15,21:505,726:-98.1984,-59.3184,-54.8029,-39.2115,0,-32.8898 1/2:32:0,26,6:0:0:26,6:902,201:-87.873,-16.6111,-8.78429,-71.5973,0,-69.7911 1/1:31:0,31,0:0:0:31,0:1044,0:-89.8475,-9.33193,0,-89.8475,-9.33193,-89.8475 1/1:31:0,31,0:0:0:31,0:1040,0:-88.6695,-9.33193,0,-88.6695,-9.33193,-88.6695 chr04 29412209 . C T 15545.9 PASS AB=0.585366;ABP=26.3669;AC=33;AF=0.785714;AN=42;AO=732;CIGAR=1X;DP=887;DPB=887;DPRA=0;EPP=1592.53;EPPR=330.959;GTI=0;LEN=1;MEANALT=1;MQM=51.9372;MQMR=60;NS=21;NUMALT=1;ODDS=1.08383;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26215;QR=5563;RO=155;RPL=0;RPP=1592.53;RPPR=330.959;RPR=732;RUN=1;SAF=732;SAP=1592.53;SAR=0;SRF=155;SRP=339.589;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:20,32:20:711:32:1136:-86.6525,0,-48.6621 0/1:18:13,5:13:468:5:176:-10.533,0,-37.0411 0/1:52:26,26:26:936:26:936:-67.7859,0,-68.9059 1/1:55:0,55:0:0:55:1980:-177.267,-16.5567,0 1/1:66:0,66:0:0:66:2376:-213.662,-19.868,0 1/1:25:2,23:2:72:23:828:-67.3378,-0.689028,0 0/1:64:24,40:24:864:40:1436:-109.041,0,-58.8166 0/1:47:12,35:12:424:35:1260:-98.6262,0,-24.348 1/1:95:0,95:0:0:95:3405:-306.032,-28.5979,0 1/1:8:0,8:0:0:8:284:-25.7864,-2.40824,0 1/1:4:0,4:0:0:4:144:-13.2414,-1.20412,0 0/1:21:14,7:14:504:7:252:-16.4555,0,-39.3765 1/1:69:0,69:0:0:69:2451:-218.667,-20.7711,0 0/1:51:24,27:24:864:27:972:-70.479,0,-62.73 1/1:46:0,46:0:0:46:1637:-146.926,-13.8474,0 1/1:11:0,11:0:0:11:396:-35.9568,-3.31133,0 1/1:8:0,8:0:0:8:288:-26.1636,-2.40824,0 0/1:22:4,18:4:144:18:644:-51.0373,0,-6.69096 0/1:42:16,26:16:576:26:931:-71.2226,0,-39.5317 1/1:103:0,103:0:0:103:3678:-329.265,-31.0061,0 1/1:28:0,28:0:0:28:1005:-89.948,-8.42884,0 chr04 29412228 . GT CC,GC 18514.2 PASS AB=0.585165,0.412088;ABP=25.942,27.4453;AC=33,9;AF=0.785714,0.214286;AN=42;AO=733,152;CIGAR=2X,1M1X;DP=889;DPB=889;DPRA=0,0.8558;EPP=1594.7,315.931;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.66667,2.1;MQM=51.91,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.827065;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25554,5388;QR=0;RO=0;RPL=733,150;RPP=1594.7,315.931;RPPR=0;RPR=0,2;RUN=1,1;SAF=733,152;SAP=1594.7,333.074;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,30,20:0:0:30,20:1059,708:-143.766,-57.6659,-48.635,-86.0943,0,-80.0737 1/2:15:0,4,11:0:0:4,11:136,389:-42.9808,-32.0363,-30.8322,-11.2863,0,-7.97497 1/2:52:0,27,25:0:0:27,25:950,896:-149.697,-73.4346,-65.3068,-76.6155,0,-69.0898 1/1:57:0,57,0:0:0:57,0:1987,0:-177.916,-17.1587,0,-177.916,-17.1587,-177.916 1/1:67:0,67,0:0:0:67,0:2322,0:-208.763,-20.169,0,-208.763,-20.169,-208.763 1/1:25:0,23,2:0:0:23,2:815,72:-72.6705,-6.92369,0,-66.7949,-0.689028,-66.1929 1/2:66:0,40,26:0:0:40,26:1401,919:-188.259,-75.1986,-63.1574,-113.411,0,-105.585 1/2:47:0,35,12:0:0:35,12:1232,415:-133.731,-34.0679,-23.5319,-100.009,0,-96.397 1/1:95:0,94,0:0:0:94,0:3252,0:-291.905,-28.2968,0,-291.905,-28.2968,-291.905 1/1:8:0,8,0:0:0:8,0:277,0:-25.1508,-2.40824,0,-25.1508,-2.40824,-25.1508 1/1:4:0,4,0:0:0:4,0:144,0:-13.2414,-1.20412,0,-13.2414,-1.20412,-13.2414 1/2:21:0,7,14:0:0:7,14:252,496:-61.0745,-40.7598,-38.6526,-20.6699,0,-16.4555 1/1:69:0,68,0:0:0:68,0:2385,0:-212.05,-20.47,0,-212.05,-20.47,-212.05 1/2:49:0,26,23:0:0:26,23:888,828:-139.256,-67.9204,-60.0936,-71.685,0,-64.7613 1/1:48:0,47,0:0:0:47,0:1623,0:-145.531,-14.1484,0,-145.531,-14.1484,-145.531 1/1:11:0,11,0:0:0:11,0:389,0:-35.3246,-3.31133,0,-35.3246,-3.31133,-35.3246 1/1:8:0,8,0:0:0:8,0:288,0:-26.1636,-2.40824,0,-26.1636,-2.40824,-26.1636 1/2:22:0,18,4:0:0:18,4:629,144:-62.7572,-12.1095,-6.69096,-51.0051,0,-49.801 1/2:41:0,26,15:0:0:26,15:893,521:-114.977,-42.7009,-34.8741,-72.6215,0,-68.1061 1/1:104:0,104,0:0:0:104,0:3635,0:-325.483,-31.3071,0,-325.483,-31.3071,-325.483 1/1:29:0,29,0:0:0:29,0:997,0:-88.5684,-8.72987,0,-88.5684,-8.72987,-88.5684 chr04 29416308 . A G 6802.73 PASS AB=0.511034;ABP=3.92075;AC=9;AF=0.214286;AN=42;AO=445;CIGAR=1X;DP=1937;DPB=1937;DPRA=1.26219;EPP=969.316;EPPR=3128.74;GTI=0;LEN=1;MEANALT=1;MQM=39.7034;MQMR=59.8833;NS=21;NUMALT=1;ODDS=10.4382;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15957;QR=53434;RO=1491;RPL=0;RPP=969.316;RPPR=3180.16;RPR=445;RUN=1;SAF=445;SAP=969.316;SAR=0;SRF=1485;SRP=3188.77;SRR=6;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:24,35:24:864:35:1260:-91.4435,0,-60.3218 0/1:77:35,42:35:1256:42:1490:-102.905,0,-90.166 0/1:128:49,79:49:1764:79:2834:-209.028,0,-120.512 0/0:107:107,0:107:3840:0:0:0,-32.2102,-345.767 0/0:182:179,3:179:6424:3:108:0,-44.9799,-567.947 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/1:184:81,103:81:2904:103:3695:-251.485,0,-206.204 0/1:97:56,41:56:2012:41:1476:-98.315,0,-152.153 0/0:229:229,0:229:8205:0:0:0,-68.9359,-737.903 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:22:10,12:10:360:12:432:-30.9705,0,-26.1216 0/0:60:60,0:60:2145:0:0:0,-18.0618,-193.316 0/1:117:54,63:54:1898:63:2250:-160.712,0,-135.874 0/0:128:128,0:128:4589:0:0:0,-38.5318,-413.172 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.816 0/0:63:62,0:62:2228:0:0:0,-18.6639,-200.419 0/1:106:67,39:67:2396:39:1404:-88.7997,0,-183.985 0/1:71:45,26:45:1597:26:936:-60.9403,0,-122.644 0/0:83:81,2:81:2908:2:72:0,-18.422,-254.288 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 chr04 29416322 . GG GA,GAAA 41149.5 PASS AB=0.477193,0.521637;ABP=6.87324,6.4872;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1470,451;CIGAR=1M1X,1M2I1X;DP=1922;DPB=2373;DPRA=0,1.26143;EPP=3151.79,982.344;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.52381,2;MQM=59.9381,39.8049;MQMR=60;NS=21;NUMALT=2;ODDS=8.46673;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52538,16044;QR=36;RO=1;RPL=1470,451;RPP=3195.07,982.344;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1465,451;SAP=3151.79,982.344;SAR=5,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:61:0,23,38:0:0:23,38:824,1360:-173.537,-106.33,-99.4065,-67.5596,0,-56.1205 1/2:77:0,33,44:0:0:33,44:1173,1566:-214.869,-119.273,-109.339,-95.9416,0,-82.6962 1/2:130:0,49,81:0:0:49,81:1745,2885:-369.948,-227.718,-212.967,-142.582,0,-118.198 1/1:107:0,107,0:0:0:107,0:3844,0:-346.126,-32.2102,0,-346.126,-32.2102,-346.126 1/1:180:0,177,3:0:0:177,3:6303,100:-566.257,-53.2823,0,-558.351,-45.0495,-557.448 1/1:66:0,66,0:0:0:66,0:2348,0:-211.58,-19.868,0,-211.58,-19.868,-211.58 1/2:175:1,74,100:1:36:74,100:2648,3552:-480.429,-264.786,-245.448,-212.993,0,-185.827 1/2:98:0,57,41:0:0:57,41:2044,1441:-279.115,-112.388,-95.2288,-167.073,0,-154.731 1/1:226:0,226,0:0:0:226,0:8086,0:-727.736,-68.0328,0,-727.736,-68.0328,-727.736 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/2:22:0,10,12:0:0:10,12:360,432:-63.3618,-33.9808,-30.9705,-29.734,0,-26.1216 1/1:61:0,61,0:0:0:61,0:2173,0:-195.835,-18.3628,0,-195.835,-18.3628,-195.835 1/2:113:0,50,63:0:0:50,63:1765,2242:-319.758,-176.027,-160.975,-144.08,0,-125.115 1/1:127:0,127,0:0:0:127,0:4544,0:-409.127,-38.2308,0,-409.127,-38.2308,-409.127 1/1:59:0,59,0:0:0:59,0:2108,0:-189.984,-17.7608,0,-189.984,-17.7608,-189.984 1/1:61:0,61,0:0:0:61,0:2185,0:-196.911,-18.3628,0,-196.911,-18.3628,-196.911 1/2:105:0,66,39:0:0:66,39:2360,1394:-300.657,-108.217,-88.3491,-192.787,0,-181.047 1/2:74:0,46,28:0:0:46,28:1656,1000:-214.666,-79.5392,-65.6918,-135.479,0,-127.051 1/1:82:0,80,2:0:0:80,2:2856,72:-256.933,-24.0824,0,-251.317,-18.1209,-250.715 1/1:72:0,72,0:0:0:72,0:2580,0:-232.449,-21.6742,0,-232.449,-21.6742,-232.449 chr04 29416471 . A C 29238 PASS AB=0.463479;ABP=11.7337;AC=33;AF=0.785714;AN=42;AO=1386;CIGAR=1X;DP=1800;DPB=1800;DPRA=0;EPP=3012.67;EPPR=888.992;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9654;MQMR=60;NS=21;NUMALT=1;ODDS=7.53447;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49263;QR=14767;RO=412;RPL=0;RPP=3012.67;RPPR=888.992;RPR=1386;RUN=1;SAF=1386;SAP=3012.67;SAR=0;SRF=412;SRP=897.657;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:59,41:59:2116:41:1451:-100.781,0,-160.606 0/1:20:14,6:14:504:6:216:-13.7699,0,-39.6775 0/1:69:46,23:46:1656:23:824:-53.7122,0,-128.557 1/1:67:0,67:0:0:67:2390:-215.357,-20.169,0 1/1:169:4,165:4:144:165:5886:-516.538,-37.5605,0 1/1:54:3,51:3:104:51:1812:-153.659,-6.55281,0 0/1:145:67,78:67:2404:78:2763:-205.263,0,-172.967 0/1:126:74,52:74:2652:52:1838:-127.769,0,-200.996 1/1:208:1,205:1:36:205:7302:-653.65,-58.7671,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 1/1:183:0,183:0:0:183:6484:-582.879,-55.0885,0 0/1:90:50,40:50:1771:40:1418:-100.823,0,-132.58 1/1:91:0,91:0:0:91:3235:-291.373,-27.3937,0 1/1:33:0,33:0:0:33:1176:-106.148,-9.93399,0 1/1:42:0,42:0:0:42:1478:-133.313,-12.6433,0 0/1:102:63,39:63:2264:39:1392:-94.874,0,-173.317 0/1:82:24,58:24:864:58:2059:-160.896,0,-53.3981 1/1:111:0,111:0:0:111:3941:-354.883,-33.4143,0 1/1:60:0,60:0:0:60:2130:-191.967,-18.0618,0 chr04 29473688 . G C 8748.61 PASS AB=0.240479;ABP=2399.2;AC=21;AF=0.5;AN=42;AO=985;CIGAR=1X;DP=4096;DPB=4096;DPRA=0;EPP=2141.91;EPPR=6758.46;GTI=4;LEN=1;MEANALT=1;MQM=59.9716;MQMR=59.8817;NS=21;NUMALT=1;ODDS=9.98193;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35248;QR=111488;RO=3111;RPL=0;RPP=2141.91;RPPR=6758.46;RPR=985;RUN=1;SAF=985;SAP=2141.91;SAR=0;SRF=0;SRP=6758.46;SRR=3111;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:272:214,58:214:7668:58:2084:-105.95,0,-608.218 0/1:142:97,45:97:3476:45:1600:-101.544,0,-270.258 0/1:226:173,53:173:6224:53:1904:-103.603,0,-491.799 0/1:217:150,67:150:5372:67:2396:-150.574,0,-418.287 0/1:559:460,99:460:16488:99:3552:-151.61,0,-1315.31 0/1:199:156,43:156:5592:43:1540:-78.9881,0,-443.497 0/1:337:272,65:272:9732:65:2328:-108.332,0,-774.244 0/1:156:127,29:127:4552:29:1032:-46.2328,0,-362.651 0/1:436:329,107:329:11792:107:3828:-213.468,0,-929.701 0/1:19:17,2:17:612:2:72:-1.11715,0,-49.6939 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:23:16,7:16:564:7:248:-15.7405,0,-44.1648 0/1:200:148,52:148:5312:52:1864:-107.833,0,-418.007 0/1:229:157,72:157:5612:72:2584:-163.872,0,-436.205 0/1:272:216,56:216:7748:56:2004:-98.7525,0,-615.466 0/1:180:146,34:146:5232:34:1224:-56.2816,0,-416.832 0/1:159:111,48:111:3980:48:1712:-106.502,0,-310.526 0/1:80:38,42:38:1352:42:1496:-110.851,0,-97.8794 0/1:96:69,27:69:2476:27:952:-57.095,0,-194.181 0/1:214:168,46:168:6020:46:1648:-84.1881,0,-477.483 0/1:74:46,28:46:1648:28:1000:-68.0373,0,-126.332 chr04 29534296 . 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CCCCA TCCCA,CCCTA 66199.2 PASS AB=0.61165,0.356449;ABP=81.0779,132.061;AC=34,8;AF=0.809524,0.190476;AN=42;AO=2160,260;CIGAR=1X4M,3M1X1M;DP=2529;DPB=2530.8;DPRA=0,1.03828;EPP=4684.71,567.593;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=3.61905,4.1;MQM=58.9963,59.6423;MQMR=60;NS=21;NUMALT=2;ODDS=8.47305;PAIRED=0,0;PAIREDR=0;PAO=3,0;PQA=108,0;PQR=0;PRO=0;QA=77321,9128;QR=61;RO=2;RPL=1019,260;RPP=17.9734,567.593;RPPR=3.0103;RPR=1141,0;RUN=1,1;SAF=1018,260;SAP=18.468,567.593;SAR=1142,0;SRF=1;SRP=3.0103;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:88:0,50,36:0:0:50,36:1788,1263:-248.575,-102.869,-87.8171,-145.796,0,-134.959 1/2:60:0,28,31:0:0:28,31:1004,1112:-172.502,-90.6836,-82.2547,-81.8898,0,-72.5579 1/2:99:1,62,32:1:25:62,32:2219,1132:-270.842,-90.3428,-73.6253,-178.943,0,-171.257 1/1:204:1,193,0:1:36:193,0:6895,0:-616.572,-55.1523,0,-616.873,-58.0988,-619.81 1/1:219:0,214,1:0:0:214,1:7657,32:-687.886,-64.4204,0,-685.308,-61.8336,-685.007 1/1:93:0,85,0:0:0:85,0:3042,0:-273.575,-25.5876,0,-273.575,-25.5876,-273.575 1/2:132:0,75,57:0:0:75,57:2692,2033:-385.528,-165.978,-143.401,-219.804,0,-202.646 1/2:136:0,105,25:0:0:105,25:3767,888:-379.276,-72.428,-40.8198,-306.924,0,-299.398 1/1:243:0,230,0:0:0:230,0:8194,0:-736.485,-69.2369,0,-736.485,-69.2369,-736.485 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:40:0,25,11:0:0:25,11:900,396:-105.685,-32.3779,-24.8522,-73.3697,0,-70.0583 1/1:212:0,209,0:0:0:209,0:7506,0:-674.907,-62.9153,0,-674.907,-62.9153,-674.907 1/1:183:0,177,0:0:0:177,0:6344,0:-570.544,-53.2823,0,-570.544,-53.2823,-570.544 1/1:187:0,172,0:0:0:172,0:6163,0:-553.972,-51.7772,0,-553.972,-51.7772,-553.972 1/1:69:0,62,0:0:0:62,0:2222,0:-199.419,-18.6639,0,-199.419,-18.6639,-199.419 1/1:40:0,38,0:0:0:38,0:1364,0:-122.332,-11.4391,0,-122.332,-11.4391,-122.332 1/2:68:0,28,36:0:0:28,36:1000,1191:-177.652,-96.3975,-87.9687,-81.355,0,-70.5179 1/2:98:0,68,29:0:0:68,29:2436,1009:-280.679,-82.1035,-61.6335,-198.641,0,-189.911 1/1:288:0,269,2:0:0:269,2:9631,72:-865.214,-80.9771,0,-859.339,-75.0895,-858.737 1/1:59:0,59,0:0:0:59,0:2101,0:-189.265,-17.7608,0,-189.265,-17.7608,-189.265 chr04 29706227 . 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T G 35889.3 PASS AB=0.622699;ABP=88.2706;AC=34;AF=0.809524;AN=42;AO=1656;CIGAR=1X;DP=1903;DPB=1903;DPRA=0;EPP=3598.97;EPPR=539.364;GTI=0;LEN=1;MEANALT=1;MQM=59.9849;MQMR=60;NS=21;NUMALT=1;ODDS=3.03747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58943;QR=8821;RO=247;RPL=1656;RPP=3598.97;RPPR=539.364;RPR=0;RUN=1;SAF=0;SAP=3598.97;SAR=1656;SRF=0;SRP=539.364;SRR=247;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:60,75:60:2129:75:2668:-199.727,0,-151.238 0/1:36:19,17:19:684:17:592:-42.7693,0,-51.0532 0/1:85:28,57:28:1000:57:2018:-156.304,0,-64.7278 1/1:77:0,77:0:0:77:2705:-243.695,-23.1793,0 1/1:195:0,195:0:0:195:6957:-626.195,-58.7009,0 1/1:133:0,133:0:0:133:4741:-426.849,-40.037,0 0/1:133:51,82:51:1820:82:2916:-222.638,0,-124.044 0/1:81:28,53:28:996:53:1892:-146.175,0,-65.5715 1/1:112:0,112:0:0:112:3987:-359.022,-33.7154,0 1/1:30:0,30:0:0:30:1065:-96.1618,-9.0309,0 1/1:6:0,6:0:0:6:207:-18.9669,-1.80618,0 0/1:28:7,21:7:252:21:752:-59.5774,0,-14.6001 1/1:128:0,128:0:0:128:4582:-412.318,-38.5318,0 1/1:150:1,149:1:36:149:5276:-471.384,-41.5562,0 1/1:119:0,119:0:0:119:4256:-383.219,-35.8226,0 1/1:53:0,53:0:0:53:1892:-170.558,-15.9546,0 1/1:71:0,71:0:0:71:2536:-228.491,-21.3731,0 0/1:73:33,40:33:1184:40:1432:-107.202,0,-84.8931 0/1:81:20,61:20:720:61:2155:-169.834,0,-40.7453 1/1:109:0,109:0:0:109:3886:-349.935,-32.8123,0 1/1:68:0,68:0:0:68:2428:-218.776,-20.47,0 chr04 29710490 . C A,G 34071.9 PASS AB=0.514563,0.483819;ABP=4.14874,4.41578;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1360,316;CIGAR=1X,1X;DP=1677;DPB=1677;DPRA=0,0.851493;EPP=2956.21,689.196;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.71429,2;MQM=51.8757,30.2215;MQMR=60;NS=21;NUMALT=2;ODDS=6.83566;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48321,11305;QR=36;RO=1;RPL=0,0;RPP=2956.21,689.196;RPPR=5.18177;RPR=1360,316;RUN=1,1;SAF=1360,316;SAP=2956.21,689.196;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,32,19:0:0:32,19:1127,672:-135.516,-44.214,-34.581,-91.6151,0,-85.8955 1/2:55:0,34,21:0:0:34,21:1216,744:-146.563,-48.615,-38.3799,-98.2615,0,-91.9399 1/2:81:0,44,37:0:0:44,37:1568,1324:-212.196,-85.6065,-72.3612,-126.908,0,-115.77 1/1:143:0,142,1:0:0:142,1:5069,36:-452.316,-42.7463,0,-450.005,-40.1445,-449.704 1/1:131:0,128,3:0:0:128,3:4546,108:-407.057,-38.5318,0,-400.124,-31.3072,-399.221 1/1:30:0,28,2:0:0:28,2:1004,72:-89.9694,-8.42884,0,-85.3509,-3.51565,-84.7489 1/2:129:0,51,78:0:0:51,78:1823,2789:-328.638,-180.708,-165.355,-148.26,0,-124.78 1/2:115:0,57,58:0:0:57,58:2044,2084:-301.99,-135.633,-118.474,-166.682,0,-149.223 1/1:108:0,108,0:0:0:108,0:3845,0:-343.67,-32.5112,0,-343.67,-32.5112,-343.67 1/2:5:0,4,1:0:0:4,1:140,36:-13.983,-2.60173,-1.39761,-11.6831,0,-11.3821 1/1:6:0,6,0:0:0:6,0:216,0:-19.7351,-1.80618,0,-19.7351,-1.80618,-19.7351 1/2:31:0,15,16:0:0:15,16:540,568:-80.3543,-36.8071,-32.2916,-43.8698,0,-39.0533 1/1:62:0,62,0:0:0:62,0:2201,0:-197.984,-18.6639,0,-197.984,-18.6639,-197.984 1/1:109:0,109,0:0:0:109,0:3876,0:-347.624,-32.8123,0,-347.624,-32.8123,-347.624 1/1:200:0,200,0:0:0:200,0:7057,0:-631.575,-60.206,0,-631.575,-60.206,-631.575 1/1:51:0,51,0:0:0:51,0:1812,0:-162.441,-15.3525,0,-162.441,-15.3525,-162.441 1/1:64:0,63,1:0:0:63,1:2233,36:-200.173,-18.9649,0,-197.725,-16.2114,-197.424 1/2:80:0,40,40:0:0:40,40:1428,1440:-208.825,-93.2565,-81.2153,-115.891,0,-103.85 1/2:71:1,41,29:1:36:41,29:1453,1036:-181.851,-64.3595,-54.9569,-114.812,0,-109.02 1/1:100:0,93,7:0:0:93,7:3293,252:-294.79,-27.9958,0,-278.614,-11.5253,-276.507 1/1:55:0,52,3:0:0:52,3:1830,108:-163.319,-15.6536,0,-156.388,-8.42891,-155.485 chr04 29710535 . AGTA AGTG,AGTGTG 91082.1 PASS AB=0.605645,0.387097;ABP=123.219,140.303;AC=34,8;AF=0.809524,0.190476;AN=42;AO=2894,507;CIGAR=3M1X,1M2I2M1X;DP=3424;DPB=3678.5;DPRA=0,0.698842;EPP=6287.25,1103.95;EPPR=5.18177;GTI=0;LEN=1,6;MEANALT=2.61905,3.0625;MQM=55.4285,41.1578;MQMR=60;NS=21;NUMALT=2;ODDS=29.9869;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=102589,17761;QR=35;RO=1;RPL=1348,310;RPP=32.4265,57.6997;RPPR=5.18177;RPR=1546,197;RUN=1,1;SAF=1348,310;SAP=32.4265,57.6997;SAR=1546,197;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:154:0,96,57:0:0:96,57:3399,1998:-426.877,-151.759,-122.861,-275.096,0,-257.937 1/2:73:0,51,20:0:0:51,20:1836,702:-194.313,-45.8267,-30.4742,-148.515,0,-142.494 1/2:177:0,100,77:0:0:100,77:3558,2708:-486.575,-198.125,-168.022,-288.784,0,-265.604 1/1:224:0,223,1:0:0:223,1:7909,36:-709.304,-67.1297,0,-706.993,-64.528,-706.692 1/1:281:0,276,3:0:0:276,3:9741,104:-874.419,-83.0843,0,-867.589,-76.2188,-866.686 1/1:149:0,145,2:0:0:145,2:5171,72:-464.923,-43.6494,0,-460.301,-39.0413,-459.699 1/2:225:0,147,76:0:0:147,76:5181,2665:-593.88,-173.692,-129.441,-420.178,0,-397.3 1/2:245:0,138,105:0:0:138,105:4895,3713:-667.469,-269.71,-228.168,-397.758,0,-366.15 1/1:286:0,286,0:0:0:286,0:10126,0:-909.089,-86.0946,0,-909.089,-86.0946,-909.089 1/1:16:0,14,1:0:0:14,1:504,36:-45.3665,-4.21442,0,-43.0588,-1.87282,-42.7578 1/1:9:0,9,0:0:0:9,0:324,0:-29.4508,-2.70927,0,-29.4508,-2.70927,-29.4508 1/2:56:0,28,28:0:0:28,28:990,972:-149.871,-69.83,-61.4011,-80.3716,0,-71.9428 1/1:185:0,185,0:0:0:185,0:6583,0:-592.189,-55.6906,0,-592.189,-55.6906,-592.189 1/1:214:0,214,0:0:0:214,0:7548,0:-678.322,-64.4204,0,-678.322,-64.4204,-678.322 1/1:364:0,363,0:0:0:363,0:12898,0:-1156.88,-109.274,0,-1156.88,-109.274,-1156.88 1/1:94:0,86,5:0:0:86,5:3044,179:-273.478,-25.8886,0,-258.88,-11.2756,-257.375 1/1:93:0,89,4:0:0:89,4:3132,143:-280.901,-26.7917,0,-269.73,-15.2773,-268.526 1/2:146:0,78,67:0:0:78,67:2770,2329:-390.287,-166.134,-142.654,-224.255,0,-204.086 1/2:164:1,113,50:1:35:113,50:4043,1709:-446.878,-118.567,-87.3991,-325.734,0,-313.53 1/1:155:0,145,8:0:0:145,8:5108,287:-458.855,-43.6494,0,-439.76,-24.5924,-437.352 1/1:114:0,108,3:0:0:108,3:3829,108:-343.194,-32.5112,0,-336.262,-25.5963,-335.358 chr04 29743532 . CGCCG AGCCG,AGCCA 33877.5 PASS AB=0.52161,0.470939;ABP=5.73192,7.93252;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1253,322;CIGAR=1X4M,1X3M1X;DP=1585;DPB=1585;DPRA=0,1.15811;EPP=2723.87,702.224;EPPR=0;GTI=0;LEN=1,5;MEANALT=2,2.41667;MQM=59.2027,46.9317;MQMR=0;NS=21;NUMALT=2;ODDS=13.9234;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44821,11320;QR=0;RO=0;RPL=1253,322;RPP=2723.87,702.224;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2723.87,702.224;SAR=1253,322;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:80:0,41,39:0:0:41,39:1463,1368:-229.123,-109.943,-97.6004,-119.531,0,-107.791 1/2:56:0,35,21:0:0:35,21:1248,744:-162.334,-60.6175,-50.0815,-102.07,0,-95.7487 1/2:79:0,41,37:0:0:41,37:1472,1315:-226.337,-106.341,-93.9992,-120.156,0,-109.018 1/1:60:0,60,0:0:0:60,0:2140,0:-192.83,-18.0618,0,-192.83,-18.0618,-192.83 1/1:95:0,92,2:0:0:92,2:3308,72:-297.578,-27.6948,0,-291.76,-21.8766,-291.158 1/1:63:0,61,2:0:0:61,2:2188,72:-196.793,-18.3628,0,-190.953,-12.1652,-190.351 1/2:97:0,42,55:0:0:42,55:1508,1935:-279.781,-156.941,-144.297,-123.195,0,-106.639 1/2:124:0,66,56:0:0:66,56:2368,1972:-350.457,-157.418,-137.55,-193.052,0,-176.194 1/1:108:0,107,1:0:0:107,1:3825,36:-343.966,-32.2102,0,-342.048,-30.0443,-341.747 1/1:25:0,24,1:0:0:24,1:864,36:-77.6411,-7.22472,0,-74.7321,-3.95894,-74.4311 1/1:17:0,16,0:0:0:16,0:563,0:-50.6597,-4.81648,0,-50.6597,-4.81648,-50.6597 1/2:40:0,20,18:0:0:20,18:720,629:-109.474,-50.748,-44.7274,-58.7227,0,-53.3042 1/1:83:0,82,0:0:0:82,0:2939,0:-264.362,-24.6845,0,-264.362,-24.6845,-264.362 1/1:92:0,92,0:0:0:92,0:3272,0:-294.482,-27.6948,0,-294.482,-27.6948,-294.482 1/1:128:0,128,0:0:0:128,0:4576,0:-411.521,-38.5318,0,-411.521,-38.5318,-411.521 1/1:59:0,58,0:0:0:58,0:2083,0:-186.875,-17.4597,0,-186.875,-17.4597,-186.875 1/1:36:0,36,0:0:0:36,0:1274,0:-114.532,-10.8371,0,-114.532,-10.8371,-114.532 1/2:112:0,55,57:0:0:55,57:1964,2024:-322.778,-163.076,-146.519,-160.055,0,-142.896 1/2:83:0,50,33:0:0:50,33:1783,1117:-235.114,-89.8299,-74.7784,-145.627,0,-135.693 1/1:110:0,109,0:0:0:109,0:3908,0:-351.409,-32.8123,0,-351.409,-32.8123,-351.409 1/1:38:0,38,0:0:0:38,0:1355,0:-122.214,-11.4391,0,-122.214,-11.4391,-122.214 chr04 29756120 . A G 8716.5 PASS AB=0.463267;ABP=16.5703;AC=8;AF=0.190476;AN=42;AO=546;CIGAR=1X;DP=3052;DPB=3052;DPRA=1.35;EPP=1188.63;EPPR=5444.72;GTI=0;LEN=1;MEANALT=1;MQM=59.8608;MQMR=59.9796;NS=21;NUMALT=1;ODDS=22.6443;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19461;QR=89239;RO=2506;RPL=0;RPP=1188.63;RPPR=5444.72;RPR=546;RUN=1;SAF=0;SAP=1188.63;SAR=546;SRF=0;SRP=5444.72;SRR=2506;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:183:92,91:92:3284:91:3232:-236.01,0,-240.692 0/1:152:74,78:74:2647:78:2792:-204.987,0,-192.719 0/1:165:92,73:92:3268:73:2602:-184.709,0,-244.65 0/0:210:210,0:210:7446:0:0:0,-63.2163,-670.188 0/0:331:327,4:327:11639:4:144:0,-86.3273,-1033.8 0/0:202:200,2:200:7118:2:72:0,-53.9713,-633.843 0/1:275:134,141:134:4745:141:5042:-371.141,0,-344.429 0/1:141:86,55:86:3075:55:1948:-133.148,0,-234.533 0/0:142:142,0:142:5040:0:0:0,-42.7463,-453.748 0/0:26:26,0:26:923:0:0:0,-7.82678,-83.3868 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:47:30,17:30:1068:17:608:-40.9036,0,-82.2837 0/0:165:165,0:165:5902:0:0:0,-49.6699,-531.289 0/0:183:183,0:183:6500:0:0:0,-55.0885,-585.075 0/0:169:169,0:169:6034:0:0:0,-50.8741,-543.165 0/0:120:120,0:120:4308:0:0:0,-36.1236,-387.895 0/0:90:87,3:87:3120:3:108:0,-17.0175,-270.951 0/1:92:50,42:50:1775:42:1481:-105.888,0,-132.338 0/1:102:63,39:63:2243:39:1396:-95.2332,0,-171.428 0/0:182:181,1:181:6435:1:36:0,-51.1892,-575.641 0/0:63:63,0:63:2237:0:0:0,-18.9649,-201.592 chr04 29786925 . G A 13391.8 PASS AB=0.496716;ABP=3.1244;AC=18;AF=0.428571;AN=42;AO=605;CIGAR=1X;DP=1265;DPB=1265;DPRA=4.31915;EPP=25.4106;EPPR=29.6602;GTI=0;LEN=1;MEANALT=1;MQM=54.8744;MQMR=59.7576;NS=21;NUMALT=1;ODDS=2.55527;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21413;QR=23291;RO=660;RPL=0;RPP=1316.75;RPPR=1436.18;RPR=605;RUN=1;SAF=263;SAP=25.4106;SAR=342;SRF=285;SRP=29.6602;SRR=375;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:52,32:52:1868:32:1129:-76.416,0,-143.113 0/1:90:49,41:49:1707:41:1468:-104.817,0,-126.818 0/1:18:11,7:11:384:7:252:-17.5824,0,-29.4761 0/1:23:7,16:7:248:16:572:-44.8285,0,-15.7345 0/1:54:9,45:9:312:45:1569:-124.69,0,-12.1597 0/1:18:4,14:4:144:14:500:-39.7335,0,-7.89508 0/1:79:44,35:44:1540:35:1213:-85.1951,0,-115.108 0/0:8:8,0:8:279:0:0:0,-2.40824,-25.4475 0/1:65:44,21:44:1556:21:752:-48.4038,0,-120.759 0/0:34:34,0:34:1171:0:0:0,-10.235,-105.678 0/1:16:13,3:13:460:3:108:-5.24048,0,-35.2736 0/0:5:5,0:5:165:0:0:0,-1.50515,-15.1736 0/1:56:36,20:36:1284:20:716:-47.8225,0,-99.0057 0/1:48:17,31:17:608:31:1100:-84.7793,0,-40.6026 0/1:62:46,16:46:1652:16:561:-32.1425,0,-130.305 0/1:51:29,22:29:1035:22:772:-54.18,0,-78.1105 0/1:70:34,36:34:1209:36:1266:-93.123,0,-88.042 0/1:75:33,42:33:1156:42:1489:-111.341,0,-81.2072 0/1:83:32,51:32:1116:51:1820:-137.905,0,-75.7591 0/1:87:37,50:37:1315:50:1764:-132.161,0,-92.4614 0/1:239:116,123:116:4082:123:4362:-317.678,0,-295.623 chr04 29786945 . A G 15677.7 PASS AB=0.52498;ABP=9.84501;AC=21;AF=0.5;AN=42;AO=662;CIGAR=1X;DP=1261;DPB=1261;DPRA=0;EPP=1061.27;EPPR=1243.63;GTI=0;LEN=1;MEANALT=1;MQM=55.1103;MQMR=59.9766;NS=21;NUMALT=1;ODDS=23.1991;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23418;QR=21451;RO=599;RPL=314;RPP=6.80218;RPPR=4.609;RPR=348;RUN=1;SAF=269;SAP=53.4462;SAR=393;SRF=282;SRP=7.45112;SRR=317;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:52,31:52:1868:31:1100:-74.1183,0,-143.414 0/1:92:52,40:52:1872:40:1432:-100.983,0,-141.063 0/1:18:6,12:6:216:12:432:-33.7748,0,-14.372 0/1:23:3,20:3:108:20:703:-56.6508,0,-3.15148 0/1:54:11,43:11:392:43:1513:-120.108,0,-19.3644 0/1:17:4,13:4:144:13:460:-36.4619,0,-8.19611 0/1:78:43,35:43:1531:35:1252:-88.7882,0,-114.602 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:67:42,25:42:1504:25:880:-59.3136,0,-115.486 0/1:35:11,24:11:396:24:852:-66.4463,0,-25.4467 0/1:15:2,13:2:72:13:464:-35.5842,0,-2.32127 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:57:36,21:36:1265:21:734:-49.1355,0,-96.9873 0/1:45:16,29:16:567:29:1044:-80.6424,0,-37.8142 0/1:62:46,16:46:1648:16:563:-32.3285,0,-129.945 0/1:47:28,19:28:1004:19:666:-45.9682,0,-76.5275 0/1:69:34,35:34:1220:35:1248:-91.8177,0,-89.3357 0/1:75:24,51:24:864:51:1796:-138.472,0,-55.5038 0/1:84:31,53:31:1112:53:1868:-142.003,0,-75.1048 0/1:88:38,50:38:1364:50:1753:-131.075,0,-96.5701 0/1:239:114,125:114:4088:125:4406:-321.65,0,-296.159 chr04 29924344 . CATCA CATCG,TATCG 17199.6 PASS AB=0.566787,0.433213;ABP=13.7422,13.7422;AC=33,9;AF=0.785714,0.214286;AN=42;AO=668,121;CIGAR=4M1X,1X3M1X;DP=791;DPB=791;DPRA=0,0.672098;EPP=1453.55,265.758;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.57143,2.1;MQM=59.6722,50.3884;MQMR=0;NS=21;NUMALT=2;ODDS=0.413753;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23900,4286;QR=0;RO=0;RPL=0,0;RPP=1453.55,265.758;RPPR=0;RPR=668,121;RUN=1,1;SAF=668,121;SAP=1453.55,265.758;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,22,21:0:0:22,21:792,753:-126.097,-61.4727,-54.8501,-64.983,0,-58.6614 1/2:19:0,8,11:0:0:8,11:288,381:-54.6475,-31.1417,-28.7335,-23.8592,0,-20.5478 1/2:13:0,6,7:0:0:6,7:216,244:-37.2257,-19.5916,-17.7854,-17.9843,0,-15.8771 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/1:70:0,70,0:0:0:70,0:2504,0:-225.592,-21.0721,0,-225.592,-21.0721,-225.592 1/1:12:0,12,0:0:0:12,0:424,0:-38.4918,-3.61236,0,-38.4918,-3.61236,-38.4918 1/2:29:0,17,12:0:0:17,12:599,417:-82.851,-34.0881,-28.9706,-49.1113,0,-45.499 1/2:17:0,9,8:0:0:9,8:320,281:-49.2343,-23.1563,-20.447,-26.4306,0,-24.0223 1/1:11:0,11,0:0:0:11,0:392,0:-35.6118,-3.31133,0,-35.6118,-3.31133,-35.6118 1/1:94:0,94,0:0:0:94,0:3360,0:-301.887,-28.2968,0,-301.887,-28.2968,-301.887 1/1:214:0,214,0:0:0:214,0:7661,0:-689.496,-64.4204,0,-689.496,-64.4204,-689.496 1/2:28:0,22,6:0:0:22,6:784,216:-81.5711,-17.6644,-11.0417,-64.2613,0,-62.4551 1/2:15:0,9,6:0:0:9,6:324,210:-43.8467,-17.4036,-14.6943,-26.7966,0,-24.9904 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:19:0,18,0:0:0:18,0:640,0:-57.6739,-5.41854,0,-57.6739,-5.41854,-57.6739 1/1:23:0,21,1:0:0:21,1:756,36:-68,-6.32163,0,-65.0708,-3.39235,-64.7698 1/1:30:0,30,0:0:0:30,0:1072,0:-96.7843,-9.0309,0,-96.7843,-9.0309,-96.7843 1/2:101:0,55,46:0:0:55,46:1976,1642:-293.959,-132.785,-116.228,-161.53,0,-147.683 1/2:12:0,9,3:0:0:9,3:320,106:-35.0407,-8.96916,-6.25989,-26.4248,0,-25.5218 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:7:0,7,0:0:0:7,0:248,0:-22.6595,-2.10721,0,-22.6595,-2.10721,-22.6595 chr04 29924393 . G T 14196.5 PASS AB=0.579137;ABP=18.1325;AC=33;AF=0.785714;AN=42;AO=661;CIGAR=1X;DP=779;DPB=779;DPRA=0;EPP=1438.35;EPPR=259.244;GTI=0;LEN=1;MEANALT=1;MQM=59.587;MQMR=50.8305;NS=21;NUMALT=1;ODDS=0.0375205;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23521;QR=4216;RO=118;RPL=661;RPP=1438.35;RPPR=259.244;RPR=0;RUN=1;SAF=661;SAP=1438.35;SAR=0;SRF=118;SRP=259.244;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:21,23:21:756:23:820:-60.8772,0,-55.0103 0/1:19:10,9:10:360:9:324:-23.7863,0,-26.8472 0/1:14:7,7:7:244:7:252:-18.8063,0,-17.3398 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:67:0,67:0:0:67:2376:-214.08,-20.169,0 1/1:12:0,12:0:0:12:432:-39.2166,-3.61236,0 0/1:27:11,16:11:388:16:572:-43.6764,0,-26.9556 0/1:17:8,9:8:284:9:324:-24.3821,0,-20.7105 1/1:11:0,11:0:0:11:396:-35.9745,-3.31133,0 1/1:95:1,94:1:32:94:3336:-296.914,-25.3985,0 1/1:204:0,204:0:0:204:7247:-652.265,-61.4101,0 0/1:28:5,23:5:180:23:824:-66.0095,0,-7.84787 0/1:15:6,9:6:212:9:324:-24.9904,0,-14.8754 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:19:0,19:0:0:19:675:-61.0688,-5.71957,0 1/1:22:0,22:0:0:22:784:-70.8594,-6.62266,0 1/1:31:0,31:0:0:31:1104:-99.6625,-9.33193,0 0/1:101:46,55:46:1652:55:1960:-146.247,0,-117.218 0/1:13:3,10:3:108:10:352:-28.0874,0,-6.14259 1/1:8:0,8:0:0:8:271:-24.7194,-2.40824,0 1/1:7:0,7:0:0:7:252:-23.0243,-2.10721,0 chr04 29924872 . C T 28347.7 PASS AB=0.483832;ABP=4.90611;AC=33;AF=0.785714;AN=42;AO=1350;CIGAR=1X;DP=1785;DPB=1785;DPRA=0;EPP=2934.5;EPPR=947.601;GTI=0;LEN=1;MEANALT=1;MQM=59.9081;MQMR=60;NS=21;NUMALT=1;ODDS=7.47506;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48091;QR=15475;RO=435;RPL=1350;RPP=2934.5;RPPR=947.601;RPR=0;RUN=1;SAF=1350;SAP=2934.5;SAR=0;SRF=435;SRP=947.601;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:59,25:59:2105:25:900:-56.0345,0,-164.431 0/1:79:39,40:39:1385:40:1416:-103.953,0,-101.165 0/1:36:15,21:15:527:21:737:-55.8135,0,-36.9231 1/1:39:0,39:0:0:39:1400:-126.299,-11.7402,0 1/1:99:0,99:0:0:99:3544:-319.169,-29.802,0 1/1:43:0,43:0:0:43:1536:-138.533,-12.9443,0 0/1:67:33,34:33:1167:34:1220:-89.9378,0,-85.1674 0/1:63:32,31:32:1152:31:1112:-81.4265,0,-85.0253 1/1:79:0,79:0:0:79:2809:-253.049,-23.7814,0 1/1:196:0,196:0:0:196:6979:-628.173,-59.0019,0 1/1:253:0,253:0:0:253:8981:-808.255,-76.1606,0 0/1:319:155,164:155:5502:164:5842:-429.815,0,-399.28 0/1:37:19,18:19:665:18:648:-47.5138,0,-49.0347 1/1:45:1,44:1:36:44:1584:-139.253,-9.94808,0 1/1:70:0,70:0:0:70:2496:-224.893,-21.0721,0 1/1:34:0,34:0:0:34:1183:-106.767,-10.235,0 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 0/1:136:75,61:75:2688:61:2156:-153.354,0,-201.225 0/1:14:4,10:4:140:10:360:-28.5299,0,-8.73016 1/1:37:3,34:3:108:34:1216:-99.6714,-1.06294,0 1/1:21:0,21:0:0:21:752:-68.0039,-6.32163,0 chr04 29927666 . G C 9499.01 PASS AB=0.598086;ABP=20.4756;AC=33;AF=0.785714;AN=42;AO=451;CIGAR=1X;DP=536;DPB=536;DPRA=0;EPP=982.344;EPPR=179.002;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.65578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15936;QR=2906;RO=85;RPL=0;RPP=982.344;RPPR=187.585;RPR=451;RUN=1;SAF=0;SAP=982.344;SAR=451;SRF=1;SRP=179.002;SRR=84;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:15,26:15:532:26:923:-71.0445,0,-35.8709 0/1:36:11,25:11:396:25:896:-70.1233,0,-25.1457 0/1:19:6,13:6:207:13:468:-36.7401,0,-13.2473 1/1:11:0,11:0:0:11:387:-35.1659,-3.31133,0 1/1:66:0,66:0:0:66:2321:-209.15,-19.868,0 1/1:25:0,25:0:0:25:881:-79.6059,-7.52575,0 0/1:35:11,24:11:388:24:860:-67.1858,0,-24.7213 0/1:13:9,4:9:320:4:140:-9.03119,0,-25.229 1/1:65:1,64:1:32:64:2228:-197.581,-16.3676,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:15:4,11:4:144:11:387:-30.6505,0,-8.79817 0/1:13:7,6:7:218:6:216:-15.8771,0,-16.011 1/1:30:0,30:0:0:30:1055:-95.26,-9.0309,0 1/1:40:0,40:0:0:40:1411:-127.287,-12.0412,0 1/1:26:0,26:0:0:26:923:-83.3868,-7.82678,0 1/1:19:0,19:0:0:19:672:-60.8068,-5.71957,0 0/1:24:14,10:14:430:10:345:-24.1561,0,-31.7709 0/1:13:7,6:7:239:6:207:-15.0535,0,-17.9293 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 chr04 29927771 . G A 80246.3 PASS AB=0.524907;ABP=10.2577;AC=32;AF=0.761905;AN=42;AO=2989;CIGAR=1X;DP=3641;DPB=3641;DPRA=30.2917;EPP=6493.54;EPPR=1405.79;GTI=1;LEN=1;MEANALT=1.1;MQM=50.2536;MQMR=52.9431;NS=21;NUMALT=1;ODDS=20.1441;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=106231;QR=23096;RO=650;RPL=1523;RPP=5.37066;RPPR=118.586;RPR=1466;RUN=1;SAF=1523;SAP=5.37066;SAR=1466;SRF=233;SRP=116.114;SRR=417;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:193:77,116:77:2705:116:4102:-305.748,0,-183.284 0/1:69:37,32:37:1319:32:1130:-79.3819,0,-97.3855 0/1:213:104,109:104:3698:109:3900:-282.304,0,-264.028 1/1:267:0,267:0:0:267:9565:-846.076,-80.375,0 1/1:389:1,388:1:36:388:13736:-1201.4,-113.502,0 1/1:114:4,110:4:144:110:3927:-333.531,-21.3936,0 0/1:288:123,163:123:4373:163:5802:-420.341,0,-297.742 0/1:120:72,48:72:2553:48:1716:-115.707,0,-191.825 1/1:411:0,411:0:0:411:14604:-1296.93,-123.723,0 1/1:35:1,34:1:36:34:1211:-103.283,-7.08156,0 1/1:15:0,15:0:0:15:536:-47.4287,-4.51545,0 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.4656 0/1:245:135,110:135:4821:110:3931:-271.216,0,-354.672 1/1:322:0,322:0:0:322:11401:-1011.16,-96.9317,0 1/1:170:0,170:0:0:170:6061:-535.283,-51.1751,0 1/1:93:0,93:0:0:93:3321:-295.288,-27.9958,0 1/1:108:0,108:0:0:108:3835:-340.556,-32.5112,0 0/1:106:50,56:50:1784:56:1923:-138.688,0,-127.444 0/1:111:39,72:39:1375:72:2545:-191.996,0,-89.4378 1/1:271:1,270:1:36:270:9612:-842.574,-77.9809,0 1/1:95:0,95:0:0:95:3373:-295.845,-28.5979,0 chr04 29927793 . G T 7333.15 PASS AB=0.528736;ABP=8.62618;AC=10;AF=0.238095;AN=42;AO=422;CIGAR=1X;DP=1900;DPB=1900;DPRA=1.13992;EPP=893.499;EPPR=3143.34;GTI=1;LEN=1;MEANALT=1;MQM=59.7559;MQMR=59.7463;NS=21;NUMALT=1;ODDS=4.94347;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15118;QR=52596;RO=1478;RPL=4;RPP=884.957;RPPR=3143.34;RPR=418;RUN=1;SAF=1;SAP=910.706;SAR=421;SRF=0;SRP=3212.45;SRR=1478;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:50,51:50:1784:51:1824:-134.029,0,-130.438 0/1:56:22,34:22:780:34:1220:-93.2424,0,-53.6629 0/1:121:61,60:61:2192:60:2156:-157.858,0,-161.116 0/0:136:136,0:136:4814:0:0:0,-40.9401,-433.414 0/0:124:123,1:123:4346:1:36:0,-33.7294,-387.537 0/0:77:75,2:75:2668:2:72:0,-16.3426,-233.519 0/1:171:93,78:93:3294:78:2800:-200.755,0,-245.196 0/1:79:22,57:22:784:57:2037:-159.77,0,-47.1025 0/0:184:184,0:184:6551:0:0:0,-55.3895,-589.647 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.6932 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:118:47,71:47:1676:71:2529:-192.339,0,-115.603 0/0:173:173,0:173:6192:0:0:0,-52.0782,-557.344 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.802 0/0:37:37,0:37:1316:0:0:0,-11.1381,-118.741 0/0:68:68,0:68:2400:0:0:0,-20.47,-215.931 0/1:83:43,40:43:1532:40:1436:-104.549,0,-113.162 0/1:54:31,23:31:1099:23:828:-58.5862,0,-82.9605 0/0:158:157,1:157:5589:1:36:0,-43.9645,-499.524 0/0:55:55,0:55:1955:0:0:0,-16.5566,-176.066 chr04 29937918 . CTTGTTGTGTTTC CTTGTGTTTC 39555.8 PASS AB=0.488827;ABP=4.17489;AC=33;AF=0.785714;AN=42;AO=1901;CIGAR=1M3D9M;DP=2474;DPB=2030.92;DPRA=0;EPP=4130.98;EPPR=1177.78;GTI=0;LEN=3;MEANALT=2.28571;MQM=59.9632;MQMR=60;NS=21;NUMALT=1;ODDS=8.19335;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66909;QR=18913;RO=541;RPL=0;RPP=4130.98;RPPR=1177.78;RPR=1901;RUN=1;SAF=0;SAP=4130.98;SAR=1901;SRF=0;SRP=1177.78;SRR=541;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:54,35:54:1882:35:1256:-86.1939,0,-142.508 0/1:46:28,18:28:972:18:644:-44.4073,0,-73.9447 0/1:168:92,75:92:3211:75:2661:-189.104,0,-238.588 1/1:105:1,103:1:36:103:3627:-323.037,-28.0687,0 1/1:290:0,286:0:0:286:10089:-907.594,-86.0946,0 1/1:63:0,63:0:0:63:2206:-198.803,-18.9649,0 0/1:124:77,45:77:2690:45:1589:-106.218,0,-205.27 0/1:203:76,125:76:2658:125:4380:-333.512,0,-178.604 1/1:242:0,239:0:0:239:8465:-761.525,-71.9462,0 1/1:8:0,8:0:0:8:280:-25.5393,-2.40824,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:32:22,10:22:766:10:360:-23.1113,0,-59.6274 0/1:170:80,87:80:2818:87:3065:-225.446,0,-203.232 1/1:144:2,141:2:70:141:4969:-440.721,-36.7299,0 1/1:228:0,224:0:0:224:7838:-705.108,-67.4307,0 1/1:34:0,34:0:0:34:1178:-106.32,-10.235,0 1/1:34:0,34:0:0:34:1204:-108.666,-10.235,0 0/1:159:76,81:76:2644:81:2845:-208.698,0,-190.618 0/1:80:30,49:30:1062:49:1704:-129.502,0,-71.7512 1/1:186:3,179:3:104:179:6295:-556.959,-45.4219,0 1/1:61:0,60:0:0:60:2074:-186.569,-18.0618,0 chr04 29947582 . T G 23026.4 PASS AB=0.804326;ABP=821.126;AC=28;AF=0.666667;AN=42;AO=1200;CIGAR=1X;DP=1422;DPB=1422;DPRA=0;EPP=2608.78;EPPR=9.62253;GTI=6;LEN=1;MEANALT=1;MQM=53.4592;MQMR=60;NS=21;NUMALT=1;ODDS=2.17254;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42414;QR=7918;RO=222;RPL=0;RPP=2608.78;RPPR=485.077;RPR=1200;RUN=1;SAF=0;SAP=2608.78;SAR=1200;SRF=124;SRP=9.62253;SRR=98;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:12,104:12:432:104:3663:-293.568,0,-4.30172 0/1:44:8,36:8:288:36:1292:-103.051,0,-13.0221 0/1:41:7,34:7:252:34:1201:-95.7581,0,-10.6867 0/1:19:3,16:3:100:16:563:-45.1505,0,-3.61087 0/1:200:19,181:19:680:181:6377:-511.76,0,-1.32316 0/1:56:8,48:8:288:48:1706:-136.505,0,-9.40973 0/1:104:18,86:18:640:86:3061:-243.384,0,-26.6222 0/1:37:8,29:8:288:29:1022:-81.1006,0,-15.1293 1/1:112:6,106:6:207:106:3746:-316.793,-14.7485,0 1/1:13:0,13:0:0:13:455:-41.1702,-3.91339,0 1/1:5:0,5:0:0:5:180:-16.4558,-1.50515,0 0/1:6:2,4:2:72:4:144:-11.5027,0,-5.03054 0/1:44:6,38:6:216:38:1349:-107.087,0,-6.54519 1/1:43:4,39:4:129:39:1380:-111.789,-1.01663,0 1/1:121:8,113:8:288:113:3991:-331.672,-10.1572,0 1/1:55:4,51:4:144:51:1802:-148.172,-3.24303,0 1/1:56:1,55:1:36:55:1963:-172.129,-13.2594,0 0/1:166:41,125:41:1464:125:4397:-343.083,0,-82.0851 0/1:61:18,43:18:639:43:1508:-116.208,0,-39.4754 0/1:39:6,33:6:216:33:1175:-93.5335,0,-8.05034 0/1:84:43,41:43:1539:41:1439:-101.602,0,-113.516 chr04 29947595 . TCC GCT,GCC 29756.5 PASS AB=0.806481,0.187037;ABP=884.154,921.817;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1219,221;CIGAR=1X1M1X,1X2M;DP=1448;DPB=1448;DPRA=0,7.9169;EPP=2641.36,5.84992;EPPR=7.35324;GTI=8;LEN=3,1;MEANALT=2.19048,2.26316;MQM=53.4906,60;MQMR=60;NS=21;NUMALT=2;ODDS=2.05249;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43036,7857;QR=62;RO=2;RPL=1,0;RPP=2641.36,482.906;RPPR=7.35324;RPR=1218,221;RUN=1,1;SAF=0,119;SAP=2650.04,5.84992;SAR=1219,102;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:116:0,103,12:0:0:103,12:3656,432:-331.842,-35.3319,-4.32586,-296.592,0,-292.98 1/2:44:0,36,8:0:0:36,8:1268,288:-126.86,-23.8592,-13.0221,-103.359,0,-100.951 1/2:42:0,35,7:0:0:35,7:1242,252:-121.841,-20.9217,-10.3857,-101.278,0,-99.1707 1/2:21:0,16,4:0:0:16,4:564,140:-57.1837,-11.3833,-6.56687,-45.7935,0,-44.5893 1/2:209:0,189,20:0:0:189,20:6666,701:-598.215,-57.3911,-0.496457,-541.174,0,-535.154 1/2:56:2,48,6:2:62:48,6:1695,216:-149.667,-12.6977,-3.21249,-132.644,0,-135.813 1/2:106:0,87,19:0:0:87,19:3063,684:-304.21,-56.1708,-29.9811,-248.398,0,-242.678 1/2:39:0,31,7:0:0:31,7:1100,252:-109.995,-20.5619,-11.23,-89.4318,0,-87.3246 1/1:114:0,108,6:0:0:108,6:3818,216:-341.763,-32.5112,0,-324.138,-14.5269,-322.332 1/1:14:0,13,0:0:0:13,0:460,0:-41.3631,-3.91339,0,-41.3631,-3.91339,-41.3631 1/1:5:0,5,0:0:0:5,0:180,0:-16.4558,-1.50515,0,-16.4558,-1.50515,-16.4558 1/2:7:0,5,2:0:0:5,2:180,72:-20.8883,-6.23466,-4.72951,-15.0133,0,-14.4112 1/2:45:0,39,6:0:0:39,6:1374,216:-128.585,-17.9843,-6.24416,-110.959,0,-109.153 1/2:45:0,40,5:0:0:40,5:1401,163:-126.637,-13.4862,-1.44501,-113.479,0,-111.974 1/1:122:0,114,8:0:0:114,8:4008,284:-359.137,-34.3174,0,-335.997,-10.8223,-333.589 1/1:56:0,52,4:0:0:52,4:1830,144:-163.658,-15.6536,0,-151.907,-3.54406,-150.703 1/1:57:0,56,1:0:0:56,1:1991,36:-177.695,-16.8577,0,-174.757,-13.5604,-174.456 1/2:167:0,126,39:0:0:126,39:4466,1395:-475.14,-113.812,-75.8825,-361.388,0,-349.648 1/2:61:0,42,19:0:0:42,19:1451,680:-172.561,-55.8096,-43.1663,-117.104,0,-111.384 1/2:40:0,34,6:0:0:34,6:1202,216:-115.123,-17.9843,-7.74931,-97.4975,0,-95.6913 1/2:82:0,40,42:0:0:40,42:1421,1470:-232.846,-119.947,-107.906,-113.247,0,-100.604 chr04 29947610 . C T 9480.02 PASS AB=0.446573;ABP=36.6545;AC=21;AF=0.5;AN=42;AO=611;CIGAR=1X;DP=1401;DPB=1401;DPRA=1.74615;EPP=1329.78;EPPR=810.479;GTI=2;LEN=1;MEANALT=1;MQM=48.1047;MQMR=59.5494;NS=21;NUMALT=1;ODDS=1.38945;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21715;QR=28038;RO=790;RPL=611;RPP=1329.78;RPPR=1701.15;RPR=0;RUN=1;SAF=0;SAP=1329.78;SAR=611;SRF=122;SRP=822.442;SRR=668;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:58,54:58:2063:54:1920:-138.374,0,-151.903 0/1:43:29,14:29:1036:14:500:-32.1386,0,-80.5766 0/1:41:29,12:29:1040:12:424:-25.893,0,-81.5721 0/1:21:14,7:14:487:7:248:-16.2138,0,-37.8376 0/1:202:112,90:112:3978:90:3180:-223.88,0,-297.349 0/1:54:33,21:33:1175:21:752:-51.2987,0,-89.8013 0/1:104:66,38:66:2352:38:1352:-89.8448,0,-180.322 0/0:39:39,0:39:1384:0:0:0,-11.7402,-124.69 0/1:107:52,55:52:1852:55:1964:-143.24,0,-134.712 0/1:14:6,8:6:216:8:288:-21.9331,0,-15.5582 1/1:5:0,5:0:0:5:180:-16.4558,-1.50515,0 0/1:7:5,2:5:180:2:72:-4.69478,0,-14.4449 0/1:43:22,21:22:784:21:737:-53.1065,0,-57.9396 0/1:44:23,21:23:812:21:744:-53.0858,0,-60.1554 0/1:115:61,54:61:2164:54:1932:-138.209,0,-160.329 0/1:55:32,23:32:1152:23:820:-56.6063,0,-87.4197 0/1:54:25,29:25:888:29:1017:-74.3721,0,-63.9718 0/1:162:106,56:106:3751:56:1996:-128.285,0,-288.964 0/1:61:30,31:30:1046:31:1116:-80.9181,0,-76.0571 0/1:39:6,33:6:212:33:1161:-92.2893,0,-7.68463 0/1:79:42,37:42:1466:37:1312:-91.8021,0,-108.449 chr04 30002474 . G C 112340 PASS AB=0.489009;ABP=5.34933;AC=33;AF=0.785714;AN=42;AO=4134;CIGAR=1X;DP=5295;DPB=5295;DPRA=0;EPP=8979.88;EPPR=2502.38;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9857;MQMR=59.9922;NS=21;NUMALT=1;ODDS=20.4109;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=146956;QR=41058;RO=1155;RPL=2135;RPP=12.7257;RPPR=3.55364;RPR=1999;RUN=1;SAF=2135;SAP=12.7257;SAR=1999;SRF=587;SRP=3.689;SRR=568;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:379:205,174:205:7251:174:6202:-444.186,0,-538.548 0/1:251:142,109:142:5036:109:3887:-274.467,0,-377.83 0/1:200:121,79:121:4336:79:2811:-193.024,0,-330.209 1/1:360:1,359:1:36:359:12773:-1145.79,-104.773,0 1/1:670:10,659:10:360:659:23398:-2072.3,-169.005,0 1/1:155:2,152:2:72:152:5416:-480.734,-39.8817,0 0/1:358:170,188:170:6045:188:6674:-492.971,0,-436.386 0/1:288:124,162:124:4407:162:5749:-431.093,0,-310.368 1/1:310:0,310:0:0:310:10986:-988.645,-93.3193,0 1/1:17:0,17:0:0:17:599:-54.2381,-5.11751,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:78:55,23:55:1968:23:815:-50.1904,0,-153.915 0/1:314:167,147:167:5946:147:5212:-374.698,0,-440.725 1/1:271:1,270:1:36:270:9580:-858.561,-77.9809,0 1/1:452:0,452:0:0:452:16073:-1446.26,-136.066,0 1/1:216:0,216:0:0:216:7694:-692.494,-65.0225,0 1/1:239:2,237:2:72:237:8463:-754.835,-65.1094,0 0/1:180:100,80:100:3530:80:2817:-199.584,0,-263.724 0/1:181:53,128:53:1891:128:4545:-354.732,0,-115.981 1/1:237:1,234:1:36:234:8344:-747.182,-67.5036,0 1/1:124:1,123:1:36:123:4378:-390.597,-33.7294,0 chr04 30019641 . CA GG,GA 33493.2 PASS AB=0.541315,0.455312;ABP=11.8024,13.2964;AC=33,9;AF=0.785714,0.214286;AN=42;AO=979,273;CIGAR=2X,1X1M;DP=1254;DPB=1254;DPRA=0,1.09442;EPP=2111.55,595.822;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.61905,2.18182;MQM=56.5955,59.6593;MQMR=0;NS=21;NUMALT=2;ODDS=8.43556;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33934,9740;QR=0;RO=0;RPL=481,132;RPP=3.65132,3.65458;RPPR=0;RPR=498,141;RUN=1,1;SAF=483,132;SAP=3.38515,3.65458;SAR=496,141;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:57:0,26,31:0:0:26,31:897,1112:-163.892,-91.0547,-83.2279,-73.1881,0,-63.8562 1/2:49:0,21,28:0:0:21,28:730,1000:-140.57,-81.8702,-75.5486,-59.0489,0,-50.62 1/2:35:0,14,20:0:0:14,20:434,712:-92.9301,-58.1287,-53.9143,-34.8713,0,-28.8507 1/1:44:0,44,0:0:0:44,0:1538,0:-138.627,-13.2453,0,-138.627,-13.2453,-138.627 1/1:106:0,106,0:0:0:106,0:3646,0:-327.997,-31.9092,0,-327.997,-31.9092,-327.997 1/1:45:0,44,1:0:0:44,1:1518,36:-135.99,-13.2453,0,-133.052,-9.94808,-132.751 1/2:87:0,41,46:0:0:41,46:1429,1630:-249.087,-133.14,-120.797,-116.298,0,-102.451 1/2:72:0,35,37:0:0:35,37:1223,1322:-207.535,-108.136,-97.6004,-99.7513,0,-88.6132 1/1:132:0,132,0:0:0:132,0:4577,0:-411.517,-39.736,0,-411.517,-39.736,-411.517 1/1:10:0,10,0:0:0:10,0:358,0:-32.5213,-3.0103,0,-32.5213,-3.0103,-32.5213 1/1:6:0,6,0:0:0:6,0:208,0:-18.9992,-1.80618,0,-18.9992,-1.80618,-18.9992 1/2:30:0,18,12:0:0:18,12:619,432:-85.8194,-35.5996,-30.181,-50.5731,0,-46.9607 1/2:66:0,43,23:0:0:43,23:1495,805:-187.283,-65.8024,-52.8581,-121.83,0,-114.906 1/1:60:0,60,0:0:0:60,0:2135,0:-192.192,-18.0618,0,-192.192,-18.0618,-192.192 1/1:54:0,54,0:0:0:54,0:1865,0:-167.862,-16.2556,0,-167.862,-16.2556,-167.862 1/1:42:0,42,0:0:0:42,0:1460,0:-131.481,-12.6433,0,-131.481,-12.6433,-131.481 1/1:27:0,27,0:0:0:27,0:946,0:-85.3881,-8.12781,0,-85.3881,-8.12781,-85.3881 1/2:104:0,56,47:0:0:56,47:1941,1683:-294.637,-137.396,-120.538,-157.389,0,-143.241 1/2:93:0,67,26:0:0:67,26:2315,936:-264.717,-76.7303,-56.5613,-188.342,0,-180.515 1/1:47:0,45,2:0:0:45,2:1548,72:-138.366,-13.5464,0,-132.49,-7.31169,-131.888 1/1:88:0,88,0:0:0:88,0:3052,0:-274.611,-26.4906,0,-274.611,-26.4906,-274.611 chr04 30019659 . G A 6053.14 PASS AB=0.465313;ABP=9.18669;AC=9;AF=0.214286;AN=42;AO=278;CIGAR=1X;DP=1231;DPB=1231;DPRA=1.12562;EPP=3.2915;EPPR=4.21566;GTI=0;LEN=1;MEANALT=1;MQM=59.5827;MQMR=56.6821;NS=21;NUMALT=1;ODDS=7.1087;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9916;QR=33925;RO=953;RPL=278;RPP=606.68;RPPR=2072.42;RPR=0;RUN=1;SAF=142;SAP=3.2915;SAR=136;SRF=465;SRP=4.21566;SRR=488;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:26,30:26:932:30:1068:-79.5697,0,-67.3039 0/1:49:20,29:20:712:29:1032:-78.4267,0,-49.0072 0/1:31:12,19:12:432:19:684:-52.5584,0,-29.8751 0/0:42:42,0:42:1500:0:0:0,-12.6433,-134.893 0/0:103:103,0:103:3691:0:0:0,-31.0061,-331.586 0/0:43:42,1:42:1481:1:36:0,-9.34601,-129.404 0/1:87:41,46:41:1468:46:1640:-121.672,0,-105.801 0/1:73:34,39:34:1220:39:1395:-103.869,0,-87.9337 0/0:127:127,0:127:4497:0:0:0,-38.2308,-404.063 0/0:10:10,0:10:348:0:0:0,-3.0103,-31.623 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.6972 0/1:29:18,11:18:648:11:396:-27.2436,0,-49.8723 0/1:68:43,25:43:1531:25:896:-60.3993,0,-117.441 0/0:58:58,0:58:2075:0:0:0,-17.4597,-186.321 0/0:51:51,0:51:1781:0:0:0,-15.3525,-160.309 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.343 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7321 0/1:107:57,50:57:2007:50:1783:-128.504,0,-148.067 0/1:91:65,26:65:2328:26:914:-55.1786,0,-182.274 0/0:47:45,2:45:1598:2:72:0,-7.31169,-136.145 0/0:86:86,0:86:3052:0:0:0,-25.8886,-274.413 chr04 30049715 . 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A G 7328.39 PASS AB=0.441756;ABP=35.8937;AC=9;AF=0.214286;AN=42;AO=497;CIGAR=1X;DP=2634;DPB=2634;DPRA=1.24041;EPP=1073.56;EPPR=4617.43;GTI=0;LEN=1;MEANALT=1;MQM=59.998;MQMR=59.9803;NS=21;NUMALT=1;ODDS=24.7326;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17087;QR=75964;RO=2137;RPL=0;RPP=1082.23;RPPR=4608.77;RPR=497;RUN=1;SAF=1;SAP=1073.56;SAR=496;SRF=7;SRP=4582.84;SRR=2130;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:73,63:73:2562:63:2168:-154.443,0,-189.889 0/1:109:65,44:65:2323:44:1523:-104.549,0,-176.517 0/1:117:63,54:63:2215:54:1869:-133.267,0,-164.392 0/0:178:178,0:178:6363:0:0:0,-53.5833,-572.761 0/0:230:229,1:229:8150:1:36:0,-65.6386,-729.916 0/0:174:171,3:171:6083:3:104:0,-42.6764,-537.863 0/1:173:90,83:90:3185:83:2879:-207.271,0,-234.796 0/1:189:104,85:104:3659:85:2900:-204.341,0,-272.619 0/0:255:255,0:255:9090:0:0:0,-76.7626,-818.077 0/0:13:13,0:13:455:0:0:0,-3.91339,-41.282 0/0:12:12,0:12:414:0:0:0,-3.61236,-37.5889 0/1:21:11,10:11:396:10:340:-24.6074,0,-29.6611 0/1:228:131,97:131:4671:97:3339:-232.095,0,-351.918 0/0:165:165,0:165:5855:0:0:0,-49.6699,-527.065 0/0:126:126,0:126:4516:0:0:0,-37.9298,-406.607 0/0:91:91,0:91:3233:0:0:0,-27.3937,-291.192 0/0:100:100,0:100:3571:0:0:0,-30.103,-321.59 0/1:67:32,35:32:1139:35:1194:-87.5916,0,-82.6494 0/1:76:54,22:54:1882:22:735:-43.5841,0,-146.776 0/0:119:119,0:119:4238:0:0:0,-35.8226,-381.592 0/0:55:55,0:55:1964:0:0:0,-16.5566,-177.035 chr04 30049818 . T C 45634.8 PASS AB=0.53617;ABP=16.3625;AC=33;AF=0.785714;AN=42;AO=2137;CIGAR=1X;DP=2689;DPB=2689;DPRA=0;EPP=4643.45;EPPR=1197.32;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9925;MQMR=59.9473;NS=21;NUMALT=1;ODDS=19.2539;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76153;QR=19686;RO=550;RPL=3;RPP=4617.43;RPPR=1188.65;RPR=2134;RUN=1;SAF=3;SAP=4617.43;SAR=2134;SRF=1;SRP=1188.65;SRR=549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:66,75:66:2357:75:2700:-200.798,0,-169.942 0/1:119:53,66:53:1908:66:2368:-177.555,0,-136.175 0/1:118:56,62:56:2012:62:2219:-164.452,0,-145.832 1/1:179:0,179:0:0:179:6367:-573.12,-53.8844,0 1/1:230:1,229:1:36:229:8148:-729.741,-65.6386,0 1/1:168:3,163:3:104:163:5812:-513.486,-40.6227,0 0/1:182:89,93:89:3177:93:3314:-243.69,0,-231.365 0/1:205:98,107:98:3512:107:3795:-280.037,0,-254.089 1/1:255:0,255:0:0:255:9052:-814.657,-76.7627,0 1/1:13:0,13:0:0:13:458:-41.5534,-3.91339,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:25:11,14:11:392:14:500:-37.8104,0,-28.0943 0/1:235:107,128:107:3840:128:4575:-341.173,0,-275.053 1/1:171:0,171:0:0:171:6121:-550.988,-51.4761,0 1/1:124:0,124:0:0:124:4421:-398.062,-37.3277,0 1/1:89:0,89:0:0:89:3181:-286.514,-26.7917,0 1/1:100:0,100:0:0:100:3568:-321.326,-30.103,0 0/1:72:40,32:40:1412:32:1136:-80.8747,0,-105.7 0/1:78:25,53:25:900:53:1892:-147.078,0,-57.8407 1/1:121:1,120:1:36:120:4267:-380.61,-32.8264,0 1/1:52:0,52:0:0:52:1827:-164.707,-15.6536,0 chr04 30049895 . T C 22173.8 PASS AB=0.574733;ABP=30.2735;AC=34;AF=0.809524;AN=42;AO=1034;CIGAR=1X;DP=1276;DPB=1276;DPRA=0;EPP=2187.92;EPPR=502.772;GTI=0;LEN=1;MEANALT=1;MQM=59.5368;MQMR=60;NS=21;NUMALT=1;ODDS=10.1145;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36705;QR=8687;RO=242;RPL=7;RPP=2187.92;RPPR=502.772;RPR=1027;RUN=1;SAF=1034;SAP=2248.31;SAR=0;SRF=242;SRP=528.507;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:37,42:37:1328:42:1500:-111.501,0,-96.0409 1/1:26:2,24:2:72:24:860:-70.8688,-0.990058,0 0/1:51:28,23:28:1004:23:810:-57.8594,0,-75.3233 1/1:89:0,89:0:0:89:3192:-287.482,-26.7917,0 1/1:106:0,106:0:0:106:3778:-340.169,-31.9092,0 1/1:18:1,17:1:36:17:593:-50.096,-1.82027,0 0/1:83:32,51:32:1152:51:1802:-137.038,0,-79.0047 0/1:56:27,29:27:959:29:1038:-76.8751,0,-69.7677 1/1:124:0,124:0:0:124:4412:-397.158,-37.3277,0 1/1:12:0,12:0:0:12:428:-38.8582,-3.61236,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:16:4,12:4:144:12:432:-34.4047,0,-8.49714 0/1:118:52,66:52:1872:66:2350:-176.212,0,-133.238 1/1:63:0,63:0:0:63:2218:-199.879,-18.9649,0 1/1:62:0,62:0:0:62:2211:-199.233,-18.6639,0 1/1:36:0,36:0:0:36:1283:-115.773,-10.8371,0 1/1:48:0,48:0:0:48:1698:-153.093,-14.4494,0 0/1:93:39,54:39:1404:54:1908:-143.98,0,-98.6635 0/1:66:20,46:20:716:46:1622:-126.395,0,-44.8997 1/1:92:0,92:0:0:92:3248:-292.49,-27.6948,0 1/1:31:0,31:0:0:31:1070:-96.5817,-9.33193,0 chr04 30054222 . AAAC GAAC,GAAT 56142 PASS AB=0.519213,0.47985;ABP=6.43134,6.77324;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1995,518;CIGAR=1X3M,1X2M1X;DP=2517;DPB=2517.5;DPRA=0,1.1665;EPP=4061.61,1059.42;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.7619,2.16667;MQM=59.8391,56.1371;MQMR=0;NS=21;NUMALT=2;ODDS=12.816;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=1;QA=71298,18318;QR=0;RO=0;RPL=32,8;RPP=4061.61,1059.42;RPPR=0;RPR=1963,510;RUN=1,1;SAF=1995,518;SAP=4335.1,1127.83;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:133:0,75,58:0:0:75,58:2692,2028:-384.72,-165.144,-142.567,-219.929,0,-202.47 1/2:93:0,60,33:0:0:60,33:2160,1171:-271.962,-95.7164,-77.6546,-176.602,0,-166.668 1/2:161:0,77,84:0:0:77,84:2741,2981:-466.217,-242.824,-219.644,-223.683,0,-198.396 1/1:156:0,155,1:0:0:155,1:5568,36:-500.865,-46.6597,0,-497.93,-43.365,-497.629 1/1:162:0,159,3:0:0:159,3:5682,108:-511.126,-47.8638,0,-502.326,-38.705,-501.423 1/1:147:0,144,2:0:0:144,2:5164,65:-464.559,-43.3483,0,-459.314,-38.1266,-458.712 1/2:196:0,95,101:0:0:95,101:3403,3572:-567.957,-290.474,-261.876,-277.838,0,-247.434 1/2:167:0,83,84:0:0:83,84:2957,2968:-482.957,-241.936,-216.95,-241.376,0,-216.09 1/1:272:0,270,0:0:0:270,0:9657,0:-868.71,-81.2781,0,-868.71,-81.2781,-868.71 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:4:0,4,0:0:0:4,0:144,0:-13.3127,-1.20412,0,-13.3127,-1.20412,-13.3127 1/2:33:0,18,15:0:0:18,15:631,532:-94.9411,-43.5982,-38.1797,-51.6952,0,-47.1797 1/2:156:0,75,80:0:0:75,80:2667,2841:-448.1,-231.034,-208.457,-217.131,0,-193.049 1/1:182:0,182,0:0:0:182,0:6516,0:-586.512,-54.7875,0,-586.512,-54.7875,-586.512 1/1:166:0,166,0:0:0:166,0:5909,0:-531.916,-49.971,0,-531.916,-49.971,-531.916 1/1:94:0,94,0:0:0:94,0:3354,0:-301.804,-28.2968,0,-301.804,-28.2968,-301.804 1/1:98:0,98,0:0:0:98,0:3501,0:-315.294,-29.5009,0,-315.294,-29.5009,-315.294 1/2:66:0,30,36:0:0:30,36:1064,1268:-190.104,-103.419,-94.388,-87.0385,0,-76.2014 1/2:62:0,41,21:0:0:41,21:1463,748:-180.449,-61.1816,-48.8394,-119.623,0,-113.301 1/1:88:0,88,0:0:0:88,0:3136,0:-282.393,-26.4906,0,-282.393,-26.4906,-282.393 1/1:70:0,70,0:0:0:70,0:2493,0:-224.618,-21.0721,0,-224.618,-21.0721,-224.618 chr04 30090737 . C A,G 50846.2 PASS AB=0.531632,0.467259;ABP=10.8406,11.3998;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1425,421;CIGAR=1X,1X;DP=1847;DPB=1847;DPRA=0,1.26991;EPP=3097.36,917.2;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.47619,2.11111;MQM=59.8702,59.7696;MQMR=0;NS=21;NUMALT=2;ODDS=6.94343;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50932,15027;QR=0;RO=0;RPL=687,177;RPP=6.97381,26.1641;RPPR=0;RPR=738,244;RUN=1,1;SAF=687,177;SAP=6.97381,26.1641;SAR=738,244;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:96:0,41,55:0:0:41,55:1476,1972:-281.619,-161.195,-148.853,-120.782,0,-104.226 1/2:61:0,30,31:0:0:30,31:1076,1112:-178.778,-91.0145,-81.9836,-88.122,0,-78.79 1/2:79:0,30,49:0:0:30,49:1080,1756:-231.638,-143.515,-134.484,-88.4823,0,-73.7319 1/1:83:0,83,0:0:0:83,0:2967,0:-267.215,-24.9855,0,-267.215,-24.9855,-267.215 1/1:207:0,207,0:0:0:207,0:7399,0:-665.948,-62.3132,0,-665.948,-62.3132,-665.948 1/1:77:0,77,0:0:0:77,0:2756,0:-248.274,-23.1793,0,-248.274,-23.1793,-248.274 1/2:144:0,78,66:0:0:78,66:2769,2341:-416.351,-190.746,-167.266,-225.959,0,-206.091 1/2:88:0,55,33:0:0:55,33:1957,1175:-255.61,-96.1184,-79.5617,-159.847,0,-149.913 1/1:128:0,128,0:0:0:128,0:4570,0:-411.465,-38.5318,0,-411.465,-38.5318,-411.465 1/1:9:0,9,0:0:0:9,0:309,0:-28.1404,-2.70927,0,-28.1404,-2.70927,-28.1404 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:24:0,15,9:0:0:15,9:536,320:-70.1364,-26.4331,-21.9176,-44.0594,0,-41.3501 1/2:102:0,47,55:0:0:47,55:1684,1965:-297.905,-160.569,-146.42,-137.694,0,-121.137 1/1:62:0,62,0:0:0:62,0:2219,0:-199.973,-18.6639,0,-199.973,-18.6639,-199.973 1/1:85:0,85,0:0:0:85,0:3037,0:-273.486,-25.5876,0,-273.486,-25.5876,-273.486 1/1:51:0,51,0:0:0:51,0:1832,0:-165.16,-15.3525,0,-165.16,-15.3525,-165.16 1/1:27:0,27,0:0:0:27,0:968,0:-87.4374,-8.12781,0,-87.4374,-8.12781,-87.4374 1/2:153:0,80,73:0:0:80,73:2876,2594:-446.357,-211.733,-187.651,-234.981,0,-213.005 1/2:154:0,103,50:0:0:103,50:3681,1792:-446.264,-146.144,-115.138,-300.118,0,-285.066 1/1:104:0,104,0:0:0:104,0:3701,0:-333.066,-31.3071,0,-333.066,-31.3071,-333.066 1/1:106:0,106,0:0:0:106,0:3787,0:-341.02,-31.9092,0,-341.02,-31.9092,-341.02 chr04 30100697 . GATG AATA 5140.71 PASS AB=0.408873;ABP=63.1658;AC=9;AF=0.214286;AN=42;AO=341;CIGAR=1X2M1X;DP=1559;DPB=1559;DPRA=1.53379;EPP=743.482;EPPR=2619.66;GTI=0;LEN=4;MEANALT=1.22222;MQM=59.8944;MQMR=60;NS=21;NUMALT=1;ODDS=6.76924;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12081;QR=42778;RO=1213;RPL=0;RPP=743.482;RPPR=2628.33;RPR=341;RUN=1;SAF=341;SAP=743.482;SAR=0;SRF=1212;SRP=2628.33;SRR=1;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:27,18:27:936:18:636:-44.0219,0,-71.0044 0/1:30:21,9:21:737:9:323:-20.3842,0,-57.6202 0/1:136:71,65:71:2494:65:2302:-166.502,0,-183.774 0/0:71:71,0:71:2471:0:0:0,-21.3731,-222.643 0/0:96:96,0:96:3356:0:0:0,-28.8989,-302.257 0/0:54:54,0:54:1903:0:0:0,-16.2556,-171.547 0/1:104:54,49:54:1932:49:1730:-124.619,0,-142.791 0/1:129:81,47:81:2878:47:1664:-111.302,0,-220.514 0/0:162:161,0:161:5665:0:0:0,-48.4658,-509.768 0/0:24:24,0:24:832:0:0:0,-7.22472,-75.196 0/0:11:11,0:11:391:0:0:0,-3.31133,-35.5295 0/1:45:31,14:31:1108:14:495:-31.3377,0,-86.4849 0/1:128:73,55:73:2604:55:1946:-136.455,0,-196.077 0/0:99:97,0:97:3373:0:0:0,-29.1999,-303.501 0/0:59:59,0:59:2099:0:0:0,-17.7608,-189.179 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:17:17,0:17:602:0:0:0,-5.11751,-54.5099 0/1:147:81,66:81:2883:66:2341:-166.698,0,-215.456 0/1:70:52,18:52:1851:18:644:-37.2188,0,-145.797 0/0:71:71,0:71:2517:0:0:0,-21.3731,-226.783 0/0:57:57,0:57:2002:0:0:0,-17.1587,-180.45 chr04 30173827 . G T 7591.02 PASS AB=0.497076;ABP=3.08649;AC=9;AF=0.214286;AN=42;AO=512;CIGAR=1X;DP=2445;DPB=2445;DPRA=1.08618;EPP=1114.8;EPPR=4198.29;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9414;MQMR=59.9865;NS=21;NUMALT=1;ODDS=17.3265;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17211;QR=69179;RO=1932;RPL=512;RPP=1114.8;RPPR=4198.29;RPR=0;RUN=1;SAF=0;SAP=1114.8;SAR=512;SRF=0;SRP=4198.29;SRR=1932;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:165:70,94:70:2512:94:3179:-236.6,0,-176.603 0/1:110:64,46:64:2304:46:1460:-98.5531,0,-174.507 0/1:84:50,34:50:1792:34:1121:-75.8916,0,-136.276 0/0:113:113,0:113:4052:0:0:0,-34.0164,-364.867 0/0:203:203,0:203:7234:0:0:0,-61.1091,-650.957 0/0:221:220,1:220:7876:1:32:0,-63.3283,-705.667 0/1:157:61,96:61:2192:96:3217:-242.483,0,-150.284 0/1:180:84,96:84:3008:96:3262:-239.608,0,-216.766 0/0:208:208,0:208:7460:0:0:0,-62.6142,-671.442 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:39:16,23:16:576:23:753:-56.3289,0,-40.4348 0/1:168:96,72:96:3422:72:2459:-170.984,0,-257.616 0/0:143:143,0:143:5124:0:0:0,-43.0473,-461.302 0/0:228:228,0:228:8148:0:0:0,-68.6348,-733.337 0/0:84:83,1:83:2988:1:36:0,-21.6882,-265.553 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.759 0/1:63:38,25:38:1349:25:885:-61.0016,0,-102.743 0/1:60:36,24:36:1292:24:807:-54.8744,0,-98.522 0/0:85:85,0:85:3039:0:0:0,-25.5875,-273.74 0/0:55:55,0:55:1967:0:0:0,-16.5566,-177.304 chr04 30175350 . GC AA,AC 46483.6 PASS AB=0.54171,0.45829;ABP=17.6828,17.6828;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1751,449;CIGAR=2X,1X1M;DP=2200;DPB=2200;DPRA=0,0.983017;EPP=3805.26,978.001;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.61905,2;MQM=59.9452,59.9777;MQMR=0;NS=21;NUMALT=2;ODDS=18.6052;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61532,15706;QR=0;RO=0;RPL=0,0;RPP=3805.26,978.001;RPPR=0;RPR=1751,449;RUN=1,1;SAF=1751,449;SAP=3805.26,978.001;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,66,54:0:0:66,54:2326,1848:-339.715,-150.332,-130.464,-189.73,0,-173.475 1/2:124:0,69,55:0:0:69,55:2454,1922:-356.688,-156.697,-135.926,-200.343,0,-183.787 1/2:215:0,116,99:0:0:116,99:4084,3448:-613.208,-280.732,-245.812,-332.826,0,-303.024 1/1:94:0,94,0:0:0:94,0:3324,0:-299.008,-28.2968,0,-299.008,-28.2968,-299.008 1/1:175:0,174,1:0:0:174,1:6129,36:-551.355,-52.3792,0,-548.418,-49.082,-548.117 1/1:90:0,90,0:0:0:90,0:3142,0:-283.003,-27.0927,0,-283.003,-27.0927,-283.003 1/2:106:0,54,52:0:0:54,52:1860,1852:-302.374,-151.306,-135.051,-151.418,0,-135.764 1/2:80:0,46,34:0:0:46,34:1630,1177:-228.787,-95.9972,-82.1498,-133.139,0,-122.904 1/1:171:0,171,0:0:0:171,0:6030,0:-542.808,-51.4761,0,-542.808,-51.4761,-542.808 1/1:34:0,33,1:0:0:33,1:1162,36:-104.525,-9.93399,0,-101.587,-6.63675,-101.286 1/1:13:0,13,0:0:0:13,0:456,0:-41.3729,-3.91339,0,-41.3729,-3.91339,-41.3729 1/2:61:0,26,35:0:0:26,35:909,1225:-173.963,-100.016,-92.1889,-74.2968,0,-63.7608 1/2:125:0,59,66:0:0:59,66:2081,2307:-357.466,-188.019,-170.258,-169.798,0,-149.93 1/1:156:0,156,0:0:0:156,0:5465,0:-491.981,-46.9607,0,-491.981,-46.9607,-491.981 1/1:169:0,169,0:0:0:169,0:5980,0:-538.223,-50.8741,0,-538.223,-50.8741,-538.223 1/1:101:0,101,0:0:0:101,0:3563,0:-320.871,-30.404,0,-320.871,-30.404,-320.871 1/1:54:0,53,1:0:0:53,1:1853,36:-166.687,-15.9546,0,-163.75,-12.6573,-163.449 1/2:81:0,47,34:0:0:47,34:1624,1207:-230.644,-98.7003,-84.5518,-132.295,0,-122.06 1/2:59:0,43,16:0:0:43,16:1535,576:-172.497,-47.3585,-34.4142,-125.498,0,-120.681 1/1:119:0,118,1:0:0:118,1:4075,36:-366.507,-35.5215,0,-363.569,-32.2243,-363.268 1/1:53:0,53,0:0:0:53,0:1850,0:-166.775,-15.9546,0,-166.775,-15.9546,-166.775 chr04 30237933 . GATGT AATGC,AATGT 41371.9 PASS AB=0.47878,0.517241;ABP=5.95936,4.95714;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1643,400;CIGAR=1X3M1X,1X4M;DP=2050;DPB=2510;DPRA=0,1.85275;EPP=3570.74,871.599;EPPR=0;GTI=0;LEN=5,1;MEANALT=2,2.26667;MQM=58.5691,59.8375;MQMR=0;NS=21;NUMALT=2;ODDS=16.9178;PAIRED=0,0;PAIREDR=0;PAO=1150,1150;PQA=33986,33986;PQR=0;PRO=0;QA=56343,14126;QR=0;RO=0;RPL=0,0;RPP=3570.74,871.599;RPPR=0;RPR=1643,400;RUN=1,1;SAF=0,0;SAP=3570.74,871.599;SAR=1643,400;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:131:0,45,86:0:0:45,86:1525,3013:-367.454,-243.895,-230.349,-122.323,0,-96.4343 1/2:92:0,47,44:0:0:47,44:1636,1563:-257.131,-124.226,-110.077,-129.801,0,-116.556 1/2:83:0,38,45:0:0:38,45:1327,1616:-236.03,-128.183,-116.744,-104.258,0,-90.7116 1/1:122:0,122,0:0:0:122,0:4218,0:-373.898,-36.7257,0,-373.898,-36.7257,-373.898 1/1:224:0,220,4:0:0:220,4:7538,144:-674.967,-66.2266,0,-663.218,-62.7732,-662.014 1/1:112:0,111,1:0:0:111,1:3799,36:-337.089,-33.4143,0,-334.152,-30.1171,-333.851 1/2:111:0,44,67:0:0:44,67:1477,2362:-306.7,-187.157,-173.911,-114.451,0,-94.2818 1/2:134:0,75,58:0:0:75,58:2527,2040:-366.59,-161.911,-139.334,-200.551,0,-183.091 1/1:158:0,157,1:0:0:157,1:5399,36:-471.258,-47.2617,0,-468.321,-43.9645,-468.02 1/1:10:0,10,0:0:0:10,0:342,0:-28.8924,-3.0103,0,-28.8924,-3.0103,-28.8924 1/1:7:0,7,0:0:0:7,0:236,0:-20.4346,-2.10721,0,-20.4346,-2.10721,-20.4346 1/2:26:0,14,12:0:0:14,12:493,417:-71.5503,-31.5437,-27.3293,-37.7507,0,-34.1383 1/2:69:0,34,35:0:0:34,35:1179,1233:-193.223,-97.4517,-87.2167,-92.8985,0,-82.3624 1/1:106:0,105,1:0:0:105,1:3592,36:-316.012,-31.6082,0,-313.075,-28.3109,-312.774 1/1:217:0,214,2:0:0:214,2:7414,72:-662.832,-64.4204,0,-656.957,-66.6412,-656.355 1/1:73:0,70,0:0:0:70,0:2397,0:-213.403,-21.0721,0,-213.403,-21.0721,-213.403 1/1:115:0,114,1:0:0:114,1:3864,32:-340.137,-34.3174,0,-337.559,-31.4191,-337.258 1/2:57:0,29,28:0:0:29,28:957,995:-154.432,-77.2026,-68.4727,-73.4145,0,-64.9857 1/2:51:0,35,15:0:0:35,15:1208,531:-138.616,-40.6711,-30.135,-95.3831,0,-90.8677 1/1:115:0,115,0:0:0:115,0:3931,0:-348.619,-34.6185,0,-348.619,-34.6185,-348.619 1/1:37:0,37,0:0:0:37,0:1284,0:-111.763,-11.1381,0,-111.763,-11.1381,-111.763 chr04 30237945 . C A 35136.1 PASS AB=0.483073;ABP=4.92165;AC=33;AF=0.785714;AN=42;AO=1660;CIGAR=1X;DP=2066;DPB=2066;DPRA=0;EPP=3607.65;EPPR=884.628;GTI=0;LEN=1;MEANALT=1;MQM=58.5759;MQMR=59.8547;NS=21;NUMALT=1;ODDS=16.7034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58691;QR=14474;RO=406;RPL=0;RPP=3607.65;RPPR=884.628;RPR=1660;RUN=1;SAF=0;SAP=3607.65;SAR=1660;SRF=0;SRP=884.628;SRR=406;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:92,48:92:3239:48:1692:-110.329,0,-249.575 0/1:93:45,48:45:1612:48:1716:-126.639,0,-117.367 0/1:82:45,37:45:1616:37:1320:-94.3858,0,-121.046 1/1:125:0,125:0:0:125:4412:-397.196,-37.6288,0 1/1:223:4,219:4:144:219:7729:-681.795,-53.8161,0 1/1:117:1,116:1:36:116:4112:-366.592,-31.6222,0 0/1:115:67,48:67:2396:48:1686:-117.27,0,-181.278 0/1:134:59,75:59:2108:75:2678:-200.845,0,-149.65 1/1:159:1,158:1:36:158:5639:-503.61,-44.2655,0 1/1:11:0,11:0:0:11:383:-34.8023,-3.31133,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:26:12,14:12:424:14:487:-36.3324,0,-30.669 0/1:68:34,34:34:1211:34:1199:-87.7336,0,-88.8199 1/1:104:1,103:1:36:103:3587:-319.203,-27.7088,0 1/1:217:2,215:2:72:215:7614:-678.297,-58.4868,0 1/1:72:0,72:0:0:72:2547:-229.215,-21.6742,0 1/1:111:0,111:0:0:111:3961:-356.522,-33.4143,0 0/1:59:28,31:28:1004:31:1075:-79.2161,0,-72.9142 0/1:51:15,36:15:540:36:1260:-98.2791,0,-33.584 1/1:114:0,114:0:0:114:3999:-359.887,-34.3174,0 1/1:38:0,38:0:0:38:1347:-121.529,-11.4391,0 chr04 30237988 . T C 6644.91 PASS AB=0.509653;ABP=3.6391;AC=9;AF=0.214286;AN=42;AO=405;CIGAR=1X;DP=2103;DPB=2103;DPRA=1.64592;EPP=882.457;EPPR=3690.17;GTI=0;LEN=1;MEANALT=1;MQM=59.8395;MQMR=58.5695;NS=21;NUMALT=1;ODDS=17.9781;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14454;QR=60723;RO=1698;RPL=405;RPP=882.457;RPPR=3690.17;RPR=0;RUN=1;SAF=0;SAP=882.457;SAR=405;SRF=0;SRP=3690.17;SRR=1698;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:49,87:49:1760:87:3099:-238.187,0,-117.609 0/1:93:48,45:48:1694:45:1608:-117.007,0,-124.639 0/1:83:38,45:38:1364:45:1612:-120.385,0,-98.0165 0/0:126:126,0:126:4508:0:0:0,-37.9298,-405.822 0/0:230:226,4:226:8077:4:144:0,-55.9233,-712.596 0/0:117:116,1:116:4157:1:36:0,-31.6222,-370.605 0/1:123:52,71:52:1864:71:2526:-190.547,0,-130.855 0/1:136:77,59:77:2749:59:2093:-147.697,0,-206.591 0/0:161:160,1:160:5729:1:36:0,-44.8676,-511.761 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9818 0/0:7:7,0:7:237:0:0:0,-2.10721,-21.6591 0/1:27:15,12:15:540:12:432:-31.0918,0,-40.8083 0/1:68:34,34:34:1212:34:1224:-89.99,0,-88.9045 0/0:108:107,1:107:3844:1:36:0,-28.913,-342.236 0/0:220:218,2:218:7790:2:72:0,-59.3899,-694.097 0/0:74:74,0:74:2622:0:0:0,-22.2762,-235.991 0/0:115:115,0:115:4116:0:0:0,-34.6184,-370.34 0/1:60:32,28:32:1144:28:996:-71.8924,0,-85.0128 0/1:51:36,15:36:1288:15:540:-33.584,0,-100.794 0/0:116:116,0:116:4156:0:0:0,-34.9195,-373.953 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.118 chr04 30238020 . CACCAC TACCAT,TAACAT 56744.9 PASS AB=0.525547,0.463504;ABP=9.22356,15.6904;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2092,513;CIGAR=1X4M1X,1X1M1X2M1X;DP=2625;DPB=2625;DPRA=0,1.42167;EPP=4519.71,1099.67;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.38095,3;MQM=59.8504,59.3801;MQMR=0;NS=21;NUMALT=2;ODDS=19.6881;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74608,18234;QR=0;RO=0;RPL=3,1;RPP=4519.71,1108.31;RPPR=0;RPR=2089,512;RUN=1,1;SAF=2092,512;SAP=4545.73,1108.31;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:156:0,97,59:0:0:97,59:3450,2111:-453.312,-172.473,-143.273,-281.196,0,-263.435 1/2:186:0,84,98:0:0:84,98:3000,3480:-527.766,-283.449,-258.163,-244.353,0,-214.852 1/2:46:0,31,14:0:0:31,14:1107,498:-130.786,-40.5814,-31.2494,-90.2012,0,-85.9868 1/1:230:0,228,1:0:0:228,1:8086,36:-727.136,-68.6348,0,-724.198,-65.6974,-723.897 1/1:258:0,254,2:0:0:254,2:9067,71:-815.602,-76.4616,0,-809.817,-70.6354,-809.214 1/1:149:0,149,0:0:0:149,0:5321,0:-479.021,-44.8535,0,-479.021,-44.8535,-479.021 1/2:186:0,79,104:0:0:79,104:2818,3679:-529.373,-299.674,-275.893,-229.768,0,-198.461 1/2:110:0,57,50:0:0:57,50:2038,1776:-310.277,-144.1,-126.941,-166.201,0,-151.149 1/1:110:0,109,0:0:0:109,0:3904,0:-351.182,-32.8123,0,-351.182,-32.8123,-351.182 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/2:33:0,20,13:0:0:20,13:716,461:-96.3041,-37.9128,-31.8922,-58.7471,0,-54.8337 1/2:200:0,103,97:0:0:103,97:3671,3436:-579.182,-280.242,-249.236,-299.295,0,-270.095 1/1:94:0,94,0:0:0:94,0:3342,0:-300.997,-28.2968,0,-300.997,-28.2968,-300.997 1/1:224:0,223,0:0:0:223,0:7982,0:-718.041,-67.1297,0,-718.041,-67.1297,-718.041 1/1:128:0,127,1:0:0:127,1:4529,29:-407.488,-38.2308,0,-405.226,-35.6833,-404.925 1/1:124:0,123,0:0:0:123,0:4370,0:-393.23,-37.0267,0,-393.23,-37.0267,-393.23 1/2:90:0,45,45:0:0:45,45:1602,1613:-262.419,-131.899,-118.352,-130.877,0,-117.331 1/2:89:0,60,28:0:0:60,28:2148,1008:-257.388,-82.2211,-64.1593,-175.166,0,-166.738 1/1:120:0,117,1:0:0:117,1:4183,36:-376.321,-35.2205,0,-373.384,-32.2681,-373.083 1/1:68:0,68,0:0:0:68,0:2414,0:-217.513,-20.47,0,-217.513,-20.47,-217.513 chr04 30304253 . G A 9022.29 PASS AB=0.744444;ABP=283.275;AC=12;AF=0.285714;AN=42;AO=483;CIGAR=1X;DP=853;DPB=853;DPRA=2.7269;EPP=1034.53;EPPR=806.455;GTI=7;LEN=1;MEANALT=1;MQM=59.9565;MQMR=59.9351;NS=21;NUMALT=1;ODDS=1.17675;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17328;QR=13236;RO=370;RPL=481;RPP=1034.53;RPPR=806.455;RPR=2;RUN=1;SAF=0;SAP=1051.83;SAR=483;SRF=0;SRP=806.455;SRR=370;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:10,56:10:360:56:2000:-160.405,0,-12.8763 0/1:50:12,38:12:432:38:1368:-108.367,0,-24.1697 1/1:74:6,68:6:208:68:2436:-200.436,-3.21714,0 0/1:30:6,24:6:212:24:860:-68.6909,0,-10.3939 0/0:21:20,1:20:720:1:36:0,-2.72335,-61.5305 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:94:19,75:19:676:75:2700:-214.941,0,-32.8712 0/1:91:17,74:17:612:74:2656:-211.892,0,-28.0197 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/0:6:6,0:6:208:0:0:0,-1.80618,-19.0227 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 1/1:12:1,11:1:36:11:396:-32.3845,-0.0140851,0 0/1:86:10,76:10:356:76:2720:-219.155,0,-6.48802 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:73:40,33:40:1432:33:1184:-84.8927,0,-107.202 0/1:50:24,26:24:856:26:936:-69.508,0,-62.3073 0/0:22:21,1:21:756:1:36:0,-3.02438,-64.7689 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 chr04 30355560 . T C 34008.1 PASS AB=0.574732;ABP=61.7548;AC=32;AF=0.761905;AN=42;AO=1645;CIGAR=1X;DP=2168;DPB=2168;DPRA=0;EPP=3566.4;EPPR=1136.52;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.5837;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58625;QR=18612;RO=522;RPL=1644;RPP=3566.4;RPPR=1136.52;RPR=1;RUN=1;SAF=1645;SAP=3575.08;SAR=0;SRF=522;SRP=1136.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:65,101:65:2336:101:3617:-275.763,0,-160.528 0/1:121:53,68:53:1889:68:2421:-181.72,0,-133.862 0/1:94:50,44:50:1773:44:1572:-113.475,0,-131.554 0/1:82:37,45:37:1324:45:1611:-120.595,0,-94.7776 1/1:217:7,210:7:248:210:7535:-655.523,-42.6593,0 1/1:114:0,114:0:0:114:4088:-368.105,-34.3174,0 0/1:170:66,104:66:2345:104:3700:-282.026,0,-160.133 0/1:157:64,92:64:2283:92:3275:-247.65,0,-158.411 1/1:135:0,135:0:0:135:4771:-429.547,-40.6391,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:26:19,7:19:675:7:248:-14.8374,0,-53.2502 0/1:177:80,97:80:2861:97:3450:-257.43,0,-204.443 1/1:79:1,78:1:36:78:2808:-249.36,-20.1831,0 1/1:159:0,159:0:0:159:5641:-507.812,-47.8638,0 1/1:41:0,41:0:0:41:1447:-130.523,-12.3422,0 1/1:45:0,45:0:0:45:1595:-143.84,-13.5464,0 0/1:114:46,68:46:1618:68:2409:-182.747,0,-111.588 0/1:104:34,70:34:1224:70:2508:-194.665,0,-79.1599 1/1:88:0,88:0:0:88:3138:-282.645,-26.4906,0 1/1:57:0,57:0:0:57:1999:-180.181,-17.1587,0 chr04 30381941 . A G 18801.5 PASS AB=0.384713;ABP=93.634;AC=32;AF=0.761905;AN=42;AO=954;CIGAR=1X;DP=1437;DPB=1437;DPRA=0;EPP=2074.59;EPPR=1051.83;GTI=1;LEN=1;MEANALT=1;MQM=59.9644;MQMR=59.9772;NS=21;NUMALT=1;ODDS=0.145721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33340;QR=17212;RO=483;RPL=954;RPP=2074.59;RPPR=1051.83;RPR=0;RUN=1;SAF=954;SAP=2074.59;SAR=0;SRF=483;SRP=1051.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:62,28:62:2200:28:968:-60.336,0,-171.173 0/1:35:24,11:24:856:11:380:-23.9959,0,-66.8251 0/1:77:50,27:50:1784:27:926:-60.4681,0,-137.663 0/1:89:68,21:68:2432:21:736:-39.7707,0,-192.344 1/1:116:0,116:0:0:116:4064:-365.949,-34.9195,0 1/1:53:0,53:0:0:53:1829:-164.884,-15.9546,0 0/1:137:95,42:95:3392:42:1500:-94.0535,0,-264.255 0/1:108:63,45:63:2238:45:1547:-106.513,0,-169.154 1/1:116:0,116:0:0:116:4075:-366.938,-34.9195,0 1/1:12:0,12:0:0:12:424:-38.4964,-3.61236,0 1/1:4:0,4:0:0:4:125:-11.5586,-1.20412,0 0/1:15:11,4:11:392:4:144:-8.79817,0,-31.1046 0/1:112:49,63:49:1760:63:2198:-164.369,0,-124.969 1/1:56:0,56:0:0:56:1967:-177.305,-16.8577,0 1/1:69:0,69:0:0:69:2443:-220.126,-20.7711,0 1/1:36:0,36:0:0:36:1269:-114.511,-10.8371,0 1/1:44:0,44:0:0:44:1548:-139.612,-13.2453,0 0/1:59:32,27:32:1118:27:932:-66.4317,0,-83.1652 0/1:63:29,34:29:1040:34:1196:-88.9805,0,-74.9495 1/1:104:0,104:0:0:104:3606:-324.748,-31.3071,0 1/1:42:0,42:0:0:42:1463:-131.964,-12.6433,0 chr04 30431464 . GTG CTA,GTA 116442 PASS AB=0.524048,0.472946;ABP=13.0365,15.6997;AC=32,10;AF=0.761905,0.238095;AN=42;AO=3392,954;CIGAR=1X1M1X,2M1X;DP=4356;DPB=4356.33;DPRA=0,1.1465;EPP=7368.64,2074.59;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=2.19048,2.375;MQM=50.6601,56.0073;MQMR=60;NS=21;NUMALT=2;ODDS=28.6105;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=119538,34062;QR=21;RO=1;RPL=1581,431;RPP=36.8755,22.2759;RPPR=5.18177;RPR=1811,523;RUN=1,1;SAF=1581,431;SAP=36.8755,22.2759;SAR=1811,523;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:182:0,90,91:0:0:90,91:3132,3234:-511.588,-262.132,-235.039,-249.601,0,-222.207 1/2:161:0,85,76:0:0:85,76:3014,2704:-457.529,-219.782,-194.194,-238.097,0,-215.219 1/2:162:0,89,73:0:0:89,73:3117,2614:-463.045,-213.111,-186.32,-250.285,0,-228.31 1/2:229:0,120,108:0:0:120,108:4257,3853:-656.275,-313.498,-277.374,-342.781,0,-310.27 1/1:482:0,479,3:0:0:479,3:16874,97:-1495.39,-144.193,0,-1487.58,-136.055,-1486.68 1/1:211:0,209,1:0:0:209,1:7350,36:-639.199,-62.9153,0,-636.261,-59.9607,-635.96 1/2:256:0,128,128:0:0:128,128:4506,4570:-720.559,-370.211,-331.679,-350.695,0,-312.163 1/2:234:0,119,115:0:0:119,115:4252,4084:-668.714,-332.031,-296.209,-337.034,0,-302.415 1/1:340:0,339,1:0:0:339,1:11914,36:-1056.58,-102.049,0,-1053.64,-98.7519,-1053.34 1/1:29:0,28,1:0:0:28,1:989,36:-86.8307,-8.42884,0,-83.8928,-5.1316,-83.5917 1/1:12:0,12,0:0:0:12,0:428,0:-37.1969,-3.61236,0,-37.1969,-3.61236,-37.1969 1/2:74:0,43,31:0:0:43,31:1519,1112:-212.106,-90.8012,-77.8569,-121.658,0,-112.326 1/2:351:1,169,179:1:21:169,179:5963,6418:-1000.1,-521.01,-471.724,-477.893,0,-425.597 1/1:227:0,227,0:0:0:227,0:7798,0:-690.203,-68.3338,0,-690.203,-68.3338,-690.203 1/1:327:0,325,0:0:0:325,0:11540,0:-1016.84,-97.8348,0,-1016.84,-97.8348,-1016.84 1/1:185:0,184,0:0:0:184,0:6509,0:-581.4,-55.3895,0,-581.4,-55.3895,-581.4 1/1:182:0,182,0:0:0:182,0:6473,0:-578.811,-54.7875,0,-578.811,-54.7875,-578.811 1/2:200:0,102,98:0:0:102,98:3623,3520:-580.265,-287.114,-256.409,-293.507,0,-264.006 1/2:147:0,101,45:0:0:101,45:3539,1604:-414.187,-130.674,-100.27,-283.506,0,-269.96 1/1:247:0,244,3:0:0:244,3:8592,108:-755.044,-73.4513,0,-746.239,-64.2877,-745.336 1/1:118:0,117,1:0:0:117,1:4149,36:-363.76,-35.2205,0,-360.822,-32.2806,-360.521 chr04 30443306 . C T 16196.1 PASS AB=0.541296;ABP=14.6678;AC=32;AF=0.761905;AN=42;AO=1003;CIGAR=1X;DP=1365;DPB=1365;DPRA=0;EPP=36.8381;EPPR=41.401;GTI=0;LEN=1;MEANALT=1;MQM=24.9252;MQMR=26.7348;NS=21;NUMALT=1;ODDS=4.16979;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36028;QR=12919;RO=362;RPL=564;RPP=36.8381;RPPR=41.401;RPR=439;RUN=1;SAF=0;SAP=2181;SAR=1003;SRF=0;SRP=789.083;SRR=362;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:23,20:23:820:20:709:-29.4002,0,-40.9485 0/1:49:30,19:30:1072:19:684:-26.0743,0,-54.1551 0/1:48:14,34:14:500:34:1220:-61.2865,0,-19.0996 0/1:101:41,60:41:1458:60:2160:-101.574,0,-64.6563 1/1:65:0,65:0:0:65:2332:-144.16,-19.567,0 1/1:62:0,62:0:0:62:2228:-134.762,-18.6639,0 0/1:99:52,47:52:1872:47:1692:-73.6454,0,-92.0629 0/1:58:21,37:21:756:37:1332:-62.9953,0,-30.9051 1/1:91:1,90:1:36:90:3240:-193.358,-24.9268,0 1/1:15:0,15:0:0:15:529:-33.1995,-4.51545,0 1/1:6:0,6:0:0:6:216:-13.0544,-1.80618,0 0/1:21:14,7:14:504:7:252:-8.86896,0,-27.0337 0/1:111:47,64:47:1676:64:2292:-112.124,0,-74.7875 1/1:56:0,56:0:0:56:2012:-121.896,-16.8577,0 1/1:104:0,104:0:0:104:3736:-224.058,-31.3071,0 1/1:25:0,25:0:0:25:896:-53.3503,-7.52575,0 1/1:38:0,38:0:0:38:1368:-83.7095,-11.4391,0 0/1:154:88,66:88:3113:66:2376:-96.7607,0,-158.25 0/1:103:31,72:31:1112:72:2592:-128.293,0,-40.0855 1/1:57:0,57:0:0:57:2044:-121.932,-17.1587,0 1/1:59:0,59:0:0:59:2118:-125.636,-17.7608,0 chr04 30447329 . G A 8857.81 PASS AB=0.526096;ABP=8.67698;AC=10;AF=0.238095;AN=42;AO=507;CIGAR=1X;DP=1908;DPB=1908;DPRA=1.11571;EPP=1060.95;EPPR=3010.6;GTI=1;LEN=1;MEANALT=1;MQM=56.7002;MQMR=59.8037;NS=21;NUMALT=1;ODDS=13.8812;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18097;QR=50055;RO=1401;RPL=5;RPP=1060.95;RPPR=3010.6;RPR=502;RUN=1;SAF=0;SAP=1103.95;SAR=507;SRF=0;SRP=3045.24;SRR=1401;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:42,29:42:1476:29:1044:-72.7756,0,-111.726 0/1:30:8,22:8:288:22:779:-61.3557,0,-17.2365 0/1:44:21,23:21:739:23:828:-61.5574,0,-53.5871 0/1:37:19,18:19:684:18:648:-47.4466,0,-50.7522 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.759 0/0:43:43,0:43:1535:0:0:0,-12.9443,-138.441 0/1:52:28,24:28:996:24:857:-61.5215,0,-74.3013 0/1:53:19,34:19:680:34:1216:-93.7629,0,-45.5746 0/0:145:144,1:144:5135:1:36:0,-40.0511,-458.694 0/0:90:90,0:90:3211:0:0:0,-27.0927,-289.172 0/0:328:328,0:328:11708:0:0:0,-98.7378,-1053.42 0/1:142:15,127:15:540:127:4553:-366.634,0,-6.18873 0/1:71:43,28:43:1544:28:996:-68.4465,0,-117.875 0/0:93:93,0:93:3298:0:0:0,-27.9958,-296.969 0/0:38:36,2:36:1296:2:72:0,-4.60735,-110.112 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.465 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.297 0/1:396:216,180:216:7738:180:6384:-454.587,0,-577.235 0/1:62:43,19:43:1527:19:684:-43.1959,0,-118.83 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.897 chr04 30478471 . C G 25440.2 PASS AB=0.677863;ABP=182.991;AC=32;AF=0.761905;AN=42;AO=1203;CIGAR=1X;DP=1417;DPB=1417;DPRA=0;EPP=2615.29;EPPR=442.013;GTI=1;LEN=1;MEANALT=1;MQM=59.8487;MQMR=59.8084;NS=21;NUMALT=1;ODDS=1.29497;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42902;QR=7692;RO=214;RPL=1203;RPP=2615.29;RPPR=442.013;RPR=0;RUN=1;SAF=0;SAP=2615.29;SAR=1203;SRF=0;SRP=467.705;SRR=214;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:17,51:17:612:51:1816:-143.247,0,-34.9209 0/1:28:6,22:6:216:22:784:-62.4551,0,-11.3617 0/1:69:23,46:23:828:46:1640:-127.113,0,-54.073 0/1:54:18,36:18:648:36:1292:-100.326,0,-42.3954 1/1:147:0,147:0:0:147:5239:-471.626,-44.2514,0 1/1:50:0,50:0:0:50:1784:-160.843,-15.0515,0 0/1:91:25,66:25:900:66:2343:-183.735,0,-53.9204 0/1:106:30,76:30:1080:76:2716:-212.771,0,-65.6041 1/1:163:0,163:0:0:163:5819:-523.819,-49.0679,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:7:0,7:0:0:7:248:-22.6638,-2.10721,0 0/1:41:22,19:22:788:19:684:-49.5466,0,-58.8777 0/1:112:39,73:39:1404:73:2596:-200.137,0,-92.9439 1/1:96:0,96:0:0:96:3432:-309.094,-28.8989,0 1/1:89:0,89:0:0:89:3165:-285.07,-26.7917,0 1/1:30:0,30:0:0:30:1068:-96.4312,-9.0309,0 1/1:36:0,36:0:0:36:1265:-114.151,-10.8371,0 0/1:49:22,27:22:792:27:972:-73.0474,0,-56.8552 0/1:37:9,28:9:316:28:1004:-79.5378,0,-17.6407 1/1:84:3,81:3:108:81:2887:-249.947,-15.2114,0 1/1:47:0,47:0:0:47:1684:-151.776,-14.1484,0 chr04 30478486 . CGCAG AGCAG,AGCAA 30137.5 PASS AB=0.672811,0.325653;ABP=171.875,174.89;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1183,215;CIGAR=1X4M,1X3M1X;DP=1399;DPB=1403.6;DPRA=0,1.00055;EPP=2571.86,469.877;EPPR=0;GTI=1;LEN=1,5;MEANALT=1.57143,2.09091;MQM=59.8166,59.6698;MQMR=0;NS=21;NUMALT=2;ODDS=0.123592;PAIRED=0,0;PAIREDR=0;PAO=11.5,11.5;PQA=403,403;PQR=0;PRO=0;QA=42443,7635;QR=0;RO=0;RPL=1183,215;RPP=2571.86,469.877;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2571.86,469.877;SAR=1183,215;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,51,18:0:0:51,18:1832,639:-201.376,-51.9291,-36.5765,-149.748,0,-144.329 1/2:26:0,20,6:0:0:20,6:720,214:-76.4367,-17.7013,-11.6807,-58.9938,0,-57.1876 1/2:67:0,44,23:0:0:44,23:1576,815:-195.155,-66.6326,-53.3873,-128.764,0,-121.84 1/2:52:0,34,17:0:0:34,17:1224,607:-149.345,-49.4737,-39.2387,-99.8598,0,-94.7423 1/1:144:0,144,0:0:0:144,0:5164,0:-464.703,-43.3483,0,-464.703,-43.3483,-464.703 1/1:49:0,49,0:0:0:49,0:1764,0:-158.985,-14.7505,0,-158.985,-14.7505,-158.985 1/2:90:0,65,25:0:0:65,25:2340,887:-263.495,-72.5619,-52.9949,-191.232,0,-183.706 1/2:107:0,76,31:0:0:76,31:2724,1100:-311.964,-89.8035,-66.9252,-222.343,0,-213.011 1/1:159:0,159,0:0:0:159,0:5685,0:-511.644,-47.8638,0,-511.644,-47.8638,-511.644 1/1:14:0,14,0:0:0:14,0:498,0:-44.8825,-4.21442,0,-44.8825,-4.21442,-44.8825 1/1:6:0,6,0:0:0:6,0:216,0:-19.7394,-1.80618,0,-19.7394,-1.80618,-19.7394 1/2:42:0,20,22:0:0:20,22:720,780:-122.644,-63.8946,-57.874,-59.1066,0,-52.484 1/2:113:0,73,40:0:0:73,40:2624,1428:-330.69,-116.658,-94.683,-214.273,0,-202.232 1/1:93:0,93,0:0:0:93,0:3336,0:-300.457,-27.9958,0,-300.457,-27.9958,-300.457 1/1:89:0,89,0:0:0:89,0:3196,0:-287.858,-26.7917,0,-287.858,-26.7917,-287.858 1/1:32:0,32,0:0:0:32,0:1148,0:-103.629,-9.63296,0,-103.629,-9.63296,-103.629 1/1:33:0,33,0:0:0:33,0:1184,0:-106.752,-9.93399,0,-106.752,-9.93399,-106.752 1/2:48:0,27,21:0:0:27,21:972,754:-141.176,-61.8652,-53.7374,-79.6701,0,-73.3485 1/2:37:0,28,9:0:0:28,9:1000,306:-106.702,-25.1599,-16.731,-81.8865,0,-79.1773 1/1:82:0,79,3:0:0:79,3:2840,105:-255.334,-23.7814,0,-246.791,-14.9687,-245.888 1/1:47:0,47,0:0:0:47,0:1680,0:-151.457,-14.1484,0,-151.457,-14.1484,-151.457 chr04 30478939 . AGC AGA,GGA 59287.3 PASS AB=0.375185,0.621861;ABP=186.229,177.658;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1831,852;CIGAR=2M1X,1X1M1X;DP=2689;DPB=2689;DPRA=0,1.41252;EPP=3697.51,1700.06;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.90476,2.30769;MQM=59.9989,59.9296;MQMR=0;NS=21;NUMALT=2;ODDS=11.6463;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65564,30001;QR=0;RO=0;RPL=1798,834;RPP=3697.51,1700.06;RPPR=0;RPR=33,18;RUN=1,1;SAF=0,0;SAP=3978.98,1853.1;SAR=1831,852;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:95:0,24,71:0:0:24,71:855,2457:-269.701,-200.009,-192.784,-70.0455,0,-48.6723 1/2:85:0,29,56:0:0:29,56:1040,1988:-247.164,-162.337,-153.607,-85.1845,0,-68.3268 1/2:84:0,37,47:0:0:37,47:1328,1655:-243.416,-135.088,-123.95,-108.684,0,-94.5357 1/2:130:0,36,94:0:0:36,94:1296,3351:-379.26,-273.512,-262.675,-106.107,0,-77.81 1/1:89:0,87,2:0:0:87,2:3107,72:-279.497,-26.1896,0,-273.622,-19.9549,-273.02 1/1:49:0,49,0:0:0:49,0:1764,0:-159.044,-14.7505,0,-159.044,-14.7505,-159.044 1/2:167:0,59,106:0:0:59,106:2107,3704:-473.151,-301.367,-283.606,-171.851,0,-139.942 1/2:76:0,16,59:0:0:16,59:571,2083:-216.306,-169.755,-164.938,-46.6786,0,-28.9179 1/1:110:0,110,0:0:0:110,0:3940,0:-354.791,-33.1133,0,-354.791,-33.1133,-354.791 1/1:277:0,272,5:0:0:272,5:9717,178:-874.139,-81.8802,0,-860.332,-67.7317,-858.826 1/1:384:0,383,0:0:0:383,0:13733,0:-1235.53,-115.294,0,-1235.53,-115.294,-1235.53 1/2:154:0,48,105:0:0:48,105:1720,3713:-442.685,-302.406,-287.957,-140.276,0,-108.668 1/2:105:0,36,69:0:0:36,69:1284,2432:-303.026,-198.355,-187.518,-105.026,0,-84.2553 1/1:45:0,45,0:0:0:45,0:1616,0:-145.73,-13.5464,0,-145.73,-13.5464,-145.73 1/1:49:0,48,0:0:0:48,0:1708,0:-153.646,-14.4494,0,-153.646,-14.4494,-153.646 1/1:52:0,52,0:0:0:52,0:1868,0:-168.399,-15.6536,0,-168.399,-15.6536,-168.399 1/1:70:0,70,0:0:0:70,0:2479,0:-223.361,-21.0721,0,-223.361,-21.0721,-223.361 1/2:410:0,196,214:0:0:196,214:7031,7525:-1186.37,-612.879,-553.878,-573.847,0,-509.427 1/2:48:0,27,21:0:0:27,21:972,737:-139.646,-60.3309,-52.2031,-79.6701,0,-73.3485 1/1:153:0,150,3:0:0:150,3:5380,106:-483.977,-45.1545,0,-475.344,-36.1685,-474.441 1/1:57:0,57,0:0:0:57,0:2048,0:-184.592,-17.1587,0,-184.592,-17.1587,-184.592 chr04 30498471 . CTTTTTGA CTTTTGA 5697.41 PASS AB=0.436916;ABP=32.5991;AC=10;AF=0.238095;AN=42;AO=376;CIGAR=1M1D6M;DP=1804;DPB=1757;DPRA=1.13071;EPP=819.484;EPPR=3084.33;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.8059;MQMR=59.9908;NS=21;NUMALT=1;ODDS=15.4451;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13200;QR=49682;RO=1419;RPL=376;RPP=819.484;RPPR=3084.33;RPR=0;RUN=1;SAF=376;SAP=819.484;SAR=0;SRF=1419;SRP=3084.33;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:90,64:90:3149:64:2263:-157.565,0,-237.282 0/1:61:33,28:33:1161:28:999:-71.8586,0,-86.4336 0/1:95:48,47:48:1680:47:1611:-116.672,0,-122.887 0/1:84:47,37:47:1642:37:1284:-90.5714,0,-122.78 0/0:223:221,0:221:7754:0:0:0,-66.5276,-697.621 0/0:94:94,0:94:3304:0:0:0,-28.2968,-297.583 0/1:142:74,68:74:2598:68:2373:-171.076,0,-191.324 0/1:112:70,41:70:2452:41:1459:-97.8297,0,-187.164 0/0:103:103,0:103:3597:0:0:0,-31.0061,-323.943 0/0:7:7,0:7:249:0:0:0,-2.10721,-22.7556 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7264 0/1:31:19,12:19:660:12:428:-29.5222,0,-50.3916 0/1:83:45,38:45:1554:38:1356:-97.2843,0,-115.163 0/0:92:91,0:91:3187:0:0:0,-27.3937,-286.787 0/0:144:142,2:142:5012:2:68:0,-36.8906,-444.778 0/0:67:64,0:64:2235:0:0:0,-19.2659,-201.055 0/0:102:101,0:101:3523:0:0:0,-30.404,-317.047 0/1:46:26,20:26:902:20:700:-49.4761,0,-67.6466 0/1:48:29,19:29:1036:19:659:-45.1813,0,-79.1049 0/0:79:79,0:79:2756:0:0:0,-23.7814,-248.285 0/0:32:31,0:31:1060:0:0:0,-9.33193,-95.3845 chr04 30520956 . GCT GT,GTT 44720.5 PASS AB=0.42936,0.264901;ABP=81.5476,872.922;AC=32,2;AF=0.761905,0.047619;AN=42;AO=2374,483;CIGAR=1M1D1M,1M1X1M;DP=3420;DPB=2628.67;DPRA=0,1.47153;EPP=5158.09,1051.83;EPPR=1208.18;GTI=1;LEN=1,1;MEANALT=1.80952,2.27273;MQM=44.465,37.294;MQMR=59.2829;NS=21;NUMALT=2;ODDS=9.30784;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80017,15752;QR=19521;RO=555;RPL=2374,483;RPP=5158.09,1051.83;RPPR=1208.18;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5158.09,1051.83;SAR=2374,483;SRF=0;SRP=1208.18;SRR=555;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:282:81,113,88:81:2829:113,88:3867,2977:-286.628,-3.18929,-199.289,-77.6993,0,-281.32 0/1:130:39,70,21:39:1374:70,21:2407,662:-168.875,0,-90.7047,-131.817,-62.9936,-237.245 1/2:143:36,60,47:36:1262:60,47:2005,1623:-174.857,-25.1057,-109.708,-57.9137,0,-146.43 0/1:204:78,71,55:78:2724:71,55:2353,1890:-164.86,0,-200.203,-39.786,-73.0304,-244.807 1/1:302:3,295,3:3:106:295,3:10067,108:-886.454,-80.1636,0,-878.803,-80.2444,-886.533 1/1:123:0,123,0:0:0:123,0:4019,0:-338.873,-37.0267,0,-338.873,-37.0267,-338.873 0/1:283:92,106,83:92:3254:106,83:3658,2553:-245.027,0,-233.033,-88.7581,-80.995,-328.693 0/1:216:73,81,62:73:2569:81,62:2747,1835:-197.137,0,-184.673,-86.5479,-76.5015,-276.905 1/1:276:0,274,0:0:0:274,0:9190,0:-815.869,-82.4822,0,-815.869,-82.4822,-815.869 1/1:9:0,9,0:0:0:9,0:290,0:-26.2265,-2.70927,0,-26.2265,-2.70927,-26.2265 1/1:7:0,7,0:0:0:7,0:252,0:-21.4153,-2.10721,0,-21.4153,-2.10721,-21.4153 0/1:27:8,14,5:8:273:14,5:476,160:-35.9067,0,-17.9627,-26.7865,-10.6559,-47.4284 0/1:177:63,58,55:63:2232:58,55:1895,1890:-132.646,0,-164.37,-2.45774,-32.6899,-167.736 1/1:131:0,130,0:0:0:130,0:4346,0:-386.201,-39.1339,0,-386.201,-39.1339,-386.201 1/1:299:0,299,0:0:0:299,0:9857,0:-878.013,-90.008,0,-878.013,-90.008,-878.013 1/1:103:0,103,0:0:0:103,0:3499,0:-308.765,-31.0061,0,-308.765,-31.0061,-308.765 1/1:140:0,139,0:0:0:139,0:4653,0:-412.376,-41.8432,0,-412.376,-41.8432,-412.376 0/1:178:51,84,43:51:1786:84,43:2846,1357:-209.956,0,-119.952,-129.465,-49.4091,-261.728 0/1:172:30,121,21:30:1076:121,21:4206,697:-327.892,0,-51.3531,-282.263,-33.1289,-363.701 1/1:130:1,129,0:1:36:129,0:4410,0:-389.847,-35.5356,0,-390.148,-38.8329,-393.086 1/1:88:0,88,0:0:0:88,0:2974,0:-249.344,-26.4906,0,-249.344,-26.4906,-249.344 chr04 30520966 . TT TG,AG 72593.3 PASS AB=0.736501,0.260799;ABP=902.76,923.419;AC=32,10;AF=0.761905,0.238095;AN=42;AO=3050,486;CIGAR=1M1X,2X;DP=3543;DPB=3543;DPRA=0,1.44537;EPP=6626,1058.35;EPPR=7.35324;GTI=3;LEN=1,2;MEANALT=1.7619,2.45455;MQM=47.0705,36.9588;MQMR=60;NS=21;NUMALT=2;ODDS=27.245;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=109092,17242;QR=61;RO=2;RPL=3050,486;RPP=6626,1058.35;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=6626,1058.35;SAR=3050,486;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:287:0,197,89:0:0:197,89:7044,3161:-814.483,-247.447,-188.144,-567.032,0,-540.24 1/2:128:0,108,19:0:0:108,19:3877,682:-342.98,-46.0382,-13.527,-296.898,0,-291.179 1/2:148:0,101,47:0:0:101,47:3603,1668:-422.393,-130.904,-100.5,-291.834,0,-277.686 1/2:206:0,150,56:0:0:150,56:5372,1985:-590.979,-155.268,-110.113,-436.056,0,-419.198 1/1:323:0,320,3:0:0:320,3:11453,108:-1016.99,-96.3296,0,-1008.44,-87.4251,-1007.54 1/1:133:0,133,0:0:0:133,0:4756,0:-396.497,-40.037,0,-396.497,-40.037,-396.497 1/2:293:0,208,85:0:0:208,85:7437,3024:-780.81,-204.866,-142.252,-576.257,0,-550.669 1/2:220:0,158,62:0:0:158,62:5640,2207:-605.63,-149.622,-102.06,-456.323,0,-437.659 1/1:289:0,289,0:0:0:289,0:10341,0:-915.619,-86.9977,0,-915.619,-86.9977,-915.619 1/1:10:0,10,0:0:0:10,0:356,0:-32.1119,-3.0103,0,-32.1119,-3.0103,-32.1119 1/1:7:0,7,0:0:0:7,0:252,0:-21.4153,-2.10721,0,-21.4153,-2.10721,-21.4153 1/2:27:0,22,5:0:0:22,5:792,178:-76.7181,-12.4842,-5.86154,-64.5479,0,-63.0428 1/2:182:0,125,56:0:0:125,56:4468,1968:-517.368,-155.54,-117.911,-361.828,0,-344.971 1/1:134:0,134,0:0:0:134,0:4782,0:-423.775,-40.338,0,-423.775,-40.338,-423.775 1/1:313:0,313,0:0:0:313,0:11189,0:-993.949,-94.2224,0,-993.949,-94.2224,-993.949 1/1:109:0,109,0:0:0:109,0:3897,0:-343.821,-32.8123,0,-343.821,-32.8123,-343.821 1/1:146:1,145,0:1:25:145,0:5200,0:-458.024,-41.4505,0,-458.325,-43.6494,-460.273 1/2:184:0,138,45:0:0:138,45:4923,1585:-502.13,-106.702,-65.1594,-395.42,0,-381.874 1/2:177:0,157,19:0:0:157,19:5638,676:-507.192,-52.681,-5.41933,-454.604,0,-448.884 1/1:133:1,132,0:1:36:132,0:4724,0:-416.928,-36.4387,0,-417.229,-39.736,-420.167 1/1:94:0,94,0:0:0:94,0:3348,0:-278.175,-28.2968,0,-278.175,-28.2968,-278.175 chr04 30521094 . G T 48163.8 PASS AB=0.480938;ABP=7.31504;AC=32;AF=0.761905;AN=42;AO=2217;CIGAR=1X;DP=2927;DPB=2927;DPRA=0;EPP=4551.67;EPPR=1501.63;GTI=0;LEN=1;MEANALT=1;MQM=59.7506;MQMR=59.938;NS=21;NUMALT=1;ODDS=12.4127;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78997;QR=25159;RO=710;RPL=31;RPP=4551.67;RPPR=1501.63;RPR=2186;RUN=1;SAF=0;SAP=4817.16;SAR=2217;SRF=0;SRP=1544.76;SRR=710;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:80,77:80:2805:77:2717:-197.482,0,-205.427 0/1:74:39,35:39:1385:35:1260:-91.4231,0,-102.67 0/1:135:66,69:66:2357:69:2464:-181.371,0,-171.748 0/1:106:57,49:57:2003:49:1741:-125.065,0,-148.632 1/1:329:1,328:1:36:328:11692:-1048.49,-95.4406,0 1/1:120:0,120:0:0:120:4259:-383.282,-36.1236,0 0/1:176:89,87:89:3166:87:3107:-226.853,0,-232.164 0/1:168:83,85:83:2956:85:3027:-222.083,0,-215.699 1/1:261:0,261:0:0:261:9271:-834.333,-78.5688,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:10:0,10:0:0:10:345:-31.3808,-3.0103,0 0/1:50:27,23:27:963:23:820:-59.071,0,-71.9344 0/1:157:105,52:105:3742:52:1848:-119.337,0,-289.716 1/1:159:0,159:0:0:159:5640:-507.698,-47.8638,0 1/1:208:0,208:0:0:208:7410:-666.899,-62.6142,0 1/1:93:1,92:1:36:92:3304:-293.846,-24.3975,0 1/1:121:0,121:0:0:121:4305:-387.623,-36.4246,0 0/1:191:109,82:109:3846:82:2931:-206.515,0,-288.836 0/1:150:53,97:53:1864:97:3472:-267.26,0,-122.88 1/1:130:0,130:0:0:130:4663:-419.75,-39.1339,0 1/1:113:0,113:0:0:113:4037:-363.455,-34.0164,0 chr04 30555153 . TGTG GGTG,GGTA 15813 PASS AB=0.655123,0.302309;ABP=292.697,473.502;AC=22,20;AF=0.52381,0.47619;AN=42;AO=911,419;CIGAR=1X3M,1X2M1X;DP=1390;DPB=1390;DPRA=0,17.325;EPP=1972.55,912.857;EPPR=0;GTI=7;LEN=1,4;MEANALT=3.09524,3.15;MQM=31.0505,27.3222;MQMR=0;NS=21;NUMALT=2;ODDS=1.56578;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26915,14617;QR=0;RO=0;RPL=0,0;RPP=1981.22,912.857;RPPR=0;RPR=911,419;RUN=1,1;SAF=910,419;SAP=1972.55,912.857;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,72,31:0:0:72,31:2131,1067:-216.175,-63.9844,-42.3102,-152.118,0,-142.786 1/2:52:0,30,20:0:0:30,20:890,696:-105.336,-41.6041,-32.5732,-63.6585,0,-57.6379 1/2:42:0,32,8:0:0:32,8:933,279:-82.372,-16.4588,-6.82588,-65.8442,0,-63.436 1/2:94:0,47,44:0:0:47,44:1387,1523:-189.731,-90.3578,-76.2094,-99.2956,0,-86.0503 1/2:98:0,71,22:0:0:71,22:2115,775:-198.37,-46.8696,-25.4965,-151.436,0,-144.814 1/2:53:0,35,16:0:0:35,16:1027,570:-106.548,-33.6226,-23.0865,-72.8521,0,-68.0357 1/2:67:0,39,25:0:0:39,25:1135,882:-131.62,-51.2411,-39.5009,-80.3026,0,-72.7768 1/1:4:0,3,0:0:0:3,0:94,0:-7.8743,-0.90309,0,-7.8743,-0.90309,-7.8743 1/2:137:0,87,43:0:0:87,43:2551,1509:-270.143,-89.2989,-63.1093,-180.794,0,-167.85 1/2:24:0,15,7:0:0:15,7:470,242:-49.3095,-14.3889,-9.87347,-34.8965,0,-32.7893 1/2:8:0,7,1:0:0:7,1:210,36:-17.5146,-2.34757,-0.24036,-15.4331,0,-15.132 1/2:31:0,26,4:0:0:26,4:774,140:-63.7788,-8.20021,-0.373427,-55.5103,0,-54.3062 1/2:89:0,53,32:0:0:53,32:1569,1114:-178.098,-65.8938,-49.9392,-112.13,0,-102.497 1/2:42:0,32,9:0:0:32,9:942,313:-85.3282,-18.3158,-8.68281,-66.9334,0,-64.2241 1/2:96:0,74,15:0:0:74,15:2184,526:-186.819,-31.0089,-8.73264,-155.813,0,-151.298 1/2:54:0,38,14:0:0:38,14:1121,475:-108.34,-28.3947,-16.9556,-79.8646,0,-75.6502 1/2:53:0,29,23:0:0:29,23:862,803:-109.178,-47.3849,-38.655,-61.7137,0,-54.79 1/2:32:0,18,14:0:0:18,14:529,494:-66.8246,-29.2433,-23.8248,-37.8456,0,-33.6312 1/2:92:0,66,24:0:0:66,24:1917,837:-185.429,-49.8407,-29.9727,-135.509,0,-128.284 1/2:147:0,84,56:0:0:84,56:2488,1947:-292.94,-114.949,-89.6624,-177.917,0,-161.06 1/2:67:0,53,11:0:0:53,11:1586,389:-137.554,-22.7472,-6.79262,-114.77,0,-111.459 chr04 30612545 . A G 24419.8 PASS AB=0.263675;ABP=792.269;AC=32;AF=0.761905;AN=42;AO=1312;CIGAR=1X;DP=2514;DPB=2514;DPRA=0;EPP=2851.98;EPPR=2610.95;GTI=6;LEN=1;MEANALT=1.04762;MQM=59.4398;MQMR=59.9833;NS=21;NUMALT=1;ODDS=0.056405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46752;QR=42975;RO=1201;RPL=0;RPP=2851.98;RPPR=2610.95;RPR=1312;RUN=1;SAF=1312;SAP=2851.98;SAR=0;SRF=1201;SRP=2610.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:76,39:76:2736:39:1389:-90.6625,0,-211.863 0/1:77:53,24:53:1904:24:860:-54.4937,0,-148.458 0/1:38:20,18:20:720:18:648:-47.2127,0,-53.6896 0/1:99:62,37:62:2212:37:1331:-90.282,0,-169.543 1/1:147:2,145:2:72:145:5176:-458.91,-37.4147,0 1/1:91:0,91:0:0:91:3238:-291.519,-27.3937,0 0/1:549:472,76:472:16878:76:2709:-78.638,0,-1353.33 0/1:188:137,51:137:4890:51:1833:-108.595,0,-383.656 1/1:103:1,102:1:36:102:3639:-324.083,-27.4078,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:93:83,10:83:2969:10:345:-3.38496,0,-239.445 0/1:210:173,37:173:6212:37:1302:-54.2291,0,-495.958 1/1:53:0,53:0:0:53:1844:-166.081,-15.9546,0 1/1:213:1,212:1:36:212:7578:-677.685,-60.5211,0 1/1:115:0,115:0:0:115:4074:-366.731,-34.6185,0 1/1:32:0,32:0:0:32:1152:-103.979,-9.63296,0 0/1:152:77,75:77:2741:75:2673:-194.834,0,-201.045 0/1:106:44,62:44:1569:62:2204:-166.691,0,-109.59 1/1:46:0,46:0:0:46:1633:-147.257,-13.8474,0 1/1:64:0,64:0:0:64:2300:-207.259,-19.2659,0 chr04 30612550 . C A 24812.4 PASS AB=0.263125;ABP=792.049;AC=32;AF=0.761905;AN=42;AO=1317;CIGAR=1X;DP=2515;DPB=2515;DPRA=0;EPP=2862.84;EPPR=2597.92;GTI=6;LEN=1;MEANALT=1.14286;MQM=59.4791;MQMR=60;NS=21;NUMALT=1;ODDS=1.50923;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47217;QR=42763;RO=1195;RPL=0;RPP=2862.84;RPPR=2597.92;RPR=1317;RUN=1;SAF=1317;SAP=2862.84;SAR=0;SRF=1195;SRP=2597.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:76,37:76:2720:37:1332:-86.1401,0,-211.027 0/1:77:54,23:54:1928:23:824:-51.2728,0,-150.617 0/1:38:19,18:19:684:18:648:-47.1539,0,-50.3924 0/1:100:62,38:62:2224:38:1368:-93.3072,0,-170.321 1/1:149:2,147:2:72:147:5283:-468.55,-38.0167,0 1/1:88:0,88:0:0:88:3164:-284.868,-26.4906,0 0/1:545:470,74:470:16822:74:2656:-75.0928,0,-1349.51 0/1:187:136,51:136:4867:51:1833:-108.897,0,-381.89 1/1:105:1,104:1:36:104:3708:-330.287,-28.0099,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:92:82,10:82:2944:10:356:-4.68554,0,-237.499 0/1:210:173,37:173:6204:37:1328:-56.574,0,-495.239 1/1:53:0,52:0:0:52:1868:-167.888,-15.6536,0 1/1:216:1,215:1:36:215:7705:-688.822,-61.4242,0 1/1:117:0,117:0:0:117:4159:-374.368,-35.2205,0 1/1:33:0,33:0:0:33:1188:-107.217,-9.93399,0 0/1:152:75,77:75:2650:77:2757:-202.261,0,-192.99 0/1:105:44,61:44:1576:61:2188:-165.556,0,-110.523 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 1/1:66:0,66:0:0:66:2376:-214.093,-19.868,0 chr04 30662814 . C T 9227.1 PASS AB=0.473333;ABP=10.4223;AC=10;AF=0.238095;AN=42;AO=575;CIGAR=1X;DP=2487;DPB=2487;DPRA=1.6302;EPP=1208.56;EPPR=86.5489;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.6609;MQMR=59.9775;NS=21;NUMALT=1;ODDS=17.247;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20117;QR=68115;RO=1909;RPL=570;RPP=1208.56;RPPR=86.5489;RPR=5;RUN=1;SAF=0;SAP=1251.61;SAR=575;SRF=0;SRP=4148.35;SRR=1909;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:50,60:50:1783:60:2097:-155.877,0,-127.639 0/1:200:87,113:87:3116:113:3859:-286.961,0,-220.461 0/1:90:37,53:37:1319:53:1873:-141.753,0,-91.8735 0/1:123:70,53:70:2495:53:1856:-130.283,0,-187.776 0/0:247:244,3:244:8648:3:108:0,-64.2792,-768.233 0/0:82:82,0:82:2910:0:0:0,-24.6845,-262.136 0/1:170:88,82:88:3143:82:2876:-207.895,0,-231.92 0/1:155:94,60:94:3343:60:2116:-144.015,0,-254.409 0/0:240:237,1:237:8460:1:21:0,-69.8051,-759.203 0/0:21:20,1:20:720:1:36:0,-2.72335,-61.5305 0/0:14:14,0:14:496:0:0:0,-4.21442,-44.9743 0/1:35:21,14:21:756:14:496:-34.4382,0,-57.8312 0/1:149:81,68:81:2895:68:2405:-171.848,0,-215.932 0/0:114:114,0:114:4076:0:0:0,-34.3174,-367.027 0/0:199:198,1:198:7079:1:36:0,-56.3067,-633.554 0/0:122:122,0:122:4346:0:0:0,-36.7257,-391.316 0/0:107:107,0:107:3824:0:0:0,-32.2102,-344.358 0/1:106:57,49:57:2040:49:1749:-125.724,0,-151.963 0/1:62:46,16:46:1648:16:553:-31.4301,0,-129.945 0/0:90:89,1:89:3191:1:36:0,-23.4944,-283.814 0/0:51:51,0:51:1827:0:0:0,-15.3525,-164.71 chr04 30663048 . T C 50136.8 PASS AB=0.535819;ABP=18.2551;AC=32;AF=0.761905;AN=42;AO=2352;CIGAR=1X;DP=2996;DPB=2996;DPRA=0;EPP=5032.44;EPPR=1379.78;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9728;MQMR=60;NS=21;NUMALT=1;ODDS=28.427;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83710;QR=22866;RO=642;RPL=2343;RPP=5032.44;RPPR=1379.78;RPR=9;RUN=1;SAF=0;SAP=5110.31;SAR=2352;SRF=0;SRP=1397.1;SRR=642;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:59,84:59:2092:84:2985:-225.835,0,-145.503 0/1:86:45,41:45:1612:41:1464:-106.167,0,-119.481 0/1:51:19,32:19:684:32:1148:-88.2773,0,-46.5378 0/1:69:31,38:31:1108:38:1359:-101.839,0,-79.2599 1/1:242:2,240:2:72:240:8549:-762.573,-66.0125,0 1/1:70:0,70:0:0:70:2504:-225.613,-21.0721,0 0/1:141:74,67:74:2631:67:2336:-168.051,0,-194.592 0/1:94:62,32:62:2186:32:1144:-74.9727,0,-168.709 1/1:145:0,145:0:0:145:5150:-462.937,-43.6494,0 1/1:382:4,377:4:144:377:13398:-1192.31,-101.739,0 1/1:386:1,384:1:32:384:13646:-1224.7,-113.037,0 0/1:386:160,226:160:5697:226:8080:-611.019,0,-396.65 0/1:82:28,54:28:992:54:1934:-149.652,0,-64.9099 1/1:53:0,53:0:0:53:1888:-170.198,-15.9546,0 1/1:90:0,90:0:0:90:3200:-288.222,-27.0927,0 1/1:82:0,82:0:0:82:2918:-262.855,-24.6845,0 1/1:72:0,72:0:0:72:2560:-230.65,-21.6742,0 0/1:283:146,137:146:5224:137:4872:-353.442,0,-385.107 0/1:33:11,22:11:392:22:784:-60.9499,0,-25.6861 1/1:82:0,82:0:0:82:2931:-264.024,-24.6845,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 chr04 30697415 . T C 8144.39 PASS AB=0.497963;ABP=3.04568;AC=10;AF=0.238095;AN=42;AO=493;CIGAR=1X;DP=1946;DPB=1946;DPRA=1.19086;EPP=1064.88;EPPR=3158.16;GTI=0;LEN=1;MEANALT=1;MQM=53.9716;MQMR=54.6552;NS=21;NUMALT=1;ODDS=8.33644;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17529;QR=51162;RO=1453;RPL=1;RPP=1064.88;RPPR=3158.16;RPR=492;RUN=1;SAF=0;SAP=1073.55;SAR=493;SRF=0;SRP=3158.16;SRR=1453;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:83,89:83:2925:89:3163:-232.585,0,-211.336 0/1:63:26,37:26:920:37:1319:-99.7561,0,-63.3957 0/1:95:49,46:49:1744:46:1641:-119.083,0,-128.132 0/1:89:43,46:43:1512:46:1644:-120.961,0,-109.323 0/0:98:98,0:98:3476:0:0:0,-29.5009,-312.368 0/0:73:73,0:73:2576:0:0:0,-21.9752,-231.163 0/1:82:31,51:31:1096:51:1798:-136.855,0,-73.6724 0/1:90:52,38:52:1819:38:1360:-95.1477,0,-135.661 0/0:195:195,0:195:6885:0:0:0,-58.7008,-617.287 0/0:15:14,1:14:496:1:25:0,-2.02226,-42.3813 0/0:9:9,0:9:320:0:0:0,-2.70927,-28.9884 0/1:31:13,18:13:468:18:622:-46.856,0,-32.8122 0/1:126:58,68:58:2052:68:2417:-179.446,0,-146.682 0/0:94:94,0:94:3317:0:0:0,-28.2968,-298.038 0/0:177:175,2:175:6223:2:72:0,-46.4505,-552.734 0/0:84:84,0:84:2960:0:0:0,-25.2865,-266.084 0/0:61:61,0:61:2164:0:0:0,-18.3628,-194.879 0/1:155:87,68:87:2986:68:2432:-171.621,0,-221.164 0/1:79:51,28:51:1749:28:1000:-66.4507,0,-133.73 0/0:109:108,1:108:3760:1:36:0,-29.2191,-334.004 0/0:49:49,0:49:1714:0:0:0,-14.7505,-153.988 chr04 30697427 . 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T C 6355.08 PASS AB=0.506765;ABP=3.33348;AC=10;AF=0.238095;AN=42;AO=419;CIGAR=1X;DP=1562;DPB=1562;DPRA=1.58423;EPP=912.857;EPPR=2485;GTI=0;LEN=1;MEANALT=1;MQM=40.6277;MQMR=59.6754;NS=21;NUMALT=1;ODDS=5.14008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14915;QR=40526;RO=1143;RPL=0;RPP=912.857;RPPR=2485;RPR=419;RUN=1;SAF=0;SAP=912.857;SAR=419;SRF=0;SRP=2485;SRR=1143;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:21,8:21:752:8:284:-16.5259,0,-59.2764 0/1:73:43,30:43:1523:30:1071:-70.5705,0,-114.755 0/1:91:41,50:41:1444:50:1788:-128.669,0,-102.861 0/1:48:21,27:21:735:27:968:-70.5904,0,-52.022 0/0:167:163,4:163:5786:4:144:0,-37.867,-508.442 0/0:54:54,0:54:1924:0:0:0,-16.2556,-173.434 0/1:97:37,60:37:1328:60:2140:-157.173,0,-89.8408 0/1:50:21,29:21:744:29:1006:-72.4238,0,-52.2269 0/0:104:104,0:104:3691:0:0:0,-31.3071,-332.393 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:32:16,16:16:556:16:572:-38.4779,0,-40.6007 0/1:125:47,78:47:1676:78:2796:-204.337,0,-113.485 0/0:67:67,0:67:2365:0:0:0,-20.169,-213.105 0/0:84:84,0:84:2969:0:0:0,-25.2865,-267.065 0/0:44:44,0:44:1560:0:0:0,-13.2453,-140.689 0/0:63:62,1:62:2197:1:36:0,-15.3676,-194.382 0/1:189:105,84:105:3739:84:2974:-199.532,0,-279.79 0/1:79:49,30:49:1760:30:1064:-68.2063,0,-134.895 0/0:82:80,2:80:2806:2:72:0,-17.9892,-246.013 0/0:66:66,0:66:2323:0:0:0,-19.868,-209.321 chr04 30786278 . G A 6494.62 PASS AB=0.514321;ABP=4.44082;AC=10;AF=0.238095;AN=42;AO=419;CIGAR=1X;DP=1542;DPB=1542;DPRA=1.56104;EPP=912.857;EPPR=2439.4;GTI=0;LEN=1;MEANALT=1;MQM=40.6444;MQMR=59.6934;NS=21;NUMALT=1;ODDS=4.37805;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15029;QR=40007;RO=1122;RPL=419;RPP=912.857;RPPR=2439.4;RPR=0;RUN=1;SAF=0;SAP=912.857;SAR=419;SRF=0;SRP=2439.4;SRR=1122;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:21,8:21:752:8:284:-16.5259,0,-59.2764 0/1:69:40,29:40:1420:29:1040:-69.3663,0,-107.32 0/1:93:43,50:43:1540:50:1792:-128.377,0,-110.89 0/1:51:23,28:23:820:28:1008:-73.1507,0,-58.77 0/0:162:158,4:158:5640:4:136:0,-36.7865,-495.73 0/0:53:53,0:53:1865:0:0:0,-15.9546,-168.126 0/1:97:36,61:36:1284:61:2181:-160.648,0,-86.6602 0/1:50:21,29:21:748:29:1036:-74.8205,0,-52.5858 0/0:106:106,0:106:3804:0:0:0,-31.9092,-342.554 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:8:8,0:8:280:0:0:0,-2.40824,-25.5393 0/1:30:15,15:15:536:15:540:-36.0439,0,-39.2463 0/1:123:45,78:45:1608:78:2800:-205.216,0,-107.354 0/0:67:66,0:66:2364:0:0:0,-19.868,-212.801 0/0:87:87,0:87:3116:0:0:0,-26.1896,-280.033 0/0:44:44,0:44:1560:0:0:0,-13.2453,-140.689 0/0:64:63,1:63:2260:1:36:0,-15.6686,-200.051 0/1:181:97,84:97:3455:84:3024:-205.313,0,-256.649 0/1:80:49,31:49:1740:31:1116:-72.3011,0,-132.794 0/0:77:76,1:76:2692:1:36:0,-19.7248,-238.993 0/0:61:61,0:61:2167:0:0:0,-18.3628,-195.286 chr04 30821660 . C T 2826.1 PASS AB=0.422222;ABP=21.9262;AC=10;AF=0.238095;AN=42;AO=152;CIGAR=1X;DP=941;DPB=941;DPRA=0.681583;EPP=5.06748;EPPR=272.639;GTI=0;LEN=1;MEANALT=1;MQM=40.8224;MQMR=59.9683;NS=21;NUMALT=1;ODDS=11.844;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5314;QR=28146;RO=789;RPL=82;RPP=5.06748;RPPR=272.639;RPR=70;RUN=1;SAF=0;SAP=333.074;SAR=152;SRF=0;SRP=1716.3;SRR=789;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:26,22:26:936:22:756:-51.4458,0,-70.11 0/1:16:8,8:8:284:8:288:-20.5926,0,-21.0869 0/1:54:32,22:32:1148:22:788:-52.3035,0,-87.3742 0/1:39:22,17:22:765:17:582:-39.0757,0,-57.4276 0/0:94:94,0:94:3343:0:0:0,-28.2968,-301.083 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/1:36:17,19:17:608:19:672:-48.1288,0,-44.2149 0/1:29:23,6:23:828:6:216:-10.3616,0,-66.1142 0/0:90:90,0:90:3199:0:0:0,-27.0927,-288.134 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:19:5,14:5:180:14:488:-37.1427,0,-10.8325 0/1:41:23,18:23:828:18:632:-41.8804,0,-62.5019 0/0:59:59,0:59:2108:0:0:0,-17.7608,-189.989 0/0:146:146,0:146:5203:0:0:0,-43.9504,-468.411 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/1:48:29,19:29:1044:19:648:-42.4099,0,-79.8254 0/1:30:23,7:23:815:7:244:-12.4459,0,-64.6399 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.863 0/0:30:30,0:30:1049:0:0:0,-9.0309,-94.7173 chr04 30927287 . TTCCG CCCGA,CTCCA 52639.9 PASS AB=0.56117,0.43484;ABP=51.8915,58.4752;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1916,659;CIGAR=2X1M2X,1X3M1X;DP=2591;DPB=2591;DPRA=0,1.40658;EPP=4163.55,1390.91;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.47619,2.8125;MQM=50.8163,59.8695;MQMR=0;NS=21;NUMALT=2;ODDS=17.9772;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66848,23090;QR=0;RO=0;RPL=1916,654;RPP=4163.55,1390.91;RPPR=0;RPR=0,5;RUN=1,1;SAF=0,0;SAP=4163.55,1434.01;SAR=1916,659;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:249:0,124,125:0:0:124,125:4333,4374:-705.645,-355.946,-318.618,-350.047,0,-312.418 1/2:92:0,35,57:0:0:35,57:1227,1996:-259.734,-162.754,-152.218,-97.3242,0,-80.1655 1/2:65:0,31,34:0:0:31,34:1108,1178:-186.251,-96.0873,-86.7553,-90.5153,0,-80.2803 1/2:286:0,235,49:0:0:235,49:8199,1704:-801.718,-138.625,-67.8829,-663.173,0,-648.422 1/1:216:0,215,0:0:0:215,0:7467,0:-667.262,-64.7215,0,-667.262,-64.7215,-667.262 1/1:168:0,164,1:0:0:164,1:5718,22:-508.156,-49.3689,0,-506.478,-47.7133,-506.177 1/2:94:0,51,42:0:0:51,42:1741,1467:-257.606,-119.282,-103.929,-138.356,0,-125.713 1/2:219:0,97,122:0:0:97,122:3359,4320:-623.353,-352.256,-323.056,-271.446,0,-234.72 1/2:134:0,67,67:0:0:67,67:2334,2321:-378.035,-188.979,-168.81,-189.402,0,-169.233 1/2:32:0,11,21:0:0:11,21:390,736:-91.6664,-60.2394,-56.9281,-31.7777,0,-25.4561 1/1:4:0,4,0:0:0:4,0:144,0:-13.2414,-1.20412,0,-13.2414,-1.20412,-13.2414 1/2:34:0,14,20:0:0:14,20:474,678:-93.6287,-55.3149,-51.1004,-38.6519,0,-32.6313 1/2:68:0,44,24:0:0:44,24:1548,851:-194.795,-69.6856,-56.4403,-125.462,0,-118.237 1/1:117:0,116,0:0:0:116,0:4023,0:-359.659,-34.9195,0,-359.659,-34.9195,-359.659 1/1:254:0,251,1:0:0:251,1:8755,36:-781.434,-75.5585,0,-778.497,-72.5779,-778.196 1/1:85:0,85,0:0:0:85,0:3011,0:-270.646,-25.5876,0,-270.646,-25.5876,-270.646 1/1:49:0,49,0:0:0:49,0:1712,0:-153.153,-14.7505,0,-153.153,-14.7505,-153.153 1/2:164:0,91,70:0:0:91,70:3217,2481:-462.177,-202.147,-174.753,-260.06,0,-238.988 1/2:67:0,44,23:0:0:44,23:1529,818:-190.886,-67.0186,-53.7732,-124.219,0,-117.296 1/1:145:0,140,2:0:0:140,2:4875,72:-435.632,-42.1442,0,-429.757,-36.2591,-429.155 1/1:49:0,48,1:0:0:48,1:1684,36:-148.96,-14.4494,0,-146.022,-11.1522,-145.721 chr04 30935146 . G A 19503 PASS AB=0.562771;ABP=26.7273;AC=30;AF=0.714286;AN=42;AO=937;CIGAR=1X;DP=1243;DPB=1243;DPRA=0;EPP=2029;EPPR=663.138;GTI=0;LEN=1;MEANALT=1.09524;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=13.5757;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33537;QR=10853;RO=304;RPL=936;RPP=2029;RPPR=663.138;RPR=1;RUN=1;SAF=0;SAP=2037.68;SAR=937;SRF=0;SRP=663.138;SRR=304;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:23,24:23:828:24:860:-63.5734,0,-60.6957 0/1:50:25,25:25:892:25:900:-66.2695,0,-65.5482 0/1:61:25,36:25:892:36:1287:-97.77,0,-62.2369 0/1:77:32,45:32:1140:45:1602:-121.289,0,-79.7299 1/1:125:1,124:1:36:124:4456:-397.61,-34.0305,0 1/1:48:0,47:0:0:47:1668:-150.173,-14.1484,0 0/1:94:49,45:49:1751:45:1620:-117.793,0,-129.577 0/1:79:33,46:33:1176:46:1649:-124.917,0,-82.3664 0/1:63:23,40:23:820:40:1432:-110.213,0,-55.1576 0/1:7:5,2:5:176:2:72:-4.72951,0,-14.0778 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:24:10,14:10:360:14:500:-38.1115,0,-25.5196 0/1:58:19,39:19:680:39:1396:-108.479,0,-44.0694 1/1:60:0,59:0:0:59:2099:-188.966,-17.7608,0 1/1:108:0,108:0:0:108:3868:-348.315,-32.5112,0 1/1:41:0,41:0:0:41:1476:-133.136,-12.3422,0 1/1:76:0,76:0:0:76:2736:-246.482,-22.8783,0 0/1:86:47,39:47:1674:39:1388:-99.3298,0,-125.057 0/1:47:12,35:12:428:35:1243:-98.0255,0,-24.7104 1/1:45:0,45:0:0:45:1602:-144.47,-13.5464,0 1/1:42:0,42:0:0:42:1503:-135.565,-12.6433,0 chr04 30935317 . C T 2508.17 PASS AB=0.266204;ABP=413.218;AC=10;AF=0.238095;AN=42;AO=235;CIGAR=1X;DP=1824;DPB=1824;DPRA=1.35385;EPP=513.306;EPPR=3453.48;GTI=1;LEN=1;MEANALT=1;MQM=59.9021;MQMR=59.9748;NS=21;NUMALT=1;ODDS=1.68865;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8381;QR=56792;RO=1589;RPL=235;RPP=513.306;RPPR=3453.48;RPR=0;RUN=1;SAF=0;SAP=513.306;SAR=235;SRF=0;SRP=3453.48;SRR=1589;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:34:14,20:14:489:20:701:-53.1767,0,-34.1039 0/1:47:26,21:26:921:21:741:-52.8541,0,-69.0564 0/1:18:11,7:11:381:7:252:-17.6104,0,-29.2021 0/1:58:31,27:31:1101:27:972:-70.3382,0,-81.9386 0/0:63:63,0:63:2229:0:0:0,-18.9649,-200.873 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 0/1:43:25,18:25:900:18:648:-45.7076,0,-68.3767 0/1:29:19,10:19:684:10:356:-23.6375,0,-53.1601 0/1:38:19,19:19:676:19:680:-50.09,0,-49.7289 0/0:129:128,1:128:4569:1:36:0,-35.2346,-407.776 0/0:260:260,0:260:9309:0:0:0,-78.2678,-837.774 0/0:209:206,3:206:7381:3:108:0,-52.8401,-654.259 0/1:47:22,25:22:788:25:892:-66.4513,0,-56.9891 0/0:51:51,0:51:1809:0:0:0,-15.3525,-163.09 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/0:26:26,0:26:909:0:0:0,-7.82678,-82.1234 0/1:465:416,49:416:14893:49:1739:-16.8129,0,-1200.12 0/1:85:51,34:51:1809:34:1220:-84.5193,0,-137.502 0/0:52:51,1:51:1836:1:36:0,-12.0553,-161.922 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 chr04 30935353 . ATCA CTCA,CTCT 47497.2 PASS AB=0.524371,0.463836;ABP=9.57252,17.4595;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1637,594;CIGAR=1X3M,1X2M1X;DP=2250;DPB=2249.75;DPRA=0,1.13846;EPP=3523.05,1266.94;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=2.33333,2.73333;MQM=59.9719,59.9545;MQMR=60;NS=21;NUMALT=2;ODDS=24.0386;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58436,20881;QR=83;RO=3;RPL=1633,591;RPP=3523.05,1266.94;RPPR=9.52472;RPR=4,3;RUN=1,1;SAF=1637,594;SAP=3557.71,1292.86;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:152:0,71,77:0:0:71,77:2522,2677:-423.179,-217.671,-196.298,-205.534,0,-182.355 1/2:53:0,29,24:0:0:29,24:1027,845:-152.803,-69.144,-60.4141,-84.0123,0,-76.7876 1/2:116:0,52,64:0:0:52,64:1849,2285:-337.056,-186.646,-170.993,-150.765,0,-131.499 1/2:129:0,68,61:0:0:68,61:2444,2137:-373.624,-174.234,-153.764,-199.745,0,-181.382 1/1:176:0,173,2:0:0:173,2:6178,72:-555.791,-52.0782,0,-549.917,-46.1301,-549.315 1/1:55:0,54,1:0:0:54,1:1923,36:-172.987,-16.2556,0,-170.049,-12.9584,-169.748 1/2:154:0,87,61:0:0:87,61:3123,2131:-428.101,-173.349,-147.159,-254.766,0,-236.403 1/2:88:1,53,33:1:29:53,33:1889,1160:-245.815,-92.1379,-78.4902,-151.698,0,-144.072 1/2:223:1,126,95:1:25:126,95:4524,3343:-638.976,-270.236,-234.254,-367.143,0,-340.493 1/2:38:0,19,19:0:0:19,19:676,672:-110.181,-55.0876,-49.368,-55.4484,0,-49.7289 1/1:19:0,19,0:0:0:19,0:680,0:-61.5292,-5.71957,0,-61.5292,-5.71957,-61.5292 1/2:26:0,7,19:0:0:7,19:252,674:-75.8312,-55.2679,-53.1607,-20.9217,0,-15.2022 1/2:93:0,46,47:0:0:46,47:1648,1656:-269.576,-135.17,-121.323,-134.761,0,-120.613 1/1:162:1,160,1:1:29:160,1:5705,30:-510.663,-45.8611,0,-508.566,-45.7612,-510.573 1/1:215:0,213,0:0:0:213,0:7620,0:-685.475,-64.1194,0,-685.475,-64.1194,-685.475 1/1:86:0,86,0:0:0:86,0:3069,0:-276.438,-25.8886,0,-276.438,-25.8886,-276.438 1/1:96:0,96,0:0:0:96,0:3400,0:-306.211,-28.8989,0,-306.211,-28.8989,-306.211 1/2:121:0,55,65:0:0:55,65:1946,2282:-344.213,-185.715,-169.158,-158.491,0,-138.924 1/2:79:0,54,25:0:0:54,25:1944,881:-230.707,-72.0814,-55.8258,-158.98,0,-151.455 1/1:104:0,104,0:0:0:104,0:3700,0:-333.202,-31.3071,0,-333.202,-31.3071,-333.202 1/1:65:0,65,0:0:0:65,0:2317,0:-208.79,-19.567,0,-208.79,-19.567,-208.79 chr04 30935491 . G A 56438.6 PASS AB=0.539066;ABP=29.9867;AC=30;AF=0.714286;AN=42;AO=2555;CIGAR=1X;DP=3503;DPB=3503;DPRA=0;EPP=5551.12;EPPR=2059.39;GTI=0;LEN=1;MEANALT=1.04762;MQM=42.4841;MQMR=59.9662;NS=21;NUMALT=1;ODDS=20.454;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90687;QR=33324;RO=947;RPL=1180;RPP=35.3274;RPPR=3.83807;RPR=1375;RUN=1;SAF=1180;SAP=35.3274;SAR=1375;SRF=483;SRP=3.83807;SRR=464;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:77,95:77:2699:95:3378:-217.633,0,-191.374 0/1:108:47,61:47:1655:61:2163:-138.508,0,-116.726 0/1:179:90,88:90:3174:88:3143:-197.239,0,-231.955 0/1:226:86,140:86:3021:140:4968:-302.352,0,-204.087 1/1:259:3,256:3:108:256:9077:-700.793,-67.8916,0 1/1:93:2,91:2:72:91:3238:-242.605,-21.1591,0 0/1:186:83,103:83:2898:103:3648:-234.479,0,-205.065 0/1:253:127,126:127:4505:126:4466:-270.384,0,-329.455 0/1:268:139,129:139:4893:129:4583:-283.847,0,-359.848 0/1:25:7,18:7:252:18:629:-44.07,0,-15.5032 1/1:9:0,9:0:0:9:315:-22.6824,-2.70927,0 0/1:80:33,47:33:1169:47:1676:-109.629,0,-81.4329 0/1:193:99,94:99:3485:94:3359:-198.685,0,-255.636 1/1:238:1,237:1:36:237:8387:-659.145,-68.0469,0 1/1:381:0,381:0:0:381:13507:-1068.12,-114.692,0 1/1:115:0,115:0:0:115:4116:-325.764,-34.6185,0 1/1:78:0,78:0:0:78:2746:-219.422,-23.4803,0 0/1:195:109,86:109:3815:86:3066:-194.901,0,-284.846 0/1:150:40,110:40:1398:110:3903:-263.917,0,-80.9611 1/1:192:4,188:4:144:188:6674:-479.61,-44.4841,0 1/1:103:0,103:0:0:103:3645:-267.47,-31.0061,0 chr04 30935518 . G A 7425.9 PASS AB=0.447628;ABP=27.1197;AC=12;AF=0.285714;AN=42;AO=459;CIGAR=1X;DP=1831;DPB=1831;DPRA=1.13482;EPP=939.842;EPPR=2811.08;GTI=0;LEN=1;MEANALT=1;MQM=59.9368;MQMR=27.6356;NS=21;NUMALT=1;ODDS=2.83749;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16279;QR=47715;RO=1372;RPL=452;RPP=939.842;RPPR=2811.08;RPR=7;RUN=1;SAF=0;SAP=999.716;SAR=459;SRF=0;SRP=2982.27;SRR=1372;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:47,37:47:1660:37:1320:-93.8154,0,-89.8197 0/1:47:27,20:27:964:20:720:-50.9804,0,-48.9567 0/1:83:42,41:42:1472:41:1431:-104.081,0,-76.1279 0/1:166:98,68:98:3445:68:2375:-164.028,0,-189.877 0/0:146:144,2:144:4998:2:72:0,-37.1137,-343.112 0/0:47:47,0:47:1635:0:0:0,-14.1484,-107.91 0/1:65:40,25:40:1411:25:896:-61.3888,0,-72.7952 0/1:133:59,74:59:2040:74:2644:-198.17,0,-91.5698 0/1:156:81,75:81:2816:75:2665:-193.135,0,-162.389 0/1:9:6,3:6:212:3:108:-7.3659,0,-10.739 0/0:7:7,0:7:239:0:0:0,-2.10721,-16.1308 0/1:24:17,7:17:595:7:252:-15.8042,0,-30.5209 0/1:113:60,53:60:2096:53:1869:-134.471,0,-110.326 0/0:121:121,0:121:4179:0:0:0,-36.4246,-292.266 0/0:202:202,0:202:6945:0:0:0,-60.8081,-489.324 0/0:69:69,0:69:2422:0:0:0,-20.7711,-177.11 0/0:45:45,0:45:1563:0:0:0,-13.5463,-115.634 0/1:52:24,28:24:814:28:995:-74.2105,0,-37.1477 0/1:80:58,22:58:2051:22:788:-47.1624,0,-118.447 0/0:113:109,4:109:3785:4:144:0,-20.7028,-228.482 0/0:69:69,0:69:2373:0:0:0,-20.7711,-157.292 chr04 30935530 . A G 17495 PASS AB=0.552093;ABP=27.2179;AC=30;AF=0.714286;AN=42;AO=1390;CIGAR=1X;DP=1859;DPB=1859;DPRA=0;EPP=3021.36;EPPR=999.791;GTI=0;LEN=1;MEANALT=1.09524;MQM=27.6007;MQMR=59.6874;NS=21;NUMALT=1;ODDS=2.70161;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49458;QR=16721;RO=467;RPL=1390;RPP=3021.36;RPPR=999.791;RPR=0;RUN=1;SAF=0;SAP=3021.36;SAR=1390;SRF=0;SRP=1017.09;SRR=467;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:35,49:35:1256:49:1722:-94.2793,0,-88.0588 0/1:48:21,27:21:752:27:968:-48.7061,0,-53.5568 0/1:82:40,42:40:1423:42:1494:-77.0562,0,-103.676 0/1:167:67,99:67:2403:99:3519:-192.282,0,-165.653 1/1:149:2,147:2:72:147:5214:-353.533,-38.0167,0 1/1:48:1,47:1:36:47:1675:-105.835,-11.8008,0 0/1:68:26,42:26:932:42:1496:-76.7395,0,-63.727 0/1:135:74,61:74:2643:61:2152:-95.2912,0,-197.455 0/1:156:76,80:76:2728:80:2855:-161.377,0,-198.802 0/1:9:3,6:3:108:6:212:-10.7312,0,-7.3659 1/1:7:0,7:0:0:7:248:-16.3247,-2.10721,0 0/1:25:7,18:7:248:18:640:-32.6021,0,-15.1384 0/1:118:57,61:57:2040:61:2161:-112.649,0,-148.294 1/1:121:0,121:0:0:121:4328:-294.972,-36.4246,0 1/1:202:1,200:1:36:200:7105:-486.489,-57.8821,0 1/1:69:0,69:0:0:69:2476:-178.795,-20.7711,0 1/1:46:0,46:0:0:46:1640:-119.439,-13.8474,0 0/1:55:30,25:30:1076:25:896:-39.0697,0,-80.5962 0/1:80:23,57:23:824:57:2023:-116.161,0,-50.4009 1/1:120:4,116:4:144:116:4135:-245.99,-22.81,0 1/1:70:0,70:0:0:70:2499:-161.975,-21.0721,0 chr04 30935539 . G A 7405.59 PASS AB=0.447445;ABP=27.889;AC=12;AF=0.285714;AN=42;AO=471;CIGAR=1X;DP=1877;DPB=1877;DPRA=1.29099;EPP=1025.77;EPPR=3051.76;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.862;MQMR=27.6318;NS=21;NUMALT=1;ODDS=2.64946;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16810;QR=50221;RO=1404;RPL=471;RPP=1025.77;RPPR=3051.76;RPR=0;RUN=1;SAF=0;SAP=1025.77;SAR=471;SRF=0;SRP=3051.76;SRR=1404;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:47,37:47:1673:37:1324:-94.1756,0,-89.5298 0/1:48:27,21:27:972:21:748:-53.1959,0,-48.7565 0/1:83:42,41:42:1504:41:1465:-107.116,0,-76.9302 0/1:173:105,68:105:3760:68:2436:-167.408,0,-206.886 0/0:151:148,2:148:5297:2:72:0,-38.5698,-357.069 0/0:47:47,0:47:1684:0:0:0,-14.1484,-108.756 0/1:69:44,25:44:1580:25:876:-58.3786,0,-81.853 0/1:135:60,75:60:2152:75:2681:-200.893,0,-94.3811 0/1:159:84,75:84:3012:75:2681:-193.67,0,-171.792 0/1:9:6,3:6:216:3:108:-7.3659,0,-10.7731 0/0:7:7,0:7:252:0:0:0,-2.10721,-16.3757 0/1:25:18,7:18:644:7:252:-15.5032,0,-32.6434 0/1:118:60,58:60:2152:58:2059:-150.052,0,-110.729 0/0:125:124,1:124:4421:1:28:0,-34.829,-299.006 0/0:205:205,0:205:7316:0:0:0,-61.7111,-502.172 0/0:71:71,0:71:2556:0:0:0,-21.3731,-184.077 0/0:46:46,0:46:1644:0:0:0,-13.8474,-119.779 0/1:56:25,31:25:896:31:1108:-83.1733,0,-38.7687 0/1:78:55,23:55:1959:23:828:-51.3638,0,-111.987 0/0:120:115,4:115:4103:4:144:0,-22.7481,-243.543 0/0:68:68,0:68:2428:0:0:0,-20.47,-156.89 chr04 30981116 . G A 9571.05 PASS AB=0.5;ABP=3.0103;AC=12;AF=0.285714;AN=42;AO=554;CIGAR=1X;DP=1946;DPB=1946;DPRA=1.28205;EPP=1145.97;EPPR=2903.15;GTI=0;LEN=1;MEANALT=1;MQM=59.843;MQMR=59.995;NS=21;NUMALT=1;ODDS=11.1959;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19802;QR=49749;RO=1391;RPL=7;RPP=1145.97;RPPR=2903.15;RPR=547;RUN=1;SAF=554;SAP=1206.01;SAR=0;SRF=1391;SRP=3023.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:95,112:95:3393:112:4013:-299.044,0,-243.271 0/1:84:35,49:35:1243:49:1756:-133.037,0,-86.8873 0/1:76:50,26:50:1792:26:917:-59.9663,0,-138.684 0/1:92:45,47:45:1616:47:1680:-123.792,0,-118.035 0/0:227:226,1:226:8093:1:36:0,-64.7355,-724.786 0/0:71:69,2:69:2480:2:72:0,-14.5364,-216.616 0/1:142:61,81:61:2171:81:2895:-217.75,0,-152.91 0/1:102:53,49:53:1895:49:1760:-127.979,0,-140.122 0/1:137:65,72:65:2332:72:2562:-189.586,0,-168.898 0/1:22:17,5:17:608:5:180:-9.9294,0,-48.4294 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:19:6,13:6:216:13:445:-34.6558,0,-14.0709 0/1:82:45,37:45:1616:37:1332:-95.497,0,-121.046 0/0:79:79,0:79:2804:0:0:0,-23.7814,-252.599 0/0:142:141,0:141:5051:0:0:0,-42.4452,-454.371 0/0:71:71,0:71:2525:0:0:0,-21.3731,-227.5 0/0:85:85,0:85:3060:0:0:0,-25.5875,-275.628 0/1:81:37,44:37:1302:44:1578:-117.737,0,-93.0964 0/1:58:42,16:42:1504:16:576:-34.7152,0,-118.195 0/0:117:117,0:117:4184:0:0:0,-35.2205,-376.742 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 chr04 31011147 . TTTATTTTTTCTAA CTTATTTTTTTCTAA,CTTATTTTTTTCTAC 29795.3 PASS AB=0.49197,0.498732;ABP=3.67294,3.02682;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1274,592;CIGAR=1X3M1I10M,1X3M1I9M1X;DP=1884;DPB=2018.07;DPRA=0,1.28409;EPP=2743.47,1288.52;EPPR=0;GTI=0;LEN=15,15;MEANALT=2.33333,2.71429;MQM=34.2104,37.478;MQMR=0;NS=21;NUMALT=2;ODDS=1.33516;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=40060,20172;QR=0;RO=0;RPL=3,0;RPP=2743.47,1288.52;RPPR=0;RPR=1271,592;RUN=1,1;SAF=1274,592;SAP=2769.47,1288.52;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:58:0,21,35:0:0:21,35:690,1215:-146.913,-94.8094,-88.4878,-52.1163,0,-41.5803 1/2:70:0,36,34:0:0:36,34:1158,1119:-175.353,-86.0012,-75.1641,-89.3058,0,-79.0708 1/2:158:0,71,87:0:0:71,87:2281,3066:-396.727,-230.944,-209.571,-166.092,0,-139.902 1/2:136:0,79,56:0:0:79,56:2485,1915:-324.579,-145.008,-121.227,-179.561,0,-162.703 1/1:104:0,103,1:0:0:103,1:3363,36:-283.813,-31.0061,0,-281.102,-27.961,-280.801 1/1:69:0,68,1:0:0:68,1:2004,32:-165.789,-20.47,0,-163.481,-17.872,-163.18 1/2:140:0,78,60:0:0:78,60:2239,1917:-299.952,-140.322,-116.842,-159.61,0,-141.548 1/2:157:0,75,79:0:0:75,79:2227,2656:-353.932,-195.589,-173.012,-158.364,0,-134.583 1/2:175:0,75,99:0:0:75,99:2521,3408:-451.759,-264.77,-242.193,-186.998,0,-157.196 1/2:12:0,2,9:0:0:2,9:60,302:-26.4813,-22.2303,-21.6283,-4.25945,0,-1.55018 1/1:4:0,4,0:0:0:4,0:114,0:-9.69097,-1.20412,0,-9.69097,-1.20412,-9.69097 1/2:43:0,20,22:0:0:20,22:598,743:-96.9285,-54.5606,-48.54,-42.4168,0,-35.7941 1/2:114:0,50,64:0:0:50,64:1566,2222:-281.101,-168.231,-153.179,-113.173,0,-93.9068 1/1:142:0,140,0:0:0:140,0:4374,0:-359.46,-42.1442,0,-359.46,-42.1442,-359.46 1/1:108:0,104,0:0:0:104,0:3302,0:-272.327,-31.3071,0,-272.327,-31.3071,-272.327 1/1:64:0,64,0:0:0:64,0:2209,0:-192.329,-19.2659,0,-192.329,-19.2659,-192.329 1/1:90:0,90,0:0:0:90,0:3076,0:-267.682,-27.0927,0,-267.682,-27.0927,-267.682 1/2:55:0,30,25:0:0:30,25:899,831:-125.036,-61.298,-52.2671,-64.0268,0,-56.5011 1/2:65:0,45,20:0:0:45,20:1441,710:-158.121,-53.8974,-40.3511,-104.542,0,-98.5219 1/1:74:0,73,0:0:0:73,0:2174,0:-176.526,-21.9752,0,-176.526,-21.9752,-176.526 1/1:46:0,46,0:0:0:46,0:1279,0:-102.953,-13.8474,0,-102.953,-13.8474,-102.953 chr04 31011182 . C T 19751.7 PASS AB=0.497449;ABP=3.07677;AC=30;AF=0.714286;AN=42;AO=1275;CIGAR=1X;DP=1869;DPB=1869;DPRA=0;EPP=2771.64;EPPR=1290.69;GTI=0;LEN=1;MEANALT=1.04762;MQM=33.9992;MQMR=37.3828;NS=21;NUMALT=1;ODDS=1.28901;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45511;QR=20918;RO=593;RPL=1273;RPP=2754.29;RPPR=1290.69;RPR=2;RUN=1;SAF=1273;SAP=2754.29;SAR=2;SRF=593;SRP=1290.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:39,24:39:1364:24:856:-50.7774,0,-99.6048 0/1:68:32,36:32:1121:36:1281:-84.4546,0,-73.6935 0/1:163:91,72:91:3237:72:2588:-148.986,0,-220.831 0/1:131:54,77:54:1892:77:2747:-169.928,0,-119.246 1/1:103:1,101:1:36:101:3619:-286.265,-27.7055,0 1/1:67:1,66:1:36:66:2332:-165.71,-17.1145,0 0/1:140:60,80:60:2127:80:2843:-160.364,0,-124.652 0/1:156:83,73:83:2926:73:2616:-143.45,0,-188.479 0/1:169:94,75:94:3305:75:2696:-166.681,0,-233.814 0/1:11:9,2:9:320:2:72:-2.20392,0,-22.5237 1/1:4:0,4:0:0:4:140:-10.7745,-1.20412,0 0/1:43:23,20:23:824:20:716:-39.3322,0,-52.846 0/1:113:63,50:63:2231:50:1796:-101.728,0,-152.241 1/1:139:0,139:0:0:139:4923:-374.543,-41.8432,0 1/1:108:0,108:0:0:108:3825:-296.199,-32.5112,0 1/1:64:0,64:0:0:64:2304:-196.321,-19.2659,0 1/1:88:0,88:0:0:88:3145:-267.853,-26.4906,0 0/1:54:23,31:23:808:31:1099:-63.3005,0,-49.0627 0/1:65:20,45:20:691:45:1616:-104.769,0,-39.1412 1/1:72:0,72:0:0:72:2580:-187.049,-21.6742,0 1/1:48:0,48:0:0:48:1717:-113.968,-14.4494,0 chr04 31011478 . C T 17871.7 PASS AB=0.474457;ABP=12.6614;AC=12;AF=0.285714;AN=42;AO=812;CIGAR=1X;DP=2791;DPB=2791;DPRA=1.46377;EPP=1740.28;EPPR=4263.51;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9938;MQMR=59.9858;NS=21;NUMALT=1;ODDS=10.5251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28612;QR=70110;RO=1978;RPL=347;RPP=40.2462;RPPR=142.143;RPR=465;RUN=1;SAF=344;SAP=44.1292;SAR=468;SRF=807;SRP=148.466;SRR=1171;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:65,71:65:2336:71:2504:-184.674,0,-169.559 0/1:93:54,39:54:1917:39:1360:-94.7014,0,-144.81 0/1:132:65,67:65:2317:67:2355:-172.473,0,-169.053 0/1:145:78,67:78:2768:67:2355:-168.558,0,-205.714 0/0:230:228,2:228:8040:2:68:0,-62.7792,-717.167 0/0:156:156,0:156:5552:0:0:0,-46.9607,-499.806 0/1:195:94,101:94:3352:101:3514:-257.774,0,-243.197 0/1:134:74,60:74:2618:60:2120:-150.731,0,-195.53 0/1:193:94,98:94:3324:98:3442:-251.96,0,-241.34 0/1:33:19,14:19:684:14:500:-35.4022,0,-51.9563 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:55:27,28:27:944:28:992:-73.0377,0,-68.7147 0/1:210:102,108:102:3604:108:3815:-280.331,0,-261.352 0/0:138:137,1:137:4871:1:36:0,-37.9439,-434.948 0/0:162:162,0:162:5756:0:0:0,-48.7669,-518.153 0/0:76:76,0:76:2716:0:0:0,-22.8783,-244.628 0/0:81:81,0:81:2849:0:0:0,-24.3834,-256.647 0/1:203:106,97:106:3738:97:3443:-248.976,0,-275.513 0/1:174:116,58:116:4111:58:2072:-134.372,0,-317.797 0/0:121:120,1:120:4221:1:36:0,-32.8264,-376.473 0/0:116:116,0:116:4104:0:0:0,-34.9195,-369.546 chr04 31018418 . T C 8641.69 PASS AB=0.436195;ABP=48.7321;AC=11;AF=0.261905;AN=42;AO=573;CIGAR=1X;DP=2522;DPB=2522;DPRA=1.60159;EPP=1247.26;EPPR=4235.21;GTI=0;LEN=1;MEANALT=1;MQM=47.2164;MQMR=59.7142;NS=21;NUMALT=1;ODDS=1.27657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20338;QR=69127;RO=1949;RPL=0;RPP=1247.26;RPPR=4235.21;RPR=573;RUN=1;SAF=0;SAP=1247.26;SAR=573;SRF=0;SRP=4235.21;SRR=1949;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:89,93:89:3175:93:3294:-238.71,0,-231.182 0/1:108:51,57:51:1816:57:2048:-150.675,0,-131.027 0/1:92:72,20:72:2551:20:716:-36.5204,0,-202.141 0/1:125:86,39:86:3047:39:1380:-84.9819,0,-236.598 0/0:361:359,2:359:12757:2:72:0,-101.895,-1141.02 0/0:117:115,2:115:4092:2:72:0,-28.4023,-361.628 0/1:170:87,83:87:3080:83:2928:-210.48,0,-226.22 0/1:129:87,42:87:3111:42:1485:-93.9345,0,-241.37 0/1:220:116,104:116:4124:104:3697:-262.486,0,-305.016 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3089 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6145 0/1:15:11,4:11:388:4:144:-8.70626,0,-30.7419 0/1:158:86,72:86:3028:72:2548:-179.306,0,-225.182 0/0:112:110,2:110:3805:2:72:0,-26.9384,-334.928 0/0:207:207,0:207:7326:0:0:0,-62.3132,-659.244 0/0:92:92,0:92:3276:0:0:0,-27.6948,-295.042 0/0:143:143,0:143:5096:0:0:0,-43.0473,-458.781 0/1:54:17,37:17:612:37:1315:-101.257,0,-39.1578 0/1:40:27,13:27:968:13:459:-29.2625,0,-75.3938 0/0:135:132,3:132:4676:3:108:0,-30.6334,-410.99 0/0:47:47,0:47:1663:0:0:0,-14.1484,-149.943 chr04 31018424 . A G 39637.1 PASS AB=0.562016;ABP=46.1031;AC=31;AF=0.738095;AN=42;AO=1944;CIGAR=1X;DP=2518;DPB=2518;DPRA=0;EPP=4224.35;EPPR=1249.44;GTI=0;LEN=1;MEANALT=1;MQM=59.7135;MQMR=47.27;NS=21;NUMALT=1;ODDS=6.21111;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68333;QR=20452;RO=574;RPL=0;RPP=4224.35;RPPR=1249.44;RPR=1944;RUN=1;SAF=0;SAP=4224.35;SAR=1944;SRF=0;SRP=1249.44;SRR=574;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:181:93,88:93:3316:88:3111:-225.725,0,-240.959 0/1:109:59,50:59:2103:50:1761:-125.784,0,-155.418 0/1:95:20,75:20:703:75:2651:-210.233,0,-34.4847 0/1:125:40,85:40:1416:85:3003:-232.758,0,-87.9528 1/1:358:2,356:2:72:356:12486:-1116.76,-100.992,0 1/1:118:2,116:2:72:116:4121:-364.234,-28.7034,0 0/1:169:85,84:85:3013:84:2928:-212.852,0,-218.353 0/1:130:41,89:41:1472:89:3129:-242.692,0,-92.4411 0/1:220:104,116:104:3719:116:4061:-299.404,0,-264.445 1/1:4:0,4:0:0:4:144:-13.3089,-1.20412,0 1/1:9:0,9:0:0:9:320:-29.1285,-2.70927,0 0/1:16:5,11:5:180:11:396:-31.1663,0,-11.6213 0/1:154:69,85:69:2463:85:2982:-222.246,0,-173.144 1/1:118:2,116:2:72:116:4040:-355.638,-28.7446,0 1/1:204:0,204:0:0:204:7207:-648.669,-61.4101,0 1/1:91:0,91:0:0:91:3220:-290.015,-27.3937,0 1/1:144:0,144:0:0:144:5097:-458.815,-43.3483,0 0/1:51:36,15:36:1283:15:514:-31.2313,0,-99.4404 0/1:40:13,27:13:460:27:925:-71.5171,0,-29.3628 1/1:135:3,132:3:108:132:4611:-405.146,-30.6334,0 1/1:47:0,47:0:0:47:1626:-146.605,-14.1484,0 chr04 31018435 . CAATG CAATA,CAAATG 53155.4 PASS AB=0.5703,0.423381;ABP=57.3554,67.5644;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1954,544;CIGAR=4M1X,1M1I4M;DP=2509;DPB=2618.4;DPRA=0,1.57559;EPP=4246.07,1184.29;EPPR=0;GTI=0;LEN=1,1;MEANALT=2.2381,2.66667;MQM=59.7375,47.2978;MQMR=0;NS=21;NUMALT=2;ODDS=3.35601;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69915,19072;QR=0;RO=0;RPL=0,0;RPP=4246.07,1184.29;RPPR=0;RPR=1954,544;RUN=1,1;SAF=0,0;SAP=4246.07,1184.29;SAR=1954,544;SRF=0;SRP=0;SRR=0;TYPE=snp,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:177:0,88,89:0:0:88,89:3160,3114:-508.704,-250.928,-224.437,-258.129,0,-231.337 1/2:104:0,49,54:0:0:49,54:1755,1924:-298.62,-155.65,-140.9,-142.967,0,-126.712 1/2:93:0,73,20:0:0:73,20:2586,712:-268.504,-57.8503,-35.8751,-211.007,0,-204.987 1/2:123:0,83,38:0:0:83,38:2966,1310:-347.057,-105.221,-80.2352,-241.877,0,-230.438 1/1:362:0,359,2:0:0:359,2:12867,68:-1157.33,-108.07,0,-1151.86,-102.608,-1151.26 1/1:117:0,116,1:0:0:116,1:4148,36:-373.125,-34.9195,0,-370.205,-31.6417,-369.904 1/2:169:0,87,81:0:0:87,81:3120,2830:-482.813,-228.369,-202.18,-254.438,0,-230.054 1/2:129:0,87,41:0:0:87,41:3100,1452:-370.151,-117.474,-91.2842,-252.709,0,-240.367 1/2:212:0,116,95:0:0:116,95:4153,3359:-609.179,-270.576,-235.657,-338.747,0,-310.149 1/1:4:0,4,0:0:0:4,0:144,0:-13.3089,-1.20412,0,-13.3089,-1.20412,-13.3089 1/1:11:0,11,0:0:0:11,0:388,0:-35.2546,-3.31133,0,-35.2546,-3.31133,-35.2546 1/2:16:0,11,5:0:0:11,5:396,180:-47.2459,-14.9326,-11.6213,-32.6714,0,-31.1663 1/2:150:0,85,64:0:0:85,64:3021,2223:-425.078,-178.898,-153.311,-246.228,0,-226.962 1/1:119:0,116,2:0:0:116,2:4092,68:-367.966,-34.9195,0,-362.491,-29.3572,-361.889 1/1:208:0,207,0:0:0:207,0:7429,0:-668.352,-62.3132,0,-668.352,-62.3132,-668.352 1/1:92:0,92,0:0:0:92,0:3308,0:-297.902,-27.6948,0,-297.902,-27.6948,-297.902 1/1:146:0,146,0:0:0:146,0:5238,0:-471.495,-43.9504,0,-471.495,-43.9504,-471.495 1/2:52:0,17,35:0:0:17,35:612,1225:-149.054,-99.1138,-93.9963,-50.2959,0,-39.7599 1/2:41:0,26,14:0:0:26,14:936,463:-113.526,-37.134,-29.3072,-76.3826,0,-72.1682 1/1:137:0,134,3:0:0:134,3:4812,108:-432.865,-40.338,0,-424.12,-31.2355,-423.217 1/1:47:0,47,0:0:0:47,0:1684,0:-151.833,-14.1484,0,-151.833,-14.1484,-151.833 chr04 31018468 . GGGA AGGA,AGGG 52768.8 PASS AB=0.549577,0.44658;ABP=30.7855,35.2586;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1904,590;CIGAR=1X3M,1X2M1X;DP=2504;DPB=2504.5;DPRA=0,2.35815;EPP=4137.49,1284.18;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.2381,2.4375;MQM=59.7931,47.2864;MQMR=0;NS=21;NUMALT=2;ODDS=8.41451;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=1;QA=68013,20632;QR=0;RO=0;RPL=1904,590;RPP=4137.49,1284.18;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4137.49,1284.18;SAR=1904,590;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:182:0,85,96:0:0:85,96:3036,3355:-517.544,-270.013,-244.425,-247.632,0,-218.733 1/2:108:0,48,59:0:0:48,59:1724,2071:-308.001,-167.406,-152.956,-140.697,0,-122.936 1/2:96:0,75,21:0:0:75,21:2677,738:-278.141,-59.9005,-37.3233,-218.591,0,-212.269 1/2:126:0,86,40:0:0:86,40:3072,1405:-362.901,-112.663,-86.774,-250.588,0,-238.547 1/1:354:0,351,2:0:0:351,2:12563,72:-1130.08,-105.662,0,-1124.26,-99.8188,-1123.66 1/1:115:0,114,1:0:0:114,1:4092,36:-368.076,-34.3174,0,-365.156,-31.0397,-364.855 1/2:173:0,84,88:0:0:84,88:3012,3046:-491.297,-245.657,-220.37,-245.653,0,-219.162 1/2:128:0,86,42:0:0:86,42:3072,1502:-372.135,-121.683,-95.7946,-250.807,0,-238.163 1/2:220:0,114,105:0:0:114,105:4076,3670:-627.69,-295.356,-261.039,-332.385,0,-300.777 1/1:4:0,4,0:0:0:4,0:133,0:-12.2972,-1.20412,0,-12.2972,-1.20412,-12.2972 1/1:11:0,11,0:0:0:11,0:388,0:-35.2518,-3.31133,0,-35.2518,-3.31133,-35.2518 1/2:16:0,11,5:0:0:11,5:396,178:-47.0734,-14.7575,-11.4462,-32.6714,0,-31.1663 1/2:159:0,84,74:0:0:84,74:3000,2560:-450.53,-205.943,-180.656,-244.643,0,-222.367 1/1:102:0,100,2:0:0:100,2:3466,65:-311.83,-30.103,0,-306.614,-24.7113,-306.012 1/1:206:0,204,1:0:0:204,1:7308,36:-657.389,-61.4101,0,-654.454,-58.475,-654.153 1/1:88:0,87,0:0:0:87,0:3116,0:-280.392,-26.1896,0,-280.392,-26.1896,-280.392 1/1:143:0,143,0:0:0:143,0:5128,0:-461.631,-43.0473,0,-461.631,-43.0473,-461.631 1/2:53:0,16,37:0:0:16,37:567,1320:-152.906,-106.716,-101.899,-46.5442,0,-35.4061 1/2:40:0,26,14:0:0:26,14:928,471:-113.883,-38.2158,-30.389,-76.0091,0,-71.7947 1/1:133:0,130,3:0:0:130,3:4655,107:-418.744,-39.1339,0,-410.084,-30.1197,-409.181 1/1:47:0,45,0:0:0:45,0:1604,0:-144.344,-13.5464,0,-144.344,-13.5464,-144.344 chr04 31064962 . G C 7551.67 PASS AB=0.48617;ABP=4.57191;AC=12;AF=0.285714;AN=42;AO=458;CIGAR=1X;DP=1534;DPB=1534;DPRA=1.22837;EPP=997.545;EPPR=2339.51;GTI=0;LEN=1;MEANALT=1;MQM=59.9869;MQMR=59.9991;NS=21;NUMALT=1;ODDS=4.22432;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16336;QR=38420;RO=1076;RPL=458;RPP=997.545;RPPR=2339.51;RPR=0;RUN=1;SAF=0;SAP=997.545;SAR=458;SRF=0;SRP=2339.51;SRR=1076;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:33,57:33:1176:57:2042:-156.959,0,-79.0551 0/1:56:30,26:30:1076:26:928:-66.9806,0,-80.2948 0/1:77:44,33:44:1561:33:1184:-83.689,0,-117.6 0/1:88:56,32:56:2004:32:1148:-77.1373,0,-154.143 0/0:190:190,0:190:6760:0:0:0,-57.1957,-608.479 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.73 0/1:101:57,44:57:2032:44:1572:-111.368,0,-152.748 0/1:111:54,57:54:1921:57:2014:-148.115,0,-139.751 0/1:121:62,59:62:2212:59:2101:-152.933,0,-162.92 0/1:13:11,2:11:396:2:72:-2.92333,0,-32.0694 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:57:25,32:25:896:32:1137:-85.4783,0,-63.8016 0/1:65:30,35:30:1076:35:1241:-92.4256,0,-77.5859 0/0:82:81,1:81:2888:1:32:0,-21.4851,-256.958 0/0:85:85,0:85:3052:0:0:0,-25.5875,-274.909 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 0/1:90:42,48:42:1495:48:1713:-127.361,0,-107.751 0/1:71:39,32:39:1391:32:1152:-82.617,0,-104.115 0/0:53:53,0:53:1892:0:0:0,-15.9546,-170.558 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 chr04 31067238 . A T 27896.6 PASS AB=0.505629;ABP=3.27923;AC=30;AF=0.714286;AN=42;AO=1348;CIGAR=1X;DP=1834;DPB=1834;DPRA=0;EPP=2930.16;EPPR=1049.68;GTI=1;LEN=1;MEANALT=1;MQM=59.9718;MQMR=59.9835;NS=21;NUMALT=1;ODDS=1.48618;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48043;QR=17389;RO=486;RPL=1348;RPP=2930.16;RPPR=1049.68;RPR=0;RUN=1;SAF=0;SAP=2930.16;SAR=1348;SRF=0;SRP=1058.35;SRR=486;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:36,63:36:1292:63:2233:-171.431,0,-86.7818 0/1:45:24,21:24:864:21:752:-54.4517,0,-64.5362 0/1:63:34,29:34:1216:29:1044:-75.3099,0,-90.7817 0/1:66:28,38:28:996:38:1353:-102.198,0,-70.0869 1/1:178:1,177:1:36:177:6289:-562.509,-49.9851,0 1/1:42:0,42:0:0:42:1506:-135.835,-12.6433,0 0/1:153:85,68:85:3028:68:2413:-171.368,0,-226.686 0/1:47:23,24:23:820:24:847:-62.3991,0,-59.9741 0/1:161:107,54:107:3844:54:1932:-125.691,0,-297.689 0/1:12:2,10:2:72:10:360:-29.1319,0,-3.22436 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 0/1:23:10,13:10:360:13:460:-34.8117,0,-25.8206 0/1:113:53,60:53:1881:60:2137:-158.58,0,-135.55 1/1:96:0,96:0:0:96:3401:-306.304,-28.8989,0 1/1:239:0,239:0:0:239:8527:-767.429,-71.9462,0 1/1:54:0,54:0:0:54:1924:-173.437,-16.2556,0 1/1:52:1,51:1:36:51:1824:-160.843,-12.0553,0 0/1:100:48,52:48:1720:52:1868:-138.295,0,-124.983 0/1:95:33,62:33:1188:62:2228:-172.186,0,-78.6307 1/1:132:1,131:1:36:131:4661:-416.055,-36.1377,0 1/1:50:0,50:0:0:50:1788:-161.187,-15.0515,0 chr04 31067250 . C A 27875.6 PASS AB=0.502053;ABP=3.04597;AC=30;AF=0.714286;AN=42;AO=1338;CIGAR=1X;DP=1826;DPB=1826;DPRA=0;EPP=2908.44;EPPR=1062.69;GTI=1;LEN=1;MEANALT=1;MQM=59.9686;MQMR=59.9836;NS=21;NUMALT=1;ODDS=1.00959;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47909;QR=17330;RO=488;RPL=1338;RPP=2908.44;RPPR=1062.69;RPR=0;RUN=1;SAF=0;SAP=2908.44;SAR=1338;SRF=0;SRP=1062.69;SRR=488;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:36,62:36:1258:62:2202:-168.941,0,-84.0173 0/1:45:24,21:24:864:21:745:-53.8264,0,-64.5362 0/1:63:33,30:33:1188:30:1080:-78.5484,0,-88.2637 0/1:66:28,38:28:1000:38:1349:-101.84,0,-70.4474 1/1:177:1,176:1:36:176:6316:-564.932,-49.684,0 1/1:42:0,42:0:0:42:1512:-136.375,-12.6433,0 0/1:153:86,67:86:3035:67:2404:-170.559,0,-227.312 0/1:48:23,25:23:813:25:896:-66.5027,0,-59.0397 0/1:161:107,54:107:3836:54:1927:-125.239,0,-296.97 0/1:12:2,10:2:72:10:356:-28.7689,0,-3.22436 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 0/1:22:10,12:10:360:12:432:-32.5985,0,-26.1216 0/1:112:54,58:54:1913:58:2054:-151.413,0,-138.73 1/1:94:0,94:0:0:94:3371:-303.606,-28.2968,0 1/1:239:0,239:0:0:239:8567:-771.024,-71.9462,0 1/1:53:0,53:0:0:53:1900:-171.278,-15.9546,0 1/1:52:1,51:1:36:51:1828:-161.203,-12.0553,0 0/1:99:48,51:48:1697:51:1832:-135.358,0,-123.212 0/1:95:34,61:34:1186:61:2196:-169.307,0,-78.4429 1/1:132:1,131:1:36:131:4693:-418.929,-36.1377,0 1/1:47:0,47:0:0:47:1677:-151.201,-14.1484,0 chr04 31073727 . TCGTT TCATC,TCATT 25899 PASS AB=0.66704,0.327354;ABP=219.194,233.946;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1029,292;CIGAR=2M1X1M1X,2M1X2M;DP=1335;DPB=1335;DPRA=0,1.00677;EPP=2177.07,577.737;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.14286,2.35714;MQM=59.7609,32.9041;MQMR=0;NS=21;NUMALT=2;ODDS=0.793417;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36072,9534;QR=0;RO=0;RPL=7,7;RPP=2177.07,577.737;RPPR=0;RPR=1022,285;RUN=1,1;SAF=0,0;SAP=2237.46,637.08;SAR=1029,292;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:36:0,19,17:0:0:19,17:643,578:-94.7501,-42.608,-36.8884,-52.4655,0,-47.348 1/2:15:0,7,8:0:0:7,8:248,243:-37.8101,-17.5695,-15.4623,-20.5572,0,-18.149 1/2:50:0,39,11:0:0:39,11:1371,363:-138.476,-26.8407,-15.1005,-111.948,0,-108.637 1/2:71:0,44,27:0:0:44,27:1551,906:-192.161,-66.4062,-53.1609,-126.078,0,-117.95 1/2:139:0,104,34:0:0:104,34:3656,1158:-382.879,-85.264,-53.9568,-297.579,0,-287.344 1/2:86:0,59,27:0:0:59,27:2060,808:-225.056,-57.5517,-39.791,-167.799,0,-159.671 1/1:46:0,46,0:0:0:46,0:1588,0:-143.198,-13.8474,0,-143.198,-13.8474,-143.198 1/2:109:0,72,36:0:0:72,36:2532,1147:-287.35,-81.1995,-59.5254,-206.226,0,-195.389 1/1:83:0,77,0:0:0:77,0:2710,0:-243.819,-23.1793,0,-243.819,-23.1793,-243.819 1/1:5:0,5,0:0:0:5,0:168,0:-15.4506,-1.50515,0,-15.4506,-1.50515,-15.4506 1/2:21:0,7,14:0:0:7,14:252,416:-50.5667,-29.9745,-27.8673,-20.9217,0,-16.7073 1/2:47:0,11,35:0:0:11,35:379,1107:-110.518,-79.7205,-76.4092,-30.9343,0,-20.3982 1/1:75:0,75,0:0:0:75,0:2618,0:-235.867,-22.5773,0,-235.867,-22.5773,-235.867 1/1:81:0,80,0:0:0:80,0:2801,0:-251.654,-24.0824,0,-251.654,-24.0824,-251.654 1/2:177:0,138,39:0:0:138,39:4831,1310:-488.223,-95.9831,-54.441,-392.555,0,-380.815 1/2:30:0,22,8:0:0:22,8:780,277:-84.4978,-20.9267,-14.3041,-63.9,0,-61.4918 1/2:23:0,7,15:0:0:7,15:249,529:-59.6858,-39.3817,-37.2745,-20.4113,0,-15.8959 1/2:35:0,23,12:0:0:23,12:812,384:-94.1535,-27.9879,-21.0642,-66.4771,0,-62.8647 1/2:53:0,43,9:0:0:43,9:1519,308:-146.565,-22.8277,-9.88341,-123.757,0,-121.048 1/1:105:0,103,0:0:0:103,0:3640,0:-326.956,-31.0061,0,-326.956,-31.0061,-326.956 1/1:48:0,48,0:0:0:48,0:1664,0:-149.853,-14.4494,0,-149.853,-14.4494,-149.853 chr04 31073735 . A G 2603.52 PASS AB=0.3375;ABP=204.849;AC=14;AF=0.333333;AN=42;AO=297;CIGAR=1X;DP=1317;DPB=1317;DPRA=1.00686;EPP=647.938;EPPR=2200.57;GTI=2;LEN=1;MEANALT=1;MQM=32.9832;MQMR=59.7343;NS=21;NUMALT=1;ODDS=4.12689;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10620;QR=36645;RO=1020;RPL=297;RPP=647.938;RPPR=2200.57;RPR=0;RUN=1;SAF=0;SAP=647.938;SAR=297;SRF=0;SRP=2217.91;SRR=1020;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:34:17,17:17:612:17:608:-38.6733,0,-45.1784 0/1:15:8,7:8:288:7:252:-14.0622,0,-21.3189 0/1:49:39,10:39:1400:10:332:-12.1804,0,-111.549 0/1:70:42,28:42:1512:28:1004:-58.4521,0,-114.601 0/1:136:102,34:102:3664:34:1224:-57.577,0,-289.022 0/1:86:58,28:58:2084:28:1004:-47.2969,0,-161.827 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.722 0/1:107:72,35:72:2588:35:1256:-62.3997,0,-200.829 0/0:82:82,0:82:2948:0:0:0,-24.6845,-265.553 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:22:7,15:7:252:15:536:-33.2603,0,-16.4063 0/1:46:11,35:11:396:35:1260:-81.6651,0,-22.1354 0/0:75:75,0:75:2696:0:0:0,-22.5772,-242.884 0/0:81:81,0:81:2904:0:0:0,-24.3834,-261.038 0/1:178:136,42:136:4884:42:1500:-65.6315,0,-385.27 0/1:30:22,8:22:792:8:284:-14.3248,0,-62.5748 0/1:22:5,17:5:180:17:608:-42.7067,0,-9.9294 0/1:35:23,12:23:828:12:428:-22.6172,0,-64.3081 0/1:50:41,9:41:1457:9:324:-11.4325,0,-116.372 0/0:104:104,0:104:3744:0:0:0,-31.3071,-336.458 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.138 chr04 31073748 . GACTGC AAATAT 2377.1 PASS AB=0.325843;ABP=237.481;AC=14;AF=0.333333;AN=42;AO=290;CIGAR=1X1M1X1M2X;DP=1333;DPB=1333;DPRA=1.00451;EPP=632.737;EPPR=2254.83;GTI=2;LEN=6;MEANALT=1.28571;MQM=32.4793;MQMR=59.7367;NS=21;NUMALT=1;ODDS=0.88517;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10291;QR=36640;RO=1037;RPL=290;RPP=632.737;RPPR=2254.83;RPR=0;RUN=1;SAF=0;SAP=632.737;SAR=290;SRF=0;SRP=2254.83;SRR=1037;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:19,16:19:652:16:572:-35.2404,0,-48.1689 0/1:15:8,7:8:287:7:250:-14.0182,0,-21.286 0/1:50:39,11:39:1389:11:383:-15.7887,0,-110.257 0/1:72:44,28:44:1554:28:995:-57.4821,0,-117.85 0/1:137:104,32:104:3682:32:1134:-50.0574,0,-290.286 0/1:87:59,28:59:2087:28:998:-46.8998,0,-161.802 0/0:45:44,0:44:1549:0:0:0,-13.2453,-139.34 0/1:108:73,35:73:2589:35:1234:-60.6871,0,-200.617 0/0:84:84,0:84:2964:0:0:0,-25.2865,-266.996 0/0:5:5,0:5:173:0:0:0,-1.50515,-15.91 0/1:20:7,13:7:249:13:460:-27.2978,0,-16.735 0/1:47:11,36:11:392:36:1284:-83.0051,0,-21.4716 0/0:75:75,0:75:2657:0:0:0,-22.5772,-239.378 0/0:81:80,0:80:2826:0:0:0,-24.0824,-253.902 0/1:180:137,41:137:4838:41:1441:-61.944,0,-380.851 0/1:29:22,7:22:789:7:252:-11.6231,0,-62.6054 0/1:23:7,16:7:236:16:571:-39.1345,0,-14.6453 0/1:35:23,12:23:825:12:431:-22.7304,0,-64.0377 0/1:51:43,8:43:1500:8:286:-7.84148,0,-119.939 0/0:105:105,0:105:3709:0:0:0,-31.6081,-333.314 0/0:48:48,0:48:1693:0:0:0,-14.4494,-152.585 chr04 31074494 . CGA TGT,TGC 47166.2 PASS AB=0.449743,0.547322;ABP=32.9123,29.522;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1529,749;CIGAR=1X1M1X,1X1M1X;DP=2284;DPB=2284;DPRA=0,2.30296;EPP=3314.51,1629.44;EPPR=0;GTI=1;LEN=3,3;MEANALT=2,2.4;MQM=59.5441,54.2644;MQMR=0;NS=21;NUMALT=2;ODDS=0.439736;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53878,26258;QR=0;RO=0;RPL=1,0;RPP=3314.51,1629.44;RPPR=0;RPR=1528,749;RUN=1,1;SAF=0,0;SAP=3323.19,1629.44;SAR=1529,749;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:115:0,30,85:0:0:30,85:1047,2997:-328.97,-243.815,-234.784,-85.5039,0,-59.9164 1/2:32:0,4,28:0:0:4,28:144,978:-91.1991,-79.4479,-78.2438,-12.1095,0,-3.68066 1/2:145:0,58,86:0:0:58,86:2046,3009:-410.956,-244.364,-226.905,-166.662,0,-140.773 1/2:169:0,62,107:0:0:62,107:2193,3749:-483.213,-304.681,-286.018,-178.884,0,-146.674 1/1:193:0,191,1:0:0:191,1:6717,31:-603.443,-57.4967,0,-600.955,-55.0332,-600.654 1/1:48:0,48,0:0:0:48,0:1684,0:-151.796,-14.4494,0,-151.796,-14.4494,-151.796 1/2:215:0,109,106:0:0:109,106:3847,3721:-614.836,-301.591,-268.779,-313.596,0,-281.687 1/2:111:0,43,67:0:0:43,67:1511,2342:-312.67,-189.684,-176.74,-122.99,0,-102.821 1/2:202:0,87,114:0:0:87,114:3068,4041:-578.738,-328.931,-302.741,-249.948,0,-215.63 1/2:14:0,6,8:0:0:6,8:216,281:-40.7989,-23.1882,-21.382,-17.9664,0,-15.5582 1/1:8:0,8,0:0:0:8,0:283,0:-25.8122,-2.40824,0,-25.8122,-2.40824,-25.8122 1/2:67:0,29,37:0:0:29,37:992,1267:-183.161,-102.647,-93.9172,-80.6407,0,-69.5026 1/2:125:0,81,44:0:0:81,44:2797,1515:-350.485,-123.28,-98.8964,-227.55,0,-214.305 1/1:182:0,180,1:0:0:180,1:6320,36:-568.303,-54.1854,0,-565.368,-51.1955,-565.067 1/1:208:0,207,1:0:0:207,1:7339,34:-660.2,-62.3132,0,-657.444,-59.217,-657.143 1/1:27:0,27,0:0:0:27,0:964,0:-87.0772,-8.12781,0,-87.0772,-8.12781,-87.0772 1/1:41:0,41,0:0:0:41,0:1434,0:-129.339,-12.3422,0,-129.339,-12.3422,-129.339 1/2:89:0,42,47:0:0:42,47:1483,1653:-255.321,-134.56,-121.917,-121.113,0,-106.964 1/2:79:0,62,17:0:0:62,17:2195,604:-228.322,-49.537,-30.8732,-179.14,0,-174.022 1/1:139:0,139,0:0:0:139,0:4940,0:-444.686,-41.8432,0,-444.686,-41.8432,-444.686 1/1:75:0,75,0:0:0:75,0:2658,0:-239.204,-22.5773,0,-239.204,-22.5773,-239.204 chr04 31074502 . GA AA,AT 54848.3 PASS AB=0.442635,0.557365;ABP=41.6259,41.6259;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1496,754;CIGAR=1X1M,2X;DP=2251;DPB=2251;DPRA=0,1.29528;EPP=1976.43,781.745;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.66667,2.07692;MQM=59.6397,54.1485;MQMR=0;NS=21;NUMALT=2;ODDS=1.41307;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53479,26837;QR=0;RO=0;RPL=165,117;RPP=1976.43,781.745;RPPR=0;RPR=1331,637;RUN=1,1;SAF=0,0;SAP=3251.53,1640.3;SAR=1496,754;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:115:0,30,85:0:0:30,85:1076,3018:-333.566,-245.808,-236.778,-88.1149,0,-62.5274 1/2:32:0,4,28:0:0:4,28:144,991:-92.3179,-80.5672,-79.3631,-12.1095,0,-3.68066 1/2:144:0,57,87:0:0:57,87:2039,3102:-418.995,-252.735,-235.577,-166.616,0,-140.427 1/2:166:0,59,107:0:0:59,107:2104,3813:-481.831,-310.357,-292.596,-171.83,0,-139.62 1/1:186:0,186,0:0:0:186,0:6617,0:-595.316,-55.9916,0,-595.316,-55.9916,-595.316 1/1:47:0,47,0:0:0:47,0:1684,0:-151.764,-14.1484,0,-151.764,-14.1484,-151.764 1/2:212:0,104,108:0:0:104,108:3723,3838:-613.749,-310.158,-278.851,-303.946,0,-271.434 1/2:110:0,42,68:0:0:42,68:1508,2407:-318.047,-195.036,-182.393,-123.367,0,-102.897 1/2:202:0,86,116:0:0:86,116:3084,4128:-587.846,-336.31,-310.421,-251.893,0,-216.974 1/2:14:0,6,8:0:0:6,8:216,288:-41.4289,-23.8219,-22.0157,-17.9664,0,-15.5582 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/2:67:0,29,38:0:0:29,38:1044,1364:-196.173,-110.992,-102.262,-85.5394,0,-74.1003 1/2:123:0,80,43:0:0:80,43:2841,1540:-357.28,-125.809,-101.727,-231.827,0,-218.883 1/1:175:0,173,1:0:0:173,1:6185,36:-556.355,-52.0782,0,-553.42,-49.0683,-553.119 1/1:206:0,206,0:0:0:206,0:7374,0:-663.67,-62.0122,0,-663.67,-62.0122,-663.67 1/1:27:0,27,0:0:0:27,0:972,0:-87.7979,-8.12781,0,-87.7979,-8.12781,-87.7979 1/1:40:0,40,0:0:0:40,0:1440,0:-129.898,-12.0412,0,-129.898,-12.0412,-129.898 1/2:87:0,39,48:0:0:39,48:1387,1706:-252.038,-139.005,-127.265,-113.388,0,-98.9385 1/2:79:0,62,17:0:0:62,17:2215,606:-230.297,-49.7162,-31.0524,-180.937,0,-175.82 1/1:137:0,137,0:0:0:137,0:4906,0:-441.426,-41.2411,0,-441.426,-41.2411,-441.426 1/1:74:0,74,0:0:0:74,0:2636,0:-237.224,-22.2762,0,-237.224,-22.2762,-237.224 chr04 31074585 . T A 15472.4 PASS AB=0.504381;ABP=3.31473;AC=12;AF=0.285714;AN=42;AO=923;CIGAR=1X;DP=3049;DPB=3049;DPRA=1.12009;EPP=2007.28;EPPR=4608.71;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=10.6227;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32813;QR=75653;RO=2125;RPL=923;RPP=2007.28;RPPR=4608.71;RPR=0;RUN=1;SAF=923;SAP=2007.28;SAR=0;SRF=2125;SRP=4617.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:71,80:71:2530:80:2824:-208.943,0,-182.495 0/1:44:14,30:14:485:30:1072:-83.5471,0,-30.7317 0/1:138:62,76:62:2215:76:2713:-202.871,0,-158.072 0/1:98:45,53:45:1588:53:1893:-141.146,0,-113.707 0/0:344:344,0:344:12213:0:0:0,-103.554,-1099.02 0/0:88:87,1:87:3081:1:36:0,-22.8924,-273.918 0/1:259:129,130:129:4573:130:4604:-336.558,0,-333.766 0/1:186:90,96:90:3232:96:3401:-250.313,0,-235.109 0/1:271:135,136:135:4820:136:4849:-354.985,0,-352.375 0/1:20:13,6:13:460:6:212:-13.3805,0,-35.6935 0/0:14:14,0:14:495:0:0:0,-4.21442,-44.883 0/1:29:15,14:15:540:14:500:-36.6063,0,-40.2067 0/1:446:233,213:233:8313:213:7583:-548.25,0,-613.916 0/0:179:179,0:179:6411:0:0:0,-53.8844,-577.077 0/0:246:246,0:246:8721:0:0:0,-74.0534,-784.886 0/0:33:33,0:33:1161:0:0:0,-9.93399,-104.795 0/0:49:49,0:49:1730:0:0:0,-14.7505,-155.981 0/1:86:30,56:30:1068:56:1978:-152.405,0,-70.5435 0/1:98:67,31:67:2385:31:1112:-70.8904,0,-185.405 0/0:194:193,1:193:6917:1:36:0,-54.8015,-618.996 0/0:76:76,0:76:2715:0:0:0,-22.8783,-244.593 chr04 31097110 . T A 10794.5 PASS AB=0.517609;ABP=6.29863;AC=12;AF=0.285714;AN=42;AO=640;CIGAR=1X;DP=2078;DPB=2078;DPRA=2.04886;EPP=1392.75;EPPR=3039.33;GTI=0;LEN=1;MEANALT=1;MQM=59.1375;MQMR=59.8679;NS=21;NUMALT=1;ODDS=8.38525;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22926;QR=51080;RO=1438;RPL=640;RPP=1392.75;RPPR=3039.33;RPR=0;RUN=1;SAF=0;SAP=1392.75;SAR=640;SRF=0;SRP=3125.59;SRR=1438;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:58,78:58:2053:78:2778:-209.304,0,-144.095 0/1:78:29,49:29:1040:49:1760:-135.096,0,-70.4317 0/1:39:19,20:19:680:20:720:-53.3608,0,-49.789 0/1:55:14,41:14:504:41:1476:-116.537,0,-29.1414 0/0:195:192,3:192:6830:3:108:0,-48.6329,-604.646 0/0:68:67,1:67:2384:1:36:0,-16.8718,-211.213 0/1:146:83,63:83:2945:63:2246:-158.38,0,-220.688 0/1:253:113,140:113:4028:140:5020:-374.716,0,-285.773 0/1:194:91,103:91:3195:103:3682:-272.814,0,-229.371 0/1:31:12,19:12:428:19:684:-52.119,0,-29.5269 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/1:29:14,15:14:496:15:540:-40.1844,0,-36.2444 0/1:118:56,62:56:2008:62:2228:-165.206,0,-145.472 0/0:126:123,3:123:4385:3:108:0,-27.8546,-384.744 0/0:193:192,1:192:6804:1:36:0,-54.5005,-608.676 0/0:67:67,0:67:2339:0:0:0,-20.169,-210.756 0/0:71:71,0:71:2476:0:0:0,-21.3731,-223.089 0/1:83:53,30:53:1896:30:1076:-72.1592,0,-145.933 0/1:59:47,12:47:1692:12:428:-21.0934,0,-134.806 0/0:84:84,0:84:3001:0:0:0,-25.2865,-270.32 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 chr04 31097237 . A G 9024.52 PASS AB=0.507605;ABP=3.53872;AC=12;AF=0.285714;AN=42;AO=535;CIGAR=1X;DP=1698;DPB=1698;DPRA=1.26397;EPP=1164.75;EPPR=2491.64;GTI=0;LEN=1;MEANALT=1;MQM=59.9421;MQMR=59.9931;NS=21;NUMALT=1;ODDS=4.79316;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19140;QR=41563;RO=1162;RPL=535;RPP=1164.75;RPPR=2491.64;RPR=0;RUN=1;SAF=0;SAP=1164.75;SAR=535;SRF=0;SRP=2526.26;SRR=1162;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:54,53:54:1917:53:1892:-138.348,0,-140.595 0/1:70:26,44:26:936:44:1567:-120.241,0,-63.4874 0/1:59:25,34:25:888:34:1216:-91.9852,0,-62.4783 0/1:63:41,22:41:1472:22:782:-51.7379,0,-113.811 0/0:113:113,0:113:4060:0:0:0,-34.0164,-365.586 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.659 0/1:132:57,75:57:2020:75:2692:-202.788,0,-142.334 0/1:134:55,79:55:1976:79:2832:-214.736,0,-137.777 0/1:167:91,76:91:3264:76:2716:-194.412,0,-243.708 0/1:11:5,6:5:180:6:208:-15.7459,0,-13.2407 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:28:11,17:11:396:17:612:-46.9846,0,-27.5539 0/1:101:36,65:36:1296:65:2340:-180.455,0,-86.5399 0/0:82:82,0:82:2914:0:0:0,-24.6845,-262.493 0/0:166:165,0:165:5913:0:0:0,-49.6699,-532.065 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/1:75:44,31:44:1576:31:1116:-78.1744,0,-119.554 0/1:105:73,32:73:2609:32:1131:-70.4896,0,-203.448 0/0:90:89,1:89:3149:1:36:0,-23.4944,-280.032 0/0:56:56,0:56:1997:0:0:0,-16.8577,-180.002 chr04 31101104 . CGTTTCTTA TGTGCTTA,TGTTCTTA 146058 PASS AB=0.498527,0.493617;ABP=3.06787,4.09142;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3972,1528;CIGAR=1X1M1D1M1X4M,1X1M1D6M;DP=5545;DPB=4929;DPRA=0,1.78437;EPP=8628.1,3321.02;EPPR=9.52472;GTI=0;LEN=8,8;MEANALT=3.66667,3.88235;MQM=52.1918,59.3135;MQMR=60;NS=21;NUMALT=2;ODDS=33.1853;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=139072,53602;QR=100;RO=3;RPL=2083,836;RPP=23.5857,32.4787;RPPR=9.52472;RPR=1889,692;RUN=1,1;SAF=2083,836;SAP=23.5857,32.4787;SAR=1889,692;SRF=3;SRP=9.52472;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:289:0,156,132:0:0:156,132:5469,4541:-810.846,-368.592,-321.631,-442.346,0,-402.61 1/2:269:0,120,146:0:0:120,146:4243,5067:-755.129,-411.707,-375.583,-343.417,0,-299.467 1/2:231:0,100,124:0:0:100,124:3509,4390:-641.754,-357.627,-327.524,-284.177,0,-246.849 1/2:354:0,164,189:0:0:164,189:5730,6678:-1006.59,-543.509,-494.14,-463.092,0,-406.197 1/1:619:0,602,12:0:0:602,12:21080,424:-1888.62,-181.22,0,-1854.11,-146.699,-1850.5 1/1:325:0,321,3:0:0:321,3:11255,106:-1007.84,-96.6306,0,-999.207,-87.9753,-998.304 1/2:432:3,188,238:3:100:188,238:6595,8363:-1205.78,-672.206,-623.707,-526.445,0,-462.893 1/2:240:0,130,110:0:0:130,110:4543,3884:-683.634,-316.445,-277.311,-367.54,0,-334.427 1/2:487:0,242,244:0:0:242,244:8484,8554:-1383.16,-695.989,-623.14,-687.156,0,-613.704 1/2:47:0,25,22:0:0:25,22:884,782:-135.62,-64.049,-56.5232,-71.9248,0,-65.3021 1/1:24:0,24,0:0:0:24,0:850,0:-76.5413,-7.22472,0,-76.5413,-7.22472,-76.5413 1/2:73:0,40,33:0:0:40,33:1385,1159:-206.275,-94.6752,-82.634,-111.947,0,-102.013 1/2:311:0,160,147:0:0:160,147:5631,5184:-877.659,-421.58,-373.415,-456.098,0,-411.847 1/1:291:0,289,2:0:0:289,2:10081,72:-903.745,-86.9977,0,-897.87,-80.763,-897.268 1/1:348:0,343,0:0:0:343,0:12037,0:-1078.62,-103.253,0,-1078.62,-103.253,-1078.62 1/1:266:0,260,1:0:0:260,1:9096,36:-815.323,-78.2678,0,-812.394,-75.3312,-812.093 1/1:181:0,180,0:0:0:180,0:6224,0:-558.607,-54.1854,0,-558.607,-54.1854,-558.607 1/2:170:0,87,82:0:0:87,82:3054,2847:-478.323,-231.396,-205.206,-246.915,0,-222.231 1/2:152:0,111,41:0:0:111,41:3874,1443:-431.18,-117.822,-84.4076,-313.709,0,-301.366 1/1:343:0,338,2:0:0:338,2:11853,72:-1058.97,-101.748,0,-1053.16,-95.9225,-1052.55 1/1:93:0,92,0:0:0:92,0:3195,0:-286.232,-27.6948,0,-286.232,-27.6948,-286.232 chr04 31128487 . G A 7006.2 PASS AB=0.485023;ABP=4.70145;AC=12;AF=0.285714;AN=42;AO=423;CIGAR=1X;DP=1516;DPB=1516;DPRA=0.976634;EPP=912.878;EPPR=2326.68;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9551;MQMR=60;NS=21;NUMALT=1;ODDS=15.556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15108;QR=38941;RO=1090;RPL=422;RPP=912.878;RPPR=2326.68;RPR=1;RUN=1;SAF=0;SAP=921.543;SAR=423;SRF=0;SRP=2369.92;SRR=1090;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:44,39:44:1551:39:1396:-100.954,0,-114.896 0/1:57:31,26:31:1108:26:936:-67.4008,0,-82.8723 0/1:92:47,45:47:1680:45:1601:-116.683,0,-123.792 0/1:43:25,18:25:900:18:633:-44.3518,0,-68.3767 0/0:152:150,0:150:5369:0:0:0,-45.1545,-482.98 0/0:62:60,2:60:2140:2:72:0,-11.8271,-186.031 0/1:110:57,52:57:2048:52:1872:-135.587,0,-151.419 0/1:26:15,11:15:527:11:396:-28.156,0,-39.9334 0/1:167:89,78:89:3180:78:2777:-199.87,0,-236.153 0/1:14:3,11:3:104:11:396:-31.7683,0,-5.48839 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:22:5,17:5:180:17:603:-47.9763,0,-9.9294 0/1:73:33,40:33:1180:40:1416:-105.759,0,-84.5329 0/0:112:112,0:112:4008:0:0:0,-33.7154,-360.909 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/0:74:74,0:74:2639:0:0:0,-22.2762,-237.757 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 0/1:98:42,56:42:1512:56:2010:-151.672,0,-106.874 0/1:83:55,28:55:1946:28:1000:-65.3299,0,-150.429 0/0:54:54,0:54:1927:0:0:0,-16.2556,-173.706 0/0:66:66,0:66:2350:0:0:0,-19.868,-211.758 chr04 31196193 . AGGCT GGGCC,AGGCC 29323.1 PASS AB=0.506438,0.482833;ABP=3.34581,5.39612;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1004,457;CIGAR=1X3M1X,4M1X;DP=1476;DPB=1476;DPRA=0,1.7948;EPP=2174.49,995.373;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.28571,2.53333;MQM=59.7161,59.9606;MQMR=0;NS=21;NUMALT=2;ODDS=4.4592;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34334,16323;QR=0;RO=0;RPL=1004,457;RPP=2183.17,995.373;RPPR=0;RPR=0,0;RUN=1,1;SAF=1,0;SAP=2174.49,995.373;SAR=1003,457;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:85:0,49,35:0:0:49,35:1704,1245:-239.994,-101.455,-86.7041,-138.533,0,-127.996 1/2:15:0,8,7:0:0:8,7:263,252:-42.1528,-20.9217,-18.5135,-21.5762,0,-19.469 1/2:101:0,44,56:0:0:44,56:1500,1985:-283.401,-161.705,-148.46,-121.683,0,-104.826 1/2:70:0,30,39:0:0:30,39:1034,1392:-197.412,-113.479,-104.448,-83.9235,0,-72.1833 1/1:94:0,92,2:0:0:92,2:3136,72:-282.067,-27.6948,0,-276.192,-21.4601,-275.589 1/1:46:0,45,0:0:0:45,0:1554,0:-139.785,-13.5464,0,-139.785,-13.5464,-139.785 1/2:99:0,51,48:0:0:51,48:1729,1724:-281.119,-140.996,-125.643,-140.472,0,-126.023 1/2:100:0,50,49:0:0:50,49:1694,1752:-280.196,-142.854,-127.802,-137.33,0,-122.58 1/2:147:0,80,64:0:0:80,64:2690,2300:-405.439,-187.634,-163.552,-217.794,0,-198.528 1/2:10:0,1,9:0:0:1,9:36,320:-29.3617,-26.4238,-26.1228,-3.29724,0,-0.587975 1/1:6:0,6,0:0:0:6,0:215,0:-19.6992,-1.80618,0,-19.6992,-1.80618,-19.6992 1/2:18:0,8,10:0:0:8,10:280,356:-52.1496,-29.3709,-26.9627,-23.1312,0,-20.1209 1/2:152:0,78,74:0:0:78,74:2663,2637:-431.367,-215.299,-191.819,-216.417,0,-194.14 1/1:108:0,106,0:0:0:106,0:3591,0:-323.102,-31.9092,0,-323.102,-31.9092,-323.102 1/1:60:0,59,0:0:0:59,0:2058,0:-185.132,-17.7608,0,-185.132,-17.7608,-185.132 1/1:23:0,23,0:0:0:23,0:801,0:-72.4085,-6.92369,0,-72.4085,-6.92369,-72.4085 1/1:26:0,26,0:0:0:26,0:854,0:-77.1611,-7.82678,0,-77.1611,-7.82678,-77.1611 1/2:61:0,24,34:0:0:24,34:830,1216:-166.614,-99.1736,-91.9489,-67.4526,0,-57.2176 1/2:74:0,49,25:0:0:49,25:1689,896:-210.621,-73.4346,-58.6841,-137.54,0,-130.014 1/1:133:0,129,3:0:0:129,3:4435,104:-398.988,-38.8329,0,-390.535,-30.352,-389.632 1/1:48:0,46,2:0:0:46,2:1578,72:-141.939,-13.8474,0,-136.064,-7.61272,-135.462 chr04 31201601 . G A 15413 PASS AB=0.459459;ABP=32.5893;AC=12;AF=0.285714;AN=42;AO=957;CIGAR=1X;DP=4197;DPB=4197;DPRA=0.696408;EPP=2081.11;EPPR=7025.55;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.9791;MQMR=60;NS=21;NUMALT=1;ODDS=0.312552;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34153;QR=115798;RO=3238;RPL=957;RPP=2081.11;RPPR=7034.24;RPR=0;RUN=1;SAF=957;SAP=2081.11;SAR=0;SRF=3237;SRP=7025.55;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:250:120,130:120:4285:130:4632:-341.788,0,-310.569 0/1:132:81,51:81:2884:51:1820:-124.345,0,-220.059 0/1:172:102,70:102:3659:70:2508:-174.184,0,-277.735 0/1:168:85,83:85:3036:83:2960:-216.06,0,-222.898 0/0:488:488,0:488:17396:0:0:0,-146.903,-1565.27 0/0:188:184,3:184:6585:3:108:0,-46.5773,-582.654 0/1:275:168,107:168:6023:107:3828:-261.934,0,-459.389 0/1:189:99,90:99:3551:90:3172:-228.808,0,-262.902 0/1:356:193,163:193:6929:163:5844:-418.904,0,-516.505 0/1:28:20,8:20:712:8:288:-17.8386,0,-55.9778 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:48:21,27:21:756:27:968:-72.9879,0,-53.9178 0/1:251:113,138:113:4029:138:4906:-366.132,0,-287.24 0/0:191:191,0:191:6815:0:0:0,-57.4967,-613.421 0/0:560:559,0:559:20038:0:0:0,-168.276,-1802.61 0/0:217:217,0:217:7766:0:0:0,-65.3235,-698.968 0/0:183:181,2:181:6475:2:72:0,-48.2518,-575.996 0/1:96:45,51:45:1596:51:1823:-135.452,0,-115.031 0/1:107:73,34:73:2606:34:1224:-78.2568,0,-202.577 0/0:194:194,0:194:6947:0:0:0,-58.3998,-625.295 0/0:86:86,0:86:3062:0:0:0,-25.8886,-275.809 chr04 31269987 . A G 106308 PASS AB=0.493195;ABP=4.25154;AC=30;AF=0.714286;AN=42;AO=4054;CIGAR=1X;DP=5630;DPB=5630;DPRA=0;EPP=8797.48;EPPR=3420.91;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9401;MQMR=59.9841;NS=21;NUMALT=1;ODDS=20.4725;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=143118;QR=56211;RO=1574;RPL=1694;RPP=240.595;RPPR=149.627;RPR=2360;RUN=1;SAF=1695;SAP=239.171;SAR=2359;SRF=624;SRP=149.627;SRR=950;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:538:293,245:293:10467:245:8604:-612.404,0,-779.996 0/1:266:153,113:153:5448:113:3971:-277.506,0,-410.376 0/1:224:115,109:115:4111:109:3864:-280.525,0,-302.744 0/1:269:132,137:132:4716:137:4754:-346.971,0,-343.624 1/1:701:6,695:6:216:695:24546:-2188.5,-191.232,0 1/1:162:1,161:1:36:161:5739:-513.029,-45.1686,0 0/1:307:133,174:133:4764:174:6143:-460.559,0,-336.501 0/1:264:148,116:148:5277:116:4130:-292.413,0,-395.595 0/1:404:225,179:225:8044:179:6358:-450.688,0,-602.365 0/1:37:20,17:20:716:17:612:-44.2753,0,-53.6296 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:96:37,59:37:1319:59:2107:-161,0,-90.1123 0/1:284:134,150:134:4790:150:5331:-394.432,0,-345.763 1/1:340:0,340:0:0:340:11887:-1069.04,-102.35,0 1/1:407:2,405:2:72:405:14265:-1276.79,-115.682,0 1/1:260:0,260:0:0:260:9217:-829.505,-78.2678,0 1/1:222:0,222:0:0:222:7880:-709.096,-66.8287,0 0/1:218:115,102:115:4092:102:3532:-252.409,0,-302.468 0/1:179:58,121:58:2071:121:4282:-331.672,0,-132.776 1/1:287:1,285:1:36:285:10138:-908.74,-82.8561,0 1/1:157:1,156:1:36:156:5470:-488.833,-43.6634,0 chr04 31269999 . 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A C 46055.1 PASS AB=0.510192;ABP=4.51523;AC=30;AF=0.714286;AN=42;AO=2247;CIGAR=1X;DP=3067;DPB=3067;DPRA=0;EPP=4873.63;EPPR=1770.6;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.8861;MQMR=60;NS=21;NUMALT=1;ODDS=25.3227;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79506;QR=29178;RO=818;RPL=1;RPP=4873.63;RPPR=1770.6;RPR=2246;RUN=1;SAF=0;SAP=4882.31;SAR=2247;SRF=0;SRP=1779.27;SRR=818;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:78,63:78:2784:63:2252:-160.138,0,-207.996 0/1:120:62,58:62:2194:58:2054:-149.007,0,-161.601 0/1:212:91,121:91:3250:121:4295:-322.904,0,-228.902 0/1:208:98,110:98:3506:110:3874:-286.007,0,-253.135 1/1:275:1,274:1:36:274:9663:-866.023,-79.185,0 1/1:165:2,163:2:72:163:5777:-513.201,-42.8332,0 0/1:208:115,93:115:4112:93:3274:-232.262,0,-307.651 0/1:81:44,36:44:1575:36:1275:-90.6102,0,-117.599 0/1:227:116,111:116:4135:111:3933:-285.802,0,-304.001 0/1:28:19,9:19:676:9:315:-20.2584,0,-52.7392 1/1:17:0,17:0:0:17:599:-54.2381,-5.11751,0 0/1:50:29,21:29:1044:21:740:-51.8719,0,-79.2233 0/1:244:101,143:101:3583:143:5070:-382.94,0,-249.225 1/1:189:0,189:0:0:189:6704:-603.44,-56.8947,0 1/1:219:0,219:0:0:219:7754:-697.853,-65.9256,0 1/1:152:0,152:0:0:152:5417:-487.655,-45.7566,0 1/1:145:0,145:0:0:145:5150:-463.641,-43.6494,0 0/1:58:31,27:31:1099:27:935:-66.9937,0,-81.7597 0/1:90:31,59:31:1112:59:2086:-160.916,0,-73.2986 1/1:159:0,159:0:0:159:5599:-504.038,-47.8638,0 1/1:78:0,78:0:0:78:2740:-246.805,-23.4803,0 chr04 31291140 . T C 48953 PASS AB=0.510689;ABP=4.68146;AC=30;AF=0.714286;AN=42;AO=2270;CIGAR=1X;DP=3096;DPB=3096;DPRA=0;EPP=4507.52;EPPR=1614.55;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.8965;MQMR=59.9818;NS=21;NUMALT=1;ODDS=25.4621;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80745;QR=29364;RO=824;RPL=2220;RPP=4507.52;RPPR=1614.55;RPR=50;RUN=1;SAF=0;SAP=4932.25;SAR=2270;SRF=0;SRP=1792.3;SRR=824;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:77,66:77:2752:66:2353:-168.981,0,-204.875 0/1:122:63,59:63:2256:59:2108:-153.264,0,-166.577 0/1:217:94,123:94:3337:123:4398:-330.665,0,-235.224 0/1:210:99,110:99:3556:110:3887:-286.367,0,-256.972 1/1:278:1,277:1:36:277:9837:-881.593,-80.0881,0 1/1:161:0,161:0:0:161:5722:-515.099,-48.4658,0 0/1:210:117,93:117:4141:93:3308:-234.722,0,-309.616 0/1:82:42,40:42:1496:40:1409:-102.42,0,-110.25 0/1:231:117,114:117:4164:114:4026:-292.964,0,-305.407 0/1:30:21,9:21:756:9:320:-20.1115,0,-59.3363 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 0/1:48:28,20:28:1004:20:712:-49.9566,0,-76.2264 0/1:247:105,142:105:3714:142:5038:-379.197,0,-260.108 1/1:197:0,197:0:0:197:6982:-628.448,-59.3029,0 1/1:219:0,219:0:0:219:7819:-703.694,-65.9256,0 1/1:156:0,156:0:0:156:5563:-500.784,-46.9607,0 1/1:143:0,143:0:0:143:5108:-459.861,-43.0473,0 0/1:58:32,26:32:1144:26:932:-66.6941,0,-85.8098 0/1:86:28,58:28:1008:58:2080:-161.582,0,-65.1478 1/1:157:0,156:0:0:156:5568:-500.884,-46.9607,0 1/1:84:0,84:0:0:84:2967:-267.224,-25.2865,0 chr04 31301988 . TGCCC CGCCT,CGCCC 18764.4 PASS AB=0.38191,0.61474;ABP=75.3236,71.2789;AC=30,12;AF=0.714286,0.285714;AN=42;AO=548,368;CIGAR=1X3M1X,1X4M;DP=919;DPB=919;DPRA=0,1.55976;EPP=1192.98,802.112;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.7619,2.15385;MQM=59.8504,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.69315;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19200,13135;QR=0;RO=0;RPL=0,0;RPP=1192.98,802.112;RPPR=0;RPR=548,368;RUN=1,1;SAF=548,368;SAP=1192.98,802.112;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:28:0,14,14:0:0:14,14:495,504:-81.7965,-41.4837,-37.2693,-40.6694,0,-36.455 1/2:14:0,6,8:0:0:6,8:215,288:-41.3933,-23.8592,-22.053,-17.893,0,-15.4848 1/2:46:0,11,35:0:0:11,35:393,1252:-134.491,-102.449,-99.1377,-32.3996,0,-21.8635 1/2:36:0,9,27:0:0:9,27:322,968:-105.567,-79.3096,-76.6003,-26.6149,0,-18.4871 1/1:78:0,77,0:0:0:77,0:2686,0:-241.626,-23.1793,0,-241.626,-23.1793,-241.626 1/1:28:0,28,0:0:0:28,0:986,0:-89.0539,-8.42884,0,-89.0539,-8.42884,-89.0539 1/2:59:0,20,39:0:0:20,39:695,1396:-170.699,-114.199,-108.178,-56.8509,0,-45.1108 1/2:94:0,45,49:0:0:45,49:1559,1740:-268.835,-142.134,-128.588,-127.051,0,-112.301 1/2:94:0,27,67:0:0:27,67:944,2392:-272.162,-195.368,-187.241,-77.1448,0,-56.9758 1/2:8:0,3,4:0:0:3,4:108,144:-20.7018,-11.8775,-10.9744,-8.93213,0,-7.72801 1/1:4:0,4,0:0:0:4,0:140,0:-12.9448,-1.20412,0,-12.9448,-1.20412,-12.9448 1/2:22:0,5,16:0:0:5,16:180,576:-61.6858,-46.9987,-45.4935,-14.6871,0,-9.87061 1/2:117:0,46,71:0:0:46,71:1630,2528:-339.185,-206.399,-192.552,-133.141,0,-111.767 1/1:18:0,18,0:0:0:18,0:640,0:-57.9295,-5.41854,0,-57.9295,-5.41854,-57.9295 1/1:84:0,84,0:0:0:84,0:2935,0:-264.069,-25.2865,0,-264.069,-25.2865,-264.069 1/1:17:0,17,0:0:0:17,0:605,0:-54.781,-5.11751,0,-54.781,-5.11751,-54.781 1/1:13:0,13,0:0:0:13,0:459,0:-41.6448,-3.91339,0,-41.6448,-3.91339,-41.6448 1/2:44:0,22,22:0:0:22,22:771,771:-125.823,-63.0876,-56.465,-63.0856,0,-56.4629 1/2:35:0,20,15:0:0:20,15:675,540:-99.115,-44.4211,-38.4005,-55.0442,0,-50.5287 1/1:62:0,61,1:0:0:61,1:2127,36:-191.337,-18.3628,0,-188.399,-15.0656,-188.098 1/1:18:0,18,0:0:0:18,0:635,0:-57.4767,-5.41854,0,-57.4767,-5.41854,-57.4767 chr04 31302021 . A G 6266.79 PASS AB=0.62892;ABP=85.8743;AC=12;AF=0.285714;AN=42;AO=362;CIGAR=1X;DP=883;DPB=883;DPRA=1.56688;EPP=780.421;EPPR=1134.35;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9117;NS=21;NUMALT=1;ODDS=2.49718;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12783;QR=18564;RO=521;RPL=361;RPP=780.421;RPPR=1134.35;RPR=1;RUN=1;SAF=362;SAP=789.083;SAR=0;SRF=521;SRP=1134.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:13,14:13:464:14:482:-35.5782,0,-33.9697 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:45:10,35:10:356:35:1239:-98.2667,0,-18.8349 0/1:37:9,28:9:324:28:981:-77.4624,0,-18.3677 0/0:74:74,0:74:2621:0:0:0,-22.2762,-236.136 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/1:56:19,37:19:676:37:1302:-100.622,0,-44.3103 0/1:91:43,48:43:1544:48:1697:-125.621,0,-111.859 0/1:91:25,66:25:892:66:2326:-182.206,0,-53.2026 0/1:8:3,5:3:108:5:171:-13.3172,0,-7.66693 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:22:5,17:5:180:17:608:-48.4294,0,-9.9294 0/1:108:42,66:42:1497:66:2353:-179.516,0,-102.511 0/0:18:18,0:18:633:0:0:0,-5.41854,-57.2951 0/0:78:78,0:78:2781:0:0:0,-23.4803,-249.673 0/0:17:17,0:17:604:0:0:0,-5.11751,-54.6906 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:43:21,22:21:733:22:775:-57.1269,0,-53.3454 0/1:32:17,15:17:591:15:525:-37.9451,0,-43.8823 0/0:60:59,1:59:2116:1:36:0,-14.4635,-187.11 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 chr04 31427072 . C T 2.49499e-10 PASS AB=0.526654;ABP=34.7273;AC=21;AF=0.5;AN=42;AO=2707;CIGAR=1X;DP=5140;DPB=5140;DPRA=0;EPP=5881.19;EPPR=5281.86;GTI=20;LEN=1;MEANALT=1.09524;MQM=10.5308;MQMR=11.6532;NS=21;NUMALT=1;ODDS=23.8488;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=94801;QR=86172;RO=2431;RPL=1;RPP=5872.5;RPPR=5281.86;RPR=2706;RUN=1;SAF=1;SAP=5872.5;SAR=2706;SRF=0;SRP=5281.86;SRR=2431;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:413:164,249:164:5802:249:8775:-104.963,0,-35.2865 0/1:174:96,78:96:3322:78:2739:-20.6086,0,-52.0293 0/1:183:87,96:87:3088:96:3352:-33.979,0,-25.5381 0/1:267:143,124:143:5082:124:4357:-34.1408,0,-61.9503 0/1:442:224,217:224:7989:217:7567:-64.8651,0,-81.591 0/1:554:251,303:251:8886:303:10586:-131.235,0,-97.602 0/1:322:158,164:158:5591:164:5732:-58.8938,0,-56.364 0/1:317:161,156:161:5745:156:5466:-51.7633,0,-58.744 0/1:390:168,222:168:5957:222:7734:-84.6239,0,-36.0394 0/1:35:19,16:19:661:16:566:-4.12727,0,-9.86627 0/1:20:8,12:8:288:12:412:-5.947,0,-4.19002 0/1:96:54,42:54:1932:42:1484:-11.7516,0,-21.6375 0/1:305:115,190:115:4107:190:6623:-79.1858,0,-16.5326 0/1:287:146,141:146:5207:141:4930:-45.7358,0,-58.9138 0/1:482:231,251:231:8184:251:8796:-81.1277,0,-74.7613 0/1:145:75,70:75:2638:70:2442:-19.3234,0,-28.1373 0/1:181:61,119:61:2144:119:4206:-54.8612,0,-4.69213 0/1:126:58,68:58:2040:68:2362:-32.2369,0,-24.9191 0/1:106:61,45:61:2175:45:1583:-8.72516,0,-23.0268 0/1:204:107,97:107:3778:97:3426:-38.4591,0,-49.1602 0/1:91:44,47:44:1556:47:1663:-18.9065,0,-22.5317 chr04 31427084 . T C 1413.84 PASS AB=0.469512;ABP=45.3805;AC=21;AF=0.5;AN=42;AO=2464;CIGAR=1X;DP=5248;DPB=5248;DPRA=0;EPP=5353.52;EPPR=6041.88;GTI=21;LEN=1;MEANALT=1.14286;MQM=11.9269;MQMR=10.5236;NS=21;NUMALT=1;ODDS=18.6416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87752;QR=99606;RO=2781;RPL=0;RPP=5353.52;RPPR=6033.19;RPR=2464;RUN=1;SAF=0;SAP=5353.52;SAR=2464;SRF=1;SRP=6033.19;SRR=2780;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:423:257,166:257:9224:166:5907:-35.6409,0,-109.137 0/1:179:80,99:80:2846:99:3509:-56.8202,0,-20.8769 0/1:186:103,83:103:3681:83:2960:-21.0622,0,-41.3352 0/1:269:126,143:126:4516:143:5139:-61.8774,0,-33.0334 0/1:464:225,239:225:8073:239:8530:-102.722,0,-66.3756 0/1:562:311,251:311:11130:251:8949:-95.8953,0,-136.859 0/1:326:168,158:168:6005:158:5605:-53.3444,0,-64.4785 0/1:326:163,163:163:5828:163:5786:-56.4467,0,-56.4638 0/1:396:225,170:225:8041:170:6057:-38.5585,0,-83.6231 0/1:37:18,19:18:648:19:676:-11.6421,0,-5.41681 0/1:21:13,8:13:468:8:288:-3.88899,0,-6.64347 0/1:102:44,58:44:1572:58:2056:-28.0764,0,-10.2112 0/1:311:192,119:192:6873:119:4242:-18.3167,0,-79.2556 0/1:295:147,148:147:5264:148:5287:-60.9815,0,-48.9215 0/1:489:257,231:257:9244:231:8249:-81.0182,0,-85.424 0/1:151:72,79:72:2584:79:2830:-31.4029,0,-19.3782 0/1:183:123,60:123:4416:60:2137:-5.96062,0,-60.6385 0/1:125:63,62:63:2249:62:2210:-31.2176,0,-25.9829 0/1:107:44,63:44:1584:63:2221:-26.9451,0,-7.45086 0/1:206:102,103:102:3636:103:3643:-46.1624,0,-43.1025 0/1:90:48,42:48:1724:42:1471:-18.8326,0,-20.2111 chr04 31439595 . C T 357.289 PASS AB=0.519775;ABP=16.9234;AC=21;AF=0.5;AN=42;AO=2129;CIGAR=1X;DP=4096;DPB=4096;DPRA=0;EPP=4591.4;EPPR=4248.28;GTI=21;LEN=1;MEANALT=1;MQM=11.0413;MQMR=11.0158;NS=21;NUMALT=1;ODDS=11.5362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75582;QR=69980;RO=1967;RPL=2125;RPP=4591.4;RPPR=4256.94;RPR=4;RUN=1;SAF=2121;SAP=4556.85;SAR=8;SRF=1964;SRP=4248.28;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:198:105,93:105:3721:93:3293:-31.9469,0,-43.8505 0/1:199:68,131:68:2448:131:4596:-70.1915,0,-7.80689 0/1:139:55,84:55:1971:84:3011:-40.9622,0,-12.3766 0/1:260:129,131:129:4589:131:4654:-50.3343,0,-49.0547 0/1:359:172,187:172:6107:187:6635:-75.4271,0,-61.3524 0/1:181:93,88:93:3305:88:3138:-35.2989,0,-37.6472 0/1:234:117,117:117:4200:117:4155:-45.3007,0,-46.438 0/1:147:73,74:73:2594:74:2631:-28.9264,0,-28.2919 0/1:306:136,170:136:4852:170:6033:-77.3749,0,-41.7189 0/1:17:11,6:11:392:6:216:-0.925547,0,-6.04923 0/1:19:11,8:11:392:8:284:-2.29948,0,-5.26608 0/1:104:46,58:46:1656:58:2061:-25.9385,0,-14.2904 0/1:275:138,137:138:4887:137:4855:-52.5133,0,-53.5797 0/1:160:88,72:88:3083:72:2575:-22.9523,0,-38.6752 0/1:392:206,186:206:7333:186:6640:-67.3062,0,-84.5987 0/1:250:99,151:99:3528:151:5332:-73.2593,0,-21.8068 0/1:146:65,81:65:2299:81:2885:-35.7594,0,-22.636 0/1:203:103,100:103:3664:100:3527:-38.1494,0,-41.2507 0/1:172:99,73:99:3531:73:2612:-20.5129,0,-46.212 0/1:175:79,96:79:2820:96:3410:-42.3329,0,-25.4189 0/1:160:74,86:74:2608:86:3039:-37.1423,0,-25.8894 chr04 31439607 . T C 1.67998 PASS AB=0.47999;ABP=16.741;AC=21;AF=0.5;AN=42;AO=1895;CIGAR=1X;DP=3948;DPB=3948;DPRA=0;EPP=4091.93;EPPR=4385.31;GTI=21;LEN=1;MEANALT=1.14286;MQM=11.0084;MQMR=11.041;NS=21;NUMALT=1;ODDS=1.00501;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66413;QR=69953;RO=2050;RPL=1893;RPP=4100.6;RPPR=4454.53;RPR=2;RUN=1;SAF=1892;SAP=4091.93;SAR=3;SRF=2042;SRP=4385.31;SRR=8;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:187:88,99:88:3037:99:3439:-41.1398,0,-30.2143 0/1:187:122,64:122:4095:64:2280:-7.6484,0,-64.6563 0/1:137:83,54:83:2830:54:1911:-11.9795,0,-40.4629 0/1:252:130,122:130:4419:122:4265:-44.5446,0,-51.6655 0/1:344:178,166:178:6069:166:5757:-59.8116,0,-71.1735 0/1:178:86,92:86:2964:92:3252:-37.5347,0,-33.4812 0/1:222:108,114:108:3600:114:3893:-46.7768,0,-39.8455 0/1:147:73,74:73:2473:74:2588:-29.2095,0,-27.8615 0/1:297:166,131:166:5631:131:4653:-39.3081,0,-75.1609 0/1:16:6,10:6:204:10:356:-5.1803,0,-1.22135 0/1:17:6,11:6:203:11:387:-5.86199,0,-0.91586 0/1:100:54,46:54:1845:46:1626:-15.4738,0,-23.2375 0/1:259:130,129:130:4399:129:4568:-49.3735,0,-50.2693 0/1:153:71,82:71:2412:82:2834:-34.1052,0,-23.9275 0/1:380:178,201:178:6070:201:7041:-83.3777,0,-63.0065 0/1:242:147,95:147:5078:95:3353:-20.4436,0,-71.6386 0/1:144:81,62:81:2816:62:2145:-20.434,0,-36.4552 0/1:196:98,98:98:3356:98:3445:-38.1607,0,-38.27 0/1:169:71,98:71:2487:98:3452:-46.0062,0,-19.4706 0/1:167:90,77:90:3052:77:2711:-25.8592,0,-38.7079 0/1:154:84,70:84:2913:70:2457:-23.56,0,-36.8304 chr04 31486881 . GAG AAA,GAA 39220.4 PASS AB=0.501455,0.494665;ABP=3.02926,3.26515;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1373,515;CIGAR=1X1M1X,2M1X;DP=1893;DPB=1893;DPRA=0,1.27894;EPP=2984.44,1121.32;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=1.90476,2.2;MQM=59.9527,60;MQMR=60;NS=21;NUMALT=2;ODDS=13.1743;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48027,18292;QR=36;RO=1;RPL=1373,515;RPP=2984.44,1121.32;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1373,515;SAP=2984.44,1121.32;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:122:1,55,66:1:36:55,66:1913,2349:-343.74,-188.502,-174.883,-152.592,0,-135.662 1/2:90:0,48,42:0:0:48,42:1672,1500:-258.614,-122.651,-108.202,-136.316,0,-123.672 1/2:79:0,35,44:0:0:35,44:1233,1580:-229.629,-129.246,-118.71,-100.738,0,-87.4923 1/2:135:0,72,63:0:0:72,63:2488,2237:-384.777,-182.628,-160.954,-202.499,0,-183.534 1/1:152:0,149,3:0:0:149,3:5223,108:-467.788,-44.8535,0,-458.976,-35.6814,-458.073 1/1:59:0,59,0:0:0:59,0:2074,0:-186.93,-17.7608,0,-186.93,-17.7608,-186.93 1/2:119:0,61,58:0:0:61,58:2139,2076:-343.711,-169.65,-151.287,-174.415,0,-156.955 1/2:88:0,44,42:0:0:44,42:1525,1500:-246.352,-122.406,-109.161,-124.051,0,-111.407 1/2:111:0,66,45:0:0:66,45:2304,1566:-315.087,-127.683,-107.815,-187.753,0,-174.206 1/2:7:0,3,4:0:0:3,4:106,140:-20.3747,-11.7405,-10.8374,-8.98601,0,-7.78189 1/1:7:0,7,0:0:0:7,0:235,0:-21.4784,-2.10721,0,-21.4784,-2.10721,-21.4784 1/2:31:0,16,15:0:0:16,15:558,524:-88.3567,-42.9742,-38.1577,-45.7315,0,-41.216 1/2:134:0,57,76:0:0:57,76:1993,2708:-382.836,-220.727,-203.568,-162.102,0,-139.224 1/1:102:0,101,1:0:0:101,1:3494,36:-314.318,-30.404,0,-311.381,-27.1068,-311.079 1/1:157:0,156,1:0:0:156,1:5443,21:-489.8,-46.9607,0,-488.212,-45.1618,-487.911 1/1:126:0,126,0:0:0:126,0:4437,0:-399.508,-37.9298,0,-399.508,-37.9298,-399.508 1/1:155:0,154,0:0:0:154,0:5437,0:-489.217,-46.3586,0,-489.217,-46.3586,-489.217 1/2:59:0,21,38:0:0:21,38:730,1339:-168.719,-109.37,-103.048,-59.6987,0,-48.2596 1/2:56:0,39,17:0:0:39,17:1370,608:-161.436,-49.9345,-38.1943,-111.857,0,-106.739 1/1:64:0,64,0:0:0:64,0:2249,0:-202.674,-19.2659,0,-202.674,-19.2659,-202.674 1/1:40:0,40,0:0:0:40,0:1404,0:-126.658,-12.0412,0,-126.658,-12.0412,-126.658 chr04 31512414 . AAG GAA,GAG 52925.3 PASS AB=0.555481,0.441157;ABP=42.7671,47.7321;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1868,665;CIGAR=1X1M1X,1X2M;DP=2541;DPB=2542;DPRA=0,1.85116;EPP=4059.32,1447.04;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=2.04762,2.375;MQM=59.7698,59.9023;MQMR=60;NS=21;NUMALT=2;ODDS=16.1968;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=1;QA=65873,23813;QR=34;RO=1;RPL=1868,665;RPP=4059.32,1447.04;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4059.32,1447.04;SAR=1868,665;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:121:0,61,60:0:0:61,60:2162,2148:-351.652,-175.526,-157.163,-176.483,0,-158.421 1/2:97:0,53,44:0:0:53,44:1873,1560:-279.85,-127.312,-111.358,-152.892,0,-139.646 1/2:90:0,51,39:0:0:51,39:1832,1404:-264.368,-114.919,-99.5666,-149.808,0,-138.068 1/2:122:0,73,49:0:0:73,49:2572,1752:-351.565,-143.196,-121.221,-208.724,0,-193.973 1/1:288:0,281,6:0:0:281,6:9928,216:-893.001,-84.5894,0,-875.376,-66.948,-873.57 1/1:132:1,129,1:1:34:129,1:4546,36:-405.812,-36.0782,0,-403.175,-35.8888,-405.632 1/2:176:0,80,95:0:0:80,95:2800,3395:-504.595,-276.792,-252.71,-227.796,0,-199.198 1/2:129:0,76,53:0:0:76,53:2637,1899:-369.575,-155.233,-132.355,-214.695,0,-198.74 1/2:317:0,187,127:0:0:187,127:6573,4544:-905.517,-370.585,-314.293,-534.976,0,-496.745 1/2:22:0,11,10:0:0:11,10:370,356:-59.1195,-29.1568,-25.8454,-30.0903,0,-27.08 1/1:10:0,10,0:0:0:10,0:350,0:-31.8362,-3.0103,0,-31.8362,-3.0103,-31.8362 1/2:21:0,14,7:0:0:14,7:495,247:-60.782,-20.4659,-16.2515,-40.6691,0,-38.5619 1/2:160:0,82,78:0:0:82,78:2939,2804:-468.82,-229.119,-204.434,-240.06,0,-216.58 1/1:80:0,80,0:0:0:80,0:2800,0:-251.917,-24.0824,0,-251.917,-24.0824,-251.917 1/1:147:0,146,1:0:0:146,1:5170,36:-465.071,-43.9504,0,-462.134,-40.6531,-461.833 1/1:115:0,115,0:0:0:115,0:4083,0:-367.5,-34.6185,0,-367.5,-34.6185,-367.5 1/1:94:0,94,0:0:0:94,0:3280,0:-295.401,-28.2968,0,-295.401,-28.2968,-295.401 1/2:144:0,70,74:0:0:70,74:2505,2664:-421.969,-217.711,-196.639,-204.616,0,-182.34 1/2:88:0,68,20:0:0:68,20:2357,716:-250.309,-58.7471,-38.2771,-191.917,0,-185.896 1/1:120:0,119,1:0:0:119,1:4165,36:-374.651,-35.8226,0,-371.713,-32.7353,-371.412 1/1:68:0,68,0:0:0:68,0:2436,0:-219.494,-20.47,0,-219.494,-20.47,-219.494 chr04 31514752 . GAAGAGAAGAGATGCGAGGGAT GAAAGAGAAGACATAGAGGGGGAT,GAAAGAGAAGACATGGAGGGGGAT 17654.3 PASS AB=0.529412,0.459236;ABP=10.2911,16.996;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1259,446;CIGAR=1M1I9M1X2M1I1M1X1M1X5M,1M1I9M1X3M1D2M2I5M;DP=1722;DPB=1878.32;DPRA=0,0.987781;EPP=2736.89,971.487;EPPR=0;GTI=0;LEN=24,24;MEANALT=2.42857,3;MQM=26.0508,28.3206;MQMR=0;NS=21;NUMALT=2;ODDS=12.4328;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32651,12546;QR=0;RO=0;RPL=1259,446;RPP=2736.89,971.487;RPPR=0;RPR=0,0;RUN=1,1;SAF=1259,446;SAP=2736.89,971.487;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,41,52:0:0:41,52:1095,1531:-184.183,-108.998,-96.6563,-75.4341,0,-59.7805 1/2:56:0,32,23:0:0:32,23:730,598:-88.3272,-40.6763,-31.0433,-47.6386,0,-40.7149 1/2:116:0,66,48:0:0:66,48:1764,1425:-222.44,-101.052,-81.184,-121.398,0,-106.948 1/2:64:0,42,22:0:0:42,22:1124,638:-122.567,-45.2435,-32.6002,-77.5764,0,-70.9537 1/1:179:0,178,0:0:0:178,0:4791,0:-383.514,-53.5833,0,-383.514,-53.5833,-383.514 1/1:46:0,46,0:0:0:46,0:1054,0:-82.8019,-13.8474,0,-82.8019,-13.8474,-82.8019 1/2:135:0,57,75:0:0:57,75:1309,1929:-216.4,-131.068,-113.909,-85.3062,0,-62.7289 1/2:90:0,50,39:0:0:50,39:1240,1071:-157.903,-74.6046,-59.5531,-83.2831,0,-71.543 1/2:173:0,105,68:0:0:105,68:2822,1968:-332.458,-138.503,-106.895,-194.206,0,-173.736 1/2:18:0,8,10:0:0:8,10:200,277:-32.9207,-19.5036,-17.0953,-13.6493,0,-10.639 1/1:4:0,4,0:0:0:4,0:92,0:-7.40022,-1.20412,0,-7.40022,-1.20412,-7.40022 1/2:28:0,12,15:0:0:12,15:298,413:-48.6568,-28.7046,-25.0922,-19.9351,0,-15.4197 1/2:66:0,34,30:0:0:34,30:910,893:-125.89,-63.253,-53.018,-62.6583,0,-53.6274 1/1:131:0,131,0:0:0:131,0:3506,0:-281.115,-39.4349,0,-281.115,-39.4349,-281.115 1/1:127:0,125,0:0:0:125,0:3355,0:-268.449,-37.6288,0,-268.449,-37.6288,-268.449 1/1:63:0,62,0:0:0:62,0:1652,0:-132.273,-18.6639,0,-132.273,-18.6639,-132.273 1/1:70:0,70,0:0:0:70,0:1865,0:-149.927,-21.0721,0,-149.927,-21.0721,-149.927 1/2:77:0,35,42:0:0:35,42:869,1145:-138.029,-79.6867,-69.1506,-58.5724,0,-45.9292 1/2:53:0,31,21:0:0:31,21:833,630:-101.927,-44.693,-35.3611,-57.2217,0,-50.9001 1/1:92:0,89,1:0:0:89,1:2201,28:-174.28,-26.7917,0,-172.332,-24.8458,-172.031 1/1:41:0,41,0:0:0:41,0:941,0:-73.8223,-12.3422,0,-73.8223,-12.3422,-73.8223 chr04 31532581 . T C 20575.9 PASS AB=0.451423;ABP=23.8961;AC=30;AF=0.714286;AN=42;AO=1037;CIGAR=1X;DP=1600;DPB=1600;DPRA=0;EPP=2254.83;EPPR=1223.38;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9884;MQMR=60;NS=21;NUMALT=1;ODDS=2.02014;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36992;QR=20135;RO=562;RPL=0;RPP=2254.83;RPPR=1223.38;RPR=1037;RUN=1;SAF=1037;SAP=2254.83;SAR=0;SRF=562;SRP=1223.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:70,51:70:2497:51:1824:-128.016,0,-188.557 0/1:51:42,9:42:1508:9:316:-13.4263,0,-120.662 0/1:63:35,28:35:1252:28:982:-69.7265,0,-94.0202 0/1:87:54,33:54:1944:33:1180:-80.3184,0,-149.046 1/1:98:0,98:0:0:98:3511:-316.197,-29.5009,0 1/1:62:0,62:0:0:62:2216:-199.705,-18.6639,0 0/1:95:50,45:50:1781:45:1594:-115.151,0,-131.973 0/1:93:52,41:52:1872:41:1464:-104.06,0,-140.763 0/1:173:93,80:93:3332:80:2868:-206.279,0,-248.019 0/1:21:9,12:9:324:12:428:-32.5372,0,-23.1842 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:9:6,3:6:216:3:104:-6.99354,0,-17.0812 0/1:143:64,79:64:2296:79:2816:-210.631,0,-163.854 1/1:78:1,77:1:36:77:2734:-242.703,-19.8821,0 1/1:138:2,135:2:72:135:4837:-428.645,-34.7642,0 1/1:40:0,40:0:0:40:1432:-129.178,-12.0412,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:97:56,41:56:1997:41:1451:-101.685,0,-150.802 0/1:66:28,38:28:1008:38:1343:-101.301,0,-71.1684 1/1:77:0,77:0:0:77:2748:-247.563,-23.1793,0 1/1:44:0,44:0:0:44:1568:-141.412,-13.2453,0 chr04 31532659 . T C 50398.3 PASS AB=0.642991;ABP=383.063;AC=15;AF=0.357143;AN=42;AO=2537;CIGAR=1X;DP=4580;DPB=4580;DPRA=1.70092;EPP=5494.68;EPPR=4391.66;GTI=4;LEN=1;MEANALT=1.13333;MQM=59.9913;MQMR=60;NS=21;NUMALT=1;ODDS=2.80915;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90691;QR=72284;RO=2041;RPL=2535;RPP=5494.68;RPPR=4391.66;RPR=2;RUN=1;SAF=0;SAP=5512.04;SAR=2537;SRF=0;SRP=4434.99;SRR=2041;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:164:37,127:37:1324:127:4546:-359.937,0,-70.0932 0/1:176:36,140:36:1197:140:5018:-398.783,0,-55.0383 0/1:168:60,108:60:2140:108:3849:-296.033,0,-142.295 0/1:283:126,157:126:4505:157:5595:-418.484,0,-320.425 0/0:164:163,1:163:5749:1:36:0,-45.7706,-513.929 0/0:201:200,1:200:6988:1:36:0,-56.9088,-625.394 0/1:156:77,78:77:2756:78:2796:-204.859,0,-201.262 0/1:218:104,114:104:3693:114:4083:-302.031,0,-266.949 0/1:151:63,88:63:2241:88:3137:-237.099,0,-156.497 1/1:352:8,344:8:265:344:12315:-1084.02,-81.7905,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:851:36,815:36:1266:815:29150:-2508.39,-141.938,0 0/1:271:130,141:130:4618:141:5028:-371.086,0,-334.205 0/0:163:163,0:163:5787:0:0:0,-49.0679,-520.945 0/0:283:283,0:283:10061:0:0:0,-85.1915,-905.426 0/0:72:72,0:72:2538:0:0:0,-21.6742,-228.669 0/0:102:102,0:102:3637:0:0:0,-30.7051,-327.534 0/1:450:50,400:50:1800:400:14278:-1149.32,0,-26.8187 0/1:99:76,22:76:2663:22:788:-41.4223,0,-210.092 0/0:206:206,0:206:7330:0:0:0,-62.0122,-659.752 0/0:46:46,0:46:1618:0:0:0,-13.8474,-145.905 chr04 31596276 . GAAC AAAT,AAAC 50135.8 PASS AB=0.503623,0.494203;ABP=3.16765,3.41312;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1698,687;CIGAR=1X2M1X,1X3M;DP=2392;DPB=2394;DPRA=0,1.0541;EPP=3681.49,1477.49;EPPR=11.6962;GTI=0;LEN=4,1;MEANALT=1.85714,2.06667;MQM=59.881,59.9942;MQMR=60;NS=21;NUMALT=2;ODDS=9.03863;PAIRED=0,0;PAIREDR=0;PAO=8,0;PQA=276,0;PQR=0;PRO=0;QA=60082,24556;QR=144;RO=4;RPL=1697,685;RPP=3681.49,1477.49;RPPR=11.6962;RPR=1,2;RUN=1,1;SAF=1698,687;SAP=3690.17,1494.81;SAR=0,0;SRF=4;SRP=11.6962;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:118:0,61,57:0:0:61,57:2180,2040:-343.833,-166.713,-148.35,-177.476,0,-160.317 1/2:63:0,29,34:0:0:29,34:1030,1220:-183.798,-99.8718,-91.1419,-84.2825,0,-74.0475 1/2:95:0,45,50:0:0:45,50:1571,1781:-273.3,-145.519,-131.973,-128.133,0,-113.081 1/2:173:0,86,86:0:0:86,86:3043,3088:-499.768,-251.912,-226.023,-247.866,0,-221.977 1/1:163:0,162,1:0:0:162,1:5711,36:-513.767,-48.7669,0,-510.83,-45.8228,-510.529 1/1:137:2,134,0:2:72:134,0:4724,0:-418.483,-34.4565,0,-419.085,-40.338,-424.96 1/2:167:2,85,80:2:72:85,80:3013,2866:-472.713,-227.86,-208.147,-239.577,0,-221.369 1/2:174:0,80,94:0:0:80,94:2839,3345:-504.253,-272.97,-248.888,-231.637,0,-203.341 1/2:233:0,118,115:0:0:118,115:4170,4101:-673.679,-334.297,-298.776,-339.377,0,-304.758 1/2:6:0,3,3:0:0:3,3:108,104:-17.6186,-8.79971,-7.89662,-9.17208,0,-8.26899 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:32:0,18,14:0:0:18,14:634,504:-93.0958,-41.4837,-36.0651,-51.9685,0,-47.7541 1/2:174:0,86,88:0:0:86,88:3028,3148:-503.238,-256.734,-230.845,-246.539,0,-220.048 1/1:187:0,187,0:0:0:187,0:6641,0:-597.334,-56.2926,0,-597.334,-56.2926,-597.334 1/1:194:0,193,0:0:0:193,0:6828,0:-614.293,-58.0988,0,-614.293,-58.0988,-614.293 1/1:58:0,58,0:0:0:58,0:2044,0:-184.125,-17.4597,0,-184.125,-17.4597,-184.125 1/1:77:0,77,0:0:0:77,0:2741,0:-246.572,-23.1793,0,-246.572,-23.1793,-246.572 1/2:68:0,34,34:0:0:34,34:1205,1215:-197.586,-99.4207,-89.1857,-98.5209,0,-88.2859 1/2:77:0,50,27:0:0:50,27:1775,964:-223.574,-78.949,-63.8975,-144.982,0,-136.854 1/1:132:0,129,3:0:0:129,3:4553,108:-409.58,-38.8329,0,-400.768,-29.6608,-399.865 1/1:59:0,58,1:0:0:58,1:2064,36:-185.662,-17.4597,0,-182.724,-14.1625,-182.423 chr04 31603228 . AATTTATTTC ATTC,ATTA 40866.9 PASS AB=0.508615,0.489318;ABP=3.94563,4.44847;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1699,720;CIGAR=1M6D3M,1M6D2M1X;DP=2423;DPB=969.2;DPRA=0,1.93435;EPP=3631.79,1566.47;EPPR=0;GTI=0;LEN=6,4;MEANALT=1.95238,2.25;MQM=44.5344,22.5236;MQMR=0;NS=21;NUMALT=2;ODDS=8.64119;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59408,25179;QR=0;RO=0;RPL=7,0;RPP=3631.79,1566.47;RPPR=0;RPR=1692,720;RUN=1,1;SAF=1699,720;SAP=3692.34,1566.47;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,75,55:0:0:75,55:2664,1935:-309.775,-95.9171,-73.3399,-214.137,0,-197.58 1/2:52:0,33,18:0:0:33,18:1178,635:-119.75,-26.6991,-16.7651,-93.0339,0,-87.6154 1/2:184:0,104,80:0:0:104,80:3656,2803:-433.105,-138.936,-107.629,-294.449,0,-270.366 1/2:102:0,48,54:0:0:48,54:1706,1885:-231.573,-94.3559,-79.9065,-137.51,0,-121.254 1/1:202:0,198,4:0:0:198,4:6935,141:-615.514,-59.6039,0,-608.535,-52.3948,-607.331 1/1:96:0,95,1:0:0:95,1:3293,21:-288.458,-28.5979,0,-286.916,-26.85,-286.615 1/2:183:0,85,97:0:0:85,97:2984,3383:-378.929,-143.391,-117.803,-235.542,0,-206.343 1/2:173:0,82,90:0:0:82,90:2847,3139:-368.247,-141.069,-116.385,-227.246,0,-200.153 1/2:290:0,126,164:0:0:126,164:4417,5745:-667.276,-311.491,-273.561,-356.088,0,-306.719 1/1:28:0,25,3:0:0:25,3:854,106:-75.2867,-7.52575,0,-70.5763,-2.59355,-69.6732 1/1:32:0,32,0:0:0:32,0:1128,0:-98.7168,-9.63296,0,-98.7168,-9.63296,-98.7168 1/2:58:0,33,25:0:0:33,25:1142,859:-130.508,-39.2372,-29.3032,-91.5348,0,-84.0091 1/2:123:0,61,62:0:0:61,62:2129,2151:-277.477,-106.763,-88.4003,-170.998,0,-152.334 1/1:159:0,157,1:0:0:157,1:5463,28:-486.022,-47.2617,0,-483.891,-45.15,-483.59 1/1:183:0,183,0:0:0:183,0:6401,0:-568.834,-55.0885,0,-568.834,-55.0885,-568.834 1/1:25:0,25,0:0:0:25,0:884,0:-79.3703,-7.52575,0,-79.3703,-7.52575,-79.3703 1/1:30:0,30,0:0:0:30,0:1049,0:-93.511,-9.0309,0,-93.511,-9.0309,-93.511 1/2:70:0,37,33:0:0:37,33:1311,1172:-157.017,-52.072,-40.9339,-105.219,0,-95.2853 1/2:86:0,54,32:0:0:54,32:1886,1140:-207.199,-55.9881,-39.7325,-151.482,0,-141.849 1/1:150:0,149,1:0:0:149,1:5152,36:-455.088,-44.8535,0,-453.512,-43.0679,-453.211 1/1:67:0,67,0:0:0:67,0:2329,0:-204.457,-20.169,0,-204.457,-20.169,-204.457 chr04 31603255 . AC AT,GT 44925.3 PASS AB=0.53263,0.466711;ABP=17.0397,17.6123;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1865,718;CIGAR=1M1X,2X;DP=2586;DPB=2586;DPRA=0,1.83896;EPP=4052.81,1562.13;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.80952,2.13333;MQM=44.3121,22.5292;MQMR=0;NS=21;NUMALT=2;ODDS=0.972591;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66734,25392;QR=0;RO=0;RPL=1865,718;RPP=4052.81,1562.13;RPPR=0;RPR=0,0;RUN=1,1;SAF=1865,718;SAP=4052.81,1562.13;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:142:0,86,56:0:0:86,56:3067,1998:-342.853,-98.1557,-72.2671,-244.973,0,-228.116 1/2:57:0,39,18:0:0:39,18:1387,648:-135.833,-27.0076,-15.2674,-109.069,0,-103.651 1/2:190:0,110,80:0:0:110,80:3948,2812:-456.129,-138.681,-105.568,-317.728,0,-293.645 1/2:109:0,56,53:0:0:56,53:2012,1881:-251.606,-91.9631,-75.1054,-159.929,0,-143.974 1/1:232:0,226,4:0:0:226,4:8078,144:-711.867,-68.0328,0,-704.87,-61.0199,-703.665 1/1:100:0,100,0:0:0:100,0:3591,0:-311.731,-30.103,0,-311.731,-30.103,-311.731 1/2:186:0,89,97:0:0:89,97:3182,3440:-393.854,-144.258,-117.466,-249.871,0,-220.671 1/2:180:0,90,90:0:0:90,90:3210,3194:-395.276,-141.491,-114.398,-254.062,0,-226.969 1/2:297:0,134,163:0:0:134,163:4810,5730:-696.581,-309.295,-268.957,-387.591,0,-338.523 1/1:32:0,29,3:0:0:29,3:1040,108:-91.153,-8.72987,0,-86.4355,-3.79052,-85.5324 1/1:32:0,32,0:0:0:32,0:1152,0:-99.9702,-9.63296,0,-99.9702,-9.63296,-99.9702 1/2:59:0,34,25:0:0:34,25:1215,895:-135.591,-39.6061,-29.371,-96.2524,0,-88.7267 1/2:135:0,73,61:0:0:73,61:2610,2153:-314.295,-105.318,-83.3431,-209.082,0,-190.719 1/1:179:0,177,2:0:0:177,2:6325,72:-561.807,-53.2823,0,-556.671,-47.8279,-556.069 1/1:195:0,195,0:0:0:195,0:7003,0:-617.688,-58.7009,0,-617.688,-58.7009,-617.688 1/1:27:0,27,0:0:0:27,0:972,0:-87.1784,-8.12781,0,-87.1784,-8.12781,-87.1784 1/1:33:0,33,0:0:0:33,0:1176,0:-105.089,-9.93399,0,-105.089,-9.93399,-105.089 1/2:72:0,39,33:0:0:39,33:1400,1157:-164.021,-51.904,-40.1638,-112.391,0,-102.457 1/2:90:0,58,32:0:0:58,32:2073,1124:-220.952,-55.7299,-38.2702,-165.492,0,-155.859 1/1:164:0,163,1:0:0:163,1:5817,36:-509.749,-49.0679,0,-508.173,-47.2823,-507.872 1/1:75:0,75,0:0:0:75,0:2666,0:-232.177,-22.5773,0,-232.177,-22.5773,-232.177 chr04 31607719 . AG AT,TT 37893.8 PASS AB=0.817881,0.182119;ABP=533.137,533.137;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1611,128;CIGAR=1M1X,2X;DP=1741;DPB=1741;DPRA=0,0.66468;EPP=3501.25,12.7819;EPPR=0;GTI=3;LEN=1,2;MEANALT=1.66667,2;MQM=53.9423,47.5547;MQMR=0;NS=21;NUMALT=2;ODDS=0.539239;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57616,4446;QR=0;RO=0;RPL=0,0;RPP=3501.25,280.959;RPPR=0;RPR=1611,128;RUN=1,1;SAF=1611,76;SAP=3501.25,12.7819;SAR=0,52;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,91,15:0:0:91,15:3263,519:-306.248,-41.4596,-14.0658,-265.129,0,-260.614 1/1:81:0,74,7:0:0:74,7:2656,248:-237.964,-22.2762,0,-218.238,-2.20256,-216.131 1/2:39:0,35,4:0:0:35,4:1222,142:-111.008,-11.8634,-1.32737,-99.4973,0,-98.2932 1/1:110:0,101,9:0:0:101,9:3601,324:-322.975,-30.404,0,-296.669,-3.7401,-293.96 1/1:175:0,175,0:0:0:175,0:6276,0:-563.582,-52.6803,0,-563.582,-52.6803,-563.582 1/1:131:0,130,0:0:0:130,0:4632,0:-414.201,-39.1339,0,-414.201,-39.1339,-414.201 1/2:117:0,101,16:0:0:101,16:3602,565:-337.316,-45.6218,-15.2177,-292.043,0,-287.227 1/2:47:0,42,5:0:0:42,5:1508,180:-137.49,-14.8685,-2.22526,-122.978,0,-121.473 1/2:96:0,74,22:0:0:74,22:2656,759:-277.117,-61.0674,-38.7911,-216.393,0,-209.771 1/2:8:0,7,1:0:0:7,1:248,36:-23.433,-3.26578,-1.15857,-20.5235,0,-20.2225 1/1:11:0,11,0:0:0:11,0:388,0:-35.1767,-3.31133,0,-35.1767,-3.31133,-35.1767 1/1:23:0,21,2:0:0:21,2:756,72:-67.1302,-6.32163,0,-61.3449,-0.181511,-60.7429 1/2:83:0,70,13:0:0:70,13:2508,451:-240.854,-36.8311,-15.759,-204.37,0,-200.457 1/1:97:0,97,0:0:0:97,0:3476,0:-311.044,-29.1999,0,-311.044,-29.1999,-311.044 1/1:195:0,195,0:0:0:195,0:6987,0:-627.199,-58.7009,0,-627.199,-58.7009,-627.199 1/1:84:0,84,0:0:0:84,0:2976,0:-266.964,-25.2865,0,-266.964,-25.2865,-266.964 1/1:63:0,62,0:0:0:62,0:2220,0:-199.42,-18.6639,0,-199.42,-18.6639,-199.42 1/2:52:0,34,18:0:0:34,18:1220,611:-147.442,-48.321,-38.0859,-99.4603,0,-94.0418 1/2:56:0,40,16:0:0:40,16:1434,539:-159.84,-43.8063,-31.7651,-116.374,0,-111.558 1/1:119:0,119,0:0:0:119,0:4268,0:-383.118,-35.8226,0,-383.118,-35.8226,-383.118 1/1:48:0,48,0:0:0:48,0:1719,0:-154.065,-14.4494,0,-154.065,-14.4494,-154.065 chr04 31607738 . CGAAGAT TGACGAC,TGACGAT 36827 PASS AB=0.8,0.183871;ABP=487.683,541.199;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1626,132;CIGAR=1X2M1X2M1X,1X2M1X3M;DP=1786;DPB=1786;DPRA=0,0.662975;EPP=3516.47,12.4858;EPPR=0;GTI=4;LEN=7,7;MEANALT=2.85714,3.33333;MQM=54.0037,47.9621;MQMR=0;NS=21;NUMALT=2;ODDS=2.79539;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56055,4621;QR=0;RO=0;RPL=1622,130;RPP=3499.17,272.536;RPPR=0;RPR=4,2;RUN=1,1;SAF=1624,76;SAP=3516.47,9.59052;SAR=2,56;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,91,14:0:0:91,14:3146,492:-294.661,-39.6615,-12.2678,-255.043,0,-250.829 1/1:83:0,74,7:0:0:74,7:2555,246:-229.2,-22.2762,0,-209.552,-2.61626,-207.445 1/2:40:0,36,4:0:0:36,4:1234,144:-111.666,-12.0413,-1.2042,-99.9813,0,-98.7772 1/1:112:0,99,9:0:0:99,9:3391,317:-304.572,-29.802,0,-278.878,-4.0742,-276.169 1/1:179:0,178,0:0:0:178,0:6118,0:-548.643,-53.5833,0,-548.643,-53.5833,-548.643 1/1:134:0,134,0:0:0:134,0:4632,0:-414.746,-40.338,0,-414.746,-40.338,-414.746 1/2:120:0,102,17:0:0:102,17:3450,569:-323.639,-45.6765,-14.9714,-278.002,0,-272.885 1/2:48:0,42,5:0:0:42,5:1420,179:-129.232,-14.4324,-1.78913,-114.802,0,-113.297 1/2:101:0,76,25:0:0:76,25:2593,866:-279.763,-69.7404,-46.8622,-210.364,0,-202.838 1/2:8:0,7,1:0:0:7,1:246,36:-23.2552,-3.26578,-1.15857,-20.3454,0,-20.0443 1/1:12:0,12,0:0:0:12,0:397,0:-35.956,-3.61236,0,-35.956,-3.61236,-35.956 1/1:23:0,20,2:0:0:20,2:697,72:-62.6051,-6.0206,0,-56.8188,-0.157498,-56.2167 1/2:84:0,69,13:0:0:69,13:2400,461:-232.199,-37.4394,-16.6683,-194.835,0,-190.922 1/1:101:0,100,0:0:0:100,0:3444,0:-308.318,-30.103,0,-308.318,-30.103,-308.318 1/1:198:0,197,0:0:0:197,0:6835,0:-613.872,-59.3029,0,-613.872,-59.3029,-613.872 1/1:86:0,81,0:0:0:81,0:2798,0:-251.429,-24.3834,0,-251.429,-24.3834,-251.429 1/1:67:0,65,0:0:0:65,0:2236,0:-201.068,-19.567,0,-201.068,-19.567,-201.068 1/2:55:0,34,19:0:0:34,19:1195,675:-150.78,-53.9041,-43.6691,-96.8986,0,-91.1791 1/2:56:0,39,16:0:0:39,16:1358,564:-155.383,-45.7405,-34.0003,-109.709,0,-104.893 1/1:123:0,122,0:0:0:122,0:4246,0:-380.913,-36.7257,0,-380.913,-36.7257,-380.913 1/1:48:0,48,0:0:0:48,0:1664,0:-149.312,-14.4494,0,-149.312,-14.4494,-149.312 chr04 31609118 . GGTC CGTT,TGTC 9413.72 PASS AB=0.62585,0.363946;ABP=43.4558,50.2804;AC=30,12;AF=0.714286,0.285714;AN=42;AO=380,107;CIGAR=1X2M1X,1X3M;DP=494;DPB=494;DPRA=0,1.1025;EPP=828.17,235.358;EPPR=5.18177;GTI=2;LEN=4,1;MEANALT=1.85714,2.16667;MQM=60,60;MQMR=60;NS=21;NUMALT=2;ODDS=0.35001;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=13162,3301;QR=36;RO=1;RPL=380,107;RPP=828.17,235.358;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=380,107;SAP=828.17,235.358;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:10:0,7,3:0:0:7,3:250,91:-28.0089,-7.58876,-5.48155,-20.7395,0,-19.8365 1/2:12:0,8,4:0:0:8,4:269,112:-30.9849,-9.15436,-6.74612,-22.1293,0,-20.9251 1/2:38:0,24,14:0:0:24,14:838,438:-103.694,-35.5086,-28.2839,-68.5116,0,-64.2972 1/2:27:0,13,14:0:0:13,14:451,445:-72.8176,-36.1432,-32.2298,-37.0072,0,-32.7928 1/1:23:0,23,0:0:0:23,0:813,0:-73.4918,-6.92369,0,-73.4918,-6.92369,-73.4918 1/1:17:0,17,0:0:0:17,0:599,0:-54.2387,-5.11751,0,-54.2387,-5.11751,-54.2387 1/2:20:1,12,7:1:36:12,7:418,213:-47.7845,-14.0658,-13.3978,-31.0429,0,-31.874 1/2:39:0,34,4:0:0:34,4:1167,131:-105.396,-10.6207,-0.385724,-94.815,0,-93.6109 1/2:31:0,11,20:0:0:11,20:391,622:-82.1366,-50.2577,-46.9464,-32.2185,0,-26.1979 1/2:4:0,3,1:0:0:3,1:100,32:-11.0022,-2.89828,-1.99519,-8.42721,0,-8.12618 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:16:0,10,6:0:0:10,6:344,186:-43.1984,-15.24,-12.2297,-28.2811,0,-26.4749 1/2:36:0,21,14:0:0:21,14:719,441:-93.9467,-35.5643,-29.2426,-58.4886,0,-54.2742 1/1:30:0,28,0:0:0:28,0:955,0:-85.8997,-8.42884,0,-85.8997,-8.42884,-85.8997 1/1:54:0,53,0:0:0:53,0:1823,0:-164.096,-15.9546,0,-164.096,-15.9546,-164.096 1/1:8:0,8,0:0:0:8,0:280,0:-25.539,-2.40824,0,-25.539,-2.40824,-25.539 1/1:8:0,8,0:0:0:8,0:280,0:-25.5395,-2.40824,0,-25.5395,-2.40824,-25.5395 1/2:41:0,25,16:0:0:25,16:861,468:-107.553,-37.5876,-30.0619,-70.2784,0,-65.462 1/2:20:0,16,4:0:0:16,4:549,122:-54.6823,-10.0782,-5.26177,-44.9166,0,-43.7125 1/1:40:0,40,0:0:0:40,0:1387,0:-125.125,-12.0412,0,-125.125,-12.0412,-125.125 1/1:16:0,15,0:0:0:15,0:524,0:-47.1591,-4.51545,0,-47.1591,-4.51545,-47.1591 chr04 31667834 . C A 18645 PASS AB=0.497768;ABP=3.04908;AC=30;AF=0.714286;AN=42;AO=963;CIGAR=1X;DP=1414;DPB=1414;DPRA=0;EPP=2094.14;EPPR=973.678;GTI=0;LEN=1;MEANALT=1;MQM=42.7674;MQMR=59.6851;NS=21;NUMALT=1;ODDS=3.38405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34430;QR=16117;RO=451;RPL=0;RPP=2094.14;RPPR=982.344;RPR=963;RUN=1;SAF=963;SAP=2094.14;SAR=0;SRF=450;SRP=973.678;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:75,37:75:2680:37:1324:-82.8281,0,-207.714 0/1:41:27,14:27:963:14:504:-31.8626,0,-74.6437 0/1:64:33,31:33:1188:31:1101:-77.1548,0,-87.8377 0/1:37:18,19:18:636:19:672:-47.9279,0,-46.421 1/1:151:1,150:1:36:150:5369:-467.32,-41.8573,0 1/1:32:0,32:0:0:32:1114:-97.5121,-9.63296,0 0/1:67:36,31:36:1288:31:1116:-76.7145,0,-96.0544 0/1:106:48,58:48:1720:58:2080:-151.601,0,-123.175 0/1:117:50,67:50:1788:67:2384:-175.595,0,-125.979 0/1:9:4,5:4:144:5:176:-13.2037,0,-10.6043 1/1:6:0,6:0:0:6:216:-19.1438,-1.80618,0 0/1:31:25,6:25:892:6:216:-10.0588,0,-71.2678 0/1:64:40,24:40:1419:24:860:-55.6015,0,-108.738 1/1:72:0,72:0:0:72:2554:-224.239,-21.6742,0 1/1:68:0,68:0:0:68:2440:-215.199,-20.47,0 1/1:61:0,61:0:0:61:2176:-193.386,-18.3628,0 1/1:35:0,35:0:0:35:1260:-112.083,-10.5361,0 0/1:135:64,71:64:2291:71:2556:-184.485,0,-165.765 0/1:113:30,83:30:1072:83:2976:-228.157,0,-62.7714 1/1:49:0,49:0:0:49:1756:-153.922,-14.7505,0 1/1:44:0,44:0:0:44:1580:-136.697,-13.2453,0 chr04 31667851 . G A 18758.2 PASS AB=0.498889;ABP=3.01995;AC=30;AF=0.714286;AN=42;AO=967;CIGAR=1X;DP=1419;DPB=1419;DPRA=0;EPP=2102.82;EPPR=973.678;GTI=0;LEN=1;MEANALT=1.04762;MQM=42.7632;MQMR=59.745;NS=21;NUMALT=1;ODDS=3.51965;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34618;QR=16154;RO=451;RPL=967;RPP=2102.82;RPPR=965.05;RPR=0;RUN=1;SAF=967;SAP=2102.82;SAR=0;SRF=450;SRP=973.678;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:73,37:73:2616:37:1324:-83.4302,0,-202.558 0/1:41:27,14:27:964:14:504:-31.8626,0,-74.7346 0/1:62:30,31:30:1080:31:1112:-78.2115,0,-78.7744 0/1:38:18,20:18:644:20:716:-51.5838,0,-46.8398 1/1:151:1,150:1:36:150:5373:-467.803,-41.8573,0 1/1:31:0,31:0:0:31:1116:-97.5281,-9.33193,0 0/1:69:37,32:37:1320:32:1148:-78.9452,0,-98.3305 0/1:110:51,59:51:1832:59:2112:-153.246,0,-132.046 0/1:118:52,66:52:1855:66:2368:-173.746,0,-131.704 0/1:9:4,5:4:144:5:176:-13.2037,0,-10.6043 1/1:6:0,6:0:0:6:216:-19.1438,-1.80618,0 0/1:31:25,6:25:896:6:216:-10.0588,0,-71.6284 0/1:63:38,25:38:1360:25:899:-59.3682,0,-103.733 1/1:72:0,72:0:0:72:2580:-226.607,-21.6742,0 1/1:68:0,68:0:0:68:2424:-213.805,-20.47,0 1/1:62:0,62:0:0:62:2213:-196.287,-18.6639,0 1/1:35:0,35:0:0:35:1252:-111.416,-10.5361,0 0/1:136:65,71:65:2340:71:2534:-182.365,0,-169.872 0/1:113:30,83:30:1067:83:2984:-228.796,0,-62.3201 1/1:49:0,49:0:0:49:1743:-152.913,-14.7505,0 1/1:45:0,45:0:0:45:1608:-139.23,-13.5464,0 chr04 31698056 . T C 1690.37 PASS AB=0.40404;ABP=26.7649;AC=12;AF=0.285714;AN=42;AO=121;CIGAR=1X;DP=526;DPB=526;DPRA=1.50025;EPP=265.758;EPPR=880.285;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8347;MQMR=59.9901;NS=21;NUMALT=1;ODDS=1.44788;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4306;QR=14388;RO=404;RPL=121;RPP=265.758;RPPR=880.285;RPR=0;RUN=1;SAF=121;SAP=265.758;SAR=0;SRF=404;SRP=880.285;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:23,13:23:828:13:468:-31.6226,0,-64.007 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/1:21:10,11:10:360:11:396:-29.6611,0,-26.4227 0/1:26:11,15:11:392:15:532:-40.3863,0,-27.7933 0/0:76:75,1:75:2657:1:36:0,-19.28,-235.777 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:30:24,6:24:856:6:207:-9.93599,0,-68.3302 0/1:29:13,16:13:468:16:572:-43.0836,0,-33.7298 0/1:42:29,12:29:1036:12:432:-26.5191,0,-80.852 0/1:10:6,4:6:212:4:144:-10.3033,0,-16.4145 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:6:4,2:4:140:2:68:-4.65153,0,-11.1384 0/1:24:13,11:13:468:11:383:-27.5785,0,-35.2349 0/0:21:21,0:21:743:0:0:0,-6.32163,-67.1933 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:38:20,18:20:703:18:640:-46.36,0,-52.1544 0/1:25:16,9:16:563:9:320:-21.6166,0,-43.4734 0/0:43:43,0:43:1535:0:0:0,-12.9443,-138.442 0/0:12:12,0:12:415:0:0:0,-3.61236,-37.6803 chr04 31707856 . CATCTAAGC CGTCTAAGCTAAGC,CATCTAAGCTAAGC 29374.3 PASS AB=0.58443,0.387061;ABP=59.4781,104.05;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1243,357;CIGAR=1M5I1M1X6M,3M5I6M;DP=1647;DPB=2546.22;DPRA=0,1.30674;EPP=2702.15,778.226;EPPR=18.2106;GTI=0;LEN=14,5;MEANALT=2.95238,3.26667;MQM=37.0652,50.916;MQMR=58.1429;NS=21;NUMALT=2;ODDS=4.76598;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42268,12369;QR=228;RO=7;RPL=1243,357;RPP=2702.15,778.226;RPPR=18.2106;RPR=0,0;RUN=1,1;SAF=1243,357;SAP=2702.15,778.226;SAR=0,0;SRF=7;SRP=18.2106;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:2,37,44:2:63:37,44:1279,1548:-218.398,-120.409,-114.336,-93.5484,0,-85.3691 1/2:65:0,30,34:0:0:30,34:993,1182:-168.342,-95.4439,-86.413,-72.9013,0,-62.6662 1/2:81:0,49,32:0:0:49,32:1726,1140:-226.243,-93.0626,-78.3122,-133.528,0,-123.895 1/2:103:0,67,34:0:0:67,34:2327,1145:-272.153,-92.6281,-72.4591,-179.556,0,-169.321 1/1:173:0,167,2:0:0:167,2:5738,59:-492.783,-50.272,0,-488.079,-45.5815,-487.477 1/1:69:1,66,0:1:35:66,0:2240,0:-182.029,-17.023,0,-182.33,-19.868,-185.178 1/2:97:1,53,37:1:34:53,37:1782,1286:-231.405,-101.011,-87.7962,-127.96,0,-119.562 1/2:114:1,73,36:1:32:73,36:2527,1252:-288.613,-98.8268,-79.4294,-187.527,0,-179.268 1/2:130:0,85,43:0:0:85,43:2867,1505:-344.893,-122.186,-96.5985,-222.696,0,-209.751 1/2:8:0,4,4:0:0:4,4:140,144:-22.6537,-12.0659,-10.8617,-10.9311,0,-9.727 1/1:4:0,4,0:0:0:4,0:140,0:-11.8364,-1.20412,0,-11.8364,-1.20412,-11.8364 1/2:14:0,7,7:0:0:7,7:237,239:-37.3053,-19.615,-17.5078,-18.0172,0,-15.91 1/2:91:0,44,45:0:0:44,45:1470,1546:-236.982,-124.723,-111.478,-112.301,0,-98.7545 1/1:107:0,106,0:0:0:106,0:3650,0:-314.036,-31.9092,0,-314.036,-31.9092,-314.036 1/1:98:0,96,0:0:0:96,0:3310,0:-283.453,-28.8989,0,-283.453,-28.8989,-283.453 1/1:59:0,56,0:0:0:56,0:1916,0:-166.34,-16.8577,0,-166.34,-16.8577,-166.34 1/1:49:0,48,0:0:0:48,0:1649,0:-143.308,-14.4494,0,-143.308,-14.4494,-143.308 1/2:72:2,44,24:2:64:44,24:1445,821:-167.005,-60.912,-52.8225,-101.576,0,-99.5092 1/2:54:0,40,13:0:0:40,13:1296,430:-130.972,-34.6097,-22.5685,-96.4386,0,-92.5252 1/1:104:0,102,1:0:0:102,1:3496,36:-293.88,-30.7051,0,-290.953,-27.7089,-290.652 1/1:72:0,65,1:0:0:65,1:2040,36:-167.081,-19.567,0,-164.16,-16.6414,-163.859 chr04 31757323 . ATT ATC,ATA 45169.1 PASS AB=0.536706,0.459325;ABP=14.8069,17.4954;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1411,469;CIGAR=2M1X,2M1X;DP=1887;DPB=1887;DPRA=0,1.61818;EPP=1551.22,1004.13;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.90476,2.2;MQM=59.9745,59.9318;MQMR=0;NS=21;NUMALT=2;ODDS=6.66463;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50376,16677;QR=0;RO=0;RPL=204,2;RPP=1551.22,1004.13;RPPR=0;RPR=1207,467;RUN=1,1;SAF=1411,469;SAP=3066.96,1021.43;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:104:0,59,45:0:0:59,45:2107,1589:-301.535,-129.752,-111.991,-172.138,0,-158.591 1/2:50:0,23,24:0:0:23,24:824,853:-136.587,-69.382,-62.4583,-67.2353,0,-60.0106 1/2:119:0,66,53:0:0:66,53:2356,1872:-344.881,-152.805,-132.937,-192.431,0,-176.476 1/2:71:0,37,34:0:0:37,34:1328,1208:-207.118,-98.7911,-87.653,-108.684,0,-98.4491 1/1:194:0,191,3:0:0:191,3:6826,108:-614.051,-57.4967,0,-605.239,-48.3247,-604.336 1/1:58:0,58,0:0:0:58,0:2067,0:-186.3,-17.4597,0,-186.3,-17.4597,-186.3 1/2:105:0,59,46:0:0:59,46:2094,1636:-304.294,-133.681,-115.921,-170.968,0,-157.121 1/2:142:0,62,80:0:0:62,80:2207,2856:-413.07,-233.196,-214.532,-180.231,0,-156.148 1/2:156:0,96,60:0:0:96,60:3440,2148:-456.082,-175.526,-146.627,-280.914,0,-262.852 1/2:5:0,4,1:0:0:4,1:144,32:-14.6799,-2.89828,-1.69416,-12.1095,0,-11.8085 1/1:14:0,14,0:0:0:14,0:500,0:-45.3362,-4.21442,0,-45.3362,-4.21442,-45.3362 1/2:21:0,11,10:0:0:11,10:392,356:-61.3237,-29.3709,-26.0596,-32.3087,0,-29.2984 1/2:86:0,42,44:0:0:42,44:1508,1565:-250.908,-127.894,-115.251,-123.371,0,-110.126 1/1:109:0,109,0:0:0:109,0:3894,0:-350.584,-32.8123,0,-350.584,-32.8123,-350.584 1/1:216:0,215,1:0:0:215,1:7663,32:-689.359,-64.7215,0,-686.78,-61.8232,-686.479 1/1:69:0,69,0:0:0:69,0:2468,0:-222.374,-20.7711,0,-222.374,-20.7711,-222.374 1/1:93:0,93,0:0:0:93,0:3321,0:-299.108,-27.9958,0,-299.108,-27.9958,-299.108 1/2:108:0,50,57:0:0:50,57:1750,2026:-307.578,-165.202,-150.151,-142.476,0,-125.317 1/2:41:0,32,9:0:0:32,9:1152,324:-120.794,-26.7966,-17.1636,-94.3572,0,-91.6479 1/1:95:0,91,2:0:0:91,2:3268,72:-293.985,-27.3937,0,-288.11,-21.5139,-287.508 1/1:31:0,30,0:0:0:30,0:1067,0:-95.9975,-9.0309,0,-95.9975,-9.0309,-95.9975 chr04 31758105 . TAAGC CAAGT,TAAGT 41190.6 PASS AB=0.526565,0.466793;ABP=9.47115,13.1054;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1460,498;CIGAR=1X3M1X,4M1X;DP=1974;DPB=1974;DPRA=0,1.00561;EPP=3173.36,1084.4;EPPR=5.18177;GTI=1;LEN=5,1;MEANALT=2.14286,2.3125;MQM=52.5473,59.8213;MQMR=60;NS=21;NUMALT=2;ODDS=3.72605;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51648,17855;QR=36;RO=1;RPL=0,0;RPP=3173.36,1084.4;RPPR=5.18177;RPR=1460,498;RUN=1,1;SAF=1460,498;SAP=3173.36,1084.4;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:1,79,40:1:36:79,40:2797,1432:-340.872,-113.835,-92.9906,-224.397,0,-215.294 1/2:35:0,20,15:0:0:20,15:711,532:-101.311,-43.6976,-37.677,-57.967,0,-53.4515 1/2:95:0,46,49:0:0:46,49:1610,1764:-275.029,-144.289,-130.441,-131.095,0,-116.344 1/2:105:0,61,42:0:0:61,42:2167,1504:-298.706,-122.647,-104.284,-176.055,0,-163.412 1/1:158:0,156,1:0:0:156,1:5509,36:-494.175,-46.9607,0,-491.238,-44.0161,-490.937 1/1:87:0,86,1:0:0:86,1:3048,36:-271.543,-25.8886,0,-268.605,-22.5913,-268.304 1/2:129:0,64,65:0:0:64,65:2270,2324:-373.242,-189.846,-170.58,-183.751,0,-164.184 1/2:93:0,48,45:0:0:48,45:1699,1616:-270.208,-132.175,-117.726,-138.389,0,-124.843 1/2:205:0,105,97:0:0:105,97:3721,3475:-585.836,-283.402,-251.793,-302.437,0,-273.238 1/2:19:0,7,12:0:0:7,12:252,432:-56.0958,-35.6006,-33.4934,-20.8543,0,-17.2419 1/1:13:0,13,0:0:0:13,0:462,0:-41.706,-3.91339,0,-41.706,-3.91339,-41.706 1/2:19:0,16,3:0:0:16,3:551,108:-53.7877,-9.17208,-4.3556,-44.9729,0,-44.0698 1/2:98:0,33,65:0:0:33,65:1158,2336:-284.713,-190.923,-180.989,-94.1427,0,-74.5758 1/1:144:0,137,0:0:0:137,0:4850,0:-434.929,-41.2411,0,-434.929,-41.2411,-434.929 1/1:192:0,191,0:0:0:191,0:6747,0:-605.705,-57.4967,0,-605.705,-57.4967,-605.705 1/1:56:0,56,0:0:0:56,0:2000,0:-180.073,-16.8577,0,-180.073,-16.8577,-180.073 1/1:63:0,63,0:0:0:63,0:2226,0:-200.194,-18.9649,0,-200.194,-18.9649,-200.194 1/2:79:0,33,45:0:0:33,45:1182,1616:-227.84,-131.781,-121.847,-96.2015,0,-82.6551 1/2:57:0,43,14:0:0:43,14:1514,500:-164.061,-41.1218,-28.1775,-123.295,0,-119.081 1/1:142:0,140,2:0:0:140,2:4934,72:-442.01,-42.1442,0,-436.135,-35.9095,-435.533 1/1:65:0,63,2:0:0:63,2:2240,72:-199.631,-18.9649,0,-193.756,-12.7302,-193.154 chr04 31758558 . A T 3714.84 PASS AB=0.492505;ABP=3.23814;AC=12;AF=0.285714;AN=42;AO=233;CIGAR=1X;DP=947;DPB=947;DPRA=0.96142;EPP=508.963;EPPR=1551.27;GTI=0;LEN=1;MEANALT=1;MQM=59.6223;MQMR=60;NS=21;NUMALT=1;ODDS=4.83637;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8302;QR=25571;RO=713;RPL=233;RPP=508.963;RPPR=1551.27;RPR=0;RUN=1;SAF=233;SAP=508.963;SAR=0;SRF=713;SRP=1551.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:19,24:19:684:24:856:-64.403,0,-48.946 0/1:32:20,12:20:716:12:417:-28.219,0,-55.1348 0/1:49:20,29:20:712:29:1028:-78.0793,0,-49.6562 0/1:29:14,15:14:504:15:536:-39.8449,0,-36.9682 0/0:120:118,2:118:4240:2:72:0,-29.2893,-374.944 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 0/1:63:31,32:31:1116:32:1139:-83.8161,0,-81.7868 0/1:34:17,17:17:612:17:612:-45.1784,0,-45.1784 0/1:81:42,39:42:1489:39:1401:-102.005,0,-109.919 0/1:11:5,6:5:180:6:212:-16.1135,0,-13.2407 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:26:14,12:14:500:12:428:-31.032,0,-37.5094 0/1:48:24,24:24:864:24:864:-63.6331,0,-63.6331 0/0:36:35,1:35:1256:1:36:0,-7.2388,-109.747 0/0:113:113,0:113:4034:0:0:0,-34.0164,-363.245 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/1:26:11,15:11:396:15:521:-39.3847,0,-28.156 0/1:25:20,5:20:716:5:180:-9.02631,0,-57.242 0/0:71:70,0:70:2512:0:0:0,-21.0721,-225.972 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 chr04 31758574 . A T 3790.19 PASS AB=0.496802;ABP=3.05197;AC=12;AF=0.285714;AN=42;AO=236;CIGAR=1X;DP=931;DPB=931;DPRA=0.98722;EPP=515.478;EPPR=1512.18;GTI=0;LEN=1;MEANALT=1;MQM=59.661;MQMR=60;NS=21;NUMALT=1;ODDS=4.84877;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8407;QR=24316;RO=695;RPL=236;RPP=515.478;RPPR=1512.18;RPR=0;RUN=1;SAF=236;SAP=515.478;SAR=0;SRF=695;SRP=1512.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:18,25:18:640:25:883:-66.8303,0,-44.985 0/1:33:20,13:20:684:13:464:-32.1553,0,-51.9452 0/1:49:21,28:21:701:28:991:-74.7528,0,-48.6487 0/1:30:14,16:14:492:16:572:-42.7825,0,-35.5814 0/0:115:113,2:113:3984:2:63:0,-28.6356,-352.774 0/0:45:45,0:45:1588:0:0:0,-13.5463,-143.21 0/1:65:31,34:31:1100:34:1216:-90.1254,0,-79.7433 0/1:34:17,17:17:591:17:608:-44.817,0,-43.2802 0/1:80:42,38:42:1458:38:1364:-98.9774,0,-107.428 0/1:10:4,6:4:136:6:216:-16.7802,0,-9.56524 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:25:13,12:13:464:12:428:-31.3331,0,-34.5718 0/1:49:25,24:25:880:24:855:-62.5197,0,-64.7672 0/0:34:33,1:33:1136:1:36:0,-6.63674,-98.944 0/0:110:110,0:110:3860:0:0:0,-33.1133,-347.601 0/0:33:33,0:33:1139:0:0:0,-9.93399,-102.814 0/0:35:35,0:35:1236:0:0:0,-10.536,-111.544 0/1:25:10,15:10:356:15:531:-40.5871,0,-24.8555 0/1:26:21,5:21:731:5:180:-8.72528,0,-58.2837 0/0:66:66,0:66:2288:0:0:0,-19.868,-206.182 0/0:18:18,0:18:636:0:0:0,-5.41854,-57.568 chr04 31767921 . 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AAACGTAGC TAACGTAGG,TAACTTAGG 35933.8 PASS AB=0.520983,0.466735;ABP=6.74648,12.4008;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1249,464;CIGAR=1X7M1X,1X3M1X3M1X;DP=1734;DPB=1734;DPRA=0,1.96724;EPP=2715.18,1010.57;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.42857,2.93333;MQM=59.2922,58.8922;MQMR=0;NS=21;NUMALT=2;ODDS=1.96725;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44468,16307;QR=0;RO=0;RPL=0,0;RPP=2715.18,1010.57;RPPR=0;RPR=1249,464;RUN=1,1;SAF=1249,464;SAP=2715.18,1010.57;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:107:0,57,48:0:0:57,48:2014,1694:-301.987,-137.977,-120.818,-164.042,0,-149.593 1/2:75:0,41,34:0:0:41,34:1472,1190:-216.983,-97.0069,-84.6647,-120.33,0,-110.095 1/2:115:0,72,40:0:0:72,40:2539,1414:-321.741,-115.01,-93.3357,-206.728,0,-194.687 1/2:53:0,36,17:0:0:36,17:1271,597:-152.355,-48.9407,-38.1036,-103.766,0,-98.648 1/1:211:0,204,5:0:0:204,5:7274,176:-654.233,-61.4101,0,-639.904,-47.0336,-638.399 1/1:60:0,60,0:0:0:60,0:2148,0:-193.468,-18.0618,0,-193.468,-18.0618,-193.468 1/2:139:0,58,79:0:0:58,79:2065,2797:-395.652,-227.665,-210.205,-167.986,0,-144.204 1/2:126:0,74,49:0:0:74,49:2640,1723:-355.454,-140.238,-117.961,-215.221,0,-200.471 1/2:116:0,48,68:0:0:48,68:1724,2382:-334.775,-194.134,-179.685,-140.996,0,-120.526 1/2:7:0,5,2:0:0:5,2:176,68:-20.1919,-5.85534,-4.35019,-14.6799,0,-14.0778 1/1:6:0,6,0:0:0:6,0:216,0:-19.785,-1.80618,0,-19.785,-1.80618,-19.785 1/2:33:0,18,15:0:0:18,15:635,528:-95.0414,-43.336,-37.9175,-52.0575,0,-47.5421 1/2:61:0,33,27:0:0:33,27:1184,942:-173.19,-76.6088,-66.6748,-96.5776,0,-88.4498 1/1:30:0,30,0:0:0:30,0:1067,0:-96.3412,-9.0309,0,-96.3412,-9.0309,-96.3412 1/1:158:0,151,1:0:0:151,1:5399,30:-485.496,-45.4555,0,-483.109,-43.0749,-482.808 1/1:98:0,97,0:0:0:97,0:3426,0:-308.135,-29.1999,0,-308.135,-29.1999,-308.135 1/1:95:0,93,2:0:0:93,2:3321,71:-298.678,-27.9958,0,-292.924,-21.8891,-292.322 1/2:104:0,40,63:0:0:40,63:1432,2207:-296.173,-179.481,-167.44,-116.755,0,-97.7897 1/2:41:0,27,14:0:0:27,14:954,488:-117.704,-40.0076,-31.8797,-78.0462,0,-73.8317 1/1:50:0,50,0:0:0:50,0:1770,0:-159.533,-15.0515,0,-159.533,-15.0515,-159.533 1/1:49:0,49,0:0:0:49,0:1741,0:-156.663,-14.7505,0,-156.663,-14.7505,-156.663 chr04 31920139 . 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T A 19538.2 PASS AB=0.412162;ABP=62.5204;AC=30;AF=0.714286;AN=42;AO=972;CIGAR=1X;DP=1501;DPB=1501;DPRA=0;EPP=2105;EPPR=1134.41;GTI=1;LEN=1;MEANALT=1;MQM=59.9321;MQMR=60;NS=21;NUMALT=1;ODDS=1.38077;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34779;QR=18929;RO=529;RPL=971;RPP=2105;RPPR=1143.05;RPR=1;RUN=1;SAF=0;SAP=2113.68;SAR=972;SRF=1;SRP=1143.05;SRR=528;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:34,33:34:1220:33:1172:-85.6185,0,-89.9378 0/1:61:42,19:42:1508:19:680:-43.1663,0,-117.652 0/1:62:44,18:44:1569:18:644:-39.6267,0,-122.836 0/1:40:28,12:28:1008:12:432:-27.18,0,-78.9952 1/1:189:4,185:4:144:185:6625:-582.927,-43.5811,0 1/1:33:0,33:0:0:33:1180:-106.5,-9.93399,0 0/1:137:82,55:82:2929:55:1976:-136.874,0,-222.602 0/1:71:40,31:40:1421:31:1108:-78.6579,0,-106.812 0/1:116:75,41:75:2677:41:1463:-97.0465,0,-206.254 0/1:30:11,19:11:396:19:684:-52.8594,0,-26.9518 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:42:23,19:23:813:19:684:-49.2471,0,-60.8458 0/1:53:36,17:36:1296:17:612:-39.4588,0,-100.989 1/1:61:0,61:0:0:61:2192:-197.545,-18.3628,0 1/1:124:0,124:0:0:124:4440:-399.769,-37.3277,0 1/1:40:0,40:0:0:40:1421:-128.185,-12.0412,0 1/1:64:1,63:1:36:63:2248:-198.984,-15.6676,0 0/1:161:89,72:89:3196:72:2569:-182.992,0,-239.397 0/1:48:18,30:18:644:30:1076:-82.7034,0,-43.8412 1/1:57:2,55:2:72:55:1965:-170.017,-10.322,0 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 chr04 31922037 . 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AGAAGA ATAATGA,ATGATGA 31739.6 PASS AB=0.361895,0.634073;ABP=167.35,157.894;AC=32,10;AF=0.761905,0.238095;AN=42;AO=956,638;CIGAR=1M1X2M1I2M,1M1I2M1X2M;DP=1603;DPB=1869.83;DPRA=0,1.86572;EPP=2078.94,1388.41;EPPR=5.18177;GTI=5;LEN=7,7;MEANALT=2.09524,2.46667;MQM=59.9738,59.9373;MQMR=60;NS=21;NUMALT=2;ODDS=5.48057;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33067,22029;QR=31;RO=1;RPL=0,0;RPP=2078.94,1388.41;RPPR=5.18177;RPR=956,638;RUN=1,1;SAF=0,0;SAP=2078.94,1388.41;SAR=956,638;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:168:0,40,128:0:0:40,128:1350,4425:-469.308,-359.898,-347.856,-109.749,0,-71.2173 1/1:9:0,8,1:0:0:8,1:267,24:-24.1051,-2.40824,0,-22.2566,-0.309379,-21.9556 1/2:179:0,67,111:0:0:67,111:2323,3864:-503.111,-314.323,-294.154,-188.913,0,-155.499 1/2:137:0,16,121:0:0:16,121:548,4212:-387.328,-342.845,-338.028,-44.8262,0,-8.40152 1/1:168:0,164,3:0:0:164,3:5696,101:-512.435,-49.3689,0,-504.251,-41.2026,-503.348 1/1:43:0,43,0:0:0:43,0:1496,0:-134.931,-12.9443,0,-134.931,-12.9443,-134.931 1/1:32:0,32,0:0:0:32,0:1076,0:-97.1416,-9.63296,0,-97.1416,-9.63296,-97.1416 1/2:17:0,15,2:0:0:15,2:518,72:-48.3073,-6.23466,-1.71921,-42.4307,0,-41.8287 1/2:235:0,73,161:0:0:73,161:2513,5552:-655.157,-451.053,-429.078,-204.148,0,-155.682 1/2:8:0,4,3:0:0:4,3:136,96:-18.7409,-7.70444,-6.50032,-11.0155,0,-10.1124 1/1:4:0,4,0:0:0:4,0:134,0:-12.3906,-1.20412,0,-12.3906,-1.20412,-12.3906 1/2:10:0,3,7:0:0:3,7:88,207:-23.8294,-16.815,-15.9119,-7.3083,0,-5.20109 1/2:99:0,35,63:0:0:35,63:1242,2192:-279.423,-178.226,-167.69,-101.209,0,-82.244 1/1:55:0,51,3:0:0:51,3:1747,108:-157.155,-15.3525,0,-148.342,-6.5328,-147.439 1/1:91:0,90,0:0:0:90,0:3141,0:-282.62,-27.0927,0,-282.62,-27.0927,-282.62 1/1:38:0,36,1:0:0:36,1:1263,36:-113.613,-10.8371,0,-110.675,-7.89966,-110.374 1/1:58:0,57,1:0:0:57,1:1990,35:-179.025,-17.1587,0,-176.177,-13.9611,-175.876 1/2:67:0,55,12:0:0:55,12:1896,391:-185.923,-31.8924,-15.3358,-154.359,0,-150.747 1/2:72:0,51,21:0:0:51,21:1759,714:-201.151,-58.2518,-42.8993,-143.24,0,-136.919 1/1:50:0,50,0:0:0:50,0:1737,0:-156.613,-15.0515,0,-156.613,-15.0515,-156.613 1/1:63:1,62,0:1:31:62,0:2147,0:-190.396,-15.8654,0,-190.697,-18.6639,-193.185 chr04 31965052 . T C 52496.3 PASS AB=0.77551;ABP=1166.03;AC=15;AF=0.357143;AN=42;AO=2571;CIGAR=1X;DP=3545;DPB=3545;DPRA=4.14599;EPP=5585.87;EPPR=2115.85;GTI=10;LEN=1;MEANALT=1.05556;MQM=59.9798;MQMR=59.927;NS=21;NUMALT=1;ODDS=6.36653;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91965;QR=34850;RO=973;RPL=2571;RPP=5585.87;RPPR=2115.85;RPR=0;RUN=1;SAF=0;SAP=5585.87;SAR=2571;SRF=0;SRP=2115.85;SRR=973;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:43,136:43:1528:136:4857:-383.397,0,-83.9287 1/1:89:8,81:8:288:81:2893:-234.336,-0.524263,0 0/1:184:69,115:69:2476:115:4132:-316.671,0,-166.655 0/1:143:16,127:16:572:127:4544:-366.078,0,-8.76614 0/0:171:168,3:168:6028:3:108:0,-41.401,-532.547 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/1:129:34,95:34:1220:95:3401:-267.47,0,-71.2739 0/1:169:17,151:17:612:151:5409:-436.005,0,-4.48057 0/1:238:73,165:73:2604:165:5885:-458.111,0,-162.964 1/1:430:4,426:4:144:426:15211:-1355.39,-116.129,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 1/1:690:3,687:3:108:687:24595:-2202.79,-197.636,0 0/1:104:36,68:36:1288:68:2421:-186.831,0,-84.9165 0/0:56:54,2:54:1925:2:72:0,-10.021,-166.688 0/0:89:89,0:89:3204:0:0:0,-26.7917,-288.582 0/0:38:37,1:37:1320:1:36:0,-7.84086,-115.504 0/0:56:55,1:55:1964:1:36:0,-13.2594,-173.437 0/1:544:56,488:56:2012:488:17469:-1408.07,0,-17.5928 0/1:74:51,23:51:1832:23:824:-52.2063,0,-142.885 0/0:50:49,1:49:1756:1:36:0,-11.4532,-154.726 0/0:64:63,1:63:2245:1:36:0,-15.6676,-198.706 chr04 31971744 . C A 33461.2 PASS AB=0.453168;ABP=52.0275;AC=30;AF=0.714286;AN=42;AO=3220;CIGAR=1X;DP=4635;DPB=4635;DPRA=0;EPP=6995.15;EPPR=3066.96;GTI=0;LEN=1;MEANALT=1.19048;MQM=24.8655;MQMR=47.7633;NS=21;NUMALT=1;ODDS=7.00484;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=114767;QR=50498;RO=1411;RPL=3220;RPP=6995.15;RPPR=3066.96;RPR=0;RUN=1;SAF=0;SAP=6995.15;SAR=3220;SRF=0;SRP=3066.96;SRR=1411;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:95,87:95:3393:87:3082:-116.927,0,-247.114 0/1:100:43,56:43:1540:56:2005:-98.8739,0,-108.214 0/1:89:56,33:56:2012:33:1171:-38.1304,0,-152.617 0/1:111:52,59:52:1853:59:2105:-82.4048,0,-131.182 1/1:195:1,194:1:36:194:6926:-378.03,-55.1523,0 1/1:94:0,94:0:0:94:3367:-216.781,-28.2968,0 0/1:187:99,88:99:3556:88:3152:-146.412,0,-262.79 0/1:131:69,62:69:2455:62:2197:-83.0968,0,-179.221 0/1:208:121,87:121:4344:87:3078:-171.844,0,-327.72 0/1:515:288,227:288:10304:227:8061:-295.643,0,-760.404 1/1:1213:4,1208:4:144:1208:42985:-2763.94,-352.026,0 0/1:754:409,344:409:14667:344:12293:-451.438,0,-1071.58 0/1:115:70,45:70:2516:45:1607:-53.9037,0,-189.41 1/1:78:0,78:0:0:78:2796:-155.312,-23.4803,0 1/1:143:1,142:1:32:142:5100:-277.869,-39.8608,0 1/1:114:0,114:0:0:114:4060:-304.766,-34.3174,0 1/1:125:1,124:1:36:124:4429:-331.863,-34.0315,0 0/1:169:99,69:99:3506:69:2456:-87.09,0,-259.231 0/1:12:3,9:3:104:9:324:-14.2895,0,-6.01974 1/1:89:0,89:0:0:89:3177:-175.219,-26.7917,0 1/1:11:0,11:0:0:11:396:-25.5871,-3.31133,0 chr04 31971751 . CAA TAG,TAA 66342 PASS AB=0.452736,0.544202;ABP=53.7104,47.3547;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3296,1429;CIGAR=1X1M1X,1X2M;DP=4734;DPB=4734.33;DPRA=0,3.44226;EPP=7160.18,3106.04;EPPR=9.52472;GTI=0;LEN=3,1;MEANALT=2,2.3125;MQM=24.7803,47.6669;MQMR=60;NS=21;NUMALT=2;ODDS=8.14059;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=116881,50899;QR=108;RO=3;RPL=3296,1429;RPP=7160.18,3106.04;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=7160.18,3106.04;SAR=3296,1429;SRF=0;SRP=9.52472;SRR=3;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:182:0,85,95:0:0:85,95:2998,3400:-414.774,-273.768,-248.18,-141.068,0,-112.47 1/2:99:0,55,43:0:0:55,43:1949,1544:-234.38,-125.528,-108.971,-108.915,0,-95.9702 1/2:90:0,34,56:0:0:34,56:1193,2004:-218.135,-161.865,-151.63,-56.5394,0,-39.6817 1/2:118:0,62,56:0:0:62,56:2183,2004:-263.751,-161.23,-142.566,-102.809,0,-85.9515 1/1:200:0,199,1:0:0:199,1:7097,36:-390.455,-59.905,0,-387.561,-56.6575,-387.26 1/1:93:0,93,0:0:0:93,0:3307,0:-213.205,-27.9958,0,-213.205,-27.9958,-213.205 1/2:196:1,95,100:1:36:95,100:3383,3549:-474.113,-284.866,-259.206,-186.554,0,-159.389 1/2:130:0,62,68:0:0:62,68:2216,2438:-300.521,-196.71,-178.046,-104.095,0,-83.6247 1/2:213:0,89,124:0:0:89,124:3157,4441:-575.504,-361.789,-334.997,-214.039,0,-176.712 1/2:520:0,229,290:0:0:229,290:8128,10344:-1215.53,-832.127,-763.191,-383.372,0,-296.073 1/1:1258:0,1253,4:0:0:1253,4:44308,144:-2865.55,-377.191,0,-2854.01,-365.566,-2852.81 1/2:762:1,345,416:1:36:345,416:12307,14724:-1750.94,-1178.06,-1077.15,-570.099,0,-447.808 1/2:116:0,46,69:0:0:46,69:1623,2471:-275.042,-199.226,-185.379,-75.8175,0,-55.0465 1/1:81:0,81,0:0:0:81,0:2868,0:-159.729,-24.3834,0,-159.729,-24.3834,-159.729 1/1:144:0,143,1:0:0:143,1:5090,36:-282.244,-43.0473,0,-279.333,-39.7815,-279.032 1/1:117:0,117,0:0:0:117,0:4117,0:-311.118,-35.2205,0,-311.118,-35.2205,-311.118 1/1:125:0,124,1:0:0:124,1:4412,36:-333.282,-37.3277,0,-330.345,-34.0315,-330.044 1/2:175:1,72,102:1:36:72,102:2564,3620:-405.447,-286.193,-267.457,-116.53,0,-88.7641 1/2:12:0,9,3:0:0:9,3:324,108:-23.9545,-9.08398,-6.37471,-15.1926,0,-14.2895 1/1:92:0,92,0:0:0:92,0:3271,0:-180.514,-27.6948,0,-180.514,-27.6948,-180.514 1/1:11:0,11,0:0:0:11,0:386,0:-25.4115,-3.31133,0,-25.4115,-3.31133,-25.4115 chr04 31974849 . TATTTTT CATTTTT,CAATTTC 56994.4 PASS AB=0.559887,0.435152;ABP=46.9645,54.5485;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2063,616;CIGAR=1X6M,1X1M1X3M1X;DP=2694;DPB=2693.43;DPRA=0,1.43813;EPP=4456.74,1340.64;EPPR=5.18177;GTI=1;LEN=1,7;MEANALT=2.33333,2.64286;MQM=59.9845,54.1315;MQMR=60;NS=21;NUMALT=2;ODDS=2.97151;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=73398,21742;QR=30;RO=1;RPL=2060,616;RPP=4456.74,1340.64;RPPR=5.18177;RPR=3,0;RUN=1,1;SAF=0,0;SAP=4482.76,1340.64;SAR=2063,616;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:185:0,116,69:0:0:116,69:4138,2420:-534.373,-197.044,-162.124,-337.682,0,-316.911 1/2:126:0,58,67:0:0:58,67:2061,2381:-360.674,-192.728,-175.268,-168.059,0,-147.89 1/2:103:0,53,50:0:0:53,50:1893,1774:-298.949,-144.612,-128.658,-154.692,0,-139.64 1/2:178:0,99,78:0:0:99,78:3552,2712:-509.727,-219.993,-190.191,-289.726,0,-266.246 1/1:426:0,423,1:0:0:423,1:15029,36:-1351.93,-127.336,0,-1349,-124.387,-1348.7 1/1:162:0,161,1:0:0:161,1:5722,36:-514.738,-48.4658,0,-511.808,-45.1776,-511.507 1/2:201:0,104,93:0:0:104,93:3694,3281:-566.748,-265.746,-234.439,-301.055,0,-273.059 1/2:118:0,70,48:0:0:70,48:2497,1696:-341.603,-138.048,-116.976,-203.909,0,-189.46 1/2:200:0,109,90:0:0:109,90:3870,3190:-574.673,-259.345,-226.532,-315.337,0,-288.244 1/2:13:0,9,4:0:0:9,4:324,144:-38.5277,-12.0906,-9.38135,-26.7966,0,-25.5925 1/1:7:0,7,0:0:0:7,0:237,0:-21.6591,-2.10721,0,-21.6591,-2.10721,-21.6591 1/2:29:0,22,7:0:0:22,7:775,241:-82.8651,-19.7616,-13.1389,-63.4477,0,-61.3405 1/2:156:0,93,63:0:0:93,63:3282,2223:-448.327,-181.075,-153.08,-267.604,0,-248.639 1/1:102:0,102,0:0:0:102,0:3638,0:-327.622,-30.7051,0,-327.622,-30.7051,-327.622 1/1:127:0,127,0:0:0:127,0:4507,0:-405.797,-38.2308,0,-405.797,-38.2308,-405.797 1/1:117:0,117,0:0:0:117,0:4122,0:-371.163,-35.2205,0,-371.163,-35.2205,-371.163 1/1:116:0,114,0:0:0:114,0:4075,0:-366.67,-34.3174,0,-366.67,-34.3174,-366.67 1/2:44:0,20,24:0:0:20,24:716,862:-128.935,-70.5461,-64.5255,-58.7471,0,-51.5224 1/2:58:0,37,21:0:0:37,21:1328,746:-169.426,-61.0977,-49.9595,-108.684,0,-102.362 1/1:169:1,166,0:1:30:166,0:5933,0:-531.096,-47.5615,0,-531.397,-49.971,-533.795 1/1:57:0,56,0:0:0:56,0:2005,0:-180.363,-16.8577,0,-180.363,-16.8577,-180.363 chr04 31974865 . C T 9565.55 PASS AB=0.432413;ABP=59.0736;AC=12;AF=0.285714;AN=42;AO=613;CIGAR=1X;DP=2702;DPB=2702;DPRA=1.43553;EPP=1334.12;EPPR=4528.36;GTI=1;LEN=1;MEANALT=1;MQM=54.0489;MQMR=59.966;NS=21;NUMALT=1;ODDS=2.66775;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21925;QR=74555;RO=2088;RPL=613;RPP=1334.12;RPPR=4528.36;RPR=0;RUN=1;SAF=0;SAP=1334.12;SAR=613;SRF=0;SRP=4537.04;SRR=2088;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:188:119,69:119:4235:69:2453:-164.108,0,-324.733 0/1:126:58,68:58:2057:68:2429:-178.51,0,-147.47 0/1:102:52,50:52:1853:50:1800:-131.288,0,-136.343 0/1:180:104,76:104:3721:76:2690:-187.65,0,-280.904 0/0:427:426,1:426:15246:1:36:0,-124.944,-1367.48 0/0:164:163,1:163:5813:1:36:0,-45.7797,-519.695 0/1:198:104,94:104:3709:94:3376:-242.486,0,-274.407 0/1:122:74,48:74:2652:48:1724:-118.248,0,-202.2 0/1:195:107,88:107:3810:88:3156:-224.592,0,-284.395 0/1:13:9,4:9:324:4:144:-9.38135,0,-25.5925 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:28:22,6:22:788:6:216:-11.2065,0,-62.816 0/1:157:94,63:94:3353:63:2245:-154.688,0,-254.724 0/0:103:103,0:103:3684:0:0:0,-31.0061,-331.763 0/0:129:129,0:129:4624:0:0:0,-38.8329,-416.323 0/0:119:119,0:119:4249:0:0:0,-35.8226,-382.588 0/0:115:114,0:114:4080:0:0:0,-34.3174,-367.175 0/1:44:20,24:20:697:24:864:-64.6991,0,-49.8053 0/1:60:39,21:39:1381:21:756:-50.2561,0,-106.525 0/0:168:168,0:168:5975:0:0:0,-50.573,-536.494 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.951 chr04 31974971 . T C 43583.6 PASS AB=0.587768;ABP=112.406;AC=30;AF=0.714286;AN=42;AO=2141;CIGAR=1X;DP=2820;DPB=2820;DPRA=0;EPP=4652.13;EPPR=1475.27;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9771;MQMR=60;NS=21;NUMALT=1;ODDS=16.5257;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75776;QR=24304;RO=678;RPL=2141;RPP=4652.13;RPPR=1475.27;RPR=0;RUN=1;SAF=2141;SAP=4652.13;SAR=0;SRF=678;SRP=1475.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:50,103:50:1796:103:3678:-285.165,0,-115.865 0/1:148:42,106:42:1512:106:3782:-296.026,0,-91.8222 0/1:137:69,68:69:2471:68:2427:-177.444,0,-181.402 0/1:127:60,67:60:2142:67:2350:-173.526,0,-154.816 1/1:180:1,179:1:36:179:6354:-568.331,-50.5871,0 1/1:132:0,132:0:0:132:4683:-421.63,-39.736,0 0/1:127:67,60:67:2408:60:2148:-155.357,0,-178.745 0/1:206:40,166:40:1436:166:5865:-465.582,0,-67.5255 0/1:292:154,138:154:5536:138:4862:-349.835,0,-410.461 0/1:20:8,12:8:288:12:432:-33.2006,0,-20.2468 1/1:26:0,26:0:0:26:924:-83.4771,-7.82678,0 0/1:58:26,32:26:932:32:1128:-84.3663,0,-66.7391 0/1:169:70,99:70:2504:99:3506:-264.876,0,-174.739 1/1:163:0,163:0:0:163:5695:-512.672,-49.0679,0 1/1:226:0,226:0:0:226:8041:-723.712,-68.0328,0 1/1:107:2,105:2:72:105:3740:-329.963,-25.3735,0 1/1:116:1,115:1:36:115:4070:-362.889,-31.3212,0 0/1:104:52,52:52:1855:52:1809:-131.78,0,-135.922 0/1:94:35,58:35:1244:58:2044:-156.023,0,-84.0567 1/1:187:1,186:1:36:186:6526:-583.83,-52.6943,0 1/1:48:0,48:0:0:48:1712:-154.366,-14.4494,0 chr04 31975035 . A G 8347.81 PASS AB=0.482857;ABP=5.69052;AC=12;AF=0.285714;AN=42;AO=512;CIGAR=1X;DP=1898;DPB=1898;DPRA=1.60317;EPP=1114.8;EPPR=3012.67;GTI=0;LEN=1;MEANALT=1;MQM=59.9961;MQMR=59.9747;NS=21;NUMALT=1;ODDS=11.7757;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18244;QR=49476;RO=1386;RPL=512;RPP=1114.8;RPPR=3012.67;RPR=0;RUN=1;SAF=0;SAP=1114.8;SAR=512;SRF=0;SRP=3012.67;SRR=1386;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:52,59:52:1856:59:2100:-155.855,0,-133.905 0/1:83:48,35:48:1724:35:1260:-88.72,0,-130.46 0/1:104:52,52:52:1868:52:1859:-136.282,0,-137.092 0/1:148:71,77:71:2548:77:2713:-199.861,0,-185.018 0/0:162:161,1:161:5747:1:36:0,-45.1686,-513.749 0/0:49:49,0:49:1741:0:0:0,-14.7505,-156.972 0/1:85:46,39:46:1656:39:1396:-100.352,0,-123.741 0/1:101:51,50:51:1812:50:1782:-130.259,0,-132.958 0/1:138:71,67:71:2539:67:2384:-173.276,0,-187.218 0/1:13:5,8:5:180:8:275:-21.1701,0,-12.6387 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:32:14,18:14:500:18:644:-48.6576,0,-35.7032 0/1:95:48,47:48:1707:47:1688:-123.609,0,-125.317 0/0:112:112,0:112:3983:0:0:0,-33.7154,-357.961 0/0:130:130,0:130:4619:0:0:0,-39.1339,-415.872 0/0:132:129,3:129:4604:3:108:0,-29.6608,-404.448 0/0:175:174,1:174:6209:1:36:0,-49.082,-555.309 0/1:94:51,43:51:1823:43:1535:-110.146,0,-136.054 0/1:46:34,12:34:1212:12:428:-25.0114,0,-95.5389 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 chr04 31982560 . G T 19040.8 PASS AB=0.476476;ABP=7.81188;AC=30;AF=0.714286;AN=42;AO=974;CIGAR=1X;DP=1499;DPB=1499;DPRA=0;EPP=2118.02;EPPR=1136.52;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9425;MQMR=59.9713;NS=21;NUMALT=1;ODDS=7.16631;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34535;QR=18477;RO=522;RPL=974;RPP=2118.02;RPPR=1136.52;RPR=0;RUN=1;SAF=974;SAP=2118.02;SAR=0;SRF=522;SRP=1136.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:51,43:51:1811:43:1511:-107.984,0,-134.974 0/1:49:30,19:30:1059:19:684:-47.1399,0,-80.87 0/1:64:33,31:33:1164:31:1107:-80.6742,0,-85.801 0/1:36:18,18:18:639:18:648:-47.8086,0,-47.0012 1/1:120:2,118:2:63:118:4165:-369.048,-30.1404,0 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 0/1:87:38,49:38:1345:49:1751:-131.684,0,-95.1585 0/1:110:69,41:69:2441:41:1440:-96.7798,0,-186.831 0/1:123:70,53:70:2488:53:1888:-133.172,0,-187.145 0/1:19:14,4:14:500:4:140:-7.24812,0,-39.6512 1/1:20:0,20:0:0:20:712:-64.4067,-6.0206,0 0/1:33:21,12:21:748:12:428:-28.9248,0,-57.7113 0/1:103:49,54:49:1752:54:1920:-142.071,0,-126.958 1/1:71:0,71:0:0:71:2520:-227.042,-21.3731,0 1/1:73:0,73:0:0:73:2620:-236.047,-21.9752,0 1/1:42:0,42:0:0:42:1484:-133.853,-12.6433,0 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 0/1:194:93,99:93:3261:99:3478:-255.083,0,-235.555 0/1:87:34,53:34:1206:53:1866:-142.028,0,-82.6549 1/1:63:0,63:0:0:63:2206:-198.775,-18.9649,0 1/1:43:0,43:0:0:43:1527:-137.722,-12.9443,0 chr04 31982637 . GG GA,AA 27110.6 PASS AB=0.544582,0.454047;ABP=15.5953,16.3817;AC=29,13;AF=0.690476,0.309524;AN=42;AO=922,336;CIGAR=1M1X,2X;DP=1260;DPB=1260;DPRA=12.55,1.04658;EPP=1944.77,706.8;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.65,2;MQM=59.9252,49.1548;MQMR=0;NS=21;NUMALT=2;ODDS=8.06204;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33066,11872;QR=0;RO=0;RPL=915,333;RPP=1944.77,706.8;RPPR=0;RPR=7,3;RUN=1,1;SAF=0,0;SAP=2005.11,732.625;SAR=922,336;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,36,41:0:0:36,41:1292,1459:-223.921,-118.531,-107.694,-105.747,0,-93.4045 1/2:58:0,32,26:0:0:32,26:1152,923:-168.152,-74.1485,-64.5155,-94.3572,0,-86.5304 1/2:33:0,20,13:0:0:20,13:720,457:-96.1333,-37.3823,-31.3617,-59.1048,0,-55.1914 1/2:93:0,42,50:0:0:42,50:1508,1765:-265.419,-142.401,-129.758,-123.119,0,-108.067 1/1:127:0,127,0:0:0:127,0:4568,0:-411.27,-38.2308,0,-411.27,-38.2308,-411.27 1/1:75:0,75,0:0:0:75,0:2696,0:-242.868,-22.5773,0,-242.868,-22.5773,-242.868 1/2:38:0,15,23:0:0:15,23:540,819:-110.552,-66.4881,-61.9726,-44.4211,0,-37.4974 1/2:47:0,32,15:0:0:32,15:1147,523:-135.806,-42.2483,-32.6153,-93.9066,0,-89.3911 1/2:115:0,69,46:0:0:69,46:2472,1607:-331.268,-129.742,-108.971,-201.877,0,-188.029 2/2:5:0,0,5:0:0:0,5:0,178:-16.286,-16.286,-16.286,-1.50515,-1.50515,0 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:13:0,7,6:0:0:7,6:252,210:-37.9299,-17.3619,-15.2547,-20.9217,0,-19.1156 1/2:106:0,52,54:0:0:52,54:1855,1894:-304.495,-153.272,-137.619,-151.575,0,-135.32 1/1:66:0,66,0:0:0:66,0:2356,0:-212.283,-19.868,0,-212.283,-19.868,-212.283 1/1:70:0,69,0:0:0:69,0:2472,0:-222.453,-20.7711,0,-222.453,-20.7711,-222.453 1/1:46:0,46,0:0:0:46,0:1628,0:-146.806,-13.8474,0,-146.806,-13.8474,-146.806 1/1:11:0,11,0:0:0:11,0:396,0:-35.9823,-3.31133,0,-35.9823,-3.31133,-35.9823 1/2:67:0,34,33:0:0:34,33:1224,1186:-196.027,-96.1534,-85.9183,-100.232,0,-90.298 1/2:82:0,58,24:0:0:58,24:2080,851:-239.013,-69.357,-51.8973,-170.011,0,-162.786 1/1:80:0,80,0:0:0:80,0:2876,0:-259.076,-24.0824,0,-259.076,-24.0824,-259.076 1/1:47:0,47,0:0:0:47,0:1688,0:-152.207,-14.1484,0,-152.207,-14.1484,-152.207 chr04 31987699 . AAT TAC,TAT 42714.6 PASS AB=0.506405,0.492087;ABP=3.48321,3.73194;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1418,656;CIGAR=1X1M1X,1X2M;DP=2078;DPB=2078.33;DPRA=0,1.52854;EPP=3082.16,1427.5;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.85714,2.13333;MQM=54.2228,59.6418;MQMR=0;NS=21;NUMALT=2;ODDS=1.86744;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=49995,23145;QR=0;RO=0;RPL=1418,656;RPP=3082.16,1427.5;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3082.16,1427.5;SAR=1418,656;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,49,51:0:0:49,51:1734,1812:-289.033,-147.997,-133.247,-141.389,0,-126.037 1/2:53:0,22,31:0:0:22,31:777,1116:-154.409,-91.4198,-84.7971,-63.3447,0,-54.0128 1/2:100:0,48,50:0:0:48,50:1680,1753:-278.849,-142.664,-128.215,-136.2,0,-121.149 1/2:170:0,106,64:0:0:106,64:3700,2211:-479.868,-179.963,-148.053,-300.251,0,-280.986 1/1:200:0,199,1:0:0:199,1:7015,36:-630.161,-59.905,0,-627.223,-56.6077,-626.922 1/1:116:0,116,0:0:0:116,0:4090,0:-366.402,-34.9195,0,-366.402,-34.9195,-366.402 1/2:164:0,79,85:0:0:79,85:2800,3020:-473.232,-246.392,-222.611,-227.194,0,-201.606 1/2:141:0,61,80:0:0:61,80:2154,2806:-403.101,-228.691,-210.328,-174.761,0,-150.679 1/2:183:0,83,100:0:0:83,100:2933,3543:-527.374,-288.953,-263.968,-238.774,0,-208.671 1/2:7:0,1,6:0:0:1,6:36,201:-19.5472,-16.6109,-16.3098,-3.29214,0,-1.48596 1/1:5:0,5,0:0:0:5,0:173,0:-15.8786,-1.50515,0,-15.8786,-1.50515,-15.8786 1/2:34:0,19,15:0:0:19,15:682,521:-98.1667,-42.6142,-36.8947,-55.9042,0,-51.3888 1/2:244:0,120,124:0:0:120,124:4235,4393:-702.455,-358.122,-321.998,-344.687,0,-307.359 1/1:112:0,110,0:0:0:110,0:3873,0:-347.964,-33.1133,0,-347.964,-33.1133,-347.964 1/1:132:0,132,0:0:0:132,0:4639,0:-416.243,-39.736,0,-416.243,-39.736,-416.243 1/1:28:0,28,0:0:0:28,0:980,0:-88.4892,-8.42884,0,-88.4892,-8.42884,-88.4892 1/1:27:0,26,1:0:0:26,1:914,36:-82.0609,-7.82678,0,-79.1231,-4.52954,-78.8221 1/2:58:0,31,27:0:0:31,27:1105,949:-166.931,-77.465,-68.1331,-89.8179,0,-81.6901 1/2:73:0,53,20:0:0:53,20:1898,712:-212.768,-58.3861,-42.4315,-154.738,0,-148.717 1/1:93:0,92,1:0:0:92,1:3244,36:-291.196,-27.6948,0,-288.258,-24.3975,-287.957 1/1:38:0,38,0:0:0:38,0:1333,0:-119.401,-11.4391,0,-119.401,-11.4391,-119.401 chr04 32094957 . C T 49525.7 PASS AB=0.521603;ABP=9.48393;AC=30;AF=0.714286;AN=42;AO=2329;CIGAR=1X;DP=3099;DPB=3099;DPRA=0;EPP=4930.92;EPPR=1623.33;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=10.0748;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83310;QR=27441;RO=770;RPL=2328;RPP=5051.69;RPPR=1649.09;RPR=1;RUN=1;SAF=14;SAP=4939.5;SAR=2315;SRF=3;SRP=1649.09;SRR=767;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:216:111,105:111:3967:105:3757:-273.306,0,-292.198 0/1:130:54,76:54:1917:76:2705:-204.56,0,-133.671 0/1:94:47,47:47:1684:47:1679:-123.099,0,-123.55 0/1:174:90,84:90:3221:84:2997:-217.581,0,-237.731 1/1:379:3,376:3:104:376:13436:-1199.33,-104.388,0 1/1:201:1,200:1:21:200:7091:-636.151,-58.4071,0 0/1:231:107,124:107:3824:124:4452:-331.311,0,-274.82 0/1:131:60,71:60:2119:71:2549:-190.225,0,-151.541 0/1:310:142,168:142:5073:168:6013:-447.953,0,-363.394 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:20:9,11:9:324:11:396:-29.9621,0,-23.4853 0/1:199:115,84:115:4079:84:3011:-211.316,0,-307.389 1/1:149:1,148:1:36:148:5312:-474.614,-41.2552,0 1/1:215:1,214:1:36:214:7677:-687.362,-61.1232,0 1/1:209:0,209:0:0:209:7496:-674.681,-62.9153,0 1/1:155:0,155:0:0:155:5528:-497.645,-46.6597,0 0/1:31:12,19:12:428:19:684:-52.5584,0,-29.5269 0/1:53:12,41:12:428:41:1472:-116.822,0,-22.9042 1/1:135:0,135:0:0:135:4838:-435.572,-40.6391,0 1/1:45:0,45:0:0:45:1609:-145.099,-13.5464,0 chr04 32119081 . A C 13871.8 PASS AB=0.641115;ABP=102.293;AC=30;AF=0.714286;AN=42;AO=891;CIGAR=1X;DP=1098;DPB=1098;DPRA=0;EPP=1937.79;EPPR=452.505;GTI=1;LEN=1;MEANALT=1;MQM=31.8474;MQMR=59.7343;NS=21;NUMALT=1;ODDS=5.25707;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31742;QR=7339;RO=207;RPL=0;RPP=1937.79;RPPR=452.505;RPR=891;RUN=1;SAF=0;SAP=1937.79;SAR=891;SRF=0;SRP=452.505;SRR=207;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:23,40:23:815:40:1428:-89.948,0,-54.7059 0/1:24:8,16:8:288:16:568:-35.7524,0,-19.0249 0/1:36:16,20:16:572:20:720:-43.1145,0,-40.9701 0/1:24:7,17:7:248:17:612:-40.8714,0,-15.4386 1/1:181:1,180:1:32:180:6347:-474.495,-51.6402,0 1/1:28:0,28:0:0:28:1008:-76.4585,-8.42884,0 0/1:58:13,45:13:464:45:1605:-102.727,0,-24.6369 0/1:41:18,23:18:617:23:828:-49.6574,0,-43.5077 0/1:87:31,56:31:1096:56:2012:-124.792,0,-72.7603 0/1:4:2,2:2:68:2:72:-4.45931,0,-5.25359 1/1:5:0,5:0:0:5:180:-13.7115,-1.50515,0 0/1:15:10,5:10:356:5:180:-9.19601,0,-27.8658 0/1:51:19,32:19:680:32:1135:-70.0873,0,-46.1766 1/1:68:0,68:0:0:68:2440:-183.031,-20.47,0 1/1:103:0,103:0:0:103:3674:-277.03,-31.0061,0 1/1:26:0,26:0:0:26:936:-71.164,-7.82678,0 1/1:24:0,24:0:0:24:860:-64.5607,-7.22472,0 0/1:121:48,73:48:1711:73:2585:-159.699,0,-117.849 0/1:50:11,39:11:392:39:1395:-89.4864,0,-20.5686 1/1:40:0,40:0:0:40:1417:-108.157,-12.0412,0 1/1:49:0,49:0:0:49:1740:-132.135,-14.7505,0 chr04 32119101 . AGC GGT,GGC 21123.7 PASS AB=0.632721,0.36227;ABP=94.658,101.705;AC=30,12;AF=0.714286,0.285714;AN=42;AO=918,218;CIGAR=1X1M1X,1X2M;DP=1141;DPB=1141;DPRA=0,0.783328;EPP=1768.8,3.36889;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.85714,2.23077;MQM=31.8105,59.6376;MQMR=0;NS=21;NUMALT=2;ODDS=1.65838;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31614,7761;QR=0;RO=0;RPL=27,106;RPP=1768.8,3.36889;RPPR=0;RPR=891,112;RUN=1,1;SAF=0,0;SAP=1996.42,476.391;SAR=918,218;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:67:0,42,25:0:0:42,25:1446,892:-171.427,-73.0693,-60.4261,-98.6908,0,-91.165 1/2:27:0,17,10:0:0:17,10:586,347:-67.8318,-28.4631,-23.3456,-39.6942,0,-36.6839 1/2:37:0,20,17:0:0:20,17:704,608:-97.0467,-49.9283,-43.9077,-47.4473,0,-42.3298 1/2:24:0,16,7:0:0:16,7:560,252:-59.3063,-20.5654,-15.7489,-38.7295,0,-36.6223 1/1:189:0,187,0:0:0:187,0:6421,0:-488.84,-56.2926,0,-488.84,-56.2926,-488.84 1/1:30:0,30,0:0:0:30,0:1024,0:-78.9854,-9.0309,0,-78.9854,-9.0309,-78.9854 1/2:59:0,46,13:0:0:46,13:1601,459:-145.27,-37.7298,-23.8824,-107.88,0,-103.967 1/2:42:0,23,19:0:0:23,19:795,676:-109.123,-55.4475,-48.5238,-54.0024,0,-48.2828 1/2:90:0,57,33:0:0:57,33:2006,1184:-231.536,-96.9262,-79.7674,-134.946,0,-125.012 1/2:4:0,2,2:0:0:2,2:72,72:-10.9671,-6.23466,-5.6326,-5.06137,0,-4.45931 1/1:5:0,5,0:0:0:5,0:180,0:-13.7115,-1.50515,0,-13.7115,-1.50515,-13.7115 1/2:17:0,7,10:0:0:7,10:240,360:-46.3548,-29.734,-27.6268,-16.944,0,-13.9337 1/2:53:0,32,21:0:0:32,21:1100,740:-134.788,-60.6017,-50.9688,-74.5146,0,-68.193 1/1:69:0,69,0:0:0:69,0:2351,0:-180.816,-20.7711,0,-180.816,-20.7711,-180.816 1/1:108:0,108,0:0:0:108,0:3724,0:-284.35,-32.5112,0,-284.35,-32.5112,-284.35 1/1:28:0,28,0:0:0:28,0:981,0:-75.465,-8.42884,0,-75.465,-8.42884,-75.465 1/1:24:0,24,0:0:0:24,0:815,0:-62.8456,-7.22472,0,-62.8456,-7.22472,-62.8456 1/2:126:0,75,49:0:0:75,49:2603,1743:-318.331,-142.081,-119.504,-176.262,0,-161.511 1/2:53:0,42,11:0:0:42,11:1435,392:-129.253,-32.3087,-19.6655,-97.2865,0,-93.9751 1/1:40:0,39,1:0:0:39,1:1337,36:-102.629,-11.7402,0,-99.7347,-8.49268,-99.4336 1/1:49:0,49,0:0:0:49,0:1633,0:-127.483,-14.7505,0,-127.483,-14.7505,-127.483 chr04 32119123 . GACAGC AACGGA,AACGGC 18560.8 PASS AB=0.62585,0.370748;ABP=83.9013,88.3329;AC=30,12;AF=0.714286,0.285714;AN=42;AO=894,218;CIGAR=1X2M1X1M1X,1X2M1X2M;DP=1115;DPB=1115.17;DPRA=0,0.836812;EPP=1944.31,476.391;EPPR=0;GTI=1;LEN=6,6;MEANALT=1.71429,2.16667;MQM=31.0101,59.6468;MQMR=0;NS=21;NUMALT=2;ODDS=3.7429;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=31412,7671;QR=0;RO=0;RPL=894,218;RPP=1944.31,476.391;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1944.31,476.391;SAR=894,218;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:64:0,38,25:0:0:38,25:1351,868:-160.577,-70.6037,-59.1646,-90.0008,0,-82.475 1/2:27:0,17,10:0:0:17,10:598,350:-68.6829,-28.7613,-23.6437,-40.2506,0,-37.2403 1/2:37:0,20,17:0:0:20,17:719,609:-97.5957,-50.0188,-43.9982,-47.9073,0,-42.7898 1/2:21:0,14,7:0:0:14,7:464,252:-53.0007,-20.9208,-16.7064,-32.4159,0,-30.3087 1/1:186:0,186,0:0:0:186,0:6535,0:-492.466,-55.9916,0,-492.466,-55.9916,-492.466 1/1:28:0,28,0:0:0:28,0:999,0:-74.7304,-8.42884,0,-74.7304,-8.42884,-74.7304 1/2:59:0,46,13:0:0:46,13:1616,440:-144.19,-36.009,-22.1616,-108.51,0,-104.596 1/2:43:0,23,20:0:0:23,20:815,719:-113.339,-59.0171,-52.0934,-54.6523,0,-48.6317 1/2:88:0,55,33:0:0:55,33:1933,1156:-223.236,-94.405,-77.8483,-129.16,0,-119.226 1/2:4:0,2,2:0:0:2,2:70,71:-10.8221,-6.14,-5.53794,-5.00715,0,-4.40509 1/1:5:0,5,0:0:0:5,0:172,0:-13.3831,-1.50515,0,-13.3831,-1.50515,-13.3831 1/2:17:0,7,10:0:0:7,10:245,359:-46.494,-29.6433,-27.5361,-17.1757,0,-14.1654 1/2:51:0,31,20:0:0:31,20:1089,708:-130.201,-57.9668,-48.6348,-72.5071,0,-66.4865 1/1:68:0,68,0:0:0:68,0:2395,0:-180.785,-20.47,0,-180.785,-20.47,-180.785 1/1:105:0,104,0:0:0:104,0:3663,0:-276.101,-31.3071,0,-276.101,-31.3071,-276.101 1/1:26:0,26,0:0:0:26,0:924,0:-69.7056,-7.82678,0,-69.7056,-7.82678,-69.7056 1/1:24:0,24,0:0:0:24,0:852,0:-64.3723,-7.22472,0,-64.3723,-7.22472,-64.3723 1/2:124:0,73,50:0:0:73,50:2552,1748:-313.386,-142.185,-120.21,-171.168,0,-156.117 1/2:53:0,42,11:0:0:42,11:1465,391:-130.587,-32.2184,-19.5751,-98.7114,0,-95.4001 1/1:38:0,38,0:0:0:38,0:1321,0:-100.672,-11.4391,0,-100.672,-11.4391,-100.672 1/1:47:0,47,0:0:0:47,0:1634,0:-124.344,-14.1484,0,-124.344,-14.1484,-124.344 chr04 32120979 . T A 74004.4 PASS AB=0.553846;ABP=55.3929;AC=30;AF=0.714286;AN=42;AO=2811;CIGAR=1X;DP=3747;DPB=3747;DPRA=0;EPP=6098.34;EPPR=2028.99;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.974;MQMR=59.9496;NS=21;NUMALT=1;ODDS=24.7049;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99367;QR=33000;RO=933;RPL=1190;RPP=146.509;RPPR=45.4273;RPR=1621;RUN=1;SAF=1191;SAP=145.18;SAR=1620;SRF=399;SRP=45.4273;SRR=534;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:204:96,108:96:3415:108:3832:-283.667,0,-246.155 0/1:140:51,89:51:1816:89:3094:-236.542,0,-121.577 0/1:134:60,74:60:2138:74:2617:-195.248,0,-152.349 0/1:185:100,84:100:3539:84:2949:-209.894,0,-262.97 1/1:427:1,426:1:36:426:15132:-1358.01,-124.942,0 1/1:199:0,199:0:0:199:7057:-635.195,-59.905,0 0/1:264:117,147:117:4122:147:5177:-386.601,0,-291.651 0/1:145:53,92:53:1877:92:3271:-250.962,0,-124.93 0/1:331:154,177:154:5467:177:6242:-462.233,0,-392.518 0/1:39:10,29:10:352:29:1019:-80.2811,0,-20.278 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:46:27,19:27:951:19:676:-47.3206,0,-72.0569 0/1:192:93,99:93:3256:99:3531:-260.201,0,-235.464 1/1:192:0,192:0:0:192:6775:-609.828,-57.7978,0 1/1:245:0,245:0:0:245:8646:-778.14,-73.7524,0 1/1:141:0,141:0:0:141:4981:-448.439,-42.4452,0 1/1:160:0,160:0:0:160:5689:-512.13,-48.1648,0 0/1:218:112,106:112:3947:106:3724:-269.737,0,-289.8 0/1:182:54,128:54:1908:128:4561:-355.869,0,-117.21 1/1:163:5,158:5:176:158:5592:-487.219,-32.8829,0 1/1:128:0,126:0:0:126:4374:-393.482,-37.9298,0 chr04 32120984 . G A 20881.4 PASS AB=0.455153;ABP=39.627;AC=12;AF=0.285714;AN=42;AO=960;CIGAR=1X;DP=3756;DPB=3756;DPRA=1.20857;EPP=2087.62;EPPR=6063.59;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9844;MQMR=59.9667;NS=21;NUMALT=1;ODDS=24.5564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34006;QR=98791;RO=2791;RPL=404;RPP=55.2704;RPPR=143.541;RPR=556;RUN=1;SAF=404;SAP=55.2704;SAR=556;SRF=1183;SRP=143.541;SRR=1608;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:202:104,98:104:3692:98:3454:-250.263,0,-271.675 0/1:142:90,52:90:3182:52:1830:-122.231,0,-243.857 0/1:132:73,59:73:2588:59:2102:-149.713,0,-192.412 0/1:190:81,108:81:2842:108:3824:-287.141,0,-198.803 0/0:418:417,1:417:14802:1:36:0,-122.232,-1328.33 0/0:196:195,0:195:6961:0:0:0,-58.7008,-626.325 0/1:263:146,116:146:5140:116:4118:-291.568,0,-383.514 0/1:145:88,56:88:3112:56:1984:-135.277,0,-236.752 0/1:335:175,160:175:6204:160:5711:-413.264,0,-457.429 0/1:40:30,10:30:1058:10:345:-19.3406,0,-83.4884 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:45:18,27:18:640:27:964:-73.5305,0,-44.383 0/1:200:100,100:100:3576:100:3516:-256.443,0,-261.839 0/0:191:191,0:191:6797:0:0:0,-57.4967,-611.805 0/0:243:242,0:242:8538:0:0:0,-72.8493,-768.064 0/0:139:138,1:138:4876:1:36:0,-38.2449,-435.394 0/0:159:159,0:159:5630:0:0:0,-47.8638,-506.822 0/1:219:107,112:107:3773:112:3943:-289.138,0,-273.802 0/1:183:127,56:127:4512:56:1999:-125.095,0,-351.161 0/0:169:165,4:165:5796:4:144:0,-37.5604,-508.444 0/0:132:132,0:132:4608:0:0:0,-39.736,-414.889 chr04 32121225 . G A 25677.7 PASS AB=0.490043;ABP=4.99941;AC=12;AF=0.285714;AN=42;AO=1147;CIGAR=1X;DP=3916;DPB=3916;DPRA=2.07298;EPP=2485.01;EPPR=6009.3;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9651;MQMR=59.9989;NS=21;NUMALT=1;ODDS=13.3852;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40795;QR=98054;RO=2766;RPL=615;RPP=16.0524;RPPR=15.0814;RPR=532;RUN=1;SAF=616;SAP=16.6885;SAR=531;SRF=1445;SRP=15.0814;SRR=1321;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:86,75:86:3084:75:2688:-193.696,0,-229.322 0/1:132:61,71:61:2180:71:2501:-185.591,0,-156.73 0/1:164:85,79:85:3041:79:2823:-204.94,0,-224.549 0/1:334:151,182:151:5317:182:6480:-482.82,0,-378.214 0/0:285:281,4:281:9934:4:136:0,-73.218,-881.437 0/0:95:95,0:95:3400:0:0:0,-28.5978,-306.215 0/1:148:86,62:86:3032:62:2205:-154.159,0,-228.553 0/1:206:77,129:77:2672:129:4609:-352.957,0,-178.71 0/1:296:151,145:151:5367:145:5176:-376.877,0,-394.059 0/1:35:16,19:16:576:19:665:-49.6367,0,-41.6389 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:90:47,43:47:1676:43:1539:-111.71,0,-124.034 0/1:296:147,149:147:5241:149:5250:-383.536,0,-382.723 0/0:256:253,1:253:8977:1:36:0,-73.2232,-804.317 0/0:330:329,1:329:11664:1:36:0,-95.7416,-1046.04 0/0:148:148,0:148:5225:0:0:0,-44.5524,-470.389 0/0:177:177,0:177:6232:0:0:0,-53.2823,-560.979 0/1:209:99,110:99:3535:110:3929:-290.887,0,-255.444 0/1:239:171,68:171:6038:68:2406:-144.85,0,-471.582 0/0:222:213,9:213:7581:9:316:0,-38.0498,-653.555 0/0:82:82,0:82:2890:0:0:0,-24.6845,-260.335 chr04 32172982 . A G 45448.8 PASS AB=0.545878;ABP=30.506;AC=30;AF=0.714286;AN=42;AO=2176;CIGAR=1X;DP=2866;DPB=2866;DPRA=0;EPP=4728.13;EPPR=1499.15;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9931;MQMR=59.9855;NS=21;NUMALT=1;ODDS=8.07601;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77775;QR=24704;RO=689;RPL=0;RPP=4728.13;RPPR=1499.15;RPR=2176;RUN=1;SAF=2176;SAP=4728.13;SAR=0;SRF=689;SRP=1499.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:55,91:55:1972:91:3241:-247.96,0,-133.804 0/1:120:63,57:63:2260:57:2044:-148.108,0,-167.539 0/1:158:88,70:88:3164:70:2512:-178.769,0,-237.421 0/1:168:78,90:78:2808:90:3224:-239.808,0,-202.372 1/1:252:3,249:3:108:249:8882:-789.29,-65.7844,0 1/1:79:0,79:0:0:79:2840:-255.838,-23.7814,0 0/1:234:117,117:117:4193:117:4138:-302.162,0,-307.108 0/1:148:64,84:64:2300:84:3005:-226.127,0,-162.708 0/1:162:49,113:49:1764:113:4041:-315.109,0,-110.277 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.974 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:19:13,6:13:453:6:216:-14.0709,0,-35.3801 0/1:114:55,59:55:1976:59:2086:-153.66,0,-143.797 1/1:176:0,176:0:0:176:6281:-565.384,-52.9813,0 1/1:271:1,270:1:21:270:9679:-868.957,-79.4792,0 1/1:152:1,151:1:36:151:5412:-483.611,-42.1583,0 1/1:216:1,215:1:36:215:7686:-688.175,-61.4242,0 0/1:141:66,75:66:2353:75:2677:-198.728,0,-169.582 0/1:78:29,49:29:1044:49:1755:-134.753,0,-70.7945 1/1:142:0,141:0:0:141:5040:-453.385,-42.4452,0 1/1:65:0,65:0:0:65:2336:-210.499,-19.567,0 chr04 32184076 . G T 7662.1 PASS AB=0.498378;ABP=3.03143;AC=12;AF=0.285714;AN=42;AO=465;CIGAR=1X;DP=1849;DPB=1849;DPRA=0.954579;EPP=1012.74;EPPR=3008.33;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=15.3898;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16587;QR=48744;RO=1384;RPL=0;RPP=1012.74;RPPR=3008.33;RPR=465;RUN=1;SAF=0;SAP=1012.74;SAR=465;SRF=0;SRP=3008.33;SRR=1384;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:57,73:57:1980:73:2594:-194.574,0,-139.336 0/1:90:42,48:42:1484:48:1712:-127.273,0,-106.762 0/1:70:33,37:33:1180:37:1308:-96.9494,0,-85.4359 0/1:82:45,37:45:1568:37:1328:-95.1378,0,-116.723 0/0:169:167,2:167:5818:2:72:0,-44.0373,-516.905 0/0:116:115,1:115:4033:1:36:0,-31.3212,-359.566 0/1:129:61,68:61:2160:68:2424:-179.583,0,-155.832 0/1:75:38,37:38:1347:37:1324:-96.8848,0,-98.9522 0/1:106:55,51:55:1955:51:1832:-133.252,0,-144.316 0/1:11:3,8:3:108:8:284:-22.592,0,-6.76384 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:19:12,7:12:419:7:248:-16.9446,0,-32.3231 0/1:88:44,44:44:1565:44:1576:-115.641,0,-114.649 0/0:107:107,0:107:3819:0:0:0,-32.2102,-343.908 0/0:156:156,0:156:5527:0:0:0,-46.9607,-497.559 0/0:139:139,0:139:4897:0:0:0,-41.8432,-440.884 0/0:93:92,1:92:3264:1:36:0,-24.3975,-290.385 0/1:64:37,27:37:1312:27:957:-67.1788,0,-99.1157 0/1:61:37,24:37:1299:24:856:-58.9977,0,-98.8476 0/0:88:88,0:88:3067:0:0:0,-26.4906,-276.259 0/0:52:52,0:52:1798:0:0:0,-15.6536,-162.098 chr04 32184096 . T A 7674.65 PASS AB=0.48431;ABP=5.05457;AC=12;AF=0.285714;AN=42;AO=467;CIGAR=1X;DP=1933;DPB=1933;DPRA=0.944696;EPP=1008.42;EPPR=3143.11;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9993;NS=21;NUMALT=1;ODDS=14.2333;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16686;QR=52435;RO=1466;RPL=466;RPP=1008.42;RPPR=3143.11;RPR=1;RUN=1;SAF=0;SAP=1017.09;SAR=467;SRF=0;SRP=3186.39;SRR=1466;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:62,74:62:2190:74:2644:-197.266,0,-156.423 0/1:91:44,47:44:1584:47:1692:-125.173,0,-115.458 0/1:73:36,37:36:1296:37:1317:-96.8546,0,-94.9687 0/1:86:49,37:49:1745:37:1305:-91.8603,0,-131.444 0/0:182:180,2:180:6441:2:72:0,-47.9507,-572.939 0/0:122:121,1:121:4333:1:36:0,-33.1274,-386.545 0/1:131:64,67:64:2296:67:2377:-174.751,0,-167.466 0/1:80:41,39:41:1457:39:1400:-102.217,0,-107.342 0/1:111:59,52:59:2108:52:1859:-134.175,0,-156.575 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:21:14,7:14:500:7:252:-16.7073,0,-39.0145 0/1:89:44,45:44:1576:45:1616:-118.938,0,-115.34 0/0:111:111,0:111:3981:0:0:0,-33.4143,-358.478 0/0:165:165,0:165:5874:0:0:0,-49.6699,-528.771 0/0:147:147,0:147:5272:0:0:0,-44.2514,-474.615 0/0:98:97,1:97:3465:1:36:0,-25.9027,-308.462 0/1:65:39,26:39:1396:26:932:-64.6319,0,-106.372 0/1:62:38,24:38:1368:24:860:-59.058,0,-104.757 0/0:93:93,0:93:3325:0:0:0,-27.9958,-299.466 0/0:55:55,0:55:1976:0:0:0,-16.5566,-178.115 chr04 32220954 . G C 6317.28 PASS AB=0.332051;ABP=385.212;AC=12;AF=0.285714;AN=42;AO=522;CIGAR=1X;DP=3215;DPB=3215;DPRA=1.06136;EPP=1136.52;EPPR=5839.93;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.8391;MQMR=46.6471;NS=21;NUMALT=1;ODDS=2.29633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18414;QR=95686;RO=2692;RPL=522;RPP=1136.52;RPPR=43.4842;RPR=0;RUN=1;SAF=522;SAP=1136.52;SAR=0;SRF=1457;SRP=42.7647;SRR=1235;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:90,46:90:3224:46:1609:-104.145,0,-224.912 0/1:155:113,42:113:4038:42:1491:-87.8241,0,-279.231 0/1:104:69,35:69:2468:35:1239:-80.5065,0,-179.963 0/1:160:113,47:113:4038:47:1665:-101.971,0,-297.683 0/0:453:451,2:451:16058:2:68:0,-129.94,-1322.06 0/0:169:169,0:169:6031:0:0:0,-50.8741,-505.638 0/1:204:133,71:133:4687:71:2501:-163.932,0,-325.447 0/1:40:21,19:21:743:19:676:-49.1268,0,-47.7647 0/1:322:227,94:227:7995:94:3296:-199.995,0,-583.228 0/1:25:14,11:14:496:11:396:-28.457,0,-34.809 0/0:10:10,0:10:351:0:0:0,-3.0103,-25.4203 0/1:32:20,12:20:707:12:432:-29.5882,0,-50.4149 0/1:191:121,70:121:4284:70:2487:-166.48,0,-301.482 0/0:189:188,1:188:6637:1:36:0,-53.2964,-547.924 0/0:148:148,0:148:5274:0:0:0,-44.5524,-421.25 0/0:174:174,0:174:6168:0:0:0,-52.3792,-529.935 0/0:133:132,1:132:4720:1:36:0,-36.4387,-405.759 0/1:95:50,45:50:1783:45:1574:-113.351,0,-110.233 0/1:96:70,26:70:2472:26:908:-53.1364,0,-172.806 0/0:269:269,0:269:9578:0:0:0,-80.9771,-770.956 0/0:110:110,0:110:3934:0:0:0,-33.1133,-311.845 chr04 32236865 . A T 17845.1 PASS AB=0.635144;ABP=251.278;AC=12;AF=0.285714;AN=42;AO=1002;CIGAR=1X;DP=2361;DPB=2361;DPRA=1.61795;EPP=2178.83;EPPR=2954.04;GTI=1;LEN=1;MEANALT=1;MQM=59.993;MQMR=59.9728;NS=21;NUMALT=1;ODDS=5.78778;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35906;QR=48503;RO=1359;RPL=0;RPP=2178.83;RPPR=2954.04;RPR=1002;RUN=1;SAF=0;SAP=2178.83;SAR=1002;SRF=0;SRP=2954.04;SRR=1359;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:251:79,172:79:2818:172:6175:-480.286,0,-178.3 0/1:138:45,93:45:1616:93:3329:-258.284,0,-104.188 0/1:166:35,131:35:1260:131:4684:-371.748,0,-63.7345 0/1:129:50,79:50:1792:79:2840:-217.005,0,-122.73 0/0:186:182,4:182:6494:4:144:0,-42.678,-571.23 0/0:99:99,0:99:3526:0:0:0,-29.802,-317.547 0/1:187:87,100:87:3112:100:3596:-267.552,0,-223.945 0/1:128:41,87:41:1450:87:3120:-242.494,0,-92.2626 0/1:233:86,147:86:3084:147:5257:-403.122,0,-207.648 0/1:46:17,29:17:612:29:1025:-78.7133,0,-41.5661 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:47:13,34:13:468:34:1216:-95.5982,0,-28.3112 0/1:150:54,96:54:1932:96:3444:-265.018,0,-129.002 0/0:116:116,0:116:4136:0:0:0,-34.9195,-372.396 0/0:119:119,0:119:4235:0:0:0,-35.8226,-381.329 0/0:75:75,0:75:2687:0:0:0,-22.5772,-242.074 0/0:59:58,1:58:2060:1:36:0,-14.1625,-182.07 0/1:49:32,17:32:1130:17:612:-40.663,0,-87.2565 0/1:41:32,9:32:1116:9:320:-16.8001,0,-88.4014 0/0:83:80,3:80:2855:3:108:0,-14.9103,-247.112 0/0:42:42,0:42:1512:0:0:0,-12.6433,-136.375 chr04 32255005 . T G 48785.2 PASS AB=0.457912;ABP=39.5671;AC=30;AF=0.714286;AN=42;AO=2399;CIGAR=1X;DP=3692;DPB=3692;DPRA=0;EPP=1982.99;EPPR=1302.6;GTI=0;LEN=1;MEANALT=1.04762;MQM=34.1367;MQMR=43.7808;NS=21;NUMALT=1;ODDS=14.8545;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85551;QR=46258;RO=1291;RPL=18;RPP=5057.2;RPPR=2626.94;RPR=2381;RUN=1;SAF=1957;SAP=2080.55;SAR=442;SRF=1106;SRP=1429.76;SRR=185;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:67,88:67:2392:88:3117:-192.723,0,-148.435 0/1:85:48,37:48:1720:37:1317:-81.7007,0,-126.777 0/1:63:33,30:33:1169:30:1072:-62.7499,0,-79.2645 0/1:146:75,71:75:2677:71:2540:-149.29,0,-187.36 1/1:253:1,252:1:36:252:8989:-681.099,-72.6121,0 1/1:93:0,93:0:0:93:3340:-271.973,-27.9958,0 0/1:111:54,57:54:1944:57:2052:-133.994,0,-139.206 0/1:80:48,32:48:1715:32:1129:-67.9396,0,-128.911 0/1:211:116,95:116:4139:95:3349:-191.734,0,-280.538 0/1:392:238,154:238:8568:154:5528:-332.14,0,-641.845 1/1:376:1,375:1:36:375:13383:-1088.79,-109.62,0 0/1:582:313,267:313:11229:267:9561:-601.561,0,-820.467 0/1:150:98,52:98:3500:52:1848:-92.8983,0,-244.861 1/1:108:0,108:0:0:108:3860:-292.93,-32.5112,0 1/1:177:2,175:2:72:175:6217:-454.629,-46.5401,0 1/1:110:0,110:0:0:110:3905:-308.716,-33.1133,0 1/1:90:0,90:0:0:90:3158:-245.585,-27.0927,0 0/1:320:162,158:162:5820:158:5661:-363.723,0,-420.07 0/1:81:34,47:34:1205:47:1664:-101.124,0,-73.3846 1/1:58:1,57:1:36:57:2029:-163.157,-13.9011,0 1/1:51:0,51:0:0:51:1832:-149.346,-15.3525,0 chr04 32255029 . TGACT TGATC,CGACC 86269.8 PASS AB=0.484143,0.51104;ABP=8.45075,5.64727;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2656,1277;CIGAR=3M2X,1X3M1X;DP=3950;DPB=3952;DPRA=0,1.33817;EPP=5770.44,2775.98;EPPR=0;GTI=0;LEN=2,5;MEANALT=2.47619,2.93333;MQM=32.6683,43.5521;MQMR=0;NS=21;NUMALT=2;ODDS=51.7423;PAIRED=0,0;PAIREDR=0;PAO=0.5,0;PQA=18,0;PQR=18;PRO=0.5;QA=94180,44240;QR=0;RO=0;RPL=1900,1094;RPP=1073,1414.25;RPPR=0;RPR=756,183;RUN=1,1;SAF=1900,1094;SAP=1073,1414.25;SAR=756,183;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:155:0,87,68:0:0:87,68:3054,2374:-380.567,-173.989,-147.799,-206.886,0,-186.416 1/2:115:0,67,47:0:0:67,47:2390,1615:-280.871,-128.948,-108.779,-151.888,0,-137.739 1/2:63:0,29,34:0:0:29,34:1029,1164:-157.436,-88.7146,-79.9847,-69.0299,0,-58.7949 1/2:145:0,69,73:0:0:69,73:2447,2525:-361.008,-196.299,-175.527,-164.72,0,-142.744 1/1:253:0,250,1:0:0:250,1:8830,36:-669.765,-75.2575,0,-666.872,-72.3316,-666.571 1/1:147:0,147,0:0:0:147,0:5185,0:-391.32,-44.2514,0,-391.32,-44.2514,-391.32 1/2:160:0,107,53:0:0:107,53:3800,1837:-393.606,-147.631,-115.421,-246.3,0,-230.345 1/2:98:0,50,48:0:0:50,48:1751,1653:-253.179,-133.24,-118.189,-120.26,0,-105.81 1/2:213:0,99,113:0:0:99,113:3519,3925:-528.31,-292.01,-262.208,-236.348,0,-202.332 1/2:382:0,145,233:0:0:145,233:5163,8071:-1021.18,-647.054,-603.404,-374.158,0,-304.018 1/1:361:0,360,0:0:0:360,0:12798,0:-1041.88,-108.371,0,-1041.88,-108.371,-1041.88 1/2:582:0,268,312:0:0:268,312:9502,10837:-1558.7,-868.98,-788.304,-689.748,0,-595.826 1/2:155:0,53,102:0:0:53,102:1879,3539:-387.633,-264.241,-248.286,-123.694,0,-92.9893 1/1:109:0,108,0:0:0:108,0:3817,0:-287.906,-32.5112,0,-287.906,-32.5112,-287.906 1/1:184:0,181,2:0:0:181,2:6426,72:-474.083,-54.4864,0,-468.297,-48.6712,-467.695 1/1:113:0,113,0:0:0:113,0:3995,0:-315.085,-34.0164,0,-315.085,-34.0164,-315.085 1/1:91:0,91,0:0:0:91,0:3230,0:-248.297,-27.3937,0,-248.297,-27.3937,-248.297 1/2:339:0,182,156:0:0:182,156:6468,5392:-892.462,-431.945,-377.158,-460.525,0,-413.565 1/2:84:0,50,34:0:0:50,34:1783,1164:-202.303,-84.5745,-69.523,-118.032,0,-107.797 1/1:113:0,112,1:0:0:112,1:3976,36:-297.618,-33.7154,0,-294.716,-30.4578,-294.415 1/1:88:0,88,0:0:0:88,0:3138,0:-231.445,-26.4906,0,-231.445,-26.4906,-231.445 chr04 32255038 . AA TG,TA 86127 PASS AB=0.486607,0.511364;ABP=6.84915,5.77399;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2645,1265;CIGAR=2X,1X1M;DP=3918;DPB=3918;DPRA=0,1.32789;EPP=1064.34,1378.03;EPPR=7.35324;GTI=0;LEN=2,1;MEANALT=2,2.26667;MQM=32.6514,43.453;MQMR=54;NS=21;NUMALT=2;ODDS=51.7168;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=93343,44144;QR=50;RO=2;RPL=2645,1265;RPP=5746.55,2749.92;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=1891,1080;SAP=1064.34,1378.03;SAR=754,185;SRF=2;SRP=7.35324;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:154:0,85,68:0:0:85,68:3006,2235:-372.306,-169.823,-144.235,-202.514,0,-182.044 1/2:113:0,68,45:0:0:68,45:2398,1591:-280.848,-127.687,-107.217,-153.483,0,-139.937 1/2:62:0,29,33:0:0:29,33:1027,1109:-154.997,-86.0474,-77.3175,-69.2588,0,-59.3248 1/2:141:0,69,71:0:0:69,71:2431,2475:-359.543,-195.103,-174.331,-164.512,0,-143.139 1/1:251:0,249,1:0:0:249,1:8807,36:-667.344,-74.9565,0,-664.451,-72.0648,-664.15 1/1:147:0,147,0:0:0:147,0:5231,0:-393.225,-44.2514,0,-393.225,-44.2514,-393.225 1/2:159:0,108,51:0:0:108,51:3822,1825:-395.455,-147.027,-114.516,-248.761,0,-233.408 1/2:97:0,48,48:0:0:48,48:1685,1692:-250.257,-135.961,-121.511,-114.268,0,-99.819 1/2:213:0,99,114:0:0:99,114:3493,3872:-529.864,-295.07,-265.268,-235.102,0,-200.785 1/2:374:1,144,229:1:25:144,229:5115,8162:-1024.67,-653.505,-612.104,-369.598,0,-302.609 1/1:360:0,360,0:0:0:360,0:12653,0:-1033.57,-108.371,0,-1033.57,-108.371,-1033.57 1/2:579:0,267,312:0:0:267,312:9371,11096:-1572.89,-891.318,-810.943,-681.909,0,-587.988 1/2:154:1,53,100:1:25:53,100:1882,3354:-378.51,-255.7,-241.693,-121.213,0,-93.0584 1/1:109:0,108,0:0:0:108,0:3792,0:-286.981,-32.5112,0,-286.981,-32.5112,-286.981 1/1:183:0,181,2:0:0:181,2:6418,72:-472.437,-54.4864,0,-466.651,-48.3463,-466.049 1/1:113:0,112,0:0:0:112,0:3973,0:-313.326,-33.7154,0,-313.326,-33.7154,-313.326 1/1:91:0,91,0:0:0:91,0:3183,0:-246.216,-27.3937,0,-246.216,-27.3937,-246.216 1/2:334:0,179,155:0:0:179,155:6266,5463:-885.702,-438.883,-384.999,-447.15,0,-400.49 1/2:84:0,50,34:0:0:50,34:1755,1097:-199.11,-83.0988,-68.0473,-116.31,0,-106.075 1/1:113:0,111,2:0:0:111,2:3938,65:-294.106,-33.4143,0,-288.983,-27.9731,-288.381 1/1:87:0,87,0:0:0:87,0:3097,0:-228.578,-26.1896,0,-228.578,-26.1896,-228.578 chr04 32255047 . G T 24467 PASS AB=0.512905;ABP=6.54106;AC=12;AF=0.285714;AN=42;AO=1256;CIGAR=1X;DP=3874;DPB=3874;DPRA=1.33722;EPP=1360.17;EPPR=1056.91;GTI=0;LEN=1;MEANALT=1.06667;MQM=43.4761;MQMR=32.6729;NS=21;NUMALT=1;ODDS=50.0216;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44899;QR=93370;RO=2617;RPL=1256;RPP=2730.38;RPPR=5685.75;RPR=0;RUN=1;SAF=1071;SAP=1360.17;SAR=185;SRF=1872;SRP=1056.91;SRR=745;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:152:84,68:84:3008:68:2440:-152.896,0,-182.037 0/1:114:68,45:68:2440:45:1612:-108.193,0,-141.473 0/1:63:29,34:29:1031:34:1216:-83.2132,0,-59.2144 0/1:142:69,73:69:2455:73:2605:-181.923,0,-143.898 0/0:248:247,1:247:8805:1:36:0,-71.1069,-662.429 0/0:147:147,0:147:5250:0:0:0,-44.2514,-393.281 0/1:157:106,51:106:3816:51:1815:-114.414,0,-231.516 0/1:94:47,47:47:1675:47:1662:-119.733,0,-100.632 0/1:210:97,113:97:3451:113:4056:-272.254,0,-197.61 0/1:372:145,227:145:5184:227:8119:-608.667,0,-307.937 0/0:353:353,0:353:12589:0:0:0,-106.264,-1025.07 0/1:568:262,306:262:9319:306:10933:-799.312,0,-584.412 0/1:155:53,102:53:1888:102:3647:-254.22,0,-93.2608 0/0:106:106,0:106:3783:0:0:0,-31.9092,-284.662 0/0:182:180,2:180:6435:2:72:0,-48.0453,-467.376 0/0:111:111,0:111:3954:0:0:0,-33.4143,-311.541 0/0:90:90,0:90:3186:0:0:0,-27.0927,-245.746 0/1:331:179,152:179:6386:152:5435:-382.498,0,-408.144 0/1:83:49,34:49:1739:34:1215:-73.4411,0,-104.895 0/0:111:110,1:110:3939:1:36:0,-29.8557,-289.899 0/0:85:85,0:85:3037:0:0:0,-25.5875,-223.24 chr04 32255151 . TGG TGC,AGC 61988.2 PASS AB=0.511671,0.484644;ABP=4.93635,6.34487;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2120,795;CIGAR=2M1X,1X1M1X;DP=2927;DPB=2927;DPRA=0,0.987204;EPP=4606.53,1729.33;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2.2381,2.4;MQM=59.9731,59.8843;MQMR=60;NS=21;NUMALT=2;ODDS=13.6309;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=75892,28056;QR=20;RO=1;RPL=0,0;RPP=4606.53,1729.33;RPPR=5.18177;RPR=2120,795;RUN=1,1;SAF=0,0;SAP=4606.53,1729.33;SAR=2120,795;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:226:0,121,103:0:0:121,103:4344,3630:-649.892,-295.539,-259.114,-354.349,0,-323.343 1/2:182:0,98,84:0:0:98,84:3524,2985:-531.1,-243.59,-214.089,-287.867,0,-262.581 1/2:117:0,58,59:0:0:58,59:2072,2090:-339.54,-170.605,-153.145,-169.291,0,-151.53 1/2:67:1,20,46:1:20:20,46:716,1621:-188.721,-130.631,-126.106,-57.0482,0,-44.6922 1/1:261:0,259,0:0:0:259,0:9243,0:-831.552,-77.9668,0,-831.552,-77.9668,-831.552 1/1:188:0,184,3:0:0:184,3:6574,105:-591.38,-55.3895,0,-582.838,-46.854,-581.934 1/2:276:0,119,155:0:0:119,155:4280,5445:-792.359,-443.162,-407.339,-349.193,0,-302.534 1/2:181:0,99,82:0:0:99,82:3543,2876:-523.286,-234.392,-204.59,-289.248,0,-264.563 1/2:215:0,122,93:0:0:122,93:4368,3314:-626.693,-270.482,-233.756,-356.568,0,-328.573 1/2:11:0,6,5:0:0:6,5:201,167:-30.0825,-13.8053,-11.9992,-16.6109,0,-15.1057 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:31:0,18,13:0:0:18,13:644,459:-90.2479,-37.7307,-32.3122,-52.8721,0,-48.9587 1/2:131:0,58,73:0:0:58,73:2067,2564:-377.517,-209.03,-191.571,-168.841,0,-146.865 1/1:124:0,122,2:0:0:122,2:4380,72:-394.012,-36.7257,0,-388.138,-30.491,-387.536 1/1:246:0,246,0:0:0:246,0:8796,0:-791.626,-74.0534,0,-791.626,-74.0534,-791.626 1/1:130:0,129,0:0:0:129,0:4615,0:-415.138,-38.8329,0,-415.138,-38.8329,-415.138 1/1:143:0,142,1:0:0:142,1:5069,36:-455.993,-42.7463,0,-453.056,-39.449,-452.755 1/2:99:0,52,46:0:0:52,46:1864,1620:-284.044,-132.011,-116.358,-152.158,0,-138.31 1/2:92:0,62,30:0:0:62,30:2232,1072:-269.882,-87.7606,-69.0967,-182.48,0,-173.449 1/1:127:0,126,0:0:0:126,0:4532,0:-407.725,-37.9298,0,-407.725,-37.9298,-407.725 1/1:73:0,72,0:0:0:72,0:2576,0:-231.838,-21.6742,0,-231.838,-21.6742,-231.838 chr04 32257935 . TACG AACA,TACA 27339.8 PASS AB=0.483221,0.514094;ABP=4.832,4.2957;AC=30,12;AF=0.714286,0.285714;AN=42;AO=927,385;CIGAR=1X2M1X,3M1X;DP=1317;DPB=1557.25;DPRA=0,1.25133;EPP=2015.97,830.364;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.90476,2.21429;MQM=59.986,60;MQMR=0;NS=21;NUMALT=2;ODDS=9.26459;PAIRED=0,0;PAIREDR=0;PAO=959,0.5;PQA=21336,18;PQR=18;PRO=0.5;QA=32574,13726;QR=0;RO=0;RPL=927,385;RPP=2015.97,839.027;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,1;SAP=2015.97,830.364;SAR=927,384;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,43,38:0:0:43,38:1512,1352:-233.354,-110.249,-97.3047,-123.142,0,-111.703 1/2:54:0,37,16:0:0:37,16:1289,576:-151.813,-46.9987,-35.8606,-104.811,0,-99.9947 1/2:41:0,26,14:0:0:26,14:915,492:-114.615,-40.0879,-32.2611,-74.5501,0,-70.3356 1/2:53:0,23,30:0:0:23,30:802,1064:-151.987,-86.7385,-79.8148,-65.2678,0,-56.2369 1/1:107:0,105,1:0:0:105,1:3661,36:-329.414,-31.6082,0,-326.477,-28.6695,-326.176 1/1:67:0,66,0:0:0:66,0:2307,0:-207.655,-19.868,0,-207.655,-19.868,-207.655 1/2:63:0,35,28:0:0:35,28:1234,1008:-183.078,-82.6075,-72.0715,-100.827,0,-92.3981 1/2:99:0,47,52:0:0:47,52:1679,1852:-287.843,-150.951,-136.802,-136.893,0,-121.239 1/2:129:0,51,78:0:0:51,78:1806,2776:-373.375,-226.26,-210.907,-147.126,0,-123.646 1/2:7:0,1,6:0:0:1,6:36,216:-20.9217,-17.9843,-17.6833,-3.29724,0,-1.49106 1/1:18:0,18,0:0:0:18,0:617,0:-55.8507,-5.41854,0,-55.8507,-5.41854,-55.8507 1/2:33:0,9,24:0:0:9,24:316,851:-95.0448,-69.3273,-66.618,-25.7157,0,-18.491 1/2:88:0,47,41:0:0:47,41:1667,1472:-256.019,-120.177,-106.029,-135.92,0,-123.577 1/1:89:0,88,1:0:0:88,1:3111,36:-279.94,-26.4906,0,-277.002,-23.5516,-276.701 1/1:88:0,88,0:0:0:88,0:3070,0:-276.236,-26.4906,0,-276.236,-26.4906,-276.236 1/1:31:0,31,0:0:0:31,0:1099,0:-98.872,-9.33193,0,-98.872,-9.33193,-98.872 1/1:29:0,29,0:0:0:29,0:1023,0:-92.0368,-8.72987,0,-92.0368,-8.72987,-92.0368 1/2:54:0,19,35:0:0:19,35:657,1252:-155.475,-102.092,-96.3729,-53.3805,0,-42.8444 1/2:43:0,22,21:0:0:22,21:778,743:-123.94,-60.5511,-53.9284,-63.4002,0,-57.0785 1/1:87:0,87,0:0:0:87,0:3041,0:-273.567,-26.1896,0,-273.567,-26.1896,-273.567 1/1:56:0,55,0:0:0:55,0:1954,0:-175.883,-16.5567,0,-175.883,-16.5567,-175.883 chr04 32257948 . C A 6582.23 PASS AB=0.522327;ABP=6.21021;AC=12;AF=0.285714;AN=42;AO=388;CIGAR=1X;DP=1298;DPB=1298;DPRA=1.1479;EPP=845.542;EPPR=1976.88;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9835;NS=21;NUMALT=1;ODDS=8.42233;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13912;QR=32442;RO=909;RPL=388;RPP=845.542;RPPR=1976.88;RPR=0;RUN=1;SAF=0;SAP=845.542;SAR=388;SRF=0;SRP=1976.88;SRR=909;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:43,38:43:1540:38:1356:-97.9565,0,-114.51 0/1:55:38,17:38:1360:17:612:-38.8568,0,-106.144 0/1:41:25,16:25:869:16:576:-39.8328,0,-66.1816 0/1:51:21,30:21:752:30:1080:-82.1607,0,-52.6537 0/0:106:103,2:103:3676:2:72:0,-25.1313,-324.208 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.111 0/1:62:34,28:34:1205:28:1004:-72.012,0,-90.09 0/1:96:47,49:47:1688:49:1741:-128.074,0,-123.308 0/1:128:51,77:51:1820:77:2763:-210.379,0,-125.549 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:34:9,25:9:324:25:900:-71.086,0,-19.2708 0/1:89:46,43:46:1633:43:1544:-112.461,0,-120.465 0/0:86:86,0:86:3069:0:0:0,-25.8886,-276.437 0/0:86:86,0:86:3064:0:0:0,-25.8886,-275.99 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 0/0:29:29,0:29:1017:0:0:0,-8.72987,-91.8398 0/1:52:17,35:17:612:35:1260:-98.0519,0,-39.7599 0/1:43:21,22:21:752:22:788:-58.3005,0,-55.062 0/0:86:86,0:86:3069:0:0:0,-25.8886,-276.437 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.515 chr04 32260138 . G A 23448.6 PASS AB=0.392706;ABP=120.902;AC=30;AF=0.714286;AN=42;AO=1211;CIGAR=1X;DP=1943;DPB=1943;DPRA=0;EPP=2632.66;EPPR=1590.36;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9711;MQMR=60;NS=21;NUMALT=1;ODDS=8.03339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42851;QR=26199;RO=731;RPL=1211;RPP=2632.66;RPPR=1590.36;RPR=0;RUN=1;SAF=0;SAP=2632.66;SAR=1211;SRF=0;SRP=1590.36;SRR=731;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:66,51:66:2364:51:1832:-129.939,0,-177.798 0/1:61:42,19:42:1512:19:665:-41.81,0,-118.012 0/1:100:62,38:62:2232:38:1360:-92.5976,0,-171.041 0/1:62:29,33:29:1040:33:1165:-86.4911,0,-75.2505 1/1:228:14,214:14:504:214:7512:-630.431,-22.9367,0 1/1:68:0,68:0:0:68:2401:-216.346,-20.47,0 0/1:151:88,63:88:3153:63:2224:-154.967,0,-238.537 0/1:128:74,54:74:2660:54:1893:-132.112,0,-201.113 0/1:211:156,55:156:5567:55:1945:-111.785,0,-437.638 0/1:21:10,11:10:356:11:392:-29.2984,0,-26.0596 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:32:10,22:10:356:22:788:-61.6118,0,-22.7483 0/1:122:84,38:84:3016:38:1347:-84.7979,0,-234.945 1/1:76:0,76:0:0:76:2652:-238.922,-22.8783,0 1/1:138:0,138:0:0:138:4922:-443.129,-41.5421,0 1/1:49:0,49:0:0:49:1752:-157.963,-14.7505,0 1/1:81:0,81:0:0:81:2836:-255.474,-24.3834,0 0/1:129:72,56:72:2588:56:1996:-141.021,0,-194.277 0/1:45:22,23:22:779:23:820:-60.5762,0,-56.8857 1/1:75:2,73:2:72:73:2597:-227.141,-15.7405,0 1/1:41:0,41:0:0:41:1464:-132.056,-12.3422,0 chr04 32265323 . C T 13168.2 PASS AB=0.458466;ABP=12.39;AC=30;AF=0.714286;AN=42;AO=673;CIGAR=1X;DP=1013;DPB=1013;DPRA=0;EPP=1464.41;EPPR=739.139;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9703;MQMR=60;NS=21;NUMALT=1;ODDS=1.74419;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23657;QR=12130;RO=339;RPL=673;RPP=1464.41;RPPR=739.139;RPR=0;RUN=1;SAF=0;SAP=1464.41;SAR=673;SRF=0;SRP=739.139;SRR=339;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:44,15:44:1580:15:510:-28.4588,0,-124.731 0/1:47:41,6:41:1453:6:212:-5.27639,0,-116.916 0/1:74:54,20:54:1940:20:716:-42.4915,0,-152.6 0/1:40:24,16:24:864:16:557:-38.4144,0,-66.0414 1/1:78:0,78:0:0:78:2762:-248.82,-23.4803,0 1/1:24:0,24:0:0:24:833:-75.2849,-7.22472,0 0/1:69:23,46:23:828:46:1641:-127.206,0,-54.073 0/1:58:32,26:32:1152:26:932:-66.7391,0,-86.5304 0/1:105:30,75:30:1068:75:2608:-203.356,0,-64.8239 0/1:18:12,6:12:428:6:186:-11.625,0,-33.4403 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:31:8,23:8:288:23:798:-62.8022,0,-16.9355 0/1:38:23,15:23:820:15:540:-37.4974,0,-62.6834 1/1:44:0,43:0:0:43:1513:-136.224,-12.9443,0 1/1:40:0,40:0:0:40:1409:-127.105,-12.0412,0 1/1:27:0,27:0:0:27:957:-86.4439,-8.12781,0 1/1:37:0,37:0:0:37:1288:-116.217,-11.1381,0 0/1:67:38,29:38:1349:29:1010:-71.038,0,-101.539 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 1/1:91:0,91:0:0:91:3200:-288.222,-27.3937,0 1/1:41:0,41:0:0:41:1449:-130.704,-12.3422,0 chr04 32275630 . A G 20139 PASS AB=0.537037;ABP=10.0877;AC=30;AF=0.714286;AN=42;AO=975;CIGAR=1X;DP=1254;DPB=1254;DPRA=0;EPP=2120.2;EPPR=580.903;GTI=1;LEN=1;MEANALT=1.04762;MQM=54.0349;MQMR=59.7626;NS=21;NUMALT=1;ODDS=2.53686;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34696;QR=9936;RO=278;RPL=0;RPP=2120.2;RPPR=580.903;RPR=975;RUN=1;SAF=0;SAP=2120.2;SAR=975;SRF=0;SRP=606.68;SRR=278;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:70:36,34:36:1292:34:1220:-88.1323,0,-95.5117 0/1:45:24,21:24:864:21:752:-54.2064,0,-64.5362 0/1:43:21,22:21:748:22:788:-58.2287,0,-54.701 0/1:62:26,35:26:921:35:1256:-92.8087,0,-64.627 1/1:204:1,203:1:36:203:7241:-647.132,-57.8118,0 1/1:48:0,48:0:0:48:1705:-153.1,-14.4494,0 0/1:83:30,53:30:1072:53:1891:-144.635,0,-71.7206 0/1:42:16,26:16:572:26:904:-68.6694,0,-39.1636 0/1:142:73,69:73:2611:69:2480:-180.335,0,-192.232 0/1:7:5,2:5:176:2:68:-4.33816,0,-14.0778 1/1:4:0,4:0:0:4:144:-13.2484,-1.20412,0 0/1:14:2,12:2:72:12:417:-33.5698,0,-2.6223 0/1:49:25,24:25:900:24:856:-62.4086,0,-66.5705 1/1:86:0,86:0:0:86:3064:-275.192,-25.8886,0 1/1:81:0,81:0:0:81:2895:-260.168,-24.3834,0 1/1:82:0,82:0:0:82:2882:-259.321,-24.6845,0 1/1:77:0,77:0:0:77:2746:-247.216,-23.1793,0 0/1:19:9,10:9:320:10:344:-25.2489,0,-23.4228 0/1:18:7,11:7:244:11:381:-29.0848,0,-16.8809 1/1:57:3,54:3:108:54:1927:-163.25,-7.08354,0 1/1:21:0,21:0:0:21:735:-65.8376,-6.32163,0 chr04 32277088 . A T 14362.6 PASS AB=0.443325;ABP=58.3911;AC=12;AF=0.285714;AN=42;AO=884;CIGAR=1X;DP=3527;DPB=3527;DPRA=1.63579;EPP=1896.62;EPPR=5742.21;GTI=1;LEN=1;MEANALT=1;MQM=57.3744;MQMR=59.7355;NS=21;NUMALT=1;ODDS=9.30355;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31660;QR=94257;RO=2643;RPL=0;RPP=1922.59;RPPR=5742.21;RPR=884;RUN=1;SAF=881;SAP=1896.62;SAR=3;SRF=2643;SRP=5742.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:61,57:61:2181:57:2044:-148.509,0,-161.029 0/1:84:63,21:63:2253:21:752:-42.3824,0,-177.733 0/1:212:115,97:115:4117:97:3469:-248.428,0,-306.892 0/1:233:122,111:122:4373:111:3979:-287.949,0,-322.192 0/0:323:321,2:321:11438:2:72:0,-90.3968,-1020.76 0/0:132:132,0:132:4698:0:0:0,-39.736,-422.969 0/1:220:115,105:115:4106:105:3776:-271.443,0,-303.288 0/1:223:102,121:102:3634:121:4307:-320.047,0,-260.045 0/1:387:220,167:220:7822:167:5988:-421.81,0,-587.488 0/1:12:10,2:10:360:2:72:-3.21922,0,-29.1319 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:50:29,21:29:1010:21:752:-52.8548,0,-76.1535 0/1:270:156,114:156:5608:114:4096:-286.635,0,-423.547 0/0:258:258,0:258:9145:0:0:0,-77.6657,-822.849 0/0:314:313,1:313:11150:1:36:0,-90.9256,-999.724 0/0:120:120,0:120:4271:0:0:0,-36.1236,-384.535 0/0:90:90,0:90:3191:0:0:0,-27.0927,-287.41 0/1:80:40,40:40:1440:40:1417:-103.464,0,-105.812 0/1:96:72,24:72:2573:24:864:-49.079,0,-202.827 0/0:212:211,1:211:7554:1:36:0,-60.2218,-675.558 0/0:87:87,0:87:3117:0:0:0,-26.1896,-280.658 chr04 32301165 . A T 28860.1 PASS AB=0.467105;ABP=27.2965;AC=12;AF=0.285714;AN=42;AO=1216;CIGAR=1X;DP=4421;DPB=4421;DPRA=1.70438;EPP=1697.11;EPPR=5085.9;GTI=0;LEN=1;MEANALT=1;MQM=59.9753;MQMR=59.9691;NS=21;NUMALT=1;ODDS=24.3442;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43507;QR=114022;RO=3205;RPL=511;RPP=70.2188;RPPR=228.579;RPR=705;RUN=1;SAF=632;SAP=7.12467;SAR=584;SRF=1547;SRP=11.3581;SRR=1658;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:218:121,97:121:4297:97:3470:-246.887,0,-321.155 0/1:184:95,89:95:3391:89:3168:-229.957,0,-250.016 0/1:162:76,86:76:2686:86:3084:-229.021,0,-193.219 0/1:342:193,149:193:6861:149:5348:-378.499,0,-514.608 0/0:422:419,3:419:14880:3:108:0,-116.959,-1328.87 0/0:162:161,1:161:5725:1:36:0,-45.1686,-511.772 0/1:328:175,153:175:6195:153:5456:-392.43,0,-458.912 0/1:206:99,107:99:3524:107:3823:-282.255,0,-255.357 0/1:408:202,206:202:7202:206:7380:-541.425,0,-525.415 0/1:27:10,17:10:360:17:608:-46.9242,0,-24.6165 0/0:14:14,0:14:495:0:0:0,-4.21442,-44.883 0/1:73:45,28:45:1620:28:1008:-69.0612,0,-124.115 0/1:269:133,136:133:4756:136:4868:-357.259,0,-347.221 0/0:225:225,0:225:7996:0:0:0,-67.7317,-719.618 0/0:372:371,1:371:13200:1:36:0,-108.385,-1184.12 0/0:158:158,0:158:5630:0:0:0,-47.5627,-506.822 0/0:137:137,0:137:4850:0:0:0,-41.2411,-436.6 0/1:170:102,68:102:3613:68:2438:-168.5,0,-274.2 0/1:197:126,71:126:4512:71:2536:-169.189,0,-346.945 0/0:196:192,4:192:6842:4:140:0,-46.0573,-602.908 0/0:151:151,0:151:5387:0:0:0,-45.4555,-484.963 chr04 32301185 . T G 82704.6 PASS AB=0.528816;ABP=21.5321;AC=30;AF=0.714286;AN=42;AO=3162;CIGAR=1X;DP=4384;DPB=4384;DPRA=0;EPP=6869.21;EPPR=2656.55;GTI=0;LEN=1;MEANALT=1;MQM=59.9589;MQMR=59.9607;NS=21;NUMALT=1;ODDS=23.3394;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=111759;QR=43569;RO=1222;RPL=1493;RPP=24.2828;RPPR=4.82993;RPR=1669;RUN=1;SAF=1493;SAP=24.2828;SAR=1669;SRF=627;SRP=4.82993;SRR=595;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:217:97,120:97:3463:120:4259:-318.162,0,-246.547 0/1:178:87,91:87:3087:91:3222:-236.618,0,-224.473 0/1:160:85,75:85:3044:75:2662:-191.66,0,-226.025 0/1:340:148,192:148:5276:192:6842:-513.5,0,-372.626 1/1:419:3,416:3:108:416:14702:-1312.86,-116.056,0 1/1:164:1,163:1:36:163:5748:-513.839,-45.7706,0 0/1:333:161,172:161:5705:172:6031:-442.647,0,-413.327 0/1:204:105,99:105:3776:99:3503:-254.066,0,-278.627 0/1:405:205,200:205:7307:200:7060:-513.55,0,-535.76 0/1:28:19,9:19:668:9:307:-19.5314,0,-52.0168 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:69:27,42:27:972:42:1483:-112.993,0,-67.0268 0/1:267:135,132:135:4823:132:4707:-343.416,0,-353.764 1/1:219:0,219:0:0:219:7702:-693.218,-65.9256,0 1/1:369:1,368:1:36:368:12978:-1164.16,-107.482,0 1/1:152:0,152:0:0:152:5421:-488.02,-45.7566,0 1/1:136:0,136:0:0:136:4807:-432.786,-40.9401,0 0/1:170:69,101:69:2464:101:3547:-267.995,0,-170.839 0/1:197:72,125:72:2552:125:4426:-339.212,0,-170.626 1/1:195:4,191:4:144:191:6789:-597.715,-45.3872,0 1/1:147:3,144:3:108:144:5023:-442.146,-34.1762,0 chr04 32343611 . A C 19336.8 PASS AB=0.513379;ABP=6.43837;AC=12;AF=0.285714;AN=42;AO=1135;CIGAR=1X;DP=3827;DPB=3827;DPRA=1.38151;EPP=2467.63;EPPR=5844.27;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9683;MQMR=59.9989;NS=21;NUMALT=1;ODDS=13.5812;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40528;QR=96439;RO=2690;RPL=0;RPP=2467.63;RPPR=5844.27;RPR=1135;RUN=1;SAF=1135;SAP=2467.63;SAR=0;SRF=2690;SRP=5844.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:350:188,162:188:6764:162:5804:-417.113,0,-503.468 0/1:188:99,89:99:3529:89:3185:-230.256,0,-261.225 0/1:172:69,103:69:2472:103:3680:-279.627,0,-170.957 0/1:100:41,59:41:1472:59:2100:-159.162,0,-102.673 0/0:393:391,2:391:14024:2:72:0,-111.468,-1255.09 0/0:212:212,0:212:7597:0:0:0,-63.8184,-683.765 0/1:245:140,105:140:5032:105:3748:-263.769,0,-379.271 0/1:238:121,117:121:4340:117:4171:-303.929,0,-319.129 0/1:403:173,229:173:6212:229:8161:-613.131,0,-437.8 0/1:42:17,25:17:612:25:892:-67.9564,0,-42.7702 0/0:15:15,0:15:532:0:0:0,-4.51545,-48.2131 0/1:81:31,50:31:1108:50:1792:-137.179,0,-75.6476 0/1:186:80,106:80:2868:106:3780:-284.408,0,-202.365 0/0:212:211,1:211:7572:1:36:0,-60.2201,-677.918 0/0:234:234,0:234:8370:0:0:0,-70.441,-753.303 0/0:174:174,0:174:6245:0:0:0,-52.3792,-562.141 0/0:175:175,0:175:6261:0:0:0,-52.6802,-563.583 0/1:125:64,61:64:2273:61:2183:-159.107,0,-167.202 0/1:75:48,26:48:1728:26:924:-60.8418,0,-133.169 0/0:150:150,0:150:5376:0:0:0,-45.1545,-483.971 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.951 chr04 32345477 . 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T C 21839 PASS AB=0.38967;ABP=394.002;AC=21;AF=0.5;AN=42;AO=1441;CIGAR=1X;DP=3698;DPB=3698;DPRA=0;EPP=3088.82;EPPR=4880.15;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.5045;MQMR=59.9592;NS=21;NUMALT=1;ODDS=0.347095;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51407;QR=80060;RO=2254;RPL=5;RPP=3088.82;RPPR=4880.15;RPR=1436;RUN=1;SAF=0;SAP=3132.1;SAR=1441;SRF=0;SRP=4897.51;SRR=2254;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:175:106,68:106:3723:68:2435:-166.772,0,-282.682 0/1:142:100,42:100:3552:42:1504:-92.8579,0,-277.145 0/1:271:208,63:208:7408:63:2245:-120.704,0,-585.193 0/1:157:90,67:90:3192:67:2408:-169.662,0,-240.208 0/1:333:165,167:165:5868:167:5961:-436.348,0,-428.113 0/1:243:116,127:116:4141:127:4512:-332.905,0,-299.617 0/1:287:155,132:155:5490:132:4698:-336.488,0,-407.824 0/1:242:175,67:175:6220:67:2386:-142.143,0,-487.05 0/1:223:162,61:162:5761:61:2180:-129.337,0,-451.478 0/1:36:29,7:29:1036:7:248:-11.8199,0,-82.7168 0/1:22:12,10:12:420:10:351:-25.304,0,-31.5114 0/1:103:81,22:81:2862:22:792:-40.5771,0,-226.81 0/1:205:121,84:121:4289:84:2991:-207.68,0,-324.479 0/1:309:159,150:159:5624:150:5323:-386.098,0,-413.265 0/1:151:99,51:99:3536:51:1828:-119.42,0,-273.084 0/1:86:51,35:51:1820:35:1252:-87.0883,0,-138.193 0/1:171:110,61:110:3928:61:2169:-143.965,0,-302.237 0/1:156:106,50:106:3742:50:1791:-114.483,0,-290.023 0/1:117:70,47:70:2500:47:1669:-115.216,0,-190.032 0/1:161:98,63:98:3476:63:2264:-155.534,0,-264.471 0/1:108:41,67:41:1472:67:2400:-183.624,0,-100.265 chr04 32383857 . C T 32215.1 PASS AB=0.414348;ABP=236.615;AC=21;AF=0.5;AN=42;AO=1519;CIGAR=1X;DP=3666;DPB=3666;DPRA=0;EPP=152.153;EPPR=66.7888;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9724;MQMR=59.6723;NS=21;NUMALT=1;ODDS=75.9876;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53950;QR=76671;RO=2145;RPL=921;RPP=152.153;RPPR=66.7888;RPR=598;RUN=1;SAF=0;SAP=3301.48;SAR=1519;SRF=0;SRP=4660.82;SRR=2145;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:118,49:118:4209:49:1722:-104.989,0,-328.677 0/1:139:87,51:87:3128:51:1793:-119.748,0,-239.808 0/1:271:175,96:175:6264:96:3398:-224.455,0,-482.242 0/1:159:108,51:108:3864:51:1786:-113.155,0,-299.989 0/1:336:171,165:171:6119:165:5851:-425.559,0,-449.477 0/1:235:125,109:125:4467:109:3876:-278.241,0,-331.204 0/1:280:211,69:211:7521:69:2472:-138.432,0,-592.535 0/1:235:167,68:167:5979:68:2424:-147.674,0,-467.473 0/1:225:120,105:120:4283:105:3748:-269.789,0,-317.916 0/1:36:15,21:15:540:21:756:-57.5301,0,-38.0995 0/1:22:9,13:9:324:13:464:-35.4748,0,-22.8832 0/1:109:63,46:63:2256:46:1652:-116.156,0,-170.468 0/1:204:145,59:145:5179:59:2112:-128.939,0,-404.809 0/1:296:151,145:151:5386:145:5138:-373.459,0,-395.654 0/1:148:51,97:51:1832:97:3464:-267.42,0,-120.595 0/1:84:34,50:34:1212:50:1784:-135.556,0,-84.0998 0/1:174:64,110:64:2284:110:3929:-301.422,0,-153.388 0/1:158:112,46:112:3991:46:1647:-100.955,0,-311.787 0/1:114:77,37:77:2752:37:1285:-81.6313,0,-213.541 0/1:163:70,93:70:2508:93:3277:-245.844,0,-176.873 0/1:111:72,39:72:2573:39:1372:-90.3615,0,-198.253 chr04 32383885 . 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T C 7730.96 PASS AB=0.497854;ABP=3.04758;AC=12;AF=0.285714;AN=42;AO=466;CIGAR=1X;DP=1727;DPB=1727;DPRA=1.27675;EPP=1014.92;EPPR=2741.24;GTI=0;LEN=1;MEANALT=1;MQM=59.9657;MQMR=59.9691;NS=21;NUMALT=1;ODDS=10.8803;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16622;QR=44415;RO=1261;RPL=466;RPP=1014.92;RPPR=2741.24;RPR=0;RUN=1;SAF=0;SAP=1014.92;SAR=466;SRF=0;SRP=2741.24;SRR=1261;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:53,70:53:1861:70:2472:-185.705,0,-130.741 0/1:100:64,36:64:2216:36:1284:-85.7598,0,-169.596 0/1:75:38,37:38:1360:37:1324:-96.8848,0,-100.123 0/1:97:49,48:49:1697:48:1728:-126.605,0,-123.811 0/0:213:212,1:212:7505:1:36:0,-60.5211,-671.904 0/0:108:108,0:108:3829:0:0:0,-32.5112,-344.808 0/1:119:48,71:48:1696:71:2540:-193.019,0,-117.104 0/1:39:20,19:20:708:19:684:-50.1502,0,-52.3054 0/1:169:69,100:69:2441:100:3546:-268.474,0,-169.069 0/1:19:14,5:14:488:5:180:-10.8325,0,-38.5309 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:40:21,19:21:721:19:676:-49.1268,0,-53.1656 0/1:70:37,33:37:1309:33:1180:-85.4359,0,-97.0313 0/0:83:83,0:83:2888:0:0:0,-24.9855,-260.153 0/0:111:111,0:111:3882:0:0:0,-33.4143,-349.565 0/0:84:84,0:84:2956:0:0:0,-25.2865,-266.277 0/0:96:95,1:95:3357:1:36:0,-25.3006,-298.75 0/1:51:33,18:33:1176:18:648:-43.2994,0,-90.7952 0/1:30:22,8:22:792:8:288:-17.2365,0,-62.5748 0/0:56:56,0:56:1976:0:0:0,-16.8577,-178.114 0/0:39:39,0:39:1377:0:0:0,-11.7402,-124.227 chr04 32398152 . 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A G 6018.23 PASS AB=0.2975;ABP=572.892;AC=11;AF=0.261905;AN=42;AO=477;CIGAR=1X;DP=2331;DPB=2331;DPRA=2.06069;EPP=1030.13;EPPR=3994.25;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9957;NS=21;NUMALT=1;ODDS=1.35807;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17065;QR=66390;RO=1854;RPL=1;RPP=1030.13;RPPR=4002.9;RPR=476;RUN=1;SAF=477;SAP=1038.8;SAR=0;SRF=1853;SRP=4020.24;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:76,26:76:2717:26:936:-53.8544,0,-214.067 0/1:122:97,25:97:3480:25:900:-44.5954,0,-276.685 0/0:95:95,0:95:3378:0:0:0,-28.5978,-304.234 0/1:188:136,52:136:4869:52:1860:-111.086,0,-381.767 0/1:312:218,94:218:7816:94:3346:-207.436,0,-609.546 0/0:109:108,1:108:3872:1:36:0,-29.214,-345.068 0/1:171:111,60:111:3984:60:2152:-142.471,0,-307.273 0/1:134:61,73:61:2188:73:2607:-194.54,0,-156.848 0/1:183:144,39:144:5172:39:1392:-70.4905,0,-410.53 0/1:24:18,6:18:648:6:216:-12.5658,0,-51.4272 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/0:105:105,0:105:3753:0:0:0,-31.6081,-337.969 0/1:96:62,34:62:2203:34:1220:-81.2079,0,-169.636 0/0:85:85,0:85:3045:0:0:0,-25.5875,-274.278 0/0:93:93,0:93:3344:0:0:0,-27.9958,-301.176 0/0:72:72,0:72:2565:0:0:0,-21.6742,-231.099 0/1:173:135,38:135:4856:38:1364:-70.9825,0,-385.113 0/1:95:66,29:66:2360:29:1036:-64.9561,0,-184.061 0/0:77:77,0:77:2748:0:0:0,-23.1793,-247.563 0/0:63:63,0:63:2248:0:0:0,-18.9649,-202.584 chr04 32568275 . A G 7565.76 PASS AB=0.42416;ABP=58.015;AC=11;AF=0.261905;AN=42;AO=471;CIGAR=1X;DP=1908;DPB=1908;DPRA=1.15826;EPP=965.876;EPPR=2884.95;GTI=0;LEN=1;MEANALT=1;MQM=59.966;MQMR=59.993;NS=21;NUMALT=1;ODDS=14.3679;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16766;QR=51413;RO=1437;RPL=464;RPP=965.876;RPPR=2884.95;RPR=7;RUN=1;SAF=0;SAP=1025.77;SAR=471;SRF=0;SRP=3123.42;SRR=1437;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:37,52:37:1319:52:1860:-140.888,0,-92.2195 0/1:34:23,11:23:824:11:396:-25.7477,0,-64.2483 0/1:121:85,36:85:3028:36:1276:-78.7146,0,-236.327 0/1:86:49,37:49:1748:37:1328:-93.9337,0,-131.716 0/0:70:67,3:67:2399:3:108:0,-10.9969,-206.091 0/0:75:74,1:74:2652:1:36:0,-18.979,-235.326 0/0:82:82,0:82:2940:0:0:0,-24.6845,-264.834 0/1:209:88,121:88:3152:121:4293:-323.632,0,-220.99 0/1:182:133,49:133:4755:49:1744:-102.457,0,-373.32 0/1:19:13,6:13:464:6:207:-13.2473,0,-36.3779 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:49:25,24:25:900:24:844:-61.5285,0,-66.5705 0/1:185:113,72:113:4039:72:2580:-176.759,0,-308.003 0/0:146:146,0:146:5232:0:0:0,-43.9504,-471.017 0/0:136:136,0:136:4876:0:0:0,-40.9401,-438.992 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/0:31:31,0:31:1099:0:0:0,-9.33193,-99.2195 0/1:82:39,43:39:1400:43:1522:-112.587,0,-101.615 0/1:45:29,16:29:1026:16:572:-38.2671,0,-79.105 0/0:189:189,0:189:6771:0:0:0,-56.8947,-609.462 0/0:44:44,0:44:1565:0:0:0,-13.2453,-141.139 chr04 32568282 . A C 29849.1 PASS AB=0.574275;ABP=55.9124;AC=31;AF=0.738095;AN=42;AO=1434;CIGAR=1X;DP=1908;DPB=1908;DPRA=0;EPP=3090.9;EPPR=1032.29;GTI=0;LEN=1;MEANALT=1;MQM=59.9909;MQMR=59.9831;NS=21;NUMALT=1;ODDS=14.2434;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51321;QR=17032;RO=474;RPL=1431;RPP=3090.9;RPPR=1032.29;RPR=3;RUN=1;SAF=0;SAP=3116.9;SAR=1434;SRF=0;SRP=1032.29;SRR=474;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:50,36:50:1796:36:1296:-91.0554,0,-136.034 0/1:34:11,23:11:392:23:828:-64.6091,0,-25.385 0/1:118:33,85:33:1184:85:3052:-239.387,0,-71.3468 0/1:89:39,50:39:1400:50:1788:-134.411,0,-99.5075 1/1:69:3,66:3:108:66:2364:-202.943,-10.6959,0 1/1:74:1,73:1:36:73:2619:-232.358,-18.6779,0 1/1:82:0,82:0:0:82:2910:-262.133,-24.6845,0 0/1:206:120,86:120:4312:86:3096:-216.854,0,-326.237 0/1:186:52,134:52:1868:134:4810:-377.061,0,-112.408 0/1:20:7,13:7:252:13:449:-34.7169,0,-17.0084 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:50:24,26:24:864:26:936:-69.5056,0,-63.0311 0/1:186:73,113:73:2628:113:3997:-303.927,0,-180.775 1/1:144:0,144:0:0:144:5164:-464.9,-43.3483,0 1/1:137:0,137:0:0:137:4892:-440.431,-41.2411,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 1/1:31:0,31:0:0:31:1101:-99.3984,-9.33193,0 0/1:83:43,40:43:1548:40:1436:-104.552,0,-114.628 0/1:46:18,28:18:644:28:1003:-76.7383,0,-44.4432 1/1:189:0,189:0:0:189:6772:-609.551,-56.8947,0 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 chr04 32568299 . T G 7339.35 PASS AB=0.425319;ABP=56.2015;AC=11;AF=0.261905;AN=42;AO=471;CIGAR=1X;DP=1900;DPB=1900;DPRA=1.15618;EPP=1025.77;EPPR=3106.04;GTI=0;LEN=1;MEANALT=1;MQM=59.966;MQMR=59.9923;NS=21;NUMALT=1;ODDS=14.3405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16836;QR=50539;RO=1429;RPL=471;RPP=1025.77;RPPR=3106.04;RPR=0;RUN=1;SAF=0;SAP=1025.77;SAR=471;SRF=0;SRP=3106.04;SRR=1429;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:35,51:35:1240:51:1832:-139.272,0,-86.0159 0/1:34:23,11:23:816:11:392:-25.385,0,-63.5267 0/1:118:84,34:84:2957:34:1206:-73.3194,0,-230.844 0/1:89:50,39:50:1772:39:1400:-99.5075,0,-132.971 0/0:68:65,3:65:2320:3:108:0,-10.3949,-198.985 0/0:74:73,1:73:2596:1:36:0,-18.6779,-230.291 0/0:80:80,0:80:2816:0:0:0,-24.0824,-253.683 0/1:210:89,121:89:3176:121:4320:-325.756,0,-222.849 0/1:183:132,51:132:4654:51:1820:-108.993,0,-363.938 0/1:19:12,7:12:416:7:252:-17.3094,0,-32.0521 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:48:25,23:25:896:23:820:-59.6731,0,-66.5086 0/1:183:112,71:112:3956:71:2540:-173.763,0,-301.141 0/0:145:145,0:145:5126:0:0:0,-43.6493,-461.486 0/0:136:136,0:136:4782:0:0:0,-40.9401,-430.543 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/0:32:32,0:32:1136:0:0:0,-9.63296,-102.549 0/1:84:40,44:40:1420:44:1574:-116.665,0,-102.811 0/1:44:29,15:29:1040:15:536:-35.3295,0,-80.669 0/0:188:188,0:188:6611:0:0:0,-56.5936,-595.08 0/0:45:45,0:45:1597:0:0:0,-13.5463,-144.018 chr04 32657528 . G A 14703.8 PASS AB=0.491979;ABP=3.32383;AC=31;AF=0.738095;AN=42;AO=719;CIGAR=1X;DP=1004;DPB=1004;DPRA=0;EPP=1555.63;EPPR=621.88;GTI=0;LEN=1;MEANALT=1;MQM=53.6036;MQMR=59.6035;NS=21;NUMALT=1;ODDS=4.81634;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25628;QR=10180;RO=285;RPL=1;RPP=1555.63;RPPR=621.88;RPR=718;RUN=1;SAF=719;SAP=1564.3;SAR=0;SRF=285;SRP=621.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:34,23:34:1192:23:824:-57.188,0,-90.4189 0/1:32:19,13:19:680:13:468:-32.5313,0,-51.8729 0/1:75:49,26:49:1756:26:921:-60.5692,0,-135.74 0/1:51:26,25:26:928:25:892:-64.9874,0,-68.3957 1/1:69:0,69:0:0:69:2457:-220.467,-20.7711,0 1/1:29:0,29:0:0:29:1044:-93.4159,-8.72987,0 1/1:63:0,63:0:0:63:2256:-202.054,-18.9649,0 0/1:79:38,41:38:1364:41:1468:-108.439,0,-99.2701 0/1:65:35,30:35:1256:30:1072:-77.1071,0,-93.7783 0/1:13:6,7:6:216:7:248:-18.7173,0,-15.8771 1/1:5:0,5:0:0:5:180:-16.5188,-1.50515,0 0/1:22:10,12:10:360:12:428:-32.0559,0,-26.117 0/1:50:20,30:20:720:30:1071:-81.3891,0,-50.0726 1/1:70:0,70:0:0:70:2470:-221.252,-21.0721,0 1/1:68:0,68:0:0:68:2438:-218.897,-20.47,0 1/1:28:0,28:0:0:28:989:-89.2427,-8.42884,0 1/1:27:0,27:0:0:27:960:-86.4343,-8.12781,0 0/1:88:40,48:40:1428:48:1728:-127.901,0,-102.32 0/1:29:8,21:8:280:21:747:-58.1672,0,-16.8094 1/1:57:0,57:0:0:57:1999:-179.433,-17.1587,0 1/1:27:0,27:0:0:27:968:-86.4008,-8.12781,0 chr04 32663967 . AGTAA GGTAA,GGTAC 57264.8 PASS AB=0.52748,0.466096;ABP=12.1999,16.9986;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2040,658;CIGAR=1X4M,1X3M1X;DP=2716;DPB=2716;DPRA=0,1.22002;EPP=4432.81,1431.84;EPPR=9.52472;GTI=0;LEN=1,5;MEANALT=2.14286,2.75;MQM=59.6534,59.9255;MQMR=60;NS=21;NUMALT=2;ODDS=23.3492;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72663,23136;QR=103;RO=3;RPL=0,0;RPP=4432.81,1431.84;RPPR=9.52472;RPR=2040,658;RUN=1,1;SAF=2040,658;SAP=4432.81,1431.84;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:182:0,90,91:0:0:90,91:3228,3206:-524.356,-261.071,-233.978,-263.34,0,-235.947 1/2:78:0,35,43:0:0:35,43:1241,1516:-224.875,-123.788,-113.252,-101.44,0,-88.4958 1/2:119:0,69,49:0:0:69,49:2453,1704:-338.553,-138.661,-117.89,-200.01,0,-185.26 1/2:192:0,102,89:0:0:102,89:3622,3111:-548.191,-253.07,-222.365,-295.114,0,-268.322 1/1:281:0,275,5:0:0:275,5:9800,176:-881.498,-82.7833,0,-867.17,-68.3368,-865.664 1/1:124:0,124,0:0:0:124,0:4398,0:-395.946,-37.3277,0,-395.946,-37.3277,-395.946 1/1:179:0,179,0:0:0:179,0:6417,0:-577.487,-53.8844,0,-577.487,-53.8844,-577.487 1/2:93:0,61,31:0:0:61,31:2165,1096:-265.639,-89.2577,-70.8949,-176.375,0,-167.043 1/2:286:0,141,144:0:0:141,144:5030,5085:-823.821,-414.054,-371.609,-409.762,0,-366.414 1/2:14:0,7,7:0:0:7,7:252,251:-41.3886,-20.8306,-18.7234,-20.9171,0,-18.8099 1/1:17:0,17,0:0:0:17,0:608,0:-55.052,-5.11751,0,-55.052,-5.11751,-55.052 1/2:76:0,30,46:0:0:30,46:1080,1625:-220.817,-132.692,-123.661,-88.4823,0,-74.635 1/2:221:0,121,99:0:0:121,99:4317,3461:-633.414,-281.537,-245.112,-351.87,0,-322.068 1/1:199:0,197,0:0:0:197,0:6925,0:-622.923,-59.3029,0,-622.923,-59.3029,-622.923 1/1:187:1,186,0:1:36:186,0:6642,0:-594.243,-52.6943,0,-594.544,-55.9916,-597.481 1/1:45:0,42,0:0:0:42,0:1504,0:-135.205,-12.6433,0,-135.205,-12.6433,-135.205 1/1:47:0,47,0:0:0:47,0:1647,0:-148.509,-14.1484,0,-148.509,-14.1484,-148.509 1/2:59:0,29,29:0:0:29,29:1029,1033:-168.026,-84.2035,-75.4736,-83.8274,0,-75.0975 1/2:81:0,54,25:0:0:54,25:1932,872:-228.45,-70.9102,-54.6546,-157.532,0,-150.006 1/1:178:2,176,0:2:67:176,0:6293,0:-560.02,-47.2205,0,-560.623,-52.9813,-566.048 1/1:58:0,58,0:0:0:58,0:2080,0:-187.383,-17.4597,0,-187.383,-17.4597,-187.383 chr04 32664004 . T C 41407 PASS AB=0.533286;ABP=16.4542;AC=31;AF=0.738095;AN=42;AO=2037;CIGAR=1X;DP=2700;DPB=2700;DPRA=0;EPP=4426.3;EPPR=1421.03;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.6426;MQMR=59.997;NS=21;NUMALT=1;ODDS=22.8223;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71584;QR=23622;RO=661;RPL=2037;RPP=4426.3;RPPR=1421.03;RPR=0;RUN=1;SAF=2037;SAP=4426.3;SAR=0;SRF=661;SRP=1438.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:91,88:91:3263:88:3112:-226.387,0,-240.005 0/1:81:43,37:43:1539:37:1275:-90.5864,0,-114.359 0/1:114:48,66:48:1691:66:2339:-176.443,0,-118.158 0/1:193:90,103:90:3220:103:3623:-268.169,0,-231.924 1/1:278:6,272:6:216:272:9604:-844.419,-63.8958,0 1/1:121:1,119:1:36:119:4206:-375.084,-32.8852,0 1/1:174:0,174:0:0:174:6127:-551.351,-52.3792,0 0/1:90:30,60:30:1076:60:2085:-160.816,0,-70.0602 0/1:289:144,145:144:5150:145:5097:-371.386,0,-376.643 0/1:15:7,8:7:252:8:288:-21.7473,0,-18.5135 1/1:16:0,16:0:0:16:549:-49.7324,-4.81648,0 0/1:77:47,30:47:1677:30:1060:-72.532,0,-128.036 0/1:217:98,119:98:3495:119:4219:-314.519,0,-249.438 1/1:197:0,197:0:0:197:6895:-620.47,-59.3029,0 1/1:188:0,188:0:0:188:6589:-593.086,-56.5936,0 1/1:47:0,47:0:0:47:1641:-147.885,-14.1484,0 1/1:48:0,48:0:0:48:1672:-150.761,-14.4494,0 0/1:59:29,30:29:1035:30:1041:-76.2266,0,-75.7023 0/1:83:24,59:24:864:59:2086:-163.014,0,-53.0971 1/1:177:2,175:2:72:175:6127:-544.625,-46.4456,0 1/1:57:1,56:1:36:56:1949:-172.084,-13.5604,0 chr04 32664014 . TATA AATG,AATA 64455.4 PASS AB=0.47914,0.517067;ABP=8.9894,7.01284;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2090,824;CIGAR=1X2M1X,1X3M;DP=2932;DPB=2947.25;DPRA=0,1.31436;EPP=4541.39,1792.3;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.42857,2.53846;MQM=59.6311,59.9405;MQMR=0;NS=21;NUMALT=2;ODDS=13.0982;PAIRED=0,0;PAIREDR=0;PAO=61,0;PQA=1874,0;PQR=0;PRO=0;QA=73316,29417;QR=0;RO=0;RPL=2090,668;RPP=4541.39,693.834;RPPR=0;RPR=0,156;RUN=1,1;SAF=2090,668;SAP=4541.39,693.834;SAR=0,156;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:183:0,91,92:0:0:91,92:3225,3289:-530.893,-268.184,-240.79,-262.715,0,-235.02 1/2:81:0,38,43:0:0:38,43:1347,1544:-236.021,-126.308,-114.869,-110.07,0,-97.1252 1/2:119:0,70,49:0:0:70,49:2436,1757:-341.395,-143.332,-122.26,-198.085,0,-183.335 1/2:196:0,105,91:0:0:105,91:3714,3244:-566.927,-264.432,-232.824,-302.496,0,-275.102 1/1:290:0,284,5:0:0:284,5:9910,180:-891.5,-85.4925,0,-876.812,-70.7829,-875.307 1/1:125:0,124,1:0:0:124,1:4323,36:-388.87,-37.3277,0,-385.933,-34.389,-385.632 1/1:182:0,180,0:0:0:180,0:6297,0:-566.366,-54.1854,0,-566.366,-54.1854,-566.366 1/2:94:0,62,32:0:0:62,32:2189,1135:-270.84,-92.5906,-73.9267,-178.367,0,-168.734 1/2:452:0,145,303:0:0:145,303:5078,10810:-1293.94,-881.264,-837.615,-412.722,0,-321.51 1/2:15:0,8,7:0:0:8,7:275,252:-43.2404,-20.9217,-18.5135,-22.6709,0,-20.5637 1/1:19:0,19,0:0:0:19,0:639,0:-57.8168,-5.71957,0,-57.8168,-5.71957,-57.8168 1/2:76:0,29,46:0:0:29,46:1039,1645:-218.887,-134.15,-125.42,-84.7537,0,-70.9063 1/2:223:0,122,101:0:0:122,101:4307,3604:-644.579,-293.889,-257.163,-350.776,0,-320.372 1/1:204:0,202,0:0:0:202,0:6995,0:-629.226,-60.8081,0,-629.226,-60.8081,-629.226 1/1:192:0,190,0:0:0:190,0:6688,0:-601.751,-57.1957,0,-601.751,-57.1957,-601.751 1/1:47:0,46,0:0:0:46,0:1608,0:-144.64,-13.8474,0,-144.64,-13.8474,-144.64 1/1:47:0,47,0:0:0:47,0:1669,0:-150.135,-14.1484,0,-150.135,-14.1484,-150.135 1/2:60:0,30,30:0:0:30,30:1053,1057:-171.873,-86.1821,-77.1512,-85.8105,0,-76.7796 1/2:83:0,58,24:0:0:58,24:2038,864:-236.382,-70.5164,-53.0567,-165.882,0,-158.657 1/1:186:0,183,0:0:0:183,0:6464,0:-581.469,-55.0885,0,-581.469,-55.0885,-581.469 1/1:58:0,57,0:0:0:57,0:2022,0:-181.764,-17.1587,0,-181.764,-17.1587,-181.764 chr04 32706896 . T A 38103.2 PASS AB=0.512767;ABP=5.06188;AC=31;AF=0.738095;AN=42;AO=1852;CIGAR=1X;DP=2562;DPB=2562;DPRA=0;EPP=4024.58;EPPR=1542.58;GTI=0;LEN=1;MEANALT=1.04762;MQM=54.2716;MQMR=59.6403;NS=21;NUMALT=1;ODDS=8.88816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66255;QR=25221;RO=709;RPL=1852;RPP=4024.58;RPPR=1542.58;RPR=0;RUN=1;SAF=1852;SAP=4024.58;SAR=0;SRF=709;SRP=1542.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:199:109,90:109:3886:90:3213:-228.985,0,-290.011 0/1:90:53,37:53:1900:37:1320:-90.5974,0,-143.97 0/1:97:44,53:44:1576:53:1896:-141.379,0,-112.929 0/1:72:43,29:43:1531:29:1036:-71.5831,0,-116.392 1/1:236:4,232:4:135:232:8296:-732.039,-58.5606,0 1/1:58:0,58:0:0:58:2080:-186.73,-17.4597,0 1/1:179:0,179:0:0:179:6407:-572.86,-53.8844,0 0/1:232:112,120:112:4011:120:4270:-313.665,0,-291.307 0/1:302:156,146:156:5547:146:5240:-380.379,0,-408.417 0/1:25:8,17:8:276:17:612:-47.8091,0,-17.6495 1/1:10:0,10:0:0:10:360:-32.6564,-3.0103,0 0/1:31:14,17:14:491:17:612:-45.9958,0,-35.1799 0/1:122:57,65:57:2026:65:2325:-171.954,0,-145.866 1/1:96:0,96:0:0:96:3456:-310.589,-28.8989,0 1/1:206:0,206:0:0:206:7373:-661.72,-62.0122,0 1/1:87:0,87:0:0:87:3128:-281.559,-26.1896,0 1/1:69:0,69:0:0:69:2442:-219.554,-20.7711,0 0/1:179:81,98:81:2847:98:3503:-260.939,0,-202.557 0/1:100:28,71:28:995:71:2543:-197.448,0,-59.6993 1/1:96:0,96:0:0:96:3428:-307.481,-28.8989,0 1/1:76:0,76:0:0:76:2715:-242.698,-22.8783,0 chr04 32713842 . GATAGAAC GATAAAAA,AATAAAAC 27657.9 PASS AB=0.543906,0.452163;ABP=15.7858,18.1765;AC=31,11;AF=0.738095,0.261905;AN=42;AO=997,346;CIGAR=4M1X2M1X,1X3M1X3M;DP=1351;DPB=1351;DPRA=0,1.18368;EPP=2167.97,754.34;EPPR=5.18177;GTI=0;LEN=8,8;MEANALT=1.90476,2.25;MQM=57.4534,58.8035;MQMR=60;NS=21;NUMALT=2;ODDS=8.01808;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34941,12061;QR=35;RO=1;RPL=0,0;RPP=2167.97,754.34;RPPR=5.18177;RPR=997,346;RUN=1,1;SAF=0,0;SAP=2167.97,754.34;SAR=997,346;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,22,28:0:0:22,28:756,981:-141.493,-80.1143,-73.4916,-61.7253,0,-53.2964 1/2:21:0,10,11:0:0:10,11:356,386:-60.7513,-31.7644,-28.7541,-29.3401,0,-26.0288 1/2:88:0,53,34:0:0:53,34:1882,1207:-251.59,-98.2806,-82.326,-153.306,0,-143.071 1/2:82:0,43,39:0:0:43,39:1482,1358:-231.076,-110.76,-97.8156,-120.662,0,-108.922 1/1:93:0,91,0:0:0:91,0:3216,0:-289.223,-27.3937,0,-289.223,-27.3937,-289.223 1/1:42:0,42,0:0:0:42,0:1470,0:-132.425,-12.6433,0,-132.425,-12.6433,-132.425 1/1:51:0,51,0:0:0:51,0:1813,0:-163.186,-15.3525,0,-163.186,-15.3525,-163.186 1/2:99:0,51,48:0:0:51,48:1812,1659:-282.584,-135.143,-119.79,-147.791,0,-133.342 1/2:104:0,59,45:0:0:59,45:2058,1571:-295.288,-128.032,-110.271,-167.605,0,-154.058 1/2:5:0,2,3:0:0:2,3:72,107:-14.9521,-9.07908,-8.47702,-6.23141,0,-5.32832 1/1:4:0,4,0:0:0:4,0:143,0:-13.2084,-1.20412,0,-13.2084,-1.20412,-13.2084 1/2:24:0,14,9:0:0:14,9:455,317:-62.2786,-25.8558,-21.6414,-36.4583,0,-33.7491 1/2:104:0,48,56:0:0:48,56:1670,1904:-290.131,-154.415,-139.966,-136.06,0,-119.202 1/1:64:0,62,1:0:0:62,1:2179,32:-196.004,-18.6639,0,-193.426,-16.0854,-193.125 1/1:89:0,88,0:0:0:88,0:3116,0:-280.254,-26.4906,0,-280.254,-26.4906,-280.254 1/1:28:0,27,0:0:0:27,0:958,0:-86.1783,-8.12781,0,-86.1783,-8.12781,-86.1783 1/1:63:0,63,0:0:0:63,0:2190,0:-197.361,-18.9649,0,-197.361,-18.9649,-197.361 1/2:118:1,62,55:1:35:62,55:2170,1932:-330.513,-154.384,-138.567,-173.583,0,-159.874 1/2:68:0,51,17:0:0:51,17:1788,607:-195.128,-49.7746,-34.4221,-145.708,0,-140.591 1/1:74:0,74,0:0:0:74,0:2571,0:-231.546,-22.2762,0,-231.546,-22.2762,-231.546 1/1:80:0,80,0:0:0:80,0:2784,0:-250.394,-24.0824,0,-250.394,-24.0824,-250.394 chr04 32718636 . A C 6522.28 PASS AB=0.460465;ABP=14.6858;AC=11;AF=0.261905;AN=42;AO=398;CIGAR=1X;DP=1692;DPB=1692;DPRA=1.04745;EPP=858.592;EPPR=2804.21;GTI=1;LEN=1;MEANALT=1.25;MQM=59.9447;MQMR=59.9984;NS=21;NUMALT=1;ODDS=3.72124;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14279;QR=44113;RO=1290;RPL=1;RPP=858.592;RPPR=2804.21;RPR=397;RUN=1;SAF=398;SAP=867.256;SAR=0;SRF=1290;SRP=2804.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:51,39:51:1782:39:1385:-97.7687,0,-133.566 0/1:50:19,31:19:635:31:1116:-85.7002,0,-42.4085 0/1:89:30,59:30:1042:59:2120:-164.277,0,-67.2938 0/1:85:50,35:50:1705:35:1256:-87.7577,0,-128.138 0/0:126:123,2:123:4278:2:72:0,-31.1519,-378.363 0/0:88:88,0:88:2989:0:0:0,-26.4906,-269.237 0/0:112:112,0:112:3882:0:0:0,-33.7154,-349.576 0/1:106:56,50:56:1879:50:1800:-130.373,0,-137.467 0/1:142:81,61:81:2843:61:2185:-154.169,0,-213.36 0/1:6:5,1:5:153:1:36:-1.79209,0,-12.2663 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:46:25,21:25:839:21:756:-54.5198,0,-61.9675 0/1:92:53,39:53:1862:39:1393:-97.9739,0,-140.161 0/0:80:80,0:80:2732:0:0:0,-24.0824,-246.116 0/0:170:170,0:170:5823:0:0:0,-51.1751,-524.188 0/0:55:55,0:55:1933:0:0:0,-16.5566,-174.245 0/0:52:52,0:52:1776:0:0:0,-15.6536,-160.115 0/1:80:43,35:43:1426:35:1260:-89.8653,0,-104.782 0/1:74:48,25:48:1565:25:900:-58.986,0,-118.787 0/0:93:93,0:93:3150:0:0:0,-27.9958,-283.72 0/0:51:51,0:51:1643:0:0:0,-15.3525,-148.136 chr04 32718669 . A G 8759.54 PASS AB=0.418265;ABP=66.5502;AC=11;AF=0.261905;AN=42;AO=461;CIGAR=1X;DP=2185;DPB=2185;DPRA=1.1286;EPP=1004.06;EPPR=3746.63;GTI=1;LEN=1;MEANALT=1;MQM=59.9523;MQMR=59.9988;NS=21;NUMALT=1;ODDS=11.1673;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16484;QR=61632;RO=1724;RPL=393;RPP=500.541;RPPR=1188.13;RPR=68;RUN=1;SAF=393;SAP=500.541;SAR=68;SRF=1347;SRP=1188.13;SRR=377;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:69,48:69:2480:48:1704:-118.389,0,-188.233 0/1:52:20,32:20:716:32:1152:-88.3366,0,-49.1142 0/1:127:56,71:56:2004:71:2540:-190.62,0,-142.403 0/1:133:78,55:78:2773:55:1972:-137.718,0,-209.773 0/0:203:201,2:201:7204:2:72:0,-54.2724,-641.577 0/0:89:89,0:89:3176:0:0:0,-26.7917,-286.065 0/0:118:118,0:118:4232:0:0:0,-35.5215,-381.059 0/1:104:55,49:55:1960:49:1756:-127.017,0,-145.368 0/1:196:126,70:126:4495:70:2485:-164.9,0,-345.718 0/1:6:5,1:5:176:1:36:-1.79209,0,-14.3788 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:46:26,20:26:932:20:720:-51.2814,0,-70.3515 0/1:127:78,49:78:2788:49:1756:-120.093,0,-212.93 0/0:116:115,1:115:4119:1:36:0,-31.3212,-367.295 0/0:231:231,0:231:8257:0:0:0,-69.5379,-743.14 0/0:110:110,0:110:3952:0:0:0,-33.1133,-355.87 0/0:63:63,0:63:2248:0:0:0,-18.9649,-202.583 0/1:83:47,36:47:1679:36:1283:-90.7871,0,-126.411 0/1:104:77,27:77:2744:27:972:-56.4908,0,-215.896 0/0:103:103,0:103:3672:0:0:0,-31.0061,-330.685 0/0:51:51,0:51:1809:0:0:0,-15.3525,-163.09 chr04 32718692 . C G 64202.8 PASS AB=0.545564;ABP=33.0881;AC=31;AF=0.738095;AN=42;AO=2410;CIGAR=1X;DP=3175;DPB=3175;DPRA=0;EPP=5236.26;EPPR=1657.67;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9983;MQMR=60;NS=21;NUMALT=1;ODDS=22.6603;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85456;QR=27081;RO=762;RPL=1306;RPP=39.7758;RPPR=3.0217;RPR=1104;RUN=1;SAF=1306;SAP=39.7758;SAR=1104;SRF=380;SRP=3.0217;SRR=382;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:61,73:61:2159:73:2583:-192.382,0,-154.239 0/1:105:54,51:54:1926:51:1819:-132.382,0,-142.007 0/1:181:106,75:106:3808:75:2663:-185.429,0,-288.43 0/1:168:70,98:70:2505:98:3478:-262.658,0,-175.127 1/1:239:2,236:2:72:236:8319:-741.886,-65.1682,0 1/1:162:1,160:1:32:160:5667:-506.933,-45.6064,0 1/1:217:0,217:0:0:217:7726:-695.375,-65.3235,0 0/1:214:101,113:101:3607:113:3995:-295.321,0,-260.416 0/1:257:96,160:96:3353:160:5653:-431.508,0,-224.605 0/1:19:8,11:8:284:11:377:-28.5384,0,-20.1838 1/1:10:0,10:0:0:10:351:-31.9267,-3.0103,0 0/1:74:39,35:39:1392:35:1248:-90.3486,0,-103.303 0/1:184:76,108:76:2697:108:3856:-291.847,0,-187.584 1/1:151:1,150:1:36:150:5319:-475.246,-41.8573,0 1/1:295:0,295:0:0:295:10497:-944.649,-88.8039,0 1/1:123:0,123:0:0:123:4371:-393.565,-37.0267,0 1/1:81:0,81:0:0:81:2865:-258.088,-24.3834,0 0/1:193:102,91:102:3611:91:3216:-231.563,0,-267.097 0/1:139:44,95:44:1567:95:3351:-259.965,0,-99.4777 1/1:131:1,130:1:32:130:4640:-414.564,-36.2356,0 1/1:98:0,98:0:0:98:3462:-311.793,-29.5009,0 chr04 32719742 . T A 11255.4 PASS AB=0.490789;ABP=4.01043;AC=11;AF=0.261905;AN=42;AO=673;CIGAR=1X;DP=2765;DPB=2765;DPRA=1.30943;EPP=1447.09;EPPR=4537.05;GTI=0;LEN=1;MEANALT=1;MQM=58.9316;MQMR=59.6152;NS=21;NUMALT=1;ODDS=20.1512;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24065;QR=74664;RO=2092;RPL=671;RPP=1447.09;RPPR=4537.05;RPR=2;RUN=1;SAF=0;SAP=1464.41;SAR=673;SRF=0;SRP=4545.73;SRR=2092;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:180:90,90:90:3213:90:3198:-233.612,0,-235.176 0/1:118:64,54:64:2300:54:1944:-139.647,0,-171.504 0/1:139:76,63:76:2716:63:2241:-160.081,0,-202.816 0/1:127:60,67:60:2160:67:2399:-177.904,0,-156.25 0/0:227:225,2:225:8034:2:72:0,-61.5057,-716.159 0/0:115:115,0:115:4106:0:0:0,-34.6184,-369.532 0/0:177:177,0:177:6292:0:0:0,-53.2823,-566.255 0/1:157:75,82:75:2677:82:2929:-216.426,0,-193.867 0/1:226:99,127:99:3507:127:4552:-341.65,0,-247.771 0/1:29:15,14:15:532:14:504:-36.8278,0,-39.4832 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:26:13,13:13:468:13:464:-34.2649,0,-34.6329 0/1:58:32,26:32:1137:26:932:-66.7089,0,-85.1772 0/0:128:128,0:128:4550:0:0:0,-38.5318,-408.846 0/0:282:281,1:281:10011:1:36:0,-81.2922,-897.264 0/0:137:136,1:136:4862:1:36:0,-37.6428,-433.917 0/0:160:160,0:160:5717:0:0:0,-48.1648,-514.608 0/1:228:124,104:124:4448:104:3722:-265.993,0,-331.822 0/1:69:43,26:43:1544:26:932:-63.3544,0,-118.446 0/0:115:112,3:112:3993:3:104:0,-24.9284,-349.853 0/0:57:57,0:57:2037:0:0:0,-17.1587,-183.597 chr04 32719750 . ACCCTA ACCTA,ACCTTA 56518.7 PASS AB=0.492135,0.502622;ABP=3.72762,3.09;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1996,675;CIGAR=1M1D4M,3M1X2M;DP=2678;DPB=2345.17;DPRA=0,1.32774;EPP=4337.27,1468.75;EPPR=0;GTI=0;LEN=1,1;MEANALT=2.04762,2.46667;MQM=59.6398,58.9941;MQMR=0;NS=21;NUMALT=2;ODDS=16.5683;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70284,24101;QR=0;RO=0;RPL=1996,675;RPP=4337.27,1468.75;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4337.27,1468.75;SAR=1996,675;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:174:0,86,88:0:0:86,88:3023,3134:-501.526,-255.507,-229.618,-246.373,0,-219.882 1/2:115:0,61,54:0:0:61,54:2121,1925:-329.494,-157.205,-138.842,-172.641,0,-156.386 1/2:141:0,75,66:0:0:75,66:2635,2364:-407.384,-193.12,-170.542,-214.619,0,-194.751 1/2:122:0,55,66:0:0:55,66:1949,2342:-349.387,-190.78,-174.223,-158.603,0,-138.735 1/1:211:0,210,1:0:0:210,1:7381,36:-663.898,-63.2163,0,-660.961,-59.9191,-660.66 1/1:114:0,114,0:0:0:114,0:3963,0:-356.757,-34.3174,0,-356.757,-34.3174,-356.757 1/1:174:0,174,0:0:0:174,0:6140,0:-552.674,-52.3792,0,-552.674,-52.3792,-552.674 1/2:161:0,73,88:0:0:73,88:2550,3160:-465.324,-257.95,-235.975,-207.727,0,-181.237 1/2:223:0,96,125:0:0:96,125:3387,4449:-638.1,-362.329,-333.43,-275.79,0,-238.161 1/2:29:0,15,13:0:0:15,13:525,468:-80.804,-38.0958,-33.5803,-42.7081,0,-38.7947 1/1:10:0,10,0:0:0:10,0:356,0:-32.3812,-3.0103,0,-32.3812,-3.0103,-32.3812 1/2:25:0,12,13:0:0:12,13:432,460:-73.0687,-37.8167,-34.2043,-35.6088,0,-31.6954 1/2:58:0,31,27:0:0:31,27:1078,972:-167.278,-79.6398,-70.3079,-87.9924,0,-79.8646 1/1:122:0,122,0:0:0:122,0:4295,0:-386.701,-36.7257,0,-386.701,-36.7257,-386.701 1/1:272:0,271,1:0:0:271,1:9540,36:-858.161,-81.5791,0,-855.223,-78.2819,-854.922 1/1:130:0,129,1:0:0:129,1:4585,36:-412.323,-38.8329,0,-409.386,-35.5356,-409.085 1/1:146:0,146,0:0:0:146,0:5120,0:-460.916,-43.9504,0,-460.916,-43.9504,-460.916 1/2:221:0,114,105:0:0:114,105:4021,3747:-632.385,-304.988,-270.67,-327.433,0,-295.825 1/2:66:0,39,26:0:0:39,26:1388,936:-189.384,-76.2995,-64.5593,-113.083,0,-105.256 1/1:110:0,109,1:0:0:109,1:3859,36:-347.121,-32.8123,0,-344.183,-29.515,-343.882 1/1:54:0,54,0:0:0:54,0:1936,0:-174.513,-16.2556,0,-174.513,-16.2556,-174.513 chr04 32739805 . A C 6505.75 PASS AB=0.528378;ABP=8.18662;AC=11;AF=0.261905;AN=42;AO=393;CIGAR=1X;DP=1408;DPB=1408;DPRA=1.10038;EPP=847.735;EPPR=2142.33;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9389;MQMR=59.9704;NS=21;NUMALT=1;ODDS=5.92648;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13818;QR=36295;RO=1013;RPL=393;RPP=856.399;RPPR=2202.71;RPR=0;RUN=1;SAF=392;SAP=847.735;SAR=1;SRF=1006;SRP=2142.33;SRR=7;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:36,52:36:1296:52:1841:-139.478,0,-90.4533 0/1:48:23,25:23:828:25:881:-65.1555,0,-60.3947 0/1:47:21,26:21:752:26:924:-69.3062,0,-53.8578 0/1:81:33,48:33:1188:48:1677:-126.828,0,-82.8452 0/0:147:146,0:146:5244:0:0:0,-43.9504,-471.735 0/0:49:48,1:48:1724:1:36:0,-11.1522,-151.847 0/0:114:113,1:113:4048:1:36:0,-30.7191,-360.711 0/1:64:24,40:24:860:40:1411:-108.02,0,-58.4559 0/1:120:42,78:42:1500:78:2746:-211.254,0,-99.171 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:29:16,13:16:576:13:456:-32.6434,0,-43.4451 0/1:125:74,51:74:2660:51:1802:-124.83,0,-202.017 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/0:129:129,0:129:4615:0:0:0,-38.8329,-415.513 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/0:43:43,0:43:1531:0:0:0,-12.9443,-138.082 0/1:74:36,37:36:1292:37:1274:-92.6603,0,-94.2876 0/1:59:42,17:42:1495:17:590:-35.6634,0,-117.083 0/0:68:68,0:68:2431:0:0:0,-20.47,-219.045 0/0:35:35,0:35:1243:0:0:0,-10.536,-112.174 chr04 32743551 . TTACG CTACA,CTACG 46838 PASS AB=0.502291,0.495875;ABP=3.06006,3.17152;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1646,542;CIGAR=1X3M1X,1X4M;DP=2192;DPB=2192;DPRA=0,1.0273;EPP=3577.25,1179.95;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.7619,2.25;MQM=59.7491,59.9539;MQMR=0;NS=21;NUMALT=2;ODDS=6.44733;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58429,19430;QR=0;RO=0;RPL=0,0;RPP=3577.25,1179.95;RPPR=0;RPR=1646,542;RUN=1,1;SAF=1646,542;SAP=3577.25,1179.95;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:197:0,105,91:0:0:105,91:3709,3260:-567.949,-265.934,-234.326,-302.078,0,-274.684 1/2:117:0,48,68:0:0:48,68:1709,2440:-338.252,-198.965,-184.516,-139.294,0,-118.824 1/2:65:0,32,33:0:0:32,33:1141,1188:-190.303,-97.2946,-87.6616,-93.3664,0,-83.4325 1/2:123:0,60,63:0:0:60,63:2140,2260:-359.146,-184.698,-166.636,-174.806,0,-155.841 1/1:188:0,188,0:0:0:188,0:6652,0:-598.712,-56.5936,0,-598.712,-56.5936,-598.712 1/1:127:0,127,0:0:0:127,0:4498,0:-404.98,-38.2308,0,-404.98,-38.2308,-404.98 1/1:205:0,205,0:0:0:205,0:7285,0:-655.681,-61.7112,0,-655.681,-61.7112,-655.681 1/2:133:0,65,68:0:0:65,68:2324,2444:-389.238,-199.745,-180.178,-189.852,0,-169.382 1/2:150:0,80,70:0:0:80,70:2826,2504:-434.641,-204.541,-180.458,-230.456,0,-209.384 1/2:18:0,14,4:0:0:14,4:502,144:-53.0521,-12.1095,-7.89508,-41.3022,0,-40.098 1/1:5:0,5,0:0:0:5,0:179,0:-16.4597,-1.50515,0,-16.4597,-1.50515,-16.4597 1/2:37:0,13,24:0:0:13,24:466,864:-108.586,-70.8497,-66.9363,-38.0934,0,-30.8687 1/2:109:0,46,63:0:0:46,63:1632,2260:-317.651,-184.698,-170.85,-133.31,0,-114.345 1/1:105:0,104,0:0:0:104,0:3672,0:-330.342,-31.3071,0,-330.342,-31.3071,-330.342 1/1:176:0,174,1:0:0:174,1:6158,36:-553.986,-52.3792,0,-551.049,-49.4168,-550.748 1/1:72:0,72,0:0:0:72,0:2553,0:-230.019,-21.6742,0,-230.019,-21.6742,-230.019 1/1:78:0,78,0:0:0:78,0:2777,0:-250.111,-23.4803,0,-250.111,-23.4803,-250.111 1/2:53:0,27,26:0:0:27,26:966,922:-154.241,-75.4697,-67.3419,-79.1277,0,-71.3009 1/2:89:0,58,31:0:0:58,31:2064,1108:-258.506,-90.6991,-73.2393,-168.163,0,-158.831 1/1:89:0,89,0:0:0:89,0:3173,0:-285.786,-26.7917,0,-285.786,-26.7917,-285.786 1/1:56:0,56,0:0:0:56,0:2003,0:-180.543,-16.8577,0,-180.543,-16.8577,-180.543 chr04 32818835 . C T 22696.3 PASS AB=0.454733;ABP=20.3106;AC=31;AF=0.738095;AN=42;AO=1121;CIGAR=1X;DP=1658;DPB=1658;DPRA=0;EPP=2437.23;EPPR=1166.92;GTI=1;LEN=1;MEANALT=1.04762;MQM=60;MQMR=59.9627;NS=21;NUMALT=1;ODDS=1.15349;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40117;QR=19177;RO=536;RPL=1121;RPP=2437.23;RPPR=1166.92;RPR=0;RUN=1;SAF=0;SAP=2437.23;SAR=1121;SRF=0;SRP=1166.92;SRR=536;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:40,33:40:1424:33:1176:-83.8129,0,-106.123 0/1:139:87,52:87:3124:52:1851:-125.027,0,-239.543 0/1:86:43,43:43:1544:43:1544:-113.364,0,-113.364 0/1:60:36,24:36:1288:24:856:-59.2993,0,-98.1618 1/1:145:5,140:5:180:140:5013:-434.763,-27.0973,0 1/1:46:0,46:0:0:46:1647:-148.519,-13.8474,0 1/1:103:0,103:0:0:103:3685:-331.851,-31.0061,0 0/1:44:21,23:21:752:23:817:-60.6055,0,-54.7609 0/1:125:59,66:59:2105:66:2358:-174.85,0,-152.065 0/1:13:10,3:10:360:3:108:-6.16178,0,-28.8309 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:26:13,13:13:464:13:464:-34.2707,0,-34.2707 0/1:214:138,76:138:4928:76:2728:-181.342,0,-379.249 1/1:53:0,53:0:0:53:1889:-170.286,-15.9546,0 1/1:79:1,78:1:36:78:2799:-248.551,-20.1831,0 1/1:58:1,57:1:36:57:2040:-180.274,-13.8615,0 1/1:81:0,81:0:0:81:2916:-262.674,-24.3834,0 0/1:49:24,25:24:864:25:896:-66.2099,0,-63.3321 0/1:142:58,84:58:2072:84:2997:-227.214,0,-144.005 1/1:72:0,72:0:0:72:2573:-231.819,-21.6742,0 1/1:41:0,41:0:0:41:1472:-132.776,-12.3422,0 chr04 32822495 . GCA ACG,GCG 62990.6 PASS AB=0.547031,0.448299;ABP=31.8102,37.8133;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2382,677;CIGAR=1X1M1X,2M1X;DP=3069;DPB=3071;DPRA=0,1.1461;EPP=5175.46,1473.1;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.14286,2.46667;MQM=59.8875,59.9764;MQMR=0;NS=21;NUMALT=2;ODDS=31.9107;PAIRED=0,0;PAIREDR=0;PAO=6,0;PQA=216,0;PQR=0;PRO=0;QA=81728,23930;QR=0;RO=0;RPL=2376,676;RPP=5123.47,1464.42;RPPR=0;RPR=6,1;RUN=1,1;SAF=2376,676;SAP=5123.47,1464.42;SAR=6,1;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:157:0,75,82:0:0:75,82:2551,2906:-443.909,-237.092,-214.514,-207.164,0,-182.479 1/2:131:0,80,51:0:0:80,51:2747,1799:-369.878,-146.832,-122.75,-223.395,0,-208.042 1/2:122:0,70,52:0:0:70,52:2454,1819:-348.028,-148.334,-127.262,-200.044,0,-184.39 1/2:139:0,75,64:0:0:75,64:2566,2250:-391.759,-183.494,-160.917,-208.612,0,-189.346 1/1:325:0,322,2:0:0:322,2:11006,72:-989.269,-96.9317,0,-983.394,-91.0493,-982.792 1/1:129:0,128,1:0:0:128,1:4424,36:-397.977,-38.5318,0,-395.039,-35.2346,-394.738 1/1:195:0,195,0:0:0:195,0:6699,0:-602.647,-58.7009,0,-602.647,-58.7009,-602.647 1/2:129:0,77,50:0:0:77,50:2669,1756:-359.874,-142.944,-119.764,-216.958,0,-201.907 1/2:232:0,128,103:0:0:128,103:4363,3631:-649.612,-295.646,-257.114,-353.973,0,-322.967 1/2:20:0,5,15:0:0:5,15:174,540:-58.5669,-44.4211,-42.9159,-14.4967,0,-9.98122 1/1:14:0,14,0:0:0:14,0:488,0:-44.2498,-4.21442,0,-44.2498,-4.21442,-44.2498 1/2:71:0,37,33:0:0:37,33:1288,1183:-201.212,-96.4844,-85.3463,-104.722,0,-94.7876 1/2:162:0,87,73:0:0:87,73:2959,2598:-451.795,-211.788,-185.598,-240.05,0,-218.075 1/1:145:0,144,1:0:0:144,1:4883,36:-439.28,-43.3483,0,-436.342,-40.0511,-436.041 1/1:280:0,280,0:0:0:280,0:9622,0:-865.602,-84.2884,0,-865.602,-84.2884,-865.602 1/1:111:0,110,0:0:0:110,0:3779,0:-340.104,-33.1133,0,-340.104,-33.1133,-340.104 1/1:127:0,127,0:0:0:127,0:4412,0:-397.262,-38.2308,0,-397.262,-38.2308,-397.262 1/2:222:0,105,116:0:0:105,116:3626,4093:-627.873,-333.28,-301.672,-294.581,0,-259.662 1/2:114:0,81,33:0:0:81,33:2770,1175:-320.931,-96.123,-71.7395,-225.159,0,-215.225 1/1:177:0,176,1:0:0:176,1:5981,36:-537.973,-52.9813,0,-535.035,-50.0439,-534.734 1/1:67:0,66,0:0:0:66,0:2267,0:-203.932,-19.868,0,-203.932,-19.868,-203.932 chr04 32822565 . G T 10267.1 PASS AB=0.485063;ABP=5.4754;AC=10;AF=0.238095;AN=42;AO=627;CIGAR=1X;DP=2630;DPB=2630;DPRA=1.68076;EPP=1364.52;EPPR=4350.3;GTI=0;LEN=1;MEANALT=1.07143;MQM=54.4402;MQMR=59.6404;NS=21;NUMALT=1;ODDS=10.101;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22438;QR=71518;RO=2002;RPL=0;RPP=1364.52;RPPR=4350.3;RPR=627;RUN=1;SAF=627;SAP=1364.52;SAR=0;SRF=2002;SRP=4350.3;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:230:126,104:126:4493:104:3717:-265.053,0,-335.229 0/1:151:51,99:51:1824:99:3536:-270.685,0,-118.92 0/1:98:57,41:57:2029:41:1457:-101.62,0,-153.377 0/1:94:50,44:50:1796:44:1580:-114.085,0,-133.517 0/0:362:357,5:357:12781:5:176:0,-92.7983,-1133.52 0/0:110:109,1:109:3882:1:36:0,-29.5241,-345.946 0/0:160:159,1:159:5654:1:36:0,-44.5756,-505.339 0/1:110:47,63:47:1673:63:2260:-169.986,0,-117.728 0/1:247:137,110:137:4898:110:3948:-280.556,0,-366.609 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:35:11,24:11:388:24:864:-67.3905,0,-24.7213 0/1:148:89,59:89:3180:59:2109:-144.983,0,-241.848 0/0:164:164,0:164:5831:0:0:0,-49.3689,-524.87 0/0:167:167,0:167:5988:0:0:0,-50.272,-538.768 0/0:132:132,0:132:4706:0:0:0,-39.736,-423.57 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.339 0/1:73:32,41:32:1152:41:1472:-110.444,0,-82.0103 0/1:86:54,32:54:1932:32:1139:-76.8468,0,-148.266 0/0:123:120,3:120:4300:3:108:0,-26.9695,-377.093 0/0:73:73,0:73:2611:0:0:0,-21.9752,-235.229 chr04 32843218 . T C 20371.7 PASS AB=0.632541;ABP=86.475;AC=31;AF=0.738095;AN=42;AO=970;CIGAR=1X;DP=1175;DPB=1175;DPRA=0;EPP=2109.34;EPPR=448.162;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.45031;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34584;QR=7218;RO=205;RPL=970;RPP=2109.34;RPPR=448.162;RPR=0;RUN=1;SAF=0;SAP=2109.34;SAR=970;SRF=0;SRP=448.162;SRR=205;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:36,39:36:1273:39:1389:-102.73,0,-92.2937 0/1:32:16,16:16:576:16:568:-41.8189,0,-42.542 0/1:48:15,33:15:513:33:1184:-92.4189,0,-32.0434 0/1:99:32,67:32:1144:67:2377:-184.385,0,-73.4675 1/1:137:2,135:2:72:135:4802:-425.5,-34.4044,0 1/1:41:0,41:0:0:41:1453:-131.064,-12.3422,0 1/1:105:0,105:0:0:105:3772:-339.678,-31.6082,0 0/1:38:9,29:9:305:29:1039:-82.385,0,-16.3381 0/1:67:19,48:19:684:48:1719:-134.827,0,-41.7213 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 1/1:4:0,4:0:0:4:129:-11.9277,-1.20412,0 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:92:42,50:42:1462:50:1781:-132.877,0,-104.176 1/1:72:0,72:0:0:72:2588:-233.168,-21.6742,0 1/1:100:0,100:0:0:100:3584:-322.766,-30.103,0 1/1:46:1,45:1:36:45:1578:-138.708,-10.2491,0 1/1:42:0,42:0:0:42:1470:-132.59,-12.6433,0 0/1:28:12,16:12:428:16:576:-43.7461,0,-30.43 0/1:50:11,39:11:369:39:1400:-111.248,0,-18.4811 1/1:45:1,44:1:36:44:1569:-137.902,-9.94808,0 1/1:36:0,36:0:0:36:1282:-115.683,-10.8371,0 chr04 32852662 . A G 13123.2 PASS AB=0.572289;ABP=18.0798;AC=32;AF=0.761905;AN=42;AO=495;CIGAR=1X;DP=641;DPB=641;DPRA=0;EPP=4.59394;EPPR=7.82918;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.52809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17608;QR=5209;RO=146;RPL=494;RPP=1069.22;RPPR=320.045;RPR=1;RUN=1;SAF=237;SAP=4.94488;SAR=258;SRF=82;SRP=7.82918;SRR=64;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:19:13,6:13:464:6:216:-14.0709,0,-36.3779 0/1:24:12,12:12:432:12:432:-31.9965,0,-31.9965 0/1:14:8,6:8:284:6:216:-15.5761,0,-21.6889 0/1:17:8,9:8:284:9:316:-23.6613,0,-20.7858 1/1:46:2,44:2:68:44:1580:-136.034,-7.38967,0 1/1:27:1,26:1:36:26:932:-80.6006,-4.52954,0 1/1:37:0,37:0:0:37:1296:-116.938,-11.1381,0 0/1:43:18,25:18:648:25:900:-68.3767,0,-45.7076 0/1:29:12,17:12:428:17:608:-46.3222,0,-30.1289 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:29:11,18:11:396:18:644:-49.5607,0,-27.2529 1/1:33:0,33:0:0:33:1176:-106.148,-9.93399,0 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 1/1:17:0,17:0:0:17:603:-54.5995,-5.11751,0 0/1:94:37,57:37:1305:57:2044:-155.935,0,-89.4526 0/1:59:20,39:20:720:39:1374:-106.196,0,-47.368 1/1:20:0,20:0:0:20:712:-64.4067,-6.0206,0 1/1:80:1,79:1:36:79:2779:-246.751,-20.4841,0 chr04 32887497 . G T 20415.1 PASS AB=0.567164;ABP=26.6372;AC=31;AF=0.738095;AN=42;AO=984;CIGAR=1X;DP=1250;DPB=1250;DPRA=0;EPP=2139.74;EPPR=580.622;GTI=0;LEN=1;MEANALT=1;MQM=59.2988;MQMR=59.9662;NS=21;NUMALT=1;ODDS=14.9008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34922;QR=9523;RO=266;RPL=984;RPP=2139.74;RPPR=580.622;RPR=0;RUN=1;SAF=0;SAP=2139.74;SAR=984;SRF=0;SRP=580.622;SRR=266;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:48,63:48:1724:63:2256:-169.87,0,-122.031 0/1:62:34,28:34:1211:28:1004:-71.9606,0,-90.6317 0/1:32:15,17:15:532:17:589:-43.7003,0,-38.5801 0/1:77:21,56:21:752:56:1983:-155.464,0,-44.8269 1/1:155:0,155:0:0:155:5473:-492.482,-46.6597,0 1/1:68:3,65:3:108:65:2313:-198.319,-10.3949,0 1/1:122:2,120:2:72:120:4300:-380.034,-29.8889,0 0/1:32:10,22:10:360:22:788:-61.6012,0,-23.1113 0/1:95:47,48:47:1680:48:1705:-125.119,0,-122.889 0/1:8:6,2:6:216:2:72:-4.41728,0,-17.3715 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:15:8,7:8:284:7:252:-18.5135,0,-21.3879 0/1:84:34,50:34:1220:50:1766:-133.932,0,-84.8203 1/1:41:0,41:0:0:41:1453:-130.938,-12.3422,0 1/1:96:0,96:0:0:96:3371:-302.709,-28.8989,0 1/1:31:0,31:0:0:31:1093:-98.6719,-9.33193,0 1/1:47:0,47:0:0:47:1656:-149.318,-14.1484,0 0/1:60:30,30:30:1076:30:1060:-77.5939,0,-79.0911 0/1:27:8,19:8:288:19:680:-53.3889,0,-18.1396 1/1:47:0,47:0:0:47:1684:-151.706,-14.1484,0 1/1:36:0,36:0:0:36:1284:-115.617,-10.8371,0 chr04 32887641 . A G 35615.3 PASS AB=0.47109;ABP=10.6691;AC=31;AF=0.738095;AN=42;AO=1375;CIGAR=1X;DP=1941;DPB=1941;DPRA=0;EPP=46.0055;EPPR=43.067;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.8516;MQMR=59.7908;NS=21;NUMALT=1;ODDS=2.05323;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48244;QR=20186;RO=564;RPL=1;RPP=2980.11;RPPR=1210.41;RPR=1374;RUN=1;SAF=606;SAP=44.9695;SAR=769;SRF=233;SRP=39.9869;SRR=331;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:53,55:53:1900:55:1878:-136.776,0,-138.764 0/1:148:81,67:81:2908:67:2373:-169.274,0,-217.403 0/1:75:43,32:43:1525:32:1107:-77.3513,0,-114.927 0/1:116:74,41:74:2630:41:1440:-94.9128,0,-201.963 1/1:132:1,131:1:36:131:4621:-412.262,-36.1377,0 1/1:57:1,56:1:36:56:1952:-172.349,-13.5604,0 1/1:164:0,164:0:0:164:5720:-514.918,-49.3689,0 0/1:55:31,24:31:1116:24:855:-60.7135,0,-84.1904 0/1:142:74,68:74:2652:68:2410:-174.407,0,-196.179 0/1:20:14,6:14:504:6:216:-13.7699,0,-39.6775 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:18:9,9:9:320:9:324:-24.0873,0,-23.7223 0/1:165:94,71:94:3376:71:2490:-174.653,0,-253.608 1/1:120:1,119:1:36:119:4107:-366.217,-32.5253,0 1/1:95:0,95:0:0:95:3354:-302.062,-28.5979,0 1/1:46:0,46:0:0:46:1587:-143.113,-13.8474,0 1/1:44:0,44:0:0:44:1542:-139.069,-13.2453,0 0/1:89:44,45:44:1575:45:1612:-118.533,0,-115.203 0/1:119:39,79:39:1396:79:2796:-215.989,0,-90.0578 1/1:103:3,100:3:108:100:3535:-308.267,-20.9309,0 1/1:121:2,119:2:68:119:4181:-370.006,-29.9669,0 chr04 32887647 . G A 12867.7 PASS AB=0.522275;ABP=7.55701;AC=11;AF=0.261905;AN=42;AO=557;CIGAR=1X;DP=1952;DPB=1952;DPRA=1.22667;EPP=1028.98;EPPR=2541.42;GTI=0;LEN=1;MEANALT=1;MQM=59.8276;MQMR=59.8287;NS=21;NUMALT=1;ODDS=3.14408;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19799;QR=49356;RO=1395;RPL=210;RPP=76.1815;RPPR=129.446;RPR=347;RUN=1;SAF=232;SAP=36.7285;SAR=325;SRF=614;SRP=46.4226;SRR=781;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:54,52:54:1853:52:1830:-133.068,0,-135.128 0/1:152:71,81:71:2503:81:2882:-213.857,0,-179.762 0/1:75:32,43:32:1118:43:1516:-114.084,0,-78.3441 0/1:116:42,74:42:1482:74:2616:-200.744,0,-98.7511 0/0:132:131,1:131:4669:1:36:0,-36.1377,-414.826 0/0:61:60,1:60:2106:1:36:0,-14.7646,-186.206 0/0:165:165,0:165:5868:0:0:0,-49.6699,-528.222 0/1:55:24,31:24:856:31:1108:-83.4697,0,-60.8026 0/1:140:67,73:67:2381:73:2611:-193.092,0,-172.402 0/1:20:6,14:6:216:14:500:-39.3156,0,-13.7699 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:17:8,9:8:273:9:315:-23.5695,0,-19.7827 0/1:167:76,91:76:2689:91:3245:-241.628,0,-191.954 0/0:121:120,1:120:4174:1:36:0,-32.8264,-372.24 0/0:96:96,0:96:3431:0:0:0,-28.8989,-308.985 0/0:49:49,0:49:1728:0:0:0,-14.7505,-155.795 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.608 0/1:89:45,44:45:1603:44:1569:-114.708,0,-117.759 0/1:118:79,39:79:2813:39:1391:-89.9667,0,-217.882 0/0:103:100,3:100:3554:3:108:0,-20.9309,-309.994 0/0:120:120,0:120:4247:0:0:0,-36.1236,-382.399 chr04 32899576 . C A 9360.17 PASS AB=0.482234;ABP=5.71086;AC=11;AF=0.261905;AN=42;AO=483;CIGAR=1X;DP=1838;DPB=1838;DPRA=1.59817;EPP=621.817;EPPR=1645.48;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9462;MQMR=59.9705;NS=21;NUMALT=1;ODDS=9.79886;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17284;QR=47895;RO=1354;RPL=427;RPP=621.817;RPPR=1645.48;RPR=56;RUN=1;SAF=483;SAP=1051.83;SAR=0;SRF=1354;SRP=2943.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:16,15:16:564:15:536:-39.2425,0,-41.7584 0/1:85:45,40:45:1591:40:1428:-103.23,0,-117.892 0/1:61:32,29:32:1135:29:1044:-75.912,0,-84.0952 0/1:138:67,71:67:2370:71:2528:-186.227,0,-172.002 0/0:204:201,3:201:7130:3:104:0,-51.7073,-632.06 0/0:57:53,4:53:1842:4:144:0,-3.84509,-152.739 0/0:110:110,0:110:3892:0:0:0,-33.1133,-350.476 0/1:70:34,36:34:1212:36:1288:-95.1515,0,-88.3096 0/1:126:73,53:73:2612:53:1904:-133.707,0,-197.395 0/1:11:7,4:7:248:4:144:-10.0023,0,-19.3529 0/0:6:6,0:6:207:0:0:0,-1.80618,-18.9669 0/1:15:5,10:5:180:10:352:-27.5027,0,-12.0366 0/1:161:81,79:81:2871:79:2828:-206.233,0,-210.104 0/0:55:55,0:55:1936:0:0:0,-16.5566,-174.514 0/0:154:153,1:153:5413:1:36:0,-42.7603,-483.708 0/0:65:65,0:65:2316:0:0:0,-19.5669,-208.701 0/0:34:34,0:34:1186:0:0:0,-10.235,-107.042 0/1:201:96,105:96:3396:105:3760:-278.062,0,-245.349 0/1:86:53,33:53:1862:33:1188:-81.34,0,-141.967 0/0:111:111,0:111:3946:0:0:0,-33.4143,-355.333 0/0:57:57,0:57:1986:0:0:0,-17.1587,-179.011 chr04 32899602 . GAC AAT 5588.68 PASS AB=0.3314;ABP=343.494;AC=11;AF=0.261905;AN=42;AO=463;CIGAR=1X1M1X;DP=3053;DPB=3053;DPRA=0.987661;EPP=1008.4;EPPR=5620.61;GTI=2;LEN=3;MEANALT=1.07692;MQM=59.9741;MQMR=53.3637;NS=21;NUMALT=1;ODDS=2.79479;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16155;QR=87944;RO=2587;RPL=463;RPP=1008.4;RPPR=16.9784;RPR=0;RUN=1;SAF=463;SAP=1008.4;SAR=0;SRF=1358;SRP=16.9784;SRR=1229;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:62,15:62:2141:15:530:-24.8523,0,-167.975 0/1:121:83,38:83:2812:38:1334:-83.9326,0,-215.615 0/1:98:70,28:70:2389:28:987:-59.6419,0,-183.825 0/1:185:115,70:115:3839:70:2444:-164.522,0,-287.881 0/0:364:361,3:361:12278:3:90:0,-101.177,-1090.46 0/0:138:135,3:135:4572:3:108:0,-31.467,-398.574 0/0:223:223,0:223:7618:0:0:0,-67.1297,-681.512 0/1:128:92,36:92:3124:36:1265:-75.6196,0,-240.445 0/1:205:152,52:152:5176:52:1813:-101.835,0,-401.514 0/1:18:14,4:14:454:4:144:-7.89508,0,-35.5319 0/0:15:15,0:15:520:0:0:0,-4.51545,-46.6116 0/1:21:11,10:11:366:10:344:-24.9701,0,-26.7955 0/1:185:110,75:110:3737:75:2593:-177.924,0,-279.794 0/0:141:141,0:141:4790:0:0:0,-42.4452,-427.211 0/0:301:301,0:301:10238:0:0:0,-90.61,-915.896 0/0:107:107,0:107:3631:0:0:0,-32.2102,-325.655 0/0:78:77,0:77:2633:0:0:0,-23.1793,-235.813 0/1:216:120,96:120:4003:96:3383:-239.665,0,-294.781 0/1:125:92,33:92:3168:33:1120:-63.4719,0,-245.638 0/0:198:197,0:197:6741:0:0:0,-59.3029,-602.744 0/0:109:109,0:109:3714:0:0:0,-32.8123,-332.453 chr04 32900017 . G A 3380.15 PASS AB=0.475155;ABP=4.73669;AC=11;AF=0.261905;AN=42;AO=154;CIGAR=1X;DP=608;DPB=608;DPRA=1.1822;EPP=12.5422;EPPR=220.488;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.00138;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5471;QR=16003;RO=453;RPL=6;RPP=287.332;RPPR=528.195;RPR=148;RUN=1;SAF=70;SAP=5.77399;SAR=84;SRF=181;SRP=42.7056;SRR=272;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:10,11:10:352:11:383:-28.4816,0,-25.6966 0/1:25:12,13:12:428:13:456:-33.8469,0,-31.3331 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 0/1:19:11,8:11:392:8:288:-20.5478,0,-29.9005 0/0:50:48,1:48:1705:1:36:0,-11.512,-150.136 0/0:20:20,0:20:708:0:0:0,-6.0206,-64.0456 0/0:27:27,0:27:936:0:0:0,-8.12781,-84.55 0/1:27:13,14:13:468:14:504:-37.5703,0,-34.3318 0/1:26:13,13:13:464:13:454:-33.3636,0,-34.2707 0/1:6:1,5:1:36:5:176:-14.3788,0,-1.79209 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/1:24:13,11:13:464:11:392:-28.3953,0,-34.8728 0/0:19:19,0:19:667:0:0:0,-5.71957,-60.3546 0/0:45:45,0:45:1595:0:0:0,-13.5463,-143.84 0/0:16:16,0:16:559:0:0:0,-4.81648,-50.6376 0/0:15:15,0:15:532:0:0:0,-4.51545,-48.2131 0/1:98:45,53:45:1576:53:1886:-140.516,0,-112.627 0/1:60:43,17:43:1509:17:608:-36.9902,0,-118.039 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/0:68:68,0:68:2400:0:0:0,-20.47,-216.255 chr04 32925105 . CGC GGC,GGG 22771.1 PASS AB=0.504836,0.487427;ABP=3.1153,3.72012;AC=31,11;AF=0.738095,0.261905;AN=42;AO=824,254;CIGAR=1X2M,1X1M1X;DP=1084;DPB=1085.33;DPRA=0,1.19732;EPP=1792.3,554.564;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.85714,2.38462;MQM=59.9102,59.8189;MQMR=60;NS=21;NUMALT=2;ODDS=3.78198;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=36,36;PQR=0;PRO=0;QA=29322,8738;QR=36;RO=1;RPL=824,254;RPP=1792.3,554.564;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=824,254;SAP=1792.3,554.564;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,40,59:0:0:40,59:1436,2063:-285.058,-167.916,-155.875,-117.234,0,-99.4731 1/2:38:0,18,20:0:0:18,20:640,685:-108.109,-55.9478,-50.5293,-52.5108,0,-46.4902 1/2:54:0,27,26:0:0:27,26:952,906:-151.332,-73.8125,-65.6847,-77.6523,0,-69.8255 1/2:29:0,17,12:0:0:17,12:612,416:-84.1027,-34.1588,-29.0413,-50.2959,0,-46.6836 1/1:100:0,99,1:0:0:99,1:3519,28:-316.641,-29.802,0,-314.423,-27.3033,-314.122 1/1:56:0,56,0:0:0:56,0:1989,0:-179.281,-16.8577,0,-179.281,-16.8577,-179.281 1/1:73:1,72,0:1:36:72,0:2573,0:-228.212,-18.3769,0,-228.513,-21.6742,-231.45 1/2:40:0,19,21:0:0:19,21:684,691:-112.001,-56.1753,-50.4558,-56.1708,0,-49.8491 1/2:109:0,53,55:0:0:53,55:1888,1910:-309.237,-155.344,-139.39,-153.972,0,-137.416 1/2:6:0,4,2:0:0:4,2:144,70:-17.8016,-6.04527,-4.84115,-12.1095,0,-11.5074 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:21:0,13,8:0:0:13,8:464,286:-61.5043,-23.6772,-19.7639,-38.1841,0,-35.7759 1/2:55:0,30,25:0:0:30,25:1068,846:-155.976,-68.921,-59.8901,-87.4012,0,-79.8754 1/1:34:0,34,0:0:0:34,0:1204,0:-108.664,-10.235,0,-108.664,-10.235,-108.664 1/1:51:0,51,0:0:0:51,0:1813,0:-163.391,-15.3525,0,-163.391,-15.3525,-163.391 1/1:52:0,52,0:0:0:52,0:1860,0:-167.623,-15.6536,0,-167.623,-15.6536,-167.623 1/1:62:0,62,0:0:0:62,0:2204,0:-198.626,-18.6639,0,-198.626,-18.6639,-198.626 1/2:34:0,13,20:0:0:13,20:464,659:-91.1327,-53.2939,-49.3805,-37.8987,0,-31.8781 1/2:31:0,27,4:0:0:27,4:945,144:-88.9854,-12.1095,-3.98169,-77.2344,0,-76.0303 1/1:99:0,97,1:0:0:97,1:3431,34:-308.65,-29.1999,0,-305.892,-26.4068,-305.591 1/1:31:0,31,0:0:0:31,0:1108,0:-100.031,-9.33193,0,-100.031,-9.33193,-100.031 chr04 32982970 . A G 12608.6 PASS AB=0.497687;ABP=3.08063;AC=11;AF=0.261905;AN=42;AO=759;CIGAR=1X;DP=2806;DPB=2806;DPRA=1.01185;EPP=1633.83;EPPR=4299.41;GTI=0;LEN=1;MEANALT=1;MQM=59.7022;MQMR=59.9257;NS=21;NUMALT=1;ODDS=15.2317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26892;QR=73193;RO=2046;RPL=757;RPP=1633.83;RPPR=4299.41;RPR=2;RUN=1;SAF=0;SAP=1651.16;SAR=759;SRF=0;SRP=4445.84;SRR=2046;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:216:109,107:109:3896:107:3782:-275.53,0,-285.758 0/1:146:83,63:83:2975:63:2248:-158.63,0,-224.023 0/1:140:72,68:72:2588:68:2411:-175.093,0,-191.024 0/1:122:62,60:62:2212:60:2114:-153.803,0,-162.619 0/0:183:181,2:181:6483:2:72:0,-48.2518,-576.7 0/0:164:164,0:164:5883:0:0:0,-49.3689,-529.508 0/0:177:177,0:177:6313:0:0:0,-53.2823,-568.227 0/1:210:100,110:100:3575:110:3898:-287.792,0,-258.741 0/1:193:92,101:92:3273:101:3601:-266.151,0,-236.691 0/1:23:11,12:11:392:12:423:-31.4794,0,-28.6892 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8131 0/1:52:23,29:23:828:29:1031:-77.4206,0,-59.1906 0/1:174:75,99:75:2688:99:3484:-261.365,0,-189.784 0/0:134:134,0:134:4786:0:0:0,-40.338,-430.892 0/0:248:248,0:248:8865:0:0:0,-74.6554,-797.827 0/0:100:100,0:100:3587:0:0:0,-30.103,-323.022 0/0:125:124,1:124:4427:1:36:0,-34.0305,-394.998 0/1:134:66,68:66:2372:68:2415:-177.254,0,-173.4 0/1:103:67,36:67:2408:36:1280:-84.4925,0,-185.97 0/0:89:88,0:88:3151:0:0:0,-26.4906,-283.594 0/0:57:54,3:54:1919:3:97:0,-8.10974,-163.868 chr04 32995047 . G A 3477.01 PASS AB=0.505995;ABP=3.14048;AC=11;AF=0.261905;AN=42;AO=211;CIGAR=1X;DP=840;DPB=840;DPRA=0.896196;EPP=461.191;EPPR=1368.87;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9857;NS=21;NUMALT=1;ODDS=8.30409;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7543;QR=22302;RO=629;RPL=211;RPP=461.191;RPPR=1360.19;RPR=0;RUN=1;SAF=211;SAP=461.191;SAR=0;SRF=628;SRP=1360.19;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:34,31:34:1197:31:1112:-80.8244,0,-88.4662 0/1:31:14,17:14:489:17:608:-45.7201,0,-35.007 0/1:41:21,20:21:756:20:716:-52.4255,0,-56.025 0/1:38:16,22:16:576:22:783:-59.3538,0,-40.7358 0/0:62:62,0:62:2207:0:0:0,-18.6639,-198.884 0/0:63:63,0:63:2255:0:0:0,-18.9649,-203.212 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.587 0/1:29:14,15:14:500:15:536:-39.8449,0,-36.6063 0/1:64:33,31:33:1179:31:1108:-80.7651,0,-87.1513 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/0:5:5,0:5:167:0:0:0,-1.50515,-15.3584 0/1:19:8,11:8:284:11:392:-29.9005,0,-20.1838 0/1:24:11,13:11:387:13:468:-35.2349,0,-27.9412 0/0:46:46,0:46:1622:0:0:0,-13.8474,-146.267 0/0:72:72,0:72:2571:0:0:0,-21.6742,-231.639 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:23:23,0:23:809:0:0:0,-6.92369,-73.1283 0/1:57:25,32:25:873:32:1140:-85.7505,0,-61.7256 0/1:40:26,14:26:895:14:500:-33.295,0,-68.8186 0/0:58:58,0:58:2036:0:0:0,-17.4597,-183.51 0/0:17:17,0:17:599:0:0:0,-5.11751,-54.2381 chr04 33004437 . 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G T 23649.7 PASS AB=0.471478;ABP=9.07981;AC=31;AF=0.738095;AN=42;AO=1129;CIGAR=1X;DP=1592;DPB=1592;DPRA=0;EPP=2402.76;EPPR=997.545;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.2781;MQMR=60;NS=21;NUMALT=1;ODDS=5.72169;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40470;QR=16374;RO=458;RPL=1123;RPP=2402.76;RPPR=997.545;RPR=6;RUN=1;SAF=0;SAP=2454.6;SAR=1129;SRF=0;SRP=997.545;SRR=458;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:45,32:45:1601:32:1148:-80.4472,0,-121.199 0/1:37:6,31:6:216:31:1108:-88.7464,0,-8.6524 0/1:85:50,35:50:1792:35:1252:-87.3697,0,-135.975 0/1:92:61,31:61:2175:31:1112:-72.37,0,-168.321 1/1:124:2,122:2:72:122:4376:-386.931,-30.491,0 1/1:39:0,39:0:0:39:1389:-125.299,-11.7402,0 1/1:102:0,101:0:0:101:3624:-325.886,-30.404,0 0/1:170:98,72:98:3520:72:2576:-180.01,0,-265.834 0/1:60:23,37:23:828:37:1328:-101.739,0,-56.7823 0/1:10:5,5:5:176:5:176:-13.1747,0,-13.1747 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:36:22,14:22:784:14:504:-34.8606,0,-60.0468 0/1:100:62,38:62:2224:38:1360:-92.5839,0,-170.321 1/1:73:0,73:0:0:73:2601:-234.222,-21.9752,0 1/1:165:0,165:0:0:165:5924:-532.79,-49.67,0 1/1:63:0,63:0:0:63:2256:-203.189,-18.9649,0 1/1:44:0,44:0:0:44:1580:-142.471,-13.2453,0 0/1:118:45,72:45:1603:72:2584:-197.049,0,-108.979 0/1:74:36,38:36:1275:38:1364:-100.757,0,-92.7761 1/1:61:3,57:3:108:57:2048:-174.442,-8.34646,0 1/1:54:0,52:0:0:52:1872:-168.326,-15.6536,0 chr04 33007391 . A T 32288.2 PASS AB=0.503369;ABP=3.11271;AC=31;AF=0.738095;AN=42;AO=1544;CIGAR=1X;DP=2070;DPB=2070;DPRA=0;EPP=3355.76;EPPR=1134.35;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.60364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55144;QR=18632;RO=521;RPL=0;RPP=3355.76;RPPR=1134.35;RPR=1544;RUN=1;SAF=1544;SAP=3355.76;SAR=0;SRF=521;SRP=1134.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:57,64:57:2017:64:2292:-170.117,0,-145.377 0/1:57:31,26:31:1112:26:932:-67.0402,0,-83.2326 0/1:99:44,55:44:1576:55:1956:-146.514,0,-112.33 0/1:104:64,40:64:2289:40:1436:-98.2305,0,-174.963 1/1:229:2,227:2:72:227:8110:-723.082,-62.0991,0 1/1:59:1,58:1:36:58:2088:-184.592,-14.1625,0 1/1:166:0,166:0:0:166:5915:-532.462,-49.971,0 0/1:226:133,93:133:4761:93:3328:-231.705,0,-360.613 0/1:148:62,86:62:2213:86:3065:-231.526,0,-154.881 0/1:5:2,3:2:72:3:99:-7.73143,0,-5.33157 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:21:7,14:7:252:14:500:-39.0145,0,-16.7073 0/1:74:48,26:48:1728:26:932:-61.9226,0,-133.529 1/1:96:0,96:0:0:96:3406:-306.753,-28.8989,0 1/1:232:0,227:0:0:227:8086:-727.4,-68.3338,0 1/1:77:0,77:0:0:77:2772:-249.72,-23.1793,0 1/1:51:0,51:0:0:51:1828:-164.801,-15.3525,0 0/1:100:41,59:41:1468:59:2107:-159.796,0,-102.313 0/1:84:27,57:27:968:57:2044:-158.945,0,-62.1508 1/1:70:1,69:1:32:69:2457:-218.184,-17.8728,0 1/1:46:1,45:1:36:45:1611:-141.681,-10.2491,0 chr04 33012208 . 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TC AT,GT 78670.5 PASS AB=0.473091,0.525031;ABP=13.0605,11.7071;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2234,845;CIGAR=2X,2X;DP=3083;DPB=3083.5;DPRA=0,1.03383;EPP=171.223,104.777;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.85714,2.21429;MQM=41.4047,54.6036;MQMR=0;NS=21;NUMALT=2;ODDS=16.6858;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=77607,29945;QR=0;RO=0;RPL=2233,844;RPP=4845.4,1829.23;RPPR=0;RPR=1,1;RUN=1,1;SAF=908,322;SAP=172.844,106.832;SAR=1326,523;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:200:0,91,109:0:0:91,109:3158,3893:-562.336,-316.801,-289.407,-245.879,0,-213.066 1/2:172:0,80,92:0:0:80,92:2795,3296:-474.694,-267.684,-243.602,-207.347,0,-179.653 1/2:55:0,23,32:0:0:23,32:787,1135:-154.3,-92.5562,-85.6325,-62.0849,0,-52.4519 1/2:153:0,68,85:0:0:68,85:2358,2988:-424.692,-242.357,-221.887,-182.675,0,-157.087 1/1:271:0,269,2:0:0:269,2:9354,72:-806.825,-80.9771,0,-800.962,-74.7554,-800.36 1/1:175:0,175,0:0:0:175,0:6144,0:-512.48,-52.6803,0,-512.48,-52.6803,-512.48 1/1:252:0,252,0:0:0:252,0:8712,0:-742.999,-75.8596,0,-742.999,-75.8596,-742.999 1/2:123:0,63,60:0:0:63,60:2214,2114:-345.085,-171.748,-152.783,-173.682,0,-155.62 1/2:337:0,144,191:0:0:144,191:5016,6716:-940.235,-545.725,-502.377,-394.493,0,-336.997 1/2:33:0,13,19:0:0:13,19:434,680:-89.6497,-55.4761,-51.5627,-34.2542,0,-28.5346 1/1:20:0,20,0:0:0:20,0:686,0:-59.121,-6.0206,0,-59.121,-6.0206,-59.121 1/2:55:0,28,27:0:0:28,27:989,968:-154.598,-79.0193,-70.5904,-75.9246,0,-67.7968 1/2:145:0,55,90:0:0:55,90:1868,3187:-402.548,-258.533,-241.976,-144.35,0,-117.258 1/1:144:0,143,0:0:0:143,0:4882,0:-421.775,-43.0473,0,-421.775,-43.0473,-421.775 1/1:194:0,194,0:0:0:194,0:6743,0:-588.165,-58.3998,0,-588.165,-58.3998,-588.165 1/1:113:0,112,1:0:0:112,1:3909,36:-341.929,-33.7154,0,-339.019,-30.4496,-338.718 1/1:112:0,112,0:0:0:112,0:3878,0:-338.728,-33.7154,0,-338.728,-33.7154,-338.728 1/2:195:0,110,85:0:0:110,85:3821,3003:-545.586,-243.794,-210.681,-302.138,0,-276.55 1/2:130:0,81,49:0:0:81,49:2844,1751:-364.143,-142.131,-117.748,-222.361,0,-207.61 1/1:96:0,93,3:0:0:93,3:3235,106:-273.598,-27.9958,0,-265.35,-19.7332,-264.447 1/1:108:0,108,0:0:0:108,0:3780,0:-322.785,-32.5112,0,-322.785,-32.5112,-322.785 chr04 33040829 . A G 6308.89 PASS AB=0.511135;ABP=4.0258;AC=11;AF=0.261905;AN=42;AO=484;CIGAR=1X;DP=1640;DPB=1640;DPRA=1.43174;EPP=944.119;EPPR=2444.23;GTI=0;LEN=1;MEANALT=1;MQM=32.5971;MQMR=59.9637;NS=21;NUMALT=1;ODDS=1.3111;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17291;QR=41382;RO=1156;RPL=14;RPP=935.918;RPPR=2444.23;RPR=470;RUN=1;SAF=1;SAP=1045.34;SAR=483;SRF=0;SRP=2513.23;SRR=1156;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:49,46:49:1760:46:1648:-97.0804,0,-130.086 0/1:35:14,21:14:504:21:752:-44.2267,0,-35.162 0/1:109:64,45:64:2300:45:1616:-89.7928,0,-174.449 0/1:59:31,28:31:1112:28:1000:-58.9835,0,-82.6306 0/0:115:115,0:115:4114:0:0:0,-34.6184,-370.435 0/0:97:97,0:97:3488:0:0:0,-29.1999,-314.13 0/0:99:99,0:99:3530:0:0:0,-29.802,-317.776 0/1:134:77,57:77:2757:57:2048:-107.863,0,-208.032 0/1:249:86,163:86:3080:163:5798:-388.237,0,-202.472 0/1:11:7,4:7:252:4:140:-7.32249,0,-19.7176 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:23:10,13:10:360:13:468:-26.8485,0,-25.8206 0/1:145:82,63:82:2933:63:2260:-127.079,0,-220.546 0/0:60:60,0:60:2131:0:0:0,-18.0618,-192.058 0/0:173:172,1:172:6142:1:36:0,-48.4799,-549.279 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:49:19,30:19:675:30:1057:-62.9319,0,-46.3265 0/1:34:22,12:22:788:12:432:-22.1121,0,-61.0098 0/0:89:89,0:89:3200:0:0:0,-26.7917,-288.222 0/0:31:30,1:30:1076:1:36:0,-6.51085,-94.3318 chr04 33047728 . A G 12692.6 PASS AB=0.583954;ABP=77.0254;AC=11;AF=0.261905;AN=42;AO=715;CIGAR=1X;DP=2245;DPB=2245;DPRA=1.41414;EPP=1503.94;EPPR=3275.56;GTI=1;LEN=1;MEANALT=1.2;MQM=59.9776;MQMR=59.9784;NS=21;NUMALT=1;ODDS=4.62813;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25470;QR=54447;RO=1527;RPL=6;RPP=1503.94;RPPR=3275.56;RPR=709;RUN=1;SAF=715;SAP=1555.61;SAR=0;SRF=1527;SRP=3318.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:58,76:58:2061:76:2680:-201.104,0,-145.421 0/1:121:56,65:56:2004:65:2332:-173.715,0,-144.209 0/1:71:14,57:14:496:57:2048:-163.218,0,-23.6011 0/1:227:87,139:87:3120:139:4949:-377.166,0,-212.634 0/0:164:160,4:160:5672:4:140:0,-36.4243,-497.654 0/0:114:111,3:111:3969:3:108:0,-24.2422,-347.324 0/0:134:134,0:134:4778:0:0:0,-40.338,-430.13 0/1:102:35,67:35:1256:67:2404:-185.911,0,-82.6402 0/1:171:76,95:76:2728:95:3371:-252.131,0,-194.287 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:37:11,26:11:396:26:924:-72.3395,0,-24.8446 0/1:157:53,103:53:1877:103:3692:-285.162,0,-121.887 0/0:78:78,0:78:2766:0:0:0,-23.4803,-249.179 0/0:107:107,0:107:3794:0:0:0,-32.2102,-341.658 0/0:96:96,0:96:3444:0:0:0,-28.8989,-310.172 0/0:168:167,1:167:5910:1:36:0,-46.9748,-528.416 0/1:90:45,45:45:1616:45:1574:-114.854,0,-118.637 0/1:88:64,24:64:2296:24:852:-50.5088,0,-180.41 0/0:95:93,1:93:3328:1:36:0,-25.0584,-296.14 0/0:74:74,0:74:2648:0:0:0,-22.2762,-238.545 chr04 33047735 . G A 12745.3 PASS AB=0.583266;ABP=77.142;AC=11;AF=0.261905;AN=42;AO=727;CIGAR=1X;DP=2253;DPB=2253;DPRA=1.45432;EPP=1581.67;EPPR=3314.51;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9835;MQMR=59.9934;NS=21;NUMALT=1;ODDS=5.38383;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26049;QR=54499;RO=1525;RPL=727;RPP=1581.67;RPPR=3314.51;RPR=0;RUN=1;SAF=727;SAP=1581.67;SAR=0;SRF=1525;SRP=3314.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:60,80:60:2128:80:2852:-214.769,0,-149.642 0/1:122:55,67:55:1963:67:2404:-179.891,0,-140.219 0/1:72:14,58:14:496:58:2076:-165.436,0,-23.3001 0/1:230:89,140:89:3176:140:5024:-383.007,0,-216.769 0/0:161:157,4:157:5599:4:144:0,-35.1522,-490.721 0/0:116:113,3:113:4037:3:108:0,-24.8443,-353.442 0/0:127:127,0:127:4544:0:0:0,-38.2308,-409.127 0/1:105:37,68:37:1332:68:2432:-187.527,0,-88.5742 0/1:172:77,95:77:2756:95:3412:-255.516,0,-196.505 0/1:11:2,9:2:72:9:320:-25.831,0,-3.52539 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:39:13,26:13:468:26:936:-72.8193,0,-30.7195 0/1:157:51,106:51:1824:106:3793:-294.305,0,-117.179 0/0:78:78,0:78:2766:0:0:0,-23.4803,-249.179 0/0:109:109,0:109:3916:0:0:0,-32.8123,-352.632 0/0:98:98,0:98:3512:0:0:0,-29.5009,-316.29 0/0:168:167,1:167:5956:1:36:0,-46.9748,-532.549 0/1:92:47,45:47:1683:45:1616:-118.035,0,-124.062 0/1:91:67,24:67:2408:24:860:-50.3272,0,-189.582 0/0:91:90,1:90:3224:1:36:0,-23.7955,-286.784 0/0:68:68,0:68:2423:0:0:0,-20.47,-218.312 chr04 33047756 . ATCGCCT ACTCT,ATCGCTCT 85938.2 PASS AB=0.408054,0.587472;ABP=167.13,151.546;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2455,1329;CIGAR=1M1I1M3D2M,5M1I2M;DP=3798;DPB=3286.14;DPRA=0,1.14737;EPP=5333.98,2888.9;EPPR=5.18177;GTI=1;LEN=5,1;MEANALT=2.33333,2.75;MQM=59.9532,59.997;MQMR=60;NS=21;NUMALT=2;ODDS=24.0677;PAIRED=0,0;PAIREDR=0;PAO=0,0.5;PQA=0,18;PQR=18;PRO=0.5;QA=86916,46155;QR=36;RO=1;RPL=0,607;RPP=5333.98,24.6188;RPPR=5.18177;RPR=2455,722;RUN=1,1;SAF=0,607;SAP=5333.98,24.6188;SAR=2455,722;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:246:0,87,158:0:0:87,158:3053,5456:-691.709,-443.255,-417.065,-248.443,0,-200.88 1/2:135:0,86,49:0:0:86,49:3052,1740:-390.8,-142.134,-116.245,-249.021,0,-234.27 1/2:202:0,81,120:0:0:81,120:2865,4201:-575.145,-341.793,-317.41,-233.344,0,-197.22 1/2:241:0,56,185:0:0:56,185:1995,6398:-682.845,-520.234,-503.376,-162.965,0,-107.274 1/1:206:0,199,7:0:0:199,7:7002,243:-629.9,-59.905,0,-610.147,-39.8047,-608.039 1/1:206:0,206,0:0:0:206,0:7295,0:-656.542,-62.0122,0,-656.542,-62.0122,-656.542 1/1:219:1,216,1:1:36:216,1:7654,36:-685.347,-62.0621,0,-682.71,-62.0621,-685.347 1/2:270:0,111,157:0:0:111,157:3974,5411:-763.602,-439.519,-406.105,-324.081,0,-276.819 1/2:430:0,199,227:0:0:199,227:7049,7855:-1212.52,-638.349,-578.444,-574.199,0,-505.866 1/2:28:0,15,13:0:0:15,13:538,455:-81.255,-37.3686,-32.8531,-44.2403,0,-40.3269 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:81:0,30,51:0:0:30,51:1023,1771:-227.316,-144.317,-135.286,-83.342,0,-67.9895 1/2:289:0,98,190:0:0:98,190:3433,6639:-819.378,-540.047,-510.546,-279.322,0,-222.126 1/1:236:0,236,0:0:0:236,0:8401,0:-756.089,-71.0431,0,-756.089,-71.0431,-756.089 1/1:226:0,226,0:0:0:226,0:8007,0:-720.607,-68.0328,0,-720.607,-68.0328,-720.607 1/1:137:0,137,0:0:0:137,0:4880,0:-439.35,-41.2411,0,-439.35,-41.2411,-439.35 1/1:107:0,106,1:0:0:106,1:3782,36:-340.219,-31.9092,0,-337.282,-28.6119,-336.981 1/2:170:0,62,107:0:0:62,107:2189,3725:-481.185,-302.923,-284.26,-178.292,0,-146.082 1/2:143:0,87,56:0:0:87,56:3101,1937:-410.252,-157.745,-131.555,-252.857,0,-235.999 1/1:144:0,137,6:0:0:137,6:4802,216:-431.975,-41.2411,0,-414.35,-23.6166,-412.544 1/1:74:0,72,1:0:0:72,1:2533,36:-227.86,-21.6742,0,-224.923,-18.7367,-224.622 chr04 33073862 . G A 1444.58 PASS AB=0.364793;ABP=152.745;AC=11;AF=0.261905;AN=42;AO=344;CIGAR=1X;DP=2123;DPB=2123;DPRA=0.726502;EPP=749.997;EPPR=3866.06;GTI=3;LEN=1;MEANALT=1;MQM=24.8081;MQMR=25.6863;NS=21;NUMALT=1;ODDS=3.80889;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12349;QR=63704;RO=1779;RPL=0;RPP=749.997;RPPR=3866.06;RPR=344;RUN=1;SAF=344;SAP=749.997;SAR=0;SRF=1779;SRP=3866.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:49,36:49:1756:36:1296:-51.6365,0,-86.0227 0/1:103:71,32:71:2552:32:1152:-39.5901,0,-130.583 0/1:101:55,46:55:1976:46:1652:-68.9077,0,-95.074 0/1:93:65,28:65:2313:28:993:-33.8255,0,-120.088 0/0:199:199,0:199:7094:0:0:0,-59.905,-451.16 0/0:130:130,0:130:4633:0:0:0,-39.1339,-292.966 0/0:170:170,0:170:6077:0:0:0,-51.1751,-387.34 0/1:86:54,32:54:1940:32:1140:-41.3042,0,-88.9711 0/1:176:103,73:103:3700:73:2628:-116.02,0,-197.026 0/1:35:29,6:29:1040:6:216:-3.03193,0,-48.6797 0/0:29:29,0:29:1044:0:0:0,-8.72987,-61.9403 0/1:22:19,3:19:675:3:108:-0.284676,0,-33.2651 0/1:50:28,22:28:1000:22:792:-33.1316,0,-49.0713 0/0:145:145,0:145:5212:0:0:0,-43.6493,-331.675 0/0:163:163,0:163:5848:0:0:0,-49.0679,-371.038 0/0:99:99,0:99:3556:0:0:0,-29.802,-242.274 0/0:93:93,0:93:3325:0:0:0,-27.9958,-225.459 0/1:139:89,50:89:3196:50:1796:-68.049,0,-148.722 0/1:53:37,16:37:1315:16:576:-18.4616,0,-68.2553 0/0:108:108,0:108:3872:0:0:0,-32.5112,-231.21 0/0:44:44,0:44:1580:0:0:0,-13.2453,-100.334 chr04 33073868 . CAAAATAG CAAATAG 17243.1 PASS AB=0.630965;ABP=143.497;AC=31;AF=0.738095;AN=42;AO=1761;CIGAR=1M1D6M;DP=2109;DPB=1888.88;DPRA=0;EPP=3826.97;EPPR=756.511;GTI=3;LEN=1;MEANALT=1.04762;MQM=25.8257;MQMR=24.7522;NS=21;NUMALT=1;ODDS=2.5436;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45401;QR=12354;RO=347;RPL=0;RPP=3826.97;RPPR=756.511;RPR=1761;RUN=1;SAF=1761;SAP=3826.97;SAR=0;SRF=347;SRP=756.511;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:36,51:36:1285:51:1314:-78.62,0,-50.9661 0/1:102:32,70:32:1143:70:1795:-112.146,0,-39.8174 0/1:102:46,56:46:1647:56:1446:-84.6839,0,-68.5821 0/1:91:28,63:28:992:63:1629:-102.409,0,-35.1556 1/1:200:0,200:0:0:200:5129:-408.037,-60.206,0 1/1:122:0,122:0:0:122:3167:-252.268,-36.7257,0 1/1:166:0,166:0:0:166:4277:-341.087,-49.971,0 0/1:86:33,53:33:1173:53:1264:-73.7646,0,-43.5172 0/1:175:74,101:74:2627:101:2789:-171.453,0,-118.13 0/1:35:6,29:6:213:29:662:-41.4183,0,-3.00771 1/1:22:0,22:0:0:22:569:-45.4895,-6.62266,0 0/1:22:3,19:3:106:19:446:-28.5925,0,-0.267643 0/1:49:22,26:22:785:26:676:-39.251,0,-32.6432 1/1:144:0,144:0:0:144:3732:-297.168,-43.3483,0 1/1:164:0,164:0:0:164:4205:-334.499,-49.3689,0 1/1:100:0,100:0:0:100:2779:-223.341,-30.103,0 1/1:95:0,95:0:0:95:2642:-212.604,-28.5979,0 0/1:140:50,90:50:1782:90:2163:-128.65,0,-67.6338 0/1:54:17,37:17:601:37:962:-60.5482,0,-19.5497 1/1:108:0,108:0:0:108:2596:-204.788,-32.5112,0 1/1:45:0,45:0:0:45:1159:-92.5331,-13.5464,0 chr04 33073889 . A C 21623.7 PASS AB=0.636842;ABP=157.528;AC=31;AF=0.738095;AN=42;AO=1782;CIGAR=1X;DP=2131;DPB=2131;DPRA=0;EPP=3812.01;EPPR=734.897;GTI=3;LEN=1;MEANALT=1.09524;MQM=25.674;MQMR=24.742;NS=21;NUMALT=1;ODDS=0.44059;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63455;QR=12339;RO=345;RPL=1775;RPP=3812.01;RPPR=734.897;RPR=7;RUN=1;SAF=1782;SAP=3872.57;SAR=0;SRF=345;SRP=752.168;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:37,51:37:1332:51:1807:-89.3812,0,-52.6105 0/1:101:32,69:32:1144:69:2465:-126.142,0,-40.1096 0/1:102:46,56:46:1640:56:1982:-96.5422,0,-68.3627 0/1:94:25,66:25:887:66:2360:-123.188,0,-26.4546 1/1:199:1,198:1:36:198:7063:-447.85,-57.8184,0 1/1:132:1,131:1:36:131:4648:-292.402,-37.0874,0 1/1:169:0,169:0:0:169:6016:-384.575,-50.8741,0 0/1:85:31,54:31:1108:54:1940:-89.2722,0,-39.4258 0/1:177:72,105:72:2588:105:3744:-200.543,0,-113.366 0/1:34:6,28:6:212:28:1004:-46.6768,0,-3.29108 1/1:27:0,27:0:0:27:955:-57.6133,-8.12781,0 0/1:22:3,19:3:108:19:675:-33.2651,0,-0.284675 0/1:52:24,28:24:856:28:1008:-48.5701,0,-37.204 1/1:147:0,146:0:0:146:5198:-332.837,-43.9504,0 1/1:164:0,164:0:0:164:5855:-373.136,-49.3689,0 1/1:97:0,97:0:0:97:3453:-236.975,-29.1999,0 1/1:95:1,94:1:32:94:3371:-224.605,-25.4617,0 0/1:141:49,92:49:1752:92:3267:-153.821,0,-65.1443 0/1:54:17,37:17:608:37:1300:-67.4332,0,-19.5585 1/1:106:0,106:0:0:106:3756:-224.032,-31.9092,0 1/1:45:0,45:0:0:45:1588:-101.874,-13.5464,0 chr04 33087548 . CA GG 26069.4 PASS AB=0.345949;ABP=814.551;AC=24;AF=0.571429;AN=42;AO=2420;CIGAR=2X;DP=5052;DPB=5052;DPRA=0;EPP=5257.97;EPPR=5644.5;GTI=4;LEN=2;MEANALT=1.95238;MQM=29.7463;MQMR=16.7267;NS=21;NUMALT=1;ODDS=6.24481;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79055;QR=90989;RO=2598;RPL=0;RPP=5257.97;RPPR=5644.5;RPR=2420;RUN=1;SAF=0;SAP=5257.97;SAR=2420;SRF=0;SRP=5644.5;SRR=2598;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:232:175,57:175:6152:57:1885:-77.8383,0,-185.138 0/1:132:103,29:103:3589:29:962:-29.0564,0,-115.461 0/1:201:159,42:159:5565:42:1362:-45.965,0,-173.259 0/1:214:142,71:142:5020:71:2309:-112.909,0,-143.857 0/1:357:259,93:259:9047:93:2965:-127.493,0,-268.702 0/1:163:112,48:112:3947:48:1563:-64.6533,0,-113.635 0/1:266:168,98:168:5844:98:3226:-151.24,0,-174.142 0/1:136:110,26:110:3858:26:818:-22.2535,0,-121.966 0/1:356:272,83:272:9443:83:2742:-113.322,0,-289.535 1/1:315:11,301:11:380:301:10040:-733.107,-75.3152,0 1/1:524:8,509:8:284:509:16602:-1177.21,-139.558,0 1/1:276:26,248:26:904:248:8192:-577.131,-42.7912,0 0/1:249:180,69:180:6337:69:2263:-102.902,0,-191.228 0/1:208:127,80:127:4463:80:2634:-140.33,0,-128.265 0/1:289:158,129:158:5562:129:4149:-235.313,0,-154.653 0/1:165:100,64:100:3526:64:2150:-124.794,0,-100.931 0/1:166:140,25:140:4891:25:821:-14.035,0,-155.313 0/1:408:89,315:89:3134:315:10038:-647.413,0,-9.72582 0/1:115:76,37:76:2667:37:1165:-57.4165,0,-78.5736 0/1:212:143,68:143:5012:68:2285:-107.16,0,-141.478 0/1:68:40,28:40:1364:28:884:-45.0001,0,-36.2291 chr04 33087555 . G A 29966.7 PASS AB=0.356334;ABP=699.322;AC=24;AF=0.571429;AN=42;AO=2479;CIGAR=1X;DP=5017;DPB=5017;DPRA=0;EPP=5386.09;EPPR=5514.21;GTI=4;LEN=1;MEANALT=1;MQM=29.7781;MQMR=16.6659;NS=21;NUMALT=1;ODDS=2.55773;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=88511;QR=90084;RO=2538;RPL=0;RPP=5386.09;RPPR=5436.31;RPR=2479;RUN=1;SAF=0;SAP=5386.09;SAR=2479;SRF=9;SRP=5436.31;SRR=2529;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:228:171,57:171:6067:57:2026:-86.6864,0,-180.445 0/1:128:99,29:99:3509:29:1040:-32.9226,0,-110.557 0/1:197:154,43:154:5441:43:1540:-56.7725,0,-166.882 0/1:215:139,76:139:4933:76:2709:-136.876,0,-140.395 0/1:351:258,93:258:9179:93:3327:-143.662,0,-269.598 0/1:164:114,50:114:4075:50:1800:-73.7136,0,-117.968 0/1:264:166,98:166:5883:98:3473:-158.664,0,-174.87 0/1:131:105,26:105:3753:26:932:-28.6761,0,-116.508 0/1:352:263,89:263:9273:89:3140:-139.656,0,-278.676 1/1:318:7,311:7:252:311:11137:-794.769,-85.6959,0 1/1:530:7,523:7:252:523:18675:-1263.04,-146.256,0 1/1:285:24,261:24:847:261:9331:-641.795,-50.4072,0 0/1:250:177,73:177:6271:73:2596:-121.001,0,-187.208 0/1:206:126,80:126:4476:80:2867:-150.47,0,-128.978 0/1:273:148,125:148:5292:125:4455:-247.252,0,-144.404 0/1:162:96,66:96:3452:66:2376:-139.991,0,-96.7729 0/1:162:136,26:136:4864:26:934:-22.5886,0,-150.629 0/1:405:88,317:88:3092:317:11291:-697.624,0,-6.51036 0/1:114:78,36:78:2766:36:1283:-62.0246,0,-82.1289 0/1:211:142,69:142:5021:69:2480:-116.538,0,-140.302 0/1:71:40,31:40:1386:31:1099:-54.1833,0,-35.3329 chr04 33087561 . G A 2880.52 PASS AB=0.640051;ABP=666.595;AC=18;AF=0.428571;AN=42;AO=2532;CIGAR=1X;DP=5008;DPB=5008;DPRA=0;EPP=5501.18;EPPR=5370.89;GTI=4;LEN=1;MEANALT=1.19048;MQM=16.622;MQMR=29.7326;NS=21;NUMALT=1;ODDS=1.31569;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90438;QR=87561;RO=2472;RPL=0;RPP=5501.18;RPPR=5293;RPR=2532;RUN=1;SAF=0;SAP=5501.18;SAR=2532;SRF=9;SRP=5293;SRR=2463;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:229:56,173:56:1989:173:6187:-183.438,0,-82.7074 0/1:131:30,101:30:1080:101:3606:-113.113,0,-34.2282 0/1:200:45,155:45:1607:155:5535:-168.587,0,-60.733 0/1:214:75,139:75:2657:139:4966:-139.068,0,-133.332 0/1:345:95,249:95:3357:249:8916:-258.07,0,-146.036 0/1:162:51,111:51:1809:111:3970:-110.178,0,-75.5928 0/1:265:99,166:99:3480:166:5891:-170.092,0,-160.104 0/1:134:26,108:26:924:108:3884:-119.988,0,-27.565 0/1:351:88,263:88:3118:263:9388:-278.93,0,-138.629 0/0:313:305,8:305:10833:8:284:0,-82.7599,-775.616 0/0:518:511,7:511:18144:7:241:0,-143.568,-1231.95 0/0:282:258,24:258:9200:24:857:0,-49.2865,-633.278 0/1:251:73,178:73:2590:178:6312:-187.036,0,-120.377 0/1:203:79,123:79:2754:123:4375:-124.608,0,-146.531 0/1:281:127,153:127:4477:153:5476:-147.362,0,-248.316 0/1:162:64,98:64:2271:98:3490:-100.261,0,-133.567 0/1:163:25,137:25:900:137:4924:-151.044,0,-20.4164 0/1:410:323,87:323:11375:87:3102:-4.15618,0,-704.616 0/1:113:38,75:38:1321:75:2696:-78.3905,0,-64.3179 0/1:211:73,138:73:2590:138:4947:-134.867,0,-125.154 0/1:70:31,39:31:1085:39:1391:-34.4415,0,-53.9532 chr04 33087563 . TTGC CTGG,TTGG 45421.5 PASS AB=0.358424,0.636524;ABP=692.265,643.954;AC=24,18;AF=0.571429,0.428571;AN=42;AO=2529,2560;CIGAR=1X2M1X,3M1X;DP=5112;DPB=5112;DPRA=0,0;EPP=5434.03,5553.3;EPPR=0;GTI=3;LEN=4,1;MEANALT=3.04762,3.04762;MQM=29.7722,16.584;MQMR=0;NS=21;NUMALT=2;ODDS=0.975077;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=88144,91353;QR=0;RO=0;RPL=7,7;RPP=5434.03,5501.34;RPPR=0;RPR=2522,2553;RUN=1,1;SAF=0,6;SAP=5494.66,5509.99;SAR=2529,2554;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:233:0,59,174:0:0:59,174:2007,6230:-340.668,-202.129,-184.368,-138.801,0,-86.4213 1/2:132:0,31,100:0:0:31,100:1079,3562:-186.029,-120.216,-110.884,-65.7924,0,-35.6894 1/2:199:0,44,153:0:0:44,153:1563,5484:-282.163,-177.2,-163.954,-104.953,0,-58.895 1/2:220:0,77,142:0:0:77,142:2667,5045:-343.49,-165.628,-142.449,-177.874,0,-135.128 1/2:354:0,91,260:0:0:91,260:3177,9310:-513.966,-298.54,-271.146,-215.493,0,-137.225 1/2:163:0,50,113:0:0:50,113:1775,4056:-238.076,-130.743,-115.692,-107.571,0,-73.5551 1/2:268:0,101,164:0:0:101,164:3519,5840:-409.511,-195.859,-165.455,-213.564,0,-164.195 1/2:132:0,26,106:0:0:26,106:885,3784:-184.016,-125.536,-117.709,-58.7406,0,-26.8314 1/2:360:0,92,267:0:0:92,267:3196,9534:-534.2,-309.029,-281.334,-225.22,0,-144.845 1/1:322:0,314,8:0:0:314,8:10975,288:-804.808,-94.5234,0,-795.908,-85.4635,-793.5 1/1:541:0,531,8:0:0:531,8:18554,264:-1286.83,-159.847,0,-1275,-148.078,-1272.59 1/1:290:0,265,24:0:0:265,24:9236,864:-679.824,-79.773,0,-652.858,-52.9021,-645.633 1/2:251:0,75,173:0:0:75,173:2596,6186:-379.341,-202.842,-180.265,-176.524,0,-124.446 1/2:209:0,82,127:0:0:82,127:2859,4516:-344.031,-154.113,-129.429,-190.161,0,-151.93 1/2:294:0,134,157:0:0:134,157:4585,5607:-496.63,-191.099,-150.761,-305.532,0,-258.27 1/2:166:0,68,98:0:0:68,98:2368,3489:-287.058,-116.752,-96.2821,-170.558,0,-141.057 1/2:164:0,25,138:0:0:25,138:875,4906:-221.545,-160.879,-153.353,-60.726,0,-19.1839 1/2:413:0,323,88:0:0:323,88:11286,3120:-830.696,-100.463,-3.23032,-730.121,0,-703.631 1/2:115:0,37,78:0:0:37,78:1303,2773:-180.145,-93.0545,-81.9164,-87.3437,0,-63.8634 1/2:215:0,73,142:0:0:73,142:2561,5088:-327.172,-161.558,-139.583,-165.857,0,-123.111 1/2:71:0,31,40:0:0:31,40:1078,1407:-110.423,-44.7331,-35.4012,-65.9104,0,-53.8692 chr05 35796 . C T 11295.2 PASS AB=0.46898;ABP=10.9587;AC=17;AF=0.404762;AN=42;AO=497;CIGAR=1X;DP=1234;DPB=1234;DPRA=1.63743;EPP=1082.23;EPPR=1603.39;GTI=0;LEN=1;MEANALT=1;MQM=59.9416;MQMR=59.9891;NS=21;NUMALT=1;ODDS=8.33056;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17756;QR=26160;RO=737;RPL=260;RPP=5.32159;RPPR=5.84176;RPR=237;RUN=1;SAF=260;SAP=5.32159;SAR=237;SRF=384;SRP=5.84176;SRR=353;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:31,30:31:1108:30:1072:-78.4296,0,-81.6682 0/1:27:14,13:14:504:13:464:-33.9697,0,-37.5703 0/1:17:8,9:8:279:9:320:-24.0248,0,-20.33 0/0:58:57,1:57:2011:1:36:0,-13.8615,-177.665 0/1:117:59,58:59:2107:58:2080:-152.25,0,-154.678 0/1:41:23,18:23:816:18:648:-46.3097,0,-61.4195 0/1:100:51,49:51:1824:49:1745:-127.229,0,-134.338 1/1:49:0,49:0:0:49:1749:-157.692,-14.7505,0 0/1:92:45,47:45:1562:47:1688:-124.512,0,-113.171 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/1:46:27,19:27:960:19:680:-47.6818,0,-72.8689 0/1:72:36,36:36:1288:36:1271:-93.0164,0,-94.5494 0/1:74:37,37:37:1323:37:1323:-96.8681,0,-97.0951 0/1:41:20,21:20:716:21:756:-56.025,0,-52.4255 0/1:33:19,14:19:680:14:504:-35.7641,0,-51.5952 0/1:143:72,71:72:2535:71:2520:-184.003,0,-185.35 0/1:80:58,22:58:2049:22:792:-47.5233,0,-160.598 0/0:62:61,1:61:2168:1:36:0,-15.0656,-191.789 0/0:94:94,0:94:3338:0:0:0,-28.2968,-300.638 chr05 73708 . G A 15298 PASS AB=0.480455;ABP=7.67889;AC=25;AF=0.595238;AN=42;AO=856;CIGAR=1X;DP=1691;DPB=1691;DPRA=0.762981;EPP=1861.79;EPPR=1816.19;GTI=1;LEN=1;MEANALT=1;MQM=59.6998;MQMR=59.691;NS=21;NUMALT=1;ODDS=5.8844;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30648;QR=29557;RO=835;RPL=0;RPP=1861.79;RPPR=1816.19;RPR=856;RUN=1;SAF=0;SAP=1861.79;SAR=856;SRF=0;SRP=1816.19;SRR=835;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:80,46:80:2828:46:1656:-111.385,0,-216.822 0/1:55:39,16:39:1377:16:572:-35.2486,0,-107.654 0/1:93:48,45:48:1684:45:1612:-117.354,0,-123.814 1/1:73:0,73:0:0:73:2601:-234.325,-21.9752,0 0/1:158:84,74:84:2985:74:2648:-190.997,0,-221.309 0/1:87:53,34:53:1887:34:1216:-83.557,0,-143.901 0/1:106:43,63:43:1524:63:2264:-172.011,0,-105.541 0/0:104:104,0:104:3670:0:0:0,-31.3071,-330.477 0/1:185:86,99:86:3055:99:3560:-264.909,0,-219.487 0/1:8:2,6:2:72:6:212:-17.0166,0,-4.42848 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 0/1:86:36,50:36:1292:50:1782:-134.772,0,-90.6706 0/1:101:57,44:57:1988:44:1575:-111.63,0,-148.786 0/1:164:85,79:85:3022:79:2828:-205.381,0,-222.751 0/1:50:27,23:27:938:23:828:-59.7893,0,-69.519 0/1:56:27,29:27:972:29:1031:-76.2426,0,-70.9402 0/1:68:44,24:44:1556:24:851:-56.4388,0,-119.669 0/1:64:20,44:20:707:44:1576:-122.837,0,-44.6887 1/1:43:0,43:0:0:43:1540:-138.884,-12.9443,0 1/1:33:0,33:0:0:33:1184:-106.844,-9.93399,0 chr05 73721 . A G 15287.8 PASS AB=0.522504;ABP=9.26512;AC=17;AF=0.404762;AN=42;AO=849;CIGAR=1X;DP=1710;DPB=1710;DPRA=2.63985;EPP=1786.29;EPPR=1803.81;GTI=1;LEN=1;MEANALT=1;MQM=59.6938;MQMR=59.7178;NS=21;NUMALT=1;ODDS=6.08096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30297;QR=30873;RO=861;RPL=842;RPP=1786.29;RPPR=1803.81;RPR=7;RUN=1;SAF=0;SAP=1846.59;SAR=849;SRF=0;SRP=1872.65;SRR=861;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:46,81:46:1652:81:2872:-220.478,0,-110.724 0/1:57:17,40:17:612:40:1432:-112.003,0,-38.2465 0/1:95:46,49:46:1652:49:1762:-130.241,0,-120.368 0/0:76:76,0:76:2710:0:0:0,-22.8783,-243.913 0/1:161:73,88:73:2624:88:3156:-235.788,0,-187.934 0/1:90:34,56:34:1220:56:1975:-150.906,0,-83.0141 0/1:107:63,44:63:2260:44:1576:-109.913,0,-171.35 1/1:107:1,106:1:36:106:3799:-338.473,-28.6119,0 0/1:186:99,87:99:3544:87:3098:-223.053,0,-263.168 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/1:90:52,38:52:1860:38:1360:-95.5938,0,-140.585 0/1:100:45,55:45:1612:55:1949:-145.578,0,-115.256 0/1:165:79,86:79:2832:86:3080:-227.667,0,-205.426 0/1:50:23,27:23:824:27:952:-70.9257,0,-59.4294 0/1:55:28,27:28:1008:27:963:-70.4293,0,-74.4797 0/1:68:25,43:25:896:43:1535:-117.943,0,-60.4885 0/1:63:43,20:43:1548:20:716:-45.8028,0,-120.516 0/0:41:41,0:41:1463:0:0:0,-12.3422,-131.956 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.443 chr05 102448 . A G 11778.1 PASS AB=0.471683;ABP=11.9876;AC=17;AF=0.404762;AN=42;AO=740;CIGAR=1X;DP=1766;DPB=1766;DPRA=1.28714;EPP=1592.58;EPPR=2200.62;GTI=0;LEN=1;MEANALT=1.125;MQM=41.377;MQMR=58.7568;NS=21;NUMALT=1;ODDS=9.17633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26458;QR=36691;RO=1024;RPL=2;RPP=1592.58;RPPR=2200.62;RPR=738;RUN=1;SAF=740;SAP=1609.9;SAR=0;SRF=1024;SRP=2226.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:46,42:46:1648:42:1474:-99.0758,0,-122.033 0/1:25:15,10:15:536:10:360:-21.3674,0,-40.8429 0/1:88:40,48:40:1436:48:1728:-121.965,0,-102.96 0/0:92:92,0:92:3308:0:0:0,-27.6948,-297.801 0/1:182:104,78:104:3732:78:2777:-181.731,0,-281.161 0/1:54:17,37:17:608:37:1328:-91.6894,0,-38.6838 0/1:118:55,63:55:1961:63:2260:-150.13,0,-140.885 1/1:132:0,132:0:0:132:4734:-402.265,-39.736,0 0/1:186:108,78:108:3856:78:2797:-186.356,0,-291.119 0/1:10:4,6:4:144:6:216:-15.0251,0,-10.3033 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2513 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.647 0/1:229:111,117:111:3988:117:4185:-290.626,0,-289.461 0/1:67:29,37:29:1029:37:1328:-93.7709,0,-72.7104 0/1:97:67,30:67:2400:30:1055:-60.9602,0,-186.947 0/1:25:16,9:16:576:9:320:-20.85,0,-44.6234 0/1:33:16,17:16:561:17:608:-44.0306,0,-40.7494 0/1:46:25,21:25:892:21:756:-50.1362,0,-66.6643 0/1:41:26,15:26:936:15:532:-33.8082,0,-72.2172 0/0:170:170,0:170:6104:0:0:0,-51.1751,-549.115 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.613 chr05 102469 . ACCTT ACTT,ACTTTT,ACTTT 28993.4 PASS AB=0.458045,0.444958,0.0827815;ABP=22.8712,37.1939,1829.46;AC=25,16,1;AF=0.595238,0.380952,0.0238095;AN=42;AO=914,578,101;CIGAR=1M1D3M,2M1I1X2M,2M1X2M;DP=1619;DPB=1559.8;DPRA=0,1.26855,2.31224;EPP=1987.74,1258.12,222.329;EPPR=0;GTI=0;LEN=1,6,1;MEANALT=3.14286,3.75,3.73333;MQM=58.8468,37.7474,57.2277;MQMR=0;NS=21;NUMALT=3;ODDS=11.4402;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=31994,20127,3581;QR=0;RO=0;RPL=914,578,101;RPP=1987.74,1258.12,222.329;RPPR=0;RPR=0,0,0;RUN=1,1,1;SAF=914,578,101;SAP=1987.74,1258.12,222.329;SAR=0,0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,42,34,0:0:0:42,34,0:1475,1193,0:-211.93,-91.956,-79.3127,-119.995,0,-109.76,-211.93,-91.956,-119.995,-211.93 1/2:23:0,13,9,1:0:0:13,9,1:460,302,36:-59.2922,-21.9852,-18.0718,-37.2765,0,-34.5673,-56.3536,-19.0423,-34.3386,-56.0526 1/2:82:0,35,38,7:0:0:35,38,7:1235,1312,252:-201.634,-101.118,-90.5818,-100.508,0,-89.0689,-181.093,-80.5742,-79.9675,-178.986 1/1:83:0,83,0,0:0:0:83,0,0:2892,0,0:-260.455,-24.9855,0,-260.455,-24.9855,-260.455,-260.455,-24.9855,-260.455,-260.455 1/2:162:0,88,59,13:0:0:88,59,13:3082,2045,468:-407.411,-156.753,-130.263,-250.645,0,-232.884,-369.509,-118.848,-212.744,-365.596 1/2:46:0,12,30,2:0:0:12,30,2:411,1023,72:-108.024,-74.923,-71.3107,-33.0868,0,-24.0559,-102.165,-69.0631,-27.2272,-101.563 1/2:105:0,44,54,5:0:0:44,54,5:1553,1820,180:-260.632,-134.381,-121.136,-126.249,0,-109.993,-245.964,-119.711,-111.582,-244.459 2/3:124:0,1,95,26:0:0:1,95,26:36,3309,920:-323.526,-320.858,-320.557,-74.8302,-72.1628,-46.2323,-248.71,-246.041,0,-240.883 1/2:168:0,97,60,11:0:0:97,60,11:3354,2129,388:-439.037,-166.556,-137.356,-272.476,0,-254.414,-407.719,-135.237,-241.158,-404.408 1/2:10:0,4,5,0:0:0:4,5,0:144,169,0:-24.4073,-12.6412,-11.4371,-11.7665,0,-10.2614,-24.4073,-12.6412,-11.7665,-24.4073 1/1:7:0,7,0,0:0:0:7,0,0:228,0,0:-20.8295,-2.10721,0,-20.8295,-2.10721,-20.8295,-20.8295,-2.10721,-20.8295,-20.8295 1/1:35:0,35,0,0:0:0:35,0,0:1224,0,0:-110.412,-10.5361,0,-110.412,-10.5361,-110.412,-110.412,-10.5361,-110.412,-110.412 1/2:214:0,102,96,13:0:0:102,96,13:3580,3396,468:-553.125,-261.874,-231.169,-291.242,0,-262.343,-515.044,-223.791,-253.161,-511.13 1/2:61:0,26,31,2:0:0:26,31,2:916,1094,72:-158.689,-84.1045,-76.2777,-74.5783,0,-65.2464,-152.813,-78.2283,-68.7029,-152.211 1/2:89:0,59,22,3:0:0:59,22,3:2077,751,95:-226.673,-57.6009,-39.8401,-169.082,0,-162.459,-219.299,-50.2275,-161.709,-218.396 1/2:23:0,14,6,3:0:0:14,6,3:500,213,99:-57.3142,-16.5629,-12.3485,-40.7612,0,-38.955,-49.3135,-8.56273,-32.7624,-48.4104 1/2:31:0,15,9,7:0:0:15,9,7:511,322,252:-66.6122,-25.2448,-20.7294,-41.3595,0,-38.6502,-46.0524,-4.68272,-20.7975,-43.9452 1/2:43:0,20,18,5:0:0:20,18,5:708,619,171:-104.222,-46.5845,-40.5639,-57.6344,0,-52.2158,-90.3523,-32.7103,-43.7671,-88.8471 1/2:37:0,23,12,2:0:0:23,12,2:799,430,72:-98.0643,-33.1049,-26.1813,-64.9451,0,-61.3327,-92.1886,-27.2273,-59.0692,-91.5865 1/1:162:0,161,0,1:0:0:161,0,1:5673,0,36:-510.048,-48.4658,0,-510.048,-48.4658,-510.048,-507.112,-45.1712,-507.112,-506.811 1/1:33:0,33,0,0:0:0:33,0,0:1136,0,0:-102.364,-9.93399,0,-102.364,-9.93399,-102.364,-102.364,-9.93399,-102.364,-102.364 chr05 102476 . CT TG,TT 33736.9 PASS AB=0.532905,0.463082;ABP=14.7286,17.761;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1013,700;CIGAR=2X,1X1M;DP=1719;DPB=1720;DPRA=0.64878,1.22232;EPP=2202.71,1523.04;EPPR=0;GTI=0;LEN=2,1;MEANALT=2,2.1875;MQM=58.7463,40.42;MQMR=0;NS=21;NUMALT=2;ODDS=11.7068;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=35707,24681;QR=0;RO=0;RPL=1013,700;RPP=2202.71,1523.04;RPPR=0;RPR=0,0;RUN=1,1;SAF=1013,700;SAP=2202.71,1523.04;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:85:0,47,38:0:0:47,38:1668,1350:-240.095,-104.263,-90.1148,-136.177,0,-124.738 1/2:25:0,15,10:0:0:15,10:518,338:-67.1458,-25.2824,-20.767,-42.1872,0,-39.1769 1/2:86:0,39,46:0:0:39,46:1398,1631:-240.137,-126.192,-114.452,-113.934,0,-100.087 1/1:92:0,92,0:0:0:92,0:3221,0:-289.978,-27.6948,0,-289.978,-27.6948,-289.978 1/2:177:0,101,75:0:0:101,75:3541,2635:-492.023,-203.99,-173.586,-288.017,0,-265.439 1/2:51:0,16,35:0:0:16,35:565,1190:-134.273,-88.3601,-83.5436,-46.2532,0,-35.7172 1/2:111:0,52,59:0:0:52,59:1855,2049:-303.325,-152.438,-136.784,-151.226,0,-133.465 2/2:123:0,0,123:0:0:0,123:0,4341:-369.049,-369.049,-369.049,-37.0267,-37.0267,0 1/2:180:0,106,74:0:0:106,74:3717,2634:-509.035,-206.612,-174.703,-302.77,0,-280.493 1/2:10:0,4,6:0:0:4,6:144,210:-27.8064,-16.0426,-14.8385,-12.1095,0,-10.3033 1/1:9:0,9,0:0:0:9,0:309,0:-28.128,-2.70927,0,-28.128,-2.70927,-28.128 1/1:39:0,39,0:0:0:39,0:1382,0:-124.625,-11.7402,0,-124.625,-11.7402,-124.625 1/2:224:0,112,111:0:0:112,111:3956,3948:-627.837,-305.836,-272.121,-321.987,0,-288.573 1/2:65:0,29,36:0:0:29,36:1017,1287:-182.615,-99.8512,-91.1214,-83.1096,0,-72.2725 1/2:92:0,65,27:0:0:65,27:2300,951:-260.928,-73.6594,-54.0924,-187.61,0,-179.482 1/2:24:0,16,8:0:0:16,8:565,285:-68.7084,-22.7233,-17.9068,-46.2813,0,-43.873 1/2:32:0,15,17:0:0:15,17:540,603:-92.3478,-48.4416,-43.9262,-44.2597,0,-39.1422 1/2:46:0,23,21:0:0:23,21:810,738:-121.989,-56.0898,-49.1661,-65.9306,0,-59.609 1/2:38:0,24,14:0:0:24,14:860,491:-108.647,-38.4938,-31.2691,-70.4973,0,-66.2829 1/1:172:0,171,0:0:0:171,0:5994,0:-538.891,-51.4761,0,-538.891,-51.4761,-538.891 1/1:38:0,38,0:0:0:38,0:1347,0:-121.332,-11.4391,0,-121.332,-11.4391,-121.332 chr05 126115 . CTTCATC TTACATA,TTACATC 39772.2 PASS AB=0.5,0.491857;ABP=3.0103,3.71762;AC=25,17;AF=0.595238,0.404762;AN=42;AO=856,693;CIGAR=1X1M1X3M1X,1X1M1X4M;DP=1560;DPB=1560.43;DPRA=0.867647,2.07471;EPP=1861.79,1507.84;EPPR=5.18177;GTI=0;LEN=7,7;MEANALT=2.35,2.5;MQM=56.5362,59.6753;MQMR=60;NS=21;NUMALT=2;ODDS=3.84702;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=17,17;PQR=0;PRO=0;QA=29956,24227;QR=28;RO=1;RPL=477,394;RPP=27.3734,31.2896;RPPR=5.18177;RPR=379,299;RUN=1,1;SAF=477,394;SAP=27.3734,31.2896;SAR=379,299;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,29,51:0:0:29,51:1014,1753:-224.908,-142.465,-133.736,-82.5599,0,-67.2074 1/2:63:0,31,32:0:0:31,32:1074,1137:-179.631,-92.9882,-83.6563,-86.9922,0,-77.3593 1/2:41:0,18,23:0:0:18,23:638,815:-118.435,-66.7402,-61.3217,-52.0476,0,-45.1239 1/1:61:0,58,3:0:0:58,3:2051,108:-184.269,-17.4597,0,-175.456,-8.28766,-174.553 1/2:139:0,75,63:0:0:75,63:2623,2223:-393.78,-181.009,-158.432,-212.762,0,-193.798 1/2:84:0,43,41:0:0:43,41:1510,1415:-237.688,-115.299,-102.354,-122.736,0,-110.394 1/2:106:1,61,44:1:28:61,44:2155,1528:-296.905,-121.999,-105.853,-173.058,0,-162.03 2/2:85:0,0,85:0:0:0,85:0,2958:-266.064,-266.064,-266.064,-25.5876,-25.5876,0 1/2:127:0,58,69:0:0:58,69:2021,2429:-362.298,-198.092,-180.633,-164.555,0,-143.784 1/2:15:0,8,7:0:0:8,7:279,232:-41.643,-19.0958,-16.6875,-22.8856,0,-20.7784 1/1:6:0,6,0:0:0:6,0:211,0:-19.2912,-1.80618,0,-19.2912,-1.80618,-19.2912 1/1:25:0,25,0:0:0:25,0:871,0:-78.6217,-7.52575,0,-78.6217,-7.52575,-78.6217 1/2:74:0,36,38:0:0:36,38:1241,1343:-210.253,-109.657,-98.8203,-100.944,0,-89.5048 1/2:59:0,33,24:0:0:33,24:1150,821:-160.134,-66.6502,-56.7163,-93.5015,0,-86.2768 1/2:119:0,65,53:0:0:65,53:2285,1872:-338.014,-152.542,-132.975,-185.562,0,-169.607 1/2:53:0,20,32:0:0:20,32:714,1145:-151.458,-93.3094,-87.2888,-58.1927,0,-48.5597 1/2:47:0,19,27:0:0:19,27:670,970:-133.63,-79.1301,-73.4106,-54.4949,0,-46.3671 1/2:113:0,52,60:0:0:52,60:1815,2066:-314.867,-167.798,-152.145,-147.075,0,-129.013 1/2:107:0,66,40:0:0:66,40:2293,1376:-297.848,-111.732,-91.8636,-186.102,0,-174.06 1/1:70:0,68,1:0:0:68,1:2396,36:-215.17,-20.47,0,-212.232,-17.5326,-211.931 1/1:85:0,85,0:0:0:85,0:2945,0:-264.252,-25.5876,0,-264.252,-25.5876,-264.252 chr05 176826 . CG TG,TA 111860 PASS AB=0.496901,0.501972;ABP=3.30635,3.13019;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2326,1936;CIGAR=1X1M,2X;DP=4267;DPB=4267.5;DPRA=1.37233,3.63772;EPP=5053.86,4206.98;EPPR=5.18177;GTI=1;LEN=1,2;MEANALT=2.1,2.15789;MQM=59.9738,59.8332;MQMR=60;NS=21;NUMALT=2;ODDS=5.11311;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=82759,68438;QR=36;RO=1;RPL=1034,932;RPP=65.1521,8.82482;RPPR=5.18177;RPR=1292,1004;RUN=1,1;SAF=1034,932;SAP=65.1521,8.82482;SAR=1292,1004;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:225:0,88,137:0:0:88,137:3139,4817:-648.32,-392.43,-365.939,-256.245,0,-215.004 1/2:179:0,100,79:0:0:100,79:3544,2813:-518.267,-229.625,-199.522,-288.998,0,-265.216 1/2:170:0,84,86:0:0:84,86:2993,3076:-495.134,-251.178,-225.892,-244.313,0,-218.424 1/1:241:0,239,2:0:0:239,2:8518,72:-766.263,-71.9462,0,-760.389,-65.7115,-759.786 1/2:471:0,236,235:0:0:236,235:8439,8290:-1363.44,-675.332,-604.289,-688.467,0,-617.725 1/2:187:0,79,108:0:0:79,108:2799,3824:-539.847,-311.831,-288.05,-228.37,0,-195.859 1/2:270:1,121,147:1:36:121,147:4318,5211:-773.262,-421.547,-388.059,-349.075,0,-307.761 2/2:150:0,0,150:0:0:0,150:0,5275:-474.876,-474.876,-474.876,-45.1545,-45.1545,0 1/2:426:0,191,235:0:0:191,235:6798,8355:-1235.07,-681.024,-623.528,-554.399,0,-483.657 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/1:35:0,34,1:0:0:34,1:1211,36:-108.936,-10.235,0,-105.998,-6.93778,-105.697 1/2:279:0,142,137:0:0:142,137:5053,4861:-808.088,-396.274,-353.528,-412.11,0,-370.869 1/2:218:0,120,98:0:0:120,98:4273,3411:-625.944,-277.699,-241.575,-348.596,0,-319.095 1/2:295:0,150,144:0:0:150,144:5345,5057:-847.328,-411.652,-366.498,-435.764,0,-392.416 1/2:223:0,109,114:0:0:109,114:3876,4001:-641.828,-325.959,-293.147,-316.222,0,-281.904 1/2:164:0,86,78:0:0:86,78:3071,2769:-476.344,-225.97,-200.082,-250.73,0,-227.25 1/2:259:0,134,125:0:0:134,125:4759,4430:-748.993,-361.221,-320.883,-388.126,0,-350.497 1/2:178:0,121,56:0:0:121,56:4253,1996:-508.97,-162.798,-126.374,-346.275,0,-329.417 1/1:171:0,169,1:0:0:169,1:5991,36:-538.993,-50.8741,0,-536.056,-47.8817,-535.755 1/1:111:0,111,0:0:0:111,0:3951,0:-355.781,-33.4143,0,-355.781,-33.4143,-355.781 chr05 231865 . C T 29370.8 PASS AB=0.53458;ABP=26.8889;AC=19;AF=0.452381;AN=42;AO=1590;CIGAR=1X;DP=3189;DPB=3189;DPRA=1.21607;EPP=3455.65;EPPR=3455.67;GTI=0;LEN=1;MEANALT=1;MQM=59.9818;MQMR=60;NS=21;NUMALT=1;ODDS=14.0377;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56929;QR=57261;RO=1598;RPL=0;RPP=3455.65;RPPR=3447.01;RPR=1590;RUN=1;SAF=0;SAP=3455.65;SAR=1590;SRF=1;SRP=3464.34;SRR=1597;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:164:74,90:74:2647:90:3220:-240.654,0,-189.107 0/1:76:30,46:30:1080:46:1656:-126.45,0,-74.635 0/1:136:82,54:82:2944:54:1934:-133.359,0,-224.253 0/0:254:253,0:253:9039:0:0:0,-76.1606,-813.13 0/1:196:91,105:91:3251:105:3755:-279.147,0,-233.809 0/1:240:132,108:132:4736:108:3853:-274.718,0,-354.15 0/1:172:93,79:93:3344:79:2821:-202.351,0,-249.399 1/1:126:0,126:0:0:126:4514:-406.424,-37.9298,0 0/1:218:104,114:104:3732:114:4090:-302.66,0,-270.455 1/1:247:12,235:12:423:235:8399:-717.506,-35.9493,0 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.951 0/1:108:60,48:60:2156:48:1715:-122.124,0,-161.796 0/1:99:60,39:60:2156:39:1400:-96.4972,0,-164.505 0/1:273:150,123:150:5357:123:4398:-313.812,0,-400.081 0/1:56:27,29:27:960:29:1044:-77.4171,0,-69.8586 0/1:113:38,75:38:1364:75:2693:-208.597,0,-89.0443 0/1:352:56,296:56:2012:296:10613:-849.113,0,-75.3905 0/1:86:64,22:64:2304:22:788:-45.3562,0,-181.732 0/0:138:138,0:138:4940:0:0:0,-41.5421,-444.75 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 chr05 231871 . C T 30154.4 PASS AB=0.466929;ABP=24.6974;AC=23;AF=0.547619;AN=42;AO=1588;CIGAR=1X;DP=3165;DPB=3165;DPRA=1.15802;EPP=3271.32;EPPR=3180.16;GTI=0;LEN=1;MEANALT=1;MQM=59.9956;MQMR=59.9816;NS=21;NUMALT=1;ODDS=14.3842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56704;QR=56381;RO=1577;RPL=1568;RPP=3279.78;RPPR=3180.16;RPR=20;RUN=1;SAF=1;SAP=3442.63;SAR=1587;SRF=0;SRP=3427.42;SRR=1577;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:91,77:91:3257:77:2722:-194.646,0,-242.776 0/1:78:46,32:46:1648:32:1144:-79.7892,0,-125.128 0/1:137:56,81:56:1983:81:2880:-218.197,0,-137.373 1/1:250:0,250:0:0:250:8968:-807.098,-75.2575,0 0/1:192:104,88:104:3721:88:3154:-226.287,0,-277.292 0/1:241:110,131:110:3948:131:4696:-350.251,0,-282.963 0/1:165:75,90:75:2681:90:3197:-238.283,0,-191.863 0/0:131:131,0:131:4666:0:0:0,-39.4349,-420.098 0/1:213:109,104:109:3891:104:3716:-270.521,0,-286.265 0/0:239:227,12:227:8125:12:428:0,-33.0874,-692.405 0/1:9:1,8:1:36:8:288:-23.5581,0,-0.889005 1/1:58:0,58:0:0:58:2084:-187.83,-17.4597,0 0/1:106:46,60:46:1637:60:2140:-160.959,0,-115.708 0/1:100:39,61:39:1392:61:2180:-166.363,0,-95.476 0/1:274:121,153:121:4340:153:5406:-404.191,0,-308.291 0/1:57:31,26:31:1108:26:925:-66.408,0,-82.8723 0/1:109:73,36:73:2611:36:1288:-83.4113,0,-202.425 0/1:348:293,55:293:10481:55:1968:-72.6366,0,-838.447 0/1:86:22,64:22:784:64:2292:-180.653,0,-44.9953 1/1:136:0,136:0:0:136:4860:-437.552,-40.9401,0 1/1:68:2,66:2:72:66:2368:-206.541,-13.6333,0 chr05 231888 . 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G A 7660.67 PASS AB=0.474537;ABP=5.44315;AC=25;AF=0.595238;AN=42;AO=347;CIGAR=1X;DP=645;DPB=645;DPRA=0.410714;EPP=391.003;EPPR=294.483;GTI=0;LEN=1;MEANALT=1;MQM=59.9683;MQMR=60;NS=21;NUMALT=1;ODDS=4.08843;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12392;QR=10542;RO=298;RPL=298;RPP=391.003;RPPR=294.483;RPR=49;RUN=1;SAF=0;SAP=756.511;SAR=347;SRF=0;SRP=650.109;SRR=298;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:18:7,11:7:248:11:396:-30.5642,0,-17.2457 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:47:25,22:25:888:22:792:-57.4573,0,-66.0906 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 0/1:36:24,12:24:848:12:432:-28.3841,0,-65.8026 0/1:27:21,6:21:744:6:216:-11.6627,0,-59.1565 0/1:33:14,19:14:500:19:680:-51.5952,0,-35.4022 0/0:70:70,0:70:2479:0:0:0,-21.0721,-223.364 0/1:61:26,35:26:923:35:1260:-95.3427,0,-65.0239 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 1/1:18:0,18:0:0:18:639:-57.8382,-5.41854,0 0/1:45:19,26:19:671:26:936:-71.0131,0,-47.1694 0/1:39:20,19:20:689:19:665:-48.4327,0,-50.5884 0/1:37:25,12:25:872:12:430:-27.902,0,-67.6583 0/1:14:10,4:10:356:4:144:-9.0992,0,-28.1668 0/1:9:4,5:4:140:5:176:-13.4757,0,-10.2353 0/1:39:20,19:20:716:19:662:-48.1622,0,-53.0275 0/1:13:5,8:5:180:8:284:-21.99,0,-12.6387 1/1:68:0,68:0:0:68:2435:-219.387,-20.47,0 1/1:15:1,14:1:36:14:502:-41.919,-0.917175,0 chr05 257093 . T C 9718.2 PASS AB=0.48436;ABP=5.25175;AC=17;AF=0.404762;AN=42;AO=580;CIGAR=1X;DP=1318;DPB=1318;DPRA=1.81057;EPP=1262.46;EPPR=1603.39;GTI=0;LEN=1;MEANALT=1.0625;MQM=54.5638;MQMR=59.5278;NS=21;NUMALT=1;ODDS=5.21947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20461;QR=26242;RO=737;RPL=0;RPP=1262.46;RPPR=1603.39;RPR=580;RUN=1;SAF=0;SAP=1262.46;SAR=580;SRF=0;SRP=1603.39;SRR=737;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:30,44:30:1058:44:1576:-119.671,0,-73.2528 0/1:23:14,9:14:504:9:324:-22.4985,0,-38.7744 0/1:68:28,40:28:995:40:1420:-107.443,0,-69.379 0/0:86:86,0:86:3053:0:0:0,-25.8886,-274.827 0/1:133:66,67:66:2359:67:2367:-173.045,0,-172.523 0/1:143:85,58:85:3048:58:2039:-140.258,0,-231.481 0/1:117:58,59:58:2067:59:2078:-151.438,0,-151.052 1/1:69:0,69:0:0:69:2412:-217.04,-20.7711,0 0/1:96:39,57:39:1404:57:2009:-152.11,0,-97.7595 0/1:9:6,3:6:212:3:108:-7.35161,0,-16.7149 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7822 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:76:42,34:42:1486:34:1200:-85.2466,0,-111.137 0/1:43:23,20:23:803:20:709:-50.997,0,-58.4435 0/1:75:42,33:42:1499:33:1188:-84.5717,0,-112.627 0/1:51:28,23:28:996:23:820:-58.6934,0,-74.6005 0/1:39:16,23:16:564:23:805:-60.6714,0,-39.3469 0/1:53:30,22:30:1067:22:770:-53.4286,0,-80.3488 0/1:55:36,19:36:1276:19:636:-40.7944,0,-98.5831 0/0:51:51,0:51:1811:0:0:0,-15.3525,-163.26 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.072 chr05 260124 . A G 21455.7 PASS AB=0.539027;ABP=17.417;AC=25;AF=0.595238;AN=42;AO=866;CIGAR=1X;DP=1406;DPB=1406;DPRA=1.95857;EPP=1883.51;EPPR=1175.61;GTI=0;LEN=1;MEANALT=1;MQM=59.8014;MQMR=60;NS=21;NUMALT=1;ODDS=12.9433;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30813;QR=19331;RO=540;RPL=466;RPP=13.9329;RPPR=40.0701;RPR=400;RUN=1;SAF=466;SAP=13.9329;SAR=400;SRF=318;SRP=40.0701;SRR=222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:43,29:43:1544:29:1040:-72.234,0,-117.579 0/1:37:19,18:19:680:18:635:-46.3389,0,-50.3911 0/1:29:10,19:10:360:19:669:-51.8049,0,-24.0144 1/1:64:1,63:1:36:63:2249:-198.646,-15.6676,0 0/1:117:50,67:50:1781:67:2373:-178.579,0,-125.35 0/1:55:27,28:27:964:28:1008:-74.4797,0,-70.5202 0/1:103:49,54:49:1764:54:1922:-142.249,0,-128.038 0/0:35:35,0:35:1248:0:0:0,-10.536,-112.625 0/1:53:23,30:23:824:30:1080:-81.5587,0,-58.5287 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 1/1:6:0,6:0:0:6:216:-19.7871,-1.80618,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:39:28,11:28:974:11:396:-24.2426,0,-76.228 0/1:56:28,28:28:1008:28:1000:-73.2673,0,-74.1787 0/1:108:56,52:56:2016:52:1843:-133.62,0,-149.202 0/1:49:21,28:21:756:28:1000:-75.5649,0,-53.6168 0/1:34:9,25:9:320:25:896:-70.7253,0,-18.9073 0/1:192:102,90:102:3652:90:3228:-232.938,0,-271.086 0/1:134:33,101:33:1188:101:3577:-281.787,0,-66.8906 1/1:89:1,88:1:36:88:3080:-273.77,-23.1934,0 1/1:109:1,108:1:36:108:3849:-343.007,-29.214,0 chr05 260131 . C T 21809.1 PASS AB=0.541742;ABP=19.6885;AC=25;AF=0.595238;AN=42;AO=874;CIGAR=1X;DP=1418;DPB=1418;DPRA=1.91944;EPP=1892.2;EPPR=1184.29;GTI=0;LEN=1;MEANALT=1;MQM=59.7551;MQMR=60;NS=21;NUMALT=1;ODDS=13.7344;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31233;QR=19409;RO=544;RPL=465;RPP=10.8018;RPPR=46.1843;RPR=409;RUN=1;SAF=464;SAP=10.2552;SAR=410;SRF=324;SRP=46.1843;SRR=220;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:40,32:40:1432:32:1122:-79.606,0,-107.503 0/1:37:18,19:18:640:19:684:-50.7522,0,-46.7912 0/1:30:10,20:10:360:20:716:-55.7364,0,-23.7134 1/1:64:1,63:1:36:63:2246:-198.372,-15.6676,0 0/1:117:50,67:50:1777:67:2399:-180.91,0,-124.99 0/1:56:26,30:26:919:30:1069:-79.6633,0,-66.1685 0/1:111:53,58:53:1904:58:2081:-154.145,0,-138.223 0/0:36:36,0:36:1254:0:0:0,-10.8371,-113.158 0/1:56:24,32:24:860:32:1148:-86.7722,0,-60.8642 0/1:11:4,7:4:144:7:248:-19.3529,0,-10.0023 1/1:7:0,7:0:0:7:252:-23.0256,-2.10721,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:38:29,9:29:1035:9:324:-18.0667,0,-82.0239 0/1:56:27,29:27:959:29:1036:-76.5059,0,-69.7677 0/1:108:56,52:56:2012:52:1855:-134.699,0,-148.842 0/1:49:21,28:21:752:28:1004:-75.9254,0,-53.2558 0/1:35:10,25:10:360:25:896:-70.4243,0,-22.2083 0/1:195:103,92:103:3678:92:3272:-235.973,0,-272.522 0/1:131:34,97:34:1215:97:3480:-273.974,0,-70.2208 1/1:86:1,85:1:36:85:3017:-268.096,-22.2903,0 1/1:109:1,108:1:36:108:3880:-345.795,-29.214,0 chr05 260254 . C T 14113.8 PASS AB=0.501709;ABP=3.04741;AC=16;AF=0.380952;AN=42;AO=821;CIGAR=1X;DP=1759;DPB=1759;DPRA=2.52094;EPP=1785.79;EPPR=2037.68;GTI=1;LEN=1;MEANALT=1.0625;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.15387;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29198;QR=33071;RO=937;RPL=0;RPP=1785.79;RPPR=2037.68;RPR=821;RUN=1;SAF=0;SAP=1785.79;SAR=821;SRF=0;SRP=2037.68;SRR=937;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:54,65:54:1883:65:2314:-172.697,0,-133.923 0/1:73:32,41:32:1121:41:1465:-110.17,0,-79.2205 0/1:61:31,30:31:1107:30:1080:-79.1504,0,-81.5773 0/0:63:63,0:63:2197:0:0:0,-18.9649,-197.992 0/1:211:92,119:92:3241:119:4220:-316.464,0,-228.394 0/1:101:54,47:54:1905:47:1679:-120.992,0,-141.319 0/1:108:65,43:65:2270:43:1531:-105.571,0,-172.049 1/1:86:0,86:0:0:86:3047:-274.459,-25.8886,0 0/1:199:97,102:97:3441:102:3634:-267.359,0,-249.999 0/0:16:14,1:14:500:1:36:0,-1.20209,-41.803 0/0:14:14,0:14:472:0:0:0,-4.21442,-42.8 0/0:26:26,0:26:908:0:0:0,-7.82678,-82.0325 0/1:70:31,39:31:1112:39:1400:-105.227,0,-79.3192 0/1:90:45,45:45:1599:45:1581:-115.484,0,-117.107 0/1:141:72,69:72:2580:69:2451:-178.398,0,-190.004 0/1:42:20,22:20:720:22:776:-57.5183,0,-52.4855 0/1:93:44,49:44:1559:49:1742:-129.067,0,-112.605 0/1:91:46,45:46:1626:45:1616:-118.336,0,-119.234 0/1:64:46,18:46:1621:18:626:-37.3974,0,-126.911 0/0:50:50,0:50:1758:0:0:0,-15.0515,-158.502 0/0:41:41,0:41:1451:0:0:0,-12.3422,-130.885 chr05 260263 . T C 17074.3 PASS AB=0.496994;ABP=3.12779;AC=26;AF=0.619048;AN=42;AO=954;CIGAR=1X;DP=1799;DPB=1799;DPRA=0.938462;EPP=2074.59;EPPR=1835.73;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9958;MQMR=59.9893;NS=21;NUMALT=1;ODDS=4.5332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33930;QR=30156;RO=844;RPL=0;RPP=2074.59;RPPR=1835.73;RPR=954;RUN=1;SAF=0;SAP=2074.59;SAR=954;SRF=0;SRP=1835.73;SRR=844;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:67,54:67:2395:54:1932:-137.732,0,-179.382 0/1:73:41,32:41:1461:32:1131:-80.1226,0,-109.809 0/1:62:30,32:30:1080:32:1139:-84.1545,0,-78.8494 1/1:63:0,63:0:0:63:2256:-203.303,-18.9649,0 0/1:214:123,91:123:4382:91:3248:-228.12,0,-330.131 0/1:105:50,55:50:1777:55:1967:-145.697,0,-128.603 0/1:112:43,69:43:1536:69:2460:-187.939,0,-104.818 0/0:91:91,0:91:3272:0:0:0,-27.3937,-294.688 0/1:203:104,98:104:3724:98:3503:-254.312,0,-274.193 1/1:16:1,15:1:36:15:540:-45.3383,-1.21821,0 1/1:14:0,14:0:0:14:477:-43.2526,-4.21442,0 1/1:28:0,28:0:0:28:991:-89.5035,-8.42884,0 0/1:75:42,33:42:1493:33:1180:-83.9308,0,-112.085 0/1:90:44,46:44:1564:46:1620:-118.994,0,-113.959 0/1:147:73,74:73:2620:74:2632:-192.876,0,-191.796 0/1:44:22,22:22:788:22:788:-57.9995,0,-57.9995 0/1:93:49,44:49:1760:44:1575:-114.045,0,-130.688 0/1:91:45,46:45:1588:46:1619:-118.604,0,-115.814 0/1:67:19,48:19:680:48:1695:-132.666,0,-41.3602 1/1:50:0,50:0:0:50:1762:-158.86,-15.0515,0 1/1:40:0,40:0:0:40:1415:-127.647,-12.0412,0 chr05 260655 . T C 23627 PASS AB=0.595327;ABP=151.636;AC=17;AF=0.404762;AN=42;AO=1293;CIGAR=1X;DP=2479;DPB=2479;DPRA=3.24793;EPP=2810.72;EPPR=2578.38;GTI=1;LEN=1;MEANALT=1;MQM=59.9838;MQMR=60;NS=21;NUMALT=1;ODDS=9.98814;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46205;QR=42441;RO=1186;RPL=0;RPP=2810.72;RPPR=2578.38;RPR=1293;RUN=1;SAF=1293;SAP=2810.72;SAR=0;SRF=1186;SRP=2578.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:57,89:57:2036:89:3184:-242.834,0,-139.562 0/1:117:67,50:67:2400:50:1792:-126.342,0,-181.036 0/1:86:35,51:35:1256:51:1828:-138.912,0,-87.4567 0/0:223:222,1:222:7926:1:36:0,-63.5314,-709.765 0/1:314:130,184:130:4660:184:6593:-498.926,0,-325.038 0/1:79:26,53:26:924:53:1895:-147.045,0,-59.6963 0/1:175:62,113:62:2228:113:4024:-309.67,0,-148.104 1/1:167:0,167:0:0:167:5994:-539.563,-50.272,0 0/1:143:54,89:54:1940:89:3188:-244.096,0,-131.829 0/1:25:15,10:15:540:10:356:-24.8555,0,-41.4108 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/1:174:80,94:80:2853:94:3364:-250.597,0,-204.627 0/1:156:53,103:53:1881:103:3696:-285.834,0,-122.606 0/1:115:29,86:29:1029:86:3068:-241.731,0,-58.3027 0/1:100:37,63:37:1328:63:2244:-172.121,0,-89.7192 0/1:119:40,79:40:1428:79:2759:-212.725,0,-92.995 0/1:71:38,33:38:1368:33:1180:-85.1349,0,-102.048 0/1:63:39,24:39:1404:24:860:-58.7569,0,-107.694 0/0:85:81,4:81:2896:4:144:0,-12.2739,-247.563 0/0:55:55,0:55:1976:0:0:0,-16.5566,-178.115 chr05 262964 . A G 13307.8 PASS AB=0.474886;ABP=9.00912;AC=25;AF=0.595238;AN=42;AO=715;CIGAR=1X;DP=1331;DPB=1331;DPRA=1.65641;EPP=1411.46;EPPR=1188.86;GTI=1;LEN=1;MEANALT=1;MQM=57.9622;MQMR=59.711;NS=21;NUMALT=1;ODDS=0.43193;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25247;QR=22106;RO=616;RPL=17;RPP=1411.46;RPPR=1180.7;RPR=698;RUN=1;SAF=0;SAP=1555.61;SAR=715;SRF=1;SRP=1331.97;SRR=615;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:54,41:54:1936:41:1443:-100.965,0,-145.896 0/1:74:35,39:35:1260:39:1392:-103.044,0,-91.2659 0/1:38:18,20:18:648:20:699:-51.7123,0,-47.1843 1/1:74:1,73:1:36:73:2586:-229.331,-18.6779,0 0/1:146:75,71:75:2692:71:2508:-181.829,0,-198.566 0/1:75:34,41:34:1220:41:1464:-109.125,0,-87.4885 0/1:134:85,49:85:3039:49:1711:-113.748,0,-233.4 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.141 0/1:102:63,39:63:2264:39:1404:-95.919,0,-173.317 0/1:10:7,3:7:252:3:104:-6.69151,0,-20.0187 1/1:6:0,6:0:0:6:207:-18.962,-1.80618,0 1/1:7:0,7:0:0:7:248:-22.64,-2.10721,0 0/1:41:17,24:17:608:24:864:-65.7318,0,-42.7094 0/1:44:22,22:22:788:22:753:-54.8371,0,-57.9995 0/1:121:58,63:58:2079:63:2231:-164.198,0,-150.877 0/1:53:28,25:28:1008:25:900:-65.345,0,-75.0818 0/1:23:13,10:13:464:10:360:-25.7496,0,-35.1037 0/1:94:50,44:50:1800:44:1523:-108.998,0,-133.94 0/1:45:16,29:16:576:29:1040:-80.3036,0,-38.6286 1/1:77:1,76:1:36:76:2664:-236.088,-19.581,0 1/1:33:0,33:0:0:33:1146:-103.37,-9.93399,0 chr05 269643 . A C 20193 PASS AB=0.473538;ABP=13.9281;AC=25;AF=0.595238;AN=42;AO=1123;CIGAR=1X;DP=2226;DPB=2226;DPRA=0.658917;EPP=2441.57;EPPR=2391.63;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9751;MQMR=59.9991;NS=21;NUMALT=1;ODDS=3.2673;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40068;QR=39349;RO=1100;RPL=1123;RPP=2441.57;RPPR=2391.63;RPR=0;RUN=1;SAF=0;SAP=2441.57;SAR=1123;SRF=0;SRP=2391.63;SRR=1100;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:64,38:64:2304:38:1353:-91.3614,0,-176.915 0/1:88:49,39:49:1745:39:1400:-99.8085,0,-130.842 0/1:121:61,60:61:2188:60:2160:-158.242,0,-160.761 1/1:114:0,114:0:0:114:4046:-364.327,-34.3174,0 0/1:222:115,107:115:4097:107:3829:-277.976,0,-302.087 0/1:111:60,51:60:2141:51:1813:-130.035,0,-159.542 0/1:172:104,68:104:3717:68:2403:-164.745,0,-282.953 0/0:157:155,0:155:5556:0:0:0,-46.6596,-499.803 0/1:283:142,140:142:5069:140:4938:-359.466,0,-371.253 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49869 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 0/1:114:62,52:62:2228:52:1872:-134.442,0,-166.466 0/1:129:53,76:53:1904:76:2717:-205.939,0,-132.805 0/1:173:104,69:104:3740:69:2476:-171.015,0,-284.721 0/1:86:39,47:39:1392:47:1684:-125.958,0,-99.6904 0/1:97:54,43:54:1921:43:1525:-108.341,0,-143.965 0/1:38:17,21:17:612:21:752:-56.5671,0,-43.9743 0/1:55:17,38:17:595:38:1356:-105.779,0,-37.32 1/1:79:1,78:1:36:78:2800:-248.641,-20.1831,0 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 chr05 278984 . ATG GTA,AAA 32783.7 PASS AB=0.471901,0.525019;ABP=11.9185,10.073;AC=25,17;AF=0.595238,0.404762;AN=42;AO=856,779;CIGAR=1X1M1X,1M2X;DP=1640;DPB=1640.33;DPRA=0,3.38312;EPP=1861.79,1694.59;EPPR=5.18177;GTI=1;LEN=3,2;MEANALT=2.04762,2.22222;MQM=56.0526,56.0655;MQMR=60;NS=21;NUMALT=2;ODDS=1.91689;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=30293,27412;QR=36;RO=1;RPL=0,0;RPP=1861.79,1694.59;RPPR=5.18177;RPR=856,779;RUN=1,1;SAF=0,0;SAP=1861.79,1694.59;SAR=856,779;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:94:0,39,54:0:0:39,54:1402,1910:-269.361,-155.066,-143.326,-114.291,0,-98.0354 1/2:77:0,27,50:0:0:27,50:959,1773:-222.86,-144.758,-136.63,-78.4567,0,-63.4052 1/2:89:0,41,48:0:0:41,48:1444,1686:-254.598,-137.144,-124.801,-117.805,0,-103.356 1/1:102:0,101,1:0:0:101,1:3571,36:-320.945,-30.404,0,-318.01,-27.1094,-317.709 1/2:152:0,75,77:0:0:75,77:2674,2698:-437.241,-219.716,-197.139,-217.877,0,-194.698 1/2:30:0,14,16:0:0:14,16:487,564:-85.788,-46.26,-42.0456,-39.8775,0,-35.0611 1/2:103:0,48,55:0:0:48,55:1712,1934:-297.12,-157.681,-143.231,-139.794,0,-123.237 2/2:96:0,1,95:0:0:1,95:36,3361:-301.951,-299.015,-298.714,-28.5979,-25.3023,0 1/2:118:0,53,65:0:0:53,65:1855,2264:-335.039,-184.294,-168.339,-151.095,0,-131.528 1/2:21:0,9,12:0:0:9,12:324,415:-60.4119,-34.0513,-31.342,-26.7137,0,-23.1014 1/1:5:0,5,0:0:0:5,0:180,0:-16.5474,-1.50515,0,-16.5474,-1.50515,-16.5474 1/1:20:0,20,0:0:0:20,0:712,0:-64.3766,-6.0206,0,-64.3766,-6.0206,-64.3766 1/2:82:0,44,38:0:0:44,38:1555,1338:-235.234,-109.099,-95.8541,-126.487,0,-115.047 1/2:109:0,38,69:0:0:38,69:1321,2416:-303.317,-195.995,-184.556,-107.414,0,-86.6429 1/2:159:0,80,79:0:0:80,79:2839,2801:-458.951,-228.023,-203.94,-231.283,0,-207.501 1/2:45:0,25,20:0:0:25,20:892,720:-131.762,-59.0718,-51.546,-73.0487,0,-67.0281 1/2:90:0,41,49:0:0:41,49:1441,1714:-256.773,-139.689,-127.347,-117.376,0,-102.625 1/2:79:0,45,34:0:0:45,34:1587,1172:-224.139,-95.2218,-81.6755,-129.264,0,-119.029 1/2:51:1,34,16:1:36:34,16:1198,574:-140.573,-43.7205,-36.423,-94.2116,0,-92.3328 1/1:66:0,64,1:0:0:64,1:2258,36:-202.773,-19.2659,0,-199.837,-16.3295,-199.536 1/1:52:0,52,0:0:0:52,0:1846,0:-166.237,-15.6536,0,-166.237,-15.6536,-166.237 chr05 293201 . G A 34430.5 PASS AB=0.526736;ABP=18.5693;AC=25;AF=0.595238;AN=42;AO=1822;CIGAR=1X;DP=3105;DPB=3105;DPRA=1.6375;EPP=3924.77;EPPR=2730.62;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9748;MQMR=60;NS=21;NUMALT=1;ODDS=3.98193;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65073;QR=45796;RO=1280;RPL=4;RPP=3924.77;RPPR=2730.62;RPR=1818;RUN=1;SAF=1822;SAP=3959.43;SAR=0;SRF=1280;SRP=2782.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:285:118,166:118:4220:166:5945:-448.934,0,-294.128 0/1:178:92,86:92:3300:86:3042:-220.425,0,-243.635 0/1:126:62,64:62:2212:64:2300:-169.331,0,-161.415 1/1:199:2,197:2:72:197:7035:-626.376,-53.0682,0 0/1:340:189,151:189:6765:151:5388:-382.69,0,-506.571 0/1:96:50,46:50:1787:46:1644:-119.35,0,-132.213 0/1:274:141,132:141:5060:132:4702:-340.797,0,-373.003 0/0:92:92,0:92:3285:0:0:0,-27.6948,-295.868 0/1:313:164,148:164:5842:148:5288:-381.776,0,-431.608 0/1:6:4,2:4:140:2:68:-4.65153,0,-11.1384 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 0/1:175:71,104:71:2552:104:3732:-283.4,0,-177.25 0/1:199:89,110:89:3181:110:3920:-293.09,0,-226.607 0/1:146:53,93:53:1892:93:3324:-255.428,0,-126.608 0/1:104:46,58:46:1648:58:2072:-155.444,0,-117.301 0/1:121:53,68:53:1896:68:2432:-182.711,0,-134.493 0/1:66:21,45:21:756:45:1608:-125.142,0,-48.4992 0/1:77:30,47:30:1080:47:1692:-129.388,0,-74.3339 1/1:206:3,203:3:108:203:7213:-639.155,-51.937,0 1/1:63:0,63:0:0:63:2268:-204.382,-18.9649,0 chr05 293212 . T A 34784.9 PASS AB=0.5308;ABP=23.6098;AC=25;AF=0.595238;AN=42;AO=1835;CIGAR=1X;DP=3103;DPB=3103;DPRA=1.69326;EPP=3970.31;EPPR=2739.09;GTI=0;LEN=1;MEANALT=1;MQM=59.9798;MQMR=60;NS=21;NUMALT=1;ODDS=3.45118;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65718;QR=45172;RO=1268;RPL=1833;RPP=3970.31;RPPR=2739.09;RPR=2;RUN=1;SAF=1835;SAP=3987.66;SAR=0;SRF=1268;SRP=2756.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:280:116,164:116:4113:164:5881:-445.109,0,-286.066 0/1:177:92,85:92:3287:85:3045:-220.996,0,-242.767 0/1:126:61,65:61:2175:65:2336:-172.569,0,-158.086 1/1:203:2,201:2:72:201:7204:-641.489,-54.2724,0 0/1:345:193,152:193:6919:152:5415:-383.624,0,-518.919 0/1:98:51,47:51:1824:47:1682:-122.166,0,-134.94 0/1:269:136,133:136:4827:133:4780:-349.377,0,-353.609 0/0:89:89,0:89:3187:0:0:0,-26.7917,-287.053 0/1:313:164,149:164:5853:149:5343:-386.779,0,-432.659 0/1:7:5,2:5:176:2:63:-3.87594,0,-14.0778 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 0/1:169:66,103:66:2355:103:3689:-281.337,0,-161.334 0/1:202:89,113:89:3148:113:4027:-301.811,0,-222.737 0/1:144:51,93:51:1819:93:3332:-256.749,0,-120.642 0/1:107:47,60:47:1676:60:2130:-159.756,0,-118.917 0/1:121:52,69:52:1839:69:2476:-186.669,0,-129.365 0/1:66:21,45:21:723:45:1616:-125.862,0,-45.5178 0/1:76:29,47:29:1035:47:1688:-129.329,0,-70.5848 1/1:209:4,205:4:144:205:7356:-648.772,-49.6017,0 1/1:64:0,64:0:0:64:2287:-206.09,-19.2659,0 chr05 296921 . C T 11934.1 PASS AB=0.531027;ABP=18.2368;AC=25;AF=0.595238;AN=42;AO=1325;CIGAR=1X;DP=2269;DPB=2269;DPRA=1.22472;EPP=2880.21;EPPR=1979.64;GTI=1;LEN=1;MEANALT=1.1;MQM=25.2921;MQMR=27.1433;NS=21;NUMALT=1;ODDS=0.752183;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46948;QR=33264;RO=942;RPL=1325;RPP=2880.21;RPPR=1979.64;RPR=0;RUN=1;SAF=1325;SAP=2880.21;SAR=0;SRF=942;SRP=2048.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:51,74:51:1784:74:2625:-126.107,0,-84.1003 0/1:68:29,39:29:1032:39:1383:-69.0867,0,-50.3678 0/1:102:44,58:44:1539:58:2071:-98.3119,0,-72.7374 1/1:158:0,157:0:0:157:5551:-346.34,-47.2617,0 0/1:239:111,128:111:3937:128:4533:-210.452,0,-191.654 0/1:112:53,59:53:1870:59:2075:-101.327,0,-93.3117 0/1:148:54,94:54:1911:94:3339:-171.074,0,-83.5077 0/0:89:89,0:89:3150:0:0:0,-26.7917,-210.877 0/1:205:101,104:101:3573:104:3694:-176.251,0,-176.025 0/1:5:3,2:3:104:2:68:-3.13857,0,-5.84772 1/1:4:0,4:0:0:4:144:-9.46721,-1.20412,0 1/1:29:0,29:0:0:29:1007:-63.8903,-8.72987,0 0/1:121:74,47:74:2593:47:1676:-67.7623,0,-137.885 0/1:170:84,85:84:2974:85:3002:-136.753,0,-147.431 0/1:183:104,79:104:3678:79:2800:-118.842,0,-189.296 0/1:68:31,37:31:1095:37:1314:-64.6083,0,-54.1399 0/1:103:47,56:47:1657:56:2003:-97.7951,0,-80.5526 0/1:77:37,40:37:1300:40:1397:-65.2269,0,-63.8525 0/1:95:30,65:30:1067:65:2294:-115.107,0,-42.4835 1/1:109:0,109:0:0:109:3894:-241.785,-32.8123,0 1/1:59:0,59:0:0:59:2078:-134.694,-17.7608,0 chr05 301697 . AC TT 11759.1 PASS AB=0.508211;ABP=4.40096;AC=17;AF=0.404762;AN=42;AO=1345;CIGAR=2X;DP=3073;DPB=3073;DPRA=4.32602;EPP=2923.64;EPPR=3731.43;GTI=0;LEN=2;MEANALT=1.33333;MQM=26.8989;MQMR=59.9994;NS=21;NUMALT=1;ODDS=1.8336;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47597;QR=60415;RO=1721;RPL=1345;RPP=2923.64;RPPR=3731.43;RPR=0;RUN=1;SAF=0;SAP=2923.64;SAR=1345;SRF=0;SRP=3740.11;SRR=1721;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:206:117,89:117:4056:89:3107:-147.219,0,-303.215 0/1:176:80,96:80:2824:96:3392:-162.522,0,-201.416 0/1:106:45,61:45:1568:61:2177:-112.637,0,-109.497 0/0:279:277,1:277:9744:1:34:0,-81.3762,-874.247 0/1:276:151,125:151:5236:125:4446:-211.523,0,-388.295 0/1:154:75,78:75:2664:78:2794:-132.024,0,-193.627 0/1:192:102,87:102:3612:87:3077:-135.291,0,-268.104 1/1:135:0,135:0:0:135:4769:-301.946,-40.6391,0 0/1:209:93,116:93:3265:116:4080:-218.608,0,-231.156 0/1:22:9,13:9:313:13:468:-23.5138,0,-21.8824 0/0:6:6,0:6:209:0:0:0,-1.80618,-19.1505 0/0:58:58,0:58:2063:0:0:0,-17.4597,-185.94 0/1:220:85,134:85:2967:134:4761:-250.89,0,-201.104 0/1:129:53,76:53:1873:76:2674:-140.061,0,-130.013 0/1:252:123,129:123:4311:129:4585:-230.159,0,-312.31 0/1:146:77,69:77:2681:69:2416:-122.716,0,-197.583 0/1:129:61,68:61:2129:68:2386:-125.464,0,-153.042 0/1:69:33,35:33:1149:35:1254:-58.0574,0,-83.0196 0/1:89:58,31:58:2045:31:1105:-46.5466,0,-157.528 0/0:170:168,2:168:5947:2:72:0,-46.488,-530.654 0/0:50:50,0:50:1759:0:0:0,-15.0515,-158.59 chr05 319111 . G A 18464.4 PASS AB=0.489318;ABP=4.95866;AC=17;AF=0.404762;AN=42;AO=1059;CIGAR=1X;DP=2388;DPB=2388;DPRA=4.46124;EPP=2267.99;EPPR=2802.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9235;MQMR=59.9962;NS=21;NUMALT=1;ODDS=5.00843;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37888;QR=47481;RO=1329;RPL=4;RPP=2267.99;RPPR=2811.25;RPR=1055;RUN=1;SAF=1059;SAP=2302.6;SAR=0;SRF=1328;SRP=2880.22;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:210:107,103:107:3817:103:3689:-268.991,0,-280.51 0/1:159:82,77:82:2925:77:2749:-199.787,0,-215.62 0/1:88:48,40:48:1716:40:1432:-102.687,0,-128.235 0/0:153:152,1:152:5413:1:36:0,-42.4593,-483.703 0/1:234:144,90:144:5152:90:3194:-217.11,0,-393.38 0/1:145:73,72:73:2624:72:2584:-189.159,0,-192.758 0/1:182:92,90:92:3304:90:3228:-235.954,0,-242.791 1/1:93:0,93:0:0:93:3310:-298.103,-27.9958,0 0/1:176:85,91:85:3016:91:3268:-241.358,0,-218.689 0/1:10:6,4:6:208:4:144:-10.3033,0,-16.0488 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:38:38,0:38:1352:0:0:0,-11.4391,-121.98 0/1:148:62,86:62:2220:86:3084:-233.235,0,-155.512 0/1:136:58,78:58:2071:78:2785:-209.95,0,-145.72 0/1:146:79,67:79:2823:67:2404:-172.666,0,-210.358 0/1:119:61,58:61:2179:58:2080:-151.648,0,-160.553 0/1:88:41,47:41:1472:47:1677:-124.706,0,-106.285 0/1:71:35,36:35:1244:36:1292:-95.2106,0,-90.8915 0/1:54:31,23:31:1101:23:824:-58.2268,0,-83.1427 0/0:90:87,3:87:3120:3:108:0,-17.0175,-270.951 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 chr05 326277 . C T 4843.69 PASS AB=0.418103;ABP=30.0414;AC=25;AF=0.595238;AN=42;AO=282;CIGAR=1X;DP=590;DPB=590;DPRA=0.726316;EPP=615.366;EPPR=667.481;GTI=1;LEN=1;MEANALT=1.1;MQM=60;MQMR=59.9346;NS=21;NUMALT=1;ODDS=1.73593;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10046;QR=10919;RO=306;RPL=282;RPP=615.366;RPPR=667.481;RPR=0;RUN=1;SAF=0;SAP=615.366;SAR=282;SRF=0;SRP=667.481;SRR=306;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:14,14:14:500:14:500:-36.9073,0,-36.9073 0/1:22:15,7:15:525:7:243:-15.5848,0,-40.9554 0/1:16:12,4:12:428:4:144:-8.49714,0,-34.0423 1/1:26:0,26:0:0:26:902:-81.4903,-7.82678,0 0/1:47:27,20:27:968:20:720:-50.9804,0,-73.289 0/1:29:19,9:19:661:9:324:-20.7172,0,-50.9664 0/1:37:17,20:17:608:20:720:-53.9907,0,-43.9139 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/1:33:25,8:25:896:8:288:-16.3334,0,-71.0264 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:39:27,12:27:972:12:415:-25.9393,0,-76.0577 0/1:28:12,16:12:417:16:572:-43.3846,0,-29.4314 0/1:51:29,21:29:1036:21:756:-52.994,0,-78.1813 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/1:21:9,12:9:324:12:428:-32.5372,0,-23.1842 0/1:65:41,24:41:1476:24:864:-58.5156,0,-113.569 0/1:29:14,15:14:500:15:540:-40.2067,0,-36.6063 1/1:33:0,33:0:0:33:1154:-104.162,-9.93399,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 chr05 328518 . G T 20692.6 PASS AB=0.506266;ABP=3.55453;AC=25;AF=0.595238;AN=42;AO=1097;CIGAR=1X;DP=2049;DPB=2049;DPRA=0.578528;EPP=2273.54;EPPR=2007.73;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9316;MQMR=59.9916;NS=21;NUMALT=1;ODDS=4.31195;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39036;QR=33908;RO=951;RPL=1084;RPP=2273.54;RPPR=2007.73;RPR=13;RUN=1;SAF=1097;SAP=2385.12;SAR=0;SRF=951;SRP=2068.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:89,81:89:3181:81:2880:-208.215,0,-235.337 0/1:46:25,21:25:892:21:756:-54.5198,0,-66.7523 0/1:86:48,38:48:1720:38:1344:-95.3688,0,-129.197 1/1:128:0,128:0:0:128:4548:-409.488,-38.5318,0 0/1:264:116,148:116:4124:148:5312:-398.741,0,-291.872 0/1:70:29,41:29:1036:41:1457:-110.352,0,-72.4818 0/1:145:65,80:65:2321:80:2846:-212.726,0,-165.499 0/0:163:163,0:163:5807:0:0:0,-49.0679,-522.745 0/1:86:42,44:42:1492:44:1561:-114.891,0,-108.686 0/1:16:7,9:7:252:9:324:-24.6607,0,-18.2125 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 1/1:17:0,17:0:0:17:612:-55.3958,-5.11751,0 0/1:155:81,73:81:2875:73:2582:-186.056,0,-212.417 0/1:97:51,46:51:1816:46:1598:-114.903,0,-134.521 0/1:128:70,58:70:2497:58:2065:-147.588,0,-186.449 0/1:41:28,13:28:1004:13:468:-30.1174,0,-78.3336 0/1:75:41,34:41:1468:34:1215:-87.0785,0,-109.839 0/1:129:65,64:65:2315:64:2277:-166.358,0,-169.777 0/1:88:30,58:30:1072:58:2071:-160.169,0,-70.3018 1/1:75:0,75:0:0:75:2678:-241.265,-22.5773,0 1/1:56:1,55:1:36:55:1946:-171.446,-13.2594,0 chr05 328564 . A G 32774.3 PASS AB=0.503586;ABP=3.22834;AC=25;AF=0.595238;AN=42;AO=1359;CIGAR=1X;DP=2442;DPB=2442;DPRA=1.06;EPP=242.318;EPPR=216.296;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6954;MQMR=59.8013;NS=21;NUMALT=1;ODDS=0.759567;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48518;QR=38682;RO=1082;RPL=873;RPP=242.318;RPPR=216.296;RPR=486;RUN=1;SAF=0;SAP=2954.04;SAR=1359;SRF=0;SRP=2352.54;SRR=1082;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:67,73:67:2396:73:2611:-193.076,0,-173.73 0/1:57:34,23:34:1209:23:824:-57.1341,0,-91.9554 0/1:120:62,58:62:2216:58:2076:-150.984,0,-163.579 1/1:154:0,154:0:0:154:5479:-493.2,-46.3586,0 0/1:268:132,136:132:4732:136:4853:-356.074,0,-345.355 0/1:79:32,47:32:1139:47:1688:-128.273,0,-79.037 0/1:146:86,60:86:3072:60:2156:-150.357,0,-232.494 0/0:110:110,0:110:3921:0:0:0,-33.1133,-353.058 0/1:190:110,79:110:3948:79:2820:-196.777,0,-298.238 0/1:17:8,9:8:284:9:320:-24.0248,0,-20.7858 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 1/1:26:0,26:0:0:26:932:-84.176,-7.82678,0 0/1:210:117,93:117:4164:93:3326:-236.295,0,-311.231 0/1:154:67,87:67:2395:87:3103:-233.139,0,-169.448 0/1:217:115,102:115:4123:102:3629:-261.451,0,-305.919 0/1:63:25,38:25:900:38:1349:-102.742,0,-62.3561 0/1:63:24,39:24:856:39:1391:-106.524,0,-58.3825 0/1:116:53,63:53:1896:63:2255:-168.289,0,-135.943 0/1:112:36,76:36:1287:76:2697:-209.201,0,-82.4112 1/1:137:0,137:0:0:137:4906:-441.612,-41.2411,0 1/1:59:4,55:4:144:55:1968:-163.786,-4.44715,0 chr05 352061 . T A 9619.86 PASS AB=0.481166;ABP=5.54588;AC=25;AF=0.595238;AN=42;AO=535;CIGAR=1X;DP=1033;DPB=1033;DPRA=0.687857;EPP=1164.75;EPPR=1084.4;GTI=0;LEN=1;MEANALT=1;MQM=59.9439;MQMR=60;NS=21;NUMALT=1;ODDS=5.87646;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19143;QR=17763;RO=498;RPL=0;RPP=1164.75;RPPR=1084.4;RPR=535;RUN=1;SAF=0;SAP=1164.75;SAR=535;SRF=0;SRP=1084.4;SRR=498;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:39,27:39:1396:27:964:-67.2088,0,-106.071 0/1:37:22,15:22:792:15:536:-37.4367,0,-60.4676 0/1:75:38,37:38:1364:37:1328:-97.245,0,-100.483 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 0/1:75:33,42:33:1150:42:1485:-111.365,0,-81.2247 0/1:35:20,15:20:712:15:536:-38.0388,0,-53.8706 0/1:34:22,12:22:765:12:432:-28.9862,0,-58.9327 0/0:70:70,0:70:2501:0:0:0,-21.0721,-225.341 0/1:75:48,27:48:1698:27:960:-64.139,0,-130.525 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 1/1:16:0,16:0:0:16:568:-51.4519,-4.81648,0 0/1:84:40,44:40:1421:44:1580:-117.205,0,-102.899 0/1:81:27,54:27:968:54:1936:-150.133,0,-63.0539 0/1:83:36,47:36:1288:47:1674:-125.83,0,-91.2381 0/1:30:21,9:21:756:9:324:-20.475,0,-59.3363 0/1:40:25,15:25:900:15:540:-36.8953,0,-69.2798 0/1:49:34,15:34:1224:15:536:-33.8243,0,-95.7166 0/1:47:17,30:17:612:30:1076:-83.0044,0,-41.265 1/1:33:1,32:1:36:32:1152:-100.392,-6.33572,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 chr05 380220 . G C 16993.5 PASS AB=0.46223;ABP=23.6783;AC=25;AF=0.595238;AN=42;AO=1014;CIGAR=1X;DP=2035;DPB=2035;DPRA=0.770565;EPP=2204.88;EPPR=2220.08;GTI=1;LEN=1;MEANALT=1;MQM=41.9231;MQMR=55.4407;NS=21;NUMALT=1;ODDS=5.36577;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36187;QR=36565;RO=1021;RPL=1014;RPP=2204.88;RPPR=2220.08;RPR=0;RUN=1;SAF=0;SAP=2204.88;SAR=1014;SRF=0;SRP=2220.08;SRR=1021;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:58,56:58:2080:56:2004:-139.77,0,-152.413 0/1:74:46,28:46:1656:28:1004:-65.3079,0,-126.743 0/1:41:22,19:22:792:19:684:-47.5291,0,-58.2888 1/1:123:0,123:0:0:123:4401:-384.566,-37.0267,0 0/1:228:123,105:123:4396:105:3730:-257.388,0,-325.372 0/1:94:54,40:54:1932:40:1440:-96.3679,0,-145.326 0/1:196:100,96:100:3588:96:3421:-239.332,0,-262.796 0/0:124:124,0:124:4437:0:0:0,-37.3277,-398.235 0/1:209:106,103:106:3808:103:3684:-258.41,0,-278.723 0/1:12:3,9:3:108:9:320:-23.7032,0,-6.45999 1/1:5:0,5:0:0:5:174:-15.3732,-1.50515,0 1/1:24:0,24:0:0:24:849:-74.4168,-7.22472,0 0/1:134:78,56:78:2781:56:2001:-133.242,0,-209.831 0/1:97:54,43:54:1940:43:1533:-105.536,0,-145.24 0/1:145:88,57:88:3136:57:2023:-133.648,0,-237.731 0/1:86:42,44:42:1512:44:1565:-110.03,0,-110.052 0/1:100:60,40:60:2144:40:1440:-96.7282,0,-161.569 0/1:73:43,30:43:1539:30:1076:-71.4967,0,-116.679 0/1:65:20,45:20:716:45:1592:-119.192,0,-45.0932 1/1:44:0,44:0:0:44:1576:-138.612,-13.2453,0 1/1:47:0,47:0:0:47:1670:-145.532,-14.1484,0 chr05 387731 . TA TG,AG 35715.5 PASS AB=0.556254,0.443047;ABP=42.3441,43.3275;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1081,720;CIGAR=1M1X,2X;DP=1802;DPB=1802;DPRA=0.997674,1.66338;EPP=2350.37,1566.47;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.8,2;MQM=59.9001,47.8681;MQMR=0;NS=21;NUMALT=2;ODDS=11.2601;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38140,24887;QR=0;RO=0;RPL=0,0;RPP=2350.37,1566.47;RPPR=0;RPR=1081,720;RUN=1,1;SAF=0,0;SAP=2350.37,1566.47;SAR=1081,720;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:137:0,85,52:0:0:85,52:3001,1809:-390.265,-145.88,-120.293,-244.732,0,-229.078 1/2:37:0,15,22:0:0:15,22:536,773:-106.073,-62.3665,-57.8511,-44.0594,0,-37.4367 1/2:79:0,39,40:0:0:39,40:1385,1385:-224.939,-112.088,-100.348,-113.2,0,-101.159 1/1:45:0,45,0:0:0:45,0:1604,0:-144.65,-13.5464,0,-144.65,-13.5464,-144.65 1/2:149:0,80,69:0:0:80,69:2829,2416:-425.665,-195.251,-171.168,-230.764,0,-209.993 1/2:70:0,37,33:0:0:37,33:1320,1146:-199.528,-91.9133,-80.7752,-107.964,0,-98.0298 1/2:121:0,71,50:0:0:71,50:2513,1760:-345.372,-140.675,-119.302,-205.045,0,-189.994 2/2:86:0,0,86:0:0:0,86:0,2927:-260.503,-260.503,-260.503,-25.8886,-25.8886,0 1/2:193:0,104,89:0:0:104,89:3702,3056:-548.734,-247.238,-215.931,-301.844,0,-275.052 1/2:20:0,12,8:0:0:12,8:432,277:-57.6975,-22.4368,-18.8244,-35.6088,0,-33.2006 1/1:6:0,6,0:0:0:6,0:203,0:-18.6012,-1.80618,0,-18.6012,-1.80618,-18.6012 1/1:42:0,42,0:0:0:42,0:1478,0:-133.313,-12.6433,0,-133.313,-12.6433,-133.313 1/2:97:0,50,47:0:0:50,47:1760,1651:-276.638,-133.358,-118.307,-143.629,0,-129.481 1/2:114:0,64,49:0:0:64,49:2174,1591:-304.089,-127.763,-108.497,-176.433,0,-161.683 1/2:118:0,66,52:0:0:66,52:2326,1813:-336.116,-146.741,-126.873,-189.724,0,-174.07 1/2:41:0,24,17:0:0:24,17:856,593:-118.199,-48.4494,-41.2246,-70.1005,0,-64.983 1/2:44:0,24,20:0:0:24,20:851,672:-123.988,-54.6473,-47.4226,-69.6847,0,-63.6641 1/2:120:0,62,58:0:0:62,58:2164,2018:-338.62,-162.605,-143.941,-176.362,0,-158.902 1/2:91:0,63,28:0:0:63,28:2240,1000:-263.912,-81.4082,-62.4433,-182.859,0,-174.43 1/1:125:0,125,0:0:0:125,0:4413,0:-397.343,-37.6288,0,-397.343,-37.6288,-397.343 1/1:67:0,67,0:0:0:67,0:2353,0:-212.029,-20.169,0,-212.029,-20.169,-212.029 chr05 387752 . TATTG TTTG,TTTT 37781.7 PASS AB=0.551557,0.447751;ABP=36.3728,37.2745;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1087,736;CIGAR=1M1D3M,1M1D2M1X;DP=1824;DPB=1459.4;DPRA=0.974719,1.65302;EPP=2268.82,1558.08;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.8,2;MQM=59.9255,47.7853;MQMR=0;NS=21;NUMALT=2;ODDS=10.5905;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=38657,26171;QR=0;RO=0;RPL=1076,731;RPP=2268.82,1558.08;RPPR=0;RPR=11,5;RUN=1,1;SAF=0,0;SAP=2363.4,1601.21;SAR=1087,736;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:135:0,83,51:0:0:83,51:2972,1816:-389.071,-146.697,-121.712,-242.476,0,-227.123 1/2:38:0,16,22:0:0:16,22:553,788:-108.568,-63.6392,-58.8227,-45.2775,0,-38.6549 1/2:79:0,39,40:0:0:39,40:1388,1423:-228.547,-115.423,-103.683,-113.478,0,-101.437 1/1:51:0,51,0:0:0:51,0:1805,0:-162.73,-15.3525,0,-162.73,-15.3525,-162.73 1/2:153:0,82,71:0:0:82,71:2920,2538:-442.75,-204.755,-180.071,-238.349,0,-216.976 1/2:70:0,37,33:0:0:37,33:1312,1168:-200.173,-93.2796,-82.1415,-107.244,0,-97.3096 1/2:124:0,72,52:0:0:72,52:2580,1846:-357.936,-147.517,-125.843,-210.772,0,-195.118 2/2:89:0,0,89:0:0:0,89:0,3157:-280.51,-280.51,-280.51,-26.7917,-26.7917,0 1/2:197:0,106,91:0:0:106,91:3789,3229:-568.558,-259.896,-227.987,-308.656,0,-281.262 1/2:20:0,12,8:0:0:12,8:413,286:-56.4517,-22.912,-19.2996,-33.8855,0,-31.4772 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:41:0,41,0:0:0:41,0:1452,0:-130.976,-12.3422,0,-130.976,-12.3422,-130.976 1/2:96:0,49,47:0:0:49,47:1729,1668:-275.804,-135.014,-120.263,-141.142,0,-126.994 1/2:118:0,66,52:0:0:66,52:2322,1843:-337.442,-148.423,-128.555,-189.37,0,-173.716 1/2:119:0,66,53:0:0:66,53:2368,1887:-345.978,-152.829,-132.961,-193.504,0,-177.55 1/2:40:0,23,17:0:0:23,17:803,608:-115.092,-49.7919,-42.8682,-65.6538,0,-60.5363 1/2:42:0,22,20:0:0:22,20:788,705:-121.868,-57.6001,-50.9774,-64.6221,0,-58.6015 1/2:124:0,64,60:0:0:64,60:2261,2134:-355.912,-171.778,-152.512,-184.486,0,-166.424 1/2:90:0,60,30:0:0:60,30:2141,1075:-262.04,-87.5042,-69.4424,-174.892,0,-165.861 1/1:126:0,126,0:0:0:126,0:4485,0:-403.82,-37.9298,0,-403.82,-37.9298,-403.82 1/1:66:0,66,0:0:0:66,0:2360,0:-212.659,-19.868,0,-212.659,-19.868,-212.659 chr05 457778 . 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G A 18799.5 PASS AB=0.509804;ABP=4.67084;AC=17;AF=0.404762;AN=42;AO=1119;CIGAR=1X;DP=2369;DPB=2369;DPRA=2.37955;EPP=2432.89;EPPR=2708.66;GTI=1;LEN=1;MEANALT=1.25;MQM=59.2252;MQMR=59.8949;NS=21;NUMALT=1;ODDS=5.50367;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39157;QR=44502;RO=1246;RPL=1119;RPP=2432.89;RPPR=2708.66;RPR=0;RUN=1;SAF=1119;SAP=2432.89;SAR=0;SRF=1246;SRP=2708.66;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:58,83:58:2080:83:2906:-219.247,0,-145.014 0/1:119:58,60:58:2072:60:2095:-152.787,0,-150.873 0/1:98:42,56:42:1508:56:1964:-147.481,0,-106.514 0/0:101:101,0:101:3607:0:0:0,-30.404,-324.836 0/1:311:163,147:163:5801:147:5127:-367.462,0,-428.027 0/1:82:34,47:34:1216:47:1655:-123.556,0,-84.9503 0/1:135:77,58:77:2756:58:2033:-142.425,0,-207.632 1/1:105:0,105:0:0:105:3660:-328.974,-31.6082,0 0/1:318:167,151:167:5945:151:5266:-378.237,0,-439.421 0/1:29:13,16:13:468:16:564:-42.3203,0,-33.7298 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/1:135:71,64:71:2548:64:2256:-162.578,0,-188.931 0/1:131:80,51:80:2863:51:1746:-117.855,0,-218.468 0/1:159:69,90:69:2476:90:3177:-238.283,0,-175.23 0/1:90:40,49:40:1432:49:1728:-128.724,0,-102.114 0/1:105:30,75:30:1080:75:2644:-206.587,0,-65.9051 0/1:79:33,46:33:1165:46:1592:-119.587,0,-81.3736 0/1:57:36,21:36:1296:21:744:-50.1185,0,-99.7852 0/0:97:97,0:97:3455:0:0:0,-29.1999,-311.152 0/0:46:46,0:46:1626:0:0:0,-13.8474,-146.627 chr05 617494 . 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C T 13268.1 PASS AB=0.541401;ABP=17.035;AC=25;AF=0.595238;AN=42;AO=705;CIGAR=1X;DP=1176;DPB=1176;DPRA=1.45769;EPP=1533.9;EPPR=1025.77;GTI=0;LEN=1;MEANALT=1;MQM=59.8652;MQMR=60;NS=21;NUMALT=1;ODDS=9.45029;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25217;QR=16759;RO=471;RPL=0;RPP=1533.9;RPPR=1025.77;RPR=705;RUN=1;SAF=0;SAP=1533.9;SAR=705;SRF=0;SRP=1025.77;SRR=471;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:26,36:26:932:36:1292:-97.9199,0,-65.535 0/1:61:27,34:27:968:34:1205:-90.3919,0,-69.0745 0/1:16:7,9:7:252:9:312:-23.5853,0,-18.2125 1/1:62:0,62:0:0:62:2228:-200.784,-18.6639,0 0/1:159:55,104:55:1972:104:3740:-288.927,0,-129.891 0/1:62:44,18:44:1576:18:644:-39.6267,0,-123.468 0/1:99:43,56:43:1501:56:2000:-150.458,0,-105.576 0/0:39:39,0:39:1374:0:0:0,-11.7402,-123.957 0/1:81:38,43:38:1360:43:1538:-114.33,0,-98.3172 0/1:11:7,4:7:248:4:144:-10.0023,0,-19.3529 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 0/1:74:44,30:44:1554:30:1080:-75.237,0,-117.874 0/1:20:13,7:13:468:7:233:-15.2722,0,-36.439 0/1:50:25,25:25:892:25:900:-66.2695,0,-65.5482 0/1:58:17,41:17:612:41:1462:-114.414,0,-37.9537 0/1:33:13,20:13:459:20:716:-54.8337,0,-31.7101 0/1:84:48,36:48:1708:36:1276:-89.8565,0,-128.719 0/1:72:25,47:25:883:47:1688:-130.533,0,-58.1133 1/1:67:0,67:0:0:67:2403:-216.526,-20.169,0 1/1:43:0,43:0:0:43:1536:-138.193,-12.9443,0 chr05 617572 . C T 13421 PASS AB=0.544118;ABP=19.1047;AC=25;AF=0.595238;AN=42;AO=713;CIGAR=1X;DP=1186;DPB=1186;DPRA=1.47051;EPP=1551.27;EPPR=1027.95;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9201;MQMR=60;NS=21;NUMALT=1;ODDS=9.02656;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25498;QR=16854;RO=472;RPL=0;RPP=1551.27;RPPR=1027.95;RPR=713;RUN=1;SAF=0;SAP=1551.27;SAR=713;SRF=0;SRP=1027.95;SRR=472;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:24,37:24:848:37:1320:-100.739,0,-58.2768 0/1:61:28,33:28:995:33:1188:-88.8658,0,-71.5012 0/1:15:7,8:7:244:8:284:-21.3879,0,-17.784 1/1:63:0,63:0:0:63:2240:-201.863,-18.9649,0 0/1:160:56,104:56:2004:104:3726:-287.368,0,-132.469 0/1:63:45,18:45:1608:18:648:-39.687,0,-126.045 0/1:101:42,59:42:1496:59:2110:-159.751,0,-104.531 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/1:83:41,42:41:1455:42:1508:-111.029,0,-106.26 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:17:0,17:0:0:17:600:-54.3292,-5.11751,0 0/1:74:44,30:44:1576:30:1064:-73.7954,0,-119.855 0/1:23:13,10:13:468:10:360:-25.792,0,-35.536 0/1:50:25,25:25:896:25:896:-65.9089,0,-65.9089 0/1:59:16,43:16:576:43:1543:-121.401,0,-34.4142 0/1:34:13,21:13:468:21:737:-56.4156,0,-32.2246 0/1:85:48,36:48:1712:36:1296:-91.2976,0,-128.719 0/1:73:25,48:25:896:48:1720:-133.11,0,-58.9852 1/1:69:0,69:0:0:69:2472:-222.734,-20.7711,0 1/1:42:0,42:0:0:42:1498:-135.077,-12.6433,0 chr05 652896 . TCTC TCTT,CCTA 123317 PASS AB=0.527996,0.468457;ABP=29.8806,37.1206;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2758,2051;CIGAR=3M1X,1X2M1X;DP=4825;DPB=4826;DPRA=1.15025,2.34492;EPP=5991.93,4456.7;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.5,2.76471;MQM=59.9942,59.6841;MQMR=0;NS=21;NUMALT=2;ODDS=11.3225;PAIRED=0,0;PAIREDR=0;PAO=3,1;PQA=68,36;PQR=0;PRO=0;QA=97303,70861;QR=0;RO=0;RPL=1097,724;RPP=253.459,387.977;RPPR=0;RPR=1661,1327;RUN=1,1;SAF=1097,724;SAP=253.459,387.977;SAR=1661,1327;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:352:0,166,186:0:0:166,186:5912,6445:-1006.02,-524.154,-474.183,-482.217,0,-426.226 1/2:249:0,136,111:0:0:136,111:4844,3826:-705.515,-310.687,-269.747,-394.852,0,-361.437 1/2:150:0,90,60:0:0:90,60:3139,2069:-423.718,-168.419,-141.326,-255.645,0,-237.584 1/1:244:0,244,0:0:0:244,0:8607,0:-774.322,-73.4513,0,-774.322,-73.4513,-774.322 1/2:528:0,258,267:0:0:258,267:9087,9248:-1491.33,-751.524,-673.858,-739.907,0,-659.532 1/2:284:0,178,106:0:0:178,106:6297,3650:-809.637,-296.739,-243.156,-513.246,0,-481.336 1/2:376:0,204,172:0:0:204,172:7227,5901:-1068.13,-479.396,-417.986,-589.079,0,-537.302 2/2:201:0,0,201:0:0:0,201:0,6974:-627.663,-627.663,-627.663,-60.507,-60.507,0 1/2:379:0,220,159:0:0:220,159:7729,5501:-1076.45,-447.37,-381.144,-629.43,0,-581.566 1/2:45:0,28,15:0:0:28,15:988,529:-123.543,-43.0888,-34.66,-80.469,0,-75.9535 1/1:17:0,17,0:0:0:17,0:588,0:-53.2368,-5.11751,0,-53.2368,-5.11751,-53.2368 1/1:59:0,59,0:0:0:59,0:2075,0:-187.021,-17.7608,0,-187.021,-17.7608,-187.021 1/2:326:0,168,158:0:0:168,158:5880,5453:-921.43,-443.028,-392.455,-478.437,0,-430.874 1/2:258:0,133,125:0:0:133,125:4686,4322:-733.056,-351.537,-311.5,-381.869,0,-344.24 1/2:344:0,163,178:0:0:163,178:5737,6163:-967.923,-500.887,-451.819,-467.077,0,-413.494 1/2:196:0,90,106:0:0:90,106:3186,3704:-560.646,-301.125,-274.032,-259.873,0,-227.963 1/2:170:0,94,76:0:0:94,76:3307,2569:-477.703,-208.492,-180.196,-269.554,0,-246.676 1/2:152:0,68,81:0:0:68,81:2383,2777:-419.322,-225.412,-204.942,-193.957,0,-169.574 1/2:138:0,88,49:0:0:88,49:3128,1700:-393.063,-138.156,-111.665,-254.898,0,-240.147 1/1:237:0,234,1:0:0:234,1:8253,30:-742.529,-70.441,0,-740.13,-68.0241,-739.829 1/1:120:0,120,0:0:0:120,0:4250,0:-382.683,-36.1236,0,-382.683,-36.1236,-382.683 chr05 652935 . C A 23396.9 PASS AB=0.488595;ABP=5.83347;AC=17;AF=0.404762;AN=42;AO=1346;CIGAR=1X;DP=3064;DPB=3064;DPRA=2.12845;EPP=2925.81;EPPR=3731.43;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.5119;MQMR=59.9977;NS=21;NUMALT=1;ODDS=1.49884;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48223;QR=61357;RO=1717;RPL=1346;RPP=2925.81;RPPR=3731.43;RPR=0;RUN=1;SAF=0;SAP=2925.81;SAR=1346;SRF=0;SRP=3731.43;SRR=1717;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:248:116,132:116:4160:132:4732:-351.367,0,-299.924 0/1:167:83,84:83:2972:84:3003:-219.523,0,-217.441 0/1:77:40,37:40:1432:37:1332:-97.0003,0,-105.998 0/0:197:197,0:197:7037:0:0:0,-59.3029,-633.392 0/1:350:168,182:168:5941:182:6518:-481.016,0,-429.437 0/1:194:118,76:118:4232:76:2717:-186.291,0,-322.659 0/1:237:125,112:125:4446:112:4004:-289.127,0,-328.966 1/1:124:0,124:0:0:124:4435:-399.284,-37.3277,0 0/1:237:138,99:138:4953:99:3541:-247.549,0,-374.572 0/1:23:15,8:15:540:8:288:-19.3437,0,-42.0128 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/1:262:121,140:121:4333:140:5024:-373.072,0,-311.363 0/1:170:86,84:86:3081:84:3020:-220.852,0,-226.341 0/1:145:71,74:71:2533:74:2664:-196.353,0,-184.57 0/1:110:46,64:46:1644:64:2277:-171.921,0,-115.135 0/1:120:61,59:61:2177:59:2116:-154.092,0,-160.071 0/1:63:30,33:30:1058:33:1184:-87.8198,0,-76.5647 0/1:96:59,37:59:2094:37:1332:-91.2386,0,-159.827 0/0:136:135,1:135:4848:1:36:0,-37.3418,-432.874 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 chr05 681358 . G T 20962.7 PASS AB=0.523615;ABP=11.3176;AC=25;AF=0.595238;AN=42;AO=1141;CIGAR=1X;DP=2065;DPB=2065;DPRA=0.914953;EPP=2480.66;EPPR=2009.45;GTI=0;LEN=1;MEANALT=1;MQM=59.9684;MQMR=60;NS=21;NUMALT=1;ODDS=0.566605;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40766;QR=32928;RO=924;RPL=0;RPP=2480.66;RPPR=2009.45;RPR=1141;RUN=1;SAF=0;SAP=2480.66;SAR=1141;SRF=0;SRP=2009.45;SRR=924;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:43,67:43:1540:67:2395:-182.693,0,-105.78 0/1:108:59,49:59:2096:49:1744:-124.725,0,-156.396 0/1:93:47,46:47:1672:46:1621:-118.181,0,-122.771 1/1:124:0,124:0:0:124:4425:-398.421,-37.3277,0 0/1:234:93,141:93:3312:141:5033:-382.675,0,-227.856 0/1:118:49,69:49:1739:69:2472:-187.212,0,-121.272 0/1:222:126,96:126:4484:96:3426:-241.725,0,-336.901 0/0:107:107,0:107:3828:0:0:0,-32.2102,-344.717 0/1:192:91,101:91:3221:101:3607:-267.038,0,-232.316 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:13:0,13:0:0:13:460:-41.7354,-3.91339,0 0/1:97:52,45:52:1864:45:1620:-116.89,0,-138.84 0/1:101:54,47:54:1928:47:1683:-121.351,0,-143.393 0/1:102:34,68:34:1220:68:2440:-189.131,0,-79.4017 0/1:107:66,41:66:2356:41:1476:-100.926,0,-180.089 0/1:103:48,55:48:1692:55:1968:-146.389,0,-121.557 0/1:68:36,32:36:1296:32:1152:-83.5201,0,-96.4739 0/1:51:13,38:13:468:38:1356:-106.988,0,-27.1071 1/1:66:0,66:0:0:66:2352:-211.939,-19.868,0 1/1:34:0,34:0:0:34:1216:-109.747,-10.235,0 chr05 682333 . CATCTTAGA CATCATTGG,AATCATTGG 22813.5 PASS AB=0.571429,0.421053;ABP=44.2683,53.4113;AC=18,24;AF=0.428571,0.571429;AN=42;AO=644,521;CIGAR=4M1X1M1X1M1X,1X3M1X1M1X1M1X;DP=1174;DPB=1174;DPRA=3.30618,0.567895;EPP=1401.44,1134.35;EPPR=0;GTI=4;LEN=9,9;MEANALT=2.47059,2.2;MQM=58.705,54.3916;MQMR=0;NS=21;NUMALT=2;ODDS=0.0626924;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22421,18139;QR=0;RO=0;RPL=0,0;RPP=1401.44,1134.35;RPPR=0;RPR=644,521;RUN=1,1;SAF=0,0;SAP=1401.44,1134.35;SAR=644,521;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:78:0,39,39:0:0:39,39:1373,1346:-221.23,-109.511,-97.7708,-112.067,0,-100.327 1/2:27:0,23,4:0:0:23,4:789,136:-74.9248,-10.8643,-3.94063,-64.3891,0,-63.185 1/2:83:0,39,43:0:0:39,43:1388,1503:-235.128,-122.013,-110.273,-113.127,0,-100.183 2/2:51:0,1,50:0:0:1,50:36,1724:-154.859,-151.922,-151.621,-15.0515,-11.7547,0 1/2:94:0,55,38:0:0:55,38:1927,1308:-262.509,-105.721,-89.1647,-156.775,0,-145.335 1/1:19:0,17,1:0:0:17,1:593,33:-53.3537,-5.11751,0,-50.6876,-2.44552,-50.3865 1/2:52:0,44,8:0:0:44,8:1515,284:-146.174,-23.1654,-9.92013,-123.358,0,-120.95 1/1:95:0,94,0:0:0:94,0:3264,0:-293.441,-28.2968,0,-293.441,-28.2968,-293.441 1/2:103:0,47,54:0:0:47,54:1636,1890:-286.625,-153.6,-139.451,-133.048,0,-116.792 1/2:13:0,10,3:0:0:10,3:346,106:-36.9093,-8.80356,-5.79326,-28.4522,0,-27.5491 2/2:7:0,0,7:0:0:0,7:0,250:-22.8311,-22.8311,-22.8311,-2.10721,-2.10721,0 2/2:13:0,0,13:0:0:0,13:0,462:-41.8768,-41.8768,-41.8768,-3.91339,-3.91339,0 1/2:114:0,68,46:0:0:68,46:2360,1624:-324.237,-132.425,-111.955,-192.162,0,-178.314 1/2:63:0,31,31:0:0:31,31:1052,1049:-170.19,-84.8843,-75.5524,-85.2855,0,-75.9536 1/2:131:0,75,55:0:0:75,55:2631,1937:-371.555,-157.484,-134.907,-214.151,0,-197.594 1/2:43:0,21,22:0:0:21,22:740,775:-123.537,-63.3328,-57.0111,-60.5556,0,-53.9329 1/2:46:0,28,17:0:0:28,17:967,594:-126.835,-48.2772,-39.8484,-78.5691,0,-73.4516 1/2:48:0,38,10:0:0:38,10:1318,347:-135.635,-28.5252,-17.0861,-107.456,0,-104.446 1/2:36:0,14,22:0:0:14,22:486,761:-101.634,-62.1286,-57.9142,-39.8523,0,-33.2296 2/2:52:0,0,52:0:0:0,52:0,1798:-161.647,-161.647,-161.647,-15.6536,-15.6536,0 2/2:6:0,0,6:0:0:0,6:0,212:-19.4127,-19.4127,-19.4127,-1.80618,-1.80618,0 chr05 685095 . T A 10433.5 PASS AB=0.709172;ABP=172.886;AC=27;AF=0.642857;AN=42;AO=522;CIGAR=1X;DP=710;DPB=710;DPRA=0.619811;EPP=1136.52;EPPR=411.247;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9043;NS=21;NUMALT=1;ODDS=1.12619;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18670;QR=6724;RO=188;RPL=1;RPP=1127.85;RPPR=394.06;RPR=521;RUN=1;SAF=521;SAP=1127.85;SAR=1;SRF=186;SRP=394.06;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:15:7,8:7:252:8:288:-21.752,0,-18.5135 1/1:15:1,14:1:36:14:504:-42.0998,-0.917175,0 0/1:25:7,18:7:248:18:648:-51.1261,0,-15.1384 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 0/1:72:15,57:15:536:57:2044:-162.558,0,-26.9007 0/1:12:3,9:3:108:9:305:-24.1649,0,-6.46281 0/1:39:7,32:7:240:32:1148:-91.8897,0,-10.1945 0/0:53:53,0:53:1892:0:0:0,-15.9546,-170.558 0/1:62:21,41:21:756:41:1468:-113.752,0,-49.7034 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:19:0,19:0:0:19:661:-59.8116,-5.71957,0 0/1:38:13,25:13:468:25:896:-69.5212,0,-31.0205 1/1:37:3,34:3:108:34:1224:-100.392,-1.06294,0 0/1:27:4,23:4:144:23:820:-65.9947,0,-5.18581 0/1:13:4,9:4:144:9:320:-25.229,0,-9.40023 0/1:33:8,25:8:288:25:888:-70.305,0,-16.3334 0/1:70:26,44:26:928:44:1580:-121.419,0,-62.7662 0/1:34:10,24:10:360:24:852:-66.7654,0,-22.4223 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 1/1:20:1,19:1:36:19:684:-58.2921,-2.42233,0 chr05 685110 . G A 2467.26 PASS AB=0.277778;ABP=196.03;AC=15;AF=0.357143;AN=42;AO=181;CIGAR=1X;DP=712;DPB=712;DPRA=1.09573;EPP=396.047;EPPR=1153.89;GTI=2;LEN=1;MEANALT=1.0625;MQM=59.9006;MQMR=60;NS=21;NUMALT=1;ODDS=1.866;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6436;QR=18978;RO=530;RPL=0;RPP=396.047;RPPR=1153.89;RPR=181;RUN=1;SAF=181;SAP=396.047;SAR=0;SRF=530;SRP=1153.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/0:15:14,1:14:500:1:36:0,-0.917175,-41.7379 0/1:25:18,7:18:648:7:252:-15.5032,0,-51.1261 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/1:75:59,15:59:2116:15:528:-25.2152,0,-168.073 0/1:12:9,3:9:324:3:108:-6.46281,0,-25.8935 0/1:42:35,7:35:1252:7:252:-10.3857,0,-100.342 1/1:52:0,52:0:0:52:1853:-167.048,-15.6536,0 0/1:62:41,21:41:1472:21:752:-49.3424,0,-114.112 0/1:8:3,5:3:104:5:180:-14.1438,0,-7.29457 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:37:24,13:24:855:13:464:-30.9594,0,-66.1321 0/0:37:34,3:34:1220:3:108:0,-1.06294,-100.032 0/1:27:23,4:23:816:4:144:-5.18581,0,-65.6339 0/1:12:10,2:10:360:2:72:-3.22436,0,-29.1319 0/1:33:26,7:26:924:7:233:-11.3603,0,-73.5437 0/1:68:43,25:43:1540:25:892:-60.1296,0,-118.423 0/1:35:25,10:25:896:10:346:-20.927,0,-70.4243 0/0:66:66,0:66:2355:0:0:0,-19.868,-212.208 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 chr05 685344 . C T 17231.4 PASS AB=0.499395;ABP=3.01555;AC=17;AF=0.404762;AN=42;AO=986;CIGAR=1X;DP=2071;DPB=2071;DPRA=2.20574;EPP=2144.08;EPPR=2359.06;GTI=1;LEN=1;MEANALT=1;MQM=58.9746;MQMR=59.7613;NS=21;NUMALT=1;ODDS=4.47394;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34886;QR=37705;RO=1085;RPL=985;RPP=2135.41;RPPR=2359.06;RPR=1;RUN=1;SAF=985;SAP=2135.41;SAR=1;SRF=1085;SRP=2359.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:124:74,50:74:2577:50:1776:-122.673,0,-194.853 0/1:78:45,33:45:1587:33:1180:-83.0269,0,-119.639 0/1:119:47,72:47:1650:72:2523:-191.448,0,-112.964 0/0:125:125,0:125:4300:0:0:0,-37.6287,-387.026 0/1:227:94,133:94:3306:133:4714:-355.564,0,-228.386 0/1:74:29,45:29:1024:45:1612:-123.002,0,-70.1605 0/1:170:87,83:87:3060:83:2953:-214.211,0,-224.437 1/1:160:0,160:0:0:160:5626:-505.952,-48.1648,0 0/1:120:61,59:61:2116:59:2094:-152.404,0,-154.573 0/1:14:9,5:9:320:5:180:-12.2919,0,-24.9279 0/0:5:5,0:5:164:0:0:0,-1.50515,-15.0839 0/0:16:16,0:16:557:0:0:0,-4.81648,-50.4556 0/1:68:35,33:35:1226:33:1169:-85.0443,0,-88.9526 0/1:109:57,52:57:1898:52:1863:-134.914,0,-138.278 0/1:208:103,105:103:3614:105:3725:-272.752,0,-262.83 0/1:98:57,41:57:1987:41:1448:-101.009,0,-149.601 0/1:115:52,63:52:1825:63:2202:-163.599,0,-129.909 0/1:82:44,38:44:1531:38:1338:-96.029,0,-113.365 0/1:48:34,14:34:1166:14:483:-29.3461,0,-90.7926 0/0:80:80,0:80:2777:0:0:0,-24.0824,-250.172 0/0:31:31,0:31:1020:0:0:0,-9.33193,-92.0954 chr05 841977 . TT AT,AC 176106 PASS AB=0.666839,0.330313;ABP=936.986,969.139;AC=29,13;AF=0.690476,0.309524;AN=42;AO=5263,1608;CIGAR=1X1M,2X;DP=6890;DPB=6890;DPRA=1.04019,1.62599;EPP=11431.5,3494.74;EPPR=22.5536;GTI=1;LEN=1,2;MEANALT=2.2,2.41176;MQM=59.7469,58.8899;MQMR=59.5556;NS=21;NUMALT=2;ODDS=39.3485;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=187463,56298;QR=290;RO=9;RPL=2453,0;RPP=55.5948,3494.74;RPPR=3.25157;RPR=2810,1608;RUN=1,1;SAF=2453,0;SAP=55.5948,3494.74;SAR=2810,1608;SRF=4;SRP=3.25157;SRR=5;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:428:0,236,192:0:0:236,192:8411,6657:-1226.56,-541.031,-469.988,-685.875,0,-628.077 1/2:300:2,187,111:2:72:187,111:6679,3929:-857.93,-314.013,-263.596,-538.639,0,-511.1 1/2:322:0,229,93:0:0:229,93:8120,3281:-928.815,-267.35,-198.415,-661.817,0,-633.822 1/1:474:2,471,0:2:50:471,0:16712,0:-1498.81,-137.961,0,-1499.41,-141.785,-1503.31 1/2:604:0,398,203:0:0:398,203:14134,7105:-1729.24,-577.759,-457.949,-1151.52,0,-1090.41 1/2:447:1,260,186:1:36:260,186:9217,6502:-1276.39,-525.854,-450.524,-747.89,0,-694.835 1/1:599:0,598,1:0:0:598,1:21247,36:-1910.09,-180.016,0,-1907.15,-176.719,-1906.85 2/2:316:0,0,315:0:0:0,315:0,11069:-995.256,-995.256,-995.256,-94.8245,-94.8245,0 1/1:355:0,349,6:0:0:349,6:12469,200:-1121.56,-105.059,0,-1105.38,-88.5402,-1103.57 1/2:38:0,31,7:0:0:31,7:1095,237:-108.738,-19.5533,-10.2214,-89.5261,0,-87.4189 1/1:19:0,19,0:0:0:19,0:684,0:-61.8903,-5.71957,0,-61.8903,-5.71957,-61.8903 1/1:116:0,116,0:0:0:116,0:4156,0:-374.186,-34.9195,0,-374.186,-34.9195,-374.186 1/2:277:0,185,92:0:0:185,92:6604,3258:-804.009,-265.625,-209.934,-538.739,0,-511.044 1/2:395:0,242,152:0:0:242,152:8621,5247:-1128.79,-426.101,-353.252,-702.764,0,-657.008 1/2:468:1,334,131:1:36:334,131:11887,4625:-1341.93,-373.449,-275.842,-965.9,0,-929.403 1/1:151:2,146,2:2:68:146,2:5235,70:-464.795,-38.4344,0,-459.702,-38.2486,-464.616 1/1:164:0,157,7:0:0:157,7:5630,219:-506.478,-47.2617,0,-488.98,-29.4505,-486.873 1/2:333:0,274,58:0:0:274,58:9803,2026:-964.121,-164.808,-82.3263,-799.45,0,-781.991 1/2:251:0,200,51:0:0:200,51:7131,1801:-728.166,-146.909,-86.7029,-581.611,0,-566.258 1/1:571:1,569,1:1:28:569,1:20290,36:-1822.63,-169.107,0,-1819.99,-168.309,-1821.91 1/1:262:0,262,0:0:0:262,0:9338,0:-840.239,-78.8699,0,-840.239,-78.8699,-840.239 chr05 896162 . G A 7416.23 PASS AB=0.470486;ABP=7.36832;AC=23;AF=0.547619;AN=42;AO=324;CIGAR=1X;DP=641;DPB=641;DPRA=2.86364;EPP=21.1327;EPPR=14.5253;GTI=3;LEN=1;MEANALT=1;MQM=59.8951;MQMR=59.9243;NS=21;NUMALT=1;ODDS=1.79663;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11561;QR=11330;RO=317;RPL=323;RPP=697.908;RPPR=691.367;RPR=1;RUN=1;SAF=135;SAP=22.5536;SAR=189;SRF=138;SRP=14.5253;SRR=179;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:16:14,2:14:500:2:72:-2.02024,0,-40.5197 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:26:13,13:13:459:13:468:-34.6329,0,-33.8173 0/1:19:2,17:2:72:17:608:-49.3325,0,-1.11715 0/1:28:10,18:10:360:18:644:-49.8618,0,-24.3155 0/1:39:32,7:32:1143:7:252:-11.2888,0,-91.4385 1/1:24:1,23:1:36:23:820:-70.5242,-3.62645,0 0/1:36:13,23:13:468:23:824:-63.6462,0,-31.6226 1/1:24:0,24:0:0:24:842:-76.0962,-7.22472,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:57:26,31:26:932:31:1105:-82.5985,0,-67.0402 0/1:26:5,21:5:180:21:733:-58.4629,0,-8.72528 0/1:11:6,5:6:216:5:176:-12.8737,0,-16.4792 0/1:13:3,10:3:108:10:356:-28.4679,0,-6.16178 0/1:14:2,12:2:72:12:432:-35.0068,0,-2.6223 0/1:62:28,34:28:1008:34:1220:-91.4429,0,-72.3725 0/1:124:72,52:72:2576:52:1861:-130.441,0,-194.492 0/1:26:16,10:16:576:10:356:-24.5367,0,-44.3482 0/1:63:57,6:57:2012:6:216:-0.825623,0,-162.386 chr05 948525 . G A 19452.3 PASS AB=0.507028;ABP=3.43762;AC=28;AF=0.666667;AN=42;AO=982;CIGAR=1X;DP=1591;DPB=1591;DPRA=0.653982;EPP=2135.4;EPPR=1305.89;GTI=0;LEN=1;MEANALT=1.25;MQM=59.1609;MQMR=59.92;NS=21;NUMALT=1;ODDS=4.05523;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35143;QR=21375;RO=600;RPL=0;RPP=2135.4;RPPR=1305.89;RPR=982;RUN=1;SAF=982;SAP=2135.4;SAR=0;SRF=600;SRP=1305.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:0,94:0:0:94:3368:-302.742,-28.2968,0 1/1:75:0,74:0:0:74:2644:-237.828,-22.2762,0 0/1:94:60,34:60:2111:34:1220:-81.665,0,-161.96 1/1:48:0,48:0:0:48:1724:-155.384,-14.4494,0 0/1:152:69,83:69:2451:83:2968:-221.456,0,-175.088 0/1:50:21,28:21:752:28:1008:-75.96,0,-52.5048 1/1:156:3,152:3:108:152:5407:-476.657,-36.9443,0 0/0:113:113,0:113:4043:0:0:0,-34.0164,-364.056 0/1:128:75,53:75:2662:53:1900:-132.74,0,-201.208 0/1:13:4,9:4:144:9:316:-24.8655,0,-9.40023 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 0/1:90:55,35:55:1950:35:1256:-86.1946,0,-148.682 0/1:88:41,46:41:1472:46:1640:-121.279,0,-106.227 0/1:107:52,55:52:1851:55:1964:-144.571,0,-134.659 0/1:49:12,37:12:432:37:1324:-104.697,0,-24.4707 0/1:42:15,22:15:540:22:788:-59.6664,0,-37.4446 0/1:115:47,68:47:1671:68:2444:-185.592,0,-116.058 0/1:68:33,35:33:1188:35:1248:-92.1277,0,-86.7586 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 1/1:53:0,53:0:0:53:1908:-170.884,-15.9546,0 chr05 948581 . ATTGAG TTTAAC,TTTGAC 47641.4 PASS AB=0.682708,0.314029;ABP=358.494,371.303;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1557,429;CIGAR=1X2M1X1M1X,1X4M1X;DP=1993;DPB=1993.33;DPRA=2.38049,0.915512;EPP=3383.99,934.572;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.05,2.2;MQM=46.2286,54.4965;MQMR=0;NS=21;NUMALT=2;ODDS=2.32749;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=0;QA=54296,15191;QR=0;RO=0;RPL=527,1;RPP=355.87,925.906;RPPR=0;RPR=1030,428;RUN=1,1;SAF=527,1;SAP=355.87,925.906;SAR=1030,428;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:0,178,0:0:0:178,0:6184,0:-546.237,-53.5833,0,-546.237,-53.5833,-546.237 1/1:54:0,53,1:0:0:53,1:1861,36:-155.42,-15.9546,0,-152.482,-12.6573,-152.181 1/2:72:0,58,14:0:0:58,14:1995,496:-200.562,-40.7274,-23.2677,-160.185,0,-155.971 1/1:156:0,156,0:0:0:156,0:5408,0:-476.695,-46.9607,0,-476.695,-46.9607,-476.695 1/2:190:0,132,56:0:0:132,56:4606,1972:-529.703,-160.375,-120.639,-369.328,0,-352.47 1/2:121:0,83,37:0:0:83,37:2887,1320:-324.673,-106.605,-81.6197,-218.094,0,-206.956 1/1:104:0,103,0:0:0:103,0:3628,0:-305.226,-31.0061,0,-305.226,-31.0061,-305.226 2/2:41:0,0,41:0:0:0,41:0,1453:-130.554,-130.554,-130.554,-12.3422,-12.3422,0 1/2:91:0,43,48:0:0:43,48:1498,1683:-256.568,-137.096,-124.151,-119.818,0,-105.369 1/2:23:0,20,3:0:0:20,3:703,108:-64.3718,-9.15779,-3.13719,-55.5708,0,-54.6677 1/1:11:0,11,0:0:0:11,0:386,0:-32.8953,-3.31133,0,-32.8953,-3.31133,-32.8953 1/1:54:0,54,0:0:0:54,0:1883,0:-164.347,-16.2556,0,-164.347,-16.2556,-164.347 1/2:122:0,79,43:0:0:79,43:2773,1532:-346.779,-125.1,-101.318,-222.031,0,-209.087 1/2:109:0,91,18:0:0:91,18:3189,644:-307.519,-52.747,-25.3532,-255.127,0,-249.708 1/2:154:0,91,63:0:0:91,63:3193,2252:-439.353,-183.368,-155.974,-256.337,0,-237.372 1/2:45:0,27,18:0:0:27,18:954,640:-127.978,-52.4264,-44.2986,-75.9021,0,-70.4836 1/2:32:0,17,15:0:0:17,15:581,531:-89.5878,-43.4387,-38.3212,-46.4935,0,-41.9781 1/2:157:0,107,50:0:0:107,50:3760,1736:-440.956,-141.233,-109.023,-300.069,0,-285.018 1/2:110:0,89,20:0:0:89,20:3092,720:-304.644,-58.6879,-31.8962,-245.945,0,-239.925 1/1:102:0,101,0:0:0:101,0:3514,0:-305.581,-30.404,0,-305.581,-30.404,-305.581 1/1:66:0,64,2:0:0:64,2:2201,68:-186.293,-19.2659,0,-181.055,-13.7041,-180.453 chr05 996487 . G C 2259.93 PASS AB=0.352526;ABP=163.768;AC=11;AF=0.261905;AN=42;AO=310;CIGAR=1X;DP=1517;DPB=1517;DPRA=1.45995;EPP=676.167;EPPR=2572.12;GTI=0;LEN=1;MEANALT=1;MQM=30.0484;MQMR=59.9271;NS=21;NUMALT=1;ODDS=9.50727;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11036;QR=43225;RO=1207;RPL=0;RPP=676.167;RPPR=2572.12;RPR=310;RUN=1;SAF=310;SAP=676.167;SAR=0;SRF=1207;SRP=2623.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:26,12:26:932:12:423:-19.8568,0,-72.7304 0/1:37:20,17:20:720:17:582:-30.6798,0,-53.9907 0/1:119:84,35:84:3012:35:1240:-53.0502,0,-235.488 0/0:144:138,6:138:4939:6:212:0,-27.4886,-428.8 0/0:82:79,3:79:2799:3:108:0,-16.5567,-244.024 0/0:53:52,1:52:1864:1:36:0,-13.0518,-165.137 0/1:102:71,31:71:2540:31:1112:-51.1147,0,-198.024 0/1:165:95,70:95:3404:70:2499:-132.356,0,-256.904 0/0:123:123,0:123:4420:0:0:0,-37.0267,-397.925 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:33:22,11:22:792:11:392:-18.9891,0,-61.6717 0/1:158:96,62:96:3452:62:2212:-114.924,0,-263.329 0/0:105:105,0:105:3744:0:0:0,-31.6081,-337.159 0/1:96:69,27:69:2480:27:960:-41.2365,0,-194.554 0/1:25:14,11:14:504:11:396:-20.6851,0,-38.1723 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/1:41:29,12:29:1040:12:432:-19.2979,0,-81.5721 0/1:37:25,12:25:896:12:432:-20.502,0,-69.8222 0/0:95:95,0:95:3408:0:0:0,-28.5978,-306.934 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 chr05 996497 . C T 2269.4 PASS AB=0.352526;ABP=163.768;AC=11;AF=0.261905;AN=42;AO=311;CIGAR=1X;DP=1505;DPB=1505;DPRA=1.47507;EPP=678.338;EPPR=2582.73;GTI=0;LEN=1;MEANALT=1.07143;MQM=29.9486;MQMR=59.9404;NS=21;NUMALT=1;ODDS=8.50061;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11163;QR=42533;RO=1192;RPL=311;RPP=678.338;RPPR=2582.73;RPR=0;RUN=1;SAF=311;SAP=678.338;SAR=0;SRF=1192;SRP=2591.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:25,11:25:896:11:396:-18.1906,0,-70.1233 0/1:35:19,16:19:675:16:572:-29.6033,0,-50.5409 0/1:119:83,36:83:2960:36:1287:-56.1156,0,-230.812 0/0:138:132,6:132:4710:6:216:0,-25.5769,-408.095 0/0:82:78,4:78:2800:4:144:0,-13.9442,-241.499 0/0:53:52,1:52:1859:1:36:0,-13.0518,-164.686 0/1:101:70,31:70:2486:31:1112:-50.8573,0,-193.446 0/1:167:95,71:95:3388:71:2548:-134.71,0,-254.806 0/0:122:122,0:122:4367:0:0:0,-36.7257,-393.159 0/0:12:12,0:12:424:0:0:0,-3.61236,-38.4964 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:34:22,12:22:792:12:432:-19.6759,0,-61.3707 0/1:162:100,62:100:3552:62:2228:-113.999,0,-271.121 0/0:103:103,0:103:3679:0:0:0,-31.0061,-331.313 0/1:95:68,27:68:2435:27:968:-41.7882,0,-190.807 0/1:25:14,11:14:504:11:396:-20.6851,0,-38.1723 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/1:40:28,12:28:993:12:432:-19.5989,0,-77.6413 0/1:37:26,11:26:910:11:396:-17.8895,0,-71.076 0/0:91:90,0:90:3216:0:0:0,-27.0927,-289.3 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.864 chr05 999467 . A G 21277.2 PASS AB=0.480154;ABP=5.68224;AC=29;AF=0.690476;AN=42;AO=1040;CIGAR=1X;DP=1497;DPB=1497;DPRA=1.54255;EPP=2261.34;EPPR=984.535;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.19545;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36996;QR=16337;RO=456;RPL=1040;RPP=2261.34;RPPR=993.202;RPR=0;RUN=1;SAF=1040;SAP=2261.34;SAR=0;SRF=455;SRP=984.535;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,101:0:0:101:3609:-325.015,-30.404,0 1/1:44:0,44:0:0:44:1544:-139.249,-13.2453,0 0/1:50:26,24:26:924:24:852:-61.9489,0,-68.4262 1/1:97:0,97:0:0:97:3461:-311.701,-29.1999,0 0/1:149:94,55:94:3357:55:1947:-130.65,0,-257.492 0/1:68:31,37:31:1116:37:1308:-97.5487,0,-80.2817 1/1:157:2,155:2:72:155:5495:-487.842,-40.425,0 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 0/1:104:54,50:54:1932:50:1777:-128.904,0,-142.849 0/1:8:3,5:3:108:5:176:-13.7768,0,-7.66693 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:130:2,128:2:72:128:4588:-406.247,-32.2972,0 0/1:61:33,27:33:1188:27:959:-68.2039,0,-88.807 0/1:93:47,46:47:1680:46:1647:-120.522,0,-123.491 0/1:77:34,43:34:1224:43:1539:-115.623,0,-87.2877 0/1:42:23,19:23:824:19:675:-48.4337,0,-61.8401 0/1:60:31,29:31:1116:29:1035:-75.4013,0,-82.6899 0/1:69:29,40:29:1044:40:1412:-106.603,0,-73.5037 1/1:80:0,80:0:0:80:2850:-256.737,-24.0824,0 1/1:46:0,46:0:0:46:1618:-145.908,-13.8474,0 chr05 999481 . T A 7842.28 PASS AB=0.517995;ABP=5.19852;AC=13;AF=0.309524;AN=42;AO=453;CIGAR=1X;DP=1482;DPB=1482;DPRA=1.48128;EPP=986.687;EPPR=2237.46;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.30664;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16181;QR=36415;RO=1029;RPL=453;RPP=986.687;RPPR=2237.46;RPR=0;RUN=1;SAF=453;SAP=986.687;SAR=0;SRF=1029;SRP=2237.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:98:98,0:98:3483:0:0:0,-29.5009,-313.68 0/0:45:45,0:45:1583:0:0:0,-13.5463,-142.76 0/1:48:23,25:23:807:25:892:-66.1497,0,-58.4997 0/0:92:92,0:92:3250:0:0:0,-27.6948,-292.721 0/1:150:57,93:57:2031:93:3335:-255.212,0,-137.907 0/1:70:38,32:38:1360:32:1136:-81.4762,0,-101.628 0/0:154:152,2:152:5297:2:72:0,-39.5219,-470.036 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 0/1:105:51,54:51:1809:54:1932:-142.548,0,-131.482 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:130:128,2:128:4544:2:72:0,-32.2972,-402.291 0/1:58:24,34:24:824:34:1211:-91.8358,0,-57.0128 0/1:92:47,45:47:1662:45:1607:-117.225,0,-122.171 0/1:76:42,34:42:1500:34:1212:-86.508,0,-112.416 0/1:45:21,24:21:748:24:849:-63.1823,0,-54.0989 0/1:58:27,31:27:972:31:1108:-82.5713,0,-70.3382 0/1:68:40,28:40:1423:28:995:-69.394,0,-107.897 0/0:79:79,0:79:2827:0:0:0,-23.7814,-254.668 0/0:46:46,0:46:1615:0:0:0,-13.8474,-145.636 chr05 1032919 . TTT GTT,GTC 27420.9 PASS AB=0.592934,0.400922;ABP=51.8467,58.5179;AC=29,13;AF=0.690476,0.309524;AN=42;AO=924,367;CIGAR=1X2M,1X1M1X;DP=1298;DPB=1298;DPRA=0.592574,1.40278;EPP=2009.45,799.941;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=2,2.26667;MQM=59.9827,59.861;MQMR=60;NS=21;NUMALT=2;ODDS=3.96474;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33030,12922;QR=31;RO=1;RPL=924,367;RPP=2009.45,799.941;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=924,367;SAP=2009.45,799.941;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,41,3:0:0:41,3:1472,108:-132.416,-12.3422,0,-123.604,-3.17015,-122.701 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 1/2:83:0,41,40:0:0:41,40:1461,1408:-233.706,-114.619,-102.276,-119.092,0,-107.05 1/1:115:0,113,1:0:0:113,1:4048,36:-364.147,-34.0164,0,-361.21,-31.079,-360.909 1/2:76:0,47,29:0:0:47,29:1692,993:-219.014,-80.9442,-66.7958,-138.418,0,-129.689 1/2:57:0,36,21:0:0:36,21:1292,742:-166.173,-60.782,-49.9449,-105.747,0,-99.4251 1/1:83:0,83,0:0:0:83,0:2957,0:-266.362,-24.9855,0,-266.362,-24.9855,-266.362 2/2:101:0,0,101:0:0:0,101:0,3550:-319.473,-319.473,-319.473,-30.404,-30.404,0 1/2:131:0,71,59:0:0:71,59:2533,2068:-374.76,-168.267,-146.894,-206.487,0,-188.726 1/2:7:0,6,1:0:0:6,1:216,36:-20.9217,-3.29724,-1.49106,-17.9843,0,-17.6833 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:53:0,53,0:0:0:53,0:1900,0:-171.278,-15.9546,0,-171.278,-15.9546,-171.278 1/1:96:0,96,0:0:0:96,0:3421,0:-308.103,-28.8989,0,-308.103,-28.8989,-308.103 1/2:89:0,50,38:0:0:50,38:1796,1335:-255.243,-108.726,-93.6744,-146.589,0,-135.15 1/2:96:0,58,38:0:0:58,38:2069,1358:-279.744,-111.082,-93.6222,-169.019,0,-157.58 1/2:12:0,9,3:0:0:9,3:324,108:-35.6088,-9.17208,-6.46281,-26.7966,0,-25.8935 1/2:21:0,14,7:0:0:14,7:496,252:-61.3237,-20.9217,-16.7073,-40.7598,0,-38.6526 1/2:33:0,21,12:0:0:21,12:739,430:-95.5827,-35.4277,-29.1061,-60.5107,0,-56.8984 1/2:46:0,33,13:0:0:33,13:1169,462:-133.23,-38.0034,-28.0694,-95.5813,0,-91.6679 1/1:99:0,98,1:0:0:98,1:3501,36:-314.939,-29.5009,0,-312.002,-26.2037,-311.701 1/1:24:1,22,0:1:31:22,0:792,0:-68.4251,-4.15912,0,-68.7261,-6.62266,-71.2125 chr05 1097375 . CGGACTGA TGGGCTGG,CGGGCTGG 35031.5 PASS AB=0.539078,0.456914;ABP=16.248,19.1027;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1220,542;CIGAR=1X2M1X3M1X,3M1X3M1X;DP=1776;DPB=1776;DPRA=0.994706,1.10305;EPP=2652.21,1179.95;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.15,2.23077;MQM=40.3115,54.9557;MQMR=0;NS=21;NUMALT=2;ODDS=5.52268;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42914,19072;QR=0;RO=0;RPL=0,0;RPP=2652.21,1179.95;RPPR=0;RPR=1220,542;RUN=1,1;SAF=1220,542;SAP=2652.21,1179.95;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,56,1:0:0:56,1:1989,36:-172.854,-16.8577,0,-169.919,-13.563,-169.618 1/1:68:0,66,0:0:0:66,0:2329,0:-196.542,-19.868,0,-196.542,-19.868,-196.542 1/2:96:0,60,35:0:0:60,35:2118,1226:-263.589,-99.6489,-81.5871,-163.935,0,-153.399 1/1:165:0,165,0:0:0:165,0:5854,0:-511.54,-49.67,0,-511.54,-49.67,-511.54 1/2:100:0,57,43:0:0:57,43:2000,1517:-279.692,-123.57,-106.411,-156.468,0,-143.523 1/2:107:0,67,40:0:0:67,40:2342,1413:-292.585,-115.052,-94.8831,-177.876,0,-165.834 1/1:152:0,151,0:0:0:151,0:5318,0:-450.104,-45.4555,0,-450.104,-45.4555,-450.104 2/2:85:0,0,85:0:0:0,85:0,2984:-267.092,-267.092,-267.092,-25.5876,-25.5876,0 1/2:190:0,89,100:0:0:89,100:3068,3528:-532.1,-287.169,-260.377,-245.007,0,-214.904 1/2:5:0,3,2:0:0:3,2:108,66:-14.0569,-5.62217,-4.71908,-8.76948,0,-8.16742 1/1:6:0,6,0:0:0:6,0:205,0:-17.9417,-1.80618,0,-17.9417,-1.80618,-17.9417 1/1:23:0,22,0:0:0:22,0:778,0:-67.2209,-6.62266,0,-67.2209,-6.62266,-67.2209 1/1:112:0,109,0:0:0:109,0:3836,0:-333.366,-32.8123,0,-333.366,-32.8123,-333.366 1/2:144:0,65,79:0:0:65,79:2276,2752:-400.083,-223.075,-203.509,-177.349,0,-153.567 1/2:129:0,76,52:0:0:76,52:2688,1836:-360.426,-148.472,-125.594,-212.01,0,-196.357 1/2:73:0,29,44:0:0:29,44:1033,1546:-207.503,-126.116,-117.386,-81.7345,0,-68.4892 1/2:60:0,41,19:0:0:41,19:1438,673:-169.113,-54.9703,-42.6281,-114.493,0,-108.773 1/2:52:0,21,31:0:0:21,31:739,1105:-147.129,-90.2944,-83.9728,-57.178,0,-47.8461 1/2:42:0,30,11:0:0:30,11:1045,390:-114.007,-31.7524,-22.7215,-82.2545,0,-78.9432 1/1:78:0,75,0:0:0:75,0:2629,0:-225.853,-22.5773,0,-225.853,-22.5773,-225.853 1/1:32:0,32,0:0:0:32,0:1121,0:-93.7124,-9.63296,0,-93.7124,-9.63296,-93.7124 chr05 1097403 . G A 8884.85 PASS AB=0.456231;ABP=19.1678;AC=13;AF=0.309524;AN=42;AO=527;CIGAR=1X;DP=1733;DPB=1733;DPRA=1.09369;EPP=1147.38;EPPR=2621.81;GTI=0;LEN=1;MEANALT=1;MQM=54.8843;MQMR=40.291;NS=21;NUMALT=1;ODDS=5.90437;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18723;QR=43162;RO=1206;RPL=527;RPP=1147.38;RPPR=2621.81;RPR=0;RUN=1;SAF=527;SAP=1147.38;SAR=0;SRF=1206;SRP=2621.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1936:1:36:0,-12.961,-164.861 0/0:67:67,0:67:2408:0:0:0,-20.169,-202.009 0/1:93:59,34:59:2108:34:1205:-80.5546,0,-153.644 0/0:163:163,0:163:5844:0:0:0,-49.0679,-509.636 0/1:97:56,41:56:1996:41:1427:-99.2997,0,-143.157 0/1:106:67,39:67:2400:39:1385:-92.4701,0,-170.07 0/0:150:150,0:150:5358:0:0:0,-45.1545,-450.692 1/1:83:0,83:0:0:83:2976:-266.192,-24.9855,0 0/1:185:89,96:89:3184:96:3429:-252.926,0,-225.737 0/1:5:3,2:3:108:2:72:-5.19013,0,-8.16742 0/0:6:6,0:6:216:0:0:0,-1.80618,-18.6931 0/0:22:22,0:22:788:0:0:0,-6.62266,-67.7462 0/0:109:109,0:109:3920:0:0:0,-32.8123,-338.426 0/1:138:60,78:60:2144:78:2762:-206.096,0,-144.513 0/1:128:76,52:76:2698:52:1864:-128.044,0,-197.059 0/1:70:29,41:29:1040:41:1449:-109.512,0,-69.9414 0/1:56:38,18:38:1359:18:618:-38.8761,0,-102.591 0/1:51:21,30:21:747:30:1068:-80.9496,0,-48.7426 0/1:42:30,12:30:1080:12:432:-26.4652,0,-81.6944 0/0:77:77,0:77:2764:0:0:0,-23.1793,-234.666 0/0:30:30,0:30:1064:0:0:0,-9.0309,-88.8889 chr05 1097420 . A T 22473.1 PASS AB=0.540456;ABP=16.7149;AC=29;AF=0.690476;AN=42;AO=1187;CIGAR=1X;DP=1715;DPB=1715;DPRA=0.983133;EPP=2580.55;EPPR=1149.55;GTI=0;LEN=1;MEANALT=1;MQM=40.3454;MQMR=55.1193;NS=21;NUMALT=1;ODDS=6.52643;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42140;QR=18807;RO=528;RPL=1187;RPP=2580.55;RPPR=1149.55;RPR=0;RUN=1;SAF=1187;SAP=2580.55;SAR=0;SRF=528;SRP=1149.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:1,56:1:36:56:1968:-167.958,-13.563,0 1/1:65:0,65:0:0:65:2303:-193.591,-19.567,0 0/1:95:35,60:35:1236:60:2096:-151.68,0,-82.8167 1/1:161:0,161:0:0:161:5736:-501.039,-48.4658,0 0/1:96:42,54:42:1512:54:1931:-138.452,0,-107.289 0/1:101:39,62:39:1391:62:2192:-154.563,0,-94.5159 1/1:143:0,143:0:0:143:5066:-428.907,-43.0473,0 0/0:83:83,0:83:2968:0:0:0,-24.9855,-265.696 0/1:182:96,86:96:3405:86:3076:-217.297,0,-251.729 0/1:5:2,3:2:72:3:108:-8.16742,0,-5.19013 1/1:6:0,6:0:0:6:207:-18.0324,-1.80618,0 1/1:23:0,23:0:0:23:824:-70.3565,-6.92369,0 1/1:109:1,108:1:36:108:3828:-327.776,-29.2166,0 0/1:133:72,61:72:2555:61:2154:-147.229,0,-189.741 0/1:128:52,76:52:1860:76:2709:-197.879,0,-128.461 0/1:73:44,29:44:1561:29:1031:-68.2752,0,-118.678 0/1:57:18,39:18:644:39:1383:-105.434,0,-40.9225 0/1:52:31,21:31:1103:21:752:-48.8554,0,-83.7902 0/1:42:12,30:12:428:30:1076:-81.3836,0,-26.1042 1/1:73:0,73:0:0:73:2616:-222.91,-21.9752,0 1/1:31:0,31:0:0:31:1084:-90.7002,-9.33193,0 chr05 1124849 . G T 12770.9 PASS AB=0.556373;ABP=14.2722;AC=29;AF=0.690476;AN=42;AO=494;CIGAR=1X;DP=724;DPB=724;DPRA=0;EPP=9.35768;EPPR=13.9243;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.22375;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17508;QR=8024;RO=230;RPL=494;RPP=1075.72;RPPR=502.449;RPR=0;RUN=1;SAF=266;SAP=9.35768;SAR=228;SRF=132;SRP=13.9243;SRR=98;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:25:0,25:0:0:25:892:-80.5997,-7.52575,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:15:4,11:4:140:11:388:-30.7419,0,-8.42913 1/1:20:0,20:0:0:20:707:-63.9546,-6.0206,0 0/1:45:25,20:25:869:20:708:-50.4992,0,-64.9775 0/1:28:15,13:15:536:13:453:-32.6708,0,-40.146 1/1:47:0,47:0:0:47:1665:-150.135,-14.1484,0 0/0:49:48,1:48:1674:1:36:0,-11.1522,-147.347 0/1:41:19,22:19:676:22:767:-57.0072,0,-48.8258 0/1:9:5,4:5:172:4:144:-10.6043,0,-13.1087 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:39:0,39:0:0:39:1385:-124.947,-11.7402,0 0/1:33:17,16:17:599:16:576:-42.241,0,-44.3041 0/1:57:33,24:33:1120:24:864:-60.9239,0,-83.9397 0/1:19:11,8:11:379:8:288:-20.5478,0,-28.721 0/1:8:4,4:4:144:4:140:-10.5363,0,-10.9054 0/1:83:27,56:27:940:56:1965:-152.135,0,-59.9281 0/1:70:21,49:21:739:49:1717:-133.738,0,-45.7603 1/1:33:0,33:0:0:33:1157:-104.434,-9.93399,0 1/1:72:1,71:1:36:71:2548:-225.972,-18.0759,0 chr05 1127416 . C T 6559.71 PASS AB=0.383513;ABP=134.544;AC=13;AF=0.309524;AN=42;AO=455;CIGAR=1X;DP=2432;DPB=2432;DPRA=1.60745;EPP=991.03;EPPR=4287.33;GTI=1;LEN=1;MEANALT=1.28571;MQM=59.978;MQMR=59.9716;NS=21;NUMALT=1;ODDS=13.3686;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16239;QR=70401;RO=1973;RPL=0;RPP=991.03;RPPR=4287.33;RPR=455;RUN=1;SAF=455;SAP=991.03;SAR=0;SRF=1973;SRP=4287.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:57,0:57:2017:0:0:0,-17.1587,-181.801 0/0:48:47,1:47:1672:1:36:0,-10.8512,-147.169 0/1:29:9,20:9:324:20:709:-55.4061,0,-20.776 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.611 0/1:92:35,56:35:1252:56:2012:-153.6,0,-85.2316 0/1:26:12,14:12:428:14:504:-37.8713,0,-31.032 0/0:110:110,0:110:3922:0:0:0,-33.1133,-353.173 1/1:25:0,24:0:0:24:852:-76.6408,-7.22472,0 0/1:80:38,42:38:1355:42:1478:-109.228,0,-98.1673 0/1:342:181,160:181:6434:160:5700:-410.137,0,-476.181 0/0:666:663,2:663:23725:2:72:0,-193.708,-2127.74 0/0:233:233,0:233:8314:0:0:0,-70.14,-748.268 0/0:74:74,0:74:2640:0:0:0,-22.2762,-237.847 0/1:39:24,15:24:856:15:532:-36.4729,0,-65.6209 0/1:39:22,17:22:783:17:612:-43.6733,0,-59.0528 0/1:23:13,10:13:455:10:356:-25.4576,0,-34.3583 0/1:39:18,21:18:648:21:756:-56.6271,0,-46.9117 0/1:365:311,54:311:11088:54:1936:-64.6404,0,-887.932 0/1:42:23,19:23:820:19:684:-49.2471,0,-61.4793 0/0:39:39,0:39:1376:0:0:0,-11.7402,-124.139 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.241 chr05 1201897 . 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G A 6032.54 PASS AB=0.386965;ABP=57.5005;AC=29;AF=0.690476;AN=42;AO=397;CIGAR=1X;DP=731;DPB=731;DPRA=1.12903;EPP=865.085;EPPR=728.282;GTI=1;LEN=1;MEANALT=1;MQM=35.4257;MQMR=46.6886;NS=21;NUMALT=1;ODDS=3.09564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14044;QR=11928;RO=334;RPL=0;RPP=865.085;RPPR=728.282;RPR=397;RUN=1;SAF=397;SAP=865.085;SAR=0;SRF=334;SRP=728.282;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39:0:0:39:1380:-112.784,-11.7402,0 1/1:16:0,16:0:0:16:554:-44.7192,-4.81648,0 0/1:48:24,24:24:860:24:864:-55.2725,0,-62.3872 1/1:21:0,21:0:0:21:722:-59.046,-6.32163,0 0/1:89:64,25:64:2281:25:855:-44.7427,0,-173.54 0/1:33:12,21:12:432:21:756:-53.4687,0,-28.9431 1/1:42:1,41:1:36:41:1472:-116.233,-9.06983,0 0/0:31:31,0:31:1112:0:0:0,-9.33193,-99.289 0/1:15:9,6:9:309:6:212:-13.1015,0,-22.7038 0/1:10:6,4:6:216:4:144:-9.27802,0,-16.6436 1/1:6:0,6:0:0:6:216:-18.2258,-1.80618,0 1/1:16:0,16:0:0:16:572:-47.1333,-4.81648,0 1/1:27:0,27:0:0:27:957:-78.4551,-8.12781,0 0/1:57:39,18:39:1385:18:618:-34.1272,0,-106.899 0/1:96:60,36:60:2137:36:1288:-75.6153,0,-160.152 0/1:21:12,9:12:432:9:324:-18.4272,0,-32.5884 0/1:15:9,6:9:324:6:216:-13.404,0,-23.7187 0/1:69:47,22:47:1684:22:770:-41.1708,0,-128.669 0/1:38:19,19:19:684:19:684:-45.5103,0,-49.6275 1/1:14:0,14:0:0:14:500:-41.0135,-4.21442,0 1/1:28:1,27:1:36:27:940:-74.3443,-4.86203,0 chr05 1308874 . 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AAATT AACAAA,AACAAAG 26700.5 PASS AB=0.55092,0.413497;ABP=21.3652,55.9809;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1050,392;CIGAR=2M1I1M2X,1M2I2M2X;DP=1504;DPB=1876;DPRA=1.31727,1.02918;EPP=2283.06,854.227;EPPR=0;GTI=1;LEN=6,7;MEANALT=2.85,3.08333;MQM=38.3448,33.3469;MQMR=0;NS=21;NUMALT=2;ODDS=0.593833;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37083,13837;QR=0;RO=0;RPL=0,0;RPP=2283.06,854.227;RPPR=0;RPR=1050,392;RUN=1,1;SAF=0,0;SAP=2283.06,854.227;SAR=1050,392;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:0,81,0:0:0:81,0:2871,0:-244.728,-24.3834,0,-244.728,-24.3834,-244.728 1/1:44:0,43,0:0:0:43,0:1505,0:-124.186,-12.9443,0,-124.186,-12.9443,-124.186 1/2:63:0,30,31:0:0:30,31:1056,1109:-157.762,-75.3857,-66.3548,-82.3831,0,-73.0512 1/1:71:0,67,0:0:0:67,0:2344,0:-201.292,-20.169,0,-201.292,-20.169,-201.292 1/2:209:0,130,72:0:0:130,72:4556,2529:-526.501,-172.607,-133.473,-353.874,0,-332.199 1/2:68:0,32,33:0:0:32,33:1141,1161:-165.31,-80.6655,-71.0325,-84.6361,0,-74.7021 1/1:185:0,175,0:0:0:175,0:6195,0:-511.321,-52.6803,0,-511.321,-52.6803,-511.321 2/2:55:0,0,55:0:0:0,55:0,1942:-168.224,-168.224,-168.224,-16.5567,-16.5567,0 1/2:160:0,88,65:0:0:88,65:3098,2297:-401.888,-157.54,-131.049,-244.355,0,-224.788 1/2:8:0,3,5:0:0:3,5:108,173:-22.1175,-13.8724,-12.9693,-8.58219,0,-7.07704 1/1:5:0,5,0:0:0:5,0:179,0:-15.1269,-1.50515,0,-15.1269,-1.50515,-15.1269 1/1:39:0,37,0:0:0:37,0:1314,0:-109.288,-11.1381,0,-109.288,-11.1381,-109.288 1/1:101:0,98,0:0:0:98,0:3482,0:-296.415,-29.5009,0,-296.415,-29.5009,-296.415 1/2:69:0,39,24:0:0:39,24:1391,838:-164.847,-58.1166,-46.3764,-106.719,0,-99.4943 1/2:87:0,39,47:0:0:39,47:1387,1660:-221.36,-114.349,-102.609,-107.052,0,-92.9031 1/2:58:0,35,23:0:0:35,23:1242,827:-152.858,-55.7074,-45.1713,-97.4678,0,-90.5441 1/2:54:0,26,27:0:0:26,27:911,945:-135.715,-65.0478,-57.221,-70.6301,0,-62.5023 1/2:21:0,17,4:0:0:17,4:599,143:-56.636,-11.5092,-6.39173,-45.4675,0,-44.2634 1/2:18:0,10,6:0:0:10,6:352,213:-41.8951,-14.5788,-11.5685,-27.3143,0,-25.5081 1/1:73:0,65,0:0:0:65,0:2291,0:-192.379,-19.567,0,-192.379,-19.567,-192.379 1/1:31:0,30,0:0:0:30,0:1061,0:-87.0918,-9.0309,0,-87.0918,-9.0309,-87.0918 chr05 1431744 . C T 22183.4 PASS AB=0.482625;ABP=7.76406;AC=13;AF=0.309524;AN=42;AO=1040;CIGAR=1X;DP=2963;DPB=2963;DPRA=2.20484;EPP=2192.39;EPPR=3994;GTI=1;LEN=1;MEANALT=1.13333;MQM=49.4538;MQMR=59.3035;NS=21;NUMALT=1;ODDS=1.71414;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37209;QR=68506;RO=1921;RPL=180;RPP=968.48;RPPR=2475.66;RPR=860;RUN=1;SAF=172;SAP=1014.45;SAR=868;SRF=200;SRP=2618.09;SRR=1721;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:195:193,2:193:6881:2:72:0,-51.9113,-611.834 0/0:82:82,0:82:2944:0:0:0,-24.6845,-265.08 0/1:105:49,56:49:1760:56:2000:-147.185,0,-127.031 0/0:104:104,0:104:3709:0:0:0,-31.3071,-333.825 0/1:281:133,148:133:4751:148:5300:-386.996,0,-342.842 0/1:172:72,100:72:2564:100:3576:-267.377,0,-179.188 0/0:194:191,3:191:6777:3:104:0,-48.7677,-600.239 1/1:156:0,156:0:0:156:5588:-498.651,-46.9607,0 0/1:434:234,200:234:8361:200:7129:-508.379,0,-621.608 0/1:18:8,10:8:269:10:360:-27.0199,0,-19.117 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:34:34,0:34:1220:0:0:0,-10.235,-109.837 0/0:168:168,0:168:5961:0:0:0,-50.573,-536.184 0/1:145:69,75:69:2441:75:2680:-195.28,0,-176.084 0/1:178:101,77:101:3620:77:2744:-191.393,0,-271.452 0/1:191:98,93:98:3500:93:3340:-241.842,0,-257.695 0/1:128:68,60:68:2444:60:2160:-155.025,0,-181.607 0/1:49:25,24:25:873:24:864:-62.3766,0,-64.0949 0/1:112:80,32:80:2848:32:1148:-69.1177,0,-222.744 0/0:150:145,4:145:5175:4:144:0,-31.9699,-452.378 0/0:61:61,0:61:2192:0:0:0,-18.3628,-197.471 chr05 1431904 . G A 12494.4 PASS AB=0.519878;ABP=6.37708;AC=13;AF=0.309524;AN=42;AO=685;CIGAR=1X;DP=1887;DPB=1887;DPRA=1.49051;EPP=1490.47;EPPR=2610.95;GTI=0;LEN=1;MEANALT=1;MQM=59.9533;MQMR=59.995;NS=21;NUMALT=1;ODDS=2.27542;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24367;QR=41715;RO=1201;RPL=0;RPP=1490.47;RPPR=2610.95;RPR=685;RUN=1;SAF=0;SAP=1490.47;SAR=685;SRF=0;SRP=2610.95;SRR=1201;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,0:64:2232:0:0:0,-19.2659,-200.928 0/0:106:106,0:106:3726:0:0:0,-31.9092,-335.541 0/1:79:48,31:48:1661:31:1108:-76.245,0,-125.993 0/0:94:94,0:94:3251:0:0:0,-28.2968,-292.814 0/1:163:72,91:72:2482:91:3223:-241.224,0,-174.559 0/1:117:66,51:66:2312:51:1811:-128.046,0,-173.119 0/0:153:152,1:152:5325:1:36:0,-42.4593,-475.79 1/1:173:0,173:0:0:173:6174:-555.759,-52.0782,0 0/1:159:69,90:69:2374:90:3196:-239.997,0,-166.049 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/0:30:30,0:30:1031:0:0:0,-9.0309,-93.0949 0/0:135:135,0:135:4712:0:0:0,-40.639,-424.243 0/1:96:50,46:50:1713:46:1639:-118.886,0,-125.549 0/1:103:47,56:47:1642:56:1993:-148.636,0,-117.06 0/1:73:33,40:33:1127:40:1428:-106.842,0,-79.753 0/1:78:33,45:33:1153:45:1597:-120.538,0,-80.5936 0/1:68:28,40:28:931:40:1414:-107.086,0,-63.6206 0/1:28:18,10:18:636:10:352:-23.5894,0,-49.1392 0/0:106:105,1:105:3662:1:36:0,-28.3109,-326.188 0/0:33:33,0:33:1105:0:0:0,-9.93399,-99.7479 chr05 1431911 . G A 12406.1 PASS AB=0.507952;ABP=3.56288;AC=13;AF=0.309524;AN=42;AO=683;CIGAR=1X;DP=1944;DPB=1944;DPRA=1.43625;EPP=1486.13;EPPR=2741.24;GTI=0;LEN=1;MEANALT=1;MQM=59.9824;MQMR=60;NS=21;NUMALT=1;ODDS=4.52911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24311;QR=44698;RO=1261;RPL=0;RPP=1486.13;RPPR=2741.24;RPR=683;RUN=1;SAF=0;SAP=1486.13;SAR=683;SRF=0;SRP=2741.24;SRR=1261;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:69:69,0:69:2463:0:0:0,-20.7711,-221.924 0/0:112:112,0:112:3957:0:0:0,-33.7154,-356.322 0/1:83:51,32:51:1800:32:1148:-78.6397,0,-137.294 0/0:96:96,0:96:3415:0:0:0,-28.8989,-307.565 0/1:166:78,88:78:2792:88:3130:-231.955,0,-201.549 0/1:119:67,52:67:2365:52:1844:-130.416,0,-177.285 0/0:160:159,1:159:5661:1:36:0,-44.5665,-506.011 1/1:170:0,170:0:0:170:6055:-545.055,-51.1751,0 0/1:160:69,91:69:2445:91:3239:-243.566,0,-172.139 0/1:17:7,10:7:252:10:352:-26.9001,0,-17.9114 0/0:11:11,0:11:383:0:0:0,-3.31133,-34.8032 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/0:148:148,0:148:5254:0:0:0,-44.5524,-472.998 0/1:97:53,44:53:1861:44:1567:-112.122,0,-138.565 0/1:107:48,59:48:1687:59:2113:-158.228,0,-119.903 0/1:73:34,39:34:1201:39:1396:-103.964,0,-86.4185 0/1:85:38,47:38:1322:47:1671:-125.089,0,-93.6877 0/1:70:31,39:31:1095:39:1372:-102.704,0,-77.787 0/1:29:19,10:19:667:10:352:-23.2883,0,-51.6248 0/0:106:105,1:105:3739:1:36:0,-28.3109,-333.113 0/0:36:36,0:36:1267:0:0:0,-10.8371,-114.332 chr05 1432029 . A G 17729.8 PASS AB=0.493925;ABP=3.538;AC=13;AF=0.309524;AN=42;AO=1019;CIGAR=1X;DP=2857;DPB=2857;DPRA=1.31375;EPP=2215.74;EPPR=3992.01;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9323;MQMR=59.9978;NS=21;NUMALT=1;ODDS=0.111692;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36101;QR=65351;RO=1837;RPL=0;RPP=2215.74;RPPR=3992.01;RPR=1019;RUN=1;SAF=0;SAP=2215.74;SAR=1019;SRF=0;SRP=3992.01;SRR=1837;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:190:185,5:185:6587:5:176:0,-41.0107,-576.727 0/0:94:93,1:93:3318:1:36:0,-24.6985,-295.239 0/1:162:68,94:68:2431:94:3325:-250.697,0,-170.278 0/0:125:125,0:125:4475:0:0:0,-37.6287,-402.917 0/1:262:97,165:97:3426:165:5817:-444.773,0,-229.684 0/1:174:89,85:89:3151:85:3011:-218.833,0,-231.438 0/0:221:221,0:221:7837:0:0:0,-66.5276,-705.364 1/1:191:0,191:0:0:191:6747:-607.232,-57.4967,0 0/1:289:162,126:162:5732:126:4501:-318.201,0,-428.943 0/1:13:8,5:8:288:5:171:-11.8121,0,-22.354 0/0:10:10,0:10:351:0:0:0,-3.0103,-31.9267 0/0:23:23,0:23:797:0:0:0,-6.92369,-72.0457 0/0:170:170,0:170:6062:0:0:0,-51.1751,-545.685 0/1:170:79,91:79:2840:91:3215:-238.397,0,-204.663 0/1:197:114,83:114:4096:83:2948:-206.251,0,-309.521 0/1:93:47,46:47:1669:46:1629:-118.872,0,-122.5 0/1:89:53,36:53:1900:36:1288:-89.4319,0,-144.486 0/1:104:56,48:56:1996:48:1702:-122.157,0,-148.607 0/1:93:59,34:59:2083:34:1211:-81.2997,0,-159.744 0/0:94:86,8:86:3066:8:288:0,-2.02941,-249.901 0/0:93:92,1:92:3246:1:36:0,-24.4748,-288.84 chr05 1455572 . C T 17597.8 PASS AB=0.563852;ABP=53.7573;AC=13;AF=0.309524;AN=42;AO=953;CIGAR=1X;DP=3028;DPB=3028;DPRA=0.816886;EPP=2072.42;EPPR=4504.47;GTI=0;LEN=1;MEANALT=1;MQM=59.999;MQMR=59.9995;NS=21;NUMALT=1;ODDS=6.58557;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34187;QR=74105;RO=2073;RPL=0;RPP=2072.42;RPPR=4504.47;RPR=953;RUN=1;SAF=953;SAP=2072.42;SAR=0;SRF=2073;SRP=4504.47;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:151:149,2:149:5311:2:72:0,-38.6188,-471.289 0/0:144:143,0:143:5124:0:0:0,-43.0473,-460.942 0/1:122:57,65:57:2040:65:2329:-173.144,0,-147.146 0/0:220:220,0:220:7868:0:0:0,-66.2266,-708.148 0/1:235:103,132:103:3687:132:4752:-357.093,0,-261.29 0/1:148:66,82:66:2368:82:2948:-221.001,0,-168.826 0/0:178:177,0:177:6336:0:0:0,-53.2823,-569.972 1/1:143:0,143:0:0:143:5121:-461.03,-43.0473,0 0/1:172:75,97:75:2653:97:3484:-261.993,0,-187.236 0/1:16:3,13:3:108:13:468:-37.6432,0,-5.25869 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:540:540,0:540:19308:0:0:0,-162.556,-1737.27 0/1:160:64,96:64:2280:96:3444:-262.008,0,-157.298 0/1:221:94,127:94:3364:127:4545:-342.687,0,-236.449 0/1:69:34,35:34:1216:35:1248:-91.8532,0,-88.9755 0/1:154:51,103:51:1824:103:3692:-286.123,0,-118.082 0/1:72:37,35:37:1314:35:1256:-91.6711,0,-96.8861 0/1:64:41,23:41:1460:23:828:-55.5782,0,-112.43 0/0:117:117,0:117:4188:0:0:0,-35.2205,-377.102 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.403 chr05 1482563 . C T 14525.1 PASS AB=0.421306;ABP=103.489;AC=13;AF=0.309524;AN=42;AO=890;CIGAR=1X;DP=3151;DPB=3151;DPRA=1.32985;EPP=1935.62;EPPR=4908.37;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.8416;MQMR=59.9119;NS=21;NUMALT=1;ODDS=9.44016;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31677;QR=80506;RO=2259;RPL=890;RPP=1935.62;RPPR=4908.37;RPR=0;RUN=1;SAF=0;SAP=1935.62;SAR=890;SRF=0;SRP=4908.37;SRR=2259;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:164:162,1:162:5739:1:36:0,-45.8045,-513.053 0/0:137:137,0:137:4876:0:0:0,-41.2411,-438.996 0/1:141:84,57:84:2993:57:2032:-140.705,0,-227.156 0/0:244:244,0:244:8698:0:0:0,-73.4513,-782.795 0/1:342:187,154:187:6631:154:5486:-390.933,0,-493.908 0/1:101:52,49:52:1860:49:1751:-127.469,0,-137.276 0/0:232:232,0:232:8273:0:0:0,-69.839,-744.583 1/1:99:0,99:0:0:99:3517:-316.717,-29.802,0 0/1:332:170,162:170:6047:162:5773:-419.744,0,-444.391 0/1:14:9,5:9:320:5:180:-12.3376,0,-24.9279 0/0:13:13,0:13:449:0:0:0,-3.91339,-40.7375 0/0:42:42,0:42:1508:0:0:0,-12.6433,-135.924 0/0:121:121,0:121:4324:0:0:0,-36.4246,-389.323 0/1:132:90,42:90:3224:42:1478:-93.5608,0,-250.638 0/1:201:137,64:137:4904:64:2292:-146.024,0,-381.005 0/1:123:67,56:67:2400:56:1961:-139.737,0,-179.23 0/1:151:112,39:112:4004:39:1400:-80.8437,0,-315.094 0/1:204:85,119:85:3040:119:4262:-321.706,0,-212.386 0/1:127:87,40:87:3116:40:1405:-88.5111,0,-242.407 0/0:159:156,3:156:5520:3:104:0,-38.161,-487.191 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.449 chr05 1482565 . G A 42991.3 PASS AB=0.566703;ABP=74.2732;AC=29;AF=0.690476;AN=42;AO=2189;CIGAR=1X;DP=3094;DPB=3094;DPRA=1.45194;EPP=4756.36;EPPR=1968.19;GTI=0;LEN=1;MEANALT=1;MQM=59.8926;MQMR=59.853;NS=21;NUMALT=1;ODDS=12.9176;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76217;QR=32377;RO=905;RPL=2189;RPP=4756.36;RPPR=1968.19;RPR=0;RUN=1;SAF=0;SAP=4756.36;SAR=2189;SRF=0;SRP=1968.19;SRR=905;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:164:1,163:1:36:163:5687:-507.94,-45.7706,0 1/1:129:0,129:0:0:129:4513:-406.348,-38.8329,0 0/1:138:59,79:59:2105:79:2721:-203.596,0,-148.173 1/1:238:0,238:0:0:238:8275:-744.786,-71.6451,0 0/1:330:154,176:154:5516:176:6117:-451.264,0,-397.221 0/1:100:49,51:49:1743:51:1796:-131.819,0,-127.051 1/1:229:0,229:0:0:229:7969:-717.264,-68.9359,0 0/0:103:103,0:103:3665:0:0:0,-31.0061,-329.947 0/1:334:164,170:164:5868:170:5877:-428.466,0,-427.687 0/1:14:5,9:5:180:9:320:-24.9279,0,-12.3376 1/1:12:0,12:0:0:12:413:-37.4978,-3.61236,0 1/1:40:0,40:0:0:40:1376:-124.047,-12.0412,0 1/1:113:0,113:0:0:113:3945:-355.237,-34.0164,0 0/1:130:41,89:41:1468:89:3105:-240.54,0,-93.2767 0/1:198:66,132:66:2356:132:4570:-351.876,0,-152.691 0/1:124:59,65:59:2112:65:2241:-164.627,0,-153.021 0/1:151:40,111:40:1428:111:3888:-304.667,0,-83.362 0/1:201:120,81:120:4316:81:2845:-195.76,0,-326.987 0/1:124:42,82:42:1512:82:2854:-219.743,0,-99.0469 1/1:151:2,149:2:72:149:5200:-461.302,-38.6188,0 1/1:71:0,71:0:0:71:2505:-225.702,-21.3731,0 chr05 1485854 . A C 11305 PASS AB=0.435414;ABP=52.9384;AC=13;AF=0.309524;AN=42;AO=691;CIGAR=1X;DP=2687;DPB=2687;DPRA=1.44785;EPP=1503.5;EPPR=4332.93;GTI=0;LEN=1;MEANALT=1.125;MQM=51.233;MQMR=59.9007;NS=21;NUMALT=1;ODDS=12.6711;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24662;QR=71178;RO=1994;RPL=0;RPP=1503.5;RPPR=4332.93;RPR=691;RUN=1;SAF=691;SAP=1503.5;SAR=0;SRF=1994;SRP=4332.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:218:217,1:217:7753:1:36:0,-62.0353,-694.211 0/0:107:106,1:106:3785:1:36:0,-28.6237,-337.261 0/1:119:60,59:60:2107:59:2116:-154.233,0,-153.914 0/0:229:227,2:227:8148:2:72:0,-62.4994,-726.894 0/1:270:167,103:167:5951:103:3665:-246.94,0,-454.417 0/1:111:47,64:47:1680:64:2300:-172.958,0,-118.073 0/0:220:220,0:220:7866:0:0:0,-66.2266,-707.964 1/1:87:0,86:0:0:86:3074:-275.614,-25.8886,0 0/1:180:89,91:89:3136:91:3253:-237.763,0,-228.276 0/1:18:6,12:6:216:12:432:-33.7041,0,-14.372 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7901 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/0:186:186,0:186:6661:0:0:0,-55.9916,-599.251 0/1:134:81,53:81:2863:53:1889:-128.634,0,-217.321 0/1:215:144,71:144:5168:71:2556:-164.201,0,-400.537 0/1:117:54,63:54:1944:63:2213:-163.454,0,-140.015 0/1:113:62,51:62:2216:51:1820:-129.305,0,-165.688 0/1:49:28,21:28:984:21:740:-51.8382,0,-74.1165 0/1:52:40,12:40:1425:12:424:-22.5431,0,-112.892 0/0:191:189,1:189:6734:1:36:0,-53.9658,-602.545 0/0:44:44,0:44:1569:0:0:0,-13.2453,-141.463 chr05 1485863 . CAAA TAAC,CAAC 70861.7 PASS AB=0.56259,0.433094;ABP=50.3078,57.0565;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2012,699;CIGAR=1X2M1X,3M1X;DP=2725;DPB=2725;DPRA=1.51609,1.93819;EPP=288.147,905.526;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.45,2.41176;MQM=59.9155,51.3262;MQMR=48;NS=21;NUMALT=2;ODDS=11.4991;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71200,25022;QR=29;RO=1;RPL=1263,619;RPP=288.147,905.526;RPPR=5.18177;RPR=749,80;RUN=1,1;SAF=2012,699;SAP=4372.01,1520.87;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:222:0,220,1:0:0:220,1:7798,36:-701.497,-66.2266,0,-698.568,-63.2978,-698.267 1/1:113:0,112,1:0:0:112,1:3967,36:-356.863,-33.7154,0,-353.936,-30.4299,-353.635 1/2:119:0,60,59:0:0:60,59:2133,2120:-346.462,-172.65,-154.588,-174.169,0,-156.408 1/1:234:0,231,2:0:0:231,2:8203,72:-737.968,-69.5379,0,-732.472,-64.0098,-731.87 1/2:269:1,166,101:1:29:166,101:5854,3628:-768.096,-291.744,-244.077,-474.413,0,-446.313 1/2:112:0,48,64:0:0:48,64:1694,2292:-324.341,-186.398,-171.949,-138.297,0,-119.031 1/1:222:0,219,0:0:0:219,0:7755,0:-697.627,-65.9256,0,-697.627,-65.9256,-697.627 2/2:87:0,0,87:0:0:0,87:0,3116:-279.447,-279.447,-279.447,-26.1896,-26.1896,0 1/2:183:0,89,93:0:0:89,93:3160,3332:-528.108,-270.634,-243.842,-257.47,0,-229.475 1/2:18:0,6,12:0:0:6,12:209,432:-52.5026,-35.5102,-33.7041,-17.3442,0,-13.7318 1/1:6:0,6,0:0:0:6,0:208,0:-19.0581,-1.80618,0,-19.0581,-1.80618,-19.0581 1/1:22:0,22,0:0:0:22,0:791,0:-71.5155,-6.62266,0,-71.5155,-6.62266,-71.5155 1/1:189:0,184,4:0:0:184,4:6511,144:-585.705,-55.3895,0,-573.955,-43.6159,-572.751 1/2:136:0,83,52:0:0:83,52:2880,1854:-383.937,-150.029,-125.043,-233.921,0,-218.267 1/2:216:0,143,72:0:0:143,72:5072,2588:-623.192,-209.967,-166.92,-413.222,0,-391.548 1/2:118:0,55,63:0:0:55,63:1939,2228:-338.762,-180.887,-164.331,-158.227,0,-139.262 1/2:114:0,63,51:0:0:63,51:2220,1828:-329.422,-148.678,-129.713,-181.098,0,-165.745 1/2:53:0,29,24:0:0:29,24:1031,848:-153.084,-69.0701,-60.3403,-84.3671,0,-77.1424 1/2:52:0,40,11:0:0:40,11:1387,396:-144.939,-32.2127,-20.1715,-112.742,0,-109.43 1/1:195:0,193,2:0:0:193,2:6859,72:-617.026,-58.0988,0,-611.159,-51.8727,-610.557 1/1:45:0,43,0:0:0:43,0:1529,0:-137.541,-12.9443,0,-137.541,-12.9443,-137.541 chr05 1485874 . TCT TT 10305 PASS AB=0.421208;ABP=76.2391;AC=13;AF=0.309524;AN=42;AO=658;CIGAR=1M1D1M;DP=2682;DPB=2462.67;DPRA=1.10463;EPP=1431.84;EPPR=4372.03;GTI=0;LEN=1;MEANALT=1.2;MQM=51.3602;MQMR=59.9059;NS=21;NUMALT=1;ODDS=5.83487;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23122;QR=70963;RO=2020;RPL=658;RPP=1431.84;RPPR=4372.03;RPR=0;RUN=1;SAF=658;SAP=1431.84;SAR=0;SRF=2020;SRP=4389.38;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:221:220,1:220:7772:1:32:0,-63.3319,-696.324 0/0:113:112,1:112:3954:1:36:0,-30.4299,-352.462 0/1:115:60,55:60:2117:55:1941:-139.753,0,-156.167 0/0:229:228,0:228:7999:0:0:0,-68.6348,-719.584 0/1:265:167,97:167:5858:97:3401:-224.829,0,-447.507 0/1:109:48,61:48:1689:61:2171:-162.013,0,-119.483 0/0:221:221,0:221:7761:0:0:0,-66.5276,-698.532 1/1:83:0,83:0:0:83:2882:-258.666,-24.9855,0 0/1:179:89,89:89:3133:89:3111:-225.363,0,-228.25 0/1:18:6,12:6:205:12:432:-33.7041,0,-13.3658 0/0:6:6,0:6:211:0:0:0,-1.80618,-19.3333 0/0:22:22,0:22:773:0:0:0,-6.62266,-69.8898 0/0:190:190,0:190:6670:0:0:0,-57.1957,-600.338 0/1:133:82,50:82:2776:50:1775:-118.641,0,-210.047 0/1:211:144,67:144:5076:67:2332:-145.782,0,-393.471 0/1:113:55,58:55:1908:58:2055:-150.586,0,-137.976 0/1:113:63,50:63:2227:50:1767:-124.561,0,-166.677 0/1:51:29,22:29:1002:22:759:-53.0923,0,-75.1319 0/1:51:40,11:40:1427:11:392:-19.9709,0,-113.375 0/0:194:193,1:193:6827:1:36:0,-54.8106,-610.917 0/0:45:45,0:45:1578:0:0:0,-13.5463,-142.284 chr05 1501894 . A G 25329 PASS AB=0.462247;ABP=36.6221;AC=13;AF=0.309524;AN=42;AO=1481;CIGAR=1X;DP=4771;DPB=4771;DPRA=1.51799;EPP=3218.96;EPPR=7147.15;GTI=0;LEN=1;MEANALT=1;MQM=59.9001;MQMR=60;NS=21;NUMALT=1;ODDS=16.53;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52639;QR=116855;RO=3290;RPL=0;RPP=3218.96;RPPR=7147.15;RPR=1481;RUN=1;SAF=1481;SAP=3218.96;SAR=0;SRF=3290;SRP=7147.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:317:316,1:316:11241:1:36:0,-91.8282,-1007.98 0/0:210:210,0:210:7420:0:0:0,-63.2163,-667.844 0/1:191:106,85:106:3793:85:3033:-215.702,0,-284.07 0/0:285:284,1:284:10091:1:36:0,-82.1953,-904.523 0/1:535:267,268:267:9505:268:9543:-697.773,0,-694.355 0/1:287:150,137:150:5361:137:4846:-349.879,0,-396.226 0/0:332:332,0:332:11852:0:0:0,-99.942,-1066.54 1/1:216:1,215:1:36:215:7640:-683.886,-61.4242,0 0/1:427:232,195:232:8187:195:6927:-494.957,0,-608.307 0/1:24:15,9:15:521:9:320:-21.9161,0,-39.9916 0/0:10:10,0:10:345:0:0:0,-3.0103,-31.3808 0/0:79:79,0:79:2836:0:0:0,-23.7814,-255.478 0/0:294:294,0:294:10496:0:0:0,-88.5028,-944.553 0/1:315:196,119:196:6668:119:4224:-285.513,0,-505.382 0/1:359:200,159:200:7161:159:5685:-403.698,0,-536.475 0/1:184:89,95:89:3162:95:3364:-247.558,0,-229.413 0/1:175:97,78:97:3465:78:2737:-193.888,0,-259.381 0/1:110:39,71:39:1404:71:2545:-195.744,0,-93.546 0/1:108:69,39:69:2457:39:1383:-92.254,0,-188.872 0/0:243:234,9:234:8354:9:320:0,-44.0079,-722.724 0/0:70:70,0:70:2500:0:0:0,-21.0721,-225.253 chr05 1501912 . C T 30031 PASS AB=0.461111;ABP=38.4777;AC=13;AF=0.309524;AN=42;AO=1471;CIGAR=1X;DP=4748;DPB=4748;DPRA=1.22457;EPP=1871.31;EPPR=7038.8;GTI=0;LEN=1;MEANALT=1;MQM=59.8865;MQMR=60;NS=21;NUMALT=1;ODDS=16.6316;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52560;QR=117153;RO=3276;RPL=173;RPP=1871.31;RPPR=7038.8;RPR=1298;RUN=1;SAF=1471;SAP=3197.25;SAR=0;SRF=3276;SRP=7116.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:313:313,0:313:11170:0:0:0,-94.2224,-1005.19 0/0:209:209,0:209:7484:0:0:0,-62.9153,-673.603 0/1:193:106,87:106:3791:87:3101:-221.219,0,-283.289 0/0:288:288,0:288:10313:0:0:0,-86.6966,-928.092 0/1:532:266,266:266:9488:266:9508:-695.519,0,-693.733 0/1:285:150,135:150:5380:135:4800:-346.359,0,-398.537 0/0:329:329,0:329:11779:0:0:0,-99.0389,-1059.97 1/1:218:1,217:1:32:217:7739:-693.324,-62.4252,0 0/1:425:230,195:230:8228:195:6969:-499.335,0,-612.592 0/1:23:15,8:15:536:8:284:-18.9781,0,-41.6511 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:79:79,0:79:2840:0:0:0,-23.7814,-255.838 0/0:291:290,0:290:10362:0:0:0,-87.2987,-932.141 0/1:318:198,120:198:7020:120:4294:-290.906,0,-536.142 0/1:355:199,156:199:7119:156:5591:-396.436,0,-533.903 0/1:181:87,94:87:3124:94:3380:-249.9,0,-226.899 0/1:172:95,77:95:3383:77:2737:-194.795,0,-252.909 0/1:108:39,69:39:1400:69:2469:-189.71,0,-93.7879 0/1:108:70,38:70:2516:38:1364:-90.5449,0,-194.18 0/0:242:233,9:233:8353:9:324:0,-43.3434,-722.267 0/0:69:69,0:69:2475:0:0:0,-20.7711,-223.003 chr05 1503829 . A C 8902.22 PASS AB=0.441478;ABP=31.9841;AC=13;AF=0.309524;AN=42;AO=555;CIGAR=1X;DP=1670;DPB=1670;DPRA=1.68586;EPP=1208.18;EPPR=2419.86;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9495;MQMR=59.9964;NS=21;NUMALT=1;ODDS=5.42979;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19017;QR=39903;RO=1113;RPL=555;RPP=1208.18;RPPR=2419.86;RPR=0;RUN=1;SAF=555;SAP=1208.18;SAR=0;SRF=1113;SRP=2419.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:81:79,2:79:2809:2:72:0,-17.5467,-246.212 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/1:120:63,57:63:2249:57:1953:-139.726,0,-166.548 0/0:87:86,0:86:3092:0:0:0,-25.8886,-278.186 0/1:82:47,35:47:1688:35:1152:-79.2845,0,-127.522 0/1:111:55,56:55:1976:56:1889:-136.862,0,-144.7 0/0:107:107,0:107:3827:0:0:0,-32.2102,-344.626 1/1:122:0,122:0:0:122:4197:-377.917,-36.7257,0 0/1:159:90,69:90:3228:69:2455:-173.341,0,-242.878 0/1:14:8,6:8:288:6:193:-13.4712,0,-22.053 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 0/1:100:60,40:60:2147:40:1398:-96.0126,0,-163.394 0/1:193:113,80:113:4051:80:2734:-188.202,0,-306.677 0/1:30:16,14:16:576:14:467:-33.3165,0,-43.1441 0/1:38:24,14:24:864:14:500:-33.897,0,-66.6434 0/1:65:35,30:35:1252:30:1018:-72.3559,0,-93.4181 0/1:62:32,29:32:1152:29:962:-68.1573,0,-85.2675 0/0:111:110,1:110:3956:1:27:0,-30.7145,-353.53 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.801 chr05 1520190 . G A 11277.2 PASS AB=0.329126;ABP=545.483;AC=21;AF=0.5;AN=42;AO=704;CIGAR=1X;DP=2139;DPB=2139;DPRA=0;EPP=956.533;EPPR=2655.34;GTI=2;LEN=1;MEANALT=1.09524;MQM=59.642;MQMR=59.9972;NS=21;NUMALT=1;ODDS=17.5569;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25164;QR=51180;RO=1433;RPL=74;RPP=956.533;RPPR=2655.34;RPR=630;RUN=1;SAF=0;SAP=1531.73;SAR=704;SRF=0;SRP=3114.73;SRR=1433;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:55,39:55:1980:39:1396:-97.6132,0,-150.178 0/1:60:29,31:29:1028:31:1104:-81.5959,0,-74.7712 0/1:75:55,20:55:1952:20:720:-42.5515,0,-153.376 0/1:123:90,33:90:3215:33:1184:-69.8416,0,-252.546 0/1:108:78,30:78:2796:30:1080:-64.3266,0,-219.369 0/1:69:50,19:50:1796:19:680:-40.7572,0,-141.151 0/1:131:69,61:69:2475:61:2176:-156.597,0,-183.509 0/1:121:97,24:97:3480:24:848:-40.215,0,-276.986 0/1:185:121,64:121:4336:64:2277:-149.499,0,-334.724 0/1:18:14,4:14:504:4:144:-7.89508,0,-40.2796 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:70:54,16:54:1936:16:567:-30.2886,0,-153.444 0/1:181:103,77:103:3664:77:2763:-194.514,0,-275.566 0/1:91:67,24:67:2400:24:864:-50.6888,0,-188.863 0/1:123:83,40:83:2952:40:1432:-92.1476,0,-228.886 0/1:49:34,15:34:1212:15:531:-33.3669,0,-94.6359 0/1:103:76,27:76:2724:27:972:-56.7215,0,-214.396 0/1:110:85,25:85:2993:25:900:-48.2044,0,-236.487 0/1:130:85,45:85:3033:45:1593:-104.524,0,-234.065 0/1:211:130,81:130:4633:81:2904:-198.078,0,-353.613 0/1:80:53,27:53:1891:27:957:-62.3623,0,-146.385 chr05 1564471 . A C 13763.6 PASS AB=0.500731;ABP=3.01665;AC=29;AF=0.690476;AN=42;AO=1485;CIGAR=1X;DP=2256;DPB=2256;DPRA=1.29286;EPP=3227.65;EPPR=1677.22;GTI=0;LEN=1;MEANALT=1;MQM=23.9125;MQMR=20.668;NS=21;NUMALT=1;ODDS=3.93684;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53162;QR=27686;RO=771;RPL=0;RPP=3227.65;RPPR=1677.22;RPR=1485;RUN=1;SAF=1485;SAP=3227.65;SAR=0;SRF=771;SRP=1677.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:185:2,183:2:72:183:6551:-399.114,-51.9108,0 1/1:80:0,80:0:0:80:2868:-150.649,-24.0824,0 0/1:85:45,40:45:1608:40:1428:-62.9376,0,-55.8082 1/1:71:0,71:0:0:71:2548:-155.923,-21.3731,0 0/1:236:117,119:117:4208:119:4268:-191.766,0,-140.613 0/1:115:63,52:63:2260:52:1845:-63.8875,0,-100.131 1/1:147:0,147:0:0:147:5272:-276.6,-44.2514,0 0/0:84:84,0:84:3001:0:0:0,-25.2865,-160.506 0/1:248:117,131:117:4212:131:4694:-235.153,0,-135.8 0/1:19:10,9:10:360:9:316:-12.9122,0,-13.2684 1/1:8:0,8:0:0:8:288:-15.2321,-2.40824,0 1/1:22:0,22:0:0:22:777:-44.7362,-6.62266,0 1/1:113:0,113:0:0:113:4052:-247.052,-34.0164,0 0/1:105:48,57:48:1728:57:2036:-94.1221,0,-54.9642 0/1:184:110,74:110:3956:74:2652:-107.946,0,-142.002 0/1:88:45,43:45:1620:43:1548:-75.1064,0,-55.5174 0/1:87:53,34:53:1904:34:1220:-54.6488,0,-69.7513 0/1:108:43,65:43:1548:65:2328:-99.3947,0,-49.225 0/1:93:32,61:32:1137:61:2192:-106.421,0,-30.0598 1/1:113:2,111:2:72:111:3983:-223.62,-30.0519,0 1/1:65:0,65:0:0:65:2296:-121.853,-19.567,0 chr05 1564484 . GTA ACA,ACC 17571.7 PASS AB=0.501449,0.496377;ABP=3.03548,3.16765;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1503,774;CIGAR=2X1M,3X;DP=2281;DPB=2281;DPRA=1.29176,1.71887;EPP=3266.73,1683.73;EPPR=0;GTI=0;LEN=2,3;MEANALT=1.85,2.14286;MQM=23.9102,20.6705;MQMR=0;NS=21;NUMALT=2;ODDS=0.170431;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35927,27214;QR=0;RO=0;RPL=0,0;RPP=3266.73,1683.73;RPPR=0;RPR=1503,774;RUN=1,1;SAF=1503,774;SAP=3266.73,1683.73;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:189:0,187,2:0:0:187,2:4634,72:-366.539,-56.2926,0,-363.561,-53.1149,-362.959 1/1:80:0,80,0:0:0:80,0:1683,0:-130.1,-24.0824,0,-130.1,-24.0824,-130.1 1/2:86:0,41,45:0:0:41,45:1015,1578:-135.333,-67.3966,-55.0543,-68.145,0,-54.5986 1/1:71:0,70,0:0:0:70,0:1728,0:-136.6,-21.0721,0,-136.6,-21.0721,-136.6 1/2:240:0,122,117:0:0:122,117:3043,4149:-380.077,-175.895,-139.17,-204.199,0,-168.978 1/2:115:0,52,63:0:0:52,63:1104,2203:-184.786,-115.113,-99.4598,-69.8797,0,-50.9149 1/1:151:0,151,0:0:0:151,0:3176,0:-245.344,-45.4555,0,-245.344,-45.4555,-245.344 2/2:85:0,0,85:0:0:0,85:0,2953:-161.856,-161.856,-161.856,-25.5876,-25.5876,0 1/2:250:0,132,118:0:0:132,118:3531,4128:-418.261,-175.734,-135.998,-242.744,0,-207.223 1/2:19:0,9,10:0:0:9,10:207,347:-29.3872,-15.8997,-13.1904,-13.6912,0,-10.6809 1/1:9:0,9,0:0:0:9,0:189,0:-14.7657,-2.70927,0,-14.7657,-2.70927,-14.7657 1/1:21:0,21,0:0:0:21,0:481,0:-37.8208,-6.32163,0,-37.8208,-6.32163,-37.8208 1/1:116:0,116,0:0:0:116,0:2850,0:-225.53,-34.9195,0,-225.53,-34.9195,-225.53 1/2:106:0,58,48:0:0:58,48:1439,1708:-168.42,-72.0351,-54.5753,-96.5927,0,-82.1432 1/2:184:0,73,110:0:0:73,110:1816,3884:-285.543,-163.801,-141.826,-121.772,0,-88.6588 1/2:90:0,45,45:0:0:45,45:1193,1582:-150.008,-68.2588,-54.7124,-81.9679,0,-68.4216 1/2:87:0,34,53:0:0:34,53:913,1876:-142.558,-79.8055,-69.5705,-62.9758,0,-47.0212 1/2:108:0,65,43:0:0:65,43:1477,1533:-164.521,-68.7078,-49.1408,-96.0189,0,-83.0746 1/2:95:0,61,33:0:0:61,33:1510,1129:-150.339,-49.2737,-30.9109,-101.051,0,-91.1175 1/1:113:0,111,2:0:0:111,2:2552,72:-199.71,-33.4143,0,-196.556,-30.0519,-195.954 1/1:66:0,66,0:0:0:66,0:1386,0:-107.142,-19.868,0,-107.142,-19.868,-107.142 chr05 1564520 . TCAG CCAT,CCGT 20286.3 PASS AB=0.509631,0.482343;ABP=4.01413,6.38427;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1492,677;CIGAR=1X2M1X,1X1M2X;DP=2184;DPB=2184.5;DPRA=1.44589,1.76338;EPP=3242.85,1473.1;EPPR=0;GTI=1;LEN=4,4;MEANALT=2.2,2.76923;MQM=23.9799,20.2245;MQMR=0;NS=21;NUMALT=2;ODDS=0.0119561;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=51770,23286;QR=0;RO=0;RPL=1490,677;RPP=3225.5,1473.1;RPPR=0;RPR=2,0;RUN=1,1;SAF=1490,677;SAP=3225.5,1473.1;SAR=2,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:189:0,185,2:0:0:185,2:6454,72:-405.871,-55.6906,0,-402.893,-52.7208,-402.291 1/1:79:0,78,0:0:0:78,0:2712,0:-145.975,-23.4803,0,-145.975,-23.4803,-145.975 1/2:85:0,40,43:0:0:40,43:1391,1481:-139.796,-63.9586,-51.9174,-75.8644,0,-62.9201 1/1:72:0,72,0:0:0:72,0:2494,0:-157.764,-21.6742,0,-157.764,-21.6742,-157.764 1/2:234:0,120,111:0:0:120,111:4159,3820:-391.081,-164.638,-128.514,-226.366,0,-192.952 1/1:52:0,52,0:0:0:52,0:1779,0:-97.746,-15.6536,0,-97.746,-15.6536,-97.746 1/1:149:0,149,0:0:0:149,0:5178,0:-278.953,-44.8535,0,-278.953,-44.8535,-278.953 2/2:73:0,0,72:0:0:0,72:0,2472:-134.314,-134.314,-134.314,-21.6742,-21.6742,0 1/2:249:0,133,116:0:0:133,116:4645,4008:-444.822,-172.16,-132.123,-272.89,0,-237.971 1/2:19:0,9,10:0:0:9,10:322,337:-31.59,-15.8403,-13.131,-15.9678,0,-12.9575 1/1:9:0,9,0:0:0:9,0:320,0:-17.0951,-2.70927,0,-17.0951,-2.70927,-17.0951 1/1:22:0,22,0:0:0:22,0:781,0:-45.0303,-6.62266,0,-45.0303,-6.62266,-45.0303 1/1:115:0,114,0:0:0:114,0:3972,0:-247.566,-34.3174,0,-247.566,-34.3174,-247.566 1/2:105:0,58,47:0:0:58,47:2015,1609:-179.324,-69.8014,-52.3416,-109.741,0,-95.5923 1/2:184:0,74,110:0:0:74,110:2562,3778:-302.679,-163.313,-141.037,-139.59,0,-106.477 1/2:89:0,45,44:0:0:45,44:1558,1489:-157.25,-66.0289,-52.4825,-91.4495,0,-78.2042 1/2:84:0,33,51:0:0:33,51:1154,1794:-144.193,-76.0989,-66.1649,-68.2743,0,-52.9217 1/2:105:0,63,39:0:0:63,39:2159,1343:-168.823,-61.0617,-42.0968,-107.755,0,-96.0148 1/2:92:0,60,30:0:0:60,30:2047,1012:-156.342,-44.2466,-26.1848,-112.047,0,-103.016 1/1:111:0,109,2:0:0:109,2:3789,71:-221.881,-32.8123,0,-218.731,-29.4531,-218.129 1/1:67:0,67,0:0:0:67,0:2279,0:-126.489,-20.169,0,-126.489,-20.169,-126.489 chr05 1613618 . A G 35343.3 PASS AB=0.537076;ABP=20.2391;AC=28;AF=0.666667;AN=42;AO=1751;CIGAR=1X;DP=2989;DPB=2989;DPRA=0.850301;EPP=3787.91;EPPR=2680.44;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9229;MQMR=59.9725;NS=21;NUMALT=1;ODDS=4.67182;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62509;QR=43273;RO=1237;RPL=2;RPP=3787.91;RPPR=2680.44;RPR=1749;RUN=1;SAF=1751;SAP=3805.26;SAR=0;SRF=1237;SRP=2689.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,112:0:0:112:3982:-358.569,-33.7154,0 1/1:135:0,135:0:0:135:4848:-436.472,-40.6391,0 0/1:100:60,40:60:2103:40:1440:-99.7947,0,-159.432 1/1:120:0,120:0:0:120:4304:-387.478,-36.1236,0 0/1:264:135,129:135:4751:129:4632:-337.513,0,-348.194 0/1:150:73,77:73:2600:77:2746:-202.223,0,-189.095 1/1:178:1,176:1:36:176:6250:-558.894,-50.0439,0 0/0:166:166,0:166:5749:0:0:0,-49.971,-517.533 0/1:205:100,105:100:3479:105:3737:-274.819,0,-251.611 0/0:423:402,21:402:14041:21:756:0,-58.9685,-1195.11 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:61:0,61:0:0:61:2180:-196.462,-18.3628,0 1/1:133:0,133:0:0:133:4739:-426.666,-40.037,0 0/1:141:71,70:71:2441:70:2489:-181.81,0,-177.495 0/1:165:82,83:82:2886:83:2972:-218.04,0,-210.306 0/1:112:36,76:36:1250:76:2732:-212.037,0,-79.0826 0/1:136:44,92:44:1541:92:3274:-253.937,0,-98.0397 0/1:82:38,44:38:1368:44:1580:-117.807,0,-98.6803 0/1:88:29,59:29:1028:59:2105:-163.227,0,-66.3424 1/1:128:0,128:0:0:128:4523:-407.237,-38.5318,0 1/1:68:0,68:0:0:68:2432:-219.136,-20.47,0 chr05 1666119 . T A 10265.3 PASS AB=0.550725;ABP=23.0571;AC=13;AF=0.309524;AN=42;AO=578;CIGAR=1X;DP=1452;DPB=1452;DPRA=1.88816;EPP=1258.12;EPPR=1883.55;GTI=1;LEN=1;MEANALT=1;MQM=59.9723;MQMR=59.9302;NS=21;NUMALT=1;ODDS=1.81482;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20621;QR=31283;RO=874;RPL=0;RPP=1258.12;RPPR=1883.55;RPR=578;RUN=1;SAF=578;SAP=1258.12;SAR=0;SRF=874;SRP=1900.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 0/0:36:36,0:36:1280:0:0:0,-10.8371,-115.307 0/1:95:43,52:43:1540:52:1849:-138.09,0,-110.295 0/0:56:55,1:55:1963:1:21:0,-14.7578,-174.845 0/1:157:68,89:68:2432:89:3178:-238.983,0,-171.874 0/1:84:37,47:37:1323:47:1688:-126.912,0,-94.0848 0/0:115:112,3:112:4008:3:108:0,-24.5433,-350.831 1/1:80:0,80:0:0:80:2854:-257.096,-24.0824,0 0/1:174:78,96:78:2808:96:3427:-256.264,0,-200.58 0/1:17:10,7:10:356:7:252:-17.9114,0,-27.2637 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/0:72:72,0:72:2571:0:0:0,-21.6742,-231.639 0/1:94:47,47:47:1683:47:1680:-123.19,0,-123.459 0/1:146:55,91:55:1980:91:3244:-248.23,0,-134.524 0/1:53:32,21:32:1144:21:752:-52.0508,0,-87.3149 0/1:32:15,17:15:531:17:612:-45.7805,0,-38.4889 0/1:28:9,19:9:324:19:672:-52.378,0,-21.0688 0/1:17:9,8:9:320:8:284:-20.7858,0,-24.0248 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.123 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 chr05 1666137 . T C 17792.8 PASS AB=0.449501;ABP=22.9681;AC=29;AF=0.690476;AN=42;AO=885;CIGAR=1X;DP=1465;DPB=1465;DPRA=0.865625;EPP=1847.39;EPPR=1234.37;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9164;MQMR=59.9793;NS=21;NUMALT=1;ODDS=1.50292;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31607;QR=20717;RO=579;RPL=876;RPP=1847.39;RPPR=1234.37;RPR=9;RUN=1;SAF=885;SAP=1924.76;SAR=0;SRF=579;SRP=1260.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2395:-215.807,-20.169,0 1/1:36:0,36:0:0:36:1270:-114.601,-10.8371,0 0/1:95:51,44:51:1828:44:1571:-113.083,0,-136.203 1/1:57:0,57:0:0:57:2040:-183.87,-17.1587,0 0/1:160:90,70:90:3217:70:2508:-177.807,0,-241.586 0/1:84:48,36:48:1724:36:1283:-90.4861,0,-130.151 1/1:113:3,110:3:108:110:3947:-345.337,-23.9412,0 0/0:80:80,0:80:2876:0:0:0,-24.0824,-259.076 0/1:173:96,77:96:3403:77:2764:-196.923,0,-254.403 0/1:16:6,10:6:216:10:336:-25.7467,0,-14.974 1/1:10:0,10:0:0:10:345:-31.3808,-3.0103,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 1/1:73:1,72:1:36:72:2563:-227.322,-18.3769,0 0/1:95:48,47:48:1720:47:1679:-122.798,0,-126.488 0/1:148:91,56:91:3264:56:2012:-136.742,0,-249.369 0/1:54:22,32:22:777:32:1148:-87.3742,0,-53.9938 0/1:31:16,15:16:576:15:540:-39.6046,0,-42.8431 0/1:28:19,9:19:684:9:320:-20.7053,0,-53.4615 0/1:17:8,9:8:288:9:324:-24.3883,0,-21.1499 1/1:68:0,68:0:0:68:2418:-217.827,-20.47,0 1/1:33:0,33:0:0:33:1172:-105.787,-9.93399,0 chr05 1703643 . A G 11565.5 PASS AB=0.537957;ABP=16.3627;AC=13;AF=0.309524;AN=42;AO=654;CIGAR=1X;DP=1826;DPB=1826;DPRA=1.43432;EPP=1423.15;EPPR=2539.3;GTI=0;LEN=1;MEANALT=1;MQM=59.9312;MQMR=59.9394;NS=21;NUMALT=1;ODDS=0.237598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23348;QR=41864;RO=1172;RPL=0;RPP=1423.15;RPPR=2539.3;RPR=654;RUN=1;SAF=0;SAP=1423.15;SAR=654;SRF=0;SRP=2547.98;SRR=1172;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:88,3:88:3130:3:108:0,-17.3186,-271.84 0/0:73:73,0:73:2616:0:0:0,-21.9752,-235.688 0/1:94:41,53:41:1468:53:1876:-140.82,0,-104.119 0/0:96:96,0:96:3427:0:0:0,-28.8989,-308.621 0/1:180:85,95:85:3019:95:3390:-251.126,0,-217.756 0/1:72:27,45:27:972:45:1603:-122.809,0,-66.1237 0/0:120:119,1:119:4252:1:36:0,-32.5253,-379.262 1/1:76:0,76:0:0:76:2693:-242.614,-22.8783,0 0/1:196:91,105:91:3243:105:3753:-278.968,0,-233.084 0/1:16:8,8:8:284:8:279:-20.6311,0,-21.0777 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/0:113:113,0:113:4027:0:0:0,-34.0164,-362.462 0/1:121:53,68:53:1895:68:2436:-183.053,0,-134.403 0/1:115:55,60:55:1976:60:2147:-158.878,0,-143.496 0/1:60:31,29:31:1104:29:1044:-76.213,0,-81.6088 0/1:64:28,36:28:1000:36:1288:-96.9577,0,-71.0495 0/1:99:46,53:46:1656:53:1904:-141.836,0,-119.526 0/1:50:28,22:28:1004:22:791:-56.464,0,-75.6244 0/0:98:98,0:98:3508:0:0:0,-29.5009,-315.929 0/0:57:57,0:57:2027:0:0:0,-17.1587,-182.699 chr05 1711870 . G A 10895.5 PASS AB=0.465696;ABP=12.8429;AC=13;AF=0.309524;AN=42;AO=604;CIGAR=1X;DP=1952;DPB=1952;DPRA=1.0075;EPP=1314.58;EPPR=2848.16;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9834;MQMR=60;NS=21;NUMALT=1;ODDS=9.02422;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21632;QR=48258;RO=1346;RPL=604;RPP=1314.58;RPPR=2848.16;RPR=0;RUN=1;SAF=0;SAP=1314.58;SAR=604;SRF=0;SRP=2925.81;SRR=1346;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:158:158,0:158:5664:0:0:0,-47.5627,-509.879 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/1:128:72,56:72:2571:56:2012:-142.821,0,-193.107 0/0:63:63,0:63:2253:0:0:0,-18.9649,-203.031 0/1:152:86,66:86:3073:66:2372:-167.979,0,-231.04 0/1:74:37,37:37:1332:37:1317:-96.5536,0,-97.9062 0/0:118:118,0:118:4235:0:0:0,-35.5215,-381.328 1/1:157:1,156:1:36:156:5599:-500.43,-43.6634,0 0/1:186:91,94:91:3268:94:3365:-247.162,0,-238.437 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:35:35,0:35:1241:0:0:0,-10.536,-111.993 0/0:235:234,0:234:8386:0:0:0,-70.441,-754.382 0/1:141:69,72:69:2480:72:2573:-189.374,0,-181.008 0/1:96:52,44:52:1868:44:1565:-112.241,0,-139.5 0/1:18:10,8:10:360:8:288:-20.8489,0,-27.3258 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:76:43,33:43:1548:33:1173:-82.9973,0,-116.735 0/1:69:39,30:39:1404:30:1080:-76.7422,0,-105.888 0/0:146:146,0:146:5227:0:0:0,-43.9504,-470.567 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 chr05 1711882 . G A 10843.4 PASS AB=0.470776;ABP=9.99086;AC=13;AF=0.309524;AN=42;AO=599;CIGAR=1X;DP=1925;DPB=1925;DPRA=1.1527;EPP=1303.72;EPPR=2865.02;GTI=0;LEN=1;MEANALT=1.30769;MQM=59.99;MQMR=60;NS=21;NUMALT=1;ODDS=8.66176;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21455;QR=47007;RO=1322;RPL=599;RPP=1303.72;RPPR=2865.02;RPR=0;RUN=1;SAF=0;SAP=1303.72;SAR=599;SRF=0;SRP=2873.7;SRR=1322;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:158:157,1:157:5576:1:36:0,-43.9645,-498.368 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/1:127:70,57:70:2488:57:2039:-145.551,0,-185.943 0/0:66:66,0:66:2360:0:0:0,-19.868,-212.659 0/1:149:83,66:83:2939:66:2368:-168.525,0,-219.892 0/1:73:35,37:35:1227:37:1324:-97.4282,0,-88.6993 0/0:114:114,0:114:4064:0:0:0,-34.3174,-365.949 1/1:156:0,155:0:0:155:5556:-499.931,-46.6597,0 0/1:181:87,93:87:3108:93:3328:-245.193,0,-225.402 0/1:11:8,3:8:267:3:108:-6.76384,0,-21.044 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:36:36,0:36:1280:0:0:0,-10.8371,-115.503 0/0:235:235,0:235:8354:0:0:0,-70.742,-751.874 0/1:137:66,70:66:2352:70:2508:-184.672,0,-170.639 0/1:94:50,44:50:1792:44:1584:-114.555,0,-133.266 0/1:18:10,8:10:347:8:284:-20.4848,0,-26.1451 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:72:42,30:42:1495:30:1076:-75.4787,0,-113.17 0/1:69:39,30:39:1379:30:1064:-75.3006,0,-103.637 0/0:141:141,0:141:5011:0:0:0,-42.4452,-451.141 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 chr05 1729292 . G A 5727.24 PASS AB=0.555556;ABP=9.76599;AC=28;AF=0.666667;AN=42;AO=287;CIGAR=1X;DP=410;DPB=410;DPRA=1.81364;EPP=617.567;EPPR=270.101;GTI=1;LEN=1;MEANALT=1;MQM=59.9373;MQMR=60;NS=21;NUMALT=1;ODDS=0.441783;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10212;QR=4338;RO=123;RPL=1;RPP=617.567;RPPR=270.101;RPR=286;RUN=1;SAF=0;SAP=626.223;SAR=287;SRF=0;SRP=270.101;SRR=123;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:10:2,8:2:72:8:284:-22.8931,0,-3.82642 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:24:13,11:13:464:11:392:-28.3953,0,-34.8728 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:40:21,19:21:748:19:675:-49.0358,0,-55.6041 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:30:17,13:17:603:13:464:-33.0666,0,-45.5686 0/1:11:9,2:9:305:2:72:-3.52539,0,-24.4659 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:19:0,19:0:0:19:680:-61.5245,-5.71957,0 1/1:34:0,34:0:0:34:1212:-109.386,-10.235,0 0/1:35:17,18:17:578:18:640:-47.3933,0,-41.8014 0/1:30:6,24:6:212:24:856:-68.3302,0,-10.3939 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:30:13,17:13:460:17:604:-45.6597,0,-32.7045 0/1:21:5,16:5:180:16:541:-42.6871,0,-10.2304 1/1:42:0,42:0:0:42:1488:-134.205,-12.6433,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 chr05 1729514 . A C 31719.6 PASS AB=0.504437;ABP=3.2608;AC=29;AF=0.690476;AN=42;AO=1579;CIGAR=1X;DP=2397;DPB=2397;DPRA=1.32759;EPP=3431.77;EPPR=1774.93;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9797;MQMR=59.9988;NS=21;NUMALT=1;ODDS=2.44017;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56312;QR=29253;RO=816;RPL=1579;RPP=3431.77;RPPR=1774.93;RPR=0;RUN=1;SAF=0;SAP=3431.77;SAR=1579;SRF=0;SRP=1774.93;SRR=816;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,74:0:0:74:2631:-236.676,-22.2762,0 1/1:147:0,147:0:0:147:5230:-470.838,-44.2514,0 0/1:163:76,87:76:2736:87:3099:-230.067,0,-197.414 1/1:132:0,132:0:0:132:4721:-425.048,-39.736,0 0/1:218:121,97:121:4340:97:3423:-242.657,0,-325.15 0/1:64:37,27:37:1332:27:968:-68.1714,0,-100.916 1/1:194:0,193:0:0:193:6897:-620.247,-58.0988,0 0/0:87:87,0:87:3124:0:0:0,-26.1896,-281.386 0/1:233:116,117:116:4141:117:4169:-305.253,0,-302.733 0/1:21:8,13:8:288:13:460:-35.4137,0,-19.9458 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:26:0,26:0:0:26:928:-83.8383,-7.82678,0 1/1:86:0,86:0:0:86:3084:-277.788,-25.8886,0 0/1:134:62,72:62:2224:72:2550:-189.41,0,-160.086 0/1:186:103,83:103:3688:83:2980:-212.44,0,-276.131 0/1:90:45,45:45:1612:45:1604:-117.557,0,-118.277 0/1:94:66,28:66:2364:28:1008:-62.7395,0,-184.722 0/1:164:66,98:66:2364:98:3483:-264.307,0,-163.649 0/1:98:26,72:26:932:72:2577:-202.678,0,-54.6979 1/1:110:2,108:2:72:108:3857:-340.488,-26.2766,0 1/1:69:1,68:1:36:68:2431:-215.447,-17.1728,0 chr05 1729542 . ATATG CTATA,ATATA 30616.5 PASS AB=0.473118,0.525538;ABP=7.68013,7.22482;AC=28,14;AF=0.666667,0.333333;AN=42;AO=924,523;CIGAR=1X3M1X,4M1X;DP=1449;DPB=1449;DPRA=1.05906,1.10271;EPP=1974.86,1130.02;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=1.63158,1.84615;MQM=59.987,59.9732;MQMR=60;NS=21;NUMALT=2;ODDS=2.11585;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32546,18435;QR=36;RO=1;RPL=3,1;RPP=1983.48,1130.02;RPPR=5.18177;RPR=921,522;RUN=1,1;SAF=923,523;SAP=2000.77,1138.69;SAR=1,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:55:0,54,1:0:0:54,1:1891,32:-170.145,-16.2556,0,-167.568,-13.3573,-167.267 1/1:6:0,6,0:0:0:6,0:214,0:-19.6078,-1.80618,0,-19.6078,-1.80618,-19.6078 1/2:103:0,45,58:0:0:45,58:1578,2045:-295.274,-166.861,-153.314,-128.765,0,-111.305 1/1:131:0,131,0:0:0:131,0:4596,0:-413.815,-39.4349,0,-413.815,-39.4349,-413.815 1/2:122:0,57,65:0:0:57,65:2004,2301:-350.905,-187.783,-170.624,-163.475,0,-143.908 1/2:91:1,41,49:1:36:41,49:1435,1733:-254.653,-138.205,-128.8,-113.804,0,-101.991 1/1:100:0,99,0:0:0:99,0:3495,0:-314.495,-29.802,0,-314.495,-29.802,-314.495 2/2:127:0,0,127:0:0:0,127:0,4470:-402.471,-402.471,-402.471,-38.2308,-38.2308,0 1/2:137:0,64,73:0:0:64,73:2257,2572:-393.532,-209.756,-190.49,-184.128,0,-162.153 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/1:6:0,6,0:0:0:6,0:215,0:-19.6992,-1.80618,0,-19.6992,-1.80618,-19.6992 1/1:12:0,12,0:0:0:12,0:431,0:-39.1307,-3.61236,0,-39.1307,-3.61236,-39.1307 1/1:130:0,130,0:0:0:130,0:4584,0:-412.73,-39.1339,0,-412.73,-39.1339,-412.73 1/2:121:0,55,66:0:0:55,66:1949,2324:-348.331,-189.554,-172.997,-159.13,0,-139.262 1/2:92:0,38,54:0:0:38,54:1337,1886:-262.599,-153.759,-142.32,-109.191,0,-92.9349 1/2:6:0,2,4:0:0:2,4:67,144:-17.5271,-12.1095,-11.5074,-5.76078,0,-4.55666 1/2:19:0,17,2:0:0:17,2:606,72:-55.6293,-6.23466,-1.11715,-49.7541,0,-49.1521 1/2:33:0,16,17:0:0:16,17:558,608:-95.3126,-49.9345,-45.118,-45.731,0,-40.6135 1/2:20:0,17,3:0:0:17,3:603,104:-57.9338,-8.79971,-3.6822,-49.4819,0,-48.5788 1/1:102:0,102,0:0:0:102,0:3595,0:-323.762,-30.7051,0,-323.762,-30.7051,-323.762 1/1:32:0,32,0:0:0:32,0:1131,0:-102.098,-9.63296,0,-102.098,-9.63296,-102.098 chr05 1729560 . G T 9919.7 PASS AB=0.533333;ABP=10.2485;AC=14;AF=0.333333;AN=42;AO=535;CIGAR=1X;DP=1447;DPB=1447;DPRA=1.8698;EPP=1156.08;EPPR=1963.89;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9738;MQMR=59.9868;NS=21;NUMALT=1;ODDS=2.83587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19132;QR=32557;RO=911;RPL=534;RPP=1156.08;RPPR=1920.89;RPR=1;RUN=1;SAF=535;SAP=1164.75;SAR=0;SRF=906;SRP=1938.03;SRR=5;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1927:1:21:0,-14.4567,-171.606 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:103:44,59:44:1584:59:2097:-157.992,0,-111.845 0/0:129:128,1:128:4600:1:36:0,-35.2346,-410.564 0/1:121:57,64:57:2036:64:2285:-169.485,0,-147.088 0/1:91:41,50:41:1446:50:1777:-132.817,0,-103.037 0/0:97:97,0:97:3480:0:0:0,-29.1999,-313.411 1/1:129:0,129:0:0:129:4614:-415.4,-38.8329,0 0/1:141:64,77:64:2281:77:2762:-206.376,0,-163.105 1/1:4:0,3:0:0:3:108:-9.82772,-0.90309,0 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:125:124,1:124:4422:1:36:0,-34.0305,-394.547 0/1:123:54,69:54:1944:69:2480:-186.426,0,-138.209 0/1:94:38,56:38:1353:56:2016:-153.415,0,-93.7716 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:19:17,2:17:612:2:72:-1.11715,0,-49.6939 0/1:33:17,16:17:593:16:576:-42.241,0,-43.7607 0/1:18:16,2:16:572:2:72:-1.41818,0,-46.394 0/0:101:101,0:101:3591:0:0:0,-30.404,-323.393 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 chr05 1729670 . T C 14591.9 PASS AB=0.467731;ABP=16.0437;AC=13;AF=0.309524;AN=42;AO=832;CIGAR=1X;DP=2632;DPB=2632;DPRA=1.64583;EPP=1809.68;EPPR=3909.49;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.81056;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29761;QR=64404;RO=1799;RPL=0;RPP=1809.68;RPPR=3909.49;RPR=832;RUN=1;SAF=832;SAP=1809.68;SAR=0;SRF=1799;SRP=3909.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:200:199,1:199:7097:1:36:0,-56.6077,-635.193 0/0:87:84,3:84:3012:3:104:0,-16.4868,-261.608 0/1:110:58,52:58:2080:52:1854:-134.025,0,-154.357 0/0:159:158,1:158:5664:1:36:0,-44.2655,-506.28 0/1:236:135,101:135:4840:101:3624:-255.322,0,-364.71 0/1:106:61,45:61:2192:45:1604:-112.741,0,-165.636 0/0:185:185,0:185:6624:0:0:0,-55.6905,-596.239 1/1:153:0,152:0:0:152:5438:-489.189,-45.7566,0 0/1:269:136,133:136:4884:133:4753:-346.951,0,-358.734 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/0:172:171,1:171:6120:1:36:0,-48.1789,-547.302 0/1:181:92,89:92:3284:89:3180:-231.938,0,-241.294 0/1:192:106,86:106:3777:86:3088:-220.349,0,-282.331 0/1:52:30,22:30:1080:22:792:-55.9521,0,-81.8597 0/1:67:17,50:17:604:50:1780:-140.314,0,-34.5216 0/1:101:53,48:53:1900:48:1720:-124.681,0,-140.874 0/1:121:75,46:75:2666:46:1644:-111.824,0,-203.758 0/0:139:139,0:139:4984:0:0:0,-41.8432,-448.707 0/0:71:71,0:71:2552:0:0:0,-21.3731,-229.93 chr05 1789198 . C T 6946.46 PASS AB=0.332902;ABP=377.471;AC=12;AF=0.285714;AN=42;AO=534;CIGAR=1X;DP=2601;DPB=2601;DPRA=3.775;EPP=1162.58;EPPR=4489.27;GTI=1;LEN=1;MEANALT=1.05;MQM=59.7303;MQMR=59.9835;NS=21;NUMALT=1;ODDS=16.7074;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19103;QR=73931;RO=2066;RPL=0;RPP=1162.58;RPPR=4489.27;RPR=534;RUN=1;SAF=534;SAP=1162.58;SAR=0;SRF=2066;SRP=4489.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:150:149,1:149:5344:1:36:0,-41.5572,-477.495 0/0:103:102,1:102:3602:1:36:0,-27.4078,-320.759 0/1:153:98,55:98:3524:55:1968:-131.335,0,-271.306 0/0:152:141,11:141:5045:11:390:0,-10.326,-418.763 0/1:331:224,107:224:7994:107:3833:-245.518,0,-619.84 0/1:143:115,28:115:4105:28:1004:-47.6286,0,-326.586 0/0:229:226,3:226:8105:3:108:0,-58.8607,-719.388 0/1:151:60,91:60:2144:91:3272:-249.242,0,-147.772 0/1:257:174,83:174:6232:83:2961:-189.227,0,-483.611 0/1:15:5,10:5:180:10:345:-26.8633,0,-12.0366 0/1:21:17,4:17:612:4:144:-6.99199,0,-49.0918 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/0:205:204,1:204:7290:1:36:0,-58.1139,-652.549 0/1:99:69,30:69:2460:30:1065:-66.3477,0,-191.853 0/1:194:157,37:157:5629:37:1313:-60.0681,0,-448.328 0/1:46:25,21:25:900:21:756:-54.5183,0,-67.4736 0/0:37:36,1:36:1296:1:36:0,-7.54154,-113.347 0/1:97:60,37:60:2156:37:1332:-90.9825,0,-165.107 0/1:37:26,11:26:936:11:396:-24.8437,0,-73.4214 0/0:109:107,1:107:3825:1:36:0,-29.2732,-340.847 0/0:38:37,1:37:1332:1:36:0,-7.84086,-116.584 chr05 1789364 . CAGATTAA GGGATAA,CGGATAA 39917.9 PASS AB=0.700658,0.292763;ABP=428.276,456.619;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1732,358;CIGAR=2X2M1D3M,1M1X2M1D3M;DP=2099;DPB=1836.25;DPRA=0,1.24272;EPP=3764,780.397;EPPR=0;GTI=0;LEN=7,7;MEANALT=2,2.66667;MQM=41.5266,49.2291;MQMR=0;NS=21;NUMALT=2;ODDS=4.31888;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58908,12493;QR=0;RO=0;RPL=0,0;RPP=3764,780.397;RPPR=0;RPR=1732,358;RUN=1,1;SAF=0,0;SAP=3764,780.397;SAR=1732,358;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:0,62,1:0:0:62,1:2003,36:-173.589,-18.6639,0,-170.665,-15.3818,-170.364 1/1:138:0,138,0:0:0:138,0:4553,0:-395.925,-41.5421,0,-395.925,-41.5421,-395.925 1/2:109:0,86,23:0:0:86,23:2958,789:-296.679,-64.0611,-38.1725,-232.958,0,-226.034 1/1:120:0,120,0:0:0:120,0:4243,0:-371.883,-36.1236,0,-371.883,-36.1236,-371.883 1/2:155:0,105,48:0:0:105,48:3669,1663:-425.171,-134.517,-102.909,-290.648,0,-276.199 1/2:97:0,53,43:0:0:53,43:1863,1516:-269.578,-122.113,-106.159,-147.596,0,-134.652 1/1:199:0,199,0:0:0:199,0:6864,0:-605.723,-59.905,0,-605.723,-59.905,-605.723 1/2:120:0,63,56:0:0:63,56:1804,1938:-289.484,-156.384,-137.419,-133.054,0,-116.197 1/2:179:0,128,49:0:0:128,49:4407,1738:-489.103,-141.342,-102.81,-347.869,0,-333.119 1/1:30:0,29,1:0:0:29,1:936,36:-82.1567,-8.72987,0,-79.2403,-5.45747,-78.9392 1/1:17:0,17,0:0:0:17,0:593,0:-52.9569,-5.11751,0,-52.9569,-5.11751,-52.9569 1/1:56:0,56,0:0:0:56,0:1797,0:-156.901,-16.8577,0,-156.901,-16.8577,-156.901 1/1:70:0,70,0:0:0:70,0:2461,0:-216.493,-21.0721,0,-216.493,-21.0721,-216.493 1/2:115:0,89,25:0:0:89,25:3092,858:-314.493,-69.4904,-42.6987,-245.101,0,-237.575 1/2:150:0,101,48:0:0:101,48:3540,1675:-415.711,-135.606,-105.202,-280.111,0,-265.661 1/2:109:0,79,30:0:0:79,30:2731,1053:-301.575,-85.6763,-61.8949,-216.245,0,-207.214 1/1:68:0,68,0:0:0:68,0:2388,0:-210.037,-20.47,0,-210.037,-20.47,-210.037 1/2:144:0,121,23:0:0:121,23:3836,795:-359.812,-64.5108,-28.0862,-295.638,0,-288.714 1/2:38:0,27,11:0:0:27,11:933,396:-106.082,-32.0797,-23.9519,-74.3514,0,-71.04 1/1:76:0,75,0:0:0:75,0:2623,0:-231.192,-22.5773,0,-231.192,-22.5773,-231.192 1/1:46:0,46,0:0:0:46,0:1614,0:-142.816,-13.8474,0,-142.816,-13.8474,-142.816 chr05 1789384 . A G 2531.25 PASS AB=0.230185;ABP=752.956;AC=11;AF=0.261905;AN=42;AO=290;CIGAR=1X;DP=2173;DPB=2173;DPRA=0.935777;EPP=565.167;EPPR=3316.18;GTI=3;LEN=1;MEANALT=1;MQM=42.7069;MQMR=43.7934;NS=21;NUMALT=1;ODDS=13.0442;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10385;QR=67472;RO=1883;RPL=282;RPP=565.167;RPPR=3324;RPR=8;RUN=1;SAF=0;SAP=632.737;SAR=290;SRF=1;SRP=4083.21;SRR=1882;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:60,4:60:2144:4:144:0,-6.30593,-162.827 0/0:142:134,8:134:4811:8:273:0,-18.342,-371.462 0/1:115:102,13:102:3660:13:468:-6.66964,0,-281.105 0/1:122:99,23:99:3551:23:824:-34.6906,0,-273.879 0/1:156:129,27:129:4624:27:968:-38.1942,0,-360.769 0/1:96:84,12:84:3011:12:432:-9.23775,0,-237.043 0/0:209:209,0:209:7461:0:0:0,-62.9153,-655.609 0/1:120:90,30:90:3232:30:1080:-59.3655,0,-214.14 0/0:187:187,0:187:6707:0:0:0,-56.2926,-588.588 0/0:42:40,2:40:1436:2:72:0,-5.95334,-114.839 0/0:26:26,0:26:932:0:0:0,-7.82678,-82.9467 0/1:57:43,14:43:1535:14:504:-27.5581,0,-106.439 0/0:72:72,0:72:2573:0:0:0,-21.6742,-226.106 0/0:113:112,1:112:4028:1:36:0,-30.5137,-350.063 0/1:152:109,43:109:3903:43:1536:-89.1972,0,-298.291 0/1:114:76,38:76:2724:38:1364:-85.7037,0,-205.033 0/1:71:50,21:50:1792:21:752:-44.9533,0,-135.675 0/1:146:100,46:100:3579:46:1648:-101.254,0,-239.273 0/1:37:31,6:31:1116:6:216:-8.21435,0,-87.3997 0/0:82:80,2:80:2872:2:68:0,-18.331,-246.684 0/0:50:50,0:50:1781:0:0:0,-15.0515,-157.448 chr05 1789386 . T C 24259.5 PASS AB=0.531592;ABP=17.2792;AC=24;AF=0.571429;AN=42;AO=1266;CIGAR=1X;DP=2178;DPB=2178;DPRA=0.85;EPP=2326.96;EPPR=1580.65;GTI=0;LEN=1;MEANALT=1;MQM=42.7946;MQMR=44.7796;NS=21;NUMALT=1;ODDS=1.51449;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45260;QR=32571;RO=912;RPL=1215;RPP=2326.96;RPPR=1588.41;RPR=51;RUN=1;SAF=0;SAP=2752.09;SAR=1266;SRF=1;SRP=1974.72;SRR=911;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:15,47:15:540:47:1680:-129.015,0,-15.7097 0/1:145:34,111:34:1216:111:3975:-304.969,0,-36.5244 0/1:114:49,65:49:1737:65:2324:-169.418,0,-113.206 0/1:121:25,96:25:900:96:3448:-263.713,0,-43.0314 0/1:156:84,72:84:2997:72:2575:-178.555,0,-218.566 0/1:98:56,42:56:1993:42:1512:-102.552,0,-147.493 1/1:205:15,190:15:540:190:6761:-545.54,-12.7932,0 0/0:121:121,0:121:4317:0:0:0,-36.4246,-347.009 0/1:191:74,117:74:2649:117:4175:-306.72,0,-176.476 0/1:42:37,5:37:1324:5:180:-3.62446,0,-99.2841 0/1:26:21,5:21:736:5:176:-7.08393,0,-58.7164 0/1:57:33,24:33:1188:24:864:-58.7587,0,-77.5066 1/1:74:1,73:1:36:73:2620:-226.493,-18.6805,0 0/1:115:35,80:35:1252:80:2845:-214.234,0,-77.872 0/1:153:95,58:95:3373:58:2054:-134.347,0,-251.497 0/1:111:70,41:70:2497:41:1463:-93.7502,0,-188.221 0/1:72:24,48:24:864:48:1723:-129.396,0,-54.6734 0/1:146:102,44:102:3656:44:1580:-95.5331,0,-244.663 0/1:37:17,20:17:612:20:720:-52.2773,0,-43.2504 1/1:83:2,81:2:72:81:2893:-248.303,-18.2956,0 1/1:49:2,47:2:72:47:1692:-142.616,-7.917,0 chr05 1789403 . C T 3937.2 PASS AB=0.286985;ABP=490.545;AC=10;AF=0.238095;AN=42;AO=357;CIGAR=1X;DP=2173;DPB=2173;DPRA=1.21592;EPP=778.226;EPPR=3946.4;GTI=0;LEN=1;MEANALT=1;MQM=49.098;MQMR=42.5132;NS=21;NUMALT=1;ODDS=7.04082;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12552;QR=64998;RO=1816;RPL=357;RPP=778.226;RPPR=3946.4;RPR=0;RUN=1;SAF=0;SAP=778.226;SAR=357;SRF=0;SRP=3946.4;SRR=1816;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,1:64:2296:1:32:0,-16.3738,-185.193 0/0:144:144,0:144:5160:0:0:0,-43.3483,-425.945 0/1:115:92,23:92:3304:23:789:-36.4114,0,-248.436 0/0:122:122,0:122:4384:0:0:0,-36.7257,-382.412 0/1:157:110,47:110:3941:47:1646:-100.393,0,-297.371 0/1:96:53,43:53:1900:43:1532:-107.757,0,-137.064 0/0:206:206,0:206:7361:0:0:0,-62.0122,-646.583 0/1:117:64,53:64:2273:53:1858:-131.109,0,-129.729 0/1:191:142,49:142:5084:49:1732:-98.2376,0,-384.115 0/0:42:41,1:41:1468:1:32:0,-9.45403,-121.512 0/0:26:26,0:26:936:0:0:0,-7.82678,-83.247 0/0:56:56,0:56:1997:0:0:0,-16.8577,-164.267 0/0:73:73,0:73:2612:0:0:0,-21.9752,-229.417 0/1:115:91,24:91:3264:24:856:-42.3583,0,-250.56 0/1:152:101,51:101:3579:51:1782:-114.086,0,-267.116 0/1:112:80,32:80:2868:32:1109:-65.9534,0,-216.965 0/0:69:69,0:69:2472:0:0:0,-20.7711,-216.707 0/1:146:123,23:123:4403:23:824:-30.0162,0,-309.765 0/1:36:26,10:26:932:10:360:-21.3288,0,-71.266 0/0:83:83,0:83:2968:0:0:0,-24.9855,-261.656 0/0:50:50,0:50:1796:0:0:0,-15.0515,-158.773 chr05 1863382 . T A 18349.6 PASS AB=0.41345;ABP=55.2581;AC=30;AF=0.714286;AN=42;AO=920;CIGAR=1X;DP=1467;DPB=1467;DPRA=1.02868;EPP=2000.76;EPPR=1190.81;GTI=2;LEN=1;MEANALT=1;MQM=54.3163;MQMR=52.3346;NS=21;NUMALT=1;ODDS=0.58442;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32857;QR=19381;RO=547;RPL=0;RPP=2000.76;RPPR=1190.81;RPR=920;RUN=1;SAF=0;SAP=2000.76;SAR=920;SRF=0;SRP=1190.81;SRR=547;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:170:3,167:3:104:167:5949:-524.029,-41.4837,0 1/1:27:0,27:0:0:27:968:-87.1589,-8.12781,0 0/1:54:30,24:30:1061:24:860:-61.1757,0,-78.6586 1/1:48:0,48:0:0:48:1705:-153.374,-14.4494,0 0/1:204:149,55:149:5275:55:1968:-115.772,0,-411.644 0/1:120:74,46:74:2571:46:1656:-112.466,0,-193.939 1/1:65:0,65:0:0:65:2323:-208.38,-19.567,0 0/0:68:68,0:68:2408:0:0:0,-20.47,-216.173 0/1:103:42,61:42:1504:61:2152:-162.544,0,-104.304 0/1:8:7,1:7:252:1:36:-1.18493,0,-20.5253 1/1:7:0,7:0:0:7:252:-22.1591,-2.10721,0 1/1:12:0,12:0:0:12:432:-39.162,-3.61236,0 1/1:86:1,85:1:36:85:3030:-268.789,-22.2954,0 0/1:60:38,22:38:1349:22:788:-53.1328,0,-102.938 0/1:98:57,41:57:2052:41:1472:-103.091,0,-154.893 0/1:94:48,46:48:1701:46:1652:-119.957,0,-124.248 1/1:70:0,70:0:0:70:2495:-224.648,-21.0721,0 0/1:39:20,19:20:716:19:684:-50.0553,0,-52.8592 0/1:23:6,17:6:208:17:612:-48.3633,0,-12.1115 1/1:83:4,79:4:144:79:2823:-240.177,-11.7053,0 1/1:28:0,28:0:0:28:1000:-89.362,-8.42884,0 chr05 1863385 . GTGAG GTGGAAT,TTGGAAT 30942 PASS AB=0.407543,0.581509;ABP=64.044,50.4446;AC=30,12;AF=0.714286,0.285714;AN=42;AO=944,558;CIGAR=3M2I1M1X,1X2M2I1M1X;DP=1517;DPB=2121.8;DPRA=1.00347,2.25818;EPP=2052.88,1214.69;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.25,2.5;MQM=54.2924,52.3925;MQMR=0;NS=21;NUMALT=2;ODDS=0.135731;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33255,19573;QR=0;RO=0;RPL=0,0;RPP=2052.88,1214.69;RPPR=0;RPR=944,558;RUN=1,1;SAF=0,0;SAP=2052.88,1214.69;SAR=944,558;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:177:0,173,3:0:0:173,3:6080,108:-545.416,-52.0782,0,-536.617,-43.1971,-535.714 1/1:28:0,27,0:0:0:27,0:942,0:-84.47,-8.12781,0,-84.47,-8.12781,-84.47 1/2:54:0,25,28:0:0:25,28:882,978:-150.315,-78.8028,-71.277,-71.5496,0,-63.1208 1/1:54:0,53,0:0:0:53,0:1876,0:-168.424,-15.9546,0,-168.424,-15.9546,-168.424 1/2:210:0,56,152:0:0:56,152:1972,5356:-594.415,-434.078,-417.221,-160.358,0,-114.601 1/2:120:0,47,72:0:0:47,72:1689,2531:-341.052,-204.619,-190.47,-136.438,0,-114.764 1/1:70:0,70,0:0:0:70,0:2464,0:-221.355,-21.0721,0,-221.355,-21.0721,-221.355 2/2:72:0,0,72:0:0:0,72:0,2520:-226.342,-226.342,-226.342,-21.6742,-21.6742,0 1/2:107:0,59,45:0:0:59,45:2055,1556:-292.957,-126.098,-108.338,-166.857,0,-153.311 1/2:8:0,1,7:0:0:1,7:30,251:-23.1272,-20.7369,-20.4358,-2.69725,0,-0.590036 1/1:8:0,8,0:0:0:8,0:278,0:-24.4867,-2.40824,0,-24.4867,-2.40824,-24.4867 1/1:12:0,12,0:0:0:12,0:427,0:-38.7134,-3.61236,0,-38.7134,-3.61236,-38.7134 1/1:87:0,86,1:0:0:86,1:3030,36:-271.962,-25.8886,0,-269.029,-22.5964,-268.728 1/2:62:0,21,41:0:0:21,41:750,1434:-177.474,-116.372,-110.05,-61.4564,0,-49.1141 1/2:101:0,41,60:0:0:41,60:1456,2093:-288.667,-170.205,-157.862,-118.815,0,-100.753 1/2:94:0,46,46:0:0:46,46:1623,1623:-263.394,-131.96,-118.112,-131.504,0,-117.657 1/1:74:0,74,0:0:0:74,0:2597,0:-233.874,-22.2762,0,-233.874,-22.2762,-233.874 1/2:41:0,20,21:0:0:20,21:705,736:-117.4,-60.0842,-54.0636,-57.6662,0,-51.3445 1/2:25:0,19,6:0:0:19,6:664,208:-71.1371,-17.229,-11.5094,-54.2548,0,-52.4486 1/1:84:0,79,4:0:0:79,4:2793,143:-250.345,-23.7814,0,-238.715,-12.122,-237.511 1/1:29:0,27,0:0:0:27,0:942,0:-83.9655,-8.12781,0,-83.9655,-8.12781,-83.9655 chr05 1904976 . T C 7559.65 PASS AB=0.56338;ABP=12.9196;AC=30;AF=0.714286;AN=42;AO=365;CIGAR=1X;DP=505;DPB=505;DPRA=1.52812;EPP=778.321;EPPR=281.517;GTI=1;LEN=1;MEANALT=1;MQM=59.2466;MQMR=60;NS=21;NUMALT=1;ODDS=1.31783;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13077;QR=4897;RO=140;RPL=363;RPP=778.321;RPPR=281.517;RPR=2;RUN=1;SAF=0;SAP=795.598;SAR=365;SRF=0;SRP=307.016;SRR=140;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:34:0,34:0:0:34:1217:-109.807,-10.235,0 1/1:13:0,13:0:0:13:468:-42.4432,-3.91339,0 0/1:13:4,9:4:144:9:324:-25.5925,0,-9.40023 1/1:17:0,17:0:0:17:608:-55.0487,-5.11751,0 0/1:31:12,19:12:424:19:684:-52.4448,0,-29.1645 0/1:36:15,21:15:510:21:748:-56.7575,0,-35.3825 1/1:52:0,52:0:0:52:1860:-166.709,-15.6536,0 0/0:16:16,0:16:545:0:0:0,-4.81648,-49.3709 0/1:35:18,17:18:625:17:608:-44.5156,0,-46.0364 0/1:8:2,6:2:68:6:216:-17.3776,0,-4.04947 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:8:0,8:0:0:8:288:-26.2545,-2.40824,0 1/1:22:0,22:0:0:22:788:-71.2401,-6.62266,0 0/1:22:11,11:11:392:11:392:-28.9641,0,-28.9974 0/1:25:12,13:12:413:13:464:-34.5718,0,-29.9721 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 1/1:9:0,9:0:0:9:324:-29.5049,-2.70927,0 0/1:80:42,38:42:1492:38:1360:-98.6136,0,-110.492 0/1:27:7,20:7:248:20:720:-57.001,0,-14.5364 1/1:26:0,26:0:0:26:936:-84.5548,-7.82678,0 1/1:20:0,20:0:0:20:712:-64.3367,-6.0206,0 chr05 1967506 . T C 2465.02 PASS AB=0.362832;ABP=39.9445;AC=16;AF=0.380952;AN=42;AO=125;CIGAR=1X;DP=460;DPB=460;DPRA=0.852941;EPP=100.727;EPPR=449.293;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.215435;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4456;QR=11993;RO=334;RPL=25;RPP=100.727;RPPR=449.293;RPR=100;RUN=1;SAF=0;SAP=274.444;SAR=125;SRF=0;SRP=728.282;SRR=334;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:18:7,11:7:252:11:387:-29.7474,0,-17.6104 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:22:13,9:13:468:9:324:-22.8832,0,-35.837 0/1:18:14,3:14:504:3:108:-4.59783,0,-40.2208 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 0/1:38:24,14:24:864:14:485:-32.5378,0,-66.6434 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/0:56:56,0:56:1997:0:0:0,-16.8577,-180.002 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:25:15,10:15:540:10:360:-25.2186,0,-41.4108 0/1:28:17,11:17:612:11:392:-27.1912,0,-46.9846 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:9:7,2:7:252:2:68:-3.74844,0,-20.3197 0/1:26:13,13:13:468:13:468:-34.6329,0,-34.6329 0/1:36:30,6:30:1080:6:212:-8.58772,0,-86.6762 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 0/0:22:21,1:21:752:1:36:0,-3.02438,-64.408 chr05 1992645 . A G 11228.9 PASS AB=0.517893;ABP=5.80774;AC=13;AF=0.309524;AN=42;AO=640;CIGAR=1X;DP=2031;DPB=2031;DPRA=0.929624;EPP=1392.75;EPPR=3023.53;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9942;NS=21;NUMALT=1;ODDS=3.98267;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22716;QR=49794;RO=1391;RPL=640;RPP=1392.75;RPPR=3023.53;RPR=0;RUN=1;SAF=640;SAP=1392.75;SAR=0;SRF=1391;SRP=3023.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:106:102,4:102:3660:4:144:0,-18.5956,-316.289 0/0:137:137,0:137:4915:0:0:0,-41.2411,-442.499 0/1:100:50,50:50:1792:50:1780:-130.38,0,-131.459 0/0:146:146,0:146:5228:0:0:0,-43.9504,-470.658 0/1:116:65,51:65:2328:51:1806:-127.899,0,-174.856 0/1:155:78,77:78:2796:77:2728:-199.102,0,-205.22 0/0:84:83,1:83:2968:1:36:0,-21.6882,-263.755 1/1:110:0,110:0:0:110:3910:-352.095,-33.1133,0 0/1:148:63,85:63:2245:85:3021:-227.569,0,-157.759 0/1:10:2,8:2:72:8:284:-22.8931,0,-3.82642 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/0:144:144,0:144:5163:0:0:0,-43.3483,-464.809 0/1:101:44,57:44:1584:57:1996:-149.508,0,-112.447 0/1:121:54,67:54:1913:67:2386:-178.572,0,-136.021 0/1:104:42,62:42:1508:62:2181:-165.246,0,-104.707 0/0:71:71,0:71:2548:0:0:0,-21.3731,-229.57 0/1:63:37,26:37:1328:26:936:-65.5946,0,-100.857 0/1:84:49,35:49:1748:35:1256:-88.0588,0,-132.318 0/0:114:110,4:110:3936:4:144:0,-21.0038,-341.118 0/0:80:80,0:80:2838:0:0:0,-24.0824,-255.659 chr05 1992654 . A T 75246 PASS AB=0.482011;ABP=9.10404;AC=29;AF=0.690476;AN=42;AO=2838;CIGAR=1X;DP=4204;DPB=4204;DPRA=0.87193;EPP=6165.65;EPPR=2969.24;GTI=0;LEN=1;MEANALT=1;MQM=59.9965;MQMR=60;NS=21;NUMALT=1;ODDS=32.4864;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=101155;QR=48439;RO=1366;RPL=1371;RPP=10.0618;RPPR=22.951;RPR=1467;RUN=1;SAF=1371;SAP=10.0618;SAR=1467;SRF=627;SRP=22.951;SRR=739;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:235:6,229:6:216:229:8156:-714.265,-50.9515,0 1/1:250:1,249:1:36:249:8876:-795.23,-71.6592,0 0/1:176:99,77:99:3519:77:2764:-196.02,0,-263.94 1/1:245:0,245:0:0:245:8725:-785.242,-73.7524,0 0/1:304:143,161:143:5072:161:5699:-421.515,0,-365.114 0/1:209:111,98:111:3899:98:3487:-251.127,0,-288.192 1/1:246:1,245:1:36:245:8744:-783.355,-70.4551,0 0/0:228:228,0:228:8097:0:0:0,-68.6348,-728.755 0/1:329:187,142:187:6639:142:5071:-357.494,0,-498.557 0/1:35:17,18:17:608:18:648:-48.1158,0,-44.516 0/1:13:5,8:5:172:8:288:-22.354,0,-11.9046 1/1:95:0,95:0:0:95:3412:-307.293,-28.5979,0 1/1:244:1,243:1:36:243:8643:-774.269,-69.853,0 0/1:249:134,115:134:4766:115:4123:-296.297,0,-354.143 0/1:374:197,177:197:6987:177:6315:-455.858,0,-516.314 0/1:194:114,80:114:4022:80:2844:-197.798,0,-303.773 1/1:141:0,141:0:0:141:5020:-451.947,-42.4452,0 0/1:142:66,76:66:2339:76:2695:-200.049,0,-168.023 0/1:143:50,93:50:1779:93:3306:-254.712,0,-117.345 1/1:213:5,208:5:180:208:7420:-651.291,-47.5673,0 1/1:139:1,138:1:36:138:4919:-439.262,-38.2449,0 chr05 1997752 . A G 12122.8 PASS AB=0.547945;ABP=24.8738;AC=13;AF=0.309524;AN=42;AO=676;CIGAR=1X;DP=1931;DPB=1931;DPRA=1.84535;EPP=1470.93;EPPR=2723.87;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.8003;MQMR=59.9872;NS=21;NUMALT=1;ODDS=3.91662;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24231;QR=44977;RO=1253;RPL=0;RPP=1470.93;RPPR=2723.87;RPR=676;RUN=1;SAF=0;SAP=1470.93;SAR=676;SRF=0;SRP=2723.87;SRR=1253;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:178:177,1:177:6360:1:36:0,-49.9851,-568.833 0/0:55:54,0:54:1940:0:0:0,-16.2556,-174.663 0/1:72:30,42:30:1080:42:1512:-114.698,0,-75.8391 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/1:212:115,97:115:4117:97:3480:-249.586,0,-306.894 0/1:101:36,65:36:1296:65:2327:-179.277,0,-86.5399 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 1/1:73:0,73:0:0:73:2620:-235.844,-21.9752,0 0/1:233:100,133:100:3581:133:4776:-359.848,0,-252.355 0/1:14:12,2:12:428:2:72:-2.6223,0,-34.6444 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/0:110:109,1:109:3907:1:36:0,-29.515,-348.224 0/1:93:38,55:38:1368:55:1980:-150.476,0,-95.425 0/1:188:85,103:85:3060:103:3671:-273.989,0,-219.034 0/1:75:21,54:21:756:54:1940:-152.292,0,-45.79 0/0:81:81,0:81:2897:0:0:0,-24.3834,-260.964 0/1:44:18,26:18:648:26:917:-69.5768,0,-45.4066 0/1:59:39,20:39:1400:20:720:-47.3657,0,-108.538 0/0:131:129,1:129:4640:1:36:0,-35.8403,-414.216 0/0:68:68,0:68:2435:0:0:0,-20.47,-219.405 chr05 1997761 . CGTT CGTA,TGTA 41401.2 PASS AB=0.443942,0.552441;ABP=33.1989,29.4292;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1244,689;CIGAR=3M1X,1X2M1X;DP=1943;DPB=1943;DPRA=1.24533,1.89941;EPP=2669.69,1473.21;EPPR=3.0103;GTI=1;LEN=1,4;MEANALT=2.1,2.33333;MQM=59.9879,59.7402;MQMR=60;NS=21;NUMALT=2;ODDS=4.35996;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44615,24430;QR=49;RO=2;RPL=1240,686;RPP=2669.69,1473.21;RPPR=3.0103;RPR=4,3;RUN=1,1;SAF=0,0;SAP=2704.32,1499.15;SAR=1244,689;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:0,177,1:0:0:177,1:6348,36:-571.104,-53.2823,0,-568.166,-50.29,-567.865 1/1:55:1,54,0:1:24:54,0:1925,0:-171.125,-14.1568,0,-171.426,-16.2556,-173.283 1/2:73:0,30,43:0:0:30,43:1080,1540:-214.07,-125.946,-116.915,-88.4823,0,-75.5381 1/1:47:0,47,0:0:0:47,0:1688,0:-152.207,-14.1484,0,-152.207,-14.1484,-152.207 1/2:213:0,114,99:0:0:114,99:4070,3501:-617.307,-285.494,-251.177,-332.167,0,-302.365 1/2:102:0,35,66:0:0:35,66:1260,2346:-293.981,-191.17,-180.634,-102.819,0,-82.9513 1/1:59:0,58,0:0:0:58,0:2084,0:-187.47,-17.4597,0,-187.47,-17.4597,-187.47 2/2:75:0,0,75:0:0:0,75:0,2643:-237.996,-237.996,-237.996,-22.5773,-22.5773,0 1/2:238:0,100,136:0:0:100,136:3584,4827:-685.59,-393.283,-363.18,-292.304,0,-251.364 1/2:15:0,13,2:0:0:13,2:468,65:-43.7879,-5.57123,-1.65784,-38.5463,0,-37.9442 1/2:4:0,1,3:0:0:1,3:36,107:-12.0173,-9.07908,-8.77805,-3.29724,0,-2.39415 1/1:33:0,32,0:0:0:32,0:1148,0:-103.27,-9.63296,0,-103.27,-9.63296,-103.27 1/1:112:0,111,1:0:0:111,1:3980,36:-358.03,-33.4143,0,-355.093,-30.1171,-354.792 1/2:95:0,39,56:0:0:39,56:1400,1978:-275.609,-161.407,-149.667,-114.559,0,-97.7013 1/2:187:0,81,105:0:0:81,105:2904,3729:-540.694,-303.839,-279.456,-236.852,0,-205.244 1/2:74:0,20,54:0:0:20,54:720,1921:-215.653,-156.904,-150.883,-59.1082,0,-42.8526 1/1:77:1,76,0:1:25:76,0:2727,0:-243.173,-20.6794,0,-243.474,-22.8783,-245.421 1/2:44:0,18,26:0:0:18,26:637,930:-128.068,-76.1845,-70.766,-52.2387,0,-44.4119 1/2:61:0,40,21:0:0:40,21:1432,735:-176.931,-60.1472,-48.106,-117.136,0,-110.815 1/1:133:0,131,1:0:0:131,1:4712,36:-423.832,-39.4349,0,-420.895,-36.4975,-420.594 1/1:67:0,67,0:0:0:67,0:2412,0:-217.336,-20.169,0,-217.336,-20.169,-217.336 chr05 2004530 . C T 27324.2 PASS AB=0.617021;ABP=120.408;AC=29;AF=0.690476;AN=42;AO=1547;CIGAR=1X;DP=1971;DPB=1971;DPRA=2.14;EPP=3362.28;EPPR=923.715;GTI=2;LEN=1;MEANALT=1;MQM=34.4085;MQMR=47.0991;NS=21;NUMALT=1;ODDS=15.6503;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55452;QR=15175;RO=424;RPL=1547;RPP=3362.28;RPPR=923.715;RPR=0;RUN=1;SAF=0;SAP=3362.28;SAR=1547;SRF=0;SRP=923.715;SRR=424;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2933:-234.795,-24.6845,0 1/1:121:0,121:0:0:121:4348:-348.975,-36.4246,0 0/1:78:22,56:22:792:56:2012:-137.054,0,-47.5199 1/1:165:0,165:0:0:165:5885:-466.786,-49.67,0 0/1:170:63,107:63:2249:107:3833:-252.645,0,-148.041 0/1:72:26,46:26:936:46:1637:-111.729,0,-62.1262 1/1:125:0,125:0:0:125:4487:-361.146,-37.6288,0 0/0:45:45,0:45:1616:0:0:0,-13.5463,-144.627 0/1:110:36,74:36:1284:74:2664:-184.671,0,-81.2477 0/1:19:2,17:2:72:17:612:-44.2713,0,-1.06995 0/1:9:1,8:1:36:8:284:-20.8329,0,-0.869497 1/1:46:0,46:0:0:46:1656:-133.732,-13.8474,0 1/1:131:0,131:0:0:131:4716:-371.906,-39.4349,0 0/1:98:36,62:36:1296:62:2224:-148.352,0,-84.9474 0/1:147:60,87:60:2130:87:3128:-204.258,0,-145.734 0/1:71:38,33:38:1352:33:1188:-75.6638,0,-99.9247 1/1:110:0,110:0:0:110:3924:-320.508,-33.1133,0 0/1:145:72,73:72:2584:73:2613:-168.876,0,-186.111 0/1:68:22,46:22:792:46:1656:-111.922,0,-49.8235 1/1:96:0,96:0:0:96:3424:-277.442,-28.8989,0 1/1:63:1,62:1:36:62:2228:-178.104,-15.6659,0 chr05 2038073 . ACTTATC AC 1803.59 PASS AB=0.263027;ABP=396.149;AC=28;AF=0.666667;AN=42;AO=518;CIGAR=1M5D1M;DP=1249;DPB=879;DPRA=0.453629;EPP=1127.83;EPPR=1581.67;GTI=11;LEN=5;MEANALT=1.1;MQM=19.4614;MQMR=47.7882;NS=21;NUMALT=1;ODDS=0.160106;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16629;QR=24819;RO=727;RPL=518;RPP=1127.83;RPPR=1573;RPR=0;RUN=1;SAF=518;SAP=1127.83;SAR=0;SRF=726;SRP=1573;SRR=1;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:1,40:1:36:40:1292:-68.4637,-8.7688,0 1/1:24:0,24:0:0:24:777:-36.391,-7.22472,0 0/1:72:55,17:55:1918:17:549:-8.82291,0,-150.04 1/1:54:0,54:0:0:54:1700:-94.8408,-16.2556,0 0/1:204:157,45:157:5306:45:1438:-18.0402,0,-412.147 0/1:35:26,9:26:894:9:269:-2.15187,0,-68.723 1/1:59:0,59:0:0:59:1929:-85.341,-17.7608,0 0/0:124:122,0:122:4160:0:0:0,-36.7257,-369.484 0/1:127:99,28:99:3378:28:875:-15.343,0,-264.642 0/0:8:7,1:7:226:1:21:0,-0.782371,-18.907 0/1:7:6,1:6:209:1:32:-0.547446,0,-16.8235 1/1:12:0,12:0:0:12:385:-19.3167,-3.61236,0 1/1:42:1,41:1:29:41:1324:-70.5064,-9.74758,0 0/1:71:51,20:51:1734:20:639:-14.3803,0,-132.719 0/1:132:89,43:89:3068:43:1423:-38.5949,0,-234.849 0/1:63:45,18:45:1525:18:554:-15.5769,0,-118.012 1/1:22:0,22:0:0:22:719:-42.9917,-6.62266,0 0/1:51:36,15:36:1248:15:478:-9.41038,0,-95.5135 0/1:44:28,16:28:957:16:506:-16.2046,0,-72.6136 1/1:44:4,40:4:131:40:1298:-52.4841,-1.19347,0 1/1:13:0,13:0:0:13:421:-18.5528,-3.91339,0 chr05 2038525 . G A 22412.4 PASS AB=0.527059;ABP=8.41599;AC=29;AF=0.690476;AN=42;AO=1094;CIGAR=1X;DP=1563;DPB=1563;DPRA=1.2525;EPP=2369.92;EPPR=1008.42;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9707;MQMR=60;NS=21;NUMALT=1;ODDS=8.8782;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39049;QR=16661;RO=467;RPL=1093;RPP=2369.92;RPPR=1008.42;RPR=1;RUN=1;SAF=0;SAP=2378.6;SAR=1094;SRF=0;SRP=1017.09;SRR=467;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:3,74:3:108:74:2628:-226.691,-13.1041,0 1/1:116:0,116:0:0:116:4150:-373.682,-34.9195,0 0/1:77:42,35:42:1504:35:1233:-88.0925,0,-112.475 1/1:55:1,54:1:36:54:1940:-171.278,-12.9584,0 0/1:138:68,70:68:2418:70:2512:-184.79,0,-176.333 0/1:59:23,36:23:815:36:1287:-98.372,0,-55.91 1/1:77:0,77:0:0:77:2742:-247.022,-23.1793,0 0/0:60:60,0:60:2144:0:0:0,-18.0618,-193.228 0/1:152:72,80:72:2569:80:2859:-211.791,0,-185.702 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.6268 0/1:5:3,2:3:108:2:63:-4.478,0,-8.57002 1/1:48:0,48:0:0:48:1709:-154.089,-14.4494,0 1/1:129:2,127:2:72:127:4536:-401.57,-31.9961,0 0/1:88:45,43:45:1616:43:1500:-108.797,0,-119.239 0/1:135:59,76:59:2108:76:2732:-205.481,0,-149.35 0/1:32:16,16:16:560:16:564:-41.4568,0,-41.0958 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 0/1:102:47,53:47:1680:53:1897:-140.544,0,-121.024 0/1:45:15,30:15:527:30:1070:-83.0657,0,-34.2138 1/1:89:0,89:0:0:89:3196:-287.863,-26.7917,0 1/1:25:1,24:1:36:24:851:-73.3112,-3.92748,0 chr05 2038955 . AGG CGT,CGG 55323.5 PASS AB=0.525595,0.472242;ABP=10.9024,12.2927;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1760,872;CIGAR=1X1M1X,1X2M;DP=2637;DPB=2637;DPRA=0.557604,1.24773;EPP=3824.8,1879.2;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=1.8,2.15385;MQM=59.6568,59.9931;MQMR=60;NS=21;NUMALT=2;ODDS=12.8802;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61654,31032;QR=20;RO=1;RPL=0,2;RPP=3824.8,1879.2;RPPR=5.18177;RPR=1760,870;RUN=1,1;SAF=1760,872;SAP=3824.8,1896.53;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:0,161,1:0:0:161,1:5590,36:-502.865,-48.4658,0,-499.928,-45.1686,-499.627 1/1:84:0,84,0:0:0:84,0:2951,0:-265.818,-25.2865,0,-265.818,-25.2865,-265.818 1/2:122:0,72,49:0:0:72,49:2545,1756:-350.479,-143.214,-121.54,-207.261,0,-192.511 1/1:145:0,145,0:0:0:145,0:5030,0:-452.795,-43.6494,0,-452.795,-43.6494,-452.795 1/2:256:0,110,146:0:0:110,146:3882,5160:-736.43,-420.593,-387.479,-316.19,0,-272.24 1/2:104:0,60,44:0:0:60,44:2096,1563:-298.206,-127.716,-109.654,-170.843,0,-157.598 1/1:244:0,243,0:0:0:243,0:8504,0:-764.325,-73.1503,0,-764.325,-73.1503,-764.325 2/2:217:1,0,216:1:20:0,216:0,7701:-691.127,-691.428,-692.926,-63.3236,-65.0225,0 1/2:210:0,109,101:0:0:109,101:3841,3612:-607.595,-294.882,-262.069,-313.068,0,-282.664 1/2:16:0,6,10:0:0:6,10:193,356:-44.9154,-29.3709,-27.5648,-15.8789,0,-12.8686 1/2:26:0,18,8:0:0:18,8:620,288:-74.2025,-23.8545,-18.436,-50.703,0,-48.2947 1/1:38:0,38,0:0:0:38,0:1342,0:-121.011,-11.4391,0,-121.011,-11.4391,-121.011 1/1:110:0,110,0:0:0:110,0:3851,0:-346.768,-33.1133,0,-346.768,-33.1133,-346.768 1/2:123:0,63,60:0:0:63,60:2173,2139:-351.18,-174.716,-155.751,-176.815,0,-158.753 1/2:253:0,134,119:0:0:134,119:4721,4236:-729.931,-345.597,-305.259,-384.689,0,-348.866 1/2:76:0,43,33:0:0:43,33:1498,1171:-217.576,-95.7627,-82.8184,-122.166,0,-112.232 1/1:56:0,56,0:0:0:56,0:1953,0:-176.02,-16.8577,0,-176.02,-16.8577,-176.02 1/2:115:0,50,63:0:0:50,63:1769,2226:-325.363,-181.277,-166.225,-144.08,0,-125.115 1/2:86:0,64,22:0:0:64,22:2283,788:-250.552,-64.6221,-45.3562,-186.287,0,-179.665 1/1:138:0,138,0:0:0:138,0:4844,0:-436.106,-41.5421,0,-436.106,-41.5421,-436.106 1/1:56:0,56,0:0:0:56,0:1968,0:-177.39,-16.8577,0,-177.39,-16.8577,-177.39 chr05 2038966 . T G 35357.5 PASS AB=0.516691;ABP=6.34472;AC=29;AF=0.690476;AN=42;AO=1710;CIGAR=1X;DP=2601;DPB=2601;DPRA=0.535811;EPP=3647.07;EPPR=1839.09;GTI=0;LEN=1;MEANALT=1.1;MQM=59.707;MQMR=59.9933;NS=21;NUMALT=1;ODDS=10.1601;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60866;QR=31847;RO=889;RPL=8;RPP=3647.07;RPPR=1839.09;RPR=1702;RUN=1;SAF=1710;SAP=3716.23;SAR=0;SRF=889;SRP=1933.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:1,156:1:36:156:5523:-493.597,-44.0233,0 1/1:79:0,79:0:0:79:2832:-255.115,-23.7814,0 0/1:122:49,73:49:1760:73:2607:-198.145,0,-121.958 1/1:138:0,138:0:0:138:4938:-444.523,-41.5421,0 0/1:260:150,110:150:5366:110:3906:-273.405,0,-404.803 0/1:102:44,58:44:1584:58:2076:-156.404,0,-112.146 1/1:242:0,241:0:0:241:8600:-772.674,-72.5482,0 0/0:222:222,0:222:7924:0:0:0,-66.8287,-713.185 0/1:208:102,106:102:3664:106:3787:-278.406,0,-267.348 0/1:15:10,5:10:356:5:180:-12.0366,0,-27.8658 0/1:26:8,18:8:288:18:635:-49.6493,0,-18.436 1/1:38:0,38:0:0:38:1338:-120.686,-11.4391,0 1/1:107:0,107:0:0:107:3775:-339.934,-32.2102,0 0/1:120:61,59:61:2187:59:2058:-149.359,0,-160.971 0/1:252:124,128:124:4451:128:4575:-336.036,0,-324.899 0/1:72:32,40:32:1152:40:1424:-106.783,0,-82.316 1/1:53:0,53:0:0:53:1896:-170.876,-15.9546,0 0/1:114:63,51:63:2264:51:1819:-129.672,0,-169.705 0/1:87:23,64:23:815:64:2274:-178.664,0,-47.4812 1/1:134:0,134:0:0:134:4763:-428.808,-40.338,0 1/1:52:0,52:0:0:52:1860:-167.675,-15.6536,0 chr05 2039027 . C T 16527.9 PASS AB=0.443223;ABP=48.8737;AC=13;AF=0.309524;AN=42;AO=920;CIGAR=1X;DP=3353;DPB=3353;DPRA=0.931682;EPP=1923.36;EPPR=5109.57;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.937;MQMR=59.9988;NS=21;NUMALT=1;ODDS=6.2008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32921;QR=86935;RO=2431;RPL=911;RPP=1923.36;RPPR=5109.57;RPR=9;RUN=1;SAF=0;SAP=2000.76;SAR=920;SRF=0;SRP=5281.86;SRR=2431;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:186:185,1:185:6609:1:27:0,-53.2918,-592.19 0/0:166:166,0:166:5940:0:0:0,-49.971,-534.706 0/1:161:89,72:89:3192:72:2571:-183.173,0,-239.037 0/0:154:154,0:154:5508:0:0:0,-46.3586,-495.847 0/1:306:132,174:132:4724:174:6209:-466.755,0,-333.204 0/1:143:75,68:75:2688:68:2433:-176.176,0,-199.117 0/0:301:301,0:301:10769:0:0:0,-90.61,-969.111 1/1:191:0,191:0:0:191:6844:-616.028,-57.4967,0 0/1:296:209,87:209:7451:87:3118:-191.741,0,-581.528 0/1:24:9,14:9:320:14:500:-38.0482,0,-21.8593 0/1:23:19,4:19:684:4:140:-6.02089,0,-54.9666 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.541 0/0:328:328,0:328:11721:0:0:0,-98.7378,-1054.76 0/1:148:89,59:89:3192:59:2112:-145.777,0,-242.951 0/1:194:93,100:93:3310:100:3579:-263.859,0,-239.658 0/1:108:52,56:52:1864:56:2004:-148.122,0,-135.528 0/0:100:100,0:100:3553:0:0:0,-30.103,-319.975 0/1:153:84,69:84:2990:69:2484:-177.751,0,-223.274 0/1:82:59,23:59:2124:23:828:-50.1597,0,-166.744 0/0:167:165,2:165:5920:2:72:0,-43.4353,-526.07 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.83 chr05 2039035 . T C 15676.3 PASS AB=0.436628;ABP=60.5313;AC=13;AF=0.309524;AN=42;AO=908;CIGAR=1X;DP=3379;DPB=3379;DPRA=0.918556;EPP=1974.71;EPPR=5325.38;GTI=1;LEN=1;MEANALT=1;MQM=59.967;MQMR=59.9854;NS=21;NUMALT=1;ODDS=7.78444;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32407;QR=88462;RO=2471;RPL=908;RPP=1974.71;RPPR=5325.38;RPR=0;RUN=1;SAF=0;SAP=1974.71;SAR=908;SRF=0;SRP=5368.72;SRR=2471;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:188:187,1:187:6693:1:36:0,-52.9954,-597.991 0/0:175:175,0:175:6272:0:0:0,-52.6802,-564.573 0/1:162:91,71:91:3276:71:2535:-179.634,0,-246.292 0/0:158:158,0:158:5675:0:0:0,-47.5627,-510.866 0/1:299:131,168:131:4700:168:5979:-448.21,0,-333.151 0/1:146:75,71:75:2655:71:2540:-184.901,0,-195.242 0/0:305:305,0:305:10917:0:0:0,-91.8141,-982.427 1/1:186:1,185:1:36:185:6603:-590.753,-52.3933,0 0/1:298:212,86:212:7560:86:3058:-185.741,0,-590.729 0/1:24:10,14:10:341:14:504:-38.4687,0,-23.793 0/1:22:18,4:18:644:4:140:-6.32192,0,-51.6679 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 0/0:331:331,0:331:11820:0:0:0,-99.6409,-1063.66 0/1:151:93,58:93:3344:58:2080:-141.995,0,-255.72 0/1:199:98,101:98:3516:101:3621:-266.188,0,-256.744 0/1:108:54,54:54:1936:54:1919:-140.475,0,-142.005 0/0:100:100,0:100:3588:0:0:0,-30.103,-323.126 0/1:154:85,69:85:3048:69:2460:-175.292,0,-228.191 0/1:86:62,24:62:2228:24:860:-51.8333,0,-174.895 0/0:165:163,2:163:5837:2:72:0,-42.8332,-518.603 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 chr05 2039323 . T C 7739.15 PASS AB=0.47541;ABP=7.17526;AC=13;AF=0.309524;AN=42;AO=453;CIGAR=1X;DP=1301;DPB=1301;DPRA=1.4476;EPP=986.687;EPPR=1842.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9845;MQMR=59.987;NS=21;NUMALT=1;ODDS=6.86664;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16110;QR=30177;RO=847;RPL=453;RPP=986.687;RPPR=1842.25;RPR=0;RUN=1;SAF=453;SAP=986.687;SAR=0;SRF=847;SRP=1842.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:60,2:60:2137:2:72:0,-11.8271,-185.759 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 0/1:76:37,39:37:1319:39:1396:-103.061,0,-96.1329 0/0:44:43,0:43:1540:0:0:0,-12.9443,-138.65 0/1:101:52,49:52:1864:49:1745:-126.927,0,-137.635 0/1:50:20,30:20:720:30:1068:-81.3806,0,-50.0773 0/0:93:93,0:93:3303:0:0:0,-27.9958,-297.488 1/1:73:0,73:0:0:73:2586:-232.989,-21.9752,0 0/1:78:36,42:36:1296:42:1502:-111.994,0,-93.4636 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/0:55:55,0:55:1951:0:0:0,-16.5566,-175.865 0/1:63:36,27:36:1288:27:950:-66.8492,0,-97.2587 0/1:112:56,56:56:2004:56:2003:-146.827,0,-146.918 0/1:50:27,23:27:964:23:806:-57.8058,0,-72.0253 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.815 0/1:175:87,88:87:3094:88:3122:-228.527,0,-226.008 0/1:71:55,16:55:1942:16:572:-30.4403,0,-153.682 0/0:39:38,1:38:1317:1:36:0,-8.14189,-115.226 0/0:29:29,0:29:1022:0:0:0,-8.72987,-92.2909 chr05 2040757 . CCAGCAGA TCCCCAGA,CCCCCAGA 37010.4 PASS AB=0.524242,0.463636;ABP=8.06391,14.3809;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1208,499;CIGAR=1X1M2X4M,2M2X4M;DP=1729;DPB=1728;DPRA=2.05854,1.10781;EPP=2430.18,960.203;EPPR=0;GTI=1;LEN=8,2;MEANALT=2.45,2.91667;MQM=59.5844,59.9459;MQMR=0;NS=21;NUMALT=2;ODDS=1.9105;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42584,17478;QR=0;RO=0;RPL=23,15;RPP=2430.18,960.203;RPPR=0;RPR=1185,484;RUN=1,1;SAF=1208,499;SAP=2626.15,1086.58;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,85,0:0:0:85,0:3018,0:-271.277,-25.5876,0,-271.277,-25.5876,-271.277 1/1:80:0,80,0:0:0:80,0:2807,0:-252.785,-24.0824,0,-252.785,-24.0824,-252.785 1/2:87:0,54,31:0:0:54,31:1912,1081:-243.729,-87.9848,-71.7292,-155.815,0,-146.483 1/1:59:0,58,0:0:0:58,0:2016,0:-181.454,-17.4597,0,-181.454,-17.4597,-181.454 1/2:112:0,43,68:0:0:43,68:1504,2396:-317.481,-195.137,-182.192,-122.403,0,-101.933 1/2:74:0,29,44:0:0:29,44:1023,1527:-207.415,-124.113,-115.384,-83.2935,0,-70.0482 1/1:137:0,134,0:0:0:134,0:4758,0:-428.108,-40.338,0,-428.108,-40.338,-428.108 2/2:41:0,0,40:0:0:0,40:0,1394:-125.395,-125.395,-125.395,-12.0412,-12.0412,0 1/2:119:0,67,47:0:0:67,47:2345,1673:-327.165,-136.392,-116.223,-190.809,0,-176.661 1/2:18:0,8,10:0:0:8,10:288,347:-52.05,-28.5495,-26.1413,-23.8545,0,-20.8442 1/2:6:0,5,1:0:0:5,1:179,36:-17.893,-3.29724,-1.79209,-14.9552,0,-14.6542 1/1:39:0,39,0:0:0:39,0:1384,0:-124.85,-11.7402,0,-124.85,-11.7402,-124.85 1/1:93:0,93,0:0:0:93,0:3284,0:-295.772,-27.9958,0,-295.772,-27.9958,-295.772 1/2:93:0,54,39:0:0:54,39:1902,1360:-265.715,-110.954,-94.6988,-155.111,0,-143.371 1/2:218:0,121,96:0:0:121,96:4272,3330:-618.563,-270.679,-234.255,-347.894,0,-318.995 1/2:33:0,19,14:0:0:19,14:664,498:-94.945,-40.9363,-35.2167,-54.3616,0,-50.1472 1/1:48:0,45,0:0:0:45,0:1590,0:-142.998,-13.5464,0,-142.998,-13.5464,-142.998 1/2:170:0,82,86:0:0:82,86:2873,3034:-480.854,-247.112,-222.427,-233.807,0,-207.918 1/2:60:0,37,23:0:0:37,23:1304,802:-171.737,-65.5731,-54.435,-106.513,0,-99.5897 1/1:96:0,96,0:0:0:96,0:3375,0:-303.955,-28.8989,0,-303.955,-28.8989,-303.955 1/1:59:0,59,0:0:0:59,0:2086,0:-187.806,-17.7608,0,-187.806,-17.7608,-187.806 chr05 2140228 . A G 2481.36 PASS AB=0.455378;ABP=18.1261;AC=13;AF=0.309524;AN=42;AO=484;CIGAR=1X;DP=1504;DPB=1504;DPRA=1.70467;EPP=1054;EPPR=2157.53;GTI=0;LEN=1;MEANALT=1;MQM=22.7087;MQMR=22.5108;NS=21;NUMALT=1;ODDS=0.09242;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17059;QR=36375;RO=1020;RPL=0;RPP=1054;RPPR=2157.53;RPR=484;RUN=1;SAF=0;SAP=1054;SAR=484;SRF=0;SRP=2217.91;SRR=1020;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:61:58,3:58:2073:3:108:0,-11.982,-114.309 0/0:47:47,0:47:1671:0:0:0,-14.1484,-84.2443 0/1:56:36,20:36:1292:20:716:-24.5327,0,-56.3078 0/0:62:61,1:61:2183:1:36:0,-16.385,-122.92 0/1:221:132,89:132:4698:89:3126:-115.741,0,-202.277 0/1:52:30,22:30:1071:22:769:-23.6876,0,-39.6497 0/0:78:76,2:76:2728:2:72:0,-19.7006,-133.911 1/1:79:0,79:0:0:79:2798:-147.948,-23.7814,0 0/1:165:76,89:76:2711:89:3134:-146.11,0,-117.847 0/1:8:3,5:3:108:5:180:-7.19005,0,-3.4342 0/1:7:5,2:5:180:2:72:-1.67252,0,-7.04372 0/0:45:45,0:45:1608:0:0:0,-13.5463,-85.5358 0/0:70:70,0:70:2486:0:0:0,-21.0721,-143.115 0/1:80:40,40:40:1414:40:1423:-57.6715,0,-57.9068 0/1:112:66,46:66:2354:46:1640:-60.4019,0,-100.46 0/1:34:14,20:14:504:20:689:-33.5488,0,-21.0947 0/0:39:39,0:39:1372:0:0:0,-11.7402,-86.6416 0/1:75:30,45:30:1067:45:1570:-61.6197,0,-33.8764 0/1:64:44,20:44:1567:20:690:-21.5017,0,-70.8751 0/0:117:116,1:116:4160:1:36:0,-33.1339,-218.177 0/0:32:32,0:32:1128:0:0:0,-9.63296,-57.4069 chr05 2140245 . AACAACC GAAAACA,GAAAACC 21004.4 PASS AB=0.545045,0.448198;ABP=18.6606,23.7078;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1030,487;CIGAR=1X1M1X3M1X,1X1M1X4M;DP=1523;DPB=1522.29;DPRA=0.878659,1.72142;EPP=114.535,118.589;EPPR=0;GTI=0;LEN=7,7;MEANALT=1.95,2.1875;MQM=22.268,22.6797;MQMR=0;NS=21;NUMALT=2;ODDS=2.44716;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36464,11045;QR=0;RO=0;RPL=630,324;RPP=114.535,118.589;RPPR=0;RPR=400,163;RUN=1,1;SAF=0,0;SAP=2239.63,1060.52;SAR=1030,487;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,57,3:0:0:57,3:1991,69:-115.773,-17.1587,0,-111.277,-12.4616,-110.374 1/1:47:0,47,0:0:0:47,0:1662,0:-84.1669,-14.1484,0,-84.1669,-14.1484,-84.1669 1/2:57:0,38,19:0:0:38,19:1340,437:-94.1383,-28.6815,-17.2423,-65.6651,0,-59.9455 1/1:64:0,63,1:0:0:63,1:2248,23:-129.124,-18.9649,0,-127.626,-17.2659,-127.325 1/2:223:0,133,88:0:0:133,88:4707,2018:-362.255,-131.317,-91.2802,-230.89,0,-204.4 1/2:51:0,29,22:0:0:29,22:1022,440:-70.3563,-27.2302,-18.5003,-43.3086,0,-36.6859 1/1:79:0,77,2:0:0:77,2:2713,40:-137.523,-23.1793,0,-135.063,-20.5492,-134.461 2/2:82:0,0,82:0:0:0,82:0,1718:-132.713,-132.713,-132.713,-24.6845,-24.6845,0 1/2:170:0,79,91:0:0:79,91:2800,2265:-302.045,-152.079,-128.298,-150.198,0,-122.804 1/2:9:0,4,5:0:0:4,5:136,105:-13.0391,-6.77806,-5.57394,-6.4561,0,-4.95095 1/2:8:0,6,2:0:0:6,2:214,40:-11.5824,-2.63012,-0.823939,-9.12954,0,-8.52748 1/1:45:0,45,0:0:0:45,0:1599,0:-85.4989,-13.5464,0,-85.4989,-13.5464,-85.4989 1/1:71:0,71,0:0:0:71,0:2489,0:-145.268,-21.3731,0,-145.268,-21.3731,-145.268 1/2:82:0,42,40:0:0:42,40:1494,916:-133.15,-59.8011,-47.1578,-73.5618,0,-61.5206 1/2:112:0,63,46:0:0:63,46:2244,1054:-178.025,-68.5873,-49.6224,-109.44,0,-95.5924 1/2:35:0,14,20:0:0:14,20:501,496:-60.0641,-33.2117,-28.9973,-26.8655,0,-20.8449 1/1:39:0,39,0:0:0:39,0:1376,0:-86.0164,-11.7402,0,-86.0164,-11.7402,-86.0164 1/2:77:0,32,45:0:0:32,45:1125,945:-109.885,-59.562,-49.929,-50.5191,0,-36.9727 1/2:64:0,44,20:0:0:44,20:1579,458:-106.82,-30.0001,-16.7547,-77.0276,0,-71.007 1/1:116:0,115,1:0:0:115,1:4089,21:-215.305,-34.6185,0,-213.986,-33.1188,-213.685 1/1:32:0,32,0:0:0:32,0:1135,0:-57.4244,-9.63296,0,-57.4244,-9.63296,-57.4244 chr05 2160837 . TT CC,TC 25345.7 PASS AB=0.551527,0.446565;ABP=15.0943,16.006;AC=29,13;AF=0.690476,0.309524;AN=42;AO=673,280;CIGAR=2X,1M1X;DP=955;DPB=955;DPRA=1.01111,1.38357;EPP=3.03934,6.1124;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.7,2;MQM=59.9792,59.9929;MQMR=0;NS=21;NUMALT=2;ODDS=6.01165;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23466,9934;QR=0;RO=0;RPL=0,0;RPP=1464.41,611.023;RPPR=0;RPR=673,280;RUN=1,1;SAF=338,130;SAP=3.03934,6.1124;SAR=335,150;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,32,0:0:0:32,0:1115,0:-100.402,-9.63296,0,-100.402,-9.63296,-100.402 1/1:41:0,41,0:0:0:41,0:1466,0:-132.237,-12.3422,0,-132.237,-12.3422,-132.237 1/2:16:0,11,5:0:0:11,5:363,180:-44.373,-15.0469,-11.7356,-29.6766,0,-28.1714 1/1:50:0,50,0:0:0:50,0:1708,0:-153.998,-15.0515,0,-153.998,-15.0515,-153.998 1/2:62:0,40,22:0:0:40,22:1393,779:-177.081,-63.8094,-51.7682,-113.624,0,-107.001 1/2:43:0,16,27:0:0:16,27:574,964:-125.769,-78.949,-74.1325,-47.1778,0,-39.05 1/1:52:0,52,0:0:0:52,0:1840,0:-165.879,-15.6536,0,-165.879,-15.6536,-165.879 2/2:45:0,0,45:0:0:0,45:0,1592:-143.568,-143.568,-143.568,-13.5464,-13.5464,0 1/2:71:0,39,32:0:0:39,32:1368,1128:-203.519,-92.1939,-80.4537,-111.677,0,-102.044 1/2:7:0,3,4:0:0:3,4:104,144:-20.5542,-12.1095,-11.2064,-8.79692,0,-7.5928 1/2:4:0,1,3:0:0:1,3:35,108:-12.0173,-9.17208,-8.87105,-3.1976,0,-2.29451 1/1:16:0,16,0:0:0:16,0:572,0:-51.8136,-4.81648,0,-51.8136,-4.81648,-51.8136 1/1:43:0,43,0:0:0:43,0:1510,0:-136.191,-12.9443,0,-136.191,-12.9443,-136.191 1/2:49:0,23,26:0:0:23,26:784,909:-137.901,-74.2966,-67.3729,-63.9489,0,-56.1221 1/2:39:0,24,15:0:0:24,15:840,540:-112.757,-44.4211,-37.1964,-68.6921,0,-64.1767 1/2:24:0,13,11:0:0:13,11:461,396:-70.2266,-32.6714,-28.758,-37.9125,0,-34.6012 1/1:24:0,24,0:0:0:24,0:854,0:-77.1803,-7.22472,0,-77.1803,-7.22472,-77.1803 1/2:114:0,54,59:0:0:54,59:1824,2100:-319.087,-171.256,-155,-147.925,0,-130.164 1/2:95:0,65,30:0:0:65,30:2247,1058:-269.069,-86.4987,-66.9317,-182.921,0,-173.89 1/1:35:0,35,0:0:0:35,0:1248,0:-112.626,-10.5361,0,-112.626,-10.5361,-112.626 1/1:92:0,91,1:0:0:91,1:3160,36:-284.268,-27.3937,0,-281.331,-24.0965,-281.03 chr05 2218638 . G A 5350.37 PASS AB=0.421304;ABP=36.8459;AC=14;AF=0.333333;AN=42;AO=319;CIGAR=1X;DP=1248;DPB=1248;DPRA=0.743907;EPP=695.71;EPPR=2015.97;GTI=3;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9946;NS=21;NUMALT=1;ODDS=4.51308;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11415;QR=33144;RO=927;RPL=0;RPP=695.71;RPPR=2015.97;RPR=319;RUN=1;SAF=319;SAP=695.71;SAR=0;SRF=927;SRP=2015.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:103,0:103:3700:0:0:0,-31.0061,-333.201 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/1:41:19,22:19:676:22:792:-59.2634,0,-48.8258 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 0/1:133:77,56:77:2730:56:1994:-139.696,0,-205.904 0/1:43:28,15:28:1008:15:521:-34.272,0,-78.0921 0/0:74:74,0:74:2636:0:0:0,-22.2762,-237.488 1/1:54:0,54:0:0:54:1940:-174.876,-16.2556,0 0/1:76:34,42:34:1220:42:1508:-113.136,0,-87.2285 0/1:11:8,3:8:284:3:108:-6.76384,0,-22.592 0/1:5:4,1:4:144:1:32:-1.69416,0,-11.8085 0/1:20:18,2:18:644:2:72:-0.816123,0,-52.27 0/0:126:126,0:126:4505:0:0:0,-37.9298,-405.615 0/1:42:25,17:25:896:17:612:-42.7702,0,-68.3171 0/1:85:35,50:35:1252:50:1792:-135.975,0,-87.3975 0/1:44:28,16:28:1008:16:568:-38.2065,0,-77.791 0/0:31:31,0:31:1097:0:0:0,-9.33193,-99.038 0/1:62:27,33:27:960:33:1188:-88.807,0,-68.295 0/1:67:59,8:59:2120:8:288:-6.0984,0,-170.899 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.282 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 chr05 2232466 . A G 17871.9 PASS AB=0.543933;ABP=15.0306;AC=29;AF=0.690476;AN=42;AO=879;CIGAR=1X;DP=1238;DPB=1238;DPRA=2.08448;EPP=1903.06;EPPR=782.569;GTI=0;LEN=1;MEANALT=1;MQM=59.967;MQMR=60;NS=21;NUMALT=1;ODDS=8.21267;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31293;QR=12875;RO=359;RPL=878;RPP=1903.06;RPPR=782.569;RPR=1;RUN=1;SAF=0;SAP=1911.73;SAR=879;SRF=0;SRP=782.569;SRR=359;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:1,68:1:36:68:2394:-212.116,-17.1728,0 1/1:35:0,35:0:0:35:1247:-112.534,-10.5361,0 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1663 1/1:57:0,57:0:0:57:2031:-183.059,-17.1587,0 0/1:127:50,77:50:1788:77:2756:-210.049,0,-122.972 0/1:66:21,45:21:747:45:1620:-126.222,0,-47.6863 1/1:106:0,106:0:0:106:3775:-339.95,-31.9092,0 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/1:118:67,51:67:2412:51:1827:-129.19,0,-181.814 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 1/1:27:0,27:0:0:27:949:-85.7236,-8.12781,0 1/1:69:0,69:0:0:69:2455:-221.204,-20.7711,0 0/1:68:21,47:21:752:47:1672:-130.297,0,-47.5362 0/1:126:55,71:55:1972:71:2513:-188.493,0,-139.825 0/1:63:35,28:35:1260:28:1008:-72.0715,0,-94.7406 1/1:49:0,49:0:0:49:1748:-157.599,-14.7505,0 0/1:51:31,20:31:1112:20:691:-47.1578,0,-85.0388 0/1:63:22,41:22:784:41:1456:-112.371,0,-51.919 1/1:35:2,33:2:72:33:1179:-99.5805,-3.69933,0 1/1:45:0,45:0:0:45:1612:-145.362,-13.5464,0 chr05 2232480 . CTT CTG,TTG 26134.9 PASS AB=0.540278,0.458333;ABP=13.1559,13.8677;AC=29,13;AF=0.690476,0.309524;AN=42;AO=870,363;CIGAR=2M1X,1X1M1X;DP=1234;DPB=1234;DPRA=2.00667,1.11942;EPP=1892.19,791.255;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.7,2;MQM=59.9667,59.9504;MQMR=0;NS=21;NUMALT=2;ODDS=7.60834;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31187,12916;QR=0;RO=0;RPL=870,363;RPP=1892.19,791.255;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1892.19,791.255;SAR=870,363;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,68,1:0:0:68,1:2421,36:-217.785,-20.47,0,-214.847,-17.1728,-214.546 1/1:33:0,33,0:0:0:33,0:1184,0:-106.868,-9.93399,0,-106.868,-9.93399,-106.868 1/2:16:0,5,11:0:0:5,11:180,385:-46.3636,-31.6734,-30.1682,-15.0469,0,-11.7356 1/1:56:0,56,0:0:0:56,0:2012,0:-181.351,-16.8577,0,-181.351,-16.8577,-181.351 1/2:128:0,76,51:0:0:76,51:2725,1813:-369.908,-147.652,-124.774,-222.253,0,-206.9 1/2:68:0,46,22:0:0:46,22:1652,787:-199.295,-64.5321,-50.6847,-135.121,0,-128.498 1/1:105:0,105,0:0:0:105,0:3772,0:-339.678,-31.6082,0,-339.678,-31.6082,-339.678 2/2:30:0,0,30:0:0:0,30:0,1067:-96.3416,-96.3416,-96.3416,-9.0309,-9.0309,0 1/2:117:0,51,66:0:0:51,66:1828,2354:-341.342,-192.251,-176.899,-149.448,0,-129.58 1/2:9:0,2,7:0:0:2,7:72,252:-26.7966,-20.9217,-20.3197,-6.23466,0,-4.12745 1/2:9:0,3,6:0:0:3,6:108,214:-26.6149,-17.8016,-16.8985,-9.17208,0,-7.3659 1/1:28:0,28,0:0:0:28,0:1000,0:-90.3154,-8.42884,0,-90.3154,-8.42884,-90.3154 1/1:69:0,69,0:0:0:69,0:2468,0:-222.374,-20.7711,0,-222.374,-20.7711,-222.374 1/2:67:0,47,20:0:0:47,20:1669,689:-192.307,-56.3077,-42.1593,-136.347,0,-130.326 1/2:127:0,70,57:0:0:70,57:2516,2045:-372.424,-167.163,-146.091,-205.619,0,-188.461 1/2:65:0,28,37:0:0:28,37:1004,1311:-189.044,-107.153,-98.7246,-82.247,0,-71.1089 1/1:47:0,47,0:0:0:47,0:1692,0:-152.56,-14.1484,0,-152.56,-14.1484,-152.56 1/2:50:0,19,31:0:0:19,31:676,1107:-145.701,-90.6082,-84.8887,-55.4484,0,-46.1165 1/2:64:0,42,22:0:0:42,22:1512,784:-187.636,-64.2617,-51.6184,-123.731,0,-117.109 1/1:34:0,32,2:0:0:32,2:1152,72:-103.63,-9.63296,0,-97.7555,-3.3983,-97.1534 1/1:43:0,43,0:0:0:43,0:1544,0:-139.245,-12.9443,0,-139.245,-12.9443,-139.245 chr05 2233785 . A C 10571.1 PASS AB=0.474194;ABP=8.38995;AC=13;AF=0.309524;AN=42;AO=618;CIGAR=1X;DP=1778;DPB=1778;DPRA=1.27109;EPP=1344.98;EPPR=2521.92;GTI=0;LEN=1;MEANALT=1;MQM=50.1958;MQMR=59.5112;NS=21;NUMALT=1;ODDS=1.1249;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21500;QR=41428;RO=1160;RPL=618;RPP=1344.98;RPPR=2521.92;RPR=0;RUN=1;SAF=618;SAP=1344.98;SAR=0;SRF=1160;SRP=2521.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:91,3:91:3243:3:100:0,-18.9862,-282.506 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4005 0/1:142:67,75:67:2388:75:2596:-190.051,0,-172.34 0/0:82:82,0:82:2932:0:0:0,-24.6845,-264.083 0/1:133:70,63:70:2504:63:2163:-153.138,0,-185.375 0/1:139:77,62:77:2752:62:2197:-155.021,0,-205.867 0/0:125:125,0:125:4448:0:0:0,-37.6287,-400.346 1/1:174:0,174:0:0:174:6029:-537.978,-52.3792,0 0/1:183:95,88:95:3400:88:3066:-220.449,0,-251.084 0/1:36:19,17:19:665:17:585:-41.8731,0,-49.318 0/1:6:2,4:2:72:4:144:-11.4511,0,-5.03054 0/0:57:57,0:57:2036:0:0:0,-17.1587,-182.575 0/0:142:142,0:142:5084:0:0:0,-42.7463,-457.65 0/1:104:58,46:58:2068:46:1602:-112.726,0,-154.882 0/1:75:38,37:38:1364:37:1311:-95.2652,0,-100.425 0/1:23:7,16:7:252:16:550:-42.8369,0,-16.1006 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/1:47:22,25:22:788:25:869:-63.5014,0,-57.0918 0/1:42:34,8:34:1224:8:288:-13.5381,0,-97.8238 0/0:106:106,0:106:3772:0:0:0,-31.9092,-339.596 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.3748 chr05 2285397 . T G,C 15328.2 PASS AB=0.394515,0.605485;ABP=48.822,48.822;AC=30,12;AF=0.714286,0.285714;AN=42;AO=425,319;CIGAR=1X,1X;DP=744;DPB=744;DPRA=1.15,1.75224;EPP=925.886,695.71;EPPR=0;GTI=3;LEN=1,1;MEANALT=1.55,1.91667;MQM=59.9788,59.9279;MQMR=0;NS=21;NUMALT=2;ODDS=0.537928;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=15083,11321;QR=0;RO=0;RPL=425,319;RPP=925.886,695.71;RPPR=0;RPR=0,0;RUN=1,1;SAF=425,319;SAP=925.886,695.71;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:27:0,27,0:0:0:27,0:937,0:-84.6408,-8.12781,0,-84.6408,-8.12781,-84.6408 1/1:26:0,26,0:0:0:26,0:932,0:-84.1989,-7.82678,0,-84.1989,-7.82678,-84.1989 1/2:32:0,17,15:0:0:17,15:604,536:-93.2762,-44.0594,-38.9419,-49.5731,0,-45.0576 1/1:16:0,16,0:0:0:16,0:567,0:-51.3607,-4.81648,0,-51.3607,-4.81648,-51.3607 1/2:94:0,32,62:0:0:32,62:1148,2219:-274.948,-181.31,-171.677,-93.9969,0,-75.333 1/2:15:0,8,7:0:0:8,7:284,252:-44.0594,-20.9217,-18.5135,-23.4951,0,-21.3879 1/1:53:0,53,0:0:0:53,0:1878,0:-169.297,-15.9546,0,-169.297,-15.9546,-169.297 2/2:31:0,0,31:0:0:0,31:0,1105:-99.7601,-99.7601,-99.7601,-9.33193,-9.33193,0 1/2:63:0,26,37:0:0:26,37:924,1307:-182.089,-106.793,-98.9658,-75.6509,0,-64.5128 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:6:0,3,3:0:0:3,3:100,93:-15.8794,-7.77364,-6.87055,-8.42735,0,-7.52426 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:26:0,26,0:0:0:26,0:932,0:-84.1989,-7.82678,0,-84.1989,-7.82678,-84.1989 1/2:48:0,14,34:0:0:14,34:486,1192:-136.856,-97.3501,-93.1357,-39.8535,0,-29.6185 1/2:123:0,40,83:0:0:40,83:1419,2949:-356.231,-240.621,-228.579,-115.965,0,-90.98 1/2:20:0,4,16:0:0:4,16:140,568:-58.025,-46.6354,-45.4313,-11.7405,0,-6.92398 1/1:16:0,15,1:0:0:15,1:536,36:-48.2152,-4.51545,0,-45.2776,-1.21821,-44.9765 1/2:36:0,18,18:0:0:18,18:640,640:-104.666,-52.5108,-47.0922,-52.5108,0,-47.0922 1/2:37:0,25,12:0:0:25,12:888,424:-107.244,-34.8841,-27.3583,-72.7133,0,-69.1009 1/1:36:0,36,0:0:0:36,0:1276,0:-115.143,-10.8371,0,-115.143,-10.8371,-115.143 1/1:30:0,30,0:0:0:30,0:1068,0:-96.4321,-9.0309,0,-96.4321,-9.0309,-96.4321 chr05 2286115 . AGAG TGAA,TGAG 119560 PASS AB=0.507643,0.481899;ABP=4.27161,10.0855;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2954,1532;CIGAR=1X2M1X,1X3M;DP=4528;DPB=4529.5;DPRA=0.636061,1.63183;EPP=6417.54,3329.71;EPPR=9.52472;GTI=0;LEN=4,1;MEANALT=3.3,3.78571;MQM=59.6913,59.9752;MQMR=60;NS=21;NUMALT=2;ODDS=31.0487;PAIRED=0,0;PAIREDR=0;PAO=4,2;PQA=101.5,65.5;PQR=0;PRO=0;QA=102498,54498;QR=93;RO=3;RPL=1292,730;RPP=103.645,10.3582;RPPR=3.73412;RPR=1662,802;RUN=1,1;SAF=1292,730;SAP=103.645,10.3582;SAR=1662,802;SRF=2;SRP=3.73412;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:260:0,255,4:0:0:255,4:8838,144:-795.04,-76.7627,0,-783.29,-65.061,-782.086 1/1:178:0,176,0:0:0:176,0:6077,0:-546.722,-52.9813,0,-546.722,-52.9813,-546.722 1/2:198:0,100,96:0:0:100,96:3506,3436:-565.547,-280.253,-250.15,-285.346,0,-256.447 1/1:193:0,191,0:0:0:191,0:6618,0:-595.414,-57.4967,0,-595.414,-57.4967,-595.414 1/2:375:1,216,153:1:28:216,153:7450,5470:-1048.59,-443.847,-381.043,-602.883,0,-559.044 1/2:168:1,91,76:1:29:91,76:3134,2692:-471.274,-217.039,-191.953,-252.287,0,-231.717 1/1:390:1,383,1:1:36:383,1:13271,36:-1190.12,-112.355,0,-1187.49,-112.355,-1190.12 2/2:330:0,0,329:0:0:0,329:0,11693:-1051.84,-1051.84,-1051.84,-99.0389,-99.0389,0 1/2:377:0,184,186:0:0:184,186:6347,6633:-1056.32,-540.744,-485.355,-515.616,0,-459.624 1/2:33:0,18,15:0:0:18,15:616,536:-94.0219,-44.0594,-38.6408,-50.3127,0,-45.7973 1/2:20:0,9,11:0:0:9,11:317,396:-58.468,-32.6714,-29.9621,-26.1521,0,-22.8407 1/1:54:0,54,0:0:0:54,0:1901,0:-171.359,-16.2556,0,-171.359,-16.2556,-171.359 1/1:109:0,107,0:0:0:107,0:3700,0:-332.79,-32.2102,0,-332.79,-32.2102,-332.79 1/2:231:0,93,134:0:0:93,134:3220,4750:-648.704,-387.046,-359.05,-261.73,0,-221.392 1/2:504:0,254,249:0:0:254,249:8873,8863:-1444.2,-722.449,-645.987,-721.85,0,-646.894 1/2:189:0,95,91:0:0:95,91:3320,3244:-534.552,-264.482,-235.884,-270.117,0,-242.724 1/1:198:0,197,0:0:0:197,0:6897,0:-620.518,-59.3029,0,-620.518,-59.3029,-620.518 1/2:268:0,122,145:0:0:122,145:4270,5126:-764.975,-417.603,-380.878,-347.492,0,-303.843 1/2:123:0,80,42:0:0:80,42:2707,1479:-339.889,-120.449,-96.367,-219.475,0,-206.832 1/1:201:0,200,0:0:0:200,0:6938,0:-624.217,-60.206,0,-624.217,-60.206,-624.217 1/1:129:0,129,0:0:0:129,0:4498,0:-404.968,-38.8329,0,-404.968,-38.8329,-404.968 chr05 2307027 . G A 73338.6 PASS AB=0.570737;ABP=83.8057;AC=29;AF=0.690476;AN=42;AO=2730;CIGAR=1X;DP=3692;DPB=3692;DPRA=1.1258;EPP=5922.45;EPPR=2091.97;GTI=0;LEN=1;MEANALT=1;MQM=59.7271;MQMR=59.8087;NS=21;NUMALT=1;ODDS=1.49276;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=97560;QR=34068;RO=962;RPL=1246;RPP=48.0656;RPPR=33.3838;RPR=1484;RUN=1;SAF=1247;SAP=47.3115;SAR=1483;SRF=423;SRP=33.3838;SRR=539;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:305:2,303:2:72:303:10832:-967.921,-84.9774,0 1/1:171:2,169:2:72:169:6055:-537.846,-44.6394,0 0/1:179:98,81:98:3476:81:2888:-205.902,0,-259.159 1/1:233:1,232:1:36:232:8303:-743.614,-66.5417,0 0/1:398:159,239:159:5638:239:8549:-649.565,0,-387.733 0/1:158:55,103:55:1947:103:3667:-282.553,0,-127.914 1/1:172:1,171:1:36:171:6101:-545.529,-48.1789,0 0/0:157:157,0:157:5570:0:0:0,-47.2617,-501.33 0/1:296:136,160:136:4795:160:5689:-421.512,0,-342.577 0/1:34:18,16:18:631:16:563:-40.7356,0,-46.8807 0/1:8:4,4:4:136:4:144:-10.8593,0,-10.1673 1/1:56:0,56:0:0:56:1999:-180.182,-16.8577,0 1/1:291:0,291:0:0:291:10419:-937.582,-87.5997,0 0/1:211:87,124:87:3079:124:4435:-335.763,0,-213.767 0/1:224:91,133:91:3218:133:4749:-360.114,0,-222.39 0/1:114:56,58:56:1993:58:2080:-153.143,0,-145.308 1/1:124:0,124:0:0:124:4434:-399.179,-37.3277,0 0/1:116:55,61:55:1950:61:2180:-161.518,0,-140.855 0/1:121:39,82:39:1383:82:2944:-228.751,0,-88.3434 1/1:229:1,228:1:36:228:8125:-727.612,-65.3376,0 1/1:95:0,95:0:0:95:3404:-306.284,-28.5979,0 chr05 2307034 . A G 21303.2 PASS AB=0.426849;ABP=87.8334;AC=13;AF=0.309524;AN=42;AO=944;CIGAR=1X;DP=3640;DPB=3640;DPRA=1.2543;EPP=2052.88;EPPR=5852.96;GTI=0;LEN=1;MEANALT=1.125;MQM=59.8019;MQMR=59.745;NS=21;NUMALT=1;ODDS=3.10442;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33557;QR=96134;RO=2694;RPL=408;RPP=40.6982;RPPR=55.835;RPR=536;RUN=1;SAF=408;SAP=40.6982;SAR=536;SRF=1219;SRP=55.835;SRR=1475;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:298:296,2:296:10570:2:72:0,-82.8702,-944.358 0/0:168:168,0:168:6025:0:0:0,-50.573,-541.982 0/1:176:80,96:80:2867:96:3436:-256.462,0,-204.906 0/0:234:233,1:233:8315:1:36:0,-66.8427,-744.67 0/1:392:238,153:238:8481:153:5437:-371.556,0,-645.357 0/1:153:103,50:103:3656:50:1792:-115.443,0,-282.969 0/0:169:168,1:168:6016:1:36:0,-47.2758,-537.882 1/1:160:0,160:0:0:160:5649:-508.463,-48.1648,0 0/1:288:153,135:153:5459:135:4809:-346.246,0,-404.68 0/1:34:16,18:16:563:18:629:-46.6703,0,-40.7641 0/1:8:4,4:4:140:4:144:-10.9054,0,-10.4903 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.398 0/0:290:290,0:290:10321:0:0:0,-87.2987,-928.774 0/1:206:122,84:122:4367:84:2991:-207.368,0,-331.156 0/1:223:132,91:132:4687:91:3243:-224.916,0,-354.843 0/1:107:53,53:53:1900:53:1884:-137.567,0,-138.999 0/0:120:120,0:120:4274:0:0:0,-36.1236,-384.598 0/1:118:61,57:61:2192:57:2007:-145.379,0,-161.995 0/1:120:82,38:82:2948:38:1356:-86.2169,0,-229.412 0/0:228:227,1:227:8063:1:36:0,-65.0366,-721.896 0/0:96:96,0:96:3422:0:0:0,-28.8989,-307.936 chr05 2307047 . AC AT 30924.3 PASS AB=0.54175;ABP=18.2408;AC=29;AF=0.690476;AN=42;AO=1460;CIGAR=1M1X;DP=2013;DPB=2013;DPRA=1.1069;EPP=3112.85;EPPR=1162.83;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6281;MQMR=59.6545;NS=21;NUMALT=1;ODDS=4.37051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52264;QR=19358;RO=550;RPL=1454;RPP=3121.46;RPPR=1171.4;RPR=6;RUN=1;SAF=1;SAP=3164.68;SAR=1459;SRF=1;SRP=1188.65;SRR=549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:0,139:0:0:139:4963:-446.806,-41.8432,0 1/1:95:0,95:0:0:95:3397:-305.575,-28.5979,0 0/1:116:65,51:65:2304:51:1820:-129.153,0,-172.694 1/1:125:0,125:0:0:125:4492:-404.375,-37.6288,0 0/1:231:85,146:85:2993:146:5244:-402.531,0,-200.063 0/1:79:29,50:29:1019:50:1781:-136.621,0,-68.2292 1/1:113:0,113:0:0:113:4040:-363.757,-34.0164,0 0/0:87:87,0:87:3039:0:0:0,-26.1896,-273.648 0/1:166:86,80:86:3051:80:2872:-208.728,0,-224.821 0/1:17:9,8:9:309:8:288:-21.1499,0,-22.9956 0/1:6:3,3:3:108:3:108:-8.22255,0,-8.26899 1/1:23:0,23:0:0:23:828:-74.8426,-6.92369,0 1/1:157:0,157:0:0:157:5628:-506.6,-47.2617,0 0/1:90:44,46:44:1532:46:1648:-121.481,0,-111.048 0/1:103:50,53:50:1759:53:1896:-139.894,0,-127.539 0/1:60:32,28:32:1124:28:1008:-72.9652,0,-83.3878 1/1:72:0,72:0:0:72:2584:-232.698,-21.6742,0 0/1:64:31,33:31:1093:33:1188:-87.9339,0,-79.4115 0/1:74:27,47:27:955:47:1669:-128.202,0,-63.9886 1/1:138:1,137:1:36:137:4882:-435.705,-37.9439,0 1/1:58:1,54:1:36:54:1928:-170.001,-13.317,0 chr05 2307058 . ACG ACC,GCC 42296.5 PASS AB=0.544266,0.453722;ABP=19.9277,21.5006;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1451,538;CIGAR=2M1X,1X1M1X;DP=1992;DPB=1992;DPRA=1.10814,0.964314;EPP=3153.82,1171.26;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.7,2;MQM=59.6409,59.6264;MQMR=60;NS=21;NUMALT=2;ODDS=2.71004;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51737,18836;QR=21;RO=1;RPL=1451,538;RPP=3153.82,1171.26;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3153.82,1171.26;SAR=1451,538;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,136,0:0:0:136,0:4855,0:-437.085,-40.9401,0,-437.085,-40.9401,-437.085 1/1:94:0,94,0:0:0:94,0:3376,0:-303.789,-28.2968,0,-303.789,-28.2968,-303.789 1/2:115:0,50,65:0:0:50,65:1774,2307:-332.853,-188.319,-173.267,-144.889,0,-125.322 1/1:126:0,126,0:0:0:126,0:4501,0:-405.214,-37.9298,0,-405.214,-37.9298,-405.214 1/2:224:0,143,81:0:0:143,81:5123,2862:-651.218,-233.434,-190.387,-418.138,0,-393.755 1/2:78:1,48,28:1:21:48,28:1692,996:-216.983,-79.6134,-66.748,-136.153,0,-129.311 1/1:112:0,112,0:0:0:112,0:3986,0:-358.903,-33.7154,0,-358.903,-33.7154,-358.903 2/2:86:0,0,86:0:0:0,86:0,2935:-264.31,-264.31,-264.31,-25.8886,-25.8886,0 1/2:164:0,78,86:0:0:78,86:2796,3007:-472.938,-244.955,-221.475,-228.337,0,-202.448 1/2:17:0,8,9:0:0:8,9:288,304:-48.4582,-24.9483,-22.5401,-23.8592,0,-21.1499 1/2:6:0,3,3:0:0:3,3:108,103:-17.4815,-8.70651,-7.80342,-9.12564,0,-8.22255 1/1:23:0,23,0:0:0:23,0:819,0:-74.03,-6.92369,0,-74.03,-6.92369,-74.03 1/1:160:0,160,0:0:0:160,0:5670,0:-510.386,-48.1648,0,-510.386,-48.1648,-510.386 1/2:92:0,47,45:0:0:47,45:1687,1559:-264.57,-127.013,-112.865,-137.909,0,-124.362 1/2:106:0,56,50:0:0:56,50:1995,1773:-307.348,-144.756,-127.898,-162.948,0,-147.897 1/2:58:0,30,28:0:0:30,28:1076,986:-168.373,-80.6156,-71.5847,-88.1126,0,-79.6837 1/1:72:0,72,0:0:0:72,0:2547,0:-229.441,-21.6742,0,-229.441,-21.6742,-229.441 1/2:61:0,32,29:0:0:32,29:1135,1027:-176.454,-84.0123,-74.3794,-92.7963,0,-84.0664 1/2:73:0,46,27:0:0:46,27:1647,943:-211.356,-77.0556,-63.2083,-134.653,0,-126.525 1/1:136:0,135,1:0:0:135,1:4799,34:-431.689,-40.6391,0,-428.931,-37.5412,-428.63 1/1:53:0,52,0:0:0:52,0:1863,0:-167.417,-15.6536,0,-167.417,-15.6536,-167.417 chr05 2397593 . TA CC 12563.3 PASS AB=0.449556;ABP=30.3947;AC=13;AF=0.309524;AN=42;AO=730;CIGAR=2X;DP=2349;DPB=2349.5;DPRA=1.72579;EPP=1588.19;EPPR=3512.11;GTI=0;LEN=2;MEANALT=1.13333;MQM=59.7534;MQMR=59.9975;NS=21;NUMALT=1;ODDS=15.9647;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=25758;QR=57665;RO=1616;RPL=730;RPP=1588.19;RPPR=3512.11;RPR=0;RUN=1;SAF=0;SAP=1588.19;SAR=730;SRF=0;SRP=3512.11;SRR=1616;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:155:154,1:154:5511:1:36:0,-43.0614,-492.517 0/0:35:35,0:35:1258:0:0:0,-10.536,-113.525 0/1:129:62,66:62:2204:66:2325:-170.746,0,-159.879 0/0:84:84,0:84:2990:0:0:0,-25.2865,-269.331 0/1:190:89,100:89:3164:100:3488:-256.593,0,-227.729 0/1:99:58,41:58:2067:41:1436:-99.6748,0,-156.498 0/0:210:208,2:208:7444:2:72:0,-56.3796,-663.166 1/1:169:0,169:0:0:169:5980:-538.267,-50.8741,0 0/1:242:139,103:139:4951:103:3662:-256.918,0,-372.89 0/1:22:13,9:13:468:9:324:-22.8832,0,-35.837 0/1:8:4,4:4:144:4:140:-10.5363,0,-10.9054 0/0:33:33,0:33:1161:0:0:0,-9.93399,-104.795 0/0:143:143,0:143:5116:0:0:0,-43.0473,-460.579 0/1:137:83,54:83:2968:54:1908:-130.564,0,-226.113 0/1:130:70,60:70:2496:60:2124:-152.262,0,-185.759 0/1:60:29,31:29:1044:31:1088:-80.1649,0,-76.213 0/0:91:91,0:91:3242:0:0:0,-27.3937,-292 0/1:131:70,61:70:2497:61:2154:-154.692,0,-185.547 0/1:91:63,28:63:2255:28:987:-61.7487,0,-175.818 0/0:134:133,1:133:4732:1:34:0,-36.9391,-422.638 0/0:56:55,0:55:1953:0:0:0,-16.5566,-175.684 chr05 2433710 . 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CCATTA TCGTTG,TCGTTA 32097.9 PASS AB=0.498838,0.494191;ABP=3.02544,3.38875;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1081,666;CIGAR=1X1M1X2M1X,1X1M1X3M;DP=1758;DPB=1758;DPRA=3.08929,1.84896;EPP=2333.03,1431.89;EPPR=5.18177;GTI=0;LEN=6,6;MEANALT=2.1,2.61538;MQM=34.926,48.2117;MQMR=60;NS=21;NUMALT=2;ODDS=6.74589;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37867,23470;QR=35;RO=1;RPL=2,2;RPP=2333.03,1431.89;RPPR=5.18177;RPR=1079,664;RUN=1,1;SAF=1081,666;SAP=2350.37,1449.21;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42,0:0:0:42,0:1481,0:-121.747,-12.6433,0,-121.747,-12.6433,-121.747 1/1:25:0,25,0:0:0:25,0:885,0:-71.7656,-7.52575,0,-71.7656,-7.52575,-71.7656 1/2:29:0,18,11:0:0:18,11:640,394:-80.6155,-32.343,-26.9244,-48.6196,0,-45.3083 1/2:46:0,21,25:0:0:21,25:725,872:-124.513,-70.7285,-64.4069,-54.1159,0,-46.5901 1/2:54:0,36,17:0:0:36,17:1245,602:-141.031,-48.4331,-37.596,-92.6349,0,-87.5174 1/2:31:0,17,13:0:0:17,13:586,468:-79.5742,-38.0867,-32.9691,-41.5842,0,-37.6708 1/1:43:1,42,0:1:35:42,0:1459,0:-115.005,-9.44566,0,-115.306,-12.6433,-118.155 2/2:28:0,0,28:0:0:0,28:0,992:-88.979,-88.979,-88.979,-8.42884,-8.42884,0 1/2:72:0,34,38:0:0:34,38:1199,1319:-196.553,-106.686,-96.4512,-90.2021,0,-78.763 1/2:126:0,73,53:0:0:73,53:2575,1849:-337.228,-149.162,-127.186,-188.401,0,-172.446 1/2:172:0,88,84:0:0:88,84:3044,2950:-456.771,-238.462,-211.971,-218.638,0,-193.352 1/1:216:0,216,0:0:0:216,0:7591,0:-612.098,-65.0225,0,-612.098,-65.0225,-612.098 1/1:29:0,29,0:0:0:29,0:1012,0:-84.6977,-8.72987,0,-84.6977,-8.72987,-84.6977 1/2:43:0,20,22:0:0:20,22:699,772:-114.436,-62.2801,-56.2595,-52.1345,0,-45.5119 1/2:57:0,22,34:0:0:22,34:759,1206:-154.248,-97.8872,-91.2645,-56.4422,0,-46.2072 1/2:15:0,5,10:0:0:5,10:179,341:-41.5017,-27.6615,-26.1563,-14.1798,0,-11.1695 1/1:23:0,23,0:0:0:23,0:780,0:-67.4691,-6.92369,0,-67.4691,-6.92369,-67.4691 1/2:618:0,293,320:0:0:293,320:10288,11317:-1654.47,-912.634,-824.432,-741.89,0,-645.56 1/2:28:0,17,11:0:0:17,11:597,388:-76.7413,-31.8127,-26.6952,-45.2703,0,-41.959 1/1:40:0,39,0:0:0:39,0:1380,0:-112.055,-11.7402,0,-112.055,-11.7402,-112.055 1/1:21:0,21,0:0:0:21,0:743,0:-61.084,-6.32163,0,-61.084,-6.32163,-61.084 chr05 2949179 . 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T A 15197.4 PASS AB=0.50947;ABP=3.83283;AC=12;AF=0.285714;AN=42;AO=676;CIGAR=1X;DP=1817;DPB=1817;DPRA=1.95387;EPP=457.144;EPPR=974.07;GTI=2;LEN=1;MEANALT=1;MQM=52.7574;MQMR=59.9395;NS=21;NUMALT=1;ODDS=3.43117;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24238;QR=40518;RO=1140;RPL=526;RPP=457.144;RPPR=974.07;RPR=150;RUN=1;SAF=676;SAP=1470.93;SAR=0;SRF=1140;SRP=2478.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:98:98,0:98:3491:0:0:0,-29.5009,-314.402 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/1:110:52,58:52:1833:58:2088:-154.342,0,-132.135 0/1:94:36,58:36:1261:58:2065:-156.836,0,-85.4936 0/1:207:97,110:97:3410:110:3952:-291.143,0,-244.793 0/1:58:36,22:36:1283:22:788:-52.7669,0,-98.3129 0/0:109:109,0:109:3851:0:0:0,-32.8123,-346.785 1/1:137:0,137:0:0:137:4905:-439.704,-41.2411,0 0/1:227:115,112:115:4090:112:4012:-292.65,0,-299.889 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/0:120:119,1:119:4239:1:36:0,-32.5304,-378.096 0/1:69:36,33:36:1292:33:1188:-85.1959,0,-95.8127 0/1:94:39,55:39:1376:55:1972:-147.54,0,-95.8418 0/1:75:38,37:38:1360:37:1328:-96.7833,0,-100.123 0/0:60:60,0:60:2126:0:0:0,-18.0618,-191.607 0/1:67:37,30:37:1324:30:1076:-76.4904,0,-99.2931 0/1:55:32,23:32:1135:23:828:-58.1397,0,-85.9014 0/0:86:86,0:86:3076:0:0:0,-25.8886,-277.023 0/0:49:48,0:48:1715:0:0:0,-14.4494,-154.275 chr05 2986365 . TATAAA CATAAG,CAAAAG 37480 PASS AB=0.485308,0.5109;ABP=4.9883,4.09912;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1123,679;CIGAR=1X4M1X,1X1M1X2M1X;DP=1808;DPB=1808.17;DPRA=0.605072,1.98939;EPP=2441.57,1477.44;EPPR=0;GTI=2;LEN=6,6;MEANALT=1.85,2.25;MQM=59.9368,52.8159;MQMR=0;NS=21;NUMALT=2;ODDS=3.48279;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=39660,24040;QR=0;RO=0;RPL=1123,679;RPP=2441.57,1477.44;RPPR=0;RPR=0,0;RUN=1,1;SAF=1123,679;SAP=2441.57,1477.44;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:95:0,94,0:0:0:94,0:3357,0:-302.074,-28.2968,0,-302.074,-28.2968,-302.074 1/1:58:0,57,0:0:0:57,0:1991,0:-179.099,-17.1587,0,-179.099,-17.1587,-179.099 1/2:109:0,51,57:0:0:51,57:1819,2006:-311.168,-162.884,-147.531,-148.321,0,-131.163 1/2:92:0,34,58:0:0:34,58:1178,2054:-262.409,-166.672,-156.437,-96.0853,0,-78.6255 1/2:208:0,98,110:0:0:98,110:3445,3878:-594.558,-314.232,-284.732,-280.677,0,-247.563 1/2:59:0,36,23:0:0:36,23:1292,813:-170.996,-65.6019,-54.7648,-105.747,0,-98.823 1/1:104:0,104,0:0:0:104,0:3694,0:-332.661,-31.3071,0,-332.661,-31.3071,-332.661 2/2:138:0,0,138:0:0:0,138:0,4899:-439.307,-439.307,-439.307,-41.5421,-41.5421,0 1/2:230:0,115,115:0:0:115,115:4111,4078:-667.489,-332.319,-297.701,-335.525,0,-300.906 1/1:6:0,6,0:0:0:6,0:201,0:-18.417,-1.80618,0,-18.417,-1.80618,-18.417 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:34:0,34,0:0:0:34,0:1203,0:-108.574,-10.235,0,-108.574,-10.235,-108.574 1/1:120:0,118,2:0:0:118,2:4144,64:-372.791,-35.5215,0,-367.64,-30.0804,-367.038 1/2:67:0,34,33:0:0:34,33:1216,1152:-192.13,-92.9725,-82.7375,-99.5092,0,-89.5752 1/2:94:0,39,54:0:0:39,54:1361,1933:-267.296,-156.602,-144.862,-110.792,0,-94.5367 1/2:75:0,38,37:0:0:38,37:1341,1316:-216.343,-107.148,-95.7088,-109.549,0,-98.4108 1/1:58:0,58,0:0:0:58,0:2037,0:-183.599,-17.4597,0,-183.599,-17.4597,-183.599 1/2:67:0,37,30:0:0:37,30:1316,1058:-193.318,-86.0668,-74.9287,-107.604,0,-98.5728 1/2:54:0,30,22:0:0:30,22:1056,789:-150.194,-64.2284,-55.1975,-85.9795,0,-79.3568 1/1:86:0,86,0:0:0:86,0:2976,0:-268.066,-25.8886,0,-268.066,-25.8886,-268.066 1/1:50:0,50,0:0:0:50,0:1778,0:-160.301,-15.0515,0,-160.301,-15.0515,-160.301 chr05 3032157 . G A 14166.5 PASS AB=0.509985;ABP=4.13773;AC=14;AF=0.333333;AN=42;AO=785;CIGAR=1X;DP=2291;DPB=2291;DPRA=1.03636;EPP=1647.36;EPPR=3093.39;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9927;NS=21;NUMALT=1;ODDS=2.00715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27943;QR=53642;RO=1506;RPL=778;RPP=1647.36;RPPR=3093.39;RPR=7;RUN=1;SAF=0;SAP=1707.62;SAR=785;SRF=0;SRP=3273.25;SRR=1506;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:129:127,2:127:4521:2:72:0,-31.9961,-400.222 0/0:86:86,0:86:3072:0:0:0,-25.8886,-276.709 0/1:160:73,87:73:2620:87:3099:-230.973,0,-187.882 0/1:124:62,62:62:2191:62:2207:-161.567,0,-160.128 0/1:182:91,91:91:3243:91:3215:-234.784,0,-237.302 0/1:157:62,95:62:2181:95:3399:-258.863,0,-149.293 0/0:199:199,0:199:7104:0:0:0,-59.905,-639.422 1/1:117:0,117:0:0:117:4172:-375.664,-35.2205,0 0/1:174:89,85:89:3163:85:3044:-221.81,0,-232.517 0/1:16:5,11:5:180:11:366:-28.4437,0,-11.7356 0/1:12:2,10:2:72:10:360:-29.1319,0,-3.22436 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 0/0:132:132,0:132:4687:0:0:0,-39.736,-421.992 0/1:81:45,36:45:1616:36:1273:-90.4875,0,-121.347 0/1:168:67,101:67:2375:101:3599:-273.544,0,-163.435 0/1:65:37,28:37:1328:28:1004:-71.1089,0,-100.255 0/0:105:103,2:103:3684:2:72:0,-24.7714,-324.926 0/1:91:47,44:47:1680:44:1561:-113.386,0,-124.093 0/1:72:58,14:58:2076:14:500:-23.662,0,-165.43 0/0:106:106,0:106:3787:0:0:0,-31.9092,-341.029 0/0:62:62,0:62:2166:0:0:0,-18.6639,-195.204 chr05 3043836 . G A 12793.1 PASS AB=0.496413;ABP=3.16607;AC=14;AF=0.333333;AN=42;AO=768;CIGAR=1X;DP=2228;DPB=2228;DPRA=1.2571;EPP=1670.7;EPPR=3171.19;GTI=0;LEN=1;MEANALT=1;MQM=59.9948;MQMR=60;NS=21;NUMALT=1;ODDS=6.06897;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26845;QR=51254;RO=1459;RPL=0;RPP=1670.7;RPPR=3171.19;RPR=768;RUN=1;SAF=0;SAP=1670.7;SAR=768;SRF=0;SRP=3171.19;SRR=1459;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:125:124,1:124:4364:1:36:0,-34.0305,-389.339 0/0:81:81,0:81:2832:0:0:0,-24.3834,-255.118 0/1:109:56,53:56:1991:53:1858:-134.686,0,-146.651 0/1:177:81,96:81:2840:96:3332:-246.818,0,-202.555 0/1:184:94,90:94:3313:90:3133:-226.809,0,-242.998 0/1:85:45,40:45:1612:40:1401:-100.798,0,-119.783 0/0:184:183,0:183:6437:0:0:0,-55.0885,-579.063 1/1:75:0,75:0:0:75:2638:-237.665,-22.5773,0 0/1:177:92,85:92:3207:85:2981:-215.242,0,-235.572 0/1:16:8,8:8:275:8:284:-21.0869,0,-20.267 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:26:26,0:26:923:0:0:0,-7.82678,-83.3868 0/0:78:78,0:78:2753:0:0:0,-23.4803,-248.01 0/1:86:46,40:46:1597:40:1409:-101.217,0,-118.129 0/1:269:118,151:118:4131:151:5278:-394.186,0,-291.001 0/1:72:41,31:41:1437:31:1083:-76.1016,0,-107.949 0/0:110:110,0:110:3866:0:0:0,-33.1133,-348.138 0/1:139:68,71:68:2364:71:2494:-182.87,0,-171.175 0/1:75:51,24:51:1767:24:810:-50.6328,0,-136.732 0/0:86:86,0:86:3022:0:0:0,-25.8886,-272.211 0/0:69:69,0:69:2451:0:0:0,-20.7711,-220.845 chr05 3045235 . AAAC TAAT,AAAT 85927.9 PASS AB=0.50491,0.491408;ABP=3.52207,4.5776;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2714,1349;CIGAR=1X2M1X,3M1X;DP=4078;DPB=4078;DPRA=0,1.639;EPP=5749.65,2906.33;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.38095,2.66667;MQM=59.8545,59.9874;MQMR=0;NS=21;NUMALT=2;ODDS=2.73417;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=95284,48369;QR=0;RO=0;RPL=17,3;RPP=5749.65,2906.33;RPPR=0;RPR=2697,1346;RUN=1,1;SAF=2714,1349;SAP=5896.39,2932.33;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:169:0,167,0:0:0:167,0:5847,0:-526.053,-50.272,0,-526.053,-50.272,-526.053 1/1:153:0,152,0:0:0:152,0:5388,0:-484.752,-45.7566,0,-484.752,-45.7566,-484.752 1/2:127:0,52,75:0:0:52,75:1828,2688:-368.376,-219.587,-203.934,-149.143,0,-126.566 1/2:316:0,168,147:0:0:168,147:5882,5260:-907.501,-428.936,-378.363,-478.569,0,-434.318 1/2:558:0,290,266:0:0:290,266:10166,9564:-1607.32,-780.35,-693.051,-827.041,0,-746.967 1/2:207:0,100,107:0:0:100,107:3529,3833:-600.299,-312.954,-282.851,-287.7,0,-255.49 1/1:323:0,320,1:0:0:320,1:11302,36:-1016.48,-96.3296,0,-1013.54,-93.3822,-1013.24 2/2:146:0,1,145:0:0:1,145:36,5187:-466.608,-463.67,-463.369,-43.6494,-40.3521,0 1/2:332:0,160,172:0:0:160,172:5641,6168:-962.737,-503.439,-455.274,-459.653,0,-407.876 1/2:17:0,13,3:0:0:13,3:456,108:-45.9144,-8.81263,-4.89924,-37.1007,0,-36.1976 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:37:0,37,0:0:0:37,0:1295,0:-116.42,-11.1381,0,-116.42,-11.1381,-116.42 1/1:317:0,317,0:0:0:317,0:11073,0:-996.481,-95.4265,0,-996.481,-95.4265,-996.481 1/2:203:0,99,104:0:0:99,104:3489,3714:-587.215,-303.154,-273.352,-284.415,0,-253.108 1/2:262:0,112,147:0:0:112,147:3943,5288:-752.536,-431.539,-397.824,-321.089,0,-276.837 1/2:117:0,63,54:0:0:63,54:2225,1931:-339.003,-157.81,-138.845,-181.549,0,-165.293 1/1:70:0,69,1:0:0:69,1:2433,36:-218.865,-20.7711,0,-215.928,-17.4738,-215.627 1/2:123:0,57,64:0:0:57,64:2035,2304:-353.9,-187.995,-170.836,-165.904,0,-146.638 1/2:182:0,120,62:0:0:120,62:4193,2216:-522.12,-181.039,-144.915,-341.436,0,-322.772 1/1:295:0,294,1:0:0:294,1:10183,36:-916.066,-88.5028,0,-913.129,-85.2056,-912.828 1/1:118:0,117,0:0:0:117,0:4124,0:-370.351,-35.2205,0,-370.351,-35.2205,-370.351 chr05 3179929 . C T 35284 PASS AB=0.547242;ABP=33.5803;AC=28;AF=0.666667;AN=42;AO=1786;CIGAR=1X;DP=2590;DPB=2590;DPRA=1.49167;EPP=3881.26;EPPR=1733.68;GTI=0;LEN=1;MEANALT=1.15;MQM=45.2693;MQMR=58.6404;NS=21;NUMALT=1;ODDS=1.22754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64008;QR=28747;RO=801;RPL=0;RPP=3881.26;RPPR=1733.68;RPR=1786;RUN=1;SAF=1786;SAP=3881.26;SAR=0;SRF=801;SRP=1742.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:135:0,134:0:0:134:4781:-420.298,-40.338,0 1/1:104:0,104:0:0:104:3727:-325.309,-31.3071,0 0/1:149:66,83:66:2368:83:2984:-219.316,0,-168.381 0/1:164:73,90:73:2620:90:3235:-238.109,0,-186.51 0/1:279:161,118:161:5784:118:4221:-290.001,0,-435.026 0/1:139:76,63:76:2724:63:2260:-156.166,0,-203.162 1/1:239:2,237:2:72:237:8467:-734.267,-65.1216,0 0/0:84:84,0:84:3016:0:0:0,-25.2865,-271.168 0/1:282:117,165:117:4200:165:5909:-440.123,0,-292.414 0/1:17:13,4:13:468:4:144:-8.012,0,-37.297 0/1:5:2,3:2:72:3:108:-8.35367,0,-5.25721 1/1:25:0,25:0:0:25:896:-79.2784,-7.52575,0 1/1:90:0,90:0:0:90:3240:-288.674,-27.0927,0 0/1:115:60,55:60:2139:55:1961:-140.27,0,-157.842 0/1:199:68,131:68:2448:131:4678:-353.946,0,-160.482 0/1:97:23,74:23:828:74:2660:-208.803,0,-45.6442 1/1:145:0,145:0:0:145:5216:-463.987,-43.6494,0 0/1:67:30,37:30:1072:37:1332:-97.0654,0,-76.575 0/1:64:24,40:24:864:40:1436:-107.194,0,-58.657 1/1:127:2,124:2:72:124:4449:-384.393,-31.3529,0 1/1:64:0,64:0:0:64:2304:-200.055,-19.2659,0 chr05 3180055 . C T 33197.4 PASS AB=0.419335;ABP=94.7951;AC=26;AF=0.619048;AN=42;AO=1684;CIGAR=1X;DP=3733;DPB=3733;DPRA=0.88794;EPP=3659.77;EPPR=4448.01;GTI=3;LEN=1;MEANALT=1.05;MQM=59.9567;MQMR=59.9868;NS=21;NUMALT=1;ODDS=14.0332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60261;QR=73281;RO=2047;RPL=1684;RPP=3659.77;RPPR=4448.01;RPR=0;RUN=1;SAF=0;SAP=3659.77;SAR=1684;SRF=0;SRP=4448.01;SRR=2047;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:186:5,181:5:180:181:6481:-566.817,-39.4395,0 1/1:101:0,101:0:0:101:3629:-326.814,-30.404,0 0/1:97:54,43:54:1929:43:1526:-108.431,0,-144.685 0/1:123:61,62:61:2192:62:2224:-163.397,0,-160.519 0/1:234:103,131:103:3696:131:4708:-353.419,0,-262.372 0/1:86:44,42:44:1576:42:1485:-108.054,0,-116.243 1/1:173:0,173:0:0:173:6200:-558.093,-52.0782,0 0/0:199:198,0:198:7090:0:0:0,-59.6039,-637.835 0/1:165:70,95:70:2497:95:3420:-258.342,0,-175.311 0/0:476:471,5:471:16863:5:180:0,-126.738,-1500.76 0/0:432:430,2:430:15341:2:72:0,-123.208,-1373.56 1/1:36:1,35:1:36:35:1256:-109.617,-7.23881,0 1/1:80:0,80:0:0:80:2872:-258.714,-24.0824,0 0/1:142:84,58:84:3009:58:2072:-144.005,0,-228.293 0/1:208:87,121:87:3120:121:4344:-328.519,0,-218.412 0/1:64:28,36:28:1008:36:1288:-96.9577,0,-71.7704 1/1:156:0,156:0:0:156:5585:-502.77,-46.9607,0 0/1:449:395,53:395:14168:53:1908:-36.7763,0,-1139.65 0/1:56:16,40:16:576:40:1436:-112.68,0,-35.3173 1/1:233:0,233:0:0:233:8243:-741.88,-70.14,0 1/1:37:0,37:0:0:37:1332:-120.174,-11.1381,0 chr05 3220670 . CACATA CATGTA,TATGTA,CATGTG 28438.5 PASS AB=0.43186,0.548689,0.0385965;ABP=46.8077,25.0015,1584.05;AC=26,13,3;AF=0.619048,0.309524,0.0714286;AN=42;AO=905,697,55;CIGAR=2M2X2M,1X1M2X2M,2M2X1M1X;DP=1662;DPB=1662;DPRA=0.725094,1.33861,2.24833;EPP=1968.19,1516.53,122.441;EPPR=0;GTI=3;LEN=2,6,6;MEANALT=2.63158,3,2.875;MQM=33.2066,55.2855,56.1455;MQMR=0;NS=21;NUMALT=3;ODDS=6.89468;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=29286,24749,1918;QR=0;RO=0;RPL=0,0,0;RPP=1968.19,1516.53,122.441;RPPR=0;RPR=905,697,55;RUN=1,1,1;SAF=905,697,55;SAP=1968.19,1516.53,122.441;SAR=0,0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,54,0,5:0:0:54,0,5:1765,0,174:-144.476,-16.2556,0,-144.476,-16.2556,-144.476,-130.362,-1.79918,-130.362,-128.857 1/3:25:0,21,0,4:0:0:21,0,4:672,0,138:-59.9781,-11.5527,-5.23104,-59.9781,-11.5527,-59.9781,-48.7614,0,-48.7614,-47.5573 1/2:64:0,29,35,0:0:0:29,35,0:944,1241,0:-169.595,-101.244,-92.5139,-68.6727,0,-58.1367,-169.595,-101.244,-68.6727,-169.595 1/2:113:0,53,59,1:0:0:53,59,1:1699,2098,36:-292.467,-170.463,-154.509,-121.966,0,-104.205,-289.532,-167.528,-119.029,-289.231 1/2:141:0,69,69,2:0:0:69,69,2:2245,2440,61:-361.683,-198.476,-177.705,-163.261,0,-142.49,-356.799,-193.594,-158.377,-356.197 1/2:92:0,42,50,0:0:0:42,50,0:1344,1784,0:-242.341,-145.429,-132.785,-97.2329,0,-82.1814,-242.341,-145.429,-97.2329,-242.341 1/1:101:0,97,0,4:0:0:97,0,4:3117,0,144:-256.039,-29.1999,0,-256.039,-29.1999,-256.039,-244.29,-17.0941,-244.29,-243.086 2/2:112:0,0,110,2:0:0:0,110,2:0,3932,72:-353.274,-353.274,-353.274,-33.1133,-33.1133,0,-347.402,-347.402,-26.8819,-346.8 1/2:140:0,49,89,2:0:0:49,89,2:1698,3173,69:-384.208,-258.297,-243.547,-125.899,0,-99.1075,-378.608,-252.697,-120.298,-378.005 2/3:7:0,0,5,2:0:0:0,5,2:0,179,72:-20.82,-20.82,-20.82,-6.23141,-6.23141,-4.72626,-14.9477,-14.9477,0,-14.3456 1/3:19:0,3,2,14:0:0:3,2,14:104,72,498:-48.7492,-40.5693,-39.6662,-42.8754,-34.6957,-42.2733,-8.16908,0,-2.28677,-3.95466 1/1:21:0,21,0,0:0:0:21,0,0:654,0,0:-53.7259,-6.32163,0,-53.7259,-6.32163,-53.7259,-53.7259,-6.32163,-53.7259,-53.7259 1/1:126:0,118,0,8:0:0:118,0,8:3830,0,276:-313.879,-35.5215,0,-313.879,-35.5215,-313.879,-291.555,-12.8567,-291.555,-289.147 1/2:93:0,44,44,3:0:0:44,44,3:1423,1550,97:-229.228,-125.674,-112.428,-103.552,0,-90.3068,-221.409,-117.857,-95.7317,-220.506 1/2:153:0,57,94,1:0:0:57,94,1:1841,3309,36:-402.912,-268.49,-251.332,-134.461,0,-106.165,-399.977,-265.555,-131.525,-399.676 1/2:83:0,23,56,3:0:0:23,56,3:770,1980,108:-217.11,-160.121,-153.197,-56.9887,0,-40.1311,-208.305,-151.316,-48.1784,-207.402 1/1:54:0,54,0,0:0:0:54,0,0:1865,0,0:-154.435,-16.2556,0,-154.435,-16.2556,-154.435,-154.435,-16.2556,-154.435,-154.435 1/2:81:0,31,49,1:0:0:31,49,1:943,1741,29:-208.79,-141.674,-132.342,-67.1326,0,-52.3821,-206.497,-139.382,-64.8384,-206.196 1/2:82:0,48,34,0:0:0:48,34,0:1553,1214,0:-211.934,-99.1661,-84.7167,-113.098,0,-102.863,-211.934,-99.1661,-113.098,-211.934 1/1:60:0,58,1,1:0:0:58,1,1:1759,36,36:-142.711,-17.4597,0,-139.774,-14.5239,-139.473,-139.774,-14.5239,-136.836,-139.473 1/1:36:0,34,0,2:0:0:34,0,2:1060,0,72:-86.7223,-10.235,0,-86.7223,-10.235,-86.7223,-80.845,-4.00227,-80.845,-80.2429 chr05 3220699 . AAGTTC AC 9955.88 PASS AB=0.437897;ABP=39.9608;AC=24;AF=0.571429;AN=42;AO=789;CIGAR=1M4D1M;DP=1568;DPB=1042;DPRA=1.29349;EPP=1716.3;EPPR=1675.06;GTI=1;LEN=4;MEANALT=1.21053;MQM=32.417;MQMR=55.6227;NS=21;NUMALT=1;ODDS=0.0211949;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26984;QR=27184;RO=774;RPL=789;RPP=1716.3;RPPR=1675.06;RPR=0;RUN=1;SAF=789;SAP=1716.3;SAR=0;SRF=774;SRP=1683.73;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:5,47:5:170:47:1656:-115.12,-0.0418671,0 0/1:23:4,19:4:144:19:668:-45.0515,0,-6.38621 0/1:59:34,24:34:1198:24:824:-47.0627,0,-90.161 0/1:105:60,45:60:2123:45:1511:-86.4138,0,-159.422 0/1:136:71,65:71:2502:65:2215:-134.381,0,-184.131 0/1:86:49,36:49:1730:36:1245:-71.2095,0,-129.806 0/1:88:9,79:9:322:79:2682:-184.202,0,-2.83016 0/0:111:110,0:110:3890:0:0:0,-33.1133,-349.676 0/1:136:94,42:94:3291:42:1458:-78.8498,0,-255.133 0/0:7:7,0:7:250:0:0:0,-2.10721,-22.8364 0/0:19:18,1:18:639:1:36:0,-2.66503,-54.7704 1/1:20:1,19:1:35:19:639:-45.7789,-2.52197,0 1/1:119:9,110:9:304:110:3733:-269.533,-8.17803,0 0/1:83:49,33:49:1716:33:1127:-64.5837,0,-128.96 0/1:146:100,46:100:3474:46:1581:-77.7277,0,-268.339 0/1:84:62,21:62:2191:21:712:-31.0634,0,-171.262 1/1:49:3,46:3:102:46:1580:-120.401,-5.23409,0 0/1:81:50,31:50:1735:31:1034:-54.6155,0,-131.836 0/1:76:34,42:34:1196:42:1417:-90.2404,0,-84.897 1/1:57:3,54:3:101:54:1873:-131.889,-7.73878,0 1/1:31:2,29:2:71:29:993:-70.2623,-2.59159,0 chr05 3220842 . AAGCC AAGCT,TAGCT 66278.1 PASS AB=0.497672,0.49612;ABP=3.10129,3.26306;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2022,1139;CIGAR=4M1X,1X3M1X;DP=3178;DPB=3178.6;DPRA=0,1.7571;EPP=4393.73,2476.32;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.14286,2.57143;MQM=60,59.9974;MQMR=0;NS=21;NUMALT=2;ODDS=12.0355;PAIRED=0,0;PAIREDR=0;PAO=0.5,2;PQA=0,72;PQR=0;PRO=0.5;QA=72406,39837;QR=0;RO=0;RPL=2022,1139;RPP=4393.73,2476.32;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4393.73,2476.32;SAR=2022,1139;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:152:0,152,0:0:0:152,0:5422,0:-488.108,-45.7566,0,-488.108,-45.7566,-488.108 1/1:52:0,52,0:0:0:52,0:1872,0:-168.759,-15.6536,0,-168.759,-15.6536,-168.759 1/2:248:0,109,139:0:0:109,139:3893,4822:-709.708,-392.31,-359.498,-317.751,0,-275.908 1/2:139:0,61,78:0:0:61,78:2184,2743:-401.743,-223.635,-205.273,-178.463,0,-154.983 1/2:315:0,138,174:0:0:138,174:4937,6052:-894.661,-492.078,-450.536,-402.59,0,-350.21 1/2:169:0,68,101:0:0:68,101:2436,3566:-489.417,-290.747,-270.277,-199.025,0,-168.621 1/1:198:0,198,0:0:0:198,0:7082,0:-637.437,-59.6039,0,-637.437,-59.6039,-637.437 2/2:178:0,1,177:0:0:1,177:36,6228:-560.269,-557.332,-557.031,-53.2823,-49.9851,0 1/2:297:0,153,142:0:0:153,142:5484,4966:-851.291,-404.016,-357.958,-447.285,0,-404.539 1/2:117:0,99,18:0:0:99,18:3540,633:-340.174,-51.5197,-21.7177,-288.648,0,-283.229 1/1:44:0,44,0:0:0:44,0:1584,0:-142.852,-13.2453,0,-142.852,-13.2453,-142.852 1/1:123:0,121,2:0:0:121,2:4352,70:-391.503,-36.4246,0,-385.807,-30.3793,-385.205 1/1:240:0,238,1:0:0:238,1:8548,35:-768.959,-71.6451,0,-766.112,-68.8024,-765.811 1/2:218:0,114,99:0:0:114,99:4051,3417:-607.727,-277.619,-243.302,-330.124,0,-300.322 1/2:243:0,115,127:0:0:115,127:4128,4465:-700.169,-363.44,-328.821,-336.725,0,-298.494 1/2:62:0,23,39:0:0:23,39:828,1358:-178.343,-110.778,-103.854,-67.9204,0,-56.1803 1/1:60:0,60,0:0:0:60,0:2156,0:-194.307,-18.0618,0,-194.307,-18.0618,-194.307 1/2:78:0,47,31:0:0:47,31:1692,1104:-228.4,-90.3393,-76.1909,-138.418,0,-129.087 1/2:47:0,35,11:0:0:35,11:1256,378:-133.141,-30.6802,-20.1442,-102.449,0,-99.1381 1/1:164:0,162,0:0:0:162,0:5777,0:-519.686,-48.7669,0,-519.686,-48.7669,-519.686 1/1:34:0,32,0:0:0:32,0:1148,0:-103.27,-9.63296,0,-103.27,-9.63296,-103.27 chr05 3261646 . T G 737.805 PASS AB=0.1725;ABP=375.657;AC=11;AF=0.261905;AN=42;AO=87;CIGAR=1X;DP=1227;DPB=1227;DPRA=0.531685;EPP=3.03526;EPPR=2478.49;GTI=7;LEN=1;MEANALT=1;MQM=47.4943;MQMR=57.1904;NS=21;NUMALT=1;ODDS=5.57498;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3083;QR=40363;RO=1140;RPL=0;RPP=191.928;RPPR=2461.15;RPR=87;RUN=1;SAF=43;SAP=3.03526;SAR=44;SRF=1138;SRP=2461.15;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:124,0:124:4391:0:0:0,-37.3277,-394.793 0/0:77:77,0:77:2743:0:0:0,-23.1793,-246.805 0/1:21:18,3:18:620:3:104:-3.3254,0,-49.6394 0/1:52:46,6:46:1620:6:216:-3.64667,0,-129.805 0/1:71:60,11:60:2125:11:392:-14.0119,0,-169.133 0/1:31:27,4:27:964:4:140:-3.17752,0,-77.6835 0/0:124:124,0:124:4379:0:0:0,-37.3277,-392.315 1/1:12:0,12:0:0:12:428:-37.3386,-3.61236,0 0/0:61:57,4:57:2044:4:144:0,-5.14112,-170.834 0/1:10:9,1:9:320:1:36:-0.563134,0,-25.6802 0/0:11:11,0:11:384:0:0:0,-3.31133,-34.8698 0/0:122:122,0:122:4332:0:0:0,-36.7257,-389.692 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.069 0/1:40:34,6:34:1220:6:192:-5.42567,0,-98.0152 0/1:53:46,7:46:1644:7:243:-6.11369,0,-130.706 0/0:36:34,2:34:1204:2:72:0,-4.04755,-101.844 0/0:94:94,0:94:3335:0:0:0,-28.2968,-299.305 0/1:68:49,19:49:1715:19:684:-41.075,0,-132.949 0/1:54:42,12:42:1477:12:432:-22.5134,0,-116.874 0/0:62:62,0:62:2186:0:0:0,-18.6639,-196.173 0/0:54:54,0:54:1872:0:0:0,-16.2556,-168.244 chr05 3546438 . A G 22672.8 PASS AB=0.502543;ABP=3.06553;AC=29;AF=0.690476;AN=42;AO=1164;CIGAR=1X;DP=1763;DPB=1763;DPRA=0.766204;EPP=2351.49;EPPR=1303.72;GTI=0;LEN=1;MEANALT=1;MQM=42.1323;MQMR=59.9599;NS=21;NUMALT=1;ODDS=12.4236;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40485;QR=21353;RO=599;RPL=21;RPP=2351.49;RPPR=1303.72;RPR=1143;RUN=1;SAF=0;SAP=2530.6;SAR=1164;SRF=0;SRP=1303.72;SRR=599;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102:0:0:102:3578:-314.652,-30.7051,0 1/1:67:0,67:0:0:67:2357:-204.832,-20.169,0 0/1:95:39,56:39:1377:56:1945:-143.212,0,-95.6265 1/1:82:0,82:0:0:82:2844:-249.913,-24.6845,0 0/1:132:65,67:65:2332:67:2324:-165.576,0,-170.404 0/1:127:76,51:76:2711:51:1761:-115.251,0,-206.003 1/1:161:0,161:0:0:161:5585:-487.676,-48.4658,0 0/0:108:108,0:108:3873:0:0:0,-32.5112,-348.756 0/1:151:68,83:68:2432:83:2878:-210.443,0,-173.68 0/1:12:7,5:7:252:5:163:-11.0539,0,-19.4166 0/1:6:2,4:2:72:4:144:-11.0927,0,-5.03054 1/1:31:0,31:0:0:31:1068:-93.0819,-9.33193,0 1/1:39:0,39:0:0:39:1339:-117.627,-11.7402,0 0/1:128:53,75:53:1884:75:2585:-188.676,0,-131.302 0/1:160:104,56:104:3689:56:1977:-125.788,0,-284.04 0/1:47:25,22:25:896:22:765:-53.7632,0,-66.8119 1/1:88:2,86:2:72:86:3013:-259.589,-19.6539,0 0/1:77:32,45:32:1127:45:1572:-113.775,0,-78.5581 0/1:48:18,30:18:636:30:1037:-77.3831,0,-43.1186 1/1:76:0,76:0:0:76:2646:-230.41,-22.8783,0 1/1:26:0,26:0:0:26:904:-78.2372,-7.82678,0 chr05 3546459 . 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ATCTTCTTA ATCTTA 14734.5 PASS AB=0.528614;ABP=7.7326;AC=29;AF=0.690476;AN=42;AO=767;CIGAR=1M3D5M;DP=1145;DPB=888.778;DPRA=0.888525;EPP=1668.53;EPPR=815.141;GTI=0;LEN=3;MEANALT=1.15;MQM=59.9452;MQMR=59.8904;NS=21;NUMALT=1;ODDS=2.62886;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=26554;QR=13102;RO=374;RPL=767;RPP=1668.53;RPPR=815.141;RPR=0;RUN=1;SAF=0;SAP=1668.53;SAR=767;SRF=0;SRP=815.141;SRR=374;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:51:0,51:0:0:51:1770:-159.579,-15.3525,0 1/1:56:0,56:0:0:56:1954:-176.076,-16.8577,0 0/1:55:30,25:30:1046:25:847:-59.9796,0,-77.8933 1/1:50:0,50:0:0:50:1730:-155.919,-15.0515,0 0/1:102:52,50:52:1820:50:1727:-125.004,0,-133.362 0/1:22:9,13:9:316:13:453:-34.477,0,-22.1563 1/1:56:0,56:0:0:56:1942:-175.05,-16.8577,0 0/0:61:60,0:60:2123:0:0:0,-18.0618,-191.128 0/1:102:44,58:44:1548:58:2001:-149.65,0,-108.908 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:5:1,4:1:33:4:140:-11.4394,0,-1.79398 1/1:26:0,26:0:0:26:897:-81.0416,-7.82678,0 1/1:52:0,52:0:0:52:1799:-162.186,-15.6536,0 0/1:73:34,39:34:1187:39:1317:-96.8421,0,-85.072 0/1:109:48,59:48:1689:59:2037:-151.063,0,-119.766 0/1:42:16,26:16:548:26:901:-68.7589,0,-37.0008 1/1:20:0,20:0:0:20:685:-61.9593,-6.0206,0 0/1:108:59,49:59:2049:49:1696:-120.407,0,-152.171 0/1:37:13,24:13:466:24:845:-65.229,0,-31.1406 1/1:49:3,46:3:97:46:1644:-139.198,-5.70019,0 1/1:60:0,59:0:0:59:2025:-182.156,-17.7608,0 chr05 3569071 . 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A T 17936.8 PASS AB=0.492428;ABP=4.02974;AC=13;AF=0.309524;AN=42;AO=1072;CIGAR=1X;DP=2764;DPB=2764;DPRA=2.14751;EPP=2330.83;EPPR=3677.14;GTI=1;LEN=1;MEANALT=1;MQM=59.3228;MQMR=59.9539;NS=21;NUMALT=1;ODDS=0.782655;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38034;QR=60014;RO=1692;RPL=1072;RPP=2330.83;RPPR=3677.14;RPR=0;RUN=1;SAF=1072;SAP=2330.83;SAR=0;SRF=1692;SRP=3677.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:83:83,0:83:2955:0:0:0,-24.9855,-266.184 0/0:23:23,0:23:807:0:0:0,-6.92369,-72.9492 0/1:57:27,30:27:968:30:1061:-78.6407,0,-70.2787 0/0:65:65,0:65:2320:0:0:0,-19.5669,-209.061 0/1:156:65,91:65:2311:91:3213:-242.391,0,-161.29 0/1:85:47,38:47:1651:38:1345:-95.7443,0,-123.289 0/0:87:85,2:85:3018:2:72:0,-19.3529,-265.015 1/1:61:0,61:0:0:61:2171:-195.631,-18.3628,0 0/1:108:55,53:55:1940:53:1871:-136.155,0,-142.365 0/1:395:193,202:193:6831:202:7222:-531.017,0,-495.897 0/1:445:235,210:235:8343:210:7441:-535.297,0,-616.907 0/0:221:221,0:221:7817:0:0:0,-66.5276,-703.558 0/0:44:44,0:44:1568:0:0:0,-13.2453,-141.412 0/1:78:47,31:47:1669:31:1101:-74.9809,0,-127.01 0/1:83:39,44:39:1396:44:1567:-116.333,0,-100.954 0/1:55:24,31:24:844:31:1112:-83.8338,0,-59.7223 0/0:48:48,0:48:1699:0:0:0,-14.4494,-153.194 0/1:547:278,269:278:9882:269:9507:-690.702,0,-724.664 0/1:38:29,9:29:1028:9:315:-17.2481,0,-81.3939 0/0:47:46,1:46:1616:1:36:0,-10.5501,-142.13 0/0:38:38,0:38:1351:0:0:0,-11.4391,-121.89 chr05 3571537 . 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C T 13457.3 PASS AB=0.517489;ABP=5.97246;AC=13;AF=0.309524;AN=42;AO=749;CIGAR=1X;DP=2408;DPB=2408;DPRA=0.947133;EPP=1629.44;EPPR=3525.56;GTI=0;LEN=1;MEANALT=1;MQM=49.8198;MQMR=58.6357;NS=21;NUMALT=1;ODDS=14.1697;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26689;QR=58526;RO=1658;RPL=749;RPP=1629.44;RPPR=3603.31;RPR=0;RUN=1;SAF=749;SAP=1629.44;SAR=0;SRF=1649;SRP=3525.56;SRR=9;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:128:127,1:127:4490:1:36:0,-34.9488,-400.627 0/0:194:194,0:194:6868:0:0:0,-58.3998,-617.714 0/1:94:48,46:48:1673:46:1643:-119.206,0,-122.546 0/0:145:145,0:145:5112:0:0:0,-43.6493,-459.993 0/1:364:183,181:183:6479:181:6428:-463.673,0,-472.015 0/1:113:40,73:40:1400:73:2603:-199.933,0,-92.1636 0/0:183:182,1:182:6457:1:36:0,-51.4993,-576.638 1/1:170:1,169:1:27:169:6009:-536.2,-48.4753,0 0/1:142:75,67:75:2661:67:2395:-170.678,0,-196.947 0/1:21:7,14:7:244:14:504:-39.0087,0,-15.9778 0/1:12:8,4:8:275:4:144:-9.66779,0,-21.4645 0/0:26:26,0:26:913:0:0:0,-7.82678,-82.3777 0/0:253:252,0:252:8859:0:0:0,-75.8596,-795.161 0/1:92:44,48:44:1563:48:1716:-126.402,0,-113.18 0/1:127:49,78:49:1752:78:2788:-211.051,0,-119.693 0/1:85:45,40:45:1578:40:1428:-101.945,0,-116.684 0/0:97:96,1:96:3369:1:36:0,-25.6211,-299.702 0/1:28:12,16:12:428:16:563:-42.4175,0,-30.4296 0/1:37:27,10:27:942:10:360:-21.4362,0,-73.9249 0/0:76:76,0:76:2695:0:0:0,-22.8783,-242.489 0/0:21:21,0:21:741:0:0:0,-6.32163,-66.9934 chr05 3572594 . T C 28722.2 PASS AB=0.4671;ABP=14.5838;AC=29;AF=0.690476;AN=42;AO=1482;CIGAR=1X;DP=2239;DPB=2239;DPRA=1.12842;EPP=3221.13;EPPR=1644.64;GTI=1;LEN=1;MEANALT=1.05;MQM=43.309;MQMR=58.4524;NS=21;NUMALT=1;ODDS=0.367047;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52742;QR=27099;RO=756;RPL=1482;RPP=3221.13;RPPR=1644.64;RPR=0;RUN=1;SAF=0;SAP=3221.13;SAR=1482;SRF=0;SRP=1644.64;SRR=756;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,101:0:0:101:3597:-315.879,-30.404,0 1/1:126:1,125:1:36:125:4480:-382.463,-35.3711,0 0/1:140:65,75:65:2328:75:2677:-195.567,0,-167.592 1/1:122:0,122:0:0:122:4271:-377.922,-36.7257,0 0/1:383:202,181:202:7233:181:6474:-452.847,0,-534.991 0/1:104:64,40:64:2304:40:1427:-90.4345,0,-175.418 1/1:189:0,189:0:0:189:6725:-579.762,-56.8947,0 0/0:95:95,0:95:3416:0:0:0,-28.5978,-305.971 0/1:110:63,47:63:2260:47:1688:-115.785,0,-170.506 0/1:14:6,8:6:216:8:288:-20.0913,0,-15.5171 0/1:8:6,2:6:216:2:72:-3.86588,0,-17.2214 1/1:43:0,43:0:0:43:1540:-134.62,-12.9443,0 1/1:101:0,101:0:0:101:3605:-316.621,-30.404,0 0/1:130:59,71:59:2105:71:2521:-180.928,0,-150.403 0/1:136:78,58:78:2796:58:2042:-138.996,0,-210.842 0/1:136:81,55:81:2893:55:1948:-132.197,0,-217.413 1/1:119:4,115:4:144:115:4063:-347.128,-22.509,0 0/1:40:24,16:24:864:16:572:-38.6924,0,-65.9871 0/1:30:8,22:8:288:22:792:-61.5846,0,-17.2365 1/1:84:0,84:0:0:84:2992:-261.58,-25.2865,0 1/1:27:0,27:0:0:27:968:-83.4105,-8.12781,0 chr05 3589958 . AGGT GGGC 7037.55 PASS AB=0.302609;ABP=197.608;AC=29;AF=0.690476;AN=42;AO=401;CIGAR=1X2M1X;DP=856;DPB=856;DPRA=0.789216;EPP=873.771;EPPR=980.173;GTI=4;LEN=4;MEANALT=1.2;MQM=59.8254;MQMR=59.8222;NS=21;NUMALT=1;ODDS=1.76649;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14196;QR=15649;RO=450;RPL=401;RPP=873.771;RPPR=980.173;RPR=0;RUN=1;SAF=0;SAP=873.771;SAR=401;SRF=0;SRP=980.173;SRR=450;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:1,45:1:36:45:1588:-139.609,-10.2491,0 1/1:13:0,13:0:0:13:457:-41.4634,-3.91339,0 0/1:32:28,4:28:979:4:144:-3.68066,0,-78.7889 1/1:25:0,25:0:0:25:879:-79.4083,-7.52575,0 0/1:132:91,41:91:3195:41:1444:-90.5183,0,-248.02 0/1:73:46,26:46:1600:26:931:-62.0752,0,-122.254 1/1:35:0,33:0:0:33:1178:-105.968,-9.93399,0 0/0:51:51,0:51:1787:0:0:0,-15.3525,-161.104 0/1:103:72,29:72:2498:29:1030:-62.2458,0,-194.272 0/1:8:7,1:7:240:1:34:-0.990671,0,-19.5259 0/1:7:2,5:2:68:5:180:-14.4449,0,-4.3505 1/1:12:0,12:0:0:12:419:-38.0421,-3.61236,0 1/1:35:0,35:0:0:35:1232:-111.095,-10.5361,0 0/1:51:42,9:42:1452:9:324:-14.1356,0,-115.621 0/1:86:61,25:61:2094:25:891:-54.6206,0,-162.836 0/1:54:36,18:36:1251:18:629:-40.679,0,-96.6344 1/1:33:0,33:0:0:33:1177:-106.236,-9.93399,0 0/1:15:8,7:8:269:7:251:-18.4224,0,-20.0222 0/1:14:5,9:5:180:9:303:-23.3821,0,-12.3376 1/1:12:0,12:0:0:12:430:-39.0402,-3.61236,0 1/1:19:0,19:0:0:19:675:-61.0775,-5.71957,0 chr05 3598780 . A G 11916.9 PASS AB=0.454545;ABP=26.3043;AC=13;AF=0.309524;AN=42;AO=697;CIGAR=1X;DP=2498;DPB=2498;DPRA=1.09455;EPP=1516.53;EPPR=3911.66;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.6758;MQMR=59.9472;NS=21;NUMALT=1;ODDS=4.58085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24857;QR=64439;RO=1800;RPL=0;RPP=1516.53;RPPR=3911.66;RPR=697;RUN=1;SAF=697;SAP=1516.53;SAR=0;SRF=1800;SRP=3911.66;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:195:194,1:194:6945:1:36:0,-55.1026,-621.515 0/0:105:105,0:105:3768:0:0:0,-31.6081,-339.318 0/1:122:73,49:73:2601:49:1745:-120.598,0,-197.598 0/0:150:150,0:150:5356:0:0:0,-45.1545,-482.17 0/1:162:77,85:77:2719:85:3022:-223.422,0,-196.183 0/1:145:86,58:86:3084:58:2069:-142.771,0,-234.08 0/0:185:185,0:185:6621:0:0:0,-55.6905,-595.959 1/1:106:0,106:0:0:106:3763:-338.747,-31.9092,0 0/1:284:153,131:153:5492:131:4674:-335.319,0,-408.826 0/1:16:3,13:3:108:13:464:-37.2764,0,-5.25869 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/0:116:116,0:116:4172:0:0:0,-34.9195,-375.657 0/1:151:78,73:78:2792:73:2620:-190.561,0,-204.876 0/1:201:114,87:114:4084:87:3096:-218.034,0,-307.236 0/1:109:60,49:60:2148:49:1748:-124.735,0,-160.775 0/0:164:164,0:164:5865:0:0:0,-49.3689,-527.96 0/1:60:36,24:36:1292:24:864:-60.0069,0,-98.522 0/1:42:24,18:24:864:18:648:-46.0086,0,-65.4393 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.28 0/0:68:68,0:68:2448:0:0:0,-20.47,-220.574 chr05 3598940 . A T 33406.5 PASS AB=0.502089;ABP=3.05565;AC=29;AF=0.690476;AN=42;AO=1607;CIGAR=1X;DP=2336;DPB=2336;DPRA=0.876984;EPP=3440.65;EPPR=1549.29;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7629;MQMR=59.9698;NS=21;NUMALT=1;ODDS=3.13202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57283;QR=25988;RO=728;RPL=1601;RPP=3440.65;RPPR=1549.29;RPR=6;RUN=1;SAF=0;SAP=3492.57;SAR=1607;SRF=0;SRP=1583.84;SRR=728;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:181:6,175:6:212:175:6251:-542.934,-35.0616,0 1/1:129:0,129:0:0:129:4599:-414.068,-38.8329,0 0/1:110:59,51:59:2112:51:1809:-129.975,0,-157.236 1/1:112:0,112:0:0:112:4000:-360.175,-33.7154,0 0/1:265:124,140:124:4429:140:4958:-366.521,0,-318.947 0/1:57:30,27:30:1053:27:949:-68.5649,0,-77.9195 1/1:172:0,172:0:0:172:6125:-550.968,-51.7772,0 0/0:126:126,0:126:4485:0:0:0,-37.9298,-403.82 0/1:198:97,101:97:3480:101:3616:-266.033,0,-253.807 0/1:25:12,13:12:428:13:457:-33.9368,0,-31.3331 0/1:15:10,5:10:360:5:180:-12.0366,0,-28.2289 1/1:45:0,45:0:0:45:1612:-145.37,-13.5464,0 1/1:94:0,94:0:0:94:3329:-299.818,-28.2968,0 0/1:172:86,86:86:3084:86:3063:-224.117,0,-226.011 0/1:138:75,63:75:2649:63:2256:-161.758,0,-197.069 0/1:109:61,48:61:2192:48:1720:-122.232,0,-164.733 1/1:150:0,150:0:0:150:5322:-479.086,-45.1545,0 0/1:65:35,30:35:1252:30:1076:-77.5859,0,-93.4181 0/1:43:6,37:6:216:37:1321:-106.24,0,-6.84622 1/1:96:1,95:1:36:95:3420:-304.406,-25.3006,0 1/1:34:0,34:0:0:34:1220:-110.104,-10.235,0 chr05 3604643 . T C 60797.4 PASS AB=0.538146;ABP=24.5466;AC=29;AF=0.690476;AN=42;AO=2393;CIGAR=1X;DP=3371;DPB=3371;DPRA=0.861081;EPP=5199.34;EPPR=2126.71;GTI=0;LEN=1;MEANALT=1;MQM=49.9315;MQMR=59.9591;NS=21;NUMALT=1;ODDS=26.9933;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85167;QR=34829;RO=978;RPL=695;RPP=915.89;RPPR=55.6674;RPR=1698;RUN=1;SAF=695;SAP=915.89;SAR=1698;SRF=412;SRP=55.6674;SRR=566;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:2,129:2:72:129:4582:-399.122,-32.5982,0 1/1:190:0,190:0:0:190:6760:-596.558,-57.1957,0 0/1:128:52,76:52:1864:76:2692:-199.191,0,-129.508 1/1:251:1,250:1:36:250:8958:-796.859,-71.9603,0 0/1:296:137,159:137:4866:159:5666:-414.42,0,-348.989 0/1:180:95,85:95:3408:85:3022:-213.488,0,-252.748 1/1:253:1,252:1:36:252:8959:-787.49,-72.5623,0 0/0:185:185,0:185:6554:0:0:0,-55.6905,-589.938 0/1:197:96,101:96:3456:101:3591:-261.513,0,-251.946 0/1:23:15,8:15:532:8:280:-18.4483,0,-41.2894 0/1:12:8,4:8:284:4:140:-8.93227,0,-22.291 1/1:62:0,62:0:0:62:2206:-196.781,-18.6639,0 1/1:177:0,177:0:0:177:6263:-557.085,-53.2823,0 0/1:145:67,78:67:2361:78:2782:-202.954,0,-169.096 0/1:267:103,164:103:3674:164:5836:-436.445,0,-250.486 0/1:137:72,65:72:2580:65:2317:-164.768,0,-191.208 1/1:147:1,146:1:36:146:5189:-459.046,-40.6531,0 0/1:182:91,91:91:3255:91:3227:-228.337,0,-238.383 0/1:137:51,86:51:1783:86:3080:-231.736,0,-119.48 1/1:148:1,147:1:32:147:5216:-458.682,-41.3531,0 1/1:123:0,123:0:0:123:4401:-383.235,-37.0267,0 chr05 3604654 . CC TT,CT 87902.5 PASS AB=0.539766,0.459064;ABP=26.4978,27.8997;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2426,967;CIGAR=2X,1M1X;DP=3400;DPB=3401;DPRA=0.927011,1.37738;EPP=5271,2102.82;EPPR=0;GTI=0;LEN=2,1;MEANALT=2.2,2.33333;MQM=49.9472,59.9359;MQMR=0;NS=21;NUMALT=2;ODDS=28.8637;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=84690,34230;QR=0;RO=0;RPL=690,394;RPP=982.335,74.9608;RPPR=0;RPR=1736,573;RUN=1,1;SAF=690,394;SAP=982.335,74.9608;SAR=1736,573;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:0,127,2:0:0:127,2:4424,72:-391.246,-38.2308,0,-385.371,-32.356,-384.769 1/1:196:0,194,1:0:0:194,1:6810,36:-601.536,-58.3998,0,-598.598,-55.3968,-598.297 1/2:129:0,77,52:0:0:77,52:2643,1796:-355.875,-146.264,-123.085,-209.952,0,-194.298 1/1:256:0,253,1:0:0:253,1:8928,36:-798.311,-76.1606,0,-795.374,-73.2047,-795.073 1/2:302:0,164,138:0:0:164,138:5733,4925:-861.794,-401.517,-352.148,-460.286,0,-418.744 1/2:180:0,87,93:0:0:87,93:3100,3335:-520.509,-272.371,-246.181,-248.493,0,-220.497 1/1:263:0,261,1:0:0:261,1:9151,27:-809.495,-78.5688,0,-807.367,-76.4438,-807.066 2/2:174:0,0,174:0:0:0,174:0,6160:-554.489,-554.489,-554.489,-52.3792,-52.3792,0 1/2:192:0,103,89:0:0:103,89:3609,3161:-548.415,-257.92,-226.914,-290.846,0,-264.054 1/2:24:0,9,15:0:0:9,15:309,536:-68.9089,-44.0594,-41.3501,-25.1961,0,-20.6807 1/2:12:0,4,8:0:0:4,8:139,288:-34.7637,-23.8592,-22.655,-11.2488,0,-8.84059 1/1:63:0,63,0:0:0:63,0:2190,0:-195.703,-18.9649,0,-195.703,-18.9649,-195.703 1/1:176:0,176,0:0:0:176,0:6135,0:-547.581,-52.9813,0,-547.581,-52.9813,-547.581 1/2:143:0,75,67:0:0:75,67:2595,2346:-399.006,-190.869,-168.291,-208.124,0,-187.955 1/2:267:0,164,103:0:0:164,103:5751,3692:-762.59,-301.319,-251.95,-461.624,0,-430.618 1/2:138:0,65,73:0:0:65,73:2300,2600:-398.106,-212.274,-192.707,-186.185,0,-164.21 1/1:151:0,149,2:0:0:149,2:5203,72:-463.319,-44.8535,0,-457.444,-38.6188,-456.842 1/2:182:0,88,93:0:0:88,93:2997,3244:-501.124,-263.827,-237.337,-237.277,0,-209.282 1/2:141:0,87,54:0:0:87,54:3000,1872:-392.908,-152.468,-126.279,-240.784,0,-224.528 1/1:153:0,152,1:0:0:152,1:5303,32:-470.393,-45.7566,0,-467.815,-42.8583,-467.514 1/1:128:0,128,0:0:0:128,0:4370,0:-382.401,-38.5318,0,-382.401,-38.5318,-382.401 chr05 3604879 . G T 29624.5 PASS AB=0.482576;ABP=6.49124;AC=29;AF=0.690476;AN=42;AO=1466;CIGAR=1X;DP=2277;DPB=2277;DPRA=0.846457;EPP=3186.39;EPPR=1761.9;GTI=1;LEN=1;MEANALT=1.05;MQM=59.957;MQMR=60;NS=21;NUMALT=1;ODDS=1.72156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52283;QR=28796;RO=810;RPL=1466;RPP=3186.39;RPPR=1761.9;RPR=0;RUN=1;SAF=0;SAP=3186.39;SAR=1466;SRF=0;SRP=1761.9;SRR=810;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,81:0:0:81:2897:-260.964,-24.3834,0 1/1:74:0,74:0:0:74:2624:-236.405,-22.2762,0 0/1:123:57,66:57:2036:66:2357:-175.36,0,-146.486 1/1:152:1,151:1:36:151:5424:-484.689,-42.1583,0 0/1:266:134,132:134:4768:132:4709:-343.893,0,-349.207 0/1:64:39,25:39:1395:25:885:-60.7006,0,-106.582 1/1:121:0,121:0:0:121:4245:-382.227,-36.4246,0 0/0:127:127,0:127:4489:0:0:0,-38.2308,-404.184 0/1:241:133,107:133:4725:107:3814:-270.848,0,-352.804 0/1:8:7,1:7:248:1:36:-1.19004,0,-20.256 0/1:10:8,2:8:280:2:72:-3.82642,0,-22.529 1/1:35:0,35:0:0:35:1248:-112.625,-10.5361,0 1/1:110:0,110:0:0:110:3927:-353.622,-33.1133,0 0/1:115:56,59:56:1984:59:2116:-156.09,0,-144.216 0/1:243:135,108:135:4809:108:3865:-274.893,0,-359.816 0/1:76:31,45:31:1112:45:1620:-123.155,0,-77.5131 1/1:92:0,92:0:0:92:3252:-292.888,-27.6948,0 0/1:111:61,50:61:2171:50:1781:-127.157,0,-162.242 0/1:63:21,42:21:743:42:1512:-117.41,0,-48.2284 1/1:104:0,104:0:0:104:3736:-336.439,-31.3071,0 1/1:61:0,61:0:0:61:2163:-194.864,-18.3628,0 chr05 3679368 . CAACGCC TAATGCT,TAACGCT 20264.3 PASS AB=0.483871,0.512903;ABP=4.41125,3.90691;AC=29,13;AF=0.690476,0.309524;AN=42;AO=664,322;CIGAR=1X2M1X2M1X,1X5M1X;DP=988;DPB=988.571;DPRA=0,1.23901;EPP=1444.87,702.224;EPPR=0;GTI=0;LEN=7,7;MEANALT=1.85714,2.125;MQM=54.0301,59.6615;MQMR=0;NS=21;NUMALT=2;ODDS=8.0354;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=35,0;PQR=0;PRO=0;QA=23433,11399;QR=0;RO=0;RPL=0,0;RPP=1444.87,702.224;RPPR=0;RPR=664,322;RUN=1,1;SAF=664,322;SAP=1444.87,702.224;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,66,1:0:0:66,1:2323,36:-208.71,-19.868,0,-205.773,-16.5707,-205.472 1/1:48:0,48,0:0:0:48,0:1702,0:-152.681,-14.4494,0,-152.681,-14.4494,-152.681 1/2:33:0,13,20:0:0:13,20:458,712:-95.5607,-58.3851,-54.4717,-37.5286,0,-31.508 1/2:39:0,23,16:0:0:23,16:812,560:-111.839,-45.9123,-38.9886,-66.2769,0,-61.4605 1/2:68:0,32,35:0:0:32,35:1125,1214:-190.11,-98.7671,-89.1341,-91.4378,0,-80.9018 1/2:23:0,14,9:0:0:14,9:498,320:-66.625,-26.4331,-22.2187,-40.5462,0,-37.8369 1/1:68:0,68,0:0:0:68,0:2420,0:-217.319,-20.47,0,-217.319,-20.47,-217.319 1/2:61:0,22,39:0:0:22,39:786,1392:-177.745,-113.821,-107.199,-64.2803,0,-52.5402 1/2:54:0,24,30:0:0:24,30:844,1059:-154.901,-86.5885,-79.3638,-68.6641,0,-59.6332 1/2:22:0,8,14:0:0:8,14:284,500:-64.2268,-41.1208,-38.7126,-23.4613,0,-19.2469 1/2:4:0,2,2:0:0:2,2:70,68:-11.5424,-5.85565,-5.25359,-6.03122,0,-5.42916 1/1:10:0,10,0:0:0:10,0:358,0:-31.7288,-3.0103,0,-31.7288,-3.0103,-31.7288 1/1:47:0,45,2:0:0:45,2:1589,68:-142.837,-13.5464,0,-137.324,-7.69317,-136.722 1/2:53:0,31,21:0:0:31,21:1085,748:-149.178,-61.0022,-51.6703,-88.2078,0,-81.8862 1/2:100:0,57,43:0:0:57,43:2013,1536:-289.142,-125.554,-108.395,-163.943,0,-150.998 1/2:30:0,11,19:0:0:11,19:389,680:-87.4825,-55.8096,-52.4983,-32.0279,0,-26.3083 1/1:32:0,32,0:0:0:32,0:1106,0:-99.7613,-9.63296,0,-99.7613,-9.63296,-99.7613 1/2:86:0,37,49:0:0:37,49:1306,1726:-247.038,-140.851,-129.713,-106.539,0,-91.7888 1/2:47:0,26,21:0:0:26,21:918,744:-135.665,-60.9627,-53.1359,-75.0555,0,-68.7339 1/1:55:0,54,1:0:0:54,1:1912,36:-171.632,-16.2556,0,-168.694,-12.9584,-168.393 1/1:41:0,41,0:0:0:41,0:1435,0:-128.646,-12.3422,0,-128.646,-12.3422,-128.646 chr05 3692578 . A T 25517.1 PASS AB=0.507128;ABP=3.44371;AC=32;AF=0.761905;AN=42;AO=1584;CIGAR=1X;DP=2070;DPB=2070;DPRA=0;EPP=3442.62;EPPR=1049.68;GTI=0;LEN=1;MEANALT=1;MQM=31.7771;MQMR=37.3889;NS=21;NUMALT=1;ODDS=8.68031;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56380;QR=17444;RO=486;RPL=1584;RPP=3442.62;RPPR=1058.35;RPR=0;RUN=1;SAF=1584;SAP=3442.62;SAR=0;SRF=485;SRP=1049.68;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,58:0:0:58:2038:-156.092,-17.4597,0 1/1:75:0,75:0:0:75:2687:-203.578,-22.5773,0 0/1:127:51,76:51:1832:76:2723:-168.303,0,-115.453 0/1:63:38,25:38:1368:25:891:-48.7644,0,-95.5821 0/1:210:108,102:108:3880:102:3660:-214.194,0,-258.491 0/1:43:29,14:29:1036:14:478:-23.9847,0,-76.6428 0/1:139:70,69:70:2508:69:2455:-144.474,0,-170.779 0/1:76:43,33:43:1544:33:1188:-67.8595,0,-107.274 1/1:174:0,174:0:0:174:6194:-474.809,-52.3792,0 1/1:48:0,48:0:0:48:1706:-130.11,-14.4494,0 0/1:15:4,11:4:144:11:387:-25.172,0,-7.67447 1/1:76:0,76:0:0:76:2708:-206.104,-22.8783,0 1/1:107:0,107:0:0:107:3819:-291.23,-32.2102,0 1/1:124:0,124:0:0:124:4413:-337.01,-37.3277,0 1/1:208:2,206:2:72:206:7340:-555.05,-57.0918,0 1/1:51:0,51:0:0:51:1823:-138.015,-15.3525,0 0/1:69:43,26:43:1540:26:936:-51.0106,0,-104.778 0/1:181:84,97:84:3020:97:3429:-208.21,0,-197.715 0/1:59:14,45:14:500:45:1583:-104.668,0,-24.4945 1/1:90:0,90:0:0:90:3174:-243.577,-27.0927,0 1/1:77:0,77:0:0:77:2748:-205.893,-23.1793,0 chr05 3694256 . C T 32410.2 PASS AB=0.492823;ABP=3.75837;AC=29;AF=0.690476;AN=42;AO=1632;CIGAR=1X;DP=2488;DPB=2488;DPRA=0;EPP=3546.85;EPPR=1861.79;GTI=0;LEN=1;MEANALT=1;MQM=59.9792;MQMR=60;NS=21;NUMALT=1;ODDS=3.32728;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58391;QR=30523;RO=856;RPL=0;RPP=3546.85;RPPR=1861.79;RPR=1632;RUN=1;SAF=1632;SAP=3546.85;SAR=0;SRF=856;SRP=1861.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:137:2,135:2:57:135:4826:-429.078,-35.8278,0 1/1:91:0,91:0:0:91:3264:-293.98,-27.3937,0 0/1:119:66,53:66:2364:53:1892:-134.736,0,-177.196 0/1:151:75,76:75:2688:76:2698:-197.606,0,-196.709 0/1:252:112,140:112:3991:140:5016:-375.727,0,-283.522 0/1:94:57,37:57:2029:37:1332:-91.8856,0,-154.584 1/1:154:0,154:0:0:154:5524:-497.276,-46.3586,0 0/1:168:76,92:76:2703:92:3289:-245.655,0,-192.941 0/1:169:109,60:109:3887:60:2145:-142.442,0,-299.151 0/1:15:13,2:13:468:2:72:-2.32127,0,-37.9442 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:45:0,45:0:0:45:1593:-143.658,-13.5464,0 1/1:105:0,105:0:0:105:3755:-338.113,-31.6082,0 0/1:153:87,66:87:3090:66:2368:-167.32,0,-232.271 0/1:225:111,114:111:3980:114:4076:-299.295,0,-290.658 0/1:108:45,63:45:1611:63:2268:-171.871,0,-112.768 1/1:111:1,110:1:32:110:3918:-349.609,-30.215,0 0/1:141:69,72:69:2459:72:2588:-190.719,0,-179.119 0/1:71:27,44:27:948:44:1575:-120.668,0,-64.2615 1/1:113:4,109:4:144:109:3903:-338.149,-20.7028,0 1/1:60:1,59:1:36:59:2109:-186.479,-14.4635,0 chr05 3721634 . G A 10914.8 PASS AB=0.49923;ABP=3.01699;AC=13;AF=0.309524;AN=42;AO=651;CIGAR=1X;DP=1877;DPB=1877;DPRA=1.63469;EPP=1416.64;EPPR=2663.06;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9453;NS=21;NUMALT=1;ODDS=13.5571;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23300;QR=43626;RO=1225;RPL=0;RPP=1416.64;RPPR=2663.06;RPR=651;RUN=1;SAF=651;SAP=1416.64;SAR=0;SRF=1225;SRP=2663.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:114,1:114:4028:1:36:0,-31.38,-359.108 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/1:97:55,42:55:1972:42:1474:-103.751,0,-148.555 0/1:85:29,56:29:1040:56:2008:-155.406,0,-68.2707 0/1:219:104,115:104:3686:115:4132:-306.137,0,-266.015 0/1:56:29,27:29:1025:27:960:-69.858,0,-75.703 0/0:108:108,0:108:3857:0:0:0,-32.5112,-347.325 0/1:127:61,66:61:2173:66:2364:-174.788,0,-157.603 0/1:189:81,108:81:2912:108:3884:-292.858,0,-205.391 0/1:7:3,4:3:104:4:144:-11.2064,0,-7.5956 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:129:129,0:129:4632:0:0:0,-38.8329,-417.041 0/1:107:55,52:55:1960:52:1845:-134.118,0,-144.465 0/1:201:110,91:110:3929:91:3257:-232.842,0,-293.294 0/1:57:25,32:25:885:32:1152:-86.8314,0,-62.8078 0/0:48:48,0:48:1698:0:0:0,-14.4494,-153.046 0/1:85:44,41:44:1569:41:1468:-106.828,0,-115.912 0/1:63:51,12:51:1820:12:432:-20.2563,0,-145.116 0/0:94:92,2:92:3220:2:72:0,-21.4601,-283.184 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 chr05 3721650 . GTCTTGTT GT 20620.7 PASS AB=0.471637;ABP=11.6328;AC=29;AF=0.690476;AN=42;AO=1100;CIGAR=1M6D1M;DP=1756;DPB=931;DPRA=0;EPP=2365.64;EPPR=1390.79;GTI=0;LEN=6;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.72749;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38243;QR=22821;RO=655;RPL=3;RPP=2365.64;RPPR=1390.79;RPR=1097;RUN=1;SAF=1100;SAP=2391.63;SAR=0;SRF=655;SRP=1425.32;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:1,99:1:33:99:3421:-304.808,-26.8039,0 1/1:23:0,23:0:0:23:807:-72.9492,-6.92369,0 0/1:93:42,51:42:1457:51:1778:-132.303,0,-103.426 0/1:81:56,24:56:1982:24:836:-51.1157,0,-154.212 0/1:207:116,91:116:4056:91:3211:-226.903,0,-302.922 0/1:51:27,24:27:944:24:848:-61.2871,0,-69.9205 1/1:101:0,101:0:0:101:3497:-314.947,-30.404,0 0/1:121:67,54:67:2319:54:1850:-130.352,0,-172.547 0/1:184:107,77:107:3729:77:2692:-187.136,0,-280.427 0/1:6:4,2:4:135:2:68:-4.65153,0,-10.677 0/1:5:2,3:2:71:3:100:-7.82529,0,-5.23691 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:116:0,116:0:0:116:4018:-361.814,-34.9195,0 0/1:100:53,47:53:1796:47:1618:-115.801,0,-131.815 0/1:189:92,97:92:3201:97:3367:-246.357,0,-231.422 0/1:55:32,23:32:1137:23:781:-54.0461,0,-86.0829 1/1:40:0,40:0:0:40:1408:-127.017,-12.0412,0 0/1:83:41,42:41:1434:42:1468:-107.427,0,-104.371 0/1:59:12,47:12:420:47:1633:-129.495,0,-20.3728 1/1:85:3,82:3:107:82:2832:-245.138,-15.6054,0 1/1:35:0,35:0:0:35:1222:-110.282,-10.5361,0 chr05 3721702 . CTTTTTGA CTTTTTTGA,CATTTTTGA 50701.2 PASS AB=0.504884,0.490232;ABP=3.34968,4.3678;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1648,805;CIGAR=1M1I7M,1M1I7M;DP=2466;DPB=2773.38;DPRA=0,1.32448;EPP=3581.6,1751.05;EPPR=0;GTI=0;LEN=1,1;MEANALT=2.19048,2.4;MQM=59.9472,59.9863;MQMR=0;NS=21;NUMALT=2;ODDS=18.0167;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58325,28370;QR=0;RO=0;RPL=0,0;RPP=3581.6,1751.05;RPPR=0;RPR=1648,805;RUN=1,1;SAF=0,0;SAP=3581.6,1751.05;SAR=1648,805;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,98,1:0:0:98,1:3438,36:-309.002,-29.5009,0,-306.065,-26.2037,-305.764 1/1:35:0,35,0:0:0:35,0:1260,0:-113.705,-10.5361,0,-113.705,-10.5361,-113.705 1/2:142:0,80,61:0:0:80,61:2861,2176:-410.67,-177.384,-153.302,-233.283,0,-214.921 1/2:173:0,71,102:0:0:71,102:2502,3616:-498.632,-294.941,-273.568,-204.044,0,-173.339 1/2:285:0,128,156:0:0:128,156:4516,5517:-817.059,-449.337,-410.805,-367.716,0,-320.755 1/2:106:0,58,48:0:0:58,48:2063,1641:-301.652,-133.52,-116.06,-168.48,0,-154.031 1/1:194:0,191,0:0:0:191,0:6773,0:-609.317,-57.4967,0,-609.317,-57.4967,-609.317 1/2:101:0,49,52:0:0:49,52:1669,1828:-284.535,-149.145,-134.394,-135.736,0,-120.083 1/2:219:0,135,82:0:0:135,82:4734,2867:-618.448,-233.219,-192.58,-385.22,0,-360.535 1/2:25:0,11,14:0:0:11,14:396,496:-73.0739,-40.7598,-37.4485,-32.6714,0,-28.457 1/2:8:0,4,4:0:0:4,4:144,125:-22.1279,-10.3545,-9.15038,-12.1095,0,-10.9054 1/1:30:0,30,0:0:0:30,0:1072,0:-96.7925,-9.0309,0,-96.7925,-9.0309,-96.7925 1/1:169:0,168,0:0:0:168,0:5987,0:-538.62,-50.573,0,-538.62,-50.573,-538.62 1/2:90:0,58,32:0:0:58,32:2000,1106:-252.671,-90.2096,-72.7498,-162.807,0,-153.174 1/2:181:0,102,79:0:0:102,79:3651,2795:-525.743,-228.01,-197.305,-298.089,0,-274.307 1/2:112:0,26,86:0:0:26,86:936,3046:-324.854,-248.48,-240.653,-76.7327,0,-50.8441 1/1:54:0,54,0:0:0:54,0:1940,0:-174.876,-16.2556,0,-174.876,-16.2556,-174.876 1/2:111:0,52,56:0:0:52,56:1848,1981:-312.012,-161.419,-145.765,-150.659,0,-133.801 1/2:85:0,53,31:0:0:53,31:1893,1104:-244.314,-89.979,-74.0244,-154.332,0,-145 1/1:157:0,156,1:0:0:156,1:5474,36:-492.415,-46.9607,0,-489.477,-43.6634,-489.176 1/1:90:0,89,0:0:0:89,0:3168,0:-284.991,-26.7917,0,-284.991,-26.7917,-284.991 chr05 3728104 . TAAATC TAAAATT,TAAATT 80422.1 PASS AB=0.360384,0.632608;ABP=462.014,417.089;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1790,1721;CIGAR=1M1I4M1X,5M1X;DP=3533;DPB=3833.17;DPRA=0,1.66611;EPP=3889.95,3740.11;EPPR=0;GTI=4;LEN=7,1;MEANALT=2.80952,3.25;MQM=59.9832,59.9669;MQMR=0;NS=21;NUMALT=2;ODDS=8.61554;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61982,61153;QR=0;RO=0;RPL=1,901;RPP=3881.26,11.2886;RPPR=0;RPR=1789,820;RUN=1,1;SAF=1,901;SAP=3881.26,11.2886;SAR=1789,820;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:154:0,152,0:0:0:152,0:5261,0:-473.326,-45.7566,0,-473.326,-45.7566,-473.326 1/1:174:0,174,0:0:0:174,0:6045,0:-544.147,-52.3792,0,-544.147,-52.3792,-544.147 1/2:235:0,80,154:0:0:80,154:2732,5483:-668.577,-446.88,-422.798,-221.684,0,-175.325 1/2:240:0,68,170:0:0:68,170:2365,5960:-677.312,-485.023,-464.553,-192.331,0,-141.156 1/2:453:0,145,305:0:0:145,305:5045,10859:-1295.32,-885.113,-841.464,-410.269,0,-318.454 1/2:225:0,65,157:0:0:65,157:2262,5592:-639.768,-455.844,-436.277,-183.975,0,-136.713 1/1:72:0,71,1:0:0:71,1:2464,36:-221.656,-21.3731,0,-218.718,-18.0759,-218.417 1/2:236:0,109,125:0:0:109,125:3789,4451:-670.941,-362.892,-330.08,-308.158,0,-270.529 1/2:262:0,74,186:0:0:74,186:2545,6625:-746.684,-540.006,-517.73,-206.705,0,-150.713 1/2:26:0,6,20:0:0:6,20:208,720:-76.0115,-59.1082,-57.302,-17.2529,0,-11.2323 1/2:11:0,4,7:0:0:4,7:140,244:-31.5833,-20.1922,-18.9881,-11.7405,0,-9.63325 1/1:20:0,20,0:0:0:20,0:696,0:-62.9624,-6.0206,0,-62.9624,-6.0206,-62.9624 1/1:152:0,152,0:0:0:152,0:5288,0:-476.063,-45.7566,0,-476.063,-45.7566,-476.063 1/2:206:0,66,138:0:0:66,138:2291,4891:-584.713,-398.482,-378.614,-186.259,0,-144.717 1/2:351:0,190,160:0:0:190,160:6510,5653:-988.882,-460.419,-403.223,-528.502,0,-480.337 1/2:202:0,59,142:0:0:59,142:2035,5064:-578.2,-412.888,-395.128,-165.388,0,-122.642 1/1:118:0,117,1:0:0:117,1:4052,36:-364.514,-35.2205,0,-361.576,-31.9233,-361.275 1/2:138:0,54,83:0:0:54,83:1891,2972:-396.221,-242.364,-226.109,-153.85,0,-128.864 1/2:126:0,57,68:0:0:57,68:1961,2423:-356.759,-197.506,-180.347,-159.253,0,-138.783 1/1:74:0,69,4:0:0:69,4:2392,144:-215.203,-20.7711,0,-203.453,-8.91753,-202.249 1/1:58:0,58,0:0:0:58,0:2010,0:-181.17,-17.4597,0,-181.17,-17.4597,-181.17 chr05 3728130 . C T 17970.3 PASS AB=0.445338;ABP=51.439;AC=13;AF=0.309524;AN=42;AO=831;CIGAR=1X;DP=2722;DPB=2722;DPRA=1.34148;EPP=249.291;EPPR=2134.32;GTI=0;LEN=1;MEANALT=1;MQM=59.9555;MQMR=59.9683;NS=21;NUMALT=1;ODDS=18.697;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29780;QR=67620;RO=1890;RPL=569;RPP=249.291;RPPR=2134.32;RPR=262;RUN=1;SAF=0;SAP=1807.5;SAR=831;SRF=0;SRP=4107.09;SRR=1890;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:162:162,0:162:5784:0:0:0,-48.7669,-520.674 0/0:181:181,0:181:6476:0:0:0,-54.4864,-582.866 0/1:181:90,91:90:3228:91:3276:-240.567,0,-236.255 0/1:120:71,49:71:2526:49:1755:-122.111,0,-191.465 0/1:281:156,125:156:5572:125:4492:-319.855,0,-416.999 0/1:155:70,85:70:2501:85:3048:-227.889,0,-178.681 0/0:78:78,0:78:2789:0:0:0,-23.4803,-251.249 0/1:211:113,98:113:4033:98:3488:-250.612,0,-299.64 0/1:172:76,96:76:2732:96:3436:-257.674,0,-194.345 0/1:14:6,8:6:216:8:284:-21.6889,0,-15.5761 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4067 0/0:161:161,0:161:5755:0:0:0,-48.4658,-518.046 0/1:139:76,63:76:2724:63:2256:-161.46,0,-203.559 0/1:262:193,69:193:6932:69:2472:-143.864,0,-545.073 0/1:127:62,65:62:2232:65:2336:-172.268,0,-162.912 0/0:120:119,0:119:4276:0:0:0,-35.8226,-384.656 0/1:105:56,49:56:2016:49:1764:-127.427,0,-150.105 0/1:92:62,30:62:2200:30:1065:-68.465,0,-170.568 0/0:75:75,0:75:2660:0:0:0,-22.5772,-239.644 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.349 chr05 3728318 . A G 31316 PASS AB=0.491143;ABP=4.54899;AC=29;AF=0.690476;AN=42;AO=1704;CIGAR=1X;DP=2859;DPB=2859;DPRA=0;EPP=3703.2;EPPR=2506.72;GTI=2;LEN=1;MEANALT=1.09524;MQM=51.2347;MQMR=59.5698;NS=21;NUMALT=1;ODDS=1.41956;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60318;QR=41043;RO=1153;RPL=0;RPP=3703.2;RPPR=2506.72;RPR=1704;RUN=1;SAF=0;SAP=3703.2;SAR=1704;SRF=0;SRP=2506.72;SRR=1153;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,48:0:0:48:1699:-151.912,-14.4494,0 1/1:27:1,26:1:36:26:920:-79.1577,-4.52954,0 0/1:43:24,19:24:856:19:665:-46.9683,0,-64.4044 0/1:22:13,9:13:455:9:316:-22.1137,0,-34.6593 0/1:102:45,57:45:1599:57:2017:-150.447,0,-113.494 0/1:18:7,11:7:252:11:383:-29.3063,0,-17.6104 1/1:68:4,64:4:144:64:2279:-191.05,-7.15642,0 0/1:42:24,18:24:856:18:644:-45.257,0,-64.7072 0/1:72:40,32:40:1432:32:1140:-81.035,0,-107.486 0/1:310:163,147:163:5827:147:5173:-370.279,0,-431.154 0/1:433:216,217:216:7661:217:7669:-552.89,0,-557.797 1/1:314:0,313:0:0:313:11068:-989.585,-94.2224,0 1/1:45:0,45:0:0:45:1576:-140.868,-13.5464,0 0/1:19:7,12:7:243:12:419:-32.2529,0,-16.4879 0/1:54:27,27:27:960:27:960:-70.3062,0,-70.4607 0/1:15:12,3:12:432:3:108:-5.54934,0,-34.7057 1/1:50:0,50:0:0:50:1787:-160.839,-15.0515,0 0/1:1087:561,525:561:19966:525:18599:-1337.93,0,-1468.72 0/1:41:9,32:9:324:32:1140:-90.0769,0,-17.1636 1/1:19:0,19:0:0:19:684:-61.6936,-5.71957,0 1/1:30:0,30:0:0:30:1072:-96.117,-9.0309,0 chr05 3774898 . G A 12813.6 PASS AB=0.344762;ABP=552.476;AC=13;AF=0.309524;AN=42;AO=911;CIGAR=1X;DP=3690;DPB=3690;DPRA=1.72019;EPP=1981.22;EPPR=6035.36;GTI=4;LEN=1;MEANALT=1.05882;MQM=59.9067;MQMR=22.3027;NS=21;NUMALT=1;ODDS=1.14277;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32360;QR=99051;RO=2778;RPL=0;RPP=1981.22;RPPR=6035.36;RPR=911;RUN=1;SAF=911;SAP=1981.22;SAR=0;SRF=2778;SRP=6035.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:90,78:90:3209:78:2781:-199.957,0,-57.1084 0/1:117:63,54:63:2237:54:1890:-135.154,0,-38.5169 0/1:297:195,102:195:6958:102:3612:-235.884,0,-316.846 0/1:197:139,57:139:4927:57:2036:-124.396,0,-233.019 0/1:371:250,121:250:8899:121:4289:-274.507,0,-383.518 0/1:243:150,93:150:5320:93:3328:-226.584,0,-233.671 0/0:197:196,1:196:7009:1:36:0,-58.2042,-234.843 0/1:262:167,95:167:5945:95:3404:-227.705,0,-271.834 0/0:393:393,0:393:14046:0:0:0,-118.305,-630.11 0/0:14:14,0:14:504:0:0:0,-4.21442,-29.7121 0/0:7:7,0:7:252:0:0:0,-2.10721,-11.843 0/1:26:17,9:17:612:9:324:-21.6791,0,-10.6283 0/0:77:76,1:76:2720:1:36:0,-19.581,-80.2868 0/0:231:230,1:230:8205:1:36:0,-65.9397,-424.824 0/1:418:299,119:299:10709:119:4248:-256.665,0,-504 0/1:193:120,73:120:4227:73:2528:-169.599,0,-198.658 0/1:112:63,49:63:2260:49:1740:-123.169,0,-38.1387 0/1:140:101,39:101:3575:39:1392:-83.4348,0,-189.912 0/1:81:65,16:65:2328:16:572:-27.43,0,-92.8048 0/0:116:113,3:113:4037:3:108:0,-24.8443,-115.724 0/0:30:30,0:30:1072:0:0:0,-9.0309,-34.1915 chr05 3774903 . T G 11498.8 PASS AB=0.315344;ABP=842.653;AC=13;AF=0.309524;AN=42;AO=895;CIGAR=1X;DP=3692;DPB=3692;DPRA=1.99123;EPP=1946.48;EPPR=6070.1;GTI=3;LEN=1;MEANALT=1.14286;MQM=40.5754;MQMR=28.5945;NS=21;NUMALT=1;ODDS=13.2104;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31933;QR=100090;RO=2794;RPL=0;RPP=1946.48;RPPR=6070.1;RPR=895;RUN=1;SAF=895;SAP=1946.48;SAR=0;SRF=2794;SRP=6070.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:170:170,0:170:6104:0:0:0,-51.1751,-363.316 0/0:119:119,0:119:4276:0:0:0,-35.8226,-250.868 0/1:297:202,95:202:7256:95:3393:-203.377,0,-348.732 0/1:195:127,67:127:4544:67:2381:-147.534,0,-203.267 0/1:375:267,108:267:9531:108:3833:-219.098,0,-441.477 0/1:238:167,71:167:5980:71:2540:-147.666,0,-307.412 0/0:202:202,0:202:7224:0:0:0,-60.8081,-243.289 0/1:258:181,77:181:6461:77:2745:-161.561,0,-329.87 0/1:391:295,94:295:10588:94:3363:-173.507,0,-212.904 0/1:16:8,8:8:288:8:288:-20.6999,0,-4.83032 0/1:7:5,2:5:180:2:72:-4.50611,0,-3.40535 0/0:29:29,0:29:1044:0:0:0,-8.72987,-55.2476 0/0:78:78,0:78:2800:0:0:0,-23.4803,-90.3267 0/1:225:144,81:144:5124:81:2874:-181.171,0,-99.139 0/1:421:272,149:272:9768:149:5332:-333.284,0,-434.923 0/1:188:130,58:130:4661:58:2088:-124.012,0,-247.758 0/0:113:113,0:113:4037:0:0:0,-34.0164,-233.833 0/1:140:80,60:80:2865:60:2128:-143.62,0,-131.404 0/1:84:60,24:60:2160:24:860:-49.254,0,-77.1304 0/0:116:115,1:115:4132:1:36:0,-31.4388,-128.952 0/0:30:30,0:30:1067:0:0:0,-9.0309,-34.544 chr05 3774915 . A G 18064.6 PASS AB=0.682154;ABP=821.784;AC=29;AF=0.690476;AN=42;AO=2793;CIGAR=1X;DP=3697;DPB=3697;DPRA=0;EPP=5990.01;EPPR=1935.71;GTI=3;LEN=1;MEANALT=1.09524;MQM=28.5832;MQMR=40.5809;NS=21;NUMALT=1;ODDS=14.7241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99808;QR=32357;RO=902;RPL=9;RPP=5990.01;RPPR=1935.71;RPR=2784;RUN=1;SAF=2793;SAP=6067.93;SAR=0;SRF=902;SRP=1961.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:171:0,171:0:0:171:6100:-365.277,-51.4761,0 1/1:120:0,120:0:0:120:4289:-254.403,-36.1236,0 0/1:299:96,203:96:3448:203:7272:-350.711,0,-207.261 0/1:193:69,124:69:2480:124:4444:-198.901,0,-156.578 0/1:372:108,263:108:3880:263:9406:-442.563,0,-223.636 0/1:243:72,171:72:2571:171:6108:-314.163,0,-148.852 1/1:200:0,200:0:0:200:7142:-236.67,-60.206,0 0/1:257:79,178:79:2829:178:6359:-323.833,0,-168.477 0/1:392:95,297:95:3412:297:10635:-217.37,0,-176.703 0/1:15:8,7:8:288:7:252:-3.1542,0,-21.0009 0/1:7:2,5:2:72:5:180:-3.40535,0,-4.50611 1/1:29:0,29:0:0:29:1036:-55.2432,-8.72987,0 1/1:76:0,76:0:0:76:2728:-88.3496,-22.8783,0 0/1:234:83,150:83:2976:150:5293:-101.032,0,-187.043 0/1:418:148,270:148:5305:270:9677:-432.412,0,-332.465 0/1:191:60,131:60:2152:131:4667:-244.202,0,-128.68 1/1:114:0,114:0:0:114:4073:-232.531,-34.3174,0 0/1:138:59,79:59:2120:79:2817:-128.407,0,-143.353 0/1:82:22,60:22:788:60:2156:-77.7303,0,-43.6983 1/1:116:1,115:1:36:115:4111:-128.581,-31.4388,0 1/1:30:0,30:0:0:30:1063:-34.5397,-9.0309,0 chr05 3774947 . CT GC,CC 33794.2 PASS AB=0.657783,0.33681;ABP=562.853,601.885;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2753,877;CIGAR=2X,1M1X;DP=3650;DPB=3650;DPRA=0,1.47252;EPP=5981.07,1907.39;EPPR=9.52472;GTI=4;LEN=2,1;MEANALT=2.33333,2.5;MQM=21.5554,59.9829;MQMR=60;NS=21;NUMALT=2;ODDS=4.04589;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=94968,30396;QR=92;RO=3;RPL=2753,877;RPP=5981.07,1907.39;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=2753,877;SAP=5981.07,1907.39;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:168:0,88,80:0:0:88,80:3040,2754:-293.888,-224.02,-197.529,-70.106,0,-46.0236 1/2:116:0,65,50:0:0:65,50:2265,1735:-197.296,-141.147,-121.58,-56.1709,0,-41.1194 1/2:296:0,197,98:0:0:197,98:6773,3379:-608.37,-274.468,-215.165,-333.847,0,-304.346 1/2:190:0,137,53:0:0:137,53:4687,1798:-382.746,-146.138,-104.897,-236.915,0,-220.96 1/2:364:0,249,114:0:0:249,114:8646,3946:-719.656,-320.815,-245.858,-398.944,0,-364.626 1/2:236:1,151,84:1:36:151,84:5138,2888:-487.01,-231.572,-189.054,-252.743,0,-230.394 1/1:195:0,194,0:0:0:194,0:6669,0:-216.788,-58.3998,0,-216.788,-58.3998,-216.788 1/2:254:1,161,89:1:25:161,89:5564,3095:-526.139,-249.77,-203.252,-274.758,0,-249.915 1/1:393:0,390,0:0:0:390,0:13511,0:-602.27,-117.402,0,-602.27,-117.402,-602.27 1/1:15:0,14,0:0:0:14,0:500,0:-29.4615,-4.21442,0,-29.4615,-4.21442,-29.4615 1/1:7:0,7,0:0:0:7,0:252,0:-11.843,-2.10721,0,-11.843,-2.10721,-11.843 1/2:27:0,17,10:0:0:17,10:606,360:-42.7981,-29.734,-24.6165,-13.335,0,-10.3247 1/1:76:0,75,1:0:0:75,1:2589,32:-83.5693,-22.5773,0,-80.9884,-19.679,-80.6874 1/1:231:1,229,1:1:31:229,1:7724,36:-394.079,-66.4723,0,-391.442,-65.9735,-393.63 1/2:422:0,298,122:0:0:298,122:10379,4229:-869.543,-343.761,-254.054,-525.789,0,-489.064 1/2:186:0,111,71:0:0:111,71:3826,2468:-394.355,-200.699,-167.285,-193.657,0,-172.284 1/2:114:0,63,51:0:0:63,51:2214,1822:-199.075,-148.909,-129.944,-50.4179,0,-35.0654 1/2:134:0,99,35:0:0:99,35:3412,1232:-290.577,-100.648,-70.846,-190.254,0,-179.718 1/2:82:0,67,15:0:0:67,15:2308,523:-141.042,-42.883,-22.714,-98.4794,0,-93.964 1/1:115:0,112,3:0:0:112,3:3873,99:-124.403,-33.7154,0,-116.394,-25.3819,-115.491 1/1:29:0,29,0:0:0:29,0:992,0:-31.2438,-8.72987,0,-31.2438,-8.72987,-31.2438 chr05 3775368 . G C 16427.3 PASS AB=0.597254;ABP=74.813;AC=27;AF=0.642857;AN=42;AO=846;CIGAR=1X;DP=1198;DPB=1198;DPRA=0;EPP=1840.08;EPPR=767.369;GTI=2;LEN=1;MEANALT=1;MQM=55.0792;MQMR=59.9375;NS=21;NUMALT=1;ODDS=0.940162;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29948;QR=12451;RO=352;RPL=0;RPP=1840.08;RPPR=767.369;RPR=846;RUN=1;SAF=0;SAP=1840.08;SAR=846;SRF=0;SRP=767.369;SRR=352;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,53:0:0:53:1892:-170.127,-15.9546,0 1/1:66:0,66:0:0:66:2337:-210.129,-19.868,0 0/1:69:23,46:23:815:46:1625:-125.449,0,-52.8997 0/1:58:27,31:27:944:31:1112:-82.8581,0,-67.7252 0/1:100:34,66:34:1187:66:2338:-180.217,0,-77.0283 0/1:55:25,30:25:888:30:1059:-78.8575,0,-63.6824 1/1:82:0,82:0:0:82:2891:-259.903,-24.6845,0 0/1:40:14,26:14:504:26:917:-70.6816,0,-33.6569 0/1:116:51,65:51:1811:65:2320:-173.977,0,-128.351 0/1:9:2,7:2:72:7:252:-20.287,0,-4.12745 0/1:9:2,7:2:72:7:248:-19.5601,0,-4.12745 1/1:17:0,17:0:0:17:599:-54.1682,-5.11751,0 1/1:61:0,61:0:0:61:2126:-191.379,-18.3628,0 0/1:57:32,25:32:1104:25:884:-62.4061,0,-82.5046 0/1:58:17,41:17:608:41:1437:-111.907,0,-37.5923 0/1:80:27,53:27:968:53:1896:-146.567,0,-63.355 1/1:45:0,45:0:0:45:1589:-142.459,-13.5464,0 0/1:66:28,38:28:1004:38:1347:-101.427,0,-70.8079 0/1:56:19,37:19:672:37:1311:-100.963,0,-43.9492 0/1:62:31,31:31:1082:31:1093:-79.8737,0,-79.0233 0/1:39:20,19:20:720:19:675:-49.276,0,-53.3877 chr05 3775377 . CAGCT GAGCC,CAGCC 24680.1 PASS AB=0.621997,0.369153;ABP=105.267,120.64;AC=29,13;AF=0.690476,0.309524;AN=42;AO=925,296;CIGAR=1X3M1X,4M1X;DP=1231;DPB=1231;DPRA=0,1.06985;EPP=2011.62,645.766;EPPR=0;GTI=2;LEN=5,1;MEANALT=2.19048,2.6;MQM=55.2551,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.137;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32150,10551;QR=0;RO=0;RPL=0,0;RPP=2011.62,645.766;RPPR=0;RPR=925,296;RUN=1,1;SAF=0,0;SAP=2011.62,645.766;SAR=925,296;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1882,0:-169.24,-16.2556,0,-169.24,-16.2556,-169.24 1/1:70:0,70,0:0:0:70,0:2422,0:-217.722,-21.0721,0,-217.722,-21.0721,-217.722 1/2:71:0,49,22:0:0:49,22:1708,792:-203.622,-64.983,-50.2325,-138.995,0,-132.373 1/2:56:0,31,25:0:0:31,25:1104,896:-163.347,-73.4346,-64.1027,-90.2698,0,-82.744 1/2:103:0,71,32:0:0:71,32:2466,1148:-294.035,-93.9969,-72.6237,-200.393,0,-190.76 1/2:58:0,33,24:0:0:33,24:1131,855:-160.657,-69.6858,-59.7518,-90.9613,0,-83.7366 1/1:84:0,84,0:0:0:84,0:2928,0:-263.187,-25.2865,0,-263.187,-25.2865,-263.187 1/2:41:0,26,14:0:0:26,14:912,504:-115.229,-41.1335,-33.3067,-74.1014,0,-69.887 1/2:116:0,66,49:0:0:66,49:2318,1725:-328.945,-140.423,-120.555,-188.514,0,-173.764 1/2:9:0,7,2:0:0:7,2:252,72:-26.764,-6.23466,-4.12745,-20.8891,0,-20.287 1/2:9:0,7,2:0:0:7,2:237,68:-24.8587,-5.85565,-3.74844,-19.3419,0,-18.7399 1/1:17:0,17,0:0:0:17,0:591,0:-53.447,-5.11751,0,-53.447,-5.11751,-53.447 1/1:63:0,63,0:0:0:63,0:2212,0:-199.13,-18.9649,0,-199.13,-18.9649,-199.13 1/2:59:0,25,31:0:0:25,31:828,1091:-155.581,-88.826,-81.3002,-66.7555,0,-57.4236 1/2:60:0,42,17:0:0:42,17:1450,612:-167.607,-49.9408,-37.2975,-117.667,0,-112.549 1/2:81:0,53,28:0:0:53,28:1862,996:-232.911,-81.526,-65.5715,-151.739,0,-143.31 1/1:47:0,46,0:0:0:46,0:1597,0:-142.698,-13.8474,0,-142.698,-13.8474,-142.698 1/2:69:0,41,28:0:0:41,28:1429,1008:-198.579,-82.6075,-70.2653,-116.326,0,-107.897 1/2:59:0,41,18:0:0:41,18:1420,640:-167.455,-52.5108,-40.1685,-115.296,0,-109.878 1/1:63:0,58,3:0:0:58,3:1996,108:-179.431,-17.4597,0,-170.618,-8.63241,-169.715 1/1:42:0,41,1:0:0:41,1:1405,36:-126.324,-12.3422,0,-123.386,-9.04499,-123.085 chr05 3775611 . A G 6594.12 PASS AB=0.362432;ABP=213.911;AC=20;AF=0.47619;AN=42;AO=465;CIGAR=1X;DP=1291;DPB=1291;DPRA=8.01875;EPP=1012.74;EPPR=1770.68;GTI=3;LEN=1;MEANALT=1;MQM=59.9656;MQMR=59.9637;NS=21;NUMALT=1;ODDS=1.56083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16588;QR=29465;RO=826;RPL=465;RPP=1012.74;RPPR=1770.68;RPR=0;RUN=1;SAF=0;SAP=1012.74;SAR=465;SRF=0;SRP=1796.65;SRR=826;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:42,22:42:1508:22:784:-51.618,0,-116.749 0/1:38:23,15:23:824:15:540:-37.4974,0,-63.0442 0/1:73:58,15:58:2088:15:540:-26.9613,0,-166.215 0/1:28:18,10:18:644:10:349:-23.3159,0,-49.8618 0/1:103:67,36:67:2387:36:1288:-85.2175,0,-184.081 0/1:34:24,10:24:864:10:356:-22.1462,0,-67.8475 0/1:75:52,23:52:1864:23:828:-52.2669,0,-145.462 0/1:71:41,30:41:1476:30:1066:-74.8779,0,-111.763 0/1:145:97,48:97:3456:48:1707:-110.257,0,-267.605 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:12:10,2:10:356:2:72:-3.22436,0,-28.7689 0/1:101:72,29:72:2571:29:1031:-62.6986,0,-201.077 0/1:75:50,25:50:1780:25:877:-56.6683,0,-137.906 0/1:98:66,32:66:2334:32:1148:-74.1289,0,-180.816 0/1:33:23,10:23:813:10:356:-22.4473,0,-63.5551 0/1:33:27,6:27:964:6:207:-9.03271,0,-77.1428 0/1:78:31,47:31:1116:47:1688:-128.727,0,-77.2714 0/1:93:61,32:61:2180:32:1139:-74.8226,0,-168.47 0/1:82:28,54:28:978:54:1932:-149.472,0,-63.6442 0/1:41:23,18:23:798:18:644:-45.9484,0,-59.7919 chr05 3775619 . T C 15223.6 PASS AB=0.639508;ABP=222.943;AC=22;AF=0.52381;AN=42;AO=841;CIGAR=1X;DP=1310;DPB=1310;DPRA=0;EPP=1829.22;EPPR=1019.26;GTI=3;LEN=1;MEANALT=1.04762;MQM=59.9643;MQMR=59.938;NS=21;NUMALT=1;ODDS=1.4503;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30023;QR=16732;RO=468;RPL=841;RPP=1829.22;RPPR=1019.26;RPR=0;RUN=1;SAF=0;SAP=1829.22;SAR=841;SRF=0;SRP=1019.26;SRR=468;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:22,41:22:792:41:1464:-113.091,0,-52.6408 0/1:38:15,23:15:536:23:828:-63.405,0,-37.1357 0/1:74:15,59:15:540:59:2120:-168.792,0,-26.6603 0/1:28:10,18:10:360:18:648:-50.223,0,-24.3155 0/1:102:36,66:36:1292:66:2327:-178.981,0,-85.8787 0/1:36:11,25:11:392:25:896:-70.1233,0,-24.783 0/1:78:24,54:24:864:54:1940:-151.396,0,-54.6022 0/1:75:30,44:30:1065:44:1571:-119.045,0,-73.5239 0/1:148:48,100:48:1716:100:3575:-277.405,0,-110.162 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:11:2,9:2:72:9:320:-25.831,0,-3.52539 0/1:104:30,74:30:1065:74:2649:-207.241,0,-64.8526 0/1:76:25,51:25:896:51:1758:-135.617,0,-58.0821 0/1:100:32,68:32:1129:68:2436:-189.392,0,-71.8133 0/1:34:10,24:10:360:24:860:-67.4868,0,-22.5093 0/1:35:6,29:6:216:29:1039:-83.2883,0,-9.25289 0/1:79:47,32:47:1684:32:1148:-79.8485,0,-128.066 0/1:94:32,62:32:1148:62:2224:-172.127,0,-75.3214 0/1:81:54,27:54:1921:27:964:-62.6934,0,-148.782 0/1:39:18,21:18:648:21:752:-56.2661,0,-46.9117 chr05 3775623 . G A 635.175 PASS AB=0.179024;ABP=497.874;AC=7;AF=0.166667;AN=42;AO=121;CIGAR=1X;DP=1302;DPB=1302;DPRA=1.9708;EPP=265.758;EPPR=2563.18;GTI=5;LEN=1;MEANALT=1.18182;MQM=59.8926;MQMR=59.961;NS=21;NUMALT=1;ODDS=1.11208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4340;QR=42014;RO=1179;RPL=121;RPP=265.758;RPPR=2563.18;RPR=0;RUN=1;SAF=0;SAP=265.758;SAR=121;SRF=0;SRP=2563.18;SRR=1179;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 0/0:38:38,0:38:1352:0:0:0,-11.4391,-121.98 0/0:74:68,6:68:2423:6:216:0,-2.48571,-198.535 0/1:26:21,5:21:752:5:180:-8.72528,0,-60.1795 0/1:99:87,11:87:3112:11:396:-6.25016,0,-250.585 0/0:34:34,0:34:1211:0:0:0,-10.235,-109.296 0/0:74:74,0:74:2644:0:0:0,-22.2762,-238.207 0/1:74:44,30:44:1559:30:1076:-74.8766,0,-118.325 0/1:146:127,19:127:4524:19:672:-16.828,0,-363.38 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:105:105,0:105:3706:0:0:0,-31.6081,-333.375 0/0:81:74,6:74:2635:6:216:0,-4.65171,-217.607 0/0:102:93,9:93:3311:9:324:0,-1.1992,-268.704 0/1:33:28,5:28:1008:5:180:-6.61808,0,-81.1024 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.745 0/1:81:61,20:61:2175:20:720:-40.7453,0,-171.632 0/1:94:85,9:85:3011:9:324:-1.20904,0,-242.914 0/0:81:80,1:80:2860:1:36:0,-20.7852,-254.04 0/0:40:40,0:40:1431:0:0:0,-12.0412,-129.087 chr05 3786375 . T C 10525 PASS AB=0.540865;ABP=21.1129;AC=13;AF=0.309524;AN=42;AO=676;CIGAR=1X;DP=1954;DPB=1954;DPRA=1.21404;EPP=1470.93;EPPR=2778.15;GTI=0;LEN=1;MEANALT=1;MQM=39.5473;MQMR=28.1064;NS=21;NUMALT=1;ODDS=7.1777;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24142;QR=45681;RO=1278;RPL=0;RPP=1470.93;RPPR=2778.15;RPR=676;RUN=1;SAF=0;SAP=1470.93;SAR=676;SRF=0;SRP=2778.15;SRR=1278;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:91,0:91:3264:0:0:0,-27.3937,-217.066 0/0:80:80,0:80:2865:0:0:0,-24.0824,-217.504 0/1:50:23,27:23:820:27:972:-67.4531,0,-39.9169 0/1:160:80,80:80:2861:80:2837:-193.935,0,-142.202 0/1:335:164,171:164:5834:171:6117:-421.493,0,-289.545 0/1:122:55,67:55:1972:67:2407:-175.141,0,-113.607 0/0:107:107,0:107:3836:0:0:0,-32.2102,-292.321 0/1:58:21,37:21:743:37:1324:-98.5266,0,-36.9044 0/1:149:62,87:62:2228:87:3096:-215.165,0,-93.412 0/1:4:2,2:2:72:2:72:-5.22469,0,-4.73235 0/1:7:3,4:3:108:4:144:-10.425,0,-6.4455 0/0:37:37,0:37:1332:0:0:0,-11.1381,-95.0944 0/0:105:105,0:105:3776:0:0:0,-31.6081,-252.161 0/1:101:57,44:57:2037:44:1569:-104.128,0,-105.92 0/1:116:58,58:58:2080:58:2065:-142.289,0,-105.091 0/1:129:39,90:39:1389:90:3219:-231.353,0,-48.098 0/0:136:136,0:136:4830:0:0:0,-40.9401,-303.361 0/1:11:4,7:4:144:7:248:-18.8993,0,-6.40262 0/1:6:5,1:5:176:1:36:-1.64831,0,-10.3151 0/0:136:135,1:135:4810:1:36:0,-37.4191,-342.474 0/0:14:14,0:14:504:0:0:0,-4.21442,-37.8223 chr05 3899969 . T C 10124 PASS AB=0.436821;ABP=54.0458;AC=13;AF=0.309524;AN=42;AO=645;CIGAR=1X;DP=2685;DPB=2685;DPRA=0.748663;EPP=1403.61;EPPR=4430.64;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9535;MQMR=59.9912;NS=21;NUMALT=1;ODDS=2.0603;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23040;QR=72414;RO=2039;RPL=645;RPP=1403.61;RPPR=4430.64;RPR=0;RUN=1;SAF=0;SAP=1403.61;SAR=645;SRF=0;SRP=4430.64;SRR=2039;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:425:425,0:425:15085:0:0:0,-127.938,-1357.35 0/0:125:125,0:125:4405:0:0:0,-37.6287,-396.62 0/1:61:36,25:36:1266:25:900:-62.9582,0,-95.8758 0/1:156:98,58:98:3486:58:2045:-137.358,0,-266.988 0/1:254:151,103:151:5390:103:3677:-254.044,0,-408.767 0/1:135:79,56:79:2825:56:2001:-139.724,0,-213.848 0/0:214:214,0:214:7634:0:0:0,-64.4204,-687.097 0/1:117:68,49:68:2429:49:1745:-122.112,0,-183.643 0/1:177:83,93:83:2919:93:3337:-247.353,0,-209.75 0/1:19:13,6:13:453:6:216:-14.0709,0,-35.3801 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/0:25:25,0:25:888:0:0:0,-7.52575,-80.239 0/0:146:145,1:145:5162:1:36:0,-40.3521,-461.122 0/1:135:76,59:76:2724:59:2116:-150.07,0,-204.762 0/1:168:102,66:102:3637:66:2372:-163.165,0,-276.961 0/1:139:69,70:69:2469:70:2490:-182.508,0,-180.619 0/0:100:100,0:100:3480:0:0:0,-30.103,-313.41 0/1:48:23,25:23:828:25:896:-66.5109,0,-60.3947 0/1:56:27,29:27:972:29:1029:-76.0635,0,-70.9402 0/0:132:131,1:131:4674:1:36:0,-36.1377,-417.221 0/0:46:46,0:46:1580:0:0:0,-13.8474,-142.482 chr05 3933389 . TATTA GATTG,TATTG 158281 PASS AB=0.525143,0.471488;ABP=24.1937,30.2522;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4115,1828;CIGAR=1X3M1X,4M1X;DP=5960;DPB=5961.6;DPRA=0,1.46247;EPP=8938.62,3972.46;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.52381,2.82353;MQM=59.8219,59.9765;MQMR=0;NS=21;NUMALT=2;ODDS=78.7903;PAIRED=0,0;PAIREDR=0;PAO=6,2;PQA=212,72;PQR=0;PRO=0;QA=144550,64920;QR=0;RO=0;RPL=1940,804;RPP=32.1524,60.5044;RPPR=0;RPR=2175,1024;RUN=1,1;SAF=1940,804;SAP=32.1524,60.5044;SAR=2175,1024;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:339:0,336,2:0:0:336,2:11809,68:-1062.14,-101.146,0,-1056.62,-95.6403,-1056.02 1/1:286:0,286,0:0:0:286,0:10063,0:-905.513,-86.0946,0,-905.513,-86.0946,-905.513 1/2:205:0,111,93:0:0:111,93:3899,3284:-584.603,-267.422,-234.008,-317.173,0,-289.178 1/2:328:0,162,164:0:0:162,164:5697,5829:-938.731,-474.997,-426.23,-463.727,0,-414.358 1/2:634:0,332,302:0:0:332,302:11653,10737:-1823.62,-875.325,-775.383,-948.643,0,-857.732 1/2:265:0,148,116:0:0:148,116:5211,4132:-761.115,-336.883,-292.331,-424.325,0,-389.405 1/1:405:0,402,2:0:0:402,2:14105,63:-1268.83,-121.014,0,-1263.76,-115.905,-1263.16 1/2:258:0,129,129:0:0:129,129:4512,4591:-741.572,-374.524,-335.691,-367.4,0,-328.568 1/2:528:0,254,274:0:0:254,274:8904,9751:-1518.96,-794.419,-717.957,-724.522,0,-642.039 1/2:47:0,23,24:0:0:23,24:813,844:-135.269,-69.0542,-62.1305,-66.5674,0,-59.3427 1/2:29:0,13,16:0:0:13,16:453,576:-84.185,-47.3585,-43.4451,-37.1799,0,-32.3634 1/1:96:0,96,0:0:0:96,0:3387,0:-305.035,-28.8989,0,-305.035,-28.8989,-305.035 1/1:298:0,298,0:0:0:298,0:10448,0:-940.26,-89.7069,0,-940.26,-89.7069,-940.26 1/2:271:0,147,122:0:0:147,122:5124,4318:-768.444,-351.748,-307.496,-416.724,0,-379.998 1/2:571:0,292,278:0:0:292,278:10258,9899:-1641.67,-806.877,-718.976,-834.857,0,-751.171 1/2:292:0,176,115:0:0:176,115:6202,4065:-835.935,-330.999,-278.018,-504.869,0,-470.251 1/1:223:0,222,1:0:0:222,1:7762,36:-698.25,-66.8287,0,-695.312,-63.5314,-695.011 1/2:249:0,134,111:0:0:134,111:4675,3926:-700.01,-319.82,-279.482,-380.242,0,-346.828 1/2:181:0,105,75:0:0:105,75:3713,2661:-519.268,-216.857,-185.249,-302.464,0,-279.887 1/1:309:0,304,4:0:0:304,4:10767,140:-968.589,-91.5131,0,-957.198,-80.0821,-955.994 1/1:146:0,145,0:0:0:145,0:5095,0:-458.334,-43.6494,0,-458.334,-43.6494,-458.334 chr05 3942695 . G A 9460.08 PASS AB=0.456318;ABP=24.2575;AC=13;AF=0.309524;AN=42;AO=590;CIGAR=1X;DP=1878;DPB=1878;DPRA=2.01921;EPP=1232.59;EPPR=2705.14;GTI=0;LEN=1;MEANALT=1;MQM=44.6237;MQMR=59.2741;NS=21;NUMALT=1;ODDS=26.2026;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21089;QR=45839;RO=1288;RPL=6;RPP=1232.59;RPPR=2705.14;RPR=584;RUN=1;SAF=590;SAP=1284.18;SAR=0;SRF=1288;SRP=2799.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/0:69:67,2:67:2387:2:72:0,-14.0289,-208.158 0/1:98:47,51:47:1680:51:1832:-132.722,0,-121.874 0/1:66:30,36:30:1071:36:1292:-94.5512,0,-76.7138 0/1:206:114,92:114:4079:92:3284:-228.727,0,-305.032 0/1:61:38,23:38:1368:23:820:-54.7663,0,-105.058 0/0:167:166,1:166:5872:1:36:0,-46.7235,-524.577 0/1:81:45,36:45:1608:36:1296:-90.4196,0,-120.587 0/1:209:91,118:91:3250:118:4209:-309.211,0,-229.501 0/1:21:12,9:12:432:9:320:-22.4393,0,-32.8996 0/1:22:16,6:16:567:6:216:-12.832,0,-44.6784 0/0:39:38,1:38:1347:1:32:0,-8.56139,-118.295 0/0:125:124,1:124:4387:1:36:0,-34.0802,-391.273 0/1:123:56,67:56:2016:67:2400:-175.474,0,-144.518 0/1:110:56,54:56:1978:54:1928:-137.843,0,-145.152 0/1:46:25,21:25:900:21:752:-53.2399,0,-67.4174 0/0:65:65,0:65:2288:0:0:0,-19.5669,-206.065 0/1:173:119,54:119:4231:54:1916:-118.222,0,-328.638 0/1:66:48,18:48:1715:18:648:-37.4587,0,-133.953 0/0:36:36,0:36:1268:0:0:0,-10.8371,-114.393 0/0:57:57,0:57:2039:0:0:0,-17.1587,-183.668 chr05 3942713 . G A 25831 PASS AB=0.544678;ABP=25.324;AC=29;AF=0.690476;AN=42;AO=1296;CIGAR=1X;DP=1886;DPB=1886;DPRA=0;EPP=2817.24;EPPR=1284.18;GTI=0;LEN=1;MEANALT=1;MQM=59.2076;MQMR=44.6458;NS=21;NUMALT=1;ODDS=20.6675;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46335;QR=20999;RO=590;RPL=1296;RPP=2817.24;RPPR=1284.18;RPR=0;RUN=1;SAF=1296;SAP=2817.24;SAR=0;SRF=590;SRP=1284.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40:0:0:40:1428:-128.818,-12.0412,0 1/1:68:2,66:2:72:66:2364:-206.089,-13.7279,0 0/1:102:53,49:53:1908:49:1760:-127.865,0,-138.238 0/1:68:38,30:38:1349:30:1068:-75.8397,0,-99.5045 0/1:210:94,116:94:3368:116:4125:-307.904,0,-234.91 0/1:60:23,37:23:824:37:1320:-101.04,0,-55.4017 1/1:166:1,165:1:36:165:5911:-528.113,-46.4225,0 0/1:82:37,45:37:1328:45:1599:-119.49,0,-92.9785 0/1:204:112,92:112:3987:92:3308:-236.19,0,-291.47 0/1:20:9,11:9:324:11:392:-29.5995,0,-23.0772 0/1:23:7,16:7:248:16:568:-44.4685,0,-15.3868 1/1:38:0,38:0:0:38:1364:-123.005,-11.4391,0 1/1:127:1,126:1:36:126:4500:-401.447,-34.6823,0 0/1:125:69,56:69:2449:56:2012:-143.556,0,-179.431 0/1:107:52,55:52:1868:55:1966:-144.998,0,-133.345 0/1:47:21,26:21:747:26:919:-68.8544,0,-52.4995 1/1:66:0,66:0:0:66:2371:-213.487,-19.868,0 0/1:175:54,121:54:1843:121:4328:-336.717,0,-111.151 0/1:64:17,47:17:612:47:1668:-130.304,0,-34.8669 1/1:36:0,36:0:0:36:1288:-116.161,-10.8371,0 1/1:58:0,58:0:0:58:2076:-186.996,-17.4597,0 chr05 3942717 . G A 9289.09 PASS AB=0.462569;ABP=18.4536;AC=13;AF=0.309524;AN=42;AO=592;CIGAR=1X;DP=1844;DPB=1844;DPRA=2.02451;EPP=1288.52;EPPR=2719.52;GTI=0;LEN=1;MEANALT=1.05882;MQM=44.652;MQMR=59.295;NS=21;NUMALT=1;ODDS=10.2828;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21197;QR=44465;RO=1251;RPL=592;RPP=1288.52;RPPR=2719.52;RPR=0;RUN=1;SAF=592;SAP=1288.52;SAR=0;SRF=1251;SRP=2719.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:39,0:39:1380:0:0:0,-11.7402,-124.499 0/0:67:65,2:65:2311:2:72:0,-13.4268,-201.366 0/1:100:49,51:49:1704:51:1828:-131.908,0,-123.424 0/1:63:25,38:25:888:38:1360:-101.569,0,-61.1618 0/1:205:111,94:111:3980:94:3372:-236.748,0,-296.338 0/1:58:35,23:35:1247:23:824:-56.0038,0,-95.0743 0/0:160:159,1:159:5659:1:36:0,-44.6163,-505.469 0/1:81:43,38:43:1527:38:1360:-96.1395,0,-113.299 0/1:204:90,114:90:3215:114:4080:-298.703,0,-227.857 0/1:21:12,9:12:428:9:324:-22.7762,0,-32.5372 0/1:19:15,4:15:532:4:144:-7.40994,0,-42.4338 0/0:37:36,1:36:1288:1:36:0,-7.58959,-112.619 0/0:119:118,1:118:4205:1:36:0,-32.2741,-374.909 0/1:125:56,69:56:2003:69:2480:-181.915,0,-142.746 0/1:111:56,54:56:2004:54:1925:-137.26,0,-147.257 0/1:46:25,21:25:896:21:748:-52.9054,0,-67.0568 0/0:62:62,0:62:2216:0:0:0,-18.6639,-199.568 0/1:170:116,54:116:4060:54:1924:-119.447,0,-314.185 0/1:66:48,18:48:1703:18:648:-37.4587,0,-132.818 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.502 0/0:58:58,0:58:2039:0:0:0,-17.4597,-183.701 chr05 3963880 . A G 75795.2 PASS AB=0.663724;ABP=899.636;AC=25;AF=0.595238;AN=42;AO=3316;CIGAR=1X;DP=4915;DPB=4915;DPRA=0.936948;EPP=7194.93;EPPR=3309.95;GTI=3;LEN=1;MEANALT=1.05;MQM=46.1607;MQMR=43.1952;NS=21;NUMALT=1;ODDS=6.93608;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=117533;QR=56832;RO=1598;RPL=1562;RPP=27.1506;RPPR=142.158;RPR=1754;RUN=1;SAF=1563;SAP=26.6503;SAR=1753;SRF=658;SRP=111.073;SRR=940;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:262:146,116:146:5191:116:4072:-267.273,0,-316.032 0/1:144:82,62:82:2919:62:2209:-138.236,0,-179.103 0/1:103:12,91:12:428:91:3212:-239.949,0,-7.38472 0/1:260:117,143:117:4155:143:5047:-349.409,0,-256.47 0/1:601:201,400:201:7141:400:14133:-1043.48,0,-369.505 0/1:408:80,328:80:2864:328:11638:-787.26,0,-91.5382 0/1:550:198,352:198:6989:352:12447:-856.573,0,-313.145 0/0:249:249,0:249:8912:0:0:0,-74.9565,-647.462 1/1:236:21,214:21:752:214:7605:-597.08,-7.68939,0 1/1:10:0,10:0:0:10:356:-29.9913,-3.0103,0 0/1:9:2,7:2:72:7:248:-16.5665,0,-4.12745 0/1:13:3,10:3:108:10:356:-26.0779,0,-6.16178 0/1:177:36,141:36:1288:141:5010:-378.051,0,-59.9789 1/1:192:12,180:12:432:180:6312:-501.327,-18.6913,0 0/1:532:201,331:201:7116:331:11826:-857.011,0,-394.879 0/1:276:68,208:68:2432:208:7422:-563.914,0,-121.609 0/1:273:58,215:58:2059:215:7585:-574.566,0,-86.4926 0/1:127:57,70:57:2024:70:2464:-167.05,0,-116.045 0/1:116:34,82:34:1198:82:2898:-210.519,0,-64.2284 1/1:298:19,279:19:680:279:9950:-782.645,-31.737,0 1/1:79:2,77:2:72:77:2743:-217.232,-16.9479,0 chr05 3963906 . A C 11182.2 PASS AB=0.300668;ABP=932.758;AC=12;AF=0.285714;AN=42;AO=995;CIGAR=1X;DP=4045;DPB=4045;DPRA=2.58826;EPP=393.502;EPPR=551.847;GTI=0;LEN=1;MEANALT=1;MQM=34.6573;MQMR=44.2118;NS=21;NUMALT=1;ODDS=12.8928;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35068;QR=108771;RO=3050;RPL=995;RPP=2163.63;RPPR=6190.43;RPR=0;RUN=1;SAF=286;SAP=393.502;SAR=709;SRF=1035;SRP=686.775;SRR=2015;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:255:157,98:157:5612:98:3491:-168.326,0,-399.992 0/1:82:53,29:53:1885:29:1044:-29.9237,0,-125.466 0/0:103:103,0:103:3633:0:0:0,-31.0061,-308.824 0/1:244:161,83:161:5745:83:2900:-148.752,0,-414.003 0/1:582:427,155:427:15177:155:5473:-235.221,0,-1124.19 0/0:286:247,39:247:8846:39:1400:0,-6.6742,-569.632 0/1:310:187,123:187:6640:123:4370:-146.663,0,-402.366 1/1:146:2,144:2:72:144:5108:-288.428,-37.3371,0 0/0:236:236,0:236:8390:0:0:0,-71.0431,-726.209 0/0:6:6,0:6:216:0:0:0,-1.80618,-17.18 0/0:6:6,0:6:216:0:0:0,-1.80618,-16.0897 0/0:9:9,0:9:324:0:0:0,-2.70927,-26.9112 0/0:176:176,0:176:6262:0:0:0,-52.9813,-542.183 0/0:198:198,0:198:7061:0:0:0,-59.6039,-600.683 0/1:506:335,171:335:11988:171:5966:-303.092,0,-871.913 0/1:268:221,47:221:7873:47:1597:-51.4173,0,-601.927 0/1:266:225,41:225:8023:41:1410:-30.4468,0,-612.928 0/1:71:39,32:39:1392:32:1137:-50.0462,0,-85.8454 0/1:110:79,31:79:2836:31:1100:-55.216,0,-205.195 0/0:142:140,2:140:5032:2:72:0,-37.8033,-391.372 0/0:43:43,0:43:1548:0:0:0,-12.9443,-114.109 chr05 4148905 . CCCCTC CCTCTT 9682.93 PASS AB=0.41342;ABP=33.0913;AC=31;AF=0.738095;AN=42;AO=513;CIGAR=2M1X2M1X;DP=791;DPB=792.167;DPRA=0;EPP=1116.98;EPPR=591.479;GTI=0;LEN=6;MEANALT=1.33333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.24714;PAIRED=0;PAIREDR=0;PAO=2;PQA=56;PQR=56;PRO=2;QA=17762;QR=9282;RO=271;RPL=513;RPP=1116.98;RPPR=591.479;RPR=0;RUN=1;SAF=513;SAP=1116.98;SAR=0;SRF=271;SRP=591.479;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:1,45:1:34:45:1577:-138.821,-10.4485,0 1/1:20:0,20:0:0:20:700:-63.322,-6.0206,0 0/1:47:28,18:28:958:18:631:-42.9092,0,-72.3216 0/1:30:17,13:17:574:13:451:-31.8893,0,-42.9482 0/1:72:51,21:51:1760:21:749:-46.0616,0,-137.009 0/1:34:20,14:20:700:14:482:-33.4719,0,-53.0889 1/1:57:0,56:0:0:56:1929:-173.546,-16.8577,0 0/1:37:13,23:13:424:23:781:-59.3488,0,-27.2228 0/1:147:88,57:88:3016:57:1985:-134.914,0,-227.668 0/1:5:4,1:4:144:1:32:-1.69416,0,-11.8085 0/1:7:5,2:5:165:2:71:-4.63485,0,-13.0682 1/1:10:0,10:0:0:10:340:-30.9274,-3.0103,0 1/1:37:1,36:1:35:36:1271:-111.193,-7.63948,0 0/1:42:26,16:26:885:16:546:-36.819,0,-67.3182 1/1:60:0,58:0:0:58:2021:-181.889,-17.4597,0 1/1:25:0,25:0:0:25:851:-76.9002,-7.52575,0 1/1:14:0,14:0:0:14:450:-40.8077,-4.21442,0 0/1:25:10,15:10:340:15:521:-39.6927,0,-23.4029 0/1:16:5,11:5:176:11:372:-28.9889,0,-11.3689 1/1:49:2,47:2:71:47:1616:-138.955,-8.0385,0 1/1:11:0,11:0:0:11:386:-35.0763,-3.31133,0 chr05 4218064 . G C 16922.9 PASS AB=0.394118;ABP=201.662;AC=11;AF=0.261905;AN=42;AO=805;CIGAR=1X;DP=4006;DPB=4006;DPRA=0.959044;EPP=10.5875;EPPR=302.196;GTI=1;LEN=1;MEANALT=1;MQM=59.8547;MQMR=59.9191;NS=21;NUMALT=1;ODDS=15.3345;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28715;QR=114264;RO=3200;RPL=805;RPP=1751.05;RPPR=6822.04;RPR=0;RUN=1;SAF=376;SAP=10.5875;SAR=429;SRF=1253;SRP=329.841;SRR=1947;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:235:235,0:235:8428:0:0:0,-70.742,-758.43 0/0:190:190,0:190:6808:0:0:0,-57.1957,-612.593 0/1:99:51,48:51:1783:48:1703:-123.745,0,-130.946 0/1:243:126,117:126:4482:117:4185:-303.672,0,-330.393 0/1:391:207,184:207:7378:184:6534:-470.439,0,-546.368 0/1:167:122,45:122:4380:45:1612:-94.4678,0,-344.1 0/0:280:280,0:280:9997:0:0:0,-84.2884,-899.661 0/1:158:88,70:88:3112:70:2504:-178.045,0,-232.742 0/1:300:172,128:172:6129:128:4562:-320.375,0,-461.367 0/1:47:20,27:20:708:27:972:-73.6449,0,-49.8948 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:41:40,0:40:1428:0:0:0,-12.0412,-128.458 0/0:247:247,0:247:8835:0:0:0,-74.3544,-795.137 0/1:226:125,101:125:4456:101:3602:-256.347,0,-332.809 0/0:283:283,0:283:10107:0:0:0,-85.1915,-909.558 0/0:183:183,0:183:6538:0:0:0,-55.0885,-588.404 0/0:155:155,0:155:5532:0:0:0,-46.6596,-497.996 0/1:112:80,32:80:2868:32:1137:-68.9216,0,-224.597 0/1:293:243,50:243:8696:50:1796:-73.7205,0,-694.389 0/0:208:207,1:207:7388:1:36:0,-59.016,-661.339 0/0:144:144,0:144:5139:0:0:0,-43.3483,-462.567 chr05 4229338 . C T 34897.6 PASS AB=0.524492;ABP=7.37141;AC=32;AF=0.761905;AN=42;AO=1291;CIGAR=1X;DP=1689;DPB=1689;DPRA=0;EPP=2789.04;EPPR=867.256;GTI=0;LEN=1;MEANALT=1;MQM=59.9729;MQMR=60;NS=21;NUMALT=1;ODDS=8.40064;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46132;QR=14169;RO=398;RPL=551;RPP=63.0933;RPPR=4.07967;RPR=740;RUN=1;SAF=551;SAP=63.0933;SAR=740;SRF=192;SRP=4.07967;SRR=206;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88:0:0:88:3145:-283.274,-26.4906,0 1/1:80:0,80:0:0:80:2870:-258.536,-24.0824,0 0/1:56:34,22:34:1205:22:792:-54.748,0,-91.8962 0/1:115:64,51:64:2270:51:1828:-130.183,0,-169.941 0/1:126:61,65:61:2192:65:2316:-170.77,0,-159.616 0/1:71:26,45:26:917:45:1597:-122.645,0,-61.4715 1/1:104:0,104:0:0:104:3703:-333.471,-31.3071,0 0/1:81:39,42:39:1396:42:1497:-110.639,0,-101.556 0/1:97:46,51:46:1615:51:1832:-135.961,0,-116.436 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:10:6,4:6:216:4:140:-9.93428,0,-16.7802 1/1:22:0,22:0:0:22:777:-70.2514,-6.62266,0 1/1:87:0,87:0:0:87:3102:-279.406,-26.1896,0 0/1:62:24,38:24:860:38:1350:-103.134,0,-59.058 1/1:125:0,125:0:0:125:4490:-404.267,-37.6288,0 1/1:76:0,76:0:0:76:2732:-246.122,-22.8783,0 1/1:47:0,47:0:0:47:1665:-150.135,-14.1484,0 0/1:92:45,47:45:1612:47:1692:-124.872,0,-117.675 0/1:127:53,74:53:1886:74:2638:-199.434,0,-131.786 1/1:112:0,112:0:0:112:4013:-361.357,-33.7154,0 1/1:107:0,107:0:0:107:3809:-343.003,-32.2102,0 chr05 4229354 . TTTCA TTTCT,CTTCT 46911.5 PASS AB=0.513921,0.483759;ABP=4.46131,4.98528;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1297,417;CIGAR=4M1X,1X3M1X;DP=1717;DPB=1717;DPRA=0,1.10901;EPP=57.8597,5.765;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.61905,2.2;MQM=59.9746,60;MQMR=0;NS=21;NUMALT=2;ODDS=6.78024;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46326,14695;QR=0;RO=0;RPL=1296,416;RPP=2810.73,899.849;RPPR=0;RPR=1,1;RUN=1,1;SAF=557,196;SAP=59.0785,6.2649;SAR=740,221;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91,0:0:0:91,0:3256,0:-293.261,-27.3937,0,-293.261,-27.3937,-293.261 1/1:78:0,78,0:0:0:78,0:2795,0:-251.789,-23.4803,0,-251.789,-23.4803,-251.789 1/2:59:0,23,35:0:0:23,35:820,1230:-167.011,-100.166,-93.242,-66.8965,0,-56.3605 1/2:117:0,51,66:0:0:51,66:1811,2339:-338.466,-190.902,-175.549,-147.918,0,-128.05 1/2:131:0,67,64:0:0:67,64:2388,2265:-379.499,-184.845,-164.676,-195.009,0,-175.743 1/2:72:0,45,27:0:0:45,27:1612,964:-210.416,-78.9492,-65.4028,-131.824,0,-123.696 1/1:104:0,104,0:0:0:104,0:3709,0:-334.011,-31.3071,0,-334.011,-31.3071,-334.011 1/2:84:0,43,41:0:0:43,41:1536,1437:-242.519,-117.284,-104.339,-125.589,0,-113.247 1/2:101:0,50,51:0:0:50,51:1781,1779:-290.205,-145.038,-129.986,-145.519,0,-130.167 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:10:0,4,6:0:0:4,6:144,216:-29.734,-17.9843,-16.7802,-12.1095,0,-10.3033 1/1:22:0,22,0:0:0:22,0:788,0:-71.2448,-6.62266,0,-71.2448,-6.62266,-71.2448 1/1:89:0,89,0:0:0:89,0:3188,0:-287.143,-26.7917,0,-287.143,-26.7917,-287.143 1/2:64:0,38,26:0:0:38,26:1356,887:-182.859,-72.3134,-60.8743,-110.893,0,-103.066 1/1:126:0,125,0:0:0:125,0:4468,0:-401.931,-37.6288,0,-401.931,-37.6288,-401.931 1/1:74:0,74,0:0:0:74,0:2631,0:-237.037,-22.2762,0,-237.037,-22.2762,-237.037 1/1:48:0,48,0:0:0:48,0:1720,0:-155.086,-14.4494,0,-155.086,-14.4494,-155.086 1/2:94:0,47,46:0:0:47,46:1676,1613:-267.877,-131.252,-117.103,-136.619,0,-122.772 1/2:130:0,75,55:0:0:75,55:2692,1965:-380.158,-160.569,-137.992,-219.947,0,-203.39 1/1:112:0,112,0:0:0:112,0:3995,0:-359.74,-33.7154,0,-359.74,-33.7154,-359.74 1/1:107:0,107,0:0:0:107,0:3816,0:-343.614,-32.2102,0,-343.614,-32.2102,-343.614 chr05 4254025 . G A 14028.2 PASS AB=0.492806;ABP=3.26025;AC=32;AF=0.761905;AN=42;AO=676;CIGAR=1X;DP=960;DPB=960;DPRA=0;EPP=1427.82;EPPR=577.044;GTI=0;LEN=1;MEANALT=1;MQM=59.9822;MQMR=60;NS=21;NUMALT=1;ODDS=0.624321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24176;QR=10164;RO=284;RPL=671;RPP=1427.82;RPPR=577.044;RPR=5;RUN=1;SAF=0;SAP=1470.93;SAR=676;SRF=0;SRP=619.708;SRR=284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 1/1:45:0,45:0:0:45:1608:-145.01,-13.5464,0 0/1:67:37,30:37:1332:30:1080:-77.3442,0,-100.013 0/1:70:33,37:33:1180:37:1332:-99.1103,0,-85.4359 0/1:85:43,42:43:1532:42:1499:-109.616,0,-112.586 0/1:40:19,21:19:680:21:752:-55.9651,0,-49.488 1/1:64:0,64:0:0:64:2300:-207.261,-19.2659,0 0/1:55:31,24:31:1116:24:849:-60.1487,0,-84.195 0/1:86:50,36:50:1788:36:1292:-90.6952,0,-135.314 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:45:0,45:0:0:45:1604:-144.65,-13.5464,0 0/1:84:37,47:37:1324:47:1674:-125.66,0,-94.1756 1/1:73:0,73:0:0:73:2600:-234.246,-21.9752,0 1/1:45:0,45:0:0:45:1613:-145.46,-13.5464,0 1/1:32:1,31:1:36:31:1112:-96.7931,-6.03469,0 0/1:33:20,13:20:712:13:459:-31.7101,0,-54.4727 0/1:32:10,22:10:360:22:787:-61.5215,0,-23.1113 1/1:35:1,34:1:32:34:1211:-106.096,-7.33674,0 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 chr05 4276150 . A G 10400 PASS AB=0.521665;ABP=7.80894;AC=11;AF=0.261905;AN=42;AO=618;CIGAR=1X;DP=2071;DPB=2071;DPRA=1.59615;EPP=1344.98;EPPR=3155.99;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9904;NS=21;NUMALT=1;ODDS=0.698045;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22003;QR=51928;RO=1452;RPL=0;RPP=1344.98;RPPR=3155.99;RPR=618;RUN=1;SAF=618;SAP=1344.98;SAR=0;SRF=1452;SRP=3155.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:49,0:49:1745:0:0:0,-14.7505,-157.332 0/0:95:95,0:95:3396:0:0:0,-28.5978,-305.855 0/1:129:54,75:54:1944:75:2656:-200.452,0,-136.403 0/1:129:48,80:48:1728:80:2857:-218.474,0,-116.914 0/1:187:79,108:79:2832:108:3865:-291.751,0,-198.826 0/1:88:48,40:48:1728:40:1425:-102.055,0,-129.315 0/0:152:150,2:150:5384:2:72:0,-38.9198,-477.853 0/1:91:41,50:41:1472:50:1785:-133.538,0,-105.382 0/1:194:95,99:95:3393:99:3541:-260.497,0,-247.184 0/1:18:12,6:12:424:6:216:-14.372,0,-33.0779 0/1:8:1,7:1:32:7:252:-20.6207,0,-0.791073 0/0:45:45,0:45:1604:0:0:0,-13.5463,-144.65 0/0:101:101,0:101:3632:0:0:0,-30.404,-327.084 0/1:87:48,39:48:1701:39:1366:-97.0448,0,-127.156 0/0:147:146,1:146:5213:1:36:0,-40.6531,-465.71 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 0/0:77:77,0:77:2722:0:0:0,-23.1793,-245.221 0/1:190:98,92:98:3505:92:3248:-235.345,0,-258.463 0/1:56:38,18:38:1353:18:648:-41.7942,0,-105.211 0/0:101:100,1:100:3560:1:36:0,-26.8058,-317.012 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 chr05 4276246 . T A 25246.5 PASS AB=0.45559;ABP=19.4041;AC=31;AF=0.738095;AN=42;AO=1228;CIGAR=1X;DP=1753;DPB=1753;DPRA=0;EPP=2669.58;EPPR=1140.86;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.3689;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43842;QR=18803;RO=524;RPL=0;RPP=2669.58;RPPR=1140.86;RPR=1228;RUN=1;SAF=0;SAP=2669.58;SAR=1228;SRF=0;SRP=1140.86;SRR=524;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,103:0:0:103:3686:-331.943,-31.0061,0 1/1:49:0,48:0:0:48:1701:-153.014,-14.4494,0 0/1:83:59,24:59:2116:24:853:-52.1039,0,-165.723 0/1:95:62,33:62:2211:33:1188:-78.6307,0,-170.656 0/1:230:131,99:131:4712:99:3551:-250.56,0,-355 0/1:71:36,35:36:1292:35:1252:-91.6119,0,-95.2106 1/1:132:0,132:0:0:132:4731:-425.947,-39.736,0 0/1:54:35,19:35:1252:19:680:-45.2735,0,-96.7295 0/1:174:86,88:86:3096:88:3156:-231.885,0,-226.487 0/1:10:5,5:5:180:5:176:-13.1747,0,-13.5418 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 1/1:123:1,122:1:36:122:4355:-388.527,-33.4284,0 0/1:120:68,52:68:2440:52:1839:-129.666,0,-183.731 1/1:138:0,138:0:0:138:4900:-441.149,-41.5421,0 1/1:56:0,56:0:0:56:1995:-179.823,-16.8577,0 1/1:48:0,48:0:0:48:1716:-154.726,-14.4494,0 0/1:34:11,23:11:396:23:820:-63.8875,0,-25.7477 0/1:80:26,54:26:928:54:1920:-148.995,0,-59.7559 1/1:79:1,78:1:36:78:2796:-248.282,-20.1831,0 1/1:48:1,47:1:36:47:1671:-147.078,-10.8512,0 chr05 4410279 . GTCG ATCA 26861.9 PASS AB=0.532039;ABP=12.1937;AC=31;AF=0.738095;AN=42;AO=1314;CIGAR=1X2M1X;DP=1803;DPB=1803;DPRA=0;EPP=2856.33;EPPR=1025.85;GTI=0;LEN=4;MEANALT=1.47619;MQM=59.9528;MQMR=60;NS=21;NUMALT=1;ODDS=6.52973;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46699;QR=16876;RO=479;RPL=0;RPP=2856.33;RPPR=1025.85;RPR=1314;RUN=1;SAF=1314;SAP=2856.33;SAR=0;SRF=479;SRP=1043.15;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,90:0:0:90:3218:-289.484,-27.0927,0 1/1:70:0,69:0:0:69:2481:-223.252,-20.7711,0 0/1:81:52,29:52:1846:29:1028:-68.4495,0,-142.036 0/1:120:65,55:65:2244:55:1948:-139.471,0,-166.096 0/1:181:73,108:73:2540:108:3848:-292.013,0,-174.361 0/1:106:37,68:37:1316:68:2391:-183.289,0,-86.7738 1/1:80:0,79:0:0:79:2772:-249.491,-23.7814,0 0/1:90:45,45:45:1595:45:1584:-115.756,0,-116.747 0/1:151:63,87:63:2230:87:3093:-233.083,0,-155.45 0/1:17:10,6:10:354:6:215:-14.5231,0,-27.0237 0/1:8:4,4:4:134:4:144:-10.9054,0,-9.98181 1/1:49:0,49:0:0:49:1752:-157.964,-14.7505,0 1/1:124:1,123:1:36:123:4344:-387.538,-33.7294,0 0/1:137:78,57:78:2764:57:2039:-142.783,0,-208.004 1/1:91:0,89:0:0:89:3174:-285.559,-26.7917,0 1/1:57:0,57:0:0:57:2041:-183.962,-17.1587,0 1/1:67:0,67:0:0:67:2375:-214.006,-20.169,0 0/1:80:41,39:41:1467:39:1391:-101.407,0,-108.244 0/1:59:9,50:9:314:50:1786:-143.262,0,-10.8357 1/1:103:1,102:1:36:102:3610:-321.508,-27.4078,0 1/1:41:0,41:0:0:41:1465:-132.146,-12.3422,0 chr05 4410402 . A G 5125.09 PASS AB=0.475831;ABP=6.36919;AC=11;AF=0.261905;AN=42;AO=316;CIGAR=1X;DP=1133;DPB=1133;DPRA=1.29267;EPP=689.196;EPPR=1774.93;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.0034221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11275;QR=28814;RO=816;RPL=316;RPP=689.196;RPPR=1774.93;RPR=0;RUN=1;SAF=0;SAP=689.196;SAR=316;SRF=0;SRP=1774.93;SRR=816;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:90:90,0:90:3182:0:0:0,-27.0927,-286.603 0/0:55:54,1:54:1908:1:36:0,-12.9584,-168.399 0/1:88:44,44:44:1548:44:1584:-116.361,0,-113.121 0/1:54:16,38:16:560:38:1326:-103.38,0,-34.4731 0/1:51:20,31:20:712:31:1112:-85.0388,0,-49.0541 0/1:63:37,26:37:1301:26:936:-65.5946,0,-98.4244 0/0:45:45,0:45:1569:0:0:0,-13.5463,-141.499 0/1:56:28,28:28:980:28:989:-72.4643,0,-71.6525 0/1:188:115,73:115:4093:73:2612:-178.734,0,-311.963 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:11:9,1:9:324:1:36:-0.303064,0,-26.2706 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:44:44,0:44:1568:0:0:0,-13.2453,-141.412 0/1:61:24,37:24:852:37:1324:-101.099,0,-58.6376 0/0:65:65,0:65:2267:0:0:0,-19.5669,-204.291 0/0:68:68,0:68:2403:0:0:0,-20.47,-216.527 0/0:37:37,0:37:1296:0:0:0,-11.1381,-116.938 0/1:46:23,23:23:816:23:816:-59.9138,0,-59.9143 0/1:35:23,12:23:798:12:432:-28.6851,0,-61.6006 0/0:17:17,0:17:597:0:0:0,-5.11751,-54.0561 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 chr05 4411154 . G A 7340.34 PASS AB=0.476695;ABP=7.46366;AC=11;AF=0.261905;AN=42;AO=456;CIGAR=1X;DP=1991;DPB=1991;DPRA=0.930316;EPP=993.202;EPPR=3299.4;GTI=1;LEN=1;MEANALT=1;MQM=59.9825;MQMR=59.9387;NS=21;NUMALT=1;ODDS=4.90502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16221;QR=54227;RO=1534;RPL=0;RPP=993.202;RPPR=3334.05;RPR=456;RUN=1;SAF=0;SAP=993.202;SAR=456;SRF=4;SRP=3299.4;SRR=1530;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:92:91,1:91:3219:1:36:0,-24.0965,-286.331 0/0:84:84,0:84:3000:0:0:0,-25.2865,-270.232 0/1:72:27,45:27:963:45:1609:-123.426,0,-65.3118 0/1:155:83,72:83:2936:72:2561:-184.079,0,-217.778 0/1:150:97,53:97:3411:53:1887:-124.953,0,-262.047 0/1:48:19,29:19:669:29:1031:-78.6532,0,-46.0845 0/0:137:137,0:137:4878:0:0:0,-41.2411,-439.171 0/1:45:20,25:20:708:25:900:-67.7747,0,-50.4992 0/1:184:91,93:91:3210:93:3299:-241.739,0,-233.733 0/1:7:3,4:3:104:4:140:-10.8374,0,-7.5956 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/0:56:56,0:56:1970:0:0:0,-16.8577,-177.572 0/0:109:109,0:109:3855:0:0:0,-32.8123,-347.146 0/1:78:35,43:35:1209:43:1527:-114.241,0,-85.6284 0/0:121:120,0:120:4264:0:0:0,-36.1236,-383.579 0/0:138:138,0:138:4851:0:0:0,-41.5421,-436.748 0/0:90:88,2:88:3107:2:72:0,-20.256,-273.02 0/1:97:57,40:57:2014:40:1427:-99.5269,0,-152.332 0/1:104:59,45:59:2081:45:1592:-112.262,0,-156.252 0/0:169:166,3:166:5876:3:104:0,-41.1713,-519.246 0/0:51:51,0:51:1794:0:0:0,-15.3525,-161.696 chr05 4411194 . AAT GAC,GAT 43857.4 PASS AB=0.528557,0.470405;ABP=9.83138,10.3365;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1597,462;CIGAR=1X1M1X,1X2M;DP=2062;DPB=2064;DPRA=0,0.827987;EPP=3470.85,1006.23;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.90476,2.125;MQM=59.9054,59.9913;MQMR=0;NS=21;NUMALT=2;ODDS=6.59317;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=3;QA=56539,16502;QR=0;RO=0;RPL=1597,462;RPP=3470.85,1006.23;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3470.85,1006.23;SAR=1597,462;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,92,1:0:0:92,1:3272,36:-294.336,-27.6948,0,-291.398,-24.3975,-291.097 1/1:88:0,88,0:0:0:88,0:3130,0:-281.859,-26.4906,0,-281.859,-26.4906,-281.859 1/2:72:0,27,45:0:0:27,45:964,1607:-209.966,-131.373,-123.245,-78.9494,0,-65.4031 1/2:156:0,86,69:0:0:86,69:3027,2472:-448.007,-201.603,-175.714,-246.4,0,-225.629 1/2:155:0,101,54:0:0:101,54:3556,1919:-446.222,-156.731,-126.327,-289.845,0,-273.59 1/2:45:0,18,27:0:0:18,27:637,960:-130.473,-78.5885,-73.1699,-52.2392,0,-44.1114 1/1:146:0,145,0:0:0:145,0:5109,0:-459.732,-43.6494,0,-459.732,-43.6494,-459.732 1/2:49:0,21,28:0:0:21,28:754,1004:-143.754,-82.247,-75.9254,-61.8652,0,-53.4364 1/2:185:0,93,92:0:0:93,92:3318,3276:-537.852,-267.365,-239.369,-270.843,0,-243.148 1/2:9:0,4,5:0:0:4,5:144,176:-26.4327,-14.6795,-13.4753,-12.1095,0,-10.6043 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/1:58:0,58,0:0:0:58,0:2067,0:-186.296,-17.4597,0,-186.296,-17.4597,-186.296 1/1:113:0,112,1:0:0:112,1:3974,36:-357.49,-33.7154,0,-354.553,-30.4181,-354.252 1/2:82:0,38,44:0:0:38,44:1278,1572:-232.048,-128.526,-117.087,-103.868,0,-90.623 1/1:128:0,128,0:0:0:128,0:4560,0:-410.566,-38.5318,0,-410.566,-38.5318,-410.566 1/1:145:0,145,0:0:0:145,0:5140,0:-462.744,-43.6494,0,-462.744,-43.6494,-462.744 1/1:95:0,93,2:0:0:93,2:3283,72:-295.222,-27.9958,0,-289.347,-21.7611,-288.745 1/2:98:0,57,41:0:0:57,41:2044,1476:-287.508,-120.794,-103.635,-167.074,0,-154.731 1/2:108:0,61,47:0:0:61,47:2165,1684:-314.095,-137.698,-119.335,-176.754,0,-162.606 1/1:176:0,172,3:0:0:172,3:6094,104:-548.017,-51.7772,0,-539.564,-43.3339,-538.66 1/1:57:0,55,2:0:0:55,2:1915,72:-172.258,-16.5567,0,-166.383,-10.322,-165.781 chr05 4459791 . A T 2907.23 PASS AB=0.488889;ABP=3.39634;AC=10;AF=0.238095;AN=42;AO=187;CIGAR=1X;DP=864;DPB=864;DPRA=1.15213;EPP=409.076;EPPR=1473.1;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.37863;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6537;QR=24235;RO=677;RPL=0;RPP=409.076;RPPR=1473.1;RPR=187;RUN=1;SAF=187;SAP=409.076;SAR=0;SRF=677;SRP=1473.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:71,2:71:2544:2:68:0,-15.5175,-222.753 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/1:35:22,13:22:777:13:448:-30.1129,0,-59.7143 0/1:38:21,17:21:756:17:583:-41.3533,0,-56.9281 0/1:62:28,34:28:1004:34:1192:-88.9213,0,-72.012 0/1:33:17,16:17:612:16:564:-41.1563,0,-45.4794 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/1:46:24,22:24:860:22:776:-56.3148,0,-63.8745 0/0:61:61,0:61:2169:0:0:0,-18.3628,-195.475 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 1/1:9:0,9:0:0:9:318:-28.9607,-2.70927,0 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 0/1:43:16,27:16:572:27:962:-73.952,0,-38.8691 0/0:83:83,0:83:2968:0:0:0,-24.9855,-267.353 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/1:54:25,29:25:885:29:1007:-74.6843,0,-63.7109 0/1:49:31,18:31:1112:18:619:-41.2814,0,-85.6409 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 chr05 4460922 . TGCC CGCC,CGCT 33279.7 PASS AB=0.494784,0.505216;ABP=3.16887,3.16887;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1216,346;CIGAR=1X3M,1X2M1X;DP=1566;DPB=1566.25;DPRA=0,1.28906;EPP=2634.84,754.34;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.71429,2.08333;MQM=59.9885,59.8671;MQMR=60;NS=21;NUMALT=2;ODDS=10.6931;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=43044,12132;QR=36;RO=1;RPL=1,0;RPP=2634.84,754.34;RPPR=5.18177;RPR=1215,346;RUN=1,1;SAF=1216,346;SAP=2643.52,754.34;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,76,0:0:0:76,0:2704,0:-243.605,-22.8783,0,-243.605,-22.8783,-243.605 1/1:66:0,66,0:0:0:66,0:2330,0:-209.961,-19.868,0,-209.961,-19.868,-209.961 1/2:53:0,15,38:0:0:15,38:524,1324:-150.643,-108.018,-103.503,-42.9742,0,-31.535 1/2:118:0,63,55:0:0:63,55:2248,1916:-339.065,-155.799,-136.834,-183.259,0,-166.702 1/2:125:0,61,64:0:0:61,64:2163,2248:-359.534,-183.313,-164.95,-176.574,0,-157.308 1/2:74:0,37,37:0:0:37,37:1305,1308:-213.139,-106.882,-95.7441,-106.61,0,-95.472 1/1:115:0,111,4:0:0:111,4:3919,137:-352.565,-33.4143,0,-341.445,-21.9511,-340.24 1/2:93:0,53,40:0:0:53,40:1873,1412:-267.876,-115.336,-99.3815,-152.893,0,-140.851 1/1:112:0,111,0:0:0:111,0:3935,0:-354.134,-33.4143,0,-354.134,-33.4143,-354.134 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/1:29:0,29,0:0:0:29,0:1020,0:-92.1122,-8.72987,0,-92.1122,-8.72987,-92.1122 1/1:120:0,118,1:0:0:118,1:4165,36:-374.677,-35.5215,0,-371.74,-32.5841,-371.439 1/2:63:0,22,41:0:0:22,41:780,1434:-180.548,-117,-110.378,-63.9004,0,-51.5581 1/1:129:0,129,0:0:0:129,0:4557,0:-410.301,-38.8329,0,-410.301,-38.8329,-410.301 1/1:56:0,56,0:0:0:56,0:2000,0:-180.274,-16.8577,0,-180.274,-16.8577,-180.274 1/1:62:1,60,0:1:36:60,0:2136,0:-188.91,-15.1244,0,-189.211,-18.0618,-192.149 1/2:67:0,37,30:0:0:37,30:1305,1070:-193.752,-87.4951,-76.357,-106.611,0,-97.5804 1/2:73:0,43,30:0:0:43,30:1522,1031:-208.046,-84.0644,-71.1201,-124.329,0,-115.298 1/1:84:0,82,2:0:0:82,2:2895,72:-260.427,-24.6845,0,-254.552,-18.4498,-253.95 1/1:36:0,36,0:0:0:36,0:1267,0:-114.332,-10.8371,0,-114.332,-10.8371,-114.332 chr05 4460931 . C T 5491.45 PASS AB=0.496988;ABP=3.06262;AC=9;AF=0.214286;AN=42;AO=338;CIGAR=1X;DP=1570;DPB=1570;DPRA=1.12858;EPP=736.968;EPPR=2669.59;GTI=0;LEN=1;MEANALT=1;MQM=59.8639;MQMR=59.9805;NS=21;NUMALT=1;ODDS=12.1251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12076;QR=43917;RO=1232;RPL=0;RPP=736.968;RPPR=2669.59;RPR=338;RUN=1;SAF=338;SAP=736.968;SAR=0;SRF=1232;SRP=2678.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:76,0:76:2712:0:0:0,-22.8783,-244.324 0/0:67:67,0:67:2387:0:0:0,-20.169,-215.087 0/1:50:15,35:15:536:35:1252:-97.9336,0,-33.5233 0/1:115:63,52:63:2260:52:1851:-132.251,0,-169.044 0/1:122:59,63:59:2107:63:2237:-164.854,0,-153.173 0/1:75:37,38:37:1320:38:1364:-100.483,0,-96.4889 0/0:114:110,4:110:3915:4:144:0,-21.0038,-339.231 0/1:92:53,39:53:1904:39:1400:-98.604,0,-143.943 0/0:116:116,0:116:4135:0:0:0,-34.9195,-372.33 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/0:29:28,1:28:1000:1:36:0,-5.13159,-86.7171 0/0:124:123,1:123:4378:1:36:0,-33.7294,-390.597 0/1:62:23,39:23:801:39:1393:-106.99,0,-53.7426 0/0:128:128,0:128:4554:0:0:0,-38.5318,-410.028 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.993 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.186 0/1:69:39,30:39:1388:30:1071:-75.8442,0,-104.448 0/1:74:44,30:44:1558:30:1076:-74.872,0,-118.234 0/0:85:83,2:83:2938:2:72:0,-18.7508,-257.818 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 chr05 4461057 . TA CG,CA 43797.3 PASS AB=0.472289,0.525301;ABP=8.54625,7.62533;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1255,442;CIGAR=2X,1X1M;DP=1700;DPB=1700;DPRA=0,1.66837;EPP=2728.21,962.801;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.80952,2.14286;MQM=50.8693,58.6855;MQMR=0;NS=21;NUMALT=2;ODDS=0.131843;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43799,15568;QR=0;RO=0;RPL=345,147;RPP=555.352,110.621;RPPR=0;RPR=910,295;RUN=1,1;SAF=345,147;SAP=555.352,110.621;SAR=910,295;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:0,50,0:0:0:50,0:1747,0:-156.852,-15.0515,0,-156.852,-15.0515,-156.852 1/1:24:0,24,0:0:0:24,0:837,0:-74.5575,-7.22472,0,-74.5575,-7.22472,-74.5575 1/2:97:0,51,46:0:0:51,46:1801,1634:-278.92,-133.265,-117.913,-146.008,0,-132.161 1/2:119:0,51,68:0:0:51,68:1776,2402:-339.66,-195.943,-180.59,-144.067,0,-123.597 1/2:185:0,80,104:0:0:80,104:2786,3656:-522.76,-297.362,-273.28,-225.485,0,-194.178 1/2:32:0,17,15:0:0:17,15:604,527:-91.9664,-43.2447,-38.1272,-49.0732,0,-44.5577 1/1:115:0,114,1:0:0:114,1:3974,36:-353.67,-34.3174,0,-350.733,-31.0202,-350.431 1/2:151:0,75,75:0:0:75,75:2631,2635:-427.125,-214.482,-191.905,-212.754,0,-190.177 1/1:138:0,137,1:0:0:137,1:4801,36:-430.834,-41.2411,0,-427.896,-37.9439,-427.595 1/1:7:0,7,0:0:0:7,0:239,0:-21.3655,-2.10721,0,-21.3655,-2.10721,-21.3655 1/2:9:0,3,6:0:0:3,6:101,212:-25.7512,-17.573,-16.6699,-8.52004,0,-6.71386 1/1:54:0,53,1:0:0:53,1:1853,36:-166.079,-15.9546,0,-163.141,-12.6573,-162.84 1/1:107:0,106,1:0:0:106,1:3696,36:-330.285,-31.9092,0,-327.348,-28.6119,-327.047 1/2:138:0,65,73:0:0:65,73:2218,2570:-388.346,-209.277,-189.71,-179.414,0,-157.439 1/1:157:0,156,0:0:0:156,0:5409,0:-484.103,-46.9607,0,-484.103,-46.9607,-484.103 1/1:31:0,31,0:0:0:31,0:1098,0:-98.7568,-9.33193,0,-98.7568,-9.33193,-98.7568 1/1:25:0,25,0:0:0:25,0:882,0:-79.5025,-7.52575,0,-79.5025,-7.52575,-79.5025 1/2:60:0,27,33:0:0:27,33:939,1140:-167.712,-92.9237,-84.7959,-75.1317,0,-65.1977 1/2:39:0,23,16:0:0:23,16:806,576:-112.632,-47.3581,-40.4344,-65.6294,0,-60.8129 1/1:98:0,98,0:0:0:98,0:3426,0:-306.106,-29.5009,0,-306.106,-29.5009,-306.106 1/1:64:0,62,2:0:0:62,2:2175,72:-192.952,-18.6639,0,-187.077,-12.4292,-186.475 chr05 4574885 . ACTG ACTA,GCTA 37599.8 PASS AB=0.569194,0.427196;ABP=37.5683,41.2685;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1385,360;CIGAR=3M1X,1X2M1X;DP=1752;DPB=1752;DPRA=0,1.02568;EPP=2993.15,767.465;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=1.85714,2.33333;MQM=60,59.9889;MQMR=60;NS=21;NUMALT=2;ODDS=0.419957;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49463,12665;QR=36;RO=1;RPL=1383,358;RPP=2993.15,767.465;RPPR=5.18177;RPR=2,2;RUN=1,1;SAF=0,0;SAP=3010.5,784.74;SAR=1385,360;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,81,1:0:0:81,1:2875,36:-258.625,-24.3834,0,-255.688,-21.446,-255.387 1/1:75:0,74,0:0:0:74,0:2652,0:-238.675,-22.2762,0,-238.675,-22.2762,-238.675 1/2:102:0,55,47:0:0:55,47:1964,1664:-296.022,-135.898,-119.342,-160.479,0,-146.33 1/2:94:0,57,37:0:0:57,37:2021,1306:-271.352,-106.703,-89.5444,-165.002,0,-153.864 1/2:193:0,97,95:0:0:97,95:3451,3363:-555.239,-273.991,-244.791,-281.302,0,-252.704 1/2:98:0,58,40:0:0:58,40:2084,1401:-284.361,-114.344,-96.8847,-170.37,0,-158.329 1/1:129:0,129,0:0:0:129,0:4619,0:-415.873,-38.8329,0,-415.873,-38.8329,-415.873 1/2:60:0,36,23:0:0:36,23:1292,815:-171.857,-66.4648,-55.6277,-105.465,0,-98.5409 1/1:162:0,162,0:0:0:162,0:5769,0:-519.325,-48.7669,0,-519.325,-48.7669,-519.325 1/1:11:0,11,0:0:0:11,0:390,0:-35.4389,-3.31133,0,-35.4389,-3.31133,-35.4389 1/2:6:0,5,1:0:0:5,1:180,35:-17.893,-3.1976,-1.69245,-15.0469,0,-14.7459 1/1:27:0,27,0:0:0:27,0:964,0:-87.0768,-8.12781,0,-87.0768,-8.12781,-87.0768 1/1:141:1,140,0:1:36:140,0:4982,0:-444.928,-38.847,0,-445.229,-42.1442,-448.166 1/2:130:0,74,56:0:0:74,56:2648,1943:-374.225,-158.286,-136.01,-216.29,0,-199.433 1/1:75:0,74,0:0:0:74,0:2632,0:-236.847,-22.2762,0,-236.847,-22.2762,-236.847 1/1:40:0,39,1:0:0:39,1:1396,36:-125.579,-11.7402,0,-122.642,-8.44293,-122.341 1/1:62:0,62,0:0:0:62,0:2220,0:-200.064,-18.6639,0,-200.064,-18.6639,-200.064 1/2:78:0,40,38:0:0:40,38:1436,1332:-225.881,-108.739,-96.6977,-117.496,0,-106.057 1/2:70:0,51,18:0:0:51,18:1828,630:-200.344,-51.2481,-35.8956,-149.089,0,-143.67 1/1:58:0,55,3:0:0:55,3:1980,104:-178.127,-16.5567,0,-169.675,-7.75694,-168.772 1/1:58:0,58,0:0:0:58,0:2080,0:-187.47,-17.4597,0,-187.47,-17.4597,-187.47 chr05 4575808 . A G 5304.1 PASS AB=0.468571;ABP=7.51455;AC=9;AF=0.214286;AN=42;AO=252;CIGAR=1X;DP=1135;DPB=1135;DPRA=1.26726;EPP=3.56179;EPPR=5.37359;GTI=0;LEN=1;MEANALT=1;MQM=59.9762;MQMR=59.7282;NS=21;NUMALT=1;ODDS=15.687;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8870;QR=31276;RO=883;RPL=0;RPP=550.221;RPPR=1860.1;RPR=252;RUN=1;SAF=130;SAP=3.56179;SAR=122;SRF=464;SRP=7.99018;SRR=419;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:57,0:57:2027:0:0:0,-17.1587,-182.695 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.2977 0/1:45:23,22:23:807:22:767:-55.7985,0,-59.2987 0/1:41:21,20:21:739:20:708:-51.7034,0,-54.4901 0/1:74:35,39:35:1227:39:1349:-99.4279,0,-88.4178 0/1:43:24,19:24:856:19:680:-48.5849,0,-64.4086 0/0:78:77,1:77:2752:1:36:0,-19.8821,-244.318 0/1:87:50,37:50:1744:37:1303:-91.381,0,-131.05 0/0:76:76,0:76:2700:0:0:0,-22.8783,-243.242 0/0:22:22,0:22:784:0:0:0,-6.62266,-70.8747 0/1:10:5,5:5:176:5:176:-13.1747,0,-13.1747 0/0:32:32,0:32:1129:0:0:0,-9.63296,-101.856 0/0:47:46,1:46:1631:1:36:0,-10.5501,-143.454 0/1:53:23,30:23:797:30:1064:-80.1171,0,-56.0883 0/0:85:85,0:85:3044:0:0:0,-25.5875,-274.187 0/0:33:33,0:33:1148:0:0:0,-9.93399,-103.536 0/0:38:38,0:38:1323:0:0:0,-11.4391,-119.361 0/1:91:49,42:49:1734:42:1488:-106.818,0,-128.941 0/1:81:49,32:49:1734:32:1119:-76.6319,0,-131.955 0/0:48:45,3:45:1596:3:108:0,-4.37427,-133.85 0/0:66:65,1:65:2328:1:36:0,-16.2697,-206.165 chr05 4575832 . CC TG 29431.9 PASS AB=0.542398;ABP=13.6899;AC=33;AF=0.785714;AN=42;AO=1132;CIGAR=2X;DP=1456;DPB=1456.5;DPRA=0;EPP=2461.12;EPPR=687.051;GTI=0;LEN=2;MEANALT=1.2381;MQM=59.7792;MQMR=59.8621;NS=21;NUMALT=1;ODDS=20.8181;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=39471;QR=11105;RO=319;RPL=455;RPP=97.5499;RPPR=16.7947;RPR=677;RUN=1;SAF=455;SAP=97.5499;SAR=677;SRF=138;SRP=15.5967;SRR=181;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:1,69:1:20:69:2404:-214.612,-19.0722,0 1/1:42:0,42:0:0:42:1491:-134.467,-12.6433,0 0/1:54:25,29:25:854:29:1023:-76.101,0,-60.9134 0/1:70:28,41:28:981:41:1440:-108.871,0,-67.5772 0/1:103:51,51:51:1770:51:1751:-126.79,0,-128.513 0/1:67:32,35:32:1106:35:1194:-87.5877,0,-79.6743 1/1:110:1,109:1:36:109:3776:-336.439,-29.515,0 0/1:103:45,58:45:1584:58:2049:-153.674,0,-111.842 1/1:80:0,80:0:0:80:2820:-254.036,-24.0824,0 1/1:23:0,23:0:0:23:801:-72.3972,-6.92369,0 0/1:11:5,6:5:180:6:192:-14.2821,0,-13.2407 1/1:40:1,38:1:25:38:1309:-115.565,-9.52397,0 1/1:58:1,57:1:25:57:1978:-175.773,-14.9599,0 0/1:69:36,33:36:1279:33:1115:-79.5157,0,-93.6538 1/1:125:1,124:1:36:124:4326:-385.918,-34.0305,0 1/1:32:0,32:0:0:32:1119:-101.015,-9.63296,0 1/1:40:0,40:0:0:40:1389:-125.301,-12.0412,0 0/1:118:53,64:53:1841:64:2249:-167.092,0,-130.387 0/1:89:34,54:34:1203:54:1881:-142.714,0,-81.7241 1/1:75:4,71:4:129:71:2515:-214.665,-10.649,0 1/1:77:1,76:1:36:76:2649:-235.047,-19.581,0 chr05 4669921 . GAAC AAAT,GAAT 50357.2 PASS AB=0.5637,0.433682;ABP=43.4004,46.7884;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1867,505;CIGAR=1X2M1X,3M1X;DP=2380;DPB=2380.5;DPRA=0,1.15991;EPP=4057.15,1099.6;EPPR=0;GTI=0;LEN=4,1;MEANALT=2,2.38462;MQM=59.9368,59.9921;MQMR=0;NS=21;NUMALT=2;ODDS=28.4795;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=32,0;PQR=0;PRO=0;QA=65948,18019;QR=0;RO=0;RPL=1867,505;RPP=4057.15,1099.6;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4057.15,1099.6;SAR=1867,505;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:132:0,131,1:0:0:131,1:4596,36:-413.448,-39.4349,0,-410.51,-36.1377,-410.209 1/1:35:0,35,0:0:0:35,0:1246,0:-112.445,-10.5361,0,-112.445,-10.5361,-112.445 1/2:103:0,66,36:0:0:66,36:2361,1285:-297.279,-104.756,-84.8883,-192.52,0,-181.683 1/2:81:0,53,28:0:0:53,28:1867,1004:-234.244,-82.247,-66.2924,-152.353,0,-143.924 1/2:263:0,126,136:0:0:126,136:4440,4800:-752.35,-390.856,-352.926,-361.486,0,-320.546 1/2:149:0,84,65:0:0:84,65:2943,2340:-430.746,-191.292,-166.005,-239.809,0,-220.242 1/1:202:0,201,0:0:0:201,0:7093,0:-638.218,-60.507,0,-638.218,-60.507,-638.218 1/2:135:0,76,59:0:0:76,59:2679,2105:-390.075,-171.957,-149.078,-218.473,0,-200.712 1/1:301:0,300,0:0:0:300,0:10616,0:-954.506,-90.309,0,-954.506,-90.309,-954.506 1/1:30:0,30,0:0:0:30,0:1066,0:-96.2507,-9.0309,0,-96.2507,-9.0309,-96.2507 1/2:18:0,9,9:0:0:9,9:317,320:-52.2394,-26.4331,-23.7238,-26.1601,0,-23.4508 1/1:79:0,78,0:0:0:78,0:2774,0:-249.582,-23.4803,0,-249.582,-23.4803,-249.582 1/1:108:0,105,2:0:0:105,2:3702,72:-333.023,-31.6082,0,-327.148,-25.7333,-326.546 1/2:254:0,136,118:0:0:136,118:4823,4233:-738.556,-345.626,-304.686,-393.287,0,-357.765 1/1:79:0,79,0:0:0:79,0:2788,0:-251.161,-23.7814,0,-251.161,-23.7814,-251.161 1/1:55:0,55,0:0:0:55,0:1963,0:-176.945,-16.5567,0,-176.945,-16.5567,-176.945 1/1:69:0,66,3:0:0:66,3:2328,108:-209.418,-19.868,0,-200.606,-10.6959,-199.703 1/2:64:0,40,23:0:0:40,23:1429,820:-183.404,-66.8965,-54.8553,-116.561,0,-109.638 1/2:79:0,56,23:0:0:56,23:1938,824:-225.041,-67.5596,-50.7019,-157.836,0,-150.912 1/1:100:0,97,2:0:0:97,2:3412,72:-306.97,-29.1999,0,-301.095,-23.2445,-300.493 1/1:44:0,44,0:0:0:44,0:1567,0:-141.321,-13.2453,0,-141.321,-13.2453,-141.321 chr05 4809514 . ACAG TCAA,TCAG 58133.3 PASS AB=0.527304,0.46587;ABP=10.5993,14.8682;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2179,548;CIGAR=1X2M1X,1X3M;DP=2739;DPB=2739;DPRA=0,1.07497;EPP=4734.65,1192.98;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.04762,2.72727;MQM=59.6535,59.9927;MQMR=0;NS=21;NUMALT=2;ODDS=0.0041299;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76585,19512;QR=0;RO=0;RPL=2179,548;RPP=4734.65,1192.98;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4734.65,1192.98;SAR=2179,548;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,125,0:0:0:125,0:4380,0:-394.367,-37.6288,0,-394.367,-37.6288,-394.367 1/1:162:0,161,0:0:0:161,0:5686,0:-511.503,-48.4658,0,-511.503,-48.4658,-511.503 1/2:128:0,75,53:0:0:75,53:2624,1866:-365.732,-152.261,-129.684,-213.822,0,-197.867 1/2:131:0,68,62:0:0:68,62:2427,2220:-378.895,-181.041,-160.571,-197.852,0,-179.188 1/2:289:0,135,153:0:0:135,153:4722,5437:-827.142,-443.052,-402.413,-384.092,0,-338.035 1/2:79:0,35,44:0:0:35,44:1236,1572:-229.154,-128.526,-117.99,-100.982,0,-87.7371 1/1:146:0,146,0:0:0:146,0:5082,0:-457.452,-43.9504,0,-457.452,-43.9504,-457.452 1/2:124:0,68,55:0:0:68,55:2391,1946:-353.111,-158.496,-138.026,-194.608,0,-178.052 1/1:303:0,303,0:0:0:303,0:10623,0:-955.941,-91.2121,0,-955.941,-91.2121,-955.941 1/1:19:0,19,0:0:0:19,0:678,0:-61.3445,-5.71957,0,-61.3445,-5.71957,-61.3445 1/2:4:0,3,1:0:0:3,1:102,36:-11.5557,-3.29724,-2.39415,-8.61329,0,-8.31226 1/1:30:0,30,0:0:0:30,0:1064,0:-96.0705,-9.0309,0,-96.0705,-9.0309,-96.0705 1/1:197:0,195,1:0:0:195,1:6866,36:-617.594,-58.7009,0,-614.656,-55.7285,-614.355 1/2:163:0,87,75:0:0:87,75:3066,2679:-468.126,-218.517,-192.327,-249.702,0,-227.125 1/1:157:0,157,0:0:0:157,0:5532,0:-497.983,-47.2617,0,-497.983,-47.2617,-497.983 1/1:95:0,95,0:0:0:95,0:3349,0:-301.373,-28.5979,0,-301.373,-28.5979,-301.373 1/1:151:0,149,0:0:0:149,0:5255,0:-472.729,-44.8535,0,-472.729,-44.8535,-472.729 1/2:167:0,91,73:0:0:91,73:3163,2608:-469.743,-212.634,-185.24,-257.103,0,-235.128 1/2:87:0,56,30:0:0:56,30:1970,1076:-248.119,-87.7598,-70.9021,-160.356,0,-151.325 1/1:115:0,114,1:0:0:114,1:4004,36:-360.181,-34.3174,0,-357.243,-31.0202,-356.942 1/1:67:0,67,0:0:0:67,0:2365,0:-213.09,-20.169,0,-213.09,-20.169,-213.09 chr05 4835046 . GCACG ACACA,GCACA 30286.9 PASS AB=0.556901,0.441889;ABP=26.2393,27.2383;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1029,437;CIGAR=1X3M1X,4M1X;DP=1468;DPB=1468;DPRA=0.983803,0.857388;EPP=2237.46,951.944;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.8,2;MQM=47.4363,59.373;MQMR=0;NS=21;NUMALT=2;ODDS=6.47721;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36213,15587;QR=0;RO=0;RPL=1029,437;RPP=2237.46,951.944;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2237.46,951.944;SAR=1029,437;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:92:0,62,30:0:0:62,30:2176,1076:-263.228,-87.9575,-69.2936,-175.625,0,-166.594 1/2:38:0,19,19:0:0:19,19:659,668:-107.982,-54.7075,-48.9879,-53.623,0,-47.9034 1/1:43:0,43,0:0:0:43,0:1526,0:-136.462,-12.9443,0,-136.462,-12.9443,-136.462 1/2:76:0,50,26:0:0:50,26:1768,932:-218.323,-76.3436,-61.2921,-142.334,0,-134.507 1/2:110:0,46,63:0:0:46,63:1628,2248:-313.684,-183.193,-169.346,-130.555,0,-111.59 1/1:104:0,103,1:0:0:103,1:3637,36:-324.644,-31.0061,0,-321.706,-27.7088,-321.405 1/1:141:0,141,0:0:0:141,0:4998,0:-445.718,-42.4452,0,-445.718,-42.4452,-445.718 2/2:71:0,0,71:0:0:0,71:0,2536:-228.447,-228.447,-228.447,-21.3731,-21.3731,0 1/2:115:0,76,39:0:0:76,39:2675,1396:-330.195,-114.181,-91.303,-216.369,0,-204.629 1/2:5:0,4,1:0:0:4,1:142,32:-14.4094,-2.89828,-1.69416,-11.8375,0,-11.5365 1/2:7:0,1,6:0:0:1,6:36,216:-20.8861,-17.9664,-17.6654,-3.27774,0,-1.47156 1/2:11:0,6,5:0:0:6,5:197,180:-30.1454,-15.0469,-13.2407,-15.4373,0,-13.9322 1/1:66:0,66,0:0:0:66,0:2343,0:-209.425,-19.868,0,-209.425,-19.868,-209.425 1/2:74:0,47,27:0:0:47,27:1629,964:-208.467,-78.8498,-64.7014,-129.967,0,-121.839 1/2:104:0,48,56:0:0:48,56:1711,2000:-300.791,-163.042,-148.592,-138.103,0,-121.245 1/2:68:0,26,42:0:0:26,42:916,1504:-197.158,-123.011,-115.185,-74.4995,0,-61.8563 1/1:59:0,58,0:0:0:58,0:2019,0:-180.038,-17.4597,0,-180.038,-17.4597,-180.038 1/2:59:0,30,29:0:0:30,29:1061,1032:-168.113,-84.4636,-75.4327,-83.9987,0,-75.2688 1/2:67:0,45,22:0:0:45,22:1542,767:-186.622,-62.7268,-49.1804,-124.241,0,-117.618 1/1:94:0,94,0:0:0:94,0:3305,0:-293.906,-28.2968,0,-293.906,-28.2968,-293.906 1/1:64:0,64,0:0:0:64,0:2245,0:-200.098,-19.2659,0,-200.098,-19.2659,-200.098 chr05 4934096 . C T 44159.5 PASS AB=0.53549;ABP=15.1865;AC=33;AF=0.785714;AN=42;AO=2061;CIGAR=1X;DP=2585;DPB=2585;DPRA=0;EPP=4478.41;EPPR=1136.52;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.6841;MQMR=60;NS=21;NUMALT=1;ODDS=20.6832;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73847;QR=18724;RO=522;RPL=0;RPP=4478.41;RPPR=1136.52;RPR=2061;RUN=1;SAF=2061;SAP=4478.41;SAR=0;SRF=522;SRP=1136.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:4,111:4:144:111:3980:-345.065,-21.3048,0 1/1:93:1,92:1:36:92:3312:-294.678,-24.3975,0 0/1:197:89,108:89:3188:108:3880:-290.086,0,-227.841 0/1:207:90,117:90:3224:117:4170:-313.018,0,-228.069 0/1:92:52,40:52:1864:40:1440:-102.201,0,-140.345 0/1:101:44,57:44:1584:57:2033:-152.82,0,-112.447 1/1:181:0,181:0:0:181:6496:-584.5,-54.4864,0 0/1:197:95,101:95:3408:101:3622:-266.795,0,-247.572 1/1:228:0,228:0:0:228:8111:-729.129,-68.6348,0 1/1:22:0,22:0:0:22:792:-71.5818,-6.62266,0 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 1/1:47:0,47:0:0:47:1692:-152.553,-14.1484,0 1/1:212:0,212:0:0:212:7612:-685.09,-63.8184,0 0/1:166:80,85:80:2868:85:3051:-224.93,0,-208.475 1/1:198:0,198:0:0:198:7083:-637.477,-59.6039,0 1/1:73:0,73:0:0:73:2616:-235.685,-21.9752,0 1/1:79:0,79:0:0:79:2840:-255.821,-23.7814,0 0/1:67:37,30:37:1328:30:1076:-76.9792,0,-99.6532 0/1:77:21,56:21:756:56:2008:-155.734,0,-45.1879 1/1:159:2,157:2:72:157:5640:-500.774,-41.027,0 1/1:65:0,65:0:0:65:2321:-209.107,-19.567,0 chr05 4934102 . A C 43689 PASS AB=0.530045;ABP=11.7527;AC=33;AF=0.785714;AN=42;AO=2056;CIGAR=1X;DP=2589;DPB=2589;DPRA=0;EPP=4458.88;EPPR=1151.74;GTI=0;LEN=1;MEANALT=1;MQM=59.6902;MQMR=60;NS=21;NUMALT=1;ODDS=23.3609;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73306;QR=19102;RO=533;RPL=0;RPP=4467.56;RPPR=1151.74;RPR=2056;RUN=1;SAF=2055;SAP=4458.88;SAR=1;SRF=533;SRP=1160.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:4,115:4:144:115:4122:-357.695,-22.509,0 1/1:92:1,91:1:36:91:3235:-287.76,-24.0965,0 0/1:196:90,106:90:3236:106:3803:-283.46,0,-232.459 0/1:205:91,114:91:3260:114:4039:-301.969,0,-231.909 0/1:93:53,40:53:1908:40:1424:-100.459,0,-144.002 0/1:103:46,57:46:1656:57:2040:-152.85,0,-118.322 1/1:181:1,180:1:36:180:6399:-572.168,-50.8882,0 0/1:198:96,102:96:3432:102:3620:-266.378,0,-249.49 1/1:227:0,227:0:0:227:8079:-727.039,-68.3338,0 1/1:22:0,22:0:0:22:781:-70.594,-6.62266,0 0/1:10:7,3:7:252:3:104:-6.68678,0,-20.0187 1/1:46:0,46:0:0:46:1634:-147.337,-13.8474,0 1/1:215:0,215:0:0:215:7680:-691.216,-64.7215,0 0/1:166:81,85:81:2886:85:3044:-224.214,0,-210.002 1/1:195:0,195:0:0:195:6975:-627.792,-58.7009,0 1/1:73:0,73:0:0:73:2574:-231.906,-21.9752,0 1/1:83:0,83:0:0:83:2957:-266.346,-24.9855,0 0/1:69:39,30:39:1400:30:1067:-75.5655,0,-105.528 0/1:75:21,54:21:756:54:1925:-148.871,0,-45.79 1/1:156:2,154:2:68:154:5531:-491.431,-40.503,0 1/1:65:1,64:1:32:64:2273:-201.599,-16.3676,0 chr05 4934133 . CGAAG TGAAA,TGAAG 55321.5 PASS AB=0.535199,0.459386;ABP=14.9338,18.8848;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2074,516;CIGAR=1X3M1X,1X4M;DP=2598;DPB=2598.8;DPRA=0,0.991287;EPP=4497.96,1123.49;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.85714,2.33333;MQM=59.6885,59.9884;MQMR=0;NS=21;NUMALT=2;ODDS=25.8938;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=68,68;PQR=0;PRO=0;QA=73110,18334;QR=0;RO=0;RPL=2074,516;RPP=4506.64,1123.49;RPPR=0;RPR=0,0;RUN=1,1;SAF=2073,516;SAP=4497.96,1123.49;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:118:0,114,4:0:0:114,4:4019,144:-361.457,-34.3174,0,-349.707,-22.2079,-348.503 1/1:94:0,93,1:0:0:93,1:3269,36:-294.06,-27.9958,0,-291.123,-24.6985,-290.822 1/2:193:0,106,87:0:0:106,87:3753,3070:-555.986,-250.279,-218.37,-306.002,0,-279.812 1/2:206:0,118,88:0:0:118,88:4131,3135:-591.958,-255.886,-220.364,-336.425,0,-309.935 1/2:90:0,38,49:0:0:38,49:1337,1743:-250.878,-142.044,-130.604,-108.828,0,-94.0779 1/2:102:0,57,45:0:0:57,45:2026,1603:-296.095,-131.013,-113.854,-165.438,0,-151.891 1/1:183:0,183,0:0:0:183,0:6452,0:-580.596,-55.0885,0,-580.596,-55.0885,-580.596 1/2:194:0,101,93:0:0:101,93:3527,3309:-556.838,-269.973,-239.569,-287.158,0,-259.162 1/1:229:0,229,0:0:0:229,0:8046,0:-723.784,-68.9359,0,-723.784,-68.9359,-723.784 1/1:22:0,22,0:0:0:22,0:779,0:-70.4092,-6.62266,0,-70.4092,-6.62266,-70.4092 1/2:10:0,3,7:0:0:3,7:106,252:-29.5438,-20.9217,-20.0187,-8.97697,0,-6.86976 1/1:47:0,47,0:0:0:47,0:1675,0:-151.024,-14.1484,0,-151.024,-14.1484,-151.024 1/1:216:0,216,0:0:0:216,0:7639,0:-687.538,-65.0225,0,-687.538,-65.0225,-687.538 1/2:169:0,87,82:0:0:87,82:3059,2932:-488.416,-239.426,-213.236,-249.345,0,-224.661 1/1:201:0,200,0:0:0:200,0:7048,0:-634.028,-60.206,0,-634.028,-60.206,-634.028 1/1:73:0,73,0:0:0:73,0:2566,0:-231.188,-21.9752,0,-231.188,-21.9752,-231.188 1/1:83:0,83,0:0:0:83,0:2923,0:-263.229,-24.9855,0,-263.229,-24.9855,-263.229 1/2:68:0,30,38:0:0:30,38:1058,1331:-194.795,-108.65,-99.619,-86.4963,0,-75.0572 1/2:76:0,53,20:0:0:53,20:1858,707:-208.749,-57.6406,-41.686,-151.167,0,-145.146 1/1:159:0,157,2:0:0:157,2:5564,72:-500.428,-47.2617,0,-494.553,-41.027,-493.951 1/1:65:0,64,0:0:0:64,0:2275,0:-204.762,-19.2659,0,-204.762,-19.2659,-204.762 chr05 4934894 . C A 0.0308545 PASS AB=0.333333;ABP=76.1165;AC=7;AF=0.166667;AN=42;AO=119;CIGAR=1X;DP=1319;DPB=1319;DPRA=0.979241;EPP=261.416;EPPR=2608.78;GTI=6;LEN=1;MEANALT=1;MQM=19.5882;MQMR=19.2575;NS=21;NUMALT=1;ODDS=4.94574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4276;QR=43009;RO=1200;RPL=0;RPP=261.416;RPPR=2608.78;RPR=119;RUN=1;SAF=119;SAP=261.416;SAR=0;SRF=1200;SRP=2608.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:139:138,1:138:4956:1:36:0,-39.9516,-233.598 0/0:66:66,0:66:2368:0:0:0,-19.868,-112.791 0/0:49:43,6:43:1539:6:212:0,-4.35853,-66.2764 0/1:63:48,15:48:1713:15:540:-9.45393,0,-64.1788 0/1:98:59,39:59:2120:39:1400:-38.4929,0,-71.7253 0/1:73:46,27:46:1644:27:972:-24.3543,0,-55.5977 0/0:112:112,0:112:4020:0:0:0,-33.7154,-194.093 0/1:47:35,12:35:1247:12:432:-6.46923,0,-45.5632 0/0:111:111,0:111:3984:0:0:0,-33.4143,-187.942 0/0:8:8,0:8:288:0:0:0,-2.40824,-13.2665 0/1:6:4,2:4:144:2:72:-1.78772,0,-5.19247 0/0:16:16,0:16:572:0:0:0,-4.81648,-27.4158 0/0:147:147,0:147:5276:0:0:0,-44.2514,-256.67 0/0:83:74,9:74:2644:9:324:0,-9.65432,-109.448 0/0:110:108,2:108:3867:2:72:0,-29.5194,-180.191 0/0:47:47,0:47:1688:0:0:0,-14.1484,-83.4669 0/0:46:46,0:46:1640:0:0:0,-13.8474,-79.1743 0/1:6:4,2:4:144:2:72:-1.78772,0,-5.10159 0/1:10:6,4:6:207:4:144:-3.98835,0,-7.34298 0/0:67:67,0:67:2408:0:0:0,-20.169,-114.06 0/0:15:15,0:15:540:0:0:0,-4.51545,-25.5466 chr05 4934907 . C G 9282.56 PASS AB=0.666667;ABP=75.3927;AC=35;AF=0.833333;AN=42;AO=1183;CIGAR=1X;DP=1303;DPB=1303;DPRA=0;EPP=2426.32;EPPR=242.167;GTI=5;LEN=1;MEANALT=1.09524;MQM=19.2561;MQMR=19.8644;NS=21;NUMALT=1;ODDS=2.21375;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42234;QR=4163;RO=118;RPL=17;RPP=2426.32;RPPR=242.167;RPR=1166;RUN=1;SAF=1183;SAP=2571.86;SAR=0;SRF=118;SRP=259.244;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:1,137:1:36:137:4888:-231.751,-39.6506,0 1/1:64:0,64:0:0:64:2253:-107.651,-19.2659,0 1/1:50:6,44:6:216:44:1576:-67.9939,-4.6481,0 0/1:63:15,48:15:527:48:1724:-64.3496,0,-9.22307 0/1:98:39,59:39:1383:59:2108:-71.7,0,-38.421 0/1:74:28,46:28:983:46:1652:-56.8575,0,-26.4394 1/1:108:0,108:0:0:108:3855:-186.439,-32.5112,0 0/1:44:11,33:11:387:33:1180:-43.0996,0,-5.62025 1/1:106:0,106:0:0:106:3791:-179.811,-31.9092,0 1/1:8:0,8:0:0:8:288:-13.2665,-2.40824,0 0/1:6:2,4:2:68:4:144:-5.19247,0,-1.77584 1/1:15:0,15:0:0:15:540:-25.7248,-4.51545,0 1/1:145:0,144:0:0:144:5127:-249.249,-43.3483,0 1/1:81:9,71:9:324:71:2548:-104.55,-8.94017,0 1/1:112:2,110:2:72:110:3920:-183,-30.1215,0 1/1:48:0,48:0:0:48:1716:-85.1061,-14.4494,0 1/1:45:0,45:0:0:45:1591:-77.4046,-13.5464,0 0/1:6:2,4:2:72:4:143:-5.1,0,-1.78772 0/1:9:3,6:3:95:6:212:-7.68267,0,-2.52431 1/1:68:0,68:0:0:68:2438:-115.745,-20.47,0 1/1:15:0,15:0:0:15:540:-25.5466,-4.51545,0 chr05 4999762 . TAGA AAGG,AAGA 64862.4 PASS AB=0.548563,0.449883;ABP=29.3734,31.0876;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2427,591;CIGAR=1X2M1X,1X3M;DP=3024;DPB=3025;DPRA=0,1.23812;EPP=5273.17,1286.35;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.90476,2.30769;MQM=59.9642,59.9966;MQMR=0;NS=21;NUMALT=2;ODDS=3.61469;PAIRED=0,0;PAIREDR=0;PAO=4,0;PQA=104,0;PQR=0;PRO=0;QA=86005,21182;QR=0;RO=0;RPL=0,0;RPP=5273.17,1286.35;RPPR=0;RPR=2427,591;RUN=1,1;SAF=2427,591;SAP=5273.17,1286.35;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:153:0,152,0:0:0:152,0:5401,0:-485.861,-45.7566,0,-485.861,-45.7566,-485.861 1/1:147:0,147,0:0:0:147,0:5191,0:-467.333,-44.2514,0,-467.333,-44.2514,-467.333 1/2:88:0,44,44:0:0:44,44:1571,1584:-257.684,-129.606,-116.361,-128.437,0,-115.191 1/2:198:0,114,83:0:0:114,83:4041,2972:-571.573,-242.367,-208.05,-329.203,0,-304.217 1/2:277:0,153,124:0:0:153,124:5413,4448:-803.734,-362.842,-316.784,-440.928,0,-403.601 1/2:241:0,138,103:0:0:138,103:4879,3708:-700.28,-302.914,-261.372,-397.723,0,-366.717 1/1:213:0,213,0:0:0:213,0:7493,0:-674.423,-64.1194,0,-674.423,-64.1194,-674.423 1/2:161:0,74,87:0:0:74,87:2639,3120:-469.96,-254.837,-232.56,-215.481,0,-189.291 1/1:221:0,220,0:0:0:220,0:7823,0:-703.745,-66.2266,0,-703.745,-66.2266,-703.745 1/1:16:0,16,0:0:0:16,0:567,0:-51.3618,-4.81648,0,-51.3618,-4.81648,-51.3618 1/2:17:0,13,4:0:0:13,4:463,144:-49.8442,-12.1095,-8.19611,-38.0937,0,-36.8896 1/1:41:0,41,0:0:0:41,0:1457,0:-131.425,-12.3422,0,-131.425,-12.3422,-131.425 1/1:273:0,271,1:0:0:271,1:9621,36:-865.496,-81.5791,0,-862.559,-78.6417,-862.258 1/2:147:0,69,78:0:0:69,78:2408,2766:-421.551,-225.699,-204.928,-196.204,0,-172.724 1/1:277:0,276,1:0:0:276,1:9828,36:-884.111,-83.0843,0,-881.173,-79.787,-880.872 1/1:95:0,95,0:0:0:95,0:3381,0:-304.507,-28.5979,0,-304.507,-28.5979,-304.507 1/1:118:0,118,0:0:0:118,0:4195,0:-376.284,-35.5215,0,-376.284,-35.5215,-376.284 1/2:60:0,30,29:0:0:30,29:1055,1044:-171.057,-85.1851,-76.1542,-85.868,0,-77.1381 1/2:98:0,71,27:0:0:71,27:2503,964:-282.558,-78.7569,-57.3838,-203.963,0,-195.835 1/1:124:0,115,9:0:0:115,9:4058,324:-365.048,-34.6185,0,-338.61,-7.82187,-335.901 1/1:59:0,57,1:0:0:57,1:2018,36:-181.53,-17.1587,0,-178.593,-14.2213,-178.292 chr05 4999826 . G A 82200.1 PASS AB=0.521056;ABP=9.1371;AC=33;AF=0.785714;AN=42;AO=2993;CIGAR=1X;DP=3763;DPB=3763;DPRA=0;EPP=12.9419;EPPR=13.1626;GTI=0;LEN=1;MEANALT=1;MQM=59.9532;MQMR=59.9974;NS=21;NUMALT=1;ODDS=10.6366;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=107145;QR=27557;RO=770;RPL=2992;RPP=6493.54;RPPR=1657.72;RPR=1;RUN=1;SAF=1554;SAP=12.6053;SAR=1439;SRF=353;SRP=14.5614;SRR=417;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:271:3,268:3:108:268:9600:-853.833,-71.504,0 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 0/1:166:77,89:77:2760:89:3188:-237.173,0,-198.671 0/1:269:113,156:113:4044:156:5584:-421.706,0,-283.17 0/1:416:199,217:199:7139:217:7737:-571.136,0,-517.336 0/1:95:55,40:55:1963:40:1440:-101.3,0,-148.347 1/1:165:0,165:0:0:165:5909:-531.918,-49.67,0 0/1:95:58,37:58:2075:37:1332:-91.5845,0,-158.422 1/1:374:0,374:0:0:374:13345:-1200.35,-112.585,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 0/1:11:3,8:3:108:8:278:-22.0442,0,-6.76384 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 1/1:347:0,347:0:0:347:12416:-1117.28,-104.457,0 0/1:285:163,122:163:5828:122:4348:-305.703,0,-438.84 1/1:401:2,399:2:72:399:14332:-1282.79,-113.876,0 1/1:172:1,171:1:36:171:6125:-547.75,-48.1789,0 1/1:166:0,166:0:0:166:5943:-533.527,-49.971,0 0/1:66:34,32:34:1212:32:1152:-84.1222,0,-89.5183 0/1:188:60,128:60:2140:128:4600:-357.569,0,-136.274 1/1:128:2,126:2:72:126:4500:-398.329,-31.6951,0 1/1:44:0,44:0:0:44:1584:-142.852,-13.2453,0 chr05 5183719 . A T,C 20708.5 PASS AB=0.454315,0.545685;ABP=10.153,10.153;AC=33,9;AF=0.785714,0.214286;AN=42;AO=737,218;CIGAR=1X,1X;DP=955;DPB=955;DPRA=0,1.2906;EPP=1603.39,476.391;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.57143,2;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=8.16995;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26377,7739;QR=0;RO=0;RPL=0,0;RPP=1603.39,476.391;RPPR=0;RPR=737,218;RUN=1,1;SAF=0,0;SAP=1603.39,476.391;SAR=737,218;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:45:0,44,1:0:0:44,1:1576,36:-141.772,-13.2453,0,-138.834,-9.94808,-138.533 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:65:0,36,29:0:0:36,29:1296,1035:-190.482,-84.7332,-73.8961,-106.107,0,-97.377 1/2:42:0,14,28:0:0:14,28:504,1004:-123.371,-82.247,-78.0326,-41.4837,0,-33.0548 1/2:81:0,21,60:0:0:21,60:748,2127:-234.604,-173.636,-167.315,-61.3237,0,-43.2619 1/2:26:0,15,11:0:0:15,11:540,396:-76.7327,-32.6714,-28.156,-44.4211,0,-41.1098 1/1:93:0,92,1:0:0:92,1:3292,36:-296.14,-27.6948,0,-293.202,-24.3975,-292.901 1/2:59:0,37,22:0:0:37,22:1328,776:-171.869,-63.5395,-52.4014,-108.684,0,-102.061 1/1:108:0,108,0:0:0:108,0:3840,0:-345.796,-32.5112,0,-345.796,-32.5112,-345.796 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/1:10:0,10,0:0:0:10,0:352,0:-32.0182,-3.0103,0,-32.0182,-3.0103,-32.0182 1/1:75:0,75,0:0:0:75,0:2700,0:-243.243,-22.5773,0,-243.243,-22.5773,-243.243 1/2:52:0,23,29:0:0:23,29:828,1014:-150.404,-82.8385,-75.9148,-67.9204,0,-59.1906 1/1:69:0,69,0:0:0:69,0:2453,0:-221.023,-20.7711,0,-221.023,-20.7711,-221.023 1/1:24:0,24,0:0:0:24,0:856,0:-77.3611,-7.22472,0,-77.3611,-7.22472,-77.3611 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:38:0,17,21:0:0:17,21:612,743:-110.811,-60.8717,-55.7542,-50.2959,0,-43.9743 1/2:26:0,13,13:0:0:13,13:464,464:-76.0115,-38.1841,-34.2707,-38.1841,0,-34.2707 1/1:72:0,71,1:0:0:71,1:2544,36:-228.851,-21.3731,0,-225.913,-18.0759,-225.612 1/1:35:0,35,0:0:0:35,0:1256,0:-113.345,-10.5361,0,-113.345,-10.5361,-113.345 chr05 5183749 . G A 3604.98 PASS AB=0.535;ABP=7.26639;AC=9;AF=0.214286;AN=42;AO=217;CIGAR=1X;DP=973;DPB=973;DPRA=1.30563;EPP=474.22;EPPR=1642.47;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.84513;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7740;QR=26990;RO=755;RPL=217;RPP=474.22;RPPR=1642.47;RPR=0;RUN=1;SAF=0;SAP=474.22;SAR=217;SRF=0;SRP=1642.47;SRR=755;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:44,1:44:1568:1:27:0,-10.8466,-138.712 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:67:39,28:39:1396:28:985:-68.7925,0,-105.77 0/1:43:14,29:14:504:29:1040:-80.9701,0,-32.7538 0/1:84:22,62:22:788:62:2224:-175.138,0,-45.9583 0/1:26:15,11:15:536:11:392:-27.7933,0,-40.748 0/0:98:97,1:97:3455:1:36:0,-25.9027,-307.565 0/1:57:36,21:36:1292:21:756:-51.2085,0,-99.4251 0/0:112:112,0:112:4004:0:0:0,-33.7154,-360.55 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:73:73,0:73:2608:0:0:0,-21.9752,-234.968 0/1:54:24,30:24:860:30:1060:-79.4557,0,-61.4662 0/0:71:70,0:70:2512:0:0:0,-21.0721,-225.972 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:37:19,18:19:675:18:644:-47.1525,0,-49.9388 0/1:27:14,13:14:504:13:468:-34.3318,0,-37.5703 0/0:75:74,1:74:2628:1:36:0,-18.979,-233.17 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 chr05 5201372 . G A 5245.82 PASS AB=0.454054;ABP=16.5791;AC=9;AF=0.214286;AN=42;AO=338;CIGAR=1X;DP=1850;DPB=1850;DPRA=0.993621;EPP=719.699;EPPR=3161.46;GTI=0;LEN=1;MEANALT=1.2;MQM=43.7811;MQMR=59.4881;NS=21;NUMALT=1;ODDS=14.068;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12076;QR=54067;RO=1510;RPL=2;RPP=719.699;RPPR=3161.46;RPR=336;RUN=1;SAF=338;SAP=736.968;SAR=0;SRF=1510;SRP=3281.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:136,2:136:4865:2:72:0,-34.8235,-430.791 0/0:76:76,0:76:2713:0:0:0,-22.8783,-244.2 0/1:72:42,30:42:1489:30:1059:-71.0526,0,-112.549 0/1:53:21,32:21:756:32:1144:-84.1394,0,-52.3564 0/1:163:87,76:87:3105:76:2705:-189.832,0,-230.384 0/1:33:23,10:23:828:10:360:-22.3013,0,-64.8539 0/0:143:143,0:143:5118:0:0:0,-43.0473,-460.373 0/1:124:68,55:68:2428:55:1972:-136.636,0,-181.26 0/0:193:193,0:193:6928:0:0:0,-58.0988,-623.449 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:14:8,6:8:288:6:212:-14.9018,0,-22.053 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:127:127,0:127:4547:0:0:0,-38.2308,-409.234 0/1:97:45,52:45:1620:52:1864:-136.046,0,-116.778 0/0:126:126,0:126:4524:0:0:0,-37.9298,-407.13 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.429 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.105 0/1:113:61,52:61:2181:52:1860:-130.532,0,-162.478 0/1:71:47,23:47:1680:23:828:-52.1256,0,-130.016 0/0:93:93,0:93:3325:0:0:0,-27.9958,-299.298 0/0:68:68,0:68:2436:0:0:0,-20.47,-219.439 chr05 5321316 . G C 20298.1 PASS AB=0.554675;ABP=35.7785;AC=24;AF=0.571429;AN=42;AO=1009;CIGAR=1X;DP=1699;DPB=1699;DPRA=0;EPP=2194.03;EPPR=1376.22;GTI=4;LEN=1;MEANALT=1.2381;MQM=59.8999;MQMR=59.9895;NS=21;NUMALT=1;ODDS=2.39751;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36130;QR=23674;RO=664;RPL=970;RPP=1868.37;RPPR=1376.22;RPR=39;RUN=1;SAF=39;SAP=1868.37;SAR=970;SRF=0;SRP=1444.87;SRR=664;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:5,102:5:180:102:3616:-309.093,-15.6581,0 1/1:45:0,45:0:0:45:1616:-145.54,-13.5464,0 0/1:78:49,28:49:1730:28:1000:-66.7763,0,-132.444 0/1:65:44,20:44:1564:20:720:-45.503,0,-121.426 0/1:88:48,40:48:1720:40:1424:-101.967,0,-128.595 0/1:86:52,34:52:1859:34:1224:-84.3508,0,-141.7 0/1:118:21,97:21:752:97:3461:-276.18,0,-32.4847 0/1:57:38,19:38:1356:19:684:-44.7316,0,-105.182 0/1:154:27,119:27:968:119:4257:-338.997,0,-43.1275 0/0:118:96,8:96:3427:8:288:0,-5.39954,-282.377 0/1:107:96,11:96:3418:11:396:-3.77254,0,-275.624 0/1:46:31,15:31:1112:15:540:-35.0892,0,-86.544 1/1:87:7,80:7:252:80:2872:-235.688,-3.16065,0 0/1:90:54,34:54:1932:34:1220:-83.2752,0,-147.319 0/1:140:18,122:18:630:122:4376:-351.824,0,-14.8804 0/1:49:7,42:7:252:42:1500:-120.544,0,-8.27849 1/1:80:6,74:6:216:74:2660:-219.855,-4.29189,0 0/1:63:42,21:42:1478:21:756:-49.4023,0,-114.348 0/1:32:13,19:13:468:19:680:-51.8594,0,-32.8267 0/1:54:6,48:6:216:48:1724:-139.19,0,-3.53489 0/1:35:4,31:4:144:31:1116:-90.1085,0,-2.77757 chr05 5321388 . G A 11760 PASS AB=0.539062;ABP=14.8855;AC=24;AF=0.571429;AN=42;AO=648;CIGAR=1X;DP=1065;DPB=1065;DPRA=0;EPP=1410.12;EPPR=908.514;GTI=3;LEN=1;MEANALT=1;MQM=59.6944;MQMR=58.8825;NS=21;NUMALT=1;ODDS=2.21608;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22790;QR=14852;RO=417;RPL=648;RPP=1410.12;RPPR=908.514;RPR=0;RUN=1;SAF=648;SAP=1410.12;SAR=0;SRF=417;SRP=908.514;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:3,73:3:108:73:2572:-221.536,-12.8031,0 1/1:34:0,34:0:0:34:1187:-107.129,-10.235,0 0/1:51:27,24:27:972:24:852:-61.6479,0,-72.4277 0/1:45:28,17:28:1008:17:600:-40.7828,0,-77.4548 0/1:126:95,31:95:3383:31:1088:-60.2939,0,-266.357 0/1:41:24,17:24:849:17:612:-43.0712,0,-64.2793 0/1:66:31,35:31:1099:35:1237:-91.7596,0,-79.1389 0/1:59:31,28:31:1097:28:977:-70.2771,0,-80.6279 0/1:139:15,124:15:540:124:4341:-348.921,0,-7.03702 0/1:31:27,4:27:959:4:140:-3.61265,0,-77.265 0/1:13:11,2:11:381:2:72:-2.92333,0,-30.6847 0/1:5:1,4:1:36:4:136:-11.0704,0,-2.09312 0/1:100:16,84:16:572:84:2960:-236.534,0,-21.4137 0/1:74:41,33:41:1472:33:1156:-82.0702,0,-110.482 0/1:34:9,25:9:320:25:872:-68.5614,0,-18.9073 0/1:11:1,10:1:36:10:348:-28.3438,0,-0.286945 1/1:59:1,58:1:36:58:2064:-182.415,-14.1625,0 0/1:40:29,11:29:1032:11:380:-22.4801,0,-81.1523 0/1:31:23,8:23:816:8:288:-16.9272,0,-64.3945 0/1:18:2,16:2:72:16:556:-44.9486,0,-1.41818 0/1:12:2,10:2:64:10:352:-28.4058,0,-2.46633 chr05 5321526 . AAATG ACATG,GCATA 27953.2 PASS AB=0.417817,0.579674;ABP=49.7664,46.9547;AC=30,12;AF=0.714286,0.285714;AN=42;AO=894,477;CIGAR=1M1X3M,2X2M1X;DP=1377;DPB=1377;DPRA=0,1.34519;EPP=1944.31,1038.8;EPPR=0;GTI=1;LEN=1,5;MEANALT=2,2.17647;MQM=59.6834,37.6792;MQMR=0;NS=21;NUMALT=2;ODDS=3.7126;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32048,16944;QR=0;RO=0;RPL=0,0;RPP=1944.31,1038.8;RPPR=0;RPR=894,477;RUN=1,1;SAF=894,477;SAP=1944.31,1038.8;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102,0:0:0:102,0:3653,0:-328.907,-30.7051,0,-328.907,-30.7051,-328.907 1/1:50:0,48,2:0:0:48,2:1716,72:-154.373,-14.4494,0,-148.878,-8.61506,-148.276 1/2:63:0,21,41:0:0:21,41:748,1451:-172.039,-111.064,-104.742,-61.0219,0,-48.6797 1/2:38:0,15,23:0:0:15,23:540,812:-106.506,-62.4394,-57.9239,-44.4164,0,-37.4927 1/2:160:0,16,143:0:0:16,143:576,5062:-433.113,-386.111,-381.295,-47.0863,0,-4.03905 1/2:68:0,29,39:0:0:29,39:1040,1395:-189.219,-104.385,-95.655,-85.1799,0,-73.4397 1/2:53:0,45,8:0:0:45,8:1604,286:-152.952,-22.1998,-8.65344,-131.092,0,-128.684 1/2:106:0,56,50:0:0:56,50:2008,1797:-300.603,-136.818,-119.96,-164.132,0,-149.081 1/1:174:0,161,10:0:0:161,10:5784,359:-520.241,-48.4658,0,-492.821,-21.0548,-489.811 1/2:23:0,19,4:0:0:19,4:684,143:-65.5553,-9.69872,-3.97915,-56.1626,0,-54.9584 1/2:16:0,7,9:0:0:7,9:252,307:-44.4353,-23.8577,-21.7505,-20.9217,0,-18.2125 1/1:59:0,58,0:0:0:58,0:2076,0:-186.714,-17.4597,0,-186.714,-17.4597,-186.714 1/1:74:0,73,1:0:0:73,1:2628,36:-236.424,-21.9752,0,-233.677,-18.8886,-233.376 1/2:94:0,42,52:0:0:42,52:1504,1844:-263.971,-141.307,-128.664,-123.011,0,-107.358 1/2:38:0,32,6:0:0:32,6:1148,215:-110.423,-16.767,-7.134,-93.9969,0,-92.1907 1/1:14:0,13,1:0:0:13,1:468,36:-42.0908,-3.91339,0,-39.3445,-0.82682,-39.0435 1/1:63:0,62,1:0:0:62,1:2219,31:-199.452,-18.6639,0,-197.035,-15.9438,-196.734 1/2:99:0,37,62:0:0:37,62:1328,2206:-276.361,-168.056,-156.918,-108.654,0,-89.9903 1/2:39:0,14,25:0:0:14,25:500,892:-108.654,-67.9379,-63.7234,-41.0647,0,-33.5389 1/1:33:0,33,0:0:0:33,0:1180,0:-106.451,-9.93399,0,-106.451,-9.93399,-106.451 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 chr05 5321647 . G A 14421.7 PASS AB=0.468379;ABP=7.40474;AC=32;AF=0.761905;AN=42;AO=684;CIGAR=1X;DP=964;DPB=964;DPRA=0;EPP=1402.71;EPPR=611.023;GTI=0;LEN=1;MEANALT=1;MQM=59.6491;MQMR=60;NS=21;NUMALT=1;ODDS=1.53416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24414;QR=9936;RO=280;RPL=13;RPP=1377.53;RPPR=611.023;RPR=671;RUN=1;SAF=3;SAP=1462.35;SAR=681;SRF=0;SRP=611.023;SRR=280;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:0,37:0:0:37:1328:-119.716,-11.1381,0 1/1:63:1,62:1:36:62:2202:-194.844,-15.3666,0 0/1:49:25,24:25:880:24:860:-62.969,0,-64.7672 0/1:101:59,42:59:2088:42:1508:-105.611,0,-157.784 0/1:84:61,23:61:2162:23:816:-48.4729,0,-169.559 0/1:35:14,21:14:495:21:748:-57.1092,0,-34.347 1/1:34:1,33:1:36:33:1184:-103.267,-6.63675,0 0/1:69:34,35:34:1203:35:1256:-92.5742,0,-87.804 1/1:128:4,124:4:144:124:4439:-386.361,-25.2182,0 0/1:10:6,4:6:216:4:140:-9.9327,0,-16.7802 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 1/1:11:0,11:0:0:11:396:-35.9506,-3.31133,0 1/1:63:2,61:2:72:61:2169:-188.608,-12.1282,0 0/1:71:23,48:23:824:48:1719:-133.617,0,-53.1102 1/1:17:1,16:1:36:16:561:-47.2165,-1.51924,0 1/1:17:0,17:0:0:17:596:-53.9662,-5.11751,0 1/1:51:0,51:0:0:51:1819:-163.986,-15.3525,0 0/1:49:25,24:25:884:24:849:-61.9474,0,-65.1279 0/1:32:19,13:19:680:13:460:-32.1024,0,-51.8962 1/1:13:1,12:1:36:12:432:-35.6214,-0.315115,0 1/1:24:1,23:1:36:23:824:-70.8846,-3.62645,0 chr05 5321662 . G A 14466.3 PASS AB=0.462745;ABP=9.15855;AC=32;AF=0.761905;AN=42;AO=687;CIGAR=1X;DP=971;DPB=971;DPRA=0;EPP=1409.22;EPPR=617.537;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.5633;MQMR=60;NS=21;NUMALT=1;ODDS=1.25556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24481;QR=9943;RO=283;RPL=13;RPP=1384.03;RPPR=617.537;RPR=674;RUN=1;SAF=3;SAP=1468.87;SAR=684;SRF=0;SRP=617.537;SRR=283;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39:0:0:39:1381:-124.481,-11.7402,0 1/1:62:0,62:0:0:62:2228:-200.782,-18.6639,0 0/1:48:25,23:25:869:23:819:-59.5798,0,-64.0744 0/1:102:61,41:61:2160:41:1472:-102.071,0,-163.963 0/1:82:60,22:60:2099:22:788:-46.5546,0,-164.493 0/1:36:14,22:14:504:22:784:-60.0468,0,-34.861 1/1:34:1,33:1:36:33:1171:-102.096,-6.63675,0 0/1:70:36,34:36:1248:34:1220:-89.0347,0,-91.547 1/1:128:4,124:4:144:124:4420:-384.654,-25.2182,0 0/1:10:6,4:6:216:4:129:-8.91578,0,-16.7802 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 1/1:11:0,11:0:0:11:383:-34.7711,-3.31133,0 1/1:61:2,59:2:68:59:2090:-181.83,-11.9051,0 0/1:73:23,49:23:816:49:1737:-134.416,0,-51.7279 1/1:16:1,15:1:36:15:540:-45.3383,-1.21821,0 1/1:21:0,21:0:0:21:743:-67.1915,-6.32163,0 1/1:51:0,51:0:0:51:1836:-165.516,-15.3525,0 0/1:51:26,25:26:911:25:896:-65.2905,0,-66.9524 0/1:32:19,13:19:656:13:460:-32.1024,0,-49.7264 1/1:13:1,12:1:36:12:432:-35.6214,-0.315115,0 1/1:25:1,24:1:36:24:844:-72.6802,-3.92748,0 chr05 5372080 . CTTTGA CTTTTGA 22296.6 PASS AB=0.568238;ABP=19.3098;AC=33;AF=0.785714;AN=42;AO=848;CIGAR=1M1I5M;DP=1027;DPB=1169.17;DPRA=0;EPP=323.907;EPPR=47.9373;GTI=1;LEN=1;MEANALT=1.2381;MQM=53.1639;MQMR=59.9483;NS=21;NUMALT=1;ODDS=4.03626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30044;QR=6189;RO=174;RPL=247;RPP=323.907;RPPR=47.9373;RPR=601;RUN=1;SAF=0;SAP=1844.42;SAR=848;SRF=0;SRP=380.846;SRR=174;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,75:0:0:75:2668:-238.769,-22.5773,0 1/1:20:0,20:0:0:20:708:-63.7322,-6.0206,0 0/1:45:20,25:20:717:25:892:-66.7093,0,-51.3119 0/1:30:18,11:18:635:11:381:-25.4471,0,-48.3886 0/1:85:42,43:42:1500:43:1532:-111.98,0,-109.707 0/1:38:11,27:11:395:27:953:-74.4059,0,-24.453 1/1:51:0,51:0:0:51:1813:-162.902,-15.3525,0 0/1:39:13,26:13:457:26:921:-71.3605,0,-29.7238 1/1:94:0,94:0:0:94:3291:-295.019,-28.2968,0 1/1:18:0,18:0:0:18:642:-57.6807,-5.41854,0 0/1:5:1,4:1:36:4:144:-11.7519,0,-2.09312 1/1:15:0,15:0:0:15:532:-47.881,-4.51545,0 1/1:57:0,56:0:0:56:1997:-179.28,-16.8577,0 0/1:39:16,23:16:562:23:777:-58.3143,0,-39.1651 1/1:142:0,140:0:0:140:4959:-444.38,-42.1442,0 1/1:43:0,43:0:0:43:1540:-138.341,-12.9443,0 1/1:27:0,27:0:0:27:960:-86.3712,-8.12781,0 0/1:87:39,48:39:1384:48:1716:-128.022,0,-98.6694 0/1:35:12,22:12:431:22:777:-59.517,0,-28.5942 1/1:54:2,52:2:72:52:1860:-160.479,-9.4189,0 1/1:28:0,28:0:0:28:981:-88.1799,-8.42884,0 chr05 5372100 . TAG TG,TTG 21767.4 PASS AB=0.564232,0.428212;ABP=17.237,20.7814;AC=33,9;AF=0.785714,0.214286;AN=42;AO=844,172;CIGAR=1M1D1M,1M1X1M;DP=1019;DPB=737.667;DPRA=0,0.873415;EPP=1835.73,376.504;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.61905,2.3;MQM=53.1671,59.9477;MQMR=0;NS=21;NUMALT=2;ODDS=4.95174;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29853,6165;QR=0;RO=0;RPL=844,172;RPP=1835.73,376.504;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1835.73,376.504;SAR=844,172;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,75,0:0:0:75,0:2648,0:-236.365,-22.5773,0,-236.365,-22.5773,-236.365 1/1:21:0,21,0:0:0:21,0:739,0:-66.5074,-6.32163,0,-66.5074,-6.32163,-66.5074 1/2:43:0,23,20:0:0:23,20:824,716:-125.617,-58.7471,-51.8234,-67.2272,0,-61.2066 1/2:30:0,12,18:0:0:12,18:424,648:-87.6842,-53.2333,-49.621,-34.8063,0,-29.3877 1/2:85:0,43,39:0:0:43,39:1509,1396:-236.358,-113.873,-100.929,-122.512,0,-110.772 1/2:36:0,25,11:0:0:25,11:892,389:-104.618,-32.0363,-24.5106,-72.9355,0,-69.6241 1/1:53:0,53,0:0:0:53,0:1896,0:-170.405,-15.9546,0,-170.405,-15.9546,-170.405 1/2:39:0,26,13:0:0:26,13:916,464:-112.555,-38.1841,-30.3573,-74.7259,0,-70.8126 1/1:95:0,95,0:0:0:95,0:3353,0:-300.701,-28.5979,0,-300.701,-28.5979,-300.701 1/1:17:0,17,0:0:0:17,0:604,0:-54.2163,-5.11751,0,-54.2163,-5.11751,-54.2163 1/2:5:0,4,1:0:0:4,1:144,36:-14.9907,-3.29724,-2.09312,-12.053,0,-11.7519 1/1:15:0,15,0:0:0:15,0:525,0:-46.9756,-4.51545,0,-46.9756,-4.51545,-46.9756 1/1:57:0,57,0:0:0:57,0:2001,0:-180.098,-17.1587,0,-180.098,-17.1587,-180.098 1/2:40:0,23,17:0:0:23,17:812,612:-116.138,-50.2852,-43.3616,-66.2093,0,-61.0918 1/1:143:0,143,0:0:0:143,0:5068,0:-453.662,-43.0473,0,-453.662,-43.0473,-453.662 1/1:40:0,40,0:0:0:40,0:1428,0:-128.283,-12.0412,0,-128.283,-12.0412,-128.283 1/1:24:0,24,0:0:0:24,0:837,0:-75.3557,-7.22472,0,-75.3557,-7.22472,-75.3557 1/2:87:0,48,39:0:0:48,39:1689,1400:-251.55,-114.559,-100.11,-137.346,0,-125.606 1/2:32:0,20,12:0:0:20,12:708,432:-92.9801,-35.6088,-29.5882,-57.7282,0,-54.1158 1/1:54:0,52,2:0:0:52,2:1840,72:-165.285,-15.6536,0,-159.41,-9.4189,-158.808 1/1:28:0,28,0:0:0:28,0:996,0:-89.3119,-8.42884,0,-89.3119,-8.42884,-89.3119 chr05 5373180 . C T 27768.8 PASS AB=0.575035;ABP=37.8787;AC=33;AF=0.785714;AN=42;AO=1300;CIGAR=1X;DP=1607;DPB=1607;DPRA=0;EPP=2825.92;EPPR=669.652;GTI=0;LEN=1;MEANALT=1;MQM=59.9708;MQMR=59.987;NS=21;NUMALT=1;ODDS=6.37232;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46343;QR=10916;RO=307;RPL=4;RPP=2791.29;RPPR=660.995;RPR=1296;RUN=1;SAF=4;SAP=2791.29;SAR=1296;SRF=1;SRP=660.995;SRR=306;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:61:3,58:3:108:58:2060:-175.594,-8.28766,0 1/1:51:0,51:0:0:51:1802:-162.458,-15.3525,0 0/1:61:31,30:31:1101:30:1068:-78.0692,0,-81.0355 0/1:102:31,71:31:1108:71:2552:-199.225,0,-69.3236 0/1:167:83,84:83:2969:84:2991:-219.149,0,-217.169 0/1:68:25,43:25:888:43:1536:-118.063,0,-59.769 1/1:150:0,150:0:0:150:5356:-481.982,-45.1545,0 0/1:45:17,28:17:593:28:993:-76.1362,0,-40.1484 1/1:153:1,152:1:36:152:5440:-486.127,-42.4593,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 1/1:18:0,18:0:0:18:635:-57.477,-5.41854,0 1/1:94:0,94:0:0:94:3325:-299.467,-28.2968,0 0/1:77:38,39:38:1356:39:1395:-102.67,0,-99.1612 1/1:95:0,95:0:0:95:3412:-307.293,-28.5979,0 1/1:79:0,79:0:0:79:2832:-255.118,-23.7814,0 1/1:58:0,58:0:0:58:2053:-185.04,-17.4597,0 0/1:111:52,59:52:1833:59:2112:-156.935,0,-131.834 0/1:75:23,52:23:816:52:1848:-144.023,0,-51.1845 1/1:77:0,77:0:0:77:2728:-245.761,-23.1793,0 1/1:44:0,44:0:0:44:1557:-140.42,-13.2453,0 chr05 5396163 . A C 4491.43 PASS AB=0.483186;ABP=4.39774;AC=9;AF=0.214286;AN=42;AO=275;CIGAR=1X;DP=1294;DPB=1294;DPRA=1.02891;EPP=600.165;EPPR=2204.89;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.7709;MQMR=59.8959;NS=21;NUMALT=1;ODDS=7.15683;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9847;QR=36504;RO=1018;RPL=275;RPP=600.165;RPPR=2204.89;RPR=0;RUN=1;SAF=0;SAP=600.165;SAR=275;SRF=0;SRP=2213.57;SRR=1018;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.727 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/1:85:42,43:42:1508:43:1548:-114.026,0,-110.427 0/1:80:40,40:40:1440:40:1432:-105.095,0,-105.773 0/1:123:69,54:69:2468:54:1936:-137.262,0,-185.345 0/1:49:15,34:15:531:34:1220:-95.3563,0,-33.3714 0/0:80:80,0:80:2857:0:0:0,-24.0824,-256.937 0/1:39:22,17:22:783:17:608:-43.3119,0,-59.0528 0/0:136:136,0:136:4880:0:0:0,-40.9401,-439.351 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/1:5:1,4:1:36:4:138:-11.1948,0,-2.09312 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:143:143,0:143:5132:0:0:0,-43.0473,-462.02 0/1:73:47,26:47:1684:26:936:-62.5843,0,-129.872 0/0:68:68,0:68:2444:0:0:0,-20.47,-220.215 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:28:28,0:28:1008:0:0:0,-8.42884,-90.6059 0/1:49:21,28:21:752:28:985:-74.2103,0,-53.2558 0/1:62:34,27:34:1224:27:972:-69.0753,0,-91.7444 0/0:110:109,1:109:3893:1:36:0,-29.515,-346.965 0/0:51:51,0:51:1836:0:0:0,-15.3525,-165.51 chr05 5667029 . CAGA AAGG,AAGA 29883.5 PASS AB=0.548944,0.447217;ABP=13.851,15.6182;AC=33,9;AF=0.785714,0.214286;AN=42;AO=927,235;CIGAR=1X2M1X,1X3M;DP=1166;DPB=1167.75;DPRA=0,1.05024;EPP=668.481,101.041;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.71429,2.18182;MQM=59.8306,59.9617;MQMR=0;NS=21;NUMALT=2;ODDS=13.4228;PAIRED=0,0;PAIREDR=0;PAO=7,0;PQA=172,0;PQR=0;PRO=0;QA=32521,8392;QR=0;RO=0;RPL=0,0;RPP=2015.97,513.306;RPPR=0;RPR=927,235;RUN=1,1;SAF=730,169;SAP=668.481,101.041;SAR=197,66;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:38:0,38,0:0:0:38,0:1353,0:-122.07,-11.4391,0,-122.07,-11.4391,-122.07 1/1:39:0,38,1:0:0:38,1:1344,36:-120.525,-11.4391,0,-117.592,-8.147,-117.291 1/2:31:0,18,13:0:0:18,13:636,464:-89.9773,-38.1841,-32.7656,-52.1484,0,-48.235 1/2:77:0,36,41:0:0:36,41:1274,1464:-223.483,-119.714,-108.877,-104.124,0,-91.782 1/2:84:0,34,49:0:0:34,49:1205,1737:-239.669,-141.502,-131.267,-98.161,0,-83.4105 1/2:27:0,18,9:0:0:18,9:619,320:-76.52,-26.2376,-20.819,-50.433,0,-47.7237 1/1:94:0,94,0:0:0:94,0:3264,0:-293.38,-28.2968,0,-293.38,-28.2968,-293.38 1/2:40:0,23,17:0:0:23,17:806,612:-115.874,-50.2944,-43.3707,-65.9349,0,-60.8174 1/1:83:0,82,0:0:0:82,0:2877,0:-258.809,-24.6845,0,-258.809,-24.6845,-258.809 1/1:13:0,13,0:0:0:13,0:458,0:-41.5542,-3.91339,0,-41.5542,-3.91339,-41.5542 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/1:13:0,12,0:0:0:12,0:413,0:-37.149,-3.61236,0,-37.149,-3.61236,-37.149 1/1:77:0,77,0:0:0:77,0:2670,0:-240.364,-23.1793,0,-240.364,-23.1793,-240.364 1/2:46:0,29,17:0:0:29,17:1005,612:-131.971,-50.2959,-41.5661,-82.0295,0,-76.912 1/1:94:0,94,0:0:0:94,0:3283,0:-295.373,-28.2968,0,-295.373,-28.2968,-295.373 1/1:29:0,29,0:0:0:29,0:1037,0:-93.6439,-8.72987,0,-93.6439,-8.72987,-93.6439 1/1:30:0,30,0:0:0:30,0:1065,0:-96.1615,-9.0309,0,-96.1615,-9.0309,-96.1615 1/2:104:0,50,54:0:0:50,54:1753,1927:-299.906,-157.45,-142.399,-142.808,0,-126.553 1/2:107:0,77,29:0:0:77,29:2707,1040:-305.227,-84.908,-61.7287,-220.399,0,-211.669 1/1:70:0,70,0:0:0:70,0:2455,0:-220.845,-21.0721,0,-220.845,-21.0721,-220.845 1/1:65:0,64,1:0:0:64,1:2261,36:-203.392,-19.2659,0,-200.454,-15.9687,-200.153 chr05 5667034 . TGAAT TGAAC,AGAAC 50016.8 PASS AB=0.609355,0.385588;ABP=85.1721,92.9466;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1520,309;CIGAR=4M1X,1X3M1X;DP=1836;DPB=1836.4;DPRA=0,1.22278;EPP=19.6735,8.92036;EPPR=3.0103;GTI=0;LEN=1,5;MEANALT=1.80952,2.33333;MQM=59.9211,59.8673;MQMR=60;NS=21;NUMALT=2;ODDS=16.7048;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=54052,10562;QR=72;RO=2;RPL=6,2;RPP=3251.74,656.736;RPPR=7.35324;RPR=1514,307;RUN=1,1;SAF=712,171;SAP=16.1763,10.6632;SAR=808,138;SRF=1;SRP=3.0103;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,60,0:0:0:60,0:2147,0:-193.497,-18.0618,0,-193.497,-18.0618,-193.497 1/1:86:0,85,1:0:0:85,1:3026,33:-271.793,-25.5876,0,-269.128,-22.592,-268.827 1/2:55:0,42,12:0:0:42,12:1491,412:-155.02,-33.5207,-20.8774,-121.569,0,-117.956 1/2:87:0,45,41:0:0:45,41:1604,1406:-244.885,-114.132,-100.586,-130.742,0,-118.4 1/2:130:1,77,51:1:36:77,51:2764,1747:-364.063,-138.891,-118.649,-222.554,0,-210.139 1/2:62:0,46,16:0:0:46,16:1624,557:-177.892,-45.6415,-31.7941,-132.6,0,-127.783 1/1:166:0,164,2:0:0:164,2:5786,65:-520.464,-49.3689,0,-515.219,-43.8298,-514.617 1/2:90:0,44,46:0:0:44,46:1554,1582:-255.375,-128.819,-115.574,-126.905,0,-113.058 1/1:119:0,119,0:0:0:119,0:4242,0:-381.96,-35.8226,0,-381.96,-35.8226,-381.96 1/1:23:0,23,0:0:0:23,0:824,0:-74.4833,-6.92369,0,-74.4833,-6.92369,-74.4833 1/2:8:0,3,5:0:0:3,5:104,176:-23.1312,-14.68,-13.7769,-8.79971,0,-7.29456 1/1:34:0,34,0:0:0:34,0:1203,0:-108.575,-10.235,0,-108.575,-10.235,-108.575 1/1:131:0,131,0:0:0:131,0:4664,0:-419.922,-39.4349,0,-419.922,-39.4349,-419.922 1/2:64:0,47,17:0:0:47,17:1670,581:-183.587,-47.4944,-33.346,-136.437,0,-131.32 1/1:136:0,135,0:0:0:135,0:4808,0:-432.546,-40.6391,0,-432.546,-40.6391,-432.546 1/1:40:0,40,0:0:0:40,0:1427,0:-128.727,-12.0412,0,-128.727,-12.0412,-128.727 1/1:46:0,46,0:0:0:46,0:1652,0:-148.968,-13.8474,0,-148.968,-13.8474,-148.968 1/2:159:0,73,86:0:0:73,86:2604,2953:-452.345,-240.062,-218.087,-212.574,0,-186.686 1/2:136:0,105,31:0:0:105,31:3740,1014:-387.021,-82.17,-50.5618,-305.185,0,-295.853 1/1:95:0,93,1:0:0:93,1:3306,36:-297.452,-27.9958,0,-294.515,-25.0035,-294.214 1/1:109:1,108,0:1:36:108,0:3812,0:-339.679,-29.214,0,-339.98,-32.5112,-342.917 chr05 5789706 . A G 5361.49 PASS AB=0.527546;ABP=6.9581;AC=9;AF=0.214286;AN=42;AO=320;CIGAR=1X;DP=1493;DPB=1493;DPRA=1.43701;EPP=697.881;EPPR=2550.15;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=12.7332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11428;QR=42001;RO=1173;RPL=0;RPP=697.881;RPPR=2550.15;RPR=320;RUN=1;SAF=0;SAP=697.881;SAR=320;SRF=0;SRP=2550.15;SRR=1173;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:74,2:74:2648:2:72:0,-16.0416,-231.73 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:68:24,44:24:860:44:1568:-120.942,0,-57.2518 0/1:60:22,38:22:784:38:1360:-104.639,0,-52.8221 0/1:157:92,65:92:3300:65:2331:-162.787,0,-249.957 0/1:91:41,50:41:1472:50:1791:-134.078,0,-105.382 0/0:141:140,1:140:5002:1:36:0,-38.847,-446.729 0/1:61:33,28:33:1184:28:1008:-72.6735,0,-88.5055 0/0:165:164,1:164:5869:1:36:0,-46.0717,-524.721 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/0:108:108,0:108:3872:0:0:0,-32.5112,-348.674 0/1:82:28,54:28:1008:54:1934:-149.652,0,-66.3519 0/0:118:118,0:118:4224:0:0:0,-35.5215,-380.34 0/0:65:65,0:65:2312:0:0:0,-19.5669,-208.338 0/0:50:50,0:50:1800:0:0:0,-15.0515,-162.282 0/1:52:27,25:27:964:25:860:-62.0581,0,-71.4233 0/1:23:14,9:14:500:9:324:-22.5822,0,-38.4125 0/0:78:78,0:78:2786:0:0:0,-23.4803,-250.98 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 chr05 5789715 . T C 26039 PASS AB=0.485099;ABP=4.17513;AC=33;AF=0.785714;AN=42;AO=1191;CIGAR=1X;DP=1505;DPB=1505;DPRA=0;EPP=2520.21;EPPR=667.592;GTI=0;LEN=1;MEANALT=1;MQM=59.9782;MQMR=60;NS=21;NUMALT=1;ODDS=11.7199;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42666;QR=11168;RO=314;RPL=1183;RPP=2520.21;RPPR=667.592;RPR=8;RUN=1;SAF=0;SAP=2589.23;SAR=1191;SRF=0;SRP=684.853;SRR=314;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:2,74:2:72:74:2645:-231.458,-16.0416,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:68:42,26:42:1478:26:928:-63.3682,0,-112.84 0/1:61:37,24:37:1287:24:864:-59.7197,0,-97.7619 0/1:158:64,94:64:2289:94:3384:-257.211,0,-158.707 0/1:90:49,41:49:1741:41:1468:-105.323,0,-129.88 1/1:140:1,139:1:36:139:4988:-445.468,-38.5459,0 0/1:64:29,35:29:1044:35:1256:-94.0794,0,-75.0089 1/1:165:0,165:0:0:165:5915:-532.455,-49.67,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:23:0,23:0:0:23:822:-74.3027,-6.92369,0 1/1:111:0,111:0:0:111:3954:-356.039,-33.4143,0 0/1:83:54,29:54:1944:29:1029:-67.9357,0,-150.25 1/1:122:0,122:0:0:122:4353:-391.916,-36.7257,0 1/1:64:0,64:0:0:64:2300:-207.261,-19.2659,0 1/1:50:0,50:0:0:50:1788:-161.203,-15.0515,0 0/1:53:25,28:25:896:28:1008:-75.0818,0,-65.0058 0/1:22:8,14:8:273:14:504:-39.0754,0,-18.2775 1/1:79:0,79:0:0:79:2840:-255.838,-23.7814,0 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 chr05 5790207 . C G,A 30969.7 PASS AB=0.537525,0.462475;ABP=9.04021,9.04021;AC=32,10;AF=0.761905,0.238095;AN=42;AO=896,229;CIGAR=1X,1X;DP=1126;DPB=1126;DPRA=0,0.805543;EPP=1914.06,491.63;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.57143,2;MQM=59.942,60;MQMR=0;NS=21;NUMALT=2;ODDS=6.51818;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31861,8060;QR=0;RO=0;RPL=470,119;RPP=7.70223,3.77838;RPPR=0;RPR=426,110;RUN=1,1;SAF=466,118;SAP=6.15118,3.47494;SAR=430,111;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:38:0,38,0:0:0:38,0:1360,0:-122.701,-11.4391,0,-122.701,-11.4391,-122.701 1/1:46:0,46,0:0:0:46,0:1648,0:-148.609,-13.8474,0,-148.609,-13.8474,-148.609 1/2:22:0,12,10:0:0:12,10:428,360:-64.6221,-29.734,-26.1216,-35.2464,0,-32.2361 1/2:47:0,23,24:0:0:23,24:820,856:-136.979,-70.1364,-63.2127,-67.1988,0,-59.9741 1/2:44:0,24,20:0:0:24,20:860,716:-128.886,-58.7471,-51.5224,-70.4971,0,-64.4765 1/2:41:0,14,27:0:0:14,27:504,937:-117.642,-76.5133,-72.2989,-41.4837,0,-33.3559 1/1:62:0,62,0:0:0:62,0:2199,0:-198.175,-18.6639,0,-198.175,-18.6639,-198.175 1/2:46:0,24,22:0:0:24,22:827,768:-129.989,-62.8177,-55.593,-67.5181,0,-60.8955 1/1:71:0,71,0:0:0:71,0:2518,0:-226.872,-21.3731,0,-226.872,-21.3731,-226.872 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/1:21:0,21,0:0:0:21,0:748,0:-67.6453,-6.32163,0,-67.6453,-6.32163,-67.6453 1/1:116:0,116,0:0:0:116,0:4104,0:-369.548,-34.9195,0,-369.548,-34.9195,-369.548 1/2:64:0,35,29:0:0:35,29:1260,1036:-187.635,-84.824,-74.288,-103.169,0,-94.4396 1/1:69:0,68,0:0:0:68,0:2440,0:-219.495,-20.47,0,-219.495,-20.47,-219.495 1/1:36:0,35,1:0:0:35,1:1233,36:-110.914,-10.5361,0,-107.976,-7.23881,-107.675 1/2:20:0,18,2:0:0:18,2:640,68:-58.025,-5.85565,-0.437108,-52.5108,0,-51.9087 1/2:87:0,42,45:0:0:42,45:1495,1554:-248.448,-126.598,-113.955,-122.201,0,-108.654 1/2:118:0,71,47:0:0:71,47:2528,1657:-341.312,-135.267,-113.894,-206.399,0,-192.25 1/1:47:0,47,0:0:0:47,0:1672,0:-150.767,-14.1484,0,-150.767,-14.1484,-150.767 1/1:116:0,116,0:0:0:116,0:4109,0:-369.178,-34.9195,0,-369.178,-34.9195,-369.178 chr05 5885540 . C T 16444.9 PASS AB=0.438272;ABP=24.4569;AC=33;AF=0.785714;AN=42;AO=1219;CIGAR=1X;DP=1586;DPB=1586;DPRA=0;EPP=2650.04;EPPR=799.941;GTI=0;LEN=1;MEANALT=1;MQM=38.4504;MQMR=59.4905;NS=21;NUMALT=1;ODDS=7.08052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43714;QR=12999;RO=367;RPL=1219;RPP=2650.04;RPPR=799.941;RPR=0;RUN=1;SAF=1219;SAP=2650.04;SAR=0;SRF=367;SRP=799.941;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:116:0,116:0:0:116:4155:-274.239,-34.9195,0 1/1:116:0,116:0:0:116:4163:-274.522,-34.9195,0 0/1:60:32,28:32:1140:28:1008:-51.5438,0,-84.8474 0/1:60:31,29:31:1100:29:1044:-50.0267,0,-81.2485 0/1:165:78,87:78:2766:87:3116:-159.65,0,-199.456 0/1:81:44,37:44:1576:37:1328:-69.6596,0,-117.748 1/1:78:0,78:0:0:78:2778:-190.388,-23.4803,0 0/1:71:48,23:48:1703:23:820:-36.7217,0,-132.16 1/1:129:0,129:0:0:129:4632:-325.342,-38.8329,0 1/1:14:1,13:1:36:13:464:-24.3091,-1.65571,0 0/1:4:1,3:1:36:3:108:-5.68512,0,-2.39415 1/1:26:0,26:0:0:26:932:-63.5161,-7.82678,0 1/1:141:0,141:0:0:141:5055:-348.075,-42.4452,0 0/1:82:51,31:51:1798:31:1116:-51.0398,0,-137.33 1/1:91:0,91:0:0:91:3268:-216.923,-27.3937,0 1/1:35:2,33:2:72:33:1176:-77.8899,-3.69933,0 1/1:57:0,57:0:0:57:2052:-146.368,-17.1587,0 0/1:72:52,20:52:1812:20:720:-27.6004,0,-141.649 0/1:53:27,26:27:960:26:936:-44.5945,0,-70.6382 1/1:94:0,94:0:0:94:3376:-227.069,-28.2968,0 1/1:41:0,41:0:0:41:1467:-94.4477,-12.3422,0 chr05 5885631 . G T 5414.32 PASS AB=0.42741;ABP=42.4171;AC=9;AF=0.214286;AN=42;AO=373;CIGAR=1X;DP=1997;DPB=1997;DPRA=1.40255;EPP=812.97;EPPR=3518.63;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.1046;MQMR=59.8336;NS=21;NUMALT=1;ODDS=2.4483;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12950;QR=58032;RO=1623;RPL=373;RPP=812.97;RPPR=3518.63;RPR=0;RUN=1;SAF=0;SAP=812.97;SAR=373;SRF=0;SRP=3527.31;SRR=1623;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:149:148,1:148:5292:1:32:0,-41.6542,-473.177 0/0:99:99,0:99:3535:0:0:0,-29.802,-317.37 0/1:223:124,99:124:4444:99:3464:-244.812,0,-332.783 0/1:90:36,54:36:1284:54:1894:-143.544,0,-88.7707 0/1:191:118,73:118:4221:73:2526:-170.031,0,-322.572 0/1:50:26,24:26:932:24:849:-61.5721,0,-69.1458 0/0:133:133,0:133:4742:0:0:0,-40.037,-426.936 0/1:43:28,15:28:987:15:491:-31.527,0,-76.1979 0/0:194:191,2:191:6839:2:72:0,-51.6198,-608.021 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.034 0/1:4:1,3:1:36:3:89:-7.09796,0,-2.39415 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5821 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.549 0/1:112:72,40:72:2551:40:1383:-90.9662,0,-196.108 0/0:150:150,0:150:5358:0:0:0,-45.1545,-482.352 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.381 0/0:56:55,1:55:1972:1:36:0,-13.2594,-174.151 0/1:82:50,32:50:1792:32:1109:-75.3282,0,-136.877 0/1:66:38,28:38:1368:28:969:-67.6512,0,-103.553 0/0:128:127,1:127:4560:1:36:0,-34.934,-406.966 0/0:43:43,0:43:1523:0:0:0,-12.9443,-137.362 chr05 5899319 . GCAG TCAA 37402 PASS AB=0.61413;ABP=86.2815;AC=33;AF=0.785714;AN=42;AO=2090;CIGAR=1X2M1X;DP=2378;DPB=2378;DPRA=0;EPP=4541.39;EPPR=604.539;GTI=2;LEN=4;MEANALT=1.33333;MQM=33.7057;MQMR=59.8292;NS=21;NUMALT=1;ODDS=14.9475;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74231;QR=9932;RO=281;RPL=2090;RPP=4541.39;RPPR=604.539;RPR=0;RUN=1;SAF=0;SAP=4541.39;SAR=2090;SRF=0;SRP=613.194;SRR=281;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:166:0,166:0:0:166:5891:-476.142,-49.971,0 1/1:118:0,118:0:0:118:4190:-311.013,-35.5215,0 0/1:105:33,70:33:1163:70:2502:-170.494,0,-73.6268 0/1:86:28,58:28:974:58:2037:-139.139,0,-62.0814 0/1:191:112,79:112:3934:79:2807:-168.077,0,-296.688 0/1:89:13,75:13:455:75:2681:-172.535,0,-14.4899 1/1:254:0,254:0:0:254:9055:-670.588,-76.4616,0 0/1:100:23,77:23:826:77:2741:-184.031,0,-44.5609 1/1:231:0,228:0:0:228:8090:-670.495,-68.6348,0 1/1:11:0,11:0:0:11:390:-30.0941,-3.31133,0 0/1:9:3,6:3:108:6:216:-13.6849,0,-7.3659 1/1:40:0,40:0:0:40:1410:-108.533,-12.0412,0 1/1:178:0,178:0:0:178:6296:-506.267,-53.5833,0 0/1:74:33,41:33:1178:41:1460:-95.1418,0,-83.681 1/1:290:0,289:0:0:289:10257:-830.337,-86.9977,0 1/1:111:0,111:0:0:111:3957:-327.945,-33.4143,0 1/1:102:0,102:0:0:102:3598:-298.662,-30.7051,0 0/1:39:19,20:19:682:20:718:-43.703,0,-49.9697 0/1:43:17,26:17:612:26:933:-62.3332,0,-42.4691 1/1:108:0,108:0:0:108:3829:-294.692,-32.5112,0 1/1:33:0,33:0:0:33:1173:-87.2381,-9.93399,0 chr05 5899337 . GAAT AAAC,AAAT 43714 PASS AB=0.621067,0.377565;ABP=96.0747,98.1897;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2092,276;CIGAR=1X2M1X,1X3M;DP=2372;DPB=2372;DPRA=0,0.593947;EPP=4545.73,602.337;EPPR=0;GTI=2;LEN=4,1;MEANALT=1.57143,2.11111;MQM=33.673,59.8297;MQMR=0;NS=21;NUMALT=2;ODDS=13.6654;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74062,9898;QR=0;RO=0;RPL=2092,276;RPP=4545.73,602.337;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4545.73,602.337;SAR=2092,276;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:166:0,166,0:0:0:166,0:5913,0:-477.42,-49.971,0,-477.42,-49.971,-477.42 1/1:118:0,118,0:0:0:118,0:4191,0:-311.351,-35.5215,0,-311.351,-35.5215,-311.351 1/2:102:0,70,32:0:0:70,32:2506,1144:-274.252,-93.6342,-72.5621,-180.964,0,-171.331 1/2:86:0,58,28:0:0:58,28:2035,1008:-230.331,-82.6075,-65.1478,-148.069,0,-139.64 1/2:189:0,80,108:0:0:80,108:2808,3876:-517.426,-316.222,-292.139,-201.305,0,-168.794 1/2:89:0,76,13:0:0:76,13:2677,464:-215.366,-38.1841,-15.3058,-177.529,0,-173.615 1/1:255:0,254,0:0:0:254,0:8989,0:-667.712,-76.4616,0,-667.712,-76.4616,-667.712 1/2:100:0,77,23:0:0:77,23:2753,828:-258.863,-67.9204,-44.7411,-191.291,0,-184.367 1/1:229:0,229,0:0:0:229,0:8086,0:-670.904,-68.9359,0,-670.904,-68.9359,-670.904 1/1:11:0,11,0:0:0:11,0:395,0:-30.1606,-3.31133,0,-30.1606,-3.31133,-30.1606 1/2:9:0,6,3:0:0:6,3:212,108:-23.2982,-9.17208,-7.3659,-14.4647,0,-13.5616 1/1:40:0,40,0:0:0:40,0:1420,0:-108.918,-12.0412,0,-108.918,-12.0412,-108.918 1/1:176:0,176,0:0:0:176,0:6219,0:-500.668,-52.9813,0,-500.668,-52.9813,-500.668 1/2:74:0,41,33:0:0:41,33:1461,1178:-200.914,-96.1232,-83.781,-105.129,0,-95.1952 1/1:291:0,289,0:0:0:289,0:10189,0:-825.739,-86.9977,0,-825.739,-86.9977,-825.739 1/1:111:0,111,0:0:0:111,0:3970,0:-329.101,-33.4143,0,-329.101,-33.4143,-329.101 1/1:102:0,102,0:0:0:102,0:3586,0:-297.934,-30.7051,0,-297.934,-30.7051,-297.934 1/2:39:0,20,19:0:0:20,19:714,680:-104.892,-55.8096,-49.789,-49.4153,0,-43.6957 1/2:43:0,26,17:0:0:26,17:922,612:-116.791,-50.2959,-42.4691,-66.838,0,-61.7205 1/1:108:0,108,0:0:0:108,0:3824,0:-294.014,-32.5112,0,-294.014,-32.5112,-294.014 1/1:34:0,34,0:0:0:34,0:1192,0:-89.0357,-10.235,0,-89.0357,-10.235,-89.0357 chr05 5914895 . C T 11982.2 PASS AB=0.437757;ABP=68.427;AC=9;AF=0.214286;AN=42;AO=858;CIGAR=1X;DP=4286;DPB=4286;DPRA=1.36417;EPP=1866.13;EPPR=7446.82;GTI=0;LEN=1;MEANALT=1;MQM=35.7611;MQMR=45.0368;NS=21;NUMALT=1;ODDS=22.3396;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30702;QR=121628;RO=3428;RPL=559;RPP=174.096;RPPR=138.217;RPR=299;RUN=1;SAF=559;SAP=174.096;SAR=299;SRF=1945;SRP=138.217;SRR=1483;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:186:184,2:184:6520:2:72:0,-50.4083,-552.695 0/0:80:80,0:80:2859:0:0:0,-24.0824,-238.512 0/1:190:96,94:96:3400:94:3375:-173.372,0,-223.83 0/1:287:155,132:155:5510:132:4723:-263.797,0,-378.011 0/1:478:257,221:257:9083:221:7898:-437.357,0,-627.33 0/1:111:78,33:78:2754:33:1176:-37.6203,0,-205.776 0/0:321:321,0:321:11441:0:0:0,-96.6306,-953.868 0/1:165:108,57:108:3834:57:2048:-67.4356,0,-270.859 0/0:442:437,5:437:15498:5:176:0,-118.084,-1297.17 0/0:47:47,0:47:1677:0:0:0,-14.1484,-135.714 0/1:25:13,12:13:468:12:432:-18.3457,0,-31.365 0/0:80:80,0:80:2862:0:0:0,-24.0824,-236.975 0/0:293:293,0:293:10407:0:0:0,-88.2018,-875.873 0/1:315:148,167:148:5215:167:5975:-325.474,0,-341.074 0/0:306:306,0:306:10870:0:0:0,-92.1152,-913.057 0/0:99:99,0:99:3524:0:0:0,-29.802,-296.444 0/0:96:96,0:96:3386:0:0:0,-28.8989,-284.375 0/1:212:122,90:122:4312:90:3215:-123.059,0,-295.431 0/1:161:116,45:116:4111:45:1612:-64.906,0,-302.021 0/0:265:265,0:265:9403:0:0:0,-79.7729,-796.734 0/0:127:127,0:127:4494:0:0:0,-38.2308,-377.749 chr05 5939743 . CCACCT TCACCT,TCACAA 14918.3 PASS AB=0.50324,0.490281;ABP=3.05251,3.39019;AC=32,10;AF=0.761905,0.238095;AN=42;AO=489,238;CIGAR=1X5M,1X3M2X;DP=731;DPB=731;DPRA=0,2.47396;EPP=1064.86,519.821;EPPR=5.18177;GTI=1;LEN=1,6;MEANALT=1.57143,2.22222;MQM=60,59.6765;MQMR=60;NS=21;NUMALT=2;ODDS=0.633883;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17357,8320;QR=35;RO=1;RPL=0,0;RPP=1064.86,519.821;RPPR=5.18177;RPR=489,238;RUN=1,1;SAF=0,0;SAP=1064.86,519.821;SAR=489,238;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:12:0,12,0:0:0:12,0:424,0:-38.4964,-3.61236,0,-38.4964,-3.61236,-38.4964 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/2:10:0,6,4:0:0:6,4:212,133:-28.3712,-11.0933,-9.28709,-17.6186,0,-16.4145 1/2:11:0,2,9:0:0:2,9:72,323:-32.5761,-26.7011,-26.099,-6.23466,0,-3.52539 1/2:41:0,11,30:0:0:11,30:387,1064:-118.543,-87.0412,-83.7299,-31.8546,0,-22.8237 2/2:12:0,1,11:0:0:1,11:36,391:-35.0986,-32.1608,-31.8597,-3.31133,-0.0140851,0 1/1:20:0,20,0:0:0:20,0:712,0:-64.4067,-6.0206,0,-64.4067,-6.0206,-64.4067 1/2:12:0,7,5:0:0:7,5:252,178:-35.4278,-14.8636,-12.7564,-20.9217,0,-19.4166 1/1:23:0,23,0:0:0:23,0:785,0:-70.9635,-6.92369,0,-70.9635,-6.92369,-70.9635 1/1:55:0,55,0:0:0:55,0:1968,0:-177.395,-16.5567,0,-177.395,-16.5567,-177.395 1/2:123:1,64,58:1:35:64,58:2269,2009:-344.959,-160.405,-143.987,-182.008,0,-167.396 1/1:67:0,66,0:0:0:66,0:2325,0:-209.148,-19.868,0,-209.148,-19.868,-209.148 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:13:0,6,7:0:0:6,7:212,236:-36.7321,-19.4592,-17.653,-17.6186,0,-15.5114 1/1:21:0,21,0:0:0:21,0:744,0:-67.2843,-6.32163,0,-67.2843,-6.32163,-67.2843 1/1:12:0,12,0:0:0:12,0:423,0:-38.4051,-3.61236,0,-38.4051,-3.61236,-38.4051 1/1:12:0,12,0:0:0:12,0:428,0:-38.8588,-3.61236,0,-38.8588,-3.61236,-38.8588 1/2:234:0,121,111:0:0:121,111:4328,3878:-668.379,-315.46,-279.036,-352.936,0,-319.522 1/2:19:0,16,3:0:0:16,3:568,108:-55.4484,-9.17208,-4.3556,-46.6354,0,-45.7323 1/1:10:0,10,0:0:0:10,0:356,0:-32.3812,-3.0103,0,-32.3812,-3.0103,-32.3812 1/1:12:0,12,0:0:0:12,0:428,0:-38.8588,-3.61236,0,-38.8588,-3.61236,-38.8588 chr05 5941728 . CA TG,CG 69202.8 PASS AB=0.570281,0.427041;ABP=67.108,72.0846;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2925,645;CIGAR=2X,1M1X;DP=3583;DPB=3583;DPRA=0,1.09784;EPP=6354.57,1403.61;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.09524,2.46154;MQM=29.8229,32.0434;MQMR=44;NS=21;NUMALT=2;ODDS=7.39538;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=102778,22634;QR=36;RO=1;RPL=1372,644;RPP=27.3315,1394.94;RPPR=5.18177;RPR=1553,1;RUN=1,1;SAF=1372,644;SAP=27.3315,1394.94;SAR=1553,1;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:206:0,205,0:0:0:205,0:7222,0:-506.308,-61.7112,0,-506.308,-61.7112,-506.308 1/1:184:0,184,0:0:0:184,0:6466,0:-457.265,-55.3895,0,-457.265,-55.3895,-457.265 1/2:147:0,85,62:0:0:85,62:2975,2184:-317.986,-149.768,-124.181,-168.499,0,-149.835 1/2:255:0,125,130:0:0:125,130:4397,4622:-548.006,-321.963,-284.334,-226.314,0,-187.18 1/2:319:0,242,77:0:0:242,77:8439,2701:-693.6,-190.176,-117.327,-503.721,0,-480.542 1/2:131:0,78,53:0:0:78,53:2769,1883:-275.664,-120.88,-97.3994,-155.058,0,-139.103 1/1:316:0,315,0:0:0:315,0:11088,0:-787.961,-94.8245,0,-787.961,-94.8245,-787.961 1/2:125:1,61,63:1:36:61,63:2146,2197:-301.068,-144.879,-129.398,-153.562,0,-137.479 1/1:314:0,313,0:0:0:313,0:11022,0:-749.464,-94.2224,0,-749.464,-94.2224,-749.464 1/1:23:0,23,0:0:0:23,0:792,0:-66.1313,-6.92369,0,-66.1313,-6.92369,-66.1313 1/2:18:0,9,9:0:0:9,9:309,324:-36.4782,-20.2115,-17.5022,-16.5237,0,-13.8145 1/1:48:0,48,0:0:0:48,0:1686,0:-139.338,-14.4494,0,-139.338,-14.4494,-139.338 1/1:268:0,266,1:0:0:266,1:9382,36:-634.141,-80.074,0,-631.63,-77.5016,-631.329 1/2:179:0,93,86:0:0:93,86:3219,3006:-404.26,-209.54,-181.545,-195.005,0,-169.117 1/1:309:0,305,1:0:0:305,1:10716,36:-711.533,-91.8142,0,-709.023,-89.2847,-708.722 1/1:124:0,123,1:0:0:123,1:4323,32:-310.886,-37.0267,0,-308.466,-34.3041,-308.165 1/1:62:0,62,0:0:0:62,0:2189,0:-149.915,-18.6639,0,-149.915,-18.6639,-149.915 1/2:169:0,48,119:0:0:48,119:1685,4116:-407.878,-281.076,-266.627,-126.852,0,-91.0295 1/2:151:0,111,39:0:0:111,39:3890,1357:-316.856,-93.5263,-60.1119,-223.413,0,-211.673 1/1:101:0,96,4:0:0:96,4:3349,140:-278.08,-28.8989,0,-268.797,-19.6681,-267.593 1/1:134:0,133,0:0:0:133,0:4714,0:-308.726,-40.037,0,-308.726,-40.037,-308.726 chr05 6080180 . A T,C 35729 PASS AB=0.611679,0.388321;ABP=77.2176,77.2176;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1392,266;CIGAR=1X,1X;DP=1659;DPB=1659;DPRA=0,0.937714;EPP=3025.7,580.622;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.42857,2;MQM=59.6774,59.5677;MQMR=60;NS=21;NUMALT=2;ODDS=1.82123;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49442,9376;QR=36;RO=1;RPL=1,0;RPP=3017.02,580.622;RPPR=5.18177;RPR=1391,266;RUN=1,1;SAF=1,0;SAP=3017.02,580.622;SAR=1391,266;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92,0:0:0:92,0:3279,0:-294.099,-27.6948,0,-294.099,-27.6948,-294.099 1/1:76:0,76,0:0:0:76,0:2708,0:-243.947,-22.8783,0,-243.947,-22.8783,-243.947 1/2:69:0,42,27:0:0:42,27:1492,956:-199.793,-78.2208,-65.5775,-121.927,0,-113.799 1/2:79:0,48,31:0:0:48,31:1687,1095:-226.84,-89.5272,-75.0777,-137.665,0,-128.333 1/2:186:0,131,55:0:0:131,55:4682,1937:-539.75,-158.007,-118.572,-382.097,0,-365.54 1/2:87:0,47,40:0:0:47,40:1664,1424:-251.951,-116.407,-102.259,-135.899,0,-123.857 1/1:124:0,124,0:0:0:124,0:4367,0:-392.933,-37.3277,0,-392.933,-37.3277,-392.933 1/2:80:0,42,38:0:0:42,38:1504,1313:-229.663,-107.004,-94.3608,-123.01,0,-111.571 1/1:85:0,85,0:0:0:85,0:3028,0:-272.735,-25.5876,0,-272.735,-25.5876,-272.735 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:4:0,1,3:0:0:1,3:36,108:-12.1011,-9.16364,-8.86261,-3.29724,0,-2.39415 1/1:25:0,25,0:0:0:25,0:876,0:-79.1509,-7.52575,0,-79.1509,-7.52575,-79.1509 1/1:122:0,122,0:0:0:122,0:4320,0:-388.337,-36.7257,0,-388.337,-36.7257,-388.337 1/2:73:0,41,32:0:0:41,32:1456,1132:-211.162,-92.5419,-80.1996,-118.974,0,-109.341 1/1:144:0,144,0:0:0:144,0:5135,0:-462.278,-43.3483,0,-462.278,-43.3483,-462.278 1/1:91:0,91,0:0:0:91,0:3226,0:-290.555,-27.3937,0,-290.555,-27.3937,-290.555 1/1:50:1,49,0:1:36:49,0:1723,0:-151.75,-11.4532,0,-152.051,-14.7505,-154.988 1/2:37:0,22,15:0:0:22,15:784,532:-107.223,-43.3253,-36.7027,-64.2509,0,-59.7354 1/2:70:0,45,25:0:0:45,25:1591,879:-201.47,-71.901,-58.3547,-129.921,0,-122.396 1/1:100:0,100,0:0:0:100,0:3552,0:-319.797,-30.103,0,-319.797,-30.103,-319.797 1/1:57:0,57,0:0:0:57,0:2044,0:-184.229,-17.1587,0,-184.229,-17.1587,-184.229 chr05 6474446 . G A 23726.7 PASS AB=0.549467;ABP=16.9745;AC=33;AF=0.785714;AN=42;AO=1111;CIGAR=1X;DP=1408;DPB=1408;DPRA=0;EPP=2406.84;EPPR=639.281;GTI=0;LEN=1;MEANALT=1;MQM=59.9955;MQMR=59.9798;NS=21;NUMALT=1;ODDS=9.0649;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39789;QR=10601;RO=297;RPL=1;RPP=2406.84;RPPR=639.281;RPR=1110;RUN=1;SAF=1111;SAP=2415.52;SAR=0;SRF=297;SRP=647.938;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42:0:0:42:1508:-136.014,-12.6433,0 1/1:48:0,48:0:0:48:1709:-154.094,-14.4494,0 0/1:30:13,17:13:464:17:608:-46.0211,0,-33.0666 0/1:83:46,37:46:1647:37:1332:-95.1969,0,-123.532 0/1:177:84,93:84:3000:93:3313:-245.106,0,-216.95 0/1:69:32,37:32:1135:37:1328:-99.0512,0,-81.6852 1/1:103:0,103:0:0:103:3684:-331.763,-31.0061,0 0/1:67:26,41:26:919:41:1472:-112.607,0,-62.8572 1/1:123:0,123:0:0:123:4428:-398.689,-37.0267,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:66:1,65:1:36:65:2336:-206.901,-16.2697,0 0/1:89:44,45:44:1568:45:1616:-118.938,0,-114.62 1/1:117:0,117:0:0:117:4176:-376.023,-35.2205,0 1/1:37:0,37:0:0:37:1295:-116.849,-11.1381,0 1/1:54:0,54:0:0:54:1932:-174.157,-16.2556,0 0/1:56:17,39:17:612:39:1400:-109.442,0,-38.5558 0/1:77:30,47:30:1076:47:1684:-128.668,0,-73.9735 1/1:107:0,107:0:0:107:3848:-346.514,-32.2102,0 1/1:34:0,34:0:0:34:1224:-110.467,-10.235,0 chr05 6579041 . 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GGG CGC,TGC 16221.9 PASS AB=0.496552,0.489655;ABP=3.04025,3.27986;AC=33,9;AF=0.785714,0.214286;AN=42;AO=464,147;CIGAR=1X1M1X,1X1M1X;DP=616;DPB=616;DPRA=0,1.17391;EPP=28.6374,13.779;EPPR=0;GTI=2;LEN=3,3;MEANALT=1.85714,2.21429;MQM=59.9828,59.9864;MQMR=0;NS=21;NUMALT=2;ODDS=1.13869;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=16294,5141;QR=0;RO=0;RPL=269,89;RPP=28.6374,17.2061;RPPR=0;RPR=195,58;RUN=1,1;SAF=0,2;SAP=1010.57,305.081;SAR=464,145;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,33,4:0:0:33,4:1143,140:-104.63,-11.7407,-1.80668,-93.2386,0,-92.0345 1/1:17:0,16,1:0:0:16,1:567,27:-51.0866,-4.81648,0,-48.9628,-2.41773,-48.6618 1/2:31:0,14,15:0:0:14,15:502,528:-83.942,-42.9939,-38.7795,-40.9606,0,-36.4452 1/2:17:0,10,7:0:0:10,7:360,252:-50.2959,-20.9217,-17.9114,-29.734,0,-27.6268 1/2:40:0,13,26:0:0:13,26:456,904:-110.597,-73.4877,-69.5743,-37.1003,0,-29.2735 1/2:23:0,9,14:0:0:9,14:309,481:-64.4915,-39.4017,-36.6924,-25.4332,0,-21.2188 1/1:28:0,28,0:0:0:28,0:996,0:-89.9555,-8.42884,0,-89.9555,-8.42884,-89.9555 1/2:35:0,10,24:0:0:10,24:348,852:-97.7103,-69.4157,-66.4054,-28.2857,0,-21.061 1/1:84:0,83,1:0:0:83,1:2925,29:-263.194,-24.9855,0,-260.886,-22.3869,-260.585 1/1:4:0,4,0:0:0:4,0:136,0:-12.575,-1.20412,0,-12.575,-1.20412,-12.575 1/1:5:0,5,0:0:0:5,0:175,0:-16.0931,-1.50515,0,-16.0931,-1.50515,-16.0931 1/1:10:0,9,1:0:0:9,1:298,28:-26.8549,-2.70927,0,-24.6414,-0.210733,-24.3404 1/1:23:0,23,0:0:0:23,0:805,0:-72.7673,-6.92369,0,-72.7673,-6.92369,-72.7673 1/2:21:0,13,8:0:0:13,8:465,284:-61.4142,-23.4953,-19.5819,-38.2747,0,-35.8665 1/1:78:0,77,0:0:0:77,0:2709,0:-243.694,-23.1793,0,-243.694,-23.1793,-243.694 1/1:15:0,14,1:0:0:14,1:486,33:-43.7365,-4.21442,0,-41.0694,-1.21632,-40.7684 1/1:12:0,12,0:0:0:12,0:430,0:-39.0401,-3.61236,0,-39.0401,-3.61236,-39.0401 1/2:39:0,13,26:0:0:13,26:460,912:-112.037,-74.5672,-70.6538,-37.8222,0,-29.9955 1/2:47:0,29,18:0:0:29,18:1027,637:-135.898,-52.24,-43.5102,-84.0122,0,-78.5937 1/1:16:0,15,1:0:0:15,1:520,34:-46.7858,-4.51545,0,-44.0282,-1.41757,-43.7272 1/1:34:0,34,0:0:0:34,0:1177,0:-106.231,-10.235,0,-106.231,-10.235,-106.231 chr05 7989054 . TG GT,TT 39508.6 PASS AB=0.571242,0.426144;ABP=36.7348,39.2554;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1564,333;CIGAR=2X,1M1X;DP=1902;DPB=1902;DPRA=0,1.00999;EPP=3177.11,683.333;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.7619,2.36364;MQM=40.509,54.4955;MQMR=0;NS=21;NUMALT=2;ODDS=3.45956;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54686,11885;QR=0;RO=0;RPL=26,5;RPP=3177.11,683.333;RPPR=0;RPR=1538,328;RUN=1,1;SAF=1564,333;SAP=3399.19,726.111;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:0,129,0:0:0:129,0:4496,0:-391.927,-38.8329,0,-391.927,-38.8329,-391.927 1/1:100:0,98,1:0:0:98,1:3457,36:-290.722,-29.5009,0,-287.792,-26.5065,-287.491 1/2:80:0,39,41:0:0:39,41:1389,1472:-229.526,-120.315,-108.575,-109.563,0,-97.2204 1/2:133:0,85,48:0:0:85,48:3009,1716:-373.757,-139.555,-113.968,-234.552,0,-220.103 1/2:232:0,122,109:0:0:122,109:4233,3904:-648.675,-317.803,-281.077,-330.988,0,-298.176 1/2:68:0,52,15:0:0:52,15:1840,536:-183.029,-43.7363,-28.0827,-139.44,0,-134.924 1/1:133:0,133,0:0:0:133,0:4666,0:-393.64,-40.037,0,-393.64,-40.037,-393.64 1/2:59:0,30,29:0:0:30,29:1032,1025:-163.221,-83.659,-74.6281,-79.9025,0,-71.1726 1/1:153:0,152,0:0:0:152,0:5315,0:-464.429,-45.7566,0,-464.429,-45.7566,-464.429 1/1:7:0,7,0:0:0:7,0:241,0:-21.2167,-2.10721,0,-21.2167,-2.10721,-21.2167 1/2:5:0,3,2:0:0:3,2:108,68:-13.3242,-5.8436,-4.94051,-7.80856,0,-7.2065 1/1:7:0,7,0:0:0:7,0:252,0:-22.1087,-2.10721,0,-22.1087,-2.10721,-22.1087 1/1:62:0,62,0:0:0:62,0:2136,0:-186.069,-18.6639,0,-186.069,-18.6639,-186.069 1/2:105:0,60,45:0:0:60,45:2031,1584:-287.777,-129.027,-110.965,-159.091,0,-145.544 1/1:169:0,169,0:0:0:169,0:5903,0:-513.466,-50.8741,0,-513.466,-50.8741,-513.466 1/1:91:0,91,0:0:0:91,0:3201,0:-282.631,-27.3937,0,-282.631,-27.3937,-282.631 1/1:104:0,104,0:0:0:104,0:3607,0:-317.418,-31.3071,0,-317.418,-31.3071,-317.418 1/2:43:0,21,22:0:0:21,22:750,788:-121.809,-64.361,-58.0394,-57.7952,0,-51.1726 1/2:40:0,25,15:0:0:25,15:882,540:-113.364,-44.1596,-36.6338,-69.5563,0,-65.0409 1/1:136:0,129,6:0:0:129,6:4505,216:-388.269,-38.8329,0,-370.671,-21.1075,-368.865 1/1:46:0,46,0:0:0:46,0:1633,0:-137.104,-13.8474,0,-137.104,-13.8474,-137.104 chr05 7990851 . C T 7967.92 PASS AB=0.467308;ABP=12.665;AC=9;AF=0.214286;AN=42;AO=491;CIGAR=1X;DP=2578;DPB=2578;DPRA=1.39003;EPP=1069.2;EPPR=4508.85;GTI=0;LEN=1;MEANALT=1;MQM=59.8798;MQMR=59.9756;NS=21;NUMALT=1;ODDS=6.51089;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17573;QR=74579;RO=2087;RPL=0;RPP=1069.2;RPPR=4508.85;RPR=491;RUN=1;SAF=491;SAP=1069.2;SAR=0;SRF=2087;SRP=4534.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:163:163,0:163:5839:0:0:0,-49.0679,-525.621 0/0:125:125,0:125:4462:0:0:0,-37.6287,-401.75 0/1:89:51,38:51:1828:38:1356:-95.5488,0,-138.009 0/1:172:83,89:83:2971:89:3184:-235.007,0,-215.845 0/1:276:142,134:142:5074:134:4814:-350.328,0,-373.72 0/1:137:70,67:70:2508:67:2389:-173.797,0,-184.731 0/0:186:185,1:185:6565:1:36:0,-52.3933,-587.339 0/1:83:42,41:42:1508:41:1472:-107.791,0,-111.029 0/0:213:212,1:212:7588:1:36:0,-60.5211,-679.358 0/0:21:21,0:21:743:0:0:0,-6.32163,-67.1933 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:43:43,0:43:1536:0:0:0,-12.9443,-138.533 0/0:192:192,0:192:6872:0:0:0,-57.7978,-618.549 0/1:105:60,45:60:2144:45:1603:-112.844,0,-161.62 0/0:209:208,1:208:7425:1:36:0,-59.317,-664.661 0/0:109:108,1:108:3866:1:36:0,-29.214,-344.535 0/0:98:98,0:98:3480:0:0:0,-29.5009,-312.556 0/1:90:44,46:44:1580:46:1647:-121.425,0,-115.399 0/1:84:61,23:61:2175:23:820:-48.836,0,-170.729 0/0:139:138,1:138:4947:1:36:0,-38.2449,-441.78 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 chr05 8360762 . A T 4783.61 PASS AB=0.446402;ABP=20.0026;AC=8;AF=0.190476;AN=42;AO=306;CIGAR=1X;DP=1579;DPB=1579;DPRA=1.26635;EPP=667.481;EPPR=2767.29;GTI=0;LEN=1;MEANALT=1;MQM=59.915;MQMR=59.9544;NS=21;NUMALT=1;ODDS=8.30926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10863;QR=45331;RO=1273;RPL=0;RPP=667.481;RPPR=2767.29;RPR=306;RUN=1;SAF=0;SAP=667.481;SAR=306;SRF=0;SRP=2767.29;SRR=1273;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:121:121,0:121:4315:0:0:0,-36.4246,-388.527 0/0:51:50,1:50:1784:1:36:0,-11.7543,-157.244 0/1:81:48,33:48:1685:33:1167:-80.953,0,-127.551 0/1:120:60,60:60:2144:60:2119:-154.855,0,-157.104 0/1:146:73,73:73:2612:73:2607:-190.557,0,-191.377 0/1:30:17,13:17:612:13:468:-33.4287,0,-46.3825 0/0:113:112,1:112:4008:1:36:0,-30.4181,-356.375 0/1:81:42,39:42:1481:39:1396:-101.556,0,-109.069 0/0:153:153,0:153:5441:0:0:0,-46.0576,-489.821 0/0:7:7,0:7:243:0:0:0,-2.10721,-22.2075 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:22:22,0:22:777:0:0:0,-6.62266,-70.2504 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/1:113:63,50:63:2255:50:1772:-125.747,0,-169.196 0/0:91:91,0:91:3219:0:0:0,-27.3937,-289.932 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.755 0/0:122:122,0:122:4337:0:0:0,-36.7257,-390.507 0/1:60:34,26:34:1216:26:924:-65.4159,0,-91.6848 0/1:50:40,10:40:1399:10:338:-15.6945,0,-111.152 0/0:84:84,0:84:3003:0:0:0,-25.2865,-270.501 0/0:36:36,0:36:1284:0:0:0,-10.8371,-115.863 chr05 8360930 . G C 29145.9 PASS AB=0.501982;ABP=3.03612;AC=34;AF=0.809524;AN=42;AO=1378;CIGAR=1X;DP=1762;DPB=1762;DPRA=0;EPP=2995.3;EPPR=836.856;GTI=0;LEN=1;MEANALT=1;MQM=59.6727;MQMR=59.9974;NS=21;NUMALT=1;ODDS=2.15251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49088;QR=13706;RO=384;RPL=0;RPP=2995.3;RPPR=836.856;RPR=1378;RUN=1;SAF=0;SAP=2995.3;SAR=1378;SRF=0;SRP=836.856;SRR=384;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:122:3,119:3:108:119:4233:-370.947,-26.6505,0 1/1:92:0,92:0:0:92:3292:-296.499,-27.6948,0 0/1:74:34,40:34:1220:40:1410:-104.92,0,-87.8306 0/1:143:71,72:71:2552:72:2569:-188.276,0,-186.883 0/1:158:81,77:81:2879:77:2732:-198.528,0,-211.785 0/1:84:46,38:46:1631:38:1349:-96.4218,0,-121.792 1/1:193:0,193:0:0:193:6894:-620.525,-58.0988,0 0/1:133:73,60:73:2619:60:2138:-152.332,0,-195.919 1/1:122:0,122:0:0:122:4342:-390.742,-36.7257,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:14:1,13:1:36:13:464:-38.4992,-0.616145,0 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 1/1:30:1,29:1:36:29:1021:-88.5458,-5.43263,0 0/1:85:41,44:41:1446:44:1557:-114.82,0,-104.847 1/1:115:0,115:0:0:115:4101:-368.995,-34.6185,0 1/1:104:0,104:0:0:104:3719:-334.613,-31.3071,0 1/1:68:0,68:0:0:68:2428:-218.663,-20.47,0 0/1:25:13,12:13:468:12:419:-30.5169,0,-34.9339 0/1:55:18,37:18:639:37:1324:-102.905,0,-41.2816 1/1:71:1,70:1:36:70:2496:-221.295,-17.7749,0 1/1:53:1,52:1:36:52:1848:-162.999,-12.3563,0 chr05 8360996 . CC CG,TG 54681 PASS AB=0.504331,0.492782;ABP=3.17959,3.48054;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2001,516;CIGAR=1M1X,2X;DP=2522;DPB=2522;DPRA=0,1.23364;EPP=4348.13,1123.49;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.71429,2.18182;MQM=59.2834,59.9884;MQMR=0;NS=21;NUMALT=2;ODDS=1.74794;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71502,18295;QR=0;RO=0;RPL=0,0;RPP=4348.13,1123.49;RPPR=0;RPR=2001,516;RUN=1,1;SAF=2001,516;SAP=4348.13,1123.49;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:95:0,95,0:0:0:95,0:3404,0:-306.03,-28.5979,0,-306.03,-28.5979,-306.03 1/1:99:0,98,0:0:0:98,0:3493,0:-313.898,-29.5009,0,-313.898,-29.5009,-313.898 1/2:150:0,74,76:0:0:74,76:2656,2694:-436.38,-219.825,-197.549,-216.912,0,-194.034 1/2:86:0,49,37:0:0:49,37:1760,1319:-251.442,-107.873,-93.1223,-143.927,0,-132.789 1/2:264:0,146,115:0:0:146,115:5228,4055:-756.014,-330.158,-286.208,-425.851,0,-391.233 1/2:116:0,50,66:0:0:50,66:1781,2336:-335.704,-190.627,-175.576,-145.431,0,-125.563 1/1:214:0,214,0:0:0:214,0:7650,0:-688.159,-64.4204,0,-688.159,-64.4204,-688.159 1/2:124:0,43,81:0:0:43,81:1529,2906:-361.597,-237.392,-224.448,-124.561,0,-100.178 1/1:220:0,219,0:0:0:219,0:7849,0:-705.857,-65.9256,0,-705.857,-65.9256,-705.857 1/1:38:0,38,0:0:0:38,0:1364,0:-122.83,-11.4391,0,-122.83,-11.4391,-122.83 1/2:11:0,9,2:0:0:9,2:324,72:-32.6714,-6.23466,-3.52539,-26.7966,0,-26.1945 1/1:52:0,52,0:0:0:52,0:1853,0:-166.791,-15.6536,0,-166.791,-15.6536,-166.791 1/1:167:0,167,0:0:0:167,0:5990,0:-539.009,-50.272,0,-539.009,-50.272,-539.009 1/2:140:0,67,73:0:0:67,73:2374,2573:-402.616,-209.842,-189.673,-193.127,0,-171.152 1/1:186:0,185,1:0:0:185,1:6614,36:-594.78,-55.6906,0,-591.843,-52.3933,-591.542 1/1:51:0,51,0:0:0:51,0:1828,0:-164.773,-15.3525,0,-164.773,-15.3525,-164.773 1/1:69:0,69,0:0:0:69,0:2431,0:-218.995,-20.7711,0,-218.995,-20.7711,-218.995 1/2:93:0,49,44:0:0:49,44:1736,1578:-270.464,-129.067,-114.316,-141.754,0,-128.509 1/2:55:0,37,18:0:0:37,18:1324,618:-158.44,-50.5209,-39.3828,-108.267,0,-102.849 1/1:227:0,224,3:0:0:224,3:7999,108:-719.525,-67.4307,0,-710.713,-58.2586,-709.81 1/1:65:0,65,0:0:0:65,0:2315,0:-208.442,-19.567,0,-208.442,-19.567,-208.442 chr05 8361001 . ATTTCTCTA ATTTTTCTCTA 39776.9 PASS AB=0.485265;ABP=4.93007;AC=33;AF=0.785714;AN=42;AO=1902;CIGAR=1M2I8M;DP=2439;DPB=2864.22;DPRA=0;EPP=4133.15;EPPR=1136.52;GTI=0;LEN=2;MEANALT=1.66667;MQM=59.4921;MQMR=59.9943;NS=21;NUMALT=1;ODDS=6.00447;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66962;QR=18391;RO=522;RPL=0;RPP=4133.15;RPPR=1136.52;RPR=1902;RUN=1;SAF=1902;SAP=4133.15;SAR=0;SRF=522;SRP=1136.52;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,88:0:0:88:3088:-277.846,-26.4906,0 1/1:93:0,91:0:0:91:3199:-287.627,-27.3937,0 0/1:150:79,71:79:2802:71:2491:-179.219,0,-207.268 0/1:87:40,47:40:1417:47:1660:-123.492,0,-101.638 0/1:252:114,136:114:4015:136:4816:-357.823,0,-285.985 0/1:112:66,44:66:2305:44:1572:-108.301,0,-174.258 1/1:209:0,208:0:0:208:7366:-662.42,-62.6142,0 0/1:124:82,42:82:2913:42:1405:-89.1083,0,-225.08 1/1:215:0,215:0:0:215:7549:-679.23,-64.7215,0 1/1:34:0,34:0:0:34:1212:-109.386,-10.235,0 0/1:10:2,8:2:72:8:280:-22.529,0,-3.82642 1/1:49:0,47:0:0:47:1688:-151.69,-14.1484,0 1/1:159:0,157:0:0:157:5491:-493.947,-47.2617,0 0/1:137:72,63:72:2511:63:2208:-157.911,0,-185.353 1/1:179:1,177:1:36:177:6281:-561.632,-50.3433,0 1/1:54:0,54:0:0:54:1905:-171.698,-16.2556,0 1/1:64:0,64:0:0:64:2264:-203.969,-19.2659,0 0/1:91:45,46:45:1583:46:1625:-119.143,0,-115.365 0/1:55:18,37:18:629:37:1243:-95.5663,0,-40.379 1/1:215:3,212:3:108:212:7500:-664.946,-54.6463,0 1/1:61:0,61:0:0:61:2119:-190.821,-18.3628,0 chr05 8361034 . T A 44488 PASS AB=0.511893;ABP=4.30161;AC=33;AF=0.785714;AN=42;AO=2055;CIGAR=1X;DP=2573;DPB=2573;DPRA=0;EPP=4465.39;EPPR=1127.83;GTI=0;LEN=1;MEANALT=1;MQM=59.2764;MQMR=59.9884;NS=21;NUMALT=1;ODDS=0.300881;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73350;QR=18470;RO=518;RPL=2046;RPP=4387.56;RPPR=1119.16;RPR=9;RUN=1;SAF=2046;SAP=4387.56;SAR=9;SRF=517;SRP=1119.16;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102:0:0:102:3634:-326.938,-30.7051,0 1/1:103:0,103:0:0:103:3672:-330.574,-31.0061,0 0/1:152:79,73:79:2832:73:2611:-189.403,0,-209.362 0/1:91:40,51:40:1421:51:1832:-137.76,0,-100.792 0/1:267:114,153:114:4065:153:5437:-408.741,0,-285.661 0/1:117:66,51:66:2346:51:1814:-128.246,0,-176.175 1/1:217:0,217:0:0:217:7732:-695.279,-65.3235,0 0/1:124:80,44:80:2872:44:1584:-105.128,0,-221.389 1/1:227:0,227:0:0:227:8124:-731.007,-68.3338,0 1/1:36:0,36:0:0:36:1280:-115.453,-10.8371,0 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 1/1:53:0,53:0:0:53:1893:-170.4,-15.9546,0 1/1:173:0,173:0:0:173:6176:-555.316,-52.0782,0 0/1:139:70,69:70:2486:69:2443:-178.064,0,-182.15 1/1:193:2,191:2:72:191:6852:-609.652,-51.2621,0 1/1:52:0,52:0:0:52:1859:-167.561,-15.6536,0 1/1:69:0,69:0:0:69:2472:-222.646,-20.7711,0 0/1:95:45,50:45:1588:50:1763:-130.339,0,-114.61 0/1:55:17,38:17:608:38:1364:-106.419,0,-38.4954 1/1:232:3,229:3:108:229:8187:-726.718,-59.7638,0 1/1:65:0,65:0:0:65:2297:-206.838,-19.567,0 chr05 8361079 . A G 4940.63 PASS AB=0.401408;ABP=74.9441;AC=9;AF=0.214286;AN=42;AO=345;CIGAR=1X;DP=2115;DPB=2115;DPRA=0.847432;EPP=743.508;EPPR=3764.4;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.9942;MQMR=59.9994;NS=21;NUMALT=1;ODDS=3.08185;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12065;QR=62888;RO=1768;RPL=1;RPP=743.508;RPPR=3764.4;RPR=344;RUN=1;SAF=0;SAP=752.168;SAR=345;SRF=0;SRP=3842.17;SRR=1768;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:141:140,1:140:5011:1:36:0,-38.847,-447.538 0/0:91:91,0:91:3218:0:0:0,-27.3937,-289.841 0/1:96:53,43:53:1882:43:1525:-108.642,0,-140.758 0/1:137:69,68:69:2464:68:2388:-173.936,0,-180.773 0/1:193:133,60:133:4729:60:2118:-132.788,0,-367.672 0/1:53:31,22:31:1086:22:750:-51.8578,0,-82.093 0/0:156:156,0:156:5544:0:0:0,-46.9607,-499.087 0/1:110:63,47:63:2245:47:1655:-116.124,0,-169.198 0/0:198:198,0:198:7043:0:0:0,-59.6039,-633.934 0/0:28:27,1:27:968:1:36:0,-4.83056,-83.8391 0/1:12:6,5:6:216:5:171:-12.0573,0,-16.1194 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:101:100,1:100:3565:1:36:0,-26.8058,-317.459 0/1:121:73,47:73:2585:47:1644:-111.801,0,-196.455 0/0:183:183,0:183:6519:0:0:0,-55.0885,-586.795 0/0:74:74,0:74:2638:0:0:0,-22.2762,-237.666 0/0:76:76,0:76:2674:0:0:0,-22.8783,-240.901 0/1:65:36,29:36:1256:29:971:-68.1235,0,-93.7725 0/1:65:44,21:44:1567:21:735:-46.9045,0,-121.754 0/0:135:135,0:135:4814:0:0:0,-40.639,-433.416 0/0:55:55,0:55:1968:0:0:0,-16.5566,-177.395 chr05 8389885 . T C 19987.7 PASS AB=0.383681;ABP=70.7029;AC=33;AF=0.785714;AN=42;AO=973;CIGAR=1X;DP=1337;DPB=1337;DPRA=0;EPP=2115.85;EPPR=791.255;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.0771;MQMR=59.9091;NS=21;NUMALT=1;ODDS=2.17324;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34368;QR=12871;RO=363;RPL=0;RPP=2115.85;RPPR=791.255;RPR=973;RUN=1;SAF=973;SAP=2115.85;SAR=0;SRF=363;SRP=791.255;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:2,109:2:72:109:3837:-338.043,-26.5776,0 1/1:77:0,77:0:0:77:2732:-246.01,-23.1793,0 0/1:75:49,26:49:1752:26:928:-61.261,0,-135.387 0/1:65:41,24:41:1453:24:836:-55.9848,0,-111.497 0/1:137:81,56:81:2842:56:1954:-133.957,0,-214.706 0/1:79:37,41:37:1316:41:1456:-107.604,0,-95.0876 1/1:84:1,83:1:36:83:2915:-258.957,-21.692,0 0/1:67:54,13:54:1920:13:452:-20.8356,0,-152.908 1/1:92:2,90:2:72:90:3200:-281.34,-20.858,0 1/1:10:0,10:0:0:10:352:-31.9711,-3.0103,0 0/1:9:6,3:6:216:3:97:-6.1766,0,-17.0812 1/1:15:0,15:0:0:15:540:-48.7482,-4.51545,0 1/1:55:0,55:0:0:55:1952:-175.59,-16.5567,0 0/1:45:19,26:19:668:26:924:-69.4775,0,-46.8993 1/1:95:0,95:0:0:95:3327:-298.893,-28.5979,0 1/1:97:1,96:1:36:96:3395:-302.158,-25.6016,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 0/1:65:45,20:45:1596:20:708:-43.6966,0,-124.363 0/1:34:22,12:22:788:12:420:-27.899,0,-61.0098 1/1:66:2,64:2:68:64:2271:-198.174,-13.4103,0 1/1:23:1,22:1:36:22:780:-66.8602,-3.32542,0 chr05 8389923 . G A 6637.11 PASS AB=0.746392;ABP=258.756;AC=9;AF=0.214286;AN=42;AO=366;CIGAR=1X;DP=869;DPB=869;DPRA=1.75983;EPP=797.769;EPPR=1095.26;GTI=4;LEN=1;MEANALT=1;MQM=59.8689;MQMR=59.2664;NS=21;NUMALT=1;ODDS=2.5073;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13069;QR=15565;RO=503;RPL=366;RPP=797.769;RPPR=1095.26;RPR=0;RUN=1;SAF=366;SAP=797.769;SAR=0;SRF=503;SRP=1095.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:59:57,2:57:1687:2:72:0,-10.924,-145.073 0/0:49:49,0:49:1547:0:0:0,-14.7505,-139.455 0/1:68:18,50:18:598:50:1783:-140.282,0,-33.6643 0/1:51:6,45:6:203:45:1616:-130.377,0,-3.24865 0/1:112:30,82:30:911:82:2944:-231.406,0,-47.3245 0/1:58:19,39:19:583:39:1383:-107.308,0,-35.2748 0/0:38:38,0:38:1150:0:0:0,-11.4391,-103.773 0/1:62:7,55:7:229:55:1972:-159.091,0,-2.261 0/0:50:50,0:50:1475:0:0:0,-15.0515,-133.011 0/0:5:5,0:5:148:0:0:0,-1.50515,-13.6129 0/1:8:5,3:5:171:3:104:-7.29457,0,-13.3172 0/0:7:7,0:7:235:0:0:0,-2.10721,-21.4592 0/0:23:23,0:23:734:0:0:0,-6.92369,-66.1678 0/1:28:10,18:10:335:18:644:-49.8618,0,-22.0431 0/0:36:36,0:36:1068:0:0:0,-10.8371,-96.2707 0/0:46:46,0:46:1440:0:0:0,-13.8474,-129.871 0/0:26:26,0:26:847:0:0:0,-7.82678,-76.5298 0/1:65:16,49:16:468:49:1731:-136.437,0,-22.7638 0/1:33:12,21:12:384:21:752:-58.0723,0,-24.9357 0/0:29:27,2:27:865:2:68:0,-2.27216,-71.6861 0/0:16:16,0:16:487:0:0:0,-4.81648,-44.124 chr05 8389929 . GAAT CAAA,CAAT 18284.3 PASS AB=0.379252,0.608844;ABP=77.4756,63.5161;AC=31,11;AF=0.738095,0.261905;AN=42;AO=693,364;CIGAR=1X2M1X,1X3M;DP=1077;DPB=1080;DPRA=0,1.24272;EPP=1507.84,793.426;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.04762,2.35714;MQM=59.0202,59.8764;MQMR=0;NS=21;NUMALT=2;ODDS=2.38803;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=79.5,79.5;PQR=0;PRO=0;QA=20664,12631;QR=0;RO=0;RPL=693,364;RPP=1507.84,793.426;RPPR=0;RPR=0,0;RUN=1,1;SAF=693,364;SAP=1507.84,793.426;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,93,3:0:0:93,3:2816,108:-253.366,-27.9958,0,-244.552,-19.1553,-243.649 1/1:81:0,80,0:0:0:80,0:2517,0:-226.424,-24.0824,0,-226.424,-24.0824,-226.424 1/2:73:0,24,49:0:0:24,49:737,1726:-199.568,-140.494,-133.269,-59.0195,0,-44.269 1/2:67:0,22,45:0:0:22,45:659,1556:-179.016,-126.383,-119.76,-52.5522,0,-39.0059 1/2:133:0,51,78:0:0:51,78:1487,2697:-336.7,-219.195,-203.842,-117.566,0,-94.086 1/2:77:0,38,38:0:0:38,38:1115,1325:-196.669,-107.807,-96.3679,-88.8822,0,-77.4431 1/1:73:0,69,0:0:0:69,0:1964,0:-176.723,-20.7711,0,-176.723,-20.7711,-176.723 1/2:66:0,12,53:0:0:12,53:351,1867:-180.125,-152.165,-148.553,-28.066,0,-12.1114 1/2:15:0,13,2:0:0:13,2:387,72:-37.0877,-6.23466,-2.32127,-31.2046,0,-30.6025 1/1:9:0,9,0:0:0:9,0:253,0:-23.0281,-2.70927,0,-23.0281,-2.70927,-23.0281 1/2:10:0,3,7:0:0:3,7:79,243:-26.051,-20.1003,-19.1972,-6.23322,0,-4.12601 1/1:14:0,14,0:0:0:14,0:388,0:-35.1577,-4.21442,0,-35.1577,-4.21442,-35.1577 1/1:51:0,51,0:0:0:51,0:1520,0:-137.01,-15.3525,0,-137.01,-15.3525,-137.01 1/2:38:0,20,17:0:0:20,17:573,587:-93.2568,-47.7505,-41.7299,-45.5392,0,-40.4217 1/1:76:0,74,0:0:0:74,0:2134,0:-191.911,-22.2762,0,-191.911,-22.2762,-191.911 1/2:6:0,5,1:0:0:5,1:136,36:-13.9577,-3.29724,-1.79209,-11.0056,0,-10.7046 1/1:5:0,5,0:0:0:5,0:133,0:-12.2349,-1.50515,0,-12.2349,-1.50515,-12.2349 1/2:68:0,22,46:0:0:22,46:683,1575:-182.568,-128.116,-121.494,-54.7714,0,-40.924 1/2:35:0,13,22:0:0:13,22:446,731:-95.6896,-59.4736,-55.5602,-36.5549,0,-29.9323 1/1:55:0,53,2:0:0:53,2:1579,72:-141.991,-15.9546,0,-136.114,-10.1334,-135.512 1/1:23:0,22,1:0:0:22,1:707,36:-63.5526,-6.62266,0,-60.6135,-3.32542,-60.3125 chr05 8460790 . T C 21816.2 PASS AB=0.537671;ABP=10.2089;AC=33;AF=0.785714;AN=42;AO=1031;CIGAR=1X;DP=1306;DPB=1306;DPRA=0;EPP=2233.12;EPPR=597.994;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9874;MQMR=60;NS=21;NUMALT=1;ODDS=0.22268;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36729;QR=9814;RO=274;RPL=1;RPP=2233.12;RPPR=597.994;RPR=1030;RUN=1;SAF=1031;SAP=2241.8;SAR=0;SRF=274;SRP=597.994;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:38:1,37:1:36:37:1320:-115.504,-7.84087,0 1/1:45:0,45:0:0:45:1608:-145.01,-13.5464,0 0/1:61:30,30:30:1076:30:1067:-77.9197,0,-78.7313 0/1:64:31,33:31:1116:33:1176:-86.8818,0,-81.4858 0/1:192:90,102:90:3219:102:3643:-270.277,0,-232.134 0/1:83:36,47:36:1292:47:1684:-126.862,0,-91.5983 1/1:146:0,146:0:0:146:5192:-467.421,-43.9504,0 0/1:40:21,19:21:747:19:671:-48.6746,0,-55.5131 1/1:137:0,137:0:0:137:4890:-440.253,-41.2411,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:6:1,5:1:36:5:171:-13.9193,0,-1.79209 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:87:0,87:0:0:87:3107:-279.857,-26.1896,0 0/1:64:32,32:32:1140:32:1139:-83.5525,0,-83.6433 1/1:36:0,36:0:0:36:1287:-116.133,-10.8371,0 1/1:51:1,50:1:36:50:1771:-156.074,-11.7543,0 1/1:64:0,64:0:0:64:2277:-205.192,-19.2659,0 0/1:43:20,23:20:720:23:811:-60.3657,0,-52.1845 0/1:31:8,23:8:288:23:824:-65.1514,0,-16.9355 1/1:65:3,62:3:108:62:2203:-188.448,-9.49178,0 1/1:34:0,34:0:0:34:1208:-109.026,-10.235,0 chr05 8881423 . GAAGG AAAGG,AAAGA 59311.4 PASS AB=0.577578,0.415415;ABP=55.2321,65.0918;AC=34,8;AF=0.809524,0.190476;AN=42;AO=2321,419;CIGAR=1X4M,1X3M1X;DP=2758;DPB=2758;DPRA=0,1.23022;EPP=5034.32,912.857;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.19048,2.81818;MQM=53.4162,40.2005;MQMR=60;NS=21;NUMALT=2;ODDS=27.9075;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=83063,14787;QR=36;RO=1;RPL=1,0;RPP=5034.32,912.857;RPPR=5.18177;RPR=2320,419;RUN=1,1;SAF=0,0;SAP=5043,912.857;SAR=2321,419;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:216:1,214,0:1:36:214,0:7671,0:-685.16,-61.4079,0,-685.461,-64.4204,-688.398 1/1:156:0,156,0:0:0:156,0:5563,0:-500.207,-46.9607,0,-500.207,-46.9607,-500.207 1/2:103:0,55,48:0:0:55,48:1967,1700:-294.994,-134.926,-118.37,-160.418,0,-145.968 1/2:214:0,115,97:0:0:115,97:4130,3432:-605.882,-270.513,-235.894,-335.414,0,-306.215 1/2:197:0,127,70:0:0:127,70:4533,2463:-562.341,-194.098,-155.867,-368.589,0,-347.517 1/2:186:0,101,82:0:0:101,82:3636,2897:-506.454,-210.484,-180.08,-296.022,0,-271.338 1/1:175:0,175,0:0:0:175,0:6271,0:-563.482,-52.6803,0,-563.482,-52.6803,-563.482 1/2:109:0,53,56:0:0:53,56:1891,1961:-308.445,-154.329,-138.374,-154.465,0,-137.607 1/1:260:0,259,0:0:0:259,0:9249,0:-828.727,-77.9668,0,-828.727,-77.9668,-828.727 1/1:13:0,13,0:0:0:13,0:464,0:-42.0847,-3.91339,0,-42.0847,-3.91339,-42.0847 1/1:7:0,7,0:0:0:7,0:252,0:-23.0052,-2.10721,0,-23.0052,-2.10721,-23.0052 1/1:40:0,39,0:0:0:39,0:1400,0:-125.83,-11.7402,0,-125.83,-11.7402,-125.83 1/1:219:0,217,1:0:0:217,1:7778,31:-697.605,-65.3235,0,-695.146,-62.8822,-694.845 1/2:103:0,75,26:0:0:75,26:2692,924:-292.235,-73.1707,-50.5935,-219.07,0,-211.244 1/1:182:0,177,1:0:0:177,1:6360,36:-570.846,-53.2823,0,-567.995,-50.4115,-567.694 1/1:131:0,130,0:0:0:130,0:4642,0:-415.829,-39.1339,0,-415.829,-39.1339,-415.829 1/1:186:0,184,2:0:0:184,2:6543,72:-586.294,-55.3895,0,-580.591,-49.3365,-579.989 1/2:34:0,15,19:0:0:15,19:536,668:-96.2029,-52.5696,-48.0541,-43.9821,0,-38.2625 1/2:53:0,36,17:0:0:36,17:1273,603:-151.564,-48.1197,-37.2827,-103.792,0,-98.675 1/1:132:0,131,0:0:0:131,0:4704,0:-422.87,-39.4349,0,-422.87,-39.4349,-422.87 1/1:42:0,42,0:0:0:42,0:1508,0:-135.81,-12.6433,0,-135.81,-12.6433,-135.81 chr05 8911883 . C T 8107.88 PASS AB=0.49497;ABP=3.22876;AC=9;AF=0.214286;AN=42;AO=497;CIGAR=1X;DP=2484;DPB=2484;DPRA=1.15881;EPP=1073.56;EPPR=4317.73;GTI=0;LEN=1;MEANALT=1;MQM=59.994;MQMR=59.9804;NS=21;NUMALT=1;ODDS=20.2222;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17601;QR=70976;RO=1987;RPL=1;RPP=1073.56;RPPR=4317.73;RPR=496;RUN=1;SAF=0;SAP=1082.23;SAR=497;SRF=0;SRP=4317.73;SRR=1987;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:225:223,2:223:7997:2:72:0,-60.895,-712.911 0/0:146:146,0:146:5212:0:0:0,-43.9504,-469.218 0/1:113:43,70:43:1544:70:2475:-188.981,0,-105.237 0/1:85:43,42:43:1525:42:1463:-106.371,0,-111.954 0/1:298:163,135:163:5848:135:4821:-344.338,0,-436.353 0/1:157:67,90:67:2408:90:3197:-240.69,0,-169.714 0/0:223:223,0:223:7955:0:0:0,-67.1297,-715.971 0/1:74:39,35:39:1396:35:1252:-90.7089,0,-103.663 0/0:221:221,0:221:7892:0:0:0,-66.5276,-710.306 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:10:4,6:4:144:6:210:-16.2314,0,-10.3033 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/0:120:120,0:120:4289:0:0:0,-36.1236,-386.186 0/1:112:72,40:72:2543:40:1432:-95.4622,0,-195.401 0/0:192:190,2:190:6741:2:72:0,-50.961,-599.926 0/0:100:100,0:100:3573:0:0:0,-30.103,-321.748 0/0:96:96,0:96:3432:0:0:0,-28.8989,-309.094 0/1:66:27,39:27:968:39:1354:-102.286,0,-67.5694 0/1:79:44,35:44:1572:35:1232:-87.4027,0,-117.99 0/0:97:96,1:96:3440:1:21:0,-27.1,-307.713 0/0:37:37,0:37:1309:0:0:0,-11.1381,-118.11 chr05 8916292 . T C 50050.9 PASS AB=0.494633;ABP=3.28999;AC=33;AF=0.785714;AN=42;AO=2338;CIGAR=1X;DP=2913;DPB=2913;DPRA=0;EPP=5079.91;EPPR=1236.42;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9846;MQMR=60;NS=21;NUMALT=1;ODDS=5.8122;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83303;QR=20482;RO=572;RPL=2338;RPP=5079.91;RPPR=1245.09;RPR=0;RUN=1;SAF=2338;SAP=5079.91;SAR=0;SRF=571;SRP=1236.42;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:152:3,149:3:108:149:5291:-466.251,-35.6814,0 1/1:118:0,118:0:0:118:4212:-379.261,-35.5215,0 0/1:140:72,68:72:2576:68:2426:-176.45,0,-189.945 0/1:146:66,80:66:2372:80:2828:-210.809,0,-169.787 0/1:243:144,98:144:5155:98:3488:-240.921,0,-390.881 0/1:134:71,63:71:2548:63:2245:-161.974,0,-189.232 1/1:231:0,231:0:0:231:8208:-738.734,-69.5379,0 0/1:132:58,73:58:2072:73:2612:-195.533,0,-146.956 1/1:263:0,263:0:0:263:9375:-843.716,-79.1709,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 1/1:140:0,140:0:0:140:4973:-447.72,-42.1442,0 0/1:122:60,61:60:2136:61:2159:-157.938,0,-155.871 1/1:357:0,357:0:0:357:12743:-1146.66,-107.468,0 1/1:119:0,119:0:0:119:4264:-383.938,-35.8226,0 1/1:184:1,183:1:36:183:6519:-583.17,-51.7912,0 0/1:107:63,44:63:2259:44:1559:-108.391,0,-171.362 0/1:87:25,62:25:896:62:2210:-172.974,0,-54.7707 1/1:146:6,140:6:216:140:5000:-430.356,-24.1599,0 1/1:48:0,48:0:0:48:1715:-154.635,-14.4494,0 chr05 9123983 . T A 1698.24 PASS AB=0.172277;ABP=945.223;AC=16;AF=0.380952;AN=42;AO=175;CIGAR=1X;DP=1175;DPB=1175;DPRA=2.23319;EPP=383.018;EPPR=2174.48;GTI=7;LEN=1;MEANALT=1;MQM=59.4743;MQMR=59.98;NS=21;NUMALT=1;ODDS=1.61305;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6280;QR=35817;RO=1000;RPL=83;RPP=4.01538;RPPR=190.704;RPR=92;RUN=1;SAF=92;SAP=4.01538;SAR=83;SRF=353;SRP=190.704;SRR=647;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:40,14:40:1428:14:500:-29.0758,0,-112.562 0/1:24:20,4:20:716:4:144:-6.0889,0,-57.543 0/1:53:48,5:48:1728:5:180:-0.597475,0,-139.851 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:36:28,8:28:1008:8:284:-15.0663,0,-80.1993 0/1:62:43,19:43:1536:19:680:-42.8653,0,-119.869 0/1:44:36,8:36:1296:8:288:-13.0221,0,-103.699 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/1:22:20,2:20:716:2:72:-0.214063,0,-58.1427 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:8:7,1:7:252:1:36:-1.19004,0,-20.6207 0/1:63:57,6:57:2044:6:216:-0.825623,0,-165.267 0/1:60:53,7:53:1888:7:252:-4.96716,0,-152.137 0/1:87:78,9:78:2792:9:324:-2.99543,0,-225.331 0/1:48:38,10:38:1356:10:360:-18.2949,0,-107.891 0/1:65:52,13:52:1864:13:464:-22.4415,0,-148.472 0/1:153:113,40:113:4048:40:1436:-83.4801,0,-318.45 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.398 0/0:53:52,1:52:1852:1:36:0,-12.4519,-163.453 0/1:30:23,7:23:820:7:252:-13.8906,0,-65.0916 0/1:201:180,21:180:6449:21:756:-7.8602,0,-519.981 chr05 9494475 . GCT ACC,GCC 59416 PASS AB=0.481172,0.513808;ABP=6.68999,4.98916;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2249,628;CIGAR=1X1M1X,2M1X;DP=2893;DPB=2893.67;DPRA=20.6143,1.35687;EPP=4886.65,1366.69;EPPR=0;GTI=1;LEN=3,1;MEANALT=2.35,2.64286;MQM=59.8902,59.9713;MQMR=0;NS=21;NUMALT=2;ODDS=5.20079;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=76852,22414;QR=0;RO=0;RPL=0,0;RPP=4886.65,1366.69;RPPR=0;RPR=2249,628;RUN=1,1;SAF=2249,628;SAP=4886.65,1366.69;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:169:0,168,0:0:0:168,0:5701,0:-512.962,-50.573,0,-512.962,-50.573,-512.962 1/1:106:0,106,0:0:0:106,0:3672,0:-330.688,-31.9092,0,-330.688,-31.9092,-330.688 1/2:120:0,66,54:0:0:66,54:2275,1932:-342.694,-157.901,-138.033,-185.145,0,-168.889 1/2:138:0,70,67:0:0:70,67:2390,2388:-388.583,-194.649,-173.577,-193.923,0,-173.754 1/2:256:0,115,139:0:0:115,139:3931,4941:-721.723,-402.707,-368.088,-319.079,0,-277.236 1/2:175:0,78,97:0:0:78,97:2633,3461:-495.665,-282.503,-259.022,-213.508,0,-184.308 1/1:220:0,219,0:0:0:219,0:7532,0:-677.644,-65.9256,0,-677.644,-65.9256,-677.644 1/2:182:0,84,98:0:0:84,98:2849,3504:-517.083,-286.07,-260.783,-231.361,0,-201.86 1/1:269:0,265,3:0:0:265,3:9035,108:-812.757,-79.773,0,-803.944,-70.9607,-803.041 1/1:25:0,25,0:0:0:25,0:849,0:-76.7204,-7.52575,0,-76.7204,-7.52575,-76.7204 2/2:7:0,0,7:0:0:0,7:0,252:-23.029,-23.029,-23.029,-2.10721,-2.10721,0 1/1:33:0,33,0:0:0:33,0:1121,0:-101.191,-9.93399,0,-101.191,-9.93399,-101.191 1/1:105:0,105,0:0:0:105,0:3593,0:-323.037,-31.6082,0,-323.037,-31.6082,-323.037 1/2:169:0,81,87:0:0:81,87:2773,3100:-477.841,-252.756,-228.373,-225.153,0,-198.963 1/1:347:0,345,1:0:0:345,1:11894,36:-1070.07,-103.855,0,-1067.14,-100.853,-1066.83 1/1:124:0,122,1:0:0:122,1:4158,36:-374.035,-36.7257,0,-371.097,-33.7882,-370.796 1/1:121:0,117,0:0:0:117,0:3952,0:-355.599,-35.2205,0,-355.599,-35.2205,-355.599 1/2:91:0,43,46:0:0:43,46:1417,1652:-249.257,-134.732,-121.788,-114.482,0,-100.634 1/2:64:0,38,26:0:0:38,26:1293,932:-181.249,-76.3721,-64.9329,-105.228,0,-97.4012 1/1:115:0,114,1:0:0:114,1:3922,36:-352.822,-34.3174,0,-349.884,-31.0202,-349.583 1/1:57:0,55,1:0:0:55,1:1862,36:-167.53,-16.5567,0,-164.592,-13.5835,-164.291 chr05 9531367 . G A 32835.3 PASS AB=0.65614;ABP=123.714;AC=33;AF=0.785714;AN=42;AO=1207;CIGAR=1X;DP=1407;DPB=1407;DPRA=0;EPP=77.148;EPPR=5.13834;GTI=0;LEN=1;MEANALT=1;MQM=59.9901;MQMR=60;NS=21;NUMALT=1;ODDS=0.770615;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42952;QR=7021;RO=200;RPL=2;RPP=2606.63;RPPR=437.305;RPR=1205;RUN=1;SAF=707;SAP=80.0985;SAR=500;SRF=93;SRP=5.13834;SRR=107;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:1,62:1:36:62:2200:-194.665,-15.3666,0 1/1:65:0,65:0:0:65:2299:-207.17,-19.567,0 0/1:32:10,22:10:356:22:766:-59.6238,0,-22.7483 0/1:63:21,42:21:717:42:1479:-114.439,0,-45.8807 0/1:89:31,58:31:1087:58:2060:-158.877,0,-71.3467 0/1:85:30,55:30:1059:55:1954:-150.547,0,-70.0329 1/1:128:0,128:0:0:128:4566:-411.106,-38.5318,0 0/1:29:16,13:16:576:13:468:-33.7298,0,-43.4451 1/1:109:0,109:0:0:109:3895:-350.744,-32.8123,0 1/1:14:0,14:0:0:14:495:-44.883,-4.21442,0 0/1:6:3,3:3:100:3:104:-7.89663,0,-7.52426 1/1:19:0,19:0:0:19:656:-59.3576,-5.71957,0 1/1:67:1,66:1:36:66:2343:-207.531,-16.5707,0 0/1:61:22,39:22:780:39:1396:-107.576,0,-52.1602 1/1:111:0,111:0:0:111:3956:-356.231,-33.4143,0 1/1:58:0,58:0:0:58:2084:-187.83,-17.4597,0 1/1:53:0,53:0:0:53:1893:-170.646,-15.9546,0 0/1:106:36,70:36:1246:70:2498:-193.164,0,-80.5286 0/1:99:27,72:27:956:72:2560:-200.846,0,-56.5538 1/1:64:2,62:2:72:62:2200:-191.427,-12.4292,0 1/1:86:0,86:0:0:86:3080:-277.428,-25.8886,0 chr05 9531378 . C T 4070.92 PASS AB=0.353638;ABP=112.976;AC=9;AF=0.214286;AN=42;AO=214;CIGAR=1X;DP=1435;DPB=1435;DPRA=1.0894;EPP=467.705;EPPR=2608.96;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9934;NS=21;NUMALT=1;ODDS=3.56507;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7673;QR=43661;RO=1220;RPL=96;RPP=7.92148;RPPR=68.6244;RPR=118;RUN=1;SAF=96;SAP=7.92148;SAR=118;SRF=711;SRP=75.6372;SRR=509;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:62,1:62:2211:1:36:0,-15.3666,-195.656 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/1:30:21,9:21:756:9:324:-20.475,0,-59.3363 0/1:62:40,22:40:1440:22:792:-52.9418,0,-111.234 0/1:92:61,31:61:2188:31:1107:-72.2454,0,-169.491 0/1:90:57,33:57:2037:33:1180:-79.4153,0,-156.508 0/0:130:129,1:129:4620:1:36:0,-35.5356,-412.357 0/1:29:13,16:13:468:16:572:-43.0836,0,-33.7298 0/0:111:111,0:111:3975:0:0:0,-33.4143,-357.94 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/0:18:18,0:18:640:0:0:0,-5.41854,-57.9293 0/0:68:67,1:67:2404:1:36:0,-16.8718,-213.018 0/1:65:41,23:41:1464:23:828:-55.2184,0,-112.43 0/0:111:111,0:111:3968:0:0:0,-33.4143,-357.312 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.068 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.998 0/1:113:73,40:73:2603:40:1430:-94.9809,0,-200.502 0/1:104:72,32:72:2563:32:1152:-72.683,0,-199.613 0/0:65:63,2:63:2255:2:72:0,-12.7302,-196.376 0/0:88:88,0:88:3133:0:0:0,-26.4906,-282.195 chr05 9885091 . GTGTTGTTC GTGTTC 9607.29 PASS AB=0.556207;ABP=31.0824;AC=10;AF=0.238095;AN=42;AO=585;CIGAR=1M3D5M;DP=1950;DPB=1754.67;DPRA=1.627;EPP=1273.32;EPPR=2934.5;GTI=1;LEN=3;MEANALT=1.45455;MQM=59.9829;MQMR=60;NS=21;NUMALT=1;ODDS=0.629518;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20370;QR=47346;RO=1350;RPL=585;RPP=1273.32;RPPR=2934.5;RPR=0;RUN=1;SAF=585;SAP=1273.32;SAR=0;SRF=1350;SRP=2934.5;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:55,0:55:1930:0:0:0,-16.5566,-173.977 0/0:63:63,0:63:2219:0:0:0,-18.9649,-199.976 0/1:116:54,61:54:1899:61:2137:-157.619,0,-136.208 0/1:124:57,67:57:2001:67:2367:-175.961,0,-143.037 0/1:224:76,145:76:2670:145:5067:-389.294,0,-173.661 0/1:115:44,71:44:1549:71:2439:-185.144,0,-105.084 0/0:116:114,0:114:3996:0:0:0,-34.3174,-359.479 0/1:95:43,51:43:1513:51:1798:-133.444,0,-107.806 0/0:96:95,0:95:3348:0:0:0,-28.5978,-301.18 0/0:13:13,0:13:449:0:0:0,-3.91339,-40.7388 1/1:11:0,11:0:0:11:388:-35.2574,-3.31133,0 0/0:19:19,0:19:678:0:0:0,-5.71957,-61.3489 0/0:123:119,0:119:4182:0:0:0,-35.8226,-376.248 0/1:96:47,49:47:1654:49:1708:-125.104,0,-120.248 0/0:133:131,1:131:4582:1:36:0,-36.4975,-408.956 0/0:79:79,0:79:2763:0:0:0,-23.7814,-248.914 0/0:92:91,0:91:3177:0:0:0,-27.3937,-285.927 0/1:180:85,94:85:2965:94:3212:-235.059,0,-212.843 0/1:73:42,31:42:1454:31:1074:-74.9913,0,-109.178 0/0:84:80,4:80:2827:4:144:0,-11.9729,-241.359 0/0:43:43,0:43:1490:0:0:0,-12.9443,-134.394 chr05 10378498 . AC CT,AT 28443 PASS AB=0.48199,0.516295;ABP=4.65287,4.3549;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1013,303;CIGAR=2X,1M1X;DP=1319;DPB=1319.5;DPRA=0,1.1577;EPP=2116.71,626.682;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.57143,2.11111;MQM=59.9595,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.207688;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=35406,10838;QR=0;RO=0;RPL=10,4;RPP=2116.71,626.682;RPPR=0;RPR=1003,299;RUN=1,1;SAF=1013,303;SAP=2202.71,660.966;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,73,0:0:0:73,0:2567,0:-230.994,-21.9752,0,-230.994,-21.9752,-230.994 1/1:25:0,24,0:0:0:24,0:851,0:-76.4971,-7.22472,0,-76.4971,-7.22472,-76.4971 1/2:65:0,27,38:0:0:27,38:934,1364:-187.513,-111.622,-103.494,-76.2431,0,-64.8039 1/2:42:0,16,26:0:0:16,26:559,921:-120.849,-75.3793,-70.5628,-45.8205,0,-37.9937 1/2:168:0,62,105:0:0:62,105:2169,3756:-482.836,-306.38,-287.716,-176.557,0,-144.949 1/2:85:0,41,44:0:0:41,44:1395,1584:-242.752,-129.606,-117.264,-113.496,0,-100.25 1/1:120:0,120,0:0:0:120,0:4215,0:-379.532,-36.1236,0,-379.532,-36.1236,-379.532 1/2:66:0,37,29:0:0:37,29:1319,1040:-192.701,-85.1845,-74.0464,-107.874,0,-99.1439 1/1:120:0,120,0:0:0:120,0:4252,0:-382.861,-36.1236,0,-382.861,-36.1236,-382.861 1/1:4:0,4,0:0:0:4,0:133,0:-12.2976,-1.20412,0,-12.2976,-1.20412,-12.2976 1/1:4:0,4,0:0:0:4,0:139,0:-12.8522,-1.20412,0,-12.8522,-1.20412,-12.8522 1/1:12:0,12,0:0:0:12,0:416,0:-37.7704,-3.61236,0,-37.7704,-3.61236,-37.7704 1/1:112:0,112,0:0:0:112,0:3852,0:-346.877,-33.7154,0,-346.877,-33.7154,-346.877 1/2:44:0,21,23:0:0:21,23:736,820:-127.085,-67.1988,-60.8772,-60.2397,0,-53.316 1/1:111:0,111,0:0:0:111,0:3894,0:-350.658,-33.4143,0,-350.658,-33.4143,-350.658 1/1:19:0,19,0:0:0:19,0:652,0:-58.9978,-5.71957,0,-58.9978,-5.71957,-58.9978 1/1:30:0,28,2:0:0:28,2:940,72:-84.5437,-8.42884,0,-78.6673,-2.19418,-78.0652 1/2:63:0,44,19:0:0:44,19:1524,684:-180.019,-56.1708,-42.9254,-124.204,0,-118.484 1/2:50:0,33,17:0:0:33,17:1170,597:-144.259,-48.9386,-39.0046,-95.6722,0,-90.5547 1/1:75:0,75,0:0:0:75,0:2646,0:-238.375,-22.5773,0,-238.375,-22.5773,-238.375 1/1:30:0,30,0:0:0:30,0:1043,0:-94.1777,-9.0309,0,-94.1777,-9.0309,-94.1777 chr05 10442418 . G A 7492.21 PASS AB=0.474648;ABP=6.974;AC=9;AF=0.214286;AN=42;AO=339;CIGAR=1X;DP=1661;DPB=1661;DPRA=0.772424;EPP=739.139;EPPR=2860.67;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9322;MQMR=59.9629;NS=21;NUMALT=1;ODDS=16.8119;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12104;QR=47007;RO=1320;RPL=150;RPP=12.7531;RPPR=49.4403;RPR=189;RUN=1;SAF=150;SAP=12.7531;SAR=189;SRF=577;SRP=48.3414;SRR=743;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:88:88,0:88:3131:0:0:0,-26.4906,-282.017 0/0:98:97,0:97:3453:0:0:0,-29.1999,-309.686 0/1:43:30,13:30:1072:13:468:-29.5154,0,-83.8482 0/1:84:38,46:38:1368:46:1656:-124.042,0,-98.1343 0/1:105:43,61:43:1536:61:2172:-164.225,0,-107.013 0/1:89:42,47:42:1494:47:1681:-124.785,0,-107.961 0/0:127:127,0:127:4519:0:0:0,-38.2308,-406.877 0/1:99:53,46:53:1904:46:1618:-116.033,0,-141.791 0/0:110:110,0:110:3922:0:0:0,-33.1133,-353.173 0/0:24:23,1:23:809:1:36:0,-3.62644,-69.53 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/0:29:28,1:28:1004:1:36:0,-5.13159,-87.0776 0/0:96:96,0:96:3427:0:0:0,-28.8989,-308.644 0/1:72:37,35:37:1309:35:1246:-90.7707,0,-96.4354 0/0:120:120,0:120:4263:0:0:0,-36.1236,-383.849 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 0/0:46:46,0:46:1643:0:0:0,-13.8474,-148.158 0/1:93:52,41:52:1834:41:1476:-105.14,0,-137.343 0/1:118:74,44:74:2608:44:1571:-106.159,0,-199.443 0/0:61:61,0:61:2172:0:0:0,-18.3628,-195.747 0/0:92:92,0:92:3275:0:0:0,-27.6948,-294.971 chr05 10634497 . A G 26195.9 PASS AB=0.394837;ABP=103.488;AC=33;AF=0.785714;AN=42;AO=1287;CIGAR=1X;DP=1923;DPB=1923;DPRA=0;EPP=2789.02;EPPR=1379.72;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.9355;MQMR=46.6751;NS=21;NUMALT=1;ODDS=0.71379;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45996;QR=22395;RO=634;RPL=1;RPP=2789.02;RPPR=19.793;RPR=1286;RUN=1;SAF=0;SAP=2797.7;SAR=1287;SRF=282;SRP=19.793;SRR=352;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:1,93:1:36:93:3311:-294.611,-24.6985,0 1/1:102:0,102:0:0:102:3645:-328.248,-30.7051,0 0/1:102:59,43:59:2086:43:1536:-107.828,0,-144.24 0/1:105:80,24:80:2827:24:860:-46.055,0,-189.932 0/1:208:137,71:137:4854:71:2544:-166.596,0,-330.924 0/1:69:42,27:42:1491:27:972:-67.0268,0,-93.5438 1/1:100:0,100:0:0:100:3579:-322.316,-30.103,0 0/1:175:97,78:97:3431:78:2792:-198.84,0,-234.419 1/1:57:0,57:0:0:57:2038:-183.692,-17.1587,0 1/1:34:0,34:0:0:34:1216:-109.747,-10.235,0 0/1:24:5,18:5:180:18:648:-51.5094,0,-9.39341 1/1:47:0,47:0:0:47:1678:-151.296,-14.1484,0 1/1:71:0,71:0:0:71:2552:-229.93,-21.3731,0 0/1:112:73,39:73:2589:39:1400:-92.5838,0,-176.447 1/1:159:0,159:0:0:159:5666:-510.06,-47.8638,0 1/1:51:1,50:1:36:50:1783:-157.154,-11.7543,0 1/1:64:0,64:0:0:64:2270:-204.562,-19.2659,0 0/1:195:102,93:102:3554:93:3330:-240.829,0,-248.662 0/1:56:36,20:36:1275:20:716:-47.91,0,-87.4052 1/1:54:1,53:1:36:53:1900:-168.542,-13.5194,0 1/1:44:0,44:0:0:44:1560:-140.689,-13.2453,0 chr05 10660171 . 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C T 19511 PASS AB=0.486692;ABP=3.81944;AC=33;AF=0.785714;AN=42;AO=1079;CIGAR=1X;DP=1357;DPB=1357;DPRA=0;EPP=2346.03;EPPR=595.822;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.7961;MQMR=58.8681;NS=21;NUMALT=1;ODDS=16.2596;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34486;QR=9766;RO=273;RPL=0;RPP=2346.03;RPPR=595.822;RPR=1079;RUN=1;SAF=0;SAP=2346.03;SAR=1079;SRF=0;SRP=595.822;SRR=273;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,119:0:0:119:3878:-349.212,-35.8226,0 1/1:71:0,71:0:0:71:2276:-205.026,-21.3731,0 0/1:68:35,33:35:1260:33:1095:-78.3778,0,-93.1802 0/1:64:37,27:37:1328:27:903:-62.2996,0,-100.512 0/1:141:64,77:64:2304:77:2535:-185.948,0,-165.12 0/1:72:37,35:37:1328:35:1069:-74.8103,0,-96.5432 1/1:83:0,81:0:0:81:2666:-239.948,-24.3834,0 0/1:44:27,17:27:964:17:570:-38.3693,0,-73.8315 1/1:95:0,94:0:0:94:3077:-276.92,-28.2968,0 1/1:16:0,15:0:0:15:497:-44.8284,-4.51545,0 0/1:9:7,2:7:252:2:72:-4.11886,0,-20.3197 1/1:21:0,20:0:0:20:666:-60.0445,-6.0206,0 1/1:74:0,74:0:0:74:2308:-207.958,-22.2762,0 0/1:65:35,30:35:1227:30:983:-69.1975,0,-91.1474 1/1:108:0,108:0:0:108:3340:-300.802,-32.5112,0 1/1:62:0,62:0:0:62:1836:-165.482,-18.6639,0 1/1:91:2,89:2:72:89:2789:-244.394,-20.557,0 0/1:46:19,27:19:675:27:873:-65.021,0,-47.0911 0/1:17:9,8:9:320:8:220:-14.9529,0,-24.0207 1/1:64:1,63:1:36:63:2075:-183.406,-15.6676,0 1/1:27:0,27:0:0:27:758:-68.4754,-8.12781,0 chr05 10695890 . 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T A 8422.1 PASS AB=0.516949;ABP=3.89361;AC=28;AF=0.666667;AN=42;AO=449;CIGAR=1X;DP=690;DPB=690;DPRA=0.442857;EPP=978.001;EPPR=526.335;GTI=0;LEN=1;MEANALT=1;MQM=39.069;MQMR=43.2614;NS=21;NUMALT=1;ODDS=0.567841;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16086;QR=8622;RO=241;RPL=449;RPP=978.001;RPPR=526.335;RPR=0;RUN=1;SAF=0;SAP=978.001;SAR=449;SRF=0;SRP=526.335;SRR=241;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:17:7,10:7:248:10:360:-26.1962,0,-17.1821 0/1:12:6,6:6:216:6:212:-14.1688,0,-15.8477 1/1:41:0,41:0:0:41:1457:-125.669,-12.3422,0 0/1:24:10,14:10:360:14:504:-35.916,0,-24.954 0/1:13:8,5:8:288:5:180:-11.8352,0,-20.1298 1/1:9:0,9:0:0:9:324:-27.6982,-2.70927,0 0/1:15:7,8:7:252:8:284:-20.2528,0,-17.7971 0/0:70:70,0:70:2512:0:0:0,-21.0721,-217.16 0/1:83:40,43:40:1436:43:1540:-105.527,0,-101.015 0/1:4:3,1:3:108:1:36:-2.21948,0,-8.69702 1/1:6:0,6:0:0:6:216:-18.8298,-1.80618,0 1/1:33:0,33:0:0:33:1184:-101.75,-9.93399,0 1/1:57:0,57:0:0:57:2044:-174.847,-17.1587,0 0/1:39:15,24:15:540:24:864:-62.552,0,-36.3736 0/1:36:23,13:23:809:13:464:-29.4453,0,-61.0904 0/1:8:4,4:4:129:4:144:-10.0875,0,-9.30255 1/1:15:0,15:0:0:15:536:-45.4005,-4.51545,0 0/1:55:34,21:34:1220:21:756:-48.4918,0,-91.4747 0/1:48:14,34:14:504:34:1224:-89.4505,0,-30.4369 1/1:77:0,77:0:0:77:2753:-235.076,-23.1793,0 1/1:28:0,28:0:0:28:1004:-86.4377,-8.42884,0 chr05 12289745 . 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C T 6871.43 PASS AB=0.494636;ABP=3.21994;AC=9;AF=0.214286;AN=42;AO=418;CIGAR=1X;DP=1775;DPB=1775;DPRA=1.40935;EPP=910.686;EPPR=2947.53;GTI=0;LEN=1;MEANALT=1.09091;MQM=60;MQMR=59.9985;NS=21;NUMALT=1;ODDS=11.6927;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14877;QR=48431;RO=1356;RPL=0;RPP=910.686;RPPR=2947.53;RPR=418;RUN=1;SAF=418;SAP=910.686;SAR=0;SRF=1356;SRP=2947.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:81:81,0:81:2892:0:0:0,-24.3834,-260.517 0/0:81:81,0:81:2896:0:0:0,-24.3834,-260.876 0/1:118:48,70:48:1708:70:2467:-186.758,0,-118.484 0/1:103:58,45:58:2068:45:1616:-114.724,0,-155.385 0/1:203:107,96:107:3813:96:3425:-247.354,0,-282.258 0/1:52:33,19:33:1184:19:669:-44.8804,0,-91.2148 0/0:130:128,2:128:4588:2:72:0,-32.2972,-406.247 0/1:48:28,20:28:985:20:716:-50.3183,0,-74.5121 0/0:124:124,0:124:4436:0:0:0,-37.3277,-399.411 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/0:91:91,0:91:3248:0:0:0,-27.3937,-292.542 0/1:138:64,73:64:2288:73:2568:-189.915,0,-164.728 0/0:110:109,1:109:3893:1:36:0,-29.515,-346.965 0/0:62:62,0:62:2232:0:0:0,-18.6639,-201.144 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.587 0/1:100:46,54:46:1652:54:1940:-144.773,0,-118.865 0/1:71:37,34:37:1332:34:1224:-89.0939,0,-98.8093 0/0:92:92,0:92:3224:0:0:0,-27.6948,-290.38 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 chr05 12692927 . C T 10799.4 PASS AB=0.557447;ABP=9.74648;AC=33;AF=0.785714;AN=42;AO=404;CIGAR=1X;DP=509;DPB=509;DPRA=0;EPP=5.16027;EPPR=25.5316;GTI=1;LEN=1;MEANALT=1;MQM=59.4926;MQMR=59.9524;NS=21;NUMALT=1;ODDS=1.01956;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14310;QR=3694;RO=105;RPL=0;RPP=880.285;RPPR=231.015;RPR=404;RUN=1;SAF=212;SAP=5.16027;SAR=192;SRF=69;SRP=25.5316;SRR=36;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:1,21:1:36:21:744:-63.6791,-3.02439,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:11:2,9:2:72:9:316:-25.4675,0,-3.52539 0/1:8:1,7:1:36:7:244:-19.8889,0,-1.19003 0/1:23:9,14:9:315:14:496:-38.0506,0,-21.7635 0/1:27:16,11:16:567:11:396:-27.854,0,-43.2329 1/1:35:0,35:0:0:35:1235:-111.365,-10.5361,0 0/1:22:15,7:15:519:7:248:-16.0415,0,-40.4141 1/1:28:0,28:0:0:28:999:-90.2245,-8.42884,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:4:3,1:3:108:1:23:-0.977072,0,-8.87105 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:27:0,27:0:0:27:946:-85.3523,-8.12781,0 0/1:27:13,14:13:468:14:504:-37.5632,0,-34.3318 1/1:27:0,27:0:0:27:956:-86.353,-8.12781,0 1/1:9:0,9:0:0:9:324:-29.5016,-2.70927,0 1/1:14:0,14:0:0:14:504:-45.6972,-4.21442,0 0/1:64:31,33:31:1078:33:1180:-87.2406,0,-78.0609 0/1:49:14,35:14:495:35:1227:-95.9508,0,-30.1292 1/1:15:0,15:0:0:15:528:-47.8492,-4.51545,0 1/1:66:0,66:0:0:66:2328:-209.769,-19.868,0 chr05 12701695 . AAAT AAAC,TAAC 41218.4 PASS AB=0.509211,0.486842;ABP=3.57031,4.15318;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1518,375;CIGAR=3M1X,1X2M1X;DP=1897;DPB=1897;DPRA=0,0.933728;EPP=3299.31,817.312;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.71429,2.16667;MQM=59.9387,59.5067;MQMR=60;NS=21;NUMALT=2;ODDS=15.8717;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54292,13362;QR=36;RO=1;RPL=0,0;RPP=3299.31,817.312;RPPR=5.18177;RPR=1518,375;RUN=1,1;SAF=1518,375;SAP=3299.31,817.312;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,103,0:0:0:103,0:3704,0:-333.556,-31.0061,0,-333.556,-31.0061,-333.556 1/1:62:0,62,0:0:0:62,0:2219,0:-199.974,-18.6639,0,-199.974,-18.6639,-199.974 1/2:88:0,35,53:0:0:35,53:1248,1901:-256.506,-154.773,-144.237,-102.089,0,-86.1342 1/2:116:0,57,58:0:0:57,58:2027,2051:-332.227,-167.039,-149.88,-165.183,0,-147.723 1/2:165:0,90,75:0:0:90,75:3199,2674:-478.936,-218.253,-191.161,-261.039,0,-238.461 1/2:94:0,45,49:0:0:45,49:1612,1741:-273.575,-142.108,-128.562,-131.824,0,-117.073 1/1:185:0,184,1:0:0:184,1:6581,30:-592.023,-55.3895,0,-589.624,-52.691,-589.323 1/2:105:0,59,46:0:0:59,46:2103,1654:-306.717,-135.297,-117.536,-171.778,0,-157.931 1/1:195:0,194,0:0:0:194,0:6948,0:-625.022,-58.3998,0,-625.022,-58.3998,-625.022 1/1:8:0,8,0:0:0:8,0:279,0:-25.4475,-2.40824,0,-25.4475,-2.40824,-25.4475 1/2:8:0,3,5:0:0:3,5:108,180:-23.8592,-15.0469,-14.1438,-9.17208,0,-7.66693 1/1:24:0,23,1:0:0:23,1:824,34:-74.1427,-6.92369,0,-71.3854,-3.82581,-71.0844 1/1:116:0,116,0:0:0:116,0:4156,0:-374.223,-34.9195,0,-374.223,-34.9195,-374.223 1/2:53:1,29,22:1:36:29,22:1040,777:-144.826,-60.2978,-54.5056,-81.8873,0,-78.2021 1/1:145:0,145,0:0:0:145,0:5184,0:-466.698,-43.6494,0,-466.698,-43.6494,-466.698 1/1:76:0,76,0:0:0:76,0:2723,0:-245.312,-22.8783,0,-245.312,-22.8783,-245.312 1/1:95:0,95,0:0:0:95,0:3396,0:-304.751,-28.5979,0,-304.751,-28.5979,-304.751 1/2:78:0,34,44:0:0:34,44:1220,1581:-228.775,-129.262,-119.027,-99.8718,0,-86.6265 1/2:53:0,35,18:0:0:35,18:1252,637:-154.334,-52.2397,-41.7036,-102.449,0,-97.0305 1/1:83:0,80,3:0:0:80,3:2872,102:-258.374,-24.0824,0,-250.101,-15.4691,-249.198 1/1:45:0,45,0:0:0:45,0:1597,0:-144.018,-13.5464,0,-144.018,-13.5464,-144.018 chr05 12701710 . G C 6177.94 PASS AB=0.486631;ABP=4.17152;AC=9;AF=0.214286;AN=42;AO=368;CIGAR=1X;DP=1866;DPB=1866;DPRA=0.770477;EPP=759.273;EPPR=3084.48;GTI=0;LEN=1;MEANALT=1;MQM=59.4973;MQMR=59.9613;NS=21;NUMALT=1;ODDS=15.8885;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13101;QR=53620;RO=1498;RPL=5;RPP=759.273;RPPR=3084.48;RPR=363;RUN=1;SAF=368;SAP=802.112;SAR=0;SRF=1498;SRP=3255.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:99:99,0:99:3543:0:0:0,-29.802,-319.074 0/0:62:62,0:62:2224:0:0:0,-18.6639,-200.424 0/1:87:34,53:34:1216:53:1876:-142.294,0,-83.557 0/1:112:56,56:56:1984:56:1995:-146.101,0,-145.117 0/1:164:90,74:90:3227:74:2643:-188.555,0,-241.282 0/1:90:42,48:42:1504:48:1707:-126.677,0,-108.562 0/0:183:183,0:183:6531:0:0:0,-55.0885,-587.657 0/1:104:59,45:59:2108:45:1616:-114.418,0,-158.682 0/0:192:192,0:192:6885:0:0:0,-57.7978,-619.714 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/0:24:23,1:23:816:1:36:0,-3.62644,-70.1616 0/0:113:113,0:113:4040:0:0:0,-34.0164,-363.786 0/1:53:32,21:32:1144:21:734:-50.3168,0,-87.3149 0/0:142:142,0:142:5096:0:0:0,-42.7463,-458.782 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/0:91:91,0:91:3264:0:0:0,-27.3937,-293.98 0/1:77:33,44:33:1184:44:1567:-118.051,0,-83.689 0/1:53:35,18:35:1251:18:639:-41.8837,0,-96.9397 0/0:84:81,3:81:2903:3:108:0,-15.2113,-251.425 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 chr05 12702518 . 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G A 33999 PASS AB=0.490814;ABP=3.84811;AC=33;AF=0.785714;AN=42;AO=1621;CIGAR=1X;DP=2206;DPB=2206;DPRA=0;EPP=3496.96;EPPR=1262.48;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9914;MQMR=60;NS=21;NUMALT=1;ODDS=1.75022;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57960;QR=20872;RO=584;RPL=3;RPP=3496.96;RPPR=1262.48;RPR=1618;RUN=1;SAF=1621;SAP=3522.97;SAR=0;SRF=584;SRP=1271.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:1,79:1:36:79:2788:-247.561,-20.4841,0 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 0/1:140:75,64:75:2680:64:2293:-164.428,0,-199.242 0/1:115:63,52:63:2255:52:1857:-132.789,0,-168.594 0/1:225:133,92:133:4734:92:3295:-229.037,0,-358.489 0/1:124:65,59:65:2332:59:2101:-152.03,0,-172.812 1/1:156:0,156:0:0:156:5558:-500.344,-46.9607,0 0/1:76:40,36:40:1436:36:1281:-92.7084,0,-106.659 1/1:157:1,156:1:36:156:5565:-497.377,-43.6634,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 1/1:45:0,45:0:0:45:1612:-145.37,-13.5464,0 1/1:115:0,115:0:0:115:4117:-370.713,-34.6185,0 0/1:236:103,133:103:3688:133:4772:-358.592,0,-261.08 1/1:163:0,163:0:0:163:5840:-525.712,-49.0679,0 1/1:54:0,54:0:0:54:1925:-173.525,-16.2556,0 1/1:51:0,51:0:0:51:1828:-164.801,-15.3525,0 0/1:139:66,73:66:2368:73:2608:-193.125,0,-171.535 0/1:81:31,50:31:1091:50:1784:-136.459,0,-74.1153 1/1:97:1,96:1:36:96:3452:-307.293,-25.6016,0 1/1:57:0,57:0:0:57:2052:-184.951,-17.1587,0 chr05 13349774 . AA GG 17106.8 PASS AB=0.350507;ABP=730.158;AC=18;AF=0.428571;AN=42;AO=1351;CIGAR=2X;DP=4395;DPB=4395.5;DPRA=2.4191;EPP=2936.67;EPPR=6599.94;GTI=4;LEN=2;MEANALT=1.25;MQM=41.3568;MQMR=59.9895;NS=21;NUMALT=1;ODDS=22.1378;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=47877;QR=108610;RO=3038;RPL=0;RPP=2936.67;RPPR=6599.94;RPR=1351;RUN=1;SAF=1351;SAP=2936.67;SAR=0;SRF=3038;SRP=6599.94;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:303:176,127:176:6260:127:4516:-300.562,0,-472.283 0/1:167:75,91:75:2676:91:3219:-220.831,0,-190.757 0/1:312:209,101:209:7494:101:3545:-216.595,0,-580.822 0/1:344:167,177:167:5984:177:6238:-443.009,0,-435.11 0/1:462:334,128:334:11970:128:4566:-260.806,0,-938.076 0/0:170:158,12:158:5604:12:430:0,-14.9628,-468.269 0/1:307:270,37:270:9658:37:1295:-16.9112,0,-776.755 0/0:89:89,0:89:3186:0:0:0,-26.7917,-286.963 0/0:390:364,26:364:12976:26:934:0,-35.0688,-1084.69 0/1:14:12,2:12:430:2:70:-2.20492,0,-34.8257 0/1:8:6,2:6:216:2:72:-4.0282,0,-17.3823 0/1:77:48,28:48:1720:28:998:-60.5598,0,-131.848 0/1:249:217,32:217:7763:32:1148:-25.3072,0,-623.743 0/1:310:209,101:209:7478:101:3578:-218.759,0,-579.742 0/1:265:183,82:183:6538:82:2902:-172.939,0,-508.728 0/1:167:79,88:79:2836:88:3138:-227.757,0,-205.205 0/1:182:83,98:83:2961:98:3470:-249.419,0,-211.915 0/1:82:61,20:61:2184:20:720:-36.8117,0,-172.104 0/1:145:91,54:91:3253:54:1905:-123.876,0,-249.342 0/1:264:171,93:171:6129:93:3280:-201.981,0,-472.235 0/1:88:36,52:36:1294:52:1853:-127.06,0,-90.2733 chr05 13349802 . ACTT ACTCTT 15028.8 PASS AB=0.329937;ABP=915.151;AC=18;AF=0.428571;AN=42;AO=1233;CIGAR=1M2I3M;DP=4276;DPB=4895;DPRA=2.35225;EPP=2654.44;EPPR=6541.39;GTI=4;LEN=2;MEANALT=1.5;MQM=41.6018;MQMR=59.9894;NS=21;NUMALT=1;ODDS=24.9354;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43116;QR=106277;RO=3031;RPL=1230;RPP=2654.44;RPPR=6541.39;RPR=3;RUN=1;SAF=1233;SAP=2680.44;SAR=0;SRF=3031;SRP=6584.74;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:293:176,117:176:6124:117:4078:-269.086,0,-463.073 0/1:161:75,86:75:2622:86:2959:-203.525,0,-187.761 0/1:305:212,89:212:7423:89:3155:-187.089,0,-577.21 0/1:321:168,153:168:5901:153:5354:-374.88,0,-434.58 0/1:452:332,120:332:11651:120:4209:-234.695,0,-912.419 0/0:167:156,10:156:5434:10:344:0,-20.8272,-459.696 0/1:302:269,32:269:9485:32:1116:-4.0112,0,-762.811 0/0:89:89,0:89:3117:0:0:0,-26.7917,-280.759 0/0:389:362,25:362:12698:25:880:0,-38.8378,-1064.46 0/1:14:12,2:12:426:2:68:-2.04668,0,-34.4629 0/1:8:6,2:6:216:2:72:-4.0282,0,-17.3823 0/1:76:48,28:48:1658:28:969:-60.4442,0,-126.626 0/1:246:217,29:217:7580:29:1019:-15.8029,0,-608.203 0/1:301:208,92:208:7292:92:3188:-189.614,0,-565.81 0/1:258:181,76:181:6381:76:2645:-154.85,0,-496.703 0/1:161:79,82:79:2785:82:2900:-209.146,0,-202.426 0/1:176:84,91:84:2952:91:3200:-229.453,0,-212.927 0/1:81:60,21:60:2116:21:738:-39.3888,0,-166.325 0/1:138:91,47:91:3166:47:1659:-104.764,0,-243.627 0/1:261:170,90:170:5974:90:3144:-192.956,0,-459.147 0/1:77:36,41:36:1276:41:1419:-97.5717,0,-91.9629 chr05 13349807 . A T 17615.2 PASS AB=0.361997;ABP=599.352;AC=18;AF=0.428571;AN=42;AO=1343;CIGAR=1X;DP=4221;DPB=4221;DPRA=2.55556;EPP=2919.3;EPPR=6241.65;GTI=4;LEN=1;MEANALT=1.05;MQM=41.3842;MQMR=59.9892;NS=21;NUMALT=1;ODDS=16.8343;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47987;QR=102484;RO=2877;RPL=1343;RPP=2919.3;RPPR=6241.65;RPR=0;RUN=1;SAF=1343;SAP=2919.3;SAR=0;SRF=2877;SRP=6250.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:291:162,129:162:5788:129:4620:-312.493,0,-433.436 0/1:159:70,89:70:2508:89:3187:-221.173,0,-178.108 0/1:303:205,98:205:7328:98:3504:-213.631,0,-568.359 0/1:333:158,175:158:5617:175:6261:-446.963,0,-405.412 0/1:441:313,128:313:11123:128:4559:-267.478,0,-868.215 0/0:161:149,12:149:5276:12:432:0,-12.1327,-438.647 0/1:295:258,36:258:9207:36:1281:-18.4253,0,-739.742 0/0:81:81,0:81:2877:0:0:0,-24.3834,-259.166 0/0:374:348,26:348:12386:26:936:0,-30.0881,-1031.46 0/1:14:12,2:12:432:2:72:-2.34911,0,-35.0068 0/1:8:6,2:6:212:2:72:-4.0282,0,-17.0166 0/1:73:45,28:45:1616:28:1008:-62.6488,0,-123.755 0/1:240:208,32:208:7421:32:1148:-28.0082,0,-595.69 0/1:285:187,98:187:6655:98:3466:-216.076,0,-513.239 0/1:256:175,81:175:6232:81:2896:-174.58,0,-483.914 0/1:165:77,88:77:2748:88:3148:-229.161,0,-197.893 0/1:180:81,99:81:2880:99:3546:-255.663,0,-205.253 0/1:80:59,21:59:2112:21:756:-40.5004,0,-166.267 0/1:135:81,54:81:2879:54:1932:-129.26,0,-218.708 0/1:259:166,93:166:5903:93:3316:-205.402,0,-453.417 0/1:88:36,52:36:1284:52:1847:-126.905,0,-89.3728 chr05 13349878 . GCACAT TTACCC,TTACAC 52461.9 PASS AB=0.539749,0.45272;ABP=19.4099,26.2133;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1907,549;CIGAR=2X2M2X,2X3M1X;DP=2477;DPB=2477.5;DPRA=0,1.39521;EPP=3862.33,1186.48;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.42857,3.08333;MQM=47.5286,59.9581;MQMR=0;NS=21;NUMALT=2;ODDS=15.6263;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66952,19384;QR=0;RO=0;RPL=33,1;RPP=3862.33,1186.48;RPPR=0;RPR=1874,548;RUN=1,1;SAF=0,0;SAP=4144.01,1195.15;SAR=1907,549;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,79,0:0:0:79,0:2759,0:-246.424,-23.7814,0,-246.424,-23.7814,-246.424 1/1:87:0,84,1:0:0:84,1:2961,36:-262.242,-25.2865,0,-259.304,-22.3322,-259.003 1/2:149:0,61,87:0:0:61,87:2151,3082:-425.01,-251.144,-232.781,-173.947,0,-147.757 1/2:178:0,99,78:0:0:99,78:3448,2752:-501.713,-224.171,-194.369,-277.62,0,-254.139 1/2:389:0,210,175:0:0:210,175:7318,6194:-1094.22,-504.541,-441.324,-589.686,0,-537.006 1/2:86:0,45,41:0:0:45,41:1585,1433:-243.703,-116.922,-103.376,-127.129,0,-114.787 1/1:204:0,198,3:0:0:198,3:6950,108:-614.641,-59.6039,0,-605.829,-50.7829,-604.926 1/2:65:0,26,39:0:0:26,39:921,1373:-186.405,-112.128,-104.301,-74.6285,0,-62.8883 1/1:240:0,240,0:0:0:240,0:8478,0:-757.686,-72.2472,0,-757.686,-72.2472,-757.686 1/1:18:0,17,0:0:0:17,0:603,0:-53.9297,-5.11751,0,-53.9297,-5.11751,-53.9297 1/2:5:0,2,3:0:0:2,3:71,107:-14.7557,-9.07908,-8.47702,-6.02859,0,-5.1255 1/1:28:0,27,0:0:0:27,0:945,0:-83.0641,-8.12781,0,-83.0641,-8.12781,-83.0641 1/1:179:0,179,0:0:0:179,0:6252,0:-557.243,-53.8844,0,-557.243,-53.8844,-557.243 1/2:132:0,84,47:0:0:84,47:2945,1657:-372.698,-135.044,-109.758,-237.782,0,-223.633 1/1:118:0,117,0:0:0:117,0:4157,0:-371.393,-35.2205,0,-371.393,-35.2205,-371.393 1/1:60:0,58,0:0:0:58,0:2024,0:-181.188,-17.4597,0,-181.188,-17.4597,-181.188 1/1:81:0,81,0:0:0:81,0:2830,0:-253.668,-24.3834,0,-253.668,-24.3834,-253.668 1/2:114:0,62,50:0:0:62,50:2137,1765:-315.004,-143.763,-125.099,-171.268,0,-156.217 1/2:77:0,56,21:0:0:56,21:1968,733:-218.238,-59.9687,-43.111,-158.618,0,-152.297 1/1:125:0,120,4:0:0:120,4:4245,144:-377.435,-36.1236,0,-365.685,-24.3099,-364.481 1/1:62:0,62,0:0:0:62,0:2204,0:-195.137,-18.6639,0,-195.137,-18.6639,-195.137 chr05 13349890 . G A 40250.2 PASS AB=0.547315;ABP=25.8191;AC=33;AF=0.785714;AN=42;AO=1902;CIGAR=1X;DP=2439;DPB=2439;DPRA=0;EPP=4046.75;EPPR=1134.61;GTI=0;LEN=1;MEANALT=1;MQM=47.6483;MQMR=59.9553;NS=21;NUMALT=1;ODDS=16.2521;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68208;QR=19167;RO=537;RPL=1892;RPP=4046.75;RPPR=1134.61;RPR=10;RUN=1;SAF=0;SAP=4133.15;SAR=1902;SRF=0;SRP=1169.09;SRR=537;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,78:0:0:78:2792:-249.616,-23.4803,0 1/1:84:0,84:0:0:84:3020:-267.702,-25.2865,0 0/1:144:83,61:83:2968:61:2192:-152.792,0,-224.005 0/1:178:78,100:78:2796:100:3588:-267.005,0,-198.294 0/1:379:170,209:170:6061:209:7489:-554.034,0,-431.504 0/1:84:39,45:39:1373:45:1620:-117.253,0,-98.5801 1/1:200:2,198:2:72:198:7105:-620.23,-53.3693,0 0/1:63:37,26:37:1324:26:921:-63.4939,0,-100.497 1/1:241:0,241:0:0:241:8644:-771.194,-72.5482,0 1/1:17:0,17:0:0:17:612:-54.9289,-5.11751,0 0/1:5:3,2:3:108:2:72:-5.2109,0,-8.57002 1/1:26:0,26:0:0:26:925:-82.2915,-7.82678,0 1/1:179:0,179:0:0:179:6398:-569.714,-53.8844,0 0/1:131:48,83:48:1701:83:2984:-227.212,0,-113.931 1/1:116:0,116:0:0:116:4168:-372.777,-34.9195,0 1/1:59:0,59:0:0:59:2122:-189.706,-17.7608,0 1/1:80:0,80:0:0:80:2876:-257.613,-24.0824,0 0/1:113:52,61:52:1868:61:2175:-159.416,0,-134.36 0/1:76:21,55:21:752:55:1961:-151.993,0,-45.128 1/1:124:4,120:4:144:120:4312:-369.935,-24.0141,0 1/1:62:0,62:0:0:62:2232:-197.359,-18.6639,0 chr05 13710541 . GATCACA GGTCACA,GA 18494.6 PASS AB=0.465944,0.53096;ABP=9.51799,8.38856;AC=33,9;AF=0.785714,0.214286;AN=42;AO=907,345;CIGAR=1M1X5M,1M5D1M;DP=1256;DPB=1009.57;DPRA=0,1.55692;EPP=1972.54,752.168;EPPR=7.35324;GTI=1;LEN=1,5;MEANALT=1.57143,2.1;MQM=32.1312,27.9159;MQMR=37.5;NS=21;NUMALT=2;ODDS=0.778166;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28985,11857;QR=68;RO=2;RPL=0,0;RPP=1972.54,752.168;RPPR=7.35324;RPR=907,345;RUN=1,1;SAF=907,345;SAP=1972.54,752.168;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43,0:0:0:43,0:1389,0:-113.992,-12.9443,0,-113.992,-12.9443,-113.992 1/1:16:0,16,0:0:0:16,0:444,0:-35.879,-4.81648,0,-35.879,-4.81648,-35.879 1/2:90:1,47,42:1:32:47,42:1551,1465:-202.237,-89.8129,-77.6858,-110.733,0,-100.11 1/2:95:0,45,49:0:0:45,49:1468,1677:-212.742,-105.969,-92.4229,-106.875,0,-92.1248 1/2:133:0,46,87:0:0:46,87:1502,2958:-296.917,-187.948,-174.101,-109.258,0,-83.0679 1/2:66:0,24,42:0:0:24,42:689,1457:-127.398,-79.1031,-71.8784,-48.5466,0,-35.9034 1/1:56:0,56,0:0:0:56,0:1626,0:-131.626,-16.8577,0,-131.626,-16.8577,-131.626 1/2:88:0,56,32:0:0:56,32:1722,1082:-186.953,-63.9776,-47.1199,-123.238,0,-113.605 1/1:122:1,120,0:1:36:120,0:4128,0:-336.601,-33.1299,0,-336.902,-36.1236,-339.818 1/1:7:0,7,0:0:0:7,0:218,0:-18.0059,-2.10721,0,-18.0059,-2.10721,-18.0059 1/2:8:0,3,5:0:0:3,5:87,172:-15.8791,-9.75855,-8.85546,-6.37479,0,-4.86964 1/1:31:0,31,0:0:0:31,0:930,0:-75.8128,-9.33193,0,-75.8128,-9.33193,-75.8128 1/1:78:0,78,0:0:0:78,0:2545,0:-208.7,-23.4803,0,-208.7,-23.4803,-208.7 1/2:88:0,41,47:0:0:41,47:1332,1613:-199.114,-102.444,-90.1021,-96.9557,0,-82.8073 1/1:107:0,107,0:0:0:107,0:3470,0:-284.283,-32.2102,0,-284.283,-32.2102,-284.283 1/1:16:0,16,0:0:0:16,0:540,0:-45.0423,-4.81648,0,-45.0423,-4.81648,-45.0423 1/1:18:0,18,0:0:0:18,0:627,0:-51.9855,-5.41854,0,-51.9855,-5.41854,-51.9855 1/2:35:0,11,24:0:0:11,24:341,833:-73.8277,-49.4216,-46.1102,-24.6801,0,-17.4554 1/2:43:0,28,15:0:0:28,15:923,528:-100.544,-33.4301,-25.0013,-67.4001,0,-62.8846 1/1:90:0,88,2:0:0:88,2:2705,72:-219.869,-26.4906,0,-215.704,-22.0604,-215.102 1/1:26:0,26,0:0:0:26,0:748,0:-60.5407,-7.82678,0,-60.5407,-7.82678,-60.5407 chr05 13710585 . A T 14728.8 PASS AB=0.451274;ABP=16.7651;AC=33;AF=0.785714;AN=42;AO=909;CIGAR=1X;DP=1278;DPB=1278;DPRA=0;EPP=1976.88;EPPR=799.941;GTI=1;LEN=1;MEANALT=1.09524;MQM=32.2651;MQMR=28.6267;NS=21;NUMALT=1;ODDS=2.23605;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32445;QR=13016;RO=367;RPL=902;RPP=1916.55;RPPR=799.941;RPR=7;RUN=1;SAF=902;SAP=1916.55;SAR=7;SRF=367;SRP=799.941;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,48:0:0:48:1719:-135.719,-14.4494,0 1/1:16:0,16:0:0:16:572:-39.2524,-4.81648,0 0/1:93:46,47:46:1648:47:1688:-104.286,0,-88.8049 0/1:99:53,46:53:1884:46:1623:-97.3684,0,-104.287 0/1:134:87,47:87:3079:47:1684:-90.707,0,-178.403 0/1:70:46,24:46:1612:24:860:-39.4967,0,-80.7038 1/1:55:0,55:0:0:55:1976:-139.519,-16.5567,0 0/1:87:34,52:34:1208:52:1868:-111.105,0,-55.4661 1/1:119:1,118:1:32:118:4188:-334.809,-32.6395,0 1/1:8:0,8:0:0:8:288:-21.8268,-2.40824,0 0/1:8:5,3:5:180:3:108:-5.49079,0,-8.93953 1/1:31:0,31:0:0:31:1099:-81.2392,-9.33193,0 1/1:75:0,75:0:0:75:2688:-210.007,-22.5773,0 0/1:88:48,40:48:1716:40:1431:-84.6379,0,-94.153 1/1:107:0,107:0:0:107:3825:-298.094,-32.2102,0 1/1:17:0,17:0:0:17:604:-50.1128,-5.11751,0 1/1:18:0,18:0:0:18:648:-52.9124,-5.41854,0 0/1:38:26,11:26:914:11:396:-17.382,0,-51.1538 0/1:50:19,31:19:671:31:1095:-71.4592,0,-34.5242 1/1:91:2,89:2:72:89:3164:-229.857,-22.3614,0 1/1:26:0,26:0:0:26:921:-65.0963,-7.82678,0 chr05 13825838 . CAATATC CATATC 2305.85 PASS AB=0.467967;ABP=6.21005;AC=9;AF=0.214286;AN=42;AO=168;CIGAR=1M1D5M;DP=761;DPB=737;DPRA=1.19071;EPP=367.818;EPPR=1284.18;GTI=0;LEN=1;MEANALT=1.11111;MQM=39.4881;MQMR=58.5814;NS=21;NUMALT=1;ODDS=0.231381;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5824;QR=20509;RO=590;RPL=0;RPP=367.818;RPPR=1284.18;RPR=168;RUN=1;SAF=0;SAP=367.818;SAR=168;SRF=0;SRP=1284.18;SRR=590;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:27,0:27:943:0:0:0,-8.12781,-85.1846 0/0:4:4,0:4:142:0:0:0,-1.20412,-13.1214 0/1:26:15,11:15:533:11:388:-26.3512,0,-40.4544 0/1:44:25,19:25:871:19:652:-44.2171,0,-65.461 0/1:73:34,39:34:1189:39:1368:-97.5919,0,-85.3033 0/1:28:15,13:15:524:13:455:-29.8339,0,-39.0098 0/0:53:53,0:53:1807:0:0:0,-15.9546,-162.801 0/1:40:15,25:15:524:25:859:-61.9811,0,-35.3841 0/0:82:82,0:82:2860:0:0:0,-24.6845,-257.597 0/0:6:6,0:6:209:0:0:0,-1.80618,-19.1093 0/1:6:5,1:5:178:1:32:-1.27455,0,-13.7631 0/0:15:15,0:15:504:0:0:0,-4.51545,-45.6622 0/0:59:59,0:59:2051:0:0:0,-17.7608,-184.786 0/1:54:31,23:31:1076:23:799:-53.3962,0,-80.852 0/0:62:61,0:61:2126:0:0:0,-18.3628,-191.011 0/0:9:9,0:9:305:0:0:0,-2.70927,-27.7778 0/0:15:15,0:15:523:0:0:0,-4.51545,-47.3217 0/1:46:23,22:23:800:22:747:-50.2995,0,-58.3076 0/1:42:27,15:27:934:15:524:-33.4646,0,-71.6719 0/0:42:42,0:42:1466:0:0:0,-12.6433,-132.174 0/0:28:27,0:27:944:0:0:0,-8.12781,-84.8965 chr05 13825845 . ACATTGGAGATG TAATTGGAAATT,AAATTAGAAATT 15032.1 PASS AB=0.509537,0.468665;ABP=3.30022,6.1403;AC=33,9;AF=0.785714,0.214286;AN=42;AO=585,172;CIGAR=2X6M1X2M1X,1M1X3M1X2M1X2M1X;DP=769;DPB=769;DPRA=0,1.21725;EPP=1273.32,376.504;EPPR=0;GTI=0;LEN=12,12;MEANALT=2,2.88889;MQM=58.6581,39.5756;MQMR=0;NS=21;NUMALT=2;ODDS=1.4554;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19869,6056;QR=0;RO=0;RPL=0,0;RPP=1273.32,376.504;RPPR=0;RPR=585,172;RUN=1,1;SAF=0,0;SAP=1273.32,376.504;SAR=585,172;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:27:0,27,0:0:0:27,0:885,0:-79.9498,-8.12781,0,-79.9498,-8.12781,-79.9498 1/1:4:0,4,0:0:0:4,0:140,0:-12.9377,-1.20412,0,-12.9377,-1.20412,-12.9377 1/2:26:0,15,11:0:0:15,11:523,390:-73.5208,-31,-26.4845,-42.8662,0,-39.5549 1/2:46:0,25,20:0:0:25,20:890,707:-128.3,-55.7536,-48.2278,-72.613,0,-66.5924 1/2:73:0,34,39:0:0:34,39:1176,1362:-202.87,-107.353,-97.1181,-95.859,0,-84.1188 1/2:30:0,15,14:0:0:15,14:523,497:-78.903,-36.6375,-32.122,-42.3436,0,-38.1292 1/1:53:0,52,0:0:0:52,0:1762,0:-158.438,-15.6536,0,-158.438,-15.6536,-158.438 1/2:42:0,13,26:0:0:13,26:439,917:-105.804,-70.2193,-66.3059,-35.6181,0,-27.7913 1/1:82:0,82,0:0:0:82,0:2747,0:-247.403,-24.6845,0,-247.403,-24.6845,-247.403 1/1:6:0,6,0:0:0:6,0:204,0:-18.6765,-1.80618,0,-18.6765,-1.80618,-18.6765 1/2:6:0,4,1:0:0:4,1:140,36:-14.1754,-2.75162,-1.5475,-11.4642,0,-11.1632 1/1:15:0,15,0:0:0:15,0:500,0:-45.3133,-4.51545,0,-45.3133,-4.51545,-45.3133 1/1:59:0,58,0:0:0:58,0:1981,0:-178.246,-17.4597,0,-178.246,-17.4597,-178.246 1/2:56:0,31,24:0:0:31,24:1036,843:-149.788,-65.9519,-56.62,-83.914,0,-76.6892 1/1:62:0,61,0:0:0:61,0:2076,0:-186.675,-18.3628,0,-186.675,-18.3628,-186.675 1/1:9:0,9,0:0:0:9,0:284,0:-25.8673,-2.70927,0,-25.8673,-2.70927,-25.8673 1/1:15:0,14,0:0:0:14,0:456,0:-41.0701,-4.21442,0,-41.0701,-4.21442,-41.0701 1/2:46:0,24,22:0:0:24,22:828,776:-126.09,-59.0106,-51.7859,-67.4162,0,-60.7936 1/2:42:0,26,15:0:0:26,15:893,528:-114.079,-41.6503,-33.8235,-72.5141,0,-67.9987 1/1:42:0,42,0:0:0:42,0:1415,0:-127.508,-12.6433,0,-127.508,-12.6433,-127.508 1/1:28:0,28,0:0:0:28,0:971,0:-87.6084,-8.42884,0,-87.6084,-8.42884,-87.6084 chr05 13830795 . C T 367.174 PASS AB=0.630088;ABP=169.111;AC=33;AF=0.785714;AN=42;AO=2063;CIGAR=1X;DP=2481;DPB=2481;DPRA=0;EPP=4482.76;EPPR=910.686;GTI=8;LEN=1;MEANALT=1;MQM=11.0868;MQMR=40.8923;NS=21;NUMALT=1;ODDS=0.235846;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73761;QR=14904;RO=418;RPL=0;RPP=4482.76;RPPR=910.686;RPR=2063;RUN=1;SAF=2063;SAP=4482.76;SAR=0;SRF=418;SRP=910.686;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,159:0:0:159:5697:-156.762,-47.8638,0 1/1:125:0,125:0:0:125:4492:-125.76,-37.6288,0 0/1:137:44,93:44:1572:93:3315:-53.4931,0,-95.1654 0/1:140:67,73:67:2392:73:2593:-30.8571,0,-165.339 0/1:215:63,152:63:2240:152:5422:-85.3064,0,-129.811 0/1:135:67,68:67:2400:68:2424:-27.5066,0,-168.518 1/1:200:0,200:0:0:200:7143:-199.821,-60.206,0 0/1:181:57,124:57:2017:124:4452:-68.8617,0,-121.428 1/1:197:0,197:0:0:197:7060:-195.6,-59.3029,0 1/1:5:0,5:0:0:5:180:-5.05419,-1.50515,0 0/1:11:7,4:7:252:4:135:-0.745983,0,-18.9651 1/1:28:0,28:0:0:28:1008:-27.708,-8.42884,0 1/1:84:0,84:0:0:84:3020:-82.7234,-25.2865,0 0/1:128:53,75:53:1896:75:2660:-36.452,0,-125.734 1/1:238:0,238:0:0:238:8510:-234.22,-71.6451,0 1/1:100:0,100:0:0:100:3569:-98.1534,-30.103,0 1/1:85:0,85:0:0:85:3044:-83.348,-25.5876,0 0/1:81:25,56:25:896:56:1994:-32.0182,0,-53.8813 0/1:102:35,67:35:1239:67:2392:-35.4704,0,-77.0241 1/1:82:0,82:0:0:82:2932:-81.0983,-24.6845,0 1/1:48:0,48:0:0:48:1719:-47.7473,-14.4494,0 chr05 13830816 . ACCC GCCT 7607.21 PASS AB=0.373675;ABP=159.916;AC=9;AF=0.214286;AN=42;AO=423;CIGAR=1X2M1X;DP=2493;DPB=2493;DPRA=1.10899;EPP=904.253;EPPR=4478.42;GTI=9;LEN=4;MEANALT=1.55556;MQM=40.6738;MQMR=11.139;NS=21;NUMALT=1;ODDS=0.510447;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14790;QR=70393;RO=2065;RPL=421;RPP=904.253;RPPR=4478.42;RPR=2;RUN=1;SAF=423;SAP=921.543;SAR=0;SRF=2065;SRP=4487.1;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:158:158,0:158:5377:0:0:0,-47.5627,-155.569 0/0:123:123,0:123:4124:0:0:0,-37.0267,-123.559 0/1:136:92,44:92:3160:44:1538:-92.8844,0,-52.9878 0/1:143:73,69:73:2487:69:2427:-165.772,0,-30.9892 0/1:216:149,66:149:5057:66:2298:-133.385,0,-82.0601 0/1:134:67,66:67:2289:66:2322:-162.484,0,-26.7652 0/0:207:207,0:207:7109:0:0:0,-62.3132,-209.826 0/1:179:122,56:122:4090:56:1952:-116.966,0,-68.8349 0/0:197:197,0:197:6699:0:0:0,-59.3029,-195.559 0/0:5:5,0:5:172:0:0:0,-1.50515,-5.05015 0/1:11:4,7:4:124:7:248:-18.6614,0,-0.740933 0/0:29:29,0:29:950:0:0:0,-8.72987,-28.624 0/0:86:86,0:86:2923:0:0:0,-25.8886,-84.503 0/1:130:76,54:76:2578:54:1872:-123.548,0,-37.3716 0/0:239:239,0:239:8260:0:0:0,-71.9462,-235.183 0/0:101:101,0:101:3485:0:0:0,-30.404,-99.0894 0/0:84:84,0:84:2882:0:0:0,-25.2865,-82.3804 0/1:82:56,26:56:1936:26:892:-52.8305,0,-31.7676 0/1:101:65,35:65:2227:35:1241:-77.5621,0,-34.2142 0/0:84:84,0:84:2857:0:0:0,-25.2865,-82.997 0/0:48:48,0:48:1607:0:0:0,-14.4494,-47.5631 chr05 13980344 . G A 8793.87 PASS AB=0.487226;ABP=4.56362;AC=9;AF=0.214286;AN=42;AO=537;CIGAR=1X;DP=2441;DPB=2441;DPRA=0.928048;EPP=1151.78;EPPR=3914.74;GTI=0;LEN=1;MEANALT=1;MQM=47.1043;MQMR=59.5074;NS=21;NUMALT=1;ODDS=11.1638;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19140;QR=68189;RO=1904;RPL=535;RPP=1151.78;RPPR=3914.74;RPR=2;RUN=1;SAF=537;SAP=1169.09;SAR=0;SRF=1904;SRP=4137.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:184:183,1:183:6568:1:36:0,-51.8227,-587.507 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.235 0/1:147:80,67:80:2868:67:2408:-170.395,0,-213.594 0/1:145:75,70:75:2679:70:2479:-176.734,0,-197.686 0/1:252:116,136:116:4168:136:4834:-354.975,0,-299.339 0/1:67:34,33:34:1220:33:1165:-84.07,0,-89.9378 0/0:98:98,0:98:3478:0:0:0,-29.5009,-313.16 0/1:165:89,76:89:3173:76:2728:-193.601,0,-236.101 0/0:283:283,0:283:10147:0:0:0,-85.1915,-912.929 0/0:18:17,1:17:608:1:36:0,-1.84511,-51.4515 0/1:6:3,3:3:108:3:108:-8.21437,0,-8.26899 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.084 0/0:117:117,0:117:4208:0:0:0,-35.2205,-378.836 0/1:88:35,53:35:1252:53:1885:-141.651,0,-86.4209 0/0:202:202,0:202:7268:0:0:0,-60.8081,-654.07 0/0:115:115,0:115:4111:0:0:0,-34.6184,-370.062 0/0:85:85,0:85:3037:0:0:0,-25.5875,-273.485 0/1:114:61,53:61:2175:53:1881:-133.94,0,-161.247 0/1:112:69,43:69:2475:43:1544:-104.38,0,-189.231 0/0:114:114,0:114:4077:0:0:0,-34.3174,-367.048 0/0:52:51,1:51:1805:1:36:0,-12.0748,-158.926 chr05 14309556 . A C 7515.34 PASS AB=0.447977;ABP=27.4111;AC=9;AF=0.214286;AN=42;AO=470;CIGAR=1X;DP=2678;DPB=2678;DPRA=0.955008;EPP=1023.6;EPPR=4793.28;GTI=1;LEN=1;MEANALT=1;MQM=59.9872;MQMR=59.9909;NS=21;NUMALT=1;ODDS=13.6758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16823;QR=76804;RO=2206;RPL=0;RPP=1023.6;RPPR=4793.28;RPR=470;RUN=1;SAF=470;SAP=1023.6;SAR=0;SRF=2206;SRP=4793.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:102,1:102:3572:1:36:0,-27.4078,-318.087 0/0:135:134,0:134:4717:0:0:0,-40.338,-424.337 0/1:124:63,61:63:2194:61:2175:-158.689,0,-160.396 0/1:164:94,70:94:3258:70:2508:-176.603,0,-244.069 0/1:201:97,104:97:3430:104:3712:-273.771,0,-248.405 0/1:67:35,32:35:1196:32:1148:-83.4608,0,-87.7652 0/0:249:249,0:249:8720:0:0:0,-74.9565,-784.804 0/1:140:77,63:77:2589:63:2252:-160.799,0,-191.107 0/0:229:229,0:229:8114:0:0:0,-68.9359,-730.276 0/0:42:42,0:42:1443:0:0:0,-12.6433,-130.158 0/1:9:8,1:8:258:1:36:-0.889005,0,-20.8237 0/0:85:84,0:84:2883:0:0:0,-25.2865,-259.342 0/0:74:74,0:74:2552:0:0:0,-22.2762,-229.928 0/1:148:87,61:87:2893:61:2192:-152.993,0,-216.045 0/0:299:298,1:298:10361:1:36:0,-86.4097,-928.828 0/0:129:129,0:129:4544:0:0:0,-38.8329,-409.127 0/0:116:116,0:116:4050:0:0:0,-34.9195,-364.686 0/1:132:73,59:73:2536:59:2116:-150.973,0,-188.751 0/1:53:39,14:39:1373:14:504:-29.7435,0,-107.912 0/0:119:119,0:119:4142:0:0:0,-35.8226,-372.964 0/0:60:57,3:57:1979:3:108:0,-7.98663,-168.304 chr05 14652604 . GATGC AATGA,GATGA 40760.9 PASS AB=0.557441,0.438642;ABP=24.9631,28.0588;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1569,339;CIGAR=1X3M1X,4M1X;DP=1919;DPB=1919;DPRA=0,1.1409;EPP=3366.76,696.351;EPPR=0;GTI=1;LEN=5,1;MEANALT=2,2.63636;MQM=59.5398,59.5605;MQMR=0;NS=21;NUMALT=2;ODDS=1.57711;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54709,12041;QR=0;RO=0;RPL=5,5;RPP=3366.76,696.351;RPPR=0;RPR=1564,334;RUN=1,1;SAF=0,0;SAP=3410.05,739.139;SAR=1569,339;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:0,151,0:0:0:151,0:5270,0:-474.397,-45.4555,0,-474.397,-45.4555,-474.397 1/1:87:0,87,0:0:0:87,0:2992,0:-269.515,-26.1896,0,-269.515,-26.1896,-269.515 1/2:91:0,48,43:0:0:48,43:1688,1518:-261.363,-123.96,-109.511,-137.755,0,-124.81 1/2:93:0,51,42:0:0:51,42:1775,1488:-265.884,-121.56,-106.208,-144.675,0,-132.032 1/2:297:0,179,116:0:0:179,116:6198,4114:-838.674,-335.011,-281.127,-503.654,0,-468.734 1/2:64:0,30,34:0:0:30,34:1042,1211:-183.693,-99.0596,-90.0287,-84.9847,0,-74.7497 1/1:179:0,174,1:0:0:174,1:6081,36:-547.064,-52.3792,0,-544.127,-49.4336,-543.826 1/2:41:0,24,17:0:0:24,17:830,603:-116.918,-49.482,-42.2573,-67.7866,0,-62.6691 1/1:153:0,152,0:0:0:152,0:5324,0:-478.639,-45.7566,0,-478.639,-45.7566,-478.639 1/1:11:0,11,0:0:0:11,0:383,0:-34.8024,-3.31133,0,-34.8024,-3.31133,-34.8024 1/2:5:0,3,2:0:0:3,2:106,72:-14.8631,-6.23466,-5.33157,-8.98559,0,-8.38353 1/1:7:0,7,0:0:0:7,0:240,0:-21.9333,-2.10721,0,-21.9333,-2.10721,-21.9333 1/1:122:0,120,0:0:0:120,0:4199,0:-375.353,-36.1236,0,-375.353,-36.1236,-375.353 1/2:97:0,47,49:0:0:47,49:1640,1760:-277.094,-143.716,-129.567,-133.518,0,-118.767 1/1:113:0,113,0:0:0:113,0:3977,0:-358.114,-34.0164,0,-358.114,-34.0164,-358.114 1/1:85:0,85,0:0:0:85,0:2961,0:-266.694,-25.5876,0,-266.694,-25.5876,-266.694 1/1:91:0,91,0:0:0:91,0:3171,0:-285.58,-27.3937,0,-285.58,-27.3937,-285.58 1/2:40:0,16,24:0:0:16,24:552,860:-115.332,-70.494,-65.6775,-45.1882,0,-37.9635 1/2:38:0,29,9:0:0:29,9:995,307:-106.023,-25.2393,-16.5094,-81.1246,0,-78.4154 1/1:123:0,120,2:0:0:120,2:4228,72:-379.646,-36.1236,0,-373.771,-30.2089,-373.169 1/1:31:0,31,0:0:0:31,0:1057,0:-95.4256,-9.33193,0,-95.4256,-9.33193,-95.4256 chr05 14652628 . C T 5182.67 PASS AB=0.441333;ABP=25.4315;AC=9;AF=0.214286;AN=42;AO=334;CIGAR=1X;DP=1868;DPB=1868;DPRA=1.14682;EPP=728.282;EPPR=3331.88;GTI=1;LEN=1;MEANALT=1.09091;MQM=59.7455;MQMR=59.6164;NS=21;NUMALT=1;ODDS=1.16488;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11881;QR=54634;RO=1533;RPL=334;RPP=728.282;RPPR=3331.88;RPR=0;RUN=1;SAF=0;SAP=728.282;SAR=334;SRF=0;SRP=3331.88;SRR=1533;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:150:150,0:150:5320:0:0:0,-45.1545,-478.81 0/0:83:83,0:83:2963:0:0:0,-24.9855,-266.902 0/1:90:48,42:48:1720:42:1489:-107.205,0,-127.99 0/1:92:50,42:50:1780:42:1490:-106.67,0,-132.785 0/1:288:176,112:176:6284:112:3992:-272.744,0,-478.88 0/1:63:29,34:29:1040:34:1208:-90.0599,0,-74.63 0/0:174:172,1:172:6137:1:36:0,-48.8397,-548.695 0/1:39:23,16:23:824:16:576:-40.4348,0,-62.7401 0/0:148:148,0:148:5282:0:0:0,-44.5524,-475.428 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2567 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.5696 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5517 0/0:116:116,0:116:4149:0:0:0,-34.9195,-373.579 0/1:95:46,49:46:1652:49:1726:-127.02,0,-120.36 0/0:111:111,0:111:3930:0:0:0,-33.4143,-353.88 0/0:85:85,0:85:3013:0:0:0,-25.5875,-271.367 0/0:86:86,0:86:3069:0:0:0,-25.8886,-276.344 0/1:40:15,25:15:531:25:896:-68.917,0,-36.0807 0/1:38:29,9:29:1036:9:324:-18.038,0,-82.1115 0/0:118:116,2:116:4124:2:72:0,-28.6848,-363.607 0/0:31:31,0:31:1104:0:0:0,-9.33193,-98.8626 chr05 14678151 . T G 6797.19 PASS AB=0.485531;ABP=4.70698;AC=9;AF=0.214286;AN=42;AO=456;CIGAR=1X;DP=2242;DPB=2242;DPRA=0.904238;EPP=993.202;EPPR=3881.26;GTI=0;LEN=1;MEANALT=1;MQM=39.3772;MQMR=41.5633;NS=21;NUMALT=1;ODDS=18.0916;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16239;QR=63602;RO=1786;RPL=455;RPP=984.535;RPPR=3881.26;RPR=1;RUN=1;SAF=455;SAP=984.535;SAR=1;SRF=1786;SRP=3881.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:121:121,0:121:4299:0:0:0,-36.4246,-376.257 0/0:105:105,0:105:3733:0:0:0,-31.6081,-315.482 0/1:103:48,55:48:1724:55:1952:-137.492,0,-120.806 0/1:101:51,50:51:1832:50:1800:-125.212,0,-129.979 0/1:254:141,113:141:5055:113:4021:-270.472,0,-363.261 0/1:92:58,34:58:2069:34:1206:-70.8347,0,-145.706 0/0:174:174,0:174:6118:0:0:0,-52.3792,-513.184 0/1:29:11,18:11:396:18:648:-46.5507,0,-25.815 0/0:235:235,0:235:8355:0:0:0,-70.742,-737.788 0/0:28:28,0:28:1000:0:0:0,-8.42884,-86.3521 0/1:11:5,6:5:180:6:216:-14.5425,0,-12.2716 0/0:52:52,0:52:1872:0:0:0,-15.6536,-161.353 0/0:152:152,0:152:5398:0:0:0,-45.7566,-472.815 0/1:148:67,81:67:2404:81:2900:-205.893,0,-167.09 0/0:88:88,0:88:3147:0:0:0,-26.4906,-276.651 0/0:113:113,0:113:4029:0:0:0,-34.0164,-354.948 0/0:107:106,1:106:3776:1:36:0,-28.6892,-331.168 0/1:127:63,64:63:2256:64:2255:-151.962,0,-156.65 0/1:68:36,32:36:1292:32:1133:-77.4949,0,-92.9637 0/0:78:76,2:76:2709:2:72:0,-17.0439,-227.52 0/0:56:56,0:56:1958:0:0:0,-16.8577,-166.032 chr05 14683657 . C T 44237.2 PASS AB=0.598726;ABP=122.635;AC=30;AF=0.714286;AN=42;AO=1789;CIGAR=1X;DP=2378;DPB=2378;DPRA=0;EPP=1379.72;EPPR=1202.86;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9553;MQMR=59.8776;NS=21;NUMALT=1;ODDS=12.1891;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63996;QR=20941;RO=588;RPL=1427;RPP=1379.72;RPPR=1202.86;RPR=362;RUN=1;SAF=1789;SAP=3887.77;SAR=0;SRF=588;SRP=1279.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:160:8,152:8:279:152:5448:-465,-22.7173,0 0/1:168:34,134:34:1215:134:4798:-381.401,0,-59.0655 0/1:81:43,38:43:1535:38:1356:-97.9571,0,-114.059 0/1:167:74,93:74:2644:93:3328:-249.461,0,-187.935 0/1:254:108,146:108:3851:146:5213:-392.847,0,-270.325 0/1:139:71,68:71:2537:68:2444:-177.993,0,-186.71 1/1:174:6,168:6:216:168:5996:-519.953,-32.5887,0 0/1:78:50,28:50:1780:28:1000:-66.835,0,-137.002 1/1:162:1,160:1:36:160:5701:-509.666,-45.1685,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 1/1:34:0,34:0:0:34:1220:-110.102,-10.235,0 1/1:128:0,128:0:0:128:4582:-412.541,-38.5318,0 0/1:118:58,60:58:2051:60:2144:-157.705,0,-149.34 1/1:156:6,150:6:216:150:5392:-465.596,-27.1764,0 0/1:132:44,88:44:1556:88:3147:-243.719,0,-100.58 0/1:150:34,116:34:1201:116:4163:-329.696,0,-63.2389 0/1:59:25,34:25:896:34:1211:-91.5301,0,-63.1996 0/1:53:20,33:20:712:33:1179:-90.4626,0,-48.4521 1/1:105:0,105:0:0:105:3749:-337.609,-31.6082,0 1/1:42:0,42:0:0:42:1493:-134.663,-12.6433,0 chr05 14683681 . C T 35901.3 PASS AB=0.599424;ABP=122.185;AC=30;AF=0.714286;AN=42;AO=1765;CIGAR=1X;DP=2343;DPB=2343;DPRA=0;EPP=3835.66;EPPR=1255.95;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9705;MQMR=59.8769;NS=21;NUMALT=1;ODDS=8.63454;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63026;QR=20243;RO=577;RPL=1765;RPP=3835.66;RPPR=1255.95;RPR=0;RUN=1;SAF=1765;SAP=3835.66;SAR=0;SRF=577;SRP=1255.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:8,151:8:269:151:5378:-459.614,-23.3276,0 0/1:166:33,133:33:1134:133:4746:-377.326,0,-52.3724 0/1:81:43,38:43:1519:38:1364:-98.6773,0,-112.619 0/1:165:74,91:74:2608:91:3242:-242.329,0,-185.298 0/1:248:105,142:105:3697:142:5073:-382.001,0,-258.219 0/1:132:66,66:66:2319:66:2342:-171.301,0,-169.207 1/1:168:6,162:6:201:162:5775:-501.447,-32.156,0 0/1:75:48,27:48:1700:27:946:-62.8756,0,-130.709 1/1:156:1,155:1:36:155:5558:-496.74,-43.3624,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:14:6,8:6:201:8:279:-21.2331,0,-14.2026 1/1:35:0,35:0:0:35:1248:-112.623,-10.5361,0 1/1:128:0,128:0:0:128:4578:-412.182,-38.5318,0 0/1:115:57,58:57:2004:58:2072:-152.13,0,-146.013 1/1:158:7,151:7:252:151:5394:-462.537,-24.54,0 0/1:131:44,87:44:1525:87:3106:-240.331,0,-98.0948 0/1:148:33,115:33:1156:115:4116:-326.072,0,-59.783 0/1:61:27,34:27:955:34:1220:-91.744,0,-67.902 0/1:52:19,33:19:667:33:1184:-91.2148,0,-44.7011 1/1:106:0,106:0:0:106:3793:-341.566,-31.9092,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 chr05 14683756 . GA TG,GG 45246.4 PASS AB=0.554736,0.444034;ABP=24.1668,25.1283;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1748,362;CIGAR=2X,1M1X;DP=2118;DPB=2118;DPRA=0,0.994779;EPP=3798.74,789.083;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.80952,2.22222;MQM=59.9737,59.9724;MQMR=0;NS=21;NUMALT=2;ODDS=17.8552;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61592,12746;QR=0;RO=0;RPL=0,0;RPP=3798.74,789.083;RPPR=0;RPR=1748,362;RUN=1,1;SAF=0,0;SAP=3798.74,789.083;SAR=1748,362;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:0,151,0:0:0:151,0:5339,0:-480.644,-45.4555,0,-480.644,-45.4555,-480.644 1/1:64:0,64,0:0:0:64,0:2227,0:-200.69,-19.2659,0,-200.69,-19.2659,-200.69 1/2:114:0,64,50:0:0:64,50:2249,1774:-327.941,-144.89,-125.624,-183.404,0,-168.353 1/2:87:0,46,41:0:0:46,41:1616,1412:-246.556,-115.028,-101.181,-131.876,0,-119.534 1/2:237:0,147,90:0:0:147,90:5192,3185:-682.591,-259.776,-215.525,-423.168,0,-396.075 1/2:87:0,49,38:0:0:49,38:1735,1352:-251.869,-110.541,-95.7908,-141.683,0,-130.244 1/1:149:0,149,0:0:0:149,0:5234,0:-471.201,-44.8535,0,-471.201,-44.8535,-471.201 1/2:69:0,38,31:0:0:38,31:1298,1084:-193.864,-88.5342,-77.0951,-105.675,0,-96.3434 1/1:296:0,293,0:0:0:293,0:10330,0:-929.32,-88.2018,0,-929.32,-88.2018,-929.32 1/1:16:0,16,0:0:0:16,0:559,0:-50.6375,-4.81648,0,-50.6375,-4.81648,-50.6375 1/1:8:0,8,0:0:0:8,0:275,0:-25.0832,-2.40824,0,-25.0832,-2.40824,-25.0832 1/1:28:0,28,0:0:0:28,0:1001,0:-90.4051,-8.42884,0,-90.4051,-8.42884,-90.4051 1/1:111:0,109,0:0:0:109,0:3851,0:-346.48,-32.8123,0,-346.48,-32.8123,-346.48 1/2:87:0,42,44:0:0:42,44:1488,1547:-247.282,-126.063,-113.419,-121.357,0,-108.112 1/1:180:0,180,0:0:0:180,0:6342,0:-570.878,-54.1854,0,-570.878,-54.1854,-570.878 1/1:82:0,82,0:0:0:82,0:2916,0:-262.675,-24.6845,0,-262.675,-24.6845,-262.675 1/1:80:0,79,0:0:0:79,0:2761,0:-248.479,-23.7814,0,-248.479,-23.7814,-248.479 1/2:80:0,32,48:0:0:32,48:1120,1685:-228.609,-137.486,-127.853,-91.4735,0,-77.0241 1/2:52:0,33,19:0:0:33,19:1175,671:-150.766,-54.9962,-45.0622,-96.1238,0,-90.4042 1/1:92:0,90,1:0:0:90,1:3181,36:-286.208,-27.0927,0,-283.271,-24.1004,-282.97 1/1:48:0,48,0:0:0:48,0:1703,0:-153.556,-14.4494,0,-153.556,-14.4494,-153.556 chr05 14802975 . TG CA 26783.2 PASS AB=0.474328;ABP=24.528;AC=19;AF=0.452381;AN=42;AO=1783;CIGAR=2X;DP=3887;DPB=3887;DPRA=3.09128;EPP=3874.75;EPPR=4519.78;GTI=1;LEN=2;MEANALT=1.21053;MQM=48.5121;MQMR=54.0176;NS=21;NUMALT=1;ODDS=1.88378;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63212;QR=74376;RO=2100;RPL=0;RPP=3874.75;RPPR=4563.1;RPR=1783;RUN=1;SAF=1783;SAP=3874.75;SAR=0;SRF=2095;SRP=4519.78;SRR=5;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:272:168,104:168:5943:104:3682:-245.369,0,-452.555 0/1:167:100,67:100:3550:67:2388:-154.525,0,-269.201 0/1:224:137,86:137:4904:86:3069:-204.144,0,-373.771 0/1:159:80,79:80:2828:79:2775:-197.382,0,-206.89 0/1:366:125,240:125:4447:240:8484:-642.689,0,-290.275 0/1:193:71,121:71:2529:121:4269:-270.388,0,-169.703 0/1:331:99,232:99:3461:232:8249:-584.569,0,-211.963 0/0:118:118,0:118:4197:0:0:0,-35.5215,-377.845 0/1:372:321,50:321:11357:50:1757:-42.3186,0,-778.807 0/1:48:43,5:43:1542:5:174:-1.22412,0,-124.624 0/0:10:10,0:10:333:0:0:0,-3.0103,-29.6574 0/1:48:31,17:31:1098:17:612:-39.8787,0,-84.6795 0/1:197:122,75:122:4299:75:2687:-177.128,0,-327.516 0/1:204:68,136:68:2394:136:4785:-358.958,0,-154.304 0/1:391:162,229:162:5706:229:8118:-597.437,0,-395.724 0/1:96:75,21:75:2649:21:750:-37.6979,0,-176.438 0/1:107:80,27:80:2813:27:926:-42.7925,0,-187.541 0/1:96:62,34:62:2215:34:1210:-75.2061,0,-170.66 0/1:92:53,39:53:1904:39:1385:-95.1404,0,-143.887 0/1:288:116,172:116:4100:172:6138:-452.402,0,-282.318 0/1:108:59,49:59:2107:49:1754:-95.0669,0,-157.152 chr05 14802986 . CCATC TCATT,CCATT 78239.5 PASS AB=0.522643,0.471231;ABP=19.7273,29.9981;AC=23,19;AF=0.547619,0.452381;AN=42;AO=2088,1769;CIGAR=1X3M1X,4M1X;DP=3882;DPB=3882;DPRA=0,3.08717;EPP=4537.04,2184.17;EPPR=13.8677;GTI=0;LEN=5,1;MEANALT=2.85714,2.94737;MQM=53.9919,48.6812;MQMR=49.8;NS=21;NUMALT=2;ODDS=5.58039;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74012,63169;QR=164;RO=5;RPL=0,218;RPP=4537.04,2184.17;RPPR=13.8677;RPR=2088,1551;RUN=1,1;SAF=2088,1769;SAP=4537.04,3844.34;SAR=0,0;SRF=0;SRP=13.8677;SRR=5;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:272:0,169,103:0:0:169,103:5954,3673:-779.237,-294.911,-244.037,-484.677,0,-453.671 1/2:167:0,99,68:0:0:99,68:3536,2425:-475.751,-187.636,-157.834,-288.461,0,-267.991 1/2:224:0,137,87:0:0:137,87:4888,3073:-643.887,-245.633,-204.391,-398.605,0,-372.416 1/2:157:0,79,77:0:0:79,77:2809,2753:-448.617,-219.703,-195.922,-228.996,0,-205.816 1/2:359:0,127,232:0:0:127,232:4504,8302:-1033.86,-666.917,-628.686,-367.298,0,-297.459 1/2:190:0,70,120:0:0:70,120:2483,4308:-499.009,-296.695,-275.623,-202.652,0,-166.528 1/2:335:1,94,235:1:25:94,235:3334,8364:-892.096,-620.878,-594.529,-269.614,0,-200.82 1/1:118:0,117,0:0:0:117,0:4149,0:-373.232,-35.2205,0,-373.232,-35.2205,-373.232 1/2:376:0,324,51:0:0:324,51:11476,1824:-945.066,-142.456,-44.9221,-802.687,0,-787.335 1/2:48:0,43,5:0:0:43,5:1521,180:-138.601,-14.7156,-1.77128,-124.239,0,-122.733 1/1:10:0,9,0:0:0:9,0:312,0:-28.142,-2.70927,0,-28.142,-2.70927,-28.142 1/2:48:0,31,17:0:0:31,17:1095,612:-138.384,-49.2106,-39.8787,-89.5262,0,-84.4087 1/2:199:1,119,75:1:36:119,75:4225,2678:-554.815,-211.093,-178.208,-341.129,0,-321.489 1/2:203:0,68,134:0:0:68,134:2412,4799:-577.237,-380.721,-360.251,-196.622,0,-156.284 1/2:387:2,160,223:2:67:160,223:5684,7968:-1092.86,-630.299,-587.239,-458.121,0,-396.097 1/2:97:1,74,22:1:36:74,22:2618,788:-238.694,-58.3381,-38.9716,-177.726,0,-174.013 1/2:107:0,79,27:0:0:79,27:2770,946:-261.227,-69.0313,-45.2499,-192.154,0,-184.026 1/2:97:0,61,36:0:0:61,36:2170,1283:-276.168,-99.3649,-81.0021,-177.148,0,-166.311 1/2:93:0,52,39:0:0:52,39:1836,1391:-260.832,-111.319,-95.6653,-149.509,0,-137.768 1/2:288:0,117,170:0:0:117,170:4155,6074:-821.257,-482.881,-447.661,-338.453,0,-287.278 1/2:107:0,59,48:0:0:59,48:2081,1728:-281.691,-112.328,-94.5671,-169.682,0,-155.233 chr05 14846987 . C T 34888.6 PASS AB=0.546443;ABP=21.9699;AC=33;AF=0.785714;AN=42;AO=1665;CIGAR=1X;DP=2133;DPB=2133;DPRA=0;EPP=3618.51;EPPR=1019.26;GTI=0;LEN=1;MEANALT=1;MQM=59.9874;MQMR=60;NS=21;NUMALT=1;ODDS=17.9496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59236;QR=16679;RO=468;RPL=1665;RPP=3618.51;RPPR=1019.26;RPR=0;RUN=1;SAF=0;SAP=3618.51;SAR=1665;SRF=0;SRP=1019.26;SRR=468;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:4,119:4:144:119:4197:-364.594,-23.7131,0 1/1:70:0,70:0:0:70:2493:-224.622,-21.0721,0 0/1:96:43,53:43:1514:53:1893:-141.747,0,-107.65 0/1:133:61,72:61:2184:72:2539:-188.72,0,-156.789 0/1:232:88,144:88:3118:144:5123:-391.371,0,-211.006 0/1:131:68,63:68:2414:63:2230:-161.526,0,-178.078 1/1:169:0,169:0:0:169:6076:-546.869,-50.8741,0 0/1:110:51,59:51:1836:59:2105:-156.604,0,-132.407 1/1:151:0,151:0:0:151:5378:-484.151,-45.4555,0 1/1:18:0,18:0:0:18:633:-57.2951,-5.41854,0 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 1/1:32:0,32:0:0:32:1118:-100.923,-9.63296,0 1/1:134:0,134:0:0:134:4773:-429.728,-40.338,0 0/1:200:98,102:98:3497:102:3656:-269.038,0,-254.734 1/1:104:0,104:0:0:104:3721:-335.087,-31.3071,0 1/1:89:0,89:0:0:89:3158:-284.443,-26.7917,0 1/1:91:1,90:1:36:90:3182:-283.005,-23.7955,0 0/1:48:24,24:24:856:24:864:-63.6331,0,-62.9117 0/1:53:20,33:20:720:33:1146:-87.4871,0,-49.1742 1/1:87:2,85:2:72:85:3022:-265.372,-19.3529,0 1/1:53:2,51:2:72:51:1821:-157.332,-9.11787,0 chr05 16187897 . A T 18536.8 PASS AB=0.545936;ABP=13.3843;AC=33;AF=0.785714;AN=42;AO=884;CIGAR=1X;DP=1144;DPB=1144;DPRA=0;EPP=1922.59;EPPR=558.941;GTI=0;LEN=1;MEANALT=1;MQM=59.8541;MQMR=59.9654;NS=21;NUMALT=1;ODDS=3.12064;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31563;QR=9217;RO=260;RPL=0;RPP=1922.59;RPPR=558.941;RPR=884;RUN=1;SAF=884;SAP=1922.59;SAR=0;SRF=260;SRP=567.593;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:2,69:2:72:69:2456:-214.458,-14.5364,0 1/1:25:0,25:0:0:25:896:-80.9522,-7.52575,0 0/1:69:39,30:39:1388:30:1076:-76.3818,0,-104.448 0/1:40:14,26:14:496:26:928:-71.7971,0,-32.9331 0/1:37:16,21:16:576:21:756:-57.2291,0,-41.0369 0/1:50:25,25:25:900:25:900:-66.2695,0,-66.2695 1/1:56:0,56:0:0:56:2003:-180.46,-16.8577,0 0/1:91:43,48:43:1520:48:1719:-127.602,0,-109.699 1/1:132:0,132:0:0:132:4720:-424.951,-39.736,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:67:1,66:1:36:66:2358:-208.878,-16.5707,0 0/1:120:53,67:53:1845:67:2395:-179.655,0,-130.201 1/1:88:0,88:0:0:88:3122:-281.191,-26.4906,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 1/1:34:0,34:0:0:34:1224:-110.467,-10.235,0 0/1:107:51,56:51:1828:56:2007:-148.692,0,-132.591 0/1:46:15,31:15:520:31:1108:-86.168,0,-33.2805 1/1:20:0,20:0:0:20:694:-62.7741,-6.0206,0 1/1:44:0,44:0:0:44:1545:-139.34,-13.2453,0 chr05 16335653 . 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T A 37960.5 PASS AB=0.507995;ABP=3.46169;AC=33;AF=0.785714;AN=42;AO=1399;CIGAR=1X;DP=1806;DPB=1806;DPRA=0;EPP=3.27262;EPPR=11.5678;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9378;MQMR=60;NS=21;NUMALT=1;ODDS=11.3697;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49812;QR=14382;RO=406;RPL=6;RPP=2989.01;RPPR=884.628;RPR=1393;RUN=1;SAF=712;SAP=3.9804;SAR=687;SRF=183;SRP=11.5678;SRR=223;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:2,131:2:72:131:4663:-412.989,-33.2003,0 1/1:109:0,109:0:0:109:3893:-350.563,-32.8123,0 0/1:54:32,22:32:1136:22:792:-55.3501,0,-86.2933 0/1:77:43,34:43:1524:34:1220:-86.9275,0,-114.274 0/1:170:85,85:85:3000:85:2989:-218.066,0,-219.057 0/1:110:64,46:64:2256:46:1621:-113.064,0,-170.188 1/1:109:0,109:0:0:109:3893:-350.477,-32.8123,0 0/1:98:53,45:53:1884:45:1588:-113.707,0,-140.338 1/1:133:0,133:0:0:133:4768:-429.277,-40.037,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:26:1,25:1:36:25:900:-77.7227,-4.22851,0 1/1:81:0,81:0:0:81:2872:-258.688,-24.3834,0 0/1:98:49,49:49:1739:49:1738:-127.203,0,-127.293 1/1:86:1,85:1:36:85:3056:-271.67,-22.2903,0 1/1:66:1,65:1:36:65:2336:-206.901,-16.2697,0 1/1:52:0,52:0:0:52:1840:-165.879,-15.6536,0 0/1:96:43,52:43:1531:52:1857:-138.415,0,-109.125 0/1:105:26,79:26:920:79:2757:-216.756,0,-51.5089 1/1:85:1,84:1:36:84:2995:-266.183,-21.9893,0 1/1:100:1,99:1:32:99:3530:-314.71,-26.9037,0 chr05 16381941 . G A 19142.6 PASS AB=0.609694;ABP=43.9802;AC=32;AF=0.761905;AN=42;AO=897;CIGAR=1X;DP=1061;DPB=1061;DPRA=7.52857;EPP=1950.82;EPPR=359.132;GTI=1;LEN=1;MEANALT=1;MQM=56.7793;MQMR=59.7073;NS=21;NUMALT=1;ODDS=4.47538;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31984;QR=5875;RO=164;RPL=897;RPP=1950.82;RPPR=359.132;RPR=0;RUN=1;SAF=0;SAP=1950.82;SAR=897;SRF=0;SRP=359.132;SRR=164;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:36:0,36:0:0:36:1292:-116.548,-10.8371,0 1/1:25:0,25:0:0:25:896:-80.8191,-7.52575,0 0/1:63:30,33:30:1072:33:1180:-87.5073,0,-77.8276 0/1:26:14,12:14:504:12:428:-31.032,0,-37.8713 0/1:103:28,75:28:1008:75:2665:-208.762,0,-59.924 0/1:20:5,15:5:180:15:532:-42.0734,0,-10.5315 1/1:106:0,106:0:0:106:3757:-336.243,-31.9092,0 0/1:45:15,30:15:531:30:1066:-81.8982,0,-34.5618 1/1:129:1,128:1:36:128:4566:-407.128,-35.2346,0 1/1:5:0,5:0:0:5:180:-16.5048,-1.50515,0 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.0266 1/1:26:0,26:0:0:26:918:-82.3559,-7.82678,0 1/1:79:0,79:0:0:79:2817:-252.833,-23.7814,0 0/1:75:36,39:36:1288:39:1392:-102.939,0,-93.6344 1/1:80:0,80:0:0:80:2848:-256.171,-24.0824,0 1/1:35:0,35:0:0:35:1256:-113.276,-10.5361,0 1/1:28:0,28:0:0:28:1004:-90.653,-8.42884,0 0/1:22:8,14:8:288:14:500:-38.6035,0,-19.6447 0/1:38:17,21:17:608:21:756:-56.8922,0,-43.6129 1/1:81:3,78:3:108:78:2779:-238.84,-14.3083,0 1/1:32:0,32:0:0:32:1152:-103.915,-9.63296,0 chr05 16386101 . T G 5943.3 PASS AB=0.471795;ABP=8.40001;AC=8;AF=0.190476;AN=42;AO=371;CIGAR=1X;DP=1674;DPB=1674;DPRA=1.43934;EPP=808.627;EPPR=2830.27;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.2938;MQMR=59.6882;NS=21;NUMALT=1;ODDS=0.943731;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13193;QR=46598;RO=1302;RPL=371;RPP=808.627;RPPR=2830.27;RPR=0;RUN=1;SAF=371;SAP=808.627;SAR=0;SRF=1302;SRP=2830.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:89:86,3:86:3096:3:108:0,-16.7165,-268.782 0/0:98:98,0:98:3507:0:0:0,-29.5009,-315.824 0/1:51:17,34:17:612:34:1205:-93.399,0,-39.952 0/1:59:28,31:28:1004:31:1116:-82.9862,0,-72.8089 0/1:251:136,114:136:4835:114:4067:-290.453,0,-359.4 0/1:70:42,28:42:1504:28:989:-68.1152,0,-114.582 0/0:87:87,0:87:3120:0:0:0,-26.1896,-280.984 0/1:71:32,39:32:1144:39:1383:-103.375,0,-81.8894 0/0:94:94,0:94:3368:0:0:0,-28.2968,-303.326 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:28:28,0:28:993:0:0:0,-8.42884,-89.6825 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.014 0/1:84:47,37:47:1692:37:1294:-90.6883,0,-127.278 0/0:117:117,0:117:4192:0:0:0,-35.2205,-377.406 0/0:84:84,0:84:3011:0:0:0,-25.2865,-271.218 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.814 0/1:106:50,56:50:1785:56:2008:-148.973,0,-129.019 0/1:88:59,29:59:2116:29:1023:-65.8841,0,-164.209 0/0:100:100,0:100:3570:0:0:0,-30.103,-321.26 0/0:48:48,0:48:1705:0:0:0,-14.4494,-153.725 chr05 16386104 . A G 27582.4 PASS AB=0.521574;ABP=6.19586;AC=34;AF=0.809524;AN=42;AO=1309;CIGAR=1X;DP=1690;DPB=1690;DPRA=0;EPP=2845.47;EPPR=828.17;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.6715;MQMR=59.1816;NS=21;NUMALT=1;ODDS=0.210437;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46671;QR=13625;RO=380;RPL=1309;RPP=2845.47;RPPR=828.17;RPR=0;RUN=1;SAF=1309;SAP=2845.47;SAR=0;SRF=380;SRP=828.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:3,85:3:108:85:3040:-263.748,-16.4155,0 1/1:99:0,99:0:0:99:3560:-320.578,-29.802,0 0/1:49:33,16:33:1188:16:576:-37.4222,0,-92.4758 0/1:59:30,29:30:1065:29:1044:-76.4078,0,-78.3943 0/1:258:122,136:122:4380:136:4833:-357.22,0,-314.621 0/1:69:27,42:27:972:42:1508:-115.244,0,-66.8921 1/1:89:0,89:0:0:89:3147:-283.414,-26.7917,0 0/1:73:42,30:42:1500:30:1072:-74.8824,0,-113.277 1/1:93:0,93:0:0:93:3323:-299.28,-27.9958,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 1/1:60:0,60:0:0:60:2137:-192.588,-18.0618,0 0/1:86:37,49:37:1320:49:1760:-132.793,0,-92.4272 1/1:118:0,118:0:0:118:4232:-380.943,-35.5215,0 1/1:90:0,90:0:0:90:3205:-288.672,-27.0927,0 1/1:71:1,70:1:36:70:2488:-220.488,-17.7749,0 0/1:106:56,50:56:2016:50:1784:-128.931,0,-149.693 0/1:88:29,59:29:1040:59:2107:-163.403,0,-67.419 1/1:101:0,101:0:0:101:3526:-317.367,-30.404,0 1/1:48:0,48:0:0:48:1709:-154.087,-14.4494,0 chr05 16401768 . A G 5290.29 PASS AB=0.471281;ABP=7.87453;AC=10;AF=0.238095;AN=42;AO=327;CIGAR=1X;DP=1589;DPB=1589;DPRA=1.0579;EPP=713.082;EPPR=2743.41;GTI=1;LEN=1;MEANALT=1;MQM=58.9388;MQMR=59.8788;NS=21;NUMALT=1;ODDS=7.40217;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11660;QR=45184;RO=1262;RPL=0;RPP=713.082;RPPR=2743.41;RPR=327;RUN=1;SAF=0;SAP=713.082;SAR=327;SRF=0;SRP=2743.41;SRR=1262;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:133,0:133:4767:0:0:0,-40.037,-429.141 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.873 0/1:70:32,38:32:1137:38:1351:-100.676,0,-81.5649 0/1:112:54,58:54:1932:58:2071:-152.829,0,-140.441 0/1:190:105,85:105:3772:85:3034:-216.052,0,-282.482 0/1:127:71,56:71:2540:56:1980:-140.103,0,-190.619 0/0:95:93,2:93:3336:2:72:0,-21.7611,-293.619 0/1:58:36,22:36:1292:22:788:-53.7617,0,-99.0882 0/0:122:122,0:122:4376:0:0:0,-36.7257,-394.007 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 1/1:5:0,5:0:0:5:176:-16.1671,-1.50515,0 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.4149 0/0:99:99,0:99:3543:0:0:0,-29.802,-319.077 0/1:84:39,45:39:1396:45:1612:-119.996,0,-100.653 0/0:108:108,0:108:3864:0:0:0,-32.5112,-347.956 0/0:70:70,0:70:2488:0:0:0,-21.0721,-224.154 0/0:88:88,0:88:3133:0:0:0,-26.4906,-282.185 0/1:21:11,10:11:392:10:360:-26.4227,0,-29.2984 0/1:17:11,6:11:396:6:216:-14.673,0,-30.8652 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.549 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7595 chr05 16420394 . A T 40020.1 PASS AB=0.389281;ABP=153.997;AC=33;AF=0.785714;AN=42;AO=1944;CIGAR=1X;DP=2820;DPB=2820;DPRA=0;EPP=4224.35;EPPR=1896.54;GTI=2;LEN=1;MEANALT=1;MQM=54.1337;MQMR=54.3927;NS=21;NUMALT=1;ODDS=1.60968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69504;QR=31273;RO=876;RPL=2;RPP=4207;RPPR=55.8495;RPR=1942;RUN=1;SAF=2;SAP=4207;SAR=1942;SRF=366;SRP=54.4117;SRR=510;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:2,117:2:72:117:4193:-369.768,-29.0157,0 1/1:163:0,163:0:0:163:5860:-525.35,-49.0679,0 0/1:90:52,38:52:1872:38:1349:-94.4037,0,-140.985 0/1:212:121,91:121:4316:91:3245:-227.722,0,-322.489 0/1:367:236,131:236:8430:131:4627:-303.58,0,-642.715 0/1:155:99,56:99:3536:56:2008:-133.49,0,-271.018 1/1:197:0,197:0:0:197:7060:-631.57,-59.3029,0 0/1:161:106,55:106:3781:55:1980:-129.49,0,-290.816 1/1:160:0,160:0:0:160:5731:-515.068,-48.1648,0 1/1:12:0,12:0:0:12:428:-38.6192,-3.61236,0 0/1:10:6,4:6:216:4:144:-10.2698,0,-16.7623 1/1:24:0,24:0:0:24:860:-77.6103,-7.22472,0 1/1:121:3,118:3:108:118:4236:-370.575,-26.3788,0 0/1:129:88,41:88:3122:41:1464:-93.0862,0,-239.823 1/1:158:0,158:0:0:158:5676:-510.12,-47.5627,0 1/1:109:0,109:0:0:109:3901:-350.867,-32.8123,0 1/1:110:1,109:1:36:109:3896:-346.275,-29.515,0 0/1:162:94,68:94:3348:68:2440:-170.144,0,-251.785 0/1:132:64,68:64:2292:68:2421:-177.945,0,-165.754 1/1:146:3,143:3:108:143:5065:-443.708,-33.9339,0 1/1:83:1,82:1:36:82:2920:-258.4,-21.3872,0 chr05 16420409 . A G 20262.5 PASS AB=0.611421;ABP=157.856;AC=9;AF=0.214286;AN=42;AO=888;CIGAR=1X;DP=2841;DPB=2841;DPRA=1.24509;EPP=1922.6;EPPR=4233.04;GTI=2;LEN=1;MEANALT=1.07143;MQM=54.5923;MQMR=54.1363;NS=21;NUMALT=1;ODDS=2.49941;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31295;QR=70016;RO=1952;RPL=361;RPP=70.3944;RPPR=4207.05;RPR=527;RUN=1;SAF=360;SAP=72.0279;SAR=528;SRF=3;SRP=4215.71;SRR=1949;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:120:118,2:118:4236:2:72:0,-29.3168,-373.518 0/0:161:161,0:161:5769:0:0:0,-48.4658,-517.206 0/1:90:38,52:38:1364:52:1843:-138.462,0,-95.7539 0/1:215:92,123:92:3278:123:4353:-325.616,0,-228.661 0/1:374:136,237:136:4884:237:8353:-634.613,0,-324.498 0/1:158:58,100:58:2080:100:3524:-269.133,0,-139.047 0/0:192:192,0:192:6896:0:0:0,-57.7978,-617.004 0/1:164:54,110:54:1932:110:3876:-298.671,0,-124.282 0/0:159:159,0:159:5716:0:0:0,-47.8638,-513.701 0/0:12:12,0:12:432:0:0:0,-3.61236,-38.9789 0/1:10:4,6:4:144:6:216:-16.7623,0,-10.2698 0/0:24:24,0:24:864:0:0:0,-7.22472,-77.9683 0/0:125:122,3:122:4384:3:108:0,-27.5829,-383.392 0/1:130:42,88:42:1504:88:3126:-239.985,0,-96.368 0/0:156:156,0:156:5585:0:0:0,-46.9607,-502.065 0/0:110:110,0:110:3937:0:0:0,-33.1133,-354.053 0/0:111:110,1:110:3940:1:36:0,-29.8161,-350.46 0/1:165:66,99:66:2372:99:3441:-259.395,0,-163.148 0/1:130:67,63:67:2404:63:2203:-158.499,0,-177.035 0/0:151:148,3:148:5320:3:108:0,-35.4391,-465.734 0/0:84:83,1:83:2975:1:36:0,-21.6882,-263.317 chr05 16420410 . CG TA 40492.7 PASS AB=0.389959;ABP=155.939;AC=33;AF=0.785714;AN=42;AO=1980;CIGAR=2X;DP=2880;DPB=2880;DPRA=0;EPP=4267.85;EPPR=1937.8;GTI=2;LEN=2;MEANALT=1.2381;MQM=54.097;MQMR=54.5777;NS=21;NUMALT=1;ODDS=2.27762;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70411;QR=31268;RO=895;RPL=4;RPP=4267.85;RPPR=69.0643;RPR=1976;RUN=1;SAF=0;SAP=4302.53;SAR=1980;SRF=364;SRP=70.6753;SRR=531;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:2,116:2:72:116:4115:-362.828,-29.074,0 1/1:163:0,163:0:0:163:5823:-522.144,-49.0679,0 0/1:89:51,38:51:1821:38:1368:-96.4136,0,-136.746 0/1:219:125,94:125:4411:94:3342:-233.331,0,-329.665 0/1:379:242,137:242:8366:137:4871:-322.047,0,-634.103 0/1:161:101,60:101:3541:60:2148:-144.255,0,-269.782 1/1:202:0,202:0:0:202:7154:-639.955,-60.8081,0 0/1:168:111,56:111:3852:56:1984:-127.694,0,-295.245 1/1:162:0,162:0:0:162:5764:-518.137,-48.7669,0 1/1:12:0,12:0:0:12:422:-38.2282,-3.61236,0 0/1:9:5,4:5:180:4:142:-10.3895,0,-13.8248 1/1:24:0,24:0:0:24:858:-77.4318,-7.22472,0 1/1:125:3,122:3:108:122:4319:-377.475,-27.5829,0 0/1:130:86,43:86:3011:43:1544:-99.9133,0,-230.279 1/1:160:0,159:0:0:159:5667:-509.137,-47.8638,0 1/1:110:0,110:0:0:110:3911:-351.722,-33.1133,0 1/1:112:1,110:1:36:110:3920:-348.112,-30.1758,0 0/1:168:100,68:100:3489:68:2400:-164.97,0,-262.764 0/1:131:64,67:64:2237:67:2386:-175.142,0,-161.497 1/1:154:3,151:3:108:151:5340:-468.251,-36.3422,0 1/1:83:1,82:1:36:82:2933:-259.556,-21.3872,0 chr05 16839818 . TGC AGT,TGT 57841.6 PASS AB=0.614723,0.383365;ABP=122.587,126.606;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2266,405;CIGAR=1X1M1X,2M1X;DP=2679;DPB=2679;DPRA=0,1.04152;EPP=4768.46,865.171;EPPR=5.18177;GTI=1;LEN=3,1;MEANALT=1.95238,2.30769;MQM=59.346,59.8864;MQMR=60;NS=21;NUMALT=2;ODDS=14.992;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=79575,14397;QR=28;RO=1;RPL=2248,403;RPP=4768.46,865.171;RPPR=5.18177;RPR=18,2;RUN=1,1;SAF=0,0;SAP=4923.57,882.457;SAR=2266,405;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:154:0,151,2:0:0:151,2:5290,72:-475.8,-45.4555,0,-469.925,-39.5807,-469.323 1/1:75:0,75,0:0:0:75,0:2657,0:-239.374,-22.5773,0,-239.374,-22.5773,-239.374 1/2:105:0,56,49:0:0:56,49:1976,1738:-302.815,-141.926,-125.069,-161.242,0,-146.492 1/2:162:0,119,43:0:0:119,43:4141,1544:-462.899,-126.308,-90.4853,-336.947,0,-324.003 1/2:267:1,141,125:1:28:141,125:4966,4432:-762.24,-358.909,-318.681,-401.487,0,-366.077 1/2:90:0,65,25:0:0:65,25:2269,873:-255.908,-71.3588,-51.7918,-184.899,0,-177.373 1/1:261:0,261,0:0:0:261,0:9192,0:-826.007,-78.5688,0,-826.007,-78.5688,-826.007 1/2:126:0,81,44:0:0:81,44:2792,1572:-354.837,-128.168,-103.784,-226.664,0,-213.419 1/1:232:0,229,1:0:0:229,1:8027,36:-722.011,-68.9359,0,-719.073,-65.9818,-718.772 1/2:16:0,14,2:0:0:14,2:487,72:-45.8191,-6.23466,-2.02024,-39.9428,0,-39.3407 1/2:11:0,3,8:0:0:3,8:106,288:-32.4902,-23.8592,-22.9561,-8.98601,0,-6.57777 1/1:34:0,34,0:0:0:34,0:1198,0:-107.865,-10.235,0,-107.865,-10.235,-107.865 1/1:252:0,251,1:0:0:251,1:8801,32:-791.634,-75.5585,0,-789.056,-72.6602,-788.754 1/2:143:0,86,57:0:0:86,57:2969,2040:-407.569,-166.713,-140.825,-241.208,0,-224.05 1/1:199:0,197,0:0:0:197,0:7004,0:-629.932,-59.3029,0,-629.932,-59.3029,-629.932 1/1:124:0,123,0:0:0:123,0:4328,0:-389.208,-37.0267,0,-389.208,-37.0267,-389.208 1/1:142:0,142,0:0:0:142,0:4981,0:-447.908,-42.7463,0,-447.908,-42.7463,-447.908 1/2:70:0,40,30:0:0:40,30:1410,1065:-201.872,-87.1289,-75.0877,-115.097,0,-106.066 1/2:56:0,38,18:0:0:38,18:1337,633:-160.707,-51.8765,-40.4374,-109.182,0,-103.763 1/1:130:0,130,0:0:0:130,0:4592,0:-413.306,-39.1339,0,-413.306,-39.1339,-413.306 1/1:30:0,30,0:0:0:30,0:1052,0:-94.989,-9.0309,0,-94.989,-9.0309,-94.989 chr05 17001740 . CGCC CGCT,TGCT 43761.2 PASS AB=0.48226,0.515112;ABP=5.09046,4.51977;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1634,394;CIGAR=3M1X,1X2M1X;DP=2037;DPB=2037.25;DPRA=0,0.766763;EPP=3464.87,832.711;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.85714,2.27273;MQM=59.7222,54.066;MQMR=60;NS=21;NUMALT=2;ODDS=19.8959;PAIRED=0,0;PAIREDR=0;PAO=0.5,0;PQA=18,0;PQR=18;PRO=0.5;QA=57283,13800;QR=30;RO=1;RPL=1624,391;RPP=3464.87,832.711;RPPR=5.18177;RPR=10,3;RUN=1,1;SAF=0,0;SAP=3551.2,858.57;SAR=1634,394;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:163:0,163,0:0:0:163,0:5710,0:-513.981,-49.0679,0,-513.981,-49.0679,-513.981 1/1:91:0,91,0:0:0:91,0:3151,0:-283.597,-27.3937,0,-283.597,-27.3937,-283.597 1/2:61:0,32,29:0:0:32,29:1107,1009:-172.193,-82.2444,-72.6115,-90.2953,0,-81.5654 1/2:97:0,41,56:0:0:41,56:1419,1938:-272.688,-157.383,-145.041,-115.65,0,-98.7927 1/2:166:0,67,99:0:0:67,99:2365,3502:-477.025,-284.459,-264.29,-192.918,0,-163.116 1/2:111:0,53,57:0:0:53,57:1820,1984:-308.617,-160.848,-144.893,-147.851,0,-130.692 1/1:125:0,123,1:0:0:123,1:4284,36:-385.399,-37.0267,0,-382.47,-34.034,-382.169 1/2:67:0,45,22:0:0:45,22:1574,769:-190.867,-62.821,-49.2746,-128.396,0,-121.773 1/1:319:0,317,0:0:0:317,0:11218,0:-1008.94,-95.4265,0,-1008.94,-95.4265,-1008.94 1/1:12:0,12,0:0:0:12,0:387,0:-35.1287,-3.61236,0,-35.1287,-3.61236,-35.1287 1/2:11:0,3,8:0:0:3,8:93,280:-30.5316,-23.0785,-22.1754,-7.77364,0,-5.3654 1/1:20:0,20,0:0:0:20,0:697,0:-63.0425,-6.0206,0,-63.0425,-6.0206,-63.0425 1/1:84:0,82,0:0:0:82,0:2901,0:-260.949,-24.6845,0,-260.949,-24.6845,-260.949 1/2:115:0,64,51:0:0:64,51:2247,1805:-329.91,-147.046,-127.78,-183.216,0,-167.863 1/1:130:1,129,0:1:30:129,0:4564,0:-407.903,-36.1343,0,-408.204,-38.8329,-410.603 1/1:78:0,78,0:0:0:78,0:2766,0:-249.115,-23.4803,0,-249.115,-23.4803,-249.115 1/1:74:0,73,0:0:0:73,0:2564,0:-230.645,-21.9752,0,-230.645,-21.9752,-230.645 1/2:44:0,16,27:0:0:16,27:561,946:-122.119,-76.4668,-71.6503,-45.7016,0,-37.5738 1/2:89:0,46,43:0:0:46,43:1532,1495:-245.68,-121.715,-107.868,-124.305,0,-111.36 1/1:134:0,134,0:0:0:134,0:4726,0:-425.453,-40.338,0,-425.453,-40.338,-425.453 1/1:46:0,45,1:0:0:45,1:1597,36:-143.637,-13.5464,0,-140.735,-10.2888,-140.434 chr05 17216478 . AAAG GAAA,GAAG 57961.3 PASS AB=0.534433,0.461688;ABP=13.6276,16.155;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1809,482;CIGAR=1X2M1X,1X3M;DP=2301;DPB=2301;DPRA=0,1.22978;EPP=3931.2,1049.66;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.95238,2.54545;MQM=48.5218,54.7552;MQMR=0;NS=21;NUMALT=2;ODDS=19.8964;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63490,16998;QR=0;RO=0;RPL=711,208;RPP=182.789,22.6346;RPPR=0;RPR=1098,274;RUN=1,1;SAF=711,208;SAP=182.789,22.6346;SAR=1098,274;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106,0:0:0:106,0:3701,0:-315.167,-31.9092,0,-315.167,-31.9092,-315.167 1/1:68:0,68,0:0:0:68,0:2392,0:-185.653,-20.47,0,-185.653,-20.47,-185.653 1/2:71:0,49,21:0:0:49,21:1737,743:-191.536,-60.4105,-45.66,-131.169,0,-124.847 1/2:130:0,61,69:0:0:61,69:2125,2425:-363.031,-197.537,-179.175,-165.836,0,-145.065 1/2:166:0,98,68:0:0:98,68:3436,2411:-455.193,-196.015,-166.514,-259.52,0,-239.05 1/2:79:0,36,42:0:0:36,42:1274,1500:-215.016,-121.662,-110.825,-93.4762,0,-80.8329 1/1:147:0,145,1:0:0:145,1:5111,36:-411.979,-43.6494,0,-409.041,-40.7119,-408.74 1/2:155:0,81,74:0:0:81,74:2830,2631:-422.606,-213.991,-189.607,-208.953,0,-186.677 1/1:181:0,181,0:0:0:181,0:6372,0:-556.285,-54.4864,0,-556.285,-54.4864,-556.285 1/1:17:0,17,0:0:0:17,0:604,0:-49.0889,-5.11751,0,-49.0889,-5.11751,-49.0889 1/2:12:0,7,5:0:0:7,5:250,180:-31.6948,-14.8754,-12.7682,-17.1526,0,-15.6474 1/1:53:0,53,0:0:0:53,0:1872,0:-161.157,-15.9546,0,-161.157,-15.9546,-161.157 1/1:122:0,119,0:0:0:119,0:4113,0:-350.79,-35.8226,0,-350.79,-35.8226,-350.79 1/2:119:0,53,65:0:0:53,65:1880,2285:-331.369,-185.085,-169.13,-146.396,0,-126.829 1/1:168:0,168,0:0:0:168,0:5908,0:-507.959,-50.573,0,-507.959,-50.573,-507.959 1/1:67:0,67,0:0:0:67,0:2359,0:-209.585,-20.169,0,-209.585,-20.169,-209.585 1/1:72:0,71,0:0:0:71,0:2479,0:-219.069,-21.3731,0,-219.069,-21.3731,-219.069 1/2:164:0,85,79:0:0:85,79:3010,2760:-443.677,-223.876,-198.289,-220.136,0,-196.355 1/2:135:0,81,53:0:0:81,53:2833,1847:-364.975,-149.61,-125.227,-215.453,0,-199.498 1/1:145:0,139,5:0:0:139,5:4867,180:-401.54,-41.8432,0,-386.993,-27.2504,-385.488 1/1:124:0,124,0:0:0:124,0:4337,0:-360.277,-37.3277,0,-360.277,-37.3277,-360.277 chr05 17892057 . G A 6173.57 PASS AB=0.466907;ABP=10.9149;AC=9;AF=0.214286;AN=42;AO=392;CIGAR=1X;DP=1621;DPB=1621;DPRA=1.32466;EPP=854.227;EPPR=2667.41;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9813;NS=21;NUMALT=1;ODDS=3.63439;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13842;QR=43731;RO=1227;RPL=0;RPP=854.227;RPPR=2667.41;RPR=392;RUN=1;SAF=392;SAP=854.227;SAR=0;SRF=1227;SRP=2667.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:61:61,0:61:2183:0:0:0,-18.3628,-196.7 0/0:57:57,0:57:2021:0:0:0,-17.1587,-182.161 0/1:67:30,37:30:1063:37:1316:-98.5728,0,-75.8118 0/1:128:63,65:63:2221:65:2270:-166.029,0,-161.622 0/1:204:110,94:110:3916:94:3310:-236.708,0,-291.222 0/1:62:27,34:27:964:34:1201:-89.6712,0,-68.3543 0/0:139:138,0:138:4935:0:0:0,-41.5421,-443.94 0/1:95:53,42:53:1908:42:1481:-104.985,0,-143.4 0/0:75:75,0:75:2700:0:0:0,-22.5772,-243.243 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:17:7,10:7:252:10:356:-27.2637,0,-17.9114 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.864 0/0:110:110,0:110:3932:0:0:0,-33.1133,-354.073 0/1:84:45,39:45:1612:39:1384:-99.5712,0,-120.084 0/0:102:101,1:101:3568:1:36:0,-27.1068,-317.728 0/0:57:57,0:57:2021:0:0:0,-17.1587,-182.161 0/0:53:53,0:53:1875:0:0:0,-15.9546,-169.028 0/1:76:48,28:48:1711:28:996:-67.0766,0,-131.397 0/1:98:59,39:59:2090:39:1388:-95.718,0,-158.868 0/0:57:55,2:55:1972:2:68:0,-10.701,-171.297 0/0:45:44,1:44:1580:1:36:0,-9.94807,-138.893 chr05 17896948 . CA CG,TG 31231.1 PASS AB=0.780439,0.219561;ABP=345.249,345.249;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1157,112;CIGAR=1M1X,2X;DP=1271;DPB=1271.5;DPRA=0,1.18474;EPP=1299.06,246.215;EPPR=0;GTI=2;LEN=1,2;MEANALT=1.52381,2;MQM=59.9136,59.9911;MQMR=0;NS=21;NUMALT=2;ODDS=1.6074;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=41047,3949;QR=0;RO=0;RPL=0,0;RPP=2515.4,246.215;RPPR=0;RPR=1157,112;RUN=1,1;SAF=994,112;SAP=1299.06,246.215;SAR=163,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,48,0:0:0:48,0:1655,0:-149.231,-14.4494,0,-149.231,-14.4494,-149.231 1/1:18:0,18,0:0:0:18,0:636,0:-57.568,-5.41854,0,-57.568,-5.41854,-57.568 1/2:10:0,6,4:0:0:6,4:203,144:-28.481,-12.1095,-10.3033,-16.7222,0,-15.518 1/2:21:0,16,5:0:0:16,5:568,178:-61.1433,-14.8635,-10.047,-46.6354,0,-45.1302 1/2:44:0,29,15:0:0:29,15:1009,525:-125.103,-43.0627,-34.3329,-82.3891,0,-77.8736 1/2:17:0,11,6:0:0:11,6:396,214:-50.1153,-17.8016,-14.4903,-32.6714,0,-30.8652 1/1:17:0,17,0:0:0:17,0:604,0:-54.6906,-5.11751,0,-54.6906,-5.11751,-54.6906 1/2:29:0,14,15:0:0:14,15:500,519:-83.29,-42.5199,-38.3055,-41.1218,0,-36.6063 1/1:67:0,67,0:0:0:67,0:2360,0:-212.657,-20.169,0,-212.657,-20.169,-212.657 1/1:137:0,136,0:0:0:136,0:4831,0:-434.498,-40.9401,0,-434.498,-40.9401,-434.498 1/1:97:0,95,2:0:0:95,2:3389,72:-304.82,-28.5979,0,-298.945,-22.3632,-298.343 1/1:186:0,185,0:0:0:185,0:6616,0:-595.27,-55.6906,0,-595.27,-55.6906,-595.27 1/1:42:0,42,0:0:0:42,0:1480,0:-133.494,-12.6433,0,-133.494,-12.6433,-133.494 1/2:25:0,19,6:0:0:19,6:680,216:-73.4346,-17.9843,-12.2648,-55.8096,0,-54.0034 1/1:47:0,47,0:0:0:47,0:1668,0:-150.407,-14.1484,0,-150.407,-14.1484,-150.407 1/1:32:0,32,0:0:0:32,0:1124,0:-101.468,-9.63296,0,-101.468,-9.63296,-101.468 1/1:21:0,21,0:0:0:21,0:719,0:-65.0248,-6.32163,0,-65.0248,-6.32163,-65.0248 1/2:288:0,246,42:0:0:246,42:8800,1484:-838.788,-121.209,-47.1554,-717.933,0,-705.289 1/2:67:0,50,17:0:0:50,17:1770,597:-193.119,-48.9397,-33.8882,-144.531,0,-139.414 1/1:31:0,31,0:0:0:31,0:1079,0:-97.4177,-9.33193,0,-97.4177,-9.33193,-97.4177 1/1:27:0,27,0:0:0:27,0:960,0:-86.5702,-8.12781,0,-86.5702,-8.12781,-86.5702 chr05 17907807 . GTAGGGGAG ATGGGGAAG,ATAGGGGAAG 38329.5 PASS AB=0.546632,0.446891;ABP=17.5918,21.9235;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1506,349;CIGAR=1X1M1X3M1X2M,1X6M1I2M;DP=1869;DPB=1908.56;DPRA=0,1.05638;EPP=3273.25,760.854;EPPR=0;GTI=0;LEN=9,10;MEANALT=2.2381,2.75;MQM=43.8181,59.4871;MQMR=0;NS=21;NUMALT=2;ODDS=12.4595;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=0;QA=52782,12212;QR=0;RO=0;RPL=1506,349;RPP=3273.25,760.854;RPPR=0;RPR=0,0;RUN=1,1;SAF=1506,349;SAP=3273.25,760.854;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:165:0,162,2:0:0:162,2:5691,72:-502.909,-48.7669,0,-497.034,-42.892,-496.432 1/1:72:0,71,0:0:0:71,0:2472,0:-218.42,-21.3731,0,-218.42,-21.3731,-218.42 1/2:74:0,39,34:0:0:39,34:1368,1184:-205.863,-96.402,-84.6618,-109.592,0,-99.3573 1/2:61:0,31,29:0:0:31,29:1079,1006:-167.82,-81.7348,-72.4028,-86.0615,0,-77.3316 1/2:180:0,106,72:0:0:106,72:3745,2532:-505.529,-206.076,-174.167,-299.452,0,-277.778 1/2:71:0,35,36:0:0:35,36:1229,1272:-201.808,-103.887,-93.3512,-98.212,0,-87.3749 1/1:157:0,157,0:0:0:157,0:5446,0:-480.198,-47.2617,0,-480.198,-47.2617,-480.198 1/2:140:0,83,57:0:0:83,57:2945,1989:-396.202,-162.1,-137.115,-234.45,0,-217.292 1/1:123:0,122,0:0:0:122,0:4286,0:-381.372,-36.7257,0,-381.372,-36.7257,-381.372 1/1:55:0,55,0:0:0:55,0:1933,0:-170.659,-16.5567,0,-170.659,-16.5567,-170.659 1/2:16:0,10,6:0:0:10,6:354,203:-44.7377,-16.795,-13.7847,-28.283,0,-26.4768 1/1:54:0,54,0:0:0:54,0:1901,0:-167.957,-16.2556,0,-167.957,-16.2556,-167.957 1/1:51:0,51,0:0:0:51,0:1803,0:-159.964,-15.3525,0,-159.964,-15.3525,-159.964 1/2:63:0,27,35:0:0:27,35:938,1232:-174.848,-100.076,-91.9482,-74.7591,0,-64.223 1/1:149:0,148,0:0:0:148,0:5193,0:-458.654,-44.5524,0,-458.654,-44.5524,-458.654 1/1:64:0,63,0:0:0:63,0:2211,0:-196.22,-18.9649,0,-196.22,-18.9649,-196.22 1/1:105:0,102,1:0:0:102,1:3578,36:-318.856,-30.7051,0,-315.919,-27.7719,-315.618 1/2:131:0,69,62:0:0:69,62:2409,2159:-367.303,-175.832,-155.061,-191.816,0,-173.153 1/2:36:0,22,14:0:0:22,14:775,491:-102.084,-40.299,-33.6763,-62.1337,0,-57.9193 1/1:51:0,49,1:0:0:49,1:1691,36:-148.432,-14.7505,0,-145.494,-11.8022,-145.193 1/1:51:0,50,0:0:0:50,0:1735,0:-153.134,-15.0515,0,-153.134,-15.0515,-153.134 chr05 17907828 . A G 30034 PASS AB=0.532468;ABP=10.0605;AC=33;AF=0.785714;AN=42;AO=1455;CIGAR=1X;DP=1823;DPB=1823;DPRA=0;EPP=3162.5;EPPR=797.769;GTI=0;LEN=1;MEANALT=1.09524;MQM=43.8337;MQMR=59.459;NS=21;NUMALT=1;ODDS=18.1121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51912;QR=13037;RO=366;RPL=1455;RPP=3162.5;RPPR=797.769;RPR=0;RUN=1;SAF=1455;SAP=3162.5;SAR=0;SRF=366;SRP=797.769;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:156:4,152:4:144:152:5446:-466.41,-33.6554,0 1/1:71:0,71:0:0:71:2524:-222.768,-21.3731,0 0/1:76:37,39:37:1320:39:1383:-99.8814,0,-96.2008 0/1:57:30,27:30:1080:27:949:-66.6655,0,-80.3224 0/1:178:74,104:74:2644:104:3740:-276.98,0,-184.541 0/1:72:37,35:37:1312:35:1248:-88.6713,0,-96.7075 1/1:152:0,152:0:0:152:5396:-473.719,-45.7566,0 0/1:142:61,81:61:2148:81:2882:-210.954,0,-150.839 1/1:117:0,116:0:0:116:4144:-368.508,-34.9195,0 1/1:53:0,53:0:0:53:1896:-167.286,-15.9546,0 0/1:16:6,10:6:216:10:360:-26.6621,0,-14.974 1/1:54:0,54:0:0:54:1921:-169.504,-16.2556,0 1/1:46:0,46:0:0:46:1637:-145.136,-13.8474,0 0/1:61:36,25:36:1292:25:900:-61.0627,0,-98.1786 1/1:137:0,136:0:0:136:4869:-428.132,-40.9401,0 1/1:65:0,65:0:0:65:2311:-205.091,-19.567,0 1/1:101:1,100:1:32:100:3565:-314.273,-27.2047,0 0/1:133:65,68:65:2328:68:2405:-171.832,0,-169.669 0/1:35:14,21:14:485:21:756:-56.1478,0,-33.4302 1/1:50:1,49:1:36:49:1748:-148.141,-11.4532,0 1/1:51:0,51:0:0:51:1832:-161.241,-15.3525,0 chr05 17960334 . A G 37551.6 PASS AB=0.492077;ABP=3.62963;AC=33;AF=0.785714;AN=42;AO=1796;CIGAR=1X;DP=2377;DPB=2377;DPRA=0;EPP=3902.97;EPPR=1260.29;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9677;MQMR=60;NS=21;NUMALT=1;ODDS=5.38921;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63457;QR=20695;RO=579;RPL=5;RPP=3859.67;RPPR=1251.62;RPR=1791;RUN=1;SAF=5;SAP=3859.67;SAR=1791;SRF=1;SRP=1251.62;SRR=578;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,96:0:0:96:3391:-304.959,-28.8989,0 1/1:96:0,95:0:0:95:3315:-298.205,-28.5979,0 0/1:121:60,61:60:2152:61:2165:-158.691,0,-157.523 0/1:208:118,90:118:4223:90:3181:-223.898,0,-317.635 0/1:169:85,84:85:3033:84:2965:-216.207,0,-222.325 0/1:222:114,108:114:4087:108:3843:-279.239,0,-301.186 1/1:140:0,140:0:0:140:4982:-448.53,-42.1442,0 0/1:84:46,38:46:1634:38:1368:-98.1343,0,-122.061 1/1:132:0,132:0:0:132:4698:-422.979,-39.736,0 1/1:21:0,21:0:0:21:739:-66.8324,-6.32163,0 0/1:13:3,10:3:108:10:360:-28.8309,0,-6.16178 1/1:12:0,12:0:0:12:417:-37.8602,-3.61236,0 1/1:130:1,129:1:36:129:4541:-405.26,-35.5356,0 0/1:174:84,90:84:2999:90:3211:-236.834,0,-217.762 1/1:158:0,158:0:0:158:5597:-503.856,-47.5627,0 1/1:154:0,154:0:0:154:5405:-486.581,-46.3586,0 1/1:143:0,143:0:0:143:5041:-453.838,-43.0473,0 0/1:73:45,28:45:1595:28:987:-67.1678,0,-121.864 0/1:72:22,50:22:792:50:1724:-133.765,0,-49.9315 1/1:116:1,115:1:36:115:4044:-360.537,-31.3212,0 1/1:42:0,42:0:0:42:1483:-133.764,-12.6433,0 chr05 17960359 . C T 39087.7 PASS AB=0.494323;ABP=3.33081;AC=33;AF=0.785714;AN=42;AO=1815;CIGAR=1X;DP=2395;DPB=2395;DPRA=0;EPP=3815.02;EPPR=1236.54;GTI=0;LEN=1;MEANALT=1;MQM=59.9675;MQMR=60;NS=21;NUMALT=1;ODDS=7.14945;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64849;QR=20725;RO=580;RPL=1800;RPP=3815.02;RPPR=1236.54;RPR=15;RUN=1;SAF=0;SAP=3944.23;SAR=1815;SRF=0;SRP=1262.46;SRR=580;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,97:0:0:97:3449:-310.351,-29.1999,0 1/1:95:0,95:0:0:95:3416:-307.653,-28.5979,0 0/1:119:60,59:60:2156:59:2120:-155.246,0,-158.484 0/1:215:121,94:121:4323:94:3334:-235.555,0,-324.525 0/1:166:83,83:83:2945:83:2980:-218.461,0,-215.313 0/1:225:116,109:116:4145:109:3889:-282.472,0,-305.501 1/1:140:0,140:0:0:140:5020:-451.946,-42.1442,0 0/1:83:44,39:44:1584:39:1366:-98.2489,0,-117.866 1/1:134:0,134:0:0:134:4793:-431.526,-40.338,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 0/1:13:3,10:3:108:10:360:-28.8309,0,-6.16178 1/1:14:0,14:0:0:14:481:-43.6145,-4.21442,0 1/1:132:0,132:0:0:132:4704:-423.518,-39.736,0 0/1:176:86,90:86:3071:90:3205:-235.691,0,-223.637 1/1:163:0,163:0:0:163:5829:-524.721,-49.0679,0 1/1:157:0,157:0:0:157:5596:-503.761,-47.2617,0 1/1:141:0,141:0:0:141:5062:-455.723,-42.4452,0 0/1:73:43,30:43:1533:30:1076:-75.1777,0,-116.286 0/1:75:23,52:23:824:52:1864:-145.462,0,-51.9061 1/1:115:1,114:1:36:114:4077:-363.247,-31.0202,0 1/1:41:0,41:0:0:41:1472:-132.776,-12.3422,0 chr05 17980797 . C T 3937.12 PASS AB=0.526786;ABP=5.80219;AC=9;AF=0.214286;AN=42;AO=237;CIGAR=1X;DP=1019;DPB=1019;DPRA=0.975741;EPP=517.649;EPPR=1692.43;GTI=0;LEN=1;MEANALT=1;MQM=59.9578;MQMR=60;NS=21;NUMALT=1;ODDS=8.72839;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8432;QR=28017;RO=782;RPL=237;RPP=517.649;RPPR=1692.43;RPR=0;RUN=1;SAF=0;SAP=517.649;SAR=237;SRF=0;SRP=1701.1;SRR=782;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:67,0:67:2389:0:0:0,-20.169,-215.266 0/0:55:55,0:55:1976:0:0:0,-16.5566,-178.115 0/1:16:7,9:7:244:9:309:-23.3242,0,-17.4829 0/1:41:13,28:13:468:28:1004:-78.3199,0,-30.1174 0/1:140:76,64:76:2732:64:2262:-161.696,0,-203.978 0/1:56:24,32:24:856:32:1136:-85.6907,0,-60.5034 0/0:85:85,0:85:3028:0:0:0,-25.5875,-272.752 0/1:60:29,31:29:1044:31:1116:-82.6899,0,-76.213 0/0:86:86,0:86:3084:0:0:0,-25.8886,-277.788 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.759 0/1:32:15,17:15:540:17:612:-45.7805,0,-39.3036 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.73 0/0:34:34,0:34:1201:0:0:0,-10.235,-108.394 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 0/1:63:25,38:25:900:38:1345:-102.383,0,-62.3561 0/1:32:18,14:18:648:14:504:-36.0651,0,-49.0189 0/0:31:30,1:30:1080:1:36:0,-5.73365,-93.915 0/0:44:44,0:44:1571:0:0:0,-13.2453,-141.681 chr05 18107141 . TG CA 10120.4 PASS AB=0.547507;ABP=23.8487;AC=9;AF=0.214286;AN=42;AO=584;CIGAR=2X;DP=2236;DPB=2236;DPRA=1.44088;EPP=1219.57;EPPR=3452.34;GTI=1;LEN=2;MEANALT=1.36364;MQM=59.9161;MQMR=59.9964;NS=21;NUMALT=1;ODDS=0.508029;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20618;QR=58158;RO=1644;RPL=578;RPP=1219.57;RPPR=3452.34;RPR=6;RUN=1;SAF=0;SAP=1271.15;SAR=584;SRF=0;SRP=3572.91;SRR=1644;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:168:166,1:166:5913:1:25:0,-48.0771,-529.726 0/0:82:82,0:82:2918:0:0:0,-24.6845,-262.855 0/1:112:61,51:61:2143:51:1832:-131.446,0,-159.419 0/1:152:78,74:78:2770:74:2600:-188.489,0,-203.785 0/1:308:129,178:129:4565:178:6273:-471.908,0,-318.28 0/1:152:76,75:76:2675:75:2687:-196.396,0,-195.316 0/0:140:139,1:139:4920:1:36:0,-38.5459,-439.354 0/1:118:55,63:55:1946:63:2214:-163.999,0,-139.892 0/0:158:158,0:158:5599:0:0:0,-47.5627,-504.034 0/0:11:11,0:11:378:0:0:0,-3.31133,-34.3495 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/0:26:26,0:26:919:0:0:0,-7.82678,-83.0261 0/0:103:103,0:103:3682:0:0:0,-31.0061,-331.583 0/1:144:45,98:45:1578:98:3441:-266.459,0,-98.9003 0/0:77:77,0:77:2712:0:0:0,-23.1793,-244.322 0/0:105:105,0:105:3728:0:0:0,-31.6081,-335.722 0/0:189:185,0:185:6488:0:0:0,-55.6905,-583.651 0/1:39:14,25:14:494:25:862:-66.15,0,-33.0537 0/1:34:17,17:17:601:17:612:-45.1784,0,-44.1834 0/0:86:86,0:86:3037:0:0:0,-25.8886,-273.56 0/0:28:28,0:28:984:0:0:0,-8.42884,-88.8712 chr05 18386978 . T C 8938.1 PASS AB=0.506849;ABP=3.42675;AC=9;AF=0.214286;AN=42;AO=519;CIGAR=1X;DP=2169;DPB=2169;DPRA=1.09899;EPP=1095.53;EPPR=3372.08;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.96;NS=21;NUMALT=1;ODDS=10.5786;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18544;QR=59133;RO=1650;RPL=515;RPP=1095.53;RPPR=3372.08;RPR=4;RUN=1;SAF=0;SAP=1130;SAR=519;SRF=0;SRP=3585.94;SRR=1650;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:124,0:124:4447:0:0:0,-37.3277,-400.242 0/0:79:79,0:79:2840:0:0:0,-23.7814,-255.838 0/1:106:45,61:45:1605:61:2192:-165.636,0,-112.829 0/1:65:34,31:34:1220:31:1100:-79.7433,0,-90.5399 0/1:124:57,67:57:2048:67:2404:-179.289,0,-147.264 0/1:108:46,62:46:1652:62:2205:-166.202,0,-116.457 0/0:152:152,0:152:5468:0:0:0,-45.7566,-492.244 0/1:154:69,85:69:2449:85:3031:-226.661,0,-174.305 0/0:161:161,0:161:5773:0:0:0,-48.4658,-519.681 0/0:17:17,0:17:608:0:0:0,-5.11751,-54.9902 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.086 0/1:108:61,47:61:2169:47:1672:-118.256,0,-162.964 0/0:216:216,0:216:7733:0:0:0,-65.0225,-696.001 0/0:91:91,0:91:3249:0:0:0,-27.3937,-292.621 0/0:104:104,0:104:3728:0:0:0,-31.3071,-335.716 0/1:268:132,136:132:4748:136:4868:-357.597,0,-346.799 0/1:84:57,27:57:2044:27:968:-62.1508,0,-158.945 0/0:62:61,1:61:2176:1:32:0,-15.4645,-192.907 0/0:75:75,0:75:2700:0:0:0,-22.5772,-243.243 chr05 18573176 . T G,A 46708.7 PASS AB=0.72796,0.27162;ABP=1078.17,1082.13;AC=21,21;AF=0.5,0.5;AN=42;AO=1734,647;CIGAR=1X,1X;DP=2382;DPB=2382;DPRA=0,0;EPP=3768.34,1407.95;EPPR=5.18177;GTI=4;LEN=1,1;MEANALT=2,2;MQM=59.1592,59.9413;MQMR=60;NS=21;NUMALT=2;ODDS=0.892361;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61865,23085;QR=36;RO=1;RPL=0,0;RPP=3768.34,1407.95;RPPR=5.18177;RPR=1734,647;RUN=1,1;SAF=1734,647;SAP=3768.34,1407.95;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:145:0,114,31:0:0:114,31:4069,1093:-420.861,-89.3457,-55.0283,-331.869,0,-322.537 1/2:100:0,83,17:0:0:83,17:2976,612:-292.601,-50.2959,-25.3104,-242.665,0,-237.547 1/2:116:0,99,17:0:0:99,17:3537,602:-337.212,-49.3875,-19.5856,-288.179,0,-283.062 1/2:161:0,123,38:0:0:123,38:4424,1364:-472.217,-111.622,-74.5949,-360.954,0,-349.515 1/2:157:0,129,28:0:0:129,28:4577,1008:-455.264,-82.6075,-43.7746,-373.016,0,-364.587 1/2:108:0,88,20:0:0:88,20:3156,716:-315.963,-58.7471,-32.2565,-257.574,0,-251.553 1/2:155:0,113,42:0:0:113,42:4056,1504:-453.751,-123.011,-88.9949,-331.098,0,-318.455 1/2:143:0,105,38:0:0:105,38:3750,1356:-416.565,-110.901,-79.2932,-306.021,0,-294.582 1/2:159:1,111,47:1:36:111,47:3964,1684:-457.151,-134.401,-103.924,-320.111,0,-308.9 1/2:25:0,11,14:0:0:11,14:396,504:-73.7208,-41.4837,-38.1723,-32.5965,0,-28.3821 1/2:27:0,17,10:0:0:17,10:582,360:-76.8903,-29.734,-24.6165,-47.5095,0,-44.4992 1/2:41:0,23,18:0:0:23,18:824,629:-118.587,-51.5152,-44.5915,-67.4246,0,-62.0061 1/2:131:0,82,49:0:0:82,49:2936,1733:-380.701,-141.41,-116.726,-239.645,0,-224.895 1/2:162:0,114,48:0:0:114,48:4059,1709:-470.013,-139.644,-105.327,-330.724,0,-316.275 1/2:143:0,119,24:0:0:119,24:4257,849:-416.504,-69.5031,-33.6805,-347.355,0,-340.13 1/2:92:0,80,12:0:0:80,12:2809,428:-263.782,-35.2464,-11.164,-228.891,0,-225.279 1/2:102:0,83,19:0:0:83,19:2944,684:-295.872,-56.1708,-31.1853,-240.06,0,-234.34 1/2:98:0,70,28:0:0:70,28:2468,1008:-283.353,-82.6075,-61.5354,-201.103,0,-192.674 1/2:99:0,64,35:0:0:64,35:2304,1241:-289.392,-101.456,-82.1905,-188.292,0,-177.756 1/2:137:0,51,86:0:0:51,86:1797,3065:-396.436,-250.189,-234.837,-146.6,0,-120.712 1/2:81:0,55,26:0:0:55,26:1980,936:-238.252,-76.7327,-60.176,-161.879,0,-154.052 chr05 18573198 . CAATG CAAATG 31102.7 PASS AB=0.715608;ABP=962.793;AC=21;AF=0.5;AN=42;AO=1701;CIGAR=1M1I4M;DP=2377;DPB=2718.6;DPRA=0;EPP=3644.75;EPPR=1388.62;GTI=4;LEN=1;MEANALT=1.85714;MQM=59.2922;MQMR=59.8394;NS=21;NUMALT=1;ODDS=0.352049;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60310;QR=23176;RO=654;RPL=6;RPP=3644.75;RPPR=1388.62;RPR=1695;RUN=1;SAF=1701;SAP=3696.68;SAR=0;SRF=654;SRP=1423.15;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:31,110:31:1093:110:3920:-310.093,0,-55.9133 0/1:100:19,79:19:672:79:2794:-221.762,0,-29.8614 0/1:116:17,98:17:607:98:3474:-277.587,0,-19.9839 0/1:162:40,121:40:1401:121:4281:-336.535,0,-77.5642 0/1:160:28,131:28:1006:131:4634:-368.783,0,-42.7045 0/1:108:20,87:20:713:87:3081:-244.9,0,-31.9362 0/1:155:43,112:43:1533:112:3950:-308.945,0,-91.6038 0/1:141:38,103:38:1355:103:3645:-285.469,0,-79.8056 0/1:159:47,111:47:1676:111:3926:-305.509,0,-103.208 0/1:25:14,10:14:474:10:360:-25.2556,0,-35.5032 0/1:25:10,15:10:360:15:536:-40.9772,0,-25.2186 0/1:41:18,23:18:624:23:806:-60.381,0,-44.1398 0/1:128:48,78:48:1701:78:2787:-212.767,0,-115.09 0/1:160:50,107:50:1788:107:3775:-291.958,0,-113.602 0/1:141:23,117:23:807:117:4156:-331.621,0,-30.449 0/1:93:13,79:13:454:79:2816:-225.577,0,-13.1758 0/1:104:19,82:19:681:82:2900:-230.478,0,-30.929 0/1:98:28,69:28:1003:69:2455:-191.469,0,-61.0308 0/1:100:36,63:36:1259:63:2234:-171.274,0,-83.5952 0/1:137:86,50:86:3044:50:1784:-119.666,0,-233.02 0/1:82:26,56:26:925:56:1996:-155.19,0,-58.8832 chr05 18573290 . C T 7604.81 PASS AB=0.261379;ABP=1480.8;AC=16;AF=0.380952;AN=42;AO=816;CIGAR=1X;DP=3455;DPB=3455;DPRA=43.1375;EPP=1774.93;EPPR=5727.01;GTI=1;LEN=1;MEANALT=1.15;MQM=46.8897;MQMR=59.981;NS=21;NUMALT=1;ODDS=1.91275;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28968;QR=92538;RO=2636;RPL=0;RPP=1774.93;RPPR=5727.01;RPR=816;RUN=1;SAF=0;SAP=1774.93;SAR=816;SRF=0;SRP=5727.01;SRR=2636;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:155,45:155:5416:45:1596:-80.5727,0,-427.372 0/0:117:106,11:106:3760:11:392:0,-0.0873396,-303.47 0/1:207:151,55:151:5296:55:1963:-112.782,0,-414.411 0/1:298:238,60:238:8360:60:2110:-97.2925,0,-662.714 0/1:391:324,67:324:11406:67:2374:-93.0864,0,-908.739 0/1:115:87,28:87:3072:28:1008:-55.9244,0,-242.077 0/1:239:190,49:190:6768:49:1748:-83.6268,0,-537.252 0/1:152:105,47:105:3652:47:1676:-103.78,0,-283.132 0/1:195:127,68:127:4438:68:2400:-154.818,0,-340.896 0/0:25:24,1:24:843:1:36:0,-3.95232,-72.6146 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:56:40,16:40:1418:16:554:-33.0245,0,-111.058 0/1:152:98,54:98:3416:54:1924:-126.051,0,-261.903 0/1:149:104,45:104:3645:45:1591:-97.4245,0,-283.403 0/1:264:191,73:191:6698:73:2590:-150.863,0,-523.437 0/0:136:124,12:124:4339:12:432:0,-2.06182,-351.815 0/0:185:173,11:173:6069:11:392:0,-20.4264,-510.943 0/1:209:137,72:137:4799:72:2551:-163.08,0,-369.16 0/1:109:71,38:71:2491:38:1360:-88.5534,0,-191.63 0/1:174:129,44:129:4468:44:1571:-87.8592,0,-349.858 0/1:78:58,20:58:2040:20:700:-39.5426,0,-160.392 chr05 18573298 . GTCA ATCG 49065.2 PASS AB=0.738596;ABP=1531.42;AC=26;AF=0.619048;AN=42;AO=2725;CIGAR=1X2M1X;DP=3571;DPB=3571;DPRA=0;EPP=5920.27;EPPR=1803.16;GTI=1;LEN=4;MEANALT=1.61905;MQM=59.9791;MQMR=46.8649;NS=21;NUMALT=1;ODDS=7.22577;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=94159;QR=28403;RO=829;RPL=0;RPP=5920.27;RPPR=1803.16;RPR=2725;RUN=1;SAF=0;SAP=5920.27;SAR=2725;SRF=0;SRP=1803.16;SRR=829;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:45,157:45:1515:157:5421:-426.97,0,-72.951 1/1:124:11,113:11:370:113:3881:-316.104,-3.93543,0 0/1:216:57,159:57:1972:159:5553:-434.886,0,-110.706 0/1:310:63,245:63:2163:245:8390:-662.07,0,-99.2355 0/1:400:67,333:67:2301:333:11496:-914.153,0,-84.3499 0/1:125:31,94:31:1069:94:3245:-254.639,0,-58.4377 0/1:255:51,204:51:1785:204:7036:-556.565,0,-82.2428 0/1:154:47,104:47:1634:104:3638:-281.837,0,-100.218 0/1:201:68,133:68:2352:133:4631:-356.456,0,-149.339 1/1:25:1,24:1:30:24:823:-71.3901,-4.53257,0 1/1:4:0,4:0:0:4:143:-13.2214,-1.20412,0 0/1:57:16,41:16:542:41:1409:-109.943,0,-31.6849 0/1:152:53,98:53:1796:98:3388:-259.394,0,-115.002 0/1:153:46,106:46:1543:106:3659:-283.402,0,-92.1418 0/1:275:73,202:73:2514:202:6934:-541.371,0,-141.069 1/1:139:13,124:13:457:124:4355:-351.017,-0.45157,0 1/1:188:10,177:10:340:177:6129:-521.006,-25.9535,0 0/1:210:70,140:70:2370:140:4843:-372.825,0,-148.161 0/1:115:41,74:41:1395:74:2560:-196.033,0,-90.0737 0/1:177:45,132:45:1539:132:4557:-357.025,0,-84.3066 0/1:84:21,61:21:716:61:2068:-161.393,0,-39.224 chr05 18573310 . G A 7722.09 PASS AB=0.250547;ABP=1733.14;AC=17;AF=0.404762;AN=42;AO=824;CIGAR=1X;DP=3533;DPB=3533;DPRA=44.1125;EPP=1792.3;EPPR=5881.19;GTI=2;LEN=1;MEANALT=1.1;MQM=46.8896;MQMR=59.9775;NS=21;NUMALT=1;ODDS=5.21265;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29473;QR=95964;RO=2707;RPL=0;RPP=1792.3;RPPR=5881.19;RPR=824;RUN=1;SAF=0;SAP=1792.3;SAR=824;SRF=0;SRP=5881.19;SRR=2707;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:206:161,44:161:5708:44:1568:-76.0678,0,-451.904 0/0:122:112,10:112:3944:10:352:0,-5.16492,-323.59 0/1:213:157,56:157:5597:56:1997:-114.172,0,-439.734 0/1:302:241,61:241:8585:61:2196:-103.263,0,-681.737 0/1:395:328,67:328:11611:67:2404:-94.4815,0,-925.961 0/1:123:93,30:93:3302:30:1065:-58.6292,0,-260.354 0/1:255:201,54:201:7150:54:1944:-96.3732,0,-566.792 0/1:153:106,47:106:3753:47:1669:-102.988,0,-291.912 0/1:199:132,67:132:4713:67:2404:-154.035,0,-364.424 0/0:23:22,1:22:792:1:36:0,-3.35026,-68.0322 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:56:41,15:41:1420:15:540:-31.7459,0,-111.232 0/1:152:100,52:100:3570:52:1859:-120.061,0,-275.751 0/1:152:106,46:106:3741:46:1631:-100.084,0,-291.134 0/1:275:203,72:203:7181:72:2583:-146.84,0,-563.567 0/1:139:126,13:126:4494:13:468:-0.245219,0,-362.786 0/0:183:172,11:172:6091:11:396:0,-19.4204,-512.57 0/1:211:139,72:139:4936:72:2565:-164.336,0,-380.875 0/1:113:72,41:72:2518:41:1468:-97.1223,0,-192.855 0/1:172:127,44:127:4474:44:1580:-89.2523,0,-350.993 0/1:85:64,21:64:2240:21:748:-41.455,0,-176.272 chr05 18573316 . G T 7675.22 PASS AB=0.248828;ABP=1755.97;AC=17;AF=0.404762;AN=42;AO=821;CIGAR=1X;DP=3552;DPB=3552;DPRA=44.35;EPP=1777.11;EPPR=5928.96;GTI=2;LEN=1;MEANALT=1.1;MQM=46.8599;MQMR=59.9553;NS=21;NUMALT=1;ODDS=0.344148;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29501;QR=97216;RO=2729;RPL=1;RPP=1777.11;RPPR=5928.96;RPR=820;RUN=1;SAF=0;SAP=1785.79;SAR=821;SRF=0;SRP=5928.96;SRR=2729;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:161,45:161:5743:45:1616:-79.8657,0,-454.122 0/1:124:112,12:112:3981:12:432:-1.38261,0,-321.153 0/1:214:158,56:158:5633:56:2012:-114.876,0,-442.671 0/1:308:246,62:246:8766:62:2209:-103.132,0,-696.213 0/1:398:332,66:332:11822:66:2376:-91.054,0,-944.036 0/1:125:95,30:95:3404:30:1080:-59.3636,0,-268.928 0/1:252:202,50:202:7167:50:1800:-84.3397,0,-569.224 0/1:153:106,47:106:3785:47:1688:-104.519,0,-294.79 0/1:201:134,67:134:4808:67:2408:-153.613,0,-372.367 0/0:23:22,1:22:770:1:36:0,-3.35026,-66.0459 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:56:40,16:40:1421:16:576:-34.9619,0,-111.328 0/1:150:99,51:99:3538:51:1836:-118.575,0,-273.474 0/1:154:108,46:108:3840:46:1648:-100.945,0,-299.437 0/1:272:200,72:200:7122:72:2588:-148.182,0,-559.162 0/0:141:128,13:128:4567:13:468:0,-0.356841,-369.108 0/0:185:174,11:174:6184:11:392:0,-20.3682,-521.328 0/1:215:143,71:143:5090:71:2556:-161.417,0,-393.148 0/1:115:74,41:74:2652:41:1476:-97.0642,0,-204.305 0/1:171:127,44:127:4542:44:1584:-89.9587,0,-357.468 0/1:84:64,20:64:2237:20:720:-39.236,0,-176.304 chr05 18573325 . AACA AACG,GACG 71155 PASS AB=0.745715,0.25148;ABP=1685.87,1724.51;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2723,832;CIGAR=3M1X,1X2M1X;DP=3565;DPB=3565;DPRA=0,44.5125;EPP=5760.62,1809.68;EPPR=0;GTI=2;LEN=1,4;MEANALT=2.38095,2.45;MQM=59.9842,46.8846;MQMR=0;NS=21;NUMALT=2;ODDS=1.92606;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=97041,29406;QR=0;RO=0;RPL=2705,832;RPP=5760.62,1809.68;RPPR=0;RPR=18,0;RUN=1,1;SAF=0,0;SAP=5915.93,1809.68;SAR=2723,832;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:210:0,163,45:0:0:163,45:5774,1561:-595.417,-125.051,-75.9831,-470.423,0,-456.877 1/2:125:0,113,12:0:0:113,12:4047,421:-364.182,-34.1282,-0.1118,-330.401,0,-326.789 1/2:218:0,161,57:0:0:161,57:5715,1995:-626.681,-161.024,-112.559,-466.006,0,-448.847 1/2:309:0,244,64:0:0:244,64:8717,2254:-891.116,-180.394,-106.942,-710.712,0,-691.446 1/2:398:0,330,66:0:0:330,66:11763,2328:-1145.84,-186.987,-87.6473,-958.932,0,-939.064 1/2:126:0,95,31:0:0:95,31:3392,1102:-366.168,-89.6463,-61.0485,-276.876,0,-267.544 1/2:253:0,202,51:0:0:202,51:7191,1825:-733.239,-147.153,-86.3449,-586.44,0,-571.087 1/2:153:0,106,47:0:0:106,47:3796,1674:-444.794,-135.22,-103.31,-309.929,0,-295.78 1/2:201:0,134,67:0:0:134,67:4796,2360:-581.328,-190.221,-149.883,-391.458,0,-371.289 1/1:23:0,22,1:0:0:22,1:781,36:-70.2549,-6.62266,0,-67.3397,-3.35026,-67.0387 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:54:0,38,16:0:0:38,16:1359,558:-156.235,-45.4132,-33.974,-111.172,0,-106.355 1/2:152:0,97,54:0:0:97,54:3455,1910:-435.695,-154.085,-124.885,-281.604,0,-265.348 1/2:153:0,107,46:0:0:107,46:3767,1613:-437.105,-130.431,-98.221,-307.023,0,-293.175 1/2:272:0,198,73:0:0:198,73:7063,2600:-784.848,-209.07,-149.466,-575.919,0,-553.944 1/1:140:0,127,13:0:0:127,13:4508,462:-405.537,-38.2308,0,-368.237,-0.578085,-364.324 1/1:189:0,177,11:0:0:177,11:6321,384:-568.639,-53.2823,0,-537.675,-22.274,-534.364 1/2:211:0,140,71:0:0:140,71:5007,2519:-610.568,-202.288,-160.143,-408.633,0,-387.26 1/2:113:0,70,41:0:0:70,41:2503,1462:-322.017,-117.923,-96.8506,-204.09,0,-191.748 1/2:177:0,132,45:0:0:132,45:4710,1590:-512.465,-128.493,-88.757,-384.323,0,-370.777 1/2:84:0,63,21:0:0:63,21:2232,752:-242.969,-61.1471,-42.1822,-182.177,0,-175.855 chr05 18573346 . G A 7562.25 PASS AB=0.248439;ABP=1764.14;AC=17;AF=0.404762;AN=42;AO=821;CIGAR=1X;DP=3560;DPB=3560;DPRA=44.45;EPP=1785.79;EPPR=5946.33;GTI=2;LEN=1;MEANALT=1.1;MQM=46.9245;MQMR=59.9583;NS=21;NUMALT=1;ODDS=5.07794;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29381;QR=97953;RO=2737;RPL=821;RPP=1785.79;RPPR=5946.33;RPR=0;RUN=1;SAF=0;SAP=1785.79;SAR=821;SRF=0;SRP=5946.33;SRR=2737;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:164,43:164:5860:43:1526:-74.1413,0,-464.697 0/1:123:111,12:111:3976:12:420:-0.777865,0,-321.004 0/1:217:160,57:160:5740:57:2033:-115.704,0,-451.391 0/1:310:247,63:247:8837:63:2252:-106.056,0,-701.995 0/1:395:328,67:328:11756:67:2412:-95.1673,0,-938.994 0/1:125:94,30:94:3376:30:1076:-58.9536,0,-266.354 0/1:252:202,50:202:7248:50:1800:-84.3397,0,-576.509 0/1:155:108,47:108:3822:47:1688:-103.917,0,-297.518 0/1:201:134,67:134:4796:67:2400:-153.269,0,-371.289 0/0:24:23,1:23:810:1:36:0,-3.65129,-69.6456 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:54:39,15:39:1392:15:540:-32.3479,0,-109.323 0/1:153:100,53:100:3572:53:1900:-123.407,0,-275.631 0/1:154:109,45:109:3912:45:1616:-98.0778,0,-305.913 0/1:272:200,71:200:7148:71:2529:-143.222,0,-561.44 0/0:141:128,13:128:4592:13:464:0,-0.702059,-371.7 0/0:187:176,11:176:6301:11:377:0,-22.3047,-533.137 0/1:212:142,70:142:5096:70:2508:-158.589,0,-394.805 0/1:114:73,41:73:2619:41:1476:-97.3653,0,-201.639 0/1:175:131,44:131:4681:44:1576:-88.1965,0,-368.768 0/1:85:64,21:64:2275:21:752:-41.8055,0,-179.424 chr05 18573933 . C T 41580.7 PASS AB=0.519077;ABP=17.6751;AC=21;AF=0.5;AN=42;AO=2408;CIGAR=1X;DP=4639;DPB=4639;DPRA=0;EPP=5231.92;EPPR=4845.39;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9693;MQMR=59.9673;NS=21;NUMALT=1;ODDS=38.1242;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=86092;QR=79492;RO=2230;RPL=0;RPP=5231.92;RPPR=4845.39;RPR=2408;RUN=1;SAF=0;SAP=5231.92;SAR=2408;SRF=0;SRP=4845.39;SRR=2230;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:371:219,152:219:7823:152:5460:-379.824,0,-592.418 0/1:233:90,143:90:3211:143:5112:-390.043,0,-219.073 0/1:150:66,83:66:2355:83:2964:-221.78,0,-166.995 0/1:313:144,169:144:5127:169:6012:-446.919,0,-367.352 0/1:634:277,357:277:9856:357:12772:-958.449,0,-696.134 0/1:335:158,177:158:5634:177:6312:-467.327,0,-406.179 0/1:311:123,188:123:4386:188:6711:-510.447,0,-301.293 0/1:154:80,74:80:2856:74:2652:-192.568,0,-210.465 0/1:347:189,158:189:6735:158:5664:-405.413,0,-501.768 0/1:18:6,12:6:216:12:432:-33.8027,0,-14.372 0/1:23:18,5:18:639:5:180:-9.62837,0,-50.9146 0/1:55:37,18:37:1316:18:637:-41.1006,0,-102.185 0/1:252:102,150:102:3639:150:5344:-405.234,0,-251.856 0/1:76:33,43:33:1184:43:1536:-115.655,0,-83.99 0/1:267:139,128:139:4952:128:4588:-332.707,0,-365.454 0/1:210:110,100:110:3943:100:3576:-258.831,0,-291.844 0/1:267:120,147:120:4272:147:5283:-395.227,0,-304.283 0/1:90:47,43:47:1666:43:1544:-112.16,0,-123.133 0/1:148:84,64:84:3012:64:2287:-161.539,0,-226.758 0/1:259:121,138:121:4279:138:4951:-367.771,0,-307.323 0/1:126:67,59:67:2391:59:2075:-149.088,0,-177.517 chr05 18573949 . C G 41281.4 PASS AB=0.515769;ABP=13.0775;AC=21;AF=0.5;AN=42;AO=2404;CIGAR=1X;DP=4661;DPB=4661;DPRA=0;EPP=5214.55;EPPR=4884.48;GTI=0;LEN=1;MEANALT=1.2381;MQM=59.9359;MQMR=59.9991;NS=21;NUMALT=1;ODDS=39.3533;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85718;QR=80632;RO=2252;RPL=1;RPP=5214.55;RPPR=4884.48;RPR=2403;RUN=1;SAF=0;SAP=5223.23;SAR=2404;SRF=0;SRP=4893.17;SRR=2252;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:378:225,153:225:8076:153:5448:-376.646,0,-613.066 0/1:231:90,141:90:3224:141:5024:-382.728,0,-220.844 0/1:150:65,84:65:2340:84:3012:-226.098,0,-165.646 0/1:316:143,172:143:5132:172:6139:-457.382,0,-366.836 0/1:638:280,356:280:10005:356:12716:-952.451,0,-708.573 0/1:334:156,178:156:5591:178:6334:-469.335,0,-402.767 0/1:312:125,187:125:4452:187:6676:-506.995,0,-306.929 0/1:157:81,76:81:2912:76:2693:-195.038,0,-215.053 0/1:344:188,156:188:6720:156:5547:-395.795,0,-501.32 0/1:18:6,12:6:216:12:432:-33.8027,0,-14.372 0/1:23:17,6:17:612:6:216:-12.8668,0,-48.4897 0/1:55:37,18:37:1317:18:644:-41.7339,0,-102.273 0/1:251:105,146:105:3760:146:5232:-395.459,0,-263.041 0/1:75:33,42:33:1184:42:1479:-110.826,0,-84.2911 0/1:269:143,126:143:5127:126:4480:-322.396,0,-380.593 0/1:215:114,101:114:4096:101:3594:-258.946,0,-304.103 0/1:270:122,147:122:4356:147:5271:-393.184,0,-310.876 0/1:89:47,42:47:1669:42:1500:-108.503,0,-123.704 0/1:148:84,64:84:3005:64:2287:-161.539,0,-226.127 0/1:261:123,138:123:4407:138:4916:-364.022,0,-318.232 0/1:127:68,59:68:2431:59:2078:-149.056,0,-180.814 chr05 18573969 . G A 30253.3 PASS AB=0.413459;ABP=305.562;AC=21;AF=0.5;AN=42;AO=1923;CIGAR=1X;DP=4651;DPB=4651;DPRA=0;EPP=4178.75;EPPR=5918.1;GTI=2;LEN=1;MEANALT=1;MQM=59.9657;MQMR=59.9707;NS=21;NUMALT=1;ODDS=16.3782;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68835;QR=97376;RO=2728;RPL=1923;RPP=4178.75;RPPR=5918.1;RPR=0;RUN=1;SAF=0;SAP=4178.75;SAR=1923;SRF=0;SRP=5926.79;SRR=2728;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:373:220,153:220:7849:153:5449:-378.236,0,-594.155 0/1:235:91,144:91:3260:144:5180:-395.554,0,-222.878 0/1:153:101,52:101:3616:52:1868:-122.342,0,-279.588 0/1:312:210,102:210:7497:102:3630:-232.981,0,-580.852 0/1:636:458,178:458:16318:178:6369:-381.843,0,-1276.84 0/1:337:251,86:251:8956:86:3088:-176.7,0,-704.259 0/1:314:122,192:122:4352:192:6889:-525.55,0,-297.33 0/1:158:139,19:139:4965:19:684:-14.3276,0,-398.979 0/1:349:191,158:191:6782:158:5657:-404.18,0,-505.396 0/1:19:7,12:7:237:12:432:-33.5016,0,-15.9395 0/1:24:19,5:19:684:5:180:-9.32734,0,-54.6656 0/1:54:38,16:38:1364:16:576:-35.9194,0,-106.805 0/1:251:104,147:104:3721:147:5265:-398.426,0,-259.531 0/1:73:46,27:46:1640:27:972:-65.8227,0,-125.913 0/1:266:139,127:139:4977:127:4560:-330.491,0,-368.002 0/1:213:111,102:111:3980:102:3622:-262.065,0,-294.27 0/1:264:120,144:120:4289:144:5138:-383.085,0,-306.714 0/1:88:67,21:67:2400:21:752:-41.5156,0,-189.766 0/1:147:106,41:106:3787:41:1476:-88.8848,0,-296.777 0/1:258:121,137:121:4313:137:4900:-363.485,0,-310.681 0/1:127:67,60:67:2389:60:2148:-155.355,0,-177.035 chr05 18573972 . T C 27241.8 PASS AB=0.385626;ABP=538.969;AC=21;AF=0.5;AN=42;AO=1819;CIGAR=1X;DP=4717;DPB=4717;DPRA=0;EPP=3952.92;EPPR=6293.77;GTI=3;LEN=1;MEANALT=1.04762;MQM=59.9912;MQMR=59.9479;NS=21;NUMALT=1;ODDS=0.525351;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64915;QR=103769;RO=2897;RPL=1819;RPP=3952.92;RPPR=6293.77;RPR=0;RUN=1;SAF=0;SAP=3952.92;SAR=1819;SRF=0;SRP=6293.77;SRR=2897;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:376:156,220:156:5596:220:7845:-592.89,0,-390.552 0/1:235:144,91:144:5149:91:3272:-223.921,0,-392.801 0/1:154:133,21:133:4784:21:752:-21.6476,0,-384.355 0/1:321:252,69:252:9041:69:2451:-124.213,0,-716.987 0/1:649:496,153:496:17676:153:5427:-293.192,0,-1395.08 0/1:338:245,93:245:8777:93:3313:-196.641,0,-687.848 0/1:321:194,127:194:6964:127:4555:-313.484,0,-530.191 0/1:157:124,33:124:4445:33:1184:-59.6066,0,-352.496 0/1:351:159,191:159:5704:191:6816:-507.79,0,-407.747 0/1:18:12,6:12:428:6:216:-14.372,0,-33.4403 0/1:24:13,11:13:468:11:396:-28.758,0,-35.2349 0/1:56:18,38:18:648:38:1359:-105.752,0,-41.7942 0/1:254:150,104:150:5392:104:3706:-257.279,0,-408.947 0/1:75:60,15:60:2148:15:532:-25.6358,0,-171.01 0/1:271:130,141:130:4672:141:5024:-370.728,0,-339.06 0/1:213:101,112:101:3617:112:4013:-297.237,0,-261.614 0/1:274:150,124:150:5373:124:4407:-314.319,0,-401.214 0/1:89:63,26:63:2249:26:918:-56.1433,0,-175.88 0/1:148:95,53:95:3412:53:1908:-127.445,0,-262.741 0/1:263:141,122:141:5034:122:4356:-313.045,0,-374.033 0/1:130:61,69:61:2192:69:2465:-182.969,0,-158.41 chr05 18573987 . T A 113526 PASS AB=0.585825;ABP=522.973;AC=21;AF=0.5;AN=42;AO=4761;CIGAR=1X;DP=8127;DPB=8127;DPRA=0;EPP=10341.4;EPPR=7312.19;GTI=0;LEN=1;MEANALT=1;MQM=58.7845;MQMR=59.9825;NS=21;NUMALT=1;ODDS=7.35337;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=170250;QR=120372;RO=3366;RPL=2420;RPP=5.85679;RPPR=809.361;RPR=2341;RUN=1;SAF=2341;SAP=5.85679;SAR=2420;SRF=1124;SRP=809.361;SRR=2242;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:541:269,272:269:9626:272:9708:-710.762,0,-703.432 0/1:332:110,222:110:3944:222:7955:-615.701,0,-255.209 0/1:306:100,206:100:3596:206:7364:-570.099,0,-231.73 0/1:516:239,277:239:8565:277:9932:-737.617,0,-615.513 0/1:1012:372,640:372:13176:640:22908:-1753.52,0,-880.947 0/1:441:179,262:179:6424:262:9354:-707.781,0,-445.491 0/1:534:212,322:212:7557:322:11513:-875.236,0,-519.423 0/1:423:162,261:162:5785:261:9336:-711.609,0,-393.426 0/1:696:305,391:305:10932:391:13993:-1049.42,0,-774.252 0/1:53:12,41:12:417:41:1472:-116.757,0,-21.9056 0/1:28:20,8:20:720:8:284:-17.4711,0,-56.6999 0/1:106:66,40:66:2368:40:1405:-94.8327,0,-181.45 0/1:375:178,197:178:6372:197:7052:-521.849,0,-460.684 0/1:283:98,185:98:3508:185:6567:-504.492,0,-230.735 0/1:531:224,307:224:8024:307:10958:-826.023,0,-562.333 0/1:314:125,189:125:4492:189:6756:-513.237,0,-309.924 0/1:369:135,234:135:4844:234:8393:-643.949,0,-325.033 0/1:344:118,226:118:4228:226:8093:-623.286,0,-277.144 0/1:266:131,135:131:4708:135:4852:-355.981,0,-343.804 0/1:411:173,238:173:6157:238:8494:-640.714,0,-430.508 0/1:246:138,108:138:4929:108:3861:-273.595,0,-369.706 chr05 18574041 . A T 35749.2 PASS AB=0.648667;ABP=557.627;AC=22;AF=0.52381;AN=42;AO=1957;CIGAR=1X;DP=2979;DPB=2979;DPRA=0;EPP=4252.58;EPPR=2217.91;GTI=3;LEN=1;MEANALT=1.09524;MQM=58.1139;MQMR=59.9775;NS=21;NUMALT=1;ODDS=11.4834;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69689;QR=35924;RO=1020;RPL=1957;RPP=4252.58;RPPR=2217.91;RPR=0;RUN=1;SAF=1957;SAP=4252.58;SAR=0;SRF=1020;SRP=2217.91;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:42,116:42:1479:116:4148:-325.88,0,-85.841 0/1:96:21,75:21:748:75:2651:-209.792,0,-38.7464 0/1:108:30,78:30:1068:78:2787:-218.033,0,-63.9208 0/1:164:85,79:85:3009:79:2808:-203.073,0,-221.673 0/1:283:91,192:91:3214:192:6822:-527.36,0,-204.293 0/1:82:18,64:18:621:64:2284:-180.443,0,-31.5268 0/1:212:82,130:82:2916:130:4633:-353.254,0,-198.858 0/1:191:81,110:81:2860:110:3927:-295.782,0,-200.144 0/1:338:106,232:106:3745:232:8275:-642.844,0,-235.505 0/1:36:5,31:5:176:31:1100:-88.4258,0,-5.34794 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:43:21,22:21:732:22:784:-57.9314,0,-53.2571 0/1:118:66,52:66:2328:52:1855:-131.701,0,-174.26 0/1:150:59,91:59:2071:91:3260:-247.912,0,-141.505 0/1:251:75,176:75:2622:176:6272:-488.777,0,-160.667 0/1:98:11,85:11:392:85:3032:-243.571,0,-6.4253 1/1:90:7,83:7:248:83:2943:-242.34,-4.42851,0 0/1:204:69,135:69:2422:135:4772:-367.02,0,-156.824 0/1:105:44,61:44:1513:61:2171:-163.313,0,-104.849 0/1:143:49,94:49:1736:94:3337:-257.489,0,-113.477 0/1:105:55,50:55:1916:50:1792:-129.918,0,-141.107 chr05 18574080 . GATG GATT,TATT 36144.2 PASS AB=0.512309,0.191867;ABP=7.50089,2091.95;AC=23,1;AF=0.547619,0.0238095;AN=42;AO=1973,488;CIGAR=3M1X,1X2M1X;DP=3657;DPB=3657;DPRA=0,1.5288;EPP=4287.33,1062.69;EPPR=2578.38;GTI=3;LEN=1,4;MEANALT=2.09524,2.35714;MQM=59.7643,59.4303;MQMR=59.984;NS=21;NUMALT=2;ODDS=0.713369;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70384,17129;QR=41154;RO=1186;RPL=0,0;RPP=4287.33,1062.69;RPPR=2578.38;RPR=1973,488;RUN=1,1;SAF=0,0;SAP=4287.33,1062.69;SAR=1973,488;SRF=0;SRP=2578.38;SRR=1186;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:25,49,2:25:877:49,2:1738,61:-134.12,0,-56.6623,-136.761,-66.5299,-207.528 0/1:88:19,68,0:19:661:68,0:2432,0:-192.586,0,-33.2643,-198.306,-53.7343,-252.05 0/1:289:78,150,60:78:2690:150,60:5354,2122:-412.892,0,-173.352,-263.679,-45.8083,-464.124 0/1:256:79,116,60:79:2754:116,60:4125,2121:-312.355,0,-189.052,-163.395,-51.2268,-369.305 0/1:375:90,198,87:90:3085:198,87:7087,3031:-550.462,0,-190.842,-331.216,-4.10169,-555.471 1/2:97:18,45,34:18:621:45,34:1612,1210:-174.225,-48.1777,-85.0765,-81.029,0,-121.239 0/1:220:82,137,1:82:2854:137,1:4873,36:-372.438,0,-190.815,-394.185,-229.119,-625.949 0/1:275:135,82,58:135:4682:82,58:2909,2059:-196.336,0,-355.876,-69.2395,-212.822,-432.341 0/1:251:115,134,0:115:4011:134,0:4796,0:-356.533,0,-285.948,-391.151,-326.287,-717.367 0/1:28:5,21,2:5:175:21,2:748,71:-59.4636,0,-7.91331,-55.1837,-8.44836,-68.8189 0/1:11:5,4,2:5:157:4,2:144,72:-10.2445,0,-11.3832,-5.87483,-6.69939,-17.8674 0/1:68:33,35,0:33:1149:35,0:1252,0:-92.515,0,-83.2446,-102.449,-93.7807,-195.877 0/1:140:65,75,0:65:2250:75,0:2688,0:-200.02,0,-160.619,-219.587,-183.197,-402.432 0/1:290:89,138,62:89:3083:138,62:4938,2148:-375.831,0,-209.022,-228.054,-75.9917,-459.949 0/1:191:85,106,0:85:2993:106,0:3800,0:-284.701,0,-212.108,-310.288,-244.018,-553.951 1/1:124:11,112,0:11:389:112,0:4012,0:-325.92,-2.03811,0,-329.232,-33.7154,-360.914 1/1:121:6,113,2:6:204:113,2:4026,58:-343.848,-17.4327,0,-341.038,-29.4116,-356.981 0/1:333:98,152,83:98:3407:152,83:5375,2893:-407.097,0,-231.245,-201.421,-41.8224,-453.435 0/1:148:50,65,32:50:1728:65,32:2305,1139:-172.737,0,-120.832,-94.9927,-47.6003,-225.761 0/1:135:48,82,3:48:1675:82,3:2932,108:-224.621,0,-111.544,-230.258,-127.415,-365.59 0/1:141:50,91,0:50:1709:91,0:3238,0:-249.197,0,-111.645,-264.248,-139.039,-402.94 chr05 18574090 . GCA GAA,GA 36105.7 PASS AB=0.52814,0.168773;ABP=26.2301,2340.57;AC=23,1;AF=0.547619,0.0238095;AN=42;AO=2007,415;CIGAR=1M1X1M,1M1D1M;DP=3620;DPB=3481.67;DPRA=0,1.59615;EPP=4361.16,904.171;EPPR=2580.55;GTI=2;LEN=1,1;MEANALT=2.09524,2.46154;MQM=59.853,59.0916;MQMR=60;NS=21;NUMALT=2;ODDS=0.950957;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70990,14550;QR=41165;RO=1187;RPL=0,0;RPP=4361.16,904.171;RPPR=2580.55;RPR=2007,415;RUN=1,1;SAF=0,0;SAP=4361.16,904.171;SAR=2007,415;SRF=0;SRP=2580.55;SRR=1187;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:25,49,1:25:881:49,1:1705,36:-131.095,0,-56.9709,-135.683,-68.7837,-207.112 0/1:91:21,70,0:21:709:70,0:2480,0:-196.058,0,-36.7301,-202.38,-57.8022,-259.841 0/1:281:76,141,61:76:2639:141,61:4965,2170:-381.212,0,-172.084,-227.351,-37.7863,-423.518 0/1:252:80,119,53:80:2785:119,53:4219,1852:-319.636,0,-190.639,-193.102,-75.843,-403.607 0/1:367:90,196,81:90:3110:196,81:6948,2839:-538.614,0,-193.69,-334.768,-21.7495,-563.076 1/2:97:18,52,27:18:609:52,27:1855,960:-174.68,-28.8789,-62.5889,-101.867,0,-143.105 0/1:218:81,135,0:81:2764:135,0:4761,0:-363.333,0,-183.684,-387.716,-224.323,-611.99 0/1:272:134,89,47:134:4661:89,47:3148,1636:-216.021,0,-352.185,-123.365,-245.98,-488.19 0/1:244:114,129,0:114:3988:129,0:4529,0:-334.268,0,-285.607,-368.585,-324.44,-693.035 0/1:27:5,22,0:5:173:22,0:773,0:-61.7617,0,-7.78152,-63.2668,-14.4042,-77.3242 0/1:11:5,5,1:5:163:5,1:180,36:-13.1819,0,-11.6257,-11.7497,-10.1878,-24.5908 0/1:67:33,34,0:33:1145:34,0:1207,0:-88.7663,0,-83.1842,-98.7003,-93.4193,-191.769 0/1:139:65,73,1:65:2269:73,1:2590,36:-191.447,0,-162.57,-208.076,-181.607,-392.328 0/1:285:90,143,52:90:3124:143,52:5044,1824:-383.612,0,-210.9,-262.325,-105.565,-500.619 0/1:196:84,110,1:84:2959:110,1:3880,36:-290.637,0,-207.785,-312.986,-237.961,-553.591 1/1:124:11,112,0:11:391:112,0:3950,0:-320.164,-1.85658,0,-323.475,-33.7154,-355.338 1/1:120:6,112,1:6:207:112,1:3999,36:-341.142,-16.8691,0,-340.01,-30.7744,-356.525 0/1:329:99,161,69:99:3391:161,69:5659,2411:-430.705,0,-226.797,-265.623,-80.375,-520.114 0/1:149:50,79,20:50:1757:79,20:2828,678:-215.538,0,-119.238,-175.62,-88.0483,-312.607 0/1:134:50,84,0:50:1766:84,0:2994,0:-229.353,0,-118.883,-244.405,-144.169,-388.22 0/1:142:50,92,0:50:1674:92,0:3276,0:-252.315,0,-108.191,-267.367,-135.886,-402.91 chr05 18574101 . GCCG GCCA,ACCA 37674.5 PASS AB=0.525728,0.190706;ABP=22.5638,1898.33;AC=23,1;AF=0.547619,0.0238095;AN=42;AO=2018,436;CIGAR=3M1X,1X2M1X;DP=3649;DPB=3649.25;DPRA=0,1.57612;EPP=4290.02,932.48;EPPR=2561.03;GTI=2;LEN=1,4;MEANALT=1.95238,2.58333;MQM=59.8315,59.2385;MQMR=59.984;NS=21;NUMALT=2;ODDS=0.317433;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=72147,15371;QR=41416;RO=1186;RPL=11,2;RPP=4290.02,932.48;RPPR=2561.03;RPR=2007,434;RUN=1,1;SAF=0,0;SAP=4385.04,949.772;SAR=2018,436;SRF=0;SRP=2578.38;SRR=1186;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:25,48,1:25:886:48,1:1728,36:-133.47,0,-57.724,-138.059,-69.2358,-209.934 0/1:89:21,68,0:21:734:68,0:2436,0:-192.704,0,-39.5901,-199.025,-60.0601,-258.734 0/1:288:78,146,64:78:2727:146,64:5224,2273:-402.399,0,-177.805,-240.742,-36.6143,-443.232 0/1:252:79,116,57:79:2766:116,57:4137,1994:-313.458,0,-190.133,-175.051,-62.8607,-382.941 0/1:373:89,197,86:89:3074:197,86:7032,3052:-545.986,0,-190.45,-324.19,-1.16007,-548.056 1/2:97:17,52,27:17:590:52,27:1850,963:-176.201,-30.5493,-62.8532,-102.816,0,-142.647 0/1:216:81,135,0:81:2828:135,0:4835,0:-370.281,0,-189.738,-394.664,-230.377,-624.689 0/1:276:137,91,48:137:4796:91,48:3268,1681:-225.308,0,-362.821,-129.803,-253.465,-505.563 0/1:251:118,133,0:118:4130:133,0:4755,0:-352.54,0,-296.332,-388.062,-336.369,-724.077 0/1:27:5,22,0:5:180:22,0:784,0:-62.7561,0,-8.42425,-64.2613,-15.0469,-78.949 0/1:11:5,5,1:5:173:5,1:180,36:-13.1819,0,-12.5418,-11.7497,-11.1072,-25.5002 0/1:66:33,33,0:33:1148:33,0:1180,0:-86.6401,0,-83.7562,-96.5741,-93.6902,-189.912 0/1:139:63,73,1:63:2202:73,1:2615,36:-194.297,0,-157.145,-210.325,-176.183,-389.15 0/1:288:88,144,55:88:3052:144,55:5164,1965:-394.7,0,-204.723,-261.012,-87.8881,-492.528 0/1:196:85,111,0:85:3010:111,0:3970,0:-298.488,0,-212.132,-324.075,-245.546,-569.266 1/1:127:11,116,0:11:385:116,0:4145,0:-338.242,-3.29994,0,-341.553,-34.9195,-372.877 1/1:121:6,114,1:6:202:114,1:4050,36:-346.176,-17.9701,0,-345.045,-31.3767,-361.11 0/1:333:99,160,72:99:3445:160,72:5724,2513:-436.892,0,-231.952,-262.521,-75.94,-520.959 0/1:150:49,77,23:49:1692:77,23:2751,786:-209.516,0,-114.293,-160.481,-73.6843,-291.02 0/1:132:47,84,0:47:1675:84,0:3012,0:-231.555,0,-111.282,-245.704,-136.568,-382.236 0/1:143:50,93,0:50:1721:93,0:3307,0:-254.8,0,-112.123,-269.851,-140.119,-409.622 chr05 18575336 . G A 25730.9 PASS AB=0.596869;ABP=44.6592;AC=32;AF=0.761905;AN=42;AO=1205;CIGAR=1X;DP=1421;DPB=1421;DPRA=17.7125;EPP=2619.63;EPPR=467.705;GTI=1;LEN=1;MEANALT=1.1;MQM=59.8216;MQMR=59.4953;NS=21;NUMALT=1;ODDS=2.74448;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42738;QR=7660;RO=214;RPL=0;RPP=2619.63;RPPR=467.705;RPR=1205;RUN=1;SAF=1205;SAP=2619.63;SAR=0;SRF=214;SRP=467.705;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 1/1:54:0,54:0:0:54:1921:-173.108,-16.2556,0 0/1:65:36,29:36:1288:29:1025:-72.9914,0,-96.652 0/1:73:18,55:18:640:55:1881:-147.581,0,-35.9541 0/1:101:46,55:46:1648:55:1968:-146.991,0,-118.193 0/1:64:24,40:24:864:40:1413:-108.19,0,-58.7745 1/1:126:3,122:3:108:122:4321:-378.771,-27.8835,0 0/1:45:10,35:10:360:35:1233:-97.7257,0,-19.198 1/1:157:0,157:0:0:157:5590:-503.22,-47.2617,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 1/1:22:0,22:0:0:22:769:-69.5286,-6.62266,0 1/1:75:0,75:0:0:75:2635:-237.394,-22.5773,0 0/1:73:29,44:29:1032:44:1566:-119.255,0,-71.2113 1/1:113:0,113:0:0:113:4037:-363.516,-34.0164,0 1/1:82:0,82:0:0:82:2899:-261.077,-24.6845,0 1/1:66:0,66:0:0:66:2338:-210.674,-19.868,0 0/1:64:37,27:37:1324:27:968:-68.1714,0,-100.17 0/1:26:6,20:6:216:20:720:-57.2996,0,-11.9637 1/1:105:1,103:1:36:103:3654:-325.471,-28.0487,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 chr05 18575351 . TTC TTT,GTT 31252 PASS AB=0.598837,0.397287;ABP=46.7932,50.2945;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1216,212;CIGAR=2M1X,1X1M1X;DP=1432;DPB=1432;DPRA=17.85,0.996939;EPP=2634.84,463.362;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.65,2.09091;MQM=59.8158,59.5896;MQMR=60;NS=21;NUMALT=2;ODDS=2.36963;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43573,7491;QR=36;RO=1;RPL=1,0;RPP=2634.84,463.362;RPPR=5.18177;RPR=1215,212;RUN=1,1;SAF=1216,212;SAP=2643.52,463.362;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59,0:0:0:59,0:2120,0:-191.068,-17.7608,0,-191.068,-17.7608,-191.068 1/1:53:0,53,0:0:0:53,0:1908,0:-171.933,-15.9546,0,-171.933,-15.9546,-171.933 1/2:66:0,29,37:0:0:29,37:1044,1305:-191.795,-106.609,-97.879,-85.5426,0,-74.4045 1/2:74:0,56,18:0:0:56,18:2016,621:-215.297,-50.7938,-33.9361,-164.852,0,-159.434 1/2:102:0,56,46:0:0:56,46:2007,1621:-296.009,-132.319,-115.462,-164.045,0,-150.198 1/2:64:0,40,22:0:0:40,22:1431,772:-179.59,-62.8939,-50.8527,-116.775,0,-110.153 1/1:126:1,123,2:1:36:123,2:4403,72:-392.613,-34.0893,0,-387.039,-31.1519,-389.375 1/2:44:0,34,10:0:0:34,10:1224,352:-128.886,-29.0073,-18.7723,-100.232,0,-97.2217 1/1:162:0,162,0:0:0:162,0:5791,0:-521.302,-48.7669,0,-521.302,-48.7669,-521.302 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/1:22:0,22,0:0:0:22,0:792,0:-71.6057,-6.62266,0,-71.6057,-6.62266,-71.6057 1/1:76:0,76,0:0:0:76,0:2736,0:-246.482,-22.8783,0,-246.482,-22.8783,-246.482 1/2:76:0,46,30:0:0:46,30:1643,1066:-221.168,-87.2137,-73.3663,-134.31,0,-125.279 1/1:111:0,111,0:0:0:111,0:3976,0:-358.03,-33.4143,0,-358.03,-33.4143,-358.03 1/1:82:0,82,0:0:0:82,0:2923,0:-263.24,-24.6845,0,-263.24,-24.6845,-263.24 1/1:72:0,71,0:0:0:71,0:2526,0:-227.338,-21.3731,0,-227.338,-21.3731,-227.338 1/2:64:0,28,36:0:0:28,36:1008,1286:-187.431,-105.186,-96.7568,-82.6042,0,-71.7671 1/2:26:0,20,6:0:0:20,6:705,216:-75.3783,-17.9843,-11.9637,-57.7521,0,-55.9459 1/1:103:0,102,1:0:0:102,1:3664,36:-329.587,-30.7051,0,-326.65,-27.4078,-326.349 1/1:37:0,37,0:0:0:37,0:1332,0:-120.181,-11.1381,0,-120.181,-11.1381,-120.181 chr05 18815736 . C T 35036 PASS AB=0.442446;ABP=43.0029;AC=33;AF=0.785714;AN=42;AO=1716;CIGAR=1X;DP=2493;DPB=2493;DPRA=0;EPP=3729.26;EPPR=1688.07;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9837;MQMR=59.9807;NS=21;NUMALT=1;ODDS=0.493226;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61290;QR=27816;RO=776;RPL=0;RPP=3729.26;RPPR=1688.07;RPR=1716;RUN=1;SAF=1716;SAP=3729.26;SAR=0;SRF=776;SRP=1688.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2373:-213.827,-20.169,0 1/1:70:0,70:0:0:70:2508:-225.972,-21.0721,0 0/1:52:39,13:39:1400:13:453:-25.4461,0,-110.646 0/1:40:19,21:19:675:21:756:-56.326,0,-49.0358 0/1:142:75,67:75:2696:67:2385:-172.074,0,-200.138 0/1:57:25,32:25:900:32:1152:-86.8314,0,-64.1623 1/1:97:0,97:0:0:97:3476:-313.051,-29.1999,0 0/1:70:32,38:32:1144:38:1364:-101.989,0,-82.1974 1/1:107:0,107:0:0:107:3805:-342.648,-32.2102,0 1/1:145:0,145:0:0:145:5159:-464.449,-43.6494,0 0/1:336:278,58:278:9976:58:2037:-82.4509,0,-796.628 1/1:216:0,216:0:0:216:7733:-696.001,-65.0225,0 1/1:74:1,73:1:36:73:2601:-230.739,-18.6779,0 0/1:48:26,22:26:913:22:788:-56.7954,0,-68.0346 1/1:74:0,74:0:0:74:2651:-238.836,-22.2762,0 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 1/1:65:0,65:0:0:65:2320:-209.061,-19.567,0 0/1:569:257,312:257:9216:312:11156:-832.623,0,-658.109 0/1:76:23,52:23:824:52:1868:-145.462,0,-51.5463 1/1:86:0,86:0:0:86:3073:-276.797,-25.8886,0 1/1:47:1,46:1:36:46:1652:-145.37,-10.5501,0 chr05 18815748 . G A 13543.2 PASS AB=0.555237;ABP=39.9534;AC=9;AF=0.214286;AN=42;AO=775;CIGAR=1X;DP=2506;DPB=2506;DPRA=1.55313;EPP=1642.75;EPPR=3628.33;GTI=0;LEN=1;MEANALT=1;MQM=59.9703;MQMR=59.9855;NS=21;NUMALT=1;ODDS=6.83164;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27696;QR=61683;RO=1729;RPL=5;RPP=1642.75;RPPR=3628.33;RPR=770;RUN=1;SAF=775;SAP=1685.9;SAR=0;SRF=1729;SRP=3757.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:68:68,0:68:2444:0:0:0,-20.47,-220.215 0/0:71:71,0:71:2529:0:0:0,-21.3731,-227.86 0/1:53:13,40:13:468:40:1440:-113.943,0,-26.5051 0/1:42:22,20:22:776:20:716:-52.1245,0,-57.5189 0/1:144:69,75:69:2441:75:2662:-196.475,0,-176.507 0/1:57:32,25:32:1148:25:900:-64.1623,0,-86.4711 0/0:94:94,0:94:3369:0:0:0,-28.2968,-303.424 0/1:68:37,31:37:1317:31:1112:-79.9213,0,-98.3598 0/0:108:108,0:108:3865:0:0:0,-32.5112,-348.043 0/0:147:147,0:147:5250:0:0:0,-44.2514,-472.628 0/1:335:57,278:57:1988:278:9882:-788.476,0,-78.342 0/0:218:218,0:218:7813:0:0:0,-65.6245,-703.196 0/0:73:72,1:72:2588:1:36:0,-18.3769,-229.57 0/1:47:22,25:22:773:25:900:-67.1726,0,-55.7411 0/0:79:77,0:77:2721:0:0:0,-23.1793,-244.771 0/0:55:55,0:55:1957:0:0:0,-16.5566,-176.404 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.14 0/1:571:314,257:314:11179:257:9220:-657.854,0,-834.113 0/1:77:54,23:54:1936:23:828:-51.6648,0,-151.337 0/0:87:87,0:87:3101:0:0:0,-26.1896,-279.316 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 chr05 18815762 . G T 26967.8 PASS AB=0.531379;ABP=21.6802;AC=9;AF=0.214286;AN=42;AO=1164;CIGAR=1X;DP=4262;DPB=4262;DPRA=1.28517;EPP=196.436;EPPR=44.0594;GTI=0;LEN=1;MEANALT=1;MQM=59.9811;MQMR=59.991;NS=21;NUMALT=1;ODDS=57.5023;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41563;QR=109980;RO=3098;RPL=30;RPP=2276.74;RPPR=6294.54;RPR=1134;RUN=1;SAF=773;SAP=275.235;SAR=391;SRF=1721;SRP=85.9552;SRR=1377;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:181:181,0:181:6349:0:0:0,-54.4864,-571.508 0/0:165:165,0:165:5825:0:0:0,-49.6699,-524.363 0/1:92:23,69:23:828:69:2480:-195.758,0,-47.1494 0/1:175:79,96:79:2787:96:3417:-255.063,0,-198.39 0/1:367:161,206:161:5724:206:7345:-550.62,0,-404.715 0/1:111:86,25:86:3034:25:900:-47.9067,0,-239.875 0/0:230:230,0:230:8146:0:0:0,-69.2369,-733.158 0/1:128:71,57:71:2526:57:2025:-143.989,0,-189.059 0/0:212:211,1:211:7443:1:36:0,-60.2201,-666.318 0/0:148:147,1:147:5280:1:21:0,-42.4527,-473.234 0/1:335:57,278:57:2021:278:9954:-794.952,0,-81.3161 0/0:239:239,0:239:8539:0:0:0,-71.9462,-768.51 0/0:188:187,1:187:6607:1:36:0,-52.9954,-591.115 0/1:144:69,75:69:2444:75:2679:-198.006,0,-176.865 0/0:193:193,0:193:6871:0:0:0,-58.0988,-618.461 0/0:133:133,0:133:4706:0:0:0,-40.037,-423.7 0/0:121:121,0:121:4304:0:0:0,-36.4246,-387.537 0/1:664:359,305:359:12846:305:10882:-779.393,0,-956.057 0/1:167:118,49:118:4211:49:1752:-107.692,0,-328.899 0/0:151:150,1:150:5338:1:36:0,-41.8573,-476.955 0/0:118:118,0:118:4151:0:0:0,-35.5215,-373.772 chr05 18815784 . C T 81670.9 PASS AB=0.453209;ABP=45.685;AC=33;AF=0.785714;AN=42;AO=3071;CIGAR=1X;DP=4306;DPB=4306;DPRA=0;EPP=6654.24;EPPR=2680.44;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9801;MQMR=59.9878;NS=21;NUMALT=1;ODDS=34.3276;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=109405;QR=43398;RO=1233;RPL=1709;RPP=88.1503;RPPR=156.273;RPR=1362;RUN=1;SAF=1709;SAP=88.1503;SAR=1362;SRF=764;SRP=156.273;SRR=469;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:176:0,176:0:0:176:6283:-565.549,-52.9813,0 1/1:160:0,160:0:0:160:5716:-514.557,-48.1648,0 0/1:93:69,23:69:2455:23:828:-46.7895,0,-193.15 0/1:179:98,81:98:3458:81:2900:-207.351,0,-257.548 0/1:357:199,157:199:7072:157:5599:-396.496,0,-529.016 0/1:179:94,85:94:3348:85:3021:-218.235,0,-247.651 1/1:224:1,223:1:36:223:7952:-712.106,-63.8324,0 0/1:127:58,69:58:2061:69:2463:-183.692,0,-147.529 1/1:214:2,212:2:72:212:7545:-672.258,-57.5837,0 1/1:149:0,149:0:0:149:5333:-480.096,-44.8535,0 0/1:330:273,57:273:9554:57:2016:-82.3717,0,-760.486 1/1:238:0,238:0:0:238:8512:-766.08,-71.6451,0 1/1:184:1,183:1:36:183:6472:-578.973,-51.7912,0 0/1:147:76,71:76:2720:71:2548:-185.319,0,-200.792 1/1:193:0,193:0:0:193:6878:-619.086,-58.0988,0 1/1:133:1,132:1:36:132:4711:-420.545,-36.4387,0 1/1:123:0,123:0:0:123:4406:-396.71,-37.0267,0 0/1:670:309,361:309:10722:361:12807:-950.766,0,-763.199 0/1:162:49,113:49:1720:113:4028:-313.943,0,-106.315 1/1:152:1,151:1:36:151:5316:-474.978,-42.1583,0 1/1:116:2,114:2:72:114:4071:-359.74,-28.0828,0 chr05 18817019 . G A 22901.6 PASS AB=0.561475;ABP=19.0294;AC=33;AF=0.785714;AN=42;AO=853;CIGAR=1X;DP=1073;DPB=1073;DPRA=0;EPP=44.0697;EPPR=14.4204;GTI=0;LEN=1;MEANALT=1;MQM=59.993;MQMR=60;NS=21;NUMALT=1;ODDS=13.2311;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30389;QR=7796;RO=220;RPL=853;RPP=1855.28;RPPR=480.734;RPR=0;RUN=1;SAF=363;SAP=44.0697;SAR=490;SRF=93;SRP=14.4204;SRR=127;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:2,47:2:72:47:1667:-143.48,-7.91375,0 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 0/1:26:16,10:16:567:10:352:-24.1914,0,-43.5339 0/1:51:22,29:22:780:29:1028:-77.4805,0,-55.1705 0/1:55:33,22:33:1180:22:782:-54.1466,0,-89.9514 0/1:38:18,20:18:640:20:716:-53.3286,0,-46.4902 1/1:70:0,70:0:0:70:2481:-223.543,-21.0721,0 0/1:39:19,20:19:672:20:720:-53.3886,0,-49.0667 1/1:73:1,72:1:36:72:2565:-227.5,-18.3769,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:40:2,38:2:72:38:1347:-114.693,-5.20448,0 0/1:41:22,19:22:773:19:676:-48.8258,0,-57.5473 1/1:88:0,88:0:0:88:3143:-283.094,-26.4906,0 1/1:43:0,43:0:0:43:1534:-138.353,-12.9443,0 1/1:33:1,32:1:36:32:1136:-98.9506,-6.33572,0 0/1:139:52,87:52:1829:87:3106:-237.923,0,-123.046 0/1:94:29,65:29:1031:65:2324:-181.123,0,-64.8058 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 1/1:100:0,100:0:0:100:3552:-319.889,-30.103,0 chr05 18977706 . G A 4261.15 PASS AB=0.428261;ABP=23.5732;AC=10;AF=0.238095;AN=42;AO=206;CIGAR=1X;DP=1013;DPB=1013;DPRA=1.26795;EPP=3.17896;EPPR=6.30653;GTI=1;LEN=1;MEANALT=1;MQM=56.4223;MQMR=59.6667;NS=21;NUMALT=1;ODDS=7.15892;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7332;QR=28682;RO=807;RPL=0;RPP=450.334;RPPR=1712.23;RPR=206;RUN=1;SAF=101;SAP=3.17896;SAR=105;SRF=391;SRP=4.69205;SRR=416;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1688:1:36:0,-10.8512,-148.593 0/0:38:37,1:37:1315:1:36:0,-7.84086,-115.053 0/1:27:11,16:11:396:16:568:-43.3082,0,-27.8549 0/1:42:20,22:20:720:22:792:-58.8468,0,-52.4132 0/1:76:34,42:34:1189:42:1504:-112.724,0,-84.4331 0/1:37:24,13:24:842:13:468:-31.2887,0,-64.959 0/0:60:60,0:60:2128:0:0:0,-18.0618,-191.684 0/1:32:23,9:23:807:9:320:-19.2643,0,-63.3055 0/0:58:58,0:58:2075:0:0:0,-17.4597,-187.012 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 1/1:4:0,4:0:0:4:144:-13.2969,-1.20412,0 0/0:19:18,1:18:640:1:36:0,-2.13309,-54.3322 0/0:46:46,0:46:1634:0:0:0,-13.8474,-147.347 0/1:40:24,16:24:847:16:572:-39.7201,0,-64.5075 0/0:66:66,0:66:2331:0:0:0,-19.868,-209.97 0/0:25:25,0:25:883:0:0:0,-7.52575,-79.7875 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.023 0/1:124:69,55:69:2449:55:1944:-137.375,0,-183.309 0/1:82:58,24:58:2067:24:840:-51.2017,0,-161.613 0/0:34:34,0:34:1209:0:0:0,-10.235,-109.093 0/0:113:111,2:111:3958:2:72:0,-27.1969,-349.523 chr05 18995810 . A T 17092.6 PASS AB=0.542733;ABP=32.1473;AC=9;AF=0.214286;AN=42;AO=999;CIGAR=1X;DP=3602;DPB=3602;DPRA=3.44536;EPP=2172.31;EPPR=5655.35;GTI=0;LEN=1;MEANALT=1;MQM=59.967;MQMR=59.627;NS=21;NUMALT=1;ODDS=13.6964;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35565;QR=92794;RO=2603;RPL=0;RPP=2172.31;RPPR=5655.35;RPR=999;RUN=1;SAF=0;SAP=2172.31;SAR=999;SRF=0;SRP=5655.35;SRR=2603;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:111:111,0:111:3959:0:0:0,-33.4143,-356.499 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.054 0/1:62:35,27:35:1256:27:955:-67.601,0,-94.6744 0/1:66:34,32:34:1207:32:1152:-84.1222,0,-88.0457 0/1:174:72,102:72:2560:102:3631:-274.617,0,-178.244 0/1:79:28,51:28:1008:51:1808:-139.219,0,-67.2374 0/0:73:73,0:73:2624:0:0:0,-21.9752,-236.287 0/1:83:38,45:38:1351:45:1600:-119.305,0,-96.8995 0/0:120:120,0:120:4300:0:0:0,-36.1236,-387.11 0/0:453:452,1:452:16105:1:32:0,-133.167,-1445.56 0/1:577:228,349:228:8113:349:12390:-941.211,0,-556.19 0/0:560:559,1:559:19923:1:36:0,-164.979,-1788.26 0/0:85:85,0:85:3047:0:0:0,-25.5875,-274.452 0/1:75:32,43:32:1144:43:1540:-116.316,0,-80.6923 0/0:73:73,0:73:2624:0:0:0,-21.9752,-236.4 0/0:58:58,0:58:2075:0:0:0,-17.4597,-187.017 0/0:62:62,0:62:2207:0:0:0,-18.6639,-198.521 0/1:649:327,322:327:11608:322:11498:-839.328,0,-849.134 0/1:72:46,26:46:1640:26:923:-61.7126,0,-126.209 0/0:56:56,0:56:1992:0:0:0,-16.8577,-179.543 0/0:52:52,0:52:1831:0:0:0,-15.6536,-165.051 chr05 18995832 . TGGA CAGC,CGGA 78905 PASS AB=0.467204,0.528495;ABP=20.3867,16.1279;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2671,987;CIGAR=2X1M1X,1X3M;DP=3674;DPB=3674;DPRA=0,3.25509;EPP=5630.6,2077.33;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.19048,2.75;MQM=59.5631,59.9666;MQMR=0;NS=21;NUMALT=2;ODDS=19.3434;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=94348,35161;QR=0;RO=0;RPL=2651,979;RPP=5630.6,2077.33;RPPR=0;RPR=20,8;RUN=1,1;SAF=0,0;SAP=5803.01,2146.25;SAR=2671,987;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:0,114,0:0:0:114,0:4024,0:-362.349,-34.3174,0,-362.349,-34.3174,-362.349 1/1:63:0,63,0:0:0:63,0:2237,0:-201.585,-18.9649,0,-201.585,-18.9649,-201.585 1/2:64:0,36,28:0:0:36,28:1290,979:-185.2,-79.9932,-69.1561,-105.56,0,-97.1311 1/2:64:0,32,32:0:0:32,32:1145,1148:-187.366,-93.9969,-84.3639,-93.7272,0,-84.0942 1/2:173:0,75,98:0:0:75,98:2617,3477:-496.475,-283.641,-261.064,-213.185,0,-183.685 1/2:83:0,32,51:0:0:32,51:1114,1806:-238.008,-147.468,-137.835,-90.8908,0,-75.5383 1/1:74:0,74,0:0:0:74,0:2619,0:-235.844,-22.2762,0,-235.844,-22.2762,-235.844 1/2:86:0,41,45:0:0:41,45:1440,1612:-249.02,-131.824,-119.481,-117.55,0,-104.004 1/1:122:0,117,0:0:0:117,0:4139,0:-372.349,-35.2205,0,-372.349,-35.2205,-372.349 1/1:468:0,466,1:0:0:466,1:16415,36:-1476.53,-140.28,0,-1473.59,-137.342,-1473.29 1/2:580:0,231,345:0:0:231,345:8174,12335:-1670.04,-1005.56,-936.027,-664.534,0,-560.679 1/1:568:0,564,2:0:0:564,2:20003,72:-1798.28,-169.781,0,-1792.41,-163.884,-1791.81 1/1:90:0,89,1:0:0:89,1:3158,27:-284.168,-26.7917,0,-282.04,-24.3929,-281.739 1/2:80:0,35,44:0:0:35,44:1225,1563:-226.818,-127.424,-116.888,-99.4533,0,-86.208 1/1:75:0,75,0:0:0:75,0:2656,0:-239.278,-22.5773,0,-239.278,-22.5773,-239.278 1/1:62:0,62,0:0:0:62,0:2179,0:-196.372,-18.6639,0,-196.372,-18.6639,-196.372 1/1:66:0,66,0:0:0:66,0:2314,0:-208.442,-19.868,0,-208.442,-19.868,-208.442 1/2:658:0,340,316:0:0:340,316:12014,11242:-1894.24,-916.271,-813.921,-978.057,0,-882.931 1/2:72:0,47,24:0:0:47,24:1678,864:-207.292,-70.498,-56.3496,-136.793,0,-129.569 1/1:57:0,57,0:0:0:57,0:1980,0:-178.461,-17.1587,0,-178.461,-17.1587,-178.461 1/1:55:0,55,0:0:0:55,0:1927,0:-173.415,-16.5567,0,-173.415,-16.5567,-173.415 chr05 19055305 . TTC TTT,TCT 80795.2 PASS AB=0.528686,0.468229;ABP=14.5964,17.222;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2348,763;CIGAR=2M1X,1M2X;DP=3124;DPB=3124;DPRA=0,1.05632;EPP=5032.38,1642.52;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.09524,2.53846;MQM=59.9753,59.9528;MQMR=0;NS=21;NUMALT=2;ODDS=18.1338;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=83648,25893;QR=0;RO=0;RPL=1704,614;RPP=1042.14,618.379;RPPR=0;RPR=644,149;RUN=1,1;SAF=1700,612;SAP=1026.51,607.838;SAR=648,151;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,122,1:0:0:122,1:4335,36:-389.963,-36.7257,0,-387.026,-33.4284,-386.725 1/1:69:0,69,0:0:0:69,0:2471,0:-222.643,-20.7711,0,-222.643,-20.7711,-222.643 1/2:40:0,17,23:0:0:17,23:612,808:-116.056,-66.1167,-60.9992,-50.2959,0,-43.3722 1/2:49:0,31,17:0:0:31,17:1116,601:-140.093,-49.0263,-39.6944,-91.147,0,-86.0295 1/2:150:0,71,78:0:0:71,78:2538,2657:-422.637,-215.688,-194.315,-207.095,0,-183.615 1/2:84:0,44,40:0:0:44,40:1559,1395:-240.807,-113.803,-100.558,-127.355,0,-115.314 1/1:124:0,123,0:0:0:123,0:4396,0:-395.531,-37.0267,0,-395.531,-37.0267,-395.531 1/2:75:0,42,33:0:0:42,33:1498,1142:-215.269,-93.1483,-80.5051,-122.471,0,-112.537 1/1:141:0,141,0:0:0:141,0:5048,0:-454.464,-42.4452,0,-454.464,-42.4452,-454.464 1/1:307:0,307,0:0:0:307,0:10903,0:-981.128,-92.4162,0,-981.128,-92.4162,-981.128 1/2:280:0,153,126:0:0:153,126:5456,4278:-791.783,-347.023,-300.965,-444.856,0,-406.926 1/1:302:0,301,0:0:0:301,0:10717,0:-964.228,-90.61,0,-964.228,-90.61,-964.228 1/1:68:0,67,0:0:0:67,0:2378,0:-214.062,-20.169,0,-214.062,-20.169,-214.062 1/2:77:0,39,38:0:0:39,38:1385,1331:-221.501,-108.647,-96.9069,-113.207,0,-101.768 1/1:93:0,93,0:0:0:93,0:3331,0:-300.007,-27.9958,0,-300.007,-27.9958,-300.007 1/1:50:0,45,1:0:0:45,1:1605,36:-144.411,-13.5464,0,-141.473,-10.5999,-141.172 1/1:46:0,46,0:0:0:46,0:1648,0:-148.609,-13.8474,0,-148.609,-13.8474,-148.609 1/2:735:0,373,360:0:0:373,360:13208,12050:-2051.53,-975.755,-863.471,-1075.83,0,-967.464 1/2:131:0,87,44:0:0:87,44:3132,1487:-376.437,-120.867,-94.6772,-255.915,0,-242.67 1/1:90:0,88,1:0:0:88,1:3147,36:-283.15,-26.4906,0,-280.212,-23.4983,-279.911 1/1:90:0,89,1:0:0:89,1:3165,36:-284.715,-26.7917,0,-281.777,-23.4944,-281.476 chr05 19176762 . TCGTGCT ACGTGCC,ACGTGCT 25795.8 PASS AB=0.472995,0.520458;ABP=6.88057,5.23153;AC=33,9;AF=0.785714,0.214286;AN=42;AO=889,320;CIGAR=1X5M1X,1X6M;DP=1228;DPB=1229.14;DPRA=0,1.50728;EPP=1933.45,697.881;EPPR=0;GTI=1;LEN=7,1;MEANALT=2.2381,2.63636;MQM=59.9719,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.68825;PAIRED=0,0;PAIREDR=0;PAO=2.66667,2.66667;PQA=96,96;PQR=0;PRO=0;QA=31592,11492;QR=0;RO=0;RPL=889,320;RPP=1933.45,697.881;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1933.45,697.881;SAR=889,320;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,36,0:0:0:36,0:1288,0:-115.855,-10.8371,0,-115.855,-10.8371,-115.855 1/1:40:0,40,0:0:0:40,0:1428,0:-128.766,-12.0412,0,-128.766,-12.0412,-128.766 1/2:71:0,32,39:0:0:32,39:1152,1400:-208.557,-114.559,-104.926,-94.3572,0,-82.617 1/2:110:0,48,62:0:0:48,62:1705,2228:-320.995,-182.068,-167.619,-139.233,0,-120.569 1/2:139:0,58,80:0:0:58,80:2057,2872:-401.917,-234.333,-216.874,-167.639,0,-143.557 1/2:55:0,19,34:0:0:19,34:684,1220:-155.371,-99.5591,-93.8396,-55.8561,0,-45.621 1/1:92:0,89,1:0:0:89,1:3150,36:-283.413,-26.7917,0,-280.475,-23.8293,-280.174 1/2:57:0,32,25:0:0:32,25:1125,900:-165.362,-73.7953,-64.1623,-91.9231,0,-84.3973 1/1:65:0,64,0:0:0:64,0:2285,0:-205.494,-19.2659,0,-205.494,-19.2659,-205.494 1/1:10:0,9,0:0:0:9,0:320,0:-28.8099,-2.70927,0,-28.8099,-2.70927,-28.8099 1/2:8:0,4,4:0:0:4,4:140,144:-23.4951,-12.1095,-10.9054,-11.7405,0,-10.5363 1/1:23:0,22,0:0:0:22,0:777,0:-69.9577,-6.62266,0,-69.9577,-6.62266,-69.9577 1/1:128:0,128,0:0:0:128,0:4555,0:-410.065,-38.5318,0,-410.065,-38.5318,-410.065 1/2:60:0,25,35:0:0:25,35:881,1252:-174.175,-102.449,-94.9233,-72.0801,0,-61.5441 1/1:66:0,64,0:0:0:64,0:2273,0:-204.486,-19.2659,0,-204.486,-19.2659,-204.486 1/1:29:0,28,0:0:0:28,0:1000,0:-89.9556,-8.42884,0,-89.9556,-8.42884,-89.9556 1/1:38:0,37,0:0:0:37,0:1309,0:-117.75,-11.1381,0,-117.75,-11.1381,-117.75 1/2:63:0,30,33:0:0:30,33:1042,1188:-181.892,-97.1922,-88.1613,-84.9525,0,-75.0185 1/2:48:0,41,6:0:0:41,6:1468,216:-137.28,-17.5792,-5.23701,-119.656,0,-117.849 1/1:63:0,61,1:0:0:61,1:2176,36:-195.747,-18.3628,0,-192.809,-15.4254,-192.508 1/1:22:0,22,0:0:0:22,0:777,0:-70.2504,-6.62266,0,-70.2504,-6.62266,-70.2504 chr05 19596747 . C T 5036.43 PASS AB=0.336423;ABP=253.784;AC=9;AF=0.214286;AN=42;AO=365;CIGAR=1X;DP=2002;DPB=2002;DPRA=1.37161;EPP=795.598;EPPR=3549.03;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=57.7135;NS=21;NUMALT=1;ODDS=4.88567;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13105;QR=58561;RO=1637;RPL=365;RPP=795.598;RPPR=3549.03;RPR=0;RUN=1;SAF=0;SAP=795.598;SAR=365;SRF=0;SRP=3557.71;SRR=1637;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:69:68,1:68:2405:1:36:0,-17.1728,-213.107 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/1:89:36,53:36:1292:53:1904:-144.846,0,-89.7921 0/1:197:138,59:138:4941:59:2124:-132.125,0,-384.602 0/1:210:140,70:140:5020:70:2516:-163.475,0,-386.431 0/1:112:89,23:89:3192:23:828:-41.1288,0,-252.17 0/0:80:80,0:80:2867:0:0:0,-24.0824,-258.266 0/1:117:66,51:66:2357:51:1824:-129.221,0,-176.139 0/0:193:193,0:193:6916:0:0:0,-58.0988,-622.272 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.1883 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.31304 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.8139 0/0:206:206,0:206:7336:0:0:0,-62.0122,-660.288 0/1:170:110,60:110:3940:60:2149:-142.501,0,-302.86 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.541 0/0:67:67,0:67:2393:0:0:0,-20.169,-215.625 0/0:68:68,0:68:2444:0:0:0,-20.47,-220.215 0/1:93:65,28:65:2324:28:1008:-63.0406,0,-180.913 0/1:86:70,16:70:2503:16:572:-25.9248,0,-199.357 0/0:56:55,1:55:1976:1:36:0,-13.2594,-174.516 0/0:48:48,0:48:1716:0:0:0,-14.4494,-154.718 chr05 19596749 . GCG ATA 7452.7 PASS AB=0.401279;ABP=108.909;AC=11;AF=0.261905;AN=42;AO=502;CIGAR=3X;DP=2058;DPB=2058;DPRA=1.40926;EPP=1093.09;EPPR=3366.62;GTI=1;LEN=3;MEANALT=1.45455;MQM=52.2888;MQMR=59.9535;NS=21;NUMALT=1;ODDS=1.23932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17750;QR=54380;RO=1549;RPL=502;RPP=1093.09;RPPR=3366.62;RPR=0;RUN=1;SAF=0;SAP=1093.09;SAR=502;SRF=0;SRP=3366.62;SRR=1549;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:72,0:72:2500:0:0:0,-21.6742,-225.251 0/0:33:32,0:32:1127:0:0:0,-9.63296,-101.107 0/0:90:90,0:90:3168:0:0:0,-27.0927,-285.348 0/1:197:114,80:114:4020:80:2825:-194.852,0,-303.258 0/1:215:114,101:114:4034:101:3575:-255.405,0,-298.53 0/1:113:48,65:48:1685:65:2305:-172.117,0,-117.918 0/0:85:85,0:85:2971:0:0:0,-25.5875,-267.623 0/1:121:82,39:82:2880:39:1383:-87.3267,0,-223.013 0/1:199:116,82:116:4096:82:2880:-199.122,0,-308.865 0/1:12:8,4:8:282:4:144:-9.66779,0,-22.1093 0/1:5:4,1:4:142:1:36:-2.07362,0,-11.6241 0/1:29:22,7:22:753:7:250:-14.0619,0,-59.3539 0/0:212:211,0:211:7410:0:0:0,-63.5173,-666.597 0/1:175:120,55:120:4212:55:1954:-122.808,0,-326.215 0/0:68:68,0:68:2394:0:0:0,-20.47,-215.716 0/0:70:70,0:70:2432:0:0:0,-21.0721,-219.135 0/0:68:68,0:68:2410:0:0:0,-20.47,-217.155 0/1:94:54,39:54:1878:39:1373:-95.1047,0,-140.943 0/1:91:62,29:62:2162:29:1025:-64.905,0,-167.453 0/0:58:58,0:58:2022:0:0:0,-17.4597,-182.249 0/0:51:51,0:51:1802:0:0:0,-15.3525,-162.459 chr05 19596769 . C T 7645.58 PASS AB=0.405032;ABP=99.521;AC=11;AF=0.261905;AN=42;AO=500;CIGAR=1X;DP=2023;DPB=2023;DPRA=1.24901;EPP=1088.75;EPPR=3307.99;GTI=1;LEN=1;MEANALT=1;MQM=52.308;MQMR=59.9744;NS=21;NUMALT=1;ODDS=0.67678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17928;QR=54330;RO=1522;RPL=500;RPP=1088.75;RPPR=3307.99;RPR=0;RUN=1;SAF=0;SAP=1088.75;SAR=500;SRF=0;SRP=3307.99;SRR=1522;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.851 0/0:32:31,1:31:1116:1:36:0,-6.03468,-97.1534 0/0:90:90,0:90:3209:0:0:0,-27.0927,-289.032 0/1:196:116,80:116:4145:80:2864:-198.07,0,-314.23 0/1:215:114,101:114:4057:101:3620:-258.858,0,-300.596 0/1:111:47,64:47:1692:64:2296:-171.855,0,-119.153 0/0:82:81,0:81:2896:0:0:0,-24.3834,-260.516 0/1:119:81,38:81:2900:38:1364:-86.2062,0,-225.413 0/1:195:114,81:114:4064:81:2896:-201.329,0,-307.248 0/1:12:8,4:8:284:4:144:-9.66779,0,-22.291 0/1:5:4,1:4:144:1:36:-2.07362,0,-11.8085 0/1:28:21,7:21:748:7:252:-14.5422,0,-59.2165 0/0:206:206,0:206:7358:0:0:0,-62.0122,-662.267 0/1:171:116,55:116:4133:55:1976:-125.865,0,-320.188 0/0:65:65,0:65:2305:0:0:0,-19.5669,-207.71 0/0:69:69,0:69:2431:0:0:0,-20.7711,-219.041 0/0:68:68,0:68:2436:0:0:0,-20.47,-219.495 0/1:91:52,39:52:1860:39:1404:-98.7534,0,-140.286 0/1:89:60,29:60:2144:29:1040:-66.8077,0,-166.436 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.349 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.306 chr05 19790318 . A C 1314.3 PASS AB=0.4375;ABP=10.0676;AC=9;AF=0.214286;AN=42;AO=91;CIGAR=1X;DP=544;DPB=544;DPRA=0.825397;EPP=200.614;EPPR=986.687;GTI=2;LEN=1;MEANALT=1;MQM=52.3956;MQMR=30.7704;NS=21;NUMALT=1;ODDS=0.66368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3244;QR=16225;RO=453;RPL=0;RPP=200.614;RPPR=986.687;RPR=91;RUN=1;SAF=0;SAP=200.614;SAR=91;SRF=0;SRP=986.687;SRR=453;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1620:0:0:0,-13.5463,-118.13 0/0:25:25,0:25:896:0:0:0,-7.52575,-65.7904 0/1:24:14,10:14:504:10:360:-24.3633,0,-29.8493 0/1:16:11,5:11:396:5:180:-11.7121,0,-24.353 0/1:77:37,40:37:1323:40:1427:-105.054,0,-71.5287 0/1:20:9,11:9:305:11:392:-29.5139,0,-16.4667 0/0:41:41,0:41:1468:0:0:0,-12.3422,-107.861 0/1:14:8,6:8:288:6:201:-14.1563,0,-17.5451 0/0:56:56,0:56:2012:0:0:0,-16.8577,-154.114 0/0:6:6,0:6:216:0:0:0,-1.80618,-16.3941 0/1:4:3,1:3:108:1:36:-2.38511,0,-7.14199 0/0:24:24,0:24:860:0:0:0,-7.22472,-64.4238 0/0:34:34,0:34:1220:0:0:0,-10.235,-88.65 0/1:13:6,7:6:212:7:252:-19.0829,0,-11.0428 0/0:29:29,0:29:1036:0:0:0,-8.72987,-76.3688 0/0:17:17,0:17:593:0:0:0,-5.11751,-44.9221 0/0:34:34,0:34:1224:0:0:0,-10.235,-93.5474 0/1:20:12,8:12:432:8:288:-19.6929,0,-27.0223 0/1:20:17,3:17:612:3:108:-4.04028,0,-38.682 0/0:14:14,0:14:504:0:0:0,-4.21442,-37.8555 0/0:11:11,0:11:396:0:0:0,-3.31133,-29.8318 chr05 19790324 . GTCCAT TTTCAC,TTTCAT 9265.62 PASS AB=0.561905,0.433333;ABP=10.0004,11.1171;AC=33,9;AF=0.785714,0.214286;AN=42;AO=462,91;CIGAR=1X1M1X2M1X,1X1M1X3M;DP=555;DPB=555;DPRA=0,0.811594;EPP=1006.23,200.614;EPPR=0;GTI=2;LEN=6,6;MEANALT=1.52381,2.11111;MQM=30.7835,52.3956;MQMR=0;NS=21;NUMALT=2;ODDS=0.908069;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=16235,3199;QR=0;RO=0;RPL=0,0;RPP=1006.23,200.614;RPPR=0;RPR=462,91;RUN=1,1;SAF=0,0;SAP=1006.23,200.614;SAR=462,91;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,47,0:0:0:47,0:1659,0:-122.413,-14.1484,0,-122.413,-14.1484,-122.413 1/1:25:0,25,0:0:0:25,0:869,0:-64.8994,-7.52575,0,-64.8994,-7.52575,-64.8994 1/2:24:0,14,9:0:0:14,9:491,309:-57.1024,-24.8771,-20.6627,-32.191,0,-29.4818 1/2:16:0,11,5:0:0:11,5:393,180:-40.4836,-15.0234,-11.7121,-25.7981,0,-24.293 1/2:79:0,38,41:0:0:38,41:1325,1450:-202.653,-118.009,-106.57,-84.9594,0,-72.6172 1/2:20:0,9,11:0:0:9,11:317,378:-51.1818,-30.9646,-28.2554,-20.5273,0,-17.216 1/1:43:0,43,0:0:0:43,0:1497,0:-111.878,-12.9443,0,-111.878,-12.9443,-111.878 1/2:14:0,8,6:0:0:8,6:283,214:-36.5071,-17.6313,-15.2231,-19.2046,0,-17.3984 1/1:57:0,57,0:0:0:57,0:2002,0:-154.689,-17.1587,0,-154.689,-17.1587,-154.689 1/1:6:0,6,0:0:0:6,0:215,0:-16.3701,-1.80618,0,-16.3701,-1.80618,-16.3701 1/2:4:0,3,1:0:0:3,1:108,36:-10.3875,-3.2882,-2.38511,-7.44302,0,-7.14199 1/1:25:0,25,0:0:0:25,0:879,0:-66.4081,-7.52575,0,-66.4081,-7.52575,-66.4081 1/1:34:0,34,0:0:0:34,0:1197,0:-87.9974,-10.235,0,-87.9974,-10.235,-87.9974 1/2:13:0,6,7:0:0:6,7:207,250:-33.5557,-20.7085,-18.9024,-13.1582,0,-11.051 1/1:30:0,30,0:0:0:30,0:1066,0:-78.8338,-9.0309,0,-78.8338,-9.0309,-78.8338 1/1:17:0,17,0:0:0:17,0:588,0:-44.961,-5.11751,0,-44.961,-5.11751,-44.961 1/1:35:0,35,0:0:0:35,0:1214,0:-94.6818,-10.5361,0,-94.6818,-10.5361,-94.6818 1/2:20:0,12,8:0:0:12,8:427,282:-51.9396,-22.9845,-19.3721,-29.2846,0,-26.8763 1/2:20:0,17,3:0:0:17,3:600,100:-47.3881,-8.41648,-3.29897,-39.2978,0,-38.3947 1/1:15:0,14,0:0:0:14,0:502,0:-37.6219,-4.21442,0,-37.6219,-4.21442,-37.6219 1/1:11:0,11,0:0:0:11,0:396,0:-29.8318,-3.31133,0,-29.8318,-3.31133,-29.8318 chr05 19794372 . T G 18695 PASS AB=0.456522;ABP=13.5844;AC=33;AF=0.785714;AN=42;AO=910;CIGAR=1X;DP=1261;DPB=1261;DPRA=0;EPP=1979.05;EPPR=765.197;GTI=1;LEN=1;MEANALT=1;MQM=59.9923;MQMR=59.9658;NS=21;NUMALT=1;ODDS=0.0370804;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32267;QR=12352;RO=351;RPL=0;RPP=1979.05;RPPR=765.197;RPR=910;RUN=1;SAF=0;SAP=1979.05;SAR=910;SRF=0;SRP=765.197;SRR=351;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:0,46:0:0:46:1643:-148.158,-13.8474,0 1/1:33:0,33:0:0:33:1168:-105.427,-9.93399,0 0/1:98:53,45:53:1896:45:1593:-114.157,0,-141.417 0/1:74:45,29:45:1574:29:1029:-70.6449,0,-119.673 0/1:85:48,37:48:1704:37:1320:-93.5144,0,-128.058 0/1:80:55,25:55:1948:25:880:-55.4353,0,-151.506 1/1:77:0,77:0:0:77:2740:-246.844,-23.1793,0 0/1:65:37,28:37:1289:28:992:-70.0274,0,-96.7391 1/1:116:0,116:0:0:116:4122:-371.167,-34.9195,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 1/1:18:0,18:0:0:18:636:-57.568,-5.41854,0 1/1:134:0,134:0:0:134:4749:-427.568,-40.338,0 0/1:82:48,34:48:1642:34:1203:-83.8906,0,-123.378 1/1:64:0,64:0:0:64:2275:-205.012,-19.2659,0 1/1:21:1,20:1:36:20:708:-60.4473,-2.72336,0 1/1:11:0,11:0:0:11:388:-35.2574,-3.31133,0 0/1:78:38,40:38:1348:40:1423:-104.886,0,-98.1399 0/1:75:22,53:22:771:53:1826:-142.04,0,-47.1331 1/1:47:0,47:0:0:47:1680:-151.481,-14.1484,0 1/1:41:0,41:0:0:41:1460:-131.696,-12.3422,0 chr05 19794406 . AT TT 6146.13 PASS AB=0.531532;ABP=8.76177;AC=9;AF=0.214286;AN=42;AO=355;CIGAR=1X1M;DP=1314;DPB=1314;DPRA=1.20895;EPP=756.609;EPPR=2040;GTI=1;LEN=1;MEANALT=1.3;MQM=59.9944;MQMR=59.9214;NS=21;NUMALT=1;ODDS=0.89543;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12741;QR=33787;RO=954;RPL=353;RPP=756.609;RPPR=2040;RPR=2;RUN=1;SAF=0;SAP=773.883;SAR=355;SRF=0;SRP=2074.59;SRR=954;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:47,0:47:1675:0:0:0,-14.1484,-151.036 0/0:34:34,0:34:1203:0:0:0,-10.235,-108.574 0/1:100:46,54:46:1630:54:1944:-145.133,0,-116.884 0/1:73:28,44:28:1000:44:1584:-120.818,0,-68.2817 0/1:86:38,48:38:1342:48:1728:-129.917,0,-95.1894 0/1:85:26,58:26:932:58:2084:-162.184,0,-58.5528 0/0:84:84,0:84:2994:0:0:0,-25.2865,-269.691 0/1:68:28,40:28:1002:40:1425:-108.075,0,-70.0259 0/0:121:121,0:121:4304:0:0:0,-36.4246,-387.536 0/0:9:9,0:9:313:0:0:0,-2.70927,-28.5051 0/1:7:3,1:3:108:1:36:-2.03433,0,-8.51122 0/0:18:18,0:18:641:0:0:0,-5.41854,-58.0196 0/0:141:141,0:141:4980:0:0:0,-42.4452,-448.35 0/1:84:36,48:36:1230:48:1728:-130.519,0,-85.7077 0/0:64:64,0:64:2267:0:0:0,-19.2659,-204.291 0/0:22:21,1:21:743:1:36:0,-3.02438,-63.4884 0/0:15:15,0:15:529:0:0:0,-4.51545,-47.9406 0/1:79:41,38:41:1457:38:1360:-98.9192,0,-107.644 0/1:84:61,23:61:2164:23:816:-48.4752,0,-169.737 0/0:50:50,0:50:1742:0:0:0,-15.0515,-156.496 0/0:43:43,0:43:1531:0:0:0,-12.9443,-138.082 chr05 19925821 . C T,G 37563.6 PASS AB=0.44898,0.548619;ABP=21.8445,20.1136;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1298,462;CIGAR=1X,1X;DP=1762;DPB=1762;DPRA=0,1.43275;EPP=2821.58,997.563;EPPR=7.35324;GTI=1;LEN=1,1;MEANALT=1.52381,2;MQM=52.3667,58.4697;MQMR=51;NS=21;NUMALT=2;ODDS=0.0643992;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46423,16498;QR=72;RO=2;RPL=0,1;RPP=2821.58,997.563;RPPR=7.35324;RPR=1298,461;RUN=1,1;SAF=1298,462;SAP=2821.58,1006.23;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77,0:0:0:77,0:2755,0:-245.765,-23.1793,0,-245.765,-23.1793,-245.765 1/1:67:0,67,0:0:0:67,0:2400,0:-213.901,-20.169,0,-213.901,-20.169,-213.901 1/2:83:0,29,54:0:0:29,54:1040,1929:-242.194,-157.577,-148.847,-84.9751,0,-68.7195 1/2:171:0,69,102:0:0:69,102:2468,3647:-496.966,-297.637,-276.866,-199.685,0,-168.98 1/2:151:2,54,95:2:72:54,95:1921,3393:-424.994,-270.714,-260.247,-149.092,0,-126.283 1/2:69:0,27,42:0:0:27,42:960,1491:-199.574,-121.828,-113.7,-78.0997,0,-65.4564 1/1:92:0,90,2:0:0:90,2:3225,72:-287.108,-27.0927,0,-281.235,-20.8599,-280.633 1/2:136:0,82,54:0:0:82,54:2932,1932:-394.975,-157.748,-133.063,-237.583,0,-221.328 1/1:115:0,115,0:0:0:115,0:4128,0:-367.847,-34.6185,0,-367.847,-34.6185,-367.847 1/1:8:0,8,0:0:0:8,0:288,0:-25.9854,-2.40824,0,-25.9854,-2.40824,-25.9854 1/2:9:0,4,5:0:0:4,5:140,180:-26.3857,-15.0469,-13.8428,-11.6924,0,-10.1872 1/1:35:0,35,0:0:0:35,0:1260,0:-112.589,-10.5361,0,-112.589,-10.5361,-112.589 1/1:94:0,94,0:0:0:94,0:3358,0:-298.669,-28.2968,0,-298.669,-28.2968,-298.669 1/2:109:0,52,57:0:0:52,57:1852,2040:-316.213,-166.646,-150.992,-149.923,0,-132.764 1/1:118:0,118,0:0:0:118,0:4205,0:-374.786,-35.5215,0,-374.786,-35.5215,-374.786 1/1:56:0,56,0:0:0:56,0:2011,0:-178.507,-16.8577,0,-178.507,-16.8577,-178.507 1/1:68:0,68,0:0:0:68,0:2411,0:-213.822,-20.47,0,-213.822,-20.47,-213.822 1/2:67:0,34,33:0:0:34,33:1216,1170:-193.892,-95.5233,-85.2883,-98.7236,0,-88.7896 1/2:38:0,23,15:0:0:23,15:828,540:-111.73,-44.414,-37.4903,-67.6749,0,-63.1595 1/1:153:0,150,3:0:0:150,3:5373,104:-481.085,-45.1545,0,-472.633,-36.3564,-471.73 1/1:46:0,46,0:0:0:46,0:1652,0:-147.956,-13.8474,0,-147.956,-13.8474,-147.956 chr05 19958861 . CCG TCA 25600 PASS AB=0.472934;ABP=7.47698;AC=33;AF=0.785714;AN=42;AO=1243;CIGAR=1X1M1X;DP=1621;DPB=1621;DPRA=0;EPP=2702.15;EPPR=806.455;GTI=0;LEN=3;MEANALT=1.38095;MQM=56.284;MQMR=59.9622;NS=21;NUMALT=1;ODDS=8.62947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43603;QR=12927;RO=370;RPL=0;RPP=2702.15;RPPR=806.455;RPR=1243;RUN=1;SAF=0;SAP=2702.15;SAR=1243;SRF=0;SRP=806.455;SRR=370;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,96:0:0:96:3331:-299.482,-28.8989,0 1/1:34:0,34:0:0:34:1197:-107.936,-10.235,0 0/1:85:39,46:39:1363:46:1632:-121.48,0,-97.3758 0/1:58:39,19:39:1365:19:673:-43.3111,0,-105.687 0/1:229:127,100:127:4435:100:3529:-248.704,0,-330.632 0/1:94:55,38:55:1929:38:1325:-91.1631,0,-145.525 1/1:152:0,152:0:0:152:5332:-479.426,-45.7566,0 0/1:44:15,27:15:537:27:935:-71.0687,0,-35.7286 1/1:138:0,138:0:0:138:4802:-432.067,-41.5421,0 1/1:12:0,12:0:0:12:422:-38.2986,-3.61236,0 0/1:5:3,2:3:108:2:72:-5.32966,0,-8.57002 1/1:9:0,9:0:0:9:311:-28.3124,-2.70927,0 1/1:89:0,89:0:0:89:3145:-282.895,-26.7917,0 0/1:75:34,41:34:1175:41:1451:-108.128,0,-83.4732 1/1:164:0,163:0:0:163:5737:-513.899,-49.0679,0 1/1:39:0,39:0:0:39:1376:-124.098,-11.7402,0 1/1:68:0,68:0:0:68:2406:-215.57,-20.47,0 0/1:67:37,30:37:1264:30:1056:-75.112,0,-93.8862 0/1:45:16,29:16:571:29:1023:-78.7743,0,-38.1769 1/1:77:5,72:5:180:72:2489:-207.548,-6.62725,0 1/1:40:0,39:0:0:39:1359:-122.228,-11.7402,0 chr05 20074708 . TA CG,CA 42734.3 PASS AB=0.451724,0.545977;ABP=20.6217,18.9843;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1522,480;CIGAR=2X,1X1M;DP=2008;DPB=2008;DPRA=0,1.42316;EPP=3307.99,1045.32;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.85714,2.25;MQM=59.5335,59.9792;MQMR=0;NS=21;NUMALT=2;ODDS=11.8634;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53611,17198;QR=0;RO=0;RPL=1522,480;RPP=3307.99,1045.32;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3307.99,1045.32;SAR=1522,480;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,97,0:0:0:97,0:3370,0:-303.501,-29.1999,0,-303.501,-29.1999,-303.501 1/1:98:0,97,1:0:0:97,1:3406,36:-306.202,-29.1999,0,-303.264,-25.9027,-302.963 1/2:64:0,28,36:0:0:28,36:980,1296:-185.202,-106.107,-97.678,-79.4482,0,-68.6111 1/2:170:0,82,87:0:0:82,87:2861,3120:-487.151,-254.477,-229.792,-232.668,0,-206.479 1/2:186:0,89,97:0:0:89,97:3131,3476:-538.63,-283.85,-257.059,-255.134,0,-225.934 1/2:99:0,35,64:0:0:35,64:1239,2288:-287.811,-186.916,-176.38,-101.25,0,-81.9842 1/1:108:0,108,0:0:0:108,0:3803,0:-341.475,-32.5112,0,-341.475,-32.5112,-341.475 1/2:110:0,36,74:0:0:36,74:1288,2660:-322.398,-217.369,-206.532,-105.387,0,-83.1105 1/1:134:0,132,0:0:0:132,0:4699,0:-422.763,-39.736,0,-422.763,-39.736,-422.763 1/1:18:0,18,0:0:0:18,0:620,0:-56.1209,-5.41854,0,-56.1209,-5.41854,-56.1209 1/2:19:0,11,8:0:0:11,8:381,284:-54.4543,-23.4951,-20.1838,-31.3104,0,-28.9021 1/1:35:0,35,0:0:0:35,0:1230,0:-111.002,-10.5361,0,-111.002,-10.5361,-111.002 1/1:68:0,68,0:0:0:68,0:2424,0:-218.405,-20.47,0,-218.405,-20.47,-218.405 1/2:99:0,44,54:0:0:44,54:1560,1936:-284.988,-157.901,-144.656,-127.083,0,-110.828 1/1:113:0,112,1:0:0:112,1:3926,36:-353.17,-33.7154,0,-350.233,-30.4181,-349.932 1/1:108:0,108,0:0:0:108,0:3843,0:-346.061,-32.5112,0,-346.061,-32.5112,-346.061 1/1:89:0,88,0:0:0:88,0:3062,0:-275.169,-26.4906,0,-275.169,-26.4906,-275.169 1/2:73:0,37,36:0:0:37,36:1298,1274:-209.745,-104.124,-92.9857,-105.973,0,-95.1359 1/2:50:0,31,19:0:0:31,19:1105,684:-146.238,-56.1708,-46.8388,-90.4259,0,-84.7063 1/1:234:0,230,3:0:0:230,3:8097,108:-728.137,-69.2369,0,-719.325,-60.4246,-718.422 1/1:36:0,36,0:0:0:36,0:1288,0:-116.206,-10.8371,0,-116.206,-10.8371,-116.206 chr05 20108387 . C T 56485.2 PASS AB=0.546094;ABP=26.6318;AC=33;AF=0.785714;AN=42;AO=2635;CIGAR=1X;DP=3223;DPB=3223;DPRA=0;EPP=5724.84;EPPR=1275.49;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.9279;MQMR=59.9573;NS=21;NUMALT=1;ODDS=11.9288;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93832;QR=20718;RO=586;RPL=0;RPP=5724.84;RPPR=1275.49;RPR=2635;RUN=1;SAF=0;SAP=5724.84;SAR=2635;SRF=0;SRP=1275.49;SRR=586;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:96:1,95:1:36:95:3373:-300.183,-25.3006,0 1/1:278:0,278:0:0:278:9920:-892.74,-83.6863,0 0/1:116:57,59:57:2006:59:2108:-155.066,0,-145.893 0/1:184:100,83:100:3544:83:2959:-211.095,0,-263.651 0/1:322:169,153:169:5966:153:5437:-392.526,0,-440.119 0/1:118:52,66:52:1850:66:2356:-176.777,0,-131.257 1/1:186:0,186:0:0:186:6634:-597.141,-55.9916,0 0/1:98:45,53:45:1599:53:1891:-140.967,0,-114.699 1/1:250:2,248:2:72:248:8794:-784.563,-68.4208,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:6:1,5:1:32:5:180:-14.7459,0,-1.39313 1/1:39:0,39:0:0:39:1386:-125.037,-11.7402,0 1/1:335:0,335:0:0:335:11924:-1072.81,-100.845,0 0/1:113:40,73:40:1407:73:2590:-199.33,0,-92.9054 1/1:221:1,220:1:36:220:7856:-703.444,-62.9294,0 1/1:114:0,114:0:0:114:4080:-367.386,-34.3174,0 1/1:159:0,159:0:0:159:5696:-512.699,-47.8638,0 0/1:112:34,77:34:1204:77:2748:-213.877,0,-74.9791 0/1:211:81,130:81:2858:130:4564:-347.412,0,-193.942 1/1:175:2,173:2:72:173:6178:-549.275,-45.8435,0 1/1:83:1,82:1:36:82:2906:-258.178,-21.3872,0 chr05 20108399 . C A 9141.78 PASS AB=0.452492;ABP=28.1818;AC=9;AF=0.214286;AN=42;AO=587;CIGAR=1X;DP=3225;DPB=3225;DPRA=1.04122;EPP=1277.66;EPPR=5731.35;GTI=1;LEN=1;MEANALT=1;MQM=59.8944;MQMR=59.9526;NS=21;NUMALT=1;ODDS=10.8661;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20656;QR=93837;RO=2638;RPL=0;RPP=1277.66;RPPR=5731.35;RPR=587;RUN=1;SAF=0;SAP=1277.66;SAR=587;SRF=0;SRP=5731.35;SRR=2638;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:93,1:93:3314:1:36:0,-24.6985,-294.88 0/0:283:283,0:283:10086:0:0:0,-85.1915,-907.661 0/1:116:59,57:59:2096:57:2022:-147.332,0,-153.985 0/1:183:86,97:86:3074:97:3427:-253.482,0,-221.799 0/1:321:150,171:150:5343:171:5953:-439.235,0,-384.363 0/1:117:66,51:66:2348:51:1819:-128.748,0,-176.356 0/0:183:183,0:183:6546:0:0:0,-55.0885,-589.222 0/1:103:56,47:56:2000:47:1667:-119.311,0,-149.268 0/0:246:244,2:244:8643:2:72:0,-67.2167,-770.979 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/0:39:39,0:39:1391:0:0:0,-11.7402,-125.488 0/0:327:327,0:327:11685:0:0:0,-98.4368,-1051.14 0/1:111:71,40:71:2528:40:1423:-94.9491,0,-194.357 0/0:225:224,1:224:7919:1:32:0,-64.5324,-709.502 0/0:116:116,0:116:4122:0:0:0,-34.9195,-371.163 0/0:156:156,0:156:5552:0:0:0,-46.9607,-499.807 0/1:109:73,36:73:2562:36:1265:-81.3383,0,-198.016 0/1:218:137,81:137:4894:81:2832:-189.496,0,-374.987 0/0:178:176,2:176:6237:2:72:0,-46.7466,-554.586 0/0:87:87,0:87:3065:0:0:0,-26.1896,-276.08 chr05 20108477 . T A 46925.6 PASS AB=0.55234;ABP=30.9696;AC=34;AF=0.809524;AN=42;AO=2184;CIGAR=1X;DP=2716;DPB=2716;DPRA=0;EPP=4745.51;EPPR=1158.23;GTI=0;LEN=1;MEANALT=1;MQM=59.9652;MQMR=59.9962;NS=21;NUMALT=1;ODDS=10.0506;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78209;QR=19025;RO=532;RPL=1;RPP=4736.82;RPPR=1158.23;RPR=2183;RUN=1;SAF=2183;SAP=4736.82;SAR=1;SRF=532;SRP=1158.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:1,161:1:36:161:5741:-513.152,-45.1686,0 1/1:82:1,81:1:36:81:2904:-257.997,-21.0862,0 0/1:119:57,62:57:2040:62:2212:-163.522,0,-148.049 0/1:144:68,76:68:2425:76:2728:-202.414,0,-175.156 0/1:321:153,168:153:5464:168:5996:-443.117,0,-395.259 0/1:80:35,45:35:1256:45:1616:-121.648,0,-89.2629 1/1:165:0,165:0:0:165:5924:-533.266,-49.67,0 0/1:136:55,81:55:1980:81:2897:-220.024,0,-137.534 1/1:198:0,198:0:0:198:7089:-638.068,-59.6039,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:53:1,52:1:36:52:1868:-164.801,-12.3563,0 1/1:126:0,126:0:0:126:4516:-406.607,-37.9298,0 0/1:140:50,90:50:1780:90:3216:-247.519,0,-118.339 1/1:294:0,294:0:0:294:10545:-948.951,-88.5028,0 1/1:74:0,74:0:0:74:2664:-240.005,-22.2762,0 1/1:145:0,145:0:0:145:5208:-468.428,-43.6494,0 0/1:145:74,71:74:2656:71:2544:-185.561,0,-195.636 0/1:90:34,56:34:1212:56:2001:-153.269,0,-82.2936 1/1:150:3,147:3:104:147:5264:-464.149,-35.4517,0 1/1:63:0,63:0:0:63:2236:-201.504,-18.9649,0 chr05 20703159 . G A 86913.1 PASS AB=0.455481;ABP=46.5128;AC=33;AF=0.785714;AN=42;AO=4092;CIGAR=1X;DP=5475;DPB=5475;DPRA=0;EPP=8888.68;EPPR=3006.16;GTI=0;LEN=1;MEANALT=1;MQM=59.9912;MQMR=60;NS=21;NUMALT=1;ODDS=20.2769;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=146551;QR=49496;RO=1383;RPL=0;RPP=8888.68;RPPR=3006.16;RPR=4092;RUN=1;SAF=4092;SAP=8888.68;SAR=0;SRF=1383;SRP=3006.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:154:0,154:0:0:154:5501:-495.216,-46.3586,0 1/1:118:0,118:0:0:118:4236:-381.418,-35.5215,0 0/1:128:71,57:71:2544:57:2040:-145.34,0,-190.679 0/1:88:32,56:32:1144:56:2010:-154.682,0,-76.7789 0/1:375:191,184:191:6850:184:6578:-479.215,0,-503.68 0/1:97:50,47:50:1783:47:1673:-121.655,0,-131.552 1/1:179:0,179:0:0:179:6412:-577.168,-53.8844,0 0/1:133:60,73:60:2148:73:2624:-196.37,0,-153.55 1/1:179:0,179:0:0:179:6382:-574.469,-53.8844,0 1/1:965:1,964:1:36:964:34472:-3097.79,-286.896,0 0/1:865:473,392:473:16937:392:14059:-1004.68,0,-1263.58 1/1:713:0,713:0:0:713:25565:-2300.12,-214.634,0 1/1:140:0,140:0:0:140:5016:-451.582,-42.1442,0 0/1:148:92,56:92:3280:56:2000:-135.721,0,-250.869 1/1:91:0,91:0:0:91:3268:-294.34,-27.3937,0 1/1:119:0,119:0:0:119:4272:-384.657,-35.8226,0 1/1:75:0,75:0:0:75:2688:-242.165,-22.5773,0 0/1:618:367,251:367:13144:251:9000:-623.941,0,-996.728 0/1:75:40,35:40:1414:35:1256:-90.768,0,-104.979 1/1:162:6,156:6:216:156:5591:-483.364,-28.9763,0 1/1:53:0,53:0:0:53:1908:-171.996,-15.9546,0 chr05 20737911 . T C 8226.11 PASS AB=0.54878;ABP=13.1791;AC=11;AF=0.261905;AN=42;AO=367;CIGAR=1X;DP=1077;DPB=1077;DPRA=1.35352;EPP=246.836;EPPR=9.21232;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9986;NS=21;NUMALT=1;ODDS=0.046708;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13013;QR=25383;RO=709;RPL=365;RPP=782.664;RPPR=1516.64;RPR=2;RUN=1;SAF=80;SAP=256.54;SAR=287;SRF=329;SRP=10.9764;SRR=380;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1864:1:36:0,-12.3563,-164.441 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:35:21,14:21:752:14:491:-33.9851,0,-57.4702 0/1:57:33,24:33:1180:24:843:-59.0293,0,-89.3493 0/1:31:17,13:17:612:13:449:-31.3478,0,-46.0227 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/1:57:32,25:32:1144:25:896:-63.8016,0,-86.1108 0/0:54:51,3:51:1824:3:108:0,-6.18045,-154.366 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.433 1/1:94:1,93:1:36:93:3320:-295.421,-24.6985,0 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:55:55,0:55:1964:0:0:0,-16.5566,-177.035 0/1:36:22,14:22:792:14:500:-34.4991,0,-60.7686 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.269 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:186:29,157:29:1036:157:5563:-444.805,0,-37.5623 0/1:66:50,16:50:1784:16:555:-30.4081,0,-140.975 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:103:103,0:103:3679:0:0:0,-31.0061,-331.313 chr05 20737929 . G A 18845.5 PASS AB=0.442656;ABP=17.2057;AC=31;AF=0.738095;AN=42;AO=713;CIGAR=1X;DP=1088;DPB=1088;DPRA=0;EPP=11.5652;EPPR=280.733;GTI=1;LEN=1;MEANALT=1;MQM=59.9986;MQMR=60;NS=21;NUMALT=1;ODDS=0.779258;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25344;QR=13369;RO=375;RPL=713;RPP=1551.27;RPPR=817.312;RPR=0;RUN=1;SAF=330;SAP=11.5652;SAR=383;SRF=78;SRP=280.733;SRR=297;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54:0:0:54:1944:-175.236,-16.2556,0 1/1:44:0,44:0:0:44:1530:-137.986,-13.2453,0 0/1:13:6,7:6:216:7:244:-18.386,0,-15.8771 0/1:37:17,20:17:591:20:716:-53.6296,0,-42.3772 0/1:55:22,33:22:788:33:1168:-88.8687,0,-54.6881 0/1:30:12,18:12:432:18:640:-48.8984,0,-30.1903 1/1:69:0,69:0:0:69:2472:-222.734,-20.7711,0 0/1:58:25,33:25:864:33:1176:-88.688,0,-60.6126 1/1:56:0,56:0:0:56:2003:-180.543,-16.8577,0 0/1:11:1,10:1:36:10:360:-29.433,0,-0.286945 0/0:98:97,1:97:3480:1:36:0,-25.9027,-309.813 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:54:0,54:0:0:54:1925:-173.526,-16.2556,0 0/1:36:15,21:15:540:21:752:-57.1692,0,-38.0995 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 1/1:32:0,32:0:0:32:1144:-103.27,-9.63296,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:191:163,28:163:5814:28:998:-32.6382,0,-465.878 0/1:66:16,50:16:572:50:1739:-136.922,0,-31.9454 1/1:32:0,32:0:0:32:1135:-102.458,-9.63296,0 1/1:103:1,102:1:36:102:3606:-321.149,-27.4078,0 chr05 21119134 . CCATAT TCATAT,TCACAC 24512.4 PASS AB=0.469512,0.522358;ABP=6.98251,5.14646;AC=33,9;AF=0.785714,0.214286;AN=42;AO=896,260;CIGAR=1X5M,1X2M1X1M1X;DP=1164;DPB=1164;DPRA=0,0.928846;EPP=1948.65,567.593;EPPR=5.18177;GTI=0;LEN=1,6;MEANALT=1.90476,2.33333;MQM=59.7991,40.8769;MQMR=60;NS=21;NUMALT=2;ODDS=1.03636;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31971,9044;QR=36;RO=1;RPL=896,260;RPP=1948.65,567.593;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=896,260;SAP=1948.65,567.593;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:1,47,0:1:36:47,0:1683,0:-148.151,-10.8512,0,-148.452,-14.1484,-151.389 1/1:61:0,61,0:0:0:61,0:2171,0:-195.595,-18.3628,0,-195.595,-18.3628,-195.595 1/2:61:0,22,38:0:0:22,38:779,1325:-168.326,-104.866,-98.2428,-63.4665,0,-52.0274 1/2:50:0,36,14:0:0:36,14:1292,484:-143.993,-38.5907,-27.7537,-105.746,0,-101.531 1/2:133:0,66,67:0:0:66,67:2364,2357:-377.5,-184.698,-164.831,-193.15,0,-172.981 1/2:63:0,19,44:0:0:19,44:675,1538:-176.536,-121.529,-115.809,-55.3574,0,-42.1121 1/1:104:0,103,0:0:0:103,0:3639,0:-327.33,-31.0061,0,-327.33,-31.0061,-327.33 1/2:29:0,19,10:0:0:19,10:680,352:-83.3095,-27.8547,-22.1351,-55.8004,0,-52.7901 1/1:90:0,90,0:0:0:90,0:3224,0:-290.379,-27.0927,0,-290.379,-27.0927,-290.379 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/2:7:0,6,1:0:0:6,1:212,32:-20.1458,-2.8475,-1.04132,-17.6186,0,-17.3176 1/1:17:0,17,0:0:0:17,0:612,0:-55.4134,-5.11751,0,-55.4134,-5.11751,-55.4134 1/1:52:0,52,0:0:0:52,0:1861,0:-167.766,-15.6536,0,-167.766,-15.6536,-167.766 1/2:39:0,21,16:0:0:21,16:741,554:-103.221,-42.8703,-36.5486,-60.3853,0,-55.5688 1/1:105:0,104,0:0:0:104,0:3695,0:-332.491,-31.3071,0,-332.491,-31.3071,-332.491 1/1:29:0,28,1:0:0:28,1:1000,36:-90.0294,-8.42884,0,-87.7941,-5.90879,-87.493 1/1:65:0,64,1:0:0:64,1:2296,36:-206.546,-19.2659,0,-203.664,-16.0308,-203.363 1/2:75:0,21,53:0:0:21,53:748,1824:-202.557,-141.582,-135.26,-61.0119,0,-45.0573 1/2:35:0,21,14:0:0:21,14:756,474:-99.5343,-37.8513,-31.5297,-62.0256,0,-57.8112 1/1:58:0,57,1:0:0:57,1:2048,32:-184.263,-17.1587,0,-181.743,-14.3236,-181.442 1/1:35:0,34,0:0:0:34,0:1211,0:-108.985,-10.235,0,-108.985,-10.235,-108.985 chr05 21123402 . A T 30748.7 PASS AB=0.529716;ABP=8.94678;AC=33;AF=0.785714;AN=42;AO=1448;CIGAR=1X;DP=1819;DPB=1819;DPRA=0;EPP=3147.3;EPPR=804.284;GTI=0;LEN=1;MEANALT=1.09524;MQM=60;MQMR=59.9837;NS=21;NUMALT=1;ODDS=12.4023;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51558;QR=13118;RO=369;RPL=0;RPP=3147.3;RPPR=804.284;RPR=1448;RUN=1;SAF=0;SAP=3147.3;SAR=1448;SRF=0;SRP=804.284;SRR=369;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:0,115:0:0:115:4098:-369.007,-34.6185,0 1/1:60:0,60:0:0:60:2136:-192.508,-18.0618,0 0/1:60:36,24:36:1288:24:856:-59.2993,0,-98.1618 0/1:103:43,60:43:1540:60:2143:-162.131,0,-107.887 0/1:152:70,82:70:2495:82:2924:-217.639,0,-179.046 0/1:90:41,49:41:1459:49:1747:-130.421,0,-104.513 1/1:140:4,136:4:144:136:4855:-423.791,-28.8306,0 0/1:79:43,36:43:1540:36:1288:-92.4422,0,-115.112 1/1:127:0,126:0:0:126:4468:-401.931,-37.9298,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:9:8,1:8:284:1:36:-0.889005,0,-23.1941 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:91:0,91:0:0:91:3246:-292.361,-27.3937,0 0/1:85:41,44:41:1435:44:1567:-115.733,0,-103.85 1/1:143:0,142:0:0:142:5083:-457.254,-42.7463,0 1/1:78:0,78:0:0:78:2787:-251.07,-23.4803,0 1/1:151:0,151:0:0:151:5332:-480.017,-45.4555,0 0/1:162:71,91:71:2516:91:3256:-244.494,0,-177.926 0/1:34:11,23:11:381:23:807:-62.7141,0,-24.3856 1/1:70:0,70:0:0:70:2469:-222.464,-21.0721,0 1/1:43:1,42:1:36:42:1492:-130.976,-9.34602,0 chr05 21123429 . A G 6082.9 PASS AB=0.470812;ABP=8.84131;AC=9;AF=0.214286;AN=42;AO=376;CIGAR=1X;DP=1867;DPB=1867;DPRA=1.00225;EPP=810.821;EPPR=3214.67;GTI=0;LEN=1;MEANALT=1;MQM=59.984;MQMR=60;NS=21;NUMALT=1;ODDS=12.9899;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13396;QR=53485;RO=1491;RPL=1;RPP=810.821;RPPR=3214.67;RPR=375;RUN=1;SAF=0;SAP=819.484;SAR=376;SRF=0;SRP=3240.68;SRR=1491;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:116,0:116:4172:0:0:0,-34.9195,-375.66 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.261 0/1:62:24,38:24:860:38:1356:-103.677,0,-59.058 0/1:104:61,43:61:2192:43:1520:-105.786,0,-166.238 0/1:155:82,73:82:2952:73:2620:-189.388,0,-219.253 0/1:95:53,42:53:1904:42:1508:-107.417,0,-143.04 0/0:148:144,4:144:5169:4:144:0,-31.2388,-452.033 0/1:81:38,43:38:1368:43:1548:-115.23,0,-99.0374 0/0:128:128,0:128:4600:0:0:0,-38.5318,-414.162 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:9:1,8:1:36:8:276:-22.4654,0,-0.889005 0/0:11:11,0:11:381:0:0:0,-3.31133,-34.6206 0/0:92:92,0:92:3312:0:0:0,-27.6948,-298.297 0/1:85:44,41:44:1531:41:1460:-106.107,0,-112.488 0/0:147:147,0:147:5280:0:0:0,-44.2514,-475.334 0/0:82:82,0:82:2948:0:0:0,-24.6845,-265.553 0/0:155:155,0:155:5541:0:0:0,-46.6596,-498.814 0/1:162:91,71:91:3267:71:2500:-176.482,0,-245.482 0/1:35:23,12:23:820:12:432:-28.6851,0,-63.5865 0/0:75:75,0:75:2700:0:0:0,-22.5772,-243.243 0/0:43:42,1:42:1508:1:32:0,-9.74498,-132.815 chr05 21177267 . ATGT TTGT,TTGG 51018.2 PASS AB=0.579365,0.419643;ABP=58.1588,59.5461;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1951,429;CIGAR=1X3M,1X2M1X;DP=2382;DPB=2382;DPRA=0,1.46975;EPP=4187.6,925.906;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.71429,2.07692;MQM=48.1358,40.8112;MQMR=0;NS=21;NUMALT=2;ODDS=1.42432;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69815,15191;QR=0;RO=0;RPL=1945,428;RPP=4187.6,925.906;RPPR=0;RPR=6,1;RUN=1,1;SAF=0,0;SAP=4239.55,934.572;SAR=1951,429;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,100,3:0:0:100,3:3564,98:-317.831,-30.103,0,-310.064,-22.0136,-309.161 1/1:92:0,91,1:0:0:91,1:3248,36:-287.47,-27.3937,0,-284.662,-24.2403,-284.361 1/2:123:0,68,55:0:0:68,55:2431,1958:-350.981,-155.008,-134.538,-196.322,0,-179.765 1/2:179:0,114,65:0:0:114,65:4081,2312:-511.652,-181.761,-147.443,-330.239,0,-310.672 1/2:162:0,93,69:0:0:93,69:3348,2417:-461.912,-191.09,-163.095,-271.169,0,-250.398 1/2:97:0,58,39:0:0:58,39:2053,1390:-272.11,-108.015,-90.555,-164.439,0,-152.699 1/1:85:0,84,0:0:0:84,0:3016,0:-266.83,-25.2865,0,-266.83,-25.2865,-266.83 1/2:118:0,69,49:0:0:69,49:2457,1731:-331.481,-133.607,-112.836,-198.217,0,-183.466 1/1:229:0,228,1:0:0:228,1:8192,36:-734.637,-68.6348,0,-731.755,-65.3997,-731.454 1/1:15:0,15,0:0:0:15,0:540,0:-48.5086,-4.51545,0,-48.5086,-4.51545,-48.5086 1/2:7:0,4,3:0:0:4,3:144,107:-19.5973,-8.00577,-6.80165,-11.9254,0,-11.0223 1/1:37:0,37,0:0:0:37,0:1317,0:-117.785,-11.1381,0,-117.785,-11.1381,-117.785 1/1:227:0,227,0:0:0:227,0:8133,0:-726.692,-68.3338,0,-726.692,-68.3338,-726.692 1/2:165:0,83,82:0:0:83,82:2967,2905:-467.461,-227.749,-202.764,-240.06,0,-215.375 1/1:247:0,246,1:0:0:246,1:8833,35:-788.718,-74.0534,0,-785.941,-70.9334,-785.64 1/1:95:0,95,0:0:0:95,0:3408,0:-305.39,-28.5979,0,-305.39,-28.5979,-305.39 1/1:56:0,56,0:0:0:56,0:2012,0:-180.584,-16.8577,0,-180.584,-16.8577,-180.584 1/2:71:0,38,32:0:0:38,32:1366,1130:-197.354,-87.2657,-75.8266,-110.122,0,-100.489 1/2:86:0,57,29:0:0:57,29:2029,1036:-246.111,-81.8846,-64.7258,-164.575,0,-155.845 1/1:117:0,117,0:0:0:117,0:4158,0:-370.294,-35.2205,0,-370.294,-35.2205,-370.294 1/1:71:0,71,0:0:0:71,0:2518,0:-223.32,-21.3731,0,-223.32,-21.3731,-223.32 chr05 21177280 . GCCCTTT GCCTTT 39221.2 PASS AB=0.565657;ABP=40.0789;AC=33;AF=0.785714;AN=42;AO=1895;CIGAR=1M1D5M;DP=2340;DPB=2067.29;DPRA=0;EPP=4117.95;EPPR=925.886;GTI=1;LEN=1;MEANALT=1.95238;MQM=48.2369;MQMR=40.9388;NS=21;NUMALT=1;ODDS=0.527677;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66751;QR=14976;RO=425;RPL=1895;RPP=4117.95;RPPR=925.886;RPR=0;RUN=1;SAF=0;SAP=4117.95;SAR=1895;SRF=0;SRP=925.886;SRR=425;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:3,100:3:104:100:3481:-301.728,-21.7617,0 1/1:90:1,89:1:36:89:3144:-275.51,-23.6382,0 0/1:120:55,63:55:1942:63:2217:-162.603,0,-134.618 0/1:177:65,111:65:2293:111:3881:-293.403,0,-146.549 0/1:157:69,88:69:2416:88:3119:-231.736,0,-164.409 0/1:95:38,55:38:1352:55:1929:-143.2,0,-88.8163 1/1:85:0,84:0:0:84:2986:-264.624,-25.2865,0 0/1:116:49,66:49:1727:66:2279:-168.602,0,-113.132 1/1:222:1,219:1:36:219:7824:-698.585,-63.0391,0 1/1:15:0,15:0:0:15:532:-47.819,-4.51545,0 0/1:7:3,4:3:102:4:144:-11.0223,0,-6.69677 1/1:37:0,37:0:0:37:1317:-117.785,-11.1381,0 1/1:220:0,218:0:0:218:7751:-692.631,-65.6245,0 0/1:162:80,78:80:2809:78:2742:-197.68,0,-197.978 1/1:245:1,243:1:36:243:8530:-759.132,-70.2887,0 1/1:94:0,94:0:0:94:3323:-297.706,-28.2968,0 1/1:54:0,53:0:0:53:1851:-165.853,-15.9546,0 0/1:69:32,37:32:1132:37:1320:-96.7659,0,-76.7871 0/1:87:28,58:28:991:58:2027:-155.571,0,-61.0953 1/1:114:0,114:0:0:114:3954:-352.442,-34.3174,0 1/1:70:0,69:0:0:69:2400:-213.17,-20.7711,0 chr05 21177287 . T C 5963.89 PASS AB=0.41791;ABP=61.8345;AC=9;AF=0.214286;AN=42;AO=426;CIGAR=1X;DP=2382;DPB=2382;DPRA=1.46975;EPP=928.058;EPPR=4250.41;GTI=1;LEN=1;MEANALT=1;MQM=40.8216;MQMR=48.1028;NS=21;NUMALT=1;ODDS=2.32502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15190;QR=69583;RO=1956;RPL=426;RPP=928.058;RPPR=4250.41;RPR=0;RUN=1;SAF=0;SAP=928.058;SAR=426;SRF=0;SRP=4250.41;SRR=1956;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:100,3:100:3569:3:108:0,-21.1985,-307.922 0/0:95:94,1:94:3344:1:36:0,-25.1434,-292.353 0/1:123:68,55:68:2424:55:1972:-135.62,0,-178.652 0/1:178:113,65:113:4032:65:2336:-149.112,0,-306.093 0/1:161:94,67:94:3291:67:2381:-159.25,0,-245.748 0/1:99:60,39:60:2133:39:1404:-90.6092,0,-158.566 0/0:85:85,0:85:2982:0:0:0,-25.5875,-264.141 0/1:117:68,49:68:2432:49:1734:-113.011,0,-181.354 0/0:230:229,1:229:8166:1:36:0,-65.7008,-728.778 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.1638 0/1:7:4,3:4:144:3:100:-6.62456,0,-11.0223 0/0:37:37,0:37:1332:0:0:0,-11.1381,-118.986 0/0:226:226,0:226:8050:0:0:0,-68.0328,-719.847 0/1:166:83,83:83:2930:83:2957:-206.437,0,-211.398 0/0:246:245,1:245:8688:1:36:0,-70.5507,-772.838 0/0:93:93,0:93:3320:0:0:0,-27.9958,-297.578 0/0:55:55,0:55:1964:0:0:0,-16.5566,-176.429 0/1:70:39,31:39:1400:31:1097:-73.489,0,-103.389 0/1:84:56,28:56:2004:28:993:-61.5192,0,-154.334 0/0:117:117,0:117:4173:0:0:0,-35.2205,-370.271 0/0:75:75,0:75:2669:0:0:0,-22.5772,-235.904 chr05 21271582 . C T 138.626 PASS AB=0.368852;ABP=112.367;AC=9;AF=0.214286;AN=42;AO=277;CIGAR=1X;DP=1409;DPB=1409;DPRA=1.35524;EPP=604.508;EPPR=2461.12;GTI=5;LEN=1;MEANALT=1;MQM=19.3682;MQMR=59.9514;NS=21;NUMALT=1;ODDS=2.3263;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9893;QR=40476;RO=1132;RPL=0;RPP=604.508;RPPR=2461.12;RPR=277;RUN=1;SAF=277;SAP=604.508;SAR=0;SRF=1132;SRP=2461.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:88:85,3:85:3044:3:108:0,-19.4188,-267.118 0/0:51:51,0:51:1816:0:0:0,-15.3525,-163.721 0/1:123:74,49:74:2644:49:1752:-50.5058,0,-201.18 0/1:80:41,39:41:1452:39:1392:-47.5973,0,-106.894 0/1:107:73,34:73:2612:34:1224:-28.5082,0,-202.491 0/1:71:54,17:54:1920:17:604:-3.19058,0,-151.704 0/0:51:50,1:50:1792:1:36:0,-13.7567,-159.967 0/1:124:78,46:78:2800:46:1621:-36.541,0,-214.912 0/0:95:95,0:95:3396:0:0:0,-28.5978,-305.855 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:4:3,1:3:108:1:36:-0.391667,0,-8.87105 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:91:91,0:91:3240:0:0:0,-27.3937,-291.823 0/1:94:58,36:58:2076:36:1292:-36.3424,0,-158.812 0/0:106:106,0:106:3804:0:0:0,-31.9092,-342.557 0/0:42:42,0:42:1496:0:0:0,-12.6433,-134.935 0/0:47:45,2:45:1608:2:72:0,-10.0004,-140.862 0/1:78:50,28:50:1792:28:1004:-21.8806,0,-137.995 0/1:51:31,20:31:1116:20:716:-20.4628,0,-85.3992 0/0:51:50,1:50:1784:1:36:0,-13.5593,-159.049 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 chr05 21271602 . C G 24134 PASS AB=0.632597;ABP=113.575;AC=33;AF=0.785714;AN=42;AO=1130;CIGAR=1X;DP=1401;DPB=1401;DPRA=0;EPP=2448.1;EPPR=591.479;GTI=5;LEN=1;MEANALT=1;MQM=60;MQMR=19.369;NS=21;NUMALT=1;ODDS=1.03049;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40391;QR=9592;RO=271;RPL=1;RPP=2448.1;RPPR=591.479;RPR=1129;RUN=1;SAF=1130;SAP=2456.77;SAR=0;SRF=271;SRP=591.479;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:2,85:2:63:85:3048:-270.834,-22.4741,0 1/1:53:0,53:0:0:53:1890:-170.378,-15.9546,0 0/1:122:48,74:48:1715:74:2640:-201.122,0,-48.9836 0/1:80:38,42:38:1352:42:1470:-108.508,0,-45.7929 0/1:108:37,71:37:1298:71:2548:-197.059,0,-34.3686 0/1:69:16,53:16:564:53:1899:-150.416,0,-2.35073 1/1:51:1,50:1:36:50:1788:-159.607,-13.7567,0 0/1:119:41,78:41:1455:78:2800:-216.417,0,-30.2838 1/1:94:0,94:0:0:94:3371:-303.605,-28.2968,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:4:1,3:1:27:3:108:-8.87105,0,-0.363488 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 1/1:92:0,92:0:0:92:3261:-293.71,-27.6948,0 0/1:92:36,56:36:1280:56:1999:-152.488,0,-36.902 1/1:108:0,108:0:0:108:3884:-349.753,-32.5112,0 1/1:42:0,42:0:0:42:1508:-136.015,-12.6433,0 1/1:45:1,44:1:36:44:1584:-140.668,-11.3632,0 0/1:79:29,50:29:1027:50:1787:-137.331,0,-24.3368 0/1:51:20,31:20:703:31:1087:-82.7859,0,-20.3926 1/1:50:1,49:1:36:49:1755:-156.44,-13.2582,0 1/1:31:0,31:0:0:31:1104:-99.6706,-9.33193,0 chr05 21271615 . A C 81.0085 PASS AB=0.368932;ABP=110.593;AC=9;AF=0.214286;AN=42;AO=272;CIGAR=1X;DP=1386;DPB=1386;DPRA=1.34086;EPP=593.651;EPPR=972.71;GTI=5;LEN=1;MEANALT=1.07692;MQM=19.261;MQMR=59.9973;NS=21;NUMALT=1;ODDS=1.31083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9505;QR=39878;RO=1113;RPL=272;RPP=593.651;RPPR=972.71;RPR=0;RUN=1;SAF=272;SAP=593.651;SAR=0;SRF=1113;SRP=2419.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:85:83,2:83:2980:2:72:0,-21.8078,-264.652 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 0/1:120:74,46:74:2664:46:1612:-46.1756,0,-203.881 0/1:78:42,36:42:1500:36:1274:-40.9484,0,-111.814 0/1:106:69,37:69:2476:37:1285:-34.3014,0,-191.184 0/1:69:52,17:52:1852:17:600:-3.78694,0,-146.189 0/0:49:48,1:48:1728:1:36:0,-13.1547,-154.21 0/1:124:79,45:79:2809:45:1577:-34.9586,0,-215.721 0/0:96:96,0:96:3441:0:0:0,-28.8989,-309.901 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:4:3,1:3:108:1:32:-0.385373,0,-8.87105 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:88:88,0:88:3164:0:0:0,-26.4906,-284.984 0/1:94:59,35:59:2108:35:1213:-34.3123,0,-161.691 0/0:106:106,0:106:3796:0:0:0,-31.9092,-341.838 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/0:45:43,2:43:1540:2:57:0,-9.71711,-135.064 0/1:77:48,29:48:1724:29:1009:-25.0487,0,-132.266 0/1:49:29,20:29:1040:20:702:-20.9566,0,-79.1639 0/0:50:48,1:48:1712:1:36:0,-13.2268,-152.482 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 chr05 21271622 . T G 160.442 PASS AB=0.375683;ABP=101.272;AC=9;AF=0.214286;AN=42;AO=281;CIGAR=1X;DP=1406;DPB=1406;DPRA=1.34215;EPP=613.194;EPPR=2419.93;GTI=4;LEN=1;MEANALT=1;MQM=19.3701;MQMR=59.9973;NS=21;NUMALT=1;ODDS=0.667546;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10034;QR=40250;RO=1125;RPL=281;RPP=613.194;RPPR=2419.93;RPR=0;RUN=1;SAF=281;SAP=613.194;SAR=0;SRF=1125;SRP=2445.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:86:84,2:84:2992:2:68:0,-22.1237,-265.745 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 0/1:124:74,50:74:2645:50:1773:-52.1292,0,-200.967 0/1:82:42,40:42:1508:40:1432:-48.6735,0,-111.33 0/1:109:71,38:71:2529:38:1360:-36.0442,0,-195.048 0/1:70:53,17:53:1904:17:612:-3.50302,0,-150.566 0/0:49:48,1:48:1720:1:36:0,-13.1547,-153.49 0/1:125:80,45:80:2872:45:1600:-34.777,0,-221.088 0/0:96:96,0:96:3433:0:0:0,-28.8989,-309.182 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:4:3,1:3:108:1:36:-0.391667,0,-8.87105 0/0:18:18,0:18:629:0:0:0,-5.41854,-56.9338 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.382 0/1:90:54,36:54:1940:36:1281:-37.3428,0,-147.782 0/0:106:106,0:106:3766:0:0:0,-31.9092,-339.138 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/0:46:44,2:44:1580:2:72:0,-9.69939,-138.344 0/1:77:49,28:49:1760:28:1008:-23.6312,0,-135.505 0/1:51:31,20:31:1112:20:720:-20.477,0,-85.0388 0/0:51:50,1:50:1792:1:36:0,-13.5593,-159.769 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 chr05 21288160 . TAGAATT CAAAATC,CAAAATT 31240.8 PASS AB=0.568655,0.428571;ABP=32.5285,34.962;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1384,310;CIGAR=1X1M1X3M1X,1X1M1X4M;DP=1701;DPB=1701;DPRA=0,1.35706;EPP=3008.33,676.167;EPPR=5.18177;GTI=0;LEN=7,7;MEANALT=1.71429,2.44444;MQM=34.9776,45.171;MQMR=58;NS=21;NUMALT=2;ODDS=10.3409;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48120,10588;QR=36;RO=1;RPL=0,1;RPP=3008.33,667.509;RPPR=5.18177;RPR=1384,309;RUN=1,1;SAF=0,1;SAP=3008.33,667.509;SAR=1384,309;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,97,0:0:0:97,0:3351,0:-272.748,-29.1999,0,-272.748,-29.1999,-272.748 1/1:56:0,55,0:0:0:55,0:1920,0:-161.412,-16.5567,0,-161.412,-16.5567,-161.412 1/2:57:0,37,20:0:0:37,20:1304,694:-151.751,-56.0379,-44.8998,-96.0482,0,-90.0276 1/2:127:0,68,59:0:0:68,59:2374,2007:-332.294,-160.974,-140.504,-171.645,0,-153.884 1/2:171:0,86,83:0:0:86,83:3020,2801:-442.076,-223.362,-197.473,-218.725,0,-193.739 1/2:102:0,60,42:0:0:60,42:2102,1434:-274.19,-115.877,-97.815,-158.647,0,-146.004 1/1:137:0,134,1:0:0:134,1:4678,36:-393.949,-40.338,0,-391.029,-37.3943,-390.728 1/2:79:0,58,21:0:0:58,21:2033,725:-205.02,-58.1334,-40.6737,-147.22,0,-140.898 1/1:119:0,119,0:0:0:119,0:4109,0:-331.891,-35.8226,0,-331.891,-35.8226,-331.891 1/1:12:0,12,0:0:0:12,0:411,0:-33.9195,-3.61236,0,-33.9195,-3.61236,-33.9195 1/1:4:0,4,0:0:0:4,0:138,0:-11.488,-1.20412,0,-11.488,-1.20412,-11.488 1/1:34:0,34,0:0:0:34,0:1192,0:-98.0787,-10.235,0,-98.0787,-10.235,-98.0787 1/1:138:0,138,0:0:0:138,0:4756,0:-390.864,-41.5421,0,-390.864,-41.5421,-390.864 1/2:82:0,40,42:0:0:40,42:1374,1446:-216.19,-115.749,-103.708,-100.767,0,-88.1236 1/1:88:0,88,0:0:0:88,0:3041,0:-250.51,-26.4906,0,-250.51,-26.4906,-250.51 1/1:47:0,47,0:0:0:47,0:1653,0:-131.989,-14.1484,0,-131.989,-14.1484,-131.989 1/1:101:1,100,0:1:36:100,0:3497,0:-274.671,-26.8068,0,-274.972,-30.103,-277.909 1/2:41:0,18,23:0:0:18,23:632,787:-109.744,-63.3025,-57.884,-46.7696,0,-39.8459 1/2:62:0,43,19:0:0:43,19:1487,658:-161.407,-52.8921,-39.9478,-108.848,0,-103.128 1/1:91:0,91,0:0:0:91,0:3158,0:-260.138,-27.3937,0,-260.138,-27.3937,-260.138 1/1:55:0,55,0:0:0:55,0:1890,0:-158.247,-16.5567,0,-158.247,-16.5567,-158.247 chr05 22279898 . G A 36412.9 PASS AB=0.543153;ABP=17.0661;AC=31;AF=0.738095;AN=42;AO=1692;CIGAR=1X;DP=2175;DPB=2175;DPRA=1.59773;EPP=3607.98;EPPR=1034.53;GTI=1;LEN=1;MEANALT=1;MQM=54.3694;MQMR=59.7723;NS=21;NUMALT=1;ODDS=5.65503;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60509;QR=17207;RO=483;RPL=1684;RPP=3607.98;RPPR=1034.53;RPR=8;RUN=1;SAF=1692;SAP=3677.14;SAR=0;SRF=483;SRP=1051.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,79:0:0:79:2808:-252.025,-23.7814,0 1/1:89:0,89:0:0:89:3158:-282.435,-26.7917,0 0/1:136:69,67:69:2441:67:2408:-175.826,0,-178.999 0/1:120:63,57:63:2252:57:2048:-148.059,0,-166.81 0/1:220:94,126:94:3334:126:4508:-339.039,0,-233.959 0/1:75:34,41:34:1224:41:1472:-109.764,0,-87.8864 1/1:151:0,151:0:0:151:5424:-485.262,-45.4555,0 0/0:66:66,0:66:2325:0:0:0,-19.868,-209.493 1/1:220:2,218:2:72:218:7811:-694.776,-59.3899,0 1/1:19:0,19:0:0:19:672:-60.4713,-5.71957,0 0/0:14:13,1:13:464:1:36:0,-0.625191,-38.5083 1/1:36:0,36:0:0:36:1292:-116.186,-10.8371,0 1/1:134:0,134:0:0:134:4781:-428.858,-40.338,0 0/1:95:46,49:46:1643:49:1752:-129.227,0,-119.555 1/1:189:1,188:1:36:188:6724:-600.654,-53.2964,0 1/1:83:2,81:2:72:81:2885:-251.49,-18.1488,0 1/1:92:0,92:0:0:92:3272:-293.915,-27.6948,0 0/1:158:71,87:71:2552:87:3119:-231.473,0,-182.351 0/1:65:20,45:20:720:45:1616:-125.476,0,-45.5618 1/1:89:2,87:2:72:87:3120:-273.323,-19.9549,0 1/1:45:0,45:0:0:45:1603:-143.126,-13.5464,0 chr05 22279997 . A G 43150.2 PASS AB=0.499055;ABP=3.01851;AC=32;AF=0.761905;AN=42;AO=2009;CIGAR=1X;DP=2678;DPB=2678;DPRA=0.934559;EPP=4365.5;EPPR=1455.73;GTI=0;LEN=1;MEANALT=1;MQM=59.9343;MQMR=60;NS=21;NUMALT=1;ODDS=8.93251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71908;QR=23973;RO=669;RPL=2009;RPP=4365.5;RPPR=1455.73;RPR=0;RUN=1;SAF=0;SAP=4365.5;SAR=2009;SRF=0;SRP=1455.73;SRR=669;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:173:1,172:1:36:172:6159:-550.805,-48.4799,0 1/1:98:0,98:0:0:98:3524:-317.361,-29.5009,0 0/1:138:68,70:68:2436:70:2512:-184.787,0,-177.953 0/1:174:99,75:99:3536:75:2688:-189.785,0,-266.071 0/1:281:130,151:130:4656:151:5389:-400.553,0,-334.612 0/1:128:72,56:72:2580:56:2012:-142.821,0,-193.917 1/1:133:0,133:0:0:133:4756:-428.168,-40.037,0 0/0:136:136,0:136:4880:0:0:0,-40.9401,-439.351 1/1:236:0,236:0:0:236:8465:-761.741,-71.0431,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 1/1:162:0,162:0:0:162:5815:-523.461,-48.7669,0 0/1:110:62,48:62:2213:48:1698:-119.94,0,-166.32 1/1:179:0,179:0:0:179:6384:-574.639,-53.8844,0 1/1:119:1,118:1:36:118:4224:-376.741,-32.2243,0 1/1:110:0,110:0:0:110:3934:-354.224,-33.1133,0 0/1:155:78,77:78:2808:77:2733:-199.553,0,-206.299 0/1:68:20,48:20:720:48:1728:-135.335,0,-44.6587 1/1:143:1,142:1:36:142:5075:-453.295,-39.449,0 1/1:67:0,67:0:0:67:2404:-216.616,-20.169,0 chr05 22345284 . G A 28375 PASS AB=0.588331;ABP=44.8243;AC=32;AF=0.761905;AN=42;AO=1315;CIGAR=1X;DP=1604;DPB=1604;DPRA=2.62333;EPP=2849.82;EPPR=619.739;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9878;MQMR=59.9861;NS=21;NUMALT=1;ODDS=8.53021;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47029;QR=10288;RO=288;RPL=1;RPP=2849.82;RPPR=619.739;RPR=1314;RUN=1;SAF=1315;SAP=2858.5;SAR=0;SRF=288;SRP=628.394;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77:0:0:77:2764:-249.001,-23.1793,0 1/1:74:1,73:1:36:73:2612:-231.73,-18.6779,0 0/1:35:17,18:17:612:18:648:-48.1158,0,-44.8774 0/1:73:22,51:22:777:51:1836:-143.545,0,-48.2752 0/1:123:43,80:43:1536:80:2823:-217.279,0,-101.504 0/1:30:13,17:13:468:17:612:-46.3825,0,-33.4287 1/1:95:0,95:0:0:95:3385:-304.865,-28.5979,0 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 1/1:114:4,110:4:144:110:3917:-339.41,-21.0038,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 0/1:10:1,9:1:36:9:324:-26.4956,0,-0.587975 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:99:0,99:0:0:99:3548:-319.528,-29.802,0 0/1:83:39,44:39:1392:44:1580:-117.506,0,-100.594 1/1:107:0,107:0:0:107:3824:-344.358,-32.2102,0 1/1:94:0,94:0:0:94:3372:-303.695,-28.2968,0 1/1:153:0,153:0:0:153:5454:-490.987,-46.0576,0 0/1:213:107,105:107:3815:105:3776:-275.859,0,-279.37 0/1:50:11,39:11:396:39:1400:-111.248,0,-20.9312 1/1:57:0,57:0:0:57:2023:-182.326,-17.1587,0 1/1:46:0,46:0:0:46:1655:-149.239,-13.8474,0 chr05 22349078 . G A 31151.2 PASS AB=0.472347;ABP=7.45387;AC=32;AF=0.761905;AN=42;AO=1177;CIGAR=1X;DP=1629;DPB=1629;DPRA=0.825806;EPP=384.955;EPPR=151.823;GTI=0;LEN=1;MEANALT=1;MQM=59.983;MQMR=60;NS=21;NUMALT=1;ODDS=2.49064;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42080;QR=15947;RO=452;RPL=361;RPP=384.955;RPPR=151.823;RPR=816;RUN=1;SAF=0;SAP=2558.83;SAR=1177;SRF=0;SRP=984.516;SRR=452;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:2,46:2:72:46:1652:-142.132,-7.61272,0 1/1:64:0,64:0:0:64:2300:-207.261,-19.2659,0 0/1:122:62,60:62:2176:60:2160:-157.941,0,-159.379 0/1:91:61,30:61:2180:30:1071:-69.3079,0,-169.073 0/1:129:71,58:71:2497:58:2071:-147.827,0,-186.15 0/1:40:24,16:24:840:16:576:-40.1338,0,-63.877 1/1:118:1,117:1:36:117:4187:-373.413,-31.9233,0 0/0:93:93,0:93:3299:0:0:0,-27.9958,-297.131 1/1:106:0,106:0:0:106:3754:-338.053,-31.9092,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 1/1:172:0,172:0:0:172:6138:-552.519,-51.7772,0 0/1:87:52,35:52:1839:35:1248:-86.4343,0,-139.6 1/1:103:0,103:0:0:103:3695:-332.751,-31.0061,0 1/1:44:0,44:0:0:44:1545:-139.339,-13.2453,0 1/1:42:0,42:0:0:42:1495:-134.844,-12.6433,0 0/1:105:49,56:49:1708:56:2001:-148.754,0,-122.392 0/1:90:31,59:31:1084:59:2116:-163.616,0,-70.7734 1/1:88:3,85:3:108:85:3047:-264.383,-16.4155,0 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 chr05 22454496 . 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GACAG GAGAA,AACAA 42202.2 PASS AB=0.452582,0.54554;ABP=23.8095,22.1947;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1371,654;CIGAR=2M1X1M1X,1X3M1X;DP=2028;DPB=2028.4;DPRA=1.39857,1.23305;EPP=2980.1,1423.15;EPPR=0;GTI=1;LEN=5,5;MEANALT=1.7,2.08333;MQM=57.2195,40.2049;MQMR=0;NS=21;NUMALT=2;ODDS=3.07822;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=48747,23315;QR=0;RO=0;RPL=0,0;RPP=2980.1,1423.15;RPPR=0;RPR=1371,654;RUN=1,1;SAF=1371,654;SAP=2980.1,1423.15;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,93,0:0:0:93,0:3299,0:-296.988,-27.9958,0,-296.988,-27.9958,-296.988 1/1:61:0,60,0:0:0:60,0:2133,0:-191.516,-18.0618,0,-191.516,-18.0618,-191.516 1/2:74:0,23,51:0:0:23,51:809,1825:-207.169,-141.484,-134.561,-66.0325,0,-50.6799 1/2:103:0,56,46:0:0:56,46:1979,1639:-287.094,-127.066,-110.208,-160.014,0,-146.167 1/2:292:0,118,173:0:0:118,173:4198,6167:-822.428,-480.574,-445.053,-341.845,0,-289.766 1/2:118:0,55,63:0:0:55,63:1954,2241:-333.943,-174.921,-158.364,-159.371,0,-140.406 1/1:142:0,142,0:0:0:142,0:5048,0:-453.001,-42.7463,0,-453.001,-42.7463,-453.001 2/2:70:0,0,70:0:0:0,70:0,2487:-215.351,-215.351,-215.351,-21.0721,-21.0721,0 1/2:193:0,87,106:0:0:87,106:3090,3780:-551.454,-299.746,-273.556,-252.059,0,-220.15 1/2:12:0,2,10:0:0:2,10:72,359:-34.2527,-28.3784,-27.7764,-6.23141,0,-3.22111 1/2:9:0,8,1:0:0:8,1:288,36:-26.5419,-3.17967,-0.771425,-23.7123,0,-23.4113 1/1:16:0,16,0:0:0:16,0:571,0:-51.6314,-4.81648,0,-51.6314,-4.81648,-51.6314 1/1:144:0,144,0:0:0:144,0:5095,0:-458.468,-43.3483,0,-458.468,-43.3483,-458.468 1/2:101:0,45,56:0:0:45,56:1613,1989:-286.576,-155.12,-141.574,-131.807,0,-114.949 1/1:153:0,153,0:0:0:153,0:5474,0:-491.248,-46.0576,0,-491.248,-46.0576,-491.248 1/1:68:0,68,0:0:0:68,0:2407,0:-216.701,-20.47,0,-216.701,-20.47,-216.701 1/1:51:0,51,0:0:0:51,0:1801,0:-162.264,-15.3525,0,-162.264,-15.3525,-162.264 1/2:81:0,37,44:0:0:37,44:1330,1574:-231,-122.68,-111.541,-108.671,0,-95.426 1/2:82:0,51,31:0:0:51,31:1822,1111:-233.745,-85.4591,-70.1066,-148.631,0,-139.3 1/1:126:0,123,3:0:0:123,3:4375,107:-393,-37.0267,0,-384.642,-28.3261,-383.739 1/1:39:0,39,0:0:0:39,0:1389,0:-125.036,-11.7402,0,-125.036,-11.7402,-125.036 chr05 22767221 . 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CA GC,CC 56516.6 PASS AB=0.503155,0.491325;ABP=3.1199,3.83916;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1858,816;CIGAR=2X,1M1X;DP=2686;DPB=2686;DPRA=0.660582,1.14304;EPP=4037.61,1774.93;EPPR=9.52472;GTI=0;LEN=2,1;MEANALT=1.95,2.15385;MQM=59.6157,59.9706;MQMR=60;NS=21;NUMALT=2;ODDS=21.1159;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65182,29131;QR=100;RO=3;RPL=1858,816;RPP=4037.61,1774.93;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4037.61,1774.93;SAR=1858,816;SRF=0;SRP=9.52472;SRR=3;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,119,0:0:0:119,0:4211,0:-378.424,-35.8226,0,-378.424,-35.8226,-378.424 1/1:169:0,168,0:0:0:168,0:5933,0:-533.62,-50.573,0,-533.62,-50.573,-533.62 1/2:72:0,36,36:0:0:36,36:1257,1280:-206.905,-104.665,-93.8277,-102.593,0,-91.7557 1/2:191:0,102,89:0:0:102,89:3579,3179:-550.79,-259.539,-228.834,-291.605,0,-264.814 1/2:273:0,124,147:0:0:124,147:4327,5229:-778.122,-426.232,-388.905,-351.975,0,-307.723 1/2:127:0,54,73:0:0:54,73:1891,2596:-365.716,-211.87,-195.614,-154.199,0,-132.224 1/1:186:0,185,1:0:0:185,1:6426,36:-578.033,-55.6906,0,-575.095,-52.3933,-574.794 2/2:189:1,0,188:1:36:0,188:0,6740:-603.075,-603.376,-606.313,-53.2964,-56.5936,0 1/2:251:2,118,129:2:64:118,129:4150,4600:-707.004,-369.889,-339.523,-332.628,0,-298.95 1/2:10:0,6,4:0:0:6,4:205,144:-28.7298,-12.1095,-10.3033,-16.9728,0,-15.7687 1/2:13:0,7,6:0:0:7,6:250,216:-38.3653,-17.9843,-15.8771,-20.7395,0,-18.9333 1/1:51:0,50,0:0:0:50,0:1746,0:-157.013,-15.0515,0,-157.013,-15.0515,-157.013 1/1:156:0,155,0:0:0:155,0:5446,0:-489.82,-46.6597,0,-489.82,-46.6597,-489.82 1/2:174:0,102,71:0:0:102,71:3569,2535:-497.09,-206.776,-176.071,-290.416,0,-269.043 1/1:174:0,173,0:0:0:173,0:6118,0:-550.288,-52.0782,0,-550.288,-52.0782,-550.288 1/1:82:0,82,0:0:0:82,0:2901,0:-261.324,-24.6845,0,-261.324,-24.6845,-261.324 1/1:126:0,126,0:0:0:126,0:4403,0:-396.4,-37.9298,0,-396.4,-37.9298,-396.4 1/2:76:0,32,44:0:0:32,44:1115,1576:-219.55,-128.886,-119.253,-91.0159,0,-77.7705 1/2:81:0,57,24:0:0:57,24:1936,856:-227.132,-70.1364,-52.9777,-157.347,0,-150.123 1/1:103:0,99,4:0:0:99,4:3499,144:-314.68,-29.802,0,-302.93,-17.6925,-301.726 1/1:63:0,63,0:0:0:63,0:2220,0:-199.946,-18.9649,0,-199.946,-18.9649,-199.946 chr05 23529434 . A G 33990.8 PASS AB=0.558195;ABP=27.7785;AC=30;AF=0.714286;AN=42;AO=1290;CIGAR=1X;DP=1796;DPB=1796;DPRA=0.646124;EPP=9.48095;EPPR=4.10891;GTI=0;LEN=1;MEANALT=1;MQM=50.7295;MQMR=58.8538;NS=21;NUMALT=1;ODDS=3.24303;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45553;QR=17635;RO=506;RPL=1;RPP=2795.53;RPPR=1093.11;RPR=1289;RUN=1;SAF=615;SAP=9.07022;SAR=675;SRF=246;SRP=3.85142;SRR=260;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:4,64:4:144:64:2264:-190.318,-8.20294,0 1/1:39:0,39:0:0:39:1384:-124.298,-11.7402,0 0/1:61:32,29:32:1121:29:1040:-75.2228,0,-82.8105 0/1:98:53,45:53:1881:45:1587:-112.797,0,-140.056 0/1:131:64,67:64:2184:67:2369:-173.05,0,-157.345 0/1:57:19,38:19:663:38:1330:-102.11,0,-42.7908 1/1:115:0,115:0:0:115:4075:-365.282,-34.6185,0 0/0:129:129,0:129:4484:0:0:0,-38.8329,-402.764 0/1:121:58,63:58:2012:63:2210:-161.44,0,-144.921 0/1:9:4,5:4:144:5:176:-13.4222,0,-10.598 0/1:4:1,3:1:36:3:108:-8.8015,0,-2.39415 1/1:36:0,36:0:0:36:1283:-115.139,-10.8371,0 1/1:109:0,109:0:0:109:3795:-339.069,-32.8123,0 0/1:79:35,44:35:1218:44:1552:-115.339,0,-86.1379 1/1:172:0,172:0:0:172:6088:-542.881,-51.7772,0 1/1:29:0,29:0:0:29:1005:-90.1074,-8.72987,0 1/1:40:1,39:1:36:39:1373:-119.349,-8.44293,0 0/1:153:67,86:67:2345:86:3052:-226.801,0,-165.132 0/1:129:39,90:39:1367:90:3185:-246.09,0,-84.4859 1/1:109:0,109:0:0:109:3835:-343.402,-32.8123,0 1/1:108:0,108:0:0:108:3842:-344.222,-32.5112,0 chr05 23587188 . CAAG CAAAC 5702.87 PASS AB=0.330851;ABP=236.615;AC=12;AF=0.285714;AN=42;AO=391;CIGAR=1M1I2M1X;DP=2107;DPB=2205.75;DPRA=0.90307;EPP=852.056;EPPR=3594.63;GTI=1;LEN=5;MEANALT=1.63636;MQM=60;MQMR=59.9148;NS=21;NUMALT=1;ODDS=0.910737;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13754;QR=57792;RO=1654;RPL=0;RPP=852.056;RPPR=295.495;RPR=391;RUN=1;SAF=0;SAP=852.056;SAR=391;SRF=591;SRP=295.495;SRR=1063;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:140:140,0:140:4895:0:0:0,-42.1442,-440.71 0/0:60:60,0:60:2084:0:0:0,-18.0618,-187.828 0/1:111:66,45:66:2307:45:1591:-110.065,0,-174.472 0/1:70:38,31:38:1310:31:1090:-77.2766,0,-97.0639 0/1:143:106,36:106:3698:36:1245:-69.3596,0,-289.671 0/1:86:48,38:48:1703:38:1330:-94.1107,0,-127.668 0/0:131:130,0:130:4534:0:0:0,-39.1339,-407.868 1/1:110:0,80:0:0:80:2802:-252.062,-24.0824,0 0/1:143:90,52:90:3103:52:1808:-119.961,0,-236.463 0/1:34:24,10:24:849:10:359:-22.4186,0,-66.4944 0/1:13:2,11:2:71:11:385:-31.0716,0,-2.82867 0/0:27:27,0:27:951:0:0:0,-8.12781,-85.9052 0/0:137:137,0:137:4787:0:0:0,-41.2411,-430.996 0/1:79:63,15:63:2197:15:539:-25.0062,0,-174.154 0/0:198:198,0:198:6927:0:0:0,-59.6039,-623.424 0/0:53:53,0:53:1828:0:0:0,-15.9546,-164.798 0/0:93:93,0:93:3257:0:0:0,-27.9958,-293.356 0/1:171:86,58:86:2991:58:2074:-143.228,0,-225.672 0/1:90:75,15:75:2638:15:531:-21.0306,0,-210.573 0/0:119:119,0:119:4170:0:0:0,-35.8226,-375.486 0/0:99:99,0:99:3492:0:0:0,-29.802,-314.49 chr05 23623994 . GGTTC AGTTT,AGTTC 36668.6 PASS AB=0.528302,0.466981;ABP=8.91015,11.0407;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1240,500;CIGAR=1X3M1X,1X4M;DP=1746;DPB=1746;DPRA=0.823,1.26721;EPP=2695.64,1088.75;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=1.9,2.21429;MQM=59.9169,60;MQMR=60;NS=21;NUMALT=2;ODDS=1.96823;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43537,17826;QR=36;RO=1;RPL=1240,500;RPP=2695.64,1088.75;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2695.64,1088.75;SAR=1240,500;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62,0:0:0:62,0:2174,0:-195.926,-18.6639,0,-195.926,-18.6639,-195.926 1/1:58:0,58,0:0:0:58,0:2036,0:-183.504,-17.4597,0,-183.504,-17.4597,-183.504 1/2:72:0,39,33:0:0:39,33:1383,1188:-209.966,-97.2946,-85.5544,-113.029,0,-103.095 1/2:102:1,54,47:1:36:54,47:1912,1684:-289.847,-134.401,-121.083,-152.805,0,-141.594 1/2:193:0,83,108:0:0:83,108:2880,3835:-546.649,-312.545,-287.56,-234.162,0,-201.65 1/2:51:0,22,29:0:0:22,29:770,1040:-147.828,-85.1845,-78.5618,-62.9974,0,-54.2675 1/1:126:0,124,1:0:0:124,1:4361,32:-392.328,-37.3277,0,-389.75,-34.7693,-389.449 2/2:100:0,0,100:0:0:0,100:0,3543:-319.079,-319.079,-319.079,-30.103,-30.103,0 1/2:178:0,95,82:0:0:95,82:3321,2944:-510.367,-240.208,-211.61,-270.212,0,-245.528 1/2:7:0,3,4:0:0:3,4:98,144:-20.0089,-12.1095,-11.2064,-8.2402,0,-7.03608 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/1:23:0,23,0:0:0:23,0:817,0:-73.8521,-6.92369,0,-73.8521,-6.92369,-73.8521 1/1:63:0,63,0:0:0:63,0:2218,0:-199.882,-18.9649,0,-199.882,-18.9649,-199.882 1/2:60:0,31,29:0:0:31,29:1098,1004:-171.386,-81.9378,-72.6058,-89.7985,0,-81.0686 1/1:175:0,174,0:0:0:174,0:6145,0:-552.879,-52.3792,0,-552.879,-52.3792,-552.879 1/1:67:0,67,0:0:0:67,0:2378,0:-214.278,-20.169,0,-214.278,-20.169,-214.278 1/1:80:0,79,1:0:0:79,1:2789,36:-250.893,-23.7814,0,-247.955,-20.4841,-247.654 1/2:144:0,89,55:0:0:89,55:3096,1980:-413.583,-161.918,-135.126,-252.021,0,-235.464 1/2:36:0,31,5:0:0:31,5:1057,180:-100.792,-15.0469,-5.71498,-86.102,0,-84.5968 1/1:98:0,96,2:0:0:96,2:3360,72:-302.256,-28.8989,0,-296.38,-22.6642,-295.778 1/1:46:0,46,0:0:0:46,0:1608,0:-145.009,-13.8474,0,-145.009,-13.8474,-145.009 chr05 23853839 . T C 81875.1 PASS AB=0.588235;ABP=85.7817;AC=32;AF=0.761905;AN=42;AO=3742;CIGAR=1X;DP=4402;DPB=4402;DPRA=1.52214;EPP=8128.66;EPPR=1434.01;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9842;MQMR=60;NS=21;NUMALT=1;ODDS=27.7717;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=133583;QR=23612;RO=659;RPL=3742;RPP=8128.66;RPPR=1434.01;RPR=0;RUN=1;SAF=0;SAP=8128.66;SAR=3742;SRF=0;SRP=1434.01;SRR=659;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:188:4,184:4:144:184:6558:-576.988,-43.28,0 1/1:77:0,77:0:0:77:2759:-248.551,-23.1793,0 0/1:135:57,78:57:2040:78:2772:-209.081,0,-143.233 0/1:98:46,52:46:1652:52:1853:-137.547,0,-119.468 0/1:181:118,63:118:4224:63:2260:-149.176,0,-325.854 0/1:91:38,53:38:1360:53:1904:-144.244,0,-95.3069 1/1:182:0,182:0:0:182:6478:-583.106,-54.7875,0 0/0:140:140,0:140:5024:0:0:0,-42.1442,-452.305 0/1:219:112,107:112:4004:107:3814:-277.532,0,-294.624 1/1:420:10,409:10:356:409:14589:-1280.37,-94.1098,0 1/1:543:0,543:0:0:543:19374:-1743.12,-163.459,0 1/1:994:0,994:0:0:994:35570:-3200.09,-299.224,0 1/1:110:0,110:0:0:110:3895:-350.742,-33.1133,0 0/1:135:74,61:74:2660:61:2176:-155.467,0,-199.006 1/1:157:0,157:0:0:157:5580:-502.32,-47.2617,0 1/1:90:0,90:0:0:90:3220:-290.023,-27.0927,0 1/1:112:1,111:1:36:111:3965:-353.442,-30.1171,0 0/1:311:40,271:40:1432:271:9686:-778.069,0,-35.5573 0/1:54:19,35:19:680:35:1260:-97.4499,0,-45.2735 1/1:117:0,117:0:0:117:4150:-373.683,-35.2205,0 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 chr05 24084635 . G C 14838.8 PASS AB=0.505058;ABP=3.29589;AC=12;AF=0.285714;AN=42;AO=835;CIGAR=1X;DP=2971;DPB=2971;DPRA=1.43395;EPP=1816.19;EPPR=4634.76;GTI=0;LEN=1;MEANALT=1.2;MQM=60;MQMR=59.9962;NS=21;NUMALT=1;ODDS=4.62007;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29579;QR=74632;RO=2133;RPL=0;RPP=1816.19;RPPR=4634.76;RPR=835;RUN=1;SAF=0;SAP=1816.19;SAR=835;SRF=0;SRP=4634.76;SRR=2133;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:201:199,2:199:6955:2:72:0,-53.6703,-619.185 0/0:157:157,0:157:5500:0:0:0,-47.2617,-495.131 0/1:99:46,53:46:1613:53:1883:-139.946,0,-115.655 0/1:148:58,90:58:2012:90:3190:-242.772,0,-136.796 0/1:274:132,142:132:4620:142:5052:-372.344,0,-333.485 0/1:203:100,102:100:3490:102:3640:-266.638,0,-253.144 0/0:100:98,2:98:3441:2:72:0,-23.2663,-303.067 1/1:178:0,178:0:0:178:6264:-563.86,-53.5833,0 0/1:260:132,127:132:4644:127:4510:-327.744,0,-339.797 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/1:5:1,4:1:21:4:140:-11.4394,0,-0.594796 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.801 0/0:254:252,2:252:8837:2:68:0,-70.0039,-788.873 0/1:117:58,59:58:2049:59:2074:-151.709,0,-149.459 0/0:305:302,2:302:10616:2:68:0,-85.4086,-948.904 0/0:130:130,0:130:4493:0:0:0,-39.1339,-404.541 0/0:117:117,0:117:4086:0:0:0,-35.2205,-367.924 0/1:87:44,43:44:1548:43:1515:-110.453,0,-113.419 0/1:80:57,23:57:1988:23:815:-49.5884,0,-155.11 0/0:150:150,0:150:5214:0:0:0,-45.1545,-469.403 0/0:43:43,0:43:1461:0:0:0,-12.9443,-131.775 chr05 24125744 . GATTATGTCAA GAC 1505.88 PASS AB=0.216258;ABP=458.953;AC=11;AF=0.261905;AN=42;AO=187;CIGAR=1M8D1M1X;DP=1798;DPB=1661.27;DPRA=0.726999;EPP=409.076;EPPR=318.961;GTI=5;LEN=3;MEANALT=1.08333;MQM=49.615;MQMR=59.9733;NS=21;NUMALT=1;ODDS=4.07551;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6497;QR=56571;RO=1610;RPL=0;RPP=409.076;RPPR=3455.79;RPR=187;RUN=1;SAF=187;SAP=409.076;SAR=0;SRF=1052;SRP=332.152;SRR=558;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:159:159,0:159:5596:0:0:0,-47.8638,-503.777 0/0:86:86,0:86:3032:0:0:0,-25.8886,-273.115 0/1:33:26,7:26:916:7:242:-12.1019,0,-72.8234 0/1:79:70,9:70:2453:9:313:-4.58015,0,-197.247 0/1:113:89,23:89:3134:23:809:-38.5422,0,-248.347 0/1:58:44,14:44:1553:14:489:-26.4748,0,-122.603 0/0:95:95,0:95:3365:0:0:0,-28.5978,-303.071 1/1:35:0,35:0:0:35:1222:-109.907,-10.5361,0 0/1:135:110,25:110:3823:25:877:-38.0826,0,-303.636 0/1:16:12,4:12:421:4:142:-8.27308,0,-33.4082 0/1:8:5,3:5:174:3:93:-6.24493,0,-13.593 0/0:26:26,0:26:931:0:0:0,-7.82678,-84.1088 0/0:171:171,0:171:5970:0:0:0,-51.4761,-537.414 0/0:94:85,9:85:2983:9:311:0,-0.136952,-240.545 0/0:143:143,0:143:5034:0:0:0,-43.0473,-453.217 0/0:103:103,0:103:3597:0:0:0,-31.0061,-323.946 0/0:104:102,2:102:3602:2:70:0,-25.0658,-318.15 0/1:82:47,35:47:1665:35:1200:-83.0846,0,-125.454 0/1:128:107,21:107:3772:21:729:-27.1526,0,-301.155 0/0:75:75,0:75:2610:0:0:0,-22.5772,-235.151 0/0:55:55,0:55:1940:0:0:0,-16.5566,-174.876 chr05 24125762 . A G 40902.4 PASS AB=0.622199;ABP=124.541;AC=30;AF=0.714286;AN=42;AO=1555;CIGAR=1X;DP=1984;DPB=1984;DPRA=1.34718;EPP=3379.65;EPPR=934.572;GTI=0;LEN=1;MEANALT=1;MQM=59.9447;MQMR=55.6597;NS=21;NUMALT=1;ODDS=11.5673;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54992;QR=15315;RO=429;RPL=1016;RPP=320.742;RPPR=23.1002;RPR=539;RUN=1;SAF=1016;SAP=320.742;SAR=539;SRF=183;SRP=23.1002;SRR=246;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:155:0,155:0:0:155:5487:-493.961,-46.6597,0 1/1:81:0,81:0:0:81:2875:-258.988,-24.3834,0 0/1:44:18,26:18:644:26:900:-68.066,0,-44.9626 0/1:94:25,69:25:896:69:2422:-189.938,0,-52.5084 0/1:155:65,90:65:2332:90:3173:-238.756,0,-163.13 0/1:66:23,43:23:820:43:1512:-116.504,0,-53.7651 1/1:91:1,90:1:36:90:3199:-284.536,-23.7955,0 0/0:71:71,0:71:2510:0:0:0,-21.3731,-225.759 0/1:163:57,106:57:2052:106:3737:-287.462,0,-135.327 0/1:17:6,11:6:216:11:387:-30.0484,0,-14.6298 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5059 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 1/1:163:0,163:0:0:163:5802:-522.243,-49.0679,0 0/1:113:31,82:31:1108:82:2893:-226.588,0,-65.843 1/1:141:0,141:0:0:141:4987:-448.982,-42.4452,0 1/1:94:0,94:0:0:94:3331:-300.007,-28.2968,0 1/1:101:2,99:2:72:99:3518:-310.472,-24.0464,0 0/1:120:75,45:75:2672:45:1552:-103.842,0,-204.229 0/1:155:49,106:49:1741:106:3754:-291.4,0,-110.038 1/1:70:0,70:0:0:70:2492:-224.534,-21.0721,0 1/1:54:1,53:1:36:53:1859:-163.99,-12.6573,0 chr05 24125778 . G T 41823.3 PASS AB=0.61409;ABP=110.531;AC=30;AF=0.714286;AN=42;AO=1574;CIGAR=1X;DP=2015;DPB=2015;DPRA=1.38929;EPP=318.224;EPPR=951.963;GTI=0;LEN=1;MEANALT=1;MQM=59.9733;MQMR=55.678;NS=21;NUMALT=1;ODDS=6.71809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56135;QR=15670;RO=441;RPL=1574;RPP=3420.91;RPPR=26.4533;RPR=0;RUN=1;SAF=1026;SAP=318.224;SAR=548;SRF=185;SRP=27.8321;SRR=256;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:156:0,156:0:0:156:5575:-501.874,-46.9607,0 1/1:83:0,83:0:0:83:2972:-267.713,-24.9855,0 0/1:45:19,26:19:680:26:932:-70.6525,0,-47.8863 0/1:93:25,68:25:900:68:2448:-192.578,0,-53.1701 0/1:159:71,88:71:2516:88:3124:-233.523,0,-178.116 0/1:67:24,43:24:856:43:1528:-117.644,0,-56.7099 1/1:94:1,93:1:32:93:3323:-296.089,-25.0975,0 0/0:70:70,0:70:2479:0:0:0,-21.0721,-222.969 0/1:164:58,106:58:2072:106:3794:-292.289,0,-136.833 0/1:17:5,12:5:172:12:424:-33.3789,0,-10.6636 0/1:11:6,5:6:212:5:176:-12.8737,0,-16.0705 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 1/1:169:0,169:0:0:169:6013:-541.221,-50.8741,0 0/1:116:34,82:34:1175:82:2906:-226.854,0,-70.9596 1/1:140:0,140:0:0:140:4998:-449.965,-42.1442,0 1/1:100:0,100:0:0:100:3556:-320.25,-30.103,0 1/1:100:2,98:2:72:98:3505:-309.301,-23.7453,0 0/1:122:75,47:75:2672:47:1680:-114.761,0,-203.671 0/1:157:50,107:50:1796:107:3804:-295.294,0,-114.38 1/1:73:0,73:0:0:73:2581:-232.539,-21.9752,0 1/1:53:1,52:1:36:52:1860:-164.081,-12.3563,0 chr05 24172663 . G A 46956.8 PASS AB=0.511214;ABP=4.42268;AC=31;AF=0.738095;AN=42;AO=1781;CIGAR=1X;DP=2504;DPB=2504;DPRA=1.38908;EPP=3870.4;EPPR=1572.98;GTI=0;LEN=1;MEANALT=1;MQM=59.9826;MQMR=60;NS=21;NUMALT=1;ODDS=5.64043;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62837;QR=25397;RO=723;RPL=846;RPP=12.6679;RPPR=3.25358;RPR=935;RUN=1;SAF=846;SAP=12.6679;SAR=935;SRF=366;SRP=3.25358;SRR=357;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:1,91:1:36:91:3230:-287.323,-24.0965,0 1/1:70:0,70:0:0:70:2482:-223.633,-21.0721,0 0/1:132:66,66:66:2310:66:2325:-169.773,0,-168.423 0/1:166:88,78:88:3089:78:2738:-196.694,0,-228.267 0/1:232:114,118:114:3962:118:4164:-305.108,0,-286.935 0/1:131:66,65:66:2322:65:2282:-166.207,0,-169.805 1/1:156:0,156:0:0:156:5474:-492.709,-46.9607,0 0/0:87:87,0:87:3099:0:0:0,-26.1896,-279.138 0/1:196:95,101:95:3375:101:3582:-263.587,0,-244.965 0/1:22:16,6:16:572:6:207:-12.3442,0,-45.1908 1/1:10:0,10:0:0:10:341:-31.0178,-3.0103,0 1/1:27:0,27:0:0:27:946:-85.4529,-8.12781,0 1/1:205:2,203:2:57:203:7168:-639.77,-56.2978,0 0/1:151:68,83:68:2419:83:2959:-221.088,0,-172.51 1/1:167:0,167:0:0:167:5953:-535.877,-50.272,0 1/1:86:0,86:0:0:86:3021:-272.12,-25.8886,0 1/1:67:1,66:1:32:66:2323:-206.131,-16.9697,0 0/1:140:77,63:77:2656:63:2192:-155.398,0,-197.14 0/1:123:42,81:42:1468:81:2821:-217.101,0,-95.385 1/1:159:0,159:0:0:159:5602:-504.31,-47.8638,0 1/1:85:0,85:0:0:85:3027:-272.661,-25.5876,0 chr05 24198082 . GGT GGA,AGA 43807.4 PASS AB=0.559036,0.43494;ABP=28.1366,33.526;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1201,419;CIGAR=2M1X,1X1M1X;DP=1628;DPB=1628;DPRA=1.48585,1.24304;EPP=10.1865,127.52;EPPR=0;GTI=0;LEN=1,3;MEANALT=2,2.35714;MQM=59.9908,59.895;MQMR=0;NS=21;NUMALT=2;ODDS=11.1684;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42841,14789;QR=0;RO=0;RPL=0,0;RPP=2610.95,912.857;RPPR=0;RPR=1201,419;RUN=1,1;SAF=632,287;SAP=10.1865,127.52;SAR=569,132;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,79,1:0:0:79,1:2814,33:-253.168,-23.7814,0,-250.5,-20.7833,-250.199 1/1:72:0,71,1:0:0:71,1:2544,36:-228.851,-21.3731,0,-225.913,-18.0759,-225.612 1/2:41:0,17,24:0:0:17,24:612,839:-118.541,-68.6008,-63.4833,-50.2959,0,-43.0712 1/2:85:0,34,50:0:0:34,50:1209,1762:-241.976,-143.451,-133.216,-98.5194,0,-83.4679 1/2:133:0,77,56:0:0:77,56:2719,1976:-382.668,-161.251,-138.071,-221.77,0,-204.913 1/2:60:0,37,22:0:0:37,22:1324,790:-172.088,-64.1187,-52.9806,-108.071,0,-101.449 1/1:83:0,83,0:0:0:83,0:2956,0:-266.275,-24.9855,0,-266.275,-24.9855,-266.275 2/2:53:0,0,52:0:0:0,52:0,1839:-165.429,-165.429,-165.429,-15.6536,-15.6536,0 1/2:117:0,65,52:0:0:65,52:2315,1839:-338.824,-150.137,-130.57,-189.041,0,-173.388 1/2:11:0,6,5:0:0:6,5:216,180:-32.6714,-15.0469,-13.2407,-17.9843,0,-16.4792 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:31:0,31,0:0:0:31,0:1106,0:-99.8506,-9.33193,0,-99.8506,-9.33193,-99.8506 1/1:71:0,69,2:0:0:69,2:2472,70:-222.384,-20.7711,0,-216.688,-14.7258,-216.086 1/2:83:0,48,33:0:0:48,33:1724,1126:-232.044,-91.3955,-76.946,-140.684,0,-130.75 1/1:104:0,103,0:0:0:103,0:3654,0:-328.703,-31.0061,0,-328.703,-31.0061,-328.703 1/1:55:0,53,2:0:0:53,2:1904,72:-171.278,-15.9546,0,-165.403,-9.71993,-164.801 1/1:36:0,35,0:0:0:35,0:1245,0:-112.072,-10.5361,0,-112.072,-10.5361,-112.072 1/2:171:0,96,75:0:0:96,75:3431,2670:-497.717,-217.969,-189.07,-280.104,0,-257.527 1/2:129:0,84,44:0:0:84,44:2987,1557:-370.338,-126.914,-101.628,-243.515,0,-230.27 1/1:68:0,68,0:0:0:68,0:2441,0:-219.945,-20.47,0,-219.945,-20.47,-219.945 1/1:138:0,138,0:0:0:138,0:4916,0:-442.592,-41.5421,0,-442.592,-41.5421,-442.592 chr05 24226083 . C T 23217 PASS AB=0.45892;ABP=15.4988;AC=31;AF=0.738095;AN=42;AO=1134;CIGAR=1X;DP=1695;DPB=1695;DPRA=0.842105;EPP=2465.46;EPPR=1219.03;GTI=1;LEN=1;MEANALT=1.05;MQM=59.0485;MQMR=59.9679;NS=21;NUMALT=1;ODDS=2.69101;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40464;QR=20058;RO=560;RPL=0;RPP=2465.46;RPPR=1219.03;RPR=1134;RUN=1;SAF=0;SAP=2465.46;SAR=1134;SRF=0;SRP=1219.03;SRR=560;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99:0:0:99:3537:-318.373,-29.802,0 1/1:91:0,91:0:0:91:3249:-292.426,-27.3937,0 0/1:123:60,63:60:2141:63:2256:-166.219,0,-155.929 0/1:120:63,57:63:2264:57:2044:-148.075,0,-167.899 0/1:152:89,62:89:3188:62:2209:-153.147,0,-241.328 0/1:45:22,23:22:792:23:828:-61.1604,0,-58.0593 1/1:107:0,107:0:0:107:3794:-338.998,-32.2102,0 0/0:95:95,0:95:3412:0:0:0,-28.5978,-307.281 0/1:144:82,62:82:2937:62:2222:-156.847,0,-221.211 0/1:10:5,5:5:180:5:180:-13.5371,0,-13.5418 1/1:8:0,8:0:0:8:284:-25.9024,-2.40824,0 1/1:30:0,30:0:0:30:1076:-97.107,-9.0309,0 1/1:32:0,32:0:0:32:1144:-103.185,-9.63296,0 0/1:135:70,65:70:2516:65:2290:-165.517,0,-186.052 1/1:146:0,146:0:0:146:5240:-471.364,-43.9504,0 1/1:52:0,52:0:0:52:1860:-167.171,-15.6536,0 1/1:93:0,93:0:0:93:3301:-297.236,-27.9958,0 0/1:90:51,39:51:1804:39:1392:-98.4374,0,-135.546 0/1:33:18,15:18:644:15:521:-37.2814,0,-48.3566 1/1:62:5,57:5:180:57:2029:-166.114,-2.1118,0 1/1:28:0,28:0:0:28:1008:-90.4983,-8.42884,0 chr05 24226092 . TAC TG 23444.5 PASS AB=0.453515;ABP=19.5647;AC=31;AF=0.738095;AN=42;AO=1144;CIGAR=1M1D1X;DP=1733;DPB=1351;DPRA=0.843299;EPP=2487.17;EPPR=1179.27;GTI=1;LEN=2;MEANALT=1.25;MQM=58.965;MQMR=59.9294;NS=21;NUMALT=1;ODDS=4.10334;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40987;QR=20412;RO=581;RPL=1144;RPP=2487.17;RPPR=1179.27;RPR=0;RUN=1;SAF=0;SAP=2487.17;SAR=1144;SRF=0;SRP=1264.64;SRR=581;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,96:0:0:96:3447:-309.941,-28.8989,0 1/1:95:0,95:0:0:95:3403:-305.106,-28.5979,0 0/1:129:63,65:63:2189:65:2327:-170.532,0,-158.376 0/1:128:68,60:68:2402:60:2156:-155.741,0,-177.904 0/1:157:94,63:94:3264:63:2264:-156.519,0,-246.72 0/1:43:22,21:22:784:21:748:-54.6596,0,-57.94 1/1:107:0,107:0:0:107:3827:-341.927,-32.2102,0 0/0:97:95,0:95:3363:0:0:0,-28.5978,-302.605 0/1:150:86,64:86:3022:64:2300:-162.044,0,-227.055 0/1:10:5,5:5:177:5:180:-13.5371,0,-13.2666 1/1:8:0,8:0:0:8:288:-26.2665,-2.40824,0 1/1:30:0,30:0:0:30:1080:-97.4674,-9.0309,0 1/1:32:0,32:0:0:32:1152:-103.888,-9.63296,0 0/1:142:73,68:73:2560:68:2440:-176.145,0,-188.006 1/1:149:1,148:1:31:148:5264:-470.427,-41.754,0 1/1:51:0,51:0:0:51:1836:-165.041,-15.3525,0 1/1:92:0,92:0:0:92:3296:-296.525,-27.6948,0 0/1:91:51,40:51:1803:40:1440:-102.451,0,-135.156 0/1:32:18,14:18:642:14:504:-36.0651,0,-48.4773 1/1:63:5,57:5:175:57:2035:-167.169,-2.86164,0 1/1:28:0,28:0:0:28:1000:-89.1488,-8.42884,0 chr05 24284007 . C T 12584.4 PASS AB=0.505721;ABP=3.13453;AC=31;AF=0.738095;AN=42;AO=600;CIGAR=1X;DP=836;DPB=836;DPRA=2.27222;EPP=1262.83;EPPR=489.751;GTI=0;LEN=1;MEANALT=1;MQM=59.9383;MQMR=59.9534;NS=21;NUMALT=1;ODDS=4.30071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21423;QR=8476;RO=236;RPL=5;RPP=1262.83;RPPR=489.751;RPR=595;RUN=1;SAF=0;SAP=1305.89;SAR=600;SRF=0;SRP=515.478;SRR=236;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:29:0,29:0:0:29:1029:-92.9211,-8.72987,0 1/1:23:0,23:0:0:23:813:-73.4891,-6.92369,0 0/1:36:13,23:13:468:23:820:-63.2854,0,-31.6226 0/1:54:24,30:24:864:30:1072:-80.5368,0,-61.8269 0/1:88:45,43:45:1608:43:1528:-111.322,0,-118.519 0/1:33:14,19:14:504:19:680:-51.5952,0,-35.7641 1/1:75:0,75:0:0:75:2672:-240.724,-22.5773,0 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:78:47,31:47:1692:31:1112:-76.911,0,-129.087 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:12:1,11:1:36:11:392:-32.0413,-0.0335932,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 0/1:37:19,18:19:680:18:644:-47.1525,0,-50.3911 1/1:40:1,39:1:36:39:1388:-121.621,-8.44293,0 1/1:28:0,28:0:0:28:992:-89.5929,-8.42884,0 1/1:42:0,42:0:0:42:1497:-134.966,-12.6433,0 0/1:45:30,15:30:1076:15:540:-35.3856,0,-83.6065 0/1:60:20,40:20:720:40:1436:-111.461,0,-47.067 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 chr05 24284028 . C G 3976.31 PASS AB=0.494279;ABP=3.13453;AC=11;AF=0.261905;AN=42;AO=236;CIGAR=1X;DP=839;DPB=839;DPRA=1.14678;EPP=515.478;EPPR=1312.41;GTI=0;LEN=1;MEANALT=1;MQM=59.9534;MQMR=59.9436;NS=21;NUMALT=1;ODDS=4.33723;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8467;QR=21513;RO=603;RPL=236;RPP=515.478;RPPR=1312.41;RPR=0;RUN=1;SAF=0;SAP=515.478;SAR=236;SRF=0;SRP=1312.41;SRR=603;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:29,0:29:1010:0:0:0,-8.72987,-91.207 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:35:23,12:23:828:12:432:-28.6851,0,-64.3081 0/1:56:31,25:31:1108:25:900:-64.4633,0,-83.1733 0/1:88:44,44:44:1569:44:1584:-116.361,0,-115.009 0/1:33:19,14:19:684:14:495:-34.949,0,-51.9563 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:74:31,43:31:1101:43:1544:-116.977,0,-77.1221 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:12:11,1:11:396:1:36:0,-0.033593,-32.404 0/0:44:44,0:44:1569:0:0:0,-13.2453,-141.5 0/1:41:18,23:18:636:23:820:-61.7803,0,-45.2258 0/0:42:42,0:42:1478:0:0:0,-12.6433,-133.31 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4365 0/0:41:41,0:41:1453:0:0:0,-12.3422,-131.041 0/1:46:15,31:15:536:31:1112:-86.544,0,-34.7228 0/1:58:38,20:38:1368:20:716:-47.308,0,-105.947 0/0:48:48,0:48:1709:0:0:0,-14.4494,-154.094 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 chr05 24317743 . A G 6894.59 PASS AB=0.492635;ABP=3.29817;AC=11;AF=0.261905;AN=42;AO=391;CIGAR=1X;DP=1349;DPB=1349;DPRA=1.26146;EPP=834.773;EPPR=2072.43;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.8645;MQMR=59.9404;NS=21;NUMALT=1;ODDS=3.83685;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13813;QR=33999;RO=957;RPL=2;RPP=834.773;RPPR=2072.43;RPR=389;RUN=1;SAF=0;SAP=852.056;SAR=391;SRF=0;SRP=2081.11;SRR=957;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:84:82,2:82:2879:2:72:0,-18.4498,-252.504 0/0:59:59,0:59:2099:0:0:0,-17.7608,-189.179 0/1:71:33,38:33:1171:38:1330:-98.5672,0,-84.3235 0/1:73:40,33:40:1423:33:1175:-84.0818,0,-106.021 0/1:125:67,58:67:2388:58:2032:-145.094,0,-177.549 0/1:59:24,35:24:851:35:1240:-94.1437,0,-59.1487 0/0:80:80,0:80:2856:0:0:0,-24.0824,-257.276 1/1:89:1,88:1:36:88:3098:-275.449,-23.1934,0 0/1:105:51,53:51:1828:53:1878:-137.631,0,-133.132 0/1:10:5,5:5:176:5:176:-13.1747,0,-13.1747 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:24:24,0:24:856:0:0:0,-7.22472,-77.3611 0/0:44:44,0:44:1535:0:0:0,-13.2453,-138.385 0/1:60:25,35:25:896:35:1236:-93.4825,0,-62.8986 0/0:143:143,0:143:5095:0:0:0,-43.0473,-458.696 0/0:44:44,0:44:1559:0:0:0,-13.2453,-140.601 0/0:65:65,0:65:2324:0:0:0,-19.5669,-209.42 0/1:78:43,35:43:1529:35:1256:-89.8649,0,-114.421 0/1:30:21,9:21:744:9:320:-20.1115,0,-58.2534 0/0:78:78,0:78:2758:0:0:0,-23.4803,-248.463 0/0:23:23,0:23:816:0:0:0,-6.92369,-73.7617 chr05 24317759 . AATA AA 19628.4 PASS AB=0.495974;ABP=3.09772;AC=31;AF=0.738095;AN=42;AO=948;CIGAR=1M2D1M;DP=1356;DPB=882.5;DPRA=0.695055;EPP=2052.89;EPPR=869.449;GTI=0;LEN=2;MEANALT=1.25;MQM=59.9884;MQMR=60;NS=21;NUMALT=1;ODDS=2.53039;PAIRED=0;PAIREDR=0;PAO=2;PQA=36;PQR=36;PRO=2;QA=33576;QR=14241;RO=403;RPL=1;RPP=2052.89;RPPR=869.449;RPR=947;RUN=1;SAF=0;SAP=2061.57;SAR=948;SRF=0;SRP=878.114;SRR=403;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:2,86:2:71:86:3050:-267.986,-19.7486,0 1/1:64:0,64:0:0:64:2250:-202.759,-19.2659,0 0/1:69:36,33:36:1260:33:1176:-85.3767,0,-92.9295 0/1:74:33,41:33:1169:41:1444:-107.977,0,-83.2408 0/1:129:61,67:61:2143:67:2384:-176.077,0,-154.395 0/1:60:37,23:37:1297:23:816:-55.6999,0,-98.9679 1/1:85:0,85:0:0:85:3011:-271.162,-25.5876,0 0/0:91:91,0:91:3222:0:0:0,-27.3937,-290.204 0/1:107:57,49:57:2020:49:1724:-123.173,0,-149.804 0/1:11:6,5:6:212:5:180:-13.2407,0,-16.1135 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:42:0,42:0:0:42:1479:-133.404,-12.6433,0 0/1:61:36,25:36:1282:25:892:-62.2369,0,-97.3209 1/1:137:0,135:0:0:135:4796:-431.5,-40.6391,0 1/1:39:0,39:0:0:39:1381:-124.587,-11.7402,0 1/1:64:0,64:0:0:64:2278:-205.222,-19.2659,0 0/1:79:35,43:35:1242:43:1510:-112.352,0,-88.244 0/1:31:9,22:9:323:22:771:-60.3784,0,-20.0831 1/1:75:0,75:0:0:75:2663:-239.916,-22.5773,0 1/1:23:0,23:0:0:23:803:-72.5884,-6.92369,0 chr05 24344194 . T C 12312.8 PASS AB=0.452696;ABP=22.1162;AC=11;AF=0.261905;AN=42;AO=546;CIGAR=1X;DP=2006;DPB=2006;DPRA=1.08593;EPP=3.0103;EPPR=9.29849;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.27842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19225;QR=51704;RO=1459;RPL=545;RPP=1179.96;RPPR=3093.5;RPR=1;RUN=1;SAF=272;SAP=3.02621;SAR=274;SRF=753;SRP=6.29802;SRR=706;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:95:93,2:93:3298:2:72:0,-21.7611,-290.201 0/0:63:63,0:63:2198:0:0:0,-18.9649,-198.081 0/1:55:24,31:24:860:31:1093:-82.121,0,-61.1652 0/1:110:65,45:65:2297:45:1608:-111.897,0,-173.877 0/1:164:83,80:83:2936:80:2781:-201.101,0,-215.046 0/1:150:81,69:81:2891:69:2438:-174.519,0,-215.272 0/0:140:140,0:140:4971:0:0:0,-42.1442,-447.543 1/1:94:0,94:0:0:94:3312:-298.298,-28.2968,0 0/1:155:87,68:87:3068:68:2393:-168.965,0,-229.69 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:39:38,1:38:1356:1:36:0,-8.14189,-118.742 0/0:114:113,1:113:4000:1:36:0,-30.7191,-356.59 0/1:91:50,41:50:1769:41:1427:-101.328,0,-132.098 0/0:172:172,0:172:6127:0:0:0,-51.7772,-551.531 0/0:36:35,1:35:1248:1:36:0,-7.2388,-109.027 0/0:50:50,0:50:1778:0:0:0,-15.0515,-160.301 0/1:132:68,64:68:2423:64:2262:-164.104,0,-178.59 0/1:119:75,44:75:2668:44:1551:-104.058,0,-204.544 0/0:105:103,2:103:3644:2:72:0,-24.7714,-321.329 0/0:110:110,0:110:3848:0:0:0,-33.1133,-346.517 chr05 24348957 . 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G T 39970.9 PASS AB=0.477051;ABP=9.58814;AC=31;AF=0.738095;AN=42;AO=1938;CIGAR=1X;DP=2792;DPB=2792;DPRA=0;EPP=4211.32;EPPR=1807.76;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.8885;MQMR=59.9953;NS=21;NUMALT=1;ODDS=0.833404;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69214;QR=30355;RO=851;RPL=1938;RPP=4211.32;RPPR=1807.76;RPR=0;RUN=1;SAF=1938;SAP=4211.32;SAR=0;SRF=851;SRP=1850.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,54:0:0:54:1936:-174.176,-16.2556,0 1/1:139:0,139:0:0:139:4975:-447.871,-41.8432,0 0/1:188:98,90:98:3516:90:3240:-235.224,0,-260.056 0/1:198:103,95:103:3654:95:3412:-247.689,0,-269.459 0/1:321:150,171:150:5371:171:6112:-453.551,0,-386.89 0/1:82:47,35:47:1692:35:1260:-89.0192,0,-127.882 1/1:228:6,222:6:216:222:7917:-692.748,-48.8443,0 0/0:91:90,1:90:3199:1:36:0,-23.7955,-284.533 0/1:229:141,88:141:5016:88:3160:-215.682,0,-382.651 0/1:22:8,14:8:288:14:500:-38.7135,0,-19.6447 1/1:11:0,11:0:0:11:396:-35.9253,-3.31133,0 1/1:49:0,49:0:0:49:1760:-158.683,-14.7505,0 1/1:121:0,121:0:0:121:4299:-387.088,-36.4246,0 0/1:122:72,50:72:2535:50:1770:-122.363,0,-191.672 1/1:205:0,205:0:0:205:7303:-657.31,-61.7112,0 1/1:122:0,122:0:0:122:4356:-392.203,-36.7257,0 1/1:138:1,137:1:36:137:4880:-435.754,-37.9439,0 0/1:181:105,76:105:3756:76:2706:-189.297,0,-283.754 0/1:95:27,67:27:968:67:2383:-186.159,0,-58.8674 1/1:109:3,106:3:108:106:3769:-329.203,-22.7371,0 1/1:85:0,85:0:0:85:3044:-274.183,-25.5876,0 chr05 24348995 . 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GCTC GC 14591.4 PASS AB=0.458428;ABP=29.3697;AC=11;AF=0.261905;AN=42;AO=942;CIGAR=1M2D1M;DP=4143;DPB=3672;DPRA=1.08885;EPP=2048.54;EPPR=6923.49;GTI=0;LEN=2;MEANALT=1.53846;MQM=42.8673;MQMR=59.9978;NS=21;NUMALT=1;ODDS=21.4268;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32597;QR=111165;RO=3187;RPL=0;RPP=2048.54;RPPR=6880.13;RPR=942;RUN=1;SAF=0;SAP=2048.54;SAR=942;SRF=5;SRP=6880.13;SRR=3182;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:260:260,0:260:9072:0:0:0,-78.2678,-816.48 0/0:275:274,0:274:9556:0:0:0,-82.4822,-859.661 0/1:209:107,102:107:3755:102:3526:-247.576,0,-275.237 0/1:210:118,91:118:4099:91:3149:-214.942,0,-305.828 0/1:301:146,155:146:5105:155:5405:-385.948,0,-368.992 0/1:287:132,152:132:4621:152:5245:-375.073,0,-330.208 0/0:309:307,0:307:10706:0:0:0,-92.4162,-963.124 1/1:133:0,133:0:0:133:4624:-408.959,-40.037,0 0/1:350:205,141:205:7163:141:4926:-329.742,0,-540.237 0/1:22:12,10:12:421:10:352:-24.4443,0,-31.6018 0/0:20:20,0:20:679:0:0:0,-6.0206,-61.4268 0/0:72:72,0:72:2512:0:0:0,-21.6742,-226.333 0/0:230:229,1:229:7987:1:36:0,-65.7159,-715.355 0/1:186:118,68:118:3955:68:2233:-140.941,0,-300.163 0/0:342:338,2:338:11823:2:68:0,-96.3439,-1057.6 0/0:184:184,0:184:6428:0:0:0,-55.3895,-578.623 0/0:291:291,0:291:10137:0:0:0,-87.5997,-912.292 0/1:87:35,51:35:1244:51:1762:-127.959,0,-86.0168 0/1:104:69,35:69:2406:35:1235:-76.9571,0,-185.49 0/0:186:185,1:185:6513:1:36:0,-52.4555,-582.73 0/0:85:85,0:85:2983:0:0:0,-25.5875,-268.705 chr05 24349073 . GCC ACT 17078.6 PASS AB=0.479636;ABP=9.73186;AC=11;AF=0.261905;AN=42;AO=1042;CIGAR=1X1M1X;DP=4295;DPB=4294.67;DPRA=1.12692;EPP=2265.68;EPPR=7021.22;GTI=0;LEN=3;MEANALT=1.53846;MQM=43.0058;MQMR=59.9889;NS=21;NUMALT=1;ODDS=28.576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36850;QR=114432;RO=3240;RPL=1042;RPP=2265.68;RPPR=7021.22;RPR=0;RUN=1;SAF=0;SAP=2265.68;SAR=1042;SRF=0;SRP=7038.58;SRR=3240;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:265:265,0:265:9371:0:0:0,-79.7729,-843.365 0/0:284:281,0:281:9903:0:0:0,-84.5894,-890.861 0/1:223:110,112:110:3893:112:3977:-282.837,0,-283.458 0/1:221:121,100:121:4277:100:3522:-244.517,0,-318.584 0/1:328:152,176:152:5329:176:6227:-449.879,0,-381.013 0/1:298:135,162:135:4755:162:5744:-413.362,0,-338.343 0/0:317:316,0:316:11203:0:0:0,-95.1255,-1007.32 1/1:144:0,143:0:0:143:5073:-447.884,-43.0473,0 0/1:370:211,158:211:7464:158:5589:-381.129,0,-560.479 0/1:23:12,10:12:422:10:352:-24.4243,0,-31.434 0/0:20:19,0:19:671:0:0:0,-5.71957,-60.3567 0/0:72:72,0:72:2535:0:0:0,-21.6742,-228.4 0/0:232:230,1:230:8102:1:36:0,-66.3729,-725.682 0/1:207:121,86:121:4237:86:2975:-199.204,0,-319.202 0/0:347:343,2:343:12216:2:72:0,-97.5214,-1092.6 0/0:183:183,0:183:6446:0:0:0,-55.0885,-580.233 0/0:291:291,0:291:10259:0:0:0,-87.5997,-923.25 0/1:94:38,56:38:1340:56:2002:-146.18,0,-92.6022 0/1:102:67,35:67:2323:35:1245:-78.2983,0,-178.622 0/0:189:188,1:188:6674:1:36:0,-53.3585,-597.207 0/0:85:85,0:85:3012:0:0:0,-25.5875,-271.311 chr05 24368044 . A G 27476.2 PASS AB=0.371928;ABP=565.338;AC=10;AF=0.238095;AN=42;AO=1491;CIGAR=1X;DP=7417;DPB=7417;DPRA=1.47732;EPP=3240.68;EPPR=12829.9;GTI=0;LEN=1;MEANALT=1.375;MQM=48.8907;MQMR=38.9297;NS=21;NUMALT=1;ODDS=12.1026;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52441;QR=211267;RO=5919;RPL=638;RPP=70.3318;RPPR=12588.1;RPR=853;RUN=1;SAF=638;SAP=70.3318;SAR=853;SRF=28;SRP=12613.9;SRR=5891;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:398:391,7:391:13948:7:237:0,-98.5455,-1178.87 0/0:398:397,0:397:14168:0:0:0,-119.509,-1198.51 0/1:316:195,121:195:6923:121:4278:-266.216,0,-496.102 0/1:534:384,149:384:13713:149:5238:-295.317,0,-1010.31 0/1:795:506,289:506:18095:289:10190:-623.853,0,-1304.91 0/1:414:282,132:282:10030:132:4647:-281.22,0,-711.289 0/0:457:451,6:451:16121:6:205:0,-118.787,-1332.15 0/1:382:149,232:149:5305:232:8139:-583.876,0,-321.711 0/1:696:449,246:449:16024:246:8644:-535.153,0,-1125.47 0/1:29:19,10:19:661:10:356:-20.4167,0,-47.0425 0/0:15:15,0:15:540:0:0:0,-4.51545,-46.0755 0/0:129:128,1:128:4525:1:36:0,-35.2346,-383.016 0/0:353:353,0:353:12639:0:0:0,-106.264,-1085.16 0/1:376:229,146:229:8211:146:5088:-324.475,0,-587.475 0/0:419:419,0:419:14995:0:0:0,-126.132,-1286.09 0/0:245:241,3:241:8643:3:108:0,-63.6236,-723.152 0/0:615:614,1:614:21898:1:36:0,-181.535,-1862.98 0/1:202:116,85:116:4067:85:3019:-191.751,0,-280.949 0/1:203:145,58:145:5167:58:2040:-114.907,0,-381.125 0/0:331:326,5:326:11658:5:180:0,-84.0607,-975.174 0/0:110:110,0:110:3936:0:0:0,-33.1133,-327.366 chr05 24368084 . G C 31719.1 PASS AB=0.513436;ABP=7.91174;AC=11;AF=0.261905;AN=42;AO=1909;CIGAR=1X;DP=6959;DPB=6959;DPRA=1.52637;EPP=4148.35;EPPR=10949.4;GTI=0;LEN=1;MEANALT=1.33333;MQM=48.0293;MQMR=39.6082;NS=21;NUMALT=1;ODDS=13.7626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68139;QR=180677;RO=5041;RPL=1909;RPP=4148.35;RPPR=10949.4;RPR=0;RUN=1;SAF=0;SAP=4148.35;SAR=1909;SRF=0;SRP=10949.4;SRR=5041;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:412:405,6:405:14528:6:212:0,-104.657,-1229.91 0/0:406:406,0:406:14569:0:0:0,-122.218,-1233.55 0/1:258:111,147:111:3976:147:5226:-375.897,0,-265.885 0/1:504:228,274:228:8184:274:9764:-693.538,0,-554.356 0/1:684:355,328:355:12720:328:11683:-809.954,0,-891.293 0/1:391:183,208:183:6568:208:7430:-520.555,0,-435.287 0/0:471:469,2:469:16828:2:72:0,-135.149,-1404.84 1/1:290:0,289:0:0:289:10300:-888.822,-86.9977,0 0/1:605:298,307:298:10696:307:10971:-759.99,0,-717.5 0/1:22:14,8:14:504:8:288:-18.0555,0,-36.758 0/0:15:15,0:15:536:0:0:0,-4.51545,-45.9346 0/0:132:131,0:131:4667:0:0:0,-39.4349,-398.412 0/0:357:356,0:356:12756:0:0:0,-107.167,-1099.58 0/1:331:132,198:132:4712:198:7104:-519.668,0,-307.021 0/0:421:420,0:420:15042:0:0:0,-126.433,-1295.67 0/0:252:251,1:251:9008:1:36:0,-72.2613,-760.753 0/0:630:627,3:627:22464:3:108:0,-179.976,-1903.46 0/1:146:83,63:83:2968:63:2268:-148.799,0,-208.86 0/1:185:113,72:113:4064:72:2569:-168.801,0,-294.074 0/0:333:330,3:330:11817:3:108:0,-90.4965,-995.442 0/0:114:114,0:114:4070:0:0:0,-34.3174,-339.821 chr05 24368465 . A C 26804.9 PASS AB=0.368505;ABP=757.402;AC=19;AF=0.452381;AN=42;AO=1851;CIGAR=1X;DP=5307;DPB=5307;DPRA=1.86175;EPP=4022.41;EPPR=7501.1;GTI=0;LEN=1;MEANALT=1.10526;MQM=59.5818;MQMR=59.8911;NS=21;NUMALT=1;ODDS=3.20992;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66020;QR=123132;RO=3453;RPL=1851;RPP=4022.41;RPPR=7501.1;RPR=0;RUN=1;SAF=1851;SAP=4022.41;SAR=0;SRF=3453;SRP=7501.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:221:136,85:136:4869:85:3024:-205.829,0,-370.644 0/1:243:117,126:117:4180:126:4515:-333.366,0,-303.233 0/1:357:277,80:277:9882:80:2876:-151.044,0,-781.808 0/1:350:272,78:272:9634:78:2800:-146.76,0,-761.568 0/1:549:394,154:394:14047:154:5507:-330.415,0,-1098.58 0/1:229:175,54:175:6247:54:1928:-104.823,0,-493.327 0/1:340:155,185:155:5529:185:6590:-490.345,0,-395.375 0/0:251:250,0:250:8885:0:0:0,-75.2575,-799.266 0/1:441:337,104:337:12035:104:3720:-202.17,0,-950.092 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/1:27:14,13:14:492:13:464:-33.9337,0,-36.4845 0/1:145:75,70:75:2680:70:2480:-179.525,0,-197.796 0/1:270:125,145:125:4472:145:5174:-384.47,0,-321.369 0/1:325:239,86:239:8547:86:3055:-177.337,0,-671.374 0/1:412:204,208:204:7280:208:7415:-543.246,0,-530.421 0/1:184:110,74:110:3928:74:2636:-182.051,0,-298.322 0/1:134:56,78:56:2000:78:2760:-208.253,0,-139.934 0/1:232:176,55:176:6245:55:1960:-106.595,0,-492.253 0/1:167:117,50:117:4168:50:1784:-110.567,0,-325.031 0/1:244:116,128:116:4136:128:4570:-337.967,0,-298.974 0/1:153:75,78:75:2696:78:2762:-202.624,0,-196.826 chr05 24381124 . C T 12194.8 PASS AB=0.499558;ABP=3.01222;AC=11;AF=0.261905;AN=42;AO=699;CIGAR=1X;DP=2335;DPB=2335;DPRA=1.2333;EPP=1520.87;EPPR=3553.37;GTI=1;LEN=1;MEANALT=1;MQM=59.8083;MQMR=59.9541;NS=21;NUMALT=1;ODDS=0.698368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24633;QR=58341;RO=1635;RPL=699;RPP=1520.87;RPPR=3553.37;RPR=0;RUN=1;SAF=0;SAP=1520.87;SAR=699;SRF=0;SRP=3553.37;SRR=1635;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:72,0:72:2572:0:0:0,-21.6742,-231.73 0/0:81:80,1:80:2876:1:36:0,-20.7852,-255.478 0/1:114:58,56:58:2084:56:1973:-143.525,0,-153.513 0/1:141:68,73:68:2421:73:2565:-188.655,0,-175.699 0/1:284:143,141:143:5105:141:4966:-361.484,0,-374.1 0/1:120:49,71:49:1745:71:2508:-189.778,0,-121.209 0/0:200:199,0:199:7108:0:0:0,-59.905,-639.419 1/1:132:0,132:0:0:132:4660:-419.433,-39.736,0 0/1:213:126,87:126:4517:87:3059:-211.418,0,-342.576 0/1:10:6,4:6:216:4:140:-9.93428,0,-16.7802 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/0:158:158,0:158:5638:0:0:0,-47.5627,-507.539 0/1:105:44,61:44:1580:61:2156:-162.694,0,-110.883 0/0:231:231,0:231:8209:0:0:0,-69.5379,-738.815 0/0:101:101,0:101:3583:0:0:0,-30.404,-322.662 0/0:30:30,0:30:1076:0:0:0,-9.0309,-96.9251 0/1:78:27,51:27:968:51:1786:-137.409,0,-63.957 0/1:66:45,21:45:1611:21:752:-48.1383,0,-125.411 0/0:108:107,1:107:3794:1:32:0,-29.3119,-338.459 0/0:64:64,0:64:2266:0:0:0,-19.2659,-204.199 chr05 24381130 . CACA AACG,CACG 49841.6 PASS AB=0.499559,0.498678;ABP=3.01221,3.02752;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1647,699;CIGAR=1X2M1X,3M1X;DP=2349;DPB=2350;DPRA=0.846565,1.22949;EPP=3579.43,1520.87;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.65,2;MQM=59.9599,59.784;MQMR=0;NS=21;NUMALT=2;ODDS=0.30489;PAIRED=0,0;PAIREDR=0;PAO=4,0;PQA=108,0;PQR=0;PRO=0;QA=57956,25052;QR=0;RO=0;RPL=1647,699;RPP=3579.43,1520.87;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3579.43,1520.87;SAR=1647,699;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,75,0:0:0:75,0:2591,0:-233.44,-22.5773,0,-233.44,-22.5773,-233.44 1/1:77:0,76,1:0:0:76,1:2680,36:-241.086,-22.8783,0,-238.148,-19.581,-237.847 1/2:115:0,59,56:0:0:59,56:2096,2008:-334.928,-164.136,-146.375,-171.149,0,-154.291 1/2:143:0,66,77:0:0:66,77:2324,2756:-414.296,-225.102,-205.234,-189.549,0,-166.37 1/2:290:0,144,144:0:0:144,144:5065,5156:-832.6,-420.301,-376.952,-412.299,0,-368.951 1/2:122:0,49,73:0:0:49,73:1727,2620:-354.572,-213.964,-199.214,-140.963,0,-118.987 1/1:201:0,201,0:0:0:201,0:7078,0:-637.091,-60.507,0,-637.091,-60.507,-637.091 2/2:131:0,0,131:0:0:0,131:0,4700:-423.026,-423.026,-423.026,-39.4349,-39.4349,0 1/2:209:0,127,82:0:0:127,82:4510,2928:-606.374,-238.887,-200.656,-367.658,0,-342.974 1/2:10:0,6,4:0:0:6,4:216,144:-29.734,-12.1095,-10.3033,-17.9843,0,-16.7802 1/1:5:0,5,0:0:0:5,0:179,0:-16.4604,-1.50515,0,-16.4604,-1.50515,-16.4604 1/1:22:0,22,0:0:0:22,0:780,0:-70.522,-6.62266,0,-70.522,-6.62266,-70.522 1/1:160:0,160,0:0:0:160,0:5630,0:-506.469,-48.1648,0,-506.469,-48.1648,-506.469 1/2:103:0,43,60:0:0:43,60:1510,2152:-298.771,-175.878,-162.934,-123.246,0,-105.185 1/1:233:0,233,0:0:0:233,0:8195,0:-737.554,-70.14,0,-737.554,-70.14,-737.554 1/1:101:0,100,0:0:0:100,0:3516,0:-316.404,-30.103,0,-316.404,-30.103,-316.404 1/1:30:0,30,0:0:0:30,0:1063,0:-95.9105,-9.0309,0,-95.9105,-9.0309,-95.9105 1/2:79:0,27,52:0:0:27,52:962,1868:-231.028,-152.616,-144.488,-78.7688,0,-63.1152 1/2:64:0,46,18:0:0:46,18:1625,648:-185.566,-53.2333,-39.386,-132.691,0,-127.272 1/1:116:0,115,1:0:0:115,1:4029,36:-362.443,-34.6185,0,-359.506,-31.3212,-359.204 1/1:63:0,63,0:0:0:63,0:2180,0:-196.105,-18.9649,0,-196.105,-18.9649,-196.105 chr05 24384783 . AGTC GGTC,GGTT 22213 PASS AB=0.698718,0.299145;ABP=163.532,167.003;AC=32,10;AF=0.761905,0.238095;AN=42;AO=871,164;CIGAR=1X3M,1X2M1X;DP=1043;DPB=1043.25;DPRA=2.69474,1.1992;EPP=1894.36,359.132;EPPR=0;GTI=2;LEN=1,4;MEANALT=1.75,2;MQM=59.9908,59.9756;MQMR=0;NS=21;NUMALT=2;ODDS=2.19859;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=31092,5796;QR=0;RO=0;RPL=0,0;RPP=1894.36,359.132;RPPR=0;RPR=871,164;RUN=1,1;SAF=871,164;SAP=1894.36,359.132;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:30:0,30,0:0:0:30,0:1076,0:-97.1529,-9.0309,0,-97.1529,-9.0309,-97.1529 1/1:30:0,30,0:0:0:30,0:1080,0:-97.5132,-9.0309,0,-97.5132,-9.0309,-97.5132 1/2:31:0,17,13:0:0:17,13:604,466:-87.2991,-38.0798,-32.9623,-49.2889,0,-45.3756 1/2:55:0,37,18:0:0:37,18:1309,639:-159.037,-52.4202,-41.2821,-106.971,0,-101.553 1/2:147:0,89,58:0:0:89,58:3184,2047:-426.318,-166.68,-139.888,-259.633,0,-242.173 1/2:15:0,7,8:0:0:7,8:237,287:-42.9723,-23.7682,-21.661,-19.5518,0,-17.1436 1/1:32:0,32,0:0:0:32,0:1144,0:-103.27,-9.63296,0,-103.27,-9.63296,-103.27 2/2:19:0,0,19:0:0:0,19:0,652:-58.9984,-58.9984,-58.9984,-5.71957,-5.71957,0 1/2:25:0,20,5:0:0:20,5:705,179:-72.3507,-14.9552,-8.93464,-57.7522,0,-56.247 1/1:57:0,52,5:0:0:52,5:1857,176:-167.055,-15.6536,0,-152.728,-0.973691,-151.223 1/1:201:0,197,0:0:0:197,0:7041,0:-633.386,-59.3029,0,-633.386,-59.3029,-633.386 1/1:46:0,44,0:0:0:44,0:1580,0:-142.165,-13.2453,0,-142.165,-13.2453,-142.165 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/2:28:0,11,17:0:0:11,17:396,600:-81.5257,-49.2114,-45.9,-32.6714,0,-27.5539 1/1:44:0,44,0:0:0:44,0:1572,0:-141.772,-13.2453,0,-141.772,-13.2453,-141.772 1/1:51:0,51,0:0:0:51,0:1821,0:-164.169,-15.3525,0,-164.169,-15.3525,-164.169 1/1:26:0,25,0:0:0:25,0:896,0:-80.6006,-7.52575,0,-80.6006,-7.52575,-80.6006 1/2:154:0,138,16:0:0:138,16:4917,576:-448.139,-47.3585,-5.81637,-401.14,0,-396.323 1/2:13:0,8,5:0:0:8,5:288,174:-38.0028,-14.4961,-12.0879,-23.8592,0,-22.354 1/1:23:0,23,0:0:0:23,0:813,0:-73.4891,-6.92369,0,-73.4891,-6.92369,-73.4891 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 chr05 24384823 . G A 2259.82 PASS AB=0.313853;ABP=142.06;AC=10;AF=0.238095;AN=42;AO=168;CIGAR=1X;DP=1035;DPB=1035;DPRA=1.2;EPP=367.818;EPPR=1883.51;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.59114;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6017;QR=30888;RO=866;RPL=168;RPP=367.818;RPPR=1883.51;RPR=0;RUN=1;SAF=168;SAP=367.818;SAR=0;SRF=866;SRP=1883.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:30,0:30:1071:0:0:0,-9.0309,-96.7016 0/0:30:30,0:30:1063:0:0:0,-9.0309,-95.9808 0/1:30:17,13:17:608:13:468:-33.4287,0,-46.0211 0/1:54:35,19:35:1240:19:675:-44.8213,0,-95.6488 0/1:147:86,61:86:3055:61:2190:-153.114,0,-230.926 0/1:15:7,8:7:252:8:284:-21.3879,0,-18.5135 0/0:32:32,0:32:1143:0:0:0,-9.63296,-103.179 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:26:21,5:21:752:5:180:-8.72528,0,-60.1795 0/0:59:55,4:55:1963:4:144:0,-4.44715,-163.631 0/0:202:202,0:202:7224:0:0:0,-60.8081,-650.215 0/0:46:46,0:46:1625:0:0:0,-13.8474,-146.537 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:27:10,17:10:360:17:608:-46.9242,0,-24.6165 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/0:26:26,0:26:923:0:0:0,-7.82678,-83.3868 0/1:149:132,17:132:4697:17:604:-9.83714,0,-378.038 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 0/0:22:21,0:21:756:0:0:0,-6.32163,-68.0074 0/0:9:9,0:9:316:0:0:0,-2.70927,-28.7789 chr05 24474795 . ATATC CAATC,CAATT 40590.6 PASS AB=0.456863,0.533333;ABP=19.4965,12.8543;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1342,593;CIGAR=2X3M,2X2M1X;DP=1952;DPB=1951.8;DPRA=1.98333,1.51515;EPP=2882.49,1290.69;EPPR=0;GTI=1;LEN=2,5;MEANALT=2.3,3;MQM=59.9314,59.9106;MQMR=0;NS=21;NUMALT=2;ODDS=0.476444;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47051,20696;QR=0;RO=0;RPL=1336,592;RPP=2865.24,1282.02;RPPR=0;RPR=6,1;RUN=1,1;SAF=1340,592;SAP=2899.78,1282.02;SAR=2,1;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,121,0:0:0:121,0:4245,0:-382.233,-36.4246,0,-382.233,-36.4246,-382.233 1/1:74:0,73,0:0:0:73,0:2567,0:-230.946,-21.9752,0,-230.946,-21.9752,-230.946 1/2:104:0,51,53:0:0:51,53:1805,1825:-295.602,-148.573,-133.221,-147.377,0,-131.423 1/2:112:0,53,58:0:0:53,58:1844,2037:-315.712,-165.841,-149.887,-149.92,0,-132.461 1/2:216:0,79,134:0:0:79,134:2739,4672:-602.623,-380.001,-356.219,-222.671,0,-182.333 1/2:90:0,30,59:0:0:30,59:1041,2071:-253.255,-168.637,-159.607,-84.7026,0,-66.9418 1/1:152:0,148,1:0:0:148,1:5186,36:-466.577,-44.5524,0,-463.64,-41.5967,-463.339 2/2:48:0,0,48:0:0:0,48:0,1703:-153.55,-153.55,-153.55,-14.4494,-14.4494,0 1/2:172:0,72,99:0:0:72,99:2558,3437:-487.821,-279.376,-257.702,-208.437,0,-178.635 1/2:16:0,6,10:0:0:6,10:205,353:-45.7304,-29.0987,-27.2925,-16.9775,0,-13.9672 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:27:0,27,0:0:0:27,0:966,0:-87.2574,-8.12781,0,-87.2574,-8.12781,-87.2574 1/1:68:0,68,0:0:0:68,0:2413,0:-217.427,-20.47,0,-217.427,-20.47,-217.427 1/2:128:0,59,68:0:0:59,68:2033,2344:-355.607,-190.475,-172.715,-165.204,0,-144.734 1/1:136:0,134,0:0:0:134,0:4716,0:-424.235,-40.338,0,-424.235,-40.338,-424.235 1/1:74:0,74,0:0:0:74,0:2575,0:-231.998,-22.2762,0,-231.998,-22.2762,-231.998 1/1:43:0,43,0:0:0:43,0:1510,0:-136.191,-12.9443,0,-136.191,-12.9443,-136.191 1/2:90:0,53,35:0:0:53,35:1892,1225:-253.908,-99.6568,-83.7022,-154.244,0,-143.708 1/2:92:0,63,28:0:0:63,28:2186,993:-258.736,-81.0488,-62.0839,-177.832,0,-169.403 1/1:130:0,129,0:0:0:129,0:4512,0:-406.03,-38.8329,0,-406.03,-38.8329,-406.03 1/1:53:0,53,0:0:0:53,0:1842,0:-166.055,-15.9546,0,-166.055,-15.9546,-166.055 chr05 24474836 . G A 46550.9 PASS AB=0.503667;ABP=3.15365;AC=31;AF=0.738095;AN=42;AO=2133;CIGAR=1X;DP=2903;DPB=2903;DPRA=0.880449;EPP=4462.67;EPPR=1601.94;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9934;MQMR=60;NS=21;NUMALT=1;ODDS=11.1875;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76245;QR=26962;RO=768;RPL=24;RPP=4428.65;RPPR=1584.97;RPR=2109;RUN=1;SAF=4;SAP=4600.08;SAR=2129;SRF=2;SRP=1653.37;SRR=766;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:178:2,176:2:72:176:6290:-559.356,-46.7466,0 1/1:147:0,147:0:0:147:5236:-471.378,-44.2514,0 0/1:148:81,67:81:2828:67:2391:-170.894,0,-210.208 0/1:225:118,107:118:4134:107:3807:-275.095,0,-304.517 0/1:140:74,65:74:2612:65:2319:-166.855,0,-193.213 0/1:134:70,64:70:2476:64:2275:-164.672,0,-182.757 1/1:205:1,204:1:36:204:7300:-653.451,-58.1129,0 0/0:156:156,0:156:5470:0:0:0,-46.9607,-492.438 0/1:252:114,138:114:4012:138:4934:-368.35,0,-285.414 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:46:0,46:0:0:46:1646:-148.428,-13.8474,0 1/1:345:0,344:0:0:344:12312:-1107.56,-103.554,0 0/1:159:72,87:72:2509:87:3116:-232.803,0,-178.197 1/1:176:0,176:0:0:176:6306:-567.623,-52.9813,0 1/1:80:0,80:0:0:80:2852:-256.916,-24.0824,0 1/1:88:0,88:0:0:88:3149:-283.634,-26.4906,0 0/1:74:40,34:40:1399:34:1220:-87.8306,0,-103.927 0/1:85:35,50:35:1234:50:1788:-135.615,0,-85.7751 1/1:180:1,179:1:36:179:6403:-572.76,-50.5871,0 1/1:68:0,68:0:0:68:2433:-219.224,-20.47,0 chr05 24474991 . C T 27523 PASS AB=0.512167;ABP=4.11994;AC=31;AF=0.738095;AN=42;AO=1308;CIGAR=1X;DP=1808;DPB=1808;DPRA=1.17162;EPP=2843.3;EPPR=1088.75;GTI=0;LEN=1;MEANALT=1;MQM=59.9427;MQMR=60;NS=21;NUMALT=1;ODDS=7.93404;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46831;QR=17776;RO=500;RPL=1;RPP=2834.62;RPPR=1088.75;RPR=1307;RUN=1;SAF=1;SAP=2834.62;SAR=1307;SRF=0;SRP=1088.75;SRR=500;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:5,174:5:180:174:6228:-544.042,-37.3323,0 1/1:40:0,40:0:0:40:1435:-129.43,-12.0412,0 0/1:89:39,50:39:1396:50:1796:-135.123,0,-99.1474 0/1:82:48,34:48:1712:34:1214:-84.8806,0,-129.681 0/1:244:134,110:134:4786:110:3931:-280.531,0,-357.445 0/1:69:28,41:28:1004:41:1464:-111.285,0,-69.9048 1/1:104:0,104:0:0:104:3732:-336.08,-31.3071,0 0/0:74:74,0:74:2619:0:0:0,-22.2762,-235.959 0/1:103:48,55:48:1704:55:1968:-146.381,0,-122.64 0/1:9:2,7:2:72:7:252:-20.3197,0,-4.12745 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:77:0,77:0:0:77:2751:-247.829,-23.1793,0 0/1:77:42,35:42:1493:35:1252:-89.8058,0,-111.483 1/1:150:0,150:0:0:150:5369:-483.341,-45.1545,0 1/1:68:0,68:0:0:68:2444:-220.215,-20.47,0 1/1:80:0,80:0:0:80:2863:-257.907,-24.0824,0 0/1:118:54,64:54:1920:64:2289:-170.749,0,-137.556 0/1:72:26,46:26:890:46:1656:-127.654,0,-58.7341 1/1:80:0,80:0:0:80:2863:-257.907,-24.0824,0 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 chr05 24513492 . G A 10071.5 PASS AB=0.527383;ABP=9.43222;AC=11;AF=0.261905;AN=42;AO=582;CIGAR=1X;DP=1843;DPB=1843;DPRA=1.75732;EPP=1266.81;EPPR=2734.72;GTI=1;LEN=1;MEANALT=1.15385;MQM=60;MQMR=59.9762;NS=21;NUMALT=1;ODDS=0.713347;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20662;QR=44159;RO=1258;RPL=0;RPP=1266.81;RPPR=2734.72;RPR=582;RUN=1;SAF=0;SAP=1266.81;SAR=582;SRF=0;SRP=2734.72;SRR=1258;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:100:99,1:99:3491:1:36:0,-26.5047,-310.804 0/0:28:28,0:28:983:0:0:0,-8.42884,-88.7825 0/1:78:34,43:34:1192:43:1532:-114.673,0,-84.0823 0/1:106:46,60:46:1625:60:2140:-160.959,0,-114.628 0/1:218:94,124:94:3303:124:4394:-330.009,0,-231.866 0/1:91:44,47:44:1541:47:1672:-123.374,0,-111.586 0/0:145:145,0:145:5094:0:0:0,-43.6493,-458.238 1/1:59:0,59:0:0:59:2095:-188.819,-17.7608,0 0/1:217:90,127:90:3167:127:4524:-342.004,0,-219.932 0/1:16:4,12:4:144:12:432:-34.4047,0,-8.49714 0/0:8:8,0:8:275:0:0:0,-2.40824,-25.0835 0/0:20:20,0:20:696:0:0:0,-6.0206,-62.9597 0/0:118:117,1:117:4120:1:36:0,-31.9233,-367.388 0/1:85:44,40:44:1572:40:1390:-99.7469,0,-116.123 0/0:109:109,0:109:3827:0:0:0,-32.8123,-344.628 0/0:47:46,0:46:1615:0:0:0,-13.8474,-145.276 0/0:69:69,0:69:2401:0:0:0,-20.7711,-216.343 0/1:90:52,38:52:1795:38:1348:-94.5276,0,-134.733 0/1:85:56,29:56:1953:29:1027:-67.1546,0,-150.457 0/0:102:101,1:101:3545:1:36:0,-27.1068,-315.662 0/0:52:52,0:52:1820:0:0:0,-15.6536,-164.079 chr05 24607698 . 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A G 17123.2 PASS AB=0.521654;ABP=9.21695;AC=11;AF=0.261905;AN=42;AO=941;CIGAR=1X;DP=3119;DPB=3119;DPRA=2.03672;EPP=1994.58;EPPR=4530.47;GTI=1;LEN=1;MEANALT=1.13333;MQM=59.9819;MQMR=59.9706;NS=21;NUMALT=1;ODDS=5.27698;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33695;QR=76813;RO=2176;RPL=6;RPP=1994.58;RPPR=4530.47;RPR=935;RUN=1;SAF=941;SAP=2046.37;SAR=0;SRF=2176;SRP=4728.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:282:279,3:279:9861:3:108:0,-74.8153,-877.323 0/0:104:104,0:104:3631:0:0:0,-31.3071,-326.998 0/1:130:59,71:59:2096:71:2527:-188.546,0,-149.776 0/1:178:82,95:82:2892:95:3408:-253.292,0,-206.877 0/1:422:190,232:190:6706:232:8317:-621.498,0,-476.59 0/1:182:90,92:90:3196:92:3296:-242.072,0,-233.078 0/0:288:287,1:287:10035:1:36:0,-83.0984,-899.517 1/1:139:1,138:1:36:138:4956:-442.589,-38.2449,0 0/1:338:165,173:165:5852:173:6188:-455.266,0,-425.051 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:173:173,0:173:6134:0:0:0,-52.0782,-552.164 0/1:152:78,73:78:2721:73:2599:-188.33,0,-199.321 0/0:169:169,0:169:5946:0:0:0,-50.8741,-535.258 0/0:130:128,2:128:4549:2:72:0,-32.2972,-402.741 0/0:145:144,1:144:5105:1:36:0,-40.0511,-455.912 0/1:57:25,32:25:892:32:1148:-86.4711,0,-63.441 0/1:59:37,22:37:1316:22:788:-53.484,0,-100.981 0/0:99:98,1:98:3449:1:36:0,-26.2037,-306.999 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.692 chr05 24761082 . C G 16875.6 PASS AB=0.528477;ABP=13.6462;AC=11;AF=0.261905;AN=42;AO=945;CIGAR=1X;DP=3089;DPB=3089;DPRA=2.58634;EPP=2055.05;EPPR=4658.65;GTI=1;LEN=1;MEANALT=1;MQM=59.9249;MQMR=59.9729;NS=21;NUMALT=1;ODDS=4.03205;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33799;QR=75998;RO=2144;RPL=945;RPP=2055.05;RPPR=4658.65;RPR=0;RUN=1;SAF=945;SAP=2055.05;SAR=0;SRF=2144;SRP=4658.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:281:277,4:277:9826:4:140:0,-71.6448,-871.305 0/0:96:96,0:96:3404:0:0:0,-28.8989,-306.575 0/1:133:60,73:60:2118:73:2605:-194.66,0,-150.851 0/1:176:80,96:80:2827:96:3432:-256.113,0,-201.687 0/1:415:188,227:188:6699:227:8141:-607.702,0,-478.062 0/1:179:88,91:88:3085:91:3264:-240.096,0,-223.994 0/0:279:278,1:278:9864:1:36:0,-80.3891,-884.115 1/1:138:1,137:1:27:137:4893:-436.719,-38.8424,0 0/1:340:166,174:166:5920:174:6225:-457.995,0,-430.559 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:23:23,0:23:819:0:0:0,-6.92369,-74.0316 0/0:171:170,1:170:6050:1:36:0,-47.8779,-541.008 0/1:148:70,78:70:2440:78:2783:-206.153,0,-175.303 0/0:168:168,0:168:5988:0:0:0,-50.573,-539.027 0/0:130:128,2:128:4551:2:72:0,-32.2972,-402.066 0/0:147:146,1:146:5179:1:36:0,-40.6531,-462.654 0/1:56:24,32:24:845:32:1144:-86.4118,0,-59.5094 0/1:57:35,22:35:1208:22:776:-53.0034,0,-91.8586 0/0:100:99,1:99:3515:1:36:0,-26.5047,-312.964 0/0:40:40,0:40:1385:0:0:0,-12.0412,-124.939 chr05 24761160 . TAAAAATC TAAAAAATT,TGAAAAATT 89558.1 PASS AB=0.524131,0.467181;ABP=13.4904,22.3943;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3607,1025;CIGAR=1M1I6M1X,1M1I6M1X;DP=4664;DPB=5245.75;DPRA=4.43462,1.22869;EPP=7835.51,2228.77;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.85,3.14286;MQM=37.1566,59.5063;MQMR=0;NS=21;NUMALT=2;ODDS=11.4976;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=125104,35708;QR=0;RO=0;RPL=0,0;RPP=7835.51,2228.77;RPPR=0;RPR=3607,1025;RUN=1,1;SAF=0,0;SAP=7835.51,2228.77;SAR=3607,1025;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,59,0:0:0:59,0:2079,0:-175.018,-17.7608,0,-175.018,-17.7608,-175.018 1/1:76:0,75,1:0:0:75,1:2609,36:-222.585,-22.5773,0,-219.647,-19.28,-219.346 1/2:71:0,36,34:0:0:36,34:1206,1164:-184.966,-94.4403,-83.6033,-90.497,0,-80.262 1/2:142:0,77,64:0:0:77,64:2658,2248:-383.822,-182.966,-159.787,-200.914,0,-181.648 1/2:169:0,93,75:0:0:93,75:3224,2602:-455.007,-211.608,-183.612,-243.533,0,-220.956 1/2:93:0,62,31:0:0:62,31:2168,1096:-255.609,-89.5984,-70.9345,-166.357,0,-157.025 1/1:151:0,149,0:0:0:149,0:5216,0:-444.07,-44.8535,0,-444.07,-44.8535,-444.07 2/2:52:0,0,51:0:0:0,51:0,1799:-161.821,-161.821,-161.821,-15.3525,-15.3525,0 1/2:150:0,91,56:0:0:91,56:3179,1945:-403.135,-158.148,-130.754,-245.021,0,-228.163 1/2:482:0,277,203:0:0:277,203:9614,7082:-1301.71,-575.653,-492.267,-726.05,0,-664.941 1/1:905:0,898,2:0:0:898,2:31263,72:-2656.36,-270.325,0,-2650.48,-264.43,-2649.88 1/1:748:0,746,0:0:0:746,0:25792,0:-2174.85,-224.568,0,-2174.85,-224.568,-2174.85 1/1:129:0,129,0:0:0:129,0:4506,0:-379.265,-38.8329,0,-379.265,-38.8329,-379.265 1/2:95:0,58,37:0:0:58,37:2030,1286:-258.469,-104.898,-87.4386,-153.911,0,-142.773 1/1:85:0,84,0:0:0:84,0:2930,0:-245.939,-25.2865,0,-245.939,-25.2865,-245.939 1/1:134:0,133,0:0:0:133,0:4625,0:-395.912,-40.037,0,-395.912,-40.037,-395.912 1/1:118:0,117,1:0:0:117,1:4099,36:-350.128,-35.2205,0,-347.19,-31.9233,-346.889 1/2:812:0,353,449:0:0:353,449:12027,15613:-2176.6,-1269.24,-1162.98,-907.378,0,-772.215 1/2:58:0,39,19:0:0:39,19:1380,657:-157.983,-53.7171,-41.9769,-104.607,0,-98.8873 1/1:92:0,90,2:0:0:90,2:3100,72:-261.688,-27.0927,0,-255.812,-20.858,-255.21 1/1:42:0,41,0:0:0:41,0:1399,0:-118.542,-12.3422,0,-118.542,-12.3422,-118.542 chr05 24761184 . A T 72930.6 PASS AB=0.526292;ABP=16.2557;AC=31;AF=0.738095;AN=42;AO=3850;CIGAR=1X;DP=4964;DPB=4964;DPRA=4.01885;EPP=8363.18;EPPR=2396.04;GTI=0;LEN=1;MEANALT=1;MQM=37.1366;MQMR=59.3214;NS=21;NUMALT=1;ODDS=19.0061;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=137101;QR=39982;RO=1114;RPL=3850;RPP=8363.18;RPPR=2396.04;RPR=0;RUN=1;SAF=0;SAP=8363.18;SAR=3850;SRF=0;SRP=2422.03;SRR=1114;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:2216:-186.162,-18.6639,0 1/1:82:1,81:1:36:81:2884:-240.896,-21.0862,0 0/1:74:37,37:37:1328:37:1320:-85.5915,0,-97.5048 0/1:151:68,83:68:2435:83:2948:-200.935,0,-173.866 0/1:180:77,103:77:2768:103:3673:-253.157,0,-195.122 0/1:105:35,70:35:1256:70:2488:-180.118,0,-81.7045 1/1:160:0,160:0:0:160:5704:-480.441,-48.1648,0 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.16 0/1:160:65,95:65:2332:95:3366:-238.28,0,-161.944 0/1:516:225,291:225:8076:291:10381:-708.599,0,-571.155 1/1:960:3,957:3:108:957:34127:-2858.15,-278.914,0 1/1:803:1,802:1:36:802:28447:-2373.36,-238.154,0 1/1:132:0,132:0:0:132:4716:-393.53,-39.736,0 0/1:102:40,62:40:1440:62:2212:-155.148,0,-99.1927 1/1:92:0,92:0:0:92:3242:-268.494,-27.6948,0 1/1:139:0,139:0:0:139:4973:-421.619,-41.8432,0 1/1:127:1,126:1:36:126:4477:-375.635,-34.6325,0 0/1:856:479,377:479:17187:377:13471:-856.584,0,-1287.67 0/1:62:19,43:19:684:43:1532:-110.209,0,-43.2127 1/1:97:2,95:2:72:95:3392:-277.369,-22.3632,0 1/1:43:0,43:0:0:43:1532:-127.758,-12.9443,0 chr05 24761192 . C T 68442.1 PASS AB=0.518161;ABP=9.24118;AC=31;AF=0.738095;AN=42;AO=3732;CIGAR=1X;DP=4849;DPB=4849;DPRA=3.92459;EPP=8106.95;EPPR=2424.2;GTI=0;LEN=1;MEANALT=1.1;MQM=37.1401;MQMR=59.3031;NS=21;NUMALT=1;ODDS=22.9431;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=129533;QR=39849;RO=1115;RPL=3732;RPP=8106.95;RPPR=2424.2;RPR=0;RUN=1;SAF=0;SAP=8106.95;SAR=3732;SRF=0;SRP=2424.2;SRR=1115;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:61:0,61:0:0:61:2130:-179.654,-18.3628,0 1/1:77:1,76:1:36:76:2645:-221.865,-19.581,0 0/1:71:37,34:37:1305:34:1158:-74.9024,0,-96.335 0/1:150:69,81:69:2454:81:2809:-190.973,0,-175.888 0/1:179:77,101:77:2734:101:3519:-241.392,0,-192.046 0/1:103:36,67:36:1258:67:2356:-170.002,0,-82.4793 1/1:155:0,155:0:0:155:5355:-454.597,-46.6597,0 0/0:61:61,0:61:2173:0:0:0,-18.3628,-195.809 0/1:155:64,91:64:2296:91:3165:-223.848,0,-160.217 0/1:512:226,286:226:8104:286:9826:-670.475,0,-574.76 1/1:938:3,934:3:108:934:32599:-2744.56,-272.229,0 1/1:772:0,772:0:0:772:26475:-2227.25,-232.395,0 1/1:130:0,130:0:0:130:4492:-377.658,-39.1339,0 0/1:100:40,60:40:1436:60:2077:-145.722,0,-99.4347 1/1:85:0,85:0:0:85:2919:-245.692,-25.5876,0 1/1:134:0,134:0:0:134:4622:-395.029,-40.338,0 1/1:125:1,124:1:36:124:4254:-358.843,-34.0305,0 0/1:844:479,365:479:17168:365:12913:-815.39,0,-1289.62 0/1:61:19,42:19:669:42:1480:-106.54,0,-42.1707 1/1:93:2,91:2:72:91:3220:-263.598,-21.1591,0 1/1:43:0,43:0:0:43:1519:-126.967,-12.9443,0 chr05 24778081 . A T,C 17275.1 PASS AB=0.548295,0.451705;ABP=10.1416,10.1416;AC=31,11;AF=0.738095,0.261905;AN=42;AO=585,216;CIGAR=1X,1X;DP=802;DPB=802;DPRA=0.679091,1.05631;EPP=1273.32,472.048;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.55,1.91667;MQM=59.9179,59.9213;MQMR=60;NS=21;NUMALT=2;ODDS=8.6616;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20927,7729;QR=36;RO=1;RPL=0,0;RPP=1273.32,472.048;RPPR=5.18177;RPR=585,216;RUN=1,1;SAF=585,216;SAP=1273.32,472.048;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:36:0,36,0:0:0:36,0:1273,0:-114.869,-10.8371,0,-114.869,-10.8371,-114.869 1/1:34:0,33,1:0:0:33,1:1184,36:-106.509,-9.93399,0,-103.571,-6.63675,-103.27 1/2:19:0,14,5:0:0:14,5:504,180:-56.1708,-15.0469,-10.8325,-41.4837,0,-39.9785 1/2:37:0,20,17:0:0:20,17:720,612:-109.044,-50.2959,-44.2753,-59.1082,0,-53.9907 1/2:63:0,35,28:0:0:35,28:1256,989:-183.344,-80.8908,-70.3548,-102.809,0,-94.38 1/2:22:0,10,12:0:0:10,12:360,432:-64.9821,-35.6079,-32.5976,-29.734,0,-26.1216 1/1:57:1,56,0:1:36:56,0:2008,0:-177.392,-13.5604,0,-177.693,-16.8577,-180.63 2/2:55:0,0,55:0:0:0,55:0,1972:-177.737,-177.737,-177.737,-16.5567,-16.5567,0 1/2:56:0,28,28:0:0:28,28:1008,1004:-164.495,-82.247,-73.8182,-82.6075,0,-74.1787 1/2:5:0,2,3:0:0:2,3:72,108:-15.0469,-9.17208,-8.57002,-6.23466,0,-5.33157 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:60:0,60,0:0:0:60,0:2137,0:-192.523,-18.0618,0,-192.523,-18.0618,-192.523 1/2:26:0,10,16:0:0:10,16:356,576:-76.3721,-47.3585,-44.3482,-29.3709,0,-24.5545 1/1:64:0,64,0:0:0:64,0:2284,0:-205.822,-19.2659,0,-205.822,-19.2659,-205.822 1/1:17:0,17,0:0:0:17,0:608,0:-55.052,-5.11751,0,-55.052,-5.11751,-55.052 1/1:28:0,27,1:0:0:27,1:972,36:-87.4381,-8.12781,0,-84.5007,-4.83057,-84.1996 1/2:73:0,41,32:0:0:41,32:1453,1136:-211.283,-92.9159,-80.5737,-118.722,0,-109.089 1/2:51:0,33,18:0:0:33,18:1180,648:-149.448,-53.2333,-43.2994,-96.5741,0,-91.1555 1/1:27:0,27,0:0:0:27,0:968,0:-87.4374,-8.12781,0,-87.4374,-8.12781,-87.4374 1/1:53:0,53,0:0:0:53,0:1900,0:-171.275,-15.9546,0,-171.275,-15.9546,-171.275 chr05 24780244 . ATTCCCTTCA GTTCCCCTTCA,GTTCCTCTTCA 27791.2 PASS AB=0.446995,0.544262;ABP=25.3397,18.5808;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1116,672;CIGAR=1X2M1I7M,1X4M1I5M;DP=1807;DPB=1987.2;DPRA=0.469253,2.32344;EPP=2426.37,1462.24;EPPR=0;GTI=2;LEN=11,11;MEANALT=2.35,2.92857;MQM=32.4901,32.619;MQMR=0;NS=21;NUMALT=2;ODDS=1.17153;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35731,21686;QR=0;RO=0;RPL=1116,672;RPP=2426.37,1462.24;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2426.37,1462.24;SAR=1116,672;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,80,1:0:0:80,1:2631,34:-216.543,-24.0824,0,-214.055,-21.5943,-213.754 1/1:12:0,12,0:0:0:12,0:358,0:-29.2396,-3.61236,0,-29.2396,-3.61236,-29.2396 1/2:106:0,50,56:0:0:50,56:1604,1803:-248.368,-131.446,-116.395,-117.216,0,-100.358 1/2:110:0,37,72:0:0:37,72:1181,2412:-262.345,-176.911,-165.773,-85.4201,0,-63.746 1/2:211:0,83,124:0:0:83,124:2713,4092:-496.704,-298.885,-273.9,-197.851,0,-160.523 1/2:102:0,49,53:0:0:49,53:1457,1583:-216.031,-112.548,-97.7975,-103.752,0,-87.797 1/1:87:0,85,0:0:0:85,0:2537,0:-205.844,-25.5876,0,-205.844,-25.5876,-205.844 2/2:174:0,0,169:0:0:0,169:0,5304:-432.589,-432.589,-432.589,-50.8741,-50.8741,0 1/2:84:0,36,48:0:0:36,48:1227,1677:-216.124,-124.361,-113.524,-92.0813,0,-77.6319 1/2:21:0,12,9:0:0:12,9:377,277:-47.3273,-20.0626,-16.4503,-27.5459,0,-24.8366 1/1:11:0,11,0:0:0:11,0:330,0:-26.9919,-3.31133,0,-26.9919,-3.31133,-26.9919 1/1:37:0,37,0:0:0:37,0:1170,0:-95.6105,-11.1381,0,-95.6105,-11.1381,-95.6105 1/1:155:0,153,0:0:0:153,0:5006,0:-412.234,-46.0576,0,-412.234,-46.0576,-412.234 1/2:87:0,31,56:0:0:31,56:1030,1829:-209.297,-133.801,-124.469,-75.7976,0,-58.9399 1/1:150:0,148,2:0:0:148,2:4911,68:-404.271,-44.5524,0,-399.294,-39.2663,-398.692 1/1:5:0,5,0:0:0:5,0:180,0:-15.1755,-1.50515,0,-15.1755,-1.50515,-15.1755 1/1:13:0,13,0:0:0:13,0:419,0:-35.5529,-3.91339,0,-35.5529,-3.91339,-35.5529 1/2:90:0,44,44:0:0:44,44:1379,1387:-199.109,-99.7717,-86.5263,-99.4351,0,-86.1898 1/2:104:0,67,36:0:0:67,36:2208,1163:-246.355,-84.2574,-64.0884,-162.191,0,-151.354 1/1:109:0,107,1:0:0:107,1:3348,27:-273.292,-32.2102,0,-271.27,-30.2044,-270.969 1/1:57:0,56,1:0:0:56,1:1665,30:-135.312,-16.8577,0,-133.184,-14.4595,-132.883 chr05 24781245 . A C 31181.5 PASS AB=0.527933;ABP=10.289;AC=30;AF=0.714286;AN=42;AO=1510;CIGAR=1X;DP=2173;DPB=2173;DPRA=0.669536;EPP=3281.93;EPPR=1440.53;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9848;MQMR=60;NS=21;NUMALT=1;ODDS=6.68303;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53728;QR=23610;RO=662;RPL=0;RPP=3281.93;RPPR=1440.53;RPR=1510;RUN=1;SAF=1510;SAP=3281.93;SAR=0;SRF=662;SRP=1440.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:3,94:3:108:94:3325:-289.392,-19.1247,0 1/1:100:0,100:0:0:100:3575:-321.957,-30.103,0 0/1:140:59,81:59:2116:81:2870:-216.393,0,-148.565 0/1:162:73,89:73:2612:89:3168:-236.579,0,-186.561 0/1:228:116,111:116:4089:111:3952:-287.177,0,-299.499 0/1:124:76,48:76:2717:48:1718:-117.578,0,-207.444 1/1:185:0,185:0:0:185:6589:-593.093,-55.6906,0 0/0:151:151,0:151:5405:0:0:0,-45.4555,-486.579 0/1:106:36,70:36:1281:70:2467:-190.373,0,-83.6821 0/1:26:20,6:20:716:6:216:-11.9637,0,-56.9409 0/1:6:1,5:1:36:5:172:-14.0118,0,-1.79209 1/1:66:0,66:0:0:66:2368:-213.378,-19.868,0 1/1:161:0,161:0:0:161:5741:-516.807,-48.4658,0 0/1:122:61,61:61:2173:61:2147:-156.767,0,-159.109 1/1:55:1,54:1:36:54:1919:-169.388,-12.9584,0 1/1:92:0,92:0:0:92:3304:-297.578,-27.6948,0 1/1:71:0,71:0:0:71:2529:-227.86,-21.3731,0 0/1:95:43,52:43:1533:52:1825:-135.928,0,-109.663 0/1:65:21,44:21:752:44:1556:-120.763,0,-48.4393 1/1:68:0,68:0:0:68:2431:-219.045,-20.47,0 1/1:53:1,52:1:36:52:1856:-163.721,-12.3563,0 chr05 24852089 . G C 9719.5 PASS AB=0.47889;ABP=6.21905;AC=11;AF=0.261905;AN=42;AO=543;CIGAR=1X;DP=1974;DPB=1974;DPRA=1.11014;EPP=1182.12;EPPR=3106.04;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.2726;MQMR=59.9713;NS=21;NUMALT=1;ODDS=5.68859;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19373;QR=51019;RO=1429;RPL=0;RPP=1182.12;RPPR=3106.04;RPR=543;RUN=1;SAF=543;SAP=1182.12;SAR=0;SRF=1429;SRP=3106.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:136,2:136:4842:2:72:0,-34.7054,-429.089 0/0:91:91,0:91:3244:0:0:0,-27.3937,-292.18 0/1:60:32,28:32:1144:28:993:-71.6182,0,-85.2077 0/1:109:61,47:61:2188:47:1676:-118.128,0,-164.315 0/1:179:80,99:80:2867:99:3556:-266.351,0,-204.382 0/1:91:61,30:61:2188:30:1080:-70.0664,0,-169.792 0/0:144:144,0:144:5151:0:0:0,-43.3483,-463.686 1/1:141:0,141:0:0:141:5013:-451.199,-42.4452,0 0/1:113:56,57:56:2008:57:2044:-150.009,0,-146.977 0/1:14:7,7:7:252:7:233:-16.2915,0,-18.8145 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:32:31,1:31:1112:1:36:0,-6.03468,-96.7931 0/0:52:52,0:52:1856:0:0:0,-15.6536,-167.32 0/1:123:59,64:59:2112:64:2279:-167.953,0,-153.322 0/0:168:168,0:168:5983:0:0:0,-50.573,-538.577 0/0:80:80,0:80:2854:0:0:0,-24.0824,-257.097 0/0:114:114,0:114:4061:0:0:0,-34.3174,-365.676 0/1:74:36,38:36:1296:38:1347:-99.2351,0,-94.6677 0/1:66:39,27:39:1367:27:972:-67.7326,0,-103.457 0/0:130:127,2:127:4533:2:72:0,-32.2561,-401.349 0/0:51:51,0:51:1817:0:0:0,-15.3525,-163.809 chr05 24852095 . TTCGACT ATAGACT,ATAGACA 43883.1 PASS AB=0.514052,0.473068;ABP=4.4749,8.39067;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1465,552;CIGAR=1X1M1X4M,1X1M1X3M1X;DP=2033;DPB=2045;DPRA=0.665845,1.312;EPP=3097.95,1133.18;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.4,2.86667;MQM=59.972,59.2844;MQMR=0;NS=21;NUMALT=2;ODDS=6.25994;PAIRED=0,0;PAIREDR=0;PAO=11.5,29;PQA=0,989;PQR=0;PRO=11.5;QA=51860,19434;QR=0;RO=0;RPL=10,8;RPP=3097.95,1133.18;RPPR=0;RPR=1455,544;RUN=1,1;SAF=1465,552;SAP=3184.22,1201.66;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:141:0,138,2:0:0:138,2:4844,71:-435.671,-41.5421,0,-429.886,-35.7595,-429.284 1/1:94:0,94,0:0:0:94,0:3349,0:-301.628,-28.2968,0,-301.628,-28.2968,-301.628 1/2:60:0,31,29:0:0:31,29:1101,1031:-174.083,-84.3697,-75.0377,-90.0682,0,-81.3383 1/2:114:0,65,47:0:0:65,47:2305,1669:-323.675,-135.884,-116.317,-187.815,0,-173.667 1/2:190:0,82,105:0:0:82,105:2897,3692:-536.467,-300.538,-275.854,-235.947,0,-204.339 1/2:92:0,62,30:0:0:62,30:2223,1063:-268.227,-86.9118,-68.2479,-181.67,0,-172.64 1/1:156:0,156,0:0:0:156,0:5479,0:-493.232,-46.9607,0,-493.232,-46.9607,-493.232 2/2:142:0,0,141:0:0:0,141:0,4983:-448.163,-448.163,-448.163,-42.4452,-42.4452,0 1/2:113:0,56,57:0:0:56,57:1989,1985:-323.519,-161.444,-144.586,-162.427,0,-145.268 1/2:17:0,7,8:0:0:7,8:236,279:-41.1369,-22.0111,-19.9039,-19.1418,0,-16.7335 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:32:0,31,1:0:0:31,1:1114,35:-100.217,-9.33193,0,-97.3691,-6.48918,-97.068 1/1:54:0,54,0:0:0:54,0:1893,0:-170.287,-16.2556,0,-170.287,-16.2556,-170.287 1/2:125:0,60,64:0:0:60,64:2132,2239:-355.56,-181.825,-163.764,-173.759,0,-154.493 1/1:174:0,172,1:0:0:172,1:6094,36:-548.218,-51.7772,0,-545.281,-48.8356,-544.98 1/1:82:0,81,1:0:0:81,1:2866,22:-257.956,-24.3834,0,-256.281,-22.4872,-255.98 1/1:115:0,115,0:0:0:115,0:4043,0:-363.7,-34.6185,0,-363.7,-34.6185,-363.7 1/2:76:0,37,37:0:0:37,37:1322,1318:-215.201,-107.414,-96.2755,-107.79,0,-96.6516 1/2:67:0,39,27:0:0:39,27:1392,943:-190.082,-76.5947,-64.8546,-113.507,0,-105.379 1/1:133:0,131,2:0:0:131,2:4661,68:-419.308,-39.4349,0,-413.792,-33.9325,-413.19 1/1:52:0,50,0:0:0:50,0:1776,0:-159.849,-15.0515,0,-159.849,-15.0515,-159.849 chr05 24860904 . T A,C 34462.6 PASS AB=0.567436,0.432564;ABP=35.5191,35.5191;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1211,402;CIGAR=1X,1X;DP=1613;DPB=1613;DPRA=1.74222,1.14177;EPP=2632.66,875.942;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.5,1.90909;MQM=58.6755,59.8756;MQMR=0;NS=21;NUMALT=2;ODDS=5.73712;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43162,14323;QR=0;RO=0;RPL=0,0;RPP=2632.66,875.942;RPPR=0;RPR=1211,402;RUN=1,1;SAF=0,0;SAP=2632.66,875.942;SAR=1211,402;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68,0:0:0:68,0:2416,0:-216.996,-20.47,0,-216.996,-20.47,-216.996 1/1:39:0,39,0:0:0:39,0:1381,0:-124.563,-11.7402,0,-124.563,-11.7402,-124.563 1/2:73:0,48,25:0:0:48,25:1712,896:-212.842,-73.4338,-58.9844,-139.765,0,-132.24 1/2:118:0,57,61:0:0:57,61:2033,2170:-342.817,-177.202,-160.043,-165.971,0,-147.608 1/2:145:0,88,57:0:0:88,57:3164,2033:-423.522,-166.082,-139.591,-257.798,0,-240.639 1/2:63:0,36,27:0:0:36,27:1292,959:-183.815,-78.4617,-67.6247,-105.71,0,-97.5822 1/1:124:0,124,0:0:0:124,0:4385,0:-394.65,-37.3277,0,-394.65,-37.3277,-394.65 2/2:45:0,0,45:0:0:0,45:0,1608:-145.01,-145.01,-145.01,-13.5464,-13.5464,0 1/2:190:0,100,90:0:0:100,90:3545,3221:-551.351,-262.989,-232.886,-288.718,0,-261.625 1/2:16:0,12,4:0:0:12,4:432,133:-46.3631,-11.0935,-7.48111,-35.6088,0,-34.4047 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:30:0,29,1:0:0:29,1:1036,36:-93.1942,-8.72987,0,-90.2567,-5.43263,-89.9556 1/1:158:0,158,0:0:0:158,0:5622,0:-505.433,-47.5627,0,-505.433,-47.5627,-505.433 1/2:111:0,62,49:0:0:62,49:2220,1736:-322.138,-141.77,-123.106,-180.723,0,-165.973 1/1:71:0,71,0:0:0:71,0:2534,0:-228.059,-21.3731,0,-228.059,-21.3731,-228.059 1/1:51:0,51,0:0:0:51,0:1826,0:-164.523,-15.3525,0,-164.523,-15.3525,-164.523 1/1:50:0,50,0:0:0:50,0:1783,0:-160.699,-15.0515,0,-160.699,-15.0515,-160.699 1/2:60:0,38,22:0:0:38,22:1356,775:-173.952,-63.4492,-52.01,-110.856,0,-104.234 1/2:47:0,26,21:0:0:26,21:932,756:-137.941,-62.0456,-54.2188,-76.2543,0,-69.9327 1/1:105:0,105,0:0:0:105,0:3762,0:-338.573,-31.6082,0,-338.573,-31.6082,-338.573 1/1:45:0,45,0:0:0:45,0:1587,0:-143.017,-13.5464,0,-143.017,-13.5464,-143.017 chr05 24860916 . A G,C 34845 PASS AB=0.57503,0.42497;ABP=43.7417,43.7417;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1230,404;CIGAR=1X,1X;DP=1638;DPB=1638;DPRA=1.73043,1.05132;EPP=2673.92,880.285;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=1.6,1.91667;MQM=58.6504,59.8762;MQMR=60;NS=21;NUMALT=2;ODDS=11.8641;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43868,14432;QR=72;RO=2;RPL=0,0;RPP=2673.92,880.285;RPPR=7.35324;RPR=1230,404;RUN=1,1;SAF=0,0;SAP=2673.92,880.285;SAR=1230,404;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69,0:0:0:69,0:2447,0:-220.231,-20.7711,0,-220.231,-20.7711,-220.231 1/1:39:0,39,0:0:0:39,0:1389,0:-125.261,-11.7402,0,-125.261,-11.7402,-125.261 1/2:73:0,48,25:0:0:48,25:1709,894:-212.423,-73.2535,-58.8041,-139.527,0,-132.001 1/2:118:0,58,60:0:0:58,60:2072,2156:-345.093,-176.244,-158.785,-169.207,0,-151.145 1/2:146:0,92,54:0:0:92,54:3261,1925:-422.58,-157.268,-129.573,-265.667,0,-249.411 1/2:67:0,39,28:0:0:39,28:1396,996:-195.318,-81.5114,-69.7712,-114.163,0,-105.734 1/1:128:1,127,0:1:36:127,0:4517,0:-403.041,-34.9336,0,-403.342,-38.2308,-406.279 2/2:46:0,0,46:0:0:0,46:0,1624:-146.446,-146.446,-146.446,-13.8474,-13.8474,0 1/2:192:0,102,90:0:0:102,90:3640,3228:-558.926,-263.379,-232.674,-295.903,0,-268.811 1/2:17:0,12,5:0:0:12,5:428,180:-49.9345,-15.0469,-11.4346,-35.2464,0,-33.7413 1/1:5:0,5,0:0:0:5,0:180,0:-16.5156,-1.50515,0,-16.5156,-1.50515,-16.5156 1/1:30:0,29,1:0:0:29,1:1031,36:-92.7429,-8.72987,0,-89.8054,-5.43263,-89.5043 1/1:161:0,159,0:0:0:159,0:5676,0:-510.002,-47.8638,0,-510.002,-47.8638,-510.002 1/2:111:0,63,48:0:0:63,48:2260,1720:-324.755,-140.634,-121.669,-184.48,0,-170.03 1/1:73:0,73,0:0:0:73,0:2612,0:-235.037,-21.9752,0,-235.037,-21.9752,-235.037 1/1:49:0,49,0:0:0:49,0:1751,0:-157.771,-14.7505,0,-157.771,-14.7505,-157.771 1/1:52:0,52,0:0:0:52,0:1844,0:-166.103,-15.6536,0,-166.103,-15.6536,-166.103 1/2:61:0,38,23:0:0:38,23:1368,809:-177.788,-66.2055,-54.7663,-111.937,0,-105.013 1/2:48:0,27,21:0:0:27,21:972,756:-141.212,-62.0456,-53.9178,-79.5255,0,-73.2039 1/1:106:1,105,0:1:36:105,0:3746,0:-333.49,-28.3109,0,-333.791,-31.6082,-336.728 1/1:47:0,44,3:0:0:44,3:1569,108:-140.994,-13.2453,0,-132.181,-4.07324,-131.278 chr05 24860925 . G C 25052.7 PASS AB=0.572464;ABP=40.775;AC=31;AF=0.738095;AN=42;AO=1205;CIGAR=1X;DP=1609;DPB=1609;DPRA=1.69891;EPP=2619.63;EPPR=880.285;GTI=0;LEN=1;MEANALT=1;MQM=58.6929;MQMR=59.8787;NS=21;NUMALT=1;ODDS=11.0444;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43028;QR=14408;RO=404;RPL=1205;RPP=2619.63;RPPR=880.285;RPR=0;RUN=1;SAF=0;SAP=2619.63;SAR=1205;SRF=0;SRP=880.285;SRR=404;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:0,65:0:0:65:2311:-207.559,-19.567,0 1/1:37:0,37:0:0:37:1317:-118.812,-11.1381,0 0/1:73:25,48:25:892:48:1728:-133.678,0,-58.6237 0/1:119:61,58:61:2183:58:2077:-151.289,0,-160.912 0/1:146:55,91:55:1953:91:3253:-248.313,0,-132.092 0/1:67:28,39:28:1000:39:1395:-105.667,0,-70.1105 1/1:123:0,123:0:0:123:4386:-394.783,-37.0267,0 0/0:46:46,0:46:1643:0:0:0,-13.8474,-148.158 0/1:188:88,100:88:3130:100:3571:-264.507,0,-225.063 0/1:17:5,12:5:180:12:432:-34.1037,0,-11.4346 1/1:5:0,5:0:0:5:180:-16.5156,-1.50515,0 1/1:29:1,28:1:36:28:993:-86.0842,-5.1316,0 1/1:156:0,156:0:0:156:5567:-500.925,-46.9607,0 0/1:111:48,63:48:1715:63:2258:-169.415,0,-121.219 1/1:70:0,70:0:0:70:2504:-225.34,-21.0721,0 1/1:50:0,50:0:0:50:1788:-161.1,-15.0515,0 1/1:51:0,51:0:0:51:1803:-162.418,-15.3525,0 0/1:59:23,36:23:812:36:1292:-98.7781,0,-55.6401 0/1:48:21,27:21:756:27:968:-72.8436,0,-53.9178 1/1:103:0,103:0:0:103:3672:-330.391,-31.0061,0 1/1:46:3,43:3:108:43:1533:-128.073,-3.77221,0 chr05 24879549 . CGAA TGAG,CGAG 68767.5 PASS AB=0.482366,0.514379;ABP=7.98831,6.31994;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2059,1034;CIGAR=1X2M1X,3M1X;DP=3112;DPB=3113;DPRA=1.8247,1.53639;EPP=3750.33,1962.7;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.3,2.53846;MQM=59.1637,59.9749;MQMR=0;NS=21;NUMALT=2;ODDS=7.4204;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=1;QA=72487,36830;QR=0;RO=0;RPL=1972,1000;RPP=3750.33,1962.7;RPPR=0;RPR=87,34;RUN=1,1;SAF=0,0;SAP=4474.07,2248.31;SAR=2059,1034;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,75,0:0:0:75,0:2653,0:-238.627,-22.5773,0,-238.627,-22.5773,-238.627 1/1:44:0,44,0:0:0:44,0:1536,0:-138.431,-13.2453,0,-138.431,-13.2453,-138.431 1/2:56:0,26,29:0:0:26,29:926,1040:-160.281,-84.825,-76.9982,-75.454,0,-66.7241 1/2:53:0,22,31:0:0:22,31:764,1088:-150.997,-88.8945,-82.2719,-62.4514,0,-53.1195 1/2:184:0,85,98:0:0:85,98:2989,3487:-527.621,-284.34,-258.752,-243.434,0,-213.933 1/2:61:0,25,36:0:0:25,36:887,1284:-177.263,-105.026,-97.5006,-72.5916,0,-61.7545 1/1:97:0,95,0:0:0:95,0:3324,0:-298.922,-28.5979,0,-298.922,-28.5979,-298.922 2/2:83:0,0,81:0:0:0,81:0,2891:-260.13,-260.13,-260.13,-24.3834,-24.3834,0 1/2:134:0,61,73:0:0:61,73:2157,2620:-389.59,-213.915,-195.552,-176.031,0,-154.056 1/2:508:0,201,306:0:0:201,306:7052,10908:-1462.69,-889.232,-828.724,-573.536,0,-481.421 1/1:415:0,412,0:0:0:412,0:14404,0:-1293.73,-124.024,0,-1293.73,-124.024,-1293.73 1/1:158:0,157,1:0:0:157,1:5561,36:-500.175,-47.2617,0,-497.237,-43.9645,-496.936 1/1:97:0,96,1:0:0:96,1:3401,32:-305.952,-28.8989,0,-303.374,-26.0006,-303.073 1/2:81:0,37,44:0:0:37,44:1316,1563:-234.935,-127.716,-116.577,-107.575,0,-94.3295 1/1:84:0,80,0:0:0:80,0:2799,0:-251.75,-24.0824,0,-251.75,-24.0824,-251.75 1/1:61:0,61,0:0:0:61,0:2147,0:-193.312,-18.3628,0,-193.312,-18.3628,-193.312 1/1:72:0,72,0:0:0:72,0:2536,0:-228.489,-21.6742,0,-228.489,-21.6742,-228.489 1/2:709:0,401,305:0:0:401,305:14191,10850:-2039.59,-884.289,-763.576,-1155.36,0,-1063.54 1/2:57:0,31,26:0:0:31,26:1103,923:-165.43,-75.56,-66.2281,-90.2248,0,-82.398 1/1:41:0,38,3:0:0:38,3:1350,108:-121.429,-11.4391,0,-112.616,-2.26706,-111.713 1/1:40:0,40,0:0:0:40,0:1391,0:-125.456,-12.0412,0,-125.456,-12.0412,-125.456 chr05 24879558 . C T 36847 PASS AB=0.458097;ABP=29.9434;AC=31;AF=0.738095;AN=42;AO=1852;CIGAR=1X;DP=2898;DPB=2898;DPRA=1.71707;EPP=3921.02;EPPR=2110.17;GTI=1;LEN=1;MEANALT=1.05;MQM=59.2176;MQMR=59.9703;NS=21;NUMALT=1;ODDS=4.62584;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65398;QR=37086;RO=1045;RPL=1840;RPP=3921.02;RPPR=2110.17;RPR=12;RUN=1;SAF=0;SAP=4024.58;SAR=1852;SRF=0;SRP=2272.2;SRR=1045;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74:0:0:74:2625:-236.398,-22.2762,0 1/1:41:0,41:0:0:41:1439:-129.706,-12.3422,0 0/1:55:28,27:28:987:27:948:-68.9295,0,-72.5864 0/1:54:33,21:33:1168:21:735:-50.2079,0,-89.1716 0/1:176:99,77:99:3514:77:2729:-192.841,0,-263.444 0/1:57:36,21:36:1288:21:741:-49.8221,0,-99.0649 1/1:80:0,80:0:0:80:2820:-253.903,-24.0824,0 0/0:82:82,0:82:2884:0:0:0,-24.6845,-259.797 0/1:131:72,58:72:2567:58:2056:-145.815,0,-191.786 0/1:485:309,176:309:10985:176:6210:-412.441,0,-842.556 1/1:367:0,367:0:0:367:12940:-1162.34,-110.478,0 1/1:143:1,142:1:36:142:5023:-448.434,-39.449,0 1/1:82:3,79:3:93:79:2781:-241.84,-16.0077,0 0/1:75:43,32:43:1540:32:1132:-79.5782,0,-116.316 1/1:71:0,71:0:0:71:2503:-225.499,-21.3731,0 1/1:56:0,56:0:0:56:1981:-178.5,-16.8577,0 1/1:67:0,67:0:0:67:2372:-213.737,-20.169,0 0/1:677:309,368:309:10953:368:12999:-965.06,0,-781.879 0/1:56:27,29:27:963:29:1024:-75.5418,0,-70.1283 1/1:37:3,34:3:108:34:1212:-99.3056,-1.06294,0 1/1:32:0,32:0:0:32:1128:-101.801,-9.63296,0 chr05 24882271 . T A 37278.7 PASS AB=0.510894;ABP=4.38236;AC=31;AF=0.738095;AN=42;AO=1796;CIGAR=1X;DP=2582;DPB=2582;DPRA=0.92803;EPP=3902.97;EPPR=1709.79;GTI=0;LEN=1;MEANALT=1;MQM=59.7121;MQMR=59.9695;NS=21;NUMALT=1;ODDS=3.33614;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64226;QR=27998;RO=786;RPL=1796;RPP=3902.97;RPPR=1709.79;RPR=0;RUN=1;SAF=0;SAP=3902.97;SAR=1796;SRF=0;SRP=1709.79;SRR=786;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,110:0:0:110:3938:-354.552,-33.1133,0 1/1:105:0,105:0:0:105:3761:-338.663,-31.6082,0 0/1:118:59,59:59:2116:59:2116:-155.181,0,-155.187 0/1:146:80,66:80:2816:66:2355:-168.256,0,-209.724 0/1:284:130,154:130:4608:154:5512:-410.645,0,-329.386 0/1:111:63,48:63:2245:48:1705:-120.213,0,-168.897 1/1:164:0,164:0:0:164:5858:-527.304,-49.3689,0 0/0:132:132,0:132:4710:0:0:0,-39.736,-424.053 0/1:223:113,110:113:4041:110:3945:-288.101,0,-296.741 0/1:12:7,5:7:252:5:180:-12.935,0,-19.4166 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:31:0,31:0:0:31:1116:-100.747,-9.33193,0 1/1:113:0,113:0:0:113:4030:-362.842,-34.0164,0 0/1:142:60,82:60:2140:82:2927:-220.907,0,-150.122 1/1:218:0,218:0:0:218:7787:-700.168,-65.6245,0 1/1:129:0,129:0:0:129:4589:-413.02,-38.8329,0 1/1:59:0,59:0:0:59:2110:-190.166,-17.7608,0 0/1:197:110,87:110:3933:87:3108:-220.357,0,-294.858 0/1:98:29,69:29:1029:69:2465:-192.601,0,-63.4179 1/1:114:3,111:3:108:111:3992:-349.38,-24.2423,0 1/1:62:0,62:0:0:62:2228:-200.784,-18.6639,0 chr05 24971572 . G C 38551.7 PASS AB=0.592554;ABP=74.9608;AC=32;AF=0.761905;AN=42;AO=1798;CIGAR=1X;DP=2320;DPB=2320;DPRA=0.870635;EPP=3907.32;EPPR=1132.18;GTI=0;LEN=1;MEANALT=1.1;MQM=59.8954;MQMR=59.9365;NS=21;NUMALT=1;ODDS=13.1409;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64350;QR=18555;RO=520;RPL=0;RPP=3907.32;RPPR=1132.18;RPR=1798;RUN=1;SAF=1798;SAP=3907.32;SAR=0;SRF=520;SRP=1132.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:183:0,183:0:0:183:6553:-589.85,-55.0885,0 1/1:73:0,73:0:0:73:2612:-235.328,-21.9752,0 0/1:115:39,76:39:1377:76:2728:-211.045,0,-89.6057 0/1:103:41,62:41:1468:62:2224:-169.41,0,-101.353 0/1:141:64,77:64:2281:77:2741:-204.487,0,-163.105 0/1:65:21,43:21:756:43:1544:-119.627,0,-48.7415 1/1:195:0,195:0:0:195:6996:-629.699,-58.7009,0 0/0:126:126,0:126:4490:0:0:0,-37.9298,-404.267 0/1:225:90,135:90:3202:135:4836:-367.52,0,-220.669 1/1:13:1,12:1:36:12:428:-35.2442,-0.315115,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:73:0,73:0:0:73:2604:-234.609,-21.9752,0 1/1:141:0,141:0:0:141:5030:-452.837,-42.4452,0 0/1:131:58,73:58:2073:73:2612:-195.892,0,-147.404 1/1:188:0,188:0:0:188:6744:-606.798,-56.5936,0 1/1:55:0,55:0:0:55:1964:-177.035,-16.5567,0 1/1:90:0,90:0:0:90:3215:-289.573,-27.0927,0 0/1:87:40,47:40:1440:47:1692:-126.377,0,-103.708 0/1:100:39,60:39:1396:60:2127:-161.535,0,-95.7774 1/1:135:1,134:1:36:134:4800:-428.528,-37.0408,0 1/1:77:0,77:0:0:77:2760:-248.642,-23.1793,0 chr05 25029373 . T C 18507.1 PASS AB=0.483065;ABP=7.49672;AC=11;AF=0.261905;AN=42;AO=1062;CIGAR=1X;DP=3981;DPB=3981;DPRA=2.11731;EPP=2309.11;EPPR=6324.18;GTI=0;LEN=1;MEANALT=1;MQM=59.9718;MQMR=59.9966;NS=21;NUMALT=1;ODDS=26.4571;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37703;QR=104467;RO=2919;RPL=0;RPP=2309.11;RPPR=6324.18;RPR=1062;RUN=1;SAF=1062;SAP=2309.11;SAR=0;SRF=2919;SRP=6341.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:227:225,2:225:8034:2:68:0,-61.8761,-716.624 0/0:104:104,0:104:3744:0:0:0,-31.3071,-337.158 0/1:242:114,128:114:4091:128:4541:-336.008,0,-295.525 0/1:142:78,64:78:2791:64:2287:-163.345,0,-208.684 0/1:338:168,170:168:6018:170:6043:-442.23,0,-439.975 0/1:136:68,68:68:2444:68:2419:-177.008,0,-179.275 0/0:295:293,2:293:10492:2:72:0,-81.9671,-937.359 1/1:182:0,182:0:0:182:6472:-582.569,-54.7875,0 0/1:383:194,189:194:6972:189:6704:-488.144,0,-512.246 0/1:59:28,31:28:1004:31:1104:-81.9099,0,-72.9151 0/0:28:28,0:28:999:0:0:0,-8.42884,-90.2245 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.281 0/0:256:255,1:255:9139:1:36:0,-73.4654,-818.883 0/1:242:130,112:130:4647:112:3986:-286.081,0,-345.543 0/0:428:425,3:425:15159:3:104:0,-119.138,-1354.33 0/0:163:163,0:163:5848:0:0:0,-49.0679,-526.43 0/0:140:140,0:140:5015:0:0:0,-42.1442,-451.496 0/1:170:91,79:91:3252:79:2787:-199.895,0,-241.726 0/1:89:60,29:60:2140:29:1008:-64.2386,0,-166.076 0/0:201:200,1:200:7130:1:36:0,-56.9088,-638.158 0/0:79:78,1:78:2792:1:36:0,-20.1831,-247.922 chr05 25029436 . GGA AGT,AGA 76213.3 PASS AB=0.533209,0.463066;ABP=18.4424,22.098;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2746,909;CIGAR=1X1M1X,1X2M;DP=3667;DPB=3667.33;DPRA=1.12532,1.22075;EPP=5965.87,1976.88;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.15,2.53846;MQM=59.535,59.9725;MQMR=0;NS=21;NUMALT=2;ODDS=24.1321;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=94888,32287;QR=0;RO=0;RPL=0,0;RPP=5965.87,1976.88;RPPR=0;RPR=2746,909;RUN=1,1;SAF=0,0;SAP=5965.87,1976.88;SAR=2746,909;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:226:0,221,5:0:0:221,5:7621,180:-685.476,-66.5276,0,-670.788,-51.4807,-669.283 1/1:178:0,178,0:0:0:178,0:6168,0:-555.086,-53.5833,0,-555.086,-53.5833,-555.086 1/2:136:0,72,64:0:0:72,64:2456,2280:-385.367,-186.196,-164.522,-199.52,0,-180.254 1/2:282:0,151,131:0:0:151,131:5221,4687:-806.773,-382.555,-337.1,-424.57,0,-385.135 1/2:368:0,198,168:0:0:198,168:6821,5989:-1042.1,-488.315,-428.712,-553.91,0,-503.337 1/2:205:0,116,88:0:0:116,88:3965,3112:-575.09,-253.454,-218.535,-321.625,0,-295.134 1/1:308:0,307,0:0:0:307,0:10583,0:-952.074,-92.4162,0,-952.074,-92.4162,-952.074 2/2:156:0,0,156:0:0:0,156:0,5548:-499.446,-499.446,-499.446,-46.9607,-46.9607,0 1/2:283:0,138,142:0:0:138,142:4808,5032:-800.976,-410.01,-368.467,-391.042,0,-348.296 1/2:22:0,12,10:0:0:12,10:424,351:-63.4395,-28.9164,-25.304,-34.875,0,-31.8647 1/1:14:0,14,0:0:0:14,0:479,0:-43.4274,-4.21442,0,-43.4274,-4.21442,-43.4274 1/1:71:0,71,0:0:0:71,0:2468,0:-222.363,-21.3731,0,-222.363,-21.3731,-222.363 1/1:333:0,330,1:0:0:330,1:11448,36:-1029.89,-99.3399,0,-1026.95,-96.3758,-1026.65 1/2:80:0,40,40:0:0:40,40:1360,1401:-224.64,-114.335,-102.294,-110.65,0,-98.6086 1/1:268:0,266,0:0:0:266,0:9214,0:-828.143,-80.074,0,-828.143,-80.074,-828.143 1/1:134:0,133,0:0:0:133,0:4615,0:-415.101,-40.037,0,-415.101,-40.037,-415.101 1/1:102:0,102,0:0:0:102,0:3506,0:-315.536,-30.7051,0,-315.536,-30.7051,-315.536 1/2:105:0,40,65:0:0:40,65:1357,2308:-298.419,-188.412,-176.371,-110.352,0,-90.7849 1/2:130:0,92,38:0:0:92,38:3192,1327:-367.744,-108.287,-80.5922,-259.805,0,-248.366 1/1:154:0,154,0:0:0:154,0:5362,0:-482.641,-46.3586,0,-482.641,-46.3586,-482.641 1/1:112:0,111,1:0:0:111,1:3820,36:-343.556,-33.4143,0,-340.618,-30.1171,-340.317 chr05 25073618 . CTGCT TTGCT 22798.6 PASS AB=0.448082;ABP=28.0381;AC=30;AF=0.714286;AN=42;AO=1134;CIGAR=1X4M;DP=1729;DPB=1729.4;DPRA=0;EPP=2465.46;EPPR=1260.29;GTI=1;LEN=1;MEANALT=1.33333;MQM=59.9947;MQMR=60;NS=21;NUMALT=1;ODDS=1.1443;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=40478;QR=20572;RO=579;RPL=1134;RPP=2465.46;RPPR=1260.29;RPR=0;RUN=1;SAF=0;SAP=2465.46;SAR=1134;SRF=0;SRP=1260.29;SRR=579;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:36,35:36:1286:35:1256:-91.9722,0,-94.6705 0/1:70:42,27:42:1496:27:957:-65.3228,0,-113.814 0/1:77:52,25:52:1858:25:900:-58.1417,0,-144.321 0/1:56:34,22:34:1202:22:788:-54.3871,0,-91.6277 1/1:121:0,121:0:0:121:4300:-387.175,-36.4246,0 1/1:77:0,77:0:0:77:2742:-246.96,-23.1793,0 0/1:141:83,58:83:2944:58:2080:-145.025,0,-222.75 0/1:65:34,25:34:1197:25:900:-63.2219,0,-89.9386 0/1:152:91,60:91:3232:60:2160:-148.851,0,-245.288 0/1:26:16,10:16:567:10:360:-24.9175,0,-43.5346 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:29:24,5:24:857:5:180:-7.82219,0,-68.7217 0/1:83:52,31:52:1852:31:1078:-72.3383,0,-141.974 1/1:89:0,89:0:0:89:3154:-284.019,-26.7917,0 1/1:170:0,170:0:0:170:6086:-547.838,-51.1751,0 1/1:41:0,41:0:0:41:1476:-133.136,-12.3422,0 1/1:41:0,41:0:0:41:1470:-132.596,-12.3422,0 0/1:219:91,125:91:3238:125:4484:-338.346,0,-226.26 0/1:80:24,56:24:843:56:1965:-153.037,0,-52.1061 1/1:57:0,53:0:0:53:1893:-170.289,-15.9546,0 1/1:58:0,57:0:0:57:2033:-182.881,-17.1587,0 chr05 25109837 . A C 26596.6 PASS AB=0.595092;ABP=67.0221;AC=29;AF=0.690476;AN=42;AO=1275;CIGAR=1X;DP=1664;DPB=1664;DPRA=0;EPP=2771.64;EPPR=843.37;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.902;MQMR=59.9561;NS=21;NUMALT=1;ODDS=7.78715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45590;QR=13814;RO=387;RPL=0;RPP=2771.64;RPPR=843.37;RPR=1275;RUN=1;SAF=1275;SAP=2771.64;SAR=0;SRF=387;SRP=843.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:25,47:25:900:47:1670:-128.899,0,-59.6469 0/1:88:39,49:39:1377:49:1760:-132.193,0,-97.7357 0/1:105:48,57:48:1720:57:2040:-152.264,0,-123.477 0/1:60:29,31:29:1044:31:1112:-82.3295,0,-76.213 0/1:130:54,76:54:1905:76:2700:-203.828,0,-132.591 0/1:48:20,28:20:716:28:1000:-75.8659,0,-50.3183 1/1:159:1,157:1:36:157:5603:-500.785,-44.3243,0 0/0:53:51,2:51:1832:2:72:0,-9.11787,-158.322 0/1:104:49,55:49:1752:55:1954:-144.825,0,-126.652 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:39:2,37:2:72:37:1332:-113.346,-4.90345,0 1/1:38:1,37:1:36:37:1328:-116.224,-7.84087,0 0/1:110:32,78:32:1140:78:2780:-217.289,0,-69.7957 1/1:185:1,184:1:36:184:6612:-591.556,-52.0923,0 1/1:105:0,105:0:0:105:3752:-337.875,-31.6082,0 1/1:156:0,156:0:0:156:5576:-501.964,-46.9607,0 0/1:58:24,34:24:852:34:1216:-92.2868,0,-59.5406 0/1:34:8,26:8:288:26:936:-74.3229,0,-16.0324 1/1:71:1,70:1:36:70:2507:-222.283,-17.7749,0 1/1:39:0,38:0:0:38:1352:-121.619,-11.4391,0 chr05 25109874 . T C 23282.6 PASS AB=0.583016;ABP=50.2405;AC=29;AF=0.690476;AN=42;AO=1194;CIGAR=1X;DP=1581;DPB=1581;DPRA=0;EPP=2595.75;EPPR=836.856;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9556;MQMR=59.9583;NS=21;NUMALT=1;ODDS=5.96823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40964;QR=13749;RO=384;RPL=1194;RPP=2595.75;RPPR=836.856;RPR=0;RUN=1;SAF=1194;SAP=2595.75;SAR=0;SRF=384;SRP=836.856;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:70:25,45:25:900:45:1539:-117.498,0,-60.2489 0/1:88:39,49:39:1392:49:1688:-125.71,0,-99.0875 0/1:102:48,54:48:1715:54:1890:-139.672,0,-123.93 0/1:59:29,30:29:1040:30:980:-70.7341,0,-76.1536 0/1:123:54,69:54:1931:69:2318:-171.848,0,-137.037 0/1:48:20,28:20:711:28:951:-71.4464,0,-49.8662 1/1:146:1,145:1:36:145:5020:-448.349,-40.3521,0 0/0:53:51,2:51:1824:2:57:0,-10.5413,-159.025 0/1:99:48,51:48:1716:51:1739:-126.983,0,-124.919 0/1:7:2,4:2:72:4:144:-11.2675,0,-4.7706 1/1:4:0,4:0:0:4:125:-11.5586,-1.20412,0 1/1:39:2,37:2:72:37:1265:-107.308,-4.90345,0 1/1:36:1,35:1:36:35:1189:-103.709,-7.23881,0 0/1:107:32,74:32:1152:74:2545:-197.025,0,-71.7211 1/1:166:1,165:1:36:165:5676:-507.377,-46.3727,0 1/1:102:0,102:0:0:102:3517:-316.736,-30.7051,0 1/1:147:0,146:0:0:146:5068:-455.913,-43.9504,0 0/1:54:23,31:23:828:31:1040:-77.6464,0,-58.5885 0/1:32:7,25:7:252:25:849:-67.0892,0,-13.396 1/1:64:1,63:1:36:63:2186:-193.406,-15.6676,0 1/1:35:0,35:0:0:35:1178:-106.316,-10.5361,0 chr05 25109989 . T C 34070.3 PASS AB=0.572763;ABP=62.1031;AC=29;AF=0.690476;AN=42;AO=1678;CIGAR=1X;DP=2318;DPB=2318;DPRA=1.25225;EPP=3646.74;EPPR=1388.41;GTI=0;LEN=1;MEANALT=1.1;MQM=59.7408;MQMR=59.9639;NS=21;NUMALT=1;ODDS=1.79083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59273;QR=22697;RO=638;RPL=0;RPP=3646.74;RPPR=1388.41;RPR=1678;RUN=1;SAF=0;SAP=3646.74;SAR=1678;SRF=0;SRP=1388.41;SRR=638;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:40,54:40:1428:54:1877:-140.793,0,-100.451 0/1:141:51,90:51:1820:90:3208:-246.464,0,-121.636 0/1:115:40,75:40:1431:75:2627:-202.033,0,-94.4675 0/1:180:67,113:67:2404:113:4008:-306.716,0,-162.431 0/1:186:97,88:97:3441:88:3093:-222.532,0,-253.854 0/1:143:70,73:70:2468:73:2573:-188.753,0,-179.326 1/1:205:1,204:1:36:204:7175:-642.02,-58.1129,0 0/0:89:89,0:89:3183:0:0:0,-26.7917,-286.693 0/1:241:100,141:100:3549:141:4952:-373.263,0,-247.071 0/1:8:3,5:3:104:5:176:-13.7768,0,-7.29457 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:37:0,37:0:0:37:1298:-117.111,-11.1381,0 1/1:108:0,108:0:0:108:3832:-344.583,-32.5112,0 0/1:117:47,70:47:1680:70:2473:-187.599,0,-116.266 1/1:210:0,209:0:0:209:7429:-668.225,-62.9153,0 1/1:117:0,117:0:0:117:4155:-374.127,-35.2205,0 1/1:96:0,96:0:0:96:3399:-306.117,-28.8989,0 0/1:29:18,11:18:640:11:396:-27.2529,0,-49.1994 0/1:31:15,16:15:513:16:567:-42.0288,0,-37.1609 1/1:135:0,135:0:0:135:4769:-429.349,-40.6391,0 1/1:28:0,28:0:0:28:978:-88.3312,-8.42884,0 chr05 25151839 . C T 15008.2 PASS AB=0.385667;ABP=243.833;AC=13;AF=0.309524;AN=42;AO=944;CIGAR=1X;DP=3676;DPB=3676;DPRA=1.23724;EPP=2052.88;EPPR=5935.47;GTI=0;LEN=1;MEANALT=1;MQM=59.9025;MQMR=50.8895;NS=21;NUMALT=1;ODDS=5.90208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33665;QR=96693;RO=2732;RPL=0;RPP=2052.88;RPPR=39.4103;RPR=944;RUN=1;SAF=0;SAP=2052.88;SAR=944;SRF=1259;SRP=39.4103;SRR=1473;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:127,80:127:4472:80:2855:-194.852,0,-334.96 0/1:182:123,59:123:4399:59:2096:-134.117,0,-330.799 0/1:100:62,38:62:2190:38:1360:-92.5976,0,-164.793 0/1:269:202,67:202:7118:67:2379:-133.391,0,-551.556 0/1:342:161,181:161:5686:181:6467:-479.165,0,-400.003 0/1:194:90,104:90:3198:104:3715:-276.136,0,-224.503 0/0:285:285,0:285:10076:0:0:0,-85.7935,-881.963 1/1:123:0,123:0:0:123:4374:-393.832,-37.0267,0 0/1:348:186,162:186:6615:162:5778:-415.309,0,-486.233 0/1:64:51,13:51:1812:13:460:-22.4695,0,-137.492 0/0:83:83,0:83:2964:0:0:0,-24.9855,-251.634 0/0:64:64,0:64:2275:0:0:0,-19.2659,-197.94 0/0:246:246,0:246:8752:0:0:0,-74.0534,-778.101 0/1:194:142,52:142:4978:52:1862:-109.46,0,-382.793 0/0:143:142,1:142:5050:1:36:0,-39.449,-443.658 0/0:149:149,0:149:5310:0:0:0,-44.8535,-471.021 0/0:146:146,0:146:5099:0:0:0,-43.9504,-454.495 0/1:109:79,30:79:2751:30:1072:-63.9802,0,-205.603 0/1:112:80,32:80:2812:32:1143:-69.464,0,-216.512 0/0:231:229,2:229:8145:2:68:0,-63.0802,-709.953 0/0:85:85,0:85:2991:0:0:0,-25.5875,-258.908 chr05 25155632 . 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CG AC,AG 33834.8 PASS AB=0.563097,0.435843;ABP=35.6192,36.7245;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1148,485;CIGAR=2X,1X1M;DP=1634;DPB=1634;DPRA=1.11714,1.16364;EPP=2495.86,1056.17;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.75,2;MQM=59.7073,59.9649;MQMR=0;NS=21;NUMALT=2;ODDS=0.20122;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40226,17227;QR=0;RO=0;RPL=0,0;RPP=2495.86,1056.17;RPPR=0;RPR=1148,485;RUN=1,1;SAF=0,0;SAP=2495.86,1056.17;SAR=1148,485;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:71:0,49,22:0:0:49,22:1672,779:-199.459,-63.8094,-49.0589,-136,0,-129.377 1/2:12:0,10,2:0:0:10,2:355,72:-35.1543,-6.23466,-3.22436,-29.2787,0,-28.6766 1/2:85:0,39,46:0:0:39,46:1322,1648:-241.921,-134.761,-123.021,-107.508,0,-93.6602 1/2:83:0,42,41:0:0:42,41:1431,1463:-235.706,-119.623,-106.98,-116.432,0,-104.09 1/2:160:0,91,68:0:0:91,68:3200,2407:-456.525,-196.052,-168.658,-260.466,0,-239.996 1/2:54:0,35,19:0:0:35,19:1204,660:-151.71,-54.0015,-43.4655,-98.0549,0,-92.3353 1/1:70:0,70,0:0:0:70,0:2498,0:-225.072,-21.0721,0,-225.072,-21.0721,-225.072 2/2:70:0,0,70:0:0:0,70:0,2480:-223.452,-223.452,-223.452,-21.0721,-21.0721,0 1/2:158:0,85,73:0:0:85,73:3024,2599:-458.624,-212.183,-186.596,-246.797,0,-224.821 1/2:14:0,11,3:0:0:11,3:396,108:-41.4837,-9.17208,-5.86075,-32.6714,0,-31.7683 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:17:0,17,0:0:0:17,0:588,0:-53.2428,-5.11751,0,-53.2428,-5.11751,-53.2428 1/1:118:0,118,0:0:0:118,0:4127,0:-371.599,-35.5215,0,-371.599,-35.5215,-371.599 1/2:110:0,55,55:0:0:55,55:1940,1949:-317.088,-159.126,-142.569,-158.315,0,-141.759 1/1:172:0,172,0:0:0:172,0:6028,0:-542.617,-51.7772,0,-542.617,-51.7772,-542.617 1/1:37:0,37,0:0:0:37,0:1319,0:-119.011,-11.1381,0,-119.011,-11.1381,-119.011 1/1:41:0,40,1:0:0:40,1:1431,36:-128.726,-12.0412,0,-125.789,-8.74396,-125.488 1/2:66:0,31,35:0:0:31,35:1086,1248:-190.451,-102.089,-92.7569,-88.7154,0,-78.1794 1/2:130:0,83,47:0:0:83,47:2925,1670:-374.578,-136.439,-111.453,-238.494,0,-224.345 1/1:101:0,100,1:0:0:100,1:3504,36:-315.194,-30.103,0,-312.256,-26.8058,-311.955 1/1:61:0,59,2:0:0:59,2:2032,72:-182.665,-17.7608,0,-176.789,-11.5261,-176.187 chr05 25199141 . G A 11238.9 PASS AB=0.42124;ABP=78.6032;AC=13;AF=0.309524;AN=42;AO=692;CIGAR=1X;DP=2361;DPB=2361;DPRA=1.45683;EPP=1505.67;EPPR=3625.03;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9566;MQMR=59.964;NS=21;NUMALT=1;ODDS=19.4303;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24601;QR=59488;RO=1668;RPL=0;RPP=1505.67;RPPR=3625.03;RPR=692;RUN=1;SAF=0;SAP=1505.67;SAR=692;SRF=0;SRP=3625.03;SRR=1668;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:102,72:102:3659:72:2548:-177.19,0,-277.103 0/1:84:40,44:40:1440:44:1563:-115.674,0,-104.611 0/1:101:68,33:68:2435:33:1180:-76.104,0,-189.001 0/1:109:57,52:57:2033:52:1846:-133.606,0,-150.428 0/1:279:167,112:167:5964:112:3983:-274.674,0,-452.879 0/1:95:60,35:60:2147:35:1251:-84.2964,0,-164.863 0/0:193:186,6:186:6570:6:212:0,-38.6034,-571.976 1/1:91:0,91:0:0:91:3249:-292.63,-27.3937,0 0/1:199:99,100:99:3534:100:3527:-257.724,0,-258.364 0/1:21:7,14:7:252:14:504:-39.3765,0,-16.7073 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.261 0/0:86:86,0:86:3073:0:0:0,-25.8886,-276.797 0/1:157:83,74:83:2958:74:2639:-190.49,0,-219.191 0/0:175:175,0:175:6235:0:0:0,-52.6802,-561.246 0/0:97:95,2:95:3398:2:72:0,-22.3632,-299.197 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/1:96:63,33:63:2248:33:1188:-78.3297,0,-173.685 0/1:88:66,22:66:2352:22:776:-43.6715,0,-185.446 0/0:106:105,1:105:3737:1:36:0,-28.3109,-332.932 0/0:54:53,1:53:1853:1:27:0,-13.5558,-164.34 chr05 25210729 . AGGTGCC GGGTGCT,GGTTGCT 76536.7 PASS AB=0.505165,0.481921;ABP=3.45895,8.50628;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2446,1140;CIGAR=1X5M1X,1X1M1X3M1X;DP=3621;DPB=3621;DPRA=0.846287,1.59696;EPP=5193.53,2383.87;EPPR=0;GTI=0;LEN=7,7;MEANALT=3.1,3.47059;MQM=59.982,59.8149;MQMR=0;NS=21;NUMALT=2;ODDS=8.38253;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=86695,39780;QR=0;RO=0;RPL=14,11;RPP=5193.53,2383.87;RPPR=0;RPR=2432,1129;RUN=1,1;SAF=2446,1140;SAP=5314.43,2478.49;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:194:0,104,88:0:0:104,88:3691,3048:-548.429,-247.694,-216.387,-300.726,0,-274.236 1/2:246:0,124,121:0:0:124,121:4408,4179:-698.732,-339.514,-302.186,-359.208,0,-322.784 1/2:100:0,48,51:0:0:48,51:1694,1796:-284.17,-146.227,-131.777,-137.956,0,-122.603 1/2:264:0,130,133:0:0:130,133:4603,4605:-748.824,-373.871,-334.737,-375.012,0,-334.975 1/2:447:0,224,213:0:0:224,213:7924,7402:-1247.14,-601.77,-534.339,-645.372,0,-581.253 1/2:71:0,30,40:0:0:30,40:1064,1422:-202.562,-115.876,-106.845,-86.6811,0,-74.6399 1/1:306:0,302,1:0:0:302,1:10663,36:-959.271,-90.9111,0,-956.334,-87.9612,-956.033 2/2:202:0,0,201:0:0:0,201:0,7101:-638.836,-638.836,-638.836,-60.507,-60.507,0 1/2:297:0,150,143:0:0:150,143:5354,5026:-845.569,-409.085,-363.93,-436.479,0,-393.432 1/2:12:0,8,4:0:0:8,4:288,138:-35.0652,-11.5559,-9.14768,-23.8592,0,-22.655 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/1:53:0,53,0:0:0:53,0:1879,0:-169.388,-15.9546,0,-169.388,-15.9546,-169.388 1/1:194:0,193,0:0:0:193,0:6842,0:-615.497,-58.0988,0,-615.497,-58.0988,-615.497 1/2:150:0,65,80:0:0:65,80:2281,2758:-409.669,-224.032,-204.465,-185.646,0,-161.564 1/1:196:0,194,1:0:0:194,1:6894,36:-620.175,-58.3998,0,-617.238,-55.4425,-616.937 1/1:213:0,213,0:0:0:213,0:7567,0:-681.07,-64.1194,0,-681.07,-64.1194,-681.07 1/1:258:0,254,1:0:0:254,1:8977,36:-807.571,-76.4616,0,-804.633,-73.5207,-804.332 1/2:56:0,32,24:0:0:32,24:1144,822:-160.354,-67.0664,-57.4334,-93.6366,0,-86.4118 1/2:99:0,63,36:0:0:63,36:2231,1272:-285.682,-103.946,-84.981,-182.089,0,-171.252 1/1:207:0,204,2:0:0:204,2:7244,67:-651.675,-61.4101,0,-646.25,-56.0009,-645.648 1/1:51:0,50,1:0:0:50,1:1771,36:-159.308,-15.0515,0,-156.371,-11.7543,-156.07 chr05 25222758 . A G 145.241 PASS AB=0.355811;ABP=758.215;AC=10;AF=0.238095;AN=42;AO=1741;CIGAR=1X;DP=7437;DPB=7437;DPRA=2.4735;EPP=3783.54;EPPR=12334.8;GTI=8;LEN=1;MEANALT=1.17647;MQM=10.9179;MQMR=11.6132;NS=21;NUMALT=1;ODDS=7.42684;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61830;QR=203124;RO=5691;RPL=754;RPP=70.7226;RPPR=288.505;RPR=987;RUN=1;SAF=754;SAP=70.7226;SAR=987;SRF=2416;SRP=284.558;SRR=3275;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:496:316,180:316:11255:180:6433:-20.3969,0,-174.088 0/1:507:353,154:353:12610:154:5516:-7.6452,0,-219.9 0/1:332:204,128:204:7281:128:4544:-23.6572,0,-114.32 0/0:488:336,152:336:12015:152:5375:0,-0.353927,-202.589 0/1:818:546,271:546:19528:271:9619:-11.4954,0,-319.538 0/0:351:262,89:262:9362:89:3172:0,-12.9805,-179.882 0/0:410:408,2:408:14574:2:72:0,-121.24,-422.973 0/1:426:213,211:213:7606:211:7486:-91.0606,0,-94.2458 0/1:770:511,259:511:18181:259:9157:-14.4955,0,-298.056 0/1:44:23,21:23:824:21:733:-8.75562,0,-10.2375 0/0:10:10,0:10:352:0:0:0,-3.0103,-10.4475 0/0:94:93,1:93:3336:1:36:0,-27.0984,-95.4499 0/0:245:245,0:245:8744:0:0:0,-73.7523,-256.925 0/1:382:260,122:260:9232:122:4324:-2.43302,0,-156.778 0/0:711:706,5:706:25211:5:180:0,-209.253,-736.981 0/0:263:263,0:263:9428:0:0:0,-79.1709,-273.259 0/0:246:243,1:243:8657:1:36:0,-72.5539,-250.244 0/1:195:125,70:125:4437:70:2482:-13.7928,0,-70.3139 0/1:212:140,72:140:5002:72:2558:-3.51887,0,-81.1645 0/0:309:306,3:306:10906:3:107:0,-89.7561,-316.625 0/0:128:128,0:128:4583:0:0:0,-38.5318,-131.873 chr05 25551883 . GAGGT AAGGA,AAGGT 23952.2 PASS AB=0.493939,0.504545;ABP=3.22087,3.12874;AC=29,13;AF=0.690476,0.309524;AN=42;AO=730,428;CIGAR=1X3M1X,1X4M;DP=1159;DPB=1159.2;DPRA=0,1.28656;EPP=1588.19,932.4;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.66667,2.07692;MQM=44.7836,56.8037;MQMR=0;NS=21;NUMALT=2;ODDS=0.168074;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=25955,15257;QR=0;RO=0;RPL=0,0;RPP=1588.19,932.4;RPPR=0;RPR=730,428;RUN=1,1;SAF=730,428;SAP=1588.19,932.4;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,41,29:0:0:41,29:1454,1025:-199.697,-83.8144,-71.4722,-116.233,0,-107.503 1/2:70:0,27,43:0:0:27,43:966,1514:-200.557,-123.374,-115.246,-77.5351,0,-64.5908 1/2:31:0,15,16:0:0:15,16:532,576:-89.4423,-47.3509,-42.8354,-42.4437,0,-37.6272 1/2:28:0,9,19:0:0:9,19:320,674:-80.5393,-54.9861,-52.2768,-25.9034,0,-20.1838 1/2:101:0,48,52:0:0:48,52:1691,1828:-284.253,-148.429,-133.979,-135.856,0,-120.203 1/2:57:0,21,36:0:0:21,36:752,1296:-166.593,-105.993,-99.6714,-60.9558,0,-50.1188 1/1:122:0,122,0:0:0:122,0:4334,0:-384.736,-36.7257,0,-384.736,-36.7257,-384.736 2/2:95:0,1,94:0:0:1,94:33,3375:-302.857,-300.212,-299.911,-28.2968,-25.3244,0 1/2:89:0,43,46:0:0:43,46:1522,1648:-255.624,-134.722,-121.777,-121.254,0,-107.407 1/2:11:0,4,7:0:0:4,7:144,252:-32.4888,-20.9108,-19.7067,-11.9347,0,-9.82752 1/1:4:0,4,0:0:0:4,0:144,0:-13.1669,-1.20412,0,-13.1669,-1.20412,-13.1669 1/1:13:0,13,0:0:0:13,0:466,0:-41.7093,-3.91339,0,-41.7093,-3.91339,-41.7093 1/1:35:0,35,0:0:0:35,0:1236,0:-109.379,-10.5361,0,-109.379,-10.5361,-109.379 1/2:35:0,20,15:0:0:20,15:704,532:-99.104,-43.6444,-37.6238,-55.8084,0,-51.2929 1/1:88:0,88,0:0:0:88,0:3141,0:-277.959,-26.4906,0,-277.959,-26.4906,-277.959 1/1:35:0,35,0:0:0:35,0:1245,0:-110.262,-10.5361,0,-110.262,-10.5361,-110.262 1/1:26:0,26,0:0:0:26,0:924,0:-82.1943,-7.82678,0,-82.1943,-7.82678,-82.1943 1/2:97:0,45,52:0:0:45,52:1604,1872:-279.607,-152.955,-139.408,-127.005,0,-111.351 1/2:71:0,53,18:0:0:53,18:1898,629:-203.469,-51.425,-35.4704,-152.394,0,-146.975 1/1:29:0,28,1:0:0:28,1:990,36:-87.4998,-8.42884,0,-84.5635,-5.13331,-84.2625 1/1:52:0,52,0:0:0:52,0:1855,0:-164.736,-15.6536,0,-164.736,-15.6536,-164.736 chr05 25551901 . G T 19433.7 PASS AB=0.473066;ABP=12.1341;AC=13;AF=0.309524;AN=42;AO=829;CIGAR=1X;DP=2489;DPB=2489;DPRA=1.45168;EPP=4.39596;EPPR=59.1632;GTI=0;LEN=1;MEANALT=1.23077;MQM=57.7539;MQMR=51.5896;NS=21;NUMALT=1;ODDS=13.0415;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29579;QR=58373;RO=1657;RPL=1;RPP=1794.49;RPPR=3601.14;RPR=828;RUN=1;SAF=427;SAP=4.64742;SAR=402;SRF=725;SRP=59.1632;SRR=932;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:85,64:85:2982:64:2296:-161.666,0,-221.27 0/1:146:60,86:60:2139:86:3049:-230.327,0,-146.428 0/1:61:32,29:32:1143:29:1036:-75.1788,0,-83.243 0/1:125:63,62:63:2197:62:2220:-161.739,0,-159.538 0/1:266:132,134:132:4635:134:4776:-348.108,0,-335.1 0/1:133:70,63:70:2479:63:2241:-161.801,0,-181.051 0/0:209:209,0:209:7350:0:0:0,-62.9153,-654.596 1/1:144:1,143:1:36:143:5094:-453.635,-39.7998,0 0/1:163:74,88:74:2629:88:3130:-232.757,0,-184.343 0/1:21:5,16:5:176:16:576:-45.8425,0,-9.64001 0/0:19:19,0:19:656:0:0:0,-5.71957,-59.1928 0/0:34:34,0:34:1192:0:0:0,-10.235,-106.944 0/0:91:91,0:91:3225:0:0:0,-27.3937,-288.035 0/1:83:57,26:57:1968:26:921:-58.2037,0,-151.516 0/0:177:177,0:177:6260:0:0:0,-53.2823,-558.325 0/0:68:68,0:68:2395:0:0:0,-20.47,-213.98 0/0:36:36,0:36:1283:0:0:0,-10.8371,-114.353 0/1:168:90,78:90:3148:78:2800:-201.074,0,-228.734 0/1:131:92,39:92:3256:39:1404:-87.0856,0,-250.949 0/0:156:155,1:155:5445:1:36:0,-43.3641,-484.121 0/0:107:107,0:107:3779:0:0:0,-32.2102,-337.528 chr05 25551933 . TTGC GTGA,TTGA 65935.9 PASS AB=0.530429,0.464039;ABP=14.6395,19.2528;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1671,810;CIGAR=1X2M1X,3M1X;DP=2492;DPB=2493.75;DPRA=0,1.39074;EPP=73.5591,3.10681;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.14286,2.64286;MQM=51.477,57.8889;MQMR=60;NS=21;NUMALT=2;ODDS=15.6504;PAIRED=0,0;PAIREDR=0;PAO=5,1;PQA=159,0;PQR=0;PRO=1;QA=58480,28853;QR=30;RO=1;RPL=1665,810;RPP=3579.61,1761.9;RPPR=5.18177;RPR=6,0;RUN=1,1;SAF=713,402;SAP=81.0131,3.10681;SAR=958,408;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:153:0,87,65:0:0:87,65:3042,2304:-433.071,-187.642,-161.452,-245.44,0,-225.873 1/2:147:1,58,86:1:30:58,86:2044,3076:-412.076,-248.102,-233.04,-161.907,0,-138.416 1/2:60:0,32,28:0:0:32,28:1128,1004:-172.933,-82.236,-72.603,-91.0506,0,-82.6218 1/2:127:0,65,62:0:0:65,62:2296,2224:-367.27,-181.69,-162.123,-185.934,0,-167.27 1/2:262:0,134,127:0:0:134,127:4673,4511:-744.746,-366.611,-326.273,-378.131,0,-339.901 1/2:133:0,70,62:0:0:70,62:2462,2198:-377.275,-178.927,-157.855,-198.343,0,-179.679 1/1:214:0,214,0:0:0:214,0:7448,0:-663.909,-64.4204,0,-663.909,-64.4204,-663.909 2/2:139:0,1,137:0:0:1,137:35,4892:-439.207,-436.395,-436.094,-41.2411,-38.4363,0 1/2:164:0,76,88:0:0:76,88:2664,3152:-470.716,-257.375,-234.496,-213.693,0,-187.202 1/2:20:0,5,15:0:0:5,15:166,536:-57.3158,-44.051,-42.5458,-13.6003,0,-9.08487 1/1:21:0,21,0:0:0:21,0:735,0:-66.3042,-6.32163,0,-66.3042,-6.32163,-66.3042 1/1:35:0,35,0:0:0:35,0:1220,0:-109.471,-10.5361,0,-109.471,-10.5361,-109.471 1/1:90:0,88,1:0:0:88,1:3072,32:-274.255,-26.4906,0,-271.677,-23.9222,-271.376 1/2:82:0,57,24:0:0:57,24:2000,852:-229.978,-69.4669,-52.3082,-160.609,0,-153.385 1/1:179:0,179,0:0:0:179,0:6265,0:-559.295,-53.8844,0,-559.295,-53.8844,-559.295 1/1:69:0,69,0:0:0:69,0:2422,0:-216.134,-20.7711,0,-216.134,-20.7711,-216.134 1/1:36:0,36,0:0:0:36,0:1263,0:-112.676,-10.8371,0,-112.676,-10.8371,-112.676 1/2:168:0,90,78:0:0:90,78:3093,2761:-472.459,-224.648,-197.555,-247.887,0,-224.407 1/2:130:0,93,36:0:0:93,36:3282,1275:-368.254,-103.728,-75.7317,-264.519,0,-253.682 1/1:158:0,157,1:0:0:157,1:5501,36:-492.623,-47.2617,0,-489.687,-43.9662,-489.386 1/1:105:0,104,0:0:0:104,0:3669,0:-327.548,-31.3071,0,-327.548,-31.3071,-327.548 chr05 25686174 . G A 11647.1 PASS AB=0.491658;ABP=3.62615;AC=13;AF=0.309524;AN=42;AO=660;CIGAR=1X;DP=1798;DPB=1798;DPRA=1.46443;EPP=1436.18;EPPR=2463.3;GTI=1;LEN=1;MEANALT=1.07692;MQM=54.4848;MQMR=59.5726;NS=21;NUMALT=1;ODDS=0.306367;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23386;QR=40584;RO=1137;RPL=0;RPP=1436.18;RPPR=2463.3;RPR=660;RUN=1;SAF=660;SAP=1436.18;SAR=0;SRF=1137;SRP=2471.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:50,24:50:1800:24:849:-52.9741,0,-139.985 0/1:18:16,2:16:561:2:72:-1.40099,0,-45.3986 0/1:122:49,73:49:1745:73:2567:-194.257,0,-120.602 0/1:83:49,34:49:1741:34:1190:-82.3395,0,-131.972 0/1:288:154,133:154:5491:133:4742:-338.855,0,-407.55 0/1:50:29,21:29:1040:21:737:-51.2521,0,-78.8465 0/0:155:155,0:155:5523:0:0:0,-46.6596,-497.095 1/1:159:1,158:1:36:158:5597:-499.03,-44.2655,0 0/1:114:45,69:45:1605:69:2421:-183.546,0,-110.362 0/1:7:3,4:3:108:4:144:-11.1875,0,-7.96796 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:33:33,0:33:1172:0:0:0,-9.93399,-105.786 0/0:94:94,0:94:3380:0:0:0,-28.2968,-304.209 0/1:99:43,56:43:1506:56:2001:-150.146,0,-106.009 0/0:121:121,0:121:4340:0:0:0,-36.4246,-390.753 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.866 0/0:42:42,0:42:1493:0:0:0,-12.6433,-134.663 0/1:83:31,52:31:1112:52:1872:-142.499,0,-75.3988 0/1:81:48,33:48:1713:33:1158:-79.9809,0,-130.066 0/0:88:87,1:87:3109:1:36:0,-22.8975,-276.423 0/0:46:46,0:46:1637:0:0:0,-13.8474,-147.519 chr05 25686245 . GGCAA AGCAA 32009.5 PASS AB=0.534257;ABP=16.2514;AC=29;AF=0.690476;AN=42;AO=1558;CIGAR=1X4M;DP=2343;DPB=2343;DPRA=0.635088;EPP=3342.87;EPPR=1653.37;GTI=0;LEN=1;MEANALT=1.65;MQM=59.8646;MQMR=59.9453;NS=21;NUMALT=1;ODDS=6.02769;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55543;QR=26827;RO=768;RPL=5;RPP=3342.87;RPPR=1653.37;RPR=1553;RUN=1;SAF=0;SAP=3386.16;SAR=1558;SRF=0;SRP=1670.7;SRR=768;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:209:94,113:94:3278:113:4026:-299.933,0,-232.651 0/1:52:22,30:22:775:30:1080:-81.8597,0,-54.4179 0/1:118:58,57:58:2043:57:2036:-148.534,0,-149.165 0/1:212:97,112:97:3396:112:3980:-295.109,0,-242.584 0/1:171:94,77:94:3294:77:2735:-194.917,0,-245.207 0/1:84:32,52:32:1125:52:1857:-142.083,0,-76.2712 1/1:160:0,160:0:0:160:5706:-513.508,-48.1648,0 0/0:171:171,0:171:5943:0:0:0,-51.4761,-534.989 0/1:103:47,56:47:1639:56:2003:-149.529,0,-116.791 0/1:34:20,11:20:715:11:396:-26.2772,0,-54.9864 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 1/1:134:0,133:0:0:133:4756:-427.839,-40.037,0 0/1:106:54,52:54:1866:52:1841:-134.05,0,-136.307 1/1:205:0,204:0:0:204:7272:-654.233,-61.4101,0 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 1/1:120:4,115:4:138:115:4117:-357.959,-23.3797,0 0/1:123:48,74:48:1690:74:2614:-198.499,0,-115.378 0/1:87:27,60:27:925:60:2114:-164.325,0,-57.2629 1/1:128:0,126:0:0:126:4494:-404.253,-37.9298,0 1/1:50:0,50:0:0:50:1796:-161.905,-15.0515,0 chr05 25686856 . C T 7837.98 PASS AB=0.476454;ABP=4.74868;AC=29;AF=0.690476;AN=42;AO=395;CIGAR=1X;DP=657;DPB=657;DPRA=0.4;EPP=860.742;EPPR=563.283;GTI=0;LEN=1;MEANALT=1;MQM=59.5443;MQMR=59.9504;NS=21;NUMALT=1;ODDS=0.339241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14118;QR=9254;RO=262;RPL=0;RPP=860.742;RPPR=563.283;RPR=395;RUN=1;SAF=395;SAP=860.742;SAR=0;SRF=262;SRP=571.936;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:19:10,9:10:356:9:324:-23.7839,0,-26.6617 0/1:12:8,4:8:284:4:131:-8.48791,0,-22.291 0/1:26:20,6:20:720:6:216:-11.9614,0,-57.302 0/1:60:31,29:31:1082:29:1029:-74.8525,0,-79.6254 0/1:52:38,14:38:1347:14:504:-30.0445,0,-105.876 0/1:13:2,11:2:72:11:396:-32.0694,0,-2.92333 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/0:73:73,0:73:2572:0:0:0,-21.9752,-231.701 0/1:69:32,37:32:1140:37:1328:-99.0512,0,-82.1381 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 1/1:29:0,29:0:0:29:1044:-94.2702,-8.72987,0 1/1:57:0,57:0:0:57:2033:-183.231,-17.1587,0 0/1:37:14,23:14:504:23:805:-61.4357,0,-34.56 1/1:17:0,17:0:0:17:600:-54.3135,-5.11751,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:45:29,16:29:997:16:576:-38.5716,0,-76.4885 0/1:22:4,18:4:144:18:648:-52.0292,0,-6.69096 1/1:67:0,67:0:0:67:2409:-217.055,-20.169,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 chr05 25692272 . G A 51828.8 PASS AB=0.55;ABP=44.2683;AC=29;AF=0.690476;AN=42;AO=2522;CIGAR=1X;DP=3557;DPB=3557;DPRA=0.978035;EPP=5444.78;EPPR=2230.97;GTI=0;LEN=1;MEANALT=1.05;MQM=59.3882;MQMR=59.9313;NS=21;NUMALT=1;ODDS=0.95235;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89474;QR=37004;RO=1034;RPL=2;RPP=5462.11;RPPR=2248.31;RPR=2520;RUN=1;SAF=2520;SAP=5462.11;SAR=2;SRF=1032;SRP=2230.97;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:261:85,176:85:3035:176:6235:-482.424,0,-194.811 0/1:198:102,96:102:3660:96:3436:-249.567,0,-269.999 0/1:147:59,88:59:2104:88:3152:-239.624,0,-145.378 0/1:253:130,123:130:4660:123:4344:-314.804,0,-343.401 0/1:262:138,123:138:4956:123:4328:-310.556,0,-367.105 0/1:120:46,74:46:1648:74:2610:-199.018,0,-112.485 1/1:224:0,224:0:0:224:7990:-718.435,-67.4307,0 0/0:173:173,0:173:6186:0:0:0,-52.0782,-556.828 0/1:285:136,149:136:4863:149:5295:-390.062,0,-352.026 0/1:14:3,11:3:108:11:392:-31.3187,0,-5.86075 1/1:28:0,28:0:0:28:1000:-90.3072,-8.42884,0 1/1:45:0,45:0:0:45:1616:-145.704,-13.5464,0 1/1:138:0,138:0:0:138:4914:-442.365,-41.5421,0 0/1:152:69,83:69:2464:83:2961:-220.766,0,-176.25 1/1:227:1,226:1:36:226:8031:-718.557,-64.7355,0 1/1:388:2,386:2:72:386:13596:-1215.54,-109.963,0 1/1:185:1,184:1:36:184:6504:-581.599,-52.0923,0 0/1:104:50,54:50:1780:54:1940:-143.255,0,-129.171 0/1:104:36,68:36:1288:68:2402:-185.101,0,-84.9165 1/1:189:3,186:3:108:186:6580:-580.887,-46.8195,0 1/1:60:0,60:0:0:60:2148:-193.543,-18.0618,0 chr05 25700776 . T C 27918.9 PASS AB=0.496259;ABP=3.25398;AC=13;AF=0.309524;AN=42;AO=1191;CIGAR=1X;DP=3679;DPB=3679;DPRA=1.08033;EPP=2589.23;EPPR=5399.12;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.9421;MQMR=59.9851;NS=21;NUMALT=1;ODDS=5.74926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42338;QR=88951;RO=2485;RPL=718;RPP=112.45;RPPR=177.61;RPR=473;RUN=1;SAF=718;SAP=112.45;SAR=473;SRF=1466;SRP=177.61;SRR=1019;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:74,81:74:2652:81:2864:-211.25,0,-192.266 0/1:134:60,74:60:2156:74:2618:-195.527,0,-153.969 0/1:122:56,66:56:2012:66:2364:-176.293,0,-144.627 0/1:177:88,89:88:3135:89:3151:-230.531,0,-229.094 0/1:262:137,124:137:4908:124:4444:-321.202,0,-362.942 0/1:206:77,129:77:2760:129:4561:-348.64,0,-186.629 0/0:315:315,0:315:11256:0:0:0,-94.8244,-1012.92 1/1:194:0,193:0:0:193:6877:-618.636,-58.0988,0 0/1:392:194,198:194:6950:198:7047:-516.282,0,-507.56 0/1:24:18,6:18:648:6:216:-12.5658,0,-51.4272 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:52:52,0:52:1859:0:0:0,-15.6536,-167.589 0/0:244:244,0:244:8741:0:0:0,-73.4513,-786.677 0/1:174:91,83:91:3237:83:2950:-213.355,0,-239.043 0/0:318:318,0:318:11420:0:0:0,-95.7275,-1027.65 0/0:130:129,1:129:4628:1:36:0,-35.5356,-413.084 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/1:172:90,81:90:3219:81:2877:-207.201,0,-238.096 0/1:187:123,64:123:4399:64:2261:-147.457,0,-339.79 0/0:186:184,2:184:6576:2:72:0,-49.1549,-585.083 0/0:180:180,0:180:6427:0:0:0,-54.1854,-578.519 chr05 25777532 . T C 13552.1 PASS AB=0.514563;ABP=5.28718;AC=13;AF=0.309524;AN=42;AO=785;CIGAR=1X;DP=2150;DPB=2150;DPRA=1.81681;EPP=1707.62;EPPR=2967.07;GTI=1;LEN=1;MEANALT=1;MQM=49.5478;MQMR=59.9392;NS=21;NUMALT=1;ODDS=2.31528;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27675;QR=48536;RO=1365;RPL=0;RPP=1707.62;RPPR=2967.07;RPR=785;RUN=1;SAF=0;SAP=1707.62;SAR=785;SRF=0;SRP=2967.07;SRR=1365;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:58,61:58:2058:61:2174:-158.79,0,-149.668 0/1:91:36,55:36:1288:55:1950:-146.692,0,-88.8299 0/1:133:62,71:62:2202:71:2511:-185.105,0,-158.407 0/1:118:60,58:60:2116:58:2039:-147.203,0,-155.185 0/1:244:108,136:108:3818:136:4796:-356.303,0,-270.366 0/1:118:53,65:53:1887:65:2311:-170.395,0,-134.586 0/0:194:190,4:190:6781:4:144:0,-45.2026,-596.867 1/1:145:1,144:1:36:144:5040:-446.578,-40.0706,0 0/1:203:108,95:108:3818:95:3325:-237.482,0,-282.711 0/1:7:2,5:2:72:5:180:-14.3551,0,-4.72951 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4067 0/0:118:118,0:118:4186:0:0:0,-35.5215,-376.923 0/1:112:56,56:56:1991:56:1978:-143.294,0,-145.731 0/0:61:61,0:61:2167:0:0:0,-18.3628,-195.294 0/0:98:98,0:98:3500:0:0:0,-29.5009,-315.211 0/0:98:98,0:98:3478:0:0:0,-29.5009,-313.233 0/1:33:16,17:16:572:17:608:-44.5993,0,-41.8794 0/1:58:41,17:41:1451:17:583:-35.1914,0,-113.425 0/0:111:110,1:110:3923:1:36:0,-29.8161,-349.665 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.014 chr05 25777558 . C T 14573.3 PASS AB=0.513834;ABP=5.11311;AC=13;AF=0.309524;AN=42;AO=806;CIGAR=1X;DP=2178;DPB=2178;DPRA=1.74431;EPP=1710.06;EPPR=2926.04;GTI=1;LEN=1;MEANALT=1.07692;MQM=49.5273;MQMR=59.9241;NS=21;NUMALT=1;ODDS=1.01564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28815;QR=48999;RO=1370;RPL=5;RPP=1710.06;RPPR=2926.04;RPR=801;RUN=1;SAF=0;SAP=1753.22;SAR=806;SRF=0;SRP=2977.93;SRR=1370;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:58,61:58:2080:61:2192:-160.375,0,-151.648 0/1:91:35,56:35:1252:56:1993:-150.473,0,-85.5913 0/1:134:63,71:63:2260:71:2533:-186.719,0,-163.325 0/1:119:62,57:62:2215:57:2040:-146.959,0,-163.789 0/1:251:110,141:110:3943:141:5051:-376.645,0,-279.502 0/1:121:55,66:55:1972:66:2376:-175.108,0,-141.33 0/0:193:188,4:188:6724:4:144:0,-44.9597,-591.987 1/1:152:0,152:0:0:152:5429:-484.542,-45.7566,0 0/1:210:110,100:110:3925:100:3575:-257.632,0,-290.223 0/1:7:2,5:2:68:5:180:-14.3551,0,-4.3505 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:118:118,0:118:4212:0:0:0,-35.5215,-379.255 0/1:117:59,58:59:2112:58:2046:-148.065,0,-155.121 0/0:59:59,0:59:2092:0:0:0,-17.7608,-188.548 0/0:98:98,0:98:3512:0:0:0,-29.5009,-316.29 0/0:94:94,0:94:3368:0:0:0,-28.2968,-303.336 0/1:34:16,18:16:567:18:644:-46.8959,0,-41.1257 0/1:62:45,17:45:1612:17:612:-36.561,0,-126.434 0/0:110:110,0:110:3929:0:0:0,-33.1133,-353.801 0/0:63:62,0:62:2220:0:0:0,-18.6639,-199.701 chr05 25834698 . 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TTTAG TTTAATTAG 34229.3 PASS AB=0.616667;ABP=123.599;AC=29;AF=0.690476;AN=42;AO=1340;CIGAR=1M4I4M;DP=1813;DPB=2890.6;DPRA=1.15867;EPP=2886.78;EPPR=991.105;GTI=1;LEN=4;MEANALT=1.5;MQM=59.7291;MQMR=60;NS=21;NUMALT=1;ODDS=5.07723;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46365;QR=16324;RO=463;RPL=568;RPP=70.4491;RPPR=3.05251;RPR=772;RUN=1;SAF=571;SAP=66.5405;SAR=769;SRF=235;SRP=3.24011;SRR=228;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:31,54:31:1102:54:1888:-144.235,0,-73.5427 0/1:105:31,74:31:1075:74:2590:-201.743,0,-65.4484 0/1:45:16,29:16:564:29:1016:-78.2054,0,-37.5435 0/1:80:26,53:26:925:53:1817:-139.655,0,-59.4271 0/1:86:38,47:38:1353:47:1601:-118.413,0,-96.1233 0/1:97:29,68:29:1025:68:2352:-182.72,0,-63.363 1/1:136:0,134:0:0:134:4660:-419.09,-40.338,0 0/0:75:75,0:75:2665:0:0:0,-22.5772,-240.097 0/1:117:44,72:44:1538:72:2483:-188.544,0,-103.528 0/1:31:4,26:4:143:26:894:-71.3807,0,-3.83122 1/1:7:0,7:0:0:7:233:-21.2943,-2.10721,0 1/1:13:0,13:0:0:13:452:-41.0111,-3.91339,0 1/1:81:0,81:0:0:81:2768:-249.351,-24.3834,0 0/1:91:38,53:38:1321:53:1806:-135.424,0,-91.7945 1/1:155:1,154:1:31:154:5341:-477.694,-43.5602,0 1/1:41:0,41:0:0:41:1406:-126.834,-12.3422,0 1/1:52:0,50:0:0:50:1735:-156.164,-15.0515,0 0/1:151:81,70:81:2858:70:2467:-176.798,0,-212.004 0/1:131:47,83:47:1654:83:2861:-218.22,0,-109.652 1/1:109:0,109:0:0:109:3761:-338.396,-32.8123,0 1/1:124:2,122:2:70:122:4234:-374.436,-30.6804,0 chr05 25994245 . 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T C 13766.3 PASS AB=0.558282;ABP=36.6748;AC=13;AF=0.309524;AN=42;AO=760;CIGAR=1X;DP=1919;DPB=1919;DPRA=1.84444;EPP=1653.33;EPPR=2519.75;GTI=1;LEN=1;MEANALT=1;MQM=59.9776;MQMR=59.9914;NS=21;NUMALT=1;ODDS=3.51621;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27188;QR=41485;RO=1159;RPL=0;RPP=1653.33;RPPR=2519.75;RPR=760;RUN=1;SAF=760;SAP=1653.33;SAR=0;SRF=1159;SRP=2519.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:53,40:53:1900:40:1432:-101.179,0,-143.282 0/1:34:17,17:17:608:17:612:-45.1784,0,-44.817 0/1:141:63,78:63:2256:78:2791:-208.985,0,-160.858 0/1:73:36,37:36:1296:37:1324:-97.4869,0,-94.9687 0/1:248:104,144:104:3705:144:5156:-389.525,0,-258.996 0/1:65:21,44:21:756:44:1580:-122.925,0,-48.8003 0/0:110:110,0:110:3944:0:0:0,-33.1133,-355.151 1/1:118:0,118:0:0:118:4211:-379.169,-35.5215,0 0/1:253:108,145:108:3860:145:5191:-391.168,0,-271.436 0/1:8:2,6:2:72:6:207:-16.5587,0,-4.42848 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:121:121,0:121:4340:0:0:0,-36.4246,-390.761 0/1:90:35,55:35:1256:55:1972:-150.648,0,-86.2526 0/0:152:151,1:151:5371:1:36:0,-42.1583,-479.925 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 0/1:67:28,39:28:1004:39:1396:-105.77,0,-70.5069 0/1:69:37,32:37:1328:32:1136:-81.7778,0,-99.0512 0/0:103:100,3:100:3565:3:108:0,-20.9309,-310.982 0/0:63:62,1:62:2232:1:36:0,-15.3666,-197.545 chr05 26141939 . TG CC,TC 29339.5 PASS AB=0.496847,0.503153;ABP=3.07876,3.07876;AC=29,13;AF=0.690476,0.309524;AN=42;AO=892,520;CIGAR=2X,1M1X;DP=1416;DPB=1416;DPRA=0,1.68987;EPP=1939.96,1132.18;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.7619,2;MQM=59.9204,59.875;MQMR=0;NS=21;NUMALT=2;ODDS=3.88267;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31209,18545;QR=0;RO=0;RPL=0,0;RPP=1939.96,1132.18;RPPR=0;RPR=892,520;RUN=1,1;SAF=892,520;SAP=1939.96,1132.18;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:29:0,14,15:0:0:14,15:502,540:-85.3639,-44.4202,-40.2058,-41.3028,0,-36.7874 1/2:8:0,1,7:0:0:1,7:36,252:-23.8592,-20.9217,-20.6207,-3.29724,0,-1.19003 1/2:90:0,40,50:0:0:40,50:1388,1764:-256.757,-143.992,-131.951,-113.114,0,-98.0628 1/2:68:0,38,30:0:0:38,30:1317,1059:-193.627,-86.5895,-75.1504,-107.387,0,-98.3561 1/2:113:0,57,56:0:0:57,56:2003,1992:-325.594,-162.564,-145.405,-163.383,0,-146.526 1/2:64:0,31,33:0:0:31,33:1085,1184:-185.195,-96.9237,-87.5917,-88.6254,0,-78.6914 1/1:96:0,95,0:0:0:95,0:3351,0:-301.449,-28.5979,0,-301.449,-28.5979,-301.449 2/2:121:0,2,119:0:0:2,119:72,4256:-382.861,-377.014,-376.412,-35.8226,-29.6178,0 1/2:168:0,87,81:0:0:87,81:3057,2900:-485.666,-236.852,-210.663,-249.168,0,-224.785 1/2:17:0,8,9:0:0:8,9:282,324:-49.7541,-26.7966,-24.3883,-23.3134,0,-20.6041 1/1:7:0,7,0:0:0:7,0:239,0:-21.8424,-2.10721,0,-21.8424,-2.10721,-21.8424 1/1:37:0,37,0:0:0:37,0:1289,0:-116.308,-11.1381,0,-116.308,-11.1381,-116.308 1/1:91:0,88,0:0:0:88,0:3102,0:-278.732,-26.4906,0,-278.732,-26.4906,-278.732 1/2:51:0,23,28:0:0:23,28:809,1000:-147.738,-81.8865,-74.9628,-66.2057,0,-57.7769 1/1:124:0,122,2:0:0:122,2:4263,70:-383.503,-36.7257,0,-377.807,-30.6804,-377.205 1/1:8:0,8,0:0:0:8,0:286,0:-26.0855,-2.40824,0,-26.0855,-2.40824,-26.0855 1/1:9:0,9,0:0:0:9,0:303,0:-27.5963,-2.70927,0,-27.5963,-2.70927,-27.5963 1/2:118:0,47,71:0:0:47,71:1621,2529:-338.108,-206.43,-192.282,-132.027,0,-110.654 1/2:67:0,48,19:0:0:48,19:1636,675:-188.078,-55.3574,-40.9079,-133.072,0,-127.353 1/1:81:0,81,0:0:0:81,0:2869,0:-258.449,-24.3834,0,-258.449,-24.3834,-258.449 1/1:49:0,49,0:0:0:49,0:1699,0:-153.191,-14.7505,0,-153.191,-14.7505,-153.191 chr05 26141961 . A G 12661.8 PASS AB=0.509458;ABP=3.62642;AC=13;AF=0.309524;AN=42;AO=530;CIGAR=1X;DP=1420;DPB=1420;DPRA=1.69638;EPP=7.20575;EPPR=88.4256;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.8736;MQMR=59.9348;NS=21;NUMALT=1;ODDS=3.08738;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18815;QR=31730;RO=889;RPL=249;RPP=7.20575;RPPR=88.4256;RPR=281;RUN=1;SAF=530;SAP=1153.89;SAR=0;SRF=889;SRP=1933.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:14,16:14:504:16:561:-41.7853,0,-36.6672 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/1:90:40,50:40:1406:50:1800:-135.189,0,-99.6697 0/1:66:37,29:37:1332:29:1029:-73.0532,0,-100.314 0/1:112:56,56:56:1997:56:1952:-142.233,0,-146.287 0/1:62:30,32:30:1065:32:1138:-84.063,0,-77.4959 0/0:96:96,0:96:3429:0:0:0,-28.8989,-308.822 1/1:125:0,125:0:0:125:4473:-402.706,-37.6288,0 0/1:169:85,84:85:3041:84:2975:-217.105,0,-223.044 0/1:16:7,9:7:237:9:324:-24.6894,0,-16.8426 0/0:7:7,0:7:237:0:0:0,-2.10721,-21.6591 0/0:36:36,0:36:1281:0:0:0,-10.8371,-115.591 0/0:91:91,0:91:3249:0:0:0,-27.3937,-292.439 0/1:54:24,30:24:864:30:1038:-77.4695,0,-61.8269 0/0:124:123,1:123:4394:1:36:0,-33.7294,-392.032 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:117:46,70:46:1652:70:2481:-188.205,0,-113.689 0/1:69:48,21:48:1713:21:756:-47.5962,0,-133.683 0/0:82:82,0:82:2929:0:0:0,-24.6845,-263.843 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.086 chr05 26141987 . A T 10450.6 PASS AB=0.507519;ABP=3.40214;AC=14;AF=0.333333;AN=42;AO=542;CIGAR=1X;DP=1428;DPB=1428;DPRA=1.74057;EPP=1179.95;EPPR=1926.93;GTI=0;LEN=1;MEANALT=1;MQM=59.9004;MQMR=59.9345;NS=21;NUMALT=1;ODDS=1.45721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19246;QR=31600;RO=886;RPL=523;RPP=1020.7;RPPR=1926.93;RPR=19;RUN=1;SAF=523;SAP=1020.7;SAR=19;SRF=886;SRP=1926.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:14,24:14:492:24:856:-65.9211,0,-33.1732 1/1:14:1,13:1:36:13:455:-37.6837,-0.616145,0 0/1:89:40,49:40:1428:49:1745:-130.541,0,-101.248 0/1:68:38,30:38:1360:30:1071:-76.2316,0,-102.231 0/1:115:57,58:57:2022:58:2050:-150.15,0,-147.633 0/1:65:31,34:31:1094:34:1215:-90.086,0,-79.2013 0/0:95:95,0:95:3408:0:0:0,-28.5978,-306.934 1/1:123:0,123:0:0:123:4353:-391.916,-37.0267,0 0/1:169:87,82:87:3100:82:2935:-213.51,0,-228.354 0/1:17:8,9:8:284:9:324:-24.3883,0,-20.7858 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/0:90:90,0:90:3228:0:0:0,-27.0927,-290.372 0/1:51:24,27:24:864:27:934:-69.0162,0,-62.73 0/0:120:119,1:119:4235:1:36:0,-32.5253,-377.733 0/0:8:8,0:8:279:0:0:0,-2.40824,-25.4475 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:119:48,71:48:1707:71:2535:-192.522,0,-118.093 0/1:67:46,21:46:1640:21:737:-46.4816,0,-127.72 0/0:80:80,0:80:2859:0:0:0,-24.0824,-257.547 0/0:47:47,0:47:1672:0:0:0,-14.1484,-150.767 chr05 26408825 . G A 41855.8 PASS AB=0.521691;ABP=10.4525;AC=29;AF=0.690476;AN=42;AO=2079;CIGAR=1X;DP=3020;DPB=3020;DPRA=2.20373;EPP=4517.5;EPPR=2039.85;GTI=0;LEN=1;MEANALT=1.1;MQM=59.543;MQMR=59.8913;NS=21;NUMALT=1;ODDS=17.1496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73810;QR=33094;RO=938;RPL=0;RPP=4517.5;RPPR=2039.85;RPR=2079;RUN=1;SAF=0;SAP=4517.5;SAR=2079;SRF=0;SRP=2039.85;SRR=938;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:22,20:22:775:20:700:-50.6779,0,-57.4279 0/1:54:28,26:28:980:26:928:-67.5826,0,-72.2545 0/1:73:30,43:30:1068:43:1528:-115.836,0,-74.4569 0/1:75:36,39:36:1292:39:1378:-101.731,0,-94.0065 0/1:174:87,87:87:3112:87:3090:-225.837,0,-227.882 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 1/1:59:1,58:1:36:58:2071:-183.028,-14.1625,0 0/0:67:66,0:66:2340:0:0:0,-19.868,-210.535 0/1:54:29,25:29:1021:25:900:-65.0636,0,-75.9446 0/1:408:191,216:191:6770:216:7673:-567.685,0,-486.484 1/1:474:0,474:0:0:474:16800:-1510.85,-142.688,0 1/1:286:0,286:0:0:286:10135:-911.887,-86.0946,0 1/1:70:0,70:0:0:70:2512:-225.062,-21.0721,0 0/1:52:28,24:28:981:24:851:-61.2465,0,-72.9475 1/1:79:0,79:0:0:79:2822:-254.199,-23.7814,0 1/1:52:0,52:0:0:52:1868:-168.397,-15.6536,0 1/1:42:0,42:0:0:42:1479:-133.343,-12.6433,0 0/1:852:407,444:407:14251:444:15760:-1159.47,0,-1025.49 0/1:28:7,21:7:252:21:728:-57.4042,0,-14.6001 1/1:38:0,38:0:0:38:1335:-120.436,-11.4391,0 1/1:32:2,30:2:72:30:1072:-89.9476,-2.79624,0 chr05 26408853 . AGAG GGAC,GGAT 63588.9 PASS AB=0.526767,0.465203;ABP=14.6349,22.6558;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2132,938;CIGAR=1X2M1X,1X2M1X;DP=3092;DPB=3092;DPRA=2.22353,1.11914;EPP=4571.99,2031.17;EPPR=5.18177;GTI=0;LEN=4,4;MEANALT=2.5,2.84615;MQM=59.5047,59.8849;MQMR=60;NS=21;NUMALT=2;ODDS=15.3731;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74584,32919;QR=36;RO=1;RPL=2125,937;RPP=4571.99,2031.17;RPPR=5.18177;RPR=7,1;RUN=1,1;SAF=0,0;SAP=4632.59,2039.85;SAR=2132,938;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:45:0,23,21:0:0:23,21:798,722:-123.522,-58.6739,-51.7502,-64.8905,0,-58.5688 1/2:55:0,27,28:0:0:27,28:962,986:-159.032,-80.625,-72.4972,-78.7616,0,-70.3327 1/2:76:0,45,31:0:0:45,31:1584,1091:-218.116,-89.1663,-75.62,-129.301,0,-119.969 1/2:76:0,39,35:0:0:39,35:1353,1227:-209.881,-99.9135,-88.1733,-110.031,0,-99.4953 1/2:181:0,92,88:0:0:92,88:3167,3073:-507.017,-249.906,-222.211,-257.099,0,-230.608 1/2:9:0,5,4:0:0:5,4:178,143:-26.5242,-12.0173,-10.5122,-14.8635,0,-13.6594 1/1:59:0,57,1:0:0:57,1:1984,36:-178.463,-17.1587,0,-175.525,-14.2213,-175.224 2/2:68:0,0,68:0:0:0,68:0,2406:-216.787,-216.787,-216.787,-20.47,-20.47,0 1/2:56:0,26,30:0:0:26,30:917,1026:-158.285,-83.6144,-75.7876,-75.0183,0,-65.9874 1/2:416:0,222,191:0:0:222,191:7806,6711:-1181.57,-546.256,-479.427,-635.352,0,-577.856 1/1:490:0,488,0:0:0:488,0:17020,0:-1530.25,-146.903,0,-1530.25,-146.903,-1530.25 1/1:289:0,289,0:0:0:289,0:10165,0:-914.521,-86.9977,0,-914.521,-86.9977,-914.521 1/1:71:0,69,0:0:0:69,0:2404,0:-216.302,-20.7711,0,-216.302,-20.7711,-216.302 1/2:56:0,27,28:0:0:27,28:949,989:-157.771,-80.5352,-72.4074,-77.2286,0,-68.7997 1/1:79:0,78,0:0:0:78,0:2790,0:-251.075,-23.4803,0,-251.075,-23.4803,-251.075 1/1:52:0,52,0:0:0:52,0:1813,0:-163.446,-15.6536,0,-163.446,-15.6536,-163.446 1/1:43:0,43,0:0:0:43,0:1508,0:-135.964,-12.9443,0,-135.964,-12.9443,-135.964 1/2:869:1,456,406:1:36:456,406:15905,14258:-2449.41,-1157.28,-1022.95,-1289.52,0,-1170.24 1/2:29:0,22,7:0:0:22,7:775,251:-83.921,-20.8306,-14.208,-63.4473,0,-61.3401 1/1:40:0,39,0:0:0:39,0:1339,0:-120.432,-11.7402,0,-120.432,-11.7402,-120.432 1/1:33:0,33,0:0:0:33,0:1167,0:-105.329,-9.93399,0,-105.329,-9.93399,-105.329 chr05 26461676 . C T 29083.9 PASS AB=0.451971;ABP=75.1813;AC=21;AF=0.5;AN=42;AO=1628;CIGAR=1X;DP=3602;DPB=3602;DPRA=0;EPP=3538.17;EPPR=4289.5;GTI=20;LEN=1;MEANALT=1;MQM=32.7819;MQMR=11.0709;NS=21;NUMALT=1;ODDS=35.1487;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58293;QR=70709;RO=1974;RPL=0;RPP=3538.17;RPPR=4289.5;RPR=1628;RUN=1;SAF=1628;SAP=3538.17;SAR=0;SRF=1974;SRP=4289.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:52,53:52:1864:53:1877:-113.94,0,-19.5217 0/1:169:113,56:113:4060:56:2016:-107.034,0,-62.6648 0/1:123:56,67:56:2016:67:2412:-146.561,0,-20.3538 0/1:238:146,92:146:5236:92:3293:-184.715,0,-67.3763 0/1:247:117,130:117:4192:130:4664:-288.325,0,-35.2112 0/1:189:82,107:82:2925:107:3840:-247.693,0,-33.3138 0/1:318:168,150:168:6014:150:5354:-330.044,0,-78.5294 0/1:219:139,80:139:4988:80:2868:-157.3,0,-71.7777 0/1:357:201,156:201:7177:156:5604:-326.895,0,-85.9463 0/1:34:21,13:21:756:13:468:-26.682,0,-10.641 0/1:11:7,4:7:252:4:144:-8.48288,0,-3.72059 0/1:72:47,25:47:1684:25:900:-48.0682,0,-26.7878 0/1:216:117,99:117:4173:99:3552:-209.298,0,-44.4598 0/1:198:110,88:110:3944:88:3156:-184.656,0,-43.5184 0/1:254:117,137:117:4197:137:4871:-296.821,0,-36.0013 0/1:159:68,91:68:2440:91:3241:-201.502,0,-13.3734 0/1:93:41,52:41:1449:52:1849:-115.388,0,-9.02773 0/1:123:74,49:74:2656:49:1756:-97.7649,0,-43.6101 0/1:137:86,51:86:3087:51:1832:-101.134,0,-38.2712 0/1:246:159,87:159:5708:87:3124:-169.844,0,-85.1662 0/1:94:53,41:53:1891:41:1472:-86.8947,0,-23.8519 chr05 26461686 . C A 29265.1 PASS AB=0.451115;ABP=78.3779;AC=21;AF=0.5;AN=42;AO=1638;CIGAR=1X;DP=3631;DPB=3631;DPRA=0;EPP=3559.88;EPPR=4330.75;GTI=20;LEN=1;MEANALT=1;MQM=32.8364;MQMR=11.1199;NS=21;NUMALT=1;ODDS=35.2659;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58556;QR=71301;RO=1993;RPL=0;RPP=3559.88;RPPR=4330.75;RPR=1638;RUN=1;SAF=1638;SAP=3559.88;SAR=0;SRF=1993;SRP=4330.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:53,54:53:1900:54:1921:-117.286,0,-19.9205 0/1:171:115,56:115:4123:56:1997:-106.034,0,-65.3888 0/1:123:55,68:55:1968:68:2436:-148.872,0,-19.1058 0/1:240:148,92:148:5304:92:3304:-184.21,0,-68.571 0/1:250:118,132:118:4244:132:4672:-289.507,0,-32.8937 0/1:191:83,108:83:2952:108:3865:-249.141,0,-35.0102 0/1:320:168,152:168:6017:152:5418:-334.82,0,-79.2373 0/1:222:140,82:140:5020:82:2932:-161.993,0,-73.776 0/1:356:200,156:200:7155:156:5594:-327.119,0,-83.6162 0/1:34:21,13:21:752:13:445:-25.3864,0,-10.6393 0/1:11:7,4:7:252:4:144:-8.48288,0,-3.72059 0/1:72:47,25:47:1684:25:900:-48.0682,0,-26.7878 0/1:216:119,97:119:4268:97:3484:-207.664,0,-46.2669 0/1:201:112,89:112:3983:89:3173:-186.002,0,-44.3986 0/1:257:122,135:122:4345:135:4832:-292.653,0,-41.5571 0/1:162:69,93:69:2454:93:3325:-206.721,0,-13.356 0/1:95:41,54:41:1443:54:1930:-120.569,0,-9.15853 0/1:123:75,48:75:2688:48:1724:-97.0301,0,-44.1493 0/1:137:86,51:86:3080:51:1836:-101.294,0,-38.2719 0/1:247:159,88:159:5705:88:3160:-172.354,0,-82.5007 0/1:96:55,41:55:1964:41:1464:-85.9317,0,-26.8997 chr05 26529698 . 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T C 23738.1 PASS AB=0.45883;ABP=31.4396;AC=13;AF=0.309524;AN=42;AO=1048;CIGAR=1X;DP=3560;DPB=3560;DPRA=1.20939;EPP=2278.71;EPPR=5457.75;GTI=0;LEN=1;MEANALT=1;MQM=59.9952;MQMR=59.9984;NS=21;NUMALT=1;ODDS=26.6015;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36854;QR=89441;RO=2512;RPL=547;RPP=7.39469;RPPR=34.877;RPR=501;RUN=1;SAF=547;SAP=7.39469;SAR=501;SRF=1352;SRP=34.877;SRR=1160;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:217:107,110:107:3799:110:3883:-284.343,0,-276.784 0/1:100:51,49:51:1815:49:1712:-124.259,0,-133.528 0/1:172:100,72:100:3563:72:2540:-177.076,0,-269.102 0/1:153:91,62:91:3236:62:2179:-150.314,0,-245.403 0/1:297:156,141:156:5576:141:4905:-352.199,0,-412.558 0/1:90:48,42:48:1700:42:1486:-106.94,0,-126.191 0/0:264:262,2:262:9331:2:72:0,-72.6352,-832.922 1/1:155:0,155:0:0:155:5494:-494.59,-46.6597,0 0/1:268:155,113:155:5489:113:4000:-279.515,0,-413.461 0/1:33:17,16:17:612:16:547:-39.6159,0,-45.4794 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:69:69,0:69:2484:0:0:0,-20.7711,-223.813 0/0:106:104,2:104:3732:2:72:0,-25.0725,-329.243 0/1:236:109,127:109:3865:127:4425:-327.38,0,-277.004 0/0:395:395,0:395:14087:0:0:0,-118.907,-1267.6 0/0:106:106,0:106:3761:0:0:0,-31.9092,-338.691 0/0:143:143,0:143:5091:0:0:0,-43.0473,-458.333 0/1:228:116,112:116:4163:112:3948:-286.878,0,-306.216 0/1:137:95,42:95:3382:42:1483:-92.5226,0,-263.355 0/0:183:181,2:181:6389:2:72:0,-48.2518,-568.267 0/0:190:189,1:189:6718:1:36:0,-53.5974,-601.102 chr05 26548178 . A C 18080.9 PASS AB=0.494396;ABP=3.22934;AC=29;AF=0.690476;AN=42;AO=897;CIGAR=1X;DP=1359;DPB=1359;DPRA=1.23208;EPP=1950.82;EPPR=1001.89;GTI=0;LEN=1;MEANALT=1.05;MQM=59.913;MQMR=59.987;NS=21;NUMALT=1;ODDS=5.58347;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31935;QR=16442;RO=460;RPL=2;RPP=1933.49;RPPR=958.93;RPR=895;RUN=1;SAF=2;SAP=1933.49;SAR=895;SRF=5;SRP=958.93;SRR=455;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:29,42:29:1044:42:1500:-113.921,0,-72.9017 0/1:63:27,36:27:968:36:1288:-97.2587,0,-68.4725 0/1:84:52,32:52:1864:32:1139:-77.5319,0,-142.753 0/1:78:47,31:47:1665:31:1116:-77.2714,0,-126.655 0/1:119:65,54:65:2340:54:1927:-137.884,0,-175.036 0/1:38:23,15:23:828:15:530:-36.5043,0,-63.405 1/1:101:2,99:2:68:99:3498:-308.565,-23.9463,0 0/0:53:53,0:53:1895:0:0:0,-15.9546,-170.823 0/1:79:36,41:36:1292:41:1467:-108.786,0,-93.0447 0/1:20:13,7:13:464:7:248:-16.6436,0,-36.0769 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 0/1:62:25,37:25:887:37:1309:-99.4409,0,-61.4843 1/1:141:0,141:0:0:141:5039:-453.656,-42.4452,0 1/1:52:0,52:0:0:52:1820:-164.075,-15.6536,0 1/1:56:0,56:0:0:56:2008:-180.993,-16.8577,0 0/1:137:69,68:69:2464:68:2413:-176.186,0,-180.773 0/1:52:18,34:18:627:34:1211:-93.642,0,-41.1008 1/1:55:1,54:1:36:54:1919:-169.388,-12.9584,0 1/1:47:0,47:0:0:47:1671:-150.677,-14.1484,0 chr05 26552824 . A T 8998.65 PASS AB=0.548485;ABP=9.74844;AC=28;AF=0.666667;AN=42;AO=445;CIGAR=1X;DP=611;DPB=611;DPRA=2.13214;EPP=969.316;EPPR=363.475;GTI=1;LEN=1;MEANALT=1;MQM=59.8831;MQMR=60;NS=21;NUMALT=1;ODDS=0.419894;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15837;QR=5931;RO=166;RPL=0;RPP=969.316;RPPR=363.475;RPR=445;RUN=1;SAF=0;SAP=969.316;SAR=445;SRF=0;SRP=363.475;SRR=166;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:11,14:11:396:14:492:-37.0842,0,-28.457 0/1:7:2,5:2:72:5:176:-14.0778,0,-4.72951 0/1:35:22,13:22:784:13:464:-31.5591,0,-60.3479 0/1:24:12,12:12:428:12:420:-30.9093,0,-31.6341 0/1:38:20,18:20:712:18:640:-46.4878,0,-52.9675 0/1:16:10,6:10:356:6:216:-14.974,0,-27.5648 1/1:43:0,43:0:0:43:1532:-138.173,-12.9443,0 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:36:20,16:20:716:16:576:-41.337,0,-53.9306 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:66:0,66:0:0:66:2337:-210.58,-19.868,0 0/1:37:23,14:23:815:14:500:-34.1981,0,-62.5327 1/1:27:0,27:0:0:27:960:-86.7163,-8.12781,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:10:1,9:1:36:9:320:-26.1321,0,-0.587975 0/1:39:10,29:10:356:29:1028:-81.0929,0,-20.6411 0/1:58:16,42:16:576:42:1504:-118.184,0,-34.7152 1/1:61:3,58:3:108:58:2076:-177.034,-8.28766,0 1/1:51:0,51:0:0:51:1804:-162.639,-15.3525,0 chr05 26552862 . A G 9186.97 PASS AB=0.553191;ABP=11.0956;AC=28;AF=0.666667;AN=42;AO=449;CIGAR=1X;DP=613;DPB=613;DPRA=2.13929;EPP=978.001;EPPR=359.132;GTI=1;LEN=1;MEANALT=1;MQM=59.8753;MQMR=60;NS=21;NUMALT=1;ODDS=0.124203;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16085;QR=5896;RO=164;RPL=449;RPP=978.001;RPPR=359.132;RPR=0;RUN=1;SAF=0;SAP=978.001;SAR=449;SRF=0;SRP=359.132;SRR=164;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:24:10,14:10:360:14:504:-38.471,0,-25.5196 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:35:22,13:22:792:13:464:-31.5591,0,-61.0696 0/1:24:12,12:12:432:12:432:-31.9965,0,-31.9965 0/1:39:20,19:20:712:19:680:-49.7857,0,-52.6665 0/1:16:10,6:10:360:6:216:-14.974,0,-27.9278 1/1:44:0,44:0:0:44:1572:-141.771,-13.2453,0 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:36:20,16:20:720:16:576:-41.337,0,-54.2917 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:68:0,68:0:0:68:2436:-219.485,-20.47,0 0/1:37:22,15:22:792:15:525:-36.4399,0,-60.4676 1/1:26:0,26:0:0:26:928:-83.8383,-7.82678,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:10:1,9:1:36:9:324:-26.4956,0,-0.587975 0/1:39:10,29:10:360:29:1040:-82.1742,0,-21.0041 0/1:57:16,41:16:576:41:1472:-115.607,0,-35.0163 1/1:62:3,59:3:108:59:2116:-180.632,-8.58869,0 1/1:50:0,50:0:0:50:1796:-161.921,-15.0515,0 chr05 26691067 . CTAT TTAT,TTAG 40614.5 PASS AB=0.549521,0.447284;ABP=29.6785,33.2305;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1425,637;CIGAR=1X3M,1X2M1X;DP=2071;DPB=2071;DPRA=1.29481,1.34333;EPP=3088.68,1386.24;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=1.85,2.25;MQM=57.5284,44.5275;MQMR=60;NS=21;NUMALT=2;ODDS=1.73813;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48818,21781;QR=108;RO=3;RPL=1,0;RPP=3088.68,1386.24;RPPR=9.52472;RPR=1424,637;RUN=1,1;SAF=0,0;SAP=3097.36,1386.24;SAR=1425,637;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:132:0,71,61:0:0:71,61:2376,2061:-356.764,-164.835,-143.462,-192.262,0,-173.899 1/2:124:0,59,64:0:0:59,64:1999,2197:-337.309,-175.28,-157.52,-162.123,0,-142.857 1/2:106:0,57,49:0:0:57,49:1937,1669:-290.535,-133.631,-116.472,-157.241,0,-142.491 1/2:119:0,67,52:0:0:67,52:2285,1789:-327.462,-142.403,-122.234,-185.398,0,-169.744 1/2:230:0,132,98:0:0:132,98:4647,3412:-650.338,-272.407,-232.671,-378.277,0,-348.776 1/2:101:0,60,40:0:0:60,40:2045,1369:-275.669,-109.802,-91.7403,-165.906,0,-153.865 1/1:149:0,148,0:0:0:148,0:5096,0:-458.185,-44.5524,0,-458.185,-44.5524,-458.185 2/2:77:0,0,77:0:0:0,77:0,2622:-232.983,-232.983,-232.983,-23.1793,-23.1793,0 1/2:194:0,113,81:0:0:113,81:3862,2763:-533.566,-220.7,-186.684,-313.203,0,-288.82 1/2:16:0,2,13:0:0:2,13:72,438:-40.6577,-34.7806,-34.1785,-5.92708,0,-2.01369 1/1:4:0,4,0:0:0:4,0:134,0:-12.3492,-1.20412,0,-12.3492,-1.20412,-12.3492 1/1:28:0,28,0:0:0:28,0:917,0:-82.7773,-8.42884,0,-82.7773,-8.42884,-82.7773 1/1:127:0,127,0:0:0:127,0:4403,0:-396.107,-38.2308,0,-396.107,-38.2308,-396.107 1/2:94:0,50,44:0:0:50,44:1735,1474:-258.899,-117.899,-102.848,-141.338,0,-128.092 1/1:128:2,125,0:2:72:125,0:4295,0:-379.714,-31.6802,0,-380.316,-37.6288,-386.191 1/1:64:1,63,0:1:36:63,0:2101,0:-185.582,-15.6676,0,-185.883,-18.9649,-188.821 1/1:123:0,123,0:0:0:123,0:4177,0:-376.006,-37.0267,0,-376.006,-37.0267,-376.006 1/2:79:0,46,33:0:0:46,33:1610,1142:-222.881,-91.9257,-78.0783,-131.3,0,-121.366 1/2:57:0,31,25:0:0:31,25:1039,845:-151.754,-67.6939,-58.362,-84.0365,0,-76.5108 1/1:75:0,75,0:0:0:75,0:2562,0:-230.451,-22.5773,0,-230.451,-22.5773,-230.451 1/1:44:0,44,0:0:0:44,0:1526,0:-137.591,-13.2453,0,-137.591,-13.2453,-137.591 chr05 26691089 . AT AA,GA 47032.7 PASS AB=0.575599,0.423653;ABP=69.3312,70.651;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1595,643;CIGAR=1M1X,2X;DP=2239;DPB=2239;DPRA=1.4039,1.28299;EPP=3466.51,1399.27;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.6,2;MQM=57.5147,44.5583;MQMR=0;NS=21;NUMALT=2;ODDS=12.3503;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56944,22936;QR=0;RO=0;RPL=1595,643;RPP=3466.51,1399.27;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3466.51,1399.27;SAR=1595,643;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:140:0,78,62:0:0:78,62:2781,2219:-403.718,-177.67,-154.189,-226.402,0,-207.738 1/2:126:0,61,65:0:0:61,65:2173,2302:-360.82,-183.753,-165.39,-177.418,0,-157.852 1/2:118:0,68,50:0:0:68,50:2429,1783:-340.913,-143.1,-122.63,-198.167,0,-183.115 1/2:124:0,72,52:0:0:72,52:2588,1864:-358.971,-148.256,-126.581,-211.069,0,-195.416 1/2:246:0,147,98:0:0:147,98:5272,3509:-709.405,-279.911,-235.659,-429.567,0,-400.066 1/2:106:0,65,41:0:0:65,41:2286,1474:-304.769,-118.789,-99.2219,-186.334,0,-173.992 1/1:163:0,163,0:0:0:163,0:5826,0:-524.146,-49.0679,0,-524.146,-49.0679,-524.146 2/2:77:0,0,77:0:0:0,77:0,2718:-241.134,-241.134,-241.134,-23.1793,-23.1793,0 1/2:214:0,133,81:0:0:133,81:4713,2895:-614.594,-231.533,-191.496,-383.413,0,-359.029 1/2:16:0,3,13:0:0:3,13:108,468:-46.3484,-37.6065,-36.7035,-9.09809,0,-5.1847 1/1:4:0,4,0:0:0:4,0:144,0:-13.034,-1.20412,0,-13.034,-1.20412,-13.034 1/1:30:0,30,0:0:0:30,0:1080,0:-97.4171,-9.0309,0,-97.4171,-9.0309,-97.4171 1/1:142:0,142,0:0:0:142,0:5055,0:-454.661,-42.7463,0,-454.661,-42.7463,-454.661 1/2:101:0,56,45:0:0:56,45:2016,1595:-292.385,-127.937,-111.079,-164.802,0,-151.256 1/1:143:0,143,0:0:0:143,0:5115,0:-460.057,-43.0473,0,-460.057,-43.0473,-460.057 1/1:70:0,70,0:0:0:70,0:2486,0:-223.792,-21.0721,0,-223.792,-21.0721,-223.792 1/1:139:0,139,0:0:0:139,0:4977,0:-447.93,-41.8432,0,-447.93,-41.8432,-447.93 1/2:84:0,51,33:0:0:51,33:1836,1177:-244.603,-94.8362,-79.4837,-150.122,0,-140.188 1/2:61:0,35,26:0:0:35,26:1252,932:-177.273,-75.2798,-64.7438,-102.348,0,-94.5213 1/1:84:0,84,0:0:0:84,0:2975,0:-267.502,-25.2865,0,-267.502,-25.2865,-267.502 1/1:51:0,51,0:0:0:51,0:1832,0:-165.108,-15.3525,0,-165.108,-15.3525,-165.108 chr05 26787103 . 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T C 11687.2 PASS AB=0.517918;ABP=6.27863;AC=13;AF=0.309524;AN=42;AO=683;CIGAR=1X;DP=1865;DPB=1865;DPRA=1.63387;EPP=1486.13;EPPR=2567.52;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.9195;MQMR=59.9712;NS=21;NUMALT=1;ODDS=3.13022;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24083;QR=41973;RO=1181;RPL=0;RPP=1486.13;RPPR=2567.52;RPR=683;RUN=1;SAF=0;SAP=1486.13;SAR=683;SRF=0;SRP=2567.52;SRR=1181;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:54,51:54:1920:51:1816:-132.104,0,-141.469 0/1:56:27,29:27:964:29:1032:-76.3358,0,-70.2191 0/1:94:28,66:28:1004:66:2322:-180.941,0,-62.379 0/1:106:50,56:50:1784:56:1980:-146.563,0,-128.934 0/1:187:82,105:82:2915:105:3651:-272.502,0,-206.293 0/1:88:42,46:42:1500:46:1626:-119.947,0,-108.804 0/0:129:128,1:128:4530:1:36:0,-35.2346,-404.271 1/1:74:0,74:0:0:74:2601:-234.336,-22.2762,0 0/1:245:127,117:127:4531:117:4151:-299.965,0,-334.147 0/1:17:9,8:9:316:8:284:-20.7858,0,-23.6613 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:26:26,0:26:920:0:0:0,-7.82678,-83.1171 0/0:117:117,0:117:4155:0:0:0,-35.2205,-373.199 0/1:132:60,72:60:2125:72:2558:-190.734,0,-151.781 0/0:113:113,0:113:4031:0:0:0,-34.0164,-362.979 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/0:97:97,0:97:3439:0:0:0,-29.1999,-309.723 0/1:90:51,39:51:1799:39:1354:-95.064,0,-135.099 0/1:52:34,18:34:1199:18:636:-41.9145,0,-92.5612 0/0:53:52,1:52:1841:1:36:0,-12.3563,-162.37 0/0:50:50,0:50:1784:0:0:0,-15.0515,-160.843 chr05 26795760 . G A 30791.7 PASS AB=0.467565;ABP=28.7885;AC=13;AF=0.309524;AN=42;AO=1422;CIGAR=1X;DP=4656;DPB=4656;DPRA=3.01316;EPP=3090.84;EPPR=6986.51;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9817;MQMR=59.9901;NS=21;NUMALT=1;ODDS=29.2188;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50800;QR=115286;RO=3232;RPL=353;RPP=785.864;RPPR=2402.98;RPR=1069;RUN=1;SAF=353;SAP=785.864;SAR=1069;SRF=669;SRP=2413.15;SRR=2563;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:51,32:51:1828:32:1152:-79.0047,0,-139.815 0/1:83:33,50:33:1184:50:1800:-137.297,0,-81.8828 0/1:37:18,19:18:648:19:684:-50.7522,0,-47.5138 0/1:104:53,51:53:1884:51:1821:-132.855,0,-138.532 0/1:199:102,97:102:3636:97:3464:-252.068,0,-267.539 0/1:143:86,57:86:3075:57:2025:-139.474,0,-233.931 0/0:148:147,1:147:5256:1:36:0,-40.9542,-469.577 1/1:94:0,94:0:0:94:3380:-304.414,-28.2968,0 0/1:144:66,78:66:2344:78:2779:-207.003,0,-167.872 0/1:453:252,201:252:9008:201:7228:-514.203,0,-674.331 0/0:575:574,1:574:20490:1:36:0,-169.494,-1839.22 0/0:462:461,1:461:16456:1:36:0,-135.478,-1477.11 0/0:101:99,1:99:3532:1:36:0,-26.8646,-314.489 0/1:109:53,55:53:1891:55:1942:-142.183,0,-137.597 0/0:142:140,2:140:4998:2:72:0,-35.9095,-443.131 0/0:76:76,0:76:2719:0:0:0,-22.8783,-244.953 0/0:35:34,1:34:1212:1:36:0,-6.93777,-105.788 0/1:1347:714,633:714:25403:633:22557:-1624.06,0,-1880.09 0/1:119:73,46:73:2611:46:1644:-112.426,0,-199.415 0/0:97:96,1:96:3429:1:36:0,-25.6016,-305.224 0/0:105:104,1:104:3682:1:36:0,-28.0099,-327.985 chr05 26879312 . G T 24430.5 PASS AB=0.539148;ABP=16.4416;AC=29;AF=0.690476;AN=42;AO=1206;CIGAR=1X;DP=1741;DPB=1741;DPRA=1.35403;EPP=2621.81;EPPR=1164.75;GTI=0;LEN=1;MEANALT=1;MQM=59.9602;MQMR=59.8879;NS=21;NUMALT=1;ODDS=0.297974;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43029;QR=19146;RO=535;RPL=0;RPP=2621.81;RPPR=1164.75;RPR=1206;RUN=1;SAF=1206;SAP=2621.81;SAR=0;SRF=535;SRP=1164.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:41,41:41:1472:41:1468:-107.732,0,-108.09 0/1:43:32,11:32:1148:11:396:-23.0361,0,-90.6855 0/1:107:51,56:51:1809:56:2000:-148.064,0,-130.85 0/1:106:59,47:59:2097:47:1680:-119.575,0,-157.08 0/1:202:103,99:103:3696:99:3525:-256.649,0,-272.033 0/1:43:15,28:15:540:28:1008:-78.0921,0,-35.9922 1/1:129:8,121:8:288:121:4320:-362.707,-12.5655,0 0/0:62:62,0:62:2228:0:0:0,-18.6639,-200.784 0/1:192:69,123:69:2480:123:4393:-337.744,0,-165.651 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:23:0,23:0:0:23:816:-73.7617,-6.92369,0 1/1:154:0,154:0:0:154:5513:-496.294,-46.3586,0 0/1:131:59,72:59:2100:72:2566:-191.595,0,-149.776 1/1:101:0,101:0:0:101:3583:-322.674,-30.404,0 1/1:45:0,45:0:0:45:1599:-144.199,-13.5464,0 1/1:50:0,50:0:0:50:1769:-159.491,-15.0515,0 0/1:64:28,36:28:1000:36:1277:-95.9652,0,-71.0495 0/1:33:7,26:7:252:26:932:-74.2649,0,-13.095 1/1:106:0,106:0:0:106:3780:-340.395,-31.9092,0 1/1:51:0,51:0:0:51:1828:-164.801,-15.3525,0 chr05 26879317 . G C 8807.07 PASS AB=0.457341;ABP=18.943;AC=13;AF=0.309524;AN=42;AO=528;CIGAR=1X;DP=1747;DPB=1747;DPRA=1.46292;EPP=1140.88;EPPR=2643.52;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9394;MQMR=59.9786;NS=21;NUMALT=1;ODDS=0.0320718;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18849;QR=43464;RO=1216;RPL=1;RPP=1140.88;RPPR=2643.52;RPR=527;RUN=1;SAF=528;SAP=1149.55;SAR=0;SRF=1216;SRP=2643.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:41,39:41:1464:39:1392:-101.497,0,-107.974 0/1:40:11,29:11:392:29:1036:-81.5127,0,-23.5765 0/1:105:56,49:56:1996:49:1756:-126.716,0,-148.306 0/1:105:47,58:47:1671:58:2076:-155.498,0,-119.066 0/1:202:98,104:98:3497:104:3707:-273.022,0,-254.132 0/1:46:31,15:31:1116:15:536:-34.7274,0,-86.9043 0/0:132:124,8:124:4406:8:288:0,-13.4686,-370.445 1/1:59:0,58:0:0:58:2068:-186.031,-17.4597,0 0/1:192:123,68:123:4389:68:2436:-161.634,0,-337.326 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:157:156,0:156:5595:0:0:0,-46.9607,-503.31 0/1:132:73,59:73:2601:59:2098:-149.346,0,-194.599 0/0:103:102,1:102:3645:1:36:0,-27.4078,-324.655 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/0:49:49,0:49:1764:0:0:0,-14.7505,-159.044 0/1:68:38,30:38:1353:30:1068:-75.962,0,-101.598 0/1:33:24,9:24:864:9:316:-18.8449,0,-68.1486 0/0:106:106,0:106:3795:0:0:0,-31.9092,-341.743 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 chr05 26879329 . TAACG CAACG,CAACA 36429 PASS AB=0.527505,0.467583;ABP=9.69963,12.302;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1192,545;CIGAR=1X4M,1X3M1X;DP=1747;DPB=1747.6;DPRA=1.35887,1.37919;EPP=2505.28,1118;EPPR=0;GTI=2;LEN=1,5;MEANALT=2.05,2.53846;MQM=59.9782,59.8716;MQMR=0;NS=21;NUMALT=2;ODDS=2.72833;PAIRED=0,0;PAIREDR=0;PAO=0,3;PQA=0,108;PQR=0;PRO=0;QA=42216,18817;QR=0;RO=0;RPL=1182,537;RPP=2505.28,1118;RPPR=0;RPR=10,8;RUN=1,1;SAF=1192,545;SAP=2591.41,1186.46;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,39,41:0:0:39,41:1373,1428:-227.968,-116.19,-104.45,-111.845,0,-99.5024 1/2:43:0,11,31:0:0:11,31:388,1064:-117.99,-86.3951,-83.0837,-31.6037,0,-22.2717 1/2:107:0,56,51:0:0:56,51:2000,1784:-308.536,-145.473,-128.615,-163.416,0,-148.064 1/2:105:0,45,60:0:0:45,60:1560,2037:-292.33,-165.537,-151.99,-127.137,0,-109.075 1/2:206:0,97,108:0:0:97,108:3415,3761:-583.9,-305.885,-276.685,-278.064,0,-245.553 1/2:45:0,29,16:0:0:29,16:1036,548:-129.304,-44.8272,-36.0973,-84.824,0,-80.0076 1/1:128:0,118,8:0:0:118,8:4183,286:-376.313,-35.5215,0,-352.993,-12.1397,-350.584 2/2:62:0,0,61:0:0:0,61:0,2114:-190.199,-190.199,-190.199,-18.3628,-18.3628,0 1/2:190:0,120,70:0:0:120,70:4273,2396:-543.102,-194.825,-158.701,-348.625,0,-327.553 1/2:6:0,5,1:0:0:5,1:180,35:-17.893,-3.1976,-1.69245,-15.0469,0,-14.7459 1/1:11:0,11,0:0:0:11,0:388,0:-35.2574,-3.31133,0,-35.2574,-3.31133,-35.2574 1/1:23:0,23,0:0:0:23,0:824,0:-74.4833,-6.92369,0,-74.4833,-6.92369,-74.4833 1/1:153:0,152,0:0:0:152,0:5389,0:-484.822,-45.7566,0,-484.822,-45.7566,-484.822 1/2:133:0,72,59:0:0:72,59:2542,2045:-373.196,-166.197,-144.523,-207.013,0,-189.252 1/1:101:0,100,0:0:0:100,0:3564,0:-320.619,-30.103,0,-320.619,-30.103,-320.619 1/1:46:0,46,0:0:0:46,0:1640,0:-147.889,-13.8474,0,-147.889,-13.8474,-147.889 1/1:49:0,49,0:0:0:49,0:1735,0:-156.434,-14.7505,0,-156.434,-14.7505,-156.434 1/2:67:0,37,30:0:0:37,30:1319,1026:-191.139,-83.6145,-72.4763,-107.873,0,-98.8422 1/2:35:0,26,9:0:0:26,9:923,293:-99.2056,-23.9786,-16.1518,-75.56,0,-72.8507 1/1:106:0,106,0:0:0:106,0:3733,0:-336.172,-31.9092,0,-336.172,-31.9092,-336.172 1/1:50:0,50,0:0:0:50,0:1751,0:-157.87,-15.0515,0,-157.87,-15.0515,-157.87 chr05 26879334 . G A 23845.8 PASS AB=0.534137;ABP=13.0915;AC=29;AF=0.690476;AN=42;AO=1173;CIGAR=1X;DP=1709;DPB=1709;DPRA=1.35082;EPP=2464.03;EPPR=1060.69;GTI=2;LEN=1;MEANALT=1.1;MQM=59.9565;MQMR=59.9644;NS=21;NUMALT=1;ODDS=2.00807;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41727;QR=19108;RO=534;RPL=1163;RPP=2464.03;RPPR=1060.69;RPR=10;RUN=1;SAF=1173;SAP=2550.15;SAR=0;SRF=534;SRP=1162.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:41,41:41:1472:41:1460:-107.011,0,-108.09 0/1:46:35,11:35:1248:11:396:-22.133,0,-98.7775 0/1:100:47,53:47:1688:53:1883:-139.645,0,-122.104 0/1:100:54,46:54:1928:46:1629:-116.792,0,-143.694 0/1:203:104,98:104:3720:98:3467:-251.075,0,-273.834 0/1:45:16,29:16:576:29:1024:-78.9262,0,-38.6286 1/1:126:9,117:9:324:117:4165:-345.527,-8.42393,0 0/0:61:61,0:61:2179:0:0:0,-18.3628,-196.376 0/1:187:68,119:68:2440:119:4236:-325.13,0,-163.562 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 1/1:148:0,147:0:0:147:5217:-469.312,-44.2514,0 0/1:127:60,67:60:2141:67:2386:-176.687,0,-154.702 1/1:96:0,96:0:0:96:3443:-310.083,-28.8989,0 1/1:45:0,45:0:0:45:1597:-144.018,-13.5464,0 1/1:51:0,51:0:0:51:1817:-163.809,-15.3525,0 0/1:67:29,38:29:1036:38:1343:-101,0,-73.3849 0/1:34:8,26:8:284:26:920:-72.882,0,-15.6683 1/1:104:1,103:1:36:103:3672:-327.082,-27.7088,0 1/1:49:0,49:0:0:49:1748:-157.604,-14.7505,0 chr05 26891295 . T C 10994.2 PASS AB=0.330401;ABP=457.466;AC=13;AF=0.309524;AN=42;AO=735;CIGAR=1X;DP=3373;DPB=3373;DPRA=1.03151;EPP=1599.04;EPPR=5731.35;GTI=1;LEN=1;MEANALT=1;MQM=59.5891;MQMR=59.7536;NS=21;NUMALT=1;ODDS=19.0303;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26124;QR=93985;RO=2638;RPL=0;RPP=1599.04;RPPR=71.2857;RPR=735;RUN=1;SAF=0;SAP=1599.04;SAR=735;SRF=1175;SRP=71.2857;SRR=1463;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:231:133,98:133:4760:98:3469:-242.868,0,-359.018 0/1:178:105,73:105:3752:73:2612:-181.728,0,-284.281 0/1:172:120,52:120:4268:52:1863:-115.983,0,-332.475 0/1:146:100,46:100:3584:46:1620:-102.12,0,-278.757 0/1:299:207,92:207:7349:92:3260:-202.827,0,-571.26 0/1:165:107,58:107:3826:58:2053:-135.233,0,-294.866 0/0:220:220,0:220:7838:0:0:0,-66.2266,-705.386 1/1:134:0,134:0:0:134:4783:-430.603,-40.338,0 0/1:255:185,70:185:6543:70:2491:-147.676,0,-511.756 0/1:30:16,14:16:576:14:495:-35.8429,0,-43.1441 0/0:17:17,0:17:595:0:0:0,-5.11751,-53.8767 0/0:34:34,0:34:1198:0:0:0,-10.235,-108.123 0/0:252:252,0:252:8966:0:0:0,-75.8596,-806.908 0/1:149:85,64:85:3030:64:2279:-160.514,0,-228.069 0/0:282:282,0:282:10060:0:0:0,-84.8905,-905.323 0/0:154:154,0:154:5480:0:0:0,-46.3586,-493.139 0/0:94:94,0:94:3368:0:0:0,-28.2968,-302.419 0/1:89:69,20:69:2448:20:695:-36.0751,0,-193.78 0/1:105:91,14:91:3259:14:504:-14.0899,0,-261.908 0/0:237:237,0:237:8445:0:0:0,-71.3441,-759.985 0/0:130:130,0:130:4640:0:0:0,-39.1339,-417.728 chr05 26899004 . C A 5109.38 PASS AB=0.497217;ABP=3.04656;AC=13;AF=0.309524;AN=42;AO=303;CIGAR=1X;DP=919;DPB=919;DPRA=1.25108;EPP=660.966;EPPR=1340.64;GTI=0;LEN=1;MEANALT=1;MQM=59.9802;MQMR=60;NS=21;NUMALT=1;ODDS=4.48525;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10762;QR=22079;RO=616;RPL=0;RPP=660.966;RPPR=1340.64;RPR=303;RUN=1;SAF=303;SAP=660.966;SAR=0;SRF=616;SRP=1340.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:29,25:29:1036:25:888:-63.9834,0,-77.2983 0/1:34:13,21:13:464:21:752:-57.7712,0,-31.8625 0/1:44:20,24:20:720:24:849:-63.4825,0,-51.8835 0/1:37:19,18:19:680:18:616:-44.6208,0,-50.3911 0/1:108:54,54:54:1944:54:1929:-141.373,0,-142.725 0/1:46:22,24:22:788:24:845:-62.5197,0,-57.3974 0/0:43:42,1:42:1504:1:36:0,-9.34601,-132.056 1/1:34:0,34:0:0:34:1220:-110.102,-10.235,0 0/1:77:42,35:42:1512:35:1248:-89.4456,0,-113.195 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/1:55:29,26:29:1031:26:909:-65.5668,0,-76.546 0/0:106:106,0:106:3800:0:0:0,-31.9092,-342.197 0/0:35:35,0:35:1244:0:0:0,-10.536,-112.265 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/1:51:24,27:24:864:27:966:-71.9043,0,-62.73 0/1:26:17,9:17:612:9:324:-21.6791,0,-47.5867 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 chr05 26899049 . A G 4954.5 PASS AB=0.488764;ABP=3.59587;AC=13;AF=0.309524;AN=42;AO=295;CIGAR=1X;DP=907;DPB=907;DPRA=1.25135;EPP=643.595;EPPR=1314.64;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.63071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10491;QR=21861;RO=612;RPL=295;RPP=643.595;RPPR=1314.64;RPR=0;RUN=1;SAF=295;SAP=643.595;SAR=0;SRF=612;SRP=1331.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:29,26:29:1036:26:928:-67.2816,0,-76.9973 0/1:33:13,20:13:468:20:716:-54.8337,0,-32.5257 0/1:42:21,21:21:752:21:741:-54.3683,0,-55.363 0/1:38:19,19:19:684:19:674:-49.5484,0,-50.4512 0/1:105:52,53:52:1840:53:1880:-137.868,0,-134.27 0/1:45:22,23:22:788:23:828:-61.2978,0,-57.6984 0/0:41:40,1:40:1428:1:36:0,-8.74395,-125.219 1/1:33:0,33:0:0:33:1180:-106.508,-9.93399,0 0/1:79:45,34:45:1620:34:1194:-83.9823,0,-122.309 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:24:24,0:24:847:0:0:0,-7.22472,-76.5487 0/0:29:29,0:29:1022:0:0:0,-8.72987,-92.2909 0/1:55:29,26:29:1032:26:922:-66.74,0,-76.6368 0/0:104:104,0:104:3715:0:0:0,-31.3071,-334.552 0/0:35:35,0:35:1245:0:0:0,-10.536,-112.353 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/1:49:24,25:24:860:25:896:-66.2099,0,-62.9714 0/1:27:17,10:17:612:10:352:-23.8904,0,-47.2856 0/0:42:42,0:42:1500:0:0:0,-12.6433,-135.295 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 chr05 26899724 . T G 15654.3 PASS AB=0.527708;ABP=8.30497;AC=28;AF=0.666667;AN=42;AO=799;CIGAR=1X;DP=1226;DPB=1226;DPRA=1.80758;EPP=1738.02;EPPR=930.229;GTI=0;LEN=1;MEANALT=1;MQM=59.8548;MQMR=60;NS=21;NUMALT=1;ODDS=8.44483;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28367;QR=15217;RO=427;RPL=799;RPP=1738.02;RPPR=930.229;RPR=0;RUN=1;SAF=799;SAP=1738.02;SAR=0;SRF=427;SRP=930.229;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:50,42:50:1784:42:1487:-106.429,0,-133.148 0/1:41:22,19:22:784:19:680:-49.1585,0,-58.5417 0/1:82:45,37:45:1612:37:1332:-95.4873,0,-120.686 0/1:56:23,33:23:804:33:1180:-89.6504,0,-55.8189 0/1:89:40,49:40:1415:49:1750:-130.992,0,-100.855 0/1:51:25,26:25:892:26:932:-68.8179,0,-65.2472 1/1:95:0,95:0:0:95:3359:-302.523,-28.5979,0 0/0:33:33,0:33:1169:0:0:0,-9.93399,-105.515 0/1:131:69,62:69:2476:62:2211:-159.819,0,-183.658 0/0:17:16,1:16:576:1:36:0,-1.51923,-48.5767 1/1:9:0,9:0:0:9:311:-28.3229,-2.70927,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 1/1:45:1,44:1:36:44:1539:-135.151,-9.94808,0 0/1:99:58,41:58:2057:41:1445:-100.471,0,-155.598 1/1:70:0,70:0:0:70:2480:-223.452,-21.0721,0 1/1:32:0,32:0:0:32:1139:-102.818,-9.63296,0 1/1:44:2,42:2:68:42:1507:-129.467,-6.78761,0 0/1:65:21,44:21:752:44:1564:-121.484,0,-48.4393 0/1:88:22,66:22:792:66:2331:-183.56,0,-45.115 1/1:24:0,24:0:0:24:853:-77.0894,-7.22472,0 1/1:45:0,45:0:0:45:1587:-142.93,-13.5464,0 chr05 26899819 . G A 12894.1 PASS AB=0.591365;ABP=75.227;AC=13;AF=0.309524;AN=42;AO=703;CIGAR=1X;DP=1668;DPB=1668;DPRA=1.56948;EPP=1529.56;EPPR=2078.97;GTI=2;LEN=1;MEANALT=1.07143;MQM=59.9445;MQMR=59.9844;NS=21;NUMALT=1;ODDS=4.45855;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25167;QR=34294;RO=964;RPL=703;RPP=1529.56;RPPR=2078.97;RPR=0;RUN=1;SAF=0;SAP=1529.56;SAR=703;SRF=0;SRP=2096.31;SRR=964;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:42,59:42:1492:59:2120:-160.664,0,-104.126 0/1:95:40,55:40:1419:55:1976:-149.517,0,-99.4088 0/1:86:43,43:43:1544:43:1528:-111.923,0,-113.364 0/1:102:44,58:44:1572:58:2080:-156.765,0,-111.067 0/1:192:75,116:75:2666:116:4140:-315.065,0,-182.477 0/1:54:14,40:14:504:40:1440:-113.642,0,-29.4425 0/0:94:94,0:94:3352:0:0:0,-28.2968,-301.895 1/1:109:0,109:0:0:109:3912:-352.272,-32.8123,0 0/1:150:37,113:37:1320:113:4028:-317.546,0,-73.9474 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/0:16:16,0:16:563:0:0:0,-4.81648,-50.9992 0/0:109:109,0:109:3878:0:0:0,-32.8123,-349.216 0/1:68:33,35:33:1167:35:1260:-93.2354,0,-84.8664 0/0:97:95,2:95:3404:2:72:0,-22.3632,-299.738 0/0:59:59,0:59:2104:0:0:0,-17.7608,-189.63 0/0:63:63,0:63:2235:0:0:0,-18.9649,-201.414 0/1:73:29,44:29:1036:44:1567:-119.346,0,-71.5787 0/1:67:48,19:48:1707:19:684:-41.7213,0,-133.746 0/0:63:60,3:60:2101:3:108:0,-8.88972,-179.283 0/0:53:53,0:53:1874:0:0:0,-15.9546,-168.938 chr05 26930471 . CGATT CGATG,GGATG 96276 PASS AB=0.52837,0.467544;ABP=18.4117,23.1667;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2553,1191;CIGAR=4M1X,1X3M1X;DP=3761;DPB=3761;DPRA=1.15545,1.46188;EPP=5546.78,2589.23;EPPR=7.35324;GTI=0;LEN=1,5;MEANALT=2.45,2.53333;MQM=50.6455,43.1108;MQMR=60;NS=21;NUMALT=2;ODDS=15.2152;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=90707,40947;QR=46;RO=2;RPL=1287,626;RPP=3.3854,9.79456;RPPR=7.35324;RPR=1266,565;RUN=1,1;SAF=1287,626;SAP=3.3854,9.79456;SAR=1266,565;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:238:0,116,122:0:0:116,122:4140,4228:-644.439,-309.266,-274.346,-335.509,0,-298.783 1/2:148:0,69,79:0:0:69,79:2438,2678:-403.616,-206.372,-185.601,-197.582,0,-173.8 1/2:139:0,73,66:0:0:73,66:2597,2307:-375.301,-166.156,-144.181,-209.476,0,-189.608 1/2:201:1,122,76:1:24:122,76:4318,2607:-548.737,-200.685,-165.817,-346.549,0,-325.528 1/2:373:0,206,166:0:0:206,166:7365,5721:-1025.77,-434.132,-372.12,-591.765,0,-541.794 1/2:128:0,62,65:0:0:62,65:2211,2243:-346.935,-167.705,-149.041,-179.208,0,-159.641 1/1:233:0,231,0:0:0:231,0:8243,0:-734.677,-69.5379,0,-734.677,-69.5379,-734.677 2/2:156:0,0,156:0:0:0,156:0,5277:-437.995,-437.995,-437.995,-46.9607,-46.9607,0 1/2:301:0,117,183:0:0:117,183:4172,6360:-793.389,-456.765,-421.544,-336.655,0,-281.566 1/2:40:0,20,19:0:0:20,19:705,656:-102.717,-45.7353,-39.7147,-57.0518,0,-51.3322 1/1:15:0,15,0:0:0:15,0:536,0:-48.3535,-4.51545,0,-48.3535,-4.51545,-48.3535 1/1:53:0,53,0:0:0:53,0:1896,0:-168.588,-15.9546,0,-168.588,-15.9546,-168.588 1/1:163:0,163,0:0:0:163,0:5783,0:-514.181,-49.0679,0,-514.181,-49.0679,-514.181 1/2:245:0,146,99:0:0:146,99:5182,3399:-660.995,-245.286,-201.335,-416.035,0,-386.233 1/1:371:0,367,3:0:0:367,3:13080,97:-1166.85,-110.478,0,-1159.1,-102.709,-1158.19 1/1:110:0,109,1:0:0:109,1:3879,36:-346.448,-32.8123,0,-343.567,-29.5772,-343.266 1/1:113:0,112,1:0:0:112,1:3964,36:-354.606,-33.7154,0,-351.676,-30.4272,-351.375 1/2:224:0,106,117:0:0:106,117:3725,4011:-588.125,-290.879,-258.97,-297.266,0,-262.045 1/2:166:0,127,38:0:0:127,38:4505,1291:-457.22,-94.3659,-56.1351,-362.926,0,-351.487 1/1:173:1,171,0:1:22:171,0:6046,0:-536.348,-49.84,0,-536.649,-51.4761,-538.328 1/1:171:0,168,0:0:0:168,0:5922,0:-528.003,-50.573,0,-528.003,-50.573,-528.003 chr05 26930482 . ACTAC GCTAT,GCTAC 41621.5 PASS AB=0.478714,0.516942;ABP=7.54002,5.87981;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1317,678;CIGAR=1X3M1X,1X4M;DP=2004;DPB=2334.6;DPRA=1.21835,1.61407;EPP=2836.84,1475.27;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.1,2.4;MQM=56.4548,51.913;MQMR=0;NS=21;NUMALT=2;ODDS=4.48766;PAIRED=0,0;PAIREDR=0;PAO=826.5,826.5;PQA=28712.5,28712.5;PQR=0;PRO=0;QA=44995,23584;QR=0;RO=0;RPL=5,115;RPP=2819.57,645.817;RPPR=0;RPR=1312,563;RUN=1,1;SAF=2,115;SAP=2845.49,645.817;SAR=1315,563;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:122:0,67,55:0:0:67,55:2304,1940:-337.736,-150.886,-130.717,-180.179,0,-163.623 1/2:110:0,59,50:0:0:59,50:2025,1781:-305.967,-142.4,-124.639,-161.141,0,-146.089 1/2:55:0,32,23:0:0:32,23:1084,824:-150,-62.4377,-52.8047,-82.9792,0,-76.0555 1/2:135:0,76,59:0:0:76,59:2604,2093:-377.706,-166.588,-143.71,-207.473,0,-189.712 1/2:216:0,107,105:0:0:107,105:3703,3720:-600.078,-299.735,-267.525,-298.037,0,-266.429 1/2:63:0,34,29:0:0:34,29:1124,1040:-172.223,-81.4356,-71.2006,-87.5898,0,-78.86 1/1:111:0,111,0:0:0:111,0:3860,0:-339.347,-33.4143,0,-339.347,-33.4143,-339.347 2/2:79:0,0,79:0:0:0,79:0,2788:-245.884,-245.884,-245.884,-23.7814,-23.7814,0 1/2:217:0,44,173:0:0:44,173:1543,5674:-552.534,-427.132,-413.886,-125.398,0,-73.3203 1/1:12:0,11,1:0:0:11,1:384,36:-33.0275,-3.31133,0,-30.1014,-0.0140851,-29.8004 1/1:10:0,10,0:0:0:10,0:353,0:-31.7778,-3.0103,0,-31.7778,-3.0103,-31.7778 1/1:21:0,21,0:0:0:21,0:699,0:-61.3141,-6.32163,0,-61.3141,-6.32163,-61.3141 1/1:93:0,93,0:0:0:93,0:3206,0:-284.383,-27.9958,0,-284.383,-27.9958,-284.383 1/2:94:0,55,39:0:0:55,39:1854,1398:-253.918,-104.845,-88.2883,-140.536,0,-128.796 1/1:212:0,210,1:0:0:210,1:7217,36:-642.855,-63.2163,0,-639.92,-65.33,-639.619 1/1:62:0,62,0:0:0:62,0:2100,0:-188.797,-18.6639,0,-188.797,-18.6639,-188.797 1/1:75:0,74,1:0:0:74,1:2521,36:-226.652,-22.2762,0,-223.723,-18.988,-223.422 1/2:78:0,34,44:0:0:34,44:1153,1542:-210.072,-116.824,-106.589,-85.0639,0,-71.8186 1/2:61:0,43,18:0:0:43,18:1441,640:-162.364,-46.1787,-33.2344,-110.387,0,-104.968 1/1:101:0,100,0:0:0:100,0:3342,0:-295.659,-30.103,0,-295.659,-30.103,-295.659 1/1:77:0,74,1:0:0:74,1:2478,36:-220.697,-22.2762,0,-217.83,-20.3908,-217.529 chr05 26930559 . C T 9980.57 PASS AB=0.49434;ABP=3.23154;AC=13;AF=0.309524;AN=42;AO=544;CIGAR=1X;DP=1481;DPB=1481;DPRA=1.42338;EPP=1175.62;EPPR=2035.51;GTI=1;LEN=1;MEANALT=1;MQM=59.886;MQMR=58.859;NS=21;NUMALT=1;ODDS=0.040293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19466;QR=33353;RO=936;RPL=543;RPP=1175.62;RPPR=2035.51;RPR=1;RUN=1;SAF=544;SAP=1184.29;SAR=0;SRF=936;SRP=2035.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:38,21:38:1360:21:756:-50.6065,0,-104.932 0/1:59:27,32:27:960:32:1137:-84.8772,0,-68.9344 0/1:80:35,45:35:1239:45:1608:-120.928,0,-87.7313 0/1:82:42,40:42:1487:40:1440:-105.116,0,-109.423 0/1:141:64,77:64:2300:77:2752:-205.475,0,-164.816 0/1:33:14,19:14:495:19:680:-51.5952,0,-34.9486 0/0:133:133,0:133:4733:0:0:0,-40.037,-425.756 1/1:149:0,149:0:0:149:5342:-480.911,-44.8535,0 0/1:104:54,50:54:1936:50:1794:-130.43,0,-142.755 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:25:24,0:24:864:0:0:0,-7.22472,-77.6493 0/0:93:93,0:93:3328:0:0:0,-27.9958,-299.712 0/1:92:45,47:45:1592:47:1688:-124.512,0,-115.856 0/0:99:98,1:98:3494:1:36:0,-26.2037,-311.056 0/0:53:52,1:52:1864:1:36:0,-12.4519,-164.08 0/0:63:63,0:63:2233:0:0:0,-18.9649,-200.915 0/1:84:40,44:40:1413:44:1557:-115.133,0,-102.067 0/1:53:37,16:37:1320:16:568:-35.4973,0,-103.139 0/0:39:39,0:39:1388:0:0:0,-11.7402,-125.214 0/0:26:26,0:26:915:0:0:0,-7.82678,-82.6297 chr05 26930565 . TGC CGA 18560.2 PASS AB=0.501244;ABP=3.0211;AC=29;AF=0.690476;AN=42;AO=948;CIGAR=1X1M1X;DP=1511;DPB=1511;DPRA=0.437419;EPP=2061.57;EPPR=1208.18;GTI=1;LEN=3;MEANALT=1.4;MQM=58.8091;MQMR=59.9207;NS=21;NUMALT=1;ODDS=0.508493;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33129;QR=19304;RO=555;RPL=948;RPP=2061.57;RPPR=1208.18;RPR=0;RUN=1;SAF=948;SAP=2061.57;SAR=0;SRF=555;SRP=1208.18;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:21,39:21:730:39:1372:-105.707,0,-47.9575 0/1:60:33,27:33:1157:27:921:-65.1306,0,-86.3725 0/1:81:46,35:46:1621:35:1240:-87.5201,0,-121.795 0/1:82:39,41:39:1351:41:1413:-103.04,0,-97.4155 0/1:145:80,65:80:2781:65:2294:-163.072,0,-206.881 0/1:33:19,14:19:658:14:504:-35.7637,0,-49.6072 1/1:137:0,136:0:0:136:4728:-425.262,-40.9401,0 0/0:155:155,0:155:5364:0:0:0,-46.6596,-482.903 0/1:105:51,54:51:1773:54:1905:-139.727,0,-128.236 0/1:8:2,6:2:72:6:212:-17.0168,0,-4.42848 1/1:6:0,6:0:0:6:205:-18.7843,-1.80618,0 1/1:27:0,27:0:0:27:964:-86.9262,-8.12781,0 1/1:96:0,93:0:0:93:3277:-294.766,-27.9958,0 0/1:95:50,45:50:1703:45:1555:-111.63,0,-124.951 1/1:104:1,103:1:36:103:3578:-318.617,-27.7088,0 1/1:53:0,53:0:0:53:1877:-168.673,-15.9546,0 1/1:62:0,61:0:0:61:2115:-190.017,-18.3628,0 0/1:83:43,40:43:1538:40:1380:-99.4708,0,-113.728 0/1:52:15,37:15:520:37:1274:-99.3016,0,-31.4743 1/1:40:0,40:0:0:40:1407:-126.922,-12.0412,0 1/1:27:0,26:0:0:26:908:-81.6784,-7.82678,0 chr05 26930698 . C T 17470.7 PASS AB=0.476612;ABP=6.76851;AC=29;AF=0.690476;AN=42;AO=865;CIGAR=1X;DP=1359;DPB=1359;DPRA=0.832468;EPP=1881.33;EPPR=1073.55;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7827;MQMR=59.9432;NS=21;NUMALT=1;ODDS=0.554583;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31028;QR=17479;RO=493;RPL=0;RPP=1881.33;RPPR=1073.55;RPR=865;RUN=1;SAF=0;SAP=1881.33;SAR=865;SRF=0;SRP=1073.55;SRR=493;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:33,28:33:1170:28:996:-71.585,0,-87.243 0/1:61:29,32:29:1044:32:1139:-84.4545,0,-75.7216 0/1:56:30,26:30:1080:26:932:-67.3412,0,-80.6556 0/1:73:37,36:37:1320:36:1292:-94.6086,0,-97.1268 0/1:162:93,69:93:3317:69:2484:-175.041,0,-249.98 0/1:51:34,17:34:1196:17:608:-39.6913,0,-92.5901 1/1:108:0,108:0:0:108:3876:-348.996,-32.5112,0 0/0:77:77,0:77:2733:0:0:0,-23.1793,-246.212 0/1:125:72,53:72:2551:53:1904:-134.006,0,-192.21 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:22:0,22:0:0:22:792:-71.5929,-6.62266,0 1/1:84:1,82:1:36:82:2948:-261.948,-21.7469,0 0/1:74:35,39:35:1211:39:1404:-104.381,0,-87.0114 1/1:78:0,78:0:0:78:2796:-251.873,-23.4803,0 1/1:42:0,42:0:0:42:1497:-135.021,-12.6433,0 1/1:43:1,42:1:36:42:1512:-132.776,-9.34602,0 0/1:67:36,31:36:1245:31:1108:-79.8528,0,-92.1807 0/1:51:12,39:12:432:39:1400:-110.942,0,-23.8687 1/1:76:0,76:0:0:76:2724:-245.375,-22.8783,0 1/1:33:0,33:0:0:33:1184:-106.859,-9.93399,0 chr05 26932172 . CGCC CGCT,TGCT 39494.2 PASS AB=0.501832,0.49359;ABP=3.04212,3.40005;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1240,662;CIGAR=3M1X,1X2M1X;DP=1911;DPB=1911;DPRA=0,1.35174;EPP=2661,1431.85;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.04762,2.35714;MQM=59.4677,47.1571;MQMR=60;NS=21;NUMALT=2;ODDS=3.92708;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44069,22820;QR=36;RO=1;RPL=1240,662;RPP=2695.64,1440.53;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1236,661;SAP=2661,1431.85;SAR=4,1;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,43,50:0:0:43,50:1544,1704:-263.297,-137.389,-124.444,-126.258,0,-111.206 1/2:68:0,36,32:0:0:36,32:1279,1123:-195.367,-91.155,-80.3179,-104.564,0,-94.9313 1/2:105:0,48,56:0:0:48,56:1719,1942:-295.639,-155.473,-141.023,-140.217,0,-123.359 1/2:151:0,75,76:0:0:75,76:2675,2599:-427.359,-209.508,-186.931,-218.199,0,-195.32 1/2:155:0,75,79:0:0:75,79:2661,2691:-432.142,-215.384,-192.807,-216.789,0,-193.008 1/2:145:1,66,77:1:36:66,77:2363,2675:-405.359,-213.11,-196.18,-189.653,0,-169.411 1/1:114:0,113,1:0:0:113,1:3971,36:-357.148,-34.0164,0,-354.224,-30.7344,-353.923 2/2:123:0,1,121:0:0:1,121:36,4191:-374.235,-371.32,-371.019,-36.4246,-33.5108,0 1/2:131:0,62,68:0:0:62,68:2191,2341:-366.878,-188.47,-169.807,-178.435,0,-157.965 1/2:8:0,4,4:0:0:4,4:140,143:-23.312,-11.9239,-10.7198,-11.7405,0,-10.5363 1/1:9:0,9,0:0:0:9,0:324,0:-29.4881,-2.70927,0,-29.4881,-2.70927,-29.4881 1/1:38:0,37,0:0:0:37,0:1308,0:-117.629,-11.1381,0,-117.629,-11.1381,-117.629 1/1:80:0,80,0:0:0:80,0:2849,0:-256.594,-24.0824,0,-256.594,-24.0824,-256.594 1/2:71:0,39,32:0:0:39,32:1400,1093:-201.763,-87.6566,-75.9165,-114.453,0,-104.82 1/1:156:0,155,0:0:0:155,0:5458,0:-491.046,-46.6597,0,-491.046,-46.6597,-491.046 1/1:66:0,65,1:0:0:65,1:2336,36:-210.113,-19.567,0,-207.204,-16.3012,-206.903 1/1:99:0,99,0:0:0:99,0:3535,0:-318.208,-29.802,0,-318.208,-29.802,-318.208 1/2:78:0,42,36:0:0:42,36:1495,1251:-222.845,-100.994,-88.3509,-122.201,0,-111.363 1/2:87:0,58,29:0:0:58,29:2071,995:-249.076,-80.41,-62.9503,-169.012,0,-160.282 1/1:74:0,73,0:0:0:73,0:2584,0:-232.205,-21.9752,0,-232.205,-21.9752,-232.205 1/1:60:0,60,0:0:0:60,0:2130,0:-191.928,-18.0618,0,-191.928,-18.0618,-191.928 chr05 26937669 . T C 28603.1 PASS AB=0.472393;ABP=10.5638;AC=29;AF=0.690476;AN=42;AO=1407;CIGAR=1X;DP=2156;DPB=2156;DPRA=0.693448;EPP=3058.27;EPPR=1627.27;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9858;MQMR=60;NS=21;NUMALT=1;ODDS=4.14228;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50011;QR=26575;RO=748;RPL=1407;RPP=3058.27;RPPR=1627.27;RPR=0;RUN=1;SAF=0;SAP=3058.27;SAR=1407;SRF=0;SRP=1627.27;SRR=748;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:39,45:39:1381:45:1567:-116.029,0,-99.3002 0/1:96:61,35:61:2177:35:1256:-84.4464,0,-167.296 0/1:82:27,55:27:968:55:1926:-148.929,0,-62.7529 0/1:97:53,43:53:1896:43:1514:-107.291,0,-141.659 0/1:248:161,87:161:5754:87:3083:-203.041,0,-443.318 0/1:64:35,29:35:1196:29:1028:-73.5671,0,-88.6683 1/1:206:0,206:0:0:206:7272:-654.401,-62.0122,0 0/0:145:145,0:145:5139:0:0:0,-43.6493,-462.652 0/1:140:55,85:55:1968:85:3025:-230.336,0,-135.251 0/1:23:15,8:15:521:8:288:-19.3437,0,-40.2926 1/1:10:0,10:0:0:10:345:-31.3808,-3.0103,0 1/1:49:0,49:0:0:49:1737:-156.613,-14.7505,0 1/1:69:0,69:0:0:69:2468:-222.373,-20.7711,0 0/1:133:69,64:69:2476:64:2292:-166.504,0,-183.056 1/1:220:1,219:1:36:219:7837:-701.758,-62.6283,0 1/1:103:0,103:0:0:103:3670:-330.501,-31.0061,0 1/1:68:0,68:0:0:68:2440:-219.855,-20.47,0 0/1:117:65,52:65:2279:52:1856:-132.099,0,-170.147 0/1:57:21,36:21:748:36:1292:-99.4251,0,-50.4866 1/1:97:1,96:1:36:96:3402:-302.796,-25.6016,0 1/1:48:0,48:0:0:48:1713:-154.454,-14.4494,0 chr05 26937718 . C T 19857.3 PASS AB=0.537066;ABP=18.1421;AC=13;AF=0.309524;AN=42;AO=829;CIGAR=1X;DP=2309;DPB=2309;DPRA=1.72322;EPP=1803.16;EPPR=3216.79;GTI=0;LEN=1;MEANALT=1;MQM=59.4246;MQMR=59.8446;NS=21;NUMALT=1;ODDS=2.1616;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29584;QR=52784;RO=1480;RPL=464;RPP=28.6829;RPPR=136.826;RPR=365;RUN=1;SAF=464;SAP=28.6829;SAR=365;SRF=891;SRP=136.826;SRR=589;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:44,79:44:1545:79:2820:-216.982,0,-102.309 0/1:78:21,57:21:737:57:2044:-160.619,0,-43.1621 0/1:139:65,74:65:2340:74:2640:-195.993,0,-169.013 0/1:138:68,70:68:2436:70:2486:-182.435,0,-177.582 0/1:204:78,126:78:2788:126:4505:-342.164,0,-189.735 0/1:53:26,27:26:917:27:951:-69.9497,0,-66.8887 0/0:143:143,0:143:5098:0:0:0,-43.0473,-458.92 1/1:145:0,145:0:0:145:5172:-465.495,-43.6494,0 0/1:140:81,59:81:2891:59:2109:-147.845,0,-218.28 0/1:27:11,16:11:392:16:576:-44.0295,0,-27.4922 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/0:68:68,0:68:2436:0:0:0,-20.47,-219.489 0/0:94:94,0:94:3350:0:0:0,-28.2968,-301.626 0/1:193:86,107:86:3057:107:3821:-285.492,0,-217.221 0/0:221:220,1:220:7880:1:36:0,-62.9294,-705.582 0/0:47:47,0:47:1671:0:0:0,-14.1484,-150.676 0/0:75:74,1:74:2646:1:36:0,-18.979,-234.787 0/1:118:63,55:63:2251:55:1960:-141.132,0,-167.318 0/1:55:44,11:44:1567:11:392:-19.0634,0,-124.762 0/0:165:164,1:164:5841:1:36:0,-46.0717,-522.203 0/0:71:71,0:71:2513:0:0:0,-21.3731,-226.342 chr05 26949515 . C A 30489.5 PASS AB=0.495352;ABP=3.29291;AC=29;AF=0.690476;AN=42;AO=1581;CIGAR=1X;DP=2440;DPB=2440;DPRA=1.1949;EPP=3384.19;EPPR=1782.46;GTI=1;LEN=1;MEANALT=1;MQM=44.2865;MQMR=58.3085;NS=21;NUMALT=1;ODDS=1.51766;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55828;QR=30629;RO=859;RPL=6;RPP=3384.19;RPPR=1782.46;RPR=1575;RUN=1;SAF=1581;SAP=3436.11;SAR=0;SRF=859;SRP=1868.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:83,96:83:2942:96:3401:-247.244,0,-210.256 0/1:71:39,32:39:1392:32:1120:-78.7575,0,-104.063 0/1:168:90,78:90:3219:78:2757:-191.949,0,-238.348 0/1:107:52,55:52:1852:55:1937:-139.718,0,-134.076 0/1:213:105,108:105:3743:108:3769:-269.154,0,-272.391 0/1:119:54,65:54:1936:65:2284:-167.094,0,-138.657 1/1:169:0,169:0:0:169:5958:-527.618,-50.8741,0 0/0:98:98,0:98:3490:0:0:0,-29.5009,-313.658 0/1:187:107,80:107:3822:80:2856:-195.435,0,-287.557 0/1:54:33,21:33:1179:21:735:-47.6636,0,-90.1616 1/1:5:0,5:0:0:5:176:-16.0241,-1.50515,0 1/1:37:0,37:0:0:37:1300:-114.689,-11.1381,0 1/1:109:0,109:0:0:109:3888:-343.389,-32.8123,0 0/1:165:95,70:95:3380:70:2458:-166.933,0,-254.361 1/1:144:0,144:0:0:144:5081:-448.562,-43.3483,0 1/1:83:1,82:1:36:82:2884:-249.282,-21.3882,0 1/1:97:0,97:0:0:97:3388:-295.904,-29.1999,0 0/1:157:76,81:76:2706:81:2892:-206.634,0,-196.37 0/1:86:26,60:26:932:60:2148:-162.615,0,-56.5243 1/1:121:0,121:0:0:121:4260:-375.647,-36.4246,0 1/1:71:0,71:0:0:71:2536:-225.547,-21.3731,0 chr05 26950490 . CTT ATG,ATT 44583.9 PASS AB=0.35443,0.643038;ABP=221.12,213.599;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1098,875;CIGAR=1X1M1X,1X2M;DP=1977;DPB=1977;DPRA=0.848636,1.4695;EPP=2387.29,1903.05;EPPR=0;GTI=4;LEN=3,1;MEANALT=1.85,2.13333;MQM=39.0883,59.4206;MQMR=0;NS=21;NUMALT=2;ODDS=3.26024;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38585,31248;QR=0;RO=0;RPL=0,468;RPP=2387.29,12.2446;RPPR=0;RPR=1098,407;RUN=1,1;SAF=0,468;SAP=2387.29,12.2446;SAR=1098,407;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:152:0,42,110:0:0:42,110:1483,3935:-434.728,-321.217,-308.573,-113.851,0,-80.7381 1/2:54:0,11,43:0:0:11,43:388,1544:-156.658,-126.268,-122.957,-30.7342,0,-17.7899 1/2:84:0,37,47:0:0:37,47:1316,1664:-236.961,-135.882,-124.744,-101.424,0,-87.2757 1/2:128:0,32,96:0:0:32,96:1136,3446:-369.222,-281.338,-271.705,-88.2277,0,-59.3288 1/2:221:0,85,134:0:0:85,134:2944,4785:-615.143,-389.976,-364.388,-225.171,0,-184.833 1/2:92:0,37,55:0:0:37,55:1316,1944:-261.939,-158.634,-147.496,-103.652,0,-87.0958 1/1:111:0,110,1:0:0:110,1:3873,36:-337.194,-33.1133,0,-334.261,-29.8212,-333.96 2/2:110:0,0,110:0:0:0,110:0,3933:-354.136,-354.136,-354.136,-33.1133,-33.1133,0 1/2:185:0,63,122:0:0:63,122:2218,4354:-524.612,-355.237,-336.272,-169.716,0,-132.99 1/2:5:0,2,3:0:0:2,3:72,108:-14.7824,-9.17208,-8.57002,-5.96147,0,-5.05838 1/1:4:0,4,0:0:0:4,0:144,0:-12.8786,-1.20412,0,-12.8786,-1.20412,-12.8786 1/1:13:0,13,0:0:0:13,0:457,0:-39.9887,-3.91339,0,-39.9887,-3.91339,-39.9887 1/1:161:0,161,0:0:0:161,0:5678,0:-485.635,-48.4658,0,-485.635,-48.4658,-485.635 1/2:135:0,65,69:0:0:65,69:2278,2467:-377.34,-201.169,-181.602,-176.174,0,-155.403 1/1:160:0,160,0:0:0:160,0:5632,0:-481.794,-48.1648,0,-481.794,-48.1648,-481.794 1/1:39:0,39,0:0:0:39,0:1351,0:-115.959,-11.7402,0,-115.959,-11.7402,-115.959 1/1:52:0,50,1:0:0:50,1:1765,36:-150.783,-15.0515,0,-147.845,-12.0583,-147.544 1/2:63:0,14,49:0:0:14,49:475,1751:-179.772,-143.11,-138.895,-36.9939,0,-22.2434 1/2:66:0,32,34:0:0:32,34:1135,1209:-185.336,-98.8735,-89.2405,-86.8065,0,-76.5714 1/1:96:0,95,1:0:0:95,1:3324,36:-285.236,-28.5979,0,-282.298,-25.3006,-281.997 1/1:46:0,46,0:0:0:46,0:1600,0:-137.167,-13.8474,0,-137.167,-13.8474,-137.167 chr05 26950500 . A C 19131.6 PASS AB=0.355556;ABP=215.043;AC=29;AF=0.690476;AN=42;AO=1079;CIGAR=1X;DP=1946;DPB=1946;DPRA=0.834545;EPP=2346.03;EPPR=1885.68;GTI=4;LEN=1;MEANALT=1;MQM=39.1687;MQMR=59.4533;NS=21;NUMALT=1;ODDS=3.461;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38365;QR=30937;RO=867;RPL=0;RPP=2346.03;RPPR=13.5922;RPR=1079;RUN=1;SAF=0;SAP=2346.03;SAR=1079;SRF=466;SRP=13.5922;SRR=401;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:109,41:109:3891:41:1459:-79.0777,0,-305.22 0/1:56:43,13:43:1544:13:464:-23.7378,0,-122.355 0/1:86:47,39:47:1675:39:1387:-92.8423,0,-125.133 0/1:126:95,31:95:3389:31:1116:-57.959,0,-267.191 0/1:214:134,80:134:4792:80:2872:-179.167,0,-366.786 0/1:91:55,36:55:1968:36:1283:-84.4064,0,-149.957 1/1:108:1,107:1:36:107:3776:-325.428,-28.9181,0 0/0:110:110,0:110:3905:0:0:0,-33.1133,-351.621 0/1:181:116,65:116:4147:65:2300:-140.941,0,-318.857 0/1:6:4,2:4:144:2:72:-4.75735,0,-11.5074 1/1:4:0,4:0:0:4:144:-12.8786,-1.20412,0 1/1:13:0,13:0:0:13:464:-40.5416,-3.91339,0 1/1:161:0,161:0:0:161:5713:-487.358,-48.4658,0 0/1:132:68,64:68:2422:64:2286:-156.489,0,-178.499 1/1:155:0,155:0:0:155:5512:-471.093,-46.6597,0 1/1:36:0,36:0:0:36:1279:-109.259,-10.8371,0 1/1:48:1,47:1:36:47:1679:-140.265,-10.8512,0 0/1:63:49,14:49:1748:14:484:-23.1568,0,-138.628 0/1:65:34,31:34:1204:31:1112:-74.6206,0,-89.0946 1/1:94:1,93:1:36:93:3309:-280.539,-24.6985,0 1/1:47:0,47:0:0:47:1654:-142.025,-14.1484,0 chr05 26950507 . C T 18997.2 PASS AB=0.356589;ABP=210.411;AC=29;AF=0.690476;AN=42;AO=1072;CIGAR=1X;DP=1928;DPB=1928;DPRA=0.868095;EPP=2330.83;EPPR=1859.62;GTI=4;LEN=1;MEANALT=1.05;MQM=39.2304;MQMR=59.4292;NS=21;NUMALT=1;ODDS=2.88618;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38150;QR=30204;RO=855;RPL=0;RPP=2330.83;RPPR=10.693;RPR=1072;RUN=1;SAF=0;SAP=2330.83;SAR=1072;SRF=455;SRP=10.693;SRR=400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:108,43:108:3798:43:1495:-82.015,0,-296.554 0/1:54:42,12:42:1490:12:428:-21.2069,0,-118.097 0/1:87:48,39:48:1690:39:1404:-93.7645,0,-126.165 0/1:127:96,31:96:3384:31:1112:-57.4863,0,-266.438 0/1:221:134,87:134:4731:87:3108:-197.467,0,-359.126 0/1:87:53,34:53:1876:34:1190:-77.5451,0,-142.885 1/1:113:1,112:1:32:112:4016:-346.019,-30.8191,0 0/0:105:105,0:105:3671:0:0:0,-31.6081,-330.567 0/1:176:116,59:116:4112:59:2082:-124.895,0,-317.233 0/1:6:4,2:4:144:2:72:-4.75735,0,-11.5074 1/1:4:0,4:0:0:4:144:-12.8786,-1.20412,0 1/1:13:0,13:0:0:13:464:-40.5416,-3.91339,0 1/1:157:0,157:0:0:157:5594:-477.269,-47.2617,0 0/1:131:64,67:64:2276:67:2382:-165.141,0,-165.639 1/1:154:1,153:1:36:153:5422:-459.402,-42.7672,0 1/1:37:0,37:0:0:37:1313:-112.629,-11.1381,0 1/1:48:1,47:1:36:47:1688:-140.426,-10.8512,0 0/1:62:48,14:48:1708:14:504:-24.8905,0,-135.329 0/1:59:33,26:33:1184:26:913:-59.5435,0,-89.102 1/1:91:1,90:1:36:90:3216:-271.193,-23.7955,0 1/1:45:0,45:0:0:45:1603:-136.926,-13.5464,0 chr05 26950561 . 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AC TG 15530.5 PASS AB=0.472254;ABP=14.8194;AC=14;AF=0.333333;AN=42;AO=933;CIGAR=2X;DP=2938;DPB=2938;DPRA=1.65351;EPP=2028.99;EPPR=4337.29;GTI=0;LEN=2;MEANALT=1.0625;MQM=59.8928;MQMR=59.9935;NS=21;NUMALT=1;ODDS=18.5243;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32959;QR=69914;RO=2004;RPL=933;RPP=2028.99;RPPR=4337.29;RPR=0;RUN=1;SAF=933;SAP=2028.99;SAR=0;SRF=2004;SRP=4354.64;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:149:82,67:82:2826:67:2375:-169.153,0,-209.723 0/1:118:41,77:41:1358:77:2768:-213.839,0,-86.985 0/1:162:93,69:93:3241:69:2430:-170.186,0,-243.144 0/1:152:83,69:83:2968:69:2461:-175.987,0,-221.597 0/1:260:121,139:121:4206:139:4848:-358.2,0,-300.457 0/1:123:71,52:71:2460:52:1804:-125.604,0,-184.625 0/1:193:106,87:106:3744:87:3095:-220.677,0,-279.06 1/1:92:0,92:0:0:92:3239:-291.712,-27.6948,0 0/1:216:107,109:107:3775:109:3857:-281.668,0,-274.925 0/1:34:18,16:18:627:16:563:-40.7639,0,-46.5185 0/0:9:9,0:9:318:0:0:0,-2.70927,-28.9609 0/0:43:43,0:43:1478:0:0:0,-12.9443,-133.308 0/0:188:188,0:188:6659:0:0:0,-56.5936,-599.391 0/1:152:95,57:95:3303:57:1999:-134.422,0,-251.732 0/0:262:261,1:261:9161:1:36:0,-75.2716,-820.877 0/0:156:156,0:156:5504:0:0:0,-46.9607,-495.491 0/0:203:201,2:201:6962:2:72:0,-54.2724,-619.822 0/1:130:71,58:71:2467:58:2061:-146.694,0,-183.216 0/1:77:43,34:43:1480:34:1207:-85.7559,0,-110.311 0/0:148:144,4:144:5005:4:144:0,-31.2388,-437.288 0/0:71:71,0:71:2372:0:0:0,-21.3731,-213.733 chr05 27037896 . CT AC,CC 59478.6 PASS AB=0.575374,0.422325;ABP=88.7747,94.0922;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1953,858;CIGAR=2X,1M1X;DP=2821;DPB=2821;DPRA=0,1.57377;EPP=4148.89,1840.17;EPPR=0;GTI=0;LEN=2,1;MEANALT=2,2.38462;MQM=59.9529,59.9639;MQMR=0;NS=21;NUMALT=2;ODDS=10.8822;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68929,30651;QR=0;RO=0;RPL=1942,855;RPP=4148.89,1840.17;RPPR=0;RPR=11,3;RUN=1,1;SAF=0,0;SAP=4243.9,1866.13;SAR=1953,858;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,100,64:0:0:100,64:3530,2300:-475.084,-187.635,-157.532,-287.446,0,-268.18 1/2:130:0,66,64:0:0:66,64:2353,2283:-378.269,-186.465,-166.597,-192.16,0,-172.894 1/2:73:0,40,33:0:0:40,33:1424,1177:-212.354,-96.2945,-84.2533,-116.415,0,-106.481 1/2:177:0,88,87:0:0:88,87:3061,3095:-501.092,-252.228,-225.738,-248.856,0,-222.667 1/2:302:0,176,126:0:0:176,126:6228,4502:-874.695,-367.419,-314.438,-507.632,0,-469.702 1/2:148:0,63,85:0:0:63,85:2199,3039:-427.006,-248.152,-229.187,-179.207,0,-153.619 1/2:197:0,147,50:0:0:147,50:5201,1769:-568.057,-144.433,-100.181,-423.978,0,-408.927 2/2:124:0,1,123:0:0:1,123:36,4393:-395.183,-392.246,-391.945,-37.0267,-33.7294,0 1/2:294:0,169,125:0:0:169,125:5999,4488:-855.244,-366.459,-315.585,-489.142,0,-451.513 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/1:26:0,26,0:0:0:26,0:932,0:-84.1991,-7.82678,0,-84.1991,-7.82678,-84.1991 1/1:162:0,159,0:0:0:159,0:5624,0:-505.974,-47.8638,0,-505.974,-47.8638,-505.974 1/2:171:0,97,73:0:0:97,73:3392,2612:-488.934,-212.993,-183.793,-275.935,0,-253.96 1/1:180:0,180,0:0:0:180,0:6333,0:-570.036,-54.1854,0,-570.036,-54.1854,-570.036 1/1:171:0,171,0:0:0:171,0:6077,0:-547.033,-51.4761,0,-547.033,-51.4761,-547.033 1/1:200:0,198,0:0:0:198,0:6943,0:-624.573,-59.6039,0,-624.573,-59.6039,-624.573 1/2:29:0,12,17:0:0:12,17:415,597:-82.658,-48.9386,-45.3263,-34.0673,0,-28.9498 1/2:52:0,42,10:0:0:42,10:1490,360:-151.126,-29.734,-17.0907,-121.75,0,-118.74 1/1:166:0,164,1:0:0:164,1:5767,36:-518.841,-49.3689,0,-515.904,-46.3766,-515.603 1/1:38:0,38,0:0:0:38,0:1349,0:-121.71,-11.4391,0,-121.71,-11.4391,-121.71 chr05 27037917 . A G 14887.6 PASS AB=0.430213;ABP=76.6595;AC=13;AF=0.309524;AN=42;AO=877;CIGAR=1X;DP=2822;DPB=2822;DPRA=1.59405;EPP=1907.39;EPPR=4226.52;GTI=0;LEN=1;MEANALT=1;MQM=59.9601;MQMR=59.9722;NS=21;NUMALT=1;ODDS=9.22849;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31416;QR=69496;RO=1945;RPL=877;RPP=1907.39;RPPR=4226.52;RPR=0;RUN=1;SAF=0;SAP=1907.39;SAR=877;SRF=0;SRP=4226.52;SRR=1945;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:162:97,65:97:3480:65:2332:-161.37,0,-264.644 0/1:131:66,65:66:2357:65:2332:-170.705,0,-172.952 0/1:72:40,32:40:1417:32:1152:-82.3078,0,-106.148 0/1:179:88,91:88:3137:91:3241:-238.027,0,-228.668 0/1:310:177,133:177:6314:133:4764:-335.598,0,-475.028 0/1:148:63,85:63:2260:85:3048:-229.997,0,-159.11 0/1:197:147,50:147:5257:50:1800:-102.905,0,-413.962 1/1:127:0,127:0:0:127:4548:-409.486,-38.2308,0 0/1:296:168,128:168:5987:128:4588:-323.979,0,-449.829 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/0:159:159,0:159:5678:0:0:0,-47.8638,-511.134 0/1:166:94,72:94:3380:72:2576:-182.119,0,-254.443 0/0:179:179,0:179:6382:0:0:0,-53.8844,-574.425 0/0:170:170,0:170:6074:0:0:0,-51.1751,-546.76 0/0:198:198,0:198:7086:0:0:0,-59.6039,-637.796 0/1:29:12,17:12:413:17:612:-46.6836,0,-28.768 0/1:51:40,11:40:1440:11:387:-19.8134,0,-114.545 0/0:168:167,1:167:5962:1:36:0,-46.9748,-533.087 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 chr05 27042266 . T A 66956.3 PASS AB=0.506148;ABP=3.81125;AC=28;AF=0.666667;AN=42;AO=2762;CIGAR=1X;DP=4234;DPB=4234;DPRA=0.758015;EPP=5939.97;EPPR=3179.9;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9841;MQMR=59.998;NS=21;NUMALT=1;ODDS=6.75539;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98923;QR=52721;RO=1471;RPL=435;RPP=2817.33;RPPR=2283.79;RPR=2327;RUN=1;SAF=428;SAP=2859.13;SAR=2334;SRF=112;SRP=2298.5;SRR=1359;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:189:100,89:100:3588:89:3162:-227.801,0,-266.23 0/1:151:83,68:83:2973:68:2429:-173.408,0,-222.345 0/1:190:84,106:84:3008:106:3804:-285.361,0,-213.756 0/1:262:143,119:143:5136:119:4249:-303.718,0,-383.51 0/1:250:124,126:124:4429:126:4515:-331.259,0,-323.523 0/1:226:115,111:115:4113:111:3977:-290.085,0,-302.32 0/1:181:69,112:69:2480:112:4008:-306.422,0,-168.967 0/0:262:262,0:262:9400:0:0:0,-78.8699,-845.959 0/1:570:281,288:281:10066:288:10328:-757.794,0,-734.224 0/1:37:14,23:14:504:23:813:-62.351,0,-34.56 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:34:0,34:0:0:34:1217:-109.836,-10.235,0 1/1:309:0,309:0:0:309:11077:-996.818,-93.0183,0 0/1:252:128,124:128:4595:124:4452:-324.99,0,-337.853 1/1:321:0,321:0:0:321:11522:-1036.85,-96.6306,0 1/1:341:0,341:0:0:341:12205:-1098.29,-102.651,0 1/1:299:2,297:2:72:297:10616:-948.517,-83.1712,0 0/1:84:45,39:45:1620:39:1404:-101.373,0,-120.803 0/1:48:18,30:18:629:30:1080:-83.0638,0,-42.4843 1/1:172:3,169:3:108:169:6057:-535.156,-41.702,0 1/1:50:0,50:0:0:50:1792:-161.562,-15.0515,0 chr05 27144909 . TAC CAA,CAC 44706 PASS AB=0.508197,0.491058;ABP=3.79345,3.94232;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1409,759;CIGAR=1X1M1X,1X2M;DP=2169;DPB=2169;DPRA=1.09158,2.36306;EPP=3062.61,1651.16;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.75,2;MQM=59.5231,59.8076;MQMR=0;NS=21;NUMALT=2;ODDS=3.69765;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49346,26967;QR=0;RO=0;RPL=0,0;RPP=3062.61,1651.16;RPPR=0;RPR=1409,759;RUN=1,1;SAF=0,0;SAP=3062.61,1651.16;SAR=1409,759;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:71:0,27,44:0:0:27,44:887,1580:-200.893,-129.246,-121.118,-71.9864,0,-58.7411 1/2:84:0,41,43:0:0:41,43:1436,1505:-239.58,-122.744,-110.401,-117.186,0,-104.242 1/2:84:0,56,28:0:0:56,28:1934,1000:-239.003,-81.8865,-65.0289,-157.47,0,-149.041 1/2:119:0,63,56:0:0:63,56:2229,1995:-344.513,-162.964,-143.999,-181.904,0,-165.047 1/2:215:0,99,115:0:0:99,115:3457,4100:-615.002,-334.097,-304.295,-280.897,0,-246.279 1/2:117:0,63,54:0:0:63,54:2180,1921:-334.056,-156.909,-137.944,-177.498,0,-161.242 1/2:109:0,57,52:0:0:57,52:1995,1847:-313.128,-150.855,-133.696,-162.626,0,-146.972 2/2:95:0,0,95:0:0:0,95:0,3384:-304.764,-304.764,-304.764,-28.5979,-28.5979,0 1/2:224:0,113,111:0:0:113,111:4000,3958:-648.809,-322.993,-288.976,-326.171,0,-292.757 1/1:19:0,18,1:0:0:18,1:632,36:-56.8409,-5.41854,0,-53.903,-2.1213,-53.602 1/1:14:0,14,0:0:0:14,0:480,0:-43.5074,-4.21442,0,-43.5074,-4.21442,-43.5074 1/1:32:0,32,0:0:0:32,0:1140,0:-102.862,-9.63296,0,-102.862,-9.63296,-102.862 1/1:89:0,89,0:0:0:89,0:3141,0:-282.902,-26.7917,0,-282.902,-26.7917,-282.902 1/2:60:0,31,29:0:0:31,29:1088,1032:-173,-84.4589,-75.127,-88.8945,0,-80.1646 1/1:326:0,323,3:0:0:323,3:11277,104:-1014.15,-97.2327,0,-1005.69,-88.433,-1004.79 1/1:71:0,71,0:0:0:71,0:2510,0:-226.128,-21.3731,0,-226.128,-21.3731,-226.128 1/1:49:0,49,0:0:0:49,0:1742,0:-157.047,-14.7505,0,-157.047,-14.7505,-157.047 1/2:173:0,76,97:0:0:76,97:2628,3411:-491.469,-277.994,-255.116,-213.824,0,-184.624 1/2:86:0,56,30:0:0:56,30:1963,1058:-246.224,-86.4993,-69.6417,-160.076,0,-151.045 1/1:59:0,59,0:0:0:59,0:2080,0:-187.413,-17.7608,0,-187.413,-17.7608,-187.413 1/1:73:0,72,1:0:0:72,1:2547,36:-229.035,-21.6742,0,-226.098,-18.3769,-225.797 chr05 27144931 . CCTT TCTT,TCTC 45475 PASS AB=0.496313,0.502212;ABP=3.17044,3.06795;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1387,782;CIGAR=1X3M,1X2M1X;DP=2176;DPB=2176;DPRA=1.08333,2.38083;EPP=3014.84,1701.1;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2,2.13333;MQM=59.5616,59.7609;MQMR=60;NS=21;NUMALT=2;ODDS=1.2507;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49519,27769;QR=36;RO=1;RPL=1387,782;RPP=3014.84,1701.1;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3014.84,1701.1;SAR=1387,782;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:72:0,27,45:0:0:27,45:945,1610:-208.501,-131.643,-123.516,-77.2105,0,-63.6641 1/2:86:0,41,45:0:0:41,45:1472,1587:-249.605,-129.555,-117.213,-120.406,0,-106.859 1/2:83:0,56,27:0:0:56,27:1974,957:-238.949,-78.3181,-61.4604,-160.985,0,-152.857 1/2:120:0,62,58:0:0:62,58:2216,2071:-349.879,-169.2,-150.536,-181.036,0,-163.576 1/2:221:0,99,122:0:0:99,122:3518,4326:-639.061,-352.682,-322.88,-286.734,0,-250.008 1/2:115:0,60,55:0:0:60,55:2160,1944:-334.788,-158.539,-140.477,-176.605,0,-160.048 1/2:111:0,56,55:0:0:56,55:2016,1960:-324.572,-160.11,-143.252,-164.82,0,-148.263 2/2:96:0,0,96:0:0:0,96:0,3423:-308.26,-308.26,-308.26,-28.8989,-28.8989,0 1/2:224:0,110,113:0:0:110,113:3914,3987:-643.675,-324.693,-291.579,-319.026,0,-285.009 1/1:19:0,18,1:0:0:18,1:629,36:-56.5653,-5.41854,0,-53.6273,-2.1213,-53.3263 1/1:14:0,14,0:0:0:14,0:504,0:-45.6817,-4.21442,0,-45.6817,-4.21442,-45.6817 1/1:32:0,32,0:0:0:32,0:1152,0:-103.944,-9.63296,0,-103.944,-9.63296,-103.944 1/1:88:0,86,0:0:0:86,0:3069,0:-276.171,-25.8886,0,-276.171,-25.8886,-276.171 1/2:63:0,32,31:0:0:32,31:1151,1097:-183.611,-89.7018,-80.0689,-94.2653,0,-84.9334 1/1:320:1,315,3:1:36:315,3:11248,107:-1008.26,-91.8865,0,-999.842,-86.1037,-1001.88 1/1:72:0,72,0:0:0:72,0:2562,0:-230.821,-21.6742,0,-230.821,-21.6742,-230.821 1/1:49:0,49,0:0:0:49,0:1756,0:-158.227,-14.7505,0,-158.227,-14.7505,-158.227 1/2:175:0,75,99:0:0:75,99:2687,3531:-506.646,-287.817,-265.24,-218.826,0,-189.024 1/2:86:0,55,31:0:0:55,31:1980,1097:-251.258,-89.7055,-73.1489,-161.908,0,-152.576 1/1:58:0,57,0:0:0:57,0:2029,0:-182.506,-17.1587,0,-182.506,-17.1587,-182.506 1/1:72:0,71,1:0:0:71,1:2537,36:-228.109,-21.3731,0,-225.171,-18.0759,-224.87 chr05 27218538 . T G 27840.2 PASS AB=0.430248;ABP=67.8374;AC=28;AF=0.666667;AN=42;AO=1417;CIGAR=1X;DP=2436;DPB=2436;DPRA=0.807746;EPP=3079.99;EPPR=2215.74;GTI=2;LEN=1;MEANALT=1;MQM=59.9577;MQMR=59.9961;NS=21;NUMALT=1;ODDS=5.36665;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50654;QR=36259;RO=1019;RPL=1417;RPP=3079.99;RPPR=2215.74;RPR=0;RUN=1;SAF=0;SAP=3079.99;SAR=1417;SRF=0;SRP=2215.74;SRR=1019;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:106,70:106:3789:70:2516:-173.672,0,-288.226 0/1:117:64,53:64:2270:53:1906:-136.593,0,-169.339 0/1:149:63,86:63:2234:86:3084:-232.93,0,-156.467 0/1:152:90,62:90:3186:62:2206:-153.048,0,-241.205 0/1:170:127,43:127:4527:43:1544:-88.078,0,-356.419 0/1:76:49,27:49:1745:27:964:-64.1985,0,-134.454 0/1:167:91,76:91:3264:76:2709:-193.78,0,-243.708 0/0:142:142,0:142:4965:0:0:0,-42.7463,-446.995 0/1:190:118,72:118:4214:72:2564:-173.815,0,-322.242 0/1:13:11,2:11:381:2:72:-2.92333,0,-30.7072 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:62:0,62:0:0:62:2230:-200.964,-18.6639,0 1/1:77:0,77:0:0:77:2742:-247.02,-23.1793,0 0/1:150:81,69:81:2916:69:2476:-177.939,0,-217.52 1/1:255:1,254:1:36:254:9050:-810.882,-73.1644,0 1/1:81:0,81:0:0:81:2904:-261.593,-24.3834,0 1/1:140:0,140:0:0:140:5008:-450.867,-42.1442,0 0/1:104:48,56:48:1724:56:1999:-148.876,0,-124.138 0/1:70:26,44:26:936:44:1548:-118.539,0,-63.4874 1/1:76:2,74:2:72:74:2656:-232.449,-16.0416,0 1/1:63:0,63:0:0:63:2260:-203.663,-18.9649,0 chr05 27219085 . GTCACTG ATGACTA,ATCACTA 39644.5 PASS AB=0.449033,0.549922;ABP=46.173,44.4204;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1714,1088;CIGAR=1X1M1X3M1X,1X5M1X;DP=2805;DPB=2805.43;DPRA=4.47419,1.24658;EPP=3724.91,2014.85;EPPR=0;GTI=0;LEN=7,7;MEANALT=1.8,2.07143;MQM=32.0968,26.5221;MQMR=0;NS=21;NUMALT=2;ODDS=7.50839;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=60532,28519;QR=0;RO=0;RPL=1714,42;RPP=3724.91,2014.85;RPPR=0;RPR=0,1046;RUN=1,1;SAF=1714,1088;SAP=3724.91,2365.57;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:61:0,34,27:0:0:34,27:1203,756:-134.423,-52.8555,-42.6204,-81.8393,0,-73.7115 1/2:77:0,30,47:0:0:30,47:1063,1081:-143.784,-70.6541,-61.6232,-73.3939,0,-59.2455 1/2:70:0,30,40:0:0:30,40:1057,1112:-149.053,-77.463,-68.4321,-71.8666,0,-59.8254 1/2:139:0,67,72:0:0:67,72:2359,2003:-299.515,-139.56,-119.391,-160.229,0,-138.554 1/2:234:0,73,161:0:0:73,161:2566,4489:-488.883,-312.226,-290.251,-176.942,0,-128.477 1/2:75:0,45,30:0:0:45,30:1594,690:-157.185,-45.1707,-31.6244,-112.258,0,-103.227 1/2:81:0,37,44:0:0:37,44:1318,1012:-157.434,-66.157,-55.0189,-91.5355,0,-78.2902 2/2:31:0,0,31:0:0:0,31:0,763:-60.7887,-60.7887,-60.7887,-9.33193,-9.33193,0 1/2:67:0,39,28:0:0:39,28:1393,838:-153.171,-59.68,-47.9398,-93.7734,0,-85.3446 1/2:326:0,158,168:0:0:158,168:5581,4196:-664.745,-281.876,-234.313,-383.132,0,-332.559 1/1:325:0,325,0:0:0:325,0:11462,0:-899.836,-97.8348,0,-899.836,-97.8348,-899.836 1/1:109:0,109,0:0:0:109,0:3857,0:-297.149,-32.8123,0,-297.149,-32.8123,-297.149 1/1:72:0,71,0:0:0:71,0:2498,0:-192.346,-21.3731,0,-192.346,-21.3731,-192.346 1/2:67:0,35,32:0:0:35,32:1238,887:-145.98,-61.7853,-51.2493,-84.4678,0,-74.8349 1/1:65:0,65,0:0:0:65,0:2293,0:-175.537,-19.567,0,-175.537,-19.567,-175.537 1/1:112:0,112,0:0:0:112,0:3938,0:-302.006,-33.7154,0,-302.006,-33.7154,-302.006 1/1:63:0,63,0:0:0:63,0:2220,0:-170.927,-18.9649,0,-170.927,-18.9649,-170.927 1/2:634:0,292,340:0:0:292,340:10345,8544:-1278.41,-575.662,-487.761,-702.681,0,-600.331 1/2:82:0,19,63:0:0:19,63:672,2023:-198.352,-153.364,-147.644,-45.2862,0,-26.3213 1/1:58:0,53,5:0:0:53,5:1863,125:-142.986,-15.9546,0,-134.6,-7.34132,-133.095 1/1:57:0,57,0:0:0:57,0:2012,0:-158.205,-17.1587,0,-158.205,-17.1587,-158.205 chr05 27258423 . T G 21868 PASS AB=0.615274;ABP=83.1107;AC=28;AF=0.666667;AN=42;AO=845;CIGAR=1X;DP=1170;DPB=1170;DPRA=0.958621;EPP=1237.15;EPPR=640.962;GTI=0;LEN=1;MEANALT=1;MQM=59.987;MQMR=60;NS=21;NUMALT=1;ODDS=0.435239;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30126;QR=11569;RO=325;RPL=638;RPP=480.377;RPPR=640.962;RPR=207;RUN=1;SAF=131;SAP=876.454;SAR=714;SRF=0;SRP=708.739;SRR=325;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:19,35:19:684:35:1252:-96.7295,0,-45.6347 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:62:32,30:32:1144:30:1080:-78.8494,0,-84.6057 0/1:73:27,46:27:956:46:1627:-124.743,0,-64.3805 0/1:71:31,40:31:1112:40:1423:-106.994,0,-79.0182 0/1:38:9,29:9:324:29:1023:-80.9426,0,-18.0667 0/1:66:30,36:30:1072:36:1284:-95.9954,0,-76.9245 0/0:58:58,0:58:2042:0:0:0,-17.4597,-184.051 0/1:80:28,52:28:1000:52:1864:-143.957,0,-66.233 0/1:12:3,9:3:108:9:306:-24.2562,0,-6.46281 1/1:6:0,6:0:0:6:203:-18.6012,-1.80618,0 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 1/1:41:0,41:0:0:41:1456:-131.327,-12.3422,0 0/1:80:41,39:41:1464:39:1392:-101.497,0,-107.974 1/1:95:0,95:0:0:95:3408:-306.934,-28.5979,0 1/1:34:0,34:0:0:34:1199:-108.215,-10.235,0 1/1:37:0,37:0:0:37:1320:-119.102,-11.1381,0 0/1:79:29,50:29:1015:50:1796:-138.141,0,-67.8795 0/1:65:12,53:12:432:53:1892:-150.991,0,-19.6542 1/1:87:0,87:0:0:87:3100:-279.229,-26.1896,0 1/1:91:0,91:0:0:91:3249:-292.63,-27.3937,0 chr05 27258544 . G A 64590.5 PASS AB=0.45948;ABP=41.3735;AC=28;AF=0.666667;AN=42;AO=2532;CIGAR=1X;DP=4283;DPB=4283;DPRA=0.691003;EPP=5501.18;EPPR=3800.92;GTI=1;LEN=1;MEANALT=1.1;MQM=59.7287;MQMR=59.9434;NS=21;NUMALT=1;ODDS=11.5713;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90006;QR=62149;RO=1749;RPL=1255;RPP=3.42538;RPPR=3.11087;RPR=1277;RUN=1;SAF=1255;SAP=3.42538;SAR=1277;SRF=870;SRP=3.11087;SRR=879;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:92,65:92:3265:65:2307:-160.614,0,-246.809 0/1:124:77,47:77:2754:47:1675:-113.601,0,-210.773 0/1:228:113,115:113:4005:115:4088:-299.397,0,-291.948 0/1:233:127,106:127:4514:106:3771:-269.409,0,-336.287 0/1:222:138,84:138:4915:84:2991:-202.491,0,-375.646 0/1:147:83,64:83:2936:64:2277:-160.851,0,-220.193 0/1:304:155,149:155:5480:149:5268:-382.674,0,-401.184 0/0:289:289,0:289:10235:0:0:0,-86.9977,-921.086 0/1:504:285,218:285:10165:218:7750:-545.709,0,-763.001 0/1:37:26,11:26:914:11:396:-24.8446,0,-71.4366 1/1:19:0,19:0:0:19:675:-61.0411,-5.71957,0 1/1:107:0,107:0:0:107:3829:-344.76,-32.2102,0 1/1:247:1,246:1:36:246:8790:-787.248,-70.7561,0 0/1:215:118,97:118:4193:97:3451:-246.02,0,-312.828 1/1:328:1,327:1:36:327:11633:-1042.79,-95.1396,0 1/1:97:1,96:1:36:96:3402:-302.76,-25.6016,0 1/1:98:0,98:0:0:98:3499:-315.103,-29.5009,0 0/1:323:167,156:167:5967:156:5518:-399.489,0,-439.905 0/1:196:71,124:71:2518:124:4370:-334.387,0,-167.811 1/1:295:3,292:3:108:292:10377:-923.693,-78.7287,0 1/1:113:2,111:2:72:111:3939:-347.414,-27.1797,0 chr05 27272354 . C T 68212.6 PASS AB=0.481919;ABP=10.7058;AC=28;AF=0.666667;AN=42;AO=2659;CIGAR=1X;DP=4434;DPB=4434;DPRA=0;EPP=5776.96;EPPR=3857.37;GTI=1;LEN=1;MEANALT=1;MQM=59.9342;MQMR=59.9944;NS=21;NUMALT=1;ODDS=4.83593;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=94739;QR=62401;RO=1775;RPL=1559;RPP=175.063;RPPR=88.9211;RPR=1100;RUN=1;SAF=1559;SAP=175.063;SAR=1100;SRF=1020;SRP=88.9211;SRR=755;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:440:242,198:242:8473:198:7017:-499.103,0,-630.126 0/1:188:98,90:98:3472:90:3209:-232.438,0,-256.099 0/1:193:100,93:100:3530:93:3291:-238.309,0,-259.811 0/1:218:111,107:111:3863:107:3817:-278.102,0,-282.24 0/1:404:215,189:215:7611:189:6737:-484.788,0,-563.418 0/1:151:90,61:90:3168:61:2167:-149.841,0,-239.891 0/1:273:140,133:140:4885:133:4730:-343.655,0,-357.626 0/0:367:366,1:366:12909:1:36:0,-106.88,-1158.04 0/1:345:186,159:186:6559:159:5665:-406.021,0,-486.541 0/1:20:9,11:9:324:11:396:-29.9621,0,-23.4853 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 1/1:307:0,307:0:0:307:10946:-985.029,-92.4162,0 0/1:196:107,89:107:3760:89:3183:-227.673,0,-279.599 1/1:301:1,300:1:36:300:10723:-961.378,-87.0118,0 1/1:162:1,161:1:36:161:5751:-514.107,-45.1686,0 1/1:149:0,149:0:0:149:5306:-477.676,-44.8535,0 0/1:135:65,70:65:2258:70:2485:-183.263,0,-162.842 0/1:147:41,106:41:1413:106:3765:-294.784,0,-83.2119 1/1:310:2,308:2:68:308:10964:-980.129,-86.8616,0 1/1:101:1,100:1:36:100:3583:-319.078,-26.8058,0 chr05 27272355 . G A 42700.2 PASS AB=0.521257;ABP=13.6268;AC=14;AF=0.333333;AN=42;AO=1780;CIGAR=1X;DP=4423;DPB=4423;DPRA=2.05021;EPP=3868.23;EPPR=5740.04;GTI=1;LEN=1;MEANALT=1.0625;MQM=59.9972;MQMR=59.9368;NS=21;NUMALT=1;ODDS=4.43572;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63200;QR=94046;RO=2642;RPL=1026;RPP=93.2655;RPPR=149.378;RPR=754;RUN=1;SAF=1026;SAP=93.2655;SAR=754;SRF=1532;SRP=149.378;SRR=1110;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:437:193,244:193:6908:244:8683:-649.914,0,-490.078 0/1:190:90,100:90:3228:100:3515:-259.365,0,-233.546 0/1:191:94,97:94:3342:97:3446:-252.857,0,-243.497 0/1:216:106,110:106:3748:110:3918:-287.79,0,-272.497 0/1:407:189,218:189:6731:218:7762:-576.093,0,-483.347 0/1:144:61,83:61:2152:83:2967:-223.914,0,-150.597 0/1:276:131,145:131:4666:145:5125:-378.312,0,-337.019 1/1:369:1,367:1:36:367:13025:-1168.47,-107.541,0 0/1:345:157,188:157:5555:188:6684:-497.785,0,-396.129 0/1:21:11,10:11:387:10:360:-26.4227,0,-28.8443 0/0:6:6,0:6:197:0:0:0,-1.80618,-18.0513 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:307:307,0:307:10909:0:0:0,-92.4162,-981.689 0/1:195:88,107:88:3156:107:3800:-283.497,0,-225.545 0/0:299:298,1:298:10595:1:36:0,-86.4097,-949.869 0/0:162:161,1:161:5727:1:36:0,-45.1686,-511.949 0/0:147:147,0:147:5263:0:0:0,-44.2514,-473.806 0/1:136:69,67:69:2420:67:2362:-171.897,0,-177.113 0/1:147:106,41:106:3786:41:1445:-86.0922,0,-296.557 0/0:303:302,1:302:10801:1:36:0,-87.6138,-968.321 0/0:102:102,0:102:3615:0:0:0,-30.7051,-325.556 chr05 27272360 . T C 66308.5 PASS AB=0.470437;ABP=23.6812;AC=28;AF=0.666667;AN=42;AO=2613;CIGAR=1X;DP=4433;DPB=4433;DPRA=0;EPP=5677.07;EPPR=3948.58;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9361;MQMR=59.9857;NS=21;NUMALT=1;ODDS=0.324721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=92549;QR=64932;RO=1817;RPL=1540;RPP=184.248;RPPR=83.1779;RPR=1073;RUN=1;SAF=1540;SAP=184.248;SAR=1073;SRF=1038;SRP=83.1779;SRR=779;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:436:244,191:244:8729:191:6781:-478.896,0,-654.291 0/1:188:100,88:100:3575:88:3110:-223.533,0,-265.364 0/1:196:101,95:101:3636:95:3354:-243.073,0,-268.441 0/1:218:113,105:113:4003:105:3713:-268.749,0,-294.83 0/1:407:222,184:222:7916:184:6504:-462.869,0,-589.757 0/1:152:92,60:92:3277:60:2140:-147.11,0,-249.393 0/1:277:147,130:147:5244:130:4586:-329.496,0,-388.711 0/0:375:374,1:374:13357:1:36:0,-109.288,-1198.33 0/1:349:194,154:194:6947:154:5406:-381.101,0,-520.296 0/1:21:10,11:10:360:11:396:-29.6611,0,-26.4227 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:300:0,300:0:0:300:10659:-959.166,-90.309,0 0/1:195:106,89:106:3812:89:3175:-227.274,0,-284.575 1/1:294:1,293:1:36:293:10446:-936.463,-84.9045,0 1/1:160:1,159:1:36:159:5591:-499.72,-44.5665,0 1/1:143:0,143:0:0:143:5087:-457.973,-43.0473,0 0/1:135:67,68:67:2396:68:2394:-175.076,0,-175.258 0/1:149:43,106:43:1536:106:3753:-293.104,0,-93.6796 1/1:307:2,305:2:72:305:10796:-964.646,-85.5795,0 1/1:104:0,104:0:0:104:3658:-329.423,-31.3071,0 chr05 27297161 . G T 36058.6 PASS AB=0.484407;ABP=6.05758;AC=28;AF=0.666667;AN=42;AO=1433;CIGAR=1X;DP=2287;DPB=2287;DPRA=1.04952;EPP=3088.73;EPPR=1827.14;GTI=0;LEN=1;MEANALT=1.1;MQM=59.8883;MQMR=59.9354;NS=21;NUMALT=1;ODDS=1.06038;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51093;QR=30191;RO=852;RPL=992;RPP=463.067;RPPR=152.271;RPR=441;RUN=1;SAF=995;SAP=473.141;SAR=438;SRF=550;SRP=159.764;SRR=302;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:76,72:76:2700:72:2580:-187.864,0,-198.689 0/1:96:50,46:50:1772:46:1648:-119.706,0,-130.862 0/1:63:30,33:30:1057:33:1179:-87.4523,0,-76.4741 0/1:108:59,49:59:2088:49:1737:-124.101,0,-155.677 0/1:220:117,103:117:4172:103:3687:-265.8,0,-309.435 0/1:91:45,46:45:1581:46:1656:-121.931,0,-115.182 0/1:144:81,63:81:2812:63:2256:-159.955,0,-209.967 0/0:104:104,0:104:3679:0:0:0,-31.3071,-331.314 0/1:191:103,88:103:3666:88:3112:-222.805,0,-272.637 0/1:13:4,9:4:144:9:324:-25.5925,0,-9.40023 1/1:6:0,6:0:0:6:202:-18.5093,-1.80618,0 1/1:43:1,42:1:36:42:1486:-130.434,-9.34602,0 1/1:96:0,96:0:0:96:3424:-308.372,-28.8989,0 0/1:110:52,58:52:1849:58:2036:-150.351,0,-133.575 1/1:232:0,231:0:0:231:8292:-745.924,-69.5379,0 1/1:101:1,99:1:36:99:3548:-315.929,-26.8646,0 1/1:71:0,71:0:0:71:2531:-228.041,-21.3731,0 0/1:140:81,59:81:2903:59:2094:-146.584,0,-219.361 0/1:119:46,73:46:1624:73:2545:-193.473,0,-110.553 1/1:96:2,94:2:72:94:3380:-297.578,-22.0622,0 1/1:95:0,95:0:0:95:3376:-303.934,-28.5979,0 chr05 27428758 . C G 6959.74 PASS AB=0.430161;ABP=37.2841;AC=15;AF=0.357143;AN=42;AO=421;CIGAR=1X;DP=1210;DPB=1210;DPRA=1.35362;EPP=917.2;EPPR=1714.13;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9952;MQMR=60;NS=21;NUMALT=1;ODDS=5.62287;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14984;QR=28097;RO=788;RPL=421;RPP=917.2;RPPR=1714.13;RPR=0;RUN=1;SAF=0;SAP=917.2;SAR=421;SRF=0;SRP=1714.13;SRR=788;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:32,28:32:1140:28:988:-71.1721,0,-84.8474 0/1:89:54,35:54:1936:35:1260:-86.9134,0,-147.725 0/1:54:24,30:24:856:30:1067:-80.0856,0,-61.1055 0/1:89:52,37:52:1849:37:1316:-91.9501,0,-139.896 0/1:48:22,26:22:788:26:936:-70.11,0,-56.7954 0/1:85:50,35:50:1762:35:1248:-87.0368,0,-133.272 0/1:49:24,25:24:864:25:892:-65.8492,0,-63.3321 1/1:71:0,70:0:0:70:2484:-223.455,-21.0721,0 0/1:112:71,41:71:2473:41:1468:-98.7007,0,-189.102 0/1:4:2,2:2:68:2:72:-5.6326,0,-5.25359 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/1:83:54,29:54:1936:29:1024:-67.4871,0,-149.531 0/0:95:95,0:95:3385:0:0:0,-28.5978,-304.865 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/1:15:10,5:10:360:5:180:-12.0366,0,-28.2289 0/1:55:21,34:21:756:34:1204:-92.1088,0,-51.8106 0/1:66:45,21:45:1616:21:737:-46.7826,0,-125.862 0/0:54:51,3:51:1824:3:108:0,-6.18045,-154.366 0/0:52:52,0:52:1864:0:0:0,-15.6536,-168.039 chr05 27460218 . T C 9564.82 PASS AB=0.490385;ABP=3.84548;AC=15;AF=0.357143;AN=42;AO=553;CIGAR=1X;DP=1462;DPB=1462;DPRA=1.63056;EPP=1160.8;EPPR=1914.37;GTI=0;LEN=1;MEANALT=1.06667;MQM=58.6275;MQMR=59.8579;NS=21;NUMALT=1;ODDS=4.92163;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19704;QR=32511;RO=908;RPL=548;RPP=1160.8;RPPR=1914.37;RPR=5;RUN=1;SAF=0;SAP=1203.83;SAR=553;SRF=0;SRP=1974.71;SRR=908;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:25,23:25:892:23:812:-58.8907,0,-66.1502 0/1:41:29,12:29:1044:12:424:-26.1475,0,-81.9314 0/1:78:34,44:34:1224:44:1571:-117.777,0,-86.9691 0/1:106:49,57:49:1756:57:2040:-151.921,0,-126.397 0/1:198:88,110:88:3152:110:3936:-294.267,0,-224.273 0/1:81:48,33:48:1724:33:1176:-81.6395,0,-131.055 0/1:143:73,70:73:2620:70:2480:-179.456,0,-192.96 1/1:42:0,42:0:0:42:1504:-135.569,-12.6433,0 0/1:124:68,56:68:2425:56:1983:-140.869,0,-181.12 0/1:7:4,3:4:140:3:108:-7.93859,0,-10.8374 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/0:66:66,0:66:2353:0:0:0,-19.868,-212.027 0/1:72:39,32:39:1388:32:1148:-81.8731,0,-103.483 0/0:104:104,0:104:3709:0:0:0,-31.3071,-334.011 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.41 0/1:34:15,19:15:540:19:671:-50.4583,0,-38.7015 0/1:71:32,39:32:1152:39:1383:-103.247,0,-82.5812 0/1:37:25,12:25:900:12:432:-28.065,0,-70.1653 0/0:92:91,1:91:3244:1:36:0,-24.0965,-288.584 0/0:54:54,0:54:1944:0:0:0,-16.2556,-175.234 chr05 27464195 . C T 18017.1 PASS AB=0.485226;ABP=6.66769;AC=15;AF=0.357143;AN=42;AO=1050;CIGAR=1X;DP=2848;DPB=2848;DPRA=1.73819;EPP=2257.07;EPPR=3833.8;GTI=0;LEN=1;MEANALT=1.0625;MQM=49.8905;MQMR=59.9577;NS=21;NUMALT=1;ODDS=6.61755;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37482;QR=64120;RO=1796;RPL=1047;RPP=2257.07;RPPR=3833.8;RPR=3;RUN=1;SAF=0;SAP=2283.06;SAR=1050;SRF=0;SRP=3902.97;SRR=1796;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:102,74:102:3648:74:2644:-183.636,0,-275.543 0/1:107:71,36:71:2548:36:1296:-84.4586,0,-197.357 0/1:123:66,57:66:2347:57:2029:-144.682,0,-174.034 0/1:213:113,100:113:4044:100:3592:-257.195,0,-300.026 0/1:303:150,153:150:5356:153:5435:-392.401,0,-390.962 0/1:171:62,109:62:2212:109:3896:-297.288,0,-147.868 0/1:161:78,83:78:2783:83:2960:-216.333,0,-202.245 1/1:109:0,109:0:0:109:3904:-349.784,-32.8123,0 0/1:210:92,118:92:3284:118:4214:-313.405,0,-232.564 0/1:4:3,1:3:108:1:36:-2.38236,0,-8.87105 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:264:263,0:263:9394:0:0:0,-79.1709,-845.064 0/1:145:70,75:70:2476:75:2659:-193.873,0,-179.443 0/0:226:223,2:223:7984:2:72:0,-61.2833,-711.753 0/0:90:90,0:90:3194:0:0:0,-27.0927,-287.684 0/1:146:83,63:83:2950:63:2245:-157.306,0,-221.783 0/1:90:58,32:58:2080:32:1136:-74.4025,0,-160.378 0/1:80:45,35:45:1582:35:1256:-87.958,0,-118.587 0/0:150:147,3:147:5263:3:108:0,-35.1013,-463.733 0/0:59:59,0:59:2115:0:0:0,-17.7608,-190.618 chr05 27485686 . TTATTTAT TT,TTT 15426 PASS AB=0.537615,0.462385;ABP=9.708,9.708;AC=27,15;AF=0.642857,0.357143;AN=42;AO=497,294;CIGAR=1M6D1M,2M5D1M;DP=792;DPB=235.375;DPRA=1.08143,2.21672;EPP=1082.23,641.423;EPPR=0;GTI=0;LEN=6,5;MEANALT=1.85,2;MQM=51.7022,52.7313;MQMR=0;NS=21;NUMALT=2;ODDS=4.9497;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17157,10250;QR=0;RO=0;RPL=0,0;RPP=1082.23,641.423;RPPR=0;RPR=497,294;RUN=1,1;SAF=0,0;SAP=1082.23,641.423;SAR=497,294;SRF=0;SRP=0;SRR=0;TYPE=del,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,19,18:0:0:19,18:668,621:-105.008,-50.7415,-45.022,-54.614,0,-49.1954 1/2:29:0,11,18:0:0:11,18:388,621:-82.0343,-50.5417,-47.2304,-31.8409,0,-26.4224 1/2:77:0,41,36:0:0:41,36:1420,1253:-217.137,-102.127,-89.7846,-115.357,0,-104.52 1/2:39:0,25,14:0:0:25,14:853,500:-110.063,-41.0738,-33.5481,-69.3397,0,-65.1253 1/2:54:0,30,24:0:0:30,24:1049,821:-152.069,-66.9137,-57.8828,-85.5002,0,-78.2754 1/2:27:0,14,13:0:0:14,13:470,456:-74.9728,-37.2962,-33.0818,-38.0177,0,-34.1044 1/2:64:0,26,38:0:0:26,38:886,1341:-180.496,-108.847,-101.021,-71.993,0,-60.5539 2/2:35:0,0,35:0:0:0,35:0,1232:-110.611,-110.611,-110.611,-10.5361,-10.5361,0 1/2:56:0,40,16:0:0:40,16:1375,543:-155.165,-43.7934,-31.7522,-111.709,0,-106.893 1/2:7:0,5,2:0:0:5,2:180,72:-20.8483,-6.22164,-4.71649,-14.9856,0,-14.3835 1/1:5:0,5,0:0:0:5,0:165,0:-15.1224,-1.50515,0,-15.1224,-1.50515,-15.1224 1/1:19:0,19,0:0:0:19,0:664,0:-59.9136,-5.71957,0,-59.9136,-5.71957,-59.9136 1/1:27:0,27,0:0:0:27,0:929,0:-83.7847,-8.12781,0,-83.7847,-8.12781,-83.7847 1/2:45:0,27,18:0:0:27,18:922,621:-125.045,-50.4975,-42.3697,-74.8898,0,-69.4713 1/1:70:0,67,2:0:0:67,2:2307,72:-206.565,-20.169,0,-200.763,-14.2856,-200.161 1/1:15:0,14,1:0:0:14,1:485,32:-43.3637,-4.21442,0,-40.7876,-1.31682,-40.4865 1/2:18:0,9,9:0:0:9,9:316,324:-52.352,-26.7826,-24.0733,-25.9238,0,-23.2146 1/2:61:0,26,35:0:0:26,35:897,1224:-171.976,-99.6914,-91.8646,-72.6295,0,-62.0934 1/2:31:0,20,11:0:0:20,11:697,373:-86.8251,-30.347,-24.3264,-56.8184,0,-53.5071 1/1:51:0,47,4:0:0:47,4:1637,144:-146.466,-14.1484,0,-134.74,-2.06427,-133.536 1/1:25:0,25,0:0:0:25,0:849,0:-76.5004,-7.52575,0,-76.5004,-7.52575,-76.5004 chr05 27488647 . GTC ATT,GTT 27826.6 PASS AB=0.533473,0.465481;ABP=12.314,12.9046;AC=27,15;AF=0.642857,0.357143;AN=42;AO=900,503;CIGAR=1X1M1X,2M1X;DP=1405;DPB=1405.33;DPRA=1.18246,1.30303;EPP=1957.34,1095.26;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.8,2;MQM=33.3622,56.2127;MQMR=0;NS=21;NUMALT=2;ODDS=7.84663;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31268,17768;QR=0;RO=0;RPL=0,178;RPP=1957.34,96.2973;RPPR=0;RPR=900,325;RUN=1,1;SAF=0,178;SAP=1957.34,96.2973;SAR=900,325;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,44,56:0:0:44,56:1536,1989:-270.741,-161.915,-148.669,-109.155,0,-92.2972 1/2:56:0,26,30:0:0:26,30:887,1064:-149.378,-87.0408,-79.214,-62.6623,0,-53.6314 1/2:52:0,32,20:0:0:32,20:1104,720:-135.744,-58.8834,-49.2504,-77.1965,0,-71.1759 1/2:53:0,21,32:0:0:21,32:737,1133:-143.811,-92.1627,-85.8411,-51.9729,0,-42.3399 1/2:141:0,76,64:0:0:76,64:2646,2225:-365.086,-180.309,-157.431,-184.747,0,-165.481 1/2:44:0,30,14:0:0:30,14:1054,492:-115.881,-40.3908,-31.3599,-75.8292,0,-71.6148 1/2:101:0,81,20:0:0:81,20:2813,689:-257.122,-56.2828,-31.8993,-201.177,0,-195.156 2/2:57:0,0,57:0:0:0,57:0,2005:-180.699,-180.699,-180.699,-17.1587,-17.1587,0 1/2:120:0,61,59:0:0:61,59:2078,2087:-321.445,-169.783,-151.42,-151.994,0,-134.233 1/2:10:0,5,5:0:0:5,5:180,176:-27.5025,-14.6799,-13.1747,-13.1579,0,-11.6528 1/1:4:0,4,0:0:0:4,0:144,0:-11.7942,-1.20412,0,-11.7942,-1.20412,-11.7942 1/1:19:0,19,0:0:0:19,0:630,0:-51.9345,-5.71957,0,-51.9345,-5.71957,-51.9345 1/1:101:0,100,0:0:0:100,0:3450,0:-270.947,-30.103,0,-270.947,-30.103,-270.947 1/2:68:0,27,41:0:0:27,41:930,1453:-183.238,-118.267,-110.139,-65.2927,0,-52.9504 1/1:107:0,107,0:0:0:107,0:3745,0:-294.324,-32.2102,0,-294.324,-32.2102,-294.324 1/1:39:0,39,0:0:0:39,0:1364,0:-110.118,-11.7402,0,-110.118,-11.7402,-110.118 1/2:49:0,19,30:0:0:19,30:665,1080:-136.951,-88.3948,-82.6752,-48.8898,0,-39.8589 1/2:70:0,32,38:0:0:32,38:1113,1323:-186.979,-107.926,-98.2931,-79.3792,0,-67.94 1/2:92:0,56,36:0:0:56,36:1954,1296:-241.169,-105.697,-88.8389,-135.809,0,-124.972 1/1:62:0,61,1:0:0:61,1:2174,36:-171.545,-18.3628,0,-168.606,-15.0656,-168.305 1/1:60:0,60,0:0:0:60,0:2064,0:-167.483,-18.0618,0,-167.483,-18.0618,-167.483 chr05 27527957 . T C 20475.8 PASS AB=0.518841;ABP=6.20142;AC=28;AF=0.666667;AN=42;AO=1048;CIGAR=1X;DP=1613;DPB=1613;DPRA=0;EPP=2278.71;EPPR=1229.89;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.07224;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37113;QR=20230;RO=565;RPL=0;RPP=2278.71;RPPR=1229.89;RPR=1048;RUN=1;SAF=0;SAP=2278.71;SAR=1048;SRF=0;SRP=1229.89;SRR=565;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:89,79:89:3188:79:2782:-200.047,0,-236.571 0/1:55:26,29:26:932:29:1023:-75.8245,0,-67.6422 0/1:67:32,35:32:1143:35:1252:-92.8161,0,-83.0097 0/1:62:28,34:28:987:34:1224:-91.8032,0,-70.4792 0/1:176:71,105:71:2544:105:3728:-282.74,0,-176.229 0/1:60:24,36:24:856:36:1274:-96.8997,0,-59.2993 0/1:99:50,49:50:1800:49:1744:-127.442,0,-132.48 0/0:63:62,1:62:2220:1:36:0,-15.3666,-196.466 0/1:142:76,66:76:2724:66:2336:-167.752,0,-202.657 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:25:1,24:1:36:24:864:-74.4843,-3.92748,0 1/1:62:0,62:0:0:62:2197:-197.994,-18.6639,0 0/1:89:52,37:52:1864:37:1328:-93.0306,0,-141.248 1/1:137:0,137:0:0:137:4841:-435.845,-41.2411,0 1/1:70:1,69:1:36:69:2465:-218.505,-17.4738,0 1/1:61:0,61:0:0:61:2139:-192.773,-18.3628,0 0/1:94:43,51:43:1540:51:1777:-131.914,0,-110.596 0/1:19:5,14:5:180:14:500:-39.6166,0,-10.8325 1/1:94:2,92:2:72:92:3239:-284.896,-21.4601,0 1/1:61:1,60:1:36:60:2112:-186.749,-14.7646,0 chr05 27569411 . G A 9666.5 PASS AB=0.444536;ABP=35.5289;AC=14;AF=0.333333;AN=42;AO=600;CIGAR=1X;DP=1964;DPB=1964;DPRA=2.37939;EPP=1305.89;EPPR=2964.9;GTI=0;LEN=1;MEANALT=1;MQM=59.99;MQMR=59.9971;NS=21;NUMALT=1;ODDS=13.6568;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21184;QR=48304;RO=1364;RPL=0;RPP=1305.89;RPPR=2964.9;RPR=600;RUN=1;SAF=0;SAP=1305.89;SAR=600;SRF=0;SRP=2964.9;SRR=1364;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:67,47:67:2366:47:1636:-113.205,0,-178.881 0/1:91:56,35:56:1991:35:1223:-82.9772,0,-152.07 0/1:94:57,37:57:2032:37:1317:-90.533,0,-154.856 0/1:108:60,48:60:2130:48:1710:-121.673,0,-159.456 0/1:214:110,104:110:3864:104:3680:-266.981,0,-283.537 0/1:37:15,22:15:536:22:792:-60.4676,0,-37.4367 0/1:164:97,67:97:3384:67:2340:-161.487,0,-255.409 1/1:55:0,55:0:0:55:1928:-173.793,-16.5567,0 0/1:128:55,73:55:1962:73:2612:-196.796,0,-138.322 0/1:12:6,6:6:216:6:195:-14.2568,0,-16.1782 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5997 0/0:61:61,0:61:2158:0:0:0,-18.3628,-194.484 0/1:93:69,24:69:2420:24:835:-47.4692,0,-190.057 0/0:239:238,1:238:8459:1:36:0,-68.3479,-757.717 0/0:77:77,0:77:2741:0:0:0,-23.1793,-246.931 0/0:128:127,1:127:4494:1:36:0,-34.9336,-401.032 0/1:93:39,54:39:1370:54:1908:-143.995,0,-95.6012 0/1:69:45,24:45:1616:24:864:-57.3115,0,-124.959 0/0:97:95,2:95:3373:2:72:0,-22.3632,-296.949 0/0:57:57,0:57:2012:0:0:0,-17.1587,-181.351 chr05 27570350 . G A 31864.2 PASS AB=0.496884;ABP=3.15917;AC=28;AF=0.666667;AN=42;AO=1626;CIGAR=1X;DP=2655;DPB=2655;DPRA=0.926103;EPP=3533.82;EPPR=2185.64;GTI=1;LEN=1;MEANALT=1;MQM=59.5418;MQMR=59.9485;NS=21;NUMALT=1;ODDS=0.597673;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58175;QR=36718;RO=1029;RPL=0;RPP=3533.82;RPPR=2185.64;RPR=1626;RUN=1;SAF=1626;SAP=3533.82;SAR=0;SRF=1029;SRP=2237.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:162:86,76:86:3051:76:2712:-195.177,0,-225.783 0/1:130:63,67:63:2243:67:2396:-176.673,0,-162.999 0/1:134:76,58:76:2712:58:2079:-147.036,0,-203.986 0/1:246:131,115:131:4654:115:4120:-296.925,0,-344.971 0/1:242:115,127:115:4120:127:4500:-331.99,0,-298.135 0/1:106:56,50:56:1985:50:1800:-130.357,0,-147.011 0/1:158:81,77:81:2894:77:2764:-201.408,0,-213.132 0/0:136:136,0:136:4859:0:0:0,-40.9401,-437.464 0/1:269:144,125:144:5149:125:4500:-324.181,0,-382.572 0/1:9:4,5:4:144:5:176:-13.4757,0,-10.6043 1/1:11:0,11:0:0:11:396:-35.9663,-3.31133,0 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 1/1:160:0,160:0:0:160:5708:-513.657,-48.1648,0 0/1:102:43,59:43:1540:59:2112:-159.637,0,-108.176 1/1:149:2,147:2:72:147:5265:-467.116,-38.0187,0 1/1:127:0,127:0:0:127:4515:-406.106,-38.2308,0 1/1:113:0,113:0:0:113:4044:-364.087,-34.0164,0 0/1:96:57,39:57:2048:39:1400:-97.3819,0,-155.693 0/1:111:32,79:32:1143:79:2836:-222.045,0,-69.7644 1/1:97:3,94:3:104:94:3372:-293.988,-19.4971,0 1/1:64:0,64:0:0:64:2292:-206.155,-19.2659,0 chr05 27595169 . GTAT ATAT,ATAC 64155.4 PASS AB=0.488488,0.509009;ABP=5.31002,4.41882;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1904,1186;CIGAR=1X3M,1X2M1X;DP=3097;DPB=3097;DPRA=0.882831,1.4236;EPP=4137.49,2578.38;EPPR=0;GTI=0;LEN=1,4;MEANALT=2,2.28571;MQM=60,59.9899;MQMR=0;NS=21;NUMALT=2;ODDS=0.622107;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67840,41529;QR=0;RO=0;RPL=0,0;RPP=4137.49,2578.38;RPPR=0;RPR=1904,1186;RUN=1,1;SAF=0,0;SAP=4137.49,2578.38;SAR=1904,1186;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,60,51:0:0:60,51:2151,1771:-319.458,-144.015,-125.953,-175.493,0,-160.14 1/2:160:0,83,77:0:0:83,77:2971,2697:-462.076,-219.793,-194.807,-242.637,0,-219.457 1/2:133:0,72,61:0:0:72,61:2558,2150:-383.846,-175.404,-153.73,-208.795,0,-190.432 1/2:199:0,80,119:0:0:80,119:2829,4145:-567.836,-337.42,-313.337,-230.767,0,-194.945 1/2:386:0,166,220:0:0:166,220:5932,7736:-1113.72,-630.058,-580.087,-484.019,0,-417.792 1/2:188:0,94,92:0:0:94,92:3340,3243:-536.285,-264.118,-235.821,-272.238,0,-244.543 1/2:241:0,131,109:0:0:131,109:4663,3791:-688.338,-308.29,-268.855,-380.109,0,-347.296 2/2:166:0,0,166:0:0:0,166:0,5839:-525.631,-525.631,-525.631,-49.971,-49.971,0 1/2:223:0,108,115:0:0:108,115:3823,4024:-639.141,-327.736,-295.225,-311.757,0,-277.138 1/2:25:0,11,14:0:0:11,14:396,498:-73.254,-40.9406,-37.6292,-32.6714,0,-28.457 1/1:14:0,14,0:0:0:14,0:500,0:-45.3362,-4.21442,0,-45.3362,-4.21442,-45.3362 1/1:86:0,86,0:0:0:86,0:3066,0:-276.168,-25.8886,0,-276.168,-25.8886,-276.168 1/1:270:0,269,0:0:0:269,0:9583,0:-862.155,-80.9771,0,-862.155,-80.9771,-862.155 1/2:179:0,85,94:0:0:85,94:3014,3253:-510.252,-264.699,-239.111,-245.904,0,-217.607 1/1:135:0,135,0:0:0:135,0:4799,0:-432.066,-40.6391,0,-432.066,-40.6391,-432.066 1/1:111:0,110,0:0:0:110,0:3948,0:-355.23,-33.1133,0,-355.23,-33.1133,-355.23 1/1:150:0,150,0:0:0:150,0:5367,0:-483.162,-45.1545,0,-483.162,-45.1545,-483.162 1/2:96:0,48,48:0:0:48,48:1695,1687:-275.7,-137.666,-123.216,-138.386,0,-123.937 1/2:55:0,38,17:0:0:38,17:1368,590:-159.938,-48.3067,-36.8676,-111.982,0,-106.864 1/1:128:0,125,3:0:0:125,3:4458,105:-401.041,-37.6288,0,-392.498,-28.7359,-391.595 1/1:39:0,39,0:0:0:39,0:1379,0:-124.408,-11.7402,0,-124.408,-11.7402,-124.408 chr05 27601402 . G A 4049.09 PASS AB=0.44664;ABP=15.5242;AC=14;AF=0.333333;AN=42;AO=250;CIGAR=1X;DP=793;DPB=793;DPRA=1.24013;EPP=545.878;EPPR=1182.12;GTI=0;LEN=1;MEANALT=1;MQM=59.528;MQMR=59.9834;NS=21;NUMALT=1;ODDS=1.66149;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8927;QR=19426;RO=543;RPL=0;RPP=545.878;RPPR=1182.12;RPR=250;RUN=1;SAF=0;SAP=545.878;SAR=250;SRF=0;SRP=1182.12;SRR=543;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:10,17:10:351:17:604:-46.5622,0,-23.7989 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:43:25,18:25:900:18:644:-45.3463,0,-68.3767 0/1:50:33,17:33:1188:17:604:-39.6391,0,-92.1747 0/1:64:41,23:41:1463:23:824:-55.1612,0,-112.699 0/1:22:9,13:9:309:13:464:-35.4748,0,-21.5181 0/1:48:26,22:26:921:22:777:-55.7447,0,-68.7558 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 0/1:76:40,36:40:1432:36:1276:-92.202,0,-106.299 0/1:13:5,8:5:180:8:288:-22.354,0,-12.6387 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/1:57:27,30:27:968:30:1080:-80.2286,0,-70.2753 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:18:18,0:18:640:0:0:0,-5.41854,-57.9293 0/1:47:23,24:23:819:24:864:-63.9308,0,-59.8832 0/1:50:34,16:34:1220:16:570:-36.566,0,-95.0553 0/0:64:64,0:64:2295:0:0:0,-19.2659,-206.81 0/0:28:28,0:28:996:0:0:0,-8.42884,-89.9549 chr05 27608446 . T C 9522.92 PASS AB=0.462786;ABP=15.6164;AC=14;AF=0.333333;AN=42;AO=569;CIGAR=1X;DP=1719;DPB=1719;DPRA=1.74206;EPP=1238.58;EPPR=2500.2;GTI=0;LEN=1;MEANALT=1;MQM=59.9174;MQMR=59.9896;NS=21;NUMALT=1;ODDS=10.8485;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20073;QR=40443;RO=1150;RPL=0;RPP=1238.58;RPPR=2500.2;RPR=569;RUN=1;SAF=0;SAP=1238.58;SAR=569;SRF=0;SRP=2500.2;SRR=1150;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:77,65:77:2722:65:2309:-165.317,0,-202.478 0/1:99:44,55:44:1556:55:1929:-144.081,0,-110.53 0/1:110:63,47:63:2240:47:1675:-117.921,0,-168.751 0/1:51:21,30:21:744:30:1054:-79.8167,0,-51.9318 0/1:191:94,97:94:3296:97:3447:-252.945,0,-239.361 0/1:55:30,25:30:1060:25:877:-62.6886,0,-79.1546 0/1:99:53,46:53:1850:46:1607:-115.114,0,-136.977 1/1:82:0,82:0:0:82:2861:-257.723,-24.6845,0 0/1:88:55,33:55:1952:33:1163:-78.4787,0,-149.465 0/1:20:8,12:8:284:12:432:-33.2006,0,-19.8828 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:43:43,0:43:1524:0:0:0,-12.9443,-137.453 0/0:90:90,0:90:3158:0:0:0,-27.0927,-284.446 0/1:63:38,25:38:1339:25:888:-61.2741,0,-101.842 0/0:209:208,1:208:7326:1:36:0,-59.317,-655.802 0/0:64:64,0:64:2259:0:0:0,-19.2659,-203.572 0/0:78:78,0:78:2684:0:0:0,-23.4803,-241.806 0/1:86:49,37:49:1705:37:1295:-90.9604,0,-127.845 0/1:44:31,13:31:1065:13:468:-29.212,0,-82.9096 0/0:59:58,1:58:2043:1:32:0,-14.5615,-180.942 0/0:39:39,0:39:1388:0:0:0,-11.7402,-125.219 chr05 27608482 . G A 9765.66 PASS AB=0.443845;ABP=33.4948;AC=14;AF=0.333333;AN=42;AO=580;CIGAR=1X;DP=1856;DPB=1856;DPRA=1.66797;EPP=1262.46;EPPR=2773.81;GTI=0;LEN=1;MEANALT=1;MQM=59.9155;MQMR=59.9843;NS=21;NUMALT=1;ODDS=14.6719;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20685;QR=45675;RO=1276;RPL=580;RPP=1262.46;RPPR=2773.81;RPR=0;RUN=1;SAF=0;SAP=1262.46;SAR=580;SRF=0;SRP=2773.81;SRR=1276;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:92,66:92:3300:66:2357:-164.818,0,-249.656 0/1:103:48,55:48:1705:55:1968:-146.389,0,-122.728 0/1:110:64,46:64:2296:46:1644:-115.135,0,-173.788 0/1:55:24,31:24:860:31:1093:-82.121,0,-61.1652 0/1:200:101,99:101:3620:99:3540:-258.601,0,-265.795 0/1:61:35,26:35:1256:26:928:-65.4754,0,-94.9825 0/1:108:62,46:62:2211:46:1644:-115.737,0,-166.735 1/1:84:0,84:0:0:84:2999:-270.13,-25.2865,0 0/1:94:61,33:61:2183:33:1180:-78.1249,0,-168.438 0/1:21:9,12:9:309:12:432:-32.8996,0,-21.8191 0/0:7:7,0:7:237:0:0:0,-2.10721,-21.6591 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.399 0/0:97:97,0:97:3461:0:0:0,-29.1999,-311.701 0/1:72:43,29:43:1536:29:1006:-69.1724,0,-116.857 0/0:237:236,1:236:8461:1:36:0,-67.7458,-757.89 0/0:73:73,0:73:2624:0:0:0,-21.9752,-236.406 0/0:89:89,0:89:3192:0:0:0,-26.7917,-287.503 0/1:88:50,38:50:1800:38:1354:-95.6688,0,-135.792 0/1:43:30,13:30:1072:13:468:-29.513,0,-83.8482 0/0:63:62,1:62:2212:1:36:0,-15.3666,-195.747 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 chr05 27617488 . A G 5394.97 PASS AB=0.476449;ABP=5.66957;AC=14;AF=0.333333;AN=42;AO=318;CIGAR=1X;DP=931;DPB=931;DPRA=1.1529;EPP=693.539;EPPR=1334.12;GTI=0;LEN=1;MEANALT=1;MQM=59.434;MQMR=59.8532;NS=21;NUMALT=1;ODDS=1.57513;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11261;QR=21826;RO=613;RPL=0;RPP=693.539;RPPR=1334.12;RPR=318;RUN=1;SAF=0;SAP=693.539;SAR=318;SRF=0;SRP=1334.12;SRR=613;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:20,24:20:707:24:827:-61.0876,0,-50.7093 0/1:15:9,6:9:324:6:216:-15.2668,0,-24.9904 0/1:28:15,13:15:532:13:460:-33.3065,0,-39.7842 0/1:22:8,14:8:284:14:504:-39.0754,0,-19.2807 0/1:79:41,38:41:1463:38:1345:-97.4702,0,-108.184 0/1:33:16,17:16:572:17:603:-44.6622,0,-41.8794 0/1:64:35,29:35:1256:29:1040:-74.6239,0,-94.0794 1/1:55:0,55:0:0:55:1951:-175.849,-16.5567,0 0/1:67:17,50:17:600:50:1778:-140.131,0,-34.1578 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8075 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:83:83,0:83:2968:0:0:0,-24.9855,-267.353 0/1:32:19,13:19:680:13:455:-31.649,0,-51.8962 0/0:43:43,0:43:1531:0:0:0,-12.9443,-138.08 0/0:30:30,0:30:1064:0:0:0,-9.0309,-96.0671 0/0:56:56,0:56:1991:0:0:0,-16.8577,-179.464 0/1:69:36,33:36:1271:33:1154:-83.3857,0,-93.921 0/1:94:69,25:69:2463:25:892:-52.3005,0,-193.199 0/0:42:42,0:42:1489:0:0:0,-12.6433,-134.144 0/0:51:51,0:51:1807:0:0:0,-15.3525,-162.721 chr05 27636482 . T C 14034 PASS AB=0.502762;ABP=3.05829;AC=28;AF=0.666667;AN=42;AO=722;CIGAR=1X;DP=1100;DPB=1100;DPRA=3.00556;EPP=1570.81;EPPR=823.827;GTI=0;LEN=1;MEANALT=1;MQM=59.2701;MQMR=59.4683;NS=21;NUMALT=1;ODDS=6.24334;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25476;QR=13289;RO=378;RPL=0;RPP=1570.81;RPPR=823.827;RPR=722;RUN=1;SAF=0;SAP=1570.81;SAR=722;SRF=0;SRP=823.827;SRR=378;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:24,16:24:847:16:555:-38.1929,0,-64.4938 0/1:29:18,11:18:644:11:388:-26.5017,0,-49.5607 0/1:62:21,41:21:732:41:1435:-110.753,0,-47.5127 0/1:56:34,22:34:1186:22:767:-52.4801,0,-90.1494 0/1:149:73,76:73:2585:76:2707:-198.896,0,-187.943 0/1:27:20,7:20:712:7:252:-14.9002,0,-56.2788 0/1:96:40,56:40:1412:56:1996:-151.008,0,-98.4418 0/0:18:18,0:18:636:0:0:0,-5.41854,-57.568 0/1:95:47,48:47:1645:48:1687:-123.457,0,-119.7 0/1:16:9,7:9:303:7:252:-18.2109,0,-22.7803 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:57:0,57:0:0:57:2028:-182.704,-17.1587,0 0/1:51:26,25:26:896:25:896:-65.6078,0,-65.6009 1/1:107:0,107:0:0:107:3785:-340.745,-32.2102,0 1/1:32:0,32:0:0:32:1132:-102.132,-9.63296,0 1/1:48:0,48:0:0:48:1679:-151.35,-14.4494,0 0/1:56:32,24:32:1132:24:830:-58.1117,0,-85.299 0/1:47:16,31:16:559:31:1090:-84.1719,0,-36.4888 1/1:66:0,66:0:0:66:2317:-208.41,-19.868,0 1/1:35:0,35:0:0:35:1216:-109.743,-10.5361,0 chr05 27670668 . G C 34548.9 PASS AB=0.550874;ABP=31.2912;AC=28;AF=0.666667;AN=42;AO=1368;CIGAR=1X;DP=2111;DPB=2111;DPRA=0.546328;EPP=2973.58;EPPR=1607.73;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9781;MQMR=60;NS=21;NUMALT=1;ODDS=19.4555;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48048;QR=26009;RO=739;RPL=886;RPP=262.089;RPPR=131.362;RPR=482;RUN=1;SAF=886;SAP=262.089;SAR=482;SRF=474;SRP=131.362;SRR=265;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:27,37:27:920:37:1306:-98.5749,0,-63.8394 0/1:39:17,22:17:608:22:765:-57.4284,0,-43.3119 0/1:102:63,39:63:2225:39:1350:-91.0888,0,-169.808 0/1:145:60,85:60:2105:85:3005:-227.035,0,-146.069 0/1:187:90,97:90:3182:97:3395:-249.458,0,-230.31 0/1:34:9,24:9:315:24:847:-66.2514,0,-18.3944 0/1:105:49,53:49:1748:53:1849:-135.621,0,-126.54 0/0:177:177,0:177:6228:0:0:0,-53.2823,-560.622 0/1:154:81,73:81:2863:73:2573:-185.458,0,-211.548 0/1:15:10,5:10:352:5:180:-12.0366,0,-27.5027 1/1:25:0,25:0:0:25:866:-78.2514,-7.52575,0 1/1:44:0,44:0:0:44:1559:-140.601,-13.2453,0 1/1:181:0,181:0:0:181:6278:-565.121,-54.4864,0 0/1:143:55,88:55:1941:88:3123:-238.251,0,-131.917 1/1:116:0,116:0:0:116:4110:-370.083,-34.9195,0 1/1:35:0,35:0:0:35:1245:-112.353,-10.5361,0 1/1:42:0,42:0:0:42:1485:-133.941,-12.6433,0 0/1:135:57,78:57:1979:78:2737:-205.932,0,-137.74 0/1:135:43,92:43:1507:92:3201:-247.674,0,-95.2806 1/1:174:0,174:0:0:174:6094:-548.566,-52.3792,0 1/1:59:1,58:1:36:58:2080:-183.872,-14.1625,0 chr05 27692292 . AAA CAG,CAA 51156.2 PASS AB=0.511948,0.486604;ABP=4.72263,5.1629;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1577,719;CIGAR=1X1M1X,1X2M;DP=2299;DPB=2299;DPRA=2.44891,1.00065;EPP=3366.89,749.009;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=1.75,2;MQM=59.9182,58.8387;MQMR=60;NS=21;NUMALT=2;ODDS=10.7715;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55752,25679;QR=28;RO=1;RPL=7,608;RPP=3366.89,749.009;RPPR=5.18177;RPR=1570,111;RUN=1,1;SAF=1577,719;SAP=3427.42,1564.3;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:118:0,48,69:0:0:48,69:1688,2450:-337.023,-199.621,-185.171,-137.397,0,-116.625 1/2:53:0,33,20:0:0:33,20:1158,720:-153.174,-58.938,-49.004,-94.5917,0,-88.5711 1/2:48:0,23,25:0:0:23,25:811,900:-139.825,-73.7953,-66.8716,-66.386,0,-58.8602 1/2:33:0,7,26:0:0:7,26:247,932:-96.4805,-76.3687,-74.2615,-20.4657,0,-12.6389 1/2:111:1,75,35:1:28:75,35:2645,1237:-313.645,-98.5836,-78.223,-213.217,0,-204.899 1/2:17:0,10,7:0:0:10,7:360,248:-49.913,-20.5353,-17.525,-29.734,0,-27.6268 1/2:71:0,50,21:0:0:50,21:1761,756:-205.314,-61.9752,-46.9237,-143.696,0,-137.374 2/2:46:0,0,46:0:0:0,46:0,1652:-148.965,-148.965,-148.965,-13.8474,-13.8474,0 1/2:76:0,38,38:0:0:38,38:1319,1364:-218.554,-111.34,-99.901,-107.567,0,-96.1275 1/2:396:0,222,174:0:0:222,174:7867,6204:-1146.69,-505.807,-438.978,-641.235,0,-588.856 1/1:162:0,161,0:0:0:161,0:5695,0:-512.399,-48.4658,0,-512.399,-48.4658,-512.399 1/1:423:0,423,0:0:0:423,0:14969,0:-1346.87,-127.336,0,-1346.87,-127.336,-1346.87 1/1:24:0,24,0:0:0:24,0:858,0:-77.5418,-7.22472,0,-77.5418,-7.22472,-77.5418 1/2:38:0,11,27:0:0:11,27:388,964:-110.53,-78.9384,-75.627,-31.9455,0,-23.8177 1/1:65:0,65,0:0:0:65,0:2273,0:-204.832,-19.567,0,-204.832,-19.567,-204.832 1/1:25:0,25,0:0:0:25,0:877,0:-79.2459,-7.52575,0,-79.2459,-7.52575,-79.2459 1/1:56:0,56,0:0:0:56,0:1972,0:-177.753,-16.8577,0,-177.753,-16.8577,-177.753 1/2:409:0,183,226:0:0:183,226:6507,8072:-1188.51,-658.247,-603.158,-530.617,0,-462.585 1/2:11:0,7,4:0:0:7,4:252,144:-32.6714,-12.1095,-10.0023,-20.9217,0,-19.7176 1/1:106:0,105,1:0:0:105,1:3709,36:-333.652,-31.6082,0,-330.714,-28.3109,-330.413 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 chr05 27750738 . 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G T 20387.7 PASS AB=0.49303;ABP=3.91844;AC=15;AF=0.357143;AN=42;AO=1258;CIGAR=1X;DP=3069;DPB=3069;DPRA=1.71291;EPP=2734.72;EPPR=3935.55;GTI=1;LEN=1;MEANALT=1;MQM=39.1741;MQMR=59.5627;NS=21;NUMALT=1;ODDS=3.72592;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45089;QR=64831;RO=1811;RPL=1258;RPP=2734.72;RPPR=3935.55;RPR=0;RUN=1;SAF=0;SAP=2734.72;SAR=1258;SRF=0;SRP=3935.55;SRR=1811;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:244:120,124:120:4287:124:4445:-304.072,0,-312.25 0/1:296:126,170:126:4528:170:6104:-435.574,0,-318.499 0/1:120:55,65:55:1972:65:2336:-160.94,0,-141.525 0/1:254:120,134:120:4304:134:4770:-330.454,0,-311.022 0/1:293:158,135:158:5639:135:4833:-323.812,0,-418.621 0/1:79:44,35:44:1571:35:1252:-84.2328,0,-117.893 0/1:174:87,87:87:3116:87:3124:-216.243,0,-227.844 1/1:196:0,196:0:0:196:7009:-598.5,-59.0019,0 0/1:179:87,92:87:3124:92:3308:-231.6,0,-227.468 0/1:24:13,11:13:468:11:396:-27.0394,0,-35.2211 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9008 0/0:89:89,0:89:3184:0:0:0,-26.7917,-286.751 0/1:117:66,51:66:2348:51:1828:-121.204,0,-176.279 0/0:212:212,0:212:7595:0:0:0,-63.8184,-683.064 0/0:177:177,0:177:6325:0:0:0,-53.2823,-569.303 0/1:208:104,104:104:3723:104:3740:-259.134,0,-272.607 0/1:81:47,34:47:1680:34:1224:-79.4344,0,-127.104 0/1:83:64,19:64:2296:19:684:-33.9005,0,-181.906 0/0:140:139,1:139:4975:1:36:0,-38.7206,-444.411 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.307 chr05 27791557 . G A 7914.01 PASS AB=0.417801;ABP=59.057;AC=15;AF=0.357143;AN=42;AO=477;CIGAR=1X;DP=1442;DPB=1442;DPRA=1.07472;EPP=1038.8;EPPR=2098.48;GTI=1;LEN=1;MEANALT=1;MQM=56.195;MQMR=59.514;NS=21;NUMALT=1;ODDS=9.34113;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17083;QR=34466;RO=965;RPL=477;RPP=1038.8;RPPR=2089.8;RPR=0;RUN=1;SAF=477;SAP=1038.8;SAR=0;SRF=964;SRP=2089.8;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:42,27:42:1477:27:972:-66.9643,0,-112.449 0/1:12:7,5:7:252:5:180:-12.9318,0,-19.4166 0/1:96:41,55:41:1468:55:1953:-147.023,0,-103.502 0/0:86:86,0:86:3076:0:0:0,-25.8886,-277.048 0/1:122:107,15:107:3823:15:536:-11.8156,0,-307.526 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.667 0/1:95:56,39:56:2004:39:1404:-98.0043,0,-152.003 1/1:75:0,75:0:0:75:2690:-242.23,-22.5773,0 0/1:122:69,53:69:2463:53:1904:-134.734,0,-183.559 0/1:11:7,4:7:252:4:144:-9.99596,0,-19.7176 0/1:9:5,4:5:180:4:144:-10.598,0,-13.8428 0/1:32:16,16:16:572:16:576:-41.3184,0,-42.1789 0/1:173:81,92:81:2875:92:3280:-243.105,0,-206.868 0/1:101:56,45:56:2004:45:1616:-115.225,0,-150.15 0/0:73:73,0:73:2620:0:0:0,-21.9752,-235.985 0/0:14:13,1:13:468:1:36:0,-0.61874,-38.864 0/0:16:15,1:15:536:1:36:0,-1.2208,-44.9768 0/1:62:36,26:36:1292:26:932:-65.3892,0,-97.9184 0/1:51:33,18:33:1171:18:644:-42.8965,0,-90.272 0/0:123:122,1:122:4364:1:36:0,-33.4301,-389.263 0/0:48:48,0:48:1709:0:0:0,-14.4494,-154.081 chr05 27852876 . 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A T 22807.1 PASS AB=0.568396;ABP=54.6954;AC=27;AF=0.642857;AN=42;AO=1163;CIGAR=1X;DP=1786;DPB=1786;DPRA=1.17329;EPP=2528.43;EPPR=1355.84;GTI=0;LEN=1;MEANALT=1;MQM=59.9957;MQMR=60;NS=21;NUMALT=1;ODDS=10.0277;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41524;QR=22249;RO=623;RPL=0;RPP=2528.43;RPPR=1355.84;RPR=1163;RUN=1;SAF=0;SAP=2528.43;SAR=1163;SRF=0;SRP=1355.84;SRR=623;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:42,42:42:1496:42:1492:-109.287,0,-109.648 0/1:74:34,40:34:1220:40:1430:-106.721,0,-87.8306 0/1:89:42,47:42:1495:47:1673:-124.064,0,-108.052 0/1:139:60,79:60:2152:79:2836:-213.635,0,-152.104 0/1:181:65,116:65:2315:116:4134:-317.755,0,-154.124 0/1:92:20,72:20:712:72:2564:-203.313,0,-36.7119 0/1:158:72,86:72:2584:86:3052:-227.346,0,-185.246 0/0:73:73,0:73:2620:0:0:0,-21.9752,-236.047 0/1:148:83,65:83:2967:65:2336:-165.947,0,-222.71 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 1/1:103:0,103:0:0:103:3654:-329.064,-31.0061,0 0/1:127:56,71:56:1989:71:2552:-191.699,0,-141.052 1/1:112:0,112:0:0:112:4012:-361.269,-33.7154,0 1/1:73:0,73:0:0:73:2616:-235.688,-21.9752,0 0/1:62:29,33:29:1036:33:1188:-88.5647,0,-74.8901 0/1:49:23,26:23:812:26:919:-68.2757,0,-58.6504 0/1:58:19,39:19:671:39:1385:-107.487,0,-43.2561 1/1:70:1,69:1:36:69:2461:-218.144,-17.4738,0 1/1:56:0,56:0:0:56:2000:-180.274,-16.8577,0 chr05 27886707 . T A 7713.7 PASS AB=0.484425;ABP=4.97186;AC=15;AF=0.357143;AN=42;AO=499;CIGAR=1X;DP=1327;DPB=1327;DPRA=1.40661;EPP=993.136;EPPR=1749.25;GTI=0;LEN=1;MEANALT=1;MQM=36.6733;MQMR=59.244;NS=21;NUMALT=1;ODDS=5.32294;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17845;QR=29513;RO=828;RPL=488;RPP=993.136;RPPR=1749.25;RPR=11;RUN=1;SAF=0;SAP=1086.58;SAR=499;SRF=0;SRP=1800.99;SRR=828;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:59,43:59:2078:43:1548:-95.615,0,-156.429 0/1:38:19,19:19:680:19:665:-44.198,0,-50.09 0/1:30:10,20:10:330:20:711:-50.1758,0,-20.9859 0/1:63:20,43:20:712:43:1548:-110.866,0,-45.4384 0/1:267:147,120:147:5245:120:4266:-275.703,0,-391.642 0/1:27:11,16:11:377:16:576:-41.025,0,-26.1301 0/1:63:29,34:29:1040:34:1220:-84.2971,0,-74.9424 1/1:48:0,48:0:0:48:1707:-140.62,-14.4494,0 0/1:59:38,21:38:1360:21:752:-43.0248,0,-104.787 0/1:10:4,6:4:144:6:216:-15.4315,0,-10.3033 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:7:7,0:7:233:0:0:0,-2.10721,-21.2943 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.857 0/1:39:19,20:19:684:20:720:-48.0525,0,-50.0858 0/0:71:71,0:71:2533:0:0:0,-21.3731,-228.071 0/0:65:65,0:65:2313:0:0:0,-19.5669,-208.429 0/1:77:36,41:36:1292:41:1468:-98.2386,0,-93.1345 0/1:62:25,37:25:896:37:1332:-91.51,0,-62.2396 0/1:94:63,31:63:2248:31:1116:-65.3953,0,-173.752 0/0:85:85,0:85:3040:0:0:0,-25.5875,-273.396 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.249 chr05 27898096 . CTTTTCCA CTTTCCA 34046.3 PASS AB=0.498779;ABP=3.03682;AC=27;AF=0.642857;AN=42;AO=1796;CIGAR=1M1D6M;DP=3007;DPB=2781.25;DPRA=0.780663;EPP=3902.97;EPPR=2595.75;GTI=1;LEN=1;MEANALT=1.7;MQM=59.4248;MQMR=59.9464;NS=21;NUMALT=1;ODDS=2.93415;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63025;QR=41791;RO=1194;RPL=0;RPP=3902.97;RPPR=2595.75;RPR=1796;RUN=1;SAF=0;SAP=3902.97;SAR=1796;SRF=0;SRP=2595.75;SRR=1194;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:195:103,91:103:3602:91:3220:-231.321,0,-265.763 0/1:178:90,87:90:3154:87:3087:-224.265,0,-230.45 0/1:222:111,111:111:3885:111:3873:-281.503,0,-283.024 0/1:182:84,96:84:2923:96:3384:-250.228,0,-208.818 0/1:229:118,108:118:4099:108:3799:-273.56,0,-300.697 0/1:83:40,42:40:1410:42:1485:-108.835,0,-102.152 0/1:210:104,105:104:3622:105:3675:-267.649,0,-262.833 0/0:181:179,0:179:6288:0:0:0,-53.8844,-565.737 0/1:273:132,140:132:4621:140:4946:-363.02,0,-333.825 0/1:19:7,11:7:245:11:388:-29.4825,0,-16.6168 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 1/1:48:0,48:0:0:48:1642:-148.036,-14.4494,0 1/1:81:0,80:0:0:80:2803:-252.142,-24.0824,0 0/1:145:71,73:71:2483:73:2583:-188.963,0,-180.097 1/1:302:0,300:0:0:300:10512:-945.45,-90.309,0 1/1:172:0,172:0:0:172:5989:-539.076,-51.7772,0 0/1:162:96,66:96:3392:66:2305:-158.892,0,-256.729 0/1:119:48,71:48:1678:71:2484:-187.962,0,-115.485 0/1:30:10,20:10:353:20:708:-55.0032,0,-23.0785 1/1:136:1,135:1:36:135:4745:-423.516,-37.3418,0 1/1:36:0,36:0:0:36:1262:-113.832,-10.8371,0 chr05 27909541 . AGCC CGCT,CGCC 41219.3 PASS AB=0.470226,0.522245;ABP=14.26,9.28988;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1163,877;CIGAR=1X2M1X,1X3M;DP=2055;DPB=2055;DPRA=0.867411,1.39545;EPP=2528.43,1907.39;EPPR=7.35324;GTI=1;LEN=4,1;MEANALT=2.35,2.4375;MQM=59.6371,60;MQMR=60;NS=21;NUMALT=2;ODDS=5.60738;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40484,31100;QR=61;RO=2;RPL=1163,877;RPP=2528.43,1907.39;RPPR=3.0103;RPR=0,0;RUN=1,1;SAF=1163,877;SAP=2528.43,1907.39;SAR=0,0;SRF=1;SRP=3.0103;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:156:0,70,84:0:0:70,84:2480,2943:-441.473,-239.497,-218.425,-202.007,0,-176.72 1/2:85:0,40,45:0:0:40,45:1379,1588:-241.676,-129.661,-117.62,-112.364,0,-98.8172 1/2:103:1,42,60:1:25:42,60:1467,2160:-293.416,-174.406,-163.71,-117.466,0,-101.351 1/2:107:0,52,54:0:0:52,54:1812,1909:-302.784,-155.618,-139.964,-147.303,0,-131.048 1/2:228:1,107,117:1:36:107,117:3682,4141:-633.057,-334.357,-305.084,-296.054,0,-263.771 1/2:118:0,43,75:0:0:43,75:1465,2667:-336.548,-217.699,-204.754,-119.195,0,-96.6177 1/2:162:0,82,80:0:0:82,80:2833,2859:-463.639,-233.465,-208.78,-230.525,0,-206.443 2/2:112:0,0,112:0:0:0,112:0,4004:-360.55,-360.55,-360.55,-33.7154,-33.7154,0 1/2:207:0,102,104:0:0:102,104:3533,3689:-587.739,-300.657,-269.952,-287.182,0,-255.875 1/2:11:0,6,5:0:0:6,5:195,180:-30.7652,-15.0469,-13.2407,-16.0622,0,-14.557 1/1:5:0,5,0:0:0:5,0:173,0:-15.909,-1.50515,0,-15.909,-1.50515,-15.909 1/1:22:0,22,0:0:0:22,0:767,0:-69.3495,-6.62266,0,-69.3495,-6.62266,-69.3495 1/1:127:0,126,0:0:0:126,0:4437,0:-398.993,-37.9298,0,-398.993,-37.9298,-398.993 1/2:108:0,45,63:0:0:45,63:1539,2213:-305.37,-180.467,-166.92,-125.25,0,-106.285 1/1:153:0,151,0:0:0:151,0:5300,0:-476.787,-45.4555,0,-476.787,-45.4555,-476.787 1/1:45:0,44,1:0:0:44,1:1533,36:-137.892,-13.2453,0,-134.954,-9.94808,-134.653 1/2:63:0,35,27:0:0:35,27:1224,968:-178.68,-79.1044,-68.5684,-99.7232,0,-91.5954 1/2:70:0,32,37:0:0:32,37:1091,1275:-192.18,-103.664,-94.0315,-88.615,0,-77.4769 1/2:43:0,31,12:0:0:31,12:1096,432:-124.87,-35.6088,-26.2769,-89.6193,0,-86.007 1/1:69:0,68,0:0:0:68,0:2382,0:-214.271,-20.47,0,-214.271,-20.47,-214.271 1/1:61:0,60,1:0:0:60,1:2096,36:-188.492,-18.0618,0,-185.554,-14.7646,-185.253 chr05 27918975 . 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C T 4818.89 PASS AB=0.332478;ABP=192.898;AC=15;AF=0.357143;AN=42;AO=305;CIGAR=1X;DP=1202;DPB=1202;DPRA=1.40268;EPP=631.021;EPPR=1579.56;GTI=1;LEN=1;MEANALT=1;MQM=55.223;MQMR=41.7402;NS=21;NUMALT=1;ODDS=2.32629;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10943;QR=31792;RO=897;RPL=38;RPP=376.368;RPPR=9.30684;RPR=267;RUN=1;SAF=34;SAP=402.91;SAR=271;SRF=429;SRP=6.69236;SRR=468;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:21,10:21:737:10:360:-23.4124,0,-52.115 0/1:48:23,25:23:809:25:896:-66.5109,0,-54.5078 0/1:21:10,11:10:326:11:392:-29.2984,0,-21.2166 0/1:41:25,16:25:883:16:572:-39.4712,0,-64.3488 0/1:93:65,28:65:2307:28:1004:-62.6801,0,-171.322 0/1:40:25,15:25:891:15:536:-35.366,0,-64.1519 0/1:58:39,19:39:1375:19:680:-43.9006,0,-96.4394 1/1:46:2,44:2:72:44:1584:-136.028,-7.02368,0 0/1:71:49,22:49:1728:22:783:-36.2886,0,-98.6838 0/1:17:10,7:10:360:7:252:-17.9114,0,-23.3094 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.8556 0/0:31:31,0:31:1107:0:0:0,-9.33193,-95.4418 0/0:74:74,0:74:2640:0:0:0,-22.2762,-228.596 0/1:53:29,24:29:1032:24:864:-62.128,0,-74.9276 0/0:73:73,0:73:2585:0:0:0,-21.9752,-218.245 0/0:51:50,1:50:1771:1:36:0,-11.7543,-116.928 0/1:57:29,28:29:1020:28:1004:-36.8543,0,-58.5079 0/1:143:113,30:113:4029:30:1080:-54.466,0,-281.327 0/1:106:82,24:82:2883:24:864:-46.1734,0,-208.792 0/0:37:37,0:37:1316:0:0:0,-11.1381,-114.883 0/0:107:106,1:106:3777:1:36:0,-28.6119,-311.45 chr05 27953479 . A G 24379.1 PASS AB=0.440394;ABP=65.6557;AC=15;AF=0.357143;AN=42;AO=1089;CIGAR=1X;DP=3180;DPB=3180;DPRA=1.16492;EPP=2367.74;EPPR=4541.39;GTI=0;LEN=1;MEANALT=1.07143;MQM=51.3104;MQMR=57.5852;NS=21;NUMALT=1;ODDS=30.8159;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38525;QR=74751;RO=2090;RPL=488;RPP=28.4718;RPPR=63.8572;RPR=601;RUN=1;SAF=488;SAP=28.4718;SAR=601;SRF=924;SRP=63.8572;SRR=1166;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:91,57:91:3216:57:2021:-134.227,0,-244.9 0/1:93:48,44:48:1711:44:1572:-112.256,0,-125.771 0/1:166:93,73:93:3344:73:2566:-179.003,0,-251.038 0/1:217:114,103:114:4053:103:3604:-252.057,0,-299.184 0/1:299:168,131:168:6008:131:4680:-324.835,0,-450.524 0/1:146:67,79:67:2400:79:2806:-202.554,0,-171.936 0/1:269:158,111:158:5662:111:3934:-267.323,0,-428.248 1/1:195:0,195:0:0:195:6873:-607.592,-58.7009,0 0/1:192:117,75:117:4187:75:2632:-176.797,0,-319.178 0/1:25:12,13:12:428:13:444:-31.8591,0,-31.3156 0/0:27:27,0:27:960:0:0:0,-8.12781,-86.6721 0/0:63:63,0:63:2245:0:0:0,-18.9649,-202.119 0/0:210:210,0:210:7547:0:0:0,-63.2163,-679.094 0/1:172:103,69:103:3688:69:2464:-167.722,0,-279.824 0/0:242:242,0:242:8667:0:0:0,-72.8493,-778.899 0/0:81:81,0:81:2912:0:0:0,-24.3834,-262.024 0/1:43:18,25:18:648:25:900:-67.2445,0,-45.7039 0/1:163:83,80:83:2976:80:2809:-197.81,0,-218.614 0/1:97:63,34:63:2242:34:1220:-79.3676,0,-172.728 0/0:240:240,0:240:8566:0:0:0,-72.2472,-770.354 0/0:92:92,0:92:3291:0:0:0,-27.6948,-295.481 chr05 27965390 . A G 35523.9 PASS AB=0.514312;ABP=6.92605;AC=27;AF=0.642857;AN=42;AO=1855;CIGAR=1X;DP=3033;DPB=3033;DPRA=1.40817;EPP=4022.41;EPPR=2532.84;GTI=0;LEN=1;MEANALT=1.05;MQM=51.5342;MQMR=59.4962;NS=21;NUMALT=1;ODDS=20.7491;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66216;QR=42202;RO=1177;RPL=1;RPP=4022.41;RPPR=2541.49;RPR=1854;RUN=1;SAF=1855;SAP=4031.09;SAR=0;SRF=1176;SRP=2550.15;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:201:91,110:91:3257:110:3913:-290.724,0,-232.809 0/1:163:88,74:88:3152:74:2652:-187.712,0,-234.736 0/1:123:62,61:62:2224:61:2163:-156.837,0,-163.234 0/1:95:54,41:54:1915:41:1464:-103.173,0,-144.02 0/1:411:181,230:181:6485:230:8218:-611.34,0,-459.968 0/1:93:40,53:40:1432:53:1904:-141.962,0,-101.124 0/1:213:120,93:120:4301:93:3310:-231.351,0,-322.699 0/0:104:104,0:104:3732:0:0:0,-31.3071,-335.476 0/1:309:137,172:137:4924:172:6149:-457.926,0,-350.28 0/1:44:22,22:22:792:22:784:-56.8674,0,-58.339 1/1:33:0,33:0:0:33:1171:-104.987,-9.93399,0 1/1:66:1,65:1:36:65:2317:-204.322,-16.2697,0 1/1:158:2,156:2:72:156:5544:-489.653,-40.726,0 0/1:165:90,75:90:3228:75:2671:-189.656,0,-241.025 1/1:153:0,153:0:0:153:5485:-491.943,-46.0576,0 1/1:135:0,135:0:0:135:4828:-433.513,-40.6391,0 0/1:103:58,45:58:2084:45:1578:-110.436,0,-156.816 0/1:178:90,88:90:3240:88:3143:-227.715,0,-238.194 0/1:103:35,68:35:1256:68:2440:-188.23,0,-82.3243 1/1:106:1,105:1:36:105:3758:-332.867,-28.3109,0 1/1:77:1,76:1:36:76:2724:-239.514,-19.581,0 chr05 27977510 . TAGG GAGA,GAGG 40255.4 PASS AB=0.530775,0.463432;ABP=14.3708,19.0503;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1204,750;CIGAR=1X2M1X,1X3M;DP=1965;DPB=1965;DPRA=0.851376,2.48971;EPP=2617.46,1622.94;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.2,2.4;MQM=54.7949,59.7507;MQMR=60;NS=21;NUMALT=2;ODDS=6.15127;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42520,26806;QR=36;RO=1;RPL=0,749;RPP=2617.46,1622.94;RPPR=5.18177;RPR=1204,1;RUN=1,1;SAF=0,0;SAP=2617.46,1631.61;SAR=1204,750;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:181:0,47,134:0:0:47,134:1639,4798:-524.64,-391.628,-377.48,-133.362,0,-93.0239 1/2:65:0,20,45:0:0:20,45:712,1612:-189.481,-131.824,-125.803,-58.0123,0,-44.4659 1/2:62:0,31,30:0:0:31,30:1103,1072:-177.226,-87.4025,-78.0705,-89.8203,0,-80.7894 1/2:141:0,107,33:0:0:107,33:3775,1179:-403.45,-96.1473,-63.9371,-307.397,0,-297.463 1/2:188:1,105,81:1:36:105,81:3721,2883:-534.09,-231.818,-203.147,-299.631,0,-278.185 1/2:67:0,24,43:0:0:24,43:853,1548:-195.835,-126.664,-119.439,-69.5264,0,-56.5821 1/2:200:0,104,95:0:0:104,95:3696,3391:-575.738,-276.435,-245.128,-299.298,0,-270.7 2/2:109:0,0,109:0:0:0,109:0,3901:-351.282,-351.282,-351.282,-32.8123,-32.8123,0 1/2:143:0,97,45:0:0:97,45:3434,1600:-409.452,-130.394,-101.194,-279.065,0,-265.518 1/2:11:0,5,6:0:0:5,6:177,216:-32.3786,-17.9843,-16.4792,-14.7506,0,-12.9444 1/1:8:0,8,0:0:0:8,0:288,0:-26.2426,-2.40824,0,-26.2426,-2.40824,-26.2426 1/1:14:0,14,0:0:0:14,0:499,0:-45.1858,-4.21442,0,-45.1858,-4.21442,-45.1858 1/1:91:0,88,0:0:0:88,0:3121,0:-280.588,-26.4906,0,-280.588,-26.4906,-280.588 1/2:127:0,76,50:0:0:76,50:2554,1771:-350.866,-144.059,-121.181,-206.794,0,-191.742 1/1:60:0,60,0:0:0:60,0:2119,0:-190.295,-18.0618,0,-190.295,-18.0618,-190.295 1/1:37:0,37,0:0:0:37,0:1317,0:-117.859,-11.1381,0,-117.859,-11.1381,-117.859 1/2:47:0,25,22:0:0:25,22:891,792:-137.2,-64.9768,-57.4511,-72.5807,0,-65.958 1/2:69:0,36,33:0:0:36,33:1292,1188:-202.321,-97.2884,-86.4513,-105.391,0,-95.4571 1/2:80:0,56,23:0:0:56,23:1976,819:-227.51,-66.7482,-49.8905,-160.757,0,-153.834 1/1:203:0,202,1:0:0:202,1:7150,36:-641.266,-60.8081,0,-638.329,-57.5108,-638.028 1/1:62:0,62,0:0:0:62,0:2203,0:-196.831,-18.6639,0,-196.831,-18.6639,-196.831 chr05 27977522 . GATG GCTA,GCTG 40419.8 PASS AB=0.537226,0.461314;ABP=19.5008,20.8195;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1213,741;CIGAR=1M1X1M1X,1M1X2M;DP=1956;DPB=1959.5;DPRA=0.855556,2.44509;EPP=2637.01,1603.4;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.8,2.06667;MQM=54.8129,59.7584;MQMR=0;NS=21;NUMALT=2;ODDS=7.07177;PAIRED=0,0;PAIREDR=0;PAO=4.66667,4.66667;PQA=165.333,165.333;PQR=165.333;PRO=4.66667;QA=42944,26513;QR=0;RO=0;RPL=0,740;RPP=2637.01,1603.4;RPPR=0;RPR=1213,1;RUN=1,1;SAF=0,0;SAP=2637.01,1612.07;SAR=1213,741;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:180:0,48,132:0:0:48,132:1678,4706:-519.903,-383.74,-369.291,-136.307,0,-96.5708 1/2:62:0,20,42:0:0:20,42:718,1512:-181.705,-123.628,-117.608,-58.3343,0,-45.6911 1/2:62:0,31,31:0:0:31,31:1104,1116:-181.325,-91.4136,-82.0816,-90.269,0,-80.9371 1/2:141:0,109,32:0:0:109,32:3854,1140:-406.859,-93.2015,-60.3893,-314.013,0,-304.38 1/2:186:0,106,80:0:0:106,80:3765,2860:-539.497,-233.295,-201.386,-306.506,0,-282.424 1/2:66:0,23,43:0:0:23,43:816,1518:-190.103,-123.913,-116.989,-66.4925,0,-53.5482 1/2:197:0,103,93:0:0:103,93:3671,3321:-568.175,-270.76,-239.754,-297.432,0,-269.436 2/2:108:0,0,108:0:0:0,108:0,3876:-348.982,-348.982,-348.982,-32.5112,-32.5112,0 1/2:142:0,97,45:0:0:97,45:3464,1616:-413.755,-132.08,-102.88,-281.929,0,-268.383 1/2:11:0,5,6:0:0:5,6:180,216:-32.6482,-17.9843,-16.4792,-15.0234,0,-13.2173 1/1:8:0,8,0:0:0:8,0:280,0:-25.5209,-2.40824,0,-25.5209,-2.40824,-25.5209 1/1:14:0,14,0:0:0:14,0:491,0:-44.4634,-4.21442,0,-44.4634,-4.21442,-44.4634 1/1:91:0,91,0:0:0:91,0:3218,0:-289.705,-27.3937,0,-289.705,-27.3937,-289.705 1/2:128:0,77,51:0:0:77,51:2668,1832:-366.413,-149.709,-126.529,-217.058,0,-201.705 1/1:62:0,62,0:0:0:62,0:2182,0:-195.956,-18.6639,0,-195.956,-18.6639,-195.956 1/1:38:0,38,0:0:0:38,0:1352,0:-120.972,-11.4391,0,-120.972,-11.4391,-120.972 1/2:48:0,25,23:0:0:25,23:883,824:-139.125,-67.5534,-60.0277,-71.9267,0,-65.003 1/2:66:0,36,30:0:0:36,30:1293,1080:-193.471,-88.323,-77.4859,-105.356,0,-96.3253 1/2:81:0,56,24:0:0:56,24:1976,860:-230.963,-70.1376,-53.2799,-160.822,0,-153.597 1/1:203:0,202,1:0:0:202,1:7144,36:-640.071,-60.8081,0,-637.133,-57.5108,-636.832 1/1:62:0,62,0:0:0:62,0:2207,0:-197.074,-18.6639,0,-197.074,-18.6639,-197.074 chr05 27977926 . TTCAAT TT 22273.2 PASS AB=0.519544;ABP=7.08446;AC=27;AF=0.642857;AN=42;AO=1164;CIGAR=1M4D1M;DP=1835;DPB=1059;DPRA=1.11139;EPP=2530.6;EPPR=1442.71;GTI=0;LEN=4;MEANALT=1.15;MQM=59.4991;MQMR=59.9415;NS=21;NUMALT=1;ODDS=14.2218;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40846;QR=23450;RO=667;RPL=1164;RPP=2530.6;RPPR=1442.71;RPR=0;RUN=1;SAF=0;SAP=2530.6;SAR=1164;SRF=0;SRP=1451.38;SRR=667;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:46,49:46:1628:49:1733:-127.642,0,-118.211 0/1:69:29,40:29:1009:40:1404:-105.883,0,-70.3488 0/1:115:74,41:74:2600:41:1434:-94.7165,0,-199.633 0/1:99:48,51:48:1694:51:1771:-129.846,0,-122.944 0/1:143:56,85:56:1963:85:2946:-221.406,0,-134.141 0/1:57:25,32:25:886:32:1136:-85.2862,0,-62.9001 0/1:107:37,69:37:1312:69:2413:-185.259,0,-86.2595 0/0:79:79,0:79:2788:0:0:0,-23.7814,-251.161 0/1:118:64,53:64:2270:53:1854:-131.566,0,-168.992 0/1:43:24,19:24:842:19:684:-48.9177,0,-63.1547 1/1:14:0,14:0:0:14:500:-45.329,-4.21442,0 1/1:124:0,124:0:0:124:4307:-387.792,-37.3277,0 1/1:76:0,76:0:0:76:2686:-241.952,-22.8783,0 0/1:122:64,58:64:2200:58:2052:-148.198,0,-161.109 1/1:144:0,144:0:0:144:5067:-456.164,-43.3483,0 1/1:58:0,58:0:0:58:2025:-182.514,-17.4597,0 0/1:70:28,42:28:989:42:1496:-113.859,0,-68.2523 0/1:141:77,64:77:2693:64:2267:-161.679,0,-200.17 0/1:49:14,35:14:504:35:1240:-97.1173,0,-30.9476 1/1:66:1,65:1:36:65:2254:-198.885,-16.2697,0 1/1:46:1,45:1:36:45:1577:-138.6,-10.2491,0 chr05 27977934 . C T 11422.6 PASS AB=0.467729;ABP=14.3625;AC=15;AF=0.357143;AN=42;AO=667;CIGAR=1X;DP=1892;DPB=1892;DPRA=1.14449;EPP=1451.38;EPPR=2660.89;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.988;MQMR=59.4395;NS=21;NUMALT=1;ODDS=16.4217;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23852;QR=43680;RO=1224;RPL=667;RPP=1451.38;RPPR=2660.89;RPR=0;RUN=1;SAF=0;SAP=1451.38;SAR=667;SRF=0;SRP=2660.89;SRR=1224;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:51,45:51:1813:45:1616:-116.831,0,-134.527 0/1:69:41,28:41:1449:28:989:-68.5509,0,-109.847 0/1:118:44,74:44:1580:74:2639:-202.234,0,-106.943 0/1:99:51,48:51:1828:48:1716:-124.924,0,-134.948 0/1:149:90,59:90:3197:59:2116:-145.853,0,-242.724 0/1:57:31,25:31:1112:25:896:-63.7448,0,-83.0895 0/1:107:69,38:69:2457:38:1360:-90.4904,0,-189.109 1/1:79:0,79:0:0:79:2828:-254.759,-23.7814,0 0/1:125:60,65:60:2133:65:2327:-172.06,0,-154.604 0/1:43:19,24:19:680:24:864:-65.1383,0,-48.5565 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6804 0/0:131:131,0:131:4662:0:0:0,-39.4349,-419.679 0/0:78:78,0:78:2792:0:0:0,-23.4803,-251.478 0/1:124:63,61:63:2260:61:2184:-159.497,0,-166.3 0/0:154:154,0:154:5508:0:0:0,-46.3586,-495.788 0/0:63:63,0:63:2253:0:0:0,-18.9649,-203.024 0/1:69:41,28:41:1476:28:1004:-69.9048,0,-112.362 0/1:147:69,78:69:2446:78:2777:-205.919,0,-175.954 0/1:52:38,14:38:1349:14:500:-29.6826,0,-105.968 0/0:68:67,1:67:2385:1:36:0,-16.8718,-210.659 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.887 chr05 28043342 . G A 16932.6 PASS AB=0.529025;ABP=9.6912;AC=27;AF=0.642857;AN=42;AO=874;CIGAR=1X;DP=1371;DPB=1371;DPRA=0;EPP=1900.88;EPPR=1082.23;GTI=1;LEN=1;MEANALT=1;MQM=59.7471;MQMR=59.7626;NS=21;NUMALT=1;ODDS=3.05104;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30933;QR=17356;RO=497;RPL=0;RPP=1900.88;RPPR=1082.23;RPR=874;RUN=1;SAF=0;SAP=1900.88;SAR=874;SRF=0;SRP=1082.23;SRR=497;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:38,46:38:1308:46:1631:-121.641,0,-92.7291 0/1:74:37,37:37:1303:37:1310:-95.8887,0,-95.2944 0/1:73:35,38:35:1231:38:1356:-100.365,0,-89.1171 0/1:58:21,37:21:729:37:1319:-101.551,0,-48.469 0/1:133:60,73:60:2099:73:2591:-193.339,0,-148.232 0/1:92:54,38:54:1890:38:1356:-94.6434,0,-142.675 0/1:75:35,40:35:1243:40:1411:-104.663,0,-89.5966 0/0:66:65,1:65:2265:1:36:0,-16.2697,-200.512 0/1:99:44,55:44:1559:55:1964:-147.221,0,-110.799 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 1/1:13:0,13:0:0:13:468:-42.4592,-3.91339,0 1/1:33:0,33:0:0:33:1142:-103.08,-9.93399,0 1/1:77:0,77:0:0:77:2735:-246.27,-23.1793,0 0/1:82:42,40:42:1450:40:1424:-103.773,0,-106.106 1/1:149:0,149:0:0:149:5284:-475.699,-44.8535,0 1/1:29:0,29:0:0:29:1027:-92.636,-8.72987,0 0/1:60:33,27:33:1163:27:938:-66.6568,0,-86.9003 0/1:46:23,23:23:760:23:792:-57.7428,0,-54.7276 0/1:26:3,23:3:104:23:799:-64.4008,0,-1.87603 1/1:58:2,56:2:72:56:1958:-169.657,-10.623,0 1/1:33:0,33:0:0:33:1176:-106.13,-9.93399,0 chr05 28043379 . G A 8576.14 PASS AB=0.45614;ABP=19.2011;AC=15;AF=0.357143;AN=42;AO=509;CIGAR=1X;DP=1446;DPB=1446;DPRA=1.24786;EPP=1108.29;EPPR=2037.68;GTI=0;LEN=1;MEANALT=1;MQM=59.7544;MQMR=59.6809;NS=21;NUMALT=1;ODDS=1.06677;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18205;QR=33628;RO=937;RPL=509;RPP=1108.29;RPPR=2037.68;RPR=0;RUN=1;SAF=0;SAP=1108.29;SAR=509;SRF=0;SRP=2037.68;SRR=937;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:52,38:52:1868:38:1358:-95.4189,0,-141.156 0/1:79:39,40:39:1404:40:1440:-106.116,0,-102.86 0/1:77:42,35:42:1508:35:1241:-88.8123,0,-112.825 0/1:63:41,22:41:1476:22:792:-52.6408,0,-114.171 0/1:141:81,60:81:2912:60:2132:-149.215,0,-219.11 0/1:103:45,58:45:1620:58:2061:-154.745,0,-115.064 0/1:81:44,37:44:1584:37:1317:-94.4473,0,-118.232 1/1:66:1,65:1:36:65:2340:-207.261,-16.2697,0 0/1:100:55,45:55:1976:45:1616:-115.627,0,-148.001 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4592 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.226 0/0:83:83,0:83:2972:0:0:0,-24.9855,-267.541 0/1:88:45,43:45:1616:43:1540:-112.398,0,-119.239 0/0:160:160,0:160:5736:0:0:0,-48.1648,-516.351 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.4477 0/1:61:29,32:29:1024:32:1152:-85.6133,0,-74.0991 0/1:48:25,23:25:896:23:820:-59.543,0,-66.4919 0/1:27:23,4:23:828:4:144:-5.18581,0,-66.7163 0/0:60:58,2:58:2076:2:72:0,-11.2251,-180.266 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.211 chr05 28071426 . GTTCA GTCA 9148 PASS AB=0.473002;ABP=8.87281;AC=15;AF=0.357143;AN=42;AO=533;CIGAR=1M1D3M;DP=1471;DPB=1363.8;DPRA=1.14541;EPP=1160.41;EPPR=1979.28;GTI=0;LEN=1;MEANALT=1.35714;MQM=55.1032;MQMR=59.7849;NS=21;NUMALT=1;ODDS=9.83334;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18917;QR=32725;RO=930;RPL=0;RPP=1160.41;RPPR=1979.28;RPR=533;RUN=1;SAF=533;SAP=1160.41;SAR=0;SRF=930;SRP=2022.48;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:44,30:44:1549:30:1076:-74.2344,0,-116.893 0/1:68:36,32:36:1258:32:1152:-83.1705,0,-92.9654 0/1:69:38,31:38:1353:31:1116:-79.9281,0,-101.299 0/1:64:33,31:33:1164:31:1083:-78.3481,0,-85.8009 0/1:53:30,23:30:1071:23:820:-58.1342,0,-80.7479 0/1:90:44,46:44:1579:46:1648:-121.239,0,-115.309 0/1:134:70,63:70:2427:63:2219:-159.055,0,-178.3 1/1:98:1,95:1:36:95:3384:-300.827,-25.6283,0 0/1:137:68,69:68:2394:69:2430:-177.287,0,-174.467 0/1:18:8,10:8:278:10:326:-24.2066,0,-19.9378 0/0:15:15,0:15:539:0:0:0,-4.51545,-48.8462 0/0:20:20,0:20:685:0:0:0,-6.0206,-61.9675 0/0:104:103,0:103:3630:0:0:0,-31.0061,-326.54 0/1:81:27,54:27:946:54:1924:-148.659,0,-61.061 0/0:144:144,0:144:5075:0:0:0,-43.3483,-456.893 0/0:45:45,0:45:1593:0:0:0,-13.5463,-143.66 0/1:27:6,21:6:205:21:748:-59.5095,0,-10.6561 0/1:47:32,15:32:1141:15:540:-34.6345,0,-88.8515 0/1:63:49,13:49:1714:13:451:-21.8689,0,-135.45 0/0:80:79,0:79:2764:0:0:0,-23.7814,-248.071 0/0:39:38,0:38:1324:0:0:0,-11.4391,-119.084 chr05 28074642 . A G 8508.38 PASS AB=0.52142;ABP=6.26618;AC=15;AF=0.357143;AN=42;AO=484;CIGAR=1X;DP=1222;DPB=1222;DPRA=1.35827;EPP=1036.7;EPPR=1562.42;GTI=0;LEN=1;MEANALT=1;MQM=59.9587;MQMR=59.9539;NS=21;NUMALT=1;ODDS=4.55;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17214;QR=25754;RO=738;RPL=2;RPP=1036.7;RPPR=1562.42;RPR=482;RUN=1;SAF=484;SAP=1054;SAR=0;SRF=738;SRP=1605.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:16:7,9:7:244:9:320:-24.3259,0,-17.2894 0/1:21:9,12:9:320:12:428:-32.5372,0,-22.8207 0/1:60:36,24:36:1268:24:856:-59.2993,0,-96.3609 0/1:115:58,57:58:2040:57:2015:-147.004,0,-149.253 0/1:56:27,29:27:948:29:1044:-77.4171,0,-68.777 0/1:40:19,21:19:645:21:748:-55.6041,0,-46.3258 0/1:93:40,53:40:1400:53:1896:-142.887,0,-98.3013 1/1:57:0,57:0:0:57:2029:-182.882,-17.1587,0 0/1:83:38,45:38:1344:45:1604:-119.665,0,-96.2746 0/1:8:3,5:3:104:5:180:-14.1438,0,-7.29457 0/0:9:9,0:9:303:0:0:0,-2.70927,-27.5967 0/0:29:29,0:29:1032:0:0:0,-8.72987,-93.1919 0/0:82:82,0:82:2868:0:0:0,-24.6845,-258.359 0/1:78:24,54:24:848:54:1914:-149.055,0,-53.1593 0/0:82:82,0:82:2862:0:0:0,-24.6845,-257.819 0/0:17:17,0:17:585:0:0:0,-5.11751,-52.9719 0/1:42:18,24:18:628:24:849:-64.0852,0,-44.2022 0/1:134:70,64:70:2399:64:2267:-163.953,0,-175.833 0/1:71:42,29:42:1476:29:1028:-71.4599,0,-111.761 0/0:59:59,0:59:2045:0:0:0,-17.7608,-184.321 0/0:70:69,1:69:2395:1:36:0,-17.4738,-212.212 chr05 28074669 . G C 15259.7 PASS AB=0.501163;ABP=3.0204;AC=27;AF=0.642857;AN=42;AO=802;CIGAR=1X;DP=1288;DPB=1288;DPRA=1.07982;EPP=1744.53;EPPR=1054;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9613;MQMR=59.9607;NS=21;NUMALT=1;ODDS=7.66842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27783;QR=17228;RO=484;RPL=796;RPP=1692.81;RPPR=968.939;RPR=6;RUN=1;SAF=796;SAP=1692.81;SAR=6;SRF=474;SRP=968.939;SRR=10;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:16:10,6:10:360:6:199:-13.3879,0,-27.9278 0/1:29:16,13:16:567:13:450:-32.0987,0,-42.6309 0/1:63:23,40:23:828:40:1383:-105.798,0,-55.8792 0/1:117:55,61:55:1976:61:2140:-157.582,0,-142.835 0/1:59:31,28:31:1104:28:979:-70.6613,0,-81.9099 0/1:44:19,24:19:676:24:806:-59.5448,0,-47.8641 0/1:102:54,48:54:1932:48:1682:-120.957,0,-143.437 0/0:57:57,0:57:2030:0:0:0,-17.1587,-182.971 0/1:91:47,44:47:1668:44:1559:-113.207,0,-123.014 0/1:8:5,3:5:165:3:108:-7.66693,0,-12.7654 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:31:0,31:0:0:31:1081:-97.5974,-9.33193,0 1/1:85:0,85:0:0:85:2966:-267.172,-25.5876,0 0/1:78:55,23:55:1955:23:807:-49.4688,0,-152.745 1/1:92:0,92:0:0:92:3239:-291.733,-27.6948,0 1/1:18:0,18:0:0:18:622:-56.302,-5.41854,0 0/1:44:24,20:24:856:20:712:-51.1613,0,-64.1144 0/1:137:59,78:59:2084:78:2594:-192.465,0,-146.587 0/1:72:29,43:29:1027:43:1466:-110.555,0,-71.068 1/1:56:0,56:0:0:56:1974:-177.934,-16.8577,0 1/1:80:0,80:0:0:80:2692:-242.525,-24.0824,0 chr05 28074786 . CGGTGGC CGGCGGC,TGGCGGT 21847.6 PASS AB=0.550143,0.426934;ABP=18.2542,35.3771;AC=27,15;AF=0.642857,0.357143;AN=42;AO=711,343;CIGAR=3M1X3M,1X2M1X2M1X;DP=1075;DPB=1075.29;DPRA=1.14444,1.11898;EPP=1546.93,747.825;EPPR=7.35324;GTI=0;LEN=1,7;MEANALT=2.6,3;MQM=59.9775,59.5306;MQMR=60;NS=21;NUMALT=2;ODDS=0.384625;PAIRED=0,0;PAIREDR=0;PAO=0.5,1;PQA=16,36;PQR=16;PRO=0.5;QA=25445,12016;QR=72;RO=2;RPL=0,343;RPP=1546.93,747.825;RPPR=7.35324;RPR=711,0;RUN=1,1;SAF=711,343;SAP=1546.93,747.825;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,26,28:0:0:26,28:936,990:-156.944,-80.5678,-72.741,-76.3729,0,-67.944 1/2:28:0,22,6:0:0:22,6:780,215:-81.0763,-17.5334,-10.9107,-63.5408,0,-61.7346 1/2:54:0,22,32:0:0:22,32:773,1123:-154.656,-91.7403,-85.1177,-63.2668,0,-53.6339 1/2:31:0,16,15:0:0:16,15:572,531:-90.2489,-43.6075,-38.791,-46.9969,0,-42.4815 1/2:134:0,63,64:0:0:63,64:2252,2244:-366.227,-182.602,-163.637,-183.629,0,-164.363 1/2:38:0,21,17:0:0:21,17:752,580:-108.712,-47.3754,-41.0538,-61.6846,0,-56.5671 1/2:58:0,33,23:0:0:33,23:1184,805:-162.061,-65.4809,-55.5469,-96.5746,0,-89.6509 2/2:45:0,0,45:0:0:0,45:0,1573:-141.83,-141.83,-141.83,-13.5464,-13.5464,0 1/2:77:0,50,26:0:0:50,26:1792,902:-219.424,-73.2613,-58.2098,-146.249,0,-138.422 1/2:8:0,6,2:0:0:6,2:212,71:-23.4042,-6.14,-4.33382,-17.6186,0,-17.0166 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:22:0,20,0:0:0:20,0:720,0:-64.8189,-6.0206,0,-64.8189,-6.0206,-64.8189 1/1:90:0,90,0:0:0:90,0:3216,0:-289.607,-27.0927,0,-289.607,-27.0927,-289.607 1/2:52:0,34,17:0:0:34,17:1216,610:-148.985,-49.8286,-39.5936,-99.2294,0,-94.1118 1/1:95:1,94,0:1:36:94,0:3372,0:-300.097,-24.9996,0,-300.398,-28.2968,-303.336 1/1:44:0,43,0:0:0:43,0:1544,0:-138.893,-12.9443,0,-138.893,-12.9443,-138.893 1/2:8:0,3,4:0:0:3,4:104,143:-20.1943,-11.7379,-10.8348,-8.51812,0,-7.314 1/2:95:1,44,48:1:36:44,48:1576,1681:-262.032,-133.801,-123.494,-125.589,0,-114.077 1/2:60:0,44,16:0:0:44,16:1576,548:-173.366,-44.8267,-31.5814,-128.886,0,-124.07 1/1:44:0,43,0:0:0:43,0:1540,0:-138.533,-12.9443,0,-138.533,-12.9443,-138.533 1/1:33:0,33,0:0:0:33,0:1184,0:-106.868,-9.93399,0,-106.868,-9.93399,-106.868 chr05 28126372 . GT GG,CG 31856.9 PASS AB=0.521053,0.476842;ABP=6.66752,7.43553;AC=27,15;AF=0.642857,0.357143;AN=42;AO=967,542;CIGAR=1M1X,2X;DP=1515;DPB=1515;DPRA=0.810795,1.01589;EPP=2042.46,1111.49;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.95,2.06667;MQM=59.9524,59.9483;MQMR=0;NS=21;NUMALT=2;ODDS=7.85823;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34123,19092;QR=0;RO=0;RPL=0,0;RPP=2102.82,1179.95;RPPR=0;RPR=967,542;RUN=1,1;SAF=7,8;SAP=2042.46,1111.49;SAR=960,534;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:68:0,37,31:0:0:37,31:1307,1101:-196.462,-90.0681,-78.93,-106.748,0,-97.4158 1/2:73:0,48,24:0:0:48,24:1695,838:-206.295,-68.2575,-53.8081,-138.133,0,-130.909 1/2:52:0,30,22:0:0:30,22:1067,790:-151.755,-64.8019,-55.771,-87.3103,0,-80.6877 1/2:60:0,32,28:0:0:32,28:1139,990:-173.814,-80.9856,-71.3527,-93.1831,0,-84.7542 1/2:176:0,74,102:0:0:74,102:2585,3546:-498.911,-288.639,-266.363,-210.62,0,-179.915 1/2:58:0,31,27:0:0:31,27:1082,953:-165.951,-77.9563,-68.6243,-88.3454,0,-80.2176 1/2:98:0,54,44:0:0:54,44:1874,1562:-279.952,-127.625,-111.37,-152.678,0,-139.433 2/2:88:0,0,88:0:0:0,88:0,3120:-281.027,-281.027,-281.027,-26.4906,-26.4906,0 1/2:134:0,81,53:0:0:81,53:2869,1871:-386.415,-152.713,-128.329,-234.056,0,-218.101 1/2:8:0,4,4:0:0:4,4:144,144:-23.8592,-12.1095,-10.9054,-12.1095,0,-10.9054 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:24:0,23,0:0:0:23,0:816,0:-73.4212,-6.92369,0,-73.4212,-6.92369,-73.4212 1/1:97:0,97,0:0:0:97,0:3433,0:-309.183,-29.1999,0,-309.183,-29.1999,-309.183 1/2:81:0,23,58:0:0:23,58:806,2039:-231.903,-166.319,-159.396,-65.9345,0,-48.4748 1/1:242:0,239,0:0:0:239,0:8442,0:-759.551,-71.9462,0,-759.551,-71.9462,-759.551 1/1:49:0,48,1:0:0:48,1:1728,36:-155.445,-14.4494,0,-152.508,-11.1522,-152.207 1/2:48:0,25,23:0:0:25,23:879,784:-135.502,-63.9473,-56.4215,-71.901,0,-64.9774 1/2:50:0,30,20:0:0:30,20:1062,712:-144.89,-58.3863,-49.3554,-86.8591,0,-80.8385 1/2:44:0,26,17:0:0:26,17:920,606:-124.437,-49.4989,-41.6721,-75.0371,0,-69.9196 1/1:26:0,26,0:0:0:26,0:905,0:-81.7626,-7.82678,0,-81.7626,-7.82678,-81.7626 1/1:35:0,35,0:0:0:35,0:1226,0:-110.641,-10.5361,0,-110.641,-10.5361,-110.641 chr05 28141896 . A G 30862.6 PASS AB=0.516727;ABP=8.38597;AC=17;AF=0.404762;AN=42;AO=1322;CIGAR=1X;DP=3332;DPB=3332;DPRA=0.977773;EPP=2865.02;EPPR=4328.65;GTI=0;LEN=1;MEANALT=1.0625;MQM=56.9599;MQMR=59.743;NS=21;NUMALT=1;ODDS=17.6271;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46468;QR=71565;RO=2008;RPL=644;RPP=4.90911;RPPR=26.0616;RPR=678;RUN=1;SAF=645;SAP=4.69229;SAR=677;SRF=1081;SRP=28.657;SRR=927;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:86,88:86:3071:88:3085:-225.189,0,-224.217 0/1:185:89,96:89:3128:96:3382:-248.195,0,-226.024 0/1:68:34,34:34:1224:34:1208:-88.504,0,-89.9877 0/1:200:102,96:102:3644:96:3348:-241.327,0,-268.19 0/1:308:128,180:128:4551:180:6309:-474.825,0,-316.928 0/1:185:84,101:84:3011:101:3586:-266.449,0,-215.504 0/1:262:126,136:126:4498:136:4740:-345.968,0,-325.66 1/1:162:0,162:0:0:162:5651:-508.18,-48.7669,0 0/1:308:152,156:152:5409:156:5532:-404.758,0,-394.097 0/1:12:5,7:5:180:7:252:-19.4119,0,-12.9397 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 1/1:16:0,16:0:0:16:572:-51.7838,-4.81648,0 0/0:175:175,0:175:6224:0:0:0,-52.6802,-560 0/1:152:70,82:70:2483:82:2854:-210.568,0,-177.965 0/0:329:329,0:329:11752:0:0:0,-99.0389,-1057.53 0/0:122:122,0:122:4367:0:0:0,-36.7257,-393.186 0/1:119:57,62:57:2037:62:2212:-163.284,0,-147.69 0/1:111:47,64:47:1662:64:2274:-171.311,0,-116.452 0/1:128:87,41:87:3088:41:1427:-90.1578,0,-239.543 0/0:159:159,0:159:5677:0:0:0,-47.8638,-510.977 0/0:135:134,1:134:4767:1:36:0,-37.0408,-425.581 chr05 28141944 . T A,C 36861.1 PASS AB=0.468491,0.531509;ABP=13.4103,13.4103;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1023,751;CIGAR=1X,1X;DP=1774;DPB=1774;DPRA=1.59234,1.14934;EPP=2224.43,1633.79;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.68421,1.86667;MQM=58.5934,53.8389;MQMR=0;NS=21;NUMALT=2;ODDS=5.47977;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36623,26749;QR=0;RO=0;RPL=1023,751;RPP=2224.43,1633.79;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2224.43,1633.79;SAR=1023,751;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:0,36,61:0:0:36,61:1296,2174:-282.775,-177.048,-166.211,-106.085,0,-87.7217 1/2:104:0,49,55:0:0:49,55:1745,1961:-300.213,-159.051,-144.3,-141.516,0,-124.96 1/2:52:0,25,27:0:0:25,27:900,972:-153.029,-79.6022,-72.0765,-73.786,0,-65.6581 1/2:115:0,57,58:0:0:57,58:2018,2043:-329.735,-165.815,-148.656,-164.272,0,-146.812 1/2:205:0,73,132:0:0:73,132:2616,4721:-595.354,-383.326,-361.351,-212.384,0,-172.648 1/2:94:0,39,55:0:0:39,55:1400,1972:-271.941,-159.318,-147.578,-112.977,0,-96.4204 1/2:120:0,72,48:0:0:72,48:2588,1719:-346.952,-138.467,-116.793,-208.839,0,-194.39 2/2:102:0,0,102:0:0:0,102:0,3601:-323.43,-323.43,-323.43,-30.7051,-30.7051,0 1/2:173:0,83,90:0:0:83,90:2976,3216:-501.816,-261.39,-236.405,-240.781,0,-213.688 1/2:6:0,5,1:0:0:5,1:180,36:-17.7053,-3.29214,-1.78699,-14.7716,0,-14.4706 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 2/2:8:0,0,8:0:0:0,8:0,284:-25.8689,-25.8689,-25.8689,-2.40824,-2.40824,0 1/1:111:0,111,0:0:0:111,0:3978,0:-356.453,-33.4143,0,-356.453,-33.4143,-356.453 1/2:61:0,28,33:0:0:28,33:992,1157:-173.851,-93.3127,-84.8839,-80.8883,0,-70.9543 1/1:142:0,142,0:0:0:142,0:5096,0:-458.637,-42.7463,0,-458.637,-42.7463,-458.637 1/1:48:0,48,0:0:0:48,0:1716,0:-151.573,-14.4494,0,-151.573,-14.4494,-151.573 1/2:67:0,36,31:0:0:36,31:1277,1112:-193.779,-90.606,-79.769,-103.528,0,-94.1957 1/2:53:0,26,27:0:0:26,27:936,953:-153.429,-77.0638,-69.237,-76.7199,0,-68.5921 1/2:59:0,36,23:0:0:36,23:1296,828:-173.542,-67.8664,-57.0294,-106.035,0,-99.1111 1/1:92:0,92,0:0:0:92,0:3285,0:-293.9,-27.6948,0,-293.9,-27.6948,-293.9 1/1:60:0,60,0:0:0:60,0:2148,0:-193.296,-18.0618,0,-193.296,-18.0618,-193.296 chr05 28169257 . CAGTTTA TAGATTA,TAGATTG 10918.4 PASS AB=0.472727,0.523636;ABP=4.78696,4.34477;AC=27,15;AF=0.642857,0.357143;AN=42;AO=357,169;CIGAR=1X2M1X3M,1X2M1X2M1X;DP=531;DPB=531;DPRA=0,0.664474;EPP=778.226,369.989;EPPR=0;GTI=1;LEN=7,7;MEANALT=1.85714,2.14286;MQM=59.7171,59.3077;MQMR=0;NS=21;NUMALT=2;ODDS=0.216005;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=12616,5979;QR=0;RO=0;RPL=357,169;RPP=778.226,369.989;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=778.226,369.989;SAR=357,169;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:36:0,14,22:0:0:14,22:499,778:-104.262,-63.588,-59.3735,-41.0292,0,-34.4065 1/2:9:0,3,6:0:0:3,6:108,216:-26.7883,-17.976,-17.0729,-9.17208,0,-7.3659 1/2:26:0,11,15:0:0:11,15:395,539:-76.5526,-44.3307,-41.0194,-32.5808,0,-28.0654 1/2:21:0,11,10:0:0:11,10:388,359:-61.2311,-29.641,-26.3296,-31.946,0,-28.9357 1/2:38:0,16,22:0:0:16,22:575,773:-110.175,-63.2631,-58.4466,-47.2682,0,-40.6455 1/2:24:0,9,15:0:0:9,15:315,518:-68.0045,-42.3737,-39.6644,-25.9788,0,-21.4633 1/2:43:0,18,25:0:0:18,25:647,886:-125.307,-72.5215,-67.103,-53.1431,0,-45.6174 2/2:28:0,2,25:0:0:2,25:72,885:-79.6128,-73.7375,-73.1354,-7.52575,-1.644,0 1/1:44:0,44,0:0:0:44,0:1552,0:-139.864,-13.2453,0,-139.864,-13.2453,-139.864 1/1:10:0,10,0:0:0:10,0:334,0:-30.3648,-3.0103,0,-30.3648,-3.0103,-30.3648 1/2:7:0,6,1:0:0:6,1:215,36:-20.8306,-3.29724,-1.49106,-17.893,0,-17.592 1/2:10:0,7,3:0:0:7,3:246,106:-29.0082,-8.98607,-6.87886,-20.3747,0,-19.4716 1/1:53:0,51,0:0:0:51,0:1790,0:-161.021,-15.3525,0,-161.021,-15.3525,-161.021 1/2:14:0,6,8:0:0:6,8:211,281:-40.3961,-23.22,-21.4138,-17.5274,0,-15.1192 1/1:50:0,50,0:0:0:50,0:1752,0:-157.942,-15.0515,0,-157.942,-15.0515,-157.942 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:11:0,2,9:0:0:2,9:72,324:-32.6714,-26.7966,-26.1945,-6.23466,0,-3.52539 1/2:13:0,10,3:0:0:10,3:353,108:-37.9121,-9.17208,-6.16178,-29.0983,0,-28.1952 1/2:23:0,17,5:0:0:17,5:610,170:-63.5946,-13.8205,-8.70303,-49.8107,0,-48.3055 1/1:50:0,49,0:0:0:49,0:1746,0:-157.103,-14.7505,0,-157.103,-14.7505,-157.103 1/1:12:0,12,0:0:0:12,0:412,0:-37.4064,-3.61236,0,-37.4064,-3.61236,-37.4064 chr05 28169310 . TTA CTG,CTA 26114 PASS AB=0.496723,0.501966;ABP=3.08145,3.03591;AC=28,14;AF=0.666667,0.333333;AN=42;AO=882,439;CIGAR=1X1M1X,1X2M;DP=1322;DPB=1322;DPRA=1.13036,1.00199;EPP=1918.25,956.287;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.65,2;MQM=40.9286,39.9727;MQMR=0;NS=21;NUMALT=2;ODDS=7.8536;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31293,15570;QR=0;RO=0;RPL=0,0;RPP=1918.25,956.287;RPPR=0;RPR=882,439;RUN=1,1;SAF=882,439;SAP=1918.25,956.287;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,41,29:0:0:41,29:1425,1028:-193.889,-81.2346,-68.8924,-112.996,0,-104.266 1/2:55:0,22,33:0:0:22,33:781,1157:-147.849,-88.2437,-81.621,-59.9381,0,-50.0041 1/2:85:0,45,40:0:0:45,40:1599,1430:-237.819,-113.284,-99.7372,-124.879,0,-112.838 1/2:67:0,37,29:0:0:37,29:1311,1027:-183.72,-80.7441,-69.606,-102.969,0,-94.2393 1/2:105:0,61,44:0:0:61,44:2170,1562:-293.508,-122.865,-104.502,-170.986,0,-157.741 1/2:52:0,30,22:0:0:30,22:1076,780:-141.307,-60.0175,-50.9866,-81.6238,0,-75.0011 1/2:99:0,34,65:0:0:34,65:1204,2297:-264.121,-174.513,-164.278,-89.9357,0,-70.3687 2/2:56:0,0,56:0:0:0,56:0,1999:-172.824,-172.824,-172.824,-16.8577,-16.8577,0 1/1:109:0,109,0:0:0:109,0:3865,0:-341.543,-32.8123,0,-341.543,-32.8123,-341.543 1/1:19:0,19,0:0:0:19,0:670,0:-56.6347,-5.71957,0,-56.6347,-5.71957,-56.6347 1/1:4:0,4,0:0:0:4,0:139,0:-11.6955,-1.20412,0,-11.6955,-1.20412,-11.6955 1/2:30:0,17,13:0:0:17,13:595,456:-81.4102,-35.6936,-30.5761,-46.0508,0,-42.1374 1/1:91:0,91,0:0:0:91,0:3233,0:-280.853,-27.3937,0,-280.853,-27.3937,-280.853 1/2:70:0,28,42:0:0:28,42:956,1486:-192.521,-117.46,-109.031,-75.3975,0,-62.7543 1/1:100:0,100,0:0:0:100,0:3572,0:-310.371,-30.103,0,-310.371,-30.103,-310.371 1/1:63:0,63,0:0:0:63,0:2242,0:-198.524,-18.9649,0,-198.524,-18.9649,-198.524 1/2:58:0,26,32:0:0:26,32:920,1144:-165.168,-91.6784,-83.8516,-73.8383,0,-64.2053 1/2:37:0,18,19:0:0:18,19:648,672:-101.971,-52.5448,-47.1263,-49.7645,0,-44.0449 1/2:35:0,20,15:0:0:20,15:718,532:-98.5786,-42.0681,-36.0475,-56.8551,0,-52.3397 1/1:80:0,80,0:0:0:80,0:2849,0:-243.428,-24.0824,0,-243.428,-24.0824,-243.428 1/1:37:0,37,0:0:0:37,0:1320,0:-110.963,-11.1381,0,-110.963,-11.1381,-110.963 chr05 28169329 . CCGAAAC CGGAAAC,GCAAAAA 25647.5 PASS AB=0.486202,0.505913;ABP=4.26867,3.24143;AC=28,14;AF=0.666667,0.333333;AN=42;AO=864,441;CIGAR=1M1X5M,1X1M1X3M1X;DP=1314;DPB=1314;DPRA=1.10263,1.01489;EPP=1879.16,960.63;EPPR=7.35324;GTI=0;LEN=1,7;MEANALT=1.9,2.38462;MQM=40.9491,39.9683;MQMR=47;NS=21;NUMALT=2;ODDS=7.061;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30532,15547;QR=72;RO=2;RPL=864,441;RPP=1879.16,960.63;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=864,441;SAP=1879.16,960.63;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,39,31:0:0:39,31:1400,1089:-196.524,-85.6665,-73.9263,-111.201,0,-101.869 1/2:56:0,22,34:0:0:22,34:783,1198:-150.436,-90.7102,-84.0875,-60.0585,0,-49.8235 1/2:84:0,44,40:0:0:44,40:1548,1414:-233.725,-112.087,-98.8415,-121.981,0,-109.939 1/2:67:1,35,30:1:36:35,30:1236,1074:-177.908,-80.8929,-73.2085,-94.4738,0,-88.2946 1/2:105:0,61,43:0:0:61,43:2174,1511:-289.551,-118.03,-99.6674,-171.548,0,-158.604 1/2:52:0,29,22:0:0:29,22:1031,767:-137.501,-58.8741,-50.1442,-78.7232,0,-72.1006 1/2:99:0,33,65:0:0:33,65:1168,2292:-262.116,-173.372,-163.438,-88.8169,0,-69.25 2/2:57:0,0,56:0:0:0,56:0,1962:-169.432,-169.432,-169.432,-16.8577,-16.8577,0 1/1:106:0,106,0:0:0:106,0:3769,0:-333.224,-31.9092,0,-333.224,-31.9092,-333.224 1/1:19:0,19,0:0:0:19,0:646,0:-55.669,-5.71957,0,-55.669,-5.71957,-55.669 1/1:4:0,4,0:0:0:4,0:126,0:-11.0006,-1.20412,0,-11.0006,-1.20412,-11.0006 1/2:30:0,17,13:0:0:17,13:585,458:-80.9701,-35.6675,-30.55,-45.6355,0,-41.7221 1/1:90:0,90,0:0:0:90,0:3149,0:-274.918,-27.0927,0,-274.918,-27.0927,-274.918 1/2:69:0,27,42:0:0:27,42:956,1477:-191.517,-116.372,-108.244,-75.4877,0,-62.8444 1/1:100:0,100,0:0:0:100,0:3552,0:-310.276,-30.103,0,-310.276,-30.103,-310.276 1/1:62:0,62,0:0:0:62,0:2206,0:-195.273,-18.6639,0,-195.273,-18.6639,-195.273 1/2:58:0,26,31:0:0:26,31:932,1105:-162.608,-88.2129,-80.3861,-74.3926,0,-65.0607 1/2:37:0,18,19:0:0:18,19:635,670:-101.238,-52.0627,-46.6441,-49.512,0,-43.7924 1/2:34:0,19,15:0:0:19,15:670,530:-94.418,-41.6188,-35.8992,-53.1398,0,-48.6243 1/1:78:0,78,0:0:0:78,0:2754,0:-237.542,-23.4803,0,-237.542,-23.4803,-237.542 1/1:37:1,35,0:1:36:35,0:1212,0:-99.9693,-7.55337,0,-100.27,-10.5361,-103.2 chr05 28169336 . C T 16481.9 PASS AB=0.494681;ABP=3.19511;AC=28;AF=0.666667;AN=42;AO=875;CIGAR=1X;DP=1311;DPB=1311;DPRA=1.14182;EPP=1903.05;EPPR=947.601;GTI=0;LEN=1;MEANALT=1.05;MQM=40.8971;MQMR=40.0644;NS=21;NUMALT=1;ODDS=7.94399;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31053;QR=15416;RO=435;RPL=875;RPP=1903.05;RPPR=947.601;RPR=0;RUN=1;SAF=875;SAP=1903.05;SAR=0;SRF=435;SRP=947.601;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:27,40:27:972:40:1423:-104.586,0,-64.4188 0/1:56:34,22:34:1202:22:792:-50.4754,0,-84.6255 0/1:84:40,44:40:1401:44:1568:-110.364,0,-97.4653 0/1:66:30,36:30:1076:36:1284:-92.0541,0,-73.2232 0/1:105:44,61:44:1559:61:2171:-157.873,0,-103.422 0/1:52:22,30:22:784:30:1068:-74.4696,0,-51.2443 0/1:97:64,33:64:2283:33:1176:-68.7445,0,-162.353 0/0:55:55,0:55:1926:0:0:0,-16.5566,-166.736 1/1:109:0,109:0:0:109:3846:-339.77,-32.8123,0 1/1:19:0,19:0:0:19:684:-57.0525,-5.71957,0 1/1:4:0,4:0:0:4:144:-11.7674,-1.20412,0 0/1:28:12,16:12:424:16:572:-40.6612,0,-27.9943 1/1:91:0,91:0:0:91:3222:-279.739,-27.3937,0 0/1:66:40,26:40:1424:26:919:-60.1211,0,-104.061 1/1:100:0,100:0:0:100:3573:-310.096,-30.103,0 1/1:63:1,62:1:21:62:2176:-190.815,-16.865,0 0/1:58:32,26:32:1136:26:913:-63.5023,0,-83.1797 0/1:37:19,18:19:668:18:629:-42.5252,0,-46.4761 0/1:35:15,20:15:540:20:716:-52.179,0,-36.2623 1/1:81:0,81:0:0:81:2875:-245.048,-24.3834,0 1/1:37:0,37:0:0:37:1302:-109.96,-11.1381,0 chr05 28213653 . C A 19615 PASS AB=0.61849;ABP=96.6664;AC=28;AF=0.666667;AN=42;AO=959;CIGAR=1X;DP=1310;DPB=1310;DPRA=1.09912;EPP=2085.45;EPPR=760.854;GTI=2;LEN=1;MEANALT=1.1;MQM=59.9844;MQMR=60;NS=21;NUMALT=1;ODDS=3.10124;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34220;QR=12457;RO=349;RPL=0;RPP=2085.45;RPPR=760.854;RPR=959;RUN=1;SAF=0;SAP=2085.45;SAR=959;SRF=0;SRP=760.854;SRR=349;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:27,73:27:963:73:2599:-204.055,0,-56.8829 0/1:99:30,68:30:1067:68:2423:-188.613,0,-66.6256 0/1:26:4,22:4:144:22:784:-63.0571,0,-5.48684 0/1:45:19,26:19:684:26:927:-70.201,0,-48.344 0/1:106:47,59:47:1655:59:2105:-157.808,0,-117.325 0/1:70:42,28:42:1497:28:1008:-69.9643,0,-113.95 0/1:95:43,52:43:1540:52:1868:-139.801,0,-110.295 0/0:57:57,0:57:2031:0:0:0,-17.1587,-183.062 1/1:98:0,98:0:0:98:3483:-313.68,-29.5009,0 1/1:15:0,15:0:0:15:525:-47.5781,-4.51545,0 1/1:10:0,10:0:0:10:343:-31.2006,-3.0103,0 0/1:26:11,15:11:396:15:529:-40.1139,0,-28.156 1/1:64:0,64:0:0:64:2280:-205.46,-19.2659,0 0/1:91:37,54:37:1332:54:1940:-147.465,0,-92.7887 1/1:156:0,156:0:0:156:5567:-501.153,-46.9607,0 1/1:62:0,62:0:0:62:2209:-199.073,-18.6639,0 0/1:71:22,49:22:788:49:1759:-137.221,0,-49.8717 0/1:30:8,21:8:288:21:747:-58.5864,0,-17.291 0/1:9:1,8:1:36:8:288:-23.5581,0,-0.889005 1/1:46:1,45:1:36:45:1620:-142.492,-10.2491,0 1/1:34:0,34:0:0:34:1216:-109.747,-10.235,0 chr05 28285583 . GTT ATC,GTC 35865 PASS AB=0.44965,0.548951;ABP=34.4982,32.7731;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1434,979;CIGAR=1X1M1X,2M1X;DP=2415;DPB=2415;DPRA=0.578906,1.15806;EPP=3116.9,2128.88;EPPR=0;GTI=2;LEN=3,1;MEANALT=1.8,2.06667;MQM=26.2238,36.9285;MQMR=0;NS=21;NUMALT=2;ODDS=0.105356;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50987,35028;QR=0;RO=0;RPL=0,0;RPP=3116.9,2128.88;RPPR=0;RPR=1434,979;RUN=1,1;SAF=1434,979;SAP=3116.9,2128.88;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,72,58:0:0:72,58:2578,2084:-308.126,-159.854,-138.18,-148.577,0,-131.117 1/2:86:0,26,60:0:0:26,60:915,2148:-199.644,-154.892,-147.065,-45.0062,0,-26.9444 1/2:144:0,46,98:0:0:46,98:1636,3489:-361.538,-267.215,-253.368,-94.608,0,-65.107 1/2:203:0,103,100:0:0:103,100:3669,3585:-480.862,-271.017,-240.011,-210.142,0,-180.039 1/2:157:0,68,89:0:0:68,89:2395,3196:-384.059,-245.525,-225.055,-138.829,0,-112.037 1/2:116:0,51,63:0:0:51,63:1805,2251:-250.497,-161.462,-146.11,-89.0319,0,-70.067 1/2:178:0,79,99:0:0:79,99:2798,3544:-389.916,-253.159,-229.377,-137.023,0,-107.221 2/2:192:0,0,192:0:0:0,192:0,6882:-567.491,-567.491,-567.491,-57.7978,-57.7978,0 1/1:165:0,165,0:0:0:165,0:5890,0:-413.372,-49.67,0,-413.372,-49.67,-413.372 1/2:11:0,10,1:0:0:10,1:358,36:-22.1404,-3.04512,-0.0348164,-19.4219,0,-19.1209 1/1:4:0,4,0:0:0:4,0:144,0:-8.4318,-1.20412,0,-8.4318,-1.20412,-8.4318 1/2:53:0,22,31:0:0:22,31:790,1103:-122.498,-80.3229,-73.7002,-42.4523,0,-33.1203 1/1:196:0,196,0:0:0:196,0:6948,0:-460.778,-59.0019,0,-460.778,-59.0019,-460.778 1/2:134:0,54,80:0:0:54,80:1878,2844:-326.304,-217.709,-201.454,-108.884,0,-84.8012 1/1:173:0,171,2:0:0:171,2:6103,72:-402.055,-51.4761,0,-396.494,-45.5733,-395.892 1/1:52:0,52,0:0:0:52,0:1857,0:-131.074,-15.6536,0,-131.074,-15.6536,-131.074 1/2:78:0,33,45:0:0:33,45:1166,1608:-199.034,-125.902,-115.968,-73.4388,0,-59.8924 1/2:78:0,40,38:0:0:40,38:1420,1362:-178.597,-102.463,-90.4213,-76.4246,0,-64.9855 1/2:62:0,39,23:0:0:39,23:1385,824:-144.072,-63.6723,-51.9321,-80.7105,0,-73.7868 1/1:159:0,159,0:0:0:159,0:5671,0:-352.446,-47.8638,0,-352.446,-47.8638,-352.446 1/1:44:0,44,0:0:0:44,0:1581,0:-90.2794,-13.2453,0,-90.2794,-13.2453,-90.2794 chr05 28336410 . T A 14282.9 PASS AB=0.461404;ABP=25.1365;AC=14;AF=0.333333;AN=42;AO=906;CIGAR=1X;DP=2950;DPB=2950;DPRA=1.29024;EPP=1970.36;EPPR=4428.48;GTI=0;LEN=1;MEANALT=1;MQM=43.7373;MQMR=59.1249;NS=21;NUMALT=1;ODDS=6.56852;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31742;QR=72810;RO=2042;RPL=906;RPP=1970.36;RPPR=4428.48;RPR=0;RUN=1;SAF=906;SAP=1970.36;SAR=0;SRF=2042;SRP=4437.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:102,45:102:3653:45:1612:-97.5192,0,-284.527 0/1:183:96,87:96:3436:87:3073:-215.445,0,-253.921 0/1:192:108,84:108:3842:84:2920:-201.267,0,-286.973 0/1:106:58,48:58:2072:48:1680:-115.972,0,-154.394 0/1:315:162,153:162:5795:153:5325:-376.626,0,-425.79 0/1:163:71,92:71:2525:92:3249:-236.02,0,-178.415 0/1:214:123,91:123:4378:91:3163:-215.266,0,-329.218 1/1:111:0,111:0:0:111:3906:-342.286,-33.4143,0 0/0:273:271,2:271:9615:2:72:0,-75.8909,-858.604 0/0:41:40,1:40:1428:1:36:0,-8.82122,-124.794 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.359 0/1:42:19,23:19:671:23:808:-58.9756,0,-47.6438 0/0:178:177,1:177:6305:1:36:0,-50.0348,-563.528 0/1:145:55,90:55:1976:90:3102:-229.73,0,-134.106 0/0:277:275,0:275:9813:0:0:0,-82.7832,-881.768 0/0:111:111,0:111:3958:0:0:0,-33.4143,-356.176 0/1:81:45,36:45:1612:36:1280:-90.0902,0,-120.945 0/1:81:49,32:49:1756:32:1124:-75.004,0,-133.855 0/1:41:33,8:33:1172:8:288:-13.5368,0,-93.3571 0/0:182:180,2:180:6419:2:68:0,-48.434,-570.159 0/0:46:46,0:46:1628:0:0:0,-13.8474,-145.537 chr05 28358357 . G A 9983.09 PASS AB=0.483083;ABP=5.65525;AC=14;AF=0.333333;AN=42;AO=575;CIGAR=1X;DP=1751;DPB=1751;DPRA=1.19342;EPP=1225.69;EPPR=2449.15;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9426;MQMR=59.9813;NS=21;NUMALT=1;ODDS=9.22791;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20532;QR=40536;RO=1174;RPL=572;RPP=1225.69;RPPR=2457.67;RPR=3;RUN=1;SAF=0;SAP=1251.61;SAR=575;SRF=1;SRP=2543.64;SRR=1173;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:50,63:50:1728:63:2228:-166.766,0,-121.784 0/1:86:34,51:34:1183:51:1828:-138.89,0,-80.8656 0/1:60:34,26:34:1166:26:936:-66.4977,0,-87.1803 0/1:105:60,45:60:2073:45:1604:-113.042,0,-155.232 0/1:172:95,77:95:3291:77:2760:-196.862,0,-244.638 0/1:124:65,59:65:2236:59:2120:-153.739,0,-164.177 0/1:118:68,50:68:2361:50:1792:-126.04,0,-177.228 1/1:59:0,59:0:0:59:2108:-189.989,-17.7608,0 0/0:103:103,0:103:3598:0:0:0,-31.0061,-324.027 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7255 0/0:4:4,0:4:135:0:0:0,-1.20412,-12.4825 0/1:24:11,13:11:383:13:468:-35.2349,0,-27.5678 0/0:169:168,0:168:5829:0:0:0,-50.573,-524.471 0/1:89:44,45:44:1517:45:1604:-117.858,0,-110.028 0/0:121:121,0:121:4134:0:0:0,-36.4246,-372.258 0/0:64:64,0:64:2208:0:0:0,-19.2659,-198.985 0/1:48:17,31:17:600:31:1090:-83.9513,0,-39.8798 0/1:61:32,29:32:1109:29:1026:-74.2885,0,-81.7519 0/1:64:39,25:39:1352:25:900:-62.0551,0,-102.709 0/0:111:109,2:109:3771:2:68:0,-26.9566,-333.141 0/0:51:51,0:51:1691:0:0:0,-15.3525,-152.467 chr05 28368323 . A T 32810.2 PASS AB=0.516688;ABP=6.77902;AC=28;AF=0.666667;AN=42;AO=1634;CIGAR=1X;DP=2523;DPB=2523;DPRA=0.905682;EPP=3551.2;EPPR=1931.28;GTI=0;LEN=1;MEANALT=1.05;MQM=54.0171;MQMR=59.5631;NS=21;NUMALT=1;ODDS=6.57968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58618;QR=31667;RO=888;RPL=0;RPP=3551.2;RPPR=1931.28;RPR=1634;RUN=1;SAF=0;SAP=3551.2;SAR=1634;SRF=0;SRP=1931.28;SRR=888;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:180:104,76:104:3714:76:2728:-191.021,0,-280.252 0/1:133:62,71:62:2206:71:2548:-188.595,0,-158.717 0/1:132:72,60:72:2570:60:2160:-154.039,0,-191.81 0/1:178:66,112:66:2360:112:4024:-308.142,0,-159.052 0/1:188:97,91:97:3446:91:3268:-237.036,0,-253.753 0/1:127:61,66:61:2192:66:2368:-173.523,0,-159.142 0/1:120:57,63:57:2018:63:2245:-165.486,0,-145.752 0/0:132:132,0:132:4712:0:0:0,-39.736,-424.232 1/1:229:1,228:1:36:228:8192:-731.622,-65.3376,0 1/1:19:0,19:0:0:19:680:-61.3186,-5.71957,0 1/1:7:0,7:0:0:7:252:-22.9654,-2.10721,0 0/1:49:18,31:18:648:31:1116:-85.7052,0,-43.8968 1/1:160:0,160:0:0:160:5708:-511.953,-48.1648,0 0/1:140:78,62:78:2769:62:2218:-157.541,0,-207.166 1/1:125:0,125:0:0:125:4481:-401.481,-37.6288,0 1/1:134:0,134:0:0:134:4812:-431.335,-40.338,0 0/1:179:89,90:89:3164:90:3230:-235.976,0,-231.017 0/1:64:24,39:24:860:39:1404:-106.885,0,-58.3517 0/1:68:24,44:24:864:44:1568:-120.673,0,-57.6079 1/1:110:2,108:2:72:108:3888:-342.191,-26.2766,0 1/1:49:1,48:1:36:48:1728:-150.794,-11.5628,0 chr05 28378523 . TGGGCA TGGGGCA 9974.29 PASS AB=0.471602;ABP=9.91673;AC=14;AF=0.333333;AN=42;AO=588;CIGAR=1M1I5M;DP=1917;DPB=2015.33;DPRA=1.06616;EPP=1271.16;EPPR=2858.5;GTI=0;LEN=1;MEANALT=1.6;MQM=59.4592;MQMR=59.9293;NS=21;NUMALT=1;ODDS=21.9146;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20636;QR=45642;RO=1315;RPL=588;RPP=1279.84;RPPR=2858.5;RPR=0;RUN=1;SAF=587;SAP=1271.16;SAR=1;SRF=1315;SRP=2858.5;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:39,30:39:1337:30:1031:-72.3101,0,-99.8542 0/1:44:20,24:20:685:24:855:-64.0249,0,-48.7225 0/1:117:56,60:56:1936:60:2114:-155.214,0,-139.235 0/1:86:50,36:50:1748:36:1260:-87.6835,0,-131.711 0/1:112:50,62:50:1716:62:2150:-159.997,0,-121.008 0/1:68:35,33:35:1219:33:1172:-85.1794,0,-89.5436 0/1:110:63,46:63:2197:46:1631:-113.89,0,-164.825 1/1:120:0,119:0:0:119:4195:-377.449,-35.8226,0 0/0:150:150,0:150:5225:0:0:0,-45.1545,-470.397 0/0:20:18,0:18:631:0:0:0,-5.41854,-56.7578 0/0:16:16,0:16:543:0:0:0,-4.81648,-49.1526 0/1:49:21,28:21:737:28:982:-73.9412,0,-51.9012 0/0:126:125,0:125:4377:0:0:0,-37.6287,-393.901 0/1:137:76,60:76:2624:60:2082:-146.367,0,-195.152 0/0:166:164,0:164:5679:0:0:0,-49.3689,-510.887 0/0:37:35,2:35:1209:2:72:0,-4.30139,-102.274 0/1:34:16,17:16:556:17:608:-44.8432,0,-40.1587 0/1:89:55,33:55:1892:33:1140:-76.0482,0,-143.706 0/1:71:34,36:34:1178:36:1276:-93.5225,0,-84.9314 0/0:251:247,2:247:8595:2:68:0,-68.8921,-767.078 0/0:45:45,0:45:1558:0:0:0,-13.5463,-140.51 chr05 28421519 . G A 26823.1 PASS AB=0.483465;ABP=6.02642;AC=28;AF=0.666667;AN=42;AO=1333;CIGAR=1X;DP=2109;DPB=2109;DPRA=0.851282;EPP=2415.72;EPPR=1634.19;GTI=0;LEN=1;MEANALT=1.05;MQM=39.9625;MQMR=59.9316;NS=21;NUMALT=1;ODDS=1.90493;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47754;QR=27622;RO=775;RPL=58;RPP=2415.72;RPPR=1634.19;RPR=1275;RUN=1;SAF=1333;SAP=2897.58;SAR=0;SRF=775;SRP=1685.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:53,46:53:1892:46:1652:-111.463,0,-140.756 0/1:108:54,54:54:1932:54:1921:-135.199,0,-141.645 0/1:134:77,57:77:2749:57:2048:-135.635,0,-207.313 0/1:102:52,50:52:1834:50:1796:-122.301,0,-134.615 0/1:153:69,84:69:2472:84:3020:-209.835,0,-176.67 0/1:44:23,21:23:824:21:756:-52.2143,0,-61.2367 0/1:163:92,71:92:3271:71:2544:-172.534,0,-245.543 0/0:117:117,0:117:4196:0:0:0,-35.2205,-377.818 1/1:165:1,164:1:36:164:5876:-496.455,-46.0717,0 1/1:15:0,15:0:0:15:540:-47.2656,-4.51545,0 1/1:5:0,5:0:0:5:180:-16.0112,-1.50515,0 0/1:44:19,25:19:667:25:896:-64.6312,0,-47.1093 1/1:144:0,144:0:0:144:5148:-437.956,-43.3483,0 0/1:122:86,36:86:3066:36:1284:-72.2293,0,-239.443 1/1:149:0,148:0:0:148:5298:-452.461,-44.5524,0 1/1:73:0,73:0:0:73:2624:-225.787,-21.9752,0 0/1:90:47,43:47:1649:43:1525:-103.368,0,-121.603 0/1:97:49,48:49:1742:48:1714:-116.071,0,-127.863 0/1:114:35,79:35:1256:79:2832:-208.699,0,-79.0217 1/1:108:0,108:0:0:108:3876:-335.93,-32.5112,0 1/1:63:1,62:1:36:62:2224:-190.318,-15.3703,0 chr05 28421530 . CCGC CGGGTGG,CGGG 40160.1 PASS AB=0.470866,0.518898;ABP=12.3733,6.94973;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1277,783;CIGAR=1M3I1X1M1X,1M1X1M1X;DP=2084;DPB=3052;DPRA=0.82563,1.93319;EPP=2775.98,1703.27;EPPR=0;GTI=1;LEN=7,4;MEANALT=2.75,3.125;MQM=39.1073,59.8186;MQMR=0;NS=21;NUMALT=2;ODDS=0.476618;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44775,27211;QR=0;RO=0;RPL=1277,783;RPP=2775.98,1703.27;RPPR=0;RPR=0,0;RUN=1,1;SAF=1277,783;SAP=2775.98,1703.27;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:102:0,44,57:0:0:44,57:1556,1943:-277.133,-157.465,-144.22,-119.646,0,-102.487 1/2:108:0,53,55:0:0:53,55:1871,1900:-301.806,-154.716,-138.761,-147.434,0,-130.877 1/2:132:0,55,75:0:0:55,75:1923,2657:-365.39,-216.533,-199.976,-148.931,0,-126.354 1/2:103:0,48,53:0:0:48,53:1689,1830:-278.069,-148.734,-134.285,-129.394,0,-113.439 1/2:156:0,85,69:0:0:85,69:2936,2391:-418.66,-194.312,-168.725,-224.326,0,-203.555 1/2:45:0,21,24:0:0:21,24:737,834:-125.507,-68.1498,-61.8282,-57.6989,0,-50.4741 1/2:162:0,69,92:0:0:69,92:2433,3198:-450.517,-259.991,-239.22,-190.51,0,-162.815 2/2:119:0,0,119:0:0:0,119:0,4134:-372.247,-372.247,-372.247,-35.8226,-35.8226,0 1/1:160:0,151,2:0:0:151,2:5263,58:-448.433,-45.4555,0,-443.975,-41.0071,-443.373 1/1:13:0,13,0:0:0:13,0:443,0:-38.8719,-3.91339,0,-38.8719,-3.91339,-38.8719 1/1:5:0,5,0:0:0:5,0:176,0:-15.7056,-1.50515,0,-15.7056,-1.50515,-15.7056 1/2:42:0,23,18:0:0:23,18:815,619:-113.997,-50.3145,-43.3908,-63.726,0,-58.3075 1/1:144:0,141,2:0:0:141,2:4978,55:-423.399,-42.4452,0,-419.191,-38.2421,-418.589 1/2:123:0,36,87:0:0:36,87:1229,3055:-342.626,-248.99,-238.153,-93.9659,0,-67.7763 1/1:142:0,141,0:0:0:141,0:4951,0:-423.593,-42.4452,0,-423.593,-42.4452,-423.593 1/1:69:0,69,0:0:0:69,0:2417,0:-207.505,-20.7711,0,-207.505,-20.7711,-207.505 1/2:89:0,42,45:0:0:42,45:1478,1583:-242.497,-128.854,-116.211,-113.627,0,-100.08 1/2:97:0,48,49:0:0:48,49:1679,1701:-266.758,-138.621,-124.171,-128.476,0,-113.726 1/2:111:0,74,35:0:0:74,35:2620,1226:-301.851,-99.7873,-77.511,-202.09,0,-191.554 1/1:101:0,98,1:0:0:98,1:3437,27:-297.924,-29.5009,0,-295.815,-27.4169,-295.514 1/1:61:0,61,0:0:0:61,0:2144,0:-187.411,-18.3628,0,-187.411,-18.3628,-187.411 chr05 28421582 . C T 7855.73 PASS AB=0.480204;ABP=5.67541;AC=14;AF=0.333333;AN=42;AO=452;CIGAR=1X;DP=1268;DPB=1268;DPRA=1.37021;EPP=984.516;EPPR=1774.93;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.01171;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16138;QR=29107;RO=816;RPL=0;RPP=984.516;RPPR=1774.93;RPR=452;RUN=1;SAF=0;SAP=984.516;SAR=452;SRF=0;SRP=1774.93;SRR=816;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:34,13:34:1209:13:468:-28.3112,0,-94.9657 0/1:70:31,39:31:1112:39:1395:-104.776,0,-79.3192 0/1:52:27,25:27:968:25:900:-65.6675,0,-71.7838 0/1:87:37,50:37:1328:50:1788:-135.012,0,-93.6326 0/1:115:55,60:55:1968:60:2152:-159.329,0,-142.777 0/1:48:33,15:33:1179:15:536:-34.1254,0,-91.9678 0/1:117:49,68:49:1728:68:2414:-182.296,0,-120.582 1/1:75:0,75:0:0:75:2680:-241.445,-22.5773,0 0/0:106:106,0:106:3779:0:0:0,-31.9092,-340.31 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:31:20,11:20:712:11:396:-26.6508,0,-55.0747 0/0:80:80,0:80:2872:0:0:0,-24.0824,-258.716 0/1:39:17,22:17:608:22:780:-58.7829,0,-43.3119 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/1:39:19,20:19:675:20:712:-52.6665,0,-49.3368 0/1:80:46,34:46:1638:34:1205:-84.6715,0,-123.625 0/1:58:39,19:39:1391:19:680:-44.0694,0,-108.029 0/0:56:56,0:56:1997:0:0:0,-16.8577,-180.002 0/0:71:70,1:70:2463:1:32:0,-18.1738,-218.724 chr05 28421597 . C T 16791.3 PASS AB=0.522727;ABP=6.56362;AC=28;AF=0.666667;AN=42;AO=826;CIGAR=1X;DP=1281;DPB=1281;DPRA=0.804;EPP=1753.48;EPPR=973.735;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.23741;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29583;QR=16219;RO=455;RPL=5;RPP=1753.48;RPPR=973.735;RPR=821;RUN=1;SAF=0;SAP=1796.65;SAR=826;SRF=0;SRP=991.03;SRR=455;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:13,35:13:460:35:1252:-98.5356,0,-27.2859 0/1:70:40,30:40:1419:30:1080:-76.4412,0,-106.935 0/1:52:25,27:25:883:27:968:-71.7838,0,-64.1339 0/1:86:49,37:49:1748:37:1324:-93.5735,0,-131.716 0/1:117:61,56:61:2184:56:2012:-146.133,0,-161.605 0/1:47:15,32:15:536:32:1152:-89.8417,0,-34.4264 0/1:121:67,54:67:2404:54:1923:-136.922,0,-180.192 0/0:75:75,0:75:2675:0:0:0,-22.5772,-240.995 1/1:109:0,109:0:0:109:3898:-351.014,-32.8123,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:31:11,20:11:392:20:720:-55.7968,0,-26.2881 1/1:79:0,79:0:0:79:2828:-254.759,-23.7814,0 0/1:40:24,16:24:851:16:576:-40.1338,0,-64.8683 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 1/1:35:0,35:0:0:35:1252:-112.985,-10.5361,0 0/1:40:21,19:21:756:19:684:-49.8491,0,-56.326 0/1:82:33,49:33:1155:49:1760:-133.999,0,-79.5684 0/1:58:19,39:19:684:39:1392:-108.119,0,-44.4306 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 1/1:72:2,70:2:72:70:2490:-217.516,-14.8374,0 chr05 28430302 . G A 27265.2 PASS AB=0.510886;ABP=4.33412;AC=28;AF=0.666667;AN=42;AO=1356;CIGAR=1X;DP=2092;DPB=2092;DPRA=0.936792;EPP=2947.53;EPPR=1599.04;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9941;MQMR=60;NS=21;NUMALT=1;ODDS=9.591;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48455;QR=26184;RO=735;RPL=0;RPP=2947.53;RPPR=1599.04;RPR=1356;RUN=1;SAF=0;SAP=2947.53;SAR=1356;SRF=0;SRP=1599.04;SRR=735;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:61,44:61:2151:44:1567:-109.713,0,-162.247 0/1:75:36,39:36:1296:39:1404:-104.082,0,-94.3667 0/1:77:49,28:49:1741:28:1008:-67.857,0,-133.793 0/1:160:68,92:68:2436:92:3225:-242.305,0,-171.33 0/1:210:117,93:117:4163:93:3340:-237.6,0,-311.636 0/1:88:45,43:45:1596:43:1528:-111.32,0,-117.44 0/1:194:88,105:88:3123:105:3745:-278.792,0,-222.837 0/0:106:106,0:106:3783:0:0:0,-31.9092,-340.669 1/1:176:0,176:0:0:176:6310:-567.99,-52.9813,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:27:15,12:15:540:12:420:-30.0056,0,-40.8087 1/1:152:0,152:0:0:152:5455:-491.076,-45.7566,0 0/1:119:46,73:46:1639:73:2593:-197.796,0,-111.975 1/1:133:0,133:0:0:133:4742:-426.939,-40.037,0 1/1:59:1,58:1:36:58:2075:-183.422,-14.1625,0 0/1:72:44,28:44:1569:28:1008:-69.3622,0,-119.825 0/1:68:32,36:32:1139:36:1296:-96.4739,0,-82.3483 0/1:91:27,64:27:972:64:2283:-178.338,0,-60.4042 1/1:102:0,102:0:0:102:3664:-329.963,-30.7051,0 1/1:54:0,54:0:0:54:1932:-174.157,-16.2556,0 chr05 28434025 . G A 13715.4 PASS AB=0.559733;ABP=40.1067;AC=14;AF=0.333333;AN=42;AO=764;CIGAR=1X;DP=1781;DPB=1781;DPRA=1.62135;EPP=1662.02;EPPR=2196.21;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.8901;MQMR=60;NS=21;NUMALT=1;ODDS=0.0919662;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27288;QR=36173;RO=1014;RPL=0;RPP=1662.02;RPPR=2196.21;RPR=764;RUN=1;SAF=764;SAP=1662.02;SAR=0;SRF=1014;SRP=2204.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:124:59,65:59:2101:65:2320:-171.625,0,-152.03 0/1:67:24,43:24:860:43:1529:-117.733,0,-57.5528 0/1:105:46,59:46:1644:59:2124:-159.82,0,-116.64 0/1:74:36,38:36:1288:38:1353:-99.793,0,-93.9474 0/1:289:123,166:123:4376:166:5935:-447.189,0,-307.014 0/1:33:14,19:14:504:19:684:-51.9563,0,-35.7641 0/1:131:47,84:47:1676:84:3014:-232.055,0,-111.692 1/1:94:0,94:0:0:94:3357:-302.345,-28.2968,0 0/0:63:62,0:62:2177:0:0:0,-18.6639,-195.833 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:36:8,28:8:284:28:1000:-79.4783,0,-15.0663 0/0:43:43,0:43:1531:0:0:0,-12.9443,-138.082 0/1:149:82,67:82:2932:67:2381:-169.692,0,-219.261 0/0:203:203,0:203:7256:0:0:0,-61.1091,-653.091 0/0:61:60,0:60:2141:0:0:0,-18.0618,-192.596 0/1:110:46,64:46:1652:64:2270:-171.446,0,-115.855 0/1:58:27,30:27:968:30:1069:-78.8438,0,-69.9189 0/1:21:14,7:14:504:7:252:-16.7073,0,-39.3765 0/0:66:66,0:66:2343:0:0:0,-19.868,-211.129 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 chr05 28435610 . C T 8670.72 PASS AB=0.415094;ABP=72.7023;AC=14;AF=0.333333;AN=42;AO=537;CIGAR=1X;DP=2250;DPB=2250;DPRA=0.721498;EPP=1169.09;EPPR=3720.57;GTI=1;LEN=1;MEANALT=1;MQM=59.9888;MQMR=60;NS=21;NUMALT=1;ODDS=14.5924;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18140;QR=61048;RO=1712;RPL=28;RPP=938.567;RPPR=1487.94;RPR=509;RUN=1;SAF=28;SAP=938.567;SAR=509;SRF=315;SRP=1487.94;SRR=1397;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:23,28:23:819:28:950:-70.4527,0,-58.679 0/1:102:54,48:54:1904:48:1634:-116.638,0,-140.93 0/1:81:53,28:53:1882:28:956:-61.9608,0,-145.274 0/1:132:73,59:73:2624:59:1979:-138.642,0,-196.671 0/1:150:83,67:83:2959:67:2212:-154.182,0,-221.389 0/1:88:50,38:50:1791:38:1278:-88.82,0,-134.981 0/1:112:71,41:71:2517:41:1397:-92.3038,0,-193.066 1/1:73:0,73:0:0:73:2488:-224.175,-21.9752,0 0/0:400:400,0:400:14251:0:0:0,-120.412,-1282.36 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:19:15,4:15:536:4:136:-6.85597,0,-42.8552 0/0:136:135,0:135:4848:0:0:0,-40.639,-436.112 0/1:101:61,40:61:2147:40:1335:-90.036,0,-163.091 0/0:143:143,0:143:5098:0:0:0,-43.0473,-458.965 0/0:159:159,0:159:5696:0:0:0,-47.8638,-512.758 0/1:135:77,58:77:2760:58:2022:-141.611,0,-208.002 0/1:67:37,30:37:1316:30:987:-68.959,0,-98.5728 0/1:75:54,21:54:1918:21:709:-41.5466,0,-150.319 0/0:143:141,2:141:5024:2:57:0,-37.634,-446.893 0/0:63:63,0:63:2238:0:0:0,-18.9649,-201.683 chr05 28435625 . C G 13871.5 PASS AB=0.515055;ABP=5.49493;AC=14;AF=0.333333;AN=42;AO=758;CIGAR=1X;DP=2168;DPB=2168;DPRA=1.16513;EPP=1512.95;EPPR=2718.55;GTI=0;LEN=1;MEANALT=1.28571;MQM=59.9921;MQMR=60;NS=21;NUMALT=1;ODDS=6.49479;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26829;QR=50274;RO=1406;RPL=742;RPP=1512.95;RPPR=2718.55;RPR=16;RUN=1;SAF=0;SAP=1648.99;SAR=758;SRF=0;SRP=3056.1;SRR=1406;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:22,44:22:788:44:1564:-121.184,0,-51.3768 0/1:125:55,70:55:1976:70:2486:-186.364,0,-140.486 0/1:84:51,33:51:1806:33:1167:-80.048,0,-137.534 0/1:166:72,94:72:2572:94:3326:-249.589,0,-181.759 0/1:182:82,98:82:2928:98:3453:-256.44,0,-209.21 0/1:113:48,65:48:1711:65:2303:-173.514,0,-120.259 0/1:144:75,68:75:2692:68:2418:-174.468,0,-199.117 1/1:105:0,105:0:0:105:3736:-336.442,-31.6082,0 0/0:198:198,0:198:7042:0:0:0,-59.6039,-633.844 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:20:15,5:15:540:5:180:-10.5315,0,-42.9159 0/0:137:137,0:137:4903:0:0:0,-41.2411,-441.421 0/1:127:59,68:59:2104:68:2378:-176.045,0,-151.399 0/0:145:145,0:145:5195:0:0:0,-43.6493,-467.688 0/0:86:86,0:86:3096:0:0:0,-25.8886,-278.866 0/1:76:39,36:39:1400:36:1276:-92.2061,0,-103.362 0/1:76:39,37:39:1395:37:1290:-93.5194,0,-102.97 0/1:83:51,32:51:1836:32:1144:-78.284,0,-140.535 0/0:150:147,3:147:5256:3:108:0,-35.0793,-463.102 0/0:64:64,0:64:2278:0:0:0,-19.2659,-205.281 chr05 28459580 . C G 12755.1 PASS AB=0.482425;ABP=6.06334;AC=14;AF=0.333333;AN=42;AO=691;CIGAR=1X;DP=1944;DPB=1944;DPRA=1.18628;EPP=1376.04;EPPR=2508.56;GTI=0;LEN=1;MEANALT=1.38462;MQM=59.974;MQMR=59.9792;NS=21;NUMALT=1;ODDS=3.77795;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24476;QR=44130;RO=1248;RPL=15;RPP=1376.04;RPPR=2508.56;RPR=676;RUN=1;SAF=691;SAP=1503.5;SAR=0;SRF=1248;SRP=2713.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:62,79:62:2208:79:2751:-205.349,0,-156.54 0/1:82:43,38:43:1544:38:1368:-98.6776,0,-114.32 0/1:84:55,29:55:1936:29:1031:-67.8161,0,-149.23 0/1:148:68,80:68:2397:80:2842:-211.466,0,-171.434 0/1:117:52,65:52:1820:65:2291:-171.23,0,-128.858 0/1:80:40,40:40:1389:40:1414:-103.473,0,-101.222 0/1:115:56,59:56:1974:59:2095:-154.2,0,-143.315 1/1:142:0,142:0:0:142:5026:-452.487,-42.7463,0 0/0:126:126,0:126:4469:0:0:0,-37.9298,-402.382 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:40:21,19:21:740:19:684:-49.8491,0,-54.8822 0/0:143:143,0:143:5094:0:0:0,-43.0473,-458.605 0/1:128:69,58:69:2463:58:2056:-146.859,0,-183.471 0/0:141:141,0:141:5004:0:0:0,-42.4452,-450.509 0/0:58:58,0:58:2060:0:0:0,-17.4597,-185.672 0/1:55:20,33:20:682:33:1178:-90.0839,0,-45.4525 0/1:57:39,18:39:1375:18:636:-40.4093,0,-106.889 0/1:91:59,31:59:2098:31:1104:-72.2182,0,-161.636 0/0:116:116,0:116:4057:0:0:0,-34.9195,-365.322 0/0:57:57,0:57:1996:0:0:0,-17.1587,-179.912 chr05 28459625 . 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T G 26969.9 PASS AB=0.558429;ABP=33.9683;AC=28;AF=0.666667;AN=42;AO=1299;CIGAR=1X;DP=1849;DPB=1849;DPRA=1.00057;EPP=2754.69;EPPR=1177.84;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9469;MQMR=60;NS=21;NUMALT=1;ODDS=14.6257;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46314;QR=19591;RO=549;RPL=8;RPP=2754.69;RPPR=1177.84;RPR=1291;RUN=1;SAF=0;SAP=2823.75;SAR=1299;SRF=0;SRP=1195.15;SRR=549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:14,17:14:496:17:600:-44.9973,0,-35.6423 0/1:45:17,28:17:612:28:1004:-77.1295,0,-41.8671 0/1:95:43,52:43:1548:52:1864:-139.442,0,-111.015 0/1:131:51,79:51:1821:79:2794:-212.354,0,-124.822 0/1:151:86,65:86:3081:65:2314:-163.064,0,-232.061 0/1:99:40,59:40:1402:59:2120:-161.267,0,-96.6711 0/1:92:49,43:49:1748:43:1539:-110.917,0,-129.909 0/0:88:88,0:88:3156:0:0:0,-26.4906,-284.265 1/1:180:0,180:0:0:180:6445:-580.131,-54.1854,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:9:0,9:0:0:9:315:-28.6863,-2.70927,0 0/1:19:9,10:9:324:10:360:-27.0247,0,-23.7863 1/1:139:0,139:0:0:139:4958:-446.367,-41.8432,0 0/1:101:39,62:39:1400:62:2206:-168.394,0,-95.8952 1/1:146:0,146:0:0:146:5220:-469.937,-43.9504,0 1/1:67:1,66:1:36:66:2343:-207.529,-16.5707,0 0/1:51:26,25:26:913:25:900:-65.9681,0,-67.1315 0/1:152:72,80:72:2554:80:2822:-208.461,0,-184.351 0/1:77:14,63:14:500:63:2243:-178.953,0,-22.1569 1/1:109:0,109:0:0:109:3894:-350.653,-32.8123,0 1/1:58:0,58:0:0:58:2049:-184.677,-17.4597,0 chr05 28708792 . A C,T 68270.3 PASS AB=0.691684,0.308316;ABP=475.021,475.021;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2627,539;CIGAR=1X,1X;DP=3167;DPB=3167;DPRA=1.90494,0.618328;EPP=5690.11,1173.43;EPPR=5.18177;GTI=2;LEN=1,1;MEANALT=1.7,1.93333;MQM=59.9859,59.9907;MQMR=60;NS=21;NUMALT=2;ODDS=6.84482;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=93938,19265;QR=36;RO=1;RPL=2625,539;RPP=5690.11,1173.43;RPPR=5.18177;RPR=2,0;RUN=1,1;SAF=0,0;SAP=5707.47,1173.43;SAR=2627,539;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:118:0,80,38:0:0:80,38:2868,1349:-344.188,-110.269,-86.1867,-234.275,0,-222.835 1/2:51:0,30,21:0:0:30,21:1072,752:-149.089,-61.6846,-52.6537,-87.7616,0,-81.4399 1/2:87:0,56,31:0:0:56,31:1992,1112:-253.396,-91.0571,-74.1994,-162.697,0,-153.365 1/2:75:0,47,28:0:0:47,28:1688,1000:-219.587,-81.8865,-67.7381,-138.059,0,-129.63 1/2:312:0,187,125:0:0:187,125:6645,4439:-903.531,-362.054,-305.761,-541.833,0,-504.204 1/2:113:0,65,48:0:0:65,48:2328,1713:-329.86,-140.004,-120.437,-190.213,0,-175.763 1/2:150:0,94,56:0:0:94,56:3360,2004:-437.735,-163.776,-135.479,-274.316,0,-257.459 2/2:81:0,0,81:0:0:0,81:0,2900:-261.236,-261.236,-261.236,-24.3834,-24.3834,0 1/1:226:0,225,1:0:0:225,1:8053,36:-724.428,-67.7318,0,-721.49,-64.4345,-721.189 1/1:323:0,323,0:0:0:323,0:11545,0:-1038.92,-97.2327,0,-1038.92,-97.2327,-1038.92 1/1:390:1,389,0:1:36:389,0:13924,0:-1249.33,-113.803,0,-1249.63,-117.101,-1252.57 1/2:24:0,18,6:0:0:18,6:644,216:-70.4971,-17.9843,-12.5658,-52.8721,0,-51.0659 1/1:225:0,225,0:0:0:225,0:8068,0:-726.137,-67.7318,0,-726.137,-67.7318,-726.137 1/2:99:0,66,33:0:0:66,33:2341,1188:-288.017,-97.2946,-77.4266,-191.08,0,-181.146 1/1:180:0,180,0:0:0:180,0:6441,0:-579.775,-54.1854,0,-579.775,-54.1854,-579.775 1/1:89:0,89,0:0:0:89,0:3200,0:-288.222,-26.7917,0,-288.222,-26.7917,-288.222 1/2:68:0,46,22:0:0:46,22:1633,792:-198.031,-64.983,-51.1356,-133.406,0,-126.783 1/2:311:0,281,30:0:0:281,30:10024,1080:-905.57,-88.4823,-3.89292,-817.447,0,-808.417 1/2:71:0,53,18:0:0:53,18:1904,648:-208.557,-53.2333,-37.2788,-155.683,0,-150.265 1/1:137:0,136,1:0:0:136,1:4884,36:-439.351,-40.9401,0,-436.413,-37.6428,-436.112 1/1:37:0,37,0:0:0:37,0:1324,0:-119.462,-11.1381,0,-119.462,-11.1381,-119.462 chr05 28720056 . TACAT TAA 10013.5 PASS AB=0.461102;ABP=19.2277;AC=13;AF=0.309524;AN=42;AO=604;CIGAR=1M2D1M1X;DP=1919;DPB=1677.4;DPRA=1.30482;EPP=1297.27;EPPR=2778.69;GTI=0;LEN=3;MEANALT=1;MQM=59.4934;MQMR=60;NS=21;NUMALT=1;ODDS=10.0899;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21449;QR=46587;RO=1314;RPL=602;RPP=1297.27;RPPR=2778.69;RPR=2;RUN=1;SAF=0;SAP=1314.58;SAR=604;SRF=0;SRP=2856.33;SRR=1314;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:152:70,82:70:2473:82:2920:-217.093,0,-177.068 0/1:75:51,24:51:1803:24:862:-55.2888,0,-139.974 0/1:147:64,83:64:2289:83:2945:-220.961,0,-162.02 0/1:90:40,50:40:1417:50:1785:-133.772,0,-100.735 0/1:195:114,81:114:4030:81:2861:-198.969,0,-304.19 0/1:165:98,67:98:3435:67:2371:-163.948,0,-259.695 0/1:142:86,56:86:3072:56:1990:-136.626,0,-233.963 1/1:34:0,34:0:0:34:1208:-108.952,-10.235,0 0/0:216:215,0:215:7608:0:0:0,-64.7214,-684.407 0/0:29:29,0:29:1021:0:0:0,-8.72987,-92.2011 0/0:13:13,0:13:448:0:0:0,-3.91339,-40.6474 0/0:8:8,0:8:286:0:0:0,-2.40824,-26.0856 0/0:121:121,0:121:4306:0:0:0,-36.4246,-387.719 0/1:100:50,50:50:1772:50:1796:-131.802,0,-129.66 0/0:136:136,0:136:4850:0:0:0,-40.9401,-436.653 0/0:75:75,0:75:2661:0:0:0,-22.5772,-239.736 0/1:71:39,32:39:1389:32:1119:-79.6424,0,-103.936 0/1:68:39,29:39:1362:29:1020:-71.5748,0,-102.407 0/1:29:14,15:14:498:15:536:-39.8449,0,-36.4253 0/0:36:35,1:35:1257:1:36:0,-7.2388,-109.837 0/0:17:17,0:17:610:0:0:0,-5.11751,-55.2328 chr05 28721245 . A G 34869.6 PASS AB=0.506093;ABP=3.46016;AC=27;AF=0.642857;AN=42;AO=1718;CIGAR=1X;DP=2660;DPB=2660;DPRA=0.49065;EPP=3733.6;EPPR=2039.86;GTI=0;LEN=1;MEANALT=1;MQM=59.9983;MQMR=59.9745;NS=21;NUMALT=1;ODDS=9.71953;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61143;QR=33580;RO=942;RPL=1718;RPP=3733.6;RPPR=2031.2;RPR=0;RUN=1;SAF=1718;SAP=3733.6;SAR=0;SRF=941;SRP=2039.86;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:254:130,124:130:4632:124:4423:-321.779,0,-340.584 0/1:86:44,42:44:1568:42:1475:-107.155,0,-115.523 0/1:131:71,60:71:2531:60:2129:-152.442,0,-188.606 0/1:150:69,81:69:2480:81:2871:-213.474,0,-178.299 0/1:264:136,128:136:4824:128:4543:-329.566,0,-354.579 0/1:44:18,26:18:644:26:928:-70.5929,0,-45.0453 0/1:115:56,59:56:2004:59:2092:-153.93,0,-146.015 0/0:246:246,0:246:8750:0:0:0,-74.0534,-787.494 1/1:225:3,222:3:108:222:7959:-706.255,-57.6566,0 1/1:13:0,13:0:0:13:460:-41.7354,-3.91339,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:19:8,11:8:288:11:383:-29.0837,0,-20.5478 1/1:131:1,130:1:36:130:4598:-410.389,-35.8367,0 0/1:110:50,60:50:1780:60:2147:-160.384,0,-127.37 1/1:328:0,328:0:0:328:11686:-1051.61,-98.7378,0 1/1:125:0,125:0:0:125:4453:-400.941,-37.6288,0 0/1:86:48,38:48:1720:38:1360:-96.812,0,-129.197 0/1:70:36,34:36:1283:34:1220:-89.0347,0,-94.7005 0/1:61:20,41:20:716:41:1464:-113.693,0,-46.4049 1/1:149:3,146:3:108:146:5190:-457.168,-34.7783,0 1/1:48:0,48:0:0:48:1690:-152.383,-14.4494,0 chr05 28727307 . T C 41865.7 PASS AB=0.475791;ABP=18.7812;AC=14;AF=0.333333;AN=42;AO=1793;CIGAR=1X;DP=5464;DPB=5464;DPRA=1.41051;EPP=3896.46;EPPR=7967.97;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9649;MQMR=59.9836;NS=21;NUMALT=1;ODDS=37.797;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63460;QR=130741;RO=3668;RPL=846;RPP=15.3646;RPPR=32.1866;RPR=947;RUN=1;SAF=846;SAP=15.3646;SAR=947;SRF=1723;SRP=32.1866;SRR=1945;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:311:141,170:141:5043:170:6034:-449.546,0,-360.395 0/1:300:155,144:155:5552:144:5130:-371.476,0,-409.436 0/1:202:110,92:110:3917:92:3250:-231.912,0,-291.915 0/1:269:146,123:146:5236:123:4328:-308.719,0,-390.399 0/1:378:199,179:199:7052:179:6378:-460.323,0,-520.868 0/1:280:156,124:156:5519:124:4412:-312.964,0,-412.55 0/1:464:234,230:234:8322:230:8138:-592.765,0,-609.314 1/1:311:0,311:0:0:311:10996:-989.417,-93.6203,0 0/0:551:550,0:550:19607:0:0:0,-165.566,-1763.9 0/0:40:40,0:40:1419:0:0:0,-12.0412,-128.007 0/0:35:35,0:35:1235:0:0:0,-10.536,-111.453 0/1:107:47,60:47:1675:60:2108:-157.777,0,-118.826 0/0:219:219,0:219:7821:0:0:0,-65.9256,-703.92 0/1:215:112,103:112:4004:103:3640:-263.085,0,-295.829 0/0:611:607,4:607:21693:4:144:0,-170.616,-1938.5 0/0:250:247,3:247:8791:3:108:0,-65.1823,-781.105 0/1:196:92,103:92:3308:103:3651:-269.733,0,-238.791 0/1:212:116,96:116:4135:96:3365:-239.249,0,-308.517 0/1:164:114,50:114:4036:50:1742:-107.691,0,-314.058 0/0:203:202,1:202:7197:1:36:0,-57.5108,-644.058 0/0:146:146,0:146:5179:0:0:0,-43.9504,-466.252 chr05 28731738 . T C 1298.68 PASS AB=0.178667;ABP=1011.98;AC=13;AF=0.309524;AN=42;AO=261;CIGAR=1X;DP=2772;DPB=2772;DPRA=3.71569;EPP=569.765;EPPR=5418.69;GTI=8;LEN=1;MEANALT=1.27778;MQM=42.5096;MQMR=59.9781;NS=21;NUMALT=1;ODDS=8.66754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9249;QR=89269;RO=2506;RPL=261;RPP=569.765;RPPR=5418.69;RPR=0;RUN=1;SAF=0;SAP=569.765;SAR=261;SRF=0;SRP=5444.72;SRR=2506;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:100,20:100:3531:20:701:-25.935,0,-281.874 0/1:34:20,13:20:712:13:453:-29.9631,0,-54.113 0/1:103:88,15:88:3152:15:525:-15.5864,0,-252.899 0/0:143:136,6:136:4861:6:216:0,-23.7394,-418.276 0/1:207:171,36:171:6056:36:1258:-47.7629,0,-482.831 0/1:108:90,18:90:3190:18:648:-24.8447,0,-254.811 0/1:145:112,33:112:3989:33:1176:-58.4388,0,-315.393 1/1:47:1,46:1:36:46:1641:-141.239,-10.5501,0 0/0:362:359,2:359:12826:2:72:0,-102.216,-1147.38 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/1:32:25,7:25:896:7:237:-10.7884,0,-71.3274 0/0:366:364,2:364:12928:2:72:0,-104.515,-1157.6 0/1:123:99,24:99:3514:24:860:-37.2305,0,-279.442 0/0:226:224,1:224:7997:1:36:0,-64.5078,-716.169 0/0:130:129,1:129:4598:1:36:0,-35.5551,-410.404 0/1:99:85,14:85:2995:14:490:-13.0017,0,-239.977 0/1:67:58,9:58:2065:9:324:-7.65778,0,-165.95 0/1:87:75,12:75:2684:12:432:-12.2596,0,-215.615 0/0:254:251,2:251:8967:2:72:0,-71.0965,-801.738 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.24 chr05 28750583 . GCT GT 7416.18 PASS AB=0.357143;ABP=97.3142;AC=28;AF=0.666667;AN=42;AO=407;CIGAR=1M1D1M;DP=767;DPB=631;DPRA=2.68929;EPP=886.8;EPPR=763.05;GTI=3;LEN=1;MEANALT=1.25;MQM=59.5823;MQMR=60;NS=21;NUMALT=1;ODDS=1.39254;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14435;QR=12478;RO=354;RPL=0;RPP=886.8;RPPR=763.05;RPR=407;RUN=1;SAF=407;SAP=886.8;SAR=0;SRF=354;SRP=771.712;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:19,19:19:664:19:676:-49.7289,0,-48.6435 0/1:29:24,5:24:850:5:176:-7.45515,0,-68.0904 0/1:53:36,17:36:1252:17:608:-39.0974,0,-97.0247 0/1:29:14,15:14:488:15:527:-39.0303,0,-35.5202 0/1:82:62,20:62:2195:20:716:-40.0833,0,-173.129 0/1:31:24,7:24:849:7:244:-12.9671,0,-67.3976 0/1:56:40,16:40:1410:16:568:-34.5942,0,-110.339 0/0:14:14,0:14:496:0:0:0,-4.21442,-44.9737 1/1:41:0,39:0:0:39:1388:-124.844,-11.7402,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:8:0,8:0:0:8:284:-25.9024,-2.40824,0 0/1:7:3,4:3:105:4:144:-11.2064,0,-7.68876 1/1:28:0,28:0:0:28:1004:-90.6582,-8.42884,0 0/1:52:39,13:39:1380:13:468:-26.8061,0,-108.845 1/1:37:0,36:0:0:36:1254:-112.73,-10.8371,0 1/1:9:0,9:0:0:9:316:-28.7789,-2.70927,0 0/1:16:13,3:13:460:3:108:-5.25869,0,-36.9183 0/1:72:36,36:36:1259:36:1274:-93.2589,0,-91.9364 0/1:67:29,35:29:1034:35:1252:-92.9222,0,-73.7483 1/1:56:0,56:0:0:56:1971:-177.588,-16.8577,0 1/1:36:1,35:1:36:35:1241:-108.385,-7.23881,0 chr05 28820758 . A G 36215.4 PASS AB=0.626494;ABP=142.547;AC=28;AF=0.666667;AN=42;AO=1417;CIGAR=1X;DP=1909;DPB=1909;DPRA=0;EPP=3079.99;EPPR=1071.37;GTI=0;LEN=1;MEANALT=1;MQM=59.7855;MQMR=59.7276;NS=21;NUMALT=1;ODDS=34.3612;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50098;QR=17571;RO=492;RPL=991;RPP=492.205;RPPR=13.1791;RPR=426;RUN=1;SAF=991;SAP=492.205;SAR=426;SRF=270;SRP=13.1791;SRR=222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:33,39:33:1188:39:1381:-102.908,0,-85.5459 0/1:41:18,23:18:648:23:796:-59.6045,0,-46.3097 0/1:26:15,11:15:536:11:396:-28.1536,0,-40.748 0/1:95:44,51:44:1564:51:1793:-133.052,0,-112.449 0/1:80:38,42:38:1360:42:1479:-109.321,0,-98.6131 0/1:59:25,34:25:900:34:1200:-90.5448,0,-63.5521 0/1:91:52,39:52:1868:39:1379:-97.0142,0,-140.914 0/0:112:111,1:111:3980:1:36:0,-30.1171,-354.728 1/1:102:1,101:1:36:101:3596:-320.238,-27.1068,0 1/1:104:1,103:1:36:103:3641:-324.23,-27.7088,0 1/1:208:1,207:1:36:207:7346:-657.524,-59.016,0 0/1:16:9,7:9:324:7:243:-17.391,0,-24.6894 1/1:74:1,73:1:36:73:2570:-227.924,-18.6779,0 0/1:60:29,31:29:1026:31:1095:-80.7973,0,-74.5895 1/1:113:1,112:1:36:112:3994:-356.044,-30.4181,0 1/1:34:0,34:0:0:34:1207:-108.934,-10.235,0 0/1:37:13,24:13:455:24:852:-65.8623,0,-30.1411 0/1:320:63,257:63:2222:257:9042:-717.356,0,-103.907 0/1:107:36,71:36:1284:71:2472:-190.521,0,-83.6462 1/1:77:1,76:1:36:76:2691:-238.829,-19.581,0 1/1:81:0,81:0:0:81:2889:-260.222,-24.3834,0 chr05 28820764 . A C 10680.7 PASS AB=0.371032;ABP=148.637;AC=14;AF=0.333333;AN=42;AO=492;CIGAR=1X;DP=1935;DPB=1935;DPRA=2.71429;EPP=18.8991;EPPR=567.027;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7276;MQMR=59.792;NS=21;NUMALT=1;ODDS=32.5986;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17475;QR=51641;RO=1442;RPL=488;RPP=1036.91;RPPR=2996.84;RPR=4;RUN=1;SAF=272;SAP=14.9446;SAR=220;SRF=1011;SRP=509.587;SRR=431;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:39,33:39:1396:33:1177:-84.5564,0,-104.262 0/1:42:24,18:24:860:18:648:-46.0086,0,-65.0704 0/1:28:13,15:13:468:15:540:-40.5077,0,-34.0284 0/1:93:51,42:51:1817:42:1491:-106.483,0,-135.814 0/1:82:44,37:44:1580:37:1320:-94.3399,0,-117.744 0/1:60:35,25:35:1252:25:900:-63.2592,0,-94.9233 0/1:94:42,52:42:1497:52:1840:-137.567,0,-106.726 1/1:112:1,111:1:36:111:3921:-349.456,-30.1171,0 0/0:103:102,1:102:3664:1:32:0,-27.8068,-326.728 0/0:110:109,1:109:3912:1:36:0,-29.515,-348.617 0/0:215:214,1:214:7661:1:36:0,-61.1232,-685.802 0/1:16:7,9:7:252:9:320:-24.3259,0,-18.2125 0/0:77:76,1:76:2720:1:36:0,-19.581,-241.417 0/1:58:28,30:28:1004:30:1067:-78.8791,0,-73.2161 0/0:116:115,1:115:4094:1:36:0,-31.3212,-365.039 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.984 0/1:38:25,13:25:900:13:468:-31.0178,0,-69.8819 0/1:321:258,63:258:9255:63:2244:-105.587,0,-736.195 0/1:104:67,37:67:2393:37:1300:-85.9842,0,-184.318 0/0:78:77,1:77:2764:1:27:0,-20.7806,-246.295 0/0:81:80,1:80:2864:1:36:0,-20.7852,-254.375 chr05 28849034 . A G 18699.8 PASS AB=0.484268;ABP=4.58172;AC=28;AF=0.666667;AN=42;AO=734;CIGAR=1X;DP=1155;DPB=1155;DPRA=1.35854;EPP=3.43631;EPPR=32.8732;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8924;MQMR=59.8952;NS=21;NUMALT=1;ODDS=5.37533;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25978;QR=14861;RO=420;RPL=2;RPP=1579.55;RPPR=915.029;RPR=732;RUN=1;SAF=363;SAP=3.19964;SAR=371;SRF=172;SRP=32.8732;SRR=248;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:23:9,14:9:307:14:495:-37.9593,0,-21.0365 0/1:41:22,19:22:777:19:657:-47.1082,0,-57.9081 0/1:18:9,9:9:324:9:306:-22.4501,0,-24.0849 0/1:35:19,16:19:665:16:576:-41.6389,0,-49.6367 0/1:78:47,31:47:1660:31:1112:-76.911,0,-126.207 0/1:42:29,13:29:1036:13:468:-29.8164,0,-80.9107 0/1:83:43,40:43:1517:40:1422:-103.29,0,-111.836 0/0:41:41,0:41:1442:0:0:0,-12.3422,-130.074 1/1:77:1,76:1:36:76:2693:-239.016,-19.581,0 1/1:17:1,16:1:32:16:555:-47.0767,-1.9182,0 1/1:6:0,6:0:0:6:216:-19.7449,-1.80618,0 0/1:18:9,9:9:309:9:324:-24.0873,0,-22.7222 1/1:32:0,32:0:0:32:1135:-102.458,-9.63296,0 0/1:58:29,29:29:1028:29:1032:-75.7337,0,-75.3733 1/1:74:0,74:0:0:74:2632:-237.122,-22.2762,0 1/1:27:0,27:0:0:27:956:-86.3557,-8.12781,0 0/1:16:7,9:7:252:9:316:-23.9624,0,-18.2125 0/1:222:124,97:124:4413:97:3421:-240.9,0,-329.517 0/1:97:29,68:29:1027:68:2406:-187.596,0,-63.5423 1/1:26:0,26:0:0:26:907:-81.9422,-7.82678,0 1/1:124:1,123:1:36:123:4349:-387.978,-33.7294,0 chr05 28853893 . T A 17677.5 PASS AB=0.468566;ABP=11.7474;AC=28;AF=0.666667;AN=42;AO=903;CIGAR=1X;DP=1530;DPB=1530;DPRA=0.860714;EPP=1963.85;EPPR=1362.35;GTI=1;LEN=1;MEANALT=1.05;MQM=54.5792;MQMR=59.4744;NS=21;NUMALT=1;ODDS=2.10106;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32272;QR=22337;RO=626;RPL=899;RPP=1929.26;RPPR=1353.68;RPR=4;RUN=1;SAF=899;SAP=1929.26;SAR=4;SRF=625;SRP=1353.68;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:73,42:73:2612:42:1497:-100.189,0,-200.703 0/1:57:38,19:38:1347:19:680:-44.2305,0,-104.354 0/1:87:49,38:49:1755:38:1352:-95.6042,0,-131.999 0/1:112:61,51:61:2156:51:1820:-130.166,0,-160.59 0/1:200:105,95:105:3740:95:3416:-247.018,0,-276.577 0/1:34:18,16:18:648:16:567:-40.9399,0,-48.4087 0/1:78:39,39:39:1392:39:1383:-100.837,0,-102.087 0/0:84:84,0:84:3011:0:0:0,-25.2865,-270.874 1/1:38:0,38:0:0:38:1368:-123.269,-11.4391,0 1/1:7:0,7:0:0:7:248:-22.6343,-2.10721,0 1/1:7:0,7:0:0:7:252:-22.9338,-2.10721,0 0/1:22:10,12:10:360:12:417:-31.1772,0,-26.1216 1/1:52:0,52:0:0:52:1864:-167.814,-15.6536,0 0/1:97:56,41:56:1972:41:1464:-102.565,0,-148.501 1/1:141:0,140:0:0:140:5023:-451.018,-42.1442,0 1/1:63:0,63:0:0:63:2256:-202.918,-18.9649,0 0/1:109:57,52:57:2048:52:1861:-134.599,0,-150.324 0/1:58:17,41:17:612:41:1459:-113.956,0,-37.9491 0/1:49:18,31:18:648:31:1116:-85.8401,0,-43.8125 1/1:64:1,63:1:36:63:2248:-198.127,-15.6991,0 1/1:56:0,56:0:0:56:1981:-177.25,-16.8577,0 chr05 28879228 . A G 4214.44 PASS AB=0.402802;ABP=49.8662;AC=14;AF=0.333333;AN=42;AO=265;CIGAR=1X;DP=979;DPB=979;DPRA=0.918841;EPP=578.45;EPPR=1553.44;GTI=1;LEN=1;MEANALT=1;MQM=59.6528;MQMR=59.9384;NS=21;NUMALT=1;ODDS=1.89853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9515;QR=25601;RO=714;RPL=265;RPP=578.45;RPPR=1553.44;RPR=0;RUN=1;SAF=0;SAP=578.45;SAR=265;SRF=0;SRP=1553.44;SRR=714;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:45,22:45:1616:22:792:-51.4274,0,-125.561 0/1:50:37,13:37:1324:13:468:-27.4081,0,-104.14 0/1:43:16,27:16:572:27:968:-74.4927,0,-38.8691 0/1:18:5,13:5:180:13:464:-36.6613,0,-11.1335 0/1:98:58,40:58:2080:40:1435:-99.8345,0,-157.967 0/1:49:27,22:27:972:22:792:-56.8552,0,-73.0474 0/1:60:32,28:32:1148:28:1004:-72.4841,0,-85.568 1/1:34:0,34:0:0:34:1224:-110.462,-10.235,0 0/0:117:117,0:117:4196:0:0:0,-35.2205,-377.82 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7427 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 0/1:38:28,10:28:1008:10:360:-21.3052,0,-79.5972 0/0:100:100,0:100:3584:0:0:0,-30.103,-322.767 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/1:21:17,4:17:612:4:144:-6.99199,0,-49.0918 0/1:92:51,41:51:1809:41:1468:-104.721,0,-135.393 0/1:29:20,9:20:720:9:324:-20.776,0,-56.3989 0/0:29:28,1:28:1000:1:36:0,-5.13159,-86.7171 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 chr05 28880323 . T A 9857.4 PASS AB=0.446617;ABP=19.471;AC=27;AF=0.642857;AN=42;AO=521;CIGAR=1X;DP=927;DPB=927;DPRA=1.16974;EPP=1134.35;EPPR=882.457;GTI=0;LEN=1;MEANALT=1.05;MQM=57.7831;MQMR=59.9654;NS=21;NUMALT=1;ODDS=1.18958;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18707;QR=14492;RO=405;RPL=0;RPP=1134.35;RPPR=882.457;RPR=521;RUN=1;SAF=521;SAP=1134.35;SAR=0;SRF=405;SRP=882.457;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:23,13:23:816:13:468:-31.2064,0,-62.5503 0/1:26:12,14:12:428:14:500:-37.4779,0,-31.032 0/1:56:21,35:21:752:35:1260:-96.6064,0,-51.1486 0/1:40:25,15:25:892:15:540:-36.8944,0,-68.5585 0/1:139:64,75:64:2300:75:2688:-199.879,0,-165.418 0/1:43:34,9:34:1220:9:323:-16.4289,0,-97.1625 0/1:81:55,26:55:1960:26:936:-59.9424,0,-152.292 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 1/1:54:0,54:0:0:54:1937:-174.511,-16.2556,0 0/1:10:2,8:2:72:8:288:-23.2498,0,-3.82642 1/1:6:0,6:0:0:6:216:-19.691,-1.80618,0 0/1:21:11,10:11:392:10:360:-26.4062,0,-29.2984 1/1:25:0,25:0:0:25:896:-80.9199,-7.52575,0 0/1:51:26,25:26:932:25:896:-65.5077,0,-68.8463 1/1:51:0,51:0:0:51:1836:-165.449,-15.3525,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 0/1:62:40,22:40:1428:22:792:-52.9193,0,-110.154 0/1:65:37,28:37:1324:28:1004:-70.6671,0,-99.8951 0/1:34:17,17:17:608:17:608:-44.8124,0,-44.817 1/1:33:0,33:0:0:33:1180:-106.341,-9.93399,0 1/1:30:0,30:0:0:30:1079:-97.0747,-9.0309,0 chr05 28880329 . AATG TATA 9685.47 PASS AB=0.442308;ABP=22.5536;AC=27;AF=0.642857;AN=42;AO=525;CIGAR=1X2M1X;DP=941;DPB=941;DPRA=1.18816;EPP=1143.03;EPPR=902;GTI=0;LEN=4;MEANALT=1.1;MQM=57.7619;MQMR=59.9662;NS=21;NUMALT=1;ODDS=0.759693;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18599;QR=14643;RO=414;RPL=0;RPP=1143.03;RPPR=902;RPR=525;RUN=1;SAF=525;SAP=1143.03;SAR=0;SRF=414;SRP=902;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:25,13:25:881:13:460:-30.2811,0,-68.1319 0/1:27:13,14:13:447:14:492:-36.4546,0,-32.4285 0/1:58:21,37:21:719:37:1315:-100.951,0,-47.5661 0/1:40:25,15:25:886:15:533:-36.2613,0,-68.0173 0/1:139:64,75:64:2281:75:2663:-197.748,0,-163.709 0/1:44:34,9:34:1217:9:316:-15.4308,0,-96.5331 0/1:82:56,26:56:1987:26:922:-58.3851,0,-154.42 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.701 1/1:55:0,55:0:0:55:1958:-176.423,-16.5567,0 0/1:11:3,8:3:96:8:282:-22.4038,0,-5.64535 1/1:6:0,6:0:0:6:216:-19.691,-1.80618,0 0/1:22:12,10:12:428:10:360:-26.1052,0,-32.2361 1/1:25:0,25:0:0:25:889:-80.2905,-7.52575,0 0/1:52:27,25:27:964:25:879:-63.7231,0,-71.4232 1/1:51:0,51:0:0:51:1813:-163.38,-15.3525,0 1/1:25:0,24:0:0:24:835:-75.1055,-7.22472,0 0/1:63:41,22:41:1441:22:784:-51.9013,0,-111.019 0/1:66:38,28:38:1326:28:996:-69.686,0,-99.77 0/1:34:17,17:17:610:17:604:-44.4507,0,-44.9979 1/1:34:0,34:0:0:34:1193:-107.529,-10.235,0 1/1:31:0,31:0:0:31:1089:-98.0472,-9.33193,0 chr05 28882031 . ACA AA 30008.7 PASS AB=0.462506;ABP=30.2039;AC=14;AF=0.333333;AN=42;AO=1301;CIGAR=1M1D1M;DP=3978;DPB=3544.67;DPRA=1.03709;EPP=2828.1;EPPR=5800.84;GTI=0;LEN=1;MEANALT=1.21429;MQM=51.3374;MQMR=52.4382;NS=21;NUMALT=1;ODDS=13.5087;PAIRED=0;PAIREDR=0;PAO=1;PQA=34;PQR=34;PRO=1;QA=45869;QR=93211;RO=2670;RPL=649;RPP=3.02532;RPPR=644.322;RPR=652;RUN=1;SAF=649;SAP=3.02532;SAR=652;SRF=891;SRP=644.322;SRR=1779;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:271:168,103:168:5849:103:3633:-243.801,0,-442.423 0/1:160:92,68:92:3253:68:2403:-166.322,0,-241.392 0/1:86:39,47:39:1363:47:1675:-124.746,0,-96.7853 0/1:178:80,98:80:2783:98:3419:-252.854,0,-195.688 0/1:363:182,181:182:6363:181:6376:-461.489,0,-460.611 0/1:103:36,67:36:1264:67:2356:-177.419,0,-82.5026 0/1:229:97,132:97:3426:132:4675:-348.273,0,-236.946 1/1:271:1,269:1:36:269:9409:-836.389,-78.0568,0 0/0:239:239,0:239:8272:0:0:0,-71.9462,-742.573 0/0:27:27,0:27:961:0:0:0,-8.12781,-85.6544 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2414 0/1:93:48,45:48:1699:45:1600:-115.378,0,-124.404 0/0:426:425,0:425:14852:0:0:0,-127.938,-1332.71 0/1:240:135,103:135:4670:103:3646:-254.581,0,-347.355 0/0:310:309,0:309:10804:0:0:0,-93.0183,-969.351 0/0:141:140,0:140:4885:0:0:0,-42.1442,-438.55 0/1:113:57,56:57:1954:56:1992:-145.194,0,-141.758 0/1:194:100,94:100:3530:94:3343:-238.01,0,-257.746 0/1:197:161,36:161:5586:36:1270:-54.9021,0,-441.825 0/0:186:184,2:184:6431:2:72:0,-49.1598,-569.375 0/0:147:146,0:146:5086:0:0:0,-43.9504,-453.755 chr05 28882061 . T C 35932.9 PASS AB=0.589939;ABP=95.192;AC=28;AF=0.666667;AN=42;AO=1743;CIGAR=1X;DP=2417;DPB=2417;DPRA=0;EPP=3761.87;EPPR=1442.75;GTI=1;LEN=1;MEANALT=1.14286;MQM=52.6041;MQMR=55.769;NS=21;NUMALT=1;ODDS=2.17676;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62238;QR=23528;RO=671;RPL=1740;RPP=3761.87;RPPR=1451.4;RPR=3;RUN=1;SAF=0;SAP=3787.89;SAR=1743;SRF=1;SRP=1451.4;SRR=670;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:58,124:58:2057:124:4431:-343.193,0,-130.546 0/1:91:26,64:26:913:64:2288:-176.985,0,-54.9167 0/1:48:29,19:29:1044:19:676:-46.6328,0,-79.7145 0/1:98:41,57:41:1422:57:2032:-153.033,0,-98.5778 0/1:238:116,121:116:4071:121:4301:-313.897,0,-294.288 0/1:64:41,23:41:1441:23:813:-53.8384,0,-108.915 0/1:130:71,59:71:2468:59:2098:-147.825,0,-182.591 0/0:135:134,1:134:4701:1:36:0,-37.0804,-418.504 1/1:124:0,124:0:0:124:4417:-397.099,-37.3277,0 1/1:12:0,12:0:0:12:428:-38.7651,-3.61236,0 1/1:4:0,4:0:0:4:144:-13.2414,-1.20412,0 0/1:46:17,29:17:600:29:1044:-79.9988,0,-40.4475 1/1:335:0,335:0:0:335:12011:-1077.21,-100.845,0 0/1:146:55,90:55:1869:90:3216:-244.555,0,-124.311 1/1:180:0,180:0:0:180:6421:-576.332,-54.1854,0 1/1:106:0,106:0:0:106:3793:-340.534,-31.9092,0 0/1:67:23,44:23:790:44:1576:-121.528,0,-51.2076 0/1:70:39,31:39:1400:31:1108:-78.6427,0,-105.045 0/1:132:19,113:19:680:113:4043:-323.022,0,-21.5526 1/1:141:2,139:2:72:139:4947:-436.272,-35.6134,0 1/1:68:0,68:0:0:68:2415:-215.183,-20.47,0 chr05 28882082 . A T 10942.3 PASS AB=0.406226;ABP=103.602;AC=14;AF=0.333333;AN=42;AO=671;CIGAR=1X;DP=2427;DPB=2427;DPRA=0.961571;EPP=1460.07;EPPR=3816.12;GTI=1;LEN=1;MEANALT=1;MQM=55.6796;MQMR=52.6891;NS=21;NUMALT=1;ODDS=10.4714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23756;QR=62920;RO=1756;RPL=671;RPP=1460.07;RPPR=3807.43;RPR=0;RUN=1;SAF=0;SAP=1460.07;SAR=671;SRF=1;SRP=3807.43;SRR=1755;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:120,59:120:4316:59:2086:-134.032,0,-333.771 0/1:93:67,26:67:2404:26:928:-55.5896,0,-186.45 0/1:50:21,29:21:756:29:1036:-78.3917,0,-53.2198 0/1:97:57,40:57:2044:40:1421:-98.789,0,-154.193 0/1:238:119,119:119:4256:119:4241:-308.545,0,-309.832 0/1:66:25,41:25:900:41:1460:-110.384,0,-61.0199 0/1:127:60,67:60:2144:67:2373:-174.923,0,-152.494 1/1:133:1,132:1:36:132:4632:-412.24,-36.4387,0 0/0:122:121,1:121:4328:1:21:0,-34.6262,-387.184 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.1226 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2414 0/1:47:31,16:31:1112:16:576:-37.9867,0,-85.8111 0/0:339:339,0:339:12116:0:0:0,-102.049,-1087.31 0/1:150:92,58:92:3300:58:2053:-139.641,0,-250.534 0/0:181:181,0:181:6488:0:0:0,-54.4864,-582.179 0/0:107:107,0:107:3832:0:0:0,-32.2102,-344.633 0/1:66:42,24:42:1508:24:856:-57.4784,0,-115.774 0/1:70:33,37:33:1184:37:1317:-97.575,0,-85.2097 0/1:134:115,19:115:4124:19:648:-18.2001,0,-329.959 0/0:142:139,3:139:4980:3:108:0,-32.6807,-435.811 0/0:70:70,0:70:2516:0:0:0,-21.0721,-223.798 chr05 28922850 . T G 11534.7 PASS AB=0.584;ABP=33.6541;AC=28;AF=0.666667;AN=42;AO=636;CIGAR=1X;DP=927;DPB=927;DPRA=0;EPP=1384.07;EPPR=634.909;GTI=0;LEN=1;MEANALT=1;MQM=39.011;MQMR=51.7904;NS=21;NUMALT=1;ODDS=6.59166;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22406;QR=10386;RO=291;RPL=0;RPP=1384.07;RPPR=626.253;RPR=636;RUN=1;SAF=0;SAP=1384.07;SAR=636;SRF=1;SRP=626.253;SRR=290;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:17:7,10:7:248:10:360:-26.4529,0,-17.5168 0/1:9:3,6:3:108:6:216:-15.6945,0,-7.31429 0/1:77:35,42:35:1256:42:1487:-104.554,0,-89.6957 0/1:48:23,25:23:824:25:881:-60.9809,0,-59.9289 0/1:50:26,24:26:928:24:851:-59.1847,0,-68.4641 0/1:22:8,14:8:288:14:496:-35.3919,0,-19.5367 0/1:48:20,28:20:703:28:1000:-69.6381,0,-48.6826 0/0:82:81,1:81:2888:1:32:0,-21.5634,-256.026 1/1:91:0,91:0:0:91:3211:-275.57,-27.3937,0 1/1:12:0,12:0:0:12:424:-35.1699,-3.61236,0 1/1:6:0,6:0:0:6:216:-18.3121,-1.80618,0 0/1:9:6,3:6:212:3:108:-6.87681,0,-16.6781 1/1:80:0,80:0:0:80:2805:-241.359,-24.0824,0 0/1:33:15,18:15:536:18:616:-42.9751,0,-37.8613 1/1:61:2,59:2:72:59:2099:-174.503,-11.5395,0 1/1:6:0,6:0:0:6:216:-18.9997,-1.80618,0 0/1:7:5,2:5:180:2:72:-4.45632,0,-14.4214 0/1:111:46,65:46:1648:65:2285:-160.499,0,-113.306 0/1:69:14,55:14:495:55:1900:-141.993,0,-23.9492 1/1:57:0,57:0:0:57:2027:-170.467,-17.1587,0 1/1:32:0,32:0:0:32:1104:-91.592,-9.63296,0 chr05 28924425 . T G 70724.9 PASS AB=0.503557;ABP=3.28839;AC=28;AF=0.666667;AN=42;AO=2714;CIGAR=1X;DP=4170;DPB=4170;DPRA=1.01923;EPP=5887.7;EPPR=3164.67;GTI=0;LEN=1;MEANALT=1;MQM=59.9971;MQMR=59.9966;NS=21;NUMALT=1;ODDS=12.9761;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=96590;QR=51574;RO=1456;RPL=1277;RPP=23.4929;RPPR=3.60686;RPR=1437;RUN=1;SAF=1278;SAP=22.984;SAR=1436;SRF=718;SRP=3.60686;SRR=738;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:175:91,84:91:3264:84:2990:-216.652,0,-241.3 0/1:212:86,126:86:3049:126:4508:-342.07,0,-210.821 0/1:113:54,59:54:1927:59:2096:-154.892,0,-139.69 0/1:241:132,109:132:4665:109:3881:-276.935,0,-347.465 0/1:450:238,212:238:8456:212:7523:-541.65,0,-625.582 0/1:243:128,115:128:4403:115:4116:-297.472,0,-323.291 0/1:300:155,145:155:5488:145:5168:-374.952,0,-403.738 0/0:195:195,0:195:6931:0:0:0,-58.7008,-623.857 1/1:178:0,178:0:0:178:6307:-567.726,-53.5833,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 0/1:96:49,47:49:1760:47:1692:-123.668,0,-129.785 1/1:279:0,279:0:0:279:9917:-892.474,-83.9874,0 0/1:182:92,90:92:3281:90:3181:-231.725,0,-240.719 1/1:450:0,450:0:0:450:16012:-1440.77,-135.464,0 1/1:147:0,147:0:0:147:5246:-472.278,-44.2514,0 0/1:138:59,79:59:2097:79:2819:-212.407,0,-147.456 0/1:233:124,109:124:4394:109:3862:-277.638,0,-325.491 0/1:147:48,99:48:1679:99:3523:-273.029,0,-107.139 1/1:232:4,228:4:144:228:8121:-717.594,-56.5253,0 1/1:112:1,111:1:36:111:3940:-351.195,-30.1171,0 chr05 28929856 . ATG TTG,TTT 91873.4 PASS AB=0.457494,0.538031;ABP=31.0694,25.4731;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2137,1319;CIGAR=1X2M,1X1M1X;DP=3473;DPB=3477.33;DPRA=0.443324,2.86093;EPP=4643.45,2867.18;EPPR=11.6962;GTI=1;LEN=1,3;MEANALT=2.3,2.6875;MQM=59.9499,59.8855;MQMR=60;NS=21;NUMALT=2;ODDS=4.65634;PAIRED=0,0;PAIREDR=0;PAO=6.5,6.5;PQA=174,174;PQR=0;PRO=0;QA=75728,45911;QR=101;RO=4;RPL=1377,839;RPP=389.84,215.187;RPPR=11.6962;RPR=760,480;RUN=1,1;SAF=1377,839;SAP=389.84,215.187;SAR=760,480;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:142:0,61,79:0:0:61,79:2161,2745:-399.211,-223.17,-204.807,-176.047,0,-152.265 1/2:46:0,28,18:0:0:28,18:982,639:-132.33,-52.4206,-43.9917,-80.2628,0,-74.8443 1/2:229:0,108,120:0:0:108,120:3815,4213:-653.437,-342.752,-310.241,-310.559,0,-274.435 1/2:274:0,123,150:0:0:123,150:4349,5276:-783.494,-429.288,-392.262,-354.02,0,-308.865 1/2:242:0,114,127:0:0:114,127:4050,4382:-685.755,-355.736,-321.419,-329.95,0,-291.719 1/2:92:0,40,51:0:0:40,51:1415,1802:-262,-146.749,-134.707,-115.246,0,-99.8932 1/2:161:0,57,103:0:0:57,103:2017,3568:-454.259,-289.967,-272.809,-164.283,0,-133.277 2/2:352:0,0,350:0:0:0,350:0,12132:-1091.11,-1091.11,-1091.11,-105.361,-105.361,0 1/1:335:0,333,1:0:0:333,1:11783,22:-1060.05,-100.243,0,-1058.39,-98.654,-1058.09 1/1:13:0,13,0:0:0:13,0:459,0:-41.6441,-3.91339,0,-41.6441,-3.91339,-41.6441 1/1:7:0,7,0:0:0:7,0:239,0:-21.8427,-2.10721,0,-21.8427,-2.10721,-21.8427 1/2:87:0,31,56:0:0:31,56:1112,1931:-247.911,-157.205,-147.873,-91.0594,0,-74.2017 1/1:355:0,353,2:0:0:353,2:12532,63:-1127.38,-106.264,0,-1122.31,-100.913,-1121.71 1/2:169:0,65,104:0:0:65,104:2312,3641:-485.009,-296.589,-277.022,-188.773,0,-157.466 1/1:179:1,177,0:1:24:177,0:6283,0:-563.103,-51.4885,0,-563.404,-53.2823,-565.262 1/1:48:0,48,0:0:0:48,0:1712,0:-154.307,-14.4494,0,-154.307,-14.4494,-154.307 1/2:39:0,14,25:0:0:14,25:504,887:-113.749,-72.6229,-68.4085,-41.4837,0,-33.9579 1/2:144:0,65,79:0:0:65,79:2305,2713:-408.33,-220.546,-200.979,-188.133,0,-164.352 1/2:163:0,112,50:0:0:112,50:3988,1753:-467.813,-142.769,-109.054,-325.163,0,-310.112 1/1:301:2,294,4:2:41:294,4:10390,144:-930.893,-85.4592,0,-919.746,-76.6942,-921.628 1/1:95:1,94,0:1:36:94,0:3320,0:-295.421,-24.9996,0,-295.722,-28.2968,-298.659 chr05 28929861 . C T 56698.2 PASS AB=0.470258;ABP=16.702;AC=28;AF=0.666667;AN=42;AO=2184;CIGAR=1X;DP=3477;DPB=3477;DPRA=0.462832;EPP=4745.51;EPPR=2802.04;GTI=0;LEN=1;MEANALT=1.2;MQM=59.929;MQMR=59.9728;NS=21;NUMALT=1;ODDS=0.0228485;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77820;QR=45156;RO=1289;RPL=1413;RPP=412.81;RPPR=203.522;RPR=771;RUN=1;SAF=1413;SAP=412.81;SAR=771;SRF=817;SRP=203.522;SRR=472;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:80,60:80:2835:60:2138:-150.542,0,-213.243 0/1:45:17,28:17:608:28:1004:-77.1295,0,-41.5057 0/1:230:120,110:120:4252:110:3921:-283.846,0,-313.624 0/1:272:147,123:147:5136:123:4407:-315.166,0,-380.753 0/1:244:121,122:121:4228:122:4312:-314.907,0,-307.367 0/1:93:49,44:49:1719:44:1552:-111.973,0,-126.996 0/1:160:102,58:102:3524:58:2084:-139.665,0,-269.211 0/0:339:339,0:339:11819:0:0:0,-102.049,-1063.33 1/1:342:0,342:0:0:342:12199:-1097.73,-102.952,0 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:88:56,32:56:1970:32:1144:-76.7789,0,-151.08 1/1:361:2,359:2:72:359:12807:-1145.61,-101.835,0 0/1:168:99,68:99:3439:68:2416:-167.139,0,-259.171 1/1:179:0,179:0:0:179:6372:-573.565,-53.8844,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 0/1:40:24,16:24:845:16:570:-39.5912,0,-64.3259 0/1:140:76,64:76:2690:64:2278:-163.123,0,-200.201 0/1:162:49,113:49:1731:113:4002:-311.602,0,-107.307 1/1:310:5,305:5:180:305:10863:-960.849,-76.7672,0 1/1:94:3,91:3:108:91:3243:-282.017,-18.2217,0 chr05 28954354 . A T 8930.07 PASS AB=0.366972;ABP=204.061;AC=14;AF=0.333333;AN=42;AO=559;CIGAR=1X;DP=2378;DPB=2378;DPRA=0.86129;EPP=1131.56;EPPR=3679.86;GTI=0;LEN=1;MEANALT=1;MQM=59.9928;MQMR=59.9901;NS=21;NUMALT=1;ODDS=13.2882;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19936;QR=65173;RO=1819;RPL=549;RPP=1131.56;RPPR=3679.86;RPR=10;RUN=1;SAF=559;SAP=1216.86;SAR=0;SRF=1819;SRP=3952.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:72,34:72:2584:34:1202:-76.5748,0,-200.9 0/1:77:58,19:58:2076:19:680:-38.3499,0,-163.931 0/1:127:84,43:84:3016:43:1544:-101.022,0,-233.44 0/1:85:68,17:68:2436:17:612:-29.8259,0,-193.908 0/1:213:157,56:157:5624:56:1999:-116.064,0,-442.161 0/1:74:50,24:50:1788:24:860:-55.4456,0,-138.923 0/1:149:109,40:109:3908:40:1424:-83.604,0,-307.059 1/1:79:0,79:0:0:79:2805:-252.69,-23.7814,0 0/0:213:213,0:213:7640:0:0:0,-64.1194,-687.634 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:34:7,27:7:248:27:972:-77.5629,0,-12.4292 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/1:126:72,54:72:2576:54:1935:-136.496,0,-194.16 0/0:349:349,0:349:12483:0:0:0,-105.059,-1123.29 0/0:144:144,0:144:5164:0:0:0,-43.3483,-464.9 0/1:106:65,41:65:2340:41:1464:-100.147,0,-178.95 0/1:140:52,88:52:1872:88:3129:-239.692,0,-126.615 0/1:71:34,37:34:1211:37:1310:-96.827,0,-87.9224 0/0:121:121,0:121:4336:0:0:0,-36.4246,-390.415 0/0:61:61,0:61:2171:0:0:0,-18.3628,-195.656 chr05 28954442 . G C 4392 PASS AB=0.294118;ABP=397.324;AC=14;AF=0.333333;AN=42;AO=344;CIGAR=1X;DP=1957;DPB=1957;DPRA=0.885977;EPP=749.997;EPPR=3479.56;GTI=4;LEN=1;MEANALT=1.07143;MQM=59.9709;MQMR=59.9888;NS=21;NUMALT=1;ODDS=4.95998;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12304;QR=56962;RO=1609;RPL=344;RPP=749.997;RPPR=3479.56;RPR=0;RUN=1;SAF=0;SAP=749.997;SAR=344;SRF=0;SRP=3496.91;SRR=1609;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:103,38:103:3629:38:1360:-80.2416,0,-284.373 0/1:58:48,10:48:1708:10:356:-14.9215,0,-136.546 0/1:81:58,23:58:2059:23:828:-50.4607,0,-161.197 0/1:120:78,42:78:2783:42:1496:-98.811,0,-214.501 0/1:178:107,71:107:3782:71:2536:-174.908,0,-286.999 0/1:114:77,37:77:2764:37:1324:-85.1447,0,-214.684 0/1:124:87,37:87:3053:37:1324:-82.1344,0,-237.671 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 0/0:201:198,0:198:7028:0:0:0,-59.6039,-632.228 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:7:7,0:7:244:0:0:0,-2.10721,-22.2994 0/1:17:10,7:10:360:7:248:-17.5467,0,-27.6268 0/0:152:151,1:151:5292:1:36:0,-42.1583,-472.825 0/1:62:47,14:47:1667:14:504:-27.1153,0,-131.741 0/0:231:231,0:231:8136:0:0:0,-69.5379,-732.269 0/0:103:103,0:103:3663:0:0:0,-31.0061,-329.875 0/1:71:45,26:45:1583:26:932:-62.8257,0,-121.387 0/1:62:56,6:56:1967:6:216:-1.12665,0,-158.638 0/1:43:39,4:39:1396:4:144:-0.369328,0,-112.995 0/0:95:95,0:95:3390:0:0:0,-28.5978,-305.315 0/0:58:58,0:58:2062:0:0:0,-17.4597,-185.85 chr05 29014878 . C T 9603.34 PASS AB=0.43491;ABP=78.4867;AC=22;AF=0.52381;AN=42;AO=897;CIGAR=1X;DP=2056;DPB=2056;DPRA=0;EPP=1950.82;EPPR=2298.98;GTI=1;LEN=1;MEANALT=1;MQM=33.9509;MQMR=43.4392;NS=21;NUMALT=1;ODDS=3.26044;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32083;QR=41474;RO=1159;RPL=0;RPP=1950.82;RPPR=2519.75;RPR=897;RUN=1;SAF=897;SAP=1950.82;SAR=0;SRF=1133;SRP=2298.98;SRR=26;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:70,48:70:2500:48:1705:-82.5736,0,-168.827 0/1:92:63,29:63:2241:29:1036:-61.59,0,-142.12 0/1:59:32,27:32:1152:27:957:-47.1477,0,-75.0727 0/1:145:91,54:91:3276:54:1940:-87.4512,0,-224.335 0/1:185:84,101:84:3008:101:3611:-186.658,0,-185.331 0/1:195:137,58:137:4912:58:2071:-114.855,0,-339.48 0/1:136:77,59:77:2760:59:2101:-140.36,0,-188.478 0/1:43:30,13:30:1076:13:468:-19.7613,0,-67.5015 0/1:126:62,64:62:2206:64:2285:-116.276,0,-137.126 0/1:4:3,1:3:108:1:36:-2.36269,0,-8.22191 1/1:5:0,5:0:0:5:176:-15.6315,-1.50515,0 0/1:30:13,17:13:468:17:612:-41.4613,0,-29.0096 0/1:102:36,66:36:1296:66:2376:-130.142,0,-79.2225 0/1:94:70,24:70:2503:24:854:-29.8219,0,-172.799 0/1:129:72,57:72:2563:57:2028:-101.577,0,-157.522 0/1:62:52,10:52:1852:10:360:-5.4384,0,-121.346 0/1:130:87,43:87:3105:43:1540:-66.8502,0,-203.683 0/1:96:52,44:52:1872:44:1580:-105.714,0,-127.314 0/1:86:50,36:50:1796:36:1296:-64.4025,0,-123.041 0/1:124:47,77:47:1677:77:2755:-206.506,0,-96.0899 0/1:95:31,64:31:1103:64:2296:-173.721,0,-59.6234 chr05 29014884 . G A 1736.56 PASS AB=0.228663;ABP=1194.37;AC=16;AF=0.380952;AN=42;AO=434;CIGAR=1X;DP=2046;DPB=2046;DPRA=6.51961;EPP=945.429;EPPR=3272.83;GTI=8;LEN=1;MEANALT=1;MQM=30.1037;MQMR=41.8306;NS=21;NUMALT=1;ODDS=5.53372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15384;QR=57717;RO=1612;RPL=0;RPP=945.429;RPPR=3503.42;RPR=434;RUN=1;SAF=434;SAP=945.429;SAR=0;SRF=1585;SRP=3272.83;SRR=27;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:89,29:89:3177:29:1034:-38.0343,0,-213.286 0/1:92:42,50:42:1512:50:1766:-99.9705,0,-103.318 0/1:58:43,15:43:1521:15:525:-20.1957,0,-99.1511 0/1:146:105,41:105:3764:41:1476:-62.6112,0,-250.75 0/1:186:162,24:162:5820:24:841:-5.10894,0,-370.549 0/1:190:119,71:119:4272:71:2472:-127.488,0,-313.973 0/1:133:103,30:103:3676:30:1080:-39.598,0,-283.362 0/0:42:42,0:42:1504:0:0:0,-12.6433,-111.434 0/1:127:109,18:109:3893:18:648:-7.75282,0,-248.794 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.6412 0/0:5:5,0:5:180:0:0:0,-1.50515,-15.7552 0/0:29:27,2:27:972:2:72:0,-3.21462,-74.8591 0/0:103:97,6:97:3472:6:212:0,-15.5794,-241.443 0/1:93:76,17:76:2709:17:608:-15.7262,0,-184.111 0/1:129:110,19:110:3944:19:680:-10.3758,0,-252.114 0/1:64:45,19:45:1616:19:661:-27.8589,0,-102.572 0/1:131:106,25:106:3791:25:892:-24.1455,0,-249.764 0/1:96:84,12:84:3016:12:428:-2.63676,0,-229.444 0/1:84:67,17:67:2408:17:593:-17.3593,0,-165.218 0/1:125:98,27:98:3501:27:964:-32.7611,0,-272.329 0/1:91:79,12:79:2825:12:432:-3.78467,0,-220.021 chr05 29014885 . C A 12433.7 PASS AB=0.46919;ABP=20.0038;AC=22;AF=0.52381;AN=42;AO=972;CIGAR=1X;DP=2066;DPB=2066;DPRA=0;EPP=1885.68;EPPR=2374.26;GTI=1;LEN=1;MEANALT=1.09524;MQM=35.9774;MQMR=42.2271;NS=21;NUMALT=1;ODDS=8.9996;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34752;QR=38972;RO=1092;RPL=0;RPP=2113.68;RPPR=2374.26;RPR=972;RUN=1;SAF=945;SAP=1885.68;SAR=27;SRF=1092;SRP=2374.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:65,55:65:2332:55:1957:-102.325,0,-153.109 0/1:96:64,32:64:2283:32:1144:-70.3897,0,-141.993 0/1:58:31,27:31:1104:27:972:-49.4776,0,-71.053 0/1:145:92,53:92:3282:53:1904:-85.0676,0,-225.657 0/1:186:87,99:87:3093:99:3548:-181.748,0,-192.908 0/1:193:136,56:136:4884:56:2004:-110.471,0,-337.714 0/1:137:75,61:75:2661:61:2192:-148.84,0,-179.215 0/1:42:27,15:27:964:15:540:-26.5502,0,-57.9763 0/1:127:59,68:59:2115:68:2388:-126.296,0,-127.699 0/1:4:3,1:3:108:1:36:-2.36269,0,-8.22191 1/1:5:0,5:0:0:5:180:-15.7552,-1.50515,0 0/1:30:13,17:13:468:17:608:-41.357,0,-29.0096 0/1:104:31,73:31:1112:73:2585:-149.445,0,-62.0644 0/1:93:66,27:66:2336:27:966:-39.0515,0,-160.648 0/1:130:72,58:72:2564:58:2075:-106.294,0,-157.268 0/1:63:53,10:53:1892:10:356:-5.07574,0,-123.627 0/1:131:86,45:86:3069:45:1612:-72.2753,0,-200.487 0/1:96:24,72:24:855:72:2588:-195.983,0,-36.2639 0/1:86:29,57:29:1040:57:2048:-132.413,0,-55.2852 0/1:126:49,77:49:1752:77:2753:-205.632,0,-101.267 0/1:94:30,64:30:1058:64:2296:-173.582,0,-56.2127 chr05 29014891 . 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T C 35214.6 PASS AB=0.484242;ABP=12.386;AC=10;AF=0.238095;AN=42;AO=2116;CIGAR=1X;DP=7483;DPB=7483;DPRA=2.44255;EPP=4597.85;EPPR=11510.1;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.9149;MQMR=59.9974;NS=21;NUMALT=1;ODDS=3.51213;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75576;QR=187457;RO=5363;RPL=0;RPP=4597.85;RPPR=11510.1;RPR=2116;RUN=1;SAF=0;SAP=4597.85;SAR=2116;SRF=0;SRP=11648.6;SRR=5363;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:219:218,1:218:7580:1:36:0,-62.3273,-678.649 0/0:143:142,1:142:5029:1:36:0,-39.4495,-449.16 0/0:196:195,0:195:6922:0:0:0,-58.7008,-622.731 0/1:194:102,92:102:3593:92:3290:-237.916,0,-265.178 0/0:322:318,4:318:11200:4:144:0,-83.618,-994.587 0/1:164:71,93:71:2482:93:3329:-250.455,0,-174.264 0/0:205:205,0:205:7237:0:0:0,-61.7111,-651.388 0/1:147:83,64:83:2937:64:2293:-162.363,0,-220.309 0/1:347:174,173:174:6111:173:6195:-452.142,0,-445.635 0/1:989:495,494:495:17238:494:17641:-1289.33,0,-1253.36 0/0:1345:1340,4:1340:46266:4:144:0,-391.631,-4149.16 0/1:1114:603,511:603:21326:511:18270:-1308.54,0,-1583.47 0/0:218:218,0:218:7538:0:0:0,-65.6245,-678.472 0/1:149:71,78:71:2467:78:2791:-206.576,0,-177.428 0/0:194:194,0:194:6829:0:0:0,-58.3998,-614.687 0/0:115:115,0:115:3995:0:0:0,-34.6184,-359.739 0/1:159:76,83:76:2629:83:2967:-219.399,0,-188.989 0/1:1026:530,494:530:18656:494:17586:-1273.69,0,-1370.03 0/1:58:35,23:35:1158:23:818:-56.4812,0,-87.0485 0/0:125:125,0:125:4396:0:0:0,-37.6287,-395.814 0/0:54:53,1:53:1868:1:36:0,-12.6573,-164.798 chr06 251047 . 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T C 10359.5 PASS AB=0.495482;ABP=3.24576;AC=10;AF=0.238095;AN=42;AO=668;CIGAR=1X;DP=3289;DPB=3289;DPRA=0.872705;EPP=1453.55;EPPR=5694.44;GTI=0;LEN=1;MEANALT=1;MQM=41.6482;MQMR=50.2972;NS=21;NUMALT=1;ODDS=27.9252;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23848;QR=93758;RO=2621;RPL=0;RPP=1453.55;RPPR=5694.44;RPR=668;RUN=1;SAF=0;SAP=1453.55;SAR=668;SRF=0;SRP=5694.44;SRR=2621;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:230:230,0:230:8203:0:0:0,-69.2369,-732.009 0/0:115:112,3:112:4005:3:108:0,-24.8725,-348.294 0/0:185:184,1:184:6559:1:36:0,-52.1878,-583.926 0/1:207:98,109:98:3504:109:3888:-277.053,0,-251.551 0/0:297:295,2:295:10549:2:72:0,-82.7508,-938.273 0/1:154:84,70:84:3012:70:2504:-172.069,0,-223.514 0/0:274:274,0:274:9798:0:0:0,-82.4822,-875.399 0/1:155:72,83:72:2577:83:2969:-210.198,0,-183.37 0/1:233:124,109:124:4448:109:3878:-271.566,0,-329.407 0/1:26:13,13:13:468:13:468:-32.8755,0,-34.2899 0/0:7:7,0:7:252:0:0:0,-2.10721,-21.995 0/1:55:23,32:23:824:32:1152:-82.7547,0,-57.5314 0/0:208:208,0:208:7430:0:0:0,-62.6142,-665.78 0/1:151:67,84:67:2408:84:3020:-218.805,0,-170.539 0/0:326:326,0:326:11634:0:0:0,-98.1358,-1038.62 0/0:96:96,0:96:3443:0:0:0,-28.8989,-309.6 0/1:164:82,82:82:2944:82:2903:-206.985,0,-214.733 0/1:119:63,56:63:2264:56:2001:-137.199,0,-167.097 0/1:64:44,20:44:1580:20:720:-44.1329,0,-122.362 0/0:166:162,4:162:5812:4:129:0,-38.4473,-505.953 0/0:57:57,0:57:2044:0:0:0,-17.1587,-181.518 chr06 258932 . CAG CAAG 10260.8 PASS AB=0.541889;ABP=20.1111;AC=9;AF=0.214286;AN=42;AO=614;CIGAR=1M1I2M;DP=2675;DPB=2880.67;DPRA=1.0689;EPP=1336.29;EPPR=4461.04;GTI=0;LEN=1;MEANALT=1.5;MQM=59.9886;MQMR=59.9854;NS=21;NUMALT=1;ODDS=4.48618;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21629;QR=71789;RO=2053;RPL=614;RPP=1336.29;RPPR=4461.04;RPR=0;RUN=1;SAF=0;SAP=1336.29;SAR=614;SRF=0;SRP=4461.04;SRR=2053;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:248:248,0:248:8698:0:0:0,-74.6554,-782.83 0/0:114:111,1:111:3853:1:36:0,-30.4703,-343.38 0/0:99:99,0:99:3532:0:0:0,-29.802,-318.09 0/1:155:51,104:51:1792:104:3650:-282.045,0,-114.902 0/0:208:204,4:204:7096:4:144:0,-49.3006,-625.4 0/1:179:78,101:78:2701:101:3586:-269.061,0,-189.449 0/0:153:152,0:152:5313:0:0:0,-45.7566,-477.953 0/1:128:59,69:59:2051:69:2422:-179.702,0,-146.326 0/1:184:83,101:83:2906:101:3554:-264.681,0,-206.385 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:4:4,0:4:142:0:0:0,-1.20412,-13.1292 0/1:35:12,23:12:416:23:824:-63.9473,0,-27.2351 0/0:175:175,0:175:6065:0:0:0,-52.6802,-545.961 0/1:158:82,73:82:2815:73:2505:-178.747,0,-206.637 0/0:195:194,0:194:6784:0:0:0,-58.3998,-610.284 0/0:167:167,0:167:5914:0:0:0,-50.272,-532.374 0/1:121:41,79:41:1417:79:2820:-217.704,0,-91.484 0/1:97:52,45:52:1836:45:1607:-115.719,0,-136.313 0/1:65:52,13:52:1854:13:445:-20.8084,0,-147.572 0/0:128:127,1:127:4425:1:36:0,-34.9336,-394.827 0/0:57:57,0:57:1999:0:0:0,-17.1587,-180.18 chr06 259007 . CGATCCTAC TGATACTC,TGATCCTAC 19756 PASS AB=0.466245,0.510549;ABP=7.70141,3.46842;AC=32,10;AF=0.761905,0.238095;AN=42;AO=709,246;CIGAR=1X3M1X2M1D1M,1X8M;DP=969;DPB=901.667;DPRA=0,1.4259;EPP=1542.58,537.193;EPPR=0;GTI=0;LEN=8,1;MEANALT=2.19048,2.83333;MQM=57.5656,59.939;MQMR=0;NS=21;NUMALT=2;ODDS=4.34301;PAIRED=0,0;PAIREDR=0;PAO=56,56;PQA=1985,1985;PQR=0;PRO=0;QA=24683,8747;QR=0;RO=0;RPL=0,0;RPP=1542.58,537.193;RPPR=0;RPR=709,246;RUN=1,1;SAF=0,0;SAP=1542.58,537.193;SAR=709,246;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,28,0:0:0:28,0:981,0:-88.5692,-8.42884,0,-88.5692,-8.42884,-88.5692 1/1:21:0,21,0:0:0:21,0:736,0:-66.5225,-6.32163,0,-66.5225,-6.32163,-66.5225 1/1:64:0,64,0:0:0:64,0:2254,0:-202.651,-19.2659,0,-202.651,-19.2659,-202.651 1/2:47:0,29,18:0:0:29,18:1000,640:-131.397,-50.4646,-41.7347,-79.2655,0,-73.8469 1/1:68:0,65,3:0:0:65,3:2261,108:-203.094,-19.567,0,-194.281,-10.3949,-193.378 1/2:30:0,12,18:0:0:12,18:418,640:-86.5001,-52.5108,-48.8984,-34.3404,0,-28.9218 1/1:43:0,42,0:0:0:42,0:1457,0:-130.829,-12.6433,0,-130.829,-12.6433,-130.829 1/2:88:0,45,43:0:0:45,43:1565,1535:-252.552,-125.499,-111.952,-127.405,0,-114.461 1/2:101:0,47,49:0:0:47,49:1633,1724:-272.665,-140.083,-125.934,-132.336,0,-117.586 1/2:4:0,3,1:0:0:3,1:106,36:-11.9251,-3.29724,-2.39415,-8.98601,0,-8.68498 1/1:5:0,5,0:0:0:5,0:172,0:-15.4927,-1.50515,0,-15.4927,-1.50515,-15.4927 1/2:39:0,14,24:0:0:14,24:491,855:-109.514,-69.744,-65.5296,-39.8181,0,-32.5934 1/1:40:0,40,0:0:0:40,0:1392,0:-125.488,-12.0412,0,-125.488,-12.0412,-125.488 1/2:55:0,18,34:0:0:18,34:609,1220:-148.6,-99.2773,-93.8587,-49.0989,0,-38.8638 1/1:102:0,101,0:0:0:101,0:3516,0:-315.893,-30.404,0,-315.893,-30.404,-315.893 1/1:15:0,14,0:0:0:14,0:495,0:-44.559,-4.21442,0,-44.559,-4.21442,-44.559 1/2:22:0,12,10:0:0:12,10:413,360:-62.7136,-29.3007,-25.6884,-33.3501,0,-30.3398 1/2:42:0,16,26:0:0:16,26:559,926:-121.231,-75.786,-70.9695,-45.7969,0,-37.9701 1/2:46:0,25,19:0:0:25,19:886,676:-126.581,-54.5997,-47.074,-71.5038,0,-65.7842 1/1:93:0,92,1:0:0:92,1:3175,27:-284.415,-27.6948,0,-282.287,-25.296,-281.986 1/1:16:0,16,0:0:0:16,0:564,0:-51.0452,-4.81648,0,-51.0452,-4.81648,-51.0452 chr06 273928 . G A 8509.17 PASS AB=0.551852;ABP=9.31561;AC=32;AF=0.761905;AN=42;AO=412;CIGAR=1X;DP=534;DPB=534;DPRA=0;EPP=897.657;EPPR=267.93;GTI=0;LEN=1;MEANALT=1;MQM=59.6456;MQMR=59.9836;NS=21;NUMALT=1;ODDS=4.60793;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14641;QR=4372;RO=122;RPL=412;RPP=897.657;RPPR=267.93;RPR=0;RUN=1;SAF=0;SAP=897.657;SAR=412;SRF=0;SRP=267.93;SRR=122;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 1/1:30:0,30:0:0:30:1076:-97.1447,-9.0309,0 1/1:23:0,23:0:0:23:820:-74.1179,-6.92369,0 0/1:18:8,10:8:288:10:360:-27.3187,0,-20.8489 1/1:38:0,38:0:0:38:1360:-122.696,-11.4391,0 0/1:26:11,15:11:396:15:510:-38.3928,0,-28.156 1/1:30:0,30:0:0:30:1080:-97.4785,-9.0309,0 0/1:34:11,23:11:396:23:794:-61.5383,0,-25.7477 0/1:39:23,16:23:812:16:576:-40.4339,0,-61.6604 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:5:0,5:0:0:5:180:-16.5487,-1.50515,0 0/1:5:2,3:2:68:3:108:-8.57002,0,-4.95256 1/1:22:0,22:0:0:22:792:-71.6033,-6.62266,0 0/1:30:13,17:13:468:17:593:-44.6615,0,-33.4287 1/1:43:1,42:1:36:42:1493:-131.06,-9.34602,0 1/1:9:0,9:0:0:9:324:-29.4881,-2.70927,0 0/1:24:9,15:9:324:15:521:-39.9907,0,-22.2811 0/1:58:30,28:30:1080:28:1008:-73.5638,0,-80.0535 0/1:32:12,20:12:432:20:701:-53.7741,0,-29.5882 1/1:28:0,28:0:0:28:989:-89.3138,-8.42884,0 1/1:18:0,18:0:0:18:640:-57.9068,-5.41854,0 chr06 328796 . T C 27403.5 PASS AB=0.67306;ABP=586.243;AC=20;AF=0.47619;AN=42;AO=1509;CIGAR=1X;DP=2268;DPB=2268;DPRA=4.31154;EPP=3279.76;EPPR=1629.49;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9443;MQMR=59.9987;NS=21;NUMALT=1;ODDS=2.093;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53972;QR=27045;RO=757;RPL=0;RPP=3279.76;RPPR=1646.81;RPR=1509;RUN=1;SAF=1509;SAP=3279.76;SAR=0;SRF=755;SRP=1629.49;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:132:51,81:51:1817:81:2904:-221.859,0,-124.073 0/1:103:59,44:59:2116:44:1576:-111.125,0,-159.703 0/1:80:20,60:20:716:60:2137:-168.513,0,-40.6853 0/1:136:24,112:24:860:112:4004:-319.602,0,-36.7818 0/1:321:76,245:76:2716:245:8756:-691.371,0,-148.053 0/1:174:27,147:27:957:147:5280:-422.954,0,-34.0646 0/1:146:24,122:24:843:122:4376:-350.061,0,-32.2376 0/0:26:26,0:26:924:0:0:0,-7.82678,-83.4777 0/1:218:55,163:55:1968:163:5820:-458.281,0,-111.77 0/1:12:5,7:5:176:7:233:-17.6819,0,-12.5727 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:27:10,17:10:356:17:612:-47.2856,0,-24.2534 0/1:105:49,56:49:1760:56:2008:-149.385,0,-127.076 0/1:121:24,97:24:864:97:3449:-274.197,0,-41.6579 0/1:129:53,75:53:1892:75:2680:-202.554,0,-131.667 0/1:73:30,43:30:1072:43:1540:-116.918,0,-74.8173 0/1:60:24,36:24:860:36:1288:-98.1618,0,-59.66 0/1:65:44,21:44:1568:21:752:-48.4393,0,-121.845 0/1:116:78,38:78:2796:38:1368:-88.5014,0,-216.961 0/1:134:30,103:30:1068:103:3700:-292.801,0,-56.0354 0/1:85:45,40:45:1608:40:1417:-102.238,0,-119.423 chr06 328811 . G A 26639.8 PASS AB=0.666058;ABP=528.031;AC=20;AF=0.47619;AN=42;AO=1460;CIGAR=1X;DP=2216;DPB=2216;DPRA=4.56667;EPP=3104.25;EPPR=1620.8;GTI=1;LEN=1;MEANALT=1.15;MQM=59.9425;MQMR=59.9987;NS=21;NUMALT=1;ODDS=4.13829;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51937;QR=26857;RO=753;RPL=1452;RPP=3104.25;RPPR=1603.57;RPR=8;RUN=1;SAF=1460;SAP=3173.36;SAR=0;SRF=751;SRP=1620.8;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:51,79:51:1802:79:2793:-212.477,0,-123.324 0/1:100:59,41:59:2116:41:1460:-101.593,0,-160.606 0/1:76:19,57:19:669:57:2021:-159.282,0,-37.6557 0/1:134:24,109:24:864:109:3885:-309.585,0,-37.8296 0/1:315:78,237:78:2788:237:8446:-665.29,0,-156.336 0/1:169:27,142:27:968:142:5011:-400.265,0,-36.5633 0/1:144:25,119:25:900:119:4229:-337.441,0,-37.9727 0/0:24:24,0:24:852:0:0:0,-7.22472,-77.0004 0/1:214:55,159:55:1919:159:5638:-443.113,0,-108.561 0/1:11:5,6:5:176:6:216:-16.4792,0,-12.8737 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:26:9,17:9:324:17:612:-47.5867,0,-21.6791 0/1:106:52,53:52:1856:53:1869:-136.519,0,-135.352 0/1:119:23,95:23:828:95:3400:-270.332,0,-38.9628 0/1:124:54,70:54:1921:70:2508:-188.645,0,-135.837 0/1:70:29,41:29:1044:41:1441:-108.912,0,-73.2027 0/1:57:23,34:23:824:34:1220:-92.9481,0,-57.3246 0/1:66:45,21:45:1604:21:740:-47.0554,0,-124.782 0/1:114:76,38:76:2719:38:1368:-89.1034,0,-210.635 0/1:130:29,101:29:1040:101:3612:-286.149,0,-54.7805 0/1:82:43,39:43:1535:39:1396:-101.255,0,-113.758 chr06 332457 . GAC GAT,AAT 85674.9 PASS AB=0.440609,0.558221;ABP=55.3709,53.3277;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2238,969;CIGAR=2M1X,1X1M1X;DP=3211;DPB=3211;DPRA=0,1.51131;EPP=4836.74,2107.17;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.90476,2.2;MQM=52.8561,51.2549;MQMR=0;NS=21;NUMALT=2;ODDS=1.2655;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=79887,33991;QR=0;RO=0;RPL=1280,477;RPP=103.612,3.51451;RPPR=0;RPR=958,492;RUN=1,1;SAF=1277,477;SAP=99.8979,3.51451;SAR=961,492;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:156:0,155,1:0:0:155,1:5525,36:-494.565,-46.6597,0,-491.673,-43.4122,-491.372 1/1:188:0,188,0:0:0:188,0:6720,0:-601.486,-56.5936,0,-601.486,-56.5936,-601.486 1/1:106:0,106,0:0:0:106,0:3787,0:-337.112,-31.9092,0,-337.112,-31.9092,-337.112 1/2:169:0,52,117:0:0:52,117:1851,4078:-479.796,-329.977,-314.324,-150.17,0,-114.949 1/1:312:0,308,3:0:0:308,3:10931,108:-974.934,-92.7172,0,-966.317,-84.065,-965.414 1/2:142:0,63,79:0:0:63,79:2251,2757:-400.055,-221.262,-202.297,-179.14,0,-155.358 1/2:295:0,119,176:0:0:119,176:4234,6184:-830.633,-493.723,-457.9,-337.257,0,-284.276 1/2:192:0,75,116:0:0:75,116:2670,4077:-538.613,-326.624,-304.047,-212.084,0,-177.165 1/2:281:0,108,173:0:0:108,173:3860,6103:-807.152,-494.214,-461.703,-313.292,0,-261.213 1/2:15:0,6,9:0:0:6,9:216,311:-42.5386,-25.3457,-23.5396,-17.5407,0,-14.8315 1/1:12:0,12,0:0:0:12,0:432,0:-38.7094,-3.61236,0,-38.7094,-3.61236,-38.7094 1/2:49:0,25,24:0:0:25,24:891,842:-138.866,-67.4542,-59.9285,-71.759,0,-64.5343 1/1:171:0,171,0:0:0:171,0:6123,0:-549.285,-51.4761,0,-549.285,-51.4761,-549.285 1/2:120:0,56,63:0:0:56,63:2016,2218:-339.334,-175.997,-159.139,-163.348,0,-144.383 1/1:205:0,201,4:0:0:201,4:7171,144:-639.274,-60.507,0,-629.038,-49.9524,-627.834 1/1:84:0,83,0:0:0:83,0:2971,0:-265.679,-24.9855,0,-265.679,-24.9855,-265.679 1/2:68:0,38,30:0:0:38,30:1353,1060:-195.046,-86.2782,-74.8391,-109.12,0,-100.089 1/2:240:0,119,121:0:0:119,121:4248,4224:-675.054,-336.464,-300.641,-338.936,0,-302.512 1/2:138:0,92,46:0:0:92,46:3289,1609:-395.067,-129.958,-102.263,-265.458,0,-251.611 1/1:157:0,150,7:0:0:150,7:5376,240:-476.325,-45.1545,0,-456.911,-25.3984,-454.804 1/1:111:0,111,0:0:0:111,0:3972,0:-349.745,-33.4143,0,-349.745,-33.4143,-349.745 chr06 332480 . CGAT TGAC,AGAT 28903.4 PASS AB=0.447248,0.548165;ABP=24.0875,20.5813;AC=31,11;AF=0.738095,0.261905;AN=42;AO=962,484;CIGAR=1X2M1X,1X3M;DP=1452;DPB=1452;DPRA=0,2.14737;EPP=2091.97,1054;EPPR=0;GTI=1;LEN=4,1;MEANALT=2,2.33333;MQM=43.2827,42.905;MQMR=0;NS=21;NUMALT=2;ODDS=4.70208;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33900,17257;QR=0;RO=0;RPL=962,484;RPP=2091.97,1054;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2091.97,1054;SAR=962,484;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,46,1:0:0:46,1:1596,36:-141.39,-13.8474,0,-138.497,-10.5999,-138.196 1/1:32:0,32,0:0:0:32,0:1141,0:-99.7663,-9.63296,0,-99.7663,-9.63296,-99.7663 1/1:65:0,65,0:0:0:65,0:2284,0:-202.112,-19.567,0,-202.112,-19.567,-202.112 1/2:72:0,24,48:0:0:24,48:861,1720:-207.616,-138.485,-131.26,-69.4845,0,-55.035 1/1:127:0,123,3:0:0:123,3:4357,108:-384.073,-37.0267,0,-375.456,-28.3745,-374.553 1/2:55:0,25,30:0:0:25,30:879,1057:-150.049,-82.9979,-75.4721,-67.3867,0,-58.3558 1/2:148:0,61,87:0:0:61,87:2148,3092:-410.116,-242.252,-223.889,-168.205,0,-142.015 1/2:115:0,43,71:0:0:43,71:1486,2550:-318.936,-202.63,-189.686,-116.287,0,-94.914 1/2:120:0,51,68:0:0:51,68:1765,2422:-337.017,-195.152,-179.8,-141.901,0,-121.431 1/2:9:0,5,4:0:0:5,4:171,144:-25.3476,-11.7863,-10.2812,-13.9053,0,-12.7011 1/1:4:0,4,0:0:0:4,0:141,0:-12.6011,-1.20412,0,-12.6011,-1.20412,-12.6011 1/2:24:0,8,15:0:0:8,15:275,534:-64.1847,-42.3139,-39.9057,-21.9321,0,-17.4166 1/1:42:0,42,0:0:0:42,0:1480,0:-131.789,-12.6433,0,-131.789,-12.6433,-131.789 1/2:60:0,26,33:0:0:26,33:921,1168:-166.063,-92.112,-84.2852,-74.0205,0,-64.0865 1/1:97:0,96,1:0:0:96,1:3388,36:-297.851,-28.8989,0,-294.958,-25.6514,-294.657 1/1:35:0,34,0:0:0:34,0:1210,0:-107.292,-10.235,0,-107.292,-10.235,-107.292 1/2:37:0,21,16:0:0:21,16:739,576:-105.828,-46.9023,-40.5807,-59.2773,0,-54.4608 1/2:168:0,80,88:0:0:80,88:2821,3138:-471.575,-248.939,-224.857,-222.981,0,-196.49 1/2:64:0,46,18:0:0:46,18:1627,640:-180.953,-51.2212,-37.3738,-130.079,0,-124.661 1/1:81:0,80,1:0:0:80,1:2832,36:-247.932,-24.0824,0,-245.064,-20.8624,-244.763 1/1:50:0,50,0:0:0:50,0:1778,0:-152.539,-15.0515,0,-152.539,-15.0515,-152.539 chr06 350128 . G A 11057.7 PASS AB=0.468293;ABP=15.5413;AC=11;AF=0.261905;AN=42;AO=685;CIGAR=1X;DP=2774;DPB=2774;DPRA=1.30445;EPP=1490.47;EPPR=4534.87;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=22.9309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24486;QR=74501;RO=2087;RPL=0;RPP=1490.47;RPPR=4534.87;RPR=685;RUN=1;SAF=685;SAP=1490.47;SAR=0;SRF=2087;SRP=4534.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:247:247,0:247:8822:0:0:0,-74.3544,-793.966 0/0:61:61,0:61:2183:0:0:0,-18.3628,-196.735 0/0:147:146,1:146:5217:1:36:0,-40.6531,-466.069 0/1:92:41,51:41:1468:51:1824:-136.746,0,-104.721 0/0:300:292,8:292:10420:8:288:0,-64.0416,-911.452 0/1:95:49,46:49:1731:46:1640:-119.291,0,-127.476 0/1:200:99,101:99:3531:101:3628:-266.518,0,-257.794 0/1:185:91,94:91:3256:94:3330:-244.226,0,-237.57 0/1:364:205,159:205:7345:159:5687:-402.371,0,-551.521 0/1:37:16,21:16:568:21:741:-55.8743,0,-40.3138 0/0:15:15,0:15:532:0:0:0,-4.51545,-48.2131 0/1:41:21,20:21:756:20:712:-52.0644,0,-56.025 0/0:175:174,0:174:6215:0:0:0,-52.3792,-559.088 0/1:158:85,73:85:3048:73:2616:-188.125,0,-226.987 0/0:136:134,1:134:4804:1:36:0,-37.4006,-428.917 0/0:84:84,0:84:3008:0:0:0,-25.2865,-270.951 0/1:76:39,37:39:1362:37:1328:-96.944,0,-99.9961 0/1:121:69,52:69:2476:52:1868:-131.975,0,-186.669 0/1:66:48,18:48:1700:18:644:-38.4226,0,-133.418 0/0:105:102,3:102:3599:3:108:0,-21.533,-314.04 0/0:69:69,0:69:2460:0:0:0,-20.7711,-221.655 chr06 361588 . G A 89327.3 PASS AB=0.547222;ABP=44.8473;AC=31;AF=0.738095;AN=42;AO=3314;CIGAR=1X;DP=4296;DPB=4296;DPRA=0;EPP=7199.27;EPPR=2133.22;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9879;MQMR=60;NS=21;NUMALT=1;ODDS=38.0118;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=118005;QR=34319;RO=981;RPL=1624;RPP=5.86453;RPPR=4.87188;RPR=1690;RUN=1;SAF=1624;SAP=5.86453;SAR=1690;SRF=476;SRP=4.87188;SRR=505;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:255:0,255:0:0:255:9066:-815.919,-76.7627,0 1/1:171:0,171:0:0:171:6099:-549.014,-51.4761,0 1/1:186:0,186:0:0:186:6659:-599.387,-55.9916,0 0/1:196:74,122:74:2575:122:4350:-332.671,0,-172.998 1/1:445:1,444:1:36:444:15813:-1419.22,-130.36,0 0/1:114:52,62:52:1823:62:2211:-164.937,0,-130.033 0/1:268:132,136:132:4568:136:4838:-354.898,0,-330.617 0/1:397:158,239:158:5563:239:8534:-648.552,0,-381.293 0/1:281:146,134:146:5073:134:4760:-343.91,0,-372.072 0/1:23:12,11:12:404:11:383:-27.8796,0,-29.758 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:63:38,25:38:1330:25:896:-61.9955,0,-101.033 1/1:180:0,180:0:0:180:6430:-578.787,-54.1854,0 0/1:175:87,88:87:3062:88:3115:-227.896,0,-223.131 1/1:387:0,387:0:0:387:13734:-1235.85,-116.499,0 1/1:189:1,188:1:36:188:6697:-599.209,-53.2964,0 0/1:189:92,97:92:3271:97:3467:-255.347,0,-237.717 0/1:314:147,167:147:5144:167:5933:-439.559,0,-368.587 0/1:140:39,101:39:1362:101:3612:-283.14,0,-80.7326 1/1:177:1,176:1:36:176:6261:-559.92,-49.684,0 1/1:129:1,128:1:36:128:4535:-404.721,-35.2346,0 chr06 362850 . TG CA 27563.3 PASS AB=0.504808;ABP=3.2191;AC=31;AF=0.738095;AN=42;AO=1356;CIGAR=2X;DP=1876;DPB=1876;DPRA=0;EPP=2947.53;EPPR=1130;GTI=0;LEN=2;MEANALT=1.04762;MQM=50.4971;MQMR=59.9846;NS=21;NUMALT=1;ODDS=6.47099;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47818;QR=18142;RO=519;RPL=8;RPP=2878.45;RPPR=1121.34;RPR=1348;RUN=1;SAF=8;SAP=2878.45;SAR=1348;SRF=1;SRP=1121.34;SRR=518;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:1,96:1:36:96:3352:-296.443,-25.6016,0 1/1:80:0,80:0:0:80:2788:-249.935,-24.0824,0 1/1:91:3,88:3:108:88:3079:-266.219,-17.3186,0 0/1:116:62,54:62:2125:54:1917:-136.762,0,-156.593 1/1:149:0,149:0:0:149:5262:-470.41,-44.8535,0 0/1:110:64,46:64:2234:46:1627:-113.231,0,-168.209 0/1:124:53,70:53:1848:70:2474:-183.441,0,-129.212 0/1:156:65,91:65:2223:91:3213:-240.57,0,-153.368 0/1:171:95,76:95:3367:76:2684:-189.376,0,-251.771 0/1:8:4,4:4:144:4:144:-10.8719,0,-10.9054 1/1:6:0,6:0:0:6:216:-19.7408,-1.80618,0 0/1:38:23,15:23:781:15:529:-36.386,0,-59.1603 1/1:80:0,80:0:0:80:2822:-252.872,-24.0824,0 0/1:102:61,41:61:2171:41:1427:-97.121,0,-164.951 1/1:153:1,152:1:36:152:5336:-474.587,-42.4593,0 1/1:85:0,85:0:0:85:3010:-269.969,-25.5876,0 0/1:85:37,48:37:1317:48:1697:-126.467,0,-93.2439 0/1:77:37,40:37:1286:40:1423:-104.857,0,-92.8606 0/1:53:13,40:13:466:40:1417:-110.929,0,-26.3241 1/1:76:0,76:0:0:76:2723:-243.613,-22.8783,0 1/1:19:0,19:0:0:19:678:-60.8544,-5.71957,0 chr06 362855 . CAGAA CA 23305.5 PASS AB=0.46281;ABP=14.6393;AC=31;AF=0.738095;AN=42;AO=1192;CIGAR=1M3D1M;DP=1718;DPB=1002.8;DPRA=0;EPP=2591.41;EPPR=1136.52;GTI=0;LEN=3;MEANALT=1.19048;MQM=50.5822;MQMR=59.9847;NS=21;NUMALT=1;ODDS=0.139282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41257;QR=18170;RO=522;RPL=6;RPP=2539.55;RPPR=1127.85;RPR=1186;RUN=1;SAF=6;SAP=2539.55;SAR=1186;SRF=1;SRP=1127.85;SRR=521;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:1,78:1:34:78:2731:-241.768,-20.7117,0 1/1:73:0,73:0:0:73:2538:-227.595,-21.9752,0 1/1:81:3,78:3:108:78:2683:-230.762,-14.3083,0 0/1:110:62,48:62:2165:48:1643:-114.04,0,-162.003 1/1:138:0,138:0:0:138:4758:-425.858,-41.5421,0 0/1:106:64,42:64:2236:42:1482:-101.45,0,-169.594 0/1:112:53,58:53:1832:58:1981:-144.048,0,-131.533 0/1:143:66,77:66:2270:77:2642:-193.323,0,-161.515 0/1:159:96,63:96:3373:63:2177:-147.593,0,-255.926 0/1:7:4,3:4:140:3:104:-7.57532,0,-10.8376 1/1:5:0,5:0:0:5:180:-16.5105,-1.50515,0 0/1:39:24,15:24:828:15:519:-35.1954,0,-63.0915 1/1:74:0,74:0:0:74:2589:-232.128,-22.2762,0 0/1:92:60,31:60:2061:31:1071:-68.659,0,-158.006 1/1:136:1,135:1:35:135:4699:-417.695,-37.4415,0 1/1:78:0,78:0:0:78:2722:-244.23,-23.4803,0 0/1:76:37,39:37:1287:39:1368:-99.7948,0,-93.2498 0/1:73:38,34:38:1333:34:1138:-80.6004,0,-98.3916 0/1:51:13,38:13:468:38:1299:-101.026,0,-27.1071 1/1:68:0,68:0:0:68:2358:-211.375,-20.47,0 1/1:17:0,17:0:0:17:575:-51.6828,-5.11751,0 chr06 371266 . A T 29020.6 PASS AB=0.537173;ABP=14.4725;AC=31;AF=0.738095;AN=42;AO=1375;CIGAR=1X;DP=1822;DPB=1822;DPRA=0;EPP=2945.51;EPPR=962.821;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9964;MQMR=60;NS=21;NUMALT=1;ODDS=12.0595;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49229;QR=15952;RO=446;RPL=1370;RPP=2945.51;RPPR=962.821;RPR=5;RUN=1;SAF=0;SAP=2988.78;SAR=1375;SRF=0;SRP=971.487;SRR=446;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:0,73:0:0:73:2612:-235.327,-21.9752,0 1/1:91:0,91:0:0:91:3268:-294.34,-27.3937,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 0/1:131:59,72:59:2103:72:2565:-191.664,0,-150.104 1/1:171:3,168:3:104:168:6031:-533.188,-41.7733,0 0/1:95:45,50:45:1612:50:1795:-133.234,0,-116.772 0/1:115:49,66:49:1748:66:2368:-178.76,0,-122.986 0/1:64:22,42:22:792:42:1503:-116.298,0,-52.3398 0/1:162:99,63:99:3543:63:2256:-154.536,0,-270.311 0/1:27:7,20:7:252:20:704:-55.5567,0,-14.9011 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:33:14,18:14:504:18:648:-48.6591,0,-35.7053 1/1:120:0,120:0:0:120:4316:-388.614,-36.1236,0 0/1:85:43,42:43:1535:42:1476:-107.544,0,-112.855 1/1:120:0,120:0:0:120:4297:-386.905,-36.1236,0 1/1:78:0,78:0:0:78:2789:-251.248,-23.4803,0 0/1:75:31,44:31:1112:44:1580:-119.914,0,-77.8141 0/1:95:48,47:48:1720:47:1686:-123.429,0,-126.488 0/1:73:24,49:24:855:49:1741:-134.997,0,-55.295 1/1:113:1,112:1:36:112:4012:-357.671,-30.4181,0 1/1:49:1,48:1:36:48:1714:-150.947,-11.1522,0 chr06 473325 . G A 46593.7 PASS AB=0.502699;ABP=3.09234;AC=31;AF=0.738095;AN=42;AO=1788;CIGAR=1X;DP=2443;DPB=2443;DPRA=0;EPP=3885.6;EPPR=1425.32;GTI=0;LEN=1;MEANALT=1;MQM=50.156;MQMR=59.8305;NS=21;NUMALT=1;ODDS=7.85141;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63809;QR=23293;RO=655;RPL=977;RPP=36.4762;RPPR=59.9029;RPR=811;RUN=1;SAF=977;SAP=36.4762;SAR=811;SRF=393;SRP=59.9029;SRR=262;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:149:1,148:1:36:148:5271:-464.957,-41.2552,0 1/1:83:0,83:0:0:83:2966:-260.333,-24.9855,0 1/1:88:0,88:0:0:88:3147:-279.159,-26.4906,0 0/1:120:55,65:55:1963:65:2336:-171.897,0,-140.818 1/1:187:0,187:0:0:187:6632:-586.877,-56.2926,0 0/1:51:23,28:23:820:28:991:-72.502,0,-58.7454 0/1:220:124,96:124:4405:96:3443:-231.438,0,-330.35 0/1:102:54,48:54:1940:48:1724:-122.292,0,-144.171 0/1:143:50,93:50:1777:93:3329:-254.266,0,-117.033 0/1:20:11,9:11:392:9:324:-23.1639,0,-29.5995 1/1:4:0,4:0:0:4:144:-12.6673,-1.20412,0 0/1:41:26,15:26:932:15:540:-35.8481,0,-71.8566 1/1:94:0,94:0:0:94:3380:-299.58,-28.2968,0 0/1:87:52,35:52:1864:35:1244:-84.5601,0,-141.84 1/1:192:0,192:0:0:192:6842:-607.605,-57.7978,0 1/1:79:0,79:0:0:79:2828:-253.05,-23.7814,0 0/1:44:19,25:19:656:25:878:-65.6895,0,-46.1141 0/1:253:140,113:140:4938:113:4021:-276.326,0,-368.41 0/1:216:91,125:91:3250:125:4475:-330.544,0,-227.694 1/1:117:5,112:5:180:112:3986:-336.589,-18.6684,0 1/1:153:4,149:4:140:149:5308:-455.163,-33.113,0 chr06 501653 . TTTGT TTT,TCTTTT 33257.7 PASS AB=0.458476,0.500569;ABP=16.175,3.01277;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1134,443;CIGAR=2M2D1M,1M1I2M1X1M;DP=1637;DPB=1257.8;DPRA=0,1.2129;EPP=2422.22,947.679;EPPR=0;GTI=0;LEN=2,6;MEANALT=3.33333,3.76923;MQM=59.7549,58.3296;MQMR=0;NS=21;NUMALT=2;ODDS=7.01679;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39980,15551;QR=0;RO=0;RPL=5,2;RPP=2422.22,947.679;RPPR=0;RPR=1129,441;RUN=1,1;SAF=1134,443;SAP=2465.46,964.973;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:0,110,0:0:0:110,0:3898,0:-350.651,-33.1133,0,-350.651,-33.1133,-350.651 1/1:85:0,83,0:0:0:83,0:2928,0:-263.368,-24.9855,0,-263.368,-24.9855,-263.368 1/1:55:0,53,0:0:0:53,0:1874,0:-167.993,-15.9546,0,-167.993,-15.9546,-167.993 1/2:102:0,45,49:0:0:45,49:1604,1725:-271.092,-140.342,-126.795,-130.763,0,-116.013 1/1:105:0,99,2:0:0:99,2:3493,68:-314.104,-29.802,0,-308.589,-24.2895,-307.987 1/2:122:0,45,74:0:0:45,74:1608,2608:-342.548,-211.44,-197.893,-131.104,0,-108.828 1/2:119:0,47,71:0:0:47,71:1627,2482:-333.958,-201.744,-187.595,-132.21,0,-110.837 1/2:95:0,49,40:0:0:49,40:1739,1420:-257.356,-115.672,-100.921,-141.699,0,-129.658 1/2:110:0,51,58:0:0:51,58:1794,2053:-313.295,-167.261,-151.909,-146.065,0,-128.606 1/2:10:0,6,3:0:0:6,3:216,101:-25.801,-8.16603,-6.35985,-17.6245,0,-16.7214 1/1:8:0,8,0:0:0:8,0:284,0:-25.8987,-2.40824,0,-25.8987,-2.40824,-25.8987 1/2:30:0,12,18:0:0:12,18:415,642:-86.2946,-52.5764,-48.964,-34.0679,0,-28.6494 1/1:92:0,89,0:0:0:89,0:3135,0:-281.997,-26.7917,0,-281.997,-26.7917,-281.997 1/2:106:0,46,54:0:0:46,54:1627,1850:-282.533,-150.17,-136.322,-132.373,0,-116.117 1/1:102:0,99,1:0:0:99,1:3469,36:-312.052,-29.802,0,-309.115,-26.8646,-308.814 1/1:60:0,55,0:0:0:55,0:1929,0:-173.526,-16.5567,0,-173.526,-16.5567,-173.526 1/2:64:0,23,36:0:0:23,36:799,1265:-167.966,-103.009,-96.085,-64.9964,0,-54.1593 1/2:47:0,22,21:0:0:22,21:775,752:-124.4,-61.3083,-54.6857,-63.0994,0,-56.7778 1/2:74:0,57,16:0:0:57,16:2023,549:-209.052,-44.229,-27.0703,-164.808,0,-159.992 1/1:84:0,84,0:0:0:84,0:2941,0:-264.149,-25.2865,0,-264.149,-25.2865,-264.149 1/1:53:0,51,0:0:0:51,0:1802,0:-162.14,-15.3525,0,-162.14,-15.3525,-162.14 chr06 501700 . TATAG CATAA,TATAA 45967 PASS AB=0.539512,0.458537;ABP=16.9098,18.3165;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1680,481;CIGAR=1X3M1X,4M1X;DP=2166;DPB=2166;DPRA=0,2.10405;EPP=3625.07,1038.82;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.95238,2.2;MQM=59.9649,59.9751;MQMR=0;NS=21;NUMALT=2;ODDS=20.2303;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59272,17179;QR=0;RO=0;RPL=1677,480;RPP=3625.07,1038.82;RPPR=0;RPR=3,1;RUN=1,1;SAF=0,0;SAP=3651.08,1047.49;SAR=1680,481;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:167:0,166,1:0:0:166,1:5814,36:-522.939,-49.971,0,-520.002,-46.6737,-519.701 1/1:40:0,39,0:0:0:39,0:1358,0:-122.226,-11.7402,0,-122.226,-11.7402,-122.226 1/1:61:0,61,0:0:0:61,0:2153,0:-194.034,-18.3628,0,-194.034,-18.3628,-194.034 1/2:77:0,38,39:0:0:38,39:1344,1391:-223.213,-113.748,-102.309,-109.82,0,-98.0802 1/1:216:0,214,2:0:0:214,2:7569,72:-680.901,-64.4204,0,-675.026,-58.1858,-674.424 1/2:79:0,54,25:0:0:54,25:1927,896:-230.528,-73.4346,-57.179,-157.451,0,-149.925 1/2:164:0,90,73:0:0:90,73:3138,2599:-467.164,-211.959,-184.866,-255.335,0,-233.36 1/2:74:0,41,33:0:0:41,33:1441,1184:-214.222,-96.9343,-84.5921,-117.643,0,-107.709 1/2:197:0,110,86:0:0:110,86:3901,3073:-568.472,-250.659,-217.546,-317.917,0,-292.029 1/2:26:0,11,15:0:0:11,15:388,536:-75.6507,-44.0594,-40.748,-31.9459,0,-27.4304 1/1:5:0,5,0:0:0:5,0:179,0:-16.4604,-1.50515,0,-16.4604,-1.50515,-16.4604 1/2:27:0,10,17:0:0:10,17:358,599:-78.3175,-49.1206,-46.1103,-29.5526,0,-24.4351 1/1:106:0,106,0:0:0:106,0:3751,0:-337.792,-31.9092,0,-337.792,-31.9092,-337.792 1/2:88:0,33,55:0:0:33,55:1129,1948:-250.666,-159.036,-149.102,-91.977,0,-75.4204 1/1:320:0,318,1:0:0:318,1:11288,36:-1015.44,-95.7275,0,-1012.5,-92.7901,-1012.2 1/1:66:0,65,0:0:0:65,0:2290,0:-206.011,-19.567,0,-206.011,-19.567,-206.011 1/2:65:0,25,40:0:0:25,40:886,1433:-189.403,-117.226,-109.7,-72.5329,0,-60.4917 1/2:133:0,69,64:0:0:69,64:2404,2300:-383.486,-187.995,-167.224,-195.845,0,-176.579 1/2:95:0,72,23:0:0:72,23:2549,824:-275.19,-67.5596,-45.8855,-207.987,0,-201.064 1/1:92:0,85,7:0:0:85,7:3007,252:-270.504,-25.5876,0,-249.941,-4.6658,-247.834 1/1:68:0,68,0:0:0:68,0:2398,0:-216.076,-20.47,0,-216.076,-20.47,-216.076 chr06 504839 . A G 22246.4 PASS AB=0.542149;ABP=12.3458;AC=31;AF=0.738095;AN=42;AO=1053;CIGAR=1X;DP=1335;DPB=1335;DPRA=0;EPP=2289.57;EPPR=613.194;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9924;MQMR=60;NS=21;NUMALT=1;ODDS=15.2088;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37635;QR=10079;RO=281;RPL=1053;RPP=2289.57;RPPR=613.194;RPR=0;RUN=1;SAF=0;SAP=2289.57;SAR=1053;SRF=0;SRP=613.194;SRR=281;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2380:-214.459,-20.169,0 1/1:38:0,38:0:0:38:1360:-122.692,-11.4391,0 1/1:46:0,46:0:0:46:1648:-148.609,-13.8474,0 0/1:60:33,27:33:1180:27:972:-69.7361,0,-88.4462 1/1:184:2,182:2:68:182:6495:-578.179,-48.9318,0 0/1:49:22,27:22:788:27:964:-72.3264,0,-56.4943 0/1:104:46,57:46:1652:57:2040:-152.506,0,-117.603 0/1:61:27,34:27:972:34:1216:-91.3837,0,-69.4351 0/1:70:30,40:30:1080:40:1424:-107.385,0,-76.4412 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:17:8,9:8:284:9:324:-24.3883,0,-20.7858 1/1:87:0,87:0:0:87:3108:-279.948,-26.1896,0 0/1:47:20,27:20:720:27:964:-72.9284,0,-50.9804 1/1:136:0,136:0:0:136:4873:-438.722,-40.9401,0 1/1:59:0,59:0:0:59:2112:-190.349,-17.7608,0 0/1:65:33,32:33:1184:32:1152:-84.4232,0,-87.3014 0/1:77:41,36:41:1467:36:1281:-92.4128,0,-109.146 0/1:45:10,35:10:360:35:1242:-98.5367,0,-19.198 1/1:71:3,68:3:108:68:2432:-209.06,-11.298,0 1/1:37:0,37:0:0:37:1324:-119.462,-11.1381,0 chr06 513157 . A T 11013.2 PASS AB=0.423913;ABP=86.2815;AC=11;AF=0.261905;AN=42;AO=715;CIGAR=1X;DP=3545;DPB=3545;DPRA=1.39067;EPP=1546.94;EPPR=6128.75;GTI=1;LEN=1;MEANALT=1.05882;MQM=59.5664;MQMR=59.9205;NS=21;NUMALT=1;ODDS=7.96177;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25559;QR=100938;RO=2829;RPL=0;RPP=1555.61;RPPR=6128.75;RPR=715;RUN=1;SAF=1;SAP=1546.94;SAR=714;SRF=0;SRP=6146.11;SRR=2829;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:158:157,1:157:5617:1:36:0,-43.9645,-502.049 0/0:193:193,0:193:6861:0:0:0,-58.0988,-617.489 0/0:196:194,2:194:6916:2:72:0,-52.1652,-615.29 0/1:251:151,100:151:5388:100:3575:-246.371,0,-409.492 0/0:396:392,4:392:14020:4:144:0,-105.894,-1248.24 0/1:184:114,69:114:4062:69:2459:-165.955,0,-310.309 0/1:206:112,94:112:3996:94:3360:-240.308,0,-296.844 0/1:129:75,54:75:2675:54:1902:-132.619,0,-202.162 0/1:378:193,185:193:6911:185:6623:-482.172,0,-508.266 0/1:8:4,4:4:144:4:144:-10.9007,0,-10.9054 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:36:24,12:24:856:12:432:-28.3841,0,-66.524 0/0:266:266,0:266:9437:0:0:0,-80.074,-849.292 0/1:197:116,81:116:4110:81:2901:-201.971,0,-310.77 0/0:306:305,1:305:10906:1:36:0,-88.5169,-977.819 0/0:127:126,1:126:4524:1:36:0,-34.6325,-403.728 0/1:118:65,53:65:2310:53:1908:-136.473,0,-172.637 0/1:80:46,34:46:1635:34:1220:-86.0198,0,-123.354 0/1:69:53,16:53:1883:16:567:-30.5842,0,-148.977 0/0:193:189,4:189:6751:4:144:0,-44.7852,-594.335 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 chr06 513195 . 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A G 1161.14 PASS AB=0.320611;ABP=186.094;AC=11;AF=0.261905;AN=42;AO=212;CIGAR=1X;DP=1463;DPB=1463;DPRA=0.824247;EPP=463.362;EPPR=2719.52;GTI=2;LEN=1;MEANALT=1;MQM=29.467;MQMR=29.3325;NS=21;NUMALT=1;ODDS=1.49282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7445;QR=44511;RO=1251;RPL=0;RPP=463.362;RPPR=2719.52;RPR=212;RUN=1;SAF=0;SAP=463.362;SAR=212;SRF=0;SRP=2719.52;SRR=1251;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:99:99,0:99:3502:0:0:0,-29.802,-255.998 0/0:6:6,0:6:216:0:0:0,-1.80618,-14.0729 0/0:112:112,0:112:4015:0:0:0,-33.7154,-289.413 0/1:75:51,24:51:1820:24:851:-39.9661,0,-109.992 0/0:111:109,2:109:3862:2:72:0,-27.8991,-275.993 0/1:33:17,16:17:612:16:560:-28.87,0,-29.3023 0/1:69:49,20:49:1748:20:703:-28.3444,0,-92.1224 0/1:44:30,14:30:1057:14:476:-20.1973,0,-59.9525 0/1:202:153,49:153:5431:49:1722:-69.7153,0,-342.658 0/1:11:7,4:7:252:4:131:-6.4692,0,-14.2004 0/0:10:10,0:10:360:0:0:0,-3.0103,-23.2842 0/1:22:11,11:11:396:11:396:-20.7394,0,-20.7394 0/0:121:121,0:121:4319:0:0:0,-36.4246,-314.575 0/1:92:52,40:52:1860:40:1402:-75.6718,0,-107.833 0/0:136:136,0:136:4852:0:0:0,-40.9401,-353.175 0/0:24:24,0:24:864:0:0:0,-7.22472,-65.1831 0/1:23:15,8:15:532:8:276:-13.9769,0,-34.3362 0/1:33:19,14:19:676:14:504:-24.8158,0,-36.981 0/1:51:41,10:41:1456:10:352:-10.7017,0,-91.2603 0/0:167:167,0:167:5893:0:0:0,-50.272,-406.754 0/0:22:22,0:22:788:0:0:0,-6.62266,-50.5281 chr06 605196 . TTAG CTAA,TTAA 21928.4 PASS AB=0.689088,0.309417;ABP=210.774,214.072;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1280,209;CIGAR=1X2M1X,3M1X;DP=1494;DPB=1494;DPRA=0,0.825949;EPP=2782.49,456.848;EPPR=0;GTI=2;LEN=4,1;MEANALT=1.66667,2.08333;MQM=29.3195,29.4545;MQMR=0;NS=21;NUMALT=2;ODDS=1.06663;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45013,7403;QR=0;RO=0;RPL=0,0;RPP=2782.49,456.848;RPPR=0;RPR=1280,209;RUN=1,1;SAF=0,0;SAP=2782.49,456.848;SAR=1280,209;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,101,0:0:0:101,0:3552,0:-260.619,-30.404,0,-260.619,-30.404,-260.619 1/1:6:0,6,0:0:0:6,0:209,0:-13.9684,-1.80618,0,-13.9684,-1.80618,-13.9684 1/1:116:0,116,0:0:0:116,0:4127,0:-299.045,-34.9195,0,-299.045,-34.9195,-299.045 1/2:76:0,52,24:0:0:52,24:1831,849:-173.526,-54.9932,-39.3397,-118.82,0,-111.595 1/1:114:0,112,2:0:0:112,2:3918,72:-287.906,-33.7154,0,-283.283,-28.8022,-282.681 1/2:35:0,19,16:0:0:19,16:665,568:-71.7554,-34.1353,-28.4158,-37.8818,0,-33.0653 1/2:75:0,55,20:0:0:55,20:1929,716:-152.697,-43.4309,-26.8742,-109.535,0,-103.514 1/2:46:0,30,16:0:0:30,16:1051,557:-98.092,-33.9397,-24.9088,-64.4208,0,-59.6043 1/2:205:0,158,46:0:0:158,46:5543,1619:-474.693,-108.551,-60.9883,-366.084,0,-352.237 1/2:11:0,7,4:0:0:7,4:241,136:-23.6721,-8.76897,-6.66176,-15.1728,0,-13.9687 1/1:10:0,10,0:0:0:10,0:356,0:-23.2475,-3.0103,0,-23.2475,-3.0103,-23.2475 1/2:22:0,11,11:0:0:11,11:381,392:-47.4749,-23.9766,-20.6652,-23.7701,0,-20.4588 1/1:125:0,125,0:0:0:125,0:4421,0:-323.905,-37.6288,0,-323.905,-37.6288,-323.905 1/2:87:0,53,34:0:0:53,34:1871,1211:-199.589,-78.4338,-62.4793,-121.444,0,-111.209 1/1:138:0,138,0:0:0:138,0:4816,0:-355.189,-41.5421,0,-355.189,-41.5421,-355.189 1/1:25:0,25,0:0:0:25,0:884,0:-67.3787,-7.52575,0,-67.3787,-7.52575,-67.3787 1/2:23:0,15,8:0:0:15,8:528,288:-55.1352,-18.9179,-14.4024,-36.5128,0,-34.1046 1/2:34:0,19,15:0:0:19,15:674,527:-73.2426,-32.3603,-26.6407,-41.1541,0,-36.6387 1/2:55:0,42,13:0:0:42,13:1482,468:-126.201,-30.188,-17.5448,-96.3015,0,-92.3881 1/1:167:0,163,0:0:0:163,0:5724,0:-396.211,-49.0679,0,-396.211,-49.0679,-396.211 1/1:23:0,23,0:0:0:23,0:810,0:-52.5966,-6.92369,0,-52.5966,-6.92369,-52.5966 chr06 605235 . C T 1095.54 PASS AB=0.317507;ABP=197.979;AC=11;AF=0.261905;AN=42;AO=216;CIGAR=1X;DP=1494;DPB=1494;DPRA=0.834866;EPP=472.048;EPPR=2778.15;GTI=3;LEN=1;MEANALT=1;MQM=29.4583;MQMR=29.3263;NS=21;NUMALT=1;ODDS=0.178266;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7561;QR=45743;RO=1278;RPL=216;RPP=472.048;RPPR=2778.15;RPR=0;RUN=1;SAF=0;SAP=472.048;SAR=216;SRF=0;SRP=2778.15;SRR=1278;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:99:99,0:99:3560:0:0:0,-29.802,-257.637 0/0:6:6,0:6:216:0:0:0,-1.80618,-14.0729 0/0:116:116,0:116:4164:0:0:0,-34.9195,-300.101 0/1:76:52,24:52:1857:24:860:-40.0077,0,-111.948 0/0:113:111,2:111:3958:2:72:0,-28.5011,-281.828 0/1:35:19,16:19:684:16:561:-27.9159,0,-33.3061 0/1:75:55,20:55:1961:20:690:-25.6545,0,-103.764 0/1:46:30,16:30:1080:16:561:-24.8582,0,-60.1434 0/1:205:157,48:157:5625:48:1649:-64.9159,0,-354.447 0/1:11:7,4:7:252:4:144:-6.81262,0,-14.2004 0/0:10:10,0:10:360:0:0:0,-3.0103,-23.2842 0/1:21:11,10:11:396:10:360:-18.5778,0,-21.0404 0/0:123:123,0:123:4416:0:0:0,-37.0267,-320.415 0/1:93:53,40:53:1904:40:1406:-74.8483,0,-110.352 0/0:139:139,0:139:4965:0:0:0,-41.8432,-360.761 0/0:25:25,0:25:900:0:0:0,-7.52575,-67.9324 0/1:23:15,8:15:540:8:273:-13.5014,0,-34.618 0/1:34:19,15:19:684:15:540:-26.9773,0,-36.8277 0/1:55:42,13:42:1489:13:445:-16.5609,0,-92.2096 0/0:167:167,0:167:5948:0:0:0,-50.272,-407.281 0/0:22:22,0:22:784:0:0:0,-6.62266,-50.5061 chr06 605237 . T A 18506.9 PASS AB=0.680597;ABP=192.816;AC=31;AF=0.738095;AN=42;AO=1266;CIGAR=1X;DP=1482;DPB=1482;DPRA=0;EPP=2752.09;EPPR=472.048;GTI=2;LEN=1;MEANALT=1;MQM=29.3278;MQMR=29.4676;NS=21;NUMALT=1;ODDS=0.196482;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45307;QR=7640;RO=216;RPL=1266;RPP=2752.09;RPPR=472.048;RPR=0;RUN=1;SAF=0;SAP=2752.09;SAR=1266;SRF=0;SRP=472.048;SRR=216;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,98:0:0:98:3512:-254.894,-29.5009,0 1/1:6:0,6:0:0:6:212:-14.0217,-1.80618,0 1/1:114:0,114:0:0:114:4090:-294.865,-34.3174,0 0/1:75:24,51:24:864:51:1828:-110.199,0,-40.4127 1/1:110:2,108:2:72:108:3880:-275.404,-27.598,0 0/1:35:16,19:16:561:19:684:-33.3061,0,-27.9159 0/1:75:20,55:20:690:55:1968:-104.184,0,-25.6545 0/1:46:16,30:16:572:30:1076:-60.0697,0,-25.4319 0/1:204:49,155:49:1756:155:5510:-347.502,0,-70.321 0/1:10:3,7:3:108:7:252:-14.5014,0,-4.65107 1/1:10:0,10:0:0:10:360:-23.2842,-3.0103,0 0/1:22:11,11:11:396:11:381:-20.0897,0,-20.7394 1/1:122:0,122:0:0:122:4384:-318.056,-36.7257,0 0/1:93:40,53:40:1421:53:1896:-110.145,0,-75.6189 1/1:138:0,138:0:0:138:4937:-358.475,-41.5421,0 1/1:25:0,25:0:0:25:900:-67.9324,-7.52575,0 0/1:23:8,15:8:273:15:540:-34.618,0,-13.5014 0/1:33:14,19:14:489:19:684:-37.1287,0,-24.1675 0/1:54:13,41:13:438:41:1468:-90.7887,0,-16.2957 1/1:166:0,166:0:0:166:5921:-405.623,-49.971,0 1/1:23:0,23:0:0:23:824:-52.831,-6.92369,0 chr06 610783 . T G 11043.3 PASS AB=0.494955;ABP=3.77711;AC=21;AF=0.5;AN=42;AO=1717;CIGAR=1X;DP=3469;DPB=3469;DPRA=0;EPP=3731.43;EPPR=3805.26;GTI=0;LEN=1;MEANALT=1.04762;MQM=24.4292;MQMR=26.7327;NS=21;NUMALT=1;ODDS=23.994;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61006;QR=62603;RO=1751;RPL=1717;RPP=3731.43;RPPR=3805.26;RPR=0;RUN=1;SAF=0;SAP=3731.43;SAR=1717;SRF=0;SRP=3805.26;SRR=1751;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:197:100,97:100:3564:97:3426:-155.426,0,-178.921 0/1:157:73,84:73:2605:84:2987:-110.495,0,-102.671 0/1:253:139,114:139:4975:114:4064:-176.555,0,-255.005 0/1:116:46,70:46:1629:70:2483:-120.037,0,-74.6393 0/1:400:183,217:183:6551:217:7718:-360.609,0,-316.528 0/1:84:46,38:46:1648:38:1352:-46.2128,0,-70.4175 0/1:144:67,77:67:2396:77:2752:-101.958,0,-94.749 0/1:152:80,72:80:2848:72:2580:-101.203,0,-132.927 0/1:269:151,118:151:5359:118:4215:-199.586,0,-300.761 0/1:10:5,5:5:180:5:180:-7.47248,0,-8.33747 0/1:15:10,5:10:356:5:167:-4.98832,0,-16.1948 0/1:30:9,21:9:324:21:756:-34.2675,0,-11.1977 0/1:207:116,91:116:4137:91:3255:-140.481,0,-214.478 0/1:129:62,67:62:2216:67:2375:-109.429,0,-109.518 0/1:419:207,212:207:7432:212:7521:-343.413,0,-367.807 0/1:305:185,120:185:6640:120:4254:-192.583,0,-379.23 0/1:79:32,47:32:1144:47:1661:-87.5194,0,-57.3539 0/1:90:49,41:49:1756:41:1435:-56.5587,0,-82.5084 0/1:119:65,53:65:2328:53:1884:-81.7515,0,-120.267 0/1:187:78,109:78:2796:109:3842:-167.069,0,-116.975 0/1:107:48,59:48:1719:59:2099:-78.6506,0,-67.8236 chr06 610789 . AGA GAT,GAA 31921.1 PASS AB=0.500864,0.496258;ABP=3.0328,3.43284;AC=21,21;AF=0.5,0.5;AN=42;AO=1740,1724;CIGAR=3X,2X1M;DP=3474;DPB=3473;DPRA=0,0;EPP=3781.37,3746.63;EPPR=0;GTI=0;LEN=3,2;MEANALT=2.47619,2.47619;MQM=26.5471,24.4147;MQMR=0;NS=21;NUMALT=2;ODDS=21.3175;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61745,42043;QR=0;RO=0;RPL=1740,1724;RPP=3781.37,3746.63;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3781.37,3746.63;SAR=1740,1724;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:195:0,97,98:0:0:97,98:3436,2449:-365.202,-164.763,-135.563,-200.681,0,-171.18 1/2:159:0,75,84:0:0:75,84:2672,1764:-242.028,-111.026,-88.4491,-131.207,0,-105.92 1/2:254:0,138,114:0:0:138,114:4896,2849:-475.738,-191.27,-149.727,-284.436,0,-250.119 1/2:116:0,45,71:0:0:45,71:1590,1766:-211.476,-118.834,-105.288,-92.8871,0,-71.5139 1/2:399:0,181,215:0:0:181,215:6446,5365:-734.879,-360.11,-305.624,-374.764,0,-310.043 1/2:84:0,46,38:0:0:46,38:1634,798:-131.199,-50.3248,-36.4774,-81.0761,0,-69.637 1/2:146:0,67,78:0:0:67,78:2381,1638:-219.868,-102.836,-82.6673,-116.965,0,-93.4849 1/2:152:0,78,73:0:0:78,73:2787,1671:-257.782,-108.639,-85.1585,-149.094,0,-127.119 1/2:275:0,156,118:0:0:156,118:5525,3179:-565.139,-218.665,-171.705,-346.491,0,-310.969 1/2:11:0,6,5:0:0:6,5:216,115:-19.2357,-7.69512,-5.88894,-11.7618,0,-10.2566 1/2:16:0,11,5:0:0:11,5:386,105:-25.9611,-6.77806,-3.46673,-19.3777,0,-17.8726 1/2:30:0,9,21:0:0:9,21:320,483:-48.9332,-31.6795,-28.9702,-17.4861,0,-11.1645 1/2:205:0,114,90:0:0:114,90:4027,2261:-387.279,-152.113,-117.795,-235.186,0,-208.093 1/2:129:0,61,68:0:0:61,68:2139,1694:-239.617,-113.909,-95.546,-125.951,0,-105.481 1/2:419:0,205,213:0:0:205,213:7305,5311:-779.75,-356.342,-294.631,-423.316,0,-359.196 1/2:303:0,183,120:0:0:183,120:6491,3224:-629.04,-222.032,-166.943,-407.264,0,-371.14 1/2:78:0,31,47:0:0:31,47:1116,1261:-156.244,-87.0055,-77.6736,-69.5026,0,-55.3541 1/2:89:0,48,41:0:0:48,41:1718,936:-152.868,-61.1422,-46.6928,-91.946,0,-79.6038 1/2:116:0,62,54:0:0:62,54:2165,1343:-217.715,-90.3498,-71.6859,-127.604,0,-111.349 1/2:189:0,79,110:0:0:79,110:2805,2526:-315.21,-164.98,-141.198,-150.457,0,-117.343 1/2:109:0,48,61:0:0:48,61:1690,1305:-166.518,-82.8366,-68.3872,-83.8892,0,-65.5264 chr06 637356 . C T 4431.62 PASS AB=0.490876;ABP=3.40655;AC=11;AF=0.261905;AN=42;AO=272;CIGAR=1X;DP=1190;DPB=1190;DPRA=0.929568;EPP=584.997;EPPR=1979.09;GTI=1;LEN=1;MEANALT=1;MQM=56.864;MQMR=59.8736;NS=21;NUMALT=1;ODDS=4.08503;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9688;QR=32719;RO=918;RPL=271;RPP=584.997;RPPR=1979.09;RPR=1;RUN=1;SAF=0;SAP=593.651;SAR=272;SRF=0;SRP=1996.42;SRR=918;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:40,0:40:1417:0:0:0,-12.0412,-127.825 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.1685 0/0:77:75,2:75:2646:2:72:0,-16.3451,-231.551 0/1:51:23,28:23:813:28:974:-72.5701,0,-58.1366 0/0:129:129,0:129:4624:0:0:0,-38.8329,-416.278 0/1:44:26,18:26:932:18:648:-45.2866,0,-70.9535 0/1:82:41,41:41:1461:41:1472:-107.933,0,-107.095 0/1:49:20,29:20:720:29:1044:-79.479,0,-50.3783 0/1:117:55,62:55:1957:62:2205:-163.305,0,-141.127 0/1:14:12,2:12:432:2:72:-2.6223,0,-35.0068 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:25:13,12:13:468:12:432:-31.6945,0,-34.9339 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/1:71:41,30:41:1468:30:1053:-73.4546,0,-111.043 0/0:130:130,0:130:4614:0:0:0,-39.1339,-415.377 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5185 0/1:21:6,15:6:201:15:536:-42.2058,0,-12.0954 0/1:46:22,24:22:774:24:864:-64.1871,0,-56.1328 0/1:28:20,8:20:720:8:280:-17.0812,0,-56.6999 0/0:91:90,1:90:3188:1:36:0,-23.7955,-283.545 0/0:55:55,0:55:1976:0:0:0,-16.5566,-178.112 chr06 637655 . ATG TTA,TTC 35256.8 PASS AB=0.488421,0.506316;ABP=4.11661,3.33945;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1268,486;CIGAR=1X1M1X,1X1M1X;DP=1760;DPB=1760.67;DPRA=0,1.16599;EPP=2747.76,1058.35;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.85714,2.30769;MQM=51.4203,37.9218;MQMR=0;NS=21;NUMALT=2;ODDS=2.25578;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=44574,16824;QR=0;RO=0;RPL=0,0;RPP=2756.44,1058.35;RPPR=0;RPR=1268,486;RUN=1,1;SAF=1,0;SAP=2747.76,1058.35;SAR=1267,486;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,96,3:0:0:96,3:3363,104:-301.548,-28.8989,0,-293.517,-20.5359,-292.614 1/1:21:0,21,0:0:0:21,0:750,0:-67.1737,-6.32163,0,-67.1737,-6.32163,-67.1737 1/1:124:0,124,0:0:0:124,0:4322,0:-387.189,-37.3277,0,-387.189,-37.3277,-387.189 1/2:111:0,40,71:0:0:40,71:1406,2464:-303.949,-190.181,-178.14,-114.11,0,-92.737 1/1:100:0,99,0:0:0:99,0:3487,0:-311.698,-29.802,0,-311.698,-29.802,-311.698 1/2:47:0,21,25:0:0:21,25:718,863:-120.977,-63.6792,-57.3576,-57.3209,0,-49.7951 1/2:78:0,44,33:0:0:44,33:1576,1155:-208.609,-82.3099,-69.0646,-126.346,0,-116.412 1/2:174:0,89,83:0:0:89,83:3142,2903:-472.004,-217.8,-191.008,-254.184,0,-229.198 1/2:194:0,93,101:0:0:93,101:3274,3477:-538.643,-272.781,-244.786,-266.204,0,-235.8 1/2:9:0,8,1:0:0:8,1:288,36:-26.4809,-3.04512,-0.636876,-23.7731,0,-23.4721 1/1:5:0,5,0:0:0:5,0:175,0:-16.0156,-1.50515,0,-16.0156,-1.50515,-16.0156 1/2:33:0,22,11:0:0:22,11:743,389:-88.7133,-28.6654,-22.0428,-60.0192,0,-56.7079 1/1:155:0,155,0:0:0:155,0:5429,0:-487.041,-46.6597,0,-487.041,-46.6597,-487.041 1/2:103:0,40,63:0:0:40,63:1426,2171:-282.212,-166.649,-154.608,-115.906,0,-96.9414 1/1:128:0,128,0:0:0:128,0:4506,0:-403.759,-38.5318,0,-403.759,-38.5318,-403.759 1/1:24:0,24,0:0:0:24,0:852,0:-76.7159,-7.22472,0,-76.7159,-7.22472,-76.7159 1/2:34:0,17,16:0:0:17,16:605,562:-93.238,-44.2069,-39.0894,-49.0222,0,-44.2057 1/2:91:0,42,49:0:0:42,49:1480,1715:-249.347,-130.043,-117.4,-119.642,0,-104.892 1/2:76:0,48,28:0:0:48,28:1682,913:-204.461,-68.0993,-53.6499,-136.681,0,-128.252 1/1:103:0,101,2:0:0:101,2:3573,72:-319.113,-30.404,0,-313.692,-24.6484,-313.09 1/1:51:0,51,0:0:0:51,0:1777,0:-159.143,-15.3525,0,-159.143,-15.3525,-159.143 chr06 637678 . TAC TAT,GAT 37196.3 PASS AB=0.486884,0.512067;ABP=4.4344,4.21566;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1261,493;CIGAR=2M1X,1X1M1X;DP=1758;DPB=1758;DPRA=0,1.17575;EPP=2604.03,980.133;EPPR=9.52472;GTI=0;LEN=1,3;MEANALT=1.66667,2.07692;MQM=51.4132,37.9574;MQMR=60;NS=21;NUMALT=2;ODDS=3.17634;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45202,17220;QR=100;RO=3;RPL=16,11;RPP=2604.03,980.133;RPPR=9.52472;RPR=1245,482;RUN=1,1;SAF=2,0;SAP=2723.89,1073.55;SAR=1259,493;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,96,3:0:0:96,3:3417,106:-306.323,-28.8989,0,-298.163,-20.4025,-297.26 1/1:21:0,21,0:0:0:21,0:756,0:-67.6956,-6.32163,0,-67.6956,-6.32163,-67.6956 1/1:124:3,121,0:3:100:121,0:4344,0:-379.476,-27.9979,0,-380.379,-36.4246,-388.472 1/2:113:0,40,73:0:0:40,73:1426,2572:-313.996,-198.411,-186.37,-115.932,0,-93.9573 1/1:99:0,99,0:0:0:99,0:3555,0:-317.756,-29.802,0,-317.756,-29.802,-317.756 1/2:46:0,20,26:0:0:20,26:720,916:-124.979,-67.4591,-61.4385,-57.859,0,-50.0323 1/2:79:0,44,35:0:0:44,35:1584,1200:-213.334,-86.3234,-73.078,-127.338,0,-116.802 1/2:173:0,90,82:0:0:90,82:3232,2867:-477.109,-215.388,-188.295,-261.786,0,-237.101 1/2:194:0,91,103:0:0:91,103:3268,3603:-548.34,-282.403,-255.009,-266.286,0,-235.28 1/2:9:0,8,1:0:0:8,1:288,36:-26.4809,-3.04512,-0.636876,-23.7731,0,-23.4721 1/1:5:0,5,0:0:0:5,0:176,0:-16.106,-1.50515,0,-16.106,-1.50515,-16.106 1/2:34:0,23,11:0:0:23,11:828,390:-96.3311,-29.0024,-22.0787,-67.6633,0,-64.352 1/1:152:0,152,0:0:0:152,0:5448,0:-488.297,-45.7566,0,-488.297,-45.7566,-488.297 1/2:104:0,40,64:0:0:40,64:1436,2221:-287.122,-170.67,-158.629,-116.798,0,-97.5325 1/1:127:0,127,0:0:0:127,0:4548,0:-406.731,-38.2308,0,-406.731,-38.2308,-406.731 1/1:24:0,24,0:0:0:24,0:856,0:-77.0747,-7.22472,0,-77.0747,-7.22472,-77.0747 1/2:34:0,18,16:0:0:18,16:637,561:-96.1912,-44.4547,-39.0362,-52.0824,0,-47.2659 1/2:91:0,42,49:0:0:42,49:1508,1723:-251.693,-130.306,-117.663,-121.73,0,-106.979 1/2:76:0,48,28:0:0:48,28:1711,968:-210.79,-71.9565,-57.5071,-139.165,0,-130.736 1/1:102:0,100,2:0:0:100,2:3592,57:-320.11,-30.103,0,-315.822,-25.5414,-315.22 1/1:52:0,52,0:0:0:52,0:1872,0:-167.561,-15.6536,0,-167.561,-15.6536,-167.561 chr06 659092 . G A 2015.87 PASS AB=0.410112;ABP=27.9944;AC=11;AF=0.261905;AN=42;AO=151;CIGAR=1X;DP=885;DPB=885;DPRA=0.686327;EPP=330.903;EPPR=1594.7;GTI=0;LEN=1;MEANALT=1;MQM=59.7815;MQMR=59.8499;NS=21;NUMALT=1;ODDS=13.4626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5348;QR=26218;RO=733;RPL=0;RPP=330.903;RPPR=1594.7;RPR=151;RUN=1;SAF=151;SAP=330.903;SAR=0;SRF=733;SRP=1594.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:83:80,3:80:2880:3:108:0,-14.9103,-249.325 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.245 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/1:31:23,8:23:813:8:288:-16.9308,0,-64.1572 0/0:119:118,0:118:4240:0:0:0,-35.5215,-381.413 0/1:20:11,9:11:392:9:324:-23.4853,0,-29.5947 0/1:58:32,26:32:1114:26:936:-67.0988,0,-83.0977 0/1:33:19,14:19:680:14:474:-33.0457,0,-51.5952 0/1:34:24,10:24:830:10:348:-21.4201,0,-64.7773 0/1:13:4,9:4:144:9:309:-24.2273,0,-9.40023 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:16:9,7:9:316:7:252:-18.2125,0,-23.9624 0/0:33:33,0:33:1169:0:0:0,-9.93399,-105.515 0/1:42:22,20:22:788:20:716:-52.1198,0,-58.6015 0/0:73:73,0:73:2628:0:0:0,-21.9752,-236.766 0/0:43:43,0:43:1548:0:0:0,-12.9443,-139.613 0/1:43:29,14:29:1036:14:500:-32.391,0,-80.2915 0/1:43:24,19:24:864:19:665:-47.2,0,-65.1383 0/1:23:13,10:13:460:10:360:-25.8206,0,-34.8117 0/0:42:41,1:41:1472:1:32:0,-9.44395,-129.572 0/0:31:30,1:30:1080:1:36:0,-5.73625,-93.9172 chr06 659121 . AGTT GGTG 1911.85 PASS AB=0.403361;ABP=31.9693;AC=11;AF=0.261905;AN=42;AO=148;CIGAR=1X2M1X;DP=897;DPB=897;DPRA=0.721177;EPP=324.388;EPPR=1609.91;GTI=0;LEN=4;MEANALT=1.30769;MQM=59.8446;MQMR=59.8454;NS=21;NUMALT=1;ODDS=10.7477;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5191;QR=26203;RO=744;RPL=148;RPP=324.388;RPPR=1575.45;RPR=0;RUN=1;SAF=148;SAP=324.388;SAR=0;SRF=740;SRP=1584.03;SRR=4;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:86:82,3:82:2879:3:108:0,-15.7598,-249.304 0/0:73:73,0:73:2573:0:0:0,-21.9752,-231.687 0/0:31:31,0:31:1063:0:0:0,-9.33193,-95.9741 0/1:32:24,8:24:843:8:280:-15.9016,0,-66.5547 0/0:121:121,0:121:4267:0:0:0,-36.4246,-384.211 0/1:20:11,9:11:384:9:324:-23.4853,0,-28.8706 0/1:58:31,26:31:1092:26:915:-65.2899,0,-81.2108 0/1:33:19,14:19:656:14:489:-34.4067,0,-49.427 0/1:33:23,10:23:817:10:351:-21.993,0,-63.918 0/1:13:4,9:4:143:9:322:-25.4109,0,-9.30805 0/0:5:5,0:5:178:0:0:0,-1.50515,-16.3687 0/1:16:9,7:9:315:7:242:-17.2999,0,-23.8715 0/0:34:34,0:34:1214:0:0:0,-10.235,-109.567 0/1:42:22,18:22:781:18:633:-44.9234,0,-58.24 0/0:73:73,0:73:2572:0:0:0,-21.9752,-231.73 0/0:43:43,0:43:1519:0:0:0,-12.9443,-137.002 0/1:44:30,14:30:1062:14:487:-30.9123,0,-82.4852 0/1:43:24,19:24:859:19:651:-45.9344,0,-64.6875 0/1:23:13,10:13:454:10:353:-25.1849,0,-34.2679 0/0:41:40,1:40:1403:1:36:0,-8.74395,-122.964 0/0:33:32,0:32:1129:0:0:0,-9.63296,-101.555 chr06 659135 . CAAG CT 15504.9 PASS AB=0.58;ABP=22.4667;AC=31;AF=0.738095;AN=42;AO=723;CIGAR=1M2D1X;DP=875;DPB=513.5;DPRA=0;EPP=1572.98;EPPR=330.903;GTI=0;LEN=2;MEANALT=1.04762;MQM=59.8423;MQMR=59.8079;NS=21;NUMALT=1;ODDS=15.7677;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25862;QR=5381;RO=151;RPL=720;RPP=1547.04;RPPR=330.903;RPR=3;RUN=1;SAF=720;SAP=1547.04;SAR=3;SRF=151;SRP=330.903;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:3,79:3:104:79:2831:-245.325,-14.9815,0 1/1:73:0,73:0:0:73:2606:-234.671,-21.9752,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:28:8,20:8:288:20:708:-55.6162,0,-17.8339 1/1:119:0,119:0:0:119:4254:-383.033,-35.8226,0 0/1:20:9,11:9:324:11:392:-29.5947,0,-23.4853 0/1:57:26,31:26:935:31:1093:-81.4858,0,-67.3098 0/1:31:14,17:14:491:17:612:-46.0815,0,-35.1896 0/1:34:10,23:10:355:23:820:-63.9341,0,-22.0971 0/1:13:9,4:9:322:4:144:-9.40023,0,-25.4109 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:15:7,8:7:250:8:288:-21.752,0,-18.3313 1/1:34:0,34:0:0:34:1218:-109.927,-10.235,0 0/1:42:20,22:20:713:22:788:-58.6015,0,-51.8489 1/1:70:0,70:0:0:70:2516:-226.692,-21.0721,0 1/1:40:0,40:0:0:40:1440:-129.898,-12.0412,0 0/1:44:14,30:14:501:30:1072:-83.2267,0,-32.1806 0/1:43:19,24:19:677:24:860:-64.7775,0,-48.2854 0/1:23:10,13:10:349:13:468:-35.536,0,-24.8211 1/1:40:1,39:1:36:39:1400:-122.699,-8.44293,0 1/1:31:1,30:1:36:30:1064:-92.4706,-5.73366,0 chr06 659343 . T C 19507.3 PASS AB=0.537109;ABP=9.13453;AC=31;AF=0.738095;AN=42;AO=737;CIGAR=1X;DP=979;DPB=979;DPRA=0;EPP=3.67323;EPPR=18.1565;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9837;MQMR=60;NS=21;NUMALT=1;ODDS=7.55321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26093;QR=8629;RO=241;RPL=3;RPP=1577.43;RPPR=500.602;RPR=734;RUN=1;SAF=379;SAP=4.30965;SAR=358;SRF=144;SRP=22.914;SRR=97;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:1,39:1:36:39:1367:-119.726,-8.44293,0 1/1:41:0,41:0:0:41:1440:-129.893,-12.3422,0 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 0/1:30:17,13:17:608:13:468:-33.4287,0,-46.0211 1/1:82:1,81:1:36:81:2853:-253.411,-21.0862,0 0/1:37:13,24:13:453:24:843:-65.0499,0,-29.9615 0/1:43:28,15:28:1004:15:531:-35.1776,0,-77.7316 0/1:45:25,20:25:900:20:708:-50.4987,0,-67.7747 0/1:72:34,38:34:1220:38:1368:-101.747,0,-88.4326 0/1:5:2,3:2:72:3:104:-8.19766,0,-5.33157 1/1:4:0,4:0:0:4:136:-12.5755,-1.20412,0 0/1:21:11,10:11:392:10:360:-26.4227,0,-29.2984 1/1:44:0,44:0:0:44:1567:-141.321,-13.2453,0 0/1:35:12,23:12:432:23:828:-64.3081,0,-28.6851 1/1:63:0,62:0:0:62:2185:-196.594,-18.6639,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:17:13,4:13:468:4:144:-8.19611,0,-37.3421 0/1:115:60,55:60:2148:55:1946:-140.797,0,-158.969 0/1:92:22,70:22:788:70:2474:-195.219,0,-43.55 1/1:48:1,47:1:36:47:1667:-146.718,-10.8512,0 1/1:103:1,102:1:36:102:3600:-320.607,-27.4078,0 chr06 684077 . C T 11545.5 PASS AB=0.474074;ABP=6.16296;AC=29;AF=0.690476;AN=42;AO=584;CIGAR=1X;DP=869;DPB=869;DPRA=0;EPP=1271.15;EPPR=621.88;GTI=0;LEN=1;MEANALT=1;MQM=59.9966;MQMR=60;NS=21;NUMALT=1;ODDS=5.23308;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20686;QR=10155;RO=285;RPL=0;RPP=1271.15;RPPR=621.88;RPR=584;RUN=1;SAF=0;SAP=1271.15;SAR=584;SRF=0;SRP=621.88;SRR=285;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1519:-137.002,-12.9443,0 1/1:27:0,27:0:0:27:959:-86.6254,-8.12781,0 1/1:58:0,58:0:0:58:2052:-184.952,-17.4597,0 0/1:45:22,23:22:788:23:820:-60.5762,0,-57.6984 1/1:68:1,67:1:36:67:2376:-210.498,-16.8718,0 0/1:35:23,12:23:828:12:432:-28.6851,0,-64.3081 0/1:68:39,29:39:1370:29:1028:-72.363,0,-103.127 0/1:49:29,20:29:1040:20:720:-50.3783,0,-79.1639 0/1:86:37,49:37:1313:49:1716:-128.833,0,-92.5811 0/1:8:2,6:2:68:6:216:-17.3823,0,-4.04947 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:19:8,11:8:288:11:392:-29.9005,0,-20.5478 1/1:66:0,66:0:0:66:2348:-211.577,-19.868,0 0/1:80:45,35:45:1604:35:1252:-88.9027,0,-120.568 0/1:53:26,27:26:932:27:956:-70.4011,0,-68.2443 0/1:23:16,7:16:576:7:252:-16.1053,0,-45.2513 0/1:24:8,16:8:280:16:568:-44.2271,0,-18.3146 0/1:27:17,10:17:604:10:345:-23.253,0,-46.5628 0/1:23:12,11:12:428:11:392:-28.6964,0,-31.9351 1/1:49:0,49:0:0:49:1699:-153.192,-14.7505,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 chr06 690154 . G A 6596.61 PASS AB=0.366693;ABP=200.431;AC=13;AF=0.309524;AN=42;AO=476;CIGAR=1X;DP=2189;DPB=2189;DPRA=1.29307;EPP=1036.63;EPPR=3705.39;GTI=1;LEN=1;MEANALT=1;MQM=59.8655;MQMR=59.9755;NS=21;NUMALT=1;ODDS=1.23253;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16981;QR=61288;RO=1713;RPL=0;RPP=1036.63;RPPR=3705.39;RPR=476;RUN=1;SAF=0;SAP=1036.63;SAR=476;SRF=0;SRP=3722.74;SRR=1713;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:121,3:121:4332:3:108:0,-27.2525,-379.98 0/0:177:177,0:177:6298:0:0:0,-53.2823,-566.913 0/0:140:139,1:139:4979:1:36:0,-38.5459,-444.659 0/1:65:45,20:45:1608:20:707:-44.3876,0,-125.443 0/0:218:217,1:217:7784:1:36:0,-62.0263,-696.99 0/1:67:33,34:33:1176:34:1206:-88.657,0,-85.967 0/1:154:80,74:80:2868:74:2638:-191.307,0,-211.998 0/1:83:50,33:50:1769:33:1173:-80.8917,0,-134.494 0/1:115:63,52:63:2251:52:1856:-132.676,0,-168.231 0/1:39:23,16:23:828:16:576:-40.4348,0,-63.1039 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5505 0/1:36:21,15:21:747:15:540:-38.0995,0,-56.7172 0/0:123:123,0:123:4386:0:0:0,-37.0267,-394.911 0/1:158:92,66:92:3273:66:2338:-163.114,0,-247.227 0/1:236:187,49:187:6716:49:1764:-87.9723,0,-533.469 0/1:139:99,40:99:3564:40:1431:-87.2429,0,-279.12 0/1:100:59,41:59:2116:41:1468:-102.313,0,-160.606 0/1:45:25,20:25:900:20:716:-51.2214,0,-67.7747 0/1:42:33,9:33:1165:9:320:-16.4991,0,-92.5117 0/0:91:89,2:89:3196:2:68:0,-20.936,-281.405 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 chr06 690190 . A G 23953.4 PASS AB=0.546935;ABP=22.9862;AC=29;AF=0.690476;AN=42;AO=1184;CIGAR=1X;DP=1665;DPB=1665;DPRA=0;EPP=2574.03;EPPR=1047.49;GTI=0;LEN=1;MEANALT=1;MQM=59.9755;MQMR=59.8669;NS=21;NUMALT=1;ODDS=11.2949;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42388;QR=17209;RO=481;RPL=1184;RPP=2574.03;RPPR=1047.49;RPR=0;RUN=1;SAF=0;SAP=2574.03;SAR=1184;SRF=0;SRP=1047.49;SRR=481;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:4,90:4:140:90:3200:-275.28,-15.3522,0 1/1:138:0,138:0:0:138:4940:-444.75,-41.5421,0 1/1:95:1,94:1:36:94:3368:-299.737,-24.9996,0 0/1:46:20,26:20:720:26:936:-70.7121,0,-51.2814 1/1:138:1,137:1:36:137:4900:-437.554,-37.9439,0 0/1:50:35,15:35:1252:15:540:-33.8846,0,-97.8629 0/1:119:73,46:73:2620:46:1640:-112.066,0,-200.225 0/1:63:33,30:33:1184:30:1072:-77.7991,0,-87.9034 0/1:102:51,51:51:1813:51:1828:-134.095,0,-132.702 0/1:28:16,12:16:576:12:432:-30.7924,0,-43.7461 1/1:4:0,4:0:0:4:144:-13.312,-1.20412,0 0/1:30:15,15:15:536:15:536:-39.5439,0,-39.5439 1/1:71:0,71:0:0:71:2536:-228.491,-21.3731,0 0/1:127:66,61:66:2368:61:2188:-158.955,0,-175.147 0/1:182:51,131:51:1813:131:4704:-368.731,0,-108.634 0/1:126:41,85:41:1459:85:3060:-237.695,0,-93.6693 0/1:84:42,42:42:1504:42:1504:-110.368,0,-110.368 0/1:47:22,25:22:792:25:896:-66.8119,0,-57.4573 0/1:40:8,32:8:288:32:1136:-90.5077,0,-14.2262 1/1:51:2,49:2:72:49:1752:-151.127,-8.51581,0 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 chr06 705435 . G A 55145.4 PASS AB=0.582822;ABP=90.4154;AC=29;AF=0.690476;AN=42;AO=2099;CIGAR=1X;DP=2719;DPB=2719;DPRA=0;EPP=4560.93;EPPR=1349.32;GTI=2;LEN=1;MEANALT=1;MQM=56.112;MQMR=59.6032;NS=21;NUMALT=1;ODDS=4.8204;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74070;QR=21735;RO=620;RPL=1159;RPP=52.6273;RPPR=13.9937;RPR=940;RUN=1;SAF=1159;SAP=52.6273;SAR=940;SRF=338;SRP=13.9937;SRR=282;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:1,146:1:36:146:5156:-459.712,-40.6531,0 1/1:146:0,146:0:0:146:5131:-460.546,-43.9504,0 1/1:114:0,114:0:0:114:3996:-359.236,-34.3174,0 0/1:140:73,67:73:2557:67:2384:-172.23,0,-188.192 1/1:295:4,291:4:144:291:10279:-910.312,-75.4966,0 0/1:74:35,39:35:1248:39:1378:-101.688,0,-90.1275 0/1:139:46,93:46:1615:93:3312:-255.647,0,-103.792 0/1:102:60,42:60:2113:42:1483:-102.554,0,-159.731 0/1:221:103,118:103:3617:118:4137:-305.694,0,-259.02 0/1:5:1,4:1:36:4:144:-11.7976,0,-2.09312 1/1:4:0,4:0:0:4:140:-12.9085,-1.20412,0 0/1:33:25,8:25:884:8:288:-16.3011,0,-69.9444 1/1:200:0,200:0:0:200:7089:-637.323,-60.206,0 0/1:188:70,118:70:2453:118:4170:-318.353,0,-164.418 0/1:162:63,99:63:2217:99:3509:-266.594,0,-151.021 0/1:60:8,52:8:284:52:1818:-145.784,0,-7.83817 0/1:73:15,58:15:519:58:2042:-161.961,0,-24.8432 0/1:129:67,62:67:2303:62:2178:-156.571,0,-168.698 0/1:141:46,95:46:1601:95:3356:-259.465,0,-101.932 1/1:219:2,217:2:72:217:7665:-681.95,-59.0888,0 1/1:127:1,126:1:36:126:4415:-391.721,-34.652,0 chr06 773651 . T A 54835.6 PASS AB=0.574713;ABP=74.7188;AC=29;AF=0.690476;AN=42;AO=2074;CIGAR=1X;DP=2713;DPB=2713;DPRA=0;EPP=4480.62;EPPR=607.187;GTI=1;LEN=1;MEANALT=1.2381;MQM=59.9556;MQMR=59.9385;NS=21;NUMALT=1;ODDS=21.8947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73591;QR=22424;RO=634;RPL=862;RPP=131.267;RPPR=99.6785;RPR=1212;RUN=1;SAF=859;SAP=135.703;SAR=1215;SRF=294;SRP=10.2577;SRR=340;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:135:2,133:2:68:133:4713:-417.874,-34.1813,0 1/1:146:0,146:0:0:146:5194:-467.594,-43.9504,0 1/1:136:0,135:0:0:135:4802:-432.015,-40.6391,0 0/1:112:47,65:47:1660:65:2319:-175.254,0,-115.969 1/1:312:1,310:1:36:310:11045:-990.337,-90.3819,0 0/1:134:66,68:66:2351:68:2420:-177.719,0,-171.511 0/1:181:71,110:71:2496:110:3898:-296.484,0,-170.403 0/1:80:31,49:31:1112:49:1730:-131.901,0,-76.3089 0/1:241:82,159:82:2923:159:5613:-432.747,0,-189.394 0/1:10:1,9:1:36:9:324:-26.4956,0,-0.587975 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:23:10,13:10:360:13:464:-35.1738,0,-25.8206 1/1:200:1,199:1:36:199:7035:-629.549,-56.6077,0 0/1:164:71,92:71:2525:92:3236:-242.034,0,-178.073 0/1:140:74,65:74:2606:65:2291:-164.246,0,-192.586 0/1:75:35,40:35:1244:40:1419:-105.429,0,-89.6874 0/1:55:25,30:25:870:30:1072:-80.2358,0,-62.0579 0/1:134:68,66:68:2394:66:2331:-169.71,0,-175.379 0/1:130:45,84:45:1571:84:3008:-231.759,0,-102.485 1/1:196:4,192:4:136:192:6828:-602.018,-46.4263,0 1/1:95:0,95:0:0:95:3349:-301.606,-28.5979,0 chr06 773663 . G C 25078.1 PASS AB=0.585769;ABP=53.2963;AC=30;AF=0.714286;AN=42;AO=1200;CIGAR=1X;DP=1529;DPB=1529;DPRA=0;EPP=2600.1;EPPR=697.987;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9683;MQMR=60;NS=21;NUMALT=1;ODDS=17.5339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42786;QR=11571;RO=328;RPL=1199;RPP=2600.1;RPPR=697.987;RPR=1;RUN=1;SAF=0;SAP=2608.78;SAR=1200;SRF=0;SRP=715.253;SRR=328;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,89:0:0:89:3172:-285.706,-26.7917,0 1/1:95:0,95:0:0:95:3407:-306.843,-28.5979,0 1/1:65:0,65:0:0:65:2316:-208.701,-19.567,0 0/1:66:25,41:25:875:41:1468:-112.548,0,-59.1981 1/1:200:0,200:0:0:200:7108:-639.78,-60.206,0 0/1:85:44,41:44:1523:41:1468:-106.829,0,-111.771 0/1:102:35,67:35:1240:67:2388:-184.464,0,-81.1994 0/1:21:8,13:8:288:13:468:-36.138,0,-19.9458 0/1:145:51,94:51:1815:94:3338:-256.99,0,-119.981 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:11:0,10:0:0:10:356:-32.0218,-3.0103,0 0/1:16:9,7:9:320:7:252:-18.2125,0,-24.3259 1/1:101:0,101:0:0:101:3586:-322.936,-30.404,0 0/1:90:45,45:45:1608:45:1604:-117.555,0,-117.917 0/1:54:20,34:20:720:34:1212:-93.1307,0,-48.8732 0/1:51:24,27:24:837:27:968:-72.0848,0,-60.2931 0/1:39:17,22:17:600:22:788:-59.5046,0,-42.589 0/1:57:31,26:31:1086:26:910:-65.0554,0,-80.8888 0/1:61:17,44:17:587:44:1569:-123.138,0,-34.791 1/1:117:2,115:2:72:115:4108:-363.069,-28.3838,0 1/1:55:0,55:0:0:55:1976:-178.115,-16.5567,0 chr06 773683 . 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CAT TAT 35811.1 PASS AB=0.525049;ABP=11.3868;AC=29;AF=0.690476;AN=42;AO=1698;CIGAR=1X2M;DP=2435;DPB=2435;DPRA=0;EPP=3375.8;EPPR=1428.8;GTI=0;LEN=1;MEANALT=1.33333;MQM=59.9941;MQMR=60;NS=21;NUMALT=1;ODDS=14.6446;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60572;QR=25454;RO=723;RPL=1662;RPP=3384.11;RPPR=1428.8;RPR=36;RUN=1;SAF=1;SAP=3681.49;SAR=1697;SRF=0;SRP=1572.98;SRR=723;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:0,146:0:0:146:5197:-467.511,-43.9504,0 1/1:85:0,85:0:0:85:3003:-270.498,-25.5876,0 1/1:100:1,99:1:36:99:3515:-312.962,-26.5047,0 0/1:100:43,57:43:1500:57:2040:-153.769,0,-105.186 1/1:242:0,242:0:0:242:8625:-776.246,-72.8493,0 0/1:105:48,57:48:1713:57:2040:-152.264,0,-122.847 0/1:220:101,117:101:3594:117:4166:-309.14,0,-257.683 0/1:124:53,71:53:1870:71:2536:-191.164,0,-131.251 0/1:202:102,100:102:3595:100:3572:-260.88,0,-262.948 0/1:28:16,12:16:569:12:432:-30.7924,0,-43.1137 1/1:8:0,8:0:0:8:280:-25.5393,-2.40824,0 0/1:23:12,11:12:420:11:388:-28.3198,0,-31.21 1/1:132:2,130:2:57:130:4637:-412.079,-34.3227,0 0/1:140:76,62:76:2654:62:2209:-157.171,0,-197.203 0/1:218:108,110:108:3835:110:3917:-287.099,0,-279.723 0/1:107:46,61:46:1615:61:2188:-164.975,0,-113.426 0/1:79:28,44:28:948:44:1576:-120.11,0,-63.6059 0/1:85:48,35:48:1665:35:1256:-88,0,-124.787 0/1:106:36,70:36:1275:70:2516:-194.782,0,-83.1429 1/1:129:3,126:3:108:126:4503:-395.363,-28.7577,0 1/1:55:0,55:0:0:55:1976:-178.115,-16.5567,0 chr06 944537 . T C 13022.4 PASS AB=0.611872;ABP=50.624;AC=29;AF=0.690476;AN=42;AO=519;CIGAR=1X;DP=693;DPB=693;DPRA=0;EPP=29.1224;EPPR=17.4369;GTI=0;LEN=1;MEANALT=1;MQM=59.9788;MQMR=59.9943;NS=21;NUMALT=1;ODDS=7.9218;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17983;QR=6120;RO=174;RPL=516;RPP=1104.1;RPPR=363.674;RPR=3;RUN=1;SAF=217;SAP=33.2394;SAR=302;SRF=68;SRP=21.031;SRR=106;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:26:0,26:0:0:26:898:-81.1323,-7.82678,0 1/1:22:0,22:0:0:22:752:-67.9941,-6.62266,0 1/1:13:0,13:0:0:13:456:-41.3732,-3.91339,0 0/1:26:12,14:12:411:14:478:-35.5174,0,-29.4911 1/1:61:1,60:1:27:60:2106:-187.109,-15.663,0 0/1:22:12,10:12:424:10:351:-25.304,0,-31.8738 0/1:33:11,22:11:396:22:758:-58.5994,0,-26.0488 0/1:28:16,12:16:572:12:398:-27.708,0,-43.3846 0/1:24:6,18:6:207:18:610:-47.9935,0,-11.7422 0/1:6:3,3:3:104:3:100:-7.52426,0,-7.89663 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:11:3,8:3:108:8:284:-22.592,0,-6.76384 1/1:44:1,43:1:36:43:1502:-131.872,-9.64705,0 0/1:48:22,26:22:771:26:874:-64.5177,0,-55.2609 0/1:39:19,20:19:668:20:680:-49.7752,0,-48.7055 0/1:9:4,5:4:136:5:180:-13.8428,0,-9.86627 0/1:19:7,12:7:243:12:411:-31.5983,0,-16.4879 0/1:83:37,46:37:1320:46:1601:-119.392,0,-94.1161 0/1:90:18,72:18:644:72:2526:-200.498,0,-31.1979 1/1:28:0,28:0:0:28:973:-87.8811,-8.42884,0 1/1:56:2,54:2:53:54:1865:-163.093,-11.8234,0 chr06 945685 . T G 8993.54 PASS AB=0.404193;ABP=139.902;AC=13;AF=0.309524;AN=42;AO=697;CIGAR=1X;DP=3084;DPB=3084;DPRA=1.19793;EPP=1516.53;EPPR=5166.78;GTI=1;LEN=1;MEANALT=1.06667;MQM=37.4232;MQMR=50.712;NS=21;NUMALT=1;ODDS=13.4194;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24871;QR=85489;RO=2382;RPL=697;RPP=1516.53;RPPR=5166.78;RPR=0;RUN=1;SAF=0;SAP=1516.53;SAR=697;SRF=0;SRP=5175.46;SRR=2382;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:293:293,0:293:10512:0:0:0,-88.2018,-940.448 0/0:125:125,0:125:4481:0:0:0,-37.6287,-402.64 0/0:111:109,0:109:3920:0:0:0,-32.8123,-350.293 0/1:238:135,101:135:4840:101:3616:-231.872,0,-362.377 0/0:430:428,2:428:15368:2:72:0,-122.957,-1365.56 0/1:141:102,39:102:3653:39:1400:-79.8816,0,-286.093 0/1:181:124,57:124:4460:57:2043:-122.348,0,-345.625 0/1:129:69,60:69:2480:60:2130:-140.971,0,-183.492 0/1:191:105,86:105:3757:86:3068:-195.872,0,-278.198 0/1:5:3,2:3:108:2:72:-4.85253,0,-8.537 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.7993 0/1:30:19,11:19:684:11:396:-23.9004,0,-52.439 0/0:172:171,0:171:6144:0:0:0,-51.4761,-548.849 0/1:185:99,86:99:3560:86:3052:-199.845,0,-262.104 0/1:159:86,73:86:3088:73:2595:-169.472,0,-228.237 0/1:174:93,81:93:3332:81:2895:-186.923,0,-245.165 0/1:160:102,58:102:3630:58:2064:-121.961,0,-275.842 0/1:46:25,21:25:900:21:752:-49.8391,0,-66.7893 0/1:78:59,19:59:2120:19:680:-33.9862,0,-166.429 0/0:165:164,1:164:5900:1:36:0,-46.3238,-524.325 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.125 chr06 960332 . T A 10389.7 PASS AB=0.376068;ABP=96.662;AC=29;AF=0.690476;AN=42;AO=606;CIGAR=1X;DP=1044;DPB=1044;DPRA=0;EPP=1318.92;EPPR=954.115;GTI=4;LEN=1;MEANALT=1;MQM=36.8729;MQMR=59.879;NS=21;NUMALT=1;ODDS=0.32311;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21745;QR=15625;RO=438;RPL=606;RPP=1318.92;RPPR=954.115;RPR=0;RUN=1;SAF=606;SAP=1318.92;SAR=0;SRF=438;SRP=954.115;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,56:0:0:56:2012:-168.675,-16.8577,0 1/1:20:0,20:0:0:20:720:-60.5652,-6.0206,0 1/1:19:0,19:0:0:19:680:-57.3135,-5.71957,0 0/1:63:55,8:55:1963:8:288:-5.05739,0,-157.975 1/1:135:0,135:0:0:135:4844:-405.446,-40.6391,0 0/1:73:45,28:45:1607:28:1008:-62.6823,0,-122.936 0/1:81:46,35:46:1652:35:1260:-81.3548,0,-124.583 0/1:32:19,13:19:684:13:468:-27.914,0,-52.2574 0/1:125:75,50:75:2700:50:1796:-113.472,0,-205.611 0/1:5:4,1:4:144:1:36:-1.841,0,-11.8069 1/1:4:0,4:0:0:4:144:-12.3807,-1.20412,0 0/1:32:28,4:28:980:4:144:-2.74778,0,-78.8757 1/1:47:0,47:0:0:47:1692:-141.834,-14.1484,0 0/1:54:29,25:29:1032:25:896:-58.6626,0,-76.9355 0/1:67:48,19:48:1705:19:680:-37.1444,0,-133.563 0/1:60:44,16:44:1565:16:576:-28.5229,0,-123.078 0/1:38:16,22:16:557:22:792:-55.1492,0,-39.0131 0/1:33:22,11:22:784:11:396:-23.5275,0,-60.9393 0/1:39:7,32:7:252:32:1133:-82.6248,0,-11.2888 1/1:30:0,30:0:0:30:1072:-90.4206,-9.0309,0 1/1:31:0,31:0:0:31:1108:-91.1178,-9.33193,0 chr06 967236 . C T 16635.1 PASS AB=0.515608;ABP=6.94186;AC=13;AF=0.309524;AN=42;AO=965;CIGAR=1X;DP=2898;DPB=2898;DPRA=1.32516;EPP=2063.88;EPPR=4111.8;GTI=0;LEN=1;MEANALT=1.1875;MQM=59.9503;MQMR=59.9533;NS=21;NUMALT=1;ODDS=2.08303;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34548;QR=68342;RO=1928;RPL=4;RPP=2063.88;RPPR=4111.8;RPR=961;RUN=1;SAF=965;SAP=2098.48;SAR=0;SRF=1928;SRP=4189.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:166:163,3:163:5816:3:108:0,-39.8958,-513.387 0/0:149:149,0:149:5285:0:0:0,-44.8535,-475.786 0/0:116:115,0:115:4104:0:0:0,-34.6184,-369.286 0/1:251:111,139:111:3913:139:4998:-374.345,0,-276.749 0/0:217:214,3:214:7585:3:108:0,-55.2483,-672.617 0/1:207:93,114:93:3283:114:4084:-305.431,0,-233.375 0/1:200:108,92:108:3809:92:3296:-236.462,0,-282.797 0/1:156:80,76:80:2831:76:2714:-197.542,0,-208.07 0/1:228:111,117:111:3902:117:4175:-307.298,0,-282.745 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:37:20,17:20:703:17:608:-43.9139,0,-52.4554 0/0:216:215,0:215:7620:0:0:0,-64.7214,-685.543 0/1:186:91,95:91:3221:95:3391:-249.328,0,-234.122 0/1:169:73,95:73:2569:95:3399:-255.191,0,-180.524 0/1:137:57,80:57:2002:80:2860:-216.395,0,-139.212 0/1:118:53,65:53:1864:65:2327:-174.168,0,-132.496 0/1:62:36,26:36:1284:26:936:-65.8956,0,-97.1996 0/1:103:63,40:63:2255:40:1436:-98.5316,0,-172.206 0/0:104:102,1:102:3648:1:36:0,-27.7371,-324.956 0/0:68:68,0:68:2432:0:0:0,-20.47,-219.136 chr06 967239 . G C 39603.6 PASS AB=0.48429;ABP=6.96741;AC=29;AF=0.690476;AN=42;AO=1930;CIGAR=1X;DP=2895;DPB=2895;DPRA=0;EPP=3988.08;EPPR=2006.01;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9358;MQMR=59.9688;NS=21;NUMALT=1;ODDS=2.67197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68818;QR=34403;RO=962;RPL=24;RPP=3988.08;RPPR=2006.01;RPR=1906;RUN=1;SAF=1930;SAP=4193.95;SAR=0;SRF=962;SRP=2091.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:167:4,163:4:140:163:5814:-510.415,-37.3274,0 1/1:151:0,150:0:0:150:5348:-481.085,-45.1545,0 1/1:120:1,119:1:36:119:4252:-379.261,-32.5253,0 0/1:245:134,111:134:4808:111:3930:-280.14,0,-359.12 1/1:215:3,212:3:99:212:7557:-670.932,-55.4849,0 0/1:205:114,91:114:4069:91:3222:-228.485,0,-304.684 0/1:199:92,107:92:3265:107:3816:-283.731,0,-233.976 0/1:156:76,80:76:2711:80:2864:-211.037,0,-197.273 0/1:229:114,114:114:4084:114:4057:-296.323,0,-298.751 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:36:17,19:17:612:19:684:-51.0532,0,-44.5764 1/1:217:0,217:0:0:217:7760:-698.429,-65.3235,0 0/1:182:92,90:92:3308:90:3211:-234.423,0,-243.15 0/1:170:95,75:95:3412:75:2684:-190.627,0,-256.118 0/1:139:81,58:81:2892:58:2062:-144.007,0,-218.674 0/1:119:67,52:67:2400:52:1864:-132.198,0,-180.434 0/1:61:27,34:27:964:34:1201:-90.0317,0,-68.714 0/1:101:40,61:40:1423:61:2187:-166.691,0,-97.9627 1/1:106:1,104:1:36:104:3709:-330.402,-28.3697,0 1/1:69:2,67:2:72:67:2380:-207.619,-13.9343,0 chr06 999488 . TCTGT CCTCG,CCTGG 60833 PASS AB=0.524172,0.468767;ABP=12.3532,18.6093;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2074,868;CIGAR=1X2M2X,1X3M1X;DP=2965;DPB=2964.6;DPRA=0,0.992019;EPP=4506.64,1887.85;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.66667,2.8;MQM=59.3149,47.1843;MQMR=0;NS=21;NUMALT=2;ODDS=23.2575;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=73321,30633;QR=0;RO=0;RPL=0,0;RPP=4506.64,1887.85;RPPR=0;RPR=2074,868;RUN=1,1;SAF=2074,868;SAP=4506.64,1887.85;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:145:0,143,0:0:0:143,0:5050,0:-454.208,-43.0473,0,-454.208,-43.0473,-454.208 1/1:169:0,167,1:0:0:167,1:5910,31:-531.572,-50.272,0,-529.09,-47.7482,-528.789 1/1:149:0,148,0:0:0:148,0:5219,0:-469.405,-44.5524,0,-469.405,-44.5524,-469.405 1/2:167:0,91,75:0:0:91,75:3232,2643:-475.119,-212.26,-184.867,-262.938,0,-240.361 1/1:312:0,308,0:0:0:308,0:10846,0:-975.532,-92.7172,0,-975.532,-92.7172,-975.532 1/2:131:0,63,68:0:0:63,68:2236,2415:-376.896,-194.842,-175.877,-182.407,0,-161.937 1/2:250:0,109,139:0:0:109,139:3842,4915:-709.116,-396.515,-363.703,-312.636,0,-270.793 1/2:165:0,78,83:0:0:78,83:2799,2912:-462.894,-234.577,-211.097,-228.315,0,-203.33 1/2:314:0,172,141:0:0:172,141:6079,4965:-894.593,-399.607,-347.829,-495.046,0,-452.601 1/2:19:0,9,10:0:0:9,10:320,358:-55.4133,-29.3357,-26.6264,-26.4331,0,-23.4228 1/1:17:0,17,0:0:0:17,0:605,0:-54.781,-5.11751,0,-54.781,-5.11751,-54.781 1/2:42:0,26,15:0:0:26,15:899,532:-115.869,-42.8226,-34.9958,-73.0686,0,-68.5531 1/1:167:0,166,0:0:0:166,0:5858,0:-527.017,-49.971,0,-527.017,-49.971,-527.017 1/2:151:0,79,69:0:0:79,69:2776,2421:-420.772,-194.869,-171.088,-225.907,0,-205.136 1/2:164:0,88,76:0:0:88,76:3123,2676:-469.632,-215.469,-188.978,-254.514,0,-231.636 1/2:109:0,50,58:0:0:50,58:1768,2064:-309.502,-165.66,-150.609,-143.834,0,-126.375 1/2:115:0,63,52:0:0:63,52:2214,1826:-326.712,-146.584,-127.62,-180.476,0,-164.823 1/2:124:0,70,54:0:0:70,54:2494,1918:-358.724,-155.52,-134.448,-203.558,0,-187.303 1/2:90:0,67,23:0:0:67,23:2380,817:-259.674,-66.0049,-45.8359,-194.02,0,-187.097 1/1:103:0,99,4:0:0:99,4:3517,140:-316.327,-29.802,0,-305.005,-18.1317,-303.801 1/1:62:0,61,0:0:0:61,0:2154,0:-193.79,-18.3628,0,-193.79,-18.3628,-193.79 chr06 999507 . C T 13551.1 PASS AB=0.465928;ABP=21.211;AC=13;AF=0.309524;AN=42;AO=846;CIGAR=1X;DP=2916;DPB=2916;DPRA=0.98363;EPP=1840.08;EPPR=4495.79;GTI=0;LEN=1;MEANALT=1.06667;MQM=47.1466;MQMR=59.3209;NS=21;NUMALT=1;ODDS=24.7125;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30266;QR=73979;RO=2069;RPL=846;RPP=1840.08;RPPR=4495.79;RPR=0;RUN=1;SAF=846;SAP=1840.08;SAR=0;SRF=2069;SRP=4495.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:145:145,0:145:5191:0:0:0,-43.6493,-466.196 0/0:165:163,1:163:5839:1:36:0,-46.148,-521.536 0/0:147:147,0:147:5267:0:0:0,-44.2514,-474.026 0/1:163:90,73:90:3232:73:2579:-180.174,0,-241.465 0/0:306:306,0:306:10890:0:0:0,-92.1152,-979.638 0/1:131:63,68:63:2251:68:2444:-178.264,0,-163.222 0/1:243:109,134:109:3889:134:4812:-356.055,0,-276.942 0/1:163:82,81:82:2952:81:2908:-210.214,0,-216.845 0/1:307:167,140:167:5969:140:4999:-352.843,0,-444.776 0/1:19:9,10:9:320:10:360:-26.7975,0,-23.4228 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:42:26,16:26:928:16:576:-38.6437,0,-71.1812 0/0:167:167,0:167:5961:0:0:0,-50.272,-536.214 0/1:147:80,67:80:2872:67:2361:-166.253,0,-214.388 0/1:162:88,74:88:3160:74:2660:-187.824,0,-235.56 0/1:106:50,56:50:1792:56:2012:-146.857,0,-129.369 0/1:110:63,47:63:2264:47:1688:-116.577,0,-170.773 0/1:123:70,53:70:2489:53:1904:-133.439,0,-187.165 0/1:89:67,22:67:2390:22:783:-43.0547,0,-188.295 0/0:103:99,4:99:3551:4:144:0,-17.7794,-306.471 0/0:61:61,0:61:2164:0:0:0,-18.3628,-194.974 chr06 999512 . 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T C 12241.6 PASS AB=0.456574;ABP=30.1681;AC=12;AF=0.285714;AN=42;AO=764;CIGAR=1X;DP=3021;DPB=3021;DPRA=1.35137;EPP=1662.02;EPPR=4904.02;GTI=0;LEN=1;MEANALT=1;MQM=59.7186;MQMR=59.9482;NS=21;NUMALT=1;ODDS=20.4246;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27226;QR=80929;RO=2257;RPL=764;RPP=1662.02;RPPR=4904.02;RPR=0;RUN=1;SAF=0;SAP=1662.02;SAR=764;SRF=0;SRP=4904.02;SRR=2257;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:236:234,2:234:8384:2:68:0,-64.5854,-747.969 0/0:136:136,0:136:4880:0:0:0,-40.9401,-439.351 0/0:126:125,1:125:4484:1:36:0,-34.3315,-400.13 0/1:135:52,83:52:1864:83:2956:-225.631,0,-127.4 0/0:411:409,2:409:14670:2:72:0,-116.887,-1313.18 0/1:152:89,63:89:3189:63:2218:-154.083,0,-241.475 0/1:189:101,88:101:3628:88:3126:-224.642,0,-269.829 0/1:129:89,40:89:3192:40:1397:-87.1901,0,-248.67 0/1:280:152,128:152:5445:128:4577:-327.632,0,-405.843 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:31:15,16:15:540:16:576:-42.8415,0,-39.6046 0/0:229:229,0:229:8198:0:0:0,-68.9359,-737.7 0/1:106:47,59:47:1669:59:2101:-157.43,0,-118.586 0/1:194:108,86:108:3872:86:3061:-217.312,0,-290.273 0/1:112:63,49:63:2268:49:1764:-125.298,0,-170.665 0/1:114:60,54:60:2156:54:1932:-139.839,0,-159.99 0/1:119:61,58:61:2196:58:2082:-151.827,0,-162.082 0/1:97:64,33:64:2285:33:1188:-77.991,0,-176.71 0/0:130:129,1:129:4625:1:36:0,-35.5356,-412.812 0/0:72:72,0:72:2592:0:0:0,-21.6742,-233.528 chr06 1002174 . GA TG,GG 30849 PASS AB=0.45398,0.54602;ABP=17.8001,17.8001;AC=29,13;AF=0.690476,0.309524;AN=42;AO=995,440;CIGAR=2X,1M1X;DP=1437;DPB=1437;DPRA=0,0.957404;EPP=2103.25,898.624;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.7619,2.07143;MQM=59.4854,53.9114;MQMR=0;NS=21;NUMALT=2;ODDS=7.80487;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35232,15696;QR=0;RO=0;RPL=995,440;RPP=2163.63,958.458;RPPR=0;RPR=0,0;RUN=1,1;SAF=7,7;SAP=2103.25,898.624;SAR=988,433;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71,0:0:0:71,0:2517,0:-226.765,-21.3731,0,-226.765,-21.3731,-226.765 1/1:30:0,30,0:0:0:30,0:1072,0:-96.7723,-9.0309,0,-96.7723,-9.0309,-96.7723 1/1:135:0,135,0:0:0:135,0:4787,0:-430.958,-40.6391,0,-430.958,-40.6391,-430.958 1/2:50:0,20,30:0:0:20,30:711,1080:-146.095,-88.1555,-82.1349,-58.2959,0,-49.265 1/1:140:0,138,1:0:0:138,1:4854,36:-436.47,-41.5421,0,-433.534,-38.5523,-433.233 1/2:39:0,15,24:0:0:15,24:531,843:-111.857,-68.6065,-64.091,-43.6023,0,-36.3776 1/2:90:0,32,58:0:0:32,58:1130,2073:-260.492,-168.482,-158.849,-92.3643,0,-74.9046 1/2:68:0,34,34:0:0:34,34:1189,1219:-196.05,-99.3367,-89.1017,-97.0661,0,-86.8311 1/2:116:0,59,57:0:0:59,57:2091,2022:-335.141,-164.804,-147.043,-170.692,0,-153.533 1/2:26:0,7,19:0:0:7,19:252,680:-76.1862,-55.6234,-53.5162,-20.9217,0,-15.2022 1/1:4:0,4,0:0:0:4,0:144,0:-13.2676,-1.20412,0,-13.2676,-1.20412,-13.2676 1/2:31:0,15,16:0:0:15,16:532,572:-90.1773,-46.8853,-42.3698,-43.6473,0,-38.8308 1/1:108:0,108,0:0:0:108,0:3823,0:-344.167,-32.5112,0,-344.167,-32.5112,-344.167 1/2:101:0,48,53:0:0:48,53:1702,1879:-291.757,-153.113,-138.664,-138.998,0,-123.044 1/2:100:0,47,53:0:0:47,53:1673,1891:-290.005,-153.655,-139.506,-136.706,0,-120.751 1/2:34:0,13,21:0:0:13,21:451,754:-98.1663,-61.5106,-57.5972,-37.0064,0,-30.6847 1/2:23:0,11,12:0:0:11,12:385,428:-66.5568,-35.2379,-31.9265,-31.6719,0,-28.0596 1/2:102:0,60,42:0:0:60,42:2146,1504:-296.839,-122.218,-104.157,-174.977,0,-162.334 1/2:24:0,4,20:0:0:4,20:140,715:-69.8122,-58.4236,-57.2194,-11.7395,0,-5.7189 1/1:100:0,100,0:0:0:100,0:3540,0:-318.802,-30.103,0,-318.802,-30.103,-318.802 1/1:45:0,44,0:0:0:44,0:1562,0:-140.496,-13.2453,0,-140.496,-13.2453,-140.496 chr06 1002180 . CG CA,TA 30918.7 PASS AB=0.446941,0.553059;ABP=22.5969,22.5969;AC=29,13;AF=0.690476,0.309524;AN=42;AO=982,444;CIGAR=1M1X,2X;DP=1427;DPB=1427;DPRA=0,0.9591;EPP=2075.03,898.909;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.71429,2;MQM=59.5122,53.9302;MQMR=0;NS=21;NUMALT=2;ODDS=7.05225;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35127,15734;QR=0;RO=0;RPL=982,444;RPP=2135.4,967.144;RPPR=0;RPR=0,0;RUN=1,1;SAF=7,8;SAP=2075.03,898.909;SAR=975,436;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:72:0,72,0:0:0:72,0:2580,0:-232.427,-21.6742,0,-232.427,-21.6742,-232.427 1/1:30:0,30,0:0:0:30,0:1076,0:-97.1389,-9.0309,0,-97.1389,-9.0309,-97.1389 1/1:134:0,134,0:0:0:134,0:4805,0:-432.507,-40.338,0,-432.507,-40.338,-432.507 1/2:52:0,20,32:0:0:20,32:720,1146:-152.234,-93.4867,-87.4661,-59.1058,0,-49.4729 1/1:137:0,136,1:0:0:136,1:4835,36:-434.721,-40.9401,0,-431.786,-37.6454,-431.485 1/2:39:0,15,24:0:0:15,24:536,851:-113.014,-69.3163,-64.8009,-44.0529,0,-36.8282 1/2:90:0,32,58:0:0:32,58:1148,2043:-259.43,-165.805,-156.172,-93.9805,0,-76.5208 1/2:67:0,33,34:0:0:33,34:1182,1222:-195.967,-99.5825,-89.6485,-96.7427,0,-86.5076 1/2:116:0,58,58:0:0:58,58:2073,2041:-335.255,-166.234,-148.775,-169.375,0,-151.915 1/2:26:0,7,19:0:0:7,19:252,669:-75.1977,-54.6333,-52.5261,-20.9217,0,-15.2022 1/1:4:0,4,0:0:0:4,0:144,0:-13.2676,-1.20412,0,-13.2676,-1.20412,-13.2676 1/2:31:0,15,16:0:0:15,16:540,572:-90.8994,-46.8861,-42.3706,-44.3713,0,-39.5549 1/1:107:0,106,0:0:0:106,0:3775,0:-339.642,-31.9092,0,-339.642,-31.9092,-339.642 1/2:100:0,46,54:0:0:46,54:1647,1864:-285.861,-151.561,-137.713,-134.652,0,-118.396 1/2:100:0,47,53:0:0:47,53:1688,1888:-291.098,-153.399,-139.25,-138.056,0,-122.102 1/2:35:0,13,22:0:0:13,22:468,790:-102.617,-64.4292,-60.5158,-38.5463,0,-31.9236 1/2:23:0,11,12:0:0:11,12:396,432:-67.9104,-35.5997,-32.2884,-32.6705,0,-29.0581 1/2:99:0,57,42:0:0:57,42:2035,1508:-288.47,-122.597,-105.438,-166.23,0,-153.587 1/2:23:0,4,19:0:0:4,19:140,672:-66.2442,-54.8549,-53.6508,-11.7395,0,-6.01993 1/1:97:0,97,0:0:0:97,0:3475,0:-312.956,-29.1999,0,-312.956,-29.1999,-312.956 1/1:45:0,45,0:0:0:45,0:1612,0:-145.356,-13.5464,0,-145.356,-13.5464,-145.356 chr06 1002195 . A C 7162.16 PASS AB=0.543814;ABP=15.9496;AC=13;AF=0.309524;AN=42;AO=422;CIGAR=1X;DP=1396;DPB=1396;DPRA=0.770223;EPP=919.372;EPPR=2118.02;GTI=0;LEN=1;MEANALT=1;MQM=53.8507;MQMR=59.4908;NS=21;NUMALT=1;ODDS=8.32779;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15035;QR=34818;RO=974;RPL=422;RPP=919.372;RPPR=2118.02;RPR=0;RUN=1;SAF=0;SAP=919.372;SAR=422;SRF=0;SRP=2118.02;SRR=974;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:71,0:71:2532:0:0:0,-21.3731,-228.116 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1221 0/0:134:134,0:134:4816:0:0:0,-40.338,-433.494 0/1:52:21,31:21:744:31:1116:-84.7667,0,-51.6298 0/0:132:132,0:132:4693:0:0:0,-39.736,-422.162 0/1:37:15,22:15:540:22:792:-60.1052,0,-37.7837 0/1:84:31,53:31:1112:53:1885:-143.573,0,-75.0885 0/1:67:33,34:33:1180:34:1211:-88.7432,0,-86.3298 0/1:112:58,54:58:2088:54:1921:-139.165,0,-154.469 0/1:26:7,19:7:248:19:672:-52.8072,0,-14.8374 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.8985 0/1:30:14,16:14:500:16:576:-43.0296,0,-36.2555 0/0:105:105,0:105:3729:0:0:0,-31.6081,-335.687 0/1:100:47,53:47:1680:53:1884:-139.413,0,-121.366 0/1:98:46,52:46:1648:52:1852:-136.603,0,-119.105 0/1:30:11,19:11:392:19:680:-52.1242,0,-26.5892 0/1:19:9,10:9:324:10:356:-26.6531,0,-23.7854 0/1:99:59,40:59:2108:40:1406:-96.3582,0,-159.774 0/1:22:3,19:3:108:19:684:-55.0286,0,-3.45009 0/0:99:99,0:99:3552:0:0:0,-29.802,-319.879 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.005 chr06 1002540 . AAATC AAATA,GAATA 35258.6 PASS AB=0.476644,0.520496;ABP=7.98047,6.8378;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1096,547;CIGAR=4M1X,1X3M1X;DP=1649;DPB=1649;DPRA=0,1.23945;EPP=2279.85,1139.26;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.95238,2.21429;MQM=59.9891,59.9781;MQMR=0;NS=21;NUMALT=2;ODDS=3.41954;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39188,19291;QR=0;RO=0;RPL=12,6;RPP=2279.85,1139.26;RPPR=0;RPR=1084,541;RUN=1,1;SAF=1096,547;SAP=2382.94,1190.81;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67,0:0:0:67,0:2364,0:-213.016,-20.169,0,-213.016,-20.169,-213.016 1/1:50:0,48,0:0:0:48,0:1720,0:-154.726,-14.4494,0,-154.726,-14.4494,-154.726 1/1:105:0,105,0:0:0:105,0:3772,0:-339.678,-31.6082,0,-339.678,-31.6082,-339.678 1/2:52:0,19,33:0:0:19,33:676,1164:-150.226,-95.1322,-89.4127,-55.4484,0,-45.5144 1/1:126:0,125,1:0:0:125,1:4481,36:-403.098,-37.6288,0,-400.16,-34.3315,-399.859 1/2:68:0,22,46:0:0:22,46:777,1648:-198.034,-134.761,-128.139,-63.6277,0,-49.7803 1/2:118:0,60,58:0:0:60,58:2156,2036:-341.941,-166.05,-147.989,-176.245,0,-158.785 1/2:94:0,34,59:0:0:34,59:1216,2050:-265.885,-166.727,-156.492,-99.2294,0,-81.4686 1/2:146:0,62,83:0:0:62,83:2209,2930:-418.646,-238.601,-219.938,-180.049,0,-155.063 1/2:11:0,6,5:0:0:6,5:216,179:-32.5808,-14.9552,-13.1491,-17.9843,0,-16.4792 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:42:0,24,18:0:0:24,18:864,633:-122.379,-51.876,-44.6513,-70.8578,0,-65.4393 1/1:146:0,145,0:0:0:145,0:5144,0:-462.74,-43.6494,0,-462.74,-43.6494,-462.74 1/2:93:0,43,50:0:0:43,50:1525,1756:-267.513,-143.269,-130.325,-124.597,0,-109.545 1/2:168:0,81,87:0:0:81,87:2916,3067:-488.005,-250.071,-225.688,-238.291,0,-212.101 1/2:49:0,27,22:0:0:27,22:968,778:-142.674,-63.72,-55.5922,-79.3096,0,-72.6869 1/2:83:0,44,38:0:0:44,38:1576,1348:-238.351,-109.821,-96.5754,-128.526,0,-117.087 1/2:75:0,45,30:0:0:45,30:1616,1063:-218.777,-86.9493,-73.403,-132.184,0,-123.153 1/2:50:0,33,17:0:0:33,17:1184,603:-146.061,-49.4827,-39.5487,-96.9343,0,-91.8168 1/1:67:0,67,0:0:0:67,0:2404,0:-216.616,-20.169,0,-216.616,-20.169,-216.616 1/1:35:0,35,0:0:0:35,0:1260,0:-113.705,-10.5361,0,-113.705,-10.5361,-113.705 chr06 1030788 . A G 17231.4 PASS AB=0.571012;ABP=63.1489;AC=13;AF=0.309524;AN=42;AO=787;CIGAR=1X;DP=2059;DPB=2059;DPRA=1.51535;EPP=1694.63;EPPR=2756.44;GTI=1;LEN=1;MEANALT=1;MQM=47.0203;MQMR=59.1517;NS=21;NUMALT=1;ODDS=7.34894;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28055;QR=45006;RO=1272;RPL=414;RPP=7.64848;RPPR=51.1924;RPR=373;RUN=1;SAF=416;SAP=8.59763;SAR=371;SRF=721;SRP=52.3464;SRR=551;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:122:122,0:122:4294:0:0:0,-36.7257,-386.564 0/0:45:45,0:45:1604:0:0:0,-13.5463,-144.617 0/0:75:75,0:75:2621:0:0:0,-22.5772,-236.047 0/1:87:36,51:36:1261:51:1819:-131.22,0,-87.3642 0/0:87:87,0:87:3056:0:0:0,-26.1896,-275.07 0/1:117:51,66:51:1812:66:2359:-164.363,0,-127.83 0/1:157:63,94:63:2203:94:3326:-232.321,0,-151.09 0/1:123:46,77:46:1632:77:2748:-192.167,0,-110.142 0/1:180:64,116:64:2262:116:4143:-307.918,0,-149.35 0/1:17:7,10:7:248:10:352:-25.0682,0,-17.542 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5502 0/1:47:18,29:18:648:29:1036:-76.3837,0,-44.5001 0/0:133:132,1:132:4636:1:36:0,-36.6908,-413.544 0/1:119:60,59:60:2132:59:2112:-146.547,0,-156.095 0/1:142:48,94:48:1716:94:3355:-245.903,0,-111.934 0/1:48:17,31:17:604:31:1108:-81.9554,0,-40.2412 0/1:55:13,42:13:468:42:1491:-112.4,0,-25.896 0/1:128:74,54:74:2632:54:1910:-124.715,0,-198.388 0/1:153:92,61:92:3292:61:2188:-145.132,0,-250.4 0/0:123:121,2:121:4280:2:72:0,-30.1948,-378.364 0/0:96:96,0:96:3425:0:0:0,-28.8989,-308.292 chr06 1030798 . ATATC GTATA,TTATA 53929.4 PASS AB=0.43133,0.565808;ABP=60.2701,55.5978;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1292,796;CIGAR=1X3M1X,1X3M1X;DP=2093;DPB=2094.2;DPRA=0,1.73459;EPP=2808.55,1731.5;EPPR=0;GTI=1;LEN=5,5;MEANALT=2.04762,2.29412;MQM=59.1076,46.9623;MQMR=0;NS=21;NUMALT=2;ODDS=7.16587;PAIRED=0,0;PAIREDR=0;PAO=5,1;PQA=150,0;PQR=0;PRO=0;QA=45535,27895;QR=0;RO=0;RPL=732,423;RPP=52.7323,9.83025;RPPR=0;RPR=560,373;RUN=1,1;SAF=732,423;SAP=52.7323,9.83025;SAR=560,373;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,123,0:0:0:123,0:4331,0:-389.924,-37.0267,0,-389.924,-37.0267,-389.924 1/1:47:0,47,0:0:0:47,0:1641,0:-147.757,-14.1484,0,-147.757,-14.1484,-147.757 1/1:75:0,75,0:0:0:75,0:2654,0:-239.05,-22.5773,0,-239.05,-22.5773,-239.05 1/2:89:0,38,51:0:0:38,51:1348,1792:-249.898,-140.235,-128.796,-110.01,0,-94.6575 1/1:92:0,90,1:0:0:90,1:3157,22:-284.061,-27.0927,0,-282.395,-25.4279,-282.094 1/2:119:0,53,66:0:0:53,66:1876,2320:-330.504,-178.007,-162.052,-152.841,0,-132.973 1/2:159:0,64,95:0:0:64,95:2233,3303:-432.084,-250.63,-231.364,-181.793,0,-153.195 1/2:125:0,46,79:0:0:46,79:1634,2761:-341.637,-208.48,-194.633,-133.501,0,-109.72 1/2:182:0,64,117:0:0:64,117:2234,4111:-506.189,-324.601,-305.335,-181.577,0,-146.356 1/2:17:0,7,10:0:0:7,10:239,337:-45.4322,-26.0295,-23.9223,-19.7348,0,-16.7245 1/1:5:0,5,0:0:0:5,0:180,0:-16.5502,-1.50515,0,-16.5502,-1.50515,-16.5502 1/2:49:0,20,29:0:0:20,29:696,1019:-137.04,-80.5781,-74.5575,-56.8067,0,-48.0768 1/1:133:0,132,1:0:0:132,1:4643,30:-417.408,-39.736,0,-415.081,-37.367,-414.78 1/2:124:0,64,60:0:0:64,60:2224,2116:-345.462,-164.811,-145.546,-180.993,0,-162.931 1/2:145:0,51,93:0:0:51,93:1804,3287:-402.243,-255.367,-240.015,-146.865,0,-118.869 1/2:49:0,17,32:0:0:17,32:601,1126:-137.807,-88.8538,-83.7363,-49.3019,0,-39.669 1/2:59:0,14,45:0:0:14,45:480,1565:-161.225,-122.258,-118.044,-39.3073,0,-25.7609 1/2:126:0,71,53:0:0:71,53:2533,1850:-348.62,-142.322,-120.949,-206.281,0,-190.327 1/2:155:0,94,61:0:0:94,61:3343,2148:-442.292,-169.889,-141.593,-272.75,0,-254.388 1/1:124:0,122,2:0:0:122,2:4303,72:-386.615,-36.7257,0,-380.744,-30.4958,-380.142 1/1:96:0,95,1:0:0:95,1:3381,36:-304.015,-28.5979,0,-301.077,-25.6604,-300.776 chr06 1045709 . G A 12469.9 PASS AB=0.46824;ABP=17.4934;AC=13;AF=0.309524;AN=42;AO=782;CIGAR=1X;DP=2687;DPB=2687;DPRA=1.11564;EPP=1701.1;EPPR=4135.32;GTI=0;LEN=1;MEANALT=1.05882;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=19.6936;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27647;QR=66388;RO=1903;RPL=0;RPP=1701.1;RPPR=4135.32;RPR=782;RUN=1;SAF=0;SAP=1701.1;SAR=782;SRF=0;SRP=4135.32;SRR=1903;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:154:149,5:149:5247:5:180:0,-29.8066,-455.817 0/0:133:132,1:132:4637:1:36:0,-36.4387,-413.897 0/0:146:145,1:145:5076:1:36:0,-40.3521,-453.389 0/1:223:126,97:126:4434:97:3418:-240.706,0,-332.104 0/0:274:274,0:274:9552:0:0:0,-82.4822,-859.656 0/1:55:31,24:31:1072:24:852:-60.4437,0,-80.2284 0/1:169:99,70:99:3453:70:2436:-168.616,0,-260.112 0/1:132:69,63:69:2384:63:2227:-160.958,0,-175.077 0/1:234:112,122:112:3917:122:4343:-320.606,0,-282.284 0/1:28:19,9:19:655:9:324:-21.077,0,-50.8423 0/0:11:11,0:11:373:0:0:0,-3.31133,-33.8952 0/1:36:24,12:24:839:12:420:-27.2969,0,-64.9902 0/0:142:141,0:141:4907:0:0:0,-42.4452,-441.424 0/1:150:84,66:84:2946:66:2339:-165.615,0,-220.22 0/1:237:120,117:120:4217:117:4160:-303.239,0,-308.37 0/1:111:54,57:54:1905:57:2036:-150.098,0,-138.311 0/1:106:62,43:62:2166:43:1494:-102.889,0,-163.344 0/1:98:38,60:38:1320:60:2099:-159.678,0,-89.5957 0/1:74:40,34:40:1353:34:1211:-87.0193,0,-99.7851 0/0:133:132,1:132:4569:1:36:0,-36.4387,-407.783 0/0:41:41,0:41:1366:0:0:0,-12.3422,-123.226 chr06 1046803 . C T 19279.5 PASS AB=0.418234;ABP=83.2636;AC=29;AF=0.690476;AN=42;AO=861;CIGAR=1X;DP=1668;DPB=1668;DPRA=0;EPP=1855.32;EPPR=1742.37;GTI=3;LEN=1;MEANALT=1.09524;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.60201;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30507;QR=28546;RO=805;RPL=638;RPP=437.368;RPPR=537.179;RPR=223;RUN=1;SAF=640;SAP=445.781;SAR=221;SRF=626;SRP=541.991;SRR=179;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:14:0,14:0:0:14:488:-44.2504,-4.21442,0 1/1:20:0,20:0:0:20:712:-64.4067,-6.0206,0 1/1:9:0,9:0:0:9:312:-28.4154,-2.70927,0 0/1:36:24,12:24:856:12:425:-27.7495,0,-66.524 1/1:52:2,50:2:72:50:1743:-150.315,-8.81684,0 0/1:36:24,12:24:855:12:428:-28.0217,0,-66.4331 0/1:51:27,24:27:968:24:860:-62.3693,0,-72.0848 0/1:57:26,31:26:919:31:1104:-82.5119,0,-65.8675 0/1:50:30,20:30:1054:20:696:-47.9109,0,-80.1177 0/1:189:128,61:128:4541:61:2158:-137.591,0,-351.962 1/1:59:0,58:0:0:58:2084:-187.588,-17.4597,0 0/1:190:99,91:99:3516:91:3241:-234.715,0,-259.454 1/1:31:0,31:0:0:31:1092:-98.5896,-9.33193,0 0/1:37:26,11:26:924:11:384:-23.7566,0,-72.3395 0/1:47:27,20:27:968:20:700:-49.1751,0,-73.289 0/1:16:10,6:10:360:6:212:-14.6083,0,-27.9278 0/1:10:7,3:7:252:3:104:-6.69251,0,-20.0187 0/1:584:343,240:343:12159:240:8554:-594.109,0,-918.41 0/1:79:32,47:32:1102:47:1637:-123.834,0,-75.7009 1/1:24:0,24:0:0:24:856:-77.3611,-7.22472,0 1/1:77:0,77:0:0:77:2717:-244.774,-23.1793,0 chr06 1046887 . A G 32332.5 PASS AB=0.484296;ABP=9.35311;AC=13;AF=0.309524;AN=42;AO=1447;CIGAR=1X;DP=4623;DPB=4623;DPRA=1.67076;EPP=3145.13;EPPR=6890.92;GTI=0;LEN=1;MEANALT=1;MQM=59.971;MQMR=59.9795;NS=21;NUMALT=1;ODDS=10.6054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51343;QR=113141;RO=3176;RPL=712;RPP=3.80416;RPPR=9.84743;RPR=735;RUN=1;SAF=712;SAP=3.80416;SAR=735;SRF=1639;SRP=10.1236;SRR=1537;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:266:263,3:263:9367:3:108:0,-69.9988,-832.92 0/0:181:181,0:181:6454:0:0:0,-54.4864,-580.756 0/0:165:164,1:164:5866:1:36:0,-46.0717,-524.452 0/1:252:132,120:132:4691:120:4229:-304.933,0,-346.489 0/0:404:399,5:399:14230:5:180:0,-105.064,-1263.91 0/1:243:118,125:118:4210:125:4453:-327.791,0,-305.929 0/1:380:182,198:182:6463:198:7067:-521.701,0,-467.366 0/1:243:111,132:111:3975:132:4691:-349.201,0,-284.789 0/1:461:238,223:238:8479:223:7914:-573.506,0,-624.335 0/1:19:10,9:10:360:9:309:-22.4202,0,-27.0247 0/0:15:14,1:14:496:1:36:0,-0.917175,-41.376 0/1:42:19,23:19:672:23:820:-61.4793,0,-48.1636 0/0:291:290,1:290:10377:1:36:0,-84.0015,-930.025 0/1:266:139,127:139:4945:127:4522:-327.075,0,-365.128 0/1:325:163,162:163:5798:162:5724:-417.446,0,-424.1 0/1:157:86,71:86:3092:71:2528:-180.509,0,-231.245 0/1:190:103,87:103:3644:87:3092:-221.181,0,-270.967 0/1:215:119,96:119:4228:96:3347:-236.726,0,-315.979 0/1:168:107,61:107:3813:61:2179:-145.803,0,-292.794 0/0:247:245,2:245:8686:2:72:0,-67.5177,-774.899 0/0:93:93,0:93:3295:0:0:0,-27.9958,-296.769 chr06 1049202 . ACACA TCACG 5278.55 PASS AB=0.48505;ABP=4.76335;AC=13;AF=0.309524;AN=42;AO=440;CIGAR=1X3M1X;DP=1598;DPB=1598;DPRA=0.899299;EPP=958.458;EPPR=2454.6;GTI=0;LEN=5;MEANALT=2.21429;MQM=59.9318;MQMR=59.7157;NS=21;NUMALT=1;ODDS=2.8019;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13484;QR=36574;RO=1129;RPL=0;RPP=958.458;RPPR=2454.6;RPR=440;RUN=1;SAF=0;SAP=958.458;SAR=440;SRF=0;SRP=2454.6;SRR=1129;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:122,2:122:3939:2:57:0,-31.9135,-349.152 0/0:84:84,0:84:2747:0:0:0,-25.2865,-247.316 0/0:19:18,0:18:591:0:0:0,-5.41854,-53.1435 0/1:74:44,28:44:1455:28:866:-56.2939,0,-109.275 0/0:187:187,0:187:6132:0:0:0,-56.2926,-552.018 0/1:113:54,56:54:1780:56:1685:-118.559,0,-127.108 0/1:98:43,50:43:1405:50:1579:-114.162,0,-98.4827 0/1:60:27,33:27:860:33:1035:-75.3758,0,-59.6334 0/1:143:48,93:48:1489:93:2898:-218.349,0,-91.5753 0/1:8:4,3:4:142:3:94:-6.42009,0,-10.7751 0/0:8:8,0:8:262:0:0:0,-2.40824,-23.8992 0/1:7:4,3:4:133:3:103:-7.50239,0,-10.1917 0/0:147:146,0:146:4824:0:0:0,-43.9504,-434.132 0/1:51:27,21:27:852:21:649:-44.0071,0,-62.2758 0/1:111:56,49:56:1818:49:1537:-106.736,0,-132.024 0/1:72:35,37:35:1105:37:1156:-82.6502,0,-78.0269 0/1:68:45,21:45:1425:21:666:-40.1245,0,-108.331 0/1:58:29,27:29:909:27:722:-48.1118,0,-64.9708 0/1:40:23,17:23:700:17:437:-27.5419,0,-51.2496 0/0:80:79,0:79:2578:0:0:0,-23.7814,-231.951 0/0:46:46,0:46:1428:0:0:0,-13.8474,-128.712 chr06 1061462 . G A 8863.68 PASS AB=0.44081;ABP=42.0833;AC=13;AF=0.309524;AN=42;AO=571;CIGAR=1X;DP=2084;DPB=2084;DPRA=1.70375;EPP=1242.92;EPPR=3041.39;GTI=0;LEN=1;MEANALT=1;MQM=59.725;MQMR=59.9247;NS=21;NUMALT=1;ODDS=16.5705;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20230;QR=54173;RO=1513;RPL=0;RPP=1242.92;RPPR=3041.39;RPR=571;RUN=1;SAF=571;SAP=1242.92;SAR=0;SRF=1513;SRP=3288.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.085 0/0:134:134,0:134:4795:0:0:0,-40.338,-431.705 0/0:85:82,3:82:2944:3:108:0,-15.5124,-255.117 0/1:108:61,47:61:2184:47:1675:-118.525,0,-164.315 0/0:241:240,1:240:8591:1:36:0,-68.95,-769.587 0/1:60:26,34:26:936:34:1220:-92.0432,0,-66.4977 0/1:145:77,68:77:2751:68:2389:-171.547,0,-204.176 0/1:112:68,44:68:2431:44:1548:-105.896,0,-185.327 0/1:215:110,105:110:3943:105:3738:-271.842,0,-290.318 0/1:17:8,9:8:288:9:305:-22.6588,0,-21.1499 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3073 0/1:32:18,14:18:648:14:500:-35.7032,0,-49.0189 0/0:151:150,1:150:5362:1:36:0,-41.8573,-479.114 0/1:109:59,50:59:2099:50:1771:-126.85,0,-156.358 0/1:194:111,83:111:3988:83:2946:-206.968,0,-300.532 0/1:85:48,37:48:1716:37:1313:-92.8609,0,-129.138 0/1:127:81,46:81:2912:46:1625:-108.295,0,-224.072 0/1:50:30,20:30:1072:20:700:-48.272,0,-81.741 0/1:30:21,9:21:747:9:320:-20.1105,0,-58.5234 0/0:91:91,0:91:3250:0:0:0,-27.3937,-292.719 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 chr06 1121125 . A G 31412.6 PASS AB=0.488669;ABP=4.58508;AC=29;AF=0.690476;AN=42;AO=1552;CIGAR=1X;DP=2279;DPB=2279;DPRA=0;EPP=3364.46;EPPR=1568.65;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9246;MQMR=60;NS=21;NUMALT=1;ODDS=13.3096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55403;QR=26034;RO=725;RPL=0;RPP=3373.14;RPPR=1568.65;RPR=1552;RUN=1;SAF=1551;SAP=3364.46;SAR=1;SRF=725;SRP=1577.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:0,178:0:0:178:6299:-566.601,-53.5833,0 1/1:98:0,98:0:0:98:3483:-313.576,-29.5009,0 1/1:139:2,137:2:72:137:4901:-434.405,-35.0064,0 0/1:98:56,42:56:2001:42:1504:-106.154,0,-150.861 1/1:205:1,204:1:36:204:7300:-653.453,-58.1129,0 0/1:85:51,34:51:1817:34:1212:-83.7988,0,-138.222 0/1:170:72,98:72:2592:98:3492:-263.317,0,-182.353 0/1:120:55,65:55:1980:65:2324:-173.297,0,-142.351 0/1:211:110,101:110:3956:101:3599:-260.493,0,-292.712 0/1:23:9,14:9:324:14:504:-38.7744,0,-22.5822 1/1:14:0,14:0:0:14:492:-44.6123,-4.21442,0 0/1:12:7,5:7:252:5:176:-12.5727,0,-19.4166 1/1:118:0,117:0:0:117:4185:-376.505,-35.2205,0 0/1:76:36,40:36:1292:40:1432:-106.299,0,-93.7055 0/1:226:124,102:124:4456:102:3648:-260.488,0,-333.176 0/1:104:61,43:61:2188:43:1548:-108.306,0,-165.879 0/1:107:54,53:54:1940:53:1908:-139.786,0,-142.666 0/1:131:71,60:71:2552:60:2148:-154.148,0,-190.495 0/1:49:16,33:16:576:33:1160:-89.9562,0,-37.4245 1/1:73:0,73:0:0:73:2616:-235.688,-21.9752,0 1/1:41:0,41:0:0:41:1472:-132.768,-12.3422,0 chr06 1121134 . C T 32334.9 PASS AB=0.496085;ABP=3.19731;AC=29;AF=0.690476;AN=42;AO=1575;CIGAR=1X;DP=2286;DPB=2286;DPRA=0;EPP=3362.55;EPPR=1495.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9219;MQMR=59.9986;NS=21;NUMALT=1;ODDS=14.4611;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56261;QR=25140;RO=711;RPL=4;RPP=3388.42;RPPR=1512.38;RPR=1571;RUN=1;SAF=1572;SAP=3397.07;SAR=3;SRF=709;SRP=1529.6;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:0,179:0:0:179:6397:-575.808,-53.8844,0 1/1:102:0,102:0:0:102:3640:-327.698,-30.7051,0 1/1:144:2,142:2:68:142:5067:-449.718,-36.8906,0 0/1:96:55,41:55:1964:41:1459:-102.706,0,-148.136 1/1:204:1,203:1:36:203:7240:-648.05,-57.8118,0 0/1:87:50,37:50:1763:37:1324:-93.2725,0,-132.763 0/1:174:73,101:73:2595:101:3615:-273.176,0,-181.42 0/1:119:54,65:54:1911:65:2336:-174.677,0,-136.444 0/1:212:109,103:109:3869:103:3686:-268.016,0,-284.587 0/1:23:9,14:9:311:14:504:-38.7744,0,-21.4 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:13:7,6:7:248:6:216:-15.8756,0,-18.7508 1/1:121:0,121:0:0:121:4305:-387.623,-36.4246,0 0/1:77:37,40:37:1288:40:1428:-105.638,0,-93.0387 0/1:223:121,102:121:4282:102:3652:-261.737,0,-318.432 0/1:102:59,43:59:2083:43:1536:-107.828,0,-157.035 0/1:101:49,52:49:1723:52:1859:-137.184,0,-124.95 0/1:131:70,61:70:2463:61:2163:-155.494,0,-182.488 0/1:47:15,32:15:536:32:1148:-89.4814,0,-34.4264 1/1:78:0,78:0:0:78:2786:-250.98,-23.4803,0 1/1:40:0,40:0:0:40:1436:-129.529,-12.0412,0 chr06 1121686 . GAAGATAT GAGAATAG,TAGAATAG 22008.3 PASS AB=0.561538,0.427692;ABP=24.391,32.529;AC=29,13;AF=0.690476,0.309524;AN=42;AO=800,278;CIGAR=2M2X3M1X,1X1M2X3M1X;DP=1089;DPB=1089;DPRA=0,0.911162;EPP=1740.19,606.68;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.14286,2.53846;MQM=55.7825,53.8453;MQMR=0;NS=21;NUMALT=2;ODDS=6.0009;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28001,9726;QR=0;RO=0;RPL=800,278;RPP=1740.19,606.68;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1740.19,606.68;SAR=800,278;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:55:0,55,0:0:0:55,0:1924,0:-173.244,-16.5567,0,-173.244,-16.5567,-173.244 1/1:14:0,14,0:0:0:14,0:481,0:-43.5194,-4.21442,0,-43.5194,-4.21442,-43.5194 1/1:81:0,81,0:0:0:81,0:2860,0:-257.485,-24.3834,0,-257.485,-24.3834,-257.485 1/2:50:0,26,24:0:0:26,24:909,841:-142.417,-68.5261,-60.6994,-74.2404,0,-67.0157 1/1:43:0,42,0:0:0:42,0:1475,0:-132.647,-12.6433,0,-132.647,-12.6433,-132.647 1/2:27:0,18,7:0:0:18,7:629,248:-70.6508,-20.2149,-14.7963,-50.495,0,-48.3878 1/2:64:0,31,33:0:0:31,33:1072,1165:-181.409,-94.9877,-85.6557,-86.7689,0,-76.8349 1/2:93:0,50,41:0:0:50,41:1749,1444:-259.187,-117.433,-102.382,-141.802,0,-129.46 1/2:67:0,42,25:0:0:42,25:1447,869:-188.362,-70.8622,-58.2189,-117.846,0,-110.32 1/2:15:0,7,8:0:0:7,8:243,281:-42.7316,-22.9979,-20.8907,-20.081,0,-17.6728 1/1:6:0,6,0:0:0:6,0:210,0:-19.2255,-1.80618,0,-19.2255,-1.80618,-19.2255 1/2:55:0,28,25:0:0:28,25:989,886:-152.453,-72.067,-63.6381,-80.4428,0,-72.917 1/1:78:0,77,0:0:0:77,0:2685,0:-241.408,-23.1793,0,-241.408,-23.1793,-241.408 1/2:80:0,37,43:0:0:37,43:1267,1480:-222.935,-120.258,-109.12,-103.02,0,-90.0757 1/2:67:0,42,25:0:0:42,25:1488,884:-193.322,-72.1588,-59.5156,-121.517,0,-113.991 1/2:8:0,3,5:0:0:3,5:107,172:-23.0355,-14.3091,-13.406,-9.07814,0,-7.57299 1/2:10:0,6,4:0:0:6,4:187,133:-26.0793,-11.0824,-9.27619,-15.3207,0,-14.1166 1/2:66:0,40,25:0:0:40,25:1422,886:-187.528,-71.9196,-59.8784,-115.641,0,-108.115 1/2:48:0,35,13:0:0:35,13:1219,437:-133.864,-35.5481,-25.012,-98.6532,0,-94.7398 1/1:116:0,114,0:0:0:114,0:4026,0:-361.6,-34.3174,0,-361.6,-34.3174,-361.6 1/1:46:0,46,0:0:0:46,0:1612,0:-145.175,-13.8474,0,-145.175,-13.8474,-145.175 chr06 1121711 . G A 21028.9 PASS AB=0.597651;ABP=59.4144;AC=29;AF=0.690476;AN=42;AO=889;CIGAR=1X;DP=1163;DPB=1163;DPRA=0;EPP=1933.45;EPPR=595.822;GTI=1;LEN=1;MEANALT=1.04762;MQM=56.2418;MQMR=53.8864;NS=21;NUMALT=1;ODDS=3.03851;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31804;QR=9780;RO=273;RPL=785;RPP=1135.79;RPPR=595.822;RPR=104;RUN=1;SAF=104;SAP=1135.79;SAR=785;SRF=0;SRP=595.822;SRR=273;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:61:0,61:0:0:61:2180:-196.231,-18.3628,0 1/1:15:0,15:0:0:15:536:-48.4813,-4.51545,0 1/1:89:0,89:0:0:89:3196:-287.706,-26.7917,0 0/1:52:23,28:23:824:28:1004:-74.9022,0,-58.555 1/1:57:0,57:0:0:57:2040:-183.624,-17.1587,0 0/1:27:8,19:8:288:19:680:-52.6666,0,-18.0679 0/1:65:33,32:33:1176:32:1140:-82.6327,0,-86.3259 0/1:91:41,50:41:1468:50:1788:-132.891,0,-104.821 0/1:72:25,47:25:900:47:1688:-130.408,0,-59.1389 0/1:15:8,7:8:284:7:248:-18.1282,0,-21.1623 1/1:6:0,6:0:0:6:216:-19.7739,-1.80618,0 0/1:53:26,27:26:928:27:957:-70.4015,0,-67.522 1/1:84:0,84:0:0:84:3004:-270.304,-25.2865,0 0/1:79:40,39:40:1436:39:1403:-102.317,0,-105.386 0/1:77:25,52:25:900:52:1860:-144.436,0,-57.9384 0/1:8:5,3:5:180:3:108:-7.66599,0,-14.1392 0/1:14:3,11:3:108:11:384:-30.6476,0,-5.85793 0/1:74:24,50:24:860:50:1788:-138.646,0,-55.1504 0/1:54:12,42:12:428:42:1488:-116.872,0,-22.3714 1/1:123:0,123:0:0:123:4408:-395.582,-37.0267,0 1/1:47:0,47:0:0:47:1688:-151.998,-14.1484,0 chr06 1124167 . T C 112537 PASS AB=0.514879;ABP=10.0535;AC=29;AF=0.690476;AN=42;AO=4297;CIGAR=1X;DP=6088;DPB=6088;DPRA=0;EPP=9333.83;EPPR=3881.26;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9802;MQMR=60;NS=21;NUMALT=1;ODDS=25.9062;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=152724;QR=63770;RO=1790;RPL=2418;RPP=149.824;RPPR=78.8299;RPR=1879;RUN=1;SAF=2418;SAP=149.824;SAR=1879;SRF=1019;SRP=77.6216;SRR=771;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:438:1,437:1:36:437:15539:-1394.62,-128.253,0 1/1:361:0,361:0:0:361:12840:-1155.42,-108.672,0 1/1:259:1,258:1:36:258:9144:-819.299,-74.3685,0 0/1:378:179,199:179:6371:199:6996:-515.919,0,-459.692 1/1:609:5,603:5:180:603:21444:-1912.87,-166.834,0 0/1:252:99,153:99:3510:153:5439:-413.78,0,-240.252 0/1:408:214,194:214:7655:194:6910:-499.148,0,-566.166 0/1:267:138,129:138:4909:129:4562:-330.264,0,-361.588 0/1:548:275,273:275:9814:273:9739:-711.496,0,-718.244 0/1:26:13,13:13:464:13:468:-34.6329,0,-34.2707 1/1:6:0,6:0:0:6:203:-18.6012,-1.80618,0 0/1:81:38,43:38:1339:43:1522:-112.888,0,-96.4258 1/1:309:2,307:2:72:307:10912:-975.146,-86.1815,0 0/1:340:169,171:169:5988:171:6068:-443.877,0,-436.679 0/1:472:261,211:261:9286:211:7519:-534.669,0,-693.626 0/1:248:109,139:109:3893:139:4952:-371.173,0,-275.908 0/1:270:119,151:119:4246:151:5376:-402.695,0,-301.041 0/1:169:86,83:86:3084:83:2949:-214.769,0,-226.914 0/1:204:77,127:77:2743:127:4530:-346.458,0,-185.702 1/1:306:3,303:3:108:303:10783:-960.303,-82.04,0 1/1:137:1,136:1:36:136:4829:-431.169,-37.6428,0 chr06 1135458 . T C 54613.1 PASS AB=0.510826;ABP=9.35755;AC=13;AF=0.309524;AN=42;AO=3207;CIGAR=1X;DP=9503;DPB=9503;DPRA=1.87215;EPP=6845.85;EPPR=13419.4;GTI=0;LEN=1;MEANALT=1.29412;MQM=59.6177;MQMR=59.4859;NS=21;NUMALT=1;ODDS=26.8497;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=113788;QR=225112;RO=6290;RPL=14;RPP=6845.85;RPPR=13419.4;RPR=3193;RUN=1;SAF=3207;SAP=6966.92;SAR=0;SRF=6290;SRP=13661.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:371:371,0:371:13242:0:0:0,-111.682,-1191.08 0/0:234:234,0:234:8412:0:0:0,-70.441,-756.688 0/0:219:214,5:214:7656:5:179:0,-49.4795,-672.117 0/1:284:136,148:136:4851:148:5284:-390.079,0,-351.197 0/0:625:615,9:615:21958:9:320:0,-158.961,-1945.2 0/1:187:85,102:85:3052:102:3635:-270.552,0,-218.452 0/1:294:146,148:146:5203:148:5253:-384.384,0,-379.359 0/1:194:114,80:114:4076:80:2822:-195.576,0,-308.558 0/1:344:152,191:152:5443:191:6710:-500.265,0,-386.13 0/1:1393:683,708:683:24412:708:25164:-1843.87,0,-1775.65 0/0:1153:1152,1:1152:41267:1:36:0,-343.489,-3707.51 0/1:1675:836,839:836:29987:839:29831:-2179.41,0,-2192.8 0/0:399:399,0:399:14267:0:0:0,-120.111,-1283.51 0/1:178:94,84:94:3347:84:2869:-204.598,0,-246.428 0/1:312:166,145:166:5959:145:5167:-371.157,0,-441.63 0/1:121:61,60:61:2184:60:2136:-155.453,0,-160.366 0/1:176:85,91:85:3048:91:3252:-239.86,0,-220.939 0/1:984:435,548:435:15566:548:19420:-1450.87,0,-1103.87 0/1:93:52,41:52:1872:41:1458:-103.519,0,-140.675 0/0:210:203,7:203:7270:7:252:0,-40.1873,-631.265 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.816 chr06 1135461 . GTTTTTTAAC GTTTTTAAC,GTTTTTAAAC 194743 PASS AB=0.471017,0.518459;ABP=48.0726,21.2878;AC=29,13;AF=0.690476,0.309524;AN=42;AO=5995,3225;CIGAR=1M1D8M,6M1X3M;DP=9300;DPB=8696.5;DPRA=0,2.13304;EPP=12735.9,6876.33;EPPR=16.0391;GTI=0;LEN=1,1;MEANALT=4.71429,5.22222;MQM=59.5708,59.6766;MQMR=60;NS=21;NUMALT=2;ODDS=13.1585;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=212521,115329;QR=195;RO=6;RPL=5962,3210;RPP=12735.9,6876.33;RPPR=16.0391;RPR=33,15;RUN=1,1;SAF=5995,3225;SAP=13021,7006.01;SAR=0,0;SRF=6;SRP=16.0391;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:345:0,343,2:0:0:343,2:12192,72:-1096.32,-103.253,0,-1090.45,-97.0186,-1089.84 1/1:229:0,228,0:0:0:228,0:8028,0:-721.823,-68.6348,0,-721.823,-68.6348,-721.823 1/1:208:0,203,4:0:0:203,4:7216,144:-648.95,-61.1091,0,-637.2,-49.3579,-635.996 1/2:279:1,127,151:1:31:127,151:4505,5405:-804.882,-438.201,-402.459,-364.539,0,-321.572 1/1:599:1,584,9:1:31:584,9:20723,316:-1860.73,-173.315,0,-1835.31,-150.064,-1835.09 1/2:185:0,83,97:0:0:83,97:2960,3460:-522.808,-281.657,-256.672,-241.149,0,-211.95 1/2:286:0,137,149:0:0:137,149:4834,5340:-828.996,-435.732,-394.491,-393.619,0,-348.766 1/2:188:0,108,79:0:0:108,79:3844,2832:-544.35,-231.083,-198.571,-313.373,0,-289.592 1/2:340:0,147,187:0:0:147,187:5201,6697:-969.477,-545.975,-501.724,-423.558,0,-367.265 1/2:1389:2,643,738:2:69:643,738:22635,26382:-3985.89,-2144.09,-1956.14,-1836.85,0,-1620.3 1/1:1098:0,1092,1:0:0:1092,1:38713,36:-3481.91,-328.725,0,-3478.97,-325.787,-3478.67 1/2:1673:0,819,837:0:0:819,837:29167,29909:-4814.78,-2438.44,-2191.9,-2376.37,0,-2124.41 1/1:391:1,389,0:1:32:389,0:13838,0:-1241.89,-114.467,0,-1242.19,-117.101,-1244.76 1/2:167:1,88,76:1:32:88,76:3052,2650:-459.645,-212.54,-188.627,-244.891,0,-224.591 1/2:306:0,159,145:0:0:159,145:5628,5200:-882.218,-424.175,-376.311,-458.142,0,-414.493 1/2:121:0,57,58:0:0:57,58:2040,2062:-334.099,-167.761,-150.602,-166.336,0,-148.876 1/2:171:0,80,89:0:0:80,89:2828,3185:-489.911,-259.661,-235.578,-230.246,0,-203.455 1/2:977:0,410,554:0:0:410,554:14552,19875:-2806.03,-1620.64,-1497.21,-1185.41,0,-1018.64 1/2:94:0,51,42:0:0:51,42:1807,1512:-270.504,-123.373,-108.021,-147.13,0,-134.487 1/1:200:0,193,7:0:0:193,7:6851,252:-616.257,-58.0988,0,-595.695,-37.177,-593.588 1/1:54:0,54,0:0:0:54,0:1907,0:-171.907,-16.2556,0,-171.907,-16.2556,-171.907 chr06 1135490 . T A 172299 PASS AB=0.531346;ABP=61.4116;AC=29;AF=0.690476;AN=42;AO=7793;CIGAR=1X;DP=11024;DPB=11024;DPRA=0;EPP=16925.3;EPPR=7010.35;GTI=0;LEN=1;MEANALT=1.09524;MQM=52.3253;MQMR=59.6864;NS=21;NUMALT=1;ODDS=78.9512;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=273159;QR=115123;RO=3227;RPL=6174;RPP=5784.32;RPPR=6984.32;RPR=1619;RUN=1;SAF=6174;SAP=5784.32;SAR=1619;SRF=3224;SRP=6984.32;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:611:2,609:2:72:609:21528:-1680.63,-177.093,0 1/1:226:0,226:0:0:226:7939:-714.166,-68.0328,0 1/1:270:4,266:4:144:266:9313:-767.219,-67.9645,0 0/1:372:153,219:153:5473:219:7666:-494.156,0,-380.484 1/1:927:10,917:10:351:917:32335:-2557.47,-247.761,0 0/1:188:102,86:102:3647:86:3023:-215.547,0,-271.647 0/1:289:154,135:154:5496:135:4679:-333.844,0,-407.621 0/1:247:80,164:80:2855:164:5758:-390.816,0,-182.583 0/1:482:189,293:189:6751:293:10229:-632.482,0,-462.405 0/1:1405:719,686:719:25642:686:24105:-1743.07,0,-1883.28 1/1:1136:1,1135:1:36:1135:39646:-3562.23,-338.372,0 0/1:1666:843,823:843:30123:823:28502:-2049.55,0,-2208.41 1/1:552:0,552:0:0:552:19451:-1593.99,-166.169,0 0/1:253:87,166:87:3098:166:5714:-353.846,0,-202.881 0/1:400:143,257:143:5094:257:9005:-597.199,0,-338.187 0/1:187:63,124:63:2256:124:4402:-274.048,0,-146.379 0/1:202:91,111:91:3255:111:3834:-255.062,0,-232.302 0/1:1013:537,475:537:19082:475:16674:-1169.58,0,-1411.71 0/1:139:42,97:42:1496:97:3448:-223.695,0,-93.091 1/1:401:7,394:7:252:394:13875:-1030.76,-97.6841,0 1/1:58:0,58:0:0:58:2033:-183.185,-17.4597,0 chr06 1163424 . G A 40089.9 PASS AB=0.52381;ABP=11.386;AC=29;AF=0.690476;AN=42;AO=1968;CIGAR=1X;DP=2785;DPB=2785;DPRA=0;EPP=4276.47;EPPR=1770.59;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9624;MQMR=60;NS=21;NUMALT=1;ODDS=15.1478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70296;QR=29098;RO=814;RPL=1968;RPP=4276.47;RPPR=1770.59;RPR=0;RUN=1;SAF=0;SAP=4276.47;SAR=1968;SRF=0;SRP=1770.59;SRR=814;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:149:0,149:0:0:149:5315:-478.483,-44.8535,0 1/1:121:0,120:0:0:120:4300:-386.965,-36.1236,0 1/1:122:0,122:0:0:122:4336:-390.414,-36.7257,0 0/1:223:107,116:107:3816:116:4164:-307.801,0,-276.509 1/1:251:2,248:2:72:248:8893:-793.513,-68.7806,0 0/1:166:101,65:101:3628:65:2303:-157.408,0,-276.753 0/1:162:82,80:82:2910:80:2832:-206.351,0,-213.369 0/1:123:62,61:62:2220:61:2169:-158.448,0,-163.038 0/1:240:119,121:119:4254:121:4335:-318.078,0,-310.791 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:31:12,19:12:432:19:684:-52.5584,0,-29.8893 1/1:191:0,191:0:0:191:6790:-611.172,-57.4967,0 0/1:148:60,88:60:2144:88:3123:-236.714,0,-148.675 0/1:257:131,126:131:4692:126:4520:-329.602,0,-345.076 0/1:80:40,40:40:1423:40:1432:-105.095,0,-104.284 0/1:103:38,65:38:1364:65:2328:-178.774,0,-92.0546 0/1:68:25,43:25:887:43:1544:-118.783,0,-59.6781 0/1:91:26,65:26:932:65:2336:-183.105,0,-56.8051 1/1:155:1,154:1:36:154:5504:-491.886,-43.0614,0 1/1:90:1,88:1:36:88:3136:-278.867,-23.5532,0 chr06 1190652 . C A 29181.6 PASS AB=0.712871;ABP=321.034;AC=29;AF=0.690476;AN=42;AO=1467;CIGAR=1X;DP=1700;DPB=1700;DPRA=0;EPP=3188.56;EPPR=508.963;GTI=4;LEN=1;MEANALT=1;MQM=44.5317;MQMR=59.1245;NS=21;NUMALT=1;ODDS=7.02266;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51311;QR=8028;RO=233;RPL=1467;RPP=3188.56;RPPR=508.963;RPR=0;RUN=1;SAF=1467;SAP=3188.56;SAR=0;SRF=233;SRP=508.963;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:184:1,183:1:32:183:6399:-562.425,-52.1904,0 1/1:137:0,137:0:0:137:4762:-421.463,-41.2411,0 1/1:71:0,71:0:0:71:2484:-219.594,-21.3731,0 0/1:64:17,47:17:569:47:1626:-123.071,0,-32.2557 1/1:256:0,256:0:0:256:9039:-799.162,-77.0637,0 0/1:79:18,61:18:639:61:2117:-163.864,0,-34.0569 0/1:88:11,77:11:388:77:2743:-216.258,0,-8.70872 0/1:57:17,40:17:584:40:1413:-107.987,0,-35.7212 0/1:117:30,87:30:1041:87:3003:-230.171,0,-58.7624 0/1:16:5,11:5:176:11:396:-30.6779,0,-11.3685 1/1:5:0,5:0:0:5:180:-16.3696,-1.50515,0 0/1:21:5,16:5:171:16:526:-40.5928,0,-9.40382 1/1:117:0,117:0:0:117:4123:-364.155,-35.2205,0 0/1:62:15,47:15:510:47:1612:-123.968,0,-27.5544 0/1:81:27,54:27:947:54:1886:-142.383,0,-59.752 0/1:36:11,25:11:392:25:883:-66.7979,0,-24.7818 0/1:36:5,31:5:180:31:1082:-84.8451,0,-5.71498 0/1:100:53,47:53:1802:47:1624:-113.754,0,-132.352 0/1:51:18,33:18:597:33:1137:-85.2672,0,-38.6728 1/1:86:0,86:0:0:86:3048:-268.83,-25.8886,0 1/1:36:0,36:0:0:36:1228:-108.907,-10.8371,0 chr06 1207735 . C G 13190.5 PASS AB=0.465544;ABP=16.4781;AC=13;AF=0.309524;AN=42;AO=613;CIGAR=1X;DP=2203;DPB=2203;DPRA=1.05074;EPP=49.8581;EPPR=9.71069;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9706;MQMR=59.9736;NS=21;NUMALT=1;ODDS=6.24602;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21566;QR=56199;RO=1588;RPL=612;RPP=1325.45;RPPR=3451.31;RPR=1;RUN=1;SAF=363;SAP=48.2428;SAR=250;SRF=829;SRP=9.71069;SRR=759;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:133,0:133:4746:0:0:0,-40.037,-427.299 0/0:106:106,0:106:3743:0:0:0,-31.9092,-337.069 0/0:56:55,1:55:1950:1:36:0,-13.2594,-172.176 0/1:111:53,58:53:1885:58:2020:-148.62,0,-136.512 0/0:210:207,3:207:7321:3:108:0,-53.1411,-648.87 0/1:111:57,54:57:2027:54:1894:-137.323,0,-149.288 0/1:176:80,96:80:2791:96:3358:-249.459,0,-198.451 0/1:98:51,47:51:1801:47:1670:-121.085,0,-132.869 0/1:117:56,61:56:1995:61:2161:-159.535,0,-144.112 0/1:11:8,3:8:288:3:104:-6.39148,0,-22.9561 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:29:18,11:18:640:11:388:-26.5275,0,-49.1994 0/0:174:174,0:174:6133:0:0:0,-52.3792,-552.073 0/1:125:63,62:63:2248:62:2167:-157.666,0,-164.955 0/1:143:99,44:99:3544:44:1543:-96.1119,0,-276.121 0/1:90:51,39:51:1778:39:1357:-95.3308,0,-133.205 0/1:67:34,32:34:1211:32:1144:-83.0805,0,-89.1066 0/1:99:42,57:42:1495:57:2012:-151.55,0,-105.042 0/1:129:85,44:85:3008:44:1568:-102.579,0,-232.118 0/0:126:125,1:125:4374:1:36:0,-34.3315,-390.237 0/0:87:86,0:86:3045:0:0:0,-25.8886,-273.912 chr06 1207747 . T C 15358.7 PASS AB=0.565588;ABP=24.9433;AC=29;AF=0.690476;AN=42;AO=754;CIGAR=1X;DP=1012;DPB=1012;DPRA=0;EPP=1640.3;EPPR=563.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9894;MQMR=60;NS=21;NUMALT=1;ODDS=3.35111;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26880;QR=9219;RO=258;RPL=754;RPP=1640.3;RPPR=563.25;RPR=0;RUN=1;SAF=0;SAP=1640.3;SAR=754;SRF=0;SRP=563.25;SRR=258;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2894:-260.696,-24.6845,0 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 1/1:26:1,25:1:36:25:896:-77.3621,-4.22851,0 0/1:34:14,20:14:504:20:720:-54.8938,0,-35.4631 1/1:100:2,98:2:72:98:3508:-309.092,-23.2663,0 0/1:32:10,22:10:360:22:777:-60.6174,0,-23.1113 0/1:74:46,28:46:1633:28:996:-67.6787,0,-124.981 0/1:52:23,29:23:824:29:1044:-78.6212,0,-58.8298 0/1:54:28,26:28:993:26:923:-67.1318,0,-73.4269 0/1:9:3,6:3:108:6:193:-14.9758,0,-7.3659 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:15:6,9:6:216:9:324:-24.9904,0,-15.2751 1/1:70:0,70:0:0:70:2512:-226.332,-21.0721,0 0/1:67:29,38:29:1017:38:1345:-101.179,0,-71.6708 0/1:81:24,57:24:864:57:2025:-158.137,0,-53.6991 0/1:28:12,16:12:432:16:572:-43.3846,0,-30.7924 0/1:26:11,15:11:396:15:540:-41.1098,0,-28.156 0/1:47:26,21:26:936:21:756:-54.2188,0,-70.4111 0/1:68:23,45:23:828:45:1607:-124.45,0,-54.3741 1/1:54:0,54:0:0:54:1921:-173.165,-16.2556,0 1/1:46:0,46:0:0:46:1639:-147.79,-13.8474,0 chr06 1231562 . T C 7108.89 PASS AB=0.471616;ABP=9.42041;AC=13;AF=0.309524;AN=42;AO=440;CIGAR=1X;DP=1579;DPB=1579;DPRA=1.14804;EPP=949.792;EPPR=2476.32;GTI=0;LEN=1;MEANALT=1;MQM=59.975;MQMR=59.9789;NS=21;NUMALT=1;ODDS=18.2288;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15796;QR=40816;RO=1139;RPL=0;RPP=958.458;RPPR=2476.32;RPR=440;RUN=1;SAF=439;SAP=949.792;SAR=1;SRF=1139;SRP=2476.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:121:121,0:121:4324:0:0:0,-36.4246,-389.337 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.83 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.624 0/1:60:32,28:32:1144:28:1008:-72.9746,0,-85.2077 0/0:166:159,7:159:5708:7:252:0,-26.942,-490.58 0/1:27:12,15:12:432:15:532:-40.0853,0,-31.0934 0/1:89:46,43:46:1648:43:1544:-112.461,0,-121.817 0/1:71:32,39:32:1144:39:1404:-105.286,0,-81.8964 0/1:79:36,43:36:1288:43:1544:-115.454,0,-92.4422 0/1:27:18,9:18:648:9:324:-21.378,0,-50.5241 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:28:8,20:8:284:20:720:-56.6999,0,-17.4745 0/0:89:88,1:88:3156:1:36:0,-23.1934,-280.666 0/1:87:34,53:34:1224:53:1904:-145.448,0,-84.2774 0/1:144:73,71:73:2612:71:2552:-186.582,0,-191.98 0/1:58:43,15:43:1532:15:536:-31.1151,0,-120.713 0/1:46:32,14:32:1148:14:500:-31.4888,0,-89.7825 0/1:125:70,55:70:2508:55:1968:-139.766,0,-188.343 0/1:75:48,27:48:1720:27:972:-65.2207,0,-132.508 0/0:76:76,0:76:2720:0:0:0,-22.8783,-245.043 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 chr06 1280573 . CT CA,AA 8677.27 PASS AB=0.447552,0.548951;ABP=9.8436,8.96287;AC=29,13;AF=0.690476,0.309524;AN=42;AO=263,159;CIGAR=1M1X,2X;DP=423;DPB=423;DPRA=0,1.4;EPP=556.868,348.274;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.7619,2.06667;MQM=59.9354,59.8491;MQMR=0;NS=21;NUMALT=2;ODDS=2.47433;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=9368,5582;QR=0;RO=0;RPL=261,159;RPP=556.868,348.274;RPPR=0;RPR=2,0;RUN=1,1;SAF=0,0;SAP=574.108,348.274;SAR=263,159;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:12:0,12,0:0:0:12,0:428,0:-38.8588,-3.61236,0,-38.8588,-3.61236,-38.8588 1/1:8:0,8,0:0:0:8,0:269,0:-24.5328,-2.40824,0,-24.5328,-2.40824,-24.5328 1/1:36:0,36,0:0:0:36,0:1277,0:-115.231,-10.8371,0,-115.231,-10.8371,-115.231 1/2:15:0,8,7:0:0:8,7:284,250:-43.8744,-20.7371,-18.3289,-23.4932,0,-21.386 1/1:31:0,30,1:0:0:30,1:1068,23:-96.198,-9.0309,0,-94.4332,-7.03202,-94.1321 1/2:17:0,9,8:0:0:9,8:324,275:-49.1203,-22.6749,-19.9657,-26.7966,0,-24.3883 1/2:27:0,13,14:0:0:13,14:464,500:-78.9492,-41.122,-37.2086,-38.1841,0,-33.9697 1/2:36:0,11,25:0:0:11,25:392,878:-103.766,-71.8116,-68.5003,-32.3087,0,-24.783 1/2:45:0,17,28:0:0:17,28:596,981:-128.669,-80.1695,-75.052,-48.8503,0,-40.4214 1/2:8:0,4,4:0:0:4,4:140,133:-22.4928,-11.0935,-9.88935,-11.7405,0,-10.5363 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:11:0,4,7:0:0:4,7:144,250:-32.4855,-20.7348,-19.5307,-12.1095,0,-10.0023 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:14:0,7,6:0:0:7,6:252,216:-38.2606,-17.693,-15.5857,-20.6318,0,-18.8256 1/2:36:0,15,21:0:0:15,21:534,734:-103.583,-60.058,-55.5425,-43.8786,0,-37.557 1/2:9:0,6,3:0:0:6,3:216,108:-26.7966,-9.17208,-7.3659,-17.9843,0,-17.0812 1/2:17:0,8,9:0:0:8,9:288,322:-50.1153,-26.6149,-24.2067,-23.8592,0,-21.1499 1/2:38:0,19,19:0:0:19,19:684,671:-110.81,-54.9959,-49.2764,-56.1708,0,-50.4512 1/2:13:0,7,6:0:0:7,6:252,205:-37.5492,-16.9775,-14.8702,-20.9217,0,-19.1156 1/1:27:0,27,0:0:0:27,0:964,0:-87.0757,-8.12781,0,-87.0757,-8.12781,-87.0757 1/1:12:0,11,1:0:0:11,1:396,36:-35.6229,-3.31133,0,-32.6855,-0.0140851,-32.3845 chr06 1284624 . A T 13693.3 PASS AB=0.609615;ABP=111.551;AC=14;AF=0.333333;AN=42;AO=655;CIGAR=1X;DP=1598;DPB=1598;DPRA=2.23273;EPP=1416.65;EPPR=2050.71;GTI=1;LEN=1;MEANALT=1;MQM=59.9725;MQMR=59.9767;NS=21;NUMALT=1;ODDS=4.00252;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23392;QR=33748;RO=943;RPL=564;RPP=744.722;RPPR=2007.51;RPR=91;RUN=1;SAF=90;SAP=751.008;SAR=565;SRF=5;SRP=2007.51;SRR=938;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:54:51,3:51:1824:3:108:0,-6.18045,-154.366 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/0:96:95,1:95:3396:1:36:0,-25.3006,-302.257 0/1:100:40,60:40:1432:60:2148:-163.484,0,-99.0746 0/0:138:133,5:133:4748:5:180:0,-24.9901,-410.905 0/1:64:27,37:27:972:37:1324:-100.182,0,-68.532 0/1:113:31,82:31:1100:82:2928:-229.739,0,-65.2939 0/1:77:24,53:24:852:53:1877:-146.028,0,-53.8211 0/1:198:74,124:74:2660:124:4425:-338.814,0,-180.041 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:24:7,17:7:248:17:612:-48.1887,0,-15.4395 0/0:80:80,0:80:2852:0:0:0,-24.0824,-256.916 0/1:80:32,48:32:1136:48:1716:-130.643,0,-78.4665 0/1:122:38,84:38:1364:84:3020:-235.304,0,-86.3351 0/1:40:22,18:22:788:18:644:-46.2494,0,-59.199 0/1:31:12,19:12:432:19:680:-52.1972,0,-29.8893 0/1:111:49,62:49:1760:62:2201:-164.939,0,-125.27 0/1:80:50,30:50:1796:30:1061:-71.717,0,-137.84 0/0:98:96,2:96:3452:2:72:0,-22.6642,-304.055 0/0:52:51,1:51:1828:1:36:0,-12.0553,-161.203 chr06 1309711 . A G 37592.5 PASS AB=0.499365;ABP=3.01582;AC=29;AF=0.690476;AN=42;AO=1852;CIGAR=1X;DP=2650;DPB=2650;DPRA=0;EPP=3989.91;EPPR=1733.67;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9968;MQMR=59.9787;NS=21;NUMALT=1;ODDS=4.15589;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65793;QR=28501;RO=797;RPL=1848;RPP=3989.91;RPPR=1733.67;RPR=4;RUN=1;SAF=1852;SAP=4024.58;SAR=0;SRF=797;SRP=1733.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:183:3,180:3:104:180:6416:-567.826,-45.3857,0 1/1:125:1,124:1:36:124:4402:-392.754,-34.0305,0 1/1:126:0,126:0:0:126:4491:-404.36,-37.9298,0 0/1:105:48,57:48:1696:57:2009:-149.473,0,-121.315 1/1:278:1,276:1:36:276:9764:-875.12,-80.1469,0 0/1:134:60,74:60:2152:74:2636:-197.15,0,-153.609 0/1:228:105,123:105:3772:123:4356:-323.58,0,-271.043 0/1:202:108,94:108:3880:94:3360:-241.809,0,-288.585 0/1:234:130,104:130:4635:104:3707:-263.392,0,-346.871 0/1:6:2,4:2:68:4:140:-11.1384,0,-4.65153 1/1:6:0,6:0:0:6:208:-19.0591,-1.80618,0 0/1:38:19,19:19:680:19:668:-49.0065,0,-50.0899 1/1:115:0,115:0:0:115:4115:-370.534,-34.6185,0 0/1:121:71,50:71:2540:50:1779:-123.968,0,-192.426 0/1:184:95,89:95:3387:89:3171:-230.225,0,-249.656 0/1:62:38,24:38:1364:24:845:-57.7041,0,-104.397 0/1:62:30,32:30:1076:32:1132:-83.5247,0,-78.489 0/1:91:44,47:44:1571:47:1672:-123.371,0,-114.287 0/1:107:38,69:38:1360:69:2451:-188.635,0,-90.4728 1/1:165:3,162:3:108:162:5744:-507.003,-39.5948,0 1/1:78:1,77:1:36:77:2727:-242.073,-19.8821,0 chr06 1309729 . T C 11792.2 PASS AB=0.482892;ABP=6.94811;AC=13;AF=0.309524;AN=42;AO=754;CIGAR=1X;DP=2626;DPB=2626;DPRA=1.51111;EPP=1640.3;EPPR=4065.84;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9814;MQMR=59.9968;NS=21;NUMALT=1;ODDS=1.27104;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26217;QR=66683;RO=1871;RPL=754;RPP=1640.3;RPPR=4065.84;RPR=0;RUN=1;SAF=754;SAP=1640.3;SAR=0;SRF=1871;SRP=4065.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:185:183,2:183:6511:2:72:0,-48.8538,-579.237 0/0:124:124,0:124:4428:0:0:0,-37.3277,-398.693 0/0:126:126,0:126:4464:0:0:0,-37.9298,-401.927 0/1:107:60,47:60:2126:47:1647:-116.307,0,-159.397 0/0:278:276,2:276:9827:2:72:0,-76.8496,-877.54 0/1:130:73,57:73:2620:57:2004:-141.497,0,-196.913 0/1:225:126,99:126:4502:99:3393:-237.857,0,-337.616 0/1:200:95,105:95:3399:105:3668:-270.121,0,-245.918 0/1:231:106,125:106:3795:125:4326:-319.982,0,-272.21 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:34:19,15:19:684:15:528:-37.6162,0,-51.6553 0/0:117:117,0:117:4178:0:0:0,-35.2205,-376.202 0/1:121:52,69:52:1823:69:2389:-178.84,0,-127.923 0/1:177:91,85:91:3256:85:2960:-213.293,0,-239.92 0/1:64:24,40:24:864:40:1409:-107.839,0,-58.8166 0/1:64:33,31:33:1163:31:1082:-78.4213,0,-85.7102 0/1:89:48,41:48:1702:41:1400:-99.5008,0,-126.673 0/1:101:69,32:69:2467:32:1123:-70.966,0,-191.879 0/0:164:162,2:162:5771:2:72:0,-42.5322,-512.664 0/0:77:77,0:77:2747:0:0:0,-23.1793,-247.472 chr06 1309734 . TGATT CGATC 17895.3 PASS AB=0.426564;ABP=106.343;AC=13;AF=0.309524;AN=42;AO=946;CIGAR=1X3M1X;DP=3966;DPB=4010.8;DPRA=1.31184;EPP=2057.22;EPPR=6532.63;GTI=1;LEN=5;MEANALT=1.625;MQM=59.9313;MQMR=59.9927;NS=21;NUMALT=1;ODDS=20.7995;PAIRED=0;PAIREDR=0;PAO=221;PQA=7626;PQR=0;PRO=3;QA=32825;QR=105549;RO=3007;RPL=766;RPP=791.25;RPPR=410.297;RPR=180;RUN=1;SAF=766;SAP=791.25;SAR=180;SRF=1879;SRP=410.297;SRR=1128;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:333:331,2:331:11611:2:67:0,-93.8801,-1038.53 0/0:126:126,0:126:4423:0:0:0,-37.9298,-397.89 0/0:272:270,0:270:9499:0:0:0,-81.2781,-854.53 0/1:157:109,47:109:3825:47:1660:-102.377,0,-297.142 0/0:500:499,1:499:17532:1:35:0,-147.016,-1574.05 0/1:135:77,58:77:2697:58:2002:-139.469,0,-201.992 0/1:228:126,102:126:4385:102:3526:-248.585,0,-325.856 0/1:203:96,107:96:3374:107:3647:-266.987,0,-242.417 0/1:472:236,235:236:8311:235:8200:-595.944,0,-605.934 0/1:6:4,2:4:136:2:71:-4.93588,0,-10.769 0/0:6:6,0:6:210:0:0:0,-1.80618,-19.2419 0/1:37:18,18:18:625:18:641:-46.8238,0,-45.3792 0/0:282:282,0:282:9901:0:0:0,-84.8905,-891.055 0/1:192:122,69:122:4263:69:2360:-154.843,0,-326.043 0/1:257:170,87:170:5976:87:3049:-196.931,0,-460.245 0/1:139:62,75:62:2187:75:2605:-193.136,0,-155.534 0/1:134:67,65:67:2344:65:2249:-162.567,0,-171.148 0/1:94:51,42:51:1780:42:1442:-101.724,0,-132.13 0/1:152:117,34:117:4148:34:1199:-62.5137,0,-327.833 0/0:164:161,2:161:5614:2:72:0,-42.591,-498.56 0/0:77:77,0:77:2708:0:0:0,-23.1793,-243.966 chr06 1309993 . A G 12697.1 PASS AB=0.466384;ABP=19.2155;AC=13;AF=0.309524;AN=42;AO=777;CIGAR=1X;DP=2765;DPB=2765;DPRA=1.35236;EPP=1690.24;EPPR=4319.9;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=15.8816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27419;QR=70977;RO=1988;RPL=8;RPP=1621.47;RPPR=3921.31;RPR=769;RUN=1;SAF=8;SAP=1621.47;SAR=769;SRF=47;SRP=3921.31;SRR=1941;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:158:158,0:158:5617:0:0:0,-47.5627,-505.652 0/0:126:126,0:126:4483:0:0:0,-37.9298,-403.639 0/0:163:163,0:163:5848:0:0:0,-49.0679,-526.43 0/1:161:84,77:84:3004:77:2727:-197.206,0,-222.126 0/0:302:299,3:299:10691:3:104:0,-81.2082,-952.397 0/1:53:27,26:27:968:26:906:-65.8989,0,-71.4828 0/1:218:112,106:112:3991:106:3712:-268.658,0,-293.754 0/1:86:33,53:33:1184:53:1871:-142.777,0,-80.9797 0/1:185:95,90:95:3399:90:3197:-232.264,0,-250.434 0/1:21:14,7:14:504:7:252:-16.7073,0,-39.3765 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:43:18,25:18:644:25:896:-68.0161,0,-45.3463 0/0:155:152,3:152:5444:3:108:0,-36.5845,-480.013 0/1:171:83,88:83:2980:88:3096:-227.39,0,-216.956 0/1:210:111,99:111:3968:99:3509:-252.805,0,-294.095 0/1:139:80,59:80:2852:59:2072:-144.905,0,-215.073 0/1:129:69,60:69:2449:60:2089:-149.444,0,-181.831 0/1:75:44,31:44:1559:31:1116:-78.1744,0,-118.024 0/1:160:111,49:111:3933:49:1728:-107.639,0,-306 0/0:138:137,1:137:4892:1:36:0,-37.9439,-436.833 0/0:61:61,0:61:2175:0:0:0,-18.3628,-196.016 chr06 1332776 . G A 17981.2 PASS AB=0.519645;ABP=5.65515;AC=29;AF=0.690476;AN=42;AO=910;CIGAR=1X;DP=1291;DPB=1291;DPRA=0;EPP=1979.05;EPPR=828.17;GTI=0;LEN=1;MEANALT=1.04762;MQM=45.7253;MQMR=58.9395;NS=21;NUMALT=1;ODDS=10.729;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32536;QR=13424;RO=380;RPL=910;RPP=1979.05;RPPR=828.17;RPR=0;RUN=1;SAF=910;SAP=1979.05;SAR=0;SRF=380;SRP=828.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:2,84:2:72:84:3004:-259.46,-19.0519,0 1/1:26:0,26:0:0:26:932:-82.8949,-7.82678,0 1/1:51:0,51:0:0:51:1828:-163.416,-15.3525,0 0/1:45:15,30:15:531:30:1080:-82.7247,0,-34.5756 1/1:165:0,165:0:0:165:5883:-521.509,-49.67,0 0/1:53:30,23:30:1072:23:828:-57.2595,0,-80.763 0/1:95:44,51:44:1548:51:1805:-131.154,0,-110.233 0/1:106:54,52:54:1924:52:1868:-132.649,0,-141.468 0/1:122:47,75:47:1657:75:2667:-200.568,0,-112.062 0/1:7:4,3:4:144:3:108:-6.90654,0,-11.2064 1/1:6:0,6:0:0:6:216:-18.8336,-1.80618,0 0/1:31:12,19:12:417:19:675:-50.7729,0,-28.4812 1/1:52:0,52:0:0:52:1864:-165.843,-15.6536,0 0/1:62:28,34:28:991:34:1220:-89.4158,0,-70.7594 0/1:67:34,32:34:1191:32:1152:-82.0842,0,-87.1981 0/1:31:12,19:12:432:19:680:-51.2643,0,-29.8893 0/1:18:13,5:13:464:5:180:-10.5921,0,-36.5722 0/1:102:65,37:65:2265:37:1318:-85.1865,0,-172.42 0/1:50:20,30:20:716:30:1072:-80.1213,0,-49.7162 1/1:56:0,56:0:0:56:2016:-178.598,-16.8577,0 1/1:60:0,60:0:0:60:2140:-188.165,-18.0618,0 chr06 1332838 . TTAA ATAA 23394.3 PASS AB=0.483378;ABP=5.68123;AC=29;AF=0.690476;AN=42;AO=1154;CIGAR=1X3M;DP=1733;DPB=1733;DPRA=0;EPP=2474.27;EPPR=1238.59;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.5719;MQMR=59.9442;NS=21;NUMALT=1;ODDS=4.14707;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41256;QR=19968;RO=573;RPL=4;RPP=2474.27;RPPR=1238.59;RPR=1150;RUN=1;SAF=0;SAP=2508.89;SAR=1154;SRF=0;SRP=1247.26;SRR=573;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88:0:0:88:3114:-280.477,-26.4906,0 1/1:87:0,86:0:0:86:3062:-275.157,-25.8886,0 1/1:99:0,99:0:0:99:3542:-318.871,-29.802,0 0/1:111:63,47:63:2209:47:1688:-118.695,0,-165.608 1/1:155:0,155:0:0:155:5555:-499.998,-46.6597,0 0/1:47:32,15:32:1116:15:540:-34.7881,0,-86.5986 0/1:135:64,71:64:2220:71:2533:-187.581,0,-159.266 0/1:104:67,37:67:2328:37:1323:-88.025,0,-178.472 0/1:104:45,59:45:1581:59:2124:-159.999,0,-111.272 0/1:12:4,8:4:138:8:288:-22.6189,0,-9.14745 1/1:5:0,5:0:0:5:175:-16.0524,-1.50515,0 0/1:31:12,19:12:417:19:684:-52.5584,0,-28.5301 1/1:49:0,49:0:0:49:1764:-159.042,-14.7505,0 0/1:147:75,72:75:2603:72:2580:-188.193,0,-190.268 0/1:160:82,78:82:2855:78:2803:-204.053,0,-209.027 0/1:55:30,25:30:1058:25:896:-64.4037,0,-78.974 0/1:108:54,54:54:1880:54:1927:-141.186,0,-136.967 0/1:57:31,26:31:1070:26:936:-67.4008,0,-79.4474 0/1:42:14,27:14:493:27:972:-74.9756,0,-32.0012 1/1:79:0,79:0:0:79:2809:-253.019,-23.7814,0 1/1:58:0,55:0:0:55:1941:-174.652,-16.5567,0 chr06 1332865 . C T 23457.7 PASS AB=0.492806;ABP=3.51021;AC=29;AF=0.690476;AN=42;AO=1174;CIGAR=1X;DP=1738;DPB=1738;DPRA=0;EPP=2552.32;EPPR=1225.55;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.437;MQMR=60;NS=21;NUMALT=1;ODDS=5.58997;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41761;QR=20088;RO=563;RPL=1174;RPP=2552.32;RPPR=1225.55;RPR=0;RUN=1;SAF=0;SAP=2552.32;SAR=1174;SRF=0;SRP=1225.55;SRR=563;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88:0:0:88:3114:-280.48,-26.4906,0 1/1:90:0,90:0:0:90:3213:-288.752,-27.0927,0 1/1:100:0,100:0:0:100:3561:-320.558,-30.103,0 0/1:111:62,49:62:2224:49:1760:-125.169,0,-167.01 1/1:158:0,158:0:0:158:5617:-505.579,-47.5627,0 0/1:48:33,15:33:1165:15:532:-33.7636,0,-90.7056 0/1:131:61,70:61:2169:70:2512:-186.897,0,-156.04 0/1:103:66,37:66:2348:37:1290:-85.3862,0,-180.574 0/1:105:45,60:45:1620:60:2114:-158.756,0,-114.482 0/1:12:4,8:4:144:8:288:-22.6189,0,-9.70126 1/1:5:0,5:0:0:5:180:-16.4868,-1.50515,0 0/1:31:12,19:12:432:19:672:-51.4749,0,-29.8893 1/1:47:0,47:0:0:47:1653:-149.054,-14.1484,0 0/1:148:73,75:73:2598:75:2676:-196.436,0,-189.515 0/1:160:80,80:80:2864:80:2822:-205.729,0,-209.833 0/1:56:30,26:30:1072:26:932:-67.3412,0,-79.9348 0/1:108:53,54:53:1881:54:1925:-140.918,0,-136.997 0/1:57:30,27:30:1076:27:968:-70.268,0,-79.9941 0/1:42:14,28:14:495:28:1008:-78.2728,0,-32.2398 1/1:78:0,78:0:0:78:2768:-249.331,-23.4803,0 1/1:60:0,60:0:0:60:2156:-194.127,-18.0618,0 chr06 1353692 . T G,C 36546.3 PASS AB=0.512639,0.485339;ABP=4.38257,4.85682;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1252,483;CIGAR=1X,1X;DP=1738;DPB=1738;DPRA=0,1.40571;EPP=2721.69,1051.83;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.80952,2.13333;MQM=59.9569,60;MQMR=60;NS=21;NUMALT=2;ODDS=3.28903;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44505,17114;QR=36;RO=1;RPL=1252,483;RPP=2721.69,1051.83;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2721.69,1051.83;SAR=1252,483;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:143:0,142,1:0:0:142,1:5039,36:-452.926,-42.7463,0,-449.989,-39.449,-449.688 1/1:117:0,117,0:0:0:117,0:4150,0:-373.683,-35.2205,0,-373.683,-35.2205,-373.683 1/1:102:0,102,0:0:0:102,0:3646,0:-328.345,-30.7051,0,-328.345,-30.7051,-328.345 1/2:95:0,53,42:0:0:53,42:1899,1504:-277.886,-123.011,-107.057,-155.233,0,-142.589 1/1:221:0,219,2:0:0:219,2:7807,72:-702.299,-65.9256,0,-696.424,-59.6909,-695.822 1/2:80:0,35,45:0:0:35,45:1244,1576:-229.956,-128.581,-118.045,-101.728,0,-88.1817 1/2:86:0,34,52:0:0:34,52:1200,1844:-248.304,-150.587,-140.352,-98.0706,0,-82.417 1/2:45:0,23,22:0:0:23,22:824,779:-131.013,-63.8094,-56.8857,-67.5596,0,-60.937 1/2:164:0,84,80:0:0:84,80:2986,2819:-473.199,-229.865,-204.579,-243.687,0,-219.605 1/2:6:0,5,1:0:0:5,1:180,32:-17.6186,-2.89828,-1.39313,-15.0469,0,-14.7459 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:9:0,7,2:0:0:7,2:252,72:-26.7966,-6.23466,-4.12745,-20.9217,0,-20.3197 1/1:71:1,70,0:1:36:70,0:2467,0:-218.685,-17.7749,0,-218.986,-21.0721,-221.923 1/2:86:0,50,36:0:0:50,36:1743,1271:-245.601,-103.855,-88.8035,-142.097,0,-131.26 1/2:120:0,57,63:0:0:57,63:2026,2246:-348.528,-183.437,-166.278,-165.447,0,-146.482 1/2:101:0,59,42:0:0:59,42:2098,1500:-293.624,-122.651,-104.891,-171.329,0,-158.686 1/2:84:0,40,43:0:0:40,43:1424,1535:-241.198,-125.138,-113.097,-116.057,0,-103.112 1/2:64:0,33,31:0:0:33,31:1176,1112:-186.915,-91.0594,-81.1254,-96.2134,0,-86.8814 1/2:49:0,27,21:0:0:27,21:964,716:-136.675,-58.0742,-49.9464,-78.5893,0,-72.2677 1/1:48:0,48,0:0:0:48,0:1709,0:-154.095,-14.4494,0,-154.095,-14.4494,-154.095 1/1:41:0,41,0:0:0:41,0:1455,0:-131.245,-12.3422,0,-131.245,-12.3422,-131.245 chr06 1387453 . CTTC TTTT,TTTC 19828.2 PASS AB=0.527869,0.470492;ABP=7.12542,7.62379;AC=28,14;AF=0.666667,0.333333;AN=42;AO=668,294;CIGAR=1X2M1X,1X3M;DP=963;DPB=963;DPRA=11.9875,1.83953;EPP=1453.55,632.767;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.75,2;MQM=59.9656,59.8946;MQMR=0;NS=21;NUMALT=2;ODDS=6.79257;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23491,10444;QR=0;RO=0;RPL=0,1;RPP=1453.55,632.767;RPPR=0;RPR=668,293;RUN=1,1;SAF=0,0;SAP=1453.55,641.423;SAR=668,294;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,69,1:0:0:69,1:2428,36:-218.411,-20.7711,0,-215.473,-17.4738,-215.172 1/1:29:0,29,0:0:0:29,0:1022,0:-92.2924,-8.72987,0,-92.2924,-8.72987,-92.2924 1/1:23:0,23,0:0:0:23,0:819,0:-74.0323,-6.92369,0,-74.0323,-6.92369,-74.0323 1/2:38:0,23,15:0:0:23,15:797,521:-107.474,-42.7009,-35.7772,-65.1201,0,-60.6046 1/1:107:0,105,2:0:0:105,2:3694,72:-332.307,-31.6082,0,-326.432,-25.3735,-325.83 1/2:19:0,11,8:0:0:11,8:383,273:-53.64,-22.4919,-19.1806,-31.492,0,-29.0838 1/2:54:0,31,23:0:0:31,23:1083,813:-154.659,-66.5654,-57.2335,-88.4454,0,-81.5217 1/2:25:0,14,11:0:0:14,11:492,351:-68.6493,-28.5851,-24.3706,-40.3974,0,-37.0861 1/2:124:0,71,53:0:0:71,53:2488,1908:-358.487,-156.043,-134.67,-202.8,0,-186.846 1/2:10:0,1,9:0:0:1,9:36,324:-29.734,-26.7966,-26.4956,-3.29724,0,-0.587975 1/1:4:0,4,0:0:0:4,0:139,0:-12.8524,-1.20412,0,-12.8524,-1.20412,-12.8524 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/1:43:0,43,0:0:0:43,0:1515,0:-136.642,-12.9443,0,-136.642,-12.9443,-136.642 1/2:36:0,12,23:0:0:12,23:417,824:-101.195,-67.2956,-63.6832,-33.9827,0,-27.059 1/2:103:0,57,46:0:0:57,46:1986,1648:-296.262,-134.761,-117.602,-161.854,0,-148.007 1/2:34:0,10,24:0:0:10,24:354,850:-98.3579,-69.5225,-66.5122,-29.1892,0,-21.9645 1/2:38:0,19,19:0:0:19,19:658,676:-108.919,-55.4484,-49.7289,-53.8219,0,-48.1023 1/2:82:0,44,38:0:0:44,38:1546,1356:-236.732,-110.901,-97.656,-126.185,0,-114.746 1/2:47:0,29,18:0:0:29,18:1023,648:-136.528,-53.2333,-44.5035,-83.6518,0,-78.2332 1/1:39:0,39,0:0:0:39,0:1393,0:-125.669,-11.7402,0,-125.669,-11.7402,-125.669 1/1:34:0,34,0:0:0:34,0:1218,0:-109.927,-10.235,0,-109.927,-10.235,-109.927 chr06 1412803 . G A 20997.2 PASS AB=0.507553;ABP=3.50233;AC=29;AF=0.690476;AN=42;AO=1047;CIGAR=1X;DP=1541;DPB=1541;DPRA=0;EPP=2276.54;EPPR=1075.72;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.31051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37468;QR=17600;RO=494;RPL=0;RPP=2276.54;RPPR=1075.72;RPR=1047;RUN=1;SAF=1047;SAP=2276.54;SAR=0;SRF=494;SRP=1075.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:1,73:1:36:73:2597:-230.379,-18.6779,0 1/1:61:0,61:0:0:61:2188:-197.186,-18.3628,0 1/1:78:0,78:0:0:78:2804:-252.599,-23.4803,0 0/1:135:71,64:71:2513:64:2296:-166.262,0,-185.783 1/1:164:3,161:3:108:161:5749:-507.452,-39.2938,0 0/1:71:45,26:45:1608:26:924:-62.1045,0,-123.637 0/1:100:57,43:57:2020:43:1540:-108.79,0,-151.97 0/1:67:32,35:32:1148:35:1252:-92.8161,0,-83.4608 0/1:147:59,88:59:2108:88:3145:-239.023,0,-145.738 0/1:13:6,7:6:212:7:252:-19.1156,0,-15.5114 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:36:22,14:22:788:14:496:-34.1372,0,-60.4077 1/1:70:0,70:0:0:70:2501:-225.341,-21.0721,0 0/1:79:40,39:40:1428:39:1396:-102.158,0,-105.036 0/1:55:19,36:19:684:36:1292:-100.027,0,-45.3337 0/1:62:30,32:30:1068:32:1152:-85.3263,0,-77.7682 0/1:80:37,43:37:1317:43:1536:-114.451,0,-94.7474 0/1:96:50,46:50:1779:46:1640:-118.989,0,-131.493 0/1:52:21,31:21:747:31:1116:-85.0981,0,-51.9007 1/1:61:0,61:0:0:61:2188:-197.186,-18.3628,0 1/1:34:1,33:1:36:33:1188:-103.63,-6.63675,0 chr06 1431862 . G A 15300.2 PASS AB=0.581584;ABP=88.4005;AC=13;AF=0.309524;AN=42;AO=868;CIGAR=1X;DP=2150;DPB=2150;DPRA=1.82044;EPP=1853.26;EPPR=2717.78;GTI=1;LEN=1;MEANALT=1;MQM=59.9574;MQMR=59.922;NS=21;NUMALT=1;ODDS=3.97356;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31014;QR=45837;RO=1282;RPL=864;RPP=1853.26;RPPR=2717.78;RPR=4;RUN=1;SAF=0;SAP=1887.85;SAR=868;SRF=0;SRP=2786.84;SRR=1282;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:107:107,0:107:3824:0:0:0,-32.2102,-344.298 0/0:51:51,0:51:1813:0:0:0,-15.3525,-163.45 0/0:96:95,1:95:3400:1:36:0,-25.3006,-302.614 0/1:115:48,67:48:1720:67:2408:-182.13,0,-120.467 0/0:146:139,7:139:4948:7:252:0,-20.9214,-422.441 0/1:75:28,47:28:989:47:1679:-128.819,0,-66.7448 0/1:139:58,81:58:2084:81:2908:-220.112,0,-145.987 0/1:153:58,95:58:2080:95:3408:-260.876,0,-141.413 0/1:192:74,118:74:2656:118:4214:-321.639,0,-181.488 0/1:7:3,4:3:89:4:144:-11.2064,0,-6.19715 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:29:13,16:13:464:16:576:-43.4451,0,-33.3676 0/0:97:97,0:97:3480:0:0:0,-29.1999,-313.411 0/1:104:35,69:35:1251:69:2446:-189.085,0,-81.5872 0/1:303:137,166:137:4896:166:5953:-444.648,0,-349.566 0/1:112:43,69:43:1540:69:2460:-187.937,0,-105.178 0/1:101:40,61:40:1440:61:2130:-161.559,0,-99.4937 0/1:79:36,43:36:1296:43:1536:-114.752,0,-93.1626 0/1:68:45,23:45:1607:23:828:-54.3741,0,-124.449 0/0:116:115,1:115:4108:1:36:0,-31.3212,-365.607 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.199 chr06 1457390 . T G 23105.8 PASS AB=0.268083;ABP=1146.18;AC=28;AF=0.666667;AN=42;AO=1392;CIGAR=1X;DP=3202;DPB=3202;DPRA=26.6333;EPP=3025.7;EPPR=3929.03;GTI=3;LEN=1;MEANALT=1.1;MQM=60;MQMR=41.4585;NS=21;NUMALT=1;ODDS=0.739307;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49442;QR=64617;RO=1808;RPL=1392;RPP=3025.7;RPPR=172.808;RPR=0;RUN=1;SAF=1392;SAP=3025.7;SAR=0;SRF=716;SRP=172.808;SRR=1092;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:132:2,130:2:72:130:4612:-409.731,-34.2207,0 1/1:85:0,84:0:0:84:3020:-271.67,-25.2865,0 1/1:87:2,84:2:72:84:2984:-263.254,-20.71,0 0/1:234:170,64:170:6100:64:2279:-134.931,0,-408.647 1/1:145:4,141:4:144:141:5006:-439.948,-32.9091,0 0/1:163:111,52:111:3961:52:1856:-118.252,0,-245.974 0/1:311:233,78:233:8290:78:2771:-156.012,0,-557.582 0/1:238:185,53:185:6592:53:1879:-97.743,0,-425.013 0/1:378:280,98:280:10025:98:3455:-197.375,0,-682.231 0/0:6:6,0:6:216:0:0:0,-1.80618,-16.6296 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:45:31,14:31:1112:14:500:-31.7898,0,-64.3906 1/1:92:0,92:0:0:92:3288:-296.14,-27.6948,0 0/1:164:126,38:126:4511:38:1356:-72.9716,0,-303.678 0/1:341:261,80:261:9337:80:2824:-151.747,0,-646.653 0/1:204:146,58:146:5199:58:2059:-124.171,0,-364.909 0/1:151:106,45:106:3804:45:1595:-98.384,0,-263.828 0/1:96:70,26:70:2512:26:924:-54.5788,0,-173.425 0/1:122:72,50:72:2580:50:1796:-125.197,0,-164.336 1/1:132:0,132:0:0:132:4650:-418.667,-39.736,0 1/1:70:3,67:3:90:67:2372:-205.341,-12.6741,0 chr06 1459305 . C G 13202.3 PASS AB=0.425727;ABP=96.8758;AC=13;AF=0.309524;AN=42;AO=838;CIGAR=1X;DP=3088;DPB=3088;DPRA=1.42452;EPP=1822.7;EPPR=4875.8;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9773;MQMR=59.9924;NS=21;NUMALT=1;ODDS=4.16002;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29975;QR=80166;RO=2248;RPL=838;RPP=1822.7;RPPR=4875.8;RPR=0;RUN=1;SAF=0;SAP=1822.7;SAR=838;SRF=0;SRP=4884.48;SRR=2248;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:196:195,1:195:6917:1:36:0,-55.4036,-618.998 0/0:125:125,0:125:4477:0:0:0,-37.6287,-403.097 0/0:118:118,0:118:4206:0:0:0,-35.5215,-378.719 0/1:164:89,75:89:3187:75:2688:-192.796,0,-237.684 0/0:256:253,3:253:8985:3:97:0,-68.0236,-799.591 0/1:219:99,120:99:3548:120:4288:-320.171,0,-253.601 0/1:210:108,102:108:3834:102:3651:-265.577,0,-282.039 0/1:165:91,74:91:3233:74:2632:-187.458,0,-241.522 0/1:334:234,100:234:8358:100:3584:-222.223,0,-651.664 0/1:17:12,5:12:432:5:180:-11.4346,0,-34.1037 0/0:8:8,0:8:269:0:0:0,-2.40824,-24.5361 0/1:56:36,20:36:1273:20:720:-48.2711,0,-98.0132 0/0:180:180,0:180:6425:0:0:0,-54.1854,-578.338 0/1:209:145,64:145:5204:64:2288:-143.266,0,-405.582 0/1:175:96,79:96:3421:79:2823:-201.628,0,-255.423 0/1:131:62,69:62:2220:69:2476:-183.658,0,-160.63 0/1:128:67,61:67:2389:61:2184:-158.294,0,-176.734 0/1:72:37,34:37:1328:34:1224:-88.7341,0,-98.0893 0/1:79:48,31:48:1724:31:1104:-75.8886,0,-131.664 0/0:177:176,0:176:6256:0:0:0,-52.9813,-562.773 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.453 chr06 1459314 . G C 46028.4 PASS AB=0.57528;ABP=99.7833;AC=29;AF=0.690476;AN=42;AO=2256;CIGAR=1X;DP=3099;DPB=3099;DPRA=0;EPP=4893.17;EPPR=1827.05;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9907;MQMR=59.9774;NS=21;NUMALT=1;ODDS=3.97744;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80671;QR=30137;RO=840;RPL=2255;RPP=4893.17;RPPR=1827.05;RPR=1;RUN=1;SAF=0;SAP=4901.85;SAR=2256;SRF=0;SRP=1827.05;SRR=840;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:200:1,199:1:36:199:7148:-639.776,-56.6077,0 1/1:130:0,129:0:0:129:4627:-416.272,-38.8329,0 1/1:117:0,115:0:0:115:4117:-370.353,-34.6185,0 0/1:162:74,88:74:2652:88:3126:-232.798,0,-190.159 1/1:260:3,257:3:104:257:9164:-815.075,-68.6124,0 0/1:217:118,99:118:4228:99:3541:-253.572,0,-315.376 0/1:212:103,109:103:3696:109:3912:-288.454,0,-269.023 0/1:164:70,94:70:2512:94:3357:-252.976,0,-176.963 0/1:331:101,230:101:3628:230:8256:-643.389,0,-227.083 0/1:17:5,12:5:180:12:432:-34.1037,0,-11.4346 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:56:20,36:20:720:36:1281:-98.7345,0,-48.2711 1/1:179:0,179:0:0:179:6424:-578.243,-53.8844,0 0/1:211:64,147:64:2300:147:5239:-408.129,0,-143.743 0/1:177:81,96:81:2893:96:3408:-253.652,0,-207.322 0/1:132:70,62:70:2516:62:2228:-161.048,0,-186.956 0/1:132:61,71:61:2192:71:2517:-187.045,0,-157.809 0/1:74:36,38:36:1292:38:1360:-100.424,0,-94.3075 0/1:81:32,49:32:1152:49:1756:-133.941,0,-79.6067 1/1:174:0,174:0:0:174:6213:-559.267,-52.3792,0 1/1:66:1,65:1:36:65:2317:-205.19,-16.2697,0 chr06 1470789 . TT CC,CT 67729.2 PASS AB=0.515015,0.480981;ABP=6.92286,9.28779;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2265,967;CIGAR=2X,1X1M;DP=3245;DPB=3245;DPRA=0,1.36119;EPP=4921.4,2102.82;EPPR=9.52472;GTI=0;LEN=2,1;MEANALT=2.19048,2.53333;MQM=59.9885,59.9835;MQMR=60;NS=21;NUMALT=2;ODDS=19.9248;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80170,34641;QR=100;RO=3;RPL=0,0;RPP=4921.4,2102.82;RPPR=9.52472;RPR=2265,967;RUN=1,1;SAF=2265,967;SAP=4921.4,2102.82;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:213:0,213,0:0:0:213,0:7567,0:-681.072,-64.1194,0,-681.072,-64.1194,-681.072 1/1:118:0,118,0:0:0:118,0:4148,0:-373.5,-35.5215,0,-373.5,-35.5215,-373.5 1/1:132:0,131,0:0:0:131,0:4645,0:-417.963,-39.4349,0,-417.963,-39.4349,-417.963 1/2:221:0,122,99:0:0:122,99:4314,3540:-640.364,-289.007,-252.281,-351.713,0,-321.911 1/1:282:1,275,4:1:36:275,4:9759,144:-874.68,-79.8434,0,-863.231,-71.0143,-864.965 1/2:244:2,98,143:2:64:98,143:3453,5116:-692.568,-412.045,-387.699,-275.991,0,-238.099 1/2:247:0,131,114:0:0:131,114:4633,4084:-710.422,-333.078,-293.643,-377.35,0,-343.032 1/2:151:0,77,73:0:0:77,73:2732,2624:-436.768,-214.18,-191.001,-222.692,0,-200.717 1/2:307:0,143,164:0:0:143,164:5119,5872:-896.668,-479.222,-436.175,-417.804,0,-368.435 1/2:16:0,8,8:0:0:8,8:277,288:-46.3631,-23.8592,-21.4509,-22.8569,0,-20.4486 1/1:13:0,13,0:0:0:13,0:466,0:-42.2787,-3.91339,0,-42.2787,-3.91339,-42.2787 1/2:55:0,27,28:0:0:27,28:972,1004:-161.558,-82.247,-74.1192,-79.6701,0,-71.2413 1/1:209:0,208,0:0:0:208,0:7341,0:-660.384,-62.6142,0,-660.384,-62.6142,-660.384 1/2:214:0,107,106:0:0:107,106:3767,3804:-616.951,-310.288,-278.078,-306.659,0,-274.75 1/2:211:0,108,102:0:0:108,102:3820,3664:-610.027,-298.898,-266.386,-311.126,0,-280.421 1/2:109:0,68,41:0:0:68,41:2423,1453:-316.223,-118.722,-98.2517,-197.856,0,-185.514 1/2:100:0,59,41:0:0:59,41:2062,1472:-288.109,-120.378,-102.617,-168.086,0,-155.744 1/2:53:0,33,20:0:0:33,20:1160,716:-153.162,-58.7471,-48.8131,-94.7707,0,-88.7501 1/2:70:0,48,22:0:0:48,22:1706,788:-203.64,-64.6221,-50.1727,-139.375,0,-132.753 1/1:228:0,226,2:0:0:226,2:8006,72:-720.204,-68.0328,0,-714.329,-61.7981,-713.727 1/1:52:0,52,0:0:0:52,0:1800,0:-162.276,-15.6536,0,-162.276,-15.6536,-162.276 chr06 1470799 . T C 16136.4 PASS AB=0.48554;ABP=6.58976;AC=13;AF=0.309524;AN=42;AO=963;CIGAR=1X;DP=3213;DPB=3213;DPRA=1.35334;EPP=2094.14;EPPR=4877.97;GTI=0;LEN=1;MEANALT=1.26667;MQM=59.9834;MQMR=59.9697;NS=21;NUMALT=1;ODDS=19.5194;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34540;QR=80151;RO=2245;RPL=0;RPP=2094.14;RPPR=4877.97;RPR=963;RUN=1;SAF=963;SAP=2094.14;SAR=0;SRF=2245;SRP=4877.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:209:209,0:209:7428:0:0:0,-62.9153,-668.565 0/0:119:119,0:119:4246:0:0:0,-35.8226,-382.312 0/0:131:131,0:131:4708:0:0:0,-39.4349,-423.878 0/1:219:121,96:121:4318:96:3443:-244.545,0,-322.321 0/0:283:278,4:278:9896:4:144:0,-71.8168,-877.212 0/1:237:93,143:93:3332:143:5148:-392.204,0,-228.843 0/1:242:126,116:126:4504:116:4163:-302.002,0,-332.677 0/1:149:75,74:75:2684:74:2660:-194.792,0,-196.952 0/1:308:146,162:146:5206:162:5811:-430.384,0,-375.96 0/1:16:8,8:8:288:8:288:-21.4509,0,-21.4509 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:53:24,28:24:856:28:1004:-74.6625,0,-61.3479 0/0:208:208,0:208:7429:0:0:0,-62.6142,-668.653 0/1:205:104,101:104:3732:101:3617:-264.023,0,-274.367 0/1:211:109,102:109:3904:102:3638:-264.107,0,-288.036 0/1:110:67,43:67:2408:43:1540:-105.78,0,-183.863 0/1:98:57,41:57:2021:41:1468:-102.892,0,-152.66 0/1:53:33,20:33:1184:20:720:-49.1742,0,-90.9137 0/1:70:47,23:47:1680:23:824:-53.4112,0,-130.415 0/0:226:224,2:224:7971:2:72:0,-61.1961,-710.577 0/0:53:53,0:53:1888:0:0:0,-15.9546,-170.198 chr06 1478344 . TCG ACG,ACA 45377.3 PASS AB=0.492333,0.502018;ABP=3.64299,3.05411;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1511,624;CIGAR=1X2M,1X1M1X;DP=2143;DPB=2143;DPRA=0,0.864307;EPP=3284.11,1358.01;EPPR=0;GTI=1;LEN=1,3;MEANALT=2.09524,2.46667;MQM=60,59.9407;MQMR=0;NS=21;NUMALT=2;ODDS=4.78187;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54041,22171;QR=0;RO=0;RPL=0,0;RPP=3284.11,1358.01;RPPR=0;RPR=1511,624;RUN=1,1;SAF=1511,624;SAP=3284.11,1358.01;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:0,127,0:0:0:127,0:4519,0:-406.876,-38.2308,0,-406.876,-38.2308,-406.876 1/1:97:0,96,1:0:0:96,1:3418,36:-307.472,-28.8989,0,-304.534,-25.6016,-304.233 1/1:129:0,128,1:0:0:128,1:4582,36:-412.183,-38.5318,0,-409.246,-35.2346,-408.945 1/2:66:0,32,34:0:0:32,34:1152,1196:-191.711,-97.7094,-88.0764,-94.3572,0,-84.1222 1/1:247:0,247,0:0:0:247,0:8858,0:-797.199,-74.3544,0,-797.199,-74.3544,-797.199 1/2:93:0,50,42:0:0:50,42:1792,1495:-268.164,-122.008,-106.957,-146.319,0,-133.676 1/2:176:0,90,86:0:0:90,86:3197,3038:-508.265,-247.761,-220.668,-260.859,0,-234.97 1/2:104:0,49,55:0:0:49,55:1751,1942:-301.266,-158.498,-143.747,-143.123,0,-126.566 1/2:208:0,100,108:0:0:100,108:3582,3871:-608.2,-316.074,-285.971,-292.484,0,-259.972 1/2:10:0,9,1:0:0:9,1:324,36:-29.734,-3.29724,-0.587975,-26.7966,0,-26.4956 1/1:11:0,11,0:0:0:11,0:381,0:-34.6206,-3.31133,0,-34.6206,-3.31133,-34.6206 1/2:27:0,15,12:0:0:15,12:540,425:-79.0394,-34.9749,-30.4595,-44.4211,0,-40.8087 1/1:159:0,159,0:0:0:159,0:5691,0:-512.308,-47.8638,0,-512.308,-47.8638,-512.308 1/2:123:0,50,70:0:0:50,70:1781,2485:-347.685,-202.52,-187.469,-145.207,0,-124.135 1/2:210:0,100,108:0:0:100,108:3596,3833:-605.666,-312.281,-282.178,-293.382,0,-260.871 1/2:78:0,49,29:0:0:49,29:1748,1033:-227.051,-84.5539,-69.8035,-142.854,0,-134.124 1/2:57:0,22,35:0:0:22,35:773,1245:-164.732,-101.818,-95.195,-63.2668,0,-52.7308 1/2:56:0,24,31:0:0:24,31:860,1106:-160.298,-90.1587,-82.934,-70.1374,0,-60.8054 1/2:31:0,20,11:0:0:20,11:720,394:-91.2397,-32.4902,-26.4696,-59.1082,0,-55.7968 1/1:101:0,100,0:0:0:100,0:3588,0:-322.766,-30.103,0,-322.766,-30.103,-322.766 1/1:33:0,33,0:0:0:33,0:1188,0:-107.229,-9.93399,0,-107.229,-9.93399,-107.229 chr06 1478550 . GG AA,GA 36222.5 PASS AB=0.458834,0.538593;ABP=20.1735,18.0951;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1111,633;CIGAR=2X,1M1X;DP=1748;DPB=1748;DPRA=0,1.83387;EPP=2415.52,1377.55;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.85714,2.2;MQM=59.6112,59.981;MQMR=0;NS=21;NUMALT=2;ODDS=1.33479;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39307,22711;QR=0;RO=0;RPL=1111,633;RPP=2415.52,1377.55;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2415.52,1377.55;SAR=1111,633;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:84:0,84,0:0:0:84,0:2993,0:-269.558,-25.2865,0,-269.558,-25.2865,-269.558 1/1:49:0,49,0:0:0:49,0:1740,0:-156.77,-14.7505,0,-156.77,-14.7505,-156.77 1/1:60:0,60,0:0:0:60,0:2106,0:-189.796,-18.0618,0,-189.796,-18.0618,-189.796 1/2:109:0,49,60:0:0:49,60:1716,2152:-315.501,-175.885,-161.135,-139.969,0,-121.907 1/1:197:0,192,4:0:0:192,4:6788,144:-610.611,-57.7978,0,-598.861,-45.9842,-597.657 1/2:50:0,21,29:0:0:21,29:754,1036:-146.331,-84.824,-78.5024,-61.8652,0,-53.1353 1/2:135:0,69,66:0:0:69,66:2418,2368:-390.15,-193.51,-172.739,-196.994,0,-177.126 1/2:145:0,67,78:0:0:67,78:2366,2800:-421.426,-228.759,-208.59,-193.022,0,-169.542 1/2:184:0,92,90:0:0:92,90:3237,3229:-526.91,-263.417,-235.722,-263.527,0,-236.434 1/2:11:0,3,8:0:0:3,8:108,288:-32.6714,-23.8592,-22.9561,-9.17208,0,-6.76384 1/1:9:0,9,0:0:0:9,0:315,0:-28.6879,-2.70927,0,-28.6879,-2.70927,-28.6879 1/2:28:0,13,15:0:0:13,15:464,540:-82.2472,-44.4211,-40.5077,-38.1843,0,-33.6689 1/1:82:0,82,0:0:0:82,0:2908,0:-261.951,-24.6845,0,-261.951,-24.6845,-261.951 1/2:74:0,33,40:0:0:33,40:1173,1430:-212.241,-116.675,-106.741,-95.6394,0,-83.5982 1/2:169:0,60,109:0:0:60,109:2128,3904:-492.061,-318.735,-300.673,-173.682,0,-140.87 1/2:95:0,37,58:0:0:37,58:1328,2084:-278.691,-170.37,-159.232,-108.68,0,-91.22 1/2:79:0,49,30:0:0:49,30:1747,1080:-230.879,-88.4823,-73.7319,-142.755,0,-133.724 1/2:55:0,27,28:0:0:27,28:940,1008:-159.003,-82.6075,-74.4797,-76.7487,0,-68.3199 1/2:32:0,15,17:0:0:15,17:536,612:-93.9971,-50.2959,-45.7805,-44.0596,0,-38.9421 1/1:72:0,71,1:0:0:71,1:2513,36:-226.044,-21.3731,0,-223.106,-18.0759,-222.805 1/1:29:0,29,0:0:0:29,0:1029,0:-92.7173,-8.72987,0,-92.7173,-8.72987,-92.7173 chr06 1479380 . TAA CAA,CAT 21925.6 PASS AB=0.3918,0.605923;ABP=92.2929,88.5732;AC=29,13;AF=0.690476,0.309524;AN=42;AO=779,536;CIGAR=1X2M,1X1M1X;DP=1317;DPB=1317;DPRA=0,1.41031;EPP=1694.59,1158.25;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.80952,2.13333;MQM=50.4917,25.7929;MQMR=0;NS=21;NUMALT=2;ODDS=5.97375;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27499,18537;QR=0;RO=0;RPL=0,0;RPP=1694.59,1166.92;RPPR=0;RPR=779,536;RUN=1,1;SAF=0,1;SAP=1694.59,1158.25;SAR=779,535;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32,0:0:0:32,0:1125,0:-100.979,-9.63296,0,-100.979,-9.63296,-100.979 1/1:25:0,25,0:0:0:25,0:892,0:-80.1729,-7.52575,0,-80.1729,-7.52575,-80.1729 1/1:102:0,102,0:0:0:102,0:3623,0:-325.101,-30.7051,0,-325.101,-30.7051,-325.101 1/2:90:0,36,54:0:0:36,54:1279,1858:-206.186,-102.377,-91.5403,-104.118,0,-87.8626 1/1:57:0,55,2:0:0:55,2:1921,70:-172.348,-16.5567,0,-168.53,-12.4889,-167.928 1/2:62:0,11,51:0:0:11,51:396,1794:-129.709,-97.5811,-94.2698,-32.4655,0,-17.1129 1/2:75:0,20,55:0:0:20,55:695,1914:-160.824,-104.828,-98.8076,-56.3134,0,-39.7568 1/2:97:0,60,37:0:0:60,37:2111,1282:-243.728,-73.2402,-55.1784,-170.777,0,-159.639 1/2:144:0,46,97:0:0:46,97:1622,3326:-328.22,-196.744,-182.897,-131.479,0,-102.28 1/2:12:0,5,7:0:0:5,7:176,248:-28.5132,-14.2275,-12.7223,-14.5963,0,-12.4891 1/1:5:0,5,0:0:0:5,0:176,0:-16.106,-1.50515,0,-16.106,-1.50515,-16.106 1/2:35:0,24,11:0:0:24,11:835,366:-88.2324,-21.7606,-14.5359,-66.7509,0,-63.4396 1/1:90:0,90,0:0:0:90,0:3194,0:-286.089,-27.0927,0,-286.089,-27.0927,-286.089 1/2:86:0,35,50:0:0:35,50:1231,1700:-194.333,-94.3337,-83.7976,-99.9766,0,-84.9251 1/2:82:0,32,50:0:0:32,50:1135,1751:-188.014,-95.7449,-86.112,-92.5806,0,-77.5291 1/2:39:0,9,30:0:0:9,30:311,1041:-86.7136,-61.4631,-58.7538,-25.5759,0,-16.545 1/2:43:0,8,35:0:0:8,35:288,1226:-95.8321,-72.3514,-69.9432,-23.8219,0,-13.2859 1/2:62:0,26,36:0:0:26,36:920,1218:-144.676,-70.7353,-62.9085,-74.2491,0,-63.412 1/2:51:0,32,19:0:0:32,19:1144,671:-129.782,-36.6802,-27.0472,-93.3889,0,-87.6693 1/1:91:0,89,2:0:0:89,2:3111,72:-278.023,-26.7917,0,-272.237,-20.6516,-271.635 1/1:37:0,37,0:0:0:37,0:1314,0:-117.647,-11.1381,0,-117.647,-11.1381,-117.647 chr06 1479416 . TTCAAAATAT ATCAAAAGAT,ATCAAAGAT 21464.8 PASS AB=0.39,0.6;ABP=97.5996,81.1833;AC=29,13;AF=0.690476,0.309524;AN=42;AO=801,542;CIGAR=1X6M1X2M,1X2M1D3M1X2M;DP=1359;DPB=1304.8;DPRA=0,1.21159;EPP=1742.36,1179.95;EPPR=0;GTI=1;LEN=10,9;MEANALT=2.19048,2.42857;MQM=50.6017,25.7565;MQMR=0;NS=21;NUMALT=2;ODDS=5.10146;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28449,13959;QR=0;RO=0;RPL=801,542;RPP=1742.36,1179.95;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1742.36,1179.95;SAR=801,542;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,33,0:0:0:33,0:1184,0:-106.064,-9.93399,0,-106.064,-9.93399,-106.064 1/1:23:0,23,0:0:0:23,0:824,0:-74.0811,-6.92369,0,-74.0811,-6.92369,-74.0811 1/1:105:0,104,0:0:0:104,0:3695,0:-331.335,-31.3071,0,-331.335,-31.3071,-331.335 1/2:91:0,36,54:0:0:36,54:1288,1346:-194.853,-90.233,-79.3959,-104.644,0,-88.3886 1/1:62:0,59,2:0:0:59,2:2104,50:-188.763,-17.7608,0,-185.41,-14.4199,-184.808 1/2:64:0,13,51:0:0:13,51:449,1274:-122.06,-85.7417,-81.8284,-36.6366,0,-21.284 1/2:81:0,24,56:0:0:24,56:844,1404:-162.649,-94.2573,-87.0326,-68.3736,0,-51.5159 1/2:101:0,61,39:0:0:61,39:2149,1018:-242.766,-69.2068,-50.844,-173.48,0,-161.739 1/2:146:0,47,99:0:0:47,99:1672,2647:-317.498,-181.887,-167.738,-135.927,0,-106.125 1/2:12:0,5,7:0:0:5,7:180,182:-27.2514,-12.6097,-11.1045,-14.9462,0,-12.839 1/1:6:0,6,0:0:0:6,0:212,0:-19.3282,-1.80618,0,-19.3282,-1.80618,-19.3282 1/2:35:0,19,11:0:0:19,11:672,286:-73.8689,-19.3876,-13.668,-54.4516,0,-51.1403 1/1:94:0,91,0:0:0:91,0:3202,0:-286.806,-27.3937,0,-286.806,-27.3937,-286.806 1/2:92:0,40,52:0:0:40,52:1428,1317:-205.185,-89.0424,-77.0012,-116.441,0,-100.787 1/2:83:0,33,50:0:0:33,50:1184,1250:-180.52,-84.153,-74.2191,-96.6696,0,-81.6181 1/2:41:0,10,31:0:0:10,31:341,829:-84.8217,-57.1723,-54.162,-27.9647,0,-18.6328 1/2:43:0,8,35:0:0:8,35:288,944:-88.6798,-65.1949,-62.7867,-23.8219,0,-13.2859 1/2:60:0,23,36:0:0:23,36:820,936:-129.824,-63.57,-56.6463,-66.2302,0,-55.3931 1/2:51:0,32,19:0:0:32,19:1124,476:-123.548,-32.2049,-22.572,-91.6117,0,-85.8922 1/1:97:0,95,0:0:0:95,0:3385,0:-302.543,-28.5979,0,-302.543,-28.5979,-302.543 1/1:39:0,39,0:0:0:39,0:1404,0:-125.142,-11.7402,0,-125.142,-11.7402,-125.142 chr06 1506361 . TA TG,CG 17224.1 PASS AB=0.492337,0.507663;ABP=3.27653,3.27653;AC=30,12;AF=0.714286,0.285714;AN=42;AO=553,268;CIGAR=1M1X,2X;DP=822;DPB=822;DPRA=0,1.61718;EPP=1203.83,584.965;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.7619,2.06667;MQM=59.8698,59.4142;MQMR=0;NS=21;NUMALT=2;ODDS=4.29231;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19869,9511;QR=0;RO=0;RPL=553,268;RPP=1203.83,584.965;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1203.83,584.965;SAR=553,268;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:0,46,0:0:0:46,0:1656,0:-149.328,-13.8474,0,-149.328,-13.8474,-149.328 1/1:28:0,27,1:0:0:27,1:964,36:-86.7171,-8.12781,0,-83.7796,-4.83057,-83.4785 1/1:34:0,34,0:0:0:34,0:1224,0:-110.467,-10.235,0,-110.467,-10.235,-110.467 1/1:31:0,31,0:0:0:31,0:1116,0:-100.752,-9.33193,0,-100.752,-9.33193,-100.752 1/1:77:0,75,1:0:0:75,1:2698,36:-242.704,-22.5773,0,-239.766,-19.6398,-239.465 1/2:18:0,9,9:0:0:9,9:324,324:-53.217,-26.7801,-24.0708,-26.7966,0,-24.0873 1/2:51:0,31,20:0:0:31,20:1116,718:-149.98,-58.9196,-49.5876,-91.4198,0,-85.3992 1/2:30:0,20,10:0:0:20,10:720,360:-88.4823,-29.734,-23.7134,-59.1082,0,-56.0979 1/2:32:0,19,13:0:0:19,13:684,446:-92.3618,-36.5515,-30.8319,-56.1601,0,-52.2467 1/2:6:0,2,4:0:0:2,4:72,131:-16.7937,-10.9081,-10.306,-6.23466,0,-5.03054 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:16:0,9,7:0:0:9,7:320,252:-46.9923,-20.9217,-18.2125,-26.4284,0,-24.3212 1/1:32:0,31,1:0:0:31,1:1108,34:-99.5773,-9.33193,0,-96.8198,-6.23405,-96.5188 1/2:37:0,15,22:0:0:15,22:540,777:-107.415,-63.3501,-58.8346,-44.4211,0,-37.7984 1/2:127:0,53,74:0:0:53,74:1908,2614:-368.766,-213.086,-197.132,-156.037,0,-133.761 1/2:54:0,30,24:0:0:30,24:1080,846:-157.351,-69.2326,-60.2017,-88.4742,0,-81.2495 1/2:28:0,13,15:0:0:13,15:468,538:-82.4256,-44.2385,-40.3251,-38.5463,0,-34.0308 1/2:95:0,34,61:0:0:34,61:1207,2194:-277.694,-179.358,-169.123,-98.6927,0,-80.3299 1/2:28:0,22,6:0:0:22,6:792,205:-81.6148,-16.9773,-10.3546,-64.983,0,-63.1768 1/1:25:0,25,0:0:0:25,0:900,0:-81.321,-7.52575,0,-81.321,-7.52575,-81.321 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 chr06 1523062 . A G 46435.5 PASS AB=0.497854;ABP=3.06622;AC=30;AF=0.714286;AN=42;AO=2138;CIGAR=1X;DP=2857;DPB=2857;DPRA=0;EPP=4246.36;EPPR=1459.64;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.521;MQMR=59.9345;NS=21;NUMALT=1;ODDS=30.6722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76259;QR=25709;RO=718;RPL=2091;RPP=4246.36;RPPR=1459.64;RPR=47;RUN=1;SAF=0;SAP=4645.62;SAR=2138;SRF=0;SRP=1562.13;SRR=718;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:189:2,186:2:72:186:6654:-591.664,-50.0169,0 1/1:123:0,123:0:0:123:4385:-394.592,-37.0267,0 1/1:111:0,111:0:0:111:3988:-359.018,-33.4143,0 1/1:114:0,114:0:0:114:4060:-365.555,-34.3174,0 1/1:553:10,543:10:360:543:19313:-1704.1,-133.725,0 0/1:156:73,83:73:2612:83:2963:-219.926,0,-188.367 0/1:153:69,84:69:2457:84:2992:-223.354,0,-175.326 0/1:90:48,42:48:1728:42:1486:-106.924,0,-128.708 0/1:234:115,119:115:4132:119:4246:-311.868,0,-301.621 0/1:28:16,12:16:572:12:432:-30.7831,0,-43.3846 1/1:17:0,17:0:0:17:612:-55.3684,-5.11751,0 0/1:41:20,21:20:716:21:756:-56.0168,0,-52.4255 1/1:229:1,228:1:36:228:8141:-728.988,-65.3376,0 0/1:131:80,51:80:2868:51:1801:-122.773,0,-218.922 0/1:129:50,79:50:1787:79:2807:-214.029,0,-122.279 0/1:177:108,69:108:3863:69:2464:-168.615,0,-294.583 0/1:146:67,79:67:2404:79:2840:-211.698,0,-171.959 0/1:47:33,14:33:1170:14:504:-31.5404,0,-91.4575 0/1:66:23,43:23:824:43:1529:-118.024,0,-54.6153 1/1:86:3,83:3:108:83:2954:-255.992,-15.8134,0 1/1:37:0,37:0:0:37:1332:-120.157,-11.1381,0 chr06 1530596 . G C 9798.45 PASS AB=0.501253;ABP=3.02663;AC=12;AF=0.285714;AN=42;AO=608;CIGAR=1X;DP=2184;DPB=2184;DPRA=1.81726;EPP=1323.27;EPPR=3418.74;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.9901;MQMR=60;NS=21;NUMALT=1;ODDS=14.137;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21387;QR=55266;RO=1573;RPL=0;RPP=1323.27;RPPR=3418.74;RPR=608;RUN=1;SAF=0;SAP=1323.27;SAR=608;SRF=0;SRP=3418.74;SRR=1573;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:118:117,0:117:4073:0:0:0,-35.2205,-366.399 0/0:28:28,0:28:970:0:0:0,-8.42884,-87.6102 0/0:104:104,0:104:3664:0:0:0,-31.3071,-329.964 0/0:131:130,1:130:4527:1:36:0,-35.8367,-404.002 0/0:228:222,6:222:7803:6:216:0,-48.8443,-682.524 0/1:102:51,51:51:1763:51:1757:-127.704,0,-128.242 0/1:172:92,79:92:3211:79:2758:-196.624,0,-237.378 0/1:150:86,64:86:3007:64:2261:-158.597,0,-225.709 0/1:211:98,113:98:3495:113:4022:-298.653,0,-251.244 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:40:21,19:21:743:19:680:-49.488,0,-55.1521 0/0:234:233,1:233:8188:1:36:0,-66.8427,-733.344 0/1:164:73,91:73:2564:91:3182:-237.235,0,-181.638 0/1:66:34,32:34:1216:32:1128:-81.9603,0,-89.8786 0/1:76:37,38:37:1309:38:1345:-98.4112,0,-95.1726 0/1:58:25,33:25:887:33:1145:-85.8941,0,-62.6884 0/1:93:38,55:38:1333:55:1925:-145.527,0,-92.2718 0/1:55:37,18:37:1310:18:644:-41.7339,0,-101.643 0/0:105:105,0:105:3699:0:0:0,-31.6081,-333.114 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 chr06 1539116 . G A 32778 PASS AB=0.501382;ABP=3.02831;AC=30;AF=0.714286;AN=42;AO=1413;CIGAR=1X;DP=1958;DPB=1958;DPRA=0;EPP=2060.22;EPPR=170.453;GTI=0;LEN=1;MEANALT=1;MQM=59.9448;MQMR=59.9523;NS=21;NUMALT=1;ODDS=11.3559;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50410;QR=19394;RO=545;RPL=1285;RPP=2060.22;RPPR=170.453;RPR=128;RUN=1;SAF=1413;SAP=3071.3;SAR=0;SRF=545;SRP=1186.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:2205:-198.707,-18.6639,0 1/1:126:0,126:0:0:126:4532:-408.044,-37.9298,0 1/1:120:2,118:2:72:118:4210:-372.242,-29.2869,0 1/1:167:0,167:0:0:167:5988:-539.021,-50.272,0 1/1:82:1,81:1:36:81:2901:-257.727,-21.0862,0 0/1:82:43,39:43:1529:39:1381:-99.9023,0,-113.129 0/1:111:58,53:58:2076:53:1904:-138.223,0,-153.696 0/1:95:41,54:41:1442:54:1891:-141.865,0,-101.474 0/1:132:73,59:73:2601:59:2090:-148.594,0,-194.601 0/1:21:7,14:7:252:14:500:-39.0145,0,-16.7073 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:36:14,22:14:504:22:784:-60.0468,0,-34.861 1/1:150:0,150:0:0:150:5352:-481.796,-45.1545,0 0/1:80:35,45:35:1241:45:1620:-122.005,0,-87.9078 0/1:120:59,61:59:2093:61:2184:-160.702,0,-152.515 0/1:82:49,33:49:1756:33:1173:-81.1911,0,-133.64 0/1:74:43,31:43:1544:31:1093:-76.4014,0,-116.977 0/1:156:78,78:78:2740:78:2785:-203.928,0,-199.877 0/1:96:41,55:41:1472:55:1916:-143.811,0,-103.877 1/1:86:1,85:1:36:85:3029:-269.227,-22.2903,0 1/1:74:0,74:0:0:74:2656:-239.286,-22.2762,0 chr06 1539176 . C T 11313.5 PASS AB=0.460254;ABP=23.5515;AC=12;AF=0.285714;AN=42;AO=694;CIGAR=1X;DP=2720;DPB=2720;DPRA=1.1152;EPP=1492.69;EPPR=4320.25;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.951;MQMR=59.9956;NS=21;NUMALT=1;ODDS=22.3028;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24775;QR=72077;RO=2024;RPL=693;RPP=1501.34;RPPR=4320.25;RPR=1;RUN=1;SAF=1;SAP=1501.34;SAR=693;SRF=0;SRP=4398.07;SRR=2024;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:171:171,0:171:6091:0:0:0,-51.4761,-548.295 0/0:105:105,0:105:3752:0:0:0,-31.6081,-337.881 0/0:183:182,0:182:6468:0:0:0,-54.7875,-581.847 0/0:113:113,0:113:4040:0:0:0,-34.0164,-363.788 0/0:216:214,2:214:7598:2:72:0,-58.1858,-677.024 0/1:99:48,51:48:1704:51:1807:-133.108,0,-123.844 0/1:225:129,95:129:4606:95:3404:-238.156,0,-346.913 0/1:161:88,73:88:3112:73:2620:-187.581,0,-231.841 0/1:223:124,99:124:4376:99:3531:-250.869,0,-326.886 0/1:27:15,12:15:532:12:428:-30.731,0,-40.0853 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:32:17,15:17:604:15:540:-39.3036,0,-45.0576 0/0:211:211,0:211:7543:0:0:0,-63.5173,-678.909 0/1:148:71,77:71:2517:77:2726:-201.029,0,-182.229 0/1:258:141,117:141:5010:117:4172:-297.996,0,-373.384 0/1:75:34,41:34:1207:41:1476:-110.559,0,-86.358 0/1:63:36,27:36:1296:27:968:-68.4725,0,-97.979 0/1:69:30,39:30:1068:39:1387:-104.356,0,-75.661 0/1:117:74,43:74:2626:43:1536:-103.313,0,-201.363 0/0:165:162,3:162:5816:3:108:0,-39.5948,-513.476 0/0:50:50,0:50:1787:0:0:0,-15.0515,-161.112 chr06 1545635 . A G 36400 PASS AB=0.462475;ABP=21.1;AC=30;AF=0.714286;AN=42;AO=1779;CIGAR=1X;DP=2578;DPB=2578;DPRA=0;EPP=3866.06;EPPR=1733.67;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9876;MQMR=60;NS=21;NUMALT=1;ODDS=6.97876;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63513;QR=28134;RO=797;RPL=0;RPP=3866.06;RPPR=1733.67;RPR=1779;RUN=1;SAF=1779;SAP=3866.06;SAR=0;SRF=797;SRP=1733.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:160:0,160:0:0:160:5733:-516.084,-48.1648,0 1/1:124:0,124:0:0:124:4422:-398.152,-37.3277,0 1/1:102:0,102:0:0:102:3656:-329.244,-30.7051,0 1/1:95:0,95:0:0:95:3400:-306.215,-28.5979,0 1/1:243:2,240:2:72:240:8494:-757.626,-66.3724,0 0/1:121:57,64:57:2002:64:2288:-169.757,0,-144.026 0/1:147:76,71:76:2697:71:2524:-183.157,0,-198.722 0/1:221:162,58:162:5615:58:2078:-120.704,0,-438.887 0/1:187:104,83:104:3674:83:2980:-212.139,0,-274.571 0/1:29:15,14:15:528:14:504:-36.9636,0,-39.1215 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:34:20,14:20:701:14:500:-35.1012,0,-53.1767 1/1:192:0,192:0:0:192:6834:-615.132,-57.7978,0 0/1:159:87,72:87:3060:72:2565:-183.235,0,-227.762 0/1:202:97,105:97:3476:105:3764:-278.151,0,-252.243 0/1:106:65,41:65:2313:41:1476:-101.227,0,-176.52 0/1:90:48,42:48:1708:42:1496:-107.842,0,-126.913 0/1:85:44,41:44:1572:41:1476:-107.549,0,-116.184 0/1:98:19,79:19:680:79:2832:-225.618,0,-32.0282 1/1:102:1,101:1:36:101:3596:-320.242,-27.1068,0 1/1:70:0,70:0:0:70:2499:-225.162,-21.0721,0 chr06 1569185 . AGCTG GGCCA,AGCCA 27457.5 PASS AB=0.503866,0.48067;ABP=3.11104,5.52876;AC=30,12;AF=0.714286,0.285714;AN=42;AO=971,378;CIGAR=1X2M2X,3M2X;DP=1367;DPB=1367;DPRA=0,1.09383;EPP=2111.51,823.827;EPPR=0;GTI=0;LEN=5,2;MEANALT=2.52381,2.88235;MQM=59.4706,59.8942;MQMR=0;NS=21;NUMALT=2;ODDS=0.725576;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33726,13199;QR=0;RO=0;RPL=0,0;RPP=2111.51,823.827;RPPR=0;RPR=971,378;RUN=1,1;SAF=0,0;SAP=2111.51,823.827;SAR=971,378;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,68,1:0:0:68,1:2378,23:-213.941,-20.47,0,-212.173,-18.761,-211.872 1/1:48:0,47,1:0:0:47,1:1629,36:-146.395,-14.1484,0,-143.457,-10.8512,-143.156 1/1:97:0,97,0:0:0:97,0:3400,0:-306.171,-29.1999,0,-306.171,-29.1999,-306.171 1/1:73:0,73,0:0:0:73,0:2469,0:-222.441,-21.9752,0,-222.441,-21.9752,-222.441 1/1:124:0,118,1:0:0:118,1:4106,36:-369.396,-35.5215,0,-366.458,-32.5774,-366.157 1/2:54:0,21,33:0:0:21,33:738,1132:-152.245,-92.1715,-85.8499,-60.4215,0,-50.4875 1/2:92:0,51,39:0:0:51,39:1767,1372:-255.282,-111.73,-96.3775,-143.593,0,-131.853 1/2:119:0,57,59:0:0:57,59:1974,2030:-325.337,-164.915,-147.756,-160.476,0,-142.715 1/2:102:0,49,52:0:0:49,52:1687,1855:-288.246,-151.323,-136.573,-137.02,0,-121.366 1/2:5:0,4,1:0:0:4,1:142,36:-14.8635,-3.29724,-2.09312,-11.9251,0,-11.6241 1/1:4:0,4,0:0:0:4,0:143,0:-13.2214,-1.20412,0,-13.2214,-1.20412,-13.2214 1/2:23:0,13,10:0:0:13,10:460,349:-66.2017,-28.7344,-24.8211,-37.8182,0,-34.8079 1/1:68:0,68,0:0:0:68,0:2381,0:-214.258,-20.47,0,-214.258,-20.47,-214.258 1/2:52:0,30,22:0:0:30,22:1013,762:-144.344,-62.2738,-53.2429,-82.4125,0,-75.7899 1/2:112:0,46,62:0:0:46,62:1619,2198:-310.856,-179.063,-165.215,-131.79,0,-113.126 1/2:50:0,31,18:0:0:31,18:1079,619:-137.944,-50.2631,-40.9312,-87.6769,0,-82.2583 1/2:39:0,21,18:0:0:21,18:742,635:-112.488,-52.0581,-45.7365,-60.7824,0,-55.3639 1/2:82:0,38,43:0:0:38,43:1314,1481:-227.124,-120.354,-108.915,-106.833,0,-93.8891 1/2:46:0,30,16:0:0:30,16:1058,563:-132.279,-46.1824,-37.1515,-86.4481,0,-81.6316 1/1:57:0,56,1:0:0:56,1:1942,36:-174.649,-16.8577,0,-171.712,-13.5604,-171.411 1/1:50:0,49,1:0:0:49,1:1685,36:-151.573,-14.7505,0,-148.635,-11.4532,-148.334 chr06 1587859 . A G 47663.5 PASS AB=0.513815;ABP=5.83028;AC=29;AF=0.690476;AN=42;AO=2342;CIGAR=1X;DP=3186;DPB=3186;DPRA=0;EPP=5088.6;EPPR=1829.22;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9996;MQMR=60;NS=21;NUMALT=1;ODDS=17.3899;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82510;QR=29831;RO=841;RPL=2342;RPP=5088.6;RPPR=1829.22;RPR=0;RUN=1;SAF=2342;SAP=5088.6;SAR=0;SRF=841;SRP=1829.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:196:1,195:1:36:195:6819:-610.19,-55.4036,0 1/1:147:0,147:0:0:147:5247:-472.368,-44.2514,0 1/1:155:0,155:0:0:155:5477:-493.062,-46.6597,0 1/1:213:1,211:1:36:211:7484:-670.031,-60.56,0 1/1:394:1,393:1:36:393:13831:-1240.99,-115.008,0 0/1:222:131,91:131:4658:91:3179:-219.506,0,-352.555 0/1:174:74,100:74:2656:100:3536:-266.071,0,-186.907 0/1:193:83,110:83:2946:110:3879:-291.206,0,-207.275 0/1:260:134,126:134:4759:126:4450:-322.405,0,-350.204 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 1/1:11:0,11:0:0:11:375:-34.0779,-3.31133,0 0/1:55:28,27:28:991:27:959:-70.0687,0,-72.9469 1/1:215:0,214:0:0:214:7571:-681.076,-64.4204,0 0/1:181:90,91:90:3205:91:3223:-235.807,0,-234.186 0/1:182:95,87:95:3387:87:3032:-218.321,0,-250.258 0/1:145:67,77:67:2354:77:2711:-200.524,0,-168.411 0/1:131:53,78:53:1860:78:2716:-205.248,0,-128.242 0/1:94:52,42:52:1812:42:1431:-100.782,0,-135.065 0/1:64:19,45:19:663:45:1590:-124.123,0,-40.7275 1/1:73:1,72:1:36:72:2547:-225.883,-18.3769,0 1/1:69:0,69:0:0:69:2417:-217.786,-20.7711,0 chr06 1601344 . G A 3189.71 PASS AB=0.511873;ABP=3.47439;AC=12;AF=0.285714;AN=42;AO=196;CIGAR=1X;DP=571;DPB=571;DPRA=1.68125;EPP=428.619;EPPR=817.312;GTI=0;LEN=1;MEANALT=1;MQM=59.9949;MQMR=60;NS=21;NUMALT=1;ODDS=3.24772;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7024;QR=13416;RO=375;RPL=0;RPP=428.619;RPPR=817.312;RPR=196;RUN=1;SAF=196;SAP=428.619;SAR=0;SRF=375;SRP=817.312;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:23:23,0:23:816:0:0:0,-6.92369,-73.7617 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.637 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:39:37,2:37:1328:2:72:0,-4.90345,-112.986 0/1:14:7,7:7:248:7:252:-18.8145,0,-18.4498 0/1:32:18,14:18:644:14:504:-36.0651,0,-48.6576 0/1:42:20,22:20:720:22:784:-58.2407,0,-52.4855 0/1:38:15,23:15:540:23:828:-63.405,0,-37.4974 0/1:8:5,3:5:176:3:108:-7.66693,0,-13.7768 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7255 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/1:44:24,20:24:860:20:708:-50.7997,0,-64.4765 0/1:48:19,29:19:684:29:1040:-79.4649,0,-47.4409 0/1:30:13,17:13:464:17:612:-46.3821,0,-33.0666 0/1:33:14,19:14:496:19:680:-51.5952,0,-35.0403 0/1:53:29,24:29:1044:24:860:-61.7672,0,-78.3202 0/1:28:18,10:18:636:10:360:-24.3155,0,-49.1392 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 chr06 1630783 . T G 42002.8 PASS AB=0.540925;ABP=31.6258;AC=15;AF=0.357143;AN=42;AO=2175;CIGAR=1X;DP=4205;DPB=4205;DPRA=1.71237;EPP=4725.96;EPPR=4406.76;GTI=1;LEN=1;MEANALT=1.11765;MQM=59.5154;MQMR=59.9926;NS=21;NUMALT=1;ODDS=5.28124;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77610;QR=72537;RO=2028;RPL=0;RPP=4725.96;RPPR=4406.76;RPR=2175;RUN=1;SAF=2175;SAP=4725.96;SAR=0;SRF=2028;SRP=4406.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:132:132,0:132:4732:0:0:0,-39.736,-426.038 0/0:123:121,2:121:4340:2:72:0,-30.19,-383.938 0/0:148:146,1:146:5236:1:36:0,-41.013,-467.774 0/0:182:182,0:182:6508:0:0:0,-54.7875,-585.805 0/0:182:180,1:180:6432:1:36:0,-51.1731,-575.445 0/1:137:76,61:76:2702:61:2182:-155.377,0,-202.18 0/1:245:112,133:112:4004:133:4751:-353.306,0,-286.798 0/1:203:86,117:86:3072:117:4169:-313.554,0,-215.6 0/1:240:130,110:130:4621:110:3940:-282.533,0,-343.808 1/1:549:15,534:15:536:534:18999:-1660.51,-116.691,0 0/1:15:13,2:13:464:2:72:-2.32127,0,-37.5821 1/1:597:26,571:26:932:571:20434:-1751.92,-95.516,0 0/0:138:138,0:138:4952:0:0:0,-41.5421,-445.828 0/1:182:100,82:100:3588:82:2914:-207.69,0,-268.339 0/1:270:133,137:133:4764:137:4912:-360.843,0,-347.639 0/1:153:84,69:84:2981:69:2457:-175.313,0,-222.465 0/1:102:58,44:58:2084:44:1576:-111.417,0,-157.125 0/1:351:59,292:59:2120:292:10376:-827.883,0,-85.4036 0/1:69:52,17:52:1860:17:612:-34.6424,0,-146.906 0/0:131:129,2:129:4612:2:72:0,-32.5982,-408.408 0/0:56:56,0:56:1997:0:0:0,-16.8577,-180.002 chr06 1630804 . T C 42138.3 PASS AB=0.541751;ABP=33.1094;AC=15;AF=0.357143;AN=42;AO=2181;CIGAR=1X;DP=4228;DPB=4228;DPRA=1.71152;EPP=4738.99;EPPR=4359.41;GTI=1;LEN=1;MEANALT=1.05882;MQM=59.5465;MQMR=59.9863;NS=21;NUMALT=1;ODDS=6.45954;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77982;QR=73257;RO=2046;RPL=0;RPP=4738.99;RPPR=4359.41;RPR=2181;RUN=1;SAF=2181;SAP=4738.99;SAR=0;SRF=2046;SRP=4445.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:135:135,0:135:4852:0:0:0,-40.639,-436.832 0/0:125:123,2:123:4416:2:72:0,-30.792,-390.774 0/0:150:148,1:148:5312:1:32:0,-41.9191,-475.063 0/0:182:182,0:182:6517:0:0:0,-54.7875,-586.612 0/0:181:180,1:180:6428:1:36:0,-50.8882,-574.923 0/1:141:78,63:78:2792:63:2250:-160.284,0,-209.075 0/1:248:111,137:111:3973:137:4916:-366.884,0,-283.103 0/1:205:88,117:88:3141:117:4157:-312.51,0,-221.203 0/1:242:130,112:130:4645:112:3990:-286.432,0,-345.362 1/1:547:18,529:18:629:529:18886:-1642.13,-107.73,0 0/1:15:13,2:13:468:2:72:-2.32127,0,-37.9442 1/1:595:27,568:27:972:568:20335:-1741.6,-91.3149,0 0/0:137:137,0:137:4924:0:0:0,-41.2411,-443.308 0/1:190:107,83:107:3816:83:2966:-209.34,0,-286.44 0/1:269:131,138:131:4693:138:4964:-365.776,0,-341.551 0/1:151:83,68:83:2961:68:2433:-173.575,0,-221.266 0/1:102:58,44:58:2069:44:1567:-110.606,0,-155.774 0/1:356:60,296:60:2145:296:10586:-845.262,0,-86.149 0/1:69:52,17:52:1863:17:612:-34.6424,0,-147.175 0/0:131:128,3:128:4589:3:108:0,-29.3598,-403.097 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.951 chr06 1630810 . G A 39478.8 PASS AB=0.529808;ABP=17.8977;AC=15;AF=0.357143;AN=42;AO=2090;CIGAR=1X;DP=4137;DPB=4137;DPRA=1.66962;EPP=4394.93;EPPR=4094.36;GTI=1;LEN=1;MEANALT=1.29412;MQM=59.4919;MQMR=59.9858;NS=21;NUMALT=1;ODDS=12.0142;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72809;QR=73047;RO=2041;RPL=17;RPP=4394.93;RPPR=4094.36;RPR=2073;RUN=1;SAF=2090;SAP=4541.39;SAR=0;SRF=2041;SRP=4434.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:137:137,0:137:4885:0:0:0,-41.2411,-439.803 0/0:126:124,2:124:4433:2:68:0,-31.4721,-392.682 0/0:148:146,1:146:5210:1:36:0,-40.958,-465.488 0/0:182:182,0:182:6529:0:0:0,-54.7875,-587.689 0/0:185:182,1:182:6505:1:36:0,-51.8301,-581.889 0/1:138:77,61:77:2756:61:2097:-147.427,0,-206.74 0/1:242:112,130:112:4020:130:4441:-325.973,0,-289.138 0/1:194:88,106:88:3156:106:3687:-273.386,0,-225.865 0/1:230:125,104:125:4484:104:3600:-254.899,0,-334.433 1/1:521:16,504:16:572:504:17558:-1527.74,-105.082,0 0/1:15:13,2:13:468:2:72:-2.32127,0,-37.9442 1/1:584:26,557:26:932:557:19360:-1655.91,-91.6614,0 0/0:136:136,0:136:4873:0:0:0,-40.9401,-438.72 0/1:182:106,76:106:3808:76:2671:-185.206,0,-288.129 0/1:266:130,136:130:4649:136:4776:-349.876,0,-338.497 0/1:148:85,63:85:3044:63:2159:-149.824,0,-229.637 0/1:100:60,40:60:2137:40:1402:-96.3601,0,-162.493 0/1:349:60,289:60:2147:289:10213:-813.824,0,-88.434 0/1:65:50,15:50:1767:15:525:-28.0111,0,-139.743 0/0:133:130,3:130:4656:3:108:0,-29.9618,-409.127 0/0:56:56,0:56:2016:0:0:0,-16.8577,-181.713 chr06 1630813 . C T 38422.4 PASS AB=0.455005;ABP=37.7934;AC=27;AF=0.642857;AN=42;AO=2007;CIGAR=1X;DP=4194;DPB=4194;DPRA=0;EPP=4326.48;EPPR=4704.31;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.986;MQMR=59.4989;NS=21;NUMALT=1;ODDS=5.12977;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71705;QR=77862;RO=2181;RPL=2003;RPP=4326.48;RPPR=4704.31;RPR=4;RUN=1;SAF=2007;SAP=4361.16;SAR=0;SRF=2181;SRP=4738.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:0,131:0:0:131:4704:-423.518,-39.4349,0 1/1:122:2,120:2:72:120:4300:-380.339,-29.8889,0 1/1:149:1,148:1:32:148:5255:-469.888,-41.6542,0 1/1:174:0,174:0:0:174:6209:-558.907,-52.3792,0 1/1:179:1,178:1:36:178:6321:-565.381,-50.2861,0 0/1:138:63,75:63:2251:75:2687:-200.532,0,-161.278 0/1:249:136,113:136:4872:113:4040:-288.832,0,-362.626 0/1:202:115,87:115:4101:87:3116:-219.859,0,-308.133 0/1:241:112,129:112:4007:129:4600:-341.615,0,-288.258 0/0:546:528,14:528:18891:14:504:0,-117.781,-1653.63 0/1:15:2,13:2:72:13:468:-37.9442,0,-2.32127 0/0:597:570,27:570:20351:27:972:0,-91.917,-1742.13 1/1:134:0,134:0:0:134:4800:-432.156,-40.338,0 0/1:186:84,102:84:2987:102:3632:-271.093,0,-212.433 0/1:267:138,127:138:4927:127:4560:-330.432,0,-363.369 0/1:154:68,86:68:2394:86:3062:-229.45,0,-169.344 0/1:104:44,60:44:1548:60:2143:-161.83,0,-108.292 0/1:355:297,58:297:10613:58:2076:-80.2449,0,-847.988 0/1:67:17,50:17:600:50:1792:-141.391,0,-34.1602 1/1:130:3,127:3:108:127:4524:-397.252,-29.0587,0 1/1:54:0,54:0:0:54:1940:-174.876,-16.2556,0 chr06 1714440 . T A 97606.1 PASS AB=0.522772;ABP=14.5811;AC=30;AF=0.714286;AN=42;AO=3705;CIGAR=1X;DP=4945;DPB=4945;DPRA=0;EPP=8048.32;EPPR=2686.96;GTI=0;LEN=1;MEANALT=1;MQM=52.2;MQMR=52.721;NS=21;NUMALT=1;ODDS=58.4891;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=132513;QR=44279;RO=1240;RPL=2247;RPP=367.865;RPPR=203.073;RPR=1458;RUN=1;SAF=2247;SAP=367.865;SAR=1458;SRF=788;SRP=200.712;SRR=452;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:334:4,330:4:144:330:11776:-1032.32,-87.2431,0 1/1:198:1,197:1:36:197:7016:-622.889,-56.1232,0 1/1:228:0,228:0:0:228:8149:-723.838,-68.6348,0 1/1:350:2,348:2:57:348:12469:-1109.84,-99.9538,0 1/1:535:4,531:4:144:531:18976:-1663.2,-147.767,0 0/1:182:70,112:70:2497:112:4003:-301.914,0,-167.368 0/1:276:148,128:148:5308:128:4577:-325.312,0,-387.26 0/1:202:104,98:104:3704:98:3504:-250.943,0,-269.27 0/1:511:259,252:259:9284:252:9025:-651.895,0,-672.994 0/1:40:26,14:26:928:14:496:-32.2321,0,-68.4102 1/1:41:0,41:0:0:41:1472:-131.294,-12.3422,0 0/1:89:52,37:52:1853:37:1309:-90.2772,0,-138.547 1/1:316:1,315:1:21:315:11248:-997.744,-93.0255,0 0/1:270:129,141:129:4563:141:5064:-369.801,0,-324.089 0/1:284:134,150:134:4790:150:5372:-390.829,0,-336.268 0/1:250:113,137:113:4043:137:4901:-360.703,0,-284.71 0/1:163:75,88:75:2688:88:3164:-234.976,0,-191.658 0/1:121:62,59:62:2219:59:2115:-151.477,0,-157.657 0/1:181:54,127:54:1928:127:4560:-350.946,0,-115.045 1/1:240:2,238:2:72:238:8516:-754.372,-65.4105,0 1/1:134:0,134:0:0:134:4801:-427.762,-40.338,0 chr06 1714452 . CAA CAT,TAT 38463.3 PASS AB=0.534694,0.464286;ABP=13.2561,13.8677;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1449,456;CIGAR=2M1X,1X1M1X;DP=1907;DPB=1907;DPRA=0,0.715158;EPP=3123.47,967.315;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.71429,2.07692;MQM=42.7074,40.625;MQMR=0;NS=21;NUMALT=2;ODDS=30.5503;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51165,15757;QR=0;RO=0;RPL=1446,453;RPP=3123.47,967.315;RPPR=0;RPR=3,3;RUN=1,1;SAF=0,0;SAP=3149.47,993.202;SAR=1449,456;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:0,138,0:0:0:138,0:4891,0:-425.711,-41.5421,0,-425.711,-41.5421,-425.711 1/1:45:0,44,1:0:0:44,1:1553,36:-135.931,-13.2453,0,-133.1,-10.0657,-132.798 1/1:95:0,95,0:0:0:95,0:3361,0:-294.523,-28.5979,0,-294.523,-28.5979,-294.523 1/1:75:0,75,0:0:0:75,0:2672,0:-234.755,-22.5773,0,-234.755,-22.5773,-234.755 1/1:327:0,327,0:0:0:327,0:11453,0:-1002.57,-98.4368,0,-1002.57,-98.4368,-1002.57 1/2:69:0,41,28:0:0:41,28:1444,983:-192.161,-77.7077,-65.3654,-114.795,0,-106.366 1/2:122:0,56,66:0:0:56,66:1951,2268:-333.834,-178.395,-161.537,-155.777,0,-135.909 1/2:53:0,29,24:0:0:29,24:1023,808:-143.297,-63.0965,-54.3666,-80.5317,0,-73.307 1/2:193:0,106,87:0:0:106,87:3744,3012:-536.756,-237.819,-205.91,-299.278,0,-273.089 1/2:31:0,10,21:0:0:10,21:356,735:-85.3079,-56.9429,-53.9326,-28.7086,0,-22.3869 1/1:22:0,22,0:0:0:22,0:777,0:-68.8892,-6.62266,0,-68.8892,-6.62266,-68.8892 1/2:28:0,14,14:0:0:14,14:496,485:-77.8058,-38.4455,-34.2311,-39.7012,0,-35.4868 1/1:110:0,110,0:0:0:110,0:3887,0:-340.015,-33.1133,0,-340.015,-33.1133,-340.015 1/2:83:0,45,38:0:0:45,38:1574,1322:-226.481,-102.798,-89.2515,-124.019,0,-112.58 1/2:129:0,69,60:0:0:69,60:2456,2064:-353.508,-160.031,-139.26,-193.814,0,-175.752 1/2:97:0,52,44:0:0:52,44:1841,1492:-263.597,-117.775,-102.122,-145.891,0,-132.646 1/2:24:0,12,12:0:0:12,12:432,406:-66.916,-32.3263,-28.7139,-34.9314,0,-31.319 1/2:66:0,34,32:0:0:34,32:1212,1107:-181.036,-84.9397,-74.7047,-96.4337,0,-86.8007 1/2:85:0,56,29:0:0:56,29:2008,1039:-239.925,-80.7808,-63.9231,-159.489,0,-150.759 1/1:53:0,53,0:0:0:53,0:1850,0:-162.697,-15.9546,0,-162.697,-15.9546,-162.697 1/1:62:0,61,0:0:0:61,0:2184,0:-192.778,-18.3628,0,-192.778,-18.3628,-192.778 chr06 1725155 . T C 26532 PASS AB=0.530566;ABP=13.7628;AC=30;AF=0.714286;AN=42;AO=1340;CIGAR=1X;DP=1970;DPB=1970;DPRA=0;EPP=2912.78;EPPR=1368.87;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.5336;MQMR=59.9459;NS=21;NUMALT=1;ODDS=4.47703;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47746;QR=22376;RO=629;RPL=1340;RPP=2912.78;RPPR=1368.87;RPR=0;RUN=1;SAF=0;SAP=2912.78;SAR=1340;SRF=0;SRP=1368.87;SRR=629;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:1,56:1:32:56:2008:-177.783,-13.9594,0 1/1:104:1,103:1:36:103:3675:-326.567,-27.7088,0 1/1:101:0,101:0:0:101:3623:-326.252,-30.404,0 1/1:71:0,71:0:0:71:2529:-227.817,-21.3731,0 1/1:147:2,144:2:64:144:5125:-455.261,-38.2182,0 0/1:36:18,18:18:648:18:644:-47.4535,0,-47.8148 0/1:145:73,72:73:2604:72:2568:-187.709,0,-190.956 0/1:191:99,92:99:3486:92:3292:-238.975,0,-256.456 0/1:134:54,80:54:1909:80:2859:-217.123,0,-131.734 0/1:28:10,18:10:348:18:636:-49.1392,0,-23.2263 1/1:9:0,9:0:0:9:320:-28.6461,-2.70927,0 0/1:46:18,28:18:644:28:996:-76.1075,0,-44.4432 1/1:54:1,53:1:36:53:1881:-165.96,-12.6573,0 0/1:108:46,62:46:1644:62:2217:-167.239,0,-115.737 0/1:107:61,46:61:2184:46:1639:-115.519,0,-164.546 0/1:78:28,50:28:985:50:1788:-137.703,0,-65.4812 0/1:94:51,43:51:1816:43:1536:-110.223,0,-135.425 0/1:287:143,144:143:5120:144:5102:-372.847,0,-374.546 0/1:71:21,50:21:752:50:1766:-137.841,0,-46.6331 1/1:54:0,54:0:0:54:1910:-172.096,-16.2556,0 1/1:48:2,46:2:68:46:1632:-140.68,-7.99173,0 chr06 1746589 . 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T C,A 59270.2 PASS AB=0.741878,0.257868;ABP=2005.19,2009.4;AC=22,20;AF=0.52381,0.47619;AN=42;AO=2937,1017;CIGAR=1X,1X;DP=3955;DPB=3955;DPRA=0,0;EPP=6380.62,2211.4;EPPR=0;GTI=4;LEN=1,1;MEANALT=2.04762,2.04762;MQM=31.8008,36.7375;MQMR=0;NS=21;NUMALT=2;ODDS=4.99504;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=105019,36294;QR=0;RO=0;RPL=2937,1017;RPP=6380.62,2211.4;RPPR=0;RPR=0,0;RUN=1,1;SAF=2937,1017;SAP=6380.62,2211.4;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:266:0,173,93:0:0:173,93:6216,3323:-644.6,-243.278,-191.2,-401.634,0,-373.638 1/2:91:0,65,26:0:0:65,26:2331,928:-225.279,-70.9957,-51.4288,-154.608,0,-146.781 1/2:190:0,146,44:0:0:146,44:5194,1580:-446.944,-115.744,-71.7932,-331.517,0,-318.271 1/2:128:0,106,22:0:0:106,22:3804,788:-315.793,-58.759,-26.8498,-257.358,0,-250.735 1/2:297:0,220,77:0:0:220,77:7851,2734:-726.142,-202.27,-136.043,-524.19,0,-501.011 1/2:199:0,163,35:0:0:163,35:5820,1256:-462.188,-95.7472,-46.6793,-366.421,0,-355.885 1/2:315:0,259,56:0:0:259,56:9217,2004:-745.51,-152.642,-74.6752,-593.195,0,-576.338 1/2:193:0,155,38:0:0:155,38:5564,1368:-482.783,-106.99,-60.3299,-376.13,0,-364.691 1/2:345:0,218,127:0:0:218,127:7779,4560:-879.901,-337.792,-272.168,-542.431,0,-504.2 1/2:53:0,26,27:0:0:26,27:932,957:-139.82,-74.9328,-67.1061,-65.2122,0,-57.0843 1/1:15:0,14,1:0:0:14,1:504,36:-39.2773,-4.21442,0,-37.1183,-1.77925,-36.8172 1/2:43:0,26,17:0:0:26,17:936,597:-108.025,-46.1991,-38.3723,-62.145,0,-57.0275 1/2:192:0,131,61:0:0:131,61:4693,2165:-463.591,-160.697,-121.262,-303.209,0,-284.846 1/2:219:0,189,30:0:0:189,30:6739,1080:-495.641,-80.4527,-23.558,-415.512,0,-406.481 1/2:402:0,281,121:0:0:281,121:10063,4284:-915.897,-316.435,-231.846,-599.769,0,-563.345 1/2:137:0,95,42:0:0:95,42:3412,1485:-347.793,-110.332,-81.7344,-237.781,0,-225.138 1/2:149:0,127,22:0:0:127,22:4540,788:-372.949,-58.1798,-19.9489,-315.093,0,-308.47 1/2:200:0,158,42:0:0:158,42:5656,1508:-505.748,-116.696,-69.1334,-389.386,0,-376.743 1/2:134:0,99,35:0:0:99,35:3527,1240:-305.452,-90.0368,-60.2348,-215.722,0,-205.186 1/2:256:0,197,59:0:0:197,59:7054,2116:-660.966,-164.322,-105.02,-496.98,0,-479.219 1/2:131:0,89,42:0:0:89,42:3187,1497:-335.705,-113.384,-86.592,-222.647,0,-210.003 chr06 1831578 . AGCACTGCT GGCATTGCT,AGCATTGCT 16124.1 PASS AB=0.42485,0.557114;ABP=27.4883,17.1488;AC=30,12;AF=0.714286,0.285714;AN=42;AO=503,279;CIGAR=1X3M1X4M,4M1X4M;DP=796;DPB=796;DPRA=0,1.31314;EPP=1095.26,608.851;EPPR=0;GTI=0;LEN=9,1;MEANALT=2.14286,2.46154;MQM=59.9642,59.9713;MQMR=0;NS=21;NUMALT=2;ODDS=2.24983;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17671,9985;QR=0;RO=0;RPL=503,279;RPP=1095.26,608.851;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1095.26,608.851;SAR=503,279;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,46,0:0:0:46,0:1598,0:-143.842,-13.8474,0,-143.842,-13.8474,-143.842 1/1:21:0,20,0:0:0:20,0:710,0:-63.952,-6.0206,0,-63.952,-6.0206,-63.952 1/2:41:0,18,22:0:0:18,22:639,788:-116.327,-64.2624,-58.8438,-52.0609,0,-45.4382 1/1:28:0,27,0:0:0:27,0:939,0:-84.5198,-8.12781,0,-84.5198,-8.12781,-84.5198 1/1:43:0,42,1:0:0:42,1:1474,36:-132.594,-12.6433,0,-129.657,-9.34602,-129.356 1/2:53:0,25,28:0:0:25,28:876,1004:-153.523,-82.247,-74.7213,-71.6303,0,-63.2015 1/2:37:0,18,15:0:0:18,15:625,536:-94.5052,-43.7021,-38.2836,-50.7996,0,-46.2842 1/2:49:0,19,29:0:0:19,29:676,1040:-139.916,-84.8247,-79.1051,-55.0889,0,-46.359 1/2:87:0,35,52:0:0:35,52:1237,1849:-251.779,-151.034,-140.498,-101.099,0,-85.445 1/2:4:0,1,3:0:0:1,3:36,108:-12.1095,-9.17208,-8.87105,-3.29724,0,-2.39415 1/1:7:0,7,0:0:0:7,0:251,0:-22.9379,-2.10721,0,-22.9379,-2.10721,-22.9379 1/2:16:0,8,8:0:0:8,8:282,288:-46.8161,-23.8592,-21.4509,-23.3131,0,-20.9048 1/1:66:0,66,0:0:0:66,0:2320,0:-209.059,-19.868,0,-209.059,-19.868,-209.059 1/1:25:0,25,0:0:0:25,0:861,0:-77.8039,-7.52575,0,-77.8039,-7.52575,-77.8039 1/2:136:0,49,85:0:0:49,85:1736,3044:-389.664,-248.249,-233.498,-141.426,0,-115.838 1/2:19:0,11,8:0:0:11,8:390,288:-55.629,-23.8592,-20.5478,-32.1274,0,-29.7191 1/2:11:0,3,8:0:0:3,8:105,288:-32.3995,-23.8592,-22.9561,-8.89288,0,-6.48464 1/2:22:0,7,14:0:0:7,14:250,500:-61.1446,-40.7621,-38.6549,-20.3801,0,-16.1656 1/2:24:0,18,6:0:0:18,6:635,216:-69.6857,-17.9843,-12.5658,-52.0594,0,-50.2532 1/1:44:0,43,0:0:0:43,0:1521,0:-136.91,-12.9443,0,-136.91,-12.9443,-136.91 1/1:15:0,15,0:0:0:15,0:510,0:-46.2217,-4.51545,0,-46.2217,-4.51545,-46.2217 chr06 1831601 . G C 4749.14 PASS AB=0.563636;ABP=20.4216;AC=12;AF=0.285714;AN=42;AO=280;CIGAR=1X;DP=782;DPB=782;DPRA=1.34084;EPP=611.023;EPPR=1093.09;GTI=0;LEN=1;MEANALT=1;MQM=59.9714;MQMR=59.9502;NS=21;NUMALT=1;ODDS=2.13588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9989;QR=17970;RO=502;RPL=280;RPP=611.023;RPPR=1093.09;RPR=0;RUN=1;SAF=0;SAP=611.023;SAR=280;SRF=0;SRP=1093.09;SRR=502;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.202 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/1:42:19,23:19:680:23:824:-61.8401,0,-48.8859 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/0:41:40,1:40:1428:1:36:0,-8.74395,-125.219 0/1:54:25,29:25:873:29:1025:-76.3051,0,-62.6289 0/1:36:21,15:21:756:15:540:-38.0995,0,-57.5286 0/1:49:19,30:19:684:30:1068:-81.6802,0,-47.1399 0/1:86:35,51:35:1248:51:1832:-139.272,0,-86.7363 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/0:65:65,0:65:2325:0:0:0,-19.5669,-209.506 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/1:137:51,86:51:1836:86:3048:-233.305,0,-124.273 0/1:19:11,8:11:392:8:288:-20.5478,0,-29.9005 0/1:11:3,8:3:104:8:284:-22.592,0,-6.39148 0/1:22:8,14:8:288:14:504:-39.0754,0,-19.6447 0/1:22:16,6:16:576:6:216:-13.1679,0,-45.5523 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/0:14:14,0:14:496:0:0:0,-4.21442,-44.9743 chr06 1870398 . A T 23155.8 PASS AB=0.455696;ABP=20.5195;AC=30;AF=0.714286;AN=42;AO=1224;CIGAR=1X;DP=1788;DPB=1788;DPRA=0;EPP=2652.21;EPPR=1227.72;GTI=0;LEN=1;MEANALT=1;MQM=39.8415;MQMR=59.9716;NS=21;NUMALT=1;ODDS=2.16788;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43562;QR=20170;RO=564;RPL=1223;RPP=2652.21;RPPR=1227.72;RPR=1;RUN=1;SAF=1224;SAP=2660.89;SAR=0;SRF=564;SRP=1227.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69:0:0:69:2452:-209.176,-20.7711,0 1/1:34:0,34:0:0:34:1224:-107.176,-10.235,0 0/1:109:66,43:66:2368:43:1544:-99.0512,0,-180.566 1/1:69:0,69:0:0:69:2467:-210.716,-20.7711,0 1/1:186:2,184:2:72:184:6571:-555.67,-49.1549,0 0/1:48:25,23:25:896:23:812:-56.7475,0,-66.5109 0/1:134:67,67:67:2408:67:2375:-166.459,0,-176.638 0/1:106:54,52:54:1932:52:1860:-129.326,0,-142.247 0/1:171:95,76:95:3400:76:2662:-181.145,0,-254.739 0/1:21:12,9:12:428:9:324:-22.0291,0,-32.5372 1/1:13:1,12:1:36:12:410:-32.5906,-0.315115,0 0/1:51:23,28:23:824:28:1000:-71.4708,0,-59.1308 1/1:89:1,88:1:36:88:3128:-265.133,-23.1934,0 1/1:124:0,124:0:0:124:4427:-379.915,-37.3277,0 0/1:130:77,53:77:2764:53:1882:-122.629,0,-209.867 0/1:26:21,5:21:752:5:176:-7.87883,0,-60.1795 0/1:25:11,14:11:396:14:504:-36.7824,0,-28.457 0/1:129:85,44:85:3011:44:1561:-96.6614,0,-232.367 0/1:77:23,54:23:811:54:1917:-140.927,0,-50.1307 1/1:123:0,123:0:0:123:4384:-379.129,-37.0267,0 1/1:54:1,53:1:36:53:1882:-160.953,-12.6573,0 chr06 1870403 . G A 23660.3 PASS AB=0.464147;ABP=14.5326;AC=30;AF=0.714286;AN=42;AO=1243;CIGAR=1X;DP=1801;DPB=1801;DPRA=0;EPP=2693.47;EPPR=1212.52;GTI=0;LEN=1;MEANALT=1.04762;MQM=39.8278;MQMR=59.9677;NS=21;NUMALT=1;ODDS=3.35302;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44350;QR=19720;RO=557;RPL=1242;RPP=2693.47;RPPR=1212.52;RPR=1;RUN=1;SAF=1243;SAP=2702.15;SAR=0;SRF=557;SRP=1212.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69:0:0:69:2460:-210.517,-20.7711,0 1/1:34:0,34:0:0:34:1209:-105.823,-10.235,0 0/1:107:64,43:64:2259:43:1505:-97.1227,0,-171.36 1/1:67:0,67:0:0:67:2404:-205.229,-20.169,0 1/1:188:2,186:2:72:186:6639:-561.822,-49.7569,0 0/1:48:25,23:25:888:23:820:-57.3482,0,-65.7896 0/1:137:69,68:69:2448:68:2440:-171.076,0,-179.335 0/1:107:52,55:52:1846:55:1959:-137.782,0,-134.208 0/1:171:93,77:93:3311:77:2760:-189.326,0,-246.674 0/1:22:12,10:12:432:10:360:-24.8371,0,-32.5985 1/1:13:1,12:1:36:12:432:-34.3413,-0.315115,0 0/1:50:22,28:22:784:28:1004:-72.0595,0,-55.8324 1/1:91:1,90:1:36:90:3208:-271.683,-23.7955,0 1/1:130:0,130:0:0:130:4630:-397.482,-39.1339,0 0/1:130:77,53:77:2729:53:1896:-123.723,0,-206.719 0/1:23:17,6:17:600:6:216:-12.2201,0,-47.4055 0/1:25:11,14:11:387:14:495:-36.0588,0,-27.6402 0/1:135:87,48:87:3036:48:1701:-107.005,0,-232.807 0/1:77:23,54:23:820:54:1927:-141.567,0,-50.9432 1/1:125:0,125:0:0:125:4467:-386.346,-37.6288,0 1/1:52:1,51:1:36:51:1818:-155.287,-12.0553,0 chr06 1870469 . G A 21565.6 PASS AB=0.509029;ABP=3.63772;AC=30;AF=0.714286;AN=42;AO=1054;CIGAR=1X;DP=1493;DPB=1493;DPRA=0;EPP=2291.74;EPPR=956.287;GTI=0;LEN=1;MEANALT=1;MQM=59.982;MQMR=60;NS=21;NUMALT=1;ODDS=6.28343;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37773;QR=15714;RO=439;RPL=1054;RPP=2291.74;RPPR=956.287;RPR=0;RUN=1;SAF=0;SAP=2291.74;SAR=1054;SRF=0;SRP=956.287;SRR=439;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,83:0:0:83:2941:-264.914,-24.9855,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 0/1:126:59,67:59:2112:67:2404:-178.687,0,-152.419 1/1:111:0,111:0:0:111:3996:-359.827,-33.4143,0 1/1:85:1,84:1:36:84:2994:-266.091,-21.9893,0 0/1:55:22,33:22:792:33:1184:-90.3117,0,-55.049 0/1:79:37,42:37:1323:42:1508:-112.233,0,-95.5899 0/1:110:56,54:56:2008:54:1940:-141.763,0,-147.88 0/1:163:90,73:90:3212:73:2620:-186.979,0,-240.236 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:30:22,8:22:792:8:288:-17.2365,0,-62.5748 1/1:36:1,35:1:36:35:1252:-109.387,-7.23881,0 1/1:97:0,97:0:0:97:3484:-313.77,-29.1999,0 0/1:109:47,62:47:1671:62:2228:-167.972,0,-117.864 0/1:22:7,15:7:252:15:539:-42.2235,0,-16.4063 0/1:30:19,11:19:680:11:392:-26.5892,0,-52.4983 0/1:74:46,28:46:1652:28:1004:-68.3996,0,-126.692 0/1:75:24,51:24:860:51:1832:-142.584,0,-55.1446 1/1:111:2,109:2:72:109:3912:-345.436,-26.5776,0 1/1:58:0,58:0:0:58:2071:-186.66,-17.4597,0 chr06 1875744 . C T 11199 PASS AB=0.449416;ABP=37.2807;AC=12;AF=0.285714;AN=42;AO=698;CIGAR=1X;DP=2654;DPB=2654;DPRA=1.51971;EPP=1510.02;EPPR=4222.22;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9513;MQMR=59.9535;NS=21;NUMALT=1;ODDS=18.2572;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24877;QR=69975;RO=1955;RPL=1;RPP=1510.02;RPPR=4222.22;RPR=697;RUN=1;SAF=698;SAP=1518.7;SAR=0;SRF=1955;SRP=4248.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:177:175,2:175:6276:2:72:0,-46.4456,-558.096 0/0:140:140,0:140:5020:0:0:0,-42.1442,-451.946 0/1:181:102,78:102:3652:78:2775:-195.446,0,-274.339 0/0:124:124,0:124:4431:0:0:0,-37.3277,-398.771 0/0:260:259,1:259:9279:1:36:0,-74.6695,-830.851 0/1:139:62,77:62:2217:77:2742:-205.18,0,-157.949 0/1:152:83,69:83:2976:69:2463:-176.167,0,-222.316 0/1:142:89,53:89:3183:53:1896:-128.172,0,-243.947 0/1:227:124,103:124:4428:103:3673:-262.439,0,-330.359 0/1:31:21,10:21:743:10:356:-23.0493,0,-57.8614 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:41:26,15:26:928:15:540:-36.5943,0,-71.496 0/0:146:146,0:146:5219:0:0:0,-43.9504,-469.849 0/0:122:120,2:120:4284:2:72:0,-29.8889,-378.902 0/1:164:94,70:94:3376:70:2482:-174.217,0,-254.683 0/1:74:50,24:50:1780:24:855:-54.994,0,-138.207 0/1:92:47,45:47:1684:45:1616:-118.035,0,-124.152 0/1:221:98,123:98:3520:123:4384:-328.203,0,-250.481 0/1:78:52,26:52:1856:26:915:-59.1852,0,-143.839 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/0:78:78,0:78:2795:0:0:0,-23.4803,-251.163 chr06 1875773 . C T 38436.4 PASS AB=0.548877;ABP=34.4264;AC=30;AF=0.714286;AN=42;AO=1907;CIGAR=1X;DP=2599;DPB=2599;DPRA=0;EPP=4135.33;EPPR=1505.67;GTI=0;LEN=1;MEANALT=1;MQM=59.9706;MQMR=59.9942;NS=21;NUMALT=1;ODDS=16.7372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67257;QR=23936;RO=692;RPL=1906;RPP=4135.33;RPPR=1505.67;RPR=1;RUN=1;SAF=1907;SAP=4144.01;SAR=0;SRF=692;SRP=1505.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:176:6,170:6:207:170:5988:-520.061,-34.0144,0 1/1:135:0,135:0:0:135:4785:-430.807,-40.6391,0 0/1:181:80,101:80:2793:101:3565:-266.569,0,-197.121 1/1:117:0,117:0:0:117:4104:-369.478,-35.2205,0 1/1:252:1,251:1:36:251:8888:-796.202,-72.2613,0 0/1:137:75,62:75:2572:62:2232:-159.902,0,-190.484 0/1:150:68,82:68:2366:82:2840:-210.681,0,-168.043 0/1:141:54,87:54:1844:87:3054:-232.642,0,-123.79 0/1:226:104,122:104:3636:122:4301:-319.234,0,-259.412 0/1:30:10,20:10:345:20:709:-55.1038,0,-22.3499 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:39:14,25:14:504:25:872:-67.0537,0,-33.9579 1/1:145:0,145:0:0:145:5095:-458.694,-43.6494,0 1/1:120:2,118:2:72:118:4116:-363.79,-29.2869,0 0/1:161:68,93:68:2366:93:3298:-248.573,0,-164.731 0/1:71:23,48:23:803:48:1711:-132.902,0,-51.2152 0/1:90:44,46:44:1524:46:1624:-119.353,0,-110.354 0/1:209:117,92:117:3947:92:3254:-230.165,0,-292.511 0/1:79:26,53:26:921:53:1880:-145.697,0,-59.4238 1/1:57:0,57:0:0:57:2022:-182.252,-17.1587,0 1/1:77:0,77:0:0:77:2703:-243.511,-23.1793,0 chr06 1897982 . TCT TCA,ACA 19962.6 PASS AB=0.527778,0.47037;ABP=6.62942,7.12806;AC=30,12;AF=0.714286,0.285714;AN=42;AO=692,254;CIGAR=2M1X,1X1M1X;DP=950;DPB=950;DPRA=0,0.987805;EPP=1505.67,554.564;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.71429,2;MQM=59.0997,46.5236;MQMR=60;NS=21;NUMALT=2;ODDS=8.4988;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24775,9013;QR=23;RO=1;RPL=692,254;RPP=1505.67,554.564;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1505.67,554.564;SAR=692,254;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,80,0:0:0:80,0:2872,0:-258.44,-24.0824,0,-258.44,-24.0824,-258.44 1/1:47:0,46,0:0:0:46,0:1656,0:-149.074,-13.8474,0,-149.074,-13.8474,-149.074 1/2:50:0,23,27:0:0:23,27:816,963:-143.424,-76.9427,-70.019,-66.8331,0,-58.7053 1/1:31:0,31,0:0:0:31,0:1097,0:-99.0362,-9.33193,0,-99.0362,-9.33193,-99.0362 1/1:83:0,83,0:0:0:83,0:2969,0:-267.249,-24.9855,0,-267.249,-24.9855,-267.249 1/2:52:0,30,22:0:0:30,22:1068,779:-150.259,-63.2406,-54.2097,-87.3717,0,-80.749 1/2:63:0,29,34:0:0:29,34:1040,1211:-182.015,-97.2156,-88.4858,-85.1535,0,-74.9185 1/2:22:0,13,9:0:0:13,9:468,320:-64.1928,-26.1959,-22.2825,-38.3517,0,-35.6424 1/2:81:0,35,46:0:0:35,46:1260,1615:-232.659,-129.857,-119.321,-103.156,0,-89.3083 1/2:25:0,14,11:0:0:14,11:504,388:-72.7752,-31.6548,-27.4403,-41.4746,0,-38.1632 1/1:4:0,4,0:0:0:4,0:144,0:-13.3099,-1.20412,0,-13.3099,-1.20412,-13.3099 1/2:35:1,18,16:1:23:18,16:644,572:-96.7973,-44.5865,-40.9295,-50.8689,0,-47.8146 1/1:48:0,47,0:0:0:47,0:1692,0:-152.313,-14.1484,0,-152.313,-14.1484,-152.313 1/1:52:0,52,0:0:0:52,0:1842,0:-166.052,-15.6536,0,-166.052,-15.6536,-166.052 1/2:98:0,54,44:0:0:54,44:1940,1570:-284.339,-126.097,-109.841,-158.597,0,-145.352 1/2:25:0,10,15:0:0:10,15:360,538:-73.1909,-43.8287,-40.8184,-29.7201,0,-25.2047 1/2:40:0,30,10:0:0:30,10:1080,350:-116.451,-28.5738,-19.5429,-88.2271,0,-85.2168 1/2:32:0,17,15:0:0:17,15:608,540:-93.5702,-43.9992,-38.8817,-49.9281,0,-45.4126 1/2:17:0,12,5:0:0:12,5:420,167:-47.9035,-13.7524,-10.14,-34.4881,0,-32.9829 1/1:47:0,47,0:0:0:47,0:1692,0:-152.507,-14.1484,0,-152.507,-14.1484,-152.507 1/1:18:0,17,0:0:0:17,0:603,0:-54.17,-5.11751,0,-54.17,-5.11751,-54.17 chr06 1915673 . GATGT AATGC,AATGT 38914.1 PASS AB=0.538614,0.457426;ABP=16.0907,18.9115;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1391,463;CIGAR=1X3M1X,1X4M;DP=1869;DPB=1869;DPRA=0,0.938877;EPP=3023.53,1008.4;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.28571,2.38462;MQM=59.2473,59.4752;MQMR=0;NS=21;NUMALT=2;ODDS=8.90305;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49001,16497;QR=0;RO=0;RPL=0,0;RPP=3023.53,1008.4;RPPR=0;RPR=1391,463;RUN=1,1;SAF=0,0;SAP=3023.53,1008.4;SAR=1391,463;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42,0:0:0:42,0:1485,0:-133.92,-12.6433,0,-133.92,-12.6433,-133.92 1/1:82:0,80,0:0:0:80,0:2833,0:-254.732,-24.0824,0,-254.732,-24.0824,-254.732 1/2:94:0,50,44:0:0:50,44:1749,1565:-270.128,-127.853,-112.802,-142.627,0,-129.382 1/1:114:0,111,0:0:0:111,0:3911,0:-351.477,-33.4143,0,-351.477,-33.4143,-351.477 1/1:211:0,208,0:0:0:208,0:7315,0:-657.739,-62.6142,0,-657.739,-62.6142,-657.739 1/2:98:0,43,55:0:0:43,55:1475,1976:-281.117,-161.433,-148.489,-120.034,0,-103.477 1/2:136:0,69,67:0:0:69,67:2429,2383:-391.997,-194.458,-173.686,-197.892,0,-177.723 1/2:37:0,20,17:0:0:20,17:705,608:-107.31,-49.9345,-43.9139,-57.7307,0,-52.6132 1/2:122:0,73,47:0:0:73,47:2587,1679:-347.617,-136.893,-114.918,-210.725,0,-196.577 1/2:16:0,11,5:0:0:11,5:387,180:-46.5154,-15.0469,-11.7356,-31.8257,0,-30.3205 1/1:10:0,10,0:0:0:10,0:355,0:-32.2446,-3.0103,0,-32.2446,-3.0103,-32.2446 1/2:26:0,13,13:0:0:13,13:454,468:-75.4487,-38.5463,-34.6329,-37.2568,0,-33.3434 1/1:139:0,138,0:0:0:138,0:4903,0:-441.013,-41.5421,0,-441.013,-41.5421,-441.013 1/1:119:0,117,1:0:0:117,1:4125,36:-370.653,-35.2205,0,-367.715,-32.1932,-367.414 1/2:176:0,88,87:0:0:88,87:3064,3116:-503.352,-254.234,-227.743,-249.249,0,-223.059 1/2:63:0,42,21:0:0:42,21:1471,756:-181.341,-61.8231,-49.1799,-119.873,0,-113.552 1/2:101:0,53,47:0:0:53,47:1884,1656:-288.199,-134.812,-118.858,-153.382,0,-139.233 1/2:87:0,49,38:0:0:49,38:1727,1331:-248.927,-108.376,-93.6257,-140.901,0,-129.462 1/2:54:0,33,21:0:0:33,21:1166,743:-155.818,-60.8717,-50.9377,-95.2998,0,-88.9782 1/1:78:0,78,0:0:0:78,0:2774,0:-249.799,-23.4803,0,-249.799,-23.4803,-249.799 1/1:64:0,63,0:0:0:63,0:2202,0:-198.062,-18.9649,0,-198.062,-18.9649,-198.062 chr06 1915711 . G T 7572.95 PASS AB=0.463221;ABP=14.8304;AC=12;AF=0.285714;AN=42;AO=468;CIGAR=1X;DP=1854;DPB=1854;DPRA=1.26908;EPP=1019.26;EPPR=3010.5;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.3056;MQMR=59.1285;NS=21;NUMALT=1;ODDS=9.39914;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16741;QR=49459;RO=1385;RPL=468;RPP=1019.26;RPPR=3010.5;RPR=0;RUN=1;SAF=0;SAP=1019.26;SAR=468;SRF=0;SRP=3010.5;SRR=1385;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.627 0/0:80:80,0:80:2863:0:0:0,-24.0824,-257.245 0/1:92:49,43:49:1740:43:1540:-111.171,0,-129.176 0/0:112:112,0:112:4000:0:0:0,-33.7154,-359.619 0/0:208:207,1:207:7412:1:36:0,-59.0312,-662.537 0/1:96:40,56:40:1432:56:2000:-151.256,0,-100.196 0/1:137:69,68:69:2448:68:2448:-179.133,0,-179.163 0/1:37:20,17:20:720:17:612:-44.2753,0,-53.9682 0/1:123:74,49:74:2640:49:1752:-120.92,0,-200.635 0/1:16:11,5:11:392:5:180:-11.7356,0,-30.7718 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.6573 0/1:27:12,15:12:428:15:540:-40.7839,0,-30.695 0/0:139:139,0:139:4972:0:0:0,-41.8432,-447.576 0/0:116:115,1:115:4108:1:36:0,-31.3212,-364.631 0/1:175:87,87:87:3104:87:3104:-226.819,0,-226.765 0/1:63:42,21:42:1500:21:728:-46.801,0,-116.006 0/1:100:54,46:54:1932:46:1656:-119.222,0,-143.874 0/1:87:49,38:49:1748:38:1353:-95.819,0,-131.346 0/1:53:32,21:32:1126:21:756:-52.4126,0,-85.6783 0/0:79:79,0:79:2832:0:0:0,-23.7814,-255.011 0/0:62:62,0:62:2198:0:0:0,-18.6639,-197.962 chr06 1992210 . G T,A 38797.1 PASS AB=0.521368,0.478632;ABP=6.72222,6.72222;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1356,449;CIGAR=1X,1X;DP=1807;DPB=1807;DPRA=0,0.857463;EPP=2947.53,978.001;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.66667,2;MQM=59.5885,59.7684;MQMR=60;NS=21;NUMALT=2;ODDS=20.3332;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48588,16061;QR=36;RO=1;RPL=1356,449;RPP=2947.53,978.001;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2947.53,978.001;SAR=1356,449;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,47,0:0:0:47,0:1692,0:-152.531,-14.1484,0,-152.531,-14.1484,-152.531 1/1:19:0,19,0:0:0:19,0:684,0:-61.8739,-5.71957,0,-61.8739,-5.71957,-61.8739 1/2:57:0,26,31:0:0:26,31:913,1099:-164.188,-89.8829,-82.0561,-74.6572,0,-65.3253 1/1:137:0,136,0:0:0:136,0:4861,0:-437.165,-40.9401,0,-437.165,-40.9401,-437.165 1/1:174:0,174,0:0:0:174,0:6226,0:-560.395,-52.3792,0,-560.395,-52.3792,-560.395 1/2:97:0,39,58:0:0:39,58:1404,2076:-284.195,-169.643,-157.902,-114.911,0,-97.4512 1/2:121:0,57,64:0:0:57,64:2052,2280:-353.572,-186.163,-169.004,-167.767,0,-148.501 1/2:77:0,35,42:0:0:35,42:1260,1500:-225.448,-122.642,-112.106,-103.165,0,-90.5216 1/2:122:0,74,48:0:0:74,48:2652,1724:-356.708,-140.91,-118.634,-216.156,0,-201.707 1/2:19:0,9,10:0:0:9,10:324,356:-55.8004,-29.3709,-26.6617,-26.7873,0,-23.777 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:43:0,26,17:0:0:26,17:932,612:-126.309,-50.2959,-42.4691,-76.3721,0,-71.2546 1/1:139:0,139,0:0:0:139,0:4967,0:-447.12,-41.8432,0,-447.12,-41.8432,-447.12 1/1:118:0,118,0:0:0:118,0:4227,0:-380.598,-35.5215,0,-380.598,-35.5215,-380.598 1/2:141:0,88,53:0:0:88,53:3153,1890:-411.538,-154.418,-127.928,-257.476,0,-241.522 1/2:37:0,19,18:0:0:19,18:684,648:-109.042,-53.2324,-47.5129,-56.1698,0,-50.7513 1/2:29:0,7,22:0:0:7,22:252,788:-85.1836,-64.6221,-62.5149,-20.9208,0,-14.2982 1/2:107:0,43,64:0:0:43,64:1548,2300:-314.295,-187.986,-175.041,-126.669,0,-107.403 1/2:86:0,65,21:0:0:65,21:2324,752:-251.161,-61.6846,-42.1177,-189.835,0,-183.513 1/1:116:0,115,1:0:0:115,1:4121,36:-368.934,-34.6185,0,-365.996,-31.3212,-365.695 1/1:110:1,109,0:1:36:109,0:3916,0:-348.576,-29.515,0,-348.877,-32.8123,-351.814 chr06 2051823 . CTTC TTTT 20375.7 PASS AB=0.581102;ABP=111.847;AC=22;AF=0.52381;AN=42;AO=1168;CIGAR=1X2M1X;DP=1969;DPB=1969;DPRA=0;EPP=2539.29;EPPR=1722.83;GTI=0;LEN=4;MEANALT=1.2381;MQM=52.893;MQMR=59.9497;NS=21;NUMALT=1;ODDS=3.82115;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41264;QR=27822;RO=796;RPL=1168;RPP=2539.29;RPPR=1722.83;RPR=0;RUN=1;SAF=1168;SAP=2539.29;SAR=0;SRF=796;SRP=1731.5;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:14,17:14:497:17:606:-45.4649,0,-35.7327 0/1:48:16,32:16:562:32:1133:-87.4252,0,-36.4598 0/1:101:52,49:52:1808:49:1711:-123.673,0,-132.588 0/1:107:60,47:60:2081:47:1680:-119.067,0,-155.348 0/1:221:58,163:58:2017:163:5776:-452.736,0,-115.272 0/1:84:23,60:23:798:60:2085:-161.853,0,-46.7932 0/1:183:53,130:53:1882:130:4577:-355.418,0,-114.57 0/1:46:28,18:28:984:18:630:-43.1072,0,-75.0253 0/1:145:46,99:46:1619:99:3520:-272.932,0,-102.349 0/1:23:18,5:18:622:5:180:-9.6049,0,-49.3772 0/1:11:5,6:5:174:6:216:-16.3954,0,-12.6899 0/1:47:36,11:36:1275:11:390:-21.2425,0,-100.905 0/1:113:65,48:65:2257:48:1721:-120.945,0,-169.366 0/1:129:54,74:54:1865:74:2635:-198.184,0,-129.221 0/1:92:23,69:23:813:69:2443:-192.128,0,-45.7956 1/1:64:3,61:3:106:61:2135:-182.275,-9.37682,0 0/1:53:12,41:12:407:41:1444:-114.126,0,-21.0002 0/1:91:59,32:59:2061:32:1125:-73.9814,0,-158.366 0/1:96:58,37:58:2032:37:1311:-89.2129,0,-154.232 0/1:168:81,85:81:2829:85:2996:-219.146,0,-204.52 0/1:116:32,84:32:1133:84:2950:-229.771,0,-67.3592 chr06 2060113 . C T 15128.4 PASS AB=0.504146;ABP=3.28038;AC=12;AF=0.285714;AN=42;AO=925;CIGAR=1X;DP=3301;DPB=3301;DPRA=1.39822;EPP=2011.62;EPPR=5101.81;GTI=0;LEN=1;MEANALT=1;MQM=59.9492;MQMR=59.9878;NS=21;NUMALT=1;ODDS=26.0907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32657;QR=84879;RO=2376;RPL=0;RPP=2011.62;RPPR=5101.81;RPR=925;RUN=1;SAF=0;SAP=2011.62;SAR=925;SRF=0;SRP=5162.43;SRR=2376;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:180:180,0:180:6398:0:0:0,-54.1854,-575.908 0/0:125:125,0:125:4469:0:0:0,-37.6287,-402.379 0/1:192:101,91:101:3616:91:3186:-229.168,0,-267.848 0/0:218:217,1:217:7768:1:36:0,-62.0263,-695.553 0/0:304:297,7:297:10590:7:240:0,-69.5785,-930.947 0/1:211:107,104:107:3831:104:3716:-271.124,0,-281.469 0/1:182:81,101:81:2904:101:3553:-265.088,0,-206.808 0/1:240:125,115:125:4473:115:4053:-292.708,0,-330.486 0/1:350:166,184:166:5914:184:6481:-478.026,0,-427.008 0/1:22:12,10:12:428:10:348:-25.0325,0,-32.2361 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:63:23,40:23:828:40:1400:-107.332,0,-55.8792 0/0:225:225,0:225:8073:0:0:0,-67.7317,-726.584 0/0:185:184,1:184:6587:1:36:0,-52.0923,-589.312 0/1:179:108,71:108:3834:71:2492:-170.651,0,-291.371 0/1:85:37,48:37:1332:48:1704:-128.058,0,-94.5948 0/1:160:64,96:64:2255:96:3420:-259.851,0,-155.043 0/1:68:32,36:32:1148:36:1276:-94.673,0,-83.1598 0/1:57:41,16:41:1476:16:576:-35.0163,0,-115.977 0/0:182:178,4:178:6354:4:140:0,-41.8429,-559.004 0/0:50:50,0:50:1777:0:0:0,-15.0515,-160.211 chr06 2147623 . A G 4799.79 PASS AB=0.279874;ABP=136.849;AC=27;AF=0.642857;AN=42;AO=260;CIGAR=1X;DP=585;DPB=585;DPRA=0;EPP=516.68;EPPR=530.585;GTI=3;LEN=1;MEANALT=1;MQM=59.7577;MQMR=59.9815;NS=21;NUMALT=1;ODDS=0.0004888;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9260;QR=11591;RO=325;RPL=254;RPP=516.68;RPPR=538.121;RPR=6;RUN=1;SAF=0;SAP=567.593;SAR=260;SRF=1;SRP=700.08;SRR=324;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:7:0,7:0:0:7:244:-22.2975,-2.10721,0 0/1:25:19,6:19:676:6:212:-11.899,0,-53.6422 1/1:8:0,8:0:0:8:279:-25.4452,-2.40824,0 1/1:34:2,32:2:72:32:1148:-96.7898,-3.3983,0 0/1:37:31,6:31:1112:6:216:-8.6524,0,-89.2532 0/1:56:46,10:46:1652:10:360:-15.8866,0,-132.111 0/1:40:27,13:27:953:13:468:-30.4092,0,-74.0421 0/0:51:50,1:50:1783:1:36:0,-11.7543,-157.154 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 1/1:24:0,24:0:0:24:848:-76.6384,-7.22472,0 0/1:74:63,11:63:2240:11:392:-13.3438,0,-179.588 0/0:30:29,1:29:1040:1:36:0,-5.43262,-90.3161 0/0:14:13,1:13:460:1:36:0,-0.616145,-38.1371 0/1:50:24,26:24:851:26:913:-67.4039,0,-61.8533 0/1:19:8,11:8:284:11:388:-29.5369,0,-20.1838 1/1:50:2,48:2:72:48:1708:-147.169,-8.21478,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 chr06 2177650 . C A 11658.4 PASS AB=0.472961;ABP=17.8061;AC=12;AF=0.285714;AN=42;AO=1105;CIGAR=1X;DP=3475;DPB=3475;DPRA=1.63563;EPP=2402.49;EPPR=5149.4;GTI=0;LEN=1;MEANALT=1;MQM=30.1937;MQMR=24.4878;NS=21;NUMALT=1;ODDS=25.9284;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39432;QR=84749;RO=2370;RPL=0;RPP=2402.49;RPPR=5149.4;RPR=1105;RUN=1;SAF=0;SAP=2402.49;SAR=1105;SRF=0;SRP=5149.4;SRR=2370;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:116,0:116:4130:0:0:0,-34.9195,-274.533 0/0:56:56,0:56:2008:0:0:0,-16.8577,-110.205 0/1:60:36,24:36:1296:24:851:-44.4816,0,-68.0177 0/0:86:86,0:86:3080:0:0:0,-25.8886,-204.058 0/0:195:192,3:192:6860:3:108:0,-50.5731,-446.381 0/1:40:27,13:27:963:13:468:-22.2822,0,-41.1357 0/1:105:42,63:42:1487:63:2260:-133.034,0,-50.9537 0/1:83:47,36:47:1692:36:1292:-69.3176,0,-75.6522 0/1:133:63,70:63:2255:70:2498:-149.178,0,-119.253 0/1:341:179,162:179:6409:162:5779:-319.522,0,-278.876 0/0:479:479,0:479:17187:0:0:0,-144.193,-942.105 0/1:513:245,268:245:8708:268:9573:-543.802,0,-368.257 0/0:49:49,0:49:1749:0:0:0,-14.7505,-115.074 0/0:69:69,0:69:2468:0:0:0,-20.7711,-164.499 0/1:60:35,25:35:1256:25:896:-47.4367,0,-64.9042 0/1:76:35,41:35:1245:41:1472:-89.0381,0,-68.5884 0/1:57:24,33:24:864:33:1171:-72.5628,0,-44.0588 0/1:814:463,351:463:16582:351:12496:-666.642,0,-743.232 0/1:48:32,16:32:1152:16:568:-27.4321,0,-62.0951 0/0:45:45,0:45:1599:0:0:0,-13.5463,-95.7864 0/0:50:50,0:50:1759:0:0:0,-15.0515,-97.6653 chr06 2177682 . GTCC ATCT,ATCC 39992.5 PASS AB=0.526698,0.471593;ABP=17.5038,19.4183;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2394,1108;CIGAR=1X2M1X,1X3M;DP=3506;DPB=3506;DPRA=0,3.1219;EPP=5201.52,2409;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=1.80952,2.21429;MQM=24.4699,30.2274;MQMR=40;NS=21;NUMALT=2;ODDS=26.582;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=85158,33383;QR=36;RO=1;RPL=2394,1108;RPP=5201.52,2409;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5201.52,2409;SAR=2394,1108;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,121,0:0:0:121,0:4268,0:-285.606,-36.4246,0,-285.606,-36.4246,-285.606 1/1:58:0,58,0:0:0:58,0:2072,0:-114.04,-17.4597,0,-114.04,-17.4597,-114.04 1/2:61:0,36,25:0:0:36,25:1294,738:-127.684,-52.7295,-41.8924,-75.2201,0,-67.6943 1/1:87:0,87,0:0:0:87,0:3101,0:-206.232,-26.1896,0,-206.232,-26.1896,-206.232 1/1:198:0,195,3:0:0:195,3:6961,90:-461.667,-58.7009,0,-455.282,-52.0462,-454.379 1/2:39:0,27,12:0:0:27,12:958,360:-70.4791,-25.8088,-17.681,-44.9241,0,-41.3117 1/2:105:0,42,63:0:0:42,63:1492,1876:-203.275,-133.537,-120.894,-69.9766,0,-51.0117 1/2:83:0,46,37:0:0:46,37:1632,1111:-163.246,-79.105,-65.2576,-84.3961,0,-73.258 1/2:136:0,64,72:0:0:64,72:2280,2250:-304.084,-162.081,-142.815,-142.284,0,-120.61 1/2:343:0,180,163:0:0:180,163:6419,4874:-675.252,-346.157,-291.971,-329.348,0,-280.281 1/1:483:0,482,1:0:0:482,1:17146,36:-945.291,-145.096,0,-942.543,-142.01,-942.242 1/2:514:0,243,271:0:0:243,271:8651,8144:-1022.83,-578.642,-505.492,-444.443,0,-362.864 1/1:51:0,51,0:0:0:51,0:1814,0:-120.087,-15.3525,0,-120.087,-15.3525,-120.087 1/1:71:0,71,0:0:0:71,0:2528,0:-169.004,-21.3731,0,-169.004,-21.3731,-169.004 1/2:60:0,36,23:0:0:36,23:1279,690:-123.435,-49.0034,-38.1663,-74.4819,0,-67.5582 1/2:78:0,36,41:0:0:36,41:1279,1300:-175.964,-93.4904,-82.6533,-82.4086,0,-70.0664 1/2:59:0,26,33:0:0:26,33:911,1039:-132.598,-75.0902,-67.2635,-57.7892,0,-47.8552 1/2:814:1,465,347:1:36:465,347:16537,10363:-1581.44,-732.172,-595.001,-846.727,0,-745.078 1/2:49:0,32,17:0:0:32,17:1150,512:-103.251,-36.6311,-26.9981,-66.8892,0,-61.7717 1/1:45:0,45,0:0:0:45,0:1589,0:-95.5404,-13.5464,0,-95.5404,-13.5464,-95.5404 1/1:51:0,51,0:0:0:51,0:1797,0:-99.6642,-15.3525,0,-99.6642,-15.3525,-99.6642 chr06 2177723 . C T 19787.5 PASS AB=0.523364;ABP=7.06913;AC=30;AF=0.714286;AN=42;AO=971;CIGAR=1X;DP=1383;DPB=1383;DPRA=0;EPP=2094.17;EPPR=878.198;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.5077;MQMR=59.8564;NS=21;NUMALT=1;ODDS=6.40395;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34736;QR=14707;RO=411;RPL=0;RPP=2111.51;RPPR=895.485;RPR=971;RUN=1;SAF=969;SAP=2094.17;SAR=2;SRF=409;SRP=878.198;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59:0:0:59:2124:-191.424,-17.7608,0 1/1:39:0,39:0:0:39:1382:-124.652,-11.7402,0 0/1:79:43,36:43:1540:36:1280:-91.7031,0,-115.112 1/1:63:0,63:0:0:63:2264:-204.007,-18.9649,0 1/1:82:3,79:3:104:79:2825:-244.696,-14.9817,0 0/1:46:30,16:30:1068:16:572:-37.966,0,-82.5847 0/1:83:32,50:32:1143:50:1791:-136.556,0,-78.2798 0/1:117:51,66:51:1816:66:2372:-178.517,0,-128.131 0/1:139:71,68:71:2552:68:2440:-177.988,0,-188.081 0/1:19:5,14:5:180:14:490:-38.6893,0,-10.8325 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:32:16,16:16:572:16:559:-41.0046,0,-42.1805 1/1:71:0,71:0:0:71:2533:-228.127,-21.3731,0 1/1:90:1,89:1:36:89:3196:-284.25,-23.4944,0 0/1:140:75,65:75:2680:65:2334:-168.156,0,-199.195 0/1:30:16,14:16:576:14:500:-36.2937,0,-43.1379 0/1:18:2,16:2:72:16:572:-46.3949,0,-1.41818 0/1:111:45,66:45:1616:66:2346:-177.898,0,-112.316 0/1:42:21,21:21:752:21:743:-54.5501,0,-55.363 1/1:67:0,67:0:0:67:2405:-216.476,-20.169,0 1/1:51:0,51:0:0:51:1828:-164.785,-15.3525,0 chr06 2177781 . C T 6467.06 PASS AB=0.505249;ABP=3.19268;AC=12;AF=0.285714;AN=42;AO=386;CIGAR=1X;DP=1535;DPB=1535;DPRA=0.794489;EPP=841.199;EPPR=2498.03;GTI=0;LEN=1;MEANALT=1;MQM=59.8497;MQMR=59.9965;NS=21;NUMALT=1;ODDS=16.5038;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13839;QR=41042;RO=1149;RPL=386;RPP=841.199;RPPR=2498.03;RPR=0;RUN=1;SAF=0;SAP=841.199;SAR=386;SRF=0;SRP=2498.03;SRR=1149;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:94,0:94:3372:0:0:0,-28.2968,-303.693 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/1:42:21,21:21:756:21:756:-55.724,0,-55.724 0/0:103:102,1:102:3648:1:36:0,-27.4078,-324.926 0/0:143:143,0:143:5091:0:0:0,-43.0473,-458.336 0/1:51:20,31:20:716:31:1112:-85.0388,0,-49.4152 0/1:85:49,36:49:1752:36:1292:-90.8892,0,-132.377 0/1:103:59,44:59:2111:44:1561:-109.546,0,-159.252 0/1:146:67,79:67:2396:79:2832:-211.165,0,-171.947 0/1:14:8,6:8:284:6:214:-15.3933,0,-21.6889 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:49:18,31:18:644:31:1116:-86.0012,0,-43.5401 0/0:107:107,0:107:3832:0:0:0,-32.2102,-345.077 0/0:120:120,0:120:4263:0:0:0,-36.1236,-383.849 0/1:81:31,50:31:1112:50:1796:-137.537,0,-76.0079 0/1:46:25,21:25:900:21:752:-54.1589,0,-67.4736 0/1:29:19,10:19:676:10:360:-24.0144,0,-52.4381 0/1:54:21,33:21:748:33:1184:-90.6127,0,-51.3897 0/1:62:39,23:39:1374:23:828:-56.1803,0,-105.293 0/0:88:88,0:88:3140:0:0:0,-26.4906,-282.827 0/0:69:69,0:69:2467:0:0:0,-20.7711,-222.283 chr06 2178087 . A G 5940.64 PASS AB=0.487075;ABP=4.07683;AC=9;AF=0.214286;AN=42;AO=359;CIGAR=1X;DP=1623;DPB=1623;DPRA=1.02283;EPP=782.569;EPPR=2736.9;GTI=0;LEN=1;MEANALT=1;MQM=59.961;MQMR=59.9834;NS=21;NUMALT=1;ODDS=10.3322;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12842;QR=45028;RO=1263;RPL=359;RPP=782.569;RPPR=2745.58;RPR=0;RUN=1;SAF=359;SAP=782.569;SAR=0;SRF=1262;SRP=2736.9;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:56:56,0:56:2000:0:0:0,-16.8577,-180.274 0/0:56:55,0:55:1921:0:0:0,-16.5566,-172.806 0/0:71:71,0:71:2536:0:0:0,-21.3731,-228.491 0/1:113:49,64:49:1756:64:2296:-172.885,0,-124.308 0/0:97:97,0:97:3453:0:0:0,-29.1999,-310.982 0/1:53:33,20:33:1176:20:716:-48.8131,0,-90.1932 0/1:112:45,67:45:1612:67:2387:-181.336,0,-111.655 0/1:134:81,53:81:2900:53:1900:-130.94,0,-220.898 0/0:147:147,0:147:5260:0:0:0,-44.2514,-473.38 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/1:99:48,51:48:1701:51:1828:-134.999,0,-123.572 0/0:98:98,0:98:3476:0:0:0,-29.5009,-313.055 0/0:83:83,0:83:2960:0:0:0,-24.9855,-266.634 0/0:35:35,0:35:1248:0:0:0,-10.536,-112.625 0/0:47:46,1:46:1636:1:36:0,-10.5501,-143.93 0/1:100:41,59:41:1449:59:2103:-159.436,0,-100.601 0/1:109:73,36:73:2620:36:1288:-83.4113,0,-203.235 0/0:124:124,0:124:4416:0:0:0,-37.3277,-397.615 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 chr06 2178114 . A G 11185.8 PASS AB=0.346853;ABP=485.216;AC=21;AF=0.5;AN=42;AO=821;CIGAR=1X;DP=2367;DPB=2367;DPRA=0;EPP=1785.79;EPPR=3357.94;GTI=3;LEN=1;MEANALT=1.04762;MQM=59.9951;MQMR=59.9722;NS=21;NUMALT=1;ODDS=6.551;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28820;QR=54516;RO=1545;RPL=3;RPP=1759.83;RPPR=3263.07;RPR=818;RUN=1;SAF=3;SAP=1759.83;SAR=818;SRF=1534;SRP=3263.07;SRR=11;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:55,62:55:1930:62:2152:-158.718,0,-138.755 0/1:84:55,29:55:1930:29:1027:-67.4557,0,-148.689 0/1:98:69,29:69:2452:29:994:-60.2643,0,-191.435 0/1:174:112,62:112:3935:62:2146:-141.026,0,-301.967 0/1:214:98,116:98:3478:116:4093:-304.137,0,-248.804 0/1:51:44,7:44:1555:7:248:-7.31166,0,-124.888 0/1:138:110,27:110:3888:27:959:-45.0246,0,-308.501 0/1:185:127,58:127:4505:58:2051:-129.171,0,-349.93 0/1:181:135,46:135:4784:46:1614:-91.0612,0,-376.209 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:22:9,13:9:320:13:456:-34.7506,0,-22.5197 0/1:198:100,98:100:3500:98:3440:-250.21,0,-255.608 0/1:163:90,73:90:3118:73:2533:-179.153,0,-231.78 0/1:113:79,34:79:2820:34:1180:-72.4853,0,-220.023 0/1:60:34,26:34:1192:26:928:-65.7765,0,-89.5233 0/1:62:42,20:42:1470:20:712:-45.7428,0,-113.929 0/1:114:97,17:97:3460:17:608:-20.7346,0,-277.296 0/1:125:102,23:102:3609:23:820:-36.4938,0,-287.389 0/1:175:114,61:114:4010:61:2172:-143.067,0,-308.415 0/1:77:59,18:59:2056:18:615:-32.4885,0,-162.13 chr06 2178125 . C A 15791.1 PASS AB=0.64868;ABP=497.624;AC=22;AF=0.52381;AN=42;AO=1780;CIGAR=1X;DP=2696;DPB=2696;DPRA=0;EPP=3868.23;EPPR=1992.08;GTI=2;LEN=1;MEANALT=1;MQM=26.4663;MQMR=59.9585;NS=21;NUMALT=1;ODDS=1.58604;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63515;QR=32537;RO=916;RPL=0;RPP=3868.23;RPPR=1992.08;RPR=1780;RUN=1;SAF=0;SAP=3868.23;SAR=1780;SRF=0;SRP=1992.08;SRR=916;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:202:64,138:64:2271:138:4940:-262.467,0,-143.844 0/1:82:28,54:28:1004:54:1924:-92.7935,0,-65.9914 0/1:161:30,131:30:1068:131:4700:-255.401,0,-47.9662 0/1:87:61,26:61:2176:26:915:-33.7457,0,-169.917 0/1:293:119,174:119:4189:174:6241:-318.076,0,-288.993 1/1:120:11,109:11:396:109:3878:-189.085,-0.140851,0 0/1:173:43,130:43:1528:130:4651:-216.702,0,-85.7349 0/1:136:66,70:66:2347:70:2478:-108.967,0,-170.549 0/1:237:73,164:73:2591:164:5840:-333.23,0,-162.095 0/1:9:1,8:1:36:8:288:-14.6175,0,-0.889005 0/1:8:6,2:6:216:2:72:-1.9216,0,-17.3823 0/1:25:13,12:13:464:12:428:-18.312,0,-34.5718 0/1:178:104,74:104:3702:74:2621:-120.77,0,-279.799 0/1:201:75,126:75:2664:126:4473:-232.293,0,-179.497 0/1:250:37,213:37:1313:213:7635:-415.308,0,-42.2738 0/1:70:28,42:28:1004:42:1491:-83.2162,0,-69.6038 0/1:72:24,48:24:864:48:1702:-95.5836,0,-56.4084 0/1:52:17,35:17:608:35:1252:-60.3095,0,-39.3985 0/1:76:24,52:24:847:52:1831:-98.347,0,-53.6704 0/1:172:63,109:63:2240:109:3899:-184.11,0,-150.087 0/1:92:29,63:29:1009:63:2256:-101.141,0,-63.4239 chr06 2178147 . G A 28028.1 PASS AB=0.672936;ABP=817.901;AC=22;AF=0.52381;AN=42;AO=2301;CIGAR=1X;DP=3345;DPB=3345;DPRA=0;EPP=4541.54;EPPR=569.765;GTI=2;LEN=1;MEANALT=1;MQM=34.4316;MQMR=59.9962;NS=21;NUMALT=1;ODDS=1.98643;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82322;QR=37245;RO=1044;RPL=54;RPP=4541.54;RPPR=569.765;RPR=2247;RUN=1;SAF=0;SAP=4999.57;SAR=2301;SRF=0;SRP=2270.03;SRR=1044;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:199:66,133:66:2325:133:4747:-252.525,0,-149.599 0/1:82:30,52:30:1072:52:1872:-89.1605,0,-72.108 0/1:168:42,126:42:1508:126:4515:-240.726,0,-85.4416 0/1:160:62,98:62:2220:98:3492:-244.998,0,-151.9 0/1:290:120,170:120:4277:170:6101:-309.324,0,-297.809 1/1:208:18,190:18:620:190:6785:-430.281,-6.4941,0 0/1:316:58,258:58:2061:258:9244:-592.655,0,-90.634 0/1:231:95,136:95:3388:136:4864:-290.429,0,-235.599 0/1:240:75,165:75:2677:165:5907:-335.852,0,-168.926 0/1:12:2,10:2:72:10:360:-20.2158,0,-3.22436 0/1:8:6,2:6:216:2:72:-1.9216,0,-17.3823 0/1:52:16,36:16:572:36:1296:-88.0223,0,-36.1599 0/1:266:106,160:106:3783:160:5699:-371.011,0,-260.595 0/1:204:76,128:76:2732:128:4592:-237.077,0,-184.712 0/1:270:57,213:57:2029:213:7624:-411.137,0,-101.603 0/1:70:28,42:28:1004:42:1500:-83.2312,0,-69.6038 0/1:74:25,49:25:900:49:1737:-96.8998,0,-59.0448 0/1:121:38,83:38:1356:83:2956:-192.561,0,-85.9159 0/1:116:31,85:31:1097:85:3043:-192.313,0,-64.1185 0/1:167:63,104:63:2256:104:3732:-173.983,0,-153.031 0/1:91:30,61:30:1080:61:2184:-98.7028,0,-70.1195 chr06 2178154 . GAAGGTATTAAA GA,CAAGGTATTAAA 24045.2 PASS AB=0.476517,0.282779;ABP=17.6964,1259.59;AC=17,16;AF=0.404762,0.380952;AN=42;AO=1461,867;CIGAR=1M10D1M,1X11M;DP=3066;DPB=1848.42;DPRA=0,0;EPP=3175.53,1885.68;EPPR=1259.46;GTI=2;LEN=10,1;MEANALT=2.7619,2.7619;MQM=25.3867,60;MQMR=59.936;NS=21;NUMALT=2;ODDS=0.525906;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49799,31040;QR=25224;RO=719;RPL=1461,867;RPP=3175.53,1885.68;RPPR=1259.46;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3175.53,1885.68;SAR=1461,867;SRF=0;SRP=1564.3;SRR=719;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:170:0,106,63:0:0:106,63:3578,2237:-389.413,-182.268,-150.359,-207.102,0,-188.137 1/2:65:0,35,29:0:0:35,29:1225,1044:-145.875,-85.1851,-74.6491,-60.6319,0,-51.9021 1/2:145:12,104,29:12:422:104,29:3495,1040:-248.408,-50.4812,-53.5238,-167.171,0,-192.803 0/2:159:76,21,62:76:2666:21,62:676,2220:-158.25,-141.48,-352.117,0,-177.392,-198.382 1/2:267:3,147,117:3:101:147,117:5042,4169:-618.058,-331.652,-295.584,-279.099,0,-252.063 0/1:191:93,87,10:93:3266:87,10:2979,360:-122.046,0,-239.623,-120.654,-236.438,-383.528 0/1:302:149,110,42:149:5213:110,42:3803,1504:-145.385,0,-390.926,-67.5494,-301.384,-479.022 0/2:220:98,59,62:98:3436:59,62:1930,2228:-152.325,-77.9159,-339.76,0,-175.756,-261.02 1/2:213:28,138,46:28:989:138,46:4687,1641:-335.201,-53.2336,-92.2326,-209.835,0,-276.545 0/1:11:3,7,1:3:106:7,1:233,36:-11.3923,0,-6.52063,-9.3418,-5.68876,-17.7104 1/2:7:0,1,2:0:0:1,2:36,72:-7.60594,-5.87483,-5.5738,-1.72356,0,-1.1215 0/2:49:27,10,12:27:952:10,12:352,432:-27.1884,-17.0877,-91.5871,0,-59.3461,-73.987 0/2:252:90,57,103:90:3159:57,103:1919,3681:-273.104,-190.299,-430.237,0,-147.263,-226.154 1/2:177:0,101,73:0:0:101,73:3351,2624:-409.463,-214.11,-183.706,-195.346,0,-173.371 1/2:240:22,181,37:22:786:181,37:6230,1324:-392.976,-43.8821,-53.4802,-291.614,0,-344.572 1/2:65:3,36,26:3:102:36,26:1233,932:-142.168,-67.7588,-65.1932,-67.0182,0,-67.4705 1/2:69:4,44,20:4:138:44,20:1512,720:-139.143,-47.5491,-45.5126,-81.571,0,-86.7677 0/1:117:68,30,17:68:2379:30,17:1053,612:-34.0039,0,-184.512,-4.49742,-143.605,-193.004 0/1:109:42,43,24:42:1474:43,24:1489,864:-72.2939,0,-107.01,-14.4009,-49.4531,-127.185 1/2:156:0,93,62:0:0:93,62:3232,2224:-350.627,-181.4,-153.405,-169.176,0,-150.513 1/2:82:1,51,30:1:35:51,30:1744,1076:-172.27,-84.9244,-72.4193,-84.7581,0,-78.5773 chr06 2178357 . ACATA GCATG,GCATA 44400.7 PASS AB=0.55977,0.436782;ABP=30.0064,33.2112;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1749,383;CIGAR=1X3M1X,1X4M;DP=2143;DPB=2143;DPRA=0,0.831912;EPP=3800.92,834.684;EPPR=0;GTI=1;LEN=5,1;MEANALT=2,2.27273;MQM=45.1023,57.3786;MQMR=0;NS=21;NUMALT=2;ODDS=4.63239;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61221,13688;QR=0;RO=0;RPL=1749,383;RPP=3800.92,834.684;RPPR=0;RPR=0,0;RUN=1,1;SAF=1749,383;SAP=3800.92,834.684;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:0,179,0:0:0:179,0:6331,0:-564.24,-53.8844,0,-564.24,-53.8844,-564.24 1/1:108:0,107,1:0:0:107,1:3760,36:-326.73,-32.2102,0,-323.793,-28.913,-323.491 1/1:101:0,100,0:0:0:100,0:3501,0:-309.244,-30.103,0,-309.244,-30.103,-309.244 1/2:112:0,63,49:0:0:63,49:2138,1751:-314.232,-143.091,-124.127,-171.488,0,-156.738 1/1:46:0,44,2:0:0:44,2:1553,72:-137.915,-13.2453,0,-132.04,-7.01066,-131.438 1/2:122:0,79,42:0:0:79,42:2808,1508:-345.393,-123.02,-99.2389,-222.456,0,-209.813 1/2:136:0,81,55:0:0:81,55:2831,1959:-383.535,-159.762,-135.378,-224.123,0,-207.566 1/2:156:0,94,61:0:0:94,61:3268,2175:-434.78,-177.156,-148.859,-257.689,0,-239.326 1/1:243:0,240,0:0:0:240,0:8431,0:-750.122,-72.2472,0,-750.122,-72.2472,-750.122 1/1:14:0,14,0:0:0:14,0:487,0:-43.1478,-4.21442,0,-43.1478,-4.21442,-43.1478 1/2:9:0,7,2:0:0:7,2:250,72:-26.015,-6.23141,-4.1242,-20.1406,0,-19.5385 1/2:31:0,7,24:0:0:7,24:250,860:-90.2135,-70.3615,-68.2543,-20.2026,0,-12.9779 1/2:141:0,71,70:0:0:71,70:2482,2508:-404.408,-204.813,-183.44,-199.947,0,-178.874 1/1:115:0,114,0:0:0:114,0:3980,0:-354.747,-34.3174,0,-354.747,-34.3174,-354.747 1/1:148:0,147,0:0:0:147,0:5151,0:-459.603,-44.2514,0,-459.603,-44.2514,-459.603 1/1:103:0,102,0:0:0:102,0:3571,0:-317.849,-30.7051,0,-317.849,-30.7051,-317.849 1/1:101:0,101,0:0:0:101,0:3495,0:-311.368,-30.404,0,-311.368,-30.404,-311.368 1/2:108:0,45,63:0:0:45,63:1522,2247:-301.892,-183.288,-169.742,-118.942,0,-99.9772 1/2:55:0,40,14:0:0:40,14:1417,500:-155.174,-40.8117,-28.7705,-114.407,0,-110.193 1/1:59:0,58,0:0:0:58,0:2049,0:-179.572,-17.4597,0,-179.572,-17.4597,-179.572 1/1:56:0,56,0:0:0:56,0:1946,0:-170.728,-16.8577,0,-170.728,-16.8577,-170.728 chr06 2178366 . C A 1198.51 PASS AB=0.230249;ABP=1219.04;AC=16;AF=0.380952;AN=42;AO=472;CIGAR=1X;DP=2591;DPB=2591;DPRA=1.17217;EPP=1027.95;EPPR=4604.36;GTI=11;LEN=1;MEANALT=1;MQM=29.5636;MQMR=47.2553;NS=21;NUMALT=1;ODDS=5.88037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16709;QR=75516;RO=2119;RPL=1;RPP=1019.28;RPPR=4587;RPR=471;RUN=1;SAF=1;SAP=1019.28;SAR=471;SRF=2117;SRP=4587;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:192:178,14:178:6341:14:491:0,-25.5452,-532.088 0/0:106:106,0:106:3780:0:0:0,-31.9092,-329.499 0/1:129:98,31:98:3478:31:1090:-41.6315,0,-268.204 0/1:139:110,29:110:3913:29:1027:-24.9025,0,-307.453 0/1:99:45,54:45:1620:54:1902:-94.1224,0,-114.085 0/1:141:121,20:121:4321:20:708:-6.84059,0,-339.307 0/1:167:135,32:135:4816:32:1125:-26.7328,0,-376.01 0/0:159:152,7:152:5446:7:244:0,-27.4967,-459.738 0/1:279:238,41:238:8520:41:1456:-28.4232,0,-671.604 0/1:16:13,3:13:460:3:108:-3.30972,0,-35.9185 0/1:12:9,3:9:320:3:104:-3.49993,0,-24.9581 0/1:36:31,5:31:1108:5:176:-1.51899,0,-88.4953 0/1:195:144,51:144:5075:51:1824:-58.8486,0,-395.691 0/1:145:115,30:115:4079:30:1072:-25.8278,0,-318.373 0/1:167:147,20:147:5266:20:716:-3.43365,0,-417.533 0/0:106:103,3:103:3669:3:108:0,-24.2478,-318.648 0/0:104:99,5:99:3534:5:180:0,-16.3554,-299.347 0/1:133:107,26:107:3786:26:920:-25.8609,0,-295.383 0/1:75:55,20:55:1968:20:716:-26.3994,0,-153.614 0/1:120:58,62:58:2084:62:2183:-106.04,0,-145.713 0/1:71:55,16:55:1932:16:559:-15.4347,0,-147.97 chr06 2178378 . T A 36631.1 PASS AB=0.750552;ABP=991.035;AC=26;AF=0.619048;AN=42;AO=1938;CIGAR=1X;DP=2419;DPB=2419;DPRA=0;EPP=4211.32;EPPR=1043.15;GTI=10;LEN=1;MEANALT=1.09524;MQM=47.1785;MQMR=29.5804;NS=21;NUMALT=1;ODDS=1.10729;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67663;QR=17034;RO=479;RPL=1937;RPP=4202.64;RPPR=1043.15;RPR=1;RUN=1;SAF=1937;SAP=4202.64;SAR=1;SRF=0;SRP=1043.15;SRR=479;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:177:14,162:14:504:162:5659:-471.682,-20.8357,0 1/1:95:0,95:0:0:95:3309:-288.358,-28.5979,0 0/1:123:31,92:31:1112:92:3216:-247.212,0,-44.3517 0/1:133:31,102:31:1086:102:3566:-278.876,0,-31.3831 0/1:98:55,43:55:1956:43:1502:-104.4,0,-97.1089 0/1:131:20,111:20:707:111:3859:-301.736,0,-9.75786 0/1:153:32,121:32:1136:121:4168:-323.611,0,-31.4181 1/1:143:6,137:6:208:137:4772:-403.171,-24.9727,0 0/1:260:42,217:42:1508:217:7589:-595.942,0,-37.9822 0/1:17:4,13:4:129:13:451:-34.9131,0,-4.87467 0/1:12:3,9:3:108:9:320:-24.8982,0,-3.55202 0/1:35:5,30:5:180:30:1050:-83.7118,0,-2.18208 0/1:177:51,126:51:1807:126:4445:-345.28,0,-64.2855 0/1:134:30,104:30:1072:104:3649:-284.769,0,-29.1391 0/1:153:19,134:19:669:134:4734:-374.52,0,-4.10566 1/1:95:3,92:3:108:92:3245:-280.519,-20.9365,0 1/1:97:5,92:5:180:92:3220:-271.462,-14.2481,0 0/1:126:26,100:26:920:100:3495:-270.919,0,-27.6628 0/1:71:21,50:21:752:50:1692:-130.413,0,-29.6449 0/1:120:65,55:65:2324:55:1884:-128.772,0,-114.746 0/1:69:16,53:16:568:53:1838:-140.58,0,-16.229 chr06 2209817 . CTTAAGCTT TTTATGCG,TTTATGCA 29324.3 PASS AB=0.463647,0.533969;ABP=12.6409,11.4193;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1014,457;CIGAR=1X3M1X2M1D1X,1X3M1X2M1D1X;DP=1478;DPB=1313.78;DPRA=0,2.39929;EPP=2204.88,995.373;EPPR=0;GTI=0;LEN=9,8;MEANALT=2.14286,2.35294;MQM=43.6243,43.0481;MQMR=0;NS=21;NUMALT=2;ODDS=4.31165;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35667,16014;QR=0;RO=0;RPL=0,0;RPP=2204.88,995.373;RPPR=0;RPR=1014,457;RUN=1,1;SAF=0,0;SAP=2204.88,995.373;SAR=1014,457;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,28,0:0:0:28,0:990,0:-87.504,-8.42884,0,-87.504,-8.42884,-87.504 1/1:42:0,40,1:0:0:40,1:1414,35:-125.172,-12.0412,0,-122.752,-9.5949,-122.451 1/2:85:0,40,45:0:0:40,45:1419,1578:-238.961,-126.438,-114.397,-112.869,0,-99.3225 1/1:126:0,125,1:0:0:125,1:4406,32:-384.705,-37.6288,0,-382.618,-35.2751,-382.317 1/1:175:0,172,2:0:0:172,2:6035,72:-532.198,-51.7772,0,-526.485,-46.0659,-525.883 1/2:82:0,37,45:0:0:37,45:1296,1585:-228.395,-125.318,-114.18,-103.42,0,-89.8732 1/2:96:0,38,57:0:0:38,57:1348,2002:-266.707,-158.934,-147.494,-107.823,0,-90.6645 1/2:46:0,16,30:0:0:16,30:549,1048:-127.576,-84.0382,-79.2217,-43.8765,0,-34.8456 1/2:115:0,50,65:0:0:50,65:1745,2275:-317.746,-179.227,-164.176,-138.859,0,-119.292 1/2:9:0,7,2:0:0:7,2:249,72:-25.691,-5.67084,-3.56363,-20.355,0,-19.7529 1/1:7:0,7,0:0:0:7,0:251,0:-22.1767,-2.10721,0,-22.1767,-2.10721,-22.1767 1/2:14:0,12,2:0:0:12,2:425,71:-40.1927,-6.05472,-2.44236,-34.4882,0,-33.8862 1/1:101:0,99,1:0:0:99,1:3518,36:-310.527,-29.802,0,-307.645,-26.8831,-307.344 1/1:59:0,58,0:0:0:58,0:2013,0:-177.822,-17.4597,0,-177.822,-17.4597,-177.822 1/2:94:0,30,64:0:0:30,64:1069,2279:-266.34,-180.773,-171.742,-85.9158,0,-66.6499 1/2:67:0,30,37:0:0:30,37:1056,1288:-185.053,-101.867,-92.8362,-83.5264,0,-72.3882 1/2:73:0,41,31:0:0:41,31:1427,1061:-196.524,-84.1324,-71.7902,-112.376,0,-103.044 1/2:79:0,38,41:0:0:38,41:1331,1440:-221.541,-114.788,-103.349,-107.098,0,-94.7556 1/2:79:0,50,29:0:0:50,29:1761,1002:-219.727,-79.2298,-64.1783,-140.837,0,-132.107 1/1:63:0,58,4:0:0:58,4:2035,138:-180.336,-17.4597,0,-169.266,-6.39294,-168.062 1/1:38:0,38,0:0:0:38,0:1330,0:-118.359,-11.4391,0,-118.359,-11.4391,-118.359 chr06 2209899 . GGG AGG,AGC 52103.8 PASS AB=0.512571,0.479319;ABP=4.70275,7.591;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1354,595;CIGAR=1X2M,1X1M1X;DP=1964;DPB=1964.33;DPRA=0,1.43551;EPP=2943.18,1295.04;EPPR=13.8677;GTI=0;LEN=1,3;MEANALT=2.09524,2.33333;MQM=59.6374,59.0034;MQMR=50.8;NS=21;NUMALT=2;ODDS=7.43297;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=48263,20828;QR=152;RO=5;RPL=709,285;RPP=9.57924,5.29126;RPPR=3.44459;RPR=645,310;RUN=1,1;SAF=709,285;SAP=9.57924,5.29126;SAR=645,310;SRF=3;SRP=3.44459;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,80,0:0:0:80,0:2875,0:-258.771,-24.0824,0,-258.771,-24.0824,-258.771 1/1:103:1,101,0:1:36:101,0:3622,0:-322.503,-27.7061,0,-322.804,-30.404,-325.514 1/2:56:0,33,23:0:0:33,23:1188,782:-160.701,-63.7588,-53.8248,-97.2899,0,-90.3662 1/1:105:0,104,1:0:0:104,1:3701,36:-332.912,-31.3071,0,-329.975,-28.0103,-329.674 1/1:106:0,104,2:0:0:104,2:3716,72:-333.786,-31.3071,0,-327.912,-25.103,-327.31 1/2:93:0,45,47:0:0:45,47:1605,1639:-264.084,-133.251,-119.704,-130.826,0,-116.678 1/2:151:0,64,84:0:0:64,84:2268,2958:-425.439,-240.764,-221.498,-184.703,0,-159.417 1/2:79:0,35,44:0:0:35,44:1256,1550:-228.899,-126.495,-115.959,-102.76,0,-89.5144 1/2:128:0,56,72:0:0:56,72:1985,2553:-369.789,-208.079,-191.222,-162.064,0,-140.39 1/2:20:0,14,6:0:0:14,6:495,214:-58.1064,-17.799,-13.5846,-40.6629,0,-38.8568 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:63:0,33,30:0:0:33,30:1188,1029:-180.817,-83.8737,-73.9397,-97.2946,0,-88.2637 1/1:59:1,57,0:1:27:57,0:2020,0:-179.089,-15.1139,0,-179.39,-17.1587,-181.48 1/1:92:0,91,1:0:0:91,1:3211,36:-288.841,-27.3937,0,-287.265,-25.6082,-286.964 1/2:193:0,93,100:0:0:93,100:3275,3509:-552.388,-285.877,-257.881,-266.863,0,-236.76 1/2:52:0,26,24:0:0:26,24:936,842:-144.754,-68.375,-60.5482,-76.4099,0,-69.1852 1/2:60:0,31,29:0:0:31,29:1103,1029:-174.019,-84.1266,-74.7946,-90.2479,0,-81.518 1/2:184:0,95,88:0:0:95,88:3394,3069:-526.017,-249.557,-220.959,-276.541,0,-250.051 1/2:154:3,107,44:3:89:107,44:3818,1510:-425.861,-115.531,-90.4227,-304.179,0,-298.036 1/1:88:0,87,0:0:0:87,0:3096,0:-278.624,-26.1896,0,-278.624,-26.1896,-278.624 1/1:89:0,89,0:0:0:89,0:3187,0:-287.052,-26.7917,0,-287.052,-26.7917,-287.052 chr06 2209932 . TACA CACG 10223.5 PASS AB=0.496926;ABP=3.17049;AC=21;AF=0.5;AN=42;AO=970;CIGAR=1X2M1X;DP=1952;DPB=1952;DPRA=0;EPP=2109.34;EPPR=2113.68;GTI=0;LEN=4;MEANALT=1.38095;MQM=29.9278;MQMR=59.2737;NS=21;NUMALT=1;ODDS=23.2875;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34072;QR=34214;RO=972;RPL=970;RPP=2109.34;RPPR=2113.68;RPR=0;RUN=1;SAF=0;SAP=2109.34;SAR=970;SRF=0;SRP=2113.68;SRR=972;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:38,60:38:1342:60:2088:-125.601,0,-91.5579 0/1:78:54,24:54:1935:24:843:-39.1752,0,-150.895 0/1:90:32,58:32:1129:58:2028:-122.568,0,-74.8146 0/1:95:51,44:51:1814:44:1557:-85.3791,0,-134.939 0/1:91:32,59:32:1114:59:2044:-123.945,0,-73.1683 0/1:59:30,29:30:1055:29:1026:-57.8775,0,-77.4636 0/1:165:88,76:88:3085:76:2651:-146.326,0,-228.05 0/1:80:34,46:34:1170:46:1598:-93.8988,0,-81.4683 0/1:158:66,91:66:2359:91:3216:-186.82,0,-164.713 0/1:23:17,6:17:594:6:216:-9.04151,0,-46.8533 0/1:6:5,1:5:175:1:36:-1.09658,0,-14.2872 0/1:43:29,14:29:1029:14:491:-23.4076,0,-79.9781 0/1:70:40,30:40:1392:30:1040:-56.3481,0,-104.494 0/1:85:51,34:51:1768:34:1192:-61.909,0,-133.253 0/1:147:91,55:91:3202:55:1970:-99.4625,0,-244.022 0/1:55:22,30:22:782:30:1047:-61.6881,0,-54.686 0/1:71:19,51:19:662:51:1776:-110.334,0,-38.4732 0/1:254:105,147:105:3715:147:5204:-303.223,0,-258.095 0/1:116:68,47:68:2403:47:1646:-85.7655,0,-181.525 0/1:100:58,42:58:2035:42:1476:-78.5285,0,-153.118 0/1:68:42,26:42:1454:26:927:-47.0795,0,-110.68 chr06 2209941 . TGGT AGGG,AGGT 31898.2 PASS AB=0.507572,0.489817;ABP=3.96393,4.735;AC=21,21;AF=0.5,0.5;AN=42;AO=972,938;CIGAR=1X2M1X,1X3M;DP=1915;DPB=1915;DPRA=0,0;EPP=2113.68,2039.85;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.19048,2.19048;MQM=29.929,59.1983;MQMR=60;NS=21;NUMALT=2;ODDS=24.9481;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34173,33369;QR=29;RO=1;RPL=972,938;RPP=2113.68,2039.85;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2113.68,2039.85;SAR=972,938;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,59,38:0:0:59,38:2065,1368:-245.992,-111.555,-93.7941,-134.409,0,-122.97 1/2:76:0,24,52:0:0:24,52:857,1860:-207.677,-151.974,-144.75,-56.0151,0,-40.3616 1/2:90:0,58,32:0:0:58,32:2040,1148:-226.645,-93.9861,-76.5264,-132.992,0,-123.359 1/2:93:0,44,49:0:0:44,49:1536,1726:-240.49,-140.869,-127.623,-99.9384,0,-85.1879 1/2:91:0,60,31:0:0:60,31:2097,1108:-227.615,-90.6941,-72.6323,-137.254,0,-127.922 1/2:57:0,29,28:0:0:29,28:1009,988:-146.734,-80.7625,-72.0327,-66.2916,0,-57.8627 1/2:163:0,75,88:0:0:75,88:2628,3139:-426.666,-256.032,-233.455,-170.952,0,-144.461 1/2:79:0,47,32:0:0:47,32:1625,1134:-198.61,-92.7191,-78.5707,-106.217,0,-96.584 1/2:153:0,92,61:0:0:92,61:3251,2183:-387.146,-178.044,-150.35,-209.43,0,-191.067 1/2:23:0,6,17:0:0:6,17:216,604:-63.4121,-49.5603,-47.7541,-14.159,0,-9.04151 1/2:6:0,1,5:0:0:1,5:36,180:-17.3468,-15.0469,-14.7459,-2.60173,0,-1.09658 1/2:43:0,14,29:0:0:14,29:489,1024:-115.595,-83.7427,-79.5283,-32.1604,0,-23.4305 1/2:66:1,31,34:1:29:31,34:1094,1224:-168.328,-97.6264,-90.6011,-68.7259,0,-60.7996 1/2:82:0,35,47:0:0:35,47:1211,1645:-212.698,-134.183,-123.647,-78.827,0,-64.6786 1/2:141:0,55,85:0:0:55,85:1959,3009:-371.682,-245.125,-228.569,-126.593,0,-101.005 1/2:54:0,29,25:0:0:29,25:1022,887:-138.641,-72.4463,-63.7164,-66.5173,0,-58.9916 1/2:71:0,52,19:0:0:52,19:1824,661:-172.556,-54.0277,-38.3741,-118.859,0,-113.14 1/2:251:0,147,103:0:0:147,103:5212,3691:-635.634,-300.719,-256.468,-334.913,0,-303.907 1/2:115:0,47,68:0:0:47,68:1613,2412:-302.149,-196.836,-182.688,-105.624,0,-85.1543 1/2:98:0,41,56:0:0:41,56:1464,1990:-256.559,-162.219,-149.877,-94.3864,0,-77.5287 1/2:65:0,26,39:0:0:26,39:925,1388:-172.899,-113.478,-105.651,-59.7355,0,-47.9953 chr06 2239418 . CTT TTT,TTC 45150 PASS AB=0.541067,0.456393;ABP=20.3104,22.5168;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1567,546;CIGAR=1X2M,1X1M1X;DP=2121;DPB=2121;DPRA=0,1.63453;EPP=3345.18,1179.96;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.04762,2.33333;MQM=59.9994,59.9799;MQMR=0;NS=21;NUMALT=2;ODDS=14.4352;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55935,19302;QR=0;RO=0;RPL=7,1;RPP=3345.18,1179.96;RPPR=0;RPR=1560,545;RUN=1,1;SAF=1567,546;SAP=3405.71,1188.63;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:0,167,3:0:0:167,3:5988,108:-538.708,-50.272,0,-529.895,-41.3939,-528.992 1/1:50:0,50,0:0:0:50,0:1796,0:-161.922,-15.0515,0,-161.922,-15.0515,-161.922 1/2:81:0,43,38:0:0:43,38:1548,1356:-237.213,-110.902,-97.9577,-126.669,0,-115.23 1/1:133:0,133,0:0:0:133,0:4769,0:-429.364,-40.037,0,-429.364,-40.037,-429.364 1/1:252:0,249,2:0:0:249,2:8921,72:-802.536,-74.9565,0,-796.661,-69.0284,-796.059 1/2:67:0,37,30:0:0:37,30:1324,1061:-194.738,-86.7691,-75.631,-108.324,0,-99.2931 1/2:110:0,37,72:0:0:37,72:1324,2560:-316.584,-208.617,-197.479,-107.964,0,-86.2901 1/2:60:0,27,33:0:0:27,33:972,1148:-173.005,-93.6895,-85.5617,-79.6701,0,-69.7361 1/2:145:0,84,61:0:0:84,61:2981,2166:-419.721,-176.843,-151.556,-243.233,0,-224.87 1/2:10:0,2,8:0:0:2,8:72,274:-28.4624,-22.5841,-21.9821,-6.23466,0,-3.82642 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/2:17:0,11,6:0:0:11,6:396,216:-50.2959,-17.9843,-14.673,-32.6714,0,-30.8652 1/1:68:0,67,0:0:0:67,0:2369,0:-213.216,-20.169,0,-213.216,-20.169,-213.216 1/1:122:0,121,0:0:0:121,0:4282,0:-385.196,-36.4246,0,-385.196,-36.4246,-385.196 1/2:362:0,214,147:0:0:214,147:7607,5190:-1042.64,-422.746,-358.325,-620.019,0,-575.767 1/2:139:0,74,64:0:0:74,64:2644,2263:-399.963,-184.387,-162.11,-215.65,0,-196.384 1/2:103:0,57,46:0:0:57,46:2017,1617:-296.261,-131.97,-114.812,-164.643,0,-150.795 1/2:53:0,29,24:0:0:29,24:1040,862:-155.503,-70.6776,-61.9477,-85.1845,0,-77.9598 1/2:34:0,24,10:0:0:24,10:864,339:-98.3398,-27.827,-20.6023,-70.8578,0,-67.8475 1/1:99:0,97,2:0:0:97,2:3445,70:-309.913,-29.1999,0,-304.218,-23.1546,-303.616 1/1:32:0,32,0:0:0:32,0:1144,0:-103.27,-9.63296,0,-103.27,-9.63296,-103.27 chr06 2276454 . T C 9709.63 PASS AB=0.467368;ABP=11.7968;AC=12;AF=0.285714;AN=42;AO=446;CIGAR=1X;DP=1615;DPB=1615;DPRA=1.29047;EPP=10.0408;EPPR=3.48624;GTI=0;LEN=1;MEANALT=1;MQM=59.8946;MQMR=59.9384;NS=21;NUMALT=1;ODDS=10.8141;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15755;QR=41554;RO=1168;RPL=0;RPP=971.487;RPPR=2513.3;RPR=446;RUN=1;SAF=242;SAP=10.0408;SAR=204;SRF=579;SRP=3.19621;SRR=589;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:70,0:70:2478:0:0:0,-21.0721,-222.804 0/0:68:68,0:68:2423:0:0:0,-20.47,-218.318 0/1:44:21,23:21:756:23:816:-60.5164,0,-55.1219 0/0:92:92,0:92:3274:0:0:0,-27.6948,-294.879 0/0:135:134,1:134:4766:1:36:0,-37.0408,-425.501 0/1:80:40,40:40:1440:40:1424:-104.375,0,-105.815 0/1:114:67,47:67:2400:47:1670:-116.268,0,-181.938 0/1:94:42,52:42:1495:52:1828:-136.501,0,-106.547 0/1:79:40,39:40:1436:39:1354:-98.3717,0,-105.756 0/1:16:8,8:8:288:8:288:-21.4509,0,-21.4509 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:14:7,7:7:248:7:248:-18.4494,0,-18.4498 0/0:64:64,0:64:2263:0:0:0,-19.2659,-203.931 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/1:123:62,61:62:2190:61:2153:-157,0,-160.338 0/1:39:12,27:12:432:27:947:-73.8036,0,-27.481 0/1:47:26,21:26:928:21:733:-52.1413,0,-69.6817 0/1:142:63,79:63:2256:79:2803:-209.759,0,-160.557 0/1:158:118,40:118:4165:40:1419:-80.4406,0,-327.468 0/0:79:78,1:78:2745:1:36:0,-20.1831,-243.695 0/0:73:73,0:73:2591:0:0:0,-21.9752,-233.438 chr06 2278227 . TCT ACT,ACG 51831.7 PASS AB=0.528024,0.470501;ABP=12.2599,13.2591;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1791,640;CIGAR=1X2M,1X1M1X;DP=2434;DPB=2434.33;DPRA=0,0.96629;EPP=3892.12,1392.75;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.7619,2.15385;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=13.6085;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=64142,22633;QR=0;RO=0;RPL=1791,640;RPP=3892.12,1392.75;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3892.12,1392.75;SAR=1791,640;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:195:0,195,0:0:0:195,0:6983,0:-628.532,-58.7009,0,-628.532,-58.7009,-628.532 1/1:129:0,129,0:0:0:129,0:4613,0:-415.332,-38.8329,0,-415.332,-38.8329,-415.332 1/2:52:0,19,33:0:0:19,33:680,1145:-148.874,-93.4178,-87.6982,-55.8096,0,-45.8756 1/1:167:0,166,0:0:0:166,0:5941,0:-534.436,-49.971,0,-534.436,-49.971,-534.436 1/1:142:0,142,0:0:0:142,0:5081,0:-457.432,-42.7463,0,-457.432,-42.7463,-457.432 1/2:142:0,70,72:0:0:70,72:2495,2560:-412.351,-208.975,-187.903,-203.731,0,-182.057 1/2:187:0,93,94:0:0:93,94:3344,3306:-542.287,-269.463,-241.467,-273.18,0,-244.883 1/2:114:0,54,60:0:0:54,60:1933,2103:-329.112,-171.476,-155.221,-157.99,0,-139.928 1/2:207:0,101,106:0:0:101,106:3604,3764:-600.859,-307.052,-276.648,-294.163,0,-262.254 1/2:12:0,7,5:0:0:7,5:252,180:-35.6088,-15.0469,-12.9397,-20.9217,0,-19.4166 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:44:0,22,22:0:0:22,22:788,790:-129.066,-64.8027,-58.18,-64.6221,0,-57.9995 1/1:110:0,110,0:0:0:110,0:3948,0:-355.511,-33.1133,0,-355.511,-33.1133,-355.511 1/1:132:0,132,0:0:0:132,0:4740,0:-426.757,-39.736,0,-426.757,-39.736,-426.757 1/2:235:0,134,100:0:0:134,100:4812,3554:-682.086,-289.547,-249.209,-392.476,0,-362.373 1/2:118:0,67,51:0:0:67,51:2404,1794:-342.48,-146.387,-126.218,-196.447,0,-181.095 1/2:97:0,54,43:0:0:54,43:1932,1520:-281.693,-124.147,-107.891,-157.901,0,-144.957 1/2:76:0,47,28:0:0:47,28:1677,981:-216.606,-79.89,-65.7416,-136.785,0,-128.356 1/2:72:0,48,24:0:0:48,24:1720,864:-211.135,-70.8578,-56.4084,-140.636,0,-133.411 1/1:131:0,129,2:0:0:129,2:4612,72:-414.885,-38.8329,0,-409.01,-32.5982,-408.408 1/1:62:0,62,0:0:0:62,0:2223,0:-200.334,-18.6639,0,-200.334,-18.6639,-200.334 chr06 2293561 . C A 39661.2 PASS AB=0.722028;ABP=492.852;AC=30;AF=0.714286;AN=42;AO=1906;CIGAR=1X;DP=2226;DPB=2226;DPRA=0;EPP=4141.84;EPPR=697.881;GTI=1;LEN=1;MEANALT=1;MQM=54.6558;MQMR=59.6938;NS=21;NUMALT=1;ODDS=14.1847;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67951;QR=11464;RO=320;RPL=0;RPP=4141.84;RPPR=697.881;RPR=1906;RUN=1;SAF=1906;SAP=4141.84;SAR=0;SRF=320;SRP=697.881;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:1,161:1:36:161:5728:-511.291,-45.1686,0 1/1:45:0,45:0:0:45:1608:-144.318,-13.5464,0 0/1:120:29,91:29:1044:91:3242:-255.637,0,-58.1512 1/1:130:0,130:0:0:130:4643:-417.564,-39.1339,0 1/1:184:0,184:0:0:184:6550:-587.555,-55.3895,0 0/1:55:23,32:23:820:32:1152:-86.9567,0,-57.5489 0/1:111:29,82:29:1044:82:2926:-228.888,0,-60.8523 0/1:195:31,164:31:1116:164:5854:-466.729,0,-42.0416 0/1:209:76,133:76:2719:133:4713:-360.901,0,-182.033 0/1:22:13,9:13:468:9:320:-22.4566,0,-35.8277 1/1:8:0,8:0:0:8:288:-26.1734,-2.40824,0 0/1:35:12,23:12:432:23:824:-63.7185,0,-28.6851 1/1:172:0,172:0:0:172:6135:-551.681,-51.7772,0 1/1:160:0,160:0:0:160:5706:-512.328,-48.1648,0 0/1:179:37,142:37:1332:142:5074:-401.711,0,-66.2933 0/1:32:7,25:7:248:25:881:-69.9516,0,-13.0312 0/1:50:17,33:17:612:33:1173:-90.7383,0,-40.3619 0/1:65:27,38:27:963:38:1349:-101.598,0,-67.4092 0/1:71:17,54:17:594:54:1935:-152.8,0,-32.4101 1/1:178:1,177:1:36:177:6332:-563.974,-49.9851,0 1/1:43:0,43:0:0:43:1518:-135.989,-12.9443,0 chr06 2327739 . CACATTCTA TACATTATA,TAGATTATG 43906.9 PASS AB=0.519906,0.472287;ABP=7.41936,11.5555;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1506,606;CIGAR=1X5M1X2M,1X1M1X3M1X1M1X;DP=2132;DPB=2132.22;DPRA=0,1.30274;EPP=3264.57,1318.92;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.57143,2.76923;MQM=59.9748,44.5545;MQMR=0;NS=21;NUMALT=2;ODDS=9.38597;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=53611,21190;QR=0;RO=0;RPL=1,0;RPP=3264.57,1318.92;RPPR=0;RPR=1505,606;RUN=1,1;SAF=1506,606;SAP=3273.25,1318.92;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:0,135,0:0:0:135,0:4813,0:-432.941,-40.6391,0,-432.941,-40.6391,-432.941 1/1:92:0,91,0:0:0:91,0:3252,0:-292.542,-27.3937,0,-292.542,-27.3937,-292.542 1/2:91:0,46,45:0:0:46,45:1608,1568:-255.654,-124.84,-110.993,-131.159,0,-117.613 1/1:78:0,77,0:0:0:77,0:2736,0:-246.21,-23.1793,0,-246.21,-23.1793,-246.21 1/1:167:0,166,1:0:0:166,1:5896,35:-530.399,-49.971,0,-527.58,-46.8052,-527.279 1/2:82:0,26,56:0:0:26,56:936,1976:-232.886,-156.508,-148.681,-76.7327,0,-59.875 1/2:154:0,78,75:0:0:78,75:2747,2591:-429.402,-205.755,-182.275,-223.693,0,-201.115 1/2:135:0,58,77:0:0:58,77:2076,2711:-386.705,-217.408,-199.948,-169.291,0,-146.112 1/2:222:0,131,88:0:0:131,88:4667,3066:-626.049,-245.638,-206.203,-380.467,0,-353.976 1/2:33:0,12,21:0:0:12,21:432,741:-94.7648,-59.5109,-55.8986,-35.6088,0,-29.2872 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:18:0,10,8:0:0:10,8:348,278:-51.0358,-22.7369,-19.7266,-28.6448,0,-26.2366 1/1:128:0,127,0:0:0:127,0:4525,0:-407.058,-38.2308,0,-407.058,-38.2308,-407.058 1/1:95:0,95,0:0:0:95,0:3377,0:-304.147,-28.5979,0,-304.147,-28.5979,-304.147 1/2:214:0,120,93:0:0:120,93:4289,3244:-605.627,-255.911,-219.787,-349.79,0,-321.794 1/2:55:0,31,23:0:0:31,23:1096,797:-153.054,-63.7799,-54.448,-89.3724,0,-82.4487 1/2:67:0,43,24:0:0:43,24:1540,843:-193.248,-67.6491,-54.7048,-125.949,0,-118.724 1/2:130:0,59,69:0:0:59,69:2100,2430:-365.588,-194.43,-176.67,-171.149,0,-150.378 1/2:80:0,52,26:0:0:52,26:1860,910:-224.908,-73.2302,-57.5766,-151.715,0,-143.888 1/1:88:0,87,0:0:0:87,0:3112,0:-280.095,-26.1896,0,-280.095,-26.1896,-280.095 1/1:59:0,56,0:0:0:56,0:1985,0:-178.588,-16.8577,0,-178.588,-16.8577,-178.588 chr06 2327774 . CAAAAATAA CAAAAAATAA 17795.1 PASS AB=0.437908;ABP=69.6163;AC=12;AF=0.285714;AN=42;AO=872;CIGAR=1M1I8M;DP=3663;DPB=3760;DPRA=1.06181;EPP=1896.53;EPPR=6041.88;GTI=0;LEN=1;MEANALT=1.76923;MQM=48.8532;MQMR=59.502;NS=21;NUMALT=1;ODDS=31.3191;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30381;QR=97076;RO=2781;RPL=565;RPP=168.769;RPPR=68.2255;RPR=307;RUN=1;SAF=565;SAP=168.769;SAR=307;SRF=1535;SRP=68.2255;SRR=1246;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:257:257,0:257:8984:0:0:0,-77.3647,-808.466 0/0:142:142,0:142:4953:0:0:0,-42.7463,-445.887 0/1:139:79,60:79:2773:60:2076:-143.426,0,-207.773 0/0:192:192,0:192:6676:0:0:0,-57.7978,-600.424 0/0:330:327,1:327:11304:1:36:0,-95.5364,-1013.6 0/1:167:82,85:82:2871:85:2992:-215.606,0,-208.294 0/1:239:125,112:125:4355:112:3855:-271.298,0,-320.406 0/1:177:77,100:77:2710:100:3494:-258.463,0,-190.488 0/1:335:195,138:195:6840:138:4835:-330.42,0,-515.085 0/1:34:12,22:12:422:22:776:-58.914,0,-28.0808 0/0:6:6,0:6:211:0:0:0,-1.80618,-19.3336 0/1:28:12,16:12:420:16:553:-41.4779,0,-29.7058 0/0:246:246,0:246:8598:0:0:0,-74.0534,-773.755 0/0:193:193,0:193:6729:0:0:0,-58.0988,-605.609 0/1:330:189,141:189:6563:141:4931:-339.619,0,-491.273 0/1:104:64,40:64:2218:40:1391:-92.7905,0,-168.402 0/1:119:75,44:75:2645:44:1524:-100.391,0,-202.456 0/1:172:93,79:93:3268:79:2739:-191.857,0,-242.348 0/1:145:107,34:107:3743:34:1179:-62.979,0,-294.166 0/0:194:194,0:194:6801:0:0:0,-58.3998,-611.769 0/0:114:114,0:114:3992:0:0:0,-34.3174,-359.468 chr06 2383167 . A G 21541.4 PASS AB=0.526864;ABP=14.4439;AC=12;AF=0.285714;AN=42;AO=966;CIGAR=1X;DP=3263;DPB=3263;DPRA=1.34015;EPP=373.545;EPPR=494.871;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9752;MQMR=59.9795;NS=21;NUMALT=1;ODDS=13.8774;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34486;QR=82300;RO=2295;RPL=686;RPP=373.545;RPPR=494.871;RPR=280;RUN=1;SAF=966;SAP=2100.65;SAR=0;SRF=2295;SRP=4986.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:164:163,1:163:5852:1:36:0,-45.7706,-523.191 0/0:180:180,0:180:6457:0:0:0,-54.1854,-581.212 0/1:130:48,82:48:1724:82:2925:-224.35,0,-116.312 0/0:172:172,0:172:6192:0:0:0,-51.7772,-557.373 0/0:291:290,1:290:10393:1:36:0,-84.0015,-930.912 0/1:181:92,89:92:3308:89:3165:-230.588,0,-243.451 0/1:252:112,140:112:4005:140:5007:-374.917,0,-284.778 0/1:225:117,108:117:4189:108:3868:-280.583,0,-309.458 0/1:260:112,148:112:4009:148:5258:-395.091,0,-282.729 0/1:18:7,11:7:252:11:390:-30.0203,0,-17.6104 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/1:40:27,13:27:953:13:464:-30.0563,0,-74.0421 0/0:224:223,1:223:7985:1:36:0,-63.8324,-715.071 0/0:193:192,0:192:6896:0:0:0,-57.7978,-620.345 0/1:348:157,191:157:5621:191:6827:-509.741,0,-401.251 0/1:84:40,44:40:1428:44:1584:-117.564,0,-103.531 0/1:120:38,82:38:1364:82:2940:-228.71,0,-86.9371 0/1:91:57,33:57:2048:33:1173:-78.405,0,-157.139 0/1:75:55,20:55:1976:20:720:-42.5515,0,-155.537 0/0:143:141,2:141:5060:2:57:0,-37.634,-450.119 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.951 chr06 2383234 . ACCA GCCG 43761.6 PASS AB=0.486583;ABP=5.63238;AC=30;AF=0.714286;AN=42;AO=2157;CIGAR=1X2M1X;DP=3036;DPB=3036;DPRA=0;EPP=4669.52;EPPR=1840.12;GTI=0;LEN=4;MEANALT=2;MQM=59.9235;MQMR=59.966;NS=21;NUMALT=1;ODDS=11.8105;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76046;QR=30143;RO=854;RPL=2156;RPP=4678.19;RPPR=1840.12;RPR=1;RUN=1;SAF=1;SAP=4678.19;SAR=2156;SRF=0;SRP=1857.45;SRR=854;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:144:0,144:0:0:144:5109:-459.946,-43.3483,0 1/1:191:0,189:0:0:189:6709:-603.527,-56.8947,0 0/1:159:85,74:85:3021:74:2642:-190.163,0,-224.256 1/1:208:0,201:0:0:201:7028:-632.274,-60.507,0 1/1:277:2,273:2:72:273:9634:-860.202,-76.2914,0 0/1:164:94,70:94:3317:70:2464:-172.645,0,-249.379 0/1:153:105,46:105:3689:46:1627:-100.899,0,-286.453 0/1:134:59,73:59:2078:73:2566:-191.093,0,-147.194 0/1:322:143,176:143:5057:176:6148:-457.047,0,-358.55 0/1:15:4,11:4:142:11:388:-30.7416,0,-8.61382 1/1:18:0,17:0:0:17:605:-54.4214,-5.11751,0 0/1:26:17,9:17:605:9:315:-20.861,0,-46.9538 1/1:161:2,159:2:72:159:5587:-496.123,-41.6291,0 1/1:140:0,140:0:0:140:4938:-444.561,-42.1442,0 0/1:196:114,81:114:4033:81:2826:-195.147,0,-304.099 0/1:183:87,93:87:3087:93:3282:-241.095,0,-223.553 0/1:127:62,64:62:2189:64:2269:-166.308,0,-159.113 0/1:110:52,58:52:1806:58:2045:-151.208,0,-129.705 0/1:88:27,61:27:939:61:2160:-168.177,0,-58.3302 1/1:152:1,150:1:36:150:5301:-473.668,-42.1822,0 1/1:68:0,68:0:0:68:2403:-216.522,-20.47,0 chr06 2421538 . AATGG GATGG,GATGA 30536 PASS AB=0.559201,0.439372;ABP=24.3502,25.391;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1116,310;CIGAR=1X4M,1X3M1X;DP=1428;DPB=1428;DPRA=0,0.706081;EPP=2426.37,676.167;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.7619,2.07143;MQM=59.4919,59.7161;MQMR=0;NS=21;NUMALT=2;ODDS=4.30126;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39991,10949;QR=0;RO=0;RPL=0,0;RPP=2426.37,676.167;RPPR=0;RPR=1116,310;RUN=1,1;SAF=1116,310;SAP=2426.37,676.167;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,86,0:0:0:86,0:3092,0:-278.49,-25.8886,0,-278.49,-25.8886,-278.49 1/1:50:0,50,0:0:0:50,0:1784,0:-160.653,-15.0515,0,-160.653,-15.0515,-160.653 1/2:66:0,29,37:0:0:29,37:1040,1296:-190.585,-105.755,-97.0251,-85.1845,0,-74.0464 1/1:125:0,125,0:0:0:125,0:4473,0:-402.679,-37.6288,0,-402.679,-37.6288,-402.679 1/1:64:0,63,1:0:0:63,1:2245,36:-201.411,-18.9649,0,-198.473,-15.6676,-198.172 1/2:76:0,56,20:0:0:56,20:2013,701:-220.758,-57.3895,-40.5318,-163.72,0,-157.7 1/2:75:0,28,47:0:0:28,47:1008,1643:-216.018,-133.971,-125.542,-82.4025,0,-68.2541 1/2:93:0,58,35:0:0:58,35:2084,1216:-269.224,-99.2062,-81.7465,-170.37,0,-159.834 1/2:97:0,73,24:0:0:73,24:2609,857:-282.95,-70.2263,-48.2511,-213.081,0,-205.856 1/2:9:0,5,4:0:0:5,4:180,143:-26.7058,-12.0173,-10.5122,-15.0469,0,-13.8428 1/1:10:0,10,0:0:0:10,0:352,0:-32.0182,-3.0103,0,-32.0182,-3.0103,-32.0182 1/2:11:0,2,9:0:0:2,9:72,318:-32.124,-26.2479,-25.6459,-6.23466,0,-3.52539 1/1:195:0,195,0:0:0:195,0:6979,0:-626.816,-58.7009,0,-626.816,-58.7009,-626.816 1/1:84:0,84,0:0:0:84,0:3016,0:-271.339,-25.2865,0,-271.339,-25.2865,-271.339 1/2:71:0,39,32:0:0:39,32:1400,1131:-206.669,-92.4655,-80.7254,-114.559,0,-104.926 1/2:44:0,26,18:0:0:26,18:928,639:-128.075,-52.4196,-44.5928,-76.0115,0,-70.5929 1/2:54:0,25,28:0:0:25,28:896,995:-154.162,-81.0838,-73.558,-73.0823,0,-64.6534 1/2:75:0,34,41:0:0:34,41:1224,1471:-220.172,-120.299,-110.064,-100.232,0,-87.8894 1/2:30:0,17,13:0:0:17,13:608,467:-87.5321,-38.4549,-33.3374,-49.4342,0,-45.5208 1/1:71:0,70,1:0:0:70,1:2512,36:-225.964,-21.0721,0,-223.026,-17.7749,-222.725 1/1:42:0,41,0:0:0:41,0:1476,0:-132.776,-12.3422,0,-132.776,-12.3422,-132.776 chr06 2421553 . C T 4728.47 PASS AB=0.438571;ABP=25.9535;AC=12;AF=0.285714;AN=42;AO=310;CIGAR=1X;DP=1429;DPB=1429;DPRA=0.731881;EPP=676.167;EPPR=2389.65;GTI=0;LEN=1;MEANALT=1;MQM=59.7194;MQMR=59.4933;NS=21;NUMALT=1;ODDS=3.49706;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11052;QR=40068;RO=1119;RPL=0;RPP=676.167;RPPR=2389.65;RPR=310;RUN=1;SAF=310;SAP=676.167;SAR=0;SRF=1119;SRP=2432.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:87:86,1:86:3092:1:36:0,-22.5913,-274.892 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.414 0/1:65:28,37:28:1008:37:1313:-98.8571,0,-71.4694 0/0:125:125,0:125:4458:0:0:0,-37.6287,-401.329 0/0:66:65,1:65:2336:1:36:0,-16.2697,-205.39 0/1:78:57,21:57:2044:21:756:-44.8835,0,-159.729 0/1:74:27,47:27:972:47:1665:-127.753,0,-65.507 0/1:91:57,34:57:2020:34:1201:-80.9999,0,-154.676 0/1:100:75,25:75:2692:25:885:-49.8631,0,-212.42 0/1:9:5,4:5:180:4:140:-10.2353,0,-13.8428 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:11:2,9:2:72:9:324:-26.1911,0,-3.52539 0/0:195:195,0:195:6996:0:0:0,-58.7008,-626.826 0/0:84:84,0:84:2995:0:0:0,-25.2865,-269.451 0/1:72:40,32:40:1432:32:1148:-81.9549,0,-107.503 0/1:43:26,17:26:936:17:612:-42.4682,0,-71.6152 0/1:52:25,27:25:892:27:964:-71.4227,0,-64.8763 0/1:75:34,41:34:1211:41:1468:-109.794,0,-86.7182 0/1:30:17,13:17:608:13:468:-33.4278,0,-45.4211 0/0:71:70,1:70:2504:1:36:0,-17.7749,-222.006 0/0:42:42,0:42:1512:0:0:0,-12.6433,-136.375 chr06 2421670 . G A 23127.5 PASS AB=0.655072;ABP=147.133;AC=31;AF=0.738095;AN=42;AO=1104;CIGAR=1X;DP=1346;DPB=1346;DPRA=0;EPP=2400.32;EPPR=526.335;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.8696;MQMR=59.1784;NS=21;NUMALT=1;ODDS=6.09688;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39416;QR=8576;RO=241;RPL=0;RPP=2400.32;RPPR=526.335;RPR=1104;RUN=1;SAF=0;SAP=2400.32;SAR=1104;SRF=0;SRP=526.335;SRR=241;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102:0:0:102:3656:-329.241,-30.7051,0 1/1:38:0,38:0:0:38:1351:-121.889,-11.4391,0 0/1:47:23,24:23:828:24:864:-63.9342,0,-60.4615 1/1:48:0,47:0:0:47:1680:-151.273,-14.1484,0 1/1:157:1,156:1:36:156:5556:-496.422,-43.6634,0 0/1:58:18,40:18:625:40:1436:-112.077,0,-39.1128 0/1:46:12,34:12:424:34:1196:-94.0952,0,-24.6481 0/1:70:24,46:24:856:46:1640:-126.816,0,-56.2665 0/1:130:48,82:48:1724:82:2939:-225.604,0,-116.287 0/1:13:3,10:3:108:10:360:-28.8309,0,-6.16178 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:35:15,20:15:536:20:720:-54.5927,0,-38.0162 1/1:71:0,71:0:0:71:2540:-228.851,-21.3731,0 1/1:96:0,96:0:0:96:3410:-307.112,-28.8989,0 0/1:107:39,68:39:1367:68:2424:-186.203,0,-91.0502 0/1:20:8,12:8:280:12:432:-33.1997,0,-19.5187 1/1:25:2,23:2:72:23:809:-66.2916,-0.689028,0 0/1:105:32,73:32:1148:73:2609:-203.442,0,-71.6488 0/1:59:16,43:16:572:43:1535:-120.681,0,-34.0389 1/1:66:0,66:0:0:66:2372:-213.738,-19.868,0 1/1:44:0,44:0:0:44:1567:-141.321,-13.2453,0 chr06 2421681 . CTGC CTGG,TGGA 28680.1 PASS AB=0.65036,0.345324;ABP=139.488,147.437;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1114,243;CIGAR=3M1X,2X1M1X;DP=1364;DPB=1364;DPRA=0,1.11174;EPP=2422.03,530.678;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.95238,2.38462;MQM=59.8734,59.1193;MQMR=0;NS=21;NUMALT=2;ODDS=5.52909;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39649,8512;QR=0;RO=0;RPL=0,0;RPP=2422.03,530.678;RPPR=0;RPR=1114,243;RUN=1,1;SAF=0,0;SAP=2422.03,530.678;SAR=1114,243;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,100,0:0:0:100,0:3580,0:-322.405,-30.103,0,-322.405,-30.103,-322.405 1/1:39:0,39,0:0:0:39,0:1379,0:-124.407,-11.7402,0,-124.407,-11.7402,-124.407 1/2:48:0,24,24:0:0:24,24:864,845:-139.45,-68.9474,-61.7226,-70.8578,0,-63.6331 1/1:51:0,51,0:0:0:51,0:1810,0:-163.179,-15.3525,0,-163.179,-15.3525,-163.179 1/1:159:0,156,1:0:0:156,1:5553,36:-499.515,-46.9607,0,-496.578,-44.0048,-496.277 1/2:58:0,40,17:0:0:40,17:1415,593:-163.473,-48.2189,-36.1777,-115.245,0,-110.127 1/2:46:0,34,12:0:0:34,12:1216,424:-134.039,-34.8818,-24.6468,-99.5115,0,-95.8992 1/2:71:0,47,24:0:0:47,24:1684,828:-204.936,-67.5873,-53.4389,-137.698,0,-130.473 1/2:130:0,81,48:0:0:81,48:2868,1682:-370.458,-136.838,-112.454,-233.612,0,-219.163 1/2:12:0,9,3:0:0:9,3:324,108:-35.6088,-9.17208,-6.46281,-26.7966,0,-25.8935 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:35:0,20,15:0:0:20,15:720,540:-103.147,-44.3986,-38.378,-59.1082,0,-54.5927 1/1:72:0,72,0:0:0:72,0:2560,0:-230.651,-21.6742,0,-230.651,-21.6742,-230.651 1/1:101:0,99,0:0:0:99,0:3505,0:-315.353,-29.802,0,-315.353,-29.802,-315.353 1/2:106:0,66,39:0:0:66,39:2334,1374:-301.509,-111.413,-91.5449,-190.088,0,-178.348 1/2:20:0,12,8:0:0:12,8:432,279:-58.2949,-23.0401,-19.4277,-35.6079,0,-33.1997 1/1:24:0,22,2:0:0:22,2:780,72:-70.1637,-6.62266,0,-64.2884,-0.387998,-63.6863 1/2:109:0,76,33:0:0:76,33:2712,1155:-315.217,-94.1502,-71.272,-221.418,0,-211.484 1/2:60:0,43,17:0:0:43,17:1523,576:-171.104,-47.029,-34.0847,-124.418,0,-119.3 1/1:68:0,68,0:0:0:68,0:2418,0:-217.86,-20.47,0,-217.86,-20.47,-217.86 1/1:46:0,46,0:0:0:46,0:1648,0:-148.598,-13.8474,0,-148.598,-13.8474,-148.598 chr06 2421721 . T C 23132.5 PASS AB=0.653061;ABP=142.605;AC=31;AF=0.738095;AN=42;AO=1101;CIGAR=1X;DP=1342;DPB=1342;DPRA=0;EPP=2393.8;EPPR=526.335;GTI=1;LEN=1;MEANALT=1;MQM=59.8365;MQMR=59.0249;NS=21;NUMALT=1;ODDS=5.31521;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39379;QR=8435;RO=241;RPL=1101;RPP=2393.8;RPPR=526.335;RPR=0;RUN=1;SAF=0;SAP=2393.8;SAR=1101;SRF=0;SRP=526.335;SRR=241;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,101:0:0:101:3632:-327.081,-30.404,0 1/1:37:0,37:0:0:37:1317:-118.829,-11.1381,0 0/1:48:24,24:24:841:24:860:-63.2724,0,-61.5411 1/1:50:0,50:0:0:50:1788:-161.201,-15.0515,0 1/1:154:1,153:1:36:153:5480:-489.571,-42.7603,0 0/1:57:18,39:18:621:39:1404:-109.5,0,-39.0525 0/1:45:12,33:12:428:33:1184:-93.322,0,-25.3101 0/1:71:23,48:23:812:48:1720:-133.711,0,-52.0053 0/1:125:47,78:47:1673:78:2781:-212.896,0,-113.207 0/1:12:3,9:3:108:9:324:-25.8935,0,-6.46281 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:35:15,20:15:495:20:716:-54.2317,0,-34.3025 1/1:70:0,70:0:0:70:2512:-226.331,-21.0721,0 1/1:100:0,100:0:0:100:3569:-321.414,-30.103,0 0/1:105:40,65:40:1379:65:2317:-177.178,0,-92.3092 0/1:20:8,12:8:288:12:432:-33.1997,0,-20.2468 1/1:25:2,23:2:72:23:809:-66.2916,-0.689028,0 0/1:108:32,76:32:1148:76:2709:-211.469,0,-70.7109 0/1:60:16,44:16:534:44:1569:-123.437,0,-30.299 1/1:66:0,66:0:0:66:2360:-212.643,-19.868,0 1/1:43:0,43:0:0:43:1536:-138.522,-12.9443,0 chr06 2472955 . A G 9380.15 PASS AB=0.459395;ABP=20.9976;AC=12;AF=0.285714;AN=42;AO=578;CIGAR=1X;DP=2305;DPB=2305;DPRA=1.10814;EPP=1258.12;EPPR=3744.46;GTI=0;LEN=1;MEANALT=1.30769;MQM=59.9325;MQMR=59.9669;NS=21;NUMALT=1;ODDS=18.9838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20664;QR=61486;RO=1723;RPL=578;RPP=1258.12;RPPR=3744.46;RPR=0;RUN=1;SAF=0;SAP=1258.12;SAR=578;SRF=0;SRP=3744.46;SRR=1723;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:116,0:116:4141:0:0:0,-34.9195,-372.873 0/0:100:100,0:100:3558:0:0:0,-30.103,-320.426 0/1:93:45,48:45:1616:48:1716:-126.728,0,-117.734 0/0:153:153,0:153:5428:0:0:0,-46.0576,-488.624 0/0:226:225,1:225:8026:1:36:0,-64.4345,-718.717 0/1:109:58,51:58:2076:51:1813:-130.636,0,-154.298 0/1:164:94,69:94:3380:69:2460:-172.375,0,-255.135 0/1:125:72,53:72:2565:53:1900:-133.649,0,-193.467 0/1:198:83,113:83:2950:113:4032:-303.726,0,-206.388 0/1:34:19,15:19:650:15:532:-37.9781,0,-48.5814 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:52:30,22:30:1080:22:784:-55.2294,0,-81.8597 0/0:130:130,0:130:4627:0:0:0,-39.1339,-416.59 0/0:112:112,0:112:4020:0:0:0,-33.7154,-361.988 0/1:136:70,65:70:2497:65:2336:-169.5,0,-183.982 0/1:118:70,48:70:2501:48:1720:-119.564,0,-189.819 0/1:69:41,28:41:1468:28:1004:-69.8477,0,-111.645 0/1:92:49,43:49:1756:43:1539:-111.108,0,-130.629 0/1:66:44,22:44:1580:22:792:-51.7377,0,-122.537 0/0:143:143,0:143:5087:0:0:0,-43.0473,-457.972 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 chr06 2473324 . A G 26224.2 PASS AB=0.441523;ABP=35.7714;AC=30;AF=0.714286;AN=42;AO=1175;CIGAR=1X;DP=1791;DPB=1791;DPRA=0;EPP=1862.18;EPPR=522.81;GTI=1;LEN=1;MEANALT=1;MQM=59.9855;MQMR=59.9968;NS=21;NUMALT=1;ODDS=4.10221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41829;QR=22073;RO=616;RPL=1172;RPP=2528.5;RPPR=1323.32;RPR=3;RUN=1;SAF=83;SAP=1884.49;SAR=1092;SRF=114;SRP=533.696;SRR=502;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59:0:0:59:2083:-187.739,-17.7608,0 1/1:91:0,91:0:0:91:3231:-291.013,-27.3937,0 0/1:22:13,9:13:464:9:324:-22.8832,0,-35.4748 1/1:96:0,96:0:0:96:3440:-309.813,-28.8989,0 1/1:146:0,146:0:0:146:5179:-466.255,-43.9504,0 0/1:92:61,31:61:2187:31:1104:-71.9759,0,-169.399 0/1:134:79,55:79:2816:55:1960:-136.337,0,-213.342 0/1:39:31,8:31:1116:8:288:-14.5272,0,-89.0115 0/1:243:123,120:123:4404:120:4277:-311.958,0,-323.382 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:23:9,14:9:324:14:500:-38.4125,0,-22.5822 1/1:76:0,76:0:0:76:2728:-245.763,-22.8783,0 1/1:66:0,66:0:0:66:2320:-209.059,-19.868,0 0/1:111:70,41:70:2516:41:1460:-98.2817,0,-193.277 0/1:144:84,60:84:3011:60:2133:-148.888,0,-227.872 0/1:112:63,49:63:2264:49:1744:-123.529,0,-170.307 0/1:99:51,48:51:1823:48:1716:-124.924,0,-134.548 0/1:73:28,45:28:1004:45:1595:-121.864,0,-68.7007 1/1:99:0,99:0:0:99:3531:-317.969,-29.802,0 1/1:51:0,51:0:0:51:1824:-164.441,-15.3525,0 chr06 2580507 . ATATTTT AATATT,ATTA 66510.7 PASS AB=0.476744,0.522093;ABP=11.0902,10.3024;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2290,901;CIGAR=1M1D2M1X2M,1M3D2M1X;DP=3200;DPB=2485.57;DPRA=0,1.20576;EPP=4967,1959.51;EPPR=5.18177;GTI=0;LEN=6,4;MEANALT=2.04762,2.14286;MQM=59.4541,40.0055;MQMR=48;NS=21;NUMALT=2;ODDS=11.126;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=81401,32002;QR=36;RO=1;RPL=1,0;RPP=4967,1959.51;RPPR=5.18177;RPR=2289,901;RUN=1,1;SAF=0,0;SAP=4975.68,1959.51;SAR=2290,901;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:140:1,138,0:1:36:138,0:4895,0:-436.949,-38.608,0,-437.25,-41.5421,-440.165 1/1:198:0,197,0:0:0:197,0:7034,0:-632.382,-59.3029,0,-632.382,-59.3029,-632.382 1/2:171:0,83,88:0:0:83,88:2963,3126:-485.205,-243.659,-218.673,-241.895,0,-215.404 1/1:185:0,184,0:0:0:184,0:6519,0:-586.411,-55.3895,0,-586.411,-55.3895,-586.411 1/1:397:0,395,2:0:0:395,2:14016,72:-1260.37,-118.907,0,-1254.71,-112.896,-1254.11 1/2:147:0,66,81:0:0:66,81:2350,2871:-405.471,-214.094,-194.226,-191.72,0,-167.336 1/2:247:0,112,135:0:0:112,135:3947,4774:-676.638,-355.609,-321.894,-321.369,0,-280.73 1/2:37:0,24,13:0:0:24,13:845,462:-104.825,-36.0257,-28.801,-69.1426,0,-65.2292 1/2:329:0,125,204:0:0:125,204:4413,7263:-932.097,-572.78,-535.152,-359.667,0,-298.257 1/2:18:0,5,13:0:0:5,13:172,458:-48.7972,-34.8245,-33.3193,-14.3123,0,-10.3989 1/1:4:0,4,0:0:0:4,0:142,0:-13.1283,-1.20412,0,-13.1283,-1.20412,-13.1283 1/2:39:0,18,21:0:0:18,21:648,750:-109.986,-57.1454,-51.7269,-53.1883,0,-46.8667 1/1:182:0,181,0:0:0:181,0:6466,0:-581.62,-54.4864,0,-581.62,-54.4864,-581.62 1/1:157:0,155,0:0:0:155,0:5519,0:-496.189,-46.6597,0,-496.189,-46.6597,-496.189 1/2:189:0,87,102:0:0:87,102:3073,3604:-532.318,-282.124,-255.934,-250.541,0,-219.836 1/2:183:0,101,82:0:0:101,82:3611,2904:-525.331,-230.908,-200.504,-294.774,0,-270.089 1/2:183:0,92,91:0:0:92,91:3265,3242:-522.303,-256.287,-228.592,-266.366,0,-238.972 1/2:103:0,55,48:0:0:55,48:1972,1722:-293.232,-132.473,-115.916,-161.107,0,-146.657 1/2:74:0,52,20:0:0:52,20:1862,718:-207.509,-55.6662,-40.0126,-151.834,0,-145.813 1/1:145:0,144,1:0:0:144,1:5111,36:-459.762,-43.3483,0,-456.982,-40.2257,-456.681 1/1:72:0,72,0:0:0:72,0:2578,0:-232.049,-21.6742,0,-232.049,-21.6742,-232.049 chr06 2580525 . TT CT,CG 66224.9 PASS AB=0.473345,0.525483;ABP=13.5445,12.6388;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2264,900;CIGAR=1X1M,2X;DP=3171;DPB=3171;DPRA=0,1.19936;EPP=4919.22,1957.34;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.85714,2.14286;MQM=59.4788,39.98;MQMR=0;NS=21;NUMALT=2;ODDS=10.3246;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80878,31944;QR=0;RO=0;RPL=2264,900;RPP=4919.22,1957.34;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4919.22,1957.34;SAR=2264,900;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:141:0,138,0:0:0:138,0:4885,0:-439.254,-41.5421,0,-439.254,-41.5421,-439.254 1/1:198:0,198,0:0:0:198,0:7120,0:-640.352,-59.6039,0,-640.352,-59.6039,-640.352 1/2:171:0,83,88:0:0:83,88:2984,3131:-487.596,-244.187,-219.201,-243.76,0,-217.27 1/1:186:0,186,0:0:0:186,0:6627,0:-596.305,-55.9916,0,-596.305,-55.9916,-596.305 1/1:389:0,387,2:0:0:387,2:13805,72:-1241.44,-116.499,0,-1235.78,-110.487,-1235.17 1/2:147:0,66,81:0:0:66,81:2355,2856:-405.334,-213.616,-193.748,-192.06,0,-167.677 1/2:243:0,108,134:0:0:108,134:3845,4731:-663.5,-350.441,-317.93,-313.153,0,-272.815 1/2:37:0,24,13:0:0:24,13:864,458:-106.265,-35.7514,-28.5267,-70.8578,0,-66.9445 1/2:326:0,122,203:0:0:122,203:4346,7227:-924.182,-570.004,-533.278,-354.171,0,-293.062 1/2:18:0,5,13:0:0:5,13:180,462:-49.9996,-35.3049,-33.7997,-15.0469,0,-11.1335 1/1:4:0,4,0:0:0:4,0:144,0:-13.3127,-1.20412,0,-13.3127,-1.20412,-13.3127 1/2:39:0,18,21:0:0:18,21:648,752:-109.992,-57.1518,-51.7333,-53.1883,0,-46.8667 1/1:179:0,179,0:0:0:179,0:6403,0:-576.314,-53.8844,0,-576.314,-53.8844,-576.314 1/1:155:0,153,0:0:0:153,0:5451,0:-490.032,-46.0576,0,-490.032,-46.0576,-490.032 1/2:188:0,86,102:0:0:86,102:3084,3619:-534.354,-282.875,-256.987,-251.829,0,-221.124 1/2:182:0,99,83:0:0:99,83:3511,2954:-520.479,-234.451,-204.649,-286.379,0,-261.393 1/2:182:0,91,91:0:0:91,91:3245,3213:-518.518,-253.999,-226.606,-264.868,0,-237.475 1/2:102:0,54,48:0:0:54,48:1940,1717:-290.212,-131.973,-115.717,-158.588,0,-144.138 1/2:72:0,52,20:0:0:52,20:1868,716:-208.237,-55.8779,-40.2244,-152.706,0,-146.685 1/1:142:0,141,1:0:0:141,1:5064,36:-455.503,-42.4452,0,-452.723,-39.3227,-452.422 1/1:70:0,70,0:0:0:70,0:2509,0:-226.007,-21.0721,0,-226.007,-21.0721,-226.007 chr06 2580704 . GTCTGC AACTGC,AACTGT 28340.8 PASS AB=0.4,0.593103;ABP=78.5775,68.5139;AC=30,12;AF=0.714286,0.285714;AN=42;AO=867,524;CIGAR=2X4M,2X3M1X;DP=1400;DPB=1400;DPRA=0,1.849;EPP=1885.68,1140.86;EPPR=0;GTI=1;LEN=2,6;MEANALT=2.14286,2.46667;MQM=58.6943,49.8244;MQMR=0;NS=21;NUMALT=2;ODDS=5.84647;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30551,18442;QR=0;RO=0;RPL=867,524;RPP=1885.68,1140.86;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1885.68,1140.86;SAR=867,524;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,64,2:0:0:64,2:2272,72:-204.074,-19.2659,0,-198.232,-13.066,-197.63 1/1:43:0,43,0:0:0:43,0:1494,0:-134.687,-12.9443,0,-134.687,-12.9443,-134.687 1/2:77:0,29,47:0:0:29,47:1023,1644:-216.235,-132.978,-124.248,-83.2685,0,-69.1201 1/1:44:0,44,0:0:0:44,0:1567,0:-141.303,-13.2453,0,-141.303,-13.2453,-141.303 1/1:132:0,127,4:0:0:127,4:4477,140:-402.453,-38.2308,0,-391.271,-26.9569,-390.067 1/2:50:0,29,21:0:0:29,21:1037,751:-145.701,-61.2379,-52.508,-84.8193,0,-78.4977 1/2:93:0,43,49:0:0:43,49:1531,1723:-263.372,-138.596,-125.652,-124.769,0,-110.018 1/2:57:0,18,38:0:0:18,38:614,1330:-157.113,-107.571,-102.153,-49.5761,0,-38.1369 1/2:165:0,54,109:0:0:54,109:1914,3858:-467.596,-311.718,-295.462,-155.898,0,-123.086 1/2:24:0,6,18:0:0:6,18:216,625:-68.5463,-51.003,-49.1968,-17.8985,0,-12.48 1/1:5:0,5,0:0:0:5,0:180,0:-16.5511,-1.50515,0,-16.5511,-1.50515,-16.5511 1/2:24:0,10,14:0:0:10,14:360,489:-69.247,-39.869,-36.8587,-29.7324,0,-25.518 1/1:83:0,81,2:0:0:81,2:2873,72:-257.939,-24.3834,0,-252.074,-18.1585,-251.472 1/1:68:0,67,0:0:0:67,0:2305,0:-207.117,-20.169,0,-207.117,-20.169,-207.117 1/2:131:0,47,83:0:0:47,83:1614,2908:-366.454,-235.49,-221.342,-131.044,0,-106.059 1/2:31:0,12,19:0:0:12,19:430,657:-88.0185,-52.9423,-49.33,-35.4277,0,-29.7082 1/2:43:0,17,26:0:0:17,26:612,916:-123.139,-73.1988,-68.0813,-50.2941,0,-42.4673 1/2:126:0,50,76:0:0:50,76:1761,2691:-361.4,-218.077,-203.026,-143.674,0,-120.796 1/2:49:0,33,16:0:0:33,16:1174,566:-141.507,-46.1634,-36.2294,-95.6959,0,-90.8794 1/1:53:0,52,0:0:0:52,0:1847,0:-165.857,-15.6536,0,-165.857,-15.6536,-165.857 1/1:36:0,36,0:0:0:36,0:1250,0:-112.732,-10.8371,0,-112.732,-10.8371,-112.732 chr06 2583593 . T C 22211.9 PASS AB=0.544471;ABP=17.3023;AC=29;AF=0.690476;AN=42;AO=1080;CIGAR=1X;DP=1467;DPB=1467;DPRA=14.62;EPP=2348.2;EPPR=839.027;GTI=1;LEN=1;MEANALT=1.1;MQM=59.8778;MQMR=59.9299;NS=21;NUMALT=1;ODDS=9.65648;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38549;QR=13785;RO=385;RPL=1080;RPP=2348.2;RPPR=839.027;RPR=0;RUN=1;SAF=0;SAP=2348.2;SAR=1080;SRF=0;SRP=839.027;SRR=385;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:47:20,27:20:716:27:968:-73.289,0,-50.6193 1/1:74:0,74:0:0:74:2602:-234.427,-22.2762,0 1/1:104:2,102:2:72:102:3640:-320.969,-24.4704,0 0/1:34:17,17:17:612:17:608:-44.817,0,-45.1784 0/1:92:36,56:36:1296:56:1996:-152.219,0,-89.2492 0/1:107:57,50:57:2040:50:1796:-129.667,0,-151.662 0/1:202:114,88:114:4096:88:3152:-223.094,0,-307.971 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:39:13,26:13:464:26:936:-72.8193,0,-30.3573 1/1:150:0,150:0:0:150:5329:-479.732,-45.1545,0 1/1:89:0,89:0:0:89:3161:-284.555,-26.7917,0 0/1:110:53,56:53:1885:56:2012:-148.166,0,-136.911 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:8:4,4:4:144:4:140:-10.5363,0,-10.9054 0/1:60:19,41:19:684:41:1472:-114.714,0,-43.8285 0/1:127:41,86:41:1456:86:3080:-239.197,0,-93.1052 1/1:117:0,116:0:0:116:4154:-373.665,-34.9195,0 1/1:53:0,53:0:0:53:1887:-170.108,-15.9546,0 chr06 2595245 . CC TA 14977.3 PASS AB=0.432132;ABP=92.9085;AC=12;AF=0.285714;AN=42;AO=976;CIGAR=2X;DP=4559;DPB=4559;DPRA=0.947171;EPP=2122.37;EPPR=7779.05;GTI=0;LEN=2;MEANALT=1.0625;MQM=59.4109;MQMR=59.9293;NS=21;NUMALT=1;ODDS=0.346522;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34582;QR=126819;RO=3581;RPL=0;RPP=2122.37;RPPR=7779.05;RPR=976;RUN=1;SAF=976;SAP=2122.37;SAR=0;SRF=3581;SRP=7779.05;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:335:335,0:335:11831:0:0:0,-100.845,-1064.66 0/0:227:227,0:227:8070:0:0:0,-68.3338,-726.317 0/1:211:128,83:128:4538:83:2943:-201.298,0,-345.022 0/0:273:272,0:272:9606:0:0:0,-81.8802,-864.214 0/0:600:598,1:598:21187:1:36:0,-177.079,-1902.49 0/1:258:136,122:136:4854:122:4302:-309.659,0,-359.345 0/1:265:138,127:138:4846:127:4512:-326.384,0,-356.523 0/1:189:109,80:109:3869:80:2861:-200.394,0,-291.405 0/1:318:201,117:201:7130:117:4141:-277.114,0,-546.034 0/1:22:13,9:13:466:9:324:-22.8832,0,-35.656 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/1:72:55,17:55:1936:17:596:-32.2925,0,-152.838 0/0:264:264,0:264:9373:0:0:0,-79.4719,-843.536 0/0:288:287,1:287:10114:1:36:0,-83.0984,-906.045 0/1:311:139,172:139:4923:172:6095:-454.325,0,-349.598 0/1:163:110,53:110:3919:53:1879:-120.319,0,-303.833 0/1:168:88,80:88:3111:80:2846:-205.751,0,-229.644 0/1:133:71,62:71:2528:62:2179:-156.31,0,-187.732 0/1:137:88,49:88:3075:49:1732:-114.642,0,-235.735 0/0:189:187,2:187:6656:2:64:0,-50.8166,-592.597 0/0:104:103,1:103:3635:1:36:0,-27.7088,-323.755 chr06 2595357 . T C 9467.76 PASS AB=0.36404;ABP=292.339;AC=12;AF=0.285714;AN=42;AO=663;CIGAR=1X;DP=3202;DPB=3202;DPRA=1.30402;EPP=1442.7;EPPR=5516.38;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9984;NS=21;NUMALT=1;ODDS=26.2224;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23701;QR=91120;RO=2539;RPL=663;RPP=1442.7;RPPR=5516.38;RPR=0;RUN=1;SAF=0;SAP=1442.7;SAR=663;SRF=0;SRP=5516.38;SRR=2539;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:209:209,0:209:7501:0:0:0,-62.9153,-675.125 0/0:115:114,1:114:4081:1:36:0,-31.0202,-363.876 0/1:179:103,76:103:3708:76:2728:-191.878,0,-280.036 0/0:198:198,0:198:7104:0:0:0,-59.6039,-639.417 0/0:405:401,4:401:14351:4:144:0,-108.604,-1278.03 0/1:82:47,35:47:1688:35:1248:-87.9404,0,-127.522 0/1:297:164,133:164:5889:133:4749:-338.162,0,-440.71 0/1:160:109,51:109:3916:51:1832:-116.996,0,-304.467 0/1:251:151,100:151:5428:100:3572:-246.13,0,-413.088 0/1:30:26,4:26:936:4:144:-4.28272,0,-75.5286 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:42:20,22:20:720:22:777:-57.6071,0,-52.4855 0/0:109:109,0:109:3920:0:0:0,-32.8123,-352.991 0/0:142:141,1:141:5068:1:36:0,-39.148,-452.664 0/1:259:164,95:164:5885:95:3387:-227.079,0,-451.79 0/1:127:94,33:94:3368:33:1180:-68.2772,0,-265.105 0/1:154:105,49:105:3757:49:1760:-112.325,0,-291.969 0/1:119:91,28:91:3264:28:1004:-54.8533,0,-258.157 0/1:102:72,30:72:2588:30:1068:-65.727,0,-202.463 0/0:119:118,1:118:4244:1:36:0,-32.2243,-378.539 0/0:95:95,0:95:3416:0:0:0,-28.5978,-307.653 chr06 2695988 . TCAT CCAA,CCAT 32043 PASS AB=0.570406,0.423628;ABP=39.0909,45.4654;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1193,355;CIGAR=1X2M1X,1X3M;DP=1557;DPB=1557;DPRA=0,0.874131;EPP=2584.9,773.883;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.95238,2.41667;MQM=59.4853,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.80313;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41448,12651;QR=0;RO=0;RPL=1,0;RPP=2584.9,773.883;RPPR=0;RPR=1192,355;RUN=1,1;SAF=1193,355;SAP=2593.58,773.883;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106,0:0:0:106,0:3650,0:-328.655,-31.9092,0,-328.655,-31.9092,-328.655 1/1:80:0,79,0:0:0:79,0:2751,0:-247.435,-23.7814,0,-247.435,-23.7814,-247.435 1/2:73:0,39,34:0:0:39,34:1350,1216:-209.212,-99.5115,-87.7714,-110.053,0,-99.8179 1/1:127:0,125,0:0:0:125,0:4351,0:-391.396,-37.6288,0,-391.396,-37.6288,-391.396 1/1:139:0,138,0:0:0:138,0:4814,0:-433.116,-41.5421,0,-433.116,-41.5421,-433.116 1/2:50:0,25,25:0:0:25,25:866,887:-142.999,-72.6224,-65.0966,-70.7266,0,-63.2009 1/2:102:0,62,40:0:0:62,40:2176,1428:-293.399,-116.776,-98.1125,-176.977,0,-164.936 1/2:68:0,33,35:0:0:33,35:1147,1244:-194.847,-101.729,-91.7946,-93.4689,0,-82.9329 1/2:110:0,56,54:0:0:56,54:1946,1923:-315.289,-157.091,-140.233,-158.55,0,-142.295 1/2:7:0,5,2:0:0:5,2:161,72:-19.0222,-6.23466,-4.72951,-13.1355,0,-12.5334 1/1:8:0,8,0:0:0:8,0:282,0:-25.7216,-2.40824,0,-25.7216,-2.40824,-25.7216 1/2:23:0,18,5:0:0:18,5:637,180:-66.9231,-15.0469,-9.62837,-52.2347,0,-50.7296 1/1:87:0,87,0:0:0:87,0:3045,0:-274.27,-26.1896,0,-274.27,-26.1896,-274.27 1/1:81:0,81,0:0:0:81,0:2813,0:-253.386,-24.3834,0,-253.386,-24.3834,-253.386 1/2:68:0,41,26:0:0:41,26:1407,928:-189.376,-75.7094,-63.3672,-113.715,0,-105.888 1/2:69:0,38,31:0:0:38,31:1255,1112:-192.506,-91.0594,-79.6203,-101.792,0,-92.4603 1/2:59:0,35,24:0:0:35,24:1228,856:-170.063,-70.1364,-59.6003,-100.281,0,-93.0561 1/2:119:0,66,50:0:0:66,50:2302,1773:-331.566,-144.511,-124.643,-187.117,0,-172.066 1/2:90:0,60,29:0:0:60,29:2055,1032:-250.969,-84.1619,-66.1001,-166.857,0,-158.127 1/1:50:0,50,0:0:0:50,0:1759,0:-158.575,-15.0515,0,-158.575,-15.0515,-158.575 1/1:41:0,41,0:0:0:41,0:1453,0:-131.045,-12.3422,0,-131.045,-12.3422,-131.045 chr06 2714376 . T C 28734.5 PASS AB=0.366187;ABP=219.195;AC=30;AF=0.714286;AN=42;AO=1432;CIGAR=1X;DP=2318;DPB=2318;DPRA=0;EPP=3086.56;EPPR=1916.09;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9972;MQMR=59.9932;NS=21;NUMALT=1;ODDS=9.06529;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51280;QR=31685;RO=885;RPL=0;RPP=3112.56;RPPR=1924.76;RPR=1432;RUN=1;SAF=1429;SAP=3086.56;SAR=3;SRF=884;SRP=1916.09;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:1,130:1:32:130:4649:-415.37,-36.2356,0 1/1:94:0,94:0:0:94:3356:-302.257,-28.2968,0 0/1:127:89,38:89:3200:38:1364:-84.8299,0,-249.991 1/1:128:1,127:1:36:127:4528:-404.091,-34.9336,0 1/1:217:2,215:2:72:215:7716:-687.634,-58.4868,0 0/1:150:98,52:98:3501:52:1864:-122.885,0,-270.145 0/1:206:136,70:136:4876:70:2512:-164.32,0,-376.98 0/1:121:84,37:84:2997:37:1324:-83.0375,0,-233.536 0/1:183:117,66:117:4184:66:2376:-159.009,0,-321.654 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:47:27,20:27:964:20:720:-50.9804,0,-72.9284 1/1:123:0,123:0:0:123:4402:-396.353,-37.0267,0 1/1:107:0,107:0:0:107:3821:-344.087,-32.2102,0 0/1:146:98,48:98:3516:48:1724:-111.495,0,-272.699 0/1:150:90,60:90:3224:60:2148:-148.433,0,-245.228 0/1:141:94,47:94:3364:47:1680:-109.042,0,-260.531 0/1:53:26,27:26:936:27:972:-71.8433,0,-68.6003 0/1:57:17,40:17:603:40:1440:-112.739,0,-37.4408 1/1:79:0,78:0:0:78:2776:-249.722,-23.4803,0 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 chr06 2714423 . G T 60187.2 PASS AB=0.356539;ABP=447.239;AC=30;AF=0.714286;AN=42;AO=2360;CIGAR=1X;DP=3968;DPB=3968;DPRA=0;EPP=5127.69;EPPR=3479.54;GTI=2;LEN=1;MEANALT=1.09524;MQM=59.9873;MQMR=59.9813;NS=21;NUMALT=1;ODDS=6.58358;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84339;QR=57033;RO=1605;RPL=1399;RPP=179.529;RPPR=26.2281;RPR=961;RUN=1;SAF=1399;SAP=179.529;SAR=961;SRF=869;SRP=26.9425;SRR=736;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:223:1,222:1:36:222:7924:-709.57,-63.5314,0 1/1:94:0,94:0:0:94:3372:-303.695,-28.2968,0 0/1:239:155,82:155:5477:82:2902:-189.73,0,-421.377 1/1:223:0,222:0:0:222:7910:-711.565,-66.8287,0 1/1:356:6,350:6:197:350:12551:-1111.37,-89.1154,0 0/1:148:97,51:97:3437:51:1832:-120.608,0,-264.992 0/1:201:131,70:131:4655:70:2481:-163.035,0,-358.606 0/1:199:125,74:125:4449:74:2656:-179.381,0,-340.677 0/1:404:273,131:273:9688:131:4686:-300.284,0,-750.259 0/1:27:21,6:21:752:6:216:-11.6627,0,-59.8784 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:58:35,23:35:1256:23:828:-57.3844,0,-95.8809 1/1:181:0,181:0:0:181:6436:-579.305,-54.4864,0 1/1:208:0,208:0:0:208:7430:-668.745,-62.6142,0 0/1:384:284,100:284:10100:100:3584:-207.169,0,-793.34 0/1:272:183,89:183:6540:89:3183:-204.813,0,-506.802 0/1:248:149,99:149:5301:99:3547:-244.782,0,-402.571 0/1:181:103,78:103:3645:78:2796:-197.394,0,-273.641 0/1:124:41,83:41:1464:83:2976:-230.745,0,-94.7283 1/1:150:1,149:1:36:149:5318:-475.156,-41.5562,0 1/1:35:0,35:0:0:35:1243:-112.174,-10.5361,0 chr06 2739833 . A G 17630.6 PASS AB=0.522048;ABP=5.9787;AC=30;AF=0.714286;AN=42;AO=870;CIGAR=1X;DP=1211;DPB=1211;DPRA=0;EPP=1892.19;EPPR=743.482;GTI=0;LEN=1;MEANALT=1;MQM=59.9736;MQMR=59.8592;NS=21;NUMALT=1;ODDS=11.4355;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30965;QR=12153;RO=341;RPL=0;RPP=1892.19;RPPR=743.482;RPR=870;RUN=1;SAF=870;SAP=1892.19;SAR=0;SRF=341;SRP=743.482;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:30:0,30:0:0:30:1042:-94.0855,-9.0309,0 1/1:31:1,30:1:36:30:1076:-93.5546,-5.73366,0 0/1:50:27,23:27:953:23:824:-59.4318,0,-71.0318 1/1:98:0,98:0:0:98:3516:-316.649,-29.5009,0 1/1:116:0,116:0:0:116:4135:-372.328,-34.9195,0 0/1:32:16,16:16:576:16:557:-40.8226,0,-42.542 0/1:112:43,69:43:1540:69:2461:-188.027,0,-105.178 0/1:58:32,26:32:1144:26:917:-65.3849,0,-85.5387 0/1:69:26,43:26:936:43:1529:-117.129,0,-63.7884 0/1:24:8,16:8:288:16:572:-44.5887,0,-19.0427 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:32:21,11:21:722:11:392:-25.9871,0,-55.662 1/1:68:2,66:2:72:66:2360:-205.822,-13.6333,0 1/1:72:0,72:0:0:72:2557:-230.379,-21.6742,0 0/1:80:46,34:46:1625:34:1186:-82.9584,0,-122.455 0/1:16:7,9:7:252:9:309:-23.3242,0,-18.2125 0/1:31:13,18:13:468:18:639:-48.5063,0,-33.1277 0/1:121:69,52:69:2461:52:1864:-131.615,0,-185.261 0/1:78:28,50:28:1008:50:1777:-136.731,0,-67.556 1/1:35:0,35:0:0:35:1244:-112.265,-10.5361,0 1/1:49:2,47:2:72:47:1684:-145.008,-7.91375,0 chr06 2757022 . A G 10696.8 PASS AB=0.503962;ABP=3.18237;AC=12;AF=0.285714;AN=42;AO=640;CIGAR=1X;DP=2656;DPB=2656;DPRA=0.876923;EPP=1392.75;EPPR=4380.7;GTI=0;LEN=1;MEANALT=1;MQM=59.9562;MQMR=59.9841;NS=21;NUMALT=1;ODDS=23.5013;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22886;QR=72126;RO=2016;RPL=0;RPP=1392.75;RPPR=4380.7;RPR=640;RUN=1;SAF=640;SAP=1392.75;SAR=0;SRF=2016;SRP=4380.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:144:142,2:142:5097:2:72:0,-36.5116,-452.033 0/0:110:110,0:110:3952:0:0:0,-33.1133,-355.87 0/1:165:76,89:76:2736:89:3200:-238.552,0,-196.812 0/0:325:324,1:324:11565:1:36:0,-94.2365,-1037.12 0/0:254:254,0:254:9067:0:0:0,-76.4616,-816.002 0/1:96:48,48:48:1713:48:1724:-126.518,0,-125.555 0/1:109:45,64:45:1620:64:2296:-174.089,0,-113.278 0/1:119:77,42:77:2749:42:1508:-100.192,0,-211.828 0/1:252:121,131:121:4322:131:4677:-345.214,0,-313.294 0/1:18:8,10:8:288:10:360:-27.3258,0,-20.8489 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:28:12,16:12:432:16:572:-43.3846,0,-30.7924 0/0:198:198,0:198:7086:0:0:0,-59.6039,-637.794 0/0:194:194,0:194:6931:0:0:0,-58.3998,-623.839 0/1:139:66,73:66:2372:73:2628:-194.923,0,-171.895 0/1:108:52,56:52:1860:56:1978:-145.78,0,-135.168 0/1:87:32,55:32:1122:55:1961:-150.574,0,-75.0942 0/1:60:38,22:38:1353:22:773:-51.8277,0,-104.007 0/1:81:51,30:51:1836:30:1065:-71.7763,0,-141.137 0/0:93:92,1:92:3289:1:36:0,-24.3975,-292.627 0/0:71:71,0:71:2556:0:0:0,-21.3731,-230.254 chr06 2760601 . T C 34838 PASS AB=0.537298;ABP=14.9972;AC=30;AF=0.714286;AN=42;AO=1653;CIGAR=1X;DP=2117;DPB=2117;DPRA=0;EPP=3592.45;EPPR=993.277;GTI=0;LEN=1;MEANALT=1;MQM=59.9583;MQMR=60;NS=21;NUMALT=1;ODDS=0.748055;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59043;QR=16605;RO=464;RPL=1653;RPP=3592.45;RPPR=1010.57;RPR=0;RUN=1;SAF=0;SAP=3592.45;SAR=1653;SRF=2;SRP=993.277;SRR=462;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:0,133:0:0:133:4772:-429.636,-40.037,0 1/1:108:0,108:0:0:108:3864:-347.956,-32.5112,0 0/1:59:22,37:22:784:37:1299:-99.4379,0,-53.1231 1/1:197:1,196:1:36:196:7017:-627.992,-55.7046,0 1/1:270:2,268:2:72:268:9578:-855.137,-74.4414,0 0/1:86:43,43:43:1540:43:1528:-111.925,0,-113.004 0/1:124:65,59:65:2324:59:2104:-152.302,0,-172.092 0/1:101:57,44:57:2044:44:1576:-111.726,0,-153.828 0/1:108:31,77:31:1108:77:2744:-214.674,0,-67.5198 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:23:16,7:16:576:7:252:-16.1053,0,-45.2513 1/1:160:2,158:2:72:158:5653:-502.053,-41.3281,0 1/1:81:0,81:0:0:81:2865:-258.087,-24.3834,0 0/1:117:52,65:52:1864:65:2340:-175.638,0,-132.819 0/1:106:51,55:51:1828:55:1972:-145.846,0,-132.892 0/1:121:61,60:61:2173:60:2122:-154.791,0,-159.41 0/1:69:32,37:32:1140:37:1328:-99.0512,0,-82.1381 0/1:70:25,45:25:900:45:1598:-123.038,0,-60.2489 1/1:122:0,122:0:0:122:4343:-391.043,-36.7257,0 1/1:47:0,47:0:0:47:1692:-152.567,-14.1484,0 chr06 2765495 . TTCCGTA CTCTGTC,CTCCGCC 115489 PASS AB=0.431425,0.556591;ABP=95.0362,65.6823;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2475,1994;CIGAR=1X2M1X2M1X,1X4M2X;DP=4525;DPB=4526.86;DPRA=0,1.92849;EPP=5377.4,4332.93;EPPR=0;GTI=1;LEN=7,7;MEANALT=4.04762,4.625;MQM=59.2784,56.8746;MQMR=0;NS=21;NUMALT=2;ODDS=23.3698;PAIRED=0,0;PAIREDR=0;PAO=7,5;PQA=220,161;PQR=0;PRO=3;QA=86706,69107;QR=0;RO=0;RPL=1117,483;RPP=53.9684,1153.85;RPPR=0;RPR=1358,1511;RUN=1,1;SAF=1117,483;SAP=53.9684,1153.85;SAR=1358,1511;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:195:0,192,2:0:0:192,2:6740,67:-606.299,-57.7978,0,-600.873,-52.3491,-600.271 1/1:133:0,133,0:0:0:133,0:4654,0:-419.003,-40.037,0,-419.003,-40.037,-419.003 1/2:123:0,62,59:0:0:62,59:2185,2048:-344.278,-166.384,-147.72,-177.902,0,-160.141 1/1:137:0,136,0:0:0:136,0:4751,0:-427.358,-40.9401,0,-427.358,-40.9401,-427.358 1/1:295:0,290,5:0:0:290,5:10094,180:-907.786,-87.2987,0,-893.103,-72.3659,-891.598 1/2:100:0,44,55:0:0:44,55:1561,1903:-281.754,-154.568,-141.323,-127.134,0,-110.577 1/2:222:0,131,86:0:0:131,86:4598,2975:-615.585,-241.61,-202.175,-373.977,0,-348.089 1/2:162:0,85,76:0:0:85,76:2977,2588:-451.609,-209.38,-183.793,-242.276,0,-219.398 1/2:345:0,171,172:0:0:171,172:6020,5900:-968.616,-478.637,-427.161,-489.969,0,-438.192 2/2:420:0,12,401:0:0:12,401:429,14025:-1259.33,-1224.38,-1220.76,-120.713,-85.7408,0 1/1:10:0,10,0:0:0:10,0:345,0:-31.3818,-3.0103,0,-31.3818,-3.0103,-31.3818 2/2:359:0,22,330:0:0:22,330:755,11504:-1033.97,-972.671,-966.048,-99.3399,-38.0258,0 1/1:220:0,218,1:0:0:218,1:7653,32:-688.241,-65.6245,0,-685.663,-63.0662,-685.362 1/1:200:0,195,0:0:0:195,0:6792,0:-610.675,-58.7009,0,-610.675,-58.7009,-610.675 1/2:222:0,114,106:0:0:114,106:4002,3676:-624.175,-298.489,-264.172,-325.675,0,-293.766 1/2:157:0,72,84:0:0:72,84:2519,2935:-443.492,-238.602,-216.928,-204.934,0,-179.647 1/2:110:0,36,72:0:0:36,72:1235,2516:-304.39,-204.192,-193.355,-100.234,0,-78.5602 1/2:616:0,116,490:0:0:116,490:4079,16856:-1699.33,-1367.29,-1332.38,-332.085,0,-184.58 1/2:196:0,141,54:0:0:141,54:4970,1868:-556.083,-151.587,-109.142,-404.484,0,-388.228 1/1:152:0,150,1:0:0:150,1:5258,34:-473.02,-45.1545,0,-470.263,-42.3942,-469.962 1/1:151:0,145,0:0:0:145,0:5089,0:-457.754,-43.6494,0,-457.754,-43.6494,-457.754 chr06 2775044 . T C 6395.31 PASS AB=0.436034;ABP=36.3463;AC=12;AF=0.285714;AN=42;AO=411;CIGAR=1X;DP=1672;DPB=1672;DPRA=0.907407;EPP=895.485;EPPR=2741.24;GTI=0;LEN=1;MEANALT=1;MQM=59.6399;MQMR=59.7732;NS=21;NUMALT=1;ODDS=19.0827;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14568;QR=45185;RO=1261;RPL=1;RPP=886.821;RPPR=2741.24;RPR=410;RUN=1;SAF=1;SAP=886.821;SAR=410;SRF=0;SRP=2741.24;SRR=1261;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:69:68,1:68:2440:1:27:0,-18.0713,-217.153 0/0:37:37,0:37:1315:0:0:0,-11.1381,-118.311 0/1:53:28,25:28:1000:25:874:-63.0206,0,-74.2494 0/0:60:60,0:60:2136:0:0:0,-18.0618,-192.501 0/0:246:246,0:246:8828:0:0:0,-74.0534,-794.387 0/1:46:9,37:9:320:37:1324:-105.613,0,-15.295 0/1:96:70,26:70:2520:26:927:-54.8403,0,-198.061 0/1:52:35,17:35:1248:17:600:-38.671,0,-96.9713 0/1:144:81,63:81:2903:63:2240:-158.515,0,-218.156 0/1:31:21,10:21:752:10:347:-22.2064,0,-58.6743 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.8661 0/1:17:12,5:12:432:5:176:-11.0449,0,-34.1037 0/0:117:117,0:117:4179:0:0:0,-35.2205,-376.009 0/0:71:70,1:70:2516:1:36:0,-17.7901,-223.104 0/1:116:71,45:71:2552:45:1607:-109.942,0,-195.008 0/1:64:17,47:17:608:47:1679:-132.117,0,-35.7861 0/1:67:34,33:34:1216:33:1171:-85.5253,0,-89.5776 0/1:169:95,74:95:3408:74:2605:-183.822,0,-256.047 0/1:83:56,27:56:2008:27:955:-61.2633,0,-156.003 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.795 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.417 chr06 2775065 . 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C T 27823.6 PASS AB=0.484312;ABP=5.66743;AC=30;AF=0.714286;AN=42;AO=1406;CIGAR=1X;DP=2049;DPB=2049;DPRA=0;EPP=3056.1;EPPR=1397.1;GTI=0;LEN=1;MEANALT=1.04762;MQM=45.3919;MQMR=45.5467;NS=21;NUMALT=1;ODDS=5.27376;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50392;QR=22921;RO=642;RPL=0;RPP=3056.1;RPPR=1397.1;RPR=1406;RUN=1;SAF=1406;SAP=3056.1;SAR=0;SRF=642;SRP=1397.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:142:0,142:0:0:142:5100:-451.431,-42.7463,0 1/1:101:0,101:0:0:101:3605:-315.871,-30.404,0 0/1:81:35,46:35:1256:46:1656:-122.613,0,-87.2998 1/1:62:0,62:0:0:62:2203:-192.017,-18.6639,0 1/1:149:1,148:1:36:148:5299:-467.332,-41.2552,0 0/1:68:44,24:44:1568:24:864:-55.9358,0,-118.042 0/1:132:83,49:83:2948:49:1748:-113.162,0,-217.839 0/1:91:49,42:49:1756:42:1512:-106.6,0,-128.176 0/1:181:67,114:67:2404:114:4074:-309.767,0,-160.179 0/1:35:20,15:20:712:15:540:-37.0768,0,-51.8407 1/1:9:0,9:0:0:9:320:-28.5746,-2.70927,0 0/1:49:26,23:26:928:23:824:-57.5429,0,-67.5795 1/1:106:1,105:1:36:105:3761:-330.138,-28.3424,0 1/1:75:0,75:0:0:75:2683:-238.304,-22.5773,0 0/1:255:135,120:135:4816:120:4300:-305.228,0,-351.574 0/1:60:29,31:29:1036:31:1116:-81.8395,0,-75.002 0/1:74:46,28:46:1652:28:1004:-65.3816,0,-125.125 0/1:134:81,52:81:2886:52:1871:-124.25,0,-213.503 0/1:83:25,58:25:887:58:2088:-158.97,0,-54.1504 1/1:113:0,113:0:0:113:4060:-358.148,-34.0164,0 1/1:49:0,49:0:0:49:1764:-151.616,-14.7505,0 chr06 2834136 . TAACCAG CAACCAA,CAATCAA 42009.5 PASS AB=0.475358,0.517488;ABP=9.64555,6.35209;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1398,652;CIGAR=1X5M1X,1X2M1X2M1X;DP=2063;DPB=2063;DPRA=0,1.19307;EPP=3038.73,1418.81;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.19048,2.69231;MQM=45.485,45.4586;MQMR=0;NS=21;NUMALT=2;ODDS=3.42893;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49653,23145;QR=0;RO=0;RPL=0,0;RPP=3038.73,1418.81;RPPR=0;RPR=1398,652;RUN=1,1;SAF=1398,652;SAP=3038.73,1418.81;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:140:0,140,0:0:0:140,0:4973,0:-441.84,-42.1442,0,-441.84,-42.1442,-441.84 1/1:99:0,97,0:0:0:97,0:3455,0:-304.039,-29.1999,0,-304.039,-29.1999,-304.039 1/2:80:0,45,35:0:0:45,35:1610,1249:-229.987,-100.682,-87.1359,-129.657,0,-119.121 1/1:60:0,59,0:0:0:59,0:2068,0:-182.373,-17.7608,0,-182.373,-17.7608,-182.373 1/1:150:0,149,0:0:0:149,0:5303,0:-471.303,-44.8535,0,-471.303,-44.8535,-471.303 1/2:68:0,23,45:0:0:23,45:828,1593:-193.148,-127.185,-120.262,-66.3133,0,-52.7669 1/2:134:0,48,84:0:0:48,84:1706,2950:-368.637,-232.966,-218.516,-135.743,0,-110.456 1/2:92:0,43,49:0:0:43,49:1536,1745:-263.024,-139.915,-126.97,-123.46,0,-108.71 1/2:186:0,114,71:0:0:114,71:4061,2505:-530.789,-201.956,-167.638,-328.865,0,-307.492 1/2:34:0,14,20:0:0:14,20:489,705:-95.0503,-56.0878,-51.8734,-39.3054,0,-33.2848 1/1:8:0,8,0:0:0:8,0:288,0:-25.7034,-2.40824,0,-25.7034,-2.40824,-25.7034 1/2:48:0,20,27:0:0:20,27:716,959:-133.455,-75.9311,-69.9105,-57.5755,0,-49.4477 1/1:103:0,102,1:0:0:102,1:3622,36:-321.91,-30.7051,0,-319.001,-27.4393,-318.7 1/1:78:0,78,0:0:0:78,0:2787,0:-247.748,-23.4803,0,-247.748,-23.4803,-247.748 1/2:259:0,119,139:0:0:119,139:4257,4940:-738.834,-395.891,-360.069,-342.935,0,-301.092 1/2:61:0,32,29:0:0:32,29:1135,1030:-175.485,-83.8143,-74.1814,-92.0234,0,-83.2936 1/2:73:0,27,46:0:0:27,46:948,1644:-209.048,-132.866,-124.738,-76.532,0,-62.6847 1/2:137:0,55,80:0:0:55,80:1935,2859:-382.365,-228.099,-211.542,-154.288,0,-130.205 1/2:86:0,58,26:0:0:58,26:2058,930:-240.055,-75.1772,-57.7175,-164.909,0,-157.082 1/1:118:0,118,0:0:0:118,0:4175,0:-369.64,-35.5215,0,-369.64,-35.5215,-369.64 1/1:49:0,49,0:0:0:49,0:1703,0:-149.06,-14.7505,0,-149.06,-14.7505,-149.06 chr06 2870488 . C T 53976.2 PASS AB=0.518642;ABP=7.54408;AC=30;AF=0.714286;AN=42;AO=2021;CIGAR=1X;DP=2750;DPB=2750;DPRA=0;EPP=4374.2;EPPR=1586.01;GTI=0;LEN=1;MEANALT=1;MQM=59.8253;MQMR=59.9986;NS=21;NUMALT=1;ODDS=18.7865;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72159;QR=25898;RO=729;RPL=1066;RPP=16.2487;RPPR=3.68051;RPR=955;RUN=1;SAF=1068;SAP=17.22;SAR=953;SRF=372;SRP=3.68051;SRR=357;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:1,171:1:36:171:6130:-548.105,-48.1789,0 1/1:101:0,101:0:0:101:3597:-323.903,-30.404,0 0/1:82:35,47:35:1240:47:1678:-126.618,0,-87.22 1/1:130:0,130:0:0:130:4657:-419.289,-39.1339,0 1/1:274:3,271:3:104:271:9699:-862.945,-72.7794,0 0/1:128:67,61:67:2387:61:2176:-157.55,0,-176.555 0/1:177:83,94:83:2957:94:3370:-250.23,0,-213.08 0/1:131:70,61:70:2478:61:2181:-157.102,0,-183.839 0/1:120:60,60:60:2148:60:2141:-156.832,0,-157.464 0/1:26:7,19:7:252:19:684:-54.0635,0,-15.2022 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:42:25,17:25:892:17:612:-42.7702,0,-67.9564 1/1:175:1,174:1:36:174:6210:-555.393,-49.082,0 1/1:113:0,113:0:0:113:4028:-362.701,-34.0164,0 0/1:189:83,106:83:2950:106:3796:-284.894,0,-208.839 0/1:77:44,33:44:1553:33:1184:-83.689,0,-116.88 0/1:86:46,40:46:1636:40:1421:-102.293,0,-121.64 0/1:227:122,105:122:4312:105:3733:-267.831,0,-319.926 0/1:217:81,136:81:2881:136:4870:-373.124,0,-194.202 1/1:131:1,130:1:36:130:4591:-409.745,-35.8367,0 1/1:144:0,144:0:0:144:5113:-460.263,-43.3483,0 chr06 2870510 . C T 54410.6 PASS AB=0.518224;ABP=7.36332;AC=30;AF=0.714286;AN=42;AO=2028;CIGAR=1X;DP=2761;DPB=2761;DPRA=0;EPP=23.4016;EPPR=4.44608;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.8254;MQMR=59.9549;NS=21;NUMALT=1;ODDS=18.0105;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72249;QR=25923;RO=732;RPL=2010;RPP=4251.8;RPPR=1549.4;RPR=18;RUN=1;SAF=1065;SAP=14.1503;SAR=963;SRF=372;SRP=3.43747;SRR=360;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:1,173:1:36:173:6177:-552.421,-48.7809,0 1/1:101:0,101:0:0:101:3576:-322.035,-30.404,0 0/1:85:37,48:37:1328:48:1697:-127.423,0,-94.2347 1/1:130:0,130:0:0:130:4628:-416.681,-39.1339,0 1/1:276:2,273:2:72:273:9737:-869.227,-76.3064,0 0/1:129:66,63:66:2349:63:2248:-163.733,0,-172.835 0/1:172:81,91:81:2849:91:3233:-239.413,0,-204.872 0/1:131:70,61:70:2471:61:2171:-156.204,0,-183.21 0/1:123:63,60:63:2199:60:2153:-157.01,0,-161.13 0/1:26:7,19:7:248:19:684:-54.0635,0,-14.8374 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:41:24,17:24:851:17:608:-42.5795,0,-64.5672 1/1:174:1,173:1:36:173:6149:-549.902,-48.7809,0 1/1:112:0,112:0:0:112:3982:-358.564,-33.7154,0 0/1:191:84,107:84:2981:107:3814:-285.911,0,-211.026 0/1:78:43,35:43:1535:35:1260:-90.2251,0,-114.962 0/1:88:47,41:47:1655:41:1460:-105.203,0,-122.746 0/1:229:123,106:123:4351:106:3760:-269.661,0,-322.831 0/1:216:82,134:82:2926:134:4778:-365.147,0,-198.494 1/1:137:1,136:1:36:136:4852:-433.22,-37.6428,0 1/1:141:0,141:0:0:141:5034:-453.16,-42.4452,0 chr06 2887262 . GAAAATC GAAATC 16338.6 PASS AB=0.448553;ABP=17.3099;AC=30;AF=0.714286;AN=42;AO=818;CIGAR=1M1D5M;DP=1167;DPB=1049.86;DPRA=0;EPP=1779.27;EPPR=676.035;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.8362;MQMR=59.8232;NS=21;NUMALT=1;ODDS=7.19298;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28722;QR=12084;RO=345;RPL=0;RPP=1779.27;RPPR=676.035;RPR=818;RUN=1;SAF=0;SAP=1779.27;SAR=818;SRF=0;SRP=752.168;SRR=345;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:1,66:1:36:66:2306:-204.16,-16.5707,0 1/1:42:0,42:0:0:42:1478:-133.313,-12.6433,0 0/1:55:35,20:35:1231:20:712:-47.85,0,-94.5279 1/1:86:1,85:1:36:85:2956:-262.675,-22.2903,0 1/1:109:2,107:2:70:107:3777:-333.154,-26.1649,0 0/1:39:20,19:20:708:19:684:-50.1502,0,-52.3056 0/1:94:57,37:57:1972:37:1276:-86.8406,0,-149.455 0/1:61:25,36:25:868:36:1256:-94.9762,0,-60.0722 0/1:71:42,28:42:1464:28:979:-66.9868,0,-110.622 0/1:6:4,2:4:144:2:72:-5.03012,0,-11.5074 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:19:12,7:12:420:7:252:-17.3094,0,-32.4141 1/1:71:0,70:0:0:70:2458:-221.113,-21.0721,0 1/1:57:0,57:0:0:57:2011:-181.258,-17.1587,0 0/1:54:29,25:29:1016:25:872:-62.4818,0,-75.4926 0/1:68:35,33:35:1241:33:1159:-84.1427,0,-91.497 0/1:65:42,22:42:1477:22:767:-49.7234,0,-113.595 0/1:47:24,23:24:847:23:806:-58.709,0,-62.4014 0/1:43:16,27:16:554:27:964:-74.1325,0,-37.2409 1/1:67:0,67:0:0:67:2371:-213.648,-20.169,0 1/1:40:0,39:0:0:39:1350:-121.512,-11.7402,0 chr06 2890328 . G A 3308.28 PASS AB=0.491713;ABP=3.33422;AC=12;AF=0.285714;AN=42;AO=268;CIGAR=1X;DP=1102;DPB=1102;DPRA=1.25797;EPP=584.965;EPPR=1762.28;GTI=0;LEN=1;MEANALT=1;MQM=34.0485;MQMR=59.446;NS=21;NUMALT=1;ODDS=0.61067;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9471;QR=29738;RO=834;RPL=268;RPP=584.965;RPPR=1762.28;RPR=0;RUN=1;SAF=268;SAP=584.965;SAR=0;SRF=834;SRP=1814.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:68:68,0:68:2435:0:0:0,-20.47,-219.376 0/0:23:23,0:23:820:0:0:0,-6.92369,-74.1225 0/1:43:26,17:26:932:17:608:-34.3706,0,-71.2261 0/0:71:71,0:71:2548:0:0:0,-21.3731,-229.418 0/0:51:51,0:51:1817:0:0:0,-15.3525,-163.764 0/1:30:14,16:14:489:16:561:-36.1078,0,-35.308 0/1:72:47,25:47:1671:25:888:-50.1482,0,-128.983 0/1:91:48,43:48:1716:43:1518:-96.1805,0,-127.229 0/1:121:48,73:48:1709:73:2580:-168.754,0,-117.611 0/1:9:3,6:3:108:6:216:-15.1446,0,-7.3659 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:7,3:7:248:3:108:-6.07895,0,-19.6539 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200 0/0:52:52,0:52:1826:0:0:0,-15.6536,-164.218 0/1:44:12,32:12:432:32:1148:-78.7493,0,-25.9735 0/1:17:12,5:12:417:5:150:-7.50556,0,-32.7427 0/1:15:8,7:8:288:7:237:-13.9533,0,-21.6945 0/1:29:6,23:6:207:23:813:-57.4279,0,-10.237 0/1:62:45,17:45:1616:17:608:-29.3006,0,-127.06 0/0:197:196,1:196:6991:1:36:0,-56.0567,-625.806 0/0:31:31,0:31:1104:0:0:0,-9.33193,-99.6569 chr06 2890337 . 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T C 4652.7 PASS AB=0.454412;ABP=15.2855;AC=12;AF=0.285714;AN=42;AO=313;CIGAR=1X;DP=1200;DPB=1200;DPRA=1.26845;EPP=674.023;EPPR=1918.26;GTI=1;LEN=1;MEANALT=1.07692;MQM=43.0607;MQMR=45.0124;NS=21;NUMALT=1;ODDS=2.12839;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11132;QR=31705;RO=886;RPL=1;RPP=674.023;RPPR=1926.93;RPR=312;RUN=1;SAF=0;SAP=682.681;SAR=313;SRF=1;SRP=1918.26;SRR=885;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:91,0:91:3268:0:0:0,-27.3937,-290.205 0/0:50:50,0:50:1796:0:0:0,-15.0515,-159.983 0/1:72:35,37:35:1251:37:1320:-95.0341,0,-86.8431 0/0:44:44,0:44:1575:0:0:0,-13.2453,-139.925 0/0:128:124,4:124:4423:4:144:0,-27.3766,-381.683 0/1:45:21,24:21:756:24:856:-62.5287,0,-53.3191 0/1:118:63,55:63:2251:55:1954:-137.649,0,-162.866 0/1:42:27,15:27:964:15:540:-35.448,0,-73.4882 0/1:87:43,44:43:1536:44:1562:-111.61,0,-110.333 0/1:4:1,3:1:36:3:108:-8.69702,0,-2.3545 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.3004 0/1:5:4,1:4:144:1:36:-2.03097,0,-11.6617 0/0:58:58,0:58:2080:0:0:0,-17.4597,-184.904 0/0:60:60,0:60:2144:0:0:0,-18.0618,-189.432 0/1:94:58,35:58:2071:35:1243:-81.3703,0,-155.711 0/1:41:13,28:13:468:28:993:-70.8599,0,-29.4803 0/1:38:23,15:23:824:15:523:-34.9621,0,-61.9822 0/1:68:33,35:33:1188:35:1256:-90.8439,0,-85.5355 0/1:66:49,17:49:1756:17:597:-33.0663,0,-136.212 0/0:40:40,0:40:1436:0:0:0,-12.0412,-125.654 0/0:44:44,0:44:1558:0:0:0,-13.2453,-138.504 chr06 2967667 . TAAAACCT TAAAAAAAACCT 18224.9 PASS AB=0.4617;ABP=15.1528;AC=30;AF=0.714286;AN=42;AO=1011;CIGAR=1M4I7M;DP=1537;DPB=2052.75;DPRA=0;EPP=2198.37;EPPR=1088.75;GTI=0;LEN=4;MEANALT=2.04762;MQM=42.0781;MQMR=59.992;NS=21;NUMALT=1;ODDS=1.32936;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34976;QR=17444;RO=500;RPL=0;RPP=2198.37;RPPR=1088.75;RPR=1011;RUN=1;SAF=1011;SAP=2198.37;SAR=0;SRF=500;SRP=1088.75;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:1,100:1:36:100:3423:-291.725,-26.8058,0 1/1:67:0,66:0:0:66:2261:-202.1,-19.868,0 0/1:63:29,32:29:1021:32:1072:-73.9644,0,-73.6111 1/1:53:0,52:0:0:52:1777:-152.328,-15.6536,0 1/1:133:1,128:1:36:128:4396:-374.931,-35.5855,0 0/1:51:26,25:26:905:25:892:-64.7124,0,-66.412 0/1:125:69,56:69:2430:56:1939:-135.946,0,-181.33 0/1:99:59,39:59:2062:39:1381:-94.0463,0,-156.139 0/1:128:62,63:62:2159:63:2180:-147.98,0,-156.61 0/1:21:18,3:18:630:3:104:-3.3254,0,-50.7036 1/1:6:0,6:0:0:6:207:-18.5546,-1.80618,0 0/1:21:13,8:13:449:8:284:-19.4139,0,-34.4176 1/1:83:2,80:2:71:80:2766:-231.414,-18.2889,0 1/1:32:0,32:0:0:32:1084:-93.5585,-9.63296,0 0/1:126:64,59:64:2219:59:2024:-137.375,0,-162.603 0/1:61:32,28:32:1118:28:985:-65.5153,0,-82.5177 0/1:65:36,27:36:1243:27:944:-61.5644,0,-92.8616 0/1:138:76,59:76:2649:59:2101:-147.111,0,-197.667 0/1:55:12,41:12:416:41:1434:-106.916,0,-21.5098 1/1:50:0,49:0:0:49:1720:-153.478,-14.7505,0 1/1:59:0,58:0:0:58:2002:-178.639,-17.4597,0 chr06 2972671 . GAAT AAAC,GAAC 42399.5 PASS AB=0.468468,0.522523;ABP=11.6375,7.41193;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1493,530;CIGAR=1X2M1X,3M1X;DP=2035;DPB=2035;DPRA=0,0.761719;EPP=3150.18,1127.98;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.33333,2.625;MQM=59.8526,59.9642;MQMR=0;NS=21;NUMALT=2;ODDS=19.0545;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51437,18946;QR=0;RO=0;RPL=11,3;RPP=3150.18,1127.98;RPPR=0;RPR=1482,527;RUN=1,1;SAF=1493,530;SAP=3245.02,1153.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:166:0,161,5:0:0:161,5:5456,180:-490.772,-48.4658,0,-476.084,-33.4189,-474.579 1/1:67:0,66,1:0:0:66,1:2300,36:-206.898,-19.868,0,-203.961,-16.5707,-203.659 1/2:75:0,31,44:0:0:31,44:1092,1576:-217.789,-128.886,-119.554,-89.2571,0,-76.0117 1/1:113:0,113,0:0:0:113,0:3907,0:-351.811,-34.0164,0,-351.811,-34.0164,-351.811 1/1:271:0,270,0:0:0:270,0:9326,0:-838.99,-81.2781,0,-838.99,-81.2781,-838.99 1/2:95:0,45,48:0:0:45,48:1563,1711:-266.653,-139.588,-126.042,-127.176,0,-112.727 1/2:127:0,57,67:0:0:57,67:1978,2400:-356.609,-195.833,-178.674,-160.871,0,-140.702 1/2:121:0,52,68:0:0:52,68:1807,2426:-344.779,-197.873,-182.22,-147.004,0,-126.534 1/2:145:0,75,68:0:0:75,68:2551,2432:-405.249,-198.378,-175.801,-206.933,0,-186.463 1/2:10:0,4,6:0:0:4,6:132,216:-28.6435,-17.9843,-16.7802,-11.001,0,-9.19481 1/1:11:0,11,0:0:0:11,0:369,0:-33.5331,-3.31133,0,-33.5331,-3.31133,-33.5331 1/2:18:0,6,12:0:0:6,12:215,432:-53.1431,-35.6088,-33.8027,-17.893,0,-14.2806 1/1:133:0,132,1:0:0:132,1:4580,32:-412.055,-39.736,0,-409.476,-36.8377,-409.175 1/1:138:0,138,0:0:0:138,0:4742,0:-426.925,-41.5421,0,-426.925,-41.5421,-426.925 1/2:131:0,61,69:0:0:61,69:2130,2476:-375.118,-201.866,-183.504,-173.256,0,-152.484 1/2:90:0,33,57:0:0:33,57:1136,2040:-258.974,-166.713,-156.779,-92.6099,0,-75.4512 1/2:81:0,34,47:0:0:34,47:1162,1680:-231.636,-137.339,-127.104,-94.6459,0,-80.4975 1/2:57:0,36,21:0:0:36,21:1244,733:-161.044,-59.968,-49.131,-101.424,0,-95.1023 1/2:49:0,34,15:0:0:34,15:1146,540:-137.263,-44.4211,-34.1861,-93.1947,0,-88.6793 1/1:78:0,76,1:0:0:76,1:2613,36:-235.061,-22.8783,0,-232.123,-19.9409,-231.822 1/1:59:0,58,0:0:0:58,0:1988,0:-178.853,-17.4597,0,-178.853,-17.4597,-178.853 chr06 3015471 . GGGC TGGC,CGGT 16039.6 PASS AB=0.361162,0.622505;ABP=95.2644,74.8344;AC=29,13;AF=0.690476,0.309524;AN=42;AO=552,350;CIGAR=1X3M,1X2M1X;DP=918;DPB=918;DPRA=7.6,1.18373;EPP=1201.66,763.026;EPPR=22.5536;GTI=1;LEN=1,4;MEANALT=1.95,2.46154;MQM=60,60;MQMR=60;NS=21;NUMALT=2;ODDS=1.09802;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17732,11433;QR=269;RO=9;RPL=552,350;RPP=1201.66,763.026;RPPR=22.5536;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1201.66,763.026;SAR=552,350;SRF=0;SRP=22.5536;SRR=9;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,46,1:0:0:46,1:1424,32:-128.108,-13.8474,0,-125.529,-10.9491,-125.228 1/1:21:1,20,0:1:36:20,0:647,0:-54.9351,-2.72336,0,-55.2361,-6.0206,-58.1753 1/2:44:0,24,20:0:0:24,20:755,659:-114.297,-53.6,-46.3752,-61.0201,0,-54.9995 1/1:45:1,44,0:1:29:44,0:1400,0:-123.377,-10.6467,0,-123.678,-13.2453,-125.986 1/1:89:2,87,0:2:60:87,0:2894,0:-254.994,-21.0925,0,-255.596,-26.1896,-260.392 1/2:18:1,7,10:1:29:7,10:225,310:-40.4346,-22.5947,-22.7943,-15.8589,0,-15.1534 1/2:47:0,19,28:0:0:19,28:638,937:-127.885,-76.2069,-70.4874,-52.0133,0,-43.5845 1/2:84:0,34,50:0:0:34,50:1090,1678:-224.078,-136.252,-126.017,-88.152,0,-73.1005 1/2:82:0,30,50:0:0:30,50:984,1634:-211.449,-131.951,-122.921,-79.4857,0,-64.4342 2/2:6:0,0,6:0:0:0,6:0,201:-18.4189,-18.4189,-18.4189,-1.80618,-1.80618,0 1/1:4:0,4,0:0:0:4,0:106,0:-9.80305,-1.20412,0,-9.80305,-1.20412,-9.80305 1/2:10:0,3,6:0:0:3,6:88,187:-22.0402,-15.0304,-14.1273,-7.00979,0,-5.20361 1/1:56:2,54,0:2:59:54,0:1795,0:-156.215,-11.2534,0,-156.817,-16.2556,-161.523 1/1:38:1,37,0:1:29:37,0:1067,0:-93.3925,-8.53948,0,-93.6936,-11.1381,-96.0023 1/2:83:0,25,56:0:0:25,56:842,1847:-217.605,-149.377,-141.851,-68.2868,0,-51.4291 1/2:42:0,13,28:0:0:13,28:407,917:-106.754,-74.0544,-70.141,-32.6704,0,-24.2416 1/2:46:0,8,38:0:0:8,38:271,1235:-121.978,-100.005,-97.5964,-22.31,0,-10.8709 1/2:47:1,13,32:1:27:13,32:426,1033:-115.304,-81.1913,-79.4051,-32.2984,0,-24.7903 1/2:48:0,23,25:0:0:23,25:768,763:-123.62,-61.4359,-54.5122,-62.5042,0,-54.9784 1/1:36:0,36,0:0:0:36,0:1152,0:-103.967,-10.8371,0,-103.967,-10.8371,-103.967 1/1:25:0,25,0:0:0:25,0:753,0:-68.0539,-7.52575,0,-68.0539,-7.52575,-68.0539 chr06 3019055 . T C 22657.7 PASS AB=0.503394;ABP=3.09873;AC=30;AF=0.714286;AN=42;AO=1108;CIGAR=1X;DP=1551;DPB=1551;DPRA=0;EPP=2409;EPPR=956.306;GTI=0;LEN=1;MEANALT=1;MQM=59.9585;MQMR=60;NS=21;NUMALT=1;ODDS=9.87339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39513;QR=15077;RO=443;RPL=1108;RPP=2409;RPPR=956.306;RPR=0;RUN=1;SAF=0;SAP=2409;SAR=1108;SRF=0;SRP=964.973;SRR=443;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:116:0,116:0:0:116:4122:-371.164,-34.9195,0 1/1:109:0,109:0:0:109:3897:-350.92,-32.8123,0 0/1:77:41,36:41:1407:36:1284:-92.6841,0,-103.74 1/1:74:0,74:0:0:74:2649:-238.654,-22.2762,0 1/1:117:0,117:0:0:117:4166:-375.121,-35.2205,0 0/1:50:30,20:30:1053:20:716:-49.7162,0,-80.0271 0/1:99:51,48:51:1737:48:1679:-121.589,0,-126.802 0/1:87:51,36:51:1760:36:1280:-89.3136,0,-132.486 0/1:34:14,20:14:492:20:720:-54.8938,0,-34.3773 0/1:6:4,2:4:125:2:72:-5.03054,0,-9.75244 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:16:11,5:11:380:5:180:-11.7356,0,-29.7155 1/1:63:0,63:0:0:63:2268:-204.382,-18.9649,0 1/1:64:2,62:2:57:62:2205:-193.3,-13.8526,0 0/1:181:96,85:96:3244:85:3056:-220.155,0,-237.688 0/1:79:48,31:48:1589:31:1112:-76.61,0,-119.499 0/1:97:43,54:43:1471:54:1920:-143.875,0,-103.475 0/1:83:31,52:31:1048:52:1856:-142.334,0,-69.6322 0/1:75:19,56:19:642:56:2000:-157.695,0,-35.5168 1/1:63:1,62:1:36:62:2205:-195.115,-15.3666,0 1/1:54:1,53:1:36:53:1874:-165.337,-12.6573,0 chr06 3025414 . A C 7422.91 PASS AB=0.472425;ABP=9.35751;AC=12;AF=0.285714;AN=42;AO=457;CIGAR=1X;DP=1837;DPB=1837;DPRA=1.05415;EPP=995.373;EPPR=2999.64;GTI=0;LEN=1;MEANALT=1;MQM=59.9869;MQMR=59.9101;NS=21;NUMALT=1;ODDS=15.8145;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16339;QR=48883;RO=1380;RPL=0;RPP=995.373;RPPR=2999.64;RPR=457;RUN=1;SAF=457;SAP=995.373;SAR=0;SRF=1380;SRP=2999.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.168 0/0:34:34,0:34:1175:0:0:0,-10.235,-106.048 0/1:143:81,62:81:2817:62:2204:-155.576,0,-210.49 0/0:117:116,1:116:4111:1:36:0,-31.6222,-366.575 0/0:128:128,0:128:4525:0:0:0,-38.5318,-407.412 0/1:49:23,26:23:805:26:928:-69.0832,0,-58.0124 0/1:86:53,33:53:1855:33:1184:-80.9797,0,-141.335 0/1:112:40,72:40:1413:72:2569:-197.743,0,-93.7499 0/1:128:77,51:77:2738:51:1817:-125.278,0,-208.128 0/1:15:8,7:8:288:7:252:-18.5135,0,-21.752 0/0:4:4,0:4:136:0:0:0,-1.20412,-12.5755 0/1:44:23,21:23:798:21:752:-54.7609,0,-58.8888 0/0:184:184,0:184:6559:0:0:0,-55.3895,-588.493 0/0:141:141,0:141:5014:0:0:0,-42.4452,-451.407 0/1:93:42,51:42:1508:51:1832:-137.165,0,-108.019 0/1:27:17,10:17:597:10:360:-24.6165,0,-45.9283 0/1:28:8,20:8:288:20:705:-55.3439,0,-17.8386 0/1:155:83,72:83:2920:72:2588:-186.509,0,-216.363 0/1:81:52,29:52:1853:29:1040:-69.5309,0,-142.664 0/0:168:166,2:166:5934:2:72:0,-43.7363,-527.299 0/0:57:57,0:57:2017:0:0:0,-17.1587,-181.801 chr06 3025431 . AC TT,AT 39479.7 PASS AB=0.528205,0.470769;ABP=9.74743,10.2463;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1393,464;CIGAR=2X,1M1X;DP=1861;DPB=1861;DPRA=0,1.25055;EPP=2993.23,1010.57;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.90476,2.13333;MQM=59.8995,59.9375;MQMR=0;NS=21;NUMALT=2;ODDS=15.855;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49283,16588;QR=0;RO=0;RPL=4,0;RPP=2993.23,1010.57;RPPR=0;RPR=1389,464;RUN=1,1;SAF=1393,464;SAP=3027.87,1010.57;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,43,0:0:0:43,0:1498,0:-134.823,-12.9443,0,-134.823,-12.9443,-134.823 1/1:34:0,34,0:0:0:34,0:1222,0:-110.287,-10.235,0,-110.287,-10.235,-110.287 1/2:147:0,85,62:0:0:85,62:2999,2228:-426.271,-182.12,-156.532,-244.507,0,-225.843 1/1:119:0,118,1:0:0:118,1:4163,36:-374.492,-35.5215,0,-371.555,-32.2243,-371.254 1/1:128:0,128,0:0:0:128,0:4533,0:-408.125,-38.5318,0,-408.125,-38.5318,-408.125 1/2:49:0,23,26:0:0:23,26:826,917:-142.393,-75.0132,-68.0895,-67.7355,0,-59.9087 1/2:86:0,54,32:0:0:54,32:1903,1140:-248.211,-93.2762,-77.0206,-155.29,0,-145.657 1/2:109:0,39,70:0:0:39,70:1384,2516:-318.38,-205.619,-193.879,-113.117,0,-92.0445 1/2:132:0,80,51:0:0:80,51:2797,1819:-375.811,-148.28,-124.198,-227.564,0,-212.212 1/2:15:0,8,7:0:0:8,7:288,252:-44.4211,-20.9217,-18.5135,-23.8592,0,-21.752 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:44:0,23,21:0:0:23,21:828,746:-128.705,-61.1422,-54.2185,-67.9204,0,-61.5988 1/1:184:0,184,0:0:0:184,0:6513,0:-585.476,-55.3895,0,-585.476,-55.3895,-585.476 1/1:143:0,141,1:0:0:141,1:4969,36:-447.001,-42.4452,0,-444.063,-39.5078,-443.762 1/2:96:0,42,54:0:0:42,54:1496,1906:-277.494,-155.558,-142.915,-122.291,0,-106.035 1/2:27:0,17,10:0:0:17,10:608,360:-79.3098,-29.734,-24.6165,-49.9347,0,-46.9244 1/2:29:0,8,21:0:0:8,21:286,756:-85.3648,-62.0456,-59.6374,-23.6772,0,-17.3556 1/2:160:0,85,75:0:0:85,75:3011,2696:-465.573,-220.307,-194.719,-245.623,0,-223.046 1/2:81:0,51,30:0:0:51,30:1821,1072:-236.222,-87.7616,-72.409,-148.818,0,-139.787 1/1:173:0,170,3:0:0:170,3:5998,108:-539.565,-51.1751,0,-530.752,-42.003,-529.849 1/1:57:0,56,0:0:0:56,0:1996,0:-179.661,-16.8577,0,-179.661,-16.8577,-179.661 chr06 3025444 . A G 7545.13 PASS AB=0.477083;ABP=7.38944;AC=12;AF=0.285714;AN=42;AO=462;CIGAR=1X;DP=1823;DPB=1823;DPRA=1.07155;EPP=997.563;EPPR=2941.04;GTI=0;LEN=1;MEANALT=1;MQM=59.9372;MQMR=59.9104;NS=21;NUMALT=1;ODDS=14.8502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16480;QR=48553;RO=1361;RPL=461;RPP=997.563;RPPR=2941.04;RPR=1;RUN=1;SAF=462;SAP=1006.23;SAR=0;SRF=1361;SRP=2958.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1593:0:0:0,-13.5463,-143.654 0/0:34:34,0:34:1175:0:0:0,-10.235,-106.048 0/1:147:84,63:84:2986:63:2241:-157.701,0,-224.695 0/0:117:116,1:116:4149:1:36:0,-31.6222,-369.993 0/0:126:126,0:126:4475:0:0:0,-37.9298,-402.908 0/1:48:22,26:22:773:26:917:-68.3905,0,-55.4354 0/1:84:51,33:51:1824:33:1184:-81.5818,0,-139.152 0/1:109:39,70:39:1400:70:2512:-193.52,0,-93.4869 0/1:129:78,51:78:2796:51:1806:-123.757,0,-213.047 0/1:15:8,7:8:273:7:252:-18.5135,0,-20.3847 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:41:21,20:21:752:20:720:-52.7865,0,-55.664 0/0:178:178,0:178:6358:0:0:0,-53.5833,-570.416 0/0:138:138,0:138:4941:0:0:0,-41.5421,-444.838 0/1:95:42,53:42:1504:53:1904:-143.04,0,-107.057 0/1:26:16,10:16:576:10:360:-24.9175,0,-44.3482 0/1:28:7,21:7:248:21:733:-57.8608,0,-14.2354 0/1:158:82,76:82:2936:76:2704:-196.04,0,-216.908 0/1:80:52,28:52:1853:28:1007:-66.8639,0,-142.965 0/0:166:163,3:163:5829:3:104:0,-40.2682,-515.006 0/0:55:55,0:55:1968:0:0:0,-16.5566,-177.395 chr06 3025467 . AAT AAC 27934 PASS AB=0.516771;ABP=5.3411;AC=30;AF=0.714286;AN=42;AO=1351;CIGAR=2M1X;DP=1818;DPB=1818.33;DPRA=0;EPP=2936.67;EPPR=1004.06;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9482;MQMR=59.987;NS=21;NUMALT=1;ODDS=14.5112;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48057;QR=16226;RO=461;RPL=1351;RPP=2936.67;RPPR=1004.06;RPR=0;RUN=1;SAF=1351;SAP=2936.67;SAR=0;SRF=461;SRP=1004.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,41:0:0:41:1428:-128.811,-12.3422,0 1/1:34:0,33:0:0:33:1158:-104.202,-9.93399,0 0/1:145:63,82:63:2224:82:2915:-218.829,0,-156.775 1/1:117:1,116:1:36:116:4084:-364.15,-31.6222,0 1/1:124:0,123:0:0:123:4356:-391.961,-37.0267,0 0/1:47:25,19:25:862:19:665:-46.6466,0,-64.3691 0/1:83:32,51:32:1139:51:1828:-139.815,0,-77.8342 0/1:109:71,38:71:2495:38:1355:-89.4374,0,-191.99 0/1:130:52,78:52:1825:78:2778:-211.127,0,-125.393 0/1:14:7,7:7:252:7:248:-18.4498,0,-18.8145 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:42:21,21:21:747:21:752:-55.363,0,-54.9122 1/1:179:0,178:0:0:178:6347:-571.168,-53.5833,0 1/1:139:0,139:0:0:139:4957:-446.279,-41.8432,0 0/1:96:54,42:54:1883:42:1500:-106.396,0,-140.85 0/1:25:10,15:10:349:15:536:-41.0491,0,-24.2204 0/1:28:20,8:20:713:8:288:-17.8386,0,-56.0684 0/1:156:74,82:74:2592:82:2940:-217.865,0,-186.571 0/1:79:29,50:29:1037:50:1792:-137.781,0,-69.8629 1/1:170:2,168:2:72:168:5997:-532.97,-44.3384,0 1/1:56:0,56:0:0:56:1989:-179.282,-16.8577,0 chr06 3063891 . C T 7271.16 PASS AB=0.487568;ABP=4.25215;AC=12;AF=0.285714;AN=42;AO=452;CIGAR=1X;DP=1708;DPB=1708;DPRA=0.907915;EPP=984.516;EPPR=2730.38;GTI=0;LEN=1;MEANALT=1;MQM=59.9845;MQMR=59.9538;NS=21;NUMALT=1;ODDS=10.2461;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15925;QR=44794;RO=1256;RPL=452;RPP=984.516;RPPR=2730.38;RPR=0;RUN=1;SAF=0;SAP=984.516;SAR=452;SRF=0;SRP=2730.38;SRR=1256;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:140:140,0:140:5009:0:0:0,-42.1442,-450.937 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.701 0/1:103:60,43:60:2156:43:1525:-106.535,0,-163.301 0/0:88:88,0:88:3103:0:0:0,-26.4906,-279.495 0/0:147:147,0:147:5239:0:0:0,-44.2514,-471.644 0/1:61:34,27:34:1224:27:957:-68.081,0,-92.1042 0/1:87:54,33:54:1909:33:1126:-75.448,0,-145.896 0/1:84:33,51:33:1188:51:1820:-138.795,0,-81.9421 0/1:119:46,73:46:1656:73:2556:-194.463,0,-113.506 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:18:6,12:6:208:12:428:-33.4403,0,-13.6372 0/0:93:92,1:92:3293:1:36:0,-24.3975,-292.989 0/0:113:113,0:113:4033:0:0:0,-34.0164,-363.152 0/1:122:46,76:46:1648:76:2656:-202.554,0,-111.883 0/1:62:26,36:26:917:36:1251:-94.2221,0,-64.1807 0/1:78:50,28:50:1762:28:978:-64.8483,0,-135.379 0/1:109:55,54:55:1976:54:1944:-142.424,0,-145.302 0/1:73:61,12:61:2184:12:432:-17.246,0,-174.851 0/0:82:82,0:82:2884:0:0:0,-24.6845,-259.788 0/0:57:57,0:57:2037:0:0:0,-17.1587,-183.6 chr06 3091484 . ATTGC CTTGG,CTTGC 52390 PASS AB=0.574243,0.423645;ABP=71.0442,74.9684;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1941,605;CIGAR=1X3M1X,1X4M;DP=2550;DPB=2550.4;DPRA=0,0.811401;EPP=4217.84,1316.75;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.90476,2.2;MQM=59.9763,60;MQMR=0;NS=21;NUMALT=2;ODDS=25.7596;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=64,0;PQR=0;PRO=0;QA=67336,21526;QR=0;RO=0;RPL=0,0;RPP=4217.84,1316.75;RPPR=0;RPR=1941,605;RUN=1,1;SAF=0,0;SAP=4217.84,1316.75;SAR=1941,605;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:145:0,145,0:0:0:145,0:5025,0:-452.41,-43.6494,0,-452.41,-43.6494,-452.41 1/1:140:0,140,0:0:0:140,0:4860,0:-437.565,-42.1442,0,-437.565,-42.1442,-437.565 1/2:91:0,57,34:0:0:57,34:1977,1212:-259.843,-99.1513,-81.9926,-161.044,0,-150.809 1/1:199:0,199,0:0:0:199,0:6871,0:-618.485,-59.905,0,-618.485,-59.905,-618.485 1/1:228:0,227,0:0:0:227,0:7888,0:-709.616,-68.3338,0,-709.616,-68.3338,-709.616 1/2:52:0,29,23:0:0:29,23:1003,803:-147.166,-65.6647,-56.9348,-81.8488,0,-74.9251 1/2:141:0,79,61:0:0:79,61:2754,2176:-401.443,-177.472,-153.691,-224.052,0,-205.689 1/2:132:0,69,63:0:0:69,63:2381,2240:-376.002,-182.576,-161.805,-193.456,0,-174.491 1/2:183:0,112,71:0:0:112,71:3888,2518:-521.461,-205.496,-171.781,-316.317,0,-294.944 1/2:30:0,15,15:0:0:15,15:524,532:-86.3202,-43.6976,-39.1822,-42.9744,0,-38.459 1/1:8:0,8,0:0:0:8,0:273,0:-24.9009,-2.40824,0,-24.9009,-2.40824,-24.9009 1/2:29:0,16,13:0:0:16,13:568,456:-83.7429,-37.4598,-32.6434,-46.6355,0,-42.7221 1/1:117:0,116,1:0:0:116,1:4068,36:-365.954,-34.9195,0,-363.016,-31.6222,-362.715 1/1:122:0,122,0:0:0:122,0:4187,0:-376.704,-36.7257,0,-376.704,-36.7257,-376.704 1/2:292:0,168,123:0:0:168,123:5877,4400:-836.984,-358.856,-308.283,-478.192,0,-441.165 1/2:108:0,69,39:0:0:69,39:2416,1375:-308.882,-112.308,-91.5366,-196.926,0,-185.186 1/2:99:0,44,55:0:0:44,55:1531,1963:-284.871,-160.388,-147.143,-124.835,0,-108.278 1/2:158:0,86,71:0:0:86,71:2988,2527:-448.864,-205.949,-180.06,-242.908,0,-221.535 1/2:106:0,72,34:0:0:72,34:2480,1220:-301.301,-99.8718,-78.1976,-201.783,0,-191.548 1/1:106:0,105,1:0:0:105,1:3642,36:-327.632,-31.6082,0,-324.694,-28.3109,-324.393 1/1:64:0,63,1:0:0:63,1:2135,32:-192.097,-18.9649,0,-189.519,-16.0666,-189.218 chr06 3098874 . A G 4448.63 PASS AB=0.549091;ABP=20.2794;AC=13;AF=0.309524;AN=42;AO=462;CIGAR=1X;DP=1528;DPB=1528;DPRA=1.05776;EPP=1006.23;EPPR=2306.95;GTI=1;LEN=1;MEANALT=1.07692;MQM=28.0693;MQMR=29.9915;NS=21;NUMALT=1;ODDS=0.825181;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16573;QR=38197;RO=1065;RPL=462;RPP=1006.23;RPPR=2306.95;RPR=0;RUN=1;SAF=0;SAP=1006.23;SAR=462;SRF=0;SRP=2315.63;SRR=1065;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:104:104,0:104:3702:0:0:0,-31.3071,-272.136 0/0:44:44,0:44:1584:0:0:0,-13.2453,-101.246 0/1:54:21,33:21:747:33:1184:-67.2508,0,-36.9219 0/0:103:103,0:103:3696:0:0:0,-31.0061,-267.615 0/0:133:132,1:132:4736:1:36:0,-37.2159,-343.619 0/1:80:26,54:26:936:54:1944:-91.7405,0,-36.8914 0/1:74:41,33:41:1472:33:1184:-47.8543,0,-72.9495 0/1:107:38,69:38:1368:69:2480:-127.739,0,-63.6555 0/1:183:74,109:74:2664:109:3885:-234.906,0,-152.831 1/1:8:0,8:0:0:8:284:-18.867,-2.40824,0 0/0:10:10,0:10:345:0:0:0,-3.0103,-22.759 0/1:8:6,2:6:212:2:72:-2.4533,0,-12.579 0/0:110:110,0:110:3952:0:0:0,-33.1133,-285.925 0/0:70:70,0:70:2508:0:0:0,-21.0721,-182.393 0/1:77:34,42:34:1224:42:1512:-81.5399,0,-65.5838 0/1:47:22,25:22:792:25:900:-53.2166,0,-48.1387 0/1:68:33,35:33:1179:35:1256:-73.312,0,-71.6386 0/1:50:23,27:23:828:27:972:-47.1321,0,-42.8333 0/1:77:53,24:53:1900:24:864:-37.7179,0,-115.136 0/0:75:75,0:75:2696:0:0:0,-22.5772,-184.216 0/0:46:46,0:46:1656:0:0:0,-13.8474,-105.908 chr06 3144397 . A G 26306.9 PASS AB=0.536817;ABP=12.9238;AC=30;AF=0.714286;AN=42;AO=1260;CIGAR=1X;DP=1654;DPB=1654;DPRA=0;EPP=2739.07;EPPR=856.399;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9063;MQMR=60;NS=21;NUMALT=1;ODDS=0.997136;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44994;QR=14073;RO=393;RPL=0;RPP=2739.07;RPPR=856.399;RPR=1260;RUN=1;SAF=1260;SAP=2739.07;SAR=0;SRF=393;SRP=856.399;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106:0:0:106:3761:-338.691,-31.9092,0 1/1:67:0,66:0:0:66:2356:-211.939,-19.868,0 0/1:57:37,20:37:1332:20:716:-47.6072,0,-103.024 1/1:112:0,112:0:0:112:3994:-359.648,-33.7154,0 1/1:159:2,157:2:72:157:5624:-499.444,-41.027,0 0/1:95:59,36:59:2120:36:1288:-87.6257,0,-162.471 0/1:127:41,86:41:1476:86:3084:-239.399,0,-94.9054 0/1:88:43,45:43:1540:45:1612:-118.879,0,-112.402 0/1:121:47,74:47:1673:74:2618:-199.441,0,-114.431 0/1:12:3,9:3:108:9:324:-25.8935,0,-6.46281 1/1:13:0,13:0:0:13:453:-41.0996,-3.91339,0 0/1:23:14,9:14:485:9:324:-22.5822,0,-37.0533 1/1:76:0,76:0:0:76:2720:-244.957,-22.8783,0 1/1:86:0,86:0:0:86:3068:-276.34,-25.8886,0 0/1:74:30,44:30:1076:44:1584:-120.575,0,-74.8766 0/1:47:20,27:20:716:27:955:-72.1156,0,-50.6193 0/1:46:18,28:18:648:28:1000:-76.468,0,-44.8045 0/1:88:54,34:54:1940:34:1202:-81.9928,0,-148.386 0/1:64:24,40:24:851:40:1427:-109.461,0,-57.6435 1/1:100:1,99:1:36:99:3548:-315.912,-26.5047,0 1/1:93:0,93:0:0:93:3336:-299.52,-27.9958,0 chr06 3144415 . AGG TGC 71133.2 PASS AB=0.51582;ABP=7.54478;AC=30;AF=0.714286;AN=42;AO=2776;CIGAR=1X1M1X;DP=3806;DPB=3806;DPRA=0;EPP=49.5812;EPPR=95.4774;GTI=0;LEN=3;MEANALT=1.61905;MQM=59.9492;MQMR=59.9833;NS=21;NUMALT=1;ODDS=38.6058;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=95926;QR=35342;RO=1016;RPL=4;RPP=5996.32;RPPR=2209.23;RPR=2772;RUN=1;SAF=1270;SAP=46.5774;SAR=1506;SRF=404;SRP=95.4774;SRR=612;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:250:2,248:2:72:248:8492:-757.474,-68.4208,0 1/1:152:0,152:0:0:152:5324:-479.305,-45.7566,0 0/1:120:67,51:67:2385:51:1793:-125.813,0,-179.071 1/1:205:1,204:1:36:204:7065:-632.331,-58.1129,0 1/1:354:7,345:7:252:345:11851:-1043.49,-83.2274,0 0/1:193:96,97:96:3361:97:3364:-244.884,0,-244.608 0/1:332:141,190:141:4926:190:6588:-492.982,0,-343.617 0/1:232:103,129:103:3560:129:4361:-322.833,0,-250.773 0/1:313:158,154:158:5441:154:5314:-384.237,0,-395.649 0/1:41:19,22:19:647:22:737:-54.2956,0,-46.205 1/1:32:0,32:0:0:32:1116:-100.747,-9.63296,0 0/1:71:43,27:43:1494:27:923:-61.9471,0,-113.318 1/1:189:0,188:0:0:188:6550:-589.382,-56.5936,0 1/1:195:0,195:0:0:195:6632:-596.976,-58.7009,0 0/1:221:111,110:111:3857:110:3815:-277.026,0,-280.805 0/1:101:46,54:46:1612:54:1870:-138.113,0,-114.904 0/1:98:47,51:47:1639:51:1760:-129.178,0,-118.295 0/1:211:113,97:113:3930:97:3362:-239.221,0,-290.319 0/1:153:59,94:59:2035:94:3285:-249.772,0,-137.36 1/1:183:2,179:2:61:179:6246:-556.433,-49.0198,0 1/1:160:1,157:1:34:157:5478:-489.614,-44.4804,0 chr06 3191307 . C T 25720.1 PASS AB=0.484794;ABP=5.25558;AC=30;AF=0.714286;AN=42;AO=1274;CIGAR=1X;DP=1852;DPB=1852;DPRA=0;EPP=2769.47;EPPR=1258.12;GTI=0;LEN=1;MEANALT=1;MQM=59.927;MQMR=59.9862;NS=21;NUMALT=1;ODDS=7.30778;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45335;QR=20491;RO=578;RPL=1274;RPP=2769.47;RPPR=1258.12;RPR=0;RUN=1;SAF=1274;SAP=2769.47;SAR=0;SRF=578;SRP=1258.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,58:0:0:58:2066:-186.209,-17.4597,0 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 0/1:147:94,53:94:3343:53:1866:-123.964,0,-256.837 1/1:156:0,156:0:0:156:5579:-502.233,-46.9607,0 1/1:81:0,81:0:0:81:2889:-260.245,-24.3834,0 0/1:110:62,48:62:2164:48:1710:-121.071,0,-161.912 0/1:117:65,52:65:2320:52:1825:-129.291,0,-173.832 0/1:148:76,72:76:2715:72:2565:-186.521,0,-200.041 0/1:221:113,108:113:4040:108:3876:-282.506,0,-297.261 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:27:12,15:12:420:15:540:-40.8087,0,-30.0062 1/1:104:0,104:0:0:104:3684:-331.759,-31.3071,0 1/1:143:0,143:0:0:143:5100:-459.131,-43.0473,0 0/1:142:53,89:53:1875:89:3168:-242.597,0,-126.282 0/1:37:22,15:22:771:15:540:-37.7984,0,-58.5722 0/1:38:20,18:20:720:18:644:-46.8515,0,-53.6896 0/1:55:27,28:27:935:28:1008:-74.4789,0,-67.9055 0/1:71:31,40:31:1080:40:1436:-108.165,0,-76.1326 1/1:125:1,124:1:36:124:4357:-388.699,-34.0305,0 1/1:38:1,37:1:36:37:1306:-114.242,-7.84087,0 chr06 3191380 . TTGCAGA TTGTAGG,CTGTAGA 41561 PASS AB=0.51448,0.480409;ABP=5.14848,6.92413;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1432,564;CIGAR=3M1X2M1X,1X2M1X3M;DP=2007;DPB=2007;DPRA=0,1.05702;EPP=3112.56,1227.72;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.09524,2.5;MQM=59.3799,58.7695;MQMR=0;NS=21;NUMALT=2;ODDS=10.8522;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50269,20094;QR=0;RO=0;RPL=1432,564;RPP=3112.56,1227.72;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3112.56,1227.72;SAR=1432,564;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77,0:0:0:77,0:2683,0:-241.69,-23.1793,0,-241.69,-23.1793,-241.69 1/1:30:0,30,0:0:0:30,0:1064,0:-96.0712,-9.0309,0,-96.0712,-9.0309,-96.0712 1/2:202:0,95,107:0:0:95,107:3367,3835:-587.203,-312.985,-284.387,-274.575,0,-242.365 1/1:87:0,86,0:0:0:86,0:2999,0:-269.844,-25.8886,0,-269.844,-25.8886,-269.844 1/1:151:0,150,0:0:0:150,0:5269,0:-473.943,-45.1545,0,-473.943,-45.1545,-473.943 1/2:98:0,48,50:0:0:48,50:1668,1777:-280.479,-144.956,-130.507,-135.873,0,-120.822 1/2:123:0,64,58:0:0:64,58:2271,2068:-353.453,-168.514,-149.248,-184.934,0,-167.474 1/2:138:0,76,61:0:0:76,61:2700,2175:-396.871,-176.881,-154.003,-219.988,0,-201.626 1/2:178:0,93,84:0:0:93,84:3258,2973:-506.939,-242.038,-214.042,-264.898,0,-239.612 1/2:10:0,3,7:0:0:3,7:99,251:-28.7255,-20.8019,-19.8988,-8.26008,0,-6.15287 1/1:7:0,7,0:0:0:7,0:244,0:-22.2956,-2.10721,0,-22.2956,-2.10721,-22.2956 1/2:27:0,13,13:0:0:13,13:446,462:-73.8194,-37.619,-33.7056,-36.2018,0,-32.2884 1/1:194:0,192,0:0:0:192,0:6780,0:-609.58,-57.7978,0,-609.58,-57.7978,-609.58 1/1:147:0,147,0:0:0:147,0:5137,0:-462.175,-44.2514,0,-462.175,-44.2514,-462.175 1/2:169:0,84,84:0:0:84,84:2958,2999:-484.729,-243.972,-218.686,-240.753,0,-215.466 1/2:31:0,14,17:0:0:14,17:495,608:-89.9757,-49.6692,-45.4548,-40.6609,0,-35.5434 1/2:26:0,14,12:0:0:14,12:484,416:-73.4631,-34.1355,-29.9211,-39.6736,0,-36.0612 1/2:102:0,53,48:0:0:53,48:1852,1704:-289.385,-138.762,-122.807,-150.674,0,-136.225 1/2:70:0,47,23:0:0:47,23:1618,826:-199.03,-67.7088,-53.5604,-131.675,0,-124.751 1/1:88:0,87,0:0:0:87,0:3035,0:-272.935,-26.1896,0,-272.935,-26.1896,-272.935 1/1:52:0,52,0:0:0:52,0:1842,0:-165.994,-15.6536,0,-165.994,-15.6536,-165.994 chr06 3218357 . A T 50750.1 PASS AB=0.552743;ABP=37.369;AC=30;AF=0.714286;AN=42;AO=1974;CIGAR=1X;DP=2615;DPB=2615;DPRA=0;EPP=4289.5;EPPR=1392.75;GTI=0;LEN=1;MEANALT=1.04762;MQM=55.6145;MQMR=59.3172;NS=21;NUMALT=1;ODDS=24.2369;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70529;QR=22774;RO=640;RPL=546;RPP=858.755;RPPR=1208.23;RPR=1428;RUN=1;SAF=546;SAP=858.755;SAR=1428;SRF=22;SRP=1208.23;SRR=618;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:168:0,168:0:0:168:6015:-538.591,-50.573,0 1/1:65:0,65:0:0:65:2321:-209.148,-19.567,0 0/1:108:42,66:42:1500:66:2356:-178.497,0,-102.767 1/1:157:0,157:0:0:157:5602:-499.56,-47.2617,0 1/1:319:4,315:4:144:315:11234:-994.413,-84.1528,0 0/1:81:43,37:43:1536:37:1320:-94.6598,0,-114.091 0/1:129:67,62:67:2381:62:2232:-161.533,0,-175.714 0/1:138:48,90:48:1709:90:3228:-247.567,0,-109.959 0/1:169:74,95:74:2620:95:3369:-251.281,0,-183.718 0/1:24:14,10:14:480:10:356:-24.8736,0,-36.2929 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:57:23,34:23:828:34:1224:-92.6471,0,-57.6792 1/1:169:0,169:0:0:169:6059:-542.593,-50.8741,0 1/1:118:0,118:0:0:118:4208:-377.434,-35.5215,0 0/1:230:99,131:99:3544:131:4693:-351.67,0,-249.916 0/1:85:34,51:34:1207:51:1820:-137.573,0,-83.3477 0/1:90:37,53:37:1304:53:1904:-143.385,0,-90.5644 0/1:217:121,96:121:4305:96:3436:-243.286,0,-319.775 0/1:94:33,61:33:1180:61:2172:-165.442,0,-78.2031 1/1:130:1,129:1:36:129:4604:-407.943,-35.5356,0 1/1:59:0,59:0:0:59:2092:-188.548,-17.7608,0 chr06 3218394 . T C 28761.6 PASS AB=0.476582;ABP=8.80744;AC=30;AF=0.714286;AN=42;AO=1418;CIGAR=1X;DP=2061;DPB=2061;DPRA=0;EPP=3073.48;EPPR=1347.64;GTI=0;LEN=1;MEANALT=1;MQM=59.9718;MQMR=60;NS=21;NUMALT=1;ODDS=5.22756;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50528;QR=23100;RO=643;RPL=1417;RPP=3073.48;RPPR=1347.64;RPR=1;RUN=1;SAF=0;SAP=3082.16;SAR=1418;SRF=0;SRP=1399.27;SRR=643;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,112:0:0:112:3979:-358.301,-33.7154,0 1/1:68:0,68:0:0:68:2425:-218.504,-20.47,0 0/1:85:41,44:41:1472:44:1558:-114.924,0,-107.189 1/1:77:0,77:0:0:77:2744:-247.203,-23.1793,0 1/1:234:5,229:5:180:229:8138:-715.88,-53.889,0 0/1:83:47,36:47:1692:36:1288:-91.2381,0,-127.581 0/1:129:69,60:69:2476:60:2122:-152.413,0,-184.261 0/1:113:48,65:48:1728:65:2324:-175.404,0,-121.789 0/1:140:70,70:70:2512:70:2511:-183.973,0,-184.188 0/1:17:13,4:13:468:4:144:-8.19611,0,-37.3421 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:41:22,19:22:792:19:680:-49.1869,0,-59.2634 1/1:131:0,131:0:0:131:4659:-419.472,-39.4349,0 1/1:86:0,86:0:0:86:3074:-276.889,-25.8886,0 0/1:196:100,96:100:3588:96:3443:-251.08,0,-264.124 0/1:71:37,34:37:1328:34:1211:-87.9224,0,-98.4491 0/1:69:36,33:36:1296:33:1172:-85.0164,0,-96.1729 0/1:194:120,74:120:4308:74:2651:-180.436,0,-329.496 0/1:79:34,45:34:1224:45:1600:-120.509,0,-86.6857 1/1:73:1,72:1:36:72:2565:-227.5,-18.3769,0 1/1:55:0,55:0:0:55:1952:-175.956,-16.5567,0 chr06 3218526 . ATCTC ATT 4469.78 PASS AB=0.316364;ABP=325.209;AC=8;AF=0.190476;AN=42;AO=352;CIGAR=1M2D1M1X;DP=1964;DPB=1823.2;DPRA=2.21859;EPP=767.369;EPPR=3481.71;GTI=1;LEN=3;MEANALT=1.6;MQM=55.9801;MQMR=59.8845;NS=21;NUMALT=1;ODDS=2.1084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12425;QR=56667;RO=1602;RPL=0;RPP=767.369;RPPR=3481.71;RPR=352;RUN=1;SAF=0;SAP=767.369;SAR=352;SRF=0;SRP=3481.71;SRR=1602;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:143:140,2:140:4916:2:72:0,-36.2726,-435.763 0/0:59:59,0:59:2095:0:0:0,-17.7608,-188.818 0/0:62:62,0:62:2214:0:0:0,-18.6639,-199.524 0/0:63:63,0:63:2257:0:0:0,-18.9649,-203.351 0/1:244:190,50:190:6756:50:1735:-83.7446,0,-535.507 0/0:70:68,2:68:2399:2:72:0,-14.2564,-209.351 0/1:177:112,64:112:3957:64:2278:-151.805,0,-302.984 0/1:151:76,75:76:2679:75:2649:-192.863,0,-195.901 0/1:156:97,57:97:3441:57:2029:-135.65,0,-263.185 0/1:8:7,1:7:252:1:36:-1.18493,0,-20.6207 0/0:8:8,0:8:276:0:0:0,-2.40824,-25.1748 0/0:9:9,0:9:321:0:0:0,-2.70927,-29.2333 0/1:132:103,29:103:3624:29:1023:-52.5869,0,-286.631 0/0:87:87,0:87:3078:0:0:0,-26.1896,-277.229 0/0:112:112,0:112:3959:0:0:0,-33.7154,-356.501 0/0:39:39,0:39:1387:0:0:0,-11.7402,-125.084 0/0:74:74,0:74:2596:0:0:0,-22.2762,-233.886 0/1:139:83,55:83:2931:55:1949:-133.561,0,-222.122 0/1:93:75,17:75:2670:17:582:-24.6232,0,-212.491 0/0:74:74,0:74:2608:0:0:0,-22.2762,-234.946 0/0:64:64,0:64:2251:0:0:0,-19.2659,-202.766 chr06 3218538 . G A 4443.88 PASS AB=0.311927;ABP=337.895;AC=8;AF=0.190476;AN=42;AO=344;CIGAR=1X;DP=1939;DPB=1939;DPRA=2.24835;EPP=749.997;EPPR=3384.43;GTI=1;LEN=1;MEANALT=1.2;MQM=56.0523;MQMR=59.8883;NS=21;NUMALT=1;ODDS=2.90127;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12292;QR=56789;RO=1593;RPL=344;RPP=749.997;RPPR=3384.43;RPR=0;RUN=1;SAF=0;SAP=749.997;SAR=344;SRF=0;SRP=3462.17;SRR=1593;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:143:141,2:141:5045:2:72:0,-36.2138,-447.353 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.231 0/0:61:61,0:61:2184:0:0:0,-18.3628,-196.824 0/0:63:63,0:63:2232:0:0:0,-18.9649,-201.092 0/1:240:192,47:192:6839:47:1688:-79.8185,0,-543.274 0/0:69:67,2:67:2400:2:72:0,-13.9553,-209.44 0/1:175:113,62:113:4015:62:2211:-146.44,0,-308.861 0/1:147:75,72:75:2671:72:2592:-188.981,0,-196.384 0/1:156:99,57:99:3548:57:2027:-135.228,0,-272.567 0/1:8:7,1:7:252:1:36:-1.18493,0,-20.6207 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:132:102,30:102:3618:30:1050:-55.0073,0,-286.069 0/0:86:86,0:86:3020:0:0:0,-25.8886,-272.021 0/0:109:109,0:109:3891:0:0:0,-32.8123,-350.378 0/0:39:39,0:39:1395:0:0:0,-11.7402,-125.803 0/0:71:71,0:71:2535:0:0:0,-21.3731,-228.394 0/1:137:83,53:83:2967:53:1896:-129.396,0,-225.962 0/1:95:77,18:77:2760:18:648:-30.0146,0,-220.043 0/0:72:72,0:72:2558:0:0:0,-21.6742,-230.469 0/0:63:63,0:63:2243:0:0:0,-18.9649,-202.046 chr06 3232731 . CGATTATG TGATCATG,CGATCATT 32331.5 PASS AB=0.547753,0.445225;ABP=17.1127,21.5654;AC=30,12;AF=0.714286,0.285714;AN=42;AO=919,322;CIGAR=1X3M1X3M,4M1X2M1X;DP=1251;DPB=1252.62;DPRA=0,1.04827;EPP=26.1687,3.1182;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.14286,2.5;MQM=47.6442,50.2919;MQMR=0;NS=21;NUMALT=2;ODDS=9.65739;PAIRED=0,0;PAIREDR=0;PAO=3,1;PQA=102,36;PQR=36;PRO=1;QA=32112,11314;QR=0;RO=0;RPL=916,321;RPP=1972.62,693.566;RPPR=0;RPR=3,1;RUN=1,1;SAF=407,162;SAP=29.0609,3.03727;SAR=512,160;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1872,0:-166.021,-16.2556,0,-166.021,-16.2556,-166.021 1/1:61:0,60,0:0:0:60,0:2107,0:-185.164,-18.0618,0,-185.164,-18.0618,-185.164 1/2:23:0,10,13:0:0:10,13:343,453:-64.2215,-37.0201,-34.0098,-27.5419,0,-23.6285 1/1:60:0,60,0:0:0:60,0:2115,0:-188.607,-18.0618,0,-188.607,-18.0618,-188.607 1/1:81:0,76,4:0:0:76,4:2620,139:-232.412,-22.8783,0,-221.191,-11.5974,-219.987 1/2:56:0,30,25:0:0:30,25:1037,877:-153.676,-71.2165,-62.1856,-82.5772,0,-75.0515 1/2:64:0,37,27:0:0:37,27:1296,942:-179.832,-76.0511,-64.913,-103.788,0,-95.6601 1/2:52:0,35,17:0:0:35,17:1224,589:-145.147,-47.8682,-37.3322,-97.6223,0,-92.5048 1/2:65:0,30,35:0:0:30,35:1043,1239:-184.925,-100.616,-91.5847,-84.6584,0,-74.1224 1/2:9:0,6,3:0:0:6,3:207,108:-25.5077,-9.10253,-7.29635,-16.7559,0,-15.8528 1/1:8:0,8,0:0:0:8,0:280,0:-24.5066,-2.40824,0,-24.5066,-2.40824,-24.5066 1/2:16:0,6,10:0:0:6,10:209,356:-46.011,-29.2697,-27.4635,-17.0891,0,-14.0788 1/1:62:0,61,0:0:0:61,0:2164,0:-192.728,-18.3628,0,-192.728,-18.3628,-192.728 1/1:58:0,58,0:0:0:58,0:2027,0:-180.184,-17.4597,0,-180.184,-17.4597,-180.184 1/2:80:0,37,42:0:0:37,42:1296,1466:-220.842,-117.014,-105.876,-103.923,0,-91.2799 1/2:41:0,29,12:0:0:29,12:1015,425:-116.467,-34.6707,-25.9408,-82.1466,0,-78.5343 1/2:38:0,24,13:0:0:24,13:839,466:-106.01,-38.0482,-30.8235,-68.0389,0,-64.1256 1/2:129:0,57,71:0:0:57,71:1984,2514:-359.96,-202.871,-185.713,-157.115,0,-135.742 1/2:139:0,89,49:0:0:89,49:3133,1705:-389.211,-137.828,-111.037,-251.438,0,-236.687 1/1:54:0,52,1:0:0:52,1:1825,35:-161.093,-15.6536,0,-158.249,-12.8075,-157.948 1/1:101:0,100,0:0:0:100,0:3476,0:-303.82,-30.103,0,-303.82,-30.103,-303.82 chr06 3236574 . GC CC,CT 50122.7 PASS AB=0.555637,0.442899;ABP=39.7378,41.6962;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1755,607;CIGAR=1X1M,2X;DP=2369;DPB=2369;DPRA=0,1.05242;EPP=3813.94,1321.09;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.95238,2.21429;MQM=59.9197,59.7743;MQMR=0;NS=21;NUMALT=2;ODDS=18.5206;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62477,21568;QR=0;RO=0;RPL=1752,607;RPP=3787.93,1321.09;RPPR=0;RPR=3,0;RUN=1,1;SAF=1752,607;SAP=3787.93,1321.09;SAR=3,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:157:0,156,0:0:0:156,0:5557,0:-499.896,-46.9607,0,-499.896,-46.9607,-499.896 1/1:125:0,124,1:0:0:124,1:4439,36:-399.321,-37.3277,0,-396.383,-34.0305,-396.082 1/2:87:0,47,39:0:0:47,39:1678,1402:-251.326,-114.535,-100.387,-136.944,0,-125.203 1/1:84:0,84,0:0:0:84,0:2994,0:-269.519,-25.2865,0,-269.519,-25.2865,-269.519 1/1:177:0,176,0:0:0:176,0:6266,0:-563.677,-52.9813,0,-563.677,-52.9813,-563.677 1/2:181:0,94,87:0:0:94,87:3334,3083:-522.805,-251.179,-222.883,-271.979,0,-245.79 1/2:132:0,69,63:0:0:69,63:2451,2232:-381.892,-182.173,-161.402,-200.074,0,-181.109 1/2:93:0,47,45:0:0:47,45:1675,1612:-267.902,-131.371,-117.223,-136.528,0,-122.982 1/2:147:0,91,56:0:0:91,56:3246,1998:-427.774,-163.208,-135.814,-264.922,0,-248.065 1/2:18:0,11,7:0:0:11,7:377,252:-51.5152,-20.9217,-17.6104,-30.9466,0,-28.8394 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/2:20:0,10,10:0:0:10,10:347,360:-57.934,-29.734,-26.7237,-28.5533,0,-25.543 1/1:158:0,156,0:0:0:156,0:5571,0:-501.117,-46.9607,0,-501.117,-46.9607,-501.117 1/1:112:0,112,0:0:0:112,0:3982,0:-358.573,-33.7154,0,-358.573,-33.7154,-358.573 1/2:314:0,174,140:0:0:174,140:6205,4996:-913.421,-407.646,-355.266,-506.132,0,-463.988 1/2:65:0,48,17:0:0:48,17:1690,601:-186.883,-49.3009,-34.8515,-137.935,0,-132.818 1/2:99:0,52,47:0:0:52,47:1849,1645:-284.868,-134.185,-118.532,-151.035,0,-136.887 1/2:130:0,63,67:0:0:63,67:2209,2371:-373.22,-193.468,-174.503,-180.104,0,-159.935 1/2:80:0,53,27:0:0:53,27:1891,944:-231.304,-77.1434,-61.1888,-154.513,0,-146.385 1/1:115:0,113,1:0:0:113,1:4043,36:-363.697,-34.0164,0,-360.76,-31.079,-360.459 1/1:68:0,68,0:0:0:68,0:2425,0:-218.501,-20.47,0,-218.501,-20.47,-218.501 chr06 3265925 . C T 7750.28 PASS AB=0.57772;ABP=43.5144;AC=12;AF=0.285714;AN=42;AO=450;CIGAR=1X;DP=1232;DPB=1232;DPRA=1.59524;EPP=980.173;EPPR=1701.1;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.12511;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16061;QR=27785;RO=782;RPL=450;RPP=980.173;RPPR=1701.1;RPR=0;RUN=1;SAF=0;SAP=980.173;SAR=450;SRF=0;SRP=1701.1;SRR=782;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:29,0:29:1014:0:0:0,-8.72987,-91.5675 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 0/1:87:39,48:39:1388:48:1720:-128.896,0,-99.0293 0/0:100:100,0:100:3550:0:0:0,-30.103,-319.707 0/0:101:98,3:98:3500:3:108:0,-20.3289,-305.136 0/1:56:26,30:26:932:30:1061:-78.9417,0,-67.3412 0/1:76:24,52:24:841:52:1853:-144.17,0,-53.1281 0/1:150:61,89:61:2188:89:3173:-240.639,0,-152.031 0/1:128:54,74:54:1902:74:2633:-198.684,0,-132.922 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/0:5:5,0:5:161:0:0:0,-1.50515,-14.8066 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/0:65:64,1:64:2258:1:36:0,-15.9687,-199.882 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/1:72:34,38:34:1220:38:1353:-100.394,0,-88.4326 0/1:34:10,24:10:360:24:860:-67.4868,0,-22.5093 0/1:36:12,24:12:432:24:864:-67.2455,0,-28.3841 0/1:65:26,39:26:932:39:1400:-106.732,0,-64.6319 0/1:51:33,18:33:1184:18:640:-42.5768,0,-91.5158 0/0:48:48,0:48:1682:0:0:0,-14.4494,-151.662 0/0:41:41,0:41:1449:0:0:0,-12.3422,-130.704 chr06 3265961 . G A 8922.51 PASS AB=0.514993;ABP=4.50796;AC=12;AF=0.285714;AN=42;AO=397;CIGAR=1X;DP=1304;DPB=1304;DPRA=1.10295;EPP=8.26669;EPPR=44.7716;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.85401;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14072;QR=31776;RO=906;RPL=1;RPP=856.421;RPPR=1944.39;RPR=396;RUN=1;SAF=184;SAP=7.61032;SAR=213;SRF=390;SRP=41.0614;SRR=516;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2226:0:0:0,-19.2659,-200.6 0/0:41:41,0:41:1438:0:0:0,-12.3422,-129.712 0/1:20:6,14:6:216:14:504:-39.6775,0,-13.7699 0/0:38:38,0:38:1339:0:0:0,-11.4391,-120.809 0/0:74:74,0:74:2602:0:0:0,-22.2762,-234.427 0/1:69:33,36:33:1154:36:1276:-94.372,0,-83.3912 0/1:68:28,40:28:953:40:1412:-106.904,0,-65.6048 0/1:69:38,31:38:1332:31:1096:-78.1789,0,-99.406 0/1:75:33,42:33:1160:42:1481:-111.007,0,-82.1267 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:15:7,8:7:252:8:288:-21.752,0,-18.5135 0/0:70:68,2:68:2369:2:72:0,-14.2354,-206.629 0/0:66:66,0:66:2330:0:0:0,-19.868,-209.96 0/1:93:44,48:44:1567:48:1696:-124.872,0,-113.266 0/1:30:12,18:12:432:18:644:-49.2597,0,-30.1903 0/1:24:16,8:16:536:8:284:-18.6786,0,-41.3319 0/1:176:59,117:59:2058:117:4156:-321.245,0,-132.507 0/1:123:93,30:93:3303:30:1055:-58.2333,0,-260.461 0/0:71:71,0:71:2482:0:0:0,-21.3731,-223.629 0/0:107:107,0:107:3739:0:0:0,-32.2102,-336.713 chr06 3341621 . AATATGAC AATCTGAT,TATCTGAT 52344.4 PASS AB=0.490345,0.503448;ABP=4.18439,3.16006;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1933,734;CIGAR=3M1X3M1X,1X2M1X3M1X;DP=2695;DPB=2695;DPRA=0,1.28241;EPP=4020.04,1553.74;EPPR=5.18177;GTI=0;LEN=8,8;MEANALT=2.85714,3.07143;MQM=43.9731,30.8529;MQMR=60;NS=21;NUMALT=2;ODDS=6.44905;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68318,25958;QR=36;RO=1;RPL=1912,729;RPP=4020.04,1553.74;RPPR=5.18177;RPR=21,5;RUN=1,1;SAF=1933,734;SAP=4200.47,1596.87;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:190:0,189,0:0:0:189,0:6667,0:-588.998,-56.8947,0,-588.998,-56.8947,-588.998 1/1:110:0,109,0:0:0:109,0:3868,0:-342.789,-32.8123,0,-342.789,-32.8123,-342.789 1/2:110:0,45,63:0:0:45,63:1598,2242:-276.906,-148.959,-135.413,-127.916,0,-108.951 1/1:157:0,152,0:0:0:152,0:5359,0:-473.351,-45.7566,0,-473.351,-45.7566,-473.351 1/1:361:0,352,3:0:0:352,3:12464,107:-1098.39,-105.963,0,-1091.27,-98.8381,-1090.37 1/2:144:0,67,75:0:0:67,75:2367,2661:-370.975,-182.124,-161.955,-188.878,0,-166.301 1/2:192:1,89,101:1:36:89,101:3128,3549:-491.466,-240.732,-216.879,-248.095,0,-220.629 1/2:142:0,74,68:0:0:74,68:2606,2399:-369.117,-160.924,-138.647,-208.513,0,-188.043 1/2:200:0,82,117:0:0:82,117:2914,4121:-498.863,-267.998,-243.314,-230.937,0,-195.716 1/2:6:0,3,3:0:0:3,3:103,108:-15.7903,-7.51188,-6.60879,-8.59833,0,-7.69524 1/1:4:0,4,0:0:0:4,0:134,0:-12.2645,-1.20412,0,-12.2645,-1.20412,-12.2645 1/2:12:0,5,7:0:0:5,7:180,246:-31.2435,-16.7552,-15.2501,-14.818,0,-12.7108 1/1:148:0,147,0:0:0:147,0:5220,0:-461.301,-44.2514,0,-461.301,-44.2514,-461.301 1/1:78:0,77,0:0:0:77,0:2681,0:-236.95,-23.1793,0,-236.95,-23.1793,-236.95 1/2:139:0,65,74:0:0:65,74:2315,2626:-360.56,-175.267,-155.7,-185.618,0,-163.342 1/2:136:0,62,74:0:0:62,74:2202,2616:-344.953,-170.086,-151.422,-175.187,0,-152.911 1/2:204:0,110,93:0:0:110,93:3872,3286:-520.583,-213.301,-180.188,-307.304,0,-279.309 1/2:97:0,56,41:0:0:56,41:1978,1461:-255.802,-97.4935,-80.6358,-158.627,0,-146.285 1/2:68:0,53,14:0:0:53,14:1874,502:-183.287,-33.2956,-17.341,-150.001,0,-145.786 1/1:128:0,125,1:0:0:125,1:4423,34:-392.174,-37.6288,0,-389.844,-35.3006,-389.543 1/1:69:0,67,0:0:0:67,0:2365,0:-210.09,-20.169,0,-210.09,-20.169,-210.09 chr06 3421540 . TCCG TCCT,CCCT 41312.6 PASS AB=0.481696,0.513487;ABP=6.03112,4.65041;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1454,537;CIGAR=3M1X,1X2M1X;DP=2000;DPB=2003.5;DPRA=0,1.60222;EPP=3160.33,1169.09;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2,2.38462;MQM=59.566,55.7896;MQMR=60;NS=21;NUMALT=2;ODDS=10.4129;PAIRED=0,0;PAIREDR=0;PAO=0,11;PQA=0,303;PQR=0;PRO=0;QA=51352,18361;QR=35;RO=1;RPL=1454,537;RPP=3160.33,1169.09;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1454,537;SAP=3160.33,1169.09;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,108,2:0:0:108,2:3824,71:-343.829,-32.5112,0,-338.048,-26.3757,-337.446 1/1:53:0,53,0:0:0:53,0:1876,0:-169.092,-15.9546,0,-169.092,-15.9546,-169.092 1/2:168:0,81,87:0:0:81,87:2884,2971:-475.773,-240.833,-216.449,-234.93,0,-208.74 1/1:78:0,78,0:0:0:78,0:2746,0:-247.361,-23.4803,0,-247.361,-23.4803,-247.361 1/1:209:0,207,1:0:0:207,1:7324,36:-658.465,-62.3132,0,-655.53,-59.3782,-655.229 1/1:29:0,29,0:0:0:29,0:1029,0:-92.6326,-8.72987,0,-92.6326,-8.72987,-92.6326 1/1:88:0,87,1:0:0:87,1:3049,36:-274.35,-26.1896,0,-271.73,-23.5552,-271.429 1/2:110:0,47,63:0:0:47,63:1668,2141:-309.808,-173.918,-159.77,-136.238,0,-117.273 1/2:160:0,76,83:0:0:76,83:2683,2796:-444.646,-226.226,-203.348,-218.464,0,-193.478 1/2:21:0,10,11:0:0:10,11:360,393:-61.7591,-32.3835,-29.3732,-29.734,0,-26.4227 1/1:18:0,18,0:0:0:18,0:644,0:-58.2906,-5.41854,0,-58.2906,-5.41854,-58.2906 1/2:48:0,26,22:0:0:26,22:924,772:-138.437,-63.1498,-55.323,-75.6402,0,-69.0176 1/1:120:0,118,0:0:0:118,0:4107,0:-369.517,-35.5215,0,-369.517,-35.5215,-369.517 1/1:115:0,115,0:0:0:115,0:3991,0:-359.34,-34.6185,0,-359.34,-34.6185,-359.34 1/2:187:0,85,101:0:0:85,101:3035,3497:-531.409,-284.01,-258.422,-247.402,0,-216.998 1/2:31:0,12,18:0:0:12,18:428,615:-84.8074,-49.9105,-46.2981,-34.9514,0,-29.5329 1/2:66:0,30,35:0:0:30,35:1068,1171:-181.488,-94.7188,-85.6879,-86.8792,0,-76.3432 1/2:177:1,96,80:1:35:96,80:3387,2752:-495.201,-220.365,-194.314,-272.287,0,-251.052 1/2:70:0,37,33:0:0:37,33:1319,1110:-197.601,-90.0947,-78.9566,-107.851,0,-97.9172 1/1:96:0,95,0:0:0:95,0:3362,0:-302.531,-28.5979,0,-302.531,-28.5979,-302.531 1/1:46:0,46,0:0:0:46,0:1644,0:-148.232,-13.8474,0,-148.232,-13.8474,-148.232 chr06 3426420 . C T 30780.2 PASS AB=0.501134;ABP=3.02015;AC=30;AF=0.714286;AN=42;AO=1151;CIGAR=1X;DP=1593;DPB=1593;DPRA=0;EPP=108.979;EPPR=6.86196;GTI=0;LEN=1;MEANALT=1;MQM=59.954;MQMR=60;NS=21;NUMALT=1;ODDS=9.17167;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40862;QR=15713;RO=442;RPL=1125;RPP=2281.64;RPPR=902.963;RPR=26;RUN=1;SAF=668;SAP=67.5791;SAR=483;SRF=228;SRP=3.97322;SRR=214;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77:0:0:77:2732:-246.122,-23.1793,0 1/1:77:1,76:1:36:76:2691:-238.803,-19.581,0 0/1:38:18,20:18:648:20:712:-52.9675,0,-47.2127 1/1:76:1,75:1:27:75:2633:-234.518,-20.1785,0 1/1:128:0,128:0:0:128:4562:-410.747,-38.5318,0 0/1:68:39,29:39:1387:29:1035:-72.993,0,-104.658 0/1:92:45,47:45:1597:47:1676:-123.432,0,-116.323 0/1:55:31,24:31:1112:24:860:-61.1648,0,-83.8347 0/1:126:66,60:66:2364:60:2151:-155.904,0,-175.089 0/1:18:15,3:15:527:3:93:-3.25819,0,-42.3416 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:28:17,11:17:603:11:396:-27.5539,0,-46.1707 1/1:74:0,74:0:0:74:2630:-236.947,-22.2762,0 1/1:61:0,61:0:0:61:2169:-195.476,-18.3628,0 0/1:53:23,30:23:824:30:1076:-81.1979,0,-58.5287 0/1:47:32,15:32:1144:15:540:-34.7881,0,-89.1211 0/1:35:16,19:16:568:19:675:-50.5409,0,-40.9158 0/1:159:80,79:80:2841:79:2803:-204.647,0,-208.064 0/1:163:58,105:58:2035:105:3717:-285.663,0,-134.352 1/1:59:0,59:0:0:59:2087:-188.099,-17.7608,0 1/1:155:0,155:0:0:155:5480:-493.328,-46.6597,0 chr06 3426434 . A G 9499.2 PASS AB=0.49252;ABP=3.4326;AC=12;AF=0.285714;AN=42;AO=430;CIGAR=1X;DP=1571;DPB=1571;DPRA=1.18562;EPP=3.3335;EPPR=77.6861;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9623;NS=21;NUMALT=1;ODDS=9.75927;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15180;QR=39968;RO=1140;RPL=430;RPP=936.743;RPPR=2478.49;RPR=0;RUN=1;SAF=219;SAP=3.3335;SAR=211;SRF=669;SRP=77.6861;SRR=471;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:72,0:72:2539:0:0:0,-21.6742,-228.762 0/0:79:78,1:78:2753:1:36:0,-20.1831,-244.211 0/1:39:21,18:21:740:18:644:-46.5504,0,-55.1832 0/0:74:74,0:74:2558:0:0:0,-22.2762,-230.474 0/0:126:126,0:126:4400:0:0:0,-37.9298,-396.182 0/1:69:29,40:29:1040:40:1424:-107.686,0,-73.1433 0/1:90:46,44:46:1611:44:1554:-113.058,0,-118.186 0/1:53:23,30:23:828:30:1067:-80.3866,0,-58.8891 0/1:122:58,64:58:2072:64:2223:-163.604,0,-150.025 0/1:17:3,14:3:108:14:500:-40.2187,0,-4.95766 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:28:12,15:12:432:15:536:-40.1716,0,-30.8165 0/0:72:72,0:72:2546:0:0:0,-21.6742,-229.391 0/0:56:56,0:56:1951:0:0:0,-16.8577,-175.863 0/1:54:31,23:31:1071:23:811:-57.0543,0,-80.441 0/1:47:15,32:15:519:32:1144:-89.1211,0,-32.8883 0/1:36:19,17:19:667:17:595:-43.0396,0,-49.5175 0/1:156:78,78:78:2686:78:2739:-199.792,0,-195.026 0/1:158:105,53:105:3700:53:1871:-121.106,0,-285.642 0/0:62:62,0:62:2167:0:0:0,-18.6639,-195.298 0/0:157:156,1:156:5436:1:36:0,-43.6634,-485.779 chr06 3460359 . T C 48990.2 PASS AB=0.513048;ABP=5.6737;AC=30;AF=0.714286;AN=42;AO=2411;CIGAR=1X;DP=3298;DPB=3298;DPRA=0;EPP=5238.43;EPPR=1929.11;GTI=0;LEN=1;MEANALT=1;MQM=59.9423;MQMR=59.8771;NS=21;NUMALT=1;ODDS=27.9993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85116;QR=31604;RO=887;RPL=0;RPP=5238.43;RPPR=1929.11;RPR=2411;RUN=1;SAF=0;SAP=5238.43;SAR=2411;SRF=0;SRP=1929.11;SRR=887;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:205:0,205:0:0:205:7273:-654.624,-61.7112,0 1/1:196:0,196:0:0:196:6895:-620.626,-59.0019,0 0/1:206:91,115:91:3255:115:4049:-302.588,0,-231.158 1/1:203:0,203:0:0:203:7182:-646.429,-61.1091,0 1/1:371:7,364:7:252:364:12843:-1132.68,-88.6532,0 0/1:92:46,46:46:1643:46:1625:-118.842,0,-120.463 0/1:205:112,93:112:4003:93:3298:-235.331,0,-298.74 0/1:187:102,85:102:3608:85:3028:-216.458,0,-268.144 0/1:199:101,98:101:3616:98:3465:-252.156,0,-264.466 0/1:27:10,17:10:360:17:608:-46.9242,0,-24.6165 1/1:20:0,20:0:0:20:682:-61.6947,-6.0206,0 0/1:54:29,25:29:1031:25:859:-61.3651,0,-76.847 1/1:84:0,84:0:0:84:2936:-264.414,-25.2865,0 1/1:224:1,223:1:36:223:7904:-707.781,-63.8324,0 0/1:288:144,144:144:5111:144:5074:-370.064,0,-373.435 0/1:170:82,88:82:2940:88:3112:-229.128,0,-213.659 0/1:144:71,73:71:2531:73:2595:-190.451,0,-184.682 0/1:155:68,87:68:2410:87:3033:-226.542,0,-170.467 0/1:74:21,53:21:736:53:1873:-146.571,0,-44.2862 1/1:119:2,117:2:72:117:4130:-365.049,-28.9858,0 1/1:75:0,75:0:0:75:2652:-238.924,-22.5773,0 chr06 3460394 . TGAT CGAT,CGAC 70395.4 PASS AB=0.507357,0.489373;ABP=3.87297,4.8102;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2426,907;CIGAR=1X3M,1X2M1X;DP=3342;DPB=3342;DPRA=0,1.30076;EPP=5271,1972.54;EPPR=11.6962;GTI=0;LEN=1,4;MEANALT=1.95238,2.33333;MQM=59.9052,59.9041;MQMR=60;NS=21;NUMALT=2;ODDS=27.5201;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=86489,31860;QR=132;RO=4;RPL=2426,907;RPP=5271,1972.54;RPPR=11.6962;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5271,1972.54;SAR=2426,907;SRF=0;SRP=11.6962;SRR=4;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:203:2,201,0:2:66:201,0:7149,0:-637.172,-54.8411,0,-637.774,-60.507,-643.11 1/1:195:0,195,0:0:0:195,0:6948,0:-625.388,-58.7009,0,-625.388,-58.7009,-625.388 1/2:207:0,114,92:0:0:114,92:4092,3261:-599.449,-265.658,-231.34,-333.787,0,-306.093 1/1:202:0,202,0:0:0:202,0:7196,0:-647.694,-60.8081,0,-647.694,-60.8081,-647.694 1/1:375:1,368,6:1:30:368,6:13127,216:-1178.06,-108.389,0,-1160.74,-93.1032,-1161.33 1/2:92:0,45,47:0:0:45,47:1607,1667:-267.186,-136.169,-122.623,-131.373,0,-117.225 1/2:209:0,95,114:0:0:95,114:3389,4002:-602.281,-326.009,-297.411,-276.626,0,-242.309 1/2:191:0,88,101:0:0:88,101:3129,3531:-541.917,-287.054,-260.563,-254.9,0,-224.496 1/2:202:0,100,101:0:0:100,101:3583,3558:-582.031,-289.813,-259.71,-292.36,0,-261.955 1/2:27:0,17,10:0:0:17,10:608,346:-78.0467,-28.4623,-23.3448,-49.9345,0,-46.9242 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 1/2:56:0,24,32:0:0:24,32:860,1123:-161.886,-91.744,-84.5193,-70.4971,0,-60.8642 1/1:89:0,89,0:0:0:89,0:3147,0:-283.324,-26.7917,0,-283.324,-26.7917,-283.324 1/1:224:0,223,1:0:0:223,1:7964,36:-716.34,-67.1297,0,-713.402,-63.8324,-713.101 1/2:294:0,146,148:0:0:146,148:5202,5186:-846.17,-422.335,-378.385,-424.188,0,-379.636 1/2:178:0,91,87:0:0:91,87:3216,3055:-510.9,-248.991,-221.598,-262.261,0,-236.071 1/2:149:1,73,74:1:36:73,74:2590,2591:-418.585,-207.865,-188.827,-208.076,0,-188.738 1/2:156:0,86,70:0:0:86,70:3067,2460:-450.441,-200.424,-174.535,-250.37,0,-229.298 1/2:74:0,52,22:0:0:52,22:1858,757:-213.321,-61.823,-46.1695,-151.846,0,-145.224 1/1:122:0,120,2:0:0:120,2:4281,71:-385.108,-36.1236,0,-379.323,-29.9836,-378.721 1/1:76:0,76,0:0:0:76,0:2720,0:-245.015,-22.8783,0,-245.015,-22.8783,-245.015 chr06 3480334 . G T 10341.1 PASS AB=0.510833;ABP=4.23356;AC=12;AF=0.285714;AN=42;AO=616;CIGAR=1X;DP=1983;DPB=1983;DPRA=1.12541;EPP=1340.64;EPPR=2971.41;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.11275;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21956;QR=48140;RO=1367;RPL=0;RPP=1340.64;RPPR=2971.41;RPR=616;RUN=1;SAF=0;SAP=1340.64;SAR=616;SRF=0;SRP=2971.41;SRR=1367;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:83:83,0:83:2944:0:0:0,-24.9855,-265.193 0/0:65:65,0:65:2275:0:0:0,-19.5669,-205.011 0/1:85:39,46:39:1374:46:1629:-121.309,0,-98.3696 0/0:82:82,0:82:2872:0:0:0,-24.6845,-258.718 0/0:201:201,0:201:7093:0:0:0,-60.507,-638.436 0/1:76:28,48:28:973:48:1718:-132.027,0,-65.0015 0/1:105:48,57:48:1707:57:2048:-152.983,0,-122.307 0/1:152:75,77:75:2616:77:2751:-202.074,0,-189.93 0/1:199:80,119:80:2845:119:4229:-320.885,0,-196.382 0/1:20:13,7:13:455:7:252:-17.0084,0,-35.2614 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:23:8,15:8:288:15:532:-41.2894,0,-19.3437 0/0:123:123,0:123:4333:0:0:0,-37.0267,-390.146 0/0:103:102,1:102:3579:1:36:0,-27.4078,-318.72 0/1:248:128,120:128:4516:120:4256:-308.564,0,-331.954 0/1:60:34,26:34:1178:26:936:-66.4977,0,-88.2585 0/1:78:40,38:40:1397:38:1357:-98.9498,0,-102.544 0/1:101:59,42:59:2076:42:1500:-104.891,0,-156.707 0/1:53:35,18:35:1248:18:644:-42.336,0,-96.6703 0/0:70:68,2:68:2407:2:68:0,-14.6144,-210.429 0/0:47:47,0:47:1640:0:0:0,-14.1484,-147.885 chr06 3504669 . T C 12995 PASS AB=0.458525;ABP=28.9479;AC=12;AF=0.285714;AN=42;AO=802;CIGAR=1X;DP=3407;DPB=3407;DPRA=1.15603;EPP=1735.86;EPPR=5590.42;GTI=0;LEN=1;MEANALT=1;MQM=59.9925;MQMR=59.9935;NS=21;NUMALT=1;ODDS=28.012;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28684;QR=93249;RO=2605;RPL=1;RPP=1735.86;RPPR=5590.42;RPR=801;RUN=1;SAF=802;SAP=1744.53;SAR=0;SRF=2605;SRP=5659.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:207:205,2:205:7352:2:72:0,-55.4765,-654.89 0/0:181:181,0:181:6492:0:0:0,-54.4864,-584.363 0/1:69:39,30:39:1404:30:1080:-76.7422,0,-105.888 0/0:226:226,0:226:8039:0:0:0,-68.0328,-723.531 0/0:531:530,1:530:18936:1:36:0,-156.249,-1700.2 0/1:95:62,33:62:2232:33:1180:-77.9102,0,-172.546 0/1:149:81,68:81:2916:68:2439:-174.911,0,-217.751 0/1:142:66,76:66:2372:76:2719:-202.207,0,-170.991 0/1:260:143,117:143:5087:117:4165:-296.765,0,-379.704 0/1:21:10,11:10:360:11:396:-29.6611,0,-26.4227 0/0:13:13,0:13:460:0:0:0,-3.91339,-41.7354 0/1:78:34,44:34:1220:44:1571:-118.201,0,-86.6265 0/0:189:189,0:189:6776:0:0:0,-56.8947,-609.911 0/0:116:116,0:116:4164:0:0:0,-34.9195,-374.941 0/1:250:131,119:131:4685:119:4253:-307.686,0,-346.552 0/1:216:98,118:98:3497:118:4226:-315.497,0,-249.917 0/1:84:45,39:45:1616:39:1400:-101.013,0,-120.443 0/1:190:110,80:110:3937:80:2855:-199.991,0,-297.325 0/1:182:121,61:121:4356:61:2184:-142.039,0,-337.425 0/0:163:162,1:162:5808:1:36:0,-45.4696,-519.234 0/0:45:43,2:43:1540:2:72:0,-6.70963,-132.056 chr06 3504701 . A C 13181 PASS AB=0.483676;ABP=6.8386;AC=12;AF=0.285714;AN=42;AO=807;CIGAR=1X;DP=3208;DPB=3208;DPRA=0.915352;EPP=1755.39;EPPR=5216.72;GTI=0;LEN=1;MEANALT=1;MQM=59.9926;MQMR=59.9929;NS=21;NUMALT=1;ODDS=22.7782;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28691;QR=82401;RO=2401;RPL=807;RPP=1755.39;RPPR=5216.72;RPR=0;RUN=1;SAF=807;SAP=1755.39;SAR=0;SRF=2401;SRP=5216.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:179:177,2:177:6097:2:72:0,-47.0476,-542.019 0/0:162:162,0:162:5543:0:0:0,-48.7669,-499.019 0/1:61:31,30:31:1067:30:1067:-77.9784,0,-77.9738 0/0:220:220,0:220:7561:0:0:0,-66.2266,-680.571 0/0:508:507,1:507:17538:1:36:0,-149.325,-1574.53 0/1:91:56,35:56:1907:35:1239:-84.4199,0,-144.511 0/1:136:69,67:69:2323:67:2383:-173.787,0,-168.391 0/1:136:60,76:60:2061:76:2686:-201.045,0,-144.821 0/1:252:136,116:136:4646:116:4130:-296.025,0,-342.462 0/1:22:11,11:11:376:11:396:-29.3601,0,-27.5466 0/0:12:11,1:11:376:1:32:0,-0.413047,-30.97 0/1:71:27,44:27:919:44:1576:-120.758,0,-61.6468 0/0:173:173,0:173:5930:0:0:0,-52.0782,-533.837 0/0:101:101,0:101:3440:0:0:0,-30.404,-309.826 0/1:241:120,121:120:4115:121:4311:-315.618,0,-298.003 0/1:209:88,121:88:2989:121:4313:-325.431,0,-206.332 0/1:77:37,40:37:1268:40:1421:-105.006,0,-91.238 0/1:181:103,78:103:3514:78:2762:-194.335,0,-261.993 0/1:177:116,61:116:3997:61:2159:-141.295,0,-306.649 0/0:159:158,1:158:5452:1:36:0,-44.2655,-487.231 0/0:40:38,2:38:1282:2:72:0,-5.20448,-108.838 chr06 3504765 . G T 8584.67 PASS AB=0.520704;ABP=6.60694;AC=12;AF=0.285714;AN=42;AO=508;CIGAR=1X;DP=1979;DPB=1979;DPRA=0.655467;EPP=1097.45;EPPR=3134.56;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9986;NS=21;NUMALT=1;ODDS=17.2825;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18142;QR=52477;RO=1470;RPL=507;RPP=1097.45;RPPR=3134.56;RPR=1;RUN=1;SAF=0;SAP=1106.12;SAR=508;SRF=0;SRP=3195.07;SRR=1470;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:53,2:53:1896:2:72:0,-9.71993,-164.081 0/0:94:94,0:94:3339:0:0:0,-28.2968,-300.726 0/1:116:52,64:52:1860:64:2278:-170.36,0,-132.76 0/0:192:192,0:192:6818:0:0:0,-57.7978,-613.695 0/0:125:123,2:123:4395:2:72:0,-30.792,-388.886 0/1:89:39,50:39:1392:50:1796:-135.131,0,-98.7873 0/1:114:58,56:58:2071:56:2012:-147.036,0,-152.343 0/1:124:52,72:52:1868:72:2581:-195.21,0,-131.071 0/1:117:50,67:50:1791:67:2369:-178.246,0,-126.251 0/1:13:7,6:7:233:6:216:-15.8771,0,-17.3809 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:51:24,27:24:851:27:949:-70.3702,0,-61.5569 0/0:274:274,0:274:9807:0:0:0,-82.4822,-882.575 0/0:132:132,0:132:4724:0:0:0,-39.736,-425.319 0/1:90:38,52:38:1364:52:1864:-140.947,0,-95.968 0/1:59:18,41:18:625:41:1468:-114.655,0,-38.8117 0/1:67:43,23:43:1536:23:809:-52.9008,0,-118.305 0/1:60:30,30:30:1080:30:1080:-79.4515,0,-79.4515 0/1:66:51,15:51:1824:15:540:-29.0686,0,-144.573 0/0:83:82,1:82:2927:1:36:0,-21.3872,-260.066 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.202 chr06 3599458 . AGAC GGAC,GGAT 93897.9 PASS AB=0.652968,0.344178;ABP=359.092,372.503;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3014,609;CIGAR=1X3M,1X2M1X;DP=3634;DPB=3634;DPRA=0,1.08424;EPP=6539.15,1325.44;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=2.28571,2.47059;MQM=59.9871,59.9639;MQMR=60;NS=21;NUMALT=2;ODDS=35.3719;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=106181,21253;QR=35;RO=1;RPL=1308,1;RPP=117.134,1316.77;RPPR=5.18177;RPR=1706,608;RUN=1,1;SAF=1309,1;SAP=115.99,1316.77;SAR=1705,608;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:254:0,252,1:0:0:252,1:8868,36:-797.752,-75.8596,0,-794.814,-72.9221,-794.513 1/1:189:0,186,1:0:0:186,1:6585,36:-592.393,-55.9916,0,-589.455,-53.0442,-589.154 1/2:92:0,51,41:0:0:51,41:1784,1436:-262.328,-117.192,-101.839,-145.486,0,-133.144 1/1:218:0,217,1:0:0:217,1:7711,36:-693.667,-65.3235,0,-690.73,-62.0263,-690.429 1/1:372:0,370,1:0:0:370,1:13101,35:-1178.61,-111.381,0,-1175.77,-108.483,-1175.47 1/2:162:0,101,59:0:0:101,59:3598,2088:-463.344,-170.075,-139.671,-293.327,0,-275.566 1/2:261:0,173,88:0:0:173,88:6060,3053:-741.593,-248.514,-196.435,-493.427,0,-466.937 1/2:208:0,132,76:0:0:132,76:4631,2598:-588.062,-211.191,-171.455,-377.217,0,-354.338 1/2:234:0,142,92:0:0:142,92:5021,3217:-671,-262.061,-219.315,-409.29,0,-381.596 1/2:46:0,25,21:0:0:25,21:896,730:-132.78,-59.6974,-52.1717,-73.4346,0,-67.113 1/1:12:0,12,0:0:0:12,0:417,0:-37.8602,-3.61236,0,-37.8602,-3.61236,-37.8602 1/2:27:0,23,4:0:0:23,4:815,144:-78.4976,-12.1095,-5.18581,-66.7471,0,-65.543 1/1:263:0,263,0:0:0:263,0:9285,0:-835.621,-79.1709,0,-835.621,-79.1709,-835.621 1/1:234:0,232,0:0:0:232,0:8242,0:-741.433,-69.839,0,-741.433,-69.839,-741.433 1/2:242:0,157,85:0:0:157,85:5522,2993:-693.443,-244.016,-196.755,-449.779,0,-424.191 1/2:84:0,56,28:0:0:56,28:1964,982:-240.088,-80.263,-63.4053,-160.175,0,-151.746 1/2:116:0,86,29:0:0:86,29:3026,1019:-329.34,-83.0094,-57.1208,-246.399,0,-237.67 1/2:140:0,91,49:0:0:91,49:3168,1694:-395.598,-137.992,-110.598,-257.952,0,-243.202 1/2:140:1,107,31:1:35:107,31:3751,1084:-390.331,-85.3954,-56.0331,-302.445,0,-295.961 1/1:201:0,199,2:0:0:199,2:6875,72:-618.468,-59.905,0,-612.594,-53.6703,-611.991 1/1:139:0,139,0:0:0:139,0:4861,0:-437.649,-41.8432,0,-437.649,-41.8432,-437.649 chr06 3621070 . TGAGAATT AGAAAATT,AGAAAATC 33959.5 PASS AB=0.545888,0.445769;ABP=18.3555,24.4429;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1220,375;CIGAR=1X2M1X4M,1X2M1X3M1X;DP=1609;DPB=1608.75;DPRA=0,0.884848;EPP=2608.96,817.312;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.28571,2.61538;MQM=59.973,59.952;MQMR=0;NS=21;NUMALT=2;ODDS=9.75785;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43239,13258;QR=0;RO=0;RPL=1215,375;RPP=2608.96,817.312;RPPR=0;RPR=5,0;RUN=1,1;SAF=1220,375;SAP=2652.21,817.312;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,108,1:0:0:108,1:3840,32:-345.433,-32.5112,0,-342.855,-29.9329,-342.554 1/1:74:0,73,0:0:0:73,0:2599,0:-233.798,-21.9752,0,-233.798,-21.9752,-233.798 1/2:94:0,63,29:0:0:63,29:2203,1012:-261.6,-82.376,-63.4111,-179.288,0,-170.558 1/1:106:0,106,0:0:0:106,0:3760,0:-338.602,-31.9092,0,-338.602,-31.9092,-338.602 1/1:168:0,167,0:0:0:167,0:5893,0:-530.129,-50.272,0,-530.129,-50.272,-530.129 1/2:75:0,43,32:0:0:43,32:1527,1139:-217.609,-93.1865,-80.2422,-124.778,0,-115.145 1/2:96:0,46,49:0:0:46,49:1635,1730:-274.103,-140.867,-127.019,-133.23,0,-118.48 1/2:80:0,41,36:0:0:41,36:1441,1263:-220.077,-102.786,-90.4438,-117.292,0,-106.455 1/2:131:0,71,60:0:0:71,60:2500,2123:-376.804,-173.277,-151.904,-203.88,0,-185.819 1/2:14:0,7,7:0:0:7,7:246,252:-40.9406,-20.9217,-18.8145,-20.3744,0,-18.2671 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:26:0,15,11:0:0:15,11:540,394:-76.5526,-32.4902,-27.9748,-44.4211,0,-41.1098 1/1:119:0,117,0:0:0:117,0:4166,0:-374.816,-35.2205,0,-374.816,-35.2205,-374.816 1/1:102:0,101,0:0:0:101,0:3584,0:-322.459,-30.404,0,-322.459,-30.404,-322.459 1/2:129:0,63,66:0:0:63,66:2245,2349:-374.792,-191.799,-172.834,-183.349,0,-163.481 1/2:47:0,26,21:0:0:26,21:898,727:-132.385,-59.4264,-51.5996,-73.3044,0,-66.9828 1/2:85:0,43,41:0:0:43,41:1540,1454:-244.137,-118.544,-105.599,-125.678,0,-113.335 1/2:36:0,21,15:0:0:21,15:733,538:-103.854,-44.2404,-37.9188,-59.968,0,-55.4526 1/2:26:0,19,7:0:0:19,7:679,245:-75.6512,-20.2837,-14.5641,-55.7194,0,-53.6122 1/1:73:0,72,0:0:0:72,0:2563,0:-230.561,-21.6742,0,-230.561,-21.6742,-230.561 1/1:14:0,14,0:0:0:14,0:503,0:-45.6077,-4.21442,0,-45.6077,-4.21442,-45.6077 chr06 3623527 . G T 29801.7 PASS AB=0.517212;ABP=6.00028;AC=29;AF=0.690476;AN=42;AO=1410;CIGAR=1X;DP=1999;DPB=1999;DPRA=0;EPP=2851.49;EPPR=1238.95;GTI=0;LEN=1;MEANALT=1;MQM=59.9887;MQMR=60;NS=21;NUMALT=1;ODDS=2.96923;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50309;QR=21077;RO=589;RPL=1385;RPP=2851.49;RPPR=1238.95;RPR=25;RUN=1;SAF=0;SAP=3064.79;SAR=1410;SRF=0;SRP=1282.01;SRR=589;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:1,123:1:36:123:4408:-393.294,-33.7294,0 1/1:72:0,72:0:0:72:2580:-232.449,-21.6742,0 0/1:109:40,69:40:1423:69:2461:-188.932,0,-95.5544 1/1:76:0,76:0:0:76:2679:-241.353,-22.8783,0 1/1:200:2,198:2:72:198:7081:-630.512,-53.3693,0 0/1:101:58,43:58:2068:43:1536:-108.129,0,-155.987 0/1:152:62,90:62:2228:90:3216:-243.906,0,-155.027 0/1:124:78,46:78:2792:46:1635:-110.11,0,-214.193 0/1:145:60,85:60:2147:85:2997:-226.311,0,-149.847 0/1:28:11,17:11:396:17:612:-46.9846,0,-27.5539 1/1:11:0,11:0:0:11:388:-35.2574,-3.31133,0 0/0:25:24,1:24:856:1:36:0,-3.92747,-73.7628 1/1:69:0,69:0:0:69:2445:-220.304,-20.7711,0 1/1:135:1,134:1:36:134:4801:-428.645,-37.0408,0 0/1:150:82,68:82:2932:68:2428:-173.621,0,-218.96 0/1:54:25,29:25:900:29:1029:-76.6655,0,-65.0654 0/1:80:39,41:39:1396:41:1449:-106.622,0,-101.857 0/1:154:77,77:77:2755:77:2756:-201.923,0,-201.833 0/1:65:29,36:29:1040:36:1292:-97.0168,0,-74.3474 1/1:87:0,87:0:0:87:3124:-281.33,-26.1896,0 1/1:38:0,38:0:0:38:1356:-122.34,-11.4391,0 chr06 3623537 . G T 9821.37 PASS AB=0.477002;ABP=8.40384;AC=13;AF=0.309524;AN=42;AO=588;CIGAR=1X;DP=2026;DPB=2026;DPRA=1.87003;EPP=1271.16;EPPR=3054.32;GTI=1;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9889;NS=21;NUMALT=1;ODDS=1.78906;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21052;QR=51390;RO=1437;RPL=587;RPP=1271.16;RPPR=3054.32;RPR=1;RUN=1;SAF=0;SAP=1279.84;SAR=588;SRF=0;SRP=3123.42;SRR=1437;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:122,1:122:4363:1:36:0,-33.7882,-389.246 0/0:71:71,0:71:2536:0:0:0,-21.3731,-228.491 0/1:108:68,40:68:2448:40:1432:-96.6664,0,-188.063 0/0:76:76,0:76:2715:0:0:0,-22.8783,-244.593 0/0:210:208,2:208:7438:2:72:0,-56.3796,-662.628 0/1:102:44,58:44:1580:58:2039:-153.073,0,-111.786 0/1:154:92,62:92:3275:62:2232:-154.785,0,-248.612 0/1:127:49,78:49:1760:78:2804:-214.368,0,-120.453 0/1:148:87,61:87:3097:61:2190:-152.813,0,-234.404 0/1:28:17,11:17:595:11:392:-27.1912,0,-45.4478 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 1/1:26:2,24:2:68:24:864:-71.6249,-1.36907,0 0/0:69:69,0:69:2484:0:0:0,-20.7711,-223.813 0/0:135:134,1:134:4776:1:36:0,-37.0408,-426.398 0/1:152:70,82:70:2504:82:2937:-218.806,0,-179.856 0/1:54:29,25:29:1036:25:881:-63.3502,0,-77.2983 0/1:81:43,38:43:1540:38:1368:-99.0374,0,-114.51 0/1:153:77,76:77:2764:76:2725:-199.435,0,-202.944 0/1:67:38,29:38:1359:29:1044:-74.1058,0,-102.441 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.326 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 chr06 3626623 . C G 6556.77 PASS AB=0.458664;ABP=16.1154;AC=12;AF=0.285714;AN=42;AO=408;CIGAR=1X;DP=1472;DPB=1472;DPRA=1.61644;EPP=888.971;EPPR=2313.46;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=17.3415;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14592;QR=37934;RO=1064;RPL=408;RPP=888.971;RPPR=2313.46;RPR=0;RUN=1;SAF=0;SAP=888.971;SAR=408;SRF=0;SRP=2313.46;SRR=1064;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:65,0:65:2313:0:0:0,-19.5669,-208.429 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/1:104:54,50:54:1924:50:1784:-129.536,0,-142.13 0/0:42:42,0:42:1493:0:0:0,-12.6433,-134.663 0/0:128:127,1:127:4510:1:36:0,-34.9336,-402.47 0/1:50:23,27:23:828:27:968:-72.3859,0,-59.7926 0/1:84:40,44:40:1417:44:1573:-116.575,0,-102.539 0/1:109:82,27:82:2924:27:972:-54.9856,0,-230.583 0/1:139:73,66:73:2620:66:2352:-170.096,0,-194.204 0/1:15:8,7:8:284:7:248:-18.1487,0,-21.3879 0/0:16:16,0:16:561:0:0:0,-4.81648,-50.8171 0/1:34:21,13:21:737:13:468:-32.2246,0,-56.4156 0/0:94:94,0:94:3372:0:0:0,-28.2968,-303.695 0/0:95:94,1:94:3331:1:36:0,-24.9996,-296.406 0/1:108:46,62:46:1652:62:2220:-167.553,0,-116.457 0/1:49:20,29:20:716:29:1036:-78.8034,0,-50.0172 0/1:45:18,27:18:640:27:972:-74.2516,0,-44.383 0/1:85:56,29:56:1991:29:1031:-67.5151,0,-153.876 0/1:61:37,24:37:1328:24:860:-59.359,0,-101.459 0/0:74:73,1:73:2601:1:36:0,-18.6779,-230.739 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 chr06 3652896 . CAG AAG 15438.5 PASS AB=0.345506;ABP=150.622;AC=29;AF=0.690476;AN=42;AO=771;CIGAR=1X2M;DP=1314;DPB=1314;DPRA=0;EPP=1659.89;EPPR=1132.18;GTI=1;LEN=1;MEANALT=1.71429;MQM=59.93;MQMR=59.9692;NS=21;NUMALT=1;ODDS=0.468983;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27657;QR=18010;RO=520;RPL=769;RPP=1659.89;RPPR=1132.18;RPR=2;RUN=1;SAF=0;SAP=1677.22;SAR=771;SRF=0;SRP=1132.18;SRR=520;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:13:0,11:0:0:11:396:-35.6961,-3.31133,0 1/1:28:0,26:0:0:26:936:-84.3136,-7.82678,0 0/1:124:72,49:72:2548:49:1760:-121.954,0,-192.844 1/1:93:0,91:0:0:91:3265:-293.792,-27.3937,0 1/1:44:4,39:4:136:39:1400:-113.736,-0.653285,0 0/1:74:60,14:60:2022:14:504:-23.4219,0,-159.971 0/1:84:56,27:56:1931:27:968:-62.2366,0,-148.864 0/1:67:47,19:47:1654:19:684:-41.6625,0,-128.918 0/1:128:81,44:81:2811:44:1576:-104.24,0,-215.336 0/1:9:2,7:2:72:7:241:-19.3093,0,-4.12745 1/1:17:0,17:0:0:17:612:-55.4125,-5.11751,0 0/1:37:9,27:9:307:27:972:-76.678,0,-16.8365 1/1:145:0,144:0:0:144:5159:-464.167,-43.3483,0 1/1:57:0,54:0:0:54:1940:-174.598,-16.2556,0 0/1:53:41,11:41:1407:11:392:-19.6802,0,-110.987 0/1:47:35,10:35:1217:10:360:-18.8381,0,-95.9249 0/0:64:61,3:61:2123:3:108:0,-9.19075,-181.259 0/1:50:35,15:35:1182:15:532:-33.1616,0,-91.6232 0/1:39:16,23:16:564:23:824:-62.7431,0,-39.3496 1/1:118:1,117:1:36:117:4200:-374.549,-31.9233,0 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 chr06 3677329 . C T 1270.34 PASS AB=0.273756;ABP=199.524;AC=8;AF=0.190476;AN=42;AO=132;CIGAR=1X;DP=1245;DPB=1245;DPRA=1.18323;EPP=289.645;EPPR=2419.86;GTI=2;LEN=1;MEANALT=1;MQM=59.8788;MQMR=59.9901;NS=21;NUMALT=1;ODDS=3.8302;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4748;QR=39762;RO=1113;RPL=132;RPP=289.645;RPPR=237.929;RPR=0;RUN=1;SAF=0;SAP=289.645;SAR=132;SRF=383;SRP=237.929;SRR=730;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:101:98,3:98:3508:3:108:0,-20.3289,-305.855 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 0/1:34:20,14:20:704:14:504:-35.4631,0,-53.4495 0/0:70:70,0:70:2508:0:0:0,-21.0721,-225.97 0/0:135:133,2:133:4715:2:72:0,-33.8023,-417.67 0/1:47:28,19:28:1000:19:684:-47.7419,0,-76.167 0/1:62:54,8:54:1940:8:288:-7.60355,0,-156.212 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/0:50:46,4:46:1648:4:144:0,-1.73788,-135.295 0/0:6:6,0:6:201:0:0:0,-1.80618,-18.417 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:24:16,8:16:572:8:288:-19.0427,0,-44.5887 0/0:52:52,0:52:1864:0:0:0,-15.6536,-168.039 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.403 0/1:75:57,18:57:2025:18:648:-36.0746,0,-159.944 0/0:34:32,2:32:1152:2:72:0,-3.3983,-97.1534 0/1:45:36,9:36:1292:9:320:-15.5394,0,-103.037 0/1:105:68,37:68:2424:37:1332:-88.5742,0,-186.808 0/1:50:42,8:42:1508:8:288:-11.2159,0,-120.963 0/0:110:110,0:110:3917:0:0:0,-33.1133,-352.723 0/0:58:58,0:58:2072:0:0:0,-17.4597,-186.751 chr06 3679418 . GATGT AATAC,AATGC 27714.5 PASS AB=0.460589,0.529915;ABP=17.2166,11.1951;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1139,560;CIGAR=1X2M2X,1X3M1X;DP=1709;DPB=1710.6;DPRA=0,1.28986;EPP=2476.32,1219.03;EPPR=0;GTI=0;LEN=5,5;MEANALT=2,2.61538;MQM=30.1115,42.4607;MQMR=0;NS=21;NUMALT=2;ODDS=5.55814;PAIRED=0,0;PAIREDR=0;PAO=2.66667,2.66667;PQA=60,60;PQR=0;PRO=0;QA=39727,19485;QR=0;RO=0;RPL=1139,560;RPP=2476.32,1219.03;RPPR=0;RPR=0,0;RUN=1,1;SAF=1139,560;SAP=2476.32,1219.03;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:0,105,0:0:0:105,0:3658,0:-275.46,-31.6082,0,-275.46,-31.6082,-275.46 1/1:70:0,70,0:0:0:70,0:2434,0:-170.476,-21.0721,0,-170.476,-21.0721,-170.476 1/2:80:0,35,44:0:0:35,44:1218,1541:-203.941,-122.095,-111.559,-81.9481,0,-68.7028 1/1:75:0,75,0:0:0:75,0:2617,0:-195.556,-22.5773,0,-195.556,-22.5773,-195.556 1/1:104:0,102,2:0:0:102,2:3578,70:-267.908,-30.7051,0,-262.354,-24.8102,-261.752 1/2:75:0,28,46:0:0:28,46:965,1612:-184.626,-126.132,-117.703,-58.5331,0,-44.6857 1/2:126:0,65,60:0:0:65,60:2257,2074:-300.764,-161.339,-141.772,-139.522,0,-121.46 1/2:121:0,54,67:0:0:54,67:1878,2339:-304.962,-185.475,-169.219,-119.794,0,-99.6251 1/2:196:0,89,105:0:0:89,105:3131,3667:-503.493,-291.581,-264.79,-211.921,0,-180.313 1/2:8:0,7,1:0:0:7,1:251,36:-19.0791,-3.15346,-1.04625,-16.2638,0,-15.9628 1/1:13:0,13,0:0:0:13,0:426,0:-30.7435,-3.91339,0,-30.7435,-3.91339,-30.7435 1/2:33:0,20,11:0:0:20,11:709,374:-74.3585,-29.1644,-23.1438,-45.1823,0,-41.8709 1/1:106:0,106,0:0:0:106,0:3699,0:-276.501,-31.9092,0,-276.501,-31.9092,-276.501 1/1:104:0,104,0:0:0:104,0:3629,0:-272.588,-31.3071,0,-272.588,-31.3071,-272.588 1/2:130:0,48,81:0:0:48,81:1680,2808:-332.116,-221.31,-206.86,-110.898,0,-86.5147 1/2:52:0,19,33:0:0:19,33:647,1132:-133.89,-90.7074,-84.9879,-43.4879,0,-33.554 1/2:67:0,41,26:0:0:41,26:1450,916:-171.113,-72.4623,-60.1201,-98.9263,0,-91.0995 1/2:89:0,39,48:0:0:39,48:1378,1680:-220.984,-131.476,-119.736,-89.471,0,-75.0215 1/2:76:0,40,36:0:0:40,36:1396,1236:-190.438,-98.55,-86.5088,-92.2024,0,-81.3653 1/1:54:0,54,0:0:0:54,0:1867,0:-137.078,-16.2556,0,-137.078,-16.2556,-137.078 1/1:25:0,25,0:0:0:25,0:859,0:-61.0732,-7.52575,0,-61.0732,-7.52575,-61.0732 chr06 3821138 . A G 11853.8 PASS AB=0.531801;ABP=14.4733;AC=12;AF=0.285714;AN=42;AO=703;CIGAR=1X;DP=2679;DPB=2679;DPRA=1.00078;EPP=1529.56;EPPR=4289.5;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9602;MQMR=59.9681;NS=21;NUMALT=1;ODDS=2.24765;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25010;QR=69446;RO=1974;RPL=0;RPP=1529.56;RPPR=4289.5;RPR=703;RUN=1;SAF=703;SAP=1529.56;SAR=0;SRF=1974;SRP=4289.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:203:203,0:203:7160:0:0:0,-61.1091,-644.089 0/0:131:130,0:130:4585:0:0:0,-39.1339,-412.461 0/1:95:53,42:53:1876:42:1504:-107.057,0,-140.521 0/0:230:229,1:229:8001:1:36:0,-65.6386,-716.518 0/0:264:259,5:259:9089:5:180:0,-62.9199,-801.451 0/1:126:47,79:47:1660:79:2813:-215.46,0,-111.758 0/1:144:62,82:62:2185:82:2917:-219.416,0,-153.567 0/1:104:56,48:56:1973:48:1682:-120.355,0,-146.536 0/1:221:102,119:102:3596:119:4244:-315.613,0,-257.324 0/1:10:8,2:8:276:2:72:-3.82642,0,-22.1649 0/0:14:14,0:14:489:0:0:0,-4.21442,-44.3389 0/1:49:19,30:19:684:30:1080:-82.7628,0,-47.1399 0/0:196:196,0:196:6886:0:0:0,-59.0019,-619.823 0/0:138:138,0:138:4874:0:0:0,-41.5421,-438.814 0/1:155:69,86:69:2372:86:3046:-227.709,0,-167.075 0/1:144:59,84:59:2080:84:2986:-225.564,0,-144.064 0/1:104:46,58:46:1620:58:2064:-154.721,0,-114.782 0/1:65:32,33:32:1152:33:1180:-86.9411,0,-84.4232 0/1:88:57,31:57:2027:31:1108:-73.5404,0,-156.211 0/0:115:112,3:112:3897:3:98:0,-25.4752,-341.782 0/0:83:83,0:83:2964:0:0:0,-24.9855,-266.988 chr06 3821222 . TCTGT TCTGCTGT 10092 PASS AB=0.459005;ABP=23.8409;AC=12;AF=0.285714;AN=42;AO=660;CIGAR=1M3I4M;DP=2515;DPB=2914.2;DPRA=1.57255;EPP=1436.18;EPPR=4011.55;GTI=0;LEN=3;MEANALT=1.53333;MQM=45.7136;MQMR=59.8678;NS=21;NUMALT=1;ODDS=15.5241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23248;QR=64837;RO=1846;RPL=660;RPP=1436.18;RPPR=4011.55;RPR=0;RUN=1;SAF=0;SAP=1436.18;SAR=660;SRF=0;SRP=4011.55;SRR=1846;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:246:243,3:243:8515:3:108:0,-64.0663,-756.359 0/0:112:112,0:112:3936:0:0:0,-33.7154,-354.422 0/1:133:70,61:70:2451:61:2134:-150.294,0,-181.124 0/0:105:104,1:104:3657:1:36:0,-28.0413,-325.768 0/0:227:226,1:226:7928:1:36:0,-64.767,-709.982 0/1:75:41,34:41:1446:34:1207:-83.7956,0,-107.859 0/1:158:96,61:96:3399:61:2151:-142.215,0,-258.461 0/1:134:68,65:68:2378:65:2307:-163.843,0,-173.88 0/1:204:110,92:110:3891:92:3271:-230.823,0,-289.244 0/1:27:13,14:13:456:14:500:-36.553,0,-33.2454 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:30:13,17:13:460:17:606:-44.8468,0,-32.7046 0/0:87:87,0:87:3057:0:0:0,-26.1896,-275.362 0/0:157:157,0:157:5459:0:0:0,-47.2617,-491.452 0/1:243:125,116:125:4395:116:4072:-288.953,0,-322.808 0/1:92:45,47:45:1577:47:1660:-120.953,0,-114.519 0/1:83:35,48:35:1213:48:1672:-124.75,0,-84.4852 0/1:173:99,74:99:3504:74:2591:-177.975,0,-263.441 0/1:75:48,26:48:1682:26:897:-57.2165,0,-129.029 0/0:99:99,0:99:3500:0:0:0,-29.802,-315.213 0/0:51:51,0:51:1789:0:0:0,-15.3525,-161.286 chr06 3824637 . AG AA,GA 33349.9 PASS AB=0.562759,0.430345;ABP=27.813,33.5637;AC=30,12;AF=0.714286,0.285714;AN=42;AO=941,317;CIGAR=1M1X,2X;DP=1266;DPB=1266;DPRA=0,1.15822;EPP=81.9887,75.6827;EPPR=3.0103;GTI=0;LEN=1,2;MEANALT=1.95238,2.25;MQM=59.9798,59.6404;MQMR=60;NS=21;NUMALT=2;ODDS=11.0289;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33404,11029;QR=122;RO=4;RPL=3,1;RPP=2020.39,682.709;RPPR=11.6962;RPR=938,316;RUN=1,1;SAF=566,211;SAP=87.1947,78.5323;SAR=375,106;SRF=2;SRP=3.0103;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,55,1:0:0:55,1:1955,34:-175.885,-16.5567,0,-173.127,-13.4588,-172.826 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 1/2:28:0,17,11:0:0:17,11:608,392:-81.8844,-32.3066,-27.1891,-49.9345,0,-46.6232 1/1:58:0,58,0:0:0:58,0:2060,0:-185.672,-17.4597,0,-185.672,-17.4597,-185.672 1/1:86:0,84,2:0:0:84,2:2999,72:-269.779,-25.2865,0,-263.905,-19.0519,-263.302 1/2:50:0,29,21:0:0:29,21:1019,728:-142.44,-59.4978,-50.768,-83.2909,0,-76.9692 1/2:109:0,56,51:0:0:56,51:1987,1735:-302.677,-140.777,-123.919,-161.949,0,-146.597 1/2:58:0,24,34:0:0:24,34:856,1201:-167.921,-98.1474,-90.9226,-70.1282,0,-59.8932 1/2:93:0,53,40:0:0:53,40:1874,1391:-266.058,-113.428,-97.4731,-152.98,0,-140.939 1/2:15:0,10,4:0:0:10,4:360,133:-40.2311,-10.8275,-7.81724,-29.4746,0,-28.2705 1/1:7:0,7,0:0:0:7,0:243,0:-22.2075,-2.10721,0,-22.2075,-2.10721,-22.2075 1/2:35:0,20,15:0:0:20,15:715,511:-100.097,-41.7894,-35.7688,-58.6551,0,-54.1396 1/1:82:0,82,0:0:0:82,0:2931,0:-264.024,-24.6845,0,-264.024,-24.6845,-264.024 1/1:101:0,101,0:0:0:101,0:3591,0:-323.396,-30.404,0,-323.396,-30.404,-323.396 1/2:42:0,29,13:0:0:29,13:1036,466:-122.831,-38.3653,-29.6354,-84.824,0,-80.9107 1/2:18:0,11,7:0:0:11,7:392,233:-51.1533,-19.1865,-15.8751,-32.3087,0,-30.2015 1/2:27:1,14,12:1:25:14,12:500,430:-73.692,-33.2289,-30.955,-38.9229,0,-37.2523 1/2:150:0,72,78:0:0:72,78:2562,2707:-429.175,-220.372,-198.698,-209.154,0,-185.674 1/2:100:1,73,26:1:36:73,26:2580,926:-282.351,-72.5335,-53.4958,-207.177,0,-202.287 1/1:39:0,37,1:0:0:37,1:1292,36:-116.219,-11.1381,0,-113.281,-8.20069,-112.98 1/1:91:2,88,1:2:61:88,1:3088,34:-272.344,-21.6273,0,-270.193,-23.7263,-274.777 chr06 3829841 . C T 9363 PASS AB=0.519285;ABP=6.44421;AC=12;AF=0.285714;AN=42;AO=555;CIGAR=1X;DP=2023;DPB=2023;DPRA=1.33909;EPP=1199.51;EPPR=3182.05;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.8631;MQMR=59.9959;NS=21;NUMALT=1;ODDS=14.2838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19737;QR=51982;RO=1464;RPL=554;RPP=1199.51;RPPR=3182.05;RPR=1;RUN=1;SAF=555;SAP=1208.18;SAR=0;SRF=1464;SRP=3182.05;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:137:136,1:136:4855:1:36:0,-37.6428,-433.506 0/0:106:106,0:106:3755:0:0:0,-31.9092,-338.148 0/1:88:52,36:52:1836:36:1296:-90.4533,0,-139.027 0/0:105:105,0:105:3746:0:0:0,-31.6081,-337.34 0/0:273:268,2:268:9496:2:72:0,-74.7599,-847.83 0/1:115:36,79:36:1273:79:2832:-220.5,0,-80.2525 0/1:164:71,93:71:2513:93:3299:-247.373,0,-177.053 0/1:112:54,58:54:1917:58:2058:-151.775,0,-139.09 0/1:151:75,75:75:2675:75:2676:-195.712,0,-195.621 0/1:14:4,10:4:144:10:360:-28.5299,0,-9.0992 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:26:11,15:11:396:15:540:-41.1098,0,-28.156 0/0:146:146,0:146:5180:0:0:0,-43.9504,-466.338 0/0:85:85,0:85:3006:0:0:0,-25.5875,-270.77 0/1:132:71,61:71:2507:61:2140:-152.94,0,-186.145 0/1:67:32,35:32:1140:35:1260:-93.5365,0,-82.7402 0/1:73:34,39:34:1224:39:1378:-102.342,0,-88.4919 0/1:69:34,35:34:1198:35:1242:-91.2836,0,-87.3529 0/1:52:36,16:36:1283:16:548:-33.9877,0,-100.119 0/0:65:65,0:65:2303:0:0:0,-19.5669,-207.528 0/0:34:34,0:34:1215:0:0:0,-10.235,-109.656 chr06 3829851 . A G 9244.28 PASS AB=0.515464;ABP=5.22654;AC=12;AF=0.285714;AN=42;AO=554;CIGAR=1X;DP=2057;DPB=2057;DPRA=1.32035;EPP=1206.01;EPPR=3264.56;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9097;MQMR=59.9228;NS=21;NUMALT=1;ODDS=15.7322;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19681;QR=53792;RO=1502;RPL=554;RPP=1206.01;RPPR=3264.56;RPR=0;RUN=1;SAF=554;SAP=1206.01;SAR=0;SRF=1502;SRP=3264.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:143:141,2:141:5051:2:63:0,-37.0641,-447.964 0/0:108:108,0:108:3872:0:0:0,-32.5112,-348.674 0/1:89:53,36:53:1895:36:1292:-89.7921,0,-144.036 0/0:107:107,0:107:3840:0:0:0,-32.2102,-345.795 0/0:282:280,2:280:10002:2:68:0,-78.4327,-893.661 0/1:114:36,78:36:1296:78:2784:-216.484,0,-82.4688 0/1:164:70,93:70:2512:93:3294:-247.417,0,-177.073 0/1:116:60,56:60:2140:56:1981:-143.643,0,-157.949 0/1:149:75,74:75:2687:74:2647:-193.622,0,-196.85 0/1:13:4,9:4:144:9:320:-25.229,0,-9.40023 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:27:11,16:11:392:16:557:-42.3278,0,-27.4922 0/0:150:150,0:150:5365:0:0:0,-45.1545,-482.976 0/0:90:90,0:90:3216:0:0:0,-27.0927,-289.663 0/1:132:72,60:72:2592:60:2147:-153.675,0,-193.792 0/1:65:30,35:30:1080:35:1256:-93.7783,0,-77.9463 0/1:77:35,42:35:1256:42:1476:-109.952,0,-90.166 0/1:70:35,35:35:1256:35:1243:-91.0734,0,-92.2732 0/1:51:35,16:35:1256:16:553:-34.7415,0,-97.9928 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.255 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 chr06 3829858 . GTTTTTT CTTGTTG,GTTGTTT 24287.2 PASS AB=0.460355,0.530178;ABP=14.5461,9.69432;AC=26,16;AF=0.619048,0.380952;AN=42;AO=695,546;CIGAR=1X2M1X2M1X,3M1X3M;DP=1254;DPB=1255;DPRA=0,1.37662;EPP=1512.18,1188.63;EPPR=7.35324;GTI=0;LEN=7,1;MEANALT=2.2381,2.625;MQM=59.9094,59.9487;MQMR=60;NS=21;NUMALT=2;ODDS=1.46539;PAIRED=0,0;PAIREDR=0;PAO=6,0.5;PQA=212,18;PQR=18;PRO=0.5;QA=23326,19464;QR=46;RO=2;RPL=695,546;RPP=1512.18,1188.63;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=695,546;SAP=1512.18,1188.63;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:18:0,13,3:0:0:13,3:410,104:-41.4691,-8.49448,-4.58109,-33.0099,0,-32.1068 1/1:108:0,108,0:0:0:108,0:3705,0:-333.665,-32.5112,0,-333.665,-32.5112,-333.665 2/2:40:0,2,37:0:0:2,37:67,1332:-119.844,-114.419,-113.817,-11.1381,-5.71535,0 1/1:16:0,16,0:0:0:16,0:489,0:-44.3068,-4.81648,0,-44.3068,-4.81648,-44.3068 1/1:53:0,48,3:0:0:48,3:1444,99:-129.89,-14.4494,0,-121.885,-6.46081,-120.982 1/2:115:0,37,77:0:0:37,77:1271,2760:-328.354,-225.181,-214.043,-103.239,0,-80.0595 1/2:164:0,70,93:0:0:70,93:2375,3324:-463.772,-271.18,-250.108,-192.753,0,-164.758 1/2:114:1,59,54:1:22:59,54:1998,1928:-317.324,-155.642,-139.558,-160.432,0,-145.853 1/2:146:1,72,71:1:24:72,71:2492,2541:-407.624,-205.415,-185.598,-200.709,0,-181.193 1/2:13:0,4,9:0:0:4,9:141,320:-37.9127,-26.4331,-25.229,-11.8329,0,-9.12364 1/1:9:0,9,0:0:0:9,0:307,0:-27.9606,-2.70927,0,-27.9606,-2.70927,-27.9606 1/2:26:0,9,17:0:0:9,17:323,597:-75.2884,-48.9386,-46.2293,-26.7058,0,-21.5883 1/1:21:0,19,1:0:0:19,1:568,36:-51.0643,-5.71957,0,-48.1245,-2.778,-47.8234 1/2:19:0,17,2:0:0:17,2:540,61:-48.6723,-5.19196,-0.0744498,-43.7866,0,-43.1846 2/2:63:0,5,57:0:0:5,57:144,2010:-180.885,-169.437,-167.932,-17.1587,-5.65675,0 1/2:63:0,31,32:0:0:31,32:1079,1152:-182.091,-94.3572,-85.0253,-88.0874,0,-78.4544 1/2:76:0,35,41:0:0:35,41:1227,1455:-218.749,-118.903,-108.367,-100.198,0,-87.856 1/2:68:0,34,34:0:0:34,34:1125,1220:-190.81,-99.8434,-89.6084,-91.3114,0,-81.0764 1/2:23:0,8,15:0:0:8,15:253,525:-63.0487,-42.7048,-40.2965,-20.3165,0,-15.8011 1/1:67:0,67,0:0:0:67,0:2262,0:-203.482,-20.169,0,-203.482,-20.169,-203.482 1/1:32:0,32,0:0:0:32,0:1106,0:-99.846,-9.63296,0,-99.846,-9.63296,-99.846 chr06 3890593 . AAGAC GAGAC,GAGAT 26360.1 PASS AB=0.498728,0.498728;ABP=3.02135,3.02135;AC=30,12;AF=0.714286,0.285714;AN=42;AO=866,392;CIGAR=1X4M,1X3M1X;DP=1261;DPB=1261.2;DPRA=0,1.24105;EPP=1883.51,854.227;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.71429,2.16667;MQM=59.6328,57.6276;MQMR=0;NS=21;NUMALT=2;ODDS=7.51066;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=30894,13838;QR=0;RO=0;RPL=0,0;RPP=1883.51,854.227;RPPR=0;RPR=866,392;RUN=1,1;SAF=866,392;SAP=1883.51,854.227;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71,0:0:0:71,0:2544,0:-229.148,-21.3731,0,-229.148,-21.3731,-229.148 1/1:51:0,50,0:0:0:50,0:1769,0:-159.229,-15.0515,0,-159.229,-15.0515,-159.229 1/2:27:0,11,16:0:0:11,16:396,569:-79.0309,-46.7175,-43.4062,-32.6714,0,-27.8549 1/1:54:0,54,0:0:0:54,0:1924,0:-173.3,-16.2556,0,-173.3,-16.2556,-173.3 1/1:69:0,69,0:0:0:69,0:2457,0:-221.102,-20.7711,0,-221.102,-20.7711,-221.102 1/2:43:0,17,25:0:0:17,25:604,885:-121.317,-72.0999,-66.9824,-49.3139,0,-41.7882 1/2:161:0,83,78:0:0:83,78:2961,2740:-464.397,-223.025,-198.039,-241.725,0,-218.245 1/2:62:0,28,33:0:0:28,33:1008,1179:-178.328,-96.083,-87.6542,-82.2664,0,-72.3324 1/2:122:0,66,56:0:0:66,56:2345,1952:-350.058,-158.973,-139.106,-191.436,0,-174.578 1/2:17:0,6,11:0:0:6,11:216,379:-48.729,-31.0989,-29.2927,-17.9843,0,-14.673 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:24:0,8,16:0:0:8,16:288,564:-69.7251,-46.2232,-43.8149,-23.8592,0,-19.0427 1/1:54:0,54,0:0:0:54,0:1936,0:-174.51,-16.2556,0,-174.51,-16.2556,-174.51 1/1:68:0,68,0:0:0:68,0:2432,0:-218.891,-20.47,0,-218.891,-20.47,-218.891 1/2:67:0,28,39:0:0:28,39:992,1373:-192.916,-112.108,-103.679,-81.1614,0,-69.4212 1/2:47:0,26,21:0:0:26,21:928,751:-137.242,-61.5891,-53.7623,-76.0097,0,-69.688 1/2:26:0,12,14:0:0:12,14:432,493:-75.7398,-40.4881,-36.8757,-35.6079,0,-31.3935 1/2:133:0,67,66:0:0:67,66:2374,2351:-385.058,-191.686,-171.517,-193.728,0,-173.86 1/2:57:0,40,17:0:0:40,17:1436,602:-166.521,-49.3819,-37.3407,-117.494,0,-112.377 1/1:49:0,49,0:0:0:49,0:1748,0:-157.584,-14.7505,0,-157.584,-14.7505,-157.584 1/1:49:0,49,0:0:0:49,0:1744,0:-157.236,-14.7505,0,-157.236,-14.7505,-157.236 chr06 3899413 . TCG TTA,CCA 27172 PASS AB=0.530641,0.462396;ABP=8.86541,11.8293;AC=30,12;AF=0.714286,0.285714;AN=42;AO=989,337;CIGAR=1M2X,1X1M1X;DP=1333;DPB=1332.67;DPRA=0,1.23633;EPP=2133.26,726.136;EPPR=0;GTI=0;LEN=2,3;MEANALT=1.95238,2.38462;MQM=59.8008,59.905;MQMR=0;NS=21;NUMALT=2;ODDS=6.68071;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34442,11622;QR=0;RO=0;RPL=987,336;RPP=2133.26,726.136;RPPR=0;RPR=2,1;RUN=1,1;SAF=0,0;SAP=2150.6,734.797;SAR=989,337;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,47,0:0:0:47,0:1609,0:-144.899,-14.1484,0,-144.899,-14.1484,-144.899 1/1:40:0,40,0:0:0:40,0:1365,0:-123.14,-12.0412,0,-123.14,-12.0412,-123.14 1/2:81:0,40,40:0:0:40,40:1406,1405:-228.876,-114.432,-102.391,-114.522,0,-102.481 1/1:44:0,42,0:0:0:42,0:1485,0:-133.651,-12.6433,0,-133.651,-12.6433,-133.651 1/1:172:0,167,5:0:0:167,5:5826,180:-522.741,-50.272,0,-508.054,-35.2251,-506.549 1/2:27:0,17,10:0:0:17,10:595,320:-74.5271,-26.099,-20.9815,-48.7591,0,-45.7488 1/2:91:0,55,36:0:0:55,36:1932,1238:-258.132,-100.881,-84.3248,-157.597,0,-146.76 1/2:110:0,48,61:0:0:48,61:1668,2152:-310.88,-175.312,-160.862,-135.646,0,-117.284 1/2:97:0,50,47:0:0:50,47:1732,1639:-274.4,-133.645,-118.593,-141.102,0,-126.954 1/2:13:0,8,4:0:0:8,4:286,140:-34.829,-11.4893,-9.0811,-23.436,0,-22.2319 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:39:0,12,26:0:0:12,26:417,846:-102.156,-68.2482,-64.6358,-33.8895,0,-26.0628 1/1:89:0,89,0:0:0:89,0:3085,0:-277.88,-26.7917,0,-277.88,-26.7917,-277.88 1/1:77:0,77,0:0:0:77,0:2700,0:-243.242,-23.1793,0,-243.242,-23.1793,-243.242 1/2:98:0,53,44:0:0:53,44:1817,1546:-273.329,-125.826,-109.871,-147.492,0,-134.246 1/2:12:0,6,6:0:0:6,6:216,191:-33.3414,-15.6961,-13.8899,-17.9843,0,-16.1782 1/2:18:0,11,7:0:0:11,7:359,234:-48.2604,-19.2782,-15.9668,-29.3133,0,-27.2061 1/2:91:0,50,41:0:0:50,41:1766,1387:-256.601,-112.776,-97.725,-144.17,0,-131.827 1/2:41:0,31,10:0:0:31,10:1078,344:-115.926,-28.2795,-18.9476,-87.9912,0,-84.9809 1/1:96:0,96,0:0:0:96,0:3339,0:-299.339,-28.8989,0,-299.339,-28.8989,-299.339 1/1:46:0,46,0:0:0:46,0:1617,0:-145.817,-13.8474,0,-145.817,-13.8474,-145.817 chr06 3908868 . AATG GATG,GATA 56543.4 PASS AB=0.531365,0.464945;ABP=16.9045,20.3661;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1925,764;CIGAR=1X3M,1X2M1X;DP=2697;DPB=2697;DPRA=0,1.67038;EPP=4183.09,1662.02;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.19048,2.35294;MQM=59.8868,55.3757;MQMR=0;NS=21;NUMALT=2;ODDS=16.3563;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68744,27031;QR=0;RO=0;RPL=0,0;RPP=4183.09,1662.02;RPPR=0;RPR=1925,764;RUN=1,1;SAF=1925,764;SAP=4183.09,1662.02;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,110,2:0:0:110,2:3940,72:-354.404,-33.1133,0,-348.532,-26.8819,-347.93 1/1:151:0,151,0:0:0:151,0:5417,0:-487.648,-45.4555,0,-487.648,-45.4555,-487.648 1/2:164:0,89,74:0:0:89,74:3192,2639:-474.368,-214.013,-187.221,-260.431,0,-238.154 1/1:142:0,141,1:0:0:141,1:5008,36:-450.504,-42.4452,0,-447.567,-39.148,-447.266 1/1:244:0,243,1:0:0:243,1:8671,36:-779.788,-73.1503,0,-776.85,-69.853,-776.549 1/2:72:0,37,35:0:0:37,35:1313,1223:-206.35,-99.378,-88.2399,-107.323,0,-96.7874 1/2:209:0,112,96:0:0:112,96:4013,3381:-599.966,-272.875,-239.16,-327.123,0,-298.224 1/2:139:0,86,53:0:0:86,53:3084,1883:-404.196,-152.652,-126.764,-251.899,0,-235.945 1/2:247:0,135,112:0:0:135,112:4810,3946:-713.091,-321.029,-280.39,-392.415,0,-358.7 1/2:21:0,8,13:0:0:8,13:288,468:-61.982,-38.4825,-36.0742,-23.8592,0,-19.9458 1/1:14:0,13,0:0:0:13,0:468,0:-42.1091,-3.91339,0,-42.1091,-3.91339,-42.1091 1/2:32:0,13,19:0:0:13,19:468,683:-94.1816,-55.9947,-52.0814,-38.5463,0,-32.8267 1/1:137:0,136,1:0:0:136,1:4850,36:-436.292,-40.9401,0,-433.357,-37.6445,-433.055 1/1:136:0,135,0:0:0:135,0:4774,0:-429.08,-40.6391,0,-429.08,-40.6391,-429.08 1/2:393:0,209,183:0:0:209,183:7454,6479:-1134.25,-526.632,-463.717,-607.611,0,-552.522 1/2:112:0,59,52:0:0:59,52:2120,1856:-323.609,-150.659,-132.898,-173.074,0,-157.42 1/2:116:0,50,65:0:0:50,65:1777,2277:-330.045,-185.238,-170.186,-144.868,0,-125.301 1/2:90:0,48,41:0:0:48,41:1728,1452:-258.946,-117.946,-103.497,-141.045,0,-128.703 1/2:31:0,18,13:0:0:18,13:648,456:-89.7816,-36.9,-31.4815,-53.2333,0,-49.32 1/1:103:0,100,3:0:0:100,3:3573,108:-321.417,-30.103,0,-312.618,-20.9452,-311.715 1/1:32:0,32,0:0:0:32,0:1148,0:-103.543,-9.63296,0,-103.543,-9.63296,-103.543 chr06 3908893 . TTTTCC ATTTCT,AATTCT 57367.6 PASS AB=0.527094,0.46798;ABP=13.3649,17.4725;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1884,768;CIGAR=1X4M1X,2X3M1X;DP=2669;DPB=2669;DPRA=0,1.13391;EPP=3795.71,1518.02;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.52381,2.66667;MQM=59.9278,55.474;MQMR=0;NS=21;NUMALT=2;ODDS=14.6462;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66822,27009;QR=0;RO=0;RPL=35,18;RPP=3795.71,1518.02;RPPR=0;RPR=1849,750;RUN=1,1;SAF=1884,768;SAP=4094.06,1670.7;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,106,3:0:0:106,3:3772,99:-339.36,-31.9092,0,-331.363,-23.8751,-330.46 1/1:145:0,145,0:0:0:145,0:5098,0:-458.955,-43.6494,0,-458.955,-43.6494,-458.955 1/2:165:0,90,75:0:0:90,75:3206,2674:-478.919,-217.607,-190.515,-261.668,0,-239.09 1/1:135:0,135,0:0:0:135,0:4755,0:-428.108,-40.6391,0,-428.108,-40.6391,-428.108 1/1:238:0,233,0:0:0:233,0:8235,0:-740.869,-70.14,0,-740.869,-70.14,-740.869 1/2:72:0,37,34:0:0:37,34:1288,1194:-201.435,-96.7831,-85.645,-104.693,0,-94.4582 1/2:208:0,111,96:0:0:111,96:3980,3352:-594.666,-270.051,-236.636,-324.608,0,-295.709 1/2:137:0,84,51:0:0:84,51:3011,1813:-393.056,-147.477,-122.19,-245.656,0,-230.303 1/2:248:0,134,112:0:0:134,112:4760,3909:-705.707,-317.841,-277.503,-387.922,0,-354.206 1/2:21:0,8,13:0:0:8,13:288,467:-61.8928,-38.393,-35.9847,-23.8592,0,-19.9458 1/1:13:0,13,0:0:0:13,0:464,0:-42.0975,-3.91339,0,-42.0975,-3.91339,-42.0975 1/2:34:0,13,21:0:0:13,21:453,744:-97.7168,-60.881,-56.9676,-37.1862,0,-30.8646 1/1:135:0,134,1:0:0:134,1:4727,36:-424.958,-40.338,0,-422.023,-37.0425,-421.721 1/1:132:0,131,0:0:0:131,0:4660,0:-419.247,-39.4349,0,-419.247,-39.4349,-419.247 1/2:393:0,208,185:0:0:208,185:7410,6524:-1134.34,-530.38,-467.765,-604.318,0,-548.628 1/2:111:0,59,52:0:0:59,52:2092,1825:-318.546,-148.11,-130.35,-170.787,0,-155.133 1/2:113:0,46,67:0:0:46,67:1648,2332:-324.314,-189.907,-176.059,-134.761,0,-114.592 1/2:91:0,48,42:0:0:48,42:1696,1486:-258.779,-120.658,-106.209,-138.114,0,-125.471 1/2:31:0,18,12:0:0:18,12:633,422:-85.8212,-34.2921,-28.8736,-51.5971,0,-47.9847 1/1:104:0,99,4:0:0:99,4:3532,132:-317.767,-29.802,0,-307.111,-19.1129,-305.907 1/1:33:0,32,0:0:0:32,0:1114,0:-100.322,-9.63296,0,-100.322,-9.63296,-100.322 chr06 3934017 . C T 14556.8 PASS AB=0.515077;ABP=5.43308;AC=12;AF=0.285714;AN=42;AO=637;CIGAR=1X;DP=2290;DPB=2290;DPRA=1.03898;EPP=3.09552;EPPR=141.933;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.8163;MQMR=59.9649;NS=21;NUMALT=1;ODDS=23.924;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22701;QR=58518;RO=1651;RPL=4;RPP=1351.71;RPPR=3544.81;RPR=633;RUN=1;SAF=325;SAP=3.5864;SAR=312;SRF=993;SRP=150.614;SRR=658;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:124,0:124:4385:0:0:0,-37.3277,-394.824 0/0:103:103,0:103:3670:0:0:0,-31.0061,-330.314 0/1:64:28,36:28:999:36:1281:-96.3226,0,-70.9586 0/0:109:109,0:109:3872:0:0:0,-32.8123,-348.653 0/0:191:187,4:187:6623:4:144:0,-44.1831,-582.839 0/1:85:39,46:39:1366:46:1639:-122.182,0,-97.6469 0/1:140:62,78:62:2186:78:2775:-207.837,0,-154.859 0/1:130:67,62:67:2391:62:2220:-161.013,0,-176.402 0/1:117:52,64:52:1847:64:2283:-169.002,0,-131.23 0/1:21:12,9:12:419:9:320:-22.8207,0,-31.721 0/0:23:23,0:23:807:0:0:0,-6.92369,-72.9492 0/1:47:33,14:33:1156:14:496:-30.8243,0,-90.1952 0/0:117:117,0:117:4162:0:0:0,-35.2205,-374.764 0/0:128:127,1:127:4494:1:36:0,-34.9336,-401.032 0/1:169:79,90:79:2793:90:3194:-236.808,0,-200.736 0/1:73:24,49:24:864:49:1756:-136.349,0,-55.9169 0/1:49:23,26:23:820:26:919:-68.2186,0,-59.372 0/1:202:91,111:91:3209:111:3950:-294.883,0,-228.227 0/1:130:83,47:83:2938:47:1688:-113.071,0,-225.519 0/0:112:112,0:112:3986:0:0:0,-33.7154,-358.931 0/0:156:156,0:156:5531:0:0:0,-46.9607,-497.919 chr06 3934045 . CGA AGA,AGG 62482.3 PASS AB=0.479773,0.51699;ABP=7.40244,6.10939;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1658,646;CIGAR=1X2M,1X1M1X;DP=2310;DPB=2311;DPRA=0,1.20086;EPP=138.805,3.66914;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.04762,2.3125;MQM=59.9777,59.7972;MQMR=0;NS=21;NUMALT=2;ODDS=23.6011;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=0;QA=59213,22604;QR=0;RO=0;RPL=1652,644;RPP=3551.38,1388.46;RPPR=0;RPR=6,2;RUN=1,1;SAF=984,328;SAP=128.872,3.34644;SAR=674,318;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,124,0:0:0:124,0:4415,0:-397.524,-37.3277,0,-397.524,-37.3277,-397.524 1/1:103:0,103,0:0:0:103,0:3684,0:-331.514,-31.0061,0,-331.514,-31.0061,-331.514 1/2:66:0,28,38:0:0:28,38:1004,1340:-191.348,-109.457,-101.028,-82.247,0,-70.8079 1/1:110:0,110,0:0:0:110,0:3936,0:-354.423,-33.1133,0,-354.423,-33.1133,-354.423 1/1:198:0,194,4:0:0:194,4:6939,144:-624.216,-58.3998,0,-612.467,-46.2903,-611.262 1/2:85:0,39,46:0:0:39,46:1376,1603:-242.749,-130.704,-118.964,-112.396,0,-98.5484 1/2:143:0,63,80:0:0:63,80:2264,2777:-410.731,-226.028,-207.063,-184.998,0,-160.916 1/2:128:0,65,61:0:0:65,61:2320,2118:-361.332,-172.19,-152.623,-189.163,0,-170.8 1/2:119:0,54,65:0:0:54,65:1921,2274:-341.483,-184.926,-168.671,-156.909,0,-137.343 1/2:21:0,12,9:0:0:12,9:424,312:-60.2404,-25.7057,-22.0934,-34.8841,0,-32.1748 1/1:23:0,23,0:0:0:23,0:828,0:-74.8441,-6.92369,0,-74.8441,-6.92369,-74.8441 1/2:46:0,33,13:0:0:33,13:1184,457:-134.129,-37.5482,-27.6142,-96.9343,0,-93.0209 1/1:117:0,116,0:0:0:116,0:4164,0:-374.691,-34.9195,0,-374.691,-34.9195,-374.691 1/1:126:0,125,1:0:0:125,1:4476,36:-402.65,-37.6288,0,-399.712,-34.3315,-399.411 1/2:172:0,80,92:0:0:80,92:2859,3218:-495.203,-262.092,-238.01,-233.464,0,-205.769 1/2:74:0,24,49:0:0:24,49:856,1724:-210.144,-140.362,-133.138,-69.8054,0,-55.0549 1/2:50:0,23,26:0:0:23,26:824,893:-139.825,-72.6148,-65.6911,-67.3243,0,-59.4975 1/2:204:0,91,113:0:0:91,113:3235,3991:-588.987,-325.365,-297.971,-263.976,0,-229.96 1/2:128:0,81,47:0:0:81,47:2854,1647:-366.726,-134.364,-109.98,-232.713,0,-218.565 1/1:115:0,114,1:0:0:114,1:4071,36:-366.217,-34.3174,0,-363.28,-31.0202,-362.979 1/1:158:0,156,1:0:0:156,1:5579,34:-501.883,-46.9607,0,-499.125,-44.2127,-498.824 chr06 3939530 . A G 41274.3 PASS AB=0.506182;ABP=3.4667;AC=30;AF=0.714286;AN=42;AO=1997;CIGAR=1X;DP=2680;DPB=2680;DPRA=0;EPP=4339.44;EPPR=1483.95;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.995;MQMR=60;NS=21;NUMALT=1;ODDS=22.268;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70820;QR=24437;RO=682;RPL=0;RPP=4339.44;RPPR=1483.95;RPR=1997;RUN=1;SAF=0;SAP=4339.44;SAR=1997;SRF=0;SRP=1483.95;SRR=682;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:175:0,175:0:0:175:6143:-552.97,-52.6803,0 1/1:86:1,85:1:36:85:3020:-268.431,-22.2903,0 0/1:115:55,60:55:1980:60:2133:-157.618,0,-143.856 1/1:134:1,133:1:36:133:4722:-421.542,-36.7397,0 1/1:247:0,247:0:0:247:8735:-786.145,-74.3544,0 0/1:77:40,37:40:1436:37:1298:-93.9378,0,-106.358 0/1:166:92,73:92:3288:73:2574:-181.877,0,-246.11 0/1:178:102,76:102:3647:76:2695:-189.21,0,-274.851 0/1:229:114,115:114:4088:115:4071:-297.639,0,-299.169 0/1:25:19,6:19:684:6:212:-11.899,0,-54.3646 1/1:9:0,9:0:0:9:316:-28.7789,-2.70927,0 0/1:37:19,18:19:684:18:640:-46.7912,0,-50.7522 1/1:276:2,274:2:72:274:9727:-868.547,-76.2476,0 1/1:140:0,140:0:0:140:5032:-453.024,-42.1442,0 0/1:195:88,107:88:3151:107:3828:-286.014,0,-225.114 0/1:65:19,46:19:684:46:1648:-129.042,0,-42.3234 0/1:46:26,20:26:932:20:688:-48.3902,0,-70.3515 0/1:148:72,76:72:2571:76:2675:-196.44,0,-187.087 0/1:94:32,62:32:1148:62:2209:-170.777,0,-75.333 1/1:174:0,174:0:0:174:6209:-558.905,-52.3792,0 1/1:64:0,64:0:0:64:2245:-202.311,-19.2659,0 chr06 4007868 . G A 6130.83 PASS AB=0.489104;ABP=3.86206;AC=13;AF=0.309524;AN=42;AO=409;CIGAR=1X;DP=1582;DPB=1582;DPRA=1.10368;EPP=891.143;EPPR=2550.15;GTI=1;LEN=1;MEANALT=1;MQM=40.423;MQMR=42.711;NS=21;NUMALT=1;ODDS=5.45804;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14544;QR=41693;RO=1173;RPL=409;RPP=891.143;RPPR=2550.15;RPR=0;RUN=1;SAF=409;SAP=891.143;SAR=0;SRF=1173;SRP=2550.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:75,0:75:2666:0:0:0,-22.5772,-235.028 0/0:59:58,1:58:2057:1:36:0,-14.2801,-178.028 0/1:44:21,23:21:756:23:816:-57.5177,0,-53.497 0/0:106:106,0:106:3765:0:0:0,-31.9092,-331.532 0/0:204:202,2:202:7179:2:72:0,-54.8466,-622.511 0/1:78:38,40:38:1341:40:1440:-102.089,0,-93.9648 0/1:147:60,87:60:2135:87:3093:-224.673,0,-144.114 0/1:52:27,25:27:968:25:896:-62.6257,0,-69.9025 0/1:114:57,57:57:2043:57:2013:-140.366,0,-145.074 0/1:7:4,3:4:140:3:108:-7.63874,0,-10.6183 0/1:4:3,1:3:99:1:36:-2.27658,0,-7.87839 0/1:31:17,14:17:595:14:504:-34.8729,0,-43.4234 0/0:114:113,1:113:4018:1:36:0,-30.8629,-348.612 0/0:57:57,0:57:2030:0:0:0,-17.1587,-178.944 0/1:105:57,48:57:2035:48:1716:-116.116,0,-147.046 0/1:67:34,33:34:1216:33:1175:-81.9296,0,-86.9857 0/1:70:45,25:45:1608:25:892:-56.5407,0,-120.075 0/1:67:35,32:35:1243:32:1121:-77.8314,0,-89.4675 0/1:40:24,16:24:834:16:554:-36.2199,0,-61.812 0/0:101:100,1:100:3557:1:36:0,-26.9233,-308.397 0/0:40:40,0:40:1408:0:0:0,-12.0412,-123.594 chr06 4007996 . 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T C 67171.8 PASS AB=0.540515;ABP=32.9224;AC=30;AF=0.714286;AN=42;AO=2597;CIGAR=1X;DP=3567;DPB=3567;DPRA=0;EPP=5642.32;EPPR=2100.66;GTI=0;LEN=1;MEANALT=1;MQM=59.953;MQMR=59.9907;NS=21;NUMALT=1;ODDS=19.0235;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=92241;QR=34601;RO=970;RPL=1738;RPP=649.051;RPPR=286.725;RPR=859;RUN=1;SAF=1738;SAP=649.051;SAR=859;SRF=662;SRP=283.547;SRR=308;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:175:2,173:2:72:173:6120:-544.028,-45.8435,0 1/1:198:0,198:0:0:198:6997:-629.799,-59.6039,0 0/1:183:94,89:94:3367:89:3151:-228.681,0,-248.146 1/1:252:1,251:1:36:251:8921:-799.279,-72.2613,0 1/1:323:3,320:3:108:320:11360:-1012.21,-87.1575,0 0/1:64:32,32:32:1144:32:1136:-83.2805,0,-84.0036 0/1:186:113,73:113:4014:73:2607:-178.886,0,-305.459 0/1:225:113,112:113:4021:112:3987:-291.288,0,-294.347 0/1:343:143,200:143:5112:200:7138:-539.225,0,-356.97 0/1:27:17,10:17:608:10:360:-24.6165,0,-46.9242 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:98:65,33:65:2299:33:1184:-77.3674,0,-177.671 1/1:151:0,151:0:0:151:5356:-482.114,-45.4555,0 1/1:203:0,203:0:0:203:7201:-648.148,-61.1091,0 0/1:362:154,208:154:5473:208:7406:-557.609,0,-383.725 0/1:105:41,64:41:1468:64:2247:-170.878,0,-100.808 0/1:142:39,103:39:1400:103:3708:-291.173,0,-83.5529 0/1:239:105,134:105:3755:134:4747:-355.444,0,-266.203 0/1:124:48,76:48:1724:76:2701:-206.005,0,-118.118 1/1:117:0,117:0:0:117:4139:-372.689,-35.2205,0 1/1:42:0,42:0:0:42:1487:-134.124,-12.6433,0 chr06 4157527 . T G 11015.7 PASS AB=0.417771;ABP=78.3619;AC=12;AF=0.285714;AN=42;AO=538;CIGAR=1X;DP=1957;DPB=1957;DPRA=1.63181;EPP=1136.78;EPPR=3023.83;GTI=0;LEN=1;MEANALT=1;MQM=59.9833;MQMR=59.9979;NS=21;NUMALT=1;ODDS=17.5047;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19132;QR=50810;RO=1419;RPL=141;RPP=267.526;RPPR=1404.52;RPR=397;RUN=1;SAF=137;SAP=284.317;SAR=401;SRF=224;SRP=1445.82;SRR=1195;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:73,0:73:2620:0:0:0,-21.9752,-236.047 0/0:136:136,0:136:4888:0:0:0,-40.9401,-440.07 0/1:77:40,37:40:1436:37:1304:-94.478,0,-106.358 0/0:75:74,1:74:2648:1:36:0,-18.979,-234.968 0/0:140:139,1:139:4975:1:36:0,-38.5459,-444.3 0/1:81:46,35:46:1652:35:1241:-87.6091,0,-124.585 0/1:118:62,56:62:2223:56:2008:-145.472,0,-164.812 0/1:44:28,16:28:1000:16:564:-37.845,0,-77.0701 0/1:338:200,138:200:7156:138:4935:-342.552,0,-542.349 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:25:14,11:14:504:11:383:-27.2775,0,-38.1723 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.587 0/0:62:62,0:62:2232:0:0:0,-18.6639,-201.144 0/1:119:57,62:57:2033:62:2220:-164.241,0,-147.418 0/1:103:62,41:62:2216:41:1460:-100.69,0,-168.698 0/1:140:103,37:103:3692:37:1304:-75.5172,0,-290.337 0/1:146:81,65:81:2880:65:2282:-161.69,0,-215.485 0/1:80:49,31:49:1756:31:1107:-75.8578,0,-134.242 0/0:50:50,0:50:1780:0:0:0,-15.0515,-160.483 0/0:64:64,0:64:2287:0:0:0,-19.2659,-206.091 chr06 4170434 . C T 68112 PASS AB=0.553285;ABP=36.7965;AC=30;AF=0.714286;AN=42;AO=2423;CIGAR=1X;DP=3049;DPB=3049;DPRA=0;EPP=401.716;EPPR=98.5967;GTI=0;LEN=1;MEANALT=1;MQM=59.9781;MQMR=59.9984;NS=21;NUMALT=1;ODDS=16.1756;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=86244;QR=22079;RO=626;RPL=225;RPP=3491.64;RPPR=775.805;RPR=2198;RUN=1;SAF=1103;SAP=45.2111;SAR=1320;SRF=307;SRP=3.50981;SRR=319;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:222:3,219:3:108:219:7827:-694.382,-56.7535,0 1/1:149:0,149:0:0:149:5284:-475.699,-44.8535,0 0/1:100:50,50:50:1766:50:1777:-130.107,0,-129.119 1/1:161:0,161:0:0:161:5732:-516,-48.4658,0 1/1:412:6,406:6:216:406:14457:-1281.1,-104.234,0 0/1:102:55,47:55:1936:47:1688:-121.502,0,-143.809 0/1:227:88,139:88:3110:139:4963:-378.486,0,-211.795 0/1:101:56,45:56:1973:45:1603:-114.155,0,-147.439 0/1:168:65,103:65:2282:103:3637:-276.96,0,-155.067 0/1:17:8,9:8:288:9:324:-24.3883,0,-21.1499 1/1:6:0,6:0:0:6:207:-18.9669,-1.80618,0 0/1:30:19,11:19:663:11:396:-26.9518,0,-50.9626 1/1:201:0,201:0:0:201:7175:-645.808,-60.507,0 1/1:176:0,176:0:0:176:6275:-564.842,-52.9813,0 0/1:190:85,105:85:3009:105:3710:-276.906,0,-213.846 0/1:100:45,55:45:1577:55:1951:-145.761,0,-112.115 0/1:117:52,65:52:1828:65:2306:-172.58,0,-129.578 0/1:100:48,52:48:1684:52:1831:-134.967,0,-121.741 0/1:118:41,77:41:1459:77:2742:-211.5,0,-96.0837 1/1:255:4,251:4:144:251:8927:-790.103,-63.449,0 1/1:97:1,96:1:36:96:3432:-305.485,-25.6016,0 chr06 4170443 . ACCA ACCG,CCCG 81086.6 PASS AB=0.541636,0.451846;ABP=23.8052,30.8243;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2394,637;CIGAR=3M1X,1X2M1X;DP=3050;DPB=3049.75;DPRA=0,1.15612;EPP=5201.52,1386.24;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.52381,2.8;MQM=59.9645,59.9984;MQMR=60;NS=21;NUMALT=2;ODDS=26.9064;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84028,21898;QR=32;RO=1;RPL=1076,310;RPP=56.1306,3.99547;RPPR=5.18177;RPR=1318,327;RUN=1,1;SAF=1076,310;SAP=56.1306,3.99547;SAR=1318,327;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:221:0,216,3:0:0:216,3:7584,108:-682.247,-65.0225,0,-673.435,-56.2102,-672.532 1/1:148:1,146,0:1:32:146,0:5148,0:-459.057,-41.392,0,-459.358,-43.9504,-461.936 1/2:101:0,51,50:0:0:51,50:1762,1759:-286.696,-143.54,-128.187,-143.504,0,-128.453 1/1:158:0,157,0:0:0:157,0:5555,0:-499.875,-47.2617,0,-499.875,-47.2617,-499.875 1/1:403:0,396,6:0:0:396,6:13853,203:-1246.23,-119.208,0,-1229.77,-102.77,-1227.97 1/2:106:0,51,53:0:0:51,53:1809,1860:-298.842,-151.456,-136.104,-147.469,0,-131.514 1/2:227:0,136,88:0:0:136,88:4768,3003:-631.684,-243.683,-202.743,-388.015,0,-361.525 1/2:102:0,46,56:0:0:46,56:1620,1921:-288.196,-156.305,-142.458,-132.239,0,-115.381 1/2:170:0,102,68:0:0:102,68:3603,2335:-483.364,-189.94,-159.235,-293.771,0,-273.301 1/2:19:0,9,10:0:0:9,10:320,342:-54.184,-28.0999,-25.3906,-26.4331,0,-23.4228 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:31:0,11,20:0:0:11,20:388,679:-87.0037,-55.4055,-52.0942,-31.946,0,-25.9254 1/1:203:0,201,0:0:0:201,0:7084,0:-637.265,-60.507,0,-637.265,-60.507,-637.265 1/1:174:0,172,0:0:0:172,0:6043,0:-543.696,-51.7772,0,-543.696,-51.7772,-543.696 1/2:193:0,102,91:0:0:102,91:3583,3084:-542.023,-250.398,-219.693,-291.969,0,-264.576 1/2:100:0,52,45:0:0:52,45:1843,1562:-277.11,-126.964,-111.311,-150.136,0,-136.59 1/2:118:0,64,54:0:0:64,54:2255,1827:-332.05,-148.449,-129.183,-183.945,0,-167.689 1/2:99:0,50,49:0:0:50,49:1731,1663:-275.877,-135.203,-120.151,-141.017,0,-126.267 1/2:115:0,74,40:0:0:74,40:2614,1408:-327.496,-114.616,-92.34,-212.872,0,-200.831 1/1:261:0,257,4:0:0:257,4:8968,144:-806.731,-77.3647,0,-794.981,-65.2552,-793.777 1/1:95:0,95,0:0:0:95,0:3281,0:-295.512,-28.5979,0,-295.512,-28.5979,-295.512 chr06 4170491 . T A 28009 PASS AB=0.571805;ABP=37.0014;AC=30;AF=0.714286;AN=42;AO=1332;CIGAR=1X;DP=1666;DPB=1666;DPRA=0;EPP=2895.41;EPPR=728.282;GTI=0;LEN=1;MEANALT=1;MQM=59.9369;MQMR=60;NS=21;NUMALT=1;ODDS=23.262;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47613;QR=11772;RO=334;RPL=1332;RPP=2895.41;RPPR=728.282;RPR=0;RUN=1;SAF=0;SAP=2895.41;SAR=1332;SRF=0;SRP=728.282;SRR=334;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:1,118:1:32:118:4228:-377.494,-32.6233,0 1/1:72:0,72:0:0:72:2576:-230.9,-21.6742,0 0/1:48:18,30:18:580:30:1072:-82.3407,0,-38.0526 1/1:93:0,93:0:0:93:3320:-299.019,-27.9958,0 1/1:201:6,195:6:216:195:6954:-606.134,-40.7165,0 0/1:53:24,29:24:848:29:1036:-77.5993,0,-60.6851 0/1:137:48,89:48:1686:89:3192:-246.262,0,-110.781 0/1:47:25,22:25:881:22:788:-57.0964,0,-65.4575 0/1:124:54,70:54:1920:70:2500:-187.925,0,-135.749 0/1:13:9,4:9:324:4:144:-9.40023,0,-25.5925 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:13:9,4:9:316:4:144:-9.40023,0,-24.8655 1/1:130:1,129:1:36:129:4628:-413.084,-35.5356,0 1/1:97:0,97:0:0:97:3478:-313.228,-29.1999,0 0/1:98:38,60:38:1329:60:2156:-164.784,0,-90.4068 0/1:57:23,34:23:824:34:1216:-92.5879,0,-57.3246 0/1:60:29,31:29:1028:31:1112:-82.3295,0,-74.7712 0/1:54:28,26:28:996:26:924:-67.222,0,-73.6993 0/1:55:20,35:20:720:35:1260:-97.1488,0,-48.5721 1/1:150:1,149:1:36:149:5302:-473.687,-41.5562,0 1/1:40:0,40:0:0:40:1403:-126.564,-12.0412,0 chr06 4220045 . T C 815.759 PASS AB=0.208759;ABP=507.683;AC=12;AF=0.285714;AN=42;AO=144;CIGAR=1X;DP=1809;DPB=1809;DPRA=0.810007;EPP=315.702;EPPR=3618.51;GTI=7;LEN=1;MEANALT=1;MQM=56.4097;MQMR=59.7976;NS=21;NUMALT=1;ODDS=3.91544;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5125;QR=58528;RO=1665;RPL=0;RPP=315.702;RPPR=3618.51;RPR=144;RUN=1;SAF=0;SAP=315.702;SAR=144;SRF=0;SRP=3618.51;SRR=1665;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:186:186,0:186:6516:0:0:0,-55.9916,-586.447 0/0:111:111,0:111:3900:0:0:0,-33.4143,-351.192 0/1:42:37,5:37:1308:5:180:-3.89687,0,-105.292 0/0:117:117,0:117:4124:0:0:0,-35.2205,-371.315 0/0:343:342,1:342:12019:1:36:0,-99.6576,-1077.84 0/1:67:44,23:44:1556:23:809:-52.9511,0,-120.163 0/1:88:72,16:72:2547:16:572:-25.317,0,-202.763 0/1:31:26,5:26:924:5:180:-7.21384,0,-74.1457 0/1:153:115,38:115:4004:38:1356:-76.0302,0,-314.463 0/1:9:6,3:6:216:3:108:-7.36111,0,-17.0812 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.3372 0/1:18:14,4:14:484:4:140:-7.52113,0,-38.47 0/0:146:146,0:146:5121:0:0:0,-43.9504,-460.951 0/0:75:75,0:75:2606:0:0:0,-22.5772,-234.789 0/1:120:99,21:99:3516:21:756:-32.199,0,-280.357 0/1:46:36,10:36:1276:10:360:-18.7963,0,-101.296 0/1:50:42,8:42:1475:8:280:-10.4618,0,-117.992 0/1:29:22,7:22:768:7:240:-13.1964,0,-60.7105 0/1:32:29,3:29:1019:3:108:-0.434944,0,-82.3763 0/0:96:96,0:96:3393:0:0:0,-28.8989,-305.55 0/0:44:44,0:44:1544:0:0:0,-13.2453,-139.215 chr06 4232263 . CAG TAG,CACAATAG 36020.2 PASS AB=0.480359,0.515152;ABP=5.99577,4.78696;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1234,460;CIGAR=1X2M,1M5I2M;DP=1699;DPB=2470.67;DPRA=0,0.961596;EPP=2682.61,1001.89;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.85714,2.30769;MQM=59.59,50.2891;MQMR=0;NS=21;NUMALT=2;ODDS=2.34159;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44167,16134;QR=0;RO=0;RPL=0,0;RPP=2682.61,1001.89;RPPR=0;RPR=1234,460;RUN=1,1;SAF=1234,460;SAP=2682.61,1001.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:96:0,96,0:0:0:96,0:3448,0:-310.367,-28.8989,0,-310.367,-28.8989,-310.367 1/1:43:0,43,0:0:0:43,0:1548,0:-139.605,-12.9443,0,-139.605,-12.9443,-139.605 1/2:32:0,16,16:0:0:16,16:576,557:-92.2313,-45.2252,-40.4087,-47.3585,0,-42.542 1/1:99:0,99,0:0:0:99,0:3522,0:-317.175,-29.802,0,-317.175,-29.802,-317.175 1/1:211:0,210,0:0:0:210,0:7475,0:-672.296,-63.2163,0,-672.296,-63.2163,-672.296 1/2:110:0,51,59:0:0:51,59:1824,2086:-318.289,-169.563,-154.211,-149.08,0,-131.32 1/2:132:0,65,67:0:0:65,67:2336,2331:-379.945,-189.366,-169.799,-190.932,0,-170.763 1/2:94:0,35,59:0:0:35,59:1256,2078:-271.389,-168.964,-158.428,-102.781,0,-85.0201 1/2:140:0,70,69:0:0:70,69:2486,2396:-395.907,-193.383,-172.311,-202.663,0,-181.892 1/2:4:0,2,2:0:0:2,2:72,57:-10.6832,-4.79969,-4.19763,-6.20477,0,-5.60271 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:19:0,13,6:0:0:13,6:468,201:-54.7322,-16.5565,-12.6431,-38.5177,0,-36.7115 1/1:145:0,144,1:0:0:144,1:5164,36:-464.266,-43.3483,0,-461.342,-40.0663,-461.041 1/1:111:0,111,0:0:0:111,0:3975,0:-357.933,-33.4143,0,-357.933,-33.4143,-357.933 1/2:105:0,47,57:0:0:47,57:1692,1983:-297.988,-159.929,-145.781,-138.053,0,-120.894 1/2:59:0,16,43:0:0:16,43:561,1521:-168.899,-123.406,-118.59,-45.8423,0,-32.8981 1/2:68:0,32,35:0:0:32,35:1152,1256:-195.782,-101.799,-92.1664,-93.9841,0,-83.448 1/2:76:0,41,34:0:0:41,34:1472,1204:-217.705,-97.8982,-85.556,-119.946,0,-109.711 1/2:52:0,40,12:0:0:40,12:1432,428:-151.656,-34.8736,-22.8324,-117.136,0,-113.524 1/1:64:0,64,0:0:0:64,0:2304,0:-207.507,-19.2659,0,-207.507,-19.2659,-207.507 1/1:34:0,34,0:0:0:34,0:1224,0:-110.269,-10.235,0,-110.269,-10.235,-110.269 chr06 4232303 . CTGCCG CTACGCCT,CTATGCCT 34245.5 PASS AB=0.491991,0.498856;ABP=3.49727,3.02024;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1238,439;CIGAR=2M2I3M1X,1M2I4M1X;DP=1697;DPB=2262.5;DPRA=0,1.06609;EPP=2691.29,956.287;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.61905,3;MQM=59.5654,50.139;MQMR=0;NS=21;NUMALT=2;ODDS=3.54208;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=0,0;PQR=0;PRO=0.333333;QA=42857,15301;QR=0;RO=0;RPL=1238,439;RPP=2691.29,956.287;RPPR=0;RPR=0,0;RUN=1,1;SAF=1238,439;SAP=2691.29,956.287;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,97,0:0:0:97,0:3372,0:-303.208,-29.1999,0,-303.208,-29.1999,-303.208 1/1:44:0,43,0:0:0:43,0:1460,0:-131.385,-12.9443,0,-131.385,-12.9443,-131.385 1/2:30:0,16,14:0:0:16,14:572,489:-86.3754,-39.7296,-34.9131,-46.9971,0,-42.7827 1/1:100:0,98,1:0:0:98,1:3374,36:-303.511,-29.5009,0,-300.574,-26.5635,-300.273 1/1:214:0,212,0:0:0:212,0:7332,0:-659.721,-63.8184,0,-659.721,-63.8184,-659.721 1/2:104:0,50,52:0:0:50,52:1728,1818:-287.726,-147.327,-132.276,-140.457,0,-124.803 1/2:128:0,64,64:0:0:64,64:2221,2239:-362.528,-181.986,-162.72,-180.89,0,-161.624 1/2:94:0,36,57:0:0:36,57:1258,1993:-263.913,-161.6,-150.763,-102.303,0,-85.1446 1/2:134:0,68,64:0:0:68,64:2359,2186:-367.566,-175.839,-155.369,-191.769,0,-172.503 1/2:4:0,2,2:0:0:2,2:72,72:-12.0586,-6.21226,-5.6102,-6.20477,0,-5.60271 1/1:5:0,5,0:0:0:5,0:174,0:-16.0015,-1.50515,0,-16.0015,-1.50515,-16.0015 1/2:18:0,13,5:0:0:13,5:454,180:-51.8871,-14.9927,-11.0793,-37.2504,0,-35.7452 1/1:146:0,140,1:0:0:140,1:4856,36:-436.744,-42.1442,0,-433.82,-39.2137,-433.519 1/1:114:0,112,1:0:0:112,1:3866,36:-347.826,-33.7154,0,-344.889,-30.733,-344.588 1/2:104:0,51,53:0:0:51,53:1766,1865:-294.404,-150.903,-135.551,-143.848,0,-127.894 1/2:59:0,15,43:0:0:15,43:521,1516:-165.106,-122.858,-118.342,-42.3304,0,-29.3861 1/2:72:0,33,37:0:0:33,37:1146,1287:-197.222,-104.067,-94.1327,-93.1529,0,-82.0148 1/2:75:0,42,33:0:0:42,33:1440,1129:-208.515,-91.6861,-79.0429,-117.17,0,-107.236 1/2:52:0,40,12:0:0:40,12:1395,419:-147.53,-34.0695,-22.0283,-113.806,0,-110.194 1/1:67:0,67,0:0:0:67,0:2308,0:-207.857,-20.169,0,-207.857,-20.169,-207.857 1/1:35:0,34,0:0:0:34,0:1183,0:-106.253,-10.235,0,-106.253,-10.235,-106.253 chr06 4248621 . ATGCT GTGCT 23816.5 PASS AB=0.509232;ABP=3.77211;AC=30;AF=0.714286;AN=42;AO=1168;CIGAR=1X4M;DP=1681;DPB=1682.8;DPRA=0;EPP=2539.29;EPPR=1097.43;GTI=0;LEN=1;MEANALT=1.33333;MQM=59.9752;MQMR=60;NS=21;NUMALT=1;ODDS=6.17164;PAIRED=0;PAIREDR=0;PAO=3.5;PQA=113;PQR=0;PRO=0;QA=41856;QR=17913;RO=504;RPL=1168;RPP=2539.29;RPPR=1097.43;RPR=0;RUN=1;SAF=0;SAP=2539.29;SAR=1168;SRF=0;SRP=1097.43;SRR=504;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59:0:0:59:2112:-190.29,-17.7608,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:127:69,58:69:2463:58:2088:-149.959,0,-183.694 1/1:57:0,54:0:0:54:1944:-174.857,-16.2556,0 1/1:164:2,162:2:67:162:5779:-513.858,-43.0061,0 0/1:59:29,29:29:1035:29:1044:-76.4745,0,-75.6635 0/1:106:56,50:56:1985:50:1792:-129.594,0,-146.956 0/1:106:62,44:62:2188:44:1584:-110.942,0,-165.278 0/1:134:65,68:65:2321:68:2436:-178.772,0,-168.698 0/1:16:6,10:6:213:10:360:-27.9278,0,-14.6998 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:17:4,13:4:140:13:468:-37.3421,0,-7.82707 1/1:95:0,93:0:0:93:3336:-300.068,-27.9958,0 1/1:110:0,110:0:0:110:3921:-353.083,-33.1133,0 0/1:163:86,77:86:3073:77:2760:-199.574,0,-227.731 0/1:43:19,24:19:676:24:864:-65.1383,0,-48.2236 0/1:24:10,14:10:358:14:496:-37.7495,0,-25.3382 0/1:144:62,81:62:2206:81:2908:-218.655,0,-155.505 0/1:90:34,56:34:1188:56:2008:-153.901,0,-80.1297 1/1:85:0,85:0:0:85:3048:-274.43,-25.5876,0 1/1:45:0,44:0:0:44:1580:-142.132,-13.2453,0 chr06 4311601 . G T 43079 PASS AB=0.490997;ABP=4.02686;AC=30;AF=0.714286;AN=42;AO=2093;CIGAR=1X;DP=2837;DPB=2837;DPRA=0;EPP=4547.9;EPPR=1614.24;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9713;MQMR=60;NS=21;NUMALT=1;ODDS=23.7327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74092;QR=26286;RO=742;RPL=2093;RPP=4547.9;RPPR=1614.24;RPR=0;RUN=1;SAF=2093;SAP=4547.9;SAR=0;SRF=742;SRP=1614.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:2,177:2:72:177:6276:-558.102,-47.0476,0 1/1:96:0,96:0:0:96:3398:-306.033,-28.8989,0 0/1:137:74,63:74:2611:63:2243:-160.892,0,-193.998 1/1:175:0,175:0:0:175:6191:-557.293,-52.6803,0 1/1:352:4,348:4:144:348:12326:-1095.82,-92.6489,0 0/1:98:58,40:58:2026:40:1440:-100.397,0,-153.108 0/1:148:81,67:81:2870:67:2372:-169.183,0,-213.985 0/1:151:91,60:91:3239:60:2114:-145.071,0,-246.277 0/1:202:86,116:86:3063:116:4077:-306.309,0,-215.091 0/1:18:11,7:11:392:7:244:-16.8809,0,-30.2015 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:38:16,22:16:559:22:784:-59.4448,0,-39.1985 1/1:212:0,210:0:0:210:7459:-670.994,-63.2163,0 1/1:163:0,163:0:0:163:5749:-517.481,-49.0679,0 0/1:184:106,78:106:3729:78:2732:-190.732,0,-280.423 0/1:136:60,76:60:2156:76:2690:-201.402,0,-153.367 0/1:132:72,60:72:2546:60:2122:-151.511,0,-189.652 0/1:90:37,53:37:1311:53:1881:-142.474,0,-91.1982 0/1:110:43,67:43:1532:67:2342:-177.922,0,-105.06 1/1:133:1,132:1:36:132:4727:-421.99,-36.4387,0 1/1:70:0,70:0:0:70:2461:-221.742,-21.0721,0 chr06 4311663 . A C 35752.8 PASS AB=0.528594;ABP=12.1996;AC=30;AF=0.714286;AN=42;AO=1730;CIGAR=1X;DP=2345;DPB=2345;DPRA=0;EPP=3759.66;EPPR=1338.47;GTI=0;LEN=1;MEANALT=1;MQM=59.9838;MQMR=59.9593;NS=21;NUMALT=1;ODDS=16.5797;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61744;QR=22062;RO=615;RPL=1730;RPP=3759.66;RPPR=1338.47;RPR=0;RUN=1;SAF=0;SAP=3759.66;SAR=1730;SRF=0;SRP=1338.47;SRR=615;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:144:1,143:1:36:143:5119:-457.254,-39.75,0 1/1:102:1,101:1:36:101:3613:-321.776,-27.1068,0 0/1:124:78,46:78:2804:46:1637:-110.289,0,-215.271 1/1:91:0,91:0:0:91:3260:-293.609,-27.3937,0 1/1:203:1,202:1:36:202:7210:-645.357,-57.5108,0 0/1:119:41,78:41:1472:78:2785:-215.022,0,-96.9536 0/1:137:67,70:67:2396:70:2478:-182.03,0,-174.645 0/1:105:53,52:53:1900:52:1856:-135.712,0,-139.614 0/1:165:75,90:75:2696:90:3206:-239.093,0,-193.214 0/1:44:23,21:23:828:21:733:-53.0443,0,-61.5988 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:25:16,9:16:576:9:324:-21.9801,0,-44.6492 1/1:172:0,172:0:0:172:6115:-550.45,-51.7772,0 1/1:142:0,142:0:0:142:5076:-456.985,-42.7463,0 0/1:244:101,143:101:3628:143:5109:-386.501,0,-253.273 0/1:43:17,26:17:608:26:928:-70.894,0,-42.1077 0/1:54:28,26:28:1004:26:932:-67.9432,0,-74.4202 0/1:131:75,56:75:2683:56:2008:-141.558,0,-202.279 0/1:103:36,67:36:1287:67:2404:-185.61,0,-85.1267 1/1:114:2,112:2:72:112:3967:-350.384,-27.4807,0 1/1:77:0,77:0:0:77:2768:-249.361,-23.1793,0 chr06 4353562 . GTTTTTCTTCA GTTTTTTTTTTTCA,GTTTTTTTTTTCA 16239.5 PASS AB=0.695538,0.149606;ABP=256.075,815.62;AC=25,17;AF=0.595238,0.404762;AN=42;AO=643,123;CIGAR=1M3I5M1X4M,1M2I5M1X4M;DP=909;DPB=1159.55;DPRA=0,3.19643;EPP=1399.27,270.101;EPPR=0;GTI=10;LEN=14,13;MEANALT=5.71429,5.8;MQM=43.7932,45.9675;MQMR=0;NS=21;NUMALT=2;ODDS=125.354;PAIRED=0,0;PAIREDR=0;PAO=3.83333,3.83333;PQA=110.167,110.167;PQR=110.167;PRO=3.83333;QA=20528,4018;QR=0;RO=0;RPL=372,66;RPP=37.4601,4.44029;RPPR=0;RPR=271,57;RUN=1,1;SAF=372,66;SAP=37.4601,4.44029;SAR=271,57;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,46,10:0:0:46,10:1606,318:-153.866,-24.6673,-10.82,-129.208,0,-126.198 1/2:50:0,36,8:0:0:36,8:1134,244:-105.706,-18.4324,-7.59531,-87.2661,0,-84.8579 1/1:14:0,11,0:0:0:11,0:363,0:-31.6927,-3.31133,0,-31.6927,-3.31133,-31.6927 1/2:54:0,37,8:0:0:37,8:1169,251:-108.107,-19.3206,-8.18247,-88.7929,0,-86.3846 1/2:115:0,85,12:0:0:85,12:2693,402:-236.742,-30.9861,-5.39853,-205.767,0,-202.155 1/2:35:0,27,4:0:0:27,4:844,125:-74.2089,-9.21294,-1.08513,-64.9776,0,-63.7735 1/2:47:0,36,5:0:0:36,5:1079,158:-92.6403,-11.6284,-0.791362,-81.0093,0,-79.5042 1/2:31:0,18,4:0:0:18,4:631,120:-59.9643,-9.0865,-3.66796,-50.8757,0,-49.6716 1/1:56:0,42,3:0:0:42,3:1351,89:-115.551,-12.6433,0,-108.842,-5.93558,-107.939 1/2:7:0,6,1:0:0:6,1:190,36:-17.7201,-3.29724,-1.49106,-14.7743,0,-14.4733 1/1:14:0,12,1:0:0:12,1:377,31:-32.6785,-3.61236,0,-30.4622,-1.43412,-30.1612 1/2:22:0,17,2:0:0:17,2:564,68:-49.4189,-5.53975,-0.422242,-43.9008,0,-43.2987 1/1:63:0,48,5:0:0:48,5:1602,175:-140.205,-14.4494,0,-126.234,-0.463066,-124.729 1/2:46:0,29,9:0:0:29,9:952,310:-98.9647,-24.8519,-16.122,-74.1126,0,-71.4034 1/2:40:0,28,7:0:0:28,7:945,236:-93.8614,-18.9097,-10.4809,-75.0045,0,-72.8973 1/2:17:0,12,3:0:0:12,3:402,104:-39.0841,-8.02392,-4.41156,-31.0848,0,-30.1817 1/2:14:0,8,2:0:0:8,2:244,72:-24.7061,-5.85441,-3.44617,-18.8589,0,-18.2568 1/2:34:0,22,7:0:0:22,7:650,228:-65.2239,-16.8237,-10.2011,-48.4306,0,-46.3234 1/2:48:0,29,13:0:0:29,13:844,452:-97.4752,-35.6753,-26.9455,-61.8175,0,-57.9041 1/2:66:0,46,7:0:0:46,7:1462,236:-130.632,-18.368,-4.52058,-112.272,0,-110.165 1/2:66:0,48,12:0:0:48,12:1426,363:-133.296,-27.6319,-13.1824,-105.661,0,-102.049 chr06 4358076 . CTG TTC,GTC 20618.8 PASS AB=0.535587,0.460854;ABP=9.19243,10.4907;AC=30,12;AF=0.714286,0.285714;AN=42;AO=630,259;CIGAR=1X1M1X,1X1M1X;DP=892;DPB=892;DPRA=0,1.27727;EPP=1371.04,565.422;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.71429,2.16667;MQM=37.4286,33.8803;MQMR=0;NS=21;NUMALT=2;ODDS=5.99669;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21850,8980;QR=0;RO=0;RPL=341,132;RPP=12.3304,3.2199;RPPR=0;RPR=289,127;RUN=1,1;SAF=341,132;SAP=12.3304,3.2199;SAR=289,127;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39,0:0:0:39,0:1327,0:-111.633,-11.7402,0,-111.633,-11.7402,-111.633 1/1:32:0,32,0:0:0:32,0:1137,0:-95.6029,-9.63296,0,-95.6029,-9.63296,-95.6029 1/2:14:0,9,5:0:0:9,5:313,172:-34.3197,-10.6809,-7.97167,-23.9251,0,-22.4199 1/1:30:0,30,0:0:0:30,0:1035,0:-87.7514,-9.0309,0,-87.7514,-9.0309,-87.7514 1/1:51:0,51,0:0:0:51,0:1773,0:-147.224,-15.3525,0,-147.224,-15.3525,-147.224 1/2:25:0,20,5:0:0:20,5:684,168:-63.6298,-10.9831,-4.96251,-52.9291,0,-51.4239 1/2:80:0,46,34:0:0:46,34:1623,1195:-197.02,-73.9798,-60.1324,-123.339,0,-113.104 1/2:37:0,17,20:0:0:17,20:582,692:-92.8886,-48.3891,-43.2716,-44.8129,0,-38.7923 1/2:75:0,29,46:0:0:29,46:1017,1589:-177.82,-100.556,-91.8264,-77.5724,0,-63.725 1/2:8:0,4,4:0:0:4,4:134,144:-19.2536,-8.89848,-7.69436,-10.6519,0,-9.44777 1/1:4:0,4,0:0:0:4,0:134,0:-11.6088,-1.20412,0,-11.6088,-1.20412,-11.6088 1/2:9:0,3,5:0:0:3,5:108,157:-19.7286,-11.5775,-10.6744,-8.22577,0,-6.72062 1/1:32:0,32,0:0:0:32,0:1112,0:-93.246,-9.63296,0,-93.246,-9.63296,-93.246 1/1:30:0,30,0:0:0:30,0:1065,0:-89.7049,-9.0309,0,-89.7049,-9.0309,-89.7049 1/2:67:0,36,31:0:0:36,31:1254,1103:-173.211,-78.5845,-67.7475,-94.9457,0,-85.6138 1/2:34:0,27,7:0:0:27,7:918,244:-86.4495,-16.2543,-8.12649,-70.4894,0,-68.3822 1/2:20:0,7,13:0:0:7,13:244,442:-49.3966,-30.7529,-28.6457,-18.9605,0,-15.0471 1/2:110:0,49,60:0:0:49,60:1704,2057:-278.361,-150.93,-136.18,-127.391,0,-109.329 1/2:83:0,54,29:0:0:54,29:1869,1017:-204.482,-62.8143,-46.5587,-141.959,0,-133.229 1/1:34:0,33,0:0:0:33,0:1133,0:-96.5434,-9.93399,0,-96.5434,-9.93399,-96.5434 1/1:78:0,78,0:0:0:78,0:2684,0:-226.909,-23.4803,0,-226.909,-23.4803,-226.909 chr06 4358138 . G A 33824.6 PASS AB=0.468384;ABP=40.7702;AC=12;AF=0.285714;AN=42;AO=2051;CIGAR=1X;DP=6756;DPB=6756;DPRA=3.06273;EPP=4456.7;EPPR=10219.8;GTI=0;LEN=1;MEANALT=1;MQM=53.9961;MQMR=59.6561;NS=21;NUMALT=1;ODDS=35.1006;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73501;QR=168194;RO=4705;RPL=0;RPP=4456.7;RPPR=10219.8;RPR=2051;RUN=1;SAF=2051;SAP=4456.7;SAR=0;SRF=4705;SRP=10219.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:265:264,1:264:9437:1:36:0,-76.1773,-845.636 0/0:95:95,0:95:3395:0:0:0,-28.5978,-305.723 0/1:148:83,65:83:2945:65:2340:-166.155,0,-220.715 0/0:172:172,0:172:6156:0:0:0,-51.7772,-554.124 0/0:280:274,6:274:9754:6:216:0,-64.5122,-857.996 0/1:94:48,46:48:1720:46:1648:-119.567,0,-126.76 0/1:179:91,88:91:3256:88:3147:-228.266,0,-239.32 0/1:186:111,75:111:3976:75:2688:-185.347,0,-301.967 0/1:276:136,140:136:4862:140:5028:-367.633,0,-354.636 0/1:927:587,340:587:21003:340:12192:-815.051,0,-1610.17 0/0:1088:1086,2:1086:38816:2:72:0,-320.701,-3482.03 0/1:763:394,369:394:14115:369:13221:-957.55,0,-1040.14 0/0:163:163,0:163:5844:0:0:0,-49.0679,-526.068 0/0:161:160,1:160:5709:1:36:0,-44.8701,-510.321 0/1:238:115,123:115:4124:123:4379:-322.214,0,-299.66 0/1:128:74,54:74:2664:54:1932:-135.405,0,-201.436 0/1:82:40,42:40:1428:42:1512:-111.593,0,-104.132 0/1:1234:569,665:569:20310:665:23830:-1766.31,0,-1455.67 0/1:94:64,30:64:2296:30:1080:-69.0621,0,-178.332 0/0:131:127,4:127:4529:4:144:0,-26.1402,-394.161 0/0:52:52,0:52:1855:0:0:0,-15.6536,-167.211 chr06 4358204 . T C 14923.4 PASS AB=0.477918;ABP=11.066;AC=12;AF=0.285714;AN=42;AO=922;CIGAR=1X;DP=4115;DPB=4115;DPRA=1.29566;EPP=2005.11;EPPR=6932.18;GTI=0;LEN=1;MEANALT=1.11111;MQM=54.6302;MQMR=59.5794;NS=21;NUMALT=1;ODDS=32.7998;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33019;QR=114183;RO=3191;RPL=0;RPP=2005.11;RPPR=6914.82;RPR=922;RUN=1;SAF=0;SAP=2005.11;SAR=922;SRF=2;SRP=6914.82;SRR=3189;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:398:395,3:395:14148:3:108:0,-109.742,-1261.62 0/0:161:160,1:160:5676:1:36:0,-44.8766,-507.122 0/1:176:72,104:72:2592:104:3739:-283.185,0,-180.542 0/0:241:240,1:240:8568:1:36:0,-68.9525,-766.966 0/0:519:516,3:516:18512:3:108:0,-146.169,-1654.56 0/1:199:101,98:101:3617:98:3516:-255.496,0,-265.78 0/1:214:131,83:131:4689:83:2959:-200.844,0,-357.694 0/1:154:63,91:63:2264:91:3264:-246.886,0,-157.641 0/1:349:175,174:175:6292:174:6229:-454.733,0,-460.502 0/1:32:17,15:17:608:15:536:-38.8752,0,-45.4158 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:34:14,20:14:504:20:716:-54.4038,0,-35.433 0/0:412:412,0:412:14732:0:0:0,-124.024,-1323.62 0/0:275:270,4:270:9639:4:144:0,-69.5378,-854.086 0/1:291:148,142:148:5281:142:5079:-368.67,0,-387.755 0/1:148:86,62:86:3065:62:2213:-153.931,0,-231.335 0/1:166:99,67:99:3533:67:2400:-165.89,0,-268.203 0/1:63:35,28:35:1252:28:1004:-71.3245,0,-94.0202 0/1:76:51,25:51:1836:25:896:-57.8567,0,-142.547 0/0:150:149,1:149:5331:1:36:0,-41.5613,-475.344 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.767 chr06 4367073 . G A 39130.4 PASS AB=0.474088;ABP=12.1255;AC=30;AF=0.714286;AN=42;AO=1908;CIGAR=1X;DP=2731;DPB=2731;DPRA=0;EPP=4146.18;EPPR=1787.96;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9617;MQMR=60;NS=21;NUMALT=1;ODDS=5.64513;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68049;QR=29025;RO=822;RPL=0;RPP=4146.18;RPPR=1787.96;RPR=1908;RUN=1;SAF=0;SAP=4146.18;SAR=1908;SRF=0;SRP=1787.96;SRR=822;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:0,158:0:0:158:5614:-505.381,-47.5627,0 1/1:118:0,118:0:0:118:4202:-378.362,-35.5215,0 0/1:210:124,86:124:4351:86:3092:-215.287,0,-328.544 1/1:176:0,175:0:0:175:6242:-561.514,-52.6803,0 1/1:223:0,223:0:0:223:7921:-711.555,-67.1297,0 0/1:110:54,56:54:1885:56:2008:-147.88,0,-136.811 0/1:177:108,69:108:3796:69:2463:-168.642,0,-288.557 0/1:156:76,80:76:2684:80:2858:-210.494,0,-194.843 0/1:370:182,188:182:6458:188:6710:-492.596,0,-469.929 0/1:23:9,14:9:324:14:504:-38.7744,0,-22.5822 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:36:19,17:19:680:17:597:-43.219,0,-50.6921 1/1:144:0,144:0:0:144:5164:-464.9,-43.3483,0 1/1:207:0,207:0:0:207:7361:-662.541,-62.3132,0 0/1:176:104,72:104:3680:72:2541:-175.959,0,-278.42 0/1:98:45,53:45:1592:53:1893:-141.145,0,-114.067 0/1:121:57,64:57:2031:64:2300:-170.83,0,-146.637 0/1:45:25,20:25:864:20:708:-50.4992,0,-64.526 0/1:41:19,22:19:680:22:788:-58.9026,0,-49.1869 1/1:98:0,98:0:0:98:3511:-316.197,-29.5009,0 1/1:38:0,38:0:0:38:1356:-122.34,-11.4391,0 chr06 4398848 . CACA CTCTT,CTCCT 27056.7 PASS AB=0.434669,0.563589;ABP=45.5696,43.3301;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1492,651;CIGAR=1M1X1M1I1X,1M1I1X1M1X;DP=2150;DPB=2687;DPRA=0,1.2798;EPP=3182.33,1356.49;EPPR=0;GTI=1;LEN=5,5;MEANALT=1.90476,2.21429;MQM=26.561,25.8341;MQMR=0;NS=21;NUMALT=2;ODDS=0.619349;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52605,22789;QR=0;RO=0;RPL=1485,644;RPP=3182.33,1356.49;RPPR=0;RPR=7,7;RUN=1,1;SAF=1492,651;SAP=3242.85,1416.64;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:152:0,151,0:0:0:151,0:5306,0:-357.989,-45.4555,0,-357.989,-45.4555,-357.989 1/1:73:0,73,0:0:0:73,0:2565,0:-148.992,-21.9752,0,-148.992,-21.9752,-148.992 1/2:64:0,28,36:0:0:28,36:985,1275:-133.668,-76.1215,-67.6927,-57.811,0,-46.9739 1/1:115:0,115,0:0:0:115,0:4039,0:-274.187,-34.6185,0,-274.187,-34.6185,-274.187 1/1:304:0,299,3:0:0:299,3:10580,99:-711.116,-90.008,0,-705.022,-83.8951,-704.119 1/2:127:0,51,76:0:0:51,76:1774,2720:-222.275,-132.945,-117.592,-89.5584,0,-66.6801 1/2:148:0,72,76:0:0:72,76:2525,2665:-261.52,-134.561,-112.887,-127.189,0,-104.31 1/2:94:0,19,75:0:0:19,75:677,2629:-179.882,-143.259,-137.539,-36.8698,0,-14.2926 1/2:217:0,87,129:0:0:87,129:3087,4476:-463.154,-267.227,-241.037,-195.938,0,-157.105 1/2:12:0,4,8:0:0:4,8:141,287:-23.3271,-15.6747,-14.4706,-7.89899,0,-5.49075 1/1:8:0,8,0:0:0:8,0:287,0:-16.6309,-2.40824,0,-16.6309,-2.40824,-16.6309 1/2:27:0,17,10:0:0:17,10:597,351:-51.592,-19.1739,-14.0564,-32.6624,0,-29.6521 1/1:120:0,118,0:0:0:118,0:4144,0:-280.234,-35.5215,0,-280.234,-35.5215,-280.234 1/1:83:0,83,0:0:0:83,0:2891,0:-197.378,-24.9855,0,-197.378,-24.9855,-197.378 1/2:156:0,68,87:0:0:68,87:2417,3038:-320.679,-178.453,-157.983,-142.27,0,-116.08 1/2:86:0,42,44:0:0:42,44:1490,1535:-185.87,-91.9551,-79.3118,-94.1886,0,-80.9433 1/2:85:0,40,45:0:0:40,45:1412,1569:-181.215,-92.6726,-80.6314,-88.8131,0,-75.2668 1/2:66:0,29,37:0:0:29,37:1032,1280:-126.834,-71.4499,-62.7201,-55.6306,0,-44.4925 1/2:66:0,42,24:0:0:42,24:1481,834:-136.338,-48.7921,-36.1488,-87.8065,0,-80.5818 1/1:94:0,93,1:0:0:93,1:3290,31:-206.179,-27.9958,0,-204.317,-25.8939,-204.016 1/1:53:0,53,0:0:0:53,0:1885,0:-109.499,-15.9546,0,-109.499,-15.9546,-109.499 chr06 4404546 . G A 2334.84 PASS AB=0.458084;ABP=8.10741;AC=11;AF=0.261905;AN=42;AO=154;CIGAR=1X;DP=580;DPB=580;DPRA=1.10897;EPP=337.417;EPPR=906.425;GTI=1;LEN=1;MEANALT=1.16667;MQM=60;MQMR=59.9528;NS=21;NUMALT=1;ODDS=2.28619;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5434;QR=15122;RO=424;RPL=0;RPP=337.417;RPPR=906.425;RPR=154;RUN=1;SAF=154;SAP=337.417;SAR=0;SRF=424;SRP=923.715;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:24,0:24:817:0:0:0,-7.22472,-73.8392 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:21:15,6:15:540:6:201:-12.0954,0,-42.6149 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/1:40:22,18:22:777:18:644:-46.2494,0,-58.2092 0/1:28:9,19:9:324:19:669:-52.1051,0,-21.077 0/1:53:33,18:33:1180:18:648:-42.9395,0,-90.7958 0/1:9:3,6:3:104:6:212:-16.7155,0,-6.99354 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:6:2,4:2:72:4:129:-10.1215,0,-5.03054 0/0:37:37,0:37:1305:0:0:0,-11.1381,-117.749 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:69:30,39:30:1076:39:1396:-105.168,0,-76.3818 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/1:11:6,5:6:212:5:180:-13.2407,0,-16.1135 0/1:64:40,24:40:1423:24:845:-57.1012,0,-109.101 0/1:23:10,13:10:360:13:438:-32.8159,0,-25.8206 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.462 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 chr06 4404555 . C A,T 11513.9 PASS AB=0.533133,0.466867;ABP=6.17594,6.17594;AC=30,12;AF=0.714286,0.285714;AN=42;AO=392,156;CIGAR=1X,1X;DP=548;DPB=548;DPRA=0,1.40396;EPP=828.369,341.76;EPPR=0;GTI=2;LEN=1,1;MEANALT=1.61905,2;MQM=59.949,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.23666;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=13857,5540;QR=0;RO=0;RPL=389,156;RPP=828.369,341.76;RPPR=0;RPR=3,0;RUN=1,1;SAF=392,156;SAP=854.227,341.76;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,22,0:0:0:22,0:760,0:-68.7159,-6.62266,0,-68.7159,-6.62266,-68.7159 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:20:0,14,6:0:0:14,6:504,216:-59.1082,-17.9843,-13.7699,-41.4837,0,-39.6775 1/1:16:0,16,0:0:0:16,0:572,0:-51.8134,-4.81648,0,-51.8134,-4.81648,-51.8134 1/1:39:0,39,0:0:0:39,0:1385,0:-124.947,-11.7402,0,-124.947,-11.7402,-124.947 1/2:10:0,9,1:0:0:9,1:320,36:-29.3709,-3.29724,-0.587975,-26.4331,0,-26.1321 1/2:38:0,20,18:0:0:20,18:707,644:-110.45,-52.8721,-46.8515,-57.934,0,-52.5154 1/2:28:0,9,19:0:0:9,19:320,680:-81.8865,-55.8096,-53.1003,-26.4331,0,-20.7135 1/2:49:0,31,18:0:0:31,18:1098,640:-141.954,-52.5108,-43.1788,-89.7979,0,-84.3794 1/2:8:0,2,6:0:0:2,6:72,216:-23.8592,-17.9843,-17.3823,-6.23466,0,-4.42848 1/1:7:0,7,0:0:0:7,0:239,0:-21.8427,-2.10721,0,-21.8427,-2.10721,-21.8427 1/2:6:0,2,4:0:0:2,4:72,144:-17.9843,-12.1095,-11.5074,-6.23466,0,-5.03054 1/1:34:0,34,0:0:0:34,0:1197,0:-108.033,-10.235,0,-108.033,-10.235,-108.033 1/1:18:0,18,0:0:0:18,0:644,0:-58.2906,-5.41854,0,-58.2906,-5.41854,-58.2906 1/2:67:0,26,41:0:0:26,41:920,1437:-192.217,-117.279,-109.453,-75.2903,0,-62.948 1/2:11:0,10,1:0:0:10,1:360,36:-32.6714,-3.29724,-0.286945,-29.734,0,-29.433 1/2:10:0,6,4:0:0:6,4:208,144:-29.0079,-12.1095,-10.3033,-17.2529,0,-16.0488 1/2:63:0,39,24:0:0:39,24:1377,847:-181.458,-69.324,-57.5838,-112.487,0,-105.262 1/2:22:0,9,13:0:0:9,13:324,464:-64.6221,-38.1841,-35.4748,-26.7966,0,-22.8832 1/1:49:0,48,1:0:0:48,1:1673,36:-150.481,-14.4494,0,-147.544,-11.1522,-147.243 1/1:22:0,22,0:0:0:22,0:785,0:-70.9737,-6.62266,0,-70.9737,-6.62266,-70.9737 chr06 4405177 . C G 3135.24 PASS AB=0.290842;ABP=1442.76;AC=20;AF=0.47619;AN=42;AO=1117;CIGAR=1X;DP=3897;DPB=3897;DPRA=0;EPP=2428.54;EPPR=6033.19;GTI=12;LEN=1;MEANALT=1.14286;MQM=23.9221;MQMR=59.9809;NS=21;NUMALT=1;ODDS=0.770091;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39758;QR=99343;RO=2777;RPL=0;RPP=2428.54;RPPR=6033.19;RPR=1117;RUN=1;SAF=1117;SAP=2428.54;SAR=0;SRF=2777;SRP=6033.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:251:129,122:129:4624:122:4384:-177.659,0,-340.764 0/1:85:47,38:47:1684:38:1315:-51.6575,0,-126.259 0/1:161:137,24:137:4916:24:845:-1.77024,0,-393.933 0/1:195:108,87:108:3872:87:3105:-121.274,0,-289.974 0/1:318:146,172:146:5213:172:6123:-264.434,0,-373.534 0/1:144:116,28:116:4121:28:993:-13.9537,0,-327.728 0/1:254:210,44:210:7507:44:1580:-15.9146,0,-599.211 0/1:268:208,60:208:7416:60:2144:-46.7759,0,-586.813 0/1:369:313,56:313:11182:56:2012:-8.41458,0,-895.187 0/1:38:29,9:29:1036:9:305:-8.105,0,-82.1148 0/1:16:11,5:11:396:5:180:-5.6663,0,-31.1663 0/1:63:50,13:50:1788:13:468:-7.92572,0,-142.238 0/1:118:85,33:85:3041:33:1165:-32.6665,0,-238.394 0/1:199:137,61:137:4916:61:2177:-64.6512,0,-382.626 0/1:384:315,68:315:11262:68:2429:-25.3966,0,-897.903 0/1:83:70,13:70:2512:13:464:-2.81656,0,-201.346 0/0:108:93,15:93:3328:15:525:0,-0.63815,-267.865 0/1:274:218,55:218:7824:55:1957:-32.6026,0,-621.645 0/1:213:157,56:157:5605:56:1975:-51.5308,0,-440.453 0/1:259:146,113:146:5236:113:4015:-156.063,0,-393.41 0/1:97:52,45:52:1864:45:1597:-66.4651,0,-138.84 chr06 4405183 . G A 3205.18 PASS AB=0.284698;ABP=1586.98;AC=21;AF=0.5;AN=42;AO=1120;CIGAR=1X;DP=3934;DPB=3934;DPRA=0;EPP=2435.06;EPPR=6113.53;GTI=13;LEN=1;MEANALT=1;MQM=23.9607;MQMR=59.9691;NS=21;NUMALT=1;ODDS=3.08326;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39960;QR=100166;RO=2814;RPL=0;RPP=2435.06;RPPR=6113.53;RPR=1120;RUN=1;SAF=1120;SAP=2435.06;SAR=0;SRF=2814;SRP=6113.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:255:132,123:132:4720:123:4386:-179.226,0,-348.197 0/1:84:47,37:47:1673:37:1328:-51.9868,0,-125.569 0/1:164:139,25:139:4957:25:885:-2.68347,0,-396.718 0/1:194:107,87:107:3806:87:3113:-122.277,0,-284.336 0/1:319:147,172:147:5188:172:6131:-265.698,0,-370.983 0/1:145:117,28:117:4177:28:993:-13.7018,0,-332.462 0/1:255:214,41:214:7635:41:1472:-8.63251,0,-610.422 0/1:273:213,60:213:7546:60:2152:-45.6313,0,-596.998 0/1:374:318,56:318:11361:56:2012:-8.00752,0,-909.786 0/1:38:30,8:30:1068:8:265:-5.90678,0,-84.5009 0/1:16:11,5:11:396:5:180:-5.6663,0,-31.1663 0/1:64:51,13:51:1806:13:464:-7.59735,0,-143.552 0/1:120:87,33:87:3120:33:1184:-32.7763,0,-244.902 0/1:200:138,62:138:4873:62:2213:-66.2845,0,-378.515 0/1:387:319,68:319:11311:68:2398:-23.3933,0,-901.377 0/1:84:69,15:69:2442:15:532:-6.7544,0,-194.746 0/1:106:91,15:91:3238:15:540:-0.370833,0,-259.73 0/1:277:221,56:221:7881:56:2012:-34.1626,0,-625.931 0/1:217:161,56:161:5754:56:1990:-50.6783,0,-452.65 0/1:262:147,115:147:5234:115:4098:-160.517,0,-392.327 0/1:100:55,45:55:1980:45:1612:-65.9139,0,-148.371 chr06 4405205 . GT CC 2400.33 PASS AB=0.276838;ABP=1485.86;AC=16;AF=0.380952;AN=42;AO=1128;CIGAR=2X;DP=5071;DPB=5071;DPRA=0;EPP=2400.59;EPPR=8417.96;GTI=11;LEN=2;MEANALT=1.38095;MQM=23.9495;MQMR=59.8282;NS=21;NUMALT=1;ODDS=8.7208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39761;QR=135168;RO=3935;RPL=1122;RPP=2400.59;RPPR=1645.07;RPR=6;RUN=1;SAF=1128;SAP=2452.43;SAR=0;SRF=2845;SRP=1702.68;SRR=1090;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:343:217,124:217:7429:124:4383:-154.947,0,-565.072 0/1:85:47,38:47:1669:38:1334:-52.3707,0,-124.909 0/0:260:235,25:235:7992:25:871:0,-26.1359,-667.126 0/1:344:257,87:257:8594:87:3080:-76.6183,0,-669.731 0/1:376:202,173:202:6865:173:6100:-247.385,0,-504.841 0/1:147:119,28:119:4216:28:973:-12.9868,0,-335.359 0/1:263:219,44:219:7657:44:1547:-12.3087,0,-610.001 0/1:274:214,60:214:7501:60:2127:-45.0202,0,-592.657 0/0:507:451,56:451:15416:56:1995:0,-33.3688,-1267.91 0/1:39:30,9:30:1020:9:299:-7.14802,0,-80.3614 0/1:16:11,5:11:392:5:180:-5.6663,0,-30.8036 0/1:63:50,13:50:1752:13:457:-7.75284,0,-138.995 0/1:192:158,33:158:5308:33:1159:-10.7202,0,-420.026 0/1:309:246,62:246:8285:62:2212:-33.5631,0,-652.519 0/0:562:492,68:492:16967:68:2397:0,-28.7408,-1385.81 0/0:152:137,15:137:4664:15:538:0,-13.6616,-387.838 0/0:162:147,15:147:5011:15:514:0,-16.9246,-419.285 0/1:280:225,55:225:7868:55:1926:-30.2887,0,-623.866 0/1:329:273,56:273:9298:56:1985:-16.6496,0,-737.433 0/1:269:151,118:151:5340:118:4139:-163.776,0,-399.758 0/1:99:54,44:54:1924:44:1545:-63.7664,0,-143.575 chr06 4410511 . A T,C 64064 PASS AB=0.491481,0.508519;ABP=3.97224,3.97224;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2177,777;CIGAR=1X,1X;DP=2954;DPB=2954;DPRA=0,0.866153;EPP=4609.49,1604.5;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.61905,2;MQM=59.0317,59.9949;MQMR=0;NS=21;NUMALT=2;ODDS=1.22405;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77272,27666;QR=0;RO=0;RPL=14,10;RPP=4609.49,1604.5;RPPR=0;RPR=2163,767;RUN=1,1;SAF=2177,777;SAP=4730.31,1690.24;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:191:0,191,0:0:0:191,0:6788,0:-610.747,-57.4967,0,-610.747,-57.4967,-610.747 1/1:140:0,140,0:0:0:140,0:4941,0:-444.162,-42.1442,0,-444.162,-42.1442,-444.162 1/2:116:0,52,64:0:0:52,64:1853,2261:-335.425,-184.486,-168.832,-151.294,0,-132.028 1/1:241:0,241,0:0:0:241,0:8566,0:-770.349,-72.5482,0,-770.349,-72.5482,-770.349 1/1:322:0,322,0:0:0:322,0:11476,0:-1031.86,-96.9317,0,-1031.86,-96.9317,-1031.86 1/2:231:0,95,136:0:0:95,136:3340,4851:-667.547,-395.805,-367.207,-272.096,0,-231.156 1/2:208:0,109,99:0:0:109,99:3866,3522:-601.335,-287.388,-254.576,-314.301,0,-284.499 1/2:135:0,55,80:0:0:55,80:1953,2860:-392.354,-233.555,-216.999,-159.154,0,-135.071 1/2:253:0,124,129:0:0:124,129:4347,4587:-727.736,-374.163,-336.835,-353.926,0,-315.093 1/2:8:0,6,2:0:0:6,2:216,68:-23.4951,-5.85565,-4.04947,-17.9843,0,-17.3823 1/1:12:0,12,0:0:0:12,0:432,0:-39.1805,-3.61236,0,-39.1805,-3.61236,-39.1805 1/2:41:0,14,27:0:0:14,27:500,959:-119.263,-78.4976,-74.2832,-41.1218,0,-32.9939 1/1:201:0,200,1:0:0:200,1:7125,36:-640.259,-60.206,0,-637.321,-56.9088,-637.02 1/1:156:0,156,0:0:0:156,0:5545,0:-498.7,-46.9607,0,-498.7,-46.9607,-498.7 1/2:211:0,113,98:0:0:113,98:3997,3479:-609.052,-283.822,-249.806,-325.584,0,-296.083 1/2:71:0,34,37:0:0:34,37:1186,1320:-204.323,-107.964,-97.7288,-96.7112,0,-85.5731 1/2:137:0,70,67:0:0:70,67:2495,2395:-398.784,-195.637,-174.565,-203.503,0,-183.334 1/2:63:0,41,22:0:0:41,22:1438,788:-181.51,-64.6221,-52.2799,-117.243,0,-110.621 1/2:52:0,37,15:0:0:37,15:1328,540:-152.699,-44.4211,-33.283,-108.638,0,-104.122 1/1:131:0,131,0:0:0:131,0:4660,0:-419.406,-39.4349,0,-419.406,-39.4349,-419.406 1/1:34:0,34,0:0:0:34,0:1220,0:-109.898,-10.235,0,-109.898,-10.235,-109.898 chr06 4410525 . GCTTTTGGTTTTGA TCTTTTTGGTTTTGA 44588.3 PASS AB=0.484385;ABP=6.33325;AC=30;AF=0.714286;AN=42;AO=2234;CIGAR=1X1M1I12M;DP=3066;DPB=3228.43;DPRA=0;EPP=4854.08;EPPR=1718.47;GTI=0;LEN=15;MEANALT=2.80952;MQM=59.1844;MQMR=60;NS=21;NUMALT=1;ODDS=2.11112;PAIRED=0;PAIREDR=0;PAO=11;PQA=373;PQR=0;PRO=2;QA=77465;QR=27325;RO=790;RPL=2234;RPP=4854.08;RPPR=1718.47;RPR=0;RUN=1;SAF=2234;SAP=4854.08;SAR=0;SRF=790;SRP=1718.47;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:203:0,199:0:0:199:6936:-623.519,-59.905,0 1/1:142:0,140:0:0:140:4871:-437.84,-42.1442,0 0/1:118:65,52:65:2256:52:1847:-130.978,0,-167.815 1/1:255:0,252:0:0:252:8766:-788.23,-75.8596,0 1/1:341:0,335:0:0:335:11612:-1044.22,-100.845,0 0/1:242:139,103:139:4812:103:3506:-242.755,0,-360.406 0/1:218:103,113:103:3566:113:3918:-287.033,0,-255.797 0/1:139:79,55:79:2705:55:1893:-129.693,0,-203.031 0/1:258:131,123:131:4546:123:4251:-305.671,0,-332.561 0/1:8:3,5:3:98:5:180:-14.1438,0,-6.73577 1/1:11:0,11:0:0:11:380:-34.5305,-3.31133,0 0/1:43:28,15:28:959:15:514:-33.6374,0,-73.6753 1/1:209:1,207:1:36:207:7145:-639.4,-59.3686,0 1/1:168:0,164:0:0:164:5669:-509.812,-49.3689,0 0/1:214:99,112:99:3467:112:3875:-284.769,0,-248.405 0/1:74:38,36:38:1316:36:1242:-89.6964,0,-96.4617 0/1:136:67,68:67:2286:68:2397:-174.837,0,-165.08 0/1:69:22,44:22:758:44:1495:-114.571,0,-48.3377 0/1:50:15,34:15:520:34:1193:-92.6615,0,-32.1052 1/1:132:0,130:0:0:130:4526:-407.115,-39.1339,0 1/1:36:0,36:0:0:36:1249:-112.264,-10.8371,0 chr06 4410604 . 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T C 4886.78 PASS AB=0.454142;ABP=15.3581;AC=12;AF=0.285714;AN=42;AO=307;CIGAR=1X;DP=1201;DPB=1201;DPRA=0.965714;EPP=669.652;EPPR=1944.31;GTI=0;LEN=1;MEANALT=1;MQM=59.9805;MQMR=60;NS=21;NUMALT=1;ODDS=11.1047;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10962;QR=31877;RO=894;RPL=0;RPP=669.652;RPPR=1944.31;RPR=307;RUN=1;SAF=307;SAP=669.652;SAR=0;SRF=894;SRP=1944.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:78,0:78:2780:0:0:0,-23.4803,-250.442 0/0:56:56,0:56:1992:0:0:0,-16.8577,-179.554 0/1:36:16,20:16:572:20:716:-53.9306,0,-40.9763 0/0:37:37,0:37:1316:0:0:0,-11.1381,-118.742 0/0:127:127,0:127:4510:0:0:0,-38.2308,-406.068 0/1:53:28,25:28:993:25:900:-65.3664,0,-73.7279 0/1:100:62,38:62:2213:38:1360:-92.5976,0,-169.33 0/1:45:28,17:28:1004:17:608:-41.5057,0,-77.1295 0/1:69:35,34:35:1252:34:1212:-88.6134,0,-92.214 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:24:11,13:11:392:13:468:-35.2349,0,-28.3953 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/1:104:59,45:59:2089:45:1614:-114.243,0,-156.971 0/1:54:23,31:23:824:31:1112:-84.1357,0,-58.2277 0/1:41:22,19:22:788:19:680:-49.1869,0,-58.9026 0/1:77:37,40:37:1328:40:1423:-105.187,0,-96.6429 0/1:59:43,16:43:1548:16:545:-31.6101,0,-121.852 0/0:75:75,0:75:2665:0:0:0,-22.5772,-240.095 0/0:48:48,0:48:1707:0:0:0,-14.4494,-153.915 chr06 4427276 . G T 30440.7 PASS AB=0.600484;ABP=75.4523;AC=30;AF=0.714286;AN=42;AO=1450;CIGAR=1X;DP=1787;DPB=1787;DPRA=0;EPP=3151.65;EPPR=732.625;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9503;MQMR=59.997;NS=21;NUMALT=1;ODDS=1.75033;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51720;QR=12000;RO=336;RPL=1450;RPP=3151.65;RPPR=732.625;RPR=0;RUN=1;SAF=0;SAP=3151.65;SAR=1450;SRF=0;SRP=732.625;SRR=336;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:132:0,132:0:0:132:4736:-426.395,-39.736,0 1/1:108:0,108:0:0:108:3855:-347.137,-32.5112,0 0/1:30:13,17:13:464:17:612:-46.3825,0,-33.0666 1/1:168:0,168:0:0:168:5900:-531.11,-50.573,0 1/1:170:6,164:6:216:164:5843:-506.187,-31.3846,0 0/1:100:42,57:42:1491:57:2021:-151.991,0,-104.322 0/1:100:37,63:37:1309:63:2230:-170.85,0,-88.0065 0/1:59:25,34:25:896:34:1220:-92.346,0,-63.1996 0/1:119:63,56:63:2256:56:2008:-145.169,0,-167.48 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 1/1:7:0,7:0:0:7:238:-21.7505,-2.10721,0 0/1:23:10,13:10:360:13:464:-35.1738,0,-25.8206 1/1:99:0,99:0:0:99:3541:-318.897,-29.802,0 1/1:128:0,128:0:0:128:4588:-413.082,-38.5318,0 0/1:86:22,64:22:792:64:2281:-179.644,0,-45.7171 0/1:86:36,50:36:1292:50:1781:-134.682,0,-90.6952 0/1:59:16,43:16:572:43:1540:-121.132,0,-34.0527 0/1:57:30,27:30:1076:27:961:-69.6462,0,-79.9941 0/1:98:30,68:30:1060:68:2440:-190.354,0,-66.2103 1/1:101:0,101:0:0:101:3625:-326.454,-30.404,0 1/1:48:1,47:1:36:47:1692:-148.96,-10.8512,0 chr06 4451219 . A G 19661.6 PASS AB=0.52651;ABP=12.9118;AC=12;AF=0.285714;AN=42;AO=863;CIGAR=1X;DP=2719;DPB=2719;DPRA=1.46138;EPP=1876.99;EPPR=4031.09;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=59.9978;NS=21;NUMALT=1;ODDS=3.36642;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30711;QR=66392;RO=1855;RPL=397;RPP=14.9899;RPPR=11.0746;RPR=466;RUN=1;SAF=397;SAP=14.9899;SAR=466;SRF=886;SRP=11.0746;SRR=969;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:153:152,1:152:5406:1:36:0,-42.4593,-483.073 0/0:134:134,0:134:4816:0:0:0,-40.338,-433.593 0/1:110:32,78:32:1152:78:2784:-217.688,0,-70.8768 0/0:124:123,1:123:4403:1:36:0,-33.7294,-392.844 0/0:232:227,5:227:8097:5:165:0,-54.6654,-713.573 0/1:166:55,111:55:1968:111:3988:-309.138,0,-127.424 0/1:222:96,126:96:3448:126:4434:-332.403,0,-243.703 0/1:140:57,83:57:2025:83:2964:-224.849,0,-140.377 0/1:203:102,100:102:3664:100:3554:-258.938,0,-268.834 0/1:35:14,21:14:504:21:752:-57.4702,0,-35.162 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:48:19,29:19:684:29:1027:-78.2927,0,-47.4409 0/0:141:141,0:141:5060:0:0:0,-42.4452,-455.544 0/0:109:107,2:107:3836:2:72:0,-25.9755,-338.599 0/1:155:79,76:79:2835:76:2709:-197.393,0,-208.728 0/1:101:43,58:43:1544:58:2071:-156.256,0,-108.849 0/1:78:38,40:38:1364:40:1440:-106.417,0,-99.5804 0/1:213:127,86:127:4524:86:3039:-209.62,0,-343.208 0/1:151:105,46:105:3751:46:1640:-102.433,0,-292.335 0/0:95:95,0:95:3412:0:0:0,-28.5978,-307.293 0/0:100:100,0:100:3579:0:0:0,-30.103,-322.317 chr06 4499751 . G A,C 66842.8 PASS AB=0.437785,0.55879;ABP=61.9127,55.6065;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2185,980;CIGAR=1X,1X;DP=3174;DPB=3174;DPRA=0,0.827179;EPP=4747.68,2131.05;EPPR=22.5536;GTI=1;LEN=1,1;MEANALT=1.61905,2;MQM=59.9794,59.9684;MQMR=60;NS=21;NUMALT=2;ODDS=16.133;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77412,34773;QR=320;RO=9;RPL=0,0;RPP=4747.68,2131.05;RPPR=22.5536;RPR=2185,980;RUN=1,1;SAF=0,0;SAP=4747.68,2131.05;SAR=2185,980;SRF=0;SRP=22.5536;SRR=9;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,67,1:0:0:67,1:2392,36:-215.178,-20.169,0,-212.24,-16.8718,-211.939 1/1:142:0,142,0:0:0:142,0:5050,0:-454.645,-42.7463,0,-454.645,-42.7463,-454.645 1/2:77:0,47,30:0:0:47,30:1676,1055:-222.854,-86.2291,-72.0807,-136.979,0,-127.948 1/1:161:0,161,0:0:0:161,0:5718,0:-514.742,-48.4658,0,-514.742,-48.4658,-514.742 1/1:413:0,413,0:0:0:413,0:14682,0:-1321.13,-124.325,0,-1321.13,-124.325,-1321.13 1/2:216:1,101,114:1:36:101,114:3566,4034:-615.725,-325.635,-298.169,-287.447,0,-256.067 1/2:208:1,119,88:1:36:119,88:4219,3139:-596.358,-252.948,-220.063,-340.77,0,-317.216 1/2:117:0,63,54:0:0:63,54:2235,1923:-338.957,-156.863,-137.898,-182.449,0,-166.193 1/2:204:0,88,116:0:0:88,116:3100,4115:-588.001,-335.618,-309.127,-252.736,0,-217.817 1/2:19:0,6,13:0:0:6,13:207,464:-54.9962,-38.1841,-36.3779,-17.1607,0,-13.2473 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/2:28:2,12,14:2:72:12,14:424,500:-68.8142,-34.8871,-37.1499,-28.6494,0,-30.3108 1/1:260:3,257,0:3:108:257,0:9074,0:-806.57,-68.1926,0,-807.473,-77.3647,-816.285 1/1:160:0,160,0:0:0:160,0:5551,0:-499.699,-48.1648,0,-499.699,-48.1648,-499.699 1/2:185:0,107,78:0:0:107,78:3791,2775:-535.337,-226.511,-194.301,-309.181,0,-285.701 1/2:110:0,50,60:0:0:50,60:1787,2137:-320.239,-174.534,-159.483,-146.061,0,-127.999 1/2:121:0,76,45:0:0:76,45:2709,1600:-351.562,-130.744,-107.866,-221.174,0,-207.628 1/2:386:2,43,341:2:68:43,341:1525,12068:-1101.12,-977.475,-970.046,-118.743,0,-21.6067 1/2:81:0,55,26:0:0:55,26:1930,927:-232.984,-75.9206,-59.3639,-157.418,0,-149.592 1/1:157:0,157,0:0:0:157,0:5601,0:-504.214,-47.2617,0,-504.214,-47.2617,-504.214 1/1:46:0,46,0:0:0:46,0:1635,0:-147.438,-13.8474,0,-147.438,-13.8474,-147.438 chr06 4514436 . A G 29706 PASS AB=0.498589;ABP=3.02868;AC=30;AF=0.714286;AN=42;AO=1450;CIGAR=1X;DP=1995;DPB=1995;DPRA=0;EPP=3151.65;EPPR=1182.12;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9662;MQMR=59.9926;NS=21;NUMALT=1;ODDS=11.9143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51607;QR=19484;RO=543;RPL=0;RPP=3151.65;RPPR=1182.12;RPR=1450;RUN=1;SAF=1450;SAP=3151.65;SAR=0;SRF=543;SRP=1182.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54:0:0:54:1910:-172.176,-16.2556,0 1/1:56:0,56:0:0:56:1985:-178.923,-16.8577,0 0/1:65:37,28:37:1328:28:992:-70.0274,0,-100.255 1/1:132:0,132:0:0:132:4705:-423.608,-39.736,0 1/1:227:5,222:5:180:222:7904:-694.833,-51.7817,0 0/1:78:39,39:39:1404:39:1404:-103.179,0,-103.179 0/1:180:82,96:82:2940:96:3424:-254.432,0,-210.891 0/1:86:38,48:38:1360:48:1713:-128.567,0,-96.812 0/1:191:100,91:100:3592:91:3245:-234.774,0,-265.989 0/1:18:12,6:12:432:6:216:-14.372,0,-33.8027 1/1:13:1,12:1:36:12:432:-35.6229,-0.315115,0 0/1:42:21,21:21:752:21:741:-54.3683,0,-55.363 1/1:164:3,161:3:108:161:5769:-509.247,-39.2938,0 1/1:110:0,110:0:0:110:3850:-346.692,-33.1133,0 0/1:119:61,58:61:2184:58:2076:-151.288,0,-161.003 0/1:80:47,33:47:1688:33:1173:-81.7932,0,-128.125 0/1:55:32,23:32:1144:23:801:-55.8501,0,-86.7129 0/1:80:41,39:41:1472:39:1388:-101.137,0,-108.694 0/1:69:21,48:21:756:48:1709:-133.323,0,-47.5938 1/1:132:3,129:3:108:129:4594:-403.478,-29.6608,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 chr06 4514469 . C T 25681.6 PASS AB=0.500223;ABP=3.01127;AC=12;AF=0.285714;AN=42;AO=1141;CIGAR=1X;DP=4314;DPB=4314;DPRA=1.27297;EPP=2463.32;EPPR=6856.22;GTI=0;LEN=1;MEANALT=1;MQM=59.9886;MQMR=59.9839;NS=21;NUMALT=1;ODDS=27.5949;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40687;QR=113225;RO=3172;RPL=534;RPP=13.1521;RPPR=35.544;RPR=607;RUN=1;SAF=536;SAP=12.0711;SAR=605;SRF=1481;SRP=33.2001;SRR=1691;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:165:165,0:165:5881:0:0:0,-49.6699,-529.402 0/0:136:136,0:136:4849:0:0:0,-40.9401,-436.564 0/1:121:52,69:52:1852:69:2449:-184.238,0,-130.535 0/0:255:254,0:254:9093:0:0:0,-76.4616,-818.121 0/0:519:511,8:511:18241:8:288:0,-129.967,-1615.01 0/1:182:89,93:89:3196:93:3316:-243.869,0,-233.075 0/1:349:185,164:185:6613:164:5814:-418.307,0,-490.19 0/1:196:81,115:81:2900:115:4108:-310.904,0,-202.234 0/1:447:220,227:220:7854:227:8147:-598.681,0,-572.325 0/1:39:13,26:13:468:26:932:-72.4587,0,-30.7195 0/0:22:21,1:21:756:1:36:0,-3.02438,-64.7689 0/1:63:31,32:31:1095:32:1147:-84.5744,0,-79.8942 0/0:374:369,5:369:13203:5:176:0,-96.4002,-1171.89 0/0:250:248,2:248:8836:2:72:0,-68.4208,-788.389 0/1:275:139,136:139:4953:136:4827:-351.801,0,-363.137 0/1:157:74,83:74:2638:83:2950:-218.47,0,-190.404 0/1:95:49,46:49:1711:46:1637:-119.019,0,-125.674 0/1:180:90,90:90:3215:90:3217:-235.566,0,-235.387 0/1:141:99,42:99:3547:42:1508:-93.567,0,-276.992 0/0:231:229,2:229:8153:2:63:0,-63.5548,-727.027 0/0:117:117,0:117:4171:0:0:0,-35.2205,-375.571 chr06 4514496 . C T 27685.3 PASS AB=0.504087;ABP=3.32981;AC=12;AF=0.285714;AN=42;AO=1132;CIGAR=1X;DP=4254;DPB=4254;DPRA=1.05182;EPP=521.708;EPPR=459.939;GTI=0;LEN=1;MEANALT=1.21053;MQM=59.9779;MQMR=59.9942;NS=21;NUMALT=1;ODDS=26.2221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40366;QR=110093;RO=3118;RPL=826;RPP=521.708;RPPR=2981.38;RPR=306;RUN=1;SAF=520;SAP=19.2465;SAR=612;SRF=1439;SRP=43.1247;SRR=1679;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:165:164,1:164:5830:1:36:0,-46.0717,-521.218 0/0:137:137,0:137:4836:0:0:0,-41.2411,-435.397 0/1:122:51,71:51:1802:71:2535:-191.675,0,-125.735 0/0:250:250,0:250:8803:0:0:0,-75.2575,-792.263 0/0:517:509,8:509:18029:8:288:0,-129.365,-1595.96 0/1:177:90,87:90:3186:87:3100:-225.946,0,-233.683 0/1:335:170,164:170:5982:164:5857:-426.326,0,-437.589 0/1:193:79,114:79:2783:114:4096:-310.725,0,-192.611 0/1:443:215,228:215:7601:228:8131:-598.451,0,-550.778 0/1:40:13,27:13:455:27:968:-75.3962,0,-29.2408 0/0:21:20,1:20:720:1:36:0,-2.72335,-61.5305 0/1:59:30,29:30:1037:29:1036:-75.7927,0,-75.8735 0/0:374:370,4:370:13078:4:140:0,-99.6406,-1163.9 0/0:250:248,2:248:8739:2:72:0,-68.4208,-779.669 0/1:273:138,134:138:4865:134:4738:-344.43,0,-355.859 0/1:157:75,82:75:2666:82:2915:-215.324,0,-192.924 0/1:92:45,46:45:1576:46:1634:-119.594,0,-114.374 0/1:173:88,85:88:3068:85:3036:-221.392,0,-224.272 0/1:138:95,43:95:3369:43:1532:-96.6286,0,-261.885 0/0:220:215,4:215:7579:4:144:0,-52.9718,-668.846 0/0:118:116,2:116:4089:2:72:0,-28.6848,-361.361 chr06 4695422 . TAGT CGGT,CGGC 58594.7 PASS AB=0.506716,0.489011;ABP=3.65193,4.72839;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1982,803;CIGAR=2X2M,2X1M1X;DP=2802;DPB=2802;DPRA=0,1.08344;EPP=4306.87,1746.7;EPPR=0;GTI=0;LEN=2,4;MEANALT=2.38095,2.46154;MQM=59.944,59.9041;MQMR=0;NS=21;NUMALT=2;ODDS=11.221;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70295,28490;QR=0;RO=0;RPL=0,0;RPP=4306.87,1746.7;RPPR=0;RPR=1982,803;RUN=1,1;SAF=1982,803;SAP=4306.87,1746.7;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:137:0,134,0:0:0:134,0:4762,0:-428.234,-40.338,0,-428.234,-40.338,-428.234 1/1:61:0,61,0:0:0:61,0:2156,0:-194.307,-18.3628,0,-194.307,-18.3628,-194.307 1/2:104:0,42,61:0:0:42,61:1508,2160:-298.958,-175.944,-163.3,-123.012,0,-104.649 1/1:136:0,136,0:0:0:136,0:4819,0:-433.866,-40.9401,0,-433.866,-40.9401,-433.866 1/1:268:0,266,0:0:0:266,0:9406,0:-846.102,-80.074,0,-846.102,-80.074,-846.102 1/2:118:0,61,55:0:0:61,55:2185,1960:-337.739,-159.734,-141.371,-178.017,0,-161.46 1/2:134:0,81,53:0:0:81,53:2868,1897:-388.664,-155.046,-130.663,-233.974,0,-218.019 1/2:262:0,131,131:0:0:131,131:4634,4688:-760.078,-382.646,-343.212,-377.787,0,-338.352 1/2:352:0,155,194:0:0:155,194:5531,6828:-1006.51,-555.609,-508.95,-450.892,0,-392.492 1/2:6:0,1,5:0:0:1,5:36,180:-17.9843,-15.0469,-14.7459,-3.29724,0,-1.79209 1/1:8:0,8,0:0:0:8,0:275,0:-25.0832,-2.40824,0,-25.0832,-2.40824,-25.0832 1/2:65:0,29,36:0:0:29,36:1029,1269:-187.513,-103.675,-94.9452,-84.1918,0,-73.3547 1/1:149:0,147,2:0:0:147,2:5185,72:-466.423,-44.2514,0,-460.548,-38.0167,-459.946 1/1:192:0,189,0:0:0:189,0:6704,0:-603.141,-56.8947,0,-603.141,-56.8947,-603.141 1/2:280:0,156,124:0:0:156,124:5557,4419:-813.494,-360.556,-313.596,-453.293,0,-415.966 1/2:87:0,44,43:0:0:44,43:1552,1513:-249.889,-123.517,-110.272,-126.724,0,-113.779 1/2:50:0,27,23:0:0:27,23:926,797:-140.296,-65.1222,-56.9944,-75.5188,0,-68.5952 1/2:88:0,43,44:0:0:43,44:1537,1571:-253.399,-128.077,-115.133,-125.319,0,-112.074 1/2:92:0,60,32:0:0:60,32:2137,1136:-267.097,-92.9164,-74.8546,-174.536,0,-164.903 1/1:165:0,165,0:0:0:165,0:5849,0:-526.522,-49.67,0,-526.522,-49.67,-526.522 1/1:48:0,46,0:0:0:46,0:1639,0:-147.476,-13.8474,0,-147.476,-13.8474,-147.476 chr06 4701634 . T C 8062.13 PASS AB=0.486559;ABP=4.17776;AC=12;AF=0.285714;AN=42;AO=364;CIGAR=1X;DP=1501;DPB=1501;DPRA=0.81448;EPP=9.11906;EPPR=2330.62;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9947;NS=21;NUMALT=1;ODDS=14.417;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12986;QR=40717;RO=1135;RPL=166;RPP=9.11906;RPPR=2339.07;RPR=198;RUN=1;SAF=364;SAP=793.426;SAR=0;SRF=1134;SRP=2458.95;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:111:108,2:108:3880:2:72:0,-26.5365,-342.605 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:95:48,47:48:1724:47:1688:-123.609,0,-126.848 0/0:108:108,0:108:3850:0:0:0,-32.5112,-346.692 0/0:170:170,0:170:6112:0:0:0,-51.1751,-550.177 0/1:40:18,22:18:644:22:779:-58.3909,0,-46.2494 0/1:71:33,38:33:1188:38:1355:-100.877,0,-85.8555 0/1:106:48,58:48:1728:58:2084:-155.921,0,-123.896 0/1:152:85,67:85:3041:67:2380:-168.699,0,-228.162 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:21:13,8:13:468:8:288:-19.9458,0,-36.138 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 0/0:116:116,0:116:4130:0:0:0,-34.9195,-371.883 0/1:83:42,41:42:1508:41:1459:-106.62,0,-111.029 0/1:26:11,15:11:396:15:540:-41.1098,0,-28.156 0/1:24:17,7:17:612:7:241:-14.8,0,-48.1887 0/1:65:31,34:31:1116:34:1200:-88.7359,0,-81.1847 0/1:52:31,21:31:1116:21:756:-52.7137,0,-85.0981 0/0:128:127,0:127:4564:0:0:0,-38.2308,-410.564 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 chr06 4701687 . A G 24154.4 PASS AB=0.584171;ABP=51.9939;AC=30;AF=0.714286;AN=42;AO=1165;CIGAR=1X;DP=1498;DPB=1498;DPRA=0;EPP=2532.78;EPPR=723.939;GTI=1;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=12.5293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41398;QR=11877;RO=332;RPL=0;RPP=2532.78;RPPR=723.939;RPR=1165;RUN=1;SAF=0;SAP=2532.78;SAR=1165;SRF=0;SRP=723.939;SRR=332;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68:0:0:68:2425:-218.504,-20.47,0 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 0/1:113:40,73:40:1428:73:2565:-197.081,0,-94.8011 1/1:93:0,93:0:0:93:3307:-297.847,-27.9958,0 1/1:145:0,145:0:0:145:5168:-465.26,-43.6494,0 0/1:38:10,28:10:360:28:1004:-79.2367,0,-21.3052 0/1:75:29,46:29:1028:46:1629:-124.32,0,-70.2558 0/1:75:43,32:43:1540:32:1135:-79.8808,0,-116.316 0/1:107:33,74:33:1170:74:2636:-205.277,0,-73.3957 0/1:10:1,9:1:36:9:315:-25.6769,0,-0.587975 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:18:10,8:10:360:8:275:-19.6641,0,-27.3258 1/1:115:0,115:0:0:115:4110:-370.084,-34.6185,0 1/1:97:0,97:0:0:97:3433:-309.184,-29.1999,0 0/1:101:47,54:47:1675:54:1910:-141.772,0,-120.632 0/1:32:19,13:19:684:13:466:-32.6457,0,-52.2574 0/1:41:18,23:18:644:23:815:-61.3285,0,-45.9484 0/1:108:57,51:57:2052:51:1801:-129.858,0,-152.44 0/1:78:24,54:24:864:54:1936:-151.036,0,-54.6022 1/1:96:1,95:1:36:95:3380:-300.816,-25.3006,0 1/1:55:0,54:0:0:54:1908:-171.635,-16.2556,0 chr06 4711367 . A G 4905.69 PASS AB=0.454183;ABP=12.1634;AC=12;AF=0.285714;AN=42;AO=228;CIGAR=1X;DP=887;DPB=887;DPRA=0.977922;EPP=11.5819;EPPR=8.02215;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.49673;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8124;QR=23624;RO=659;RPL=228;RPP=498.106;RPPR=1425.34;RPR=0;RUN=1;SAF=129;SAP=11.5819;SAR=99;SRF=348;SRP=7.52129;SRR=311;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:34:34,0:34:1209:0:0:0,-10.235,-109.114 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/1:11:8,3:8:279:3:108:-6.76384,0,-22.1362 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.898 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 0/1:27:15,12:15:540:12:432:-31.0934,0,-40.8087 0/1:44:20,24:20:716:24:825:-61.3181,0,-51.5224 0/1:29:11,18:11:396:18:644:-49.5607,0,-27.2529 0/1:72:33,39:33:1188:39:1404:-104.985,0,-85.5544 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:23:10,13:10:356:13:464:-35.1738,0,-25.4576 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/1:41:23,18:23:820:18:644:-45.9484,0,-61.7803 0/1:34:14,20:14:504:20:712:-54.1716,0,-35.4631 0/1:18:10,8:10:360:8:288:-20.8489,0,-27.3258 0/1:119:70,49:70:2504:49:1739:-120.971,0,-189.79 0/1:73:57,16:57:2048:16:576:-30.1998,0,-162.616 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/0:90:90,0:90:3228:0:0:0,-27.0927,-290.742 chr06 4782681 . C G 6348.28 PASS AB=0.358476;ABP=235.955;AC=12;AF=0.285714;AN=42;AO=485;CIGAR=1X;DP=2815;DPB=2815;DPRA=0.893564;EPP=1056.17;EPPR=5043.01;GTI=2;LEN=1;MEANALT=1.07143;MQM=54.0351;MQMR=59.6239;NS=21;NUMALT=1;ODDS=6.0046;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17155;QR=82817;RO=2329;RPL=0;RPP=1056.17;RPPR=61.7501;RPR=485;RUN=1;SAF=0;SAP=1056.17;SAR=485;SRF=1041;SRP=59.8928;SRR=1288;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:202:202,0:202:7150:0:0:0,-60.8081,-643.383 0/0:189:189,0:189:6722:0:0:0,-56.8947,-604.994 0/1:88:59,29:59:2068:29:1022:-65.7355,0,-159.766 0/0:155:155,0:155:5524:0:0:0,-46.6596,-497.1 0/0:301:300,1:300:10678:1:36:0,-87.0143,-957.268 0/1:135:85,50:85:3048:50:1770:-118.096,0,-233.91 0/1:125:85,40:85:3036:40:1402:-87.4259,0,-235.761 0/1:134:77,57:77:2721:57:2019:-141.067,0,-204.765 0/1:111:68,43:68:2436:43:1525:-103.917,0,-186.073 0/1:13:7,6:7:240:6:216:-15.8491,0,-18.0119 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.0298 0/1:59:41,18:41:1476:18:644:-40.4244,0,-115.375 0/0:186:186,0:186:6619:0:0:0,-55.9916,-595.775 0/0:153:153,0:153:5461:0:0:0,-46.0576,-491.579 0/1:207:145,62:145:5116:62:2194:-134.721,0,-398.232 0/1:122:58,63:58:2069:63:2252:-166.071,0,-149.841 0/1:101:66,35:66:2359:35:1236:-81.0882,0,-182.153 0/1:154:92,62:92:3271:62:2170:-148.027,0,-248.157 0/1:90:75,15:75:2662:15:525:-20.4356,0,-212.682 0/0:165:161,4:161:5729:4:144:0,-36.3752,-502.38 0/0:113:113,0:113:4000:0:0:0,-34.0164,-360.094 chr06 4842199 . G A 7845.94 PASS AB=0.545998;ABP=18.3922;AC=12;AF=0.285714;AN=42;AO=468;CIGAR=1X;DP=1617;DPB=1617;DPRA=1.14368;EPP=1019.26;EPPR=2498.03;GTI=0;LEN=1;MEANALT=1;MQM=59.6859;MQMR=59.9356;NS=21;NUMALT=1;ODDS=6.77576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16681;QR=41030;RO=1149;RPL=0;RPP=1019.26;RPPR=2498.03;RPR=468;RUN=1;SAF=468;SAP=1019.26;SAR=0;SRF=1149;SRP=2498.03;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:110:105,5:105:3749:5:180:0,-16.5612,-321.057 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 0/1:67:17,50:17:604:50:1783:-140.569,0,-34.5216 0/0:119:119,0:119:4261:0:0:0,-35.8226,-383.649 0/0:166:163,3:163:5799:3:108:0,-39.8958,-511.859 0/1:87:41,46:41:1472:46:1628:-120.597,0,-106.587 0/1:123:62,61:62:2213:61:2192:-160.494,0,-162.398 0/1:66:20,46:20:712:46:1644:-128.376,0,-44.5387 0/1:154:62,92:62:2213:92:3273:-248.429,0,-153.074 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:32:12,20:12:432:20:705:-54.1352,0,-29.5882 0/0:112:112,0:112:4008:0:0:0,-33.7154,-360.815 0/0:69:69,0:69:2460:0:0:0,-20.7711,-221.655 0/1:85:43,42:43:1544:42:1493:-109.075,0,-113.666 0/1:43:20,23:20:693:23:820:-61.1691,0,-49.7452 0/1:28:12,16:12:432:16:557:-42.022,0,-30.7924 0/1:62:26,36:26:936:36:1292:-97.9061,0,-65.8956 0/1:84:61,23:61:2180:23:826:-49.3758,0,-171.18 0/0:85:82,3:82:2925:3:108:0,-15.5124,-253.408 0/0:69:69,0:69:2461:0:0:0,-20.7711,-221.743 chr06 4842211 . C T 24346.7 PASS AB=0.457888;ABP=15.9953;AC=30;AF=0.714286;AN=42;AO=1164;CIGAR=1X;DP=1633;DPB=1633;DPRA=0;EPP=2470.17;EPPR=1012.76;GTI=0;LEN=1;MEANALT=1;MQM=59.9424;MQMR=59.6823;NS=21;NUMALT=1;ODDS=6.31128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41643;QR=16781;RO=469;RPL=7;RPP=2470.17;RPPR=1012.76;RPR=1157;RUN=1;SAF=1164;SAP=2530.6;SAR=0;SRF=469;SRP=1021.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:5,106:5:180:106:3794:-325.105,-16.8623,0 1/1:46:1,45:1:36:45:1599:-140.601,-10.2491,0 0/1:66:49,17:49:1752:17:612:-35.5455,0,-138.084 1/1:118:0,118:0:0:118:4226:-380.502,-35.5215,0 1/1:172:3,169:3:108:169:6033:-532.992,-41.702,0 0/1:87:46,41:46:1648:41:1468:-106.226,0,-122.385 0/1:124:61,63:61:2192:63:2252:-165.607,0,-160.193 0/1:67:46,21:46:1640:21:748:-47.4763,0,-127.715 0/1:158:93,65:93:3318:65:2321:-161.586,0,-251.271 0/1:6:2,4:2:72:4:129:-10.1215,0,-5.03054 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:31:20,11:20:699:11:392:-26.2881,0,-53.8959 1/1:113:0,113:0:0:113:4043:-364.016,-34.0164,0 1/1:70:0,70:0:0:70:2503:-225.522,-21.0721,0 0/1:84:41,43:41:1472:43:1548:-114.327,0,-107.487 0/1:41:23,18:23:824:18:644:-45.948,0,-62.132 0/1:28:16,12:16:576:12:428:-30.43,0,-43.7414 0/1:67:37,30:37:1328:30:1080:-77.3442,0,-99.6394 0/1:84:23,61:23:828:61:2196:-172.619,0,-49.5553 1/1:84:3,81:3:108:81:2908:-251.88,-15.2114,0 1/1:70:0,70:0:0:70:2503:-225.521,-21.0721,0 chr06 4842215 . ATT ATC,GTC 34647.1 PASS AB=0.456265,0.540189;ABP=17.0658,14.879;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1164,469;CIGAR=2M1X,1X1M1X;DP=1639;DPB=1639;DPRA=0,1.04609;EPP=2513.26,1004.13;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.04762,2.25;MQM=59.9278,59.7036;MQMR=0;NS=21;NUMALT=2;ODDS=6.31128;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41523,16489;QR=0;RO=0;RPL=1162,467;RPP=2513.26,1004.13;RPPR=0;RPR=2,2;RUN=1,1;SAF=1164,469;SAP=2530.6,1021.43;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:0,106,5:0:0:106,5:3796,178:-341.481,-31.9092,0,-326.974,-17.0457,-325.469 1/1:47:0,46,1:0:0:46,1:1640,36:-147.529,-13.8474,0,-144.591,-10.5501,-144.29 1/2:68:0,18,50:0:0:18,50:639,1741:-193.977,-141.91,-136.492,-52.4197,0,-37.3682 1/1:117:0,116,0:0:0:116,0:4128,0:-371.342,-34.9195,0,-371.342,-34.9195,-371.342 1/1:172:0,169,3:0:0:169,3:6032,95:-542.56,-50.8741,0,-534.917,-42.9132,-534.014 1/2:87:0,41,46:0:0:41,46:1472,1619:-252.193,-132.114,-119.772,-120.434,0,-106.587 1/2:122:0,61,61:0:0:61,61:2177,2162:-353.94,-176.467,-158.104,-177.829,0,-159.466 1/2:68:0,21,47:0:0:21,47:752,1641:-195.155,-133.825,-127.503,-61.6846,0,-47.5362 1/2:155:0,62,93:0:0:62,93:2220,3285:-448.918,-267.873,-249.209,-181.401,0,-153.405 1/2:6:0,4,2:0:0:4,2:135,72:-17.1607,-6.23466,-5.03054,-11.2784,0,-10.6763 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:32:0,12,20:0:0:12,20:432,704:-92.9112,-57.6592,-54.0468,-35.6088,0,-29.5882 1/1:114:0,114,0:0:0:114,0:4096,0:-368.722,-34.3174,0,-368.722,-34.3174,-368.722 1/1:69:0,69,0:0:0:69,0:2434,0:-219.316,-20.7711,0,-219.316,-20.7711,-219.316 1/2:86:0,44,41:0:0:44,41:1563,1434:-244.014,-116.651,-103.406,-127.356,0,-115.014 1/2:42:0,19,23:0:0:19,23:663,813:-120.481,-66.5581,-60.8385,-54.2739,0,-47.3502 1/2:28:0,12,15:0:0:12,15:428,520:-77.1651,-42.2707,-38.6583,-34.9054,0,-30.39 1/2:67:0,30,36:0:0:30,36:1075,1262:-190.353,-102.676,-93.6446,-87.6727,0,-76.8356 1/2:85:0,62,23:0:0:62,23:2210,819:-247.25,-67.1064,-48.4425,-180.5,0,-173.576 1/1:86:0,82,3:0:0:82,3:2942,108:-264.68,-24.6845,0,-255.867,-15.7898,-254.964 1/1:71:0,70,0:0:0:70,0:2473,0:-222.591,-21.0721,0,-222.591,-21.0721,-222.591 chr06 4842227 . C T 23082.1 PASS AB=0.453559;ABP=18.5406;AC=30;AF=0.714286;AN=42;AO=1125;CIGAR=1X;DP=1589;DPB=1589;DPRA=0;EPP=2394.08;EPPR=993.277;GTI=0;LEN=1;MEANALT=1;MQM=59.9511;MQMR=59.6961;NS=21;NUMALT=1;ODDS=7.89908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39876;QR=16482;RO=464;RPL=1119;RPP=2394.08;RPPR=993.277;RPR=6;RUN=1;SAF=1125;SAP=2445.92;SAR=0;SRF=464;SRP=1010.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:4,99:4:144:99:3529:-304.505,-17.6925,0 1/1:47:1,46:1:36:46:1636:-143.93,-10.5501,0 0/1:66:49,17:49:1728:17:604:-34.8226,0,-135.92 1/1:113:0,113:0:0:113:4005:-360.64,-34.0164,0 1/1:166:3,163:3:108:163:5785:-510.671,-39.8958,0 0/1:85:46,39:46:1629:39:1378:-98.7297,0,-121.276 0/1:117:59,58:59:2092:58:2071:-151.431,0,-153.303 0/1:66:46,20:46:1638:20:712:-44.5387,0,-127.835 0/1:154:92,62:92:3269:62:2199:-151.817,0,-248.069 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:32:20,12:20:708:12:419:-28.4097,0,-54.408 1/1:111:0,111:0:0:111:3933:-354.142,-33.4143,0 1/1:65:0,65:0:0:65:2305:-207.711,-19.567,0 0/1:83:41,42:41:1468:42:1504:-110.669,0,-107.428 0/1:42:23,19:23:828:19:655:-46.6273,0,-62.1918 0/1:30:16,14:16:576:14:496:-35.9434,0,-43.1394 0/1:66:37,29:37:1310:29:1027:-72.8742,0,-98.3183 0/1:83:22,61:22:768:61:2152:-168.96,0,-44.4521 1/1:84:3,81:3:108:81:2864:-247.922,-15.2114,0 1/1:66:0,66:0:0:66:2314:-208.518,-19.868,0 chr06 4842241 . G A 7832.87 PASS AB=0.54038;ABP=14.9353;AC=12;AF=0.285714;AN=42;AO=467;CIGAR=1X;DP=1630;DPB=1630;DPRA=1.06048;EPP=1008.42;EPPR=2463.66;GTI=0;LEN=1;MEANALT=1.125;MQM=59.6981;MQMR=59.9621;NS=21;NUMALT=1;ODDS=6.23827;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16637;QR=41355;RO=1161;RPL=466;RPP=1008.42;RPPR=2463.66;RPR=1;RUN=1;SAF=467;SAP=1017.09;SAR=0;SRF=1161;SRP=2524.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:110:105,5:105:3747:5:180:0,-16.5612,-320.879 0/0:49:48,1:48:1720:1:36:0,-11.1522,-151.487 0/1:66:17,49:17:593:49:1723:-135.472,0,-33.8267 0/0:116:116,0:116:4143:0:0:0,-34.9195,-373.054 0/0:171:167,3:167:5967:3:108:0,-41.4598,-526.974 0/1:89:41,48:41:1459:48:1716:-127.9,0,-104.814 0/1:121:61,60:61:2179:60:2156:-157.866,0,-159.943 0/1:66:19,46:19:684:46:1656:-129.397,0,-41.9636 0/1:157:65,92:65:2288:92:3260:-246.355,0,-158.919 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:30:11,19:11:396:19:676:-52.1325,0,-26.9518 0/0:111:111,0:111:3943:0:0:0,-33.4143,-355.046 0/0:69:69,0:69:2452:0:0:0,-20.7711,-220.936 0/1:86:44,42:44:1572:42:1500:-109.404,0,-115.883 0/1:42:19,23:19:667:23:824:-61.831,0,-47.7114 0/1:29:13,16:13:453:16:546:-40.7292,0,-32.3698 0/1:66:31,35:31:1104:35:1252:-93.1033,0,-79.8027 0/1:84:61,23:61:2169:23:828:-49.5553,0,-170.188 0/0:87:84,3:84:2995:3:104:0,-16.4868,-260.079 0/0:69:69,0:69:2464:0:0:0,-20.7711,-222.014 chr06 4848954 . A G 4687.39 PASS AB=0.443038;ABP=18.5954;AC=10;AF=0.238095;AN=42;AO=249;CIGAR=1X;DP=958;DPB=958;DPRA=1.31466;EPP=252.084;EPPR=415.526;GTI=0;LEN=1;MEANALT=1;MQM=59.9036;MQMR=60;NS=21;NUMALT=1;ODDS=2.27457;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8814;QR=25227;RO=709;RPL=0;RPP=543.707;RPPR=1542.58;RPR=249;RUN=1;SAF=40;SAP=252.084;SAR=209;SRF=171;SRP=415.526;SRR=538;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:20:20,0:20:701:0:0:0,-6.0206,-63.4117 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.864 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:13:5,8:5:176:8:288:-22.354,0,-12.2716 0/1:20:14,6:14:500:6:212:-13.4042,0,-39.3156 0/0:15:14,1:14:500:1:36:0,-0.917175,-41.7379 0/1:20:12,8:12:428:8:273:-18.8796,0,-32.8382 0/1:52:32,20:32:1152:20:711:-48.6621,0,-88.3366 0/0:129:129,0:129:4579:0:0:0,-38.8329,-412.276 0/0:42:39,3:39:1387:3:108:0,-2.56809,-115.053 0/0:27:27,0:27:956:0:0:0,-8.12781,-86.3557 0/0:21:21,0:21:747:0:0:0,-6.32163,-67.5543 0/1:18:9,9:9:320:9:320:-23.7238,0,-23.7238 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/1:11:8,3:8:284:3:108:-6.76384,0,-22.592 0/1:348:182,166:182:6474:166:5875:-423.976,0,-477.988 0/1:60:41,19:41:1463:19:667:-42.2928,0,-113.903 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:62:62,0:62:2193:0:0:0,-18.6639,-197.634 chr06 4848990 . A G 18040.7 PASS AB=0.560144;ABP=20.5107;AC=32;AF=0.761905;AN=42;AO=718;CIGAR=1X;DP=967;DPB=967;DPRA=0;EPP=439.724;EPPR=252.084;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9036;NS=21;NUMALT=1;ODDS=2.49148;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25625;QR=8923;RO=249;RPL=718;RPP=1562.13;RPPR=526.475;RPR=0;RUN=1;SAF=169;SAP=439.724;SAR=549;SRF=38;SRP=264.014;SRR=211;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:14:0,14:0:0:14:495:-44.883,-4.21442,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:27:0,27:0:0:27:952:-85.9952,-8.12781,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 0/1:13:8,5:8:284:5:180:-12.6387,0,-21.99 0/1:20:6,14:6:212:14:500:-39.3156,0,-13.4042 1/1:15:1,14:1:36:14:496:-41.376,-0.917175,0 0/1:20:7,13:7:248:13:468:-36.439,0,-16.6436 0/1:55:21,34:21:756:34:1205:-92.1972,0,-51.8106 1/1:133:0,133:0:0:133:4753:-427.927,-40.037,0 1/1:42:3,39:3:108:39:1396:-115.864,-2.56809,0 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 1/1:21:0,21:0:0:21:739:-66.8315,-6.32163,0 0/1:18:9,9:9:324:9:320:-23.7238,0,-24.0873 0/1:6:1,5:1:36:5:168:-13.6434,0,-1.79209 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/1:349:167,182:167:5983:182:6500:-480.025,0,-433.246 0/1:60:19,41:19:684:41:1476:-115.074,0,-43.8285 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 1/1:64:0,64:0:0:64:2277:-205.191,-19.2659,0 chr06 4848999 . T G 17919.4 PASS AB=0.550802;ABP=15.5863;AC=32;AF=0.761905;AN=42;AO=713;CIGAR=1X;DP=969;DPB=969;DPRA=0;EPP=440.475;EPPR=269.795;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.74456;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25492;QR=9083;RO=255;RPL=713;RPP=1551.27;RPPR=556.736;RPR=0;RUN=1;SAF=167;SAP=440.475;SAR=546;SRF=39;SRP=269.795;SRR=216;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:13:0,13:0:0:13:460:-41.7354,-3.91339,0 1/1:20:0,20:0:0:20:707:-63.9546,-6.0206,0 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 1/1:28:0,28:0:0:28:995:-89.864,-8.42884,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 0/1:13:8,5:8:288:5:176:-12.2716,0,-22.354 0/1:20:6,14:6:212:14:500:-39.3156,0,-13.4042 1/1:15:1,14:1:36:14:500:-41.7379,-0.917175,0 0/1:21:8,13:8:273:13:468:-36.138,0,-18.5786 0/1:55:21,34:21:741:34:1220:-93.5502,0,-50.4549 1/1:133:0,133:0:0:133:4761:-428.646,-40.037,0 1/1:42:3,39:3:108:39:1400:-116.224,-2.56809,0 1/1:24:0,24:0:0:24:855:-77.2702,-7.22472,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 0/1:17:9,8:9:324:8:284:-20.7858,0,-24.3883 0/1:6:1,5:1:36:5:176:-14.3788,0,-1.79209 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/1:353:171,181:171:6116:181:6482:-477.141,0,-444.219 0/1:59:19,40:19:661:40:1428:-111.057,0,-42.0508 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:64:0,64:0:0:64:2280:-205.462,-19.2659,0 chr06 4849008 . G A 4620.83 PASS AB=0.439201;ABP=20.7013;AC=10;AF=0.238095;AN=42;AO=246;CIGAR=1X;DP=952;DPB=952;DPRA=1.32558;EPP=270.26;EPPR=470.83;GTI=0;LEN=1;MEANALT=1;MQM=59.9024;MQMR=60;NS=21;NUMALT=1;ODDS=2.27311;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8773;QR=25225;RO=706;RPL=246;RPP=537.193;RPPR=1536.07;RPR=0;RUN=1;SAF=36;SAP=270.26;SAR=210;SRF=158;SRP=470.83;SRR=548;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/1:12:5,7:5:176:7:252:-19.4166,0,-12.5727 0/1:20:14,6:14:488:6:212:-13.4042,0,-38.2298 0/0:15:14,1:14:489:1:36:0,-0.917175,-40.7406 0/1:20:12,8:12:428:8:284:-19.8828,0,-32.8382 0/1:55:34,21:34:1220:21:752:-51.4496,0,-93.5502 0/0:132:132,0:132:4724:0:0:0,-39.736,-425.319 0/0:42:39,3:39:1392:3:108:0,-2.56809,-115.504 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:16:8,8:8:279:8:288:-21.4509,0,-20.6311 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:11:8,3:8:279:3:108:-6.76384,0,-22.1362 0/1:350:183,167:183:6542:167:5949:-430.029,0,-483.502 0/1:55:39,16:39:1396:16:568:-34.8952,0,-109.382 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.947 chr06 4897991 . 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A T 68250.6 PASS AB=0.501048;ABP=3.0467;AC=30;AF=0.714286;AN=42;AO=3615;CIGAR=1X;DP=5525;DPB=5525;DPRA=0;EPP=7852.88;EPPR=4148.35;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9649;MQMR=59.9576;NS=21;NUMALT=1;ODDS=10.1799;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=125454;QR=68328;RO=1909;RPL=3615;RPP=7852.88;RPPR=4148.35;RPR=0;RUN=1;SAF=0;SAP=7852.88;SAR=3615;SRF=0;SRP=4148.35;SRR=1909;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:84:0,84:0:0:84:2937:-264.076,-25.2865,0 1/1:74:0,74:0:0:74:2581:-232.541,-22.2762,0 0/1:51:23,28:23:824:28:965:-71.8065,0,-59.1308 1/1:82:1,81:1:36:81:2826:-250.982,-21.0862,0 1/1:141:0,141:0:0:141:4857:-437.297,-42.4452,0 0/1:64:29,35:29:1044:35:1190:-88.132,0,-75.0089 0/1:124:70,54:70:2512:54:1859:-130.256,0,-189.004 0/1:142:60,81:60:2152:81:2811:-209.828,0,-151.142 0/1:107:56,51:56:2004:51:1792:-129.351,0,-148.153 0/1:1367:711,656:711:25447:656:22754:-1635.82,0,-1877.58 1/1:1048:1,1047:1:36:1047:36432:-3274.24,-311.881,0 0/1:591:265,326:265:9484:326:11019:-813.759,0,-675.581 1/1:54:0,54:0:0:54:1849:-166.689,-16.2556,0 1/1:91:2,89:2:72:89:3101:-272.485,-20.557,0 0/1:169:74,95:74:2644:95:3238:-240.774,0,-187.333 0/1:76:38,38:38:1360:38:1298:-94.2365,0,-99.7939 0/1:55:34,21:34:1212:21:717:-48.2891,0,-92.8297 0/1:1008:519,489:519:18577:489:17214:-1245.48,0,-1368.06 0/1:64:25,39:25:888:39:1384:-105.593,0,-60.9731 1/1:73:1,72:1:36:72:2482:-220.036,-18.3769,0 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 chr06 4898559 . A C 35510.9 PASS AB=0.509117;ABP=6.059;AC=12;AF=0.285714;AN=42;AO=2169;CIGAR=1X;DP=6155;DPB=6155;DPRA=2.73938;EPP=4712.93;EPPR=8645.47;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.9986;MQMR=59.996;NS=21;NUMALT=1;ODDS=4.1799;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76058;QR=139241;RO=3980;RPL=4;RPP=4678.25;RPPR=8645.47;RPR=2165;RUN=1;SAF=4;SAP=4678.25;SAR=2165;SRF=0;SRP=8645.47;SRR=3980;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:135:132,3:132:4636:3:108:0,-30.5639,-407.332 0/0:71:69,2:69:2435:2:68:0,-14.9154,-212.949 0/1:147:62,85:62:2177:85:2964:-222.742,0,-151.944 0/0:109:109,0:109:3764:0:0:0,-32.8123,-338.965 0/0:186:180,6:180:6344:6:216:0,-36.2011,-551.266 0/1:101:46,55:46:1636:55:1942:-144.651,0,-117.125 0/1:141:71,70:71:2477:70:2443:-177.679,0,-180.737 0/1:205:109,96:109:3808:96:3384:-243.066,0,-281.21 0/1:263:150,113:150:5304:113:3974:-278.683,0,-398.329 0/1:841:429,411:429:14996:411:14417:-1044.13,0,-1096.21 0/0:967:959,5:959:33620:5:166:0,-275.277,-3009.55 0/1:959:450,509:450:15774:509:17899:-1321.86,0,-1130.7 0/0:186:186,0:186:6592:0:0:0,-55.9916,-593.367 0/0:137:136,1:136:4731:1:36:0,-37.6428,-422.358 0/1:144:74,70:74:2568:70:2458:-178.124,0,-188.02 0/1:77:34,43:34:1216:43:1522:-114.092,0,-86.5673 0/1:99:38,61:38:1338:61:2155:-164.415,0,-90.9165 0/1:1165:563,600:563:19423:600:20940:-1533.68,0,-1397.22 0/1:81:44,37:44:1548:37:1294:-92.3761,0,-115.226 0/0:83:81,2:81:2844:2:72:0,-18.1488,-249.36 0/0:58:58,0:58:2010:0:0:0,-17.4597,-181.168 chr06 4965745 . C T 17103.7 PASS AB=0.488688;ABP=4.72979;AC=12;AF=0.285714;AN=42;AO=762;CIGAR=1X;DP=2682;DPB=2682;DPRA=1.3604;EPP=1657.67;EPPR=4172.24;GTI=0;LEN=1;MEANALT=1;MQM=59.9843;MQMR=60;NS=21;NUMALT=1;ODDS=10.6416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27143;QR=67932;RO=1920;RPL=357;RPP=9.57601;RPPR=20.4002;RPR=405;RUN=1;SAF=357;SAP=9.57601;SAR=405;SRF=898;SRP=20.4002;SRR=1022;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:146,0:146:5173:0:0:0,-43.9504,-465.712 0/0:109:109,0:109:3882:0:0:0,-32.8123,-349.575 0/1:97:38,59:38:1340:59:2093:-159.438,0,-91.6974 0/0:133:133,0:133:4741:0:0:0,-40.037,-426.846 0/0:251:249,2:249:8759:2:63:0,-69.5754,-782.328 0/1:96:49,47:49:1756:47:1687:-123.218,0,-129.425 0/1:192:92,100:92:3295:100:3540:-261.009,0,-238.971 0/1:218:99,119:99:3473:119:4253:-317.324,0,-247.156 0/1:194:103,91:103:3651:91:3247:-234.052,0,-270.394 0/1:18:7,11:7:244:11:396:-30.5642,0,-16.8809 0/0:5:5,0:5:165:0:0:0,-1.50515,-15.1736 0/1:20:13,7:13:468:7:252:-17.0084,0,-36.439 0/0:127:126,1:126:4457:1:36:0,-34.6325,-397.703 0/0:129:128,1:128:4565:1:36:0,-35.2346,-407.418 0/1:241:126,115:126:4468:115:4113:-297.807,0,-329.741 0/1:103:42,61:42:1477:61:2153:-163.029,0,-102.216 0/1:84:41,43:41:1459:43:1535:-113.156,0,-106.319 0/1:153:88,65:88:3057:65:2324:-163.361,0,-229.301 0/1:131:93,38:93:3254:38:1348:-82.1834,0,-253.643 0/0:127:125,2:125:4437:2:67:0,-31.8687,-393.139 0/0:108:108,0:108:3811:0:0:0,-32.5112,-343.189 chr06 5046962 . TTA CTT,CTA 55961.4 PASS AB=0.497778,0.500741;ABP=3.06821,3.01673;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1959,686;CIGAR=1X1M1X,1X2M;DP=2652;DPB=2652;DPRA=33.1,1.05058;EPP=4256.92,1492.64;EPPR=0;GTI=1;LEN=3,1;MEANALT=2,2.25;MQM=59.6197,59.965;MQMR=0;NS=21;NUMALT=2;ODDS=11.9966;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69166,24476;QR=0;RO=0;RPL=0,0;RPP=4256.92,1492.64;RPPR=0;RPR=1959,686;RUN=1,1;SAF=0,0;SAP=4256.92,1492.64;SAR=1959,686;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:145:0,142,2:0:0:142,2:5038,72:-453.033,-42.7463,0,-447.158,-36.8714,-446.556 1/1:102:0,102,0:0:0:102,0:3584,0:-322.764,-30.7051,0,-322.764,-30.7051,-322.764 1/2:179:0,85,94:0:0:85,94:3053,3358:-523.188,-274.139,-248.552,-249.407,0,-221.11 1/1:189:0,186,1:0:0:186,1:6511,36:-585.723,-55.9916,0,-582.785,-53.0425,-582.484 1/1:295:0,295,0:0:0:295,0:10382,0:-934.145,-88.8039,0,-934.145,-88.8039,-934.145 1/2:114:0,63,51:0:0:63,51:2234,1809:-329.697,-147.737,-128.772,-182.314,0,-166.962 1/2:186:0,71,114:0:0:71,114:2533,4088:-539.677,-333.417,-312.043,-206.257,0,-171.94 1/2:156:0,92,64:0:0:92,64:3228,2289:-449.692,-187.005,-159.31,-263.042,0,-243.776 1/2:215:0,98,117:0:0:98,117:3482,4171:-624.04,-340.352,-310.851,-284.043,0,-248.823 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/1:8:0,8,0:0:0:8,0:278,0:-25.3486,-2.40824,0,-25.3486,-2.40824,-25.3486 1/2:50:0,32,18:0:0:32,18:1137,637:-144.891,-52.2394,-42.6065,-93.0054,0,-87.5869 1/1:147:0,147,0:0:0:147,0:5224,0:-470.203,-44.2514,0,-470.203,-44.2514,-470.203 1/1:218:0,217,1:0:0:217,1:7614,36:-684.627,-65.3235,0,-681.689,-62.0263,-681.388 1/2:176:0,82,94:0:0:82,94:2922,3357:-512.21,-274.046,-249.362,-238.521,0,-210.224 1/2:80:0,44,36:0:0:44,36:1563,1288:-232.745,-105.387,-92.1412,-127.715,0,-116.878 1/2:85:0,44,41:0:0:44,41:1549,1452:-244.727,-118.63,-105.385,-126.45,0,-114.108 1/2:41:0,16,25:0:0:16,25:568,896:-119.704,-73.4346,-68.6181,-46.626,0,-39.1002 1/2:68:0,45,22:0:0:45,22:1589,771:-192.121,-62.7282,-49.1819,-129.385,0,-122.762 1/1:138:0,134,2:0:0:134,2:4692,72:-422.077,-40.338,0,-416.202,-34.4407,-415.6 1/1:56:0,56,0:0:0:56,0:1985,0:-178.895,-16.8577,0,-178.895,-16.8577,-178.895 chr06 5047706 . C T 3584.86 PASS AB=0.348226;ABP=155.273;AC=12;AF=0.285714;AN=42;AO=270;CIGAR=1X;DP=1454;DPB=1454;DPRA=1.0396;EPP=589.308;EPPR=2571.86;GTI=2;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9789;NS=21;NUMALT=1;ODDS=1.94693;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9659;QR=42384;RO=1183;RPL=270;RPP=589.308;RPPR=2571.86;RPR=0;RUN=1;SAF=270;SAP=589.308;SAR=0;SRF=1183;SRP=2571.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:101:101,0:101:3604:0:0:0,-30.404,-324.567 0/0:40:37,3:37:1328:3:104:0,-2.33839,-110.119 0/1:91:61,30:61:2188:30:1072:-69.3987,0,-169.792 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.682 0/0:201:200,1:200:7172:1:36:0,-56.9088,-641.936 0/1:50:36,14:36:1288:14:500:-30.2847,0,-101.172 0/1:81:53,28:53:1896:28:1000:-65.9319,0,-146.535 0/1:81:48,33:48:1728:33:1188:-82.8452,0,-131.422 0/1:143:95,48:95:3392:48:1724:-112.398,0,-262.449 0/1:12:10,2:10:360:2:72:-3.22436,0,-29.1315 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:26:11,15:11:396:15:540:-41.1098,0,-28.156 0/0:91:91,0:91:3252:0:0:0,-27.3937,-292.902 0/0:81:81,0:81:2888:0:0:0,-24.3834,-260.071 0/1:89:55,34:55:1976:34:1220:-83.3151,0,-151.323 0/1:37:23,14:23:824:14:504:-34.56,0,-63.3452 0/1:30:24,6:24:864:6:212:-10.3939,0,-69.0508 0/1:71:42,29:42:1512:29:1023:-71.0086,0,-115.001 0/1:50:37,12:37:1324:12:428:-23.7488,0,-104.352 0/0:71:71,0:71:2548:0:0:0,-21.3731,-229.57 0/0:48:47,1:47:1688:1:36:0,-10.8512,-148.609 chr06 5047714 . G A 24304.8 PASS AB=0.652344;ABP=157.829;AC=30;AF=0.714286;AN=42;AO=1190;CIGAR=1X;DP=1461;DPB=1461;DPRA=0;EPP=2587.06;EPPR=589.308;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.9773;MQMR=60;NS=21;NUMALT=1;ODDS=1.14506;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41890;QR=9664;RO=270;RPL=0;RPP=2587.06;RPPR=589.308;RPR=1190;RUN=1;SAF=1190;SAP=2587.06;SAR=0;SRF=270;SRP=589.308;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,103:0:0:103:3642:-327.985,-31.0061,0 1/1:39:2,37:2:72:37:1270:-107.759,-4.90345,0 0/1:93:32,61:32:1148:61:2103:-161.54,0,-75.634 1/1:47:0,47:0:0:47:1618:-145.902,-14.1484,0 1/1:203:1,202:1:36:202:7079:-633.584,-57.5108,0 0/1:52:14,38:14:504:38:1348:-105.967,0,-30.0445 0/1:82:28,54:28:1004:54:1904:-146.951,0,-65.9914 0/1:85:33,52:33:1184:52:1832:-139.573,0,-81.2808 0/1:144:49,95:49:1741:95:3372:-260.348,0,-113.624 0/1:10:1,9:1:36:9:316:-25.7684,0,-0.587975 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:25:14,11:14:504:11:392:-28.0943,0,-38.1723 1/1:92:0,92:0:0:92:3258:-293.44,-27.6948,0 1/1:79:0,79:0:0:79:2746:-247.344,-23.7814,0 0/1:90:35,55:35:1260:55:1948:-148.503,0,-86.6128 0/1:37:13,24:13:468:24:848:-65.5015,0,-31.3215 0/1:30:6,24:6:216:24:844:-67.248,0,-10.7596 0/1:70:29,40:29:1031:40:1432:-108.047,0,-71.9719 0/1:50:12,38:12:424:38:1360:-107.649,0,-23.4449 1/1:71:0,71:0:0:71:2494:-224.711,-21.3731,0 1/1:48:1,47:1:36:47:1688:-148.609,-10.8512,0 chr06 5047803 . T C 3228.57 PASS AB=0.330176;ABP=188.132;AC=12;AF=0.285714;AN=42;AO=246;CIGAR=1X;DP=1376;DPB=1376;DPRA=0.935475;EPP=537.193;EPPR=2456.77;GTI=2;LEN=1;MEANALT=1;MQM=59.9919;MQMR=60;NS=21;NUMALT=1;ODDS=3.30268;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8745;QR=40441;RO=1130;RPL=246;RPP=537.193;RPPR=2456.77;RPR=0;RUN=1;SAF=0;SAP=537.193;SAR=246;SRF=0;SRP=2456.77;SRR=1130;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:67,0:67:2385:0:0:0,-20.169,-214.906 0/0:54:54,0:54:1925:0:0:0,-16.2556,-173.525 0/1:56:29,27:29:1044:27:968:-70.5797,0,-77.4171 0/0:89:89,0:89:3184:0:0:0,-26.7917,-286.784 0/0:91:89,2:89:3177:2:72:0,-20.557,-279.316 0/1:58:48,10:48:1720:10:356:-14.9215,0,-137.626 0/1:78:57,21:57:2052:21:748:-44.165,0,-161.471 0/1:87:41,46:41:1457:46:1637:-121.427,0,-105.234 0/1:76:34,42:34:1216:42:1480:-110.613,0,-86.8683 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:29:26,3:26:928:3:108:-1.3453,0,-75.1084 0/0:104:104,0:104:3713:0:0:0,-31.3071,-334.371 0/0:88:88,0:88:3148:0:0:0,-26.4906,-283.546 0/1:92:69,23:69:2472:23:820:-46.4278,0,-195.039 0/1:28:21,7:21:756:7:252:-14.6001,0,-59.9384 0/1:63:57,6:57:2048:6:212:-0.459908,0,-165.627 0/1:92:59,33:59:2112:33:1176:-78.4516,0,-162.654 0/1:70:48,22:48:1720:22:772:-48.7292,0,-134.013 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.449 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.83 chr06 5050924 . CCAGAC CCAGACAGAC 4084.15 PASS AB=0.490046;ABP=3.57229;AC=12;AF=0.285714;AN=42;AO=321;CIGAR=1M4I5M;DP=1114;DPB=1329.17;DPRA=1.21761;EPP=700.053;EPPR=1716.3;GTI=0;LEN=4;MEANALT=1.23077;MQM=35.9221;MQMR=59.7503;NS=21;NUMALT=1;ODDS=5.32315;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10906;QR=27163;RO=789;RPL=321;RPP=700.053;RPPR=1716.3;RPR=0;RUN=1;SAF=321;SAP=700.053;SAR=0;SRF=789;SRP=1716.3;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:47,0:47:1623:0:0:0,-14.1484,-146.358 0/0:21:21,0:21:732:0:0:0,-6.32163,-66.2009 0/1:60:31,28:31:1075:28:946:-61.4034,0,-78.9573 0/0:52:52,0:52:1813:0:0:0,-15.6536,-163.449 0/0:87:86,1:86:2990:1:36:0,-22.8906,-266.022 0/1:67:34,33:34:1183:33:1113:-74.4984,0,-86.6038 0/1:61:28,33:28:956:33:1120:-76.9959,0,-67.9767 0/1:55:26,29:26:912:29:984:-66.3106,0,-65.8398 0/1:114:48,65:48:1676:65:2185:-147.941,0,-116.79 0/1:6:4,2:4:143:2:72:-4.46197,0,-11.4153 0/0:5:5,0:5:173:0:0:0,-1.50515,-15.9081 0/1:11:5,6:5:172:6:207:-14.4238,0,-12.5069 0/0:91:91,0:91:3161:0:0:0,-27.3937,-284.642 0/0:70:70,0:70:2276:0:0:0,-21.0721,-205.101 0/1:92:43,49:43:1487:49:1703:-114.272,0,-106.421 0/1:27:13,14:13:438:14:479:-31.8303,0,-31.6145 0/1:35:19,15:19:620:15:508:-31.9277,0,-45.5148 0/1:67:40,27:40:1359:27:933:-57.901,0,-102.43 0/1:58:39,19:39:1355:19:620:-35.2373,0,-104.785 0/0:62:61,0:61:2120:0:0:0,-18.3628,-190.476 0/0:26:26,0:26:899:0:0:0,-7.82678,-81.2221 chr06 5115291 . A G 16579.1 PASS AB=0.507607;ABP=3.73713;AC=12;AF=0.285714;AN=42;AO=741;CIGAR=1X;DP=2479;DPB=2479;DPRA=1.28068;EPP=1603.4;EPPR=3757.51;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9892;MQMR=59.9827;NS=21;NUMALT=1;ODDS=13.13;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26193;QR=61738;RO=1737;RPL=333;RPP=19.4941;RPPR=8.62212;RPR=408;RUN=1;SAF=332;SAP=20.385;SAR=409;SRF=833;SRP=9.3122;SRR=904;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:78,0:78:2761:0:0:0,-23.4803,-248.732 0/0:104:103,1:103:3671:1:36:0,-27.7088,-326.996 0/1:98:44,54:44:1576:54:1924:-143.936,0,-112.631 0/0:114:114,0:114:4052:0:0:0,-34.3174,-364.868 0/0:163:159,4:159:5657:4:144:0,-35.7543,-495.939 0/1:174:79,95:79:2800:95:3377:-251.758,0,-199.86 0/1:173:87,85:87:3108:85:3030:-220.794,0,-227.811 0/1:160:76,84:76:2711:84:2987:-220.898,0,-196.069 0/1:197:95,102:95:3400:102:3553:-260.677,0,-246.912 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/0:15:15,0:15:521:0:0:0,-4.51545,-47.2163 0/1:37:16,21:16:572:21:729:-54.7906,0,-40.6753 0/0:151:151,0:151:5397:0:0:0,-45.4555,-485.86 0/0:176:174,2:174:6131:2:72:0,-46.1446,-545.063 0/1:147:68,79:68:2423:79:2809:-208.799,0,-174.074 0/1:48:22,26:22:779:26:917:-68.3962,0,-55.9826 0/1:100:47,53:47:1659:53:1881:-139.464,0,-119.494 0/1:185:103,82:103:3643:82:2869:-202.754,0,-272.383 0/1:118:68,50:68:2413:50:1757:-122.89,0,-181.904 0/0:128:128,0:128:4567:0:0:0,-38.5318,-411.197 0/0:104:104,0:104:3681:0:0:0,-31.3071,-331.223 chr06 5160097 . 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T C 6775.5 PASS AB=0.482436;ABP=5.29874;AC=12;AF=0.285714;AN=42;AO=413;CIGAR=1X;DP=1470;DPB=1470;DPRA=1.06294;EPP=899.828;EPPR=2298.26;GTI=0;LEN=1;MEANALT=1;MQM=59.9443;MQMR=59.9934;NS=21;NUMALT=1;ODDS=10.3056;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14732;QR=37861;RO=1057;RPL=0;RPP=899.828;RPPR=2298.26;RPR=413;RUN=1;SAF=413;SAP=899.828;SAR=0;SRF=1057;SRP=2298.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:76,1:76:2712:1:32:0,-19.98,-241.125 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:110:66,44:66:2360:44:1572:-108.658,0,-179.545 0/0:74:74,0:74:2664:0:0:0,-22.2762,-240.005 0/0:108:108,0:108:3864:0:0:0,-32.5112,-347.956 0/1:39:24,15:24:864:15:540:-37.1964,0,-66.3424 0/1:95:52,43:52:1856:43:1517:-108.224,0,-138.722 0/1:154:69,85:69:2476:85:3040:-227.472,0,-176.735 0/1:69:25,44:25:896:44:1568:-120.641,0,-60.1893 0/1:19:7,12:7:233:12:432:-33.4314,0,-15.5747 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:41:24,17:24:864:17:604:-42.3484,0,-65.7403 0/0:108:108,0:108:3880:0:0:0,-32.5112,-349.393 0/0:114:114,0:114:4068:0:0:0,-34.3174,-366.305 0/1:102:54,48:54:1928:48:1720:-124.38,0,-143.092 0/1:19:14,5:14:504:5:180:-10.8325,0,-39.9785 0/1:36:11,25:11:396:25:892:-69.7626,0,-25.1448 0/1:114:57,57:57:2044:57:2039:-149.464,0,-149.914 0/1:56:39,17:39:1404:17:596:-37.1055,0,-109.802 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.186 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 chr06 5171033 . 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T A 23300.3 PASS AB=0.532854;ABP=12.1421;AC=30;AF=0.714286;AN=42;AO=1211;CIGAR=1X;DP=1673;DPB=1673;DPRA=0;EPP=2632.66;EPPR=1004.06;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9769;MQMR=60;NS=21;NUMALT=1;ODDS=10.0852;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41650;QR=16066;RO=461;RPL=0;RPP=2632.66;RPPR=1004.06;RPR=1211;RUN=1;SAF=0;SAP=2632.66;SAR=1211;SRF=0;SRP=1004.06;SRR=461;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:1,58:1:36:58:2001:-176.762,-14.1625,0 1/1:110:0,110:0:0:110:3721:-335.102,-33.1133,0 0/1:85:42,43:42:1446:43:1495:-109.255,0,-104.843 1/1:125:0,125:0:0:125:4291:-386.381,-37.6288,0 1/1:127:4,123:4:140:123:4212:-366.324,-25.2862,0 0/1:103:46,57:46:1615:57:1986:-148.005,0,-114.632 0/1:173:79,94:79:2727:94:3247:-240.377,0,-193.598 0/1:71:24,47:24:840:47:1575:-120.66,0,-54.5451 0/1:155:87,68:87:3030:68:2367:-166.628,0,-226.276 0/1:11:6,5:6:208:5:157:-11.1282,0,-15.7478 1/1:4:0,4:0:0:4:131:-12.1135,-1.20412,0 0/1:16:6,10:6:199:10:348:-26.8387,0,-13.419 1/1:50:0,50:0:0:50:1680:-151.48,-15.0515,0 1/1:98:0,98:0:0:98:3373:-303.792,-29.5009,0 0/1:84:37,47:37:1308:47:1631:-121.791,0,-92.735 0/1:63:27,35:27:956:35:1187:-88.1051,0,-67.3323 0/1:81:45,36:45:1560:36:1248:-88.2348,0,-116.304 0/1:75:34,41:34:1181:41:1410:-104.614,0,-84.015 0/1:57:21,36:21:748:36:1268:-97.264,0,-50.4866 1/1:81:2,79:2:72:79:2710:-237.308,-17.5467,0 1/1:45:0,45:0:0:45:1612:-145.37,-13.5464,0 chr06 5187963 . 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C T 17106.8 PASS AB=0.441632;ABP=24.0501;AC=30;AF=0.714286;AN=42;AO=715;CIGAR=1X;DP=1117;DPB=1117;DPRA=0;EPP=154.038;EPPR=14.4402;GTI=1;LEN=1;MEANALT=1;MQM=59.8615;MQMR=59.995;NS=21;NUMALT=1;ODDS=1.55467;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24545;QR=14411;RO=402;RPL=469;RPP=154.038;RPPR=14.4402;RPR=246;RUN=1;SAF=0;SAP=1555.61;SAR=715;SRF=0;SRP=875.942;SRR=402;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,78:0:0:78:2711:-244.235,-23.4803,0 1/1:16:1,15:1:36:15:490:-40.8127,-1.21821,0 0/1:75:41,34:41:1472:34:1184:-84.2874,0,-110.199 1/1:34:0,34:0:0:34:1180:-105.876,-10.235,0 1/1:79:2,77:2:72:77:2683:-234.82,-16.9451,0 0/1:60:35,25:35:1252:25:838:-57.6644,0,-94.9229 0/1:92:64,28:64:2296:28:988:-61.5391,0,-179.206 0/1:54:22,32:22:784:32:1105:-83.4988,0,-54.6283 0/1:137:81,56:81:2912:56:1945:-134.084,0,-221.073 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:14:7,7:7:252:7:236:-17.3555,0,-18.8145 1/1:66:0,66:0:0:66:2302:-207.439,-19.868,0 1/1:46:0,46:0:0:46:1530:-137.978,-13.8474,0 0/1:103:61,42:61:2179:42:1446:-99.3551,0,-165.369 0/1:42:18,24:18:648:24:812:-60.7471,0,-46.0086 0/1:12:8,4:8:288:4:123:-7.76185,0,-22.655 0/1:63:34,29:34:1220:29:997:-71.0727,0,-91.1419 0/1:55:24,31:24:856:31:1023:-75.8108,0,-60.8045 1/1:57:2,55:2:72:55:1881:-162.723,-10.322,0 1/1:24:0,24:0:0:24:787:-71.1325,-7.22472,0 chr06 5201487 . 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G C 22028.9 PASS AB=0.498282;ABP=3.03269;AC=30;AF=0.714286;AN=42;AO=1074;CIGAR=1X;DP=1516;DPB=1516;DPRA=0;EPP=2291.94;EPPR=962.801;GTI=0;LEN=1;MEANALT=1;MQM=50.4339;MQMR=54.3846;NS=21;NUMALT=1;ODDS=8.10763;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38410;QR=15793;RO=442;RPL=1069;RPP=2291.94;RPPR=962.801;RPR=5;RUN=1;SAF=1074;SAP=2335.17;SAR=0;SRF=442;SRP=962.801;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,123:0:0:123:4410:-394.408,-37.0267,0 1/1:48:0,48:0:0:48:1720:-154.521,-14.4494,0 0/1:60:40,20:40:1436:20:720:-46.8535,0,-111.228 1/1:83:0,83:0:0:83:2984:-267.558,-24.9855,0 1/1:163:1,162:1:36:162:5773:-511.372,-45.4696,0 0/1:110:49,61:49:1764:61:2157:-159.505,0,-125.528 0/1:207:97,110:97:3465:110:3929:-289.353,0,-248.197 0/1:55:33,22:33:1160:22:792:-54.8595,0,-88.0004 0/1:105:61,44:61:2192:44:1584:-109.289,0,-165.6 0/1:12:5,7:5:180:7:252:-18.99,0,-12.9162 1/1:6:0,6:0:0:6:216:-19.7408,-1.80618,0 0/1:23:10,13:10:360:13:468:-35.2462,0,-25.7706 1/1:89:0,89:0:0:89:3183:-284.388,-26.7917,0 1/1:54:0,54:0:0:54:1944:-174.485,-16.2556,0 0/1:133:56,77:56:2008:77:2748:-205.855,0,-140.556 0/1:56:24,32:24:852:32:1152:-86.4923,0,-60.0672 0/1:74:47,27:47:1668:27:969:-64.7622,0,-128.029 0/1:16:9,7:9:312:7:252:-18.1546,0,-23.5097 0/1:22:7,15:7:252:15:506:-38.9095,0,-16.3874 1/1:53:3,50:3:108:50:1787:-150.605,-6.02682,0 1/1:24:0,24:0:0:24:864:-77.5867,-7.22472,0 chr06 5257418 . CT TT,TA 31713.9 PASS AB=0.491935,0.508065;ABP=3.50063,3.50063;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1060,446;CIGAR=1X1M,2X;DP=1507;DPB=1507;DPRA=0,1.00399;EPP=2261.55,971.487;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.66667,2;MQM=50.3887,54.3229;MQMR=60;NS=21;NUMALT=2;ODDS=7.39288;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37882,15662;QR=36;RO=1;RPL=1055,446;RPP=2261.55,971.487;RPPR=5.18177;RPR=5,0;RUN=1,1;SAF=1060,446;SAP=2304.77,971.487;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,123,0:0:0:123,0:4398,0:-393.872,-37.0267,0,-393.872,-37.0267,-393.872 1/1:47:0,47,0:0:0:47,0:1672,0:-150.229,-14.1484,0,-150.229,-14.1484,-150.229 1/2:61:0,20,41:0:0:20,41:716,1447:-176.187,-118.003,-111.982,-58.5401,0,-46.1978 1/1:83:0,83,0:0:0:83,0:2984,0:-267.555,-24.9855,0,-267.555,-24.9855,-267.555 1/1:165:1,164,0:1:36:164,0:5831,0:-516.844,-46.0717,0,-517.145,-49.3689,-520.082 1/2:109:0,60,49:0:0:60,49:2158,1732:-315.213,-141.042,-122.98,-174.525,0,-159.775 1/2:206:0,109,97:0:0:109,97:3877,3390:-588.116,-274.63,-241.817,-313.837,0,-284.637 1/2:54:0,21,33:0:0:21,33:752,1163:-155.93,-94.7769,-88.4553,-61.5082,0,-51.5742 1/2:106:0,44,62:0:0:44,62:1569,2151:-301.905,-174.862,-161.617,-127.394,0,-108.73 1/2:12:0,7,5:0:0:7,5:252,178:-34.9825,-14.8418,-12.7345,-20.4952,0,-18.99 1/1:6:0,6,0:0:0:6,0:216,0:-19.7408,-1.80618,0,-19.7408,-1.80618,-19.7408 1/2:23:0,13,10:0:0:13,10:464,353:-66.6978,-29.0535,-25.1401,-37.9979,0,-34.9876 1/1:85:0,83,2:0:0:83,2:2976,50:-265.988,-24.9855,0,-262.131,-20.8778,-261.529 1/1:54:0,54,0:0:0:54,0:1940,0:-174.131,-16.2556,0,-174.131,-16.2556,-174.131 1/2:133:0,77,56:0:0:77,56:2738,1966:-381.712,-159.999,-136.82,-222.065,0,-205.207 1/2:55:0,31,24:0:0:31,24:1116,843:-159.327,-68.8872,-59.5553,-90.7932,0,-83.5685 1/2:74:0,26,48:0:0:26,48:924,1707:-214.32,-139.359,-131.533,-75.3151,0,-60.8657 1/2:14:0,5,9:0:0:5,9:180,322:-41.096,-26.4485,-24.9433,-15.0053,0,-12.296 1/2:21:0,14,7:0:0:14,7:491,252:-60.3594,-20.9028,-16.6884,-39.8118,0,-37.7046 1/1:53:0,50,3:0:0:50,3:1800,108:-161.338,-15.0515,0,-152.668,-6.02682,-151.765 1/1:23:0,23,0:0:0:23,0:828,0:-74.3564,-6.92369,0,-74.3564,-6.92369,-74.3564 chr06 5518181 . A G 7386.99 PASS AB=0.458;ABP=18.3322;AC=12;AF=0.285714;AN=42;AO=459;CIGAR=1X;DP=1688;DPB=1688;DPRA=1.31541;EPP=999.716;EPPR=2669.58;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.70927;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16369;QR=43743;RO=1228;RPL=0;RPP=999.716;RPPR=2669.58;RPR=459;RUN=1;SAF=459;SAP=999.716;SAR=0;SRF=1228;SRP=2669.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:91,0:91:3234:0:0:0,-27.3937,-291.28 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.851 0/1:76:28,48:28:1004:48:1724:-132.567,0,-67.7976 0/0:91:91,0:91:3237:0:0:0,-27.3937,-291.551 0/0:150:149,1:149:5348:1:36:0,-41.5562,-477.853 0/1:36:26,10:26:924:10:360:-21.9072,0,-72.6406 0/1:124:60,64:60:2129:64:2267:-166.963,0,-154.549 0/1:139:74,65:74:2629:65:2313:-166.586,0,-195.013 0/1:169:87,82:87:3101:82:2920:-212.161,0,-228.442 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:28:12,16:12:432:16:572:-43.3846,0,-30.7924 0/0:57:57,0:57:2021:0:0:0,-17.1587,-182.161 0/0:72:72,0:72:2514:0:0:0,-21.6742,-226.511 0/1:164:86,78:86:3064:78:2773:-200.442,0,-226.621 0/1:54:25,29:25:888:29:1040:-77.6587,0,-63.9834 0/1:47:32,15:32:1128:15:540:-34.7881,0,-87.6799 0/1:80:53,27:53:1900:27:964:-62.9944,0,-147.196 0/1:77:56,21:56:2016:21:752:-44.8269,0,-158.534 0/0:89:88,0:88:3152:0:0:0,-26.4906,-283.545 0/0:62:62,0:62:2194:0:0:0,-18.6639,-197.722 chr06 5528623 . TTTA GTTA,GTTG 23322.5 PASS AB=0.506261,0.493739;ABP=3.20064,3.20064;AC=29,13;AF=0.690476,0.309524;AN=42;AO=821,285;CIGAR=1X3M,1X2M1X;DP=1109;DPB=1109;DPRA=7.87143,0.801643;EPP=1785.79,621.88;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.8,1.92857;MQM=53.5481,47.4;MQMR=0;NS=21;NUMALT=2;ODDS=6.96169;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29245,10054;QR=0;RO=0;RPL=0,0;RPP=1785.79,621.88;RPPR=0;RPR=821,285;RUN=1,1;SAF=821,285;SAP=1785.79,621.88;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,66,1:0:0:66,1:2338,30:-209.816,-19.868,0,-207.424,-17.1758,-207.123 1/1:47:0,47,0:0:0:47,0:1684,0:-151.603,-14.1484,0,-151.603,-14.1484,-151.603 1/2:30:0,20,10:0:0:20,10:720,360:-88.1583,-29.508,-23.4874,-59.0083,0,-55.998 1/1:65:0,65,0:0:0:65,0:2321,0:-208.654,-19.567,0,-208.654,-19.567,-208.654 1/1:138:0,137,0:0:0:137,0:4873,0:-437.292,-41.2411,0,-437.292,-41.2411,-437.292 1/2:48:0,23,25:0:0:23,25:814,885:-137.755,-71.9209,-64.9972,-66.1853,0,-58.6595 1/2:64:0,23,41:0:0:23,41:820,1454:-182.358,-115.68,-108.756,-67.0302,0,-54.688 1/2:35:0,21,14:0:0:21,14:746,483:-100.007,-39.3039,-32.9823,-61.0507,0,-56.8362 1/2:81:0,30,51:0:0:30,51:1080,1793:-232.911,-144.971,-135.94,-88.2953,0,-72.9427 2/2:7:0,0,7:0:0:0,7:0,248:-22.5091,-22.5091,-22.5091,-2.10721,-2.10721,0 1/1:5:0,5,0:0:0:5,0:180,0:-16.4945,-1.50515,0,-16.4945,-1.50515,-16.4945 1/2:15:0,11,4:0:0:11,4:381,144:-42.9251,-12.0176,-8.70626,-31.2617,0,-30.0576 1/1:72:0,71,0:0:0:71,0:2532,0:-227.444,-21.3731,0,-227.444,-21.3731,-227.444 1/1:46:0,45,0:0:0:45,0:1610,0:-144.633,-13.5464,0,-144.633,-13.5464,-144.633 1/2:54:0,28,26:0:0:28,26:1004,917:-156.244,-74.4777,-66.0488,-82.1207,0,-74.2939 1/2:56:0,29,27:0:0:29,27:1040,950:-161.613,-76.9614,-68.2315,-85.005,0,-76.8772 1/2:30:0,18,12:0:0:18,12:644,432:-87.5556,-35.2719,-29.8534,-52.6402,0,-49.0279 1/2:80:0,38,42:0:0:38,42:1335,1492:-229.002,-120.993,-109.554,-108.36,0,-95.7168 1/2:66:0,42,24:0:0:42,24:1484,830:-188.008,-67.3372,-54.694,-121.017,0,-113.793 1/1:50:0,49,1:0:0:49,1:1748,36:-157.014,-14.7505,0,-154.099,-11.4781,-153.798 1/1:53:0,53,0:0:0:53,0:1891,0:-170.183,-15.9546,0,-170.183,-15.9546,-170.183 chr06 5528644 . TGAG CGAG,CGAA 61839.6 PASS AB=0.49221,0.502125;ABP=3.75463,3.06566;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1709,715;CIGAR=1X3M,1X2M1X;DP=2439;DPB=2439;DPRA=0,1.29506;EPP=8.37863,74.104;EPPR=3.73412;GTI=0;LEN=1,4;MEANALT=2.38095,2.47059;MQM=46.7776,37.9035;MQMR=58.6667;NS=21;NUMALT=2;ODDS=10.7161;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60156,25025;QR=102;RO=3;RPL=11,6;RPP=3619.13,1503.94;RPPR=9.52472;RPR=1698,709;RUN=1,1;SAF=833,287;SAP=5.35966,63.3894;SAR=876,428;SRF=1;SRP=3.73412;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,86,1:0:0:86,1:3024,30:-269.362,-25.8886,0,-266.97,-23.1964,-266.669 1/1:117:0,114,0:0:0:114,0:3967,0:-350.429,-34.3174,0,-350.429,-34.3174,-350.429 1/2:90:1,53,35:1:30:53,35:1870,1236:-236.12,-88.3445,-74.7879,-145.681,0,-137.542 1/1:116:0,112,2:0:0:112,2:3922,69:-347.041,-33.7154,0,-342.134,-28.7889,-341.531 1/1:219:0,218,1:0:0:218,1:7669,36:-679.858,-65.6245,0,-678.281,-63.839,-677.98 1/2:84:0,27,57:0:0:27,57:958,2006:-224.163,-147.063,-138.935,-77.4408,0,-60.282 1/2:195:0,93,101:0:0:93,101:3255,3505:-511.24,-253.055,-225.059,-258.249,0,-227.845 1/2:78:1,44,33:1:36:44,33:1523,1156:-201.27,-80.3413,-70.0348,-118.257,0,-111.261 1/2:157:0,58,99:0:0:58,99:2044,3475:-430.597,-267.836,-250.377,-163.101,0,-133.299 1/2:15:0,4,11:0:0:4,11:136,396:-40.6897,-29.9616,-28.7574,-11.06,0,-7.74862 1/1:11:0,10,0:0:0:10,0:352,0:-31.2948,-3.0103,0,-31.2948,-3.0103,-31.2948 1/2:41:0,25,16:0:0:25,16:887,562:-110.146,-39.3629,-31.8371,-71.1051,0,-66.2886 1/1:136:0,136,0:0:0:136,0:4797,0:-423.869,-40.9401,0,-423.869,-40.9401,-423.869 1/1:111:0,111,0:0:0:111,0:3949,0:-347.609,-33.4143,0,-347.609,-33.4143,-347.609 1/2:147:1,87,58:1:36:87,58:3062,2022:-390.56,-148.975,-125.722,-238.945,0,-224.421 1/2:100:0,49,50:0:0:49,50:1752,1754:-275.427,-135.117,-120.366,-140.352,0,-125.3 1/2:75:0,44,30:0:0:44,30:1568,1041:-203.892,-79.3073,-66.062,-124.672,0,-115.641 1/2:291:0,123,168:0:0:123,168:4259,5889:-742.042,-405.086,-368.059,-337.279,0,-286.706 1/2:139:0,88,51:0:0:88,51:3122,1776:-382.236,-133.225,-106.735,-249.343,0,-233.991 1/1:121:0,120,1:0:0:120,1:4233,36:-373.683,-36.1236,0,-370.767,-32.8512,-370.466 1/1:109:0,107,1:0:0:107,1:3807,36:-336.711,-32.2102,0,-334.329,-29.8073,-334.028 chr06 5550758 . A C 9450.26 PASS AB=0.589189;ABP=66.922;AC=12;AF=0.285714;AN=42;AO=546;CIGAR=1X;DP=1339;DPB=1339;DPRA=1.7123;EPP=1188.63;EPPR=1718.47;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.989;MQMR=59.9899;NS=21;NUMALT=1;ODDS=10.085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19451;QR=26591;RO=790;RPL=0;RPP=1188.63;RPPR=1718.47;RPR=546;RUN=1;SAF=546;SAP=1188.63;SAR=0;SRF=790;SRP=1718.47;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:42,0:42:1439:0:0:0,-12.6433,-129.798 0/0:60:59,1:59:2040:1:36:0,-14.4635,-180.267 0/1:69:26,43:26:916:43:1544:-118.482,0,-61.9854 0/0:53:52,0:52:1783:0:0:0,-15.6536,-160.385 0/0:97:97,0:97:3135:0:0:0,-29.1999,-282.368 0/1:24:15,9:15:536:9:320:-21.9176,0,-41.3501 0/1:129:53,74:53:1609:74:2603:-195.931,0,-106.478 0/1:83:25,58:25:862:58:2080:-162.485,0,-52.9052 0/1:157:69,88:69:2279:88:3144:-235.923,0,-158.097 0/1:19:6,13:6:197:13:464:-36.3779,0,-12.3318 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:26:10,16:10:356:16:564:-43.2635,0,-24.5512 0/0:31:31,0:31:1036:0:0:0,-9.33193,-93.5366 0/0:42:42,0:42:1346:0:0:0,-12.6433,-121.414 0/1:170:60,110:60:2075:110:3920:-301.817,0,-135.841 0/1:55:20,35:20:708:35:1256:-96.7886,0,-47.4889 0/1:44:12,32:12:420:32:1147:-90.2945,0,-24.8887 0/1:108:53,55:53:1870:55:1960:-144.164,0,-136.064 0/1:41:29,12:29:980:12:413:-25.1556,0,-76.1575 0/0:35:35,0:35:1191:0:0:0,-10.536,-107.486 0/0:48:48,0:48:1597:0:0:0,-14.4494,-144.009 chr06 5550806 . G A 24236.6 PASS AB=0.576196;ABP=93.6807;AC=12;AF=0.285714;AN=42;AO=1041;CIGAR=1X;DP=2852;DPB=2852;DPRA=1.55342;EPP=2263.51;EPPR=3931.2;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9731;MQMR=59.979;NS=21;NUMALT=1;ODDS=9.98824;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36985;QR=63884;RO=1809;RPL=555;RPP=12.9415;RPPR=36.4875;RPR=486;RUN=1;SAF=555;SAP=12.9415;SAR=486;SRF=821;SRP=36.4875;SRR=988;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:118:118,0:118:4176:0:0:0,-35.5215,-376.024 0/0:136:135,0:135:4787:0:0:0,-40.639,-430.516 0/1:147:63,84:63:2211:84:2979:-224.09,0,-155.001 0/0:118:118,0:118:4150:0:0:0,-35.5215,-373.684 0/0:252:251,1:251:8862:1:36:0,-72.2613,-793.973 0/1:80:38,42:38:1352:42:1480:-109.409,0,-97.898 0/1:269:123,146:123:4353:146:5189:-386.173,0,-310.968 0/1:239:103,136:103:3613:136:4866:-366.146,0,-253.429 0/1:258:100,157:100:3549:157:5550:-422.051,0,-242.043 0/1:28:9,19:9:320:19:684:-53.4615,0,-20.7135 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:37:14,23:14:500:23:820:-62.9844,0,-34.1948 0/0:84:84,0:84:2991:0:0:0,-25.2865,-269.422 0/0:115:115,0:115:4040:0:0:0,-34.6184,-363.79 0/1:307:118,189:118:4190:189:6709:-511.439,0,-284.868 0/1:95:31,64:31:1081:64:2279:-176.773,0,-68.9985 0/1:83:31,52:31:1108:52:1855:-142.244,0,-75.0455 0/1:173:80,93:80:2819:93:3307:-245.77,0,-201.871 0/1:82:51,31:51:1793:31:1091:-73.8131,0,-136.966 0/0:118:115,3:115:4062:3:104:0,-25.8187,-356.065 0/0:100:99,1:99:3459:1:36:0,-26.5047,-307.928 chr06 5565480 . A G 88097.3 PASS AB=0.498794;ABP=3.06268;AC=30;AF=0.714286;AN=42;AO=4395;CIGAR=1X;DP=6484;DPB=6484;DPRA=0;EPP=9546.63;EPPR=4519.67;GTI=0;LEN=1;MEANALT=1.38095;MQM=59.6856;MQMR=59.9942;NS=21;NUMALT=1;ODDS=29.7873;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=156309;QR=74514;RO=2080;RPL=4395;RPP=9546.63;RPPR=4519.67;RPR=0;RUN=1;SAF=4395;SAP=9546.63;SAR=0;SRF=2080;SRP=4519.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:241:1,239:1:36:239:8532:-764.177,-69.0088,0 1/1:114:1,111:1:36:111:3956:-352.578,-30.4769,0 0/1:218:100,118:100:3580:118:4206:-313.089,0,-256.783 1/1:244:0,244:0:0:244:8663:-779.648,-73.4513,0 1/1:301:1,299:1:36:299:10615:-951.586,-87.0706,0 0/1:208:87,121:87:3120:121:4320:-326.24,0,-218.412 0/1:190:82,108:82:2936:108:3854:-289.763,0,-207.279 0/1:197:103,94:103:3688:94:3355:-242.85,0,-272.82 0/1:226:133,93:133:4784:93:3309:-229.993,0,-362.681 0/1:678:320,357:320:11469:357:12685:-936.961,0,-827.925 1/1:944:0,943:0:0:943:33502:-3013.13,-283.871,0 0/1:1118:583,535:583:20888:535:19031:-1375.72,0,-1542.82 1/1:208:0,206:0:0:206:7330:-659.34,-62.0122,0 1/1:107:0,107:0:0:107:3787:-341.007,-32.2102,0 0/1:188:106,82:106:3800:82:2942:-208.409,0,-285.604 0/1:162:85,77:85:3056:77:2751:-199.061,0,-226.501 0/1:189:112,77:112:3999:77:2745:-190.394,0,-303.205 0/1:691:331,359:331:11838:359:12714:-935.952,0,-857.21 0/1:81:34,47:34:1212:47:1652:-124.577,0,-85.0029 1/1:115:1,114:1:36:114:4096:-365.19,-31.0202,0 1/1:64:0,64:0:0:64:2264:-204.016,-19.2659,0 chr06 5565490 . C A 86650.9 PASS AB=0.509725;ABP=6.2623;AC=30;AF=0.714286;AN=42;AO=4329;CIGAR=1X;DP=6275;DPB=6275;DPRA=0;EPP=9403.31;EPPR=4217.84;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.6914;MQMR=59.9938;NS=21;NUMALT=1;ODDS=36.5963;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=153336;QR=66012;RO=1941;RPL=4329;RPP=9403.31;RPPR=4217.84;RPR=0;RUN=1;SAF=4329;SAP=9403.31;SAR=0;SRF=1941;SRP=4217.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:241:1,240:1:36:240:8519:-763.002,-68.95,0 1/1:112:1,111:1:32:111:3949:-352.346,-30.516,0 0/1:207:92,115:92:3086:115:4061:-303.358,0,-215.656 1/1:243:0,243:0:0:243:8586:-772.709,-73.1503,0 1/1:300:1,299:1:36:299:10448:-936.545,-86.7107,0 0/1:210:87,121:87:2939:121:4275:-321.832,0,-201.77 0/1:175:72,103:72:2427:103:3658:-276.604,0,-166.004 0/1:189:93,96:93:3220:96:3400:-249.307,0,-233.131 0/1:223:132,91:132:4540:91:3249:-225.497,0,-341.645 0/1:645:295,348:295:10112:348:12347:-916.917,0,-716.128 1/1:932:0,931:0:0:931:33131:-2980.13,-280.259,0 0/1:1082:556,526:556:19004:526:18692:-1356.06,0,-1384.28 1/1:206:0,206:0:0:206:7258:-653.257,-62.0122,0 1/1:108:0,108:0:0:108:3807:-342.816,-32.5112,0 0/1:182:101,81:101:3405:81:2854:-202.301,0,-251.876 0/1:156:83,73:83:2807:73:2616:-188.723,0,-205.906 0/1:177:100,77:100:3418:77:2710:-190.86,0,-254.557 0/1:639:299,340:299:10020:340:12011:-888.405,0,-709.438 0/1:74:27,47:27:898:47:1645:-126.055,0,-58.8474 1/1:113:1,112:1:32:112:3967:-353.986,-30.8171,0 1/1:61:0,61:0:0:61:2153:-194.019,-18.3628,0 chr06 5616790 . 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T A 6397.97 PASS AB=0.533428;ABP=9.8336;AC=12;AF=0.285714;AN=42;AO=378;CIGAR=1X;DP=1105;DPB=1105;DPRA=1.65886;EPP=815.164;EPPR=1581.67;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.38648;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13489;QR=26095;RO=727;RPL=1;RPP=815.164;RPPR=1581.67;RPR=377;RUN=1;SAF=0;SAP=823.827;SAR=378;SRF=0;SRP=1581.67;SRR=727;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:58,0:58:2088:0:0:0,-17.4597,-188.19 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:72:23,49:23:828:49:1747:-135.839,0,-53.17 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:103:100,3:100:3577:3:108:0,-20.9309,-312.06 0/1:26:15,11:15:540:11:396:-28.156,0,-41.1098 0/1:82:27,55:27:957:55:1942:-150.37,0,-61.7594 0/1:49:22,27:22:777:27:968:-72.6869,0,-55.4999 0/1:74:31,43:31:1112:43:1522:-114.995,0,-78.1151 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:24:11,13:11:392:13:468:-35.2349,0,-28.3953 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/1:68:22,46:22:792:46:1652:-128.498,0,-51.1356 0/1:56:30,26:30:1076:26:936:-67.7018,0,-80.2952 0/1:19:9,10:9:324:10:360:-27.0247,0,-23.7863 0/1:155:89,66:89:3204:66:2363:-166.268,0,-241.922 0/1:58:38,20:38:1364:20:703:-46.1338,0,-105.601 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:68:68,0:68:2448:0:0:0,-20.47,-220.574 chr06 5617816 . A G 17244.4 PASS AB=0.418014;ABP=53.571;AC=30;AF=0.714286;AN=42;AO=872;CIGAR=1X;DP=1378;DPB=1378;DPRA=0;EPP=1896.53;EPPR=1099.6;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9954;MQMR=59.9624;NS=21;NUMALT=1;ODDS=2.06325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31079;QR=18117;RO=505;RPL=0;RPP=1896.53;RPPR=1099.6;RPR=872;RUN=1;SAF=872;SAP=1896.53;SAR=0;SRF=505;SRP=1099.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,53:0:0:53:1885:-169.927,-15.9546,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 0/1:67:39,28:39:1404:28:1004:-70.5069,0,-106.49 1/1:41:0,41:0:0:41:1464:-132.056,-12.3422,0 1/1:101:0,101:0:0:101:3600:-324.208,-30.404,0 0/1:115:61,54:61:2192:54:1924:-138.819,0,-162.927 0/1:93:68,25:68:2440:25:896:-52.9646,0,-191.789 0/1:116:71,45:71:2544:45:1550:-104.867,0,-194.291 0/1:143:78,65:78:2804:65:2336:-167.452,0,-209.552 0/1:16:5,11:5:176:11:396:-31.1663,0,-11.3685 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:31:14,17:14:504:17:612:-46.0815,0,-36.3662 1/1:114:0,113:0:0:113:4018:-361.594,-34.0164,0 1/1:66:0,66:0:0:66:2336:-210.498,-19.868,0 0/1:172:114,58:114:4077:58:2084:-136.053,0,-315.338 0/1:33:20,13:20:716:13:468:-32.5257,0,-54.8337 0/1:24:13,11:13:468:11:396:-28.758,0,-35.2349 0/1:28:14,14:14:504:14:500:-36.9073,0,-37.2693 0/1:28:7,21:7:252:21:743:-58.7645,0,-14.6001 1/1:80:0,80:0:0:80:2859:-257.547,-24.0824,0 1/1:17:1,16:1:36:16:568:-47.8536,-1.51924,0 chr06 5617861 . G A 8692.1 PASS AB=0.580908;ABP=51.852;AC=12;AF=0.285714;AN=42;AO=499;CIGAR=1X;DP=1366;DPB=1366;DPRA=1.27071;EPP=1086.58;EPPR=1885.68;GTI=1;LEN=1;MEANALT=1;MQM=59.9539;MQMR=59.9954;NS=21;NUMALT=1;ODDS=1.71315;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17808;QR=30947;RO=867;RPL=499;RPP=1086.58;RPPR=1885.68;RPR=0;RUN=1;SAF=499;SAP=1086.58;SAR=0;SRF=867;SRP=1885.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:52,0:52:1830:0:0:0,-15.6536,-164.977 0/0:32:32,0:32:1135:0:0:0,-9.63296,-102.458 0/1:64:27,37:27:972:37:1332:-100.916,0,-68.532 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/0:102:102,0:102:3619:0:0:0,-30.7051,-325.913 0/1:117:54,63:54:1928:63:2244:-167.003,0,-138.576 0/1:93:26,67:26:936:67:2364:-185.017,0,-56.5637 0/1:112:42,70:42:1503:70:2520:-193.336,0,-101.848 0/1:142:66,76:66:2359:76:2690:-199.596,0,-169.822 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1663 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:31:17,14:17:588:14:504:-36.3662,0,-43.9103 0/0:114:114,0:114:4081:0:0:0,-34.3174,-367.472 0/0:63:63,0:63:2245:0:0:0,-18.9649,-202.312 0/1:170:57,113:57:2048:113:4043:-312.88,0,-133.416 0/1:32:13,19:13:468:19:684:-52.2574,0,-32.8267 0/1:25:11,14:11:396:14:500:-37.8104,0,-28.457 0/1:29:15,14:15:531:14:495:-36.1532,0,-39.392 0/1:28:21,7:21:744:7:252:-14.6001,0,-58.8555 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.24 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 chr06 5619426 . CCA ACA,TCG 46900.4 PASS AB=0.522013,0.477201;ABP=8.36387,8.75309;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1607,611;CIGAR=1X2M,1X1M1X;DP=2223;DPB=2223;DPRA=0,1.27556;EPP=3492.57,1329.78;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.85714,2.14286;MQM=59.9919,59.8331;MQMR=0;NS=21;NUMALT=2;ODDS=15.3442;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57399,21522;QR=0;RO=0;RPL=0,0;RPP=3492.57,1329.78;RPPR=0;RPR=1607,611;RUN=1,1;SAF=1607,611;SAP=3492.57,1329.78;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:0,172,0:0:0:172,0:6158,0:-553.957,-51.7772,0,-553.957,-51.7772,-553.957 1/1:78:0,78,0:0:0:78,0:2726,0:-245.578,-23.4803,0,-245.578,-23.4803,-245.578 1/2:101:0,50,51:0:0:50,51:1770,1808:-291.82,-147.646,-132.594,-144.528,0,-129.175 1/1:96:0,95,0:0:0:95,0:3393,0:-305.333,-28.5979,0,-305.333,-28.5979,-305.333 1/1:239:0,235,3:0:0:235,3:8391,108:-754.832,-70.7421,0,-746.02,-61.9298,-745.117 1/2:111:0,59,52:0:0:59,52:2124,1819:-321.646,-148.334,-130.574,-173.666,0,-158.012 1/2:158:0,86,71:0:0:86,71:3092,2509:-456.591,-204.329,-178.441,-252.258,0,-230.885 1/2:96:0,53,43:0:0:53,43:1900,1536:-280.51,-125.544,-109.589,-155.323,0,-142.379 1/2:215:0,111,104:0:0:111,104:3977,3626:-619.588,-295.237,-261.822,-324.704,0,-293.397 1/2:14:0,9,5:0:0:9,5:324,180:-41.4837,-15.0469,-12.3376,-26.7966,0,-25.2914 1/1:17:0,17,0:0:0:17,0:612,0:-55.4134,-5.11751,0,-55.4134,-5.11751,-55.4134 1/2:25:0,14,11:0:0:14,11:504,390:-73.2546,-32.1277,-27.9133,-41.4837,0,-38.1723 1/1:127:0,127,0:0:0:127,0:4533,0:-408.135,-38.2308,0,-408.135,-38.2308,-408.135 1/1:73:0,73,0:0:0:73,0:2616,0:-235.688,-21.9752,0,-235.688,-21.9752,-235.688 1/2:200:0,85,115:0:0:85,115:3022,4089:-579.835,-333.569,-307.982,-246.621,0,-212.002 1/2:66:0,35,31:0:0:35,31:1245,1110:-192.337,-90.8772,-80.3412,-101.817,0,-92.4847 1/2:104:0,63,41:0:0:63,41:2253,1459:-302.972,-119.262,-100.297,-184.066,0,-171.724 1/2:92:0,36,56:0:0:36,56:1288,1918:-261.051,-156.016,-145.179,-105.387,0,-88.5288 1/2:90:0,63,27:0:0:63,27:2268,934:-261.306,-76.2393,-57.2744,-185.417,0,-177.289 1/1:86:0,85,1:0:0:85,1:3013,36:-271.037,-25.5876,0,-268.1,-22.2903,-267.799 1/1:61:0,61,0:0:0:61,0:2190,0:-197.365,-18.3628,0,-197.365,-18.3628,-197.365 chr06 5642334 . ATCTG ATCTA,TTCTA 138011 PASS AB=0.472222,0.52572;ABP=22.5536,19.7655;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3588,1559;CIGAR=4M1X,1X3M1X;DP=5164;DPB=5164.2;DPRA=0,1.62944;EPP=7794.25,3388.34;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.57143,2.6875;MQM=59.9735,59.8056;MQMR=0;NS=21;NUMALT=2;ODDS=5.68937;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=128327,54380;QR=0;RO=0;RPL=2116,997;RPP=254.01,266.575;RPPR=0;RPR=1472,562;RUN=1,1;SAF=2116,997;SAP=254.01,266.575;SAR=1472,562;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:343:0,341,1:0:0:341,1:12227,29:-1099.94,-102.651,0,-1097.64,-100.378,-1097.34 1/1:105:0,104,0:0:0:104,0:3724,0:-335.16,-31.3071,0,-335.16,-31.3071,-335.16 1/2:214:0,91,122:0:0:91,122:3255,4299:-615.481,-350.059,-322.666,-265.466,0,-228.741 1/1:366:0,363,0:0:0:363,0:12949,0:-1164.97,-109.274,0,-1164.97,-109.274,-1164.97 1/1:464:0,446,15:0:0:446,15:15953,530:-1434.93,-134.259,0,-1391.76,-91.0147,-1387.25 1/2:274:0,133,141:0:0:133,141:4768,4964:-793.329,-404.445,-364.408,-389.24,0,-346.794 1/2:419:0,179,238:0:0:179,238:6399,8328:-1199.13,-677.37,-623.485,-521.808,0,-450.163 1/2:313:0,149,164:0:0:149,164:5360,5642:-895.839,-458.516,-413.662,-437.676,0,-388.307 1/2:536:0,266,269:0:0:266,269:9526,9338:-1535.94,-759.081,-679.007,-776.856,0,-695.879 1/2:34:0,15,19:0:0:15,19:536,669:-98.5214,-54.8169,-50.3014,-44.0594,0,-38.3398 1/1:6:0,6,0:0:0:6,0:208,0:-19.0591,-1.80618,0,-19.0591,-1.80618,-19.0591 1/2:64:0,30,34:0:0:30,34:1075,1200:-185.653,-97.9771,-88.9462,-88.0317,0,-77.7967 1/1:328:0,323,4:0:0:323,4:11551,144:-1039.13,-97.2327,0,-1027.38,-85.3552,-1026.18 1/1:267:0,266,0:0:0:266,0:9479,0:-851.633,-80.074,0,-851.633,-80.074,-851.633 1/2:509:0,256,251:0:0:256,251:9172,8731:-1456.42,-708.403,-631.339,-747.979,0,-672.42 1/2:133:0,59,74:0:0:59,74:2088,2600:-382.046,-211.971,-194.21,-170.427,0,-148.151 1/2:152:0,65,87:0:0:65,87:2328,3032:-436.774,-246.914,-227.348,-190.213,0,-164.023 1/2:156:0,65,91:0:0:65,91:2332,3152:-446.593,-256.374,-236.807,-190.573,0,-163.179 1/2:112:0,69,43:0:0:69,43:2449,1517:-323.419,-123.88,-103.109,-199.893,0,-186.948 1/1:282:0,276,6:0:0:276,6:9868,205:-887.72,-83.0843,0,-871.084,-66.106,-869.278 1/1:87:0,86,0:0:0:86,0:3080,0:-277.147,-25.8886,0,-277.147,-25.8886,-277.147 chr06 5642381 . C T 8771.65 PASS AB=0.464193;ABP=15.9174;AC=12;AF=0.285714;AN=42;AO=555;CIGAR=1X;DP=2038;DPB=2038;DPRA=1.61284;EPP=1208.18;EPPR=3223.3;GTI=0;LEN=1;MEANALT=1;MQM=59.6667;MQMR=59.9744;NS=21;NUMALT=1;ODDS=7.3897;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19830;QR=52644;RO=1483;RPL=555;RPP=1208.18;RPPR=3223.3;RPR=0;RUN=1;SAF=0;SAP=1208.18;SAR=555;SRF=0;SRP=3223.3;SRR=1483;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:144:144,0:144:5099:0:0:0,-43.3483,-459.054 0/0:45:45,0:45:1601:0:0:0,-13.5463,-144.378 0/1:72:41,31:41:1461:31:1101:-77.7219,0,-110.11 0/0:96:96,0:96:3395:0:0:0,-28.8989,-305.763 0/0:214:204,10:204:7248:10:360:0,-31.6761,-619.002 0/1:84:48,36:48:1720:36:1292:-91.2611,0,-129.799 0/1:156:71,85:71:2552:85:3033:-225.978,0,-182.969 0/1:135:67,68:67:2389:68:2440:-179.198,0,-174.627 0/1:200:117,83:117:4158:83:2964:-206.782,0,-314.192 0/1:22:12,10:12:432:10:356:-25.7586,0,-32.5985 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:15:11,4:11:381:4:144:-8.75214,0,-30.1052 0/0:134:130,4:130:4567:4:144:0,-27.0244,-397.878 0/0:77:77,0:77:2711:0:0:0,-23.1793,-244.23 0/1:228:125,103:125:4462:103:3665:-261.401,0,-333.113 0/1:47:30,17:30:1065:17:612:-41.2627,0,-82.0113 0/1:49:24,25:24:845:25:896:-66.2099,0,-61.6166 0/1:92:39,53:39:1385:53:1895:-143.082,0,-97.2521 0/1:59:36,23:36:1284:23:820:-56.3617,0,-98.1026 0/0:126:123,3:123:4345:3:108:0,-27.8546,-381.146 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 chr06 5682613 . GAC AAA 4103.05 PASS AB=0.428115;ABP=31.1076;AC=12;AF=0.285714;AN=42;AO=269;CIGAR=1X1M1X;DP=1138;DPB=1138;DPRA=0.961885;EPP=43.7032;EPPR=16.773;GTI=0;LEN=3;MEANALT=1.30769;MQM=34.6877;MQMR=56.2454;NS=21;NUMALT=1;ODDS=6.88954;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9444;QR=29745;RO=864;RPL=0;RPP=587.136;RPPR=1879.16;RPR=269;RUN=1;SAF=170;SAP=43.7032;SAR=99;SRF=395;SRP=16.773;SRR=469;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:55,0:55:1906:0:0:0,-16.5566,-171.607 0/0:68:66,1:66:2281:1:36:0,-18.2904,-202.805 0/1:24:10,14:10:356:14:490:-29.9209,0,-25.1172 0/0:58:58,0:58:2007:0:0:0,-17.4597,-180.7 0/0:76:76,0:76:2535:0:0:0,-22.8783,-228.047 0/1:47:24,22:24:826:22:772:-43.8586,0,-60.2465 0/1:82:56,25:56:1920:25:892:-37.4695,0,-147.747 0/1:56:19,37:19:644:37:1313:-75.4347,0,-41.3697 0/1:60:34,26:34:1215:26:909:-51.6434,0,-91.5505 0/1:5:2,3:2:72:3:100:-7.66813,0,-5.33157 0/0:9:9,0:9:311:0:0:0,-2.70927,-28.3112 0/1:19:13,6:13:439:6:198:-10.7767,0,-34.0746 0/0:64:64,0:64:2220:0:0:0,-19.2659,-199.796 0/0:46:45,0:45:1531:0:0:0,-13.5463,-137.55 0/1:64:31,33:31:1092:33:1184:-76.1491,0,-79.2536 0/1:45:28,17:28:975:17:602:-31.1849,0,-74.3868 0/1:29:19,10:19:667:10:343:-16.6087,0,-51.6184 0/1:114:60,53:60:2044:53:1836:-108.524,0,-149.657 0/1:81:59,22:59:2034:22:769:-35.6067,0,-158.855 0/0:36:36,0:36:1230:0:0:0,-10.8371,-110.621 0/0:100:100,0:100:3440:0:0:0,-30.103,-309.214 chr06 5682623 . GCTAA CCTAC,TCTAC 28917.4 PASS AB=0.568504,0.428346;ABP=28.8936,31.3284;AC=30,12;AF=0.714286,0.285714;AN=42;AO=883,273;CIGAR=1X3M1X,1X3M1X;DP=1159;DPB=1159;DPRA=0,0.955608;EPP=1920.42,595.822;EPPR=0;GTI=0;LEN=5,5;MEANALT=1.7619,2.15385;MQM=55.8743,34.5348;MQMR=0;NS=21;NUMALT=2;ODDS=8.26271;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30588,9588;QR=0;RO=0;RPL=398,171;RPP=21.624,40.8798;RPPR=0;RPR=485,102;RUN=1,1;SAF=398,171;SAP=21.624,40.8798;SAR=485,102;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,56,0:0:0:56,0:1959,0:-176.263,-16.8577,0,-176.263,-16.8577,-176.263 1/1:70:0,69,1:0:0:69,1:2396,36:-214.316,-20.7711,0,-212.741,-18.9855,-212.44 1/2:24:0,10,14:0:0:10,14:354,489:-61.6441,-32.8025,-29.7922,-29.1693,0,-24.9549 1/1:61:0,61,0:0:0:61,0:2105,0:-189.162,-18.3628,0,-189.162,-18.3628,-189.162 1/1:75:0,75,0:0:0:75,0:2552,0:-229.702,-22.5773,0,-229.702,-22.5773,-229.702 1/2:47:0,25,22:0:0:25,22:865,785:-122.646,-52.5207,-44.9949,-70.445,0,-63.8223 1/2:83:0,56,26:0:0:56,26:1960,927:-215.214,-56.2846,-39.4269,-158.909,0,-151.083 1/2:57:0,19,37:0:0:19,37:659,1295:-133.644,-80.103,-74.3834,-53.636,0,-42.4978 1/2:60:0,34,26:0:0:34,26:1197,906:-158.998,-61.5598,-51.3248,-97.7582,0,-89.9314 1/2:5:0,2,3:0:0:2,3:72,108:-14.8337,-8.95573,-8.35367,-6.23466,0,-5.33157 1/1:10:0,10,0:0:0:10,0:348,0:-31.5411,-3.0103,0,-31.5411,-3.0103,-31.5411 1/2:19:0,13,6:0:0:13,6:436,200:-50.2821,-14.979,-11.0656,-35.6177,0,-33.8115 1/1:64:0,64,0:0:0:64,0:2215,0:-199.484,-19.2659,0,-199.484,-19.2659,-199.484 1/1:48:0,48,0:0:0:48,0:1687,0:-151.842,-14.4494,0,-151.842,-14.4494,-151.842 1/2:67:0,34,33:0:0:34,33:1191,1160:-180.776,-84.0153,-73.7803,-97.0923,0,-87.1584 1/2:47:0,29,18:0:0:29,18:1007,637:-123.218,-41.5533,-32.8235,-81.9752,0,-76.5567 1/2:30:0,19,11:0:0:19,11:663,372:-77.5749,-23.6057,-17.8862,-54.2675,0,-50.9561 1/2:114:0,60,54:0:0:60,54:2069,1891:-297.697,-129.836,-111.774,-168.182,0,-151.927 1/2:82:0,60,22:0:0:60,22:2083,782:-223.283,-54.0725,-36.0107,-169.527,0,-162.904 1/1:37:0,37,0:0:0:37,0:1252,0:-112.429,-11.1381,0,-112.429,-11.1381,-112.429 1/1:103:0,102,0:0:0:102,0:3518,0:-315.256,-30.7051,0,-315.256,-30.7051,-315.256 chr06 5682652 . G T,A 28716.3 PASS AB=0.57329,0.42671;ABP=31.6568,31.6568;AC=30,12;AF=0.714286,0.285714;AN=42;AO=862,263;CIGAR=1X,1X;DP=1125;DPB=1125;DPRA=0,0.947387;EPP=26.2264,40.0739;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=55.8341,34.6046;MQMR=0;NS=21;NUMALT=2;ODDS=8.10229;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30471,9383;QR=0;RO=0;RPL=862,263;RPP=1874.82,574.108;RPPR=0;RPR=0,0;RUN=1,1;SAF=383,165;SAP=26.2264,40.0739;SAR=479,98;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1924,0:-172.845,-16.2556,0,-172.845,-16.2556,-172.845 1/1:68:0,67,1:0:0:67,1:2367,36:-211.36,-20.169,0,-209.785,-18.3835,-209.484 1/2:23:0,10,13:0:0:10,13:360,464:-59.6155,-30.2509,-27.2406,-29.6936,0,-25.7803 1/1:60:0,60,0:0:0:60,0:2122,0:-190,-18.0618,0,-190,-18.0618,-190 1/1:72:0,72,0:0:0:72,0:2535,0:-228.036,-21.6742,0,-228.036,-21.6742,-228.036 1/2:45:0,24,21:0:0:24,21:848,744:-118.145,-49.2474,-42.0226,-69.2178,0,-62.8961 1/2:81:0,55,26:0:0:55,26:1956,932:-214.919,-56.4707,-39.914,-158.747,0,-150.921 1/2:55:0,19,36:0:0:19,36:655,1292:-132.787,-79.6243,-73.9047,-53.4839,0,-42.6468 1/2:57:0,32,25:0:0:32,25:1140,900:-154.197,-61.2922,-51.6592,-93.2316,0,-85.7058 1/2:5:0,2,3:0:0:2,3:72,108:-14.8337,-8.95573,-8.35367,-6.23466,0,-5.33157 1/1:10:0,10,0:0:0:10,0:356,0:-32.1176,-3.0103,0,-32.1176,-3.0103,-32.1176 1/2:19:0,13,6:0:0:13,6:464,216:-54.049,-16.2445,-12.3311,-38.1417,0,-36.3355 1/1:63:0,63,0:0:0:63,0:2217,0:-199.585,-18.9649,0,-199.585,-18.9649,-199.585 1/1:46:0,46,0:0:0:46,0:1639,0:-147.509,-13.8474,0,-147.509,-13.8474,-147.509 1/2:65:0,33,32:0:0:33,32:1148,1144:-176.429,-83.3,-73.366,-93.4628,0,-83.8299 1/2:45:0,27,18:0:0:27,18:964,644:-120.186,-41.682,-33.5542,-78.8198,0,-73.4012 1/2:29:0,19,10:0:0:19,10:680,343:-76.7672,-21.2634,-15.5438,-55.8019,0,-52.7916 1/2:110:0,59,51:0:0:59,51:2051,1816:-290.251,-123.782,-106.021,-166.792,0,-151.44 1/2:80:0,59,21:0:0:59,21:2092,744:-220.882,-50.6207,-32.8599,-170.575,0,-164.253 1/1:37:0,37,0:0:0:37,0:1293,0:-115.491,-11.1381,0,-115.491,-11.1381,-115.491 1/1:101:0,101,0:0:0:101,0:3588,0:-321.314,-30.404,0,-321.314,-30.404,-321.314 chr06 5699701 . C G 11746.5 PASS AB=0.531628;ABP=15.2351;AC=12;AF=0.285714;AN=42;AO=753;CIGAR=1X;DP=2469;DPB=2469;DPRA=1.31527;EPP=1638.13;EPPR=3690.22;GTI=0;LEN=1;MEANALT=1.25;MQM=40.0027;MQMR=59.9848;NS=21;NUMALT=1;ODDS=4.16263;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26857;QR=60807;RO=1710;RPL=0;RPP=1638.13;RPPR=3690.22;RPR=753;RUN=1;SAF=753;SAP=1638.13;SAR=0;SRF=1710;SRP=3716.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:198:198,0:198:7052:0:0:0,-59.6039,-634.743 0/0:96:95,1:95:3375:1:32:0,-25.8752,-300.944 0/1:132:54,77:54:1902:77:2728:-196.931,0,-131.673 0/0:141:137,1:137:4831:1:36:0,-38.4125,-431.46 0/0:254:252,2:252:8980:2:72:0,-69.8483,-801.551 0/1:158:60,98:60:2135:98:3494:-244.187,0,-144.855 0/1:215:102,112:102:3644:112:4012:-269.174,0,-263.385 0/1:106:70,36:70:2496:36:1296:-78.1077,0,-192.984 0/1:234:110,124:110:3884:124:4394:-313.971,0,-279.316 0/1:12:7,5:7:252:5:180:-12.0649,0,-19.4166 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:26:20,6:20:703:6:216:-10.932,0,-55.7667 0/0:110:110,0:110:3888:0:0:0,-33.1133,-350.116 0/0:109:108,0:108:3860:0:0:0,-32.5112,-347.234 0/1:239:110,129:110:3940:129:4593:-327.936,0,-282.846 0/1:123:46,77:46:1628:77:2760:-205.814,0,-109.782 0/1:93:32,61:32:1126:61:2192:-162.551,0,-73.6508 0/1:30:18,12:18:636:12:424:-27.1894,0,-48.5371 0/1:39:28,11:28:991:11:392:-22.1652,0,-77.7634 0/0:97:96,1:96:3448:1:36:0,-25.7763,-307.108 0/0:52:52,0:52:1856:0:0:0,-15.6536,-167.32 chr06 5699707 . CATTCAAC CATTCGAC,TATTC 55724 PASS AB=0.455052,0.537979;ABP=28.1918,20.9889;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1703,777;CIGAR=5M1X2M,1X3M3D1M;DP=2498;DPB=2205.12;DPRA=0,1.33092;EPP=3623.27,294.577;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.61905,2.9375;MQM=60,39.8803;MQMR=0;NS=21;NUMALT=2;ODDS=1.31115;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60792,27336;QR=0;RO=0;RPL=1694,227;RPP=3623.27,294.577;RPPR=0;RPR=9,550;RUN=1,1;SAF=1703,777;SAP=3701.03,1690.24;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:203:0,201,0:0:0:201,0:7180,0:-645.898,-60.507,0,-645.898,-60.507,-645.898 1/1:99:0,97,1:0:0:97,1:3476,30:-312.78,-29.1999,0,-310.49,-26.8892,-310.188 1/2:132:0,53,79:0:0:53,79:1895,2789:-373.144,-218.621,-202.667,-154.873,0,-131.091 1/1:141:0,138,1:0:0:138,1:4919,36:-442.585,-41.5421,0,-439.753,-38.6746,-439.452 1/1:250:0,246,2:0:0:246,2:8807,72:-792.292,-74.0534,0,-786.629,-68.3661,-786.027 1/2:160:0,58,102:0:0:58,102:2084,3614:-440.817,-270.795,-253.335,-170.37,0,-139.665 1/2:217:0,99,116:0:0:99,116:3532,4056:-592.64,-304.693,-274.891,-288.007,0,-253.087 1/2:109:0,71,37:0:0:71,37:2526,1293:-304.443,-98.5623,-77.1892,-205.949,0,-194.811 1/2:241:0,110,129:0:0:110,129:3923,4523:-676.047,-356.245,-323.131,-319.85,0,-281.018 1/2:11:0,6,5:0:0:6,5:216,173:-31.3578,-13.7175,-11.9113,-17.9843,0,-16.4792 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:25:0,19,6:0:0:19,6:684,209:-72.3311,-16.4996,-10.7801,-56.1708,0,-54.3646 1/1:109:0,108,0:0:0:108,0:3825,0:-344.188,-32.5112,0,-344.188,-32.5112,-344.188 1/1:106:0,106,0:0:0:106,0:3795,0:-341.747,-31.9092,0,-341.747,-31.9092,-341.747 1/2:244:0,111,130:0:0:111,130:3962,4606:-684.335,-361.329,-327.914,-322.997,0,-283.863 1/2:127:0,44,82:0:0:44,82:1561,2875:-356.041,-228.856,-215.61,-127.237,0,-102.552 1/2:98:0,35,63:0:0:35,63:1244,2218:-275.941,-174.563,-164.027,-101.729,0,-82.7637 1/2:31:0,18,12:0:0:18,12:636,414:-83.4111,-31.5967,-26.1782,-51.8657,0,-48.2533 1/2:40:0,29,11:0:0:29,11:1040,392:-115.443,-30.6027,-21.8729,-85.1845,0,-81.8732 1/1:98:0,97,1:0:0:97,1:3484,36:-313.428,-29.1999,0,-310.648,-26.0773,-310.347 1/1:53:0,53,0:0:0:53,0:1859,0:-167.586,-15.9546,0,-167.586,-15.9546,-167.586 chr06 5699729 . A T 11733 PASS AB=0.557365;ABP=41.6259;AC=12;AF=0.285714;AN=42;AO=758;CIGAR=1X;DP=2319;DPB=2319;DPRA=1.33452;EPP=1648.99;EPPR=3381.83;GTI=1;LEN=1;MEANALT=1.0625;MQM=39.8918;MQMR=59.9667;NS=21;NUMALT=1;ODDS=1.32281;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26690;QR=53107;RO=1560;RPL=758;RPP=1648.99;RPPR=3019.11;RPR=0;RUN=1;SAF=758;SAP=1648.99;SAR=0;SRF=1517;SRP=3027.31;SRR=43;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:193:193,0:193:6655:0:0:0,-58.0988,-599.057 0/0:98:97,1:97:3343:1:32:0,-26.4773,-298.072 0/1:127:50,77:50:1643:77:2711:-197.352,0,-109.918 0/0:117:116,1:116:3957:1:36:0,-31.7398,-352.08 0/0:226:224,2:224:7589:2:72:0,-61.4195,-676.356 0/1:155:54,101:54:1865:101:3554:-250.195,0,-121.468 0/1:200:87,112:87:2933:112:3929:-268.498,0,-203.952 0/1:97:61,36:61:2067:36:1269:-78.83,0,-157.101 0/1:222:98,124:98:3331:124:4323:-310.26,0,-233.189 0/1:11:6,5:6:208:5:172:-11.8434,0,-15.7478 0/0:5:5,0:5:164:0:0:0,-1.50515,-15.0839 0/1:24:18,6:18:592:6:212:-11.2567,0,-46.3692 0/0:102:102,0:102:3463:0:0:0,-30.7051,-311.896 0/0:90:90,0:90:3015:0:0:0,-27.0927,-271.591 0/1:227:100,127:100:3410:127:4494:-322.977,0,-238.787 0/1:125:42,83:42:1448:83:2941:-221.338,0,-92.9856 0/1:94:34,60:34:1184:60:2129:-157.595,0,-78.5678 0/1:29:18,11:18:601:11:388:-24.4083,0,-45.6747 0/1:40:29,11:29:984:11:392:-21.8641,0,-76.8242 0/0:87:86,1:86:2954:1:36:0,-22.766,-262.678 0/0:50:50,0:50:1701:0:0:0,-15.0515,-153.373 chr06 5699767 . A G 36677.2 PASS AB=0.373286;ABP=236.894;AC=29;AF=0.690476;AN=42;AO=1781;CIGAR=1X;DP=3214;DPB=3214;DPRA=0;EPP=3505.93;EPPR=3110.39;GTI=3;LEN=1;MEANALT=1.04762;MQM=59.9298;MQMR=60;NS=21;NUMALT=1;ODDS=2.7895;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63189;QR=50828;RO=1431;RPL=44;RPP=3497.67;RPPR=3110.39;RPR=1737;RUN=1;SAF=1;SAP=3861.72;SAR=1780;SRF=0;SRP=3110.39;SRR=1431;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:186:0,186:0:0:186:6667:-600.106,-55.9916,0 1/1:93:0,93:0:0:93:3322:-299.197,-27.9958,0 0/1:119:63,56:63:2247:56:1993:-143.82,0,-166.67 1/1:141:0,141:0:0:141:4949:-445.565,-42.4452,0 1/1:284:3,279:3:108:279:9849:-876.108,-75.1512,0 0/1:103:57,46:57:2027:46:1652:-117.96,0,-151.696 0/1:152:112,40:112:3941:40:1413:-81.7083,0,-309.128 0/1:188:118,70:118:4182:70:2448:-163.977,0,-319.969 0/1:170:84,86:84:3001:86:3033:-222.024,0,-219.145 0/0:383:374,9:374:13300:9:324:0,-85.7886,-1167.3 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:195:169,26:169:6029:26:928:-25.1374,0,-484.014 1/1:135:2,133:2:72:133:4748:-420.64,-33.8023,0 1/1:132:1,131:1:36:131:4660:-415.86,-36.1377,0 0/1:229:95,134:95:3341:134:4748:-358.543,0,-231.972 0/1:76:42,34:42:1482:34:1224:-87.5888,0,-110.795 0/1:119:75,44:75:2676:44:1568:-105.589,0,-205.26 0/1:281:225,56:225:7990:56:1946:-90.8228,0,-634.538 0/1:45:11,34:11:396:34:1209:-95.5678,0,-22.4364 1/1:124:0,124:0:0:124:4415:-397.497,-37.3277,0 1/1:53:0,53:0:0:53:1877:-169.208,-15.9546,0 chr06 5725187 . A G 19630.1 PASS AB=0.473743;ABP=8.36983;AC=30;AF=0.714286;AN=42;AO=976;CIGAR=1X;DP=1450;DPB=1450;DPRA=0;EPP=2122.37;EPPR=1032.29;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.83702;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34868;QR=16892;RO=474;RPL=976;RPP=2122.37;RPPR=1032.29;RPR=0;RUN=1;SAF=0;SAP=2122.37;SAR=976;SRF=0;SRP=1032.29;SRR=474;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,79:0:0:79:2831:-255.028,-23.7814,0 1/1:43:0,43:0:0:43:1514:-136.551,-12.9443,0 0/1:81:37,44:37:1313:44:1580:-118.108,0,-94.0863 1/1:60:0,60:0:0:60:2156:-194.307,-18.0618,0 1/1:153:1,152:1:36:152:5436:-485.77,-42.4593,0 0/1:25:11,14:11:392:14:500:-37.8104,0,-28.0943 0/1:118:68,50:68:2409:50:1783:-125.23,0,-181.544 0/1:82:37,45:37:1309:45:1604:-119.966,0,-93.4251 0/1:165:97,68:97:3453:68:2440:-170.185,0,-261.312 0/1:26:9,17:9:320:17:586:-45.2343,0,-21.3156 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:24:8,16:8:288:16:568:-44.2271,0,-19.0427 1/1:58:1,57:1:36:57:2044:-180.634,-13.8615,0 1/1:80:0,80:0:0:80:2850:-256.737,-24.0824,0 0/1:111:66,45:66:2368:45:1612:-111.956,0,-179.964 0/1:56:33,23:33:1184:23:820:-57.2648,0,-90.0106 0/1:95:44,51:44:1564:51:1824:-135.843,0,-112.454 0/1:87:50,37:50:1788:37:1332:-93.9928,0,-135.013 0/1:25:11,14:11:396:14:500:-37.8104,0,-28.457 1/1:52:0,52:0:0:52:1848:-166.598,-15.6536,0 1/1:23:1,22:1:36:22:788:-67.6465,-3.32542,0 chr06 5732263 . TAGCCA TAACCA,CAACCA 26854.7 PASS AB=0.469466,0.522901;ABP=9.37553,6.59074;AC=30,12;AF=0.714286,0.285714;AN=42;AO=889,414;CIGAR=2M1X3M,1X1M1X3M;DP=1319;DPB=1318.67;DPRA=0,1.08628;EPP=1898.86,893.335;EPPR=7.35324;GTI=0;LEN=1,6;MEANALT=2.14286,2.46154;MQM=59.9078,59.8696;MQMR=60;NS=21;NUMALT=2;ODDS=5.38329;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31417,14130;QR=72;RO=2;RPL=885,413;RPP=1898.86,893.335;RPPR=7.35324;RPR=4,1;RUN=1,1;SAF=889,414;SAP=1933.45,902;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,53,3:0:0:53,3:1884,84:-169.499,-15.9546,0,-162.848,-9.01959,-161.944 1/1:27:0,26,0:0:0:26,0:905,0:-81.4016,-7.82678,0,-81.4016,-7.82678,-81.4016 1/2:66:0,31,34:0:0:31,34:1100,1162:-184.015,-94.3842,-85.0522,-89.7156,0,-79.4805 1/1:54:2,48,0:2:72:48,0:1665,0:-143.296,-8.57461,0,-143.899,-14.4494,-149.774 1/1:51:0,51,0:0:0:51,0:1819,0:-163.822,-15.3525,0,-163.822,-15.3525,-163.822 1/2:53:0,25,28:0:0:25,28:880,929:-147.132,-75.4821,-67.9563,-71.992,0,-63.5631 1/2:49:0,25,24:0:0:25,24:884,827:-139.523,-67.519,-59.9933,-72.3526,0,-65.1279 1/2:126:0,62,64:0:0:62,64:2194,2184:-356.273,-177.56,-158.896,-179.061,0,-159.795 1/2:105:0,32,73:0:0:32,73:1144,2520:-298.304,-205.021,-195.388,-93.6366,0,-71.6614 1/2:7:0,3,4:0:0:3,4:108,131:-19.7356,-10.9094,-10.0063,-9.17208,0,-7.96796 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:61:0,22,37:0:0:22,37:773,1267:-165.786,-102.867,-96.2445,-62.9443,0,-51.8062 1/1:109:0,108,0:0:0:108,0:3812,0:-342.92,-32.5112,0,-342.92,-32.5112,-342.92 1/1:80:0,79,0:0:0:79,0:2813,0:-253.191,-23.7814,0,-253.191,-23.7814,-253.191 1/2:125:0,66,56:0:0:66,56:2364,1919:-348.631,-155.829,-135.961,-192.855,0,-175.997 1/2:19:0,11,8:0:0:11,8:392,275:-54.3638,-22.4018,-19.0905,-32.3087,0,-29.9005 1/2:21:0,12,9:0:0:12,9:424,324:-61.3237,-26.7966,-23.1842,-34.8841,0,-32.1748 1/2:67:0,31,36:0:0:31,36:1078,1244:-189.069,-101.423,-92.0907,-87.9933,0,-77.1562 1/2:87:0,49,38:0:0:49,38:1714,1264:-242.063,-102.612,-87.8614,-139.791,0,-128.352 1/1:106:0,105,0:0:0:105,0:3715,0:-334.322,-31.6082,0,-334.322,-31.6082,-334.322 1/1:42:0,42,0:0:0:42,0:1461,0:-131.782,-12.6433,0,-131.782,-12.6433,-131.782 chr06 5930193 . G A 41982.8 PASS AB=0.647987;ABP=244.023;AC=30;AF=0.714286;AN=42;AO=2000;CIGAR=1X;DP=2448;DPB=2448;DPRA=0;EPP=4302.63;EPPR=973.658;GTI=1;LEN=1;MEANALT=1.04762;MQM=54.2495;MQMR=58.1141;NS=21;NUMALT=1;ODDS=3.24279;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71356;QR=15961;RO=447;RPL=5;RPP=4302.63;RPPR=973.658;RPR=1995;RUN=1;SAF=2000;SAP=4345.96;SAR=0;SRF=447;SRP=973.658;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:1,149:1:36:149:5295:-472.624,-41.8555,0 1/1:131:0,131:0:0:131:4668:-418.163,-39.4349,0 0/1:38:16,22:16:561:22:777:-58.7596,0,-39.3741 1/1:124:0,124:0:0:124:4414:-396.842,-37.3277,0 1/1:308:0,307:0:0:307:10871:-975.703,-92.4162,0 0/1:106:24,82:24:856:82:2921:-230.323,0,-45.3265 0/1:138:43,95:43:1529:95:3399:-263.436,0,-96.2239 0/1:48:21,27:21:756:27:957:-71.8601,0,-53.7677 0/1:123:49,74:49:1730:74:2633:-199.654,0,-118.727 0/1:36:13,23:13:468:23:828:-63.8938,0,-31.5322 1/1:16:0,16:0:0:16:568:-51.1498,-4.81648,0 0/1:38:9,29:9:324:29:1040:-82.3311,0,-18.0198 1/1:135:0,135:0:0:135:4844:-435.38,-40.6391,0 1/1:135:0,135:0:0:135:4817:-432.483,-40.6391,0 0/1:204:54,150:54:1928:150:5364:-419.896,0,-112.368 0/1:83:22,61:22:788:61:2173:-170.641,0,-46.1946 0/1:102:27,75:27:953:75:2681:-210.228,0,-54.2709 0/1:237:130,107:130:4668:107:3852:-274.095,0,-347.781 0/1:114:38,76:38:1364:76:2727:-210.758,0,-88.7149 1/1:111:0,111:0:0:111:3972:-356.911,-33.4143,0 1/1:71:0,71:0:0:71:2555:-228.456,-21.3731,0 chr06 5930217 . G A 42159.7 PASS AB=0.651623;ABP=255.212;AC=30;AF=0.714286;AN=42;AO=2014;CIGAR=1X;DP=2458;DPB=2458;DPRA=0;EPP=4359;EPPR=905.132;GTI=1;LEN=1;MEANALT=1.04762;MQM=54.1792;MQMR=58.1806;NS=21;NUMALT=1;ODDS=4.01701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72009;QR=15792;RO=443;RPL=2010;RPP=4341.68;RPPR=913.563;RPR=4;RUN=1;SAF=2012;SAP=4359;SAR=2;SRF=442;SRP=956.306;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:152:1,151:1:36:151:5391:-481.061,-42.4575,0 1/1:135:0,135:0:0:135:4844:-433.773,-40.6391,0 0/1:38:16,22:16:561:22:773:-58.4001,0,-39.3741 1/1:123:0,123:0:0:123:4428:-397.935,-37.0267,0 1/1:308:2,306:2:68:306:10877:-969.862,-86.262,0 0/1:102:23,79:23:828:79:2840:-224.243,0,-44.0816 0/1:134:40,94:40:1417:94:3368:-262.061,0,-87.36 0/1:49:21,28:21:741:28:1008:-76.1425,0,-52.2363 0/1:124:47,76:47:1665:76:2723:-207.353,0,-112.53 0/1:36:13,23:13:468:23:824:-63.5357,0,-31.5322 1/1:16:0,16:0:0:16:561:-50.5132,-4.81648,0 0/1:38:9,29:9:324:29:1044:-82.6888,0,-18.0198 1/1:139:0,139:0:0:139:4934:-443.617,-41.8432,0 1/1:136:0,136:0:0:136:4863:-436.763,-40.9401,0 0/1:205:54,151:54:1936:151:5399:-422.948,0,-112.79 0/1:87:25,62:25:888:62:2223:-173.913,0,-53.0829 0/1:103:25,78:25:900:78:2804:-220.968,0,-50.2973 0/1:233:129,104:129:4592:104:3744:-265.589,0,-342.215 0/1:114:37,77:37:1332:77:2729:-211.012,0,-85.8366 1/1:113:0,113:0:0:113:4052:-364.019,-34.0164,0 1/1:73:1,72:1:36:72:2580:-226.8,-18.3769,0 chr06 5930222 . 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G C,T 93322.2 PASS AB=0.529323,0.469666;ABP=17.7825,18.8188;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2572,935;CIGAR=1X,1X;DP=3512;DPB=3512;DPRA=0,1.33218;EPP=5588.04,2033.34;EPPR=11.6962;GTI=1;LEN=1,1;MEANALT=1.7619,2.06667;MQM=59.9312,59.9422;MQMR=60;NS=21;NUMALT=2;ODDS=1.32559;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=89745,32984;QR=144;RO=4;RPL=1382,482;RPP=34.1336,4.96346;RPPR=5.18177;RPR=1190,453;RUN=1,1;SAF=1382,482;SAP=34.1336,4.96346;SAR=1190,453;SRF=3;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:154:1,153,0:1:36:153,0:5409,0:-483.332,-42.7603,0,-483.633,-46.0576,-486.57 1/1:123:0,123,0:0:0:123,0:4315,0:-388.518,-37.0267,0,-388.518,-37.0267,-388.518 1/2:160:1,80,79:1:36:80,79:2788,2816:-453.024,-226.601,-205.456,-223.78,0,-202.936 1/1:205:0,205,0:0:0:205,0:7099,0:-638.953,-61.7112,0,-638.953,-61.7112,-638.953 1/1:334:0,331,2:0:0:331,2:11540,72:-1038.14,-99.6409,0,-1032.26,-93.7661,-1031.66 1/2:126:0,58,68:0:0:58,68:2037,2368:-358.699,-192.908,-175.448,-166.14,0,-145.67 1/2:242:0,138,104:0:0:138,104:4754,3717:-689.556,-303.425,-261.882,-386.483,0,-355.176 1/2:202:0,117,85:0:0:117,85:4034,3005:-572.758,-245.095,-209.874,-328.013,0,-302.426 1/2:326:1,166,159:1:36:166,159:5801,5564:-921.232,-449.646,-402.612,-468.94,0,-424.013 1/2:4:0,3,1:0:0:3,1:104,36:-11.7405,-3.29724,-2.39415,-8.79971,0,-8.49868 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:54:0,32,22:0:0:32,22:1144,758:-155.201,-61.914,-52.2811,-93.6366,0,-87.0139 1/1:220:1,219,0:1:36:219,0:7566,0:-677.398,-62.6283,0,-677.699,-65.9256,-680.636 1/1:214:0,213,1:0:0:213,1:7448,36:-670.015,-64.1194,0,-667.078,-60.8221,-666.777 1/2:366:0,199,167:0:0:199,167:7009,5946:-1055.59,-484.968,-425.064,-570.974,0,-520.702 1/2:100:0,48,52:0:0:48,52:1679,1841:-286.907,-150.315,-135.865,-136.944,0,-121.291 1/2:120:0,49,71:0:0:49,71:1724,2526:-346.556,-206.217,-191.467,-140.692,0,-119.319 1/2:154:0,73,81:0:0:73,81:2552,2800:-434.927,-227.856,-205.881,-207.418,0,-183.035 1/2:124:0,84,40:0:0:84,40:2948,1395:-353.72,-113.802,-88.5156,-240.267,0,-228.226 1/1:175:0,172,3:0:0:172,3:5992,104:-539.05,-51.7772,0,-530.597,-42.9774,-529.694 1/1:100:0,100,0:0:0:100,0:3482,0:-313.524,-30.103,0,-313.524,-30.103,-313.524 chr06 6444768 . T A 3967.88 PASS AB=0.545667;ABP=10.7452;AC=12;AF=0.285714;AN=42;AO=233;CIGAR=1X;DP=748;DPB=748;DPRA=0.997664;EPP=508.963;EPPR=1119.15;GTI=0;LEN=1;MEANALT=1;MQM=58.6137;MQMR=59.751;NS=21;NUMALT=1;ODDS=3.07253;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8367;QR=18181;RO=514;RPL=233;RPP=508.963;RPPR=1119.15;RPR=0;RUN=1;SAF=0;SAP=508.963;SAR=233;SRF=0;SRP=1119.15;SRR=514;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:24,0:24:855:0:0:0,-7.22472,-77.2578 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3328 0/1:51:27,24:27:937:24:860:-62.3327,0,-69.2863 0/0:42:41,0:41:1453:0:0:0,-12.3422,-130.686 0/0:65:65,0:65:2324:0:0:0,-19.5669,-209.414 0/1:24:20,4:20:712:4:144:-6.04942,0,-57.1816 0/1:43:15,28:15:532:28:1008:-77.9264,0,-35.1969 0/1:33:14,19:14:500:19:680:-51.5952,0,-35.4022 0/1:60:15,45:15:513:45:1620:-127.877,0,-28.4311 0/1:10:3,7:3:93:7:248:-19.6351,0,-5.66643 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3102 0/1:20:14,6:14:481:6:216:-13.7699,0,-37.5945 0/0:34:34,0:34:1197:0:0:0,-10.235,-108.027 0/0:54:54,0:54:1894:0:0:0,-16.2556,-170.728 0/1:36:13,23:13:464:23:828:-63.9786,0,-31.2542 0/1:10:8,2:8:284:2:72:-3.80789,0,-22.8931 0/1:13:11,2:11:396:2:72:-2.92333,0,-32.0611 0/1:91:32,59:32:1144:59:2115:-162.677,0,-75.8696 0/1:36:22,14:22:788:14:504:-34.8587,0,-60.4015 0/0:49:49,0:49:1718:0:0:0,-14.7505,-154.901 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.982 chr06 6463022 . T C 3990.25 PASS AB=0.385057;ABP=82.8805;AC=12;AF=0.285714;AN=42;AO=269;CIGAR=1X;DP=1426;DPB=1426;DPRA=0.680832;EPP=544.514;EPPR=2437.84;GTI=0;LEN=1;MEANALT=1;MQM=59.9628;MQMR=59.9948;NS=21;NUMALT=1;ODDS=0.684296;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9613;QR=41484;RO=1157;RPL=5;RPP=544.514;RPPR=2437.84;RPR=264;RUN=1;SAF=269;SAP=587.136;SAR=0;SRF=1157;SRP=2515.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/0:79:79,0:79:2832:0:0:0,-23.7814,-255.118 0/1:23:9,14:9:324:14:500:-38.4125,0,-22.5822 0/0:116:116,0:116:4168:0:0:0,-34.9195,-375.301 0/0:157:157,0:157:5611:0:0:0,-47.2617,-505.112 0/1:64:35,29:35:1260:29:1040:-74.6484,0,-94.4396 0/1:109:72,37:72:2588:37:1328:-87.01,0,-200.356 0/1:21:13,8:13:468:8:279:-19.1259,0,-36.138 0/1:128:83,45:83:2980:45:1598:-105.564,0,-229.9 0/1:24:18,6:18:648:6:212:-12.2001,0,-51.4225 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/1:29:21,8:21:756:8:288:-17.5375,0,-59.6374 0/0:96:96,0:96:3436:0:0:0,-28.8989,-309.453 0/0:47:47,0:47:1665:0:0:0,-14.1484,-150.135 0/1:42:26,16:26:936:16:566:-38.6276,0,-71.9162 0/1:53:33,20:33:1176:20:720:-49.1742,0,-90.1932 0/1:37:27,10:27:968:10:360:-21.6062,0,-76.2993 0/1:95:41,54:41:1476:54:1931:-145.468,0,-104.538 0/1:71:50,21:50:1800:21:755:-46.9039,0,-140.909 0/0:102:102,0:102:3664:0:0:0,-30.7051,-329.963 0/0:53:52,1:52:1868:1:36:0,-12.3563,-164.801 chr06 6513284 . CCC CCT,ACT 8954.22 PASS AB=0.585153,0.414847;ABP=17.433,17.433;AC=30,12;AF=0.714286,0.285714;AN=42;AO=327,95;CIGAR=2M1X,1X1M1X;DP=422;DPB=422;DPRA=0,0.889896;EPP=713.082,209.3;EPPR=0;GTI=2;LEN=1,3;MEANALT=1.57143,2;MQM=59.9633,59.9684;MQMR=0;NS=21;NUMALT=2;ODDS=0.499046;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=11709,3382;QR=0;RO=0;RPL=0,0;RPP=713.082,209.3;RPPR=0;RPR=327,95;RUN=1,1;SAF=327,95;SAP=713.082,209.3;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,22,0:0:0:22,0:792,0:-71.6057,-6.62266,0,-71.6057,-6.62266,-71.6057 1/1:23:0,23,0:0:0:23,0:828,0:-74.8441,-6.92369,0,-74.8441,-6.92369,-74.8441 1/2:15:0,9,6:0:0:9,6:324,216:-44.4211,-17.9843,-15.2751,-26.7966,0,-24.9904 1/1:10:0,10,0:0:0:10,0:352,0:-32.0182,-3.0103,0,-32.0182,-3.0103,-32.0182 1/1:45:0,45,0:0:0:45,0:1612,0:-145.37,-13.5464,0,-145.37,-13.5464,-145.37 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/2:35:0,23,12:0:0:23,12:824,424:-102.088,-34.8835,-27.9598,-67.5596,0,-63.9473 1/2:15:0,10,5:0:0:10,5:360,180:-44.4207,-15.0469,-12.0366,-29.7336,0,-28.2284 1/2:26:0,18,8:0:0:18,8:648,285:-76.4623,-23.5862,-18.1677,-53.2333,0,-50.8251 1/2:6:0,5,1:0:0:5,1:180,36:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:7:0,5,2:0:0:5,2:180,70:-20.7395,-6.04527,-4.54012,-15.0469,0,-14.4449 1/1:15:0,15,0:0:0:15,0:519,0:-47.0352,-4.51545,0,-47.0352,-4.51545,-47.0352 1/1:36:0,36,0:0:0:36,0:1279,0:-115.395,-10.8371,0,-115.395,-10.8371,-115.395 1/2:45:0,22,23:0:0:22,23:791,826:-132.274,-67.7401,-61.1175,-64.8929,0,-57.9692 1/2:10:0,2,8:0:0:2,8:72,288:-29.734,-23.8592,-23.2571,-6.23466,0,-3.82642 1/2:5:0,2,3:0:0:2,3:72,106:-14.8635,-8.98601,-8.38395,-6.23466,0,-5.33157 1/2:45:0,27,18:0:0:27,18:972,644:-132.182,-52.8707,-44.7429,-79.6701,0,-74.2516 1/2:16:0,8,8:0:0:8,8:288,271:-45.8214,-22.3115,-19.9032,-23.8592,0,-21.4509 1/1:18:0,18,0:0:0:18,0:644,0:-58.2906,-5.41854,0,-58.2906,-5.41854,-58.2906 1/1:19:0,19,0:0:0:19,0:684,0:-61.8903,-5.71957,0,-61.8903,-5.71957,-61.8903 chr06 6532994 . ATTCTTCTCT CTTCCTCTCTCTCT,CTTCTTCTCTCTCT 17707.8 PASS AB=0.524528,0.456604;ABP=5.77995,11.6798;AC=29,13;AF=0.690476,0.309524;AN=42;AO=667,254;CIGAR=1X3M4I1X5M,1X4M4I5M;DP=936;DPB=1309.3;DPRA=4.63,1.4102;EPP=1451.38,554.564;EPPR=0;GTI=1;LEN=14,14;MEANALT=2.3,2.64286;MQM=38.5637,50.5039;MQMR=0;NS=21;NUMALT=2;ODDS=3.44818;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23296,8820;QR=0;RO=0;RPL=0,0;RPP=1451.38,554.564;RPPR=0;RPR=667,254;RUN=1,1;SAF=0,0;SAP=1451.38,554.564;SAR=667,254;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:55:0,54,1:0:0:54,1:1881,36:-162.455,-16.2556,0,-159.526,-12.9674,-159.225 1/1:13:0,13,0:0:0:13,0:455,0:-37.7489,-3.91339,0,-37.7489,-3.91339,-37.7489 1/2:67:0,42,24:0:0:42,24:1442,827:-178.817,-67.0069,-54.3637,-111.791,0,-104.566 1/1:32:0,32,0:0:0:32,0:1134,0:-98.3273,-9.63296,0,-98.3273,-9.63296,-98.3273 1/1:96:0,94,2:0:0:94,2:3293,72:-283.855,-28.2968,0,-277.996,-22.0793,-277.394 1/2:38:0,20,17:0:0:20,17:705,600:-100.825,-48.3288,-42.3082,-52.5033,0,-47.3858 1/2:56:0,26,28:0:0:26,28:910,971:-145.471,-78.1408,-70.314,-67.336,0,-58.9072 1/2:28:0,15,13:0:0:15,13:525,464:-78.2471,-38.0004,-33.485,-40.591,0,-36.6776 1/2:68:0,33,35:0:0:33,35:1142,1213:-188.238,-98.6317,-88.6977,-89.9467,0,-79.4106 2/2:10:0,0,9:0:0:0,9:0,320:-28.6795,-28.6795,-28.6795,-2.70927,-2.70927,0 1/1:5:0,5,0:0:0:5,0:176,0:-14.8891,-1.50515,0,-14.8891,-1.50515,-14.8891 1/2:9:0,5,3:0:0:5,3:179,108:-22.1953,-8.51944,-7.01429,-13.6763,0,-12.7733 1/1:80:0,80,0:0:0:80,0:2825,0:-244.117,-24.0824,0,-244.117,-24.0824,-244.117 1/1:45:0,43,0:0:0:43,0:1512,0:-130.61,-12.9443,0,-130.61,-12.9443,-130.61 1/2:111:0,57,52:0:0:57,52:2002,1776:-299.153,-143.466,-126.307,-155.705,0,-140.052 1/2:14:0,6,8:0:0:6,8:207,276:-38.945,-22.7381,-20.932,-16.5452,0,-14.1369 1/2:18:0,10,8:0:0:10,8:352,272:-50.0327,-22.3769,-19.3666,-27.9959,0,-25.5876 1/2:82:0,42,37:0:0:42,37:1427,1303:-213.94,-105.546,-92.9024,-108.374,0,-97.2356 1/2:39:0,22,17:0:0:22,17:752,582:-105.279,-47.2752,-40.6525,-58.3376,0,-53.2201 1/1:37:0,35,0:0:0:35,0:1222,0:-104.33,-10.5361,0,-104.33,-10.5361,-104.33 1/1:33:0,33,0:0:0:33,0:1155,0:-96.2482,-9.93399,0,-96.2482,-9.93399,-96.2482 chr06 6570709 . T C 21774.1 PASS AB=0.548148;ABP=38.349;AC=12;AF=0.285714;AN=42;AO=969;CIGAR=1X;DP=3018;DPB=3018;DPRA=1.89622;EPP=2107.17;EPPR=4450.19;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.84;MQMR=59.981;NS=21;NUMALT=1;ODDS=1.26481;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33947;QR=71657;RO=2048;RPL=395;RPP=74.8123;RPPR=820.37;RPR=574;RUN=1;SAF=395;SAP=74.8123;SAR=574;SRF=585;SRP=820.37;SRR=1463;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:318:317,1:317:11159:1:36:0,-92.1293,-1000.62 0/0:95:95,0:95:3261:0:0:0,-28.5978,-293.715 0/1:118:41,77:41:1424:77:2724:-209.881,0,-92.9314 0/0:163:163,0:163:5691:0:0:0,-49.0679,-512.321 0/0:255:251,3:251:8819:3:104:0,-67.0029,-784.046 0/1:108:54,54:54:1867:54:1897:-138.495,0,-135.795 0/1:189:77,112:77:2668:112:3942:-298.037,0,-183.473 0/1:203:94,109:94:3321:109:3837:-284.42,0,-238.001 0/1:238:98,140:98:3444:140:4901:-369.602,0,-238.531 0/1:13:7,6:7:236:6:195:-13.9564,0,-17.6565 0/0:9:9,0:9:308:0:0:0,-2.70927,-28.0519 0/1:48:21,27:21:716:27:964:-72.6274,0,-50.3081 0/0:162:161,1:161:5600:1:36:0,-45.1686,-499.518 0/0:94:94,0:94:3351:0:0:0,-28.2968,-301.807 0/1:284:136,148:136:4736:148:5195:-382.193,0,-340.916 0/1:104:60,44:60:2092:44:1524:-106.116,0,-157.238 0/1:140:56,84:56:1986:84:2929:-221.431,0,-136.869 0/1:235:103,132:103:3631:132:4605:-343.847,0,-256.258 0/1:75:46,29:46:1559:29:990:-66.8181,0,-118.016 0/0:101:99,2:99:3491:2:68:0,-23.9463,-307.947 0/0:66:66,0:66:2297:0:0:0,-19.868,-206.989 chr06 6595076 . A G 5574.4 PASS AB=0.520186;ABP=5.28967;AC=12;AF=0.285714;AN=42;AO=335;CIGAR=1X;DP=1156;DPB=1156;DPRA=0.943359;EPP=730.454;EPPR=1779.27;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.8896;MQMR=59.9866;NS=21;NUMALT=1;ODDS=8.36638;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11895;QR=29352;RO=818;RPL=0;RPP=730.454;RPPR=1779.27;RPR=335;RUN=1;SAF=335;SAP=730.454;SAR=0;SRF=818;SRP=1779.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.14 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/1:36:13,20:13:464:20:704:-53.3918,0,-31.8043 0/0:97:97,0:97:3480:0:0:0,-29.1999,-313.411 0/0:96:96,0:96:3444:0:0:0,-28.8989,-310.172 0/1:52:29,23:29:1044:23:824:-58.8298,0,-78.6212 0/1:89:39,50:39:1400:50:1784:-134.051,0,-99.5075 0/1:86:38,48:38:1368:48:1728:-129.917,0,-97.5322 0/1:80:39,41:39:1400:41:1464:-107.974,0,-102.217 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:22:10,12:10:356:12:432:-32.5985,0,-25.7586 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:43:43,0:43:1548:0:0:0,-12.9443,-139.613 0/1:91:42,49:42:1497:49:1733:-128.859,0,-107.629 0/1:38:22,16:22:783:16:564:-38.4555,0,-59.3538 0/1:41:22,19:22:792:19:669:-48.1917,0,-59.2634 0/1:56:23,33:23:828:33:1155:-87.3979,0,-57.9864 0/1:46:26,20:26:928:20:694:-48.933,0,-69.9909 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.086 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.98 chr06 6823393 . T C 8057.68 PASS AB=0.529661;ABP=10.224;AC=12;AF=0.285714;AN=42;AO=502;CIGAR=1X;DP=1587;DPB=1587;DPRA=1.29207;EPP=1093.09;EPPR=2343.87;GTI=0;LEN=1;MEANALT=1.15385;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.57508;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17398;QR=35846;RO=1082;RPL=502;RPP=1093.09;RPPR=2343.87;RPR=0;RUN=1;SAF=502;SAP=1093.09;SAR=0;SRF=1082;SRP=2352.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:71,0:71:2305:0:0:0,-21.3731,-207.709 0/0:81:81,0:81:2697:0:0:0,-24.3834,-242.98 0/1:108:52,55:52:1676:55:1856:-134.89,0,-118.693 0/0:67:67,0:67:2194:0:0:0,-20.169,-197.724 0/0:131:129,2:129:4246:2:72:0,-32.5982,-375.504 0/1:76:37,39:37:1244:39:1361:-99.9078,0,-89.3779 0/1:146:69,77:69:2261:77:2683:-197.768,0,-159.801 0/1:69:27,42:27:901:42:1470:-111.822,0,-60.6249 0/1:118:53,65:53:1730:65:2245:-166.793,0,-120.457 0/1:25:15,10:15:524:10:348:-24.1294,0,-39.9639 0/0:12:12,0:12:393:0:0:0,-3.61236,-35.6856 0/1:30:12,18:12:411:18:635:-48.4461,0,-28.287 0/0:62:62,0:62:2094:0:0:0,-18.6639,-188.729 0/0:97:97,0:97:3213:0:0:0,-29.1999,-289.402 0/1:102:52,50:52:1680:50:1735:-125.726,0,-120.773 0/1:39:14,25:14:472:25:862:-66.1505,0,-31.0626 0/1:41:12,29:12:389:29:1010:-78.8673,0,-22.981 0/1:103:36,66:36:1170:66:2289:-175.208,0,-74.5275 0/1:87:63,24:63:2177:24:832:-49.0044,0,-170.007 0/0:57:56,0:56:1879:0:0:0,-16.8577,-169.172 0/0:65:65,0:65:2190:0:0:0,-19.5669,-197.363 chr06 6823422 . A T 26777.7 PASS AB=0.519693;ABP=6.51678;AC=30;AF=0.714286;AN=42;AO=1315;CIGAR=1X;DP=1829;DPB=1829;DPRA=0;EPP=2858.5;EPPR=1114.8;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9741;MQMR=59.8691;NS=21;NUMALT=1;ODDS=14.2973;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46885;QR=18238;RO=512;RPL=1;RPP=2849.82;RPPR=1114.8;RPR=1314;RUN=1;SAF=1;SAP=2849.82;SAR=1314;SRF=0;SRP=1114.8;SRR=512;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:2,71:2:72:71:2548:-222.757,-15.1621,0 1/1:87:1,86:1:36:86:3064:-272.389,-22.5913,0 0/1:104:43,61:43:1521:61:2173:-164.528,0,-105.874 1/1:143:1,142:1:36:142:5092:-454.824,-39.449,0 1/1:208:6,202:6:216:202:7182:-626.64,-42.8237,0 0/1:52:25,27:25:900:27:968:-71.7838,0,-65.6665 0/1:131:67,63:67:2387:63:2253:-163.537,0,-175.592 0/1:94:46,48:46:1647:48:1715:-126.338,0,-120.219 0/1:189:93,96:93:3325:96:3395:-248.867,0,-242.526 0/1:13:5,8:5:171:8:269:-20.6227,0,-11.8121 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:21:10,11:10:356:11:396:-29.6611,0,-26.0596 1/1:73:2,71:2:72:71:2522:-220.392,-15.1385,0 1/1:75:0,75:0:0:75:2666:-240.183,-22.5773,0 0/1:94:57,37:57:2007:37:1298:-88.8112,0,-152.604 0/1:67:30,37:30:1080:37:1332:-100.013,0,-77.3442 0/1:87:53,34:53:1892:34:1224:-84.255,0,-144.254 0/1:106:45,61:45:1599:61:2183:-164.826,0,-112.29 0/1:83:25,58:25:885:58:2061:-160.774,0,-54.981 1/1:62:1,60:1:36:60:2141:-189.377,-15.1044,0 1/1:54:0,54:0:0:54:1939:-174.786,-16.2556,0 chr06 6823429 . G A 8067.87 PASS AB=0.479146;ABP=6.90463;AC=12;AF=0.285714;AN=42;AO=507;CIGAR=1X;DP=1835;DPB=1835;DPRA=1.94253;EPP=1103.95;EPPR=2884.55;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.8915;MQMR=59.9834;NS=21;NUMALT=1;ODDS=15.4419;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18024;QR=47133;RO=1327;RPL=0;RPP=1103.95;RPPR=2875.87;RPR=507;RUN=1;SAF=0;SAP=1103.95;SAR=507;SRF=1;SRP=2875.87;SRR=1326;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:72,2:72:2555:2:70:0,-15.644,-223.566 0/0:89:88,1:88:3120:1:36:0,-23.1934,-277.428 0/1:104:60,44:60:2144:44:1557:-109.113,0,-161.921 0/0:144:143,1:143:5069:1:36:0,-39.75,-452.755 0/0:212:206,6:206:7321:6:216:0,-44.0278,-639.15 0/1:55:27,27:27:964:27:956:-69.7314,0,-70.4615 0/1:129:64,65:64:2263:65:2313:-169.595,0,-165.097 0/1:93:47,46:47:1680:46:1633:-119.262,0,-123.491 0/1:188:94,94:94:3355:94:3347:-244.855,0,-245.573 0/1:13:8,5:8:284:5:180:-12.6387,0,-21.99 0/0:14:14,0:14:491:0:0:0,-4.21442,-44.5211 0/1:20:11,9:11:392:9:316:-22.7583,0,-29.5995 0/0:75:73,2:73:2612:2:72:0,-15.7405,-228.491 0/0:77:77,0:77:2706:0:0:0,-23.1793,-243.78 0/1:90:36,54:36:1292:54:1927:-146.613,0,-89.4686 0/1:66:36,30:36:1288:30:1076:-77.2849,0,-96.3556 0/1:85:35,50:35:1238:50:1783:-135.05,0,-86.1353 0/1:106:62,44:62:2157:44:1564:-109.142,0,-162.485 0/1:82:56,26:56:1991:26:906:-57.1686,0,-154.779 0/0:65:64,1:64:2267:1:36:0,-15.9687,-200.694 0/0:54:54,0:54:1944:0:0:0,-16.2556,-175.236 chr06 6823461 . CTCT CTCA,TTCA 39332.5 PASS AB=0.504708,0.490584;ABP=3.21477,3.82818;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1331,532;CIGAR=3M1X,1X2M1X;DP=1872;DPB=1872;DPRA=0,1.63111;EPP=2875.89,1149.56;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.19048,2.47059;MQM=59.9835,59.8421;MQMR=60;NS=21;NUMALT=2;ODDS=13.9016;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47626,18609;QR=25;RO=1;RPL=1329,531;RPP=2875.89,1149.56;RPPR=5.18177;RPR=2,1;RUN=1,1;SAF=0,0;SAP=2893.24,1158.23;SAR=1331,532;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:0,70,2:0:0:70,2:2500,64:-224.919,-21.0721,0,-219.767,-15.9463,-219.165 1/1:89:0,89,0:0:0:89,0:3183,0:-286.694,-26.7917,0,-286.694,-26.7917,-286.694 1/2:103:0,57,44:0:0:57,44:2043,1551:-292.903,-126.276,-109.117,-166.623,0,-153.377 1/1:147:0,144,1:0:0:144,1:5142,36:-462.562,-43.3483,0,-459.624,-40.4109,-459.323 1/1:213:0,208,5:0:0:208,5:7433,179:-668.642,-62.6142,0,-654.045,-47.659,-652.54 1/2:54:0,27,27:0:0:27,27:968,945:-156.184,-77.2281,-69.1003,-79.3096,0,-71.1817 1/2:135:0,63,70:0:0:63,70:2247,2456:-383.088,-199.913,-180.948,-183.221,0,-162.149 1/2:95:0,47,48:0:0:47,48:1688,1681:-274.827,-137.123,-122.975,-138.059,0,-123.609 1/2:191:0,95,96:0:0:95,96:3382,3372:-550.405,-274.762,-246.164,-275.996,0,-247.097 1/2:13:0,8,5:0:0:8,5:284,163:-36.6437,-13.4856,-11.0773,-23.4951,0,-21.99 1/1:14:0,14,0:0:0:14,0:504,0:-45.6981,-4.21442,0,-45.6981,-4.21442,-45.6981 1/2:21:0,11,10:0:0:11,10:396,346:-60.7817,-28.4628,-25.1514,-32.6714,0,-29.6611 1/1:75:0,73,2:0:0:73,2:2624,71:-236.052,-21.9752,0,-230.267,-15.8352,-229.665 1/1:77:1,76,0:1:25:76,0:2732,0:-243.622,-20.6794,0,-243.923,-22.8783,-245.871 1/2:94:0,36,58:0:0:36,58:1296,2029:-271.173,-165.422,-154.585,-106.107,0,-88.6471 1/2:69:0,37,32:0:0:37,32:1332,1102:-198.542,-89.849,-78.7109,-109.044,0,-99.4113 1/2:92:0,34,58:0:0:34,58:1205,2021:-262.745,-164.587,-154.352,-98.5106,0,-81.0509 1/2:110:0,62,47:0:0:62,47:2212,1644:-314.065,-133.737,-115.073,-180.321,0,-166.173 1/2:85:0,59,26:0:0:59,26:2120,913:-247.612,-74.6579,-56.8971,-173.308,0,-165.481 1/1:66:0,65,1:0:0:65,1:2319,36:-208.61,-19.567,0,-205.673,-16.2697,-205.372 1/1:56:0,56,0:0:0:56,0:2016,0:-181.713,-16.8577,0,-181.713,-16.8577,-181.713 chr06 6860625 . ACTATCC GCTGTCC,GCTGTCA 67285.5 PASS AB=0.469411,0.522013;ABP=17.2248,10.3715;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2302,920;CIGAR=1X2M1X3M,1X2M1X2M1X;DP=3247;DPB=3247;DPRA=0,1.04955;EPP=5001.74,2000.76;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.7619,3.2;MQM=59.9774,59.8348;MQMR=0;NS=21;NUMALT=2;ODDS=11.0253;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80966,32341;QR=0;RO=0;RPL=0,0;RPP=5001.74,2000.76;RPPR=0;RPR=2302,920;RUN=1,1;SAF=2302,920;SAP=5001.74,2000.76;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:199:0,197,1:0:0:197,1:6941,29:-624.441,-59.3029,0,-622.133,-57.0292,-621.832 1/1:154:0,154,0:0:0:154,0:5418,0:-487.757,-46.3586,0,-487.757,-46.3586,-487.757 1/2:154:0,76,76:0:0:76,76:2654,2706:-436.465,-220.6,-197.722,-215.911,0,-193.032 1/1:211:0,209,0:0:0:209,0:7349,0:-661.108,-62.9153,0,-661.108,-62.9153,-661.108 1/1:224:0,219,3:0:0:219,3:7711,108:-693.687,-65.9256,0,-684.875,-57.0954,-683.972 1/2:147:0,76,68:0:0:76,68:2709,2370:-413.551,-192.728,-169.849,-220.817,0,-200.347 1/2:187:0,94,92:0:0:94,92:3281,3251:-531.599,-264.735,-236.439,-266.855,0,-239.16 1/2:138:0,63,75:0:0:63,75:2225,2611:-393.856,-212.661,-193.696,-181.546,0,-158.968 1/2:218:0,99,119:0:0:99,119:3451,4180:-620.964,-340.313,-310.511,-281,0,-245.178 1/2:14:0,2,12:0:0:2,12:65,428:-40.4742,-35.2326,-34.6306,-5.57097,0,-1.95861 1/1:5:0,5,0:0:0:5,0:179,0:-16.4604,-1.50515,0,-16.4604,-1.50515,-16.4604 1/2:30:0,18,12:0:0:18,12:625,423:-85.5979,-34.7936,-29.3751,-51.1545,0,-47.5422 1/1:302:0,301,0:0:0:301,0:10641,0:-957.333,-90.61,0,-957.333,-90.61,-957.333 1/1:179:0,174,3:0:0:174,3:6077,105:-546.692,-52.3792,0,-538.149,-43.8421,-537.246 1/2:191:0,99,91:0:0:99,91:3480,3208:-544.438,-261.193,-231.391,-283.238,0,-255.844 1/2:161:0,81,76:0:0:81,76:2866,2658:-449.671,-216.229,-191.845,-233.435,0,-210.556 1/2:285:0,84,199:0:0:84,199:2939,7010:-809.827,-570.718,-545.431,-239.123,0,-179.218 1/2:116:0,55,61:0:0:55,61:1957,2149:-334.808,-175.315,-158.758,-159.847,0,-141.484 1/2:108:0,74,32:0:0:74,32:2639,1105:-304.913,-89.7814,-67.5052,-215.14,0,-205.507 1/1:158:0,156,0:0:0:156,0:5460,0:-491.202,-46.9607,0,-491.202,-46.9607,-491.202 1/1:66:0,66,0:0:0:66,0:2299,0:-207.169,-19.868,0,-207.169,-19.868,-207.169 chr06 6879870 . G T 8035.73 PASS AB=0.520045;ABP=6.14418;AC=13;AF=0.309524;AN=42;AO=472;CIGAR=1X;DP=1598;DPB=1598;DPRA=1.22616;EPP=1027.95;EPPR=2445.92;GTI=1;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.83144;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16891;QR=39901;RO=1125;RPL=0;RPP=1027.95;RPPR=2445.92;RPR=472;RUN=1;SAF=0;SAP=1027.95;SAR=472;SRF=0;SRP=2445.92;SRR=1125;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:70,0:70:2484:0:0:0,-21.0721,-223.812 0/0:38:38,0:38:1348:0:0:0,-11.4391,-121.62 0/1:77:41,35:41:1468:35:1245:-89.1147,0,-109.178 0/0:130:130,0:130:4573:0:0:0,-39.1339,-411.737 0/0:162:161,1:161:5689:1:36:0,-45.1686,-508.535 0/1:75:33,42:33:1175:42:1508:-113.437,0,-83.4797 0/1:141:86,55:86:3067:55:1972:-135.31,0,-233.814 0/1:76:30,46:30:1067:46:1643:-125.28,0,-73.4629 0/1:161:61,100:61:2167:100:3584:-274.301,0,-146.831 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/0:5:5,0:5:165:0:0:0,-1.50515,-15.1736 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 0/0:104:104,0:104:3709:0:0:0,-31.3071,-334.011 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/1:110:43,67:43:1513:67:2396:-182.784,0,-103.348 0/1:84:40,44:40:1404:44:1565:-115.853,0,-101.368 0/1:82:42,40:42:1504:40:1430:-104.313,0,-110.97 0/1:25:13,12:13:464:12:432:-31.6954,0,-34.5718 0/1:52:36,16:36:1268:16:576:-36.5214,0,-98.7664 0/0:87:87,0:87:3092:0:0:0,-26.1896,-278.507 0/0:67:67,0:67:2380:0:0:0,-20.169,-214.456 chr06 6907385 . C G 10034.3 PASS AB=0.552153;ABP=27.6986;AC=12;AF=0.285714;AN=42;AO=580;CIGAR=1X;DP=1788;DPB=1788;DPRA=1.48667;EPP=1262.46;EPPR=2617.46;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9862;MQMR=60;NS=21;NUMALT=1;ODDS=1.3889;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20752;QR=43120;RO=1204;RPL=0;RPP=1262.46;RPPR=2617.46;RPR=580;RUN=1;SAF=580;SAP=1262.46;SAR=0;SRF=1204;SRP=2617.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:96:95,1:95:3381:1:36:0,-25.3006,-300.907 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/1:78:24,54:24:852:54:1925:-150.045,0,-53.52 0/0:79:78,0:78:2792:0:0:0,-23.4803,-251.161 0/0:197:195,2:195:7004:2:72:0,-52.4662,-623.583 0/1:74:39,33:39:1384:33:1184:-84.8344,0,-102.825 0/1:137:65,72:65:2336:72:2584:-191.568,0,-169.258 0/1:113:29,84:29:1040:84:3001:-236.304,0,-59.898 0/1:154:76,78:76:2711:78:2785:-204.522,0,-197.875 0/1:12:4,8:4:144:8:284:-22.291,0,-9.70126 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:36:15,21:15:540:21:741:-56.1745,0,-38.0995 0/0:85:85,0:85:3044:0:0:0,-25.5875,-274.19 0/0:83:82,0:82:2924:0:0:0,-24.6845,-263.036 0/1:127:51,76:51:1828:76:2724:-207.172,0,-126.57 0/1:64:20,44:20:720:44:1580:-123.226,0,-45.8629 0/1:79:59,20:59:2116:20:720:-41.3474,0,-166.927 0/1:98:45,53:45:1620:53:1904:-142.137,0,-116.589 0/1:73:39,34:39:1400:34:1212:-87.4111,0,-104.324 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.692 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.947 chr06 6923387 . G T 26483.3 PASS AB=0.351233;ABP=353.836;AC=30;AF=0.714286;AN=42;AO=1416;CIGAR=1X;DP=2610;DPB=2610;DPRA=0;EPP=3077.82;EPPR=2591.41;GTI=3;LEN=1;MEANALT=1.09524;MQM=59.9753;MQMR=59.7374;NS=21;NUMALT=1;ODDS=10.2114;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50387;QR=42193;RO=1192;RPL=5;RPP=3034.54;RPPR=7.20751;RPR=1411;RUN=1;SAF=5;SAP=3034.54;SAR=1411;SRF=620;SRP=7.20751;SRR=572;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:95:0,95:0:0:95:3376:-304.056,-28.5979,0 1/1:66:0,66:0:0:66:2356:-212.292,-19.868,0 0/1:188:123,64:123:4361:64:2292:-149.889,0,-336.004 1/1:91:2,89:2:72:89:3179:-279.497,-20.557,0 1/1:171:0,171:0:0:171:6075:-546.858,-51.4761,0 0/1:119:72,47:72:2532:47:1668:-114.585,0,-192.11 0/1:195:118,77:118:4170:77:2728:-187.064,0,-316.6 0/1:251:185,65:185:6560:65:2312:-132.763,0,-514.225 0/1:264:170,94:170:6037:94:3339:-221.256,0,-463.96 0/1:27:21,6:21:744:6:212:-11.297,0,-59.1565 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:26:20,6:20:708:6:216:-11.9637,0,-56.2188 1/1:110:2,108:2:63:108:3848:-340.478,-27.1301,0 1/1:67:1,66:1:36:66:2352:-208.34,-16.5707,0 0/1:293:190,103:190:6730:103:3659:-241.314,0,-517.545 0/1:96:57,39:57:2022:39:1368:-94.5167,0,-153.351 0/1:82:64,18:64:2279:18:641:-33.3348,0,-180.681 0/1:159:99,60:99:3456:60:2148:-145.724,0,-263.355 0/1:125:63,62:63:2252:62:2219:-162.345,0,-165.308 1/1:103:5,98:5:171:98:3488:-298.407,-15.2806,0 1/1:75:0,75:0:0:75:2659:-239.557,-22.5773,0 chr06 6950118 . T C 6495.53 PASS AB=0.477564;ABP=7.10269;AC=12;AF=0.285714;AN=42;AO=448;CIGAR=1X;DP=1904;DPB=1904;DPRA=0.734491;EPP=975.83;EPPR=3160.33;GTI=0;LEN=1;MEANALT=1.07692;MQM=38.4018;MQMR=59.3783;NS=21;NUMALT=1;ODDS=14.6058;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16032;QR=52091;RO=1454;RPL=0;RPP=975.83;RPPR=3160.33;RPR=448;RUN=1;SAF=448;SAP=975.83;SAR=0;SRF=1454;SRP=3160.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:100:99,1:99:3560:1:36:0,-26.5116,-316.662 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.613 0/1:76:44,32:44:1576:32:1148:-74.1493,0,-119.235 0/0:140:140,0:140:5024:0:0:0,-42.1442,-452.094 0/0:206:205,0:205:7356:0:0:0,-61.7111,-661.682 0/1:120:60,60:60:2152:60:2140:-145.291,0,-157.762 0/1:131:64,67:64:2296:67:2387:-161.658,0,-167.3 0/1:79:51,28:51:1832:28:1004:-63.3296,0,-141.342 0/1:151:86,65:86:3080:65:2321:-149.544,0,-231.293 0/1:15:8,7:8:280:7:252:-17.5321,0,-21.022 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5437 0/1:17:9,8:9:320:8:288:-20.1003,0,-24.0248 0/0:205:205,0:205:7324:0:0:0,-61.7111,-659.142 0/0:97:97,0:97:3476:0:0:0,-29.1999,-312.794 0/1:130:66,64:66:2349:64:2300:-157.926,0,-172.521 0/1:58:25,32:25:896:32:1148:-79.7681,0,-63.4361 0/1:104:38,66:38:1364:66:2360:-169.421,0,-90.5309 0/1:23:15,8:15:540:8:288:-18.104,0,-42.0036 0/1:32:22,10:22:770:10:360:-21.67,0,-59.9864 0/0:107:107,0:107:3840:0:0:0,-32.2102,-345.752 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.722 chr06 6950126 . 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C T 45110.6 PASS AB=0.663913;ABP=455.045;AC=30;AF=0.714286;AN=42;AO=2223;CIGAR=1X;DP=2885;DPB=2885;DPRA=0;EPP=4830.19;EPPR=1440.53;GTI=1;LEN=1;MEANALT=1;MQM=56.7022;MQMR=59.7085;NS=21;NUMALT=1;ODDS=19.3207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79559;QR=23468;RO=662;RPL=0;RPP=4830.19;RPPR=1440.53;RPR=2223;RUN=1;SAF=0;SAP=4830.19;SAR=2223;SRF=0;SRP=1440.53;SRR=662;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:5,133:5:180:133:4767:-411.576,-24.9901,0 1/1:39:0,39:0:0:39:1396:-125.894,-11.7402,0 0/1:257:88,169:88:3133:169:6070:-468.026,0,-204.826 1/1:82:0,82:0:0:82:2948:-264.872,-24.6845,0 1/1:214:2,212:2:72:212:7557:-671.255,-57.5837,0 0/1:101:31,70:31:1099:70:2496:-194.356,0,-68.8154 0/1:239:106,133:106:3758:133:4780:-358.158,0,-266.441 0/1:278:93,185:93:3282:185:6611:-510.757,0,-211.854 0/1:267:96,171:96:3440:171:6138:-471.692,0,-229.356 0/1:47:6,41:6:207:41:1468:-118.175,0,-4.81515 1/1:12:0,12:0:0:12:432:-39.2102,-3.61236,0 0/1:62:15,47:15:531:47:1679:-132.34,0,-29.4565 1/1:121:0,121:0:0:121:4340:-389.498,-36.4246,0 1/1:158:0,158:0:0:158:5659:-507.956,-47.5627,0 0/1:258:79,179:79:2806:179:6409:-498.716,0,-175.101 0/1:67:25,42:25:887:42:1483:-113.4,0,-59.9758 0/1:80:25,55:25:888:55:1976:-153.937,0,-56.1486 0/1:189:67,122:67:2321:122:4362:-335.278,0,-152.244 0/1:92:20,72:20:720:72:2567:-202.523,0,-37.434 1/1:140:3,137:3:108:137:4894:-429.859,-32.069,0 1/1:44:1,43:1:36:43:1527:-134.018,-9.64705,0 chr06 7208424 . C A 9498.4 PASS AB=0.345379;ABP=405.244;AC=12;AF=0.285714;AN=42;AO=677;CIGAR=1X;DP=2886;DPB=2886;DPRA=2.11503;EPP=1464.42;EPPR=4719.77;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.6174;MQMR=56.7654;NS=21;NUMALT=1;ODDS=14.1231;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24203;QR=78730;RO=2208;RPL=676;RPP=1464.42;RPPR=4719.77;RPR=1;RUN=1;SAF=0;SAP=1473.1;SAR=677;SRF=0;SRP=4797.62;SRR=2208;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:134,4:134:4764:4:144:0,-28.2285,-414.629 0/0:42:42,0:42:1492:0:0:0,-12.6433,-134.532 0/1:259:169,90:169:6050:90:3219:-211.96,0,-465.623 0/0:84:84,0:84:3004:0:0:0,-25.2865,-269.998 0/0:211:210,1:210:7482:1:36:0,-59.9191,-668.961 0/1:103:70,33:70:2503:33:1173:-74.7633,0,-194.262 0/1:236:130,106:130:4611:106:3792:-270.431,0,-343.863 0/1:276:181,95:181:6436:95:3387:-221.95,0,-495.63 0/1:273:173,100:173:6181:100:3559:-237.4,0,-473.657 0/1:45:39,6:39:1404:6:216:-6.23946,0,-113.023 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2102 0/1:63:48,15:48:1712:15:540:-29.9701,0,-135.13 0/0:120:120,0:120:4244:0:0:0,-36.1236,-381.102 0/0:154:154,0:154:5513:0:0:0,-46.3586,-494.635 0/1:261:179,81:179:6375:81:2912:-183.671,0,-494.753 0/1:66:40,26:40:1427:26:928:-63.8607,0,-108.702 0/1:77:50,27:50:1788:27:968:-64.248,0,-137.952 0/1:187:119,68:119:4252:68:2440:-163.548,0,-326.115 0/1:91:69,22:69:2471:22:781:-43.1721,0,-194.19 0/0:141:138,3:138:4928:3:108:0,-32.3701,-432.297 0/0:47:47,0:47:1661:0:0:0,-14.1484,-149.67 chr06 7211561 . TCTTGT CTTTGT,CTTTGC 49480.7 PASS AB=0.748567,0.241404;ABP=752.193,813.865;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2050,337;CIGAR=2X4M,2X3M1X;DP=2407;DPB=2407;DPRA=0,1.03561;EPP=4454.53,734.797;EPPR=5.18177;GTI=3;LEN=2,6;MEANALT=2.33333,2.83333;MQM=59.6605,54.2582;MQMR=60;NS=21;NUMALT=2;ODDS=5.43041;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72232,11919;QR=36;RO=1;RPL=0,0;RPP=4454.53,734.797;RPPR=5.18177;RPR=2050,337;RUN=1,1;SAF=2050,337;SAP=4454.53,734.797;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,119,0:0:0:119,0:4185,0:-376.809,-35.8226,0,-376.809,-35.8226,-376.809 1/1:64:0,64,0:0:0:64,0:2252,0:-202.931,-19.2659,0,-202.931,-19.2659,-202.931 1/2:146:0,102,43:0:0:102,43:3621,1537:-420.016,-124.996,-94.291,-295.075,0,-282.13 1/1:72:0,71,0:0:0:71,0:2415,0:-217.237,-21.3731,0,-217.237,-21.3731,-217.237 1/1:236:0,233,0:0:0:233,0:8145,0:-732.582,-70.14,0,-732.582,-70.14,-732.582 1/2:146:0,105,37:0:0:105,37:3724,1300:-408.92,-105.552,-73.9436,-303.402,0,-292.264 1/2:163:1,119,42:1:36:119,42:4186,1488:-458.214,-117.999,-85.1138,-337.624,0,-327.918 1/2:175:0,120,51:0:0:120,51:4201,1809:-488.934,-147.18,-111.056,-341.819,0,-326.466 1/2:266:0,222,43:0:0:222,43:7836,1520:-761.741,-123.655,-56.8261,-638.137,0,-625.193 1/2:11:0,10,1:0:0:10,1:358,36:-32.4809,-3.29214,-0.281843,-29.5479,0,-29.2469 1/1:13:0,13,0:0:0:13,0:455,0:-41.2365,-3.91339,0,-41.2365,-3.91339,-41.2365 1/2:36:0,27,9:0:0:27,9:964,311:-104.168,-25.5792,-17.4514,-78.9371,0,-76.2278 1/1:198:0,197,0:0:0:197,0:7005,0:-630.127,-59.3029,0,-630.127,-59.3029,-630.127 1/1:157:0,156,0:0:0:156,0:5456,0:-490.842,-46.9607,0,-490.842,-46.9607,-490.842 1/2:178:0,135,42:0:0:135,42:4750,1490:-507.97,-121.326,-80.687,-386.755,0,-374.112 1/2:37:0,31,6:0:0:31,6:1108,211:-107.857,-17.5219,-8.18997,-90.6877,0,-88.8815 1/2:84:0,62,22:0:0:62,22:2194,772:-241.745,-63.1086,-44.4448,-178.988,0,-172.365 1/2:68:0,45,22:0:0:45,22:1598,771:-192.829,-62.622,-49.0756,-130.199,0,-123.576 1/2:86:0,67,19:0:0:67,19:2354,674:-246.786,-55.2007,-35.0317,-191.939,0,-186.22 1/1:102:0,102,0:0:0:102,0:3646,0:-328.315,-30.7051,0,-328.315,-30.7051,-328.315 1/1:50:0,50,0:0:0:50,0:1779,0:-160.224,-15.0515,0,-160.224,-15.0515,-160.224 chr06 7255864 . T C 6045.02 PASS AB=0.441618;ABP=28.6186;AC=12;AF=0.285714;AN=42;AO=382;CIGAR=1X;DP=1310;DPB=1310;DPRA=1.45787;EPP=832.513;EPPR=2015.97;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.8429;MQMR=59.8393;NS=21;NUMALT=1;ODDS=1.24077;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13622;QR=33213;RO=927;RPL=0;RPP=832.513;RPPR=2015.97;RPR=382;RUN=1;SAF=382;SAP=832.513;SAR=0;SRF=927;SRP=2015.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6048 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4087 0/1:50:22,28:22:792:28:1004:-75.6244,0,-56.5542 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/0:133:133,0:133:4756:0:0:0,-40.037,-428.129 0/1:19:13,6:13:468:6:216:-14.0709,0,-36.7401 0/1:41:22,19:22:788:19:680:-49.0805,0,-58.9026 0/1:30:13,17:13:468:17:608:-46.0211,0,-33.4287 0/1:39:25,14:25:888:14:500:-33.596,0,-68.4989 0/1:191:98,93:98:3504:93:3303:-239.991,0,-258.062 0/0:115:115,0:115:4116:0:0:0,-34.6184,-370.239 0/1:127:75,51:75:2688:51:1812:-125.211,0,-204.001 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/1:38:22,16:22:792:16:572:-40.3743,0,-60.1665 0/1:20:8,12:8:288:12:428:-32.8382,0,-20.2468 0/1:29:18,11:18:648:11:396:-27.2529,0,-49.922 0/1:266:153,113:153:5492:113:4031:-282.871,0,-414.325 0/1:15:13,2:13:468:2:72:-2.32127,0,-37.9442 0/0:27:27,0:27:949:0:0:0,-8.12781,-85.721 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 chr06 7255916 . T C 17637.4 PASS AB=0.560375;ABP=30.0175;AC=30;AF=0.714286;AN=42;AO=902;CIGAR=1X;DP=1278;DPB=1278;DPRA=0;EPP=1961.68;EPPR=819.484;GTI=0;LEN=1;MEANALT=1;MQM=59.8126;MQMR=59.7793;NS=21;NUMALT=1;ODDS=2.1321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31690;QR=13384;RO=376;RPL=902;RPP=1961.68;RPPR=819.484;RPR=0;RUN=1;SAF=902;SAP=1961.68;SAR=0;SRF=376;SRP=819.484;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,22:0:0:22:780:-70.4158,-6.62266,0 1/1:17:1,16:1:36:16:576:-48.572,-1.51924,0 0/1:49:27,22:27:972:22:767:-54.599,0,-73.0474 1/1:26:0,26:0:0:26:915:-82.6656,-7.82678,0 1/1:130:0,130:0:0:130:4603:-414.365,-39.1339,0 0/1:17:5,12:5:176:12:432:-34.1037,0,-11.0675 0/1:42:20,22:20:716:22:780:-57.8798,0,-51.9116 0/1:30:17,13:17:608:13:456:-32.3423,0,-46.0211 0/1:39:13,26:13:468:26:885:-68.2169,0,-30.7195 0/1:190:94,96:94:3357:96:3418:-250.632,0,-245.147 1/1:108:0,108:0:0:108:3822:-343.896,-32.5112,0 0/1:126:52,74:52:1840:74:2566:-193.24,0,-127.944 1/1:57:0,57:0:0:57:1991:-179.461,-17.1587,0 1/1:26:0,26:0:0:26:908:-82.0325,-7.82678,0 0/1:36:14,22:14:496:22:776:-59.3251,0,-34.1372 0/1:21:12,9:12:428:9:320:-22.8207,0,-32.5372 0/1:30:11,19:11:396:19:680:-52.4283,0,-26.9518 0/1:259:108,151:108:3819:151:5224:-392.336,0,-265.933 0/1:14:2,12:2:72:12:413:-33.2834,0,-2.6223 1/1:25:0,25:0:0:25:883:-79.7856,-7.52575,0 1/1:14:0,14:0:0:14:495:-44.883,-4.21442,0 chr06 7272925 . G A 26215.6 PASS AB=0.754876;ABP=870.831;AC=12;AF=0.285714;AN=42;AO=1172;CIGAR=1X;DP=2150;DPB=2150;DPRA=1.97696;EPP=2547.98;EPPR=2126.71;GTI=5;LEN=1;MEANALT=1;MQM=47.4539;MQMR=47.545;NS=21;NUMALT=1;ODDS=0.868921;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41798;QR=34363;RO=978;RPL=604;RPP=5.41152;RPPR=2100.73;RPR=568;RUN=1;SAF=604;SAP=5.41152;SAR=568;SRF=3;SRP=2100.73;SRR=975;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:121:121,0:121:4203:0:0:0,-36.4246,-374.788 0/0:48:48,0:48:1664:0:0:0,-14.4494,-146.264 0/1:135:38,97:38:1338:97:3459:-256.163,0,-79.356 0/0:59:59,0:59:2077:0:0:0,-17.7608,-184.792 0/0:138:129,9:129:4570:9:320:0,-12.3998,-379.05 0/1:85:16,69:16:568:69:2459:-178.983,0,-24.6477 0/1:179:29,150:29:1008:150:5367:-393.962,0,-35.6264 0/1:162:37,125:37:1312:125:4472:-334.73,0,-68.0831 0/1:260:65,195:65:2307:195:6973:-525.701,0,-128.113 0/1:20:4,16:4:140:16:576:-42.805,0,-6.82481 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.1295 0/1:39:9,30:9:307:30:1072:-74.4961,0,-16.021 0/0:65:65,0:65:2308:0:0:0,-19.5669,-206.735 0/0:92:92,0:92:3143:0:0:0,-27.6948,-281.339 0/1:239:60,179:60:2132:179:6355:-474.801,0,-118.179 0/1:93:22,71:22:774:71:2540:-192.798,0,-41.627 0/1:103:26,77:26:920:77:2734:-198.341,0,-50.2579 0/1:133:38,95:38:1360:95:3359:-242.613,0,-81.2758 0/1:90:33,57:33:1137:57:2040:-147.183,0,-74.6916 0/0:40:38,2:38:1348:2:72:0,-5.98471,-113.575 0/0:45:45,0:45:1603:0:0:0,-13.5463,-142.174 chr06 7272931 . G A 16564.3 PASS AB=0.248052;ABP=852.107;AC=30;AF=0.714286;AN=42;AO=983;CIGAR=1X;DP=2154;DPB=2154;DPRA=0;EPP=2137.57;EPPR=2545.8;GTI=5;LEN=1;MEANALT=1;MQM=47.4232;MQMR=47.187;NS=21;NUMALT=1;ODDS=1.57229;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35158;QR=41351;RO=1171;RPL=0;RPP=2137.57;RPPR=3.05666;RPR=983;RUN=1;SAF=0;SAP=2137.57;SAR=983;SRF=588;SRP=3.05666;SRR=583;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,121:0:0:121:4331:-385.207,-36.4246,0 1/1:49:0,49:0:0:49:1752:-153.698,-14.7505,0 0/1:137:98,39:98:3440:39:1400:-83.8769,0,-253.784 1/1:58:0,58:0:0:58:2080:-186.176,-17.4597,0 1/1:138:9,129:9:311:129:4622:-383.667,-13.2184,0 0/1:85:68,17:68:2400:17:612:-28.5118,0,-174.057 0/1:180:149,31:149:5254:31:1116:-44.1582,0,-382.937 0/1:157:119,38:119:4175:38:1362:-74.0505,0,-309.841 0/1:265:202,63:202:7207:63:2260:-122.298,0,-544.461 0/1:19:15,4:15:525:4:144:-7.47764,0,-38.5076 1/1:4:0,4:0:0:4:144:-13.1295,-1.20412,0 0/1:40:30,10:30:1076:10:360:-19.9506,0,-75.1966 1/1:66:0,66:0:0:66:2359:-210.911,-19.868,0 1/1:92:0,92:0:0:92:3304:-295.738,-27.6948,0 0/1:236:176,60:176:6199:60:2141:-119.65,0,-461.574 0/1:94:71,23:71:2518:23:812:-44.7404,0,-189.97 0/1:103:78,25:78:2766:25:883:-47.9385,0,-199.912 0/1:134:95,39:95:3345:39:1382:-82.9393,0,-239.053 0/1:90:57,33:57:1991:33:1171:-77.8064,0,-143.233 1/1:40:2,38:2:72:38:1352:-114.254,-5.98471,0 1/1:46:2,44:2:72:44:1571:-132.387,-7.01066,0 chr06 7272946 . GATAAGATG TATAAAATA,TACAAAATG 28071.3 PASS AB=0.386961,0.608833;ABP=108.558,100.85;AC=30,12;AF=0.714286,0.285714;AN=42;AO=954,581;CIGAR=1X4M1X2M1X,1X1M1X2M1X3M;DP=1542;DPB=1561.78;DPRA=0,1.10057;EPP=2074.59,1255.96;EPPR=0;GTI=1;LEN=9,9;MEANALT=1.95238,2.30769;MQM=47.5231,34.1807;MQMR=0;NS=21;NUMALT=2;ODDS=8.63287;PAIRED=0,0;PAIREDR=0;PAO=89,89;PQA=3178,3178;PQR=0;PRO=0;QA=32631,19360;QR=0;RO=0;RPL=0,1;RPP=2074.59,1255.96;RPPR=0;RPR=954,580;RUN=1,1;SAF=0,0;SAP=2074.59,1264.64;SAR=954,581;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,122,0:0:0:122,0:4234,0:-377.731,-36.7257,0,-377.731,-36.7257,-377.731 1/1:45:0,45,0:0:0:45,0:1508,0:-133.506,-13.5464,0,-133.506,-13.5464,-133.506 1/2:90:0,38,51:0:0:38,51:1301,1722:-233.546,-128.502,-117.063,-105.081,0,-89.7282 1/1:57:0,57,0:0:0:57,0:1921,0:-171.924,-17.1587,0,-171.924,-17.1587,-171.924 1/1:130:0,129,0:0:0:129,0:4396,0:-392.829,-38.8329,0,-392.829,-38.8329,-392.829 1/2:51:0,15,36:0:0:15,36:504,1141:-122.775,-82.6738,-78.1583,-40.4189,0,-29.5818 1/2:101:0,28,73:0:0:28,73:945,2294:-240.526,-165.389,-156.96,-75.4557,0,-53.4805 1/2:93:0,41,51:0:0:41,51:1402,1704:-237.24,-125.076,-112.734,-112.3,0,-96.9474 1/2:150:0,62,88:0:0:62,88:2103,3023:-389.341,-219.664,-201.001,-163.759,0,-137.269 1/2:13:0,4,9:0:0:4,9:141,306:-34.0962,-22.703,-21.4989,-11.7306,0,-9.02134 1/1:4:0,4,0:0:0:4,0:128,0:-11.7049,-1.20412,0,-11.7049,-1.20412,-11.7049 1/2:35:0,9,26:0:0:9,26:295,840:-85.2604,-61.7797,-59.0705,-23.797,0,-15.9702 1/1:63:0,63,0:0:0:63,0:2145,0:-192.336,-18.9649,0,-192.336,-18.9649,-192.336 1/1:87:0,86,0:0:0:86,0:2914,0:-261.054,-25.8886,0,-261.054,-25.8886,-261.054 1/2:142:0,55,87:0:0:55,87:1906,2966:-375.244,-221.518,-204.961,-154.059,0,-127.87 1/2:48:0,20,28:0:0:20,28:689,959:-124.689,-69.0191,-62.9985,-53.5259,0,-45.0971 1/2:75:0,25,49:0:0:25,49:861,1643:-188.128,-118.818,-111.292,-67.8154,0,-53.0649 1/2:91:0,39,52:0:0:39,52:1368,1682:-233.009,-122.874,-111.134,-110.46,0,-94.8066 1/2:62:0,32,29:0:0:32,29:1110,1012:-164.887,-75.2749,-65.642,-89.7196,0,-80.9897 1/1:38:0,36,2:0:0:36,2:1229,68:-109.463,-10.8371,0,-104.488,-5.55093,-103.886 1/1:44:0,44,0:0:0:44,0:1531,0:-135.958,-13.2453,0,-135.958,-13.2453,-135.958 chr06 7272968 . A C 7998.29 PASS AB=0.597701;ABP=82.3564;AC=12;AF=0.285714;AN=42;AO=574;CIGAR=1X;DP=1559;DPB=1559;DPRA=1.09171;EPP=1249.44;EPPR=2139.74;GTI=1;LEN=1;MEANALT=1.07692;MQM=34.1394;MQMR=47.5366;NS=21;NUMALT=1;ODDS=7.05553;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20495;QR=35280;RO=984;RPL=574;RPP=1249.44;RPPR=2139.74;RPR=0;RUN=1;SAF=0;SAP=1249.44;SAR=574;SRF=0;SRP=2139.74;SRR=984;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:123,0:123:4407:0:0:0,-37.0267,-392.635 0/0:48:48,0:48:1720:0:0:0,-14.4494,-150.706 0/1:89:39,50:39:1400:50:1796:-119.751,0,-98.4553 0/0:59:59,0:59:2124:0:0:0,-17.7608,-190.095 0/0:130:130,0:130:4663:0:0:0,-39.1339,-416.178 0/1:53:17,36:17:612:36:1288:-82.7632,0,-38.1447 0/1:104:32,72:32:1133:72:2560:-163.258,0,-68.7801 0/1:91:39,52:39:1396:52:1856:-120.108,0,-96.8818 0/1:154:67,87:67:2400:87:3108:-209.918,0,-168.29 0/1:13:4,9:4:144:9:324:-22.2251,0,-9.28382 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.1295 0/1:35:9,26:9:324:26:936:-62.7304,0,-18.2451 0/0:64:64,0:64:2281:0:0:0,-19.2659,-204.139 0/0:93:93,0:93:3348:0:0:0,-27.9958,-299.657 0/1:143:59,84:59:2116:84:2986:-201.296,0,-146.218 0/1:51:23,28:23:824:28:1004:-66.6976,0,-58.7355 0/1:75:26,49:26:924:49:1737:-115.641,0,-59.0369 0/1:90:38,51:38:1368:51:1828:-114.894,0,-94.8715 0/1:59:31,28:31:1112:28:1000:-64.5108,0,-81.8422 0/0:40:38,2:38:1364:2:72:0,-5.98471,-114.786 0/0:41:41,0:41:1476:0:0:0,-12.3422,-130.403 chr06 7293265 . T A 14423.6 PASS AB=0.49654;ABP=3.19063;AC=12;AF=0.285714;AN=42;AO=875;CIGAR=1X;DP=3500;DPB=3500;DPRA=1.56357;EPP=1903.05;EPPR=5698.78;GTI=1;LEN=1;MEANALT=1.125;MQM=59.9977;MQMR=59.9916;NS=21;NUMALT=1;ODDS=1.48558;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31215;QR=93883;RO=2623;RPL=0;RPP=1903.05;RPPR=5698.78;RPR=875;RUN=1;SAF=875;SAP=1903.05;SAR=0;SRF=2623;SRP=5698.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:311:306,5:306:10899:5:180:0,-77.0683,-964.257 0/0:180:180,0:180:6443:0:0:0,-54.1854,-579.956 0/1:160:80,80:80:2861:80:2861:-209.561,0,-209.561 0/0:133:133,0:133:4763:0:0:0,-40.037,-428.827 0/0:444:441,3:441:15785:3:108:0,-123.582,-1410.18 0/1:128:52,76:52:1864:76:2728:-207.231,0,-129.508 0/1:269:129,139:129:4636:139:4923:-362.184,0,-336.365 0/1:130:67,63:67:2408:63:2239:-162.637,0,-177.842 0/1:304:151,153:151:5381:153:5428:-397.135,0,-392.909 0/1:15:11,4:11:392:4:144:-8.79817,0,-31.1046 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:39:22,17:22:783:17:612:-43.6733,0,-59.0528 0/0:278:273,5:273:9781:5:180:0,-67.1343,-863.681 0/0:180:180,0:180:6440:0:0:0,-54.1854,-579.687 0/1:211:112,99:112:4024:99:3547:-255.921,0,-298.83 0/1:140:69,71:69:2480:71:2537:-186.435,0,-181.309 0/1:129:54,74:54:1928:74:2648:-199.675,0,-134.905 0/1:92:47,45:47:1692:45:1604:-116.955,0,-124.872 0/1:117:77,40:77:2756:40:1440:-94.6772,0,-213.061 0/0:150:149,1:149:5331:1:36:0,-41.5562,-476.325 0/0:83:83,0:83:2984:0:0:0,-24.9855,-268.791 chr06 7310106 . G A 12400.8 PASS AB=0.393092;ABP=63.3687;AC=29;AF=0.690476;AN=42;AO=627;CIGAR=1X;DP=1105;DPB=1105;DPRA=0.471226;EPP=1364.52;EPPR=1040.97;GTI=3;LEN=1;MEANALT=1;MQM=59.9601;MQMR=60;NS=21;NUMALT=1;ODDS=2.53896;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22294;QR=17043;RO=478;RPL=0;RPP=1364.52;RPPR=1040.97;RPR=627;RUN=1;SAF=627;SAP=1364.52;SAR=0;SRF=478;SRP=1040.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:1,63:1:36:63:2233:-197.589,-15.6676,0 1/1:32:0,32:0:0:32:1144:-103.27,-9.63296,0 0/1:38:18,20:18:648:20:720:-53.6896,0,-47.2127 1/1:57:0,57:0:0:57:2036:-183.512,-17.1587,0 1/1:71:0,71:0:0:71:2513:-226.42,-21.3731,0 0/1:44:26,18:26:928:18:644:-45.0453,0,-70.5929 0/1:74:33,41:33:1180:41:1441:-107.708,0,-84.2318 0/1:40:15,25:15:536:25:896:-68.9192,0,-36.5336 0/1:64:27,37:27:960:37:1297:-97.7632,0,-67.4504 0/0:106:106,0:106:3776:0:0:0,-31.9092,-340.041 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:89:80,9:80:2855:9:320:-2.35069,0,-230.396 1/1:53:0,53:0:0:53:1900:-171.276,-15.9546,0 1/1:46:0,46:0:0:46:1618:-145.906,-13.8474,0 0/1:63:33,30:33:1169:30:1064:-77.1068,0,-86.5504 0/1:30:14,16:14:500:16:572:-42.7825,0,-36.3053 0/1:45:23,22:23:824:22:784:-57.3376,0,-60.937 0/1:104:93,11:93:3307:11:384:-3.58755,0,-266.543 0/1:17:7,10:7:252:10:356:-27.2637,0,-17.9114 1/1:35:2,33:2:72:33:1188:-100.392,-3.69933,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 chr06 7314777 . TAC CAT,CAC 14394.8 PASS AB=0.515513,0.4821;ABP=3.88614,4.17637;AC=30,12;AF=0.714286,0.285714;AN=42;AO=490,202;CIGAR=1X1M1X,1X2M;DP=693;DPB=693;DPRA=0,1.1469;EPP=1024.05,433.005;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.61905,2.08333;MQM=53.9918,59.2228;MQMR=0;NS=21;NUMALT=2;ODDS=5.81291;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17171,7089;QR=0;RO=0;RPL=5,1;RPP=1024.05,433.005;RPPR=0;RPR=485,201;RUN=1,1;SAF=490,202;SAP=1067.03,441.648;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,33,0:0:0:33,0:1128,0:-101.755,-9.93399,0,-101.755,-9.93399,-101.755 1/1:15:0,15,0:0:0:15,0:524,0:-47.2015,-4.51545,0,-47.2015,-4.51545,-47.2015 1/2:34:0,26,8:0:0:26,8:907,280:-96.7,-23.1311,-15.3043,-73.9184,0,-71.5101 1/1:39:0,39,0:0:0:39,0:1377,0:-124.016,-11.7402,0,-124.016,-11.7402,-124.016 1/1:60:0,60,0:0:0:60,0:2088,0:-187.01,-18.0618,0,-187.01,-18.0618,-187.01 1/2:64:0,27,37:0:0:27,37:948,1292:-181.772,-105.387,-97.2592,-76.7335,0,-65.5954 1/2:52:0,27,25:0:0:27,25:938,865:-146.359,-70.6139,-62.4861,-76.0902,0,-68.5645 1/2:26:0,18,8:0:0:18,8:628,288:-74.8518,-23.8592,-18.4406,-51.3489,0,-48.9407 1/2:46:0,20,26:0:0:20,26:700,915:-131.771,-74.8388,-68.8182,-57.2824,0,-49.4556 1/2:10:0,6,3:0:0:6,3:214,99:-25.3399,-7.99193,-6.18575,-17.3433,0,-16.4402 1/1:4:0,4,0:0:0:4,0:144,0:-13.1794,-1.20412,0,-13.1794,-1.20412,-13.1794 1/2:20:0,11,9:0:0:11,9:394,320:-58.5176,-26.4331,-23.1218,-32.4409,0,-29.7316 1/1:24:0,24,0:0:0:24,0:845,0:-76.2104,-7.22472,0,-76.2104,-7.22472,-76.2104 1/1:47:0,47,0:0:0:47,0:1651,0:-148.48,-14.1484,0,-148.48,-14.1484,-148.48 1/2:46:0,24,22:0:0:24,22:846,771:-131.709,-63.0871,-55.8623,-68.9731,0,-62.3505 1/2:27:0,10,17:0:0:10,17:356,608:-78.8855,-49.9345,-46.9242,-29.307,0,-24.1895 1/2:60:0,29,31:0:0:29,31:1018,1108:-173.152,-90.6991,-81.9692,-82.8056,0,-73.4737 1/2:18:0,7,11:0:0:7,11:249,383:-51.6636,-31.4013,-29.2941,-20.6143,0,-17.303 1/2:16:0,11,5:0:0:11,5:376,160:-43.1615,-12.6572,-9.34587,-30.8226,0,-29.3175 1/1:44:0,44,0:0:0:44,0:1554,0:-139.241,-13.2453,0,-139.241,-13.2453,-139.241 1/1:8:0,8,0:0:0:8,0:286,0:-25.8272,-2.40824,0,-25.8272,-2.40824,-25.8272 chr06 7341181 . AGCT GGTT,CGTG 28633 PASS AB=0.520059,0.475483;ABP=5.36246,6.52402;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1076,320;CIGAR=1X1M1X1M,1X1M2X;DP=1400;DPB=1401;DPRA=0,0.694292;EPP=2330.84,697.881;EPPR=0;GTI=1;LEN=4,4;MEANALT=1.7619,2.25;MQM=59.9675,59.8781;MQMR=0;NS=21;NUMALT=2;ODDS=2.90854;PAIRED=0,0;PAIREDR=0;PAO=4,0;PQA=72,0;PQR=0;PRO=0;QA=37085,11128;QR=0;RO=0;RPL=1076,320;RPP=2339.51,697.881;RPPR=0;RPR=0,0;RUN=1,1;SAF=1,0;SAP=2330.84,697.881;SAR=1075,320;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88,0:0:0:88,0:3047,0:-274.462,-26.4906,0,-274.462,-26.4906,-274.462 1/1:84:0,84,0:0:0:84,0:2902,0:-261.233,-25.2865,0,-261.233,-25.2865,-261.233 1/2:46:0,24,22:0:0:24,22:816,781:-130.163,-63.9858,-56.7611,-66.5244,0,-59.9017 1/1:66:0,66,0:0:0:66,0:2290,0:-206.361,-19.868,0,-206.361,-19.868,-206.361 1/1:137:0,136,0:0:0:136,0:4712,0:-423.972,-40.9401,0,-423.972,-40.9401,-423.972 1/2:91:0,47,43:0:0:47,43:1561,1462:-244.852,-118.566,-104.417,-126.263,0,-113.319 1/2:89:0,47,42:0:0:47,42:1601,1481:-250.632,-120.754,-106.605,-130.035,0,-117.392 1/2:77:0,37,40:0:0:37,40:1281,1389:-217.368,-113.264,-102.126,-104.451,0,-92.4097 1/2:99:0,44,55:0:0:44,55:1527,1901:-278.926,-154.798,-141.553,-124.474,0,-107.917 1/2:7:0,4,2:0:0:4,2:142,72:-17.575,-5.97813,-4.77401,-11.6902,0,-11.0881 1/1:7:0,7,0:0:0:7,0:239,0:-21.8429,-2.10721,0,-21.8429,-2.10721,-21.8429 1/2:8:0,2,6:0:0:2,6:65,214:-23.0398,-17.8016,-17.1996,-5.57097,0,-3.76479 1/1:102:0,102,0:0:0:102,0:3505,0:-315.668,-30.7051,0,-315.668,-30.7051,-315.668 1/1:84:0,84,0:0:0:84,0:2883,0:-259.706,-25.2865,0,-259.706,-25.2865,-259.706 1/2:85:0,45,40:0:0:45,40:1575,1401:-242.488,-114.346,-100.799,-128.492,0,-116.451 1/2:52:0,25,27:0:0:25,27:882,950:-149.506,-77.6865,-70.1607,-72.1718,0,-64.044 1/2:11:0,7,4:0:0:7,4:242,136:-31.0388,-11.3713,-9.26414,-20.0094,0,-18.8053 1/2:41:0,21,20:0:0:21,20:744,707:-118.537,-57.9299,-51.6083,-60.9608,0,-54.9402 1/2:67:0,47,19:0:0:47,19:1578,634:-179.192,-51.3709,-37.2225,-127.872,0,-122.153 1/1:89:0,89,0:0:0:89,0:3088,0:-278.152,-26.7917,0,-278.152,-26.7917,-278.152 1/1:70:0,70,0:0:0:70,0:2405,0:-216.708,-21.0721,0,-216.708,-21.0721,-216.708 chr06 7342076 . A G 12302.2 PASS AB=0.436396;ABP=22.8988;AC=30;AF=0.714286;AN=42;AO=622;CIGAR=1X;DP=945;DPB=945;DPRA=0;EPP=1353.67;EPPR=704.396;GTI=0;LEN=1;MEANALT=1;MQM=54.2026;MQMR=59.4985;NS=21;NUMALT=1;ODDS=0.922918;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22173;QR=11554;RO=323;RPL=0;RPP=1353.67;RPPR=704.396;RPR=622;RUN=1;SAF=622;SAP=1353.67;SAR=0;SRF=323;SRP=704.396;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,44:0:0:44:1573:-141.409,-13.2453,0 1/1:34:0,34:0:0:34:1216:-109.476,-10.235,0 0/1:71:41,30:41:1472:30:1061:-74.1077,0,-111.4 1/1:58:0,58:0:0:58:2030:-182.675,-17.4597,0 1/1:68:4,64:4:144:64:2288:-191.885,-7.15642,0 0/1:23:13,10:13:468:10:356:-25.3706,0,-35.536 0/1:60:44,16:44:1576:16:572:-33.4167,0,-123.854 0/1:42:23,19:23:824:19:684:-49.0338,0,-61.8308 0/1:70:37,33:37:1313:33:1173:-83.9782,0,-97.3958 0/1:11:8,3:8:288:3:104:-6.37636,0,-22.5814 1/1:4:0,4:0:0:4:144:-13.2801,-1.20412,0 0/1:16:4,12:4:140:12:432:-34.3491,0,-8.12621 1/1:55:0,55:0:0:55:1964:-175.754,-16.5567,0 1/1:55:0,55:0:0:55:1968:-176.58,-16.5567,0 0/1:88:57,31:57:2044:31:1116:-74.009,0,-157.541 0/1:29:15,14:15:540:14:496:-36.1469,0,-40.2058 0/1:70:39,31:39:1385:31:1108:-78.7115,0,-103.874 0/1:51:25,26:25:896:26:927:-68.1132,0,-65.5986 0/1:35:13,22:13:464:22:792:-60.9202,0,-31.5591 1/1:42:0,42:0:0:42:1485:-133.573,-12.6433,0 1/1:19:0,19:0:0:19:684:-61.5466,-5.71957,0 chr06 7393720 . TATTG AATTA,AATTG 29854.9 PASS AB=0.513097,0.485362;ABP=3.97726,4.21816;AC=30,12;AF=0.714286,0.285714;AN=42;AO=803,319;CIGAR=1X3M1X,1X4M;DP=1124;DPB=1124;DPRA=0,1.23486;EPP=5.28453,8.73509;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.85714,2.125;MQM=59.6824,54.4734;MQMR=0;NS=21;NUMALT=2;ODDS=7.37927;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28201,11314;QR=0;RO=0;RPL=0,0;RPP=1746.7,695.71;RPPR=0;RPR=803,319;RUN=1,1;SAF=416,145;SAP=5.28453,8.73509;SAR=387,174;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:0,37,0:0:0:37,0:1308,0:-118.017,-11.1381,0,-118.017,-11.1381,-118.017 1/1:59:0,57,1:0:0:57,1:2019,36:-181.654,-17.1587,0,-178.72,-14.1899,-178.419 1/2:24:0,8,16:0:0:8,16:286,576:-70.4823,-47.1627,-44.7545,-23.6773,0,-18.8608 1/1:53:0,52,1:0:0:52,1:1848,36:-166.17,-15.6536,0,-163.235,-12.3589,-162.934 1/1:69:0,68,1:0:0:68,1:2392,32:-214.719,-20.47,0,-212.142,-17.5728,-211.841 1/2:29:0,19,10:0:0:19,10:672,345:-83.0566,-28.3255,-22.6059,-55.0786,0,-52.0683 1/2:62:0,21,41:0:0:21,41:731,1458:-178.39,-118.952,-112.63,-59.7889,0,-47.4466 1/2:68:0,35,33:0:0:35,33:1219,1159:-193.588,-94.4623,-83.9262,-99.4749,0,-89.5409 1/2:63:0,31,32:0:0:31,32:1090,1129:-180.756,-92.0317,-82.6998,-89.0761,0,-79.4432 1/2:10:0,6,4:0:0:6,4:206,144:-28.8076,-12.0906,-10.2844,-17.0698,0,-15.8657 1/1:4:0,4,0:0:0:4,0:137,0:-12.6679,-1.20412,0,-12.6679,-1.20412,-12.6679 1/2:15:0,9,6:0:0:9,6:314,216:-43.489,-17.9575,-15.2483,-25.8866,0,-24.0804 1/1:48:0,48,0:0:0:48,0:1673,0:-150.849,-14.4494,0,-150.849,-14.4494,-150.849 1/1:67:0,66,1:0:0:66,1:2331,36:-209.681,-19.868,0,-206.746,-16.5733,-206.445 1/2:62:0,27,35:0:0:27,35:937,1251:-178.311,-102.149,-94.0208,-76.5135,0,-65.9774 1/2:31:0,14,17:0:0:14,17:478,612:-89.06,-50.2804,-46.066,-39.1292,0,-34.0117 1/2:19:0,8,11:0:0:8,11:277,396:-55.1639,-32.6576,-30.2494,-22.8581,0,-19.5467 1/2:154:0,78,75:0:0:78,75:2711,2633:-433.355,-212.985,-189.505,-220.361,0,-197.784 1/2:112:0,77,35:0:0:77,35:2723,1255:-324.305,-102.532,-79.3531,-222.129,0,-211.593 1/1:21:0,21,0:0:0:21,0:741,0:-67.0091,-6.32163,0,-67.0091,-6.32163,-67.0091 1/1:117:0,117,0:0:0:117,0:4108,0:-369.892,-35.2205,0,-369.892,-35.2205,-369.892 chr06 7393756 . A G 6970.75 PASS AB=0.491499;ABP=3.4164;AC=12;AF=0.285714;AN=42;AO=322;CIGAR=1X;DP=1110;DPB=1110;DPRA=1.24299;EPP=10.806;EPPR=4.59757;GTI=0;LEN=1;MEANALT=1;MQM=54.3975;MQMR=59.6865;NS=21;NUMALT=1;ODDS=6.63062;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11378;QR=28170;RO=788;RPL=322;RPP=702.224;RPPR=1705.46;RPR=0;RUN=1;SAF=144;SAP=10.806;SAR=178;SRF=405;SRP=4.34405;SRR=383;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.457 0/0:58:57,1:57:2025:1:36:0,-13.8652,-178.923 0/1:24:8,16:8:288:16:568:-44.1187,0,-19.0427 0/0:52:51,1:51:1816:1:36:0,-12.0579,-160.04 0/0:67:66,1:66:2368:1:36:0,-16.5733,-209.402 0/1:28:19,9:19:680:9:324:-21.0369,0,-53.0921 0/1:63:20,43:20:705:43:1526:-118.422,0,-44.8079 0/1:67:35,32:35:1252:32:1136:-82.0578,0,-92.8115 0/1:62:30,32:30:1076:32:1137:-83.7664,0,-78.4881 0/1:10:6,4:6:216:4:144:-10.2844,0,-16.7802 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:15:9,6:9:324:6:216:-15.2483,0,-24.9858 0/0:48:48,0:48:1686:0:0:0,-14.4494,-152.017 0/0:63:62,1:62:2211:1:36:0,-15.3692,-195.651 0/1:64:28,36:28:995:36:1264:-94.5847,0,-70.5981 0/1:32:15,17:15:536:17:591:-43.8693,0,-38.9415 0/1:20:8,12:8:288:12:424:-32.4645,0,-20.2468 0/1:152:75,77:75:2700:77:2711:-196.83,0,-197.437 0/1:110:76,34:76:2720:34:1193:-74.3808,0,-211.922 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3626 0/0:113:113,0:113:4060:0:0:0,-34.0164,-365.556 chr06 7393763 . GG CG,CA 30194.1 PASS AB=0.506135,0.492331;ABP=3.22345,3.34335;AC=30,12;AF=0.714286,0.285714;AN=42;AO=798,325;CIGAR=1X1M,2X;DP=1124;DPB=1124;DPRA=0,1.2417;EPP=4.57768,12.1572;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.80952,2.0625;MQM=59.6905,54.44;MQMR=0;NS=21;NUMALT=2;ODDS=6.72951;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28421,11493;QR=0;RO=0;RPL=798,325;RPP=1735.85,708.739;RPPR=0;RPR=0,0;RUN=1,1;SAF=411,144;SAP=4.57768,12.1572;SAR=387,181;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:38:0,38,0:0:0:38,0:1354,0:-122.157,-11.4391,0,-122.157,-11.4391,-122.157 1/1:58:0,57,1:0:0:57,1:2048,36:-184.229,-17.1587,0,-181.295,-13.8652,-180.994 1/2:23:0,8,15:0:0:8,15:273,540:-66.3701,-44.2252,-41.817,-22.4919,0,-17.9765 1/1:54:0,53,1:0:0:53,1:1885,36:-169.564,-15.9546,0,-166.629,-12.6599,-166.328 1/1:68:0,67,1:0:0:67,1:2365,36:-212.468,-20.169,0,-209.533,-16.8744,-209.232 1/2:28:0,18,10:0:0:18,10:644,356:-81.8331,-29.3253,-23.9068,-52.8639,0,-49.8536 1/2:63:0,21,42:0:0:21,42:736,1471:-179.699,-119.808,-113.487,-60.2408,0,-47.5975 1/2:68:0,35,33:0:0:35,33:1256,1161:-197.106,-94.6559,-84.1199,-102.805,0,-92.8706 1/2:63:0,31,32:0:0:31,32:1107,1132:-182.598,-92.3459,-83.014,-90.6073,0,-80.9744 1/2:10:0,6,4:0:0:6,4:212,144:-29.3524,-12.0906,-10.2844,-17.6186,0,-16.4145 1/1:4:0,4,0:0:0:4,0:140,0:-12.9446,-1.20412,0,-12.9446,-1.20412,-12.9446 1/2:15:0,9,6:0:0:9,6:320,216:-44.0282,-17.9575,-15.2483,-26.4284,0,-24.6223 1/1:48:0,48,0:0:0:48,0:1724,0:-155.438,-14.4494,0,-155.438,-14.4494,-155.438 1/1:66:0,65,1:0:0:65,1:2294,36:-206.351,-19.567,0,-203.416,-16.2723,-203.115 1/2:64:0,27,37:0:0:27,37:968,1311:-185.894,-106.941,-98.8134,-79.3096,0,-68.1714 1/2:32:0,15,17:0:0:15,17:536,607:-93.5306,-49.8292,-45.3137,-44.0585,0,-38.9409 1/2:20:0,8,12:0:0:8,12:288,422:-58.1946,-34.6919,-32.2837,-23.8592,0,-20.2468 1/2:155:0,77,77:0:0:77,77:2759,2729:-445.908,-220.938,-197.758,-225.075,0,-201.896 1/2:111:0,75,36:0:0:75,36:2668,1260:-320.112,-102.682,-80.1048,-217.781,0,-206.944 1/1:21:0,21,0:0:0:21,0:752,0:-68.0016,-6.32163,0,-68.0016,-6.32163,-68.0016 1/1:115:0,115,0:0:0:115,0:4092,0:-368.447,-34.6185,0,-368.447,-34.6185,-368.447 chr06 7394916 . GCT ACT 30123.6 PASS AB=0.844365;ABP=578.8;AC=31;AF=0.738095;AN=42;AO=1163;CIGAR=1X2M;DP=1262;DPB=1262.33;DPRA=0;EPP=2528.43;EPPR=11.8182;GTI=8;LEN=1;MEANALT=1.33333;MQM=59.7661;MQMR=60;NS=21;NUMALT=1;ODDS=1.9957;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=16;PQR=0;PRO=0;QA=40197;QR=3038;RO=89;RPL=437;RPP=158.955;RPPR=171.092;RPR=726;RUN=1;SAF=437;SAP=158.955;SAR=726;SRF=32;SRP=18.2594;SRR=57;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:84:1,83:1:29:83:2842:-253.122,-22.3869,0 1/1:70:0,70:0:0:70:2446:-220.379,-21.0721,0 0/1:38:4,34:4:128:34:1159:-93.1122,0,-0.350985 1/1:98:0,98:0:0:98:3399:-306.128,-29.5009,0 1/1:149:1,147:1:36:147:5056:-451.538,-41.2691,0 0/1:17:5,12:5:168:12:415:-32.5628,0,-10.3331 0/1:78:13,64:13:442:64:2247:-179.075,0,-16.6875 0/1:69:9,60:9:319:60:2038:-162.891,0,-8.28059 0/1:53:8,44:8:260:44:1511:-120.387,0,-7.84001 0/1:5:1,4:1:36:4:125:-10.0534,0,-2.09312 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:27:5,22:5:169:22:768:-61.3117,0,-7.41372 1/1:55:0,54:0:0:54:1877:-168.949,-16.2556,0 1/1:71:0,66:0:0:66:2281:-205.29,-19.868,0 0/1:65:7,58:7:248:58:1999:-160.604,0,-3.09746 1/1:17:1,16:1:34:16:556:-46.9683,-1.7186,0 0/1:34:4,30:4:139:30:1028:-82.5196,0,-2.61748 0/1:121:22,99:22:752:99:3454:-274.65,0,-31.5708 0/1:52:7,45:7:242:45:1512:-120.709,0,-6.46302 1/1:74:0,74:0:0:74:2569:-231.45,-22.2762,0 1/1:81:1,79:1:36:79:2775:-246.382,-20.844,0 chr06 7462563 . T C 12029.2 PASS AB=0.551852;ABP=40.8422;AC=12;AF=0.285714;AN=42;AO=895;CIGAR=1X;DP=2490;DPB=2490;DPRA=1.77511;EPP=1946.48;EPPR=3466.51;GTI=1;LEN=1;MEANALT=1;MQM=33.6279;MQMR=29.8094;NS=21;NUMALT=1;ODDS=1.02508;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31956;QR=56965;RO=1595;RPL=0;RPP=1946.48;RPPR=3466.51;RPR=895;RUN=1;SAF=0;SAP=1946.48;SAR=895;SRF=0;SRP=3466.51;SRR=1595;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:80,0:80:2861:0:0:0,-24.0824,-207.479 0/0:48:48,0:48:1724:0:0:0,-14.4494,-123.417 0/1:133:43,90:43:1548:90:3187:-215.468,0,-71.5086 0/0:91:91,0:91:3252:0:0:0,-27.3937,-235.969 0/0:229:228,1:228:8113:1:36:0,-65.7482,-584.321 0/1:188:88,100:88:3113:100:3580:-233.552,0,-168.657 0/1:245:107,138:107:3821:138:4940:-324.657,0,-200.224 0/1:104:38,66:38:1341:66:2356:-157.141,0,-65.3349 0/1:275:139,136:139:4980:136:4856:-294.361,0,-277.174 0/1:15:10,5:10:356:5:180:-10.0252,0,-21.795 0/0:20:20,0:20:701:0:0:0,-6.0206,-51.6632 0/1:47:13,34:13:468:34:1216:-81.4169,0,-20.1042 0/0:111:111,0:111:3980:0:0:0,-33.4143,-289.117 0/0:130:130,0:130:4634:0:0:0,-39.1339,-338.043 0/1:204:90,114:90:3232:114:4034:-260.407,0,-173.756 0/1:96:45,51:45:1597:51:1832:-110.309,0,-87.7818 0/1:137:63,74:63:2260:74:2651:-164.087,0,-121.966 0/1:126:55,71:55:1968:71:2552:-164.681,0,-104.2 0/1:50:35,15:35:1252:15:536:-27.2601,0,-74.9444 0/0:96:96,0:96:3432:0:0:0,-28.8989,-250.31 0/0:65:65,0:65:2332:0:0:0,-19.5669,-167.904 chr06 7462589 . TATTAC TTTAT 21768.3 PASS AB=0.442156;ABP=50.9918;AC=30;AF=0.714286;AN=42;AO=1615;CIGAR=1M1D3M1X;DP=2544;DPB=2273.17;DPRA=0;EPP=3492.59;EPPR=1994.25;GTI=1;LEN=5;MEANALT=1.52381;MQM=29.7827;MQMR=33.5191;NS=21;NUMALT=1;ODDS=1.9479;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56994;QR=32015;RO=917;RPL=2;RPP=3492.59;RPPR=1994.25;RPR=1613;RUN=1;SAF=0;SAP=3509.94;SAR=1615;SRF=0;SRP=1994.25;SRR=917;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2917:-212.518,-24.6845,0 1/1:48:0,48:0:0:48:1698:-122.744,-14.4494,0 0/1:134:90,44:90:3148:44:1548:-71.506,0,-213.615 1/1:91:0,91:0:0:91:3170:-232.889,-27.3937,0 1/1:236:1,233:1:31:233:8191:-595.667,-67.8089,0 0/1:191:102,87:102:3560:87:3065:-165.772,0,-233.88 0/1:250:142,108:142:4967:108:3816:-200.397,0,-325.86 0/1:107:68,39:68:2367:39:1370:-66.9579,0,-159.155 0/1:280:140,137:140:4904:137:4799:-268.082,0,-298.987 0/1:16:5,11:5:174:11:395:-24.1912,0,-9.47364 1/1:20:0,20:0:0:20:710:-52.2762,-6.0206,0 0/1:49:36,13:36:1233:13:457:-19.2334,0,-84.1322 1/1:117:0,117:0:0:117:4153:-303.536,-35.2205,0 1/1:132:0,131:0:0:131:4608:-339.27,-39.4349,0 0/1:210:116,92:116:4009:92:3260:-176.305,0,-259.551 0/1:97:52,45:52:1827:45:1571:-87.0954,0,-110.933 0/1:140:77,63:77:2679:63:2260:-121.112,0,-167.546 0/1:127:71,56:71:2521:56:1984:-104.612,0,-163.042 0/1:50:15,35:15:526:35:1232:-74.4316,0,-26.7889 1/1:100:2,96:2:69:96:3384:-242.472,-23.8692,0 1/1:67:0,67:0:0:67:2406:-173.128,-20.169,0 chr06 7513538 . A G 19651.4 PASS AB=0.466587;ABP=11.1365;AC=30;AF=0.714286;AN=42;AO=968;CIGAR=1X;DP=1415;DPB=1415;DPRA=0;EPP=2105;EPPR=973.658;GTI=0;LEN=1;MEANALT=1;MQM=59.9174;MQMR=60;NS=21;NUMALT=1;ODDS=4.48683;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34520;QR=15985;RO=447;RPL=0;RPP=2105;RPPR=973.658;RPR=968;RUN=1;SAF=968;SAP=2105;SAR=0;SRF=447;SRP=973.658;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:0,37:0:0:37:1324:-119.46,-11.1381,0 1/1:49:0,49:0:0:49:1740:-156.847,-14.7505,0 0/1:64:33,31:33:1184:31:1101:-80.1333,0,-87.6024 1/1:71:0,71:0:0:71:2524:-227.413,-21.3731,0 1/1:113:0,113:0:0:113:4035:-363.338,-34.0164,0 0/1:58:26,32:26:936:32:1147:-86.0801,0,-67.0997 0/1:68:42,26:42:1496:26:936:-64.0894,0,-114.465 0/1:66:39,27:39:1404:27:957:-66.5759,0,-106.791 0/1:120:70,50:70:2512:50:1776:-123.999,0,-190.208 0/1:12:3,9:3:108:9:324:-25.8935,0,-6.46281 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:32:19,13:19:672:13:468:-32.8267,0,-51.1739 1/1:97:0,97:0:0:97:3468:-312.332,-29.1999,0 1/1:91:0,91:0:0:91:3223:-290.28,-27.3937,0 0/1:79:49,30:49:1737:30:1072:-73.0111,0,-132.831 0/1:59:26,33:26:932:33:1185:-89.1977,0,-66.4381 0/1:46:26,20:26:924:20:720:-51.2814,0,-69.6303 0/1:164:81,83:81:2896:83:2959:-217.175,0,-211.507 0/1:70:33,37:33:1184:37:1302:-96.392,0,-85.7962 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 1/1:77:0,77:0:0:77:2751:-247.832,-23.1793,0 chr06 7513643 . A G 21190.9 PASS AB=0.423358;ABP=44.9498;AC=30;AF=0.714286;AN=42;AO=1047;CIGAR=1X;DP=1530;DPB=1530;DPRA=0;EPP=2276.54;EPPR=1051.83;GTI=0;LEN=1;MEANALT=1;MQM=59.9962;MQMR=59.9793;NS=21;NUMALT=1;ODDS=3.6176;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37209;QR=17232;RO=483;RPL=0;RPP=2276.54;RPPR=1051.83;RPR=1047;RUN=1;SAF=0;SAP=2276.54;SAR=1047;SRF=0;SRP=1051.83;SRR=483;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:1,99:1:36:99:3524:-313.77,-26.5047,0 1/1:36:0,36:0:0:36:1284:-115.863,-10.8371,0 0/1:81:46,35:46:1648:35:1232:-86.7979,0,-124.225 1/1:59:0,59:0:0:59:2087:-188.098,-17.7608,0 1/1:221:5,216:5:176:216:7675:-674.603,-50.3426,0 0/1:38:25,13:25:888:13:451:-29.4807,0,-68.7999 0/1:128:76,52:76:2700:52:1850:-128.247,0,-204.708 0/1:98:64,34:64:2296:34:1216:-80.2456,0,-177.4 0/1:119:60,59:60:2131:59:2094:-152.906,0,-156.235 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:15:12,3:12:432:3:108:-5.55972,0,-34.7057 1/1:103:0,103:0:0:103:3675:-330.955,-31.0061,0 1/1:58:2,56:2:68:56:1978:-171.833,-11.002,0 0/1:170:96,74:96:3430:74:2652:-187.751,0,-257.738 0/1:53:30,23:30:1076:23:805:-56.8139,0,-81.1983 0/1:42:28,14:28:999:14:487:-31.5151,0,-77.5812 0/1:37:18,19:18:648:19:671:-49.5777,0,-47.5138 0/1:37:17,20:17:596:20:720:-53.9907,0,-42.8297 1/1:87:0,87:0:0:87:3101:-279.317,-26.1896,0 1/1:39:1,38:1:36:38:1351:-118.291,-8.1419,0 chr06 7596251 . A G 33221 PASS AB=0.429026;ABP=71.7469;AC=30;AF=0.714286;AN=42;AO=1709;CIGAR=1X;DP=2617;DPB=2617;DPRA=0;EPP=3559.36;EPPR=1869.68;GTI=1;LEN=1;MEANALT=1.04762;MQM=41.5266;MQMR=43.7133;NS=21;NUMALT=1;ODDS=2.17241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61073;QR=32136;RO=907;RPL=1691;RPP=3559.36;RPPR=1869.68;RPR=18;RUN=1;SAF=1709;SAP=3714.06;SAR=0;SRF=907;SRP=1972.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:146:1,145:1:36:145:5180:-449.86,-40.4294,0 1/1:92:0,92:0:0:92:3297:-281.324,-27.6948,0 0/1:128:63,65:63:2252:65:2340:-166.548,0,-158.225 1/1:118:3,115:3:108:115:4109:-348.771,-25.5941,0 1/1:274:1,273:1:36:273:9725:-848.846,-78.9612,0 0/1:100:57,43:57:2009:43:1548:-102.784,0,-147.506 0/1:194:108,86:108:3802:86:3063:-202.281,0,-278.56 0/1:224:136,87:136:4832:87:3123:-200.653,0,-358.62 0/1:195:121,74:121:4292:74:2637:-173.709,0,-321.876 0/1:19:13,6:13:468:6:216:-13.2054,0,-35.5808 1/1:13:0,13:0:0:13:464:-39.7632,-3.91339,0 0/1:28:18,10:18:644:10:355:-21.7461,0,-48.8864 1/1:119:0,119:0:0:119:4251:-369.914,-35.8226,0 1/1:97:1,96:1:36:96:3437:-295.706,-25.6789,0 0/1:305:187,118:187:6606:118:4228:-278.619,0,-487.024 0/1:123:68,55:68:2394:55:1952:-134.323,0,-173.63 0/1:77:39,38:39:1381:38:1360:-97.0549,0,-99.3809 0/1:112:63,49:63:2244:49:1756:-118.291,0,-163.758 0/1:66:23,43:23:816:43:1544:-115.582,0,-52.0717 1/1:122:5,117:5:180:117:4180:-343.968,-20.9026,0 1/1:65:0,65:0:0:65:2308:-196.107,-19.567,0 chr06 7596281 . T G 12657 PASS AB=0.3914;ABP=236.475;AC=12;AF=0.285714;AN=42;AO=904;CIGAR=1X;DP=4257;DPB=4257;DPRA=1.5067;EPP=1966.02;EPPR=7279.61;GTI=0;LEN=1;MEANALT=1.11765;MQM=43.6405;MQMR=49.6691;NS=21;NUMALT=1;ODDS=2.69037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32190;QR=119386;RO=3351;RPL=903;RPP=1957.35;RPPR=10.4293;RPR=1;RUN=1;SAF=903;SAP=1957.35;SAR=1;SRF=1729;SRP=10.4293;SRR=1622;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:271:270,1:270:9619:1:36:0,-78.0581,-847.732 0/0:161:161,0:161:5735:0:0:0,-48.4658,-498.913 0/1:188:125,62:125:4449:62:2203:-136.408,0,-335.662 0/0:234:230,4:230:8153:4:144:0,-58.4128,-712.579 0/0:461:460,1:460:16345:1:36:0,-135.254,-1442.78 0/1:149:89,60:89:3192:60:2144:-144.199,0,-235.817 0/1:261:152,109:152:5397:109:3851:-262.771,0,-390.468 0/1:342:207,135:207:7444:135:4796:-319.57,0,-553.543 0/1:302:181,120:181:6463:120:4283:-288.708,0,-484.798 0/1:21:7,14:7:252:14:504:-38.1615,0,-15.844 0/0:20:20,0:20:720:0:0:0,-6.0206,-63.3047 0/1:42:25,17:25:896:17:608:-41.4957,0,-65.8768 0/0:269:269,0:269:9566:0:0:0,-80.9771,-846.532 0/0:197:196,1:196:7016:1:36:0,-55.7819,-616.062 0/1:425:240,185:240:8527:185:6589:-449.058,0,-628.721 0/1:167:101,66:101:3619:66:2353:-156.907,0,-270.076 0/1:95:57,38:57:2023:38:1359:-91.988,0,-151.575 0/1:162:99,63:99:3491:63:2244:-148.7,0,-259.558 0/1:125:102,23:102:3652:23:824:-34.7529,0,-287.806 0/0:240:235,5:235:8372:5:180:0,-56.4241,-721.245 0/0:125:125,0:125:4455:0:0:0,-37.6287,-389.998 chr06 7679357 . T C 12990.8 PASS AB=0.520604;ABP=8.37933;AC=12;AF=0.285714;AN=42;AO=769;CIGAR=1X;DP=2568;DPB=2568;DPRA=1.0074;EPP=1655.55;EPPR=3879.13;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9597;MQMR=59.9978;NS=21;NUMALT=1;ODDS=16.0157;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27376;QR=64337;RO=1797;RPL=2;RPP=1655.55;RPPR=3879.13;RPR=767;RUN=1;SAF=769;SAP=1672.87;SAR=0;SRF=1797;SRP=3905.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:115:112,3:112:4001:3:108:0,-24.5433,-350.203 0/0:94:94,0:94:3371:0:0:0,-28.2968,-303.605 0/1:176:100,75:100:3592:75:2688:-189.272,0,-270.594 0/0:102:102,0:102:3659:0:0:0,-30.7051,-329.512 0/0:228:228,0:228:8158:0:0:0,-68.6348,-734.229 0/1:53:25,28:25:900:28:981:-72.6464,0,-65.3664 0/1:119:49,70:49:1756:70:2486:-188.171,0,-122.501 0/1:170:68,102:68:2436:102:3631:-275.821,0,-168.32 0/1:294:136,158:136:4869:158:5636:-418.859,0,-349.858 0/1:37:22,14:22:779:14:489:-33.073,0,-59.2736 0/0:19:19,0:19:669:0:0:0,-5.71957,-60.5339 0/1:62:29,33:29:1040:33:1167:-86.6725,0,-75.2505 0/0:165:165,0:165:5916:0:0:0,-49.6699,-532.548 0/0:164:161,3:161:5730:3:108:0,-39.2937,-505.742 0/1:203:99,104:99:3537:104:3698:-271.914,0,-257.429 0/1:46:11,35:11:396:35:1252:-99.1377,0,-22.1354 0/1:58:23,35:23:820:35:1242:-94.6233,0,-56.6628 0/1:161:81,80:81:2916:80:2855:-208.722,0,-214.208 0/1:77:53,24:53:1892:24:855:-54.0909,0,-147.379 0/0:178:175,3:175:6284:3:108:0,-43.5082,-555.576 0/0:47:45,2:45:1616:2:72:0,-7.31169,-138.893 chr06 7679384 . G A 38664.5 PASS AB=0.452174;ABP=32.7123;AC=30;AF=0.714286;AN=42;AO=1791;CIGAR=1X;DP=2621;DPB=2621;DPRA=0;EPP=3892.12;EPPR=1785.83;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9771;MQMR=59.9578;NS=21;NUMALT=1;ODDS=9.62343;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63235;QR=29554;RO=829;RPL=1709;RPP=3212.48;RPPR=1297.54;RPR=82;RUN=1;SAF=1709;SAP=3212.48;SAR=82;SRF=768;SRP=1312.31;SRR=61;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:3,116:3:99:116:4126:-361.798,-26.586,0 1/1:124:0,124:0:0:124:4388:-395.093,-37.3277,0 0/1:167:76,91:76:2698:91:3253:-242.717,0,-192.792 1/1:102:1,101:1:36:101:3574:-318.269,-27.1068,0 1/1:223:0,223:0:0:223:7834:-705.095,-67.1297,0 0/1:55:29,26:29:1044:26:906:-65.2943,0,-77.7182 0/1:127:75,52:75:2688:52:1849:-128.459,0,-203.93 0/1:165:103,62:103:3661:62:2175:-146.342,0,-280.024 0/1:281:157,124:157:5607:124:4375:-309.335,0,-420.161 0/1:36:16,20:16:572:20:712:-53.5696,0,-40.346 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:62:31,31:31:1116:31:1078:-78.6605,0,-82.0878 1/1:162:0,162:0:0:162:5694:-512.58,-48.7669,0 1/1:165:3,162:3:104:162:5664:-500.179,-39.9671,0 0/1:200:104,95:104:3700:95:3374:-243.609,0,-272.937 0/1:92:70,22:70:2487:22:788:-43.55,0,-196.389 0/1:85:54,31:54:1910:31:1116:-75.1641,0,-146.589 0/1:153:78,75:78:2800:75:2656:-193.229,0,-206.182 0/1:72:25,47:25:896:47:1626:-124.95,0,-59.2862 1/1:170:4,166:4:136:166:5875:-516.288,-38.5996,0 1/1:44:0,44:0:0:44:1560:-140.692,-13.2453,0 chr06 7748087 . CTCGAAACAACAT TTCGCAACAT 13526.7 PASS AB=0.476584;ABP=11.6543;AC=12;AF=0.285714;AN=42;AO=868;CIGAR=1X3M3D6M;DP=3431;DPB=3227.92;DPRA=0.977606;EPP=1887.85;EPPR=5490.32;GTI=0;LEN=10;MEANALT=2.64286;MQM=59.947;MQMR=59.9929;NS=21;NUMALT=1;ODDS=12.2703;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30064;QR=88127;RO=2527;RPL=0;RPP=1887.85;RPPR=5490.32;RPR=868;RUN=1;SAF=0;SAP=1887.85;SAR=868;SRF=0;SRP=5490.32;SRR=2527;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:77,0:77:2659:0:0:0,-23.1793,-239.561 0/0:150:148,0:148:5159:0:0:0,-44.5524,-464.109 0/1:191:90,100:90:3131:100:3461:-254.138,0,-224.469 0/0:226:226,0:226:7888:0:0:0,-68.0328,-709.978 0/0:379:377,0:377:13098:0:0:0,-113.488,-1178.33 0/1:137:76,58:76:2630:58:2014:-140.823,0,-196.254 0/1:256:136,118:136:4795:118:4062:-289.041,0,-354.979 0/1:199:101,96:101:3530:96:3297:-237.35,0,-258.308 0/1:268:141,125:141:4907:125:4363:-312.475,0,-361.42 0/1:23:9,14:9:321:14:494:-37.8702,0,-22.3098 0/0:11:11,0:11:382:0:0:0,-3.31133,-34.7136 0/1:21:14,7:14:482:7:244:-15.9775,0,-37.3849 0/0:249:247,0:247:8615:0:0:0,-74.3544,-775.017 0/0:214:211,2:211:7376:2:66:0,-58.2013,-657.628 0/1:276:141,134:141:4923:134:4629:-333.702,0,-360.149 0/1:108:40,64:40:1402:64:2225:-168.85,0,-94.8109 0/1:151:80,65:80:2839:65:2238:-157.695,0,-211.762 0/1:100:51,49:51:1750:49:1715:-124.533,0,-127.681 0/1:85:48,35:48:1671:35:1221:-84.8808,0,-125.366 0/0:241:234,1:234:8160:1:35:0,-67.5911,-730.957 0/0:69:69,0:69:2409:0:0:0,-20.7711,-217.07 chr06 7748165 . A C 41895.5 PASS AB=0.537003;ABP=22.4553;AC=30;AF=0.714286;AN=42;AO=2051;CIGAR=1X;DP=2821;DPB=2821;DPRA=0;EPP=4448.02;EPPR=1675.04;GTI=0;LEN=1;MEANALT=1;MQM=59.9785;MQMR=60;NS=21;NUMALT=1;ODDS=13.7671;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73077;QR=27607;RO=770;RPL=1;RPP=4448.02;RPPR=1675.04;RPR=2050;RUN=1;SAF=2051;SAP=4456.7;SAR=0;SRF=770;SRP=1675.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:116:0,116:0:0:116:4148:-373.504,-34.9195,0 1/1:80:0,80:0:0:80:2856:-257.276,-24.0824,0 0/1:127:54,73:54:1936:73:2594:-195.477,0,-136.286 1/1:166:1,165:1:36:165:5863:-524.186,-46.3727,0 1/1:296:4,292:4:144:292:10399:-922.521,-75.7913,0 0/1:298:156,142:156:5585:142:5052:-365.119,0,-413.064 0/1:188:94,94:94:3372:94:3363:-246.292,0,-247.102 0/1:136:45,91:45:1601:91:3247:-251.511,0,-103.438 0/1:258:139,119:139:4992:119:4218:-300.688,0,-371.76 0/1:13:5,8:5:176:8:279:-21.5341,0,-12.2716 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:28:11,17:11:392:17:612:-46.9846,0,-27.1912 1/1:174:0,174:0:0:174:6213:-559.266,-52.3792,0 1/1:82:0,82:0:0:82:2905:-261.685,-24.6845,0 0/1:231:101,130:101:3632:130:4604:-344.988,0,-257.546 0/1:50:20,30:20:720:30:1063:-80.9285,0,-50.0773 0/1:58:20,38:20:720:38:1364:-105.601,0,-47.669 0/1:131:67,64:67:2408:64:2292:-167.106,0,-177.541 0/1:117:45,72:45:1605:72:2566:-195.969,0,-109.518 1/1:161:5,156:5:180:156:5567:-484.603,-31.9138,0 1/1:103:3,100:3:108:100:3588:-313.051,-20.9309,0 chr06 7748221 . CGTT TGTG,TGTT 63877.6 PASS AB=0.526316,0.469358;ABP=11.3533,14.3217;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1903,655;CIGAR=1X2M1X,1X3M;DP=2565;DPB=2565;DPRA=0,1.03777;EPP=1840.56,499.528;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.90476,2.35714;MQM=59.9143,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.17159;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66719,23487;QR=0;RO=0;RPL=1586,521;RPP=1840.56,499.528;RPPR=0;RPR=317,134;RUN=1,1;SAF=0,0;SAP=4135.32,1425.32;SAR=1903,655;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:0,127,0:0:0:127,0:4443,0:-400.048,-38.2308,0,-400.048,-38.2308,-400.048 1/1:45:0,45,0:0:0:45,0:1565,0:-141.005,-13.5464,0,-141.005,-13.5464,-141.005 1/2:159:0,77,82:0:0:77,82:2722,2927:-460.67,-238.98,-215.801,-222.045,0,-197.361 1/1:127:0,127,0:0:0:127,0:4482,0:-403.554,-38.2308,0,-403.554,-38.2308,-403.554 1/1:295:0,295,0:0:0:295,0:10335,0:-929.386,-88.8039,0,-929.386,-88.8039,-929.386 1/2:98:0,53,44:0:0:53,44:1850,1572:-278.635,-128.167,-112.212,-150.462,0,-137.217 1/2:184:0,102,82:0:0:102,82:3583,2940:-531.771,-240.149,-209.444,-291.977,0,-267.292 1/2:150:0,78,69:0:0:78,69:2718,2464:-421.918,-200.886,-177.405,-221.029,0,-200.258 1/2:256:0,137,118:0:0:137,118:4836,4244:-740.139,-346.335,-305.094,-393.879,0,-358.358 1/2:10:0,7,3:0:0:7,3:244,108:-29.0073,-9.17208,-7.06487,-20.1916,0,-19.2886 1/1:15:0,15,0:0:0:15,0:534,0:-48.3937,-4.51545,0,-48.3937,-4.51545,-48.3937 1/2:37:0,19,18:0:0:19,18:664,648:-107.243,-53.2333,-47.5138,-54.3641,0,-48.9456 1/1:165:0,165,0:0:0:165,0:5799,0:-522.033,-49.67,0,-522.033,-49.67,-522.033 1/1:180:0,178,1:0:0:178,1:6088,36:-547.729,-53.5833,0,-544.791,-50.601,-544.49 1/2:219:0,105,114:0:0:105,114:3713,4096:-636.916,-334.507,-302.898,-302.766,0,-268.448 1/2:42:0,21,21:0:0:21,21:755,752:-123.281,-61.6846,-55.363,-61.9554,0,-55.6338 1/2:62:0,29,33:0:0:29,33:1022,1188:-180.502,-97.2946,-88.5647,-83.5628,0,-73.6288 1/2:93:0,51,42:0:0:51,42:1791,1508:-269.134,-123.371,-108.019,-146.118,0,-133.474 1/2:77:0,51,25:0:0:51,25:1789,900:-219.017,-73.4354,-58.0829,-145.579,0,-138.053 1/1:164:0,161,3:0:0:161,3:5705,104:-512.958,-48.4658,0,-504.505,-39.6661,-503.601 1/1:60:0,60,0:0:0:60,0:2081,0:-187.557,-18.0618,0,-187.557,-18.0618,-187.557 chr06 7992265 . A G 34945.1 PASS AB=0.518919;ABP=7.03633;AC=30;AF=0.714286;AN=42;AO=1735;CIGAR=1X;DP=2364;DPB=2364;DPRA=0;EPP=3761.83;EPPR=1366.69;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.7032;MQMR=59.9984;NS=21;NUMALT=1;ODDS=16.5634;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60828;QR=22339;RO=628;RPL=1;RPP=3761.83;RPPR=1366.69;RPR=1734;RUN=1;SAF=0;SAP=3770.51;SAR=1735;SRF=0;SRP=1366.69;SRR=628;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:186:2,184:2:72:184:6454:-574.061,-49.1549,0 1/1:98:0,98:0:0:98:3434:-309.254,-29.5009,0 0/1:124:55,69:55:1936:69:2434:-181.965,0,-137.186 1/1:66:0,66:0:0:66:2323:-209.307,-19.868,0 1/1:294:2,292:2:72:292:10155:-906.84,-81.6661,0 0/1:113:67,46:67:2356:46:1643:-114.117,0,-178.281 0/1:124:63,61:63:2233:61:2158:-157.14,0,-163.905 0/1:115:61,54:61:2172:54:1899:-136.555,0,-161.128 0/1:204:91,113:91:3263:113:4003:-299.028,0,-232.479 0/1:15:6,9:6:212:9:320:-24.6269,0,-14.9093 1/1:12:0,12:0:0:12:424:-38.4882,-3.61236,0 0/1:23:10,13:10:360:13:460:-34.8117,0,-25.8206 1/1:148:0,147:0:0:147:5145:-462.911,-44.2514,0 1/1:128:0,128:0:0:128:4507:-405.79,-38.5318,0 0/1:176:75,101:75:2658:101:3521:-264.022,0,-186.484 0/1:89:43,46:43:1548:46:1622:-119.475,0,-112.821 0/1:102:44,58:44:1562:58:2051:-154.155,0,-110.165 0/1:128:78,50:78:2779:50:1741:-118.433,0,-211.819 0/1:82:30,52:30:1080:52:1784:-136.141,0,-72.8288 1/1:86:0,86:0:0:86:3018:-271.844,-25.8886,0 1/1:51:1,50:1:36:50:1732:-152.539,-11.7543,0 chr06 7992291 . C T 31533.8 PASS AB=0.497989;ABP=3.05397;AC=30;AF=0.714286;AN=42;AO=1579;CIGAR=1X;DP=2205;DPB=2205;DPRA=0;EPP=3388.47;EPPR=1342.86;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.7004;MQMR=59.9984;NS=21;NUMALT=1;ODDS=13.8857;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54960;QR=22335;RO=625;RPL=5;RPP=3388.47;RPPR=1342.86;RPR=1574;RUN=1;SAF=0;SAP=3431.77;SAR=1579;SRF=0;SRP=1360.18;SRR=625;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:160:1,159:1:36:159:5479:-489.615,-44.5665,0 1/1:92:0,92:0:0:92:3240:-291.806,-27.6948,0 0/1:117:55,62:55:1976:62:2151:-158.627,0,-142.894 1/1:63:0,63:0:0:63:2198:-198.06,-18.9649,0 1/1:263:1,262:1:36:262:9079:-813.433,-75.5726,0 0/1:106:65,40:65:2312:40:1394:-93.7608,0,-176.37 0/1:121:62,59:62:2198:59:2033:-146.779,0,-161.66 0/1:116:64,52:64:2288:52:1782:-125.728,0,-171.262 0/1:190:91,99:91:3255:99:3417:-250.532,0,-235.975 0/1:15:7,8:7:252:8:288:-21.752,0,-18.5135 1/1:11:0,11:0:0:11:369:-33.5323,-3.31133,0 0/1:23:10,13:10:360:13:464:-35.1738,0,-25.8206 1/1:140:0,140:0:0:140:4954:-445.993,-42.1442,0 1/1:110:0,110:0:0:110:3801:-342.255,-33.1133,0 0/1:174:76,98:76:2736:98:3430:-256.44,0,-194.102 0/1:86:41,45:41:1463:45:1559:-114.705,0,-106.077 0/1:94:44,50:44:1584:50:1716:-126.419,0,-114.555 0/1:126:79,47:79:2810:47:1626:-108.687,0,-215.207 0/1:75:29,46:29:1029:46:1615:-123.055,0,-70.3439 1/1:72:0,72:0:0:72:2553:-230.005,-21.6742,0 1/1:51:0,51:0:0:51:1812:-163.337,-15.3525,0 chr06 8011199 . C T 11239 PASS AB=0.458;ABP=25.9932;AC=12;AF=0.285714;AN=42;AO=693;CIGAR=1X;DP=2690;DPB=2690;DPRA=1.16168;EPP=1507.84;EPPR=4339.44;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9985;NS=21;NUMALT=1;ODDS=6.20745;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24799;QR=70999;RO=1997;RPL=693;RPP=1507.84;RPPR=4339.44;RPR=0;RUN=1;SAF=693;SAP=1507.84;SAR=0;SRF=1997;SRP=4339.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:107:104,3:104:3693:3:108:0,-22.135,-322.498 0/0:74:74,0:74:2596:0:0:0,-22.2762,-233.886 0/1:145:83,62:83:2940:62:2232:-157.494,0,-221.184 0/0:219:219,0:219:7807:0:0:0,-65.9256,-702.658 0/0:229:228,1:228:8155:1:36:0,-65.3376,-730.365 0/1:124:67,57:67:2396:57:2048:-147.264,0,-178.569 0/1:279:158,121:158:5609:121:4335:-306.337,0,-420.946 0/1:163:80,83:80:2863:83:2965:-218.015,0,-208.839 0/1:217:108,109:108:3837:109:3912:-286.948,0,-280.201 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:21:11,10:11:388:10:360:-26.4227,0,-28.9357 0/0:147:147,0:147:5212:0:0:0,-44.2514,-469.219 0/0:179:179,0:179:6338:0:0:0,-53.8844,-570.514 0/1:212:117,95:117:4180:95:3381:-240.686,0,-312.562 0/1:57:33,24:33:1173:24:864:-60.9239,0,-88.7168 0/1:144:71,73:71:2510:73:2600:-190.898,0,-182.802 0/1:69:40,29:40:1413:29:1026:-71.88,0,-106.694 0/1:63:40,23:40:1425:23:824:-55.5184,0,-109.581 0/0:165:163,2:163:5820:2:72:0,-42.8332,-517.076 0/0:63:63,0:63:2212:0:0:0,-18.9649,-199.341 chr06 8011263 . G A 7789.34 PASS AB=0.478571;ABP=6.91895;AC=12;AF=0.285714;AN=42;AO=474;CIGAR=1X;DP=1604;DPB=1604;DPRA=1.44368;EPP=1023.62;EPPR=2456.77;GTI=0;LEN=1;MEANALT=1;MQM=59.9852;MQMR=59.992;NS=21;NUMALT=1;ODDS=10.9905;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17001;QR=40184;RO=1130;RPL=0;RPP=1032.29;RPPR=2456.77;RPR=474;RUN=1;SAF=1;SAP=1023.62;SAR=473;SRF=0;SRP=2456.77;SRR=1130;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:82:82,0:82:2921:0:0:0,-24.6845,-263.116 0/0:43:43,0:43:1525:0:0:0,-12.9443,-137.541 0/1:133:69,64:69:2480:64:2304:-167.581,0,-183.416 0/0:65:65,0:65:2285:0:0:0,-19.5669,-205.909 0/0:111:109,2:109:3883:2:72:0,-26.5776,-342.829 0/1:103:52,51:52:1864:51:1823:-133.344,0,-137.033 0/1:136:69,67:69:2444:67:2408:-176.035,0,-179.273 0/1:106:53,53:53:1887:53:1904:-139.729,0,-138.199 0/1:177:106,71:106:3783:71:2556:-177.007,0,-287.387 0/1:9:5,4:5:176:4:144:-10.6043,0,-13.4757 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:31:8,23:8:279:23:813:-64.1572,0,-16.1156 0/0:87:87,0:87:3115:0:0:0,-26.1896,-280.576 0/0:62:61,1:61:2140:1:36:0,-15.0656,-189.268 0/1:80:38,42:38:1325:42:1508:-111.932,0,-95.4624 0/1:35:14,21:14:504:21:756:-57.8312,0,-35.162 0/1:45:23,22:23:805:22:792:-58.0593,0,-59.2212 0/1:40:19,21:19:676:21:737:-54.6094,0,-49.1268 0/1:85:55,30:55:1972:30:1076:-71.5653,0,-152.167 0/0:103:101,2:101:3585:2:72:0,-24.1694,-316.021 0/0:60:60,0:60:2143:0:0:0,-18.0618,-193.137 chr06 8359116 . 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C T 13002.5 PASS AB=0.531987;ABP=8.2891;AC=30;AF=0.714286;AN=42;AO=646;CIGAR=1X;DP=926;DPB=926;DPRA=0;EPP=1405.78;EPPR=608.851;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.01831;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23099;QR=10000;RO=279;RPL=0;RPP=1405.78;RPPR=608.851;RPR=646;RUN=1;SAF=0;SAP=1405.78;SAR=646;SRF=0;SRP=608.851;SRR=279;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:46:1,45:1:36:45:1601:-140.78,-10.2491,0 0/1:34:10,24:10:360:24:860:-67.4868,0,-22.5093 1/1:55:0,55:0:0:55:1959:-176.583,-16.5567,0 1/1:85:0,85:0:0:85:3022:-272.209,-25.5876,0 0/1:50:32,18:32:1144:18:648:-43.6004,0,-88.218 0/1:98:37,61:37:1328:61:2196:-168.404,0,-90.3213 0/1:37:13,24:13:464:24:860:-66.5837,0,-30.9594 0/1:95:45,50:45:1616:50:1784:-132.243,0,-117.132 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:8:2,6:2:72:6:212:-17.0166,0,-4.42848 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 1/1:53:0,52:0:0:52:1844:-165.92,-15.6536,0 0/1:73:42,31:42:1508:31:1112:-78.4162,0,-114.039 0/1:89:47,42:47:1684:42:1512:-109.583,0,-125.055 0/1:57:26,31:26:936:31:1116:-83.593,0,-67.4008 0/1:31:14,17:14:496:17:612:-46.0815,0,-35.6423 0/1:18:8,10:8:284:10:360:-27.3258,0,-20.4848 1/1:36:0,36:0:0:36:1281:-115.591,-10.8371,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 chr06 8792420 . G A 54553.7 PASS AB=0.499179;ABP=3.021;AC=30;AF=0.714286;AN=42;AO=2610;CIGAR=1X;DP=3535;DPB=3535;DPRA=0;EPP=5661.87;EPPR=1994.26;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9989;MQMR=59.987;NS=21;NUMALT=1;ODDS=22.0801;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93245;QR=32684;RO=921;RPL=2609;RPP=5661.87;RPPR=1994.26;RPR=1;RUN=1;SAF=0;SAP=5670.55;SAR=2610;SRF=0;SRP=2002.94;SRR=921;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:273:0,273:0:0:273:9780:-880.143,-82.1812,0 1/1:164:0,164:0:0:164:5876:-528.95,-49.3689,0 0/1:191:78,113:78:2796:113:4057:-307.819,0,-194.383 1/1:195:1,194:1:32:194:6936:-621.108,-55.5015,0 1/1:287:1,285:1:36:285:10201:-914.42,-82.8561,0 0/1:203:112,91:112:3983:91:3259:-232.421,0,-297.553 0/1:225:102,123:102:3605:123:4395:-327.991,0,-256.926 0/1:183:109,74:109:3849:74:2648:-183.478,0,-291.521 0/1:266:137,129:137:4858:129:4604:-334.452,0,-357.304 0/1:39:17,22:17:608:22:784:-59.1437,0,-43.3119 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:101:59,42:59:2100:42:1500:-104.891,0,-158.848 1/1:354:1,353:1:36:353:12626:-1132.57,-102.966,0 1/1:190:0,188:0:0:188:6626:-596.139,-56.5936,0 0/1:204:109,94:109:3886:94:3376:-242.586,0,-288.466 0/1:126:68,58:68:2436:58:2076:-149.18,0,-181.566 0/1:101:51,50:51:1811:50:1787:-130.708,0,-132.867 0/1:97:45,52:45:1583:52:1845:-137.128,0,-113.56 0/1:91:27,64:27:925:64:2296:-179.507,0,-56.1655 1/1:162:4,158:4:140:158:5629:-493.786,-35.8223,0 1/1:77:0,77:0:0:77:2728:-245.762,-23.1793,0 chr06 8836981 . A T 9190.04 PASS AB=0.462357;ABP=18.0507;AC=12;AF=0.285714;AN=42;AO=577;CIGAR=1X;DP=2262;DPB=2262;DPRA=1.6787;EPP=1255.95;EPPR=3657.6;GTI=1;LEN=1;MEANALT=1.0625;MQM=59.9081;MQMR=59.975;NS=21;NUMALT=1;ODDS=3.8613;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20593;QR=59913;RO=1683;RPL=0;RPP=1255.95;RPPR=3648.92;RPR=577;RUN=1;SAF=0;SAP=1255.95;SAR=577;SRF=1;SRP=3648.92;SRR=1682;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:93:93,0:93:3306:0:0:0,-27.9958,-297.759 0/0:82:82,0:82:2927:0:0:0,-24.6845,-263.665 0/1:114:61,53:61:2180:53:1873:-134.53,0,-162.145 0/0:128:123,5:123:4314:5:176:0,-22.3468,-372.234 0/0:282:281,1:281:10045:1:36:0,-81.2922,-900.377 0/1:127:69,58:69:2468:58:2080:-149.227,0,-184.143 0/1:168:90,78:90:3215:78:2795:-201.208,0,-238.997 0/1:126:69,57:69:2443:57:2022:-144.32,0,-182.193 0/1:201:113,88:113:3998:88:3140:-222.316,0,-299.503 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:27:11,16:11:396:16:576:-44.0472,0,-27.8549 0/0:137:137,0:137:4878:0:0:0,-41.2411,-439.174 0/0:179:173,4:173:6171:4:144:0,-40.2853,-542.198 0/1:156:81,75:81:2891:75:2675:-194.034,0,-213.465 0/1:83:43,40:43:1544:40:1424:-103.471,0,-114.268 0/1:72:42,30:42:1495:30:1072:-75.1183,0,-113.159 0/1:77:31,46:31:1090:46:1644:-125.052,0,-75.2286 0/1:61:39,22:39:1370:22:792:-53.2405,0,-105.234 0/0:96:94,2:94:3376:2:72:0,-22.0622,-297.218 0/0:36:36,0:36:1266:0:0:0,-10.8371,-114.241 chr06 8845600 . TAGAAAA CAGAGAT,CGGAGAT 45307.8 PASS AB=0.500713,0.489301;ABP=3.0165,4.40426;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1525,692;CIGAR=1X3M1X1M1X,2X2M1X1M1X;DP=2237;DPB=2237.14;DPRA=0,1.2549;EPP=3314.51,1505.67;EPPR=11.6962;GTI=0;LEN=7,7;MEANALT=2.52381,2.8125;MQM=59.5325,52.6503;MQMR=60;NS=21;NUMALT=2;ODDS=13.9438;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=53562,24253;QR=143;RO=4;RPL=1525,692;RPP=3314.51,1505.67;RPPR=11.6962;RPR=0,0;RUN=1,1;SAF=1525,692;SAP=3314.51,1505.67;SAR=0,0;SRF=4;SRP=11.6962;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,146,2:0:0:146,2:5114,70:-459.931,-43.9504,0,-454.246,-38.2602,-453.644 1/1:131:0,131,0:0:0:131,0:4578,0:-412.131,-39.4349,0,-412.131,-39.4349,-412.131 1/2:125:0,62,62:0:0:62,62:2176,2169:-352.83,-176.074,-157.41,-176.865,0,-158.201 1/1:66:0,64,1:0:0:64,1:2244,33:-201.947,-19.2659,0,-199.282,-16.5361,-198.981 1/1:78:0,77,1:0:0:77,1:2686,36:-241.577,-23.1793,0,-238.646,-19.8889,-238.345 1/2:58:2,25,31:2:71:25,31:880,1093:-153.804,-82.7742,-81.0338,-65.843,0,-62.2965 1/2:205:2,103,99:2:72:103,99:3616,3497:-570.773,-277.164,-252.033,-288.328,0,-264.401 1/2:110:0,45,65:0:0:45,65:1570,2259:-310.706,-183.11,-169.563,-127.944,0,-108.377 1/2:201:0,105,95:0:0:105,95:3677,3333:-569.771,-270.616,-239.008,-299.194,0,-270.596 1/2:33:0,20,13:0:0:20,13:704,466:-95.5978,-38.2891,-32.2685,-57.6641,0,-53.7507 1/1:21:0,21,0:0:0:21,0:741,0:-67.0117,-6.32163,0,-67.0117,-6.32163,-67.0117 1/2:34:0,9,25:0:0:9,25:319,874:-97.3404,-71.3512,-68.642,-26.3421,0,-18.8164 1/1:95:0,93,2:0:0:93,2:3291,67:-295.202,-27.9958,0,-289.801,-22.2612,-289.199 1/1:135:0,135,0:0:0:135,0:4756,0:-427.778,-40.6391,0,-427.778,-40.6391,-427.778 1/2:155:0,79,74:0:0:79,74:2818,2584:-439.407,-209.792,-186.01,-229.665,0,-207.389 1/2:73:0,39,33:0:0:39,33:1387,1154:-206.849,-93.8155,-82.0753,-113.103,0,-103.169 1/2:90:0,46,44:0:0:46,44:1614,1544:-257.168,-125.832,-111.984,-131.686,0,-118.441 1/2:230:0,106,120:0:0:106,120:3727,4185:-642.346,-338.985,-307.076,-303.388,0,-267.264 1/2:88:0,63,25:0:0:63,25:2189,889:-250.459,-72.5074,-53.5425,-178.304,0,-170.779 1/1:68:0,66,0:0:0:66,0:2321,0:-208.787,-19.868,0,-208.787,-19.868,-208.787 1/1:91:0,90,0:0:0:90,0:3154,0:-283.832,-27.0927,0,-283.832,-27.0927,-283.832 chr06 8850599 . TTGTA CTGTG,TTGTG 50042.5 PASS AB=0.501114,0.496659;ABP=3.02481,3.14088;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1686,674;CIGAR=1X3M1X,4M1X;DP=2380;DPB=2380;DPRA=0,1.27877;EPP=3594.96,1449.26;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.42857,2.42857;MQM=59.9104,59.9763;MQMR=0;NS=21;NUMALT=2;ODDS=13.3865;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59482,24051;QR=0;RO=0;RPL=1678,672;RPP=3594.96,1449.26;RPPR=0;RPR=8,2;RUN=1,1;SAF=0,0;SAP=3664.11,1466.58;SAR=1686,674;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:126:0,125,0:0:0:125,0:4419,0:-397.525,-37.6288,0,-397.525,-37.6288,-397.525 1/1:43:0,43,0:0:0:43,0:1528,0:-137.814,-12.9443,0,-137.814,-12.9443,-137.814 1/2:79:0,42,37:0:0:42,37:1500,1320:-230.258,-107.964,-95.3206,-122.651,0,-111.513 1/1:159:0,157,0:0:0:157,0:5533,0:-497.792,-47.2617,0,-497.792,-47.2617,-497.792 1/1:165:0,160,1:0:0:160,1:5666,36:-509.707,-48.1648,0,-506.77,-45.2274,-506.469 1/2:90:0,43,47:0:0:43,47:1510,1672:-259.456,-136.619,-123.675,-123.19,0,-109.041 1/2:163:0,87,76:0:0:87,76:3071,2702:-470.621,-220.546,-194.356,-250.43,0,-227.551 1/2:126:0,56,68:0:0:56,68:1954,2416:-355.859,-196.935,-180.077,-158.982,0,-138.512 1/2:255:0,127,128:0:0:127,128:4484,4592:-740.059,-374.912,-336.681,-365.503,0,-326.971 1/2:13:0,9,4:0:0:9,4:319,144:-38.0938,-12.1095,-9.40023,-26.3424,0,-25.1383 1/1:11:0,11,0:0:0:11,0:384,0:-34.8944,-3.31133,0,-34.8944,-3.31133,-34.8944 1/2:39:0,19,20:0:0:19,20:657,712:-111.768,-58.3861,-52.6665,-53.7321,0,-47.7115 1/1:126:0,124,0:0:0:124,0:4365,0:-392.711,-37.3277,0,-392.711,-37.3277,-392.711 1/1:133:0,131,0:0:0:131,0:4593,0:-412.961,-39.4349,0,-412.961,-39.4349,-412.961 1/2:174:0,79,94:0:0:79,94:2784,3360:-500.623,-273.96,-250.179,-226.657,0,-198.36 1/2:91:0,46,45:0:0:46,45:1636,1612:-265.144,-131.824,-117.976,-133.677,0,-120.131 1/2:97:0,47,50:0:0:47,50:1673,1779:-281.687,-145.333,-131.185,-136.71,0,-121.659 1/2:119:0,54,65:0:0:54,65:1923,2319:-346.137,-189.403,-173.147,-157.091,0,-137.524 1/2:101:0,66,35:0:0:66,35:2331,1243:-291.465,-101.638,-81.7698,-190.182,0,-179.646 1/1:199:0,193,4:0:0:193,4:6769,144:-608.924,-58.0988,0,-597.174,-46.3092,-595.97 1/1:71:0,67,0:0:0:67,0:2383,0:-214.39,-20.169,0,-214.39,-20.169,-214.39 chr06 8916991 . GGGA CGGC,TGGC 44541.5 PASS AB=0.462898,0.531802;ABP=16.5456,12.9546;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1514,612;CIGAR=1X2M1X,1X2M1X;DP=2134;DPB=2134.5;DPRA=0,1.86683;EPP=3290.62,1331.95;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.14286,2.5;MQM=59.9769,59.9935;MQMR=0;NS=21;NUMALT=2;ODDS=12.6699;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=53445,21615;QR=0;RO=0;RPL=0,0;RPP=3290.62,1331.95;RPPR=0;RPR=1514,612;RUN=1,1;SAF=1514,612;SAP=3290.62,1331.95;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77,0:0:0:77,0:2725,0:-245.494,-23.1793,0,-245.494,-23.1793,-245.494 1/1:60:0,60,0:0:0:60,0:2126,0:-191.608,-18.0618,0,-191.608,-18.0618,-191.608 1/2:90:0,49,41:0:0:49,41:1730,1438:-258.254,-117.372,-102.622,-141.233,0,-128.891 1/1:169:0,167,1:0:0:167,1:5896,36:-530.366,-50.272,0,-527.428,-47.3647,-527.127 1/1:130:0,129,1:0:0:129,1:4547,36:-409.042,-38.8329,0,-406.104,-35.5356,-405.803 1/2:109:0,43,65:0:0:43,65:1494,2291:-307.982,-186.525,-173.58,-121.447,0,-101.88 1/2:141:0,48,92:0:0:48,92:1691,3229:-400.515,-262.84,-248.391,-137.726,0,-110.031 1/2:143:0,67,75:0:0:67,75:2365,2663:-409.576,-216.99,-196.821,-192.59,0,-170.013 1/2:215:0,98,117:0:0:98,117:3475,4120:-618.876,-335.768,-306.267,-283.462,0,-248.241 1/2:19:0,12,6:0:0:12,6:429,211:-52.2176,-17.2285,-13.6162,-35.0421,0,-33.2359 1/1:10:0,10,0:0:0:10,0:339,0:-30.8305,-3.0103,0,-30.8305,-3.0103,-30.8305 1/2:58:0,30,28:0:0:30,28:1060,1004:-168.57,-82.2473,-73.2164,-86.679,0,-78.2501 1/1:277:0,271,6:0:0:271,6:9550,216:-859.112,-81.5791,0,-841.487,-63.5948,-839.681 1/1:102:0,102,0:0:0:102,0:3562,0:-320.787,-30.7051,0,-320.787,-30.7051,-320.787 1/2:101:0,39,61:0:0:39,61:1393,2128:-286.767,-173.191,-161.451,-113.696,0,-95.3327 1/2:35:0,20,15:0:0:20,15:718,539:-102.899,-44.3307,-38.3101,-58.9278,0,-54.4123 1/2:52:0,19,32:0:0:19,32:681,1132:-147.738,-92.1946,-86.475,-55.5403,0,-45.9074 1/2:61:0,27,34:0:0:27,34:965,1212:-177.774,-99.0932,-90.9654,-78.9808,0,-68.7458 1/2:108:0,72,36:0:0:72,36:2552,1288:-313.287,-105.387,-83.7127,-208.256,0,-197.419 1/1:120:0,117,2:0:0:117,2:4136,72:-372.067,-35.2205,0,-366.192,-29.3457,-365.59 1/1:57:0,57,0:0:0:57,0:2011,0:-181.262,-17.1587,0,-181.262,-17.1587,-181.262 chr06 9053630 . A T 6507.95 PASS AB=0.539106;ABP=12.5211;AC=12;AF=0.285714;AN=42;AO=387;CIGAR=1X;DP=1280;DPB=1280;DPRA=0.938249;EPP=843.37;EPPR=1937.79;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8889;MQMR=59.9416;NS=21;NUMALT=1;ODDS=6.06587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13717;QR=31865;RO=891;RPL=387;RPP=843.37;RPPR=1937.79;RPR=0;RUN=1;SAF=0;SAP=843.37;SAR=387;SRF=0;SRP=1937.79;SRR=891;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:51,0:51:1836:0:0:0,-15.3525,-165.518 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:67:37,30:37:1313:30:1080:-77.3442,0,-98.2144 0/0:97:97,0:97:3461:0:0:0,-29.1999,-311.701 0/0:80:80,0:80:2861:0:0:0,-24.0824,-257.726 0/1:55:21,34:21:752:34:1212:-92.8297,0,-51.4496 0/1:102:48,54:48:1724:54:1940:-144.171,0,-124.74 0/1:77:43,34:43:1516:34:1175:-82.7944,0,-113.551 0/1:98:39,59:39:1404:59:2089:-158.778,0,-97.1583 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:35:19,16:19:684:16:542:-38.5617,0,-51.3543 0/0:94:94,0:94:3364:0:0:0,-28.2968,-302.787 0/0:82:82,0:82:2902:0:0:0,-24.6845,-261.414 0/1:84:42,42:42:1504:42:1488:-108.927,0,-110.368 0/1:36:6,30:6:212:30:1065:-85.3225,0,-8.58772 0/1:41:16,25:16:576:25:885:-67.6243,0,-39.8246 0/1:62:26,36:26:936:36:1288:-97.5597,0,-65.8956 0/1:55:30,23:30:1076:23:809:-56.8008,0,-80.8385 0/0:57:56,1:56:2012:1:36:0,-13.5604,-177.755 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 chr06 9079598 . A T 21988 PASS AB=0.447539;ABP=28.7555;AC=30;AF=0.714286;AN=42;AO=1084;CIGAR=1X;DP=1686;DPB=1686;DPRA=0;EPP=2279.36;EPPR=1239.5;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.8911;MQMR=59.9867;NS=21;NUMALT=1;ODDS=0.0388248;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38844;QR=21498;RO=601;RPL=1075;RPP=2279.36;RPPR=1239.5;RPR=9;RUN=1;SAF=0;SAP=2356.89;SAR=1084;SRF=0;SRP=1308.07;SRR=601;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,60:0:0:60:2156:-194.293,-18.0618,0 1/1:65:0,65:0:0:65:2328:-209.779,-19.567,0 0/1:116:59,57:59:2120:57:2052:-150.018,0,-156.149 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 1/1:147:2,145:2:72:145:5207:-461.916,-37.4147,0 0/1:72:42,30:42:1500:30:1076:-75.4783,0,-113.62 0/1:117:71,46:71:2536:46:1641:-112.756,0,-193.271 0/1:86:49,37:49:1755:37:1328:-93.8275,0,-132.345 0/1:149:93,56:93:3340:56:2004:-135.78,0,-255.963 0/1:33:24,9:24:864:9:324:-19.5719,0,-68.1486 1/1:12:0,12:0:0:12:432:-38.9014,-3.61236,0 0/1:31:13,18:13:468:18:648:-49.32,0,-33.1277 1/1:50:0,50:0:0:50:1790:-161.378,-15.0515,0 1/1:96:3,92:3:108:92:3291:-286.333,-18.8825,0 0/1:135:76,59:76:2716:59:2112:-149.709,0,-204.045 0/1:53:31,22:31:1093:22:792:-55.6511,0,-82.7198 0/1:57:39,18:39:1396:18:637:-40.47,0,-108.78 0/1:144:71,73:71:2526:73:2628:-193.418,0,-184.243 0/1:84:27,57:27:968:57:2029:-157.594,0,-62.1508 1/1:54:0,54:0:0:54:1925:-173.526,-16.2556,0 1/1:60:1,59:1:36:59:2116:-187.104,-14.4635,0 chr06 9098908 . 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TTTC CTTT,CTTC 19578.5 PASS AB=0.561538,0.438462;ABP=20.1148,20.1148;AC=30,12;AF=0.714286,0.285714;AN=42;AO=700,229;CIGAR=1X2M1X,1X3M;DP=929;DPB=929;DPRA=0,0.938127;EPP=1523.04,500.277;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.61905,2;MQM=59.5457,59.9738;MQMR=0;NS=21;NUMALT=2;ODDS=0.90432;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24812,8201;QR=0;RO=0;RPL=700,229;RPP=1523.04,500.277;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1523.04,500.277;SAR=700,229;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:11:0,11,0:0:0:11,0:390,0:-35.4337,-3.31133,0,-35.4337,-3.31133,-35.4337 1/1:42:0,42,0:0:0:42,0:1493,0:-134.657,-12.6433,0,-134.657,-12.6433,-134.657 1/2:23:0,16,7:0:0:16,7:574,252:-67.7402,-20.9217,-16.1053,-47.1779,0,-45.0707 1/1:41:0,40,1:0:0:40,1:1433,36:-128.905,-12.0412,0,-125.967,-8.74396,-125.666 1/1:95:0,95,0:0:0:95,0:3389,0:-305.166,-28.5979,0,-305.166,-28.5979,-305.166 1/2:61:0,34,27:0:0:34,27:1186,964:-175.399,-78.949,-68.714,-96.8033,0,-88.6755 1/2:41:0,26,15:0:0:26,15:919,536:-118.708,-44.0594,-36.2326,-75.0044,0,-70.4889 1/2:51:0,30,21:0:0:30,21:1075,752:-149.343,-61.6846,-52.6537,-88.0166,0,-81.6949 1/2:71:0,33,38:0:0:33,38:1178,1349:-206.295,-110.267,-100.333,-96.3843,0,-84.9452 1/2:10:0,8,2:0:0:8,2:276,72:-28.6342,-6.23466,-3.82642,-22.7563,0,-22.1543 1/1:7:0,7,0:0:0:7,0:247,0:-22.5731,-2.10721,0,-22.5731,-2.10721,-22.5731 1/2:8:0,5,3:0:0:5,3:179,104:-23.4042,-8.79971,-7.29456,-14.9552,0,-14.0522 1/1:104:0,104,0:0:0:104,0:3671,0:-330.579,-31.3071,0,-330.579,-31.3071,-330.579 1/1:44:0,44,0:0:0:44,0:1544,0:-139.231,-13.2453,0,-139.231,-13.2453,-139.231 1/2:53:0,32,21:0:0:32,21:1133,756:-154.327,-62.0456,-52.4126,-92.6393,0,-86.3177 1/2:25:0,11,14:0:0:11,14:393,504:-73.525,-41.4837,-38.1723,-32.3996,0,-28.1852 1/2:16:0,9,7:0:0:9,7:324,252:-47.3585,-20.9217,-18.2125,-26.7966,0,-24.6894 1/2:88:0,45,43:0:0:45,43:1589,1544:-255.697,-126.309,-112.762,-129.744,0,-116.8 1/2:73:0,43,30:0:0:43,30:1511,1080:-211.444,-88.4823,-75.5381,-123.317,0,-114.287 1/1:29:0,29,0:0:0:29,0:1024,0:-92.4589,-8.72987,0,-92.4589,-8.72987,-92.4589 1/1:36:0,36,0:0:0:36,0:1284,0:-115.861,-10.8371,0,-115.861,-10.8371,-115.861 chr06 9466597 . A G 20375.1 PASS AB=0.445525;ABP=29.5073;AC=30;AF=0.714286;AN=42;AO=1023;CIGAR=1X;DP=1600;DPB=1600;DPRA=0;EPP=2198.45;EPPR=1251.61;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9697;MQMR=60;NS=21;NUMALT=1;ODDS=2.51785;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36478;QR=20533;RO=575;RPL=1;RPP=2215.75;RPPR=1200.04;RPR=1022;RUN=1;SAF=4;SAP=2189.82;SAR=1019;SRF=6;SRP=1200.04;SRR=569;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66:0:0:66:2376:-214.097,-19.868,0 1/1:24:0,24:0:0:24:856:-77.3611,-7.22472,0 0/1:108:49,59:49:1760:59:2097:-156.488,0,-126.173 1/1:42:1,41:1:36:41:1449:-127.106,-9.04499,0 1/1:85:4,81:4:144:81:2873:-245.407,-12.2739,0 0/1:48:32,16:32:1144:16:576:-37.7255,0,-88.8201 0/1:95:60,35:60:2152:35:1242:-83.4815,0,-165.349 0/1:150:76,74:76:2712:74:2637:-192.421,0,-199.17 0/1:168:105,63:105:3738:63:2245:-151.739,0,-286.046 0/1:23:20,3:20:716:3:108:-3.15148,0,-57.844 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 0/1:38:19,19:19:676:19:684:-50.4512,0,-49.7289 1/1:135:0,135:0:0:135:4835:-435.303,-40.6391,0 1/1:50:0,50:0:0:50:1787:-161.112,-15.0515,0 0/1:161:84,77:84:2983:77:2742:-198.556,0,-220.235 0/1:21:15,6:15:540:6:216:-13.4689,0,-42.6149 0/1:22:17,5:17:604:5:171:-9.10279,0,-48.0679 0/1:137:79,58:79:2828:58:2055:-143.98,0,-213.518 0/1:57:14,43:14:500:43:1536:-121.374,0,-28.1775 1/1:104:0,102:0:0:102:3643:-327.715,-30.7051,0 1/1:48:0,48:0:0:48:1702:-153.464,-14.4494,0 chr06 9466636 . C T 19619.2 PASS AB=0.443259;ABP=31.8418;AC=30;AF=0.714286;AN=42;AO=1019;CIGAR=1X;DP=1599;DPB=1599;DPRA=0;EPP=2207.06;EPPR=1253.79;GTI=1;LEN=1;MEANALT=1;MQM=59.9696;MQMR=59.931;NS=21;NUMALT=1;ODDS=1.12921;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35826;QR=20723;RO=580;RPL=1019;RPP=2215.74;RPPR=1253.79;RPR=0;RUN=1;SAF=1;SAP=2207.06;SAR=1018;SRF=0;SRP=1262.46;SRR=580;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:0,65:0:0:65:2275:-205.008,-19.567,0 1/1:22:1,21:1:36:21:726:-63.6666,-4.63333,0 0/1:111:53,58:53:1889:58:2036:-150.093,0,-136.872 1/1:41:1,40:1:32:40:1417:-124.626,-9.14292,0 1/1:85:4,81:4:144:81:2853:-243.681,-12.2739,0 0/1:48:32,16:32:1137:16:567:-36.9113,0,-88.1875 0/1:97:62,35:62:2194:35:1239:-82.5838,0,-168.522 0/1:151:78,73:78:2808:73:2552:-184.47,0,-207.503 0/1:170:106,64:106:3786:64:2300:-156.086,0,-289.76 0/1:23:20,3:20:716:3:104:-2.77912,0,-57.844 1/1:19:0,19:0:0:19:669:-60.5339,-5.71957,0 0/1:39:19,20:19:676:20:720:-53.3886,0,-49.4278 1/1:134:0,134:0:0:134:4680:-421.359,-40.338,0 1/1:50:0,50:0:0:50:1762:-158.859,-15.0515,0 0/1:160:83,77:83:2980:77:2666:-192.014,0,-220.267 0/1:21:15,6:15:540:6:186:-10.7219,0,-42.6149 0/1:17:12,5:12:428:5:176:-11.0675,0,-33.7413 0/1:137:80,57:80:2872:57:2014:-140.288,0,-217.475 0/1:57:14,43:14:485:43:1499:-118.038,0,-26.8183 1/1:105:0,105:0:0:105:3742:-336.978,-31.6082,0 1/1:47:0,47:0:0:47:1643:-148.152,-14.1484,0 chr06 9750541 . A G 55508.9 PASS AB=0.51264;ABP=5.37071;AC=30;AF=0.714286;AN=42;AO=2166;CIGAR=1X;DP=3014;DPB=3014;DPRA=0;EPP=4706.42;EPPR=1840.08;GTI=0;LEN=1;MEANALT=1.09524;MQM=55.7581;MQMR=59.9669;NS=21;NUMALT=1;ODDS=13.9115;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75990;QR=29916;RO=846;RPL=878;RPP=171.535;RPPR=97.6311;RPR=1288;RUN=1;SAF=878;SAP=171.535;SAR=1288;SRF=327;SRP=97.6311;SRR=519;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:173:4,169:4:144:169:5905:-516.685,-38.7646,0 1/1:203:0,203:0:0:203:7100:-636.487,-61.1091,0 0/1:102:53,49:53:1892:49:1703:-122.784,0,-139.853 1/1:150:0,150:0:0:150:5249:-471.813,-45.1545,0 1/1:248:7,240:7:248:240:8504:-739.418,-51.9182,0 0/1:111:62,49:62:2195:49:1706:-119.651,0,-164.401 0/1:215:114,101:114:4043:101:3597:-258.755,0,-299.337 0/1:143:63,80:63:2248:80:2824:-210.12,0,-159.536 0/1:289:145,143:145:5084:143:5032:-364.894,0,-370.904 0/1:19:6,13:6:212:13:451:-35.2002,0,-13.7052 1/1:6:0,6:0:0:6:193:-17.6684,-1.80618,0 0/1:48:27,21:27:940:21:756:-53.8004,0,-70.4614 1/1:202:3,199:3:108:199:6962:-614.703,-50.7329,0 1/1:136:0,136:0:0:136:4706:-423.254,-40.9401,0 0/1:266:118,148:118:4150:148:5189:-386.333,0,-293.607 0/1:113:60,53:60:2121:53:1856:-132.996,0,-157.141 0/1:108:58,50:58:2068:50:1775:-127.031,0,-153.88 0/1:133:75,58:75:2656:58:2058:-144.771,0,-199.061 0/1:154:47,107:47:1667:107:3739:-289.585,0,-103.958 1/1:91:4,87:4:140:87:3085:-264.54,-14.4492,0 1/1:104:0,104:0:0:104:3600:-322.74,-31.3071,0 chr06 9792590 . C G 12447 PASS AB=0.543641;ABP=9.64385;AC=30;AF=0.714286;AN=42;AO=598;CIGAR=1X;DP=782;DPB=782;DPRA=0;EPP=1301.55;EPPR=400.39;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.70071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21374;QR=6540;RO=183;RPL=0;RPP=1301.55;RPPR=400.39;RPR=598;RUN=1;SAF=598;SAP=1301.55;SAR=0;SRF=183;SRP=400.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:0,50:0:0:50:1784:-160.843,-15.0515,0 1/1:57:0,57:0:0:57:2033:-183.24,-17.1587,0 0/1:13:5,8:5:176:8:288:-22.354,0,-12.2716 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 1/1:58:1,57:1:36:57:2021:-178.563,-13.8615,0 0/1:28:17,11:17:608:11:396:-27.5539,0,-46.6232 0/1:50:19,30:19:684:30:1066:-81.1408,0,-46.78 0/1:15:10,5:10:344:5:180:-12.0366,0,-26.7766 0/1:70:31,39:31:1116:39:1404:-105.587,0,-79.6796 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:5:0,5:0:0:5:165:-15.1736,-1.50515,0 0/1:13:9,4:9:316:4:144:-9.40023,0,-24.8655 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:42:26,16:26:928:16:553:-37.4507,0,-71.195 0/1:43:25,18:25:900:18:640:-44.985,0,-68.3767 0/1:45:11,34:11:392:34:1224:-96.9207,0,-22.0737 0/1:39:17,22:17:608:22:792:-59.8655,0,-43.3119 0/1:39:10,29:10:360:29:1040:-82.1742,0,-21.0041 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 1/1:69:0,69:0:0:69:2476:-223.093,-20.7711,0 chr06 9792630 . A G 7914.94 PASS AB=0.432558;ABP=36.9863;AC=12;AF=0.285714;AN=42;AO=376;CIGAR=1X;DP=1565;DPB=1565;DPRA=1.29626;EPP=819.484;EPPR=2565.38;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.649066;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13306;QR=42336;RO=1188;RPL=184;RPP=3.37991;RPPR=3.60252;RPR=192;RUN=1;SAF=184;SAP=3.37991;SAR=192;SRF=583;SRP=3.89497;SRR=605;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:106:106,0:106:3765:0:0:0,-31.9092,-339.05 0/0:102:101,1:101:3627:1:32:0,-27.5057,-323.434 0/1:34:19,15:19:684:15:523:-37.1634,0,-51.6553 0/0:67:67,0:67:2387:0:0:0,-20.169,-215.087 0/0:119:118,1:118:4174:1:36:0,-32.2243,-372.245 0/1:53:25,28:25:888:28:995:-73.9094,0,-64.2844 0/1:86:51,35:51:1811:35:1243:-86.2853,0,-137.382 0/1:79:48,31:48:1720:31:1096:-75.1686,0,-131.304 0/1:113:60,53:60:2152:53:1871:-134.652,0,-159.931 0/1:7:5,2:5:176:2:72:-4.72951,0,-14.0778 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:17:4,13:4:144:13:464:-36.98,0,-8.19611 0/0:62:61,1:61:2181:1:36:0,-15.0656,-192.956 0/0:47:47,0:47:1671:0:0:0,-14.1484,-150.677 0/1:109:49,59:49:1756:59:2090:-155.645,0,-125.6 0/1:61:31,30:31:1112:30:1059:-77.2576,0,-82.0285 0/1:71:49,22:49:1752:22:784:-49.5108,0,-136.591 0/1:150:93,57:93:3319:57:2018:-136.737,0,-253.774 0/1:80:53,27:53:1867:27:951:-61.8219,0,-144.226 0/0:76:76,0:76:2711:0:0:0,-22.8783,-244.234 0/0:118:117,1:117:4155:1:36:0,-31.9233,-370.538 chr06 9855455 . G C 34552.9 PASS AB=0.49925;ABP=3.01681;AC=30;AF=0.714286;AN=42;AO=1676;CIGAR=1X;DP=2347;DPB=2347;DPRA=0;EPP=3642.4;EPPR=1451.4;GTI=0;LEN=1;MEANALT=1;MQM=59.994;MQMR=59.9911;NS=21;NUMALT=1;ODDS=17.7312;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59924;QR=23983;RO=671;RPL=0;RPP=3642.4;RPPR=1451.4;RPR=1676;RUN=1;SAF=1676;SAP=3642.4;SAR=0;SRF=671;SRP=1460.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:163:0,163:0:0:163:5822:-524.079,-49.0679,0 1/1:108:0,108:0:0:108:3876:-349.034,-32.5112,0 0/1:106:47,59:47:1661:59:2116:-158.8,0,-117.862 1/1:136:0,136:0:0:136:4872:-438.633,-40.9401,0 1/1:219:0,219:0:0:219:7848:-706.347,-65.9256,0 0/1:124:63,61:63:2233:61:2180:-159.139,0,-163.905 0/1:181:82,99:82:2921:99:3552:-265.401,0,-208.638 0/1:101:51,50:51:1817:50:1796:-131.518,0,-133.405 0/1:211:118,93:118:4248:93:3336:-236.94,0,-318.979 0/1:25:8,17:8:273:17:600:-46.8034,0,-17.3744 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 0/1:80:39,41:39:1404:41:1447:-106.441,0,-102.577 1/1:94:0,94:0:0:94:3371:-303.605,-28.2968,0 1/1:131:0,131:0:0:131:4661:-419.654,-39.4349,0 0/1:160:82,78:82:2952:78:2784:-202.636,0,-217.748 0/1:86:45,41:45:1607:41:1458:-105.627,0,-119.031 0/1:134:70,64:70:2516:64:2284:-165.484,0,-186.353 0/1:81:41,40:41:1459:40:1409:-102.722,0,-107.222 0/1:45:22,23:22:784:23:820:-60.5762,0,-57.3376 1/1:97:1,96:1:36:96:3436:-305.855,-25.6016,0 1/1:48:2,46:2:72:46:1648:-141.772,-7.61272,0 chr06 9906675 . A G 2109.21 PASS AB=0.41841;ABP=16.8296;AC=12;AF=0.285714;AN=42;AO=100;CIGAR=1X;DP=445;DPB=445;DPRA=0.870146;EPP=3.09716;EPPR=62.2317;GTI=0;LEN=1;MEANALT=1;MQM=59.45;MQMR=59.913;NS=21;NUMALT=1;ODDS=3.93719;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3561;QR=12356;RO=345;RPL=91;RPP=149.02;RPPR=485.952;RPR=9;RUN=1;SAF=46;SAP=4.40004;SAR=54;SRF=187;SRP=8.30366;SRR=158;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.099 0/1:11:6,5:6:212:5:180:-13.2324,0,-16.1135 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:21:12,9:12:424:9:324:-23.1842,0,-32.1748 0/1:22:10,12:10:356:12:424:-31.8728,0,-25.7586 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:7:5,2:5:180:2:68:-4.3505,0,-14.4449 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:21:21,0:21:732:0:0:0,-6.32163,-66.1987 0/1:21:17,4:17:612:4:140:-6.61108,0,-48.9336 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:72:40,32:40:1440:32:1129:-80.2406,0,-108.224 0/1:45:29,16:29:1040:16:576:-38.4656,0,-80.3676 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 chr06 9970661 . A G 13675.9 PASS AB=0.527523;ABP=5.87903;AC=31;AF=0.738095;AN=42;AO=582;CIGAR=1X;DP=788;DPB=788;DPRA=0;EPP=325.508;EPPR=416.265;GTI=0;LEN=1;MEANALT=1;MQM=39.7165;MQMR=59.7379;NS=21;NUMALT=1;ODDS=0.574982;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20714;QR=7384;RO=206;RPL=438;RPP=325.508;RPPR=416.265;RPR=144;RUN=1;SAF=0;SAP=1266.81;SAR=582;SRF=0;SRP=450.334;SRR=206;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40:0:0:40:1416:-117.614,-12.0412,0 1/1:26:0,26:0:0:26:932:-83.7509,-7.82678,0 0/1:31:21,10:21:756:10:360:-20.0104,0,-58.9204 1/1:40:0,40:0:0:40:1425:-119.168,-12.0412,0 1/1:79:0,79:0:0:79:2799:-235.683,-23.7814,0 0/1:37:19,18:19:684:18:648:-47.1958,0,-50.7522 0/1:52:22,30:22:792:30:1067:-79.7809,0,-55.9521 0/1:21:9,12:9:324:12:420:-29.4281,0,-23.1842 0/1:65:32,33:32:1148:33:1163:-76.4889,0,-84.0582 1/1:8:0,8:0:0:8:288:-24.4269,-2.40824,0 1/1:11:0,11:0:0:11:392:-35.2618,-3.31133,0 0/1:6:1,5:1:36:5:180:-13.5318,0,-1.79209 1/1:42:0,42:0:0:42:1489:-124.438,-12.6433,0 1/1:28:0,28:0:0:28:988:-83.6686,-8.42884,0 0/1:37:11,26:11:392:26:928:-66.5321,0,-24.4796 0/1:48:22,26:22:788:26:928:-62.9028,0,-56.7777 0/1:28:17,11:17:604:11:396:-24.5614,0,-46.2618 0/1:74:43,31:43:1536:31:1116:-70.8318,0,-116.257 0/1:37:9,28:9:324:28:1004:-73.4898,0,-18.3677 1/1:31:0,31:0:0:31:1095:-92.6751,-9.33193,0 1/1:47:0,47:0:0:47:1680:-150.144,-14.1484,0 chr06 9970690 . G A 3319.51 PASS AB=0.473563;ABP=5.65101;AC=11;AF=0.261905;AN=42;AO=206;CIGAR=1X;DP=786;DPB=786;DPRA=1.12665;EPP=450.334;EPPR=1262.46;GTI=0;LEN=1;MEANALT=1;MQM=59.6942;MQMR=39.5845;NS=21;NUMALT=1;ODDS=0.596722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7376;QR=20781;RO=580;RPL=206;RPP=450.334;RPPR=1262.46;RPR=0;RUN=1;SAF=0;SAP=450.334;SAR=206;SRF=0;SRP=1262.46;SRR=580;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:37,0:37:1332:0:0:0,-11.1381,-109.8 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.53 0/1:30:9,21:9:324:21:752:-58.8773,0,-17.075 0/0:40:40,0:40:1436:0:0:0,-12.0412,-119.409 0/0:80:80,0:80:2853:0:0:0,-24.0824,-239.25 0/1:35:16,19:16:576:19:684:-51.3543,0,-41.3561 0/1:53:31,22:31:1104:22:784:-54.9288,0,-82.6141 0/1:22:13,9:13:468:9:320:-22.5197,0,-33.073 0/1:64:33,31:33:1180:31:1108:-80.7627,0,-77.9501 0/0:8:8,0:8:280:0:0:0,-2.40824,-23.9425 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.2618 0/1:6:5,1:5:180:1:36:-1.79209,0,-13.5318 0/0:41:41,0:41:1472:0:0:0,-12.3422,-121.416 0/0:29:29,0:29:1040:0:0:0,-8.72987,-87.6394 0/1:39:27,12:27:972:12:432:-27.4763,0,-69.5317 0/1:47:24,23:24:864:23:820:-59.9458,0,-57.4404 0/1:28:11,17:11:396:17:612:-46.9846,0,-24.5614 0/1:73:31,42:31:1108:42:1508:-114.039,0,-70.7605 0/1:38:29,9:29:1040:9:320:-17.7032,0,-76.2003 0/0:32:32,0:32:1152:0:0:0,-9.63296,-97.1368 0/0:48:48,0:48:1716:0:0:0,-14.4494,-153.365 chr06 10186518 . GACATGTC TACGTGTT 9095.15 PASS AB=0.3567;ABP=550.049;AC=10;AF=0.238095;AN=42;AO=1101;CIGAR=1X2M1X3M1X;DP=4050;DPB=4050.12;DPRA=4.57519;EPP=2393.8;EPPR=6382.8;GTI=0;LEN=8;MEANALT=1.64286;MQM=30.0854;MQMR=34.1052;NS=21;NUMALT=1;ODDS=18.615;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=38842;QR=103603;RO=2938;RPL=0;RPP=2393.8;RPPR=6382.8;RPR=1101;RUN=1;SAF=1101;SAP=2393.8;SAR=0;SRF=2938;SRP=6382.8;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:71,2:71:2506:2:63:0,-16.8199,-193.649 0/0:67:66,1:66:2322:1:36:0,-17.2662,-184.113 0/1:91:69,22:69:2444:22:789:-30.3116,0,-167.098 0/0:72:72,0:72:2538:0:0:0,-21.6742,-202.495 0/1:226:114,111:114:4009:111:3879:-218.93,0,-248.585 0/1:131:93,38:93:3288:38:1351:-60.7431,0,-224.249 0/1:271:175,96:175:6175:96:3391:-168.254,0,-419.289 0/1:91:48,43:48:1687:43:1523:-84.6991,0,-108.365 0/0:64:64,0:64:2259:0:0:0,-19.2659,-178.163 0/0:355:354,1:354:12479:1:36:0,-103.963,-1007.82 0/1:441:233,206:233:8194:206:7249:-402.111,0,-530.83 0/1:374:257,115:257:9061:115:4046:-185.818,0,-622.894 0/0:55:55,0:55:1934:0:0:0,-16.5566,-154.8 0/1:144:100,44:100:3501:44:1555:-71.1034,0,-237.031 0/0:69:69,0:69:2421:0:0:0,-20.7711,-193.57 0/0:39:39,0:39:1353:0:0:0,-11.7402,-107.386 0/0:46:46,0:46:1630:0:0:0,-13.8474,-126.723 0/1:1223:819,401:819:28978:401:14183:-674.217,0,-1949.27 0/1:75:56,18:56:1975:18:637:-24.3089,0,-135.47 0/0:89:84,3:84:2957:3:104:0,-18.4187,-230.028 0/0:54:54,0:54:1892:0:0:0,-16.2556,-153.045 chr06 10186529 . GATG AATT 46960.1 PASS AB=0.637134;ABP=504.475;AC=32;AF=0.761905;AN=42;AO=2925;CIGAR=1X2M1X;DP=4054;DPB=4054.25;DPRA=0;EPP=6354.57;EPPR=2428.54;GTI=0;LEN=4;MEANALT=1.47619;MQM=34.1183;MQMR=30.12;NS=21;NUMALT=1;ODDS=16.8679;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=103625;QR=39415;RO=1117;RPL=0;RPP=6354.57;RPPR=2428.54;RPR=2925;RUN=1;SAF=2925;SAP=6354.57;SAR=0;SRF=1117;SRP=2428.54;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:2,69:2:65:69:2425:-186.886,-16.3865,0 1/1:67:1,65:1:36:65:2319:-183.875,-17.224,0 0/1:91:22,69:22:791:69:2458:-167.759,0,-30.3514 1/1:72:0,72:0:0:72:2555:-203.101,-21.6742,0 0/1:226:112,114:112:3922:114:4032:-248.486,0,-221.042 0/1:132:39,93:39:1380:93:3310:-225.155,0,-63.3324 0/1:271:96,174:96:3404:174:6152:-417.025,0,-168.881 0/1:89:43,46:43:1534:46:1639:-105.189,0,-85.4989 1/1:64:0,61:0:0:61:2174:-171.369,-18.3628,0 1/1:356:1,355:1:36:355:12587:-1014.24,-104.264,0 0/1:442:209,231:209:7349:231:8159:-526.45,0,-407.559 0/1:375:118,257:118:4173:257:9108:-624.31,0,-192.351 1/1:55:0,55:0:0:55:1961:-156.061,-16.5567,0 0/1:144:44,100:44:1556:100:3521:-237.494,0,-71.0756 1/1:69:0,69:0:0:69:2450:-194.955,-20.7711,0 1/1:39:0,39:0:0:39:1387:-108.567,-11.7402,0 1/1:46:0,46:0:0:46:1648:-127.244,-13.8474,0 0/1:1225:406,817:406:14312:817:28885:-1941.3,0,-683.385 0/1:75:19,55:19:677:55:1959:-133.261,0,-27.6368 1/1:89:5,84:5:180:84:2978:-226.738,-14.2409,0 1/1:54:0,54:0:0:54:1918:-154.051,-16.2556,0 chr06 10186541 . A G 46951.8 PASS AB=0.669344;ABP=716.397;AC=32;AF=0.761905;AN=42;AO=2872;CIGAR=1X;DP=3833;DPB=3833;DPRA=0;EPP=6239.48;EPPR=2035.83;GTI=0;LEN=1;MEANALT=1.04762;MQM=34.1337;MQMR=30.4115;NS=21;NUMALT=1;ODDS=15.1589;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102481;QR=33793;RO=960;RPL=2867;RPP=6196.13;RPPR=1942.58;RPR=5;RUN=1;SAF=2867;SAP=6196.13;SAR=5;SRF=949;SRP=1993.17;SRR=11;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:1,72:1:36:72:2579:-197.268,-18.3964,0 1/1:66:2,64:2:68:64:2288:-177.252,-14.071,0 0/1:85:18,67:18:625:67:2383:-164.022,0,-20.7459 1/1:72:0,72:0:0:72:2575:-203.251,-21.6742,0 0/1:207:94,113:94:3297:113:4044:-254.095,0,-181.425 0/1:127:34,93:34:1208:93:3328:-227.193,0,-51.9677 0/1:249:81,168:81:2860:168:5984:-409.293,0,-138.415 0/1:83:36,47:36:1256:47:1675:-109.39,0,-68.3862 1/1:63:1,62:1:36:62:2196:-169.917,-15.3666,0 1/1:351:2,349:2:72:349:12518:-1002.95,-101.955,0 0/1:411:184,227:184:6446:227:8113:-528.87,0,-352.378 0/1:353:100,253:100:3548:253:9049:-623.356,0,-153.968 1/1:54:1,53:1:32:53:1899:-147.483,-13.0642,0 0/1:130:35,95:35:1225:95:3389:-231.072,0,-51.9308 1/1:67:1,66:1:36:66:2359:-183.861,-16.5712,0 1/1:39:0,39:0:0:39:1388:-108.659,-11.7402,0 1/1:44:0,43:0:0:43:1536:-119.941,-12.9443,0 0/1:1150:351,799:351:12380:799:28411:-1922.71,0,-564.048 0/1:69:14,55:14:492:55:1979:-136.472,0,-16.1174 1/1:87:4,83:4:144:83:2940:-226.102,-16.2557,0 1/1:53:1,52:1:32:52:1848:-145.321,-12.8519,0 chr06 10186549 . C T 47499.4 PASS AB=0.637512;ABP=496.902;AC=32;AF=0.761905;AN=42;AO=2879;CIGAR=1X;DP=3978;DPB=3978;DPRA=0;EPP=6219.98;EPPR=2389.46;GTI=0;LEN=1;MEANALT=1;MQM=34.2272;MQMR=30.0182;NS=21;NUMALT=1;ODDS=15.7368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102460;QR=39152;RO=1099;RPL=2860;RPP=6090.74;RPPR=2363.47;RPR=19;RUN=1;SAF=2864;SAP=6125.07;SAR=15;SRF=1096;SRP=2363.47;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:1,74:1:36:74:2646:-202.551,-19.6745,0 1/1:67:1,66:1:36:66:2346:-185.261,-17.2662,0 0/1:88:22,66:22:788:66:2376:-161.467,0,-31.1703 1/1:72:0,72:0:0:72:2574:-201.74,-21.6742,0 0/1:224:111,113:111:3936:113:4037:-250.121,0,-217.048 0/1:128:38,90:38:1360:90:3211:-218.054,0,-62.3415 0/1:271:93,178:93:3318:178:6311:-429.022,0,-161.369 0/1:91:43,48:43:1544:48:1683:-107.224,0,-85.2001 1/1:63:0,63:0:0:63:2255:-177.015,-18.9649,0 1/1:349:2,347:2:72:347:12376:-995.29,-101.353,0 0/1:431:205,226:205:7250:226:8051:-517.706,0,-401.507 0/1:367:115,252:115:4100:252:9007:-616.125,0,-187.873 1/1:56:0,56:0:0:56:2003:-159.453,-16.8577,0 0/1:139:43,96:43:1520:96:3423:-230.087,0,-69.5679 1/1:66:0,66:0:0:66:2360:-188.13,-19.868,0 1/1:37:0,37:0:0:37:1332:-103.643,-11.1381,0 1/1:46:0,46:0:0:46:1621:-125.82,-13.8474,0 0/1:1194:401,793:401:14328:793:28114:-1889.4,0,-684.35 0/1:74:19,55:19:684:55:1953:-134.05,0,-28.1944 1/1:88:5,83:5:180:83:2942:-223.572,-13.9399,0 1/1:52:0,52:0:0:52:1839:-149.234,-15.6536,0 chr06 10186553 . A G 9363.05 PASS AB=0.371012;ABP=419.788;AC=10;AF=0.238095;AN=42;AO=1079;CIGAR=1X;DP=3800;DPB=3800;DPRA=4.63514;EPP=2346.03;EPPR=5861.72;GTI=0;LEN=1;MEANALT=1.14286;MQM=30.0639;MQMR=34.2667;NS=21;NUMALT=1;ODDS=11.1452;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38345;QR=95024;RO=2718;RPL=1076;RPP=2320.04;RPPR=5749.76;RPR=3;RUN=1;SAF=1076;SAP=2320.04;SAR=3;SRF=2705;SRP=5792.7;SRR=13;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:71,2:71:2517:2:72:0,-16.4599,-191.963 0/0:63:62,1:62:2128:1:36:0,-16.0621,-170.058 0/1:87:65,22:65:2281:22:792:-31.5754,0,-156.356 0/0:67:67,0:67:2353:0:0:0,-20.169,-186.296 0/1:213:103,110:103:3619:110:3911:-220,0,-223.099 0/1:124:85,39:85:2972:39:1379:-65.5385,0,-204.005 0/1:252:162,90:162:5674:90:3198:-158.906,0,-387.122 0/1:85:42,43:42:1480:43:1544:-87.0063,0,-94.7898 0/0:60:60,0:60:2093:0:0:0,-18.0618,-165.914 0/0:334:332,1:332:11649:1:36:0,-97.5793,-940.542 0/1:406:206,199:206:7152:199:7075:-394.73,0,-460.44 0/1:345:230,115:230:8086:115:4120:-195.502,0,-553.176 0/0:49:48,0:48:1674:0:0:0,-14.4494,-135.473 0/1:131:89,42:89:3104:42:1497:-69.8093,0,-208.564 0/0:63:63,0:63:2228:0:0:0,-18.9649,-179.123 0/0:35:35,0:35:1232:0:0:0,-10.536,-96.6668 0/0:44:44,0:44:1535:0:0:0,-13.2453,-119.634 0/1:1171:780,391:780:27189:391:13825:-660.036,0,-1831.49 0/1:70:51,19:51:1773:19:680:-29.2944,0,-121.322 0/0:76:71,5:71:2450:5:180:0,-10.3275,-185.19 0/0:52:52,0:52:1835:0:0:0,-15.6536,-147.8 chr06 10186555 . C T 45934.6 PASS AB=0.635852;ABP=486.807;AC=32;AF=0.761905;AN=42;AO=2877;CIGAR=1X;DP=3995;DPB=3995;DPRA=0;EPP=6250.34;EPPR=2422.04;GTI=0;LEN=1;MEANALT=1;MQM=34.114;MQMR=30.3989;NS=21;NUMALT=1;ODDS=10.8809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102196;QR=39400;RO=1118;RPL=2874;RPP=6224.31;RPPR=2302.18;RPR=3;RUN=1;SAF=2874;SAP=6224.31;SAR=3;SRF=1104;SRP=2310.64;SRR=14;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:3,70:3:100:70:2497:-184.877,-13.4119,0 1/1:68:2,66:2:72:66:2364:-182.81,-14.2941,0 0/1:90:22,68:22:788:68:2444:-166.195,0,-30.5683 1/1:73:2,71:2:72:71:2506:-194.475,-17.6453,0 0/1:225:115,110:115:4043:110:3925:-239.486,0,-228.705 0/1:130:38,92:38:1351:92:3231:-220.236,0,-61.3882 0/1:270:99,171:99:3462:171:6057:-408.401,0,-176.779 0/1:90:43,47:43:1517:47:1653:-105.557,0,-84.4192 1/1:63:1,62:1:36:62:2215:-170.254,-15.3666,0 1/1:352:2,350:2:72:350:12488:-1001.86,-102.256,0 0/1:431:203,228:203:7144:228:8128:-523.679,0,-394.18 0/1:367:114,253:114:4044:253:9011:-616.762,0,-184.485 1/1:54:1,53:1:36:53:1896:-147.065,-12.6769,0 0/1:140:43,97:43:1523:97:3451:-232.613,0,-70.3531 1/1:68:2,66:2:57:66:2332:-180.757,-15.0572,0 1/1:38:0,38:0:0:38:1352:-105.697,-11.4391,0 1/1:46:0,46:0:0:46:1652:-127.502,-13.8474,0 0/1:1200:403,797:403:14196:797:28196:-1893.68,0,-682.885 0/1:75:19,56:19:675:56:1988:-135.849,0,-27.5504 1/1:88:5,83:5:176:83:2943:-223.147,-13.9819,0 1/1:54:1,53:1:36:53:1867:-147.859,-12.868,0 chr06 10186563 . ATGT GTGC 8208.39 PASS AB=0.355043;ABP=549.45;AC=10;AF=0.238095;AN=42;AO=1072;CIGAR=1X2M1X;DP=3977;DPB=3981.25;DPRA=4.49623;EPP=2330.83;EPPR=6252.51;GTI=0;LEN=4;MEANALT=1.92857;MQM=29.9804;MQMR=34.3241;NS=21;NUMALT=1;ODDS=17.7123;PAIRED=0;PAIREDR=0;PAO=17;PQA=588;PQR=0;PRO=0;QA=35764;QR=98189;RO=2882;RPL=1069;RPP=2304.84;RPPR=6217.84;RPR=3;RUN=1;SAF=1069;SAP=2304.84;SAR=3;SRF=2876;SRP=6209.19;SRR=6;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:73,2:73:2533:2:57:0,-18.147,-193.72 0/0:67:65,1:65:2181:1:35:0,-17.3112,-175.985 0/1:91:69,22:69:2370:22:760:-29.5333,0,-163.488 0/0:72:72,0:72:2464:0:0:0,-21.6742,-197.378 0/1:219:111,107:111:3803:107:3559:-201.284,0,-238.908 0/1:126:90,35:90:3123:35:1187:-51.92,0,-216.065 0/1:265:171,91:171:5745:91:3028:-150.867,0,-396.015 0/1:90:46,43:46:1545:43:1431:-81.4631,0,-100.51 0/0:65:65,0:65:2237:0:0:0,-19.5669,-178.811 0/0:352:349,1:349:11964:1:34:0,-102.763,-978.208 0/1:431:227,201:227:7626:201:6753:-380.408,0,-499.911 0/1:368:254,113:254:8756:113:3756:-174.005,0,-606.358 0/0:55:54,0:54:1820:0:0:0,-16.2556,-147.417 0/1:141:98,43:98:3290:43:1438:-66.6822,0,-225.887 0/0:70:70,0:70:2384:0:0:0,-21.0721,-193.377 0/0:36:36,0:36:1230:0:0:0,-10.8371,-99.3923 0/0:45:45,0:45:1563:0:0:0,-13.5463,-122.786 0/1:1188:794,389:794:26962:389:12912:-623.713,0,-1842.69 0/1:75:56,19:56:1956:19:646:-26.6852,0,-134.424 0/0:88:83,5:83:2821:5:168:0,-14.1525,-218.115 0/0:55:54,0:54:1816:0:0:0,-16.2556,-148.385 chr06 10186570 . G A 44895.4 PASS AB=0.639876;ABP=495.671;AC=32;AF=0.761905;AN=42;AO=2782;CIGAR=1X;DP=3848;DPB=3848;DPRA=0;EPP=6026.69;EPPR=2174.4;GTI=1;LEN=1;MEANALT=1.14286;MQM=34.2883;MQMR=30.223;NS=21;NUMALT=1;ODDS=24.2419;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98961;QR=37679;RO=1063;RPL=2782;RPP=6044.05;RPPR=2311.29;RPR=0;RUN=1;SAF=2780;SAP=6026.69;SAR=2;SRF=1047;SRP=2174.4;SRR=16;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:8,66:8:279:66:2358:-166.629,-3.53271,0 1/1:63:2,61:2:68:61:2172:-169.165,-13.1679,0 0/1:84:22,62:22:775:62:2212:-151.006,0,-31.9276 1/1:72:0,72:0:0:72:2534:-200.074,-21.6742,0 0/1:211:104,107:104:3658:107:3774:-235.252,0,-203.465 0/1:121:34,87:34:1208:87:3112:-213.236,0,-52.7125 0/1:264:96,168:96:3424:168:6008:-405.227,0,-173.347 0/1:85:41,44:41:1451:44:1555:-100.685,0,-81.0575 1/1:63:1,62:1:36:62:2199:-169.533,-15.3666,0 1/1:344:1,343:1:36:343:12202:-984.553,-100.652,0 0/1:417:198,219:198:7036:219:7808:-505.723,0,-388.567 0/1:355:111,243:111:3945:243:8597:-591.046,0,-180.785 1/1:53:1,52:1:36:52:1860:-145.485,-12.3758,0 0/1:131:42,89:42:1452:89:3168:-212.868,0,-69.2165 1/1:65:1,64:1:36:64:2267:-177.644,-15.9691,0 1/1:35:0,34:0:0:34:1197:-95.1103,-10.235,0 1/1:41:0,41:0:0:41:1454:-113.775,-12.3422,0 0/1:1156:376,780:376:13360:780:27765:-1875.06,0,-628.577 0/1:75:19,56:19:667:56:1999:-136.506,0,-27.3421 1/1:84:5,79:5:176:79:2816:-214.753,-12.8416,0 1/1:54:1,53:1:36:53:1904:-148.913,-12.868,0 chr06 10262108 . A C 18241.8 PASS AB=0.566372;ABP=24.6289;AC=30;AF=0.714286;AN=42;AO=854;CIGAR=1X;DP=1105;DPB=1105;DPRA=0;EPP=1797.14;EPPR=530.817;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.39321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30616;QR=9016;RO=251;RPL=9;RPP=1780.1;RPPR=530.817;RPR=845;RUN=1;SAF=2;SAP=1840.12;SAR=852;SRF=0;SRP=548.05;SRR=251;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:2,67:2:72:67:2384:-207.979,-13.9343,0 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 0/1:25:14,11:14:504:11:396:-28.457,0,-38.1723 1/1:86:1,85:1:36:85:3044:-270.591,-22.2903,0 1/1:144:0,144:0:0:144:5161:-464.629,-43.3483,0 0/1:35:17,18:17:612:18:640:-47.3933,0,-44.8774 0/1:32:15,17:15:540:17:612:-45.7805,0,-39.3036 0/1:91:31,60:31:1112:60:2156:-166.913,0,-72.9976 0/1:60:22,38:22:792:38:1364:-104.999,0,-53.5439 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:19:6,13:6:216:13:468:-36.7401,0,-14.0709 1/1:57:0,57:0:0:57:2043:-184.142,-17.1587,0 1/1:57:3,54:3:104:54:1936:-164.814,-7.4559,0 0/1:111:56,55:56:2012:55:1972:-144.341,0,-147.939 0/1:49:22,27:22:792:27:968:-72.6869,0,-56.8552 0/1:40:16,24:16:576:24:860:-65.6806,0,-40.1338 0/1:64:32,32:32:1144:32:1152:-84.7242,0,-84.0036 0/1:32:11,21:11:396:21:756:-58.7343,0,-26.3498 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 chr06 10282177 . CTCCTGCA GTCCTGCT,GTCCAGCT 34360.9 PASS AB=0.483715,0.505428;ABP=4.91983,3.22247;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1193,424;CIGAR=1X6M1X,1X3M1X2M1X;DP=1634;DPB=1634;DPRA=0,1.50467;EPP=2550.33,915.049;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.57143,2.9375;MQM=59.9371,59.6627;MQMR=0;NS=21;NUMALT=2;ODDS=10.021;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42356,14790;QR=0;RO=0;RPL=5,1;RPP=2550.33,915.049;RPPR=0;RPR=1188,423;RUN=1,1;SAF=1193,424;SAP=2593.58,923.715;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,78,1:0:0:78,1:2783,36:-250.356,-23.4803,0,-247.418,-20.5379,-247.117 1/1:93:0,92,1:0:0:92,1:3284,36:-295.419,-27.6948,0,-292.481,-24.3975,-292.18 1/2:45:0,24,20:0:0:24,20:847,678:-123.935,-54.9567,-47.7319,-68.9647,0,-62.9441 1/1:106:0,104,1:0:0:104,1:3692,36:-332.105,-31.3071,0,-329.168,-28.3697,-328.867 1/1:245:0,239,2:0:0:239,2:8492,65:-763.983,-71.9462,0,-758.738,-66.6876,-758.136 1/2:50:0,27,23:0:0:27,23:952,806:-143.436,-65.9201,-57.7923,-77.8674,0,-70.9437 1/2:109:0,53,56:0:0:53,56:1860,1976:-312.615,-161.254,-145.299,-151.713,0,-134.856 1/2:74:0,35,38:0:0:35,38:1252,1321:-209.519,-107.424,-96.8882,-102.136,0,-90.6969 1/2:121:0,75,45:0:0:75,45:2671,1542:-342.862,-125.151,-102.574,-217.699,0,-204.152 1/2:10:0,6,4:0:0:6,4:209,143:-29.0076,-12.0173,-10.2111,-17.3439,0,-16.1398 1/1:8:0,8,0:0:0:8,0:269,0:-24.5372,-2.40824,0,-24.5372,-2.40824,-24.5372 1/2:16:0,4,12:0:0:4,12:140,426:-46.4509,-35.0619,-33.8578,-11.7401,0,-8.12773 1/1:104:0,103,0:0:0:103,0:3663,0:-329.498,-31.0061,0,-329.498,-31.0061,-329.498 1/1:73:0,72,0:0:0:72,0:2530,0:-227.591,-21.6742,0,-227.591,-21.6742,-227.591 1/2:126:0,52,72:0:0:52,72:1860,2524:-357.097,-205.425,-189.772,-151.714,0,-130.04 1/2:85:0,31,53:0:0:31,53:1099,1853:-240.384,-150.848,-141.516,-89.6633,0,-73.7087 1/2:66:0,31,34:0:0:31,34:1112,1178:-186.538,-95.8297,-86.4977,-90.8025,0,-80.5675 1/2:91:0,42,48:0:0:42,48:1476,1681:-256.882,-136.744,-124.101,-120.129,0,-105.679 1/2:36:0,21,14:0:0:21,14:748,489:-100.739,-39.7676,-33.4459,-60.964,0,-56.7496 1/1:58:0,58,0:0:0:58,0:2080,0:-187.47,-17.4597,0,-187.47,-17.4597,-187.47 1/1:38:0,38,0:0:0:38,0:1337,0:-120.62,-11.4391,0,-120.62,-11.4391,-120.62 chr06 10480353 . G C 9939.08 PASS AB=0.50423;ABP=3.19401;AC=12;AF=0.285714;AN=42;AO=599;CIGAR=1X;DP=1839;DPB=1839;DPRA=1.77599;EPP=1303.72;EPPR=2686.95;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.41867;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21303;QR=44039;RO=1236;RPL=599;RPP=1303.72;RPPR=2686.95;RPR=0;RUN=1;SAF=599;SAP=1303.72;SAR=0;SRF=1236;SRP=2686.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:86:84,2:84:3003:2:72:0,-19.0519,-263.664 0/0:37:36,0:36:1284:0:0:0,-10.8371,-115.504 0/1:75:41,34:41:1472:34:1207:-86.358,0,-110.199 0/0:82:82,0:82:2936:0:0:0,-24.6845,-264.474 0/0:167:166,1:166:5888:1:36:0,-46.6737,-526.434 0/1:92:42,50:42:1472:50:1796:-134.228,0,-105.077 0/1:106:47,59:47:1679:59:2093:-156.729,0,-119.487 0/1:94:44,50:44:1560:50:1800:-133.985,0,-112.392 0/1:132:68,63:68:2444:63:2239:-161.978,0,-180.42 0/1:14:5,9:5:180:9:315:-24.4728,0,-12.3376 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:19:13,6:13:468:6:207:-13.2473,0,-36.7401 0/0:57:56,0:56:2004:0:0:0,-16.8577,-180.274 0/0:81:80,0:80:2860:0:0:0,-24.0824,-257.278 0/1:229:89,140:89:3188:140:5000:-381.212,0,-218.208 0/1:69:39,30:39:1392:30:1076:-76.3818,0,-104.808 0/1:53:32,21:32:1152:21:718:-48.9794,0,-88.0356 0/1:227:114,113:114:4039:113:3988:-290.777,0,-295.365 0/1:72:51,21:51:1795:21:756:-46.6931,0,-140.155 0/0:80:80,0:80:2851:0:0:0,-24.0824,-256.828 0/0:56:56,0:56:1976:0:0:0,-16.8577,-178.112 chr06 10480418 . A G 7882.06 PASS AB=0.479301;ABP=7.05559;AC=12;AF=0.285714;AN=42;AO=523;CIGAR=1X;DP=1847;DPB=1847;DPRA=1.50325;EPP=1130.02;EPPR=2875.87;GTI=0;LEN=1;MEANALT=1.07143;MQM=40.13;MQMR=54.3182;NS=21;NUMALT=1;ODDS=11.985;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18672;QR=47059;RO=1323;RPL=1;RPP=1130.02;RPPR=2875.87;RPR=522;RUN=1;SAF=0;SAP=1138.69;SAR=523;SRF=0;SRP=2875.87;SRR=1323;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2274:0:0:0,-19.2659,-203.522 0/0:81:81,0:81:2883:0:0:0,-24.3834,-257.903 0/1:119:60,59:60:2144:59:2109:-146.985,0,-157.14 0/0:116:116,0:116:4130:0:0:0,-34.9195,-369.597 0/0:173:171,1:171:6092:1:36:0,-48.5458,-543.542 0/1:109:49,60:49:1748:60:2152:-146.633,0,-123.905 0/1:134:60,74:60:2134:74:2652:-183.238,0,-151.327 0/1:93:46,47:46:1644:47:1651:-112.007,0,-120.022 0/1:164:95,69:95:3368:69:2484:-170.009,0,-253.579 0/1:13:6,7:6:216:7:248:-17.6833,0,-15.8454 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.1616 0/1:39:20,19:20:716:19:684:-47.6771,0,-52.9417 0/0:126:125,1:125:4468:1:36:0,-34.4271,-397.753 0/0:93:93,0:93:3289:0:0:0,-27.9958,-295.254 0/1:89:37,52:37:1328:52:1852:-132.849,0,-92.7789 0/1:36:22,14:22:773:14:504:-32.7878,0,-58.9952 0/1:61:24,37:24:841:37:1320:-97.6833,0,-57.6144 0/1:68:34,34:34:1220:34:1204:-83.3566,0,-89.2112 0/1:162:113,49:113:4035:49:1740:-102.292,0,-313.781 0/0:52:52,0:52:1810:0:0:0,-15.6536,-162.457 0/0:46:46,0:46:1622:0:0:0,-13.8474,-145.823 chr06 10517852 . TTCGTGA ATGGTGA,ATGGTGG 14210.5 PASS AB=0.463303,0.527523;ABP=8.11027,5.87903;AC=30,12;AF=0.714286,0.285714;AN=42;AO=493,230;CIGAR=1X1M1X4M,1X1M1X3M1X;DP=732;DPB=732;DPRA=0,1.10473;EPP=1064.88,502.449;EPPR=0;GTI=0;LEN=7,7;MEANALT=1.95238,2.33333;MQM=59,49.987;MQMR=0;NS=21;NUMALT=2;ODDS=1.35571;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=16865,7822;QR=0;RO=0;RPL=1,0;RPP=1064.88,502.449;RPPR=0;RPR=492,230;RUN=1,1;SAF=0,0;SAP=1073.55,502.449;SAR=493,230;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:26:0,26,0:0:0:26,0:853,0:-77.048,-7.82678,0,-77.048,-7.82678,-77.048 1/1:25:0,23,0:0:0:23,0:796,0:-71.6578,-6.92369,0,-71.6578,-6.92369,-71.6578 1/2:34:0,18,16:0:0:18,16:630,555:-96.2458,-44.9857,-39.5672,-51.6065,0,-46.7901 1/1:21:0,21,0:0:0:21,0:723,0:-65.37,-6.32163,0,-65.37,-6.32163,-65.37 1/1:75:0,74,0:0:0:74,0:2504,0:-225.137,-22.2762,0,-225.137,-22.2762,-225.137 1/2:26:0,12,14:0:0:12,14:409,469:-71.0791,-37.9214,-34.3091,-33.4941,0,-29.2796 1/2:46:0,25,19:0:0:25,19:848,642:-120.545,-51.779,-44.2532,-68.7962,0,-63.0767 1/2:25:0,11,14:0:0:11,14:357,466:-66.5292,-37.7662,-34.4548,-29.0899,0,-24.8755 1/2:68:0,33,34:0:0:33,34:1152,1161:-187.839,-94.2219,-84.2879,-93.651,0,-83.416 1/2:8:0,2,6:0:0:2,6:72,209:-23.138,-17.2599,-16.6578,-6.23466,0,-4.42848 1/1:4:0,4,0:0:0:4,0:134,0:-12.3822,-1.20412,0,-12.3822,-1.20412,-12.3822 1/2:27:0,11,16:0:0:11,16:378,533:-73.9872,-43.2873,-39.9759,-31.0387,0,-26.2222 1/1:43:0,41,0:0:0:41,0:1432,0:-128.898,-12.3422,0,-128.898,-12.3422,-128.898 1/1:42:0,42,0:0:0:42,0:1432,0:-129.13,-12.6433,0,-129.13,-12.6433,-129.13 1/2:75:0,28,46:0:0:28,46:975,1572:-204.274,-125.035,-116.606,-79.2256,0,-65.3782 1/2:19:0,5,14:0:0:5,14:169,464:-51.4529,-37.7764,-36.2712,-14.0121,0,-9.79771 1/2:29:0,16,13:0:0:16,13:539,439:-79.5827,-35.9075,-31.091,-44.0123,0,-40.0989 1/2:64:0,28,36:0:0:28,36:970,1243:-178.5,-99.6619,-91.2331,-79.1814,0,-68.3443 1/2:15:0,13,2:0:0:13,2:447,69:-42.223,-5.92254,-2.00915,-36.6439,0,-36.0419 1/1:46:0,46,0:0:0:46,0:1564,0:-140.67,-13.8474,0,-140.67,-13.8474,-140.67 1/1:14:0,14,0:0:0:14,0:481,0:-43.3046,-4.21442,0,-43.3046,-4.21442,-43.3046 chr06 10519277 . A G 10852 PASS AB=0.487313;ABP=4.8836;AC=12;AF=0.285714;AN=42;AO=656;CIGAR=1X;DP=2353;DPB=2353;DPRA=1.12298;EPP=1427.5;EPPR=3670.65;GTI=0;LEN=1;MEANALT=1;MQM=59.997;MQMR=59.98;NS=21;NUMALT=1;ODDS=16.178;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23387;QR=59969;RO=1697;RPL=0;RPP=1427.5;RPPR=3670.65;RPR=656;RUN=1;SAF=656;SAP=1427.5;SAR=0;SRF=1697;SRP=3688;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:153:152,1:152:5365:1:36:0,-42.4593,-479.384 0/0:66:66,0:66:2345:0:0:0,-19.868,-211.308 0/1:131:62,69:62:2175:69:2476:-183.658,0,-156.577 0/0:124:123,1:123:4346:1:36:0,-33.7294,-387.719 0/0:210:210,0:210:7393:0:0:0,-63.2163,-665.417 0/1:124:69,55:69:2430:55:1972:-140.427,0,-180.998 0/1:142:73,69:73:2559:69:2446:-177.647,0,-187.811 0/1:214:122,92:122:4311:92:3292:-232.079,0,-323.746 0/1:164:86,78:86:2980:78:2776:-200.71,0,-219.06 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/0:12:12,0:12:424:0:0:0,-3.61236,-38.4964 0/1:32:20,12:20:720:12:423:-28.7721,0,-55.4958 0/0:155:155,0:155:5469:0:0:0,-46.6596,-492.338 0/0:129:129,0:129:4601:0:0:0,-38.8329,-414.254 0/1:190:81,109:81:2885:109:3901:-294.086,0,-202.69 0/1:77:31,46:31:1116:46:1636:-124.347,0,-77.5724 0/1:90:51,39:51:1791:39:1381:-97.4941,0,-134.374 0/1:103:47,56:47:1676:56:1992:-148.548,0,-120.121 0/1:67:43,24:43:1540:24:840:-55.7478,0,-118.724 0/0:118:117,1:117:4131:1:36:0,-31.9233,-368.376 0/0:46:46,0:46:1640:0:0:0,-13.8474,-147.889 chr06 10519319 . T G 33583.6 PASS AB=0.508296;ABP=3.8029;AC=30;AF=0.714286;AN=42;AO=1662;CIGAR=1X;DP=2320;DPB=2320;DPRA=0;EPP=3612;EPPR=1427.5;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9795;MQMR=60;NS=21;NUMALT=1;ODDS=12.992;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58724;QR=23197;RO=656;RPL=1662;RPP=3612;RPPR=1427.5;RPR=0;RUN=1;SAF=1662;SAP=3612;SAR=0;SRF=656;SRP=1427.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:1,150:1:36:150:5267:-470.574,-41.8573,0 1/1:67:0,66:0:0:66:2321:-208.789,-19.868,0 0/1:134:69,65:69:2440:65:2279:-165.032,0,-179.516 1/1:120:1,118:1:36:118:4191:-373.776,-32.5841,0 1/1:202:0,202:0:0:202:7166:-645.003,-60.8081,0 0/1:124:56,68:56:1975:68:2403:-178.572,0,-140.697 0/1:137:69,68:69:2398:68:2376:-172.856,0,-174.835 0/1:213:92,121:92:3256:121:4285:-321.709,0,-229.142 0/1:158:77,81:77:2715:81:2883:-212.144,0,-197.03 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:32:12,20:12:423:20:711:-54.6827,0,-28.7721 1/1:156:0,156:0:0:156:5531:-497.919,-46.9607,0 1/1:127:1,126:1:36:126:4456:-397.613,-34.6325,0 0/1:187:109,78:109:3869:78:2731:-189.741,0,-292.114 0/1:77:46,31:46:1635:31:1112:-77.212,0,-124.259 0/1:91:38,53:38:1352:53:1887:-142.714,0,-94.5866 0/1:103:57,46:57:2022:46:1593:-112.648,0,-151.246 0/1:64:23,41:23:824:41:1451:-111.619,0,-55.2174 1/1:116:1,115:1:36:115:4079:-363.701,-31.3212,0 1/1:46:0,46:0:0:46:1606:-144.828,-13.8474,0 chr06 10548089 . 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T C 24578 PASS AB=0.446049;ABP=32.767;AC=30;AF=0.714286;AN=42;AO=1233;CIGAR=1X;DP=1890;DPB=1890;DPRA=0;EPP=2680.44;EPPR=1429.67;GTI=1;LEN=1;MEANALT=1;MQM=59.9684;MQMR=60;NS=21;NUMALT=1;ODDS=5.01746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43984;QR=23518;RO=657;RPL=0;RPP=2680.44;RPPR=1429.67;RPR=1233;RUN=1;SAF=0;SAP=2680.44;SAR=1233;SRF=0;SRP=1429.67;SRR=657;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:96:1,95:1:36:95:3379:-300.729,-25.3006,0 1/1:62:1,61:1:36:61:2184:-193.228,-15.0656,0 0/1:170:101,69:101:3615:69:2472:-171.559,0,-274.38 1/1:65:0,65:0:0:65:2310:-208.16,-19.567,0 1/1:142:1,141:1:36:141:5047:-450.772,-39.148,0 0/1:57:19,38:19:680:38:1364:-105.902,0,-44.3705 0/1:149:79,70:79:2836:70:2492:-179.677,0,-210.625 0/1:108:71,37:71:2531:37:1328:-87.311,0,-195.53 0/1:196:134,62:134:4796:62:2194:-138.722,0,-372.794 0/1:11:6,5:6:216:5:176:-12.8737,0,-16.4792 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:29:18,11:18:640:11:388:-26.5275,0,-49.1994 1/1:135:0,135:0:0:135:4806:-432.697,-40.6391,0 1/1:89:1,88:1:36:88:3144:-279.586,-23.1934,0 0/1:187:102,85:102:3664:85:3034:-216.997,0,-273.67 0/1:42:20,22:20:712:22:786:-58.4209,0,-51.7634 0/1:84:49,35:49:1752:35:1248:-87.3384,0,-132.678 0/1:76:33,43:33:1184:43:1544:-116.375,0,-83.99 0/1:68:20,48:20:712:48:1706:-132.983,0,-43.9366 1/1:57:1,56:1:36:56:2003:-176.945,-13.5604,0 1/1:63:0,63:0:0:63:2235:-201.414,-18.9649,0 chr06 10675079 . 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C T 22132.3 PASS AB=0.54125;ABP=14.834;AC=30;AF=0.714286;AN=42;AO=1070;CIGAR=1X;DP=1441;DPB=1441;DPRA=0;EPP=2326.49;EPPR=808.627;GTI=0;LEN=1;MEANALT=1;MQM=59.9841;MQMR=59.9569;NS=21;NUMALT=1;ODDS=4.38588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38291;QR=13288;RO=371;RPL=0;RPP=2326.49;RPPR=808.627;RPR=1070;RUN=1;SAF=1070;SAP=2326.49;SAR=0;SRF=371;SRP=808.627;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,81:0:0:81:2904:-261.595,-24.3834,0 1/1:22:0,22:0:0:22:762:-68.8951,-6.62266,0 0/1:24:6,18:6:212:18:640:-50.7046,0,-12.2001 1/1:86:0,86:0:0:86:3061:-275.718,-25.8886,0 1/1:127:1,126:1:32:126:4486:-400.708,-35.0315,0 0/1:81:49,32:49:1752:32:1137:-78.2535,0,-133.581 0/1:146:76,70:76:2708:70:2508:-182.022,0,-200.014 0/1:80:34,46:34:1216:46:1652:-124.886,0,-85.6642 0/1:121:53,68:53:1904:68:2444:-183.79,0,-135.213 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 1/1:102:1,101:1:36:101:3605:-321.057,-27.1068,0 1/1:61:0,61:0:0:61:2196:-197.905,-18.3628,0 0/1:88:38,50:38:1364:50:1800:-135.792,0,-96.5701 0/1:74:26,48:26:936:48:1728:-133.529,0,-62.2271 0/1:66:34,32:34:1224:32:1139:-82.9512,0,-90.5991 0/1:41:23,18:23:824:18:648:-46.2397,0,-62.1411 0/1:59:21,38:21:756:38:1357:-104.669,0,-50.6065 1/1:97:1,96:1:36:96:3456:-307.653,-25.6016,0 1/1:56:1,55:1:36:55:1976:-174.516,-13.2594,0 chr06 10675208 . C T 51186.6 PASS AB=0.536735;ABP=20.2403;AC=30;AF=0.714286;AN=42;AO=1923;CIGAR=1X;DP=2609;DPB=2609;DPRA=0;EPP=47.7282;EPPR=10.3034;GTI=0;LEN=1;MEANALT=1;MQM=59.9709;MQMR=59.9767;NS=21;NUMALT=1;ODDS=20.9054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68619;QR=24144;RO=686;RPL=1920;RPP=4152.73;RPPR=1466.7;RPR=3;RUN=1;SAF=1058;SAP=45.0723;SAR=865;SRF=364;SRP=8.59409;SRR=322;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:134:0,134:0:0:134:4790:-431.256,-40.338,0 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 0/1:56:17,39:17:594:39:1396:-109.081,0,-36.9279 1/1:126:0,126:0:0:126:4465:-402.021,-37.9298,0 1/1:262:2,260:2:68:260:9268:-827.62,-72.4122,0 0/1:123:66,57:66:2334:57:2048:-147.547,0,-173.29 0/1:242:129,113:129:4521:113:4037:-290.669,0,-334.215 0/1:185:81,104:81:2836:104:3695:-277.062,0,-199.787 0/1:201:94,107:94:3276:107:3836:-284.929,0,-234.552 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:25:9,16:9:315:16:576:-44.6492,0,-21.1615 1/1:130:1,129:1:36:129:4560:-406.966,-35.5356,0 1/1:149:0,149:0:0:149:5298:-476.931,-44.8535,0 0/1:220:100,120:100:3564:120:4281:-319.239,0,-254.74 0/1:87:31,56:31:1063:56:1990:-153.183,0,-69.7605 0/1:101:52,49:52:1855:49:1756:-127.92,0,-136.825 0/1:100:51,49:51:1795:49:1744:-127.112,0,-131.726 0/1:113:44,69:44:1563:69:2480:-189.437,0,-106.945 1/1:165:1,164:1:36:164:5876:-525.352,-46.0717,0 1/1:102:1,101:1:36:101:3615:-321.957,-27.1068,0 chr06 10675933 . T A 2742.52 PASS AB=0.488701;ABP=3.40288;AC=12;AF=0.285714;AN=42;AO=173;CIGAR=1X;DP=558;DPB=558;DPRA=1.30147;EPP=378.675;EPPR=839.027;GTI=0;LEN=1;MEANALT=1;MQM=59.9364;MQMR=59.9766;NS=21;NUMALT=1;ODDS=4.86744;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6145;QR=13748;RO=385;RPL=0;RPP=378.675;RPPR=839.027;RPR=173;RUN=1;SAF=0;SAP=378.675;SAR=173;SRF=0;SRP=839.027;SRR=385;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:20:20,0:20:707:0:0:0,-6.0206,-63.9546 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8481 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 0/1:14:4,10:4:144:10:344:-27.0729,0,-9.0992 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/1:18:9,9:9:309:9:324:-24.0873,0,-22.7222 0/1:94:52,42:52:1864:42:1495:-106.547,0,-139.743 0/0:77:77,0:77:2749:0:0:0,-23.1793,-247.651 0/1:34:12,22:12:432:22:788:-61.0098,0,-28.9862 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:8:4,4:4:144:4:140:-10.5363,0,-10.9054 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:129:75,54:75:2663:54:1911:-133.434,0,-201.083 0/1:6:3,3:3:108:3:99:-7.4304,0,-8.26899 0/0:15:15,0:15:532:0:0:0,-4.51545,-48.2131 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 chr06 10688138 . A G 15696.5 PASS AB=0.49569;ABP=3.16006;AC=30;AF=0.714286;AN=42;AO=799;CIGAR=1X;DP=1269;DPB=1269;DPRA=0;EPP=1660.72;EPPR=251.685;GTI=1;LEN=1;MEANALT=1;MQM=59.2478;MQMR=59.9957;NS=21;NUMALT=1;ODDS=0.339179;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28406;QR=16757;RO=470;RPL=790;RPP=1660.72;RPPR=997.711;RPR=9;RUN=1;SAF=0;SAP=1738.02;SAR=799;SRF=116;SRP=264.714;SRR=354;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:18:0,18:0:0:18:615:-55.5644,-5.41854,0 1/1:13:0,13:0:0:13:438:-39.7349,-3.91339,0 0/1:18:15,3:15:540:3:104:-4.28427,0,-43.518 1/1:16:1,15:1:36:15:536:-44.948,-1.21821,0 1/1:39:0,39:0:0:39:1400:-126.253,-11.7402,0 0/1:30:18,12:18:648:12:428:-29.827,0,-49.621 0/1:28:19,9:19:684:9:324:-21.0317,0,-53.4615 0/1:31:14,17:14:500:17:597:-44.7073,0,-36.0042 0/1:36:21,15:21:735:15:540:-37.9084,0,-55.6343 0/1:181:82,99:82:2936:99:3544:-264.45,0,-209.987 1/1:146:0,146:0:0:146:5213:-469.147,-43.9504,0 0/1:102:31,71:31:1091:71:2517:-195.885,0,-67.7937 1/1:28:0,28:0:0:28:982:-88.674,-8.42884,0 1/1:22:0,22:0:0:22:780:-70.523,-6.62266,0 0/1:31:15,16:15:532:16:572:-42.4781,0,-38.8812 0/1:17:14,3:14:504:3:108:-4.95766,0,-40.5806 0/1:17:14,3:14:500:3:108:-4.95766,0,-40.2187 0/1:370:189,181:189:6727:181:6447:-468.684,0,-494.123 0/1:67:36,31:36:1288:31:1116:-80.5827,0,-96.0546 1/1:12:1,11:1:36:11:381:-30.995,-0.0140851,0 1/1:47:0,47:0:0:47:1656:-149.19,-14.1484,0 chr06 10909054 . G A 7310.72 PASS AB=0.543506;ABP=16.0473;AC=12;AF=0.285714;AN=42;AO=434;CIGAR=1X;DP=1413;DPB=1413;DPRA=0.911369;EPP=945.429;EPPR=2128.88;GTI=0;LEN=1;MEANALT=1;MQM=59.9078;MQMR=59.9612;NS=21;NUMALT=1;ODDS=6.14043;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15402;QR=34747;RO=979;RPL=0;RPP=945.429;RPPR=2128.88;RPR=434;RUN=1;SAF=0;SAP=945.429;SAR=434;SRF=0;SRP=2128.88;SRR=979;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:79,1:79:2757:1:36:0,-20.4841,-244.77 0/0:57:57,0:57:2036:0:0:0,-17.1587,-183.512 0/1:86:44,42:44:1559:42:1485:-108.051,0,-114.71 0/0:105:105,0:105:3763:0:0:0,-31.6081,-338.868 0/0:156:156,0:156:5483:0:0:0,-46.9607,-493.599 0/1:38:19,19:19:680:19:665:-48.7336,0,-50.0793 0/1:109:32,77:32:1137:77:2728:-212.318,0,-69.8023 0/1:106:51,55:51:1804:55:1949:-143.775,0,-130.73 0/1:131:62,69:62:2219:69:2459:-182.129,0,-160.539 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/0:59:58,1:58:2062:1:36:0,-14.1625,-182.252 0/0:84:84,0:84:2999:0:0:0,-25.2865,-270.142 0/1:106:42,64:42:1478:64:2268:-172.472,0,-101.401 0/1:41:22,19:22:784:19:675:-48.7347,0,-58.5301 0/1:44:16,28:16:572:28:993:-76.4393,0,-38.5681 0/1:67:32,35:32:1140:35:1248:-92.4559,0,-82.7402 0/1:41:29,12:29:1028:12:428:-26.5166,0,-80.4908 0/0:50:49,1:49:1751:1:36:0,-11.4532,-154.275 0/0:22:22,0:22:779:0:0:0,-6.62266,-70.4321 chr06 10909138 . TATTC CATTA,CATTC 119556 PASS AB=0.5204,0.477102;ABP=11.6926,13.949;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3320,1163;CIGAR=1X3M1X,1X4M;DP=4496;DPB=4497;DPRA=0,1.0286;EPP=7212.3,2519.75;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.42857,2.64706;MQM=59.9295,59.9845;MQMR=0;NS=21;NUMALT=2;ODDS=38.6706;PAIRED=0,0;PAIREDR=0;PAO=4,1;PQA=144,36;PQR=0;PRO=0;QA=116076,41436;QR=0;RO=0;RPL=2015,629;RPP=332.721,19.8611;RPPR=0;RPR=1305,534;RUN=1,1;SAF=2015,630;SAP=332.721,20.5781;SAR=1305,533;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:224:0,224,0:0:0:224,0:7826,0:-703.866,-67.4307,0,-703.866,-67.4307,-703.866 1/1:193:0,193,0:0:0:193,0:6815,0:-613.434,-58.0988,0,-613.434,-58.0988,-613.434 1/2:178:0,102,76:0:0:102,76:3556,2732:-512.438,-223.244,-192.539,-289.549,0,-266.671 1/1:353:0,350,2:0:0:350,2:12201,72:-1097.61,-105.361,0,-1091.73,-99.4937,-1091.13 1/1:317:0,310,6:0:0:310,6:10752,216:-967.271,-93.3193,0,-949.646,-75.652,-947.84 1/2:244:0,124,120:0:0:124,120:4354,4298:-704.736,-350.873,-313.545,-354.217,0,-318.094 1/2:269:0,136,133:0:0:136,133:4745,4744:-773.01,-387.083,-346.143,-386.279,0,-346.242 1/2:226:0,114,111:0:0:114,111:3994,3946:-646.592,-321.648,-287.331,-325.025,0,-291.611 1/2:267:0,133,134:0:0:133,134:4697,4769:-771.537,-389.032,-348.995,-382.86,0,-342.522 1/2:54:0,21,33:0:0:21,33:745,1175:-156.82,-96.123,-89.8013,-61.0526,0,-51.1186 1/1:22:0,22,0:0:0:22,0:778,0:-70.3425,-6.62266,0,-70.3425,-6.62266,-70.3425 1/2:100:0,59,41:0:0:59,41:2055,1455:-286.011,-118.903,-101.142,-167.46,0,-155.117 1/1:398:0,396,0:0:0:396,0:13848,0:-1245.85,-119.208,0,-1245.85,-119.208,-1245.85 1/1:207:0,204,2:0:0:204,2:7137,72:-642.053,-61.4101,0,-636.178,-55.5286,-635.576 1/2:273:0,112,159:0:0:112,159:3917,5634:-777.658,-458.998,-425.283,-318.701,0,-270.837 1/2:128:0,70,58:0:0:70,58:2431,2068:-366.553,-168.931,-147.859,-197.974,0,-180.514 1/2:150:0,71,79:0:0:71,79:2488,2816:-432.347,-229.899,-208.526,-202.801,0,-179.019 1/2:207:0,110,96:0:0:110,96:3808,3416:-588.004,-278.541,-245.427,-309.604,0,-280.705 1/2:306:0,198,106:0:0:198,106:6906,3779:-869.701,-308.041,-248.437,-561.654,0,-529.745 1/1:243:0,237,5:0:0:237,5:8287,176:-745.514,-71.3441,0,-731.186,-56.9062,-729.681 1/1:137:0,134,2:0:0:134,2:4736,68:-426.06,-40.338,0,-420.544,-34.8355,-419.942 chr06 10909785 . TAG GAA,TAA 37931 PASS AB=0.512687,0.485821;ABP=4.8836,5.3503;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1478,652;CIGAR=1X1M1X,2M1X;DP=2134;DPB=2134;DPRA=0,1.25265;EPP=3212.45,1418.81;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.80952,2.15385;MQM=34.9066,35.5291;MQMR=0;NS=21;NUMALT=2;ODDS=4.58917;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52183,23362;QR=0;RO=0;RPL=0,0;RPP=3212.45,1418.81;RPPR=0;RPR=1478,652;RUN=1,1;SAF=0,0;SAP=3212.45,1418.81;SAR=1478,652;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,100,0:0:0:100,0:3500,0:-286.285,-30.103,0,-286.285,-30.103,-286.285 1/1:99:0,99,0:0:0:99,0:3524,0:-286.696,-29.802,0,-286.696,-29.802,-286.696 1/2:109:0,63,46:0:0:63,46:2215,1652:-287.885,-126.353,-107.389,-161.861,0,-148.014 1/1:91:0,90,1:0:0:90,1:3206,36:-260.067,-27.0927,0,-257.138,-23.8045,-256.837 1/1:177:0,177,0:0:0:177,0:6264,0:-509.568,-53.2823,0,-509.568,-53.2823,-509.568 1/2:121:0,50,71:0:0:50,71:1750,2544:-320.288,-192.793,-177.741,-127.819,0,-106.446 1/2:140:0,83,57:0:0:83,57:2906,2052:-367.948,-156.23,-131.245,-212.047,0,-194.888 1/2:125:0,46,78:0:0:46,78:1619,2781:-330.5,-212.263,-198.416,-118.223,0,-94.7432 1/2:200:0,109,91:0:0:109,91:3838,3245:-485.801,-205.036,-172.224,-281.065,0,-253.671 1/2:22:0,3,19:0:0:3,19:108,680:-60.1491,-52.2893,-51.3862,-8.18615,0,-2.46658 1/1:7:0,7,0:0:0:7,0:250,0:-20.684,-2.10721,0,-20.684,-2.10721,-20.684 1/2:36:0,20,16:0:0:20,16:716,576:-95.8221,-44.3037,-38.2831,-51.8487,0,-47.0322 1/1:76:0,76,0:0:0:76,0:2687,0:-219.167,-22.8783,0,-219.167,-22.8783,-219.167 1/1:109:0,108,0:0:0:108,0:3811,0:-310.409,-32.5112,0,-310.409,-32.5112,-310.409 1/2:248:0,127,120:0:0:127,120:4496,4300:-656.371,-328.141,-289.91,-328.349,0,-292.226 1/2:117:0,61,56:0:0:61,56:2146,2008:-283.543,-126.755,-108.392,-157.088,0,-140.231 1/2:102:0,55,47:0:0:55,47:1949,1688:-251.762,-109.546,-92.9892,-142.522,0,-128.373 1/2:56:0,26,30:0:0:26,30:919,1080:-149.914,-82.773,-74.9463,-67.4697,0,-58.4388 1/2:64:0,44,20:0:0:44,20:1567,720:-168.479,-54.9935,-41.7482,-113.817,0,-107.797 1/1:81:0,81,0:0:0:81,0:2857,0:-233.317,-24.3834,0,-233.317,-24.3834,-233.317 1/1:53:0,53,0:0:0:53,0:1855,0:-151.962,-15.9546,0,-151.962,-15.9546,-151.962 chr06 10909792 . TTTG CTTG,CTTC 40606.6 PASS AB=0.502606,0.496649;ABP=3.08953,3.14127;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1451,667;CIGAR=1X3M,1X2M1X;DP=2121;DPB=2121;DPRA=0,1.29467;EPP=3153.82,260.074;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.71429,2.08333;MQM=34.94,35.4903;MQMR=0;NS=21;NUMALT=2;ODDS=1.436;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50323,23402;QR=0;RO=0;RPL=0,193;RPP=3153.82,260.074;RPPR=0;RPR=1451,474;RUN=1,1;SAF=0,0;SAP=3153.82,1451.38;SAR=1451,667;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,97,0:0:0:97,0:3378,0:-278.101,-29.1999,0,-278.101,-29.1999,-278.101 1/1:97:0,97,0:0:0:97,0:3375,0:-278.243,-29.1999,0,-278.243,-29.1999,-278.243 1/2:110:0,62,48:0:0:62,48:2143,1704:-288.274,-130.503,-111.839,-158.097,0,-143.648 1/1:91:0,91,0:0:0:91,0:3140,0:-259.392,-27.3937,0,-259.392,-27.3937,-259.392 1/1:171:0,170,0:0:0:170,0:5893,0:-485.007,-51.1751,0,-485.007,-51.1751,-485.007 1/2:121:0,48,73:0:0:48,73:1662,2566:-317.387,-194.996,-180.547,-122.713,0,-100.738 1/2:133:0,76,57:0:0:76,57:2625,2008:-347.087,-153.717,-130.839,-193.695,0,-176.536 1/2:126:0,46,80:0:0:46,80:1593,2821:-333.447,-216.022,-202.175,-117.748,0,-93.6654 1/2:203:0,108,95:0:0:108,95:3736,3295:-486.281,-210.826,-178.315,-275.752,0,-247.154 1/2:23:0,3,20:0:0:3,20:105,698:-61.5258,-53.7929,-52.8898,-8.05422,0,-2.03362 1/1:7:0,7,0:0:0:7,0:245,0:-20.4738,-2.10721,0,-20.4738,-2.10721,-20.4738 1/2:36:0,20,16:0:0:20,16:690,553:-93.4077,-42.7524,-36.7318,-50.9776,0,-46.1611 1/1:75:0,75,0:0:0:75,0:2612,0:-215.196,-22.5773,0,-215.196,-22.5773,-215.196 1/1:107:0,107,0:0:0:107,0:3688,0:-304.519,-32.2102,0,-304.519,-32.2102,-304.519 1/2:251:0,128,122:0:0:128,122:4454,4269:-654.316,-326.105,-287.574,-328.177,0,-291.451 1/2:117:0,60,57:0:0:60,57:2097,2003:-282.999,-128.452,-110.39,-154.848,0,-137.689 1/2:102:0,54,48:0:0:54,48:1878,1677:-248.289,-109.911,-93.6551,-138.68,0,-124.231 1/2:57:0,26,31:0:0:26,31:908,1088:-150.391,-83.5456,-75.7188,-67.1699,0,-57.838 1/2:64:0,44,20:0:0:44,20:1520,720:-166.998,-54.9935,-41.7482,-112.335,0,-106.314 1/1:80:0,80,0:0:0:80,0:2775,0:-228.982,-24.0824,0,-228.982,-24.0824,-228.982 1/1:52:0,52,0:0:0:52,0:1806,0:-149.222,-15.6536,0,-149.222,-15.6536,-149.222 chr06 10924667 . T G,C 37459.1 PASS AB=0.498531,0.501469;ABP=3.02944,3.02944;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1281,518;CIGAR=1X,1X;DP=1799;DPB=1799;DPRA=0,1.17118;EPP=2784.67,1127.83;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.71429,2;MQM=59.9875,60;MQMR=0;NS=21;NUMALT=2;ODDS=7.8158;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44986,18437;QR=0;RO=0;RPL=0,0;RPP=2784.67,1127.83;RPPR=0;RPR=1281,518;RUN=1,1;SAF=0,0;SAP=2784.67,1127.83;SAR=1281,518;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:84:0,84,0:0:0:84,0:2966,0:-267.172,-25.2865,0,-267.172,-25.2865,-267.172 1/1:92:0,92,0:0:0:92,0:3172,0:-285.704,-27.6948,0,-285.704,-27.6948,-285.704 1/2:101:0,47,54:0:0:47,54:1667,1922:-292.813,-157,-142.852,-136.168,0,-119.913 1/1:109:0,109,0:0:0:109,0:3818,0:-343.821,-32.8123,0,-343.821,-32.8123,-343.821 1/1:199:0,196,3:0:0:196,3:6895,108:-620.266,-59.0019,0,-611.454,-49.8298,-610.551 1/2:73:0,50,23:0:0:50,23:1783,813:-211.913,-66.5663,-51.5148,-145.701,0,-138.777 1/2:159:0,82,77:0:0:82,77:2856,2723:-454.37,-222.135,-197.45,-232.586,0,-209.407 1/2:104:0,62,42:0:0:62,42:2169,1497:-298.838,-122.38,-103.716,-176.812,0,-164.169 1/2:147:0,72,75:0:0:72,75:2571,2677:-428.201,-218.596,-196.922,-209.962,0,-187.385 1/2:11:0,8,3:0:0:8,3:288,108:-32.6714,-9.17208,-6.76384,-23.8592,0,-22.9561 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:28:0,13,15:0:0:13,15:446,536:-80.2628,-44.0594,-40.146,-36.553,0,-32.0376 1/1:75:0,74,1:0:0:74,1:2643,36:-237.756,-22.2762,0,-234.819,-18.979,-234.518 1/1:116:0,116,0:0:0:116,0:4074,0:-366.849,-34.9195,0,-366.849,-34.9195,-366.849 1/2:84:0,39,45:0:0:39,45:1379,1597:-242.786,-130.472,-118.732,-112.668,0,-99.1215 1/2:95:0,36,59:0:0:36,59:1270,2108:-275.638,-172.228,-161.391,-103.764,0,-86.0035 1/2:90:0,36,54:0:0:36,54:1255,1921:-258.97,-156.909,-146.072,-102.412,0,-86.156 1/2:89:0,39,50:0:0:39,50:1373,1779:-257.114,-145.341,-133.6,-112.126,0,-97.0749 1/2:40:0,25,15:0:0:25,15:866,540:-114.794,-44.4211,-36.8953,-70.7281,0,-66.2127 1/1:46:0,44,2:0:0:44,2:1475,72:-132.675,-13.2453,0,-126.799,-7.01066,-126.197 1/1:53:0,53,0:0:0:53,0:1876,0:-169.117,-15.9546,0,-169.117,-15.9546,-169.117 chr06 10924703 . G A 26939.5 PASS AB=0.499519;ABP=3.01239;AC=30;AF=0.714286;AN=42;AO=1313;CIGAR=1X;DP=1840;DPB=1840;DPRA=0;EPP=2854.15;EPPR=1145.2;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9878;MQMR=60;NS=21;NUMALT=1;ODDS=8.02722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46913;QR=18821;RO=526;RPL=1313;RPP=2854.15;RPPR=1145.2;RPR=0;RUN=1;SAF=0;SAP=2854.15;SAR=1313;SRF=0;SRP=1145.2;SRR=526;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88:0:0:88:3164:-284.984,-26.4906,0 1/1:92:0,92:0:0:92:3292:-296.496,-27.6948,0 0/1:103:53,50:53:1904:50:1796:-130.916,0,-140.632 1/1:110:0,109:0:0:109:3916:-352.42,-32.8123,0 1/1:210:3,207:3:108:207:7364:-652.727,-53.1411,0 0/1:74:23,51:23:824:51:1811:-140.993,0,-52.2071 0/1:162:77,85:77:2760:85:3037:-224.792,0,-199.875 0/1:107:43,64:43:1532:64:2270:-172.348,0,-105.963 0/1:146:76,70:76:2709:70:2497:-181.031,0,-200.102 0/1:12:3,9:3:108:9:324:-25.8935,0,-6.46281 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:30:15,15:15:540:15:536:-39.5439,0,-39.9056 1/1:78:1,77:1:36:77:2749:-244.052,-19.8821,0 1/1:117:0,117:0:0:117:4169:-375.393,-35.2205,0 0/1:84:45,39:45:1612:39:1404:-101.373,0,-120.084 0/1:99:62,37:62:2220:37:1324:-89.6601,0,-170.262 0/1:91:57,34:57:2024:34:1205:-81.3602,0,-155.039 0/1:89:50,39:50:1796:39:1394:-98.9664,0,-135.131 0/1:42:16,26:16:576:26:932:-71.5556,0,-39.5317 1/1:47:2,45:2:72:45:1605:-137.901,-7.31169,0 1/1:54:0,54:0:0:54:1944:-175.236,-16.2556,0 chr06 10932567 . ACAC GCAT,GCAC 52677.2 PASS AB=0.485467,0.505106;ABP=5.34553,3.29858;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1872,646;CIGAR=1X2M1X,1X3M;DP=2540;DPB=2540;DPRA=0,0.904867;EPP=4068.01,1405.78;EPPR=5.18177;GTI=1;LEN=4,1;MEANALT=2.52381,2.78571;MQM=59.9551,60;MQMR=60;NS=21;NUMALT=2;ODDS=22.3907;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65609,22762;QR=36;RO=1;RPL=1872,646;RPP=4068.01,1405.78;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1872,646;SAP=4068.01,1405.78;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:225:0,223,1:0:0:223,1:7785,36:-700.335,-67.1297,0,-697.398,-64.1923,-697.097 1/1:92:0,90,0:0:0:90,0:3168,0:-285.013,-27.0927,0,-285.013,-27.0927,-285.013 1/2:85:0,42,42:0:0:42,42:1480,1476:-240.747,-120.246,-107.603,-120.609,0,-107.966 1/1:138:0,136,2:0:0:136,2:4773,72:-429.363,-40.9401,0,-423.488,-34.7054,-422.886 1/1:373:0,370,0:0:0:370,0:12954,0:-1165.39,-111.381,0,-1165.39,-111.381,-1165.39 1/2:79:0,37,42:0:0:37,42:1298,1486:-227.018,-121.39,-110.252,-105.98,0,-93.3366 1/2:230:1,107,121:1:36:107,121:3744,4250:-647.263,-342.959,-313.686,-301.658,0,-268.171 1/2:99:0,39,58:0:0:39,58:1370,2028:-276.476,-164.969,-153.229,-111.498,0,-94.0384 1/2:263:0,117,144:0:0:117,144:4102,5109:-750.09,-416.294,-381.073,-333.833,0,-290.485 1/2:23:0,14,9:0:0:14,9:491,309:-65.3918,-25.4314,-21.217,-40.3065,0,-37.5972 1/1:19:0,16,0:0:0:16,0:558,0:-50.2093,-4.81648,0,-50.2093,-4.81648,-50.2093 1/2:28:0,12,15:0:0:12,15:428,536:-78.6665,-43.7746,-40.1622,-34.9607,0,-30.4453 1/1:152:0,151,0:0:0:151,0:5306,0:-477.324,-45.4555,0,-477.324,-45.4555,-477.324 1/1:126:0,126,0:0:0:126,0:4423,0:-398.246,-37.9298,0,-398.246,-37.9298,-398.246 1/2:168:0,88,77:0:0:88,77:3101,2741:-475.911,-223.434,-196.944,-252.512,0,-229.333 1/2:103:0,47,56:0:0:47,56:1643,1949:-292.485,-158.825,-144.676,-134.009,0,-117.151 1/2:94:0,52,41:0:0:52,41:1827,1468:-268.525,-119.831,-104.178,-148.805,0,-136.463 1/2:33:0,17,16:0:0:17,16:570,542:-90.4462,-44.2838,-39.1662,-46.4994,0,-41.683 1/2:68:0,46,22:0:0:46,22:1608,760:-192.907,-62.0932,-48.2458,-131.16,0,-124.538 1/1:105:0,105,0:0:0:105,0:3683,0:-331.676,-31.6082,0,-331.676,-31.6082,-331.676 1/1:37:0,37,0:0:0:37,0:1297,0:-117.031,-11.1381,0,-117.031,-11.1381,-117.031 chr06 10940427 . C G 59673.6 PASS AB=0.559491;ABP=58.5589;AC=29;AF=0.690476;AN=42;AO=2518;CIGAR=1X;DP=3332;DPB=3332;DPRA=41.6;EPP=5470.78;EPPR=1766.25;GTI=2;LEN=1;MEANALT=1.1;MQM=44.0342;MQMR=47.9766;NS=21;NUMALT=1;ODDS=3.25305;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89281;QR=28701;RO=812;RPL=1195;RPP=17.1395;RPPR=29.7526;RPR=1323;RUN=1;SAF=1195;SAP=17.1395;SAR=1323;SRF=356;SRP=29.7526;SRR=456;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:1,84:1:36:84:2995:-238.013,-22.1639,0 1/1:5:0,5:0:0:5:180:-14.2787,-1.50515,0 0/1:165:61,104:61:2135:104:3662:-253.628,0,-137.943 1/1:162:0,162:0:0:162:5709:-457.898,-48.7669,0 1/1:194:2,190:2:72:190:6738:-557.52,-51.3054,0 0/1:124:75,49:75:2664:49:1747:-107.787,0,-194.026 0/1:205:81,124:81:2870:124:4422:-309.449,0,-186.113 0/1:296:110,186:110:3869:186:6601:-456.365,0,-249.816 0/1:325:133,192:133:4700:192:6760:-453.839,0,-313.465 0/1:36:18,18:18:629:18:639:-40.6883,0,-44.5149 1/1:15:0,15:0:0:15:536:-43.5314,-4.51545,0 0/1:67:40,27:40:1417:27:939:-55.7545,0,-102.385 1/1:277:1,276:1:36:276:9820:-818.422,-79.9617,0 1/1:353:2,351:2:68:351:12489:-1000.88,-99.9718,0 0/1:300:145,155:145:5128:155:5509:-363.469,0,-357.407 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.152 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:156:85,71:85:3025:71:2516:-162.868,0,-219.229 0/1:129:46,83:46:1635:83:2931:-205.51,0,-104.752 1/1:317:6,311:6:201:311:11070:-881.964,-77.496,0 1/1:113:0,113:0:0:113:3946:-327.568,-34.0164,0 chr06 10956661 . 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A G 28215.3 PASS AB=0.489381;ABP=4.07097;AC=30;AF=0.714286;AN=42;AO=1445;CIGAR=1X;DP=2004;DPB=2004;DPRA=0;EPP=3088.89;EPPR=1127.22;GTI=0;LEN=1;MEANALT=1.09524;MQM=39.6408;MQMR=35.6338;NS=21;NUMALT=1;ODDS=10.8671;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51705;QR=19897;RO=557;RPL=6;RPP=3088.89;RPPR=1127.22;RPR=1439;RUN=1;SAF=1445;SAP=3140.79;SAR=0;SRF=557;SRP=1212.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:3,108:3:108:108:3868:-324.666,-24.5105,0 1/1:88:0,88:0:0:88:3146:-270.028,-26.4906,0 0/1:76:34,41:34:1220:41:1456:-101.81,0,-77.4154 1/1:130:0,130:0:0:130:4640:-399.477,-39.1339,0 1/1:193:2,191:2:72:191:6829:-582.529,-51.8306,0 0/1:100:42,58:42:1504:58:2080:-149.935,0,-93.1122 0/1:124:70,54:70:2497:54:1928:-128.938,0,-163.853 0/1:98:53,45:53:1900:45:1610:-108.208,0,-127.751 0/1:128:60,68:60:2148:68:2440:-171.599,0,-138.46 0/1:16:5,11:5:180:11:396:-29.7284,0,-10.359 1/1:5:0,5:0:0:5:180:-15.791,-1.50515,0 0/1:25:15,10:15:540:10:360:-23.9101,0,-37.341 1/1:104:0,104:0:0:104:3719:-318.826,-31.3071,0 1/1:154:0,154:0:0:154:5517:-473.731,-46.3586,0 0/1:254:142,112:142:5069:112:4028:-270.746,0,-340.403 0/1:63:33,30:33:1169:30:1076:-73.258,0,-76.8477 0/1:116:59,57:59:2090:57:2036:-140.433,0,-138.024 0/1:48:27,21:27:968:21:737:-49.3981,0,-65.2099 0/1:35:12,23:12:432:23:828:-61.2194,0,-25.4233 1/1:98:0,98:0:0:98:3520:-302.384,-29.5009,0 1/1:37:0,37:0:0:37:1311:-113.349,-11.1381,0 chr06 10994166 . GGGAAA GGAAAC,AGAAAA 53265.5 PASS AB=0.46733,0.527699;ABP=16.0638,12.3933;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1804,749;CIGAR=2M1X2M1X,1X1M1X3M;DP=2567;DPB=2567.33;DPRA=0,1.09238;EPP=3920.35,1629.44;EPPR=5.18177;GTI=0;LEN=6,6;MEANALT=2.28571,2.5625;MQM=59.6707,59.2577;MQMR=60;NS=21;NUMALT=2;ODDS=12.6016;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,36;PQR=0;PRO=0;QA=63598,26314;QR=36;RO=1;RPL=1804,749;RPP=3920.35,1629.44;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1804,749;SAP=3920.35,1629.44;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,122,1:0:0:122,1:4299,34:-386.756,-36.7257,0,-383.998,-33.961,-383.697 1/1:173:0,172,0:0:0:172,0:6050,0:-544.118,-51.7772,0,-544.118,-51.7772,-544.118 1/2:114:0,62,52:0:0:62,52:2167,1853:-327.452,-151.334,-132.67,-176.471,0,-160.818 1/1:166:0,166,0:0:0:166,0:5876,0:-528.893,-49.971,0,-528.893,-49.971,-528.893 1/1:181:0,179,2:0:0:179,2:6297,70:-566.466,-53.8844,0,-560.77,-47.8391,-560.168 1/2:130:0,62,66:0:0:62,66:2168,2299:-363.307,-186.943,-168.279,-176.363,0,-156.495 1/2:131:0,57,73:0:0:57,73:2017,2579:-374.178,-209.896,-192.738,-164.275,0,-142.3 1/2:157:0,56,101:0:0:56,101:1991,3553:-451.674,-289.431,-272.573,-162.598,0,-132.194 1/2:203:0,94,107:0:0:94,107:3337,3778:-579.53,-307.642,-279.346,-271.921,0,-239.711 1/2:11:0,4,7:0:0:4,7:138,249:-31.8552,-20.6482,-19.4441,-11.5557,0,-9.44848 1/1:12:0,12,0:0:0:12,0:425,0:-38.5851,-3.61236,0,-38.5851,-3.61236,-38.5851 1/2:40:0,22,18:0:0:22,18:772,648:-116.047,-53.2333,-46.6107,-63.1694,0,-57.7509 1/1:135:0,134,1:0:0:134,1:4756,36:-427.673,-40.338,0,-424.735,-37.0408,-424.434 1/1:140:0,140,0:0:0:140,0:4911,0:-442.14,-42.1442,0,-442.14,-42.1442,-442.14 1/2:196:0,86,108:0:0:86,108:3024,3769:-552.271,-306.153,-280.265,-246.109,0,-213.597 1/2:164:0,67,97:0:0:67,97:2365,3396:-469.032,-276.453,-256.284,-192.931,0,-163.731 1/2:109:0,55,54:0:0:55,54:1941,1865:-309.641,-151.591,-135.034,-158.399,0,-142.144 1/2:77:0,40,37:0:0:40,37:1418,1312:-222.592,-107.085,-95.0434,-115.862,0,-104.724 1/2:76:0,53,23:0:0:53,23:1849,803:-216.038,-65.6621,-49.7076,-150.725,0,-143.801 1/1:147:1,142,2:1:36:142,2:5008,70:-447.252,-39.8049,0,-441.857,-37.0469,-444.193 1/1:80:0,79,0:0:0:79,0:2789,0:-250.39,-23.7814,0,-250.39,-23.7814,-250.39 chr06 11153118 . TGCA TGA,CGA 37551 PASS AB=0.486166,0.509881;ABP=4.69255,3.86859;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1269,518;CIGAR=2M1D1M,1X1M1D1M;DP=1792;DPB=1344.75;DPRA=0,1.46491;EPP=2758.61,1127.83;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.85714,2.21429;MQM=59.9716,59.971;MQMR=60;NS=21;NUMALT=2;ODDS=9.16825;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44954,18337;QR=36;RO=1;RPL=1269,518;RPP=2758.61,1127.83;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2758.61,1127.83;SAR=1269,518;SRF=0;SRP=5.18177;SRR=1;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92,0:0:0:92,0:3273,0:-294.788,-27.6948,0,-294.788,-27.6948,-294.788 1/1:52:0,51,0:0:0:51,0:1816,0:-163.362,-15.3525,0,-163.362,-15.3525,-163.362 1/2:77:0,25,52:0:0:25,52:884,1860:-224.024,-152.026,-144.5,-72.3526,0,-56.6991 1/1:137:0,136,1:0:0:136,1:4770,28:-429.174,-40.9401,0,-426.955,-38.4414,-426.654 1/1:187:0,186,1:0:0:186,1:6589,36:-592.717,-55.9916,0,-589.779,-52.6943,-589.478 1/2:76:0,42,34:0:0:42,34:1487,1220:-220.994,-99.8696,-87.2264,-121.481,0,-111.245 1/2:113:0,45,67:0:0:45,67:1600,2404:-326.474,-196.087,-182.54,-130.384,0,-110.215 1/2:77:0,36,41:0:0:36,41:1280,1452:-222.944,-118.633,-107.795,-104.666,0,-92.3239 1/2:151:0,78,73:0:0:78,73:2788,2555:-435.549,-208.222,-184.741,-227.68,0,-205.705 1/2:19:0,5,14:0:0:5,14:176,504:-55.8096,-41.4837,-39.9785,-14.6799,0,-10.4654 1/1:7:0,7,0:0:0:7,0:244,0:-22.2994,-2.10721,0,-22.2994,-2.10721,-22.2994 1/2:21:0,11,10:0:0:11,10:396,354:-61.5045,-29.1897,-25.8784,-32.6714,0,-29.6611 1/1:85:0,85,0:0:0:85,0:2990,0:-269.331,-25.5876,0,-269.331,-25.5876,-269.331 1/1:81:0,81,0:0:0:81,0:2857,0:-257.366,-24.3834,0,-257.366,-24.3834,-257.366 1/2:176:0,91,85:0:0:91,85:3225,3024:-509.527,-246.802,-219.409,-263.079,0,-237.492 1/2:84:0,39,44:0:0:39,44:1388,1565:-240.657,-127.534,-115.793,-113.119,0,-99.8737 1/2:75:0,50,24:0:0:50,24:1784,832:-213.051,-67.6105,-52.559,-145.432,0,-138.207 1/2:83:1,39,43:1:36:39,43:1381,1496:-230.883,-118.688,-109.885,-109.549,0,-99.5426 1/2:60:0,31,29:0:0:31,29:1108,1007:-172.554,-82.2066,-72.8746,-90.6991,0,-81.9692 1/1:58:0,58,0:0:0:58,0:2040,0:-183.869,-17.4597,0,-183.869,-17.4597,-183.869 1/1:81:0,81,0:0:0:81,0:2878,0:-259.257,-24.3834,0,-259.257,-24.3834,-259.257 chr06 11178838 . GAT GT 36676.6 PASS AB=0.470412;ABP=13.1617;AC=30;AF=0.714286;AN=42;AO=1426;CIGAR=1M1D1M;DP=2138;DPB=1662.33;DPRA=0;EPP=57.9824;EPPR=9.4819;GTI=1;LEN=1;MEANALT=1.09524;MQM=57.1515;MQMR=59.938;NS=21;NUMALT=1;ODDS=2.71672;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50563;QR=25098;RO=710;RPL=808;RPP=57.9824;RPPR=9.4819;RPR=618;RUN=1;SAF=0;SAP=3099.53;SAR=1426;SRF=0;SRP=1544.76;SRR=710;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:0,139:0:0:139:4932:-443.796,-41.8432,0 1/1:83:0,83:0:0:83:2951:-265.271,-24.9855,0 0/1:133:74,59:74:2636:59:2107:-149.671,0,-197.45 1/1:72:0,72:0:0:72:2553:-229.923,-21.6742,0 1/1:143:4,139:4:135:139:4948:-432.653,-30.5648,0 0/1:61:36,25:36:1271:25:877:-60.7135,0,-96.1981 0/1:160:89,71:89:3118:71:2522:-178.85,0,-232.679 0/1:107:56,51:56:1981:51:1799:-129.845,0,-146.352 0/1:128:71,57:71:2491:57:2010:-142.561,0,-185.911 0/1:43:21,22:21:754:22:792:-58.5726,0,-55.2426 1/1:4:0,4:0:0:4:144:-13.3073,-1.20412,0 0/1:53:29,24:29:1020:24:855:-61.1143,0,-76.1565 1/1:78:0,78:0:0:78:2761:-248.621,-23.4803,0 1/1:113:0,113:0:0:113:4014:-361.27,-34.0164,0 0/1:344:170,173:170:6047:173:6143:-448.899,0,-440.861 0/1:55:34,21:34:1210:21:739:-50.2693,0,-92.6488 0/1:68:41,27:41:1455:27:956:-65.8007,0,-110.776 0/1:116:59,56:59:2052:56:1955:-140.897,0,-149.971 0/1:67:25,42:25:892:42:1482:-113.328,0,-60.4301 1/1:116:1,115:1:36:115:4055:-361.151,-31.3212,0 1/1:55:0,55:0:0:55:1968:-176.687,-16.5567,0 chr06 11281224 . C A 24343.7 PASS AB=0.589869;ABP=45.943;AC=32;AF=0.761905;AN=42;AO=1141;CIGAR=1X;DP=1394;DPB=1394;DPRA=0;EPP=2480.66;EPPR=550.221;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9702;MQMR=59.9881;NS=21;NUMALT=1;ODDS=1.80607;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40807;QR=8979;RO=252;RPL=0;RPP=2480.66;RPPR=550.221;RPR=1141;RUN=1;SAF=0;SAP=2480.66;SAR=1141;SRF=0;SRP=550.221;SRR=252;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:2,129:2:72:129:4623:-409.395,-32.5982,0 1/1:76:0,76:0:0:76:2724:-245.403,-22.8783,0 0/1:38:17,21:17:608:21:743:-55.7542,0,-43.6129 1/1:106:0,106:0:0:106:3795:-341.747,-31.9092,0 1/1:103:0,103:0:0:103:3688:-331.186,-31.0061,0 1/1:57:0,57:0:0:57:2044:-184.232,-17.1587,0 1/1:46:0,46:0:0:46:1656:-149.328,-13.8474,0 0/1:79:31,48:31:1112:48:1716:-130.944,0,-76.61 0/1:82:33,49:33:1155:49:1756:-133.64,0,-79.5668 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:19:13,6:13:468:6:216:-14.0709,0,-36.7401 1/1:45:0,45:0:0:45:1599:-144.199,-13.5464,0 1/1:83:0,83:0:0:83:2959:-266.544,-24.9855,0 0/1:72:28,44:28:996:44:1533:-116.583,0,-68.2807 0/1:41:27,14:27:968:14:500:-32.9939,0,-75.0951 0/1:144:54,89:54:1927:89:3200:-244.963,0,-130.446 0/1:61:20,41:20:720:41:1464:-113.693,0,-46.7659 0/1:71:24,47:24:849:47:1688:-130.834,0,-55.3547 1/1:63:0,63:0:0:63:2251:-202.853,-18.9649,0 1/1:67:0,67:0:0:67:2400:-216.257,-20.169,0 chr06 11281227 . TCCCAT TCCAT,TTCCAT 4231.26 PASS AB=0.379934,0.305785;ABP=79.1404,82.296;AC=10,2;AF=0.238095,0.047619;AN=42;AO=233,74;CIGAR=1M1D4M,1M1X4M;DP=1473;DPB=1434;DPRA=0.969697,1.05677;EPP=508.963,163.699;EPPR=2524.09;GTI=1;LEN=1,1;MEANALT=1.27273,1.66667;MQM=60,60;MQMR=60;NS=21;NUMALT=2;ODDS=11.6365;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=8185,2643;QR=40332;RO=1161;RPL=0,0;RPP=508.963,163.699;RPPR=2524.09;RPR=233,74;RUN=1,1;SAF=0,0;SAP=508.963,163.699;SAR=233,74;SRF=0;SRP=2524.09;SRR=1161;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:132:130,2,0:130:4540:2,0:59,0:0,-34.1318,-403.174,-39.1339,-403.776,-408.482 0/0:75:74,0,0:74:2579:0,0:0,0:0,-22.2762,-232.041,-22.2762,-232.041,-232.041 0/1:39:23,16,0:23:799:16,0:563,0:-39.259,0,-60.4876,-46.1827,-65.3041,-111.137 0/0:109:109,0,0:109:3746:0,0:0,0:0,-32.8123,-337.351,-32.8123,-337.351,-337.351 0/0:101:101,0,0:101:3527:0,0:0,0:0,-30.404,-317.645,-30.404,-317.645,-317.645 0/2:96:57,0,38:57:1990:0,38:0,1351:-92.932,-110.091,-271.953,0,-161.855,-150.416 0/2:82:47,0,35:47:1658:0,35:0,1256:-88.6608,-102.809,-237.811,0,-135.358,-124.822 0/1:76:48,28,0:48:1661:28,0:992,0:-66.7161,0,-126.897,-81.1656,-135.326,-216.14 0/1:80:51,29,0:51:1797:29,0:1004,0:-66.5852,0,-137.93,-81.9378,-146.66,-228.25 0/1:5:3,2,0:3:98:2,0:68,0:-4.95256,0,-7.63889,-5.85565,-8.24095,-13.762 0/0:6:6,0,0:6:214:0,0:0,0:0,-1.80618,-19.6078,-1.80618,-19.6078,-19.6078 0/1:17:6,11,0:6:212:11,0:384,0:-29.7772,0,-14.3076,-31.5833,-17.619,-48.8506 0/0:45:44,0,0:44:1511:0,0:0,0:0,-13.2453,-135.92,-13.2453,-135.92,-135.92 0/0:85:85,0,0:85:2946:0,0:0,0:0,-25.5875,-265.378,-25.5875,-265.378,-265.378 0/1:72:46,26,0:46:1603:26,0:919,0:-61.352,0,-122.884,-75.1994,-130.711,-205.559 0/1:39:14,25,0:14:494:25,0:888,0:-68.4989,0,-33.0529,-72.7133,-40.5787,-112.938 0/1:143:90,51,0:90:3142:51,0:1781,0:-117.826,0,-240.269,-144.918,-255.622,-400.489 0/1:64:43,20,1:43:1456:20,1:716,36:-45.4431,0,-112.005,-55.4499,-115.088,-173.182 0/1:73:50,23,0:50:1724:23,0:811,0:-51.3348,0,-133.468,-66.3863,-140.391,-206.428 0/0:64:64,0,0:64:2224:0,0:0,0:0,-19.2659,-200.426,-19.2659,-200.426,-200.426 0/0:70:70,0,0:70:2411:0,0:0,0:0,-21.0721,-217.251,-21.0721,-217.251,-217.251 chr06 11360369 . T C 28413 PASS AB=0.530393;ABP=9.74212;AC=30;AF=0.714286;AN=42;AO=1386;CIGAR=1X;DP=1786;DPB=1786;DPRA=0;EPP=3012.67;EPPR=714.406;GTI=1;LEN=1;MEANALT=1;MQM=46.8189;MQMR=46.5775;NS=21;NUMALT=1;ODDS=10.9786;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49241;QR=14011;RO=400;RPL=0;RPP=3012.67;RPPR=714.406;RPR=1386;RUN=1;SAF=0;SAP=3012.67;SAR=1386;SRF=0;SRP=871.599;SRR=400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,89:0:0:89:3159:-281.579,-26.7917,0 1/1:60:0,60:0:0:60:2145:-190.758,-18.0618,0 0/1:53:20,33:20:700:33:1154:-87.4073,0,-46.5406 1/1:98:0,98:0:0:98:3487:-310.186,-29.5009,0 1/1:272:3,269:3:108:269:9561:-840.862,-71.8931,0 0/1:104:56,48:56:1951:48:1720:-122.027,0,-143.258 0/1:97:49,48:49:1712:48:1700:-122.773,0,-121.625 0/1:83:30,53:30:1037:53:1875:-141.888,0,-67.5089 0/1:138:66,72:66:2316:72:2541:-184.459,0,-165.456 0/1:4:1,3:1:32:3:108:-8.49604,0,-1.98511 1/1:4:0,4:0:0:4:144:-13.2414,-1.20412,0 0/1:10:8,2:8:280:2:72:-3.77922,0,-22.3973 1/1:189:1,188:1:32:188:6684:-590.868,-53.7082,0 1/1:91:0,91:0:0:91:3248:-287.609,-27.3937,0 0/1:108:51,57:51:1787:57:2032:-147.096,0,-125.846 0/1:70:30,40:30:1064:40:1424:-106.086,0,-70.1701 0/1:26:12,14:12:432:14:504:-37.4717,0,-29.8225 0/1:73:42,31:42:1465:31:1085:-75.3619,0,-107.646 0/1:73:29,44:29:1027:44:1553:-116.219,0,-69.6869 1/1:96:2,94:2:68:94:3325:-289.338,-22.4507,0 1/1:48:0,48:0:0:48:1720:-153.657,-14.4494,0 chr06 11360422 . C A 5669.61 PASS AB=0.449328;ABP=21.2756;AC=12;AF=0.285714;AN=42;AO=373;CIGAR=1X;DP=1789;DPB=1789;DPRA=1.39799;EPP=812.97;EPPR=3075.64;GTI=1;LEN=1;MEANALT=1.06667;MQM=47.2413;MQMR=46.8163;NS=21;NUMALT=1;ODDS=10.1345;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13319;QR=50314;RO=1415;RPL=373;RPP=812.97;RPPR=3075.64;RPR=0;RUN=1;SAF=0;SAP=812.97;SAR=373;SRF=0;SRP=3075.64;SRR=1415;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:91,0:91:3249:0:0:0,-27.3937,-289.9 0/0:60:60,0:60:2156:0:0:0,-18.0618,-191.693 0/1:52:33,19:33:1188:19:676:-44.6638,0,-90.6554 0/0:100:100,0:100:3528:0:0:0,-30.103,-313.443 0/0:277:274,3:274:9771:3:108:0,-73.3982,-857.297 0/1:108:48,60:48:1728:60:2148:-159.203,0,-121.522 0/1:93:48,45:48:1686:45:1616:-116.353,0,-122.6 0/1:87:57,30:57:1991:30:1046:-67.0537,0,-151.343 0/1:135:73,62:73:2605:62:2220:-157.717,0,-189.776 0/1:4:3,1:3:108:1:36:-2.36931,0,-8.49604 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2414 0/1:8:3,5:3:104:5:180:-14.0296,0,-7.26197 0/0:195:194,1:194:6876:1:36:0,-55.134,-607.381 0/0:93:93,0:93:3302:0:0:0,-27.9958,-291.931 0/1:107:57,50:57:2036:50:1781:-127,0,-147.74 0/1:58:40,18:40:1421:18:648:-40.6793,0,-108.385 0/1:26:14,12:14:489:12:428:-29.5477,0,-36.1401 0/1:70:31,38:31:1112:38:1356:-99.2658,0,-78.6481 0/1:71:43,28:43:1529:28:1004:-68.2094,0,-114.651 0/0:100:99,1:99:3503:1:36:0,-26.5296,-308.038 0/0:50:50,0:50:1788:0:0:0,-15.0515,-159.438 chr06 11503866 . G A 11907.2 PASS AB=0.517804;ABP=6.72178;AC=12;AF=0.285714;AN=42;AO=704;CIGAR=1X;DP=2231;DPB=2231;DPRA=0.985801;EPP=1523.05;EPPR=3312.33;GTI=0;LEN=1;MEANALT=1.125;MQM=59.8153;MQMR=53.351;NS=21;NUMALT=1;ODDS=6.01796;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25170;QR=54395;RO=1524;RPL=0;RPP=1531.73;RPPR=3312.33;RPR=704;RUN=1;SAF=703;SAP=1523.05;SAR=1;SRF=1524;SRP=3312.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:68:67,1:67:2359:1:36:0,-16.8718,-207.861 0/0:139:139,0:139:4954:0:0:0,-41.8432,-443.637 0/1:95:41,54:41:1464:54:1940:-146.172,0,-103.278 0/0:119:117,2:117:4180:2:72:0,-28.9858,-368.05 0/0:188:188,0:188:6701:0:0:0,-56.5936,-601.44 0/1:103:48,55:48:1720:55:1951:-144.829,0,-121.954 0/1:214:110,103:110:3940:103:3696:-268.273,0,-288.468 0/1:121:67,54:67:2395:54:1913:-136.002,0,-177.673 0/1:209:69,140:69:2468:140:5024:-389.371,0,-158.265 0/1:18:5,13:5:180:13:464:-36.6743,0,-11.1101 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.1767 0/1:56:29,27:29:1032:27:968:-70.5797,0,-75.8891 0/0:94:94,0:94:3364:0:0:0,-28.2968,-302.359 0/0:105:104,0:104:3724:0:0:0,-31.3071,-333.354 0/1:171:85,86:85:3036:86:3057:-223.883,0,-221.132 0/1:98:39,58:39:1400:58:2084:-158.276,0,-96.3743 0/1:71:37,34:37:1301:34:1216:-88.3734,0,-95.8565 0/1:113:67,46:67:2404:46:1644:-114.232,0,-180.24 0/1:79:51,28:51:1819:28:997:-66.2387,0,-139.848 0/0:104:103,1:103:3680:1:36:0,-27.7088,-325.967 0/0:55:53,2:53:1886:2:72:0,-9.71993,-162.232 chr06 11503894 . T G 75134.2 PASS AB=0.471517;ABP=21.3182;AC=30;AF=0.714286;AN=42;AO=2914;CIGAR=1X;DP=4305;DPB=4305;DPRA=0;EPP=6330.68;EPPR=3003.99;GTI=0;LEN=1;MEANALT=1.19048;MQM=55.7457;MQMR=59.9156;NS=21;NUMALT=1;ODDS=5.05768;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=103126;QR=49236;RO=1386;RPL=1508;RPP=10.7632;RPPR=3.41138;RPR=1406;RUN=1;SAF=1508;SAP=10.7632;SAR=1406;SRF=684;SRP=3.51792;SRR=702;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:200:3,197:3:108:197:6995:-617.363,-50.1308,0 1/1:248:0,248:0:0:248:8786:-787.999,-74.6554,0 0/1:166:102,63:102:3615:63:2245:-152.067,0,-275.423 1/1:205:2,203:2:72:203:7167:-637.168,-54.8744,0 1/1:380:2,378:2:68:378:13443:-1200.38,-107.934,0 0/1:207:108,99:108:3855:99:3470:-248.801,0,-284.823 0/1:375:185,189:185:6573:189:6632:-481.363,0,-478.601 0/1:238:115,123:115:4082:123:4345:-318.405,0,-295.876 0/1:368:224,144:224:7969:144:5111:-348.638,0,-606.44 0/1:43:27,16:27:964:16:567:-38.3974,0,-74.1279 1/1:19:0,19:0:0:19:676:-61.0868,-5.71957,0 0/1:79:47,32:47:1688:32:1133:-78.3081,0,-128.426 1/1:145:0,145:0:0:145:5158:-463.769,-43.6494,0 1/1:202:0,202:0:0:202:7042:-632.494,-60.8081,0 0/1:386:207,179:207:7331:179:6358:-455.093,0,-543.646 0/1:155:88,67:88:3152:67:2377:-167.062,0,-237.245 0/1:144:69,73:69:2464:73:2561:-187.376,0,-178.908 0/1:285:137,147:137:4833:147:5219:-381.362,0,-349.28 0/1:152:59,93:59:2070:93:3296:-250.702,0,-140.707 1/1:187:8,179:8:284:179:6353:-544.459,-30.3893,0 1/1:121:3,118:3:108:118:4192:-366.371,-26.3495,0 chr06 11503899 . CAACT CACT 63237.4 PASS AB=0.428571;ABP=112.825;AC=30;AF=0.714286;AN=42;AO=2538;CIGAR=1M1D3M;DP=3975;DPB=3466.4;DPRA=0;EPP=5514.21;EPPR=3090.85;GTI=1;LEN=1;MEANALT=1.52381;MQM=56.065;MQMR=59.953;NS=21;NUMALT=1;ODDS=15.1299;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=88201;QR=49359;RO=1426;RPL=1210;RPP=14.9235;RPPR=3.61941;RPR=1328;RUN=1;SAF=1210;SAP=14.9235;SAR=1328;SRF=702;SRP=3.74732;SRR=724;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:185:2,183:2:72:183:6378:-566.164,-48.8538,0 1/1:217:0,217:0:0:217:7550:-677.73,-65.3235,0 0/1:159:104,55:104:3607:55:1921:-125.199,0,-276.943 1/1:171:2,169:2:72:169:5864:-520.299,-44.6394,0 1/1:344:2,341:2:71:341:11903:-1062.8,-96.7891,0 0/1:194:116,77:116:4024:77:2648:-179.337,0,-303.886 0/1:360:190,169:190:6635:169:5859:-417.087,0,-488.906 0/1:230:117,111:117:4011:111:3891:-280.599,0,-292.284 0/1:363:232,131:232:8060:131:4585:-302.908,0,-616.166 0/1:41:25,14:25:871:14:496:-32.8416,0,-66.6068 1/1:13:0,13:0:0:13:456:-41.3329,-3.91339,0 0/1:74:48,26:48:1654:26:880:-57.1173,0,-126.868 1/1:122:0,122:0:0:122:4271:-384.151,-36.7257,0 1/1:165:0,163:0:0:163:5624:-505.229,-49.0679,0 0/1:364:211,153:211:7331:153:5337:-370.238,0,-550.284 0/1:148:91,57:91:3152:57:1983:-133.698,0,-239.357 0/1:141:74,66:74:2547:66:2317:-166.151,0,-187.037 0/1:272:142,130:142:4870:130:4466:-318.882,0,-356.591 0/1:132:59,73:59:2011:73:2520:-187.092,0,-141.523 1/1:171:8,162:8:267:162:5631:-481.12,-27.2302,0 1/1:109:3,106:3:104:106:3621:-315.656,-23.1095,0 chr06 11504500 . A G 8272.23 PASS AB=0.448911;ABP=30.0791;AC=12;AF=0.285714;AN=42;AO=541;CIGAR=1X;DP=2026;DPB=2026;DPRA=1.93262;EPP=1177.78;EPPR=3225.48;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9963;MQMR=59.9906;NS=21;NUMALT=1;ODDS=21.0946;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18929;QR=52734;RO=1484;RPL=0;RPP=1177.78;RPPR=3225.48;RPR=541;RUN=1;SAF=0;SAP=1177.78;SAR=541;SRF=0;SRP=3225.48;SRR=1484;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:180:179,1:179:6350:1:32:0,-50.9861,-568.395 0/0:54:54,0:54:1913:0:0:0,-16.2556,-172.445 0/1:81:41,40:41:1439:40:1411:-102.903,0,-105.419 0/0:53:52,1:52:1817:1:36:0,-12.3563,-160.208 0/0:265:264,1:264:9379:1:36:0,-76.1747,-840.482 0/1:190:108,82:108:3863:82:2857:-200.172,0,-290.669 0/1:98:32,66:32:1144:66:2326:-180.099,0,-73.7686 0/1:103:58,45:58:2066:45:1525:-106.527,0,-155.204 0/1:320:175,144:175:6233:144:5072:-360.237,0,-464.679 0/1:17:10,7:10:351:7:252:-17.9114,0,-26.8092 0/0:16:16,0:16:554:0:0:0,-4.81648,-50.1849 0/1:40:21,19:21:752:19:668:-48.4045,0,-55.9651 0/0:65:65,0:65:2323:0:0:0,-19.5669,-209.33 0/0:110:110,0:110:3897:0:0:0,-33.1133,-350.911 0/1:76:55,21:55:1972:21:739:-43.9541,0,-154.877 0/1:66:37,29:37:1324:29:1027:-72.8742,0,-99.5941 0/1:96:56,40:56:2003:40:1418:-99.017,0,-151.644 0/1:54:31,23:31:1101:23:787:-54.8868,0,-83.1427 0/1:53:33,20:33:1162:20:675:-45.1087,0,-88.9307 0/0:52:50,2:50:1775:2:68:0,-9.19585,-153.575 0/0:37:37,0:37:1316:0:0:0,-11.1381,-118.742 chr06 11861852 . CAGTGTTC CAATATTG,TAATATTA 20009.6 PASS AB=0.510791,0.48741;ABP=3.5727,3.77578;AC=30,12;AF=0.714286,0.285714;AN=42;AO=748,273;CIGAR=2M1X1M1X2M1X,1X1M1X1M1X2M1X;DP=1028;DPB=1028;DPRA=0,1.11781;EPP=1627.27,595.822;EPPR=0;GTI=1;LEN=8,8;MEANALT=1.90476,2.23077;MQM=53.0174,43.1319;MQMR=0;NS=21;NUMALT=2;ODDS=5.02376;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25273,9471;QR=0;RO=0;RPL=748,273;RPP=1627.27,595.822;RPPR=0;RPR=0,0;RUN=1,1;SAF=748,273;SAP=1627.27,595.822;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:25:0,25,0:0:0:25,0:870,0:-78.5196,-7.52575,0,-78.5196,-7.52575,-78.5196 1/1:106:0,106,0:0:0:106,0:3578,0:-321.598,-31.9092,0,-321.598,-31.9092,-321.598 1/2:36:0,19,17:0:0:19,17:652,582:-99.5986,-46.7246,-41.005,-53.2134,0,-48.0959 1/1:37:0,36,0:0:0:36,0:1204,0:-108.27,-10.8371,0,-108.27,-10.8371,-108.27 1/1:107:0,102,2:0:0:102,2:3466,68:-311.421,-30.7051,0,-306.004,-25.2863,-305.402 1/2:53:0,25,28:0:0:25,28:864,979:-148.479,-78.4303,-70.9045,-70.3924,0,-61.9636 1/2:80:0,38,42:0:0:38,42:1256,1444:-216.88,-115.874,-104.435,-101.34,0,-88.6963 1/2:55:0,13,42:0:0:13,42:429,1465:-152.12,-117.507,-113.594,-34.9458,0,-22.3026 1/2:85:0,47,37:0:0:47,37:1591,1292:-231.34,-102.455,-88.3066,-128.868,0,-117.729 1/2:10:0,9,1:0:0:9,1:302,33:-27.388,-2.96579,-0.25652,-24.7497,0,-24.4487 1/1:5:0,5,0:0:0:5,0:175,0:-16.0597,-1.50515,0,-16.0597,-1.50515,-16.0597 1/2:22:0,12,10:0:0:12,10:399,338:-59.5904,-27.3631,-23.7508,-32.5602,0,-29.5499 1/1:49:0,49,0:0:0:49,0:1658,0:-149.201,-14.7505,0,-149.201,-14.7505,-149.201 1/1:62:0,60,0:0:0:60,0:1956,0:-175.735,-18.0618,0,-175.735,-18.0618,-175.735 1/2:70:0,41,29:0:0:41,29:1398,1002:-193.373,-80.1332,-67.7909,-113.58,0,-104.85 1/2:31:0,18,13:0:0:18,13:617,452:-85.9309,-35.8691,-30.4506,-50.4011,0,-46.4877 1/2:40:0,19,21:0:0:19,21:661,733:-112.036,-58.4667,-52.7471,-53.9131,0,-47.5914 1/2:35:0,16,19:0:0:16,19:521,664:-95.3356,-53.3601,-48.5436,-42.309,0,-36.5894 1/2:39:0,27,12:0:0:27,12:929,419:-109.098,-33.7503,-25.6225,-75.6912,0,-72.0788 1/1:37:0,37,0:0:0:37,0:1257,0:-113.14,-11.1381,0,-113.14,-11.1381,-113.14 1/1:44:0,44,0:0:0:44,0:1490,0:-134.104,-13.2453,0,-134.104,-13.2453,-134.104 chr06 11861971 . T C 27940.9 PASS AB=0.544954;ABP=22.1432;AC=30;AF=0.714286;AN=42;AO=1371;CIGAR=1X;DP=1873;DPB=1873;DPRA=0;EPP=2980.1;EPPR=1088.75;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.7228;MQMR=59.75;NS=21;NUMALT=1;ODDS=6.06698;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48772;QR=17913;RO=500;RPL=0;RPP=2980.1;RPPR=1088.75;RPR=1371;RUN=1;SAF=0;SAP=2980.1;SAR=1371;SRF=0;SRP=1088.75;SRR=500;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,48:0:0:48:1712:-154.358,-14.4494,0 1/1:67:0,67:0:0:67:2376:-214.062,-20.169,0 0/1:68:26,42:26:936:42:1493:-114.185,0,-64.0894 1/1:101:1,100:1:36:100:3562:-317.19,-26.8058,0 1/1:201:3,198:3:108:198:7052:-624.567,-50.4319,0 0/1:136:72,64:72:2588:64:2282:-164.694,0,-192.196 0/1:124:49,75:49:1752:75:2672:-203.368,0,-120.609 0/1:58:34,24:34:1220:24:841:-58.5387,0,-92.6187 0/1:141:46,95:46:1652:95:3385:-262.413,0,-106.521 0/1:8:3,5:3:104:5:180:-14.1438,0,-7.29457 1/1:15:0,15:0:0:15:532:-48.2131,-4.51545,0 0/1:49:20,29:20:716:29:1032:-78.4384,0,-50.0172 1/1:98:0,97:0:0:97:3475:-312.582,-29.1999,0 1/1:139:0,139:0:0:139:4908:-441.501,-41.8432,0 0/1:130:68,61:68:2444:61:2161:-155.598,0,-181.059 0/1:117:59,58:59:2112:58:2080:-152.248,0,-155.072 0/1:146:83,63:83:2953:63:2228:-156.83,0,-222.047 0/1:64:21,43:21:752:43:1531:-118.788,0,-48.7403 0/1:49:14,35:14:504:35:1243:-97.3904,0,-30.9299 1/1:74:1,73:1:36:73:2608:-231.368,-18.6779,0 1/1:40:0,40:0:0:40:1419:-127.974,-12.0412,0 chr06 11862004 . A C 8142.73 PASS AB=0.452252;ABP=24.9911;AC=12;AF=0.285714;AN=42;AO=506;CIGAR=1X;DP=1906;DPB=1906;DPRA=1.34333;EPP=1101.78;EPPR=2999.8;GTI=0;LEN=1;MEANALT=1;MQM=59.747;MQMR=59.7329;NS=21;NUMALT=1;ODDS=11.2786;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18136;QR=50164;RO=1400;RPL=506;RPP=1101.78;RPPR=2999.8;RPR=0;RUN=1;SAF=0;SAP=1101.78;SAR=506;SRF=0;SRP=3043.07;SRR=1400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.076 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.124 0/1:68:41,27:41:1459:27:972:-67.3255,0,-111.13 0/0:100:100,0:100:3584:0:0:0,-30.103,-322.766 0/0:203:200,3:200:7167:3:108:0,-51.0339,-634.907 0/1:142:69,73:69:2459:73:2624:-193.628,0,-178.809 0/1:124:76,48:76:2732:48:1724:-118.085,0,-208.77 0/1:61:26,35:26:936:35:1239:-93.4224,0,-66.147 0/1:146:98,48:98:3501:48:1720:-111.133,0,-271.342 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/1:50:29,21:29:1036:21:752:-52.9548,0,-78.4978 0/0:103:103,0:103:3696:0:0:0,-31.0061,-332.823 0/0:139:139,0:139:4988:0:0:0,-41.8432,-448.695 0/1:131:63,68:63:2264:68:2436:-180.058,0,-164.583 0/1:121:60,61:60:2152:61:2192:-161.063,0,-157.522 0/1:145:62,83:62:2202:83:2965:-223.43,0,-154.793 0/1:63:44,19:44:1580:19:684:-42.9254,0,-123.498 0/1:50:35,15:35:1256:15:540:-33.8674,0,-98.2608 0/0:76:75,1:75:2692:1:36:0,-19.28,-238.921 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.505 chr06 11870014 . T C 5043.45 PASS AB=0.276347;ABP=745.094;AC=9;AF=0.214286;AN=42;AO=481;CIGAR=1X;DP=4443;DPB=4443;DPRA=1.26894;EPP=1047.49;EPPR=8606.38;GTI=2;LEN=1;MEANALT=1;MQM=59.9771;MQMR=59.9793;NS=21;NUMALT=1;ODDS=6.45533;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17099;QR=141443;RO=3962;RPL=2;RPP=1030.19;RPPR=82.9876;RPR=479;RUN=1;SAF=2;SAP=1030.19;SAR=479;SRF=2172;SRP=82.9876;SRR=1790;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:347:346,1:346:12361:1:36:0,-100.859,-1108.7 0/0:163:163,0:163:5839:0:0:0,-49.0679,-525.621 0/1:185:129,56:129:4616:56:2008:-125.303,0,-359.913 0/0:327:327,0:327:11683:0:0:0,-98.4368,-1051.34 0/0:484:482,2:482:17119:2:72:0,-138.862,-1533.52 0/0:62:62,0:62:2216:0:0:0,-18.6639,-199.705 0/0:98:98,0:98:3507:0:0:0,-29.5009,-315.84 0/1:199:159,40:159:5679:40:1428:-68.9126,0,-451.325 0/1:383:292,91:292:10418:91:3259:-178.235,0,-821.47 0/1:30:21,9:21:752:9:320:-20.1115,0,-58.9754 0/0:19:19,0:19:675:0:0:0,-5.71957,-61.077 0/0:59:54,5:54:1940:5:180:0,-1.2087,-158.324 0/0:394:393,1:393:14028:1:36:0,-115.008,-1258.69 0/0:380:380,0:380:13573:0:0:0,-114.391,-1221.34 0/1:307:182,125:182:6502:125:4427:-306.187,0,-492.848 0/1:187:145,42:145:5204:42:1485:-77.6499,0,-412.2 0/1:165:103,62:103:3673:62:2160:-144.991,0,-281.103 0/1:110:88,22:88:3135:22:788:-38.1315,0,-249.263 0/1:142:117,25:117:4178:25:900:-38.5748,0,-333.455 0/0:337:337,0:337:12034:0:0:0,-101.447,-1082.91 0/0:65:65,0:65:2311:0:0:0,-19.5669,-208.25 chr06 12088643 . CGCTTTCCTT GGCTTTCCTA,GGGTTTTCTA 33543.8 PASS AB=0.415655,0.576248;ABP=48.7988,40.4294;AC=29,13;AF=0.690476,0.309524;AN=42;AO=999,434;CIGAR=1X8M1X,1X1M1X3M1X2M1X;DP=1442;DPB=1446.8;DPRA=11.9667,0.741473;EPP=2172.31,945.429;EPPR=0;GTI=1;LEN=10,10;MEANALT=2.05,2.38462;MQM=59.996,34.6613;MQMR=0;NS=21;NUMALT=2;ODDS=2.21517;PAIRED=0,0;PAIREDR=0;PAO=22.5,23.5;PQA=787.5,823.5;PQR=0;PRO=0;QA=34140,14983;QR=0;RO=0;RPL=476,0;RPP=7.81188,945.429;RPPR=0;RPR=523,434;RUN=1,1;SAF=476,0;SAP=7.81188,945.429;SAR=523,434;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:30:0,30,0:0:0:30,0:997,0:-89.9712,-9.0309,0,-89.9712,-9.0309,-89.9712 1/1:4:0,4,0:0:0:4,0:136,0:-12.3047,-1.20412,0,-12.3047,-1.20412,-12.3047 1/2:109:0,50,58:0:0:50,58:1714,2009:-288.432,-149.275,-134.223,-139.189,0,-121.729 1/1:94:0,93,0:0:0:93,0:3171,0:-285.261,-27.9958,0,-285.261,-27.9958,-285.261 1/1:41:0,40,1:0:0:40,1:1380,33:-124.181,-12.0412,0,-121.671,-9.21859,-121.37 1/2:29:0,10,19:0:0:10,19:329,660:-72.1059,-45.5154,-42.5051,-26.485,0,-20.7654 1/2:61:0,14,47:0:0:14,47:475,1642:-151.709,-113.182,-108.968,-38.4678,0,-24.3194 1/2:116:0,46,68:0:0:46,68:1604,2354:-298.865,-168.396,-154.549,-130.499,0,-110.029 1/2:120:0,38,81:0:0:38,81:1319,2778:-319.314,-212.084,-200.645,-107.341,0,-82.9575 2/2:6:0,0,6:0:0:0,6:0,213:-16.65,-16.65,-16.65,-1.80618,-1.80618,0 1/1:4:0,4,0:0:0:4,0:106,0:-9.80363,-1.20412,0,-9.80363,-1.20412,-9.80363 1/2:48:0,21,27:0:0:21,27:720,934:-125.109,-66.6393,-60.3177,-58.7969,0,-50.6691 1/1:143:0,143,0:0:0:143,0:4882,0:-439.432,-43.0473,0,-439.432,-43.0473,-439.432 1/1:50:0,50,0:0:0:50,0:1738,0:-156.644,-15.0515,0,-156.644,-15.0515,-156.644 1/2:84:0,25,58:0:0:25,58:833,1987:-214.399,-146.977,-139.451,-67.4821,0,-50.0224 1/2:15:0,8,7:0:0:8,7:280,244:-41.8495,-19.0581,-16.6499,-23.1311,0,-21.0239 1/2:9:0,4,5:0:0:4,5:144,176:-25.4675,-13.7048,-12.5007,-12.1095,0,-10.6043 1/2:72:0,35,37:0:0:35,37:1185,1268:-186.8,-90.7082,-80.1722,-96.4142,0,-85.2761 1/2:78:0,57,20:0:0:57,20:1950,685:-209.203,-50.9116,-33.7529,-158.301,0,-152.281 1/1:311:0,309,0:0:0:309,0:10568,0:-950.609,-93.0183,0,-950.609,-93.0183,-950.609 1/1:18:0,18,0:0:0:18,0:609,0:-54.2193,-5.41854,0,-54.2193,-5.41854,-54.2193 chr06 12088684 . TCCCTTG TCCTTG 5910.34 PASS AB=0.664567;ABP=152.384;AC=13;AF=0.309524;AN=42;AO=429;CIGAR=1M1D5M;DP=1066;DPB=1004.71;DPRA=1.02053;EPP=934.572;EPPR=1377.55;GTI=1;LEN=1;MEANALT=1;MQM=34.7063;MQMR=59.9637;NS=21;NUMALT=1;ODDS=0.943271;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14467;QR=22365;RO=633;RPL=429;RPP=934.572;RPPR=1377.55;RPR=0;RUN=1;SAF=0;SAP=934.572;SAR=429;SRF=0;SRP=1377.55;SRR=633;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:26,0:26:932:0:0:0,-7.82678,-83.8396 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:84:26,58:26:916:58:2010:-141.568,0,-57.4693 0/0:49:49,0:49:1747:0:0:0,-14.7505,-157.515 0/0:24:23,1:23:797:1:36:0,-3.9257,-68.7469 0/1:30:11,19:11:386:19:597:-40.0805,0,-26.0449 0/1:61:15,46:15:524:46:1470:-101.77,0,-29.1256 0/1:108:42,66:42:1485:66:2197:-148.128,0,-101.419 0/1:106:25,81:25:893:81:2832:-208.352,0,-48.7812 1/1:6:0,6:0:0:6:193:-16.0374,-1.80618,0 0/0:4:4,0:4:137:0:0:0,-1.20412,-12.6674 0/1:45:18,27:18:641:27:878:-58.791,0,-44.4735 0/0:85:85,0:85:3019:0:0:0,-25.5875,-271.943 0/0:21:21,0:21:744:0:0:0,-6.32163,-67.2848 0/1:73:15,58:15:535:58:2005:-144.085,0,-26.5093 0/1:10:4,6:4:141:6:212:-15.3604,0,-10.0266 0/1:8:3,5:3:108:5:174:-12.6472,0,-7.66693 0/1:55:19,36:19:676:36:1179:-80.6137,0,-44.6117 0/1:55:35,20:35:1217:20:684:-40.3792,0,-93.2758 0/0:186:184,0:184:6469:0:0:0,-55.3895,-581.944 0/0:22:22,0:22:782:0:0:0,-6.62266,-70.7034 chr06 12163771 . A T 5249.54 PASS AB=0.409231;ABP=49.5266;AC=12;AF=0.285714;AN=42;AO=269;CIGAR=1X;DP=1284;DPB=1284;DPRA=0.910989;EPP=58.621;EPPR=16.3622;GTI=0;LEN=1;MEANALT=1;MQM=59.6952;MQMR=59.8916;NS=21;NUMALT=1;ODDS=12.2693;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9420;QR=36175;RO=1015;RPL=269;RPP=587.136;RPPR=2207.05;RPR=0;RUN=1;SAF=93;SAP=58.621;SAR=176;SRF=468;SRP=16.3622;SRR=547;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:79:79,0:79:2808:0:0:0,-23.7814,-252.958 0/0:69:69,0:69:2464:0:0:0,-20.7711,-222.011 0/1:35:21,14:21:748:14:496:-34.4382,0,-57.1092 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.451 0/0:139:137,2:137:4849:2:72:0,-35.0064,-429.729 0/1:56:30,26:30:1080:26:917:-65.9869,0,-80.6556 0/1:68:35,33:35:1239:33:1149:-83.2439,0,-91.3436 0/1:56:28,28:28:1000:28:987:-72.2854,0,-73.4577 0/1:67:34,33:34:1205:33:1142:-82.9024,0,-88.5593 0/1:18:12,6:12:432:6:205:-13.2039,0,-33.8027 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/0:130:130,0:130:4614:0:0:0,-39.1339,-415.422 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/1:71:47,24:47:1688:24:828:-53.4601,0,-130.834 0/1:32:20,12:20:712:12:413:-27.8534,0,-54.763 0/1:17:8,9:8:284:9:303:-22.4748,0,-20.7858 0/1:88:51,37:51:1836:37:1312:-91.891,0,-139.03 0/1:134:94,40:94:3352:40:1431:-88.7488,0,-260.783 0/0:40:39,1:39:1400:1:21:0,-9.94125,-124.199 0/0:94:94,0:94:3344:0:0:0,-28.2968,-301.176 chr06 12205496 . A C 66566.6 PASS AB=0.557444;ABP=51.9079;AC=30;AF=0.714286;AN=42;AO=2533;CIGAR=1X;DP=3293;DPB=3293;DPRA=0;EPP=5503.35;EPPR=1651.16;GTI=1;LEN=1;MEANALT=1.04762;MQM=53.4647;MQMR=59.9183;NS=21;NUMALT=1;ODDS=4.06052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90211;QR=27156;RO=759;RPL=964;RPP=316.794;RPPR=1651.16;RPR=1569;RUN=1;SAF=964;SAP=316.794;SAR=1569;SRF=0;SRP=1651.16;SRR=759;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:152:1,151:1:36:151:5335:-472.37,-42.1583,0 1/1:221:0,221:0:0:221:7882:-697.721,-66.5276,0 0/1:132:76,56:76:2724:56:1998:-138.576,0,-205.667 1/1:187:1,185:1:36:185:6601:-586.995,-52.7531,0 1/1:369:1,368:1:36:368:13070:-1164.06,-107.482,0 0/1:123:24,99:24:864:99:3528:-275.844,0,-41.0559 0/1:273:123,150:123:4395:150:5356:-391.886,0,-313.528 0/1:149:74,75:74:2652:75:2671:-192.693,0,-194.059 0/1:198:48,150:48:1713:150:5336:-417.472,0,-94.8497 0/1:26:6,20:6:216:20:716:-55.7227,0,-11.9637 1/1:8:0,8:0:0:8:288:-25.8382,-2.40824,0 0/1:32:29,3:29:1040:3:108:-0.370095,0,-84.2814 1/1:158:0,158:0:0:158:5652:-503.493,-47.5627,0 1/1:177:1,176:1:36:176:6302:-560.011,-49.684,0 0/1:238:158,80:158:5646:80:2876:-186.087,0,-436.615 0/1:109:44,65:44:1580:65:2287:-172.72,0,-109.679 0/1:116:61,55:61:2158:55:1927:-138.082,0,-159.564 0/1:173:87,86:87:3124:86:3066:-220.577,0,-228.531 0/1:137:25,112:25:900:112:3997:-314.957,0,-40.0661 1/1:187:0,187:0:0:187:6693:-598.128,-56.2926,0 1/1:128:0,128:0:0:128:4522:-398.616,-38.5318,0 chr06 12248403 . G A 12803.6 PASS AB=0.368085;ABP=358.208;AC=12;AF=0.285714;AN=42;AO=871;CIGAR=1X;DP=4800;DPB=4800;DPRA=0.913269;EPP=1825.51;EPPR=8284.69;GTI=2;LEN=1;MEANALT=1;MQM=54.178;MQMR=56.7585;NS=21;NUMALT=1;ODDS=11.274;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31155;QR=139360;RO=3929;RPL=860;RPP=1800.02;RPPR=500.753;RPR=11;RUN=1;SAF=868;SAP=1868.39;SAR=3;SRF=2460;SRP=545.785;SRR=1469;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:301:300,1:300:10667:1:36:0,-87.0143,-954.965 0/0:175:175,0:175:6204:0:0:0,-52.6802,-555.705 0/1:173:97,76:97:3444:76:2719:-192.478,0,-257.493 0/0:371:371,0:371:13175:0:0:0,-111.682,-1183.81 0/0:531:531,0:531:18808:0:0:0,-159.847,-1689.76 0/1:206:125,81:125:4440:81:2908:-197.301,0,-337.37 0/1:312:183,129:183:6517:129:4601:-318.384,0,-490.832 0/1:233:166,67:166:5892:67:2393:-144.464,0,-459.534 0/1:471:292,179:292:10407:179:6405:-434.023,0,-793.182 0/1:10:6,4:6:207:4:144:-10.2808,0,-15.7716 0/0:17:17,0:17:608:0:0:0,-5.11751,-54.8546 0/1:50:38,12:38:1349:12:432:-23.9666,0,-106.594 0/0:320:318,2:318:11286:2:72:0,-89.4978,-1007.22 0/0:245:245,0:245:8703:0:0:0,-73.7523,-782.122 0/1:338:203,135:203:7186:135:4837:-332.773,0,-544.204 0/1:141:81,60:81:2816:60:2145:-150.424,0,-210.555 0/1:143:96,47:96:3368:47:1688:-108.764,0,-259.144 0/1:149:100,49:100:3545:49:1748:-111.516,0,-273.386 0/1:124:98,26:98:3472:26:919:-45.6391,0,-274.69 0/0:367:364,3:364:12959:3:108:0,-100.417,-1152.72 0/0:123:123,0:123:4307:0:0:0,-37.0267,-385.547 chr06 12248427 . A G 32011.5 PASS AB=0.513233;ABP=4.61941;AC=30;AF=0.714286;AN=42;AO=1488;CIGAR=1X;DP=2008;DPB=2008;DPRA=0;EPP=3182.26;EPPR=1132.18;GTI=1;LEN=1;MEANALT=1;MQM=52.1532;MQMR=57.0827;NS=21;NUMALT=1;ODDS=4.45889;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53102;QR=18612;RO=520;RPL=31;RPP=2970.51;RPPR=1063.76;RPR=1457;RUN=1;SAF=25;SAP=3020.66;SAR=1463;SRF=8;SRP=1063.76;SRR=512;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91:0:0:91:3247:-291.146,-27.3937,0 1/1:86:0,86:0:0:86:3055:-272.656,-25.8886,0 0/1:99:59,40:59:2111:40:1423:-97.1086,0,-160.106 1/1:146:0,146:0:0:146:5236:-469.881,-43.9504,0 1/1:206:3,203:3:108:203:7266:-641.554,-51.9398,0 0/1:55:20,35:20:716:35:1260:-96.7172,0,-48.0554 0/1:134:61,73:61:2184:73:2624:-194.865,0,-156.166 0/1:70:33,37:33:1184:37:1311:-96.8551,0,-85.7673 0/1:238:120,118:120:4300:118:4208:-305.908,0,-315.042 0/1:6:1,5:1:36:5:176:-14.1803,0,-1.79109 1/1:5:0,5:0:0:5:180:-16.5205,-1.50515,0 0/1:14:4,10:4:144:10:347:-27.296,0,-9.09548 1/1:89:0,89:0:0:89:3200:-287.107,-26.7917,0 1/1:104:0,104:0:0:104:3715:-333.202,-31.3071,0 0/1:121:63,58:63:2249:58:2076:-149.8,0,-165.21 0/1:74:43,31:43:1544:31:1104:-76.4962,0,-116.598 0/1:67:25,42:25:900:42:1471:-111.536,0,-60.8754 0/1:96:52,44:52:1855:44:1567:-111.627,0,-138.2 0/1:84:34,50:34:1209:50:1781:-134.714,0,-83.7587 1/1:144:1,143:1:36:143:5083:-452.466,-39.7511,0 1/1:79:1,78:1:36:78:2772:-244.098,-20.1831,0 chr06 12284362 . C A,G 97861.5 PASS AB=0.506352,0.49274;ABP=3.78273,4.01919;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2518,1094;CIGAR=1X,1X;DP=3614;DPB=3614;DPRA=0,1.47984;EPP=210.068,27.0275;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.7619,2.06667;MQM=59.9766,59.9927;MQMR=60;NS=21;NUMALT=2;ODDS=8.65953;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=89532,38831;QR=36;RO=1;RPL=2496,1078;RPP=5281.36,2241.66;RPPR=5.18177;RPR=22,16;RUN=1,1;SAF=992,476;SAP=248.923,43.0337;SAR=1526,618;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:149:0,147,2:0:0:147,2:5215,68:-469.152,-44.2514,0,-463.636,-38.3958,-463.034 1/1:150:0,150,0:0:0:150,0:5348,0:-481.456,-45.1545,0,-481.456,-45.1545,-481.456 1/2:121:0,46,75:0:0:46,75:1636,2671:-351.379,-218.054,-204.206,-133.681,0,-111.104 1/1:216:0,216,0:0:0:216,0:7688,0:-691.958,-65.0225,0,-691.958,-65.0225,-691.958 1/1:289:0,284,5:0:0:284,5:10099,165:-908.517,-85.4925,0,-895.179,-71.8241,-893.674 1/2:173:0,85,88:0:0:85,88:3029,3112:-500.607,-253.816,-228.229,-247.145,0,-220.655 1/2:314:1,141,172:1:36:141,172:5039,6134:-907.64,-497.087,-457.579,-407.914,0,-359.074 1/2:175:0,96,79:0:0:96,79:3422,2791:-506.589,-227.649,-198.75,-279.295,0,-255.513 1/2:267:0,136,131:0:0:136,131:4858,4671:-777.193,-381.116,-340.176,-396.433,0,-356.998 1/2:27:0,18,9:0:0:18,9:636,315:-77.7742,-25.978,-20.5594,-52.1471,0,-49.4379 1/1:11:0,11,0:0:0:11,0:388,0:-35.2574,-3.31133,0,-35.2574,-3.31133,-35.2574 1/2:74:0,36,38:0:0:36,38:1264,1364:-214.49,-111.622,-100.784,-103.223,0,-91.7836 1/1:149:0,149,0:0:0:149,0:5328,0:-479.654,-44.8535,0,-479.654,-44.8535,-479.654 1/1:203:0,202,1:0:0:202,1:7178,36:-645.717,-60.8081,0,-642.779,-57.5108,-642.478 1/2:327:0,172,154:0:0:172,154:6112,5484:-945.021,-446.969,-395.192,-498.047,0,-451.688 1/2:159:0,76,83:0:0:76,83:2709,2951:-461.658,-240.839,-217.961,-221.175,0,-196.19 1/2:115:0,70,45:0:0:70,45:2492,1588:-332.77,-129.663,-108.591,-203.461,0,-189.915 1/2:314:0,158,156:0:0:158,156:5516,5496:-896.473,-447.812,-400.249,-449.012,0,-402.052 1/2:138:0,82,56:0:0:82,56:2910,1985:-399.162,-162.065,-137.38,-237.451,0,-220.594 1/1:131:0,131,0:0:0:131,0:4677,0:-421.09,-39.4349,0,-421.09,-39.4349,-421.09 1/1:112:0,112,0:0:0:112,0:3988,0:-359.043,-33.7154,0,-359.043,-33.7154,-359.043 chr06 12311652 . A T 11109.4 PASS AB=0.483665;ABP=6.27368;AC=12;AF=0.285714;AN=42;AO=681;CIGAR=1X;DP=2641;DPB=2641;DPRA=0.856448;EPP=1481.78;EPPR=4259.1;GTI=0;LEN=1;MEANALT=1;MQM=48.0734;MQMR=42.7607;NS=21;NUMALT=1;ODDS=18.694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24409;QR=70308;RO=1960;RPL=0;RPP=1481.78;RPPR=4259.1;RPR=681;RUN=1;SAF=681;SAP=1481.78;SAR=0;SRF=1960;SRP=4259.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:227:227,0:227:8122:0:0:0,-68.3338,-710.382 0/0:162:162,0:162:5794:0:0:0,-48.7669,-498.992 0/1:127:50,77:50:1800:77:2764:-208.785,0,-120.385 0/0:122:122,0:122:4384:0:0:0,-36.7257,-386.839 0/0:290:290,0:290:10424:0:0:0,-87.2987,-914.435 0/1:70:42,28:42:1504:28:1008:-66.2286,0,-107.768 0/1:159:81,78:81:2912:78:2795:-192.494,0,-201.421 0/1:141:58,83:58:2084:83:2968:-222.389,0,-138.663 0/1:275:152,123:152:5460:123:4386:-310.536,0,-402.07 0/1:11:4,7:4:129:7:252:-19.5586,0,-8.34801 0/0:6:6,0:6:216:0:0:0,-1.80618,-18.3413 0/1:36:19,17:19:684:17:612:-44.1938,0,-49.4093 0/0:150:150,0:150:5381:0:0:0,-45.1545,-473.146 0/0:157:157,0:157:5644:0:0:0,-47.2617,-494.474 0/1:164:91,73:91:3261:73:2616:-185.09,0,-237.825 0/1:95:55,40:55:1961:40:1432:-100.108,0,-144.377 0/1:131:74,57:74:2644:57:2052:-144.477,0,-192.933 0/1:114:41,73:41:1472:73:2624:-199.1,0,-94.702 0/1:85:60,25:60:2160:25:900:-55.1752,0,-162.663 0/0:80:80,0:80:2868:0:0:0,-24.0824,-250.802 0/0:39:39,0:39:1404:0:0:0,-11.7402,-120.025 chr06 12311678 . TTCTCA CTCTG,CTCTGA 53998.7 PASS AB=0.506993,0.490909;ABP=3.6177,4.03681;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1959,702;CIGAR=1X3M1D1X,1X3M1X1M;DP=2667;DPB=2339.67;DPRA=0,0.867017;EPP=4256.92,1501.44;EPPR=0;GTI=0;LEN=6,6;MEANALT=1.85714,2.25;MQM=42.7973,48.2322;MQMR=0;NS=21;NUMALT=2;ODDS=16.9792;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68689,24844;QR=0;RO=0;RPL=1959,699;RPP=4256.92,1501.44;RPPR=0;RPR=0,3;RUN=1,1;SAF=1959,702;SAP=4256.92,1527.38;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:228:0,227,0:0:0:227,0:7984,0:-700.43,-68.3338,0,-700.43,-68.3338,-700.43 1/1:161:0,161,0:0:0:161,0:5688,0:-491.032,-48.4658,0,-491.032,-48.4658,-491.032 1/2:130:0,50,79:0:0:50,79:1737,2796:-364.298,-226.288,-211.236,-138.089,0,-114.308 1/1:123:0,123,0:0:0:123,0:4301,0:-380.118,-37.0267,0,-380.118,-37.0267,-380.118 1/1:291:0,291,0:0:0:291,0:10144,0:-892.472,-87.5997,0,-892.472,-87.5997,-892.472 1/2:71:0,43,28:0:0:43,28:1489,999:-192.798,-78.22,-65.2757,-114.915,0,-106.487 1/2:159:0,78,81:0:0:78,81:2724,2894:-436.557,-225.027,-201.547,-211.868,0,-187.485 1/2:142:0,58,84:0:0:58,84:2063,2980:-403.184,-240.798,-223.338,-162.733,0,-137.447 1/2:277:0,152,125:0:0:152,125:5365,4408:-788.951,-357.767,-312.011,-431.534,0,-393.905 1/2:13:0,4,9:0:0:4,9:137,319:-37.0485,-26.1982,-24.9941,-11.1908,0,-8.48148 1/1:6:0,6,0:0:0:6,0:203,0:-17.8153,-1.80618,0,-17.8153,-1.80618,-17.8153 1/2:38:0,19,19:0:0:19,19:674,678:-108.647,-55.2656,-49.5461,-53.732,0,-48.0124 1/1:151:0,150,0:0:0:150,0:5274,0:-464.679,-45.1545,0,-464.679,-45.1545,-464.679 1/1:157:0,156,0:0:0:156,0:5470,0:-480.738,-46.9607,0,-480.738,-46.9607,-480.738 1/2:166:0,91,74:0:0:91,74:3167,2610:-463.598,-211.408,-184.014,-252.183,0,-229.907 1/2:96:0,55,41:0:0:55,41:1933,1450:-272.053,-117.984,-101.428,-154.418,0,-142.076 1/2:134:0,72,61:0:0:72,61:2488,2152:-373.238,-174.415,-152.741,-198.855,0,-180.493 1/2:117:0,42,75:0:0:42,75:1487,2634:-330.111,-212.516,-199.873,-117.941,0,-95.3634 1/2:87:0,61,26:0:0:61,26:2148,924:-244.414,-75.0621,-56.6993,-169.702,0,-161.875 1/1:81:0,81,0:0:0:81,0:2858,0:-250.232,-24.3834,0,-250.232,-24.3834,-250.232 1/1:39:0,39,0:0:0:39,0:1355,0:-116.406,-11.7402,0,-116.406,-11.7402,-116.406 chr06 12418818 . G A 24403.9 PASS AB=0.305486;ABP=530.142;AC=30;AF=0.714286;AN=42;AO=1297;CIGAR=1X;DP=2416;DPB=2416;DPRA=0;EPP=2819.41;EPPR=2432.89;GTI=2;LEN=1;MEANALT=1;MQM=59.9838;MQMR=59.9714;NS=21;NUMALT=1;ODDS=1.7451;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46389;QR=40012;RO=1119;RPL=0;RPP=2819.41;RPPR=2432.89;RPR=1297;RUN=1;SAF=0;SAP=2819.41;SAR=1297;SRF=0;SRP=2432.89;SRR=1119;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:2,103:2:72:103:3696:-326.028,-24.795,0 1/1:39:0,39:0:0:39:1383:-124.767,-11.7402,0 0/1:130:88,42:88:3168:42:1512:-97.2407,0,-246.209 1/1:151:0,151:0:0:151:5380:-484.332,-45.4555,0 1/1:129:1,128:1:36:128:4580:-408.767,-35.2346,0 0/1:101:79,22:79:2835:22:792:-41.2016,0,-224.983 0/1:251:170,81:170:6083:81:2895:-185.227,0,-472.013 0/1:208:141,67:141:5028:67:2408:-154.325,0,-390.054 0/1:242:177,65:177:6329:65:2304:-134.77,0,-496.851 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:32:24,8:24:860:8:288:-16.6344,0,-68.0889 1/1:126:0,126:0:0:126:4512:-406.248,-37.9298,0 1/1:111:0,111:0:0:111:3980:-358.39,-33.4143,0 0/1:243:176,67:176:6283:67:2392:-142.386,0,-492.407 0/1:82:63,19:63:2260:19:680:-36.8447,0,-178.978 0/1:92:64,28:64:2300:28:1004:-62.9811,0,-179.566 0/1:117:79,38:79:2797:38:1344:-86.0369,0,-216.749 0/1:93:46,47:46:1637:47:1692:-124.571,0,-119.621 1/1:83:1,82:1:36:82:2943:-261.505,-21.3872,0 1/1:62:1,61:1:36:61:2176:-192.508,-15.0656,0 chr06 12418841 . C T 20296 PASS AB=0.694566;ABP=529.438;AC=12;AF=0.285714;AN=42;AO=1116;CIGAR=1X;DP=2434;DPB=2434;DPRA=1.50156;EPP=2426.37;EPPR=2813.13;GTI=2;LEN=1;MEANALT=1;MQM=59.9713;MQMR=59.9841;NS=21;NUMALT=1;ODDS=2.65405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39972;QR=47059;RO=1318;RPL=1116;RPP=2426.37;RPPR=2813.13;RPR=0;RUN=1;SAF=0;SAP=2426.37;SAR=1116;SRF=0;SRP=2865.01;SRR=1318;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:108:106,2:106:3788:2:72:0,-25.6981,-334.306 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/1:131:42,89:42:1504:89:3185:-247.437,0,-96.2197 0/0:161:161,0:161:5708:0:0:0,-48.4658,-513.837 0/0:127:126,1:126:4505:1:36:0,-34.6325,-402.019 0/1:100:22,78:22:792:78:2793:-221.505,0,-41.5027 0/1:251:80,171:80:2852:171:6119:-475.25,0,-181.36 0/1:210:67,143:67:2389:143:5113:-397.095,0,-152.018 0/1:238:61,177:61:2154:177:6352:-500.123,0,-122.479 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:32:8,24:8:288:24:864:-68.4496,0,-16.6344 0/0:131:131,0:131:4673:0:0:0,-39.4349,-420.731 0/0:111:111,0:111:3976:0:0:0,-33.4143,-358.03 0/1:236:67,169:67:2395:169:6032:-471.935,0,-144.763 0/1:81:18,63:18:644:63:2252:-178.558,0,-33.9072 0/1:95:30,65:30:1076:65:2336:-181.901,0,-68.555 0/1:120:41,79:41:1472:79:2838:-219.534,0,-96.6525 0/1:94:47,47:47:1688:47:1692:-124.27,0,-123.91 0/0:86:85,1:85:3027:1:36:0,-22.2903,-269.06 0/0:62:62,0:62:2228:0:0:0,-18.6639,-200.784 chr06 13124920 . CGTA TGTG,CGTG 27380.9 PASS AB=0.586455,0.40634;ABP=48.0668,55.8891;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1025,286;CIGAR=1X2M1X,3M1X;DP=1321;DPB=1321;DPRA=0,1.02357;EPP=2228.77,624.051;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.09524,2.53846;MQM=59.6234,59.7902;MQMR=0;NS=21;NUMALT=2;ODDS=0.333235;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36006,10242;QR=0;RO=0;RPL=0,0;RPP=2228.77,624.051;RPPR=0;RPR=1025,286;RUN=1,1;SAF=1025,286;SAP=2228.77,624.051;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,79,0:0:0:79,0:2767,0:-249.262,-23.7814,0,-249.262,-23.7814,-249.262 1/1:42:0,41,0:0:0:41,0:1464,0:-131.707,-12.3422,0,-131.707,-12.3422,-131.707 1/2:70:0,40,30:0:0:40,30:1411,1080:-203.095,-88.212,-76.1708,-115.239,0,-106.208 1/1:70:0,70,0:0:0:70,0:2455,0:-221.104,-21.0721,0,-221.104,-21.0721,-221.104 1/1:131:0,125,4:0:0:125,4:4400,144:-395.815,-37.6288,0,-384.065,-25.8583,-382.861 1/2:43:0,27,16:0:0:27,16:964,572:-125.588,-46.996,-38.8682,-78.9493,0,-74.1328 1/2:97:0,74,23:0:0:74,23:2638,828:-282.924,-67.9195,-45.6433,-215.363,0,-208.439 1/2:100:0,51,49:0:0:51,49:1790,1742:-287.945,-142.312,-126.96,-145.986,0,-131.235 1/2:89:0,47,39:0:0:47,39:1648,1392:-247.657,-113.554,-99.406,-134.172,0,-122.432 1/2:9:0,6,3:0:0:6,3:204,108:-25.705,-9.17208,-7.3659,-16.8861,0,-15.983 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:26:0,17,9:0:0:17,9:600,320:-75.2851,-26.4331,-21.3156,-49.2065,0,-46.4973 1/1:117:0,116,0:0:0:116,0:4074,0:-366.582,-34.9195,0,-366.582,-34.9195,-366.582 1/1:81:0,81,0:0:0:81,0:2825,0:-254.427,-24.3834,0,-254.427,-24.3834,-254.427 1/2:87:0,42,43:0:0:42,43:1484,1544:-246.796,-125.942,-113.299,-120.85,0,-107.906 1/2:26:0,19,7:0:0:19,7:669,252:-75.3795,-20.9217,-15.2022,-54.8155,0,-52.7083 1/2:25:0,13,12:0:0:13,12:452,428:-71.9906,-35.2464,-31.3331,-37.0964,0,-33.484 1/2:73:0,38,35:0:0:38,35:1309,1256:-209.101,-102.791,-91.3517,-106.662,0,-96.1255 1/2:49:0,33,16:0:0:33,16:1149,576:-140.766,-47.3585,-37.4245,-93.7633,0,-88.9468 1/1:61:0,61,0:0:0:61,0:2117,0:-190.756,-18.3628,0,-190.756,-18.3628,-190.756 1/1:42:0,41,0:0:0:41,0:1442,0:-129.834,-12.3422,0,-129.834,-12.3422,-129.834 chr06 13124962 . A G 4131.36 PASS AB=0.408824;ABP=52.1111;AC=12;AF=0.285714;AN=42;AO=284;CIGAR=1X;DP=1280;DPB=1280;DPRA=0.971264;EPP=602.459;EPPR=2165.8;GTI=1;LEN=1;MEANALT=1;MQM=59.8415;MQMR=59.5713;NS=21;NUMALT=1;ODDS=0.599843;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10048;QR=34969;RO=996;RPL=282;RPP=602.459;RPPR=2165.8;RPR=2;RUN=1;SAF=284;SAP=619.708;SAR=0;SRF=996;SRP=2165.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2614:0:0:0,-22.2762,-235.501 0/0:43:42,1:42:1478:1:36:0,-9.34601,-129.707 0/1:71:40,31:40:1400:31:1090:-77.0331,0,-104.915 0/0:66:66,0:66:2266:0:0:0,-19.868,-204.076 0/0:122:117,5:117:4134:5:167:0,-21.3696,-356.792 0/1:44:27,17:27:960:17:599:-40.9919,0,-73.471 0/1:95:73,22:73:2580:22:775:-41.4724,0,-203.66 0/1:98:51,47:51:1770:47:1680:-121.986,0,-130.034 0/1:86:47,39:47:1633:39:1393:-99.7771,0,-120.873 0/1:9:6,3:6:212:3:104:-6.99354,0,-16.7155 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:24:14,10:14:488:10:356:-25.155,0,-37.0224 0/0:112:112,0:112:3972:0:0:0,-33.7154,-357.667 0/0:77:77,0:77:2649:0:0:0,-23.1793,-238.262 0/1:81:42,39:42:1463:39:1362:-98.4847,0,-107.575 0/1:26:19,7:19:664:7:252:-15.2022,0,-52.2568 0/1:24:13,11:13:456:11:387:-27.9412,0,-34.1485 0/1:74:38,36:38:1330:36:1280:-93.2087,0,-97.7186 0/1:48:32,16:32:1132:16:567:-36.9113,0,-87.723 0/0:60:60,0:60:2132:0:0:0,-18.0618,-192.005 0/0:42:42,0:42:1496:0:0:0,-12.6433,-133.821 chr06 13434003 . A G 4143.66 PASS AB=0.409289;ABP=52.2545;AC=10;AF=0.238095;AN=42;AO=287;CIGAR=1X;DP=1772;DPB=1772;DPRA=0.842452;EPP=626.223;EPPR=3201.64;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=57.9623;NS=21;NUMALT=1;ODDS=26.309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10229;QR=53090;RO=1485;RPL=0;RPP=626.223;RPPR=3201.64;RPR=287;RUN=1;SAF=287;SAP=626.223;SAR=0;SRF=1485;SRP=3227.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:147:147,0:147:5276:0:0:0,-44.2514,-473.036 0/0:84:84,0:84:3016:0:0:0,-25.2865,-270.399 0/1:82:39,43:39:1400:43:1540:-114.209,0,-101.378 0/0:89:89,0:89:3162:0:0:0,-26.7917,-283.586 0/0:257:254,3:254:9089:3:108:0,-67.2895,-807.259 0/1:33:18,15:18:644:15:540:-39.0025,0,-48.3134 0/1:85:66,19:66:2357:19:684:-36.3028,0,-184.638 0/1:77:49,28:49:1752:28:1000:-67.1361,0,-134.737 0/1:143:85,58:85:3028:58:2076:-144.063,0,-229.127 0/1:17:5,12:5:180:12:419:-32.9252,0,-11.4299 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5401 0/1:23:11,12:11:392:12:427:-31.8446,0,-28.6869 0/0:129:129,0:129:4598:0:0:0,-38.8329,-413.817 0/0:107:107,0:107:3791:0:0:0,-32.2102,-339.394 0/1:113:62,51:62:2220:51:1820:-130.065,0,-165.885 0/0:34:33,1:33:1188:1:32:0,-7.03571,-104.014 0/0:44:43,1:43:1540:1:32:0,-10.046,-135.655 0/1:60:32,28:32:1152:28:1008:-72.9746,0,-85.8895 0/1:56:40,16:40:1436:16:543:-32.3315,0,-112.355 0/0:136:136,0:136:4857:0:0:0,-40.9401,-436.551 0/0:51:51,0:51:1832:0:0:0,-15.3525,-164.896 chr06 13434016 . AAACGA AA 29090.6 PASS AB=0.566298;ABP=30.6516;AC=31;AF=0.738095;AN=42;AO=1384;CIGAR=1M4D1M;DP=1708;DPB=784;DPRA=0;EPP=2778.38;EPPR=519.929;GTI=0;LEN=4;MEANALT=1.19048;MQM=58.2059;MQMR=60;NS=21;NUMALT=1;ODDS=12.3572;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47973;QR=11284;RO=320;RPL=27;RPP=2778.38;RPPR=519.929;RPR=1357;RUN=1;SAF=1384;SAP=3008.33;SAR=0;SRF=320;SRP=697.881;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:137:0,137:0:0:137:4789:-430.949,-41.2411,0 1/1:77:0,77:0:0:77:2693:-241.952,-23.1793,0 0/1:80:45,35:45:1582:35:1214:-85.3696,0,-118.587 1/1:81:0,81:0:0:81:2808:-252.854,-24.3834,0 1/1:242:3,238:3:108:238:8205:-728.064,-62.7955,0 0/1:35:18,17:18:636:17:600:-43.7551,0,-47.032 0/1:81:20,61:20:703:61:2117:-166.151,0,-39.2112 0/1:76:30,45:30:1042:45:1592:-120.67,0,-71.2297 0/1:140:62,78:62:2196:78:2688:-199.683,0,-155.762 0/1:19:14,5:14:498:5:180:-10.8279,0,-39.4358 1/1:4:0,4:0:0:4:144:-13.304,-1.20412,0 0/1:24:13,11:13:455:11:365:-25.9382,0,-34.058 1/1:124:0,123:0:0:123:4280:-385.03,-37.0267,0 1/1:97:0,97:0:0:97:3318:-298.141,-29.1999,0 0/1:108:52,56:52:1832:56:1965:-144.504,0,-132.649 0/1:39:8,31:8:288:31:1079:-85.6757,0,-14.5272 1/1:46:4,42:4:143:42:1480:-120.247,-0.625935,0 0/1:62:30,32:30:1066:32:1131:-83.3975,0,-77.5885 0/1:60:21,39:21:735:39:1337:-102.392,0,-48.4105 1/1:128:0,127:0:0:127:4334:-389.692,-38.2308,0 1/1:48:0,48:0:0:48:1654:-149.019,-14.4494,0 chr06 13434025 . 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G A 37994.5 PASS AB=0.528681;ABP=15.0927;AC=30;AF=0.714286;AN=42;AO=2123;CIGAR=1X;DP=2922;DPB=2922;DPRA=0;EPP=4613.05;EPPR=1738.02;GTI=0;LEN=1;MEANALT=1;MQM=37.1983;MQMR=51.8436;NS=21;NUMALT=1;ODDS=8.80982;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75096;QR=28516;RO=799;RPL=0;RPP=4613.05;RPPR=1738.02;RPR=2123;RUN=1;SAF=2123;SAP=4613.05;SAR=0;SRF=799;SRP=1738.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:1,135:1:36:135:4767:-406.847,-37.3435,0 1/1:139:0,139:0:0:139:4893:-381.108,-41.8432,0 0/1:120:45,75:45:1608:75:2642:-191.391,0,-108.62 1/1:151:0,151:0:0:151:5358:-460.85,-45.4555,0 1/1:336:0,336:0:0:336:11910:-1023.12,-101.146,0 0/1:190:89,101:89:3184:101:3559:-222.447,0,-226.172 0/1:203:108,95:108:3880:95:3357:-203.866,0,-284.146 0/1:112:54,58:54:1917:58:2040:-123.573,0,-136.647 0/1:275:129,146:129:4605:146:5147:-358.09,0,-331.31 0/1:16:11,5:11:396:5:180:-8.34388,0,-30.6437 1/1:4:0,4:0:0:4:136:-11.2292,-1.20412,0 0/1:33:7,26:7:237:26:928:-61.2789,0,-11.4973 1/1:134:0,134:0:0:134:4710:-406.236,-40.338,0 1/1:133:0,133:0:0:133:4693:-404.622,-40.037,0 0/1:262:124,138:124:4437:138:4913:-342.032,0,-319.944 0/1:132:67,65:67:2385:65:2284:-157.869,0,-173.722 0/1:155:85,70:85:3020:70:2465:-166.789,0,-224.804 0/1:127:58,69:58:2063:69:2460:-149.678,0,-143.664 0/1:66:20,46:20:712:46:1648:-121.601,0,-44.4412 1/1:143:1,142:1:36:142:5030:-380.138,-39.4988,0 1/1:55:0,55:0:0:55:1976:-154.299,-16.5567,0 chr06 13538265 . 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A G 15971.3 PASS AB=0.510592;ABP=4.80433;AC=12;AF=0.285714;AN=42;AO=947;CIGAR=1X;DP=3576;DPB=3576;DPRA=1.3604;EPP=2059.39;EPPR=5685.77;GTI=0;LEN=1;MEANALT=1.1875;MQM=59.5375;MQMR=59.7829;NS=21;NUMALT=1;ODDS=12.3456;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33810;QR=93686;RO=2625;RPL=0;RPP=2059.39;RPPR=5668.43;RPR=947;RUN=1;SAF=0;SAP=2059.39;SAR=947;SRF=2;SRP=5685.77;SRR=2623;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:188:186,2:186:6634:2:72:0,-49.7569,-590.283 0/0:242:241,0:241:8591:0:0:0,-72.5482,-772.57 0/1:136:56,79:56:1996:79:2820:-212.646,0,-139.02 0/0:231:231,0:231:8231:0:0:0,-69.5379,-740.749 0/0:345:341,3:341:12193:3:108:0,-93.779,-1086.81 0/1:149:68,81:68:2402:81:2904:-216.73,0,-171.544 0/1:269:146,123:146:5188:123:4373:-312.722,0,-386.065 0/1:148:74,74:74:2647:74:2643:-193.508,0,-193.905 0/1:330:144,186:144:5139:186:6656:-498.857,0,-363.263 0/1:20:14,6:14:485:6:216:-13.7699,0,-37.9517 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:51:28,23:28:996:23:828:-59.487,0,-74.5977 0/0:400:398,1:398:14260:1:27:0,-117.726,-1280.4 0/0:148:148,0:148:5303:0:0:0,-44.5524,-477.361 0/1:233:115,118:115:4094:118:4201:-308.119,0,-298.501 0/1:134:68,66:68:2440:66:2360:-172.212,0,-179.385 0/1:182:81,101:81:2903:101:3603:-269.687,0,-206.712 0/1:109:54,55:54:1924:55:1963:-143.965,0,-140.598 0/1:80:52,28:52:1855:28:1000:-66.233,0,-143.144 0/0:134:133,1:133:4748:1:36:0,-37.039,-424.158 0/0:43:43,0:43:1517:0:0:0,-12.9443,-136.799 chr06 13538279 . GCA GTG,TTG 77184.1 PASS AB=0.488984,0.508866;ABP=4.97174,4.28098;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2662,954;CIGAR=1M2X,3X;DP=3625;DPB=3625;DPRA=0,1.35095;EPP=5783.47,2014.24;EPPR=0;GTI=0;LEN=2,3;MEANALT=2.19048,2.5;MQM=59.7412,59.4612;MQMR=0;NS=21;NUMALT=2;ODDS=11.8597;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=94449,33913;QR=0;RO=0;RPL=2662,947;RPP=5783.47,2014.24;RPPR=0;RPR=0,7;RUN=1,1;SAF=0,0;SAP=5783.47,2074.59;SAR=2662,954;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:189:0,185,2:0:0:185,2:6551,72:-589.263,-55.6906,0,-583.388,-49.8107,-582.786 1/1:248:0,248,0:0:0:248,0:8785,0:-789.843,-74.6554,0,-789.843,-74.6554,-789.843 1/2:138:0,59,78:0:0:59,78:2120,2773:-397.935,-225.769,-208.008,-172.163,0,-148.682 1/1:233:0,233,0:0:0:233,0:8165,0:-734.838,-70.14,0,-734.838,-70.14,-734.838 1/1:353:0,349,3:0:0:349,3:12390,108:-1114.29,-105.059,0,-1105.48,-96.2472,-1104.58 1/2:153:0,69,83:0:0:69,83:2432,2937:-437.021,-239.046,-218.274,-197.969,0,-172.983 1/2:272:0,147,124:0:0:147,124:5242,4385:-784.378,-357.1,-312.849,-427.273,0,-389.945 1/2:149:0,75,74:0:0:75,74:2635,2648:-430.687,-216.25,-193.673,-214.791,0,-192.515 1/2:336:0,146,189:0:0:146,189:5147,6722:-965.406,-546.386,-502.435,-419.162,0,-362.267 1/2:20:0,14,6:0:0:14,6:502,216:-58.9231,-17.9843,-13.7699,-41.2982,0,-39.492 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:52:0,28,24:0:0:28,24:991,862:-151.196,-70.4825,-62.0536,-81.0695,0,-73.8447 1/1:406:0,405,1:0:0:405,1:14346,33:-1290.46,-121.917,0,-1287.79,-118.919,-1287.49 1/1:153:0,153,0:0:0:153,0:5457,0:-491.219,-46.0576,0,-491.219,-46.0576,-491.219 1/2:233:0,115,118:0:0:115,118:4121,4179:-676.759,-340.662,-306.044,-336.453,0,-300.931 1/2:134:0,67,67:0:0:67,67:2406,2386:-390.962,-194.694,-174.525,-196.625,0,-176.456 1/2:182:0,81,101:0:0:81,101:2906,3595:-530.384,-293.351,-268.967,-237.39,0,-206.986 1/2:109:0,54,55:0:0:54,55:1932,1961:-317.55,-160.026,-143.77,-157.881,0,-141.325 1/2:83:0,55,28:0:0:55,28:1943,1002:-240.293,-82.0671,-65.5104,-158.582,0,-150.153 1/1:135:0,133,1:0:0:133,1:4744,34:-426.761,-40.037,0,-424.194,-37.4897,-423.893 1/1:43:0,42,0:0:0:42,0:1490,0:-134.089,-12.6433,0,-134.089,-12.6433,-134.089 chr06 13538293 . A C 54886.2 PASS AB=0.490164;ABP=4.54813;AC=30;AF=0.714286;AN=42;AO=2627;CIGAR=1X;DP=3569;DPB=3569;DPRA=0;EPP=5707.47;EPPR=2037.69;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.7495;MQMR=59.56;NS=21;NUMALT=1;ODDS=11.7204;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93912;QR=33614;RO=941;RPL=2627;RPP=5707.47;RPPR=2037.69;RPR=0;RUN=1;SAF=0;SAP=5707.47;SAR=2627;SRF=0;SRP=2046.37;SRR=941;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:186:2,184:2:72:184:6578:-585.251,-49.1549,0 1/1:245:0,245:0:0:245:8785:-790.243,-73.7524,0 0/1:134:76,58:76:2732:58:2052:-144.419,0,-205.771 1/1:230:0,230:0:0:230:8229:-740.536,-69.2369,0 1/1:348:3,345:3:108:345:12308:-1097.12,-94.6833,0 0/1:150:84,66:84:3003:66:2348:-166.392,0,-225.167 0/1:269:123,146:123:4384:146:5214:-388.386,0,-313.722 0/1:146:73,73:73:2616:73:2609:-191.088,0,-191.686 0/1:327:184,143:184:6593:143:5086:-359.442,0,-494.472 0/1:20:6,14:6:216:14:504:-39.6729,0,-13.7699 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:51:23,28:23:803:28:1004:-75.3187,0,-57.1439 1/1:400:2,398:2:72:398:14248:-1275.19,-113.575,0 1/1:150:0,149:0:0:149:5336:-479.97,-44.8535,0 0/1:232:117,115:117:4179:115:4112:-300.424,0,-306.342 0/1:132:65,67:65:2301:67:2398:-176.339,0,-167.48 0/1:181:100,81:100:3564:81:2916:-208.186,0,-266.477 0/1:106:54,52:54:1931:52:1864:-136.103,0,-142.091 0/1:82:28,54:28:1004:54:1921:-148.476,0,-65.9914 1/1:134:1,133:1:36:133:4753:-424.601,-37.039,0 1/1:42:0,42:0:0:42:1503:-135.542,-12.6433,0 chr06 13612257 . G C 11927.6 PASS AB=0.521739;ABP=4.99295;AC=30;AF=0.714286;AN=42;AO=582;CIGAR=1X;DP=813;DPB=813;DPRA=0;EPP=1266.81;EPPR=502.449;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.8952;MQMR=54.0565;NS=21;NUMALT=1;ODDS=8.7701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20856;QR=8239;RO=230;RPL=0;RPP=1266.81;RPPR=502.449;RPR=582;RUN=1;SAF=0;SAP=1266.81;SAR=582;SRF=0;SRP=502.449;SRR=230;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,57:0:0:57:2048:-184.592,-17.1587,0 1/1:30:0,30:0:0:30:1072:-96.7925,-9.0309,0 0/1:27:9,18:9:324:18:644:-50.1614,0,-21.3362 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 1/1:59:0,59:0:0:59:2097:-188.996,-17.7608,0 0/1:51:22,29:22:792:29:1044:-78.9219,0,-56.1649 0/1:38:19,19:19:684:19:684:-50.4512,0,-50.3208 0/1:32:13,18:13:460:18:644:-48.5934,0,-31.9941 0/1:78:29,49:29:1040:49:1760:-135.159,0,-70.294 0/1:14:6,8:6:216:8:288:-21.9658,0,-15.548 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:17:9,8:9:324:8:288:-21.1499,0,-24.3465 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 0/1:68:32,36:32:1152:36:1288:-95.7502,0,-83.3773 0/1:24:15,9:15:536:9:324:-22.2811,0,-41.2835 0/1:29:21,8:21:743:8:288:-17.5375,0,-58.3494 0/1:72:46,26:46:1644:26:936:-62.8853,0,-126.331 0/1:33:9,24:9:324:24:860:-67.7878,0,-19.53 1/1:52:0,52:0:0:52:1863:-167.949,-15.6536,0 1/1:37:0,37:0:0:37:1324:-119.462,-11.1381,0 chr06 13650868 . C A 35221.4 PASS AB=0.511684;ABP=4.48186;AC=30;AF=0.714286;AN=42;AO=1689;CIGAR=1X;DP=2301;DPB=2301;DPRA=0;EPP=3644.62;EPPR=1290.92;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9988;MQMR=59.9901;NS=21;NUMALT=1;ODDS=14.9768;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60350;QR=21768;RO=609;RPL=2;RPP=3653.28;RPPR=1290.92;RPR=1687;RUN=1;SAF=1;SAP=3661.95;SAR=1688;SRF=0;SRP=1325.44;SRR=609;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:167:1,166:1:36:166:5920:-529.311,-46.6737,0 1/1:54:0,53:0:0:53:1896:-170.558,-15.9546,0 0/1:95:45,50:45:1616:50:1796:-133.324,0,-117.132 1/1:141:0,141:0:0:141:5021:-452.035,-42.4452,0 1/1:178:4,174:4:144:174:6236:-548.02,-40.2697,0 0/1:132:75,57:75:2681:57:2018:-142.153,0,-201.797 0/1:137:56,81:56:2008:81:2912:-221.073,0,-139.752 0/1:90:46,44:46:1641:44:1576:-115.039,0,-120.884 0/1:195:92,103:92:3304:103:3666:-271.441,0,-238.877 0/1:17:11,6:11:392:6:216:-14.673,0,-30.5025 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:31:16,15:16:561:15:540:-39.6046,0,-41.4852 1/1:215:0,215:0:0:215:7695:-692.584,-64.7215,0 1/1:104:0,104:0:0:104:3725:-335.449,-31.3071,0 0/1:154:86,68:86:3071:68:2409:-170.707,0,-230.255 0/1:95:50,45:50:1785:45:1616:-117.132,0,-132.333 0/1:78:29,47:29:1028:47:1680:-128.249,0,-69.5953 0/1:110:61,49:61:2177:49:1741:-123.859,0,-163.081 0/1:107:37,70:37:1324:70:2487:-191.87,0,-87.2519 1/1:133:0,133:0:0:133:4764:-428.917,-40.037,0 1/1:63:0,63:0:0:63:2256:-203.303,-18.9649,0 chr06 13650869 . C T 9956.45 PASS AB=0.479032;ABP=7.74551;AC=12;AF=0.285714;AN=42;AO=599;CIGAR=1X;DP=2314;DPB=2314;DPRA=1.09147;EPP=1243.63;EPPR=3683.78;GTI=0;LEN=1;MEANALT=1;MQM=59.99;MQMR=59.9988;NS=21;NUMALT=1;ODDS=16.6587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21247;QR=61311;RO=1715;RPL=7;RPP=1243.63;RPPR=3692.42;RPR=592;RUN=1;SAF=0;SAP=1303.72;SAR=599;SRF=1;SRP=3718.4;SRR=1714;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:164:163,1:163:5821:1:32:0,-46.1696,-520.804 0/0:55:55,0:55:1968:0:0:0,-16.5566,-177.395 0/1:93:51,42:51:1813:42:1488:-106.219,0,-135.454 0/0:141:141,0:141:5041:0:0:0,-42.4452,-453.834 0/0:183:179,4:179:6400:4:144:0,-41.7749,-562.773 0/1:129:56,73:56:1984:73:2577:-193.347,0,-139.999 0/1:138:81,57:81:2904:57:2016:-140.171,0,-220.053 0/1:89:43,46:43:1540:46:1635:-120.646,0,-112.101 0/1:194:103,91:103:3681:91:3236:-233.064,0,-273.092 0/1:17:7,10:7:252:10:351:-26.8092,0,-17.9114 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:30:15,15:15:536:15:524:-38.4587,0,-39.5439 0/0:219:219,0:219:7813:0:0:0,-65.9256,-703.198 0/0:107:107,0:107:3844:0:0:0,-32.2102,-346.155 0/1:155:70,85:70:2516:85:3033:-226.539,0,-180.032 0/1:96:46,50:46:1633:50:1765:-130.233,0,-118.358 0/1:78:50,28:50:1796:28:992:-66.1141,0,-138.442 0/1:114:53,61:53:1891:61:2181:-162.238,0,-136.15 0/1:107:71,36:71:2522:36:1273:-82.6607,0,-195.021 0/0:134:134,0:134:4812:0:0:0,-40.338,-433.234 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.378 chr06 13766090 . G A 23343.3 PASS AB=0.527458;ABP=8.13808;AC=29;AF=0.690476;AN=42;AO=1106;CIGAR=1X;DP=1494;DPB=1494;DPRA=0;EPP=2301.56;EPPR=798.332;GTI=1;LEN=1;MEANALT=1.04762;MQM=49.4005;MQMR=42.3575;NS=21;NUMALT=1;ODDS=8.23827;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39599;QR=13749;RO=386;RPL=1094;RPP=2301.56;RPPR=798.332;RPR=12;RUN=1;SAF=1106;SAP=2404.66;SAR=0;SRF=386;SRP=841.199;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:169:1,168:1:36:168:6014:-534.804,-47.3714,0 1/1:51:0,51:0:0:51:1836:-163.27,-15.3525,0 0/1:74:34,40:34:1220:40:1432:-106.229,0,-84.5578 1/1:70:0,70:0:0:70:2497:-223.276,-21.0721,0 1/1:158:0,158:0:0:158:5661:-506.543,-47.5627,0 0/1:57:22,35:22:783:35:1256:-95.5806,0,-52.0008 0/1:87:34,53:34:1197:53:1908:-144.575,0,-78.7527 0/1:66:34,30:34:1198:30:1072:-76.6211,0,-86.394 0/1:119:64,55:64:2283:55:1976:-141.036,0,-163.129 0/0:17:16,1:16:572:1:36:0,-1.54408,-46.0396 1/1:4:0,4:0:0:4:144:-13.2414,-1.20412,0 0/1:34:23,11:23:824:11:396:-25.5042,0,-62.8174 1/1:70:0,70:0:0:70:2496:-223.895,-21.0721,0 1/1:74:0,74:0:0:74:2640:-236.171,-22.2762,0 0/1:131:66,65:66:2364:65:2318:-167.9,0,-167.641 0/1:40:20,20:20:697:20:720:-52.3777,0,-48.739 0/1:53:21,32:21:756:32:1148:-87.2635,0,-50.1786 0/1:52:29,23:29:1031:23:828:-58.7259,0,-75.0732 0/1:70:21,49:21:752:49:1760:-135.996,0,-45.2709 1/1:63:1,62:1:36:62:2205:-193.657,-15.4439,0 1/1:35:0,35:0:0:35:1256:-111.714,-10.5361,0 chr06 13766102 . AA CA,CG 30157 PASS AB=0.52381,0.474903;ABP=6.83623,7.26102;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1077,387;CIGAR=1X1M,2X;DP=1467;DPB=1467;DPRA=0,1.14831;EPP=2341.69,843.37;EPPR=9.52472;GTI=1;LEN=1,2;MEANALT=1.66667,2;MQM=49.3965,41.876;MQMR=48;NS=21;NUMALT=2;ODDS=7.16087;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38179,13575;QR=86;RO=3;RPL=1077,387;RPP=2341.69,843.37;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=1077,387;SAP=2341.69,843.37;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:165:0,164,1:0:0:164,1:5836,36:-522.251,-49.3689,0,-519.399,-46.1673,-519.098 1/1:51:0,51,0:0:0:51,0:1794,0:-160.139,-15.3525,0,-160.139,-15.3525,-160.139 1/2:72:0,38,34:0:0:38,34:1338,1205:-203.674,-95.3801,-83.9409,-108.64,0,-98.4055 1/1:66:0,66,0:0:0:66,0:2340,0:-209.788,-19.868,0,-209.788,-19.868,-209.788 1/1:154:2,152,0:2:50:152,0:5388,0:-478.223,-41.9442,0,-478.826,-45.7566,-482.404 1/2:53:0,34,19:0:0:34,19:1207,669:-151.024,-53.2329,-42.9979,-98.1377,0,-92.4181 1/2:85:0,53,32:0:0:53,32:1893,1103:-240.434,-87.0248,-71.0702,-153.751,0,-144.118 1/2:66:0,29,37:0:0:29,37:1021,1305:-185.572,-103.045,-94.3155,-82.8728,0,-71.7347 1/2:119:0,55,64:0:0:55,64:1959,2251:-335.433,-177.037,-160.48,-158.744,0,-139.478 2/2:17:0,1,16:0:0:1,16:36,555:-47.8248,-44.9082,-44.6072,-4.81648,-1.54408,0 1/1:4:0,4,0:0:0:4,0:144,0:-13.2414,-1.20412,0,-13.2414,-1.20412,-13.2414 1/2:34:0,11,23:0:0:11,23:396,817:-97.5456,-65.4721,-62.1608,-32.4279,0,-25.5042 1/1:67:0,67,0:0:0:67,0:2386,0:-213.87,-20.169,0,-213.87,-20.169,-213.87 1/1:71:0,71,0:0:0:71,0:2525,0:-225.92,-21.3731,0,-225.92,-21.3731,-225.92 1/2:131:1,62,68:1:36:62,68:2185,2409:-363.813,-187.425,-171.699,-173.739,0,-156.207 1/2:42:0,21,21:0:0:21,21:747,727:-117.916,-57.4496,-51.1279,-60.8107,0,-54.4891 1/2:54:0,32,22:0:0:32,22:1148,771:-154.205,-60.967,-51.3341,-93.5852,0,-86.9625 1/2:52:0,23,29:0:0:23,29:801,989:-143.522,-78.79,-71.8664,-65.0732,0,-56.3433 1/2:69:0,49,20:0:0:49,20:1709,702:-193.825,-55.9799,-41.2295,-138.189,0,-132.168 1/1:63:0,62,1:0:0:62,1:2193,36:-195.601,-18.6639,0,-192.733,-15.4439,-192.432 1/1:32:0,32,0:0:0:32,0:1133,0:-101.662,-9.63296,0,-101.662,-9.63296,-101.662 chr06 13766110 . ATTAATC ATTATC,GTTATC 29103.7 PASS AB=0.515072,0.482307;ABP=4.51582,5.08501;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1039,385;CIGAR=3M1D3M,1X2M1D3M;DP=1428;DPB=1224;DPRA=0,1.16822;EPP=2259.17,839.027;EPPR=0;GTI=1;LEN=1,6;MEANALT=1.85714,2.28571;MQM=49.4418,41.8597;MQMR=0;NS=21;NUMALT=2;ODDS=6.73402;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36625,13393;QR=0;RO=0;RPL=1039,385;RPP=2259.17,839.027;RPPR=0;RPR=0,0;RUN=1,1;SAF=1039,385;SAP=2259.17,839.027;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:163:0,160,1:0:0:160,1:5620,36:-502.915,-48.1648,0,-500.064,-45.2908,-499.763 1/1:46:0,46,0:0:0:46,0:1625,0:-145.016,-13.8474,0,-145.016,-13.8474,-145.016 1/2:72:0,38,34:0:0:38,34:1333,1213:-204.109,-96.2391,-84.7999,-108.218,0,-97.9831 1/1:65:0,65,0:0:0:65,0:2266,0:-203.161,-19.567,0,-203.161,-19.567,-203.161 1/1:146:0,146,0:0:0:146,0:5151,0:-461.258,-43.9504,0,-461.258,-43.9504,-461.258 1/2:51:0,32,19:0:0:32,19:1144,666:-145.948,-53.2016,-43.5686,-93.0938,0,-87.3742 1/2:84:0,52,32:0:0:52,32:1835,1089:-235.126,-86.667,-71.0134,-148.799,0,-139.166 1/2:66:0,29,37:0:0:29,37:1036,1283:-185.905,-102.028,-93.2982,-84.2248,0,-73.0867 1/2:121:0,55,65:0:0:55,65:1955,2251:-334.943,-176.546,-159.989,-158.446,0,-138.879 2/2:16:0,1,15:0:0:1,15:36,520:-45.3735,-42.4571,-42.1561,-4.51545,-1.24305,0 1/1:4:0,4,0:0:0:4,0:140,0:-12.8831,-1.20412,0,-12.8831,-1.20412,-12.8831 1/2:33:0,10,23:0:0:10,23:360,797:-92.9218,-63.7611,-60.7508,-29.5128,0,-22.5891 1/1:66:0,66,0:0:0:66,0:2297,0:-205.962,-19.868,0,-205.962,-19.868,-205.962 1/1:68:0,68,0:0:0:68,0:2399,0:-214.934,-20.47,0,-214.934,-20.47,-214.934 1/2:130:0,63,67:0:0:63,67:2198,2335:-362.527,-184.935,-165.97,-177.935,0,-157.766 1/2:38:0,18,20:0:0:18,20:639,706:-107.576,-55.9016,-50.4831,-52.0222,0,-46.0016 1/2:51:0,28,22:0:0:28,22:1000,766:-141.689,-60.3709,-51.9421,-81.4098,0,-74.7872 1/2:51:0,22,29:0:0:22,29:792,1008:-144.614,-80.4238,-73.8012,-64.5407,0,-55.8109 1/2:66:0,46,20:0:0:46,20:1637,687:-186.887,-54.6883,-40.8409,-132.54,0,-126.519 1/1:58:0,57,1:0:0:57,1:1990,36:-177.684,-17.1587,0,-174.816,-13.9387,-174.515 1/1:33:0,33,0:0:0:33,0:1172,0:-104.624,-9.93399,0,-104.624,-9.93399,-104.624 chr06 14781163 . A C 4474.53 PASS AB=0.519084;ABP=4.66791;AC=12;AF=0.285714;AN=42;AO=274;CIGAR=1X;DP=845;DPB=845;DPRA=1.10646;EPP=597.994;EPPR=1242.92;GTI=0;LEN=1;MEANALT=1;MQM=59.8869;MQMR=59.9632;NS=21;NUMALT=1;ODDS=3.64909;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9703;QR=20431;RO=571;RPL=274;RPP=597.994;RPPR=1242.92;RPR=0;RUN=1;SAF=274;SAP=597.994;SAR=0;SRF=571;SRP=1242.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:84:84,0:84:2993:0:0:0,-25.2865,-269.596 0/0:34:33,1:33:1184:1:27:0,-7.53524,-104.169 0/1:31:15,16:15:540:16:557:-41.1236,0,-39.6046 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.947 0/1:63:37,26:37:1332:26:928:-64.8734,0,-101.217 0/1:94:39,55:39:1396:55:1961:-148.468,0,-97.6423 0/1:27:15,12:15:525:12:417:-29.7324,0,-39.4502 0/1:46:18,28:18:648:28:1004:-76.8285,0,-44.8045 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:20:10,10:10:360:10:347:-25.5422,0,-26.7237 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.618 0/0:40:40,0:40:1424:0:0:0,-12.0412,-128.457 0/1:78:37,41:37:1324:41:1459:-108.126,0,-95.9818 0/1:39:20,19:20:701:19:671:-48.9756,0,-51.6712 0/1:80:42,38:42:1508:38:1340:-96.7694,0,-111.932 0/1:29:12,17:12:424:17:608:-46.3222,0,-29.7665 0/1:12:5,7:5:180:7:244:-18.6871,0,-12.9397 0/0:24:23,1:23:828:1:32:0,-4.02541,-71.6448 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 chr06 14781169 . C A 11096.1 PASS AB=0.468872;ABP=7.33635;AC=30;AF=0.714286;AN=42;AO=557;CIGAR=1X;DP=832;DPB=832;DPRA=0;EPP=1212.52;EPPR=597.994;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9713;MQMR=60;NS=21;NUMALT=1;ODDS=3.17447;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19860;QR=9591;RO=274;RPL=557;RPP=1212.52;RPPR=597.994;RPR=0;RUN=1;SAF=557;SAP=1212.52;SAR=0;SRF=274;SRP=597.994;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2921:-263.122,-24.6845,0 1/1:35:1,34:1:36:34:1212:-105.788,-6.93778,0 0/1:29:15,13:15:528:13:468:-33.671,0,-39.0632 1/1:37:0,37:0:0:37:1324:-119.462,-11.1381,0 1/1:60:0,60:0:0:60:2127:-191.695,-18.0618,0 0/1:62:26,36:26:909:36:1275:-96.3884,0,-63.4595 0/1:89:54,35:54:1905:35:1240:-85.1116,0,-144.934 0/1:26:12,14:12:432:14:498:-37.3285,0,-31.3944 0/1:46:29,17:29:1023:17:612:-41.5661,0,-78.5344 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:19:10,9:10:356:9:320:-23.4228,0,-26.6617 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:38:0,38:0:0:38:1349:-121.709,-11.4391,0 0/1:80:43,37:43:1504:37:1324:-95.3797,0,-111.568 0/1:39:19,20:19:660:20:707:-52.2148,0,-47.9804 0/1:80:38,42:38:1337:42:1503:-111.481,0,-96.5455 0/1:27:16,11:16:539:11:396:-27.8549,0,-40.6992 0/1:12:7,5:7:222:5:180:-12.9397,0,-16.6793 1/1:24:1,23:1:36:23:824:-70.885,-3.62645,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 chr06 14842494 . T C 21705.1 PASS AB=0.473132;ABP=7.79437;AC=30;AF=0.714286;AN=42;AO=1049;CIGAR=1X;DP=1454;DPB=1454;DPRA=0;EPP=2263.55;EPPR=878.114;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9142;MQMR=59.9801;NS=21;NUMALT=1;ODDS=8.83538;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37289;QR=14411;RO=403;RPL=2;RPP=2263.55;RPPR=878.114;RPR=1047;RUN=1;SAF=0;SAP=2280.88;SAR=1049;SRF=0;SRP=878.114;SRR=403;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:1,106:1:36:106:3767:-335.631,-28.6119,0 1/1:87:0,87:0:0:87:3096:-278.869,-26.1896,0 0/1:32:16,16:16:576:16:559:-41.0037,0,-42.542 1/1:82:1,81:1:36:81:2891:-256.825,-21.0862,0 1/1:143:0,143:0:0:143:5044:-454.085,-43.0473,0 0/1:55:39,16:39:1379:16:572:-35.2568,0,-107.851 0/1:116:68,48:68:2428:48:1700:-118.365,0,-183.857 0/1:57:21,35:21:752:35:1248:-95.4075,0,-50.7888 0/1:109:62,47:62:2220:47:1684:-119.035,0,-167.252 0/1:15:9,6:9:320:6:216:-15.2751,0,-24.6269 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:21:11,10:11:396:10:360:-26.4088,0,-29.6611 1/1:122:0,121:0:0:121:4315:-388.168,-36.4246,0 1/1:61:0,61:0:0:61:2143:-193.069,-18.3628,0 0/1:128:65,63:65:2328:63:2256:-164.771,0,-171.248 0/1:61:27,34:27:972:34:1220:-91.744,0,-69.4269 0/1:78:42,36:42:1508:36:1273:-91.3906,0,-112.534 0/1:43:24,19:24:848:19:672:-47.8625,0,-63.6954 0/1:48:17,31:17:612:31:1099:-84.77,0,-40.964 1/1:47:0,47:0:0:47:1666:-150.226,-14.1484,0 1/1:38:0,38:0:0:38:1364:-123.061,-11.4391,0 chr06 15534758 . AAG ACAG 2987.47 PASS AB=0.507732;ABP=3.21178;AC=12;AF=0.285714;AN=42;AO=197;CIGAR=1M1I2M;DP=548;DPB=613.667;DPRA=1.81875;EPP=430.79;EPPR=754.34;GTI=0;LEN=1;MEANALT=1.41667;MQM=44.8579;MQMR=59.7428;NS=21;NUMALT=1;ODDS=1.3313;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6903;QR=11990;RO=346;RPL=0;RPP=430.79;RPPR=754.34;RPR=197;RUN=1;SAF=0;SAP=430.79;SAR=197;SRF=0;SRP=754.34;SRR=346;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:13:13,0:13:461:0:0:0,-3.91339,-41.8223 0/0:9:9,0:9:305:0:0:0,-2.70927,-27.7789 0/1:42:22,19:22:768:19:671:-46.9306,0,-56.7381 0/0:14:14,0:14:489:0:0:0,-4.21442,-44.3405 0/0:50:50,0:50:1741:0:0:0,-15.0515,-156.966 0/1:19:9,10:9:310:10:343:-25.194,0,-22.514 0/1:20:10,10:10:327:10:347:-25.2348,0,-23.725 0/1:15:4,11:4:135:11:384:-29.9613,0,-7.96793 0/1:38:24,13:24:830:13:460:-29.8145,0,-63.5192 0/1:141:68,73:68:2358:73:2560:-184.677,0,-170.019 0/0:22:22,0:22:775:0:0:0,-6.62266,-70.0486 0/1:14:3,10:3:108:10:345:-26.7026,0,-5.80382 0/0:16:16,0:16:550:0:0:0,-4.81648,-49.8164 0/0:19:19,0:19:663:0:0:0,-5.71957,-59.994 0/1:21:12,8:12:425:8:284:-19.1063,0,-32.2099 0/1:18:9,9:9:306:9:324:-23.7621,0,-22.4505 0/1:23:15,7:15:509:7:237:-14.5655,0,-39.2593 0/1:32:6,26:6:203:26:912:-71.5084,0,-8.96792 0/1:5:4,1:4:133:1:36:-2.03097,0,-10.793 0/0:13:13,0:13:452:0:0:0,-3.91339,-41.0026 0/0:4:4,0:4:142:0:0:0,-1.20412,-13.1292 chr06 15534904 . GAAAACAAAACT GAAAAAAAAAAT 8887.69 PASS AB=0.460304;ABP=19.2156;AC=12;AF=0.285714;AN=42;AO=547;CIGAR=5M1X4M1X1M;DP=1991;DPB=1987.83;DPRA=1.30672;EPP=1190.81;EPPR=2908.44;GTI=0;LEN=12;MEANALT=3.92857;MQM=50.3199;MQMR=59.9051;NS=21;NUMALT=1;ODDS=7.10678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19373;QR=46698;RO=1338;RPL=0;RPP=1190.81;RPPR=2908.44;RPR=547;RUN=1;SAF=0;SAP=1190.81;SAR=547;SRF=0;SRP=2908.44;SRR=1338;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:92,0:92:3202:0:0:0,-27.6948,-288.094 0/0:83:83,0:83:2886:0:0:0,-24.9855,-259.981 0/1:118:47,61:47:1665:61:2141:-158.297,0,-117.324 0/0:89:88,0:88:3063:0:0:0,-26.4906,-275.538 0/0:196:193,1:193:6731:1:21:0,-56.5291,-603.713 0/1:124:47,67:47:1652:67:2377:-178.407,0,-114.333 0/1:154:52,86:52:1824:86:3053:-230.704,0,-122.589 0/1:101:45,40:45:1563:40:1403:-100.31,0,-115.042 0/1:173:72,88:72:2514:88:3155:-235.279,0,-178.029 0/1:7:1,6:1:36:6:216:-17.624,0,-1.49106 0/0:4:4,0:4:139:0:0:0,-1.20412,-12.8524 0/1:23:16,6:16:562:6:207:-12.0227,0,-44.0157 0/0:123:123,0:123:4300:0:0:0,-37.0267,-387.151 0/0:113:113,0:113:3952:0:0:0,-34.0164,-355.881 0/1:145:54,80:54:1851:80:2828:-211.018,0,-126.216 0/1:93:51,35:51:1786:35:1247:-86.2157,0,-134.788 0/1:110:58,44:58:2024:44:1562:-109.64,0,-151.397 0/1:58:41,15:41:1439:15:528:-30.4443,0,-112.667 0/1:78:57,17:57:1997:17:599:-30.9263,0,-157.405 0/0:60:58,1:58:2017:1:36:0,-14.5459,-178.227 0/0:45:43,0:43:1495:0:0:0,-12.9443,-134.483 chr06 17112686 . 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T C 2060.3 PASS AB=0.38961;ABP=43.7607;AC=13;AF=0.309524;AN=42;AO=150;CIGAR=1X;DP=843;DPB=843;DPRA=0.517299;EPP=328.731;EPPR=1503.5;GTI=2;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.41874;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5382;QR=24733;RO=691;RPL=150;RPP=328.731;RPPR=1503.5;RPR=0;RUN=1;SAF=150;SAP=328.731;SAR=0;SRF=691;SRP=1503.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:59:44,15:44:1556:15:540:-31.1758,0,-122.568 0/0:79:79,0:79:2836:0:0:0,-23.7814,-255.478 0/0:64:64,0:64:2304:0:0:0,-19.2659,-207.62 0/1:24:15,9:15:540:9:324:-22.2811,0,-41.7118 0/1:44:21,23:21:752:23:828:-61.5988,0,-54.7609 0/1:45:18,27:18:648:27:972:-74.2516,0,-45.1055 0/1:44:28,15:28:999:15:540:-35.6324,0,-76.9205 0/1:8:5,3:5:180:3:106:-7.48086,0,-14.1438 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:21:11,10:11:396:10:360:-26.4227,0,-29.6611 0/0:76:76,0:76:2705:0:0:0,-22.8783,-243.693 0/0:59:58,0:58:2073:0:0:0,-17.4597,-186.587 0/1:24:19,5:19:680:5:180:-9.32734,0,-54.3044 0/1:11:6,5:6:197:5:180:-13.2407,0,-14.74 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:46:28,18:28:1008:18:644:-44.4432,0,-77.189 0/1:51:34,17:34:1215:17:600:-38.9767,0,-94.3032 0/0:90:90,0:90:3232:0:0:0,-27.0927,-291.101 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 chr06 17908243 . 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G T,C 43752.4 PASS AB=0.42272,0.576507;ABP=70.1346,68.7989;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1229,756;CIGAR=1X,1X;DP=1986;DPB=1986;DPRA=0,1.44068;EPP=2671.75,1644.64;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.80952,2.0625;MQM=59.6835,59.9206;MQMR=0;NS=21;NUMALT=2;ODDS=0.301284;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42199,26469;QR=0;RO=0;RPL=0,289;RPP=2671.75,94.0168;RPPR=0;RPR=1229,467;RUN=1,1;SAF=0,289;SAP=2671.75,94.0168;SAR=1229,467;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:0,46,4:0:0:46,4:1586,140:-142.676,-13.8474,0,-131.285,-2.10692,-130.081 1/1:67:0,67,0:0:0:67,0:2257,0:-203.391,-20.169,0,-203.391,-20.169,-203.391 1/2:90:0,56,34:0:0:56,34:1968,1208:-258.972,-98.7911,-81.9334,-160.535,0,-150.3 1/1:118:0,117,1:0:0:117,1:3975,32:-357.594,-35.2205,0,-355.016,-32.3222,-354.715 1/1:170:0,165,5:0:0:165,5:5692,176:-512.033,-49.67,0,-497.705,-34.9901,-496.2 1/2:84:0,45,39:0:0:45,39:1513,1361:-233.611,-111.046,-97.4998,-122.908,0,-111.168 1/2:135:0,72,63:0:0:72,63:2467,2181:-376.656,-176.401,-154.727,-200.598,0,-181.634 1/2:73:0,31,41:0:0:31,41:1066,1402:-199.827,-113.77,-104.438,-86.0402,0,-73.6979 1/2:208:0,71,137:0:0:71,137:2439,4815:-590.136,-392.263,-370.89,-198.218,0,-156.977 1/2:8:0,4,4:0:0:4,4:144,144:-23.8592,-12.1095,-10.9054,-12.1095,0,-10.9054 1/2:6:0,2,4:0:0:2,4:72,140:-17.6186,-11.7405,-11.1384,-6.23466,0,-5.03054 1/2:20:0,5,15:0:0:5,15:180,517:-56.872,-42.3392,-40.834,-14.8862,0,-10.3708 1/1:95:0,95,0:0:0:95,0:3262,0:-293.534,-28.5979,0,-293.534,-28.5979,-293.534 1/1:59:0,59,0:0:0:59,0:2037,0:-183.599,-17.7608,0,-183.599,-17.7608,-183.599 1/2:247:0,82,165:0:0:82,165:2848,5804:-704.175,-472.807,-448.123,-231.716,0,-182.047 1/2:124:0,22,102:0:0:22,102:765,3616:-357.139,-294.941,-288.319,-62.5464,0,-31.8414 1/2:92:0,41,51:0:0:41,51:1389,1808:-260.256,-147.647,-135.305,-112.955,0,-97.6021 1/2:119:0,65,54:0:0:65,54:2197,1831:-326.516,-148.812,-129.245,-178.042,0,-161.787 1/2:88:0,51,37:0:0:51,37:1773,1294:-249.766,-105.621,-90.2689,-144.494,0,-133.355 1/1:66:0,66,0:0:0:66,0:2295,0:-206.81,-19.868,0,-206.81,-19.868,-206.81 1/1:67:0,67,0:0:0:67,0:2274,0:-204.922,-20.169,0,-204.922,-20.169,-204.922 chr06 17913463 . 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CTAGTAGTAGTAGTAGT CTAGTAGTAGTAGTAGTAGT 3784.47 PASS AB=0.363636;ABP=125.6;AC=9;AF=0.214286;AN=42;AO=277;CIGAR=1M3I16M;DP=1626;DPB=1674.12;DPRA=1.43702;EPP=604.508;EPPR=2884.55;GTI=0;LEN=3;MEANALT=1.8;MQM=60;MQMR=59.9977;NS=21;NUMALT=1;ODDS=17.1256;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9730;QR=46334;RO=1327;RPL=277;RPP=604.508;RPPR=2884.55;RPR=0;RUN=1;SAF=277;SAP=604.508;SAR=0;SRF=1327;SRP=2884.55;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:92:91,0:91:3140:0:0:0,-27.3937,-282.473 0/0:52:52,0:52:1824:0:0:0,-15.6536,-164.442 0/1:85:61,24:61:2144:24:836:-49.9699,0,-167.642 0/0:68:64,0:64:2248:0:0:0,-19.2659,-202.228 0/0:162:159,1:159:5552:1:32:0,-45.2987,-496.599 0/0:66:66,0:66:2304:0:0:0,-19.868,-207.624 0/0:126:123,0:123:4293:0:0:0,-37.0267,-386.201 0/1:99:64,33:64:2227:33:1168:-75.9385,0,-171.21 0/1:132:78,54:78:2707:54:1912:-132.622,0,-204.143 0/0:4:4,0:4:141:0:0:0,-1.20412,-13.037 0/0:5:5,0:5:177:0:0:0,-1.50515,-16.277 0/1:19:10,9:10:354:9:320:-23.4228,0,-26.4806 0/0:83:77,0:77:2701:0:0:0,-23.1793,-242.987 0/0:70:70,0:70:2447:0:0:0,-21.0721,-220.49 0/1:134:79,55:79:2756:55:1941:-134.626,0,-207.951 0/1:54:30,24:30:1035:24:848:-60.384,0,-77.2025 0/1:71:42,29:42:1480:29:1000:-68.9341,0,-112.123 0/1:94:58,33:58:2014:33:1141:-75.2745,0,-153.817 0/1:71:55,15:55:1922:15:532:-26.8189,0,-151.867 0/0:90:90,0:90:3139:0:0:0,-27.0927,-282.743 0/0:49:49,0:49:1729:0:0:0,-14.7505,-155.897 chr06 18335256 . A T 3366.19 PASS AB=0.414105;ABP=38.4489;AC=9;AF=0.214286;AN=42;AO=229;CIGAR=1X;DP=892;DPB=892;DPRA=2.17502;EPP=500.277;EPPR=1438.35;GTI=0;LEN=1;MEANALT=1.11111;MQM=46.262;MQMR=34.3101;NS=21;NUMALT=1;ODDS=2.27681;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8158;QR=23451;RO=661;RPL=0;RPP=500.277;RPPR=1438.35;RPR=229;RUN=1;SAF=0;SAP=500.277;SAR=229;SRF=0;SRP=1438.35;SRR=661;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:43:43,0:43:1530:0:0:0,-12.9443,-120.66 0/0:23:23,0:23:794:0:0:0,-6.92369,-66.2178 0/0:26:25,0:25:879:0:0:0,-7.52575,-70.3822 0/0:42:42,0:42:1504:0:0:0,-12.6433,-122.517 0/1:139:94,44:94:3311:44:1568:-98.328,0,-226.307 0/1:31:16,15:16:576:15:536:-37.927,0,-39.2296 0/1:73:50,23:50:1766:23:824:-51.1162,0,-122.926 0/1:72:29,43:29:1023:43:1544:-116.053,0,-56.0942 0/1:74:35,39:35:1256:39:1379:-100.909,0,-69.5748 0/1:14:6,8:6:208:8:279:-20.975,0,-11.8764 0/0:8:8,0:8:284:0:0:0,-2.40824,-22.8415 0/0:5:5,0:5:172:0:0:0,-1.50515,-13.3222 0/1:58:41,17:41:1468:17:612:-37.5711,0,-101.703 0/0:45:45,0:45:1597:0:0:0,-13.5463,-127.329 0/0:35:35,0:35:1260:0:0:0,-10.536,-99.2988 0/0:19:19,0:19:665:0:0:0,-5.71957,-50.5817 0/0:32:32,0:32:1140:0:0:0,-9.63296,-80.8283 0/1:47:31,16:31:1104:16:576:-37.0166,0,-72.6254 0/1:45:21,24:21:739:24:840:-61.8793,0,-46.2534 0/0:43:43,0:43:1527:0:0:0,-12.9443,-124.763 0/0:18:18,0:18:648:0:0:0,-5.41854,-53.7741 chr06 18335282 . C T 14422.6 PASS AB=0.574818;ABP=29.6544;AC=33;AF=0.785714;AN=42;AO=651;CIGAR=1X;DP=884;DPB=884;DPRA=0;EPP=119.653;EPPR=4.58532;GTI=0;LEN=1;MEANALT=1;MQM=34.3395;MQMR=46.2532;NS=21;NUMALT=1;ODDS=1.54765;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23218;QR=8317;RO=233;RPL=419;RPP=119.653;RPPR=4.58532;RPR=232;RUN=1;SAF=0;SAP=1416.64;SAR=651;SRF=0;SRP=508.963;SRR=233;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1528:-120.382,-12.9443,0 1/1:25:0,25:0:0:25:885:-73.6145,-7.52575,0 1/1:25:0,25:0:0:25:900:-71.7111,-7.52575,0 1/1:43:0,43:0:0:43:1540:-125.48,-12.9443,0 0/1:140:45,95:45:1590:95:3412:-232.562,0,-100.02 0/1:32:15,17:15:540:17:604:-41.4544,0,-37.9548 0/1:73:24,49:24:847:49:1755:-120.684,0,-53.2071 0/1:70:44,26:44:1580:26:909:-47.8101,0,-119.837 0/1:74:39,35:39:1392:35:1240:-68.0769,0,-102.039 0/1:14:8,6:8:284:6:212:-12.2191,0,-21.4208 1/1:8:0,8:0:0:8:284:-22.8415,-2.40824,0 1/1:5:0,5:0:0:5:176:-13.5471,-1.50515,0 0/1:56:17,39:17:612:39:1388:-96.1004,0,-38.1732 1/1:44:0,44:0:0:44:1549:-124.049,-13.2453,0 1/1:36:0,36:0:0:36:1284:-101.638,-10.8371,0 1/1:19:0,19:0:0:19:684:-52.8824,-5.71957,0 1/1:29:0,29:0:0:29:1032:-74.7108,-8.72987,0 0/1:45:17,28:17:612:28:1004:-66.1382,0,-40.8216 0/1:44:24,20:24:860:20:716:-44.4336,0,-63.8198 1/1:41:0,41:0:0:41:1468:-119.663,-12.3422,0 1/1:18:0,18:0:0:18:648:-53.7741,-5.41854,0 chr06 18335293 . GC AT 3420.97 PASS AB=0.415929;ABP=37.6962;AC=9;AF=0.214286;AN=42;AO=235;CIGAR=2X;DP=916;DPB=916;DPRA=2.14625;EPP=513.306;EPPR=1479.61;GTI=0;LEN=2;MEANALT=1;MQM=46.2638;MQMR=34.3029;NS=21;NUMALT=1;ODDS=2.22931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8320;QR=24048;RO=680;RPL=235;RPP=513.306;RPPR=1479.61;RPR=0;RUN=1;SAF=0;SAP=513.306;SAR=235;SRF=0;SRP=1479.61;SRR=680;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1586:0:0:0,-13.5463,-125.139 0/0:25:25,0:25:877:0:0:0,-7.52575,-73.0453 0/0:26:26,0:26:925:0:0:0,-7.82678,-74.3509 0/0:43:43,0:43:1544:0:0:0,-12.9443,-125.68 0/1:145:99,46:99:3500:46:1619:-101.202,0,-239.092 0/1:31:16,15:16:576:15:538:-38.0949,0,-38.9584 0/1:74:50,24:50:1749:24:849:-53.0543,0,-121.307 0/1:73:29,44:29:1025:44:1584:-119.273,0,-56.202 0/1:76:36,40:36:1281:40:1405:-102.717,0,-70.0965 0/1:14:6,8:6:216:8:286:-21.5945,0,-12.3246 0/0:8:8,0:8:288:0:0:0,-2.40824,-23.0646 0/0:5:5,0:5:178:0:0:0,-1.50515,-13.5914 0/1:58:41,17:41:1476:17:602:-36.6941,0,-102.063 0/0:48:47,0:47:1638:0:0:0,-14.1484,-131.86 0/0:36:36,0:36:1274:0:0:0,-10.8371,-101.138 0/0:20:20,0:20:703:0:0:0,-6.0206,-53.7334 0/0:32:32,0:32:1137:0:0:0,-9.63296,-82.4426 0/1:48:31,17:31:1101:17:599:-38.7886,0,-72.4071 0/1:46:22,24:22:764:24:838:-61.2694,0,-48.1198 0/0:45:45,0:45:1562:0:0:0,-13.5463,-128.188 0/0:18:18,0:18:648:0:0:0,-5.41854,-53.7741 chr06 18335299 . T C 3352.29 PASS AB=0.40675;ABP=45.5334;AC=9;AF=0.214286;AN=42;AO=229;CIGAR=1X;DP=912;DPB=912;DPRA=2.15091;EPP=500.277;EPPR=1479.61;GTI=0;LEN=1;MEANALT=1.22222;MQM=46.2751;MQMR=34.2824;NS=21;NUMALT=1;ODDS=2.86147;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8172;QR=24334;RO=680;RPL=229;RPP=500.277;RPPR=1479.61;RPR=0;RUN=1;SAF=0;SAP=500.277;SAR=229;SRF=0;SRP=1479.61;SRR=680;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:44,0:44:1580:0:0:0,-13.2453,-123.107 0/0:25:25,0:25:877:0:0:0,-7.52575,-73.032 0/0:26:26,0:26:932:0:0:0,-7.82678,-74.5825 0/0:43:43,0:43:1544:0:0:0,-12.9443,-125.64 0/1:142:99,43:99:3556:43:1544:-95.261,0,-243.439 0/1:32:17,15:17:612:15:540:-37.9548,0,-41.8974 0/1:74:50,23:50:1785:23:820:-50.5473,0,-123.056 0/1:73:29,44:29:1029:44:1576:-118.606,0,-56.2505 0/1:77:37,40:37:1332:40:1425:-104.212,0,-73.3454 0/1:14:6,8:6:216:8:288:-21.7635,0,-12.3246 0/0:8:8,0:8:284:0:0:0,-2.40824,-22.8415 0/0:5:5,0:5:180:0:0:0,-1.50515,-13.6221 0/1:58:41,17:41:1476:17:612:-37.5711,0,-102.063 0/0:47:46,0:46:1644:0:0:0,-13.8474,-131.922 0/0:36:36,0:36:1277:0:0:0,-10.8371,-101.019 0/0:19:19,0:19:684:0:0:0,-5.71957,-51.8689 0/0:33:33,0:33:1158:0:0:0,-9.93399,-82.0573 0/1:47:31,16:31:1112:16:567:-36.2539,0,-72.9199 0/1:46:22,23:22:792:23:800:-57.8022,0,-49.8217 0/0:45:45,0:45:1616:0:0:0,-13.5463,-130.686 0/0:18:18,0:18:648:0:0:0,-5.41854,-53.7741 chr06 18335306 . A G 11205.7 PASS AB=0.58156;ABP=35.5978;AC=33;AF=0.785714;AN=42;AO=675;CIGAR=1X;DP=911;DPB=911;DPRA=0;EPP=1468.75;EPPR=513.306;GTI=0;LEN=1;MEANALT=1.04762;MQM=34.2356;MQMR=46.2638;NS=21;NUMALT=1;ODDS=2.07545;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24169;QR=8380;RO=235;RPL=675;RPP=1468.75;RPPR=513.306;RPR=0;RUN=1;SAF=0;SAP=1468.75;SAR=675;SRF=0;SRP=513.306;SRR=235;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1536:-121.578,-12.9443,0 1/1:25:0,25:0:0:25:888:-74.1654,-7.52575,0 1/1:25:0,25:0:0:25:896:-72.1115,-7.52575,0 1/1:43:0,43:0:0:43:1533:-124.791,-12.9443,0 0/1:144:46,98:46:1637:98:3520:-240.066,0,-102.977 0/1:32:15,17:15:540:17:612:-41.8974,0,-37.9548 0/1:72:24,47:24:864:47:1684:-114.781,0,-54.8692 0/1:73:44,29:44:1584:29:1040:-56.6753,0,-119.273 0/1:77:40,37:40:1402:37:1328:-73.3341,0,-102.055 0/1:14:8,6:8:288:6:216:-12.3246,0,-21.7635 1/1:8:0,8:0:0:8:288:-23.0646,-2.40824,0 1/1:5:0,5:0:0:5:180:-13.6221,-1.50515,0 0/1:58:17,41:17:612:41:1468:-101.703,0,-37.5711 1/1:48:0,48:0:0:48:1716:-137.07,-14.4494,0 1/1:35:0,35:0:0:35:1260:-99.3517,-10.5361,0 1/1:19:0,19:0:0:19:680:-52.0878,-5.71957,0 1/1:33:0,33:0:0:33:1160:-83.2072,-9.93399,0 0/1:48:17,31:17:604:31:1108:-72.5452,0,-39.2497 0/1:46:24,22:24:849:22:788:-49.6752,0,-62.2148 1/1:45:0,45:0:0:45:1620:-130.808,-13.5464,0 1/1:18:0,18:0:0:18:648:-53.7741,-5.41854,0 chr06 18335315 . T A 3649.9 PASS AB=0.336806;ABP=202.876;AC=11;AF=0.261905;AN=42;AO=301;CIGAR=1X;DP=1490;DPB=1490;DPRA=1.07505;EPP=656.623;EPPR=2584.89;GTI=2;LEN=1;MEANALT=1;MQM=42.8206;MQMR=39.6207;NS=21;NUMALT=1;ODDS=2.51674;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10772;QR=42422;RO=1189;RPL=297;RPP=622.342;RPPR=3.31894;RPR=4;RUN=1;SAF=4;SAP=622.342;SAR=297;SRF=588;SRP=3.31894;SRR=601;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2648:0:0:0,-22.2762,-221.174 0/0:68:68,0:68:2414:0:0:0,-20.47,-207.627 0/0:52:47,5:47:1684:5:180:0,-1.603,-130.011 0/0:88:88,0:88:3136:0:0:0,-26.4906,-267.27 0/1:210:165,45:165:5901:45:1616:-80.6181,0,-430.965 0/1:45:25,20:25:896:20:712:-48.9502,0,-63.0942 0/1:103:76,27:76:2720:27:964:-54.6236,0,-197.256 0/1:93:33,60:33:1180:60:2144:-152.066,0,-73.4009 0/1:88:45,43:45:1604:43:1536:-105.54,0,-101.648 0/1:14:2,12:2:72:12:432:-32.0403,0,-2.05373 0/0:8:8,0:8:284:0:0:0,-2.40824,-22.8415 0/1:7:4,3:4:144:3:108:-5.55416,0,-10.5378 0/1:95:77,18:77:2752:18:640:-28.4692,0,-204.72 0/0:96:96,0:96:3399:0:0:0,-28.8989,-285.56 0/0:61:58,3:58:2080:3:108:0,-10.7015,-166.897 0/0:40:38,2:38:1330:2:72:0,-7.35408,-107.151 0/1:60:51,9:51:1828:9:320:-2.04012,0,-133.908 0/1:69:43,26:43:1548:26:932:-54.6614,0,-110.494 0/1:80:52,28:52:1860:28:1008:-64.4123,0,-136.192 0/0:91:91,0:91:3252:0:0:0,-27.3937,-276.441 0/0:48:48,0:48:1690:0:0:0,-14.4494,-145.23 chr06 18768158 . ATTAG GTTAG,GTTAA 24786.6 PASS AB=0.617978,0.378812;ABP=78.3287,82.4834;AC=29,13;AF=0.690476,0.309524;AN=42;AO=935,238;CIGAR=1X4M,1X3M1X;DP=1180;DPB=1180;DPRA=0,0.976093;EPP=2033.34,519.821;EPPR=0;GTI=2;LEN=1,5;MEANALT=2.04762,2.4;MQM=59.7604,54.3824;MQMR=0;NS=21;NUMALT=2;ODDS=4.63633;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33372,8390;QR=0;RO=0;RPL=935,238;RPP=2033.34,519.821;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2033.34,519.821;SAR=935,238;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:96:0,96,0:0:0:96,0:3416,0:-307.644,-28.8989,0,-307.644,-28.8989,-307.644 1/1:25:0,25,0:0:0:25,0:900,0:-81.3095,-7.52575,0,-81.3095,-7.52575,-81.3095 1/2:64:0,44,20:0:0:44,20:1572,714:-186.594,-58.4261,-45.1808,-128.524,0,-122.503 1/1:61:0,60,0:0:0:60,0:2127,0:-191.338,-18.0618,0,-191.338,-18.0618,-191.338 1/1:143:0,141,1:0:0:141,1:5047,36:-454.029,-42.4452,0,-451.094,-39.4803,-450.793 1/2:52:0,34,18:0:0:34,18:1224,638:-151.882,-52.0134,-41.7784,-100.224,0,-94.8053 1/2:66:0,46,20:0:0:46,20:1648,696:-191.174,-56.7723,-42.9249,-134.752,0,-128.731 1/2:92:0,46,45:0:0:46,45:1632,1579:-260.935,-128.241,-114.394,-132.794,0,-119.248 1/2:104:0,64,40:0:0:64,40:2288,1417:-302.201,-115.641,-96.375,-186.915,0,-174.874 1/2:5:0,3,2:0:0:3,2:108,70:-14.8558,-6.03735,-5.13426,-9.17208,0,-8.57002 1/2:4:0,2,2:0:0:2,2:72,67:-11.637,-5.74945,-5.14739,-6.23466,0,-5.6326 1/2:12:0,5,7:0:0:5,7:180,252:-35.5672,-20.8798,-19.3747,-15.0469,0,-12.9397 1/1:71:0,67,1:0:0:67,1:2388,36:-214.81,-20.169,0,-211.875,-17.2263,-211.574 1/1:44:0,44,0:0:0:44,0:1557,0:-140.406,-13.2453,0,-140.406,-13.2453,-140.406 1/2:65:0,43,22:0:0:43,22:1535,781:-188.972,-63.8312,-50.8869,-125.496,0,-118.873 1/2:44:0,28,15:0:0:28,15:996,514:-122.982,-41.7992,-33.3703,-81.3004,0,-76.7849 1/2:31:0,14,17:0:0:14,17:500,595:-89.0243,-48.2548,-44.0404,-41.1218,0,-36.0042 1/2:51:0,31,20:0:0:31,20:1116,710:-149.169,-58.115,-48.7831,-91.4106,0,-85.39 1/2:33:0,25,8:0:0:25,8:887,285:-95.8357,-23.5689,-16.0431,-72.6224,0,-70.2141 1/1:84:0,84,0:0:0:84,0:3016,0:-271.666,-25.2865,0,-271.666,-25.2865,-271.666 1/1:33:0,33,0:0:0:33,0:1163,0:-104.973,-9.93399,0,-104.973,-9.93399,-104.973 chr06 18769404 . C A,G 29522.9 PASS AB=0.564369,0.435631;ABP=30.686,30.686;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1048,337;CIGAR=1X,1X;DP=1385;DPB=1385;DPRA=0,1.12402;EPP=2270.04,734.797;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=59.7529,59.7181;MQMR=0;NS=21;NUMALT=2;ODDS=4.47893;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37467,11993;QR=0;RO=0;RPL=1048,337;RPP=2278.71,734.797;RPPR=0;RPR=0,0;RUN=1,1;SAF=1,0;SAP=2270.04,734.797;SAR=1047,337;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:126:0,124,2:0:0:124,2:4426,72:-398.142,-37.3277,0,-392.267,-31.0931,-391.665 1/1:59:0,59,0:0:0:59,0:2108,0:-189.91,-17.7608,0,-189.91,-17.7608,-189.91 1/2:36:0,20,16:0:0:20,16:712,568:-104.659,-46.6307,-40.6101,-58.3837,0,-53.5672 1/1:68:0,68,0:0:0:68,0:2444,0:-220.208,-20.47,0,-220.208,-20.47,-220.208 1/1:129:0,129,0:0:0:129,0:4600,0:-414.066,-38.8329,0,-414.066,-38.8329,-414.066 1/2:82:0,44,38:0:0:44,38:1580,1364:-240.509,-111.622,-98.3763,-129.246,0,-117.807 1/2:105:0,57,48:0:0:57,48:2026,1712:-305.013,-139.916,-122.757,-165.453,0,-151.003 1/2:75:0,35,40:0:0:35,40:1248,1415:-217.337,-115.603,-105.067,-102.089,0,-90.0476 1/2:94:0,36,58:0:0:36,58:1296,2064:-274.315,-168.568,-157.731,-106.105,0,-88.6453 1/2:6:0,2,4:0:0:2,4:72,144:-17.9797,-12.1048,-11.5027,-6.23466,0,-5.03054 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:15:0,11,4:0:0:11,4:392,144:-44.0594,-12.1095,-8.79817,-32.3087,0,-31.1046 1/1:88:0,88,0:0:0:88,0:3154,0:-283.975,-26.4906,0,-283.975,-26.4906,-283.975 1/1:32:0,32,0:0:0:32,0:1144,0:-103.267,-9.63296,0,-103.267,-9.63296,-103.267 1/2:105:0,66,39:0:0:66,39:2372,1396:-307.706,-114.197,-94.3286,-193.867,0,-182.127 1/2:65:0,45,20:0:0:45,20:1612,716:-190.204,-58.7453,-45.1989,-131.816,0,-125.796 1/2:66:0,38,28:0:0:38,28:1364,992:-192.373,-81.1633,-69.7242,-111.565,0,-103.137 1/2:61:0,38,23:0:0:38,23:1352,824:-177.686,-67.5027,-56.0636,-110.541,0,-103.617 1/2:59:0,42,17:0:0:42,17:1508,582:-170.543,-47.5266,-34.8833,-123.363,0,-118.246 1/1:55:0,55,0:0:0:55,0:1945,0:-175.325,-16.5567,0,-175.325,-16.5567,-175.325 1/1:55:0,55,0:0:0:55,0:1968,0:-177.325,-16.5567,0,-177.325,-16.5567,-177.325 chr06 18769413 . T A 5260.68 PASS AB=0.429299;ABP=37.0927;AC=12;AF=0.285714;AN=42;AO=340;CIGAR=1X;DP=1406;DPB=1406;DPRA=1.43132;EPP=741.311;EPPR=2315.63;GTI=0;LEN=1;MEANALT=1;MQM=59.6412;MQMR=59.8075;NS=21;NUMALT=1;ODDS=8.90534;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12175;QR=38253;RO=1065;RPL=340;RPP=741.311;RPPR=2315.63;RPR=0;RUN=1;SAF=0;SAP=741.311;SAR=340;SRF=0;SRP=2315.63;SRR=1065;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:126:124,2:124:4437:2:72:0,-31.0931,-392.655 0/0:59:59,0:59:2120:0:0:0,-17.7608,-190.989 0/1:37:21,16:21:756:16:576:-41.0322,0,-57.2268 0/0:67:67,0:67:2412:0:0:0,-20.169,-217.329 0/0:131:130,1:130:4660:1:36:0,-35.9322,-416.042 0/1:86:46,40:46:1656:40:1440:-104.001,0,-123.44 0/1:102:57,45:57:2052:45:1612:-114.665,0,-154.246 0/1:76:35,41:35:1260:41:1468:-109.529,0,-90.8272 0/1:101:42,59:42:1508:59:2108:-159.582,0,-105.609 0/1:7:2,5:2:68:5:180:-14.4402,0,-4.3505 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1663 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.6 0/0:33:33,0:33:1176:0:0:0,-9.93399,-106.145 0/1:105:68,37:68:2444:37:1332:-88.5742,0,-188.604 0/1:66:47,19:47:1692:19:684:-42.0205,0,-132.686 0/1:66:38,28:38:1364:28:1000:-70.4432,0,-103.137 0/1:63:38,25:38:1368:25:892:-61.5733,0,-104.454 0/1:60:43,17:43:1548:17:595:-35.8064,0,-121.535 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.947 0/0:56:55,0:55:1980:0:0:0,-16.5566,-178.069 chr06 18819051 . TAAATG TATTG,TAATG 12504.4 PASS AB=0.5,0.49697;ABP=3.0103,3.03662;AC=29,13;AF=0.690476,0.309524;AN=42;AO=445,165;CIGAR=1M1D1M1X2M,1M1D4M;DP=614;DPB=511.667;DPRA=0,0.703922;EPP=969.316,361.303;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.85714,2.07143;MQM=58.9865,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.99085;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=15573,5778;QR=0;RO=0;RPL=445,165;RPP=969.316,361.303;RPPR=0;RPR=0,0;RUN=1,1;SAF=445,165;SAP=969.316,361.303;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:11:0,11,0:0:0:11,0:392,0:-35.3772,-3.31133,0,-35.3772,-3.31133,-35.3772 1/1:29:0,28,1:0:0:28,1:985,36:-88.544,-8.42884,0,-85.6063,-5.1316,-85.3053 1/2:28:0,16,12:0:0:16,12:574,409:-80.3525,-33.5231,-28.7066,-47.1778,0,-43.5655 1/1:27:0,26,0:0:0:26,0:890,0:-80.1705,-7.82678,0,-80.1705,-7.82678,-80.1705 1/1:68:0,68,0:0:0:68,0:2362,0:-212.774,-20.47,0,-212.774,-20.47,-212.774 1/2:37:0,12,25:0:0:12,25:420,883:-106.419,-72.2617,-68.6493,-34.508,0,-26.9822 1/2:32:0,15,17:0:0:15,17:536,577:-90.829,-47.1315,-42.6161,-44.0462,0,-38.9287 1/2:8:0,5,3:0:0:5,3:180,108:-23.8592,-9.17208,-7.66693,-15.0469,0,-14.1438 1/2:44:0,15,29:0:0:15,29:538,1024:-127.618,-83.7427,-79.2273,-44.2321,0,-35.5023 1/2:6:0,1,5:0:0:1,5:36,176:-17.6186,-14.6799,-14.3788,-3.29724,0,-1.79209 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/2:12:0,3,9:0:0:3,9:106,305:-33.7044,-25.0679,-24.1649,-8.98601,0,-6.27674 1/1:47:0,46,0:0:0:46,0:1621,0:-145.385,-13.8474,0,-145.385,-13.8474,-145.385 1/1:57:0,56,0:0:0:56,0:1899,0:-170.086,-16.8577,0,-170.086,-16.8577,-170.086 1/2:41:0,24,17:0:0:24,17:849,596:-117.971,-48.8503,-41.6256,-69.4726,0,-64.3551 1/2:26:0,14,12:0:0:14,12:489,424:-74.6288,-34.8841,-30.6696,-40.0959,0,-36.4836 1/2:18:0,13,5:0:0:13,5:457,180:-52.2387,-15.0469,-11.1335,-37.5492,0,-36.0441 1/2:46:0,23,23:0:0:23,23:791,808:-130.078,-66.1164,-59.1927,-64.3081,0,-57.3844 1/2:26:0,20,5:0:0:20,5:718,180:-73.2429,-14.6884,-8.66776,-58.5556,0,-57.0505 1/1:25:0,25,0:0:0:25,0:879,0:-79.4259,-7.52575,0,-79.4259,-7.52575,-79.4259 1/1:20:0,20,0:0:0:20,0:707,0:-63.8994,-6.0206,0,-63.8994,-6.0206,-63.8994 chr06 18820605 . C T 33821.8 PASS AB=0.421965;ABP=85.3631;AC=29;AF=0.690476;AN=42;AO=1763;CIGAR=1X;DP=2672;DPB=2672;DPRA=0;EPP=3831.32;EPPR=1974.71;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.8106;MQMR=59.8546;NS=21;NUMALT=1;ODDS=10.2953;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60911;QR=32331;RO=908;RPL=0;RPP=3831.32;RPPR=1974.71;RPR=1763;RUN=1;SAF=0;SAP=3831.32;SAR=1763;SRF=0;SRP=1974.71;SRR=908;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:258:1,257:1:36:257:8938:-800.778,-74.0675,0 1/1:132:0,132:0:0:132:4528:-407.691,-39.736,0 0/1:156:84,72:84:2987:72:2464:-175.054,0,-221.833 1/1:92:1,90:1:36:90:3049:-271.033,-24.1553,0 1/1:279:5,274:5:180:274:9452:-834.118,-67.4353,0 0/1:146:76,70:76:2701:70:2472:-178.758,0,-199.383 0/1:203:127,76:127:4498:76:2626:-175.47,0,-343.874 0/1:109:51,58:51:1824:58:2008:-147.836,0,-131.522 0/1:253:136,117:136:4862:117:4027:-286.471,0,-361.572 0/1:29:14,15:14:483:15:516:-38.0363,0,-35.0674 0/1:11:4,7:4:135:7:225:-17.2534,0,-9.17118 0/1:34:22,12:22:788:12:412:-27.1696,0,-61.0098 1/1:106:0,106:0:0:106:3643:-328.081,-31.9092,0 1/1:106:0,106:0:0:106:3690:-332.307,-31.9092,0 0/1:216:161,55:161:5743:55:1928:-108.775,0,-451.966 0/1:94:47,47:47:1680:47:1630:-118.675,0,-123.19 0/1:217:118,99:118:4215:99:3463:-246.534,0,-314.179 0/1:55:35,20:35:1244:20:685:-45.4106,0,-95.7076 0/1:34:25,9:25:883:9:306:-17.6336,0,-69.4201 1/1:124:1,123:1:36:123:4239:-378.087,-33.7294,0 1/1:18:0,18:0:0:18:610:-55.2182,-5.41854,0 chr06 18820613 . A G 15839.2 PASS AB=0.57116;ABP=73.1632;AC=13;AF=0.309524;AN=42;AO=918;CIGAR=1X;DP=2789;DPB=2789;DPRA=1.36681;EPP=1996.42;EPPR=4065.84;GTI=0;LEN=1;MEANALT=1;MQM=59.8192;MQMR=59.8685;NS=21;NUMALT=1;ODDS=15.3494;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32539;QR=66652;RO=1871;RPL=0;RPP=1996.42;RPPR=4065.84;RPR=918;RUN=1;SAF=0;SAP=1996.42;SAR=918;SRF=0;SRP=4065.84;SRR=1871;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:274:273,1:273:9743:1:36:0,-78.8839,-873.208 0/0:137:137,0:137:4879:0:0:0,-41.2411,-439.251 0/1:165:81,84:81:2891:84:2992:-219.839,0,-210.754 0/0:99:98,1:98:3475:1:36:0,-26.2037,-309.358 0/0:302:297,5:297:10592:5:180:0,-74.359,-936.62 0/1:146:71,75:71:2532:75:2678:-197.314,0,-184.175 0/1:208:78,130:78:2771:130:4533:-345.488,0,-187 0/1:112:60,52:60:2139:52:1855:-133.512,0,-158.821 0/1:255:118,137:118:4215:137:4899:-364.297,0,-302.768 0/1:32:17,15:17:608:15:531:-38.4889,0,-45.4191 0/1:11:7,4:7:248:4:144:-10.0023,0,-19.3529 0/1:33:10,23:10:360:23:804:-62.7426,0,-22.8103 0/0:115:115,0:115:4092:0:0:0,-34.6184,-368.461 0/0:113:113,0:113:4005:0:0:0,-34.0164,-360.634 0/1:224:63,161:63:2241:161:5734:-448.722,0,-134.521 0/1:100:50,50:50:1788:50:1769:-129.388,0,-131.084 0/1:224:104,120:104:3694:120:4235:-313.882,0,-265.173 0/1:51:16,35:16:572:35:1229:-95.5585,0,-36.4609 0/1:34:9,25:9:312:25:884:-69.4343,0,-18.1803 0/0:133:133,0:133:4764:0:0:0,-40.037,-428.907 0/0:21:21,0:21:731:0:0:0,-6.32163,-66.1104 chr06 18822864 . GCACTGA CCACTGT,CCAGTAT 32529 PASS AB=0.502964,0.487722;ABP=3.10039,4.55662;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1053,579;CIGAR=1X5M1X,1X2M1X1M2X;DP=1647;DPB=1646.86;DPRA=0,1.78146;EPP=2272.23,1260.29;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.38095,2.86667;MQM=59.68,40.1295;MQMR=0;NS=21;NUMALT=2;ODDS=3.9034;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37150,20340;QR=0;RO=0;RPL=2,0;RPP=2272.23,1260.29;RPPR=0;RPR=1051,579;RUN=1,1;SAF=0,0;SAP=2289.57,1260.29;SAR=1053,579;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,54,2:0:0:54,2:1890,66:-170.029,-16.2556,0,-164.809,-11.0591,-164.207 1/1:43:0,43,0:0:0:43,0:1512,0:-136.364,-12.9443,0,-136.364,-12.9443,-136.364 1/2:90:0,38,50:0:0:38,50:1341,1731:-243.118,-133.924,-122.485,-109.184,0,-94.1321 1/1:74:0,74,0:0:0:74,0:2582,0:-232.624,-22.2762,0,-232.624,-22.2762,-232.624 1/1:107:0,104,1:0:0:104,1:3676,34:-330.42,-31.3071,0,-327.719,-28.6127,-327.418 1/2:75:0,39,34:0:0:39,34:1380,1203:-200.637,-88.2398,-76.4997,-112.413,0,-102.178 1/2:156:0,68,88:0:0:68,88:2407,3108:-432.924,-236.876,-216.406,-196.392,0,-169.901 1/2:166:0,97,68:0:0:97,68:3420,2414:-463.28,-184.826,-155.626,-278.438,0,-257.968 1/2:186:0,89,94:0:0:89,94:3146,3269:-515.963,-259.749,-232.957,-256.249,0,-227.953 1/2:14:0,2,12:0:0:2,12:72,428:-39.1203,-33.2424,-32.6403,-6.23466,0,-2.6223 1/2:14:0,5,9:0:0:5,9:180,310:-38.814,-24.1152,-22.6101,-15.0469,0,-12.3376 1/2:40:0,22,18:0:0:22,18:788,618:-112.426,-48.1453,-41.5226,-64.6221,0,-59.2036 1/1:34:0,34,0:0:0:34,0:1207,0:-108.862,-10.235,0,-108.862,-10.235,-108.862 1/1:69:0,68,0:0:0:68,0:2424,0:-218.043,-20.47,0,-218.043,-20.47,-218.043 1/2:158:0,90,68:0:0:90,68:3209,2410:-451.048,-189.472,-162.379,-261.925,0,-241.455 1/2:69:0,25,43:0:0:25,43:900,1502:-193.006,-119.565,-112.039,-73.5017,0,-60.5574 1/2:43:0,12,31:0:0:12,31:428,1095:-121.411,-86.5167,-82.9043,-35.2464,0,-25.9145 1/2:107:0,64,41:0:0:64,41:2252,1441:-295.331,-112.127,-92.8607,-183.257,0,-170.915 1/2:63:0,43,20:0:0:43,20:1492,711:-176.75,-55.4756,-42.5313,-121.617,0,-115.596 1/1:46:0,46,0:0:0:46,0:1601,0:-144.37,-13.8474,0,-144.37,-13.8474,-144.37 1/1:36:0,36,0:0:0:36,0:1243,0:-112.163,-10.8371,0,-112.163,-10.8371,-112.163 chr06 18915465 . CTTC TTTT,TTTC 101807 PASS AB=0.512207,0.482422;ABP=5.66102,8.50684;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2805,993;CIGAR=1X2M1X,1X3M;DP=3811;DPB=3812.75;DPRA=0,1.00637;EPP=6076.63,2159.28;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.28571,2.5625;MQM=51.9537,55.1581;MQMR=60;NS=21;NUMALT=2;ODDS=29.4332;PAIRED=0,0;PAIREDR=0;PAO=3.5,3.5;PQA=72,72;PQR=0;PRO=0;QA=98869,35281;QR=36;RO=1;RPL=1366,517;RPP=7.13571,6.68628;RPPR=5.18177;RPR=1439,476;RUN=1,1;SAF=1364,517;SAP=7.6002,6.68628;SAR=1441,476;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:197:0,195,2:0:0:195,2:6857,72:-610.114,-58.7009,0,-604.255,-52.5135,-603.653 1/1:139:0,139,0:0:0:139,0:4884,0:-436.89,-41.8432,0,-436.89,-41.8432,-436.89 1/2:117:0,58,59:0:0:58,59:2068,2116:-340.285,-172.767,-155.308,-167.874,0,-150.113 1/1:205:0,205,0:0:0:205,0:7244,0:-648.042,-61.7112,0,-648.042,-61.7112,-648.042 1/1:384:0,382,2:0:0:382,2:13378,72:-1191.78,-114.993,0,-1185.92,-108.767,-1185.31 1/2:98:0,43,54:0:0:43,54:1508,1907:-276.102,-154.315,-141.371,-121.781,0,-105.526 1/2:301:0,148,153:0:0:148,153:5259,5417:-865.692,-440.484,-395.932,-425.56,0,-379.503 1/2:216:0,124,91:0:0:124,91:4374,3211:-611.913,-259.544,-222.216,-352.487,0,-325.093 1/2:326:0,176,145:0:0:176,145:6210,5166:-921.116,-420.794,-367.813,-500.386,0,-456.737 1/2:27:0,13,14:0:0:13,14:463,496:-78.0587,-40.6129,-36.6995,-37.799,0,-33.5846 1/2:19:0,10,9:0:0:10,9:352,320:-54.6945,-26.3107,-23.3004,-28.7353,0,-26.026 1/2:39:0,15,24:0:0:15,24:531,864:-113.553,-70.7064,-66.191,-43.2003,0,-35.9756 1/1:181:0,181,0:0:0:181,0:6412,0:-573.074,-54.4864,0,-573.074,-54.4864,-573.074 1/1:271:0,269,0:0:0:269,0:9503,0:-847.881,-80.9771,0,-847.881,-80.9771,-847.881 1/2:250:0,137,111:0:0:137,111:4776,3924:-702.011,-318.949,-277.708,-383.12,0,-349.706 1/2:112:0,58,54:0:0:58,54:2046,1936:-322.714,-157.908,-140.448,-165.101,0,-148.845 1/2:155:0,64,91:0:0:64,91:2269,3257:-447.782,-265.811,-246.545,-182.323,0,-154.929 1/2:252:0,118,133:0:0:118,133:4101,4704:-709.88,-381.17,-345.649,-328.703,0,-288.666 1/2:136:1,85,50:1:36:85,50:2996,1783:-382.355,-142.219,-119.569,-237.492,0,-225.378 1/1:279:0,278,1:0:0:278,1:9876,36:-884,-83.6863,0,-881.063,-80.3891,-880.762 1/1:107:0,107,0:0:0:107,0:3762,0:-336.209,-32.2102,0,-336.209,-32.2102,-336.209 chr06 18916891 . GACA AACA,AACG 77246.3 PASS AB=0.47714,0.518171;ABP=10.7543,7.90311;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1575,2294;CIGAR=1X3M,1X2M1X;DP=3887;DPB=3887.5;DPRA=0,2.78849;EPP=3423.08,4984.37;EPPR=0;GTI=3;LEN=1,4;MEANALT=2.38095,2.92857;MQM=59.9841,59.9172;MQMR=0;NS=21;NUMALT=2;ODDS=0.70877;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,72;PQR=0;PRO=0;QA=55865,76872;QR=0;RO=0;RPL=0,0;RPP=3423.08,4984.37;RPPR=0;RPR=1575,2294;RUN=1,1;SAF=1575,2294;SAP=3423.08,4984.37;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,97,0:0:0:97,0:3416,0:-307.376,-29.1999,0,-307.376,-29.1999,-307.376 1/1:97:0,96,0:0:0:96,0:3409,0:-306.774,-28.8989,0,-306.774,-28.8989,-306.774 1/2:81:0,44,37:0:0:44,37:1542,1283:-230.104,-104.63,-91.3842,-125.822,0,-114.684 1/1:103:0,103,0:0:0:103,0:3666,0:-330.142,-31.0061,0,-330.142,-31.0061,-330.142 1/1:147:0,145,2:0:0:145,2:5172,69:-465.275,-43.6494,0,-459.67,-37.6989,-459.068 1/2:160:0,72,87:0:0:72,87:2552,2981:-449.698,-241.789,-220.115,-207.898,0,-181.708 1/2:185:0,89,92:0:0:89,92:3184,3229:-522.43,-262.792,-236.001,-259.647,0,-231.952 1/2:93:0,36,57:0:0:36,57:1284,1927:-261.221,-156.544,-145.707,-105.026,0,-87.8676 1/2:156:0,84,72:0:0:84,72:2997,2465:-444.755,-200.429,-175.142,-244.675,0,-223.001 2/2:436:0,8,426:0:0:8,426:258,14254:-1282.41,-1261.61,-1259.2,-128.239,-107.451,0 2/2:334:0,2,331:0:0:2,331:68,11202:-1007.77,-1002.26,-1001.66,-99.6409,-94.1318,0 2/2:673:0,17,651:0:0:17,651:581,21273:-1913.93,-1866.78,-1861.66,-195.971,-148.759,0 1/1:74:0,74,0:0:0:74,0:2612,0:-235.327,-22.2762,0,-235.327,-22.2762,-235.327 1/1:98:0,98,0:0:0:98,0:3497,0:-314.94,-29.5009,0,-314.94,-29.5009,-314.94 1/2:139:0,59,80:0:0:59,80:2108,2729:-393.633,-221.773,-204.012,-172.21,0,-148.128 1/2:65:0,35,30:0:0:35,30:1256,1049:-188.144,-85.6886,-75.1525,-102.809,0,-93.7783 1/2:87:0,39,48:0:0:39,48:1383,1643:-246.384,-133.705,-121.965,-113.028,0,-98.5785 1/2:682:0,315,365:0:0:315,365:11141,12243:-1898.95,-991.525,-896.701,-907.441,0,-797.565 1/2:58:0,41,16:0:0:41,16:1456,525:-161.046,-42.3891,-30.0469,-118.634,0,-113.818 1/1:79:0,79,0:0:0:79,0:2783,0:-250.708,-23.7814,0,-250.708,-23.7814,-250.708 1/1:42:0,42,0:0:0:42,0:1500,0:-135.295,-12.6433,0,-135.295,-12.6433,-135.295 chr06 19071133 . C T 73441.4 PASS AB=0.538617;ABP=28.6701;AC=29;AF=0.690476;AN=42;AO=2767;CIGAR=1X;DP=3695;DPB=3695;DPRA=0;EPP=5994.12;EPPR=2009.46;GTI=0;LEN=1;MEANALT=1;MQM=59.9978;MQMR=59.9763;NS=21;NUMALT=1;ODDS=0.179796;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98476;QR=33098;RO=928;RPL=1236;RPP=71.3053;RPPR=87.4824;RPR=1531;RUN=1;SAF=1234;SAP=73.17;SAR=1533;SRF=368;SRP=89.2702;SRR=560;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:277:1,276:1:36:276:9844:-882.306,-79.787,0 1/1:117:1,116:1:36:116:4091:-364.782,-31.6222,0 0/1:134:56,78:56:2004:78:2780:-210.104,0,-140.296 1/1:262:0,262:0:0:262:9359:-842.277,-78.8699,0 1/1:428:11,417:11:388:417:14813:-1297.66,-93.5835,0 0/1:119:51,68:51:1815:68:2424:-182.594,0,-127.618 0/1:197:95,102:95:3386:102:3640:-268.501,0,-245.652 0/1:104:44,60:44:1568:60:2128:-160.482,0,-110.105 0/1:344:178,166:178:6338:166:5930:-430.254,0,-466.96 0/1:21:12,9:12:432:9:309:-21.8191,0,-32.8996 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:36:17,19:17:612:19:669:-49.6969,0,-44.5764 1/1:184:0,184:0:0:184:6552:-589.765,-55.3895,0 1/1:163:0,163:0:0:163:5763:-518.789,-49.0679,0 0/1:290:133,157:133:4715:157:5593:-416.195,0,-337.213 0/1:184:94,90:94:3344:90:3182:-231.215,0,-245.787 0/1:217:99,118:99:3548:118:4207:-313.488,0,-254.205 0/1:166:66,100:66:2364:100:3557:-270.369,0,-163.047 0/1:164:65,99:65:2332:99:3534:-268.9,0,-160.771 1/1:224:0,224:0:0:224:7981:-718.315,-67.4307,0 1/1:59:1,58:1:36:58:2084:-184.232,-14.1625,0 chr06 19277677 . G T 11606.4 PASS AB=0.525213;ABP=10.1278;AC=13;AF=0.309524;AN=42;AO=687;CIGAR=1X;DP=2249;DPB=2249;DPRA=1.04954;EPP=1494.81;EPPR=3351.56;GTI=0;LEN=1;MEANALT=1;MQM=59.9971;MQMR=59.9987;NS=21;NUMALT=1;ODDS=12.9739;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24556;QR=55903;RO=1562;RPL=687;RPP=1494.81;RPPR=3351.56;RPR=0;RUN=1;SAF=0;SAP=1494.81;SAR=687;SRF=0;SRP=3394.85;SRR=1562;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:148:145,3:145:5196:3:108:0,-34.4773,-457.703 0/0:102:101,1:101:3632:1:36:0,-27.1068,-323.485 0/1:93:40,53:40:1436:53:1885:-141.931,0,-101.542 0/0:80:80,0:80:2864:0:0:0,-24.0824,-257.997 0/0:194:188,6:188:6728:6:216:0,-38.6093,-585.805 0/1:111:60,51:60:2152:51:1822:-130.847,0,-160.533 0/1:216:93,123:93:3331:123:4405:-331.597,0,-234.984 0/1:129:58,71:58:2084:71:2518:-188.036,0,-148.997 0/1:147:57,90:57:2012:90:3205:-244.421,0,-137.1 0/1:10:6,4:6:216:4:140:-9.93428,0,-16.7802 0/1:14:6,8:6:201:8:284:-21.6889,0,-14.2026 0/1:18:11,7:11:396:7:252:-17.6104,0,-30.5642 0/0:130:130,0:130:4647:0:0:0,-39.1339,-418.392 0/0:129:129,0:129:4611:0:0:0,-38.8329,-415.154 0/1:243:111,132:111:3972:132:4748:-354.325,0,-284.521 0/1:68:28,40:28:1004:40:1432:-108.708,0,-70.2058 0/1:64:37,27:37:1328:27:949:-66.4569,0,-100.556 0/1:106:53,53:53:1886:53:1908:-140.088,0,-138.108 0/1:70:52,18:52:1868:18:648:-37.5798,0,-147.327 0/0:101:101,0:101:3611:0:0:0,-30.404,-325.195 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 chr06 19529465 . T C 3613.28 PASS AB=0.418244;ABP=36.741;AC=12;AF=0.285714;AN=42;AO=244;CIGAR=1X;DP=1322;DPB=1322;DPRA=0.572263;EPP=532.85;EPPR=2341.69;GTI=1;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.30414;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8740;QR=38585;RO=1077;RPL=0;RPP=532.85;RPPR=2341.69;RPR=244;RUN=1;SAF=244;SAP=532.85;SAR=0;SRF=1077;SRP=2341.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:56:55,1:55:1949:1:36:0,-13.2594,-172.086 0/1:44:23,21:23:820:21:752:-54.7609,0,-60.8772 0/0:140:140,0:140:5016:0:0:0,-42.1442,-451.586 0/0:105:105,0:105:3764:0:0:0,-31.6081,-338.959 0/1:57:36,21:36:1292:21:756:-51.2085,0,-99.4251 0/1:51:34,17:34:1220:17:612:-40.0609,0,-94.7543 0/1:58:30,28:30:1076:28:992:-72.1341,0,-79.6931 0/1:101:59,42:59:2108:42:1508:-105.611,0,-159.585 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:7:5,2:5:176:2:72:-4.72951,0,-14.0778 0/1:28:17,11:17:612:11:396:-27.5539,0,-46.9846 0/0:151:151,0:151:5416:0:0:0,-45.4555,-487.569 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 0/1:89:45,43:45:1600:43:1548:-112.763,0,-117.44 0/1:23:13,10:13:468:10:360:-25.8206,0,-35.536 0/1:31:22,9:22:792:9:316:-19.4469,0,-62.2737 0/1:44:26,18:26:928:18:640:-44.684,0,-70.5929 0/1:48:27,21:27:972:21:752:-53.5568,0,-73.3485 0/0:146:146,0:146:5240:0:0:0,-43.9504,-471.736 0/0:56:56,0:56:2016:0:0:0,-16.8577,-181.713 chr06 19889924 . CGT AGC,CGC 35238.6 PASS AB=0.391304,0.602843;ABP=125.746,112.884;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1003,725;CIGAR=1X1M1X,2M1X;DP=1737;DPB=1737;DPRA=0,1.31757;EPP=2172.32,1577.33;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.09524,2.375;MQM=59.8734,59.9448;MQMR=0;NS=21;NUMALT=2;ODDS=10.3211;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35092,25857;QR=0;RO=0;RPL=0,0;RPP=2181,1577.33;RPPR=0;RPR=1003,725;RUN=1,1;SAF=1002,725;SAP=2172.32,1577.33;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:0,45,1:0:0:45,1:1595,36:-143.477,-13.5464,0,-140.54,-10.2491,-140.239 1/1:54:0,52,0:0:0:52,0:1798,0:-161.777,-15.6536,0,-161.777,-15.6536,-161.777 1/2:52:0,25,27:0:0:25,27:873,960:-149.597,-78.5885,-71.0627,-71.3607,0,-63.2328 1/1:89:0,88,1:0:0:88,1:2982,36:-268.12,-26.4906,0,-265.182,-23.1934,-264.881 1/1:98:0,98,0:0:0:98,0:3443,0:-310.037,-29.5009,0,-310.037,-29.5009,-310.037 1/2:97:0,32,65:0:0:32,65:1114,2304:-278.636,-188.055,-178.422,-90.9312,0,-71.3643 1/2:265:0,98,166:0:0:98,166:3426,5922:-760.703,-482.003,-452.502,-278.712,0,-228.741 1/2:47:0,20,27:0:0:20,27:704,964:-136.257,-78.949,-72.9284,-57.6623,0,-49.5345 1/2:142:0,49,90:0:0:49,90:1719,3208:-401.431,-261.54,-246.79,-139.931,0,-112.838 1/2:25:0,9,16:0:0:9,16:324,572:-73.4346,-46.9969,-44.2877,-26.7966,0,-21.9801 1/2:11:0,7,4:0:0:7,4:252,139:-32.2181,-11.6483,-9.54107,-20.9217,0,-19.7176 1/2:36:0,12,24:0:0:12,24:414,856:-103.765,-70.1364,-66.524,-33.9777,0,-26.753 1/1:50:0,50,0:0:0:50,0:1760,0:-158.677,-15.0515,0,-158.677,-15.0515,-158.677 1/1:41:0,41,0:0:0:41,0:1456,0:-131.336,-12.3422,0,-131.336,-12.3422,-131.336 1/2:150:0,44,106:0:0:44,106:1546,3792:-435.403,-309.569,-296.324,-126.186,0,-94.2771 1/2:85:0,22,63:0:0:22,63:784,2248:-247.523,-183.618,-176.995,-64.2617,0,-45.2968 1/2:58:0,14,43:0:0:14,43:483,1540:-164.824,-125.589,-121.375,-39.2238,0,-26.2795 1/2:138:0,75,62:0:0:75,62:2660,2208:-396.668,-179.954,-157.376,-216.71,0,-198.047 1/2:90:0,61,28:0:0:61,28:2152,1000:-256.835,-81.6039,-63.2411,-175.304,0,-166.875 1/1:73:0,71,2:0:0:71,2:2447,72:-220.125,-21.3731,0,-214.25,-15.1385,-213.648 1/1:90:0,90,0:0:0:90,0:3160,0:-284.622,-27.0927,0,-284.622,-27.0927,-284.622 chr06 19889982 . CTTTCT CTTTCC,ATTTCCT 41134.7 PASS AB=0.460139,0.535529;ABP=18.9369,15.6628;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1326,620;CIGAR=5M1X,1X3M1I2M;DP=1953;DPB=2056.67;DPRA=0,1.04399;EPP=2839.12,1349.32;EPPR=5.18177;GTI=0;LEN=1,7;MEANALT=2,2.4;MQM=59.9992,59.9435;MQMR=60;NS=21;NUMALT=2;ODDS=25.2326;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47089,21968;QR=33;RO=1;RPL=1326,620;RPP=2882.38,1349.32;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=5,0;SAP=2839.12,1349.32;SAR=1321,620;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:108:0,108,0:0:0:108,0:3804,0:-342.554,-32.5112,0,-342.554,-32.5112,-342.554 1/1:106:0,106,0:0:0:106,0:3770,0:-339.498,-31.9092,0,-339.498,-31.9092,-339.498 1/2:79:0,35,44:0:0:35,44:1230,1543:-226.028,-125.915,-115.379,-100.464,0,-87.2186 1/1:88:0,88,0:0:0:88,0:3148,0:-283.546,-26.4906,0,-283.546,-26.4906,-283.546 1/1:154:0,152,1:0:0:152,1:5429,35:-488.384,-45.7566,0,-485.536,-42.9138,-485.235 1/2:147:0,53,94:0:0:53,94:1900,3327:-426.297,-271.331,-255.377,-155.323,0,-127.026 1/2:189:0,88,101:0:0:88,101:3149,3577:-548.524,-291.737,-265.247,-257.143,0,-226.739 1/2:102:0,49,53:0:0:49,53:1733,1873:-294.041,-152.892,-138.142,-141.502,0,-125.548 1/2:153:0,76,77:0:0:76,77:2655,2726:-438.37,-222.406,-199.528,-216.315,0,-193.136 1/2:17:0,10,7:0:0:10,7:352,252:-49.5731,-20.9217,-17.9114,-29.0079,0,-26.9007 1/2:13:0,5,7:0:0:5,7:172,251:-34.4339,-20.4706,-18.9654,-13.9557,0,-11.8484 1/2:32:0,16,16:0:0:16,16:553,569:-91.6529,-46.7258,-41.9094,-45.2775,0,-40.461 1/1:94:0,94,0:0:0:94,0:3362,0:-302.794,-28.2968,0,-302.794,-28.2968,-302.794 1/1:105:0,105,0:0:0:105,0:3730,0:-335.9,-31.6082,0,-335.9,-31.6082,-335.9 1/2:123:0,36,85:0:0:36,85:1292,3025:-351.924,-246.535,-235.698,-105.387,0,-79.7994 1/2:94:0,48,45:0:0:48,45:1720,1591:-269.854,-129.573,-115.124,-140.276,0,-126.73 1/2:64:0,24,40:0:0:24,40:849,1420:-185.206,-116.057,-108.832,-69.5031,0,-57.4619 1/2:77:0,42,34:0:0:42,34:1512,1206:-221.611,-98.2369,-85.5936,-123.372,0,-113.137 1/2:64:0,49,15:0:0:49,15:1760,537:-187.725,-44.1501,-29.3996,-143.933,0,-139.418 1/1:104:1,102,1:1:33:102,1:3567,36:-317.921,-28.0518,0,-315.284,-27.7527,-317.651 1/1:40:0,40,0:0:0:40,0:1402,0:-126.473,-12.0412,0,-126.473,-12.0412,-126.473 chr06 20010111 . T C 5360.56 PASS AB=0.463284;ABP=11.7803;AC=13;AF=0.309524;AN=42;AO=348;CIGAR=1X;DP=1374;DPB=1374;DPRA=0.765193;EPP=758.683;EPPR=2226.6;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.75304;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12215;QR=36200;RO=1024;RPL=348;RPP=758.683;RPPR=2226.6;RPR=0;RUN=1;SAF=348;SAP=758.683;SAR=0;SRF=1024;SRP=2226.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:38,0:38:1355:0:0:0,-11.4391,-122.25 0/0:28:28,0:28:999:0:0:0,-8.42884,-90.2245 0/1:70:36,34:36:1283:34:1216:-88.6745,0,-94.7005 0/0:108:108,0:108:3804:0:0:0,-32.5112,-342.559 0/0:82:81,1:81:2880:1:36:0,-21.0862,-255.837 0/1:70:32,38:32:1111:38:1350:-100.728,0,-79.2213 0/1:97:47,50:47:1628:50:1727:-126.511,0,-117.603 0/1:85:56,29:56:1989:29:1020:-66.5218,0,-153.695 0/1:173:88,85:88:3093:85:2950:-213.655,0,-226.519 0/1:11:4,7:4:144:7:248:-19.3529,0,-10.0023 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:16:5,11:5:180:11:383:-29.9868,0,-11.7356 0/0:179:179,0:179:6363:0:0:0,-53.8844,-572.763 0/0:87:87,0:87:2999:0:0:0,-26.1896,-270.144 0/1:52:31,21:31:1112:21:748:-51.9917,0,-84.7378 0/1:33:14,19:14:500:19:667:-50.4206,0,-35.4022 0/1:43:30,11:30:1072:11:388:-22.5564,0,-84.0906 0/1:44:19,25:19:661:25:883:-66.5421,0,-46.5663 0/1:47:34,13:34:1220:13:455:-27.1335,0,-95.9584 0/0:70:70,0:70:2491:0:0:0,-21.0721,-224.443 0/0:33:33,0:33:1172:0:0:0,-9.93399,-105.787 chr06 20079288 . G A 33582.6 PASS AB=0.496418;ABP=3.16585;AC=30;AF=0.714286;AN=42;AO=1647;CIGAR=1X;DP=2358;DPB=2358;DPRA=0;EPP=3579.43;EPPR=1544.76;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9939;MQMR=59.9972;NS=21;NUMALT=1;ODDS=7.09509;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58893;QR=25361;RO=710;RPL=0;RPP=3579.43;RPPR=1544.76;RPR=1647;RUN=1;SAF=1647;SAP=3579.43;SAR=0;SRF=710;SRP=1544.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:95:0,95:0:0:95:3416:-307.653,-28.5979,0 1/1:120:0,120:0:0:120:4320:-388.974,-36.1236,0 0/1:137:69,68:69:2465:68:2421:-176.903,0,-180.861 1/1:92:0,92:0:0:92:3298:-297.039,-27.6948,0 1/1:273:8,265:8:288:265:9435:-822.846,-55.9138,0 0/1:117:57,59:57:2033:59:2109:-154.799,0,-147.961 0/1:169:73,96:73:2575:96:3434:-258.396,0,-181.122 0/1:104:56,48:56:2008:48:1712:-123.059,0,-149.686 0/1:239:137,102:137:4924:102:3664:-258.016,0,-371.362 0/1:30:19,11:19:684:11:396:-26.9518,0,-52.8594 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:71:33,38:33:1188:38:1330:-98.6226,0,-85.8555 1/1:123:0,123:0:0:123:4420:-397.97,-37.0267,0 1/1:99:0,99:0:0:99:3556:-320.247,-29.802,0 0/1:193:83,110:83:2973:110:3915:-294.441,0,-209.702 0/1:100:50,50:50:1777:50:1788:-131.1,0,-130.108 0/1:111:66,45:66:2356:45:1617:-112.406,0,-178.884 0/1:64:39,25:39:1385:25:883:-60.5204,0,-105.681 0/1:61:20,41:20:705:41:1472:-114.413,0,-45.41 1/1:102:0,102:0:0:102:3619:-325.909,-30.7051,0 1/1:51:0,51:0:0:51:1836:-165.521,-15.3525,0 chr06 20098759 . C T 25319.4 PASS AB=0.661996;ABP=133.166;AC=30;AF=0.714286;AN=42;AO=1008;CIGAR=1X;DP=1204;DPB=1204;DPRA=0;EPP=2191.85;EPPR=428.619;GTI=2;LEN=1;MEANALT=1;MQM=59.9335;MQMR=59.9898;NS=21;NUMALT=1;ODDS=2.49754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35831;QR=6978;RO=196;RPL=814;RPP=831.1;RPPR=323.192;RPR=194;RUN=1;SAF=814;SAP=831.1;SAR=194;SRF=183;SRP=323.192;SRR=13;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:3,83:3:104:83:2961:-257.019,-16.1858,0 1/1:40:0,40:0:0:40:1432:-129.177,-12.0412,0 0/1:41:15,26:15:540:26:917:-70.5024,0,-36.5943 1/1:78:0,78:0:0:78:2766:-249.182,-23.4803,0 1/1:162:0,162:0:0:162:5771:-519.497,-48.7669,0 0/1:44:5,39:5:180:39:1396:-112.692,0,-3.30674 0/1:89:16,73:16:572:73:2607:-208.07,0,-25.0218 0/1:49:23,26:23:812:26:916:-68.006,0,-58.6504 0/1:95:43,52:43:1518:52:1856:-138.721,0,-108.314 0/1:15:4,11:4:144:11:376:-29.6513,0,-8.79817 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 1/1:68:0,68:0:0:68:2405:-216.706,-20.47,0 1/1:85:0,85:0:0:85:3017:-271.759,-25.5876,0 0/1:53:12,41:12:428:41:1464:-116.101,0,-22.9042 0/1:44:15,29:15:536:29:1035:-80.2177,0,-35.3286 0/1:43:25,18:25:896:18:648:-45.7049,0,-68.0161 0/1:48:12,36:12:424:36:1276:-100.694,0,-24.047 0/1:30:12,18:12:428:18:633:-48.2648,0,-29.8279 1/1:80:0,80:0:0:80:2832:-255.116,-24.0824,0 1/1:30:0,30:0:0:30:1055:-95.26,-9.0309,0 chr06 20099398 . A G 10607.8 PASS AB=0.536424;ABP=6.49041;AC=29;AF=0.690476;AN=42;AO=405;CIGAR=1X;DP=546;DPB=546;DPRA=0;EPP=4.55982;EPPR=4.87376;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.58623;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14365;QR=5044;RO=141;RPL=405;RPP=882.457;RPPR=309.188;RPR=0;RUN=1;SAF=194;SAP=4.55982;SAR=211;SRF=65;SRP=4.87376;SRR=76;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 1/1:19:0,19:0:0:19:659:-59.6311,-5.71957,0 1/1:49:0,49:0:0:49:1744:-157.244,-14.7505,0 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.974 0/1:29:16,13:16:572:13:455:-32.5521,0,-43.0836 0/1:25:13,12:13:468:12:432:-31.6954,0,-34.9339 0/1:20:2,18:2:72:18:632:-51.1856,0,-0.816122 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:8:1,7:1:36:7:248:-20.256,0,-1.19003 1/1:24:0,24:0:0:24:848:-76.6391,-7.22472,0 1/1:27:0,27:0:0:27:956:-86.3557,-8.12781,0 0/1:30:10,20:10:356:20:716:-55.7368,0,-23.3503 0/1:21:13,8:13:464:8:288:-19.9458,0,-35.7759 0/1:12:7,5:7:248:5:176:-12.5727,0,-19.0518 0/1:74:44,30:44:1568:30:1038:-71.4486,0,-119.135 0/1:44:16,28:16:576:28:1004:-77.4305,0,-38.9297 1/1:18:1,17:1:36:17:608:-51.4537,-1.82027,0 1/1:64:0,64:0:0:64:2265:-204.111,-19.2659,0 chr06 20151437 . 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T C 27755.4 PASS AB=0.524545;ABP=8.76668;AC=29;AF=0.690476;AN=42;AO=1364;CIGAR=1X;DP=1894;DPB=1894;DPRA=0;EPP=2964.9;EPPR=1145.22;GTI=1;LEN=1;MEANALT=1;MQM=59.9883;MQMR=60;NS=21;NUMALT=1;ODDS=6.28163;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48569;QR=19011;RO=530;RPL=1364;RPP=2964.9;RPPR=1145.22;RPR=0;RUN=1;SAF=0;SAP=2964.9;SAR=1364;SRF=0;SRP=1153.89;SRR=530;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:0,147:0:0:147:5237:-471.469,-44.2514,0 1/1:43:0,43:0:0:43:1532:-138.173,-12.9443,0 0/1:70:31,39:31:1112:39:1366:-102.162,0,-79.3192 1/1:75:0,75:0:0:75:2659:-239.554,-22.5773,0 1/1:212:3,209:3:108:209:7481:-663.256,-53.7432,0 0/1:110:60,50:60:2145:50:1800:-129.169,0,-160.202 0/1:209:97,112:97:3473:112:3982:-295.654,0,-249.864 0/1:70:37,33:37:1332:33:1176:-85.0757,0,-99.1103 0/1:210:91,119:91:3268:119:4255:-319.912,0,-231.123 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:8:1,7:1:36:7:248:-20.256,0,-1.19003 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 1/1:79:0,79:0:0:79:2806:-252.777,-23.7814,0 1/1:72:1,71:1:36:71:2537:-224.981,-18.0759,0 0/1:131:64,67:64:2300:67:2340:-171.419,0,-167.826 0/1:72:48,24:48:1728:24:852:-55.3262,0,-134.131 0/1:56:24,32:24:849:32:1148:-86.7722,0,-59.8701 0/1:75:34,41:34:1224:41:1464:-109.479,0,-87.8898 0/1:79:31,48:31:1112:48:1701:-129.593,0,-76.61 1/1:82:1,81:1:36:81:2892:-256.895,-21.0862,0 1/1:84:2,82:2:72:82:2913:-255.567,-18.4498,0 chr06 21811959 . 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C T 22643.4 PASS AB=0.452073;ABP=64.6216;AC=13;AF=0.309524;AN=42;AO=1396;CIGAR=1X;DP=3913;DPB=3913;DPRA=2.3034;EPP=2897;EPPR=5113.95;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9828;MQMR=59.9913;NS=21;NUMALT=1;ODDS=20.7208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48978;QR=90047;RO=2515;RPL=1380;RPP=2897;RPPR=5122.35;RPR=16;RUN=1;SAF=0;SAP=3034.39;SAR=1396;SRF=1;SRP=5455.58;SRR=2514;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:152:152,0:152:5435:0:0:0,-45.7566,-489.279 0/0:96:96,0:96:3444:0:0:0,-28.8989,-310.172 0/1:109:65,44:65:2332:44:1558:-107.699,0,-177.327 0/0:163:163,0:163:5844:0:0:0,-49.0679,-526.071 0/0:85:84,0:84:3020:0:0:0,-25.2865,-271.67 0/1:60:41,19:41:1476:19:647:-40.4834,0,-114.884 0/1:122:67,55:67:2408:55:1894:-134.009,0,-180.25 0/1:102:42,60:42:1508:60:2102:-158.742,0,-105.31 0/1:153:80,73:80:2848:73:2496:-178.834,0,-210.502 0/1:272:133,139:133:4751:139:4848:-354.596,0,-345.868 0/1:545:317,227:317:11332:227:8068:-562.111,0,-855.74 0/1:787:434,353:434:15556:353:12430:-881.645,0,-1162.83 0/0:150:150,0:150:5360:0:0:0,-45.1545,-482.534 0/0:83:83,0:83:2980:0:0:0,-24.9855,-268.432 0/1:129:62,67:62:2205:67:2333:-171.393,0,-159.881 0/1:46:34,12:34:1224:12:404:-22.8371,0,-96.6197 0/1:92:58,34:58:2060:34:1196:-80.2506,0,-157.974 0/1:611:313,298:313:11204:298:10474:-758.668,0,-824.315 0/1:60:45,15:45:1620:15:528:-29.7896,0,-128.028 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/0:48:48,0:48:1716:0:0:0,-14.4494,-154.726 chr06 21815322 . G A 26801.8 PASS AB=0.484418;ABP=9.98069;AC=13;AF=0.309524;AN=42;AO=1601;CIGAR=1X;DP=4138;DPB=4138;DPRA=2.44159;EPP=3479.54;EPPR=5507.69;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9625;MQMR=59.9913;NS=21;NUMALT=1;ODDS=6.92366;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57388;QR=90703;RO=2535;RPL=1601;RPP=3479.54;RPPR=5507.69;RPR=0;RUN=1;SAF=0;SAP=3479.54;SAR=1601;SRF=0;SRP=5507.69;SRR=2535;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:150:150,0:150:5364:0:0:0,-45.1545,-482.893 0/0:99:99,0:99:3524:0:0:0,-29.802,-317.371 0/1:114:63,51:63:2260:51:1828:-130.484,0,-169.345 0/0:166:166,0:166:5933:0:0:0,-49.971,-534.078 0/0:86:86,0:86:3064:0:0:0,-25.8886,-275.99 0/1:64:42,22:42:1500:22:792:-52.3393,0,-115.839 0/1:129:67,62:67:2400:62:2228:-161.951,0,-177.424 0/1:108:42,66:42:1512:66:2364:-180.507,0,-103.863 0/1:166:80,86:80:2864:86:3084:-227.817,0,-208.026 0/1:301:133,168:133:4749:168:5995:-449.046,0,-336.957 0/1:574:320,254:320:11468:254:9120:-647.961,0,-859.202 0/1:822:437,385:437:15630:385:13832:-997.201,0,-1158.95 0/0:151:151,0:151:5389:0:0:0,-45.4555,-485.141 0/0:82:82,0:82:2944:0:0:0,-24.6845,-265.193 0/1:140:63,77:63:2248:77:2749:-204.88,0,-160.439 0/1:54:34,20:34:1220:20:720:-48.8732,0,-93.8512 0/1:105:59,45:59:2108:45:1604:-113.071,0,-158.411 0/1:656:314,341:314:11254:341:12208:-901.023,0,-815.206 0/1:72:48,24:48:1728:24:864:-56.4084,0,-134.131 0/0:50:50,0:50:1784:0:0:0,-15.0515,-160.843 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 chr06 22127005 . CCGCG TCGCC,CCGCC 22470.1 PASS AB=0.546595,0.449821;ABP=13.533,15.2141;AC=29,13;AF=0.690476,0.309524;AN=42;AO=887,253;CIGAR=1X3M1X,4M1X;DP=1145;DPB=1145;DPRA=0,0.682851;EPP=1920.43,552.393;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.90476,2.21429;MQM=39.8444,54.2451;MQMR=0;NS=21;NUMALT=2;ODDS=5.32959;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30864,8957;QR=0;RO=0;RPL=0,0;RPP=1929.11,552.393;RPPR=0;RPR=887,253;RUN=1,1;SAF=1,0;SAP=1920.43,552.393;SAR=886,253;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,100,2:0:0:100,2:3468,72:-296.996,-30.103,0,-291.133,-24.1776,-290.531 1/1:45:0,45,0:0:0:45,0:1529,0:-135.461,-13.5464,0,-135.461,-13.5464,-135.461 1/2:64:0,35,28:0:0:35,28:1210,1004:-175.47,-81.8253,-71.2893,-93.7738,0,-85.345 1/1:51:0,51,0:0:0:51,0:1748,0:-150.04,-15.3525,0,-150.04,-15.3525,-150.04 1/1:142:0,142,0:0:0:142,0:4957,0:-425.44,-42.7463,0,-425.44,-42.7463,-425.44 1/2:35:0,22,13:0:0:22,13:767,464:-98.2814,-37.6722,-31.0496,-60.9568,0,-57.0434 1/2:55:0,21,34:0:0:21,34:727,1188:-154.162,-96.8696,-90.5479,-57.6342,0,-47.3992 1/2:41:0,26,15:0:0:26,15:905,536:-114.912,-43.9391,-36.1123,-71.3222,0,-66.8068 1/2:80:0,49,31:0:0:49,31:1724,1096:-221.316,-89.1188,-74.3683,-132.541,0,-123.21 1/2:15:0,8,7:0:0:8,7:278,252:-43.0344,-20.9153,-18.5071,-22.47,0,-20.3628 1/2:7:0,5,2:0:0:5,2:179,72:-20.4891,-6.23275,-4.7276,-14.6134,0,-14.0113 1/2:10:0,6,4:0:0:6,4:208,144:-28.098,-12.1058,-10.2996,-16.34,0,-15.1359 1/1:108:0,107,0:0:0:107,0:3729,0:-320.23,-32.2102,0,-320.23,-32.2102,-320.23 1/1:46:0,46,0:0:0:46,0:1593,0:-137.432,-13.8474,0,-137.432,-13.8474,-137.432 1/2:30:0,15,15:0:0:15,15:520,531:-83.4099,-43.4325,-38.9171,-40.3185,0,-35.8031 1/2:33:0,21,12:0:0:21,12:735,419:-91.2679,-34.3446,-28.023,-57.2666,0,-53.6542 1/2:29:0,13,15:0:0:13,15:458,531:-78.6855,-43.1917,-39.2783,-35.5653,0,-31.0499 1/2:90:0,39,51:0:0:39,51:1339,1799:-252.677,-146.178,-134.437,-106.842,0,-91.4896 1/2:69:0,45,24:0:0:45,24:1596,849:-190.974,-69.012,-55.4656,-122.307,0,-115.082 1/1:57:0,56,0:0:0:56,0:1981,0:-171.39,-16.8577,0,-171.39,-16.8577,-171.39 1/1:35:0,35,0:0:0:35,0:1213,0:-107.382,-10.5361,0,-107.382,-10.5361,-107.382 chr06 22149663 . G A 20172.8 PASS AB=0.588313;ABP=54.0212;AC=29;AF=0.690476;AN=42;AO=980;CIGAR=1X;DP=1294;DPB=1294;DPRA=0;EPP=2131.05;EPPR=684.853;GTI=2;LEN=1;MEANALT=1;MQM=59.9837;MQMR=59.9936;NS=21;NUMALT=1;ODDS=4.99181;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35051;QR=11241;RO=314;RPL=980;RPP=2131.05;RPPR=684.853;RPR=0;RUN=1;SAF=0;SAP=2131.05;SAR=980;SRF=0;SRP=684.853;SRR=314;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:1,93:1:36:93:3340:-297.218,-24.6985,0 1/1:33:0,33:0:0:33:1180:-106.508,-9.93399,0 0/1:52:23,29:23:824:29:1036:-77.9004,0,-58.8298 1/1:40:0,40:0:0:40:1430:-128.998,-12.0412,0 1/1:117:2,115:2:72:115:4116:-363.788,-28.3838,0 0/1:79:45,34:45:1597:34:1216:-85.9652,0,-120.237 0/1:86:37,49:37:1324:49:1752:-132.076,0,-93.5732 0/1:51:17,34:17:604:34:1212:-94.0338,0,-39.3381 0/1:87:24,63:24:864:63:2256:-177.113,0,-51.893 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:16:7,9:7:252:9:324:-24.6894,0,-18.2125 1/1:95:0,95:0:0:95:3376:-304.058,-28.5979,0 1/1:59:0,59:0:0:59:2100:-189.269,-17.7608,0 0/1:110:29,81:29:1036:81:2900:-228.123,0,-60.4406 0/1:61:40,21:40:1436:21:752:-49.6434,0,-111.175 0/1:56:25,31:25:900:31:1108:-83.1586,0,-64.4633 0/1:94:46,48:46:1648:48:1720:-126.789,0,-120.312 0/1:49:15,34:15:540:34:1212:-94.6359,0,-34.1861 1/1:73:1,72:1:36:72:2581:-228.941,-18.3769,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 chr06 22432744 . T A 9343.19 PASS AB=0.537;ABP=14.9013;AC=13;AF=0.309524;AN=42;AO=545;CIGAR=1X;DP=1686;DPB=1686;DPRA=1.07767;EPP=1169.15;EPPR=2463.32;GTI=0;LEN=1;MEANALT=1;MQM=59.9633;MQMR=60;NS=21;NUMALT=1;ODDS=10.3041;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19481;QR=39426;RO=1141;RPL=0;RPP=1186.46;RPPR=2463.32;RPR=545;RUN=1;SAF=2;SAP=1169.15;SAR=543;SRF=0;SRP=2480.66;SRR=1141;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:99,4:99:3422:4:144:0,-17.6925,-294.879 0/0:98:98,0:98:3417:0:0:0,-29.5009,-307.742 0/1:105:42,63:42:1488:63:2244:-170.615,0,-102.606 0/0:99:99,0:99:3411:0:0:0,-29.802,-307.202 0/0:144:141,3:141:4853:3:108:0,-33.2731,-426.854 0/1:79:34,45:34:1150:45:1616:-121.949,0,-80.0145 0/1:87:47,40:47:1618:40:1440:-103.708,0,-119.715 0/1:111:51,60:51:1778:60:2143:-159.723,0,-126.885 0/1:141:71,70:71:2452:70:2504:-183.157,0,-178.486 0/1:13:9,4:9:316:4:144:-9.40023,0,-24.8655 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:21:14,7:14:492:7:252:-16.7073,0,-38.2907 0/0:51:51,0:51:1781:0:0:0,-15.3525,-160.571 0/0:90:90,0:90:3064:0:0:0,-27.0927,-275.986 0/1:165:68,97:68:2335:97:3475:-263.291,0,-160.738 0/1:89:42,47:42:1465:47:1688:-125.415,0,-105.351 0/1:60:21,39:21:718:39:1396:-107.877,0,-46.8722 0/1:73:36,37:36:1267:37:1291:-94.5121,0,-92.3567 0/1:52:26,26:26:878:26:928:-68.1847,0,-63.6732 0/0:60:59,1:59:2017:1:36:0,-14.4635,-178.197 0/0:41:41,0:41:1432:0:0:0,-12.3422,-129.176 chr06 22622940 . 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GTAAG ATAGC,GTAGC 43207.3 PASS AB=0.493827,0.499588;ABP=3.41242,3.01209;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1373,691;CIGAR=1X2M2X,3M2X;DP=2074;DPB=2074;DPRA=1.57031,1.02276;EPP=2975.76,1494.82;EPPR=0;GTI=0;LEN=5,2;MEANALT=2.1,2.42857;MQM=59.965,59.9942;MQMR=0;NS=21;NUMALT=2;ODDS=5.99215;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48497,24474;QR=0;RO=0;RPL=1372,690;RPP=2975.76,1494.82;RPPR=0;RPR=1,1;RUN=1,1;SAF=0,0;SAP=2984.44,1503.5;SAR=1373,691;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:0,151,0:0:0:151,0:5368,0:-483.256,-45.4555,0,-483.256,-45.4555,-483.256 1/1:85:0,85,0:0:0:85,0:2990,0:-269.335,-25.5876,0,-269.335,-25.5876,-269.335 1/1:111:0,111,0:0:0:111,0:3921,0:-353.083,-33.4143,0,-353.083,-33.4143,-353.083 1/1:99:0,99,0:0:0:99,0:3518,0:-316.833,-29.802,0,-316.833,-29.802,-316.833 1/2:102:0,54,47:0:0:54,47:1903,1660:-290.265,-135.324,-119.069,-155.08,0,-140.931 1/1:96:0,96,0:0:0:96,0:3371,0:-303.608,-28.8989,0,-303.608,-28.8989,-303.608 1/2:184:0,99,85:0:0:99,85:3472,2999:-527.061,-244.555,-214.753,-282.857,0,-257.27 2/2:64:0,0,64:0:0:0,64:0,2248:-202.582,-202.582,-202.582,-19.2659,-19.2659,0 1/2:169:0,75,93:0:0:75,93:2635,3298:-483.261,-268.792,-246.215,-214.57,0,-186.574 1/2:11:0,7,4:0:0:7,4:245,144:-32.0368,-12.1095,-10.0023,-20.2835,0,-19.0794 2/2:18:0,1,17:0:0:1,17:36,612:-55.0536,-52.1162,-51.8152,-5.11751,-1.82027,0 1/2:38:0,25,13:0:0:25,13:887,455:-109.64,-37.3683,-29.8425,-72.6235,0,-68.7101 1/2:137:0,65,68:0:0:65,68:2314,2418:-385.715,-197.115,-177.548,-188.662,0,-168.192 1/2:126:0,55,71:0:0:55,71:1929,2471:-358.245,-201.266,-184.709,-157.329,0,-135.955 1/2:226:0,113,111:0:0:113,111:4024,3962:-651.045,-323.065,-289.049,-328.045,0,-294.631 1/2:105:0,38,67:0:0:38,67:1323,2396:-303.304,-195.728,-184.289,-107.927,0,-87.7584 1/1:102:0,100,0:0:0:100,0:3519,0:-316.634,-30.103,0,-316.634,-30.103,-316.634 1/2:52:0,25,27:0:0:25,27:874,955:-149.231,-78.137,-70.6112,-71.4455,0,-63.3177 1/2:65:0,44,21:0:0:44,21:1551,750:-187.784,-61.5045,-48.2591,-126.635,0,-120.314 1/1:96:0,93,3:0:0:93,3:3299,106:-296.777,-27.9958,0,-288.145,-19.0098,-287.242 1/1:37:0,37,0:0:0:37,0:1318,0:-118.922,-11.1381,0,-118.922,-11.1381,-118.922 chr06 25625972 . T G 11360.2 PASS AB=0.462351;ABP=21.65;AC=13;AF=0.309524;AN=42;AO=701;CIGAR=1X;DP=2750;DPB=2750;DPRA=0.942812;EPP=1525.21;EPPR=4452.36;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9878;NS=21;NUMALT=1;ODDS=18.038;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25038;QR=73454;RO=2049;RPL=701;RPP=1525.21;RPPR=4452.36;RPR=0;RUN=1;SAF=0;SAP=1525.21;SAR=701;SRF=0;SRP=4452.36;SRR=2049;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:168:168,0:168:6024:0:0:0,-50.573,-542.263 0/0:101:101,0:101:3624:0:0:0,-30.404,-326.365 0/1:70:32,38:32:1148:38:1364:-101.989,0,-82.5577 0/0:108:108,0:108:3838:0:0:0,-32.5112,-345.615 0/0:283:282,1:282:10101:1:36:0,-81.5932,-905.422 0/1:86:42,44:42:1508:44:1572:-115.883,0,-110.126 0/1:193:85,108:85:3041:108:3857:-289.228,0,-215.819 0/1:156:92,64:92:3308:64:2273:-157.872,0,-250.977 0/1:187:90,97:90:3232:97:3471:-256.309,0,-234.798 0/1:15:5,10:5:180:10:356:-27.8658,0,-12.0366 0/1:21:12,9:12:432:9:316:-22.4572,0,-32.8996 0/1:76:41,35:41:1472:35:1260:-90.8272,0,-109.898 0/0:239:239,0:239:8584:0:0:0,-71.9462,-772.553 0/0:109:109,0:109:3912:0:0:0,-32.8123,-352.272 0/1:179:113,66:113:4045:66:2368:-159.494,0,-310.351 0/1:103:44,59:44:1576:59:2089:-157.272,0,-111.125 0/1:120:55,65:55:1980:65:2332:-174.016,0,-142.351 0/1:214:137,77:137:4904:77:2756:-183.862,0,-377.091 0/1:94:66,28:66:2364:28:988:-60.9371,0,-184.722 0/0:128:128,0:128:4600:0:0:0,-38.5318,-414.162 0/0:100:100,0:100:3581:0:0:0,-30.103,-322.472 chr06 25636213 . C G 13163.2 PASS AB=0.633791;ABP=184.297;AC=13;AF=0.309524;AN=42;AO=744;CIGAR=1X;DP=1784;DPB=1784;DPRA=1.1318;EPP=1609.91;EPPR=2215.95;GTI=2;LEN=1;MEANALT=1.0625;MQM=59.5255;MQMR=59.7526;NS=21;NUMALT=1;ODDS=0.380705;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26465;QR=37093;RO=1039;RPL=1;RPP=1609.91;RPPR=2215.95;RPR=743;RUN=1;SAF=0;SAP=1618.59;SAR=744;SRF=0;SRP=2259.17;SRR=1039;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:46,0:46:1625:0:0:0,-13.8474,-146.537 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.634 0/1:77:32,44:32:1140:44:1576:-118.808,0,-79.6585 0/0:112:112,0:112:3999:0:0:0,-33.7154,-360.091 0/0:120:117,3:117:4191:3:108:0,-26.0484,-367.258 0/1:107:27,80:27:953:80:2847:-224.206,0,-53.8731 0/1:108:49,59:49:1748:59:2092:-156.022,0,-125.069 0/1:65:27,38:27:968:38:1328:-100.102,0,-67.8704 0/1:166:69,97:69:2467:97:3462:-261.793,0,-172.312 0/1:19:5,14:5:180:14:504:-39.9785,0,-10.8325 0/1:14:3,11:3:108:11:392:-31.4056,0,-5.84654 0/1:38:10,28:10:356:28:993:-78.2376,0,-20.9421 0/0:70:69,1:69:2464:1:36:0,-17.4738,-218.408 0/0:80:80,0:80:2850:0:0:0,-24.0824,-256.726 0/1:264:81,183:81:2908:183:6526:-507.936,0,-182.483 0/1:77:27,50:27:968:50:1755:-133.987,0,-64.2581 0/1:113:38,75:38:1352:75:2677:-207.13,0,-87.9603 0/1:70:26,44:26:905:44:1561:-119.692,0,-60.6859 0/1:48:32,16:32:1139:16:572:-37.364,0,-88.3666 0/0:95:95,0:95:3404:0:0:0,-28.5978,-306.32 0/0:42:41,1:41:1464:1:36:0,-9.04498,-128.45 chr06 25636230 . G C 20202.3 PASS AB=0.360947;ABP=201.694;AC=29;AF=0.690476;AN=42;AO=1044;CIGAR=1X;DP=1805;DPB=1805;DPRA=0;EPP=2270.03;EPPR=1595.26;GTI=2;LEN=1;MEANALT=1;MQM=59.7385;MQMR=59.5532;NS=21;NUMALT=1;ODDS=4.55671;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37375;QR=27256;RO=761;RPL=1044;RPP=2270.03;RPPR=1595.26;RPR=0;RUN=1;SAF=0;SAP=2270.03;SAR=1044;SRF=0;SRP=1655.5;SRR=761;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 1/1:55:0,55:0:0:55:1976:-178.103,-16.5567,0 0/1:80:47,33:47:1688:33:1188:-83.1332,0,-128.036 1/1:112:0,112:0:0:112:4007:-360.807,-33.7154,0 1/1:122:3,119:3:108:119:4274:-374.723,-26.6505,0 0/1:109:83,26:83:2984:26:932:-51.3866,0,-235.925 0/1:107:60,47:60:2156:47:1688:-119.972,0,-162.067 0/1:64:37,27:37:1332:27:972:-68.532,0,-100.898 0/1:169:100,69:100:3554:69:2468:-171.499,0,-269.161 0/1:19:14,5:14:504:5:165:-9.45403,0,-39.9785 0/1:14:11,3:11:396:3:95:-4.64822,0,-31.7683 0/1:40:30,10:30:1076:10:360:-20.7031,0,-85.0985 1/1:74:1,73:1:36:73:2607:-231.273,-18.6779,0 1/1:80:0,80:0:0:80:2864:-257.986,-24.0824,0 0/1:268:185,83:185:6632:83:2980:-187.755,0,-516.261 0/1:77:50,27:50:1779:27:972:-64.6186,0,-136.147 0/1:113:76,37:76:2724:37:1302:-83.4589,0,-211.241 0/1:73:46,27:46:1639:27:960:-64.7365,0,-125.808 0/1:50:17,33:17:612:33:1173:-90.8217,0,-40.3619 1/1:93:0,93:0:0:93:3336:-300.23,-27.9958,0 1/1:41:1,40:1:36:40:1436:-125.931,-8.74396,0 chr06 25863837 . AG TT,TG 22999.2 PASS AB=0.557692,0.440171;ABP=16.5402,17.561;AC=29,13;AF=0.690476,0.309524;AN=42;AO=650,210;CIGAR=2X,1X1M;DP=861;DPB=861;DPRA=0,1.08161;EPP=1405.79,441.813;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.80952,2.0625;MQM=59.9338,59.9381;MQMR=0;NS=21;NUMALT=2;ODDS=2.4648;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23014,7488;QR=0;RO=0;RPL=396,118;RPP=70.3727,10.0004;RPPR=0;RPR=254,92;RUN=1,1;SAF=397,118;SAP=72.2836,10.0004;SAR=253,92;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,51,1:0:0:51,1:1815,36:-163.242,-15.3525,0,-160.305,-12.0553,-160.004 1/1:41:0,41,0:0:0:41,0:1459,0:-131.605,-12.3422,0,-131.605,-12.3422,-131.605 1/2:12:0,5,7:0:0:5,7:180,252:-35.6088,-20.9217,-19.4166,-15.0469,0,-12.9397 1/1:19:0,19,0:0:0:19,0:674,0:-60.987,-5.71957,0,-60.987,-5.71957,-60.987 1/1:55:0,53,2:0:0:53,2:1876,72:-168.758,-15.9546,0,-162.883,-9.71993,-162.281 1/2:22:0,17,5:0:0:17,5:585,180:-62.5452,-15.0469,-9.9294,-47.8545,0,-46.3493 1/2:53:0,24,29:0:0:24,29:860,1031:-154.485,-84.3443,-77.1196,-70.4973,0,-61.7675 1/2:32:0,17,15:0:0:17,15:612,540:-94.3572,-44.4211,-39.3036,-50.2959,0,-45.7805 1/2:57:0,29,28:0:0:29,28:1044,1000:-167.073,-81.8865,-73.1567,-85.5449,0,-77.1161 1/2:12:0,6,6:0:0:6,6:214,216:-35.4277,-17.9843,-16.1782,-17.8016,0,-15.9954 1/2:4:0,2,2:0:0:2,2:70,68:-11.556,-5.85565,-5.25359,-6.04527,0,-5.44321 1/2:11:0,5,6:0:0:5,6:178,216:-32.4902,-17.9843,-16.4792,-14.8635,0,-13.0573 1/1:43:0,43,0:0:0:43,0:1500,0:-135.27,-12.9443,0,-135.27,-12.9443,-135.27 1/1:55:0,55,0:0:0:55,0:1947,0:-175.5,-16.5567,0,-175.5,-16.5567,-175.5 1/2:44:0,25,18:0:0:25,18:865,638:-122.238,-51.9707,-44.445,-70.2592,0,-64.8407 1/2:40:0,16,24:0:0:16,24:574,854:-116.775,-69.9551,-65.1386,-47.1778,0,-39.9531 1/2:17:0,13,4:0:0:13,4:457,144:-49.3009,-12.1095,-8.19611,-37.5492,0,-36.3451 1/2:82:0,42,40:0:0:42,40:1474,1413:-235.38,-115.425,-102.782,-120.307,0,-108.265 1/2:82:0,60,22:0:0:60,22:2139,792:-239.339,-64.983,-46.9212,-174.715,0,-168.092 1/1:35:0,35,0:0:0:35,0:1229,0:-110.912,-10.5361,0,-110.912,-10.5361,-110.912 1/1:93:0,92,1:0:0:92,1:3262,36:-293.441,-27.6948,0,-290.503,-24.3975,-290.202 chr06 27033558 . TGCT AGCC,TGCC 26269.6 PASS AB=0.534921,0.460317;ABP=9.68327,11.6273;AC=31,11;AF=0.738095,0.261905;AN=42;AO=882,295;CIGAR=1X2M1X,3M1X;DP=1185;DPB=1185;DPRA=0,1.15966;EPP=12.4742,9.20084;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=1.95238,2.28571;MQM=41.7902,46.3051;MQMR=60;NS=21;NUMALT=2;ODDS=9.03287;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30733,10467;QR=33;RO=1;RPL=0,1;RPP=1918.25,634.938;RPPR=5.18177;RPR=882,294;RUN=1,1;SAF=472,134;SAP=12.4742,8.37641;SAR=410,161;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,18,32:0:0:18,32:639,1139:-127.701,-84.4436,-79.0251,-43.567,0,-33.934 1/2:28:0,16,11:0:0:16,11:569,369:-62.106,-25.4138,-20.5973,-36.6299,0,-33.3185 1/2:34:0,20,14:0:0:20,14:710,496:-85.6544,-35.6669,-29.6463,-50.3004,0,-46.086 1/1:55:0,55,0:0:0:55,0:1933,0:-144.573,-16.5567,0,-144.573,-16.5567,-144.573 1/1:91:0,88,3:0:0:88,3:3049,104:-229.646,-26.4906,0,-222.32,-18.8602,-221.416 1/1:39:0,37,0:0:0:37,0:1288,0:-93.7712,-11.1381,0,-93.7712,-11.1381,-93.7712 1/1:50:0,50,0:0:0:50,0:1735,0:-119.512,-15.0515,0,-119.512,-15.0515,-119.512 1/2:68:1,32,35:1:33:32,35:1118,1248:-162.79,-87.5826,-80.6181,-72.8174,0,-64.9506 1/2:103:0,58,45:0:0:58,45:2029,1594:-265.111,-118.198,-100.738,-147.234,0,-133.688 1/2:7:0,2,5:0:0:2,5:72,180:-20.0535,-14.1732,-13.5712,-6.23466,0,-4.72951 1/1:4:0,4,0:0:0:4,0:144,0:-9.65226,-1.20412,0,-9.65226,-1.20412,-9.65226 1/2:6:0,2,4:0:0:2,4:72,144:-17.1138,-11.231,-10.629,-6.23466,0,-5.03054 1/1:83:0,83,0:0:0:83,0:2918,0:-227.868,-24.9855,0,-227.868,-24.9855,-227.868 1/1:77:0,74,1:0:0:74,1:2526,36:-202.391,-22.2762,0,-200.154,-20.0259,-199.853 1/2:67:0,38,29:0:0:38,29:1355,1027:-157.586,-72.5097,-61.0706,-85.3742,0,-76.6443 1/2:22:0,12,10:0:0:12,10:423,356:-56.0279,-25.9073,-22.295,-30.4359,0,-27.4256 1/1:30:0,29,1:0:0:29,1:1002,36:-78.188,-8.72987,0,-75.2486,-5.43263,-74.9476 1/2:124:0,61,62:0:0:61,62:2082,2206:-318.595,-161.805,-143.442,-156.752,0,-138.088 1/2:121:0,78,43:0:0:78,43:2744,1532:-310.531,-112.567,-89.0863,-198.285,0,-185.341 1/1:36:0,36,0:0:0:36,0:1250,0:-91.2485,-10.8371,0,-91.2485,-10.8371,-91.2485 1/1:90:0,89,0:0:0:89,0:3075,0:-224.179,-26.7917,0,-224.179,-26.7917,-224.179 chr06 27090494 . G A 4466.7 PASS AB=0.521318;ABP=5.04711;AC=13;AF=0.309524;AN=42;AO=269;CIGAR=1X;DP=850;DPB=850;DPRA=0.950714;EPP=587.136;EPPR=1258.12;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9628;MQMR=60;NS=21;NUMALT=1;ODDS=7.94086;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9575;QR=20532;RO=578;RPL=269;RPP=587.136;RPPR=1258.12;RPR=0;RUN=1;SAF=269;SAP=587.136;SAR=0;SRF=578;SRP=1258.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5997 0/0:22:22,0:22:780:0:0:0,-6.62266,-70.523 0/1:50:20,30:20:712:30:1054:-80.1177,0,-49.3552 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/0:91:90,0:90:3185:0:0:0,-27.0927,-286.515 0/1:31:15,16:15:532:16:559:-41.3001,0,-38.8812 0/1:80:35,45:35:1256:45:1607:-120.837,0,-89.2629 0/1:79:45,34:45:1590:34:1224:-86.6857,0,-119.607 0/1:71:27,43:27:963:43:1530:-116.56,0,-65.5541 0/1:13:4,8:4:144:8:288:-22.2952,0,-9.34143 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:21:10,11:10:360:11:387:-28.8443,0,-26.4227 0/0:28:28,0:28:991:0:0:0,-8.42884,-89.5035 0/0:39:39,0:39:1384:0:0:0,-11.7402,-124.859 0/1:27:12,15:12:428:15:528:-39.7236,0,-30.731 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:23:12,11:12:428:11:396:-29.0591,0,-31.9351 0/1:75:39,36:39:1374:36:1282:-93.1058,0,-101.38 0/1:36:22,14:22:775:14:504:-34.861,0,-59.2341 0/0:61:61,0:61:2166:0:0:0,-18.3628,-195.206 0/0:40:40,0:40:1428:0:0:0,-12.0412,-128.818 chr06 27626118 . TCCA GCCA,GCCG 37660.3 PASS AB=0.393553,0.5997;ABP=134.301,118.186;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1260,806;CIGAR=1X3M,1X2M1X;DP=2085;DPB=2085;DPRA=0,1.39457;EPP=2739.07,1744.54;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=2.47619,2.70588;MQM=40.0937,33.8883;MQMR=28;NS=21;NUMALT=2;ODDS=9.90473;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44182,28082;QR=74;RO=3;RPL=0,1;RPP=2739.07,1744.54;RPPR=3.73412;RPR=1260,805;RUN=1,1;SAF=0,0;SAP=2739.07,1753.22;SAR=1260,806;SRF=2;SRP=3.73412;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,82,1:0:0:82,1:2804,36:-242.641,-24.6845,0,-239.711,-21.7453,-239.41 1/1:53:0,52,0:0:0:52,0:1858,0:-161.408,-15.6536,0,-161.408,-15.6536,-161.408 1/2:132:0,57,74:0:0:57,74:2018,2599:-340.877,-183.601,-166.442,-157.356,0,-135.08 1/1:56:0,55,1:0:0:55,1:1944,25:-168.45,-16.5567,0,-166.661,-14.5337,-166.36 1/1:163:0,159,2:0:0:159,2:5616,71:-486.249,-47.8638,0,-481.151,-42.787,-480.549 1/2:68:0,25,43:0:0:25,43:878,1479:-171.303,-102.284,-94.7587,-69.3425,0,-56.3982 1/2:98:0,35,61:0:0:35,61:1236,2123:-246.637,-149.636,-139.1,-96.9957,0,-78.6328 1/2:149:0,65,84:0:0:65,84:2253,2952:-388.297,-212.705,-193.138,-175.917,0,-150.63 1/2:205:2,63,140:2:52:63,140:2216,4860:-517.835,-345.714,-329.376,-170.245,0,-130.724 1/2:15:0,6,9:0:0:6,9:207,321:-40.1099,-23.957,-22.1509,-16.4825,0,-13.7732 1/2:17:0,12,5:0:0:12,5:432,179:-46.8353,-12.8305,-9.21811,-34.3272,0,-32.8221 1/2:58:0,28,29:0:0:28,29:967,995:-148.399,-73.1243,-64.6954,-75.2733,0,-66.5434 1/1:103:0,102,0:0:0:102,0:3610,0:-312.659,-30.7051,0,-312.659,-30.7051,-312.659 1/1:89:0,89,0:0:0:89,0:3138,0:-271.387,-26.7917,0,-271.387,-26.7917,-271.387 1/2:204:0,90,112:0:0:90,112:3154,3927:-527.65,-282.609,-255.516,-245.008,0,-211.293 1/2:60:0,22,37:0:0:22,37:788,1248:-150.106,-88.5999,-81.9772,-61.5139,0,-50.3758 1/2:104:0,19,85:0:0:19,85:658,2972:-264.176,-213.024,-207.304,-51.4812,0,-25.8936 1/2:144:0,55,89:0:0:55,89:1923,3096:-373.429,-223.736,-207.179,-150.02,0,-123.229 1/2:80:0,48,32:0:0:48,32:1660,1128:-209.742,-80.5594,-66.11,-129.502,0,-119.869 1/1:144:0,141,2:0:0:141,2:4903,71:-424.34,-42.4452,0,-419.141,-37.2583,-418.539 1/1:56:1,55,0:1:22:55,0:1919,0:-165.69,-15.6966,0,-165.991,-16.5567,-166.731 chr06 27626151 . GATGTGGCTTTTCTA CATGTGGCTTTCTA,CACATGGATTTTCTA 36499.7 PASS AB=0.381203,0.604511;ABP=166.044,129.191;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1220,808;CIGAR=1X7M1D6M,1X1M2X3M1X7M;DP=2054;DPB=1971.53;DPRA=0,1.53774;EPP=2652.21,1757.56;EPPR=0;GTI=0;LEN=14,15;MEANALT=2.90476,3.4;MQM=40.4221,33.8589;MQMR=0;NS=21;NUMALT=2;ODDS=0.281904;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=42608,27007;QR=0;RO=0;RPL=1220,808;RPP=2652.21,1757.56;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2652.21,1757.56;SAR=1220,808;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,87,0:0:0:87,0:3042,0:-263.875,-26.1896,0,-263.875,-26.1896,-263.875 1/1:51:0,51,0:0:0:51,0:1760,0:-153.821,-15.3525,0,-153.821,-15.3525,-153.821 1/2:131:0,55,74:0:0:55,74:1904,2447:-327.62,-179.207,-162.65,-148.508,0,-126.232 1/1:53:0,53,0:0:0:53,0:1893,0:-163.909,-15.9546,0,-163.909,-15.9546,-163.909 1/1:156:0,154,2:0:0:154,2:5389,68:-466.99,-46.3586,0,-462.014,-41.0725,-461.412 1/2:72:0,26,42:0:0:26,42:932,1354:-172.196,-98.6032,-90.7764,-73.699,0,-61.0557 1/2:100:0,37,62:0:0:37,62:1279,2036:-248.707,-148.51,-137.372,-100.223,0,-81.5592 1/2:148:0,62,85:0:0:62,85:2156,2856:-378.388,-210.041,-191.377,-168.429,0,-142.841 1/2:210:0,64,143:0:0:64,143:2186,4786:-521.308,-350.956,-331.69,-170.459,0,-127.411 1/2:13:0,5,8:0:0:5,8:180,277:-34.8354,-20.7847,-19.2796,-14.3855,0,-11.9773 1/2:17:0,12,5:0:0:12,5:413,165:-44.7482,-12.2906,-8.67825,-32.7675,0,-31.2623 1/2:54:0,24,30:0:0:24,30:826,1024:-140.312,-76.0795,-68.8548,-64.5563,0,-55.5254 1/1:100:0,99,0:0:0:99,0:3442,0:-298.377,-29.802,0,-298.377,-29.802,-298.377 1/1:81:0,80,0:0:0:80,0:2822,0:-244.253,-24.0824,0,-244.253,-24.0824,-244.253 1/2:203:0,89,112:0:0:89,112:3102,3787:-519.643,-277.718,-250.927,-242.006,0,-208.291 1/2:59:0,20,37:0:0:20,37:690,1217:-143.217,-89.4922,-83.4716,-53.8414,0,-42.7033 1/2:103:0,17,85:0:0:17,85:567,2844:-252.805,-208.528,-203.41,-44.2434,0,-18.6559 1/2:141:0,51,89:0:0:51,89:1796,3007:-360.799,-221.2,-205.847,-139.57,0,-112.778 1/2:79:0,45,32:0:0:45,32:1579,1069:-201.49,-78.3181,-64.7717,-123.245,0,-113.612 1/1:144:0,139,2:0:0:139,2:4897,70:-424.039,-41.8432,0,-418.883,-36.6831,-418.281 1/1:52:0,50,0:0:0:50,0:1753,0:-152.47,-15.0515,0,-152.47,-15.0515,-152.47 chr06 27983775 . A G 450.598 PASS AB=0.428237;ABP=60.3561;AC=14;AF=0.333333;AN=42;AO=565;CIGAR=1X;DP=2414;DPB=2414;DPRA=0.753001;EPP=1229.89;EPPR=4015.89;GTI=6;LEN=1;MEANALT=1.0625;MQM=19.0832;MQMR=42.684;NS=21;NUMALT=1;ODDS=0.633032;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20202;QR=66285;RO=1848;RPL=0;RPP=1229.89;RPPR=4015.89;RPR=565;RUN=1;SAF=565;SAP=1229.89;SAR=0;SRF=1848;SRP=4015.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:137,1:137:4885:1:36:0,-39.6506,-426.841 0/0:138:138,0:138:4956:0:0:0,-41.5421,-434.11 0/1:110:54,56:54:1940:56:2008:-64.2987,0,-136.508 0/0:187:187,0:187:6701:0:0:0,-56.2926,-586.738 0/0:229:229,0:229:8221:0:0:0,-68.9359,-720.023 0/1:123:78,45:78:2804:45:1616:-42.8444,0,-210.013 0/1:209:117,92:117:4196:92:3292:-93.5513,0,-306.093 0/1:96:49,47:49:1733:47:1688:-53.7466,0,-123.438 0/1:217:133,84:133:4769:84:3012:-76.3905,0,-353.447 0/1:18:5,13:5:180:13:453:-15.9081,0,-10.7781 1/1:12:1,11:1:36:11:396:-14.5829,-0.0913516,0 0/1:44:25,19:25:896:19:684:-19.804,0,-66.0093 0/0:143:141,2:141:5056:2:57:0,-39.5897,-436.583 0/0:119:119,0:119:4272:0:0:0,-35.8226,-373.215 0/1:167:111,55:111:3988:55:1957:-41.9592,0,-298.983 0/1:75:41,34:41:1476:34:1213:-36.7405,0,-106.761 0/1:130:67,63:67:2408:63:2249:-65.978,0,-172.574 0/1:56:31,25:31:1116:25:897:-26.2493,0,-81.7621 0/1:37:21,16:21:756:16:572:-16.2777,0,-55.554 0/0:131:129,2:129:4636:2:72:0,-35.841,-401.046 0/0:35:35,0:35:1260:0:0:0,-10.536,-111.217 chr06 27983824 . AGC GGC,GGG 38155.9 PASS AB=0.556536,0.436247;ABP=37.6302,47.0336;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1744,563;CIGAR=1X2M,1X1M1X;DP=2318;DPB=2318;DPRA=0,0.909471;EPP=3790.06,1225.55;EPPR=5.18177;GTI=6;LEN=1,3;MEANALT=2.33333,2.5;MQM=42.637,19.3162;MQMR=60;NS=21;NUMALT=2;ODDS=1.09968;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60712,19263;QR=27;RO=1;RPL=1744,563;RPP=3790.06,1225.55;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1744,563;SAP=3790.06,1225.55;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:0,126,2:0:0:126,2:4354,57:-383.736,-37.9298,0,-380.574,-34.5566,-379.972 1/1:131:0,130,1:0:0:130,1:4521,27:-397.785,-39.1339,0,-395.662,-36.7404,-395.361 1/2:109:0,52,56:0:0:52,56:1803,1918:-222.992,-80.1734,-64.5199,-142.729,0,-125.872 1/1:179:0,178,1:0:0:178,1:6156,22:-542.176,-53.5833,0,-540.501,-51.6878,-540.2 1/1:211:0,210,0:0:0:210,0:7269,0:-640.143,-63.2163,0,-640.143,-63.2163,-640.143 1/2:121:0,76,43:0:0:76,43:2684,1519:-274.894,-61.3243,-38.446,-213.532,0,-200.588 1/2:204:0,113,90:0:0:113,90:3943,3049:-438.361,-124.906,-90.89,-313.423,0,-286.33 1/2:94:0,47,46:0:0:47,46:1652,1588:-197.205,-65.9236,-51.7752,-131.293,0,-117.445 1/2:210:0,126,84:0:0:126,84:4460,2902:-470.701,-115.898,-77.9678,-355.054,0,-329.767 1/2:18:0,5,13:0:0:5,13:180,450:-31.9018,-17.5151,-16.0099,-14.6915,0,-10.7781 2/2:13:0,1,12:0:0:1,12:32,423:-19.4668,-16.9073,-16.6062,-3.61236,-0.746565,0 1/2:44:0,24,20:0:0:24,20:843,711:-95.9016,-28.6943,-21.4696,-67.4684,0,-61.4478 1/1:137:1,135,1:1:27:135,1:4667,34:-407.991,-38.4696,0,-406.896,-39.2828,-408.723 1/1:113:0,113,0:0:0:113,0:3942,0:-345.605,-34.0164,0,-345.605,-34.0164,-345.605 1/2:160:0,103,55:0:0:103,55:3585,1885:-360.572,-76.1356,-45.1295,-284.428,0,-267.871 1/2:75:0,39,35:0:0:39,35:1370,1225:-158.958,-50.2666,-38.5264,-108.744,0,-98.2077 1/2:124:0,61,62:0:0:61,62:2155,2091:-255.06,-83.5166,-65.1538,-171.459,0,-152.795 1/2:56:0,32,24:0:0:32,24:1069,796:-118.159,-33.5294,-23.8964,-84.8768,0,-77.652 1/2:32:0,16,16:0:0:16,16:543,505:-65.9733,-22.7623,-17.9459,-43.4726,0,-38.6561 1/1:124:0,122,2:0:0:122,2:4271,61:-375.977,-36.7257,0,-373.223,-33.782,-372.621 1/1:35:0,35,0:0:0:35,0:1213,0:-107.366,-10.5361,0,-107.366,-10.5361,-107.366 chr06 28096554 . A T 45546.3 PASS AB=0.529964;ABP=42.05;AC=13;AF=0.309524;AN=42;AO=2662;CIGAR=1X;DP=5927;DPB=5927;DPRA=3.46124;EPP=5783.47;EPPR=6589.66;GTI=3;LEN=1;MEANALT=1;MQM=59.9846;MQMR=59.9538;NS=21;NUMALT=1;ODDS=2.28743;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=95349;QR=116309;RO=3265;RPL=0;RPP=5783.47;RPPR=6589.66;RPR=2662;RUN=1;SAF=2662;SAP=5783.47;SAR=0;SRF=3265;SRP=7092.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:48,2:48:1693:2:63:0,-9.06834,-146.671 0/0:138:138,0:138:4894:0:0:0,-41.5421,-440.613 0/1:88:46,42:46:1644:42:1512:-109.884,0,-121.758 0/0:125:125,0:125:4456:0:0:0,-37.6287,-401.211 0/0:257:250,7:250:8920:7:248:0,-54.7005,-780.122 0/1:138:78,60:78:2773:60:2156:-152.765,0,-208.267 0/1:184:92,92:92:3246:92:3303:-242.098,0,-236.971 0/1:90:49,41:49:1752:41:1472:-105.683,0,-130.871 0/1:117:61,56:61:2150:56:2016:-146.492,0,-158.474 0/1:973:484,489:484:17270:489:17537:-1285.03,0,-1260.99 0/1:746:316,430:316:11258:430:15346:-1156.27,0,-788.535 0/1:1105:490,615:490:17421:615:22018:-1648.41,0,-1234.89 0/0:62:62,0:62:2201:0:0:0,-18.6639,-198.354 0/0:110:110,0:110:3906:0:0:0,-33.1133,-351.732 0/1:197:86,111:86:3076:111:3984:-299.446,0,-217.765 0/1:135:74,61:74:2633:61:2184:-156.187,0,-196.576 0/1:118:52,66:52:1852:66:2372:-178.216,0,-131.438 0/1:1039:493,546:493:17630:546:19554:-1446.61,0,-1273.4 0/1:76:32,44:32:1152:44:1584:-119.973,0,-81.1119 0/0:120:120,0:120:4266:0:0:0,-36.1236,-384.117 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 chr06 28263021 . T C 13178.3 PASS AB=0.521184;ABP=8.80625;AC=13;AF=0.309524;AN=42;AO=776;CIGAR=1X;DP=2560;DPB=2560;DPRA=0.855932;EPP=1688.07;EPPR=3874.75;GTI=0;LEN=1;MEANALT=1;MQM=48.9549;MQMR=59.7168;NS=21;NUMALT=1;ODDS=13.7413;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27836;QR=63658;RO=1783;RPL=0;RPP=1688.07;RPPR=3874.75;RPR=776;RUN=1;SAF=776;SAP=1688.07;SAR=0;SRF=1783;SRP=3874.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:77,0:77:2745:0:0:0,-23.1793,-247.291 0/0:167:167,0:167:5981:0:0:0,-50.272,-537.873 0/1:126:64,62:64:2285:62:2228:-161.781,0,-167.978 0/0:146:146,0:146:5218:0:0:0,-43.9504,-469.755 0/0:275:274,0:274:9787:0:0:0,-82.4822,-879.983 0/1:85:35,50:35:1241:50:1796:-134.376,0,-86.369 0/1:214:91,123:91:3242:123:4420:-327.996,0,-227.53 0/1:99:46,53:46:1633:53:1896:-139.745,0,-117.43 0/1:275:132,143:132:4702:143:5132:-376.914,0,-340.522 0/1:14:2,12:2:68:12:432:-34.6956,0,-2.24329 0/1:12:7,5:7:252:5:180:-12.7573,0,-19.4166 0/1:25:15,10:15:536:10:356:-24.6429,0,-41.0491 0/0:129:128,1:128:4581:1:36:0,-35.2498,-408.825 0/0:115:115,0:115:4132:0:0:0,-34.6184,-372.038 0/1:182:102,80:102:3637:80:2872:-202.429,0,-272.736 0/1:104:35,69:35:1252:69:2476:-191.073,0,-81.6698 0/1:108:64,44:64:2258:44:1580:-109.2,0,-170.944 0/1:123:50,73:50:1785:73:2615:-196.785,0,-123.869 0/1:120:69,51:69:2461:51:1817:-126.552,0,-185.56 0/0:94:94,0:94:3346:0:0:0,-28.2968,-301.328 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.592 chr06 28505218 . CAAAATAC CAAATAC 25952.1 PASS AB=0.489697;ABP=4.53165;AC=29;AF=0.690476;AN=42;AO=2052;CIGAR=1M1D6M;DP=2900;DPB=2643.38;DPRA=0;EPP=4458.87;EPPR=1833.57;GTI=1;LEN=1;MEANALT=1.04762;MQM=29.9898;MQMR=59.9032;NS=21;NUMALT=1;ODDS=1.34968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61391;QR=30072;RO=847;RPL=0;RPP=4458.87;RPPR=1833.57;RPR=2052;RUN=1;SAF=2052;SAP=4458.87;SAR=0;SRF=847;SRP=1842.25;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:206:0,206:0:0:206:6271:-509.738,-62.0122,0 1/1:127:1,126:1:36:126:3371:-266.129,-34.6325,0 0/1:129:89,40:89:3180:40:1229:-61.2246,0,-247.578 1/1:171:0,171:0:0:171:5251:-426.942,-51.4761,0 1/1:296:3,292:3:108:292:8884:-711.6,-78.9462,0 0/1:225:112,113:112:3985:113:3039:-175.448,0,-291.111 0/1:215:122,93:122:4339:93:2496:-134.999,0,-325.968 0/1:154:85,69:85:3027:69:1990:-114.403,0,-226.298 0/1:249:121,128:121:4299:128:4161:-265.667,0,-312.134 0/1:6:4,2:4:140:2:58:-3.13238,0,-11.1384 0/1:4:1,3:1:36:3:81:-5.51421,0,-2.39415 0/1:33:19,14:19:669:14:406:-23.0764,0,-50.5988 1/1:138:0,138:0:0:138:4249:-345.537,-41.5421,0 1/1:137:1,136:1:36:136:4171:-335.482,-37.6428,0 0/1:222:111,111:111:3927:111:3410:-210.729,0,-286.797 0/1:123:60,63:60:2125:63:2071:-132.685,0,-154.48 0/1:145:74,71:74:2606:71:2289:-143.556,0,-191.139 0/1:57:18,39:18:639:39:1127:-73.974,0,-40.6695 0/1:88:26,62:26:920:62:1907:-128.63,0,-56.626 1/1:112:0,112:0:0:112:3237:-261.275,-33.7154,0 1/1:63:0,63:0:0:63:1693:-135.566,-18.9649,0 chr06 28505228 . TAACC TCCC,TACC 44472.7 PASS AB=0.511292,0.486826;ABP=4.77581,5.41336;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2064,781;CIGAR=1M1D1X2M,1M1D3M;DP=2852;DPB=2281.8;DPRA=0,0.958898;EPP=4450.25,1681.6;EPPR=5.18177;GTI=1;LEN=4,1;MEANALT=2.04762,2.25;MQM=29.9724,59.9513;MQMR=60;NS=21;NUMALT=2;ODDS=6.97374;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61778,27654;QR=27;RO=1;RPL=2060,779;RPP=4450.25,1681.6;RPPR=5.18177;RPR=4,2;RUN=1,1;SAF=2064,781;SAP=4484.93,1698.93;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:209:0,209,0:0:0:209,0:6388,0:-519.035,-62.9153,0,-519.035,-62.9153,-519.035 1/1:128:0,127,1:0:0:127,1:3402,27:-271.793,-38.2308,0,-269.664,-35.8321,-269.363 1/2:127:0,41,86:0:0:41,86:1267,3066:-340.841,-250.28,-237.938,-90.8652,0,-64.9767 1/1:174:0,173,0:0:0:173,0:5308,0:-431.058,-52.0782,0,-431.058,-52.0782,-431.058 1/1:295:0,291,3:0:0:291,3:8890,108:-721.358,-87.5997,0,-712.545,-78.6668,-711.642 1/2:219:0,112,107:0:0:112,107:3012,3785:-515.645,-308.638,-274.923,-207.305,0,-175.095 1/2:202:0,92,110:0:0:92,110:2471,3880:-486.037,-316.282,-288.587,-170.046,0,-136.933 1/2:149:1,70,78:1:27:70,78:2022,2788:-367.044,-225.271,-206.327,-139.98,0,-118.629 1/2:243:0,127,116:0:0:127,116:4119,4083:-631.724,-332.735,-294.505,-299.314,0,-264.394 1/2:5:0,2,3:0:0:2,3:58,108:-13.2087,-9.17208,-8.57002,-4.3365,0,-3.43341 1/2:4:0,3,1:0:0:3,1:81,36:-8.78263,-3.29724,-2.39415,-5.81524,0,-5.51421 1/2:32:0,14,17:0:0:14,17:406,599:-77.3836,-48.8849,-44.6705,-28.5651,0,-23.4476 1/1:140:0,139,0:0:0:139,0:4266,0:-346.345,-41.8432,0,-346.345,-41.8432,-346.345 1/1:134:0,132,1:0:0:132,1:4035,36:-327.79,-39.736,0,-324.852,-36.7586,-324.551 1/2:211:0,113,98:0:0:113,98:3465,3472:-530.73,-283.191,-249.175,-247.857,0,-218.356 1/2:118:0,64,53:0:0:64,53:2103,1900:-307.711,-154.945,-135.679,-152.738,0,-136.784 1/2:140:0,74,66:0:0:74,66:2403,2326:-362.779,-189.729,-167.453,-173.374,0,-153.506 1/2:55:0,39,16:0:0:39,16:1130,553:-124.615,-45.272,-33.5318,-79.6632,0,-74.8467 1/2:89:0,64,25:0:0:64,25:1939,887:-210.949,-72.6224,-53.3564,-138.658,0,-131.132 1/1:115:0,115,0:0:0:115,0:3320,0:-268.012,-34.6185,0,-268.012,-34.6185,-268.012 1/1:63:0,63,0:0:0:63,0:1693,0:-135.566,-18.9649,0,-135.566,-18.9649,-135.566 chr06 28505256 . G A 29880.4 PASS AB=0.503071;ABP=3.14368;AC=29;AF=0.690476;AN=42;AO=2069;CIGAR=1X;DP=2883;DPB=2883;DPRA=0;EPP=4495.79;EPPR=1768.42;GTI=1;LEN=1;MEANALT=1.04762;MQM=29.9812;MQMR=59.9151;NS=21;NUMALT=1;ODDS=4.61203;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74004;QR=28959;RO=813;RPL=2068;RPP=4487.11;RPPR=1759.74;RPR=1;RUN=1;SAF=2068;SAP=4487.11;SAR=1;SRF=812;SRP=1759.74;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:210:0,210:0:0:210:7458:-552.295,-63.2163,0 1/1:125:1,124:1:36:124:4448:-290.024,-34.0305,0 0/1:126:87,39:87:3120:39:1400:-66.0073,0,-243.096 1/1:174:0,174:0:0:174:6221:-461.745,-52.3792,0 1/1:296:3,293:3:108:293:10472:-762.439,-79.0297,0 0/1:221:108,112:108:3867:112:4012:-199.465,0,-281.732 0/1:206:113,93:113:3972:93:3314:-157.601,0,-295.658 0/1:152:80,72:80:2835:72:2588:-136.53,0,-209.63 0/1:246:117,129:117:4181:129:4621:-284.432,0,-302.417 0/1:6:4,2:4:144:2:72:-3.55387,0,-11.5074 0/1:4:1,3:1:36:3:108:-6.21196,0,-2.39415 0/1:33:19,14:19:672:14:500:-25.8054,0,-50.8612 1/1:138:0,138:0:0:138:4937:-366.335,-41.5421,0 1/1:137:1,136:1:36:136:4849:-356.802,-37.6428,0 0/1:222:108,114:108:3846:114:4100:-236.034,0,-279.431 0/1:125:60,65:60:2148:65:2332:-145.138,0,-155.912 0/1:143:69,74:69:2469:74:2632:-160.36,0,-179.415 0/1:56:17,39:17:608:39:1396:-82.1597,0,-38.1805 0/1:88:25,63:25:881:63:2256:-140.408,0,-53.1152 1/1:115:0,115:0:0:115:4136:-291.116,-34.6185,0 1/1:60:0,60:0:0:60:2152:-142.498,-18.0618,0 chr06 28557813 . G C 88540.5 PASS AB=0.51037;ABP=5.30717;AC=28;AF=0.666667;AN=42;AO=3356;CIGAR=1X;DP=4580;DPB=4580;DPRA=38.1167;EPP=7290.47;EPPR=2639.18;GTI=1;LEN=1;MEANALT=1.35;MQM=59.6791;MQMR=59.9811;NS=21;NUMALT=1;ODDS=15.6728;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=118629;QR=42765;RO=1214;RPL=1837;RPP=68.4418;RPPR=10.8018;RPR=1519;RUN=1;SAF=1837;SAP=68.4418;SAR=1519;SRF=640;SRP=10.8018;SRR=574;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:260:1,259:1:36:259:9184:-822.829,-74.6695,0 1/1:151:0,151:0:0:151:5384:-484.689,-45.4555,0 0/1:187:91,95:91:3189:95:3328:-243.364,0,-230.883 1/1:332:0,332:0:0:332:11706:-1053.06,-99.942,0 1/1:595:2,589:2:72:589:20810:-1865.28,-171.432,0 0/1:77:32,45:32:1148:45:1616:-122.545,0,-80.4505 0/1:173:66,107:66:2354:107:3815:-291.466,0,-160.039 0/1:260:142,118:142:5043:118:4198:-299.723,0,-375.747 0/1:445:209,236:209:7307:236:8304:-613.041,0,-523.728 0/1:30:9,21:9:320:21:744:-58.2534,0,-20.1115 0/0:6:6,0:6:208:0:0:0,-1.80618,-19.0591 0/1:51:23,28:23:828:28:996:-74.6024,0,-59.4916 1/1:219:0,218:0:0:218:7754:-697.062,-65.6245,0 1/1:241:1,239:1:36:239:8452:-757.046,-69.0088,0 0/1:457:250,206:250:8805:206:7235:-513.686,0,-654.984 0/1:244:137,106:137:4812:106:3702:-259.821,0,-359.731 0/1:176:86,90:86:2977:90:3168:-232.319,0,-215.181 0/1:196:104,92:104:3687:92:3263:-234.851,0,-273.031 0/1:163:52,111:52:1835:111:3901:-302.131,0,-116.362 1/1:259:1,257:1:36:257:9079:-813.371,-74.4273,0 1/1:58:2,56:2:72:56:1990:-172.533,-10.623,0 chr06 28557836 . GTAAGCTC CTAAACTT,GTAAACTC 57396.6 PASS AB=0.493704,0.498343;ABP=3.52978,3.04628;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1986,755;CIGAR=1X3M1X2M1X,4M1X3M;DP=2768;DPB=2954;DPRA=0,1.09017;EPP=4315.55,1642.47;EPPR=0;GTI=0;LEN=8,1;MEANALT=3,3.26667;MQM=59.3036,59.9775;MQMR=0;NS=21;NUMALT=2;ODDS=11.0942;PAIRED=0,0;PAIREDR=0;PAO=1488,0;PQA=52340,0;PQR=0;PRO=0;QA=69641,27021;QR=0;RO=0;RPL=0,0;RPP=4315.55,1642.47;RPPR=0;RPR=1986,755;RUN=1,1;SAF=0,0;SAP=4315.55,1642.47;SAR=1986,755;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,109,0:0:0:109,0:3825,0:-343.39,-32.8123,0,-343.39,-32.8123,-343.39 1/1:112:0,111,0:0:0:111,0:3900,0:-350.465,-33.4143,0,-350.465,-33.4143,-350.465 1/2:75:0,42,32:0:0:42,32:1483,1152:-214.737,-94.0013,-81.358,-120.738,0,-111.105 1/1:185:0,183,0:0:0:183,0:6399,0:-575.549,-55.0885,0,-575.549,-55.0885,-575.549 1/1:345:0,338,1:0:0:338,1:11886,36:-1068.58,-101.748,0,-1065.65,-98.8107,-1065.34 1/2:101:0,43,57:0:0:43,57:1513,2052:-290.619,-167.462,-154.518,-123.181,0,-106.023 1/2:200:0,98,101:0:0:98,101:3426,3601:-572.284,-293.601,-264.1,-278.745,0,-248.341 1/2:158:0,59,96:0:0:59,96:2075,3448:-450.173,-281.277,-263.516,-168.896,0,-139.997 1/2:278:0,138,138:0:0:138,138:4829,4914:-793.26,-400.507,-358.965,-392.754,0,-351.212 1/1:20:0,19,1:0:0:19,1:661,36:-59.4241,-5.71957,0,-56.4863,-2.78215,-56.1852 1/2:5:0,2,3:0:0:2,3:69,108:-14.7717,-9.17208,-8.57002,-5.95048,0,-5.04739 1/2:22:0,12,10:0:0:12,10:424,347:-62.7336,-28.2024,-24.5901,-34.5294,0,-31.5191 1/1:131:0,128,0:0:0:128,0:4496,0:-403.97,-38.5318,0,-403.97,-38.5318,-403.97 1/1:121:0,121,0:0:0:121,0:4213,0:-378.867,-36.4246,0,-378.867,-36.4246,-378.867 1/2:271:0,129,139:0:0:129,139:4534,4980:-775.153,-406.153,-367.32,-369.003,0,-327.16 1/2:131:0,69,61:0:0:69,61:2422,2196:-376.258,-179.192,-158.421,-197.072,0,-178.709 1/2:87:0,52,35:0:0:52,35:1810,1248:-248.898,-101.733,-86.0791,-147.164,0,-136.628 1/2:97:0,41,56:0:0:41,56:1422,2016:-280.057,-164.497,-152.154,-115.559,0,-98.7008 1/2:84:0,60,24:0:0:60,24:2105,851:-240.597,-69.3314,-51.2696,-171.266,0,-164.042 1/1:151:0,149,1:0:0:149,1:5233,36:-470.677,-44.8535,0,-467.74,-41.916,-467.439 1/1:84:0,83,0:0:0:83,0:2916,0:-262.196,-24.9855,0,-262.196,-24.9855,-262.196 chr06 28557854 . A G 40645.2 PASS AB=0.499325;ABP=3.01616;AC=30;AF=0.714286;AN=42;AO=1968;CIGAR=1X;DP=2713;DPB=2713;DPRA=0;EPP=4224.51;EPPR=1586.2;GTI=0;LEN=1;MEANALT=1;MQM=59.2297;MQMR=59.9919;NS=21;NUMALT=1;ODDS=10.8561;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69807;QR=26560;RO=745;RPL=1962;RPP=4224.51;RPPR=1586.2;RPR=6;RUN=1;SAF=0;SAP=4276.47;SAR=1968;SRF=0;SRP=1620.76;SRR=745;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106:0:0:106:3759:-337.856,-31.9092,0 1/1:110:0,110:0:0:110:3893:-349.577,-33.1133,0 0/1:75:32,43:32:1148:43:1504:-113.056,0,-81.0526 1/1:181:0,181:0:0:181:6431:-578.431,-54.4864,0 1/1:341:1,340:1:36:340:12081:-1082.44,-99.053,0 0/1:98:55,43:55:1968:43:1535:-108.933,0,-147.894 0/1:195:98,97:98:3491:97:3446:-251.621,0,-255.701 0/1:151:92,59:92:3266:59:2096:-143.436,0,-248.698 0/1:275:137,138:137:4890:138:4890:-357.308,0,-357.469 1/1:19:1,18:1:36:18:636:-53.9321,-2.1213,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:22:10,12:10:351:12:423:-31.7824,0,-25.304 1/1:130:0,130:0:0:130:4636:-416.89,-39.1339,0 1/1:118:0,118:0:0:118:4195:-377.608,-35.5215,0 0/1:266:137,129:137:4900:129:4593:-333.308,0,-361.078 0/1:126:59,67:59:2116:67:2387:-177.112,0,-152.779 0/1:87:37,50:37:1299:50:1770:-133.371,0,-91.0208 0/1:98:57,41:57:2027:41:1450:-101.254,0,-153.201 0/1:84:25,59:25:888:59:2054:-159.794,0,-54.9525 1/1:144:1,143:1:36:143:5083:-453.922,-39.75,0 1/1:82:0,82:0:0:82:2873:-258.734,-24.6845,0 chr06 28612075 . T G,A 71259.8 PASS AB=0.491228,0.508772;ABP=4.03889,4.03889;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1902,791;CIGAR=1X,1X;DP=2693;DPB=2693;DPRA=0,0.971653;EPP=4133.15,1720.64;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.80952,2;MQM=59.7634,59.1846;MQMR=0;NS=21;NUMALT=2;ODDS=20.377;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66267,28043;QR=0;RO=0;RPL=987,270;RPP=8.92876,175.962;RPPR=0;RPR=915,521;RUN=1,1;SAF=987,270;SAP=8.92876,175.962;SAR=915,521;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:0,137,1:0:0:137,1:4740,36:-426.388,-41.2411,0,-423.45,-37.9439,-423.149 1/1:121:0,120,1:0:0:120,1:4162,36:-374.387,-36.1236,0,-371.451,-32.8274,-371.15 1/2:107:0,49,58:0:0:49,58:1730,2064:-309.381,-168.507,-153.757,-141.228,0,-123.768 1/1:158:0,158,0:0:0:158,0:5498,0:-494.954,-47.5627,0,-494.954,-47.5627,-494.954 1/1:236:0,234,2:0:0:234,2:8169,63:-734.903,-70.441,0,-729.837,-65.0599,-729.235 1/2:123:0,54,69:0:0:54,69:1861,2459:-351.851,-200.691,-184.436,-151.51,0,-130.739 1/2:199:0,86,113:0:0:86,113:2967,4003:-567.24,-326.239,-300.35,-241.35,0,-207.334 1/2:157:0,103,54:0:0:103,54:3599,1912:-448.843,-156.098,-125.092,-293.097,0,-276.842 1/2:117:0,54,63:0:0:54,63:1882,2238:-335.752,-182.704,-166.449,-153.399,0,-134.434 1/2:26:0,8,18:0:0:8,18:288,648:-76.6724,-53.173,-50.7647,-23.8592,0,-18.4406 1/2:12:0,7,5:0:0:7,5:240,180:-34.518,-15.0432,-12.936,-19.8275,0,-18.3223 1/2:97:0,39,58:0:0:39,58:1349,2022:-274.312,-164.713,-152.973,-109.946,0,-92.4858 1/1:147:0,147,0:0:0:147,0:5179,0:-466.233,-44.2514,0,-466.233,-44.2514,-466.233 1/1:122:0,122,0:0:0:122,0:4223,0:-379.45,-36.7257,0,-379.45,-36.7257,-379.45 1/2:188:0,111,77:0:0:111,77:3910,2720:-539.504,-221.743,-188.329,-318.114,0,-294.935 1/2:111:0,45,66:0:0:45,66:1561,2372:-320.701,-193.833,-180.287,-127.22,0,-107.352 1/2:120:0,48,72:0:0:48,72:1692,2562:-346.186,-208.428,-193.978,-138.111,0,-116.437 1/2:190:0,90,100:0:0:90,100:3141,3529:-542.982,-287.536,-260.443,-255.797,0,-225.694 1/2:92:0,62,30:0:0:62,30:2191,1063:-265.303,-86.8766,-68.2128,-178.78,0,-169.749 1/1:134:0,130,4:0:0:130,4:4540,136:-408.126,-39.1339,0,-397.094,-27.7625,-395.89 1/1:98:0,98,0:0:0:98,0:3345,0:-301.252,-29.5009,0,-301.252,-29.5009,-301.252 chr06 28612080 . AA GG 17120.3 PASS AB=0.504774;ABP=3.3213;AC=13;AF=0.309524;AN=42;AO=801;CIGAR=2X;DP=2776;DPB=2776;DPRA=0.956634;EPP=1742.36;EPPR=4278.64;GTI=0;LEN=2;MEANALT=1.23529;MQM=59.1773;MQMR=59.7918;NS=21;NUMALT=1;ODDS=17.0101;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27894;QR=68579;RO=1969;RPL=264;RPP=205.055;RPPR=11.3576;RPR=537;RUN=1;SAF=264;SAP=205.055;SAR=537;SRF=1028;SRP=11.3576;SRR=941;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:145,1:145:5046:1:20:0,-41.9504,-452.275 0/0:129:128,1:128:4471:1:36:0,-35.2356,-398.947 0/1:112:53,59:53:1838:59:2036:-149.733,0,-131.959 0/0:167:167,0:167:5737:0:0:0,-50.272,-516.464 0/0:243:241,2:241:8385:2:59:0,-67.547,-749.056 0/1:125:57,68:57:2023:68:2402:-178.731,0,-144.714 0/1:201:89,112:89:3109:112:3934:-293.535,0,-219.51 0/1:163:105,57:105:3665:57:1996:-130.786,0,-280.912 0/1:119:56,63:56:1974:63:2231:-165.218,0,-142.111 0/1:25:8,17:8:272:17:605:-47.2021,0,-17.2843 0/1:12:7,5:7:252:5:171:-12.1102,0,-19.4166 0/1:99:41,58:41:1426:58:1978:-148.472,0,-98.8146 0/0:149:149,0:149:5174:0:0:0,-44.8535,-465.793 0/0:131:130,0:130:4473:0:0:0,-39.1339,-401.381 0/1:192:113,79:113:3981:79:2745:-189.445,0,-300.51 0/1:112:46,66:46:1602:66:2330:-176.213,0,-110.74 0/1:124:48,76:48:1668:76:2615:-197.767,0,-113.074 0/1:194:90,104:90:3138:104:3587:-264.457,0,-224.224 0/1:93:61,29:61:2138:29:1010:-63.7081,0,-165.235 0/0:139:134,4:134:4676:4:139:0,-29.0463,-407.93 0/0:101:101,0:101:3531:0:0:0,-30.404,-317.984 chr06 28612091 . ATA AA 17040.5 PASS AB=0.439709;ABP=33.3838;AC=29;AF=0.690476;AN=42;AO=891;CIGAR=1M1D1M;DP=1440;DPB=1142;DPRA=0;EPP=1937.79;EPPR=29.8503;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.6566;MQMR=58.8051;NS=21;NUMALT=1;ODDS=1.89293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31529;QR=19198;RO=544;RPL=891;RPP=1937.79;RPPR=29.8503;RPR=0;RUN=1;SAF=0;SAP=1937.79;SAR=891;SRF=0;SRP=1184.29;SRR=544;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,77:0:0:77:2733:-245.838,-23.1793,0 1/1:63:2,61:2:67:61:2172:-189.368,-12.6038,0 0/1:84:47,37:47:1655:37:1316:-93.451,0,-123.888 1/1:36:0,36:0:0:36:1262:-113.878,-10.8371,0 1/1:97:0,95:0:0:95:3361:-302.34,-28.5979,0 0/1:56:37,19:37:1326:19:680:-44.6715,0,-102.678 0/1:108:70,38:70:2508:38:1340:-88.365,0,-193.244 0/1:97:34,63:34:1210:63:2221:-170.942,0,-80.0055 0/1:54:36,18:36:1254:18:636:-41.3124,0,-96.896 0/1:21:14,7:14:493:7:233:-14.9727,0,-38.3201 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8047 0/1:59:45,14:45:1583:14:504:-27.9373,0,-124.92 1/1:57:0,57:0:0:57:2013:-181.423,-17.1587,0 1/1:43:0,43:0:0:43:1527:-137.716,-12.9443,0 0/1:160:72,88:72:2513:88:3137:-233.994,0,-178.22 0/1:48:31,16:31:1094:16:572:-37.3083,0,-84.2623 0/1:72:45,27:45:1562:27:953:-64.4045,0,-118.39 0/1:151:87,64:87:3082:64:2266:-158.72,0,-231.965 0/1:47:16,31:16:574:31:1112:-86.2306,0,-37.7805 1/1:58:4,54:4:133:54:1892:-158.1,-5.16164,0 1/1:46:0,45:0:0:45:1563:-140.595,-13.5464,0 chr06 28773750 . G C 35093.3 PASS AB=0.498932;ABP=3.02421;AC=29;AF=0.690476;AN=42;AO=1725;CIGAR=1X;DP=2435;DPB=2435;DPRA=0;EPP=3731.45;EPPR=1525.26;GTI=1;LEN=1;MEANALT=1.04762;MQM=53.5009;MQMR=59.9577;NS=21;NUMALT=1;ODDS=2.07478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61693;QR=25317;RO=709;RPL=2;RPP=3731.45;RPPR=1525.26;RPR=1723;RUN=1;SAF=1725;SAP=3748.8;SAR=0;SRF=709;SRP=1542.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,125:0:0:125:4464:-398.09,-37.6288,0 1/1:94:0,94:0:0:94:3371:-302.062,-28.2968,0 0/1:170:86,84:86:3088:84:3008:-219.556,0,-226.972 1/1:108:0,108:0:0:108:3861:-339.887,-32.5112,0 1/1:269:2,267:2:72:267:9550:-842.412,-74.1403,0 0/1:85:37,48:37:1324:48:1707:-128.327,0,-93.8745 0/1:148:63,85:63:2244:85:3056:-230.611,0,-157.671 0/1:113:53,60:53:1896:60:2144:-156.165,0,-136.902 0/1:257:151,106:151:5405:106:3781:-263.064,0,-409.214 0/1:17:7,10:7:252:10:356:-27.2411,0,-17.9114 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:21:12,9:12:413:9:324:-23.1842,0,-31.1762 1/1:158:0,158:0:0:158:5663:-505.392,-47.5627,0 1/1:107:0,107:0:0:107:3828:-340.803,-32.2102,0 0/1:211:101,110:101:3574:110:3937:-290.612,0,-258.35 0/1:88:63,25:63:2260:25:875:-52.3142,0,-177.172 0/1:83:37,46:37:1313:46:1644:-123.227,0,-93.4842 0/1:119:60,59:60:2152:59:2111:-151.838,0,-157.498 0/1:88:32,55:32:1144:55:1954:-149.379,0,-76.7202 1/1:119:4,115:4:144:115:4119:-354.338,-22.509,0 1/1:50:0,50:0:0:50:1796:-160.238,-15.0515,0 chr06 28773759 . T A 33496.8 PASS AB=0.491014;ABP=3.98598;AC=29;AF=0.690476;AN=42;AO=1680;CIGAR=1X;DP=2395;DPB=2395;DPRA=0;EPP=3651.08;EPPR=1538.25;GTI=1;LEN=1;MEANALT=1.19048;MQM=53.4964;MQMR=60;NS=21;NUMALT=1;ODDS=0.412696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59527;QR=25480;RO=711;RPL=1680;RPP=3651.08;RPPR=1538.25;RPR=0;RUN=1;SAF=1680;SAP=3651.08;SAR=0;SRF=711;SRP=1546.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,112:0:0:112:3993:-356.022,-33.7154,0 1/1:95:0,95:0:0:95:3368:-301.962,-28.5979,0 0/1:171:90,81:90:3228:81:2874:-207.2,0,-239.265 1/1:107:0,106:0:0:106:3796:-334.298,-31.9092,0 1/1:265:3,262:3:104:262:9323:-819.834,-70.0701,0 0/1:82:35,47:35:1256:47:1673:-126.17,0,-88.6608 0/1:145:62,83:62:2228:83:2956:-222.541,0,-157.135 0/1:109:51,58:51:1828:58:2017:-146.556,0,-131.989 0/1:258:152,105:152:5456:105:3741:-259.146,0,-413.442 0/1:18:7,11:7:243:11:366:-27.8392,0,-16.7889 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:22:13,9:13:455:9:324:-22.8832,0,-34.6593 1/1:154:0,154:0:0:154:5443:-485.85,-46.3586,0 1/1:98:0,98:0:0:98:3398:-303.189,-29.5009,0 0/1:210:103,107:103:3674:107:3768:-275.803,0,-267.647 0/1:86:62,23:62:2228:23:813:-47.1177,0,-174.836 0/1:81:36,45:36:1296:45:1596:-119.51,0,-92.5605 0/1:117:60,56:60:2160:56:2000:-142.019,0,-159.392 0/1:87:33,54:33:1184:54:1906:-145.433,0,-80.6787 1/1:124:3,121:3:104:121:4288:-372.005,-27.6249,0 1/1:49:0,49:0:0:49:1740:-155.439,-14.7505,0 chr06 28773778 . T C 34369.2 PASS AB=0.497509;ABP=3.08603;AC=29;AF=0.690476;AN=42;AO=1722;CIGAR=1X;DP=2435;DPB=2435;DPRA=0;EPP=3742.29;EPPR=1538.25;GTI=1;LEN=1;MEANALT=1.09524;MQM=53.5081;MQMR=59.9339;NS=21;NUMALT=1;ODDS=1.8191;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60974;QR=25393;RO=711;RPL=1722;RPP=3742.29;RPPR=1538.25;RPR=0;RUN=1;SAF=1722;SAP=3742.29;SAR=0;SRF=711;SRP=1546.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:0,127:0:0:127:4513:-402.674,-38.2308,0 1/1:95:0,94:0:0:94:3341:-299.181,-28.2968,0 0/1:170:87,83:87:3124:83:2967:-215.899,0,-230.211 1/1:108:0,108:0:0:108:3832:-337.806,-32.5112,0 1/1:262:3,259:3:108:259:9132:-803.408,-68.7947,0 0/1:82:35,47:35:1251:47:1656:-124.64,0,-88.2098 0/1:145:59,86:59:2087:86:3030:-229.205,0,-144.451 0/1:112:54,58:54:1936:58:2032:-146.801,0,-140.801 0/1:262:152,110:152:5422:110:3935:-275.443,0,-409.241 0/1:18:6,12:6:216:12:406:-31.4231,0,-14.372 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:21:13,8:13:468:8:288:-19.9458,0,-36.138 1/1:156:0,156:0:0:156:5520:-492.662,-46.9607,0 1/1:105:0,105:0:0:105:3741:-333,-31.6082,0 0/1:209:102,106:102:3637:106:3748:-274.175,0,-264.49 0/1:88:64,24:64:2288:24:856:-50.1388,0,-179.691 0/1:83:37,46:37:1332:46:1638:-122.685,0,-95.1969 0/1:122:62,60:62:2205:60:2122:-152.024,0,-161.361 0/1:88:33,55:33:1175:55:1927:-147.011,0,-79.5663 1/1:127:3,124:3:108:124:4358:-378.332,-28.1556,0 1/1:50:0,50:0:0:50:1788:-159.512,-15.0515,0 chr06 28774179 . A G 17034.4 PASS AB=0.491256;ABP=3.42802;AC=29;AF=0.690476;AN=42;AO=829;CIGAR=1X;DP=1152;DPB=1152;DPRA=0;EPP=1803.16;EPPR=704.396;GTI=1;LEN=1;MEANALT=1;MQM=59.9337;MQMR=59.935;NS=21;NUMALT=1;ODDS=2.32219;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29601;QR=11545;RO=323;RPL=829;RPP=1803.16;RPPR=704.396;RPR=0;RUN=1;SAF=829;SAP=1803.16;SAR=0;SRF=323;SRP=704.396;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:72:48,24:48:1724:24:860:-56.0477,0,-133.771 1/1:68:0,68:0:0:68:2434:-219.316,-20.47,0 1/1:113:0,113:0:0:113:4020:-361.987,-34.0164,0 0/1:59:37,22:37:1309:22:788:-53.484,0,-100.342 0/1:75:31,44:31:1112:44:1580:-119.913,0,-77.8141 0/1:33:21,12:21:748:12:394:-25.8403,0,-57.7113 0/1:139:72,67:72:2569:67:2408:-175.133,0,-189.615 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:29:21,8:21:748:8:288:-17.5375,0,-58.9154 1/1:59:2,57:2:72:57:2048:-177.709,-10.924,0 1/1:66:0,66:0:0:66:2344:-211.217,-19.868,0 0/1:50:17,33:17:612:33:1188:-92.1771,0,-40.3619 0/1:10:6,4:6:216:4:140:-9.93428,0,-16.7802 0/1:19:10,9:10:360:9:324:-23.7863,0,-27.0247 0/1:70:33,37:33:1188:37:1328:-98.7501,0,-86.1565 0/1:63:21,42:21:743:42:1483:-114.799,0,-48.2229 1/1:131:1,130:1:36:130:4638:-413.895,-35.8367,0 1/1:46:0,46:0:0:46:1644:-148.249,-13.8474,0 chr06 28774190 . G T 5311.48 PASS AB=0.501572;ABP=3.02396;AC=13;AF=0.309524;AN=42;AO=322;CIGAR=1X;DP=1162;DPB=1162;DPRA=0.987463;EPP=702.224;EPPR=1827.05;GTI=1;LEN=1;MEANALT=1;MQM=59.9658;MQMR=59.9738;NS=21;NUMALT=1;ODDS=3.4565;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11523;QR=30024;RO=840;RPL=322;RPP=702.224;RPPR=1827.05;RPR=0;RUN=1;SAF=322;SAP=702.224;SAR=0;SRF=840;SRP=1827.05;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:74:26,48:26:932:48:1724:-133.169,0,-61.9226 0/0:67:67,0:67:2378:0:0:0,-20.169,-214.275 0/0:113:113,0:113:4021:0:0:0,-34.0164,-362.076 0/1:59:23,36:23:811:36:1279:-97.6446,0,-55.5492 0/1:77:45,32:45:1612:32:1152:-80.8108,0,-122.189 0/1:34:13,21:13:468:21:741:-56.7766,0,-32.22 0/1:138:67,71:67:2404:71:2552:-188.388,0,-175.074 0/1:6:5,1:5:171:1:36:-1.79209,0,-13.9193 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:30:8,22:8:284:22:788:-62.2139,0,-16.8725 0/0:61:59,2:59:2107:2:72:0,-11.5261,-183.05 0/0:69:69,0:69:2464:0:0:0,-20.7711,-222.014 0/1:49:33,16:33:1184:16:563:-36.2487,0,-92.1178 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:19:9,10:9:320:10:360:-27.0247,0,-23.4228 0/1:72:39,33:39:1404:33:1180:-84.8339,0,-104.985 0/1:63:42,21:42:1508:21:752:-49.0414,0,-117.05 0/0:130:129,1:129:4624:1:36:0,-35.5356,-412.724 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 chr06 28835910 . G C 18712.3 PASS AB=0.519678;ABP=10.1034;AC=13;AF=0.309524;AN=42;AO=1102;CIGAR=1X;DP=3621;DPB=3621;DPRA=1.12303;EPP=2395.97;EPPR=5438.26;GTI=0;LEN=1;MEANALT=1;MQM=59.971;MQMR=59.9786;NS=21;NUMALT=1;ODDS=28.7888;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39259;QR=89815;RO=2519;RPL=0;RPP=2395.97;RPPR=5438.26;RPR=1102;RUN=1;SAF=1102;SAP=2395.97;SAR=0;SRF=2519;SRP=5472.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:187:187,0:187:6701:0:0:0,-56.2926,-603.163 0/1:240:97,143:97:3437:143:5097:-386.625,0,-237.294 0/0:281:281,0:281:10008:0:0:0,-84.5894,-900.657 0/0:377:373,4:373:13280:4:140:0,-100.544,-1182.04 0/1:122:55,67:55:1960:67:2375:-177.283,0,-139.95 0/1:276:141,135:141:4987:135:4777:-347.001,0,-365.895 0/1:92:33,59:33:1188:59:2116:-163.014,0,-79.5338 0/1:290:152,138:152:5445:138:4913:-355.021,0,-402.878 0/1:29:9,20:9:324:20:708:-55.3157,0,-20.776 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 0/1:48:22,26:22:792:26:927:-69.2979,0,-57.1562 0/0:184:182,2:182:6483:2:72:0,-48.5528,-576.717 0/0:210:210,0:210:7532:0:0:0,-63.2163,-677.904 0/1:422:185,237:185:6622:237:8486:-636.706,0,-469.021 0/1:179:95,84:95:3366:84:3000:-216.34,0,-249.271 0/1:154:79,75:79:2801:75:2676:-194.723,0,-205.971 0/1:163:87,76:87:3071:76:2693:-193.546,0,-227.538 0/1:81:52,29:52:1856:29:1027:-68.3587,0,-142.936 0/0:161:161,0:161:5746:0:0:0,-48.4658,-517.254 0/0:80:80,0:80:2852:0:0:0,-24.0824,-256.916 chr06 28835999 . 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A T 4681.49 PASS AB=0.433908;ABP=29.4174;AC=13;AF=0.309524;AN=42;AO=304;CIGAR=1X;DP=1105;DPB=1105;DPRA=1.28061;EPP=663.138;EPPR=1742.36;GTI=0;LEN=1;MEANALT=1;MQM=59.9342;MQMR=59.9888;NS=21;NUMALT=1;ODDS=3.31884;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10834;QR=28608;RO=801;RPL=0;RPP=663.138;RPPR=1742.36;RPR=304;RUN=1;SAF=0;SAP=663.138;SAR=304;SRF=0;SRP=1742.36;SRR=801;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2184:1:36:0,-15.0656,-193.228 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/1:43:29,14:29:1040:14:504:-32.7538,0,-80.9701 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 0/0:61:61,0:61:2163:0:0:0,-18.3628,-194.937 0/1:62:27,35:27:968:35:1245:-93.6892,0,-68.7735 0/1:44:13,31:13:464:31:1093:-85.4323,0,-28.8522 0/1:53:35,18:35:1260:18:636:-41.6134,0,-97.7509 0/1:101:68,33:68:2425:33:1176:-75.7437,0,-188.1 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/0:84:83,1:83:2952:1:36:0,-21.6882,-262.313 0/1:162:84,78:84:3004:78:2796:-203.105,0,-221.825 0/1:42:24,18:24:849:18:625:-43.9293,0,-64.0846 0/1:47:27,20:27:960:20:711:-50.1672,0,-72.5679 0/1:72:42,30:42:1496:30:1076:-75.4787,0,-113.26 0/1:46:31,15:31:1112:15:540:-35.0892,0,-86.544 0/0:29:29,0:29:1035:0:0:0,-8.72987,-93.4631 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 chr06 28879466 . G A 16548.9 PASS AB=0.566145;ABP=29.7259;AC=29;AF=0.690476;AN=42;AO=813;CIGAR=1X;DP=1120;DPB=1120;DPRA=0;EPP=1751.09;EPPR=669.652;GTI=0;LEN=1;MEANALT=1;MQM=59.984;MQMR=59.9414;NS=21;NUMALT=1;ODDS=2.46623;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29014;QR=11005;RO=307;RPL=811;RPP=1751.09;RPPR=669.652;RPR=2;RUN=1;SAF=0;SAP=1768.42;SAR=813;SRF=0;SRP=669.652;SRR=307;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:1,65:1:36:65:2308:-204.38,-16.2697,0 1/1:56:0,56:0:0:56:2001:-180.362,-16.8577,0 0/1:42:14,28:14:504:28:984:-76.2288,0,-33.0548 1/1:46:0,46:0:0:46:1637:-147.617,-13.8474,0 1/1:62:0,62:0:0:62:2198:-198.082,-18.6639,0 0/1:66:37,29:37:1320:29:1025:-72.6927,0,-99.2258 0/1:43:30,13:30:1080:13:468:-29.5154,0,-84.569 0/1:54:18,36:18:648:36:1296:-100.688,0,-42.3963 0/1:102:33,69:33:1184:69:2472:-192.029,0,-76.1633 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 1/1:85:1,84:1:36:84:2979:-264.73,-21.9893,0 0/1:163:81,82:81:2889:82:2948:-216.485,0,-211.169 0/1:41:17,24:17:608:24:856:-65.0189,0,-42.7089 0/1:48:20,28:20:720:28:1000:-75.8659,0,-50.6793 0/1:72:30,42:30:1080:42:1503:-113.89,0,-75.8391 0/1:46:15,31:15:540:31:1116:-86.9043,0,-35.0892 1/1:29:0,29:0:0:29:1027:-92.7422,-8.72987,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 chr06 28879471 . A G 4763.08 PASS AB=0.433855;ABP=29.7259;AC=13;AF=0.309524;AN=42;AO=307;CIGAR=1X;DP=1122;DPB=1122;DPRA=1.25609;EPP=669.652;EPPR=1770.59;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9349;MQMR=59.9951;NS=21;NUMALT=1;ODDS=2.2996;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10969;QR=29057;RO=814;RPL=307;RPP=669.652;RPPR=1770.59;RPR=0;RUN=1;SAF=0;SAP=669.652;SAR=307;SRF=0;SRP=1770.59;SRR=814;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,1:64:2264:1:36:0,-15.9687,-200.423 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/1:42:28,14:28:1004:14:504:-33.0548,0,-78.0326 0/0:48:48,0:48:1698:0:0:0,-14.4494,-153.105 0/0:64:64,0:64:2265:0:0:0,-19.2659,-204.111 0/1:65:28,37:28:984:37:1328:-100.247,0,-69.3037 0/1:44:13,31:13:460:31:1104:-86.4253,0,-28.4901 0/1:54:35,18:35:1260:18:644:-41.9763,0,-97.3911 0/1:101:69,32:69:2480:32:1148:-73.2258,0,-193.049 0/1:7:4,3:4:144:3:104:-7.5956,0,-11.2064 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.73 0/0:83:82,1:82:2940:1:36:0,-21.3872,-261.233 0/1:165:82,83:82:2928:83:2959:-216.865,0,-214.085 0/1:42:24,18:24:860:18:644:-45.6455,0,-65.0786 0/1:49:29,20:29:1036:20:716:-50.0172,0,-78.8034 0/1:71:42,29:42:1499:29:1026:-71.2782,0,-113.831 0/1:45:31,14:31:1112:14:504:-32.1517,0,-86.845 0/0:28:28,0:28:991:0:0:0,-8.42884,-89.5035 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 chr06 28880847 . A C 26695.6 PASS AB=0.5;ABP=3.0103;AC=13;AF=0.309524;AN=42;AO=1175;CIGAR=1X;DP=3940;DPB=3940;DPRA=1.02238;EPP=2554.49;EPPR=6004.96;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.7489;MQMR=59.9779;NS=21;NUMALT=1;ODDS=31.1696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41927;QR=98767;RO=2764;RPL=519;RPP=37.6966;RPPR=33.1909;RPR=656;RUN=1;SAF=519;SAP=37.6966;SAR=656;SRF=1480;SRP=33.1909;SRR=1284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:238:238,0:238:8473:0:0:0,-71.6451,-762.574 0/0:142:142,0:142:5062:0:0:0,-42.7463,-455.724 0/1:176:74,102:74:2648:102:3626:-273.562,0,-185.583 0/0:174:174,0:174:6194:0:0:0,-52.3792,-557.558 0/0:318:314,4:314:11235:4:144:0,-82.4139,-997.719 0/1:194:100,94:100:3591:94:3344:-242.776,0,-264.995 0/1:219:91,128:91:3244:128:4572:-345.72,0,-226.254 0/1:155:71,84:71:2530:84:2990:-222.658,0,-181.291 0/1:460:230,230:230:8227:230:8205:-599.948,0,-601.937 0/1:47:24,23:24:845:23:816:-59.6118,0,-62.2187 0/1:17:10,7:10:360:7:244:-17.1819,0,-27.6268 0/1:95:54,41:54:1940:41:1464:-103.454,0,-146.278 0/0:245:245,0:245:8727:0:0:0,-73.7523,-785.421 0/0:174:173,1:173:6172:1:36:0,-48.7809,-551.98 0/1:355:202,153:202:7232:153:5458:-384.351,0,-544.068 0/1:160:73,87:73:2609:87:3102:-231.029,0,-186.892 0/1:141:69,72:69:2480:72:2580:-189.514,0,-181.008 0/1:170:68,102:68:2436:102:3662:-277.968,0,-168.316 0/1:151:103,47:103:3683:47:1684:-106.333,0,-286.158 0/0:219:219,0:219:7855:0:0:0,-65.9256,-705.872 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.382 chr06 28880868 . G A 26466.6 PASS AB=0.499356;ABP=3.01869;AC=13;AF=0.309524;AN=42;AO=1171;CIGAR=1X;DP=3913;DPB=3913;DPRA=0.900608;EPP=2545.8;EPPR=5952.84;GTI=0;LEN=1;MEANALT=1;MQM=59.7635;MQMR=59.9861;NS=21;NUMALT=1;ODDS=31.1685;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41728;QR=97026;RO=2740;RPL=513;RPP=41.9985;RPPR=14.806;RPR=658;RUN=1;SAF=513;SAP=41.9985;SAR=658;SRF=1431;SRP=14.806;SRR=1309;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:235:234,0:234:8313:0:0:0,-70.441,-747.963 0/0:140:140,0:140:4917:0:0:0,-42.1442,-442.685 0/1:176:74,102:74:2632:102:3633:-274.187,0,-184.147 0/0:171:170,0:170:5978:0:0:0,-51.1751,-537.774 0/0:317:312,5:312:11022:5:180:0,-78.8744,-975.336 0/1:196:103,93:103:3628:93:3303:-238.488,0,-267.726 0/1:217:91,126:91:3232:126:4489:-338.856,0,-225.78 0/1:160:76,84:76:2665:84:2948:-217.376,0,-191.93 0/1:450:227,223:227:8064:223:7975:-582.269,0,-590.321 0/1:45:24,21:24:860:21:756:-54.8193,0,-64.1755 0/1:17:10,7:10:351:7:243:-17.09,0,-26.8092 0/1:98:57,41:57:2052:41:1468:-102.911,0,-155.45 0/0:242:242,0:242:8577:0:0:0,-72.8493,-771.932 0/0:170:168,2:168:5919:2:72:0,-44.3384,-525.986 0/1:353:199,154:199:7091:154:5478:-386.608,0,-531.987 0/1:162:73,89:73:2583:89:3187:-238.096,0,-183.95 0/1:137:66,71:66:2324:71:2529:-186.532,0,-168.178 0/1:171:66,105:66:2339:105:3747:-285.007,0,-159.293 0/1:147:100,47:100:3549:47:1684:-107.596,0,-275.368 0/0:220:220,0:220:7807:0:0:0,-66.2266,-701.563 0/0:89:88,1:88:3123:1:36:0,-23.1934,-277.7 chr06 28885413 . GGAGG GGAGC,AGAGC 28695.9 PASS AB=0.527211,0.472789;ABP=8.68272,8.68272;AC=29,13;AF=0.690476,0.309524;AN=42;AO=962,420;CIGAR=4M1X,1X3M1X;DP=1383;DPB=1475.2;DPRA=0,1.10736;EPP=2091.97,915.029;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.7619,2.06667;MQM=59.4356,58.731;MQMR=0;NS=21;NUMALT=2;ODDS=0.621307;PAIRED=0,0;PAIREDR=0;PAO=230,231;PQA=8226,8262;PQR=0;PRO=0;QA=34368,14901;QR=0;RO=0;RPL=962,420;RPP=2091.97,915.029;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2091.97,915.029;SAR=962,420;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99,0:0:0:99,0:3518,0:-316.203,-29.802,0,-316.203,-29.802,-316.203 1/1:20:0,20,0:0:0:20,0:705,0:-62.8404,-6.0206,0,-62.8404,-6.0206,-62.8404 1/2:71:0,31,40:0:0:31,40:1108,1425:-206.223,-115.888,-106.556,-90.1163,0,-78.0751 1/1:68:0,68,0:0:0:68,0:2444,0:-218.661,-20.47,0,-218.661,-20.47,-218.661 1/1:86:0,83,2:0:0:83,2:2972,72:-266.36,-24.9855,0,-260.486,-21.1372,-259.884 1/2:84:0,60,24:0:0:60,24:2160,853:-245.283,-69.0874,-51.0256,-175.806,0,-168.582 1/2:67:0,31,36:0:0:31,36:1108,1263:-191.028,-100.724,-91.392,-88.6313,0,-77.7942 1/2:180:0,90,90:0:0:90,90:3216,3193:-521.464,-259.44,-232.348,-261.491,0,-234.399 1/2:104:0,52,52:0:0:52,52:1853,1849:-300.708,-149.73,-134.077,-150.106,0,-134.452 1/2:12:0,6,6:0:0:6,6:216,216:-35.476,-17.8613,-16.0551,-17.8841,0,-16.0779 1/2:5:0,4,1:0:0:4,1:144,35:-14.9552,-3.1976,-1.99348,-12.1095,0,-11.8085 1/2:21:0,15,6:0:0:15,6:540,214:-61.6887,-17.6512,-13.1357,-44.2479,0,-42.4418 1/1:70:0,70,0:0:0:70,0:2504,0:-224.059,-21.0721,0,-224.059,-21.0721,-224.059 1/1:81:0,81,0:0:0:81,0:2904,0:-260.154,-24.3834,0,-260.154,-24.3834,-260.154 1/2:144:0,67,77:0:0:67,77:2377,2734:-415.604,-221.97,-201.801,-193.399,0,-170.22 1/2:29:0,16,13:0:0:16,13:576,460:-83.251,-36.3281,-31.5116,-46.2537,0,-42.3403 1/2:30:0,21,9:0:0:21,9:737,323:-86.1515,-26.2243,-19.9027,-59.8098,0,-57.1005 1/2:77:0,38,39:0:0:38,39:1349,1373:-219.165,-109.305,-97.8654,-107.553,0,-95.8131 1/2:58:0,34,24:0:0:34,24:1209,855:-165.115,-66.6873,-56.4523,-95.4804,0,-88.2557 1/1:48:0,47,1:0:0:47,1:1688,36:-150.417,-14.1484,0,-147.55,-10.9284,-147.249 1/1:29:0,29,0:0:0:29,0:1040,0:-91.0027,-8.72987,0,-91.0027,-8.72987,-91.0027 chr06 29000130 . A T 7010.07 PASS AB=0.501196;ABP=3.02069;AC=13;AF=0.309524;AN=42;AO=424;CIGAR=1X;DP=1349;DPB=1349;DPRA=1.12628;EPP=923.715;EPPR=2011.62;GTI=0;LEN=1;MEANALT=1;MQM=59.9976;MQMR=60;NS=21;NUMALT=1;ODDS=11.4336;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15158;QR=33121;RO=925;RPL=424;RPP=923.715;RPPR=2011.62;RPR=0;RUN=1;SAF=0;SAP=923.715;SAR=424;SRF=0;SRP=2011.62;SRR=925;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:62,1:62:2224:1:36:0,-15.3666,-196.826 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 0/1:111:47,64:47:1684:64:2304:-174.206,0,-118.433 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/0:67:64,3:64:2288:3:108:0,-10.0938,-196.107 0/1:62:34,28:34:1220:28:1004:-72.012,0,-91.4429 0/1:71:39,32:39:1404:32:1152:-82.617,0,-105.286 0/1:61:27,34:27:960:34:1201:-90.0308,0,-68.3534 0/1:111:61,50:61:2184:50:1796:-128.508,0,-163.412 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/1:30:18,12:18:648:12:432:-30.1903,0,-49.621 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/0:90:89,1:89:3168:1:36:0,-23.4944,-281.748 0/1:162:62,100:62:2216:100:3541:-270.131,0,-150.938 0/1:19:10,9:10:356:9:320:-23.4228,0,-26.6617 0/1:42:22,20:22:780:20:712:-51.7634,0,-57.8798 0/1:86:50,36:50:1800:36:1292:-90.6952,0,-136.394 0/1:64:41,23:41:1468:23:828:-55.5782,0,-113.15 0/0:82:82,0:82:2937:0:0:0,-24.6845,-264.562 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 chr06 29000184 . G A 9115.65 PASS AB=0.563243;ABP=35.1457;AC=13;AF=0.309524;AN=42;AO=522;CIGAR=1X;DP=1590;DPB=1590;DPRA=0.882609;EPP=1136.52;EPPR=2304.8;GTI=0;LEN=1;MEANALT=1;MQM=59.9464;MQMR=60;NS=21;NUMALT=1;ODDS=13.9727;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18623;QR=37785;RO=1068;RPL=521;RPP=1127.85;RPPR=2304.8;RPR=1;RUN=1;SAF=521;SAP=1127.85;SAR=1;SRF=1068;SRP=2322.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:67,0:67:2374:0:0:0,-20.169,-213.918 0/0:41:41,0:41:1438:0:0:0,-12.3422,-129.714 0/1:55:20,35:20:670:35:1240:-95.3219,0,-44.0546 0/0:107:107,0:107:3819:0:0:0,-32.2102,-343.908 0/0:159:159,0:159:5611:0:0:0,-47.8638,-505.114 0/1:84:43,41:43:1536:41:1476:-107.85,0,-113.247 0/1:112:57,55:57:2027:55:1941:-141.248,0,-148.987 0/1:59:27,32:27:944:32:1139:-85.0583,0,-67.5106 0/1:155:60,95:60:2128:95:3403:-259.824,0,-145.126 0/1:14:9,5:9:324:5:169:-11.3271,0,-25.2914 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:13:4,9:4:144:9:320:-25.229,0,-9.40023 0/0:87:87,0:87:3106:0:0:0,-26.1896,-279.766 0/0:90:89,1:89:3135:1:36:0,-23.4944,-278.778 0/1:105:38,67:38:1364:67:2397:-184.379,0,-91.4526 0/1:78:28,50:28:999:50:1791:-137.991,0,-66.7442 0/1:75:30,45:30:1044:45:1604:-122.073,0,-71.6897 0/1:91:40,51:40:1419:51:1827:-137.317,0,-100.613 0/1:78:46,32:46:1626:32:1136:-79.068,0,-123.147 0/0:68:68,0:68:2391:0:0:0,-20.47,-215.446 0/0:46:46,0:46:1614:0:0:0,-13.8474,-145.548 chr06 29000361 . A G 9581.45 PASS AB=0.458301;ABP=22.3877;AC=13;AF=0.309524;AN=42;AO=598;CIGAR=1X;DP=2402;DPB=2402;DPRA=0.980139;EPP=1258.48;EPPR=3840.39;GTI=1;LEN=1;MEANALT=1.05882;MQM=59.6672;MQMR=59.9978;NS=21;NUMALT=1;ODDS=5.59343;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21197;QR=64564;RO=1803;RPL=593;RPP=1258.48;RPPR=3849;RPR=5;RUN=1;SAF=0;SAP=1301.55;SAR=598;SRF=1;SRP=3909.49;SRR=1802;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:126:126,0:126:4507:0:0:0,-37.9298,-405.798 0/0:22:22,0:22:774:0:0:0,-6.62266,-69.9802 0/1:125:68,57:68:2428:57:2034:-145.689,0,-181.147 0/0:117:117,0:117:4191:0:0:0,-35.2205,-377.371 0/0:277:276,1:276:9891:1:36:0,-79.787,-886.529 0/1:96:46,50:46:1635:50:1784:-131.928,0,-118.539 0/1:115:60,55:60:2156:55:1959:-141.935,0,-159.688 0/1:126:63,63:63:2256:63:2214:-161.582,0,-165.373 0/1:189:140,49:140:5006:49:1739:-99.8912,0,-393.792 0/1:25:8,17:8:284:17:608:-47.5263,0,-18.3776 0/1:8:5,3:5:180:3:104:-7.29457,0,-14.1438 0/1:37:20,17:20:716:17:612:-44.2753,0,-53.6296 0/0:200:200,0:200:7164:0:0:0,-60.206,-644.816 0/0:185:183,2:183:6576:2:63:0,-49.7074,-585.935 0/1:224:111,113:111:3953:113:3997:-292.486,0,-288.528 0/1:42:13,29:13:468:29:1040:-81.2702,0,-29.8164 0/1:44:17,27:17:608:27:964:-73.8306,0,-41.8067 0/1:142:71,70:71:2552:70:2450:-177.873,0,-187.164 0/1:110:72,38:72:2571:38:1353:-88.9519,0,-198.526 0/0:119:116,3:116:4164:3:108:0,-25.7474,-364.866 0/0:73:69,4:69:2484:4:132:0,-9.76869,-211.606 chr06 29000382 . 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T C 37103.4 PASS AB=0.485269;ABP=5.18554;AC=31;AF=0.738095;AN=42;AO=1770;CIGAR=1X;DP=2369;DPB=2369;DPRA=0;EPP=3829.16;EPPR=1288.54;GTI=0;LEN=1;MEANALT=1.14286;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.07701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62966;QR=21364;RO=596;RPL=2;RPP=3829.16;RPPR=1288.54;RPR=1768;RUN=1;SAF=1770;SAP=3846.52;SAR=0;SRF=596;SRP=1297.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102:0:0:102:3656:-329.244,-30.7051,0 1/1:60:1,59:1:36:59:2111:-186.66,-14.4635,0 0/1:113:61,52:61:2180:52:1839:-131.773,0,-162.45 1/1:114:0,114:0:0:114:4050:-364.689,-34.3174,0 1/1:178:1,177:1:36:177:6288:-562.419,-49.9851,0 0/1:151:88,63:88:3142:63:2240:-156.409,0,-237.549 0/1:204:107,97:107:3840:97:3447:-249.034,0,-284.385 0/1:109:55,54:55:1980:54:1916:-139.905,0,-145.662 0/1:255:137,118:137:4924:118:4202:-301.599,0,-366.546 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 0/1:21:10,11:10:360:11:396:-29.6611,0,-26.4227 1/1:132:0,132:0:0:132:4683:-421.633,-39.736,0 1/1:167:0,167:0:0:167:5947:-535.341,-50.272,0 1/1:241:0,240:0:0:240:8559:-769.951,-72.2472,0 1/1:79:0,78:0:0:78:2771:-249.272,-23.4803,0 0/1:102:44,57:44:1584:57:2044:-153.468,0,-112.088 0/1:103:54,49:54:1931:49:1725:-124.527,0,-143.06 0/1:84:31,53:31:1099:53:1875:-143.742,0,-73.9329 1/1:81:1,80:1:36:80:2848:-252.961,-20.7852,0 1/1:61:0,61:0:0:61:2157:-194.396,-18.3628,0 chr06 29507034 . A C 15512.8 PASS AB=0.562102;ABP=45.0843;AC=11;AF=0.261905;AN=42;AO=709;CIGAR=1X;DP=2481;DPB=2481;DPRA=1.14523;EPP=3.38089;EPPR=30.2316;GTI=0;LEN=1;MEANALT=1.07143;MQM=41.5487;MQMR=44.4274;NS=21;NUMALT=1;ODDS=23.0156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25086;QR=63304;RO=1771;RPL=11;RPP=1448.52;RPPR=3745.16;RPR=698;RUN=1;SAF=371;SAP=6.34561;SAR=338;SRF=823;SRP=22.1685;SRR=948;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:119:119,0:119:4238:0:0:0,-35.8226,-368.6 0/0:101:101,0:101:3616:0:0:0,-30.404,-302.721 0/1:115:48,67:48:1720:67:2365:-168.701,0,-113.589 0/0:123:123,0:123:4391:0:0:0,-37.0267,-376.493 0/0:234:233,1:233:8324:1:36:0,-66.8676,-719.961 0/1:125:45,80:45:1608:80:2848:-204.355,0,-100.966 0/1:211:82,129:82:2940:129:4578:-328.137,0,-179.217 0/1:142:72,70:72:2580:70:2445:-162.974,0,-175.607 0/1:262:114,148:114:4071:148:5221:-373.857,0,-274.621 0/1:14:5,9:5:180:9:324:-23.3213,0,-11.3564 0/1:10:4,6:4:144:6:216:-15.4534,0,-9.83917 0/1:30:8,22:8:288:22:782:-55.35,0,-13.9695 0/0:141:140,1:140:5002:1:36:0,-39.9783,-426.598 0/0:96:95,1:95:3388:1:36:0,-25.6527,-290.424 0/0:139:139,0:139:4980:0:0:0,-41.8432,-437.622 0/0:95:95,0:95:3395:0:0:0,-28.5978,-299.026 0/1:87:33,54:33:1184:54:1923:-141.21,0,-79.1521 0/1:130:53,77:53:1908:77:2700:-192.101,0,-124.148 0/1:130:85,44:85:3035:44:1576:-98.3469,0,-222.539 0/0:83:83,0:83:2956:0:0:0,-24.9855,-251.088 0/0:94:94,0:94:3356:0:0:0,-28.2968,-280.634 chr06 29507049 . C T 45281.1 PASS AB=0.439334;ABP=43.3212;AC=31;AF=0.738095;AN=42;AO=1782;CIGAR=1X;DP=2493;DPB=2493;DPRA=0;EPP=3872.57;EPPR=1542.58;GTI=0;LEN=1;MEANALT=1.09524;MQM=44.3547;MQMR=41.6446;NS=21;NUMALT=1;ODDS=23.2816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63719;QR=25175;RO=709;RPL=806;RPP=38.2267;RPPR=3.89543;RPR=976;RUN=1;SAF=806;SAP=38.2267;SAR=976;SRF=363;SRP=3.89543;SRR=346;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:120:0,119:0:0:119:4252:-368.519,-35.8226,0 1/1:106:0,106:0:0:106:3799:-318.14,-31.9092,0 0/1:113:66,47:66:2344:47:1692:-111.737,0,-167.541 1/1:122:0,122:0:0:122:4377:-374.453,-36.7257,0 1/1:235:1,234:1:36:234:8373:-723.111,-67.1686,0 0/1:127:81,46:81:2900:46:1656:-103.647,0,-208.351 0/1:213:128,84:128:4587:84:2997:-184.888,0,-328.255 0/1:142:69,73:69:2421:73:2587:-176.777,0,-162.1 0/1:262:148,114:148:5229:114:4088:-275.824,0,-374.088 0/1:14:9,5:9:311:5:180:-11.3564,0,-22.5628 0/1:10:6,4:6:216:4:144:-9.83917,0,-15.4534 0/1:29:22,7:22:777:7:248:-12.4077,0,-54.8523 1/1:139:1,138:1:36:138:4913:-419.663,-39.3763,0 1/1:95:1,94:1:32:94:3350:-287.743,-25.5742,0 1/1:143:0,143:0:0:143:5126:-450.575,-43.0473,0 1/1:98:0,98:0:0:98:3513:-308.883,-29.5009,0 0/1:87:55,32:55:1980:32:1152:-76.1948,0,-146.216 0/1:135:77,58:77:2711:58:2065:-136.901,0,-190.752 0/1:129:45,84:45:1595:84:2996:-219.528,0,-100.259 1/1:82:0,82:0:0:82:2929:-249.113,-24.6845,0 1/1:92:0,92:0:0:92:3282:-274.982,-27.6948,0 chr06 29507050 . TCTGCCTTG TCTGGCTTC,CCTGGCTTC 62688.8 PASS AB=0.430901,0.561335;ABP=56.4272,45.0978;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1792,726;CIGAR=4M1X3M1X,1X3M1X3M1X;DP=2542;DPB=2543.33;DPRA=0,1.14637;EPP=3894.29,1579.5;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.61905,2.92857;MQM=44.4263,41.4353;MQMR=0;NS=21;NUMALT=2;ODDS=20.4891;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34.5,34;PQR=34.5;PRO=1;QA=61304,25160;QR=0;RO=0;RPL=815,369;RPP=34.8117,3.44101;RPPR=0;RPR=977,357;RUN=1,1;SAF=815,369;SAP=34.8117,3.44101;SAR=977,357;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,120,0:0:0:120,0:4058,0:-353.386,-36.1236,0,-353.386,-36.1236,-353.386 1/1:106:0,106,0:0:0:106,0:3654,0:-307.175,-31.9092,0,-307.175,-31.9092,-307.175 1/2:116:0,46,66:0:0:46,66:1564,2308:-301.219,-179.521,-165.674,-121.728,0,-101.86 1/1:126:0,124,0:0:0:124,0:4243,0:-364.406,-37.3277,0,-364.406,-37.3277,-364.406 1/1:242:0,235,1:0:0:235,1:8095,36:-704.566,-70.7421,0,-701.651,-67.8143,-701.35 1/2:132:0,47,85:0:0:47,85:1604,2961:-350.924,-228.258,-214.109,-122.992,0,-97.4048 1/2:220:0,86,134:0:0:86,134:2953,4593:-575.639,-355.426,-329.537,-220.535,0,-180.197 1/2:142:0,73,69:0:0:73,69:2527,2381:-373.291,-180.705,-158.73,-192.911,0,-172.14 1/2:267:0,112,152:0:0:112,152:3853,5305:-716.443,-415.171,-381.456,-301.257,0,-255.501 1/2:13:0,5,8:0:0:5,8:178,283:-35.2184,-21.6199,-20.1148,-13.9316,0,-11.5234 1/2:10:0,4,6:0:0:4,6:136,215:-27.156,-16.5697,-15.3656,-10.9164,0,-9.11026 1/2:29:0,8,21:0:0:8,21:269,720:-73.0507,-53.2687,-50.8604,-20.0917,0,-13.7701 1/1:144:0,143,1:0:0:143,1:4848,36:-417.506,-43.0473,0,-415.587,-40.8814,-415.286 1/1:96:0,94,1:0:0:94,1:3202,36:-277.751,-28.2968,0,-275.131,-25.6852,-274.83 1/1:144:0,143,0:0:0:143,0:4883,0:-429.494,-43.0473,0,-429.494,-43.0473,-429.494 1/1:98:0,97,0:0:0:97,0:3280,0:-289.521,-29.1999,0,-289.521,-29.1999,-289.521 1/2:89:0,33,56:0:0:33,56:1144,1959:-245.478,-153.932,-143.998,-91.552,0,-74.6943 1/2:137:0,57,78:0:0:57,78:1917,2671:-355.074,-206.608,-189.449,-148.472,0,-124.992 1/2:133:0,84,48:0:0:84,48:2918,1656:-356.788,-129.152,-103.866,-227.663,0,-213.213 1/1:84:0,83,0:0:0:83,0:2871,0:-244.54,-24.9855,0,-244.54,-24.9855,-244.54 1/1:93:0,92,0:0:0:92,0:3107,0:-260.948,-27.6948,0,-260.948,-27.6948,-260.948 chr06 29583600 . T C 59993.4 PASS AB=0.451447;ABP=34.8506;AC=31;AF=0.738095;AN=42;AO=2820;CIGAR=1X;DP=3682;DPB=3682;DPRA=0;EPP=6117.88;EPPR=1853.15;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9199;MQMR=59.9616;NS=21;NUMALT=1;ODDS=20.6346;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=100558;QR=30510;RO=860;RPL=2819;RPP=6117.88;RPPR=1861.8;RPR=1;RUN=1;SAF=0;SAP=6126.56;SAR=2820;SRF=1;SRP=1861.8;SRR=859;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:196:2,194:2:72:194:6916:-615.615,-52.1652,0 1/1:109:1,108:1:36:108:3812:-339.663,-29.214,0 0/1:212:132,80:132:4705:80:2814:-189.68,0,-359.792 1/1:157:0,157:0:0:157:5604:-504.475,-47.2617,0 1/1:542:2,540:2:72:540:19233:-1723.59,-156.322,0 0/1:255:192,63:192:6809:63:2231:-124.256,0,-536.122 0/1:426:197,229:197:6989:229:8139:-604.083,0,-500.834 0/1:88:30,58:30:1076:58:2065:-159.629,0,-70.6622 0/1:236:109,125:109:3834:125:4472:-331.849,0,-274.445 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:9:7,2:7:248:2:72:-4.12745,0,-19.9549 0/1:45:34,11:34:1212:11:392:-22.0737,0,-95.84 1/1:113:0,113:0:0:113:4039:-363.697,-34.0164,0 1/1:228:0,228:0:0:228:8170:-735.308,-68.6348,0 1/1:461:1,460:1:36:460:16415:-1473.41,-135.177,0 1/1:85:0,85:0:0:85:3048:-274.549,-25.5876,0 0/1:132:82,50:82:2908:50:1782:-120.925,0,-222.218 0/1:70:39,31:39:1373:31:1099:-78.148,0,-102.794 0/1:73:22,51:22:780:51:1832:-143.186,0,-48.5478 1/1:180:2,178:2:72:178:6375:-566.873,-47.3487,0 1/1:56:1,55:1:36:55:1976:-174.516,-13.2594,0 chr06 29583602 . T G 15449 PASS AB=0.550186;ABP=38.3189;AC=11;AF=0.261905;AN=42;AO=896;CIGAR=1X;DP=3787;DPB=3787;DPRA=1.28788;EPP=1931.32;EPPR=6272.05;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.9375;MQMR=59.9169;NS=21;NUMALT=1;ODDS=21.9293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31848;QR=103394;RO=2887;RPL=895;RPP=1939.97;RPPR=6272.05;RPR=1;RUN=1;SAF=1;SAP=1939.97;SAR=895;SRF=0;SRP=6272.05;SRR=2887;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:202:201,1:201:7201:1:36:0,-57.2098,-644.482 0/0:115:114,1:114:4073:1:36:0,-31.0202,-363.135 0/1:220:79,141:79:2840:141:5019:-385.629,0,-189.609 0/0:158:158,0:158:5680:0:0:0,-47.5627,-511.31 0/0:554:552,2:552:19749:2:68:0,-160.313,-1770.38 0/1:269:66,202:66:2368:202:7181:-565.311,0,-132.306 0/1:440:234,206:234:8365:206:7352:-529.198,0,-619.443 0/1:90:58,32:58:2073:32:1131:-75.0051,0,-159.746 0/1:243:132,111:132:4744:111:3927:-280.469,0,-353.966 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/1:10:2,8:2:72:8:280:-22.529,0,-3.82642 0/1:46:13,33:13:464:33:1172:-91.9401,0,-28.2501 0/0:112:111,0:111:3980:0:0:0,-33.4143,-358.109 0/0:227:226,0:226:8086:0:0:0,-68.0328,-727.389 0/0:473:472,1:472:16903:1:36:0,-138.789,-1517.28 0/0:88:88,0:88:3145:0:0:0,-26.4906,-283.274 0/1:143:53,90:53:1891:90:3178:-243.196,0,-127.404 0/1:70:31,39:31:1116:39:1392:-104.507,0,-79.6796 0/1:74:55,19:55:1976:19:684:-39.6141,0,-155.838 0/0:183:181,2:181:6472:2:72:0,-48.2518,-575.6 0/0:61:59,1:59:2124:1:36:0,-14.8234,-187.83 chr06 29610224 . GCC TCA,GCA 17205.9 PASS AB=0.568306,0.423497;ABP=17.8428,21.6161;AC=32,10;AF=0.761905,0.238095;AN=42;AO=635,155;CIGAR=1X1M1X,2M1X;DP=793;DPB=793;DPRA=0,0.942857;EPP=1288.01,322.441;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=1.57143,2.2;MQM=59.6913,59.9548;MQMR=60;NS=21;NUMALT=2;ODDS=1.1143;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22281,5540;QR=28;RO=1;RPL=624,153;RPP=1288.01,322.441;RPPR=5.18177;RPR=11,2;RUN=1,1;SAF=0,0;SAP=1381.9,339.589;SAR=635,155;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:36:0,36,0:0:0:36,0:1246,0:-112.431,-10.8371,0,-112.431,-10.8371,-112.431 1/1:15:0,15,0:0:0:15,0:529,0:-47.9359,-4.51545,0,-47.9359,-4.51545,-47.9359 1/2:39:0,23,16:0:0:23,16:818,576:-114.019,-47.3585,-40.4348,-67.0184,0,-62.2019 1/1:57:0,57,0:0:0:57,0:2021,0:-182.126,-17.1587,0,-182.126,-17.1587,-182.126 1/1:62:0,62,0:0:0:62,0:2176,0:-196.055,-18.6639,0,-196.055,-18.6639,-196.055 1/2:33:0,13,20:0:0:13,20:449,708:-94.5021,-58.025,-54.1116,-36.8257,0,-30.8051 1/2:39:1,26,12:1:28:26,12:915,424:-106.566,-32.3854,-26.7717,-72.3357,0,-70.9394 1/2:23:0,13,10:0:0:13,10:448,356:-65.7535,-29.3709,-25.4576,-36.7335,0,-33.7232 1/2:102:0,67,33:0:0:67,33:2387,1188:-291.564,-97.0101,-76.8411,-194.627,0,-184.693 1/2:9:0,5,4:0:0:5,4:180,136:-26.068,-11.3698,-9.86468,-15.0469,0,-13.8428 1/1:6:0,6,0:0:0:6,0:211,0:-19.3324,-1.80618,0,-19.3324,-1.80618,-19.3324 1/2:20:0,5,15:0:0:5,15:180,536:-58.7425,-44.0594,-42.5542,-15.0422,0,-10.5268 1/1:46:0,46,0:0:0:46,0:1590,0:-143.374,-13.8474,0,-143.374,-13.8474,-143.374 1/1:54:0,54,0:0:0:54,0:1865,0:-168.107,-16.2556,0,-168.107,-16.2556,-168.107 1/1:79:0,79,0:0:0:79,0:2787,0:-251.051,-23.7814,0,-251.051,-23.7814,-251.051 1/1:17:0,17,0:0:0:17,0:589,0:-53.3343,-5.11751,0,-53.3343,-5.11751,-53.3343 1/2:15:0,12,3:0:0:12,3:422,108:-43.5163,-9.17208,-5.55972,-34.7024,0,-33.7993 1/2:49:0,23,26:0:0:23,26:812,932:-142.493,-76.3721,-69.4484,-66.4761,0,-58.6493 1/2:37:0,21,16:0:0:21,16:742,576:-107.783,-47.3585,-41.0369,-60.7816,0,-55.9652 1/1:35:0,35,0:0:0:35,0:1217,0:-109.83,-10.5361,0,-109.83,-10.5361,-109.83 1/1:20:0,20,0:0:0:20,0:697,0:-63.0439,-6.0206,0,-63.0439,-6.0206,-63.0439 chr06 29702491 . G T,C 94517.3 PASS AB=0.657159,0.341723;ABP=386.593,392.073;AC=29,13;AF=0.690476,0.309524;AN=42;AO=3035,614;CIGAR=1X,1X;DP=3652;DPB=3652;DPRA=0,1.0155;EPP=501.859,1336.29;EPPR=0;GTI=2;LEN=1,1;MEANALT=1.80952,2.13333;MQM=53.2633,59.9365;MQMR=0;NS=21;NUMALT=2;ODDS=9.10068;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=108683,21891;QR=0;RO=0;RPL=1100,0;RPP=501.859,1336.29;RPPR=0;RPR=1935,614;RUN=1,1;SAF=3035,614;SAP=6593.43,1336.29;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:383:0,380,2:0:0:380,2:13599,72:-1203.05,-114.391,0,-1197.18,-108.417,-1196.58 1/1:134:0,134,0:0:0:134,0:4812,0:-431.519,-40.338,0,-431.519,-40.338,-431.519 1/2:128:0,91,37:0:0:91,37:3261,1328:-370.18,-108.684,-81.2904,-261.853,0,-250.715 1/1:206:0,206,0:0:0:206,0:7368,0:-654.032,-62.0122,0,-654.032,-62.0122,-654.032 1/1:449:0,448,1:0:0:448,1:16001,36:-1420.77,-134.861,0,-1417.83,-131.564,-1417.53 1/2:118:0,68,50:0:0:68,50:2436,1776:-343.732,-145.067,-124.597,-199.022,0,-183.97 1/2:224:0,126,96:0:0:126,96:4493,3427:-645.625,-279.383,-241.453,-366.239,0,-337.34 1/2:170:0,128,42:0:0:128,42:4588,1495:-492.407,-122.201,-83.6687,-370.562,0,-357.918 1/2:328:0,223,105:0:0:223,105:8016,3739:-951.413,-305.099,-237.969,-646.669,0,-615.061 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/2:42:0,26,16:0:0:26,16:932,576:-122.273,-47.3585,-39.5317,-75.272,0,-70.4555 1/1:256:0,256,0:0:0:256,0:9168,0:-812.92,-77.0637,0,-812.92,-77.0637,-812.92 1/1:218:0,218,0:0:0:218,0:7813,0:-692.887,-65.6245,0,-692.887,-65.6245,-692.887 1/2:298:0,178,120:0:0:178,120:6387,4280:-864.603,-349.253,-295.67,-515.706,0,-479.582 1/2:128:0,79,49:0:0:79,49:2844,1748:-373.25,-142.854,-119.072,-230.754,0,-216.003 1/2:113:0,76,37:0:0:76,37:2711,1324:-326.794,-108.321,-85.4424,-218.829,0,-207.691 1/2:103:0,72,31:0:0:72,31:2567,1095:-293.552,-89.5238,-67.8497,-204.38,0,-195.048 1/2:124:0,100,24:0:0:100,24:3583,851:-355.93,-69.6847,-39.5817,-286.599,0,-279.375 1/1:175:0,175,0:0:0:175,0:6276,0:-558.174,-52.6803,0,-558.174,-52.6803,-558.174 1/1:43:0,43,0:0:0:43,0:1540,0:-138.884,-12.9443,0,-138.884,-12.9443,-138.884 chr06 29702565 . C T 9447.25 PASS AB=0.226007;ABP=3468.11;AC=19;AF=0.452381;AN=42;AO=1203;CIGAR=1X;DP=5368;DPB=5368;DPRA=0;EPP=2615.29;EPPR=9036.34;GTI=7;LEN=1;MEANALT=1.2381;MQM=59.1521;MQMR=55.2776;NS=21;NUMALT=1;ODDS=31.9206;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41329;QR=148525;RO=4160;RPL=0;RPP=2615.29;RPPR=9036.34;RPR=1203;RUN=1;SAF=0;SAP=2615.29;SAR=1203;SRF=0;SRP=9036.34;SRR=4160;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:307:238,69:238:8511:69:2290:-113.856,0,-670.596 0/1:238:187,51:187:6660:51:1676:-79.3954,0,-522.671 0/1:231:174,57:174:6243:57:1972:-107.509,0,-491.738 0/1:387:271,116:271:9688:116:4055:-248.494,0,-750.7 0/1:705:498,206:498:17752:206:7088:-424.497,0,-1377.21 0/1:226:191,35:191:6836:35:1180:-38.4597,0,-543.733 0/1:375:294,81:294:10500:81:2784:-137.569,0,-825.808 0/1:119:104,14:104:3740:14:483:-7.96864,0,-300.291 0/1:423:342,81:342:12207:81:2795:-124.414,0,-970.542 0/0:30:29,1:29:1032:1:36:0,-5.43262,-89.5054 0/0:24:23,1:23:815:1:36:0,-3.62644,-69.758 0/1:54:41,13:41:1461:13:434:-23.1218,0,-115.201 0/1:310:223,86:223:7963:86:2929:-170.017,0,-620.449 0/1:257:167,90:167:5940:90:3125:-203.87,0,-453.496 0/1:414:359,55:359:12819:55:1886:-45.3823,0,-1025.99 0/1:157:131,26:131:4699:26:848:-29.3532,0,-375.262 0/1:193:169,24:169:6031:24:830:-16.889,0,-483.936 0/1:311:269,42:269:9558:42:1496:-41.2917,0,-762.421 0/1:214:166,47:166:5933:47:1613:-80.9637,0,-467.196 0/1:245:178,66:178:6352:66:2281:-131.783,0,-496.219 0/1:148:106,42:106:3785:42:1492:-89.7636,0,-293.505 chr06 29702586 . G T 16081.8 PASS AB=0.265233;ABP=2674.31;AC=21;AF=0.5;AN=42;AO=1480;CIGAR=1X;DP=5580;DPB=5580;DPRA=0;EPP=3147.68;EPPR=8688.05;GTI=6;LEN=1;MEANALT=1.04762;MQM=59.9392;MQMR=54.8251;NS=21;NUMALT=1;ODDS=12.3437;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52694;QR=146444;RO=4099;RPL=1472;RPP=3147.68;RPPR=8688.05;RPR=8;RUN=1;SAF=0;SAP=3216.79;SAR=1480;SRF=0;SRP=8903.88;SRR=4099;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:317:191,126:191:6825:126:4457:-305.87,0,-515.657 0/1:247:178,69:178:6328:69:2457:-147.021,0,-488.79 0/1:236:188,48:188:6726:48:1694:-81.6991,0,-533.048 0/1:394:281,113:281:10028:113:4015:-242.93,0,-778.773 0/1:739:479,260:479:17134:260:9227:-607.933,0,-1310.03 0/1:230:183,47:183:6554:47:1677:-81.9783,0,-517.576 0/1:392:324,68:324:11540:68:2444:-102.211,0,-913.175 0/1:129:104,25:104:3709:25:896:-42.1275,0,-293.29 0/1:449:308,141:308:11030:141:5033:-317.951,0,-856.846 0/1:30:21,9:21:756:9:320:-20.1115,0,-59.2239 0/1:25:22,3:22:792:3:107:-2.45609,0,-63.7346 0/1:55:41,14:41:1472:14:500:-28.7795,0,-115.892 0/1:324:210,113:210:7501:113:4060:-267.995,0,-574.552 0/1:270:212,58:212:7579:58:2069:-105.187,0,-596.486 0/1:431:343,88:343:12242:88:3149:-153.877,0,-968.707 0/1:161:131,30:131:4667:30:1053:-46.6122,0,-371.111 0/1:196:148,48:148:5287:48:1674:-91.9373,0,-416.19 0/1:325:279,46:279:9982:46:1641:-50.1419,0,-795.258 0/1:227:182,45:182:6508:45:1597:-75.6839,0,-515.065 0/1:253:159,94:159:5674:94:3372:-227.527,0,-431.788 0/1:150:115,35:115:4110:35:1252:-67.8306,0,-321.712 chr06 29702587 . TTC GTT 12066.3 PASS AB=0.24488;ABP=3177.35;AC=19;AF=0.452381;AN=42;AO=1377;CIGAR=1X1M1X;DP=5671;DPB=5671.33;DPRA=0;EPP=2958.49;EPPR=9083.31;GTI=7;LEN=3;MEANALT=1.42857;MQM=59.0886;MQMR=55.2103;NS=21;NUMALT=1;ODDS=1.753;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=36;PRO=1;QA=47224;QR=149862;RO=4285;RPL=1373;RPP=2958.49;RPPR=9083.31;RPR=4;RUN=1;SAF=0;SAP=2993.13;SAR=1377;SRF=0;SRP=9307.77;SRR=4285;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:320:243,76:243:8546:76:2614:-139.037,0,-670.091 0/1:253:198,55:198:6864:55:1896:-94.6922,0,-536.449 0/1:239:178,61:178:6244:61:2086:-115.361,0,-489.528 0/1:403:274,129:274:9638:129:4442:-278.541,0,-742.158 0/1:755:516,239:516:18099:239:8167:-507.15,0,-1393.67 0/1:237:197,40:197:6816:40:1385:-53.5972,0,-539.55 0/1:397:303,93:303:10564:93:3192:-167.62,0,-824.713 0/1:130:111,19:111:3871:19:578:-13.1644,0,-308.451 0/1:457:355,102:355:12376:102:3519:-179.311,0,-975.68 0/0:31:30,1:30:1054:1:31:0,-6.23248,-91.9587 0/0:25:24,1:24:847:1:36:0,-3.92747,-72.6308 0/1:55:41,14:41:1456:14:489:-27.7837,0,-114.467 0/1:329:233,94:233:8179:94:3215:-190.608,0,-635.013 0/1:273:173,100:173:6004:100:3450:-228.29,0,-454.58 0/1:433:367,65:367:12861:65:2228:-70.356,0,-1024.45 0/1:162:131,30:131:4567:30:1038:-44.9749,0,-362.132 0/1:196:169,27:169:5893:27:921:-24.1869,0,-470.687 0/1:328:276,51:276:9612:51:1769:-60.6639,0,-762.291 0/1:230:174,55:174:6082:55:1924:-104.13,0,-476.471 0/1:264:186,78:186:6539:78:2658:-159.931,0,-507.003 0/1:154:106,47:106:3750:47:1586:-96.4393,0,-288.824 chr06 29709336 . CCCG GCCC 3956.48 PASS AB=0.240346;ABP=1155.48;AC=13;AF=0.309524;AN=42;AO=481;CIGAR=1X2M1X;DP=3478;DPB=3478.5;DPRA=0.867603;EPP=1047.49;EPPR=6474;GTI=4;LEN=4;MEANALT=1.625;MQM=58.4116;MQMR=59.9983;NS=21;NUMALT=1;ODDS=6.69501;PAIRED=0;PAIREDR=0;PAO=2;PQA=36;PQR=0;PRO=0;QA=17041;QR=104758;RO=2980;RPL=0;RPP=1047.49;RPPR=6474;RPR=481;RUN=1;SAF=481;SAP=1047.49;SAR=0;SRF=2980;SRP=6474;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:184:183,0:183:6432:0:0:0,-55.0885,-578.619 0/0:116:114,0:114:4004:0:0:0,-34.3174,-360.195 0/1:238:169,67:169:5959:67:2375:-142.581,0,-465.023 0/0:283:282,0:282:9931:0:0:0,-84.8905,-893.391 0/0:381:375,4:375:13150:4:131:0,-102.327,-1171.22 0/1:192:162,30:162:5689:30:1061:-37.7708,0,-454.339 0/1:295:226,69:226:7913:69:2463:-133.095,0,-623.41 0/1:152:122,27:122:4298:27:961:-41.6445,0,-341.857 0/1:269:211,57:211:7424:57:2004:-99.4251,0,-587.186 0/1:24:14,10:14:493:10:359:-25.4249,0,-37.4777 0/1:14:11,3:11:383:3:107:-5.76658,0,-30.5889 0/1:39:25,14:25:863:14:495:-33.1386,0,-66.2423 0/0:235:234,0:234:8199:0:0:0,-70.441,-737.582 0/0:103:103,0:103:3606:0:0:0,-31.0061,-324.75 0/1:196:139,54:139:4898:54:1908:-113.39,0,-382.52 0/1:130:110,20:110:3888:20:719:-25.5787,0,-310.984 0/1:194:155,39:155:5484:39:1367:-64.8047,0,-435.294 0/1:98:59,39:59:2082:39:1383:-95.0968,0,-158.148 0/1:127:83,44:83:2904:44:1564:-102.699,0,-223.365 0/0:154:151,3:151:5308:3:108:0,-36.2847,-467.788 0/0:54:52,1:52:1850:1:36:0,-12.8278,-163.294 chr06 29709364 . T C 11239.7 PASS AB=0.390193;ABP=203.779;AC=12;AF=0.285714;AN=42;AO=755;CIGAR=1X;DP=3396;DPB=3396;DPRA=1.02689;EPP=1633.8;EPPR=5735.7;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.7303;NS=21;NUMALT=1;ODDS=8.52368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26960;QR=94367;RO=2640;RPL=755;RPP=1642.47;RPPR=5735.7;RPR=0;RUN=1;SAF=754;SAP=1633.8;SAR=1;SRF=2640;SRP=5735.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:179:179,0:179:6387:0:0:0,-53.8844,-574.919 0/0:116:116,0:116:4144:0:0:0,-34.9195,-373.142 0/1:224:146,78:146:5226:78:2778:-182.83,0,-403.017 0/0:274:274,0:274:9760:0:0:0,-82.4822,-878.352 0/0:362:358,4:358:12778:4:144:0,-95.6592,-1136.53 0/1:188:86,102:86:3061:102:3664:-273.369,0,-218.917 0/1:295:162,133:162:5793:133:4744:-338.314,0,-432.652 0/1:152:81,71:81:2894:71:2548:-183.814,0,-214.928 0/1:261:174,87:174:6223:87:3093:-200.028,0,-481.425 0/1:23:14,9:14:504:9:313:-21.5814,0,-38.7708 0/0:13:12,1:12:432:1:36:0,-0.315115,-35.6221 0/1:39:28,11:28:1004:11:394:-24.0613,0,-78.9305 0/0:231:231,0:231:8263:0:0:0,-69.5379,-743.678 0/0:99:99,0:99:3544:0:0:0,-29.802,-319.169 0/1:196:122,73:122:4376:73:2604:-175.548,0,-334.826 0/1:128:66,62:66:2372:62:2228:-162.252,0,-174.881 0/1:191:125,66:125:4475:66:2368:-155.881,0,-345.303 0/1:95:66,29:66:2360:29:1021:-63.6024,0,-183.896 0/1:125:98,27:98:3504:27:953:-48.4546,0,-277.881 0/0:152:150,2:150:5371:2:72:0,-38.9198,-476.683 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.812 chr06 29709415 . GTCT GT 18999 PASS AB=0.490036;ABP=3.96229;AC=29;AF=0.690476;AN=42;AO=1249;CIGAR=1M2D1M;DP=1816;DPB=1190;DPRA=0;EPP=2689.18;EPPR=1216.88;GTI=0;LEN=2;MEANALT=1.14286;MQM=31.9199;MQMR=53.9751;NS=21;NUMALT=1;ODDS=11.0526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43884;QR=19762;RO=563;RPL=1249;RPP=2715.18;RPPR=1216.88;RPR=0;RUN=1;SAF=3;SAP=2689.18;SAR=1246;SRF=0;SRP=1225.55;SRR=563;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71:0:0:71:2481:-192.579,-21.3731,0 1/1:98:0,98:0:0:98:3449:-251.169,-29.5009,0 0/1:59:35,24:35:1200:24:848:-47.733,0,-90.1416 1/1:70:0,70:0:0:70:2445:-191.328,-21.0721,0 1/1:132:2,130:2:68:130:4547:-342.205,-33.3194,0 0/1:71:46,25:46:1620:25:880:-43.4688,0,-124.314 0/1:116:66,50:66:2337:50:1765:-94.1628,0,-174.085 0/1:85:37,48:37:1296:48:1691:-102.624,0,-90.7512 0/1:142:76,65:76:2684:65:2263:-140.765,0,-198.934 0/1:35:21,14:21:750:14:474:-26.465,0,-57.187 0/1:6:3,3:3:102:3:108:-6.32156,0,-7.69117 0/1:37:19,18:19:673:18:640:-37.4047,0,-49.4231 1/1:96:0,96:0:0:96:3383:-264.054,-28.8989,0 1/1:100:1,99:1:36:99:3425:-266.398,-26.9794,0 0/1:181:95,86:95:3346:86:2996:-177.804,0,-246.427 0/1:56:22,34:22:768:34:1196:-81.2125,0,-52.5492 0/1:68:32,35:32:1103:35:1248:-81.4542,0,-78.9823 0/1:150:69,79:69:2413:79:2816:-166.064,0,-172.131 0/1:98:38,60:38:1330:60:2140:-137.778,0,-89.9515 1/1:90:0,90:0:0:90:3165:-240.853,-27.0927,0 1/1:55:1,54:1:36:54:1924:-136.424,-12.9674,0 chr06 29781378 . G A 14645 PASS AB=0.497854;ABP=3.03826;AC=29;AF=0.690476;AN=42;AO=732;CIGAR=1X;DP=1086;DPB=1086;DPRA=0;EPP=1583.85;EPPR=771.712;GTI=0;LEN=1;MEANALT=1;MQM=59.9399;MQMR=59.9605;NS=21;NUMALT=1;ODDS=9.40051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26142;QR=12617;RO=354;RPL=1;RPP=1583.85;RPPR=771.712;RPR=731;RUN=1;SAF=732;SAP=1592.53;SAR=0;SRF=354;SRP=771.712;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54:0:0:54:1888:-170.195,-16.2556,0 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 0/1:40:19,21:19:676:21:756:-56.326,0,-49.1268 1/1:46:0,46:0:0:46:1636:-147.529,-13.8474,0 1/1:44:1,43:1:36:43:1536:-134.935,-9.64705,0 0/1:33:18,15:18:648:15:536:-38.6408,0,-48.7179 0/1:98:51,47:51:1804:47:1680:-121.986,0,-133.138 0/1:54:33,21:33:1188:21:752:-51.7506,0,-90.973 0/1:117:55,62:55:1976:62:2224:-165.204,0,-142.894 0/1:12:8,4:8:273:4:144:-9.70126,0,-21.2878 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:23:9,14:9:315:14:496:-38.0506,0,-21.7635 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 1/1:61:0,61:0:0:61:2184:-196.826,-18.3628,0 0/1:92:49,43:49:1737:43:1540:-111.198,0,-128.918 0/1:14:6,8:6:216:8:284:-21.6889,0,-15.5761 0/1:34:18,16:18:644:16:568:-41.2168,0,-48.0556 0/1:118:55,63:55:1972:63:2264:-168.501,0,-142.233 0/1:58:25,33:25:880:33:1179:-88.9575,0,-62.046 1/1:35:2,33:2:72:33:1169:-98.6332,-3.69933,0 1/1:51:0,51:0:0:51:1826:-164.619,-15.3525,0 chr06 29969236 . CC CT,GT 53998.3 PASS AB=0.515954,0.481331;ABP=6.26677,7.46971;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2092,716;CIGAR=1M1X,2X;DP=2814;DPB=2814.5;DPRA=0,0.922577;EPP=4545.73,1557.78;EPPR=9.52472;GTI=1;LEN=1,2;MEANALT=1.90476,2.1875;MQM=50.5846,27.595;MQMR=60;NS=21;NUMALT=2;ODDS=0.636471;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=74750,25372;QR=108;RO=3;RPL=0,0;RPP=4545.73,1557.78;RPPR=9.52472;RPR=2092,716;RUN=1,1;SAF=2092,716;SAP=4545.73,1557.78;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:194:0,194,0:0:0:194,0:6922,0:-617.834,-58.3998,0,-617.834,-58.3998,-617.834 1/1:141:0,140,1:0:0:140,1:4993,36:-446.763,-42.1442,0,-444.762,-39.8865,-444.461 1/2:124:0,62,61:0:0:62,61:2220,2173:-310.486,-130.634,-111.97,-179.894,0,-161.531 1/1:215:0,215,0:0:0:215,0:7687,0:-688.643,-64.7215,0,-688.643,-64.7215,-688.643 1/1:333:1,330,2:1:36:330,2:11813,72:-1053.45,-96.3836,0,-1049.43,-95.1138,-1051.77 1/2:150:0,82,68:0:0:82,68:2930,2416:-374.096,-136.62,-111.935,-237.777,0,-217.307 1/2:250:0,104,146:0:0:104,146:3720,5160:-591.651,-290.274,-258.967,-301.69,0,-257.74 1/2:109:0,61,48:0:0:61,48:2184,1665:-272.127,-95.2472,-76.8844,-177.178,0,-162.728 1/2:188:0,111,76:0:0:111,76:3964,2719:-495.773,-173.329,-139.914,-322.469,0,-299.591 1/2:19:0,12,7:0:0:12,7:432,250:-49.3461,-14.248,-10.6356,-35.3914,0,-33.2841 1/2:4:0,3,1:0:0:3,1:104,36:-10.7493,-2.25768,-1.35459,-8.76991,0,-8.46888 1/2:33:0,16,17:0:0:16,17:576,599:-80.6242,-33.8517,-29.0353,-47.0795,0,-41.962 1/1:129:0,129,0:0:0:129,0:4599,0:-411.726,-38.8329,0,-411.726,-38.8329,-411.726 1/1:138:0,138,0:0:0:138,0:4909,0:-439.833,-41.5421,0,-439.833,-41.5421,-439.833 1/2:205:0,97,108:0:0:97,108:3488,3825:-513.565,-230.535,-201.335,-283.346,0,-250.835 1/2:144:0,91,53:0:0:91,53:3241,1880:-384.407,-120.853,-93.4593,-263.866,0,-247.911 1/2:169:1,91,76:1:36:91,76:3249,2686:-431.322,-168.03,-143.575,-260.646,0,-240.706 1/2:37:0,13,24:0:0:13,24:468,862:-86.358,-48.3602,-44.4468,-38.3199,0,-31.0952 1/2:41:0,17,24:0:0:17,24:612,851:-101.46,-51.748,-46.6305,-50.0347,0,-42.81 1/1:155:1,150,4:1:36:150,4:5347,142:-474.115,-42.1962,0,-466.432,-37.2511,-468.165 1/1:36:0,36,0:0:0:36,0:1292,0:-115.878,-10.8371,0,-115.878,-10.8371,-115.878 chr06 29969266 . C T 6140.86 PASS AB=0.474359;ABP=11.4735;AC=13;AF=0.309524;AN=42;AO=710;CIGAR=1X;DP=2812;DPB=2812;DPRA=0.932188;EPP=1527.43;EPPR=4554.42;GTI=1;LEN=1;MEANALT=1.0625;MQM=27.6085;MQMR=50.5738;NS=21;NUMALT=1;ODDS=0.00429364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25420;QR=74944;RO=2100;RPL=708;RPP=1527.43;RPPR=4554.42;RPR=2;RUN=1;SAF=710;SAP=1544.76;SAR=0;SRF=2100;SRP=4563.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:193:193,0:193:6876:0:0:0,-58.0988,-614.577 0/0:142:141,1:141:5034:1:36:0,-40.1876,-447.692 0/1:122:61,61:61:2179:61:2188:-113.138,0,-158.432 0/0:213:212,0:212:7551:0:0:0,-63.8184,-676.321 0/0:328:326,2:326:11655:2:63:0,-93.8143,-1036.44 0/1:153:86,67:86:3058:67:2382:-108.425,0,-227.208 0/1:252:105,147:105:3760:147:5256:-262.228,0,-260.538 0/1:113:65,48:65:2323:48:1724:-77.8078,0,-173.954 0/1:187:111,76:111:3949:76:2732:-140.771,0,-298.536 0/1:19:12,7:12:432:7:252:-10.6562,0,-33.2841 0/1:4:3,1:3:104:1:36:-1.35459,0,-8.47529 0/1:32:16,15:16:572:15:540:-24.957,0,-41.949 0/0:131:131,0:131:4696:0:0:0,-39.4349,-419.842 0/0:136:136,0:136:4836:0:0:0,-40.9401,-433.065 0/1:204:97,107:97:3460:107:3820:-200.396,0,-248.673 0/1:147:93,54:93:3340:54:1936:-96.2897,0,-255.889 0/1:175:99,76:99:3538:76:2727:-143.052,0,-264.234 0/1:36:13,23:13:468:23:828:-42.4653,0,-31.3963 0/1:38:17,21:17:590:21:756:-40.5487,0,-41.7549 0/0:154:150,4:150:5367:4:144:0,-36.8914,-469.752 0/0:33:33,0:33:1156:0:0:0,-9.93399,-103.969 chr06 29969280 . T G 5793.99 PASS AB=0.472664;ABP=12.389;AC=13;AF=0.309524;AN=42;AO=690;CIGAR=1X;DP=2759;DPB=2759;DPRA=0.920959;EPP=1501.33;EPPR=4491.44;GTI=2;LEN=1;MEANALT=1;MQM=27.587;MQMR=50.582;NS=21;NUMALT=1;ODDS=1.83974;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24553;QR=72553;RO=2067;RPL=690;RPP=1501.33;RPPR=4491.44;RPR=0;RUN=1;SAF=690;SAP=1501.33;SAR=0;SRF=2067;SRP=4491.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:191:191,0:191:6759:0:0:0,-57.4967,-603.318 0/0:138:137,1:137:4776:1:36:0,-38.9834,-424.988 0/1:121:61,60:61:2102:60:2121:-110.213,0,-151.885 0/0:211:211,0:211:7391:0:0:0,-63.5173,-662.264 0/0:327:325,2:325:11389:2:68:0,-93.3155,-1013.51 0/1:149:85,64:85:3008:64:2269:-102.269,0,-224.2 0/1:244:102,142:102:3533:142:5072:-253.094,0,-243.115 0/1:110:63,47:63:2201:47:1679:-75.5256,0,-164.043 0/1:183:111,72:111:3891:72:2572:-131.291,0,-294.622 0/1:19:12,7:12:428:7:237:-10.1284,0,-32.9323 0/1:4:3,1:3:104:1:36:-1.35459,0,-8.46888 0/1:30:15,15:15:536:15:536:-25.4632,0,-39.293 0/0:128:128,0:128:4528:0:0:0,-38.5318,-405.339 0/0:135:133,0:133:4671:0:0:0,-40.037,-418.244 0/1:196:95,101:95:3338:101:3580:-187.534,0,-240.3 0/1:144:91,53:91:3264:53:1896:-94.5299,0,-249.974 0/1:169:96,73:96:3396:73:2612:-137.085,0,-253.487 0/1:35:11,24:11:379:24:843:-44.726,0,-23.746 0/1:41:17,24:17:596:24:852:-46.8122,0,-41.3879 0/0:150:146,4:146:5104:4:144:0,-35.6873,-446.488 0/0:34:34,0:34:1159:0:0:0,-10.235,-104.152 chr06 29969281 . CATTC TATTT,CATTT 52775.5 PASS AB=0.527532,0.470428;ABP=12.6956,14.1836;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2109,699;CIGAR=1X3M1X,4M1X;DP=2814;DPB=2814.4;DPRA=0,0.919118;EPP=4582.65,1520.87;EPPR=0;GTI=2;LEN=5,1;MEANALT=2.04762,2.25;MQM=50.4865,27.5908;MQMR=0;NS=21;NUMALT=2;ODDS=1.18202;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=73738,24748;QR=0;RO=0;RPL=2109,699;RPP=4582.65,1520.87;RPPR=0;RPR=0,0;RUN=1,1;SAF=2109,699;SAP=4582.65,1520.87;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:196:0,196,0:0:0:196,0:6861,0:-612.922,-59.0019,0,-612.922,-59.0019,-612.922 1/1:141:0,140,1:0:0:140,1:4880,36:-436.714,-42.1442,0,-434.713,-39.8865,-434.412 1/2:120:0,61,59:0:0:61,59:2112,2086:-297.127,-126.435,-108.072,-170.999,0,-153.238 1/1:217:0,216,0:0:0:216,0:7551,0:-676.598,-65.0225,0,-676.598,-65.0225,-676.598 1/1:337:0,334,2:0:0:334,2:11663,72:-1042.91,-100.544,0,-1038.59,-96.2771,-1037.98 1/2:152:0,86,66:0:0:86,66:3017,2314:-374.954,-131.34,-105.451,-243.909,0,-224.041 1/2:245:0,105,140:0:0:105,140:3652,4948:-573.9,-278.722,-247.114,-295.484,0,-253.34 1/2:112:0,65,47:0:0:65,47:2294,1658:-279.717,-94.1374,-74.5704,-185.875,0,-171.726 1/2:188:0,113,75:0:0:113,75:3964,2651:-492.035,-170.014,-135.997,-322.332,0,-299.755 1/2:19:0,12,7:0:0:12,7:430,252:-49.1941,-14.2685,-10.6562,-35.2184,0,-33.1112 1/2:4:0,2,1:0:0:2,1:72,36:-7.86746,-1.97981,-1.37775,-5.88639,0,-5.58536 1/2:32:0,16,15:0:0:16,15:569,536:-76.1706,-30.0027,-25.1863,-46.2363,0,-41.7208 1/1:129:0,128,0:0:0:128,0:4518,0:-404.539,-38.5318,0,-404.539,-38.5318,-404.539 1/1:137:0,137,0:0:0:137,0:4776,0:-428.154,-41.2411,0,-428.154,-41.2411,-428.154 1/2:203:0,95,107:0:0:95,107:3307,3789:-495.98,-228.396,-199.798,-267.535,0,-235.325 1/2:145:0,92,53:0:0:92,53:3228,1876:-383.173,-121.013,-93.3178,-262.47,0,-246.515 1/2:174:0,99,75:0:0:99,75:3489,2675:-452.512,-170.025,-140.223,-282.8,0,-260.223 1/2:37:0,13,24:0:0:13,24:454,851:-84.9181,-48.1382,-44.2248,-37.0949,0,-29.8702 1/2:40:0,17,23:0:0:17,23:576,824:-96.4939,-49.9156,-44.7981,-46.8887,0,-39.965 1/1:151:0,147,4:0:0:147,4:5122,144:-457.509,-44.2514,0,-449.505,-36.3274,-448.3 1/1:35:0,35,0:0:0:35,0:1203,0:-108.184,-10.5361,0,-108.184,-10.5361,-108.184 chr06 30390439 . T G 9803.19 PASS AB=0.472073;ABP=11.864;AC=13;AF=0.309524;AN=42;AO=620;CIGAR=1X;DP=2159;DPB=2159;DPRA=1.02087;EPP=1349.32;EPPR=3344.91;GTI=0;LEN=1;MEANALT=1;MQM=59.7581;MQMR=59.9571;NS=21;NUMALT=1;ODDS=6.02872;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21777;QR=54691;RO=1539;RPL=620;RPP=1349.32;RPPR=3344.91;RPR=0;RUN=1;SAF=620;SAP=1349.32;SAR=0;SRF=1539;SRP=3344.91;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:173:173,0:173:6117:0:0:0,-52.0782,-550.633 0/0:87:87,0:87:3088:0:0:0,-26.1896,-278.147 0/1:156:84,72:84:2994:72:2542:-182.012,0,-222.731 0/0:116:115,1:115:4076:1:27:0,-32.2197,-362.613 0/0:136:135,1:135:4815:1:36:0,-37.3418,-429.906 0/1:76:28,48:28:995:48:1700:-130.385,0,-66.9857 0/1:176:109,67:109:3866:67:2304:-153.264,0,-295.153 0/1:97:46,51:46:1648:51:1784:-131.641,0,-119.409 0/1:185:74,111:74:2660:111:3936:-298.742,0,-183.955 0/1:22:13,9:13:468:9:308:-21.4269,0,-35.837 0/1:8:5,3:5:176:3:108:-7.66693,0,-13.7768 0/1:30:22,8:22:792:8:266:-15.2327,0,-62.5748 0/0:85:85,0:85:3002:0:0:0,-25.5875,-270.181 0/0:110:110,0:110:3861:0:0:0,-33.1133,-347.686 0/1:202:123,79:123:4398:79:2776:-189.263,0,-335.184 0/1:101:48,53:48:1720:53:1877:-138.803,0,-124.681 0/1:86:37,49:37:1305:49:1734:-130.455,0,-91.8608 0/1:109:59,50:59:2091:50:1739:-123.978,0,-155.647 0/1:59:42,17:42:1488:17:604:-36.9298,0,-116.454 0/0:94:93,1:93:3316:1:36:0,-24.6985,-295.061 0/0:51:51,0:51:1815:0:0:0,-15.3525,-163.631 chr06 30556636 . 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T C 14493.3 PASS AB=0.442836;ABP=22.6227;AC=31;AF=0.738095;AN=42;AO=972;CIGAR=1X;DP=1365;DPB=1365;DPRA=0;EPP=2113.68;EPPR=856.399;GTI=0;LEN=1;MEANALT=1;MQM=30.6965;MQMR=59.7863;NS=21;NUMALT=1;ODDS=7.5638;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34552;QR=14014;RO=393;RPL=972;RPP=2113.68;RPPR=856.399;RPR=0;RUN=1;SAF=972;SAP=2113.68;SAR=0;SRF=393;SRP=856.399;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:44,41:44:1580:41:1454:-82.7667,0,-116.904 0/1:50:31,19:31:1112:19:680:-36.9784,0,-85.3398 0/1:95:57,38:57:2031:38:1364:-72.7277,0,-153.762 0/1:110:69,41:69:2458:41:1451:-74.4269,0,-188.36 1/1:108:4,104:4:144:104:3648:-260.231,-19.2117,0 1/1:58:2,56:2:72:56:1977:-144.817,-10.623,0 0/1:80:43,37:43:1531:37:1311:-77.0392,0,-113.997 0/1:81:44,37:44:1559:37:1320:-75.0527,0,-116.201 1/1:124:0,124:0:0:124:4421:-317.522,-37.3277,0 1/1:22:0,22:0:0:22:779:-58.3383,-6.62266,0 0/1:10:2,8:2:72:8:288:-19.1493,0,-3.82642 0/1:41:16,25:16:568:25:896:-54.0457,0,-39.1096 1/1:83:0,83:0:0:83:2936:-220.964,-24.9855,0 1/1:85:0,85:0:0:85:3044:-226.511,-25.5876,0 1/1:85:0,85:0:0:85:3048:-223.898,-25.5876,0 1/1:20:0,20:0:0:20:703:-52.0168,-6.0206,0 0/1:57:44,13:44:1580:13:468:-15.3413,0,-125.313 0/1:45:25,20:25:883:20:720:-40.4053,0,-66.2407 0/1:37:10,27:10:356:27:968:-61.4555,0,-21.2431 1/1:60:2,58:2:68:58:2052:-147.076,-11.6041,0 1/1:29:0,29:0:0:29:1024:-78.5751,-8.72987,0 chr06 30658630 . T A 5951.62 PASS AB=0.534776;ABP=9.80664;AC=11;AF=0.261905;AN=42;AO=347;CIGAR=1X;DP=1343;DPB=1343;DPRA=0.895833;EPP=747.85;EPPR=2144.12;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.996;NS=21;NUMALT=1;ODDS=3.34851;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12399;QR=35557;RO=994;RPL=346;RPP=747.85;RPPR=2144.12;RPR=1;RUN=1;SAF=0;SAP=756.511;SAR=347;SRF=0;SRP=2161.45;SRR=994;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:42,50:42:1508:50:1784:-133.148,0,-108.32 0/1:44:15,29:15:536:29:1044:-81.0295,0,-35.3295 0/1:78:36,42:36:1296:42:1499:-111.723,0,-93.4636 0/1:85:33,51:33:1188:51:1813:-137.804,0,-81.5822 0/0:106:105,0:105:3730:0:0:0,-31.6081,-335.54 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 0/1:94:42,52:42:1500:52:1855:-138.931,0,-106.998 0/1:82:35,47:35:1252:47:1680:-126.803,0,-88.3006 0/0:70:70,0:70:2508:0:0:0,-21.0721,-225.972 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/1:21:13,8:13:468:8:284:-19.5817,0,-36.138 0/0:128:128,0:128:4554:0:0:0,-38.5318,-410.025 0/0:84:83,1:83:2968:1:36:0,-21.6882,-263.755 0/0:78:78,0:78:2792:0:0:0,-23.4803,-251.52 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/1:38:12,26:12:432:26:928:-72.3991,0,-27.7821 0/1:51:30,21:30:1076:21:756:-53.0147,0,-81.8003 0/1:52:34,18:34:1220:18:648:-42.9983,0,-94.4532 0/0:90:90,0:90:3213:0:0:0,-27.0927,-289.391 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 chr06 30658731 . GTCTT ATCTT,ATCTC 62312 PASS AB=0.513008,0.481301;ABP=4.81809,6.74594;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2272,599;CIGAR=1X4M,1X3M1X;DP=2889;DPB=2889;DPRA=0,0.736729;EPP=4936.6,1303.72;EPPR=0;GTI=2;LEN=1,5;MEANALT=2.47619,2.64286;MQM=59.8961,59.2487;MQMR=0;NS=21;NUMALT=2;ODDS=2.35811;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=81381,21221;QR=0;RO=0;RPL=0,0;RPP=4936.6,1303.72;RPPR=0;RPR=2272,599;RUN=1,1;SAF=0,0;SAP=4936.6,1303.72;SAR=2272,599;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:220:0,130,89:0:0:130,89:4653,3143:-634.413,-254.999,-215.865,-379.498,0,-352.706 1/2:95:0,47,48:0:0:47,48:1692,1698:-276.649,-138.587,-124.439,-138.418,0,-123.969 1/2:109:0,50,58:0:0:50,58:1783,2084:-315.428,-170.084,-155.033,-145.429,0,-127.969 1/2:139:0,61,77:0:0:61,77:2188,2724:-400.141,-221.675,-203.312,-178.551,0,-155.371 1/1:310:0,307,0:0:0:307,0:11012,0:-990.611,-92.4162,0,-990.611,-92.4162,-990.611 1/1:130:0,128,0:0:0:128,0:4585,0:-412.466,-38.5318,0,-412.466,-38.5318,-412.466 1/2:203:0,94,109:0:0:94,109:3380,3847:-589.183,-313.422,-285.125,-276.118,0,-243.305 1/2:149:0,80,69:0:0:80,69:2840,2440:-430.384,-198.984,-174.902,-231.754,0,-210.983 1/1:227:0,224,3:0:0:224,3:8018,106:-721.282,-67.4307,0,-712.649,-58.4447,-711.746 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:23:0,19,4:0:0:19,4:684,144:-67.9204,-12.1095,-6.38993,-56.1708,0,-54.9666 1/1:146:0,146,0:0:0:146,0:5220,0:-469.392,-43.9504,0,-469.392,-43.9504,-469.392 1/1:187:0,184,1:0:0:184,1:6557,36:-589.88,-55.3895,0,-586.943,-52.4388,-586.642 1/1:377:0,374,0:0:0:374,0:13416,0:-1206.72,-112.585,0,-1206.72,-112.585,-1206.72 1/1:154:0,153,0:0:0:153,0:5500,0:-494.727,-46.0576,0,-494.727,-46.0576,-494.727 1/2:162:0,83,77:0:0:83,77:2978,2724:-464.713,-221.843,-196.858,-242.867,0,-219.688 1/2:59:0,30,27:0:0:30,27:1080,958:-166.139,-78.0141,-68.9832,-88.124,0,-79.9962 1/2:66:0,34,32:0:0:34,32:1216,1144:-192.778,-93.6234,-83.3884,-99.5115,0,-89.8786 1/1:77:0,74,3:0:0:74,3:2660,101:-239.308,-22.2762,0,-231.125,-13.7558,-230.222 1/1:45:0,45,0:0:0:45,0:1595,0:-143.839,-13.5464,0,-143.839,-13.5464,-143.839 chr06 30735442 . A C 30989.1 PASS AB=0.497194;ABP=3.07123;AC=31;AF=0.738095;AN=42;AO=1465;CIGAR=1X;DP=1919;DPB=1919;DPRA=0;EPP=3132.32;EPPR=926.826;GTI=0;LEN=1;MEANALT=1.04762;MQM=56.3843;MQMR=60;NS=21;NUMALT=1;ODDS=1.11731;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52260;QR=16233;RO=453;RPL=6;RPP=3132.32;RPPR=926.826;RPR=1459;RUN=1;SAF=1465;SAP=3184.22;SAR=0;SRF=453;SRP=986.687;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:80,76:80:2856:76:2720:-197.618,0,-210.318 0/1:94:58,36:58:2076:36:1296:-88.0256,0,-158.814 0/1:126:53,73:53:1904:73:2605:-196.134,0,-133.708 0/1:76:40,36:40:1440:36:1256:-90.4262,0,-107.019 1/1:250:1,249:1:36:249:8884:-795.041,-71.6592,0 1/1:77:0,77:0:0:77:2735:-245.174,-23.1793,0 0/1:95:42,53:42:1508:53:1887:-141.205,0,-107.417 0/1:52:34,18:34:1224:18:639:-41.9573,0,-94.8135 1/1:122:1,121:1:36:121:4329:-385.483,-33.1274,0 1/1:31:0,30:0:0:30:1076:-96.6699,-9.0309,0 0/1:6:2,4:2:72:4:144:-11.4821,0,-5.03054 0/1:28:16,12:16:572:12:428:-30.3916,0,-43.3846 1/1:113:1,112:1:36:112:4004:-356.328,-30.4181,0 1/1:129:0,129:0:0:129:4598:-413.359,-38.8329,0 1/1:143:0,143:0:0:143:5103:-458.747,-43.0473,0 1/1:45:0,45:0:0:45:1584:-142.737,-13.5464,0 0/1:104:58,46:58:2069:46:1642:-116.673,0,-155.172 0/1:67:40,27:40:1436:27:972:-67.3928,0,-109.369 0/1:87:25,62:25:896:62:2224:-173.665,0,-54.7707 1/1:46:0,46:0:0:46:1636:-147.266,-13.8474,0 1/1:72:2,70:2:72:70:2498:-217.115,-14.8374,0 chr06 30735461 . CTC CTTT 30296.6 PASS AB=0.447628;ABP=27.1197;AC=31;AF=0.738095;AN=42;AO=1485;CIGAR=1M1I1M1X;DP=2049;DPB=2565;DPRA=0;EPP=3227.65;EPPR=1214.69;GTI=0;LEN=4;MEANALT=1.28571;MQM=56.3623;MQMR=59.9713;NS=21;NUMALT=1;ODDS=11.3288;PAIRED=0;PAIREDR=0;PAO=60;PQA=1006;PQR=0;PRO=0;QA=52276;QR=19725;RO=558;RPL=1485;RPP=3227.65;RPPR=437.134;RPR=0;RUN=1;SAF=1485;SAP=3227.65;SAR=0;SRF=446;SRP=437.134;SRR=112;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:79,77:79:2771:77:2667:-192.988,0,-202.51 0/1:95:58,37:58:2060:37:1291:-87.2913,0,-157.072 0/1:129:52,76:52:1857:76:2666:-200.632,0,-128.518 0/1:75:38,36:38:1362:36:1276:-92.5305,0,-100.385 1/1:252:1,251:1:36:251:8881:-795.063,-72.608,0 1/1:79:0,79:0:0:79:2751:-246.864,-23.7814,0 0/1:96:42,54:42:1474:54:1901:-141.796,0,-103.694 0/1:53:33,19:33:1181:19:672:-44.4813,0,-90.5851 1/1:121:1,120:1:36:120:4221:-376.426,-32.8264,0 1/1:33:0,33:0:0:33:1159:-104.491,-9.93399,0 0/1:6:2,4:2:72:4:144:-11.4821,0,-5.03054 0/1:29:17,12:17:590:12:419:-29.2785,0,-44.694 1/1:114:0,114:0:0:114:4024:-361.499,-34.3174,0 1/1:132:0,132:0:0:132:4672:-419.973,-39.736,0 1/1:145:0,143:0:0:143:5056:-454.481,-43.0473,0 1/1:44:0,43:0:0:43:1514:-136.169,-12.9443,0 0/1:217:170,47:170:5987:47:1661:-84.3318,0,-473.613 0/1:67:40,27:40:1403:27:959:-66.2414,0,-106.397 0/1:89:25,64:25:896:64:2256:-175.76,0,-53.9758 1/1:47:0,47:0:0:47:1625:-145.829,-14.1484,0 1/1:70:0,70:0:0:70:2461:-220.779,-21.0721,0 chr06 30784943 . GT AT,AG 102721 PASS AB=0.485434,0.512726;ABP=9.01997,7.59763;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3209,1683;CIGAR=1X1M,2X;DP=4899;DPB=4899;DPRA=0,2.48623;EPP=6910.6,3657.6;EPPR=5.18177;GTI=1;LEN=1,2;MEANALT=1.90476,2.38462;MQM=59.9707,59.4005;MQMR=60;NS=21;NUMALT=2;ODDS=9.26849;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=114892,59642;QR=36;RO=1;RPL=7,0;RPP=6910.6,3657.6;RPPR=5.18177;RPR=3202,1683;RUN=1,1;SAF=3209,1683;SAP=6971.27,3657.6;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:141:0,71,70:0:0:71,70:2544,2468:-408.772,-201.29,-179.917,-207.838,0,-186.765 1/2:105:0,48,57:0:0:48,57:1719,1996:-302.869,-162.678,-148.229,-140.545,0,-123.387 1/2:125:0,54,71:0:0:54,71:1932,2512:-362.502,-204.957,-188.701,-157.901,0,-136.528 1/2:143:1,67,75:1:36:67,75:2408,2673:-411.05,-214.902,-197.67,-193.51,0,-173.87 1/1:268:0,268,0:0:0:268,0:9563,0:-860.622,-80.676,0,-860.622,-80.676,-860.622 1/1:66:0,66,0:0:0:66,0:2352,0:-211.931,-19.868,0,-211.931,-19.868,-211.931 1/2:186:0,88,98:0:0:88,98:3164,3463:-540.5,-282.363,-255.873,-258.493,0,-228.992 1/2:104:0,49,54:0:0:49,54:1756,1936:-300.831,-157.616,-142.866,-143.213,0,-126.958 1/1:201:0,201,0:0:0:201,0:7206,0:-648.591,-60.507,0,-648.591,-60.507,-648.591 1/1:510:0,500,10:0:0:500,10:17908,337:-1610.98,-150.515,0,-1583.82,-123.015,-1580.81 1/2:749:0,317,431:0:0:317,431:11366,15274:-2170.84,-1243.82,-1148.39,-927.174,0,-797.43 1/2:866:0,418,446:0:0:418,446:15017,15762:-2508.21,-1283.34,-1157.51,-1224.94,0,-1090.68 1/1:112:0,112,0:0:0:112,0:4001,0:-360.278,-33.7154,0,-360.278,-33.7154,-360.278 1/1:132:0,132,0:0:0:132,0:4708,0:-423.88,-39.736,0,-423.88,-39.736,-423.88 1/1:89:0,88,0:0:0:88,0:3133,0:-281.944,-26.4906,0,-281.944,-26.4906,-281.944 1/1:63:0,63,0:0:0:63,0:2256,0:-203.303,-18.9649,0,-203.303,-18.9649,-203.303 1/2:86:0,33,53:0:0:33,53:1176,1872:-248.657,-152.798,-142.864,-96.2138,0,-80.2592 1/2:680:0,383,296:0:0:383,296:13686,10557:-1975.21,-859.36,-744.066,-1115.84,0,-1026.74 1/2:76:0,55,21:0:0:55,21:1972,756:-222.882,-62.0432,-45.4866,-161.198,0,-154.877 1/1:156:0,155,1:0:0:155,1:5562,36:-500.342,-46.6597,0,-497.405,-43.3624,-497.104 1/1:41:0,41,0:0:0:41,0:1463,0:-131.965,-12.3422,0,-131.965,-12.3422,-131.965 chr06 30784976 . C G 27717.5 PASS AB=0.510903;ABP=6.32501;AC=11;AF=0.261905;AN=42;AO=1651;CIGAR=1X;DP=4846;DPB=4846;DPRA=2.46854;EPP=3588.11;EPPR=6936.52;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.5118;MQMR=59.9662;NS=21;NUMALT=1;ODDS=7.70191;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58885;QR=113470;RO=3193;RPL=1651;RPP=3588.11;RPPR=6936.52;RPR=0;RUN=1;SAF=1651;SAP=3588.11;SAR=0;SRF=3193;SRP=6936.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:69,72:69:2462:72:2580:-189.996,0,-179.388 0/1:105:47,58:47:1667:58:2072:-154.897,0,-118.708 0/1:122:55,67:55:1942:67:2381:-177.816,0,-138.329 0/1:141:67,74:67:2377:74:2664:-197.518,0,-171.741 0/0:270:270,0:270:9596:0:0:0,-81.2781,-863.585 0/0:64:64,0:64:2260:0:0:0,-19.2659,-203.658 0/1:184:89,95:89:3145:95:3385:-249.459,0,-227.885 0/1:104:49,55:49:1721:55:1963:-145.349,0,-123.866 0/0:199:199,0:199:7095:0:0:0,-59.905,-638.61 0/0:514:504,10:504:17903:10:344:0,-123.769,-1579.9 0/1:734:313,419:313:11148:419:14957:-1124.71,0,-782.495 0/1:855:416,439:416:14852:439:15649:-1150.52,0,-1078.84 0/0:115:115,0:115:4055:0:0:0,-34.6184,-365.138 0/0:130:130,0:130:4639:0:0:0,-39.1339,-417.673 0/0:87:87,0:87:3080:0:0:0,-26.1896,-277.428 0/0:62:62,0:62:2224:0:0:0,-18.6639,-200.424 0/1:85:33,52:33:1170:52:1868:-142.809,0,-80.0183 0/1:665:376,289:376:13309:289:10270:-723.711,0,-997.07 0/1:74:54,20:54:1920:20:716:-42.4891,0,-150.801 0/0:155:154,1:154:5477:1:36:0,-43.0614,-489.462 0/0:40:40,0:40:1428:0:0:0,-12.0412,-128.818 chr06 30786787 . 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TTT GGT,GGC 36840.5 PASS AB=0.682243,0.31215;ABP=157.347,166.991;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1146,173;CIGAR=2X1M,3X;DP=1326;DPB=1326;DPRA=0,0.906404;EPP=740.811,6.63779;EPPR=5.18177;GTI=2;LEN=2,3;MEANALT=2,2.13333;MQM=50.6736,39.5954;MQMR=60;NS=21;NUMALT=2;ODDS=3.98871;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39765,6037;QR=36;RO=1;RPL=339,94;RPP=418.023,5.83447;RPPR=5.18177;RPR=807,79;RUN=1,1;SAF=600,172;SAP=8.53562,370.039;SAR=546,1;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:57:0,37,20:0:0:37,20:1292,708:-159.975,-55.824,-44.6859,-104.495,0,-98.4741 1/2:40:0,30,10:0:0:30,10:1050,360:-112.789,-27.8169,-18.786,-85.3137,0,-82.3034 1/2:30:0,24,6:0:0:24,6:837,216:-85.2883,-17.4587,-10.2339,-68.1793,0,-66.3731 1/2:36:0,21,14:0:0:21,14:724,480:-96.5033,-37.8904,-31.5688,-58.5932,0,-54.3788 1/1:125:0,124,1:0:0:124,1:4283,36:-383.304,-37.3277,0,-380.452,-34.1261,-380.151 1/1:64:0,63,0:0:0:63,0:2228,0:-199.182,-18.9649,0,-199.182,-18.9649,-199.182 1/2:74:0,50,24:0:0:50,24:1721,862:-204.538,-65.4164,-50.3649,-139.459,0,-132.234 1/2:31:0,17,14:0:0:17,14:601,493:-87.4604,-38.8163,-33.6988,-48.9886,0,-44.7742 1/1:102:0,101,1:0:0:101,1:3519,36:-314.251,-30.404,0,-311.471,-27.2815,-311.169 1/1:14:0,14,0:0:0:14,0:495,0:-44.7432,-4.21442,0,-44.7432,-4.21442,-44.7432 1/2:6:0,5,1:0:0:5,1:180,36:-16.9899,-2.25768,-0.752526,-15.0053,0,-14.7043 1/2:13:0,5,8:0:0:5,8:180,263:-35.2442,-20.6895,-19.1843,-14.8959,0,-12.4876 1/1:96:0,94,2:0:0:94,2:3294,72:-294.504,-28.2968,0,-288.904,-22.3531,-288.302 1/1:86:0,84,0:0:0:84,0:2935,0:-262.268,-25.2865,0,-262.268,-25.2865,-262.268 1/1:93:0,93,0:0:0:93,0:3194,0:-286.152,-27.9958,0,-286.152,-27.9958,-286.152 1/1:37:0,37,0:0:0:37,0:1291,0:-116.032,-11.1381,0,-116.032,-11.1381,-116.032 1/2:17:0,13,4:0:0:13,4:446,129:-46.6175,-10.5432,-6.62986,-36.3974,0,-35.1933 1/2:110:0,68,42:0:0:68,42:2333,1433:-299.661,-111.43,-90.9603,-188.563,0,-175.92 1/2:121:1,95,24:1:36:95,24:3306,841:-329.37,-62.3644,-36.7049,-264.349,0,-260.062 1/1:62:0,60,2:0:0:60,2:2056,72:-183.587,-18.0618,0,-177.971,-12.1003,-177.369 1/1:112:0,111,0:0:0:111,0:3800,0:-339.603,-33.4143,0,-339.603,-33.4143,-339.603 chr06 30986099 . T C 57747.5 PASS AB=0.517214;ABP=6.29979;AC=31;AF=0.738095;AN=42;AO=2186;CIGAR=1X;DP=2811;DPB=2811;DPRA=0;EPP=4749.85;EPPR=1358.01;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9332;MQMR=60;NS=21;NUMALT=1;ODDS=30.8669;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76739;QR=22185;RO=624;RPL=862;RPP=215.036;RPPR=18.1688;RPR=1324;RUN=1;SAF=862;SAP=215.036;SAR=1324;SRF=279;SRP=18.1688;SRR=345;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:66,50:66:2364:50:1771:-124.75,0,-178.099 0/1:131:81,50:81:2893:50:1745:-117.897,0,-221.17 0/1:82:40,42:40:1381:42:1491:-109.799,0,-99.8976 0/1:181:95,86:95:3382:86:3013:-216.915,0,-250.109 1/1:391:3,387:3:108:387:13582:-1211.94,-107.686,0 1/1:105:0,105:0:0:105:3721:-335.093,-31.6082,0 0/1:147:78,69:78:2760:69:2445:-176.053,0,-204.39 0/1:81:47,34:47:1688:34:1185:-82.569,0,-127.824 1/1:145:0,145:0:0:145:5146:-463.286,-43.6494,0 1/1:26:0,26:0:0:26:905:-81.7628,-7.82678,0 0/1:13:11,2:11:392:2:72:-2.92333,0,-31.7067 0/1:38:21,17:21:756:17:604:-43.2515,0,-56.9281 1/1:220:0,220:0:0:220:7801:-701.897,-66.2266,0 1/1:82:1,81:1:36:81:2802:-248.821,-21.0862,0 1/1:170:0,170:0:0:170:5965:-536.951,-51.1751,0 1/1:95:1,94:1:36:94:3320:-295.42,-24.9996,0 0/1:78:33,45:33:1180:45:1580:-119.007,0,-83.0277 0/1:203:82,121:82:2898:121:4175:-314.826,0,-199.948 0/1:208:63,145:63:2239:145:5053:-392.312,0,-139.159 1/1:178:1,177:1:36:177:6258:-559.718,-49.9851,0 1/1:121:1,120:1:36:120:4105:-366.043,-32.8264,0 chr06 31072734 . A T 32200.2 PASS AB=0.53038;ABP=9.3433;AC=31;AF=0.738095;AN=42;AO=1513;CIGAR=1X;DP=1890;DPB=1890;DPRA=0;EPP=3288.45;EPPR=819.484;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9775;MQMR=60;NS=21;NUMALT=1;ODDS=12.3864;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53968;QR=13402;RO=376;RPL=1513;RPP=3288.45;RPPR=819.484;RPR=0;RUN=1;SAF=1513;SAP=3288.45;SAR=0;SRF=376;SRP=819.484;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:33,42:33:1180:42:1491:-111.907,0,-83.9308 0/1:29:17,12:17:604:12:432:-30.4913,0,-45.9607 0/1:81:34,46:34:1212:46:1644:-123.806,0,-84.9442 0/1:37:19,18:19:684:18:642:-46.9716,0,-50.7522 1/1:165:4,161:4:144:161:5757:-504.931,-36.3563,0 1/1:65:0,65:0:0:65:2328:-209.777,-19.567,0 0/1:125:56,69:56:2008:69:2425:-180.871,0,-143.365 0/1:92:51,41:51:1832:41:1467:-104.631,0,-137.466 1/1:180:1,179:1:36:179:6377:-570.42,-50.5871,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 0/1:13:2,11:2:72:11:396:-32.0694,0,-2.92333 0/1:32:19,13:19:672:13:449:-31.1012,0,-51.1739 1/1:315:0,315:0:0:315:11245:-1011.93,-94.8245,0 1/1:63:0,63:0:0:63:2260:-203.663,-18.9649,0 1/1:128:0,128:0:0:128:4566:-411.103,-38.5318,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 0/1:37:21,16:21:729:16:576:-41.0369,0,-54.7906 0/1:180:93,87:93:3315:87:3100:-225.04,0,-244.383 0/1:89:25,64:25:878:64:2291:-179.659,0,-52.5442 1/1:84:1,83:1:36:83:2930:-260.334,-21.6882,0 1/1:47:0,47:0:0:47:1692:-152.567,-14.1484,0 chr06 31072794 . T C 5576.21 PASS AB=0.501506;ABP=3.02338;AC=11;AF=0.261905;AN=42;AO=345;CIGAR=1X;DP=1483;DPB=1483;DPRA=1.09798;EPP=726.337;EPPR=2430.91;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9631;NS=21;NUMALT=1;ODDS=5.07558;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12209;QR=40452;RO=1138;RPL=3;RPP=726.337;RPPR=2439.52;RPR=342;RUN=1;SAF=0;SAP=752.168;SAR=345;SRF=1;SRP=2465.47;SRR=1137;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:19,29:19:656:29:1023:-77.9323,0,-44.9127 0/1:48:22,26:22:788:26:936:-70.11,0,-56.7954 0/1:66:36,30:36:1269:30:1063:-76.1128,0,-94.6428 0/1:105:48,57:48:1691:57:2005:-149.114,0,-120.867 0/0:136:132,4:132:4691:4:144:0,-27.6265,-409.026 0/0:75:75,0:75:2675:0:0:0,-22.5772,-240.987 0/1:125:54,71:54:1920:71:2502:-187.803,0,-135.448 0/1:69:37,32:37:1324:32:1136:-81.7778,0,-98.691 0/0:117:117,0:117:4161:0:0:0,-35.2205,-374.674 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:5:4,1:4:144:1:32:-1.69416,0,-11.8085 0/1:16:6,10:6:207:10:356:-27.5648,0,-14.1504 0/0:99:96,3:96:3424:3:108:0,-19.7268,-298.3 0/0:112:112,0:112:3974:0:0:0,-33.7154,-357.746 0/0:97:95,2:95:3367:2:72:0,-22.3632,-296.412 0/0:30:30,0:30:1068:0:0:0,-9.0309,-96.4321 0/1:24:11,13:11:392:13:450:-33.6035,0,-28.3953 0/1:74:41,33:41:1468:33:1171:-83.4205,0,-110.14 0/1:84:53,31:53:1887:31:1103:-74.2933,0,-144.821 0/0:91:88,3:88:3134:3:108:0,-17.3186,-272.211 0/0:57:57,0:57:2032:0:0:0,-17.1587,-183.153 chr06 31091051 . A G 23572.1 PASS AB=0.465753;ABP=10.4468;AC=31;AF=0.738095;AN=42;AO=1130;CIGAR=1X;DP=1529;DPB=1529;DPRA=0;EPP=2456.77;EPPR=860.764;GTI=0;LEN=1;MEANALT=1;MQM=59.6823;MQMR=59.9373;NS=21;NUMALT=1;ODDS=9.84991;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40367;QR=14268;RO=399;RPL=0;RPP=2456.77;RPPR=860.764;RPR=1130;RUN=1;SAF=1130;SAP=2456.77;SAR=0;SRF=399;SRP=869.428;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:81,48:81:2882:48:1724:-116.613,0,-220.781 0/1:34:17,17:17:597:17:585:-42.7287,0,-43.8211 0/1:61:30,31:30:1080:31:1097:-80.6519,0,-79.1504 0/1:127:65,62:65:2332:62:2201:-160.123,0,-171.909 1/1:151:6,145:6:216:145:5189:-447.29,-25.665,0 1/1:88:2,86:2:72:86:3073:-269.92,-19.6539,0 0/1:166:87,79:87:3101:79:2806:-202.803,0,-229.268 0/1:63:39,24:39:1400:24:860:-58.7569,0,-107.334 1/1:149:0,149:0:0:149:5310:-478.012,-44.8535,0 1/1:6:0,6:0:0:6:205:-18.7833,-1.80618,0 0/1:12:10,2:10:360:2:72:-3.22436,0,-29.1319 0/1:28:8,20:8:288:20:716:-56.3389,0,-17.8386 1/1:61:0,61:0:0:61:2196:-197.903,-18.3628,0 1/1:72:0,72:0:0:72:2588:-233.05,-21.6742,0 1/1:120:0,120:0:0:120:4288:-386.017,-36.1236,0 1/1:50:1,49:1:36:49:1737:-152.956,-11.4532,0 0/1:61:31,30:31:1116:30:1080:-79.1437,0,-82.3889 0/1:25:14,11:14:500:11:396:-28.457,0,-37.8104 0/1:24:8,16:8:288:16:576:-44.9479,0,-19.0427 1/1:63:0,63:0:0:63:2264:-204.009,-18.9649,0 1/1:39:0,39:0:0:39:1404:-126.647,-11.7402,0 chr06 31091065 . ATAG GTAA,GTAG 32456.5 PASS AB=0.476126,0.519782;ABP=6.6393,5.50172;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1147,390;CIGAR=1X2M1X,1X3M;DP=1542;DPB=1542.25;DPRA=0,0.997087;EPP=2493.69,849.885;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.90476,2.28571;MQM=59.6696,59.9128;MQMR=0;NS=21;NUMALT=2;ODDS=11.1904;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=40411,13935;QR=0;RO=0;RPL=1147,390;RPP=2493.69,849.885;RPPR=0;RPR=0,0;RUN=1,1;SAF=1147,390;SAP=2493.69,849.885;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:128:0,49,79:0:0:49,79:1741,2813:-371.494,-229.627,-214.876,-142.223,0,-118.442 1/2:33:0,17,16:0:0:17,16:586,576:-94.9435,-47.3585,-42.241,-47.9374,0,-43.121 1/2:62:0,32,30:0:0:32,30:1122,1072:-179.044,-87.7616,-78.1286,-91.636,0,-82.6051 1/2:127:0,64,63:0:0:64,63:2239,2243:-365.26,-183.107,-163.841,-182.447,0,-163.482 1/1:154:0,147,7:0:0:147,7:5190,252:-466.805,-44.2514,0,-446.243,-23.3297,-444.135 1/1:88:0,87,1:0:0:87,1:3007,36:-270.463,-26.1896,0,-267.526,-22.8924,-267.225 1/2:169:0,81,88:0:0:81,88:2852,3143:-488.774,-256.595,-232.212,-232.533,0,-206.042 1/2:64:0,25,38:0:0:25,38:891,1366:-184.176,-111.549,-104.023,-72.7292,0,-61.2901 1/1:150:0,150,0:0:0:150,0:5309,0:-477.924,-45.1545,0,-477.924,-45.1545,-477.924 1/1:6:0,6,0:0:0:6,0:213,0:-19.5128,-1.80618,0,-19.5128,-1.80618,-19.5128 1/2:11:0,2,9:0:0:2,9:72,314:-31.7644,-25.8876,-25.2855,-6.23466,0,-3.52539 1/2:28:0,20,7:0:0:20,7:713,252:-78.6793,-20.5619,-14.5413,-58.1165,0,-56.0093 1/1:61:0,61,0:0:0:61,0:2165,0:-195.115,-18.3628,0,-195.115,-18.3628,-195.115 1/1:73:0,73,0:0:0:73,0:2576,0:-231.978,-21.9752,0,-231.978,-21.9752,-231.978 1/1:121:0,120,0:0:0:120,0:4228,0:-380.322,-36.1236,0,-380.322,-36.1236,-380.322 1/1:52:0,50,1:0:0:50,1:1739,36:-156.407,-15.0515,0,-153.47,-12.0792,-153.169 1/2:61:0,31,30:0:0:31,30:1110,1076:-178.637,-88.122,-78.79,-90.8731,0,-81.8422 1/2:24:0,11,13:0:0:11,13:390,468:-70.3165,-38.5463,-35.2349,-32.1271,0,-28.2137 1/2:26:0,17,8:0:0:17,8:594,288:-71.8125,-23.4996,-18.3821,-48.3101,0,-45.9018 1/1:64:0,64,0:0:0:64,0:2265,0:-204.099,-19.2659,0,-204.099,-19.2659,-204.099 1/1:40:0,40,0:0:0:40,0:1409,0:-127.043,-12.0412,0,-127.043,-12.0412,-127.043 chr06 31265422 . G A 3484.64 PASS AB=0.415617;ABP=27.5638;AC=12;AF=0.285714;AN=42;AO=169;CIGAR=1X;DP=791;DPB=791;DPRA=0.934732;EPP=4.05106;EPPR=28.2742;GTI=1;LEN=1;MEANALT=1;MQM=59.9822;MQMR=60;NS=21;NUMALT=1;ODDS=9.63891;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5997;QR=21842;RO=621;RPL=0;RPP=369.989;RPPR=1351.49;RPR=169;RUN=1;SAF=89;SAP=4.05106;SAR=80;SRF=353;SRP=28.2742;SRR=268;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:23:17,6:17:576:6:206:-11.9514,0,-45.2343 0/1:12:4,8:4:140:8:288:-22.655,0,-9.33222 0/1:11:4,7:4:140:7:248:-19.3529,0,-9.63325 0/1:25:15,10:15:536:10:360:-25.2186,0,-41.0491 0/0:71:71,0:71:2522:0:0:0,-21.3731,-227.231 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/1:17:11,6:11:396:6:216:-14.673,0,-30.8652 0/1:52:24,28:24:837:28:996:-74.3013,0,-59.9921 0/0:33:33,0:33:1155:0:0:0,-9.93399,-104.256 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/0:45:45,0:45:1582:0:0:0,-13.5463,-142.669 0/0:33:33,0:33:1154:0:0:0,-9.93399,-104.165 0/0:56:55,0:55:1902:0:0:0,-16.5566,-171.092 0/0:21:21,0:21:739:0:0:0,-6.32163,-66.8324 0/1:21:10,11:10:344:11:392:-29.2984,0,-24.9704 0/1:145:81,64:81:2842:64:2273:-161.182,0,-212.369 0/1:85:63,22:63:2215:22:774:-44.3927,0,-174.025 0/0:30:30,0:30:1060:0:0:0,-9.0309,-95.7113 0/0:61:61,0:61:2158:0:0:0,-18.3628,-194.484 chr06 31283063 . CCTGT CCTGCTGT 25724.7 PASS AB=0.564748;ABP=23.2565;AC=31;AF=0.738095;AN=42;AO=984;CIGAR=1M3I4M;DP=1234;DPB=1826.2;DPRA=0;EPP=43.8269;EPPR=12.6623;GTI=1;LEN=3;MEANALT=1.2381;MQM=59.9533;MQMR=60;NS=21;NUMALT=1;ODDS=0.88531;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34248;QR=8630;RO=245;RPL=0;RPP=2139.74;RPPR=535.021;RPR=984;RUN=1;SAF=560;SAP=43.8269;SAR=424;SRF=139;SRP=12.6623;SRR=106;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:20,28:20:706:28:996:-75.5054,0,-49.4158 0/1:53:23,30:23:811:30:1047:-78.5846,0,-57.3555 0/1:29:20,9:20:718:9:305:-19.0473,0,-56.2185 0/1:55:29,26:29:1006:26:898:-64.3477,0,-74.2924 1/1:77:0,77:0:0:77:2701:-243.335,-23.1793,0 1/1:83:0,82:0:0:82:2852:-256.561,-24.6845,0 0/1:87:36,51:36:1274:51:1757:-132.219,0,-88.7737 0/1:27:15,12:15:534:12:406:-28.7363,0,-40.2661 1/1:101:0,101:0:0:101:3520:-317.006,-30.404,0 1/1:14:1,13:1:36:13:447:-36.9594,-0.616145,0 0/1:6:3,3:3:102:3:104:-7.89663,0,-7.71042 0/1:17:3,14:3:107:14:496:-39.8567,0,-4.86466 1/1:59:0,59:0:0:59:2059:-185.579,-17.7608,0 1/1:61:1,60:1:36:60:2075:-183.42,-14.7646,0 1/1:75:0,75:0:0:75:2638:-237.668,-22.5773,0 1/1:46:0,46:0:0:46:1605:-144.737,-13.8474,0 0/1:27:14,13:14:497:13:439:-31.7056,0,-36.937 0/1:119:47,71:47:1658:71:2453:-185.143,0,-113.627 0/1:88:30,57:30:1042:57:1971:-151.153,0,-67.5777 1/1:55:3,51:3:103:51:1807:-153.297,-7.00149,0 1/1:107:0,106:0:0:106:3672:-330.387,-31.9092,0 chr06 31286203 . C A 7683.46 PASS AB=0.478307;ABP=6.87299;AC=11;AF=0.261905;AN=42;AO=454;CIGAR=1X;DP=1893;DPB=1893;DPRA=1.00032;EPP=945.908;EPPR=2918.44;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9163;MQMR=59.9325;NS=21;NUMALT=1;ODDS=3.0372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16239;QR=50990;RO=1437;RPL=5;RPP=945.908;RPPR=2918.44;RPR=449;RUN=1;SAF=454;SAP=988.859;SAR=0;SRF=1437;SRP=3123.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:47,71:47:1692:71:2545:-193.778,0,-117.043 0/1:81:45,36:45:1600:36:1286:-91.6598,0,-119.907 0/1:122:61,61:61:2160:61:2188:-160.46,0,-157.942 0/1:115:54,61:54:1897:61:2177:-161.564,0,-136.388 0/0:175:175,0:175:6217:0:0:0,-52.6802,-559.607 0/0:152:151,1:151:5360:1:36:0,-42.1583,-478.937 0/1:167:90,75:90:3184:75:2676:-191.074,0,-236.774 0/1:69:38,31:38:1347:31:1095:-78.088,0,-100.758 0/0:107:107,0:107:3819:0:0:0,-32.2102,-343.896 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/1:26:17,9:17:599:9:324:-21.6791,0,-46.3975 0/0:74:74,0:74:2631:0:0:0,-22.2762,-236.808 0/0:115:115,0:115:4073:0:0:0,-34.6184,-366.756 0/0:103:103,0:103:3646:0:0:0,-31.0061,-328.345 0/0:73:73,0:73:2589:0:0:0,-21.9752,-233.258 0/1:68:31,37:31:1112:37:1324:-98.9637,0,-79.9213 0/1:105:54,51:54:1893:51:1832:-133.542,0,-139.038 0/1:69:51,18:51:1800:18:648:-37.8808,0,-141.508 0/0:75:74,1:74:2651:1:36:0,-18.979,-235.237 0/0:66:66,0:66:2332:0:0:0,-19.868,-210.13 chr06 31286227 . C T 28644.5 PASS AB=0.526316;ABP=8.49612;AC=31;AF=0.738095;AN=42;AO=1388;CIGAR=1X;DP=1822;DPB=1822;DPRA=0;EPP=2991.01;EPPR=943.258;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9424;MQMR=59.9492;NS=21;NUMALT=1;ODDS=3.35146;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48795;QR=14735;RO=433;RPL=1385;RPP=2991.01;RPPR=943.258;RPR=3;RUN=1;SAF=1388;SAP=3017.01;SAR=0;SRF=433;SRP=943.258;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:71,46:71:2428:46:1637:-112.396,0,-183.55 0/1:78:35,43:35:1216:43:1485:-110.458,0,-86.2601 0/1:119:60,59:60:2063:59:2090:-152.546,0,-150.114 0/1:115:59,56:59:2025:56:1948:-140.885,0,-147.873 1/1:165:0,165:0:0:165:5854:-526.817,-49.67,0 1/1:147:1,146:1:21:146:5108:-457.765,-42.1515,0 0/1:156:67,89:67:2269:89:3126:-234.604,0,-157.509 0/1:64:27,37:27:924:37:1277:-95.9606,0,-64.2027 1/1:103:0,103:0:0:103:3666:-330.144,-31.0061,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:24:8,16:8:275:16:545:-42.1317,0,-17.8588 1/1:73:0,73:0:0:73:2566:-231.186,-21.9752,0 1/1:108:0,107:0:0:107:3804:-342.245,-32.2102,0 1/1:99:0,99:0:0:99:3448:-310.53,-29.802,0 1/1:72:0,72:0:0:72:2535:-228.4,-21.6742,0 0/1:68:36,32:36:1225:32:1094:-78.2897,0,-90.076 0/1:101:49,52:49:1618:52:1814:-133.134,0,-115.483 0/1:66:18,48:18:599:48:1720:-135.218,0,-34.3547 1/1:71:0,71:0:0:71:2470:-222.551,-21.3731,0 1/1:64:0,64:0:0:64:2252:-202.942,-19.2659,0 chr06 31286245 . 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G A 37097.7 PASS AB=0.511771;ABP=5.15743;AC=31;AF=0.738095;AN=42;AO=1847;CIGAR=1X;DP=2724;DPB=2724;DPRA=0;EPP=4013.72;EPPR=1907.39;GTI=0;LEN=1;MEANALT=1;MQM=59.9762;MQMR=59.9909;NS=21;NUMALT=1;ODDS=4.8255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66161;QR=31411;RO=877;RPL=1847;RPP=4013.72;RPPR=1907.39;RPR=0;RUN=1;SAF=0;SAP=4013.72;SAR=1847;SRF=0;SRP=1907.39;SRR=877;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:39,44:39:1396:44:1580:-117.506,0,-100.954 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/1:75:42,33:42:1508:33:1184:-84.2911,0,-113.437 0/1:37:14,23:14:504:23:824:-63.3452,0,-34.56 1/1:67:0,67:0:0:67:2392:-215.522,-20.169,0 1/1:53:1,52:1:36:52:1853:-163.45,-12.3563,0 0/1:80:38,42:38:1364:42:1504:-111.572,0,-98.9783 0/1:52:25,27:25:892:27:968:-71.7838,0,-64.9461 1/1:127:0,127:0:0:127:4526:-407.508,-38.2308,0 1/1:365:3,362:3:108:362:13002:-1159.89,-99.8008,0 0/1:358:184,174:184:6600:174:6226:-452.667,0,-486.306 0/1:401:168,233:168:6019:233:8353:-631.059,0,-421.1 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 1/1:69:0,69:0:0:69:2472:-222.734,-20.7711,0 1/1:99:1,98:1:36:98:3520:-313.41,-26.2037,0 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 0/1:31:14,17:14:496:17:608:-45.7201,0,-35.6423 0/1:603:318,285:318:11380:285:10202:-736.582,0,-842.559 0/1:44:19,25:19:676:25:900:-68.0757,0,-47.9227 1/1:38:0,38:0:0:38:1364:-123.061,-11.4391,0 1/1:34:1,33:1:36:33:1167:-101.738,-6.63675,0 chr06 31310841 . 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T C 18117.2 PASS AB=0.64252;ABP=115.041;AC=14;AF=0.333333;AN=42;AO=919;CIGAR=1X;DP=1671;DPB=1671;DPRA=1.55404;EPP=1989.92;EPPR=1635.96;GTI=4;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.89541;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32447;QR=26926;RO=752;RPL=1;RPP=1989.92;RPPR=1635.96;RPR=918;RUN=1;SAF=919;SAP=1998.59;SAR=0;SRF=752;SRP=1635.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:26,40:26:936:40:1389:-105.435,0,-64.6915 0/1:46:22,24:22:792:24:851:-63.0621,0,-57.7583 0/1:29:13,16:13:464:16:572:-43.0836,0,-33.3676 0/1:71:46,25:46:1652:25:892:-59.2266,0,-127.595 0/0:85:85,0:85:3043:0:0:0,-25.5875,-274.099 0/0:64:64,0:64:2284:0:0:0,-19.2659,-205.822 0/1:77:38,39:38:1360:39:1375:-100.869,0,-99.5213 0/1:48:17,31:17:608:31:1081:-83.1478,0,-40.6026 0/0:106:106,0:106:3791:0:0:0,-31.9092,-341.388 0/1:16:13,3:13:468:3:108:-5.25869,0,-37.6432 1/1:287:9,278:9:324:278:9867:-858.476,-56.8898,0 1/1:237:5,232:5:176:232:8165:-718.695,-55.1591,0 0/0:41:41,0:41:1463:0:0:0,-12.3422,-131.965 0/0:63:63,0:63:2255:0:0:0,-18.9649,-203.212 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:36:8,28:8:288:28:992:-78.7573,0,-15.4303 0/1:217:23,194:23:819:194:6839:-550.269,0,-8.70806 0/1:29:21,8:21:743:8:280:-16.8089,0,-58.4635 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.638 0/0:38:37,1:37:1332:1:36:0,-7.84086,-116.584 chr06 31520191 . 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A G 23159.1 PASS AB=0.380247;ABP=103.906;AC=31;AF=0.738095;AN=42;AO=1092;CIGAR=1X;DP=1601;DPB=1601;DPRA=0;EPP=2271.17;EPPR=1071.65;GTI=1;LEN=1;MEANALT=1.04762;MQM=60;MQMR=59.9843;NS=21;NUMALT=1;ODDS=1.83453;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39130;QR=18193;RO=508;RPL=1080;RPP=2271.17;RPPR=1071.65;RPR=12;RUN=1;SAF=0;SAP=2374.26;SAR=1092;SRF=0;SRP=1106.12;SRR=508;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:92,44:92:3289:44:1580:-101.551,0,-255.288 0/1:66:47,19:47:1684:19:684:-42.0223,0,-131.979 0/1:109:69,40:69:2480:40:1436:-96.7254,0,-190.641 0/1:77:49,28:49:1756:28:995:-66.6847,0,-135.145 1/1:111:0,111:0:0:111:3992:-359.468,-33.4143,0 1/1:56:0,56:0:0:56:1999:-180.183,-16.8577,0 0/1:99:56,43:56:1993:43:1548:-109.811,0,-149.84 0/1:147:83,64:83:2984:64:2296:-162.65,0,-224.532 1/1:119:0,119:0:0:119:4268:-384.297,-35.8226,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:28:7,21:7:248:21:756:-59.9384,0,-14.2354 1/1:62:0,62:0:0:62:2220:-200.064,-18.6639,0 1/1:81:0,81:0:0:81:2900:-261.236,-24.3834,0 1/1:112:0,112:0:0:112:4017:-361.717,-33.7154,0 1/1:53:0,53:0:0:53:1891:-170.468,-15.9546,0 0/1:92:72,20:72:2571:20:716:-37.073,0,-203.945 0/1:22:12,10:12:432:10:360:-26.1216,0,-32.5985 0/1:30:14,16:14:504:16:572:-42.7825,0,-36.6672 1/1:169:6,162:6:216:162:5800:-502.338,-31.0482,0 1/1:23:0,23:0:0:23:816:-73.7617,-6.92369,0 chr06 31548971 . A C 6287.42 PASS AB=0.541056;ABP=12.9953;AC=11;AF=0.261905;AN=42;AO=372;CIGAR=1X;DP=1493;DPB=1493;DPRA=0.893268;EPP=810.798;EPPR=2426.38;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.975;NS=21;NUMALT=1;ODDS=14.815;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13252;QR=39959;RO=1120;RPL=0;RPP=810.798;RPPR=2426.38;RPR=372;RUN=1;SAF=372;SAP=810.798;SAR=0;SRF=1120;SRP=2435.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:39,61:39:1359:61:2179:-166.273,0,-92.4993 0/1:56:30,26:30:1072:26:936:-67.7018,0,-79.9348 0/1:70:41,29:41:1464:29:1031:-72.0305,0,-110.984 0/1:92:34,58:34:1220:58:2050:-157.076,0,-82.412 0/0:184:184,0:184:6559:0:0:0,-55.3895,-590.353 0/0:73:73,0:73:2628:0:0:0,-21.9752,-236.766 0/1:103:39,64:39:1400:64:2270:-173.556,0,-95.2931 0/1:71:35,36:35:1260:36:1283:-94.3987,0,-92.3324 0/0:112:110,2:110:3913:2:72:0,-26.8786,-345.527 0/0:11:11,0:11:377:0:0:0,-3.31133,-34.2579 0/1:11:5,6:5:176:6:216:-16.4792,0,-12.8737 0/1:25:14,11:14:491:11:392:-28.0943,0,-36.9954 0/0:90:89,1:89:3188:1:36:0,-23.4944,-283.545 0/0:70:69,0:69:2449:0:0:0,-20.7711,-220.304 0/0:73:73,0:73:2605:0:0:0,-21.9752,-234.697 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:27:10,17:10:356:17:612:-47.2856,0,-24.2534 0/1:62:32,30:32:1152:30:1072:-78.1286,0,-85.3125 0/1:65:34,31:34:1224:31:1103:-80.0129,0,-90.9001 0/0:90:90,0:90:3194:0:0:0,-27.0927,-287.682 0/0:74:74,0:74:2656:0:0:0,-22.2762,-239.286 chr06 31564482 . A C 52147.3 PASS AB=0.517134;ABP=7.10295;AC=31;AF=0.738095;AN=42;AO=2400;CIGAR=1X;DP=3184;DPB=3184;DPRA=0;EPP=4764.36;EPPR=1581.68;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9825;MQMR=60;NS=21;NUMALT=1;ODDS=21.9446;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85365;QR=27995;RO=782;RPL=53;RPP=4764.36;RPPR=1581.68;RPR=2347;RUN=1;SAF=2400;SAP=5214.54;SAR=0;SRF=782;SRP=1701.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:190:66,123:66:2368:123:4391:-338.108,0,-156.124 0/1:174:78,96:78:2793:96:3443:-257.698,0,-199.229 0/1:195:100,95:100:3588:95:3374:-245.176,0,-264.425 0/1:286:144,142:144:5156:142:5051:-368.643,0,-378.086 1/1:281:5,276:5:176:276:9820:-867.564,-68.4044,0 1/1:115:2,113:2:72:113:4003:-353.623,-27.7817,0 0/1:189:103,86:103:3669:86:3063:-219.005,0,-273.519 0/1:117:67,50:67:2381:50:1780:-125.262,0,-179.326 1/1:217:0,217:0:0:217:7708:-693.758,-65.3235,0 1/1:42:0,42:0:0:42:1495:-134.844,-12.6433,0 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:60:18,42:18:640:42:1467:-114.26,0,-39.8675 1/1:162:0,162:0:0:162:5784:-520.676,-48.7669,0 1/1:164:0,164:0:0:164:5838:-525.527,-49.3689,0 1/1:222:1,221:1:36:221:7879:-705.532,-63.2304,0 1/1:150:0,149:0:0:149:5277:-474.708,-44.8535,0 0/1:160:81,79:81:2912:79:2832:-206.954,0,-214.15 0/1:133:76,57:76:2732:57:2005:-140.685,0,-206.085 0/1:92:35,57:35:1256:57:2044:-156.537,0,-85.6505 1/1:131:0,131:0:0:131:4646:-418.304,-39.4349,0 1/1:95:0,95:0:0:95:3357:-302.344,-28.5979,0 chr06 31577425 . C A 41941.4 PASS AB=0.538006;ABP=15.7197;AC=30;AF=0.714286;AN=42;AO=1568;CIGAR=1X;DP=2044;DPB=2044;DPRA=0;EPP=3407.88;EPPR=1036.63;GTI=1;LEN=1;MEANALT=1;MQM=59.9898;MQMR=60;NS=21;NUMALT=1;ODDS=5.89407;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55782;QR=16944;RO=476;RPL=754;RPP=7.99582;RPPR=7.11603;RPR=814;RUN=1;SAF=754;SAP=7.99582;SAR=814;SRF=253;SRP=7.11603;SRR=223;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:45,48:45:1598:48:1704:-125.65,0,-116.113 0/1:90:57,33:57:2048:33:1184:-79.7756,0,-157.499 0/1:56:26,30:26:924:30:1068:-79.5744,0,-66.62 0/1:101:42,59:42:1499:59:2116:-160.305,0,-104.8 1/1:93:1,92:1:36:92:3281:-291.903,-24.3975,0 1/1:125:1,124:1:36:124:4440:-396.173,-34.0305,0 0/1:157:72,85:72:2543:85:3041:-226.655,0,-181.857 0/1:94:53,41:53:1873:41:1476:-104.839,0,-140.55 1/1:166:0,166:0:0:166:5917:-532.642,-49.971,0 0/1:21:3,18:3:108:18:640:-51.6077,0,-3.75354 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:22:11,11:11:388:11:396:-29.3601,0,-28.6347 1/1:95:0,95:0:0:95:3389:-305.225,-28.5979,0 1/1:100:2,98:2:72:98:3461:-304.868,-23.2663,0 1/1:169:1,168:1:36:168:5977:-534.438,-47.2758,0 1/1:63:0,63:0:0:63:2197:-197.993,-18.9649,0 0/1:62:31,31:31:1101:31:1108:-81.3671,0,-80.7345 0/1:152:73,79:73:2619:79:2815:-207.833,0,-190.2 0/1:157:49,108:49:1739:108:3833:-297.903,0,-109.532 1/1:96:2,94:2:72:94:3352:-295.061,-22.0622,0 1/1:124:1,123:1:36:123:4315:-384.926,-33.7294,0 chr06 31577783 . TCGC ACGT 18129 PASS AB=0.409012;ABP=44.5016;AC=30;AF=0.714286;AN=42;AO=859;CIGAR=1X2M1X;DP=1252;DPB=1281;DPRA=0;EPP=1859.63;EPPR=686.441;GTI=0;LEN=4;MEANALT=1.28571;MQM=59.5995;MQMR=60;NS=21;NUMALT=1;ODDS=1.63696;PAIRED=0;PAIREDR=0;PAO=116;PQA=4096;PQR=0;PRO=0;QA=30159;QR=13559;RO=387;RPL=18;RPP=1715.24;RPPR=686.441;RPR=841;RUN=1;SAF=17;SAP=1723.57;SAR=842;SRF=0;SRP=843.37;SRR=387;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:20:11,9:11:383:9:309:-22.1186,0,-28.7824 0/1:7:4,3:4:140:3:102:-7.40674,0,-10.8374 0/1:40:5,34:5:178:34:1194:-95.6763,0,-4.27856 1/1:39:1,38:1:36:38:1348:-118.019,-8.1419,0 1/1:56:0,55:0:0:55:1919:-172.672,-16.5567,0 1/1:36:0,36:0:0:36:1277:-115.232,-10.8371,0 0/1:24:6,18:6:216:18:623:-49.1645,0,-12.5658 0/1:60:15,45:15:513:45:1575:-123.961,0,-28.4315 1/1:77:0,77:0:0:77:2737:-246.22,-23.1793,0 0/1:13:2,11:2:71:11:382:-30.799,0,-2.82867 0/0:47:46,1:46:1598:1:36:0,-10.5501,-140.508 0/1:82:61,21:61:2161:21:743:-42.5093,0,-170.073 1/1:96:0,96:0:0:96:3392:-305.479,-28.8989,0 1/1:67:0,66:0:0:66:2313:-207.615,-19.868,0 1/1:57:1,55:1:35:55:1923:-169.869,-13.6971,0 1/1:16:0,16:0:0:16:569:-51.1769,-4.81648,0 0/1:9:5,4:5:163:4:132:-9.49581,0,-12.2817 0/1:252:214,37:214:7502:37:1308:-42.0959,0,-599.32 0/1:70:16,54:16:563:54:1869:-147.412,0,-29.9276 1/1:125:0,124:0:0:124:4346:-390.798,-37.3277,0 1/1:59:0,59:0:0:59:2062:-185.517,-17.7608,0 chr06 31596931 . GTG GG 39795.5 PASS AB=0.636951;ABP=129.102;AC=31;AF=0.738095;AN=42;AO=1621;CIGAR=1M1D1M;DP=1903;DPB=1363.33;DPRA=0;EPP=3522.97;EPPR=615.366;GTI=1;LEN=1;MEANALT=1;MQM=37.9056;MQMR=43.9752;NS=21;NUMALT=1;ODDS=8.76905;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=36;PRO=1;QA=56355;QR=9568;RO=282;RPL=737;RPP=31.9575;RPPR=431.884;RPR=884;RUN=1;SAF=737;SAP=31.9575;SAR=884;SRF=23;SRP=431.884;SRR=259;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:42,64:42:1424:64:2244:-156.706,0,-95.0468 0/1:68:28,40:28:959:40:1418:-97.5837,0,-65.221 0/1:62:21,41:21:701:41:1439:-101.975,0,-44.1242 0/1:93:45,48:45:1500:48:1643:-112.174,0,-105.593 1/1:172:0,172:0:0:172:5958:-504.169,-51.7772,0 1/1:104:0,104:0:0:104:3579:-301.749,-31.3071,0 0/1:86:32,54:32:1116:54:1883:-133.377,0,-73.5717 0/1:79:32,47:32:1108:47:1656:-114.574,0,-75.2003 1/1:151:0,151:0:0:151:5200:-445.357,-45.4555,0 1/1:22:0,22:0:0:22:766:-64.8524,-6.62266,0 0/1:5:2,3:2:70:3:100:-6.92694,0,-5.12262 0/1:24:9,15:9:298:15:503:-34.2337,0,-19.7838 1/1:171:0,171:0:0:171:5888:-500.18,-51.4761,0 1/1:108:0,108:0:0:108:3740:-314.857,-32.5112,0 1/1:165:0,165:0:0:165:5813:-486.541,-49.67,0 1/1:64:0,64:0:0:64:2268:-193.215,-19.2659,0 0/1:70:31,39:31:1055:39:1375:-95.3404,0,-48.6506 0/1:95:20,75:20:682:75:2615:-191.892,0,-32.1955 0/1:86:19,67:19:619:67:2338:-171.623,0,-28.5797 1/1:98:1,97:1:36:97:3392:-281.993,-26.0464,0 1/1:74:0,74:0:0:74:2537:-210.775,-22.2762,0 chr06 31596935 . ATTT ATTC,GTTC 49401.2 PASS AB=0.64691,0.349306;ABP=151.67,159.425;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1710,278;CIGAR=3M1X,1X2M1X;DP=1992;DPB=1992;DPRA=0,0.608182;EPP=3716.23,606.68;EPPR=7.35324;GTI=1;LEN=1,4;MEANALT=1.66667,2.16667;MQM=38.0895,43.8129;MQMR=56.5;NS=21;NUMALT=2;ODDS=9.32345;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60797,9667;QR=72;RO=2;RPL=775,22;RPP=35.5189,430.712;RPPR=7.35324;RPR=935,256;RUN=1,1;SAF=775,22;SAP=35.5189,430.712;SAR=935,256;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:110:0,68,41:0:0:68,41:2423,1435:-298.225,-115.018,-94.5477,-183.247,0,-170.905 1/2:70:0,42,28:0:0:42,28:1465,979:-188.73,-78.8384,-66.1952,-110.228,0,-101.799 1/2:65:0,44,20:0:0:44,20:1558,714:-174.374,-57.5113,-44.266,-116.931,0,-110.911 1/2:96:0,51,45:0:0:51,45:1814,1530:-261.313,-122.425,-107.072,-139.223,0,-125.677 1/1:187:0,187,0:0:0:187,0:6685,0:-561.758,-56.2926,0,-561.758,-56.2926,-561.758 1/1:107:0,107,0:0:0:107,0:3819,0:-319.92,-32.2102,0,-319.92,-32.2102,-319.92 1/2:86:1,54,31:1:36:54,31:1911,1080:-227.898,-83.4094,-70.0918,-141.831,0,-135.437 1/2:79:0,47,32:0:0:47,32:1684,1127:-217.649,-90.9687,-76.8203,-127.023,0,-117.39 1/1:160:0,160,0:0:0:160,0:5698,0:-484.082,-48.1648,0,-484.082,-48.1648,-484.082 1/1:22:0,22,0:0:0:22,0:779,0:-66.0184,-6.62266,0,-66.0184,-6.62266,-66.0184 1/2:5:0,3,2:0:0:3,2:104,65:-12.9093,-5.55212,-4.64903,-7.67407,0,-7.07201 1/2:25:0,16,9:0:0:16,9:567,318:-67.935,-26.0061,-21.1896,-42.2699,0,-39.5607 1/1:181:1,180,0:1:36:180,0:6385,0:-536.864,-50.895,0,-537.165,-54.1854,-540.096 1/1:115:0,115,0:0:0:115,0:4077,0:-342.434,-34.6185,0,-342.434,-34.6185,-342.434 1/1:177:0,177,0:0:0:177,0:6296,0:-526.21,-53.2823,0,-526.21,-53.2823,-526.21 1/1:67:0,67,0:0:0:67,0:2399,0:-204.17,-20.169,0,-204.17,-20.169,-204.17 1/2:72:0,41,31:0:0:41,31:1457,1056:-170.91,-60.4277,-48.0855,-110.767,0,-101.435 1/2:95:0,75,20:0:0:75,20:2666,697:-256.135,-55.9737,-33.3964,-200.501,0,-194.48 1/2:90:0,72,18:0:0:72,18:2550,630:-241.573,-49.4807,-27.8065,-192.427,0,-187.009 1/1:99:0,98,1:0:0:98,1:3491,36:-292.594,-29.5009,0,-289.786,-26.3475,-289.485 1/1:84:0,84,0:0:0:84,0:2969,0:-246.05,-25.2865,0,-246.05,-25.2865,-246.05 chr06 31609457 . T C 17297.5 PASS AB=0.485997;ABP=4.04416;AC=31;AF=0.738095;AN=42;AO=840;CIGAR=1X;DP=1153;DPB=1153;DPRA=0;EPP=1827.05;EPPR=680.51;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.969;MQMR=60;NS=21;NUMALT=1;ODDS=9.98734;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29849;QR=11148;RO=312;RPL=0;RPP=1827.05;RPPR=680.51;RPR=840;RUN=1;SAF=0;SAP=1827.05;SAR=840;SRF=0;SRP=680.51;SRR=312;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:41,33:41:1464:33:1175:-83.7807,0,-109.78 0/1:52:28,24:28:1000:24:856:-61.7075,0,-74.6618 0/1:68:34,34:34:1216:34:1195:-87.3845,0,-89.2765 0/1:35:17,18:17:608:18:639:-47.3022,0,-44.516 1/1:72:0,72:0:0:72:2541:-228.941,-21.6742,0 1/1:46:0,46:0:0:46:1632:-147.166,-13.8474,0 0/1:70:40,30:40:1440:30:1064:-74.9996,0,-108.826 0/1:52:27,25:27:956:25:896:-65.3068,0,-70.7022 1/1:126:0,126:0:0:126:4478:-403.189,-37.9298,0 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:24:12,12:12:432:12:432:-31.9965,0,-31.9965 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 1/1:56:0,56:0:0:56:2012:-181.353,-16.8577,0 1/1:80:1,79:1:36:79:2804:-249,-20.4841,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:49:31,18:31:1096:18:648:-43.9014,0,-84.1995 0/1:95:59,35:59:2112:35:1244:-83.6081,0,-161.692 0/1:80:16,64:16:572:64:2246:-178.25,0,-27.731 1/1:35:0,35:0:0:35:1251:-112.894,-10.5361,0 1/1:51:0,51:0:0:51:1804:-162.642,-15.3525,0 chr06 31693059 . GT TT,TC 91640.1 PASS AB=0.533218,0.466205;ABP=19.6005,20.1826;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3568,814;CIGAR=1X1M,2X;DP=4389;DPB=4389;DPRA=0,0.847145;EPP=7750.82,1770.59;EPPR=9.52472;GTI=1;LEN=1,2;MEANALT=1.85714,2.21429;MQM=59.9902,59.9545;MQMR=60;NS=21;NUMALT=2;ODDS=34.3784;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=123792,28424;QR=75;RO=3;RPL=3568,814;RPP=7750.82,1770.59;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=7750.82,1770.59;SAR=3568,814;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:302:0,152,150:0:0:152,150:5258,5238:-852.469,-425.219,-379.462,-427.597,0,-382.443 1/2:53:0,34,19:0:0:34,19:1158,662:-148.117,-54.183,-43.948,-94.2798,0,-88.5602 1/2:233:0,103,129:0:0:103,129:3575,4527:-659.004,-368.407,-337.401,-290.586,0,-251.753 1/2:246:0,150,96:0:0:150,96:5213,3367:-698.152,-274.349,-229.194,-424.152,0,-395.253 1/1:498:0,495,2:0:0:495,2:16743,64:-1506.23,-149.01,0,-1501.07,-143.88,-1500.47 1/1:235:0,231,3:0:0:231,3:8126,108:-731.025,-69.5379,0,-722.212,-60.6433,-721.309 1/2:258:0,130,128:0:0:130,128:4563,4472:-735.469,-364.121,-324.987,-371.698,0,-333.167 1/2:209:0,91,118:0:0:91,118:3148,4066:-586.392,-330.607,-303.213,-256.131,0,-220.609 1/1:481:0,480,0:0:0:480,0:16679,0:-1500.4,-144.494,0,-1500.4,-144.494,-1500.4 1/1:41:0,41,0:0:0:41,0:1408,0:-127.007,-12.3422,0,-127.007,-12.3422,-127.007 1/2:19:0,16,3:0:0:16,3:557,108:-54.4532,-9.17208,-4.3556,-45.6391,0,-44.736 1/2:76:0,44,32:0:0:44,32:1546,1123:-217.575,-91.7437,-78.4984,-126.182,0,-116.549 1/1:372:0,372,0:0:0:372,0:12960,0:-1166.22,-111.983,0,-1166.22,-111.983,-1166.22 1/1:296:1,293,2:1:25:293,2:10383,68:-931.802,-86.2829,0,-926.588,-82.6261,-927.934 1/1:261:1,260,0:1:25:260,0:8920,0:-800.286,-76.069,0,-800.587,-78.2678,-802.536 1/1:103:0,103,0:0:0:103,0:3601,0:-324.292,-31.0061,0,-324.292,-31.0061,-324.292 1/2:74:0,49,25:0:0:49,25:1745,869:-213.23,-70.9981,-56.2476,-142.582,0,-135.056 1/2:75:0,34,41:0:0:34,41:1179,1417:-211.306,-115.479,-105.244,-96.1733,0,-83.8311 1/2:186:0,120,66:0:0:120,66:4220,2335:-534.042,-190.541,-154.417,-343.854,0,-323.986 1/1:297:1,296,0:1:25:296,0:10236,0:-918.674,-86.906,0,-918.975,-89.1049,-920.924 1/1:74:0,74,0:0:0:74,0:2574,0:-231.902,-22.2762,0,-231.902,-22.2762,-231.902 chr06 31693072 . A T 75519.5 PASS AB=0.536443;ABP=22.7941;AC=31;AF=0.738095;AN=42;AO=3531;CIGAR=1X;DP=4333;DPB=4333;DPRA=0;EPP=7670.48;EPPR=1744.53;GTI=1;LEN=1;MEANALT=1;MQM=59.9966;MQMR=59.9514;NS=21;NUMALT=1;ODDS=34.3362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=125642;QR=28722;RO=802;RPL=3531;RPP=7670.48;RPPR=1744.53;RPR=0;RUN=1;SAF=0;SAP=7670.48;SAR=3531;SRF=0;SRP=1744.53;SRR=802;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:301:148,153:148:5281:153:5423:-397.591,0,-383.627 0/1:53:19,34:19:676:34:1216:-93.792,0,-45.2134 0/1:229:126,103:126:4532:103:3658:-260.487,0,-339.109 0/1:242:94,148:94:3372:148:5249:-399.7,0,-230.846 1/1:492:2,490:2:72:490:17447:-1563.03,-141.27,0 1/1:233:3,230:3:104:230:8195:-727.86,-60.4372,0 0/1:255:125,130:125:4492:130:4649:-341.808,0,-327.683 0/1:208:117,91:117:4192:91:3248:-229.928,0,-314.847 1/1:475:0,475:0:0:475:16885:-1519.31,-142.989,0 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 0/1:19:3,16:3:108:16:564:-45.3707,0,-4.3556 0/1:77:32,45:32:1129:45:1604:-121.471,0,-78.737 1/1:371:0,371:0:0:371:13225:-1190.05,-111.682,0 1/1:280:2,278:2:72:278:9807:-875.755,-77.4517,0 1/1:255:0,255:0:0:255:9069:-816.194,-76.7627,0 1/1:104:0,104:0:0:104:3713:-334.371,-31.3071,0 0/1:71:25,46:25:900:46:1640:-126.516,0,-59.9479 0/1:75:41,34:41:1468:34:1220:-87.5296,0,-109.839 0/1:185:65,120:65:2324:120:4289:-330.496,0,-153.73 1/1:293:0,293:0:0:293:10428:-938.443,-88.2018,0 1/1:75:0,75:0:0:75:2677:-241.174,-22.5773,0 chr06 31815022 . G A 27531.8 PASS AB=0.592308;ABP=60.7381;AC=31;AF=0.738095;AN=42;AO=1295;CIGAR=1X;DP=1617;DPB=1617;DPRA=0;EPP=2806.39;EPPR=657.3;GTI=1;LEN=1;MEANALT=1.04762;MQM=58.9707;MQMR=35.2368;NS=21;NUMALT=1;ODDS=2.19822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46490;QR=11440;RO=321;RPL=1294;RPP=2806.39;RPPR=665.742;RPR=1;RUN=1;SAF=1295;SAP=2815.07;SAR=0;SRF=320;SRP=691.394;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:139:57,82:57:2044:82:2948:-222.315,0,-128.328 0/1:102:27,75:27:964:75:2696:-212.149,0,-44.4826 0/1:91:32,59:32:1136:59:2090:-160.95,0,-64.0373 0/1:56:22,34:22:780:34:1216:-92.8757,0,-48.9018 1/1:167:3,164:3:104:164:5892:-520.965,-40.9152,0 1/1:82:0,82:0:0:82:2928:-263.724,-24.6845,0 0/1:111:65,46:65:2296:46:1652:-115.536,0,-144.51 0/1:82:37,45:37:1324:45:1608:-120.308,0,-82.7802 1/1:132:0,131:0:0:131:4708:-423.466,-39.4349,0 1/1:5:0,5:0:0:5:180:-16.55,-1.50515,0 0/1:4:3,1:3:104:1:36:-2.39371,0,-7.28317 0/1:13:8,5:8:280:5:180:-12.6366,0,-18.617 1/1:86:0,86:0:0:86:3084:-277.754,-25.8886,0 1/1:79:0,79:0:0:79:2840:-255.806,-23.7814,0 1/1:121:0,121:0:0:121:4352:-391.804,-36.4246,0 1/1:51:0,51:0:0:51:1836:-165.5,-15.3525,0 0/1:55:22,33:22:792:33:1188:-90.6587,0,-51.573 0/1:51:25,26:25:896:26:936:-69.1965,0,-56.4514 0/1:76:20,56:20:720:56:2016:-158.812,0,-37.4231 1/1:60:0,60:0:0:60:2160:-194.643,-18.0618,0 1/1:54:0,54:0:0:54:1944:-175.214,-16.2556,0 chr06 31823383 . TAT TAC,AAC 31046.1 PASS AB=0.528937,0.464334;ABP=8.41414,11.2198;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1129,349;CIGAR=2M1X,1X1M1X;DP=1487;DPB=1532.33;DPRA=0,0.954216;EPP=2445.92,760.854;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.90476,2.38462;MQM=59.9575,59.9456;MQMR=60;NS=21;NUMALT=2;ODDS=6.63037;PAIRED=0,0;PAIREDR=0;PAO=0,136;PQA=0,4191;PQR=0;PRO=0;QA=39992,12050;QR=34;RO=1;RPL=1,0;RPP=2445.92,760.854;RPPR=5.18177;RPR=1128,349;RUN=1,1;SAF=0,0;SAP=2454.6,760.854;SAR=1129,349;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,31,25:0:0:31,25:1116,858:-160.717,-69.653,-60.3211,-91.0602,0,-83.5345 1/2:38:0,15,22:0:0:15,22:531,763:-105.368,-62.1108,-57.5954,-43.35,0,-36.7274 1/2:89:0,49,39:0:0:49,39:1729,1373:-252.558,-111.769,-97.0184,-140.784,0,-129.044 1/2:66:0,39,26:0:0:39,26:1392,902:-186.798,-73.3141,-61.5739,-113.482,0,-105.655 1/1:104:0,100,1:0:0:100,1:3546,28:-319.014,-30.103,0,-316.796,-27.8983,-316.494 1/1:36:0,36,0:0:0:36,0:1279,0:-115.412,-10.8371,0,-115.412,-10.8371,-115.412 1/2:91:0,52,39:0:0:52,39:1818,1322:-255.435,-107.532,-91.8783,-148.246,0,-136.506 1/2:143:0,65,77:0:0:65,77:2311,2678:-406.208,-217.875,-198.308,-188.471,0,-165.292 1/1:144:0,143,0:0:0:143,0:5073,0:-456.357,-43.0473,0,-456.357,-43.0473,-456.357 1/1:16:0,16,0:0:0:16,0:564,0:-51.0903,-4.81648,0,-51.0903,-4.81648,-51.0903 1/2:7:0,4,3:0:0:4,3:144,108:-20.9217,-9.17208,-7.96796,-12.1095,0,-11.2064 1/2:32:0,17,15:0:0:17,15:612,520:-92.5547,-42.6115,-37.494,-50.2959,0,-45.7805 1/1:34:0,34,0:0:0:34,0:1203,0:-108.575,-10.235,0,-108.575,-10.235,-108.575 1/1:99:0,99,0:0:0:99,0:3496,0:-314.824,-29.802,0,-314.824,-29.802,-314.824 1/1:154:0,154,0:0:0:154,0:5502,0:-495.306,-46.3586,0,-495.306,-46.3586,-495.306 1/1:38:0,38,0:0:0:38,0:1340,0:-120.9,-11.4391,0,-120.9,-11.4391,-120.9 1/2:46:0,25,21:0:0:25,21:883,726:-130.98,-59.0376,-51.5119,-71.9754,0,-65.6538 1/2:119:1,65,53:1:34:65,53:2275,1806:-328.552,-143.762,-126.953,-182.338,0,-169.141 1/2:56:0,31,25:0:0:31,25:1088,866:-158.919,-70.3753,-61.0434,-88.5408,0,-81.0151 1/1:57:0,54,3:0:0:54,3:1912,100:-172.003,-16.2556,0,-163.911,-7.82961,-163.008 1/1:62:0,62,0:0:0:62,0:2178,0:-196.286,-18.6639,0,-196.286,-18.6639,-196.286 chr06 31830786 . G T 10441.3 PASS AB=0.525365;ABP=9.50978;AC=10;AF=0.238095;AN=42;AO=615;CIGAR=1X;DP=2685;DPB=2685;DPRA=1.06379;EPP=1338.47;EPPR=4497.96;GTI=0;LEN=1;MEANALT=1;MQM=59.9626;MQMR=60;NS=21;NUMALT=1;ODDS=12.8318;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21940;QR=73633;RO=2070;RPL=615;RPP=1338.47;RPPR=4489.28;RPR=0;RUN=1;SAF=615;SAP=1338.47;SAR=0;SRF=2069;SRP=4489.28;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:61,86:61:2175:86:3063:-231.648,0,-151.764 0/1:125:60,65:60:2144:65:2306:-170.171,0,-155.599 0/1:125:65,60:65:2313:60:2119:-153.347,0,-170.8 0/1:168:80,88:80:2800:88:3152:-233.332,0,-201.666 0/0:275:274,1:274:9776:1:36:0,-79.185,-876.191 0/0:147:145,2:145:5162:2:72:0,-37.4147,-457.886 0/1:200:94,106:94:3368:106:3774:-279.654,0,-243.13 0/1:151:68,83:68:2397:83:2975:-222.299,0,-170.528 0/0:278:278,0:278:9865:0:0:0,-83.6863,-887.796 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:36:17,19:17:604:19:684:-51.0532,0,-43.8535 0/0:221:221,0:221:7844:0:0:0,-66.5276,-705.987 0/0:147:147,0:147:5219:0:0:0,-44.2514,-469.847 0/0:184:184,0:184:6559:0:0:0,-55.3895,-590.392 0/0:81:81,0:81:2877:0:0:0,-24.3834,-259.164 0/1:93:45,48:45:1616:48:1720:-127.09,0,-117.734 0/1:68:27,41:27:972:41:1467:-111.855,0,-67.3279 0/1:50:35,15:35:1234:15:536:-33.5233,0,-96.3112 0/0:116:115,1:115:4101:1:36:0,-31.3212,-365.677 0/0:60:60,0:60:2143:0:0:0,-18.0618,-193.137 chr06 32003766 . TG CA,CG 34981.2 PASS AB=0.558491,0.441509;ABP=26.6343,26.6343;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1346,354;CIGAR=2X,1X1M;DP=1701;DPB=1701;DPRA=0,1.00751;EPP=2848.16,763.05;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.66667,2;MQM=40.7585,44.0113;MQMR=0;NS=21;NUMALT=2;ODDS=16.7632;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47929,12614;QR=0;RO=0;RPL=9,1;RPP=2848.16,763.05;RPPR=0;RPR=1337,353;RUN=1,1;SAF=1346,354;SAP=2925.81,771.712;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,45,53:0:0:45,53:1592,1890:-272.385,-149.56,-136.014,-123.166,0,-107.211 1/2:115:0,67,48:0:0:67,48:2351,1715:-323.75,-138.494,-118.325,-185.604,0,-171.155 1/2:92:0,47,45:0:0:47,45:1675,1599:-255.655,-127.005,-112.856,-128.992,0,-115.446 1/2:43:0,21,22:0:0:21,22:745,788:-120.26,-62.7359,-56.4143,-57.8672,0,-51.2445 1/1:153:0,151,2:0:0:151,2:5344,72:-452.994,-45.4555,0,-447.205,-39.3117,-446.603 1/1:40:0,40,0:0:0:40,0:1412,0:-123.69,-12.0412,0,-123.69,-12.0412,-123.69 1/2:128:0,78,50:0:0:78,50:2804,1775:-365.942,-143.505,-120.024,-222.789,0,-207.737 1/2:58:0,34,24:0:0:34,24:1222,855:-162.062,-68.4738,-58.2387,-93.9335,0,-86.7088 1/1:108:0,107,1:0:0:107,1:3825,36:-334.983,-32.2102,0,-332.102,-28.9751,-331.801 1/1:19:0,19,0:0:0:19,0:682,0:-59.4844,-5.71957,0,-59.4844,-5.71957,-59.4844 1/2:7:0,1,6:0:0:1,6:36,216:-20.6336,-17.7662,-17.4652,-3.21998,0,-1.4138 1/2:78:0,39,39:0:0:39,39:1395,1377:-218.484,-109.842,-98.1015,-108.986,0,-97.2463 1/1:74:0,74,0:0:0:74,0:2647,0:-227.262,-22.2762,0,-227.262,-22.2762,-227.262 1/1:75:0,74,0:0:0:74,0:2634,0:-226.14,-22.2762,0,-226.14,-22.2762,-226.14 1/1:113:0,113,0:0:0:113,0:4045,0:-347.169,-34.0164,0,-347.169,-34.0164,-347.169 1/1:94:0,94,0:0:0:94,0:3353,0:-294.238,-28.2968,0,-294.238,-28.2968,-294.238 1/2:34:0,15,19:0:0:15,19:529,684:-96.928,-55.0715,-50.556,-42.2044,0,-36.4848 1/2:67:0,41,26:0:0:41,26:1459,927:-188.182,-74.2086,-61.8664,-114.32,0,-106.493 1/2:75:0,56,19:0:0:56,19:1993,680:-208.548,-54.2522,-37.3945,-154.642,0,-148.923 1/1:179:0,179,0:0:0:179,0:6368,0:-551.001,-53.8844,0,-551.001,-53.8844,-551.001 1/1:51:0,51,0:0:0:51,0:1818,0:-160.484,-15.3525,0,-160.484,-15.3525,-160.484 chr06 32009326 . C T 26857.6 PASS AB=0.518257;ABP=5.46823;AC=31;AF=0.738095;AN=42;AO=1277;CIGAR=1X;DP=1691;DPB=1691;DPRA=0;EPP=2775.98;EPPR=899.828;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9601;MQMR=60;NS=21;NUMALT=1;ODDS=15.8764;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45793;QR=14751;RO=413;RPL=0;RPP=2775.98;RPPR=899.828;RPR=1277;RUN=1;SAF=1277;SAP=2775.98;SAR=0;SRF=413;SRP=899.828;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:66,75:66:2368:75:2688:-199.719,0,-170.933 0/1:112:64,48:64:2280:48:1724:-121.73,0,-171.747 0/1:71:37,34:37:1332:34:1220:-88.7337,0,-98.8093 0/1:56:16,39:16:568:39:1404:-109.889,0,-34.6767 1/1:166:3,163:3:108:163:5833:-515.006,-39.8958,0 1/1:37:0,37:0:0:37:1324:-119.272,-11.1381,0 0/1:98:48,50:48:1692:50:1792:-132.062,0,-123.065 0/1:81:37,44:37:1324:44:1580:-118.108,0,-95.0787 1/1:105:0,105:0:0:105:3768:-339.318,-31.6082,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:9:7,2:7:248:2:72:-4.12745,0,-19.9549 0/1:59:24,35:24:860:35:1252:-95.2138,0,-59.9611 1/1:56:0,56:0:0:56:2016:-181.713,-16.8577,0 1/1:75:1,74:1:36:74:2652:-235.328,-18.979,0 1/1:116:0,116:0:0:116:4164:-374.941,-34.9195,0 1/1:150:0,150:0:0:150:5375:-483.879,-45.1545,0 0/1:76:37,39:37:1324:39:1400:-103.421,0,-96.5838 0/1:95:47,48:47:1683:48:1717:-126.217,0,-123.158 0/1:51:25,26:25:892:26:932:-68.8463,0,-65.2472 1/1:78:1,77:1:36:77:2764:-245.396,-19.8821,0 1/1:49:0,49:0:0:49:1760:-158.684,-14.7505,0 chr06 32009331 . C T 6722.58 PASS AB=0.47958;ABP=6.11421;AC=11;AF=0.261905;AN=42;AO=417;CIGAR=1X;DP=1700;DPB=1700;DPRA=1.12524;EPP=908.514;EPPR=2782.49;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9648;NS=21;NUMALT=1;ODDS=16.4069;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14856;QR=45755;RO=1280;RPL=0;RPP=908.514;RPPR=2782.49;RPR=417;RUN=1;SAF=417;SAP=908.514;SAR=0;SRF=1280;SRP=2782.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:76,65:76:2712:65:2332:-167.694,0,-201.879 0/1:114:49,65:49:1744:65:2319:-174.652,0,-122.927 0/1:73:35,38:35:1248:38:1364:-101.086,0,-90.6497 0/1:58:41,17:41:1468:17:597:-36.5964,0,-114.956 0/0:169:166,3:166:5937:3:108:0,-40.7989,-524.362 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.394 0/1:101:51,49:51:1836:49:1740:-126.42,0,-135.058 0/1:79:43,36:43:1540:36:1284:-92.082,0,-115.112 0/0:105:104,0:104:3704:0:0:0,-31.3071,-333.204 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/1:59:32,27:32:1148:27:953:-68.3225,0,-85.8565 0/0:55:55,0:55:1964:0:0:0,-16.5566,-177.035 0/0:74:73,1:73:2616:1:36:0,-18.6779,-232.089 0/0:118:118,0:118:4200:0:0:0,-35.5215,-378.184 0/0:149:149,0:149:5332:0:0:0,-44.8535,-480.014 0/1:78:40,38:40:1428:38:1323:-95.8849,0,-105.337 0/1:94:49,45:49:1760:45:1616:-117.433,0,-130.387 0/1:51:27,24:27:959:24:864:-62.73,0,-71.2729 0/0:77:75,2:75:2679:2:72:0,-16.3426,-234.517 0/0:49:48,0:48:1720:0:0:0,-14.4494,-154.872 chr06 32009346 . G A 27915.6 PASS AB=0.517281;ABP=5.26183;AC=31;AF=0.738095;AN=42;AO=1293;CIGAR=1X;DP=1716;DPB=1716;DPRA=0;EPP=2673.47;EPPR=904.253;GTI=0;LEN=1;MEANALT=1;MQM=59.9683;MQMR=60;NS=21;NUMALT=1;ODDS=16.1371;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46355;QR=15104;RO=423;RPL=16;RPP=2673.47;RPPR=904.253;RPR=1277;RUN=1;SAF=1293;SAP=2810.72;SAR=0;SRF=423;SRP=921.543;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:65,78:65:2331:78:2800:-209.17,0,-167.002 0/1:117:67,50:67:2399:50:1792:-126.341,0,-180.946 0/1:72:38,34:38:1356:34:1220:-88.4326,0,-100.666 0/1:59:18,41:18:644:41:1464:-114.295,0,-40.5298 1/1:171:2,169:2:72:169:6044:-537.225,-44.6394,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 0/1:100:49,51:49:1743:51:1832:-135.058,0,-127.051 0/1:80:36,44:36:1279:44:1576:-118.049,0,-91.33 1/1:104:0,104:0:0:104:3725:-335.451,-31.3071,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/1:60:27,33:27:968:33:1188:-89.1542,0,-69.3756 1/1:57:0,57:0:0:57:2044:-184.232,-17.1587,0 1/1:76:1,75:1:36:75:2696:-239.286,-19.28,0 1/1:116:0,116:0:0:116:4164:-374.941,-34.9195,0 1/1:149:0,149:0:0:149:5337:-480.461,-44.8535,0 0/1:78:37,41:37:1324:41:1468:-108.936,0,-95.9818 0/1:96:48,48:48:1696:48:1728:-126.906,0,-124.024 0/1:53:26,27:26:932:27:972:-71.8433,0,-68.2443 1/1:78:1,77:1:36:77:2768:-245.753,-19.8821,0 1/1:50:0,50:0:0:50:1781:-160.571,-15.0515,0 chr06 32012748 . G A 7786.85 PASS AB=0.510448;ABP=3.64554;AC=11;AF=0.261905;AN=42;AO=346;CIGAR=1X;DP=1173;DPB=1173;DPRA=1.58537;EPP=12.0727;EPPR=46.7049;GTI=0;LEN=1;MEANALT=1;MQM=59.9162;MQMR=59.9843;NS=21;NUMALT=1;ODDS=11.7158;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12415;QR=29301;RO=827;RPL=0;RPP=754.34;RPPR=1798.82;RPR=346;RUN=1;SAF=192;SAP=12.0727;SAR=154;SRF=478;SRP=46.7049;SRR=349;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:39,50:39:1387:50:1791:-134.68,0,-98.3365 0/1:42:19,23:19:684:23:824:-61.8391,0,-49.2471 0/1:36:19,17:19:660:17:612:-44.5764,0,-48.8835 0/1:50:29,21:29:1028:21:756:-53.3134,0,-77.7815 0/0:90:87,3:87:3083:3:108:0,-17.0175,-267.622 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:66:26,40:26:924:40:1432:-109.286,0,-63.6026 0/1:64:28,36:28:1000:36:1296:-97.6765,0,-71.0495 0/0:82:82,0:82:2890:0:0:0,-24.6845,-260.335 0/0:17:17,0:17:596:0:0:0,-5.11751,-53.9678 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:26:15,11:15:528:11:392:-27.7933,0,-40.0246 0/0:46:46,0:46:1626:0:0:0,-13.8474,-146.627 0/0:85:84,1:84:2944:1:36:0,-21.9893,-261.595 0/0:37:37,0:37:1308:0:0:0,-11.1381,-118.019 0/0:42:42,0:42:1483:0:0:0,-12.6433,-133.764 0/1:49:20,29:20:712:29:1040:-79.163,0,-49.6562 0/1:138:63,75:63:2236:75:2688:-200.622,0,-159.962 0/1:105:68,37:68:2424:37:1332:-88.5719,0,-186.808 0/0:39:39,0:39:1392:0:0:0,-11.7402,-125.579 0/0:48:48,0:48:1712:0:0:0,-14.4494,-154.366 chr06 32022949 . TAT TTT,TT 29146.8 PASS AB=0.535885,0.46252;ABP=10.0234,10.6607;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1069,292;CIGAR=1M1X1M,1M1D1M;DP=1363;DPB=1265.67;DPRA=0,0.739655;EPP=2315.64,628.424;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.66667,2.07692;MQM=57.3536,44.2089;MQMR=30;NS=21;NUMALT=2;ODDS=4.36291;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38212,10342;QR=36;RO=1;RPL=1068,291;RPP=2315.64,628.424;RPPR=5.18177;RPR=1,1;RUN=1,1;SAF=0,0;SAP=2324.31,637.08;SAR=1069,292;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:1,50,46:1:36:50,46:1785,1644:-273.443,-128.389,-115.647,-143.106,0,-131.569 1/2:51:0,27,24:0:0:27,24:953,852:-143.526,-66.0034,-57.8756,-77.8675,0,-70.6428 1/2:69:0,28,41:0:0:28,41:985,1444:-196.011,-115.844,-107.415,-80.516,0,-68.1738 1/2:83:0,44,39:0:0:44,39:1580,1330:-235.702,-107.038,-93.7929,-129.011,0,-117.271 1/1:135:0,135,0:0:0:135,0:4833,0:-434.944,-40.6391,0,-434.944,-40.6391,-434.944 1/1:82:0,80,1:0:0:80,1:2866,36:-256.901,-24.0824,0,-254.153,-21.3451,-253.852 1/2:101:0,53,48:0:0:53,48:1904,1708:-289.653,-134.892,-118.938,-155.112,0,-140.662 1/2:48:0,31,17:0:0:31,17:1116,608:-140.02,-49.0102,-39.6783,-91.3636,0,-86.2461 1/1:111:0,111,0:0:0:111,0:3954,0:-355.452,-33.4143,0,-355.452,-33.4143,-355.452 1/1:19:0,19,0:0:0:19,0:676,0:-61.1294,-5.71957,0,-61.1294,-5.71957,-61.1294 1/2:5:0,2,3:0:0:2,3:72,108:-14.7763,-8.90447,-8.30241,-6.22762,0,-5.32453 1/2:12:0,5,7:0:0:5,7:180,248:-34.6701,-19.9846,-18.4795,-15.039,0,-12.9318 1/1:54:0,54,0:0:0:54,0:1940,0:-174.743,-16.2556,0,-174.743,-16.2556,-174.743 1/1:76:0,76,0:0:0:76,0:2727,0:-245.391,-22.8783,0,-245.391,-22.8783,-245.391 1/1:109:0,109,0:0:0:109,0:3904,0:-351.249,-32.8123,0,-351.249,-32.8123,-351.249 1/1:35:0,34,1:0:0:34,1:1224,36:-110.021,-10.235,0,-107.106,-6.96262,-106.805 1/2:64:0,36,28:0:0:36,28:1292,1000:-186.554,-81.1639,-70.3268,-105.746,0,-97.3174 1/2:55:0,33,22:0:0:33,22:1184,792:-160.085,-63.6421,-53.7081,-96.7982,0,-90.1755 1/2:42:0,27,15:0:0:27,15:949,536:-120.366,-43.1469,-35.019,-77.5694,0,-73.054 1/1:86:0,86,0:0:0:86,0:3044,0:-273.83,-25.8886,0,-273.83,-25.8886,-273.83 1/1:29:0,29,0:0:0:29,0:1044,0:-94.0483,-8.72987,0,-94.0483,-8.72987,-94.0483 chr06 32022955 . TAT TTT,TT 29119.2 PASS AB=0.523734,0.473101;ABP=6.10259,6.98217;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1062,308;CIGAR=1M1X1M,1M1D1M;DP=1372;DPB=1269.33;DPRA=0,1.15021;EPP=2309.11,671.824;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.85714,2.05882;MQM=57.3936,44.6136;MQMR=17;NS=21;NUMALT=2;ODDS=9.90903;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37977,10934;QR=31;RO=1;RPL=1062,308;RPP=2309.11,671.824;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2309.11,671.824;SAR=1062,308;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:96:0,49,47:0:0:49,47:1764,1661:-276.232,-132.356,-117.606,-144.228,0,-130.08 1/2:52:1,27,24:1:31:27,24:957,856:-144.065,-66.4901,-59.5692,-76.8437,0,-70.8263 1/2:69:0,28,41:0:0:28,41:1000,1438:-196.542,-115.025,-106.596,-81.8684,0,-69.5261 1/2:85:0,43,41:0:0:43,41:1540,1464:-243.246,-117.842,-104.898,-125.404,0,-113.062 1/1:136:0,135,1:0:0:135,1:4848,36:-435.933,-40.6391,0,-432.999,-37.3455,-432.698 1/1:83:0,82,1:0:0:82,1:2946,36:-264.131,-24.6845,0,-261.383,-21.5979,-261.082 1/2:100:0,51,49:0:0:51,49:1817,1737:-285.447,-137.885,-122.533,-147.911,0,-133.161 1/2:49:0,30,19:0:0:30,19:1076,671:-141.657,-53.935,-44.9041,-88.0729,0,-82.3534 1/1:112:0,109,3:0:0:109,3:3875,108:-348.006,-32.8123,0,-339.198,-23.645,-338.295 1/1:19:0,19,0:0:0:19,0:675,0:-61.0392,-5.71957,0,-61.0392,-5.71957,-61.0392 1/2:6:0,2,4:0:0:2,4:72,144:-17.6271,-11.7559,-11.1538,-6.22762,0,-5.0235 1/2:13:0,5,8:0:0:5,8:180,288:-37.7128,-23.0291,-21.5239,-15.039,0,-12.6308 1/1:54:0,52,2:0:0:52,2:1872,72:-168.273,-15.6536,0,-162.404,-9.42594,-161.802 1/1:76:0,76,0:0:0:76,0:2731,0:-245.751,-22.8783,0,-245.751,-22.8783,-245.751 1/1:109:0,109,0:0:0:109,0:3870,0:-348.234,-32.8123,0,-348.234,-32.8123,-348.234 1/1:35:0,34,1:0:0:34,1:1220,36:-109.661,-10.235,0,-106.746,-6.96262,-106.445 1/2:64:0,36,28:0:0:36,28:1296,991:-186.23,-80.479,-69.642,-106.106,0,-97.6776 1/2:56:0,33,23:0:0:33,23:1176,824:-161.709,-65.9812,-56.0472,-96.0806,0,-89.1569 1/2:42:0,27,15:0:0:27,15:972,536:-122.431,-43.1469,-35.019,-79.6376,0,-75.1221 1/1:87:0,86,1:0:0:86,1:3058,36:-274.729,-25.8886,0,-271.798,-22.5982,-271.497 1/1:29:0,29,0:0:0:29,0:1032,0:-92.973,-8.72987,0,-92.973,-8.72987,-92.973 chr06 32037111 . TGCC CGCT,CGCC 130782 PASS AB=0.502274,0.494419;ABP=3.11892,3.6647;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3653,1210;CIGAR=1X2M1X,1X3M;DP=4881;DPB=4881.5;DPRA=0,1.05716;EPP=7926.72,2613.15;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.71429,2.89474;MQM=59.9351,59.9645;MQMR=0;NS=21;NUMALT=2;ODDS=17.5773;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=0;QA=127512,42947;QR=0;RO=0;RPL=1914,550;RPP=21.2149,24.725;RPPR=0;RPR=1739,660;RUN=1,1;SAF=1915,552;SAP=21.6334,23.1745;SAR=1738,658;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:246:0,132,114:0:0:132,114:4589,4067:-704.708,-331.613,-291.877,-373.388,0,-339.07 1/2:217:0,102,114:0:0:102,114:3555,4067:-620.646,-331.54,-300.835,-289.098,0,-254.781 1/2:172:0,73,97:0:0:73,97:2535,3459:-488.064,-281.987,-260.012,-206.092,0,-176.892 1/2:258:0,145,113:0:0:145,113:5042,4023:-738.169,-328.234,-284.585,-410.287,0,-376.27 1/1:429:0,427,1:0:0:427,1:14960,36:-1345.81,-128.54,0,-1342.88,-125.602,-1342.57 1/1:225:0,221,3:0:0:221,3:7744,108:-696.666,-66.5276,0,-687.854,-57.6705,-686.951 1/2:371:0,165,205:0:0:165,205:5721,7252:-1055.61,-590.61,-540.94,-464.926,0,-403.215 1/2:354:0,162,191:0:0:162,191:5605,6785:-1008.45,-552.985,-504.218,-455.577,0,-398.081 1/1:265:0,259,1:0:0:259,1:9070,36:-815.963,-77.9668,0,-813.025,-75.0204,-812.724 1/2:29:0,26,3:0:0:26,3:891,108:-81.487,-9.17208,-1.3453,-72.6729,0,-71.7698 1/2:40:0,20,20:0:0:20,20:693,716:-115.065,-58.7471,-52.7265,-56.6697,0,-50.6491 1/2:105:0,52,51:0:0:52,51:1781,1797:-290.91,-146.341,-130.687,-144.599,0,-129.247 1/1:293:0,293,0:0:0:293,0:10211,0:-918.841,-88.2018,0,-918.841,-88.2018,-918.841 1/1:252:0,250,2:0:0:250,2:8711,72:-783.586,-75.2575,0,-777.711,-69.0228,-777.109 1/1:406:0,403,3:0:0:403,3:14119,108:-1270.15,-121.315,0,-1261.34,-112.143,-1260.44 1/1:173:0,171,1:0:0:171,1:5992,36:-539.034,-51.4761,0,-536.097,-48.5387,-535.796 1/2:152:0,73,78:0:0:73,78:2540,2759:-431.342,-224.82,-202.844,-206.621,0,-183.14 1/2:243:0,122,121:0:0:122,121:4253,4255:-692.583,-346.704,-309.978,-346.229,0,-309.805 1/2:232:0,143,89:0:0:143,89:5028,3159:-667.017,-257.742,-214.695,-409.628,0,-382.837 1/1:270:0,265,3:0:0:265,3:9303,104:-836.933,-79.773,0,-828.48,-71.2888,-827.577 1/1:149:0,149,0:0:0:149,0:5169,0:-465.364,-44.8535,0,-465.364,-44.8535,-465.364 chr06 32412157 . A G 77225.4 PASS AB=0.45868;ABP=33.3376;AC=29;AF=0.690476;AN=42;AO=2931;CIGAR=1X;DP=4050;DPB=4050;DPRA=0;EPP=10.8701;EPPR=37.8859;GTI=0;LEN=1;MEANALT=1.04762;MQM=49.349;MQMR=51.8739;NS=21;NUMALT=1;ODDS=7.50741;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=104252;QR=40041;RO=1118;RPL=2684;RPP=4402.98;RPPR=773.902;RPR=247;RUN=1;SAF=1167;SAP=267.061;SAR=1764;SRF=382;SRP=246.409;SRR=736;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:278:144,134:144:5153:134:4759:-326.971,0,-363.53 0/1:76:50,26:50:1792:26:932:-60.5109,0,-138.684 0/1:235:111,124:111:3980:124:4416:-295.054,0,-261.415 1/1:233:1,232:1:36:232:8295:-717.813,-66.5417,0 1/1:504:4,499:4:129:499:17759:-1505.67,-140.861,0 0/1:86:52,34:52:1872:34:1197:-82.0133,0,-142.871 0/1:206:123,83:123:4412:83:2944:-203.181,0,-335.239 0/1:138:65,73:65:2328:73:2580:-190.905,0,-166.787 0/1:576:361,215:361:12922:215:7582:-460.954,0,-946.342 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/1:63:30,33:30:1080:33:1167:-86.3714,0,-78.5484 1/1:281:1,280:1:36:280:9952:-832.491,-80.9912,0 1/1:261:1,260:1:36:260:9234:-771.108,-74.9706,0 1/1:382:0,382:0:0:382:13602:-1151.73,-114.993,0 1/1:149:0,149:0:0:149:5327:-464.1,-44.8535,0 0/1:136:47,89:47:1692:89:3187:-233.177,0,-105.868 0/1:71:52,19:52:1849:19:684:-40.5164,0,-145.315 0/1:159:61,98:61:2184:98:3481:-246.165,0,-139.857 1/1:126:4,122:4:144:122:4323:-375.93,-24.6162,0 1/1:69:0,69:0:0:69:2471:-222.643,-20.7711,0 chr06 32415509 . A T 25307.2 PASS AB=0.472326;ABP=24.4036;AC=22;AF=0.52381;AN=42;AO=1526;CIGAR=1X;DP=3223;DPB=3223;DPRA=0;EPP=3316.68;EPPR=3688;GTI=1;LEN=1;MEANALT=1;MQM=59.9554;MQMR=59.9352;NS=21;NUMALT=1;ODDS=27.7361;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54412;QR=60683;RO=1697;RPL=0;RPP=3316.68;RPPR=3688;RPR=1526;RUN=1;SAF=1526;SAP=3316.68;SAR=0;SRF=1697;SRP=3688;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:264:162,102:162:5752:102:3648:-249.053,0,-438.305 0/1:153:82,71:82:2937:71:2540:-182.793,0,-218.505 0/1:166:95,71:95:3378:71:2552:-179.959,0,-254.263 0/1:143:70,73:70:2501:73:2608:-191.921,0,-182.294 0/1:295:148,147:148:5290:147:5232:-382.218,0,-387.415 0/1:180:99,81:99:3556:81:2900:-207.05,0,-265.976 0/1:251:129,122:129:4617:122:4356:-316.657,0,-340.125 0/1:91:47,44:47:1684:44:1580:-115.098,0,-124.453 0/1:319:185,134:185:6637:134:4766:-333.07,0,-501.376 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:42:16,26:16:572:26:936:-71.9162,0,-39.1702 0/1:166:89,77:89:3166:77:2744:-197.232,0,-234.002 0/1:173:97,76:97:3476:76:2678:-189.173,0,-260.97 0/1:216:126,90:126:4490:90:3185:-221.83,0,-339.245 0/1:95:41,54:41:1455:54:1928:-145.199,0,-102.647 0/1:84:43,41:43:1544:41:1464:-106.77,0,-113.949 0/1:92:44,48:44:1580:48:1701:-125.679,0,-114.797 0/1:136:65,71:65:2336:71:2520:-186.11,0,-169.545 0/1:218:101,117:101:3628:117:4200:-312.546,0,-261.1 0/1:121:55,66:55:1976:66:2334:-173.895,0,-141.69 chr06 32415517 . GG CA 17910.4 PASS AB=0.383354;ABP=384.977;AC=20;AF=0.47619;AN=42;AO=1239;CIGAR=2X;DP=3239;DPB=3239;DPRA=23.0857;EPP=2693.46;EPPR=4306.91;GTI=2;LEN=2;MEANALT=1.25;MQM=59.9088;MQMR=59.9789;NS=21;NUMALT=1;ODDS=11.7709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43518;QR=70252;RO=1994;RPL=0;RPP=2693.46;RPPR=4306.91;RPR=1239;RUN=1;SAF=1239;SAP=2693.46;SAR=0;SRF=1994;SRP=4332.93;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:265:173,91:173:6101:91:3205:-208.823,0,-469.364 0/1:156:105,51:105:3724:51:1802:-115.499,0,-288.402 0/1:167:125,42:125:4402:42:1497:-84.7516,0,-346.082 0/1:146:74,72:74:2627:72:2518:-182.92,0,-192.725 0/1:297:149,146:149:5224:146:5155:-374.971,0,-381.191 0/1:180:133,47:133:4715:47:1629:-92.7079,0,-370.325 0/1:253:173,80:173:6139:80:2814:-177.33,0,-476.448 0/1:91:68,23:68:2333:23:802:-45.1031,0,-182.831 0/1:318:225,93:225:7944:93:3249:-196.904,0,-619.26 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/0:7:7,0:7:250:0:0:0,-2.10721,-22.8467 0/1:43:35,8:35:1258:8:264:-11.1361,0,-100.581 0/1:166:81,85:81:2858:85:2986:-218.373,0,-207.485 0/1:175:77,97:77:2717:97:3384:-252.029,0,-191.904 0/1:218:90,126:90:3159:126:4434:-333.974,0,-219.274 0/1:97:57,40:57:2021:40:1415:-98.4464,0,-152.962 0/1:86:59,27:59:2093:27:942:-59.1858,0,-162.75 0/1:93:73,20:73:2561:20:710:-36.2299,0,-202.741 0/1:131:98,33:98:3405:33:1144:-63.8257,0,-267.227 0/1:220:118,102:118:4110:102:3578:-256.001,0,-303.858 0/1:119:65,54:65:2287:54:1918:-137.073,0,-170.267 chr06 32415523 . C A 13118.7 PASS AB=0.324419;ABP=844.09;AC=21;AF=0.5;AN=42;AO=1019;CIGAR=1X;DP=3141;DPB=3141;DPRA=0;EPP=2207.06;EPPR=4556.74;GTI=4;LEN=1;MEANALT=1.04762;MQM=59.947;MQMR=59.9585;NS=21;NUMALT=1;ODDS=5.13598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35883;QR=75756;RO=2121;RPL=1;RPP=2207.06;RPPR=4556.74;RPR=1018;RUN=1;SAF=1019;SAP=2215.74;SAR=0;SRF=2121;SRP=4608.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:258:222,36:222:7934:36:1269:-36.845,0,-636.419 0/1:154:122,32:122:4372:32:1140:-56.5506,0,-347.295 0/1:166:125,41:125:4445:41:1452:-81.003,0,-350.251 0/1:140:70,70:70:2489:70:2485:-181.758,0,-182.118 0/1:292:150,142:150:5380:142:4955:-358.202,0,-396.416 0/1:174:141,33:141:5029:33:1168:-53.048,0,-400.377 0/1:247:194,53:194:6908:53:1881:-95.2124,0,-547.435 0/1:86:74,12:74:2639:12:428:-12.9702,0,-211.868 0/1:313:254,59:254:9064:59:2089:-94.0561,0,-721.516 0/1:11:10,1:10:351:1:36:-0.286945,0,-28.6153 0/1:7:2,5:2:72:5:161:-12.6993,0,-4.72951 0/1:43:28,15:28:1008:15:540:-35.9922,0,-78.0921 0/1:158:88,70:88:3144:70:2457:-173.822,0,-234.434 0/1:169:98,71:98:3499:71:2480:-172.575,0,-264.233 0/1:210:124,85:124:4452:85:3011:-207.92,0,-337.574 0/1:91:41,50:41:1476:50:1746:-130.026,0,-105.742 0/1:84:68,16:68:2415:16:572:-26.5269,0,-192.302 0/1:90:65,25:65:2313:25:884:-52.7857,0,-181.336 0/1:123:81,42:81:2904:42:1466:-95.2014,0,-224.562 0/1:212:109,103:109:3895:103:3629:-262.996,0,-286.926 0/1:113:55,58:55:1967:58:2034:-149.313,0,-143.288 chr06 32415561 . TGA TGT,CGT 59396 PASS AB=0.407351,0.116921;ABP=495.911,6609.53;AC=19,2;AF=0.452381,0.047619;AN=42;AO=2693,606;CIGAR=2M1X,1X1M1X;DP=6611;DPB=6656.33;DPRA=0,0;EPP=5850.79,1318.92;EPPR=7179.73;GTI=1;LEN=1,3;MEANALT=2.09524,2.29412;MQM=59.7182,59.6931;MQMR=59.9697;NS=21;NUMALT=2;ODDS=9.15408;PAIRED=0,0;PAIREDR=0;PAO=0,136;PQA=0,4769;PQR=0;PRO=0;QA=96242,21050;QR=114537;RO=3305;RPL=974,1;RPP=450.549,1310.25;RPPR=599.728;RPR=1719,605;RUN=1,1;SAF=974,1;SAP=450.549,1310.25;SAR=1719,605;SRF=1176;SRP=599.728;SRR=2129;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:397:219,125,53:219:7611:125,53:4453,1828:-297.014,0,-581.15,-214.488,-470.324,-817.304 0/1:209:92,59,57:92:3215:59,57:2116,1995:-144.839,0,-243.771,-10.2308,-99.2268,-254.601 0/1:319:154,99,66:154:5329:99,66:3548,2300:-242.998,0,-403.244,-102.317,-246.002,-515.489 0/1:486:241,245,0:241:8358:245,0:8782,0:-644.02,0,-605.953,-716.568,-679.705,-1395.92 0/1:818:398,419,1:398:13741:419,1:14945,36:-1098.26,0,-990.219,-1215.13,-1113.41,-2331.19 0/1:250:111,72,67:111:3871:72,67:2588,2351:-177.637,0,-293.153,-19.7322,-123.506,-314.388 0/2:340:164,68,108:164:5646:68,108:2448,3752:-255.585,-105.453,-543.544,0,-259.056,-426.046 0/1:255:126,80,48:126:4328:80,48:2880,1697:-197.045,0,-327.343,-96.7637,-213.21,-433.737 0/1:555:295,174,86:295:10349:174,86:6158,2945:-412.781,0,-789.832,-262.542,-603.166,-1078.86 0/1:35:26,6,3:26:887:6,3:216,102:-9.80683,0,-70.1618,-9.37359,-63.7021,-80.4268 0/2:9:2,2,5:2:72:2,5:72,173:-13.447,-8.17021,-13.447,0,-3.47436e-08,-4.36968 0/1:86:47,31,8:47:1665:31,8:1093,285:-74.842,0,-126.301,-65.7595,-112.403,-198.987 0/1:386:175,208,1:175:6039:208,1:7398,36:-549.316,0,-428.066,-599.059,-487.742,-1089.36 0/1:329:142,185,1:142:4841:185,1:6606,36:-495.707,0,-337.057,-535.516,-389.81,-927.974 0/1:580:278,300,0:278:9622:300,0:10739,0:-792.057,0,-691.601,-875.743,-781.91,-1657.65 0/1:259:129,130,0:129:4529:130,0:4653,0:-340.718,0,-329.816,-379.55,-368.95,-748.147 0/1:249:134,59,56:134:4654:59,56:2111,1956:-131.789,0,-360.584,-13.026,-219.239,-374.507 0/1:200:121,53,26:121:4148:53,26:1898,894:-118.367,0,-320.789,-82.1978,-264.145,-411.105 0/1:267:160,88,19:160:5569:88,19:3168,628:-210.324,0,-426.358,-207.716,-402.073,-654.822 0/1:479:238,240,1:238:8257:240,1:8574,36:-627.346,0,-598.908,-696.054,-668.217,-1366.92 0/1:103:53,50,0:53:1806:50,0:1796,0:-130.891,0,-131.811,-146.846,-146.863,-293.358 chr06 32415575 . AAA GAA,GAG 85261.6 PASS AB=0.604656,0.388788;ABP=423.893,478.268;AC=21,21;AF=0.5,0.5;AN=42;AO=2675,1720;CIGAR=1X2M,1X1M1X;DP=4424;DPB=4424;DPRA=0,0;EPP=5794.34,3729.26;EPPR=0;GTI=2;LEN=1,3;MEANALT=3.14286,3.14286;MQM=59.9155,59.636;MQMR=0;NS=21;NUMALT=2;ODDS=19.5013;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=94872,59003;QR=0;RO=0;RPL=2,1;RPP=5794.34,3729.26;RPPR=0;RPR=2673,1719;RUN=1,1;SAF=0,0;SAP=5811.7,3737.94;SAR=2675,1720;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:205:0,161,40:0:0:161,40:5723,1345:-575.298,-108.988,-60.5221,-466.362,0,-454.321 1/2:211:0,151,59:0:0:151,59:5362,2003:-599.452,-162.541,-117.086,-437.052,0,-419.291 1/2:207:0,148,59:0:0:148,59:5287,2053:-598.067,-167.278,-122.725,-431.14,0,-413.379 1/2:346:0,168,176:0:0:168,176:5944,5950:-966.565,-482.412,-431.839,-484.286,0,-431.304 1/2:517:0,236,277:0:0:236,277:8377,9549:-1458.19,-775.649,-704.606,-682.636,0,-599.251 1/2:245:0,171,72:0:0:171,72:6061,2501:-697.06,-203.298,-151.822,-493.806,0,-472.131 1/2:330:0,261,67:0:0:261,67:9247,2274:-937.698,-184.454,-105.885,-753.308,0,-733.139 1/2:187:0,128,59:0:0:128,59:4529,2069:-537.594,-168.699,-130.167,-369.247,0,-351.486 1/2:327:0,245,79:0:0:245,79:8678,2734:-929.133,-222.271,-148.519,-706.969,0,-683.188 1/2:25:0,21,4:0:0:21,4:737,135:-71.2394,-11.2784,-4.95676,-60.3005,0,-59.0964 1/2:9:0,7,2:0:0:7,2:248,69:-26.1605,-5.95048,-3.84327,-20.557,0,-19.9549 1/2:50:0,27,23:0:0:27,23:968,805:-144.801,-65.845,-57.7172,-79.3096,0,-72.3859 1/2:227:0,100,125:0:0:100,125:3545,4250:-633.596,-344.79,-314.687,-288.916,0,-251.287 1/2:160:0,67,91:0:0:67,91:2364,3129:-446.635,-254.136,-233.967,-192.561,0,-165.168 1/2:363:0,183,179:0:0:183,179:6494,6168:-1030.23,-501.122,-446.033,-529.248,0,-475.364 1/2:163:0,72,90:0:0:72,90:2559,3100:-460.346,-251.81,-230.136,-208.605,0,-181.513 1/2:183:0,148,34:0:0:148,34:5258,1147:-521.519,-93.0572,-48.5048,-428.569,0,-418.334 1/2:133:0,99,34:0:0:99,34:3469,1141:-375.032,-92.7525,-62.9505,-282.619,0,-272.384 1/2:161:0,105,55:0:0:105,55:3706,1889:-455.174,-153.39,-121.782,-301.8,0,-285.243 1/2:272:0,124,145:0:0:124,145:4431,4987:-766.275,-404.992,-367.664,-361.33,0,-317.68 1/2:103:0,53,50:0:0:53,50:1885,1705:-292.296,-138.671,-122.716,-153.973,0,-138.921 chr06 32421281 . T C 31270.3 PASS AB=0.479905;ABP=13.3954;AC=13;AF=0.309524;AN=42;AO=1430;CIGAR=1X;DP=5781;DPB=5781;DPRA=1.08789;EPP=3099.54;EPPR=9451.09;GTI=1;LEN=1;MEANALT=1;MQM=53.2503;MQMR=55.5123;NS=21;NUMALT=1;ODDS=32.9469;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50807;QR=155579;RO=4351;RPL=892;RPP=193.304;RPPR=1050.87;RPR=538;RUN=1;SAF=893;SAP=195.46;SAR=537;SRF=2900;SRP=1050.87;SRR=1451;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:352:170,182:170:6082:182:6413:-467.306,0,-437.892 0/1:213:99,114:99:3552:114:4060:-299.399,0,-253.289 0/1:255:120,135:120:4296:135:4831:-356.448,0,-308.8 0/0:293:293,0:293:10450:0:0:0,-88.2018,-938.812 0/0:750:748,2:748:26771:2:72:0,-218.959,-2387.45 0/1:371:175,196:175:6244:196:6955:-512.615,0,-447.882 0/1:412:236,176:236:8457:176:6248:-433.483,0,-632.634 0/1:242:123,119:123:4408:119:4238:-307.251,0,-322.01 0/1:385:218,167:218:7803:167:5937:-415.073,0,-583.271 0/1:28:11,17:11:383:17:600:-44.5881,0,-26.1866 0/1:7:6,1:6:216:1:36:-1.47156,0,-17.3415 0/1:46:16,30:16:576:30:1072:-82.095,0,-38.076 0/0:320:320,0:320:11421:0:0:0,-96.3296,-1025.18 0/0:326:326,0:326:11650:0:0:0,-98.1358,-1044.48 0/0:360:359,1:359:12837:1:36:0,-105.468,-1149.18 0/0:314:313,1:313:11180:1:36:0,-90.9251,-1000.55 0/1:360:182,178:182:6510:178:6310:-458.001,0,-476.85 0/1:138:70,68:70:2512:68:2432:-175.127,0,-183.172 0/1:152:114,38:114:4064:38:1351:-75.243,0,-316.891 0/0:368:363,5:363:12976:5:180:0,-94.2786,-1141.16 0/0:89:89,0:89:3191:0:0:0,-26.7917,-284.502 chr06 32421296 . TGTAGGTAGGGCT TGTACGGTT,TGTAGGGTT 35429 PASS AB=0.553097,0.425885;ABP=25.1478,46.1419;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1463,388;CIGAR=4M1I3M5D1M,1M4D6M1X1M;DP=1885;DPB=1305.08;DPRA=0,1.1788;EPP=3179.87,836.878;EPPR=0;GTI=2;LEN=9,9;MEANALT=3.19048,3.8125;MQM=46.5632,47.4923;MQMR=0;NS=21;NUMALT=2;ODDS=8.90356;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=4.66667,4.66667;PQR=4.66667;PRO=0.333333;QA=49422,12465;QR=0;RO=0;RPL=0,0;RPP=3179.87,845.542;RPPR=0;RPR=1463,388;RUN=1,1;SAF=0,1;SAP=3179.87,836.878;SAR=1463,387;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:127:0,79,47:0:0:79,47:2654,1495:-331.458,-119.23,-95.4489,-212.266,0,-198.118 1/2:59:0,28,29:0:0:28,29:949,947:-150.735,-75.5148,-67.086,-75.2476,0,-66.5177 1/2:70:0,32,36:0:0:32,36:1089,1233:-186.79,-99.3509,-89.7179,-87.4306,0,-76.5935 1/1:53:0,53,0:0:0:53,0:1771,0:-158.449,-15.9546,0,-158.449,-15.9546,-158.449 1/1:302:0,297,1:0:0:297,1:10121,21:-901.693,-89.4059,0,-900.105,-87.8381,-899.804 1/2:66:0,33,32:0:0:33,32:1140,1008:-171.305,-80.6651,-70.7311,-90.6263,0,-80.9934 1/2:124:0,66,55:0:0:66,55:2254,1813:-324.71,-145.02,-125.152,-179.72,0,-163.163 1/2:71:0,37,33:0:0:37,33:1214,1024:-178.749,-81.7374,-70.5993,-97.0152,0,-87.0812 1/2:165:0,91,71:0:0:91,71:3022,2315:-427.436,-185.182,-157.788,-242.262,0,-220.889 1/2:14:0,6,8:0:0:6,8:197,235:-34.5852,-18.8005,-16.9944,-16.0951,0,-13.6869 1/2:7:0,6,1:0:0:6,1:204,36:-19.5517,-3.27774,-1.47156,-16.6286,0,-16.3275 1/2:23:0,8,14:0:0:8,14:286,470:-60.7053,-37.9309,-35.5227,-22.8427,0,-18.6283 1/1:86:0,86,0:0:0:86,0:2912,0:-260.638,-25.8886,0,-260.638,-25.8886,-260.638 1/1:121:0,121,0:0:0:121,0:4076,0:-363.427,-36.4246,0,-363.427,-36.4246,-363.427 1/1:125:0,118,1:0:0:118,1:3986,30:-356.257,-35.5215,0,-354.129,-33.3985,-353.828 1/1:100:0,99,0:0:0:99,0:3350,0:-300.063,-29.802,0,-300.063,-29.802,-300.063 1/2:76:0,39,34:0:0:39,34:1329,1016:-188.095,-80.6654,-68.9252,-107.417,0,-97.182 1/2:35:0,21,14:0:0:21,14:715,427:-90.8009,-33.8242,-27.5026,-57.2903,0,-53.0759 1/2:67:0,54,11:0:0:54,11:1789,359:-170.957,-28.6103,-12.3547,-142.395,0,-139.084 1/1:159:0,154,1:0:0:154,1:5187,36:-460.17,-46.3586,0,-457.25,-43.4255,-456.949 1/1:35:0,35,0:0:0:35,0:1177,0:-104.463,-10.5361,0,-104.463,-10.5361,-104.463 chr06 32522742 . C T 51228.7 PASS AB=0.479917;ABP=8.06905;AC=29;AF=0.690476;AN=42;AO=1894;CIGAR=1X;DP=2655;DPB=2655;DPRA=0;EPP=201.419;EPPR=171.503;GTI=0;LEN=1;MEANALT=1;MQM=46.4029;MQMR=59.9671;NS=21;NUMALT=1;ODDS=34.3431;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67800;QR=27062;RO=761;RPL=1361;RPP=789.033;RPPR=69.8066;RPR=533;RUN=1;SAF=206;SAP=2521.1;SAR=1688;SRF=198;SRP=383.161;SRR=563;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:28,47:28:985:47:1673:-124.557,0,-66.3839 0/1:48:26,22:26:932:22:788:-54.695,0,-69.7494 0/1:110:55,55:55:1961:55:1972:-140.952,0,-143.649 1/1:95:0,95:0:0:95:3378:-299.08,-28.5979,0 1/1:191:1,190:1:36:190:6783:-595.21,-53.8985,0 0/1:88:39,49:39:1392:49:1737:-127.993,0,-99.0884 0/1:157:79,78:79:2791:78:2808:-202.005,0,-204.165 0/1:82:32,50:32:1133:50:1800:-134.651,0,-77.5922 0/1:448:265,183:265:9410:183:6556:-449.809,0,-711.997 0/1:29:18,11:18:648:11:392:-26.423,0,-49.922 0/1:11:8,3:8:273:3:108:-6.6528,0,-21.5889 0/1:35:15,20:15:525:20:720:-53.302,0,-37.042 1/1:170:0,170:0:0:170:6084:-536.694,-51.1751,0 1/1:206:2,204:2:72:204:7281:-636.961,-55.1755,0 1/1:192:0,192:0:0:192:6884:-608.499,-57.7978,0 1/1:147:0,147:0:0:147:5260:-467.987,-44.2514,0 0/1:113:65,48:65:2308:48:1720:-120.004,0,-173.963 0/1:169:86,83:86:3084:83:2984:-213.841,0,-226.914 0/1:79:35,44:35:1260:44:1576:-116.466,0,-89.9241 1/1:123:5,118:5:180:118:4244:-360.01,-20.4746,0 1/1:87:2,85:2:72:85:3052:-261.916,-19.3529,0 chr06 32522760 . C T 33505.2 PASS AB=0.497302;ABP=3.0806;AC=29;AF=0.690476;AN=42;AO=1673;CIGAR=1X;DP=2242;DPB=2242;DPRA=0;EPP=3627.2;EPPR=1238.58;GTI=0;LEN=1;MEANALT=1;MQM=44.6832;MQMR=59.8576;NS=21;NUMALT=1;ODDS=26.7337;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59271;QR=20274;RO=569;RPL=1673;RPP=3635.88;RPPR=1238.58;RPR=0;RUN=1;SAF=1;SAP=3627.2;SAR=1672;SRF=0;SRP=1238.58;SRR=569;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:30,45:30:1072:45:1544:-113.395,0,-74.1959 0/1:47:27,20:27:972:20:701:-48.5681,0,-73.6495 0/1:111:55,56:55:1980:56:2004:-143.066,0,-145.059 1/1:94:0,94:0:0:94:3284:-291.089,-28.2968,0 1/1:189:1,188:1:32:188:6638:-583.405,-53.6954,0 0/1:87:39,48:39:1400:48:1682:-123.157,0,-100.11 0/1:159:79,80:79:2771:80:2811:-202.346,0,-201.765 0/1:84:32,52:32:1152:52:1849:-137.729,0,-78.7036 0/1:186:112,74:112:3997:74:2644:-177.227,0,-303.915 0/1:30:18,12:18:648:12:432:-28.3292,0,-49.621 0/1:12:9,3:9:320:3:104:-6.00124,0,-25.53 0/1:36:15,21:15:525:21:756:-56.1947,0,-36.741 1/1:164:0,164:0:0:164:5808:-513.306,-49.3689,0 1/1:205:2,203:2:72:203:7189:-628.406,-54.8744,0 1/1:191:0,191:0:0:191:6810:-601.985,-57.4967,0 1/1:79:0,79:0:0:79:2802:-246.944,-23.7814,0 0/1:36:19,17:19:669:17:608:-43.2907,0,-49.695 0/1:170:89,81:89:3175:81:2889:-205.174,0,-234.415 0/1:79:35,44:35:1237:44:1580:-116.8,0,-87.8509 1/1:124:5,119:5:180:119:4249:-360.183,-20.7757,0 1/1:84:2,82:2:72:82:2887:-248.6,-18.4498,0 chr06 32522766 . CAACCCG TAAACCT,TAAACCA 45774 PASS AB=0.500904,0.495479;ABP=3.01815,3.20664;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1663,559;CIGAR=1X2M1X2M1X,1X2M1X2M1X;DP=2226;DPB=2226.29;DPRA=0,0.690146;EPP=3614.17,1216.86;EPPR=7.35324;GTI=0;LEN=7,7;MEANALT=1.95238,2.11111;MQM=44.5129,59.8587;MQMR=60;NS=21;NUMALT=2;ODDS=24.6112;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=58776,19733;QR=66;RO=2;RPL=1663,559;RPP=3614.17,1216.86;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3614.17,1216.86;SAR=1663,559;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:78:0,46,30:0:0:46,30:1623,1042:-212.797,-84.6975,-70.8501,-128.088,0,-119.057 1/2:46:0,21,25:0:0:21,25:744,887:-131.746,-72.5655,-66.2438,-59.4746,0,-51.9488 1/2:111:0,57,54:0:0:57,54:2022,1899:-316.083,-154.93,-137.771,-161.503,0,-145.247 1/1:88:0,87,1:0:0:87,1:3071,36:-272.033,-26.1896,0,-269.14,-22.9421,-268.839 1/1:188:0,186,2:0:0:186,2:6554,63:-579.313,-55.9916,0,-574.265,-50.6293,-573.663 1/2:85:0,49,36:0:0:49,36:1717,1274:-241.574,-104.126,-89.3754,-137.798,0,-126.961 1/2:160:2,80,78:2:66:80,78:2842,2760:-446.934,-219.498,-200.751,-222.724,0,-204.579 1/2:82:0,50,32:0:0:50,32:1765,1131:-233.132,-92.4653,-77.4138,-141.017,0,-131.384 1/2:186:0,74,112:0:0:74,112:2589,3980:-530.72,-324.674,-302.398,-206.394,0,-172.678 1/2:29:0,12,17:0:0:12,17:422,606:-82.8628,-49.754,-46.1416,-33.4556,0,-28.3381 1/2:12:0,3,9:0:0:3,9:108,312:-34.4128,-25.7052,-24.8022,-9.06104,0,-6.35177 1/2:35:0,20,15:0:0:20,15:703,524:-98.9659,-42.9739,-36.9533,-56.3392,0,-51.8237 1/1:164:0,164,0:0:0:164,0:5801,0:-512.314,-49.3689,0,-512.314,-49.3689,-512.314 1/1:205:0,203,2:0:0:203,2:7177,62:-634.257,-61.1091,0,-629.281,-55.823,-628.679 1/1:190:0,190,0:0:0:190,0:6731,0:-595.677,-57.1957,0,-595.677,-57.1957,-595.677 1/1:79:0,79,0:0:0:79,0:2786,0:-245.766,-23.7814,0,-245.766,-23.7814,-245.766 1/2:38:0,19,19:0:0:19,19:679,661:-108.446,-54.0924,-48.3728,-54.7031,0,-48.9836 1/2:166:0,80,86:0:0:80,86:2831,3031:-473.918,-247.122,-223.04,-227.146,0,-201.258 1/2:78:0,43,35:0:0:43,35:1530,1250:-225.124,-102.269,-89.3251,-123.209,0,-112.673 1/1:122:0,117,5:0:0:117,5:4143,179:-367.26,-35.2205,0,-352.662,-20.2653,-351.157 1/1:84:0,83,1:0:0:83,1:2938,36:-258.947,-24.9855,0,-256.009,-21.6882,-255.708 chr06 32576754 . TGC AGT 4723.13 PASS AB=0.386441;ABP=102.14;AC=9;AF=0.214286;AN=42;AO=348;CIGAR=1X1M1X;DP=2452;DPB=2451.67;DPRA=0.948061;EPP=758.683;EPPR=4552.24;GTI=0;LEN=3;MEANALT=1.5;MQM=49.7241;MQMR=59.9952;NS=21;NUMALT=1;ODDS=10.0838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12291;QR=72941;RO=2095;RPL=2;RPP=741.411;RPPR=4508.92;RPR=346;RUN=1;SAF=2;SAP=741.411;SAR=346;SRF=5;SRP=4508.92;SRR=2090;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:43,38:43:1499:38:1344:-95.7615,0,-110.817 0/0:56:53,2:53:1835:2:66:0,-10.6395,-159.15 0/1:123:75,48:75:2634:48:1693:-115.053,0,-200.283 0/0:144:144,0:144:4975:0:0:0,-43.3483,-447.909 0/0:318:315,2:315:10954:2:72:0,-88.978,-978.983 0/0:84:84,0:84:2952:0:0:0,-25.2865,-265.917 0/0:114:114,0:114:3952:0:0:0,-34.3174,-355.88 0/1:122:83,37:83:2933:37:1320:-81.7648,0,-227.724 0/1:130:84,46:84:2933:46:1622:-106.162,0,-225.072 0/1:23:14,9:14:486:9:322:-22.0904,0,-37.1457 0/0:6:6,0:6:213:0:0:0,-1.80618,-19.5163 0/1:33:17,16:17:586:16:563:-40.9217,0,-43.1293 0/0:185:184,0:184:6384:0:0:0,-55.3895,-574.438 0/0:124:123,0:123:4290:0:0:0,-37.0267,-385.927 0/0:262:262,0:262:9081:0:0:0,-78.8699,-817.293 0/0:103:102,0:102:3550:0:0:0,-30.7051,-319.355 0/1:121:76,44:76:2654:44:1511:-98.3361,0,-202.715 0/1:189:101,87:101:3511:87:3104:-221.208,0,-259.34 0/1:63:46,17:46:1618:17:602:-35.3272,0,-126.943 0/0:110:108,2:108:3761:2:72:0,-26.299,-331.88 0/0:61:61,0:61:2140:0:0:0,-18.3628,-192.868 chr06 32576769 . A G 6372.88 PASS AB=0.376471;ABP=172.002;AC=13;AF=0.309524;AN=42;AO=485;CIGAR=1X;DP=2575;DPB=2575;DPRA=1.00883;EPP=1056.17;EPPR=4537.04;GTI=1;LEN=1;MEANALT=1.0625;MQM=51.099;MQMR=59.9923;NS=21;NUMALT=1;ODDS=3.04629;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17002;QR=74438;RO=2088;RPL=0;RPP=1056.17;RPPR=4537.04;RPR=485;RUN=1;SAF=0;SAP=1056.17;SAR=485;SRF=0;SRP=4537.04;SRR=2088;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:44,35:44:1532:35:1234:-86.7911,0,-114.385 0/1:81:54,27:54:1916:27:968:-62.8814,0,-148.331 0/1:125:74,51:74:2645:51:1774:-121.736,0,-200.666 0/0:143:143,0:143:5081:0:0:0,-43.0473,-457.431 0/0:317:315,2:315:11298:2:72:0,-88.6187,-1009.89 0/1:127:84,43:84:2983:43:1474:-94.4227,0,-230.47 0/1:180:117,63:117:4150:63:2222:-144.724,0,-319.498 0/1:122:82,40:82:2927:40:1374:-86.31,0,-226.939 0/1:128:84,44:84:3000:44:1561:-101.266,0,-231.7 0/1:23:14,9:14:504:9:309:-20.9118,0,-38.7744 0/1:9:6,3:6:216:3:108:-7.25131,0,-17.0812 0/1:33:17,16:17:604:16:563:-40.919,0,-44.7566 0/0:183:183,0:183:6530:0:0:0,-55.0885,-587.785 0/0:120:119,0:119:4253:0:0:0,-35.8226,-382.588 0/0:265:263,1:263:9350:1:36:0,-76.2335,-837.869 0/0:102:102,0:102:3660:0:0:0,-30.7051,-329.603 0/1:121:74,47:74:2628:47:1645:-109.762,0,-200.341 0/1:186:98,88:98:3508:88:3086:-220.659,0,-259.934 0/1:61:47,14:47:1675:14:504:-27.145,0,-132.674 0/0:109:107,2:107:3803:2:72:0,-25.998,-335.653 0/0:61:61,0:61:2175:0:0:0,-18.3628,-196.016 chr06 32576797 . T G 6826.02 PASS AB=0.380469;ABP=161.86;AC=13;AF=0.309524;AN=42;AO=491;CIGAR=1X;DP=2580;DPB=2580;DPRA=0.782131;EPP=1069.2;EPPR=4508.85;GTI=1;LEN=1;MEANALT=1.13333;MQM=51.1507;MQMR=59.9914;NS=21;NUMALT=1;ODDS=6.70199;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17529;QR=73583;RO=2087;RPL=491;RPP=1069.2;RPPR=4508.85;RPR=0;RUN=1;SAF=0;SAP=1069.2;SAR=491;SRF=0;SRP=4534.87;SRR=2087;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:43,37:43:1510:37:1328:-94.6148,0,-112.106 0/1:79:52,26:52:1838:26:932:-60.1862,0,-141.856 0/1:127:75,52:75:2658:52:1864:-129.162,0,-201.233 0/0:144:144,0:144:5126:0:0:0,-43.3483,-461.481 0/0:318:316,2:316:11194:2:72:0,-88.9197,-1000.53 0/1:125:81,44:81:2862:44:1584:-104.912,0,-220.187 0/1:182:119,63:119:4230:63:2227:-145.145,0,-326.092 0/1:123:83,40:83:2912:40:1428:-90.7573,0,-225.285 0/1:128:82,46:82:2906:46:1648:-109.043,0,-223.242 0/1:23:14,9:14:504:9:324:-22.269,0,-38.7744 0/1:9:6,3:6:216:3:97:-6.32597,0,-17.0812 0/1:32:16,16:16:561:16:572:-42.025,0,-41.1842 0/0:184:184,0:184:6407:0:0:0,-55.3895,-576.721 0/0:123:123,0:123:4330:0:0:0,-37.0267,-389.872 0/0:262:262,0:262:9185:0:0:0,-78.8699,-826.627 0/0:100:100,0:100:3535:0:0:0,-30.103,-318.357 0/1:120:73,46:73:2556:46:1625:-108.628,0,-194.103 0/1:190:101,89:101:3598:89:3188:-228.516,0,-266.824 0/1:62:46,16:46:1637:16:568:-32.5837,0,-128.953 0/0:109:107,2:107:3681:2:72:0,-25.998,-324.675 0/0:60:60,0:60:2137:0:0:0,-18.0618,-192.596 chr06 32595904 . AA AT,GT 44804.6 PASS AB=0.446778,0.547429;ABP=36.9881,29.9941;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1419,758;CIGAR=1M1X,2X;DP=2186;DPB=2186;DPRA=0,1.2629;EPP=3075.65,1631.66;EPPR=7.35324;GTI=0;LEN=1,2;MEANALT=2,2.42857;MQM=59.9753,59.9868;MQMR=60;NS=21;NUMALT=2;ODDS=9.33397;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50555,25814;QR=61;RO=2;RPL=1419,756;RPP=3084.33,1631.66;RPPR=7.35324;RPR=0,2;RUN=1,1;SAF=1,0;SAP=3075.65,1648.99;SAR=1418,758;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,39,73:0:0:39,73:1389,2478:-314.282,-201.065,-189.325,-113.334,0,-91.3584 1/2:74:1,28,45:1:36:28,45:996,1488:-198.235,-117.356,-111.865,-78.2288,0,-67.62 1/2:137:1,66,70:1:25:66,70:2357,2388:-383.769,-191.901,-173.98,-190.32,0,-171.195 1/1:80:0,80,0:0:0:80,0:2872,0:-258.716,-24.0824,0,-258.716,-24.0824,-258.716 1/1:185:0,183,2:0:0:183,2:6485,72:-583.374,-55.0885,0,-577.499,-48.8538,-576.897 1/2:89:0,40,49:0:0:40,49:1436,1695:-255.225,-138.081,-126.04,-117.496,0,-102.746 1/2:142:0,55,86:0:0:55,86:1976,2960:-401.673,-240.468,-223.911,-161.287,0,-135.398 1/2:182:0,77,105:0:0:77,105:2738,3579:-513.843,-290.71,-267.531,-223.482,0,-191.874 1/2:295:0,133,160:0:0:133,160:4768,5443:-830.485,-441.596,-401.559,-388.987,0,-340.822 1/2:21:0,4,17:0:0:4,17:144,545:-55.9938,-44.2367,-43.0325,-12.1095,0,-6.99199 1/2:7:0,4,3:0:0:4,3:144,106:-20.7395,-8.98601,-7.78189,-12.1095,0,-11.2064 1/2:54:0,26,28:0:0:26,28:916,984:-155.02,-80.4439,-72.6171,-74.9283,0,-66.4995 1/1:164:0,163,0:0:0:163,0:5781,0:-520.173,-49.0679,0,-520.173,-49.0679,-520.173 1/1:78:0,78,0:0:0:78,0:2728,0:-245.672,-23.4803,0,-245.672,-23.4803,-245.672 1/1:130:0,130,0:0:0:130,0:4641,0:-417.852,-39.1339,0,-417.852,-39.1339,-417.852 1/1:42:0,42,0:0:0:42,0:1503,0:-135.564,-12.6433,0,-135.564,-12.6433,-135.564 1/2:72:0,31,39:0:0:31,39:1077,1309:-193.624,-106.062,-96.7296,-87.6057,0,-75.8655 1/2:108:0,52,56:0:0:52,56:1863,1919:-308.069,-156.124,-140.471,-152.296,0,-135.438 1/2:87:0,62,25:0:0:62,25:2228,848:-250.878,-69.103,-50.4391,-182.12,0,-174.594 1/1:81:0,81,0:0:0:81,0:2912,0:-262.315,-24.3834,0,-262.315,-24.3834,-262.315 1/1:45:0,45,0:0:0:45,0:1601,0:-144.379,-13.5464,0,-144.379,-13.5464,-144.379 chr06 32667707 . CAGA CAGT 23537.4 PASS AB=0.507274;ABP=3.48419;AC=29;AF=0.690476;AN=42;AO=1157;CIGAR=3M1X;DP=1670;DPB=1670;DPRA=0;EPP=2515.4;EPPR=1103.95;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9646;MQMR=60;NS=21;NUMALT=1;ODDS=15.6249;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41505;QR=17759;RO=507;RPL=0;RPP=2515.4;RPPR=1103.95;RPR=1157;RUN=1;SAF=1157;SAP=2515.4;SAR=0;SRF=507;SRP=1103.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:66,70:66:2341:70:2512:-185.392,0,-170.009 0/1:63:30,28:30:1049:28:1008:-73.2169,0,-76.9017 0/1:104:55,49:55:1935:49:1756:-127.017,0,-143.118 1/1:53:0,53:0:0:53:1904:-171.638,-15.9546,0 1/1:186:2,184:2:66:184:6607:-588.069,-49.7233,0 0/1:84:38,45:38:1346:45:1620:-120.745,0,-96.0952 0/1:119:57,62:57:1997:62:2232:-165.321,0,-144.18 0/1:192:86,106:86:2995:106:3808:-285.119,0,-211.988 0/1:125:66,59:66:2281:59:2101:-151.711,0,-167.922 0/1:10:7,3:7:237:3:104:-6.69251,0,-18.6499 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:15:8,7:8:282:7:248:-18.1487,0,-21.2056 1/1:85:0,85:0:0:85:3052:-274.909,-25.5876,0 1/1:72:0,72:0:0:72:2575:-231.999,-21.6742,0 1/1:99:0,99:0:0:99:3539:-318.719,-29.802,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 0/1:61:29,32:29:1029:32:1152:-85.6273,0,-74.5602 0/1:73:32,41:32:1120:41:1476:-111.161,0,-79.1306 0/1:42:24,18:24:829:18:648:-46.0086,0,-62.282 1/1:56:3,53:3:108:53:1895:-160.752,-6.78251,0 1/1:40:0,40:0:0:40:1436:-129.536,-12.0412,0 chr06 32667719 . A G 23359 PASS AB=0.509728;ABP=3.85523;AC=29;AF=0.690476;AN=42;AO=1154;CIGAR=1X;DP=1663;DPB=1663;DPRA=0;EPP=2508.89;EPPR=1095.28;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9532;MQMR=60;NS=21;NUMALT=1;ODDS=20.8798;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41282;QR=18208;RO=507;RPL=0;RPP=2508.89;RPPR=1095.28;RPR=1154;RUN=1;SAF=1154;SAP=2508.89;SAR=0;SRF=507;SRP=1103.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:65,70:65:2336:70:2504:-184.974,0,-169.86 0/1:63:30,33:30:1076:33:1188:-88.2567,0,-78.188 0/1:102:55,47:55:1972:47:1688:-121.502,0,-147.05 1/1:54:0,54:0:0:54:1922:-173.256,-16.2556,0 1/1:184:2,182:2:72:182:6493:-577.459,-48.5528,0 0/1:85:38,46:38:1360:46:1652:-123.322,0,-97.0543 0/1:120:58,61:58:2088:61:2180:-160.431,0,-152.155 0/1:191:86,105:86:3096:105:3764:-281.462,0,-221.37 0/1:127:67,60:67:2404:60:2139:-154.53,0,-178.386 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 0/1:14:7,7:7:252:7:252:-18.8145,0,-18.8145 1/1:88:0,88:0:0:88:3140:-282.827,-26.4906,0 1/1:71:0,71:0:0:71:2535:-228.4,-21.3731,0 1/1:96:0,96:0:0:96:3417:-307.744,-28.8989,0 1/1:47:0,47:0:0:47:1692:-152.567,-14.1484,0 0/1:61:29,32:29:1044:32:1152:-85.6273,0,-75.912 0/1:71:32,39:32:1152:39:1400:-104.926,0,-82.617 0/1:42:24,18:24:860:18:644:-45.6473,0,-65.0786 1/1:57:3,54:3:108:54:1944:-165.161,-7.08354,0 1/1:38:0,38:0:0:38:1360:-122.699,-11.4391,0 chr06 32693934 . G A 49662.6 PASS AB=0.518702;ABP=8.53334;AC=29;AF=0.690476;AN=42;AO=2396;CIGAR=1X;DP=3276;DPB=3276;DPRA=0;EPP=5205.86;EPPR=1911.73;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.8151;MQMR=59.9556;NS=21;NUMALT=1;ODDS=1.36399;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85725;QR=31372;RO=879;RPL=2396;RPP=5205.86;RPPR=1911.73;RPR=0;RUN=1;SAF=0;SAP=5205.86;SAR=2396;SRF=0;SRP=1911.73;SRR=879;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:84,127:84:3012:127:4549:-346.019,0,-207.793 0/1:213:93,120:93:3320:120:4304:-323.401,0,-234.9 0/1:125:72,53:72:2568:53:1892:-132.916,0,-193.742 1/1:282:0,282:0:0:282:10108:-909.629,-84.8905,0 1/1:294:0,294:0:0:294:10501:-944.772,-88.5028,0 0/1:287:156,131:156:5564:131:4692:-336.019,0,-414.347 0/1:137:64,73:64:2272:73:2620:-194.806,0,-163.502 0/1:126:70,56:70:2484:56:2004:-142.273,0,-185.883 0/1:217:107,109:107:3836:109:3908:-286.152,0,-280.054 0/1:20:5,15:5:172:15:519:-41.0153,0,-9.79737 0/1:18:9,9:9:320:9:324:-24.0873,0,-23.7238 0/1:80:34,46:34:1204:46:1644:-124.138,0,-84.5834 1/1:254:0,254:0:0:254:9106:-818.828,-76.4616,0 1/1:105:0,105:0:0:105:3756:-338.207,-31.6082,0 1/1:143:2,141:2:72:141:5048:-447.397,-36.2106,0 1/1:125:0,125:0:0:125:4469:-402.378,-37.6288,0 0/1:159:84,75:84:3008:75:2684:-193.919,0,-223.087 0/1:115:58,57:58:2084:57:2040:-149.247,0,-153.212 0/1:110:38,72:38:1348:72:2549:-196.547,0,-88.507 1/1:180:1,179:1:36:179:6392:-571.694,-50.5871,0 1/1:75:2,73:2:72:73:2616:-228.648,-15.7405,0 chr06 32693990 . T C 16809.6 PASS AB=0.403421;ABP=164.075;AC=13;AF=0.309524;AN=42;AO=810;CIGAR=1X;DP=3836;DPB=3836;DPRA=0.691499;EPP=1753.23;EPPR=6571.71;GTI=2;LEN=1;MEANALT=1.05556;MQM=58.0531;MQMR=59.718;NS=21;NUMALT=1;ODDS=14.7442;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28776;QR=107126;RO=3025;RPL=395;RPP=4.08263;RPPR=32.5919;RPR=415;RUN=1;SAF=396;SAP=3.87889;SAR=414;SRF=1614;SRP=32.5919;SRR=1411;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:111,88:111:3939:88:3147:-223.095,0,-293.933 0/1:152:90,62:90:3212:62:2201:-152.518,0,-243.457 0/1:174:107,67:107:3788:67:2353:-159.473,0,-288.709 0/0:188:187,1:187:6613:1:36:0,-52.998,-591.617 0/0:369:368,1:368:13055:1:36:0,-107.482,-1171.01 0/1:152:102,50:102:3611:50:1784:-114.96,0,-279.278 0/1:226:137,89:137:4868:89:3173:-217.525,0,-370.155 0/1:202:109,93:109:3847:93:3307:-236.71,0,-285.119 0/1:327:182,145:182:6438:145:5134:-363.402,0,-481.062 0/1:6:3,3:3:95:3:108:-8.26552,0,-7.05803 0/1:14:11,3:11:388:3:108:-5.85981,0,-31.0429 0/1:49:35,14:35:1244:14:496:-30.2136,0,-97.4574 0/0:223:223,0:223:7924:0:0:0,-67.1297,-713.095 0/0:204:203,1:203:7194:1:36:0,-57.8144,-643.82 0/0:421:421,0:421:14868:0:0:0,-126.734,-1337.31 0/0:208:207,1:207:7317:1:36:0,-59.016,-654.966 0/1:165:80,85:80:2840:85:3018:-221.904,0,-206.156 0/1:192:130,62:130:4592:62:2195:-139.877,0,-355.566 0/1:129:88,41:88:3113:41:1464:-93.0873,0,-241.512 0/0:134:130,4:130:4615:4:144:0,-27.0276,-402.176 0/0:101:101,0:101:3565:0:0:0,-30.404,-321.057 chr06 32759893 . A T 3081.95 PASS AB=0.255061;ABP=389.154;AC=10;AF=0.238095;AN=42;AO=192;CIGAR=1X;DP=1767;DPB=1767;DPRA=1.41332;EPP=419.933;EPPR=3423.08;GTI=10;LEN=1;MEANALT=1;MQM=59.9479;MQMR=11.4711;NS=21;NUMALT=1;ODDS=94.7117;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6880;QR=56311;RO=1575;RPL=0;RPP=419.933;RPPR=3423.08;RPR=192;RUN=1;SAF=192;SAP=419.933;SAR=0;SRF=1575;SRP=3423.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:46,19:46:1648:19:684:-42.3234,0,-28.1059 0/1:35:29,6:29:1025:6:216:-9.25446,0,-25.4028 0/1:71:58,13:58:2080:13:464:-20.7244,0,-33.4848 0/0:81:81,0:81:2908:0:0:0,-24.3834,-82.6549 0/0:192:191,1:191:6860:1:36:0,-54.1995,-183.257 0/0:28:27,1:27:957:1:36:0,-4.83056,-27.8383 0/1:79:60,19:60:2156:19:680:-37.734,0,-48.4634 0/1:159:100,59:100:3569:59:2112:-142.485,0,-44.0803 0/1:63:53,10:53:1896:10:356:-13.4164,0,-33.9116 0/0:6:6,0:6:216:0:0:0,-1.80618,-5.49461 0/0:8:8,0:8:288:0:0:0,-2.40824,-9.65629 0/1:20:15,5:15:532:5:180:-10.5315,0,-10.2815 0/0:126:126,0:126:4508:0:0:0,-37.9298,-122.745 0/0:130:130,0:130:4641:0:0:0,-39.1339,-121.26 0/0:270:269,1:269:9580:1:36:0,-77.6798,-249.705 0/0:47:47,0:47:1661:0:0:0,-14.1484,-42.929 0/1:49:41,8:41:1461:8:288:-11.5169,0,-23.6017 0/1:119:90,29:90:3240:29:1040:-58.0918,0,-53.6581 0/1:81:60,21:60:2129:21:752:-43.6228,0,-32.7575 0/0:65:65,0:65:2332:0:0:0,-19.5669,-64.4689 0/0:73:73,0:73:2624:0:0:0,-21.9752,-86.7227 chr06 32766455 . ACTG TCTT,ACTT 25995.4 PASS AB=0.772487,0.220459;ABP=368.679,387.859;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1128,129;CIGAR=1X2M1X,3M1X;DP=1264;DPB=1264.75;DPRA=0,0.62656;EPP=2340.82,283.13;EPPR=0;GTI=6;LEN=4,1;MEANALT=2,2.28571;MQM=49.2801,53.3333;MQMR=0;NS=21;NUMALT=2;ODDS=1.00519;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=48,48;PQR=0;PRO=0;QA=39163,4564;QR=0;RO=0;RPL=13,0;RPP=2340.82,283.13;RPPR=0;RPR=1115,129;RUN=1,1;SAF=0,0;SAP=2452.43,283.13;SAR=1128,129;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:42:0,34,7:0:0:34,7:1164,248:-113.537,-20.2052,-9.97019,-93.419,0,-91.3118 1/2:36:0,26,9:0:0:26,9:887,324:-80.4718,-9.96608,-2.1393,-70.4538,0,-67.7446 1/1:35:0,32,3:0:0:32,3:1117,108:-99.8967,-9.63296,0,-91.088,-0.465642,-90.1849 1/1:140:0,140,0:0:0:140,0:4873,0:-436.948,-42.1442,0,-436.948,-42.1442,-436.948 1/1:119:0,118,0:0:0:118,0:4096,0:-366.759,-35.5215,0,-366.759,-35.5215,-366.759 1/2:42:0,33,8:0:0:33,8:1138,288:-115.614,-23.4725,-13.5385,-92.1114,0,-89.7032 1/2:85:0,65,20:0:0:65,20:2252,703:-230.775,-48.5151,-28.9482,-182.571,0,-176.551 1/2:61:0,49,12:0:0:49,12:1693,428:-171.83,-35.2325,-20.4821,-136.951,0,-133.339 1/2:85:0,68,17:0:0:68,17:2346,592:-237.119,-48.4889,-28.0188,-188.977,0,-183.859 1/2:10:0,9,1:0:0:9,1:312,36:-28.5207,-3.29724,-0.587975,-25.5818,0,-25.2808 1/2:4:0,3,1:0:0:3,1:108,36:-12.0768,-3.29724,-2.39415,-9.13906,0,-8.83803 1/2:30:0,21,9:0:0:21,9:728,312:-84.3998,-25.7061,-19.3845,-59.0395,0,-56.3302 1/1:78:0,78,0:0:0:78,0:2722,0:-244.211,-23.4803,0,-244.211,-23.4803,-244.211 1/1:58:0,57,0:0:0:57,0:1991,0:-178.417,-17.1587,0,-178.417,-17.1587,-178.417 1/1:66:0,65,0:0:0:65,0:2256,0:-202.221,-19.567,0,-202.221,-19.567,-202.221 1/1:24:0,24,0:0:0:24,0:844,0:-74.7256,-7.22472,0,-74.7256,-7.22472,-74.7256 1/2:35:0,27,8:0:0:27,8:942,280:-88.7841,-14.0065,-5.87867,-75.029,0,-72.6208 1/2:70:0,47,22:0:0:47,22:1606,780:-193.072,-63.5373,-49.3889,-129.528,0,-122.905 1/2:67:0,56,11:0:0:56,11:1947,393:-188.377,-30.9682,-14.1105,-157.698,0,-154.387 1/1:101:0,100,1:0:0:100,1:3444,36:-308.283,-30.103,0,-305.345,-26.8058,-305.044 1/1:76:0,76,0:0:0:76,0:2697,0:-242.246,-22.8783,0,-242.246,-22.8783,-242.246 chr06 32766467 . C T 626.68 PASS AB=0.22357;ABP=385.976;AC=12;AF=0.285714;AN=42;AO=133;CIGAR=1X;DP=1290;DPB=1290;DPRA=0.631579;EPP=226.509;EPPR=2236.94;GTI=4;LEN=1;MEANALT=1;MQM=53.9323;MQMR=49.6171;NS=21;NUMALT=1;ODDS=2.17421;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4694;QR=40805;RO=1157;RPL=8;RPP=226.509;RPPR=2236.94;RPR=125;RUN=1;SAF=0;SAP=291.816;SAR=133;SRF=0;SRP=2515.4;SRR=1157;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:35,8:35:1248:8:279:-12.4911,0,-98.3824 0/1:39:29,10:29:1032:10:356:-2.08021,0,-79.6918 0/0:39:36,3:36:1280:3:108:0,-1.66976,-104.789 0/0:139:139,0:139:4921:0:0:0,-41.8432,-441.199 0/0:118:118,0:118:4165:0:0:0,-35.5215,-373.21 0/1:46:37,9:37:1316:9:324:-15.6585,0,-104.477 0/1:85:66,19:66:2324:19:661:-27.1648,0,-183.006 0/1:61:48,13:48:1695:13:455:-22.9052,0,-133.455 0/1:82:65,17:65:2272:17:608:-30.3676,0,-178.198 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.3402 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.83803 0/1:32:24,8:24:835:8:288:-16.6344,0,-65.3241 0/0:80:80,0:80:2825:0:0:0,-24.0824,-253.361 0/0:57:57,0:57:2027:0:0:0,-17.1587,-181.963 0/0:65:65,0:65:2307:0:0:0,-19.5669,-206.923 0/0:23:23,0:23:816:0:0:0,-6.92369,-72.1773 0/1:34:27,7:27:964:7:252:-5.66455,0,-74.6389 0/1:73:50,23:50:1715:23:812:-51.4165,0,-131.767 0/1:68:55,13:55:1917:13:443:-18.6931,0,-151.472 0/0:104:103,1:103:3632:1:36:0,-27.7088,-321.867 0/0:88:88,0:88:3082:0:0:0,-26.4906,-276.888 chr06 32766497 . A G 663.909 PASS AB=0.231598;ABP=351.541;AC=12;AF=0.285714;AN=42;AO=133;CIGAR=1X;DP=1274;DPB=1274;DPRA=0.611693;EPP=283.196;EPPR=2441.7;GTI=4;LEN=1;MEANALT=1.14286;MQM=54.7594;MQMR=49.7612;NS=21;NUMALT=1;ODDS=2.15326;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4661;QR=40742;RO=1139;RPL=132;RPP=283.196;RPPR=2441.7;RPR=1;RUN=1;SAF=0;SAP=291.816;SAR=133;SRF=0;SRP=2476.32;SRR=1139;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:31,9:31:1112:9:316:-16.649,0,-85.8516 0/1:21:16,5:16:568:5:176:-2.68944,0,-44.9739 0/0:41:38,3:38:1356:3:100:0,-3.0137,-112.296 0/0:141:141,0:141:5045:0:0:0,-42.4452,-452.189 0/0:122:122,0:122:4355:0:0:0,-36.7257,-390.345 0/1:45:34,10:34:1208:10:347:-17.9597,0,-95.0443 0/1:89:69,20:69:2469:20:694:-26.5784,0,-194.793 0/1:62:49,12:49:1760:12:423:-19.6691,0,-138.836 0/1:83:66,17:66:2372:17:595:-28.6995,0,-184.729 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.2732 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.83803 0/1:33:24,9:24:864:9:316:-18.8449,0,-67.5301 0/0:79:79,0:79:2823:0:0:0,-23.7814,-253.252 0/0:59:59,0:59:2116:0:0:0,-17.7608,-189.85 0/0:70:70,0:70:2507:0:0:0,-21.0721,-224.535 0/0:17:17,0:17:604:0:0:0,-5.11751,-54.4112 0/1:29:20,9:20:720:9:324:-8.93493,0,-55.9767 0/1:72:48,24:48:1719:24:847:-54.8653,0,-132.254 0/1:68:56,12:56:1985:12:415:-17.2056,0,-156.853 0/0:103:102,1:102:3639:1:36:0,-27.4078,-321.895 0/0:85:85,0:85:3052:0:0:0,-25.5875,-272.236 chr06 32766503 . C T 726.239 PASS AB=0.215971;ABP=389.103;AC=12;AF=0.285714;AN=42;AO=123;CIGAR=1X;DP=1270;DPB=1270;DPRA=0.602431;EPP=270.101;EPPR=2489.35;GTI=4;LEN=1;MEANALT=1.07143;MQM=59.2114;MQMR=49.7197;NS=21;NUMALT=1;ODDS=5.39165;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4375;QR=40765;RO=1145;RPL=123;RPP=270.101;RPPR=2489.35;RPR=0;RUN=1;SAF=0;SAP=270.101;SAR=123;SRF=0;SRP=2489.35;SRR=1145;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:31,9:31:1112:9:324:-17.0163,0,-85.4783 0/1:19:17,2:17:600:2:72:-1.11715,0,-48.461 0/0:39:36,3:36:1273:3:108:0,-1.66976,-104.103 0/0:141:141,0:141:5042:0:0:0,-42.4452,-450.049 0/0:119:119,0:119:4226:0:0:0,-35.8226,-378.737 0/1:47:37,10:37:1313:10:360:-18.5959,0,-103.877 0/1:84:68,16:68:2425:16:557:-25.1688,0,-192.375 0/1:62:49,13:49:1696:13:468:-23.7819,0,-133.225 0/1:87:69,18:69:2438:18:633:-30.7336,0,-189.786 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.2732 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.83803 0/1:33:24,9:24:860:9:324:-19.5719,0,-67.1862 0/0:80:80,0:80:2860:0:0:0,-24.0824,-256.496 0/0:59:59,0:59:2101:0:0:0,-17.7608,-188.512 0/0:69:69,0:69:2469:0:0:0,-20.7711,-221.377 0/0:18:18,0:18:644:0:0:0,-5.41854,-57.9831 0/1:23:19,4:19:684:4:129:-5.00397,0,-54.562 0/1:74:50,24:50:1784:24:864:-55.7971,0,-137.511 0/1:66:54,12:54:1921:12:432:-19.3486,0,-150.957 0/0:104:103,1:103:3662:1:32:0,-28.1078,-324.309 0/0:90:89,0:89:3187:0:0:0,-26.7917,-284.153 chr06 32776423 . TTCC TTCT 52127.2 PASS AB=0.50245;ABP=3.22309;AC=29;AF=0.690476;AN=42;AO=2803;CIGAR=3M1X;DP=4844;DPB=4844;DPRA=0;EPP=6063.62;EPPR=4369.88;GTI=2;LEN=1;MEANALT=1.61905;MQM=59.883;MQMR=59.9352;NS=21;NUMALT=1;ODDS=6.66385;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=100260;QR=70567;RO=2023;RPL=3;RPP=6063.62;RPPR=4378.54;RPR=2800;RUN=1;SAF=0;SAP=6089.65;SAR=2803;SRF=1;SRP=4387.22;SRR=2022;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:48,45:48:1686:45:1616:-117.717,0,-124.028 0/1:59:21,38:21:712:38:1356:-103.801,0,-46.6326 0/1:63:27,36:27:956:36:1296:-97.979,0,-67.3907 1/1:72:0,72:0:0:72:2569:-231.458,-21.6742,0 1/1:216:1,215:1:36:215:7700:-689.216,-61.4242,0 0/1:59:21,35:21:726:35:1256:-96.1279,0,-48.4426 0/1:197:108,89:108:3707:89:3160:-225.32,0,-274.4 0/1:64:22,42:22:756:42:1504:-116.376,0,-49.0899 0/1:215:105,110:105:3608:110:3926:-288.81,0,-260.208 0/1:972:463,506:463:16164:506:18087:-1335.32,0,-1162.46 0/1:675:362,312:362:12686:312:11153:-800.393,0,-938.344 0/1:1045:513,531:513:17973:531:18995:-1393.54,0,-1302.58 1/1:108:1,107:1:36:107:3848:-342.916,-28.913,0 1/1:81:0,80:0:0:80:2842:-255.756,-24.0824,0 1/1:116:0,116:0:0:116:4167:-375.21,-34.9195,0 1/1:87:0,82:0:0:82:2948:-264.703,-24.6845,0 0/1:80:33,46:33:1158:46:1648:-124.467,0,-80.3714 0/1:510:283,225:283:9835:225:8026:-568.911,0,-731.861 0/1:50:14,36:14:492:36:1291:-101.431,0,-29.5605 1/1:49:1,47:1:36:47:1688:-148.618,-11.2009,0 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 chr06 32777776 . C A 5535.58 PASS AB=0.489091;ABP=3.57883;AC=13;AF=0.309524;AN=42;AO=270;CIGAR=1X;DP=1033;DPB=1033;DPRA=0.663288;EPP=203.783;EPPR=1015.27;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9593;MQMR=59.9646;NS=21;NUMALT=1;ODDS=0.259407;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9636;QR=27187;RO=762;RPL=56;RPP=203.783;RPPR=1015.27;RPR=214;RUN=1;SAF=0;SAP=589.308;SAR=270;SRF=0;SRP=1657.67;SRR=762;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:22,25:22:792:25:896:-66.8104,0,-57.4573 0/1:37:10,27:10:360:27:944:-74.1335,0,-21.6062 0/1:53:27,26:27:963:26:923:-67.4276,0,-71.0313 0/0:39:38,1:38:1360:1:36:0,-8.14189,-119.102 0/0:95:95,0:95:3373:0:0:0,-28.5978,-303.786 0/1:29:13,16:13:468:16:576:-43.4451,0,-33.7298 0/1:72:33,39:33:1171:39:1396:-104.265,0,-84.0225 0/1:35:20,15:20:716:15:540:-38.4005,0,-54.2317 0/1:74:33,41:33:1180:41:1472:-110.5,0,-84.2318 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:26:15,11:15:536:11:396:-28.156,0,-40.748 0/0:121:121,0:121:4310:0:0:0,-36.4246,-388.076 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.65 0/0:73:73,0:73:2615:0:0:0,-21.9752,-235.597 0/0:30:30,0:30:1068:0:0:0,-9.0309,-96.4321 0/1:31:14,17:14:500:17:604:-45.3587,0,-36.0042 0/1:81:43,37:43:1520:37:1313:-94.0276,0,-112.648 0/1:49:40,9:40:1440:9:324:-14.7554,0,-115.147 0/0:32:32,0:32:1123:0:0:0,-9.63296,-101.377 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 chr06 32859633 . A G 22336.1 PASS AB=0.453631;ABP=19.7246;AC=29;AF=0.690476;AN=42;AO=1133;CIGAR=1X;DP=1637;DPB=1637;DPRA=0;EPP=2463.29;EPPR=1090.92;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9912;MQMR=60;NS=21;NUMALT=1;ODDS=5.19487;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39697;QR=17798;RO=501;RPL=0;RPP=2463.29;RPPR=1090.92;RPR=1133;RUN=1;SAF=0;SAP=2463.29;SAR=1133;SRF=0;SRP=1090.92;SRR=501;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:76,43:76:2689:43:1544:-103.431,0,-206.432 0/1:51:24,27:24:852:27:954:-70.8214,0,-61.6479 0/1:123:74,49:74:2630:49:1705:-116.704,0,-199.92 1/1:141:0,141:0:0:141:4989:-449.16,-42.4452,0 1/1:150:5,144:5:180:144:5064:-439.345,-28.6612,0 0/1:41:14,26:14:500:26:897:-68.6384,0,-32.9353 0/1:104:56,48:56:1965:48:1699:-121.888,0,-145.814 0/1:126:67,59:67:2400:59:2074:-148.997,0,-178.327 0/1:141:83,58:83:2948:58:2046:-141.966,0,-223.108 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:5:2,3:2:68:3:108:-8.57002,0,-4.95256 0/1:9:6,3:6:216:3:99:-6.52731,0,-17.0812 1/1:75:0,75:0:0:75:2615:-235.596,-22.5773,0 1/1:81:0,81:0:0:81:2864:-257.997,-24.3834,0 1/1:145:0,145:0:0:145:5035:-453.302,-43.6494,0 1/1:19:0,19:0:0:19:673:-60.897,-5.71957,0 0/1:28:17,11:17:608:11:381:-26.1918,0,-46.6232 0/1:87:46,41:46:1630:41:1392:-99.3816,0,-120.798 0/1:57:21,36:21:752:36:1265:-96.9919,0,-50.8475 1/1:93:8,84:8:288:84:2905:-235.42,-1.75172,0 1/1:38:0,38:0:0:38:1316:-118.737,-11.4391,0 chr06 32859661 . AAG CAG,CAC 34583.6 PASS AB=0.449339,0.547357;ABP=23.2519,20.6978;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1141,508;CIGAR=1X2M,1X1M1X;DP=1657;DPB=1657;DPRA=0,0.902161;EPP=2480.66,1106.12;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2.04762,2.26667;MQM=59.9869,59.9783;MQMR=60;NS=21;NUMALT=2;ODDS=2.56869;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40752,17741;QR=27;RO=1;RPL=1141,508;RPP=2480.66,1106.12;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2480.66,1106.12;SAR=1141,508;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,43,77:0:0:43,77:1529,2689:-343.678,-219.075,-206.13,-124.957,0,-101.777 1/2:51:0,26,25:0:0:26,25:932,863:-146.476,-70.4551,-62.6283,-76.3721,0,-68.8463 1/2:126:0,49,75:0:0:49,75:1747,2612:-354.809,-212.4,-197.649,-142.413,0,-119.836 1/1:146:0,144,0:0:0:144,0:5159,0:-464.09,-43.3483,0,-464.09,-43.3483,-464.09 1/1:146:0,142,3:0:0:142,3:5089,108:-457.801,-42.7463,0,-448.988,-33.9041,-448.085 1/2:44:0,29,15:0:0:29,15:1036,528:-127.806,-43.3356,-34.6057,-84.824,0,-80.3086 1/2:104:0,48,56:0:0:48,56:1697,1956:-297.669,-159.456,-145.007,-138.565,0,-121.707 1/2:125:0,56,69:0:0:56,69:2012,2441:-363.296,-199.158,-182.3,-164.495,0,-143.724 1/2:146:0,61,85:0:0:61,85:2164,2966:-417.898,-241.586,-223.224,-176.663,0,-151.076 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:5:0,3,2:0:0:3,2:108,54:-13.393,-4.52686,-3.62377,-9.17208,0,-8.57002 1/2:9:0,3,6:0:0:3,6:108,214:-26.6149,-17.8016,-16.8985,-9.17208,0,-7.3659 1/1:76:0,76,0:0:0:76,0:2715,0:-244.593,-22.8783,0,-244.593,-22.8783,-244.593 1/1:80:0,80,0:0:0:80,0:2860,0:-257.638,-24.0824,0,-257.638,-24.0824,-257.638 1/1:148:0,148,0:0:0:148,0:5288,0:-476.053,-44.5524,0,-476.053,-44.5524,-476.053 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 1/2:26:0,10,16:0:0:10,16:360,559:-75.1982,-45.82,-42.8097,-29.734,0,-24.9175 1/2:88:0,40,47:0:0:40,47:1424,1653:-250.66,-134.597,-122.556,-116.105,0,-101.957 1/2:60:0,38,22:0:0:38,22:1356,748:-171.566,-61.0107,-49.5716,-110.901,0,-104.279 1/1:94:0,86,8:0:0:86,8:3056,278:-274.92,-25.8886,0,-252.32,-2.94001,-249.911 1/1:41:1,39,0:1:27:39,0:1392,0:-122.834,-9.65632,0,-123.135,-11.7402,-125.262 chr06 33137738 . A G 14374.3 PASS AB=0.469916;ABP=13.3318;AC=13;AF=0.309524;AN=42;AO=624;CIGAR=1X;DP=2466;DPB=2466;DPRA=0.975;EPP=778.282;EPPR=3036.02;GTI=1;LEN=1;MEANALT=1;MQM=59.5978;MQMR=59.7172;NS=21;NUMALT=1;ODDS=6.2493;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21991;QR=65419;RO=1842;RPL=230;RPP=96.6063;RPPR=13.8747;RPR=394;RUN=1;SAF=306;SAP=3.51141;SAR=318;SRF=992;SRP=26.781;SRR=850;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:52,47:52:1830:47:1665:-120.191,0,-135.171 0/1:81:44,37:44:1561:37:1304:-93.2774,0,-116.387 0/1:92:44,48:44:1571:48:1675:-123.319,0,-113.986 0/0:138:137,1:137:4870:1:36:0,-37.9439,-434.848 0/0:201:198,3:198:7030:3:104:0,-50.8042,-621.66 0/1:79:43,36:43:1532:36:1252:-89.1804,0,-114.384 0/1:192:109,83:109:3885:83:2923:-205.478,0,-292.038 0/1:168:81,87:81:2899:87:3075:-226.396,0,-210.523 0/1:173:89,84:89:3165:84:2993:-217.519,0,-232.962 0/1:19:9,10:9:320:10:347:-25.844,0,-23.4228 0/1:8:6,2:6:212:2:72:-4.42848,0,-17.0166 0/1:30:16,14:16:568:14:486:-35.0371,0,-42.421 0/0:140:140,0:140:4962:0:0:0,-42.1442,-446.117 0/0:156:155,1:155:5501:1:36:0,-43.3675,-491.551 0/0:175:174,1:174:6179:1:36:0,-49.082,-552.536 0/0:69:69,0:69:2448:0:0:0,-20.7711,-220.559 0/1:71:36,35:36:1280:35:1243:-90.7974,0,-94.1301 0/1:155:75,80:75:2636:80:2801:-205.331,0,-190.786 0/1:146:92,54:92:3296:54:1907:-127.95,0,-252.904 0/0:123:122,1:122:4345:1:36:0,-33.4284,-387.559 0/0:151:151,0:151:5329:0:0:0,-45.4555,-479.729 chr06 33137782 . ACCA GCCG,GCCA 24872.3 PASS AB=0.52822,0.468886;ABP=7.79005,8.8208;AC=29,13;AF=0.690476,0.309524;AN=42;AO=862,326;CIGAR=1X2M1X,1X3M;DP=1193;DPB=1193.5;DPRA=0,0.965602;EPP=1874.82,693.645;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.90476,2.14286;MQM=59.6114,59.6963;MQMR=0;NS=21;NUMALT=2;ODDS=3.08911;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=30374,11628;QR=0;RO=0;RPL=862,324;RPP=1874.82,693.645;RPPR=0;RPR=0,2;RUN=1,1;SAF=0,0;SAP=1874.82,710.91;SAR=862,326;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:53:0,29,24:0:0:29,24:1020,852:-152.664,-69.635,-60.9051,-83.382,0,-76.1573 1/2:49:0,27,22:0:0:27,22:951,788:-142.04,-64.6221,-56.4943,-77.7729,0,-71.1502 1/2:59:0,26,33:0:0:26,33:916,1180:-171.064,-96.4909,-88.6642,-74.8701,0,-64.9361 1/1:32:0,32,0:0:0:32,0:1138,0:-102.722,-9.63296,0,-102.722,-9.63296,-102.722 1/1:95:0,93,2:0:0:93,2:3250,72:-292.355,-27.9958,0,-286.48,-21.7611,-285.878 1/2:44:0,22,22:0:0:22,22:769,784:-126.807,-64.2531,-57.6304,-62.9069,0,-56.2843 1/2:97:0,61,36:0:0:61,36:2140,1292:-279.877,-105.739,-87.3757,-174.495,0,-163.658 1/2:91:0,38,51:0:0:38,51:1349,1823:-258.524,-148.656,-137.217,-109.89,0,-94.537 1/2:66:0,38,28:0:0:38,28:1348,1004:-192.049,-82.247,-70.8079,-110.159,0,-101.73 1/2:8:0,2,6:0:0:2,6:71,216:-23.7682,-17.9843,-17.3823,-6.14,0,-4.33382 1/2:5:0,4,1:0:0:4,1:142,36:-14.8636,-3.29724,-2.09312,-11.9252,0,-11.6241 1/2:15:0,7,8:0:0:7,8:249,288:-44.1501,-23.8592,-21.752,-20.6484,0,-18.2402 1/1:51:0,51,0:0:0:51,0:1810,0:-163.168,-15.3525,0,-163.168,-15.3525,-163.168 1/1:79:0,79,0:0:0:79,0:2772,0:-249.654,-23.7814,0,-249.654,-23.7814,-249.654 1/1:114:0,112,0:0:0:112,0:3965,0:-356.645,-33.7154,0,-356.645,-33.7154,-356.645 1/1:25:0,25,0:0:0:25,0:892,0:-80.5255,-7.52575,0,-80.5255,-7.52575,-80.5255 1/2:34:0,18,16:0:0:18,16:644,567:-99.0608,-46.5442,-41.1257,-52.8724,0,-48.0559 1/2:100:0,49,51:0:0:49,51:1745,1816:-290.577,-148.355,-133.605,-142.578,0,-127.226 1/2:70:0,44,26:0:0:44,26:1527,910:-198.508,-74.3873,-61.142,-124.469,0,-116.643 1/1:50:0,49,0:0:0:49,0:1727,0:-155.358,-14.7505,0,-155.358,-14.7505,-155.358 1/1:56:0,56,0:0:0:56,0:1949,0:-175.673,-16.8577,0,-175.673,-16.8577,-175.673 chr06 33417747 . C A 24943.1 PASS AB=0.504752;ABP=3.19603;AC=31;AF=0.738095;AN=42;AO=1210;CIGAR=1X;DP=1683;DPB=1683;DPRA=0;EPP=2630.49;EPPR=1027.95;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.4397;MQMR=59.9852;NS=21;NUMALT=1;ODDS=4.29991;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43343;QR=16940;RO=472;RPL=0;RPP=2630.49;RPPR=1027.95;RPR=1210;RUN=1;SAF=1210;SAP=2630.49;SAR=0;SRF=472;SRP=1027.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:53,53:53:1900:53:1904:-139.729,0,-139.369 0/1:94:49,45:49:1756:45:1612:-116.677,0,-130.027 0/1:68:29,39:29:1040:39:1396:-105.415,0,-73.4443 1/1:121:0,121:0:0:121:4340:-390.718,-36.4246,0 1/1:165:4,161:4:144:161:5750:-503.408,-36.3563,0 0/1:116:51,65:51:1828:65:2329:-174.371,0,-129.881 0/1:100:54,46:54:1944:46:1652:-118.737,0,-145.133 0/1:86:41,45:41:1468:45:1608:-119.122,0,-106.523 0/1:152:80,72:80:2876:72:2584:-186.214,0,-213.319 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:4:0,4:0:0:4:144:-13.2921,-1.20412,0 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 1/1:125:0,125:0:0:125:4476:-402.212,-37.6288,0 1/1:69:0,69:0:0:69:2430:-218.452,-20.7711,0 1/1:68:0,68:0:0:68:2448:-220.567,-20.47,0 1/1:71:0,71:0:0:71:2548:-229.132,-21.3731,0 0/1:92:51,41:51:1828:41:1476:-105.008,0,-137.106 0/1:52:26,26:26:936:26:934:-68.5957,0,-68.9059 0/1:72:28,43:28:1004:43:1544:-117.516,0,-68.943 1/1:56:0,56:0:0:56:2012:-181.259,-16.8577,0 1/1:49:0,49:0:0:49:1760:-158.665,-14.7505,0 chr06 33417754 . GG AA,GA 35323.1 PASS AB=0.500525,0.495278;ABP=3.01258,3.19486;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1215,476;CIGAR=2X,1M1X;DP=1695;DPB=1695;DPRA=0,1.46087;EPP=2641.35,1036.63;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.7619,2.33333;MQM=59.4189,59.9853;MQMR=0;NS=21;NUMALT=2;ODDS=4.11581;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42734,16992;QR=0;RO=0;RPL=0,0;RPP=2641.35,1036.63;RPPR=0;RPR=1215,476;RUN=1,1;SAF=1215,476;SAP=2641.35,1036.63;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,53,55:0:0:53,55:1877,1961:-313.104,-160.207,-144.252,-153.252,0,-136.696 1/2:96:0,47,49:0:0:47,49:1640,1745:-275.671,-142.582,-128.433,-133.441,0,-118.69 1/2:67:0,39,28:0:0:39,28:1352,993:-191.086,-81.2537,-69.5135,-110.184,0,-101.755 1/1:121:0,121,0:0:0:121,0:4220,0:-379.943,-36.4246,0,-379.943,-36.4246,-379.943 1/1:167:0,163,4:0:0:163,4:5701,144:-512.172,-49.0679,0,-500.422,-36.9584,-499.218 1/2:116:0,64,51:0:0:64,51:2223,1806:-327.28,-147.139,-127.873,-180.165,0,-164.812 1/2:99:0,45,53:0:0:45,53:1590,1904:-284.682,-155.323,-141.777,-129.355,0,-113.4 1/2:86:0,45,41:0:0:45,41:1598,1460:-249.56,-119.352,-105.806,-130.564,0,-118.222 1/2:153:0,71,81:0:0:71,81:2503,2904:-440.452,-236.98,-215.607,-203.594,0,-179.211 1/1:9:0,9,0:0:0:9,0:322,0:-29.3242,-2.70927,0,-29.3242,-2.70927,-29.3242 1/1:4:0,4,0:0:0:4,0:142,0:-13.1077,-1.20412,0,-13.1077,-1.20412,-13.1077 1/2:9:0,3,6:0:0:3,6:104,216:-26.4333,-17.9843,-17.0812,-8.79993,0,-6.99375 1/1:126:0,126,0:0:0:126,0:4438,0:-398.797,-37.9298,0,-398.797,-37.9298,-398.797 1/1:70:0,70,0:0:0:70,0:2462,0:-221.671,-21.0721,0,-221.671,-21.0721,-221.671 1/1:68:0,68,0:0:0:68,0:2384,0:-214.809,-20.47,0,-214.809,-20.47,-214.809 1/1:72:0,72,0:0:0:72,0:2530,0:-226.657,-21.6742,0,-226.657,-21.6742,-226.657 1/2:94:0,40,53:0:0:40,53:1404,1889:-267.882,-154.05,-142.009,-113.902,0,-97.9473 1/2:52:0,26,26:0:0:26,26:930,928:-151.717,-76.0115,-68.1847,-76.0621,0,-68.2354 1/2:73:0,44,29:0:0:44,29:1576,1042:-213.888,-85.3648,-72.1195,-128.882,0,-120.152 1/1:55:0,55,0:0:0:55,0:1948,0:-175.574,-16.5567,0,-175.574,-16.5567,-175.574 1/1:50:0,50,0:0:0:50,0:1790,0:-161.364,-15.0515,0,-161.364,-15.0515,-161.364 chr06 33437288 . T A 5695.29 PASS AB=0.512859;ABP=3.9597;AC=13;AF=0.309524;AN=42;AO=347;CIGAR=1X;DP=1167;DPB=1167;DPRA=1.05421;EPP=756.511;EPPR=1783.62;GTI=0;LEN=1;MEANALT=1;MQM=59.9827;MQMR=59.9488;NS=21;NUMALT=1;ODDS=10.862;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12419;QR=29350;RO=820;RPL=347;RPP=756.511;RPPR=1783.62;RPR=0;RUN=1;SAF=347;SAP=756.511;SAR=0;SRF=820;SRP=1783.62;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:35,18:35:1260:18:648:-42.6973,0,-97.7509 0/1:42:18,24:18:640:24:864:-65.4393,0,-45.2861 0/1:72:32,40:32:1143:40:1413:-105.791,0,-81.5045 0/0:51:51,0:51:1815:0:0:0,-15.3525,-163.631 0/0:104:99,5:99:3564:5:180:0,-14.7551,-304.414 0/1:47:23,24:23:828:24:856:-63.2127,0,-60.6957 0/1:105:47,58:47:1679:58:2076:-155.502,0,-119.788 0/1:46:25,21:25:900:21:745:-53.5268,0,-67.4736 0/1:89:31,58:31:1116:58:2084:-161.038,0,-73.96 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:24:8,16:8:288:16:576:-44.9503,0,-19.0427 0/0:60:60,0:60:2143:0:0:0,-18.0618,-193.137 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.353 0/0:81:78,3:78:2781:3:108:0,-14.3083,-240.454 0/0:43:43,0:43:1526:0:0:0,-12.9443,-137.632 0/1:29:10,19:10:360:19:684:-53.1605,0,-24.0144 0/1:100:56,44:56:2012:44:1573:-111.757,0,-150.313 0/1:37:28,9:28:996:9:324:-18.3677,0,-78.8168 0/0:67:67,0:67:2395:0:0:0,-20.169,-215.806 0/0:44:44,0:44:1568:0:0:0,-13.2453,-141.408 chr06 33437428 . GTTGTTTTTTTTTGGC GTTGTTTTTGGC,ATTGTTTTTGGC 20294.3 PASS AB=0.473404,0.521277;ABP=6.47542,5.22797;AC=29,13;AF=0.690476,0.309524;AN=42;AO=745,299;CIGAR=4M4D8M,1X3M4D8M;DP=1052;DPB=789;DPRA=0,1.0411;EPP=1620.76,643.624;EPPR=0;GTI=0;LEN=4,12;MEANALT=2.09524,2.33333;MQM=59.9919,58.3411;MQMR=0;NS=21;NUMALT=2;ODDS=13.0332;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24588,10594;QR=0;RO=0;RPL=0,1;RPP=1620.76,643.624;RPPR=0;RPR=745,298;RUN=1,1;SAF=0,0;SAP=1620.76,652.281;SAR=745,299;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,26,33:0:0:26,33:860,1175:-165.608,-96.0764,-88.2496,-69.8732,0,-59.9393 1/2:44:0,22,22:0:0:22,22:748,786:-125.085,-64.4225,-57.7999,-61.0106,0,-54.3879 1/2:27:0,15,12:0:0:15,12:532,416:-77.5058,-34.1582,-29.6428,-43.6976,0,-40.0853 1/1:67:0,65,0:0:0:65,0:2190,0:-196.996,-19.567,0,-196.996,-19.567,-196.996 1/1:143:0,139,2:0:0:139,2:4576,72:-411.673,-41.8432,0,-405.798,-35.9409,-405.196 1/2:46:0,25,21:0:0:25,21:832,749:-128.596,-61.2849,-53.7591,-67.656,0,-61.3344 1/2:77:0,36,40:0:0:36,40:1234,1413:-214.912,-114.737,-103.9,-100.307,0,-88.2655 1/2:20:0,13,7:0:0:13,7:449,246:-56.8041,-20.3287,-16.4153,-36.8241,0,-34.7169 1/2:74:0,34,39:0:0:34,39:1159,1380:-206.314,-112.288,-102.053,-94.0522,0,-82.312 1/2:7:0,3,4:0:0:3,4:108,143:-20.8306,-12.0173,-11.1142,-9.17208,0,-7.96796 1/2:11:0,6,5:0:0:6,5:193,174:-30.0314,-14.4878,-12.6816,-15.8794,0,-14.3743 1/2:28:0,7,21:0:0:7,21:229,754:-80.3507,-61.8634,-59.7562,-18.8223,0,-12.5007 1/1:66:0,65,0:0:0:65,0:2132,0:-191.772,-19.567,0,-191.772,-19.567,-191.772 1/1:42:0,42,0:0:0:42,0:1390,0:-125.382,-12.6433,0,-125.382,-12.6433,-125.382 1/1:37:0,37,0:0:0:37,0:1251,0:-112.881,-11.1381,0,-112.881,-11.1381,-112.881 1/1:27:0,27,0:0:0:27,0:892,0:-80.579,-8.12781,0,-80.579,-8.12781,-80.579 1/2:65:0,26,39:0:0:26,39:875,1381:-183.691,-112.806,-104.98,-71.2275,0,-59.4873 1/2:63:0,27,36:0:0:27,36:922,1282:-179.599,-104.787,-96.6592,-75.1593,0,-64.3222 1/2:43:0,27,15:0:0:27,15:750,521:-101.722,-42.4055,-34.2777,-59.4291,0,-54.9137 1/1:53:0,50,3:0:0:50,3:1603,102:-144.198,-15.0515,0,-135.924,-6.43821,-135.02 1/1:53:0,53,0:0:0:53,0:1663,0:-149.937,-15.9546,0,-149.937,-15.9546,-149.937 chr06 33452894 . T A 5571.79 PASS AB=0.473965;ABP=7.41993;AC=13;AF=0.309524;AN=42;AO=358;CIGAR=1X;DP=1273;DPB=1273;DPRA=0.961497;EPP=780.397;EPPR=1989.91;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9792;NS=21;NUMALT=1;ODDS=5.59212;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12567;QR=32608;RO=915;RPL=0;RPP=780.397;RPPR=1989.91;RPR=358;RUN=1;SAF=0;SAP=780.397;SAR=358;SRF=0;SRP=1989.91;SRR=915;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:22,27:22:780:27:917:-68.0844,0,-55.7726 0/1:34:20,14:20:716:14:495:-34.648,0,-54.5327 0/1:119:78,41:78:2775:41:1423:-92.5396,0,-214.169 0/0:56:55,1:55:1972:1:36:0,-13.2594,-174.157 0/0:103:103,0:103:3679:0:0:0,-31.0061,-331.313 0/1:32:18,14:18:648:14:477:-33.6202,0,-49.0189 0/1:68:33,35:33:1184:35:1225:-90.0816,0,-86.3983 0/1:70:26,44:26:904:44:1555:-119.169,0,-60.5998 0/1:93:48,45:48:1681:45:1603:-116.564,0,-123.578 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:25:12,13:12:428:13:432:-31.6719,0,-31.3331 0/0:53:53,0:53:1888:0:0:0,-15.9546,-170.198 0/0:52:52,0:52:1853:0:0:0,-15.6536,-167.048 0/0:93:93,0:93:3318:0:0:0,-27.9958,-298.838 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:56:22,34:22:792:34:1204:-91.8082,0,-54.748 0/1:146:80,66:80:2860:66:2336:-166.55,0,-213.581 0/1:41:27,14:27:964:14:504:-33.3559,0,-74.7346 0/0:94:92,2:92:3275:2:72:0,-21.4601,-288.134 0/0:54:54,0:54:1923:0:0:0,-16.2556,-173.346 chr06 33461206 . ATCC GTCG 38619.3 PASS AB=0.48558;ABP=5.70316;AC=29;AF=0.690476;AN=42;AO=1910;CIGAR=1X2M1X;DP=2688;DPB=2688;DPRA=0;EPP=4150.52;EPPR=1662.02;GTI=1;LEN=4;MEANALT=1.61905;MQM=59.9372;MQMR=59.9712;NS=21;NUMALT=1;ODDS=2.39329;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67310;QR=26883;RO=764;RPL=0;RPP=4150.52;RPPR=1662.02;RPR=1910;RUN=1;SAF=1910;SAP=4150.52;SAR=0;SRF=764;SRP=1662.02;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:72,66:72:2539:66:2312:-166.797,0,-187.22 0/1:99:50,48:50:1762:48:1699:-123.332,0,-129.071 0/1:101:53,48:53:1871:48:1676:-120.719,0,-138.265 1/1:111:0,109:0:0:109:3830:-344.594,-32.8123,0 1/1:218:1,212:1:30:212:7491:-671.21,-61.4261,0 0/1:138:66,72:66:2334:72:2569:-189.918,0,-168.777 0/1:171:90,81:90:3160:81:2853:-205.534,0,-233.154 0/1:140:71,68:71:2499:68:2402:-174.233,0,-182.903 0/1:256:142,112:142:4986:112:3961:-279.932,0,-372.145 0/1:24:10,14:10:353:14:504:-38.4734,0,-24.8841 0/1:11:2,9:2:72:9:316:-25.4672,0,-3.52539 0/1:57:41,16:41:1456:16:568:-34.2879,0,-114.177 1/1:133:0,133:0:0:133:4692:-422.445,-40.037,0 1/1:115:0,114:0:0:114:3982:-358.108,-34.3174,0 1/1:244:0,244:0:0:244:8590:-773.108,-73.4513,0 1/1:149:0,149:0:0:149:5269:-474.349,-44.8535,0 0/1:96:43,52:43:1519:52:1823:-135.297,0,-108.045 0/1:185:93,92:93:3272:92:3269:-238.74,0,-239.014 0/1:75:29,46:29:997:46:1564:-118.469,0,-67.4611 1/1:146:1,144:1:33:144:5091:-455.025,-40.6951,0 1/1:81:0,81:0:0:81:2849:-256.647,-24.3834,0 chr06 33665821 . AC TT,AT 44948.7 PASS AB=0.435795,0.563403;ABP=47.6248,46.5164;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1277,708;CIGAR=2X,1M1X;DP=1987;DPB=1988.5;DPRA=0,0.924828;EPP=2741.35,1523.09;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.90476,2.05882;MQM=59.545,59.8503;MQMR=0;NS=21;NUMALT=2;ODDS=19.6978;PAIRED=0,0;PAIREDR=0;PAO=1.5,0.5;PQA=54,18;PQR=0;PRO=0;QA=44976,25176;QR=0;RO=0;RPL=1273,507;RPP=2741.35,290.197;RPPR=0;RPR=4,201;RUN=1,1;SAF=1277,509;SAP=2775.98,297.754;SAR=0,199;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:90:0,40,50:0:0:40,50:1419,1784:-261.351,-145.744,-133.703,-115.962,0,-100.91 1/2:52:0,23,29:0:0:23,29:811,1040:-151.131,-85.1362,-78.2125,-66.3496,0,-57.6197 1/2:113:0,33,80:0:0:33,80:1177,2835:-327.247,-231.305,-221.371,-96.2981,0,-72.2157 1/1:109:0,108,0:0:0:108,0:3826,0:-344.161,-32.5112,0,-344.161,-32.5112,-344.161 1/1:117:0,114,3:0:0:114,3:4045,100:-363.761,-34.3174,0,-355.668,-25.8901,-354.765 1/2:52:0,31,21:0:0:31,21:1095,737:-149.504,-60.329,-50.9971,-89.5271,0,-83.2055 1/2:138:0,79,59:0:0:79,59:2775,2105:-397.675,-171.918,-148.136,-226.111,0,-208.35 1/2:148:0,54,94:0:0:54,94:1899,3356:-428.373,-273.961,-257.705,-154.766,0,-126.469 1/2:172:0,62,110:0:0:62,110:2127,3897:-490.349,-317.683,-299.019,-173.013,0,-139.899 1/2:19:0,10,9:0:0:10,9:343,320:-54.2738,-26.4331,-23.4228,-28.1902,0,-25.4809 1/2:9:0,5,4:0:0:5,4:180,144:-26.7883,-12.1095,-10.6043,-15.0386,0,-13.8345 1/2:12:0,6,6:0:0:6,6:216,216:-35.6088,-17.9843,-16.1782,-17.9843,0,-16.1782 1/1:35:0,35,0:0:0:35,0:1241,0:-111.99,-10.5361,0,-111.99,-10.5361,-111.99 1/1:50:0,49,1:0:0:49,1:1728,36:-155.423,-14.7505,0,-152.485,-11.4532,-152.184 1/1:203:0,203,0:0:0:203,0:7164,0:-644.786,-61.1091,0,-644.786,-61.1091,-644.786 1/1:56:0,56,0:0:0:56,0:1999,0:-180.125,-16.8577,0,-180.125,-16.8577,-180.125 1/2:84:0,31,53:0:0:31,53:1076,1887:-241.579,-154.153,-144.821,-87.7762,0,-71.8216 1/2:242:0,108,133:0:0:108,133:3748,4742:-691.165,-386.542,-354.03,-304.625,0,-264.588 1/2:115:0,61,54:0:0:61,54:2142,1905:-329.789,-155.47,-137.107,-174.671,0,-158.415 1/1:93:0,92,1:0:0:92,1:3269,36:-294.045,-27.6948,0,-291.107,-24.3975,-290.806 1/1:78:0,77,1:0:0:77,1:2696,36:-242.416,-23.1793,0,-239.479,-19.8821,-239.177 chr06 33685493 . AGCTA GGCTA,GGCTG 120776 PASS AB=0.54025,0.456627;ABP=43.5645,50.1016;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4323,1341;CIGAR=1X4M,1X3M1X;DP=5696;DPB=5696;DPRA=0,1.41292;EPP=9381.6,2914.95;EPPR=0;GTI=1;LEN=1,5;MEANALT=3.14286,3.11111;MQM=59.9697,59.7472;MQMR=0;NS=21;NUMALT=2;ODDS=19.5107;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=154392,47354;QR=0;RO=0;RPL=1,0;RPP=9381.6,2914.95;RPPR=0;RPR=4322,1341;RUN=1,1;SAF=4323,1341;SAP=9390.29,2914.95;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:387:0,237,149:0:0:237,149:8462,5268:-1118.95,-429.102,-357.758,-689.951,0,-645.098 1/2:319:0,150,168:0:0:150,168:5350,5925:-918.479,-482.356,-437.202,-436.117,0,-385.544 1/2:192:0,97,95:0:0:97,95:3473,3362:-557.415,-274.191,-244.991,-283.58,0,-254.982 1/1:356:0,351,1:0:0:351,1:12585,36:-1132.11,-105.662,0,-1129.18,-102.724,-1128.88 1/1:773:0,752,14:0:0:752,14:26832,502:-2413.76,-226.375,0,-2372.82,-185.402,-2368.6 1/2:425:0,212,209:0:0:212,209:7612,7393:-1223.1,-602.156,-538.338,-620.963,0,-558.048 1/2:300:0,184,116:0:0:184,116:6540,4094:-866.65,-333.712,-278.323,-533.292,0,-498.372 1/2:217:0,116,100:0:0:116,100:4104,3538:-622.373,-288.159,-253.24,-334.207,0,-304.104 1/2:468:0,243,224:0:0:243,224:8691,7873:-1349.46,-640.801,-567.65,-708.657,0,-641.226 1/2:14:0,9,5:0:0:9,5:324,163:-39.9441,-13.4856,-10.7763,-26.7966,0,-25.2914 1/2:24:0,12,12:0:0:12,12:432,430:-70.6776,-35.4277,-31.8154,-35.6088,0,-31.9965 1/2:92:0,27,65:0:0:27,65:964,2303:-266.54,-187.947,-179.819,-78.949,0,-59.3821 1/1:565:0,562,2:0:0:562,2:20092,72:-1807.36,-169.179,0,-1801.48,-163.304,-1800.88 1/1:271:0,266,2:0:0:266,2:9439,55:-849.154,-80.074,0,-844.807,-75.7526,-844.205 1/1:280:0,277,0:0:0:277,0:9917,0:-892.062,-83.3853,0,-892.062,-83.3853,-892.062 1/1:249:0,245,0:0:0:245,0:8756,0:-787.707,-73.7524,0,-787.707,-73.7524,-787.707 1/2:258:0,154,104:0:0:154,104:5505,3683:-749.222,-300.361,-254.002,-449.217,0,-417.91 1/2:77:0,35,42:0:0:35,42:1256,1482:-223.476,-121.023,-110.487,-102.809,0,-90.166 1/2:109:0,81,27:0:0:81,27:2901,959:-314.724,-78.1385,-53.7551,-236.582,0,-228.454 1/1:248:0,242,6:0:0:242,6:8609,216:-774.444,-72.8493,0,-756.82,-54.8649,-755.013 1/1:72:0,71,0:0:0:71,0:2548,0:-229.211,-21.3731,0,-229.211,-21.3731,-229.211 chr06 33685646 . C T 30001.9 PASS AB=0.508505;ABP=3.71209;AC=29;AF=0.690476;AN=42;AO=1544;CIGAR=1X;DP=2095;DPB=2095;DPRA=0;EPP=3355.76;EPPR=1197.32;GTI=0;LEN=1;MEANALT=1.04762;MQM=40.1541;MQMR=42.5327;NS=21;NUMALT=1;ODDS=14.2865;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55321;QR=19650;RO=550;RPL=1544;RPP=3355.76;RPPR=1197.32;RPR=0;RUN=1;SAF=0;SAP=3355.76;SAR=1544;SRF=0;SRP=1197.32;SRR=550;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:63,55:63:2252:55:1968:-135.958,0,-163.634 0/1:104:50,54:50:1775:54:1932:-129.777,0,-121.997 0/1:94:46,48:46:1652:48:1724:-120.506,0,-117.48 1/1:72:0,72:0:0:72:2584:-223.294,-21.6742,0 1/1:261:0,260:0:0:260:9328:-806.828,-78.2678,0 0/1:71:39,32:39:1385:32:1144:-74.1146,0,-98.4337 0/1:143:61,82:61:2196:82:2940:-202.096,0,-145.555 0/1:100:66,34:66:2348:34:1216:-74.6136,0,-175.097 0/1:134:64,70:64:2292:70:2489:-178.797,0,-163.865 0/1:27:11,16:11:396:16:576:-40.9523,0,-26.9861 0/1:9:6,3:6:216:3:108:-6.65994,0,-16.1678 0/1:21:12,9:12:428:9:324:-21.7519,0,-31.4303 1/1:113:0,113:0:0:113:4055:-352.705,-34.0164,0 1/1:120:0,120:0:0:120:4276:-366.627,-36.1236,0 1/1:190:0,190:0:0:190:6807:-589.33,-57.1957,0 1/1:109:0,109:0:0:109:3912:-339.466,-32.8123,0 0/1:107:31,76:31:1112:76:2722:-205.28,0,-66.2514 0/1:127:77,50:77:2747:50:1792:-113.685,0,-200.883 0/1:62:23,39:23:815:39:1404:-101.318,0,-53.6281 1/1:62:1,61:1:36:61:2192:-184.26,-15.1612,0 1/1:51:0,51:0:0:51:1828:-151.576,-15.3525,0 chr06 33685664 . T C 8543.35 PASS AB=0.489705;ABP=4.03869;AC=13;AF=0.309524;AN=42;AO=548;CIGAR=1X;DP=2094;DPB=2094;DPRA=0.641767;EPP=1192.98;EPPR=3357.94;GTI=0;LEN=1;MEANALT=1;MQM=42.4325;MQMR=40.1547;NS=21;NUMALT=1;ODDS=14.1117;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19591;QR=55224;RO=1545;RPL=548;RPP=1192.98;RPPR=3357.94;RPR=0;RUN=1;SAF=0;SAP=1192.98;SAR=548;SRF=0;SRP=3357.94;SRR=1545;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:57,63:57:2052:63:2240:-161.945,0,-141.538 0/1:102:52,50:52:1860:50:1796:-124.013,0,-124.395 0/1:95:49,46:49:1748:46:1652:-117.202,0,-122.412 0/0:73:73,0:73:2612:0:0:0,-21.9752,-225.643 0/0:261:260,0:260:9285:0:0:0,-78.2678,-804.076 0/1:73:34,39:34:1212:39:1400:-98.2933,0,-79.3349 0/1:145:82,63:82:2920:63:2237:-148.747,0,-200.267 0/1:98:34,64:34:1207:64:2304:-171.582,0,-74.6254 0/1:135:69,66:69:2453:66:2345:-168.007,0,-175.394 0/1:26:15,11:15:525:11:381:-25.9189,0,-37.3671 0/1:9:3,6:3:108:6:216:-16.1678,0,-6.65994 0/1:19:9,10:9:324:10:360:-25.8496,0,-22.354 0/0:114:114,0:114:4061:0:0:0,-34.3174,-353.068 0/0:119:119,0:119:4280:0:0:0,-35.8226,-365.792 0/0:190:190,0:190:6796:0:0:0,-57.1957,-588.459 0/0:109:109,0:109:3900:0:0:0,-32.8123,-338.855 0/1:107:76,31:76:2713:31:1108:-65.9079,0,-204.15 0/1:126:51,75:51:1836:75:2692:-196.399,0,-117.613 0/1:62:39,23:39:1400:23:824:-54.4016,0,-101.045 0/0:60:59,1:59:2096:1:36:0,-14.5591,-176.566 0/0:51:51,0:51:1836:0:0:0,-15.3525,-151.856 chr06 33772630 . A C,T 135548 PASS AB=0.624341,0.375659;ABP=334.033,334.033;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4077,940;CIGAR=1X,1X;DP=5018;DPB=5018;DPRA=0,0.87753;EPP=8856.1,2044.19;EPPR=5.18177;GTI=3;LEN=1,1;MEANALT=1.80952,2;MQM=59.5543,58.117;MQMR=60;NS=21;NUMALT=2;ODDS=2.16222;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=144161,33388;QR=36;RO=1;RPL=1852,383;RPP=77.1125,72.9502;RPPR=5.18177;RPR=2225,557;RUN=1,1;SAF=1852,383;SAP=77.1125,72.9502;SAR=2225,557;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:257:0,186,71:0:0:186,71:6552,2517:-738.387,-205.039,-149.047,-533.701,0,-512.328 1/2:147:0,128,19:0:0:128,19:4576,680:-428.803,-55.747,-17.2151,-373.413,0,-367.694 1/2:286:0,130,156:0:0:130,156:4608,5543:-826.721,-451.338,-412.204,-375.738,0,-328.777 1/1:269:1,268,0:1:36:268,0:9439,0:-845.735,-77.3788,0,-846.036,-80.676,-848.973 1/1:715:0,708,7:0:0:708,7:25060,239:-2252.71,-213.129,0,-2233.32,-193.398,-2231.21 1/2:183:0,101,82:0:0:101,82:3541,2917:-525.997,-237.899,-207.495,-288.451,0,-263.766 1/2:335:0,202,133:0:0:202,133:7170,4706:-967.475,-383.471,-322.663,-584.358,0,-544.321 1/2:196:0,129,67:0:0:129,67:4553,2374:-563.135,-192.405,-153.573,-371.082,0,-350.913 1/2:455:0,263,192:0:0:263,192:9270,6850:-1311.74,-557.076,-477.906,-755.015,0,-697.217 1/2:28:0,19,9:0:0:19,9:671,320:-81.0505,-26.4265,-20.7069,-54.9786,0,-52.2693 1/2:8:0,3,5:0:0:3,5:104,180:-23.4924,-15.0441,-14.141,-8.79971,0,-7.29456 1/2:53:0,25,28:0:0:25,28:887,987:-152.82,-80.5509,-73.0252,-72.6224,0,-64.1935 1/1:372:0,372,0:0:0:372,0:13145,0:-1182.59,-111.983,0,-1182.59,-111.983,-1182.59 1/1:319:0,318,1:0:0:318,1:11248,36:-1011.38,-95.7275,0,-1008.45,-92.4303,-1008.14 1/1:289:0,289,0:0:0:289,0:10254,0:-922.151,-86.9977,0,-922.151,-86.9977,-922.151 1/1:235:0,234,1:0:0:234,1:8287,36:-745.364,-70.441,0,-742.427,-67.1438,-742.126 1/2:140:0,117,23:0:0:117,23:4134,816:-402.92,-66.8333,-31.6128,-336.441,0,-329.517 1/2:196:0,102,94:0:0:102,94:3587,3323:-562.827,-270.916,-240.21,-292.264,0,-263.967 1/2:181:0,134,47:0:0:134,47:4773,1684:-526.508,-137.578,-97.24,-389.288,0,-375.139 1/1:223:0,218,5:0:0:218,5:7708,180:-693.302,-65.6245,0,-678.618,-50.5808,-677.113 1/1:131:0,131,0:0:0:131,0:4594,0:-413.435,-39.4349,0,-413.435,-39.4349,-413.435 chr06 33772647 . G A 47070.5 PASS AB=0.618919;ABP=184.804;AC=29;AF=0.690476;AN=42;AO=2258;CIGAR=1X;DP=2830;DPB=2830;DPRA=0;EPP=4897.51;EPPR=1236.42;GTI=3;LEN=1;MEANALT=1;MQM=59.5948;MQMR=57.2727;NS=21;NUMALT=1;ODDS=6.81771;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80422;QR=20296;RO=572;RPL=1;RPP=4897.51;RPPR=1227.78;RPR=2257;RUN=1;SAF=0;SAP=4906.2;SAR=2258;SRF=1;SRP=1236.42;SRR=571;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:207:53,154:53:1896:154:5509:-433.537,0,-108.234 0/1:81:8,73:8:288:73:2620:-211.646,0,-1.82084 0/1:188:105,83:105:3727:83:2971:-211.018,0,-278.39 1/1:181:0,181:0:0:181:6453:-580.775,-54.4864,0 1/1:327:4,323:4:144:323:11473:-1018.07,-85.1295,0 0/1:141:64,77:64:2275:77:2738:-204.206,0,-162.456 0/1:142:69,73:69:2410:73:2594:-190.866,0,-174.264 0/1:145:50,95:50:1779:95:3376:-260.405,0,-116.674 0/1:256:106,150:106:3781:150:5347:-404.229,0,-263.251 0/1:21:5,16:5:176:16:576:-45.8357,0,-9.85712 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.5672 0/1:28:14,14:14:504:14:496:-36.5454,0,-37.1136 1/1:206:0,206:0:0:206:7282:-654.902,-62.0122,0 1/1:205:0,205:0:0:205:7310:-657.848,-61.7112,0 1/1:115:0,115:0:0:115:4085:-367.798,-34.6185,0 1/1:132:0,132:0:0:132:4734:-426.203,-39.736,0 0/1:79:14,65:14:496:65:2323:-185.391,0,-21.1881 0/1:83:45,38:45:1590:38:1364:-98.0752,0,-118.348 0/1:104:28,76:28:982:76:2708:-212.609,0,-57.2933 1/1:109:3,106:3:108:106:3779:-330.238,-22.7403,0 1/1:75:1,74:1:32:74:2612:-231.945,-19.3779,0 chr06 33772661 . ATTTTGTTA ATTTTTGTTA 7710.73 PASS AB=0.381254;ABP=176.803;AC=12;AF=0.285714;AN=42;AO=554;CIGAR=1M1I8M;DP=2883;DPB=2944.89;DPRA=0.83469;EPP=1206.01;EPPR=4943.56;GTI=2;LEN=1;MEANALT=1.4;MQM=57.3105;MQMR=59.6417;NS=21;NUMALT=1;ODDS=1.47459;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19617;QR=82103;RO=2319;RPL=554;RPP=1206.01;RPPR=4943.56;RPR=0;RUN=1;SAF=0;SAP=1206.01;SAR=554;SRF=0;SRP=5038.65;SRR=2319;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:215:161,53:161:5706:53:1873:-103.847,0,-448.971 0/0:84:76,7:76:2703:7:252:0,-2.31734,-220.472 0/1:188:85,102:85:3030:102:3617:-268.539,0,-216.278 0/0:185:184,0:184:6520:0:0:0,-55.3895,-586.618 0/0:334:328,4:328:11602:4:144:0,-86.9308,-1029.35 0/1:142:81,60:81:2876:60:2136:-149.58,0,-216.261 0/1:141:75,66:75:2649:66:2337:-168.018,0,-196.121 0/1:153:105,48:105:3691:48:1697:-106.892,0,-286.34 0/1:258:153,105:153:5394:105:3692:-254.645,0,-407.887 0/1:21:16,5:16:561:5:180:-10.2232,0,-44.4796 0/1:6:3,3:3:107:3:108:-8.26617,0,-8.17599 0/1:27:14,13:14:495:13:456:-33.1328,0,-36.7564 0/0:209:208,0:208:7344:0:0:0,-62.6142,-659.806 0/0:216:216,0:216:7626:0:0:0,-65.0225,-686.324 0/0:115:114,0:114:4036:0:0:0,-34.3174,-363.057 0/0:132:132,0:132:4700:0:0:0,-39.736,-423.151 0/1:80:65,14:65:2305:14:488:-20.1218,0,-183.589 0/1:84:40,44:40:1433:44:1565:-115.793,0,-103.982 0/1:104:76,28:76:2692:28:1000:-58.9143,0,-211.17 0/0:112:110,2:110:3912:2:72:0,-26.8819,-345.443 0/0:77:77,0:77:2721:0:0:0,-23.1793,-245.111 chr06 33801626 . T A 38532.1 PASS AB=0.515232;ABP=6.05324;AC=30;AF=0.714286;AN=42;AO=2008;CIGAR=1X;DP=2758;DPB=2758;DPRA=0;EPP=4363.33;EPPR=1631.61;GTI=0;LEN=1;MEANALT=1;MQM=59.7415;MQMR=54.6733;NS=21;NUMALT=1;ODDS=0.212504;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68695;QR=26084;RO=750;RPL=0;RPP=4363.33;RPPR=1631.61;RPR=2008;RUN=1;SAF=0;SAP=4363.33;SAR=2008;SRF=0;SRP=1631.61;SRR=750;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:212:101,111:101:3529:111:3848:-282.538,0,-251.581 0/1:140:67,73:67:2297:73:2481:-181.395,0,-163.981 0/1:94:48,46:48:1679:46:1594:-115.39,0,-122.831 1/1:152:0,152:0:0:152:5167:-465.182,-45.7566,0 1/1:268:1,267:1:36:267:9128:-816.311,-77.0778,0 0/1:128:69,59:69:2413:59:2062:-147.319,0,-177.375 0/1:238:132,106:132:4534:106:3587:-251.4,0,-334.808 0/1:161:69,92:69:2414:92:3142:-234.517,0,-167.805 0/1:284:132,152:132:4596:152:5262:-387.197,0,-325.377 0/1:17:9,8:9:316:8:262:-18.7811,0,-23.5452 0/1:7:2,5:2:64:5:158:-12.4246,0,-3.96627 1/1:13:0,13:0:0:13:460:-41.7345,-3.91339,0 1/1:126:1,125:1:36:125:4320:-385.383,-34.3315,0 1/1:118:1,117:1:36:117:4010:-357.488,-31.9284,0 1/1:241:3,238:3:104:238:8075:-717.09,-62.8488,0 1/1:135:0,135:0:0:135:4615:-415.505,-40.6391,0 0/1:132:65,67:65:2282:67:2313:-168.693,0,-165.587 0/1:45:19,26:19:664:26:881:-66.0526,0,-46.3814 0/1:52:19,33:19:668:33:1132:-86.5273,0,-44.698 1/1:161:11,150:11:380:150:5065:-421.506,-13.9626,0 1/1:34:1,33:1:36:33:1133:-98.6681,-6.63675,0 chr06 33801638 . TTGGA TTGGG,ATGGG 58307.5 PASS AB=0.506133,0.482892;ABP=3.51637,6.94811;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2057,757;CIGAR=4M1X,1X3M1X;DP=2848;DPB=2848;DPRA=0,0.935602;EPP=4469.73,1646.81;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=3,3.30769;MQM=59.8017,54.8309;MQMR=60;NS=21;NUMALT=2;ODDS=1.03592;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72968,25737;QR=36;RO=1;RPL=0,0;RPP=4469.73,1646.81;RPPR=5.18177;RPR=2057,757;RUN=1,1;SAF=0,0;SAP=4469.73,1646.81;SAR=2057,757;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:213:0,108,100:0:0:108,100:3858,3369:-586.937,-272.547,-240.036,-314.405,0,-284.302 1/2:144:0,73,69:0:0:73,69:2596,2379:-404.317,-192.755,-170.78,-211.682,0,-190.911 1/2:95:0,46,49:0:0:46,49:1589,1686:-266.149,-137.056,-123.208,-129.438,0,-114.688 1/1:163:0,162,0:0:0:162,0:5737,0:-516.161,-48.7669,0,-516.161,-48.7669,-516.161 1/1:286:0,282,0:0:0:282,0:10006,0:-900.099,-84.8905,0,-900.099,-84.8905,-900.099 1/2:129:0,60,68:0:0:60,68:2137,2257:-356.304,-182.114,-164.052,-174.185,0,-153.715 1/2:247:0,110,137:0:0:110,137:3878,4666:-693.089,-377.341,-344.228,-316.094,0,-274.853 1/2:168:0,92,75:0:0:92,75:3263,2554:-472.472,-206.628,-178.934,-265.958,0,-243.381 1/2:289:0,150,133:0:0:150,133:5349,4551:-804.556,-368.534,-323.38,-436.097,0,-396.06 1/2:17:0,8,8:0:0:8,8:284,266:-44.7363,-21.5813,-19.1731,-23.2422,0,-20.834 1/2:8:0,6,2:0:0:6,2:212,72:-23.4826,-6.22164,-4.41546,-17.6186,0,-17.0166 1/1:14:0,14,0:0:0:14,0:504,0:-45.6972,-4.21442,0,-45.6972,-4.21442,-45.6972 1/1:127:0,125,0:0:0:125,0:4451,0:-400.41,-37.6288,0,-400.41,-37.6288,-400.41 1/1:113:0,112,0:0:0:112,0:3920,0:-352.62,-33.7154,0,-352.62,-33.7154,-352.62 1/1:251:1,248,0:1:36:248,0:8799,0:-788.284,-71.7114,0,-788.585,-74.6554,-791.522 1/1:142:0,138,0:0:0:138,0:4916,0:-442.209,-41.5421,0,-442.209,-41.5421,-442.209 1/2:138:0,70,68:0:0:70,68:2483,2317:-390.328,-188.024,-166.952,-202.652,0,-182.182 1/2:46:0,26,19:0:0:26,19:924,652:-128.111,-52.8081,-44.9813,-75.3011,0,-69.5815 1/2:55:0,35,20:0:0:35,20:1242,652:-154.129,-52.9173,-42.3813,-101.548,0,-95.5271 1/1:169:0,158,9:0:0:158,9:5605,316:-504.22,-47.5627,0,-478.526,-21.8111,-475.817 1/1:34:0,34,0:0:0:34,0:1215,0:-109.65,-10.235,0,-109.65,-10.235,-109.65 chr06 33801651 . G A 12160.3 PASS AB=0.486166;ABP=5.53367;AC=12;AF=0.285714;AN=42;AO=747;CIGAR=1X;DP=2783;DPB=2783;DPRA=0.942955;EPP=1625.1;EPPR=4404.6;GTI=0;LEN=1;MEANALT=1.07692;MQM=54.7068;MQMR=59.7857;NS=21;NUMALT=1;ODDS=0.891171;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26614;QR=71690;RO=2035;RPL=0;RPP=1625.1;RPPR=4404.6;RPR=747;RUN=1;SAF=0;SAP=1625.1;SAR=747;SRF=0;SRP=4421.96;SRR=2035;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:206:108,98:108:3786:98:3480:-249.631,0,-278.89 0/1:142:73,69:73:2571:69:2468:-178.503,0,-188.894 0/1:92:43,49:43:1512:49:1750:-129.856,0,-108.626 0/0:155:155,0:155:5471:0:0:0,-46.6596,-492.511 0/0:276:276,0:276:9658:0:0:0,-83.0843,-869.093 0/1:123:57,66:57:2032:66:2357:-174.9,0,-146.126 0/1:249:110,139:110:3863:139:4933:-367.535,0,-272.904 0/1:164:90,73:90:3178:73:2595:-183.072,0,-236.791 0/1:285:155,130:155:5465:130:4617:-328.858,0,-406.167 0/1:16:8,8:8:279:8:286:-21.1743,0,-20.6301 0/1:8:6,2:6:212:2:72:-4.41546,0,-17.0166 0/0:14:14,0:14:491:0:0:0,-4.21442,-44.5202 0/0:126:126,0:126:4427:0:0:0,-37.9298,-398.604 0/0:118:118,0:118:4167:0:0:0,-35.5215,-375.191 0/0:243:243,0:243:8571:0:0:0,-73.1503,-771.376 0/0:134:134,0:134:4779:0:0:0,-40.338,-430.239 0/1:135:68,67:68:2386:67:2404:-175.155,0,-174.356 0/1:45:26,19:26:927:19:680:-47.8037,0,-70.201 0/1:53:35,18:35:1231:18:648:-42.58,0,-95.1363 0/0:166:157,9:157:5513:9:324:0,-20.4955,-466.805 0/0:33:33,0:33:1171:0:0:0,-9.93399,-105.691 chr06 33802442 . A C,T 32547.6 PASS AB=0.506821,0.49213;ABP=3.39538,3.52298;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1085,478;CIGAR=1X,1X;DP=1564;DPB=1564;DPRA=19.5,0.931139;EPP=2359.06,1040.97;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.75,1.9375;MQM=59.9982,59.9937;MQMR=60;NS=21;NUMALT=2;ODDS=7.938;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38624,16755;QR=36;RO=1;RPL=0,0;RPP=2359.06,1040.97;RPPR=5.18177;RPR=1085,478;RUN=1,1;SAF=0,0;SAP=2359.06,1040.97;SAR=1085,478;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,50,63:0:0:50,63:1784,2163:-321.408,-175.967,-160.916,-145.791,0,-126.826 1/2:83:0,43,40:0:0:43,40:1548,1411:-241.558,-115.245,-102.301,-126.669,0,-114.628 1/2:54:0,27,27:0:0:27,27:959,951:-155.921,-77.7765,-69.6487,-78.4976,0,-70.3698 1/1:74:0,74,0:0:0:74,0:2627,0:-236.678,-22.2762,0,-236.678,-22.2762,-236.678 1/1:152:0,152,0:0:0:152,0:5439,0:-489.639,-45.7566,0,-489.639,-45.7566,-489.639 1/2:58:0,25,33:0:0:25,33:896,1172:-168.931,-95.8535,-88.3278,-73.4346,0,-63.5006 1/2:160:1,71,88:1:36:71,88:2531,3102:-455.634,-249.622,-231.186,-203.371,0,-179.818 1/2:73:0,35,38:0:0:35,38:1252,1339:-211.464,-109.37,-98.8341,-102.449,0,-91.0099 1/2:153:0,94,59:0:0:94,59:3317,2058:-437.831,-167.73,-139.433,-270.451,0,-252.69 1/2:18:0,9,9:0:0:9,9:324,315:-52.4197,-25.978,-23.2687,-26.7966,0,-24.0873 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:32:0,14,18:0:0:14,18:504,627:-92.4648,-51.3359,-47.1214,-41.4837,0,-36.0651 1/1:46:0,44,2:0:0:44,2:1572,72:-141.412,-13.2453,0,-135.537,-7.01066,-134.935 1/1:27:0,27,0:0:0:27,0:966,0:-87.2572,-8.12781,0,-87.2572,-8.12781,-87.2572 1/1:106:0,104,2:0:0:104,2:3699,68:-332.771,-31.3071,0,-327.255,-25.4515,-326.653 1/1:104:0,104,0:0:0:104,0:3679,0:-331.312,-31.3071,0,-331.312,-31.3071,-331.312 1/2:80:0,30,50:0:0:30,50:1067,1747:-229.419,-142.462,-133.431,-87.3103,0,-72.2588 1/2:102:0,65,37:0:0:65,37:2319,1307:-295.841,-106.793,-87.2257,-189.403,0,-178.265 1/2:27:0,20,7:0:0:20,7:707,252:-78.4976,-20.9217,-14.9011,-57.934,0,-55.8268 1/1:62:0,61,1:0:0:61,1:2151,27:-193.583,-18.3628,0,-191.456,-15.9641,-191.155 1/1:36:0,36,0:0:0:36,0:1283,0:-115.773,-10.8371,0,-115.773,-10.8371,-115.773 chr06 33802487 . T C 21999.7 PASS AB=0.489362;ABP=3.98053;AC=28;AF=0.666667;AN=42;AO=1091;CIGAR=1X;DP=1603;DPB=1603;DPRA=15.98;EPP=2372.09;EPPR=1114.8;GTI=1;LEN=1;MEANALT=1;MQM=59.9982;MQMR=59.9707;NS=21;NUMALT=1;ODDS=4.78751;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38969;QR=18304;RO=512;RPL=1091;RPP=2372.09;RPPR=1114.8;RPR=0;RUN=1;SAF=0;SAP=2372.09;SAR=1091;SRF=0;SRP=1114.8;SRR=512;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:67,50:67:2404:50:1792:-126.342,0,-181.396 0/1:86:43,43:43:1513:43:1539:-112.914,0,-110.573 0/1:59:30,29:30:1065:29:1029:-75.1604,0,-78.399 1/1:72:0,72:0:0:72:2584:-232.809,-21.6742,0 1/1:155:0,155:0:0:155:5514:-496.386,-46.6597,0 0/1:60:35,25:35:1256:25:900:-63.2592,0,-95.2835 0/1:167:94,73:94:3361:73:2600:-183.975,0,-252.433 0/1:73:38,35:38:1360:35:1260:-91.7303,0,-100.725 0/1:157:65,92:65:2336:92:3285:-248.607,0,-163.238 0/1:19:10,9:10:360:9:324:-23.7863,0,-26.9795 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:31:18,13:18:644:13:468:-33.1277,0,-48.9587 1/1:48:0,48:0:0:48:1720:-155.086,-14.4494,0 1/1:27:0,27:0:0:27:955:-86.264,-8.12781,0 1/1:106:2,104:2:72:104:3736:-329.603,-25.0725,0 1/1:105:0,105:0:0:105:3734:-336.261,-31.6082,0 0/1:89:58,31:58:2069:31:1108:-73.2393,0,-159.687 0/1:103:39,64:39:1400:64:2291:-175.445,0,-95.2931 0/1:26:7,19:7:252:19:665:-52.346,0,-15.2022 1/1:61:1,60:1:36:60:2137:-188.999,-14.7646,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 chr06 33813734 . T C 11037.9 PASS AB=0.538977;ABP=18.753;AC=13;AF=0.309524;AN=42;AO=644;CIGAR=1X;DP=2177;DPB=2177;DPRA=0.755479;EPP=1401.44;EPPR=3331.88;GTI=0;LEN=1;MEANALT=1;MQM=59.9829;MQMR=60;NS=21;NUMALT=1;ODDS=19.6052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22941;QR=54789;RO=1533;RPL=0;RPP=1401.44;RPPR=3331.88;RPR=644;RUN=1;SAF=644;SAP=1401.44;SAR=0;SRF=1533;SRP=3331.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:52,54:52:1864:54:1924:-141.528,0,-136.13 0/1:109:33,76:33:1180:76:2697:-210.162,0,-73.6958 0/1:104:48,56:48:1720:56:1999:-148.876,0,-123.778 0/0:140:140,0:140:5000:0:0:0,-42.1442,-450.146 0/0:187:187,0:187:6692:0:0:0,-56.2926,-602.357 0/1:163:78,85:78:2808:85:3052:-225.841,0,-203.891 0/1:140:70,70:70:2476:70:2508:-183.828,0,-180.948 0/1:95:40,55:40:1428:55:1952:-147.358,0,-100.22 0/1:152:54,98:54:1944:98:3471:-266.83,0,-129.479 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:39:13,26:13:468:26:928:-72.0981,0,-30.7195 0/0:152:152,0:152:5448:0:0:0,-45.7566,-490.448 0/0:59:59,0:59:2087:0:0:0,-17.7608,-188.1 0/0:222:222,0:222:7936:0:0:0,-66.8287,-714.263 0/0:51:51,0:51:1824:0:0:0,-15.3525,-164.441 0/1:95:38,57:38:1364:57:2032:-154.555,0,-94.4629 0/1:88:58,30:58:2076:30:1065:-69.67,0,-160.62 0/1:84:59,25:59:2103:25:881:-54.3202,0,-164.252 0/0:117:116,1:116:4144:1:36:0,-31.6222,-369.546 0/0:56:56,0:56:1975:0:0:0,-16.8577,-178.022 chr06 33813773 . G A 29998.6 PASS AB=0.525574;ABP=17.1157;AC=13;AF=0.309524;AN=42;AO=1317;CIGAR=1X;DP=4553;DPB=4553;DPRA=1.39472;EPP=2854.16;EPPR=7029.9;GTI=0;LEN=1;MEANALT=1;MQM=59.9916;MQMR=59.9932;NS=21;NUMALT=1;ODDS=39.1526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46655;QR=114794;RO=3236;RPL=647;RPP=3.88252;RPPR=42.3089;RPR=670;RUN=1;SAF=648;SAP=3.73742;SAR=669;SRF=1497;SRP=42.3089;SRR=1739;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:244:103,141:103:3643:141:5020:-378.499,0,-254.624 0/1:194:72,122:72:2554:122:4289:-327.791,0,-171.71 0/1:243:110,133:110:3925:133:4706:-350.555,0,-280.292 0/0:243:243,0:243:8629:0:0:0,-73.1503,-776.61 0/0:442:440,2:440:15653:2:72:0,-126.219,-1401.64 0/1:310:160,150:160:5698:150:5340:-387.418,0,-419.621 0/1:310:141,169:141:5019:169:5955:-442.747,0,-358.537 0/1:246:115,131:115:4086:131:4671:-346.497,0,-293.872 0/1:289:123,166:123:4391:166:5838:-438.541,0,-308.366 0/1:27:17,10:17:590:10:347:-23.4358,0,-45.2964 0/1:13:4,9:4:140:9:316:-24.8655,0,-9.03119 0/1:88:42,46:42:1508:46:1627:-120.228,0,-109.524 0/0:307:306,1:306:10844:1:36:0,-88.8179,-972.27 0/0:179:177,2:177:6233:2:72:0,-47.0476,-554.235 0/0:443:441,2:441:15656:2:68:0,-126.899,-1402.29 0/0:143:143,0:143:5081:0:0:0,-43.0473,-457.434 0/1:176:72,104:72:2560:104:3695:-279.773,0,-177.67 0/1:177:103,74:103:3624:74:2640:-184.565,0,-272.896 0/1:166:116,50:116:4084:50:1792:-111.591,0,-317.777 0/0:213:208,5:208:7360:5:171:0,-48.3939,-646.727 0/0:100:100,0:100:3516:0:0:0,-30.103,-316.653 chr06 33857253 . C T 29043.3 PASS AB=0.458059;ABP=21.5892;AC=30;AF=0.714286;AN=42;AO=1431;CIGAR=1X;DP=2099;DPB=2099;DPRA=0;EPP=3058.49;EPPR=1365.83;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9804;MQMR=59.9925;NS=21;NUMALT=1;ODDS=1.60753;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50897;QR=23772;RO=667;RPL=1425;RPP=3058.49;RPPR=1365.83;RPR=6;RUN=1;SAF=1431;SAP=3110.39;SAR=0;SRF=667;SRP=1451.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:194:71,123:71:2527:123:4381:-336.064,0,-169.282 0/1:102:55,47:55:1955:47:1675:-120.331,0,-145.52 0/1:100:59,41:59:2099:41:1472:-102.673,0,-159.076 1/1:98:0,98:0:0:98:3498:-315.03,-29.5009,0 1/1:224:2,222:2:72:222:7870:-701.467,-60.594,0 0/1:108:41,66:41:1453:66:2337:-178.019,0,-98.494 0/1:215:131,84:131:4675:84:2967:-202.544,0,-356.191 0/1:113:75,38:75:2661:38:1351:-87.8732,0,-205.719 0/1:130:77,53:77:2743:53:1880:-130.345,0,-207.979 0/1:27:14,13:14:500:13:449:-32.6097,0,-37.2084 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:59:31,28:31:1116:28:1008:-73.2756,0,-82.9909 1/1:79:0,79:0:0:79:2831:-255.028,-23.7814,0 1/1:116:1,115:1:36:115:4106:-366.127,-31.3212,0 1/1:134:3,131:3:108:131:4657:-409.218,-30.2629,0 1/1:69:0,69:0:0:69:2457:-221.383,-20.7711,0 0/1:125:68,57:68:2444:57:2044:-146.603,0,-182.583 0/1:32:26,6:26:919:6:216:-10.1576,0,-73.3932 0/1:11:10,1:10:356:1:36:-0.286945,0,-29.0699 1/1:145:3,142:3:108:142:5018:-441.693,-33.5742,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 chr06 33857333 . ATTA ATTTT,ATTT 18757.2 PASS AB=0.319328,0.680672;ABP=171.71,171.71;AC=29,13;AF=0.690476,0.309524;AN=42;AO=507,416;CIGAR=1M1I2M1X,3M1X;DP=924;DPB=1050.75;DPRA=0,2.15;EPP=1103.95,906.343;EPPR=0;GTI=4;LEN=5,1;MEANALT=2,2.05;MQM=59.9901,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.26166;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17876,14826;QR=0;RO=0;RPL=0,0;RPP=1103.95,906.343;RPPR=0;RPR=507,416;RUN=1,1;SAF=0,0;SAP=1103.95,906.343;SAR=507,416;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:0,18,26:0:0:18,26:628,936:-127.806,-76.7327,-71.3141,-51.4267,0,-43.5999 1/2:72:0,32,40:0:0:32,40:1124,1421:-207.627,-116.144,-106.511,-91.8352,0,-79.794 1/2:34:0,8,26:0:0:8,26:273,936:-98.8806,-76.7327,-74.3244,-22.4934,0,-14.6666 1/1:32:0,31,1:0:0:31,1:1104,36:-99.3111,-9.33193,0,-96.3735,-6.03469,-96.0725 1/1:79:0,78,1:0:0:78,1:2724,36:-245.045,-23.4803,0,-242.108,-20.1831,-241.807 1/2:78:0,30,48:0:0:30,48:1063,1690:-224.53,-137.933,-128.902,-86.9504,0,-72.5009 1/2:80:0,21,59:0:0:21,59:741,2082:-230.222,-169.886,-163.565,-60.6888,0,-42.928 1/2:28:0,6,22:0:0:6,22:212,792:-82.247,-64.983,-63.1768,-17.6186,0,-10.996 1/2:88:0,22,66:0:0:22,66:779,2342:-254.625,-191.169,-184.546,-63.81,0,-43.9421 1/2:6:0,2,4:0:0:2,4:68,144:-17.6186,-12.1095,-11.5074,-5.85565,0,-4.65153 1/2:8:0,1,7:0:0:1,7:36,252:-23.8592,-20.9217,-20.6207,-3.29724,0,-1.19003 1/2:24:0,7,17:0:0:7,17:244,612:-70.1364,-50.2959,-48.1887,-20.1922,0,-15.0747 1/1:21:0,21,0:0:0:21,0:750,0:-67.8259,-6.32163,0,-67.8259,-6.32163,-67.8259 1/1:24:0,23,1:0:0:23,1:825,35:-74.2236,-6.92369,0,-71.3762,-3.72609,-71.0751 1/1:34:0,33,1:0:0:33,1:1167,36:-104.977,-9.93399,0,-102.039,-6.63675,-101.738 1/1:44:0,42,1:0:0:42,1:1483,36:-133.447,-12.6433,0,-130.509,-9.66092,-130.208 1/2:61:0,24,37:0:0:24,37:861,1324:-178.553,-108.324,-101.099,-70.5876,0,-59.4494 1/2:38:0,8,30:0:0:8,30:288,1080:-111.982,-88.4823,-86.0741,-23.8592,0,-14.8283 1/2:34:0,11,23:0:0:11,23:393,820:-99.2414,-67.1988,-63.8875,-32.3995,0,-25.4758 1/1:78:0,73,5:0:0:73,5:2540,180:-228.492,-21.9752,0,-213.805,-6.92828,-212.299 1/1:17:0,16,1:0:0:16,1:573,36:-51.5444,-4.81648,0,-48.6068,-1.51924,-48.3058 chr06 33867583 . 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T C 19098.3 PASS AB=0.527961;ABP=7.13895;AC=29;AF=0.690476;AN=42;AO=929;CIGAR=1X;DP=1221;DPB=1221;DPRA=0;EPP=2011.63;EPPR=637.08;GTI=1;LEN=1;MEANALT=1;MQM=59.9892;MQMR=60;NS=21;NUMALT=1;ODDS=5.35813;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32844;QR=10308;RO=292;RPL=1;RPP=2011.63;RPPR=637.08;RPR=928;RUN=1;SAF=0;SAP=2020.31;SAR=929;SRF=0;SRP=637.08;SRR=292;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:28,43:28:1000:43:1523:-115.989,0,-68.9422 0/1:27:18,9:18:644:9:320:-21.0145,0,-50.1628 0/1:48:26,22:26:920:22:757:-53.9965,0,-68.6676 1/1:77:0,77:0:0:77:2738:-246.662,-23.1793,0 1/1:133:0,133:0:0:133:4687:-421.993,-40.037,0 0/1:96:38,58:38:1326:58:2031:-154.161,0,-90.7392 0/1:74:31,43:31:1075:43:1525:-115.266,0,-74.7784 0/1:38:28,10:28:983:10:352:-20.5791,0,-77.3434 0/1:102:58,44:58:2064:44:1567:-110.616,0,-155.326 0/1:7:5,2:5:180:2:68:-4.3505,0,-14.4449 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:18:10,8:10:356:8:284:-20.4848,0,-26.9627 1/1:137:1,136:1:36:136:4834:-431.619,-37.6428,0 1/1:68:0,68:0:0:68:2390:-215.358,-20.47,0 1/1:76:0,76:0:0:76:2673:-240.816,-22.8783,0 1/1:32:0,32:0:0:32:1129:-101.916,-9.63296,0 0/1:34:17,17:17:589:17:604:-44.4556,0,-43.0983 0/1:50:20,30:20:707:30:1063:-80.9293,0,-48.9031 0/1:38:5,33:5:176:33:1155:-92.8164,0,-4.74588 1/1:64:4,60:4:144:60:2148:-180.274,-5.9523,0 1/1:26:0,26:0:0:26:924:-83.4777,-7.82678,0 chr06 34234183 . G A 8033.88 PASS AB=0.380506;ABP=135.344;AC=13;AF=0.309524;AN=42;AO=413;CIGAR=1X;DP=2108;DPB=2108;DPRA=0.974462;EPP=82.5556;EPPR=85.8086;GTI=2;LEN=1;MEANALT=1.05882;MQM=58.8668;MQMR=59.9911;NS=21;NUMALT=1;ODDS=1.39496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14765;QR=60375;RO=1692;RPL=145;RPP=82.5556;RPPR=85.8086;RPR=268;RUN=1;SAF=0;SAP=899.828;SAR=413;SRF=0;SRP=3677.14;SRR=1692;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:55,52:55:1972:52:1860:-135.403,0,-145.545 0/1:115:73,42:73:2599:42:1512:-101.735,0,-199.54 0/1:98:55,43:55:1964:43:1540:-109.37,0,-147.534 0/0:179:178,1:178:6329:1:32:0,-50.6898,-566.509 0/0:177:174,3:174:6214:3:108:0,-43.5904,-549.659 0/1:61:37,22:37:1294:22:784:-52.7104,0,-98.6394 0/1:124:89,35:89:3159:35:1228:-73.4015,0,-247.209 0/1:107:73,34:73:2619:34:1216:-77.2057,0,-203.746 0/1:89:60,29:60:2144:29:1044:-67.4323,0,-166.436 0/1:15:12,3:12:432:3:108:-5.55972,0,-34.7057 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:38:25,13:25:883:13:468:-31.0205,0,-68.3483 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.624 0/0:180:180,0:180:6395:0:0:0,-54.1854,-575.642 0/0:195:194,1:194:6960:1:36:0,-55.1026,-622.865 0/0:91:91,0:91:3244:0:0:0,-27.3937,-292.182 0/1:130:82,48:82:2931:48:1716:-115.398,0,-224.89 0/1:117:55,62:55:1972:62:2217:-163.479,0,-142.534 0/1:58:39,19:39:1392:19:680:-44.045,0,-108.119 0/0:80:78,2:78:2800:2:72:0,-17.2457,-245.403 0/0:51:50,0:50:1768:0:0:0,-15.0515,-159.041 chr06 34234193 . GT AT,AC 45334.6 PASS AB=0.607843,0.390289;ABP=111.201,114.98;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1681,425;CIGAR=1X1M,2X;DP=2108;DPB=2108;DPRA=0,0.992429;EPP=3532.67,925.886;EPPR=7.35324;GTI=2;LEN=1,2;MEANALT=1.80952,2;MQM=59.9845,58.8;MQMR=60;NS=21;NUMALT=2;ODDS=4.58805;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60007,14957;QR=72;RO=2;RPL=1667,425;RPP=3532.67,925.886;RPPR=7.35324;RPR=14,0;RUN=1,1;SAF=0,0;SAP=3653.26,925.886;SAR=1681,425;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:2,54,52:2:72:54,52:1925,1862:-302.22,-145.91,-135.529,-151.035,0,-141.256 1/2:112:0,71,41:0:0:71,41:2536,1448:-325.017,-118.254,-96.8807,-207.117,0,-194.775 1/2:98:0,53,45:0:0:53,45:1897,1597:-285.148,-130.451,-114.496,-155.053,0,-141.507 1/1:179:0,178,1:0:0:178,1:6342,36:-570.506,-53.5833,0,-567.579,-50.2979,-567.278 1/1:178:0,175,3:0:0:175,3:6281,92:-565.066,-52.6803,0,-557.709,-45.0156,-556.806 1/2:62:0,37,25:0:0:37,25:1328,890:-181.173,-72.8458,-61.7077,-108.684,0,-101.158 1/2:122:0,86,36:0:0:86,36:3092,1227:-351.993,-99.7206,-73.832,-252.618,0,-241.781 1/2:109:0,74,35:0:0:74,35:2656,1228:-316.614,-99.9571,-77.6808,-217.01,0,-206.473 1/2:89:0,60,29:0:0:60,29:2126,1025:-256.97,-83.7803,-65.7185,-173.543,0,-164.813 1/2:16:0,12,4:0:0:12,4:428,128:-45.5446,-10.6271,-7.01478,-35.2464,0,-34.0423 1/2:8:0,4,4:0:0:4,4:144,140:-23.4953,-11.7407,-10.5366,-12.1095,0,-10.9054 1/2:40:0,25,15:0:0:25,15:881,538:-115.964,-44.2403,-36.7146,-72.0801,0,-67.5647 1/1:87:0,87,0:0:0:87,0:3116,0:-280.667,-26.1896,0,-280.667,-26.1896,-280.667 1/1:179:0,179,0:0:0:179,0:6375,0:-573.838,-53.8844,0,-573.838,-53.8844,-573.838 1/1:196:0,195,1:0:0:195,1:6950,36:-625.204,-58.7009,0,-622.266,-55.4036,-621.965 1/1:87:0,87,0:0:0:87,0:3116,0:-280.666,-26.1896,0,-280.666,-26.1896,-280.666 1/2:134:0,84,50:0:0:84,50:2989,1747:-385.923,-142.32,-117.033,-243.955,0,-228.903 1/2:117:0,54,63:0:0:54,63:1939,2219:-338.972,-180.797,-164.542,-158.531,0,-139.566 1/2:56:0,37,19:0:0:37,19:1332,672:-163.753,-55.0645,-43.9264,-109.044,0,-103.325 1/1:80:0,78,2:0:0:78,2:2752,72:-247.557,-23.4803,0,-241.682,-17.2457,-241.08 1/1:51:0,51,0:0:0:51,0:1802,0:-162.459,-15.3525,0,-162.459,-15.3525,-162.459 chr06 34302150 . G A 23790.6 PASS AB=0.569141;ABP=31.5366;AC=29;AF=0.690476;AN=42;AO=1002;CIGAR=1X;DP=1303;DPB=1303;DPRA=0;EPP=1254.75;EPPR=260.709;GTI=0;LEN=1;MEANALT=1;MQM=59.98;MQMR=60;NS=21;NUMALT=1;ODDS=2.40403;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35671;QR=10775;RO=301;RPL=881;RPP=1254.75;RPPR=260.709;RPR=121;RUN=1;SAF=1002;SAP=2178.83;SAR=0;SRF=301;SRP=656.623;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:27,50:27:963:50:1786:-137.842,0,-63.8066 0/1:41:19,22:19:684:22:773:-57.5473,0,-49.5481 0/1:58:30,28:30:1076:28:1000:-72.8556,0,-79.6931 1/1:58:0,58:0:0:58:2045:-184.319,-17.4597,0 1/1:109:2,107:2:72:107:3827:-337.789,-25.9755,0 0/1:38:18,20:18:644:20:716:-53.3286,0,-46.8515 0/1:81:35,46:35:1256:46:1647:-124.135,0,-88.9619 0/1:105:42,63:42:1504:63:2249:-171.063,0,-104.046 0/1:109:44,65:44:1576:65:2299:-174.359,0,-109.319 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49869 0/1:21:12,9:12:432:9:324:-23.1842,0,-32.8996 1/1:138:0,138:0:0:138:4899:-441.061,-41.5421,0 1/1:71:0,71:0:0:71:2506:-225.788,-21.3731,0 1/1:85:0,85:0:0:85:3036:-273.469,-25.5876,0 1/1:33:0,33:0:0:33:1169:-105.515,-9.93399,0 0/1:32:14,18:14:504:18:630:-47.3929,0,-36.0651 0/1:62:33,29:33:1168:29:1044:-75.6109,0,-86.7634 0/1:50:15,35:15:540:35:1256:-98.2938,0,-33.885 1/1:93:3,90:3:108:90:3213:-279.316,-17.9206,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 chr06 34306983 . C T 12118.6 PASS AB=0.497226;ABP=3.10668;AC=13;AF=0.309524;AN=42;AO=725;CIGAR=1X;DP=2550;DPB=2550;DPRA=1.2439;EPP=1577.33;EPPR=3961.6;GTI=1;LEN=1;MEANALT=1.125;MQM=59.7931;MQMR=59.8113;NS=21;NUMALT=1;ODDS=3.56371;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25964;QR=64838;RO=1823;RPL=725;RPP=1577.33;RPPR=3961.6;RPR=0;RUN=1;SAF=725;SAP=1577.33;SAR=0;SRF=1823;SRP=3961.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:68,80:68:2417:80:2876:-214.517,0,-173.231 0/1:168:81,87:81:2888:87:3104:-228.954,0,-209.581 0/1:146:76,70:76:2712:70:2508:-182.01,0,-200.339 0/0:105:105,0:105:3725:0:0:0,-31.6081,-335.44 0/0:258:253,5:253:9017:5:171:0,-61.9403,-795.449 0/1:95:57,37:57:2027:37:1328:-91.1372,0,-154.045 0/1:202:99,103:99:3531:103:3684:-270.897,0,-257.192 0/1:94:56,38:56:1986:38:1360:-94.4034,0,-150.716 0/1:164:71,93:71:2520:93:3336:-251.086,0,-177.684 0/1:30:15,15:15:532:15:532:-39.1822,0,-39.1822 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49869 0/1:94:44,50:44:1552:50:1800:-133.981,0,-111.675 0/0:106:106,0:106:3777:0:0:0,-31.9092,-340.104 0/0:154:154,0:154:5416:0:0:0,-46.3586,-487.408 0/0:265:263,2:263:9364:2:72:0,-72.9362,-835.847 0/0:101:101,0:101:3607:0:0:0,-30.404,-324.836 0/1:125:61,64:61:2168:64:2300:-169.595,0,-157.756 0/1:106:47,59:47:1688:59:2105:-157.807,0,-120.298 0/1:66:46,20:46:1632:20:716:-44.8993,0,-127.301 0/0:73:71,1:71:2531:1:36:0,-18.4357,-224.443 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 chr06 34307077 . TT TG,CG 45044.9 PASS AB=0.54304,0.456044;ABP=20.5809,21.3366;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1611,500;CIGAR=1M1X,2X;DP=2116;DPB=2116;DPRA=0,1.01776;EPP=3501.25,1080.08;EPPR=9.52472;GTI=1;LEN=1,2;MEANALT=1.80952,2;MQM=59.9857,59.592;MQMR=60;NS=21;NUMALT=2;ODDS=1.57314;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57572,17643;QR=100;RO=3;RPL=0,0;RPP=3501.25,1088.75;RPPR=9.52472;RPR=1611,500;RUN=1,1;SAF=0,1;SAP=3501.25,1080.08;SAR=1611,499;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:94:0,41,53:0:0:41,53:1468,1885:-273.614,-153.897,-141.555,-120.074,0,-104.119 1/2:64:0,36,28:0:0:36,28:1262,989:-183.581,-80.8919,-70.0548,-103.041,0,-94.6125 1/2:106:0,52,54:0:0:52,54:1872,1937:-311.085,-158.339,-142.685,-153.106,0,-136.85 1/1:135:0,134,0:0:0:134,0:4796,0:-431.435,-40.338,0,-431.435,-40.338,-431.435 1/1:327:0,326,1:0:0:326,1:11657,36:-1048.41,-98.1358,0,-1045.47,-94.8385,-1045.17 1/2:107:0,54,53:0:0:54,53:1935,1866:-310.074,-152.259,-136.004,-158.17,0,-142.215 1/2:126:0,53,73:0:0:53,73:1904,2545:-362.62,-207.292,-191.337,-155.683,0,-133.708 1/2:83:0,50,33:0:0:50,33:1792,1157:-240.658,-94.5003,-79.4488,-146.511,0,-136.577 1/2:235:0,136,99:0:0:136,99:4835,3500:-679.356,-285.347,-244.407,-394.363,0,-364.561 1/2:7:0,6,1:0:0:6,1:216,36:-20.9217,-3.29724,-1.49106,-17.9843,0,-17.6833 1/2:10:0,6,4:0:0:6,4:216,134:-28.8254,-11.1859,-9.37975,-17.9843,0,-16.7802 1/2:38:0,12,26:0:0:12,26:432,908:-109.446,-74.1938,-70.5814,-35.6088,0,-27.7821 1/1:132:0,132,0:0:0:132,0:4721,0:-425.049,-39.736,0,-425.049,-39.736,-425.049 1/1:51:2,49,0:2:64:49,0:1755,0:-152.155,-9.27443,0,-152.757,-14.7505,-157.912 1/1:117:0,116,0:0:0:116,0:4137,0:-372.153,-34.9195,0,-372.153,-34.9195,-372.153 1/1:103:0,103,0:0:0:103,0:3688,0:-332.123,-31.0061,0,-332.123,-31.0061,-332.123 1/2:61:1,43,17:1:36:43,17:1536,612:-171.927,-46.9987,-36.9918,-122.292,0,-120.112 1/2:89:0,50,39:0:0:50,39:1788,1356:-256.386,-110.587,-95.5353,-146.151,0,-134.411 1/2:72:0,54,18:0:0:54,18:1932,646:-210.586,-53.0437,-36.7881,-157.901,0,-152.482 1/1:100:0,99,1:0:0:99,1:3534,36:-317.909,-29.802,0,-314.971,-26.5047,-314.67 1/1:59:0,59,0:0:0:59,0:2096,0:-188.91,-17.7608,0,-188.91,-17.7608,-188.91 chr06 34307086 . C T 8000.72 PASS AB=0.453959;ABP=23.0054;AC=13;AF=0.309524;AN=42;AO=495;CIGAR=1X;DP=2099;DPB=2099;DPRA=1.03521;EPP=1069.22;EPPR=3481.71;GTI=1;LEN=1;MEANALT=1.13333;MQM=59.604;MQMR=60;NS=21;NUMALT=1;ODDS=4.28333;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17678;QR=57375;RO=1602;RPL=2;RPP=1060.59;RPPR=3481.71;RPR=493;RUN=1;SAF=1;SAP=1069.22;SAR=494;SRF=0;SRP=3481.71;SRR=1602;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:41,54:41:1476:54:1909:-143.415,0,-104.538 0/1:62:35,27:35:1256:27:968:-68.7451,0,-94.6814 0/1:106:52,54:52:1864:54:1936:-142.598,0,-136.13 0/0:133:133,0:133:4765:0:0:0,-40.037,-429.005 0/0:327:324,1:324:11576:1:36:0,-94.561,-1038.18 0/1:107:54,53:54:1921:53:1900:-139.06,0,-140.955 0/1:127:56,71:56:2012:71:2532:-189.87,0,-143.122 0/1:83:50,33:50:1792:33:1176:-81.1623,0,-136.577 0/1:232:134,98:134:4796:98:3508:-246.03,0,-361.957 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:37:12,25:12:432:25:885:-68.811,0,-28.0831 0/0:131:131,0:131:4708:0:0:0,-39.4349,-423.878 0/0:49:49,0:49:1745:0:0:0,-14.7505,-157.332 0/0:115:115,0:115:4121:0:0:0,-34.6184,-371.072 0/0:99:99,0:99:3555:0:0:0,-29.802,-320.157 0/1:60:44,16:44:1571:16:576:-34.1132,0,-123.619 0/1:88:49,39:49:1756:39:1388:-98.7191,0,-131.833 0/1:73:55,18:55:1976:18:648:-36.6637,0,-156.139 0/0:101:100,1:100:3577:1:36:0,-26.8058,-318.537 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 chr06 34307108 . A G 8048.95 PASS AB=0.457143;ABP=20.32;AC=13;AF=0.309524;AN=42;AO=498;CIGAR=1X;DP=2089;DPB=2089;DPRA=1.01868;EPP=1075.74;EPPR=3457.82;GTI=1;LEN=1;MEANALT=1;MQM=59.6165;MQMR=59.9855;NS=21;NUMALT=1;ODDS=4.15575;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17808;QR=56959;RO=1591;RPL=498;RPP=1084.4;RPPR=3457.82;RPR=0;RUN=1;SAF=1;SAP=1075.74;SAR=497;SRF=0;SRP=3457.82;SRR=1591;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:41,53:41:1476:53:1891:-142.097,0,-104.839 0/1:64:36,28:36:1275:28:1004:-71.3815,0,-95.7864 0/1:104:50,54:50:1792:54:1940:-143.557,0,-130.255 0/0:134:134,0:134:4804:0:0:0,-40.338,-432.515 0/0:317:316,1:316:11335:1:36:0,-91.8282,-1016.2 0/1:107:54,53:54:1904:53:1908:-139.779,0,-139.425 0/1:127:54,73:54:1940:73:2596:-195.62,0,-136.645 0/1:82:49,33:49:1756:33:1180:-81.8236,0,-133.64 0/1:233:135,98:135:4844:98:3500:-245.048,0,-365.973 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:10:6,4:6:212:4:144:-10.3033,0,-16.4145 0/1:37:12,25:12:428:25:881:-68.4602,0,-27.7207 0/0:130:130,0:130:4656:0:0:0,-39.1339,-419.202 0/0:50:50,0:50:1762:0:0:0,-15.0515,-158.859 0/0:114:114,0:114:4096:0:0:0,-34.3174,-368.824 0/0:102:102,0:102:3645:0:0:0,-30.7051,-328.253 0/1:61:44,17:44:1580:17:612:-37.0506,0,-124.129 0/1:89:50,39:50:1791:39:1400:-99.4983,0,-134.68 0/1:70:52,18:52:1864:18:644:-37.2119,0,-146.967 0/0:98:97,1:97:3472:1:36:0,-25.9027,-309.094 0/0:59:59,0:59:2111:0:0:0,-17.7608,-190.258 chr06 34311371 . TGTG AGTT,TGTT 28387.8 PASS AB=0.346651,0.652174;ABP=176.833,174.179;AC=29,13;AF=0.690476,0.309524;AN=42;AO=728,563;CIGAR=1X2M1X,3M1X;DP=1293;DPB=1293;DPRA=0,1.11528;EPP=1583.84,1225.55;EPPR=0;GTI=3;LEN=4,1;MEANALT=1.85714,2.125;MQM=39.1346,59.5009;MQMR=0;NS=21;NUMALT=2;ODDS=2.63922;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25295,20114;QR=0;RO=0;RPL=0,222;RPP=1583.84,57.6288;RPPR=0;RPR=728,341;RUN=1,1;SAF=0,222;SAP=1583.84,57.6288;SAR=728,341;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:82:0,27,55:0:0:27,55:945,1976:-234.774,-161.553,-153.425,-73.5642,0,-57.0076 1/2:44:0,5,39:0:0:5,39:173,1388:-126.665,-113.372,-111.867,-13.6254,0,-1.88523 1/2:59:0,21,38:0:0:21,38:711,1360:-164.625,-111.261,-104.94,-53.694,0,-42.2548 1/1:44:0,44,0:0:0:44,0:1537,0:-132.885,-13.2453,0,-132.885,-13.2453,-132.885 1/1:65:0,63,2:0:0:63,2:2197,72:-187.771,-18.9649,0,-181.895,-12.7302,-181.293 1/2:54:0,13,41:0:0:13,41:453,1459:-153.766,-119.263,-115.35,-34.8376,0,-22.4954 1/2:114:0,26,88:0:0:26,88:904,3156:-326.846,-257.713,-249.887,-69.4683,0,-42.9776 1/2:116:0,45,71:0:0:45,71:1566,2526:-326.397,-206.002,-192.455,-120.736,0,-99.3629 1/2:85:0,41,44:0:0:41,44:1404,1571:-236.06,-128.059,-115.717,-108.341,0,-95.096 1/2:18:0,2,15:0:0:2,15:71,536:-49.2465,-43.6986,-43.0966,-5.53791,0,-1.02246 1/2:5:0,3,2:0:0:3,2:108,72:-14.4655,-6.23466,-5.33157,-8.58219,0,-7.98013 1/2:33:0,13,20:0:0:13,20:456,712:-93.9186,-58.3861,-54.4727,-35.8771,0,-29.8565 1/1:55:0,55,0:0:0:55,0:1941,0:-168.332,-16.5567,0,-168.332,-16.5567,-168.332 1/1:85:0,85,0:0:0:85,0:2925,0:-253.25,-25.5876,0,-253.25,-25.5876,-253.25 1/1:55:0,55,0:0:0:55,0:1914,0:-164.544,-16.5567,0,-164.544,-16.5567,-164.544 1/1:15:0,14,1:0:0:14,1:464,36:-39.0317,-4.21442,0,-36.0919,-0.918181,-35.7908 1/2:32:0,11,21:0:0:11,21:386,748:-91.3612,-61.2662,-57.9548,-30.4388,0,-24.1171 1/2:101:0,36,65:0:0:36,65:1251,2310:-286.219,-188.586,-177.749,-97.9742,0,-78.4073 1/2:108:0,52,56:0:0:52,56:1795,2012:-304.074,-164.486,-148.833,-139.933,0,-123.076 1/1:79:0,73,5:0:0:73,5:2556,180:-220.597,-21.9752,0,-205.913,-7.15923,-204.408 1/1:44:0,44,0:0:0:44,0:1538,0:-128.082,-13.2453,0,-128.082,-13.2453,-128.082 chr06 34311383 . GGATTTCA AGACTTCA,GGACTTCA 28010.2 PASS AB=0.347826,0.640423;ABP=174.179,148.764;AC=29,13;AF=0.690476,0.309524;AN=42;AO=725,553;CIGAR=1X2M1X4M,3M1X4M;DP=1294;DPB=1294;DPRA=0,1.27953;EPP=1577.33,1203.83;EPPR=0;GTI=2;LEN=8,1;MEANALT=2.42857,2.6875;MQM=39.2869,59.7396;MQMR=0;NS=21;NUMALT=2;ODDS=3.57801;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25098,19646;QR=0;RO=0;RPL=0,223;RPP=1577.33,47.9672;RPPR=0;RPR=725,330;RUN=1,1;SAF=0,223;SAP=1577.33,47.9672;SAR=725,330;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:85:0,28,57:0:0:28,57:957,2035:-240.804,-166.258,-157.829,-74.885,0,-57.7263 1/2:46:0,5,40:0:0:5,40:179,1414:-128.789,-115.109,-113.604,-13.6629,0,-1.62172 1/2:58:0,18,37:0:0:18,37:622,1332:-157.088,-108.769,-103.35,-48.3798,0,-37.2417 1/1:44:0,43,0:0:0:43,0:1501,0:-130.094,-12.9443,0,-130.094,-12.9443,-130.094 1/1:65:0,62,2:0:0:62,2:2176,72:-187.381,-18.6639,0,-181.505,-12.7316,-180.903 1/2:52:0,13,39:0:0:13,39:456,1377:-147.259,-112.487,-108.573,-35.109,0,-23.3689 1/2:112:0,26,84:0:0:26,84:900,2938:-307.949,-238.981,-231.154,-68.9445,0,-43.6579 1/2:111:0,45,66:0:0:45,66:1532,2357:-311.601,-192.504,-178.958,-119.436,0,-99.5682 1/2:84:0,42,42:0:0:42,42:1416,1500:-232.794,-122.646,-110.003,-110.489,0,-97.8453 1/2:18:0,2,15:0:0:2,15:72,536:-49.4324,-43.8168,-43.2147,-5.693,0,-1.17755 1/2:4:0,3,1:0:0:3,1:108,36:-11.5249,-3.29724,-2.39415,-8.58219,0,-8.28116 1/2:34:0,13,20:0:0:13,20:456,720:-94.4947,-58.8641,-54.9507,-35.7293,0,-29.7087 1/1:55:0,55,0:0:0:55,0:1951,0:-169.187,-16.5567,0,-169.187,-16.5567,-169.187 1/1:86:0,86,0:0:0:86,0:2937,0:-254.452,-25.8886,0,-254.452,-25.8886,-254.452 1/1:55:0,54,0:0:0:54,0:1859,0:-160.546,-16.2556,0,-160.546,-16.2556,-160.546 1/1:14:0,13,0:0:0:13,0:452,0:-39.1167,-3.91339,0,-39.1167,-3.91339,-39.1167 1/2:31:0,11,20:0:0:11,20:392,716:-89.2878,-58.7458,-55.4345,-30.8895,0,-24.8689 1/2:105:0,37,67:0:0:37,67:1296,2380:-295.156,-193.928,-182.79,-101.212,0,-81.0435 1/2:111:0,53,57:0:0:53,57:1816,2017:-305.735,-164.384,-148.429,-141.441,0,-124.282 1/1:79:0,74,4:0:0:74,4:2603,144:-225.091,-22.2762,0,-213.34,-10.4706,-212.136 1/1:45:0,42,2:0:0:42,2:1417,72:-120.086,-12.6433,0,-114.226,-6.7043,-113.623 chr06 34376321 . GCCTT GCTT 25349.8 PASS AB=0.481557;ABP=5.89373;AC=29;AF=0.690476;AN=42;AO=1276;CIGAR=1M1D3M;DP=1801;DPB=1544.8;DPRA=0;EPP=2747.81;EPPR=1075.87;GTI=0;LEN=1;MEANALT=1.7619;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.33998;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44642;QR=17699;RO=506;RPL=3;RPP=2747.81;RPPR=1093.11;RPR=1273;RUN=1;SAF=0;SAP=2773.81;SAR=1276;SRF=2;SRP=1084.47;SRR=504;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:55,55:55:1897:55:1932:-141.041,0,-137.892 0/1:93:34,59:34:1180:59:2046:-156.411,0,-78.5082 0/1:58:39,18:39:1359:18:640:-40.411,0,-105.089 1/1:131:1,129:1:36:129:4532:-404.527,-35.8205,0 1/1:175:4,169:4:144:169:5949:-522.216,-39.1011,0 0/1:82:35,45:35:1217:45:1541:-114.532,0,-85.3901 0/1:167:86,81:86:3030:81:2849:-206.375,0,-222.661 0/1:45:34,9:34:1201:9:305:-14.4769,0,-95.0914 0/1:144:90,51:90:3158:51:1793:-118.928,0,-241.728 0/1:5:3,2:3:94:2:72:-5.33157,0,-7.26586 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:23:8,15:8:286:15:536:-41.6511,0,-19.1619 1/1:117:1,115:1:36:115:4028:-359.109,-31.681,0 1/1:96:0,96:0:0:96:3344:-301.177,-28.8989,0 1/1:74:1,71:1:36:71:2517:-223.218,-18.4174,0 1/1:76:0,75:0:0:75:2634:-237.094,-22.5773,0 0/1:60:33,26:33:1167:26:901:-63.3975,0,-87.3332 0/1:82:56,25:56:1946:25:892:-55.8566,0,-150.672 0/1:103:19,83:19:660:83:2884:-228.728,0,-28.6583 1/1:103:3,100:3:108:100:3468:-302.256,-20.9309,0 1/1:53:1,51:1:36:51:1743:-153.596,-12.3652,0 chr06 34412363 . C T 3710.27 PASS AB=0.463646;ABP=13.9043;AC=13;AF=0.309524;AN=42;AO=446;CIGAR=1X;DP=1872;DPB=1872;DPRA=0.684093;EPP=971.487;EPPR=3090.85;GTI=1;LEN=1;MEANALT=1;MQM=28.2623;MQMR=59.6732;NS=21;NUMALT=1;ODDS=5.32234;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15864;QR=50852;RO=1426;RPL=0;RPP=971.487;RPPR=3073.53;RPR=446;RUN=1;SAF=0;SAP=971.487;SAR=446;SRF=2;SRP=3082.18;SRR=1424;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:45,52:45:1612:52:1841:-102.337,0,-116.167 0/1:89:60,29:60:2156:29:1009:-35.9914,0,-166.294 0/1:70:34,36:34:1215:36:1282:-69.583,0,-88.5837 0/0:106:104,2:104:3727:2:72:0,-27.1552,-330.87 0/0:203:203,0:203:7211:0:0:0,-61.1091,-648.53 0/1:61:41,20:41:1459:20:701:-27.2093,0,-113.193 0/1:150:68,82:68:2432:82:2925:-136.81,0,-173.956 0/1:39:25,14:25:887:14:504:-23.0096,0,-68.4079 0/1:130:65,65:65:2270:65:2321:-141.494,0,-165.414 0/1:20:5,15:5:172:15:540:-30.4418,0,-9.79044 0/1:5:1,4:1:36:4:144:-7.79078,0,-2.09312 0/1:29:18,11:18:648:11:396:-18.6322,0,-49.9205 0/0:127:127,0:127:4523:0:0:0,-38.2308,-407.188 0/0:86:85,1:85:3035:1:36:0,-22.9858,-270.373 0/0:144:141,3:141:5039:3:108:0,-34.7956,-444.951 0/0:102:102,0:102:3647:0:0:0,-30.7051,-328.41 0/1:60:35,25:35:1247:25:881:-51.1607,0,-94.4723 0/1:110:53,57:53:1883:57:2040:-103.705,0,-136.633 0/1:89:59,30:59:2116:30:1064:-49.7541,0,-163.912 0/0:102:102,0:102:3660:0:0:0,-30.7051,-329.563 0/0:53:53,0:53:1877:0:0:0,-15.9546,-169.202 chr06 34412387 . C T 3894.11 PASS AB=0.465213;ABP=13.1326;AC=13;AF=0.309524;AN=42;AO=452;CIGAR=1X;DP=1902;DPB=1902;DPRA=0.694915;EPP=975.849;EPPR=3106.19;GTI=1;LEN=1;MEANALT=1.0625;MQM=28.4801;MQMR=59.3271;NS=21;NUMALT=1;ODDS=5.45015;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16128;QR=51671;RO=1449;RPL=451;RPP=975.849;RPPR=3106.19;RPR=1;RUN=1;SAF=0;SAP=984.516;SAR=452;SRF=0;SRP=3149.47;SRR=1449;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:44,52:44:1565:52:1840:-103.716,0,-112.238 0/1:93:62,31:62:2216:31:1112:-40.6007,0,-170.49 0/1:73:36,37:36:1269:37:1328:-72.8001,0,-91.9773 0/0:109:107,2:107:3809:2:72:0,-28.0582,-338.217 0/0:207:207,0:207:7400:0:0:0,-62.3132,-662.103 0/1:59:39,20:39:1396:20:717:-27.9345,0,-108.129 0/1:156:74,82:74:2622:82:2938:-135.408,0,-188.113 0/1:40:27,13:27:956:13:464:-20.172,0,-74.3127 0/1:136:68,67:68:2425:67:2370:-144.159,0,-176.646 0/1:19:4,15:4:129:15:540:-30.7429,0,-6.20175 0/1:5:1,4:1:36:4:144:-7.79078,0,-2.09312 0/1:30:18,12:18:644:12:428:-20.7196,0,-49.2582 0/0:128:128,0:128:4566:0:0:0,-38.5318,-409.871 0/0:91:90,1:90:3201:1:36:0,-24.491,-284.693 0/0:149:148,1:148:5265:1:28:0,-42.0542,-468.981 0/0:99:99,0:99:3564:0:0:0,-29.802,-320.942 0/1:61:35,26:35:1248:26:936:-54.7806,0,-94.262 0/1:108:50,58:50:1796:58:2061:-106.07,0,-129.41 0/1:87:56,31:56:1985:31:1114:-53.3482,0,-152.728 0/0:103:103,0:103:3688:0:0:0,-31.0061,-332.05 0/0:53:53,0:53:1891:0:0:0,-15.9546,-170.456 chr06 34414231 . A G 5955.24 PASS AB=0.49534;ABP=3.15198;AC=13;AF=0.309524;AN=42;AO=378;CIGAR=1X;DP=1341;DPB=1341;DPRA=1.21876;EPP=823.827;EPPR=2094.14;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.78275;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13244;QR=34254;RO=963;RPL=378;RPP=823.827;RPPR=2094.14;RPR=0;RUN=1;SAF=378;SAP=823.827;SAR=0;SRF=963;SRP=2094.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:24,33:24:860:33:1165:-87.9963,0,-60.5631 0/1:42:15,27:15:536:27:960:-74.073,0,-35.9316 0/1:109:63,46:63:2251:46:1626:-113.815,0,-170.04 0/0:57:57,0:57:2035:0:0:0,-17.1587,-183.422 0/0:143:141,2:141:5006:2:68:0,-36.5896,-444.233 0/1:42:21,21:21:739:21:743:-54.5501,0,-54.1891 0/1:98:47,51:47:1676:51:1766:-129.72,0,-121.626 0/1:83:31,52:31:1112:52:1833:-140.263,0,-75.4059 0/1:92:55,37:55:1955:37:1287:-88.4325,0,-148.53 0/1:8:7,1:7:252:1:36:-1.19004,0,-20.6207 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:16:10,6:10:356:6:208:-14.2426,0,-27.5648 0/0:59:58,1:58:2044:1:36:0,-14.1625,-180.631 0/0:74:74,0:74:2625:0:0:0,-22.2762,-236.497 0/0:92:90,2:90:3199:2:63:0,-21.7116,-282.151 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/1:54:26,28:26:924:28:973:-71.6242,0,-67.222 0/1:99:50,49:50:1762:49:1696:-123.118,0,-129.06 0/1:47:29,18:29:1028:18:644:-44.1422,0,-78.6846 0/0:79:78,1:78:2787:1:36:0,-20.1831,-247.472 0/0:55:55,0:55:1959:0:0:0,-16.5566,-176.585 chr06 34423481 . A G 14918.1 PASS AB=0.464912;ABP=9.10566;AC=29;AF=0.690476;AN=42;AO=735;CIGAR=1X;DP=1040;DPB=1040;DPRA=0;EPP=1599.04;EPPR=665.309;GTI=0;LEN=1;MEANALT=1;MQM=59.8204;MQMR=60;NS=21;NUMALT=1;ODDS=0.305403;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26023;QR=10901;RO=305;RPL=0;RPP=1599.04;RPPR=665.309;RPR=735;RUN=1;SAF=735;SAP=1599.04;SAR=0;SRF=305;SRP=665.309;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:33,11:33:1184:11:392:-22.3747,0,-93.623 0/1:17:7,10:7:237:10:360:-27.6268,0,-16.5415 0/1:33:18,15:18:648:15:540:-39.0025,0,-48.7179 1/1:35:0,35:0:0:35:1237:-111.63,-10.5361,0 1/1:109:0,109:0:0:109:3886:-349.932,-32.8123,0 0/1:50:28,22:28:993:22:792:-56.5542,0,-74.631 0/1:82:35,47:35:1245:47:1680:-126.803,0,-87.6683 0/1:33:17,16:17:612:16:576:-42.241,0,-45.4794 0/1:112:66,46:66:2376:46:1596:-110.206,0,-180.382 0/1:6:4,2:4:144:2:68:-4.65153,0,-11.5074 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:18:7,11:7:252:11:396:-30.5642,0,-17.6104 1/1:55:0,55:0:0:55:1897:-170.993,-16.5567,0 1/1:57:0,57:0:0:57:2029:-182.609,-17.1587,0 1/1:73:0,73:0:0:73:2574:-231.894,-21.9752,0 1/1:28:0,28:0:0:28:993:-89.683,-8.42884,0 0/1:39:25,14:25:900:14:489:-32.5934,0,-69.5808 0/1:55:32,23:32:1137:23:824:-57.9267,0,-86.0803 0/1:77:32,45:32:1137:45:1620:-122.91,0,-79.4577 1/1:73:0,73:0:0:73:2545:-229.28,-21.9752,0 1/1:40:0,40:0:0:40:1421:-128.185,-12.0412,0 chr06 34423483 . 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C T 8917.88 PASS AB=0.465532;ABP=15.1354;AC=13;AF=0.309524;AN=42;AO=549;CIGAR=1X;DP=1932;DPB=1932;DPRA=0.846452;EPP=1195.15;EPPR=2919.93;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9877;NS=21;NUMALT=1;ODDS=15.1376;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19606;QR=49373;RO=1383;RPL=549;RPP=1195.15;RPPR=2919.93;RPR=0;RUN=1;SAF=0;SAP=1195.15;SAR=549;SRF=0;SRP=3006.16;SRR=1383;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:56,72:56:2012:72:2576:-193.558,0,-142.821 0/1:53:26,27:26:928:27:949:-69.7682,0,-67.8837 0/1:135:68,67:68:2444:67:2394:-175.077,0,-179.576 0/0:54:53,1:53:1885:1:36:0,-12.6573,-166.328 0/0:178:178,0:178:6368:0:0:0,-53.5833,-573.206 0/1:75:48,27:48:1720:27:968:-64.8601,0,-132.508 0/1:160:87,73:87:3093:73:2608:-186.804,0,-230.433 0/1:119:68,51:68:2422:51:1801:-126.547,0,-182.412 0/1:126:71,55:71:2505:55:1958:-138.565,0,-187.77 0/1:16:4,12:4:144:12:428:-34.0423,0,-8.49714 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:22:10,12:10:356:12:432:-32.5985,0,-25.7586 0/0:88:88,0:88:3130:0:0:0,-26.4906,-281.924 0/0:56:56,0:56:1993:0:0:0,-16.8577,-179.642 0/0:191:191,0:191:6802:0:0:0,-57.4967,-612.25 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.587 0/1:79:41,38:41:1452:38:1368:-99.6395,0,-107.191 0/1:160:86,74:86:3088:74:2652:-190.761,0,-229.982 0/1:92:58,34:58:2084:34:1220:-82.412,0,-160.135 0/0:83:82,1:82:2931:1:36:0,-21.3872,-260.426 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 chr06 34491985 . C T 4174.43 PASS AB=0.469012;ABP=7.98977;AC=13;AF=0.309524;AN=42;AO=286;CIGAR=1X;DP=1275;DPB=1275;DPRA=0.964543;EPP=624.051;EPPR=2148.43;GTI=2;LEN=1;MEANALT=1.0625;MQM=59.965;MQMR=60;NS=21;NUMALT=1;ODDS=2.45758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9926;QR=35048;RO=988;RPL=0;RPP=624.051;RPPR=2148.43;RPR=286;RUN=1;SAF=0;SAP=624.051;SAR=286;SRF=0;SRP=2148.43;SRR=988;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:26:14,12:14:504:12:402:-28.675,0,-37.8713 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/1:74:36,38:36:1280:38:1339:-98.5307,0,-93.227 0/0:152:152,0:152:5384:0:0:0,-45.7566,-484.693 0/0:126:122,4:122:4338:4:144:0,-24.6162,-377.283 0/1:45:29,16:29:1044:16:556:-36.8208,0,-80.7285 0/1:82:37,45:37:1303:45:1547:-114.834,0,-92.8861 0/1:69:29,39:29:997:39:1362:-102.047,0,-69.2055 0/1:107:53,54:53:1875:54:1895:-138.616,0,-136.818 0/1:12:9,3:9:324:3:104:-6.09045,0,-25.8935 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 0/1:26:15,11:15:536:11:388:-27.4306,0,-40.748 0/0:160:159,1:159:5661:1:32:0,-44.9655,-506.412 0/0:49:49,0:49:1739:0:0:0,-14.7505,-156.794 0/0:66:66,0:66:2306:0:0:0,-19.868,-207.799 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/1:30:17,13:17:600:13:434:-30.3491,0,-45.2983 0/1:46:30,16:30:1038:16:547:-35.7056,0,-79.8802 0/1:56:35,21:35:1248:21:712:-47.537,0,-95.7672 0/0:80:79,1:79:2831:1:36:0,-20.4841,-251.43 0/0:21:21,0:21:744:0:0:0,-6.32163,-67.2843 chr06 34512310 . G A 8377.84 PASS AB=0.467136;ABP=11.0029;AC=13;AF=0.309524;AN=42;AO=398;CIGAR=1X;DP=1170;DPB=1170;DPRA=1.64877;EPP=153.355;EPPR=49.095;GTI=0;LEN=1;MEANALT=1;MQM=59.8769;MQMR=59.9858;NS=21;NUMALT=1;ODDS=9.9494;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14066;QR=27144;RO=772;RPL=0;RPP=867.256;RPPR=1679.39;RPR=398;RUN=1;SAF=116;SAP=153.355;SAR=282;SRF=322;SRP=49.095;SRR=450;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:13,15:13:455:15:540:-40.5077,0,-32.8531 0/1:36:17,19:17:588:19:671:-49.8787,0,-42.4051 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 0/0:26:26,0:26:917:0:0:0,-7.82678,-82.8446 0/0:68:68,0:68:2408:0:0:0,-20.47,-216.975 0/1:38:21,17:21:739:17:600:-42.8901,0,-55.3932 0/1:42:26,16:26:932:16:572:-39.162,0,-71.5556 0/1:37:20,17:20:701:17:591:-42.3772,0,-52.2736 0/1:72:32,40:32:1124:40:1428:-107.143,0,-79.791 0/1:88:37,51:37:1262:51:1799:-135.699,0,-87.3825 0/1:47:21,26:21:731:26:900:-67.0563,0,-51.9549 0/1:144:85,59:85:2978:59:2104:-146.281,0,-224.905 0/0:59:59,0:59:2075:0:0:0,-17.7608,-187.018 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:45:45,0:45:1601:0:0:0,-13.5463,-144.378 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:12:6,6:6:216:6:207:-15.3545,0,-16.1782 0/1:210:117,93:117:4092:93:3290:-233.104,0,-305.254 0/1:85:53,32:53:1859:32:1112:-74.7939,0,-141.999 0/0:34:34,0:34:1211:0:0:0,-10.235,-109.296 0/0:50:50,0:50:1747:0:0:0,-15.0515,-157.511 chr06 34821584 . G A 7126.13 PASS AB=0.525851;ABP=7.61338;AC=13;AF=0.309524;AN=42;AO=417;CIGAR=1X;DP=1500;DPB=1500;DPRA=0.69024;EPP=899.849;EPPR=2350.37;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.6882;MQMR=59.9491;NS=21;NUMALT=1;ODDS=8.41882;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14904;QR=38410;RO=1081;RPL=0;RPP=908.514;RPPR=2350.37;RPR=417;RUN=1;SAF=416;SAP=899.849;SAR=1;SRF=1081;SRP=2350.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:33,33:33:1165:33:1165:-85.2823,0,-85.287 0/1:41:14,27:14:500:27:972:-75.4452,0,-32.9939 0/1:64:29,35:29:1036:35:1260:-94.4372,0,-74.288 0/0:105:105,0:105:3741:0:0:0,-31.6081,-336.89 0/0:147:146,0:146:5179:0:0:0,-43.9504,-466.039 0/1:123:61,62:61:2150:62:2201:-161.316,0,-156.729 0/1:127:53,74:53:1908:74:2637:-199.128,0,-133.767 0/1:58:28,30:28:989:30:1076:-79.6885,0,-71.8623 0/1:155:67,87:67:2359:87:3113:-233.823,0,-165.923 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:4:1,3:1:21:3:108:-8.87105,0,-0.895826 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/0:56:56,0:56:1982:0:0:0,-16.8577,-178.651 0/0:104:104,0:104:3694:0:0:0,-31.3071,-332.633 0/0:144:144,0:144:5137:0:0:0,-43.3483,-462.467 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/1:33:24,9:24:864:9:324:-19.5265,0,-68.1486 0/1:58:28,30:28:989:30:1080:-80.0398,0,-71.8623 0/1:49:32,17:32:1144:17:608:-40.3016,0,-88.519 0/0:72:72,0:72:2537:0:0:0,-21.6742,-228.579 0/0:35:35,0:35:1251:0:0:0,-10.536,-112.894 chr06 34821698 . AG CC,CG 72405.1 PASS AB=0.463787,0.532226;ABP=37.295,30.1616;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2028,1604;CIGAR=2X,1X1M;DP=3644;DPB=3644;DPRA=0,2.3711;EPP=4406.76,3486.05;EPPR=9.52472;GTI=2;LEN=2,1;MEANALT=2.09524,2.53333;MQM=59.6657,59.9158;MQMR=60;NS=21;NUMALT=2;ODDS=7.76618;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70980,56740;QR=81;RO=3;RPL=0,1;RPP=4406.76,3477.37;RPPR=9.52472;RPR=2028,1603;RUN=1,1;SAF=0,1;SAP=4406.76,3477.37;SAR=2028,1603;SRF=0;SRP=9.52472;SRR=3;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,36,32:0:0:36,32:1240,1131:-192.626,-91.9149,-81.0778,-100.701,0,-91.0676 1/2:57:0,27,30:0:0:27,30:937,1049:-161.848,-85.6833,-77.5555,-76.513,0,-67.4821 1/2:91:0,40,50:0:0:40,50:1432,1770:-261.014,-144.327,-132.286,-116.837,0,-101.786 1/1:80:0,80,0:0:0:80,0:2811,0:-253.218,-24.0824,0,-253.218,-24.0824,-253.218 1/1:140:0,140,0:0:0:140,0:4895,0:-440.664,-42.1442,0,-440.664,-42.1442,-440.664 1/2:67:0,32,35:0:0:32,35:1124,1225:-191.496,-100.013,-90.3804,-91.8332,0,-81.2972 1/2:104:0,50,54:0:0:50,54:1730,1918:-297.192,-156.64,-141.589,-140.902,0,-124.646 1/2:94:0,34,60:0:0:34,60:1189,2123:-269.999,-173.275,-163.039,-97.0751,0,-79.0133 1/2:154:0,76,78:0:0:76,78:2663,2777:-443.284,-226.604,-203.725,-217.033,0,-193.553 1/2:318:0,146,169:0:0:146,169:5164,6024:-911.598,-491.031,-447.081,-420.562,0,-369.688 1/2:429:1,216,211:1:25:216,211:7616,7435:-1223.12,-603.43,-540.356,-618.094,0,-556.525 1/2:894:2,386,504:2:56:386,504:13602,17864:-2557.63,-1450.87,-1339.11,-1102.99,0,-955.708 1/1:110:0,110,0:0:0:110,0:3801,0:-342.274,-33.1133,0,-342.274,-33.1133,-342.274 1/1:69:0,68,1:0:0:68,1:2355,36:-211.845,-20.47,0,-208.907,-17.1728,-208.606 1/1:97:0,97,0:0:0:97,0:3409,0:-307.011,-29.1999,0,-307.011,-29.1999,-307.011 1/1:61:0,61,0:0:0:61,0:2125,0:-191.512,-18.3628,0,-191.512,-18.3628,-191.512 1/2:70:0,28,42:0:0:28,42:956,1489:-199.228,-121.66,-113.231,-77.9145,0,-65.2713 1/2:623:0,299,323:0:0:299,323:10336,11367:-1765.14,-925.384,-835.376,-839.854,0,-742.622 1/2:40:0,26,14:0:0:26,14:914,496:-115.153,-40.7598,-32.9331,-74.7463,0,-70.5319 1/1:39:0,38,1:0:0:38,1:1339,36:-120.449,-11.4391,0,-117.512,-8.1419,-117.211 1/1:38:0,38,0:0:0:38,0:1342,0:-121.062,-11.4391,0,-121.062,-11.4391,-121.062 chr06 34821794 . ATAT TTAC,TTAT 91109.1 PASS AB=0.516802,0.48146;ABP=7.24253,8.16346;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2535,838;CIGAR=1X2M1X,1X3M;DP=3380;DPB=3380.25;DPRA=0,0.65214;EPP=5507.69,1822.7;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2,2.13333;MQM=59.6702,59.9964;MQMR=60;NS=21;NUMALT=2;ODDS=21.9697;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=89117,29982;QR=36;RO=1;RPL=1333,464;RPP=17.7104,23.9995;RPPR=5.18177;RPR=1202,374;RUN=1,1;SAF=1333,464;SAP=17.7104,23.9995;SAR=1202,374;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:131:0,64,67:0:0:64,67:2253,2391:-378.689,-195.278,-176.012,-183.765,0,-163.596 1/2:62:0,44,18:0:0:44,18:1575,640:-180.777,-52.5108,-39.2655,-128.622,0,-123.203 1/2:135:0,63,72:0:0:63,72:2231,2575:-392.041,-210.325,-191.36,-182.072,0,-160.398 1/1:219:0,219,0:0:0:219,0:7692,0:-691.966,-65.9256,0,-691.966,-65.9256,-691.966 1/1:284:0,284,0:0:0:284,0:9980,0:-897.656,-85.4925,0,-897.656,-85.4925,-897.656 1/2:152:0,85,66:0:0:85,66:2971,2346:-432.809,-191.171,-165.583,-241.632,0,-221.764 1/2:320:1,143,176:1:36:143,176:5060,6324:-924.725,-512.97,-472.86,-409.115,0,-359.071 1/2:164:0,75,89:0:0:75,89:2651,3171:-474.698,-258.822,-236.245,-216.231,0,-189.439 1/2:321:0,168,153:0:0:168,153:5886,5480:-926.04,-447.267,-396.694,-479.127,0,-433.07 1/2:27:0,15,12:0:0:15,12:523,432:-78.1377,-35.6088,-31.0934,-42.8836,0,-39.2713 1/2:17:0,9,8:0:0:9,8:316,288:-49.573,-23.8592,-21.1499,-26.0695,0,-23.6612 1/2:61:0,37,24:0:0:37,24:1269,856:-173.117,-70.1364,-58.9983,-103.332,0,-96.107 1/1:287:0,287,0:0:0:287,0:10059,0:-905.139,-86.3956,0,-905.139,-86.3956,-905.139 1/1:214:0,211,0:0:0:211,0:7394,0:-665.239,-63.5173,0,-665.239,-63.5173,-665.239 1/1:209:0,208,0:0:0:208,0:7372,0:-663.099,-62.6142,0,-663.099,-62.6142,-663.099 1/1:97:0,96,1:0:0:96,1:3378,36:-303.8,-28.8989,0,-300.862,-25.6016,-300.561 1/2:86:0,51,35:0:0:51,35:1791,1255:-248.473,-102.719,-87.3665,-146.11,0,-135.574 1/2:119:0,46,73:0:0:46,73:1622,2612:-345.391,-213.353,-199.505,-132.392,0,-110.417 1/2:131:0,92,38:0:0:92,38:3247,1360:-375.304,-110.902,-83.2069,-264.399,0,-252.959 1/1:272:0,266,6:0:0:266,6:9376,216:-843.324,-80.074,0,-825.7,-62.0896,-823.893 1/1:72:0,72,0:0:0:72,0:2471,0:-222.592,-21.6742,0,-222.592,-21.6742,-222.592 chr06 34821828 . T G 24223 PASS AB=0.531486;ABP=9.84743;AC=29;AF=0.690476;AN=42;AO=1167;CIGAR=1X;DP=1544;DPB=1544;DPRA=0;EPP=2502.49;EPPR=821.655;GTI=1;LEN=1;MEANALT=1;MQM=59.9597;MQMR=60;NS=21;NUMALT=1;ODDS=1.84745;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41413;QR=13536;RO=377;RPL=1164;RPP=2511.13;RPPR=821.655;RPR=3;RUN=1;SAF=1;SAP=2528.44;SAR=1166;SRF=0;SRP=821.655;SRR=377;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:41,35:41:1472:35:1234:-88.4844,0,-109.898 0/1:20:6,14:6:216:14:504:-39.6775,0,-13.7699 0/1:46:28,18:28:1004:18:639:-43.9909,0,-76.8285 1/1:60:0,60:0:0:60:2144:-193.228,-18.0618,0 1/1:134:0,134:0:0:134:4762:-428.738,-40.338,0 0/1:67:22,45:22:792:45:1585:-122.769,0,-51.4367 0/1:152:71,81:71:2556:81:2879:-213.591,0,-184.533 0/1:70:35,35:35:1252:35:1225:-89.4793,0,-91.913 0/1:170:84,86:84:3012:86:3053:-223.823,0,-220.136 0/1:9:6,3:6:212:3:104:-6.99354,0,-16.7155 0/1:10:3,7:3:108:7:243:-19.1972,0,-7.06487 0/1:34:14,20:14:504:20:720:-54.8938,0,-35.4631 1/1:153:0,153:0:0:153:5415:-487.473,-46.0576,0 1/1:104:0,104:0:0:104:3715:-334.552,-31.3071,0 1/1:101:0,101:0:0:101:3576:-322.034,-30.404,0 1/1:54:1,53:1:36:53:1882:-166.059,-12.6573,0 0/1:29:13,16:13:464:16:568:-42.722,0,-33.3676 0/1:44:31,13:31:1116:13:446:-27.2203,0,-87.5064 0/1:67:18,49:18:648:49:1756:-138.155,0,-38.4829 1/1:112:4,108:4:144:108:3828:-331.405,-20.4017,0 1/1:32:0,32:0:0:32:1135:-102.458,-9.63296,0 chr06 34821845 . C A 5880.21 PASS AB=0.4601;ABP=14.1005;AC=13;AF=0.309524;AN=42;AO=376;CIGAR=1X;DP=1575;DPB=1575;DPRA=0.563387;EPP=819.484;EPPR=2593.58;GTI=1;LEN=1;MEANALT=1.05882;MQM=60;MQMR=59.9574;NS=21;NUMALT=1;ODDS=3.02805;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13445;QR=42579;RO=1197;RPL=376;RPP=819.484;RPPR=2602.26;RPR=0;RUN=1;SAF=0;SAP=819.484;SAR=376;SRF=1;SRP=2593.58;SRR=1196;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:39,41:39:1392:41:1460:-107.614,0,-101.494 0/1:20:14,6:14:504:6:216:-13.7699,0,-39.6775 0/1:47:20,27:20:705:27:960:-72.5679,0,-49.6244 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 0/0:138:138,0:138:4895:0:0:0,-41.5421,-440.701 0/1:66:45,21:45:1578:21:756:-48.4992,0,-122.438 0/1:153:82,71:82:2952:71:2540:-182.793,0,-219.855 0/1:70:35,35:35:1245:35:1241:-90.9213,0,-91.2806 0/1:169:86,83:86:3061:83:2988:-218.277,0,-224.843 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:10:7,3:7:222:3:108:-7.06487,0,-17.2789 0/1:36:21,15:21:752:15:525:-36.741,0,-57.1692 0/0:161:160,0:160:5672:0:0:0,-48.1648,-510.367 0/0:106:105,1:105:3745:1:36:0,-28.3109,-333.651 0/0:103:103,0:103:3670:0:0:0,-31.0061,-330.482 0/0:54:53,1:53:1908:1:36:0,-12.6573,-168.399 0/1:29:17,12:17:597:12:424:-29.7665,0,-45.3263 0/1:45:14,31:14:500:31:1111:-86.755,0,-31.7898 0/1:68:50,18:50:1796:18:648:-38.1818,0,-141.452 0/0:114:109,4:109:3871:4:144:0,-21.0626,-335.269 0/0:35:34,1:34:1186:1:36:0,-6.93777,-103.442 chr06 34845624 . A G 13919.8 PASS AB=0.495322;ABP=3.33539;AC=13;AF=0.309524;AN=42;AO=851;CIGAR=1X;DP=3006;DPB=3006;DPRA=1.05089;EPP=1850.93;EPPR=4680.36;GTI=0;LEN=1;MEANALT=1.0625;MQM=53.8249;MQMR=59.6179;NS=21;NUMALT=1;ODDS=11.5465;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30149;QR=76548;RO=2154;RPL=0;RPP=1850.93;RPPR=4680.36;RPR=851;RUN=1;SAF=0;SAP=1850.93;SAR=851;SRF=0;SRP=4680.36;SRR=2154;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:97,87:97:3452:87:3115:-224.463,0,-255.48 0/1:96:57,39:57:2004:39:1370:-94.0294,0,-151.724 0/1:144:74,70:74:2619:70:2478:-179.112,0,-192.551 0/0:168:168,0:168:5988:0:0:0,-50.573,-538.991 0/0:253:251,2:251:8931:2:72:0,-69.3288,-796.809 0/1:235:119,116:119:4236:116:4093:-296.003,0,-310.66 0/1:223:115,108:115:4105:108:3827:-275.862,0,-302.436 0/1:248:122,126:122:4336:126:4428:-322.728,0,-315.709 0/1:238:106,131:106:3795:131:4665:-348.082,0,-270.109 0/1:28:10,18:10:356:18:640:-49.3021,0,-23.9478 0/1:12:7,5:7:252:5:180:-12.8981,0,-19.4083 0/1:60:32,28:32:1135:28:992:-71.1123,0,-84.3824 0/0:212:212,0:212:7529:0:0:0,-63.8184,-676.352 0/0:183:183,0:183:6503:0:0:0,-55.0885,-585.305 0/0:250:249,1:249:8836:1:36:0,-71.6618,-790.98 0/0:85:85,0:85:3022:0:0:0,-25.5875,-272.209 0/1:128:59,69:59:2073:69:2434:-180.53,0,-148.304 0/1:62:31,31:31:1086:31:1112:-81.1997,0,-79.3617 0/1:52:33,19:33:1160:19:671:-45.0165,0,-89.0531 0/0:104:103,1:103:3687:1:36:0,-27.7139,-328.412 0/0:41:41,0:41:1443:0:0:0,-12.3422,-130.157 chr06 34898804 . 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G A 18724.8 PASS AB=0.234303;ABP=803.821;AC=26;AF=0.619048;AN=42;AO=902;CIGAR=1X;DP=3152;DPB=3152;DPRA=0;EPP=3.0103;EPPR=2766.38;GTI=9;LEN=1;MEANALT=1.14286;MQM=39.3703;MQMR=37.9119;NS=21;NUMALT=1;ODDS=7.00564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32207;QR=80152;RO=2247;RPL=523;RPP=52.9301;RPPR=2020.85;RPR=379;RUN=1;SAF=72;SAP=1386.21;SAR=830;SRF=123;SRP=3872.43;SRR=2124;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:54,8:54:1917:8:275:-5.01619,0,-144.818 0/1:100:81,19:81:2908:19:684:-25.62,0,-203.813 0/1:73:61,12:61:2176:12:432:-15.3421,0,-163.382 1/1:72:0,72:0:0:72:2571:-219.746,-21.6742,0 1/1:60:5,55:5:180:55:1960:-151.428,-2.31323,0 0/1:65:49,16:49:1745:16:576:-27.5024,0,-121.518 0/1:101:72,29:72:2554:29:1036:-53.1275,0,-177.146 0/1:49:29,20:29:1028:20:716:-44.6884,0,-71.3413 0/1:252:145,107:145:5188:107:3815:-258.836,0,-384.043 0/0:489:474,13:474:16912:13:468:0,-107.375,-1364.18 0/0:447:444,3:444:15846:3:108:0,-125.471,-1266.53 0/0:343:321,21:321:11459:21:756:0,-40.9732,-890.819 1/1:96:0,96:0:0:96:3440:-292.78,-28.8989,0 1/1:38:0,38:0:0:38:1356:-116.38,-11.4391,0 1/1:56:0,56:0:0:56:2012:-170.872,-16.8577,0 1/1:41:1,40:1:36:40:1424:-121.991,-8.74396,0 0/1:87:75,12:75:2659:12:416:-10.4489,0,-207.874 0/1:466:417,49:417:14860:49:1756:-3.89963,0,-1096.83 0/1:51:17,34:17:612:34:1220:-88.5387,0,-36.6133 1/1:174:2,172:2:72:172:6106:-500.49,-46.0215,0 1/1:30:0,30:0:0:30:1080:-87.0971,-9.0309,0 chr06 34918954 . A C 8660.42 PASS AB=0.522006;ABP=7.11987;AC=13;AF=0.309524;AN=42;AO=511;CIGAR=1X;DP=1766;DPB=1766;DPRA=0.886185;EPP=1112.63;EPPR=2728.21;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.66167;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18243;QR=44889;RO=1255;RPL=511;RPP=1112.63;RPPR=2728.21;RPR=0;RUN=1;SAF=0;SAP=1112.63;SAR=511;SRF=0;SRP=2728.21;SRR=1255;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:59,57:59:2120:57:2048:-149.672,0,-156.149 0/1:67:28,39:28:989:39:1404:-106.49,0,-69.153 0/1:40:25,15:25:896:15:540:-36.8953,0,-68.9192 0/0:108:108,0:108:3876:0:0:0,-32.5112,-349.034 0/0:152:151,1:151:5401:1:36:0,-42.1583,-482.621 0/1:74:27,47:27:968:47:1686:-129.751,0,-65.1611 0/1:118:41,77:41:1460:77:2737:-211.05,0,-96.1745 0/1:81:41,40:41:1464:40:1432:-104.794,0,-107.673 0/1:156:64,92:64:2304:92:3296:-249.898,0,-160.66 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:12:8,4:8:284:4:144:-9.70126,0,-22.291 0/0:114:114,0:114:4076:0:0:0,-34.3174,-367.027 0/0:92:92,0:92:3242:0:0:0,-27.6948,-292.002 0/0:120:120,0:120:4284:0:0:0,-36.1236,-385.739 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/1:135:66,69:66:2368:69:2431:-178.404,0,-172.739 0/1:78:42,36:42:1512:36:1284:-92.3831,0,-112.894 0/1:82:59,23:59:2101:23:809:-48.4438,0,-164.673 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/0:69:69,0:69:2484:0:0:0,-20.7711,-223.813 chr06 34918992 . A G 12263.2 PASS AB=0.534288;ABP=16.5611;AC=13;AF=0.309524;AN=42;AO=720;CIGAR=1X;DP=2281;DPB=2281;DPRA=1.28435;EPP=1549.15;EPPR=3295.64;GTI=0;LEN=1;MEANALT=1.05556;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=23.5647;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25635;QR=55871;RO=1560;RPL=2;RPP=1549.15;RPPR=3295.64;RPR=718;RUN=1;SAF=720;SAP=1566.47;SAR=0;SRF=1560;SRP=3390.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:76,90:76:2713:90:3184:-236.451,0,-194.081 0/1:122:59,63:59:2105:63:2241:-165.226,0,-152.992 0/1:173:66,107:66:2368:107:3797:-289.848,0,-161.3 0/0:103:103,0:103:3681:0:0:0,-31.0061,-331.492 0/0:234:228,6:228:8166:6:201:0,-52.024,-716.533 0/1:102:42,60:42:1508:60:2136:-161.803,0,-105.31 0/1:154:52,102:52:1872:102:3640:-281.446,0,-122.4 0/1:117:54,63:54:1936:63:2245:-167.091,0,-139.296 0/1:147:72,75:72:2568:75:2688:-197.913,0,-187.119 0/1:28:14,14:14:504:14:500:-36.9073,0,-37.2693 0/1:14:5,9:5:180:9:320:-24.9279,0,-12.3376 0/1:39:21,18:21:756:18:643:-46.46,0,-56.6271 0/0:115:114,1:114:4077:1:36:0,-31.0202,-363.516 0/0:101:100,1:100:3600:1:36:0,-26.8058,-320.606 0/0:151:150,1:150:5357:1:36:0,-41.8573,-478.664 0/0:132:132,0:132:4732:0:0:0,-39.736,-426.038 0/1:146:94,52:94:3372:52:1856:-123.369,0,-259.745 0/1:60:24,36:24:856:36:1284:-97.801,0,-59.2993 0/1:58:38,20:38:1364:20:720:-47.669,0,-105.601 0/0:91:89,2:89:3184:2:72:0,-20.557,-279.947 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 chr06 34920709 . TACATCT CATATCC,CACATCC 24691.6 PASS AB=0.520124,0.470588;ABP=5.28261,7.86418;AC=30,12;AF=0.714286,0.285714;AN=42;AO=874,307;CIGAR=1X1M1X3M1X,1X5M1X;DP=1198;DPB=1198;DPRA=0,0.849099;EPP=1900.88,669.652;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.42857,2.57143;MQM=59.968,60;MQMR=0;NS=21;NUMALT=2;ODDS=13.4393;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30878,10829;QR=0;RO=0;RPL=0,0;RPP=1900.88,669.652;RPPR=0;RPR=874,307;RUN=1,1;SAF=874,307;SAP=1900.88,669.652;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,32,23:0:0:32,23:1135,806:-158.409,-65.9352,-56.3022,-92.8262,0,-85.9026 1/2:43:0,21,22:0:0:21,22:752,767:-124.058,-62.7261,-56.4045,-61.6849,0,-55.0622 1/2:87:0,31,56:0:0:31,56:1104,1967:-250.43,-160.446,-151.114,-90.3391,0,-73.4814 1/1:36:0,36,0:0:0:36,0:1266,0:-114.242,-10.8371,0,-114.242,-10.8371,-114.242 1/1:197:0,194,0:0:0:194,0:6855,0:-616.686,-58.3998,0,-616.686,-58.3998,-616.686 1/2:65:0,31,34:0:0:31,34:1076,1201:-185.619,-98.1595,-88.8276,-87.8094,0,-77.5744 1/2:61:0,26,35:0:0:26,35:914,1240:-175.764,-101.368,-93.5416,-74.7483,0,-64.2122 1/2:36:0,18,18:0:0:18,18:640,644:-105.026,-52.8721,-47.4535,-52.5109,0,-47.0924 1/2:68:0,46,20:0:0:46,20:1632,712:-191.065,-58.0946,-44.2473,-133.033,0,-127.013 1/2:25:0,10,14:0:0:10,14:348,491:-68.2526,-39.9568,-36.9465,-28.2951,0,-24.0806 1/1:9:0,8,0:0:0:8,0:284,0:-25.5443,-2.40824,0,-25.5443,-2.40824,-25.5443 1/2:30:0,19,11:0:0:19,11:665,392:-86.4092,-32.3087,-26.5892,-54.4544,0,-51.143 1/1:50:0,48,0:0:0:48,0:1692,0:-152.263,-14.4494,0,-152.263,-14.4494,-152.263 1/1:60:0,60,0:0:0:60,0:2083,0:-187.741,-18.0618,0,-187.741,-18.0618,-187.741 1/1:56:0,55,0:0:0:55,0:1963,0:-176.635,-16.5567,0,-176.635,-16.5567,-176.635 1/1:36:0,34,0:0:0:34,0:1203,0:-108.249,-10.235,0,-108.249,-10.235,-108.249 1/2:50:0,23,25:0:0:23,25:818,879:-138.236,-71.5696,-64.6459,-66.6869,0,-59.1612 1/2:73:0,41,32:0:0:41,32:1455,1135:-211.375,-92.8251,-80.4829,-118.904,0,-109.271 1/2:53:0,38,14:0:0:38,14:1349,491:-149.896,-39.9754,-28.5363,-109.941,0,-105.726 1/1:87:0,83,2:0:0:83,2:2932,72:-263.782,-24.9855,0,-257.907,-19.0857,-257.305 1/1:21:0,20,1:0:0:20,1:712,32:-64.0852,-6.0206,0,-61.5085,-3.12232,-61.2075 chr06 34983251 . A G 25995.6 PASS AB=0.456613;ABP=22.4182;AC=29;AF=0.690476;AN=42;AO=1300;CIGAR=1X;DP=1953;DPB=1953;DPRA=0;EPP=2825.92;EPPR=1418.81;GTI=0;LEN=1;MEANALT=1.04762;MQM=56.5869;MQMR=54.7745;NS=21;NUMALT=1;ODDS=13.3827;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46378;QR=23368;RO=652;RPL=0;RPP=2825.92;RPPR=1418.81;RPR=1300;RUN=1;SAF=1300;SAP=2825.92;SAR=0;SRF=652;SRP=1418.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:39,25:39:1404:25:892:-61.3139,0,-107.253 0/1:89:49,40:49:1760:40:1432:-101.943,0,-131.634 0/1:135:69,65:69:2465:65:2332:-169.355,0,-180.437 1/1:101:0,101:0:0:101:3613:-325.123,-30.404,0 1/1:158:2,156:2:72:156:5566:-493.893,-40.7331,0 0/1:30:18,12:18:648:12:428:-29.7715,0,-49.2645 0/1:154:90,64:90:3213:64:2269:-157.429,0,-242.653 0/1:193:110,83:110:3956:83:2949:-207.257,0,-296.588 0/1:197:112,85:112:4028:85:3029:-213.142,0,-302.886 0/1:23:7,16:7:252:16:567:-44.3032,0,-16.0009 0/1:4:2,2:2:72:2:72:-5.62291,0,-5.62767 0/1:26:16,10:16:572:10:360:-24.7809,0,-43.8376 1/1:84:2,82:2:72:82:2906:-254.723,-18.4568,0 1/1:117:0,117:0:0:117:4200:-377.925,-35.2205,0 1/1:128:1,127:1:36:127:4526:-402.909,-34.9373,0 1/1:78:0,78:0:0:78:2781:-250.06,-23.4803,0 0/1:107:59,48:59:2105:48:1724:-123.21,0,-157.296 0/1:133:61,72:61:2173:72:2583:-192.371,0,-155.606 0/1:32:12,20:12:432:20:711:-54.6099,0,-29.4206 1/1:62:1,61:1:36:61:2142:-189.114,-15.0693,0 1/1:38:2,36:2:72:36:1296:-109.482,-4.60735,0 chr06 34983288 . G A 26459.4 PASS AB=0.46588;ABP=15.0129;AC=29;AF=0.690476;AN=42;AO=1312;CIGAR=1X;DP=1954;DPB=1954;DPRA=0;EPP=2851.98;EPPR=1397.1;GTI=0;LEN=1;MEANALT=1;MQM=56.5541;MQMR=54.9034;NS=21;NUMALT=1;ODDS=14.8179;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47018;QR=22798;RO=642;RPL=1312;RPP=2851.98;RPPR=1397.1;RPR=0;RUN=1;SAF=1312;SAP=2851.98;SAR=0;SRF=642;SRP=1397.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:41,23:41:1459:23:824:-55.197,0,-112.206 0/1:90:49,41:49:1760:41:1476:-105.588,0,-131.333 0/1:136:69,67:69:2411:67:2412:-176.301,0,-176.039 1/1:101:0,101:0:0:101:3617:-325.527,-30.404,0 1/1:160:2,158:2:72:158:5672:-503.391,-41.3351,0 0/1:29:17,12:17:608:12:432:-30.4321,0,-46.2859 0/1:152:86,66:86:3036:66:2360:-166.03,0,-227.382 0/1:194:110,84:110:3868:84:3016:-212.943,0,-289.114 0/1:193:109,84:109:3912:84:3009:-212.55,0,-293.672 0/1:23:7,16:7:237:16:561:-43.7686,0,-14.631 0/1:5:3,2:3:108:2:72:-5.32188,0,-8.56275 0/1:25:15,10:15:540:10:356:-24.7217,0,-41.316 1/1:83:2,81:2:68:81:2885:-253.238,-18.5327,0 1/1:118:0,118:0:0:118:4217:-379.457,-35.5215,0 1/1:126:1,125:1:36:125:4473:-398.146,-34.3352,0 1/1:79:0,79:0:0:79:2844:-255.001,-23.7814,0 0/1:105:58,47:58:2080:47:1688:-120.574,0,-155.653 0/1:136:58,78:58:2067:78:2788:-209.888,0,-145.181 0/1:35:12,23:12:428:23:828:-64.2318,0,-28.1571 1/1:63:1,62:1:36:62:2232:-196.942,-15.3703,0 1/1:37:2,35:2:72:35:1256:-105.893,-4.30632,0 chr06 35110624 . C T 17941.9 PASS AB=0.512968;ABP=4.02407;AC=29;AF=0.690476;AN=42;AO=872;CIGAR=1X;DP=1212;DPB=1212;DPRA=0;EPP=1887.86;EPPR=724.041;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.60037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31178;QR=12157;RO=340;RPL=1;RPP=1887.86;RPPR=724.041;RPR=871;RUN=1;SAF=872;SAP=1896.53;SAR=0;SRF=340;SRP=741.311;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:32,15:32:1144:15:540:-34.7881,0,-89.1211 0/1:31:19,12:19:680:12:422:-28.9823,0,-52.1972 0/1:63:24,39:24:860:39:1404:-107.694,0,-58.7569 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 1/1:96:1,95:1:36:95:3388:-301.535,-25.3006,0 0/1:36:20,16:20:720:16:572:-40.9763,0,-54.2917 0/1:106:44,62:44:1576:62:2208:-167.074,0,-110.222 0/1:47:28,19:28:1004:19:684:-47.7419,0,-76.5275 0/1:102:53,49:53:1879:49:1740:-126.178,0,-138.683 0/1:17:10,7:10:360:7:241:-16.9072,0,-27.6268 0/1:17:4,13:4:144:13:464:-36.98,0,-8.19611 0/1:23:10,13:10:351:13:468:-35.536,0,-25.003 1/1:94:1,93:1:36:93:3335:-296.768,-24.6985,0 1/1:46:0,46:0:0:46:1637:-147.617,-13.8474,0 1/1:91:0,91:0:0:91:3260:-293.621,-27.3937,0 1/1:36:0,36:0:0:36:1287:-116.133,-10.8371,0 0/1:47:26,21:26:927:21:748:-53.4963,0,-69.599 0/1:107:46,61:46:1652:61:2179:-164.165,0,-116.758 0/1:51:22,29:22:788:29:1044:-78.9223,0,-55.8923 1/1:67:0,67:0:0:67:2408:-216.976,-20.169,0 1/1:33:0,33:0:0:33:1169:-105.515,-9.93399,0 chr06 35112844 . AGA TGG,TGT 22043.8 PASS AB=0.484177,0.515823;ABP=4.38465,4.38465;AC=29,13;AF=0.690476,0.309524;AN=42;AO=737,329;CIGAR=1X1M1X,1X1M1X;DP=1068;DPB=1068;DPRA=0,0.910429;EPP=1603.39,717.425;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.80952,2.06667;MQM=59.9037,59.9271;MQMR=0;NS=21;NUMALT=2;ODDS=0.709783;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26018,11516;QR=0;RO=0;RPL=737,329;RPP=1603.39,717.425;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1603.39,717.425;SAR=737,329;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,31,35:0:0:31,35:1098,1224:-189.356,-99.9261,-90.5941,-89.7816,0,-79.2456 1/2:27:0,15,12:0:0:15,12:521,422:-77.0539,-34.7024,-30.1869,-42.7011,0,-39.0887 1/2:52:0,30,22:0:0:30,22:1066,780:-150.766,-63.9,-54.8691,-87.2207,0,-80.5981 1/1:30:0,30,0:0:0:30,0:1074,0:-96.973,-9.0309,0,-96.973,-9.0309,-96.973 1/1:88:0,88,0:0:0:88,0:3064,0:-275.983,-26.4906,0,-275.983,-26.4906,-275.983 1/2:32:0,22,10:0:0:22,10:778,352:-92.3747,-29.0073,-22.3847,-63.7197,0,-60.7094 1/2:78:0,28,50:0:0:28,50:988,1782:-226.062,-145.611,-137.182,-80.8048,0,-65.7533 1/2:50:0,21,29:0:0:21,29:749,1005:-143.09,-82.0284,-75.7067,-61.4139,0,-52.684 1/2:132:0,51,81:0:0:51,81:1816,2822:-377.842,-229.833,-214.48,-148.361,0,-123.978 1/2:10:0,7,3:0:0:7,3:252,108:-29.734,-9.17208,-7.06487,-20.9217,0,-20.0187 1/2:5:0,3,2:0:0:3,2:108,64:-14.3123,-5.47604,-4.57295,-9.17208,0,-8.57002 1/2:21:0,18,3:0:0:18,3:644,108:-61.6848,-9.17208,-3.75354,-52.8723,0,-51.9692 1/1:64:0,63,0:0:0:63,0:2216,0:-199.344,-18.9649,0,-199.344,-18.9649,-199.344 1/1:63:0,63,0:0:0:63,0:2225,0:-200.513,-18.9649,0,-200.513,-18.9649,-200.513 1/1:52:0,52,0:0:0:52,0:1836,0:-165.52,-15.6536,0,-165.52,-15.6536,-165.52 1/1:29:0,29,0:0:0:29,0:1012,0:-91.3879,-8.72987,0,-91.3879,-8.72987,-91.3879 1/2:35:0,15,20:0:0:15,20:528,697:-100.016,-57.0311,-52.5156,-43.3356,0,-37.315 1/2:60:0,26,34:0:0:26,34:932,1180:-172.284,-96.2652,-88.4384,-76.3723,0,-66.1373 1/2:64:0,39,25:0:0:39,25:1374,888:-184.548,-72.6842,-60.944,-112.217,0,-104.692 1/1:62:0,60,2:0:0:60,2:2100,57:-188.975,-18.0618,0,-184.452,-13.2509,-183.849 1/1:48:0,46,1:0:0:46,1:1637,27:-147.298,-13.8474,0,-145.171,-11.7635,-144.87 chr06 35247595 . TGCG TGCT,CGCT 39558.2 PASS AB=0.496711,0.5;ABP=3.09602,3.0103;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1391,456;CIGAR=3M1X,1X2M1X;DP=1857;DPB=1857;DPRA=0,0.877345;EPP=3023.53,993.202;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.80952,2.27273;MQM=59.9073,59.5219;MQMR=0;NS=21;NUMALT=2;ODDS=3.8778;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49601,16130;QR=0;RO=0;RPL=1391,456;RPP=3023.53,993.202;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3023.53,993.202;SAR=1391,456;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66,0:0:0:66,0:2361,0:-212.737,-19.868,0,-212.737,-19.868,-212.737 1/1:38:0,34,0:0:0:34,0:1212,0:-109.031,-10.235,0,-109.031,-10.235,-109.031 1/2:110:0,56,54:0:0:56,54:2012,1928:-320.28,-157.504,-140.647,-163.132,0,-146.877 1/1:82:0,82,0:0:0:82,0:2920,0:-263.029,-24.6845,0,-263.029,-24.6845,-263.029 1/1:158:0,156,0:0:0:156,0:5577,0:-501.692,-46.9607,0,-501.692,-46.9607,-501.692 1/2:54:0,30,23:0:0:30,23:1072,803:-152.711,-65.3029,-56.272,-87.4015,0,-80.4778 1/2:92:0,44,48:0:0:44,48:1576,1703:-267.626,-139.096,-125.85,-128.886,0,-114.437 1/2:179:0,66,112:0:0:66,112:2288,3947:-507.269,-321.309,-301.441,-185.959,0,-152.244 1/2:149:0,77,72:0:0:77,72:2748,2536:-430.832,-206.803,-183.623,-224.383,0,-202.709 1/2:14:0,11,3:0:0:11,3:388,108:-40.7598,-9.17208,-5.86075,-31.946,0,-31.0429 1/2:9:0,4,5:0:0:4,5:140,180:-26.4248,-15.0386,-13.8345,-11.7405,0,-10.2353 1/2:13:0,7,6:0:0:7,6:248,215:-38.0937,-17.893,-15.7858,-20.557,0,-18.7508 1/1:100:0,100,0:0:0:100,0:3561,0:-320.695,-30.103,0,-320.695,-30.103,-320.695 1/1:79:0,79,0:0:0:79,0:2824,0:-254.397,-23.7814,0,-254.397,-23.7814,-254.397 1/1:165:0,164,0:0:0:164,0:5873,0:-528.318,-49.3689,0,-528.318,-49.3689,-528.318 1/1:44:0,44,0:0:0:44,0:1568,0:-141.412,-13.2453,0,-141.412,-13.2453,-141.412 1/2:45:0,33,12:0:0:33,12:1184,425:-131.467,-34.9739,-25.0399,-96.848,0,-93.2357 1/2:152:0,64,88:0:0:64,88:2272,3124:-439.884,-254.788,-235.522,-185.451,0,-158.96 1/2:95:0,61,33:0:0:61,33:2188,1161:-272.992,-94.5254,-76.1626,-178.491,0,-168.557 1/1:163:0,163,0:0:0:163,0:5809,0:-522.924,-49.0679,0,-522.924,-49.0679,-522.924 1/1:50:0,50,0:0:0:50,0:1780,0:-160.483,-15.0515,0,-160.483,-15.0515,-160.483 chr06 35443663 . C T 4607.24 PASS AB=0.40796;ABP=62.1694;AC=10;AF=0.238095;AN=42;AO=334;CIGAR=1X;DP=1910;DPB=1910;DPRA=1.77045;EPP=728.282;EPPR=3418.74;GTI=1;LEN=1;MEANALT=1;MQM=59.976;MQMR=59.9835;NS=21;NUMALT=1;ODDS=0.31233;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11586;QR=56254;RO=1573;RPL=0;RPP=728.282;RPPR=3418.74;RPR=334;RUN=1;SAF=334;SAP=728.282;SAR=0;SRF=1573;SRP=3418.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:112:111,0:111:3976:0:0:0,-33.4143,-357.671 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/1:130:73,57:73:2612:57:1984:-139.701,0,-196.194 0/0:144:142,0:142:5059:0:0:0,-42.7463,-455.096 0/0:122:120,2:120:4289:2:72:0,-29.8889,-379.349 0/1:70:54,16:54:1940:16:556:-29.2951,0,-153.804 0/1:113:70,43:70:2508:43:1484:-99.8347,0,-191.956 0/1:132:64,68:64:2284:68:2368:-173.645,0,-166.086 0/1:159:100,59:100:3576:59:2044:-136.37,0,-274.184 0/1:9:5,4:5:176:4:140:-10.2353,0,-13.4757 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:52:24,28:24:864:28:969:-71.8578,0,-62.429 0/0:206:205,1:205:7336:1:32:0,-58.8129,-657.088 0/0:122:121,1:121:4315:1:36:0,-33.1274,-384.929 0/0:145:144,1:144:5164:1:36:0,-40.0511,-461.301 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:23:11,12:11:396:12:407:-30.0318,0,-29.0591 0/1:68:39,29:39:1371:29:1010:-70.7395,0,-103.215 0/1:48:36,12:36:1288:12:412:-22.9598,0,-101.774 0/0:159:158,1:158:5652:1:36:0,-44.2655,-505.133 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 chr06 35450733 . AGG GGA,GGG 39342.1 PASS AB=0.268124,0.73015;ABP=814.671,802.632;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1366,1276;CIGAR=1X1M1X,1X2M;DP=2647;DPB=2647;DPRA=0,1.53359;EPP=2969.24,2773.81;EPPR=0;GTI=7;LEN=3,1;MEANALT=1.85714,2.23077;MQM=24.4173,40.5682;MQMR=0;NS=21;NUMALT=2;ODDS=2.8218;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48441,45200;QR=0;RO=0;RPL=1366,1276;RPP=2969.24,2773.81;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2969.24,2773.81;SAR=1366,1276;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:72:0,71,1:0:0:71,1:2507,36:-156.824,-21.3731,0,-153.971,-18.1715,-153.67 1/1:53:0,52,0:0:0:52,0:1820,0:-97.298,-15.6536,0,-97.298,-15.6536,-97.298 1/2:221:0,66,155:0:0:66,155:2348,5477:-556.869,-431.12,-411.252,-126.023,0,-79.3632 1/1:80:0,80,0:0:0:80,0:2836,0:-177.007,-24.0824,0,-177.007,-24.0824,-177.007 1/1:75:0,75,0:0:0:75,0:2660,0:-166.764,-22.5773,0,-166.764,-22.5773,-166.764 1/2:207:0,36,169:0:0:36,169:1283,5924:-506.924,-450.265,-439.428,-56.5953,0,-5.72127 1/2:149:0,33,116:0:0:33,116:1161,4105:-364.238,-312.573,-302.639,-51.9011,0,-16.9817 1/2:217:0,53,164:0:0:53,164:1886,5840:-548.624,-455.348,-439.393,-93.5326,0,-44.1636 1/2:470:0,103,366:0:0:103,366:3664,13017:-1250.76,-1036.4,-1005.4,-214.349,0,-104.172 1/2:62:0,22,40:0:0:22,40:775,1427:-149.798,-111.478,-104.855,-38.588,0,-26.5468 1/2:29:0,13,16:0:0:13,16:463,568:-64.2117,-43.7874,-39.874,-20.6896,0,-15.8731 1/2:96:0,27,69:0:0:27,69:961,2443:-237.964,-190.75,-182.622,-47.4741,0,-26.703 1/1:154:0,154,0:0:0:154,0:5458,0:-340.194,-46.3586,0,-340.194,-46.3586,-340.194 1/1:144:0,143,0:0:0:143,0:5064,0:-315.798,-43.0473,0,-315.798,-43.0473,-315.798 1/1:201:0,201,0:0:0:201,0:7128,0:-444.639,-60.507,0,-444.639,-60.507,-444.639 1/1:18:0,18,0:0:0:18,0:637,0:-42.4223,-5.41854,0,-42.4223,-5.41854,-42.4223 1/2:111:0,34,77:0:0:34,77:1202,2715:-284.776,-215.401,-205.166,-69.6611,0,-46.4818 1/2:130:0,50,80:0:0:50,80:1785,2830:-307.702,-220.091,-205.039,-87.8819,0,-63.7995 1/2:46:0,29,17:0:0:29,17:1032,602:-102.835,-47.7408,-39.0109,-55.4012,0,-50.2837 1/1:79:0,73,6:0:0:73,6:2607,216:-150.2,-21.9752,0,-133.404,-4.84299,-131.597 1/1:33:0,33,0:0:0:33,0:1164,0:-63.1021,-9.93399,0,-63.1021,-9.93399,-63.1021 chr06 35450745 . CATG TGTA,CGTA 39119.2 PASS AB=0.263881,0.73154;ABP=849.008,816.512;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1338,1286;CIGAR=2X1M1X,1M1X1M1X;DP=2632;DPB=2632.25;DPRA=0,1.47895;EPP=2908.44,2795.52;EPPR=0;GTI=7;LEN=4,4;MEANALT=2.04762,2.57143;MQM=24.3229,40.4728;MQMR=0;NS=21;NUMALT=2;ODDS=0.436857;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=0,0;PQR=0;PRO=0;QA=47773,45787;QR=0;RO=0;RPL=1338,1286;RPP=2908.44,2795.52;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2908.44,2795.52;SAR=1338,1286;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,70,1:0:0:70,1:2498,36:-154.747,-21.0721,0,-151.894,-17.8704,-151.593 1/1:53:0,53,0:0:0:53,0:1875,0:-99.5667,-15.9546,0,-99.5667,-15.9546,-99.5667 1/2:221:0,67,152:0:0:67,152:2388,5422:-552.224,-423.751,-403.582,-128.416,0,-82.6596 1/1:78:0,78,0:0:0:78,0:2796,0:-172.309,-23.4803,0,-172.309,-23.4803,-172.309 1/1:73:0,72,1:0:0:72,1:2589,36:-159.454,-21.6742,0,-157.142,-19.0724,-156.841 1/2:208:0,36,172:0:0:36,172:1295,6138:-516.959,-460.215,-449.378,-56.9682,0,-5.19105 1/2:151:0,34,116:0:0:34,116:1220,4109:-365.76,-311.252,-301.017,-54.4681,0,-19.5487 1/2:218:0,50,168:0:0:50,168:1788,5984:-550.764,-463.88,-448.829,-87.136,0,-36.563 1/2:473:0,100,370:0:0:100,370:3572,13167:-1250.83,-1043.39,-1013.29,-207.401,0,-96.0202 1/2:62:0,22,40:0:0:22,40:777,1431:-150.153,-111.825,-105.202,-38.5968,0,-26.5556 1/2:29:0,13,16:0:0:13,16:464,559:-63.4922,-43.0647,-39.1513,-20.6906,0,-15.8741 1/2:97:0,26,70:0:0:26,70:929,2505:-239.638,-194.555,-186.729,-44.9861,0,-23.914 1/1:151:0,151,0:0:0:151,0:5397,0:-332.986,-45.4555,0,-332.986,-45.4555,-332.986 1/1:142:0,142,0:0:0:142,0:5027,0:-313.115,-42.7463,0,-313.115,-42.7463,-313.115 1/1:193:0,193,0:0:0:193,0:6921,0:-425.248,-58.0988,0,-425.248,-58.0988,-425.248 1/1:18:0,18,0:0:0:18,0:648,0:-42.6728,-5.41854,0,-42.6728,-5.41854,-42.6728 1/2:111:0,34,77:0:0:34,77:1217,2753:-286.571,-216.738,-206.503,-70.12,0,-46.9407 1/2:131:0,50,80:0:0:50,80:1780,2829:-307.237,-219.231,-204.179,-87.9203,0,-63.8379 1/2:46:0,29,17:0:0:29,17:1038,612:-103.439,-48.2369,-39.507,-55.5113,0,-50.3938 1/1:76:0,70,6:0:0:70,6:2488,206:-142.729,-21.0721,0,-126.682,-4.7033,-124.876 1/1:30:0,30,0:0:0:30,0:1066,0:-56.4744,-9.0309,0,-56.4744,-9.0309,-56.4744 chr06 35458471 . T A 25918.1 PASS AB=0.627389;ABP=91.5289;AC=32;AF=0.761905;AN=42;AO=1214;CIGAR=1X;DP=1450;DPB=1450;DPRA=0;EPP=2639.18;EPPR=515.478;GTI=1;LEN=1;MEANALT=1;MQM=59.9283;MQMR=60;NS=21;NUMALT=1;ODDS=2.90307;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43368;QR=8348;RO=236;RPL=0;RPP=2639.18;RPPR=515.478;RPR=1214;RUN=1;SAF=0;SAP=2639.18;SAR=1214;SRF=0;SRP=515.478;SRR=236;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,75:0:0:75:2673:-240.606,-22.5773,0 1/1:65:0,65:0:0:65:2332:-210.14,-19.567,0 0/1:67:21,46:21:756:46:1637:-127.448,0,-48.1982 1/1:62:1,61:1:21:61:2163:-192.835,-16.5639,0 1/1:191:0,191:0:0:191:6842:-615.69,-57.4967,0 0/1:38:15,23:15:523:23:828:-63.405,0,-35.9593 0/1:113:42,71:42:1496:71:2508:-191.955,0,-100.918 0/1:52:17,35:17:612:35:1256:-97.6811,0,-39.7599 0/1:126:40,86:40:1409:86:3088:-240.217,0,-89.1754 0/1:18:8,10:8:288:10:356:-26.9627,0,-20.8489 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:16:4,12:4:144:12:423:-33.5886,0,-8.49714 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 1/1:51:0,51:0:0:51:1819:-163.991,-15.3525,0 1/1:132:0,132:0:0:132:4715:-424.51,-39.736,0 1/1:42:0,42:0:0:42:1512:-136.375,-12.6433,0 0/1:50:16,34:16:542:34:1212:-94.3315,0,-34.0462 0/1:101:54,47:54:1932:47:1671:-120.273,0,-143.753 0/1:47:17,30:17:589:30:1066:-82.1026,0,-39.1849 1/1:90:1,89:1:36:89:3179:-282.725,-23.4944,0 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 chr06 35477980 . TG TT,AT 132958 PASS AB=0.475063,0.523929;ABP=13.732,12.8831;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3745,1053;CIGAR=1M1X,2X;DP=4801;DPB=4801;DPRA=0,1.07672;EPP=8074.49,2254.96;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.95238,2.17647;MQM=59.9565,59.9012;MQMR=0;NS=21;NUMALT=2;ODDS=14.2647;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=133834,37360;QR=0;RO=0;RPL=1859,398;RPP=3.433,139.215;RPPR=0;RPR=1886,655;RUN=1,1;SAF=1852,394;SAP=3.985,147.827;SAR=1893,659;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:288:0,288,0:0:0:288,0:10271,0:-924.316,-86.6966,0,-924.316,-86.6966,-924.316 1/1:240:0,240,0:0:0:240,0:8554,0:-769.784,-72.2472,0,-769.784,-72.2472,-769.784 1/2:212:0,104,108:0:0:104,108:3722,3822:-615.179,-311.662,-280.355,-303.873,0,-271.362 1/1:310:0,308,2:0:0:308,2:10982,72:-987.913,-92.7172,0,-982.038,-86.4826,-981.436 1/1:472:0,467,5:0:0:467,5:16705,167:-1502.64,-140.581,0,-1489.12,-126.729,-1487.62 1/2:125:0,78,47:0:0:78,47:2785,1658:-361.475,-134.419,-110.939,-227.409,0,-213.26 1/2:378:0,167,210:0:0:167,210:5984,7464:-1094.97,-606.933,-556.661,-488.034,0,-424.817 1/2:323:0,137,186:0:0:137,186:4861,6629:-936.724,-540.698,-499.457,-396.382,0,-340.39 1/2:425:0,176,249:0:0:176,249:6297,8832:-1233.4,-719.915,-666.934,-513.837,0,-438.88 1/2:36:0,20,16:0:0:20,16:720,572:-105.747,-46.9972,-40.9766,-59.1082,0,-54.2917 1/2:8:0,6,2:0:0:6,2:216,72:-23.8592,-6.23466,-4.42848,-17.9843,0,-17.3823 1/2:73:0,28,45:0:0:28,45:1004,1588:-211.552,-129.661,-121.232,-82.247,0,-68.7007 1/1:176:0,176,0:0:0:176,0:6323,0:-569.158,-52.9813,0,-569.158,-52.9813,-569.158 1/1:307:0,305,2:0:0:305,2:10876,72:-978.29,-91.8142,0,-972.415,-85.5795,-971.813 1/1:422:0,419,2:0:0:419,2:14978,72:-1347.41,-126.132,0,-1341.53,-120.203,-1340.93 1/1:157:0,157,0:0:0:157,0:5627,0:-506.549,-47.2617,0,-506.549,-47.2617,-506.549 1/2:164:0,89,75:0:0:89,75:3170,2647:-474.274,-215.898,-189.106,-258.731,0,-236.154 1/2:112:0,49,62:0:0:49,62:1764,2209:-323.978,-180.051,-165.301,-143.925,0,-125.261 1/2:129:0,89,40:0:0:89,40:3174,1423:-375.062,-116.325,-89.5332,-259.093,0,-247.052 1/1:333:0,332,1:0:0:332,1:11899,25:-1070.51,-99.942,0,-1068.57,-97.7431,-1068.26 1/1:111:0,110,1:0:0:110,1:3922,36:-352.776,-33.1133,0,-349.839,-29.8161,-349.537 chr06 35489106 . A C 4918.69 PASS AB=0.430295;ABP=34.4937;AC=11;AF=0.261905;AN=42;AO=325;CIGAR=1X;DP=1644;DPB=1644;DPRA=0.838762;EPP=708.739;EPPR=2865.01;GTI=1;LEN=1;MEANALT=1.07143;MQM=48.6246;MQMR=48.7102;NS=21;NUMALT=1;ODDS=11.8255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11622;QR=47080;RO=1318;RPL=325;RPP=708.739;RPPR=2865.01;RPR=0;RUN=1;SAF=0;SAP=708.739;SAR=325;SRF=0;SRP=2865.01;SRR=1318;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:138,0:138:4929:0:0:0,-41.5421,-439.976 0/0:59:57,2:57:2052:2:72:0,-10.9611,-176.717 0/1:67:32,35:32:1152:35:1260:-92.8513,0,-83.0047 0/0:56:56,0:56:2012:0:0:0,-16.8577,-180.374 0/0:143:141,1:141:5030:1:36:0,-39.4388,-445.214 0/1:72:52,20:52:1868:20:720:-43.1015,0,-146.033 0/1:128:90,38:90:3217:38:1364:-83.8016,0,-249.844 0/1:108:66,42:66:2360:42:1504:-102.01,0,-178.808 0/1:173:90,83:90:3206:83:2971:-213.301,0,-234.332 0/1:14:3,11:3:108:11:396:-31.1595,0,-5.80613 0/1:5:4,1:4:144:1:32:-1.68628,0,-11.7521 0/1:26:18,8:18:625:8:280:-17.5868,0,-48.468 0/0:82:81,1:81:2912:1:36:0,-21.1057,-255.678 0/0:114:114,0:114:4031:0:0:0,-34.3174,-358.488 0/0:113:113,0:113:4029:0:0:0,-34.0164,-357.837 0/0:92:92,0:92:3277:0:0:0,-27.6948,-292.022 0/1:92:37,55:37:1328:55:1947:-146.188,0,-91.1895 0/1:29:12,17:12:428:17:608:-46.0323,0,-29.9623 0/1:32:21,11:21:752:11:396:-26.1547,0,-56.9189 0/0:77:77,0:77:2756:0:0:0,-23.1793,-246.385 0/0:24:24,0:24:864:0:0:0,-7.22472,-77.7435 chr06 35514295 . T C 2714.86 PASS AB=0.418667;ABP=24.5571;AC=9;AF=0.214286;AN=42;AO=157;CIGAR=1X;DP=595;DPB=595;DPRA=2.27273;EPP=212.26;EPPR=189.598;GTI=0;LEN=1;MEANALT=1;MQM=52.4459;MQMR=59.9543;NS=21;NUMALT=1;ODDS=4.36416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5542;QR=15678;RO=438;RPL=0;RPP=343.931;RPPR=954.115;RPR=157;RUN=1;SAF=17;SAP=212.26;SAR=140;SRF=122;SRP=189.598;SRR=316;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:6:4,2:4:144:2:72:-5.01752,0,-11.5074 0/0:18:18,0:18:640:0:0:0,-5.41854,-57.9293 0/0:24:24,0:24:852:0:0:0,-7.22472,-77.0004 0/1:7:5,2:5:176:2:72:-4.71232,0,-14.0778 0/1:21:15,6:15:540:6:212:-13.0584,0,-42.6149 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:13:10,3:10:360:3:108:-6.10581,0,-28.8309 0/1:37:32,5:32:1152:5:180:-5.39048,0,-92.852 0/1:55:28,27:28:1008:27:942:-68.2799,0,-74.4797 0/1:11:8,3:8:284:3:108:-6.62012,0,-22.592 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:194:98,96:98:3504:96:3393:-245.507,0,-257.171 0/1:31:18,13:18:648:13:455:-31.8631,0,-49.32 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.5152 0/0:42:42,0:42:1503:0:0:0,-12.6433,-135.564 chr06 35514325 . AGCA GGCG,GGTG 15194.3 PASS AB=0.569975,0.427481;ABP=19.7246,20.9622;AC=33,9;AF=0.785714,0.214286;AN=42;AO=446,168;CIGAR=1X2M1X,1X1M2X;DP=616;DPB=616;DPRA=0,2.34978;EPP=186.251,235.099;EPPR=0;GTI=0;LEN=4,4;MEANALT=1.52381,2.11111;MQM=59.9081,52.5;MQMR=0;NS=21;NUMALT=2;ODDS=4.16734;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=15656,5781;QR=0;RO=0;RPL=445,167;RPP=962.821,359.183;RPPR=0;RPR=1,1;RUN=1,1;SAF=125,16;SAP=190.049,242.079;SAR=321,152;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:19:0,19,0:0:0:19,0:646,0:-58.4575,-5.71957,0,-58.4575,-5.71957,-58.4575 1/1:18:0,18,0:0:0:18,0:639,0:-57.8308,-5.41854,0,-57.8308,-5.41854,-57.8308 1/2:6:0,4,2:0:0:4,2:144,72:-17.9718,-6.22164,-5.01752,-12.1095,0,-11.5074 1/1:18:0,18,0:0:0:18,0:632,0:-57.2065,-5.41854,0,-57.2065,-5.41854,-57.2065 1/1:23:0,23,0:0:0:23,0:814,0:-73.5804,-6.92369,0,-73.5804,-6.92369,-73.5804 1/2:8:0,6,2:0:0:6,2:203,72:-22.6592,-6.21747,-4.41129,-16.7955,0,-16.1934 1/2:22:0,16,6:0:0:16,6:553,211:-62.4141,-17.4848,-12.6683,-45.2787,0,-43.4725 1/1:8:0,8,0:0:0:8,0:287,0:-26.1765,-2.40824,0,-26.1765,-2.40824,-26.1765 1/2:15:0,12,3:0:0:12,3:417,108:-43.009,-9.11611,-5.50375,-34.2486,0,-33.3455 1/2:38:0,33,5:0:0:33,5:1159,180:-109.348,-15.0234,-5.08945,-94.6823,0,-93.1772 1/2:57:0,28,29:0:0:28,29:993,974:-159.937,-79.0273,-70.5984,-81.255,0,-72.5251 1/2:10:0,8,2:0:0:8,2:283,72:-29.2712,-6.22497,-3.81673,-23.4044,0,-22.8023 1/1:13:0,13,0:0:0:13,0:450,0:-40.8286,-3.91339,0,-40.8286,-3.91339,-40.8286 1/1:12:0,12,0:0:0:12,0:421,0:-38.2242,-3.61236,0,-38.2242,-3.61236,-38.2242 1/1:29:0,29,0:0:0:29,0:1022,0:-92.2917,-8.72987,0,-92.2917,-8.72987,-92.2917 1/1:11:0,11,0:0:0:11,0:375,0:-34.0771,-3.31133,0,-34.0771,-3.31133,-34.0771 1/1:8:0,8,0:0:0:8,0:273,0:-24.9017,-2.40824,0,-24.9017,-2.40824,-24.9017 1/2:206:0,99,106:0:0:99,106:3477,3638:-577.203,-294.398,-264.596,-282.939,0,-251.03 1/2:31:0,18,13:0:0:18,13:635,454:-88.902,-37.1942,-31.7757,-52.0579,0,-48.1445 1/1:21:0,20,0:0:0:20,0:704,0:-63.4207,-6.0206,0,-63.4207,-6.0206,-63.4207 1/1:43:0,43,0:0:0:43,0:1529,0:-137.903,-12.9443,0,-137.903,-12.9443,-137.903 chr06 35797615 . CGCG TGCC,CGCC 43797.3 PASS AB=0.501771,0.495868;ABP=3.03337,3.13592;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1654,432;CIGAR=1X2M1X,3M1X;DP=2097;DPB=2097;DPRA=0,0.758272;EPP=3585.95,941.086;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.28571,2.375;MQM=59.9347,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.86325;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57754,15195;QR=0;RO=0;RPL=1654,432;RPP=3594.63,941.086;RPPR=0;RPR=0,0;RUN=1,1;SAF=1653,432;SAP=3585.95,941.086;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,124,1:0:0:124,1:4315,36:-388.172,-37.3277,0,-385.234,-34.0305,-384.933 1/1:119:0,118,0:0:0:118,0:4130,0:-371.588,-35.5215,0,-371.588,-35.5215,-371.588 1/2:74:0,35,39:0:0:35,39:1211,1388:-211.883,-113.479,-102.943,-98.7551,0,-87.0149 1/1:179:0,178,0:0:0:178,0:6204,0:-558.212,-53.5833,0,-558.212,-53.5833,-558.212 1/1:207:0,198,6:0:0:198,6:6927,208:-623.18,-59.6039,0,-606.274,-42.6397,-604.468 1/2:59:0,30,29:0:0:30,29:1033,1023:-167.547,-83.6519,-74.621,-84.244,0,-75.5141 1/2:172:0,82,90:0:0:82,90:2810,3178:-487.259,-259.151,-234.466,-228.456,0,-201.363 1/2:103:0,52,51:0:0:52,51:1816,1736:-288.883,-141.161,-125.508,-148.066,0,-132.714 1/2:105:0,44,61:0:0:44,61:1554,2153:-302.226,-175.673,-162.428,-126.906,0,-108.543 1/2:11:0,6,5:0:0:6,5:209,180:-32.0363,-15.0469,-13.2407,-17.3439,0,-15.8388 1/2:19:0,11,8:0:0:11,8:372,288:-54.0016,-23.8592,-20.5478,-30.4931,0,-28.0848 1/2:52:0,32,20:0:0:32,20:1112,716:-149.145,-58.7471,-49.1142,-90.7519,0,-84.7313 1/1:57:0,57,0:0:0:57,0:2025,0:-182.522,-17.1587,0,-182.522,-17.1587,-182.522 1/1:161:0,159,0:0:0:159,0:5523,0:-496.809,-47.8638,0,-496.809,-47.8638,-496.809 1/1:96:0,95,0:0:0:95,0:3341,0:-300.559,-28.5979,0,-300.559,-28.5979,-300.559 1/1:101:0,97,3:0:0:97,3:3395,108:-305.435,-29.1999,0,-296.623,-20.3053,-295.72 1/2:107:0,51,55:0:0:51,55:1823,1931:-305.899,-157.254,-141.902,-148.746,0,-132.19 1/2:62:0,34,28:0:0:34,28:1201,985:-178.34,-80.5327,-70.2977,-98.1601,0,-89.7312 1/2:83:0,48,34:0:0:48,34:1698,1193:-235.392,-97.0883,-82.6388,-138.306,0,-128.071 1/1:130:0,129,1:0:0:129,1:4519,36:-406.524,-38.8329,0,-403.586,-35.5356,-403.285 1/1:75:0,74,1:0:0:74,1:2536,36:-228.129,-22.2762,0,-225.191,-18.979,-224.89 chr06 35839339 . TCTTCG CATTCG,CATTCA 59335.3 PASS AB=0.545082,0.449795;ABP=20.2397,24.3779;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1759,445;CIGAR=2X4M,2X3M1X;DP=2218;DPB=2218;DPRA=0,0.833936;EPP=3822.63,969.316;EPPR=0;GTI=1;LEN=2,6;MEANALT=2.38095,2.46667;MQM=57.336,40.2517;MQMR=0;NS=21;NUMALT=2;ODDS=1.99341;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62202,15650;QR=0;RO=0;RPL=953,212;RPP=29.6864,5.16225;RPPR=0;RPR=806,233;RUN=1,1;SAF=953,212;SAP=29.6864,5.16225;SAR=806,233;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:0,127,0:0:0:127,0:4515,0:-405.951,-38.2308,0,-405.951,-38.2308,-405.951 1/1:108:0,107,1:0:0:107,1:3817,35:-342.427,-32.2102,0,-339.737,-29.1876,-339.436 1/2:89:0,46,42:0:0:46,42:1632,1467:-247.739,-115.089,-101.242,-132.728,0,-120.085 1/1:119:0,118,0:0:0:118,0:4152,0:-373.52,-35.5215,0,-373.52,-35.5215,-373.52 1/1:148:0,146,1:0:0:146,1:5188,34:-466.308,-43.9504,0,-463.607,-41.2572,-463.306 1/2:65:0,32,33:0:0:32,33:1127,1168:-181.101,-89.4921,-79.8592,-91.9512,0,-82.0172 1/2:165:0,80,84:0:0:80,84:2764,2963:-449.893,-225.686,-201.603,-224.289,0,-199.002 1/2:92:0,52,40:0:0:52,40:1822,1400:-256.874,-109.007,-93.3534,-148.208,0,-136.167 1/2:173:0,83,88:0:0:83,88:2882,3093:-479.529,-245.349,-220.363,-234.21,0,-207.719 1/2:17:0,11,6:0:0:11,6:392,210:-48.0149,-16.0557,-12.7443,-32.295,0,-30.4888 1/2:8:0,4,4:0:0:4,4:144,143:-23.009,-11.2708,-10.0667,-12.0864,0,-10.8823 1/2:9:0,6,3:0:0:6,3:216,108:-26.385,-8.76948,-6.9633,-17.9656,0,-17.0625 1/1:94:0,93,0:0:0:93,0:3320,0:-298.521,-27.9958,0,-298.521,-27.9958,-298.521 1/1:138:0,136,1:0:0:136,1:4778,32:-428.989,-40.9401,0,-426.413,-38.3731,-426.112 1/1:190:0,188,0:0:0:188,0:6676,0:-599.903,-56.5936,0,-599.903,-56.5936,-599.903 1/1:68:0,67,0:0:0:67,0:2342,0:-210.661,-20.169,0,-210.661,-20.169,-210.661 1/2:70:0,41,29:0:0:41,29:1468,1017:-200.412,-80.6965,-68.3543,-120.064,0,-111.334 1/2:150:0,80,69:0:0:80,69:2850,2443:-422.473,-190.497,-166.415,-232.02,0,-211.249 1/2:138:0,97,41:0:0:97,41:3412,1435:-391.269,-114.051,-84.8511,-277.563,0,-265.221 1/1:129:0,126,3:0:0:126,3:4489,102:-403.274,-37.9298,0,-395.269,-29.5952,-394.366 1/1:120:0,119,0:0:0:119,0:4216,0:-378.96,-35.8226,0,-378.96,-35.8226,-378.96 chr06 35901428 . TT CA 7962.05 PASS AB=0.467351;ABP=12.9359;AC=11;AF=0.261905;AN=42;AO=509;CIGAR=2X;DP=2582;DPB=2582;DPRA=0.804565;EPP=1108.29;EPPR=4504.47;GTI=1;LEN=2;MEANALT=1;MQM=57.1513;MQMR=59.8939;NS=21;NUMALT=1;ODDS=0.227916;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18106;QR=73557;RO=2073;RPL=0;RPP=1108.29;RPPR=4504.47;RPR=509;RUN=1;SAF=509;SAP=1108.29;SAR=0;SRF=2073;SRP=4504.47;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:156:156,0:156:5469:0:0:0,-46.9607,-492.228 0/0:115:115,0:115:4099:0:0:0,-34.6184,-369.094 0/1:76:36,40:36:1279:40:1419:-105.048,0,-92.5341 0/0:115:115,0:115:4099:0:0:0,-34.6184,-369.093 0/0:277:272,5:272:9625:5:180:0,-66.8353,-849.648 0/1:99:46,53:46:1638:53:1880:-138.489,0,-117.905 0/1:191:104,87:104:3732:87:3108:-222.19,0,-278.578 0/1:141:84,57:84:2941:57:2002:-137.809,0,-222.472 0/1:261:135,126:135:4812:126:4485:-324.55,0,-354.66 0/1:16:6,10:6:214:10:356:-27.5501,0,-14.7913 0/1:12:7,5:7:250:5:180:-12.9351,0,-19.2343 0/1:16:5,11:5:180:11:396:-31.1492,0,-11.7356 0/0:120:120,0:120:4209:0:0:0,-36.1236,-378.988 0/0:112:112,0:112:3964:0:0:0,-33.7154,-356.898 0/0:365:365,0:365:12983:0:0:0,-109.876,-1168.26 0/0:115:115,0:115:4073:0:0:0,-34.6184,-366.756 0/1:182:105,77:105:3750:77:2760:-193.325,0,-282.483 0/1:43:23,20:23:810:20:718:-51.9554,0,-60.2751 0/1:35:20,15:20:707:15:514:-36.0346,0,-53.4173 0/0:114:111,3:111:3967:3:108:0,-24.247,-347.132 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 chr06 35901442 . A G 44069.5 PASS AB=0.534402;ABP=13.9168;AC=31;AF=0.738095;AN=42;AO=2041;CIGAR=1X;DP=2546;DPB=2546;DPRA=0;EPP=4365.77;EPPR=1077.96;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.9128;MQMR=57.1451;NS=21;NUMALT=1;ODDS=5.5898;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73045;QR=18035;RO=503;RPL=8;RPP=4365.77;RPPR=1077.96;RPR=2033;RUN=1;SAF=2041;SAP=4434.99;SAR=0;SRF=503;SRP=1095.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,150:0:0:150:5366:-483.062,-45.1545,0 1/1:111:1,110:1:32:110:3952:-352.671,-30.215,0 0/1:74:39,35:39:1400:35:1226:-88.3635,0,-103.952 1/1:115:0,115:0:0:115:4105:-369.634,-34.6185,0 1/1:273:5,268:5:180:268:9597:-847.048,-65.6312,0 0/1:99:53,46:53:1908:46:1656:-119.526,0,-140.983 0/1:189:86,103:86:3079:103:3704:-276.666,0,-220.198 0/1:142:57,85:57:2040:85:3028:-230,0,-140.887 0/1:259:124,135:124:4452:135:4839:-357.681,0,-322.074 0/1:16:10,6:10:356:6:216:-14.974,0,-27.5501 0/1:11:4,7:4:140:7:252:-19.7176,0,-9.63008 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1492 1/1:118:0,118:0:0:118:4201:-378.266,-35.5215,0 1/1:112:0,111:0:0:111:3974:-357.486,-33.4143,0 1/1:359:0,358:0:0:358:12833:-1154.39,-107.769,0 1/1:113:0,113:0:0:113:4025:-362.439,-34.0164,0 0/1:179:75,104:75:2692:104:3732:-281.767,0,-187.933 0/1:43:20,23:20:716:23:820:-61.1777,0,-51.7752 0/1:33:15,18:15:540:18:644:-48.3557,0,-38.9102 1/1:114:3,111:3:104:111:3979:-348.583,-24.6184,0 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 chr06 35958090 . TCG GCA 10289 PASS AB=0.268456;ABP=280.551;AC=28;AF=0.666667;AN=42;AO=503;CIGAR=1X1M1X;DP=1153;DPB=1267.33;DPRA=0.748413;EPP=760.915;EPPR=579.253;GTI=4;LEN=3;MEANALT=1.05556;MQM=59.4553;MQMR=60;NS=21;NUMALT=1;ODDS=2.34371;PAIRED=0;PAIREDR=0;PAO=343;PQA=11899;PQR=0;PRO=0;QA=17593;QR=22636;RO=649;RPL=501;RPP=1077.96;RPPR=1412.3;RPR=2;RUN=1;SAF=40;SAP=775.454;SAR=463;SRF=532;SRP=579.253;SRR=117;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:1,36:1:36:36:1266:-110.649,-7.8994,0 1/1:20:1,19:1:36:19:666:-56.6543,-2.42233,0 0/0:9:9,0:9:306:0:0:0,-2.70927,-27.5198 1/1:57:0,57:0:0:57:2010:-180.813,-17.1587,0 1/1:47:0,47:0:0:47:1644:-147.885,-14.1484,0 0/1:26:14,12:14:471:12:421:-30.3744,0,-34.8842 0/1:43:26,17:26:907:17:571:-38.761,0,-69.0001 0/1:39:22,17:22:752:17:596:-41.8811,0,-55.9192 0/1:68:27,41:27:928:41:1436:-108.909,0,-63.1982 0/0:85:85,0:85:2992:0:0:0,-25.5875,-269.156 0/1:5:4,1:4:141:1:36:-2.09312,0,-11.5318 0/0:116:116,0:116:4023:0:0:0,-34.9195,-361.913 1/1:33:1,32:1:34:32:1091:-95.0653,-6.87529,0 1/1:30:0,30:0:0:30:1057:-95.0862,-9.0309,0 1/1:31:0,31:0:0:31:1087:-96.8374,-9.33193,0 1/1:27:0,27:0:0:27:908:-82.0153,-8.12781,0 0/1:22:13,9:13:459:9:317:-22.2474,0,-35.0226 0/1:317:283,34:283:9903:34:1187:-11.2037,0,-795.462 0/1:76:47,29:47:1648:29:1032:-69.9607,0,-125.378 1/1:23:0,22:0:0:22:787:-70.7995,-6.62266,0 1/1:42:0,42:0:0:42:1481:-133.579,-12.6433,0 chr06 36019754 . AATTA AA 22063.4 PASS AB=0.54185;ABP=9.91692;AC=31;AF=0.738095;AN=42;AO=1077;CIGAR=1M3D1M;DP=1293;DPB=645;DPRA=0;EPP=2341.69;EPPR=463.362;GTI=1;LEN=3;MEANALT=1.09524;MQM=59.585;MQMR=60;NS=21;NUMALT=1;ODDS=6.01601;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37237;QR=7437;RO=212;RPL=0;RPP=2341.69;RPPR=463.362;RPR=1077;RUN=1;SAF=0;SAP=2341.69;SAR=1077;SRF=0;SRP=463.362;SRR=212;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:4,88:4:139:88:3031:-260.134,-14.8426,0 1/1:25:0,25:0:0:25:855:-77.2628,-7.52575,0 0/1:72:27,44:27:952:44:1533:-116.511,0,-64.2617 1/1:103:0,103:0:0:103:3576:-322.027,-31.0061,0 1/1:132:0,132:0:0:132:4547:-409.369,-39.736,0 0/1:17:8,9:8:282:9:316:-23.6613,0,-20.6038 0/1:69:26,43:26:907:43:1511:-115.503,0,-61.1739 0/1:48:29,19:29:1010:19:646:-44.0025,0,-76.7605 0/1:87:41,46:41:1428:46:1608:-118.303,0,-102.625 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:6:1,5:1:36:5:168:-13.6414,0,-1.79209 0/1:36:20,16:20:696:16:548:-38.7988,0,-52.1235 1/1:40:0,40:0:0:40:1374:-123.942,-12.0412,0 1/1:104:1,103:1:36:103:3587:-319.427,-27.7088,0 1/1:121:0,121:0:0:121:4181:-376.464,-36.4246,0 1/1:48:0,48:0:0:48:1655:-149.234,-14.4494,0 0/1:39:15,24:15:539:24:840:-64.1715,0,-37.106 0/1:49:26,23:26:911:23:757:-53.6814,0,-67.5543 0/1:26:10,16:10:357:16:559:-42.8108,0,-24.6455 1/1:128:0,125:0:0:125:4307:-387.433,-37.6288,0 1/1:46:0,46:0:0:46:1602:-144.447,-13.8474,0 chr07 19148 . TCC GCT,GCC 30873 PASS AB=0.533752,0.466248;ABP=9.31337,9.31337;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1189,302;CIGAR=1X1M1X,1X2M;DP=1493;DPB=1493;DPRA=18.6125,0.865801;EPP=2584.89,658.795;EPPR=0;GTI=2;LEN=3,1;MEANALT=1.65,1.91667;MQM=59.1943,59.947;MQMR=0;NS=21;NUMALT=2;ODDS=9.42343;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40928,10712;QR=0;RO=0;RPL=0,0;RPP=2584.89,658.795;RPPR=0;RPR=1189,302;RUN=1,1;SAF=0,0;SAP=2584.89,658.795;SAR=1189,302;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,89,0:0:0:89,0:3043,0:-273.547,-26.7917,0,-273.547,-26.7917,-273.547 1/1:66:0,66,0:0:0:66,0:2280,0:-205.445,-19.868,0,-205.445,-19.868,-205.445 1/2:70:0,35,35:0:0:35,35:1205,1237:-198.962,-101.096,-90.5602,-98.2147,0,-87.6786 1/1:78:0,78,0:0:0:78,0:2657,0:-239.3,-23.4803,0,-239.3,-23.4803,-239.3 1/2:123:0,83,40:0:0:83,40:2868,1432:-350.121,-117.132,-92.1463,-233.343,0,-221.302 1/1:57:0,57,0:0:0:57,0:1929,0:-173.675,-17.1587,0,-173.675,-17.1587,-173.675 1/1:116:0,115,0:0:0:115,0:3951,0:-355.217,-34.6185,0,-355.217,-34.6185,-355.217 1/2:66:0,30,36:0:0:30,36:1019,1292:-188.373,-105.747,-96.7158,-82.9742,0,-72.1371 1/1:159:0,158,1:0:0:158,1:5500,36:-494.454,-47.5627,0,-491.516,-44.2655,-491.215 1/2:6:0,5,1:0:0:5,1:163,36:-16.4296,-3.29724,-1.79209,-13.4865,0,-13.1855 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:28:0,11,17:0:0:11,17:383,612:-81.4355,-50.2959,-46.9846,-31.4923,0,-26.3748 1/2:66:0,36,30:0:0:36,30:1256,1052:-188.092,-85.9568,-75.1197,-102.484,0,-93.4535 1/2:56:0,20,36:0:0:20,36:670,1283:-159.143,-104.922,-98.9012,-54.5641,0,-43.727 1/1:124:0,123,0:0:0:123,0:4255,0:-382.683,-37.0267,0,-382.683,-37.0267,-382.683 1/1:71:0,71,0:0:0:71,0:2425,0:-218.376,-21.3731,0,-218.376,-21.3731,-218.376 1/2:71:0,37,34:0:0:37,34:1285,1199:-202.419,-97.9798,-86.8417,-104.789,0,-94.5542 1/2:86:0,45,41:0:0:45,41:1557,1438:-243.849,-117.372,-103.826,-126.825,0,-114.483 1/2:65:0,38,27:0:0:38,27:1294,951:-182.729,-77.7765,-66.3374,-105.299,0,-97.1714 1/1:62:0,62,0:0:0:62,0:2147,0:-193.486,-18.6639,0,-193.486,-18.6639,-193.486 1/1:30:0,30,0:0:0:30,0:1041,0:-93.9946,-9.0309,0,-93.9946,-9.0309,-93.9946 chr07 42398 . G T 20031.4 PASS AB=0.445095;ABP=20.8939;AC=32;AF=0.761905;AN=42;AO=970;CIGAR=1X;DP=1351;DPB=1351;DPRA=0;EPP=2109.34;EPPR=830.341;GTI=0;LEN=1;MEANALT=1;MQM=59.967;MQMR=59.9974;NS=21;NUMALT=1;ODDS=3.48594;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34491;QR=13642;RO=381;RPL=0;RPP=2109.34;RPPR=830.341;RPR=970;RUN=1;SAF=970;SAP=2109.34;SAR=0;SRF=381;SRP=830.341;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59:0:0:59:2101:-189.358,-17.7608,0 1/1:95:0,95:0:0:95:3355:-302.165,-28.5979,0 0/1:70:37,33:37:1320:33:1188:-86.1565,0,-98.0298 1/1:52:0,52:0:0:52:1849:-166.688,-15.6536,0 0/1:153:72,81:72:2592:81:2894:-214.626,0,-187.47 1/1:66:0,66:0:0:66:2346:-211.396,-19.868,0 1/1:88:2,86:2:72:86:3061:-268.881,-19.6539,0 0/1:66:45,21:45:1593:21:752:-48.1383,0,-123.79 1/1:107:0,107:0:0:107:3779:-340.301,-32.2102,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:15:12,3:12:432:3:108:-5.55972,0,-34.7057 0/1:27:13,14:13:468:14:500:-37.2084,0,-34.3318 0/1:92:71,21:71:2529:21:752:-40.3115,0,-200.165 0/1:59:34,25:34:1220:25:885:-62.2058,0,-92.346 1/1:38:0,38:0:0:38:1368:-123.421,-11.4391,0 1/1:62:0,62:0:0:62:2216:-199.704,-18.6639,0 0/1:72:28,44:28:1008:44:1535:-116.762,0,-69.3618 0/1:81:52,29:52:1872:29:1044:-69.8914,0,-144.376 0/1:48:15,33:15:536:33:1142:-88.632,0,-34.1254 1/1:66:0,66:0:0:66:2360:-212.659,-19.868,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 chr07 82626 . GTTTTTTACTCTCT GTTTTTTAATCTTTCCCT,GTTTTTTTACTCTTTCCCT 43943.7 PASS AB=0.628535,0.362468;ABP=114.654,130.831;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2004,285;CIGAR=8M1X3M4I2M,1M1I11M4I2M;DP=2307;DPB=2986.29;DPRA=0,0.696697;EPP=4354.64,621.88;EPPR=0;GTI=3;LEN=18,19;MEANALT=2.33333,2.83333;MQM=37.9361,37.1965;MQMR=0;NS=21;NUMALT=2;ODDS=4.45739;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69795,9356;QR=0;RO=0;RPL=2004,285;RPP=4354.64,621.88;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4354.64,621.88;SAR=2004,285;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:206:0,202,2:0:0:202,2:7039,72:-599.806,-60.8081,0,-594.385,-55.3734,-593.783 1/1:135:0,135,0:0:0:135,0:4697,0:-406.029,-40.6391,0,-406.029,-40.6391,-406.029 1/2:52:0,35,17:0:0:35,17:1223,576:-137.367,-43.8879,-33.3518,-93.8012,0,-88.6836 1/1:147:0,145,0:0:0:145,0:5037,0:-428.638,-43.6494,0,-428.638,-43.6494,-428.638 1/2:206:0,123,79:0:0:123,79:4335,2567:-526.206,-194.063,-157.037,-332.129,0,-308.348 1/1:82:0,78,0:0:0:78,0:2706,0:-232.503,-23.4803,0,-232.503,-23.4803,-232.503 1/1:228:0,228,0:0:0:228,0:7901,0:-680.443,-68.6348,0,-680.443,-68.6348,-680.443 1/2:103:0,70,32:0:0:70,32:2427,1081:-268.059,-83.2834,-62.2113,-184.742,0,-175.109 1/1:245:0,245,0:0:0:245,0:8487,0:-714.399,-73.7524,0,-714.399,-73.7524,-714.399 1/1:16:0,16,0:0:0:16,0:562,0:-48.1657,-4.81648,0,-48.1657,-4.81648,-48.1657 1/2:13:0,7,6:0:0:7,6:246,192:-34.6595,-15.5849,-13.4777,-19.3999,0,-17.5938 1/2:39:0,31,8:0:0:31,8:1078,261:-102.701,-20.5004,-11.1685,-82.5177,0,-80.1095 1/2:105:0,75,30:0:0:75,30:2593,961:-270.742,-72.9131,-50.3358,-198.139,0,-189.108 1/2:72:0,32,40:0:0:32,40:1122,1285:-183.993,-97.9706,-88.3377,-86.3427,0,-74.3015 1/1:145:0,144,0:0:0:144,0:5048,0:-429.1,-43.3483,0,-429.1,-43.3483,-429.1 1/1:171:0,171,0:0:0:171,0:5959,0:-503.213,-51.4761,0,-503.213,-51.4761,-503.213 1/2:127:0,73,52:0:0:73,52:2564,1715:-323.67,-129.765,-107.79,-193.894,0,-178.24 1/2:31:0,20,11:0:0:20,11:708,362:-82.131,-28.0954,-22.0748,-54.3566,0,-51.0453 1/2:30:0,23,7:0:0:23,7:793,248:-79.5446,-19.0655,-12.1418,-60.8088,0,-58.7016 1/1:127:0,124,1:0:0:124,1:4306,36:-366.3,-37.3277,0,-363.552,-34.5779,-363.251 1/1:27:0,27,0:0:0:27,0:964,0:-83.379,-8.12781,0,-83.379,-8.12781,-83.379 chr07 126473 . G A 32358.9 PASS AB=0.547566;ABP=20.776;AC=32;AF=0.761905;AN=42;AO=1543;CIGAR=1X;DP=1962;DPB=1962;DPRA=0;EPP=3353.59;EPPR=908.514;GTI=0;LEN=1;MEANALT=1.09524;MQM=51.431;MQMR=59.6259;NS=21;NUMALT=1;ODDS=11.1962;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55147;QR=14902;RO=417;RPL=0;RPP=3353.59;RPPR=908.514;RPR=1543;RUN=1;SAF=0;SAP=3353.59;SAR=1543;SRF=0;SRP=908.514;SRR=417;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:167:3,163:3:108:163:5832:-512.806,-40.1575,0 1/1:70:0,70:0:0:70:2503:-223.447,-21.0721,0 0/1:88:35,53:35:1260:53:1904:-144.599,0,-87.2102 1/1:117:1,116:1:21:116:4156:-369.804,-33.1209,0 0/1:203:100,103:100:3571:103:3700:-270.816,0,-260.482 1/1:85:3,82:3:108:82:2932:-251.646,-15.5124,0 1/1:98:0,98:0:0:98:3511:-313.353,-29.5009,0 0/1:85:36,49:36:1292:49:1715:-127.432,0,-90.9738 1/1:157:0,157:0:0:157:5613:-504.348,-47.2617,0 1/1:19:0,19:0:0:19:680:-60.8297,-5.71957,0 0/1:6:4,2:4:144:2:72:-4.99348,0,-11.5074 0/1:45:19,26:19:676:26:936:-70.4342,0,-47.5988 0/1:101:46,54:46:1652:54:1927:-142.733,0,-118.639 0/1:116:55,61:55:1951:61:2192:-162.291,0,-140.934 1/1:100:0,100:0:0:100:3571:-320.982,-30.103,0 1/1:74:0,74:0:0:74:2635:-236.575,-22.2762,0 0/1:64:31,33:31:1103:33:1184:-87.385,0,-79.8852 0/1:111:54,57:54:1940:57:2027:-148.066,0,-141.405 0/1:85:28,57:28:1004:57:2027:-156.443,0,-65.0837 1/1:113:2,111:2:72:111:3967:-346.977,-27.2387,0 1/1:58:0,58:0:0:58:2063:-184.927,-17.4597,0 chr07 127133 . C T 3809.2 PASS AB=0.467611;ABP=7.51149;AC=10;AF=0.238095;AN=42;AO=235;CIGAR=1X;DP=1106;DPB=1106;DPRA=1.1267;EPP=504.657;EPPR=1608.41;GTI=0;LEN=1;MEANALT=1;MQM=58.9319;MQMR=59.9149;NS=21;NUMALT=1;ODDS=7.20007;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8426;QR=31126;RO=870;RPL=2;RPP=496.082;RPPR=1600.42;RPR=233;RUN=1;SAF=1;SAP=504.657;SAR=234;SRF=1;SRP=1883.52;SRR=869;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:112:110,2:110:3947:2:72:0,-26.8786,-348.3 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/1:53:33,20:33:1184:20:720:-49.1742,0,-90.9137 0/0:69:69,0:69:2468:0:0:0,-20.7711,-222.36 0/1:66:36,30:36:1296:30:1080:-77.6346,0,-97.076 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.301 0/0:57:56,0:56:2012:0:0:0,-16.8577,-181.136 0/1:82:44,38:44:1571:38:1368:-97.9342,0,-116.996 0/0:62:62,0:62:2212:0:0:0,-18.6639,-199.345 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:7:4,3:4:144:3:108:-7.96671,0,-11.206 0/1:14:2,12:2:72:12:424:-34.2721,0,-2.6223 0/1:80:28,52:28:1004:52:1858:-143.403,0,-66.5935 0/1:84:42,42:42:1495:42:1504:-110.368,0,-109.544 0/0:88:88,0:88:3143:0:0:0,-26.4906,-283.095 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/1:37:29,8:29:1040:8:288:-15.1293,0,-82.7763 0/1:38:21,17:21:748:17:612:-43.8902,0,-56.2048 0/1:33:24,9:24:864:9:320:-19.2037,0,-68.1486 0/0:58:56,2:56:1999:2:72:0,-10.6249,-173.348 0/0:29:29,0:29:1023:0:0:0,-8.72987,-92.3812 chr07 129664 . CTG CG,CCG 28732 PASS AB=0.518987,0.479606;ABP=5.23675,5.57881;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1056,342;CIGAR=1M1D1M,1M1X1M;DP=1400;DPB=1048;DPRA=0,1.11432;EPP=2296.09,745.654;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.61905,2.09091;MQM=59.9924,59.9942;MQMR=0;NS=21;NUMALT=2;ODDS=13.9453;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36434,12066;QR=0;RO=0;RPL=0,0;RPP=2296.09,745.654;RPPR=0;RPR=1056,342;RUN=1,1;SAF=0,0;SAP=2296.09,745.654;SAR=1056,342;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66,0:0:0:66,0:2284,0:-205.822,-19.868,0,-205.822,-19.868,-205.822 1/1:47:0,47,0:0:0:47,0:1643,0:-148.157,-14.1484,0,-148.157,-14.1484,-148.157 1/2:72:0,30,42:0:0:30,42:1043,1492:-206.729,-121.931,-112.9,-85.1479,0,-72.5047 1/1:94:0,94,0:0:0:94,0:3250,0:-292.727,-28.2968,0,-292.727,-28.2968,-292.727 1/2:176:0,91,85:0:0:91,85:3131,2979:-497.036,-242.755,-215.361,-254.629,0,-229.041 1/1:75:0,75,0:0:0:75,0:2588,0:-233.172,-22.5773,0,-233.172,-22.5773,-233.172 1/1:75:0,75,0:0:0:75,0:2583,0:-232.722,-22.5773,0,-232.722,-22.5773,-232.722 1/2:33:0,12,21:0:0:12,21:420,743:-95.0421,-60.8717,-57.2593,-34.5217,0,-28.2 1/1:104:0,104,0:0:0:104,0:3570,0:-321.518,-31.3071,0,-321.518,-31.3071,-321.518 1/1:16:0,16,0:0:0:16,0:556,0:-50.3672,-4.81648,0,-50.3672,-4.81648,-50.3672 1/2:5:0,2,3:0:0:2,3:72,108:-15.0469,-9.17208,-8.57002,-6.23466,0,-5.33157 1/2:35:0,20,15:0:0:20,15:687,519:-98.3052,-42.5213,-36.5007,-56.1287,0,-51.6132 1/2:69:0,28,40:0:0:28,40:973,1423:-195.066,-115.966,-107.537,-79.0918,0,-67.0506 1/2:77:0,45,32:0:0:45,32:1534,1144:-218.087,-93.6366,-80.0902,-124.8,0,-115.167 1/1:60:0,59,1:0:0:59,1:2043,36:-183.78,-17.7608,0,-180.843,-14.4635,-180.542 1/1:47:0,47,0:0:0:47,0:1611,0:-145.272,-14.1484,0,-145.272,-14.1484,-145.272 1/2:72:0,54,18:0:0:54,18:1904,625:-206.188,-51.1539,-34.8983,-155.382,0,-149.964 1/2:96:0,40,56:0:0:40,56:1343,1970:-269.495,-160.716,-148.675,-109.121,0,-92.2636 1/2:76:0,47,29:0:0:47,29:1592,1027:-213.079,-84.0123,-69.8639,-129.415,0,-120.685 1/1:78:0,78,0:0:0:78,0:2705,0:-243.693,-23.4803,0,-243.693,-23.4803,-243.693 1/1:27:0,26,0:0:0:26,0:902,0:-81.1518,-7.82678,0,-81.1518,-7.82678,-81.1518 chr07 138935 . AG TA 6781.54 PASS AB=0.471861;ABP=9.36491;AC=11;AF=0.261905;AN=42;AO=438;CIGAR=2X;DP=2164;DPB=2164;DPRA=0.798301;EPP=945.449;EPPR=3727.11;GTI=1;LEN=2;MEANALT=1.23077;MQM=59.8813;MQMR=59.9797;NS=21;NUMALT=1;ODDS=2.14695;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15250;QR=59879;RO=1723;RPL=437;RPP=945.449;RPPR=3744.46;RPR=1;RUN=1;SAF=438;SAP=954.115;SAR=0;SRF=1721;SRP=3727.11;SRR=2;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:120:120,0:120:4195:0:0:0,-36.1236,-377.732 0/0:127:127,0:127:4444:0:0:0,-38.2308,-400.132 0/1:87:47,40:47:1614:40:1409:-100.915,0,-119.352 0/0:176:175,1:175:6111:1:36:0,-49.383,-546.413 0/1:222:99,122:99:3450:122:4237:-314.624,0,-243.824 0/0:64:64,0:64:2245:0:0:0,-19.2659,-202.31 0/0:156:156,0:156:5313:0:0:0,-46.9607,-478.312 0/1:76:51,24:51:1789:24:829:-51.7959,0,-138.352 0/0:103:103,0:103:3609:0:0:0,-31.0061,-325.017 0/1:6:4,2:4:142:2:68:-4.65175,0,-11.323 0/1:18:9,8:9:305:8:277:-19.7893,0,-22.3023 0/1:31:25,6:25:859:6:216:-10.4586,0,-68.2893 0/1:125:65,60:65:2261:60:2117:-153.167,0,-166.121 0/1:54:25,29:25:877:29:973:-71.6144,0,-62.9901 0/0:175:175,0:175:6091:0:0:0,-52.6802,-548.3 0/0:117:117,0:117:4036:0:0:0,-35.2205,-363.425 0/1:92:50,42:50:1722:42:1453:-103.362,0,-127.563 0/1:123:58,65:58:2055:65:2252:-165.906,0,-148.195 0/1:90:52,38:52:1818:38:1347:-94.4377,0,-136.804 0/0:122:121,1:121:4186:1:36:0,-33.1274,-373.326 0/0:80:80,0:80:2757:0:0:0,-24.0824,-248.372 chr07 138980 . C A 45004 PASS AB=0.483847;ABP=6.02687;AC=32;AF=0.761905;AN=42;AO=2094;CIGAR=1X;DP=2792;DPB=2792;DPRA=0;EPP=4386.54;EPPR=1458.35;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9971;MQMR=60;NS=21;NUMALT=1;ODDS=26.8327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74898;QR=24745;RO=694;RPL=2075;RPP=4386.54;RPPR=1458.35;RPR=19;RUN=1;SAF=0;SAP=4550.07;SAR=2094;SRF=0;SRP=1510.01;SRR=694;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:271:6,265:6:212:265:9494:-834.989,-62.1543,0 1/1:154:0,154:0:0:154:5506:-495.666,-46.3586,0 0/1:95:51,44:51:1816:44:1569:-112.903,0,-135.124 1/1:124:0,124:0:0:124:4428:-398.69,-37.3277,0 0/1:390:216,174:216:7685:174:6213:-441.863,0,-574.285 1/1:73:0,73:0:0:73:2616:-235.688,-21.9752,0 1/1:150:0,150:0:0:150:5368:-483.251,-45.1545,0 0/1:187:100,86:100:3565:86:3062:-219.496,0,-264.745 1/1:192:0,192:0:0:192:6875:-618.816,-57.7978,0 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 0/1:21:9,12:9:324:12:428:-32.5372,0,-23.1842 0/1:41:22,19:22:779:19:672:-48.4646,0,-58.0898 0/1:99:48,50:48:1704:50:1796:-132.062,0,-123.783 0/1:122:50,72:50:1773:72:2567:-194.554,0,-123.125 1/1:254:1,253:1:36:253:9057:-811.508,-72.8633,0 1/1:95:1,94:1:36:94:3360:-299.019,-24.9996,0 0/1:86:49,36:49:1756:36:1288:-90.2763,0,-132.377 0/1:190:104,85:104:3727:85:3043:-216.845,0,-278.375 0/1:100:34,66:34:1224:66:2372:-183.635,0,-80.364 1/1:72:3,69:3:108:69:2448:-210.498,-11.599,0 1/1:43:0,43:0:0:43:1548:-139.613,-12.9443,0 chr07 175755 . T C 20707 PASS AB=0.518;ABP=4.41741;AC=32;AF=0.761905;AN=42;AO=776;CIGAR=1X;DP=1021;DPB=1021;DPRA=0;EPP=1236.76;EPPR=397.607;GTI=0;LEN=1;MEANALT=1;MQM=46.0322;MQMR=59.9388;NS=21;NUMALT=1;ODDS=9.0932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27461;QR=8666;RO=245;RPL=348;RPP=20.9194;RPPR=8.54977;RPR=428;RUN=1;SAF=402;SAP=5.20416;SAR=374;SRF=127;SRP=3.72822;SRR=118;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,48:0:0:48:1691:-147.178,-14.4494,0 1/1:35:0,35:0:0:35:1243:-109.732,-10.5361,0 0/1:16:10,6:10:333:6:216:-14.7269,0,-25.475 1/1:47:2,45:2:72:45:1612:-135.037,-7.31169,0 0/1:81:44,37:44:1537:37:1295:-89.9552,0,-114.228 1/1:48:1,47:1:32:47:1644:-139.821,-11.2501,0 1/1:64:0,64:0:0:64:2246:-193.465,-19.2659,0 0/1:43:17,26:17:608:26:915:-68.0464,0,-42.1077 1/1:75:0,75:0:0:75:2669:-230.16,-22.5773,0 1/1:7:0,7:0:0:7:252:-22.6204,-2.10721,0 0/1:7:4,3:4:144:3:104:-7.20196,0,-11.2064 0/1:21:14,7:14:500:7:252:-16.1108,0,-39.0145 0/1:60:31,29:31:1108:29:1027:-72.614,0,-81.9692 0/1:56:24,32:24:833:32:1133:-82.3365,0,-58.4268 1/1:54:0,54:0:0:54:1915:-167.537,-16.2556,0 1/1:28:0,28:0:0:28:1004:-87.7464,-8.42884,0 0/1:39:18,21:18:648:21:756:-55.1507,0,-46.9117 0/1:97:53,44:53:1891:44:1575:-109.719,0,-141.268 0/1:80:26,54:26:924:54:1928:-145.251,0,-59.3953 1/1:37:1,36:1:36:36:1279:-108.297,-7.53984,0 1/1:78:0,78:0:0:78:2705:-237.027,-23.4803,0 chr07 175785 . C T 19635.7 PASS AB=0.516966;ABP=4.26291;AC=32;AF=0.761905;AN=42;AO=776;CIGAR=1X;DP=1024;DPB=1024;DPRA=0;EPP=3.41325;EPPR=3.32551;GTI=0;LEN=1;MEANALT=1;MQM=45.6791;MQMR=59.9395;NS=21;NUMALT=1;ODDS=8.99789;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27278;QR=8773;RO=248;RPL=776;RPP=1688.07;RPPR=541.535;RPR=0;RUN=1;SAF=394;SAP=3.41325;SAR=382;SRF=127;SRP=3.32551;SRR=121;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:0,50:0:0:50:1764:-153.52,-15.0515,0 1/1:33:0,33:0:0:33:1180:-104.064,-9.93399,0 0/1:17:11,6:11:392:6:216:-14.4258,0,-30.5007 1/1:47:2,45:2:72:45:1556:-130.638,-7.31169,0 0/1:77:44,33:44:1572:33:1180:-80.8031,0,-118.584 1/1:46:1,45:1:36:45:1520:-128.995,-10.2491,0 1/1:66:0,66:0:0:66:2332:-200.711,-19.868,0 0/1:45:17,28:17:594:28:966:-72.1075,0,-40.2392 1/1:76:0,76:0:0:76:2696:-231.769,-22.8783,0 1/1:7:0,7:0:0:7:248:-22.3599,-2.10721,0 0/1:6:4,2:4:140:2:57:-3.39895,0,-11.1384 0/1:21:14,7:14:487:7:233:-14.5638,0,-37.8376 0/1:60:31,29:31:1093:29:1021:-72.5093,0,-80.6159 0/1:58:25,33:25:896:33:1184:-85.9165,0,-63.5002 1/1:52:2,50:2:72:50:1732:-144.633,-8.81684,0 1/1:30:0,30:0:0:30:1072:-93.6679,-9.0309,0 0/1:39:19,20:19:660:20:711:-51.1245,0,-47.9804 0/1:95:51,44:51:1805:44:1569:-109.897,0,-134.132 0/1:83:26,57:26:918:57:2010:-151.731,0,-57.9498 1/1:36:1,35:1:36:35:1240:-104.747,-7.23881,0 1/1:80:0,80:0:0:80:2791:-244.498,-24.0824,0 chr07 190882 . TGCC GGCT 12517.9 PASS AB=0.613333;ABP=36.4799;AC=33;AF=0.785714;AN=42;AO=611;CIGAR=1X2M1X;DP=734;DPB=734;DPRA=0;EPP=1312.47;EPPR=254.901;GTI=2;LEN=4;MEANALT=1.28571;MQM=59.9149;MQMR=60;NS=21;NUMALT=1;ODDS=2.56791;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21127;QR=3920;RO=116;RPL=2;RPP=1312.47;RPPR=254.901;RPR=609;RUN=1;SAF=0;SAP=1329.78;SAR=611;SRF=0;SRP=254.901;SRR=116;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,31:0:0:31:1080:-97.5076,-9.33193,0 1/1:33:0,31:0:0:31:1073:-96.4904,-9.33193,0 0/1:35:13,21:13:434:21:741:-56.4186,0,-28.7868 1/1:19:0,19:0:0:19:663:-59.9932,-5.71957,0 0/1:41:11,30:11:369:30:1059:-83.2786,0,-21.1908 1/1:24:0,24:0:0:24:836:-75.5565,-7.22472,0 1/1:45:0,45:0:0:45:1558:-140.508,-13.5464,0 0/1:26:10,16:10:337:16:542:-41.2736,0,-22.8294 1/1:85:1,83:1:36:83:2859:-253.949,-22.0481,0 1/1:5:0,5:0:0:5:165:-15.174,-1.50515,0 0/1:9:2,7:2:59:7:250:-20.1375,0,-2.89499 0/1:19:10,9:10:340:9:317:-23.1498,0,-25.2083 0/1:45:12,32:12:410:32:1065:-82.6023,0,-23.6785 0/1:32:11,20:11:375:20:671:-51.069,0,-24.4429 1/1:67:0,67:0:0:67:2324:-209.421,-20.169,0 1/1:25:0,25:0:0:25:849:-76.7193,-7.52575,0 1/1:24:1,23:1:28:23:801:-69.6083,-4.42499,0 0/1:68:40,28:40:1363:28:988:-68.7635,0,-102.493 0/1:25:4,21:4:133:21:721:-57.682,0,-4.77285 1/1:52:1,51:1:36:51:1765:-155.53,-12.0553,0 1/1:24:0,23:0:0:23:800:-71.9586,-6.92369,0 chr07 190912 . C T 1514.17 PASS AB=0.375839;ABP=42.9129;AC=9;AF=0.214286;AN=42;AO=115;CIGAR=1X;DP=733;DPB=733;DPRA=1.24185;EPP=252.73;EPPR=1342.81;GTI=2;LEN=1;MEANALT=1.08333;MQM=59.9478;MQMR=59.9287;NS=21;NUMALT=1;ODDS=0.371497;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4062;QR=22034;RO=617;RPL=115;RPP=252.73;RPPR=1342.81;RPR=0;RUN=1;SAF=0;SAP=252.73;SAR=115;SRF=0;SRP=1342.81;SRR=617;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:34:34,0:34:1205:0:0:0,-10.235,-108.698 0/1:34:21,13:21:756:13:453:-30.8646,0,-58.1322 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.888 0/1:41:29,11:29:1029:11:381:-22.2207,0,-80.5203 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7217 0/0:45:45,0:45:1589:0:0:0,-13.5463,-143.298 0/1:27:16,11:16:572:11:394:-27.6708,0,-43.6856 0/0:84:83,1:83:2969:1:36:0,-21.6882,-263.84 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5474 0/1:8:7,1:7:252:1:36:-1.19004,0,-20.6207 0/1:19:9,10:9:324:10:341:-25.2982,0,-23.7863 0/1:45:33,12:33:1165:12:432:-25.6748,0,-91.6087 0/1:31:20,11:20:716:11:392:-26.2881,0,-55.4358 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.85 0/0:25:25,0:25:881:0:0:0,-7.52575,-79.6059 0/0:24:23,1:23:828:1:36:0,-3.62644,-71.2458 0/1:68:29,39:29:1044:39:1381:-104.117,0,-73.8048 0/1:25:21,4:21:752:4:144:-5.78787,0,-60.4805 0/0:51:50,1:50:1780:1:36:0,-11.7543,-156.88 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 chr07 225003 . C A 6995.67 PASS AB=0.545455;ABP=16.4339;AC=10;AF=0.238095;AN=42;AO=414;CIGAR=1X;DP=1420;DPB=1420;DPRA=1.26385;EPP=902;EPPR=2187.51;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.55804;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14793;QR=35719;RO=1006;RPL=0;RPP=902;RPPR=2187.51;RPR=414;RUN=1;SAF=0;SAP=902;SAR=414;SRF=0;SRP=2187.51;SRR=1006;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:100:100,0:100:3580:0:0:0,-30.103,-322.407 0/0:46:46,0:46:1640:0:0:0,-13.8474,-147.889 0/1:75:44,31:44:1561:31:1112:-77.8141,0,-118.202 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/1:88:46,42:46:1648:42:1492:-108.084,0,-122.118 0/0:43:40,3:40:1420:3:108:0,-2.86912,-118.022 0/0:62:60,2:60:2096:2:72:0,-11.8271,-182.069 0/1:140:64,76:64:2223:76:2716:-202.54,0,-158.184 0/0:103:103,0:103:3660:0:0:0,-31.0061,-329.604 0/0:10:10,0:10:348:0:0:0,-3.0103,-31.6551 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:20:5,15:5:180:15:536:-42.5542,0,-10.5315 0/1:79:32,47:32:1132:47:1671:-126.895,0,-78.4072 0/1:58:31,27:31:1099:27:972:-70.3382,0,-81.7597 0/0:102:101,1:101:3600:1:36:0,-27.1068,-320.607 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:98:35,63:35:1237:63:2250:-173.262,0,-82.1314 0/1:136:58,78:58:2063:78:2788:-210.221,0,-145 0/1:48:21,27:21:739:27:968:-72.9879,0,-52.3829 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/0:56:56,0:56:1973:0:0:0,-16.8577,-177.843 chr07 249326 . G A 28356.2 PASS AB=0.53762;ABP=11.9962;AC=32;AF=0.761905;AN=42;AO=1333;CIGAR=1X;DP=1674;DPB=1674;DPRA=0;EPP=2897.58;EPPR=739.139;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.4531;MQMR=59.8761;NS=21;NUMALT=1;ODDS=15.8684;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47557;QR=11969;RO=339;RPL=1332;RPP=2888.9;RPPR=730.479;RPR=1;RUN=1;SAF=1332;SAP=2888.9;SAR=1;SRF=338;SRP=730.479;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71:0:0:71:2535:-228.367,-21.3731,0 1/1:49:0,49:0:0:49:1741:-156.917,-14.7505,0 0/1:102:50,52:50:1766:52:1859:-136.879,0,-128.517 1/1:72:0,72:0:0:72:2572:-231.633,-21.6742,0 0/1:79:30,48:30:1057:48:1720:-131.387,0,-71.7441 1/1:60:0,60:0:0:60:2107:-189.785,-18.0618,0 1/1:149:1,148:1:32:148:5269:-471.044,-41.6542,0 0/1:127:56,71:56:1994:71:2536:-190.226,0,-141.502 1/1:167:0,167:0:0:167:5990:-539.166,-50.272,0 1/1:22:0,22:0:0:22:788:-71.2359,-6.62266,0 0/1:9:6,3:6:201:3:108:-7.3659,0,-15.7 0/1:33:26,7:26:924:7:244:-12.3654,0,-73.5391 0/1:20:10,10:10:342:10:360:-26.7191,0,-25.0881 0/1:63:28,34:28:1000:34:1216:-90.7211,0,-71.2918 1/1:156:0,156:0:0:156:5571:-501.47,-46.9607,0 1/1:51:0,51:0:0:51:1814:-163.525,-15.3525,0 0/1:68:34,34:34:1207:34:1224:-89.9847,0,-88.4629 0/1:160:71,89:71:2501:89:3165:-236.878,0,-177.178 0/1:70:25,45:25:888:45:1591:-122.316,0,-59.1669 1/1:76:1,75:1:21:75:2684:-239.668,-20.7785,0 1/1:70:1,69:1:36:69:2463:-218.286,-17.4738,0 chr07 250813 . A G 6570.66 PASS AB=0.488199;ABP=3.98409;AC=11;AF=0.261905;AN=42;AO=398;CIGAR=1X;DP=1858;DPB=1858;DPRA=0.814471;EPP=867.256;EPPR=3156.01;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9884;NS=21;NUMALT=1;ODDS=12.1988;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14204;QR=52375;RO=1460;RPL=0;RPP=867.256;RPPR=3156.01;RPR=398;RUN=1;SAF=398;SAP=867.256;SAR=0;SRF=1460;SRP=3173.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:97:97,0:97:3488:0:0:0,-29.1999,-314.13 0/0:67:67,0:67:2412:0:0:0,-20.169,-217.336 0/1:66:25,41:25:900:41:1468:-112.548,0,-61.453 0/0:101:101,0:101:3620:0:0:0,-30.404,-326.005 0/1:210:109,101:109:3916:101:3601:-261.079,0,-289.415 0/0:120:120,0:120:4316:0:0:0,-36.1236,-388.614 0/0:151:151,0:151:5405:0:0:0,-45.4555,-486.579 0/1:90:51,39:51:1832:39:1379:-97.3147,0,-138.068 0/0:195:195,0:195:6985:0:0:0,-58.7008,-628.711 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:37:18,19:18:648:19:678:-50.2102,0,-47.5138 0/1:95:48,47:48:1720:47:1692:-123.969,0,-126.488 0/1:56:28,28:28:1004:28:1008:-74.1787,0,-73.8182 0/0:137:137,0:137:4885:0:0:0,-41.2411,-439.772 0/0:66:66,0:66:2360:0:0:0,-19.868,-212.659 0/1:92:42,50:42:1508:50:1792:-133.868,0,-108.32 0/1:91:48,43:48:1728:43:1519:-109.609,0,-128.412 0/1:68:43,25:43:1548:25:887:-59.6781,0,-119.143 0/0:69:68,1:68:2448:1:36:0,-17.1728,-216.976 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 chr07 250846 . G A 30656.3 PASS AB=0.510559;ABP=3.78987;AC=31;AF=0.738095;AN=42;AO=1449;CIGAR=1X;DP=1854;DPB=1854;DPRA=23.125;EPP=3149.47;EPPR=882.457;GTI=1;LEN=1;MEANALT=1;MQM=59.9676;MQMR=60;NS=21;NUMALT=1;ODDS=11.7542;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51656;QR=14209;RO=405;RPL=1449;RPP=3149.47;RPPR=882.457;RPR=0;RUN=1;SAF=1449;SAP=3149.47;SAR=0;SRF=405;SRP=882.457;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,93:0:0:93:3324:-299.378,-27.9958,0 1/1:67:0,67:0:0:67:2384:-214.818,-20.169,0 0/1:66:41,25:41:1442:25:892:-60.7317,0,-110.206 1/1:98:0,98:0:0:98:3484:-313.773,-29.5009,0 0/1:209:99,110:99:3501:110:3923:-290.348,0,-252.387 1/1:124:0,124:0:0:124:4444:-400.13,-37.3277,0 1/1:154:3,151:3:108:151:5403:-476.323,-36.2835,0 0/1:91:40,51:40:1415:51:1818:-136.507,0,-100.253 1/1:195:1,194:1:36:194:6922:-619.449,-55.1026,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/0:4:4,0:4:135:0:0:0,-1.20412,-12.4825 0/1:35:18,17:18:648:17:608:-44.516,0,-48.1158 0/1:95:47,48:47:1662:48:1707:-125.317,0,-121.268 0/1:59:31,28:31:1070:28:1004:-72.9151,0,-78.8426 1/1:137:0,137:0:0:137:4882:-439.528,-41.2411,0 1/1:63:0,63:0:0:63:2245:-202.312,-18.9649,0 0/1:90:51,39:51:1774:39:1384:-97.7661,0,-132.846 0/1:91:41,50:41:1415:50:1778:-132.908,0,-100.248 0/1:69:26,43:26:895:43:1518:-116.141,0,-60.0887 1/1:68:3,65:3:108:65:2307:-197.759,-10.3949,0 1/1:31:0,31:0:0:31:1089:-98.3171,-9.33193,0 chr07 278153 . C T 34424.4 PASS AB=0.549923;ABP=31.1961;AC=32;AF=0.761905;AN=42;AO=1381;CIGAR=1X;DP=1978;DPB=1978;DPRA=0;EPP=400.839;EPPR=582.073;GTI=0;LEN=1;MEANALT=1;MQM=51.9356;MQMR=51.8141;NS=21;NUMALT=1;ODDS=6.49108;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49011;QR=20960;RO=597;RPL=1381;RPP=3001.81;RPPR=1299.38;RPR=0;RUN=1;SAF=942;SAP=400.839;SAR=439;SRF=498;SRP=582.073;SRR=99;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:1,66:1:36:66:2364:-207.861,-16.5776,0 1/1:38:1,37:1:36:37:1328:-115.231,-7.84087,0 0/1:14:7,7:7:237:7:252:-18.7901,0,-17.4194 1/1:38:0,38:0:0:38:1333:-120.048,-11.4391,0 0/1:98:40,58:40:1412:58:2049:-152.977,0,-97.2877 1/1:44:1,43:1:32:43:1544:-135.546,-10.0665,0 1/1:42:2,40:2:72:40:1415:-119.062,-5.82373,0 0/1:57:28,29:28:996:29:1020:-74.0672,0,-72.4199 1/1:60:0,60:0:0:60:2102:-188.918,-18.0618,0 1/1:194:2,192:2:72:192:6808:-602.663,-51.5855,0 0/1:144:56,88:56:1977:88:3122:-235.841,0,-133.503 0/1:105:54,51:54:1920:51:1823:-132.199,0,-140.555 0/1:62:22,40:22:792:40:1428:-109.994,0,-52.8814 0/1:43:18,25:18:644:25:881:-66.5423,0,-45.1397 1/1:37:0,37:0:0:37:1328:-119.618,-11.1381,0 1/1:30:0,30:0:0:30:1076:-96.8783,-9.0309,0 0/1:21:7,14:7:252:14:504:-39.3573,0,-16.6962 0/1:676:327,349:327:11402:349:12310:-897.415,0,-816.085 0/1:82:27,55:27:936:55:1964:-150.901,0,-59.7713 1/1:53:3,50:3:108:50:1784:-150.262,-5.90143,0 1/1:73:1,72:1:36:72:2576:-227.577,-18.3964,0 chr07 278465 . C T 13546.8 PASS AB=0.508251;ABP=3.18946;AC=34;AF=0.809524;AN=42;AO=526;CIGAR=1X;DP=681;DPB=681;DPRA=0;EPP=192.069;EPPR=18.2666;GTI=0;LEN=1;MEANALT=1;MQM=59.9125;MQMR=60;NS=21;NUMALT=1;ODDS=3.8291;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18554;QR=5524;RO=155;RPL=2;RPP=1127.9;RPPR=330.959;RPR=524;RUN=1;SAF=372;SAP=199.202;SAR=154;SRF=95;SRP=20.1719;SRR=60;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:16:1,15:1:36:15:521:-43.6189,-1.21821,0 1/1:25:0,25:0:0:25:850:-76.8087,-7.52575,0 0/1:5:3,2:3:108:2:63:-4.478,0,-8.57002 1/1:20:0,20:0:0:20:704:-63.6621,-6.0206,0 0/1:35:14,21:14:491:21:738:-56.2066,0,-33.9851 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:15:0,15:0:0:15:525:-47.5781,-4.51545,0 0/1:45:24,21:24:856:21:756:-54.8153,0,-63.8148 1/1:22:0,22:0:0:22:773:-69.8895,-6.62266,0 1/1:39:0,39:0:0:39:1400:-126.299,-11.7402,0 1/1:53:1,52:1:36:52:1849:-163.091,-12.3563,0 1/1:67:4,63:4:144:63:2260:-190.323,-6.85539,0 0/1:51:32,19:32:1133:19:657:-44.0974,0,-86.9241 0/1:19:9,10:9:324:10:356:-26.6617,0,-23.7863 1/1:39:0,39:0:0:39:1385:-124.947,-11.7402,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/1:73:40,33:40:1432:33:1156:-82.3671,0,-107.202 0/1:64:24,40:24:856:40:1394:-106.486,0,-58.0952 1/1:15:0,15:0:0:15:526:-47.6696,-4.51545,0 1/1:42:0,42:0:0:42:1461:-131.78,-12.6433,0 chr07 282021 . A G 21632.7 PASS AB=0.553506;ABP=36.7042;AC=27;AF=0.642857;AN=42;AO=1115;CIGAR=1X;DP=1727;DPB=1727;DPRA=0;EPP=2372.37;EPPR=1310.29;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9883;MQMR=59.9738;NS=21;NUMALT=1;ODDS=13.6534;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39805;QR=21893;RO=610;RPL=1109;RPP=2372.37;RPPR=1310.29;RPR=6;RUN=1;SAF=1115;SAP=2424.2;SAR=0;SRF=610;SRP=1327.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:23,36:23:824:36:1263:-96.2091,0,-56.7225 0/1:63:25,38:25:896:38:1364:-104.096,0,-61.9955 0/1:71:46,25:46:1652:25:900:-59.9479,0,-127.595 1/1:95:1,94:1:36:94:3371:-300.007,-24.9996,0 0/1:279:92,187:92:3300:187:6650:-514.594,0,-213.231 1/1:51:0,51:0:0:51:1832:-165.161,-15.3525,0 1/1:122:1,121:1:36:121:4322:-385.557,-33.1274,0 0/1:68:47,21:47:1688:21:747:-47.0851,0,-131.737 0/1:68:29,39:29:1044:39:1400:-105.829,0,-73.8048 0/1:17:12,5:12:432:5:180:-11.4346,0,-34.1037 1/1:11:0,11:0:0:11:385:-34.9842,-3.31133,0 0/1:28:18,10:18:644:10:360:-24.3155,0,-49.8618 0/1:91:40,51:40:1440:51:1802:-135.064,0,-102.504 0/1:90:32,58:32:1148:58:2072:-159.658,0,-76.481 0/1:108:30,78:30:1080:78:2784:-218.29,0,-65.002 0/1:122:48,74:48:1728:74:2648:-201.841,0,-119.08 0/1:181:94,85:94:3372:85:3048:-220.305,0,-249.451 0/1:68:38,30:38:1368:30:1065:-75.6897,0,-102.951 0/1:42:29,13:29:1025:13:464:-29.4542,0,-79.9174 1/1:48:4,44:4:144:44:1572:-128.457,-1.13582,0 1/1:45:1,44:1:36:44:1576:-138.533,-9.94808,0 chr07 282163 . G A 2612.63 PASS AB=0.306268;ABP=231.862;AC=11;AF=0.261905;AN=42;AO=225;CIGAR=1X;DP=1406;DPB=1406;DPRA=1.70427;EPP=482.944;EPPR=2524.27;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9881;NS=21;NUMALT=1;ODDS=9.85792;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8037;QR=42187;RO=1181;RPL=224;RPP=482.944;RPPR=2524.27;RPR=1;RUN=1;SAF=0;SAP=491.592;SAR=225;SRF=0;SRP=2567.52;SRR=1181;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:50,28:50:1788:28:1004:-67.1955,0,-137.722 0/1:27:16,11:16:572:11:392:-27.4922,0,-43.6856 0/1:94:61,33:61:2188:33:1188:-78.9318,0,-168.889 0/0:28:28,0:28:991:0:0:0,-8.42884,-89.5035 0/0:298:289,9:289:10304:9:324:0,-60.2011,-897.777 0/0:43:43,0:43:1516:0:0:0,-12.9443,-136.73 0/0:58:58,0:58:2064:0:0:0,-17.4597,-186.031 0/1:57:45,12:45:1595:12:432:-22.0625,0,-126.681 0/1:69:54,15:54:1931:15:525:-26.807,0,-153.295 0/1:21:12,9:12:432:9:324:-23.1842,0,-32.8996 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:20:17,3:17:612:3:108:-4.05457,0,-49.3928 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.173 0/0:55:55,0:55:1968:0:0:0,-16.5566,-177.395 0/1:157:108,49:108:3876:49:1732:-108.9,0,-301.772 0/1:86:58,28:58:2080:28:1004:-64.7873,0,-161.582 0/0:119:119,0:119:4254:0:0:0,-35.8226,-383.036 0/1:72:52,20:52:1860:20:716:-43.0936,0,-146.005 0/1:21:14,7:14:504:7:252:-16.7073,0,-39.3765 0/0:33:32,1:32:1148:1:36:0,-6.33571,-100.032 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 chr07 313208 . GA AT,GT 54498.6 PASS AB=0.535398,0.462389;ABP=12.8492,14.1175;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1759,428;CIGAR=2X,1M1X;DP=2190;DPB=2190;DPRA=0,1.05757;EPP=1054.71,822.914;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.85714,2.13333;MQM=54.1916,59.8037;MQMR=0;NS=21;NUMALT=2;ODDS=11.4266;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61360,15133;QR=0;RO=0;RPL=1341,415;RPP=1054.71,822.914;RPPR=0;RPR=418,13;RUN=1,1;SAF=0,0;SAP=3822.63,932.4;SAR=1759,428;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:204:0,203,1:0:0:203,1:7006,36:-627.679,-61.1091,0,-624.742,-57.8118,-624.441 1/1:113:0,113,0:0:0:113,0:3945,0:-352.878,-34.0164,0,-352.878,-34.0164,-352.878 1/2:57:0,30,27:0:0:30,27:1050,944:-162.414,-77.1449,-68.114,-85.6186,0,-77.4908 1/1:114:0,113,1:0:0:113,1:3934,36:-353.078,-34.0164,0,-350.141,-30.7191,-349.84 1/2:245:0,134,110:0:0:134,110:4710,3877:-696.913,-315.029,-274.691,-381.876,0,-348.763 1/1:106:0,104,2:0:0:104,2:3665,72:-327.844,-31.3071,0,-321.969,-25.0725,-321.367 1/1:125:0,124,0:0:0:124,0:4327,0:-387.821,-37.3277,0,-387.821,-37.3277,-387.821 1/2:81:0,47,34:0:0:47,34:1616,1208:-229.45,-98.7911,-84.6427,-131.009,0,-120.774 1/1:145:0,144,1:0:0:144,1:5038,36:-451.631,-43.3483,0,-448.694,-40.0511,-448.393 1/1:12:0,12,0:0:0:12,0:417,0:-37.8111,-3.61236,0,-37.8111,-3.61236,-37.8111 1/2:10:0,5,5:0:0:5,5:178,180:-29.2653,-15.0469,-13.5418,-14.573,0,-13.0679 1/2:20:0,13,7:0:0:13,7:438,244:-54.928,-20.1919,-16.2785,-35.0782,0,-32.971 1/2:112:0,48,64:0:0:48,64:1678,2257:-319.406,-183.898,-169.448,-135.858,0,-116.592 1/2:116:0,64,52:0:0:64,52:2175,1830:-325.475,-149.327,-130.061,-176.494,0,-160.841 1/1:189:0,189,0:0:0:189,0:6646,0:-597.327,-56.8947,0,-597.327,-56.8947,-597.327 1/1:111:0,111,0:0:0:111,0:3873,0:-348.662,-33.4143,0,-348.662,-33.4143,-348.662 1/2:147:0,83,64:0:0:83,64:2915,2288:-423.292,-186.916,-161.93,-236.73,0,-217.464 1/2:64:0,26,38:0:0:26,38:927,1345:-184.909,-109.907,-102.081,-75.3558,0,-63.9166 1/2:52:0,34,17:0:0:34,17:1214,608:-148.431,-49.699,-39.464,-98.852,0,-93.7345 1/1:116:0,111,5:0:0:111,5:3842,172:-344.577,-33.4143,0,-330.608,-19.1015,-329.103 1/1:51:0,51,0:0:0:51,0:1766,0:-158.723,-15.3525,0,-158.723,-15.3525,-158.723 chr07 313221 . TGAAA AGAAT,AGAAA 46853.7 PASS AB=0.528587,0.470334;ABP=9.59031,10.0963;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1765,445;CIGAR=1X3M1X,1X4M;DP=2214;DPB=2214;DPRA=0,1.00127;EPP=3835.66,969.316;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.90476,2.13333;MQM=54.2034,59.8112;MQMR=0;NS=21;NUMALT=2;ODDS=10.2219;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62138,15876;QR=0;RO=0;RPL=1765,445;RPP=3835.66,969.316;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3835.66,969.316;SAR=1765,445;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:205:0,204,1:0:0:204,1:7144,36:-640.378,-61.4101,0,-637.441,-58.1129,-637.14 1/1:113:0,112,1:0:0:112,1:3969,32:-354.609,-33.7154,0,-352.031,-30.8171,-351.73 1/2:58:0,31,27:0:0:31,27:1095,964:-167.938,-78.9481,-69.6162,-89.3449,0,-81.2171 1/1:115:0,114,1:0:0:114,1:3995,36:-358.706,-34.3174,0,-355.768,-31.0202,-355.467 1/2:250:0,136,114:0:0:136,114:4766,4078:-718.71,-332.618,-291.678,-386.445,0,-352.128 1/1:106:0,105,1:0:0:105,1:3692,36:-330.354,-31.6082,0,-327.417,-28.3109,-327.116 1/1:125:0,125,0:0:0:125,0:4387,0:-393.621,-37.6288,0,-393.621,-37.6288,-393.621 1/2:83:0,47,35:0:0:47,35:1621,1252:-233.265,-102.149,-88.0009,-131.167,0,-120.631 1/1:144:0,143,0:0:0:143,0:5055,0:-454.368,-43.0473,0,-454.368,-43.0473,-454.368 1/1:12:0,12,0:0:0:12,0:419,0:-37.9934,-3.61236,0,-37.9934,-3.61236,-37.9934 1/2:10:0,5,5:0:0:5,5:180,180:-29.4106,-15.0469,-13.5418,-14.72,0,-13.2148 1/2:21:0,13,8:0:0:13,8:448,275:-58.24,-22.6749,-18.7615,-35.9064,0,-33.4981 1/2:113:0,48,65:0:0:48,65:1697,2321:-326.32,-189.309,-174.86,-137.364,0,-117.797 1/2:123:0,65,58:0:0:65,58:2252,2063:-351.231,-168.481,-148.914,-183.101,0,-165.642 1/1:189:0,188,0:0:0:188,0:6652,0:-597.415,-56.5936,0,-597.415,-56.5936,-597.415 1/1:111:0,111,0:0:0:111,0:3955,0:-355.94,-33.4143,0,-355.94,-33.4143,-355.94 1/2:151:0,84,67:0:0:84,67:2986,2403:-438.492,-196.357,-171.07,-242.491,0,-222.322 1/2:64:0,26,38:0:0:26,38:931,1364:-186.637,-111.62,-103.793,-75.3732,0,-63.9341 1/2:54:0,35,19:0:0:35,19:1251,660:-155.675,-54.0019,-43.4658,-102.024,0,-96.3043 1/1:116:0,110,5:0:0:110,5:3843,176:-344.673,-33.1133,0,-330.345,-18.7919,-328.84 1/1:51:0,51,0:0:0:51,0:1800,0:-161.138,-15.3525,0,-161.138,-15.3525,-161.138 chr07 342883 . AA TG 5309.8 PASS AB=0.577982;ABP=31.7973;AC=10;AF=0.238095;AN=42;AO=317;CIGAR=2X;DP=1130;DPB=1130;DPRA=0.892442;EPP=691.367;EPPR=1748.92;GTI=0;LEN=2;MEANALT=1.08333;MQM=59.2618;MQMR=59.9126;NS=21;NUMALT=1;ODDS=2.90342;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11144;QR=28664;RO=812;RPL=0;RPP=691.367;RPPR=1748.92;RPR=317;RUN=1;SAF=317;SAP=691.367;SAR=0;SRF=812;SRP=1766.25;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:70,0:70:2460:0:0:0,-21.0721,-221.655 0/0:17:16,1:16:561:1:34:0,-1.7186,-47.4193 0/1:72:35,37:35:1221:37:1317:-97.1449,0,-88.5187 0/0:40:40,0:40:1404:0:0:0,-12.0412,-126.656 0/1:111:30,81:30:1047:81:2848:-222.641,0,-61.1238 0/0:17:17,0:17:597:0:0:0,-5.11751,-54.0567 0/0:99:99,0:99:3486:0:0:0,-29.802,-313.953 0/1:32:11,21:11:381:21:748:-57.97,0,-24.9888 0/0:137:137,0:137:4824:0:0:0,-41.2411,-434.12 0/0:22:22,0:22:790:0:0:0,-6.62266,-71.4253 0/1:8:1,7:1:36:7:252:-20.6124,0,-1.19003 0/1:16:8,8:8:288:8:286:-21.269,0,-21.4509 0/1:78:29,49:29:1023:49:1682:-128.097,0,-68.9015 0/1:87:44,43:44:1561:43:1513:-110.232,0,-114.591 0/0:79:79,0:79:2803:0:0:0,-23.7814,-252.512 0/0:25:25,0:25:878:0:0:0,-7.52575,-79.3366 0/1:50:16,33:16:559:33:1158:-89.5189,0,-35.6312 0/1:52:30,22:30:1080:22:779:-54.769,0,-81.8597 0/1:39:25,14:25:900:14:493:-32.9568,0,-69.5808 0/0:52:51,1:51:1801:1:34:0,-12.2546,-157.952 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0772 chr07 349100 . TGATATAT TT 8306.75 PASS AB=0.596392;ABP=74.5954;AC=10;AF=0.238095;AN=42;AO=531;CIGAR=1M6D1M;DP=1977;DPB=1578.88;DPRA=1.07156;EPP=1156.06;EPPR=3132.1;GTI=0;LEN=6;MEANALT=1.33333;MQM=42.1431;MQMR=59.9757;NS=21;NUMALT=1;ODDS=0.841188;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=18279;QR=50546;RO=1441;RPL=531;RPP=1156.06;RPPR=3132.1;RPR=0;RUN=1;SAF=531;SAP=1156.06;SAR=0;SRF=1441;SRP=3132.1;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:179:178,1:178:6284:1:36:0,-50.3482,-562.132 0/0:66:66,0:66:2332:0:0:0,-19.868,-210.143 0/1:121:43,76:43:1515:76:2622:-196.381,0,-100.461 0/0:97:95,1:95:3311:1:32:0,-26.064,-295.017 0/1:140:42,98:42:1488:98:3396:-258.034,0,-92.0708 0/0:109:109,0:109:3835:0:0:0,-32.8123,-345.353 0/0:120:120,0:120:4167:0:0:0,-36.1236,-375.227 0/1:96:45,51:45:1566:51:1741:-116.404,0,-112.33 0/0:159:159,0:159:5555:0:0:0,-47.8638,-500.09 0/0:14:14,0:14:496:0:0:0,-4.21442,-44.9744 0/1:10:1,9:1:35:9:296:-23.0807,0,-0.488329 0/1:22:8,14:8:253:14:492:-34.6096,0,-16.4571 0/1:114:54,59:54:1909:59:1993:-141.378,0,-137.654 0/1:177:64,113:64:2232:113:3928:-294.246,0,-147.864 0/0:143:143,0:143:5013:0:0:0,-43.0473,-451.331 0/0:52:52,0:52:1811:0:0:0,-15.6536,-163.271 0/1:64:20,44:20:713:44:1543:-118.166,0,-45.2313 0/1:85:44,41:44:1563:41:1376:-89.8605,0,-115.376 0/1:58:33,24:33:1173:24:824:-55.8909,0,-88.3602 0/0:85:85,0:85:2984:0:0:0,-25.5875,-268.796 0/0:66:66,0:66:2311:0:0:0,-19.868,-208.251 chr07 349983 . TTCG CTCG,CTCC 47935.5 PASS AB=0.704545,0.292424;ABP=242.859,250.019;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1992,202;CIGAR=1X3M,1X2M1X;DP=2200;DPB=2200;DPRA=0,0.712766;EPP=4319.9,441.648;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.85714,2.25;MQM=59.5457,40.3861;MQMR=0;NS=21;NUMALT=2;ODDS=10.1923;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71259,7173;QR=0;RO=0;RPL=1,0;RPP=4319.9,441.648;RPPR=0;RPR=1991,202;RUN=1,1;SAF=0,0;SAP=4328.58,441.648;SAR=1992,202;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:0,92,2:0:0:92,2:3304,70:-297.213,-27.6948,0,-291.66,-21.7999,-291.058 1/1:67:0,67,0:0:0:67,0:2396,0:-215.881,-20.169,0,-215.881,-20.169,-215.881 1/2:43:0,24,19:0:0:24,19:860,659:-120.762,-50.6056,-43.3809,-70.4971,0,-64.7775 1/1:94:0,92,0:0:0:92,0:3261,0:-293.334,-27.6948,0,-293.334,-27.6948,-293.334 1/2:162:0,108,53:0:0:108,53:3876,1893:-462.329,-146.192,-113.68,-316.192,0,-300.237 1/1:94:0,92,2:0:0:92,2:3297,61:-296.454,-27.6948,0,-291.778,-22.7237,-291.176 1/1:137:0,136,0:0:0:136,0:4872,0:-438.223,-40.9401,0,-438.223,-40.9401,-438.223 1/2:75:0,49,26:0:0:49,26:1760,929:-215.707,-72.1972,-57.4467,-143.857,0,-136.03 1/1:128:0,128,0:0:0:128,0:4598,0:-413.632,-38.5318,0,-413.632,-38.5318,-413.632 1/1:313:0,313,0:0:0:313,0:11200,0:-1007.24,-94.2224,0,-1007.24,-94.2224,-1007.24 1/1:163:0,163,0:0:0:163,0:5797,0:-521.66,-49.0679,0,-521.66,-49.0679,-521.66 1/1:165:0,160,4:0:0:160,4:5747,143:-516.973,-48.1648,0,-505.808,-37.0117,-504.604 1/2:65:0,50,15:0:0:50,15:1800,540:-190.028,-43.1545,-28.103,-147.226,0,-142.711 1/2:35:0,22,13:0:0:22,13:777,466:-100.547,-37.2702,-30.6475,-63.6277,0,-59.7143 1/1:111:0,111,0:0:0:111,0:3975,0:-357.904,-33.4143,0,-357.904,-33.4143,-357.904 1/1:85:0,85,0:0:0:85,0:3043,0:-273.828,-25.5876,0,-273.828,-25.5876,-273.828 1/2:59:0,37,22:0:0:37,22:1317,781:-169.915,-62.5859,-51.4478,-107.68,0,-101.058 1/2:178:0,152,25:0:0:152,25:5414,884:-507.721,-66.4809,-20.7244,-441.214,0,-433.689 1/2:43:0,23,20:0:0:23,20:828,711:-122.814,-55.2467,-48.323,-67.9157,0,-61.8951 1/1:59:0,58,1:0:0:58,1:2075,36:-186.659,-17.4597,0,-183.851,-14.3063,-183.55 1/1:30:0,30,0:0:0:30,0:1062,0:-95.612,-9.0309,0,-95.612,-9.0309,-95.612 chr07 349992 . CGGCT CGGCA,TGGCA 48925.8 PASS AB=0.698341,0.289593;ABP=229.554,257.957;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1986,202;CIGAR=4M1X,1X3M1X;DP=2206;DPB=2206;DPRA=0,0.719361;EPP=4118.09,407.592;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=2.33333,2.58333;MQM=59.5957,40.4356;MQMR=60;NS=21;NUMALT=2;ODDS=15.4889;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71137,7139;QR=31;RO=1;RPL=23,4;RPP=4118.09,407.592;RPPR=5.18177;RPR=1963,198;RUN=1,1;SAF=0,0;SAP=4315.55,441.648;SAR=1986,202;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,95,2:0:0:95,2:3403,72:-306.014,-28.5979,0,-300.311,-22.5448,-299.709 1/1:66:0,66,0:0:0:66,0:2345,0:-211.292,-19.868,0,-211.292,-19.868,-211.292 1/2:44:0,25,19:0:0:25,19:900,665:-124.827,-51.3806,-43.8549,-73.7907,0,-68.0711 1/1:93:0,92,0:0:0:92,0:3291,0:-296.035,-27.6948,0,-296.035,-27.6948,-296.035 1/2:161:0,105,54:0:0:105,54:3776,1907:-454.792,-146.743,-115.134,-308.034,0,-291.779 1/1:95:0,92,3:0:0:92,3:3299,99:-296.791,-27.6948,0,-289.173,-19.7593,-288.27 1/1:137:0,135,0:0:0:135,0:4823,0:-433.8,-40.6391,0,-433.8,-40.6391,-433.8 1/2:76:0,49,26:0:0:49,26:1751,912:-213.336,-70.6334,-55.8829,-142.686,0,-134.86 1/1:127:0,126,0:0:0:126,0:4528,0:-407.329,-37.9298,0,-407.329,-37.9298,-407.329 1/1:316:0,314,0:0:0:314,0:11275,0:-1013.04,-94.5234,0,-1013.04,-94.5234,-1013.04 1/1:158:0,156,0:0:0:156,0:5591,0:-502.946,-46.9607,0,-502.946,-46.9607,-502.946 1/1:164:1,159,4:1:31:159,4:5694,142:-509.424,-45.3816,0,-498.63,-36.743,-499.914 1/2:66:0,50,15:0:0:50,15:1800,534:-189.28,-42.3982,-27.3467,-146.947,0,-142.431 1/2:36:0,22,13:0:0:22,13:783,464:-100.686,-36.8621,-30.2394,-63.9158,0,-60.0024 1/1:114:0,113,0:0:0:113,0:4033,0:-362.762,-34.0164,0,-362.762,-34.0164,-362.762 1/1:85:0,85,0:0:0:85,0:3045,0:-274.007,-25.5876,0,-274.007,-25.5876,-274.007 1/2:58:0,35,22:0:0:35,22:1256,784:-164.925,-62.4808,-51.9448,-102.438,0,-95.8151 1/2:179:0,154,25:0:0:154,25:5524,878:-516.491,-65.979,-19.6204,-450.842,0,-443.316 1/2:43:0,23,18:0:0:23,18:824,646:-117.956,-50.7499,-43.8262,-67.2669,0,-61.8484 1/1:61:0,60,1:0:0:60,1:2131,36:-191.7,-18.0618,0,-188.892,-14.9083,-188.591 1/1:30:0,30,0:0:0:30,0:1065,0:-95.8335,-9.0309,0,-95.8335,-9.0309,-95.8335 chr07 359158 . T A 31946.9 PASS AB=0.48137;ABP=6.004;AC=33;AF=0.785714;AN=42;AO=1517;CIGAR=1X;DP=2043;DPB=2043;DPRA=0;EPP=3297.13;EPPR=1145.2;GTI=0;LEN=1;MEANALT=1;MQM=59.8418;MQMR=59.8574;NS=21;NUMALT=1;ODDS=2.64313;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54240;QR=18802;RO=526;RPL=6;RPP=3245.22;RPPR=1127.9;RPR=1511;RUN=1;SAF=1511;SAP=3245.22;SAR=6;SRF=524;SRP=1127.9;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:2,48:2:72:48:1720:-146.972,-8.21478,0 1/1:100:0,100:0:0:100:3563:-320.88,-30.103,0 0/1:114:67,47:67:2392:47:1688:-117.89,0,-181.22 1/1:90:1,89:1:36:89:3184:-283.186,-23.4944,0 0/1:181:105,76:105:3760:76:2701:-188.847,0,-284.113 1/1:90:1,89:1:36:89:3173:-282.195,-23.4944,0 1/1:141:0,141:0:0:141:5041:-453.831,-42.4452,0 0/1:106:59,47:59:2104:47:1688:-120.298,0,-157.72 1/1:111:2,109:2:72:109:3900:-344.357,-26.5776,0 1/1:11:0,11:0:0:11:381:-34.6206,-3.31133,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/1:109:54,55:54:1932:55:1980:-145.66,0,-141.344 0/1:76:46,30:46:1652:30:1080:-74.6326,0,-126.09 1/1:153:0,153:0:0:153:5477:-493.055,-46.0576,0 1/1:147:0,147:0:0:147:5257:-473.265,-44.2514,0 0/1:96:45,51:45:1616:51:1832:-131.502,0,-116.831 0/1:182:85,97:85:3040:97:3476:-256.902,0,-217.68 0/1:118:48,70:48:1694:70:2504:-190.091,0,-117.063 1/1:73:2,71:2:72:71:2533:-221.383,-15.1385,0 1/1:66:3,63:3:108:63:2234:-191.245,-9.79281,0 chr07 359211 . G T 23715.9 PASS AB=0.480717;ABP=10.2122;AC=10;AF=0.238095;AN=42;AO=1084;CIGAR=1X;DP=5195;DPB=5195;DPRA=1.33585;EPP=2356.89;EPPR=8921.25;GTI=1;LEN=1;MEANALT=1;MQM=50.7002;MQMR=50.8657;NS=21;NUMALT=1;ODDS=8.64893;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38585;QR=145171;RO=4111;RPL=506;RPP=13.3949;RPPR=678.676;RPR=578;RUN=1;SAF=506;SAP=13.3949;SAR=578;SRF=1491;SRP=676.289;SRR=2620;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:239:237,2:237:8365:2:72:0,-65.246,-737.412 0/0:193:193,0:193:6829:0:0:0,-58.0988,-609.986 0/1:220:118,102:118:4162:102:3621:-256.002,0,-304.82 0/0:282:281,1:281:9930:1:36:0,-81.2922,-881.766 0/1:508:243,265:243:8569:265:9426:-681.011,0,-609.007 0/0:306:304,2:304:10713:2:72:0,-85.4253,-949.659 0/0:362:361,1:361:12765:1:36:0,-105.375,-1133.65 0/1:290:137,153:137:4831:153:5468:-398.585,0,-342.324 0/0:502:500,2:500:17656:2:59:0,-145.514,-1570.08 0/0:43:43,0:43:1532:0:0:0,-12.9443,-136.73 0/1:33:28,5:28:1000:5:165:-4.95219,0,-80.0084 0/1:37:16,21:16:567:21:752:-55.464,0,-39.7545 0/1:260:143,117:143:5022:117:4156:-290.677,0,-370.17 0/1:194:103,91:103:3627:91:3252:-229.713,0,-264.619 0/0:427:427,0:427:15098:0:0:0,-128.54,-1344 0/0:302:301,1:301:10623:1:36:0,-87.3625,-948.351 0/1:236:111,125:111:3918:125:4456:-326.603,0,-280.074 0/1:258:139,119:139:4887:119:4243:-301.526,0,-360.199 0/1:194:120,74:120:4246:74:2627:-175.316,0,-321.971 0/0:194:191,3:191:6777:3:108:0,-48.974,-590.092 0/0:115:115,0:115:4054:0:0:0,-34.6184,-363.252 chr07 377037 . C G 39024.7 PASS AB=0.840816;ABP=744.564;AC=33;AF=0.785714;AN=42;AO=1847;CIGAR=1X;DP=2029;DPB=2029;DPRA=0;EPP=3979.05;EPPR=396.047;GTI=5;LEN=1;MEANALT=1.04762;MQM=59.9995;MQMR=60;NS=21;NUMALT=1;ODDS=0.439853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65865;QR=6414;RO=181;RPL=3;RPP=3987.7;RPPR=396.047;RPR=1844;RUN=1;SAF=1846;SAP=4005.04;SAR=1;SRF=181;SRP=396.047;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:21,61:21:743:61:2173:-171.15,0,-42.5089 1/1:57:0,57:0:0:57:2042:-184.052,-17.1587,0 1/1:78:6,72:6:197:72:2565:-213.047,-5.42901,0 0/1:93:21,72:21:752:72:2576:-204.094,0,-40.0105 1/1:176:15,161:15:531:161:5753:-469.761,-4.85937,0 1/1:29:0,29:0:0:29:1028:-92.8325,-8.72987,0 1/1:142:1,141:1:36:141:5018:-448.169,-39.148,0 0/1:74:7,67:7:248:67:2397:-193.709,0,-0.387974 1/1:360:24,335:24:851:335:11989:-1001.95,-31.5199,0 1/1:26:2,24:2:72:24:852:-70.1637,-0.990058,0 1/1:11:0,11:0:0:11:382:-34.7131,-3.31133,0 1/1:19:1,18:1:36:18:639:-54.24,-2.1213,0 0/1:77:14,63:14:496:63:2254:-179.944,0,-21.795 0/1:94:13,81:13:460:81:2899:-232.849,0,-13.4386 0/1:137:13,124:13:464:124:4371:-352.321,0,-0.856399 1/1:125:10,115:10:352:115:4109:-337.976,-5.61056,0 0/1:52:12,40:12:420:40:1436:-113.884,0,-22.4805 0/1:52:7,45:7:252:45:1599:-128.546,0,-7.3754 0/1:74:9,65:9:324:65:2328:-187.504,0,-7.22963 1/1:194:5,189:5:180:189:6695:-586.074,-41.8478,0 1/1:77:0,77:0:0:77:2760:-248.642,-23.1793,0 chr07 516862 . T C 38081.7 PASS AB=0.523148;ABP=7.03155;AC=31;AF=0.738095;AN=42;AO=1789;CIGAR=1X;DP=2308;DPB=2308;DPRA=1.11566;EPP=3887.77;EPPR=1127.83;GTI=0;LEN=1;MEANALT=1.05;MQM=59.5221;MQMR=59.7066;NS=21;NUMALT=1;ODDS=11.6578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63599;QR=18495;RO=518;RPL=1789;RPP=3887.77;RPPR=1127.83;RPR=0;RUN=1;SAF=1789;SAP=3887.77;SAR=0;SRF=518;SRP=1127.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:142:1,141:1:36:141:5030:-449.096,-39.148,0 1/1:91:0,91:0:0:91:3232:-291.033,-27.3937,0 0/1:89:45,44:45:1583:44:1534:-111.559,0,-115.963 1/1:181:0,181:0:0:181:6469:-581.889,-54.4864,0 0/1:211:93,118:93:3319:118:4227:-316.645,0,-235.402 1/1:159:4,155:4:144:155:5498:-481.545,-34.5502,0 1/1:144:0,144:0:0:144:5077:-456.728,-43.3483,0 0/0:99:99,0:99:3548:0:0:0,-29.802,-319.385 1/1:176:0,176:0:0:176:6239:-561.439,-52.9813,0 1/1:10:0,10:0:0:10:356:-32.3766,-3.0103,0 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:23:13,10:13:468:10:352:-25.0853,0,-35.5313 0/1:135:76,59:76:2717:59:2107:-149.226,0,-204.119 0/1:117:64,53:64:2285:53:1896:-135.692,0,-170.599 1/1:161:1,160:1:36:160:5701:-509.581,-44.8676,0 1/1:116:0,116:0:0:116:4138:-372.515,-34.9195,0 0/1:86:28,58:28:1008:58:2044:-158.336,0,-65.0851 0/1:135:62,73:62:2203:73:2583:-192.072,0,-157.892 0/1:60:26,34:26:932:34:1212:-91.3222,0,-66.1347 1/1:114:1,112:1:36:112:3977:-354.395,-30.7779,0 1/1:51:0,51:0:0:51:1819:-163.982,-15.3525,0 chr07 516872 . A T 8726.42 PASS AB=0.477032;ABP=6.90053;AC=11;AF=0.261905;AN=42;AO=507;CIGAR=1X;DP=2269;DPB=2269;DPRA=0.998679;EPP=1103.95;EPPR=3829.14;GTI=0;LEN=1;MEANALT=1;MQM=59.7613;MQMR=59.5664;NS=21;NUMALT=1;ODDS=10.7348;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18024;QR=62833;RO=1762;RPL=507;RPP=1103.95;RPPR=3829.14;RPR=0;RUN=1;SAF=507;SAP=1103.95;SAR=0;SRF=1762;SRP=3829.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:137,1:137:4887:1:36:0,-37.9439,-436.27 0/0:86:86,0:86:3057:0:0:0,-25.8886,-275.294 0/1:88:41,47:41:1457:47:1683:-125.263,0,-104.933 0/0:178:178,0:178:6355:0:0:0,-53.5833,-571.638 0/1:202:117,85:117:4165:85:3030:-212.117,0,-314.211 0/0:162:159,3:159:5644:3:108:0,-38.6917,-497.757 0/0:141:141,0:141:5002:0:0:0,-42.4452,-449.991 1/1:96:0,96:0:0:96:3392:-305.465,-28.8989,0 0/0:174:174,0:174:6216:0:0:0,-52.3792,-559.354 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0135 0/1:8:3,5:3:104:5:176:-13.7768,0,-7.29457 0/1:22:9,13:9:324:13:468:-35.8324,0,-22.8606 0/1:133:59,74:59:2100:74:2652:-198.88,0,-149.199 0/1:114:52,62:52:1868:62:2207:-164.572,0,-134.075 0/0:157:156,1:156:5576:1:36:0,-43.6634,-498.335 0/0:114:114,0:114:4096:0:0:0,-34.3174,-368.734 0/1:86:56,30:56:2008:30:1056:-69.4535,0,-155.095 0/1:133:73,60:73:2585:60:2121:-151.118,0,-192.844 0/1:63:34,29:34:1216:29:1023:-73.4158,0,-90.7793 0/0:110:109,1:109:3889:1:36:0,-29.515,-346.192 0/0:54:54,0:54:1932:0:0:0,-16.2556,-174.144 chr07 516976 . TGGG TGGA,GGGA 36814.3 PASS AB=0.510046,0.477589;ABP=3.5775,5.83288;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1309,373;CIGAR=3M1X,1X2M1X;DP=1695;DPB=1695;DPRA=1.31694,1.12109;EPP=2810.83,795.691;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.15,2.72727;MQM=59.7876,55.6997;MQMR=0;NS=21;NUMALT=2;ODDS=11.7503;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46735,13104;QR=0;RO=0;RPL=1305,371;RPP=2810.83,795.691;RPPR=0;RPR=4,2;RUN=1,1;SAF=0,0;SAP=2845.47,812.97;SAR=1309,373;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:0,72,0:0:0:72,0:2571,0:-231.273,-21.6742,0,-231.273,-21.6742,-231.273 1/1:60:0,60,0:0:0:60,0:2144,0:-193.227,-18.0618,0,-193.227,-18.0618,-193.227 1/2:64:0,32,31:0:0:32,31:1144,1097:-182.577,-89.2957,-79.6627,-93.294,0,-83.9621 1/1:68:0,68,0:0:0:68,0:2440,0:-219.846,-20.47,0,-219.846,-20.47,-219.846 1/2:131:0,65,64:0:0:65,64:2306,2260:-371.67,-183.799,-164.232,-187.87,0,-168.604 1/1:73:0,72,1:0:0:72,1:2584,36:-232.449,-21.6742,0,-229.513,-18.3779,-229.212 1/1:153:0,152,0:0:0:152,0:5438,0:-489.255,-45.7566,0,-489.255,-45.7566,-489.255 2/2:62:0,0,62:0:0:0,62:0,2183:-196.399,-196.399,-196.399,-18.6639,-18.6639,0 1/1:154:0,152,1:0:0:152,1:5398,35:-485.573,-45.7566,0,-482.726,-42.9145,-482.425 1/1:9:0,9,0:0:0:9,0:315,0:-28.6857,-2.70927,0,-28.6857,-2.70927,-28.6857 1/1:4:0,4,0:0:0:4,0:144,0:-13.3127,-1.20412,0,-13.3127,-1.20412,-13.3127 1/2:14:0,4,10:0:0:4,10:144,351:-40.6558,-28.9036,-27.6995,-12.1095,0,-9.0992 1/2:69:0,35,32:0:0:35,32:1260,1129:-194.723,-91.9103,-81.3743,-102.879,0,-93.2461 1/2:146:0,62,81:0:0:62,81:2216,2828:-410.192,-229.574,-210.91,-180.616,0,-156.232 1/1:225:0,224,0:0:0:224,0:8009,0:-720.414,-67.4307,0,-720.414,-67.4307,-720.414 1/1:38:0,38,0:0:0:38,0:1356,0:-122.34,-11.4391,0,-122.34,-11.4391,-122.34 1/2:44:0,28,16:0:0:28,16:981,567:-126.349,-46.531,-38.1022,-80.1709,0,-75.3545 1/2:107:0,56,51:0:0:56,51:2004,1798:-310.024,-146.605,-129.748,-163.774,0,-148.421 1/2:72:0,48,24:0:0:48,24:1710,820:-206.108,-66.7259,-52.2764,-139.728,0,-132.503 1/1:88:0,88,0:0:0:88,0:3135,0:-282.264,-26.4906,0,-282.264,-26.4906,-282.264 1/1:41:0,40,0:0:0:40,0:1436,0:-129.256,-12.0412,0,-129.256,-12.0412,-129.256 chr07 535313 . G A 13974.6 PASS AB=0.476415;ABP=8.1317;AC=11;AF=0.261905;AN=42;AO=750;CIGAR=1X;DP=2526;DPB=2526;DPRA=1.35979;EPP=1614.29;EPPR=3848.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9653;MQMR=59.9397;NS=21;NUMALT=1;ODDS=6.17167;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26818;QR=63300;RO=1775;RPL=748;RPP=1614.29;RPPR=3848.69;RPR=2;RUN=1;SAF=750;SAP=1631.61;SAR=0;SRF=1775;SRP=3857.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:186:184,2:184:6574:2:72:0,-49.1549,-584.905 0/0:99:99,0:99:3517:0:0:0,-29.802,-316.737 0/1:154:77,77:77:2760:77:2760:-202.283,0,-202.283 0/0:106:106,0:106:3772:0:0:0,-31.9092,-339.649 0/1:198:103,95:103:3687:95:3377:-244.543,0,-272.428 0/0:97:97,0:97:3451:0:0:0,-29.1999,-310.804 0/0:112:111,1:111:3924:1:36:0,-30.1171,-349.757 1/1:241:0,241:0:0:241:8639:-777.493,-72.5482,0 0/0:168:167,0:167:5967:0:0:0,-50.272,-536.778 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8888 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:69:34,35:34:1224:35:1256:-92.5742,0,-89.6914 0/1:248:127,121:127:4517:121:4331:-315.31,0,-332.043 0/1:121:49,72:49:1751:72:2568:-194.943,0,-121.449 0/0:189:189,0:189:6742:0:0:0,-56.8947,-606.856 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.518 0/1:79:41,38:41:1450:38:1360:-98.9169,0,-106.311 0/1:96:55,41:55:1963:41:1459:-102.702,0,-148.046 0/1:89:66,23:66:2355:23:816:-46.97,0,-185.417 0/0:140:139,1:139:4959:1:36:0,-38.5459,-442.858 0/0:45:45,0:45:1603:0:0:0,-13.5463,-144.559 chr07 551198 . C T 5069.07 PASS AB=0.506787;ABP=3.09873;AC=30;AF=0.714286;AN=42;AO=381;CIGAR=1X;DP=548;DPB=548;DPRA=0.889292;EPP=830.341;EPPR=315.403;GTI=0;LEN=1;MEANALT=1;MQM=28.1759;MQMR=39.1377;NS=21;NUMALT=1;ODDS=4.36658;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13655;QR=6000;RO=167;RPL=0;RPP=830.341;RPPR=315.403;RPR=381;RUN=1;SAF=0;SAP=830.341;SAR=381;SRF=0;SRP=365.646;SRR=167;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:12:0,12:0:0:12:432:-27.8899,-3.61236,0 1/1:6:0,6:0:0:6:216:-15.9652,-1.80618,0 0/1:38:21,17:21:756:17:612:-27.9649,0,-52.7747 1/1:28:0,28:0:0:28:993:-64.0928,-8.42884,0 0/1:26:11,15:11:396:15:540:-26.6358,0,-25.9687 1/1:14:0,14:0:0:14:504:-35.9736,-4.21442,0 1/1:30:0,30:0:0:30:1065:-77.7431,-9.0309,0 0/0:50:50,0:50:1796:0:0:0,-15.0515,-152.221 1/1:66:0,66:0:0:66:2376:-191.126,-19.868,0 1/1:8:0,8:0:0:8:288:-18.6786,-2.40824,0 0/1:7:5,2:5:180:2:72:-3.40804,0,-14.0894 0/1:17:4,13:4:144:13:449:-23.9401,0,-7.61148 0/1:50:25,25:25:900:25:900:-42.4405,0,-60.5915 0/1:30:17,13:17:604:13:468:-21.1618,0,-42.622 1/1:44:0,44:0:0:44:1580:-100.528,-13.2453,0 1/1:5:0,5:0:0:5:180:-15.1755,-1.50515,0 0/0:8:8,0:8:288:0:0:0,-2.40824,-25.3562 0/1:37:22,15:22:792:15:540:-22.5517,0,-56.4657 0/1:16:4,12:4:144:12:432:-23.0734,0,-7.91251 1/1:41:0,41:0:0:41:1468:-93.7359,-12.3422,0 1/1:15:0,15:0:0:15:540:-39.3266,-4.51545,0 chr07 551219 . GTATAAAGC GGATAAGC,GGTTAAGC 7765.04 PASS AB=0.509174,0.490826;ABP=3.16967,3.16967;AC=30,12;AF=0.714286,0.285714;AN=42;AO=377,165;CIGAR=1M1X2M1D4M,1M1D1X1M1X4M;DP=545;DPB=484.444;DPRA=0.883848,1.12862;EPP=821.655,361.303;EPPR=0;GTI=0;LEN=8,8;MEANALT=1.52632,1.8;MQM=28.2281,38.4182;MQMR=0;NS=21;NUMALT=2;ODDS=3.49953;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=10607,5777;QR=0;RO=0;RPL=377,165;RPP=821.655,361.303;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=821.655,361.303;SAR=377,165;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:12:0,12,0:0:0:12,0:312,0:-25.0647,-3.61236,0,-25.0647,-3.61236,-25.0647 1/1:6:0,6,0:0:0:6,0:171,0:-14.2494,-1.80618,0,-14.2494,-1.80618,-14.2494 1/2:37:0,17,20:0:0:17,20:442,701:-83.8293,-53.8104,-48.6929,-30.295,0,-24.2744 1/1:28:0,28,0:0:0:28,0:724,0:-57.8171,-8.42884,0,-57.8171,-8.42884,-57.8171 1/2:26:0,15,11:0:0:15,11:386,391:-56.2576,-30.1509,-25.6355,-26.3959,0,-23.0845 1/1:14:0,14,0:0:0:14,0:409,0:-33.2833,-4.21442,0,-33.2833,-4.21442,-33.2833 1/1:30:0,30,0:0:0:30,0:898,0:-72.9674,-9.0309,0,-72.9674,-9.0309,-72.9674 2/2:49:0,0,49:0:0:0,49:0,1695:-144.791,-144.791,-144.791,-14.7505,-14.7505,0 1/1:66:0,66,0:0:0:66,0:2280,0:-188.236,-19.868,0,-188.236,-19.868,-188.236 1/1:8:0,8,0:0:0:8,0:208,0:-16.7865,-2.40824,0,-16.7865,-2.40824,-16.7865 1/2:7:0,2,5:0:0:2,5:60,180:-18.9245,-14.6915,-14.0894,-4.5264,0,-3.02125 1/2:17:0,13,4:0:0:13,4:330,144:-33.5144,-11.33,-7.41661,-22.4961,0,-21.292 1/2:51:0,25,26:0:0:25,26:646,898:-112.56,-68.7542,-61.2284,-44.0823,0,-36.2555 1/2:30:0,13,17:0:0:13,17:335,601:-69.1452,-46.3578,-42.4444,-23.0618,0,-17.9443 1/1:44:0,44,0:0:0:44,0:1132,0:-90.2098,-13.2453,0,-90.2098,-13.2453,-90.2098 1/1:5:0,5,0:0:0:5,0:178,0:-15.073,-1.50515,0,-15.073,-1.50515,-15.073 2/2:9:0,0,9:0:0:0,9:0,307:-27.5592,-27.5592,-27.5592,-2.70927,-2.70927,0 1/2:36:0,15,21:0:0:15,21:380,752:-83.5239,-57.8019,-53.2865,-25.9935,0,-19.6719 1/2:14:0,11,3:0:0:11,3:286,108:-27.9506,-8.58219,-5.27086,-19.6838,0,-18.7807 1/1:41:0,38,0:0:0:38,0:982,0:-78.1152,-11.4391,0,-78.1152,-11.4391,-78.1152 1/1:15:0,15,0:0:0:15,0:448,0:-36.5277,-4.51545,0,-36.5277,-4.51545,-36.5277 chr07 609182 . T A 10131.2 PASS AB=0.491822;ABP=3.50751;AC=11;AF=0.261905;AN=42;AO=559;CIGAR=1X;DP=2181;DPB=2181;DPRA=0.978622;EPP=1208.19;EPPR=3525.14;GTI=0;LEN=1;MEANALT=1;MQM=59.5617;MQMR=59.9612;NS=21;NUMALT=1;ODDS=4.94776;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19997;QR=57890;RO=1622;RPL=559;RPP=1216.86;RPPR=3525.14;RPR=0;RUN=1;SAF=558;SAP=1208.19;SAR=1;SRF=1622;SRP=3525.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:70,0:70:2499:0:0:0,-21.0721,-225.162 0/0:81:81,0:81:2908:0:0:0,-24.3834,-261.955 0/1:125:60,65:60:2152:65:2305:-170.069,0,-156.318 0/0:175:175,0:175:6183:0:0:0,-52.6802,-556.57 0/1:224:122,102:122:4360:102:3648:-260.984,0,-325.134 0/0:114:113,1:113:4060:1:36:0,-30.7191,-361.987 0/0:185:185,0:185:6624:0:0:0,-55.6905,-596.236 1/1:133:0,133:0:0:133:4780:-430.347,-40.037,0 0/0:221:221,0:221:7891:0:0:0,-66.5276,-710.214 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:6:1,5:1:27:5:180:-14.7459,0,-0.893603 0/1:28:13,15:13:468:15:536:-40.1174,0,-34.0308 0/1:124:58,66:58:2075:66:2344:-173.729,0,-149.692 0/1:180:89,91:89:3155:91:3260:-239.4,0,-229.989 0/0:155:154,1:154:5500:1:32:0,-43.4682,-491.916 0/0:66:66,0:66:2359:0:0:0,-19.868,-212.568 0/1:80:44,36:44:1566:36:1296:-92.8615,0,-117.148 0/1:42:18,24:18:632:24:864:-65.4047,0,-43.3679 0/1:47:30,17:30:1047:17:608:-40.9036,0,-80.3908 0/0:81:78,3:78:2800:3:108:0,-14.3083,-242.164 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.898 chr07 609197 . G T 9995.34 PASS AB=0.500595;ABP=3.01288;AC=11;AF=0.261905;AN=42;AO=559;CIGAR=1X;DP=2127;DPB=2127;DPRA=0.853665;EPP=1216.86;EPPR=3401.36;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.6547;MQMR=59.9585;NS=21;NUMALT=1;ODDS=5.24336;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19885;QR=55266;RO=1565;RPL=559;RPP=1216.86;RPPR=3401.36;RPR=0;RUN=1;SAF=559;SAP=1216.86;SAR=0;SRF=1565;SRP=3401.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:65,2:65:2292:2:72:0,-13.3323,-199.703 0/0:80:80,0:80:2785:0:0:0,-24.0824,-250.891 0/1:120:56,64:56:1993:64:2265:-167.97,0,-143.519 0/0:168:168,0:168:5913:0:0:0,-50.573,-532.288 0/1:224:120,103:120:4258:103:3652:-261.288,0,-315.909 0/0:119:118,1:118:4188:1:36:0,-32.2243,-373.505 0/0:173:173,0:173:6049:0:0:0,-52.0782,-544.525 1/1:132:0,132:0:0:132:4713:-424.327,-39.736,0 0/0:215:215,0:215:7619:0:0:0,-64.7214,-685.755 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:29:14,15:14:504:15:532:-39.4547,0,-36.9682 0/1:122:58,64:58:2064:64:2259:-166.738,0,-149.306 0/1:172:78,93:78:2710:93:3317:-246.966,0,-192.395 0/0:149:148,0:148:5223:0:0:0,-44.5524,-469.834 0/0:64:64,0:64:2255:0:0:0,-19.2659,-203.214 0/1:79:43,36:43:1532:36:1279:-91.6311,0,-114.392 0/1:43:19,24:19:675:24:860:-64.7429,0,-47.3515 0/1:46:29,17:29:1036:17:612:-41.5661,0,-79.7065 0/0:77:74,3:74:2626:3:108:0,-13.1041,-226.511 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 chr07 611053 . T C 6992.96 PASS AB=0.528399;ABP=7.08041;AC=12;AF=0.285714;AN=42;AO=390;CIGAR=1X;DP=1217;DPB=1217;DPRA=1.2774;EPP=849.885;EPPR=1798.82;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.23487;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13888;QR=29450;RO=827;RPL=390;RPP=849.885;RPPR=1798.82;RPR=0;RUN=1;SAF=0;SAP=849.885;SAR=390;SRF=0;SRP=1798.82;SRR=827;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:47,2:47:1692:2:72:0,-7.91375,-145.73 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/1:101:48,53:48:1713:53:1896:-140.513,0,-124.05 0/0:49:49,0:49:1741:0:0:0,-14.7505,-156.972 0/1:127:57,70:57:2048:70:2497:-186.751,0,-146.361 0/0:46:46,0:46:1633:0:0:0,-13.8474,-147.257 0/0:67:67,0:67:2397:0:0:0,-20.169,-215.985 1/1:74:0,74:0:0:74:2660:-239.645,-22.2762,0 0/0:102:102,0:102:3664:0:0:0,-30.7051,-329.963 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:26:9,17:9:324:17:587:-45.3256,0,-21.6791 0/1:85:40,45:40:1395:45:1571:-116.087,0,-100.253 0/1:87:34,53:34:1175:53:1885:-143.737,0,-79.8585 0/0:87:87,0:87:3098:0:0:0,-26.1896,-279.045 0/0:35:35,0:35:1241:0:0:0,-10.536,-111.993 0/1:46:18,28:18:648:28:1004:-76.8285,0,-44.8045 0/1:59:32,27:32:1137:27:964:-69.3161,0,-84.8762 0/1:50:36,14:36:1281:14:504:-30.6466,0,-100.54 0/0:52:52,0:52:1830:0:0:0,-15.6536,-164.977 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.637 chr07 611781 . CGTAATTTTTTCG CAATTATTTTCG,CGATTATTTTCG 30888.2 PASS AB=0.514793,0.482249;ABP=4.29519,4.86055;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1171,397;CIGAR=1M2D4M1I6M,2M2D3M1I6M;DP=1571;DPB=1450.15;DPRA=1.07214,0.980038;EPP=2545.8,865.085;EPPR=0;GTI=0;LEN=12,12;MEANALT=1.65,2.09091;MQM=39.6781,42.995;MQMR=0;NS=21;NUMALT=2;ODDS=15.4738;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40291,14123;QR=0;RO=0;RPL=1171,397;RPP=2545.8,865.085;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2545.8,865.085;SAR=1171,397;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74,0:0:0:74,0:2568,0:-224.183,-22.2762,0,-224.183,-22.2762,-224.183 1/1:39:0,39,0:0:0:39,0:1341,0:-113.241,-11.7402,0,-113.241,-11.7402,-113.241 1/2:105:0,55,49:0:0:55,49:1925,1761:-292.492,-140.931,-124.374,-151.56,0,-136.81 1/1:121:0,120,0:0:0:120,0:4130,0:-360.182,-36.1236,0,-360.182,-36.1236,-360.182 1/2:237:0,116,120:0:0:116,120:4052,4266:-658.695,-340.055,-305.135,-318.625,0,-282.501 1/1:69:0,69,0:0:0:69,0:2331,0:-196.333,-20.7711,0,-196.333,-20.7711,-196.333 1/1:110:0,110,0:0:0:110,0:3835,0:-322.395,-33.1133,0,-322.395,-33.1133,-322.395 2/2:70:0,0,70:0:0:0,70:0,2504:-219.736,-219.736,-219.736,-21.0721,-21.0721,0 1/1:166:0,166,0:0:0:166,0:5683,0:-496.258,-49.971,0,-496.258,-49.971,-496.258 1/1:13:0,13,0:0:0:13,0:423,0:-36.5077,-3.91339,0,-36.5077,-3.91339,-36.5077 1/2:9:0,4,5:0:0:4,5:140,170:-24.126,-13.5223,-12.3182,-10.9311,0,-9.42597 1/2:17:0,9,8:0:0:9,8:311,282:-46.2494,-22.4283,-19.719,-24.1554,0,-21.7472 1/2:103:0,55,48:0:0:55,48:1867,1698:-281.936,-135.946,-119.389,-146.329,0,-131.88 1/2:72:0,38,34:0:0:38,34:1285,1195:-195.734,-95.1376,-83.6984,-100.932,0,-90.6972 1/1:84:0,84,0:0:0:84,0:2901,0:-253.121,-25.2865,0,-253.121,-25.2865,-253.121 1/1:49:0,49,0:0:0:49,0:1680,0:-146.907,-14.7505,0,-146.907,-14.7505,-146.907 1/2:46:0,27,19:0:0:27,19:918,676:-126.383,-54.2275,-46.0997,-72.4969,0,-66.7773 1/2:56:0,25,31:0:0:25,31:854,1115:-154.681,-88.6699,-81.1441,-66.3482,0,-57.0163 1/2:31:0,19,12:0:0:19,12:653,420:-85.2574,-33.9057,-28.1862,-51.6918,0,-48.0795 1/1:69:0,68,1:0:0:68,1:2310,36:-198.795,-20.47,0,-195.943,-17.2684,-195.642 1/1:31:0,31,0:0:0:31,0:1084,0:-91.3194,-9.33193,0,-91.3194,-9.33193,-91.3194 chr07 688813 . T C 24338.1 PASS AB=0.742232;ABP=445.903;AC=28;AF=0.666667;AN=42;AO=1812;CIGAR=1X;DP=2184;DPB=2184;DPRA=2.66455;EPP=3937.72;EPPR=806.455;GTI=6;LEN=1;MEANALT=1.10526;MQM=28.5905;MQMR=57.7811;NS=21;NUMALT=1;ODDS=8.49526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63878;QR=13144;RO=370;RPL=0;RPP=3937.72;RPPR=806.455;RPR=1812;RUN=1;SAF=0;SAP=3937.72;SAR=1812;SRF=0;SRP=806.455;SRR=370;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:178:42,136:42:1508:136:4777:-298.024,0,-82.4313 0/1:153:17,136:17:600:136:4745:-264.939,0,-8.27161 1/1:137:4,132:4:144:132:4659:-327.662,-27.9306,0 1/1:118:4,114:4:136:114:4072:-282.49,-22.946,0 1/1:143:12,131:12:428:131:4638:-301.332,-4.18848,0 1/1:214:14,200:14:479:200:7090:-417.84,-20.9851,0 1/1:252:13,239:13:464:239:8332:-502.758,-33.7621,0 0/0:19:19,0:19:680:0:0:0,-5.71957,-60.1098 0/1:130:16,113:16:576:113:4005:-263.38,0,-12.5528 0/0:64:64,0:64:2276:0:0:0,-19.2659,-203.62 0/1:84:71,13:71:2520:13:449:-4.33163,0,-201.766 0/1:32:16,16:16:555:16:572:-29.8072,0,-40.1104 0/1:61:6,55:6:216:55:1947:-124.271,0,-1.34007 0/1:94:10,84:10:351:84:2981:-189.862,0,-3.26988 1/1:117:8,109:8:284:109:3848:-256.098,-9.31716,0 1/1:57:4,53:4:144:53:1878:-130.493,-3.96007,0 0/1:81:23,58:23:815:58:2061:-132.371,0,-49.2873 0/1:35:19,16:19:680:16:550:-28.2887,0,-50.863 0/1:21:3,18:3:108:18:631:-39.7029,0,-3.75354 1/1:163:5,158:5:180:158:5553:-366.983,-32.5158,0 1/1:31:0,31:0:0:31:1090:-71.3201,-9.33193,0 chr07 688816 . G A 3396.92 PASS AB=0.360947;ABP=116.544;AC=9;AF=0.214286;AN=42;AO=324;CIGAR=1X;DP=2216;DPB=2216;DPRA=3.64333;EPP=706.567;EPPR=4109.26;GTI=2;LEN=1;MEANALT=1.05;MQM=59.8457;MQMR=28.8911;NS=21;NUMALT=1;ODDS=9.73422;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11549;QR=67415;RO=1891;RPL=0;RPP=706.567;RPPR=4109.26;RPR=324;RUN=1;SAF=0;SAP=706.567;SAR=324;SRF=0;SRP=4109.26;SRR=1891;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:143,43:143:5092:43:1548:-83.6215,0,-315.85 0/1:154:137,17:137:4875:17:603:-7.04566,0,-268.818 0/0:139:135,4:135:4801:4:144:0,-28.5296,-336.669 0/0:119:114,5:114:4096:5:180:0,-19.2705,-279.016 0/0:146:135,11:135:4824:11:396:0,-7.99623,-316.077 0/0:220:206,14:206:7383:14:496:0,-21.2523,-431.572 0/0:256:243,13:243:8612:13:460:0,-35.3283,-514.81 0/1:19:11,8:11:392:8:279:-19.728,0,-28.4751 0/0:132:124,8:124:4415:8:288:0,-13.4686,-310.157 0/1:65:12,53:12:432:53:1885:-150.361,0,-18.087 0/1:80:13,67:13:468:67:2387:-191.005,0,-6.11034 0/1:31:19,12:19:684:12:428:-29.5269,0,-39.1587 0/0:62:57,5:57:2031:5:180:0,-2.11179,-132.159 0/0:94:89,5:89:3170:5:180:0,-11.7448,-217.152 0/0:121:113,8:113:4035:8:288:0,-10.1572,-267.623 0/0:56:54,2:54:1923:2:72:0,-10.021,-140.942 0/1:83:60,23:60:2147:23:820:-49.137,0,-136.967 0/1:36:17,18:17:604:18:631:-46.3599,0,-31.7277 0/1:22:19,3:19:684:3:108:-3.45251,0,-42.566 0/0:165:160,5:160:5700:5:176:0,-33.4849,-374.226 0/0:30:30,0:30:1047:0:0:0,-9.0309,-68.5966 chr07 688821 . GCCC ACCT 26192.7 PASS AB=0.634503;ABP=110.492;AC=33;AF=0.785714;AN=42;AO=1904;CIGAR=1X2M1X;DP=2244;DPB=2244;DPRA=0;EPP=4137.49;EPPR=715.253;GTI=2;LEN=4;MEANALT=1.52381;MQM=28.8304;MQMR=59.9512;NS=21;NUMALT=1;ODDS=8.31303;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67072;QR=11436;RO=328;RPL=0;RPP=4137.49;RPPR=715.253;RPR=1904;RUN=1;SAF=0;SAP=4137.49;SAR=1904;SRF=0;SRP=715.253;SRR=328;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:188:44,142:44:1564:142:5002:-311.396,0,-84.7709 0/1:156:17,139:17:584:139:4868:-271.679,0,-5.9211 1/1:141:4,137:4:143:137:4799:-340.148,-29.2238,0 1/1:121:5,116:5:167:116:4081:-283.018,-21.0665,0 1/1:149:12,133:12:419:133:4678:-305.575,-5.92425,0 1/1:221:14,205:14:493:205:7223:-426.489,-21.5724,0 1/1:258:13,244:13:453:244:8637:-517.176,-36.6027,0 0/1:19:8,11:8:272:11:383:-27.7959,0,-19.0897 1/1:133:9,124:9:314:124:4381:-306.394,-11.4417,0 0/1:65:52,12:52:1796:12:430:-17.8954,0,-142.293 0/1:83:70,13:70:2435:13:453:-4.98449,0,-194.418 0/1:32:12,20:12:411:20:703:-40.8405,0,-27.6849 1/1:62:5,57:5:176:57:2027:-132.536,-2.47884,0 1/1:97:5,92:5:180:92:3224:-222.911,-12.6478,0 1/1:122:8,113:8:280:113:3984:-266.671,-11.1644,0 1/1:58:2,56:2:72:56:1966:-145.294,-10.623,0 0/1:83:23,60:23:806:60:2148:-137.084,0,-47.8739 0/1:36:18,18:18:626:18:619:-33.1053,0,-45.8271 0/1:22:3,19:3:105:19:650:-41.5545,0,-3.17331 1/1:167:4,162:4:140:162:5734:-380.504,-37.3727,0 1/1:31:0,31:0:0:31:1082:-71.1558,-9.33193,0 chr07 688855 . G A 26097.4 PASS AB=0.631424;ABP=105.178;AC=33;AF=0.785714;AN=42;AO=1886;CIGAR=1X;DP=2223;DPB=2223;DPRA=0;EPP=4098.41;EPPR=713.185;GTI=2;LEN=1;MEANALT=1.09524;MQM=28.8865;MQMR=59.8507;NS=21;NUMALT=1;ODDS=11.8317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67615;QR=11966;RO=335;RPL=1886;RPP=4098.41;RPPR=713.185;RPR=0;RUN=1;SAF=0;SAP=4098.41;SAR=1886;SRF=0;SRP=730.454;SRR=335;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:187:45,142:45:1616:142:5104:-314.592,0,-89.4374 0/1:155:17,138:17:604:138:4943:-271.38,0,-8.03096 1/1:141:4,136:4:144:136:4852:-339.955,-29.0665,0 1/1:121:5,116:5:180:116:4172:-284.464,-19.8726,0 1/1:147:12,135:12:424:135:4840:-313.823,-5.7898,0 1/1:219:16,203:16:572:203:7280:-418.34,-14.3031,0 1/1:256:13,242:13:468:242:8684:-515.359,-34.5147,0 0/1:19:8,11:8:284:11:392:-28.4751,0,-20.1838 1/1:130:9,121:9:320:121:4352:-300.751,-9.99485,0 0/1:66:54,12:54:1936:12:432:-17.786,0,-154.648 0/1:84:71,13:71:2518:13:468:-4.90622,0,-201.585 0/1:31:12,19:12:432:19:680:-39.1474,0,-29.8893 1/1:61:5,56:5:180:56:2012:-130.095,-1.81077,0 1/1:93:5,88:5:180:88:3132:-214.526,-11.4437,0 1/1:122:8,114:8:288:114:4080:-270.576,-10.4583,0 1/1:57:2,55:2:72:55:1968:-143.954,-10.322,0 0/1:83:23,60:23:820:60:2152:-137.155,0,-49.137 0/1:35:18,17:18:640:17:608:-32.0175,0,-47.3933 0/1:21:3,18:3:108:18:636:-40.0283,0,-3.75354 1/1:165:5,160:5:180:160:5748:-375.046,-33.1179,0 1/1:30:0,30:0:0:30:1080:-69.5013,-9.0309,0 chr07 688864 . C A 25996.2 PASS AB=0.628866;ABP=100.95;AC=33;AF=0.785714;AN=42;AO=1878;CIGAR=1X;DP=2213;DPB=2213;DPRA=0;EPP=4081.04;EPPR=721.768;GTI=2;LEN=1;MEANALT=1.14286;MQM=28.9031;MQMR=59.9607;NS=21;NUMALT=1;ODDS=7.56394;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67129;QR=11812;RO=331;RPL=1878;RPP=4081.04;RPPR=721.768;RPR=0;RUN=1;SAF=0;SAP=4081.04;SAR=1878;SRF=0;SRP=721.768;SRR=331;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:45,141:45:1605:141:5060:-312.635,0,-88.7466 0/1:153:18,134:18:648:134:4785:-262.705,0,-12.6974 1/1:140:4,136:4:144:136:4873:-340.348,-28.8306,0 1/1:117:5,112:5:180:112:3998:-272.451,-18.6684,0 1/1:145:12,133:12:424:133:4730:-306.484,-5.18151,0 1/1:218:14,202:14:504:202:7196:-420.793,-19.5933,0 1/1:252:13,239:13:468:239:8553:-507.167,-33.3999,0 0/1:18:7,11:7:252:11:396:-29.0656,0,-17.6104 1/1:132:8,124:8:288:124:4429:-310.315,-13.4686,0 0/1:67:55,12:55:1972:12:432:-17.4849,0,-157.586 0/1:83:69,13:69:2438:13:453:-4.70642,0,-194.707 0/1:33:13,20:13:468:20:720:-41.0956,0,-32.5257 1/1:62:5,57:5:180:57:2048:-132.708,-2.1118,0 1/1:94:5,89:5:180:89:3162:-216.504,-11.7448,0 1/1:120:8,112:8:284:112:4005:-265.257,-10.2202,0 1/1:57:2,55:2:72:55:1980:-144.375,-10.322,0 0/1:82:22,60:22:788:60:2140:-137.265,0,-46.5603 0/1:35:18,17:18:648:17:612:-31.8379,0,-48.1158 0/1:22:3,19:3:108:19:680:-42.5484,0,-3.45251 1/1:166:5,161:5:161:161:5769:-378.625,-35.1644,0 1/1:31:0,31:0:0:31:1108:-71.7033,-9.33193,0 chr07 688871 . C G 26232.7 PASS AB=0.628866;ABP=100.95;AC=33;AF=0.785714;AN=42;AO=1890;CIGAR=1X;DP=2224;DPB=2224;DPRA=0;EPP=4107.09;EPPR=728.282;GTI=2;LEN=1;MEANALT=1;MQM=28.8889;MQMR=59.8952;NS=21;NUMALT=1;ODDS=11.6637;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67770;QR=11919;RO=334;RPL=1890;RPP=4107.09;RPPR=728.282;RPR=0;RUN=1;SAF=0;SAP=4107.09;SAR=1890;SRF=0;SRP=728.282;SRR=334;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:188:45,143:45:1620:143:5132:-316.696,0,-89.4963 0/1:151:18,133:18:648:133:4756:-260,0,-13.0056 1/1:139:4,135:4:144:135:4840:-337.964,-28.5296,0 1/1:121:5,116:5:180:116:4152:-283.796,-19.8726,0 1/1:148:13,135:13:468:135:4839:-309.846,-2.12135,0 1/1:221:15,206:15:525:206:7384:-429.829,-18.9496,0 1/1:255:13,242:13:468:242:8687:-514.904,-34.303,0 0/1:19:8,11:8:284:11:396:-28.7645,0,-20.1838 1/1:133:8,125:8:288:125:4492:-314.687,-13.7696,0 0/1:67:55,12:55:1964:12:428:-17.1958,0,-156.866 0/1:83:70,13:70:2477:13:464:-5.15659,0,-198.198 0/1:32:12,20:12:428:20:716:-41.3229,0,-29.2258 1/1:62:5,57:5:180:57:2040:-132.5,-2.1118,0 1/1:95:5,90:5:180:90:3228:-220.551,-12.0458,0 1/1:119:7,112:7:252:112:4020:-268.901,-12.7936,0 1/1:57:2,55:2:72:55:1972:-144.094,-10.322,0 0/1:82:23,59:23:809:59:2120:-135.021,0,-48.4438 0/1:35:18,17:18:644:17:612:-32.0914,0,-47.7545 0/1:22:3,19:3:108:19:684:-42.566,0,-3.45251 1/1:165:5,160:5:180:160:5736:-374.816,-33.1179,0 1/1:30:0,30:0:0:30:1072:-69.2401,-9.0309,0 chr07 708874 . G T 45720.3 PASS AB=0.644815;ABP=155.839;AC=31;AF=0.738095;AN=42;AO=2105;CIGAR=1X;DP=2497;DPB=2497;DPRA=0;EPP=4453.17;EPPR=834.773;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.9316;MQMR=60;NS=21;NUMALT=1;ODDS=8.32755;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74545;QR=13951;RO=391;RPL=2091;RPP=4453.17;RPPR=834.773;RPR=14;RUN=1;SAF=0;SAP=4573.96;SAR=2105;SRF=0;SRP=852.056;SRR=391;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,150:0:0:150:5306:-477.68,-45.1545,0 1/1:158:0,158:0:0:158:5580:-501.84,-47.5627,0 0/1:132:35,97:35:1256:97:3429:-269.089,0,-73.6093 1/1:169:0,169:0:0:169:6005:-540.557,-50.8741,0 0/1:225:97,128:97:3455:128:4532:-340.318,0,-243.432 1/1:151:1,149:1:36:149:5254:-469.023,-41.9161,0 1/1:278:2,276:2:72:276:9789:-874.131,-76.8496,0 0/0:88:87,1:87:3089:1:36:0,-22.8924,-274.639 1/1:288:1,287:1:36:287:10183:-912.812,-83.0984,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:23:8,15:8:288:15:524:-40.5659,0,-19.3437 0/1:57:20,37:20:712:37:1300:-100.143,0,-47.2479 0/1:135:44,91:44:1576:91:3201:-247.449,0,-101.493 0/1:87:44,43:44:1563:43:1511:-110.093,0,-114.771 1/1:165:1,164:1:36:164:5820:-519.695,-46.0717,0 1/1:68:0,68:0:0:68:2424:-218.416,-20.47,0 0/1:98:37,61:37:1328:61:2177:-166.694,0,-90.3213 0/1:40:6,34:6:216:34:1220:-98.0656,0,-7.74931 0/1:42:7,35:7:252:35:1220:-97.4596,0,-10.3857 1/1:94:1,93:1:36:93:3294:-293.084,-24.6985,0 1/1:40:0,40:0:0:40:1416:-127.737,-12.0412,0 chr07 708880 . G A 47767.4 PASS AB=0.651376;ABP=176.569;AC=31;AF=0.738095;AN=42;AO=2188;CIGAR=1X;DP=2589;DPB=2589;DPRA=0;EPP=4710.86;EPPR=867.256;GTI=2;LEN=1;MEANALT=1.14286;MQM=59.9598;MQMR=60;NS=21;NUMALT=1;ODDS=0.144624;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78252;QR=14260;RO=398;RPL=2183;RPP=4710.86;RPPR=867.256;RPR=5;RUN=1;SAF=0;SAP=4754.19;SAR=2188;SRF=0;SRP=867.256;SRR=398;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:1,157:1:36:157:5620:-502.321,-43.9645,0 1/1:162:0,162:0:0:162:5799:-522.023,-48.7669,0 0/1:136:34,102:34:1224:102:3635:-286.416,0,-69.527 1/1:183:0,183:0:0:183:6515:-586.433,-55.0885,0 0/1:230:100,130:100:3588:130:4655:-349.87,0,-253.889 1/1:158:1,157:1:36:157:5621:-501.91,-43.9645,0 1/1:283:2,281:2:72:281:10059:-898.407,-78.3548,0 0/0:91:90,1:90:3222:1:36:0,-23.7955,-286.603 1/1:295:1,294:1:36:294:10518:-942.934,-85.2056,0 1/1:11:0,11:0:0:11:386:-35.0758,-3.31133,0 0/1:24:7,16:7:252:16:568:-44.1686,0,-15.7454 0/1:62:20,42:20:720:42:1490:-115.729,0,-46.4649 0/1:145:45,99:45:1612:99:3551:-276.252,0,-101.823 0/1:89:44,45:44:1575:45:1612:-118.578,0,-115.249 1/1:169:1,168:1:36:168:6024:-538.039,-47.2758,0 1/1:71:0,71:0:0:71:2548:-229.57,-21.3731,0 0/1:101:38,63:38:1356:63:2256:-172.899,0,-91.9365 0/1:41:6,35:6:216:35:1248:-100.283,0,-7.44828 0/1:44:7,36:7:243:36:1288:-102.919,0,-8.90497 1/1:96:1,95:1:36:95:3391:-301.808,-25.3006,0 1/1:40:0,40:0:0:40:1432:-129.178,-12.0412,0 chr07 717591 . G A 3791.39 PASS AB=0.490028;ABP=3.31344;AC=12;AF=0.285714;AN=42;AO=221;CIGAR=1X;DP=717;DPB=717;DPRA=1.27162;EPP=482.906;EPPR=1080.06;GTI=0;LEN=1;MEANALT=1;MQM=58.905;MQMR=59.8972;NS=21;NUMALT=1;ODDS=6.91916;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7860;QR=17443;RO=496;RPL=0;RPP=482.906;RPPR=1080.06;RPR=221;RUN=1;SAF=0;SAP=482.906;SAR=221;SRF=0;SRP=1080.06;SRR=496;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:937:1:36:0,-4.83056,-81.0429 0/0:39:39,0:39:1383:0:0:0,-11.7402,-124.45 0/1:63:38,25:38:1345:25:887:-61.1441,0,-102.383 0/0:26:26,0:26:915:0:0:0,-7.82678,-82.6656 0/1:47:20,27:20:703:27:968:-73.2205,0,-49.4451 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:37:37,0:37:1292:0:0:0,-11.1381,-116.578 1/1:41:0,41:0:0:41:1456:-131.336,-12.3422,0 0/0:27:27,0:27:956:0:0:0,-8.12781,-86.3441 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:34:15,19:15:512:19:669:-50.2702,0,-36.1667 0/1:48:22,26:22:764:26:919:-68.2016,0,-54.6273 0/0:65:65,0:65:2295:0:0:0,-19.5669,-206.809 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:15:6,9:6:207:9:320:-24.5696,0,-14.4514 0/1:89:41,48:41:1439:48:1709:-126.917,0,-103.004 0/1:45:32,13:32:1118:13:464:-28.5286,0,-87.3796 0/0:25:24,1:24:864:1:36:0,-3.92747,-74.4843 0/0:39:39,0:39:1357:0:0:0,-11.7402,-122.426 chr07 730544 . C T 41583.8 PASS AB=0.493963;ABP=3.29872;AC=31;AF=0.738095;AN=42;AO=1924;CIGAR=1X;DP=2512;DPB=2512;DPRA=0.988017;EPP=4180.92;EPPR=1279.84;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9915;NS=21;NUMALT=1;ODDS=20.1705;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68938;QR=21052;RO=588;RPL=0;RPP=4180.92;RPPR=1279.84;RPR=1924;RUN=1;SAF=1924;SAP=4180.92;SAR=0;SRF=588;SRP=1279.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:166:0,166:0:0:166:5956:-536.146,-49.971,0 1/1:150:0,150:0:0:150:5378:-484.15,-45.1545,0 0/1:114:40,74:40:1428:74:2656:-204.968,0,-94.5001 1/1:119:0,119:0:0:119:4263:-383.847,-35.8226,0 0/1:232:131,101:131:4668:101:3624:-256.526,0,-350.445 1/1:131:0,131:0:0:131:4700:-423.159,-39.4349,0 1/1:129:1,128:1:36:128:4600:-410.564,-35.2346,0 0/0:121:121,0:121:4340:0:0:0,-36.4246,-390.774 1/1:238:3,235:3:108:235:8421:-747.816,-61.57,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/1:22:17,5:17:612:5:180:-9.9294,0,-48.7908 0/1:101:48,53:48:1720:53:1895:-140.423,0,-124.681 0/1:177:82,95:82:2940:95:3408:-253.652,0,-211.552 1/1:296:1,295:1:36:295:10572:-947.791,-85.5066,0 1/1:112:0,112:0:0:112:3977:-358.119,-33.7154,0 0/1:113:57,56:57:2048:56:1993:-145.626,0,-150.575 0/1:79:57,22:57:2040:22:792:-47.8243,0,-160.087 0/1:60:21,39:21:752:39:1400:-108.237,0,-49.9445 1/1:86:1,85:1:36:85:3039:-270.141,-22.2903,0 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 chr07 730582 . 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C T 25900.9 PASS AB=0.55418;ABP=35.9521;AC=13;AF=0.309524;AN=42;AO=1379;CIGAR=1X;DP=2981;DPB=2981;DPRA=1.95957;EPP=2997.47;EPPR=3481.71;GTI=3;LEN=1;MEANALT=1;MQM=59.9115;MQMR=60;NS=21;NUMALT=1;ODDS=0.158909;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48047;QR=57184;RO=1602;RPL=1379;RPP=2997.47;RPPR=3481.71;RPR=0;RUN=1;SAF=0;SAP=2997.47;SAR=1379;SRF=0;SRP=3481.71;SRR=1602;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:121,3:121:4331:3:97:0,-28.2777,-380.915 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.847 0/1:56:23,33:23:828:33:1165:-88.2973,0,-57.9864 0/0:127:127,0:127:4540:0:0:0,-38.2308,-408.768 0/1:167:46,121:46:1644:121:4265:-333.759,0,-97.9766 0/0:91:91,0:91:3245:0:0:0,-27.3937,-292.27 0/0:122:121,1:121:4297:1:36:0,-33.1274,-383.31 1/1:53:0,53:0:0:53:1896:-170.918,-15.9546,0 0/0:114:114,0:114:4084:0:0:0,-34.3174,-367.746 0/0:130:128,2:128:4580:2:72:0,-32.2972,-405.529 1/1:299:5,294:5:180:294:10304:-910.709,-73.4559,0 1/1:314:5,309:5:180:309:10445:-923.454,-77.9714,0 0/1:151:60,91:60:2148:91:3159:-239.08,0,-148.132 0/1:83:35,48:35:1228:48:1660:-124.699,0,-85.8356 0/0:110:110,0:110:3948:0:0:0,-33.1133,-355.511 0/0:41:40,1:40:1423:1:36:0,-8.74395,-124.768 0/1:25:3,22:3:108:22:788:-63.719,0,-2.54942 0/1:706:337,369:337:11999:369:13013:-958.437,0,-867.243 0/1:104:72,32:72:2584:32:1111:-68.9891,0,-201.502 0/0:77:77,0:77:2739:0:0:0,-23.1793,-246.753 0/0:40:40,0:40:1414:0:0:0,-12.0412,-127.556 chr07 924575 . C A 62445.5 PASS AB=0.780892;ABP=540.985;AC=32;AF=0.761905;AN=42;AO=2861;CIGAR=1X;DP=3097;DPB=3097;DPRA=2.71518;EPP=6215.59;EPPR=513.306;GTI=5;LEN=1;MEANALT=1.05;MQM=56.1832;MQMR=59.6298;NS=21;NUMALT=1;ODDS=0.906639;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=101826;QR=8233;RO=235;RPL=2861;RPP=6215.59;RPPR=513.306;RPR=0;RUN=1;SAF=2861;SAP=6215.59;SAR=0;SRF=235;SRP=513.306;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:228:0,228:0:0:228:8114:-728.726,-68.6348,0 1/1:212:0,212:0:0:212:7534:-676.848,-63.8184,0 0/1:70:27,43:27:939:43:1528:-116.628,0,-63.7459 1/1:236:0,236:0:0:236:8425:-756.273,-71.0431,0 0/1:208:21,187:21:748:187:6660:-534.795,0,-5.02636 1/1:226:2,224:2:72:224:7991:-711.531,-61.197,0 1/1:255:0,255:0:0:255:9027:-811.719,-76.7627,0 0/0:56:56,0:56:1963:0:0:0,-16.8577,-176.834 1/1:343:1,341:1:36:341:12148:-1088.49,-99.6872,0 1/1:9:0,9:0:0:9:324:-29.4931,-2.70927,0 0/1:5:3,2:3:108:2:72:-5.32966,0,-8.57002 0/1:35:12,23:12:409:23:817:-63.2621,0,-26.5994 0/1:161:50,111:50:1767:111:3930:-303.486,0,-110.843 0/1:154:23,131:23:811:131:4668:-372.863,0,-26.9511 1/1:252:0,252:0:0:252:8963:-805.138,-75.8596,0 1/1:127:0,127:0:0:127:4538:-407.302,-38.2308,0 1/1:114:4,110:4:144:110:3956:-342.655,-21.0038,0 0/1:76:21,55:21:727:55:1924:-150.303,0,-42.8712 0/1:76:15,61:15:509:61:2151:-170.842,0,-23.2528 1/1:191:0,191:0:0:191:6818:-612.226,-57.4967,0 1/1:63:0,63:0:0:63:2238:-201.619,-18.9649,0 chr07 943504 . C A 11403.7 PASS AB=0.521387;ABP=6.447;AC=11;AF=0.261905;AN=42;AO=619;CIGAR=1X;DP=2144;DPB=2144;DPRA=1.78219;EPP=1347.15;EPPR=3303.65;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9111;MQMR=59.9921;NS=21;NUMALT=1;ODDS=18.9133;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22132;QR=54139;RO=1524;RPL=0;RPP=1347.15;RPPR=3303.65;RPR=619;RUN=1;SAF=619;SAP=1347.15;SAR=0;SRF=1524;SRP=3312.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:105:104,1:104:3698:1:36:0,-28.0099,-329.425 0/0:83:83,0:83:2947:0:0:0,-24.9855,-265.465 0/1:147:57,90:57:2027:90:3236:-247.209,0,-138.451 0/0:75:75,0:75:2647:0:0:0,-22.5772,-238.478 0/1:138:62,76:62:2178:76:2711:-202.661,0,-154.744 0/0:103:103,0:103:3647:0:0:0,-31.0061,-328.435 0/0:207:206,1:206:7322:1:36:0,-58.7149,-655.438 1/1:162:0,162:0:0:162:5786:-520.853,-48.7669,0 0/0:185:183,2:183:6539:2:72:0,-48.8538,-581.757 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.864 0/1:21:14,7:14:500:7:252:-16.7073,0,-39.0145 0/1:71:43,28:43:1536:28:1008:-69.6632,0,-117.16 0/1:65:28,37:28:1004:37:1315:-99.0847,0,-71.1089 0/1:123:64,59:64:2272:59:2109:-153.051,0,-167.716 0/0:150:148,1:148:5283:1:36:0,-41.615,-472.009 0/0:58:58,0:58:2067:0:0:0,-17.4597,-186.3 0/1:72:28,44:28:995:44:1565:-119.465,0,-68.1899 0/1:165:78,87:78:2760:87:3124:-231.716,0,-198.971 0/1:63:40,23:40:1423:23:824:-55.5184,0,-109.402 0/0:77:76,1:76:2684:1:22:0,-21.0123,-239.615 0/0:46:46,0:46:1615:0:0:0,-13.8474,-145.638 chr07 943581 . C T 25098.9 PASS AB=0.505036;ABP=3.1634;AC=31;AF=0.738095;AN=42;AO=1204;CIGAR=1X;DP=1622;DPB=1622;DPRA=1.25806;EPP=2617.46;EPPR=906.343;GTI=0;LEN=1;MEANALT=1;MQM=54.1719;MQMR=59.6346;NS=21;NUMALT=1;ODDS=10.6636;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42951;QR=14782;RO=416;RPL=0;RPP=2617.46;RPPR=906.343;RPR=1204;RUN=1;SAF=0;SAP=2617.46;SAR=1204;SRF=0;SRP=906.343;SRR=416;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,104:0:0:104:3709:-332.753,-31.3071,0 1/1:61:1,60:1:36:60:2156:-188.954,-14.7646,0 0/1:59:33,26:33:1175:26:919:-65.1252,0,-88.2962 1/1:97:1,96:1:36:96:3417:-303.105,-25.6016,0 0/1:249:142,107:142:5022:107:3830:-269.332,0,-376.967 1/1:71:1,70:1:36:70:2483:-219.046,-17.7749,0 1/1:48:0,48:0:0:48:1707:-153.237,-14.4494,0 0/0:62:60,0:60:2131:0:0:0,-18.0618,-191.69 1/1:133:1,132:1:36:132:4710:-419.829,-36.4387,0 1/1:5:0,5:0:0:5:180:-16.5286,-1.50515,0 0/1:17:5,12:5:180:12:432:-33.9681,0,-11.4262 0/1:12:7,5:7:252:5:180:-12.9162,0,-19.4119 0/1:103:43,60:43:1535:60:2152:-162.646,0,-107.431 0/1:70:48,22:48:1700:22:784:-49.763,0,-132.171 1/1:90:0,90:0:0:90:3183:-285.738,-27.0927,0 1/1:68:0,68:0:0:68:2427:-217.759,-20.47,0 0/1:37:13,24:13:468:24:845:-64.6125,0,-31.3192 0/1:78:30,48:30:1063:48:1711:-130.435,0,-72.4913 0/1:70:23,47:23:824:47:1683:-130.223,0,-53.4112 1/1:101:8,93:8:288:93:3323:-271.285,-4.13662,0 1/1:87:0,87:0:0:87:3120:-279.75,-26.1896,0 chr07 961479 . A T 22285.1 PASS AB=0.609856;ABP=54.06;AC=29;AF=0.690476;AN=42;AO=1038;CIGAR=1X;DP=1272;DPB=1272;DPRA=3.00857;EPP=2257;EPPR=511.135;GTI=2;LEN=1;MEANALT=1;MQM=59.9721;MQMR=60;NS=21;NUMALT=1;ODDS=1.72441;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37166;QR=8275;RO=234;RPL=0;RPP=2257;RPPR=511.135;RPR=1038;RUN=1;SAF=1038;SAP=2257;SAR=0;SRF=234;SRP=511.135;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,112:0:0:112:4007:-360.819,-33.7154,0 1/1:58:0,58:0:0:58:2080:-187.47,-17.4597,0 0/1:53:19,34:19:680:34:1216:-93.792,0,-45.5746 1/1:86:0,86:0:0:86:3088:-278.147,-25.8886,0 0/1:115:58,57:58:2038:57:2029:-148.262,0,-149.07 1/1:64:0,64:0:0:64:2296:-206.873,-19.2659,0 1/1:88:0,88:0:0:88:3152:-283.905,-26.4906,0 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 1/1:109:0,109:0:0:109:3891:-350.384,-32.8123,0 0/1:5:4,1:4:125:1:36:-2.09312,0,-10.0535 0/0:7:7,0:7:244:0:0:0,-2.10721,-22.2994 0/1:9:8,1:8:273:1:36:-0.889005,0,-22.1909 0/1:80:18,62:18:633:62:2228:-176.701,0,-33.2127 0/1:76:32,44:32:1133:44:1576:-119.253,0,-79.3984 1/1:84:0,84:0:0:84:3016:-271.67,-25.2865,0 1/1:57:0,57:0:0:57:2048:-184.536,-17.1587,0 0/1:53:8,45:8:273:45:1610:-129.236,0,-8.94559 0/1:56:29,27:29:1044:27:972:-70.9402,0,-77.4171 0/1:40:14,26:14:500:26:909:-70.0822,0,-33.295 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 1/1:43:1,42:1:36:42:1508:-132.416,-9.34602,0 chr07 961492 . GAAT GAAC,AAAC 27651.7 PASS AB=0.607646,0.38833;ABP=53.0328,56.8427;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1045,239;CIGAR=3M1X,1X2M1X;DP=1288;DPB=1288;DPRA=2.97608,0.58192;EPP=2272.2,521.992;EPPR=0;GTI=2;LEN=1,4;MEANALT=1.78947,2;MQM=59.9722,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.76838;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37354,8331;QR=0;RO=0;RPL=0,0;RPP=2272.2,521.992;RPPR=0;RPR=1045,239;RUN=1,1;SAF=1045,239;SAP=2272.2,521.992;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,112,0:0:0:112,0:4000,0:-360.189,-33.7154,0,-360.189,-33.7154,-360.189 1/1:59:0,59,0:0:0:59,0:2124,0:-191.428,-17.7608,0,-191.428,-17.7608,-191.428 1/2:54:0,35,19:0:0:35,19:1260,681:-158.711,-55.9001,-45.3641,-103.169,0,-97.4499 1/1:89:0,89,0:0:0:89,0:3163,0:-284.896,-26.7917,0,-284.896,-26.7917,-284.896 1/2:116:0,58,57:0:0:58,57:2080,1979:-330.523,-160.865,-143.405,-169.651,0,-152.492 1/1:64:0,63,0:0:0:63,0:2260,0:-203.383,-18.9649,0,-203.383,-18.9649,-203.383 1/1:90:0,90,0:0:0:90,0:3207,0:-288.853,-27.0927,0,-288.853,-27.0927,-288.853 2/2:37:0,0,37:0:0:0,37:0,1289:-116.31,-116.31,-116.31,-11.1381,-11.1381,0 1/1:109:0,108,0:0:0:108,0:3864,0:-347.596,-32.5112,0,-347.596,-32.5112,-347.596 1/2:5:0,1,4:0:0:1,4:36,125:-13.3023,-10.3554,-10.0544,-3.29724,0,-2.09312 2/2:7:0,0,7:0:0:0,7:0,239:-21.8431,-21.8431,-21.8431,-2.10721,-2.10721,0 1/2:9:0,1,8:0:0:1,8:36,273:-25.4325,-22.493,-22.192,-3.29724,0,-0.889005 1/2:81:0,62,19:0:0:62,19:2208,672:-235.052,-55.087,-36.4231,-180.32,0,-174.6 1/2:74:0,41,33:0:0:41,33:1454,1154:-212.692,-94.2319,-81.8897,-118.812,0,-108.878 1/1:82:0,82,0:0:0:82,0:2948,0:-265.553,-24.6845,0,-265.553,-24.6845,-265.553 1/1:57:0,57,0:0:0:57,0:2026,0:-182.555,-17.1587,0,-182.555,-17.1587,-182.555 1/2:55:0,46,9:0:0:46,9:1652,311:-160.389,-25.6151,-11.7677,-135.121,0,-132.412 1/2:57:0,28,29:0:0:28,29:1008,1009:-164.644,-82.3905,-73.9617,-82.6075,0,-73.8776 1/2:46:0,30,15:0:0:30,15:1067,527:-129.843,-42.8858,-33.8549,-86.9506,0,-82.4352 1/1:43:0,42,1:0:0:42,1:1493,36:-134.304,-12.6433,0,-131.366,-9.34602,-131.065 1/1:42:0,41,1:0:0:41,1:1468,36:-132.056,-12.3422,0,-129.119,-9.04499,-128.818 chr07 1026887 . C T 5843.29 PASS AB=0.456911;ABP=12.9285;AC=11;AF=0.261905;AN=42;AO=350;CIGAR=1X;DP=1809;DPB=1809;DPRA=0.65109;EPP=763.026;EPPR=3169.02;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.84;MQMR=59.9959;NS=21;NUMALT=1;ODDS=10.2856;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12448;QR=52006;RO=1458;RPL=0;RPP=763.026;RPPR=3169.02;RPR=350;RUN=1;SAF=0;SAP=763.026;SAR=350;SRF=0;SRP=3169.02;SRR=1458;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:249:249,0:249:8882:0:0:0,-74.9565,-799.368 0/0:137:137,0:137:4893:0:0:0,-41.2411,-440.521 0/1:76:40,36:40:1418:36:1288:-93.3453,0,-105.038 0/0:91:91,0:91:3237:0:0:0,-27.3937,-291.551 0/1:192:126,66:126:4499:66:2347:-153.133,0,-347.281 0/0:130:130,0:130:4636:0:0:0,-39.1339,-417.402 0/0:86:86,0:86:3068:0:0:0,-25.8886,-276.35 1/1:66:0,66:0:0:66:2353:-212.027,-19.868,0 0/0:104:103,1:103:3682:1:28:0,-28.5074,-328.782 0/0:13:13,0:13:459:0:0:0,-3.91339,-41.6435 0/1:10:4,6:4:136:6:216:-16.7802,0,-9.56524 0/1:10:3,7:3:108:7:245:-19.3799,0,-7.06487 0/1:63:29,34:29:1036:34:1220:-91.1419,0,-74.589 0/1:69:35,33:35:1247:33:1154:-83.3357,0,-91.7043 0/0:135:135,0:135:4831:0:0:0,-40.639,-434.944 0/0:94:93,1:93:3323:1:36:0,-24.6985,-295.69 0/1:66:32,34:32:1135:34:1205:-88.8859,0,-82.5901 0/1:93:37,56:37:1302:56:1996:-151.918,0,-89.484 0/1:36:27,9:27:968:9:324:-18.6688,0,-76.6003 0/0:38:38,0:38:1346:0:0:0,-11.4391,-121.439 0/0:51:50,1:50:1800:1:36:0,-11.7543,-158.684 chr07 1026889 . A T 28932 PASS AB=0.51;ABP=3.53145;AC=31;AF=0.738095;AN=42;AO=1360;CIGAR=1X;DP=1725;DPB=1725;DPRA=1.2;EPP=2956.21;EPPR=795.598;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.8466;NS=21;NUMALT=1;ODDS=15.5687;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48089;QR=13072;RO=365;RPL=0;RPP=2956.21;RPPR=795.598;RPR=1360;RUN=1;SAF=0;SAP=2956.21;SAR=1360;SRF=0;SRP=795.598;SRR=365;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:236:0,236:0:0:236:8331:-749.809,-71.0431,0 1/1:135:0,135:0:0:135:4769:-429.37,-40.6391,0 0/1:71:37,34:37:1324:34:1200:-86.9325,0,-98.089 1/1:86:0,86:0:0:86:3068:-276.35,-25.8886,0 0/1:190:67,123:67:2404:123:4384:-337.539,0,-158.436 1/1:119:0,119:0:0:119:4205:-378.632,-35.8226,0 1/1:82:0,82:0:0:82:2913:-262.405,-24.6845,0 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.093 1/1:90:0,90:0:0:90:3177:-286.155,-27.0927,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/1:63:37,26:37:1332:26:917:-63.8806,0,-101.217 0/1:68:36,32:36:1288:32:1136:-82.0789,0,-95.7535 1/1:128:0,128:0:0:128:4550:-409.666,-38.5318,0 1/1:90:1,89:1:36:89:3124:-277.789,-23.4944,0 0/1:68:37,31:37:1320:31:1085:-77.4869,0,-98.6319 0/1:90:57,33:57:2036:33:1161:-77.702,0,-156.42 0/1:30:10,20:10:356:20:708:-55.0147,0,-23.3503 1/1:36:0,36:0:0:36:1246:-112.438,-10.8371,0 1/1:44:1,43:1:36:43:1503:-131.964,-9.64705,0 chr07 1047643 . A G 27512.1 PASS AB=0.659794;ABP=110.577;AC=32;AF=0.761905;AN=42;AO=1288;CIGAR=1X;DP=1515;DPB=1515;DPRA=1.25603;EPP=2799.87;EPPR=493.763;GTI=1;LEN=1;MEANALT=1.05;MQM=59.059;MQMR=59.9735;NS=21;NUMALT=1;ODDS=4.98471;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45527;QR=7940;RO=226;RPL=0;RPP=2799.87;RPPR=493.763;RPR=1288;RUN=1;SAF=0;SAP=2799.87;SAR=1288;SRF=0;SRP=493.763;SRR=226;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:0,133:0:0:133:4718:-424.531,-40.037,0 1/1:51:0,51:0:0:51:1784:-160.181,-15.3525,0 0/1:85:23,62:23:792:62:2192:-171.705,0,-46.0066 1/1:112:0,112:0:0:112:3965:-355.795,-33.7154,0 0/1:103:29,74:29:1019:74:2632:-205.982,0,-61.0152 1/1:78:0,78:0:0:78:2772:-249.533,-23.4803,0 1/1:76:0,76:0:0:76:2661:-239.101,-22.8783,0 0/0:58:58,0:58:2039:0:0:0,-17.4597,-183.782 1/1:194:0,194:0:0:194:6865:-617.311,-58.3998,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:10:5,5:5:171:5:180:-13.5418,0,-12.7152 0/1:24:8,16:8:284:16:576:-44.9218,0,-18.6786 0/1:122:69,52:69:2423:52:1817:-126.291,0,-181.54 0/1:82:17,65:17:604:65:2309:-183.154,0,-30.0061 1/1:85:0,85:0:0:85:2965:-266.341,-25.5876,0 1/1:61:0,61:0:0:61:2160:-194.381,-18.3628,0 1/1:24:2,22:2:68:22:784:-64.4219,-0.767012,0 0/1:27:10,17:10:360:17:608:-46.9184,0,-24.6165 0/1:32:3,29:3:108:29:1016:-82.1022,0,-0.44221 1/1:117:2,115:2:72:115:4082:-360.114,-28.3838,0 1/1:33:0,33:0:0:33:1157:-104.339,-9.93399,0 chr07 1047657 . CTTT ATTC,TTTT 33837.9 PASS AB=0.664107,0.333973;ABP=124.884,127.751;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1306,238;CIGAR=1X2M1X,1X3M;DP=1548;DPB=1548;DPRA=1.21885,0.67454;EPP=2718.65,511.171;EPPR=0;GTI=2;LEN=4,1;MEANALT=1.75,2;MQM=58.9832,59.937;MQMR=0;NS=21;NUMALT=2;ODDS=2.48711;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45962,8479;QR=0;RO=0;RPL=1292,237;RPP=2718.65,511.171;RPPR=0;RPR=14,1;RUN=1,1;SAF=0,0;SAP=2838.95,519.821;SAR=1306,238;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,136,0:0:0:136,0:4792,0:-430.98,-40.9401,0,-430.98,-40.9401,-430.98 1/1:54:0,54,0:0:0:54,0:1910,0:-171.542,-16.2556,0,-171.542,-16.2556,-171.542 1/2:89:0,63,26:0:0:63,26:2194,909:-252.508,-74.2966,-55.3317,-178.561,0,-170.734 1/1:113:0,113,0:0:0:113,0:3989,0:-358.338,-34.0164,0,-358.338,-34.0164,-358.338 1/2:104:0,75,29:0:0:75,29:2661,1040:-301.856,-85.1845,-62.6072,-217.029,0,-208.299 1/1:80:0,79,0:0:0:79,0:2750,0:-247.305,-23.7814,0,-247.305,-23.7814,-247.305 1/1:77:0,77,0:0:0:77,0:2718,0:-244.157,-23.1793,0,-244.157,-23.1793,-244.157 2/2:61:0,0,61:0:0:0,61:0,2180:-196.466,-196.466,-196.466,-18.3628,-18.3628,0 1/1:198:0,197,0:0:0:197,0:6961,0:-625.396,-59.3029,0,-625.396,-59.3029,-625.396 1/1:8:0,8,0:0:0:8,0:287,0:-26.1765,-2.40824,0,-26.1765,-2.40824,-26.1765 1/2:9:0,5,4:0:0:5,4:180,144:-26.7966,-12.1095,-10.6043,-15.0469,0,-13.8428 1/2:24:0,16,8:0:0:16,8:562,284:-69.2269,-23.4951,-18.6786,-46.0854,0,-43.6771 1/2:124:0,53,71:0:0:53,71:1834,2537:-355.517,-207.207,-191.252,-148.66,0,-127.287 1/2:88:0,67,20:0:0:67,20:2343,720:-249.288,-58.8105,-38.6415,-190.538,0,-184.517 1/1:87:0,87,0:0:0:87,0:3041,0:-272.969,-26.1896,0,-272.969,-26.1896,-272.969 1/1:62:0,61,0:0:0:61,0:2147,0:-192.92,-18.3628,0,-192.92,-18.3628,-192.92 1/2:24:0,21,3:0:0:21,3:741,104:-69.1273,-8.79332,-2.47169,-60.6811,0,-59.778 1/2:27:0,17,10:0:0:17,10:608,345:-77.9463,-28.3705,-23.253,-49.9253,0,-46.915 1/2:32:0,29,3:0:0:29,3:1022,108:-92.3718,-9.17208,-0.44221,-83.5589,0,-82.6558 1/1:118:0,116,2:0:0:116,2:4088,72:-367.143,-34.9195,0,-361.268,-28.6848,-360.666 1/1:33:0,32,1:0:0:32,1:1134,36:-101.941,-9.63296,0,-99.0032,-6.33572,-98.7021 chr07 1050038 . G A 8551.8 PASS AB=0.436364;ABP=33.9637;AC=11;AF=0.261905;AN=42;AO=502;CIGAR=1X;DP=2266;DPB=2266;DPRA=0.895208;EPP=1093.09;EPPR=3822.64;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9977;NS=21;NUMALT=1;ODDS=14.7598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17780;QR=62588;RO=1763;RPL=0;RPP=1093.09;RPPR=3822.64;RPR=502;RUN=1;SAF=0;SAP=1093.09;SAR=502;SRF=0;SRP=3831.32;SRR=1763;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:154:152,1:152:5371:1:36:0,-42.8191,-479.924 0/0:127:127,0:127:4526:0:0:0,-38.2308,-407.506 0/1:80:45,35:45:1584:35:1256:-89.2629,0,-118.765 0/0:113:113,0:113:3983:0:0:0,-34.0164,-358.658 0/1:269:175,94:175:6245:94:3325:-218.491,0,-481.169 0/0:134:134,0:134:4763:0:0:0,-40.338,-428.825 0/0:190:190,0:190:6761:0:0:0,-57.1957,-608.564 1/1:116:0,116:0:0:116:4100:-369.185,-34.9195,0 0/0:187:187,0:187:6633:0:0:0,-56.2926,-597.052 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:13:3,10:3:108:10:342:-27.1957,0,-6.16178 0/1:24:9,15:9:315:15:540:-41.7118,0,-21.4625 0/1:212:107,105:107:3811:105:3739:-272.893,0,-279.37 0/1:123:65,58:65:2315:58:2063:-148.914,0,-171.583 0/0:181:181,0:181:6433:0:0:0,-54.4864,-579.059 0/0:62:62,0:62:2193:0:0:0,-18.6639,-197.634 0/1:93:50,43:50:1796:43:1496:-106.933,0,-133.927 0/1:19:12,7:12:432:7:252:-17.3094,0,-33.5016 0/1:47:30,17:30:1053:17:595:-39.7283,0,-80.9302 0/0:83:82,1:82:2892:1:36:0,-21.3872,-256.915 0/0:32:32,0:32:1126:0:0:0,-9.63296,-101.647 chr07 1050178 . G T 53296.4 PASS AB=0.505165;ABP=3.23463;AC=31;AF=0.738095;AN=42;AO=2438;CIGAR=1X;DP=3107;DPB=3107;DPRA=0.78973;EPP=5288.38;EPPR=1447.05;GTI=0;LEN=1;MEANALT=1;MQM=59.9766;MQMR=59.9552;NS=21;NUMALT=1;ODDS=1.72793;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87266;QR=23869;RO=669;RPL=1;RPP=5288.38;RPPR=1447.05;RPR=2437;RUN=1;SAF=2438;SAP=5297.06;SAR=0;SRF=669;SRP=1455.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:207:0,207:0:0:207:7438:-669.461,-62.3132,0 1/1:115:0,115:0:0:115:4120:-370.984,-34.6185,0 0/1:135:70,65:70:2485:65:2322:-168.6,0,-183.263 1/1:237:0,237:0:0:237:8480:-763.201,-71.3441,0 0/1:276:134,142:134:4761:142:5083:-374.529,0,-345.563 1/1:80:1,79:1:36:79:2829:-251.251,-20.4841,0 1/1:236:0,236:0:0:236:8456:-761.04,-71.0431,0 0/0:185:185,0:185:6597:0:0:0,-55.6905,-593.812 1/1:237:0,237:0:0:237:8489:-764.008,-71.3441,0 1/1:18:0,18:0:0:18:644:-58.0989,-5.41854,0 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:49:29,20:29:1040:20:720:-50.3783,0,-79.1639 0/1:106:50,56:50:1791:56:2008:-149.084,0,-129.563 0/1:71:38,33:38:1355:33:1184:-85.4952,0,-100.877 1/1:422:0,422:0:0:422:15074:-1356.36,-127.035,0 1/1:137:0,137:0:0:137:4870:-438.452,-41.2411,0 0/1:117:56,61:56:2008:61:2196:-162.685,0,-145.146 0/1:141:74,67:74:2648:67:2412:-174.891,0,-196.121 0/1:67:24,43:24:860:43:1527:-117.553,0,-57.5528 1/1:199:4,195:4:144:195:6979:-614.859,-46.5914,0 1/1:66:0,66:0:0:66:2363:-212.928,-19.868,0 chr07 1052637 . T C 16722 PASS AB=0.489686;ABP=4.04053;AC=11;AF=0.261905;AN=42;AO=710;CIGAR=1X;DP=2112;DPB=2112;DPRA=2.28628;EPP=1544.76;EPPR=3027.9;GTI=2;LEN=1;MEANALT=1.07143;MQM=59.8732;MQMR=59.995;NS=21;NUMALT=1;ODDS=1.79124;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25184;QR=49443;RO=1401;RPL=390;RPP=17.9965;RPPR=18.2013;RPR=320;RUN=1;SAF=390;SAP=17.9965;SAR=320;SRF=752;SRP=19.4537;SRR=649;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:57,0:57:2007:0:0:0,-17.1587,-180.903 0/0:6:6,0:6:208:0:0:0,-1.80618,-19.0591 0/1:111:62,49:62:2195:49:1743:-123.739,0,-164.401 0/0:68:68,0:68:2391:0:0:0,-20.47,-215.448 0/1:157:68,88:68:2423:88:3126:-234.077,0,-171.005 0/0:59:58,1:58:2056:1:32:0,-14.5615,-182.112 0/0:93:92,1:92:3251:1:36:0,-24.3975,-289.209 1/1:159:0,159:0:0:159:5687:-511.943,-47.8638,0 0/0:179:178,1:178:6292:1:27:0,-51.1846,-563.682 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:11:3,8:3:104:8:280:-22.228,0,-6.39148 0/1:43:19,24:19:676:24:856:-64.4168,0,-48.2237 0/1:247:116,131:116:4120:131:4623:-341.851,0,-296.631 0/1:141:80,61:80:2826:61:2180:-154.021,0,-212.135 0/0:136:136,0:136:4760:0:0:0,-40.9401,-428.565 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:17:12,5:12:428:5:180:-11.4346,0,-33.7413 0/1:242:107,135:107:3789:135:4740:-353.905,0,-268.361 0/1:146:101,45:101:3550:45:1602:-100.516,0,-275.763 0/0:128:126,2:126:4410:2:72:0,-31.6951,-390.243 0/0:83:83,0:83:2917:0:0:0,-24.9855,-262.767 chr07 1052652 . G A 16959.8 PASS AB=0.471441;ABP=11.3204;AC=11;AF=0.261905;AN=42;AO=720;CIGAR=1X;DP=2273;DPB=2273;DPRA=2.13079;EPP=1566.47;EPPR=3375.31;GTI=1;LEN=1;MEANALT=1;MQM=59.8583;MQMR=59.9955;NS=21;NUMALT=1;ODDS=3.48003;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25693;QR=55121;RO=1553;RPL=392;RPP=15.3636;RPPR=7.55319;RPR=328;RUN=1;SAF=392;SAP=15.3636;SAR=328;SRF=748;SRP=7.55319;SRR=805;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2251:0:0:0,-19.2659,-202.851 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:113:65,48:65:2323:48:1719:-120.978,0,-175.313 0/0:73:73,0:73:2616:0:0:0,-21.9752,-235.688 0/1:166:77,89:77:2732:89:3156:-234.236,0,-196.151 0/0:65:64,1:64:2271:1:36:0,-15.9687,-201.054 0/0:95:94,1:94:3367:1:36:0,-24.9996,-299.641 1/1:161:0,161:0:0:161:5752:-517.792,-48.4658,0 0/0:205:203,2:203:7220:2:72:0,-54.8744,-643.019 0/0:25:25,0:25:879:0:0:0,-7.52575,-79.4268 0/1:11:3,8:3:108:8:279:-22.1362,0,-6.76384 0/1:46:20,26:20:720:26:919:-69.1788,0,-51.2814 0/1:253:123,130:123:4360:130:4621:-339.882,0,-316.413 0/1:154:90,64:90:3185:64:2300:-160.902,0,-240.513 0/0:161:161,0:161:5740:0:0:0,-48.4658,-516.717 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:17:12,5:12:432:5:176:-11.0675,0,-34.1037 0/1:248:111,137:111:3932:137:4912:-367.57,0,-279.418 0/1:165:119,46:119:4176:46:1643:-98.4426,0,-326.355 0/0:142:140,2:140:4943:2:72:0,-35.9095,-438.183 0/0:94:94,0:94:3326:0:0:0,-28.2968,-299.557 chr07 1082112 . T C 16096.7 PASS AB=0.563821;ABP=44.863;AC=11;AF=0.261905;AN=42;AO=870;CIGAR=1X;DP=2989;DPB=2989;DPRA=1.14956;EPP=1892.19;EPPR=4552.39;GTI=0;LEN=1;MEANALT=1;MQM=59.9747;MQMR=59.9773;NS=21;NUMALT=1;ODDS=5.97794;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31077;QR=75977;RO=2119;RPL=0;RPP=1892.19;RPPR=4552.39;RPR=870;RUN=1;SAF=0;SAP=1892.19;SAR=870;SRF=0;SRP=4604.36;SRR=2119;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:126:124,2:124:4456:2:72:0,-31.0931,-394.372 0/0:128:128,0:128:4585:0:0:0,-38.5318,-412.813 0/1:187:88,99:88:3160:99:3556:-263.955,0,-228.332 0/0:192:191,1:191:6849:1:36:0,-54.1995,-612.878 0/1:259:104,155:104:3736:155:5527:-419.588,0,-258.455 0/0:146:146,0:146:5240:0:0:0,-43.9504,-471.736 0/0:218:218,0:218:7809:0:0:0,-65.6245,-702.837 1/1:196:2,194:2:72:194:6906:-614.77,-52.1652,0 0/0:240:239,1:239:8562:1:36:0,-68.6489,-766.975 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:43:11,32:11:392:32:1140:-89.9524,0,-22.6758 0/1:265:98,167:98:3520:167:5973:-457.902,0,-237.236 0/1:178:72,106:72:2569:106:3800:-288.614,0,-177.875 0/0:216:216,0:216:7768:0:0:0,-65.0225,-699.146 0/0:124:124,0:124:4448:0:0:0,-37.3277,-400.49 0/1:118:60,58:60:2141:58:2073:-151.317,0,-157.377 0/1:62:35,27:35:1252:27:965:-68.5027,0,-94.3212 0/1:63:45,18:45:1620:18:648:-39.687,0,-127.125 0/0:146:141,5:141:5026:5:165:0,-28.7768,-437.311 0/0:60:60,0:60:2160:0:0:0,-18.0618,-194.667 chr07 1134144 . AT AC 8720.26 PASS AB=0.559823;ABP=24.0547;AC=13;AF=0.309524;AN=42;AO=475;CIGAR=1M1X;DP=1631;DPB=1631;DPRA=1.15704;EPP=1034.46;EPPR=2502.38;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9053;MQMR=59.9705;NS=21;NUMALT=1;ODDS=4.85148;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17000;QR=40685;RO=1151;RPL=0;RPP=1034.46;RPPR=2502.38;RPR=475;RUN=1;SAF=0;SAP=1034.46;SAR=475;SRF=0;SRP=2502.38;SRR=1151;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:100:99,1:99:3524:1:36:0,-26.5047,-313.767 0/0:46:46,0:46:1632:0:0:0,-13.8474,-147.168 0/1:55:15,40:15:538:40:1425:-111.984,0,-32.1991 0/0:46:46,0:46:1628:0:0:0,-13.8474,-146.807 0/1:220:65,155:65:2309:155:5531:-431.682,0,-141.844 0/0:70:69,1:69:2443:1:36:0,-17.4738,-216.525 0/0:110:109,0:109:3856:0:0:0,-32.8123,-346.986 1/1:84:0,84:0:0:84:3016:-271.624,-25.2865,0 0/0:128:128,0:128:4472:0:0:0,-38.5318,-402.652 0/1:11:10,1:10:358:1:36:-0.286945,0,-29.2516 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:12:4,8:4:144:8:284:-22.2891,0,-9.70126 0/1:94:43,51:43:1529:51:1832:-136.864,0,-109.606 0/1:82:37,45:37:1313:45:1616:-121.042,0,-93.7865 0/0:180:179,1:179:6308:1:36:0,-50.5871,-564.216 0/0:52:52,0:52:1853:0:0:0,-15.6536,-167.049 0/1:73:36,33:36:1267:33:1184:-85.7376,0,-93.1827 0/1:70:41,29:41:1425:29:1032:-72.1214,0,-107.47 0/1:60:43,17:43:1523:17:612:-37.3516,0,-119.301 0/0:93:92,1:92:3258:1:36:0,-24.3975,-289.841 0/0:37:37,0:37:1305:0:0:0,-11.1381,-117.749 chr07 1158232 . C T 38556.2 PASS AB=0.565083;ABP=38.6242;AC=31;AF=0.738095;AN=42;AO=1809;CIGAR=1X;DP=2286;DPB=2286;DPRA=2.28265;EPP=3931.2;EPPR=1032.29;GTI=0;LEN=1;MEANALT=1.15;MQM=59.691;MQMR=59.9641;NS=21;NUMALT=1;ODDS=13.5416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64677;QR=16996;RO=474;RPL=0;RPP=3931.2;RPPR=1032.29;RPR=1809;RUN=1;SAF=1809;SAP=3931.2;SAR=0;SRF=474;SRP=1032.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:2,111:2:72:111:3954:-349.193,-27.4396,0 1/1:144:0,144:0:0:144:5168:-465.135,-43.3483,0 0/1:76:41,35:41:1464:35:1252:-90.105,0,-109.178 1/1:112:0,112:0:0:112:3995:-359.721,-33.7154,0 0/1:232:101,131:101:3620:131:4688:-352.198,0,-256.166 1/1:75:0,75:0:0:75:2688:-242.139,-22.5773,0 1/1:184:0,184:0:0:184:6554:-589.787,-55.3895,0 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.676 1/1:206:0,206:0:0:206:7361:-662.526,-62.0122,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 0/1:7:6,1:6:216:1:36:-1.47156,0,-17.6833 0/1:35:10,25:10:360:25:892:-70.0555,0,-22.2083 0/1:129:54,75:54:1940:75:2680:-202.608,0,-136.043 0/1:97:50,47:50:1780:47:1688:-122.998,0,-131.283 1/1:120:0,120:0:0:120:4288:-386.078,-36.1236,0 1/1:97:0,97:0:0:97:3456:-311.251,-29.1999,0 0/1:100:50,49:50:1792:49:1760:-128.559,0,-131.44 0/1:102:45,57:45:1616:57:2048:-153.854,0,-115.023 0/1:190:62,127:62:2232:127:4549:-352.428,0,-144.037 1/1:123:3,120:3:108:120:4276:-374.891,-26.9515,0 1/1:74:1,73:1:36:73:2624:-232.792,-18.6779,0 chr07 1158298 . T C 6753 PASS AB=0.384707;ABP=99.6473;AC=11;AF=0.261905;AN=42;AO=413;CIGAR=1X;DP=2286;DPB=2286;DPRA=0.808471;EPP=873.96;EPPR=3966.62;GTI=1;LEN=1;MEANALT=1;MQM=59.9661;MQMR=59.9754;NS=21;NUMALT=1;ODDS=16.8954;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14746;QR=67005;RO=1873;RPL=410;RPP=873.96;RPPR=3966.62;RPR=3;RUN=1;SAF=0;SAP=899.828;SAR=413;SRF=0;SRP=4070.18;SRR=1873;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:210:210,0:210:7490:0:0:0,-63.2163,-674.143 0/0:91:91,0:91:3268:0:0:0,-27.3937,-294.34 0/1:83:57,26:57:2048:26:932:-59.2134,0,-159.606 0/0:142:142,0:142:5093:0:0:0,-42.7463,-458.504 0/1:111:63,48:63:2249:48:1705:-120.32,0,-169.257 0/0:133:133,0:133:4756:0:0:0,-40.037,-428.197 0/0:140:140,0:140:5024:0:0:0,-42.1442,-452.305 1/1:86:0,86:0:0:86:3053:-274.999,-25.8886,0 0/0:182:182,0:182:6489:0:0:0,-54.7875,-584.091 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/1:7:5,2:5:180:2:68:-4.3505,0,-14.4449 0/1:39:22,17:22:788:17:612:-43.6733,0,-59.5046 0/1:194:122,72:122:4357:72:2588:-174.769,0,-333.773 0/1:101:63,38:63:2249:38:1364:-92.6505,0,-172.267 0/0:187:186,1:186:6646:1:36:0,-52.6943,-594.618 0/0:139:138,1:138:4956:1:36:0,-38.2449,-442.589 0/1:99:50,49:50:1792:49:1744:-127.442,0,-131.761 0/1:108:62,46:62:2224:46:1640:-115.377,0,-167.913 0/1:95:71,24:71:2532:24:860:-49.124,0,-199.534 0/0:49:46,3:46:1644:3:108:0,-4.6753,-138.173 0/0:69:69,0:69:2472:0:0:0,-20.7711,-222.734 chr07 1158881 . A T 11310.3 PASS AB=0.511185;ABP=4.32182;AC=11;AF=0.261905;AN=42;AO=660;CIGAR=1X;DP=2658;DPB=2658;DPRA=1.1064;EPP=1436.18;EPPR=4313.42;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9061;MQMR=58.4146;NS=21;NUMALT=1;ODDS=15.3836;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23591;QR=71687;RO=1997;RPL=0;RPP=1436.18;RPPR=4313.42;RPR=660;RUN=1;SAF=660;SAP=1436.18;SAR=0;SRF=1997;SRP=4339.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:183:183,0:183:6588:0:0:0,-55.0885,-591.168 0/0:73:72,1:72:2573:1:36:0,-18.3769,-227.863 0/1:118:58,60:58:2088:60:2156:-158.785,0,-152.484 0/0:135:135,0:135:4837:0:0:0,-40.639,-435.253 0/1:326:149,177:149:5356:177:6336:-472.194,0,-383.97 0/0:117:113,4:113:4064:4:144:0,-21.9069,-352.483 0/0:231:231,0:231:8304:0:0:0,-69.5379,-745.607 1/1:37:0,37:0:0:37:1332:-120.165,-11.1381,0 0/0:274:273,1:273:9797:1:36:0,-78.8839,-877.189 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6215 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/1:41:30,11:30:1080:11:396:-23.6405,0,-85.0073 0/1:189:76,113:76:2736:113:4039:-306.785,0,-189.324 0/1:177:94,83:94:3368:83:2952:-212.628,0,-249.904 0/0:92:92,0:92:3293:0:0:0,-27.6948,-296.385 0/0:106:106,0:106:3801:0:0:0,-31.9092,-341.856 0/1:159:85,74:85:3037:74:2625:-188.619,0,-224.739 0/1:111:45,65:45:1620:65:2336:-177.026,0,-112.353 0/1:74:45,29:45:1616:29:1023:-70.0964,0,-123.381 0/0:108:108,0:108:3861:0:0:0,-32.5112,-347.519 0/0:67:67,0:67:2412:0:0:0,-20.169,-217.279 chr07 1158900 . ATT AG,ATG 57252.5 PASS AB=0.487179,0.508685;ABP=4.73634,3.80238;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1986,661;CIGAR=1M1D1X,2M1X;DP=2655;DPB=1992.67;DPRA=3.53784,1.01541;EPP=4298.2,1429.68;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=1.95,2.21429;MQM=58.4366,59.9047;MQMR=60;NS=21;NUMALT=2;ODDS=15.5484;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70891,23641;QR=21;RO=1;RPL=1984,660;RPP=4298.2,1429.68;RPPR=5.18177;RPR=2,1;RUN=1,1;SAF=1986,661;SAP=4315.55,1438.35;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:180:0,180,0:0:0:180,0:6450,0:-580.296,-54.1854,0,-580.296,-54.1854,-580.296 1/1:72:0,71,1:0:0:71,1:2548,36:-228.905,-21.3731,0,-225.968,-18.0759,-225.667 1/2:121:0,60,61:0:0:60,61:2126,2196:-352.539,-179.542,-161.48,-173.353,0,-154.991 1/1:134:0,133,0:0:0:133,0:4757,0:-427.708,-40.037,0,-427.708,-40.037,-427.708 1/2:326:0,147,175:0:0:147,175:5262,6226:-936.441,-507.395,-463.143,-429.044,0,-376.364 1/1:116:0,112,4:0:0:112,4:3998,144:-359.525,-33.7154,0,-347.775,-21.6059,-346.571 1/1:231:0,231,0:0:0:231,0:8223,0:-739.194,-69.5379,0,-739.194,-69.5379,-739.194 2/2:37:0,0,37:0:0:0,37:0,1323:-119.354,-119.354,-119.354,-11.1381,-11.1381,0 1/1:278:0,277,1:0:0:277,1:9864,36:-886.47,-83.3853,0,-883.533,-80.0881,-883.231 1/1:28:0,28,0:0:0:28,0:993,0:-89.6279,-8.42884,0,-89.6279,-8.42884,-89.6279 1/2:12:0,7,5:0:0:7,5:252,180:-35.6088,-15.0469,-12.9397,-20.9217,0,-19.4166 1/2:41:0,30,11:0:0:30,11:1080,396:-120.63,-32.6714,-23.6405,-88.3187,0,-85.0073 1/2:190:1,77,112:1:21:77,112:2753,4031:-551.384,-327.445,-305.853,-222.8,0,-190.671 1/2:177:0,94,83:0:0:94,83:3333,2977:-514.553,-243.172,-214.875,-271.738,0,-246.753 1/1:91:0,91,0:0:0:91,0:3272,0:-294.496,-27.3937,0,-294.496,-27.3937,-294.496 1/1:106:0,106,0:0:0:106,0:3783,0:-340.211,-31.9092,0,-340.211,-31.9092,-340.211 1/2:160:0,85,75:0:0:85,75:3040,2665:-464.59,-217.487,-191.9,-247.458,0,-224.881 1/2:108:0,43,65:0:0:43,65:1506,2327:-312.467,-190.122,-177.178,-122.698,0,-103.131 1/2:74:0,46,28:0:0:46,28:1652,996:-216.213,-81.5218,-67.6744,-135.048,0,-126.619 1/1:106:0,105,0:0:0:105,0:3731,0:-335.478,-31.6082,0,-335.478,-31.6082,-335.478 1/1:67:0,63,3:0:0:63,3:2268,108:-203.967,-18.9649,0,-195.155,-10.1525,-194.252 chr07 1170819 . CTTAC CTTTAC 13520.9 PASS AB=0.504225;ABP=3.06535;AC=31;AF=0.738095;AN=42;AO=687;CIGAR=1M1I4M;DP=958;DPB=1095.6;DPRA=0.506977;EPP=1494.81;EPPR=587.136;GTI=0;LEN=1;MEANALT=1.1;MQM=41.8413;MQMR=53.5576;NS=21;NUMALT=1;ODDS=2.51599;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24094;QR=9456;RO=269;RPL=0;RPP=1494.81;RPPR=587.136;RPR=687;RUN=1;SAF=687;SAP=1494.81;SAR=0;SRF=269;SRP=587.136;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,70:0:0:70:2460:-213.964,-21.0721,0 1/1:34:0,34:0:0:34:1205:-106.613,-10.235,0 0/1:42:19,23:19:680:23:811:-58.0693,0,-48.8247 1/1:31:0,30:0:0:30:1067:-92.6377,-9.0309,0 0/1:82:43,39:43:1526:39:1361:-93.831,0,-112.234 1/1:38:2,36:2:62:36:1267:-106.124,-5.61795,0 1/1:67:3,63:3:106:63:2212:-185.404,-10.3299,0 0/0:86:86,0:86:3014:0:0:0,-25.8886,-271.053 1/1:65:0,65:0:0:65:2252:-198.841,-19.567,0 1/1:8:0,8:0:0:8:284:-25.4828,-2.40824,0 0/1:4:1,3:1:31:3:108:-8.69702,0,-1.89451 0/1:18:9,9:9:310:9:312:-22.5863,0,-22.7771 0/1:51:36,15:36:1271:15:517:-30.0175,0,-99.0615 0/1:41:19,22:19:672:22:747:-52.729,0,-47.9547 1/1:89:1,88:1:36:88:3089:-265.622,-23.1971,0 1/1:22:0,22:0:0:22:777:-68.6507,-6.62266,0 0/1:13:6,7:6:202:7:229:-16.5151,0,-14.5801 0/1:56:34,22:34:1192:22:772:-51.244,0,-89.809 0/1:48:9,39:9:318:39:1348:-102.85,0,-14.3503 1/1:59:1,58:1:36:58:2056:-178.579,-14.1676,0 1/1:34:0,34:0:0:34:1220:-108.231,-10.235,0 chr07 1170830 . AAGAGAGAGAGAGAG AAGAGAGAGAG,AAGAGAGAGAT 19087.7 PASS AB=0.52071,0.45858;ABP=4.2695,8.04709;AC=31,11;AF=0.738095,0.261905;AN=42;AO=703,240;CIGAR=1M4D10M,1M4D9M1X;DP=956;DPB=701.667;DPRA=0.532927,1.06071;EPP=1529.56,524.164;EPPR=0;GTI=1;LEN=4,11;MEANALT=2.1,2.38462;MQM=42.0242,53.975;MQMR=0;NS=21;NUMALT=2;ODDS=0.0545464;PAIRED=0,0;PAIREDR=0;PAO=0,5;PQA=0,158;PQR=0;PRO=0;QA=24298,8377;QR=0;RO=0;RPL=0,0;RPP=1529.56,524.164;RPPR=0;RPR=703,240;RUN=1,1;SAF=703,240;SAP=1529.56,524.164;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71,0:0:0:71,0:2413,0:-210.253,-21.3731,0,-210.253,-21.3731,-210.253 1/1:37:0,37,0:0:0:37,0:1286,0:-113.858,-11.1381,0,-113.858,-11.1381,-113.858 1/2:41:0,23,18:0:0:23,18:796,640:-114.645,-52.4544,-45.5307,-62.5364,0,-57.1178 1/1:35:0,34,0:0:0:34,0:1216,0:-105.773,-10.235,0,-105.773,-10.235,-105.773 1/2:78:0,36,38:0:0:36,38:1257,1329:-207.007,-108.08,-97.2427,-98.9881,0,-87.5489 1/1:38:0,37,1:0:0:37,1:1299,32:-114.483,-11.1381,0,-111.935,-8.27232,-111.633 1/1:70:0,66,0:0:0:66,0:2259,0:-199.58,-19.868,0,-199.58,-19.868,-199.58 2/2:82:0,0,82:0:0:0,82:0,2852:-255.974,-255.974,-255.974,-24.6845,-24.6845,0 1/1:69:0,68,0:0:0:68,0:2344,0:-206.726,-20.47,0,-206.726,-20.47,-206.726 1/1:8:0,8,0:0:0:8,0:284,0:-25.4828,-2.40824,0,-25.4828,-2.40824,-25.4828 1/2:4:0,3,1:0:0:3,1:108,32:-11.567,-2.89725,-1.99416,-8.99805,0,-8.69702 1/2:16:0,9,7:0:0:9,7:312,252:-45.8332,-20.8891,-18.1798,-25.2956,0,-23.1884 1/2:50:0,17,32:0:0:17,32:566,1106:-134.078,-89.7349,-84.6173,-44.3924,0,-34.7594 1/2:38:0,20,17:0:0:20,17:615,593:-95.7374,-48.1158,-42.0952,-47.663,0,-42.5454 1/1:89:0,88,1:0:0:88,1:3080,36:-268.346,-26.4906,0,-265.412,-23.1971,-265.11 1/1:25:0,25,0:0:0:25,0:853,0:-75.4982,-7.52575,0,-75.4982,-7.52575,-75.4982 1/2:12:0,6,6:0:0:6,6:212,212:-34.1713,-17.2422,-15.436,-16.9228,0,-15.1166 1/2:52:0,22,29:0:0:22,29:767,1009:-142.851,-81.7756,-75.153,-61.2036,0,-52.4737 1/2:47:0,40,7:0:0:40,7:1380,248:-128.146,-20.4312,-8.38998,-108.064,0,-105.957 1/1:58:0,57,1:0:0:57,1:1979,36:-175.157,-17.1587,0,-172.224,-14.2261,-171.923 1/1:36:0,36,0:0:0:36,0:1272,0:-112.603,-10.8371,0,-112.603,-10.8371,-112.603 chr07 1170878 . AAG GAC,AAC 49737.9 PASS AB=0.509091,0.490909;ABP=3.56304,3.56304;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1372,537;CIGAR=1X1M1X,2M1X;DP=1922;DPB=1923;DPRA=0.578105,1.39921;EPP=743.489,5.14942;EPPR=6.91895;GTI=0;LEN=3,1;MEANALT=1.85,2.14286;MQM=54.7682,56.9441;MQMR=56.4;NS=21;NUMALT=2;ODDS=8.23883;PAIRED=0,0;PAIREDR=0;PAO=2,0.5;PQA=68,0;PQR=0;PRO=0.5;QA=47832,19026;QR=168;RO=5;RPL=1365,535;RPP=2921.78,1151.78;RPPR=13.8677;RPR=7,2;RUN=1,1;SAF=337,255;SAP=774.111,5.95816;SAR=1035,282;SRF=4;SRP=6.91895;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:0,124,3:0:0:124,3:4289,108:-378.419,-37.3277,0,-369.613,-28.162,-368.71 1/1:63:0,63,0:0:0:63,0:2145,0:-192.905,-18.9649,0,-192.905,-18.9649,-192.905 1/2:73:0,40,33:0:0:40,33:1383,1175:-205.748,-96.0643,-84.0231,-110.031,0,-100.097 1/1:128:0,126,0:0:0:126,0:4347,0:-387.747,-37.9298,0,-387.747,-37.9298,-387.747 1/2:163:0,83,80:0:0:83,80:2872,2850:-460.384,-232.13,-207.145,-228.601,0,-204.519 1/1:113:0,112,1:0:0:112,1:3913,22:-352.085,-33.7154,0,-350.41,-31.8198,-350.109 1/1:110:5,103,0:5:168:103,0:3590,0:-307.171,-17.3718,0,-308.676,-31.0061,-322.27 2/2:153:0,0,151:0:0:0,151:0,5356:-481.182,-481.182,-481.182,-45.4555,-45.4555,0 1/1:71:0,71,0:0:0:71,0:2461,0:-221.532,-21.3731,0,-221.532,-21.3731,-221.532 1/1:12:0,12,0:0:0:12,0:408,0:-37.0441,-3.61236,0,-37.0441,-3.61236,-37.0441 1/2:5:0,2,3:0:0:2,3:72,104:-14.6789,-8.79875,-8.19669,-6.23466,0,-5.33157 1/2:40:0,13,27:0:0:13,27:466,968:-117.205,-79.2681,-75.3547,-38.2952,0,-30.1673 1/2:123:0,48,75:0:0:48,75:1689,2670:-353.53,-217.572,-203.123,-136.309,0,-113.731 1/2:104:0,55,49:0:0:55,49:1909,1743:-294.366,-142.251,-125.694,-152.464,0,-137.713 1/1:177:0,175,1:0:0:175,1:6104,36:-540.421,-52.6803,0,-537.486,-49.7464,-537.185 1/1:29:0,29,0:0:0:29,0:1022,0:-92.2916,-8.72987,0,-92.2916,-8.72987,-92.2916 1/2:42:0,21,21:0:0:21,21:715,709:-115.616,-57.6081,-51.2865,-58.1655,0,-51.8439 1/2:104:0,39,65:0:0:39,65:1389,2285:-298.769,-185.561,-173.821,-113.562,0,-93.9947 1/2:116:0,91,25:0:0:91,25:3234,892:-330.333,-72.9482,-45.5545,-257.739,0,-250.213 1/1:76:0,72,3:0:0:72,3:2523,108:-226.975,-21.6742,0,-218.167,-12.8067,-217.264 1/1:93:0,93,0:0:0:93,0:3301,0:-297.037,-27.9958,0,-297.037,-27.9958,-297.037 chr07 1213170 . A G 1.82451e-12 PASS AB=0.494632;ABP=3.33669;AC=10;AF=0.238095;AN=42;AO=910;CIGAR=1X;DP=2553;DPB=2553;DPRA=1.94453;EPP=1979.05;EPPR=3568.57;GTI=9;LEN=1;MEANALT=1.05;MQM=10.6286;MQMR=26.8228;NS=21;NUMALT=1;ODDS=37.9459;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32449;QR=58861;RO=1642;RPL=0;RPP=1979.05;RPPR=3568.57;RPR=910;RUN=1;SAF=910;SAP=1979.05;SAR=0;SRF=1642;SRP=3568.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:62,41:62:2228:41:1438:-8.24827,0,-85.245 0/0:73:55,18:55:1976:18:633:0,-5.71744,-67.2542 0/0:69:51,18:51:1813:18:644:0,-2.15229,-97.5403 0/1:182:96,86:96:3414:86:3050:-24.9037,0,-123.865 0/0:295:247,48:247:8842:48:1697:0,-44.0898,-594.862 0/1:90:39,51:39:1400:51:1813:-23.0843,0,-32.8821 0/1:181:91,90:91:3276:90:3201:-28.7973,0,-88.2607 0/0:64:64,0:64:2300:0:0:0,-19.2659,-168.341 0/1:206:110,96:110:3956:96:3432:-25.6443,0,-159.122 0/1:17:7,10:7:252:10:356:-3.97222,0,-6.89844 0/0:12:10,2:10:356:2:72:0,-1.71422,-20.2489 0/0:46:32,14:32:1137:14:504:0,-1.15983,-62.6025 0/0:159:117,42:117:4200:42:1493:0,-10.0284,-245.247 0/0:118:87,31:87:3113:31:1116:0,-7.549,-186.838 0/1:142:75,67:75:2688:67:2400:-17.5905,0,-97.3768 0/1:80:39,40:39:1404:40:1436:-16.857,0,-57.2626 0/0:94:78,16:78:2785:16:572:0,-13.8124,-180.302 0/0:179:136,43:136:4888:43:1544:0,-11.3183,-282.878 0/0:140:107,33:107:3848:33:1188:0,-8.12524,-198.84 0/1:195:89,106:89:3185:106:3780:-43.1764,0,-93.8621 0/1:108:50,58:50:1800:58:2080:-19.8247,0,-44.0681 chr07 1213177 . GGCG CACA,AGTG 17186.7 PASS AB=0.613177,0.375133;ABP=107.705,130.449;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1288,357;CIGAR=2X1M1X,1X1M1X1M;DP=1676;DPB=1676;DPRA=0,1.34916;EPP=2799.87,778.226;EPPR=7.35324;GTI=0;LEN=4,4;MEANALT=2.42857,2.69231;MQM=20.8339,48.1569;MQMR=58;NS=21;NUMALT=2;ODDS=8.08796;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45643,12588;QR=60;RO=2;RPL=0,0;RPP=2799.87,778.226;RPPR=7.35324;RPR=1288,357;RUN=1,1;SAF=1288,357;SAP=2799.87,778.226;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:0,63,0:0:0:63,0:2219,0:-117.673,-18.9649,0,-117.673,-18.9649,-117.673 1/1:55:0,55,0:0:0:55,0:1943,0:-83.443,-16.5567,0,-83.443,-16.5567,-83.443 1/2:52:0,40,11:0:0:40,11:1432,392:-100.498,-31.4972,-19.456,-68.9694,0,-65.6581 1/1:101:0,98,0:0:0:98,0:3482,0:-182.505,-29.5009,0,-182.505,-29.5009,-182.505 1/2:253:0,129,121:0:0:129,121:4568,4261:-565.032,-344.471,-305.638,-220.624,0,-184.199 1/1:42:0,39,1:0:0:39,1:1352,36:-57.8405,-11.7402,0,-54.9436,-8.84712,-54.6426 1/1:95:2,90,0:2:60:90,0:3179,0:-132.337,-22.3045,0,-132.939,-27.0927,-137.737 1/2:64:0,29,35:0:0:29,35:1042,1225:-146.692,-98.5944,-89.8645,-48.3737,0,-37.8377 1/1:111:0,109,0:0:0:109,0:3886,0:-217.568,-32.8123,0,-217.568,-32.8123,-217.568 1/1:8:0,8,0:0:0:8,0:288,0:-13.7185,-2.40824,0,-13.7185,-2.40824,-13.7185 1/2:10:0,6,4:0:0:6,4:201,135:-18.6204,-11.1209,-9.31472,-7.76902,0,-6.5649 1/2:33:0,19,14:0:0:19,14:643,502:-68.3733,-40.9135,-35.1939,-27.747,0,-23.5325 1/2:117:0,80,37:0:0:80,37:2823,1323:-247.698,-107.586,-83.5032,-140.428,0,-129.289 1/2:88:0,54,33:0:0:54,33:1911,1159:-186.799,-93.9066,-77.651,-92.9521,0,-83.0181 1/1:75:0,74,1:0:0:74,1:2623,36:-136.421,-22.2762,0,-133.5,-18.9985,-133.199 1/1:41:0,39,0:0:0:39,0:1378,0:-80.6066,-11.7402,0,-80.6066,-11.7402,-80.6066 1/2:77:0,52,24:0:0:52,24:1842,837:-164.425,-67.9534,-52.2999,-96.5034,0,-89.2786 1/2:138:0,81,54:0:0:81,54:2873,1902:-277.69,-153.205,-128.821,-124.484,0,-108.229 1/2:109:0,87,20:0:0:87,20:3111,711:-199.44,-57.3879,-31.1983,-142.048,0,-136.028 1/1:93:0,87,2:0:0:87,2:3103,69:-145.934,-26.1896,0,-140.368,-20.615,-139.766 1/1:50:0,49,0:0:0:49,0:1744,0:-74.1767,-14.7505,0,-74.1767,-14.7505,-74.1767 chr07 1213208 . CAAG TAAC 4907.61 PASS AB=0.373802;ABP=132.903;AC=10;AF=0.238095;AN=42;AO=355;CIGAR=1X2M1X;DP=1673;DPB=1673.75;DPRA=1.34191;EPP=773.883;EPPR=2810.72;GTI=0;LEN=4;MEANALT=1.84615;MQM=48.1887;MQMR=20.9288;NS=21;NUMALT=1;ODDS=9.40565;PAIRED=0;PAIREDR=0;PAO=3;PQA=108;PQR=0;PRO=0;QA=12516;QR=45694;RO=1293;RPL=355;RPP=773.883;RPPR=2810.72;RPR=0;RUN=1;SAF=355;SAP=773.883;SAR=0;SRF=1293;SRP=2810.72;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:63,0:63:2234:0:0:0,-18.9649,-117.814 0/0:55:55,0:55:1951:0:0:0,-16.5566,-83.4706 0/1:52:40,11:40:1411:11:375:-18.2155,0,-65.5842 0/0:101:98,0:98:3453:0:0:0,-29.5009,-182.377 0/1:252:129,119:129:4578:119:4187:-299.283,0,-184.999 0/0:40:39,1:39:1365:1:36:0,-8.49268,-54.6841 0/0:96:93,0:93:3251:0:0:0,-27.9958,-146.271 0/1:64:29,34:29:1016:34:1199:-87.4964,0,-37.5086 0/0:112:110,0:110:3894:0:0:0,-33.1133,-220.483 0/0:8:8,0:8:285:0:0:0,-2.40824,-13.7126 0/1:10:6,4:6:211:4:144:-10.0322,0,-6.65341 0/1:33:19,14:19:659:14:497:-34.7579,0,-23.6553 0/1:118:81,37:81:2841:37:1306:-81.7202,0,-130.032 0/1:88:54,33:54:1914:33:1176:-79.1341,0,-83.2182 0/0:76:74,1:74:2627:1:36:0,-19.2824,-133.275 0/0:41:39,0:39:1388:0:0:0,-11.7402,-80.6975 0/1:76:52,24:52:1827:24:837:-52.5848,0,-89.4923 0/1:137:80,55:80:2825:55:1947:-132.856,0,-106.359 0/1:109:87,20:87:3096:20:704:-30.4841,0,-136.093 0/0:92:87,2:87:3096:2:72:0,-20.3554,-139.498 0/0:50:50,0:50:1772:0:0:0,-15.0515,-76.5409 chr07 1213416 . C T 3237.81 PASS AB=0.481233;ABP=5.29238;AC=31;AF=0.738095;AN=42;AO=1140;CIGAR=1X;DP=1740;DPB=1740;DPRA=0.400777;EPP=2478.49;EPPR=1305.89;GTI=6;LEN=1;MEANALT=1;MQM=15.5474;MQMR=58.325;NS=21;NUMALT=1;ODDS=1.634;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40807;QR=21428;RO=600;RPL=1140;RPP=2478.49;RPPR=1305.89;RPR=0;RUN=1;SAF=0;SAP=2478.49;SAR=1140;SRF=0;SRP=1305.89;SRR=600;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:4,113:4:144:113:4049:-146.825,-27.1894,0 1/1:87:3,84:3:108:84:3020:-109.905,-21.4445,0 0/1:130:64,66:64:2296:66:2376:-54.4136,0,-166.953 1/1:75:0,75:0:0:75:2696:-101.765,-22.5773,0 0/1:182:98,84:98:3509:84:3020:-58.8755,0,-261.08 1/1:34:2,32:2:72:32:1140:-35.9022,-3.43597,0 1/1:136:1,135:1:36:135:4829:-179.752,-39.2454,0 0/0:193:193,0:193:6906:0:0:0,-58.0988,-621.534 1/1:105:0,105:0:0:105:3740:-147.204,-31.6082,0 1/1:18:0,18:0:0:18:633:-26.0199,-5.41854,0 0/1:11:1,10:1:36:10:360:-10.3084,0,-0.286945 0/1:42:19,23:19:680:23:828:-19.0185,0,-48.8859 0/1:66:34,32:34:1205:32:1148:-23.2917,0,-88.8859 0/1:115:66,49:66:2323:49:1745:-34.701,0,-174.661 1/1:108:0,108:0:0:108:3876:-146.655,-32.5112,0 1/1:51:9,42:9:324:42:1489:-46.619,-3.26356,0 0/1:57:29,28:29:1029:28:989:-20.861,0,-72.3228 0/1:92:59,33:59:2116:33:1184:-20.3475,0,-162.873 0/1:51:17,34:17:608:34:1224:-32.3631,0,-39.6995 1/1:43:0,43:0:0:43:1525:-57.8909,-12.9443,0 1/1:27:1,26:1:36:26:936:-36.673,-4.52954,0 chr07 1213422 . C T 3211.19 PASS AB=0.471879;ABP=8.01749;AC=31;AF=0.738095;AN=42;AO=1109;CIGAR=1X;DP=1687;DPB=1687;DPRA=0.396296;EPP=2411.17;EPPR=1258.12;GTI=6;LEN=1;MEANALT=1;MQM=15.6159;MQMR=59.6747;NS=21;NUMALT=1;ODDS=3.65153;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38194;QR=20642;RO=578;RPL=1109;RPP=2411.17;RPPR=1258.12;RPR=0;RUN=1;SAF=0;SAP=2411.17;SAR=1109;SRF=0;SRP=1258.12;SRR=578;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:1,113:1:36:113:3953:-151.603,-30.7191,0 1/1:82:0,82:0:0:82:2782:-109.978,-24.6845,0 0/1:123:61,62:61:2192:62:2128:-49.5365,0,-160.482 1/1:71:0,71:0:0:71:2458:-96.7676,-21.3731,0 0/1:181:99,82:99:3488:82:2782:-55.96,0,-259.533 1/1:33:2,31:2:72:31:1090:-34.9897,-3.13494,0 1/1:133:0,133:0:0:133:4564:-178.608,-40.037,0 0/0:189:189,0:189:6780:0:0:0,-56.8947,-610.201 1/1:101:0,101:0:0:101:3457:-141.227,-30.404,0 1/1:18:0,18:0:0:18:630:-25.7857,-5.41854,0 0/1:10:1,9:1:36:9:282:-9.08255,0,-0.587975 0/1:39:19,20:19:680:20:640:-15.6006,0,-49.789 0/1:66:34,32:34:1212:32:1120:-23.2602,0,-89.5183 0/1:110:67,43:67:2389:43:1439:-27.5398,0,-182.106 1/1:104:0,104:0:0:104:3597:-140.789,-31.3071,0 1/1:46:0,46:0:0:46:1587:-62.0975,-13.8474,0 0/1:59:27,32:27:953:32:1128:-28.1397,0,-68.3225 0/1:93:61,32:61:2192:32:1132:-20.5752,0,-169.339 0/1:48:16,32:16:576:32:1140:-30.559,0,-37.7255 1/1:42:0,42:0:0:42:1445:-56.4935,-12.6433,0 1/1:25:1,24:1:36:24:840:-33.5976,-3.92748,0 chr07 1269882 . GTTGCC ATTGCT,ATTGAT 32266.6 PASS AB=0.514593,0.473118;ABP=4.21445,7.0964;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1168,413;CIGAR=1X4M1X,1X3M2X;DP=1596;DPB=1596.17;DPRA=0.732353,0.997445;EPP=2539.29,899.828;EPPR=5.18177;GTI=0;LEN=6,6;MEANALT=2.15,2.58333;MQM=40.2714,59.0121;MQMR=22;NS=21;NUMALT=2;ODDS=1.63751;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=41174,14556;QR=36;RO=1;RPL=0,0;RPP=2539.29,899.828;RPPR=5.18177;RPR=1168,413;RUN=1,1;SAF=1168,413;SAP=2539.29,899.828;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42,0:0:0:42,0:1485,0:-129.521,-12.6433,0,-129.521,-12.6433,-129.521 1/1:52:0,52,0:0:0:52,0:1852,0:-156.88,-15.6536,0,-156.88,-15.6536,-156.88 1/2:60:0,21,38:0:0:21,38:748,1362:-170.225,-111.032,-104.711,-59.1839,0,-47.7447 1/1:108:0,107,0:0:0:107,0:3745,0:-326.769,-32.2102,0,-326.769,-32.2102,-326.769 1/2:173:0,101,72:0:0:101,72:3552,2534:-486.055,-206.592,-176.188,-279.81,0,-258.136 1/1:61:0,59,2:0:0:59,2:2084,72:-176.351,-17.7608,0,-170.478,-11.528,-169.875 1/1:141:0,140,0:0:0:140,0:4917,0:-415.862,-42.1442,0,-415.862,-42.1442,-415.862 2/2:102:0,0,102:0:0:0,102:0,3592:-323.431,-323.431,-323.431,-30.7051,-30.7051,0 1/1:120:0,120,0:0:0:120,0:4253,0:-375.888,-36.1236,0,-375.888,-36.1236,-375.888 1/1:18:0,18,0:0:0:18,0:634,0:-54.7725,-5.41854,0,-54.7725,-5.41854,-54.7725 1/2:5:0,4,1:0:0:4,1:144,35:-14.1792,-3.1968,-1.99268,-11.33,0,-11.029 1/2:19:0,9,10:0:0:9,10:316,359:-54.3327,-29.6433,-26.9341,-25.0375,0,-22.0272 1/2:115:0,55,59:0:0:55,59:1951,2081:-323.675,-169.546,-152.989,-154.274,0,-136.514 1/2:45:0,30,13:0:0:30,13:1062,461:-121.42,-37.5757,-28.5448,-83.8878,0,-79.9744 1/1:97:0,94,1:0:0:94,1:3343,32:-292.034,-28.2968,0,-289.456,-25.7234,-289.155 1/1:58:0,58,0:0:0:58,0:2072,0:-183.25,-17.4597,0,-183.25,-17.4597,-183.25 1/2:85:0,22,62:0:0:22,62:764,2172:-236.549,-176.498,-169.876,-60.0936,0,-41.4298 1/2:81:0,45,35:0:0:45,35:1562,1220:-219.777,-99.1256,-85.5792,-120.633,0,-110.097 1/2:68:0,48,18:0:0:48,18:1679,636:-183.661,-51.763,-37.3136,-131.9,0,-126.481 1/1:80:0,78,0:0:0:78,0:2727,0:-235.111,-23.4803,0,-235.111,-23.4803,-235.111 1/1:66:1,65,0:1:36:65,0:2284,0:-191.439,-17.6848,0,-191.74,-19.567,-193.402 chr07 1269909 . A G 29886.3 PASS AB=0.525191;ABP=6.62058;AC=31;AF=0.738095;AN=42;AO=1199;CIGAR=1X;DP=1615;DPB=1615;DPRA=0.749505;EPP=502.186;EPPR=702.245;GTI=0;LEN=1;MEANALT=1;MQM=40.2636;MQMR=58.8413;NS=21;NUMALT=1;ODDS=6.94868;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42865;QR=14876;RO=416;RPL=337;RPP=502.186;RPPR=702.245;RPR=862;RUN=1;SAF=1199;SAP=2606.61;SAR=0;SRF=416;SRP=906.343;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1530:-132.049,-12.9443,0 1/1:57:0,57:0:0:57:2048:-172.304,-17.1587,0 0/1:60:39,21:39:1404:21:756:-48.4022,0,-108.545 1/1:110:0,110:0:0:110:3933:-341.488,-33.1133,0 0/1:173:70,103:70:2508:103:3670:-264.979,0,-173.826 1/1:63:2,61:2:72:61:2196:-177.528,-12.1301,0 1/1:141:0,141:0:0:141:5019:-421.411,-42.4452,0 0/0:101:101,0:101:3613:0:0:0,-30.404,-325.305 1/1:124:0,124:0:0:124:4448:-392.55,-37.3277,0 1/1:18:0,18:0:0:18:633:-54.1241,-5.41854,0 0/1:5:1,4:1:36:4:144:-11.029,0,-2.09212 0/1:19:10,9:10:360:9:324:-22.6073,0,-27.0247 0/1:116:60,56:60:2152:56:1989:-139.477,0,-157.743 0/1:45:14,31:14:504:31:1112:-83.7347,0,-31.2631 1/1:98:1,97:1:36:97:3465:-298.312,-25.9027,0 1/1:57:0,57:0:0:57:2048:-180.861,-17.1587,0 0/1:88:60,28:60:2126:28:981:-57.1389,0,-164.771 0/1:82:37,45:37:1328:45:1620:-112.242,0,-94.9988 0/1:67:20,47:20:701:47:1688:-126.768,0,-43.2018 1/1:80:0,80:0:0:80:2857:-244.631,-24.0824,0 1/1:68:1,67:1:36:67:2404:-198.768,-18.2869,0 chr07 1269914 . A G 23281.3 PASS AB=0.51608;ABP=4.47679;AC=31;AF=0.738095;AN=42;AO=1174;CIGAR=1X;DP=1598;DPB=1598;DPRA=0.725728;EPP=2552.32;EPPR=853.37;GTI=0;LEN=1;MEANALT=1.05;MQM=40.2819;MQMR=58.7801;NS=21;NUMALT=1;ODDS=2.56008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41951;QR=15152;RO=423;RPL=1174;RPP=2552.32;RPPR=853.37;RPR=0;RUN=1;SAF=1174;SAP=2552.32;SAR=0;SRF=423;SRP=921.543;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1530:-132.049,-12.9443,0 1/1:56:0,56:0:0:56:1989:-167.762,-16.8577,0 0/1:59:40,19:40:1440:19:684:-42.442,0,-112.085 1/1:106:0,106:0:0:106:3780:-328.504,-31.9092,0 0/1:172:71,101:71:2552:101:3598:-259.581,0,-178.087 1/1:61:2,58:2:72:58:2084:-168.879,-11.5727,0 1/1:140:0,140:0:0:140:5019:-420.588,-42.1442,0 0/0:103:103,0:103:3684:0:0:0,-31.0061,-331.672 1/1:123:0,123:0:0:123:4408:-388.511,-37.0267,0 1/1:17:0,17:0:0:17:595:-51.2084,-5.11751,0 0/1:5:1,4:1:36:4:144:-11.029,0,-2.09212 0/1:19:10,9:10:360:9:320:-22.3172,0,-27.0247 0/1:115:61,54:61:2172:54:1936:-134.921,0,-159.842 0/1:46:15,31:15:536:31:1108:-82.7567,0,-33.8388 1/1:97:1,96:1:36:96:3448:-296.854,-25.6016,0 1/1:57:0,57:0:0:57:2048:-180.995,-17.1587,0 0/1:89:61,28:61:2188:28:990:-58.0781,0,-169.992 0/1:81:38,43:38:1356:43:1540:-105.92,0,-97.8148 0/1:67:19,48:19:684:48:1689:-126.672,0,-41.685 1/1:78:0,78:0:0:78:2800:-240.433,-23.4803,0 1/1:64:1,63:1:36:63:2241:-185.711,-17.0828,0 chr07 1277841 . T C 8955.18 PASS AB=0.50974;ABP=3.51792;AC=11;AF=0.261905;AN=42;AO=384;CIGAR=1X;DP=1290;DPB=1290;DPRA=1.41928;EPP=3.21388;EPPR=48.045;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9818;MQMR=59.9702;NS=21;NUMALT=1;ODDS=0.49576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13666;QR=32276;RO=905;RPL=0;RPP=836.856;RPPR=1916.42;RPR=384;RUN=1;SAF=189;SAP=3.21388;SAR=195;SRF=527;SRP=56.2798;SRR=378;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:24,0:24:845:0:0:0,-7.22472,-76.367 0/0:55:55,0:55:1964:0:0:0,-16.5566,-177.035 0/1:33:16,17:16:572:17:612:-45.4794,0,-41.8794 0/0:57:57,0:57:2031:0:0:0,-17.1587,-183.062 0/1:92:48,43:48:1711:43:1540:-111.179,0,-126.56 0/0:61:61,0:61:2165:0:0:0,-18.3628,-195.115 0/0:78:75,3:75:2645:3:108:0,-13.4052,-227.994 1/1:66:0,66:0:0:66:2368:-213.378,-19.868,0 0/0:84:83,1:83:2972:1:36:0,-21.6882,-264.115 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:21:13,8:13:464:8:288:-19.9458,0,-35.7759 0/1:55:22,33:22:788:33:1184:-90.3117,0,-54.6881 0/1:69:30,39:30:1072:39:1385:-104.176,0,-76.0214 0/0:65:65,0:65:2313:0:0:0,-19.5669,-208.429 0/0:36:36,0:36:1273:0:0:0,-10.8371,-114.871 0/1:45:14,31:14:504:31:1097:-85.4917,0,-32.1517 0/1:164:71,93:71:2532:93:3290:-246.948,0,-178.763 0/1:132:86,46:86:3077:46:1614:-105.806,0,-237.421 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 0/0:102:102,0:102:3664:0:0:0,-30.7051,-329.963 chr07 1278541 . A G 24812.2 PASS AB=0.44086;ABP=28.4375;AC=31;AF=0.738095;AN=42;AO=1197;CIGAR=1X;DP=1723;DPB=1723;DPRA=1.673;EPP=2602.26;EPPR=1138.69;GTI=0;LEN=1;MEANALT=1.15;MQM=59.8922;MQMR=59.8967;NS=21;NUMALT=1;ODDS=4.06747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42760;QR=18200;RO=523;RPL=0;RPP=2602.26;RPPR=1138.69;RPR=1197;RUN=1;SAF=1197;SAP=2602.26;SAR=0;SRF=523;SRP=1138.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,57:0:0:57:2044:-184.232,-17.1587,0 1/1:46:2,44:2:72:44:1580:-135.65,-7.01066,0 0/1:95:51,44:51:1786:44:1584:-114.254,0,-132.421 1/1:106:0,106:0:0:106:3785:-340.844,-31.9092,0 0/1:184:104,80:104:3645:80:2868:-202.967,0,-272.859 1/1:37:0,37:0:0:37:1317:-118.83,-11.1381,0 1/1:145:0,144:0:0:144:5145:-462.616,-43.3483,0 0/0:50:50,0:50:1766:0:0:0,-15.0515,-159.219 1/1:150:0,149:0:0:149:5314:-477.997,-44.8535,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/1:66:40,26:40:1243:26:936:-64.6915,0,-92.2746 0/1:129:67,62:67:2396:62:2224:-161.562,0,-177.064 0/1:132:79,52:79:2749:52:1852:-127.176,0,-207.892 1/1:73:1,72:1:36:72:2588:-229.57,-18.3769,0 1/1:47:0,47:0:0:47:1656:-149.325,-14.1484,0 0/1:54:32,22:32:1118:22:769:-53.2714,0,-84.6679 0/1:93:59,34:59:2070:34:1214:-81.5704,0,-158.572 0/1:75:33,42:33:1139:42:1500:-112.717,0,-80.1015 1/1:94:3,91:3:108:91:3248:-282.465,-18.2217,0 1/1:71:0,71:0:0:71:2532:-228.123,-21.3731,0 chr07 1278556 . CTCTG ATCTC,GTCTC 36823.1 PASS AB=0.434028,0.559028;ABP=35.6729,29.1584;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1210,541;CIGAR=1X3M1X,1X3M1X;DP=1766;DPB=1766;DPRA=1.64808,1.00437;EPP=2621.81,1177.78;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.3,2.6;MQM=59.886,59.902;MQMR=0;NS=21;NUMALT=2;ODDS=3.10156;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42719,19025;QR=0;RO=0;RPL=1,0;RPP=2621.81,1177.78;RPPR=0;RPR=1209,541;RUN=1,1;SAF=1210,541;SAP=2630.49,1177.78;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,57,1:0:0:57,1:2003,36:-180.209,-17.1587,0,-177.271,-14.1913,-176.97 1/1:47:0,45,2:0:0:45,2:1593,72:-143.295,-13.5464,0,-137.42,-7.31169,-136.818 1/2:100:0,45,54:0:0:45,54:1613,1907:-286.987,-155.428,-141.881,-131.691,0,-115.436 1/1:107:0,106,0:0:0:106,0:3784,0:-340.478,-31.9092,0,-340.478,-31.9092,-340.478 1/2:188:0,81,107:0:0:81,107:2889,3778:-543.499,-307.989,-283.606,-235.864,0,-203.654 1/1:37:0,36,0:0:0:36,0:1274,0:-114.661,-10.8371,0,-114.661,-10.8371,-114.661 1/1:146:0,145,0:0:0:145,0:5082,0:-457.096,-43.6494,0,-457.096,-43.6494,-457.096 2/2:52:0,0,50:0:0:0,50:0,1768:-159.044,-159.044,-159.044,-15.0515,-15.0515,0 1/1:153:0,152,0:0:0:152,0:5369,0:-482.987,-45.7566,0,-482.987,-45.7566,-482.987 1/1:10:0,10,0:0:0:10,0:359,0:-32.6536,-3.0103,0,-32.6536,-3.0103,-32.6536 1/2:9:0,7,2:0:0:7,2:246,72:-26.2513,-6.23466,-4.12745,-20.3746,0,-19.7725 1/2:68:0,26,42:0:0:26,42:909,1489:-195.606,-121.66,-113.833,-74.2971,0,-61.6538 1/2:131:0,63,68:0:0:63,68:2232,2392:-376.884,-195.068,-176.103,-182.169,0,-161.698 1/2:134:0,54,79:0:0:54,79:1869,2792:-379.252,-227.399,-211.144,-151.862,0,-128.08 1/1:74:0,73,1:0:0:73,1:2586,36:-232.63,-21.9752,0,-229.693,-18.6779,-229.392 1/1:50:0,50,0:0:0:50,0:1764,0:-159.042,-15.0515,0,-159.042,-15.0515,-159.042 1/2:58:0,22,36:0:0:22,36:777,1243:-164.61,-101.331,-94.7087,-63.629,0,-52.792 1/2:99:0,34,63:0:0:34,63:1207,2192:-276.582,-178.233,-167.998,-98.3557,0,-79.3908 1/2:77:0,43,32:0:0:43,32:1517,1123:-214.598,-91.0692,-78.1249,-123.576,0,-113.943 1/1:96:0,93,3:0:0:93,3:3238,98:-291.316,-27.9958,0,-283.403,-19.7556,-282.5 1/1:71:0,68,1:0:0:68,1:2408,27:-216.644,-20.47,0,-214.516,-18.3712,-214.215 chr07 1278731 . A G 62526.5 PASS AB=0.533484;ABP=15.9525;AC=31;AF=0.738095;AN=42;AO=2375;CIGAR=1X;DP=3157;DPB=3157;DPRA=0;EPP=5160.26;EPPR=1688.07;GTI=0;LEN=1;MEANALT=1.28571;MQM=59.9895;MQMR=59.9948;NS=21;NUMALT=1;ODDS=3.62059;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82863;QR=27336;RO=776;RPL=972;RPP=172.852;RPPR=4.62211;RPR=1403;RUN=1;SAF=972;SAP=172.852;SAR=1403;SRF=400;SRP=4.62211;SRR=376;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:0,157:0:0:157:5553:-499.685,-47.2617,0 1/1:135:1,134:1:36:134:4726:-421.9,-37.0408,0 0/1:109:52,57:52:1847:57:2003:-147.728,0,-133.697 1/1:193:0,192:0:0:192:6709:-603.53,-57.7978,0 0/1:283:127,156:127:4473:156:5386:-399.686,0,-317.552 1/1:108:0,108:0:0:108:3742:-336.982,-32.5112,0 1/1:204:0,203:0:0:203:7154:-643.561,-61.1091,0 0/0:147:146,1:146:5191:1:32:0,-41.0521,-464.131 1/1:252:0,251:0:0:251:8758:-787.863,-75.5585,0 1/1:20:0,20:0:0:20:683:-61.7852,-6.0206,0 0/1:8:2,6:2:72:6:206:-16.467,0,-4.42848 0/1:39:24,15:24:856:15:540:-37.1964,0,-65.6209 0/1:237:96,141:96:3335:141:4925:-372.064,0,-229.023 0/1:174:86,88:86:3039:88:3053:-222.616,0,-221.358 1/1:261:2,258:2:72:258:8996:-802.796,-71.7909,0 1/1:92:0,92:0:0:92:3184:-286.785,-27.6948,0 0/1:81:45,36:45:1601:36:1241:-87.6034,0,-119.995 0/1:205:116,89:116:4063:89:3146:-221.654,0,-304.149 0/1:193:72,121:72:2503:121:4186:-318.808,0,-167.424 1/1:149:7,141:7:248:141:4920:-420.286,-22.2474,0 1/1:109:0,109:0:0:109:3720:-335.005,-32.8123,0 chr07 1278739 . T A 19083.8 PASS AB=0.484804;ABP=5.71619;AC=11;AF=0.261905;AN=42;AO=815;CIGAR=1X;DP=3175;DPB=3175;DPRA=0.963129;EPP=1772.76;EPPR=5127.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9951;MQMR=59.9873;NS=21;NUMALT=1;ODDS=19.7546;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28951;QR=83655;RO=2360;RPL=396;RPP=4.41976;RPPR=177.921;RPR=419;RUN=1;SAF=396;SAP=4.41976;SAR=419;SRF=962;SRP=177.921;SRR=1398;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:160:160,0:160:5694:0:0:0,-48.1648,-512.578 0/0:139:138,1:138:4914:1:36:0,-38.2449,-438.815 0/1:111:56,55:56:1996:55:1960:-143.261,0,-146.5 0/0:193:193,0:193:6857:0:0:0,-58.0988,-617.205 0/1:285:155,130:155:5478:130:4616:-329.813,0,-407.359 0/0:107:107,0:107:3778:0:0:0,-32.2102,-340.22 0/0:205:205,0:205:7289:0:0:0,-61.7111,-656.065 1/1:155:1,154:1:36:154:5500:-491.53,-43.0614,0 0/0:250:250,0:250:8806:0:0:0,-75.2575,-792.541 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/1:9:5,4:5:180:4:140:-10.2353,0,-13.8428 0/1:41:18,23:18:648:23:820:-61.7803,0,-46.3097 0/1:247:137,110:137:4868:110:3893:-276.212,0,-363.92 0/1:181:85,96:85:3027:96:3410:-252.627,0,-218.175 0/0:254:254,0:254:8983:0:0:0,-76.4616,-808.455 0/0:87:87,0:87:3090:0:0:0,-26.1896,-278.326 0/1:88:42,46:42:1500:46:1632:-120.675,0,-108.804 0/1:206:88,118:88:3100:118:4175:-313.921,0,-217.216 0/1:181:109,72:109:3871:72:2553:-175.533,0,-294.056 0/0:142:136,6:136:4797:6:216:0,-22.9557,-412.097 0/0:112:112,0:112:3955:0:0:0,-33.7154,-356.144 chr07 1278772 . G C 7507.49 PASS AB=0.464755;ABP=12.0412;AC=11;AF=0.261905;AN=42;AO=450;CIGAR=1X;DP=1943;DPB=1943;DPRA=1.06702;EPP=980.173;EPPR=3236.33;GTI=0;LEN=1;MEANALT=1.16667;MQM=60;MQMR=59.9899;NS=21;NUMALT=1;ODDS=1.10245;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16027;QR=53179;RO=1489;RPL=450;RPP=980.173;RPPR=3236.33;RPR=0;RUN=1;SAF=0;SAP=980.173;SAR=450;SRF=0;SRP=3236.33;SRR=1489;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:39,0:39:1392:0:0:0,-11.7402,-125.579 0/0:84:84,0:84:3008:0:0:0,-25.2865,-270.951 0/1:58:35,23:35:1241:23:828:-57.3844,0,-94.5328 0/0:141:140,1:140:5024:1:36:0,-38.847,-448.707 0/1:190:99,91:99:3552:91:3260:-236.425,0,-262.692 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/0:123:123,0:123:4384:0:0:0,-37.0267,-394.732 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 0/0:166:166,0:166:5937:0:0:0,-49.971,-534.435 0/0:15:15,0:15:521:0:0:0,-4.51545,-47.2163 0/1:6:3,3:3:108:3:89:-6.49818,0,-8.26899 0/1:19:10,9:10:360:9:309:-22.4211,0,-27.0247 0/1:187:103,84:103:3647:84:2969:-211.149,0,-272.14 0/1:102:47,52:47:1676:52:1864:-137.89,0,-120.978 0/0:177:177,0:177:6318:0:0:0,-53.2823,-568.711 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.516 0/1:50:28,22:28:1000:22:788:-56.1933,0,-75.2639 0/1:111:49,62:49:1755:62:2199:-164.76,0,-124.819 0/1:114:70,43:70:2507:43:1533:-103.887,0,-191.505 0/0:108:103,5:103:3661:5:180:0,-15.9592,-313.138 0/0:64:64,0:64:2284:0:0:0,-19.2659,-205.822 chr07 1296350 . C T 2438.37 PASS AB=0.289744;ABP=302.518;AC=10;AF=0.238095;AN=42;AO=255;CIGAR=1X;DP=2457;DPB=2457;DPRA=0.695533;EPP=418.92;EPPR=1499.79;GTI=2;LEN=1;MEANALT=1;MQM=33.9686;MQMR=44.7684;NS=21;NUMALT=1;ODDS=3.67371;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9134;QR=78810;RO=2202;RPL=238;RPP=418.92;RPPR=1504.66;RPR=17;RUN=1;SAF=255;SAP=556.736;SAR=0;SRF=2201;SRP=4775.91;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:195:195,0:195:6937:0:0:0,-58.7008,-605.582 0/0:118:118,0:118:4232:0:0:0,-35.5215,-357.744 0/1:67:44,23:44:1576:23:828:-45.6713,0,-119.906 0/0:122:122,0:122:4359:0:0:0,-36.7257,-382.97 0/1:205:171,34:171:6140:34:1206:-33.6802,0,-473.639 0/0:148:147,1:147:5259:1:36:0,-41.3063,-447.379 0/0:214:214,0:214:7667:0:0:0,-64.4204,-652.316 1/1:27:0,27:0:0:27:968:-76.9466,-8.12781,0 0/0:227:227,0:227:8132:0:0:0,-68.3338,-716.402 0/0:33:33,0:33:1188:0:0:0,-9.93399,-102.59 0/0:10:10,0:10:356:0:0:0,-3.0103,-31.3421 0/1:45:15,30:15:536:30:1072:-73.5657,0,-33.4507 0/1:114:86,28:86:3069:28:1008:-45.4939,0,-232.905 0/1:125:94,31:94:3367:31:1108:-51.1973,0,-256.808 0/0:266:266,0:266:9540:0:0:0,-80.074,-837.274 0/0:132:132,0:132:4728:0:0:0,-39.736,-412.499 0/1:64:50,14:50:1800:14:500:-21.0355,0,-138.925 0/1:88:48,40:48:1719:40:1436:-89.0021,0,-126.025 0/1:72:46,26:46:1636:26:936:-52.7311,0,-124.415 0/0:110:109,1:109:3900:1:36:0,-29.8671,-338.962 0/0:75:75,0:75:2669:0:0:0,-22.5772,-233.256 chr07 1296356 . G A 1949.52 PASS AB=0.28776;ABP=303.499;AC=10;AF=0.238095;AN=42;AO=251;CIGAR=1X;DP=2421;DPB=2421;DPRA=0.69507;EPP=548.05;EPPR=1451.46;GTI=3;LEN=1;MEANALT=1;MQM=33.988;MQMR=44.8892;NS=21;NUMALT=1;ODDS=8.42693;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9001;QR=77086;RO=2166;RPL=251;RPP=548.05;RPPR=1456.29;RPR=0;RUN=1;SAF=251;SAP=548.05;SAR=0;SRF=2165;SRP=4697.74;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:190:190,0:190:6748:0:0:0,-57.1957,-589.113 0/0:118:118,0:118:4191:0:0:0,-35.5215,-355.17 0/1:65:42,23:42:1489:23:828:-46.2733,0,-112.934 0/0:122:122,0:122:4361:0:0:0,-36.7257,-382.699 0/1:205:172,33:172:6085:33:1188:-32.255,0,-470.858 0/0:144:143,1:143:5117:1:36:0,-40.1022,-436.104 0/0:204:204,0:204:7275:0:0:0,-61.4101,-620.571 1/1:28:0,28:0:0:28:1004:-79.8685,-8.42884,0 0/0:226:226,0:226:7964:0:0:0,-68.0328,-701.726 0/0:34:34,0:34:1224:0:0:0,-10.235,-105.829 0/0:10:10,0:10:360:0:0:0,-3.0103,-31.7051 0/1:44:15,29:15:540:29:1032:-70.8454,0,-34.0404 0/1:113:85,28:85:2999:28:1008:-45.5375,0,-228.759 0/1:119:90,29:90:3183:29:1044:-47.5945,0,-242.506 0/0:261:260,0:260:9302:0:0:0,-78.2678,-817.243 0/0:133:130,0:130:4649:0:0:0,-39.1339,-408.402 0/1:64:50,14:50:1792:14:500:-21.0355,0,-138.272 0/1:86:47,39:47:1688:39:1404:-86.8833,0,-124.019 0/1:72:46,26:46:1652:26:921:-51.729,0,-125.703 0/0:109:108,1:108:3865:1:36:0,-29.5661,-336.296 0/0:74:74,0:74:2602:0:0:0,-22.2762,-228.273 chr07 1296362 . A G,C 60024.4 PASS AB=0.713351,0.286649;ABP=305.072,305.072;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2178,248;CIGAR=1X,1X;DP=2427;DPB=2427;DPRA=4.44444,0.692044;EPP=1467.55,541.535;EPPR=5.18177;GTI=3;LEN=1,1;MEANALT=1.5,1.90909;MQM=44.8549,33.9395;MQMR=58;NS=21;NUMALT=2;ODDS=16.7585;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77759,8803;QR=36;RO=1;RPL=482,248;RPP=1472.39,541.535;RPPR=5.18177;RPR=1696,0;RUN=1,1;SAF=2177,248;SAP=4723.8,541.535;SAR=1,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:190:0,190,0:0:0:190,0:6771,0:-591.102,-57.1957,0,-591.102,-57.1957,-591.102 1/1:115:0,115,0:0:0:115,0:4130,0:-349.068,-34.6185,0,-349.068,-34.6185,-349.068 1/2:66:0,43,23:0:0:43,23:1533,828:-181.832,-58.9166,-45.9723,-123.244,0,-116.32 1/1:122:0,122,0:0:0:122,0:4361,0:-383.727,-36.7257,0,-383.727,-36.7257,-383.727 1/2:203:0,171,32:0:0:171,32:6110,1113:-559.689,-78.5292,-27.053,-481.472,0,-471.839 1/1:147:0,146,1:0:0:146,1:5220,36:-447.792,-43.9504,0,-445.172,-41.0053,-444.871 1/1:210:0,210,0:0:0:210,0:7481,0:-638.592,-63.2163,0,-638.592,-63.2163,-638.592 2/2:27:0,0,27:0:0:0,27:0,963:-76.5965,-76.5965,-76.5965,-8.12781,-8.12781,0 1/1:226:1,225,0:1:36:225,0:8042,0:-703.726,-64.4355,0,-704.027,-67.7318,-706.964 1/1:32:0,32,0:0:0:32,0:1124,0:-97.4014,-9.63296,0,-97.4014,-9.63296,-97.4014 1/1:10:0,10,0:0:0:10,0:360,0:-31.7051,-3.0103,0,-31.7051,-3.0103,-31.7051 1/2:43:0,15,28:0:0:15,28:536,977:-113.461,-71.3876,-66.8721,-42.4085,0,-33.9797 1/2:114:0,85,29:0:0:85,29:3037,1036:-313.478,-73.3114,-47.7238,-240.489,0,-231.759 1/2:120:0,90,30:0:0:90,30:3198,1063:-329.458,-76.4145,-49.3218,-253.366,0,-244.335 1/1:268:0,268,0:0:0:268,0:9543,0:-838.409,-80.676,0,-838.409,-80.676,-838.409 1/1:130:0,130,0:0:0:130,0:4655,0:-407.319,-39.1339,0,-407.319,-39.1339,-407.319 1/2:61:0,49,12:0:0:49,12:1760,432:-171.24,-31.1327,-16.3823,-140.432,0,-136.82 1/2:85:0,46,39:0:0:46,39:1633,1387:-231.104,-100.08,-86.2322,-131.357,0,-119.616 1/2:72:0,46,26:0:0:46,26:1656,932:-200.12,-66.3773,-52.53,-134.073,0,-126.246 1/1:111:0,110,1:0:0:110,1:3955,36:-346.845,-33.1133,0,-344.225,-30.1682,-343.924 1/1:75:0,75,0:0:0:75,0:2654,0:-232.781,-22.5773,0,-232.781,-22.5773,-232.781 chr07 1296381 . CA TG,CG 38839.4 PASS AB=0.649038,0.349359;ABP=123.402,126.005;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1716,253;CIGAR=2X,1M1X;DP=1971;DPB=1973.5;DPRA=3.46964,1.09984;EPP=3720.58,552.393;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.75,2.07143;MQM=40.6084,34.3992;MQMR=0;NS=21;NUMALT=2;ODDS=2.6548;PAIRED=0,0;PAIREDR=0;PAO=5,0;PQA=180,0;PQR=0;PRO=0;QA=59928,8907;QR=0;RO=0;RPL=1716,253;RPP=3729.26,552.393;RPPR=0;RPR=0,0;RUN=1,1;SAF=1715,253;SAP=3720.58,552.393;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:170:0,170,0:0:0:170,0:5919,0:-515.798,-51.1751,0,-515.798,-51.1751,-515.798 1/1:116:0,115,1:0:0:115,1:4012,32:-340.306,-34.6185,0,-337.731,-31.7238,-337.43 1/2:48:0,26,22:0:0:26,22:907,780:-127.635,-55.8061,-47.9793,-72.1551,0,-65.5325 1/1:84:0,84,0:0:0:84,0:2913,0:-253.673,-25.2865,0,-253.673,-25.2865,-253.673 1/2:179:0,147,32:0:0:147,32:5121,1126:-481.054,-80.0799,-35.8284,-401.289,0,-391.656 1/1:115:0,114,1:0:0:114,1:4059,36:-343.103,-34.3174,0,-340.483,-31.3723,-340.182 1/1:175:0,172,2:0:0:172,2:5958,72:-503.373,-51.7772,0,-497.514,-45.8863,-496.912 2/2:28:0,0,28:0:0:0,28:0,988:-79.0643,-79.0643,-79.0643,-8.42884,-8.42884,0 1/1:172:0,172,0:0:0:172,0:6030,0:-528.629,-51.7772,0,-528.629,-51.7772,-528.629 1/1:31:0,31,0:0:0:31,0:1086,0:-93.7926,-9.33193,0,-93.7926,-9.33193,-93.7926 1/1:5:0,5,0:0:0:5,0:180,0:-15.5015,-1.50515,0,-15.5015,-1.50515,-15.5015 1/2:35:0,6,29:0:0:6,29:213,1036:-91.4261,-75.4605,-73.6543,-16.2934,0,-7.56349 1/2:103:0,76,27:0:0:76,27:2610,945:-272.762,-67.2501,-44.3718,-205.827,0,-197.699 1/2:108:0,77,30:0:0:77,30:2678,1045:-285.451,-75.1603,-51.981,-210.357,0,-201.327 1/1:232:0,231,1:0:0:231,1:8125,36:-711.71,-69.5379,0,-708.773,-66.2407,-708.472 1/1:126:0,126,0:0:0:126,0:4368,0:-381.81,-37.9298,0,-381.81,-37.9298,-381.81 1/2:56:0,42,14:0:0:42,14:1475,476:-150.935,-34.5674,-21.9241,-116.682,0,-112.467 1/2:53:0,15,38:0:0:15,38:527,1339:-138.058,-96.8564,-92.3409,-41.5337,0,-30.0946 1/2:42:0,16,26:0:0:16,26:558,924:-110.137,-66.0362,-61.2198,-44.4312,0,-36.6044 1/1:65:0,63,2:0:0:63,2:2206,72:-190.19,-18.9649,0,-184.637,-13.0696,-184.035 1/1:28:0,28,0:0:0:28,0:983,0:-82.3697,-8.42884,0,-82.3697,-8.42884,-82.3697 chr07 1310012 . A G 81315.3 PASS AB=0.510878;ABP=4.3803;AC=31;AF=0.738095;AN=42;AO=2780;CIGAR=1X;DP=3609;DPB=3609;DPRA=1.07781;EPP=301.333;EPPR=61.1633;GTI=0;LEN=1;MEANALT=1;MQM=59.9727;MQMR=60;NS=21;NUMALT=1;ODDS=11.821;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98729;QR=29595;RO=829;RPL=589;RPP=2007.64;RPPR=1692.02;RPR=2191;RUN=1;SAF=1670;SAP=247.965;SAR=1110;SRF=502;SRP=83.229;SRR=327;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:165:0,165:0:0:165:5851:-526.694,-49.67,0 1/1:165:0,165:0:0:165:5851:-526.703,-49.67,0 0/1:127:64,63:64:2256:63:2228:-162.552,0,-165.071 1/1:191:0,191:0:0:191:6785:-610.726,-57.4967,0 0/1:272:132,140:132:4716:140:4952:-363.951,0,-342.718 1/1:355:7,348:7:248:348:12373:-1090.75,-84.2015,0 1/1:289:2,287:2:72:287:10165:-907.523,-80.1609,0 0/0:160:160,0:160:5713:0:0:0,-48.1648,-514.287 1/1:324:2,322:2:72:322:11468:-1025.16,-90.697,0 1/1:38:1,37:1:36:37:1289:-112.709,-7.84087,0 0/1:12:4,8:4:144:8:284:-22.291,0,-9.70126 0/1:92:45,47:45:1597:47:1683:-124.062,0,-116.323 0/1:193:90,103:90:3206:103:3682:-273.483,0,-230.664 0/1:223:116,107:116:4144:107:3789:-274.078,0,-306.015 1/1:254:3,251:3:108:251:8947:-795.05,-66.3865,0 1/1:116:1,115:1:36:115:4095:-365.139,-31.3212,0 0/1:129:74,55:74:2660:55:1954:-137.301,0,-200.812 0/1:177:79,98:79:2840:98:3492:-261.209,0,-202.555 0/1:108:48,60:48:1711:60:2098:-156.578,0,-121.764 1/1:110:1,109:1:36:109:3874:-345.255,-29.515,0 1/1:109:0,109:0:0:109:3869:-348.407,-32.8123,0 chr07 1311388 . A C 2888.5 PASS AB=0.414634;ABP=70.4848;AC=10;AF=0.238095;AN=42;AO=547;CIGAR=1X;DP=2808;DPB=2808;DPRA=1.6057;EPP=1190.81;EPPR=4910.54;GTI=1;LEN=1;MEANALT=1;MQM=22.9744;MQMR=40.7704;NS=21;NUMALT=1;ODDS=3.93197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19490;QR=80493;RO=2260;RPL=1;RPP=1182.14;RPPR=4884.51;RPR=546;RUN=1;SAF=1;SAP=1182.14;SAR=546;SRF=3;SRP=4884.51;SRR=2257;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:157:156,1:156:5564:1:36:0,-44.9828,-482.475 0/0:86:86,0:86:3084:0:0:0,-25.8886,-257.907 0/1:149:78,71:78:2762:71:2530:-100.903,0,-195.324 0/0:189:188,0:188:6679:0:0:0,-56.5936,-580.842 0/1:294:174,120:174:6150:120:4268:-157.49,0,-447.645 0/0:144:144,0:144:5164:0:0:0,-43.3483,-435.38 0/0:277:276,1:276:9876:1:36:0,-81.1064,-832.008 1/1:100:0,100:0:0:100:3576:-205.411,-30.103,0 0/0:289:288,1:288:10267:1:36:0,-84.8145,-899.64 0/0:15:15,0:15:540:0:0:0,-4.51545,-46.2692 0/0:6:6,0:6:216:0:0:0,-1.80618,-18.6318 0/1:36:20,16:20:720:16:568:-22.1519,0,-50.82 0/1:147:85,62:85:3011:62:2197:-82.6498,0,-218.272 0/1:193:104,89:104:3656:89:3180:-124.834,0,-261.277 0/0:194:194,0:194:6889:0:0:0,-58.3998,-601.206 0/0:87:87,0:87:3098:0:0:0,-26.1896,-271.685 0/1:87:66,21:66:2372:21:748:-15.2463,0,-183.115 0/1:93:52,41:52:1856:41:1468:-56.2679,0,-132.337 0/1:67:45,22:45:1607:22:775:-25.014,0,-120.398 0/0:141:139,2:139:4942:2:72:0,-38.1154,-420.68 0/0:57:57,0:57:2040:0:0:0,-17.1587,-172.955 chr07 1311428 . ATGCACA ATTCACC,CTTCACC 52102 PASS AB=0.578947,0.417423;ABP=62.6686,68.2806;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2294,567;CIGAR=2M1X3M1X,1X1M1X3M1X;DP=2874;DPB=2874.14;DPRA=1.37277,1.91513;EPP=4984.37,1234.24;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.25,2.71429;MQM=40.7092,22.9859;MQMR=0;NS=21;NUMALT=2;ODDS=3.9822;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,0;PQR=0;PRO=0;QA=80667,19950;QR=0;RO=0;RPL=2294,567;RPP=4984.37,1234.24;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4984.37,1234.24;SAR=2294,567;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:163:0,161,1:0:0:161,1:5663,35:-493.858,-48.4658,0,-492.113,-46.7521,-491.812 1/1:88:0,88,0:0:0:88,0:3080,0:-259.778,-26.4906,0,-259.778,-26.4906,-259.778 1/2:150:0,77,70:0:0:77,70:2737,2484:-337.804,-122.423,-99.2438,-215.376,0,-194.304 1/1:191:0,190,0:0:0:190,0:6621,0:-578.217,-57.1957,0,-578.217,-57.1957,-578.217 1/2:302:0,178,124:0:0:178,124:6262,4351:-709.053,-216.392,-162.808,-492.935,0,-455.607 1/1:146:0,146,0:0:0:146,0:5162,0:-436.021,-43.9504,0,-436.021,-43.9504,-436.021 1/1:277:0,276,1:0:0:276,1:9787,36:-828.052,-83.0843,0,-826.303,-81.2204,-826.002 2/2:101:0,0,101:0:0:0,101:0,3546:-206.851,-206.851,-206.851,-30.404,-30.404,0 1/1:293:0,289,1:0:0:289,1:10153,36:-893.691,-86.9977,0,-892.028,-85.3639,-891.727 1/1:16:0,16,0:0:0:16,0:573,0:-49.167,-4.81648,0,-49.167,-4.81648,-49.167 1/1:6:0,6,0:0:0:6,0:209,0:-18.1785,-1.80618,0,-18.1785,-1.80618,-18.1785 1/2:40:0,22,18:0:0:22,18:786,627:-92.0939,-31.5135,-24.8909,-60.8576,0,-55.439 1/2:153:0,88,65:0:0:88,65:3089,2291:-356.634,-113.626,-87.1351,-243.284,0,-223.717 1/2:203:0,107,95:0:0:107,95:3715,3339:-458.24,-165.779,-133.568,-292.527,0,-263.929 1/1:199:0,196,1:0:0:196,1:6832,32:-598.201,-59.0019,0,-596.324,-57.1369,-596.023 1/1:88:0,88,0:0:0:88,0:3103,0:-272.473,-26.4906,0,-272.473,-26.4906,-272.473 1/2:89:0,67,22:0:0:67,22:2374,768:-226.635,-36.7256,-16.5566,-190.159,0,-183.537 1/2:97:0,53,44:0:0:53,44:1860,1560:-221.821,-77.1554,-61.2008,-144.943,0,-131.698 1/2:68:0,46,22:0:0:46,22:1621,775:-166.516,-38.5942,-24.7468,-128.186,0,-121.564 1/1:144:0,140,2:0:0:140,2:4935,70:-423.778,-42.1442,0,-420.291,-38.6782,-419.689 1/1:60:0,60,0:0:0:60,0:2105,0:-178.432,-18.0618,0,-178.432,-18.0618,-178.432 chr07 1315670 . AC GT 16654.3 PASS AB=0.457887;ABP=23.1288;AC=11;AF=0.261905;AN=42;AO=930;CIGAR=2X;DP=3789;DPB=3789;DPRA=0.927656;EPP=2022.48;EPPR=6196.05;GTI=0;LEN=2;MEANALT=1.14286;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=39.7306;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32631;QR=100236;RO=2852;RPL=0;RPP=2022.48;RPPR=6196.05;RPR=930;RUN=1;SAF=0;SAP=2022.48;SAR=930;SRF=0;SRP=6196.05;SRR=2852;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:272:272,0:272:9531:0:0:0,-81.8802,-857.76 0/0:173:173,0:173:6148:0:0:0,-52.0782,-553.424 0/1:171:85,86:85:3006:86:3034:-221.814,0,-219.294 0/0:178:177,1:177:6217:1:36:0,-49.9851,-556.034 0/1:393:211,182:211:7359:182:6431:-460.579,0,-544.062 0/0:113:113,0:113:3986:0:0:0,-34.0164,-358.932 0/0:347:343,0:343:11960:0:0:0,-103.253,-1075.92 1/1:324:0,324:0:0:324:11325:-1019.16,-97.5337,0 0/0:342:341,0:341:12042:0:0:0,-102.651,-1083.28 0/0:34:34,0:34:1205:0:0:0,-10.235,-108.755 0/1:24:11,13:11:360:13:452:-33.7851,0,-25.4905 0/1:79:46,33:46:1641:33:1184:-83.0872,0,-124.196 0/1:162:85,77:85:2957:77:2701:-194.566,0,-217.595 0/1:180:101,79:101:3502:79:2758:-194.276,0,-261.206 0/0:237:236,1:236:8273:1:36:0,-67.7458,-740.988 0/0:167:166,1:166:5868:1:36:0,-46.6737,-524.635 0/1:162:94,67:94:3292:67:2334:-161.617,0,-247.801 0/1:55:26,29:26:910:29:1024:-75.9149,0,-65.6577 0/1:80:48,32:48:1706:32:1100:-75.2209,0,-129.743 0/0:250:244,5:244:8619:5:180:0,-58.7642,-759.16 0/0:46:46,0:46:1654:0:0:0,-13.8474,-149.149 chr07 1315696 . G A 60459.1 PASS AB=0.537441;ABP=18.6205;AC=31;AF=0.738095;AN=42;AO=2782;CIGAR=1X;DP=3709;DPB=3709;DPRA=0.524149;EPP=5974.76;EPPR=1936.38;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9996;MQMR=60;NS=21;NUMALT=1;ODDS=37.3512;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99379;QR=33038;RO=926;RPL=2774;RPP=5974.76;RPPR=1936.38;RPR=8;RUN=1;SAF=0;SAP=6044.05;SAR=2782;SRF=0;SRP=2013.79;SRR=926;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:260:0,260:0:0:260:9261:-833.462,-78.2678,0 1/1:164:0,164:0:0:164:5850:-526.612,-49.3689,0 0/1:167:84,83:84:3024:83:2972:-217.441,0,-222.117 1/1:170:1,169:1:36:169:6025:-538.757,-47.5768,0 0/1:380:179,201:179:6380:201:7189:-532.673,0,-459.899 1/1:110:1,109:1:36:109:3916:-349.033,-29.515,0 1/1:337:0,337:0:0:337:12015:-1081.2,-101.447,0 0/0:323:323,0:323:11503:0:0:0,-97.2327,-1035.15 1/1:337:0,337:0:0:337:12043:-1083.72,-101.447,0 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/1:25:14,11:14:500:11:392:-28.0943,0,-37.8104 0/1:78:33,45:33:1175:45:1598:-120.628,0,-82.5766 0/1:160:76,84:76:2693:84:3012:-223.146,0,-194.449 0/1:178:77,100:77:2747:100:3561:-267.056,0,-193.83 1/1:237:1,236:1:36:236:8420:-754.205,-67.7458,0 1/1:164:1,163:1:36:163:5835:-521.663,-45.7706,0 0/1:163:69,94:69:2476:94:3362:-253.728,0,-174.026 0/1:53:29,24:29:1040:24:864:-62.128,0,-77.9598 0/1:78:31,47:31:1108:47:1671:-127.196,0,-76.5507 1/1:245:7,238:7:248:238:8525:-744.583,-51.0882,0 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 chr07 1382471 . C A 30360.8 PASS AB=0.560606;ABP=28.2783;AC=31;AF=0.738095;AN=42;AO=1435;CIGAR=1X;DP=1923;DPB=1923;DPRA=0.656985;EPP=3119.07;EPPR=1051.83;GTI=0;LEN=1;MEANALT=1.2;MQM=54.4739;MQMR=59.3747;NS=21;NUMALT=1;ODDS=8.51097;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51181;QR=17089;RO=483;RPL=1435;RPP=3119.07;RPPR=1051.83;RPR=0;RUN=1;SAF=1435;SAP=3119.07;SAR=0;SRF=483;SRP=1051.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,77:0:0:77:2755:-247.53,-23.1793,0 1/1:13:0,13:0:0:13:464:-41.8127,-3.91339,0 0/1:88:41,47:41:1441:47:1671:-123.828,0,-103.447 1/1:122:0,122:0:0:122:4369:-392.755,-36.7257,0 0/1:128:52,76:52:1843:76:2701:-203.771,0,-127.572 1/1:60:1,59:1:36:59:2116:-186.03,-14.4635,0 1/1:97:0,97:0:0:97:3440:-306.58,-29.1999,0 0/0:136:136,0:136:4822:0:0:0,-40.9401,-433.811 1/1:212:0,212:0:0:212:7539:-677.034,-63.8184,0 1/1:20:0,20:0:0:20:716:-64.6781,-6.0206,0 0/1:4:3,1:3:104:1:36:-2.38511,0,-8.49869 0/1:38:21,17:21:735:17:608:-43.2644,0,-55.0323 0/1:197:87,110:87:3070:110:3926:-292.693,0,-217.218 0/1:150:69,80:69:2451:80:2860:-211.537,0,-175.237 1/1:154:0,153:0:0:153:5469:-491.246,-46.0576,0 1/1:21:0,21:0:0:21:752:-67.7591,-6.32163,0 0/1:20:8,12:8:288:12:428:-32.7685,0,-20.2444 0/1:74:38,35:38:1340:35:1248:-88.968,0,-98.5503 0/1:93:27,66:27:959:66:2355:-184.009,0,-58.6273 1/1:139:0,139:0:0:139:4936:-443.059,-41.8432,0 1/1:78:0,78:0:0:78:2792:-250.096,-23.4803,0 chr07 1417786 . A G,T 40847.2 PASS AB=0.450785,0.549215;ABP=17.7583,17.7583;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1344,558;CIGAR=1X,1X;DP=1903;DPB=1903;DPRA=0,1.20024;EPP=2921.47,1214.69;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=60,59.9857;MQMR=60;NS=21;NUMALT=2;ODDS=6.58955;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47353,19907;QR=36;RO=1;RPL=1344,558;RPP=2921.47,1214.69;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1344,558;SAP=2921.47,1214.69;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,90,3:0:0:90,3:3182,108:-286.245,-27.0927,0,-277.432,-17.9206,-276.529 1/1:76:0,76,0:0:0:76,0:2656,0:-239.287,-22.8783,0,-239.287,-22.8783,-239.287 1/2:84:0,41,43:0:0:41,43:1460,1536:-244.586,-125.589,-113.247,-119.354,0,-106.409 1/1:111:1,110,0:1:36:110,0:3855,0:-343.548,-29.8161,0,-343.849,-33.1133,-346.787 1/2:209:0,92,117:0:0:92,117:3278,4165:-607.001,-339.812,-312.118,-267.545,0,-232.324 1/1:213:0,212,1:0:0:212,1:7482,32:-673.112,-63.8184,0,-670.534,-60.9201,-670.233 1/1:125:0,125,0:0:0:125,0:4365,0:-393.026,-37.6288,0,-393.026,-37.6288,-393.026 2/2:167:0,1,166:0:0:1,166:36,5926:-533.085,-530.147,-529.846,-49.971,-46.6737,0 1/1:148:0,148,0:0:0:148,0:5195,0:-467.696,-44.5524,0,-467.696,-44.5524,-467.696 1/1:11:0,11,0:0:0:11,0:373,0:-33.8952,-3.31133,0,-33.8952,-3.31133,-33.8952 1/2:5:0,3,2:0:0:3,2:104,72:-14.6799,-6.23466,-5.33157,-8.79971,0,-8.19765 1/2:29:0,10,19:0:0:10,19:351,673:-83.7417,-55.1764,-52.1661,-28.9172,0,-23.1976 1/2:138:0,66,72:0:0:66,72:2346,2579:-401.858,-210.684,-190.816,-191.53,0,-169.856 1/2:101:0,37,64:0:0:37,64:1293,2285:-291.822,-186.646,-175.508,-105.529,0,-86.2627 1/1:85:0,85,0:0:0:85,0:2981,0:-268.522,-25.5876,0,-268.522,-25.5876,-268.522 1/1:60:0,60,0:0:0:60,0:2116,0:-190.707,-18.0618,0,-190.707,-18.0618,-190.707 1/2:77:0,33,44:0:0:33,44:1176,1572:-224.383,-128.526,-118.592,-96.2138,0,-82.9685 1/2:34:0,17,17:0:0:17,17:608,612:-99.8718,-50.2959,-45.1784,-49.9345,0,-44.817 1/2:24:0,17,7:0:0:17,7:585,239:-67.2476,-19.7355,-14.618,-47.8541,0,-45.7469 1/1:84:0,81,3:0:0:81,3:2883,108:-259.347,-24.3834,0,-250.535,-15.2114,-249.632 1/1:29:0,29,0:0:0:29,0:1028,0:-92.833,-8.72987,0,-92.833,-8.72987,-92.833 chr07 1430536 . C G 10797.5 PASS AB=0.528409;ABP=7.94546;AC=13;AF=0.309524;AN=42;AO=587;CIGAR=1X;DP=1621;DPB=1621;DPRA=1.18591;EPP=1277.66;EPPR=1993.13;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9894;NS=21;NUMALT=1;ODDS=6.40439;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20736;QR=36706;RO=1033;RPL=0;RPP=1277.66;RPPR=1993.13;RPR=587;RUN=1;SAF=0;SAP=1277.66;SAR=587;SRF=0;SRP=2246.14;SRR=1033;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:95:95,0:95:3395:0:0:0,-28.5978,-305.765 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:51:24,26:24:847:26:886:-64.6373,0,-61.1377 0/0:97:97,0:97:3472:0:0:0,-29.1999,-312.692 0/1:70:30,40:30:1072:40:1418:-106.843,0,-75.7204 0/0:44:44,0:44:1566:0:0:0,-13.2453,-141.23 0/0:101:101,0:101:3608:0:0:0,-30.404,-324.917 1/1:75:0,75:0:0:75:2675:-240.995,-22.5773,0 0/0:88:88,0:88:3117:0:0:0,-26.4906,-280.757 0/1:18:14,4:14:496:4:125:-6.14008,0,-39.5557 1/1:143:6,137:6:216:137:4839:-415.875,-23.2568,0 0/1:52:9,43:9:320:43:1525:-121.889,0,-13.4888 0/1:65:44,21:44:1552:21:733:-46.7227,0,-120.402 0/1:104:59,45:59:2095:45:1599:-112.892,0,-157.512 0/0:74:74,0:74:2633:0:0:0,-22.2762,-237.216 0/0:36:36,0:36:1262:0:0:0,-10.8371,-113.881 0/1:61:31,30:31:1103:30:1068:-78.0692,0,-81.217 0/1:192:55,137:55:1937:137:4846:-378.499,0,-116.807 0/1:91:65,26:65:2301:26:914:-55.1809,0,-179.956 0/0:71:68,3:68:2436:3:108:0,-11.298,-209.42 0/0:59:59,0:59:2062:0:0:0,-17.7608,-185.848 chr07 1430548 . C T 21094.6 PASS AB=0.473759;ABP=7.22696;AC=29;AF=0.690476;AN=42;AO=1017;CIGAR=1X;DP=1606;DPB=1606;DPRA=0.992857;EPP=2159.59;EPPR=1264.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9754;MQMR=59.9932;NS=21;NUMALT=1;ODDS=0.0225431;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36186;QR=20999;RO=589;RPL=1011;RPP=2159.59;RPPR=1264.69;RPR=6;RUN=1;SAF=0;SAP=2211.4;SAR=1017;SRF=0;SRP=1282.01;SRR=589;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:0,94:0:0:94:3344:-301.179,-28.2968,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 0/1:51:26,25:26:928:25:900:-65.9685,0,-68.4857 1/1:95:2,93:2:72:93:3290:-289.483,-21.7611,0 0/1:70:39,31:39:1396:31:1096:-77.8778,0,-104.867 1/1:41:0,41:0:0:41:1457:-131.424,-12.3422,0 1/1:102:0,102:0:0:102:3608:-324.922,-30.7051,0 0/0:77:77,0:77:2738:0:0:0,-23.1793,-246.662 1/1:88:0,88:0:0:88:3143:-283.096,-26.4906,0 0/1:16:3,13:3:108:13:464:-37.281,0,-5.25869 0/0:142:136,6:136:4858:6:212:0,-23.3215,-417.948 0/1:52:44,8:44:1576:8:284:-10.2498,0,-126.478 0/1:66:21,45:21:752:45:1604:-124.782,0,-48.1383 0/1:103:46,57:46:1643:57:2029:-151.876,0,-117.152 1/1:69:0,69:0:0:69:2446:-220.393,-20.7711,0 1/1:34:0,34:0:0:34:1208:-109.026,-10.235,0 0/1:63:29,34:29:1036:34:1216:-90.7701,0,-74.589 0/1:189:137,52:137:4869:52:1872:-111.864,0,-381.468 0/1:95:26,69:26:915:69:2449:-192.066,0,-54.0677 1/1:72:3,69:3:108:69:2452:-210.86,-11.599,0 1/1:57:0,57:0:0:57:2032:-183.153,-17.1587,0 chr07 1462930 . 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G T 29623 PASS AB=0.60559;ABP=65.3761;AC=31;AF=0.738095;AN=42;AO=1377;CIGAR=1X;DP=1742;DPB=1742;DPRA=0.734685;EPP=2993.13;EPPR=795.598;GTI=0;LEN=1;MEANALT=1;MQM=59.9935;MQMR=59.9041;NS=21;NUMALT=1;ODDS=7.65675;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49119;QR=13065;RO=365;RPL=1377;RPP=2993.13;RPPR=795.598;RPR=0;RUN=1;SAF=0;SAP=2993.13;SAR=1377;SRF=0;SRP=795.598;SRR=365;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:0,113:0:0:113:4033:-363.157,-34.0164,0 1/1:84:0,84:0:0:84:2949:-265.64,-25.2865,0 0/1:96:29,67:29:1036:67:2391:-186.542,0,-64.655 1/1:53:0,53:0:0:53:1904:-171.638,-15.9546,0 0/1:119:56,63:56:2016:63:2249:-166.849,0,-145.821 1/1:40:0,40:0:0:40:1428:-128.818,-12.0412,0 1/1:156:0,156:0:0:156:5563:-500.79,-46.9607,0 0/0:111:111,0:111:3988:0:0:0,-33.4143,-359.097 1/1:166:0,166:0:0:166:5911:-532.097,-49.971,0 1/1:24:0,24:0:0:24:845:-76.3662,-7.22472,0 0/1:13:5,8:5:180:8:288:-22.354,0,-12.6387 0/1:48:19,29:19:669:29:1006:-76.3972,0,-46.0845 0/1:64:33,31:33:1176:31:1116:-81.4858,0,-86.8818 0/1:105:38,67:38:1364:67:2385:-183.298,0,-91.4492 1/1:167:0,167:0:0:167:5996:-539.743,-50.272,0 1/1:44:0,44:0:0:44:1572:-141.772,-13.2453,0 0/1:43:18,25:18:648:25:900:-68.3767,0,-45.7076 0/1:87:38,49:38:1344:49:1760:-132.494,0,-95.0705 0/1:69:18,51:18:644:51:1808:-142.23,0,-37.5195 1/1:95:0,95:0:0:95:3395:-305.764,-28.5979,0 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 chr07 1632029 . GTATT GAAATC,GAAATT 47665.3 PASS AB=0.515909,0.480682;ABP=4.94488,5.86283;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1631,508;CIGAR=1M1I1X2M1X,1M1I1X3M;DP=2144;DPB=2572.4;DPRA=1.34221,1.04245;EPP=2852.64,1106.12;EPPR=0;GTI=0;LEN=6,6;MEANALT=1.9,2.14286;MQM=57.9632,59.8327;MQMR=0;NS=21;NUMALT=2;ODDS=1.24259;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57531,17828;QR=0;RO=0;RPL=1547,508;RPP=2852.64,1106.12;RPPR=0;RPR=84,0;RUN=1,1;SAF=1631,508;SAP=3544.68,1106.12;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,77,2:0:0:77,2:2710,72:-239.572,-23.1793,0,-233.696,-16.9446,-233.094 1/1:50:0,50,0:0:0:50,0:1768,0:-153.336,-15.0515,0,-153.336,-15.0515,-153.336 1/2:134:0,79,55:0:0:79,55:2814,1954:-388.925,-159.58,-135.799,-229.7,0,-213.144 1/1:133:0,132,1:0:0:132,1:4635,25:-413.652,-39.736,0,-411.704,-37.5381,-411.403 1/2:188:0,98,89:0:0:98,89:3454,3107:-523.307,-252.832,-223.331,-270.598,0,-243.806 1/1:149:0,148,1:0:0:148,1:5240,36:-456.403,-44.5524,0,-453.466,-41.2552,-453.165 1/1:153:0,153,0:0:0:153,0:5409,0:-485.121,-46.0576,0,-485.121,-46.0576,-485.121 2/2:77:0,0,77:0:0:0,77:0,2727:-245.673,-245.673,-245.673,-23.1793,-23.1793,0 1/1:178:0,177,0:0:0:177,0:6290,0:-559.658,-53.2823,0,-559.658,-53.2823,-559.658 1/1:16:0,16,0:0:0:16,0:555,0:-50.275,-4.81648,0,-50.275,-4.81648,-50.275 1/2:5:0,3,2:0:0:3,2:107,72:-14.9552,-6.23466,-5.33157,-9.07908,0,-8.47702 1/2:14:0,6,8:0:0:6,8:216,288:-41.4837,-23.8592,-22.053,-17.9843,0,-15.5761 1/2:169:0,75,94:0:0:75,94:2643,3261:-480.211,-265.186,-242.609,-215.374,0,-187.077 1/2:144:0,78,66:0:0:78,66:2701,2314:-407.408,-188.65,-165.17,-219.106,0,-199.238 1/1:165:0,164,0:0:0:164,0:5765,0:-507.941,-49.3689,0,-507.941,-49.3689,-507.941 1/1:71:0,71,0:0:0:71,0:2508,0:-219.439,-21.3731,0,-219.439,-21.3731,-219.439 1/2:65:0,34,30:0:0:34,30:1186,1063:-182.262,-86.5902,-76.3552,-95.6628,0,-86.6319 1/2:102:0,40,61:0:0:40,61:1413,2144:-289.638,-174.579,-162.538,-115.128,0,-96.7655 1/2:59:0,41,18:0:0:41,18:1435,632:-168.534,-51.7872,-39.4449,-117.097,0,-111.679 1/1:131:0,127,4:0:0:127,4:4472,133:-401.486,-38.2308,0,-390.725,-27.1373,-389.521 1/1:62:0,62,0:0:0:62,0:2210,0:-199.16,-18.6639,0,-199.16,-18.6639,-199.16 chr07 1632297 . TAATC TAATT,CAATT 58134.1 PASS AB=0.504931,0.489152;ABP=3.22445,4.04678;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2180,607;CIGAR=4M1X,1X3M1X;DP=2804;DPB=2803.8;DPRA=2.53008,0.657652;EPP=4728.14,1321.09;EPPR=7.35324;GTI=1;LEN=1,5;MEANALT=2.05263,2.36364;MQM=56.0005,33.1433;MQMR=60;NS=21;NUMALT=2;ODDS=11.1598;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77783,21335;QR=72;RO=2;RPL=2179,607;RPP=4728.14,1321.09;RPPR=7.35324;RPR=1,0;RUN=1,1;SAF=2180,607;SAP=4736.82,1321.09;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:0,174,0:0:0:174,0:6211,0:-556.583,-52.3792,0,-556.583,-52.3792,-556.583 1/1:77:0,76,0:0:0:76,0:2715,0:-243.741,-22.8783,0,-243.741,-22.8783,-243.741 1/2:168:0,72,95:0:0:72,95:2584,3320:-446.779,-236.655,-214.981,-210.105,0,-181.507 1/1:140:0,140,0:0:0:140,0:4973,0:-446.636,-42.1442,0,-446.636,-42.1442,-446.636 1/2:302:1,183,117:1:36:183,117:6553,4136:-826.031,-292.488,-240.337,-530.884,0,-498.601 1/1:97:0,96,0:0:0:96,0:3440,0:-308.549,-28.8989,0,-308.549,-28.8989,-308.549 1/1:256:0,256,0:0:0:256,0:9112,0:-818.802,-77.0637,0,-818.802,-77.0637,-818.802 2/2:101:0,0,99:0:0:0,99:0,3501:-267.561,-267.561,-267.561,-29.802,-29.802,0 1/1:342:0,340,0:0:0:340,0:12123,0:-1089.48,-102.35,0,-1089.48,-102.35,-1089.48 1/1:31:0,30,0:0:0:30,0:1080,0:-97.1341,-9.0309,0,-97.1341,-9.0309,-97.1341 1/2:19:0,5,14:0:0:5,14:180,484:-45.6262,-31.8737,-30.3685,-14.0769,0,-9.86245 2/2:11:0,0,11:0:0:0,11:0,396:-30.4074,-30.4074,-30.4074,-3.31133,-3.31133,0 1/2:139:0,72,67:0:0:72,67:2580,2354:-376.363,-166.17,-144.496,-210.525,0,-190.356 1/2:171:0,63,108:0:0:63,108:2247,3772:-449.216,-268.342,-249.377,-181.21,0,-148.699 1/1:240:1,237,0:1:36:237,0:8446,0:-754.736,-68.3705,0,-755.037,-71.3441,-757.974 1/1:125:0,124,0:0:0:124,0:4402,0:-395.776,-37.3277,0,-395.776,-37.3277,-395.776 1/2:86:0,48,38:0:0:48,38:1711,1345:-238.207,-98.7393,-84.2899,-139.805,0,-128.366 1/2:72:0,28,41:0:0:28,41:995,1440:-176.93,-96.1851,-87.7563,-80.7583,0,-68.4161 1/2:57:0,41,16:0:0:41,16:1472,551:-157.695,-38.1256,-25.7834,-119.883,0,-115.066 1/1:145:0,145,0:0:0:145,0:5172,0:-464.443,-43.6494,0,-464.443,-43.6494,-464.443 1/1:51:0,50,1:0:0:50,1:1787,36:-160.491,-15.0515,0,-157.659,-11.8718,-157.358 chr07 1632307 . A T 23496.2 PASS AB=0.491061;ABP=4.17498;AC=12;AF=0.285714;AN=42;AO=1090;CIGAR=1X;DP=4607;DPB=4607;DPRA=0.884656;EPP=2369.92;EPPR=7635.74;GTI=0;LEN=1;MEANALT=1.07692;MQM=45.5018;MQMR=57.7272;NS=21;NUMALT=1;ODDS=7.36467;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38721;QR=122275;RO=3515;RPL=588;RPP=17.7444;RPPR=95.5336;RPR=502;RUN=1;SAF=588;SAP=17.7444;SAR=502;SRF=1951;SRP=95.5336;SRR=1564;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:378:374,3:374:13120:3:104:0,-104.142,-1168.85 0/0:189:189,0:189:6634:0:0:0,-56.8947,-596.545 0/1:234:102,132:102:3546:132:4666:-315.301,0,-248.754 0/0:300:299,0:299:10451:0:0:0,-90.008,-939.321 0/1:475:288,187:288:10019:187:6632:-413.45,0,-758.042 0/0:144:143,1:143:4965:1:36:0,-39.75,-442.555 0/0:327:327,0:327:11284:0:0:0,-98.4368,-1014.49 1/1:218:0,218:0:0:218:7799:-650.275,-65.6245,0 0/0:407:407,0:407:14045:0:0:0,-122.519,-1263.11 0/0:36:36,0:36:1233:0:0:0,-10.8371,-111.14 0/1:52:13,39:13:460:39:1382:-101.209,0,-26.0684 1/1:41:0,41:0:0:41:1472:-127.242,-12.3422,0 0/1:185:89,96:89:3033:96:3418:-225.547,0,-217.347 0/1:283:117,166:117:4081:166:5888:-404.934,0,-281.269 0/0:341:341,0:341:11878:0:0:0,-102.651,-1067.19 0/0:198:198,0:198:6927:0:0:0,-59.6039,-623.095 0/1:197:111,86:111:3924:86:3058:-206.02,0,-294.036 0/1:141:62,79:62:2110:79:2770:-186.016,0,-147.177 0/1:111:72,39:72:2504:39:1388:-85.8047,0,-191.761 0/0:258:255,3:255:8863:3:108:0,-67.5906,-786.905 0/0:92:92,0:92:3198:0:0:0,-27.6948,-286.696 chr07 1716727 . A T 12222.7 PASS AB=0.501153;ABP=3.02532;AC=14;AF=0.333333;AN=42;AO=709;CIGAR=1X;DP=2259;DPB=2259;DPRA=1.33103;EPP=1542.58;EPPR=3357.94;GTI=1;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9929;NS=21;NUMALT=1;ODDS=9.08631;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25402;QR=55416;RO=1549;RPL=709;RPP=1542.58;RPPR=3357.94;RPR=0;RUN=1;SAF=0;SAP=1542.58;SAR=709;SRF=0;SRP=3366.62;SRR=1549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:32,4:32:1148:4:139:-2.01513,0,-92.7928 0/0:74:74,0:74:2649:0:0:0,-22.2762,-238.654 0/1:104:61,42:61:2192:42:1508:-104.649,0,-166.179 0/0:129:129,0:129:4598:0:0:0,-38.8329,-413.983 0/1:323:165,158:165:5865:158:5669:-413.093,0,-430.729 0/0:96:96,0:96:3452:0:0:0,-28.8989,-310.891 0/0:155:155,0:155:5545:0:0:0,-46.6596,-499.173 1/1:51:0,51:0:0:51:1836:-165.521,-15.3525,0 0/0:246:244,2:244:8721:2:72:0,-67.2167,-778.041 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:17:5,12:5:180:12:432:-34.1037,0,-11.4346 0/1:30:17,13:17:608:13:468:-33.4287,0,-46.0073 0/1:161:69,92:69:2471:92:3293:-248.122,0,-174.177 0/1:184:79,105:79:2824:105:3755:-282.759,0,-199.01 0/1:110:55,55:55:1968:55:1976:-145.001,0,-144.282 0/1:68:28,40:28:1008:40:1436:-109.068,0,-70.5663 0/1:75:40,35:40:1440:35:1248:-90.0476,0,-107.32 0/1:102:45,57:45:1616:57:2030:-152.267,0,-115.025 0/1:91:52,39:52:1868:39:1396:-98.5448,0,-141.006 0/0:139:135,4:135:4824:4:144:0,-28.5296,-421 0/0:60:60,0:60:2151:0:0:0,-18.0618,-193.857 chr07 1716733 . C T 32378 PASS AB=0.506494;ABP=3.48972;AC=28;AF=0.666667;AN=42;AO=1583;CIGAR=1X;DP=2287;DPB=2287;DPRA=2.19216;EPP=3440.45;EPPR=1529.56;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9931;MQMR=60;NS=21;NUMALT=1;ODDS=10.9641;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56591;QR=24929;RO=703;RPL=1583;RPP=3440.45;RPPR=1529.56;RPR=0;RUN=1;SAF=0;SAP=3440.45;SAR=1583;SRF=0;SRP=1529.56;SRR=703;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:4,34:4:144:34:1224:-99.0279,0,-1.87448 1/1:75:0,75:0:0:75:2669:-240.454,-22.5773,0 0/1:104:43,61:43:1532:61:2173:-164.528,0,-106.866 1/1:133:0,133:0:0:133:4780:-430.355,-40.037,0 0/1:322:154,168:154:5433:168:5957:-439.303,0,-392.168 1/1:98:0,98:0:0:98:3505:-315.659,-29.5009,0 1/1:165:0,165:0:0:165:5886:-529.849,-49.67,0 0/0:51:51,0:51:1809:0:0:0,-15.3525,-163.09 1/1:245:2,242:2:72:242:8684:-774.713,-66.9744,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:17:12,5:12:417:5:176:-11.0675,0,-32.7427 0/1:31:13,18:13:459:18:629:-47.5881,0,-32.3122 0/1:167:92,75:92:3247:75:2681:-191.261,0,-242.177 0/1:184:104,80:104:3694:80:2849:-201.257,0,-277.272 0/1:110:55,55:55:1953:55:1976:-145.001,0,-142.931 0/1:66:39,27:39:1385:27:972:-67.9299,0,-105.079 0/1:76:35,41:35:1245:41:1457:-108.546,0,-89.4744 0/1:103:56,47:56:2000:47:1684:-120.841,0,-149.268 0/1:91:39,52:39:1395:52:1868:-141.006,0,-98.4546 1/1:140:3,137:3:108:137:4905:-431.524,-32.069,0 1/1:63:1,62:1:36:62:2228:-197.186,-15.3666,0 chr07 1720816 . CAGTTGCTGCT CAGTCACTGTT,TAGTCACTGTT 115744 PASS AB=0.575246,0.409283;ABP=177.843,257.128;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4004,1593;CIGAR=4M2X3M1X1M,1X3M2X3M1X1M;DP=5682;DPB=5682;DPRA=2.1187,3.06964;EPP=8680.22,3453.49;EPPR=0;GTI=0;LEN=11,11;MEANALT=4.85,5.1875;MQM=59.9343,59.5336;MQMR=0;NS=21;NUMALT=2;ODDS=53.2999;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=140721,56144;QR=0;RO=0;RPL=4002,1592;RPP=8680.22,3453.49;RPPR=0;RPR=2,1;RUN=1,1;SAF=4004,1593;SAP=8697.59,3462.17;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:217:0,210,2:0:0:210,2:7424,71:-667.861,-63.2163,0,-662.076,-57.4252,-661.474 1/1:129:0,128,0:0:0:128,0:4546,0:-408.951,-38.5318,0,-408.951,-38.5318,-408.951 1/2:102:0,68,34:0:0:68,34:2385,1210:-293.031,-98.9716,-78.5016,-194.413,0,-184.178 1/1:165:0,161,0:0:0:161,0:5652,0:-508.521,-48.4658,0,-508.521,-48.4658,-508.521 1/2:209:0,122,83:0:0:122,83:4272,2928:-586.032,-238.441,-201.716,-347.618,0,-322.633 1/1:64:0,64,0:0:0:64,0:2241,0:-201.954,-19.2659,0,-201.954,-19.2659,-201.954 1/1:158:0,154,1:0:0:154,1:5392,36:-485.078,-46.3586,0,-482.14,-43.4145,-481.839 2/2:131:0,0,129:0:0:0,129:0,4554:-409.689,-409.689,-409.689,-38.8329,-38.8329,0 1/1:111:0,106,0:0:0:106,0:3725,0:-335.131,-31.9092,0,-335.131,-31.9092,-335.131 1/1:988:0,976,4:0:0:976,4:34239,144:-3080.16,-293.805,0,-3068.41,-282.038,-3067.21 1/2:777:0,433,335:0:0:433,335:15252,11815:-2203.76,-962.026,-831.68,-1241.79,0,-1140.94 1/2:878:0,546,323:0:0:546,323:19234,11345:-2488.57,-922.913,-758.551,-1565.69,0,-1468.46 1/2:61:0,29,31:0:0:29,31:1027,1085:-171.938,-88.2771,-79.5472,-83.7105,0,-74.3786 1/2:87:0,53,34:0:0:53,34:1823,1191:-245.268,-97.2236,-81.269,-148.392,0,-138.157 1/2:236:0,157,78:0:0:157,78:5550,2762:-676.954,-224.939,-177.678,-452.018,0,-428.538 1/2:102:0,67,31:0:0:67,31:2367,1102:-282.614,-89.8453,-69.6763,-192.81,0,-183.479 1/2:84:0,51,26:0:0:51,26:1798,924:-221.697,-75.3002,-59.9477,-146.411,0,-138.584 1/2:945:0,467,458:0:0:467,458:16370,16128:-2644.75,-1312.69,-1172.11,-1332.08,0,-1194.21 1/2:74:0,52,22:0:0:52,22:1833,778:-212.965,-63.7207,-48.0671,-149.597,0,-142.975 1/1:108:0,106,2:0:0:106,2:3700,71:-332.852,-31.9092,0,-327.067,-25.7692,-326.465 1/1:56:0,54,0:0:0:54,0:1891,0:-170.108,-16.2556,0,-170.108,-16.2556,-170.108 chr07 1720850 . C G 132630 PASS AB=0.596345;ABP=311.804;AC=30;AF=0.714286;AN=42;AO=5051;CIGAR=1X;DP=6811;DPB=6811;DPRA=0;EPP=10971.1;EPPR=3800.92;GTI=0;LEN=1;MEANALT=1.28571;MQM=59.9562;MQMR=59.6663;NS=21;NUMALT=1;ODDS=38.0052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=179070;QR=61991;RO=1753;RPL=3047;RPP=470.687;RPPR=547.512;RPR=2004;RUN=1;SAF=3047;SAP=470.687;SAR=2004;SRF=1209;SRP=550.802;SRR=544;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:391:3,388:3:93:388:13745:-1228.15,-109.026,0 1/1:148:0,147:0:0:147:5164:-464.543,-44.2514,0 0/1:194:73,121:73:2577:121:4291:-327.955,0,-173.777 1/1:332:1,330:1:21:330:11634:-1044.74,-97.8259,0 0/1:383:142,240:142:4992:240:8445:-644.003,0,-334.07 1/1:189:1,188:1:36:188:6546:-585.632,-53.2964,0 1/1:233:1,231:1:36:231:8101:-725.52,-66.6005,0 0/0:195:194,1:194:6879:1:36:0,-55.1026,-615.547 1/1:246:0,246:0:0:246:8735:-786.144,-74.0534,0 1/1:955:8,947:8:288:947:33896:-3023.02,-261.216,0 1/1:4:0,4:0:0:4:144:-13.3128,-1.20412,0 0/1:849:308,541:308:10880:541:19315:-1482.32,0,-722.864 0/1:240:108,132:108:3774:132:4662:-347.497,0,-267.611 0/1:213:89,124:89:3155:124:4401:-332.143,0,-220.057 0/1:467:178,288:178:6348:288:10152:-772.982,0,-430.722 0/1:191:66,125:66:2283:125:4395:-338.211,0,-148.23 0/1:194:75,119:75:2642:119:4237:-323.11,0,-179.609 0/1:955:456,497:456:16248:497:17693:-1304.75,0,-1173.34 0/1:144:47,97:47:1654:97:3398:-262.688,0,-105.798 1/1:228:3,225:3:85:225:7973:-709.641,-60.7028,0 1/1:60:0,60:0:0:60:2107:-189.897,-18.0618,0 chr07 1744524 . T A 82693.7 PASS AB=0.481752;ABP=10.1429;AC=28;AF=0.666667;AN=42;AO=3153;CIGAR=1X;DP=4741;DPB=4741;DPRA=0.74547;EPP=6849.66;EPPR=3429.59;GTI=0;LEN=1;MEANALT=1.35;MQM=59.9699;MQMR=59.9861;NS=21;NUMALT=1;ODDS=5.9279;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=111610;QR=56290;RO=1578;RPL=1798;RPP=138.167;RPPR=18.4721;RPR=1355;RUN=1;SAF=1798;SAP=138.167;SAR=1355;SRF=842;SRP=18.4721;SRR=736;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:257:4,253:4:144:253:8974:-794.335,-64.0511,0 1/1:187:0,187:0:0:187:6503:-585.363,-56.2926,0 0/1:201:97,104:97:3460:104:3669:-269.907,0,-251.104 1/1:292:1,290:1:36:290:10287:-922.164,-84.3613,0 0/1:330:184,146:184:6567:146:5138:-363.225,0,-491.771 1/1:260:2,257:2:72:257:9056:-808.185,-71.4899,0 1/1:288:0,288:0:0:288:10240:-921.534,-86.6966,0 0/0:298:297,0:297:10622:0:0:0,-89.4059,-955.531 1/1:362:1,361:1:36:361:12864:-1153.97,-105.375,0 0/1:34:4,30:4:144:30:1072:-86.5574,0,-3.0786 0/1:16:9,7:9:324:7:252:-18.2125,0,-24.6894 0/1:83:50,33:50:1779:33:1175:-81.0715,0,-135.407 0/1:403:216,187:216:7698:187:6645:-476.815,0,-571.456 0/1:261:127,133:127:4527:133:4623:-337.608,0,-328.969 0/1:358:219,137:219:7760:137:4860:-330.03,0,-590.911 0/1:184:90,92:90:3206:92:3260:-238.547,0,-233.689 0/1:212:95,117:95:3391:117:4192:-313.642,0,-241.587 0/1:190:111,77:111:3972:77:2732:-189.206,0,-300.762 0/1:194:69,125:69:2480:125:4438:-341.195,0,-165.053 1/1:233:1,232:1:36:232:8208:-735.128,-66.5417,0 1/1:98:1,97:1:36:97:3422:-304.596,-25.9027,0 chr07 1839792 . CTCG GTCA 10073.9 PASS AB=0.512;ABP=3.79203;AC=28;AF=0.666667;AN=42;AO=684;CIGAR=1X2M1X;DP=1158;DPB=1158;DPRA=0.305215;EPP=1488.3;EPPR=1021.43;GTI=1;LEN=4;MEANALT=1.25;MQM=31.7383;MQMR=58.8849;NS=21;NUMALT=1;ODDS=1.39819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24234;QR=16661;RO=469;RPL=0;RPP=1488.3;RPPR=1021.43;RPR=684;RUN=1;SAF=684;SAP=1488.3;SAR=0;SRF=469;SRP=1021.43;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:23:0,23:0:0:23:820:-63.2073,-6.92369,0 1/1:14:0,14:0:0:14:492:-37.6371,-4.21442,0 0/1:77:44,31:44:1554:31:1089:-60.4619,0,-117.139 1/1:80:0,80:0:0:80:2835:-216.659,-24.0824,0 0/1:90:39,51:39:1383:51:1785:-108.947,0,-97.6653 1/1:28:1,27:1:36:27:946:-68.9846,-4.83057,0 1/1:52:0,52:0:0:52:1863:-143.701,-15.6536,0 0/0:163:163,0:163:5827:0:0:0,-49.0679,-524.325 1/1:62:0,62:0:0:62:2206:-166.75,-18.6639,0 0/1:15:2,13:2:71:13:465:-31.5552,0,-2.22661 0/1:9:6,3:6:214:3:108:-6.03692,0,-16.8985 0/1:19:11,8:11:386:8:282:-16.2596,0,-29.3517 0/1:93:43,50:43:1513:50:1769:-108.625,0,-108.392 0/1:86:37,49:37:1315:49:1739:-106.12,0,-92.6952 0/1:109:58,50:58:2047:50:1781:-102.987,0,-151.2 0/1:19:10,9:10:358:9:324:-19.3906,0,-26.8002 0/1:21:13,7:13:461:7:241:-11.7568,0,-35.5751 0/1:54:32,22:32:1137:22:791:-44.2138,0,-86.3831 0/1:33:6,27:6:215:27:953:-62.0539,0,-9.71843 1/1:89:4,85:4:144:85:2998:-217.722,-13.4781,0 1/1:22:0,21:0:0:21:747:-56.5708,-6.32163,0 chr07 1860240 . T C 36730.2 PASS AB=0.551118;ABP=59.8432;AC=13;AF=0.309524;AN=42;AO=1572;CIGAR=1X;DP=4254;DPB=4254;DPRA=1.4274;EPP=3416.56;EPPR=5813.87;GTI=1;LEN=1;MEANALT=1.11765;MQM=59.9949;MQMR=59.9918;NS=21;NUMALT=1;ODDS=5.10184;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55185;QR=95124;RO=2680;RPL=730;RPP=20.3379;RPPR=3.0103;RPR=842;RUN=1;SAF=730;SAP=20.3379;SAR=842;SRF=1341;SRP=3.01354;SRR=1339;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:260:259,1:259:9189:1:32:0,-75.0685,-823.779 0/0:190:190,0:190:6729:0:0:0,-57.1957,-605.69 0/1:139:59,80:59:2120:80:2805:-210.848,0,-149.225 0/0:142:141,1:141:5023:1:36:0,-39.148,-448.615 0/1:462:183,279:183:6492:279:9795:-742.434,0,-445.294 0/0:155:152,3:152:5423:3:93:0,-37.9829,-479.525 0/0:246:246,0:246:8745:0:0:0,-74.0534,-787.045 1/1:182:0,182:0:0:182:6431:-578.882,-54.7875,0 0/0:238:236,2:236:8409:2:68:0,-65.1874,-750.357 0/0:16:16,0:16:564:0:0:0,-4.81648,-51.0903 0/1:15:4,11:4:144:11:383:-30.2878,0,-8.79817 0/1:74:38,36:38:1355:36:1266:-91.9649,0,-99.9735 0/1:570:253,317:253:8936:317:11165:-833.171,0,-632.65 0/1:237:131,106:131:4654:106:3735:-265.009,0,-347.681 0/1:252:73,178:73:2599:178:6242:-485.971,0,-158.24 0/1:118:44,74:44:1550:74:2573:-196.292,0,-104.269 0/1:122:48,73:48:1720:73:2570:-194.764,0,-118.301 0/1:202:100,102:100:3564:102:3551:-258.995,0,-260.161 0/1:313:189,124:189:6643:124:4332:-295.841,0,-503.736 0/0:171:168,3:168:5928:3:108:0,-41.401,-523.559 0/0:150:150,0:150:5337:0:0:0,-45.1545,-480.465 chr07 1860292 . A G 27983.7 PASS AB=0.463818;ABP=19.5096;AC=29;AF=0.690476;AN=42;AO=1411;CIGAR=1X;DP=2259;DPB=2259;DPRA=1.68769;EPP=3066.96;EPPR=1842.25;GTI=2;LEN=1;MEANALT=1;MQM=59.9915;MQMR=60;NS=21;NUMALT=1;ODDS=0.946144;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50496;QR=30335;RO=847;RPL=1411;RPP=3066.96;RPPR=1842.25;RPR=0;RUN=1;SAF=0;SAP=3066.96;SAR=1411;SRF=0;SRP=1842.25;SRR=847;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117:0:0:117:4178:-376.201,-35.2205,0 1/1:123:0,123:0:0:123:4385:-394.824,-37.0267,0 0/1:70:47,23:47:1684:23:824:-53.4112,0,-130.775 1/1:79:1,78:1:36:78:2781:-246.931,-20.1831,0 0/1:236:134,102:134:4808:102:3657:-258.29,0,-361.831 1/1:54:3,51:3:108:51:1828:-154.726,-6.18045,0 1/1:88:0,88:0:0:88:3150:-283.725,-26.4906,0 0/0:65:64,0:64:2281:0:0:0,-19.2659,-205.19 1/1:86:1,85:1:36:85:3051:-271.221,-22.2903,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/1:40:21,19:21:756:19:684:-49.8491,0,-56.326 0/1:462:243,219:243:8724:219:7827:-565.384,0,-646.071 0/1:94:44,50:44:1584:50:1792:-133.265,0,-114.555 0/1:139:88,51:88:3122:51:1827:-122.868,0,-239.362 0/1:44:30,14:30:1068:14:504:-32.4528,0,-83.1867 0/1:46:33,13:33:1184:13:464:-28.2501,0,-93.0209 0/1:85:44,41:44:1580:41:1472:-107.189,0,-116.904 0/1:225:86,139:86:3076:139:4992:-381.694,0,-209.337 1/1:113:0,113:0:0:113:4028:-362.708,-34.0164,0 1/1:78:0,78:0:0:78:2800:-252.24,-23.4803,0 chr07 1884701 . C T 17274.9 PASS AB=0.534676;ABP=7.67872;AC=29;AF=0.690476;AN=42;AO=652;CIGAR=1X;DP=907;DPB=907;DPRA=0.957778;EPP=8.88527;EPPR=28.7699;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.76478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23176;QR=9067;RO=255;RPL=652;RPP=1418.81;RPPR=548.084;RPR=0;RUN=1;SAF=305;SAP=8.88527;SAR=347;SRF=101;SRP=26.9306;SRR=154;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:1,53:1:36:53:1889:-166.69,-12.6573,0 1/1:36:0,36:0:0:36:1274:-114.963,-10.8371,0 0/1:26:13,13:13:468:13:464:-34.2707,0,-34.6329 1/1:46:0,46:0:0:46:1644:-148.249,-13.8474,0 0/1:52:25,27:25:892:27:951:-70.2507,0,-64.9461 1/1:39:0,39:0:0:39:1388:-125.219,-11.7402,0 1/1:71:0,71:0:0:71:2518:-226.872,-21.3731,0 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 1/1:57:1,56:1:36:56:1977:-174.605,-13.5604,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:15:9,6:9:311:6:216:-15.2751,0,-23.8083 0/1:45:22,23:22:792:23:813:-59.9428,0,-58.0593 0/1:41:19,22:19:676:22:784:-58.5417,0,-48.8258 0/1:48:26,22:26:907:22:784:-56.4345,0,-67.4949 0/1:28:16,12:16:568:12:432:-30.7924,0,-43.023 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 0/1:99:49,50:49:1733:50:1775:-130.23,0,-126.451 0/1:67:17,50:17:608:50:1774:-139.773,0,-34.883 1/1:34:0,34:0:0:34:1197:-108.033,-10.235,0 1/1:70:0,70:0:0:70:2508:-225.972,-21.0721,0 chr07 1885579 . C G 47012.8 PASS AB=0.481406;ABP=7.45161;AC=29;AF=0.690476;AN=42;AO=2134;CIGAR=1X;DP=3083;DPB=3083;DPRA=0.825852;EPP=4032.65;EPPR=2024.8;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9114;MQMR=59.9916;NS=21;NUMALT=1;ODDS=15.1523;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76020;QR=33627;RO=947;RPL=72;RPP=4032.65;RPPR=2024.8;RPR=2062;RUN=1;SAF=2134;SAP=4636.93;SAR=0;SRF=947;SRP=2059.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:206:0,206:0:0:206:7345:-661.084,-62.0122,0 1/1:146:1,145:1:36:145:5151:-460.124,-40.3521,0 0/1:138:57,81:57:2027:81:2904:-220.053,0,-141.16 1/1:169:0,169:0:0:169:6041:-543.677,-50.8741,0 0/1:326:166,160:166:5883:160:5701:-415.071,0,-431.444 1/1:131:0,131:0:0:131:4675:-420.913,-39.4349,0 1/1:231:1,230:1:36:230:8163:-731.092,-65.9397,0 0/0:176:176,0:176:6248:0:0:0,-52.9813,-562.422 1/1:299:2,297:2:72:297:10551:-942.21,-83.1712,0 1/1:47:1,46:1:36:46:1652:-145.369,-10.5501,0 0/1:10:4,6:4:144:6:199:-15.2246,0,-10.3033 0/1:61:28,33:28:987:33:1184:-88.5055,0,-70.7802 0/1:135:81,54:81:2879:54:1917:-132.164,0,-218.708 0/1:137:83,53:83:2948:53:1889:-128.987,0,-224.256 0/1:216:115,101:115:4099:101:3619:-260.893,0,-304.074 0/1:159:89,70:89:3156:70:2512:-178.468,0,-236.401 0/1:169:85,83:85:3024:83:2953:-215.218,0,-221.607 0/1:70:35,35:35:1243:35:1260:-92.6334,0,-91.1018 0/1:58:22,36:22:788:36:1276:-97.6833,0,-53.7851 1/1:139:0,139:0:0:139:4920:-442.949,-41.8432,0 1/1:60:1,59:1:21:59:2108:-187.889,-15.9619,0 chr07 1885607 . AGAG ATTG,TTTT 135532 PASS AB=0.65437,0.342117;ABP=474.315,496.013;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4353,843;CIGAR=1M2X1M,4X;DP=5216;DPB=5217;DPRA=4.87075,0.636364;EPP=9455.43,1833.56;EPPR=0;GTI=3;LEN=2,4;MEANALT=2.55,2.70588;MQM=59.9623,55.038;MQMR=0;NS=21;NUMALT=2;ODDS=16.4701;PAIRED=0,0;PAIREDR=0;PAO=0,4;PQA=0,136;PQR=0;PRO=0;QA=153029,29648;QR=0;RO=0;RPL=2125,1;RPP=8.30255,1824.89;RPPR=0;RPR=2228,842;RUN=1,1;SAF=2125,1;SAP=8.30255,1824.89;SAR=2228,842;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:313:0,307,2:0:0:307,2:10721,71:-964.46,-92.4162,0,-958.693,-86.645,-958.091 1/1:292:0,292,0:0:0:292,0:10285,0:-925.589,-87.9008,0,-925.589,-87.9008,-925.589 1/2:206:0,129,76:0:0:129,76:4554,2679:-588.368,-217.522,-178.689,-370.838,0,-347.96 1/1:380:0,378,0:0:0:378,0:13328,0:-1198.89,-113.789,0,-1198.89,-113.789,-1198.89 1/2:603:0,385,215:0:0:385,215:13517,7585:-1715.9,-615.803,-499.907,-1100.12,0,-1035.39 1/1:238:0,236,2:0:0:236,2:8228,72:-740.189,-71.0431,0,-734.33,-64.8256,-733.728 1/1:474:0,472,1:0:0:472,1:16657,32:-1498.48,-142.086,0,-1496.27,-139.895,-1495.97 2/2:53:0,0,52:0:0:0,52:0,1857:-166.48,-166.48,-166.48,-15.6536,-15.6536,0 1/1:673:0,672,0:0:0:672,0:23682,0:-2130.19,-202.292,0,-2130.19,-202.292,-2130.19 1/1:63:0,63,0:0:0:63,0:2228,0:-200.784,-18.9649,0,-200.784,-18.9649,-200.784 1/2:11:0,7,4:0:0:7,4:252,144:-32.6385,-12.076,-9.96882,-20.9217,0,-19.7176 1/2:63:0,43,20:0:0:43,20:1523,706:-181.822,-57.7633,-44.819,-124.411,0,-118.391 1/2:227:0,141,85:0:0:141,85:4969,2971:-645.739,-241.173,-198.727,-404.665,0,-379.077 1/2:214:0,126,88:0:0:126,88:4450,3070:-612.227,-249.838,-211.909,-362.739,0,-336.248 1/2:262:0,179,82:0:0:179,82:6285,2873:-744.425,-232.906,-179.021,-511.509,0,-486.825 1/2:219:0,129,88:0:0:129,88:4549,3081:-620.502,-250.106,-211.274,-370.479,0,-343.988 1/2:205:0,156,49:0:0:156,49:5456,1723:-584.097,-140.235,-93.2744,-444.213,0,-429.462 1/2:135:0,85,50:0:0:85,50:3011,1762:-388.586,-143.303,-117.715,-245.636,0,-230.584 1/2:132:0,110,22:0:0:110,22:3870,773:-378.145,-63.112,-29.9987,-315.383,0,-308.761 1/1:331:0,323,6:0:0:323,6:11300,216:-1016.56,-97.2327,0,-999.211,-79.8593,-997.405 1/1:122:0,120,1:0:0:120,1:4164,33:-374.598,-36.1236,0,-371.93,-33.4654,-371.629 chr07 1885632 . A G 14642.7 PASS AB=0.508143;ABP=3.89445;AC=13;AF=0.309524;AN=42;AO=847;CIGAR=1X;DP=3023;DPB=3023;DPRA=0.874293;EPP=1781.95;EPPR=4633.07;GTI=0;LEN=1;MEANALT=1;MQM=55.0968;MQMR=59.9954;NS=21;NUMALT=1;ODDS=8.2995;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30194;QR=77846;RO=2176;RPL=840;RPP=1781.95;RPPR=4633.07;RPR=7;RUN=1;SAF=0;SAP=1842.25;SAR=847;SRF=0;SRP=4728.13;SRR=2176;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:99:97,2:97:3476:2:68:0,-23.3566,-306.606 0/0:155:155,0:155:5564:0:0:0,-46.6596,-500.882 0/1:128:49,79:49:1760:79:2798:-213.175,0,-120.152 0/0:206:206,0:206:7364:0:0:0,-62.0122,-662.807 0/1:430:213,217:213:7609:217:7712:-563.096,0,-555.405 0/0:107:103,4:103:3700:4:144:0,-18.9133,-319.904 0/0:253:252,1:252:9027:1:36:0,-73.2578,-809.499 1/1:54:0,54:0:0:54:1944:-174.609,-16.2556,0 0/0:358:358,0:358:12825:0:0:0,-107.769,-1154.06 0/0:18:18,0:18:627:0:0:0,-5.41854,-56.7544 0/1:6:2,4:2:72:4:144:-11.474,0,-5.03054 0/1:29:10,19:10:360:19:680:-52.7143,0,-24.0144 0/1:170:85,85:85:3024:85:3039:-221.811,0,-221.214 0/1:157:71,86:71:2536:86:3049:-227.159,0,-181.23 0/1:157:75,82:75:2680:82:2920:-215.03,0,-194.184 0/1:143:57,86:57:2035:86:3076:-233.402,0,-140.374 0/1:119:71,48:71:2537:48:1716:-118.614,0,-192.757 0/1:101:50,51:50:1791:51:1828:-133.679,0,-131.068 0/1:95:72,23:72:2579:23:824:-45.6137,0,-203.761 0/0:179:173,6:173:6164:6:216:0,-34.3762,-535.351 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 chr07 1885709 . C T 16584.6 PASS AB=0.527233;ABP=5.9671;AC=29;AF=0.690476;AN=42;AO=631;CIGAR=1X;DP=889;DPB=889;DPRA=1.08974;EPP=3.04127;EPPR=8.69989;GTI=0;LEN=1;MEANALT=1;MQM=59.9746;MQMR=60;NS=21;NUMALT=1;ODDS=0.717047;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22370;QR=9129;RO=258;RPL=631;RPP=1373.21;RPPR=563.25;RPR=0;RUN=1;SAF=317;SAP=3.04127;SAR=314;SRF=116;SRP=8.69989;SRR=142;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1502:-135.469,-12.9443,0 1/1:34:1,33:1:36:33:1158:-100.888,-6.63675,0 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.974 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 0/1:66:35,31:35:1241:31:1088:-78.359,0,-92.1245 1/1:34:0,34:0:0:34:1185:-106.952,-10.235,0 1/1:57:0,57:0:0:57:2009:-181.079,-17.1587,0 0/0:39:39,0:39:1391:0:0:0,-11.7402,-125.488 1/1:67:0,67:0:0:67:2387:-215.087,-20.169,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:14:10,4:10:360:4:144:-9.0992,0,-28.5299 0/1:49:19,30:19:675:30:1053:-80.3281,0,-46.3265 0/1:41:30,11:30:1049:11:396:-23.6405,0,-82.3759 0/1:46:25,21:25:863:21:741:-53.1642,0,-64.134 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.974 0/1:18:7,11:7:243:11:396:-30.5642,0,-16.7889 0/1:88:40,48:40:1420:48:1710:-127.694,0,-101.607 0/1:101:38,63:38:1347:63:2241:-171.547,0,-91.1254 1/1:29:0,29:0:0:29:1038:-93.7339,-8.72987,0 1/1:82:1,81:1:36:81:2882:-256.016,-21.0862,0 chr07 1885734 . T G 15021.5 PASS AB=0.485235;ABP=5.83176;AC=13;AF=0.309524;AN=42;AO=860;CIGAR=1X;DP=2689;DPB=2689;DPRA=1.0762;EPP=1870.48;EPPR=3974.63;GTI=0;LEN=1;MEANALT=1;MQM=59.9512;MQMR=60;NS=21;NUMALT=1;ODDS=7.18499;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30581;QR=65471;RO=1829;RPL=0;RPP=1870.48;RPPR=3974.63;RPR=860;RUN=1;SAF=860;SAP=1870.48;SAR=0;SRF=1829;SRP=3974.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:114:114,0:114:4088:0:0:0,-34.3174,-368.105 0/0:133:133,0:133:4768:0:0:0,-40.037,-429.277 0/1:94:34,60:34:1212:60:2148:-165.291,0,-81.0895 0/0:168:168,0:168:6003:0:0:0,-50.573,-540.376 0/1:314:178,136:178:6361:136:4818:-339.251,0,-478.056 0/0:125:124,1:124:4452:1:36:0,-34.0305,-397.251 0/0:186:186,0:186:6651:0:0:0,-55.9916,-598.668 1/1:135:0,135:0:0:135:4806:-432.659,-40.6391,0 0/0:182:182,0:182:6536:0:0:0,-54.7875,-588.32 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:25:14,11:14:496:11:396:-28.457,0,-37.4485 0/1:177:90,87:90:3220:87:3086:-224.684,0,-236.74 0/1:129:78,51:78:2781:51:1820:-125.248,0,-211.697 0/1:234:105,129:105:3764:129:4572:-340.975,0,-268.518 0/1:125:49,76:49:1760:76:2705:-206.061,0,-121.055 0/1:195:106,89:106:3785:89:3161:-226.014,0,-282.147 0/1:99:49,50:49:1760:50:1781:-130.769,0,-128.882 0/1:93:61,32:61:2180:32:1148:-75.634,0,-168.47 0/0:86:85,1:85:3044:1:32:0,-22.6893,-270.99 0/0:65:65,0:65:2322:0:0:0,-19.5669,-209.239 chr07 1885759 . T C 15025.7 PASS AB=0.483871;ABP=6.37258;AC=13;AF=0.309524;AN=42;AO=856;CIGAR=1X;DP=2673;DPB=2673;DPRA=1.23237;EPP=1861.79;EPPR=3937.72;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9673;MQMR=60;NS=21;NUMALT=1;ODDS=6.40619;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30569;QR=65109;RO=1816;RPL=856;RPP=1861.79;RPPR=3937.72;RPR=0;RUN=1;SAF=856;SAP=1861.79;SAR=0;SRF=1816;SRP=3946.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:115:115,0:115:4119:0:0:0,-34.6184,-370.894 0/0:129:129,0:129:4632:0:0:0,-38.8329,-417.041 0/1:93:33,60:33:1188:60:2152:-165.951,0,-79.2328 0/0:168:168,0:168:5993:0:0:0,-50.573,-539.477 0/1:313:177,136:177:6330:136:4857:-343.06,0,-475.566 0/0:126:125,1:125:4488:1:36:0,-34.3315,-400.489 0/0:188:187,1:187:6707:1:36:0,-52.9954,-600.105 1/1:133:0,133:0:0:133:4752:-427.838,-40.037,0 0/0:174:174,0:174:6248:0:0:0,-52.3792,-562.412 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:24:14,10:14:504:10:360:-25.5196,0,-38.4734 0/1:179:92,87:92:3300:87:3104:-225.704,0,-243.334 0/1:131:78,52:78:2800:52:1852:-127.466,0,-212.746 0/1:232:103,129:103:3691:129:4615:-345.448,0,-262.553 0/1:124:49,75:49:1764:75:2688:-204.834,0,-121.716 0/1:191:104,87:104:3736:87:3097:-221.46,0,-278.943 0/1:102:52,50:52:1864:50:1764:-128.336,0,-137.334 0/1:94:62,32:62:2228:32:1148:-75.333,0,-172.487 0/0:83:82,1:82:2929:1:36:0,-21.3872,-260.245 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.499 chr07 1902395 . T A 93204.5 PASS AB=0.480898;ABP=11.0573;AC=29;AF=0.690476;AN=42;AO=3508;CIGAR=1X;DP=5082;DPB=5082;DPRA=0.991393;EPP=7611.85;EPPR=3405.71;GTI=0;LEN=1;MEANALT=1.1;MQM=56.4684;MQMR=59.7868;NS=21;NUMALT=1;ODDS=14.2495;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=125112;QR=56019;RO=1571;RPL=1479;RPP=190.26;RPPR=4.90256;RPR=2029;RUN=1;SAF=1478;SAP=191.624;SAR=2030;SRF=766;SRP=5.11266;SRR=805;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:355:0,355:0:0:355:12656:-1136.52,-106.866,0 1/1:280:0,280:0:0:280:10027:-898.767,-84.2884,0 0/1:231:122,109:122:4365:109:3899:-281.06,0,-323.477 1/1:268:5,263:5:180:263:9429:-831.734,-64.1529,0 0/1:464:221,243:221:7877:243:8675:-640.111,0,-569.162 1/1:285:3,282:3:95:282:10061:-894.633,-77.4377,0 1/1:287:0,287:0:0:287:10240:-917.006,-86.3956,0 0/0:244:244,0:244:8705:0:0:0,-73.4513,-783.421 1/1:426:3,423:3:108:423:15017:-1339.5,-118.164,0 1/1:27:0,27:0:0:27:968:-87.0544,-8.12781,0 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:54:32,22:32:1144:22:784:-54.2504,0,-87.0139 0/1:275:166,109:166:5919:109:3885:-266.662,0,-450.036 0/1:303:165,136:165:5873:136:4845:-344.769,0,-437.686 0/1:417:221,195:221:7879:195:6949:-498.647,0,-583.339 0/1:227:115,112:115:4109:112:3995:-291.071,0,-301.657 0/1:194:91,103:91:3248:103:3658:-270.886,0,-234.13 0/1:217:116,101:116:4126:101:3588:-255.937,0,-305.973 0/1:149:60,89:60:2139:89:3182:-241.549,0,-147.924 1/1:256:1,255:1:36:255:9081:-811.745,-73.4654,0 1/1:115:0,115:0:0:115:4101:-367.798,-34.6185,0 chr07 1943605 . G C 11207 PASS AB=0.509039;ABP=3.75616;AC=12;AF=0.285714;AN=42;AO=631;CIGAR=1X;DP=2121;DPB=2121;DPRA=1.02539;EPP=1373.21;EPPR=3236.33;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9208;MQMR=54.9664;NS=21;NUMALT=1;ODDS=10.2513;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22646;QR=53252;RO=1489;RPL=0;RPP=1373.21;RPPR=3236.33;RPR=631;RUN=1;SAF=631;SAP=1373.21;SAR=0;SRF=1489;SRP=3236.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:139:139,0:139:4957:0:0:0,-41.8432,-445.814 0/0:86:86,0:86:3081:0:0:0,-25.8886,-277.232 0/0:107:107,0:107:3848:0:0:0,-32.2102,-346.159 0/0:72:72,0:72:2558:0:0:0,-21.6742,-230.228 0/1:164:55,109:55:1957:109:3920:-303.616,0,-126.858 0/0:60:60,0:60:2145:0:0:0,-18.0618,-193.118 0/0:148:148,0:148:5305:0:0:0,-44.5524,-477.091 1/1:99:4,95:4:144:95:3408:-293.631,-16.5021,0 0/0:192:192,0:192:6889:0:0:0,-57.7978,-619.44 0/0:20:20,0:20:705:0:0:0,-6.0206,-63.7089 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.8917 0/1:27:6,21:6:201:21:756:-60.2394,0,-10.2721 0/1:105:49,56:49:1730:56:2012:-149.745,0,-124.207 0/1:120:59,61:59:2101:61:2176:-159.983,0,-153.044 0/1:225:124,101:124:4430:101:3628:-258.986,0,-330.731 0/1:107:67,40:67:2412:40:1430:-96.7863,0,-184.902 0/1:71:40,31:40:1432:31:1112:-79.0182,0,-107.664 0/1:127:57,69:57:2048:69:2480:-185.157,0,-146.082 0/1:97:54,43:54:1940:43:1544:-110.046,0,-145.501 0/0:75:74,1:74:2641:1:36:0,-18.979,-234.097 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.555 chr07 1943616 . TC CG 30223.7 PASS AB=0.483902;ABP=5.3874;AC=30;AF=0.714286;AN=42;AO=1485;CIGAR=2X;DP=2131;DPB=2131;DPRA=0;EPP=3227.65;EPPR=1384.07;GTI=0;LEN=2;MEANALT=1.42857;MQM=54.9562;MQMR=59.9135;NS=21;NUMALT=1;ODDS=10.5783;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52409;QR=22546;RO=636;RPL=1485;RPP=3227.65;RPPR=1384.07;RPR=0;RUN=1;SAF=1485;SAP=3227.65;SAR=0;SRF=636;SRP=1384.07;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:141:0,141:0:0:141:4915:-442.06,-42.4452,0 1/1:89:0,89:0:0:89:3114:-280.217,-26.7917,0 1/1:108:0,107:0:0:107:3796:-341.25,-32.2102,0 1/1:72:0,71:0:0:71:2511:-225.644,-21.3731,0 0/1:166:111,54:111:3951:54:1896:-120.839,0,-305.873 1/1:60:0,59:0:0:59:2120:-190.622,-17.7608,0 1/1:149:0,149:0:0:149:5290:-475.768,-44.8535,0 0/0:98:94,4:94:3355:4:144:0,-16.201,-288.863 1/1:192:0,190:0:0:190:6726:-604.547,-57.1957,0 1/1:20:0,20:0:0:20:692:-62.5405,-6.0206,0 0/1:9:5,4:5:178:4:144:-10.5906,0,-13.6594 0/1:27:21,6:21:746:6:205:-10.6386,0,-59.3365 0/1:105:56,49:56:1939:49:1691:-120.724,0,-143.171 0/1:120:61,59:61:2160:59:2068:-150.089,0,-158.542 0/1:226:102,123:102:3623:123:4361:-324.213,0,-258.202 0/1:107:40,66:40:1425:66:2363:-180.446,0,-96.2749 0/1:71:31,40:31:1080:40:1403:-105.056,0,-76.1316 0/1:128:71,57:71:2522:57:2001:-141.644,0,-188.692 0/1:97:43,53:43:1531:53:1887:-140.681,0,-108.818 1/1:76:1,75:1:36:75:2633:-233.388,-19.28,0 1/1:70:0,69:0:0:69:2449:-220.196,-20.7711,0 chr07 1943911 . T C 59367.9 PASS AB=0.453001;ABP=39.1388;AC=30;AF=0.714286;AN=42;AO=2794;CIGAR=1X;DP=4068;DPB=4068;DPRA=0.808228;EPP=5957.71;EPPR=2717.6;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9662;NS=21;NUMALT=1;ODDS=12.7192;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99954;QR=45745;RO=1274;RPL=2781;RPP=5957.71;RPPR=2717.6;RPR=13;RUN=1;SAF=0;SAP=6070.1;SAR=2794;SRF=0;SRP=2769.47;SRR=1274;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:320:6,314:6:216:314:11220:-989.895,-76.5391,0 1/1:192:0,192:0:0:192:6880:-619.267,-57.7978,0 1/1:137:0,137:0:0:137:4892:-440.431,-41.2411,0 1/1:282:0,282:0:0:282:10101:-909.021,-84.8905,0 0/1:480:260,220:260:9340:220:7852:-562.216,0,-696.066 1/1:193:0,193:0:0:193:6895:-620.617,-58.0988,0 1/1:234:0,234:0:0:234:8355:-751.959,-70.441,0 0/0:237:237,0:237:8512:0:0:0,-71.3441,-764.801 1/1:293:1,292:1:36:292:10428:-934.842,-84.6035,0 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/1:53:26,27:26:932:27:949:-69.7682,0,-68.2443 0/1:232:121,111:121:4348:111:3984:-288.91,0,-321.654 0/1:224:142,82:142:5100:82:2944:-197.763,0,-391.707 0/1:232:108,124:108:3869:124:4435:-329.482,0,-278.564 0/1:190:110,80:110:3940:80:2864:-200.802,0,-297.596 0/1:250:163,87:163:5860:87:3115:-205.319,0,-452.251 0/1:96:48,48:48:1720:48:1728:-126.906,0,-126.187 0/1:115:46,69:46:1656:69:2480:-188.835,0,-114.71 1/1:179:0,179:0:0:179:6423:-578.155,-53.8844,0 1/1:88:0,88:0:0:88:3153:-283.994,-26.4906,0 chr07 1961055 . TGT TGGT 8765.14 PASS AB=0.427995;ABP=36.4708;AC=12;AF=0.285714;AN=42;AO=432;CIGAR=1M1I2M;DP=1637;DPB=1781;DPRA=0.935965;EPP=486.062;EPPR=2613.12;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.0856;MQMR=44.1522;NS=21;NUMALT=1;ODDS=1.15915;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15230;QR=42340;RO=1202;RPL=61;RPP=486.062;RPPR=2613.12;RPR=371;RUN=1;SAF=0;SAP=941.086;SAR=432;SRF=0;SRP=2613.12;SRR=1202;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:32,0:32:1094:0:0:0,-9.63296,-96.9281 0/0:84:83,1:83:2929:1:36:0,-21.6892,-255.46 0/0:94:94,0:94:3337:0:0:0,-28.2968,-295.736 0/0:120:120,0:120:4239:0:0:0,-36.1236,-374.376 0/1:128:73,55:73:2589:55:1937:-135.973,0,-191.002 0/0:59:58,1:58:2013:1:36:0,-14.1635,-173.006 0/0:117:117,0:117:4116:0:0:0,-35.2205,-363.026 1/1:113:2,111:2:54:111:3938:-349.142,-28.8868,0 0/0:142:142,0:142:5035:0:0:0,-42.7463,-445.329 0/0:8:8,0:8:281:0:0:0,-2.40824,-25.2712 0/1:4:3,1:3:108:1:36:-2.39315,0,-8.69702 0/1:11:6,5:6:208:5:180:-13.2407,0,-15.4527 0/1:104:71,31:71:2475:31:1091:-67.4387,0,-187.903 0/1:80:48,32:48:1650:32:1120:-76.7246,0,-122.278 0/1:114:65,49:65:2306:49:1739:-122.149,0,-169.227 0/1:57:35,22:35:1232:22:784:-53.7252,0,-92.2813 0/1:59:21,37:21:724:37:1299:-99.1759,0,-46.7354 0/1:113:56,57:56:1998:57:1970:-143.395,0,-141.626 0/1:73:44,29:44:1576:29:1028:-70.8578,0,-117.803 0/0:68:67,1:67:2350:1:36:0,-16.8718,-204.129 0/0:57:57,0:57:2026:0:0:0,-17.1587,-178.434 chr07 1961060 . ATCTCTCCA ATCTTTCTCCA,ATCTCTCTCCA 32567.5 PASS AB=0.55791,0.432203;ABP=23.6332,31.2762;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1133,424;CIGAR=3M2I6M,1M2I8M;DP=1571;DPB=1919.67;DPRA=0.633043,0.936015;EPP=2420.05,906.425;EPPR=0;GTI=0;LEN=2,2;MEANALT=2.3,2.64286;MQM=44.2004,59.1698;MQMR=0;NS=21;NUMALT=2;ODDS=0.0161464;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39752,14963;QR=0;RO=0;RPL=5,422;RPP=2420.05,906.425;RPPR=0;RPR=1128,2;RUN=1,1;SAF=0,0;SAP=2463.29,923.715;SAR=1133,424;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,31,0:0:0:31,0:1089,0:-96.4987,-9.33193,0,-96.4987,-9.33193,-96.4987 1/1:80:0,78,1:0:0:78,1:2731,36:-241.618,-23.4803,0,-238.682,-20.5408,-238.381 1/1:91:0,91,0:0:0:91,0:3210,0:-284.561,-27.3937,0,-284.561,-27.3937,-284.561 1/1:114:0,113,0:0:0:113,0:3983,0:-352.459,-34.0164,0,-352.459,-34.0164,-352.459 1/2:120:0,69,50:0:0:69,50:2399,1792:-337.812,-146.123,-125.352,-191.681,0,-176.629 1/1:54:0,51,1:0:0:51,1:1777,36:-157.219,-15.3525,0,-154.282,-12.3794,-153.981 1/1:113:0,112,0:0:0:112,0:3924,0:-347.237,-33.7154,0,-347.237,-33.7154,-347.237 2/2:115:0,0,115:0:0:0,115:0,4089:-367.509,-367.509,-367.509,-34.6185,-34.6185,0 1/1:137:0,137,0:0:0:137,0:4842,0:-428.658,-41.2411,0,-428.658,-41.2411,-428.658 1/1:8:0,8,0:0:0:8,0:284,0:-25.5395,-2.40824,0,-25.5395,-2.40824,-25.5395 1/2:4:0,3,1:0:0:3,1:104,36:-11.6006,-3.29624,-2.39315,-8.65955,0,-8.35852 1/2:11:0,6,5:0:0:6,5:201,165:-29.6628,-13.6685,-11.8623,-16.3241,0,-14.8189 1/2:95:0,64,28:0:0:64,28:2250,996:-260.873,-81.1786,-61.9127,-179.728,0,-171.299 1/2:81:0,48,33:0:0:48,33:1677,1148:-227.266,-93.4695,-79.02,-134.142,0,-124.208 1/2:108:0,59,47:0:0:59,47:2071,1661:-300.702,-135.209,-117.448,-165.587,0,-151.438 1/2:56:0,32,23:0:0:32,23:1132,816:-157.112,-66.4844,-56.8514,-90.626,0,-83.7023 1/2:57:0,20,37:0:0:20,37:670,1259:-155.893,-102.431,-96.4107,-53.7951,0,-42.657 1/2:104:0,52,52:0:0:52,52:1802,1848:-294.591,-150.895,-135.241,-144.044,0,-128.391 1/2:72:0,42,30:0:0:42,30:1481,1045:-203.748,-85.3269,-72.6836,-118.769,0,-109.738 1/1:67:0,65,1:0:0:65,1:2300,36:-203.641,-19.567,0,-200.703,-16.5746,-200.402 1/1:52:0,52,0:0:0:52,0:1825,0:-161.424,-15.6536,0,-161.424,-15.6536,-161.424 chr07 1961078 . G A 23773.6 PASS AB=0.556;ABP=23.4395;AC=30;AF=0.714286;AN=42;AO=1171;CIGAR=1X;DP=1623;DPB=1623;DPRA=0.655652;EPP=2545.8;EPPR=982.344;GTI=0;LEN=1;MEANALT=1.05;MQM=44.0786;MQMR=58.8625;NS=21;NUMALT=1;ODDS=1.00334;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41808;QR=16136;RO=451;RPL=1171;RPP=2545.8;RPPR=982.344;RPR=0;RUN=1;SAF=0;SAP=2545.8;SAR=1171;SRF=0;SRP=982.344;SRR=451;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:30:0,30:0:0:30:1061:-93.4795,-9.0309,0 1/1:81:2,79:2:72:79:2836:-243.786,-17.5477,0 1/1:92:0,92:0:0:92:3285:-290.977,-27.6948,0 1/1:116:0,116:0:0:116:4153:-366.358,-34.9195,0 0/1:129:57,72:57:2040:72:2561:-188.083,0,-144.896 1/1:57:1,56:1:36:56:2008:-172.468,-13.5614,0 1/1:114:0,114:0:0:114:4073:-358.457,-34.3174,0 0/0:115:115,0:115:4120:0:0:0,-34.6184,-370.25 1/1:141:0,141:0:0:141:5022:-443.984,-42.4452,0 1/1:8:0,8:0:0:8:288:-25.8704,-2.40824,0 0/1:4:1,3:1:36:3:108:-8.69702,0,-2.39315 0/1:11:5,6:5:180:6:216:-16.1373,0,-13.2407 0/1:104:33,71:33:1176:71:2540:-192.917,0,-74.756 0/1:82:34,47:34:1216:47:1680:-123.886,0,-84.7634 0/1:116:52,64:52:1852:64:2270:-165.517,0,-131.382 0/1:57:23,34:23:828:34:1205:-89.8302,0,-57.6854 0/1:59:38,21:38:1368:21:737:-47.8524,0,-105.373 0/1:115:60,55:60:2140:55:1972:-138.676,0,-157.986 0/1:73:29,44:29:1036:44:1584:-118.462,0,-71.5787 1/1:67:1,66:1:36:66:2341:-203.402,-16.5707,0 1/1:52:0,52:0:0:52:1868:-164.13,-15.6536,0 chr07 1965235 . TGTA CGTG,CGTA 21531.4 PASS AB=0.456637,0.543363;ABP=12.2381,12.2381;AC=30,12;AF=0.714286,0.285714;AN=42;AO=691,335;CIGAR=1X2M1X,1X3M;DP=1028;DPB=1028.5;DPRA=1.8537,1.14901;EPP=1503.5,730.454;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.65,1.91667;MQM=59.9986,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.28823;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=0;QA=24343,11990;QR=0;RO=0;RPL=691,335;RPP=1503.5,730.454;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1503.5,730.454;SAR=691,335;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42,0:0:0:42,0:1465,0:-132.142,-12.6433,0,-132.142,-12.6433,-132.142 1/1:29:0,29,0:0:0:29,0:1013,0:-91.4798,-8.72987,0,-91.4798,-8.72987,-91.4798 1/1:38:0,37,0:0:0:37,0:1322,0:-119,-11.1381,0,-119,-11.1381,-119 1/1:60:0,60,0:0:0:60,0:2126,0:-191.609,-18.0618,0,-191.609,-18.0618,-191.609 1/2:107:0,60,47:0:0:60,47:2129,1681:-310.829,-137.37,-119.308,-173.757,0,-159.609 1/1:43:0,42,0:0:0:42,0:1491,0:-134.066,-12.6433,0,-134.066,-12.6433,-134.066 1/1:66:0,66,0:0:0:66,0:2303,0:-207.529,-19.868,0,-207.529,-19.868,-207.529 2/2:27:0,0,27:0:0:0,27:0,972:-87.7979,-87.7979,-87.7979,-8.12781,-8.12781,0 1/1:60:0,60,0:0:0:60,0:2092,0:-188.548,-18.0618,0,-188.548,-18.0618,-188.548 1/1:4:0,4,0:0:0:4,0:128,0:-11.8362,-1.20412,0,-11.8362,-1.20412,-11.8362 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/2:19:0,12,7:0:0:12,7:422,237:-53.9112,-19.5518,-15.9395,-34.7026,0,-32.5954 1/2:67:0,25,42:0:0:25,42:878,1500:-194.108,-122.651,-115.126,-71.8103,0,-59.1671 1/2:71:0,28,43:0:0:28,43:999,1540:-207.388,-125.949,-117.52,-81.7968,0,-68.8525 1/2:72:0,28,44:0:0:28,44:995,1576:-209.965,-128.886,-120.457,-81.4355,0,-68.1902 1/2:67:0,24,43:0:0:24,43:843,1544:-194.919,-126.309,-119.084,-68.9636,0,-56.0193 1/2:84:0,38,46:0:0:38,46:1313,1648:-241.437,-134.761,-123.322,-107.027,0,-93.1795 1/2:44:0,25,19:0:0:25,19:893,680:-128.616,-55.8096,-48.2838,-73.1643,0,-67.4447 1/2:29:0,17,12:0:0:17,12:601,432:-84.5536,-35.6088,-30.4913,-49.3019,0,-45.6895 1/1:64:0,64,0:0:0:64,0:2250,0:-202.762,-19.2659,0,-202.762,-19.2659,-202.762 1/1:30:0,29,1:0:0:29,1:1044,36:-93.915,-8.72987,0,-90.9776,-5.43263,-90.6765 chr07 2093125 . C A 91618.1 PASS AB=0.501738;ABP=3.07067;AC=30;AF=0.714286;AN=42;AO=3496;CIGAR=1X;DP=4920;DPB=4920;DPRA=0.885361;EPP=7568.44;EPPR=3082.16;GTI=0;LEN=1;MEANALT=1.25;MQM=59.8884;MQMR=59.9633;NS=21;NUMALT=1;ODDS=36.7696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=122540;QR=50287;RO=1418;RPL=2117;RPP=341.305;RPPR=44.1978;RPR=1379;RUN=1;SAF=2120;SAP=346.828;SAR=1376;SRF=791;SRP=44.1978;SRR=627;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:296:2,294:2:57:294:10342:-924.56,-83.6916,0 1/1:197:1,196:1:32:196:6844:-612.836,-56.1036,0 1/1:128:0,128:0:0:128:4426:-398.514,-38.5318,0 1/1:277:1,276:1:36:276:9534:-854.386,-79.787,0 0/1:480:247,233:247:8725:233:8206:-594.061,0,-640.739 1/1:284:3,280:3:108:280:9905:-881.325,-75.4761,0 1/1:371:0,371:0:0:371:13063:-1175.39,-111.682,0 0/0:263:263,0:263:9327:0:0:0,-79.1709,-839.403 1/1:334:2,332:2:72:332:11702:-1046.22,-93.7073,0 1/1:40:0,40:0:0:40:1403:-126.566,-12.0412,0 0/1:42:18,24:18:639:24:851:-64.2653,0,-45.195 0/1:94:33,61:33:1184:61:2112:-162.046,0,-78.5715 0/1:301:163,136:163:5768:136:4730:-335.357,0,-428.826 0/1:209:95,114:95:3377:114:4028:-299.789,0,-241.23 0/1:388:198,188:198:7048:188:6622:-479.53,0,-517.657 0/1:189:93,96:93:3305:96:3348:-244.615,0,-240.774 0/1:177:108,68:108:3859:68:2317:-155.386,0,-294.164 0/1:246:126,120:126:4468:120:4227:-306.551,0,-328.239 0/1:176:61,115:61:2138:115:3985:-305.86,0,-139.704 1/1:276:3,273:3:108:273:9669:-860.069,-73.0091,0 1/1:152:1,151:1:36:151:5226:-466.884,-42.1583,0 chr07 2093152 . C T 97510.5 PASS AB=0.511224;ABP=5.59381;AC=30;AF=0.714286;AN=42;AO=3642;CIGAR=1X;DP=5079;DPB=5079;DPRA=0.897575;EPP=7885.48;EPPR=3112.56;GTI=0;LEN=1;MEANALT=1;MQM=59.8501;MQMR=59.9506;NS=21;NUMALT=1;ODDS=41.1317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=129971;QR=51108;RO=1436;RPL=2223;RPP=388.423;RPPR=30.9793;RPR=1419;RUN=1;SAF=2222;SAP=386.508;SAR=1420;SRF=785;SRP=30.1628;SRR=651;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:310:1,309:1:36:309:10988:-985.065,-89.721,0 1/1:206:1,205:1:36:205:7318:-655.071,-58.4139,0 1/1:135:0,135:0:0:135:4825:-434.394,-40.6391,0 1/1:290:3,287:3:108:287:10259:-912.892,-77.2235,0 0/1:495:252,243:252:8991:243:8670:-631.277,0,-660.16 1/1:295:3,292:3:104:292:10408:-926.932,-79.101,0 1/1:383:0,383:0:0:383:13718:-1234.21,-115.294,0 0/0:268:267,0:267:9534:0:0:0,-80.375,-857.657 1/1:359:2,357:2:72:357:12707:-1136.61,-101.233,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 0/1:42:18,24:18:644:24:864:-65.4384,0,-45.6473 0/1:94:34,60:34:1220:60:2132:-163.849,0,-81.81 0/1:316:167,149:167:5912:149:5302:-382.051,0,-436.285 0/1:209:94,115:94:3335:115:4083:-304.735,0,-237.451 0/1:391:194,197:194:6935:197:7047:-516.542,0,-506.514 0/1:195:95,100:95:3358:100:3567:-262.481,0,-243.733 0/1:182:109,73:109:3877:73:2610:-179.059,0,-294.338 0/1:252:129,123:129:4568:123:4416:-321.726,0,-335.426 0/1:185:62,123:62:2207:123:4373:-338.054,0,-143.204 1/1:278:3,275:3:108:275:9840:-875.331,-73.6112,0 1/1:153:2,151:2:63:151:5376:-477.989,-40.0744,0 chr07 2110148 . A G 36603 PASS AB=0.488048;ABP=4.25608;AC=30;AF=0.714286;AN=42;AO=1655;CIGAR=1X;DP=2326;DPB=2326;DPRA=0.730537;EPP=3596.8;EPPR=1457.9;GTI=0;LEN=1;MEANALT=1.05;MQM=50.4804;MQMR=57.5896;NS=21;NUMALT=1;ODDS=10.1816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58937;QR=24012;RO=670;RPL=1597;RPP=3110.67;RPPR=1355.53;RPR=58;RUN=1;SAF=1597;SAP=3110.67;SAR=58;SRF=658;SRP=1355.53;SRR=12;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:1,106:1:36:106:3795:-336.094,-28.6124,0 1/1:76:0,76:0:0:76:2728:-244.965,-22.8783,0 1/1:125:0,124:0:0:124:4396:-393.644,-37.3277,0 1/1:165:0,165:0:0:165:5835:-521.744,-49.67,0 0/1:184:111,73:111:3976:73:2608:-178.405,0,-302.01 1/1:94:0,94:0:0:94:3342:-299.709,-28.2968,0 1/1:183:0,183:0:0:183:6547:-587.306,-55.0885,0 0/0:149:149,0:149:5352:0:0:0,-44.8535,-481.115 1/1:210:0,210:0:0:210:7455:-667.418,-63.2163,0 1/1:6:0,6:0:0:6:212:-19.3689,-1.80618,0 0/1:12:8,4:8:288:4:135:-8.83827,0,-22.5136 0/1:37:19,18:19:684:18:648:-47.324,0,-50.721 0/1:196:93,103:93:3317:103:3683:-270.732,0,-239.493 0/1:112:66,46:66:2364:46:1648:-113.853,0,-179.201 0/1:211:101,110:101:3619:110:3933:-288.336,0,-262.155 0/1:66:36,30:36:1296:30:1063:-75.4098,0,-97.076 0/1:54:25,29:25:896:29:1032:-76.5605,0,-64.6956 0/1:59:31,28:31:1116:28:984:-70.2334,0,-82.6247 0/1:73:24,49:24:856:49:1752:-134.818,0,-55.2627 1/1:127:4,123:4:140:123:4358:-378.158,-25.2916,0 1/1:80:2,78:2:72:78:2783:-241.794,-17.2527,0 chr07 2113924 . G A 10187.1 PASS AB=0.457456;ABP=21.6718;AC=12;AF=0.285714;AN=42;AO=605;CIGAR=1X;DP=2667;DPB=2667;DPRA=0.876643;EPP=1290.82;EPPR=4346.9;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.4149;MQMR=59.9524;NS=21;NUMALT=1;ODDS=10.0839;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21689;QR=73730;RO=2060;RPL=3;RPP=1290.82;RPPR=4346.9;RPR=602;RUN=1;SAF=0;SAP=1316.75;SAR=605;SRF=0;SRP=4476.24;SRR=2060;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:149:149,0:149:5331:0:0:0,-44.8535,-479.918 0/0:177:176,0:176:6312:0:0:0,-52.9813,-567.408 0/0:86:86,0:86:3072:0:0:0,-25.8886,-276.653 0/0:256:256,0:256:9120:0:0:0,-77.0637,-820.775 0/1:349:175,173:175:6288:173:6211:-453.293,0,-460.846 0/0:119:119,0:119:4272:0:0:0,-35.8226,-384.656 0/0:235:235,0:235:8398:0:0:0,-70.742,-755.818 1/1:56:0,56:0:0:56:2007:-180.702,-16.8577,0 0/0:147:146,1:146:5231:1:36:0,-40.6531,-467.328 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:37:22,15:22:792:15:540:-37.7961,0,-60.4676 0/1:140:79,61:79:2811:61:2183:-154.584,0,-211.086 0/1:112:65,47:65:2324:47:1688:-118.474,0,-175.705 0/1:118:65,53:65:2332:53:1904:-136.084,0,-174.618 0/1:145:73,72:73:2602:72:2560:-186.966,0,-190.778 0/1:143:80,63:80:2880:63:2264:-160.897,0,-216.388 0/1:52:29,23:29:1044:23:824:-58.8288,0,-78.6212 0/1:84:54,30:54:1940:30:1080:-72.2161,0,-149.59 0/0:177:172,5:172:6155:5:180:0,-36.7302,-537.496 0/0:71:71,0:71:2538:0:0:0,-21.3731,-228.67 chr07 2174474 . G A 13917.7 PASS AB=0.530035;ABP=11.8803;AC=12;AF=0.285714;AN=42;AO=752;CIGAR=1X;DP=2517;DPB=2517;DPRA=1.38117;EPP=1610;EPPR=3790.18;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9987;MQMR=59.9875;NS=21;NUMALT=1;ODDS=10.0905;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26903;QR=62962;RO=1764;RPL=2;RPP=1618.63;RPPR=3790.18;RPR=750;RUN=1;SAF=749;SAP=1610;SAR=3;SRF=1764;SRP=3833.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:161:161,0:161:5734:0:0:0,-48.4658,-516.179 0/0:69:69,0:69:2463:0:0:0,-20.7711,-221.924 0/0:104:104,0:104:3703:0:0:0,-31.3071,-333.473 0/0:111:111,0:111:3964:0:0:0,-33.4143,-356.952 0/1:194:82,112:82:2936:112:4008:-302.509,0,-206.074 0/0:151:151,0:151:5373:0:0:0,-45.4555,-483.704 0/0:233:230,3:230:8206:3:108:0,-60.0648,-728.29 1/1:147:0,147:0:0:147:5251:-472.725,-44.2514,0 0/0:211:210,1:210:7516:1:32:0,-60.318,-673.28 0/0:19:19,0:19:672:0:0:0,-5.71957,-60.8068 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:29:13,16:13:464:16:576:-43.4451,0,-33.3676 0/1:94:45,49:45:1605:49:1721:-126.874,0,-116.441 0/1:110:32,78:32:1140:78:2788:-218.048,0,-69.7959 0/1:288:119,169:119:4248:169:6055:-458.356,0,-295.804 0/1:86:49,37:49:1756:37:1332:-94.2938,0,-132.435 0/1:102:63,39:63:2248:39:1404:-95.9542,0,-171.878 0/1:121:55,66:55:1951:66:2368:-176.953,0,-139.441 0/1:100:67,32:67:2400:32:1152:-73.8283,0,-186.095 0/0:125:124,1:124:4431:1:36:0,-34.0305,-395.363 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.516 chr07 2174489 . C T 36582.3 PASS AB=0.463393;ABP=16.0469;AC=30;AF=0.714286;AN=42;AO=1746;CIGAR=1X;DP=2501;DPB=2501;DPRA=0.812414;EPP=3785.72;EPPR=1631.63;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9874;MQMR=60;NS=21;NUMALT=1;ODDS=9.88266;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62066;QR=26665;RO=754;RPL=1742;RPP=3759.74;RPPR=1614.35;RPR=4;RUN=1;SAF=1743;SAP=3768.39;SAR=3;SRF=752;SRP=1622.97;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:155:0,155:0:0:155:5519:-496.838,-46.6597,0 1/1:70:0,70:0:0:70:2457:-221.382,-21.0721,0 1/1:106:0,106:0:0:106:3758:-338.42,-31.9092,0 1/1:111:0,111:0:0:111:3944:-355.152,-33.4143,0 0/1:193:111,82:111:3918:82:2937:-206.465,0,-294.716 1/1:152:0,152:0:0:152:5433:-489.098,-45.7566,0 1/1:231:6,224:6:216:224:7884:-689.793,-49.8062,0 0/0:145:145,0:145:5124:0:0:0,-43.6493,-461.305 1/1:212:1,211:1:36:211:7491:-670.639,-60.2201,0 1/1:20:0,20:0:0:20:707:-63.9546,-6.0206,0 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/1:31:17,14:17:595:14:504:-36.3662,0,-44.5447 0/1:91:46,45:46:1613:45:1599:-116.806,0,-118.063 0/1:110:80,30:80:2801:30:1075:-63.9495,0,-219.216 0/1:283:169,114:169:6003:114:4084:-282.554,0,-455.187 0/1:87:39,48:39:1396:48:1703:-127.366,0,-99.7495 0/1:100:41,59:41:1468:59:2112:-160.246,0,-102.313 0/1:116:64,52:64:2296:52:1823:-129.428,0,-171.982 0/1:100:32,68:32:1091:68:2440:-189.752,0,-68.3861 1/1:124:1,123:1:36:123:4384:-391.135,-33.7294,0 1/1:55:0,55:0:0:55:1964:-177.035,-16.5567,0 chr07 2176095 . C T 35903.2 PASS AB=0.482599;ABP=10.4161;AC=12;AF=0.285714;AN=42;AO=1572;CIGAR=1X;DP=5862;DPB=5862;DPRA=1.01259;EPP=3416.56;EPPR=9292.58;GTI=0;LEN=1;MEANALT=1.10526;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=57.4172;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55623;QR=151355;RO=4286;RPL=890;RPP=62.7728;RPPR=31.7086;RPR=682;RUN=1;SAF=890;SAP=62.7728;SAR=682;SRF=2022;SRP=32.6813;SRR=2264;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:300:297,1:297:10503:1:36:0,-86.4685,-941.597 0/0:283:282,1:282:10024:1:36:0,-81.5932,-898.506 0/0:263:262,1:262:9318:1:36:0,-75.5726,-834.993 0/0:394:394,0:394:13969:0:0:0,-118.606,-1256.99 0/1:515:287,228:287:10105:228:8100:-573.993,0,-754.366 0/0:270:267,3:267:9361:3:108:0,-71.2029,-832.393 0/0:409:407,1:407:14290:1:36:0,-119.582,-1282.28 1/1:196:1,195:1:36:195:6912:-618.553,-55.4036,0 0/0:409:408,1:408:14377:1:36:0,-119.523,-1290.1 0/0:60:59,1:59:2087:1:36:0,-14.4635,-184.499 0/1:38:18,20:18:636:20:697:-51.6115,0,-46.1289 0/1:117:62,55:62:2163:55:1962:-141.633,0,-159.715 0/1:419:211,208:211:7406:208:7332:-533.806,0,-540.461 0/1:305:156,149:156:5524:149:5246:-380.467,0,-405.474 0/1:449:219,230:219:7761:230:8170:-600.156,0,-563.365 0/1:250:116,134:116:4073:134:4738:-351.325,0,-291.5 0/1:238:118,120:118:4215:120:4247:-310.765,0,-307.886 0/1:234:105,129:105:3679:129:4550:-339.229,0,-260.876 0/1:251:165,86:165:5838:86:3025:-196.924,0,-449.979 0/0:304:295,9:295:10440:9:320:0,-62.3708,-910.387 0/0:158:157,0:157:5550:0:0:0,-47.2617,-499.361 chr07 2306901 . T A 21786.1 PASS AB=0.48267;ABP=5.0424;AC=30;AF=0.714286;AN=42;AO=1028;CIGAR=1X;DP=1543;DPB=1543;DPRA=0.657798;EPP=2166.34;EPPR=1036.15;GTI=1;LEN=1;MEANALT=1;MQM=59.9611;MQMR=59.6233;NS=21;NUMALT=1;ODDS=4.04807;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36161;QR=18126;RO=515;RPL=27;RPP=2006.92;RPPR=1027.81;RPR=1001;RUN=1;SAF=19;SAP=2073.3;SAR=1009;SRF=1;SRP=1112.65;SRR=514;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:1,39:1:36:39:1368:-119.817,-8.44293,0 1/1:49:0,49:0:0:49:1729:-155.893,-14.7505,0 1/1:86:2,84:2:72:84:2957:-259.525,-19.0519,0 1/1:70:0,70:0:0:70:2448:-220.486,-21.0721,0 0/1:123:76,47:76:2660:47:1646:-111.397,0,-202.606 1/1:67:0,67:0:0:67:2400:-216.254,-20.169,0 1/1:135:0,135:0:0:135:4753:-427.921,-40.6391,0 0/0:109:109,0:109:3826:0:0:0,-32.8123,-344.525 1/1:106:0,106:0:0:106:3708:-333.924,-31.9092,0 1/1:17:0,17:0:0:17:604:-54.6906,-5.11751,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8075 0/1:24:17,7:17:599:7:252:-15.8042,0,-47.0088 0/1:65:41,24:41:1442:24:822:-54.724,0,-110.5 0/1:50:16,34:16:572:34:1170:-90.5486,0,-36.7596 0/1:160:90,70:90:3193:70:2465:-173.937,0,-239.417 0/1:52:21,31:21:733:31:1112:-84.7378,0,-50.6343 0/1:38:24,14:24:852:14:504:-34.259,0,-65.5369 0/1:196:94,102:94:3294:102:3526:-258.549,0,-237.619 0/1:66:20,46:20:703:46:1635:-127.57,0,-43.7232 1/1:38:0,38:0:0:38:1343:-121.165,-11.4391,0 1/1:47:0,47:0:0:47:1683:-151.756,-14.1484,0 chr07 2306910 . T C 9394.05 PASS AB=0.508929;ABP=3.55317;AC=12;AF=0.285714;AN=42;AO=512;CIGAR=1X;DP=1546;DPB=1546;DPRA=1.20371;EPP=1029.64;EPPR=2179.36;GTI=1;LEN=1;MEANALT=1;MQM=59.625;MQMR=59.9632;NS=21;NUMALT=1;ODDS=3.64596;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18045;QR=36977;RO=1034;RPL=10;RPP=1029.64;RPPR=2179.36;RPR=502;RUN=1;SAF=0;SAP=1114.8;SAR=512;SRF=0;SRP=2248.31;SRR=1034;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1472:1:36:0,-9.04498,-129.178 0/0:50:50,0:50:1784:0:0:0,-15.0515,-160.843 0/0:87:85,2:85:3035:2:72:0,-19.3529,-266.543 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.723 0/1:125:49,76:49:1741:76:2685:-204.253,0,-119.344 0/0:64:64,0:64:2284:0:0:0,-19.2659,-205.817 0/0:131:131,0:131:4695:0:0:0,-39.4349,-422.701 1/1:110:0,110:0:0:110:3850:-346.686,-33.1133,0 0/0:107:107,0:107:3832:0:0:0,-32.2102,-345.077 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:25:8,17:8:288:17:608:-47.5216,0,-18.7417 0/1:63:24,39:24:860:39:1393:-106.7,0,-58.7569 0/1:52:36,16:36:1296:16:572:-36.1575,0,-101.29 0/1:161:73,88:73:2624:88:3123:-232.821,0,-187.941 0/1:50:29,21:29:1040:21:752:-52.9529,0,-78.8629 0/1:40:15,25:15:532:25:881:-67.5093,0,-36.1719 0/1:198:104,94:104:3727:94:3253:-233.345,0,-276.026 0/1:65:46,19:46:1614:19:676:-41.5987,0,-125.981 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.939 0/0:45:45,0:45:1589:0:0:0,-13.5463,-143.298 chr07 2306937 . GCTC ACTC,ACTT 32790.9 PASS AB=0.478149,0.521851;ABP=6.23681,6.23681;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1007,522;CIGAR=1X3M,1X2M1X;DP=1533;DPB=1533;DPRA=0.628319,1.21643;EPP=2181.01,1127.85;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.75,2;MQM=59.9603,59.6054;MQMR=0;NS=21;NUMALT=2;ODDS=6.05304;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36033,18521;QR=0;RO=0;RPL=1006,521;RPP=2181.01,1127.85;RPPR=0;RPR=1,1;RUN=1,1;SAF=0,0;SAP=2189.68,1136.52;SAR=1007,522;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,39,1:0:0:39,1:1388,36:-124.859,-11.7402,0,-121.922,-8.44293,-121.621 1/1:43:0,43,0:0:0:43,0:1527,0:-137.722,-12.9443,0,-137.722,-12.9443,-137.722 1/1:87:0,84,2:0:0:84,2:3004,72:-270.28,-25.2865,0,-264.405,-19.3118,-263.803 1/1:72:0,72,0:0:0:72,0:2584,0:-232.723,-21.6742,0,-232.723,-21.6742,-232.723 1/2:124:0,46,78:0:0:46,78:1652,2769:-360.722,-225.958,-212.111,-135.121,0,-111.641 1/1:65:0,64,0:0:0:64,0:2284,0:-205.46,-19.2659,0,-205.46,-19.2659,-205.46 1/1:132:0,132,0:0:0:132,0:4729,0:-425.758,-39.736,0,-425.758,-39.736,-425.758 2/2:113:0,0,113:0:0:0,113:0,3985:-358.833,-358.833,-358.833,-34.0164,-34.0164,0 1/1:105:0,103,0:0:0:103,0:3704,0:-333.201,-31.0061,0,-333.201,-31.0061,-333.201 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 1/2:6:0,1,5:0:0:1,5:36,172:-17.2522,-14.3121,-14.0111,-3.29724,0,-1.79209 1/2:25:0,8,17:0:0:8,17:288,603:-72.9789,-49.4779,-47.0697,-23.8592,0,-18.7417 1/2:66:0,24,42:0:0:24,42:860,1494:-192.248,-122.108,-114.883,-70.4971,0,-57.8539 1/2:52:0,35,17:0:0:35,17:1256,606:-152.203,-49.7512,-39.2152,-102.809,0,-97.6917 1/2:161:0,70,91:0:0:70,91:2493,3230:-466.714,-263.52,-242.447,-203.55,0,-176.156 1/2:48:0,29,19:0:0:29,19:1029,674:-139.103,-55.2659,-46.536,-84.1913,0,-78.4717 1/2:37:0,15,22:0:0:15,22:540,788:-108.627,-64.565,-60.0496,-44.4211,0,-37.7984 1/2:195:0,99,96:0:0:99,96:3545,3415:-567.693,-278.595,-248.793,-289.455,0,-260.556 1/2:64:0,45,19:0:0:45,19:1607,677:-186.553,-55.5362,-41.9899,-131.373,0,-125.653 1/1:36:0,36,0:0:0:36,0:1283,0:-115.768,-10.8371,0,-115.768,-10.8371,-115.768 1/1:44:0,44,0:0:0:44,0:1576,0:-142.132,-13.2453,0,-142.132,-13.2453,-142.132 chr07 2306949 . G T,C 33384.6 PASS AB=0.484694,0.515306;ABP=4.60567,4.60567;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1034,515;CIGAR=1X,1X;DP=1549;DPB=1549;DPRA=0.66713,1.18656;EPP=2248.31,1104.01;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.6,1.92308;MQM=59.9555,59.6233;MQMR=0;NS=21;NUMALT=2;ODDS=4.59282;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37057,18376;QR=0;RO=0;RPL=1034,513;RPP=2248.31,1104.01;RPPR=0;RPR=0,2;RUN=1,1;SAF=0,0;SAP=2248.31,1121.32;SAR=1034,515;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,40,1:0:0:40,1:1432,36:-128.818,-12.0412,0,-125.88,-8.74396,-125.579 1/1:45:0,45,0:0:0:45,0:1612,0:-145.37,-13.5464,0,-145.37,-13.5464,-145.37 1/1:87:0,85,2:0:0:85,2:3033,72:-272.839,-25.5876,0,-266.964,-19.3529,-266.362 1/1:73:0,73,0:0:0:73,0:2616,0:-235.602,-21.9752,0,-235.602,-21.9752,-235.602 1/2:126:0,48,78:0:0:48,78:1724,2780:-367.582,-226.944,-212.495,-140.996,0,-117.516 1/1:66:0,66,0:0:0:66,0:2361,0:-212.739,-19.868,0,-212.739,-19.868,-212.739 1/1:135:0,135,0:0:0:135,0:4848,0:-436.464,-40.6391,0,-436.464,-40.6391,-436.464 2/2:108:0,0,108:0:0:0,108:0,3860:-347.587,-347.587,-347.587,-32.5112,-32.5112,0 1/1:109:0,109,0:0:0:109,0:3916,0:-352.632,-32.8123,0,-352.632,-32.8123,-352.632 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 1/2:6:0,1,5:0:0:1,5:36,180:-17.9834,-15.046,-14.745,-3.29724,0,-1.79209 1/2:25:0,8,17:0:0:8,17:284,608:-73.0693,-49.9299,-47.5216,-23.4951,0,-18.3776 1/2:66:0,24,42:0:0:24,42:864,1496:-192.784,-122.284,-115.06,-70.8578,0,-58.2146 1/2:53:0,36,17:0:0:36,17:1292,612:-155.681,-50.2936,-39.4565,-105.747,0,-100.629 1/2:164:0,73,91:0:0:73,91:2605,3237:-476.512,-264.146,-242.17,-212.722,0,-185.329 1/2:47:0,28,19:0:0:28,19:1008,672:-137.337,-55.0854,-46.6566,-82.6075,0,-76.8879 1/2:37:0,15,22:0:0:15,22:540,773:-107.275,-63.2097,-58.6942,-44.4211,0,-37.7984 1/2:196:0,102,94:0:0:102,94:3664,3366:-573.678,-274.779,-244.074,-299.257,0,-270.961 1/2:64:0,45,19:0:0:45,19:1607,684:-187.182,-56.1684,-42.6221,-131.373,0,-125.653 1/1:38:0,38,0:0:0:38,0:1356,0:-122.336,-11.4391,0,-122.336,-11.4391,-122.336 1/1:45:0,45,0:0:0:45,0:1611,0:-145.279,-13.5464,0,-145.279,-13.5464,-145.279 chr07 2307864 . A G 26317.6 PASS AB=0.252518;ABP=742.473;AC=27;AF=0.642857;AN=42;AO=1134;CIGAR=1X;DP=2652;DPB=2652;DPRA=0.416901;EPP=3.63072;EPPR=3279.79;GTI=4;LEN=1;MEANALT=1.05;MQM=59.9074;MQMR=59.9572;NS=21;NUMALT=1;ODDS=4.04301;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39530;QR=54108;RO=1517;RPL=3;RPP=2439.47;RPPR=14.3486;RPR=1131;RUN=1;SAF=579;SAP=4.11327;SAR=555;SRF=716;SRP=13.3523;SRR=801;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:134:1,133:1:36:133:4562:-407.149,-36.7397,0 1/1:50:0,50:0:0:50:1726:-155.618,-15.0515,0 1/1:38:0,38:0:0:38:1319:-119.006,-11.4391,0 1/1:80:0,80:0:0:80:2771:-249.628,-24.0824,0 0/1:257:205,52:205:7318:52:1828:-86.4107,0,-581.293 1/1:72:2,70:2:72:70:2478:-216.437,-14.8374,0 1/1:80:2,78:2:72:78:2714:-237.664,-17.2457,0 0/0:284:284,0:284:10124:0:0:0,-85.4925,-911.089 1/1:110:0,110:0:0:110:3843:-346.068,-33.1133,0 0/1:6:3,3:3:108:3:93:-6.87055,0,-8.26899 0/1:11:8,3:8:288:3:108:-6.76384,0,-22.9561 0/0:50:47,3:47:1683:3:93:0,-6.37477,-143.08 0/1:217:186,31:186:6635:31:1086:-32.724,0,-531.733 0/1:143:100,43:100:3580:43:1500:-92.2136,0,-279.36 0/1:279:231,48:231:8249:48:1679:-67.4034,0,-658.432 0/1:148:129,19:129:4596:19:658:-14.9888,0,-369.252 0/0:145:135,10:135:4799:10:341:0,-12.6316,-401.028 0/1:155:90,64:90:3196:64:2219:-153.252,0,-241.144 0/1:174:86,88:86:3068:88:3085:-225.485,0,-223.97 1/1:95:2,93:2:72:93:3305:-290.832,-21.7611,0 1/1:124:6,118:6:212:118:4122:-351.746,-17.9029,0 chr07 2372691 . G C 42953 PASS AB=0.538462;ABP=16.0391;AC=30;AF=0.714286;AN=42;AO=1629;CIGAR=1X;DP=2216;DPB=2216;DPRA=0.948198;EPP=54.7431;EPPR=30.4168;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9883;MQMR=60;NS=21;NUMALT=1;ODDS=28.5804;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57192;QR=20773;RO=586;RPL=1629;RPP=3540.34;RPPR=1275.49;RPR=0;RUN=1;SAF=716;SAP=54.7431;SAR=913;SRF=250;SRP=30.4168;SRR=336;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88:0:0:88:3089:-278.237,-26.4906,0 1/1:108:0,108:0:0:108:3804:-342.558,-32.5112,0 1/1:45:0,45:0:0:45:1597:-144.018,-13.5464,0 1/1:129:0,129:0:0:129:4524:-407.325,-38.8329,0 0/1:177:82,95:82:2887:95:3353:-248.704,0,-206.784 1/1:121:0,121:0:0:121:4265:-384.031,-36.4246,0 1/1:183:0,183:0:0:183:6450:-580.593,-55.0885,0 0/0:111:111,0:111:3912:0:0:0,-33.4143,-352.274 1/1:167:1,166:1:36:166:5843:-522.383,-46.6737,0 1/1:24:0,24:0:0:24:803:-72.5752,-7.22472,0 0/1:15:8,7:8:279:7:252:-18.5135,0,-20.9321 0/1:33:21,12:21:756:12:432:-29.2872,0,-58.4332 0/1:114:51,63:51:1817:63:2206:-164.485,0,-129.492 0/1:114:64,50:64:2276:50:1753:-123.733,0,-170.785 0/1:163:80,82:80:2859:82:2853:-207.876,0,-208.421 0/1:63:29,34:29:1023:34:1184:-87.8963,0,-73.4168 0/1:57:27,30:27:964:30:1072:-79.6337,0,-69.9181 0/1:152:65,87:65:2302:87:3079:-231.584,0,-161.684 0/1:126:40,86:40:1410:86:2972:-229.778,0,-89.266 1/1:107:5,102:5:180:102:3570:-304.957,-15.6581,0 1/1:119:2,117:2:72:117:4091:-361.543,-28.9858,0 chr07 2375213 . C A 6294.69 PASS AB=0.44385;ABP=23.4941;AC=12;AF=0.285714;AN=42;AO=379;CIGAR=1X;DP=1664;DPB=1664;DPRA=0.831677;EPP=825.998;EPPR=2782.5;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9431;NS=21;NUMALT=1;ODDS=4.6719;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13571;QR=45813;RO=1284;RPL=0;RPP=825.998;RPPR=2782.5;RPR=379;RUN=1;SAF=0;SAP=825.998;SAR=379;SRF=0;SRP=2791.18;SRR=1284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:42,0:42:1492:0:0:0,-12.6433,-134.575 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.399 0/0:197:197,0:197:7034:0:0:0,-59.3029,-633.12 0/1:192:99,93:99:3556:93:3331:-242.209,0,-262.448 0/0:66:66,0:66:2341:0:0:0,-19.868,-210.948 0/0:143:143,0:143:5112:0:0:0,-43.0473,-459.321 1/1:47:0,47:0:0:47:1680:-151.487,-14.1484,0 0/0:169:169,0:169:6020:0:0:0,-50.8741,-541.904 0/0:9:9,0:9:315:0:0:0,-2.70927,-28.6872 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:27:15,12:15:536:12:432:-31.0934,0,-40.447 0/1:123:66,57:66:2363:57:2035:-146.395,0,-175.901 0/1:74:42,32:42:1508:32:1137:-80.3607,0,-113.738 0/1:106:73,33:73:2608:33:1184:-74.9591,0,-202.99 0/1:22:7,15:7:248:15:540:-42.3139,0,-16.0415 0/1:21:2,19:2:72:19:684:-55.5687,0,-0.515092 0/1:77:38,39:38:1334:39:1404:-103.48,0,-97.179 0/1:97:69,28:69:2456:28:1000:-61.1155,0,-192.095 0/0:108:108,0:108:3854:0:0:0,-32.5112,-347.055 0/0:75:74,0:74:2628:0:0:0,-22.2762,-236.409 chr07 2375248 . G T 27781.9 PASS AB=0.55483;ABP=23.0128;AC=30;AF=0.714286;AN=42;AO=1313;CIGAR=1X;DP=1703;DPB=1703;DPRA=1.72396;EPP=2854.15;EPPR=849.885;GTI=0;LEN=1;MEANALT=1;MQM=59.9452;MQMR=60;NS=21;NUMALT=1;ODDS=4.57933;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46895;QR=13984;RO=390;RPL=1313;RPP=2854.15;RPPR=849.885;RPR=0;RUN=1;SAF=0;SAP=2854.15;SAR=1313;SRF=0;SRP=849.885;SRR=390;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1540:-138.893,-12.9443,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:51:0,51:0:0:51:1820:-164.081,-15.3525,0 1/1:200:0,200:0:0:200:7146:-643.195,-60.206,0 0/1:198:97,101:97:3480:101:3606:-265.139,0,-253.807 1/1:69:0,69:0:0:69:2461:-221.743,-20.7711,0 1/1:146:0,146:0:0:146:5236:-470.775,-43.9504,0 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 1/1:171:0,171:0:0:171:6110:-549.996,-51.4761,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:27:12,15:12:432:15:521:-39.0885,0,-31.0934 0/1:127:58,69:58:2080:69:2449:-182.434,0,-149.239 0/1:77:33,44:33:1172:44:1580:-119.312,0,-82.6082 0/1:108:34,74:34:1224:74:2624:-203.872,0,-77.9558 0/1:22:15,7:15:540:7:252:-16.4063,0,-42.3139 0/1:22:19,3:19:680:3:108:-3.45251,0,-54.9065 0/1:79:41,38:41:1472:38:1360:-98.9192,0,-108.995 0/1:97:28,69:28:1000:69:2461:-192.543,0,-61.1155 1/1:112:0,112:0:0:112:3998:-360.007,-33.7154,0 1/1:80:1,79:1:36:79:2835:-251.789,-20.4841,0 chr07 2394475 . G A 3132.75 PASS AB=0.298507;ABP=215.653;AC=10;AF=0.238095;AN=42;AO=221;CIGAR=1X;DP=1215;DPB=1215;DPRA=1.40652;EPP=482.906;EPPR=2159.28;GTI=1;LEN=1;MEANALT=1.09091;MQM=59.9095;MQMR=59.8419;NS=21;NUMALT=1;ODDS=10.1623;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7883;QR=35529;RO=993;RPL=0;RPP=482.906;RPPR=2159.28;RPR=221;RUN=1;SAF=221;SAP=482.906;SAR=0;SRF=993;SRP=2159.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/1:87:42,45:42:1512:45:1604:-118.457,0,-110.184 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4383 0/0:52:52,0:52:1845:0:0:0,-15.6536,-166.283 1/1:38:0,38:0:0:38:1345:-121.319,-11.4391,0 0/0:51:51,0:51:1836:0:0:0,-15.3525,-165.52 0/0:132:132,0:132:4713:0:0:0,-39.736,-423.709 0/0:67:67,0:67:2392:0:0:0,-20.169,-215.493 0/0:76:74,2:74:2633:2:72:0,-16.0416,-230.379 0/1:40:19,20:19:684:20:720:-53.0668,0,-49.8282 0/1:42:18,24:18:648:24:845:-63.7238,0,-46.0086 0/1:50:23,27:23:824:27:957:-71.3924,0,-59.4318 0/1:18:10,8:10:360:8:288:-20.8489,0,-27.3258 0/1:40:24,16:24:849:16:576:-40.1338,0,-64.6857 0/1:290:258,32:258:9245:32:1152:-16.6914,0,-743.351 0/1:36:28,8:28:1004:8:288:-15.4303,0,-79.8388 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1882 0/0:21:20,1:20:716:1:36:0,-2.72335,-61.1694 chr07 2394501 . CGTCA CATCG,CATCA 28346.8 PASS AB=0.695222,0.298188;ABP=203.948,217.743;AC=32,10;AF=0.761905,0.238095;AN=42;AO=989,221;CIGAR=1M1X2M1X,1M1X3M;DP=1221;DPB=1221;DPRA=1.6,1.4781;EPP=1454.25,317.834;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.05,2.33333;MQM=59.8665,59.9095;MQMR=0;NS=21;NUMALT=2;ODDS=9.33797;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34609,7890;QR=0;RO=0;RPL=901,200;RPP=1454.25,317.834;RPPR=0;RPR=88,21;RUN=1,1;SAF=989,221;SAP=2150.6,482.906;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40,0:0:0:40,0:1424,0:-128.458,-12.0412,0,-128.458,-12.0412,-128.458 1/1:35:0,34,0:0:0:34,0:1183,0:-106.51,-10.235,0,-106.51,-10.235,-106.51 1/1:31:0,31,0:0:0:31,0:1088,0:-98.2293,-9.33193,0,-98.2293,-9.33193,-98.2293 1/1:20:0,20,0:0:0:20,0:700,0:-63.3227,-6.0206,0,-63.3227,-6.0206,-63.3227 1/2:87:0,41,45:0:0:41,45:1457,1582:-247.547,-128.818,-116.475,-118.781,0,-105.235 1/1:23:0,22,0:0:0:22,0:757,0:-68.0823,-6.62266,0,-68.0823,-6.62266,-68.0823 1/1:52:0,50,0:0:0:50,0:1753,0:-157.717,-15.0515,0,-157.717,-15.0515,-157.717 2/2:37:0,0,36:0:0:0,36:0,1284:-115.511,-115.511,-115.511,-10.8371,-10.8371,0 1/1:51:0,51,0:0:0:51,0:1781,0:-160.57,-15.3525,0,-160.57,-15.3525,-160.57 1/1:133:0,132,0:0:0:132,0:4610,0:-414.405,-39.736,0,-414.405,-39.736,-414.405 1/1:68:0,67,1:0:0:67,1:2315,36:-208.239,-20.169,0,-205.301,-16.8718,-205 1/1:77:0,75,2:0:0:75,2:2629,72:-236.497,-22.5773,0,-230.622,-16.3426,-230.02 1/2:39:0,19,20:0:0:19,20:662,720:-112.938,-59.1082,-53.3886,-54.1835,0,-48.1629 1/2:43:0,19,24:0:0:19,24:668,860:-124.868,-70.4971,-64.7775,-54.7257,0,-47.501 1/2:51:0,24,27:0:0:24,27:853,968:-148.819,-79.3096,-72.0848,-69.866,0,-61.7382 1/2:18:0,11,7:0:0:11,7:383,252:-52.0585,-20.9217,-17.6104,-31.492,0,-29.3848 1/2:39:0,24,15:0:0:24,15:833,540:-112.126,-44.4211,-37.1964,-68.0602,0,-63.5448 1/2:293:0,256,34:0:0:256,34:8981,1220:-829.401,-99.5561,-22.4925,-729.887,0,-719.652 1/2:37:0,28,9:0:0:28,9:962,320:-104.54,-26.4331,-18.0042,-78.459,0,-75.7498 1/1:26:0,25,0:0:0:25,0:876,0:-78.7961,-7.52575,0,-78.7961,-7.52575,-78.7961 1/1:21:0,20,1:0:0:20,1:694,36:-62.4217,-6.0206,0,-59.4837,-2.72336,-59.1827 chr07 2395569 . C T 26814.6 PASS AB=0.533409;ABP=11.5708;AC=30;AF=0.714286;AN=42;AO=1289;CIGAR=1X;DP=1822;DPB=1822;DPRA=0.728632;EPP=2802.04;EPPR=1160.41;GTI=0;LEN=1;MEANALT=1;MQM=59.9488;MQMR=59.9869;NS=21;NUMALT=1;ODDS=4.6409;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45974;QR=19061;RO=533;RPL=1289;RPP=2802.04;RPPR=1160.41;RPR=0;RUN=1;SAF=1289;SAP=2802.04;SAR=0;SRF=533;SRP=1160.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:4,93:4:144:93:3314:-285.164,-15.8863,0 1/1:57:0,57:0:0:57:2040:-183.872,-17.1587,0 1/1:121:0,121:0:0:121:4334:-390.223,-36.4246,0 1/1:62:0,62:0:0:62:2178:-196.276,-18.6639,0 0/1:145:64,81:64:2287:81:2897:-217.316,0,-162.442 1/1:77:0,77:0:0:77:2740:-246.841,-23.1793,0 1/1:100:0,100:0:0:100:3569:-321.377,-30.103,0 0/0:117:117,0:117:4148:0:0:0,-35.2205,-373.502 1/1:180:0,180:0:0:180:6390:-575.189,-54.1854,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:45:20,25:20:720:25:900:-67.7747,0,-51.5824 0/1:41:26,15:26:928:15:536:-36.2326,0,-71.496 0/1:83:36,47:36:1287:47:1667:-125.331,0,-91.1473 0/1:244:102,142:102:3651:142:5096:-385.331,0,-255.342 0/1:35:25,10:25:900:10:356:-21.8452,0,-70.785 0/1:49:26,23:26:932:23:828:-60.0936,0,-69.4422 0/1:100:59,41:59:2124:41:1468:-102.313,0,-161.325 0/1:130:52,78:52:1868:78:2769:-210.317,0,-129.265 1/1:69:0,69:0:0:69:2468:-222.374,-20.7711,0 1/1:40:0,40:0:0:40:1420:-128.097,-12.0412,0 chr07 2395631 . C T 36798 PASS AB=0.54334;ABP=18.4447;AC=30;AF=0.714286;AN=42;AO=1699;CIGAR=1X;DP=2192;DPB=2192;DPRA=1.90714;EPP=3546.16;EPPR=1026.22;GTI=0;LEN=1;MEANALT=1.1;MQM=53.7693;MQMR=59.6823;NS=21;NUMALT=1;ODDS=8.52657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60921;QR=17544;RO=491;RPL=17;RPP=3546.16;RPPR=1026.22;RPR=1682;RUN=1;SAF=0;SAP=3692.34;SAR=1699;SRF=0;SRP=1069.2;SRR=491;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:1,137:1:36:137:4917:-437.262,-37.9439,0 1/1:99:0,99:0:0:99:3556:-318.424,-29.802,0 1/1:90:0,90:0:0:90:3206:-288.161,-27.0927,0 1/1:180:0,180:0:0:180:6456:-579.679,-54.1854,0 0/1:195:81,112:81:2912:112:4015:-302.654,0,-203.927 1/1:123:1,122:1:36:122:4376:-386.896,-33.4284,0 1/1:204:0,204:0:0:204:7317:-654.346,-61.4101,0 0/0:56:56,0:56:1982:0:0:0,-16.8577,-178.624 1/1:176:1,175:1:36:175:6292:-562.024,-49.383,0 1/1:9:0,9:0:0:9:319:-28.8414,-2.70927,0 0/1:9:6,3:6:201:3:108:-7.15238,0,-15.7075 0/1:25:12,13:12:428:13:468:-34.8737,0,-31.3331 0/1:163:79,84:79:2832:84:3024:-222.45,0,-206.048 0/1:74:34,40:34:1211:40:1440:-106.577,0,-87.0193 0/1:189:89,100:89:3177:100:3592:-265.964,0,-229.232 0/1:100:44,56:44:1580:56:2012:-150.686,0,-112.19 0/1:68:36,32:36:1277:32:1146:-82.3952,0,-94.6479 0/1:48:25,23:25:900:23:828:-59.9558,0,-66.8716 0/1:75:24,51:24:864:51:1802:-139.29,0,-55.503 1/1:110:0,110:0:0:110:3943:-352.887,-33.1133,0 1/1:61:2,59:2:72:59:2104:-180.02,-11.5261,0 chr07 2422537 . GA AC,AA 52191.6 PASS AB=0.517613,0.481409;ABP=5.76395,6.07841;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1783,649;CIGAR=2X,1X1M;DP=2434;DPB=2434;DPRA=0.750658,0.83151;EPP=3874.75,1412.3;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.75,2.07143;MQM=59.7616,59.9414;MQMR=0;NS=21;NUMALT=2;ODDS=22.8498;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63034,23141;QR=0;RO=0;RPL=0,0;RPP=3874.75,1412.3;RPPR=0;RPR=1783,649;RUN=1,1;SAF=1783,649;SAP=3874.75,1412.3;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117,0:0:0:117,0:4144,0:-373.108,-35.2205,0,-373.108,-35.2205,-373.108 1/1:89:0,89,0:0:0:89,0:3116,0:-280.638,-26.7917,0,-280.638,-26.7917,-280.638 1/1:166:0,166,0:0:0:166,0:5889,0:-530.117,-49.971,0,-530.117,-49.971,-530.117 1/1:220:0,220,0:0:0:220,0:7732,0:-695.831,-66.2266,0,-695.831,-66.2266,-695.831 1/2:218:0,72,145:0:0:72,145:2540,5185:-629.711,-422.888,-401.214,-206.925,0,-163.275 1/1:135:0,132,2:0:0:132,2:4711,72:-423.698,-39.736,0,-417.823,-33.8611,-417.221 1/1:138:0,137,1:0:0:137,1:4823,32:-433.58,-41.2411,0,-431.002,-38.3428,-430.701 2/2:152:0,0,152:0:0:0,152:0,5424:-488.206,-488.206,-488.206,-45.7566,-45.7566,0 1/1:253:0,253,0:0:0:253,0:8985,0:-808.63,-76.1606,0,-808.63,-76.1606,-808.63 1/1:19:0,19,0:0:0:19,0:667,0:-60.3545,-5.71957,0,-60.3545,-5.71957,-60.3545 1/2:18:0,10,8:0:0:10,8:352,273:-51.1472,-22.4919,-19.4816,-29.0011,0,-26.5928 1/2:35:0,17,18:0:0:17,18:598,644:-101.548,-52.8721,-47.7545,-49.0307,0,-43.6122 1/2:141:0,85,56:0:0:85,56:3008,2000:-408.422,-163.416,-137.829,-245.362,0,-228.504 1/2:114:0,60,54:0:0:60,54:2094,1936:-328.562,-158.261,-140.199,-170.655,0,-154.399 1/2:166:0,99,67:0:0:99,67:3502,2378:-479.205,-193.976,-164.174,-285.583,0,-265.414 1/2:87:0,48,39:0:0:48,39:1703,1388:-252.228,-113.479,-99.0293,-139.105,0,-127.364 1/2:58:0,34,24:0:0:34,24:1183,860:-166.676,-70.4971,-60.2621,-96.5324,0,-89.3076 1/2:115:0,63,52:0:0:63,52:2247,1841:-333.465,-150.315,-131.35,-183.505,0,-167.851 1/2:70:0,41,29:0:0:41,29:1445,1036:-202.467,-84.824,-72.4818,-117.998,0,-109.268 1/1:73:0,71,2:0:0:71,2:2501,72:-224.486,-21.3731,0,-218.611,-15.1385,-218.009 1/1:50:0,50,0:0:0:50,0:1794,0:-161.737,-15.0515,0,-161.737,-15.0515,-161.737 chr07 2448465 . G A 5845.47 PASS AB=0.487078;ABP=3.73988;AC=12;AF=0.285714;AN=42;AO=328;CIGAR=1X;DP=1138;DPB=1138;DPRA=1.20757;EPP=715.253;EPPR=1761.9;GTI=1;LEN=1;MEANALT=1;MQM=59.9421;MQMR=60;NS=21;NUMALT=1;ODDS=0.214581;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11694;QR=28933;RO=810;RPL=0;RPP=715.253;RPPR=1761.9;RPR=328;RUN=1;SAF=328;SAP=715.253;SAR=0;SRF=810;SRP=1761.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:61:61,0:61:2180:0:0:0,-18.3628,-196.466 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:38:38,0:38:1349:0:0:0,-11.4391,-121.708 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.847 0/1:79:46,33:46:1648:33:1180:-82.7267,0,-124.827 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.499 0/0:86:86,0:86:3047:0:0:0,-25.8886,-274.456 1/1:82:0,82:0:0:82:2914:-262.493,-24.6845,0 0/0:117:116,1:116:4160:1:36:0,-31.6222,-370.984 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/1:10:1,9:1:36:9:324:-26.4956,0,-0.587975 0/1:21:13,8:13:464:8:273:-18.5786,0,-35.7759 0/1:65:44,21:44:1576:21:752:-48.4393,0,-122.565 0/1:55:25,30:25:896:30:1070:-80.0557,0,-64.4037 0/1:110:42,68:42:1504:68:2421:-185.031,0,-102.541 0/1:28:10,18:10:360:18:644:-49.8618,0,-24.3155 0/1:49:27,22:27:964:22:788:-56.388,0,-72.3264 0/1:52:25,27:25:884:27:968:-71.7838,0,-64.2248 0/1:34:25,9:25:884:9:324:-19.2708,0,-69.6433 0/0:52:52,0:52:1849:0:0:0,-15.6536,-166.688 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 chr07 2449006 . T C 3247.49 PASS AB=0.389205;ABP=40.5422;AC=11;AF=0.261905;AN=42;AO=195;CIGAR=1X;DP=766;DPB=766;DPRA=1.26685;EPP=426.447;EPPR=1240.75;GTI=0;LEN=1;MEANALT=1;MQM=53.9744;MQMR=54.0474;NS=21;NUMALT=1;ODDS=1.96388;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6950;QR=20173;RO=570;RPL=0;RPP=426.447;RPPR=1223.44;RPR=195;RUN=1;SAF=0;SAP=426.447;SAR=195;SRF=2;SRP=1223.44;SRR=568;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.0317 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.8636 0/0:106:105,0:105:3721:0:0:0,-31.6081,-334.062 0/0:38:38,0:38:1340:0:0:0,-11.4391,-120.196 0/1:46:25,21:25:892:21:743:-53.3001,0,-66.6726 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.4452 0/0:41:41,0:41:1430:0:0:0,-12.3422,-127.662 1/1:58:0,58:0:0:58:2056:-184.857,-17.4597,0 0/0:55:55,0:55:1939:0:0:0,-16.5566,-174.462 0/0:19:19,0:19:668:0:0:0,-5.71957,-60.2895 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5213 0/1:23:11,12:11:388:12:432:-32.1159,0,-28.2287 0/1:56:32,24:32:1131:24:856:-60.2925,0,-85.0428 0/1:50:40,10:40:1408:10:360:-17.5,0,-111.61 0/1:58:37,21:37:1311:21:756:-50.8445,0,-100.513 0/1:10:8,2:8:284:2:72:-3.7112,0,-22.8191 0/1:13:7,6:7:252:6:216:-15.8323,0,-19.0829 0/1:73:39,34:39:1380:34:1211:-87.006,0,-102.311 0/1:23:16,7:16:567:7:248:-15.6403,0,-44.284 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2369 0/0:28:28,0:28:986:0:0:0,-8.42884,-88.2381 chr07 2449058 . ATTTTGC ATTTGC 11486.1 PASS AB=0.612069;ABP=40.9736;AC=31;AF=0.738095;AN=42;AO=569;CIGAR=1M1D5M;DP=764;DPB=682.714;DPRA=0.608621;EPP=1238.58;EPPR=424.276;GTI=1;LEN=1;MEANALT=1.05;MQM=54.0264;MQMR=54.0876;NS=21;NUMALT=1;ODDS=2.77937;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19860;QR=6832;RO=194;RPL=569;RPP=1238.58;RPPR=424.276;RPR=0;RUN=1;SAF=0;SAP=1238.58;SAR=569;SRF=0;SRP=424.276;SRR=194;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:27:0,27:0:0:27:948:-85.5228,-8.12781,0 1/1:10:1,9:1:28:9:320:-26.3104,-0.218867,0 1/1:107:0,107:0:0:107:3690:-331.664,-32.2102,0 1/1:39:0,39:0:0:39:1376:-123.708,-11.7402,0 0/1:47:21,26:21:744:26:886:-65.8252,0,-53.0922 1/1:19:0,19:0:0:19:657:-59.38,-5.71957,0 1/1:42:0,42:0:0:42:1488:-133.718,-12.6433,0 0/0:58:58,0:58:2051:0:0:0,-17.4597,-184.361 1/1:53:0,53:0:0:53:1884:-169.51,-15.9546,0 1/1:18:0,18:0:0:18:621:-56.0213,-5.41854,0 1/1:6:0,6:0:0:6:212:-19.3959,-1.80618,0 0/1:21:12,9:12:428:9:320:-22.7165,0,-32.3584 0/1:53:23,30:23:787:30:1053:-78.9314,0,-55.079 0/1:49:10,39:10:355:39:1351:-106.728,0,-17.3499 0/1:59:22,37:22:778:37:1308:-99.9456,0,-52.5222 0/1:9:1,8:1:35:8:284:-23.0575,0,-0.78641 0/1:13:5,8:5:175:8:269:-20.5928,0,-12.1666 0/1:72:34,38:34:1202:38:1329:-97.9841,0,-86.6185 0/1:25:7,18:7:249:18:616:-48.0808,0,-15.1293 1/1:8:0,8:0:0:8:265:-24.1536,-2.40824,0 1/1:29:0,28:0:0:28:983:-87.4104,-8.42884,0 chr07 2458717 . ATCTG ATCTTG,ATTTTG 74879.3 PASS AB=0.602087,0.389432;ABP=141.782,165.794;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2755,713;CIGAR=3M1I2M,1M1I1M1X2M;DP=3491;DPB=4188.6;DPRA=0,1.32801;EPP=5924.77,1525.32;EPPR=0;GTI=1;LEN=1,6;MEANALT=2.80952,3.125;MQM=59.9895,59.7896;MQMR=0;NS=21;NUMALT=2;ODDS=23.461;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=97937,25153;QR=0;RO=0;RPL=7,3;RPP=5924.77,1525.32;RPPR=0;RPR=2748,710;RUN=1,1;SAF=2755,713;SAP=5985.42,1551.27;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:0,128,1:0:0:128,1:4534,36:-407.911,-38.5318,0,-404.973,-35.5545,-404.672 1/1:200:0,197,0:0:0:197,0:6999,0:-629.657,-59.3029,0,-629.657,-59.3029,-629.657 1/1:183:0,183,0:0:0:183,0:6538,0:-588.503,-55.0885,0,-588.503,-55.0885,-588.503 1/1:303:0,302,1:0:0:302,1:10745,36:-966.604,-90.9111,0,-963.667,-87.6138,-963.366 1/2:363:0,242,116:0:0:242,116:8598,4140:-1038.1,-337.527,-264.677,-700.596,0,-665.677 1/1:168:0,165,2:0:0:165,2:5863,72:-527.437,-49.67,0,-521.562,-43.7685,-520.96 1/1:308:0,305,1:0:0:305,1:10793,36:-970.916,-91.8142,0,-968.014,-88.9137,-967.713 2/2:113:0,1,110:0:0:1,110:36,3848:-346.144,-343.207,-342.906,-33.1133,-30.1759,0 1/1:271:0,270,1:0:0:270,1:9603,36:-863.87,-81.2781,0,-860.933,-77.9809,-860.632 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:5:0,3,2:0:0:3,2:93,70:-13.485,-6.04527,-5.14218,-7.77364,0,-7.17158 1/2:45:0,30,14:0:0:30,14:1072,504:-128.527,-41.1242,-32.0933,-87.4022,0,-83.1878 1/2:165:0,106,56:0:0:106,56:3748,1963:-465.081,-159.82,-127.911,-305.346,0,-288.488 1/2:161:0,82,78:0:0:82,78:2928,2743:-462.087,-223.37,-198.685,-238.819,0,-215.339 1/2:219:0,117,102:0:0:117,102:4139,3584:-629.171,-292.049,-256.828,-337.475,0,-306.77 1/2:146:0,86,59:0:0:86,59:3063,2074:-418.466,-168.808,-142.92,-249.651,0,-231.89 1/2:231:0,141,90:0:0:141,90:5007,3179:-666.952,-258.972,-216.526,-408.334,0,-381.242 1/2:111:0,65,44:0:0:65,44:2301,1554:-313.788,-126.355,-106.789,-187.515,0,-174.27 1/2:87:0,51,36:0:0:51,36:1832,1278:-253.938,-104.486,-89.1335,-149.808,0,-138.971 1/1:166:0,165,0:0:0:165,0:5898,0:-530.57,-49.67,0,-530.57,-49.67,-530.57 1/1:107:0,107,0:0:0:107,0:3827,0:-344.626,-32.2102,0,-344.626,-32.2102,-344.626 chr07 2494253 . G A 5398.97 PASS AB=0.392491;ABP=91.2551;AC=12;AF=0.285714;AN=42;AO=434;CIGAR=1X;DP=1946;DPB=1946;DPRA=1.10826;EPP=945.429;EPPR=3286.28;GTI=1;LEN=1;MEANALT=1;MQM=34.0069;MQMR=59.381;NS=21;NUMALT=1;ODDS=13.4659;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15510;QR=54047;RO=1512;RPL=434;RPP=945.429;RPPR=3286.28;RPR=0;RUN=1;SAF=434;SAP=945.429;SAR=0;SRF=1512;SRP=3286.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:95:93,2:93:3307:2:72:0,-22.1657,-291.101 0/0:97:97,0:97:3476:0:0:0,-29.1999,-312.726 0/0:127:127,0:127:4544:0:0:0,-38.2308,-409.049 0/0:84:84,0:84:3004:0:0:0,-25.2865,-270.546 0/1:118:69,49:69:2464:49:1756:-105.011,0,-186.446 0/0:193:191,2:191:6856:2:72:0,-52.0423,-610.993 0/0:96:96,0:96:3431:0:0:0,-28.8989,-308.676 1/1:81:1,80:1:36:80:2868:-225.689,-20.7852,0 0/0:156:156,0:156:5584:0:0:0,-46.9607,-501.245 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8573 0/1:5:4,1:4:140:1:36:-1.68247,0,-11.4394 0/1:27:11,16:11:387:16:568:-37.7303,0,-27.0274 0/1:136:79,57:79:2836:57:2044:-122.543,0,-214.491 0/1:127:79,48:79:2836:48:1716:-98.9469,0,-217.199 0/1:194:122,72:122:4349:72:2572:-147.571,0,-333.155 0/1:59:34,25:34:1216:25:870:-52.275,0,-91.9658 0/1:81:57,24:57:2052:24:856:-44.4264,0,-160.514 0/1:59:27,32:27:964:32:1152:-74.1572,0,-69.219 0/1:73:52,21:52:1834:21:752:-38.1301,0,-143.314 0/0:93:88,5:88:3147:5:176:0,-13.5167,-268.952 0/0:33:33,0:33:1156:0:0:0,-9.93399,-104.335 chr07 2502378 . T C 48153.3 PASS AB=0.473632;ABP=9.07962;AC=31;AF=0.738095;AN=42;AO=2213;CIGAR=1X;DP=2933;DPB=2933;DPRA=0.734225;EPP=4722.01;EPPR=1512.62;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9878;MQMR=59.9777;NS=21;NUMALT=1;ODDS=5.8084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78788;QR=25742;RO=719;RPL=2203;RPP=4722.01;RPPR=1512.62;RPR=10;RUN=1;SAF=0;SAP=4808.48;SAR=2213;SRF=0;SRP=1564.3;SRR=719;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:252:1,251:1:36:251:8935:-800.518,-72.2613,0 1/1:141:0,141:0:0:141:5028:-452.666,-42.4452,0 1/1:80:0,80:0:0:80:2868:-258.357,-24.0824,0 1/1:192:0,192:0:0:192:6829:-614.681,-57.7978,0 1/1:308:0,308:0:0:308:10944:-984.862,-92.7172,0 1/1:105:0,105:0:0:105:3722:-335.181,-31.6082,0 1/1:176:2,174:2:72:174:6213:-552.43,-46.1446,0 0/0:187:187,0:187:6696:0:0:0,-56.2926,-602.716 1/1:264:0,264:0:0:264:9360:-842.365,-79.4719,0 1/1:19:1,18:1:36:18:640:-54.331,-2.1213,0 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:54:23,31:23:828:31:1116:-84.4961,0,-58.5885 0/1:231:117,113:117:4196:113:4022:-292.57,0,-308.224 0/1:159:97,62:97:3461:62:2216:-151.841,0,-263.838 0/1:122:52,70:52:1864:70:2478:-186.545,0,-131.314 0/1:118:61,57:61:2192:57:2040:-148.35,0,-161.968 0/1:150:103,47:103:3688:47:1679:-106.243,0,-286.968 0/1:80:43,37:43:1521:37:1328:-95.7398,0,-113.099 0/1:82:29,53:29:1044:53:1880:-144.794,0,-69.5903 1/1:126:0,126:0:0:126:4483:-403.64,-37.9298,0 1/1:78:0,78:0:0:78:2791:-251.43,-23.4803,0 chr07 2502396 . G A 13104.7 PASS AB=0.514314;ABP=4.81307;AC=11;AF=0.261905;AN=42;AO=710;CIGAR=1X;DP=2989;DPB=2989;DPRA=0.909326;EPP=1544.76;EPPR=4949.62;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9746;MQMR=59.9881;NS=21;NUMALT=1;ODDS=3.02328;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25375;QR=81515;RO=2278;RPL=710;RPP=1544.76;RPPR=4949.62;RPR=0;RUN=1;SAF=0;SAP=1544.76;SAR=710;SRF=0;SRP=4949.62;SRR=2278;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:263:262,1:262:9368:1:36:0,-75.5726,-839.47 0/0:149:149,0:149:5336:0:0:0,-44.8535,-480.373 0/0:84:84,0:84:3001:0:0:0,-25.2865,-270.32 0/0:195:195,0:195:6992:0:0:0,-58.7008,-629.328 0/0:320:320,0:320:11438:0:0:0,-96.3296,-1029.3 0/0:105:105,0:105:3764:0:0:0,-31.6081,-338.959 0/0:176:174,2:174:6216:2:72:0,-46.1446,-552.701 1/1:186:0,186:0:0:186:6607:-594.711,-55.9916,0 0/0:272:272,0:272:9727:0:0:0,-81.8802,-875.379 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:55:32,23:32:1152:23:828:-58.2875,0,-87.4335 0/1:227:113,114:113:4060:114:4081:-299.14,0,-297.252 0/1:160:64,95:64:2284:95:3408:-258.859,0,-157.746 0/1:123:72,51:72:2588:51:1820:-127.055,0,-196.142 0/1:120:58,62:58:2076:62:2224:-164.245,0,-150.987 0/1:154:50,104:50:1792:104:3715:-288.193,0,-115.204 0/1:81:41,40:41:1463:40:1436:-105.154,0,-107.582 0/1:84:55,29:55:1959:29:1040:-68.6278,0,-151.298 0/0:129:129,0:129:4617:0:0:0,-38.8329,-415.692 0/0:78:78,0:78:2786:0:0:0,-23.4803,-250.98 chr07 2502419 . A C 7472.67 PASS AB=0.448611;ABP=19.5256;AC=11;AF=0.261905;AN=42;AO=430;CIGAR=1X;DP=1830;DPB=1830;DPRA=1.24491;EPP=936.743;EPPR=3043.07;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9971;NS=21;NUMALT=1;ODDS=25.9203;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15370;QR=49974;RO=1400;RPL=0;RPP=936.743;RPPR=3043.07;RPR=430;RUN=1;SAF=430;SAP=936.743;SAR=0;SRF=1400;SRP=3043.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:116,0:116:4145:0:0:0,-34.9195,-373.232 0/0:65:65,0:65:2320:0:0:0,-19.5669,-209.061 0/0:131:131,0:131:4627:0:0:0,-39.4349,-416.594 0/0:66:66,0:66:2338:0:0:0,-19.868,-210.676 0/0:201:198,3:198:7070:3:108:0,-50.4319,-626.284 0/0:65:65,0:65:2320:0:0:0,-19.5669,-209.061 0/0:119:117,2:117:4177:2:72:0,-28.9858,-369.275 1/1:102:0,102:0:0:102:3652:-328.884,-30.7051,0 0/0:109:109,0:109:3897:0:0:0,-32.8123,-350.922 0/0:24:24,0:24:849:0:0:0,-7.22472,-76.7278 0/1:15:5,10:5:180:10:352:-27.5027,0,-12.0366 0/1:38:21,17:21:752:17:608:-43.6129,0,-56.5671 0/1:84:36,48:36:1296:48:1712:-129.079,0,-91.6574 0/1:82:38,44:38:1353:44:1575:-117.357,0,-97.3839 0/1:103:63,40:63:2249:40:1428:-97.8114,0,-171.665 0/1:74:44,30:44:1580:30:1063:-73.7046,0,-120.215 0/1:111:66,45:66:2372:45:1608:-111.596,0,-180.323 0/1:133:74,59:74:2660:59:2116:-150.672,0,-199.608 0/1:80:50,30:50:1792:30:1076:-73.0705,0,-137.48 0/0:74:74,0:74:2629:0:0:0,-22.2762,-236.856 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 chr07 2505236 . A T 43321.3 PASS AB=0.507752;ABP=3.54896;AC=31;AF=0.738095;AN=42;AO=2035;CIGAR=1X;DP=2629;DPB=2629;DPRA=0;EPP=4421.96;EPPR=1288.52;GTI=0;LEN=1;MEANALT=1.09524;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.33526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72328;QR=20789;RO=592;RPL=2034;RPP=4413.28;RPPR=1288.52;RPR=1;RUN=1;SAF=2034;SAP=4413.28;SAR=1;SRF=592;SRP=1288.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:165:0,165:0:0:165:5895:-530.661,-49.67,0 1/1:134:0,134:0:0:134:4751:-427.75,-40.338,0 1/1:81:0,81:0:0:81:2876:-259.076,-24.3834,0 1/1:161:1,160:1:36:160:5691:-508.711,-44.8676,0 1/1:278:2,275:2:72:275:9774:-872.774,-76.9084,0 1/1:123:0,123:0:0:123:4377:-394.106,-37.0267,0 1/1:198:0,198:0:0:198:7021:-631.957,-59.6039,0 0/0:81:80,1:80:2812:1:36:0,-20.7852,-249.722 1/1:173:2,171:2:68:171:6085:-541.297,-45.6205,0 1/1:17:0,17:0:0:17:578:-52.3374,-5.11751,0 0/1:7:5,2:5:159:2:72:-4.72951,0,-12.5171 0/1:53:29,24:29:1017:24:847:-60.5941,0,-75.8852 0/1:159:95,64:95:3363:64:2285:-158.046,0,-255.025 0/1:183:84,99:84:2922:99:3498:-259.942,0,-208.128 0/1:184:90,94:90:3187:94:3328:-244.349,0,-231.666 0/1:111:53,57:53:1884:57:2048:-151.118,0,-136.366 0/1:177:86,91:86:2989:91:3249:-239.348,0,-215.961 0/1:79:38,41:38:1338:41:1472:-108.995,0,-96.9371 0/1:79:27,52:27:942:52:1835:-141.647,0,-61.311 1/1:117:0,117:0:0:117:4167:-375.214,-35.2205,0 1/1:69:0,69:0:0:69:2443:-220.123,-20.7711,0 chr07 2506003 . T C 10128.8 PASS AB=0.572304;ABP=40.0637;AC=11;AF=0.261905;AN=42;AO=560;CIGAR=1X;DP=2152;DPB=2152;DPRA=1.54312;EPP=1219.03;EPPR=3459.99;GTI=0;LEN=1;MEANALT=1;MQM=55.2036;MQMR=59.6533;NS=21;NUMALT=1;ODDS=6.2108;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20044;QR=57071;RO=1592;RPL=0;RPP=1219.03;RPPR=3459.99;RPR=560;RUN=1;SAF=560;SAP=1219.03;SAR=0;SRF=1592;SRP=3459.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:160:158,2:158:5664:2:72:0,-41.333,-502.396 0/0:97:97,0:97:3492:0:0:0,-29.1999,-314.447 0/0:133:133,0:133:4772:0:0:0,-40.037,-429.628 0/0:76:76,0:76:2717:0:0:0,-22.8783,-244.767 0/0:140:139,1:139:4976:1:36:0,-38.5611,-444.253 0/0:97:97,0:97:3492:0:0:0,-29.1999,-314.436 0/0:171:170,1:170:6100:1:36:0,-47.8896,-545.323 1/1:85:0,85:0:0:85:3047:-273.823,-25.5876,0 0/0:278:277,1:277:9920:1:36:0,-80.0891,-889.103 0/0:9:9,0:9:309:0:0:0,-2.70927,-28.1407 0/1:6:1,5:1:36:5:180:-14.6916,0,-1.79209 0/1:35:11,24:11:396:24:845:-65.4369,0,-25.4467 0/1:89:29,60:29:1040:60:2154:-167.085,0,-67.1181 0/1:139:67,72:67:2412:72:2573:-189.682,0,-175.472 0/1:262:111,151:111:3984:151:5400:-406.511,0,-279.684 0/1:104:45,59:45:1612:59:2120:-159.43,0,-114.062 0/1:115:46,69:46:1637:69:2465:-187.293,0,-112.939 0/1:36:17,19:17:608:19:684:-50.8399,0,-44.214 0/1:30:22,8:22:784:8:288:-17.1268,0,-61.853 0/0:59:56,3:56:2008:3:108:0,-7.69989,-170.848 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.381 chr07 2506169 . TTAT CTGT,TTGT 42089.8 PASS AB=0.462304,0.524893;ABP=11.6869,6.79416;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1544,418;CIGAR=1X1M1X1M,2M1X1M;DP=1984;DPB=1984;DPRA=2.25698,1.08507;EPP=3347.08,910.686;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.55,2.84615;MQM=58.6477,59.9234;MQMR=0;NS=21;NUMALT=2;ODDS=2.76408;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54234,14918;QR=0;RO=0;RPL=1,0;RPP=3347.08,910.686;RPPR=0;RPR=1543,418;RUN=1,1;SAF=0,0;SAP=3355.76,910.686;SAR=1544,418;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:197:0,195,1:0:0:195,1:6854,36:-616.356,-58.7009,0,-613.419,-55.7185,-613.118 1/1:125:0,124,0:0:0:124,0:4367,0:-392.337,-37.3277,0,-392.337,-37.3277,-392.337 1/1:58:0,55,0:0:0:55,0:1923,0:-172.688,-16.5567,0,-172.688,-16.5567,-172.688 1/1:145:0,141,0:0:0:141,0:4962,0:-446.217,-42.4452,0,-446.217,-42.4452,-446.217 1/1:230:0,225,2:0:0:225,2:7907,72:-710.846,-67.7318,0,-704.971,-61.8561,-704.369 1/1:78:0,78,0:0:0:78,0:2736,0:-246.21,-23.4803,0,-246.21,-23.4803,-246.21 1/1:124:0,123,0:0:0:123,0:4296,0:-385.964,-37.0267,0,-385.964,-37.0267,-385.964 2/2:43:0,0,43:0:0:0,43:0,1524:-137.45,-137.45,-137.45,-12.9443,-12.9443,0 1/1:140:0,140,0:0:0:140,0:4880,0:-439.28,-42.1442,0,-439.28,-42.1442,-439.28 1/1:10:0,10,0:0:0:10,0:355,0:-32.2904,-3.0103,0,-32.2904,-3.0103,-32.2904 1/2:4:0,3,1:0:0:3,1:103,36:-11.6459,-3.29724,-2.39415,-8.70434,0,-8.40331 1/2:35:0,20,15:0:0:20,15:704,536:-101.229,-44.0594,-38.0388,-57.5244,0,-53.0089 1/2:135:0,55,79:0:0:55,79:1922,2812:-385.61,-229.321,-212.764,-156.427,0,-132.646 1/2:98:0,53,43:0:0:53,43:1849,1546:-276.518,-126.229,-110.275,-150.382,0,-137.437 1/2:156:0,59,95:0:0:59,95:2091,3382:-445.769,-275.663,-257.903,-170.141,0,-141.543 1/2:95:0,34,59:0:0:34,59:1190,2102:-268.168,-171.369,-161.134,-96.8321,0,-79.0713 1/2:132:0,68,63:0:0:68,63:2421,2260:-381.558,-184.338,-163.868,-197.218,0,-178.253 1/2:22:0,13,9:0:0:13,9:458,324:-64.0282,-26.7903,-22.877,-37.5944,0,-34.8851 1/2:26:0,20,5:0:0:20,5:718,180:-73.2552,-14.6871,-8.66649,-58.568,0,-57.0628 1/1:93:0,90,3:0:0:90,3:3175,108:-285.025,-27.0927,0,-276.212,-17.9206,-275.309 1/1:38:0,38,0:0:0:38,0:1323,0:-119.165,-11.4391,0,-119.165,-11.4391,-119.165 chr07 2593707 . C T 243.674 PASS AB=0.403846;ABP=7.18621;AC=2;AF=0.047619;AN=42;AO=22;CIGAR=1X;DP=718;DPB=718;DPRA=1.10891;EPP=42.4916;EPPR=302.836;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9885;NS=21;NUMALT=1;ODDS=8.72436;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=772;QR=24806;RO=696;RPL=0;RPP=50.7827;RPPR=1514.36;RPR=22;RUN=1;SAF=21;SAP=42.4916;SAR=1;SRF=503;SRP=302.836;SRR=193;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1604:0:0:0,-13.5463,-144.65 0/0:26:26,0:26:924:0:0:0,-7.82678,-83.4777 0/0:15:15,0:15:528:0:0:0,-4.51545,-47.8514 0/0:25:25,0:25:888:0:0:0,-7.52575,-80.2367 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.851 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:25:25,0:25:884:0:0:0,-7.52575,-79.8784 0/0:30:30,0:30:1067:0:0:0,-9.0309,-96.3412 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.772 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.054 0/0:60:59,1:59:2108:1:36:0,-14.4635,-186.391 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/0:102:102,0:102:3615:0:0:0,-30.7051,-325.556 0/0:92:92,0:92:3288:0:0:0,-27.6948,-296.14 0/1:14:9,5:9:316:5:172:-11.6036,0,-24.5644 0/1:38:22,16:22:780:16:564:-39.6512,0,-59.0839 chr07 2608326 . T G,A 42934.6 PASS AB=0.504323,0.492795;ABP=3.12294,3.32319;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1126,480;CIGAR=1X,1X;DP=1610;DPB=1610;DPRA=0.569231,1.84012;EPP=366.252,34.9309;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.65,1.92857;MQM=59.9574,59.9604;MQMR=60;NS=21;NUMALT=2;ODDS=4.96176;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39811,17144;QR=144;RO=4;RPL=780,282;RPP=366.252,34.9309;RPPR=5.18177;RPR=346,198;RUN=1,1;SAF=0,0;SAP=2448.09,1045.32;SAR=1126,480;SRF=0;SRP=11.6962;SRR=4;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,72,2:0:0:72,2:2545,72:-228.941,-21.6742,0,-223.066,-15.4395,-222.464 1/1:24:0,24,0:0:0:24,0:841,0:-76.0064,-7.22472,0,-76.0064,-7.22472,-76.0064 1/1:113:0,113,0:0:0:113,0:4022,0:-362.168,-34.0164,0,-362.168,-34.0164,-362.168 1/1:60:0,60,0:0:0:60,0:2137,0:-192.598,-18.0618,0,-192.598,-18.0618,-192.598 1/1:105:0,104,1:0:0:104,1:3703,36:-333.113,-31.3071,0,-330.176,-28.0099,-329.875 1/1:36:0,36,0:0:0:36,0:1284,0:-115.863,-10.8371,0,-115.863,-10.8371,-115.863 1/1:60:1,59,0:1:36:59,0:2077,0:-183.594,-14.4635,0,-183.895,-17.7608,-186.832 2/2:130:0,0,130:0:0:0,130:0,4651:-418.752,-418.752,-418.752,-39.1339,-39.1339,0 1/1:180:0,178,2:0:0:178,2:6277,72:-564.664,-53.5833,0,-558.789,-47.3487,-558.187 1/1:9:0,9,0:0:0:9,0:316,0:-28.7789,-2.70927,0,-28.7789,-2.70927,-28.7789 1/2:6:0,5,1:0:0:5,1:176,36:-17.6186,-3.29724,-1.79209,-14.6799,0,-14.3788 1/2:30:0,12,18:0:0:12,18:428,644:-87.7331,-52.8436,-49.2312,-35.2464,0,-29.8279 1/2:129:1,58,70:1:36:58,70:2046,2504:-367.537,-201.242,-186.72,-163.654,0,-145.519 1/2:122:0,55,67:0:0:55,67:1963,2398:-355.937,-195.908,-179.351,-160.387,0,-140.218 1/2:130:0,55,75:0:0:55,75:1921,2667:-373.953,-217.699,-201.142,-156.606,0,-134.029 1/2:42:0,24,18:0:0:24,18:826,644:-119.949,-52.8721,-45.6473,-67.4289,0,-62.0103 1/2:61:0,30,31:0:0:30,31:1042,1091:-173.874,-89.1668,-80.1359,-85.0567,0,-75.7248 1/2:99:1,57,41:1:36:57,41:2004,1465:-279.318,-116.505,-102.284,-160.171,0,-150.766 1/2:75:0,54,21:0:0:54,21:1925,756:-218.956,-62.0456,-45.79,-157.269,0,-150.947 1/1:83:1,79,3:1:36:79,3:2794,108:-248.103,-20.844,0,-239.591,-14.9691,-241.626 1/1:42:0,42,0:0:0:42,0:1484,0:-133.852,-12.6433,0,-133.852,-12.6433,-133.852 chr07 2635426 . A T 8156.8 PASS AB=0.459973;ABP=13.2666;AC=11;AF=0.261905;AN=42;AO=463;CIGAR=1X;DP=2074;DPB=2074;DPRA=0.920548;EPP=1008.4;EPPR=3434.2;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.7495;MQMR=59.9534;NS=21;NUMALT=1;ODDS=2.74115;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16554;QR=57645;RO=1608;RPL=0;RPP=1008.4;RPPR=3434.2;RPR=463;RUN=1;SAF=463;SAP=1008.4;SAR=0;SRF=1608;SRP=3494.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:67,0:67:2408:0:0:0,-20.169,-216.962 0/0:39:39,0:39:1381:0:0:0,-11.7402,-124.587 0/0:104:102,2:102:3656:2:72:0,-24.4704,-322.407 0/0:170:170,0:170:6096:0:0:0,-51.1751,-548.74 0/0:191:189,2:189:6765:2:72:0,-50.66,-602.085 0/0:67:66,1:66:2368:1:36:0,-16.5707,-209.78 0/0:182:182,0:182:6532:0:0:0,-54.7875,-587.691 1/1:118:0,118:0:0:118:4237:-381.176,-35.5215,0 0/0:207:207,0:207:7436:0:0:0,-62.3132,-669.281 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:6:4,2:4:144:2:72:-5.01335,0,-11.5074 0/1:35:18,17:18:648:17:599:-43.6966,0,-48.1158 0/1:227:124,103:124:4426:103:3708:-265.579,0,-330.175 0/1:120:59,61:59:2116:61:2170:-159.431,0,-154.585 0/1:137:69,65:69:2461:65:2319:-168.272,0,-181.045 0/1:36:15,21:15:536:21:729:-55.0916,0,-37.7377 0/1:61:34,27:34:1220:27:964:-68.7131,0,-91.744 0/1:45:21,24:21:756:24:864:-64.527,0,-54.8209 0/1:70:51,19:51:1828:19:676:-40.0959,0,-143.729 0/0:127:126,1:126:4532:1:36:0,-34.6325,-403.085 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.353 chr07 2636221 . TGAT CGAT,CGAC 68422 PASS AB=0.606411,0.388246;ABP=113.461,124.831;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2336,520;CIGAR=1X3M,1X2M1X;DP=2875;DPB=2875.25;DPRA=0,0.797383;EPP=5075.57,1132.18;EPPR=11.6962;GTI=1;LEN=1,4;MEANALT=2.33333,2.42857;MQM=47.2753,35.3673;MQMR=50.25;NS=21;NUMALT=2;ODDS=19.3224;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,32;PQR=0;PRO=0;QA=79918,17824;QR=127;RO=4;RPL=1129,345;RPP=8.6658,123.694;RPPR=5.18177;RPR=1207,175;RUN=1,1;SAF=1129,345;SAP=8.6658,123.694;SAR=1207,175;SRF=3;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,157,0:0:0:157,0:5346,0:-465.481,-47.2617,0,-465.481,-47.2617,-465.481 1/1:105:0,104,1:0:0:104,1:3627,34:-314.209,-31.3071,0,-311.451,-28.2092,-311.15 1/1:162:1,160,0:1:36:160,0:5458,0:-467.565,-45.1774,0,-467.866,-48.1648,-470.775 1/1:219:2,215,1:2:66:215,1:7248,35:-619.909,-59.3689,0,-618.766,-62.995,-623.773 1/1:270:0,266,0:0:0:266,0:9055,0:-778.041,-80.074,0,-778.041,-80.074,-778.041 1/1:99:0,98,0:0:0:98,0:3344,0:-286.192,-29.5009,0,-286.192,-29.5009,-286.192 1/1:169:0,168,0:0:0:168,0:5768,0:-489.086,-50.573,0,-489.086,-50.573,-489.086 2/2:77:0,1,76:0:0:1,76:35,2598:-182.704,-180.125,-179.824,-22.8783,-19.9803,0 1/1:224:0,224,0:0:0:224,0:7656,0:-664.961,-67.4307,0,-664.961,-67.4307,-664.961 1/1:25:0,25,0:0:0:25,0:825,0:-72.655,-7.52575,0,-72.655,-7.52575,-72.655 1/2:5:0,3,2:0:0:3,2:106,72:-13.0985,-4.98122,-4.07813,-8.42684,0,-7.82478 1/2:38:0,24,14:0:0:24,14:842,468:-98.6343,-31.8495,-24.6248,-67.0903,0,-62.8758 1/2:175:0,115,60:0:0:115,60:3986,2059:-445.987,-132.086,-97.4678,-313.88,0,-295.818 1/2:105:1,52,52:1:25:52,52:1778,1772:-233.155,-95.3439,-81.637,-136.2,0,-122.492 1/2:187:0,105,82:0:0:105,82:3563,2808:-433.659,-158.365,-126.757,-275.575,0,-250.891 1/2:119:0,67,51:0:0:67,51:2300,1803:-295.268,-116.566,-96.3975,-178.794,0,-163.442 1/2:120:0,69,48:0:0:69,48:2387,1608:-288.41,-101.527,-80.7558,-186.868,0,-172.418 1/2:189:0,106,82:0:0:106,82:3613,2786:-435.176,-161.63,-129.721,-273.604,0,-248.92 1/2:185:0,140,45:0:0:140,45:4847,1582:-478.252,-98.765,-56.6208,-379.777,0,-366.231 1/1:144:0,142,2:0:0:142,2:4929,70:-429.248,-42.7463,0,-424.656,-37.8647,-424.054 1/1:99:0,95,4:0:0:95,4:3205,129:-272.529,-28.5979,0,-262.729,-18.4923,-261.525 chr07 2636278 . C T 7193.14 PASS AB=0.453901;ABP=16.0237;AC=11;AF=0.261905;AN=42;AO=419;CIGAR=1X;DP=1885;DPB=1885;DPRA=0.778378;EPP=912.857;EPPR=3179.87;GTI=1;LEN=1;MEANALT=1;MQM=59.969;MQMR=59.9952;NS=21;NUMALT=1;ODDS=10.2309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14818;QR=52123;RO=1463;RPL=419;RPP=912.857;RPPR=3179.87;RPR=0;RUN=1;SAF=0;SAP=912.857;SAR=419;SRF=0;SRP=3179.87;SRR=1463;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:102,0:102:3652:0:0:0,-30.7051,-328.524 0/0:113:111,0:111:3988:0:0:0,-33.4143,-358.768 0/0:87:87,0:87:3101:0:0:0,-26.1896,-279.316 0/0:120:120,0:120:4288:0:0:0,-36.1236,-386.098 0/0:134:134,0:134:4735:0:0:0,-40.338,-426.31 0/0:123:123,0:123:4351:0:0:0,-37.0267,-391.765 0/0:90:90,0:90:3198:0:0:0,-27.0927,-288.041 1/1:96:0,96:0:0:96:3372:-303.694,-28.8989,0 0/0:137:137,0:137:4901:0:0:0,-41.2411,-441.24 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:10:9,1:9:320:1:36:-0.587975,0,-26.1321 0/1:34:17,17:17:585:17:593:-43.4597,0,-42.7369 0/1:156:79,77:79:2805:77:2752:-200.933,0,-205.729 0/1:72:29,43:29:1021:43:1464:-110.375,0,-70.5261 0/1:106:55,51:55:1960:51:1832:-133.252,0,-144.766 0/1:65:36,29:36:1277:29:1029:-73.3542,0,-95.6642 0/1:69:42,27:42:1500:27:956:-65.5847,0,-114.524 0/1:74:31,43:31:1089:43:1528:-115.537,0,-76.0411 0/1:119:87,32:87:3124:32:1148:-67.8073,0,-245.563 0/0:94:92,2:92:3284:2:72:0,-21.4601,-288.943 0/0:65:64,1:64:2296:1:36:0,-15.9687,-203.303 chr07 2665356 . T C 55063.5 PASS AB=0.552217;ABP=19.5651;AC=33;AF=0.785714;AN=42;AO=2520;CIGAR=1X;DP=2940;DPB=2940;DPRA=1.91;EPP=5475.12;EPPR=912.857;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9841;MQMR=60;NS=21;NUMALT=1;ODDS=1.34223;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90094;QR=14956;RO=419;RPL=2520;RPP=5475.12;RPPR=912.857;RPR=0;RUN=1;SAF=0;SAP=5475.12;SAR=2520;SRF=0;SRP=912.857;SRR=419;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:1,104:1:36:104:3736:-332.841,-28.0099,0 1/1:125:0,125:0:0:125:4488:-404.088,-37.6288,0 1/1:62:0,61:0:0:61:2184:-196.614,-18.3628,0 1/1:135:3,132:3:108:132:4725:-415.332,-30.5639,0 1/1:163:2,161:2:72:161:5735:-509.428,-42.2312,0 1/1:80:0,80:0:0:80:2876:-259.076,-24.0824,0 1/1:218:4,214:4:144:214:7639:-674.232,-52.3109,0 0/0:75:75,0:75:2669:0:0:0,-22.5772,-240.454 1/1:161:1,160:1:36:160:5695:-509.068,-44.8676,0 1/1:500:1,499:1:36:499:17810:-1598.9,-146.917,0 1/1:390:6,384:6:212:384:13730:-1216.05,-97.9769,0 1/1:100:9,91:9:324:91:3260:-264.115,-0.597146,0 0/1:113:76,37:76:2724:37:1317:-84.8134,0,-211.387 0/1:114:69,45:69:2472:45:1616:-111.413,0,-188.416 0/1:106:41,65:41:1476:65:2328:-177.871,0,-101.227 0/1:70:38,32:38:1341:32:1144:-82.1974,0,-99.9159 0/1:33:28,5:28:1004:5:180:-6.61808,0,-80.7419 0/1:209:31,178:31:1097:178:6404:-513.529,0,-36.1227 0/1:54:30,24:30:1076:24:856:-61.1055,0,-80.8972 1/1:83:2,81:2:72:81:2882:-252.741,-18.1488,0 1/1:44:2,42:2:57:42:1489:-128.861,-7.83201,0 chr07 2665603 . A C 29167.8 PASS AB=0.55625;ABP=20.5992;AC=30;AF=0.714286;AN=42;AO=1386;CIGAR=1X;DP=1743;DPB=1743;DPRA=2.12875;EPP=2969.4;EPPR=758.78;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8449;MQMR=59.4747;NS=21;NUMALT=1;ODDS=0.751782;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49429;QR=12780;RO=356;RPL=1381;RPP=2969.4;RPPR=758.78;RPR=5;RUN=1;SAF=1386;SAP=3012.67;SAR=0;SRF=356;SRP=776.054;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:2,99:2:72:99:3540:-311.916,-23.5673,0 1/1:87:0,87:0:0:87:3113:-280.392,-26.1896,0 1/1:57:1,56:1:36:56:1989:-175.674,-13.5604,0 1/1:92:6,86:6:212:86:3024:-252.994,-8.30509,0 1/1:169:2,167:2:72:167:5925:-526.689,-44.2033,0 1/1:71:2,69:2:68:69:2450:-214.29,-14.9168,0 1/1:154:6,148:6:212:148:5287:-455.608,-26.9535,0 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.898 1/1:186:7,179:7:252:179:6411:-554.051,-32.966,0 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.4695 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:103:42,61:42:1512:61:2179:-165.369,0,-105.34 0/1:103:54,49:54:1940:49:1756:-127.318,0,-143.852 0/1:132:50,82:50:1792:82:2924:-223.659,0,-121.824 0/1:63:25,37:25:896:37:1328:-100.763,0,-61.9367 0/1:69:34,35:34:1220:35:1247:-91.763,0,-89.3357 0/1:73:31,42:31:1116:42:1503:-113.587,0,-78.7552 0/1:66:31,35:31:1112:35:1260:-93.8375,0,-80.5234 1/1:81:5,76:5:180:76:2709:-227.55,-7.88799,0 1/1:65:2,63:2:72:63:2244:-195.403,-12.7497,0 chr07 2674292 . AAAAA GAAGG,GAAGA 19265.6 PASS AB=0.423295,0.568182;ABP=20.999,17.2236;AC=31,11;AF=0.738095,0.261905;AN=42;AO=674,256;CIGAR=1X2M2X,1X2M1X1M;DP=940;DPB=940;DPRA=0.82037,0.831328;EPP=1466.58,558.907;EPPR=0;GTI=0;LEN=5,5;MEANALT=2,2.18182;MQM=59.6469,54.5703;MQMR=0;NS=21;NUMALT=2;ODDS=5.97079;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23281,8879;QR=0;RO=0;RPL=0,0;RPP=1466.58,558.907;RPPR=0;RPR=674,256;RUN=1,1;SAF=0,0;SAP=1466.58,558.907;SAR=674,256;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,31,0:0:0:31,0:1063,0:-95.9307,-9.33193,0,-95.9307,-9.33193,-95.9307 1/1:12:0,12,0:0:0:12,0:422,0:-38.3156,-3.61236,0,-38.3156,-3.61236,-38.3156 1/1:72:0,69,0:0:0:69,0:2354,0:-211.8,-20.7711,0,-211.8,-20.7711,-211.8 1/1:34:0,34,0:0:0:34,0:1177,0:-106.174,-10.235,0,-106.174,-10.235,-106.174 1/1:77:0,77,0:0:0:77,0:2645,0:-238.281,-23.1793,0,-238.281,-23.1793,-238.281 1/1:54:0,54,0:0:0:54,0:1892,0:-170.547,-16.2556,0,-170.547,-16.2556,-170.547 1/1:49:0,46,0:0:0:46,0:1589,0:-142.986,-13.8474,0,-142.986,-13.8474,-142.986 2/2:54:0,0,54:0:0:0,54:0,1858:-166.894,-166.894,-166.894,-16.2556,-16.2556,0 1/1:91:0,91,0:0:0:91,0:3169,0:-285.44,-27.3937,0,-285.44,-27.3937,-285.44 1/1:10:0,10,0:0:0:10,0:344,0:-31.2539,-3.0103,0,-31.2539,-3.0103,-31.2539 1/2:4:0,2,2:0:0:2,2:59,72:-10.9026,-6.22762,-5.62556,-5.0022,0,-4.40014 1/2:14:0,8,6:0:0:8,6:274,205:-39.172,-16.9284,-14.5202,-22.5849,0,-20.7787 1/2:52:0,21,31:0:0:21,31:723,1069:-145.837,-87.1156,-80.794,-59.0659,0,-49.734 1/2:47:0,20,25:0:0:20,25:656,834:-120.466,-67.4684,-61.4478,-53.0176,0,-45.4919 1/2:93:0,34,59:0:0:34,59:1195,2072:-266.003,-168.74,-158.505,-97.6144,0,-79.8537 1/2:23:0,9,13:0:0:9,13:308,449:-61.5513,-36.578,-33.8687,-25.0633,0,-21.15 1/2:21:0,4,17:0:0:4,17:144,599:-60.7153,-48.964,-47.7599,-12.1095,0,-6.99199 1/2:63:0,30,33:0:0:30,33:1025,1161:-177.591,-94.4109,-85.38,-83.5256,0,-73.5916 1/2:35:0,21,14:0:0:21,14:734,488:-99.6686,-39.9719,-33.6503,-60.0452,0,-55.8308 1/1:61:0,60,0:0:0:60,0:2093,0:-188.272,-18.0618,0,-188.272,-18.0618,-188.272 1/1:43:0,41,2:0:0:41,2:1415,72:-127.285,-12.3422,0,-121.409,-6.10757,-120.807 chr07 2674325 . ACT AT 4476.37 PASS AB=0.566092;ABP=16.2139;AC=11;AF=0.261905;AN=42;AO=251;CIGAR=1M1D1M;DP=943;DPB=859.333;DPRA=0.817375;EPP=548.05;EPPR=1505.67;GTI=0;LEN=1;MEANALT=1;MQM=54.3944;MQMR=59.6633;NS=21;NUMALT=1;ODDS=7.74846;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8882;QR=24522;RO=692;RPL=251;RPP=548.05;RPPR=1505.67;RPR=0;RUN=1;SAF=0;SAP=548.05;SAR=251;SRF=0;SRP=1505.67;SRR=692;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:31,0:31:1103:0:0:0,-9.33193,-99.5351 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.859 0/0:74:74,0:74:2610:0:0:0,-22.2762,-235.108 0/0:34:34,0:34:1218:0:0:0,-10.235,-109.854 0/0:77:77,0:77:2708:0:0:0,-23.1793,-243.942 0/0:54:54,0:54:1942:0:0:0,-16.2556,-175.04 0/0:51:51,0:51:1787:0:0:0,-15.3525,-161.091 1/1:54:0,54:0:0:54:1889:-169.512,-16.2556,0 0/0:91:91,0:91:3258:0:0:0,-27.3937,-293.441 0/0:10:10,0:10:358:0:0:0,-3.0103,-32.4753 0/1:4:2,2:2:67:2:72:-5.62556,0,-5.15872 0/1:13:8,5:8:288:5:176:-12.2239,0,-22.354 0/1:52:21,31:21:736:31:1096:-83.2148,0,-50.9078 0/1:48:22,26:22:758:26:928:-69.2794,0,-54.0877 0/1:92:34,58:34:1220:58:2041:-156.012,0,-82.3838 0/1:21:8,13:8:288:13:464:-34.9139,0,-19.9458 0/1:20:4,16:4:142:16:572:-45.5853,0,-7.10861 0/1:63:31,32:31:1082:32:1148:-83.9203,0,-78.7217 0/1:35:21,14:21:731:14:496:-34.3601,0,-55.5576 0/0:63:63,0:63:2232:0:0:0,-18.9649,-201.134 0/0:44:44,0:44:1566:0:0:0,-13.2453,-141.222 chr07 2726818 . C T 26720.5 PASS AB=0.536627;ABP=9.85025;AC=31;AF=0.738095;AN=42;AO=1243;CIGAR=1X;DP=1548;DPB=1548;DPRA=2.53;EPP=2702.15;EPPR=663.138;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9799;MQMR=60;NS=21;NUMALT=1;ODDS=7.87716;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44406;QR=10829;RO=304;RPL=0;RPP=2702.15;RPPR=663.138;RPR=1243;RUN=1;SAF=1243;SAP=2702.15;SAR=0;SRF=304;SRP=663.138;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,47:0:0:47:1688:-152.207,-14.1484,0 1/1:100:0,100:0:0:100:3567:-321.236,-30.103,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 1/1:175:0,175:0:0:175:6269:-564.261,-52.6803,0 1/1:169:0,169:0:0:169:6016:-541.548,-50.8741,0 1/1:72:0,72:0:0:72:2580:-232.449,-21.6742,0 1/1:90:1,89:1:36:89:3175:-282.376,-23.4944,0 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 1/1:77:0,77:0:0:77:2744:-247.203,-23.1793,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:9:1,8:1:36:8:284:-23.1941,0,-0.889005 0/1:26:11,15:11:396:15:523:-39.5717,0,-28.156 0/1:108:52,55:52:1849:55:1961:-144.341,0,-134.265 0/1:39:25,14:25:880:14:489:-32.5987,0,-67.7775 0/1:81:36,45:36:1273:45:1612:-120.987,0,-90.4875 0/1:86:45,41:45:1599:41:1476:-107.248,0,-118.311 0/1:50:30,20:30:1076:20:720:-50.0773,0,-82.1014 0/1:89:34,55:34:1224:55:1968:-150.603,0,-83.6754 0/1:99:37,62:37:1316:62:2220:-170.262,0,-88.9398 1/1:113:2,111:2:72:111:3954:-349.213,-27.1797,0 1/1:53:0,53:0:0:53:1900:-171.278,-15.9546,0 chr07 2726873 . GGCCGA GGCGGT,AGCGGT 41608.5 PASS AB=0.510968,0.482581;ABP=3.82005,5.05288;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1571,480;CIGAR=3M1X1M1X,1X2M1X1M1X;DP=2078;DPB=2078;DPRA=0,0.805389;EPP=3414.39,1045.32;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.61905,2.75;MQM=56.4647,41.5812;MQMR=0;NS=21;NUMALT=2;ODDS=16.5819;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53810,16490;QR=0;RO=0;RPL=0,0;RPP=3414.39,1045.32;RPPR=0;RPR=1571,480;RUN=1,1;SAF=0,0;SAP=3414.39,1045.32;SAR=1571,480;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:144:0,139,1:0:0:139,1:4676,36:-420.238,-41.8432,0,-417.37,-38.9635,-417.069 1/1:52:0,49,2:0:0:49,2:1679,68:-150.767,-14.7505,0,-145.528,-9.43399,-144.926 1/1:103:0,97,0:0:0:97,0:3376,0:-303.355,-29.1999,0,-303.355,-29.1999,-303.355 1/1:51:0,51,0:0:0:51,0:1773,0:-159.808,-15.3525,0,-159.808,-15.3525,-159.808 1/1:197:0,194,0:0:0:194,0:6691,0:-601.414,-58.3998,0,-601.414,-58.3998,-601.414 1/1:65:0,65,0:0:0:65,0:2250,0:-202.035,-19.567,0,-202.035,-19.567,-202.035 1/1:186:0,182,0:0:0:182,0:6212,0:-557.879,-54.7875,0,-557.879,-54.7875,-557.879 2/2:105:0,2,103:0:0:2,103:72,3533:-305.936,-300.066,-299.463,-31.0061,-24.7764,0 1/1:205:0,203,0:0:0:203,0:7002,0:-629.784,-61.1091,0,-629.784,-61.1091,-629.784 1/1:20:0,20,0:0:0:20,0:654,0:-58.8229,-6.0206,0,-58.8229,-6.0206,-58.8229 1/2:12:0,3,9:0:0:3,9:101,323:-33.0581,-25.0107,-24.1077,-8.38055,0,-5.67128 1/2:23:0,13,10:0:0:13,10:460,342:-64.6958,-27.2425,-23.3291,-37.7948,0,-34.7845 1/2:111:0,70,41:0:0:70,41:2444,1409:-310.357,-111.765,-90.693,-198.933,0,-186.591 1/2:132:0,78,52:0:0:78,52:2637,1762:-351.394,-138.448,-114.967,-213.027,0,-197.373 1/2:212:0,89,123:0:0:89,123:3070,4269:-585.151,-335.924,-309.132,-249.568,0,-212.542 1/2:57:0,34,23:0:0:34,23:1105,781:-151.99,-62.8173,-52.5823,-89.5037,0,-82.58 1/2:69:0,27,42:0:0:27,42:932,1449:-191.746,-116.025,-107.897,-76.0636,0,-63.4204 1/2:120:0,58,59:0:0:58,59:1972,2008:-316.301,-156.544,-139.084,-159.83,0,-142.069 1/2:39:0,24,15:0:0:24,15:787,510:-104.413,-40.8986,-33.6739,-63.8459,0,-59.3304 1/1:128:0,126,0:0:0:126,0:4297,0:-385.93,-37.9298,0,-385.93,-37.9298,-385.93 1/1:47:0,47,0:0:0:47,0:1620,0:-145.906,-14.1484,0,-145.906,-14.1484,-145.906 chr07 2859488 . C G 30263.5 PASS AB=0.48895;ABP=3.77811;AC=32;AF=0.761905;AN=42;AO=1515;CIGAR=1X;DP=2002;DPB=2002;DPRA=0.835841;EPP=3292.79;EPPR=1056.17;GTI=0;LEN=1;MEANALT=1.1;MQM=40.6337;MQMR=54.8619;NS=21;NUMALT=1;ODDS=11.7747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53620;QR=17280;RO=485;RPL=0;RPP=3292.79;RPPR=1056.17;RPR=1515;RUN=1;SAF=0;SAP=3292.79;SAR=1515;SRF=0;SRP=1056.17;SRR=485;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:1,161:1:32:161:5710:-495.669,-45.5686,0 1/1:100:0,99:0:0:99:3479:-292.756,-29.802,0 1/1:94:0,94:0:0:94:3342:-291,-28.2968,0 1/1:73:0,73:0:0:73:2558:-221.79,-21.9752,0 1/1:248:0,248:0:0:248:8759:-766.066,-74.6554,0 1/1:91:0,90:0:0:90:3209:-268.084,-27.0927,0 1/1:84:1,83:1:36:83:2964:-246.349,-21.6973,0 0/0:113:113,0:113:4024:0:0:0,-34.0164,-360.932 1/1:149:0,149:0:0:149:5260:-459.52,-44.8535,0 1/1:16:0,16:0:0:16:576:-50.0901,-4.81648,0 1/1:10:0,10:0:0:10:351:-30.1713,-3.0103,0 0/1:31:13,18:13:468:18:640:-45.6281,0,-33.0639 0/1:120:57,63:57:2044:63:2226:-158.271,0,-147.807 0/1:100:48,52:48:1695:52:1844:-129.974,0,-122.379 0/1:166:95,71:95:3403:71:2535:-171.35,0,-255.13 0/1:90:49,41:49:1735:41:1446:-100.236,0,-129.3 0/1:92:54,38:54:1915:38:1333:-90.6344,0,-144.713 0/1:65:35,30:35:1252:30:1056:-71.1441,0,-93.006 0/1:60:19,41:19:676:41:1450:-108.361,0,-42.9793 1/1:90:0,90:0:0:90:3183:-272.457,-27.0927,0 1/1:48:0,48:0:0:48:1699:-142.458,-14.4494,0 chr07 2870296 . A G 20057.1 PASS AB=0.47541;ABP=5.57335;AC=32;AF=0.761905;AN=42;AO=943;CIGAR=1X;DP=1247;DPB=1247;DPRA=1.4;EPP=2042.03;EPPR=663.138;GTI=0;LEN=1;MEANALT=1;MQM=59.895;MQMR=59.9507;NS=21;NUMALT=1;ODDS=6.9926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33612;QR=10536;RO=304;RPL=1;RPP=2042.03;RPPR=663.138;RPR=942;RUN=1;SAF=943;SAP=2050.71;SAR=0;SRF=304;SRP=663.138;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59:0:0:59:2101:-189.358,-17.7608,0 1/1:48:0,48:0:0:48:1686:-152.022,-14.4494,0 1/1:81:0,81:0:0:81:2897:-260.963,-24.3834,0 1/1:48:0,48:0:0:48:1713:-154.454,-14.4494,0 1/1:128:2,126:2:72:126:4467:-395.362,-31.6951,0 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 1/1:94:1,93:1:36:93:3339:-297.128,-24.6985,0 0/0:43:43,0:43:1424:0:0:0,-12.9443,-128.437 1/1:76:0,76:0:0:76:2724:-245.358,-22.8783,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:21:8,13:8:273:13:449:-34.4057,0,-18.5786 0/1:54:35,19:35:1221:19:672:-44.5287,0,-93.9331 0/1:83:41,42:41:1388:42:1488:-109.098,0,-100.191 0/1:73:44,29:44:1537:29:1044:-72.2996,0,-116.642 0/1:36:17,19:17:567:19:669:-49.6969,0,-40.5044 0/1:37:22,15:22:777:15:540:-37.7984,0,-59.1123 0/1:100:54,46:54:1936:46:1648:-118.506,0,-144.412 0/1:84:35,49:35:1233:49:1722:-129.974,0,-85.9856 1/1:52:1,51:1:36:51:1821:-160.571,-12.0553,0 1/1:62:1,61:1:36:61:2188:-193.57,-15.0656,0 chr07 3380414 . A T 15499.5 PASS AB=0.526746;ABP=11.3735;AC=10;AF=0.238095;AN=42;AO=854;CIGAR=1X;DP=3331;DPB=3331;DPRA=1.09367;EPP=1857.45;EPPR=5381.75;GTI=0;LEN=1;MEANALT=1;MQM=59.9438;MQMR=59.9996;NS=21;NUMALT=1;ODDS=2.98857;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30553;QR=88368;RO=2477;RPL=0;RPP=1857.45;RPPR=5329.76;RPR=854;RUN=1;SAF=0;SAP=1857.45;SAR=854;SRF=6;SRP=5329.76;SRR=2471;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:161:161,0:161:5776:0:0:0,-48.4658,-519.953 0/0:175:174,1:174:6222:1:36:0,-49.082,-556.475 0/0:97:97,0:97:3459:0:0:0,-29.1999,-311.523 0/0:155:154,1:154:5481:1:36:0,-43.0614,-489.821 0/1:186:91,95:91:3239:95:3399:-250.11,0,-235.738 0/1:210:99,111:99:3534:111:3984:-295.522,0,-255.052 0/1:267:119,148:119:4220:148:5300:-396.752,0,-299.604 1/1:143:0,143:0:0:143:5132:-462.02,-43.0473,0 0/1:335:152,183:152:5435:183:6512:-485.318,0,-388.434 0/1:24:11,13:11:383:13:459:-34.4194,0,-27.5785 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/1:175:81,94:81:2884:94:3363:-250.206,0,-207.117 0/0:143:143,0:143:5110:0:0:0,-43.0473,-460.042 0/0:411:411,0:411:14674:0:0:0,-123.723,-1320.4 0/0:231:231,0:231:8260:0:0:0,-69.5379,-743.412 0/0:216:216,0:216:7687:0:0:0,-65.0225,-691.868 0/1:79:37,42:37:1301:42:1512:-112.585,0,-93.6079 0/1:70:47,23:47:1671:23:820:-53.0504,0,-129.604 0/0:139:139,0:139:4967:0:0:0,-41.8432,-447.179 0/0:62:62,0:62:2197:0:0:0,-18.6639,-197.994 chr07 3802692 . G A 17017.3 PASS AB=0.55177;ABP=37.8597;AC=10;AF=0.238095;AN=42;AO=963;CIGAR=1X;DP=3428;DPB=3428;DPRA=1.41508;EPP=2094.14;EPPR=5355.69;GTI=1;LEN=1;MEANALT=1;MQM=53.8307;MQMR=59.757;NS=21;NUMALT=1;ODDS=0.780416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34231;QR=85254;RO=2465;RPL=0;RPP=2094.14;RPPR=5355.69;RPR=963;RUN=1;SAF=0;SAP=2094.14;SAR=963;SRF=0;SRP=5355.69;SRR=2465;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:162:162,0:162:5673:0:0:0,-48.7669,-510.6 0/0:221:220,1:220:7609:1:36:0,-62.9384,-681.185 0/0:149:149,0:149:5160:0:0:0,-44.8535,-464.541 0/0:264:264,0:264:9062:0:0:0,-79.4719,-815.573 0/1:379:184,195:184:6332:195:6881:-503.427,0,-455.882 0/1:272:113,159:113:3903:159:5665:-423.762,0,-269.574 0/1:232:109,123:109:3727:123:4403:-324.877,0,-265.781 1/1:127:0,127:0:0:127:4511:-405.117,-38.2308,0 0/1:279:117,162:117:4076:162:5787:-435.979,0,-282.987 0/1:18:7,11:7:248:11:392:-30.0236,0,-17.241 0/0:13:13,0:13:452:0:0:0,-3.91339,-41.0078 0/0:60:60,0:60:2093:0:0:0,-18.0618,-188.614 0/1:159:52,107:52:1800:107:3796:-293.29,0,-114.412 0/0:133:132,1:132:4577:1:36:0,-36.4413,-408.497 0/0:195:194,1:194:6724:1:36:0,-55.1052,-600.995 0/0:208:208,0:208:7256:0:0:0,-62.6142,-652.728 0/0:226:223,3:223:7693:3:108:0,-57.9604,-681.743 0/1:76:33,43:33:1116:43:1517:-113.18,0,-77.8534 0/1:82:56,26:56:1922:26:919:-58.1543,0,-148.562 0/0:134:130,4:130:4499:4:144:0,-27.0433,-391.139 0/0:39:39,0:39:1332:0:0:0,-11.7402,-120.166 chr07 3802724 . GTT ATT,ATG 78216.9 PASS AB=0.45443,0.543658;ABP=31.3114,28.9863;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2619,991;CIGAR=1X2M,1X1M1X;DP=3618;DPB=3618;DPRA=1.33092,1.08684;EPP=5681.41,2137.6;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.95,2.28571;MQM=59.7071,53.8012;MQMR=0;NS=21;NUMALT=2;ODDS=1.94273;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=93614,35208;QR=0;RO=0;RPL=2618,989;RPP=5681.41,2137.6;RPPR=0;RPR=1,2;RUN=1,1;SAF=0,0;SAP=5690.1,2154.94;SAR=2619,991;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:178:0,178,0:0:0:178,0:6357,0:-572.111,-53.5833,0,-572.111,-53.5833,-572.111 1/1:237:0,235,0:0:0:235,0:8365,0:-752.412,-70.7421,0,-752.412,-70.7421,-752.412 1/1:158:0,158,0:0:0:158,0:5665,0:-509.95,-47.5627,0,-509.95,-47.5627,-509.95 1/1:277:0,277,0:0:0:277,0:9929,0:-893.27,-83.3853,0,-893.27,-83.3853,-893.27 1/2:402:0,200,202:0:0:200,202:7154,7167:-1164.79,-581.555,-521.349,-583.589,0,-522.781 1/2:283:0,117,165:0:0:117,165:4181,5851:-813.747,-472.908,-437.688,-340.867,0,-291.197 1/2:242:0,114,128:0:0:114,128:4092,4567:-704.396,-370.623,-336.305,-334.131,0,-295.599 2/2:131:0,0,130:0:0:0,130:0,4617:-414.466,-414.466,-414.466,-39.1339,-39.1339,0 1/2:295:0,126,169:0:0:126,169:4490,5985:-852.771,-486.846,-448.916,-366.28,0,-315.406 1/2:18:0,7,11:0:0:7,11:252,394:-52.9113,-32.3528,-30.2455,-20.9171,0,-17.6058 1/1:14:0,14,0:0:0:14,0:489,0:-44.3225,-4.21442,0,-44.3225,-4.21442,-44.3225 1/1:64:0,64,0:0:0:64,0:2296,0:-206.856,-19.2659,0,-206.856,-19.2659,-206.856 1/2:169:0,59,109:0:0:59,109:2097,3882:-486.722,-315.84,-298.08,-170.957,0,-138.145 1/1:145:0,143,1:0:0:143,1:5090,36:-457.831,-43.0473,0,-454.895,-40.0574,-454.594 1/1:205:0,204,1:0:0:204,1:7292,36:-655.677,-61.4101,0,-652.742,-58.1155,-652.441 1/1:212:0,211,0:0:0:211,0:7548,0:-678.869,-63.5173,0,-678.869,-63.5173,-678.869 1/1:244:0,241,3:0:0:241,3:8594,108:-772.809,-72.5482,0,-764,-63.379,-763.097 1/2:78:0,35,43:0:0:35,43:1256,1533:-227.059,-124.616,-114.08,-102.8,0,-89.8557 1/2:82:0,55,26:0:0:55,26:1980,924:-236.642,-75.0831,-58.5265,-161.556,0,-153.729 1/1:142:0,140,2:0:0:140,2:5011,72:-450.474,-42.1442,0,-444.608,-35.9192,-444.006 1/1:42:0,41,1:0:0:41,1:1476,36:-132.734,-12.3422,0,-129.805,-9.05403,-129.504 chr07 3802741 . T C 54567.9 PASS AB=0.451842;ABP=34.1731;AC=32;AF=0.761905;AN=42;AO=2589;CIGAR=1X;DP=3578;DPB=3578;DPRA=1.32615;EPP=5624.95;EPPR=2139.74;GTI=0;LEN=1;MEANALT=1.2;MQM=59.7204;MQMR=53.9268;NS=21;NUMALT=1;ODDS=0.175831;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=92251;QR=35220;RO=984;RPL=2589;RPP=5624.95;RPPR=2139.74;RPR=0;RUN=1;SAF=0;SAP=5624.95;SAR=2589;SRF=0;SRP=2139.74;SRR=984;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:0,174:0:0:174:6214:-559.332,-52.3792,0 1/1:238:0,238:0:0:238:8453:-760.127,-71.6451,0 1/1:154:0,154:0:0:154:5479:-493.219,-46.3586,0 1/1:277:0,275:0:0:275:9785:-880.169,-82.7833,0 0/1:393:201,192:201:7175:192:6840:-497.357,0,-524.66 0/1:280:165,115:165:5920:115:4103:-285.111,0,-444.547 0/1:240:126,114:126:4502:114:4080:-295.123,0,-331.535 0/0:130:129,0:129:4613:0:0:0,-38.8329,-413.996 0/1:292:170,122:170:6093:122:4314:-300.477,0,-459.45 0/1:18:11,7:11:396:7:252:-17.6058,0,-30.3835 1/1:13:0,12:0:0:12:432:-38.8449,-3.61236,0 1/1:63:0,63:0:0:63:2249:-202.636,-18.9649,0 0/1:166:107,59:107:3840:59:2074:-136.87,0,-295.26 1/1:145:1,143:1:36:143:5079:-453.556,-40.1123,0 1/1:203:1,202:1:36:202:7162:-640.409,-57.5134,0 1/1:213:0,213:0:0:213:7640:-687.255,-64.1194,0 1/1:240:3,237:3:108:237:8469:-752.088,-62.1748,0 0/1:77:42,35:42:1493:35:1252:-89.7966,0,-111.27 0/1:81:26,55:26:936:55:1976:-153.727,0,-59.9355 1/1:138:2,136:2:72:136:4865:-431.097,-34.7151,0 1/1:43:0,43:0:0:43:1533:-138.227,-12.9443,0 chr07 4043467 . G A 5977.42 PASS AB=0.329843;ABP=243.18;AC=10;AF=0.238095;AN=42;AO=407;CIGAR=1X;DP=2742;DPB=2742;DPRA=0.997794;EPP=886.8;EPPR=4794.92;GTI=2;LEN=1;MEANALT=1;MQM=58.8231;MQMR=46.7462;NS=21;NUMALT=1;ODDS=8.02364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14425;QR=82046;RO=2333;RPL=2;RPP=869.513;RPPR=334.743;RPR=405;RUN=1;SAF=2;SAP=869.513;SAR=405;SRF=900;SRP=267.43;SRR=1433;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:130:130,0:130:4542:0:0:0,-39.1339,-351.76 0/0:115:114,0:114:4016:0:0:0,-34.3174,-313.664 0/0:127:127,0:127:4483:0:0:0,-38.2308,-350.78 0/0:171:170,0:170:5988:0:0:0,-51.1751,-513.327 0/0:253:251,2:251:8799:2:68:0,-69.7029,-705.524 0/0:131:130,1:130:4574:1:36:0,-35.8367,-363.102 0/0:268:268,0:268:9344:0:0:0,-80.676,-763.63 1/1:85:0,85:0:0:85:3024:-272.325,-25.5876,0 0/0:170:168,2:168:5910:2:72:0,-44.3384,-467.241 0/0:15:15,0:15:536:0:0:0,-4.51545,-32.9992 0/0:12:12,0:12:432:0:0:0,-3.61236,-25.0817 0/1:30:23,7:23:809:7:248:-13.625,0,-43.9841 0/1:254:151,103:151:5326:103:3607:-248.227,0,-353.908 0/1:104:60,44:60:2106:44:1576:-110.689,0,-136.036 0/1:143:97,46:97:3426:46:1647:-104.216,0,-209.084 0/1:134:90,44:90:3176:44:1565:-99.9037,0,-221.43 0/1:71:41,30:41:1453:30:1064:-74.6747,0,-103.692 0/1:111:86,25:86:3025:25:882:-46.2647,0,-170.928 0/1:108:92,16:92:3266:16:564:-18.2482,0,-207.031 0/0:208:208,0:208:7324:0:0:0,-62.6142,-566.512 0/0:102:100,2:100:3511:2:72:0,-23.8683,-257.159 chr07 4043572 . GT AC,AT 44957.6 PASS AB=0.529915,0.468864;ABP=9.37624,9.90651;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1632,517;CIGAR=2X,1X1M;DP=2154;DPB=2155;DPRA=0.778462,0.97412;EPP=3546.85,1125.66;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=1.7,2;MQM=59.951,60;MQMR=60;NS=21;NUMALT=2;ODDS=11.2667;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=0;QA=56190,18388;QR=36;RO=1;RPL=1632,517;RPP=3546.85,1125.66;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1632,517;SAP=3546.85,1125.66;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,121,0:0:0:121,0:4158,0:-374.405,-36.4246,0,-374.405,-36.4246,-374.405 1/1:90:0,90,0:0:0:90,0:3093,0:-278.597,-27.0927,0,-278.597,-27.0927,-278.597 1/1:97:0,97,0:0:0:97,0:3377,0:-304.142,-29.1999,0,-304.142,-29.1999,-304.142 1/1:155:0,155,0:0:0:155,0:5404,0:-486.484,-46.6597,0,-486.484,-46.6597,-486.484 1/1:161:0,160,1:0:0:160,1:5595,36:-503.305,-48.1648,0,-500.367,-44.8676,-500.066 1/1:121:0,121,0:0:0:121,0:4168,0:-375.301,-36.4246,0,-375.301,-36.4246,-375.301 1/1:126:0,124,0:0:0:124,0:4219,0:-379.536,-37.3277,0,-379.536,-37.3277,-379.536 2/2:130:1,0,129:1:36:0,129:0,4624:-412.722,-413.024,-415.961,-35.5356,-38.8329,0 1/1:173:0,172,0:0:0:172,0:5997,0:-539.482,-51.7772,0,-539.482,-51.7772,-539.482 1/1:25:0,23,2:0:0:23,2:767,72:-68.9788,-6.92369,0,-63.1018,-0.689028,-62.4998 1/1:11:0,11,0:0:0:11,0:372,0:-33.8044,-3.31133,0,-33.8044,-3.31133,-33.8044 1/2:32:0,19,13:0:0:19,13:676,464:-93.2767,-38.1841,-32.4645,-55.4489,0,-51.5355 1/2:111:0,65,46:0:0:65,46:2266,1603:-314.989,-130.706,-111.139,-184.632,0,-170.785 1/2:111:0,55,56:0:0:55,56:1974,1993:-323.806,-162.784,-146.228,-161.378,0,-144.521 1/2:100:0,41,59:0:0:41,59:1476,2116:-293.369,-172.948,-160.606,-120.78,0,-103.019 1/2:71:0,33,38:0:0:33,38:1144,1368:-204.956,-111.982,-102.048,-93.3268,0,-81.8877 1/2:96:0,48,48:0:0:48,48:1686,1720:-277.855,-140.636,-126.187,-137.574,0,-123.124 1/2:113:0,53,60:0:0:53,60:1817,2145:-322.733,-175.255,-159.3,-147.827,0,-129.765 1/2:185:0,120,64:0:0:120,64:3757,2211:-481.451,-179.566,-143.443,-301.8,0,-282.534 1/1:82:0,81,1:0:0:81,1:2753,36:-247.649,-24.3834,0,-244.712,-21.0862,-244.411 1/1:43:0,43,0:0:0:43,0:1491,0:-134.422,-12.9443,0,-134.422,-12.9443,-134.422 chr07 4146897 . AAGAG AAGAA,TAGAA 75304.9 PASS AB=0.492916,0.499627;ABP=3.59486,3.01192;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2668,916;CIGAR=4M1X,1X3M1X;DP=3602;DPB=3602.2;DPRA=0.700417,0.853545;EPP=5796.5,1992.08;EPPR=7.35324;GTI=0;LEN=1,5;MEANALT=2.25,2.61538;MQM=59.9404,59.8133;MQMR=60;NS=21;NUMALT=2;ODDS=14.4676;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=92891,31670;QR=64;RO=2;RPL=0,0;RPP=5796.5,1992.08;RPPR=7.35324;RPR=2668,916;RUN=1,1;SAF=2668,916;SAP=5796.5,1992.08;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:201:0,201,0:0:0:201,0:6853,0:-616.843,-60.507,0,-616.843,-60.507,-616.843 1/1:99:0,99,0:0:0:99,0:3403,0:-306.483,-29.802,0,-306.483,-29.802,-306.483 1/1:223:0,221,0:0:0:221,0:7747,0:-697.043,-66.5276,0,-697.043,-66.5276,-697.043 1/1:212:0,211,0:0:0:211,0:7374,0:-663.461,-63.5173,0,-663.461,-63.5173,-663.461 1/1:319:0,319,0:0:0:319,0:11142,0:-1002.61,-96.0286,0,-1002.61,-96.0286,-1002.61 1/1:126:0,125,0:0:0:125,0:4273,0:-384.543,-37.6288,0,-384.543,-37.6288,-384.543 1/1:254:0,252,0:0:0:252,0:8868,0:-797.17,-75.8596,0,-797.17,-75.8596,-797.17 2/2:240:0,0,239:0:0:0,239:0,8228:-740.23,-740.23,-740.23,-71.9462,-71.9462,0 1/1:310:0,308,2:0:0:308,2:10650,62:-958.114,-92.7172,0,-953.137,-87.4303,-952.535 1/1:31:0,30,1:0:0:30,1:1012,36:-91.0194,-9.0309,0,-88.0812,-5.73366,-87.7802 1/2:8:0,2,5:0:0:2,5:72,177:-20.4202,-14.5379,-13.9359,-5.97472,0,-4.46957 1/2:80:0,39,41:0:0:39,41:1336,1413:-223.568,-115.122,-103.381,-108.79,0,-96.4473 1/2:222:0,114,108:0:0:114,108:3953,3715:-623.263,-302.051,-267.734,-321.557,0,-289.046 1/2:247:0,119,128:0:0:119,128:4152,4460:-700.671,-362.994,-327.171,-338.026,0,-299.494 1/2:279:0,144,131:0:0:144,131:5050,4500:-776.223,-365.28,-321.931,-410.981,0,-371.546 1/2:107:0,52,54:0:0:52,54:1812,1898:-301.941,-154.59,-138.937,-147.448,0,-131.192 1/2:160:1,57,101:1:36:57,101:1977,3507:-442.56,-282.166,-267.945,-157.763,0,-130.297 1/2:145:0,75,69:0:0:75,69:2657,2378:-409.591,-193.141,-170.564,-216.488,0,-195.717 1/2:93:0,59,33:0:0:59,33:2062,1158:-261.969,-94.2316,-76.4708,-167.728,0,-157.794 1/1:171:1,166,4:1:28:166,4:5847,138:-523.398,-47.7652,0,-512.488,-38.708,-513.503 1/1:75:0,75,0:0:0:75,0:2651,0:-238.763,-22.5773,0,-238.763,-22.5773,-238.763 chr07 4146997 . A C 11193.2 PASS AB=0.504211;ABP=3.15659;AC=11;AF=0.261905;AN=42;AO=623;CIGAR=1X;DP=2740;DPB=2740;DPRA=0.786385;EPP=1338.52;EPPR=4502.8;GTI=0;LEN=1;MEANALT=1;MQM=59.0787;MQMR=59.7973;NS=21;NUMALT=1;ODDS=1.3881;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22228;QR=75830;RO=2116;RPL=621;RPP=1338.52;RPPR=4502.8;RPR=2;RUN=1;SAF=0;SAP=1355.84;SAR=623;SRF=0;SRP=4597.85;SRR=2116;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:145,0:145:5192:0:0:0,-43.6493,-467.003 0/0:97:97,0:97:3468:0:0:0,-29.1999,-312.231 0/0:128:126,2:126:4528:2:72:0,-31.6951,-400.849 0/0:185:185,0:185:6627:0:0:0,-55.6905,-596.435 0/0:275:275,0:275:9834:0:0:0,-82.7832,-885.004 0/0:148:147,1:147:5280:1:36:0,-40.9552,-471.633 0/0:191:190,1:190:6812:1:36:0,-53.8995,-608.875 1/1:135:0,135:0:0:135:4821:-433.832,-40.6391,0 0/0:296:296,0:296:10617:0:0:0,-89.1049,-955.353 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4587 0/1:5:2,3:2:72:3:104:-8.1954,0,-5.33157 0/1:37:14,23:14:504:23:820:-62.9332,0,-34.56 0/1:146:66,80:66:2372:80:2852:-212.817,0,-169.786 0/1:134:62,72:62:2232:72:2567:-190.913,0,-160.806 0/1:222:110,112:110:3956:112:4008:-294.052,0,-289.379 0/1:106:46,60:46:1648:60:2152:-161.957,0,-116.698 0/1:113:59,54:59:2124:54:1918:-138.75,0,-157.411 0/1:90:44,46:44:1553:46:1631:-119.894,0,-112.651 0/1:97:68,29:68:2423:29:1040:-64.686,0,-188.756 0/0:123:118,5:118:4212:5:171:0,-21.3012,-363.506 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.982 chr07 4169787 . T C 8366.4 PASS AB=0.521739;ABP=5.74824;AC=11;AF=0.261905;AN=42;AO=461;CIGAR=1X;DP=1846;DPB=1846;DPRA=1.13652;EPP=1004.06;EPPR=3008.33;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.974;MQMR=59.9603;NS=21;NUMALT=1;ODDS=0.0515519;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16528;QR=49632;RO=1384;RPL=0;RPP=1004.06;RPPR=3008.33;RPR=461;RUN=1;SAF=461;SAP=1004.06;SAR=0;SRF=1384;SRP=3008.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:101,2:101:3620:2:72:0,-24.1694,-318.899 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.901 0/0:84:84,0:84:3016:0:0:0,-25.2865,-271.657 0/0:107:107,0:107:3844:0:0:0,-32.2102,-346.155 0/0:178:175,3:175:6272:3:104:0,-43.8805,-554.87 0/0:124:124,0:124:4444:0:0:0,-37.3277,-400.13 0/0:112:112,0:112:4012:0:0:0,-33.7154,-361.268 1/1:106:0,106:0:0:106:3796:-341.838,-31.9092,0 0/0:132:131,1:131:4696:1:36:0,-36.1377,-419.188 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:98:50,47:50:1796:47:1688:-122.645,0,-132.358 0/1:113:47,66:47:1676:66:2368:-179.362,0,-117.111 0/1:158:67,91:67:2400:91:3268:-246.777,0,-168.694 0/1:64:18,46:18:648:46:1652:-129.703,0,-39.386 0/1:63:33,30:33:1184:30:1076:-78.1856,0,-87.9034 0/1:77:45,32:45:1620:32:1140:-79.7299,0,-122.911 0/1:80:51,29:51:1824:29:1040:-69.8296,0,-140.359 0/0:96:95,1:95:3412:1:36:0,-25.3006,-303.695 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.093 chr07 4169798 . A G 29104.9 PASS AB=0.467988;ABP=8.84944;AC=31;AF=0.738095;AN=42;AO=1365;CIGAR=1X;DP=1828;DPB=1828;DPRA=0.804206;EPP=2967.07;EPPR=1006.23;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9656;MQMR=59.9307;NS=21;NUMALT=1;ODDS=0.728606;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48572;QR=16476;RO=462;RPL=0;RPP=2967.07;RPPR=1006.23;RPR=1365;RUN=1;SAF=1365;SAP=2967.07;SAR=0;SRF=462;SRP=1006.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:2,98:2:72:98:3504:-308.734,-23.2663,0 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 1/1:86:0,86:0:0:86:3065:-276.049,-25.8886,0 1/1:108:0,108:0:0:108:3845:-346.246,-32.5112,0 1/1:175:3,172:3:108:172:6093:-538.397,-42.6051,0 1/1:124:0,124:0:0:124:4425:-398.421,-37.3277,0 1/1:112:0,112:0:0:112:3990:-359.287,-33.7154,0 0/0:107:107,0:107:3821:0:0:0,-32.2102,-344.086 1/1:130:0,129:0:0:129:4598:-413.761,-38.8329,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:96:47,49:47:1684:49:1726:-126.72,0,-122.946 0/1:112:65,47:65:2290:47:1672:-117.052,0,-172.644 0/1:156:90,66:90:3224:66:2353:-165.067,0,-243.421 0/1:64:46,18:46:1648:18:633:-38.0291,0,-129.343 0/1:62:31,31:31:1104:31:1100:-80.6464,0,-80.9474 0/1:77:34,43:34:1205:43:1536:-115.354,0,-85.5746 0/1:75:29,46:29:1032:46:1620:-123.509,0,-70.6139 1/1:96:1,95:1:36:95:3363:-299.285,-25.3006,0 1/1:66:0,66:0:0:66:2361:-212.748,-19.868,0 chr07 4169825 . T C 21594.7 PASS AB=0.37933;ABP=229.406;AC=11;AF=0.261905;AN=42;AO=959;CIGAR=1X;DP=5555;DPB=5555;DPRA=1.05428;EPP=2076.78;EPPR=9978.75;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9416;MQMR=57.4828;NS=21;NUMALT=1;ODDS=18.3336;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34200;QR=163875;RO=4594;RPL=456;RPP=8.01216;RPPR=1709.37;RPR=503;RUN=1;SAF=457;SAP=7.59553;SAR=502;SRF=1347;SRP=1709.37;SRR=3247;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:243:240,2:240:8552:2:72:0,-66.2725,-762.139 0/0:225:225,0:225:8042:0:0:0,-67.7317,-721.319 0/0:230:230,0:230:8194:0:0:0,-69.2369,-736.832 0/0:357:357,0:357:12728:0:0:0,-107.468,-1143.93 0/0:661:657,3:657:23385:3:104:0,-189.229,-2089.38 0/0:359:359,0:359:12856:0:0:0,-108.07,-1154.42 0/0:454:453,1:453:16171:1:36:0,-133.069,-1447.95 1/1:272:0,272:0:0:272:9709:-873.76,-81.8802,0 0/0:425:425,0:425:15156:0:0:0,-127.938,-1362.12 0/0:31:31,0:31:1108:0:0:0,-9.33193,-98.1365 0/1:25:17,8:17:612:8:288:-18.7417,0,-47.4486 0/1:52:36,16:36:1284:16:572:-36.1599,0,-100.115 0/1:221:164,57:164:5795:57:2034:-116.804,0,-454.69 0/1:246:129,117:129:4599:117:4163:-300.801,0,-339.152 0/1:505:299,206:299:10712:206:7331:-507.819,0,-809.866 0/1:170:80,90:80:2852:90:3220:-238.658,0,-205.256 0/1:191:120,71:120:4283:71:2536:-170.937,0,-327.914 0/1:203:135,68:135:4823:68:2411:-156.138,0,-371.724 0/1:177:131,46:131:4658:46:1652:-95.6852,0,-365.797 0/0:348:346,2:346:12325:2:72:0,-97.9217,-1098.87 0/0:160:160,0:160:5740:0:0:0,-48.1648,-515.689 chr07 4169833 . CC CT,AT 134905 PASS AB=0.669268,0.328874;ABP=1342.4,1371.97;AC=22,20;AF=0.52381,0.47619;AN=42;AO=3875,1771;CIGAR=1M1X,2X;DP=5656;DPB=5656;DPRA=0,0;EPP=8417.47,3848.69;EPPR=18.2106;GTI=3;LEN=1,2;MEANALT=2.09524,2.09524;MQM=59.9417,53.3371;MQMR=60;NS=21;NUMALT=2;ODDS=4.65256;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=137953,62539;QR=241;RO=7;RPL=1817,4;RPP=35.5577,3814.02;RPPR=10.7656;RPR=2058,1767;RUN=1,1;SAF=1817,4;SAP=35.5577,3814.02;SAR=2058,1767;SRF=6;SRP=10.7656;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:252:1,187,63:1:34:187,63:6652,2222:-719.321,-177.777,-124.243,-539.128,0,-522.921 1/2:226:0,152,74:0:0:152,74:5403,2593:-649.914,-209.622,-163.865,-440.642,0,-418.366 1/2:230:0,164,66:0:0:164,66:5832,2311:-662.926,-187.657,-138.288,-475.62,0,-455.752 1/2:370:0,195,175:0:0:195,175:6918,6196:-1067.23,-503.596,-444.895,-563.987,0,-511.307 1/2:672:1,394,275:1:36:394,275:14020,9700:-1926.33,-784.015,-668.346,-1139.75,0,-1059.9 1/2:362:1,214,147:1:31:214,147:7640,5223:-1043.88,-421.335,-359.403,-620.399,0,-578.636 1/2:463:2,267,194:2:70:267,194:9521,6800:-1320.52,-545,-470.32,-770.427,0,-717.722 1/1:274:0,273,1:0:0:273,1:9744,23:-876.677,-82.1812,0,-874.908,-80.1823,-874.607 1/2:431:0,282,149:0:0:282,149:10069,5281:-1250.03,-429.139,-344.248,-821.244,0,-776.39 1/2:31:0,13,18:0:0:13,18:464,626:-87.2936,-49.4578,-45.5444,-38.1841,0,-32.7656 1/2:24:0,15,9:0:0:15,9:536,324:-70.0589,-26.355,-21.8395,-44.0594,0,-41.3501 1/2:52:0,36,16:0:0:36,16:1292,574:-152.473,-47.0841,-36.247,-105.747,0,-100.93 1/2:223:0,185,38:0:0:185,38:6598,1353:-648.105,-110.255,-54.5646,-538.205,0,-526.766 1/2:261:0,217,44:0:0:217,44:7701,1553:-753.226,-125.777,-60.4535,-627.8,0,-614.554 1/2:517:0,391,126:0:0:391,126:13978,4468:-1501.97,-362.236,-244.533,-1140.08,0,-1102.15 1/2:168:0,131,37:0:0:131,37:4659,1304:-485.614,-105.936,-66.5015,-380.029,0,-368.891 1/2:195:0,153,42:0:0:153,42:5427,1495:-564.1,-121.956,-75.8983,-442.499,0,-429.856 1/2:212:0,162,50:0:0:162,50:5730,1761:-609.056,-142.483,-93.7163,-466.924,0,-451.872 1/2:174:1,126,47:1:34:126,47:4448,1653:-493.434,-131.526,-96.3545,-359.462,0,-348.071 1/2:357:0,208,149:0:0:208,149:7425,5269:-1032.38,-427.07,-364.456,-605.668,0,-560.814 1/2:162:1,110,51:1:36:110,51:3896,1810:-460.874,-143.852,-113.677,-314.379,0,-301.963 chr07 4169839 . A T 22172.2 PASS AB=0.322804;ABP=1462.08;AC=20;AF=0.47619;AN=42;AO=1727;CIGAR=1X;DP=5628;DPB=5628;DPRA=0.96223;EPP=3753.14;EPPR=8469.58;GTI=3;LEN=1;MEANALT=1.1;MQM=53.3937;MQMR=59.9438;NS=21;NUMALT=1;ODDS=9.8093;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61629;QR=139581;RO=3899;RPL=0;RPP=3753.14;RPPR=25.0653;RPR=1727;RUN=1;SAF=0;SAP=3753.14;SAR=1727;SRF=1850;SRP=25.0653;SRR=2049;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:249:186,63:186:6676:63:2253:-127.519,0,-525.958 0/1:225:152,73:152:5452:73:2615:-165.994,0,-423.03 0/1:229:164,65:164:5888:65:2334:-140.588,0,-461.066 0/1:363:193,170:193:6912:170:6058:-434.889,0,-512.87 0/1:666:394,272:394:14100:272:9613:-661.045,0,-1068.27 0/1:353:211,142:211:7545:142:5081:-349.11,0,-572.823 0/1:460:270,190:270:9656:190:6812:-471.365,0,-730.515 0/0:278:278,0:278:9966:0:0:0,-83.6863,-896.874 0/1:424:282,142:282:10108:142:5019:-322.955,0,-781.998 0/1:30:12,18:12:428:18:644:-47.3836,0,-29.8279 0/1:24:15,9:15:536:9:324:-21.8395,0,-41.3501 0/1:52:36,16:36:1296:16:576:-36.426,0,-101.29 0/1:225:186,39:186:6642:39:1404:-58.476,0,-530.118 0/1:264:221,42:221:7915:42:1508:-55.5661,0,-632.836 0/1:523:399,124:399:14263:124:4460:-241.701,0,-1125.99 0/1:168:132,36:132:4736:36:1288:-64.9448,0,-375.632 0/1:193:153,40:153:5500:40:1436:-71.2043,0,-436.737 0/1:210:161,48:161:5738:48:1716:-90.8235,0,-453.261 0/1:178:131,47:131:4681:47:1692:-98.6706,0,-367.864 0/1:348:206,142:206:7365:142:5051:-346.988,0,-557.867 0/1:166:117,49:117:4178:49:1745:-106.696,0,-325.961 chr07 4169846 . A G 65854.8 PASS AB=0.540387;ABP=77.7297;AC=20;AF=0.47619;AN=42;AO=2850;CIGAR=1X;DP=5550;DPB=5550;DPRA=0.955435;EPP=6148.35;EPPR=5863.81;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9316;MQMR=55.7996;NS=21;NUMALT=1;ODDS=56.371;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=100670;QR=96499;RO=2699;RPL=1336;RPP=27.151;RPPR=2566.48;RPR=1514;RUN=1;SAF=1331;SAP=29.9396;SAR=1519;SRF=457;SRP=2566.48;SRR=2242;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:243:63,179:63:2232:179:6334:-496.949,0,-127.531 0/1:223:72,151:72:2567:151:5375:-416.649,0,-161.933 0/1:229:66,163:66:2372:163:5762:-449.731,0,-143.961 0/1:362:174,188:174:6236:188:6647:-489.341,0,-450.705 0/1:656:272,384:272:9702:384:13563:-1021.72,0,-673.233 0/1:354:143,211:143:5136:211:7447:-563.719,0,-353.468 0/1:456:192,264:192:6864:264:9295:-699.259,0,-477.981 0/0:276:276,0:276:9904:0:0:0,-83.0843,-891.297 0/1:426:144,282:144:5146:282:9994:-771.167,0,-333.738 0/1:30:17,13:17:604:13:464:-33.0666,0,-44.7274 0/1:25:17,8:17:604:8:279:-17.9218,0,-46.8292 0/1:50:32,18:32:1139:18:640:-42.8778,0,-87.6786 0/1:221:97,124:97:3476:124:4414:-330.902,0,-246.075 0/1:253:165,88:165:5897:88:3067:-200.1,0,-453.534 0/1:510:333,177:333:11872:177:6292:-412.851,0,-912.544 0/1:166:124,42:124:4452:42:1480:-83.5205,0,-349.977 0/1:188:109,79:109:3916:79:2785:-194.267,0,-295.667 0/1:205:118,87:118:4236:87:3026:-210.861,0,-318.296 0/1:177:93,84:93:3309:84:2937:-211.283,0,-244.461 0/1:342:143,199:143:5098:199:7050:-531.6,0,-352.665 0/1:158:49,109:49:1737:109:3819:-296.329,0,-108.465 chr07 4169850 . AGTAT CGTAA 28979.2 PASS AB=0.476694;ABP=20.4197;AC=20;AF=0.47619;AN=42;AO=1759;CIGAR=1X3M1X;DP=3865;DPB=3867;DPRA=1.05429;EPP=3650.89;EPPR=4235.69;GTI=0;LEN=5;MEANALT=1.95;MQM=53.4355;MQMR=59.9328;NS=21;NUMALT=1;ODDS=24.2953;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=136;PRO=4;QA=61613;QR=73322;RO=2083;RPL=1739;RPP=3650.89;RPPR=4244.09;RPR=20;RUN=1;SAF=0;SAP=3822.63;SAR=1759;SRF=1;SRP=4517.51;SRR=2082;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:86,62:86:2990:62:2158:-149.281,0,-224.527 0/1:166:92,74:92:3236:74:2579:-181.176,0,-241.407 0/1:147:81,66:81:2889:66:2325:-164.814,0,-215.996 0/1:264:88,175:88:3103:175:6106:-469.493,0,-200.112 0/1:502:224,273:224:7900:273:9600:-711.219,0,-560.24 0/1:242:94,148:94:3301:148:5243:-397.187,0,-224.333 0/1:351:157,192:157:5512:192:6730:-498.252,0,-390.899 0/0:175:175,0:175:6178:0:0:0,-52.6802,-556.127 0/1:307:155,149:155:5441:149:5178:-373.419,0,-397.985 0/1:28:10,18:10:358:18:611:-46.0939,0,-24.134 0/1:21:12,9:12:420:9:310:-21.544,0,-31.8121 0/1:42:26,16:26:924:16:569:-38.8087,0,-70.8345 0/1:128:89,39:89:3143:39:1377:-85.3751,0,-244.565 0/1:150:104,44:104:3584:44:1544:-93.6377,0,-277.917 0/1:369:242,125:242:8572:125:4338:-279.289,0,-660.759 0/1:106:69,37:69:2413:37:1290:-83.8957,0,-185.176 0/1:131:90,41:90:3176:41:1469:-92.8361,0,-246.586 0/1:134:82,48:82:2878:48:1688:-111.701,0,-219.804 0/1:98:51,47:51:1784:47:1643:-118.386,0,-131.339 0/1:257:109,147:109:3862:147:5160:-385.242,0,-270.447 0/1:97:47,49:47:1658:49:1695:-123.288,0,-120.348 chr07 4172842 . C T 39941.6 PASS AB=0.578133;ABP=208.643;AC=21;AF=0.5;AN=42;AO=2242;CIGAR=1X;DP=3878;DPB=3878;DPRA=0;EPP=4871.45;EPPR=3546.85;GTI=2;LEN=1;MEANALT=1.14286;MQM=59.9951;MQMR=59.9926;NS=21;NUMALT=1;ODDS=10.0946;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80218;QR=58521;RO=1632;RPL=0;RPP=4871.45;RPPR=3546.85;RPR=2242;RUN=1;SAF=2242;SAP=4871.45;SAR=0;SRF=1632;SRP=3546.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:297:156,141:156:5592:141:5040:-364.341,0,-413.996 0/1:156:68,88:68:2436:88:3156:-237.304,0,-172.535 0/1:138:69,69:69:2476:69:2480:-181.911,0,-181.551 0/1:221:76,144:76:2728:144:5163:-398.223,0,-179.176 0/1:464:215,248:215:7712:248:8883:-659.715,0,-554.375 0/1:149:78,71:78:2800:71:2521:-182.287,0,-207.386 0/1:342:149,193:149:5344:193:6913:-519.283,0,-378.14 0/1:203:46,157:46:1637:157:5624:-445.172,0,-86.5076 0/1:398:175,223:175:6272:223:7972:-597.694,0,-444.763 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:27:15,12:15:540:12:430:-30.9123,0,-40.8087 0/1:247:95,152:95:3408:152:5414:-413.035,0,-232.579 0/1:166:47,119:47:1692:119:4263:-333.875,0,-102.596 0/1:209:100,109:100:3592:109:3915:-289.627,0,-260.561 0/1:217:107,108:107:3828:108:3868:-283.327,0,-279.729 0/1:149:50,99:50:1796:99:3538:-273.776,0,-117.069 0/1:132:55,77:55:1968:77:2747:-207.735,0,-137.659 0/1:86:35,51:35:1252:51:1828:-138.912,0,-87.0965 0/1:178:62,116:62:2224:116:4138:-319.018,0,-146.841 0/1:85:30,55:30:1080:55:1965:-151.536,0,-71.9257 chr07 4173021 . AAC GAT,GAC 39582.7 PASS AB=0.349486,0.647577;ABP=137.013,131.835;AC=28,14;AF=0.666667,0.333333;AN=42;AO=843,991;CIGAR=1X1M1X,1X2M;DP=1839;DPB=1840;DPRA=0.454214,1.59453;EPP=1833.56,2154.94;EPPR=5.18177;GTI=4;LEN=3,1;MEANALT=1.73684,2.07143;MQM=58.9561,59.8426;MQMR=60;NS=21;NUMALT=2;ODDS=4.1053;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=0;QA=29879,35470;QR=36;RO=1;RPL=843,991;RPP=1833.56,2154.94;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1833.56,2154.94;SAR=843,991;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,81,0:0:0:81,0:2854,0:-257.039,-24.3834,0,-257.039,-24.3834,-257.039 1/1:37:0,37,0:0:0:37,0:1319,0:-118.036,-11.1381,0,-118.036,-11.1381,-118.036 1/1:63:0,61,1:0:0:61,1:2170,36:-194.957,-18.3628,0,-192.019,-15.4254,-191.718 1/1:68:0,68,0:0:0:68,0:2401,0:-216.117,-20.47,0,-216.117,-20.47,-216.117 1/1:113:0,113,0:0:0:113,0:4025,0:-362.192,-34.0164,0,-362.192,-34.0164,-362.192 1/1:40:0,40,0:0:0:40,0:1428,0:-128.703,-12.0412,0,-128.703,-12.0412,-128.703 1/1:73:0,73,0:0:0:73,0:2569,0:-231.16,-21.9752,0,-231.16,-21.9752,-231.16 2/2:64:0,0,63:0:0:0,63:0,2242:-201.239,-201.239,-201.239,-18.9649,-18.9649,0 1/1:71:0,70,1:0:0:70,1:2501,36:-224.895,-21.0721,0,-221.958,-17.7749,-221.657 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 2/2:282:1,0,281:1:36:0,281:0,10029:-898.671,-898.972,-901.91,-81.2922,-84.5894,0 2/2:205:0,2,203:0:0:2,203:72,7280:-654.888,-649.013,-648.411,-61.1091,-54.8744,0 1/2:54:0,29,25:0:0:29,25:1017,900:-156.549,-73.7953,-65.0654,-83.1096,0,-75.5838 1/2:54:0,27,27:0:0:27,27:963,968:-156.786,-79.3096,-71.1817,-77.8315,0,-69.7036 1/2:95:0,68,27:0:0:68,27:2420,968:-276.481,-79.3096,-58.8395,-197.529,0,-189.401 1/2:57:0,28,29:0:0:28,29:997,1040:-163.866,-85.1845,-76.7557,-79.0332,0,-70.3033 1/2:57:0,36,21:0:0:36,21:1262,756:-164.592,-62.0456,-51.2085,-102.902,0,-96.5805 1/2:332:0,32,298:0:0:32,298:1121,10679:-961.907,-870.945,-861.312,-91.005,0,-1.29806 1/2:26:0,14,12:0:0:14,12:493,428:-75.3798,-35.2464,-31.032,-40.4878,0,-36.8754 1/1:34:0,33,1:0:0:33,1:1174,36:-105.502,-9.93399,0,-102.564,-6.63675,-102.263 1/1:27:0,27,0:0:0:27,0:949,0:-83.9477,-8.12781,0,-83.9477,-8.12781,-83.9477 chr07 4336918 . G T 51207.9 PASS AB=0.518006;ABP=6.05999;AC=31;AF=0.738095;AN=42;AO=2339;CIGAR=1X;DP=3138;DPB=3138;DPRA=0.542075;EPP=4978.39;EPPR=1738.02;GTI=0;LEN=1;MEANALT=1;MQM=59.938;MQMR=59.9937;NS=21;NUMALT=1;ODDS=38.1216;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83777;QR=28594;RO=799;RPL=8;RPP=5012.83;RPPR=1738.02;RPR=2331;RUN=1;SAF=2335;SAP=5047.4;SAR=4;SRF=799;SRP=1738.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:199:1,198:1:36:198:7107:-636.081,-56.3067,0 1/1:148:0,148:0:0:148:5304:-477.466,-44.5524,0 1/1:152:0,152:0:0:152:5460:-491.52,-45.7566,0 1/1:160:0,160:0:0:160:5731:-515.906,-48.1648,0 1/1:312:6,306:6:216:306:10943:-964.967,-74.1308,0 1/1:113:0,113:0:0:113:4051:-364.776,-34.0164,0 1/1:145:1,144:1:36:144:5154:-460.401,-40.0511,0 0/0:265:265,0:265:9462:0:0:0,-79.7729,-851.539 1/1:255:2,253:2:68:253:9047:-807.63,-70.3049,0 1/1:39:0,39:0:0:39:1387:-125.127,-11.7402,0 0/1:21:12,9:12:428:9:324:-23.1842,0,-32.5372 0/1:61:31,30:31:1108:30:1076:-78.79,0,-81.6682 0/1:169:82,87:82:2944:87:3128:-230.871,0,-214.319 0/1:125:74,51:74:2633:51:1807:-125.281,0,-199.587 0/1:230:112,118:112:4020:118:4234:-311.987,0,-292.751 0/1:98:49,49:49:1743:49:1764:-129.539,0,-127.653 0/1:79:31,48:31:1116:48:1698:-129.323,0,-76.9703 0/1:202:102,100:102:3668:100:3564:-260.159,0,-269.514 0/1:98:29,69:29:1044:69:2484:-194.312,0,-64.7739 1/1:171:2,169:2:72:169:6067:-539.282,-44.6394,0 1/1:96:0,96:0:0:96:3447:-310.438,-28.8989,0 chr07 4337008 . C T 3008.6 PASS AB=0.531646;ABP=5.759;AC=11;AF=0.261905;AN=42;AO=194;CIGAR=1X;DP=816;DPB=816;DPRA=0.807252;EPP=424.276;EPPR=1353.67;GTI=1;LEN=1;MEANALT=1;MQM=40.5876;MQMR=44.426;NS=21;NUMALT=1;ODDS=2.50155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6956;QR=22180;RO=622;RPL=0;RPP=424.276;RPPR=1353.67;RPR=194;RUN=1;SAF=194;SAP=424.276;SAR=0;SRF=622;SRP=1353.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:49,0:49:1756:0:0:0,-14.7505,-154.597 0/0:17:17,0:17:597:0:0:0,-5.11751,-51.5791 0/0:31:30,1:30:1076:1:36:0,-5.79581,-91.9954 0/0:48:48,0:48:1720:0:0:0,-14.4494,-153.39 0/0:86:86,0:86:3033:0:0:0,-25.8886,-268.673 0/0:34:34,0:34:1207:0:0:0,-10.235,-105.66 0/0:52:51,1:51:1824:1:36:0,-12.23,-155.619 1/1:24:0,24:0:0:24:856:-72.4379,-7.22472,0 0/0:94:94,0:94:3364:0:0:0,-28.2968,-296.251 0/0:7:7,0:7:252:0:0:0,-2.10721,-22.6312 0/1:4:1,3:1:36:3:108:-7.92463,0,-2.29858 0/1:6:5,1:5:171:1:36:-1.64831,0,-13.5794 0/1:50:14,36:14:496:36:1292:-94.1192,0,-29.4762 0/1:48:16,32:16:572:32:1148:-83.5862,0,-36.7595 0/1:63:27,36:27:960:36:1292:-92.0789,0,-66.6275 0/1:26:9,17:9:320:17:612:-45.1889,0,-21.1253 0/1:51:34,17:34:1220:17:612:-37.9817,0,-93.3661 0/1:31:18,13:18:640:13:464:-30.6122,0,-47.2671 0/1:37:24,13:24:860:13:464:-28.4525,0,-64.5644 0/0:20:20,0:20:716:0:0:0,-6.0206,-62.8576 0/0:38:38,0:38:1360:0:0:0,-11.4391,-118.238 chr07 4337021 . T C 12850.9 PASS AB=0.463259;ABP=6.6803;AC=31;AF=0.738095;AN=42;AO=621;CIGAR=1X;DP=813;DPB=813;DPRA=1.71739;EPP=1342.82;EPPR=312.53;GTI=1;LEN=1;MEANALT=1.05;MQM=44.4799;MQMR=40.5654;NS=21;NUMALT=1;ODDS=1.81875;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22146;QR=6815;RO=191;RPL=1;RPP=1342.82;RPPR=312.53;RPR=620;RUN=1;SAF=621;SAP=1351.49;SAR=0;SRF=191;SRP=417.762;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,48:0:0:48:1701:-150.033,-14.4494,0 1/1:18:0,18:0:0:18:640:-55.548,-5.41854,0 1/1:32:0,32:0:0:32:1148:-101.937,-9.63296,0 1/1:48:0,48:0:0:48:1712:-152.724,-14.4494,0 1/1:86:0,86:0:0:86:3076:-272.378,-25.8886,0 1/1:34:0,34:0:0:34:1220:-106.708,-10.235,0 1/1:52:1,51:1:36:51:1816:-155.039,-12.23,0 0/0:23:23,0:23:824:0:0:0,-6.92369,-69.6299 1/1:94:0,94:0:0:94:3333:-294.783,-28.2968,0 1/1:7:0,7:0:0:7:252:-22.6312,-2.10721,0 0/1:4:3,1:3:104:1:36:-2.29858,0,-7.83379 0/1:5:1,4:1:36:4:144:-11.4744,0,-1.94934 0/1:49:35,13:35:1251:13:464:-26.8952,0,-90.9427 0/1:48:32,16:32:1136:16:568:-36.4191,0,-82.9364 0/1:65:38,27:38:1359:27:968:-66.6222,0,-97.181 0/1:25:16,9:16:576:9:320:-21.4264,0,-42.2505 0/1:48:16,32:16:561:32:1148:-88.0226,0,-34.6619 0/1:32:13,19:13:464:19:672:-49.6196,0,-30.3111 0/1:37:13,24:13:468:24:860:-64.5644,0,-28.7111 1/1:20:0,20:0:0:20:716:-62.8576,-6.0206,0 1/1:38:0,38:0:0:38:1352:-117.616,-11.4391,0 chr07 4337033 . 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T C 10978.2 PASS AB=0.492754;ABP=3.48236;AC=11;AF=0.261905;AN=42;AO=685;CIGAR=1X;DP=2990;DPB=2990;DPRA=0.796741;EPP=1490.47;EPPR=5008.25;GTI=1;LEN=1;MEANALT=1;MQM=37.8438;MQMR=59.3098;NS=21;NUMALT=1;ODDS=4.38899;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24443;QR=82159;RO=2305;RPL=685;RPP=1490.47;RPPR=5008.25;RPR=0;RUN=1;SAF=0;SAP=1490.47;SAR=685;SRF=0;SRP=5008.25;SRR=2305;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:166:165,1:165:5901:1:36:0,-46.5474,-526.199 0/0:162:161,1:161:5684:1:36:0,-45.5207,-507.051 0/0:155:155,0:155:5506:0:0:0,-46.6596,-495.01 0/0:189:189,0:189:6737:0:0:0,-56.8947,-606.352 0/0:319:319,0:319:11377:0:0:0,-96.0286,-1023.75 0/0:163:163,0:163:5813:0:0:0,-49.0679,-522.005 0/0:211:211,0:211:7521:0:0:0,-63.5173,-674.785 1/1:171:0,171:0:0:171:6095:-505.416,-51.4761,0 0/0:200:200,0:200:7144:0:0:0,-60.206,-642.43 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4067 0/1:5:3,2:3:108:2:72:-4.66255,0,-8.57002 0/1:30:21,9:21:744:9:309:-17.1657,0,-58.2488 0/1:151:62,89:62:2216:89:3188:-224.38,0,-154.242 0/1:152:83,69:83:2933:69:2461:-162.226,0,-217.918 0/1:281:119,162:119:4261:162:5797:-403.577,0,-298.832 0/1:137:68,69:68:2398:69:2465:-171.821,0,-174.824 0/1:132:81,51:81:2908:51:1809:-116.642,0,-221.845 0/1:90:42,48:42:1508:48:1707:-112.784,0,-108.877 0/1:57:46,11:46:1648:11:396:-16.7418,0,-131.437 0/0:153:151,2:151:5396:2:72:0,-39.6999,-477.307 0/0:46:46,0:46:1644:0:0:0,-13.8474,-147.923 chr07 4453868 . 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CGAC TGAC,TGAT 50569.6 PASS AB=0.528926,0.461629;ABP=9.1658,13.842;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1786,507;CIGAR=1X3M,1X2M1X;DP=2305;DPB=2305;DPRA=0.960965,0.86264;EPP=3803.48,1069.48;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=2,2.5;MQM=59.981,59.8304;MQMR=60;NS=21;NUMALT=2;ODDS=2.35201;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63723,17875;QR=35;RO=1;RPL=9,4;RPP=3803.48,1069.48;RPPR=5.18177;RPR=1777,503;RUN=1,1;SAF=1786,507;SAP=3881.26,1103.95;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,121,0:0:0:121,0:4329,0:-389.785,-36.4246,0,-389.785,-36.4246,-389.785 1/1:147:0,145,1:0:0:145,1:5137,30:-462.146,-43.6494,0,-459.748,-41.2807,-459.447 1/1:109:0,109,0:0:0:109,0:3885,0:-349.844,-32.8123,0,-349.844,-32.8123,-349.844 1/1:198:0,198,0:0:0:198,0:7061,0:-635.552,-59.6039,0,-635.552,-59.6039,-635.552 1/1:156:0,155,0:0:0:155,0:5551,0:-499.432,-46.6597,0,-499.432,-46.6597,-499.432 1/1:125:0,124,1:0:0:124,1:4435,36:-398.961,-37.3277,0,-396.024,-34.0305,-395.723 1/1:167:0,166,0:0:0:166,0:5915,0:-532.102,-49.971,0,-532.102,-49.971,-532.102 2/2:114:0,0,114:0:0:0,114:0,3995:-359.471,-359.471,-359.471,-34.3174,-34.3174,0 1/1:111:0,111,0:0:0:111,0:3957,0:-356.32,-33.4143,0,-356.32,-33.4143,-356.32 1/1:12:0,12,0:0:0:12,0:432,0:-39.2166,-3.61236,0,-39.2166,-3.61236,-39.2166 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:34:0,24,10:0:0:24,10:856,344:-98.0694,-28.2806,-21.0559,-70.1364,0,-67.1261 1/2:138:0,72,61:0:0:72,61:2559,2157:-384.241,-175.708,-154.033,-208.56,0,-190.198 1/2:119:0,64,54:0:0:64,54:2296,1889:-340.867,-153.585,-134.319,-187.275,0,-171.02 1/2:68:0,34,34:0:0:34,34:1198,1203:-195.876,-98.3397,-88.1047,-97.8896,0,-87.6546 1/2:122:0,62,59:0:0:62,59:2216,2092:-351.112,-170.427,-151.763,-180.681,0,-162.92 1/2:98:0,29,69:0:0:29,69:1044,2421:-282.56,-197.372,-188.642,-85.5445,0,-64.7735 1/2:156:0,87,68:0:0:87,68:3107,2436:-451.975,-198.666,-172.476,-253.308,0,-232.838 1/2:108:0,74,34:0:0:74,34:2639,1200:-313.196,-98.0693,-75.7931,-215.48,0,-205.245 1/1:104:1,103,0:1:35:103,0:3683,0:-328.155,-27.8085,0,-328.456,-31.0061,-331.304 1/1:94:0,94,0:0:0:94,0:3351,0:-301.807,-28.2968,0,-301.807,-28.2968,-301.807 chr07 4470516 . T C 45125.2 PASS AB=0.598075;ABP=72.4373;AC=31;AF=0.738095;AN=42;AO=2045;CIGAR=1X;DP=2506;DPB=2506;DPRA=0.977049;EPP=4263.14;EPPR=929.271;GTI=1;LEN=1;MEANALT=1.15;MQM=59.5032;MQMR=59.9389;NS=21;NUMALT=1;ODDS=17.5639;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72796;QR=16064;RO=458;RPL=2025;RPP=4271.65;RPPR=937.673;RPR=20;RUN=1;SAF=1;SAP=4434.99;SAR=2044;SRF=1;SRP=988.878;SRR=457;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:2,137:2:72:137:4888:-433.217,-35.0064,0 1/1:238:0,238:0:0:238:8512:-765.915,-71.6451,0 1/1:68:0,68:0:0:68:2440:-219.656,-20.47,0 1/1:179:0,178:0:0:178:6349:-570.691,-53.5833,0 1/1:237:1,236:1:36:236:8383:-750.717,-67.7458,0 1/1:109:0,109:0:0:109:3891:-349.46,-32.8123,0 1/1:159:0,159:0:0:159:5636:-507.267,-47.8638,0 0/0:122:122,0:122:4301:0:0:0,-36.7257,-387.269 1/1:190:0,189:0:0:189:6711:-603.605,-56.8947,0 1/1:10:0,10:0:0:10:356:-32.3747,-3.0103,0 0/1:16:3,13:3:108:13:468:-37.635,0,-5.25869 0/1:42:14,28:14:500:28:996:-77.3116,0,-32.6929 0/1:163:77,86:77:2682:86:3079:-228.148,0,-192.555 0/1:115:43,72:43:1500:72:2495:-189.832,0,-100.675 0/1:158:72,86:72:2547:86:3057:-227.795,0,-181.863 0/1:88:34,54:34:1162:54:1924:-146.945,0,-78.3887 0/1:75:34,41:34:1204:41:1464:-109.478,0,-86.0886 0/1:68:31,36:31:1092:36:1284:-95.2592,0,-78.061 0/1:106:25,81:25:860:81:2878:-227.339,0,-45.8052 1/1:145:0,145:0:0:145:5161:-464.547,-43.6494,0 1/1:79:0,79:0:0:79:2824:-254.374,-23.7814,0 chr07 4475903 . C T 3341.43 PASS AB=0.439614;ABP=16.1231;AC=11;AF=0.261905;AN=42;AO=209;CIGAR=1X;DP=1063;DPB=1063;DPRA=0.964697;EPP=439.642;EPPR=1812.1;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.94293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7457;QR=30477;RO=853;RPL=2;RPP=439.642;RPPR=1812.1;RPR=207;RUN=1;SAF=209;SAP=456.848;SAR=0;SRF=853;SRP=1855.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:69,1:69:2472:1:36:0,-17.4738,-219.135 0/0:75:75,0:75:2680:0:0:0,-22.5772,-241.445 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.83 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 0/0:118:116,2:116:4154:2:72:0,-28.6848,-367.205 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/0:53:53,0:53:1888:0:0:0,-15.9546,-170.198 1/1:23:0,23:0:0:23:813:-73.4891,-6.92369,0 0/0:74:74,0:74:2647:0:0:0,-22.2762,-238.476 0/0:24:24,0:24:849:0:0:0,-7.22472,-76.7278 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:21:13,8:13:464:8:288:-19.9458,0,-35.7759 0/1:26:13,13:13:453:13:460:-33.9086,0,-33.2728 0/1:43:28,15:28:1008:15:540:-35.9922,0,-78.0921 0/1:129:79,49:79:2840:49:1732:-117.271,0,-216.946 0/1:40:19,21:19:684:21:748:-55.6041,0,-49.8491 0/1:72:35,37:35:1229:37:1328:-98.1481,0,-89.2377 0/1:63:33,30:33:1184:30:1080:-78.5484,0,-87.9034 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/0:60:60,0:60:2127:0:0:0,-18.0618,-191.698 0/0:24:23,1:23:806:1:36:0,-3.62644,-69.2599 chr07 4475934 . A G 17894.9 PASS AB=0.556901;ABP=14.6248;AC=31;AF=0.738095;AN=42;AO=846;CIGAR=1X;DP=1058;DPB=1058;DPRA=2.15417;EPP=1840.08;EPPR=463.362;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.04893;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30119;QR=7603;RO=212;RPL=846;RPP=1840.08;RPPR=463.362;RPR=0;RUN=1;SAF=846;SAP=1840.08;SAR=0;SRF=212;SRP=463.362;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:1,69:1:36:69:2432:-215.536,-17.4738,0 1/1:73:0,73:0:0:73:2606:-234.788,-21.9752,0 1/1:57:0,57:0:0:57:2040:-183.872,-17.1587,0 1/1:35:0,35:0:0:35:1260:-113.705,-10.5361,0 1/1:121:2,119:2:72:119:4232:-374.223,-29.5879,0 1/1:32:0,32:0:0:32:1129:-101.917,-9.63296,0 1/1:55:0,55:0:0:55:1953:-176.045,-16.5567,0 0/0:24:24,0:24:855:0:0:0,-7.22472,-77.2702 1/1:73:1,72:1:36:72:2576:-228.491,-18.3769,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 0/1:7:4,3:4:144:3:104:-7.5956,0,-11.2064 0/1:21:8,13:8:284:13:464:-35.7759,0,-19.5817 0/1:28:14,14:14:504:14:504:-37.2693,0,-37.2693 0/1:43:14,29:14:496:29:1033:-80.3382,0,-32.03 0/1:125:48,77:48:1724:77:2735:-208.764,0,-117.817 0/1:41:22,19:22:792:19:684:-49.5481,0,-59.2634 0/1:71:36,35:36:1296:35:1238:-90.3497,0,-95.5708 0/1:63:32,31:32:1148:31:1099:-80.2546,0,-84.6649 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 1/1:60:0,60:0:0:60:2130:-191.967,-18.0618,0 1/1:21:1,20:1:36:20:716:-61.1694,-2.72336,0 chr07 4503025 . A G 2793.15 PASS AB=0.331169;ABP=117.393;AC=12;AF=0.285714;AN=42;AO=193;CIGAR=1X;DP=997;DPB=997;DPRA=0.859467;EPP=422.104;EPPR=1748.87;GTI=1;LEN=1;MEANALT=1;MQM=57.2176;MQMR=55.7537;NS=21;NUMALT=1;ODDS=5.31374;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6909;QR=28800;RO=804;RPL=0;RPP=422.104;RPPR=1748.87;RPR=193;RUN=1;SAF=0;SAP=422.104;SAR=193;SRF=0;SRP=1748.87;SRR=804;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:5:5,0:5:180:0:0:0,-1.50515,-14.0925 0/0:60:60,0:60:2134:0:0:0,-18.0618,-192.318 0/0:46:46,0:46:1632:0:0:0,-13.8474,-146.738 0/1:87:79,8:79:2818:8:288:-0.0704556,0,-227.232 0/0:29:27,2:27:963:2:72:0,-1.89506,-69.3402 0/0:55:52,3:52:1860:3:108:0,-6.4843,-135.011 1/1:35:0,35:0:0:35:1237:-111.577,-10.5361,0 0/0:156:156,0:156:5612:0:0:0,-46.9607,-505.189 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:8:1,7:1:36:7:248:-20.2476,0,-0.715398 0/1:39:31,8:31:1112:8:284:-14.1516,0,-88.6466 0/1:82:48,34:48:1728:34:1224:-85.614,0,-131.121 0/1:71:42,29:42:1512:29:1036:-72.0866,0,-115.001 0/1:52:33,19:33:1180:19:684:-46.217,0,-90.8545 0/1:10:6,4:6:216:4:144:-10.2922,0,-16.7802 0/1:16:11,5:11:396:5:180:-11.731,0,-31.1663 0/1:48:25,23:25:896:23:828:-60.2473,0,-66.0772 0/1:49:33,16:33:1188:16:576:-37.4093,0,-92.4735 0/0:84:84,0:84:3001:0:0:0,-25.2865,-269.892 0/0:42:42,0:42:1512:0:0:0,-12.6433,-120.886 chr07 4503030 . C T 19751.1 PASS AB=0.616622;ABP=47.0743;AC=31;AF=0.738095;AN=42;AO=816;CIGAR=1X;DP=1006;DPB=1006;DPRA=1.47424;EPP=849.501;EPPR=406.95;GTI=0;LEN=1;MEANALT=1;MQM=55.7132;MQMR=57.0895;NS=21;NUMALT=1;ODDS=1.27198;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29268;QR=6800;RO=190;RPL=126;RPP=849.501;RPPR=406.95;RPR=690;RUN=1;SAF=0;SAP=1774.93;SAR=816;SRF=0;SRP=415.59;SRR=190;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:14:1,13:1:36:13:468:-38.8624,-0.617151,0 1/1:5:0,5:0:0:5:180:-14.0925,-1.50515,0 1/1:62:0,62:0:0:62:2209:-199.064,-18.6639,0 1/1:46:0,46:0:0:46:1648:-148.18,-13.8474,0 1/1:91:8,83:8:288:83:2974:-240.685,-1.13367,0 1/1:29:2,27:2:72:27:957:-68.6153,-1.89506,0 1/1:55:3,52:3:108:52:1868:-135.331,-6.4843,0 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.82 1/1:161:0,161:0:0:161:5788:-521.022,-48.4658,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:10:8,2:8:284:2:72:-2.92461,0,-22.8142 0/1:39:8,31:8:288:31:1116:-89.0069,0,-14.5148 0/1:81:33,48:33:1180:48:1720:-130.702,0,-81.958 0/1:68:27,41:27:964:41:1476:-112.666,0,-66.5144 0/1:53:20,33:20:708:33:1180:-90.5535,0,-48.072 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.2922 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79445 0/1:47:22,25:22:788:25:892:-66.0176,0,-56.9515 0/1:50:17,33:17:612:33:1188:-92.1725,0,-40.2767 1/1:83:0,83:0:0:83:2980:-268.004,-24.9855,0 1/1:44:0,44:0:0:44:1580:-127.205,-13.2453,0 chr07 4603925 . G T 32535.6 PASS AB=0.516582;ABP=4.88264;AC=31;AF=0.738095;AN=42;AO=1497;CIGAR=1X;DP=2008;DPB=2008;DPRA=0.740551;EPP=3184.59;EPPR=1061.13;GTI=0;LEN=1;MEANALT=1;MQM=59.6313;MQMR=60;NS=21;NUMALT=1;ODDS=15.016;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53660;QR=18295;RO=511;RPL=8;RPP=3184.59;RPPR=1061.13;RPR=1489;RUN=1;SAF=0;SAP=3253.7;SAR=1497;SRF=0;SRP=1112.63;SRR=511;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:2,104:2:72:104:3729:-328.945,-25.0725,0 1/1:37:0,37:0:0:37:1328:-119.805,-11.1381,0 1/1:149:0,149:0:0:149:5356:-482.111,-44.8535,0 1/1:69:0,69:0:0:69:2469:-222.451,-20.7711,0 1/1:175:2,173:2:72:173:6212:-552.294,-45.8435,0 1/1:93:0,93:0:0:93:3344:-301.165,-27.9958,0 1/1:134:1,133:1:36:133:4776:-426.332,-36.7397,0 0/0:127:127,0:127:4547:0:0:0,-38.2308,-409.396 1/1:156:0,156:0:0:156:5600:-503.928,-46.9607,0 1/1:13:0,13:0:0:13:464:-42.0798,-3.91339,0 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/1:50:26,24:26:936:24:864:-63.0311,0,-69.508 0/1:186:88,98:88:3143:98:3509:-259.927,0,-227.104 0/1:106:46,60:46:1656:60:2133:-160.293,0,-117.419 0/1:174:106,68:106:3782:68:2444:-167.835,0,-288.199 0/1:36:19,17:19:684:17:612:-44.5671,0,-51.0532 0/1:56:25,31:25:900:31:1112:-83.5337,0,-64.4633 0/1:110:49,61:49:1755:61:2192:-164.24,0,-125.12 0/1:56:13,43:13:464:43:1525:-120.683,0,-25.2398 1/1:124:0,124:0:0:124:4407:-396.736,-37.3277,0 1/1:41:0,41:0:0:41:1476:-133.093,-12.3422,0 chr07 4603942 . A T 31598.3 PASS AB=0.515385;ABP=4.61385;AC=31;AF=0.738095;AN=42;AO=1492;CIGAR=1X;DP=1999;DPB=1999;DPRA=0.756048;EPP=3242.85;EPPR=1101.78;GTI=0;LEN=1;MEANALT=1;MQM=59.6481;MQMR=59.9881;NS=21;NUMALT=1;ODDS=15.25;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53016;QR=18138;RO=506;RPL=1492;RPP=3242.85;RPPR=1101.78;RPR=0;RUN=1;SAF=0;SAP=3242.85;SAR=1492;SRF=0;SRP=1101.78;SRR=506;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:2,104:2:72:104:3693:-325.7,-25.0725,0 1/1:37:0,37:0:0:37:1313:-118.452,-11.1381,0 1/1:148:0,148:0:0:148:5279:-475.192,-44.5524,0 1/1:69:0,69:0:0:69:2444:-220.206,-20.7711,0 1/1:174:2,172:2:72:172:6101:-542.318,-45.5425,0 1/1:94:0,94:0:0:94:3349:-301.61,-28.2968,0 1/1:133:1,132:1:36:132:4674:-417.176,-36.4387,0 0/0:124:123,0:123:4400:0:0:0,-37.0267,-395.813 1/1:156:0,156:0:0:156:5514:-496.288,-46.9607,0 1/1:14:0,14:0:0:14:500:-45.3185,-4.21442,0 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/1:49:26,23:26:936:23:801:-57.6562,0,-69.809 0/1:185:88,97:88:3156:97:3460:-255.91,0,-228.574 0/1:104:46,58:46:1656:58:2064:-154.7,0,-118.021 0/1:174:104,70:104:3722:70:2497:-172.602,0,-282.801 0/1:36:19,17:19:684:17:600:-43.4829,0,-51.0532 0/1:56:25,31:25:900:31:1085:-81.0993,0,-64.4633 0/1:109:48,61:48:1724:61:2177:-163.051,0,-122.633 0/1:57:15,42:15:532:42:1504:-118.496,0,-31.0525 1/1:123:0,123:0:0:123:4385:-394.746,-37.0267,0 1/1:41:0,41:0:0:41:1468:-132.378,-12.3422,0 chr07 4655796 . CAG GAG,GAA 50133.7 PASS AB=0.422535,0.576459;ABP=54.8198,53.4828;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1626,692;CIGAR=1X2M,1X1M1X;DP=2322;DPB=2322;DPRA=0.950862,0.97229;EPP=3533.82,1505.67;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.7,2.09091;MQM=59.6464,50.4566;MQMR=0;NS=21;NUMALT=2;ODDS=2.09071;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58239,24493;QR=0;RO=0;RPL=0,0;RPP=3533.82,1505.67;RPPR=0;RPR=1626,692;RUN=1,1;SAF=1626,692;SAP=3533.82,1505.67;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106,0:0:0:106,0:3797,0:-341.623,-31.9092,0,-341.623,-31.9092,-341.623 1/1:35:0,35,0:0:0:35,0:1245,0:-112.314,-10.5361,0,-112.314,-10.5361,-112.314 1/1:138:0,138,0:0:0:138,0:4941,0:-444.794,-41.5421,0,-444.794,-41.5421,-444.794 1/1:74:0,74,0:0:0:74,0:2652,0:-238.858,-22.2762,0,-238.858,-22.2762,-238.858 1/1:101:0,100,0:0:0:100,0:3558,0:-320.035,-30.103,0,-320.035,-30.103,-320.035 1/1:76:0,75,0:0:0:75,0:2700,0:-242.873,-22.5773,0,-242.873,-22.5773,-242.873 1/1:318:0,318,0:0:0:318,0:11392,0:-1024.92,-95.7275,0,-1024.92,-95.7275,-1024.92 2/2:116:0,0,116:0:0:0,116:0,4106:-368.144,-368.144,-368.144,-34.9195,-34.9195,0 1/1:206:0,206,0:0:0:206,0:7354,0:-661.805,-62.0122,0,-661.805,-62.0122,-661.805 1/1:19:0,19,0:0:0:19,0:684,0:-61.8797,-5.71957,0,-61.8797,-5.71957,-61.8797 1/2:12:0,3,9:0:0:3,9:108,315:-34.4338,-25.618,-24.7149,-9.17208,0,-6.46281 1/2:37:0,12,24:0:0:12,24:428,856:-104.498,-69.6067,-65.9943,-34.9608,0,-27.736 1/2:324:0,126,198:0:0:126,198:4520,6988:-934.547,-565.877,-527.947,-369.026,0,-309.422 1/2:146:0,58,88:0:0:58,88:2080,3109:-421.603,-252.134,-234.674,-169.824,0,-143.334 1/2:212:0,80,132:0:0:80,132:2872,4672:-613.546,-379.29,-355.208,-234.613,0,-194.877 1/2:50:0,16,34:0:0:16,34:576,1201:-144.673,-97.6712,-92.8547,-47.3585,0,-37.1235 1/2:55:0,15,40:0:0:15,40:536,1434:-160.1,-116.419,-111.904,-44.038,0,-31.9968 1/2:101:0,69,32:0:0:69,32:2480,1136:-294.509,-92.2137,-71.4426,-202.65,0,-193.017 1/2:57:0,41,16:0:0:41,16:1476,568:-166.89,-46.4728,-34.1306,-120.773,0,-115.956 1/1:90:0,86,3:0:0:86,3:3080,108:-277.012,-25.8886,0,-268.649,-17.5363,-267.746 1/1:49:0,49,0:0:0:49,0:1760,0:-158.663,-14.7505,0,-158.663,-14.7505,-158.663 chr07 4655897 . TTAAA CCAAA,CTAAA 26455.8 PASS AB=0.519231,0.473776;ABP=4.8477,6.42695;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1174,336;CIGAR=2X3M,1X4M;DP=1525;DPB=1525;DPRA=1.16032,0.890974;EPP=2552.32,732.625;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2,2.30769;MQM=32.8756,59.7679;MQMR=60;NS=21;NUMALT=2;ODDS=12.1384;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38144,12034;QR=36;RO=1;RPL=0,0;RPP=2552.32,732.625;RPPR=5.18177;RPR=1174,336;RUN=1,1;SAF=0,0;SAP=2552.32,732.625;SAR=1174,336;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,67,0:0:0:67,0:2206,0:-181.633,-20.169,0,-181.633,-20.169,-181.633 1/1:30:0,30,0:0:0:30,0:884,0:-71.7847,-9.0309,0,-71.7847,-9.0309,-71.7847 1/1:48:0,48,0:0:0:48,0:1619,0:-133.017,-14.4494,0,-133.017,-14.4494,-133.017 1/1:114:0,113,1:0:0:113,1:3770,36:-309.53,-34.0164,0,-306.62,-30.7506,-306.319 1/1:203:0,203,0:0:0:203,0:6747,0:-555.01,-61.1091,0,-555.01,-61.1091,-555.01 1/1:103:0,102,1:0:0:102,1:3031,36:-245.952,-30.7051,0,-243.083,-27.4851,-242.782 1/1:101:0,97,0:0:0:97,0:2874,0:-233.233,-29.1999,0,-233.233,-29.1999,-233.233 2/2:63:0,0,62:0:0:0,62:0,2219:-199.727,-199.727,-199.727,-18.6639,-18.6639,0 1/1:93:0,92,0:0:0:92,0:3227,0:-267.264,-27.6948,0,-267.264,-27.6948,-267.264 1/1:9:0,8,0:0:0:8,0:256,0:-20.9712,-2.40824,0,-20.9712,-2.40824,-20.9712 1/2:12:0,3,9:0:0:3,9:90,324:-33.1588,-26.7966,-25.8935,-6.65463,0,-3.94536 1/2:30:0,13,17:0:0:13,17:407,608:-79.2423,-49.8775,-45.9641,-29.6809,0,-24.5634 1/2:95:0,53,41:0:0:53,41:1793,1476:-251.826,-120.54,-104.586,-131.37,0,-119.028 1/2:69:0,40,28:0:0:40,28:1330,1008:-179.13,-82.3345,-70.2933,-96.8586,0,-88.4297 1/2:120:1,58,61:1:36:58,61:1943,2184:-317.212,-175.164,-160.641,-139.384,0,-123.959 1/2:42:0,20,22:0:0:20,22:707,792:-117.383,-64.983,-58.9624,-52.7412,0,-46.1185 1/2:68:0,33,35:0:0:33,35:1136,1244:-186.29,-101.727,-91.7928,-84.8996,0,-74.3636 1/2:66:0,32,33:0:0:32,33:1018,1184:-170.22,-96.7057,-87.0727,-73.6129,0,-63.6789 1/2:70:0,45,25:0:0:45,25:1494,887:-182.154,-72.6224,-59.076,-109.868,0,-102.342 1/1:71:0,71,0:0:0:71,0:2249,0:-183.734,-21.3731,0,-183.734,-21.3731,-183.734 1/1:50:0,46,1:0:0:46,1:1363,36:-110.495,-13.8474,0,-107.556,-10.875,-107.255 chr07 4655940 . GAATT GATT 18653.5 PASS AB=0.514886;ABP=4.10935;AC=31;AF=0.738095;AN=42;AO=1168;CIGAR=1M1D3M;DP=1512;DPB=1278;DPRA=1.13125;EPP=2539.29;EPPR=745.654;GTI=0;LEN=1;MEANALT=1.1;MQM=32.8408;MQMR=59.8567;NS=21;NUMALT=1;ODDS=11.2649;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37986;QR=12119;RO=342;RPL=1168;RPP=2539.29;RPPR=745.654;RPR=0;RUN=1;SAF=0;SAP=2539.29;SAR=1168;SRF=0;SRP=745.654;SRR=342;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68:0:0:68:2228:-183.548,-20.47,0 1/1:30:0,30:0:0:30:888:-72.0659,-9.0309,0 1/1:48:0,48:0:0:48:1617:-132.917,-14.4494,0 1/1:113:0,113:0:0:113:3738:-307.85,-34.0164,0 1/1:199:0,199:0:0:199:6641:-544.754,-59.905,0 1/1:102:0,101:0:0:101:2973:-241.671,-30.404,0 1/1:100:0,100:0:0:100:3009:-245.008,-30.103,0 0/0:64:64,0:64:2297:0:0:0,-19.2659,-206.983 1/1:91:0,90:0:0:90:3161:-261.081,-27.0927,0 1/1:9:0,9:0:0:9:277:-22.7719,-2.70927,0 0/1:12:9,3:9:324:3:90:-3.94536,0,-25.8935 0/1:29:16,13:16:557:13:414:-25.2981,0,-41.6988 0/1:94:41,53:41:1457:53:1785:-118.877,0,-103.129 0/1:70:30,40:30:1052:40:1324:-87.7968,0,-73.9177 0/1:122:64,58:64:2252:58:1951:-123.953,0,-166.216 0/1:41:22,19:22:785:19:680:-44.0389,0,-58.6322 0/1:69:36,33:36:1269:33:1161:-75.7827,0,-93.7385 0/1:66:34,32:34:1200:32:1013:-63.1648,0,-88.433 0/1:68:25,43:25:890:43:1441:-98.2792,0,-59.9492 1/1:69:0,69:0:0:69:2192:-178.884,-20.7711,0 1/1:48:1,47:1:36:47:1403:-110.217,-10.8512,0 chr07 4666669 . C T 32388.7 PASS AB=0.414044;ABP=56.0195;AC=30;AF=0.714286;AN=42;AO=1409;CIGAR=1X;DP=2182;DPB=2182;DPRA=0.479612;EPP=2211.18;EPPR=1233.57;GTI=1;LEN=1;MEANALT=1.05;MQM=59.885;MQMR=59.9728;NS=21;NUMALT=1;ODDS=2.3325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50084;QR=27350;RO=771;RPL=1303;RPP=2211.18;RPPR=1233.57;RPR=106;RUN=1;SAF=1409;SAP=3062.61;SAR=0;SRF=771;SRP=1677.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:2,95:2:72:95:3370:-296.669,-22.3632,0 1/1:27:0,27:0:0:27:964:-87.0237,-8.12781,0 1/1:83:1,82:1:36:82:2911:-258.628,-21.3872,0 1/1:107:0,107:0:0:107:3808:-342.92,-32.2102,0 1/1:162:4,158:4:144:158:5622:-492.789,-35.4532,0 1/1:75:0,75:0:0:75:2670:-240.539,-22.5773,0 1/1:102:0,102:0:0:102:3613:-325.238,-30.7051,0 0/0:206:205,0:205:7210:0:0:0,-61.7111,-648.603 1/1:217:1,216:1:36:216:7649:-684.825,-61.7252,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:10:7,3:7:248:3:104:-6.69251,0,-19.6539 0/1:32:14,18:14:500:18:644:-48.6576,0,-35.7032 0/1:245:147,98:147:5228:98:3504:-241.818,0,-396.904 0/1:102:57,44:57:2011:44:1548:-108.848,0,-150.499 0/1:192:125,67:125:4471:67:2385:-157.101,0,-344.737 0/0:79:72,7:72:2556:7:248:0,-1.11717,-207.625 0/1:77:63,14:63:2240:14:504:-22.5188,0,-178.685 0/1:83:42,41:42:1486:41:1455:-106.26,0,-109.048 0/1:85:28,57:28:1004:57:2035:-157.832,0,-65.0883 1/1:136:3,133:3:108:133:4733:-416.049,-30.8649,0 1/1:46:0,46:0:0:46:1637:-147.617,-13.8474,0 chr07 4666756 . T A 53864.9 PASS AB=0.450348;ABP=27.5926;AC=31;AF=0.738095;AN=42;AO=2034;CIGAR=1X;DP=2864;DPB=2864;DPRA=0;EPP=4419.79;EPPR=1805.33;GTI=1;LEN=1;MEANALT=1;MQM=50.3387;MQMR=49.6711;NS=21;NUMALT=1;ODDS=0.814533;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72853;QR=29742;RO=830;RPL=1165;RPP=96.548;RPPR=274.272;RPR=869;RUN=1;SAF=869;SAP=96.548;SAR=1165;SRF=254;SRP=274.272;SRR=576;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:4,111:4:140:111:3932:-334.409,-21.721,0 1/1:26:0,26:0:0:26:936:-82.3785,-7.82678,0 1/1:158:0,158:0:0:158:5672:-506.146,-47.5627,0 1/1:172:0,172:0:0:172:6156:-547.245,-51.7772,0 1/1:237:2,235:2:72:235:8400:-743.277,-64.5445,0 1/1:96:0,96:0:0:96:3440:-300.672,-28.8989,0 1/1:197:1,196:1:36:196:7020:-610.623,-55.7046,0 0/0:179:177,2:177:6348:2:72:0,-47.2292,-560.234 1/1:217:4,213:4:144:213:7625:-667.783,-52.0208,0 1/1:18:1,17:1:36:17:612:-51.4018,-1.83977,0 0/1:6:5,1:5:180:1:36:-1.64831,0,-14.5289 0/1:41:25,16:25:900:16:576:-39.2264,0,-67.1886 0/1:173:89,84:89:3200:84:3012:-214.545,0,-233.819 0/1:178:92,86:92:3300:86:3076:-218.435,0,-241.937 0/1:309:206,103:206:7369:103:3700:-237.464,0,-566.958 0/1:69:37,32:37:1324:32:1148:-82.0891,0,-98.1434 0/1:78:56,22:56:1993:22:792:-47.8076,0,-155.634 0/1:169:82,87:82:2944:87:3128:-227.6,0,-210.613 0/1:125:39,86:39:1396:86:3084:-237.189,0,-87.5063 1/1:210:6,204:6:216:204:7312:-624.377,-43.5331,0 1/1:91:4,87:4:144:87:3124:-261.79,-14.5558,0 chr07 4845727 . GATG GATA,AATA 53946.6 PASS AB=0.588367,0.408277;ABP=63.6464,68.3391;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1979,483;CIGAR=3M1X,1X2M1X;DP=2471;DPB=2471;DPRA=1.02435,0.758252;EPP=4300.35,1051.83;EPPR=5.18177;GTI=2;LEN=1,4;MEANALT=1.9,2.23077;MQM=59.9833,59.9876;MQMR=60;NS=21;NUMALT=2;ODDS=0.911924;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70844,17073;QR=36;RO=1;RPL=1979,483;RPP=4300.35,1051.83;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1979,483;SAP=4300.35,1051.83;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:170:0,169,1:0:0:169,1:6050,36:-544.241,-50.8741,0,-541.304,-47.5768,-541.003 1/1:106:0,106,0:0:0:106,0:3801,0:-342.285,-31.9092,0,-342.285,-31.9092,-342.285 1/1:128:0,128,0:0:0:128,0:4599,0:-414.072,-38.5318,0,-414.072,-38.5318,-414.072 1/1:147:1,146,0:1:36:146,0:5229,0:-467.147,-40.6531,0,-467.448,-43.9504,-470.386 1/1:198:0,195,0:0:0:195,0:6975,0:-627.176,-58.7009,0,-627.176,-58.7009,-627.176 1/1:92:0,92,0:0:0:92,0:3299,0:-297.127,-27.6948,0,-297.127,-27.6948,-297.127 1/1:204:0,203,0:0:0:203,0:7280,0:-654.999,-61.1091,0,-654.999,-61.1091,-654.999 2/2:115:0,0,114:0:0:0,114:0,4025:-362.08,-362.08,-362.08,-34.3174,-34.3174,0 1/1:225:0,225,0:0:0:225,0:8076,0:-726.854,-67.7318,0,-726.854,-67.7318,-726.854 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:10:0,7,3:0:0:7,3:252,108:-29.734,-9.17208,-7.06487,-20.9217,0,-20.0187 1/2:25:0,20,5:0:0:20,5:720,171:-72.9835,-14.2208,-8.20017,-59.1082,0,-57.603 1/2:109:0,55,54:0:0:55,54:1980,1929:-319.19,-157.631,-141.074,-161.918,0,-145.662 1/2:126:0,87,38:0:0:87,38:3075,1331:-358.723,-108.288,-82.0984,-250.427,0,-238.988 1/2:132:0,72,60:0:0:72,60:2576,2137:-384.595,-174.536,-152.862,-210.415,0,-192.354 1/2:93:0,82,11:0:0:82,11:2906,373:-267.333,-30.5851,-5.9006,-237.089,0,-233.778 1/2:74:0,65,9:0:0:65,9:2321,322:-215.839,-26.615,-7.04806,-189.581,0,-186.872 1/2:196:0,52,142:0:0:52,142:1868,4998:-559.286,-406.897,-391.244,-152.415,0,-109.669 1/2:129:0,86,43:0:0:86,43:3065,1535:-375.332,-125.499,-99.6102,-250.189,0,-237.245 1/1:116:0,115,1:0:0:115,1:4116,36:-370.265,-34.6185,0,-367.328,-31.3212,-367.027 1/1:69:0,67,2:0:0:67,2:2404,72:-216.257,-20.169,0,-210.382,-13.9343,-209.78 chr07 4845745 . C T 88924.3 PASS AB=0.607345;ABP=144.733;AC=31;AF=0.738095;AN=42;AO=3255;CIGAR=1X;DP=3976;DPB=3976;DPRA=1.20823;EPP=7071.15;EPPR=1568.64;GTI=2;LEN=1;MEANALT=1;MQM=55.3336;MQMR=59.9626;NS=21;NUMALT=1;ODDS=7.77331;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=116098;QR=25698;RO=721;RPL=1937;RPP=258.624;RPPR=169.334;RPR=1318;RUN=1;SAF=1937;SAP=258.624;SAR=1318;SRF=478;SRP=169.334;SRR=243;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:233:1,232:1:36:232:8289:-740.434,-66.5417,0 1/1:196:0,196:0:0:196:6972:-625.446,-59.0019,0 1/1:184:0,184:0:0:184:6573:-589.498,-55.3895,0 1/1:277:0,277:0:0:277:9833:-881.029,-83.3853,0 1/1:375:2,373:2:72:373:13338:-1187.33,-106.05,0 1/1:191:0,191:0:0:191:6826:-611.676,-57.4967,0 1/1:270:0,270:0:0:270:9596:-861.312,-81.2781,0 0/0:158:158,0:158:5655:0:0:0,-47.5627,-509.065 1/1:326:1,325:1:36:325:11589:-1037.42,-94.5375,0 1/1:16:0,16:0:0:16:572:-51.6844,-4.81648,0 0/1:12:3,9:3:108:9:324:-25.8579,0,-6.46281 0/1:38:7,31:7:244:31:1116:-89.0657,0,-10.8603 0/1:200:81,119:81:2889:119:4256:-321.503,0,-200.039 0/1:198:71,127:71:2521:127:4543:-348.304,0,-167.537 0/1:237:98,139:98:3504:139:4976:-374.2,0,-244.227 0/1:145:31,114:31:1100:114:4062:-321.496,0,-55.6538 0/1:114:28,86:28:1004:86:3073:-242.033,0,-56.3584 0/1:266:171,95:171:6071:95:3364:-221.821,0,-466.417 0/1:206:66,140:66:2350:140:4972:-383.329,0,-149.743 1/1:214:1,213:1:36:213:7612:-678.546,-60.8221,0 1/1:120:2,118:2:72:118:4212:-371.675,-29.2869,0 chr07 4848190 . CGGG TGGA 6197.28 PASS AB=0.549915;ABP=15.8003;AC=12;AF=0.285714;AN=42;AO=377;CIGAR=1X2M1X;DP=1523;DPB=1523;DPRA=1.17363;EPP=821.655;EPPR=2476.32;GTI=1;LEN=4;MEANALT=1.28571;MQM=59.9576;MQMR=60;NS=21;NUMALT=1;ODDS=2.6733;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13099;QR=39236;RO=1139;RPL=0;RPP=821.655;RPPR=2476.32;RPR=377;RUN=1;SAF=0;SAP=821.655;SAR=377;SRF=0;SRP=2476.32;SRR=1139;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:87:84,3:84:2831:3:108:0,-16.1144,-244.955 0/0:6:6,0:6:204:0:0:0,-1.80618,-18.6923 0/0:108:108,0:108:3751:0:0:0,-32.5112,-337.795 0/0:70:69,0:69:2388:0:0:0,-20.7711,-214.817 0/0:172:169,3:169:5843:3:101:0,-42.3538,-516.575 0/0:48:47,1:47:1630:1:36:0,-10.8512,-143.389 0/0:93:93,0:93:3214:0:0:0,-27.9958,-289.487 1/1:38:0,38:0:0:38:1330:-119.998,-11.4391,0 0/0:113:112,0:112:3854:0:0:0,-33.7154,-346.706 0/0:4:4,0:4:143:0:0:0,-1.20412,-13.2214 1/1:4:0,4:0:0:4:138:-12.7602,-1.20412,0 0/1:21:10,10:10:332:10:340:-24.55,0,-23.823 0/1:129:61,68:61:2107:68:2385:-176.076,0,-151.063 0/1:90:26,62:26:894:62:2131:-165.205,0,-53.9217 0/1:110:58,52:58:1989:52:1783:-127.634,0,-146.167 0/1:40:18,22:18:614:22:775:-58.0304,0,-43.5375 0/1:42:7,35:7:237:35:1207:-96.2798,0,-9.01611 0/1:91:40,51:40:1372:51:1789:-133.899,0,-96.381 0/1:68:41,25:41:1417:25:875:-58.8778,0,-107.636 0/0:128:125,3:125:4352:3:101:0,-29.1087,-382.444 0/0:61:61,0:61:2064:0:0:0,-18.3628,-186.026 chr07 4848211 . C T 6527.66 PASS AB=0.558574;ABP=20.5627;AC=11;AF=0.261905;AN=42;AO=377;CIGAR=1X;DP=1519;DPB=1519;DPRA=1.14394;EPP=821.655;EPPR=2403.1;GTI=0;LEN=1;MEANALT=1;MQM=59.9098;MQMR=59.9982;NS=21;NUMALT=1;ODDS=8.20987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13457;QR=40775;RO=1141;RPL=376;RPP=812.993;RPPR=2403.1;RPR=1;RUN=1;SAF=1;SAP=812.993;SAR=376;SRF=0;SRP=2480.66;SRR=1141;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:83:80,3:80:2864:3:108:0,-14.9103,-247.922 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:108:107,0:107:3827:0:0:0,-32.2102,-344.267 0/0:70:70,0:70:2499:0:0:0,-21.0721,-225.162 0/0:171:169,2:169:6030:2:72:0,-44.6394,-535.966 0/0:47:46,1:46:1652:1:36:0,-10.5501,-145.37 0/0:97:97,0:97:3467:0:0:0,-29.1999,-312.242 1/1:38:0,38:0:0:38:1356:-122.34,-11.4391,0 0/0:117:117,0:117:4168:0:0:0,-35.2205,-375.301 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:19:10,9:10:345:9:315:-22.9677,0,-25.6613 0/1:127:59,68:59:2105:68:2440:-181.624,0,-151.487 0/1:90:26,64:26:928:64:2255:-176.116,0,-56.7456 0/1:109:59,50:59:2097:50:1787:-128.295,0,-156.186 0/1:39:17,22:17:608:22:792:-59.8655,0,-43.3119 0/1:41:6,35:6:216:35:1256:-100.989,0,-7.44828 0/1:90:39,51:39:1404:51:1832:-138.068,0,-99.5666 0/1:69:43,26:43:1544:26:929:-63.1206,0,-118.482 0/0:129:125,4:125:4465:4:135:0,-26.3504,-389.537 0/0:59:59,0:59:2124:0:0:0,-17.7608,-191.428 chr07 4920031 . CTTT CTCC,CTTC 50239.4 PASS AB=0.542692,0.455861;ABP=13.9494,14.7036;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1344,503;CIGAR=2M2X,3M1X;DP=1860;DPB=1859.75;DPRA=0.452703,1.23375;EPP=8.07707,86.4199;EPPR=0;GTI=0;LEN=2,1;MEANALT=2,2.53846;MQM=54.0685,54.5666;MQMR=0;NS=21;NUMALT=2;ODDS=9.1545;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47018,17972;QR=0;RO=0;RPL=2,1;RPP=2904.12,1086.59;RPPR=0;RPR=1342,502;RUN=1,1;SAF=702,183;SAP=8.82674,84.0369;SAR=642,320;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,76,0:0:0:76,0:2677,0:-240.793,-22.8783,0,-240.793,-22.8783,-240.793 1/1:63:0,59,0:0:0:59,0:2045,0:-183.038,-17.7608,0,-183.038,-17.7608,-183.038 1/1:37:0,37,0:0:0:37,0:1314,0:-118.477,-11.1381,0,-118.477,-11.1381,-118.477 1/1:94:0,94,0:0:0:94,0:3325,0:-298.886,-28.2968,0,-298.886,-28.2968,-298.886 1/1:140:0,133,3:0:0:133,3:4706,108:-422.441,-40.037,0,-413.636,-31.216,-412.733 1/1:94:0,94,0:0:0:94,0:3286,0:-295.073,-28.2968,0,-295.073,-28.2968,-295.073 1/1:138:0,138,0:0:0:138,0:4806,0:-431.263,-41.5421,0,-431.263,-41.5421,-431.263 2/2:185:0,0,183:0:0:0,183:0,6543:-587.362,-587.362,-587.362,-55.0885,-55.0885,0 1/1:142:0,139,1:0:0:139,1:4860,36:-436.003,-41.8432,0,-433.066,-38.862,-432.765 1/1:8:0,8,0:0:0:8,0:288,0:-26.2302,-2.40824,0,-26.2302,-2.40824,-26.2302 1/2:10:0,4,6:0:0:4,6:144,216:-29.4682,-17.7497,-16.5456,-12.076,0,-10.2698 1/2:26:0,12,14:0:0:12,14:424,504:-75.7874,-41.4117,-37.7994,-34.7309,0,-30.5165 1/2:84:0,44,40:0:0:44,40:1548,1432:-242.934,-117.032,-103.787,-126.257,0,-114.216 1/2:69:0,46,22:0:0:46,22:1583,764:-189.751,-62.1544,-48.3071,-127.687,0,-121.065 1/2:131:0,65,66:0:0:65,66:2309,2372:-381.252,-193.338,-173.771,-188.27,0,-168.402 1/2:62:0,24,38:0:0:24,38:847,1351:-179.297,-110.35,-103.125,-69.2999,0,-57.8608 1/2:56:0,29,27:0:0:29,27:1020,968:-162.063,-79.2107,-70.4808,-83.2073,0,-75.0795 1/2:146:0,80,66:0:0:80,66:2732,2358:-412.98,-191.937,-167.855,-221.392,0,-201.524 1/2:107:0,71,36:0:0:71,36:2462,1284:-304.501,-104.889,-83.5157,-199.964,0,-189.127 1/1:83:0,82,1:0:0:82,1:2901,36:-260.425,-24.6845,0,-257.49,-21.3898,-257.189 1/1:109:0,109,0:0:0:109,0:3741,0:-335.258,-32.8123,0,-335.258,-32.8123,-335.258 chr07 4920041 . A G 12199.7 PASS AB=0.460983;ABP=12.1606;AC=11;AF=0.261905;AN=42;AO=507;CIGAR=1X;DP=1862;DPB=1862;DPRA=1.26923;EPP=85.7618;EPPR=202.704;GTI=0;LEN=1;MEANALT=1;MQM=54.4221;MQMR=54.0052;NS=21;NUMALT=1;ODDS=9.25415;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18010;QR=48448;RO=1355;RPL=8;RPP=1035.56;RPPR=1440.2;RPR=499;RUN=1;SAF=192;SAP=67.8076;SAR=315;SRF=705;SRP=7.85805;SRR=650;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:76,0:76:2689:0:0:0,-22.8783,-241.851 0/0:61:61,0:61:2181:0:0:0,-18.3628,-195.281 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.091 0/0:92:91,1:91:3249:1:36:0,-24.1921,-288.515 0/0:142:139,3:139:4964:3:108:0,-32.6784,-435.351 0/0:94:94,0:94:3368:0:0:0,-28.2968,-302.287 0/0:137:137,0:137:4899:0:0:0,-41.2411,-438.611 1/1:182:0,182:0:0:182:6471:-580.702,-54.7875,0 0/0:146:144,2:144:5144:2:72:0,-37.3148,-453.616 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2302 0/1:11:5,6:5:180:6:216:-16.2446,0,-13.2027 0/1:26:12,14:12:428:14:504:-37.7994,0,-30.8532 0/1:84:43,41:43:1548:41:1461:-106.063,0,-114.212 0/1:71:45,26:45:1620:26:907:-60.4826,0,-123.553 0/1:127:64,63:64:2300:63:2239:-163.153,0,-168.79 0/1:62:25,37:25:896:37:1320:-100.383,0,-62.2669 0/1:57:29,28:29:1035:28:985:-71.7054,0,-76.128 0/1:148:80,68:80:2860:68:2399:-170.892,0,-212.349 0/1:106:70,36:70:2500:36:1292:-84.5078,0,-192.214 0/0:83:83,0:83:2955:0:0:0,-24.9855,-265.53 0/0:112:112,0:112:4012:0:0:0,-33.7154,-359.47 chr07 4920106 . 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C T 4604.47 PASS AB=0.44062;ABP=20.8044;AC=11;AF=0.261905;AN=42;AO=298;CIGAR=1X;DP=1732;DPB=1732;DPRA=0.95302;EPP=650.109;EPPR=3112.56;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.8322;MQMR=59.9853;NS=21;NUMALT=1;ODDS=5.85974;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10523;QR=47892;RO=1432;RPL=298;RPP=650.109;RPPR=3112.56;RPR=0;RUN=1;SAF=298;SAP=650.109;SAR=0;SRF=1432;SRP=3112.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:123,1:123:4075:1:36:0,-33.7294,-363.345 0/0:81:81,0:81:2739:0:0:0,-24.3834,-246.749 0/0:62:61,1:61:2055:1:36:0,-15.0656,-181.615 0/0:125:125,0:125:4163:0:0:0,-37.6287,-374.862 0/0:226:225,1:225:7681:1:36:0,-64.4345,-687.725 0/0:98:98,0:98:3258:0:0:0,-29.5009,-293.44 0/0:107:106,0:106:3529:0:0:0,-31.9092,-317.461 1/1:37:0,37:0:0:37:1320:-119.102,-11.1381,0 0/0:123:123,0:123:4192:0:0:0,-37.0267,-377.46 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:7:4,3:4:144:3:94:-6.66284,0,-11.2064 0/1:24:10,14:10:334:14:482:-36.4813,0,-23.1582 0/1:77:48,29:48:1634:29:1011:-68.1008,0,-124.161 0/1:111:50,61:50:1676:61:2147:-160.081,0,-117.701 0/1:99:54,45:54:1842:45:1612:-115.568,0,-136.252 0/1:80:45,35:45:1494:35:1235:-87.2813,0,-110.659 0/1:89:60,28:60:1959:28:992:-62.8598,0,-149.841 0/1:46:20,26:20:651:26:919:-69.1788,0,-45.0496 0/1:48:33,15:33:1066:15:531:-33.6725,0,-81.781 0/0:106:104,2:104:3452:2:72:0,-25.0725,-304.057 0/0:58:58,0:58:1808:0:0:0,-17.4597,-162.988 chr07 4973744 . T G 73091.5 PASS AB=0.503195;ABP=3.1213;AC=31;AF=0.738095;AN=42;AO=2711;CIGAR=1X;DP=3574;DPB=3574;DPRA=0.754955;EPP=5889.87;EPPR=1868.32;GTI=0;LEN=1;MEANALT=1;MQM=59.8185;MQMR=59.9896;NS=21;NUMALT=1;ODDS=7.18635;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=95377;QR=30826;RO=863;RPL=1327;RPP=5.6127;RPPR=3.01282;RPR=1384;RUN=1;SAF=1327;SAP=5.6127;SAR=1384;SRF=432;SRP=3.01282;SRR=431;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:0,162:0:0:162:5702:-513.29,-48.7669,0 1/1:232:0,232:0:0:232:8203:-737.937,-69.839,0 1/1:109:0,109:0:0:109:3865:-348.044,-32.8123,0 1/1:197:0,197:0:0:197:6908:-621.779,-59.3029,0 1/1:388:2,386:2:72:386:13600:-1216.94,-109.963,0 1/1:155:5,150:5:180:150:5281:-458.865,-30.1076,0 1/1:278:3,275:3:108:275:9655:-858.798,-73.6112,0 0/0:222:222,0:222:7905:0:0:0,-66.8287,-711.479 1/1:270:2,268:2:72:268:9411:-840.064,-74.4414,0 1/1:29:0,29:0:0:29:1007:-90.9367,-8.72987,0 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:73:47,26:47:1688:26:908:-60.0302,0,-130.23 0/1:196:112,84:112:3998:84:2956:-207.247,0,-301.007 0/1:139:63,76:63:2256:76:2683:-199.87,0,-161.46 0/1:271:125,146:125:4475:146:5119:-379.268,0,-321.34 0/1:119:52,67:52:1856:67:2375:-178.185,0,-131.497 0/1:84:50,34:50:1796:34:1196:-82.6522,0,-136.636 0/1:208:116,92:116:4152:92:3216:-227.048,0,-311.244 0/1:154:54,100:54:1917:100:3482:-267.222,0,-126.447 1/1:189:6,183:6:207:183:6481:-564.404,-37.9278,0 1/1:91:1,90:1:36:90:3149:-279.992,-23.7955,0 chr07 4974003 . T G 11487 PASS AB=0.513393;ABP=3.35929;AC=31;AF=0.738095;AN=42;AO=552;CIGAR=1X;DP=688;DPB=688;DPRA=1.326;EPP=1192.99;EPPR=296.159;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9819;MQMR=60;NS=21;NUMALT=1;ODDS=5.63082;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19220;QR=4840;RO=135;RPL=551;RPP=1192.99;RPPR=296.159;RPR=1;RUN=1;SAF=0;SAP=1201.66;SAR=552;SRF=0;SRP=296.159;SRR=135;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:38:0,38:0:0:38:1325:-119.544,-11.4391,0 1/1:22:0,22:0:0:22:770:-69.6193,-6.62266,0 1/1:29:0,29:0:0:29:1012:-91.3907,-8.72987,0 1/1:23:0,23:0:0:23:782:-70.6934,-6.92369,0 1/1:91:0,91:0:0:91:3189:-287.237,-27.3937,0 1/1:38:0,38:0:0:38:1321:-119.188,-11.4391,0 1/1:50:1,49:1:36:49:1704:-150.045,-11.4532,0 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5997 1/1:86:0,85:0:0:85:2979:-267.986,-25.5876,0 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/1:32:13,19:13:468:19:668:-50.8127,0,-32.8267 0/1:38:17,21:17:608:21:710:-52.7755,0,-43.6129 0/1:47:26,21:26:932:21:744:-53.1359,0,-70.0505 0/1:9:5,4:5:180:4:140:-10.2353,0,-13.8428 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:35:16,19:16:576:19:639:-47.2891,0,-41.6389 0/1:40:15,25:15:536:25:840:-63.8652,0,-36.5336 1/1:35:0,35:0:0:35:1235:-111.453,-10.5361,0 1/1:23:0,23:0:0:23:811:-73.31,-6.92369,0 chr07 4991416 . TT TG,GG 23084.1 PASS AB=0.492386,0.507614;ABP=3.20871,3.20871;AC=31,11;AF=0.738095,0.261905;AN=42;AO=832,246;CIGAR=1M1X,2X;DP=1078;DPB=1078;DPRA=0,0.690491;EPP=1809.68,537.193;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.61905,2;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=8.15945;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29504,8600;QR=0;RO=0;RPL=832,246;RPP=1809.68,537.193;RPPR=0;RPR=0,0;RUN=1,1;SAF=832,246;SAP=1809.68,537.193;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1923,0:-173.346,-16.2556,0,-173.346,-16.2556,-173.346 1/1:31:0,30,1:0:0:30,1:1045,36:-93.9983,-9.0309,0,-91.0605,-5.73366,-90.7595 1/1:55:0,55,0:0:0:55,0:1960,0:-176.675,-16.5567,0,-176.675,-16.5567,-176.675 1/1:49:0,49,0:0:0:49,0:1744,0:-157.244,-14.7505,0,-157.244,-14.7505,-157.244 1/1:101:0,101,0:0:0:101,0:3612,0:-325.286,-30.404,0,-325.286,-30.404,-325.286 1/1:53:0,52,1:0:0:52,1:1836,36:-165.158,-15.6536,0,-162.22,-12.3563,-161.919 1/1:81:0,81,0:0:0:81,0:2849,0:-256.647,-24.3834,0,-256.647,-24.3834,-256.647 2/2:43:0,1,42:0:0:1,42:32,1459:-131.28,-128.702,-128.401,-12.6433,-9.74498,0 1/1:109:0,109,0:0:0:109,0:3875,0:-348.945,-32.8123,0,-348.945,-32.8123,-348.945 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:12:0,8,4:0:0:8,4:280,144:-34.8841,-12.1095,-9.70126,-23.1311,0,-21.9269 1/2:31:0,11,20:0:0:11,20:387,687:-87.6319,-56.126,-52.8147,-31.8546,0,-25.834 1/2:58:0,26,32:0:0:26,32:912,1123:-165.96,-91.7427,-83.916,-74.5677,0,-64.9348 1/2:59:0,28,31:0:0:28,31:1008,1108:-172.948,-90.6993,-82.2704,-82.6075,0,-73.2756 1/2:63:0,37,26:0:0:37,26:1305,897:-179.477,-73.2137,-62.0756,-106.611,0,-98.7845 1/2:21:0,15,6:0:0:15,6:536,212:-61.3239,-17.6188,-13.1034,-44.0594,0,-42.2532 1/2:38:0,15,23:0:0:15,23:540,821:-111.351,-67.289,-62.7736,-44.4211,0,-37.4974 1/2:63:0,24,39:0:0:24,39:848,1343:-178.488,-109.423,-102.198,-69.4149,0,-57.6748 1/2:49:0,30,19:0:0:30,19:1056,662:-140.154,-54.1834,-45.1525,-86.32,0,-80.6004 1/1:49:0,47,2:0:0:47,2:1669,72:-150.136,-14.1484,0,-144.261,-7.91375,-143.659 1/1:55:0,55,0:0:0:55,0:1943,0:-175.146,-16.5567,0,-175.146,-16.5567,-175.146 chr07 4991609 . G A 6502.44 PASS AB=0.490654;ABP=3.49736;AC=11;AF=0.261905;AN=42;AO=379;CIGAR=1X;DP=1683;DPB=1683;DPRA=0.991034;EPP=817.335;EPPR=2780.56;GTI=0;LEN=1;MEANALT=1;MQM=59.8522;MQMR=59.6262;NS=21;NUMALT=1;ODDS=5.99439;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13449;QR=46518;RO=1303;RPL=1;RPP=817.335;RPPR=2780.56;RPR=378;RUN=1;SAF=379;SAP=825.998;SAR=0;SRF=1303;SRP=2832.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:138,0:138:4923:0:0:0,-41.5421,-443.2 0/0:55:55,0:55:1980:0:0:0,-16.5566,-178.466 0/0:78:77,1:77:2745:1:36:0,-19.8821,-243.673 0/0:70:70,0:70:2477:0:0:0,-21.0721,-223.174 0/0:178:175,3:175:6234:3:108:0,-43.5082,-550.447 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.179 0/0:115:115,0:115:4109:0:0:0,-34.6184,-369.875 1/1:60:0,60:0:0:60:2133:-192.234,-18.0618,0 0/0:152:151,0:151:5381:0:0:0,-45.4555,-484.15 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:32:14,18:14:496:18:625:-46.938,0,-35.3348 0/1:116:53,63:53:1904:63:2238:-166.764,0,-136.671 0/1:87:37,50:37:1319:50:1780:-134.293,0,-92.726 0/1:125:65,60:65:2328:60:2130:-154.201,0,-172.151 0/1:77:44,33:44:1565:33:1165:-81.9757,0,-117.96 0/1:77:41,36:41:1464:36:1255:-90.0689,0,-108.821 0/1:72:35,37:35:1256:37:1332:-98.5082,0,-91.6297 0/1:52:37,15:37:1324:15:539:-33.1926,0,-103.809 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.745 0/0:50:50,0:50:1769:0:0:0,-15.0515,-159.449 chr07 4991611 . A G 28159.7 PASS AB=0.49923;ABP=3.01365;AC=31;AF=0.738095;AN=42;AO=1302;CIGAR=1X;DP=1698;DPB=1698;DPRA=1.27656;EPP=2761.21;EPPR=843.458;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6636;MQMR=59.8582;NS=21;NUMALT=1;ODDS=7.28834;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46443;QR=14173;RO=395;RPL=8;RPP=2761.21;RPPR=843.458;RPR=1294;RUN=1;SAF=1302;SAP=2830.27;SAR=0;SRF=395;SRP=860.742;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:1,138:1:36:138:4919:-439.259,-38.2449,0 1/1:57:0,57:0:0:57:2035:-183.417,-17.1587,0 1/1:77:1,75:1:36:75:2690:-238.719,-19.6398,0 1/1:70:0,70:0:0:70:2496:-224.885,-21.0721,0 1/1:176:3,173:3:108:173:6167:-545.022,-42.9061,0 1/1:64:0,64:0:0:64:2283:-205.665,-19.2659,0 1/1:118:0,118:0:0:118:4202:-378.326,-35.5215,0 0/0:64:64,0:64:2281:0:0:0,-19.2659,-205.522 1/1:154:1,153:1:36:153:5466:-488.148,-42.7603,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:35:19,16:19:680:16:564:-40.545,0,-50.9925 0/1:116:63,53:63:2264:53:1889:-135.361,0,-169.103 0/1:88:51,37:51:1836:37:1309:-91.6043,0,-139.03 0/1:124:63,61:63:2264:61:2179:-159.048,0,-166.194 0/1:77:34,43:34:1224:43:1548:-116.434,0,-87.2877 0/1:79:37,42:37:1328:42:1467:-108.535,0,-96.0409 0/1:73:39,34:39:1400:34:1224:-88.455,0,-104.324 0/1:53:16,37:16:572:37:1328:-103.868,0,-35.8588 1/1:76:0,76:0:0:76:2724:-245.391,-22.8783,0 1/1:49:0,49:0:0:49:1737:-156.577,-14.7505,0 chr07 4991635 . A G 27804.7 PASS AB=0.502326;ABP=3.0406;AC=31;AF=0.738095;AN=42;AO=1300;CIGAR=1X;DP=1689;DPB=1689;DPRA=1.26953;EPP=2825.92;EPPR=847.713;GTI=0;LEN=1;MEANALT=1;MQM=59.62;MQMR=59.8792;NS=21;NUMALT=1;ODDS=6.96001;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46412;QR=13936;RO=389;RPL=1300;RPP=2825.92;RPPR=847.713;RPR=0;RUN=1;SAF=1300;SAP=2825.92;SAR=0;SRF=389;SRP=847.713;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:0,138:0:0:138:4924:-442.819,-41.5421,0 1/1:56:0,56:0:0:56:1995:-179.82,-16.8577,0 1/1:76:1,75:1:36:75:2673:-237.188,-19.28,0 1/1:70:0,70:0:0:70:2500:-225.245,-21.0721,0 1/1:175:3,172:3:108:172:6131:-541.709,-42.6051,0 1/1:65:0,65:0:0:65:2317:-208.742,-19.567,0 1/1:116:0,116:0:0:116:4137:-372.455,-34.9195,0 0/0:64:64,0:64:2296:0:0:0,-19.2659,-206.871 1/1:153:0,153:0:0:153:5462:-491.704,-46.0576,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:33:19,14:19:680:14:500:-35.3929,0,-51.5936 0/1:115:63,52:63:2249:52:1860:-133.058,0,-168.053 0/1:88:51,37:51:1836:37:1324:-92.8805,0,-139.03 0/1:126:62,64:62:2211:64:2291:-168.521,0,-161.054 0/1:75:34,41:34:1224:41:1468:-109.839,0,-87.8898 0/1:78:36,42:36:1292:42:1496:-111.43,0,-93.1034 0/1:73:37,36:37:1328:36:1274:-92.9476,0,-97.847 0/1:53:16,37:16:568:37:1328:-103.868,0,-35.4973 1/1:76:0,76:0:0:76:2732:-246.105,-22.8783,0 1/1:50:0,50:0:0:50:1784:-160.796,-15.0515,0 chr07 4991718 . GAG AAG,AAT 47711.8 PASS AB=0.510321,0.486239;ABP=3.81713,4.44467;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1616,586;CIGAR=1X2M,1X1M1X;DP=2206;DPB=2206.33;DPRA=0.666234,1.06093;EPP=3512.11,1275.49;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.9,2.2;MQM=59.9851,59.7099;MQMR=0;NS=21;NUMALT=2;ODDS=8.92109;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=57790,20642;QR=0;RO=0;RPL=1616,586;RPP=3512.11,1275.49;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3512.11,1275.49;SAR=1616,586;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:122:0,122,0:0:0:122,0:4336,0:-390.414,-36.7257,0,-390.414,-36.7257,-390.414 1/1:111:0,110,1:0:0:110,1:3952,34:-355.522,-33.1133,0,-352.764,-30.0154,-352.463 1/1:131:0,131,0:0:0:131,0:4688,0:-422.081,-39.4349,0,-422.081,-39.4349,-422.081 1/1:124:0,124,0:0:0:124,0:4429,0:-398.781,-37.3277,0,-398.781,-37.3277,-398.781 1/1:175:0,173,2:0:0:173,2:6208,72:-558.455,-52.0782,0,-552.58,-45.8435,-551.978 1/1:57:0,55,2:0:0:55,2:1976,70:-177.764,-16.5567,0,-172.069,-10.5114,-171.467 1/1:144:0,144,0:0:0:144,0:5133,0:-462.111,-43.3483,0,-462.111,-43.3483,-462.111 2/2:154:0,0,154:0:0:0,154:0,5446:-490.051,-490.051,-490.051,-46.3586,-46.3586,0 1/1:108:0,107,1:0:0:107,1:3836,36:-345.076,-32.2102,0,-342.139,-28.913,-341.838 1/1:22:0,22,0:0:0:22,0:784,0:-70.8839,-6.62266,0,-70.8839,-6.62266,-70.8839 1/2:5:0,3,2:0:0:3,2:104,72:-14.6799,-6.23466,-5.33157,-8.79971,0,-8.19765 1/2:43:0,16,27:0:0:16,27:572,931:-122.6,-75.9552,-71.1388,-46.9969,0,-38.8691 1/2:93:0,46,46:0:0:46,46:1640,1625:-266.017,-132.331,-118.483,-133.682,0,-119.834 1/2:133:0,72,61:0:0:72,61:2580,2111:-382.311,-171.89,-150.215,-210.773,0,-192.41 1/2:172:0,77,94:0:0:77,94:2748,3325:-494.763,-270.735,-247.556,-224.024,0,-195.727 1/2:106:0,52,54:0:0:52,54:1864,1927:-309.478,-157.449,-141.796,-152.386,0,-136.13 1/2:117:0,55,62:0:0:55,62:1972,2155:-336.387,-175.542,-158.985,-161.198,0,-142.534 1/2:148:0,82,65:0:0:82,65:2934,2304:-427.027,-187.772,-163.088,-239.329,0,-219.762 1/2:55:0,42,13:0:0:42,13:1495,464:-160.024,-38.1797,-25.5364,-122.201,0,-118.287 1/1:125:0,122,2:0:0:122,2:4351,70:-391.45,-36.7257,0,-385.755,-30.957,-385.153 1/1:61:0,61,0:0:0:61,0:2188,0:-197.186,-18.3628,0,-197.186,-18.3628,-197.186 chr07 5018740 . G A 41786.6 PASS AB=0.496312;ABP=3.12242;AC=31;AF=0.738095;AN=42;AO=1995;CIGAR=1X;DP=2684;DPB=2684;DPRA=0.645337;EPP=4335.1;EPPR=1488.31;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8391;MQMR=59.9419;NS=21;NUMALT=1;ODDS=0.0464424;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70324;QR=24537;RO=688;RPL=1995;RPP=4335.1;RPPR=1488.31;RPR=0;RUN=1;SAF=1995;SAP=4335.1;SAR=0;SRF=688;SRP=1496.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:153:2,151:2:72:151:5322:-472.277,-39.2209,0 1/1:116:0,116:0:0:116:4086:-367.921,-34.9195,0 1/1:125:1,124:1:36:124:4372:-390.063,-34.0305,0 1/1:143:1,142:1:32:142:4991:-446.148,-39.848,0 1/1:222:4,218:4:140:218:7658:-676.247,-53.8841,0 1/1:96:4,92:4:144:92:3268:-281.002,-15.5853,0 1/1:261:1,260:1:36:260:9159:-820.496,-74.9706,0 0/0:193:193,0:193:6907:0:0:0,-58.0988,-621.686 1/1:259:0,259:0:0:259:9224:-830.136,-77.9668,0 1/1:13:1,12:1:36:12:417:-34.4733,-0.52579,0 0/1:6:4,2:4:144:2:68:-4.65153,0,-11.5074 0/1:47:28,19:28:973:19:672:-46.6537,0,-73.7307 0/1:81:46,35:46:1648:35:1252:-88.6016,0,-124.225 0/1:167:92,75:92:3273:75:2645:-188.007,0,-244.518 0/1:286:139,147:139:4966:147:5139:-375.732,0,-360.993 0/1:109:51,58:51:1812:58:2037:-150.788,0,-130.549 0/1:105:42,63:42:1508:63:2241:-170.346,0,-104.406 0/1:98:57,41:57:2040:41:1443:-100.654,0,-154.371 0/1:50:19,31:19:680:31:1108:-84.9795,0,-46.4777 1/1:112:3,108:3:90:108:3760:-330.186,-25.3612,0 1/1:42:0,42:0:0:42:1462:-131.84,-12.6433,0 chr07 5018789 . AACTA AA,AACAA 43855.5 PASS AB=0.479554,0.51425;ABP=5.94058,4.43373;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1501,548;CIGAR=1M3D1M,3M1X1M;DP=2063;DPB=1160;DPRA=0.824153,1.06612;EPP=3262.39,1192.98;EPPR=7.35324;GTI=0;LEN=3,1;MEANALT=2.15,2.38462;MQM=58.6309,59.9489;MQMR=60;NS=21;NUMALT=2;ODDS=15.416;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53020,19626;QR=54;RO=2;RPL=0,0;RPP=3262.39,1192.98;RPPR=7.35324;RPR=1501,548;RUN=1,1;SAF=0,0;SAP=3262.39,1192.98;SAR=1501,548;SRF=0;SRP=7.35324;SRR=2;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,110,0:0:0:110,0:3856,0:-346.927,-33.1133,0,-346.927,-33.1133,-346.927 1/1:111:0,111,0:0:0:111,0:3913,0:-352.165,-33.4143,0,-352.165,-33.4143,-352.165 1/1:111:1,108,0:1:27:108,0:3807,0:-339.67,-30.3991,0,-339.971,-32.5112,-342.099 1/1:58:0,58,0:0:0:58,0:2068,0:-186.283,-17.4597,0,-186.283,-17.4597,-186.283 1/1:214:0,203,10:0:0:203,10:7199,360:-647.237,-61.1091,0,-617.862,-31.6343,-614.852 1/1:70:0,69,0:0:0:69,0:2438,0:-219.31,-20.7711,0,-219.31,-20.7711,-219.31 1/1:144:0,142,0:0:0:142,0:5045,0:-453.76,-42.7463,0,-453.76,-42.7463,-453.76 2/2:118:0,0,118:0:0:0,118:0,4219:-379.889,-379.889,-379.889,-35.5215,-35.5215,0 1/1:137:0,137,0:0:0:137,0:4840,0:-435.332,-41.2411,0,-435.332,-41.2411,-435.332 1/1:14:0,14,0:0:0:14,0:504,0:-45.6261,-4.21442,0,-45.6261,-4.21442,-45.6261 1/2:14:0,5,9:0:0:5,9:176,324:-41.1218,-26.7966,-25.2914,-14.6799,0,-11.9706 1/2:38:0,24,14:0:0:24,14:856,500:-110.554,-40.8494,-33.6247,-70.06,0,-65.8456 1/2:110:0,48,62:0:0:48,62:1715,2204:-319.758,-179.959,-165.51,-140.155,0,-121.491 1/2:159:1,68,87:1:27:68,87:2395,3128:-447.639,-253.121,-234.778,-192.739,0,-168.677 1/2:148:0,51,97:0:0:51,97:1792,3476:-429.631,-283.851,-268.499,-146.133,0,-116.933 1/2:67:0,35,32:0:0:35,32:1231,1152:-194.262,-94.3572,-83.8211,-100.26,0,-90.6273 1/2:100:0,65,34:0:0:65,34:2307,1224:-287.672,-99.9329,-80.3659,-187.798,0,-177.563 1/2:122:0,57,65:0:0:57,65:2004,2319:-352.41,-189.403,-172.244,-163.361,0,-143.794 1/2:49:0,34,15:0:0:34,15:1174,540:-139.326,-44.4211,-34.1861,-95.2601,0,-90.7447 1/1:120:0,116,4:0:0:116,4:4083,144:-367.134,-34.9195,0,-355.384,-22.81,-354.18 1/1:49:0,46,1:0:0:46,1:1617,36:-145.397,-13.8474,0,-142.46,-10.9014,-142.159 chr07 5071328 . ATTGT GTTGT 10724.5 PASS AB=0.421769;ABP=18.639;AC=32;AF=0.761905;AN=42;AO=508;CIGAR=1X4M;DP=710;DPB=710;DPRA=1.31538;EPP=1106.12;EPPR=424.276;GTI=1;LEN=1;MEANALT=1.25;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.57578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18160;QR=6793;RO=194;RPL=508;RPP=1106.12;RPPR=424.276;RPR=0;RUN=1;SAF=0;SAP=1106.12;SAR=508;SRF=0;SRP=424.276;SRR=194;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 1/1:15:0,11:0:0:11:396:-35.6247,-3.31133,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 1/1:64:0,63:0:0:63:2264:-203.721,-18.9649,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 1/1:35:0,35:0:0:35:1239:-111.814,-10.5361,0 0/0:26:26,0:26:882:0:0:0,-7.82678,-79.6874 1/1:87:0,87:0:0:87:3120:-281.026,-26.1896,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 0/1:48:33,14:33:1153:14:504:-31.2457,0,-89.6245 0/1:25:17,8:17:607:8:288:-18.7417,0,-47.4358 0/1:78:40,37:40:1413:37:1323:-95.94,0,-104.035 0/1:19:11,8:11:393:8:288:-20.5478,0,-29.9912 0/1:30:25,5:25:876:5:176:-7.15412,0,-70.1255 0/1:40:20,20:20:701:20:711:-52.2744,0,-51.3718 0/1:47:18,29:18:628:29:1019:-77.8729,0,-42.6967 1/1:26:0,25:0:0:25:888:-80.0138,-7.52575,0 1/1:35:0,35:0:0:35:1248:-112.625,-10.5361,0 chr07 5076177 . TCCTCCCTCCTCCA TCTCCCTCCTCCA 26716.8 PASS AB=0.562657;ABP=30.2217;AC=32;AF=0.761905;AN=42;AO=1288;CIGAR=1M1D12M;DP=1685;DPB=1592;DPRA=2.50303;EPP=2799.87;EPPR=815.141;GTI=0;LEN=1;MEANALT=2.1;MQM=59.9946;MQMR=60;NS=21;NUMALT=1;ODDS=11.5696;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=36;PRO=1;QA=45615;QR=13066;RO=374;RPL=1288;RPP=2799.87;RPPR=815.141;RPR=0;RUN=1;SAF=1288;SAP=2799.87;SAR=0;SRF=374;SRP=815.141;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,34:0:0:34:1203:-108.322,-10.235,0 1/1:38:0,37:0:0:37:1324:-119.141,-11.1381,0 1/1:32:1,30:1:36:30:1063:-92.3827,-6.09348,0 1/1:46:1,45:1:35:45:1603:-141.061,-10.3488,0 1/1:56:0,56:0:0:56:1951:-175.862,-16.8577,0 1/1:53:0,53:0:0:53:1866:-168.218,-15.9546,0 1/1:61:1,60:1:34:60:2105:-186.319,-14.9639,0 0/0:33:33,0:33:1157:0:0:0,-9.93399,-104.438 1/1:80:0,79:0:0:79:2807:-252.511,-23.7814,0 1/1:213:3,208:3:106:208:7352:-651.855,-53.9734,0 1/1:199:1,196:1:35:196:7019:-628.247,-56.1642,0 0/1:335:141,190:141:4916:190:6749:-507.483,0,-342.605 0/1:25:18,7:18:612:7:252:-15.5032,0,-47.8733 0/1:39:15,24:15:519:24:848:-64.8995,0,-35.297 0/1:88:36,48:36:1274:48:1698:-127.484,0,-89.3428 0/1:56:22,31:22:767:31:1076:-80.8451,0,-53.049 0/1:44:14,29:14:491:29:1031:-79.8372,0,-31.256 0/1:204:84,117:84:2950:117:4125:-310.572,0,-204.875 0/1:7:4,3:4:134:3:99:-7.12937,0,-10.2836 1/1:27:0,27:0:0:27:948:-85.6319,-8.12781,0 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 chr07 5111410 . CAAAAATGC CAAAAACGT,CAAAAAACGT 58693.5 PASS AB=0.533891,0.457741;ABP=14.9325,21.5469;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2631,643;CIGAR=6M1X1M1X,1M1I5M1X1M1X;DP=3298;DPB=3606.33;DPRA=2.0641,1.69065;EPP=5716.15,1399.27;EPPR=0;GTI=1;LEN=9,10;MEANALT=2.8,3.26667;MQM=40.68,25.0187;MQMR=0;NS=21;NUMALT=2;ODDS=1.3459;PAIRED=0,0;PAIREDR=0;PAO=356.333,356.333;PQA=12332.7,12332.7;PQR=10.6667;PRO=0.333333;QA=92117,16057;QR=0;RO=0;RPL=2631,643;RPP=5716.15,1399.27;RPPR=0;RPR=0,0;RUN=1,1;SAF=2631,643;SAP=5716.15,1399.27;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:205:0,203,1:0:0:203,1:7106,25:-619.243,-61.1091,0,-617.565,-59.4248,-617.264 1/1:95:0,95,0:0:0:95,0:3328,0:-281.576,-28.5979,0,-281.576,-28.5979,-281.576 1/1:110:0,109,0:0:0:109,0:3849,0:-334.856,-32.8123,0,-334.856,-32.8123,-334.856 1/1:191:0,189,1:0:0:189,1:6637,25:-579.599,-56.8947,0,-577.921,-55.2428,-577.62 1/1:434:0,419,10:0:0:419,10:14543,244:-1267.37,-126.132,0,-1250.98,-109.799,-1247.97 1/1:181:0,178,1:0:0:178,1:6271,26:-531.603,-53.5833,0,-529.835,-51.8174,-529.534 1/1:204:0,199,2:0:0:199,2:6953,52:-588.329,-59.905,0,-584.793,-56.3697,-584.191 2/2:78:0,0,78:0:0:0,78:0,1949:-146.486,-146.486,-146.486,-23.4803,-23.4803,0 1/1:317:0,317,0:0:0:317,0:11075,0:-976.787,-95.4265,0,-976.787,-95.4265,-976.787 1/1:18:0,18,0:0:0:18,0:627,0:-53.0272,-5.41854,0,-53.0272,-5.41854,-53.0272 1/1:11:0,11,0:0:0:11,0:392,0:-33.634,-3.31133,0,-33.634,-3.31133,-33.634 1/2:44:0,29,15:0:0:29,15:1028,376:-102.826,-23.1882,-14.4583,-77.6259,0,-73.1104 1/2:144:0,82,61:0:0:82,61:2865,1515:-321.865,-96.3436,-71.6592,-220.118,0,-201.755 1/2:218:0,117,100:0:0:117,100:4062,2500:-483.36,-165.438,-130.217,-315.513,0,-285.41 1/2:246:0,143,101:0:0:143,101:5059,2517:-564.531,-165.422,-122.375,-395.497,0,-365.093 1/2:161:0,82,78:0:0:82,78:2877,1952:-354.162,-124.83,-100.146,-223.143,0,-199.663 1/2:197:0,73,122:0:0:73,122:2561,3051:-406.01,-202.781,-180.806,-201.233,0,-164.507 1/2:48:0,20,26:0:0:20,26:693,650:-95.2812,-42.1204,-36.0998,-51.7704,0,-43.9437 1/2:137:0,92,44:0:0:92,44:3279,1100:-328.735,-71.2749,-43.5802,-254.922,0,-241.677 1/1:179:0,176,3:0:0:176,3:6142,75:-526.949,-52.9813,0,-521.915,-47.7253,-521.011 1/1:80:0,79,0:0:0:79,0:2770,0:-235.475,-23.7814,0,-235.475,-23.7814,-235.475 chr07 5449006 . A G 13992.8 PASS AB=0.592634;ABP=69.7928;AC=10;AF=0.238095;AN=42;AO=743;CIGAR=1X;DP=2401;DPB=2401;DPRA=1.4843;EPP=1616.41;EPPR=3598.97;GTI=2;LEN=1;MEANALT=1.14286;MQM=60;MQMR=59.9758;NS=21;NUMALT=1;ODDS=3.14219;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26525;QR=58926;RO=1656;RPL=0;RPP=1616.41;RPPR=3598.97;RPR=743;RUN=1;SAF=743;SAP=1616.41;SAR=0;SRF=1656;SRP=3598.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:215:215,0:215:7647:0:0:0,-64.7214,-688.264 0/0:73:73,0:73:2578:0:0:0,-21.9752,-232.267 0/0:61:61,0:61:2173:0:0:0,-18.3628,-195.835 0/0:78:78,0:78:2781:0:0:0,-23.4803,-250.53 0/0:273:270,3:270:9645:3:108:0,-72.106,-857.914 0/0:90:88,2:88:3156:2:72:0,-20.256,-277.428 0/0:148:146,2:146:5209:2:72:0,-37.7157,-462.112 1/1:202:0,202:0:0:202:7200:-648.051,-60.8081,0 0/0:168:168,0:168:5963:0:0:0,-50.573,-536.588 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:25:8,17:8:273:17:600:-46.8034,0,-17.3744 0/1:189:73,116:73:2544:116:4149:-316.697,0,-172.312 0/1:103:42,61:42:1504:61:2192:-166.539,0,-104.648 0/1:177:84,93:84:3001:93:3280:-242.135,0,-217.038 0/1:121:53,67:53:1877:67:2404:-180.133,0,-132.724 0/1:126:35,90:35:1241:90:3224:-252.393,0,-74.0041 0/1:79:27,52:27:968:52:1864:-144.258,0,-63.656 0/1:76:41,35:41:1456:35:1252:-90.1068,0,-108.458 0/0:115:113,2:113:4002:2:72:0,-27.7817,-353.533 0/0:72:71,1:71:2548:1:36:0,-18.0759,-225.972 chr07 5449007 . C A 35622.8 PASS AB=0.410734;ABP=66.2018;AC=32;AF=0.761905;AN=42;AO=1690;CIGAR=1X;DP=2442;DPB=2442;DPRA=0.548529;EPP=3672.8;EPPR=1635.96;GTI=2;LEN=1;MEANALT=1;MQM=59.9763;MQMR=60;NS=21;NUMALT=1;ODDS=2.81044;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60109;QR=26983;RO=752;RPL=0;RPP=3672.8;RPPR=1635.96;RPR=1690;RUN=1;SAF=1690;SAP=3672.8;SAR=0;SRF=752;SRP=1635.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:220:0,220:0:0:220:7794:-701.487,-66.2266,0 1/1:76:0,76:0:0:76:2713:-244.412,-22.8783,0 1/1:60:0,60:0:0:60:2156:-194.307,-18.0618,0 1/1:78:0,78:0:0:78:2755:-248.188,-23.4803,0 1/1:281:3,278:3:108:278:9916:-882.29,-74.5143,0 1/1:91:2,89:2:72:89:3181:-279.676,-20.557,0 1/1:153:2,151:2:72:151:5394:-478.752,-39.2209,0 0/0:204:204,0:204:7332:0:0:0,-61.4101,-659.925 1/1:168:0,168:0:0:168:5927:-533.346,-50.573,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:24:16,8:16:576:8:288:-19.0427,0,-44.9503 0/1:193:119,74:119:4268:74:2630:-178.846,0,-326.199 0/1:106:62,44:62:2228:44:1580:-110.582,0,-168.875 0/1:184:94,90:94:3363:90:3213:-234.002,0,-247.496 0/1:124:69,55:69:2460:55:1946:-138.084,0,-184.327 0/1:125:91,34:91:3272:34:1220:-72.4781,0,-257.07 0/1:80:52,28:52:1868:28:1008:-66.954,0,-144.317 0/1:77:35,42:35:1256:42:1489:-111.123,0,-90.166 1/1:114:2,112:2:72:112:3964:-350.111,-27.4807,0 1/1:74:1,73:1:36:73:2579:-228.757,-18.6779,0 chr07 5457961 . T A 8443.68 PASS AB=0.461028;ABP=10.9652;AC=10;AF=0.238095;AN=42;AO=452;CIGAR=1X;DP=1982;DPB=1982;DPRA=1.18092;EPP=958.631;EPPR=3232.56;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8894;MQMR=59.9633;NS=21;NUMALT=1;ODDS=3.67355;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16147;QR=54787;RO=1527;RPL=3;RPP=958.631;RPPR=3232.56;RPR=449;RUN=1;SAF=0;SAP=984.516;SAR=452;SRF=0;SRP=3318.85;SRR=1527;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:68,2:68:2440:2:72:0,-14.2354,-213.018 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:108:108,0:108:3880:0:0:0,-32.5112,-349.286 0/0:104:103,0:103:3696:0:0:0,-31.0061,-332.63 0/0:148:147,1:147:5276:1:36:0,-40.9542,-471.376 0/0:91:91,0:91:3260:0:0:0,-27.3937,-293.621 0/0:166:165,1:165:5924:1:32:0,-46.7717,-530.067 1/1:168:0,167:0:0:167:5936:-533.941,-50.272,0 0/0:304:303,0:303:10888:0:0:0,-91.2121,-979.454 0/0:14:14,0:14:489:0:0:0,-4.21442,-44.3389 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:50:30,20:30:1080:20:716:-49.7162,0,-82.4618 0/1:227:120,107:120:4286:107:3839:-277.371,0,-317.581 0/1:144:84,60:84:3008:60:2148:-150.239,0,-227.046 0/1:88:41,47:41:1472:47:1688:-125.716,0,-106.285 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:6:4,2:4:144:2:68:-4.65153,0,-11.5074 0/1:43:18,25:18:648:25:892:-67.6554,0,-45.7076 0/1:37:26,11:26:936:11:396:-24.8446,0,-73.4214 0/0:148:145,3:145:5204:3:108:0,-34.4773,-458.422 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 chr07 5457969 . C T 33647.1 PASS AB=0.539604;ABP=11.2662;AC=32;AF=0.761905;AN=42;AO=1533;CIGAR=1X;DP=1988;DPB=1988;DPRA=0.538166;EPP=3279.97;EPPR=973.735;GTI=0;LEN=1;MEANALT=1;MQM=59.9635;MQMR=59.9451;NS=21;NUMALT=1;ODDS=4.6642;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54795;QR=16279;RO=455;RPL=1527;RPP=3279.97;RPPR=973.735;RPR=6;RUN=1;SAF=0;SAP=3331.88;SAR=1533;SRF=0;SRP=991.03;SRR=455;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:2,69:2:72:69:2471:-215.807,-14.5364,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 1/1:108:0,108:0:0:108:3874:-348.747,-32.5112,0 1/1:103:0,103:0:0:103:3708:-333.92,-31.0061,0 1/1:149:1,148:1:36:148:5300:-473.536,-41.2552,0 1/1:90:0,90:0:0:90:3213:-289.392,-27.0927,0 1/1:165:1,164:1:36:164:5839:-522.022,-46.0717,0 0/0:169:169,0:169:6045:0:0:0,-50.8741,-543.835 1/1:305:0,305:0:0:305:10904:-981.254,-91.8142,0 1/1:14:0,14:0:0:14:499:-45.2456,-4.21442,0 1/1:21:0,21:0:0:21:748:-67.6453,-6.32163,0 0/1:49:20,29:20:705:29:1044:-79.5243,0,-49.0223 0/1:229:109,120:109:3912:120:4272:-315.721,0,-283.336 0/1:145:60,85:60:2148:85:3033:-229.36,0,-149.938 0/1:89:47,42:47:1673:42:1500:-108.503,0,-124.064 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:42:24,18:24:864:18:648:-46.0086,0,-65.4393 0/1:38:11,27:11:396:27:960:-75.2771,0,-24.5436 1/1:150:3,147:3:104:147:5249:-462.845,-35.4517,0 1/1:22:0,22:0:0:22:777:-70.2504,-6.62266,0 chr07 5493058 . TTCGT TTCGCTGT,GTCGCTGT 82523.1 PASS AB=0.496627,0.489882;ABP=3.12748,4.06491;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2395,701;CIGAR=3M3I2M,1X2M3I2M;DP=3129;DPB=5005.8;DPRA=1.35946,1.29487;EPP=5203.69,1525.21;EPPR=0;GTI=0;LEN=3,8;MEANALT=3.05,3.61538;MQM=59.9887,59.903;MQMR=0;NS=21;NUMALT=2;ODDS=19.889;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=82657,24511;QR=0;RO=0;RPL=1335,471;RPP=71.5771,182.927;RPPR=0;RPR=1060,230;RUN=1,1;SAF=1335,471;SAP=71.5771,182.927;SAR=1060,230;SRF=0;SRP=0;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:221:0,218,1:0:0:218,1:7489,36:-673.757,-65.6245,0,-670.819,-62.6688,-670.518 1/1:171:0,169,0:0:0:169,0:5825,0:-524.046,-50.8741,0,-524.046,-50.8741,-524.046 1/1:95:0,93,1:0:0:93,1:3239,36:-291.376,-27.9958,0,-288.438,-25.0584,-288.137 1/1:199:0,196,1:0:0:196,1:6721,28:-604.656,-59.0019,0,-602.437,-56.8098,-602.136 1/1:309:0,299,7:0:0:299,7:10301,233:-926.706,-90.008,0,-907.851,-71.1462,-905.744 1/1:176:0,174,0:0:0:174,0:6046,0:-543.958,-52.3792,0,-543.958,-52.3792,-543.958 1/1:224:0,223,0:0:0:223,0:7719,0:-694.407,-67.1297,0,-694.407,-67.1297,-694.407 2/2:111:0,0,110:0:0:0,110:0,3876:-348.742,-348.742,-348.742,-33.1133,-33.1133,0 1/1:141:0,141,0:0:0:141,0:4915,0:-442.508,-42.4452,0,-442.508,-42.4452,-442.508 1/1:23:0,23,0:0:0:23,0:816,0:-73.7617,-6.92369,0,-73.7617,-6.92369,-73.7617 1/1:10:0,10,0:0:0:10,0:343,0:-31.2006,-3.0103,0,-31.2006,-3.0103,-31.2006 1/2:20:0,10,10:0:0:10,10:348,346:-56.7605,-28.4626,-25.4523,-28.6448,0,-25.6345 1/2:212:0,106,104:0:0:106,104:3663,3622:-592.171,-294.549,-262.64,-297.633,0,-266.326 1/2:169:0,66,98:0:0:66,98:2272,3398:-460.771,-276.241,-256.373,-184.573,0,-155.072 1/2:244:0,134,108:0:0:134,108:4688,3772:-688.25,-306.849,-266.511,-381.434,0,-348.923 1/2:166:0,82,82:0:0:82,82:2844,2862:-463.959,-232.792,-208.107,-231.199,0,-206.514 1/2:154:0,49,102:0:0:49,102:1711,3598:-432.164,-292.99,-278.24,-139.187,0,-108.482 1/2:74:0,46,26:0:0:46,26:1551,911:-199.829,-74.1481,-60.3007,-125.718,0,-117.891 1/2:147:0,96,51:0:0:96,51:3243,1793:-408.994,-146.143,-117.245,-263.197,0,-247.845 1/1:177:0,175,0:0:0:175,0:6035,0:-543.001,-52.6803,0,-543.001,-52.6803,-543.001 1/1:86:0,85,0:0:0:85,0:2888,0:-259.859,-25.5876,0,-259.859,-25.5876,-259.859 chr07 5501148 . TTAAAA TAAAAAAA,TAAAAAA,TAA 29310.6 PASS AB=0.446749,0.181054,0.3625;ABP=46.951,1579.33,213.209;AC=20,12,10;AF=0.47619,0.285714,0.238095;AN=42;AO=797,323,593;CIGAR=1M2I1X4M,1M1I1X4M,1M3D2M;DP=1923;DPB=1970.83;DPRA=0.641727,0.641727,0;EPP=1515.21,620.226,1290.69;EPPR=5.18177;GTI=1;LEN=8,7,3;MEANALT=5.35,5.35,5.84615;MQM=35.4404,42.4954,59.6273;MQMR=53;NS=21;NUMALT=3;ODDS=4.47651;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=26725,11047,20585;QR=32;RO=1;RPL=25,10,0;RPP=1523.34,620.226,1290.69;RPPR=5.18177;RPR=772,313,593;RUN=1,1,1;SAF=796,323,593;SAP=1725,704.396,1290.69;SAR=1,0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:80:0,55,14,0:0:0:55,14,0:1891,476,0:-180.892,-38.0676,-21.5109,-142.855,0,-138.641,-180.892,-38.0676,-142.855,-180.892 1/2:65:0,32,22,0:0:0:32,22,0:1007,753,0:-131.398,-58.5497,-48.9167,-72.8658,0,-66.2431,-131.398,-58.5497,-72.8658,-131.398 1/2:165:0,97,45,2:0:0:97,45,2:3344,1541,68:-376.061,-122.312,-93.1124,-253.76,0,-240.214,-370.545,-116.796,-248.244,-369.943 1/2:141:0,88,38,0:0:0:88,38,0:2977,1315,0:-330.438,-104.764,-78.2729,-225.686,0,-214.247,-330.438,-104.764,-225.686,-330.438 1/2:81:0,54,18,1:0:0:54,18,1:1773,616,32:-181.877,-48.9345,-32.6788,-132.953,0,-127.534,-179.299,-46.3564,-130.374,-178.998 1/2:60:0,39,14,0:0:0:39,14,0:1232,454,0:-124.112,-35.1354,-23.3952,-88.9764,0,-84.762,-124.112,-35.1354,-88.9764,-124.112 1/2:83:0,52,19,0:0:0:52,19,0:1641,654,0:-169.615,-51.2094,-35.5559,-118.439,0,-112.719,-169.615,-51.2094,-118.439,-169.615 3/3:139:0,0,0,129:0:0:0,0,129:0,0,4477:-402.691,-402.691,-402.691,-402.691,-402.691,-402.691,-38.8329,-38.8329,-38.8329,0 1/2:125:0,76,32,1:0:0:76,32,1:2591,1094,36:-285.193,-86.8595,-63.9813,-198.346,0,-188.713,-282.256,-83.9214,-195.408,-281.955 1/2:19:0,11,6,0:0:0:11,6,0:357,208,0:-42.2834,-16.2177,-12.9063,-26.0725,0,-24.2663,-42.2834,-16.2177,-26.0725,-42.2834 1/2:8:0,5,2,0:0:0:5,2,0:162,62,0:-16.4844,-4.59037,-3.08522,-11.8525,0,-11.2504,-16.4844,-4.59037,-11.8525,-16.4844 1/3:26:0,8,3,8:0:0:8,3,8:272,98,272:-42.2862,-22.0718,-19.6636,-34.5196,-14.3063,-33.6165,-20.2163,0,-12.4486,-17.808 1/3:158:0,49,14,86:0:0:49,14,86:1674,473,3024:-373.11,-246.171,-231.421,-335.848,-208.911,-331.634,-126.943,0,-89.6788,-101.055 1/3:135:1,36,13,74:1:32:36,13,74:1222,445,2561:-297.585,-205.552,-197.29,-262.754,-172.996,-261.416,-89.7589,0,-57.1994,-70.0585 1/3:136:0,26,9,88:0:0:26,9,88:892,281,3048:-315.35,-247.695,-239.868,-293.19,-225.535,-290.481,-67.6544,0,-45.4965,-41.1638 1/3:93:0,20,11,56:0:0:20,11,56:685,394,1907:-207.435,-154.698,-148.677,-175.801,-123.063,-172.49,-52.7305,0,-21.0906,-35.8728 1/3:96:0,15,8,63:0:0:15,8,63:496,275,2210:-217.231,-179.833,-175.318,-195.342,-157.945,-192.934,-37.3971,0,-15.5014,-18.4322 1/3:92:0,19,8,61:0:0:19,8,61:644,274,2102:-217.884,-170.472,-164.752,-196.576,-149.165,-194.168,-47.4114,0,-26.098,-29.0486 1/3:58:0,21,10,20:0:0:21,10,20:713,348,708:-111.475,-57.6825,-51.3609,-84.2084,-30.4189,-81.1981,-53.7953,0,-26.5246,-47.7747 1/2:115:0,63,29,4:0:0:63,29,4:2134,1011,140:-237.635,-79.9395,-60.9747,-157.71,0,-148.98,-226.243,-68.5466,-146.318,-225.039 1/2:48:0,31,8,0:0:0:31,8,0:1018,275,0:-95.4523,-21.3836,-12.0516,-74.0812,0,-71.6729,-95.4523,-21.3836,-74.0812,-95.4523 chr07 5501179 . C G 16728.4 PASS AB=0.319035;ABP=215.209;AC=32;AF=0.761905;AN=42;AO=1009;CIGAR=1X;DP=1670;DPB=1670;DPRA=0.529861;EPP=2176.69;EPPR=1436.18;GTI=2;LEN=1;MEANALT=1.05;MQM=38.5887;MQMR=59.6227;NS=21;NUMALT=1;ODDS=4.69574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34006;QR=23199;RO=660;RPL=1009;RPP=2194.03;RPPR=1427.51;RPR=0;RUN=1;SAF=1007;SAP=2176.69;SAR=2;SRF=659;SRP=1427.51;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2272:-193.25,-20.169,0 1/1:54:0,54:0:0:54:1808:-147.638,-16.2556,0 1/1:134:3,131:3:104:131:4453:-371.374,-30.6356,0 1/1:101:0,101:0:0:101:3426:-293.045,-30.404,0 1/1:68:1,67:1:21:67:2280:-190.517,-18.3701,0 1/1:42:0,42:0:0:42:1458:-118.654,-12.6433,0 1/1:69:0,69:0:0:69:2335:-184.666,-20.7711,0 0/0:144:144,0:144:5069:0:0:0,-43.3483,-456.252 1/1:94:1,93:1:36:93:3136:-265.766,-24.6985,0 1/1:17:0,17:0:0:17:569:-46.7196,-5.11751,0 1/1:6:0,6:0:0:6:198:-17.0165,-1.80618,0 0/1:24:13,11:13:455:11:361:-23.648,0,-34.0572 0/1:145:95,50:95:3333:50:1695:-101.502,0,-256.511 0/1:121:80,41:80:2825:41:1380:-81.4959,0,-218.053 0/1:134:105,29:105:3701:29:982:-44.87,0,-292.879 0/1:88:60,28:60:2148:28:924:-54.3286,0,-167.092 0/1:90:68,22:68:2398:22:747:-36.2271,0,-188.939 0/1:91:65,25:65:2230:25:814:-40.6559,0,-173.459 0/1:53:21,32:21:735:32:970:-69.0238,0,-50.5145 1/1:94:4,90:4:144:90:3059:-238.115,-14.9832,0 1/1:34:0,34:0:0:34:1139:-93.483,-10.235,0 chr07 5501213 . A T 7135.73 PASS AB=0.48659;ABP=4.23331;AC=10;AF=0.238095;AN=42;AO=428;CIGAR=1X;DP=2543;DPB=2543;DPRA=1.09052;EPP=932.4;EPPR=4595.67;GTI=0;LEN=1;MEANALT=1;MQM=59.8645;MQMR=60;NS=21;NUMALT=1;ODDS=4.7169;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15262;QR=75361;RO=2115;RPL=0;RPP=932.4;RPPR=4595.67;RPR=428;RUN=1;SAF=0;SAP=932.4;SAR=428;SRF=0;SRP=4595.67;SRR=2115;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:118:118,0:118:4219:0:0:0,-35.5215,-379.89 0/0:35:35,0:35:1251:0:0:0,-10.536,-112.894 0/0:187:187,0:187:6655:0:0:0,-56.2926,-599.027 0/0:115:115,0:115:4102:0:0:0,-34.6184,-369.365 0/0:438:436,2:436:15555:2:72:0,-125.014,-1392.82 0/0:113:113,0:113:4002:0:0:0,-34.0164,-360.37 0/0:251:251,0:251:8927:0:0:0,-75.5585,-803.415 1/1:45:0,45:0:0:45:1596:-143.872,-13.5464,0 0/0:251:251,0:251:8977:0:0:0,-75.5585,-807.91 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:46:27,19:27:972:19:680:-47.6818,0,-73.9505 0/1:130:75,55:75:2682:55:1964:-137.901,0,-202.49 0/1:126:70,56:70:2482:56:2000:-142.344,0,-185.703 0/1:168:84,84:84:3003:84:2993:-219.014,0,-219.928 0/1:80:29,51:29:1029:51:1817:-139.727,0,-68.8387 0/1:95:30,65:30:1063:65:2316:-180.067,0,-67.383 0/1:48:26,22:26:909:22:788:-56.7954,0,-67.674 0/1:90:61,29:61:2159:29:1036:-66.4607,0,-167.482 0/0:134:134,0:134:4758:0:0:0,-40.338,-428.375 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.847 chr07 5503873 . T C 8067.37 PASS AB=0.475806;ABP=6.16244;AC=10;AF=0.238095;AN=42;AO=440;CIGAR=1X;DP=1931;DPB=1931;DPRA=0.848464;EPP=949.792;EPPR=3214.67;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9879;NS=21;NUMALT=1;ODDS=2.51718;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15739;QR=53476;RO=1491;RPL=1;RPP=949.792;RPPR=3214.67;RPR=439;RUN=1;SAF=440;SAP=958.458;SAR=0;SRF=1491;SRP=3240.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:133,0:133:4776:0:0:0,-40.037,-429.909 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.122 0/0:88:87,1:87:3124:1:36:0,-22.8924,-277.787 0/0:131:131,0:131:4700:0:0:0,-39.4349,-423.159 0/0:220:220,0:220:7878:0:0:0,-66.2266,-709.042 0/0:113:112,1:112:4028:1:36:0,-30.4181,-359.108 0/0:127:126,1:126:4528:1:36:0,-34.6325,-404.087 1/1:139:0,139:0:0:139:5000:-450.145,-41.8432,0 0/0:128:128,0:128:4581:0:0:0,-38.5318,-412.453 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:23:19,4:19:684:4:140:-6.02089,0,-54.9666 0/1:126:67,59:67:2400:59:2116:-152.779,0,-178.327 0/1:48:27,21:27:964:21:752:-53.5568,0,-72.6274 0/1:99:50,49:50:1785:49:1737:-126.811,0,-131.129 0/1:45:27,18:27:968:18:648:-45.1055,0,-73.891 0/1:128:52,76:52:1852:76:2723:-206.781,0,-128.428 0/1:78:36,42:36:1288:42:1488:-110.731,0,-92.7432 0/1:73:47,26:47:1692:26:919:-61.0516,0,-130.592 0/0:79:78,1:78:2804:1:36:0,-20.1831,-249.001 0/0:49:47,2:47:1684:2:72:0,-7.91375,-145.01 chr07 5503971 . A T 38436.3 PASS AB=0.546485;ABP=19.5647;AC=32;AF=0.761905;AN=42;AO=1791;CIGAR=1X;DP=2304;DPB=2304;DPRA=1.01667;EPP=3883.44;EPPR=1097.5;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9955;MQMR=60;NS=21;NUMALT=1;ODDS=16.1704;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63877;QR=18178;RO=512;RPL=1;RPP=3883.44;RPPR=1097.5;RPR=1790;RUN=1;SAF=0;SAP=3892.12;SAR=1791;SRF=0;SRP=1114.8;SRR=512;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,159:0:0:159:5676:-510.96,-47.8638,0 1/1:104:0,104:0:0:104:3714:-334.462,-31.3071,0 1/1:179:0,179:0:0:179:6357:-572.223,-53.8844,0 1/1:110:0,110:0:0:110:3902:-351.374,-33.1133,0 1/1:143:1,142:1:36:142:5065:-452.397,-39.449,0 1/1:131:0,131:0:0:131:4700:-423.151,-39.4349,0 1/1:154:1,153:1:36:153:5443:-486.401,-42.7603,0 0/0:108:108,0:108:3822:0:0:0,-32.5112,-344.177 1/1:151:0,151:0:0:151:5410:-487.03,-45.4555,0 1/1:20:1,19:1:36:19:679:-57.8405,-2.42233,0 1/1:7:0,7:0:0:7:243:-22.2081,-2.10721,0 0/1:28:12,16:12:428:16:572:-43.3846,0,-30.43 0/1:167:75,91:75:2659:91:3206:-238.431,0,-189.226 0/1:136:57,79:57:2024:79:2821:-213.188,0,-141.493 0/1:226:111,115:111:3912:115:4095:-300.703,0,-284.244 0/1:71:37,34:37:1328:34:1209:-87.7426,0,-98.4491 0/1:81:42,39:42:1494:39:1404:-102.276,0,-110.37 0/1:92:42,50:42:1503:50:1796:-134.228,0,-107.869 0/1:81:23,58:23:828:58:2075:-162.636,0,-50.4607 1/1:109:2,107:2:72:107:3824:-337.521,-25.9755,0 1/1:47:0,47:0:0:47:1686:-152.027,-14.1484,0 chr07 5579178 . GTA GTT,CTT 37896.9 PASS AB=0.548662,0.451338;ABP=19.9171,19.9171;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1740,545;CIGAR=2M1X,1X1M1X;DP=2288;DPB=2288.33;DPRA=0.615116,0.952544;EPP=3781.37,1186.46;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.65,2;MQM=29.5569,41.745;MQMR=0;NS=21;NUMALT=2;ODDS=18.3037;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=61971,19100;QR=0;RO=0;RPL=0,0;RPP=3781.37,1186.46;RPPR=0;RPR=1740,545;RUN=1,1;SAF=0,0;SAP=3781.37,1186.46;SAR=1740,545;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:0,85,0:0:0:85,0:3017,0:-220.547,-25.5876,0,-220.547,-25.5876,-220.547 1/1:112:0,112,0:0:0:112,0:3982,0:-278.967,-33.7154,0,-278.967,-33.7154,-278.967 1/1:88:0,87,1:0:0:87,1:3120,36:-226.516,-26.1896,0,-223.664,-22.9879,-223.363 1/1:139:0,137,0:0:0:137,0:4916,0:-356.416,-41.2411,0,-356.416,-41.2411,-356.416 1/1:213:0,212,1:0:0:212,1:7538,36:-549.204,-63.8184,0,-546.352,-60.9717,-546.051 1/1:95:0,94,1:0:0:94,1:3372,36:-235.781,-28.2968,0,-232.912,-25.0768,-232.611 1/1:193:0,193,0:0:0:193,0:6882,0:-484.701,-58.0988,0,-484.701,-58.0988,-484.701 2/2:172:0,0,171:0:0:0,171:0,5999:-525.23,-525.23,-525.23,-51.4761,-51.4761,0 1/1:229:0,229,0:0:0:229,0:8173,0:-589.001,-68.9359,0,-589.001,-68.9359,-589.001 1/2:32:0,23,9:0:0:23,9:824,319:-78.1498,-25.7325,-18.8088,-52.7473,0,-50.038 1/1:14:0,14,0:0:0:14,0:504,0:-36.2409,-4.21442,0,-36.2409,-4.21442,-36.2409 1/2:38:0,19,19:0:0:19,19:680,675:-94.7102,-52.2291,-46.5096,-42.7905,0,-37.071 1/2:138:0,82,56:0:0:82,56:2898,1960:-342.497,-154.58,-129.896,-188.236,0,-171.378 1/2:140:0,69,71:0:0:69,71:2453,2494:-354.897,-197.012,-176.241,-158.198,0,-136.825 1/2:192:0,114,78:0:0:114,78:4047,2749:-477.817,-216.626,-182.308,-261.511,0,-238.03 1/2:66:0,35,31:0:0:35,31:1252,1049:-161.946,-81.8008,-71.2647,-80.4527,0,-71.1208 1/2:70:0,31,39:0:0:31,39:1097,1362:-178.57,-108.017,-98.6852,-70.8634,0,-59.1232 1/2:109:0,54,55:0:0:54,55:1917,1940:-274.831,-152.612,-136.357,-122.531,0,-105.974 1/2:37:0,24,13:0:0:24,13:848,445:-90.0907,-35.5374,-28.3127,-54.8707,0,-50.9573 1/1:76:0,76,0:0:0:76,0:2663,0:-192.486,-22.8783,0,-192.486,-22.8783,-192.486 1/1:50:0,50,0:0:0:50,0:1788,0:-123.995,-15.0515,0,-123.995,-15.0515,-123.995 chr07 5579207 . GGAA ACAC,GGAC 39425 PASS AB=0.555288,0.442308;ABP=25.1009,27.0635;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1805,543;CIGAR=2X1M1X,3M1X;DP=2352;DPB=2352;DPRA=0.633721,0.94598;EPP=3922.52,1130.58;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.8,2.07692;MQM=29.533,41.8987;MQMR=0;NS=21;NUMALT=2;ODDS=17.3828;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63861,19479;QR=0;RO=0;RPL=1805,537;RPP=3922.52,1130.58;RPPR=0;RPR=0,6;RUN=1,1;SAF=0,0;SAP=3922.52,1182.12;SAR=1805,543;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91,0:0:0:91,0:3225,0:-235.931,-27.3937,0,-235.931,-27.3937,-235.931 1/1:114:0,114,0:0:0:114,0:4060,0:-284.723,-34.3174,0,-284.723,-34.3174,-284.723 1/1:92:0,91,1:0:0:91,1:3217,36:-235.284,-27.3937,0,-232.432,-24.1921,-232.131 1/1:142:0,141,0:0:0:141,0:5010,0:-366.021,-42.4452,0,-366.021,-42.4452,-366.021 1/1:223:0,222,1:0:0:222,1:7852,36:-574.622,-66.8287,0,-571.77,-63.627,-571.469 1/1:106:0,105,1:0:0:105,1:3717,36:-261.494,-31.6082,0,-258.626,-28.3882,-258.325 1/1:198:0,198,0:0:0:198,0:7022,0:-496.087,-59.6039,0,-496.087,-59.6039,-496.087 2/2:172:0,0,172:0:0:0,172:0,6168:-539.487,-539.487,-539.487,-51.7772,-51.7772,0 1/1:236:0,236,0:0:0:236,0:8324,0:-605.254,-71.0431,0,-605.254,-71.0431,-605.254 1/2:32:0,23,9:0:0:23,9:820,324:-78.3689,-26.1024,-19.1787,-52.5995,0,-49.8902 1/1:14:0,14,0:0:0:14,0:491,0:-35.8369,-4.21442,0,-35.8369,-4.21442,-35.8369 1/2:39:0,20,19:0:0:20,19:694,684:-97.1266,-52.9821,-46.9615,-44.4554,0,-38.7358 1/2:138:0,82,56:0:0:82,56:2884,2012:-345.818,-158.73,-134.045,-187.411,0,-170.554 1/2:140:0,70,70:0:0:70,70:2484,2508:-358.125,-197.658,-176.586,-160.784,0,-139.712 1/2:194:0,116,77:0:0:116,77:4135,2759:-484.252,-217.36,-182.44,-266.866,0,-243.687 1/2:65:0,36,28:0:0:36,28:1266,1008:-160.169,-78.4623,-67.6252,-81.7534,0,-73.3245 1/2:71:0,31,40:0:0:31,40:1099,1428:-183.501,-113.359,-104.027,-70.4543,0,-58.4131 1/2:111:0,55,56:0:0:55,56:1945,2016:-283.36,-159.166,-142.61,-124.509,0,-107.652 1/2:42:0,29,13:0:0:29,13:1008,464:-102.218,-37.1062,-28.3763,-65.4395,0,-61.5261 1/1:80:0,80,0:0:0:80,0:2812,0:-203.29,-24.0824,0,-203.29,-24.0824,-203.29 1/1:52:0,51,0:0:0:51,0:1796,0:-125.424,-15.3525,0,-125.424,-15.3525,-125.424 chr07 5715998 . C T 25607 PASS AB=0.391304;ABP=80.9001;AC=32;AF=0.761905;AN=42;AO=1228;CIGAR=1X;DP=1830;DPB=1830;DPRA=0.643182;EPP=2669.58;EPPR=1292.92;GTI=1;LEN=1;MEANALT=1;MQM=59.9642;MQMR=59.9701;NS=21;NUMALT=1;ODDS=3.40325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43835;QR=21487;RO=602;RPL=0;RPP=2669.58;RPPR=1310.24;RPR=1228;RUN=1;SAF=1228;SAP=2669.58;SAR=0;SRF=600;SRP=1292.92;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:1,132:1:36:132:4724:-421.701,-36.4387,0 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 1/1:74:1,73:1:36:73:2616:-232.088,-18.6779,0 1/1:112:0,112:0:0:112:3976:-358.033,-33.7154,0 1/1:126:5,121:5:180:121:4296:-370.268,-21.3777,0 1/1:47:0,47:0:0:47:1672:-150.767,-14.1484,0 1/1:84:0,84:0:0:84:2991:-269.422,-25.2865,0 0/0:132:132,0:132:4708:0:0:0,-39.736,-423.882 0/1:133:92,41:92:3283:41:1468:-92.3787,0,-255.653 0/1:10:6,4:6:212:4:140:-9.93428,0,-16.4145 1/1:12:0,12:0:0:12:432:-39.213,-3.61236,0 0/1:25:18,7:18:644:7:248:-15.1384,0,-50.7648 0/1:101:57,44:57:2028:44:1568:-111.007,0,-152.389 1/1:106:0,106:0:0:106:3788:-341.117,-31.9092,0 0/1:169:125,44:125:4476:44:1576:-91.2575,0,-352.135 0/1:67:51,16:51:1816:16:572:-31.6444,0,-143.552 1/1:78:0,78:0:0:78:2780:-250.442,-23.4803,0 0/1:165:73,92:73:2592:92:3280:-245.751,0,-183.86 0/1:89:40,49:40:1440:49:1760:-131.892,0,-103.02 1/1:58:1,57:1:36:57:2032:-179.554,-13.8615,0 1/1:66:0,66:0:0:66:2372:-213.738,-19.868,0 chr07 5716110 . G A 10380.5 PASS AB=0.543194;ABP=15.3911;AC=10;AF=0.238095;AN=42;AO=562;CIGAR=1X;DP=1706;DPB=1706;DPRA=1.91008;EPP=1223.38;EPPR=2485;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.87282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20106;QR=40699;RO=1143;RPL=0;RPP=1223.38;RPPR=2485;RPR=562;RUN=1;SAF=0;SAP=1223.38;SAR=562;SRF=0;SRP=2485;SRR=1143;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:102:101,1:101:3594:1:32:0,-27.5057,-320.468 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/0:81:81,0:81:2875:0:0:0,-24.3834,-258.988 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/0:150:147,3:147:5225:3:108:0,-35.0793,-460.315 0/0:54:54,0:54:1924:0:0:0,-16.2556,-173.437 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 1/1:142:0,142:0:0:142:5087:-457.973,-42.7463,0 0/1:174:71,103:71:2529:103:3695:-280.372,0,-175.481 0/1:21:2,19:2:72:19:680:-55.2075,0,-0.515092 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:32:18,14:18:640:14:500:-35.7032,0,-48.2964 0/1:112:42,70:42:1491:70:2516:-192.976,0,-100.768 0/0:119:119,0:119:4234:0:0:0,-35.8226,-381.241 0/1:174:74,100:74:2631:100:3555:-267.781,0,-184.658 0/1:44:19,25:19:684:25:896:-67.715,0,-48.645 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:130:64,66:64:2300:66:2357:-173.253,0,-168.127 0/1:77:59,18:59:2076:18:644:-35.1113,0,-163.929 0/0:67:66,1:66:2355:1:36:0,-16.5707,-208.61 0/0:69:68,0:68:2413:0:0:0,-20.47,-217.065 chr07 5716135 . T G 23410.1 PASS AB=0.449804;ABP=19.796;AC=32;AF=0.761905;AN=42;AO=1131;CIGAR=1X;DP=1708;DPB=1708;DPRA=0.527027;EPP=2458.95;EPPR=1253.78;GTI=2;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.39745;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40332;QR=20595;RO=576;RPL=1131;RPP=2458.95;RPPR=1253.78;RPR=0;RUN=1;SAF=0;SAP=2458.95;SAR=1131;SRF=0;SRP=1253.78;SRR=576;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:1,100:1:36:100:3572:-318.09,-26.8058,0 1/1:36:1,35:1:36:35:1232:-107.586,-7.23881,0 1/1:82:0,81:0:0:81:2879:-258.988,-24.3834,0 1/1:37:0,37:0:0:37:1324:-119.462,-11.1381,0 1/1:150:3,147:3:108:147:5223:-460.135,-35.0793,0 1/1:52:0,52:0:0:52:1856:-167.319,-15.6536,0 1/1:46:0,46:0:0:46:1636:-147.529,-13.8474,0 0/0:148:148,0:148:5292:0:0:0,-44.5524,-476.416 0/1:175:105,70:105:3768:70:2500:-172.573,0,-286.638 0/1:21:19,2:19:684:2:72:-0.515093,0,-55.5687 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:33:15,18:15:532:18:648:-48.7179,0,-38.2791 0/1:113:71,42:71:2514:42:1504:-101.638,0,-192.493 1/1:116:0,116:0:0:116:4168:-375.301,-34.9195,0 0/1:175:102,73:102:3656:73:2616:-183.007,0,-276.563 0/1:46:27,19:27:972:19:680:-47.6818,0,-73.9505 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 0/1:129:65,64:65:2313:64:2296:-168.068,0,-169.596 0/1:75:18,57:18:648:57:2001:-157.785,0,-36.0746 1/1:66:1,65:1:36:65:2316:-205.103,-16.2697,0 1/1:69:0,69:0:0:69:2445:-220.304,-20.7711,0 chr07 5723135 . A G 17365.6 PASS AB=0.472597;ABP=11.2219;AC=10;AF=0.238095;AN=42;AO=778;CIGAR=1X;DP=3387;DPB=3387;DPRA=1.18458;EPP=1683.74;EPPR=5657.53;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.973;MQMR=59.9889;NS=21;NUMALT=1;ODDS=19.0007;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27424;QR=93005;RO=2608;RPL=549;RPP=288.818;RPPR=735.586;RPR=229;RUN=1;SAF=550;SAP=292.402;SAR=228;SRF=1774;SRP=738.713;SRR=834;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:174:174,0:174:6198:0:0:0,-52.3792,-557.917 0/0:119:118,1:118:4227:1:32:0,-32.6233,-377.41 0/0:104:103,1:103:3696:1:36:0,-27.7088,-329.243 0/0:166:166,0:166:5931:0:0:0,-49.971,-533.899 0/0:334:332,2:332:11837:2:63:0,-94.5609,-1059.21 0/0:216:214,2:214:7628:2:72:0,-58.1858,-679.722 0/0:194:192,2:192:6825:2:72:0,-51.5631,-607.489 1/1:169:0,169:0:0:169:5961:-536.596,-50.8741,0 0/1:208:107,101:107:3836:101:3580:-259.792,0,-282.822 0/1:32:17,15:17:604:15:519:-37.4032,0,-45.0576 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:42:15,27:15:536:27:947:-72.9005,0,-35.9312 0/1:217:102,115:102:3656:115:4009:-295.679,0,-263.92 0/0:195:195,0:195:6964:0:0:0,-58.7008,-626.597 0/1:240:122,118:122:4345:118:4168:-303.057,0,-318.978 0/1:178:102,76:102:3636:76:2680:-187.861,0,-273.863 0/0:146:145,1:145:5139:1:36:0,-40.3521,-459.055 0/1:153:69,83:69:2453:83:2947:-219.349,0,-174.907 0/1:189:129,60:129:4619:60:2122:-134.353,0,-358.978 0/0:139:134,5:134:4745:5:180:0,-25.2911,-410.658 0/0:163:163,0:163:5806:0:0:0,-49.0679,-522.656 chr07 5794064 . TG CA,CG 23754 PASS AB=0.509852,0.485222;ABP=3.3526,3.78048;AC=32,10;AF=0.761905,0.238095;AN=42;AO=874,241;CIGAR=2X,1X1M;DP=1123;DPB=1123;DPRA=1.2869,1.15753;EPP=1900.88,526.335;EPPR=7.35324;GTI=0;LEN=2,1;MEANALT=1.7,2.18182;MQM=59.5481,59.9004;MQMR=60;NS=21;NUMALT=2;ODDS=4.23259;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30719,8511;QR=72;RO=2;RPL=0,0;RPP=1900.88,526.335;RPPR=7.35324;RPR=874,241;RUN=1,1;SAF=0,0;SAP=1900.88,526.335;SAR=874,241;SRF=0;SRP=7.35324;SRR=2;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35,0:0:0:35,0:1210,0:-109.181,-10.5361,0,-109.181,-10.5361,-109.181 1/1:25:0,25,0:0:0:25,0:879,0:-79.4236,-7.52575,0,-79.4236,-7.52575,-79.4236 1/1:73:0,70,0:0:0:70,0:2463,0:-221.566,-21.0721,0,-221.566,-21.0721,-221.566 1/1:47:0,47,0:0:0:47,0:1625,0:-146.526,-14.1484,0,-146.526,-14.1484,-146.526 1/1:124:0,122,1:0:0:122,1:4290,36:-385.325,-36.7257,0,-382.388,-33.7333,-382.087 1/1:47:0,47,0:0:0:47,0:1674,0:-150.881,-14.1484,0,-150.881,-14.1484,-150.881 1/1:102:2,100,0:2:72:100,0:3522,0:-310.345,-23.8683,0,-310.947,-30.103,-316.822 2/2:42:0,0,42:0:0:0,42:0,1457:-131.415,-131.415,-131.415,-12.6433,-12.6433,0 1/2:98:0,45,52:0:0:45,52:1600,1815:-278.001,-147.613,-134.067,-130.381,0,-114.727 1/2:12:0,9,3:0:0:9,3:320,108:-35.2467,-9.17208,-6.46281,-26.4333,0,-25.5302 1/1:9:0,9,0:0:0:9,0:318,0:-28.9607,-2.70927,0,-28.9607,-2.70927,-28.9607 1/2:27:0,9,18:0:0:9,18:322,639:-78.678,-52.4197,-49.7104,-26.6149,0,-21.1964 1/2:70:0,33,36:0:0:33,36:1161,1277:-198.54,-104.034,-94.1003,-94.4988,0,-83.6617 1/1:67:0,67,0:0:0:67,0:2343,0:-211.081,-20.169,0,-211.081,-20.169,-211.081 1/2:57:0,25,32:0:0:25,32:883,1144:-165.543,-93.636,-86.1102,-72.2616,0,-62.6287 1/2:21:0,12,9:0:0:12,9:426,324:-61.5021,-26.7966,-23.1842,-35.0632,0,-32.3539 1/1:34:0,34,0:0:0:34,0:1204,0:-108.473,-10.235,0,-108.473,-10.235,-108.473 1/2:52:0,25,27:0:0:25,27:852,959:-147.611,-78.4984,-70.9727,-69.46,0,-61.3322 1/2:69:0,49,20:0:0:49,20:1729,716:-199.511,-58.7471,-43.9966,-141.121,0,-135.1 1/1:57:0,56,1:0:0:56,1:1976,36:-177.716,-16.8577,0,-174.779,-13.5604,-174.478 1/1:55:0,55,0:0:0:55,0:1922,0:-173.062,-16.5567,0,-173.062,-16.5567,-173.062 chr07 5794085 . C T 23745.2 PASS AB=0.504902;ABP=3.09546;AC=32;AF=0.761905;AN=42;AO=873;CIGAR=1X;DP=1121;DPB=1121;DPRA=1.28452;EPP=62.7693;EPPR=26.6864;GTI=0;LEN=1;MEANALT=1;MQM=59.5773;MQMR=59.9032;NS=21;NUMALT=1;ODDS=14.1711;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31145;QR=8840;RO=248;RPL=514;RPP=62.7693;RPPR=26.6864;RPR=359;RUN=1;SAF=0;SAP=1898.71;SAR=873;SRF=0;SRP=541.535;SRR=248;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:0,37:0:0:37:1328:-119.804,-11.1381,0 1/1:25:0,25:0:0:25:896:-80.944,-7.52575,0 1/1:71:0,71:0:0:71:2531:-228.037,-21.3731,0 1/1:45:0,45:0:0:45:1611:-145.262,-13.5464,0 1/1:125:1,124:1:36:124:4418:-394.041,-34.0305,0 1/1:46:0,46:0:0:46:1625:-146.45,-13.8474,0 1/1:101:2,99:2:72:99:3529:-310.971,-23.5673,0 0/0:42:42,0:42:1486:0:0:0,-12.6433,-133.976 0/1:96:52,44:52:1855:44:1572:-112.871,0,-138.328 0/1:13:4,9:4:135:9:324:-25.5925,0,-8.56912 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:28:19,9:19:684:9:324:-21.077,0,-53.4615 0/1:71:38,33:38:1356:33:1184:-85.4905,0,-100.967 1/1:66:0,66:0:0:66:2344:-211.145,-19.868,0 0/1:58:33,25:33:1188:25:900:-63.8613,0,-89.7689 0/1:21:9,12:9:324:12:428:-32.5348,0,-23.1842 1/1:33:0,33:0:0:33:1176:-105.957,-9.93399,0 0/1:52:27,25:27:963:25:892:-64.9002,0,-71.3324 0/1:69:20,49:20:705:49:1751:-137.078,0,-43.0017 1/1:58:1,57:1:36:57:2027:-179.07,-13.8615,0 1/1:54:0,54:0:0:54:1925:-173.524,-16.2556,0 chr07 5969757 . G A 7528.35 PASS AB=0.491279;ABP=3.46479;AC=12;AF=0.285714;AN=42;AO=434;CIGAR=1X;DP=1588;DPB=1588;DPRA=1.03256;EPP=945.429;EPPR=2506.72;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9747;MQMR=60;NS=21;NUMALT=1;ODDS=8.65908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15360;QR=41094;RO=1153;RPL=434;RPP=945.429;RPPR=2506.72;RPR=0;RUN=1;SAF=434;SAP=945.429;SAR=0;SRF=1153;SRP=2506.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:148:147,1:147:5264:1:36:0,-40.9542,-470.298 0/0:51:51,0:51:1820:0:0:0,-15.3525,-164.081 0/0:86:86,0:86:3088:0:0:0,-25.8886,-278.147 0/0:92:92,0:92:3275:0:0:0,-27.6948,-294.971 0/0:155:155,0:155:5551:0:0:0,-46.6596,-499.713 0/0:68:68,0:68:2395:0:0:0,-20.47,-215.805 0/0:102:102,0:102:3624:0:0:0,-30.7051,-326.365 1/1:91:0,91:0:0:91:3188:-287.124,-27.3937,0 0/1:87:32,55:32:1140:55:1955:-150.036,0,-76.7196 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:8:2,6:2:72:6:212:-17.0166,0,-4.42848 0/1:26:13,13:13:468:13:468:-34.6329,0,-34.6329 0/1:84:50,34:50:1796:34:1215:-84.3692,0,-136.636 0/1:164:81,82:81:2889:82:2908:-212.528,0,-210.817 0/1:76:40,36:40:1428:36:1280:-92.625,0,-105.939 0/1:106:56,50:56:1995:50:1781:-128.662,0,-147.914 0/1:109:58,51:58:2057:51:1785:-128.118,0,-152.587 0/1:21:13,8:13:449:8:280:-19.2177,0,-34.4159 0/0:68:64,4:64:2273:4:144:0,-7.15642,-191.517 0/0:32:32,0:32:1118:0:0:0,-9.63296,-100.926 chr07 5969904 . T G 28080.3 PASS AB=0.570451;ABP=34.5249;AC=30;AF=0.714286;AN=42;AO=1325;CIGAR=1X;DP=1715;DPB=1715;DPRA=1.15775;EPP=2880.21;EPPR=845.542;GTI=1;LEN=1;MEANALT=1.1;MQM=54.0091;MQMR=59.7938;NS=21;NUMALT=1;ODDS=9.92721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47383;QR=13833;RO=388;RPL=1325;RPP=2880.21;RPPR=845.542;RPR=0;RUN=1;SAF=0;SAP=2880.21;SAR=1325;SRF=0;SRP=845.542;SRR=388;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71:0:0:71:2528:-227.432,-21.3731,0 1/1:67:0,67:0:0:67:2395:-215.045,-20.169,0 1/1:85:0,85:0:0:85:3056:-274.795,-25.5876,0 1/1:122:0,122:0:0:122:4354:-390.99,-36.7257,0 1/1:212:3,209:3:108:209:7484:-661.679,-53.7432,0 1/1:139:0,138:0:0:138:4947:-442.992,-41.5421,0 1/1:106:0,106:0:0:106:3787:-339.797,-31.9092,0 0/0:71:71,0:71:2522:0:0:0,-21.3731,-227.219 0/1:93:43,50:43:1528:50:1777:-132.055,0,-109.817 0/1:5:1,4:1:36:4:144:-11.7896,0,-2.09312 1/1:4:0,4:0:0:4:140:-12.9005,-1.20412,0 0/1:26:7,19:7:252:19:684:-53.7211,0,-15.2022 0/1:108:47,61:47:1677:61:2175:-163.239,0,-118.697 0/1:95:46,49:46:1641:49:1752:-129,0,-119.334 0/1:118:42,76:42:1493:76:2728:-209.818,0,-99.1363 0/1:94:42,52:42:1512:52:1860:-138.888,0,-108.074 0/1:99:41,58:41:1460:58:2065:-155.93,0,-101.891 0/1:52:26,26:26:928:26:932:-68.4246,0,-68.1709 0/1:41:19,22:19:676:22:783:-57.46,0,-48.8254 1/1:70:0,70:0:0:70:2512:-225.632,-21.0721,0 1/1:37:0,36:0:0:36:1280:-114.682,-10.8371,0 chr07 6117702 . CT TT,TG 63183.4 PASS AB=0.49148,0.502242;ABP=3.71335,3.05899;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2172,732;CIGAR=1X1M,2X;DP=2914;DPB=2914;DPRA=0.849383,1.57683;EPP=4719.45,1592.53;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.9,2.23077;MQM=60,59.9945;MQMR=60;NS=21;NUMALT=2;ODDS=3.73688;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77601,25935;QR=36;RO=1;RPL=0,0;RPP=4719.45,1592.53;RPPR=5.18177;RPR=2172,732;RUN=1,1;SAF=2172,732;SAP=4719.45,1592.53;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:0,162,0:0:0:162,0:5799,0:-522.022,-48.7669,0,-522.022,-48.7669,-522.022 1/1:78:0,78,0:0:0:78,0:2804,0:-252.599,-23.4803,0,-252.599,-23.4803,-252.599 1/1:98:0,98,0:0:0:98,0:3512,0:-316.29,-29.5009,0,-316.29,-29.5009,-316.29 1/1:229:0,228,1:0:0:228,1:8144,36:-732.616,-68.6348,0,-729.678,-65.3376,-729.377 1/1:344:0,339,5:0:0:339,5:12110,180:-1089.39,-102.049,0,-1074.7,-87.0023,-1073.2 1/1:60:0,59,1:0:0:59,1:2104,23:-189.397,-17.7608,0,-187.631,-15.7619,-187.33 1/1:127:0,126,0:0:0:126,0:4492,0:-404.247,-37.9298,0,-404.247,-37.9298,-404.247 2/2:162:0,0,162:0:0:0,162:0,5701:-513.213,-513.213,-513.213,-48.7669,-48.7669,0 1/2:243:1,123,119:1:36:123,119:4428,4218:-701.685,-340.681,-306.591,-358.365,0,-325.48 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/1:11:0,11,0:0:0:11,0:388,0:-35.2574,-3.31133,0,-35.2574,-3.31133,-35.2574 1/2:53:0,29,24:0:0:29,24:1044,856:-155.323,-70.1358,-61.406,-85.5449,0,-78.3202 1/2:232:0,89,138:0:0:89,138:3157,4920:-658.308,-401.099,-374.307,-257.253,0,-215.711 1/1:186:0,182,3:0:0:182,3:6505,108:-585.199,-54.7875,0,-576.386,-45.8989,-575.483 1/2:277:0,145,132:0:0:145,132:5152,4650:-798.741,-378.926,-335.276,-420.169,0,-380.433 1/2:127:0,64,63:0:0:64,63:2304,2264:-373.052,-185.057,-165.792,-188.355,0,-169.39 1/1:93:0,93,0:0:0:93,0:3324,0:-299.378,-27.9958,0,-299.378,-27.9958,-299.378 1/2:68:0,36,31:0:0:36,31:1288,1110:-195.637,-90.6068,-79.7697,-105.114,0,-95.7822 1/2:110:0,61,49:0:0:61,49:2196,1725:-319.968,-140.781,-122.418,-179.542,0,-164.792 1/1:189:0,189,0:0:0:189,0:6711,0:-604.064,-56.8947,0,-604.064,-56.8947,-604.064 1/1:60:0,59,0:0:0:59,0:2103,0:-189.326,-17.7608,0,-189.326,-17.7608,-189.326 chr07 6117735 . G C 104874 PASS AB=0.490971;ABP=4.26515;AC=32;AF=0.761905;AN=42;AO=3835;CIGAR=1X;DP=5079;DPB=5079;DPRA=0.731385;EPP=8330.61;EPPR=2686.98;GTI=0;LEN=1;MEANALT=1;MQM=59.9838;MQMR=59.9863;NS=21;NUMALT=1;ODDS=22.8386;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=136522;QR=44316;RO=1244;RPL=2201;RPP=185.045;RPPR=64.7053;RPR=1634;RUN=1;SAF=2201;SAP=185.045;SAR=1634;SRF=714;SRP=62.1079;SRR=530;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:321:1,320:1:36:320:11372:-1019.73,-93.0324,0 1/1:128:0,128:0:0:128:4567:-411.197,-38.5318,0 1/1:195:0,195:0:0:195:6960:-626.465,-58.7009,0 1/1:333:1,332:1:36:332:11845:-1062.31,-96.6447,0 1/1:559:5,554:5:180:554:19688:-1754.91,-151.724,0 1/1:187:4,183:4:144:183:6517:-573.303,-42.979,0 1/1:323:0,323:0:0:323:11457:-1031.01,-97.2327,0 0/0:325:325,0:325:11499:0:0:0,-97.8347,-1034.79 0/1:410:211,199:211:7525:199:7066:-512.579,0,-553.868 0/1:25:14,11:14:496:11:384:-27.3689,0,-37.4485 1/1:22:0,22:0:0:22:784:-70.8839,-6.62266,0 0/1:83:43,40:43:1526:40:1432:-104.192,0,-112.646 0/1:333:200,133:200:7177:133:4725:-325.168,0,-545.739 1/1:283:4,279:4:140:279:9931:-880.598,-72.2469,0 0/1:420:198,222:198:7057:222:7902:-584.773,0,-508.758 0/1:178:88,90:88:3156:90:3214:-235.899,0,-230.681 1/1:141:2,139:2:63:139:4967:-441.196,-36.4621,0 0/1:144:75,69:75:2679:69:2448:-177.226,0,-197.999 0/1:179:73,106:73:2602:106:3782:-286.694,0,-180.543 1/1:344:0,344:0:0:344:12300:-1106.84,-103.554,0 1/1:146:0,146:0:0:146:5181:-466.43,-43.9504,0 chr07 6494781 . GTAGAAGAAAT TTAAAAGAAAT,GTAGAAAT 74453.5 PASS AB=0.513977,0.476105;ABP=4.89198,8.51045;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2402,714;CIGAR=1X2M1X7M,2M3D6M;DP=3154;DPB=2956.73;DPRA=0.84096,1.34123;EPP=3205,1510.32;EPPR=0;GTI=0;LEN=11,3;MEANALT=3.35,3.75;MQM=59.9609,59.972;MQMR=0;NS=21;NUMALT=2;ODDS=17.7718;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84975,25075;QR=0;RO=0;RPL=2142,709;RPP=3205,1510.32;RPPR=0;RPR=260,5;RUN=1,1;SAF=0,0;SAP=5218.89,1553.44;SAR=2402,714;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:198:0,196,1:0:0:196,1:6926,32:-623.077,-59.0019,0,-620.499,-56.4435,-620.198 1/1:146:0,142,1:0:0:142,1:5020,32:-451.603,-42.7463,0,-449.024,-40.1744,-448.723 1/1:139:0,139,0:0:0:139,0:4938,0:-444.574,-41.8432,0,-444.574,-41.8432,-444.574 1/1:174:0,171,1:0:0:171,1:6051,36:-544.407,-51.4761,0,-541.469,-48.5021,-541.168 1/1:277:0,270,1:0:0:270,1:9534,36:-857.703,-81.2781,0,-854.765,-78.3355,-854.464 1/1:199:0,197,0:0:0:197,0:6948,0:-625.081,-59.3029,0,-625.081,-59.3029,-625.081 1/1:211:0,208,0:0:0:208,0:7418,0:-667.317,-62.6142,0,-667.317,-62.6142,-667.317 2/2:177:0,0,173:0:0:0,173:0,6073:-546.377,-546.377,-546.377,-52.0782,-52.0782,0 1/2:324:0,174,147:0:0:174,147:6130,5147:-917.922,-418.846,-366.467,-499.145,0,-454.894 1/2:24:0,14,10:0:0:14,10:493,351:-69.0532,-28.9164,-24.702,-40.4882,0,-37.4779 1/1:8:0,8,0:0:0:8,0:286,0:-26.0855,-2.40824,0,-26.0855,-2.40824,-26.0855 1/2:48:0,24,24:0:0:24,24:855,836:-138.027,-68.3327,-61.108,-70.0466,0,-62.8218 1/2:119:0,51,68:0:0:51,68:1804,2406:-343.26,-196.326,-180.974,-147.288,0,-126.818 1/1:97:0,93,3:0:0:93,3:3304,108:-297.242,-27.9958,0,-288.43,-19.1162,-287.526 1/2:325:0,161,161:0:0:161,161:5660,5660:-921.516,-460.805,-412.339,-460.806,0,-412.34 1/2:119:0,58,60:0:0:58,60:2050,2097:-337.536,-170.577,-153.117,-166.951,0,-148.889 1/1:136:0,132,3:0:0:132,3:4691,104:-422.031,-39.736,0,-413.578,-31.2104,-412.675 1/2:69:0,38,30:0:0:38,30:1346,1064:-196.386,-86.7495,-75.3104,-109.698,0,-100.667 1/2:81:0,50,28:0:0:50,28:1756,985:-223.14,-80.2188,-65.1673,-142.958,0,-134.529 1/1:244:0,237,3:0:0:237,3:8385,108:-754.323,-71.3441,0,-745.511,-62.5199,-744.608 1/1:39:0,39,0:0:0:39,0:1380,0:-124.498,-11.7402,0,-124.498,-11.7402,-124.498 chr07 6851628 . TCTTT ACTTC,ACTTT 26520 PASS AB=0.608939,0.391061;ABP=58.3646,58.3646;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1003,249;CIGAR=1X3M1X,1X4M;DP=1255;DPB=1255;DPRA=1.74286,1.41896;EPP=2181,543.707;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.8,2;MQM=59.9741,59.992;MQMR=0;NS=21;NUMALT=2;ODDS=8.51713;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35314,8896;QR=0;RO=0;RPL=0,0;RPP=2181,543.707;RPPR=0;RPR=1003,249;RUN=1,1;SAF=0,0;SAP=2181,543.707;SAR=1003,249;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:0,126,1:0:0:126,1:4420,36:-397.682,-37.9298,0,-394.744,-34.9274,-394.443 1/1:25:0,25,0:0:0:25,0:880,0:-79.5164,-7.52575,0,-79.5164,-7.52575,-79.5164 1/1:46:0,46,0:0:0:46,0:1599,0:-144.197,-13.8474,0,-144.197,-13.8474,-144.197 1/1:67:0,67,0:0:0:67,0:2355,0:-212.21,-20.169,0,-212.21,-20.169,-212.21 1/1:134:0,132,2:0:0:132,2:4647,72:-418.039,-39.736,0,-412.164,-33.5013,-411.562 1/1:97:0,96,0:0:0:96,0:3421,0:-307.845,-28.8989,0,-307.845,-28.8989,-307.845 1/1:94:0,93,1:0:0:93,1:3275,36:-294.614,-27.9958,0,-291.677,-24.6985,-291.376 2/2:35:0,0,35:0:0:0,35:0,1260:-113.705,-113.705,-113.705,-10.5361,-10.5361,0 1/2:130:0,82,48:0:0:82,48:2916,1703:-376.743,-139.106,-114.421,-237.992,0,-223.543 1/2:9:0,7,2:0:0:7,2:249,72:-26.5242,-6.23466,-4.12745,-20.6484,0,-20.0464 1/1:6:0,5,0:0:0:5,0:180,0:-16.2754,-1.50515,0,-16.2754,-1.50515,-16.2754 1/2:15:0,9,6:0:0:9,6:320,216:-44.0594,-17.9843,-15.2751,-26.4331,0,-24.6269 1/2:66:0,46,20:0:0:46,20:1639,707:-191.532,-57.934,-44.0866,-133.952,0,-127.931 1/2:74:0,47,27:0:0:47,27:1631,963:-211.43,-78.8581,-64.7097,-132.925,0,-124.797 1/2:67:0,41,26:0:0:41,26:1420,932:-191.738,-76.3712,-64.0289,-115.72,0,-107.893 1/2:36:0,20,16:0:0:20,16:706,567:-104.035,-46.5442,-40.5236,-57.8445,0,-53.028 1/2:70:0,37,33:0:0:37,33:1279,1180:-200.492,-96.5741,-85.4359,-104.27,0,-94.3355 1/2:38:0,21,17:0:0:21,17:752,612:-111.622,-50.2959,-43.9743,-61.6849,0,-56.5674 1/2:32:0,17,15:0:0:17,15:601,540:-93.3664,-44.4211,-39.3036,-49.3021,0,-44.7866 1/1:54:0,54,0:0:0:54,0:1901,0:-171.368,-16.2556,0,-171.368,-16.2556,-171.368 1/1:32:0,32,0:0:0:32,0:1123,0:-101.376,-9.63296,0,-101.376,-9.63296,-101.376 chr07 6851641 . A C 4004.17 PASS AB=0.406308;ABP=44.1071;AC=12;AF=0.285714;AN=42;AO=259;CIGAR=1X;DP=1246;DPB=1246;DPRA=1.42879;EPP=565.422;EPPR=2144.08;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.9923;MQMR=59.9736;NS=21;NUMALT=1;ODDS=4.17883;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9236;QR=35335;RO=986;RPL=0;RPP=565.422;RPPR=2144.08;RPR=259;RUN=1;SAF=0;SAP=565.422;SAR=259;SRF=0;SRP=2144.08;SRR=986;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:125:124,1:124:4414:1:36:0,-34.0305,-393.833 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.738 0/0:133:131,2:131:4697:2:72:0,-33.2003,-416.051 0/0:97:97,0:97:3484:0:0:0,-29.1999,-313.77 0/0:90:88,1:88:3155:1:36:0,-23.5532,-280.576 1/1:36:0,36:0:0:36:1277:-115.231,-10.8371,0 0/1:129:80,49:80:2864:49:1752:-119.131,0,-219.164 0/1:10:7,3:7:252:3:99:-6.22628,0,-20.0187 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:15:9,6:9:324:6:216:-15.2751,0,-24.9904 0/1:67:46,21:46:1633:21:752:-47.8372,0,-127.088 0/1:75:47,28:47:1684:28:993:-67.1053,0,-129.27 0/1:63:37,26:37:1328:26:936:-65.5937,0,-100.539 0/1:35:19,16:19:680:16:571:-41.1871,0,-50.9931 0/1:72:37,35:37:1332:35:1236:-89.868,0,-98.5082 0/1:40:21,19:21:756:19:684:-49.8491,0,-56.326 0/1:33:17,16:17:612:16:576:-42.241,0,-45.4794 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.998 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 chr07 6851659 . A G 3935.3 PASS AB=0.401487;ABP=48.361;AC=12;AF=0.285714;AN=42;AO=255;CIGAR=1X;DP=1246;DPB=1246;DPRA=1.44081;EPP=548.084;EPPR=2118.16;GTI=1;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9737;NS=21;NUMALT=1;ODDS=2.65544;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9078;QR=35389;RO=990;RPL=254;RPP=548.084;RPPR=2118.16;RPR=1;RUN=1;SAF=0;SAP=556.736;SAR=255;SRF=0;SRP=2152.77;SRR=990;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:127:125,1:125:4471:1:36:0,-34.6164,-399.035 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.73 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.738 0/0:133:131,2:131:4689:2:72:0,-33.2003,-415.332 0/0:95:95,0:95:3370:0:0:0,-28.5978,-303.515 0/0:92:91,1:91:3248:1:36:0,-24.0965,-288.944 1/1:35:0,35:0:0:35:1236:-111.544,-10.5361,0 0/1:132:82,50:82:2929:50:1783:-121.016,0,-224.107 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:15:9,6:9:324:6:216:-15.2751,0,-24.9904 0/1:67:48,19:48:1720:19:680:-41.3602,0,-134.916 0/1:76:48,28:48:1697:28:1000:-67.4371,0,-130.135 0/1:63:38,25:38:1360:25:892:-61.6348,0,-103.577 0/1:36:20,16:20:720:16:572:-40.9763,0,-54.2917 0/1:69:34,35:34:1216:35:1248:-91.8538,0,-88.9755 0/1:38:20,18:20:720:18:636:-46.1289,0,-53.6896 0/1:32:16,16:16:576:16:563:-41.3662,0,-42.542 0/0:52:52,0:52:1845:0:0:0,-15.6536,-166.328 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 chr07 6879233 . GCGCC CCGTT,GCGTC 30055.8 PASS AB=0.570825,0.414376;ABP=23.6186,33.1309;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1162,247;CIGAR=1X2M2X,3M1X1M;DP=1420;DPB=1420.2;DPRA=1.42917,0.839552;EPP=2526.26,539.364;EPPR=5.18177;GTI=1;LEN=5,1;MEANALT=1.95,2.41667;MQM=53.7728,60;MQMR=60;NS=21;NUMALT=2;ODDS=11.9797;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=40765,8818;QR=31;RO=1;RPL=0,0;RPP=2526.26,539.364;RPPR=5.18177;RPR=1162,247;RUN=1,1;SAF=1162,247;SAP=2526.26,539.364;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:72:0,70,2:0:0:70,2:2457,72:-219.708,-21.0721,0,-213.832,-14.8374,-213.23 1/1:177:0,175,0:0:0:175,0:6173,0:-553.122,-52.6803,0,-553.122,-52.6803,-553.122 1/1:93:0,93,0:0:0:93,0:3280,0:-295.166,-27.9958,0,-295.166,-27.9958,-295.166 1/1:51:0,51,0:0:0:51,0:1791,0:-161.23,-15.3525,0,-161.23,-15.3525,-161.23 1/1:117:0,116,1:0:0:116,1:4065,32:-364.817,-34.9195,0,-362.239,-32.0212,-361.938 1/1:40:0,39,1:0:0:39,1:1369,36:-121.78,-11.7402,0,-118.842,-8.44293,-118.541 1/1:100:0,100,0:0:0:100,0:3530,0:-315.948,-30.103,0,-315.948,-30.103,-315.948 2/2:48:0,0,47:0:0:0,47:0,1684:-151.614,-151.614,-151.614,-14.1484,-14.1484,0 1/2:73:0,41,31:0:0:41,31:1434,1107:-207.011,-90.384,-78.0417,-116.755,0,-107.423 1/2:8:0,7,1:0:0:7,1:252,36:-23.8154,-3.29724,-1.19003,-20.8779,0,-20.5769 1/1:13:0,13,0:0:0:13,0:463,0:-41.7452,-3.91339,0,-41.7452,-3.91339,-41.7452 1/2:38:0,23,15:0:0:23,15:827,532:-111.032,-43.6976,-36.7739,-67.6906,0,-63.1752 1/2:80:0,43,36:0:0:43,36:1480,1292:-224.978,-105.396,-92.4519,-119.582,0,-108.745 1/1:55:0,54,0:0:0:54,0:1881,0:-169.045,-16.2556,0,-169.045,-16.2556,-169.045 1/2:72:0,42,29:0:0:42,29:1456,1040:-202.268,-84.844,-72.2007,-117.436,0,-108.706 1/2:36:0,27,9:0:0:27,9:926,309:-100.227,-25.4314,-17.3036,-75.138,0,-72.4287 1/1:97:0,97,0:0:0:97,0:3415,0:-306.959,-29.1999,0,-306.959,-29.1999,-306.959 1/2:110:1,50,58:1:31:50,58:1717,2066:-304.478,-165.956,-153.392,-136.378,0,-121.406 1/2:56:0,37,17:0:0:37,17:1295,612:-155.122,-49.9406,-38.8024,-105.183,0,-100.065 1/1:66:0,66,0:0:0:66,0:2315,0:-207.337,-19.868,0,-207.337,-19.868,-207.337 1/1:18:0,18,0:0:0:18,0:639,0:-57.7097,-5.41854,0,-57.7097,-5.41854,-57.7097 chr07 6879325 . G A 3307.83 PASS AB=0.425178;ABP=23.482;AC=10;AF=0.238095;AN=42;AO=212;CIGAR=1X;DP=1211;DPB=1211;DPRA=0.828861;EPP=463.362;EPPR=2167.97;GTI=1;LEN=1;MEANALT=1;MQM=59.9906;MQMR=59.984;NS=21;NUMALT=1;ODDS=2.91096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7546;QR=35229;RO=997;RPL=0;RPP=463.362;RPPR=2167.97;RPR=212;RUN=1;SAF=0;SAP=463.362;SAR=212;SRF=0;SRP=2167.97;SRR=997;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:62,1:62:2196:1:36:0,-15.3666,-194.308 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 0/0:41:40,0:40:1398:0:0:0,-12.0412,-125.753 0/0:91:91,0:91:3207:0:0:0,-27.3937,-288.851 0/0:160:160,0:160:5658:0:0:0,-48.1648,-509.326 0/0:75:74,1:74:2643:1:32:0,-19.3779,-234.917 0/0:109:108,0:108:3829:0:0:0,-32.5112,-344.448 1/1:29:0,29:0:0:29:1023:-92.3817,-8.72987,0 0/1:81:37,44:37:1297:44:1567:-116.937,0,-92.6457 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:76:33,43:33:1156:43:1536:-115.655,0,-81.4654 0/0:24:23,1:23:785:1:32:0,-4.02541,-67.7614 0/1:98:56,42:56:1973:42:1495:-105.342,0,-148.342 0/1:38:28,10:28:1000:10:360:-21.3052,0,-78.8762 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.864 0/1:70:45,25:45:1565:25:889:-59.2565,0,-120.064 0/1:46:36,10:36:1266:10:360:-18.8969,0,-100.394 0/0:83:82,1:82:2897:1:36:0,-21.3872,-257.368 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 chr07 6942594 . G C 2267.67 PASS AB=0.462687;ABP=6.2513;AC=10;AF=0.238095;AN=42;AO=143;CIGAR=1X;DP=628;DPB=628;DPRA=1.10826;EPP=313.531;EPPR=1056.17;GTI=0;LEN=1;MEANALT=1;MQM=51.4545;MQMR=30.4;NS=21;NUMALT=1;ODDS=5.43884;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5116;QR=17243;RO=485;RPL=0;RPP=313.531;RPPR=1056.17;RPR=143;RUN=1;SAF=143;SAP=313.531;SAR=0;SRF=485;SRP=1056.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1456:1:36:0,-9.05678,-107.936 0/0:41:41,0:41:1464:0:0:0,-12.3422,-100.363 0/0:9:9,0:9:324:0:0:0,-2.70927,-24.98 0/0:34:34,0:34:1220:0:0:0,-10.235,-91.7188 0/0:58:58,0:58:2053:0:0:0,-17.4597,-156.639 0/0:35:35,0:35:1241:0:0:0,-10.536,-85.7353 0/0:25:25,0:25:896:0:0:0,-7.52575,-61.5709 1/1:17:0,17:0:0:17:612:-54.0828,-5.11751,0 0/1:43:20,23:20:716:23:828:-61.7197,0,-43.5718 0/1:8:4,4:4:144:4:144:-10.8617,0,-8.33199 0/0:4:4,0:4:144:0:0:0,-1.20412,-10.1239 0/1:13:7,6:7:252:6:208:-15.0925,0,-14.6643 0/1:45:31,14:31:1074:14:504:-32.0647,0,-69.6386 0/0:18:17,1:17:612:1:36:0,-1.82712,-43.4893 0/1:27:12,15:12:428:15:540:-40.6766,0,-24.2386 0/1:24:11,13:11:381:13:460:-34.4555,0,-23.0571 0/0:14:14,0:14:500:0:0:0,-4.21442,-39.5093 0/1:66:27,39:27:945:39:1392:-104.979,0,-48.7486 0/1:42:32,10:32:1148:10:356:-19.2887,0,-74.7504 0/0:20:20,0:20:705:0:0:0,-6.0206,-51.8496 0/0:43:43,0:43:1540:0:0:0,-12.9443,-104.584 chr07 6942638 . TAGCA TA 20479.3 PASS AB=0.513359;ABP=3.82253;AC=32;AF=0.761905;AN=42;AO=866;CIGAR=1M3D1M;DP=1163;DPB=643.4;DPRA=1.48026;EPP=3.65221;EPPR=3.90097;GTI=0;LEN=3;MEANALT=1.1;MQM=43.7818;MQMR=55.6102;NS=21;NUMALT=1;ODDS=9.46931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30388;QR=10145;RO=295;RPL=863;RPP=1857.54;RPPR=643.595;RPR=3;RUN=1;SAF=438;SAP=3.26105;SAR=428;SRF=153;SRP=3.90097;SRR=142;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:1,80:1:36:80:2794:-229.705,-20.7969,0 1/1:51:1,50:1:36:50:1750:-125.651,-11.7543,0 1/1:14:0,14:0:0:14:500:-41.8249,-4.21442,0 1/1:49:0,49:0:0:49:1723:-138.018,-14.7505,0 1/1:87:0,87:0:0:87:3065:-252.052,-26.1896,0 1/1:61:0,61:0:0:61:2125:-168.006,-18.3628,0 1/1:60:0,60:0:0:60:2131:-173.875,-18.0618,0 0/0:38:38,0:38:1322:0:0:0,-11.4391,-118.26 0/1:86:45,40:45:1563:40:1379:-92.2197,0,-114.842 0/1:14:4,10:4:123:10:340:-24.698,0,-7.13505 1/1:10:0,10:0:0:10:360:-29.6039,-3.0103,0 0/1:18:12,6:12:398:6:216:-11.821,0,-30.6698 0/1:61:21,40:21:742:40:1423:-96.728,0,-48.6074 1/1:32:1,31:1:36:31:1083:-88.5566,-6.04154,0 0/1:65:34,30:34:1200:30:1060:-71.1778,0,-88.5723 0/1:32:18,14:18:632:14:496:-32.5257,0,-47.5251 1/1:19:0,19:0:0:19:669:-54.7424,-5.71957,0 0/1:154:92,62:92:3180:62:2175:-133.944,0,-239.405 0/1:94:27,67:27:841:67:2305:-169.26,0,-47.6497 1/1:50:1,49:1:36:49:1724:-141.312,-11.4532,0 1/1:87:0,87:0:0:87:3070:-246.277,-26.1896,0 chr07 7030650 . A G 29935.7 PASS AB=0.525982;ABP=7.63672;AC=32;AF=0.761905;AN=42;AO=1424;CIGAR=1X;DP=1857;DPB=1857;DPRA=1.57895;EPP=3095.19;EPPR=941.086;GTI=0;LEN=1;MEANALT=1.05;MQM=51.1833;MQMR=59.9745;NS=21;NUMALT=1;ODDS=5.9101;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50655;QR=15462;RO=432;RPL=1424;RPP=3095.19;RPPR=941.086;RPR=0;RUN=1;SAF=1424;SAP=3095.19;SAR=0;SRF=432;SRP=941.086;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91:0:0:91:3259:-291.275,-27.3937,0 1/1:67:0,67:0:0:67:2395:-214.09,-20.169,0 1/1:27:0,27:0:0:27:967:-86.64,-8.12781,0 1/1:61:0,61:0:0:61:2155:-192.603,-18.3628,0 1/1:112:0,111:0:0:111:3941:-352.642,-33.4143,0 1/1:49:0,49:0:0:49:1756:-157.599,-14.7505,0 1/1:88:0,88:0:0:88:3125:-280.234,-26.4906,0 0/0:57:57,0:57:2032:0:0:0,-17.1587,-183.153 0/1:82:27,55:27:972:55:1964:-151.96,0,-63.0997 0/1:131:71,60:71:2540:60:2135:-152.348,0,-189.416 1/1:397:0,397:0:0:397:14121:-1264.36,-119.509,0 0/1:228:113,115:113:4047:115:4090:-298.6,0,-295.782 0/1:51:28,23:28:1004:23:807:-56.637,0,-75.3233 1/1:47:0,47:0:0:47:1667:-149.059,-14.1484,0 0/1:71:37,34:37:1328:34:1198:-85.5398,0,-98.4487 0/1:42:24,18:24:860:18:640:-45.0737,0,-65.0786 1/1:15:0,15:0:0:15:540:-48.8671,-4.51545,0 0/1:170:71,99:71:2535:99:3527:-265.593,0,-177.226 0/1:14:3,11:3:108:11:383:-30.2096,0,-5.86075 1/1:42:1,41:1:36:41:1453:-126.639,-9.04499,0 1/1:15:0,15:0:0:15:532:-48.0015,-4.51545,0 chr07 7030665 . 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A G 49249.7 PASS AB=0.498092;ABP=3.04345;AC=32;AF=0.761905;AN=42;AO=2273;CIGAR=1X;DP=3015;DPB=3015;DPRA=0.654439;EPP=4938.77;EPPR=1614.24;GTI=0;LEN=1;MEANALT=1;MQM=59.9534;MQMR=59.9434;NS=21;NUMALT=1;ODDS=9.26602;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81270;QR=26499;RO=742;RPL=2273;RPP=4938.77;RPPR=1614.24;RPR=0;RUN=1;SAF=0;SAP=4938.77;SAR=2273;SRF=0;SRP=1614.24;SRR=742;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:145:0,145:0:0:145:5163:-464.812,-43.6494,0 1/1:114:0,114:0:0:114:4071:-366.576,-34.3174,0 1/1:158:0,158:0:0:158:5644:-508.08,-47.5627,0 1/1:223:0,223:0:0:223:7984:-718.58,-67.1297,0 1/1:281:0,281:0:0:281:10058:-904.926,-84.5894,0 1/1:296:0,296:0:0:296:10583:-952.367,-89.1049,0 1/1:109:0,109:0:0:109:3902:-351.369,-32.8123,0 0/0:214:214,0:214:7649:0:0:0,-64.4204,-688.441 0/1:338:178,160:178:6346:160:5724:-413.517,0,-469.463 0/1:15:3,12:3:108:12:432:-34.7057,0,-5.55972 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:32:16,16:16:576:16:563:-41.3662,0,-42.5282 0/1:178:87,91:87:3120:91:3253:-239.407,0,-227.443 1/1:138:0,138:0:0:138:4956:-446.181,-41.5421,0 0/1:223:101,122:101:3600:122:4348:-324.365,0,-257.078 0/1:97:60,37:60:2140:37:1328:-90.6223,0,-163.665 1/1:118:0,118:0:0:118:4216:-379.618,-35.5215,0 0/1:93:57,36:57:2036:36:1288:-88.2278,0,-155.516 0/1:72:24,48:24:852:48:1693:-130.979,0,-55.3239 1/1:109:2,107:2:72:107:3836:-338.599,-25.9755,0 1/1:55:0,55:0:0:55:1976:-178.111,-16.5567,0 chr07 7455409 . G A 92679.9 PASS AB=0.522912;ABP=15.349;AC=32;AF=0.761905;AN=42;AO=3565;CIGAR=1X;DP=5034;DPB=5034;DPRA=1.44821;EPP=1098.36;EPPR=672.529;GTI=0;LEN=1;MEANALT=1;MQM=55.7877;MQMR=59.936;NS=21;NUMALT=1;ODDS=4.84191;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=127076;QR=52290;RO=1469;RPL=18;RPP=7588.75;RPPR=3098.07;RPR=3547;RUN=1;SAF=2471;SAP=1157.96;SAR=1094;SRF=1082;SRP=717.017;SRR=387;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:220:0,220:0:0:220:7829:-703.534,-66.2266,0 1/1:88:0,88:0:0:88:3152:-282.516,-26.4906,0 1/1:139:1,138:1:36:138:4889:-436.035,-38.2449,0 1/1:182:0,182:0:0:182:6517:-585.928,-54.7875,0 1/1:345:0,345:0:0:345:12280:-1103.8,-103.855,0 1/1:67:2,65:2:72:65:2311:-201.036,-13.3323,0 1/1:119:0,119:0:0:119:4240:-380.881,-35.8226,0 0/0:168:168,0:168:5963:0:0:0,-50.573,-536.769 0/1:281:153,128:153:5442:128:4572:-326.813,0,-405.322 0/1:417:198,219:198:7084:219:7767:-571.067,0,-512.091 1/1:485:5,480:5:180:480:17135:-1517.1,-129.493,0 0/1:587:296,291:296:10586:291:10377:-753.277,0,-775.943 0/1:235:107,128:107:3771:128:4557:-339.195,0,-268.849 1/1:196:0,196:0:0:196:6990:-628.042,-59.0019,0 0/1:213:90,123:90:3168:123:4376:-329.46,0,-221.223 0/1:107:46,61:46:1608:61:2167:-162.994,0,-112.479 1/1:88:0,88:0:0:88:3122:-281.018,-26.4906,0 0/1:731:361,370:361:12872:370:13246:-968.143,0,-938.244 0/1:135:40,95:40:1436:95:3375:-263.121,0,-88.8986 1/1:166:1,165:1:36:165:5889:-524.744,-46.3727,0 1/1:65:1,64:1:36:64:2285:-201.19,-16.0643,0 chr07 7455418 . GG CA,CG 145901 PASS AB=0.523184,0.474261;ABP=15.7973,18.7719;AC=32,10;AF=0.761905,0.238095;AN=42;AO=4002,1479;CIGAR=2X,1X1M;DP=5491;DPB=5492;DPRA=1.59401,1.45827;EPP=8667.2,3197.27;EPPR=0;GTI=0;LEN=2,1;MEANALT=2.15,2.42857;MQM=56.1219,59.9533;MQMR=0;NS=21;NUMALT=2;ODDS=45.161;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=140873,52516;QR=0;RO=0;RPL=2501,1080;RPP=545.607,683.906;RPPR=0;RPR=1501,399;RUN=1,1;SAF=2504,1082;SAP=552.138,691.928;SAR=1498,397;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:229:0,229,0:0:0:229,0:8019,0:-720.607,-68.9359,0,-720.607,-68.9359,-720.607 1/1:154:0,154,0:0:0:154,0:5428,0:-487.881,-46.3586,0,-487.881,-46.3586,-487.881 1/1:137:0,132,5:0:0:132,5:4635,176:-416.58,-39.736,0,-402.252,-25.0561,-400.747 1/1:187:0,187,0:0:0:187,0:6551,0:-589.076,-56.2926,0,-589.076,-56.2926,-589.076 1/1:349:0,347,0:0:0:347,0:12212,0:-1097.34,-104.457,0,-1097.34,-104.457,-1097.34 1/1:181:0,178,3:0:0:178,3:6252,108:-561.877,-53.5833,0,-553.064,-44.4113,-552.161 1/1:262:0,262,0:0:0:262,0:9189,0:-825.347,-78.8699,0,-825.347,-78.8699,-825.347 2/2:167:0,0,167:0:0:0,167:0,5930:-533.805,-533.805,-533.805,-50.272,-50.272,0 1/2:285:0,132,152:0:0:132,152:4625,5368:-813.212,-437.079,-397.343,-376.065,0,-330.308 1/2:421:0,222,199:0:0:222,199:7855,7105:-1216.91,-579.595,-512.767,-637.668,0,-577.763 1/1:497:0,494,3:0:0:494,3:17544,108:-1571.33,-148.709,0,-1562.52,-139.537,-1561.62 1/2:595:0,296,298:0:0:296,298:10482,10648:-1718.54,-868.162,-779.057,-850.376,0,-760.669 1/2:238:0,129,108:0:0:129,108:4556,3794:-679.439,-308.79,-269.957,-370.642,0,-338.13 1/1:202:0,201,1:0:0:201,1:7004,36:-628.77,-60.507,0,-625.833,-57.2098,-625.532 1/2:213:0,125,87:0:0:125,87:4401,3111:-611.623,-253.776,-216.147,-357.951,0,-331.761 1/2:108:0,61,47:0:0:61,47:2112,1632:-304.116,-132.524,-114.162,-171.938,0,-157.789 1/1:94:0,93,0:0:0:93,0:3203,0:-288.151,-27.9958,0,-288.151,-27.9958,-288.151 1/2:742:0,375,365:0:0:375,365:13311,12945:-2135.62,-1054.62,-941.738,-1080.98,0,-971.099 1/2:137:0,93,43:0:0:93,43:3243,1519:-387.346,-123.804,-95.808,-263.642,0,-250.697 1/1:166:0,165,1:0:0:165,1:5761,36:-517.355,-49.67,0,-514.418,-46.3727,-514.117 1/1:127:0,127,0:0:0:127,0:4490,0:-401.825,-38.2308,0,-401.825,-38.2308,-401.825 chr07 7547988 . G A 23043.6 PASS AB=0.497706;ABP=3.05014;AC=32;AF=0.761905;AN=42;AO=1377;CIGAR=1X;DP=1920;DPB=1920;DPRA=0.939691;EPP=2993.13;EPPR=1182.12;GTI=0;LEN=1;MEANALT=1;MQM=33.1518;MQMR=46.267;NS=21;NUMALT=1;ODDS=2.43721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49312;QR=19488;RO=543;RPL=1377;RPP=2993.13;RPPR=1182.12;RPR=0;RUN=1;SAF=0;SAP=2993.13;SAR=1377;SRF=0;SRP=1182.12;SRR=543;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:84:0,84:0:0:84:2982:-237.683,-25.2865,0 1/1:59:0,59:0:0:59:2116:-160.553,-17.7608,0 1/1:61:0,61:0:0:61:2192:-174.914,-18.3628,0 1/1:80:0,80:0:0:80:2838:-225.85,-24.0824,0 1/1:211:1,210:1:36:210:7544:-594.013,-59.9505,0 1/1:73:1,72:1:36:72:2592:-191.775,-18.4267,0 1/1:126:0,126:0:0:126:4486:-339.282,-37.9298,0 0/0:97:97,0:97:3476:0:0:0,-29.1999,-308.65 0/1:143:78,65:78:2800:65:2336:-137.193,0,-205.035 0/1:10:5,5:5:180:5:180:-11.6528,0,-13.397 1/1:10:0,10:0:0:10:356:-26.774,-3.0103,0 0/1:25:5,20:5:180:20:720:-49.6547,0,-8.88159 0/1:130:83,47:83:2980:47:1680:-95.3234,0,-225.088 1/1:61:2,59:2:72:59:2124:-160.796,-11.5859,0 0/1:335:165,170:165:5932:170:6069:-382.057,0,-426.843 0/1:65:32,33:32:1144:33:1185:-70.4382,0,-81.8044 1/1:70:0,70:0:0:70:2516:-190.716,-21.0721,0 0/1:103:51,52:51:1824:52:1856:-113.9,0,-129.716 0/1:61:19,42:19:684:42:1512:-101.912,0,-42.7787 1/1:67:4,63:4:144:63:2264:-165.801,-6.9718,0 1/1:49:0,49:0:0:49:1764:-133.47,-14.7505,0 chr07 7548044 . AGT GAA,GAT 25802.5 PASS AB=0.502712,0.497288;ABP=3.04564,3.04564;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1488,296;CIGAR=3X,2X1M;DP=1785;DPB=1785;DPRA=6.325,1.07686;EPP=3234.16,645.766;EPPR=0;GTI=2;LEN=3,2;MEANALT=1.7,2;MQM=26.6922,39.8277;MQMR=0;NS=21;NUMALT=2;ODDS=7.01801;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52546,10526;QR=0;RO=0;RPL=1488,296;RPP=3234.16,645.766;RPPR=0;RPR=0,0;RUN=1,1;SAF=1488,296;SAP=3234.16,645.766;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,58,0:0:0:58,0:2067,0:-142.508,-17.4597,0,-142.508,-17.4597,-142.508 1/1:123:0,123,0:0:0:123,0:4372,0:-262.259,-37.0267,0,-262.259,-37.0267,-262.259 1/1:44:0,44,0:0:0:44,0:1537,0:-106.683,-13.2453,0,-106.683,-13.2453,-106.683 1/1:139:0,139,0:0:0:139,0:4885,0:-337.419,-41.8432,0,-337.419,-41.8432,-337.419 1/1:223:0,220,2:0:0:220,2:7744,72:-534.738,-66.2266,0,-529.121,-60.6106,-528.519 1/1:139:0,138,1:0:0:138,1:4866,36:-292.447,-41.5421,0,-289.779,-38.5441,-289.478 1/1:134:0,133,1:0:0:133,1:4670,36:-281.454,-40.037,0,-278.785,-37.039,-278.484 2/2:14:0,0,14:0:0:0,14:0,479:-40.8284,-40.8284,-40.8284,-4.21442,-4.21442,0 1/2:100:0,41,59:0:0:41,59:1460,2085:-258.437,-164.375,-152.033,-94.3725,0,-76.6118 1/2:6:0,5,1:0:0:5,1:173,36:-12.903,-3.08657,-1.58142,-10.1409,0,-9.83988 1/1:9:0,9,0:0:0:9,0:314,0:-19.3677,-2.70927,0,-19.3677,-2.70927,-19.3677 1/2:25:0,15,10:0:0:15,10:535,360:-57.6599,-27.7363,-23.2208,-30.2286,0,-27.2183 1/2:131:0,67,64:0:0:67,64:2360,2288:-321.187,-178.356,-158.187,-143.139,0,-123.873 1/1:99:0,99,0:0:0:99,0:3514,0:-241.782,-29.802,0,-241.782,-29.802,-241.782 1/2:80:0,37,43:0:0:37,43:1323,1544:-199.272,-120.632,-109.494,-78.9443,0,-66 1/2:86:0,44,42:0:0:44,42:1546,1508:-219.5,-119.58,-106.335,-100.238,0,-87.5952 1/1:94:0,94,0:0:0:94,0:3340,0:-241.517,-28.2968,0,-241.517,-28.2968,-241.517 1/2:46:0,18,28:0:0:18,28:646,970:-110.187,-74.2028,-68.7843,-36.268,0,-27.8392 1/2:79:0,51,28:0:0:51,28:1806,1004:-188.025,-78.6955,-63.343,-109.648,0,-101.219 1/1:95:0,93,2:0:0:93,2:3277,72:-211.86,-27.9958,0,-206.363,-22.1614,-205.761 1/1:61:0,60,1:0:0:60,1:2111,36:-127.271,-18.0618,0,-124.602,-15.0638,-124.301 chr07 7564849 . TCA TA 25819.9 PASS AB=0.437743;ABP=20.3145;AC=32;AF=0.761905;AN=42;AO=968;CIGAR=1M1D1M;DP=1386;DPB=1063;DPRA=0.5275;EPP=189.075;EPPR=116.079;GTI=1;LEN=1;MEANALT=1.15;MQM=59.9669;MQMR=60;NS=21;NUMALT=1;ODDS=1.71073;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34516;QR=14684;RO=415;RPL=340;RPP=189.075;RPPR=116.079;RPR=628;RUN=1;SAF=968;SAP=2105;SAR=0;SRF=415;SRP=904.171;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:4,77:4:129:77:2733:-234.284,-12.4558,0 1/1:47:0,47:0:0:47:1688:-152.207,-14.1484,0 1/1:48:2,46:2:70:46:1633:-140.609,-7.80211,0 1/1:70:0,70:0:0:70:2508:-225.972,-21.0721,0 1/1:124:0,123:0:0:123:4373:-393.383,-37.0267,0 1/1:48:0,47:0:0:47:1688:-151.994,-14.1484,0 1/1:126:0,126:0:0:126:4455:-401.109,-37.9298,0 0/0:120:120,0:120:4201:0:0:0,-36.1236,-378.275 0/1:151:94,57:94:3319:57:2036:-138.057,0,-253.473 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:18:12,6:12:430:6:216:-14.372,0,-33.6216 0/1:46:24,22:24:862:22:776:-56.3148,0,-64.0549 1/1:50:0,50:0:0:50:1780:-160.481,-15.0515,0 0/1:132:73,58:73:2605:58:2076:-147.463,0,-195.051 0/1:69:39,30:39:1387:30:1076:-76.3818,0,-104.358 1/1:81:0,81:0:0:81:2890:-260.337,-24.3834,0 0/1:60:24,36:24:853:36:1296:-98.8821,0,-59.0281 0/1:34:19,15:19:684:15:540:-38.7015,0,-51.6553 1/1:23:1,22:1:36:22:780:-66.9248,-3.32542,0 1/1:42:0,42:0:0:42:1508:-136.015,-12.6433,0 chr07 7574190 . TGACT AGACC,TGACC 16360.7 PASS AB=0.497925,0.493776;ABP=3.03733,3.25358;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1592,483;CIGAR=1X3M1X,4M1X;DP=2092;DPB=2095.6;DPRA=0.875664,0.966854;EPP=3459.99,1051.83;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.4,2.6875;MQM=20.2607,21.4741;MQMR=0;NS=21;NUMALT=2;ODDS=3.26285;PAIRED=0,0;PAIREDR=0;PAO=10,8;PQA=325,253;PQR=0;PRO=0;QA=54939,16875;QR=0;RO=0;RPL=1592,483;RPP=3459.99,1051.83;RPPR=0;RPR=0,0;RUN=1,1;SAF=1592,483;SAP=3459.99,1051.83;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,104,1:0:0:104,1:3592,36:-185.516,-31.3071,0,-184.203,-30.0283,-183.902 1/1:32:0,32,0:0:0:32,0:1096,0:-60.4871,-9.63296,0,-60.4871,-9.63296,-60.4871 1/1:89:0,88,0:0:0:88,0:3074,0:-159.016,-26.4906,0,-159.016,-26.4906,-159.016 1/1:196:0,195,0:0:0:195,0:6720,0:-346.014,-58.7009,0,-346.014,-58.7009,-346.014 1/1:190:0,190,0:0:0:190,0:6511,0:-337.692,-57.1957,0,-337.692,-57.1957,-337.692 1/1:103:0,99,3:0:0:99,3:3418,108:-172.505,-29.802,0,-169.733,-27.076,-168.83 1/1:133:0,130,1:0:0:130,1:4479,36:-227.509,-39.1339,0,-225.932,-37.5505,-225.631 2/2:113:0,0,112:0:0:0,112:0,3960:-213.799,-213.799,-213.799,-33.7154,-33.7154,0 1/2:125:0,53,70:0:0:53,70:1833,2443:-204.016,-117.112,-101.157,-86.859,0,-65.7869 1/2:10:0,6,4:0:0:6,4:213,144:-15.3507,-6.51624,-4.71006,-9.03852,0,-7.8344 1/1:4:0,4,0:0:0:4,0:141,0:-6.62072,-1.20412,0,-6.62072,-1.20412,-6.62072 1/2:45:0,20,25:0:0:20,25:695,883:-68.936,-38.8076,-32.787,-30.3311,0,-22.8053 1/2:148:0,70,78:0:0:70,78:2440,2663:-223.218,-120.451,-99.3793,-102.908,0,-79.4275 1/1:130:0,125,2:0:0:125,2:4308,72:-220.294,-37.6288,0,-217.668,-35.0153,-217.066 1/2:213:0,106,105:0:0:106,105:3648,3679:-318.736,-161.421,-129.512,-157.282,0,-125.673 1/2:47:0,22,23:0:0:22,23:772,808:-76.658,-39.5975,-32.9749,-37.1353,0,-30.2116 1/1:56:0,55,1:0:0:55,1:1890,36:-105.602,-16.5567,0,-104.289,-15.0644,-103.988 1/2:67:0,36,31:0:0:36,31:1215,1069:-100.284,-47.8233,-36.9863,-52.6602,0,-43.3283 1/2:68:0,47,21:0:0:47,21:1640,743:-102.23,-33.0795,-18.9311,-69.2984,0,-62.9767 1/1:161:0,159,2:0:0:159,2:5494,68:-281.465,-47.8638,0,-279.735,-46.1785,-279.132 1/1:56:0,51,4:0:0:51,4:1760,127:-89.4834,-15.3525,0,-83.4426,-9.40689,-82.2385 chr07 7716460 . T C 17871.3 PASS AB=0.479711;ABP=10.9404;AC=10;AF=0.238095;AN=42;AO=1113;CIGAR=1X;DP=4149;DPB=4149;DPRA=2.22602;EPP=2419.86;EPPR=6595.6;GTI=0;LEN=1;MEANALT=1;MQM=59.9946;MQMR=59.9974;NS=21;NUMALT=1;ODDS=23.7507;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38910;QR=108526;RO=3036;RPL=0;RPP=2419.86;RPPR=6595.6;RPR=1113;RUN=1;SAF=0;SAP=2419.86;SAR=1113;SRF=0;SRP=6595.6;SRR=3036;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:116,0:116:4148:0:0:0,-34.9195,-373.504 0/0:112:112,0:112:3999:0:0:0,-33.7154,-360.1 0/0:60:60,0:60:2139:0:0:0,-18.0618,-192.777 0/0:140:138,2:138:4936:2:72:0,-35.3075,-437.554 0/0:211:208,3:208:7464:3:108:0,-53.4422,-661.726 0/0:152:152,0:152:5449:0:0:0,-45.7566,-490.536 0/0:153:153,0:153:5450:0:0:0,-46.0576,-490.628 1/1:40:0,40:0:0:40:1419:-128.007,-12.0412,0 0/1:155:71,84:71:2531:84:2962:-220.155,0,-181.382 0/1:377:177,200:177:6347:200:7015:-517.934,0,-457.827 0/0:590:588,2:588:20993:2:72:0,-170.771,-1882.01 0/1:607:332,275:332:11861:275:9684:-688.801,0,-884.625 0/1:108:79,29:79:2824:29:1001:-57.8841,0,-221.888 0/0:125:125,0:125:4483:0:0:0,-37.6287,-403.638 0/1:205:118,87:118:4235:87:3085:-216.166,0,-319.617 0/1:82:42,40:42:1504:40:1405:-102.06,0,-110.97 0/0:87:86,1:86:3080:1:27:0,-23.4898,-274.728 0/1:622:296,326:296:10561:326:11254:-825.556,0,-763.166 0/1:62:39,23:39:1404:23:770:-50.9444,0,-107.995 0/0:102:101,1:101:3586:1:36:0,-27.1068,-319.35 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.173 chr07 8005143 . CTGTT CTGTC,TTGTC 36114.4 PASS AB=0.486239,0.509174;ABP=4.08608,3.48842;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1290,375;CIGAR=4M1X,1X3M1X;DP=1675;DPB=1676;DPRA=2.27639,1.14034;EPP=2804.21,817.312;EPPR=7.35324;GTI=0;LEN=1,5;MEANALT=1.85,2.09091;MQM=59.9721,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.96409;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=34,0;PQR=34;PRO=1;QA=46039,13366;QR=66;RO=2;RPL=1290,375;RPP=2804.21,817.312;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2804.21,817.312;SAR=1290,375;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:0,37,0:0:0:37,0:1313,0:-118.47,-11.1381,0,-118.47,-11.1381,-118.47 1/1:31:0,31,0:0:0:31,0:1112,0:-100.391,-9.33193,0,-100.391,-9.33193,-100.391 1/1:74:0,74,0:0:0:74,0:2618,0:-235.865,-22.2762,0,-235.865,-22.2762,-235.865 1/1:97:1,96,0:1:36:96,0:3436,0:-305.796,-25.6016,0,-306.097,-28.8989,-309.034 1/1:166:0,161,5:0:0:161,5:5701,179:-512.848,-48.4658,0,-498.251,-33.5106,-496.746 1/1:136:1,135,0:1:30:135,0:4801,0:-429.186,-37.9405,0,-429.487,-40.6391,-431.885 1/1:126:0,126,0:0:0:126,0:4503,0:-405.439,-37.9298,0,-405.439,-37.9298,-405.439 2/2:36:0,0,36:0:0:0,36:0,1281:-115.593,-115.593,-115.593,-10.8371,-10.8371,0 1/2:157:0,68,89:0:0:68,89:2421,3179:-456.862,-259.544,-239.074,-197.675,0,-170.883 1/2:6:0,3,3:0:0:3,3:93,107:-16.5195,-9.07908,-8.17599,-7.77364,0,-6.87055 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:49:0,26,23:0:0:26,23:932,819:-143.124,-67.1086,-59.2819,-76.3721,0,-69.4484 1/2:108:0,44,64:0:0:44,64:1572,2270:-313.468,-185.298,-172.052,-128.526,0,-109.26 1/1:76:0,75,1:0:0:75,1:2696,36:-242.524,-22.5773,0,-239.587,-19.28,-239.286 1/2:80:0,46,34:0:0:46,34:1652,1203:-233.107,-98.3416,-84.4942,-135.121,0,-124.886 1/2:54:0,27,27:0:0:27,27:960,954:-156.281,-78.047,-69.9191,-78.5885,0,-70.4607 1/1:63:0,60,0:0:0:60,0:2152,0:-193.584,-18.0618,0,-193.584,-18.0618,-193.584 1/2:104:0,38,66:0:0:38,66:1360,2368:-304.414,-193.511,-182.072,-111.261,0,-91.3935 1/2:96:0,66,27:0:0:66,27:2363,970:-271.835,-79.1512,-59.2832,-192.704,0,-184.576 1/1:102:0,102,0:0:0:102,0:3666,0:-330.142,-30.7051,0,-330.142,-30.7051,-330.142 1/1:71:0,69,0:0:0:69,0:2472,0:-222.318,-20.7711,0,-222.318,-20.7711,-222.318 chr07 8006454 . CA CG 26786.4 PASS AB=0.520548;ABP=5.15203;AC=32;AF=0.761905;AN=42;AO=1241;CIGAR=1M1X;DP=1643;DPB=1643;DPRA=0.683482;EPP=2671.81;EPPR=837.053;GTI=0;LEN=1;MEANALT=1.2;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.95524;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44328;QR=13931;RO=396;RPL=3;RPP=2671.81;RPPR=837.053;RPR=1238;RUN=1;SAF=1241;SAP=2697.81;SAR=0;SRF=396;SRP=862.913;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:3,91:3:108:91:3233:-281.117,-18.2217,0 1/1:42:0,41:0:0:41:1476:-132.815,-12.3422,0 1/1:61:0,61:0:0:61:2175:-196.016,-18.3628,0 1/1:137:0,137:0:0:137:4900:-441.152,-41.2411,0 1/1:149:4,145:4:142:145:5187:-453.84,-31.7243,0 1/1:82:0,82:0:0:82:2915:-262.586,-24.6845,0 1/1:103:0,103:0:0:103:3683:-331.673,-31.0061,0 0/0:112:112,0:112:3951:0:0:0,-33.7154,-355.782 0/1:127:59,68:59:2067:68:2426:-180.364,0,-148.066 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:15:10,5:10:358:5:176:-11.6696,0,-28.0474 0/1:126:61,65:61:2145:65:2328:-171.85,0,-155.384 1/1:57:0,56:0:0:56:1995:-179.464,-16.8577,0 0/1:121:57,64:57:1995:64:2292:-170.117,0,-143.397 0/1:44:22,19:22:775:19:676:-48.4665,0,-57.37 1/1:46:0,46:0:0:46:1648:-148.609,-13.8474,0 0/1:76:38,38:38:1338:38:1352:-99.1021,0,-97.8398 0/1:69:27,42:27:944:42:1499:-114.433,0,-64.5 1/1:120:0,119:0:0:119:4251:-382.409,-35.8226,0 1/1:49:0,49:0:0:49:1756:-158.324,-14.7505,0 chr07 8009530 . A G 6926.92 PASS AB=0.499239;ABP=3.01361;AC=10;AF=0.238095;AN=42;AO=394;CIGAR=1X;DP=1508;DPB=1508;DPRA=1.67266;EPP=849.907;EPPR=2411.18;GTI=0;LEN=1;MEANALT=1;MQM=59.9797;MQMR=60;NS=21;NUMALT=1;ODDS=5.60547;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14036;QR=39332;RO=1113;RPL=393;RPP=849.907;RPPR=2411.18;RPR=1;RUN=1;SAF=394;SAP=858.57;SAR=0;SRF=1113;SRP=2419.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:73,1:73:2562:1:36:0,-18.6779,-227.231 0/0:39:38,0:38:1324:0:0:0,-11.4391,-119.214 0/0:84:84,0:84:2991:0:0:0,-25.2865,-269.422 0/0:46:46,0:46:1632:0:0:0,-13.8474,-147.169 0/0:182:181,1:181:6444:1:36:0,-51.1892,-576.453 0/0:21:21,0:21:744:0:0:0,-6.32163,-67.2843 0/0:101:101,0:101:3604:0:0:0,-30.404,-324.567 1/1:64:0,64:0:0:64:2267:-204.293,-19.2659,0 0/1:144:66,78:66:2318:78:2796:-208.532,0,-165.53 0/1:13:9,4:9:301:4:144:-9.40023,0,-23.5003 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:12:5,7:5:165:7:248:-19.0518,0,-11.5612 0/1:96:52,44:52:1793:44:1573:-112.962,0,-132.749 0/0:98:98,0:98:3481:0:0:0,-29.5009,-313.502 0/1:76:31,45:31:1100:45:1612:-122.492,0,-76.432 0/1:34:16,18:16:564:18:639:-47.6032,0,-40.8553 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/1:200:91,109:91:3210:109:3872:-288.467,0,-228.917 0/1:82:59,23:59:2061:23:813:-48.8046,0,-161.076 0/0:65:65,0:65:2286:0:0:0,-19.5669,-205.999 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.772 chr07 8011087 . G A 47459.8 PASS AB=0.523124;ABP=7.52955;AC=32;AF=0.761905;AN=42;AO=1697;CIGAR=1X;DP=2370;DPB=2370;DPRA=0.5425;EPP=2734.33;EPPR=1030.89;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9882;MQMR=60;NS=21;NUMALT=1;ODDS=0.301784;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60417;QR=23812;RO=672;RPL=646;RPP=212.896;RPPR=153.773;RPR=1051;RUN=1;SAF=764;SAP=39.5568;SAR=933;SRF=282;SRP=40.7009;SRR=390;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:3,76:3:108:76:2711:-234.158,-13.7062,0 1/1:50:0,50:0:0:50:1784:-160.842,-15.0515,0 1/1:146:0,146:0:0:146:5186:-466.88,-43.9504,0 1/1:158:0,158:0:0:158:5636:-507.361,-47.5627,0 1/1:99:0,99:0:0:99:3489:-314.207,-29.802,0 1/1:95:1,94:1:36:94:3323:-295.69,-24.9996,0 1/1:135:1,133:1:36:133:4764:-425.319,-37.0996,0 0/0:200:200,0:200:7052:0:0:0,-60.206,-634.748 0/1:187:86,101:86:3042:101:3593:-267.284,0,-217.719 0/1:25:9,16:9:316:16:576:-44.6492,0,-21.2531 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:36:19,17:19:676:17:608:-44.2011,0,-50.3309 0/1:182:104,78:104:3683:78:2733:-191.424,0,-276.886 1/1:126:0,126:0:0:126:4480:-403.37,-37.9298,0 0/1:163:85,78:85:3025:78:2808:-203.891,0,-223.412 0/1:66:24,42:24:860:42:1487:-114.256,0,-57.8539 1/1:63:0,63:0:0:63:2256:-203.303,-18.9649,0 0/1:157:82,75:82:2906:75:2672:-193.463,0,-214.514 0/1:157:55,102:55:1964:102:3648:-281.261,0,-129.774 1/1:127:3,124:3:108:124:4413:-387.268,-28.1556,0 1/1:109:0,109:0:0:109:3890:-350.294,-32.8123,0 chr07 8054284 . 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T G 31990.8 PASS AB=0.629391;ABP=408.729;AC=22;AF=0.52381;AN=42;AO=1765;CIGAR=1X;DP=2799;DPB=2799;DPRA=0;EPP=3835.66;EPPR=2248.31;GTI=1;LEN=1;MEANALT=1;MQM=57.5649;MQMR=59.4391;NS=21;NUMALT=1;ODDS=12.282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63236;QR=36953;RO=1034;RPL=1765;RPP=3835.66;RPPR=2248.31;RPR=0;RUN=1;SAF=0;SAP=3835.66;SAR=1765;SRF=1034;SRP=2248.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:46,97:46:1640:97:3476:-270.004,0,-103.478 0/1:91:35,56:35:1252:56:2008:-153.561,0,-85.5857 0/1:101:49,52:49:1748:52:1868:-137.989,0,-127.184 0/1:153:58,95:58:2057:95:3396:-259.798,0,-139.133 0/1:318:112,206:112:4020:206:7364:-566.03,0,-266.222 0/1:166:67,99:67:2389:99:3556:-270.254,0,-164.954 0/1:174:64,110:64:2296:110:3940:-302.365,0,-154.368 0/1:148:43,105:43:1521:105:3772:-290.692,0,-92.5572 0/1:298:99,199:99:3536:199:7132:-548.867,0,-228.699 0/1:12:2,10:2:72:10:356:-28.6679,0,-3.22436 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:38:11,27:11:396:27:968:-75.2349,0,-24.5402 0/1:203:67,136:67:2404:136:4860:-374.756,0,-155.486 0/1:86:42,44:42:1497:44:1584:-116.946,0,-109.126 0/1:242:94,148:94:3333:148:5312:-403.835,0,-226.948 0/1:90:28,62:28:1000:62:2228:-172.863,0,-63.1969 0/1:98:36,62:36:1288:62:2212:-169.82,0,-86.7171 0/1:100:48,52:48:1724:52:1860:-135.557,0,-125.329 0/1:110:29,81:29:1044:81:2900:-227.971,0,-61.1524 0/1:116:60,56:60:2156:56:2008:-146.074,0,-159.376 0/1:103:44,59:44:1580:59:2112:-159.325,0,-111.485 chr07 8105911 . T C 9608.92 PASS AB=0.476852;ABP=4.01561;AC=32;AF=0.761905;AN=42;AO=451;CIGAR=1X;DP=579;DPB=579;DPRA=1.88;EPP=982.344;EPPR=280.959;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.383496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16062;QR=4517;RO=128;RPL=0;RPP=982.344;RPPR=280.959;RPR=451;RUN=1;SAF=0;SAP=982.344;SAR=451;SRF=0;SRP=280.959;SRR=128;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40:0:0:40:1418:-127.917,-12.0412,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:44:0,44:0:0:44:1571:-141.681,-13.2453,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 1/1:40:0,40:0:0:40:1428:-128.818,-12.0412,0 0/0:15:15,0:15:528:0:0:0,-4.51545,-47.8514 0/1:54:33,21:33:1163:21:739:-50.5768,0,-88.7205 0/1:5:1,4:1:36:4:129:-10.4225,0,-2.09312 1/1:4:0,4:0:0:4:135:-12.4825,-1.20412,0 0/1:19:13,6:13:460:6:216:-14.0709,0,-36.0158 0/1:42:17,25:17:591:25:896:-68.3171,0,-40.872 1/1:40:0,40:0:0:40:1419:-128.007,-12.0412,0 0/1:26:15,11:15:515:11:396:-28.156,0,-38.8482 0/1:18:13,5:13:468:5:176:-10.7665,0,-37.0411 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 0/1:28:17,11:17:612:11:392:-27.1912,0,-46.9846 0/1:24:4,20:4:144:20:707:-56.7299,0,-6.0889 1/1:59:0,59:0:0:59:2108:-189.989,-17.7608,0 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 chr07 8360395 . C T 5826.46 PASS AB=0.447761;ABP=15.715;AC=10;AF=0.238095;AN=42;AO=332;CIGAR=1X;DP=1381;DPB=1381;DPRA=1.20803;EPP=715.279;EPPR=2278.71;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9307;MQMR=59.9637;NS=21;NUMALT=1;ODDS=0.959325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11858;QR=37276;RO=1048;RPL=1;RPP=715.279;RPPR=2278.71;RPR=331;RUN=1;SAF=0;SAP=723.939;SAR=332;SRF=0;SRP=2278.71;SRR=1048;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:75,0:75:2672:0:0:0,-22.5772,-240.726 0/0:39:39,0:39:1378:0:0:0,-11.7402,-124.317 0/0:74:74,0:74:2651:0:0:0,-22.2762,-238.835 0/0:35:34,1:34:1198:1:36:0,-6.93822,-104.526 0/0:128:126,2:126:4528:2:72:0,-31.6951,-400.633 0/0:73:73,0:73:2580:0:0:0,-21.9752,-232.448 0/0:103:103,0:103:3649:0:0:0,-31.0061,-328.616 1/1:89:0,89:0:0:89:3184:-286.783,-26.7917,0 0/1:137:79,57:79:2824:57:2036:-142.21,0,-213.099 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:27:16,11:16:564:11:396:-27.8549,0,-42.9625 0/1:101:44,57:44:1558:57:2044:-153.821,0,-110.106 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.549 0/1:74:36,38:36:1284:38:1356:-100.064,0,-93.5872 0/1:36:22,14:22:784:14:492:-33.7753,0,-60.0468 0/0:49:49,0:49:1745:0:0:0,-14.7505,-157.332 0/1:94:52,42:52:1829:42:1499:-106.905,0,-136.592 0/1:60:40,20:40:1414:20:707:-45.8928,0,-109.494 0/0:34:34,0:34:1183:0:0:0,-10.235,-106.771 0/0:54:54,0:54:1923:0:0:0,-16.2556,-173.346 chr07 8360416 . G C,A 30209.1 PASS AB=0.560229,0.439771;ABP=19.4894,19.4894;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1063,320;CIGAR=1X,1X;DP=1384;DPB=1384;DPRA=0.736364,1.5455;EPP=2311.29,697.881;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.45,1.88889;MQM=59.9332,59.9312;MQMR=0;NS=21;NUMALT=2;ODDS=6.75827;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37920,11478;QR=0;RO=0;RPL=0,0;RPP=2311.29,697.881;RPPR=0;RPR=1063,320;RUN=1,1;SAF=0,0;SAP=2311.29,697.881;SAR=1063,320;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,78,0:0:0:78,0:2742,0:-247.016,-23.4803,0,-247.016,-23.4803,-247.016 1/1:40:0,40,0:0:0:40,0:1420,0:-128.097,-12.0412,0,-128.097,-12.0412,-128.097 1/1:75:0,75,0:0:0:75,0:2692,0:-242.524,-22.5773,0,-242.524,-22.5773,-242.524 1/1:31:0,31,0:0:0:31,0:1116,0:-100.752,-9.33193,0,-100.752,-9.33193,-100.752 1/1:132:0,130,2:0:0:130,2:4599,72:-413.653,-39.1339,0,-407.778,-32.8992,-407.176 1/1:74:0,74,0:0:0:74,0:2656,0:-239.286,-22.2762,0,-239.286,-22.2762,-239.286 1/1:104:0,103,0:0:0:103,0:3665,0:-329.688,-31.0061,0,-329.688,-31.0061,-329.688 2/2:88:0,0,88:0:0:0,88:0,3160:-284.623,-284.623,-284.623,-26.4906,-26.4906,0 1/2:138:0,84,54:0:0:84,54:3012,1931:-403.474,-157.808,-132.521,-246.024,0,-229.769 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:26:0,16,10:0:0:16,10:561,360:-75.3784,-29.734,-24.9175,-46.0006,0,-42.9903 1/2:102:0,44,58:0:0:44,58:1580,2088:-299.61,-170.723,-157.478,-129.246,0,-111.786 1/1:86:0,86,0:0:0:86,0:3092,0:-278.504,-25.8886,0,-278.504,-25.8886,-278.504 1/2:72:0,35,37:0:0:35,37:1260,1319:-210.684,-107.873,-97.337,-103.169,0,-92.0313 1/2:35:0,22,13:0:0:22,13:788,464:-102.449,-38.1841,-31.5615,-64.6221,0,-60.7087 1/1:49:0,49,0:0:0:49,0:1764,0:-159.044,-14.7505,0,-159.044,-14.7505,-159.044 1/2:91:0,52,39:0:0:52,39:1863,1400:-266.494,-114.557,-98.9039,-152.295,0,-140.555 1/2:59:0,40,19:0:0:40,19:1408,684:-170.787,-56.1708,-44.1296,-114.973,0,-109.254 1/1:34:0,34,0:0:0:34,0:1216,0:-109.747,-10.235,0,-109.747,-10.235,-109.747 1/1:56:0,56,0:0:0:56,0:1982,0:-178.651,-16.8577,0,-178.651,-16.8577,-178.651 chr07 8606567 . A T 17157.3 PASS AB=0.466238;ABP=6.08946;AC=32;AF=0.761905;AN=42;AO=800;CIGAR=1X;DP=1009;DPB=1009;DPRA=1.35139;EPP=1740.19;EPPR=456.848;GTI=0;LEN=1;MEANALT=1;MQM=59.9162;MQMR=60;NS=21;NUMALT=1;ODDS=1.5153;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28500;QR=7485;RO=209;RPL=0;RPP=1740.19;RPPR=456.848;RPR=800;RUN=1;SAF=0;SAP=1740.19;SAR=800;SRF=0;SRP=456.848;SRR=209;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:2198:-198.058,-18.6639,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 1/1:62:0,62:0:0:62:2216:-199.705,-18.6639,0 1/1:27:1,26:1:36:26:926:-79.0369,-4.52954,0 1/1:150:0,150:0:0:150:5335:-480.284,-45.1545,0 1/1:55:2,53:2:72:53:1895:-163.991,-9.71993,0 1/1:97:0,97:0:0:97:3457:-311.341,-29.1999,0 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/1:79:48,31:48:1719:31:1104:-75.8893,0,-131.213 0/1:6:2,4:2:72:4:144:-11.5027,0,-5.03054 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.6268 0/1:68:27,41:27:968:41:1460:-111.226,0,-66.9673 1/1:56:0,56:0:0:56:1984:-178.835,-16.8577,0 0/1:86:54,32:54:1927:32:1144:-77.3809,0,-147.817 0/1:19:8,11:8:288:11:396:-30.2632,0,-20.5478 1/1:48:4,44:4:144:44:1557:-127.107,-1.13582,0 0/1:21:11,10:11:387:10:360:-26.4227,0,-28.8443 0/1:15:6,9:6:216:9:320:-24.6269,0,-15.2751 1/1:57:0,57:0:0:57:2032:-183.152,-17.1587,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 chr07 8754268 . T G 5706.36 PASS AB=0.456818;ABP=10.1367;AC=10;AF=0.238095;AN=42;AO=251;CIGAR=1X;DP=1048;DPB=1048;DPRA=1.24786;EPP=548.05;EPPR=1722.83;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9801;MQMR=59.9548;NS=21;NUMALT=1;ODDS=11.1546;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8903;QR=28450;RO=796;RPL=139;RPP=9.31709;RPPR=51.9939;RPR=112;RUN=1;SAF=139;SAP=9.31709;SAR=112;SRF=466;SRP=53.467;SRR=330;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:57,0:57:2029:0:0:0,-17.1587,-182.881 0/0:41:41,0:41:1438:0:0:0,-12.3422,-129.712 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:42:42,0:42:1503:0:0:0,-12.6433,-135.564 0/0:68:66,1:66:2352:1:32:0,-17.2547,-208.144 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.516 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 1/1:49:0,49:0:0:49:1736:-156.525,-14.7505,0 0/1:60:27,33:27:972:33:1188:-89.1668,0,-69.7361 0/1:21:15,6:15:536:6:216:-13.4689,0,-42.2486 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/1:17:12,5:12:432:5:180:-11.4346,0,-34.1037 0/1:57:27,30:27:964:30:1076:-79.9941,0,-69.9181 0/0:52:52,0:52:1855:0:0:0,-15.6536,-167.229 0/1:57:32,25:32:1148:25:892:-63.441,0,-86.4711 0/1:32:12,20:12:423:20:707:-54.3183,0,-28.7721 0/0:31:31,0:31:1103:0:0:0,-9.33193,-99.5798 0/1:105:50,55:50:1800:55:1908:-140.385,0,-130.674 0/1:91:64,27:64:2300:27:968:-60.0436,0,-179.867 0/0:42:42,0:42:1495:0:0:0,-12.6433,-134.844 0/0:82:82,0:82:2944:0:0:0,-24.6845,-265.193 chr07 9312429 . GTTA CTTC 21752.4 PASS AB=0.516441;ABP=4.22414;AC=32;AF=0.761905;AN=42;AO=974;CIGAR=1X2M1X;DP=1273;DPB=1273.25;DPRA=0;EPP=1713.83;EPPR=604.982;GTI=0;LEN=4;MEANALT=1.28571;MQM=59.886;MQMR=60;NS=21;NUMALT=1;ODDS=10.8823;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=34132;QR=10381;RO=293;RPL=49;RPP=1713.83;RPPR=604.982;RPR=925;RUN=1;SAF=974;SAP=2118.02;SAR=0;SRF=293;SRP=639.252;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:2,68:2:66:68:2375:-207.672,-14.8042,0 1/1:58:0,56:0:0:56:1955:-175.864,-16.8577,0 1/1:57:0,57:0:0:57:2020:-182.073,-17.1587,0 1/1:37:0,37:0:0:37:1277:-115.216,-11.1381,0 1/1:108:0,108:0:0:108:3764:-338.964,-32.5112,0 1/1:56:0,56:0:0:56:1970:-177.574,-16.8577,0 1/1:101:0,100:0:0:100:3559:-320.27,-30.103,0 0/0:43:42,1:42:1479:1:36:0,-9.34601,-129.805 0/1:74:42,32:42:1478:32:1110:-77.9299,0,-111.038 0/1:9:4,5:4:144:5:173:-13.2005,0,-10.6043 1/1:7:0,7:0:0:7:231:-21.0817,-2.10721,0 0/1:18:7,11:7:251:11:389:-29.9293,0,-17.5193 0/1:57:40,17:40:1406:17:607:-37.803,0,-109.676 1/1:36:0,36:0:0:36:1249:-112.709,-10.8371,0 0/1:79:46,33:46:1643:33:1174:-82.187,0,-124.377 0/1:48:19,29:19:677:29:995:-75.4062,0,-46.8087 1/1:70:1,69:1:36:69:2407:-213.287,-17.8337,0 0/1:152:72,80:72:2554:80:2798:-206.266,0,-184.354 0/1:80:18,60:18:647:60:2117:-167.094,0,-34.8476 1/1:59:0,59:0:0:59:2068:-186.389,-17.7608,0 1/1:54:0,53:0:0:53:1858:-167.129,-15.9546,0 chr07 9312459 . A C 18699 PASS AB=0.50996;ABP=3.44286;AC=32;AF=0.761905;AN=42;AO=936;CIGAR=1X;DP=1228;DPB=1228;DPRA=0;EPP=2035.51;EPPR=637.08;GTI=0;LEN=1;MEANALT=1;MQM=59.8868;MQMR=60;NS=21;NUMALT=1;ODDS=9.86646;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32016;QR=10391;RO=292;RPL=934;RPP=2018.17;RPPR=637.08;RPR=2;RUN=1;SAF=934;SAP=2018.17;SAR=2;SRF=292;SRP=637.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:1,63:1:36:63:2162:-191.159,-15.6676,0 1/1:55:0,55:0:0:55:1926:-173.616,-16.5567,0 1/1:53:0,53:0:0:53:1819:-163.988,-15.9546,0 1/1:36:0,36:0:0:36:1227:-110.713,-10.8371,0 1/1:105:0,105:0:0:105:3561:-320.705,-31.6082,0 1/1:51:0,51:0:0:51:1793:-161.65,-15.3525,0 1/1:98:0,98:0:0:98:3353:-301.992,-29.5009,0 0/0:43:42,1:42:1495:1:36:0,-9.34601,-131.246 0/1:72:41,31:41:1460:31:1022:-70.605,0,-110.022 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 1/1:7:0,7:0:0:7:244:-22.2111,-2.10721,0 0/1:17:7,10:7:252:10:351:-26.8092,0,-17.9114 0/1:54:39,15:39:1387:15:531:-31.8663,0,-108.873 1/1:34:0,34:0:0:34:1168:-105.418,-10.235,0 0/1:79:46,33:46:1631:33:1118:-77.1382,0,-123.297 0/1:45:18,27:18:640:27:925:-70.0129,0,-44.383 1/1:70:2,68:2:72:68:2370:-206.719,-14.2354,0 0/1:148:72,76:72:2558:76:2529:-183.307,0,-185.917 0/1:79:19,60:19:680:60:2037:-159.812,0,-37.7478 1/1:59:1,58:1:36:58:1948:-171.977,-14.1625,0 1/1:51:0,51:0:0:51:1752:-157.953,-15.3525,0 chr07 9312591 . A G 14488 PASS AB=0.539379;ABP=8.65406;AC=32;AF=0.761905;AN=42;AO=697;CIGAR=1X;DP=983;DPB=983;DPRA=0.514943;EPP=1516.53;EPPR=621.88;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9857;MQMR=59.993;NS=21;NUMALT=1;ODDS=0.205288;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24801;QR=10182;RO=285;RPL=697;RPP=1516.53;RPPR=621.88;RPR=0;RUN=1;SAF=697;SAP=1516.53;SAR=0;SRF=285;SRP=621.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:95:0,95:0:0:95:3375:-303.965,-28.5979,0 1/1:40:0,40:0:0:40:1428:-128.818,-12.0412,0 1/1:32:0,32:0:0:32:1140:-102.909,-9.63296,0 1/1:30:0,30:0:0:30:1065:-96.1598,-9.0309,0 1/1:56:0,56:0:0:56:1988:-179.193,-16.8577,0 0/0:87:87,0:87:3115:0:0:0,-26.1896,-280.576 0/1:82:37,45:37:1315:45:1601:-119.694,0,-93.9657 0/1:9:4,5:4:144:5:176:-13.4757,0,-10.6043 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:28:13,15:13:468:15:540:-40.5077,0,-34.0308 0/1:83:34,49:34:1212:49:1747:-132.528,0,-84.4008 1/1:60:0,60:0:0:60:2118:-190.886,-18.0618,0 0/1:83:34,49:34:1224:49:1741:-131.988,0,-85.4816 0/1:19:16,3:16:561:3:108:-4.3556,0,-45.0976 1/1:17:1,16:1:36:16:572:-48.2152,-1.51924,0 0/1:71:39,32:39:1391:32:1140:-81.5361,0,-104.115 0/1:44:16,28:16:576:28:1000:-77.0701,0,-38.9297 1/1:66:4,62:4:140:62:2194:-184.778,-6.9234,0 1/1:26:0,25:0:0:25:896:-80.6652,-7.52575,0 chr07 9467735 . C T 41478.3 PASS AB=0.479042;ABP=6.19599;AC=32;AF=0.761905;AN=42;AO=1913;CIGAR=1X;DP=2450;DPB=2450;DPRA=1.21289;EPP=4157.04;EPPR=1169.09;GTI=0;LEN=1;MEANALT=1;MQM=59.4726;MQMR=59.9926;NS=21;NUMALT=1;ODDS=23.8993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68424;QR=19157;RO=537;RPL=1913;RPP=4157.04;RPPR=1169.09;RPR=0;RUN=1;SAF=0;SAP=4157.04;SAR=1913;SRF=0;SRP=1169.09;SRR=537;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92:0:0:92:3296:-296.688,-27.6948,0 1/1:142:0,142:0:0:142:5046:-454.189,-42.7463,0 1/1:79:0,79:0:0:79:2840:-255.826,-23.7814,0 1/1:128:0,128:0:0:128:4594:-413.592,-38.5318,0 1/1:330:2,328:2:68:328:11744:-1050.11,-92.8822,0 1/1:127:1,126:1:36:126:4499:-401.294,-34.6325,0 1/1:198:1,197:1:36:197:7055:-631.229,-56.0057,0 0/0:97:97,0:97:3468:0:0:0,-29.1999,-312.332 0/1:181:95,86:95:3388:86:3084:-223.299,0,-250.65 0/1:19:11,8:11:392:8:288:-20.5478,0,-29.9005 1/1:16:0,16:0:0:16:570:-51.6294,-4.81648,0 0/1:39:25,14:25:900:14:500:-33.596,0,-69.5808 0/1:131:69,62:69:2464:62:2205:-159.097,0,-182.577 1/1:79:0,79:0:0:79:2816:-253.572,-23.7814,0 0/1:183:96,87:96:3440:87:3120:-225.84,0,-254.724 0/1:149:79,70:79:2799:70:2506:-180.926,0,-207.298 1/1:140:0,140:0:0:140:5006:-450.358,-42.1442,0 0/1:77:38,39:38:1355:39:1391:-102.274,0,-99.0704 0/1:56:22,34:22:775:34:1213:-92.615,0,-53.2135 1/1:140:1,139:1:36:139:4979:-444.122,-38.5459,0 1/1:47:0,47:0:0:47:1672:-150.66,-14.1484,0 chr07 9668956 . C A 20682.7 PASS AB=0.518962;ABP=4.57497;AC=32;AF=0.761905;AN=42;AO=771;CIGAR=1X;DP=1052;DPB=1052;DPRA=1.49706;EPP=1677.22;EPPR=608.851;GTI=0;LEN=1;MEANALT=1.1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.20556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27576;QR=9873;RO=279;RPL=406;RPP=7.74473;RPPR=59.2429;RPR=365;RUN=1;SAF=406;SAP=7.74473;SAR=365;SRF=182;SRP=59.2429;SRR=97;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,44:0:0:44:1571:-141.68,-13.2453,0 1/1:35:0,35:0:0:35:1260:-113.705,-10.5361,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:34:0,33:0:0:33:1184:-106.547,-9.93399,0 1/1:70:2,68:2:68:68:2440:-213.397,-14.6144,0 1/1:66:1,65:1:36:65:2288:-202.581,-16.2697,0 1/1:61:0,60:0:0:60:2120:-190.707,-18.0618,0 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/1:64:32,32:32:1152:32:1148:-84.3639,0,-84.7242 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 0/1:56:27,29:27:964:29:1044:-77.4171,0,-70.2191 1/1:33:0,33:0:0:33:1171:-105.697,-9.93399,0 0/1:52:28,24:28:968:24:864:-62.429,0,-71.7751 0/1:31:18,13:18:648:13:468:-33.1277,0,-49.32 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 0/1:178:81,97:81:2863:97:3480:-259.827,0,-204.323 0/1:104:46,58:46:1594:58:2068:-155.084,0,-112.438 1/1:30:1,29:1:36:29:1044:-90.6765,-5.43263,0 1/1:93:0,93:0:0:93:3342:-300.996,-27.9958,0 chr07 10019609 . G C 23271.5 PASS AB=0.433333;ABP=19.224;AC=32;AF=0.761905;AN=42;AO=858;CIGAR=1X;DP=1172;DPB=1172;DPRA=0.787143;EPP=83.1979;EPPR=3.45289;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.51561;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30713;QR=11175;RO=314;RPL=518;RPP=83.1979;RPPR=3.45289;RPR=340;RUN=1;SAF=0;SAP=1866.13;SAR=858;SRF=0;SRP=684.853;SRR=314;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:2207:-198.895,-18.6639,0 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 1/1:60:0,60:0:0:60:2156:-194.307,-18.0618,0 1/1:84:0,84:0:0:84:2998:-270.052,-25.2865,0 1/1:103:1,102:1:36:102:3658:-325.825,-27.4078,0 1/1:61:0,61:0:0:61:2196:-197.905,-18.3628,0 1/1:95:4,91:4:144:91:3267:-280.935,-15.2842,0 0/0:70:70,0:70:2462:0:0:0,-21.0721,-221.832 0/1:93:51,42:51:1832:42:1504:-107.659,0,-137.165 0/1:15:10,5:10:360:5:180:-12.0366,0,-28.2289 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:23:14,9:14:496:9:311:-21.4,0,-38.0506 0/1:92:47,45:47:1675:45:1599:-116.505,0,-123.342 1/1:54:0,54:0:0:54:1932:-174.157,-16.2556,0 0/1:57:32,25:32:1139:25:888:-63.0803,0,-85.6597 0/1:42:31,11:31:1112:11:392:-22.9768,0,-87.7481 1/1:47:1,46:1:36:46:1656:-145.73,-10.5501,0 0/1:71:44,27:44:1563:27:966:-65.8837,0,-119.588 0/1:27:9,18:9:320:18:648:-50.5241,0,-21.0145 1/1:52:0,52:0:0:52:1855:-167.228,-15.6536,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 chr07 10596471 . A G 32299.3 PASS AB=0.454274;ABP=39.5497;AC=10;AF=0.238095;AN=42;AO=1365;CIGAR=1X;DP=5502;DPB=5502;DPRA=1.47942;EPP=2958.39;EPPR=8966.86;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9861;MQMR=59.9746;NS=21;NUMALT=1;ODDS=9.00963;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47955;QR=147983;RO=4136;RPL=547;RPP=119.842;RPPR=675.78;RPR=818;RUN=1;SAF=546;SAP=121.573;SAR=819;SRF=1500;SRP=680.543;SRR=2636;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:328:327,1:327:11691:1:36:0,-95.1396,-1048.46 0/0:236:235,1:235:8447:1:36:0,-67.4448,-756.628 0/0:229:228,1:228:8168:1:36:0,-65.3376,-731.532 0/0:335:335,0:335:11943:0:0:0,-100.845,-1074.72 0/0:554:553,1:553:19822:1:36:0,-163.172,-1779.9 0/0:180:180,0:180:6432:0:0:0,-54.1854,-578.966 0/0:330:330,0:330:11799:0:0:0,-99.3399,-1061.73 1/1:442:0,442:0:0:442:15514:-1395.96,-133.055,0 0/1:522:256,266:256:9163:266:9383:-687.306,0,-667.496 0/1:30:17,13:17:608:13:454:-32.1614,0,-46.0211 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:77:45,32:45:1612:32:1101:-76.2121,0,-122.191 0/1:243:153,90:153:5464:90:3200:-215.072,0,-418.737 0/0:263:263,0:263:9376:0:0:0,-79.1709,-843.807 0/1:485:247,238:247:8859:238:8383:-608.488,0,-651.292 0/1:209:111,98:111:3964:98:3424:-245.458,0,-294.037 0/0:219:218,1:218:7774:1:36:0,-62.3273,-696.093 0/1:230:124,106:124:4436:106:3706:-264.507,0,-330.175 0/1:216:145,71:145:5182:71:2466:-157.169,0,-401.34 0/0:311:306,4:306:10979:4:144:0,-80.3336,-974.15 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.951 chr07 10596598 . C T 11161.7 PASS AB=0.49732;ABP=3.06849;AC=10;AF=0.238095;AN=42;AO=595;CIGAR=1X;DP=2226;DPB=2226;DPRA=1.13616;EPP=1226.48;EPPR=3443.27;GTI=0;LEN=1;MEANALT=1;MQM=59.642;MQMR=59.981;NS=21;NUMALT=1;ODDS=2.10556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21382;QR=58295;RO=1628;RPL=10;RPP=1209.64;RPPR=3443.27;RPR=585;RUN=1;SAF=2;SAP=1277.72;SAR=593;SRF=0;SRP=3538.17;SRR=1628;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:192:192,0:192:6896:0:0:0,-57.7978,-620.705 0/0:124:123,0:123:4412:0:0:0,-37.0267,-396.883 0/0:97:96,0:96:3433:0:0:0,-28.8989,-308.822 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.161 0/0:170:170,0:170:6087:0:0:0,-51.1751,-547.917 0/0:69:67,2:67:2404:2:72:0,-13.9343,-209.751 0/0:139:139,0:139:4968:0:0:0,-41.8432,-447.267 1/1:129:0,129:0:0:129:4632:-416.995,-38.8329,0 0/1:196:100,96:100:3577:96:3448:-251.53,0,-263.134 0/1:26:8,18:8:284:18:648:-50.8251,0,-18.0766 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:46:18,28:18:644:28:1008:-77.1783,0,-44.4432 0/1:78:42,36:42:1508:36:1292:-92.0546,0,-112.534 0/0:109:108,0:108:3837:0:0:0,-32.5112,-345.165 0/1:329:154,175:154:5512:175:6286:-466.58,0,-397.165 0/1:121:60,61:60:2141:61:2196:-161.48,0,-156.531 0/0:129:129,0:129:4624:0:0:0,-38.8329,-416.323 0/1:66:34,32:34:1220:32:1152:-84.1115,0,-90.2388 0/1:71:53,18:53:1908:18:648:-37.2374,0,-150.624 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 chr07 10597005 . G A 35186.6 PASS AB=0.607042;ABP=73.6718;AC=32;AF=0.761905;AN=42;AO=1615;CIGAR=1X;DP=1950;DPB=1950;DPRA=2.06957;EPP=3466.64;EPPR=700.08;GTI=1;LEN=1;MEANALT=1.25;MQM=59.9988;MQMR=60;NS=21;NUMALT=1;ODDS=14.4337;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57678;QR=11539;RO=325;RPL=5;RPP=3466.64;RPPR=700.08;RPR=1610;RUN=1;SAF=1615;SAP=3509.94;SAR=0;SRF=325;SRP=708.739;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:0,158:0:0:158:5588:-503.044,-47.5627,0 1/1:117:0,115:0:0:115:4099:-368.738,-34.6185,0 1/1:83:0,83:0:0:83:2968:-267.353,-24.9855,0 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 1/1:189:1,188:1:36:188:6742:-603.254,-53.2964,0 1/1:107:0,107:0:0:107:3779:-340.307,-32.2102,0 1/1:156:0,156:0:0:156:5588:-503.042,-46.9607,0 0/0:46:46,0:46:1625:0:0:0,-13.8474,-146.537 0/1:132:51,81:51:1812:81:2904:-221.859,0,-123.626 0/1:16:13,3:13:468:3:108:-5.25869,0,-37.6432 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:17:10,7:10:356:7:252:-17.9114,0,-27.2637 0/1:93:39,54:39:1392:54:1940:-146.88,0,-97.5832 1/1:103:0,103:0:0:103:3684:-331.763,-31.0061,0 0/1:173:69,102:69:2451:102:3629:-274.979,0,-169.009 0/1:40:14,26:14:504:26:936:-72.5183,0,-33.6569 1/1:55:0,55:0:0:55:1976:-178.115,-16.5567,0 0/1:178:72,106:72:2548:106:3800:-288.614,0,-175.986 0/1:61:7,52:7:239:52:1868:-150.279,0,-3.72624 1/1:105:2,102:2:72:102:3644:-321.329,-24.8302,0 1/1:56:1,52:1:36:52:1845:-162.73,-12.7161,0 chr07 10690619 . G A 80870.1 PASS AB=0.556364;ABP=40.9518;AC=32;AF=0.761905;AN=42;AO=2978;CIGAR=1X;DP=3731;DPB=3731;DPRA=1.32169;EPP=6469.66;EPPR=1638.13;GTI=0;LEN=1;MEANALT=1;MQM=51.5312;MQMR=59.9934;NS=21;NUMALT=1;ODDS=36.6222;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=106399;QR=26611;RO=753;RPL=1230;RPP=198.664;RPPR=3.01318;RPR=1748;RUN=1;SAF=1230;SAP=198.664;SAR=1748;SRF=376;SRP=3.01318;SRR=377;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:223:0,223:0:0:223:7947:-709.4,-67.1297,0 1/1:259:0,259:0:0:259:9259:-821.411,-77.9668,0 1/1:126:0,126:0:0:126:4519:-403.374,-37.9298,0 1/1:184:0,184:0:0:184:6572:-585.084,-55.3895,0 1/1:355:1,354:1:36:354:12617:-1123.23,-103.267,0 1/1:143:1,142:1:36:142:5078:-446.538,-39.449,0 1/1:266:2,264:2:72:264:9428:-832.498,-73.2373,0 0/0:136:136,0:136:4827:0:0:0,-40.9401,-434.586 0/1:275:138,137:138:4856:137:4908:-354.585,0,-354.412 0/1:31:15,16:15:525:16:576:-42.4998,0,-38.2461 1/1:15:0,15:0:0:15:527:-46.8044,-4.51545,0 0/1:82:27,55:27:955:55:1951:-149.96,0,-61.5804 0/1:168:72,96:72:2542:96:3434:-256.043,0,-178.456 1/1:229:0,229:0:0:229:8215:-734.401,-68.9359,0 0/1:321:142,179:142:5051:179:6399:-474.822,0,-358.108 0/1:151:62,89:62:2182:89:3147:-235.656,0,-151.187 1/1:153:0,153:0:0:153:5479:-489.754,-46.0576,0 0/1:188:107,81:107:3742:81:2895:-202.363,0,-280.389 0/1:159:47,112:47:1679:112:4019:-310.596,0,-103.533 1/1:161:2,159:2:72:159:5685:-501.212,-41.6291,0 1/1:106:1,105:1:36:105:3744:-330.107,-28.3109,0 chr07 10690623 . CTTTGC CTTGC 75971.2 PASS AB=0.532164;ABP=15.3026;AC=32;AF=0.761905;AN=42;AO=2841;CIGAR=1M1D4M;DP=3636;DPB=3160.17;DPRA=1.26739;EPP=6172.16;EPPR=1690.26;GTI=0;LEN=1;MEANALT=1.6;MQM=51.585;MQMR=59.9936;NS=21;NUMALT=1;ODDS=28.9108;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=100184;QR=27269;RO=781;RPL=1168;RPP=197.935;RPPR=3.01308;RPR=1673;RUN=1;SAF=1168;SAP=197.935;SAR=1673;SRF=391;SRP=3.01308;SRR=390;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:212:0,210:0:0:210:7423:-663.796,-63.2163,0 1/1:253:0,252:0:0:252:8881:-791.091,-75.8596,0 1/1:120:0,120:0:0:120:4257:-380.358,-36.1236,0 1/1:178:0,178:0:0:178:6272:-560.459,-53.5833,0 1/1:343:1,339:1:36:339:11900:-1060.46,-99.0928,0 1/1:139:1,137:1:36:137:4856:-428.287,-38.2765,0 1/1:252:2,248:2:69:248:8727:-771.634,-69.0188,0 0/0:138:138,0:138:4818:0:0:0,-41.5421,-433.786 0/1:270:143,127:143:5006:127:4515:-321.919,0,-369.419 0/1:30:16,14:16:568:14:500:-36.0357,0,-42.4215 1/1:14:0,14:0:0:14:492:-43.9088,-4.21442,0 0/1:81:29,52:29:1012:52:1846:-140.891,0,-67.0077 0/1:167:76,90:76:2641:90:3169:-233.072,0,-187.72 1/1:219:0,219:0:0:219:7701:-688.77,-65.9256,0 0/1:322:150,171:150:5209:171:6047:-443.774,0,-372.021 0/1:150:62,86:62:2191:86:3068:-230.018,0,-152.606 1/1:145:0,144:0:0:144:5041:-450.906,-43.3483,0 0/1:191:110,81:110:3820:81:2861:-198.726,0,-286.509 0/1:157:50,107:50:1755:107:3756:-288.626,0,-110.973 1/1:153:2,151:2:72:151:5328:-469.673,-39.2209,0 1/1:102:1,101:1:36:101:3544:-312.586,-27.1068,0 chr07 10690654 . C G,T 45495.3 PASS AB=0.561315,0.438685;ABP=28.8401,28.8401;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1734,392;CIGAR=1X,1X;DP=2126;DPB=2126;DPRA=2.42209,1.0353;EPP=3768.34,854.227;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.5,1.90909;MQM=45.6869,59.9209;MQMR=0;NS=21;NUMALT=2;ODDS=2.44823;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61864,13962;QR=0;RO=0;RPL=1734,392;RPP=3768.34,854.227;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3768.34,854.227;SAR=1734,392;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:120:0,120,0:0:0:120,0:4276,0:-379.865,-36.1236,0,-379.865,-36.1236,-379.865 1/1:138:0,138,0:0:0:138,0:4944,0:-434.907,-41.5421,0,-434.907,-41.5421,-434.907 1/1:89:0,89,0:0:0:89,0:3188,0:-283.014,-26.7917,0,-283.014,-26.7917,-283.014 1/1:113:0,113,0:0:0:113,0:4011,0:-354.408,-34.0164,0,-354.408,-34.0164,-354.408 1/1:195:0,194,1:0:0:194,1:6918,36:-612.025,-58.3998,0,-609.087,-55.1026,-608.786 1/1:106:0,106,0:0:0:106,0:3772,0:-332.744,-31.9092,0,-332.744,-31.9092,-332.744 1/1:147:0,147,0:0:0:147,0:5260,0:-464.017,-44.2514,0,-464.017,-44.2514,-464.017 2/2:43:0,0,43:0:0:0,43:0,1548:-139.613,-139.613,-139.613,-12.9443,-12.9443,0 1/2:196:0,94,102:0:0:94,102:3364,3622:-565.371,-295.476,-267.179,-270.249,0,-239.543 1/2:20:0,11,9:0:0:11,9:396,324:-58.7654,-26.7966,-23.4853,-32.3271,0,-29.6178 1/1:10:0,10,0:0:0:10,0:360,0:-31.7283,-3.0103,0,-31.7283,-3.0103,-31.7283 1/2:40:0,32,8:0:0:32,8:1148,288:-116.262,-23.8592,-14.2262,-92.762,0,-90.3537 1/2:102:0,57,45:0:0:57,45:2031,1574:-291.428,-128.4,-111.241,-163.378,0,-149.832 1/1:142:0,142,0:0:0:142,0:5072,0:-451.791,-42.7463,0,-451.791,-42.7463,-451.791 1/2:179:0,114,65:0:0:114,65:4063,2324:-516.299,-189.796,-155.479,-326.858,0,-307.291 1/2:89:0,44,45:0:0:44,45:1555,1620:-256.947,-132.544,-119.298,-124.757,0,-111.211 1/1:77:0,77,0:0:0:77,0:2748,0:-244.678,-23.1793,0,-244.678,-23.1793,-244.678 1/2:83:0,37,46:0:0:37,46:1320,1633:-239.42,-133.409,-122.271,-106.364,0,-92.5166 1/2:82:0,55,27:0:0:55,27:1964,957:-235.945,-78.3161,-61.7594,-157.983,0,-149.855 1/1:103:0,102,1:0:0:102,1:3631,36:-322.939,-30.7051,0,-320.001,-27.4078,-319.7 1/1:52:0,52,0:0:0:52,0:1843,0:-162.72,-15.6536,0,-162.72,-15.6536,-162.72 chr07 10690665 . C G 35428.3 PASS AB=0.564935;ABP=31.2112;AC=32;AF=0.761905;AN=42;AO=1693;CIGAR=1X;DP=2072;DPB=2072;DPRA=2.41667;EPP=3679.31;EPPR=825.998;GTI=0;LEN=1;MEANALT=1;MQM=45.684;MQMR=59.9868;NS=21;NUMALT=1;ODDS=0.731016;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60172;QR=13515;RO=379;RPL=1693;RPP=3679.31;RPPR=825.998;RPR=0;RUN=1;SAF=0;SAP=3679.31;SAR=1693;SRF=0;SRP=825.998;SRR=379;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,119:0:0:119:4236:-376.891,-35.8226,0 1/1:137:0,137:0:0:137:4864:-427.447,-41.2411,0 1/1:85:0,85:0:0:85:3020:-268.468,-25.5876,0 1/1:109:0,109:0:0:109:3900:-344.782,-32.8123,0 1/1:192:1,191:1:36:191:6781:-597.26,-54.1995,0 1/1:105:0,105:0:0:105:3735:-329.759,-31.6082,0 1/1:141:0,141:0:0:141:5016:-442.764,-42.4452,0 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/1:191:99,92:99:3498:92:3273:-233.022,0,-257.531 0/1:19:10,9:10:360:9:312:-22.459,0,-27.0247 1/1:10:0,10:0:0:10:352:-31.1165,-3.0103,0 0/1:40:8,32:8:280:32:1140:-89.8297,0,-13.4981 0/1:98:41,57:41:1457:57:2001:-148.345,0,-101.923 1/1:136:0,136:0:0:136:4840:-430.814,-40.9401,0 0/1:176:62,114:62:2228:114:4084:-310.263,0,-147.803 0/1:87:44,43:44:1572:43:1528:-109.403,0,-115.582 1/1:74:0,74:0:0:74:2613:-233.02,-22.2762,0 0/1:80:45,35:45:1616:35:1244:-86.5707,0,-121.648 0/1:79:26,53:26:928:53:1853:-140.955,0,-60.0569 1/1:100:1,99:1:36:99:3520:-309.949,-26.5047,0 1/1:52:0,52:0:0:52:1860:-164.133,-15.6536,0 chr07 10914757 . G A 51836.7 PASS AB=0.512632;ABP=4.3269;AC=32;AF=0.761905;AN=42;AO=1948;CIGAR=1X;DP=2569;DPB=2569;DPRA=0.795066;EPP=4233.04;EPPR=1351.49;GTI=0;LEN=1;MEANALT=1;MQM=45.2295;MQMR=57.1031;NS=21;NUMALT=1;ODDS=9.47517;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69564;QR=22006;RO=621;RPL=1031;RPP=17.4972;RPPR=3.79707;RPR=917;RUN=1;SAF=1031;SAP=17.4972;SAR=917;SRF=318;SRP=3.79707;SRR=303;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:154:1,153:1:36:153:5460:-477.98,-42.7629,0 1/1:140:0,140:0:0:140:5004:-432.223,-42.1442,0 1/1:66:0,66:0:0:66:2359:-205.794,-19.868,0 1/1:149:0,149:0:0:149:5336:-469.798,-44.8535,0 1/1:222:3,219:3:99:219:7786:-678.413,-57.5921,0 1/1:137:0,137:0:0:137:4916:-430.043,-41.2411,0 1/1:182:0,182:0:0:182:6512:-564.184,-54.7875,0 0/0:152:152,0:152:5383:0:0:0,-45.7566,-483.638 0/1:164:102,62:102:3574:62:2228:-147.424,0,-272.224 0/1:23:11,12:11:387:12:424:-30.1014,0,-28.2149 1/1:5:0,5:0:0:5:180:-15.6885,-1.50515,0 0/1:33:23,10:23:824:10:360:-21.3168,0,-64.5253 0/1:141:73,68:73:2608:68:2421:-171.149,0,-192.386 1/1:91:0,91:0:0:91:3250:-285.486,-27.3937,0 0/1:195:89,106:89:3170:106:3796:-276.437,0,-226.442 0/1:80:47,33:47:1665:33:1184:-79.862,0,-125.986 1/1:76:0,76:0:0:76:2712:-241.139,-22.8783,0 0/1:148:64,84:64:2283:84:2980:-216.705,0,-160.974 0/1:166:54,112:54:1905:112:3996:-301.26,0,-121.643 1/1:144:2,142:2:72:142:5077:-437.078,-36.5228,0 1/1:101:0,101:0:0:101:3583:-311.816,-30.404,0 chr07 11263574 . T C 7466.32 PASS AB=0.471386;ABP=7.7326;AC=10;AF=0.238095;AN=42;AO=423;CIGAR=1X;DP=1614;DPB=1614;DPRA=1.32081;EPP=921.543;EPPR=2578.38;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.948;MQMR=60;NS=21;NUMALT=1;ODDS=1.47518;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15102;QR=42629;RO=1190;RPL=0;RPP=921.543;RPPR=2578.38;RPR=423;RUN=1;SAF=423;SAP=921.543;SAR=0;SRF=1190;SRP=2587.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:94,0:94:3368:0:0:0,-28.2968,-303.336 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/0:104:104,0:104:3713:0:0:0,-31.3071,-334.371 0/0:169:169,0:169:6049:0:0:0,-50.8741,-544.512 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/0:105:103,2:103:3692:2:72:0,-24.7714,-325.645 1/1:104:0,104:0:0:104:3714:-334.462,-31.3071,0 0/1:148:73,75:73:2624:75:2679:-196.803,0,-191.854 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:13:2,11:2:72:11:396:-32.0694,0,-2.92333 0/1:82:50,31:50:1781:31:1112:-75.7933,0,-135.975 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.378 0/1:120:69,51:69:2484:51:1832:-129.037,0,-187.689 0/1:63:24,39:24:852:39:1384:-105.892,0,-58.0355 0/0:58:58,0:58:2072:0:0:0,-17.4597,-186.751 0/1:157:83,74:83:2971:74:2647:-191.085,0,-220.36 0/1:72:47,25:47:1684:25:883:-58.1125,0,-130.173 0/0:83:79,4:79:2823:4:135:0,-12.503,-241.826 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.186 chr07 11265454 . G T 11560.3 PASS AB=0.53744;ABP=13.0914;AC=10;AF=0.238095;AN=42;AO=621;CIGAR=1X;DP=1950;DPB=1950;DPRA=1.75666;EPP=1351.49;EPPR=2882.38;GTI=1;LEN=1;MEANALT=1.18182;MQM=59.6538;MQMR=59.494;NS=21;NUMALT=1;ODDS=9.35294;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22230;QR=47306;RO=1326;RPL=0;RPP=1351.49;RPPR=2882.38;RPR=621;RUN=1;SAF=621;SAP=1351.49;SAR=0;SRF=1326;SRP=2882.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:101:101,0:101:3605:0:0:0,-30.404,-324.454 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.58 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.432 0/0:66:66,0:66:2376:0:0:0,-19.868,-214.086 0/0:133:132,1:132:4702:1:36:0,-36.4387,-419.64 0/0:85:85,0:85:3025:0:0:0,-25.5875,-272.415 0/0:149:146,1:146:5172:1:36:0,-41.0127,-461.482 1/1:175:1,174:1:36:174:6220:-556.167,-49.082,0 0/1:254:114,139:114:4089:139:4988:-372.54,0,-290.889 0/1:13:7,6:7:233:6:216:-15.0066,0,-17.3762 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3052 0/1:15:8,7:8:288:7:252:-18.5135,0,-21.752 0/1:144:65,79:65:2340:79:2809:-209.694,0,-167.475 0/0:108:108,0:108:3816:0:0:0,-32.5112,-343.62 0/1:196:84,112:84:3001:112:4024:-303.29,0,-210.655 0/1:62:12,50:12:432:50:1781:-141.9,0,-20.5564 0/0:43:43,0:43:1518:0:0:0,-12.9443,-136.908 0/1:66:36,30:36:1288:30:1076:-77.2849,0,-96.351 0/1:78:56,22:56:2008:22:792:-48.1253,0,-157.504 0/0:99:99,0:99:3529:0:0:0,-29.802,-317.77 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.052 chr07 11265492 . 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T C 8027.68 PASS AB=0.43038;ABP=32.9436;AC=10;AF=0.238095;AN=42;AO=375;CIGAR=1X;DP=1959;DPB=1959;DPRA=0.962105;EPP=223.198;EPPR=1832.95;GTI=1;LEN=1;MEANALT=1;MQM=53.3147;MQMR=59.6993;NS=21;NUMALT=1;ODDS=5.72707;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13416;QR=56673;RO=1583;RPL=285;RPP=223.198;RPPR=1832.95;RPR=90;RUN=1;SAF=375;SAP=817.312;SAR=0;SRF=1583;SRP=3440.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.821 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.885 0/0:124:124,0:124:4443:0:0:0,-37.3277,-400.028 0/0:159:159,0:159:5682:0:0:0,-47.8638,-511.433 0/0:165:165,0:165:5913:0:0:0,-49.6699,-532.162 0/0:62:62,0:62:2217:0:0:0,-18.6639,-199.793 0/0:223:223,0:223:7996:0:0:0,-67.1297,-719.533 1/1:68:0,68:0:0:68:2436:-219.393,-20.47,0 0/1:183:115,68:115:4123:68:2444:-159.909,0,-316.16 0/1:6:5,1:5:176:1:36:-1.79038,0,-14.3788 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:7,3:7:252:3:108:-7.06008,0,-20.0187 0/1:119:61,58:61:2188:58:2075:-150.971,0,-161.356 0/0:135:134,1:134:4808:1:36:0,-37.0434,-429.188 0/1:225:123,102:123:4397:102:3635:-259.475,0,-328.061 0/1:48:18,30:18:648:30:1080:-80.6425,0,-44.2024 0/0:66:65,0:65:2309:0:0:0,-19.5669,-207.836 0/1:65:39,26:39:1392:26:927:-64.0132,0,-105.985 0/1:55:37,18:37:1328:18:639:-41.2551,0,-103.263 0/0:110:110,0:110:3926:0:0:0,-33.1133,-353.522 0/0:31:31,0:31:1107:0:0:0,-9.33193,-99.8962 chr07 11902165 . G A 5754.14 PASS AB=0.464819;ABP=8.05238;AC=10;AF=0.238095;AN=42;AO=323;CIGAR=1X;DP=1325;DPB=1325;DPRA=1.18213;EPP=704.396;EPPR=2178.83;GTI=0;LEN=1;MEANALT=1;MQM=53.8576;MQMR=59.52;NS=21;NUMALT=1;ODDS=7.74802;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11560;QR=35844;RO=1002;RPL=323;RPP=704.396;RPPR=2178.83;RPR=0;RUN=1;SAF=0;SAP=704.396;SAR=323;SRF=0;SRP=2178.83;SRR=1002;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:88:86,2:86:3071:2:72:0,-19.6588,-269.776 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.561 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.633 0/0:81:81,0:81:2912:0:0:0,-24.3834,-262.261 0/0:62:62,0:62:2215:0:0:0,-18.6639,-199.607 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.769 0/0:99:99,0:99:3515:0:0:0,-29.802,-316.321 1/1:100:0,100:0:0:100:3569:-320.161,-30.103,0 0/1:53:22,31:22:783:31:1116:-84.6368,0,-54.836 0/1:15:9,6:9:324:6:216:-15.2434,0,-24.9904 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:19:12,7:12:432:7:252:-17.0888,0,-33.5016 0/1:53:33,20:33:1188:20:720:-49.0431,0,-91.2713 0/0:84:84,0:84:2993:0:0:0,-25.2865,-269.549 0/1:139:60,79:60:2139:79:2829:-212.025,0,-150.825 0/1:43:21,22:21:756:22:784:-57.7052,0,-55.4229 0/0:79:79,0:79:2816:0:0:0,-23.7814,-253.675 0/1:94:51,43:51:1824:43:1536:-109.343,0,-135.945 0/1:53:43,10:43:1548:10:358:-16.5299,0,-123.654 0/0:92:89,3:89:3192:3:108:0,-17.6339,-277.382 0/0:42:42,0:42:1508:0:0:0,-12.6433,-135.985 chr07 11980606 . TCCA GCCT,GCCA 26656.3 PASS AB=0.493857,0.506143;ABP=3.14368,3.14368;AC=33,9;AF=0.785714,0.214286;AN=42;AO=997,265;CIGAR=1X2M1X,1X3M;DP=1264;DPB=1264;DPRA=1.14245,0.869688;EPP=2167.97,578.45;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=1.55,1.90909;MQM=46.8245,56.7472;MQMR=60;NS=21;NUMALT=2;ODDS=8.86417;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35059,9482;QR=36;RO=1;RPL=0,0;RPP=2167.97,578.45;RPPR=5.18177;RPR=997,265;RUN=1,1;SAF=997,265;SAP=2167.97,578.45;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,80,0:0:0:80,0:2780,0:-246.191,-24.0824,0,-246.191,-24.0824,-246.191 1/1:46:0,46,0:0:0:46,0:1618,0:-142.632,-13.8474,0,-142.632,-13.8474,-142.632 1/1:30:0,28,2:0:0:28,2:1001,72:-88.9226,-8.42884,0,-83.052,-2.19911,-82.45 1/1:76:0,75,1:0:0:75,1:2652,32:-235.192,-22.5773,0,-232.625,-19.6918,-232.324 1/1:187:0,187,0:0:0:187,0:6577,0:-584.387,-56.2926,0,-584.387,-56.2926,-584.387 1/1:75:0,74,0:0:0:74,0:2620,0:-231.394,-22.2762,0,-231.394,-22.2762,-231.394 1/1:130:1,129,0:1:36:129,0:4490,0:-393.546,-35.5356,0,-393.847,-38.8329,-396.784 2/2:53:0,0,53:0:0:0,53:0,1893:-170.293,-170.293,-170.293,-15.9546,-15.9546,0 1/2:118:0,45,73:0:0:45,73:1592,2620:-342.158,-213.944,-200.397,-128.568,0,-106.593 1/1:4:0,4,0:0:0:4,0:132,0:-12.0247,-1.20412,0,-12.0247,-1.20412,-12.0247 1/1:6:0,6,0:0:0:6,0:216,0:-16.3303,-1.80618,0,-16.3303,-1.80618,-16.3303 1/2:10:0,4,6:0:0:4,6:144,216:-29.4836,-17.9625,-16.7584,-11.877,0,-10.0709 1/2:71:0,39,32:0:0:39,32:1368,1137:-202.156,-92.9688,-81.2287,-109.537,0,-99.9045 1/1:23:0,23,0:0:0:23,0:802,0:-72.0406,-6.92369,0,-72.0406,-6.92369,-72.0406 1/2:86:0,48,38:0:0:48,38:1700,1364:-247.632,-111.565,-97.1158,-136.421,0,-124.982 1/2:52:0,25,27:0:0:25,27:885,968:-150.607,-79.0686,-71.5429,-71.8924,0,-63.7646 1/1:54:0,54,0:0:0:54,0:1909,0:-170.77,-16.2556,0,-170.77,-16.2556,-170.77 1/2:23:0,9,14:0:0:9,14:324,496:-66.6584,-40.5866,-37.8773,-26.4261,0,-22.2117 1/2:47:0,31,16:0:0:31,16:1087,576:-135.238,-47.2778,-37.9459,-88.316,0,-83.4995 1/1:52:0,49,3:0:0:49,3:1732,108:-153.404,-14.7505,0,-144.6,-5.58791,-143.697 1/1:41:0,41,0:0:0:41,0:1430,0:-126.018,-12.3422,0,-126.018,-12.3422,-126.018 chr07 12827718 . C A 45356 PASS AB=0.534038;ABP=11.584;AC=32;AF=0.761905;AN=42;AO=2096;CIGAR=1X;DP=2616;DPB=2616;DPRA=1.04916;EPP=4545.73;EPPR=1130;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9952;MQMR=60;NS=21;NUMALT=1;ODDS=10.4535;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74527;QR=18522;RO=519;RPL=1;RPP=4545.73;RPPR=1130;RPR=2095;RUN=1;SAF=2096;SAP=4554.42;SAR=0;SRF=519;SRP=1130;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:1,129:1:36:129:4628:-413.084,-35.5356,0 1/1:128:0,128:0:0:128:4580:-412.365,-38.5318,0 1/1:87:0,87:0:0:87:3079:-277.335,-26.1896,0 1/1:207:0,206:0:0:206:7376:-663.528,-62.0122,0 1/1:236:1,235:1:36:235:8338:-746.826,-67.4448,0 1/1:195:1,194:1:36:194:6846:-612.61,-55.1026,0 1/1:240:0,240:0:0:240:8506:-765.541,-72.2472,0 0/0:119:119,0:119:4228:0:0:0,-35.8226,-380.7 0/1:262:147,115:147:5256:115:4093:-289.686,0,-394.308 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 1/1:5:0,5:0:0:5:165:-15.1736,-1.50515,0 0/1:18:8,10:8:284:10:360:-27.3258,0,-20.4848 0/1:141:48,93:48:1720:93:3272:-252.252,0,-112.64 1/1:131:0,131:0:0:131:4673:-420.73,-39.4349,0 0/1:179:98,81:98:3504:81:2882:-205.729,0,-261.686 0/1:93:39,54:39:1391:54:1932:-146.161,0,-97.4925 1/1:126:0,126:0:0:126:4444:-400.13,-37.9298,0 0/1:75:31,44:31:1099:44:1549:-117.122,0,-76.6422 0/1:77:21,56:21:752:56:2012:-158.174,0,-44.8269 1/1:116:0,116:0:0:116:4152:-373.859,-34.9195,0 1/1:44:0,44:0:0:44:1568:-141.412,-13.2453,0 chr07 12827740 . C T 22069 PASS AB=0.458258;ABP=28.2085;AC=10;AF=0.238095;AN=42;AO=951;CIGAR=1X;DP=4624;DPB=4624;DPRA=1.20601;EPP=2068.08;EPPR=7972.31;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9687;NS=21;NUMALT=1;ODDS=42.0862;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33923;QR=130043;RO=3670;RPL=508;RPP=12.6575;RPPR=143.916;RPR=443;RUN=1;SAF=508;SAP=12.6575;SAR=443;SRF=2079;SRP=143.916;SRR=1591;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:260:255,5:255:9002:5:176:0,-62.0828,-793.983 0/0:215:215,0:215:7631:0:0:0,-64.7214,-686.595 0/0:160:160,0:160:5706:0:0:0,-48.1648,-513.659 0/0:278:278,0:278:9873:0:0:0,-83.6863,-888.517 0/0:468:464,4:464:16483:4:144:0,-127.568,-1469.83 0/0:280:279,1:279:9868:1:36:0,-80.6901,-884.472 0/0:369:368,0:368:13020:0:0:0,-110.779,-1171.26 1/1:178:0,178:0:0:178:6309:-567.904,-53.5833,0 0/1:432:204,227:204:7284:227:8138:-602.33,0,-525.507 0/1:24:12,12:12:428:12:432:-31.9965,0,-31.6341 0/0:18:18,0:18:629:0:0:0,-5.41854,-56.9338 0/1:47:23,24:23:795:24:864:-63.9342,0,-57.7184 0/1:226:138,88:138:4874:88:3121:-213.081,0,-370.651 0/0:208:208,0:208:7407:0:0:0,-62.6142,-666.649 0/1:363:189,174:189:6688:174:6194:-448.284,0,-492.728 0/1:169:90,79:90:3175:79:2836:-204.604,0,-235.101 0/0:194:193,0:193:6818:0:0:0,-58.0988,-613.335 0/1:244:130,114:130:4580:114:4065:-292.585,0,-338.917 0/1:160:115,45:115:4049:45:1608:-96.8453,0,-316.435 0/0:226:226,0:226:8052:0:0:0,-68.0328,-724.471 0/0:105:105,0:105:3681:0:0:0,-31.6081,-331.496 chr07 12827766 . TAGTA GAGTT,TAGTT 43958.8 PASS AB=0.546099,0.439716;ABP=18.6264,29.7148;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1633,440;CIGAR=1X3M1X,4M1X;DP=2097;DPB=2097;DPRA=1.6975,1.39857;EPP=3523.01,949.792;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.45,3.08333;MQM=59.9241,60;MQMR=60;NS=21;NUMALT=2;ODDS=22.4613;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56976,15667;QR=36;RO=1;RPL=1630,439;RPP=3523.01,949.792;RPPR=5.18177;RPR=3,1;RUN=1,1;SAF=0,0;SAP=3549.02,958.458;SAR=1633,440;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,127,4:0:0:127,4:4384,140:-394.394,-38.2308,0,-383.003,-26.8438,-381.799 1/1:88:0,86,0:0:0:86,0:2989,0:-268.857,-25.8886,0,-268.857,-25.8886,-268.857 1/1:75:0,75,0:0:0:75,0:2630,0:-236.95,-22.5773,0,-236.95,-22.5773,-236.95 1/1:77:0,76,1:0:0:76,1:2669,36:-240.098,-22.8783,0,-237.16,-19.581,-236.859 1/1:246:0,242,3:0:0:242,3:8433,108:-758.638,-72.8493,0,-749.826,-64.037,-748.923 1/1:89:0,88,0:0:0:88,0:3078,0:-276.92,-26.4906,0,-276.92,-26.4906,-276.92 1/1:135:0,135,0:0:0:135,0:4740,0:-426.766,-40.6391,0,-426.766,-40.6391,-426.766 2/2:60:0,0,60:0:0:0,60:0,2132:-192.147,-192.147,-192.147,-18.0618,-18.0618,0 1/2:184:0,99,83:0:0:99,83:3480,2987:-527.013,-243.755,-213.953,-283.293,0,-258.308 1/2:19:0,10,9:0:0:10,9:357,316:-55.1776,-26.0696,-23.0593,-29.4618,0,-26.7525 1/1:13:0,13,0:0:0:13,0:450,0:-40.8285,-3.91339,0,-40.8285,-3.91339,-40.8285 1/2:34:0,16,17:0:0:16,17:545,608:-93.7816,-49.5748,-44.7583,-44.1966,0,-39.0791 1/2:90:0,41,46:0:0:41,46:1414,1618:-246.63,-131.765,-119.422,-114.919,0,-101.071 1/1:87:0,87,0:0:0:87,0:2991,0:-269.4,-26.1896,0,-269.4,-26.1896,-269.4 1/2:186:1,108,76:1:36:108,76:3771,2724:-525.652,-219.228,-189.654,-303.783,0,-283.842 1/2:78:0,38,40:0:0:38,40:1335,1398:-222.731,-114.072,-102.633,-109.01,0,-96.9685 1/1:69:0,66,0:0:0:66,0:2290,0:-206.037,-19.868,0,-206.037,-19.868,-206.037 1/2:172:0,89,80:0:0:89,80:3108,2848:-484.936,-232.13,-205.338,-252.811,0,-228.729 1/2:83:0,61,21:0:0:61,21:2139,752:-235.444,-61.382,-43.0192,-174.116,0,-167.794 1/1:111:0,111,0:0:0:111,0:3906,0:-351.548,-33.4143,0,-351.548,-33.4143,-351.548 1/1:65:0,65,0:0:0:65,0:2267,0:-204.288,-19.567,0,-204.288,-19.567,-204.288 chr07 13052416 . C T 2547.29 PASS AB=0.383686;ABP=41.9066;AC=10;AF=0.238095;AN=42;AO=164;CIGAR=1X;DP=742;DPB=742;DPRA=1.45862;EPP=359.132;EPPR=1255.95;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9817;MQMR=59.9064;NS=21;NUMALT=1;ODDS=1.01734;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5791;QR=20644;RO=577;RPL=164;RPP=359.132;RPPR=1255.95;RPR=0;RUN=1;SAF=0;SAP=359.132;SAR=164;SRF=0;SRP=1255.95;SRR=577;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.437 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0348 0/0:42:42,0:42:1500:0:0:0,-12.6433,-135.292 0/0:46:46,0:46:1629:0:0:0,-13.8474,-146.878 0/0:57:55,2:55:1961:2:72:0,-10.322,-169.927 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.749 0/0:29:29,0:29:1029:0:0:0,-8.72987,-92.9196 1/1:35:0,35:0:0:35:1241:-111.993,-10.5361,0 0/1:32:18,14:18:648:14:489:-34.7059,0,-49.0189 0/1:11:10,1:10:356:1:36:-0.286945,0,-29.0699 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:19:14,5:14:504:5:180:-10.8325,0,-39.9785 0/1:44:21,23:21:752:23:794:-58.528,0,-54.7609 0/0:31:31,0:31:1097:0:0:0,-9.33193,-99.038 0/1:27:23,4:23:824:4:144:-5.18581,0,-66.3555 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:124:68,56:68:2444:56:2002:-143.126,0,-182.885 0/1:68:44,23:44:1576:23:797:-51.6606,0,-121.745 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.158 chr07 13052423 . AT TG,TT 15177.9 PASS AB=0.623053,0.376947;ABP=45.2289,45.2289;AC=32,10;AF=0.761905,0.238095;AN=42;AO=568,163;CIGAR=2X,1X1M;DP=731;DPB=731.5;DPRA=1.025,1.67588;EPP=1236.41,356.96;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.55,1.91667;MQM=59.8838,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.484073;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=19860,5755;QR=0;RO=0;RPL=568,163;RPP=1236.41,356.96;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1236.41,356.96;SAR=568,163;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:27:0,27,0:0:0:27,0:968,0:-87.4372,-8.12781,0,-87.4372,-8.12781,-87.4372 1/1:27:0,27,0:0:0:27,0:917,0:-82.8361,-8.12781,0,-82.8361,-8.12781,-82.8361 1/1:41:0,39,2:0:0:39,2:1373,72:-123.506,-11.7402,0,-117.63,-5.50551,-117.028 1/1:45:0,45,0:0:0:45,0:1567,0:-141.047,-13.5464,0,-141.047,-13.5464,-141.047 1/1:58:0,56,2:0:0:56,2:1989,72:-178.924,-16.8577,0,-173.049,-10.623,-172.447 1/1:31:0,31,0:0:0:31,0:1093,0:-98.6771,-9.33193,0,-98.6771,-9.33193,-98.6771 1/1:30:0,30,0:0:0:30,0:1050,0:-94.8059,-9.0309,0,-94.8059,-9.0309,-94.8059 2/2:34:0,0,34:0:0:0,34:0,1209:-109.114,-109.114,-109.114,-10.235,-10.235,0 1/2:32:0,18,14:0:0:18,14:629,500:-92.2837,-41.1218,-35.7032,-51.5155,0,-47.3011 1/2:11:0,10,1:0:0:10,1:350,36:-31.7642,-3.29724,-0.286945,-28.8259,0,-28.5249 1/1:4:0,4,0:0:0:4,0:142,0:-13.1292,-1.20412,0,-13.1292,-1.20412,-13.1292 1/2:20:0,15,5:0:0:15,5:522,180:-57.475,-15.0469,-10.5315,-42.7849,0,-41.2797 1/2:42:0,21,21:0:0:21,21:733,752:-121.3,-61.6846,-55.363,-59.9685,0,-53.6469 1/1:31:0,31,0:0:0:31,0:1054,0:-95.1616,-9.33193,0,-95.1616,-9.33193,-95.1616 1/2:26:0,22,4:0:0:22,4:788,144:-76.3723,-12.1095,-5.48684,-64.6223,0,-63.4182 1/2:6:0,5,1:0:0:5,1:174,36:-17.4359,-3.29724,-1.79209,-14.4965,0,-14.1954 1/1:15:0,15,0:0:0:15,0:518,0:-46.946,-4.51545,0,-46.946,-4.51545,-46.946 1/2:120:0,65,55:0:0:65,55:2304,1935:-345.505,-157.805,-138.238,-187.994,0,-171.437 1/2:64:0,44,20:0:0:44,20:1497,675:-176.474,-55.0402,-41.7949,-121.772,0,-115.751 1/1:16:0,16,0:0:0:16,0:555,0:-50.2752,-4.81648,0,-50.2752,-4.81648,-50.2752 1/1:51:0,47,4:0:0:47,4:1637,144:-147.254,-14.1484,0,-135.503,-2.03891,-134.299 chr07 14138158 . T G 8139.08 PASS AB=0.482853;ABP=4.87199;AC=10;AF=0.238095;AN=42;AO=466;CIGAR=1X;DP=2207;DPB=2207;DPRA=1.08103;EPP=1014.92;EPPR=3735.9;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.9914;MQMR=59.9937;NS=21;NUMALT=1;ODDS=20.576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16579;QR=62149;RO=1739;RPL=466;RPP=1014.92;RPPR=3735.9;RPR=0;RUN=1;SAF=466;SAP=1014.92;SAR=0;SRF=1739;SRP=3779.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:115:115,0:115:4105:0:0:0,-34.6184,-369.634 0/0:113:113,0:113:4027:0:0:0,-34.0164,-362.62 0/0:79:79,0:79:2824:0:0:0,-23.7814,-254.397 0/0:148:148,0:148:5304:0:0:0,-44.5524,-477.494 0/0:268:267,1:267:9536:1:36:0,-77.0778,-854.596 0/0:102:100,2:100:3584:2:72:0,-23.8683,-315.93 0/0:162:162,0:162:5791:0:0:0,-48.7669,-521.305 1/1:106:0,106:0:0:106:3772:-339.68,-31.9092,0 0/1:166:74,92:74:2639:92:3283:-245.719,0,-187.786 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:18:6,12:6:212:12:432:-33.8027,0,-14.0063 0/1:195:104,91:104:3724:91:3240:-233.121,0,-276.66 0/0:104:104,0:104:3721:0:0:0,-31.3071,-335.09 0/1:127:65,62:65:2332:62:2194:-159.491,0,-171.909 0/1:72:34,38:34:1212:38:1349:-100.034,0,-87.7122 0/0:145:145,0:145:5171:0:0:0,-43.6493,-465.532 0/1:72:45,26:45:1604:26:918:-61.2026,0,-122.917 0/1:68:44,23:44:1559:23:815:-53.1513,0,-120.082 0/0:98:93,5:93:3336:5:180:0,-12.9489,-283.905 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 chr07 14145565 . A T 4793.44 PASS AB=0.46771;ABP=7.63796;AC=10;AF=0.238095;AN=42;AO=286;CIGAR=1X;DP=1448;DPB=1448;DPRA=1.17553;EPP=624.051;EPPR=2515.41;GTI=0;LEN=1;MEANALT=1.08333;MQM=57.9301;MQMR=59.9681;NS=21;NUMALT=1;ODDS=17.5182;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10209;QR=41407;RO=1161;RPL=286;RPP=624.051;RPPR=2515.41;RPR=0;RUN=1;SAF=286;SAP=624.051;SAR=0;SRF=1161;SRP=2524.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:106:106,0:106:3767:0:0:0,-31.9092,-339.226 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/0:60:60,0:60:2122:0:0:0,-18.0618,-191.245 0/0:102:102,0:102:3660:0:0:0,-30.7051,-329.603 0/0:188:187,1:187:6597:1:36:0,-52.9954,-590.068 0/0:71:70,1:70:2497:1:36:0,-17.7749,-221.383 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.645 1/1:44:0,44:0:0:44:1584:-142.832,-13.2453,0 0/1:92:37,55:37:1332:55:1964:-149.195,0,-92.4876 0/1:13:4,9:4:144:9:324:-25.534,0,-9.40023 0/0:7:7,0:7:237:0:0:0,-2.10721,-21.6591 0/1:28:14,14:14:496:14:485:-35.5432,0,-36.5454 0/1:91:48,43:48:1728:43:1548:-112.102,0,-128.412 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.066 0/1:101:47,53:47:1673:53:1889:-139.702,0,-120.393 0/1:47:33,14:33:1161:14:489:-30.1716,0,-90.6463 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.398 0/1:92:59,33:59:2116:33:1170:-77.7079,0,-163.014 0/1:47:29,18:29:1036:18:648:-44.4895,0,-79.4055 0/0:70:69,1:69:2461:1:36:0,-17.536,-218.207 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 chr07 14145580 . CAAAC TGAAC,TGAAT 28703.3 PASS AB=0.628118,0.369615;ABP=65.8845,68.1299;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1166,185;CIGAR=2X3M,2X2M1X;DP=1356;DPB=1356.2;DPRA=3.34,0.810194;EPP=2526.27,404.733;EPPR=0;GTI=1;LEN=2,5;MEANALT=1.75,2.09091;MQM=59.952,56.6162;MQMR=0;NS=21;NUMALT=2;ODDS=1.71727;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=40799,6452;QR=0;RO=0;RPL=1165,185;RPP=2526.27,404.733;RPPR=0;RPR=1,0;RUN=1,1;SAF=1166,185;SAP=2534.95,404.733;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:108:0,106,1:0:0:106,1:3694,36:-332.196,-31.9092,0,-329.259,-28.9718,-328.958 1/1:69:0,69,0:0:0:69,0:2409,0:-217.064,-20.7711,0,-217.064,-20.7711,-217.064 1/1:59:0,58,0:0:0:58,0:2045,0:-183.959,-17.4597,0,-183.959,-17.4597,-183.959 1/1:103:0,102,0:0:0:102,0:3591,0:-322.978,-30.7051,0,-322.978,-30.7051,-322.978 1/1:190:0,190,0:0:0:190,0:6588,0:-592.869,-57.1957,0,-592.869,-57.1957,-592.869 1/1:72:0,72,0:0:0:72,0:2545,0:-229.299,-21.6742,0,-229.299,-21.6742,-229.299 1/1:74:0,74,0:0:0:74,0:2562,0:-230.827,-22.2762,0,-230.827,-22.2762,-230.827 2/2:20:0,0,20:0:0:0,20:0,692:-62.5844,-62.5844,-62.5844,-6.0206,-6.0206,0 1/2:88:0,37,51:0:0:37,51:1310,1784:-252.098,-145.387,-134.249,-107.063,0,-91.71 1/2:8:0,4,4:0:0:4,4:140,142:-23.2549,-11.866,-10.6619,-11.7405,0,-10.5363 1/1:6:0,6,0:0:0:6,0:203,0:-18.6009,-1.80618,0,-18.6009,-1.80618,-18.6009 1/2:21:0,15,6:0:0:15,6:525,205:-59.6931,-16.9732,-12.4578,-43.0637,0,-41.2575 1/2:79:0,48,31:0:0:48,31:1708,1092:-228.346,-89.1436,-74.6942,-139.556,0,-130.224 1/1:59:0,59,0:0:0:59,0:2063,0:-185.939,-17.7608,0,-185.939,-17.7608,-185.939 1/2:80:0,51,29:0:0:51,29:1800,1022:-229.942,-83.3678,-68.0152,-146.926,0,-138.197 1/2:49:0,33,15:0:0:33,15:1158,510:-135.615,-41.3675,-31.4336,-94.2788,0,-89.7633 1/1:52:0,52,0:0:0:52,0:1855,0:-167.228,-15.6536,0,-167.228,-15.6536,-167.228 1/2:77:0,59,18:0:0:59,18:2073,626:-219.8,-51.0712,-33.3104,-169.077,0,-163.658 1/2:39:0,30,9:0:0:30,9:1067,313:-112.746,-25.7853,-16.7544,-87.31,0,-84.6008 1/1:70:0,69,1:0:0:69,1:2372,30:-213.434,-20.7711,0,-211.051,-18.089,-210.75 1/1:33:0,32,0:0:0:32,0:1091,0:-98.2175,-9.63296,0,-98.2175,-9.63296,-98.2175 chr07 14306153 . A G 1444.34 PASS AB=0.258134;ABP=237.251;AC=8;AF=0.190476;AN=42;AO=140;CIGAR=1X;DP=1565;DPB=1565;DPRA=0.825615;EPP=307.016;EPPR=3097.36;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.9747;NS=21;NUMALT=1;ODDS=4.86633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4994;QR=50185;RO=1425;RPL=140;RPP=307.016;RPPR=3097.36;RPR=0;RUN=1;SAF=140;SAP=307.016;SAR=0;SRF=1425;SRP=3097.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:79:79,0:79:2808:0:0:0,-23.7814,-252.961 0/0:57:57,0:57:2036:0:0:0,-17.1587,-183.512 0/0:96:96,0:96:3379:0:0:0,-28.8989,-304.195 0/0:120:120,0:120:4197:0:0:0,-36.1236,-377.912 0/0:140:140,0:140:4947:0:0:0,-42.1442,-445.359 0/0:78:77,1:77:2694:1:36:0,-19.8821,-239.103 0/0:138:138,0:138:4849:0:0:0,-41.5421,-436.57 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 0/1:118:84,34:84:2958:34:1220:-74.5853,0,-230.931 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:22:21,1:21:752:1:36:0,-3.02438,-64.408 0/1:80:58,22:58:2053:22:786:-46.9817,0,-160.958 0/0:118:118,0:118:4122:0:0:0,-35.5215,-371.169 0/1:103:86,17:86:3033:17:603:-23.5934,0,-242.191 0/1:52:40,12:40:1416:12:428:-23.2052,0,-112.084 0/0:99:99,0:99:3468:0:0:0,-29.802,-312.331 0/1:56:31,25:31:1116:25:885:-63.1088,0,-83.894 0/1:52:43,9:43:1520:9:320:-13.4888,0,-121.44 0/0:92:91,1:91:3220:1:36:0,-24.0965,-286.424 0/0:37:37,0:37:1261:0:0:0,-11.1381,-113.785 chr07 14306260 . A G 55689.7 PASS AB=0.82148;ABP=621.514;AC=32;AF=0.761905;AN=42;AO=2071;CIGAR=1X;DP=2234;DPB=2234;DPRA=2.88947;EPP=2861.05;EPPR=356.96;GTI=5;LEN=1;MEANALT=1;MQM=59.9947;MQMR=60;NS=21;NUMALT=1;ODDS=1.30277;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74079;QR=5805;RO=163;RPL=1652;RPP=1597.05;RPPR=356.96;RPR=419;RUN=1;SAF=209;SAP=2867.98;SAR=1862;SRF=0;SRP=356.96;SRR=163;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:1,171:1:36:171:6125:-547.749,-48.1789,0 1/1:129:0,129:0:0:129:4616:-415.603,-38.8329,0 1/1:116:0,116:0:0:116:4152:-373.863,-34.9195,0 1/1:87:0,87:0:0:87:3080:-277.431,-26.1896,0 1/1:199:0,199:0:0:199:7124:-641.218,-59.905,0 1/1:135:0,135:0:0:135:4848:-436.469,-40.6391,0 1/1:141:1,140:1:36:140:5024:-448.706,-38.847,0 0/0:38:38,0:38:1346:0:0:0,-11.4391,-121.439 0/1:145:29,116:29:1027:116:4152:-330.214,0,-49.0928 0/1:20:8,12:8:284:12:412:-31.3886,0,-19.8828 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:43:12,31:12:432:31:1112:-87.4471,0,-26.2769 0/1:75:10,65:10:356:65:2320:-186.483,0,-9.804 1/1:93:0,93:0:0:93:3340:-300.816,-27.9958,0 0/1:110:23,87:23:820:87:3132:-248.991,0,-41.0092 0/1:74:14,60:14:504:60:2148:-171.311,0,-23.4219 1/1:150:0,150:0:0:150:5380:-484.33,-45.1545,0 0/1:117:16,101:16:568:101:3579:-287.099,0,-16.2314 0/1:105:11,94:11:396:94:3359:-270.918,0,-4.3746 1/1:170:0,170:0:0:170:6068:-546.225,-51.1751,0 1/1:111:0,111:0:0:111:3964:-356.952,-33.4143,0 chr07 14572912 . A T 6980.4 PASS AB=0.473874;ABP=6.30077;AC=10;AF=0.238095;AN=42;AO=384;CIGAR=1X;DP=1533;DPB=1533;DPRA=1.24824;EPP=836.856;EPPR=2478.52;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9531;MQMR=60;NS=21;NUMALT=1;ODDS=6.97663;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13705;QR=40899;RO=1148;RPL=0;RPP=836.856;RPPR=2478.52;RPR=384;RUN=1;SAF=384;SAP=836.856;SAR=0;SRF=1148;SRP=2495.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:75,1:75:2688:1:36:0,-19.28,-238.566 0/0:91:91,0:91:3245:0:0:0,-27.3937,-292.27 0/0:53:53,0:53:1885:0:0:0,-15.9546,-169.927 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 0/0:137:136,1:136:4773:1:36:0,-37.6428,-426.13 0/0:83:83,0:83:2976:0:0:0,-24.9855,-268.072 0/0:99:99,0:99:3541:0:0:0,-29.802,-318.897 1/1:119:0,119:0:0:119:4242:-381.952,-35.8226,0 0/1:121:63,58:63:2233:58:2078:-150.866,0,-164.808 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:43:22,21:22:784:21:735:-53.5271,0,-57.9396 0/1:50:23,27:23:809:27:972:-72.7464,0,-58.0768 0/0:88:88,0:88:3152:0:0:0,-26.4906,-283.905 0/1:131:78,53:78:2773:53:1896:-131.478,0,-210.375 0/1:45:14,31:14:504:31:1112:-86.845,0,-32.1517 0/0:51:51,0:51:1817:0:0:0,-15.3525,-163.809 0/1:98:48,49:48:1701:49:1747:-127.954,0,-123.814 0/1:58:37,21:37:1332:21:743:-49.7336,0,-102.723 0/0:71:71,0:71:2522:0:0:0,-21.3731,-227.229 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.847 chr07 14740314 . C T 18299.1 PASS AB=0.495246;ABP=3.25807;AC=10;AF=0.238095;AN=42;AO=777;CIGAR=1X;DP=3567;DPB=3567;DPRA=1.18732;EPP=1690.24;EPPR=6061.42;GTI=0;LEN=1;MEANALT=1;MQM=57.5598;MQMR=59.9541;NS=21;NUMALT=1;ODDS=23.202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27817;QR=99313;RO=2790;RPL=357;RPP=14.1024;RPPR=323.8;RPR=420;RUN=1;SAF=357;SAP=14.1024;SAR=420;SRF=1074;SRP=323.8;SRR=1716;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:245:245,0:245:8740:0:0:0,-73.7523,-786.579 0/0:137:136,1:136:4823:1:32:0,-38.0418,-431.028 0/0:143:143,0:143:5098:0:0:0,-43.0473,-458.962 0/0:177:177,0:177:6255:0:0:0,-53.2823,-563.045 0/0:361:360,1:360:12819:1:36:0,-105.074,-1149.85 0/0:217:213,4:213:7631:4:144:0,-52.0183,-673.41 0/0:237:237,0:237:8454:0:0:0,-71.3441,-760.862 1/1:141:0,141:0:0:141:5037:-452.745,-42.4452,0 0/1:247:134,113:134:4747:113:4025:-287.715,0,-353.033 0/1:31:18,13:18:648:13:468:-32.9325,0,-49.32 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:42:17,25:17:585:25:896:-68.272,0,-40.3286 0/1:229:90,139:90:3228:139:4984:-379.173,0,-221.806 0/0:176:176,0:176:6238:0:0:0,-52.9813,-561.515 0/1:366:182,184:182:6498:184:6604:-483.663,0,-474.672 0/1:164:88,76:88:3132:76:2723:-195.835,0,-232.736 0/0:165:164,1:164:5847:1:36:0,-46.0717,-522.743 0/1:105:46,59:46:1639:59:2112:-157.949,0,-115.92 0/1:78:62,16:62:2212:16:576:-28.6782,0,-175.865 0/0:227:223,4:223:7910:4:144:0,-55.0249,-698.62 0/0:72:72,0:72:2557:0:0:0,-21.6742,-230.372 chr07 14740461 . TAAACCAT TACCAT 46816.7 PASS AB=0.502304;ABP=3.05033;AC=32;AF=0.761905;AN=42;AO=2207;CIGAR=1M2D5M;DP=2763;DPB=2209.5;DPRA=1.24112;EPP=4795.45;EPPR=1195.15;GTI=1;LEN=2;MEANALT=1.3;MQM=59.9665;MQMR=59.9891;NS=21;NUMALT=1;ODDS=9.5339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77552;QR=19162;RO=549;RPL=2207;RPP=4795.45;RPPR=1195.15;RPR=0;RUN=1;SAF=0;SAP=4795.45;SAR=2207;SRF=0;SRP=1195.15;SRR=549;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:0,171:0:0:171:6009:-540.67,-51.4761,0 1/1:76:0,76:0:0:76:2677:-241.176,-22.8783,0 1/1:51:0,51:0:0:51:1812:-163.362,-15.3525,0 1/1:180:0,180:0:0:180:6279:-565.21,-54.1854,0 1/1:448:3,442:3:107:442:15477:-1382.68,-124.286,0 1/1:171:0,169:0:0:169:5944:-534.733,-50.8741,0 1/1:252:1,251:1:35:251:8815:-789.849,-72.3609,0 0/0:107:107,0:107:3764:0:0:0,-32.2102,-338.965 0/1:219:106,113:106:3712:113:3985:-292.919,0,-268.364 0/1:10:2,8:2:70:8:284:-22.8931,0,-3.6371 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:34:11,23:11:387:23:796:-61.7227,0,-24.9321 0/1:163:77,85:77:2674:85:3002:-221.276,0,-191.785 1/1:99:0,99:0:0:99:3499:-315.124,-29.802,0 0/1:144:85,59:85:2945:59:2066:-142.86,0,-221.942 0/1:131:73,58:73:2564:58:2034:-143.895,0,-191.579 1/1:168:2,166:2:69:166:5797:-515.301,-44.0205,0 0/1:78:51,27:51:1743:27:968:-63.957,0,-133.67 0/1:89:26,63:26:923:63:2236:-174.71,0,-56.5964 1/1:107:5,102:5:169:102:3595:-308.215,-16.6689,0 1/1:55:0,55:0:0:55:1953:-176.045,-16.5567,0 chr07 14962356 . T G 6908.54 PASS AB=0.463551;ABP=9.18378;AC=10;AF=0.238095;AN=42;AO=301;CIGAR=1X;DP=1249;DPB=1249;DPRA=1.18608;EPP=11.8477;EPPR=9.94663;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9916;NS=21;NUMALT=1;ODDS=8.31527;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10704;QR=33872;RO=947;RPL=0;RPP=656.623;RPPR=2059.39;RPR=301;RUN=1;SAF=168;SAP=11.8477;SAR=133;SRF=446;SRP=9.94663;SRR=501;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:63,0:63:2252:0:0:0,-18.9649,-202.943 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/0:63:63,0:63:2241:0:0:0,-18.9649,-201.952 0/0:93:93,0:93:3306:0:0:0,-27.9958,-297.757 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/0:89:89,0:89:3192:0:0:0,-26.7917,-287.495 1/1:53:0,53:0:0:53:1868:-168.397,-15.9546,0 0/1:84:40,44:40:1432:44:1576:-116.845,0,-103.891 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:73:36,37:36:1296:37:1313:-96.4945,0,-94.9687 0/0:45:45,0:45:1593:0:0:0,-13.5463,-143.658 0/1:79:45,34:45:1612:34:1211:-85.5141,0,-121.589 0/1:35:17,18:17:612:18:644:-47.7545,0,-44.8774 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/1:127:58,69:58:2088:69:2440:-181.622,0,-149.959 0/1:117:82,35:82:2940:35:1256:-78.1248,0,-229.613 0/0:50:49,0:49:1756:0:0:0,-14.7505,-157.964 0/0:108:108,0:108:3856:0:0:0,-32.5112,-347.237 chr07 15364561 . A G 93812.7 PASS AB=0.440763;ABP=256.927;AC=24;AF=0.571429;AN=42;AO=6877;CIGAR=1X;DP=11641;DPB=11641;DPRA=0;EPP=14936.2;EPPR=10326.2;GTI=1;LEN=1;MEANALT=1.42857;MQM=31.0163;MQMR=18.6493;NS=21;NUMALT=1;ODDS=27.5615;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=245505;QR=169087;RO=4754;RPL=0;RPP=14936.2;RPPR=10222.2;RPR=6877;RUN=1;SAF=6877;SAP=14936.2;SAR=0;SRF=4742;SRP=10222.2;SRR=12;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:541:356,185:356:12668:185:6572:-368.474,0,-412.626 0/1:536:295,241:295:10483:241:8595:-395.628,0,-324.044 0/1:302:152,150:152:5444:150:5343:-309.345,0,-161.74 0/1:579:389,190:389:13792:190:6760:-371.276,0,-437.946 0/1:869:535,333:535:19042:333:11879:-701.44,0,-609.922 0/1:481:233,247:233:8317:247:8845:-432.866,0,-222.507 0/1:525:279,246:279:9938:246:8786:-420.72,0,-300.316 0/1:384:203,181:203:7257:181:6447:-382.945,0,-216.917 0/1:574:335,239:335:11901:239:8511:-456.222,0,-392.619 1/1:743:31,711:31:1085:711:25402:-1880.54,-170.233,0 1/1:1199:12,1185:12:432:1185:42386:-2760.57,-341.361,0 1/1:1368:56,1309:56:1989:1309:46707:-3483.01,-314.932,0 0/1:545:327,217:327:11679:217:7758:-463.96,0,-386.399 0/1:396:253,143:253:8928:143:5091:-289.174,0,-299.013 0/1:614:366,248:366:13057:248:8891:-489.181,0,-447.956 0/1:315:155,160:155:5556:160:5713:-332.837,0,-166.177 0/1:335:150,185:150:5361:185:6606:-397.263,0,-152.876 0/1:452:85,366:85:2969:366:13072:-868.028,0,-14.7638 0/1:191:97,94:97:3457:94:3353:-201.475,0,-101.7 0/1:548:349,199:349:12360:199:7094:-410.612,0,-425.194 0/1:144:96,48:96:3372:48:1694:-66.8816,0,-114.846 chr07 15364570 . C G 94652.9 PASS AB=0.443975;ABP=229.047;AC=24;AF=0.571429;AN=42;AO=6897;CIGAR=1X;DP=11600;DPB=11600;DPRA=0;EPP=14979.7;EPPR=10180.7;GTI=1;LEN=1;MEANALT=1.38095;MQM=31.0318;MQMR=18.6249;NS=21;NUMALT=1;ODDS=28.7321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=246307;QR=167860;RO=4695;RPL=0;RPP=14979.7;RPPR=10198.1;RPR=6897;RUN=1;SAF=6897;SAP=14979.7;SAR=0;SRF=4693;SRP=10180.7;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:537:352,185:352:12600:185:6610:-373.624,0,-410.517 0/1:533:289,243:289:10290:243:8666:-401.994,0,-307.743 0/1:296:149,147:149:5336:147:5250:-303.503,0,-159.32 0/1:567:380,187:380:13608:187:6686:-368.915,0,-434.299 0/1:857:529,328:529:18915:328:11700:-690.203,0,-607.791 0/1:481:230,251:230:8240:251:8970:-443.162,0,-222.204 0/1:529:283,246:283:10140:246:8811:-420.105,0,-309.059 0/1:385:206,178:206:7340:178:6357:-378.189,0,-224.285 0/1:576:334,241:334:11944:241:8583:-459.176,0,-393.214 1/1:737:26,711:26:928:711:25249:-1881.92,-176.601,0 1/1:1201:12,1187:12:428:1187:42534:-2769.33,-342.033,0 1/1:1371:52,1318:52:1864:1318:47100:-3518.02,-324.392,0 0/1:542:322,220:322:11512:220:7881:-473.708,0,-377.569 0/1:398:249,148:249:8916:148:5292:-305.156,0,-290.039 0/1:616:368,248:368:13156:248:8841:-485.385,0,-450.536 0/1:317:154,163:154:5492:163:5794:-341.04,0,-163.958 0/1:339:150,188:150:5353:188:6729:-405.092,0,-148.65 0/1:447:79,368:79:2836:368:13143:-872.788,0,-2.98301 0/1:193:98,95:98:3503:95:3376:-203.344,0,-102.946 0/1:534:337,197:337:12045:197:7027:-408.385,0,-408.676 0/1:144:96,48:96:3414:48:1708:-67.6302,0,-115.018 chr07 15364604 . C T 53021.7 PASS AB=0.335537;ABP=3947.11;AC=21;AF=0.5;AN=42;AO=5633;CIGAR=1X;DP=16788;DPB=16788;DPRA=0;EPP=12234.9;EPPR=24186.7;GTI=3;LEN=1;MEANALT=1.09524;MQM=27.1951;MQMR=22.3899;NS=21;NUMALT=1;ODDS=5.20527;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=200026;QR=395414;RO=11153;RPL=4099;RPP=2539.24;RPPR=2902.44;RPR=1534;RUN=1;SAF=4099;SAP=2539.24;SAR=1534;SRF=7506;SRP=2902.44;SRR=3647;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:919:609,310:609:21724:310:11001:-397.356,0,-811.29 0/1:790:494,296:494:17525:296:10545:-376.528,0,-597.682 0/1:446:337,109:337:11943:109:3831:-97.7735,0,-537.302 0/1:898:618,280:618:21856:280:9974:-376.503,0,-817.629 0/1:1537:967,570:967:34324:570:20207:-761.031,0,-1290.13 0/1:635:470,165:470:16642:165:5874:-121.523,0,-679.015 0/1:846:645,201:645:22846:201:7085:-91.8135,0,-943.474 0/1:587:443,144:443:15667:144:5125:-157.694,0,-642.674 0/1:895:683,212:683:24239:212:7487:-169.586,0,-1116.46 0/1:781:473,308:473:16766:308:10954:-631.152,0,-936.601 0/1:1208:624,584:624:22150:584:20726:-980.348,0,-1101.52 0/1:1411:761,649:761:27095:649:23125:-1437.97,0,-1462.5 0/1:842:480,361:480:17039:361:12860:-536.782,0,-608.752 0/1:637:410,227:410:14571:227:8076:-315.196,0,-548.829 0/1:1223:972,251:972:34392:251:8944:-151.44,0,-1563.34 0/1:547:389,158:389:13809:158:5566:-192.78,0,-637.023 0/1:532:402,130:402:14203:130:4635:-160.815,0,-680.666 0/1:613:398,215:398:14037:215:7610:-370.607,0,-671.98 0/1:365:250,115:250:8798:115:4065:-123.988,0,-376.136 0/1:820:559,261:559:19848:261:9221:-366.956,0,-728.59 0/1:256:169,87:169:5940:87:3115:-68.1693,0,-217.087 chr07 15364650 . T C 7842.63 PASS AB=0.398483;ABP=475.194;AC=22;AF=0.52381;AN=42;AO=2110;CIGAR=1X;DP=5285;DPB=5285;DPRA=0;EPP=4584.82;EPPR=6893.09;GTI=7;LEN=1;MEANALT=1.09524;MQM=22.8953;MQMR=17.4661;NS=21;NUMALT=1;ODDS=2.5604;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75225;QR=112978;RO=3173;RPL=2110;RPP=4584.82;RPPR=6893.09;RPR=0;RUN=1;SAF=0;SAP=4584.82;SAR=2110;SRF=0;SRP=6893.09;SRR=3173;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:384:255,129:255:9098:129:4594:-149.96,0,-288.873 0/1:252:161,91:161:5711:91:3253:-92.9113,0,-164.702 0/1:153:81,72:81:2869:72:2529:-101.057,0,-77.5637 0/1:342:231,111:231:8224:111:3992:-128.198,0,-283.759 0/1:689:451,238:451:16075:238:8399:-277.589,0,-488.903 0/1:159:92,67:92:3276:67:2396:-76.5582,0,-72.4542 0/1:322:163,159:163:5774:159:5700:-201.317,0,-117.667 0/1:208:113,95:113:4048:95:3374:-105.44,0,-101.063 0/1:330:205,125:205:7308:125:4427:-183.765,0,-272.343 0/1:42:27,15:27:945:15:536:-15.7068,0,-22.5593 1/1:10:2,8:2:72:8:284:-13.4861,-1.11216,0 0/1:47:23,24:23:809:24:864:-30.5761,0,-17.1459 0/1:302:216,86:216:7700:86:3061:-87.4228,0,-216.138 0/1:252:170,81:170:6077:81:2889:-93.5351,0,-193.278 0/1:621:292,329:292:10344:329:11768:-497.237,0,-299.805 0/1:233:137,95:137:4839:95:3389:-147.009,0,-183.267 0/1:208:103,105:103:3684:105:3749:-177.66,0,-136.68 0/1:166:85,81:85:3056:81:2903:-101.071,0,-70.185 0/1:173:102,71:102:3652:71:2541:-95.4304,0,-100.764 0/1:276:185,91:185:6593:91:3253:-92.5964,0,-182.968 0/1:116:79,37:79:2824:37:1324:-37.2487,0,-69.27 chr07 15438384 . T A 5912.55 PASS AB=0.499018;ABP=3.01457;AC=10;AF=0.238095;AN=42;AO=332;CIGAR=1X;DP=1601;DPB=1601;DPRA=1.09287;EPP=689.614;EPPR=2663.89;GTI=0;LEN=1;MEANALT=1;MQM=59.9337;MQMR=59.9992;NS=21;NUMALT=1;ODDS=16.2923;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11836;QR=45252;RO=1269;RPL=328;RPP=689.614;RPPR=2663.89;RPR=4;RUN=1;SAF=0;SAP=723.939;SAR=332;SRF=0;SRP=2758.61;SRR=1269;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:72,0:72:2556:0:0:0,-21.6742,-230.291 0/0:49:49,0:49:1744:0:0:0,-14.7505,-157.244 0/0:100:100,0:100:3564:0:0:0,-30.103,-320.969 0/0:106:105,1:105:3744:1:36:0,-28.3109,-333.564 0/0:92:91,1:91:3248:1:36:0,-24.0965,-288.944 0/0:72:71,1:71:2544:1:36:0,-18.0759,-225.612 0/0:128:128,0:128:4568:0:0:0,-38.5318,-411.287 1/1:69:0,69:0:0:69:2463:-221.924,-20.7711,0 0/1:88:42,46:42:1500:46:1652:-122.478,0,-108.804 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:43:26,17:26:924:17:608:-42.1077,0,-70.5334 0/1:111:55,56:55:1968:56:1989:-145.868,0,-143.981 0/0:113:112,1:112:4008:1:36:0,-30.4181,-357.311 0/1:42:15,27:15:513:27:968:-74.7941,0,-33.8496 0/1:48:22,26:22:792:26:936:-70.11,0,-57.1562 0/0:112:111,1:111:3948:1:32:0,-30.516,-352.315 0/1:92:45,47:45:1595:47:1664:-122.339,0,-116.145 0/1:77:48,29:48:1712:29:1035:-70.2838,0,-131.186 0/0:127:124,3:124:4432:3:108:0,-28.1556,-388.977 0/0:45:44,1:44:1568:1:21:0,-11.4464,-139.311 chr07 15653668 . C T 8844.54 PASS AB=0.477076;ABP=6.694;AC=10;AF=0.238095;AN=42;AO=501;CIGAR=1X;DP=2159;DPB=2159;DPRA=1.15053;EPP=1090.92;EPPR=3594.63;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9142;MQMR=59.9946;NS=21;NUMALT=1;ODDS=25.9437;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17846;QR=58368;RO=1654;RPL=501;RPP=1090.92;RPPR=3594.63;RPR=0;RUN=1;SAF=501;SAP=1090.92;SAR=0;SRF=1654;SRP=3594.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:97:97,0:97:3424:0:0:0,-29.1999,-308.375 0/0:84:84,0:84:2970:0:0:0,-25.2865,-267.531 0/0:150:148,0:148:5267:0:0:0,-44.5524,-473.807 0/0:67:67,0:67:2345:0:0:0,-20.169,-211.306 0/0:175:173,1:173:6136:1:36:0,-49.0659,-548.818 0/0:112:112,0:112:3932:0:0:0,-33.7154,-354.075 0/0:131:130,1:130:4585:1:36:0,-35.8367,-409.211 1/1:112:0,112:0:0:112:3985:-358.839,-33.7154,0 0/1:190:92,98:92:3240:98:3496:-257.649,0,-234.627 0/1:29:16,13:16:559:13:459:-32.9142,0,-41.9077 0/0:27:26,0:26:927:0:0:0,-7.82678,-83.3877 0/1:61:23,38:23:803:38:1347:-103.167,0,-54.2255 0/1:121:63,58:63:2253:58:2072:-150.312,0,-166.607 0/0:150:150,0:150:5282:0:0:0,-45.1545,-475.52 0/1:200:110,90:110:3873:90:3219:-229.725,0,-288.56 0/1:78:41,37:41:1463:37:1302:-93.9974,0,-108.485 0/0:109:109,0:109:3822:0:0:0,-32.8123,-344.178 0/1:83:46,37:46:1625:37:1322:-94.2936,0,-121.551 0/1:45:31,14:31:1090:14:500:-31.788,0,-84.8616 0/0:82:80,2:80:2793:2:72:0,-17.8477,-244.771 0/0:56:56,0:56:1979:0:0:0,-16.8577,-178.384 chr07 15710259 . A G 31421.5 PASS AB=0.552354;ABP=61.6718;AC=13;AF=0.309524;AN=42;AO=1367;CIGAR=1X;DP=3719;DPB=3719;DPRA=2.03132;EPP=2971.41;EPPR=5108.14;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.9554;MQMR=59.7563;NS=21;NUMALT=1;ODDS=8.77997;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48330;QR=83724;RO=2351;RPL=754;RPP=34.5912;RPPR=32.6046;RPR=613;RUN=1;SAF=754;SAP=34.5912;SAR=613;SRF=1265;SRP=32.6046;SRR=1086;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:195:91,104:91:3232:104:3687:-273.332,0,-232.376 0/1:143:67,76:67:2396:76:2684:-198.758,0,-172.822 0/1:190:63,127:63:2232:127:4506:-348.516,0,-143.939 0/1:255:118,137:118:4211:137:4894:-363.85,0,-302.359 0/1:261:101,160:101:3562:160:5630:-428.211,0,-242.195 0/1:119:46,73:46:1640:73:2579:-196.538,0,-112.049 0/1:211:99,112:99:3516:112:3958:-292.877,0,-252.413 0/1:232:101,131:101:3588:131:4594:-343.743,0,-253.243 0/1:337:140,197:140:4987:197:6990:-527.718,0,-347.533 0/1:22:8,14:8:288:14:489:-37.7162,0,-19.6447 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/0:59:59,0:59:2061:0:0:0,-17.7608,-185.758 0/0:280:279,1:279:9902:1:36:0,-80.6901,-887.394 0/0:213:213,0:213:7596:0:0:0,-64.1194,-683.517 0/0:257:256,1:256:9147:1:36:0,-73.7664,-819.498 0/0:137:136,1:136:4855:1:36:0,-37.6428,-433.222 0/1:123:46,77:46:1652:77:2713:-207.387,0,-111.913 0/1:182:86,96:86:3076:96:3389:-250.441,0,-222.259 0/1:194:137,57:137:4889:57:2001:-121.962,0,-381.67 0/0:168:167,1:167:5963:1:36:0,-46.9748,-533.18 0/0:131:128,2:128:4579:2:72:0,-32.657,-405.068 chr07 15710288 . C T 24315.4 PASS AB=0.460069;ABP=18.9646;AC=29;AF=0.690476;AN=42;AO=1138;CIGAR=1X;DP=1763;DPB=1763;DPRA=0;EPP=2090.75;EPPR=1145.25;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.3691;MQMR=59.926;NS=21;NUMALT=1;ODDS=2.25608;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40777;QR=22084;RO=622;RPL=1092;RPP=2090.75;RPPR=1145.25;RPR=46;RUN=1;SAF=0;SAP=2474.15;SAR=1138;SRF=0;SRP=1353.67;SRR=622;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:56,49:56:1982:49:1755:-126.261,0,-146.684 0/1:59:36,23:36:1279:23:820:-56.3333,0,-97.6517 0/1:107:73,34:73:2607:34:1224:-78.2392,0,-202.668 0/1:81:50,29:50:1787:29:1036:-69.368,0,-136.971 0/1:120:63,57:63:2247:57:2044:-148.099,0,-166.362 0/1:41:22,19:22:784:19:684:-49.5304,0,-58.5417 0/1:146:77,69:77:2697:69:2480:-178.774,0,-199.003 0/1:91:51,40:51:1815:40:1407:-99.5012,0,-136.237 0/1:141:73,68:73:2596:68:2444:-177.769,0,-191.443 0/1:13:9,4:9:320:4:140:-8.94185,0,-25.229 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:35:0,35:0:0:35:1252:-112.985,-10.5361,0 1/1:130:0,130:0:0:130:4676:-420.836,-39.1339,0 1/1:119:0,119:0:0:119:4273:-384.594,-35.8226,0 1/1:94:1,93:1:36:93:3348:-297.803,-24.6985,0 1/1:78:2,76:2:72:76:2712:-237.196,-16.6436,0 0/1:64:37,27:37:1328:27:972:-68.4751,0,-100.556 0/1:83:45,38:45:1562:38:1368:-98.3665,0,-115.881 0/1:100:27,73:27:972:73:2612:-205.113,0,-57.6949 1/1:73:0,73:0:0:73:2608:-234.968,-21.9752,0 1/1:74:0,74:0:0:74:2634:-236.541,-22.2762,0 chr07 15760996 . CG TA,CA 62295.6 PASS AB=0.466052,0.533948;ABP=14.9525,14.9525;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2074,773;CIGAR=2X,1M1X;DP=2852;DPB=2852;DPRA=1.05543,1.16495;EPP=4199.38,1587.37;EPPR=9.52472;GTI=0;LEN=2,1;MEANALT=1.65,2;MQM=59.8973,59.9133;MQMR=60;NS=21;NUMALT=2;ODDS=0.469964;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72325,27696;QR=108;RO=3;RPL=2038,762;RPP=4199.38,1587.37;RPPR=9.52472;RPR=36,11;RUN=1,1;SAF=0,0;SAP=4506.64,1681.56;SAR=2074,773;SRF=0;SRP=9.52472;SRR=3;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,121,1:0:0:121,1:4189,36:-376.886,-36.4246,0,-373.948,-33.4323,-373.647 1/1:137:0,137,0:0:0:137,0:4776,0:-429.994,-41.2411,0,-429.994,-41.2411,-429.994 1/1:120:0,120,0:0:0:120,0:4195,0:-377.729,-36.1236,0,-377.729,-36.1236,-377.729 1/1:178:0,177,1:0:0:177,1:6142,36:-552.537,-53.2823,0,-549.599,-49.9851,-549.298 1/1:216:0,215,0:0:0:215,0:7487,0:-673.639,-64.7215,0,-673.639,-64.7215,-673.639 1/1:125:3,122,0:3:108:122,0:4283,0:-375.541,-27.5536,0,-376.444,-36.7257,-385.256 1/1:198:0,198,0:0:0:198,0:6884,0:-619.639,-59.6039,0,-619.639,-59.6039,-619.639 2/2:129:0,0,129:0:0:0,129:0,4632:-417.041,-417.041,-417.041,-38.8329,-38.8329,0 1/2:324:0,146,178:0:0:146,178:5078,6373:-932.943,-520.073,-476.123,-413.221,0,-359.638 1/2:20:0,8,12:0:0:8,12:286,432:-58.9215,-35.6026,-33.1944,-23.6772,0,-20.0649 1/1:7:0,7,0:0:0:7,0:239,0:-21.8424,-2.10721,0,-21.8424,-2.10721,-21.8424 1/2:57:0,31,26:0:0:31,26:1099,932:-165.885,-76.3721,-67.0401,-89.8698,0,-82.043 1/2:155:0,85,70:0:0:85,70:2978,2501:-446.537,-204.269,-178.681,-242.623,0,-221.55 1/1:126:0,126,0:0:0:126,0:4392,0:-395.46,-37.9298,0,-395.46,-37.9298,-395.46 1/2:319:0,123,196:0:0:123,196:4319,7014:-923.824,-572.317,-535.291,-351.86,0,-292.858 1/2:164:0,65,99:0:0:65,99:2249,3556:-471.723,-288.977,-269.41,-183.096,0,-153.294 1/1:133:0,133,0:0:0:133,0:4624,0:-416.331,-40.037,0,-416.331,-40.037,-416.331 1/2:93:0,50,43:0:0:50,43:1752,1540:-268.499,-125.949,-110.897,-142.905,0,-129.96 1/2:61:0,48,13:0:0:48,13:1695,464:-176.214,-38.1841,-23.7347,-138.386,0,-134.472 1/1:112:0,107,5:0:0:107,5:3719,180:-334.557,-32.2102,0,-319.869,-17.1633,-318.364 1/1:55:0,55,0:0:0:55,0:1939,0:-174.734,-16.5567,0,-174.734,-16.5567,-174.734 chr07 15761023 . GTT GTG,ATG 60468.7 PASS AB=0.461735,0.538265;ABP=17.9669,17.9669;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2017,770;CIGAR=2M1X,1X1M1X;DP=2790;DPB=2790;DPRA=1.01489,1.11676;EPP=4382.87,1675.04;EPPR=9.52472;GTI=1;LEN=1,3;MEANALT=1.5,1.90909;MQM=59.8964,59.9156;MQMR=60;NS=21;NUMALT=2;ODDS=1.84224;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72263,27296;QR=103;RO=3;RPL=2017,770;RPP=4382.87,1675.04;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4382.87,1675.04;SAR=2017,770;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,120,1:0:0:120,1:4290,36:-385.428,-36.1236,0,-382.491,-32.8264,-382.19 1/1:129:0,129,0:0:0:129,0:4628,0:-416.637,-38.8329,0,-416.637,-38.8329,-416.637 1/1:118:0,118,0:0:0:118,0:4224,0:-380.295,-35.5215,0,-380.295,-35.5215,-380.295 1/1:169:0,169,0:0:0:169,0:6076,0:-546.939,-50.8741,0,-546.939,-50.8741,-546.939 1/1:213:0,213,0:0:0:213,0:7644,0:-687.978,-64.1194,0,-687.978,-64.1194,-687.978 1/1:123:3,120,0:3:103:120,0:4304,0:-377.864,-27.4171,0,-378.767,-36.1236,-387.13 1/1:196:0,196,0:0:0:196,0:7032,0:-632.926,-59.0019,0,-632.926,-59.0019,-632.926 2/2:131:0,0,131:0:0:0,131:0,4612:-415.247,-415.247,-415.247,-39.4349,-39.4349,0 1/2:322:0,145,177:0:0:145,177:5171,6261:-931.835,-510.309,-466.659,-421.881,0,-368.599 1/2:20:0,8,12:0:0:8,12:288,422:-58.2041,-34.7014,-32.2932,-23.8592,0,-20.2468 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:55:0,30,25:0:0:30,25:1076,895:-161.108,-73.3443,-64.3134,-88.122,0,-80.5962 1/2:154:0,82,72:0:0:82,72:2952,2574:-451.024,-210.235,-185.55,-241.147,0,-219.473 1/1:117:0,117,0:0:0:117,0:4196,0:-377.821,-35.2205,0,-377.821,-35.2205,-377.821 1/2:317:0,125,192:0:0:125,192:4480,6839:-923.16,-557.784,-520.155,-365.734,0,-307.936 1/2:161:0,61,100:0:0:61,100:2176,3543:-465.59,-288.258,-269.895,-177.687,0,-147.584 1/1:129:0,129,0:0:0:129,0:4608,0:-414.885,-38.8329,0,-414.885,-38.8329,-414.885 1/2:89:0,46,43:0:0:46,43:1640,1526:-258.368,-124.687,-110.84,-134.037,0,-121.092 1/2:58:0,46,12:0:0:46,12:1648,410:-168.03,-33.6137,-19.7663,-134.761,0,-131.149 1/1:110:0,105,5:0:0:105,5:3750,178:-337.344,-31.6082,0,-322.836,-16.7447,-321.331 1/1:52:0,52,0:0:0:52,0:1864,0:-167.986,-15.6536,0,-167.986,-15.6536,-167.986 chr07 15810894 . C A 43564.3 PASS AB=0.495292;ABP=3.21477;AC=32;AF=0.761905;AN=42;AO=2013;CIGAR=1X;DP=2674;DPB=2674;DPRA=1.13319;EPP=4304.97;EPPR=1390.91;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9762;MQMR=60;NS=21;NUMALT=1;ODDS=11.8593;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72144;QR=23514;RO=659;RPL=8;RPP=4304.97;RPPR=1390.91;RPR=2005;RUN=1;SAF=0;SAP=4374.18;SAR=2013;SRF=0;SRP=1434.01;SRR=659;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106:0:0:106:3779:-340.309,-31.9092,0 1/1:65:0,65:0:0:65:2324:-209.42,-19.567,0 1/1:195:0,195:0:0:195:6982:-628.44,-58.7009,0 1/1:138:0,138:0:0:138:4960:-446.547,-41.5421,0 1/1:181:0,181:0:0:181:6501:-585.158,-54.4864,0 1/1:78:0,78:0:0:78:2770:-249.54,-23.4803,0 1/1:263:2,261:2:72:261:9338:-833.546,-72.3342,0 0/0:113:113,0:113:4015:0:0:0,-34.0164,-361.536 0/1:286:154,132:154:5487:132:4740:-340.656,0,-407.86 0/1:26:12,14:12:432:14:504:-37.8713,0,-31.3944 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:49:25,24:25:900:24:864:-63.3321,0,-66.5705 0/1:66:36,30:36:1277:30:1080:-77.6453,0,-95.3631 1/1:145:1,144:1:36:144:5168:-461.531,-40.0511,0 0/1:326:173,152:173:6185:152:5456:-393.121,0,-458.701 0/1:49:23,26:23:828:26:932:-69.4484,0,-60.0936 1/1:69:0,69:0:0:69:2466:-222.194,-20.7711,0 0/1:144:69,75:69:2480:75:2673:-197.466,0,-180.105 0/1:116:43,73:43:1514:73:2628:-201.847,0,-101.63 1/1:155:7,147:7:252:147:5283:-452.592,-23.5584,0 1/1:94:1,93:1:36:93:3336:-296.859,-24.6985,0 chr07 15811026 . C A 3495.13 PASS AB=0.268313;ABP=550.384;AC=9;AF=0.214286;AN=42;AO=321;CIGAR=1X;DP=2680;DPB=2680;DPRA=1.47345;EPP=700.053;EPPR=5123.34;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.09791;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11499;QR=84268;RO=2358;RPL=321;RPP=700.053;RPPR=5123.34;RPR=0;RUN=1;SAF=0;SAP=700.053;SAR=321;SRF=0;SRP=5123.34;SRR=2358;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:165:165,0:165:5908:0:0:0,-49.6699,-531.829 0/0:146:146,0:146:5224:0:0:0,-43.9504,-470.298 0/0:108:108,0:108:3856:0:0:0,-32.5112,-347.237 0/0:101:101,0:101:3604:0:0:0,-30.404,-324.567 0/0:306:305,1:305:10909:1:36:0,-88.5169,-978.11 0/0:41:41,0:41:1463:0:0:0,-12.3422,-131.965 0/0:190:187,3:187:6688:3:104:0,-47.4929,-592.292 0/1:136:64,72:64:2289:72:2584:-191.869,0,-165.33 0/1:221:178,43:178:6367:43:1532:-71.6455,0,-506.592 0/1:22:15,7:15:540:7:252:-16.4063,0,-42.3139 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/1:72:65,7:65:2336:7:243:-0.533322,0,-188.825 0/1:137:96,41:96:3436:41:1464:-90.8149,0,-268.212 0/0:126:125,0:125:4449:0:0:0,-37.6287,-400.222 0/1:256:197,59:197:7056:59:2124:-114.365,0,-558.037 0/1:101:64,37:64:2280:37:1332:-89.7784,0,-175.058 0/0:131:131,0:131:4675:0:0:0,-39.4349,-420.912 0/1:114:84,30:84:2985:30:1076:-62.8354,0,-234.564 0/1:115:96,19:96:3443:19:684:-27.2719,0,-275.463 0/0:106:104,2:104:3697:2:68:0,-25.4515,-326.475 0/0:75:75,0:75:2675:0:0:0,-22.5772,-240.995 chr07 15920839 . T C 45952.8 PASS AB=0.536354;ABP=13.9043;AC=32;AF=0.761905;AN=42;AO=2056;CIGAR=1X;DP=2622;DPB=2622;DPRA=1.02459;EPP=4202.35;EPPR=1182.51;GTI=0;LEN=1;MEANALT=1.15;MQM=59.7461;MQMR=59.9929;NS=21;NUMALT=1;ODDS=10.5782;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73597;QR=19767;RO=563;RPL=2025;RPP=4202.35;RPPR=1173.99;RPR=31;RUN=1;SAF=0;SAP=4467.56;SAR=2056;SRF=1;SRP=1216.88;SRR=562;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:171:0,171:0:0:171:6133:-552.047,-51.4761,0 1/1:133:0,132:0:0:132:4752:-427.424,-39.736,0 1/1:131:0,131:0:0:131:4707:-423.689,-39.4349,0 1/1:95:0,95:0:0:95:3412:-307.289,-28.5979,0 1/1:255:0,255:0:0:255:9114:-820.214,-76.7627,0 1/1:208:0,208:0:0:208:7472:-672.426,-62.6142,0 1/1:182:1,180:1:36:180:6443:-576.199,-51.248,0 0/0:122:122,0:122:4318:0:0:0,-36.7257,-388.798 0/1:252:120,132:120:4251:132:4733:-350.263,0,-306.908 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:54:26,28:26:932:28:1008:-74.7761,0,-67.9432 0/1:146:68,78:68:2353:78:2804:-208.649,0,-168.072 1/1:107:0,107:0:0:107:3802:-342.352,-32.2102,0 0/1:186:73,112:73:2541:112:3981:-302.486,0,-173.03 0/1:134:76,58:76:2679:58:2088:-147.849,0,-201.014 1/1:141:0,141:0:0:141:5038:-453.555,-42.4452,0 0/1:84:44,40:44:1550:40:1413:-102.159,0,-114.501 0/1:78:27,51:27:891:51:1821:-140.687,0,-57.0105 1/1:63:1,62:1:36:62:2207:-195.276,-15.3666,0 1/1:59:0,59:0:0:59:2097:-188.972,-17.7608,0 chr07 16062516 . C T 24471 PASS AB=0.530271;ABP=6.82284;AC=32;AF=0.761905;AN=42;AO=904;CIGAR=1X;DP=1175;DPB=1175;DPRA=1.41875;EPP=16.164;EPPR=44.7026;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9757;MQMR=59.9963;NS=21;NUMALT=1;ODDS=8.99494;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32015;QR=9419;RO=270;RPL=7;RPP=1905.69;RPPR=572.065;RPR=897;RUN=1;SAF=422;SAP=11.6578;SAR=482;SRF=101;SRP=40.1988;SRR=169;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,55:0:0:55:1935:-174.064,-16.5567,0 1/1:88:0,88:0:0:88:3124:-281.388,-26.4906,0 1/1:24:0,24:0:0:24:852:-77.0004,-7.22472,0 1/1:34:0,34:0:0:34:1224:-110.467,-10.235,0 1/1:90:1,89:1:36:89:3142:-279.407,-23.4944,0 1/1:43:1,42:1:36:42:1490:-130.796,-9.34602,0 1/1:68:2,66:2:72:66:2314:-201.682,-13.6333,0 0/0:40:40,0:40:1414:0:0:0,-12.0412,-127.556 0/1:50:21,29:21:733:29:1036:-78.5024,0,-51.2382 0/1:9:4,5:4:144:5:176:-13.4757,0,-10.6043 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:30:9,21:9:324:21:744:-58.2534,0,-20.475 0/1:53:35,18:35:1252:18:644:-42.336,0,-97.0305 1/1:41:0,41:0:0:41:1441:-129.985,-12.3422,0 0/1:62:32,30:32:1111:30:1072:-78.1286,0,-81.6296 0/1:56:26,30:26:903:30:1067:-79.4835,0,-64.7233 1/1:55:0,55:0:0:55:1943:-175.143,-16.5567,0 0/1:132:65,67:65:2221:67:2357:-172.652,0,-160.414 0/1:87:33,54:33:1137:54:1901:-145.176,0,-76.4435 1/1:62:1,61:1:36:61:2167:-191.699,-15.0656,0 1/1:91:0,91:0:0:91:3242:-291.914,-27.3937,0 chr07 16320932 . TAGAGGCA TAGAGGGGCA,TAGAGAGGCA 38504 PASS AB=0.455446,0.528465;ABP=16.9421,8.69698;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1501,475;CIGAR=4M2I4M,1M2I7M;DP=2020;DPB=2523.12;DPRA=2.19444,0.73873;EPP=3262.39,1025.79;EPPR=5.18177;GTI=1;LEN=2,2;MEANALT=3.3,3.23077;MQM=60,60;MQMR=60;NS=21;NUMALT=2;ODDS=5.70914;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48866,16700;QR=36;RO=1;RPL=0,1;RPP=3262.39,1025.79;RPPR=5.18177;RPR=1501,474;RUN=1,1;SAF=0,0;SAP=3262.39,1034.46;SAR=1501,475;SRF=0;SRP=5.18177;SRR=1;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,53,1:0:0:53,1:1660,36:-149.308,-15.9546,0,-146.369,-12.6573,-146.068 1/1:111:0,106,0:0:0:106,0:3599,0:-323.817,-31.9092,0,-323.817,-31.9092,-323.817 1/1:76:0,74,0:0:0:74,0:2435,0:-219.085,-22.2762,0,-219.085,-22.2762,-219.085 1/1:98:0,96,0:0:0:96,0:3118,0:-280.487,-28.8989,0,-280.487,-28.8989,-280.487 1/1:229:0,224,0:0:0:224,0:7332,0:-659.655,-67.4307,0,-659.655,-67.4307,-659.655 1/1:101:0,97,2:0:0:97,2:3162,72:-284.453,-29.1999,0,-278.577,-23.3226,-277.975 1/1:153:0,152,0:0:0:152,0:4916,0:-442.25,-45.7566,0,-442.25,-45.7566,-442.25 2/2:45:0,0,44:0:0:0,44:0,1530:-137.67,-137.67,-137.67,-13.2453,-13.2453,0 1/2:213:0,103,107:0:0:103,107:3381,3789:-581.815,-308.654,-277.648,-273.156,0,-240.946 1/2:14:0,8,6:0:0:8,6:267,208:-38.859,-17.2529,-14.8447,-21.9471,0,-20.141 1/2:9:0,7,1:0:0:7,1:219,36:-20.4969,-2.93742,-0.830207,-17.5549,0,-17.2539 1/2:31:0,11,20:0:0:11,20:362,712:-87.6346,-58.3861,-55.0747,-29.587,0,-23.5664 1/2:172:0,69,99:0:0:69,99:2255,3477:-465.109,-283.011,-262.24,-182.103,0,-152.301 1/1:104:0,100,0:0:0:100,0:3301,0:-297,-30.103,0,-297,-30.103,-297 1/2:62:0,27,34:0:0:27,34:871,1216:-169.462,-99.2391,-91.1113,-70.288,0,-60.053 1/2:145:0,58,85:0:0:58,85:1916,2974:-396.924,-242.015,-224.555,-154.956,0,-129.368 1/1:105:0,101,0:0:0:101,0:3255,0:-292.856,-30.404,0,-292.856,-30.404,-292.856 1/2:92:0,42,48:0:0:42,48:1301,1683:-241.372,-136.976,-124.332,-104.396,0,-89.9461 1/2:70:0,43,27:0:0:43,27:1378,931:-186.998,-75.9738,-63.0295,-111.359,0,-103.231 1/1:94:0,89,1:0:0:89,1:2874,36:-258.537,-26.7917,0,-255.599,-23.8543,-255.298 1/1:42:1,41,0:1:36:41,0:1264,0:-110.439,-9.04499,0,-110.74,-12.3422,-113.679 chr07 16401734 . ACCGT ACCGG,TCCGG 60498.3 PASS AB=0.54157,0.451501;ABP=16.009,20.703;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2151,548;CIGAR=4M1X,1X3M1X;DP=2715;DPB=2715;DPRA=0,0.855363;EPP=4374.79,1025.6;EPPR=6.91895;GTI=0;LEN=1,5;MEANALT=2.14286,2.46154;MQM=59.9888,59.9471;MQMR=60;NS=21;NUMALT=2;ODDS=5.05247;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76120,19197;QR=136;RO=5;RPL=2116,528;RPP=4374.79,1025.6;RPPR=6.91895;RPR=35,20;RUN=1,1;SAF=0,0;SAP=4673.85,1192.98;SAR=2151,548;SRF=0;SRP=13.8677;SRR=5;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:0,129,0:0:0:129,0:4520,0:-406.975,-38.8329,0,-406.975,-38.8329,-406.975 1/1:151:1,148,2:1:20:148,2:5237,62:-469.399,-43.0902,0,-464.724,-39.5022,-465.62 1/1:161:1,157,3:1:26:157,3:5548,108:-496.776,-45.2479,0,-488.265,-38.3746,-489.4 1/1:190:0,190,0:0:0:190,0:6741,0:-606.771,-57.1957,0,-606.771,-57.1957,-606.771 1/1:213:0,210,0:0:0:210,0:7366,0:-662.663,-63.2163,0,-662.663,-63.2163,-662.663 1/1:106:0,105,0:0:0:105,0:3739,0:-336.352,-31.6082,0,-336.352,-31.6082,-336.352 1/1:340:0,339,0:0:0:339,0:12050,0:-1084.08,-102.049,0,-1084.08,-102.049,-1084.08 2/2:150:0,1,148:0:0:1,148:36,5179:-465.947,-463.01,-462.709,-44.5524,-41.57,0 1/2:259:0,146,112:0:0:146,112:5162,3929:-740.179,-319.754,-275.804,-420.488,0,-386.773 1/2:16:0,11,5:0:0:11,5:392,179:-46.9066,-14.9552,-11.6439,-32.3087,0,-30.8036 1/1:12:0,12,0:0:0:12,0:419,0:-38.0427,-3.61236,0,-38.0427,-3.61236,-38.0427 1/2:21:0,8,13:0:0:8,13:279,441:-58.7955,-36.1011,-33.6929,-23.0393,0,-19.1259 1/2:83:0,47,35:0:0:47,35:1667,1219:-234.943,-99.1253,-84.9769,-135.818,0,-125.282 1/1:143:1,140,2:1:31:140,2:4954,55:-442.917,-39.6441,0,-438.872,-37.8204,-440.758 1/2:189:1,83,105:1:36:83,105:2963,3695:-539.111,-297.849,-275.801,-238.62,0,-209.95 1/2:121:0,69,52:0:0:69,52:2435,1829:-347.52,-149.237,-128.466,-198.635,0,-182.982 1/1:97:0,97,0:0:0:97,0:3438,0:-309.634,-29.1999,0,-309.634,-29.1999,-309.634 1/2:92:0,45,46:0:0:45,46:1578,1624:-260.652,-132.241,-118.695,-128.403,0,-114.556 1/2:85:0,60,23:0:0:60,23:2126,805:-238.745,-65.5465,-47.4847,-173.25,0,-166.326 1/1:108:1,105,2:1:23:105,2:3746,72:-334.954,-29.8825,0,-329.381,-25.6468,-330.546 1/1:49:0,49,0:0:0:49,0:1724,0:-155.441,-14.7505,0,-155.441,-14.7505,-155.441 chr07 16870300 . TG AA,GA 4683.81 PASS AB=0.493881,0.490385;ABP=3.38234,3.929;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1643,709;CIGAR=2X,2X;DP=2380;DPB=2380;DPRA=1.69708,0.931373;EPP=3570.74,1542.58;EPPR=13.8677;GTI=10;LEN=2,2;MEANALT=2.36842,2.47059;MQM=13.1211,13.0451;MQMR=39.8;NS=21;NUMALT=2;ODDS=57.4621;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58557,24989;QR=180;RO=5;RPL=1643,709;RPP=3570.74,1542.58;RPPR=13.8677;RPR=0,0;RUN=1,1;SAF=1643,709;SAP=3570.74,1542.58;SAR=0,0;SRF=5;SRP=13.8677;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:104:0,50,52:0:0:50,52:1790,1810:-88.3263,-44.9791,-29.9276,-43.1881,0,-27.5345 1/2:89:1,37,50:1:36:37,50:1300,1723:-73.4595,-40.2874,-32.0462,-30.3677,0,-18.2143 1/2:86:0,43,42:0:0:43,42:1542,1493:-73.7064,-36.4233,-23.4791,-37.3125,0,-24.6692 1/1:172:1,171,0:1:36:171,0:6105,0:-199.646,-48.1789,0,-199.947,-51.4761,-202.886 1/1:279:1,274,4:1:36:274,4:9748,144:-319.159,-81.2501,0,-315.991,-79.0455,-316.012 1/1:154:0,150,1:0:0:150,1:5360,34:-178.281,-45.1545,0,-177.415,-44.3159,-177.114 1/2:223:1,114,103:1:36:114,103:4047,3665:-185.206,-86.2076,-54.8296,-96.1535,0,-68.0866 2/2:134:0,0,134:0:0:0,134:0,4725:-156.785,-156.785,-156.785,-40.338,-40.338,0 1/2:228:0,92,131:0:0:92,131:3271,4605:-195.016,-114.079,-86.3845,-80.8083,0,-41.3734 2/2:5:0,0,5:0:0:0,5:0,180:-5.97051,-5.97051,-5.97051,-1.50515,-1.50515,0 1/2:6:0,3,3:0:0:3,3:108,108:-5.33248,-2.73113,-1.82804,-2.73113,0,-1.82804 1/2:39:0,17,22:0:0:17,22:591,788:-35.1613,-20.4549,-15.3374,-14.8388,0,-8.21617 1/2:131:0,73,58:0:0:73,58:2608,2043:-114.433,-50.4373,-28.4621,-64.1257,0,-46.666 1/2:117:1,61,54:1:36:61,54:2141,1909:-98.4667,-45.5308,-28.3929,-51.9941,0,-36.9632 1/1:146:0,146,0:0:0:146,0:5234,0:-170.667,-43.9504,0,-170.667,-43.9504,-170.667 1/1:99:0,97,0:0:0:97,0:3459,0:-113.158,-29.1999,0,-113.158,-29.1999,-113.158 1/1:64:0,61,2:0:0:61,2:2183,64:-72.347,-18.3628,0,-70.6226,-16.7166,-70.0205 1/2:50:0,25,25:0:0:25,25:887,887:-43.4414,-21.7856,-14.2598,-21.7856,0,-14.2598 1/2:71:0,50,21:0:0:50,21:1781,741:-61.6232,-18.3043,-3.2528,-43.4485,0,-37.1269 1/1:120:0,116,2:0:0:116,2:4142,70:-136.93,-34.9195,0,-135.197,-33.2966,-134.595 1/1:63:0,63,0:0:0:63,0:2260,0:-76.5269,-18.9649,0,-76.5269,-18.9649,-76.5269 chr07 16870327 . G A 109995 PASS AB=0.518222;ABP=32.5281;AC=21;AF=0.5;AN=42;AO=5304;CIGAR=1X;DP=10235;DPB=10235;DPRA=0;EPP=2341.56;EPPR=10509.5;GTI=0;LEN=1;MEANALT=1.04762;MQM=48.5675;MQMR=33.5773;NS=21;NUMALT=1;ODDS=88.0435;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=188995;QR=175622;RO=4930;RPL=0;RPP=11520.5;RPPR=10708.4;RPR=5304;RUN=1;SAF=1457;SAP=2341.56;SAR=3847;SRF=23;SRP=10509.5;SRR=4907;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:515:141,374:141:4998:374:13327:-986.113,0,-213.923 0/1:307:82,225:82:2936:225:8040:-558.276,0,-124.58 0/1:476:275,201:275:9809:201:7196:-478.913,0,-628.122 0/1:514:276,238:276:9796:238:8474:-569.876,0,-621.427 0/1:1054:445,609:445:15839:609:21631:-1517.42,0,-922.468 0/1:229:131,98:131:4656:98:3511:-219.646,0,-294.163 0/1:590:355,235:355:12626:235:8365:-507.015,0,-788.326 0/1:688:381,307:381:13578:307:10925:-733.713,0,-832.254 0/1:851:479,372:479:17092:372:13243:-902.792,0,-967.12 0/1:136:70,66:70:2503:66:2348:-164.726,0,-145.86 0/1:47:33,14:33:1176:14:500:-25.6699,0,-62.9635 0/1:137:62,75:62:2232:75:2685:-190.299,0,-118.43 0/1:448:116,332:116:4119:332:11882:-906.308,0,-175.737 0/1:555:282,273:282:10020:273:9736:-664.764,0,-630.7 0/1:1181:605,576:605:21616:576:20558:-1430.47,0,-1336.83 0/1:558:270,287:270:9607:287:10208:-725.433,0,-496.71 0/1:426:180,246:180:6377:246:8755:-632.437,0,-331.896 0/1:586:342,244:342:12178:244:8637:-560.295,0,-756.366 0/1:308:149,159:149:5345:159:5665:-399.6,0,-316.674 0/1:444:171,273:171:6085:273:9754:-703.854,0,-330.784 0/1:185:85,100:85:3034:100:3555:-231.808,0,-180.293 chr07 16870332 . TC TT 3520.97 PASS AB=0.172522;ABP=8301.65;AC=18;AF=0.428571;AN=42;AO=1659;CIGAR=1M1X;DP=10288;DPB=10289;DPRA=0;EPP=3605.48;EPPR=9616.67;GTI=12;LEN=1;MEANALT=2.57143;MQM=36.9488;MQMR=42.555;NS=21;NUMALT=1;ODDS=4.1059;PAIRED=0;PAIREDR=0;PAO=1;PQA=34;PQR=0;PRO=0;QA=57915;QR=293282;RO=8557;RPL=0;RPP=3605.48;RPPR=15981.2;RPR=1659;RUN=1;SAF=0;SAP=3605.48;SAR=1659;SRF=1512;SRP=7771.81;SRR=7045;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:510:460,50:460:15821:50:1728:0,-6.33068,-1162.26 0/0:308:282,23:282:9673:23:820:0,-22.1589,-701.994 0/1:475:393,79:393:13549:79:2768:-85.2698,0,-982.873 0/1:514:419,92:419:14372:92:3138:-112.046,0,-1038.59 0/1:1065:932,130:932:31761:130:4498:-62.6294,0,-2302.54 0/1:227:185,40:185:6437:40:1417:-49.7533,0,-445.378 0/1:591:412,173:412:14138:173:6097:-335.765,0,-929.302 0/1:692:563,125:563:19221:125:4398:-158.357,0,-1361.67 0/1:862:732,125:732:25194:125:4417:-107.523,0,-1740.5 0/1:136:109,20:109:3738:20:716:-20.9715,0,-273.296 0/1:49:33,6:33:1098:6:216:-6.60848,0,-71.8106 0/1:138:109,24:109:3735:24:860:-31.1935,0,-266.543 0/1:455:396,55:396:13693:55:1919:-27.5562,0,-1035.22 0/1:565:467,94:467:15853:94:3213:-104.759,0,-1153.69 0/1:1183:985,196:985:33788:196:6896:-212.329,0,-2467.78 0/0:561:512,49:512:17595:49:1733:0,-24.7935,-1249.17 0/1:420:357,62:357:12204:62:2130:-53.0679,0,-866.335 0/1:582:437,139:437:14845:139:4867:-231.242,0,-1028.37 0/1:310:259,50:259:8859:50:1630:-43.761,0,-636.983 0/1:455:372,80:372:12792:80:2800:-101.983,0,-925.209 0/1:190:143,47:143:4916:47:1654:-81.458,0,-333.08 chr07 16870335 . T A 69631.6 PASS AB=0.347097;ABP=2073.52;AC=21;AF=0.5;AN=42;AO=3539;CIGAR=1X;DP=10196;DPB=10196;DPRA=0;EPP=7670.49;EPPR=14447.6;GTI=1;LEN=1;MEANALT=1.19048;MQM=56.5725;MQMR=33.3633;NS=21;NUMALT=1;ODDS=79.9472;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=126294;QR=237845;RO=6652;RPL=1448;RPP=256.696;RPPR=14222.7;RPR=2091;RUN=1;SAF=1450;SAP=253.549;SAR=2089;SRF=26;SRP=14222.7;SRR=6626;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:512:296,216:296:10580:216:7697:-538.006,0,-661.316 0/1:303:197,106:197:7072:106:3773:-246.38,0,-426.689 0/1:473:326,147:326:11692:147:5259:-327.736,0,-776.808 0/1:517:375,142:375:13429:142:5049:-297.666,0,-906.157 0/1:1052:718,333:718:25639:333:11860:-745.288,0,-1695.23 0/1:226:167,59:167:5955:59:2124:-120.109,0,-388.432 0/1:594:460,134:460:16470:134:4783:-250.867,0,-1062.89 0/1:691:454,237:454:16245:237:8471:-545.635,0,-1035.73 0/1:851:558,293:558:19977:293:10489:-686.676,0,-1199.37 0/1:133:80,53:80:2872:53:1908:-131.686,0,-177.001 0/1:49:42,7:42:1500:7:233:-5.78104,0,-85.8646 0/1:136:82,54:82:2899:54:1929:-131.433,0,-170.71 0/1:443:184,259:184:6588:259:9238:-697.319,0,-371.845 0/1:555:394,161:394:14001:161:5723:-346.553,0,-943.385 0/1:1175:753,422:753:26934:422:15089:-1003.69,0,-1755.75 0/1:555:333,222:333:11909:222:7946:-547.785,0,-681.087 0/1:419:248,170:248:8830:170:6063:-419.712,0,-533.094 0/1:571:410,158:410:14631:158:5593:-326.794,0,-948.04 0/1:306:194,112:194:6954:112:4000:-267.363,0,-447.265 0/1:444:240,204:240:8604:204:7288:-521.743,0,-516.862 0/1:191:141,50:141:5064:50:1779:-102.47,0,-325.62 chr07 16870338 . TAACTGC CAACTGC 64971.7 PASS AB=0.532209;ABP=95.4732;AC=21;AF=0.5;AN=42;AO=5461;CIGAR=1X6M;DP=10261;DPB=10261;DPRA=0;EPP=11861.4;EPPR=7991.86;GTI=1;LEN=1;MEANALT=3.61905;MQM=32.4001;MQMR=55.9859;NS=21;NUMALT=1;ODDS=26.8157;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=173532;QR=128297;RO=3679;RPL=1;RPP=11852.7;RPPR=278.348;RPR=5460;RUN=1;SAF=1;SAP=11852.7;SAR=5460;SRF=1498;SRP=278.348;SRR=2181;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:512:221,288:221:7656:288:9378:-618.052,0,-535.078 0/1:309:110,197:110:3876:197:5973:-394.194,0,-253.81 0/1:480:149,239:149:5238:239:7555:-502.732,0,-349.328 0/1:520:151,294:151:5260:294:9473:-647.949,0,-331.876 0/1:1048:345,580:345:11979:580:18696:-1259.79,0,-792.275 0/1:226:61,131:61:2169:131:4118:-280.227,0,-131.273 0/1:579:141,434:141:4919:434:13787:-960.331,0,-262.266 0/1:692:241,368:241:8445:368:11514:-761.724,0,-563.958 0/1:862:301,337:301:10512:337:10725:-687.826,0,-747.823 0/1:136:61,58:61:2119:58:1815:-113.523,0,-143.627 0/1:47:15,28:15:506:28:862:-57.4726,0,-17.319 0/1:136:60,75:60:2124:75:2358:-152.895,0,-140.729 0/1:456:271,185:271:9318:185:5989:-357.199,0,-694.563 0/1:567:172,306:172:5977:306:9944:-678.336,0,-383.901 0/1:1191:430,588:430:15052:588:18712:-1228.46,0,-1043.16 0/1:552:224,231:224:7860:231:7104:-442.264,0,-569.855 0/1:419:173,244:173:6051:244:7656:-501.224,0,-418.496 0/1:581:173,347:173:5998:347:11033:-750.169,0,-369.355 0/1:309:116,161:116:4057:161:5136:-338.786,0,-280.936 0/1:452:214,237:214:7430:237:7494:-481.897,0,-530.347 0/1:187:50,133:50:1751:133:4210:-292.163,0,-102.133 chr07 16870349 . AGACTATGCA AGATTATGCA 1741.49 PASS AB=0.142003;ABP=6517.46;AC=11;AF=0.261905;AN=42;AO=872;CIGAR=3M1X6M;DP=8903;DPB=10087;DPRA=1.43756;EPP=1896.53;EPPR=16780.4;GTI=6;LEN=1;MEANALT=3.53333;MQM=44.5929;MQMR=37.991;NS=21;NUMALT=1;ODDS=0.409257;PAIRED=0;PAIREDR=0;PAO=0.666667;PQA=24;PQR=26485.5;PRO=758.667;QA=31171;QR=275599;RO=7818;RPL=872;RPP=1896.53;RPPR=16780.4;RPR=0;RUN=1;SAF=0;SAP=1896.53;SAR=872;SRF=0;SRP=16979.6;SRR=7818;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:415:414,1:414:14562:1:36:0,-121.379,-1165.73 0/0:308:307,0:307:10863:0:0:0,-92.4162,-862.67 0/1:417:330,82:330:11690:82:2948:-136.732,0,-801.519 0/1:445:371,72:371:13011:72:2569:-91.9654,0,-898.015 0/1:955:833,113:833:29239:113:4015:-70.5198,0,-2070.99 0/1:230:196,33:196:6945:33:1172:-31.975,0,-480.453 0/0:599:595,0:595:21002:0:0:0,-179.113,-1656.26 0/1:654:576,78:576:20361:78:2781:-44.8489,0,-1418.43 0/1:682:469,104:469:16549:104:3728:-160.259,0,-1146.43 0/1:109:93,16:93:3266:16:576:-16.6064,0,-217.923 0/0:49:48,1:48:1677:1:36:0,-11.296,-114.38 0/0:113:113,0:113:3995:0:0:0,-34.0164,-307.787 0/0:261:255,0:255:8972:0:0:0,-76.7626,-719.818 0/1:479:394,81:394:13808:81:2897:-112.317,0,-954.938 0/1:1036:867,164:867:30627:164:5884:-209.259,0,-2144.5 0/0:457:368,38:368:13011:38:1352:0,-1.69221,-907.236 0/0:345:340,0:340:11999:0:0:0,-102.35,-939.192 0/1:576:513,58:513:17996:58:2067:-9.65175,0,-1253.88 0/1:269:235,30:235:8336:30:1074:-14.7636,0,-588.086 0/0:312:311,0:311:10979:0:0:0,-93.6203,-859.064 0/0:192:190,1:190:6711:1:36:0,-54.3936,-530.524 chr07 16870370 . C T 7873.11 PASS AB=0.208057;ABP=6471.8;AC=21;AF=0.5;AN=42;AO=1818;CIGAR=1X;DP=8738;DPB=8738;DPRA=0;EPP=3950.75;EPPR=15014.4;GTI=11;LEN=1;MEANALT=1.28571;MQM=32.6309;MQMR=39.8214;NS=21;NUMALT=1;ODDS=1.74892;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65016;QR=246623;RO=6913;RPL=1818;RPP=3950.75;RPPR=15014.4;RPR=0;RUN=1;SAF=0;SAP=3950.75;SAR=1818;SRF=0;SRP=15014.4;SRR=6913;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:406:248,158:248:8785:158:5642:-326.107,0,-591.864 0/1:302:183,118:183:6545:118:4210:-215.973,0,-456.337 0/1:414:357,57:357:12778:57:2048:-37.3982,0,-913.225 0/1:429:333,96:333:11866:96:3456:-143.678,0,-832.022 0/1:941:656,284:656:23420:284:10135:-513.617,0,-1639.13 0/1:224:185,38:185:6624:38:1353:-31.2401,0,-469.257 0/1:584:481,102:481:17169:102:3652:-89.3855,0,-1192.51 0/1:643:568,75:568:20232:75:2677:-11.0975,0,-1441.87 0/1:688:598,90:598:21341:90:3213:-48.4978,0,-1401.4 0/1:108:96,12:96:3412:12:428:-0.642038,0,-238.047 0/1:46:37,9:37:1316:9:324:-9.95529,0,-77.7258 0/1:110:89,21:89:3175:21:756:-24.9229,0,-212.317 0/1:256:183,72:183:6510:72:2565:-125.584,0,-449.488 0/1:473:354,119:354:12655:119:4253:-193.383,0,-886.452 0/1:1019:851,166:851:30400:166:5934:-158.284,0,-2176.54 0/1:456:388,68:388:13889:68:2436:-56.7909,0,-915.832 0/1:341:265,76:265:9417:76:2721:-113.897,0,-631.043 0/1:552:474,78:474:16901:78:2796:-47.566,0,-1185.19 0/1:255:208,47:208:7385:47:1692:-58.4108,0,-520.531 0/1:301:224,77:224:7978:77:2745:-114.135,0,-548.083 0/1:190:135,55:135:4825:55:1980:-86.6312,0,-338.773 chr07 16870714 . TTC CTC 30376.6 PASS AB=0.806573;ABP=872.433;AC=30;AF=0.714286;AN=42;AO=1471;CIGAR=1X2M;DP=1689;DPB=1689;DPRA=0;EPP=3197.25;EPPR=443.819;GTI=4;LEN=1;MEANALT=1.33333;MQM=58.0354;MQMR=58.3498;NS=21;NUMALT=1;ODDS=4.58447;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52507;QR=7171;RO=203;RPL=0;RPP=3197.25;RPPR=443.819;RPR=1471;RUN=1;SAF=1471;SAP=3197.25;SAR=0;SRF=203;SRP=443.819;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:1,97:1:34:97:3463:-308.248,-26.4439,0 1/1:56:2,49:2:72:49:1744:-150.367,-8.87302,0 0/1:93:11,82:11:396:82:2944:-237.032,0,-7.7502 1/1:69:1,68:1:34:68:2423:-214.782,-17.3722,0 1/1:150:0,149:0:0:149:5309:-477.094,-44.8535,0 0/1:77:15,62:15:536:62:2205:-175.531,0,-25.0953 0/1:171:31,137:31:1098:137:4886:-388.894,0,-48.2461 0/1:75:16,59:16:568:59:2108:-167.396,0,-28.8741 0/1:186:23,162:23:823:162:5800:-465.368,0,-17.3105 0/1:10:1,9:1:36:9:324:-26.449,0,-0.587975 1/1:12:0,12:0:0:12:424:-38.2213,-3.61236,0 0/1:49:19,30:19:669:30:1076:-82.3698,0,-45.7846 1/1:96:0,96:0:0:96:3423:-307.897,-28.8989,0 1/1:64:0,64:0:0:64:2280:-205.397,-19.2659,0 0/1:119:19,100:19:670:100:3575:-285.766,0,-24.8034 0/1:55:14,41:14:499:41:1458:-114.478,0,-28.6689 0/1:86:10,73:10:348:73:2603:-209.056,0,-6.22483 0/1:99:26,73:26:893:73:2620:-206.233,0,-50.8251 0/1:45:14,31:14:495:31:1074:-83.4013,0,-30.6089 1/1:51:0,51:0:0:51:1836:-165.419,-15.3525,0 1/1:26:0,26:0:0:26:932:-84.1981,-7.82678,0 chr07 16870732 . T A,C 36512.8 PASS AB=0.818267,0.181733;ABP=947.062,947.062;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1506,199;CIGAR=1X,1X;DP=1706;DPB=1706;DPRA=0,1.28079;EPP=3161.31,426.491;EPPR=5.18177;GTI=4;LEN=1,1;MEANALT=1.71429,2;MQM=57.9409,58.3166;MQMR=60;NS=21;NUMALT=2;ODDS=0.31453;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53916,7097;QR=36;RO=1;RPL=13,1;RPP=3161.31,426.491;RPPR=5.18177;RPR=1493,198;RUN=1,1;SAF=1506,199;SAP=3273.25,435.133;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,100,1:0:0:100,1:3596,32:-323.209,-30.103,0,-320.631,-27.2047,-320.33 1/1:58:0,56,2:0:0:56,2:1997,72:-179.346,-16.8577,0,-173.471,-10.623,-172.869 1/2:96:0,85,11:0:0:85,11:3052,396:-281.231,-32.4347,-6.84711,-249.154,0,-245.843 1/1:68:0,67,1:0:0:67,1:2385,36:-214.402,-20.169,0,-211.465,-16.8718,-211.164 1/1:155:1,154,0:1:36:154,0:5511,0:-492.028,-43.0614,0,-492.329,-46.3586,-495.266 1/2:78:0,63,15:0:0:63,15:2256,514:-225.957,-42.0091,-23.0443,-184.293,0,-179.778 1/2:173:0,142,31:0:0:142,31:5071,1108:-503.917,-90.6991,-47.9528,-413.575,0,-404.243 1/2:76:0,60,16:0:0:60,16:2160,576:-223.587,-47.3585,-29.2967,-176.588,0,-171.772 1/2:189:0,167,22:0:0:167,22:5970,792:-549.915,-63.9272,-13.6551,-486.343,0,-479.72 1/2:9:0,8,1:0:0:8,1:288,36:-26.7954,-3.29724,-0.889005,-23.8579,0,-23.5569 1/1:12:0,12,0:0:0:12,0:417,0:-37.7911,-3.61236,0,-37.7911,-3.61236,-37.7911 1/2:48:0,29,19:0:0:29,19:1040,680:-140.604,-55.8096,-47.0797,-85.152,0,-79.4325 1/1:96:0,96,0:0:0:96,0:3429,0:-308.433,-28.8989,0,-308.433,-28.8989,-308.433 1/1:64:0,64,0:0:0:64,0:2296,0:-206.815,-19.2659,0,-206.815,-19.2659,-206.815 1/2:120:0,102,18:0:0:102,18:3672,648:-352.193,-53.2333,-22.5283,-299.32,0,-293.901 1/2:56:0,42,14:0:0:42,14:1499,504:-163.29,-41.462,-28.8187,-122.187,0,-117.972 1/2:88:0,78,10:0:0:78,10:2788,358:-256.493,-29.4814,-6.00111,-227.369,0,-224.358 1/2:97:0,72,25:0:0:72,25:2584,877:-282.476,-71.7064,-50.0323,-211.122,0,-203.596 1/2:43:0,30,13:0:0:30,13:1080,468:-125.908,-37.7956,-28.7647,-88.4674,0,-84.554 1/1:52:0,52,0:0:0:52,0:1853,0:-166.946,-15.6536,0,-166.946,-15.6536,-166.946 1/1:27:0,27,0:0:0:27,0:972,0:-87.7966,-8.12781,0,-87.7966,-8.12781,-87.7966 chr07 16870738 . T C 891.012 PASS AB=0.181214;ABP=933.373;AC=12;AF=0.285714;AN=42;AO=195;CIGAR=1X;DP=1674;DPB=1674;DPRA=1.29091;EPP=426.447;EPPR=3214.62;GTI=4;LEN=1;MEANALT=1;MQM=58.2821;MQMR=57.9615;NS=21;NUMALT=1;ODDS=3.18472;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6932;QR=53001;RO=1479;RPL=195;RPP=426.447;RPPR=3214.62;RPR=0;RUN=1;SAF=195;SAP=426.447;SAR=0;SRF=1479;SRP=3214.62;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:99:98,1:98:3524:1:36:0,-26.2037,-313.468 0/0:57:55,2:55:1961:2:72:0,-10.322,-169.63 0/1:95:84,11:84:3024:11:396:-7.14814,0,-243.624 0/0:68:67,1:67:2404:1:36:0,-16.8718,-212.873 0/0:149:149,0:149:5311:0:0:0,-44.8535,-477.68 0/1:75:61,14:61:2192:14:489:-21.3606,0,-174.923 0/1:169:138,31:138:4948:31:1112:-49.5173,0,-394.358 0/1:75:60,15:60:2141:15:536:-25.9976,0,-170.362 0/1:183:161,22:161:5792:22:788:-15.1014,0,-465.554 0/1:9:8,1:8:279:1:36:-0.889005,0,-22.7374 0/0:12:12,0:12:432:0:0:0,-3.61236,-38.7449 0/1:46:30,16:30:1076:16:568:-37.6045,0,-83.2726 0/0:94:94,0:94:3353:0:0:0,-28.2968,-301.598 0/0:63:63,0:63:2264:0:0:0,-18.9649,-203.935 0/1:121:102,19:102:3660:19:671:-24.2912,0,-292.522 0/1:55:41,14:41:1468:14:504:-29.1197,0,-115.647 0/1:88:77,11:77:2764:11:383:-8.21402,0,-222.219 0/1:94:70,24:70:2503:24:837:-47.3392,0,-197.213 0/1:44:31,13:31:1116:13:468:-28.4637,0,-87.4556 0/0:52:52,0:52:1857:0:0:0,-15.6536,-167.306 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1975 chr07 17022664 . CGCG TGCC,CGCC 18695.7 PASS AB=0.495575,0.495575;ABP=3.06795,3.06795;AC=32,10;AF=0.761905,0.238095;AN=42;AO=629,249;CIGAR=1X2M1X,3M1X;DP=886;DPB=886;DPRA=0.50375,1.13021;EPP=1368.87,543.707;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.75,2.2;MQM=59.779,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.722102;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22052,8862;QR=0;RO=0;RPL=0,0;RPP=1368.87,543.707;RPPR=0;RPR=629,249;RUN=1,1;SAF=0,0;SAP=1368.87,543.707;SAR=629,249;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,79,0:0:0:79,0:2769,0:-249.452,-23.7814,0,-249.452,-23.7814,-249.452 1/1:18:0,18,0:0:0:18,0:641,0:-57.9493,-5.41854,0,-57.9493,-5.41854,-57.9493 1/1:25:0,25,0:0:0:25,0:878,0:-79.2911,-7.52575,0,-79.2911,-7.52575,-79.2911 1/1:42:0,42,0:0:0:42,0:1448,0:-130.607,-12.6433,0,-130.607,-12.6433,-130.607 1/1:86:0,85,0:0:0:85,0:2975,0:-267.576,-25.5876,0,-267.576,-25.5876,-267.576 1/1:13:0,13,0:0:0:13,0:454,0:-41.0849,-3.91339,0,-41.0849,-3.91339,-41.0849 1/1:52:0,52,0:0:0:52,0:1829,0:-164.886,-15.6536,0,-164.886,-15.6536,-164.886 2/2:80:0,0,80:0:0:0,80:0,2859:-257.547,-257.547,-257.547,-24.0824,-24.0824,0 1/2:73:0,28,44:0:0:28,44:976,1567:-207.222,-127.853,-119.424,-79.4947,0,-66.2494 1/2:6:0,1,5:0:0:1,5:36,180:-17.9843,-15.0469,-14.7459,-3.29724,0,-1.79209 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:17:0,7,8:0:0:7,8:239,288:-42.9259,-23.5353,-21.4281,-19.4151,0,-17.0069 1/2:51:0,31,20:0:0:31,20:1076,720:-146.521,-59.1082,-49.7762,-87.768,0,-81.7474 1/1:43:0,43,0:0:0:43,0:1517,0:-136.822,-12.9443,0,-136.822,-12.9443,-136.822 1/2:52:0,17,35:0:0:17,35:609,1229:-150.045,-100.376,-95.2583,-50.0251,0,-39.4891 1/2:26:0,15,11:0:0:15,11:533,396:-76.1017,-32.6714,-28.156,-43.7881,0,-40.4768 1/1:35:0,32,0:0:0:32,0:1117,0:-100.479,-9.63296,0,-100.479,-9.63296,-100.479 1/2:59:0,29,30:0:0:29,30:1013,1059:-168.988,-86.5895,-77.8597,-82.7499,0,-73.719 1/2:55:0,40,15:0:0:40,15:1424,532:-159.759,-43.6976,-31.6564,-116.417,0,-111.901 1/1:30:0,29,1:0:0:29,1:1008,32:-90.7043,-8.72987,0,-88.1269,-5.83159,-87.8258 1/1:39:0,38,0:0:0:38,0:1330,0:-119.71,-11.4391,0,-119.71,-11.4391,-119.71 chr07 17034805 . T G 20992.8 PASS AB=0.577348;ABP=21.8217;AC=32;AF=0.761905;AN=42;AO=986;CIGAR=1X;DP=1179;DPB=1179;DPRA=1.5875;EPP=2144.08;EPPR=422.104;GTI=2;LEN=1;MEANALT=1;MQM=51.3773;MQMR=58.7098;NS=21;NUMALT=1;ODDS=0.162579;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34872;QR=6847;RO=193;RPL=986;RPP=2144.08;RPPR=422.104;RPR=0;RUN=1;SAF=986;SAP=2144.08;SAR=0;SRF=193;SRP=422.104;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71:0:0:71:2535:-227.305,-21.3731,0 1/1:100:0,100:0:0:100:3548:-317.605,-30.103,0 1/1:87:0,87:0:0:87:3098:-277.406,-26.1896,0 1/1:78:0,78:0:0:78:2720:-244.113,-23.4803,0 1/1:77:3,74:3:99:74:2626:-226.21,-14.327,0 1/1:66:0,66:0:0:66:2355:-211.666,-19.868,0 1/1:87:1,86:1:36:86:3012:-266.785,-22.593,0 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.161 0/1:60:29,31:29:1040:31:1108:-81.7803,0,-75.841 0/1:10:8,2:8:280:2:68:-3.43536,0,-22.5262 1/1:6:0,6:0:0:6:216:-19.1216,-1.80618,0 0/1:32:12,20:12:404:20:708:-54.2541,0,-27.0001 0/1:52:19,33:19:676:33:1184:-90.6841,0,-45.5109 1/1:65:0,65:0:0:65:2265:-203.113,-19.567,0 0/1:120:38,82:38:1364:82:2894:-222.998,0,-86.9255 0/1:67:43,24:43:1516:24:852:-56.6301,0,-115.64 1/1:84:0,84:0:0:84:2954:-265.305,-25.2865,0 0/1:11:3,8:3:108:8:284:-22.5329,0,-6.71657 0/1:10:1,9:1:36:9:316:-25.6847,0,-0.587975 1/1:49:0,49:0:0:49:1737:-155.936,-14.7505,0 1/1:11:0,11:0:0:11:392:-35.5553,-3.31133,0 chr07 17467210 . T C 15594.1 PASS AB=0.455471;ABP=9.77888;AC=32;AF=0.761905;AN=42;AO=756;CIGAR=1X;DP=1013;DPB=1013;DPRA=1.21625;EPP=1644.64;EPPR=561.079;GTI=0;LEN=1;MEANALT=1;MQM=53.9947;MQMR=59.8054;NS=21;NUMALT=1;ODDS=6.73084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26551;QR=9153;RO=257;RPL=756;RPP=1644.64;RPPR=561.079;RPR=0;RUN=1;SAF=756;SAP=1644.64;SAR=0;SRF=257;SRP=561.079;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,56:0:0:56:1938:-174.301,-16.8577,0 1/1:12:0,12:0:0:12:432:-38.9394,-3.61236,0 1/1:34:0,34:0:0:34:1188:-106.974,-10.235,0 1/1:58:0,58:0:0:58:2056:-184.608,-17.4597,0 1/1:128:0,128:0:0:128:4511:-405.473,-38.5318,0 1/1:27:0,27:0:0:27:953:-84.7119,-8.12781,0 1/1:72:0,72:0:0:72:2486:-222.631,-21.6742,0 0/0:40:40,0:40:1405:0:0:0,-12.0412,-126.745 0/1:91:43,48:43:1540:48:1703:-125.938,0,-111.489 0/1:4:2,2:2:72:2:72:-5.62291,0,-5.6326 1/1:6:0,6:0:0:6:202:-18.4575,-1.80618,0 0/1:14:9,5:9:320:5:176:-11.9499,0,-24.9233 0/1:71:42,29:42:1504:29:1013:-70.0163,0,-114.281 1/1:54:0,54:0:0:54:1919:-172.318,-16.2556,0 0/1:48:35,13:35:1256:13:460:-27.2158,0,-98.8935 0/1:31:15,16:15:536:16:549:-40.3866,0,-39.2416 1/1:27:0,27:0:0:27:941:-84.9037,-8.12781,0 0/1:64:38,26:38:1344:26:908:-62.3714,0,-101.991 0/1:70:30,40:30:1068:40:1404:-105.329,0,-75.3576 1/1:60:3,57:3:108:57:2023:-171.684,-7.99299,0 1/1:46:0,46:0:0:46:1617:-144.938,-13.8474,0 chr07 17565618 . G A 10491.4 PASS AB=0.471545;ABP=4.74042;AC=32;AF=0.761905;AN=42;AO=497;CIGAR=1X;DP=647;DPB=647;DPRA=1.74722;EPP=1082.23;EPPR=328.731;GTI=0;LEN=1;MEANALT=1;MQM=59.8471;MQMR=60;NS=21;NUMALT=1;ODDS=2.81258;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17669;QR=5342;RO=150;RPL=0;RPP=1082.23;RPPR=328.731;RPR=497;RUN=1;SAF=0;SAP=1082.23;SAR=497;SRF=0;SRP=328.731;SRR=150;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,44:0:0:44:1561:-140.69,-13.2453,0 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 1/1:38:1,37:1:36:37:1332:-116.584,-7.84087,0 1/1:24:0,24:0:0:24:851:-76.9095,-7.22472,0 1/1:73:0,73:0:0:73:2599:-234.113,-21.9752,0 1/1:32:0,32:0:0:32:1152:-103.984,-9.63296,0 1/1:44:0,44:0:0:44:1568:-141.412,-13.2453,0 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:63:36,27:36:1276:27:968:-68.4725,0,-96.1782 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:9:2,7:2:72:7:252:-20.3197,0,-4.12745 0/1:30:14,16:14:495:16:563:-41.968,0,-35.8521 1/1:50:1,49:1:36:49:1732:-152.565,-11.4532,0 0/1:37:20,17:20:720:17:590:-42.2861,0,-53.9907 0/1:24:15,9:15:540:9:324:-22.2811,0,-41.7118 1/1:27:0,27:0:0:27:948:-85.6346,-8.12781,0 0/1:42:27,15:27:947:15:536:-35.9316,0,-72.9005 0/1:35:11,24:11:396:24:841:-65.4636,0,-25.4467 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 chr07 17565735 . C A 32929.1 PASS AB=0.479947;ABP=5.62303;AC=32;AF=0.761905;AN=42;AO=1515;CIGAR=1X;DP=2004;DPB=2004;DPRA=1.14286;EPP=3215.08;EPPR=1034.53;GTI=0;LEN=1;MEANALT=1.15;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.4368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54253;QR=17309;RO=483;RPL=1506;RPP=3215.08;RPPR=1034.53;RPR=9;RUN=1;SAF=0;SAP=3292.79;SAR=1515;SRF=0;SRP=1051.83;SRR=483;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:1,110:1:36:110:3940:-351.193,-29.8161,0 1/1:85:0,85:0:0:85:3052:-274.909,-25.5876,0 1/1:96:0,96:0:0:96:3408:-306.934,-28.8989,0 1/1:47:0,43:0:0:43:1544:-138.893,-12.9443,0 1/1:213:2,211:2:72:211:7552:-672.882,-57.2827,0 1/1:67:5,62:5:180:62:2224:-183.872,-3.61695,0 1/1:255:1,253:1:36:253:9073:-813.018,-73.1483,0 0/0:84:84,0:84:3012:0:0:0,-25.2865,-271.311 0/1:196:94,102:94:3372:102:3655:-270.151,0,-244.694 0/1:18:7,11:7:248:11:396:-30.5642,0,-17.2457 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:22:13,9:13:460:9:324:-22.8832,0,-35.1127 0/1:115:65,50:65:2321:50:1800:-127.664,0,-174.53 1/1:85:1,84:1:36:84:2971:-264.024,-21.9893,0 0/1:141:82,59:82:2944:59:2120:-148.623,0,-222.748 0/1:47:29,18:29:1044:18:648:-44.5035,0,-80.1264 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 0/1:115:63,51:63:2256:51:1819:-129.313,0,-168.626 0/1:94:35,59:35:1256:59:2124:-163.131,0,-85.0485 1/1:129:0,129:0:0:129:4619:-415.873,-38.8329,0 1/1:53:1,52:1:36:52:1868:-164.801,-12.3563,0 chr07 17565754 . G A 32250.9 PASS AB=0.477912;ABP=6.17594;AC=32;AF=0.761905;AN=42;AO=1514;CIGAR=1X;DP=2000;DPB=2000;DPRA=1.14048;EPP=3290.62;EPPR=1058.35;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.2144;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54024;QR=17423;RO=486;RPL=1514;RPP=3290.62;RPPR=1058.35;RPR=0;RUN=1;SAF=0;SAP=3290.62;SAR=1514;SRF=0;SRP=1058.35;SRR=486;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:1,110:1:36:110:3906:-348.134,-29.8161,0 1/1:85:0,85:0:0:85:3033:-273.199,-25.5876,0 1/1:93:0,93:0:0:93:3305:-297.669,-27.9958,0 1/1:44:0,44:0:0:44:1580:-142.492,-13.2453,0 1/1:211:2,209:2:72:209:7488:-667.125,-56.6806,0 1/1:68:5,63:5:180:63:2230:-184.409,-3.91798,0 1/1:259:1,258:1:36:258:9220:-826.17,-74.3685,0 0/0:84:84,0:84:3012:0:0:0,-25.2865,-271.311 0/1:197:97,100:97:3480:100:3592:-264.183,0,-254.108 0/1:18:7,11:7:252:11:392:-30.2015,0,-17.6104 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:22:13,9:13:468:9:324:-22.8832,0,-35.837 0/1:113:64,49:64:2276:49:1760:-124.667,0,-171.086 1/1:85:1,84:1:36:84:2956:-262.676,-21.9893,0 0/1:141:83,58:83:2984:58:2080:-145.025,0,-226.346 0/1:46:28,18:28:1008:18:648:-44.8045,0,-77.189 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 0/1:117:63,54:63:2260:54:1923:-138.126,0,-168.442 0/1:93:35,58:35:1251:58:2049:-156.684,0,-84.8985 1/1:129:1,128:1:36:128:4558:-406.787,-35.2346,0 1/1:52:1,51:1:36:51:1832:-161.563,-12.0553,0 chr07 17567479 . 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TGA CGT,CGA 16681.7 PASS AB=0.632653,0.367347;ABP=32.9678,32.9678;AC=33,9;AF=0.785714,0.214286;AN=42;AO=721,97;CIGAR=1X1M1X,1X2M;DP=819;DPB=819;DPRA=2.50937,0.91653;EPP=1568.64,213.643;EPPR=0;GTI=3;LEN=3,1;MEANALT=1.65,2;MQM=39.1221,59.2371;MQMR=0;NS=21;NUMALT=2;ODDS=1.55134;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25649,3476;QR=0;RO=0;RPL=721,97;RPP=1568.64,213.643;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1568.64,213.643;SAR=721,97;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,43,1:0:0:43,1:1520,36:-128.784,-12.9443,0,-125.846,-9.64705,-125.545 1/1:45:0,45,0:0:0:45,0:1596,0:-137.068,-13.5464,0,-137.068,-13.5464,-137.068 1/1:20:0,20,0:0:0:20,0:706,0:-60.2959,-6.0206,0,-60.2959,-6.0206,-60.2959 1/1:67:0,67,0:0:0:67,0:2398,0:-204.367,-20.169,0,-204.367,-20.169,-204.367 1/1:121:0,120,1:0:0:120,1:4265,36:-364.405,-36.1236,0,-361.467,-32.8264,-361.166 1/1:41:0,40,1:0:0:40,1:1428,36:-122.732,-12.0412,0,-119.796,-8.74567,-119.495 1/1:42:0,42,0:0:0:42,0:1502,0:-128.107,-12.6433,0,-128.107,-12.6433,-128.107 2/2:16:0,0,16:0:0:0,16:0,576:-52.1299,-52.1299,-52.1299,-4.81648,-4.81648,0 1/2:35:0,22,13:0:0:22,13:787,468:-100.381,-38.5463,-31.9236,-62.1894,0,-58.276 1/2:7:0,3,4:0:0:3,4:105,144:-20.236,-12.1048,-11.2017,-8.47684,0,-7.27272 1/1:4:0,4,0:0:0:4,0:144,0:-12.7816,-1.20412,0,-12.7816,-1.20412,-12.7816 1/2:11:0,9,2:0:0:9,2:324,72:-31.2423,-6.23466,-3.52539,-25.3643,0,-24.7622 1/2:36:0,21,15:0:0:21,15:743,536:-100.774,-44.0432,-37.7216,-57.0782,0,-52.5628 1/1:45:0,45,0:0:0:45,0:1597,0:-137.412,-13.5464,0,-137.412,-13.5464,-137.412 1/2:22:0,18,4:0:0:18,4:648,144:-61.1712,-12.1095,-6.69096,-49.4172,0,-48.2131 1/1:35:0,31,3:0:0:31,3:1104,104:-95.5729,-9.33193,0,-87.1194,-0.879899,-86.2163 1/1:52:0,52,0:0:0:52,0:1849,0:-160.501,-15.6536,0,-160.501,-15.6536,-160.501 1/2:38:0,15,23:0:0:15,23:536,824:-108.151,-67.5265,-63.011,-40.9682,0,-34.0445 1/2:47:0,36,11:0:0:36,11:1269,392:-129.803,-32.2635,-21.4264,-97.8906,0,-94.5793 1/1:37:0,34,3:0:0:34,3:1205,108:-101.846,-10.235,0,-93.0319,-1.06294,-92.1288 1/1:54:0,54,0:0:0:54,0:1923,0:-165.732,-16.2556,0,-165.732,-16.2556,-165.732 chr07 18554005 . T C 6617.87 PASS AB=0.497696;ABP=3.04032;AC=10;AF=0.238095;AN=42;AO=393;CIGAR=1X;DP=2307;DPB=2307;DPRA=0.893162;EPP=856.399;EPPR=4133.19;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9692;NS=21;NUMALT=1;ODDS=19.2696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13968;QR=68472;RO=1914;RPL=0;RPP=856.399;RPPR=4133.19;RPR=393;RUN=1;SAF=393;SAP=856.399;SAR=0;SRF=1914;SRP=4159.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:148:148,0:148:5292:0:0:0,-44.5524,-475.715 0/0:124:124,0:124:4433:0:0:0,-37.3277,-399.14 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 0/0:182:182,0:182:6508:0:0:0,-54.7875,-585.676 0/0:253:249,4:249:8883:4:140:0,-63.216,-786.511 0/0:139:139,0:139:4988:0:0:0,-41.8432,-449.067 0/0:204:204,0:204:7316:0:0:0,-61.4101,-658.488 1/1:63:0,63:0:0:63:2218:-199.883,-18.9649,0 0/1:145:63,82:63:2247:82:2912:-218.666,0,-158.843 0/1:15:4,11:4:144:11:388:-30.7419,0,-8.79817 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:26:6,20:6:216:20:720:-57.302,0,-11.9637 0/1:109:54,55:54:1944:55:1964:-144.222,0,-142.424 0/0:137:136,1:136:4845:1:36:0,-37.6428,-432.604 0/1:97:67,30:67:2400:30:1067:-67.1413,0,-187.057 0/1:107:47,60:47:1684:60:2148:-161.377,0,-119.637 0/0:102:102,0:102:3668:0:0:0,-30.7051,-330.322 0/1:63:28,35:28:1004:35:1235:-92.4886,0,-71.711 0/1:89:58,31:58:2066:31:1108:-73.2393,0,-159.418 0/0:150:149,1:149:5310:1:32:0,-41.9552,-474.834 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.24 chr07 18554048 . C G 101029 PASS AB=0.516993;ABP=6.84799;AC=32;AF=0.761905;AN=42;AO=3935;CIGAR=1X;DP=4862;DPB=4862;DPRA=1.33914;EPP=8547.75;EPPR=2007.28;GTI=0;LEN=1;MEANALT=1.2;MQM=46.3797;MQMR=59.727;NS=21;NUMALT=1;ODDS=53.073;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=139531;QR=32880;RO=923;RPL=1881;RPP=19.5262;RPPR=31.997;RPR=2054;RUN=1;SAF=1881;SAP=19.5262;SAR=2054;SRF=406;SRP=31.997;SRR=517;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:371:0,371:0:0:371:13085:-1091.06,-111.682,0 1/1:251:0,251:0:0:251:8938:-756.526,-75.5585,0 1/1:188:0,188:0:0:188:6680:-551.803,-56.5936,0 1/1:313:0,313:0:0:313:11152:-953.452,-94.2224,0 1/1:546:5,540:5:176:540:19122:-1595.91,-148.235,0 1/1:226:0,225:0:0:225:7964:-688.351,-67.7318,0 1/1:345:1,344:1:36:344:12229:-1050.42,-100.257,0 0/0:175:175,0:175:6190:0:0:0,-52.6802,-557.156 0/1:331:177,154:177:6320:154:5439:-355.916,0,-469.044 0/1:41:28,13:28:995:13:464:-27.0389,0,-77.5218 1/1:18:0,18:0:0:18:611:-51.5733,-5.41854,0 0/1:52:33,19:33:1180:19:676:-41.5303,0,-90.8545 0/1:221:106,115:106:3760:115:4100:-279.286,0,-272.066 1/1:254:1,252:1:36:252:8858:-749.427,-72.9045,0 0/1:333:134,199:134:4804:199:7060:-484.947,0,-331.757 0/1:244:127,117:127:4549:117:4170:-276.654,0,-336.115 1/1:261:0,261:0:0:261:9278:-776.985,-78.5688,0 0/1:163:87,76:87:3098:76:2691:-178.389,0,-229.955 0/1:145:47,98:47:1664:98:3478:-254.904,0,-106.395 1/1:267:1,265:1:36:265:9414:-807.076,-76.8355,0 1/1:117:1,116:1:36:116:4122:-355.369,-31.6222,0 chr07 18554063 . G A 37675.8 PASS AB=0.530612;ABP=10.1895;AC=32;AF=0.761905;AN=42;AO=2085;CIGAR=1X;DP=2614;DPB=2614;DPRA=1.11696;EPP=4530.53;EPPR=1134.41;GTI=0;LEN=1;MEANALT=1;MQM=33.9185;MQMR=59.3251;NS=21;NUMALT=1;ODDS=23.6936;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74757;QR=18923;RO=529;RPL=2085;RPP=4530.53;RPPR=1134.41;RPR=0;RUN=1;SAF=0;SAP=4530.53;SAR=2085;SRF=0;SRP=1151.72;SRR=529;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:222:0,222:0:0:222:7972:-628.165,-66.8287,0 1/1:141:0,141:0:0:141:5057:-404.302,-42.4452,0 1/1:130:0,130:0:0:130:4672:-368.909,-39.1339,0 1/1:133:0,133:0:0:133:4768:-376.221,-40.037,0 1/1:305:1,304:1:36:304:10892:-862.269,-88.2159,0 1/1:89:0,89:0:0:89:3192:-257.359,-26.7917,0 1/1:153:1,152:1:36:152:5435:-435.449,-42.4593,0 0/0:112:112,0:112:3989:0:0:0,-33.7154,-359.146 0/1:191:96,95:96:3431:95:3401:-210.939,0,-251.305 0/1:27:18,9:18:648:9:324:-18.4907,0,-50.5241 1/1:7:0,7:0:0:7:252:-18.9531,-2.10721,0 0/1:28:15,13:15:536:13:468:-29.8758,0,-40.146 0/1:111:51,60:51:1823:60:2152:-136.78,0,-130.663 1/1:120:0,120:0:0:120:4311:-339.676,-36.1236,0 0/1:238:103,135:103:3692:135:4844:-311.295,0,-260.512 0/1:139:68,71:68:2432:71:2548:-161.237,0,-176.914 1/1:163:0,163:0:0:163:5809:-461.757,-49.0679,0 0/1:95:49,46:49:1760:46:1648:-104.844,0,-130.042 0/1:53:14,39:14:504:39:1400:-95.3019,0,-29.7435 1/1:118:0,118:0:0:118:4244:-342.725,-35.5215,0 1/1:39:1,38:1:36:38:1368:-106.92,-8.1419,0 chr07 18554856 . ATTTCTGT ATTTTTTT,ATTTT,ATTTTTT 29316.2 PASS AB=0.652237,0.334129,0.118162;ABP=282.018,203.273,1739.25;AC=21,10,11;AF=0.5,0.238095,0.261905;AN=42;AO=967,399,165;CIGAR=4M1X1M1X1M,4M3D1M,4M1D1M1X1M;DP=1575;DPB=1408.25;DPRA=0.617373,0,0.643176;EPP=2102.82,869.428,361.303;EPPR=0;GTI=7;LEN=8,3,7;MEANALT=3.9,4.07692,4;MQM=58.7921,59.3835,58.3394;MQMR=0;NS=21;NUMALT=3;ODDS=0.528328;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=34228,14068,5861;QR=0;RO=0;RPL=0,0,0;RPP=2102.82,869.428,361.303;RPPR=0;RPR=967,399,165;RUN=1,1,1;SAF=967,399,165;SAP=2102.82,869.428,361.303;SAR=0,0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/3:75:0,56,0,12:0:0:56,0,12:1978,0,425:-195.307,-34.3368,-17.4791,-195.307,-34.3368,-195.307,-160.991,0,-160.991,-157.379 1/3:31:0,26,0,4:0:0:26,0,4:928,0,142:-87.2132,-11.5816,-3.75482,-87.2132,-11.5816,-87.2132,-75.6479,0,-75.6479,-74.4437 1/3:71:0,60,0,8:0:0:60,0,8:2125,0,284:-196.176,-23.1112,-5.04945,-196.176,-23.1112,-196.176,-173.071,0,-173.071,-170.663 1/3:157:0,131,0,22:0:0:131,0,22:4652,0,786:-442.153,-64.0662,-24.6313,-442.153,-64.0662,-442.153,-378.112,0,-378.112,-371.49 1/3:108:0,83,1,19:0:0:83,1,19:2944,36,681:-294.682,-55.2947,-30.3092,-291.744,-52.3569,-291.443,-239.409,0,-236.472,-233.69 1/3:51:0,37,1,10:0:0:37,1,10:1322,36,351:-136.06,-28.5871,-17.449,-133.123,-25.648,-132.822,-107.507,0,-104.569,-104.497 1/3:87:0,72,0,14:0:0:72,0,14:2559,0,500:-249.109,-40.8747,-19.2005,-249.109,-40.8747,-249.109,-208.362,0,-208.362,-204.147 2/2:118:0,0,118,0:0:0:0,118,0:0,4152,0:-373.832,-373.832,-373.832,-35.5215,-35.5215,0,-373.832,-373.832,-35.5215,-373.832 1/2:115:0,48,61,4:0:0:48,61,4:1696,2162,144:-314.126,-176.005,-161.556,-138.115,0,-119.753,-302.376,-164.255,-126.365,-301.172 1/2:15:0,5,10,0:0:0:5,10,0:172,348,0:-42.6119,-28.6448,-27.1397,-14.3123,0,-11.302,-42.6119,-28.6448,-14.3123,-42.6119 1/3:6:0,3,0,3:0:0:3,0,3:108,0,108:-17.9816,-9.16926,-8.26617,-17.9816,-9.16926,-17.9816,-9.17208,0,-9.17208,-8.26899 1/2:69:0,34,33,2:0:0:34,33,2:1203,1176,72:-193.788,-95.856,-85.621,-97.929,0,-87.995,-187.949,-90.0168,-92.0896,-187.346 1/2:44:0,13,26,4:0:0:13,26,4:466,916,133:-112.556,-74.5915,-70.6781,-37.9778,0,-30.151,-101.796,-63.8329,-27.2222,-100.592 1/1:71:0,63,1,3:0:0:63,1,3:2213,36,108:-198.573,-18.9649,0,-195.636,-16.0268,-195.335,-189.761,-10.15,-186.823,-188.858 1/2:174:0,67,95,11:0:0:67,95,11:2339,3350,382:-462.303,-272.398,-252.229,-189.908,0,-161.311,-431.519,-241.615,-159.125,-428.207 1/2:39:0,17,12,6:0:0:17,12,6:598,420,214:-82.8126,-34.1612,-29.0437,-48.6498,0,-45.0374,-65.3666,-16.7144,-31.2036,-63.5605 1/3:78:0,59,0,15:0:0:59,0,15:2069,0,527:-211.219,-42.8997,-25.1389,-211.219,-42.8997,-211.219,-168.326,0,-168.326,-163.811 1/2:65:0,29,29,7:0:0:29,29,7:1033,1008,252:-165.884,-81.7125,-72.9826,-84.1653,0,-75.4354,-145.321,-61.148,-63.6026,-143.214 1/2:29:0,17,8,3:0:0:17,8,3:609,288,104:-73.1521,-23.4997,-18.3822,-49.6598,0,-47.2516,-64.6999,-15.0493,-41.208,-63.7968 1/3:129:0,110,4,12:0:0:110,4,12:3919,140,432:-353.788,-35.1654,-2.05207,-342.404,-23.7807,-341.2,-318.639,0,-307.255,-315.027 1/3:43:0,37,0,6:0:0:37,0,6:1295,0,216:-123.235,-17.9788,-6.84069,-123.235,-17.9788,-123.235,-105.614,0,-105.614,-103.808 chr07 18661009 . CTACT CTACA 28844.7 PASS AB=0.431741;ABP=26.726;AC=32;AF=0.761905;AN=42;AO=1336;CIGAR=4M1X;DP=1755;DPB=1755;DPRA=1.10461;EPP=2904.1;EPPR=891.143;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9768;MQMR=59.9951;NS=21;NUMALT=1;ODDS=3.9405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47702;QR=14445;RO=409;RPL=1336;RPP=2904.1;RPPR=891.143;RPR=0;RUN=1;SAF=0;SAP=2904.1;SAR=1336;SRF=0;SRP=891.143;SRR=409;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68:0:0:68:2410:-217.156,-20.47,0 1/1:98:0,93:0:0:93:3328:-299.378,-27.9958,0 1/1:90:0,90:0:0:90:3196:-287.865,-27.0927,0 1/1:91:0,91:0:0:91:3240:-291.823,-27.3937,0 1/1:175:0,175:0:0:175:6237:-561.427,-52.6803,0 1/1:117:0,117:0:0:117:4188:-377.102,-35.2205,0 1/1:138:0,138:0:0:138:4929:-443.761,-41.5421,0 0/0:76:73,0:73:2577:0:0:0,-21.9752,-231.82 0/1:112:76,35:76:2687:35:1256:-79.7168,0,-208.448 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 1/1:14:0,14:0:0:14:476:-43.1619,-4.21442,0 0/1:44:25,19:25:876:19:680:-48.2838,0,-65.9097 0/1:124:67,56:67:2354:56:2008:-143.759,0,-174.885 1/1:96:2,94:2:57:94:3360:-297.117,-23.4846,0 0/1:80:45,35:45:1579:35:1248:-88.5425,0,-118.317 0/1:70:33,37:33:1183:37:1326:-98.5414,0,-85.7062 1/1:69:1,68:1:36:68:2444:-216.616,-17.1728,0 0/1:76:57,19:57:2019:19:684:-39.012,0,-159.106 0/1:71:26,45:26:933:45:1616:-124.357,0,-62.9161 1/1:75:0,75:0:0:75:2676:-241.086,-22.5773,0 1/1:62:2,60:2:72:60:2152:-187.11,-11.8271,0 chr07 18662427 . A C 24792.7 PASS AB=0.535032;ABP=9.70452;AC=32;AF=0.761905;AN=42;AO=1179;CIGAR=1X;DP=1543;DPB=1543;DPRA=1.11894;EPP=2563.18;EPPR=793.426;GTI=0;LEN=1;MEANALT=1;MQM=53.6455;MQMR=59.3626;NS=21;NUMALT=1;ODDS=15.1003;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41907;QR=12951;RO=364;RPL=0;RPP=2563.18;RPPR=793.426;RPR=1179;RUN=1;SAF=0;SAP=2563.18;SAR=1179;SRF=0;SRP=793.426;SRR=364;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32:0:0:32:1144:-103.085,-9.63296,0 1/1:46:1,45:1:36:45:1595:-140.087,-10.2528,0 1/1:47:0,47:0:0:47:1679:-150.97,-14.1484,0 1/1:46:0,46:0:0:46:1613:-145.061,-13.8474,0 1/1:252:2,250:2:72:250:8866:-788.637,-69.0228,0 1/1:74:0,74:0:0:74:2638:-237.437,-22.2762,0 1/1:116:0,116:0:0:116:4145:-372.52,-34.9195,0 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.687 0/1:106:52,54:52:1847:54:1936:-141.967,0,-134.563 0/1:11:6,5:6:216:5:180:-13.2346,0,-16.4792 1/1:13:0,13:0:0:13:460:-41.6957,-3.91339,0 0/1:34:19,15:19:675:15:536:-38.3194,0,-50.8419 0/1:73:22,51:22:788:51:1809:-140.833,0,-48.8981 1/1:60:1,59:1:36:59:2080:-183.131,-14.4635,0 0/1:179:99,80:99:3543:80:2854:-202.724,0,-265.169 0/1:55:24,31:24:855:31:1093:-81.566,0,-60.7135 1/1:46:0,46:0:0:46:1618:-145.194,-13.8474,0 0/1:95:46,49:46:1616:49:1731:-127.356,0,-117.128 0/1:75:24,51:24:823:51:1808:-139.951,0,-51.611 1/1:64:1,63:1:36:63:2264:-200.296,-15.6676,0 1/1:53:1,52:1:36:52:1858:-163.769,-12.567,0 chr07 18662457 . ACA GCA,GCG 33147.3 PASS AB=0.522835,0.470866;ABP=5.88622,7.69179;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1185,370;CIGAR=1X2M,1X1M1X;DP=1568;DPB=1568;DPRA=1.12015,1.63911;EPP=2576.21,806.455;EPPR=18.2106;GTI=0;LEN=1,3;MEANALT=1.8,2.30769;MQM=53.7384,59.4649;MQMR=60;NS=21;NUMALT=2;ODDS=14.7189;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42213,12950;QR=250;RO=7;RPL=1185,370;RPP=2576.21,806.455;RPPR=18.2106;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2576.21,806.455;SAR=1185,370;SRF=0;SRP=18.2106;SRR=7;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:1,32,0:1:36:32,0:1143,0:-99.3924,-6.33572,0,-99.6935,-9.63296,-102.631 1/1:46:0,46,0:0:0:46,0:1648,0:-148.395,-13.8474,0,-148.395,-13.8474,-148.395 1/1:48:1,47,0:1:36:47,0:1671,0:-146.786,-10.8512,0,-147.087,-14.1484,-150.024 1/1:45:0,45,0:0:0:45,0:1616,0:-145.32,-13.5464,0,-145.32,-13.5464,-145.32 1/1:258:0,253,3:0:0:253,3:9005,103:-808.07,-76.1606,0,-799.764,-67.7871,-798.86 1/1:78:2,76,0:2:72:76,0:2728,0:-238.673,-16.6436,0,-239.275,-22.8783,-245.15 1/1:118:0,117,0:0:0:117,0:4173,0:-374.772,-35.2205,0,-374.772,-35.2205,-374.772 2/2:67:0,0,65:0:0:0,65:0,2293:-206.252,-206.252,-206.252,-19.567,-19.567,0 1/2:107:2,52,53:2:72:52,53:1859,1880:-297.653,-147.248,-137.469,-145.128,0,-135.048 1/2:12:0,6,6:0:0:6,6:216,214:-35.4217,-17.8016,-15.9954,-17.9783,0,-16.1721 1/1:13:0,13,0:0:0:13,0:459,0:-41.6033,-3.91339,0,-41.6033,-3.91339,-41.6033 1/2:34:0,15,19:0:0:15,19:540,677:-99.581,-55.539,-51.0236,-44.4001,0,-38.6805 1/2:74:1,50,23:1:34:50,23:1783,786:-205.804,-61.0338,-48.7402,-142.32,0,-138.154 1/1:61:0,60,1:0:0:60,1:2143,36:-192.112,-18.0618,0,-189.175,-14.7646,-188.874 1/2:182:0,81,100:0:0:81,100:2899,3504:-521.002,-285.083,-260.699,-235.914,0,-205.811 1/2:55:0,30,25:0:0:30,25:1062,857:-155.892,-69.9126,-60.8817,-86.3263,0,-78.8005 1/1:47:0,47,0:0:0:47,0:1660,0:-149.029,-14.1484,0,-149.029,-14.1484,-149.029 1/2:97:0,48,49:0:0:48,49:1685,1713:-276.716,-139.702,-125.252,-137.365,0,-122.614 1/2:74:0,50,24:0:0:50,24:1770,822:-210.802,-67.0423,-51.9908,-144.105,0,-136.881 1/1:66:0,65,1:0:0:65,1:2306,36:-207.37,-19.567,0,-204.432,-16.2697,-204.131 1/1:53:0,52,1:0:0:52,1:1847,29:-165.86,-15.6536,0,-163.598,-13.106,-163.297 chr07 18726473 . A G 25566.8 PASS AB=0.48913;ABP=3.57677;AC=32;AF=0.761905;AN=42;AO=1228;CIGAR=1X;DP=1588;DPB=1588;DPRA=1.02297;EPP=2669.58;EPPR=784.74;GTI=0;LEN=1;MEANALT=1;MQM=44.8518;MQMR=57.5722;NS=21;NUMALT=1;ODDS=14.7672;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43716;QR=12845;RO=360;RPL=0;RPP=2669.58;RPPR=784.74;RPR=1228;RUN=1;SAF=1228;SAP=2669.58;SAR=0;SRF=360;SRP=784.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:1,109:1:36:109:3855:-334.961,-29.5167,0 1/1:83:0,83:0:0:83:2957:-264.979,-24.9855,0 1/1:49:0,49:0:0:49:1756:-153.926,-14.7505,0 1/1:91:0,91:0:0:91:3241:-284.526,-27.3937,0 1/1:183:2,181:2:72:181:6474:-558.576,-48.255,0 1/1:73:0,73:0:0:73:2589:-231.065,-21.9752,0 1/1:88:0,88:0:0:88:3100:-277.13,-26.4906,0 0/0:74:74,0:74:2630:0:0:0,-22.2762,-236.882 0/1:104:60,44:60:2156:44:1570:-107.913,0,-162.925 0/1:12:8,4:8:288:4:129:-8.26059,0,-22.631 1/1:10:0,10:0:0:10:360:-32.2641,-3.0103,0 0/1:27:12,15:12:432:15:540:-40.4521,0,-31.0757 0/1:121:65,56:65:2317:56:1997:-136.802,0,-170.617 1/1:94:0,94:0:0:94:3348:-294.853,-28.2968,0 0/1:134:75,59:75:2658:59:2101:-143.111,0,-198.568 0/1:58:32,26:32:1140:26:921:-64.5524,0,-85.435 1/1:63:0,63:0:0:63:2237:-198.125,-18.9649,0 0/1:45:16,29:16:576:29:1040:-79.5147,0,-38.5933 0/1:51:14,37:14:504:37:1313:-100.807,0,-30.2117 1/1:69:1,68:1:36:68:2424:-212.195,-17.1728,0 1/1:49:0,49:0:0:49:1764:-157.585,-14.7505,0 chr07 18748096 . CAG TAG,TAA 23486.3 PASS AB=0.419552,0.580448;ABP=30.6114,30.6114;AC=32,10;AF=0.761905,0.238095;AN=42;AO=656,395;CIGAR=1X2M,1X1M1X;DP=1053;DPB=1263;DPRA=0.433028,1.61901;EPP=1055.96,826.35;EPPR=0;GTI=2;LEN=1,3;MEANALT=1.5,2;MQM=59.9345,54.7215;MQMR=0;NS=21;NUMALT=2;ODDS=2.40045;PAIRED=0,0;PAIREDR=0;PAO=315,315;PQA=11118.5,11118.5;PQR=0;PRO=0;QA=23440,13861;QR=0;RO=0;RPL=656,391;RPP=1427.5,826.35;RPPR=0;RPR=0,4;RUN=1,1;SAF=46,0;SAP=1055.96,860.742;SAR=610,395;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:23:0,23,0:0:0:23,0:818,0:-72.733,-6.92369,0,-72.733,-6.92369,-72.733 1/1:37:0,37,0:0:0:37,0:1322,0:-119.282,-11.1381,0,-119.282,-11.1381,-119.282 1/1:27:0,25,2:0:0:25,2:892,70:-79.5808,-7.52575,0,-73.894,-2.20668,-73.292 1/1:53:0,53,0:0:0:53,0:1900,0:-169.694,-15.9546,0,-169.694,-15.9546,-169.694 1/1:33:0,32,0:0:0:32,0:1148,0:-99.3699,-9.63296,0,-99.3699,-9.63296,-99.3699 1/1:36:0,36,0:0:0:36,0:1277,0:-115.231,-10.8371,0,-115.231,-10.8371,-115.231 1/1:60:0,60,0:0:0:60,0:2148,0:-193.587,-18.0618,0,-193.587,-18.0618,-193.587 2/2:109:0,0,108:0:0:0,108:0,3764:-329.65,-329.65,-329.65,-32.5112,-32.5112,0 1/2:89:0,32,57:0:0:32,57:1135,2011:-256.324,-163.853,-154.22,-92.7085,0,-75.5498 1/2:8:0,2,6:0:0:2,6:72,216:-23.4626,-17.6052,-17.0031,-6.02402,0,-4.21784 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:31:0,9,22:0:0:9,22:324,773:-87.6345,-61.2204,-58.5111,-25.0848,0,-18.4621 1/2:77:0,19,58:0:0:19,58:684,2068:-220.887,-165.091,-159.372,-52.6972,0,-35.2375 1/1:49:0,49,0:0:0:49,0:1740,0:-155.355,-14.7505,0,-155.355,-14.7505,-155.355 1/2:77:0,24,53:0:0:24,53:860,1857:-217.314,-147.196,-139.971,-66.6973,0,-50.7427 1/2:70:0,26,44:0:0:26,44:916,1528:-198.855,-124.384,-116.558,-74.8206,0,-61.5753 1/1:37:0,37,0:0:0:37,0:1324,0:-119.462,-11.1381,0,-119.462,-11.1381,-119.462 1/2:78:0,53,25:0:0:53,25:1892,884:-221.316,-67.2062,-51.2516,-149.584,0,-142.058 1/2:61:0,41,20:0:0:41,20:1476,690:-172.905,-52.587,-40.2448,-117.095,0,-111.074 1/1:29:0,29,0:0:0:29,0:1036,0:-92.508,-8.72987,0,-92.508,-8.72987,-92.508 1/1:64:0,64,0:0:0:64,0:2296,0:-206.893,-19.2659,0,-206.893,-19.2659,-206.893 chr07 18995542 . CATAA TATAG,TATAA 43072.1 PASS AB=0.616482,0.383518;ABP=77.3738,77.3738;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1653,306;CIGAR=1X3M1X,1X4M;DP=1968;DPB=1968;DPRA=1.56311,1.04362;EPP=3488.98,658.823;EPPR=5.18177;GTI=1;LEN=5,1;MEANALT=2,2;MQM=59.9921,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.27642;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58429,10957;QR=31;RO=1;RPL=12,1;RPP=3488.98,658.823;RPPR=5.18177;RPR=1641,305;RUN=1,1;SAF=1653,306;SAP=3592.45,667.481;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:0,83,1:0:0:83,1:2946,36:-265.054,-24.9855,0,-262.116,-22.0081,-261.815 1/1:55:0,55,0:0:0:55,0:1941,0:-174.966,-16.5567,0,-174.966,-16.5567,-174.966 1/1:140:0,139,1:0:0:139,1:4915,36:-442.147,-41.8432,0,-439.209,-38.5459,-438.908 1/2:67:0,42,25:0:0:42,25:1483,885:-193.209,-72.4416,-59.7984,-121.121,0,-113.595 1/1:278:0,277,1:0:0:277,1:9769,36:-878.814,-83.3853,0,-875.877,-80.0881,-875.576 1/1:81:0,80,0:0:0:80,0:2828,0:-254.429,-24.0824,0,-254.429,-24.0824,-254.429 1/2:111:0,73,38:0:0:73,38:2563,1360:-319.848,-111.261,-89.2863,-208.942,0,-197.503 2/2:61:1,0,60:1:31:0,60:0,2160:-191.567,-191.868,-194.356,-15.2634,-18.0618,0 1/1:219:0,218,0:0:0:218,0:7739,0:-696.191,-65.6245,0,-696.191,-65.6245,-696.191 1/1:27:0,27,0:0:0:27,0:964,0:-87.0767,-8.12781,0,-87.0767,-8.12781,-87.0767 1/1:13:0,13,0:0:0:13,0:467,0:-42.3692,-3.91339,0,-42.3692,-3.91339,-42.3692 1/2:23:0,18,5:0:0:18,5:644,180:-67.5598,-15.0469,-9.62837,-52.8722,0,-51.3671 1/2:91:0,60,31:0:0:60,31:2139,1108:-265.059,-90.6991,-72.6373,-174.717,0,-165.385 1/1:167:0,164,0:0:0:164,0:5759,0:-518.119,-49.3689,0,-518.119,-49.3689,-518.119 1/2:117:0,75,42:0:0:75,42:2645,1500:-338.018,-122.651,-100.074,-215.722,0,-203.079 1/2:74:0,52,22:0:0:52,22:1831,788:-213.681,-64.6221,-48.9686,-149.416,0,-142.793 1/1:120:0,118,0:0:0:118,0:4165,0:-374.703,-35.5215,0,-374.703,-35.5215,-374.703 1/2:94:0,33,61:0:0:33,61:1175,2184:-274.23,-178.463,-168.529,-96.123,0,-77.7602 1/2:54:0,36,18:0:0:36,18:1284,648:-157.9,-53.2333,-42.3963,-105.026,0,-99.6073 1/1:48:0,48,0:0:0:48,0:1690,0:-152.387,-14.4494,0,-152.387,-14.4494,-152.387 1/1:43:0,42,1:0:0:42,1:1482,36:-133.312,-12.6433,0,-130.375,-9.34602,-130.074 chr07 18995700 . T G 7358.66 PASS AB=0.419512;ABP=37.6162;AC=10;AF=0.238095;AN=42;AO=330;CIGAR=1X;DP=1677;DPB=1677;DPRA=1.25418;EPP=20.8032;EPPR=228.669;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8242;MQMR=59.9755;NS=21;NUMALT=1;ODDS=17.9071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11772;QR=48054;RO=1346;RPL=191;RPP=20.8032;RPPR=228.669;RPR=139;RUN=1;SAF=0;SAP=719.596;SAR=330;SRF=0;SRP=2925.81;SRR=1346;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:82:82,0:82:2899:0:0:0,-24.6845,-261.142 0/0:92:92,0:92:3304:0:0:0,-27.6948,-297.578 0/0:84:84,0:84:3016:0:0:0,-25.2865,-271.67 0/1:93:50,43:50:1781:43:1535:-110.447,0,-132.575 0/0:173:173,0:173:6175:0:0:0,-52.0782,-555.844 0/0:116:115,1:115:4083:1:36:0,-31.3212,-364.055 0/1:112:78,33:78:2781:33:1167:-71.5443,0,-216.755 1/1:68:0,68:0:0:68:2428:-218.776,-20.47,0 0/0:160:159,1:159:5705:1:36:0,-44.5665,-509.958 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 0/1:67:25,42:25:870:42:1496:-114.766,0,-58.443 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 0/1:149:82,67:82:2937:67:2395:-170.953,0,-219.709 0/1:81:50,31:50:1766:31:1104:-74.6575,0,-134.836 0/0:78:77,1:77:2741:1:36:0,-19.8821,-243.333 0/1:51:32,19:32:1148:19:675:-45.7138,0,-88.2773 0/1:47:34,13:34:1209:13:468:-28.3112,0,-94.9657 0/0:88:87,1:87:3111:1:36:0,-22.8924,-276.596 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 chr07 19051454 . G A 6771.64 PASS AB=0.460265;ABP=11.2935;AC=10;AF=0.238095;AN=42;AO=385;CIGAR=1X;DP=1944;DPB=1944;DPRA=0.910963;EPP=839.027;EPPR=3386.16;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.7766;MQMR=59.9525;NS=21;NUMALT=1;ODDS=1.20345;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13718;QR=55372;RO=1558;RPL=0;RPP=839.027;RPPR=3386.16;RPR=385;RUN=1;SAF=0;SAP=839.027;SAR=385;SRF=0;SRP=3386.16;SRR=1558;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:159:157,1:157:5565:1:36:0,-44.3243,-497.378 0/0:73:73,0:73:2574:0:0:0,-21.9752,-231.907 0/0:83:83,0:83:2964:0:0:0,-24.9855,-266.994 0/1:77:47,30:47:1667:30:1064:-72.8924,0,-127.137 0/0:174:174,0:174:6183:0:0:0,-52.3792,-556.57 0/0:138:138,0:138:4923:0:0:0,-41.5421,-442.119 0/1:126:63,63:63:2236:63:2240:-163.932,0,-163.572 1/1:104:0,104:0:0:104:3716:-334.408,-31.3071,0 0/0:215:215,0:215:7639:0:0:0,-64.7214,-687.551 0/0:27:27,0:27:951:0:0:0,-8.12781,-85.9043 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:32:16,16:16:576:16:576:-42.542,0,-42.542 0/1:111:53,58:53:1876:58:2080:-154.056,0,-135.702 0/0:139:139,0:139:4907:0:0:0,-41.8432,-441.155 0/1:159:89,70:89:3171:70:2484:-175.862,0,-237.75 0/1:52:28,24:28:1008:24:838:-60.0453,0,-75.3828 0/0:89:89,0:89:3165:0:0:0,-26.7917,-285.074 0/1:31:18,13:18:644:13:468:-33.1277,0,-48.9587 0/1:16:12,4:12:432:4:144:-8.49714,0,-34.4047 0/0:106:104,2:104:3727:2:72:0,-25.0725,-328.793 0/0:25:25,0:25:880:0:0:0,-7.52575,-79.5177 chr07 19231601 . CATA GATG,CATG 96575.1 PASS AB=0.658363,0.338078;ABP=309.064,322.974;AC=32,10;AF=0.761905,0.238095;AN=42;AO=3911,556;CIGAR=1X2M1X,3M1X;DP=4483;DPB=4483.75;DPRA=3.10704,1.49861;EPP=8495.64,1210.35;EPPR=5.18177;GTI=3;LEN=4,1;MEANALT=2.35,2.84615;MQM=58.6766,59.9928;MQMR=60;NS=21;NUMALT=2;ODDS=4.54426;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=0;QA=138264,19818;QR=36;RO=1;RPL=0,0;RPP=8495.64,1210.35;RPPR=5.18177;RPR=3911,556;RUN=1,1;SAF=3911,556;SAP=8495.64,1210.35;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,136,0:0:0:136,0:4739,0:-426.583,-40.9401,0,-426.583,-40.9401,-426.583 1/1:146:0,146,0:0:0:146,0:5165,0:-464.54,-43.9504,0,-464.54,-43.9504,-464.54 1/1:105:0,105,0:0:0:105,0:3721,0:-334.86,-31.6082,0,-334.86,-31.6082,-334.86 1/2:210:0,114,95:0:0:114,95:4001,3363:-599.494,-273.985,-239.668,-325.56,0,-296.962 1/1:653:0,644,5:0:0:644,5:22653,180:-2036.02,-193.863,0,-2021.33,-179.173,-2019.83 1/1:60:0,60,0:0:0:60,0:2093,0:-188.457,-18.0618,0,-188.457,-18.0618,-188.457 1/2:198:0,123,74:0:0:123,74:4378,2652:-572.751,-216.398,-179.372,-356.457,0,-334.181 2/2:71:0,0,71:0:0:0,71:0,2541:-228.939,-228.939,-228.939,-21.3731,-21.3731,0 1/1:227:0,226,0:0:0:226,0:7973,0:-716.876,-68.0328,0,-716.876,-68.0328,-716.876 1/1:387:0,387,0:0:0:387,0:13766,0:-1238.31,-116.499,0,-1238.31,-116.499,-1238.31 1/1:839:0,834,2:0:0:834,2:29504,72:-2650.27,-251.059,0,-2644.39,-245.184,-2643.79 1/2:146:0,124,21:0:0:124,21:4403,756:-420.254,-61.6858,-24.358,-358.567,0,-352.246 1/2:248:1,142,105:1:36:142,105:5036,3738:-711.148,-301.654,-261.845,-406.793,0,-378.123 1/1:183:0,181,0:0:0:181,0:6422,0:-577.714,-54.4864,0,-577.714,-54.4864,-577.714 1/2:117:0,68,49:0:0:68,49:2424,1760:-341.454,-143.933,-123.463,-197.878,0,-183.128 1/2:87:0,56,30:0:0:56,30:1990,1051:-247.556,-85.5467,-68.689,-162.04,0,-153.009 1/1:108:0,106,2:0:0:106,2:3743,68:-336.629,-31.9092,0,-331.114,-26.0836,-330.512 1/2:294:0,251,43:0:0:251,43:8915,1533:-851.42,-125.317,-49.7583,-726.46,0,-713.515 1/2:105:0,47,58:0:0:47,58:1686,2072:-306.746,-169.289,-155.14,-137.815,0,-120.356 1/1:102:0,100,1:0:0:100,1:3504,32:-314.957,-30.103,0,-312.379,-27.5446,-312.078 1/1:61:0,61,0:0:0:61,0:2148,0:-193.399,-18.3628,0,-193.399,-18.3628,-193.399 chr07 19231644 . T C 82121.9 PASS AB=0.653763;ABP=289.491;AC=32;AF=0.761905;AN=42;AO=3848;CIGAR=1X;DP=4417;DPB=4417;DPRA=2.93446;EPP=8358.84;EPPR=1234.24;GTI=2;LEN=1;MEANALT=1.1;MQM=58.6835;MQMR=59.9594;NS=21;NUMALT=1;ODDS=6.78976;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=135725;QR=20225;RO=567;RPL=3848;RPP=8358.84;RPPR=1234.24;RPR=0;RUN=1;SAF=3848;SAP=8358.84;SAR=0;SRF=567;SRP=1234.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:134:0,134:0:0:134:4676:-420.906,-40.338,0 1/1:143:0,143:0:0:143:5069:-456.112,-43.0473,0 1/1:109:0,109:0:0:109:3845:-346.028,-32.8123,0 0/1:205:94,111:94:3356:111:3936:-292.579,0,-240.546 1/1:639:5,634:5:172:634:22325:-1990.96,-176.54,0 1/1:58:0,58:0:0:58:2058:-185.216,-17.4597,0 0/1:194:74,120:74:2641:120:4223:-321.419,0,-179.535 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.645 1/1:223:0,223:0:0:223:7817:-703.452,-67.1297,0 1/1:380:0,379:0:0:379:13402:-1205.3,-114.09,0 1/1:814:2,812:2:72:812:28791:-2579.49,-238.202,0 0/1:149:21,128:21:741:128:4524:-362.206,0,-22.1581 0/1:246:109,137:109:3849:137:4858:-363.02,0,-272.55 1/1:181:0,181:0:0:181:6433:-579.017,-54.4864,0 0/1:118:50,68:50:1792:68:2410:-181.581,0,-126.041 0/1:86:31,55:31:1107:55:1955:-150.231,0,-74.0516 1/1:109:2,107:2:72:107:3717:-327.838,-25.9755,0 0/1:292:45,246:45:1616:246:8553:-681.598,0,-57.7008 0/1:105:58,47:58:2075:47:1651:-117.203,0,-155.411 1/1:98:1,97:1:36:97:3427:-304.806,-25.9027,0 1/1:60:1,59:1:36:59:2055:-181.477,-14.4645,0 chr07 19238298 . GA CG,CA 42901.7 PASS AB=0.675159,0.323248;ABP=170.366,173.422;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1699,278;CIGAR=2X,1X1M;DP=1987;DPB=1993;DPRA=1.3493,1.0053;EPP=3605.99,598.025;EPPR=9.52472;GTI=0;LEN=2,1;MEANALT=1.9,2.16667;MQM=54.0571,59.9281;MQMR=55.6667;NS=21;NUMALT=2;ODDS=23.93;PAIRED=0,0;PAIREDR=0;PAO=6,6;PQA=214,214;PQR=0;PRO=0;QA=59822,9908;QR=95;RO=3;RPL=1690,277;RPP=3614.58,598.025;RPPR=9.52472;RPR=9,1;RUN=1,1;SAF=1,0;SAP=3683.66,606.68;SAR=1698,278;SRF=3;SRP=9.52472;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:165:2,161,1:2:72:161,1:5664,36:-501.317,-42.5909,0,-498.981,-45.5284,-504.555 1/1:97:0,97,0:0:0:97,0:3420,0:-304.53,-29.1999,0,-304.53,-29.1999,-304.53 1/1:106:0,106,0:0:0:106,0:3727,0:-335.159,-31.9092,0,-335.159,-31.9092,-335.159 1/2:86:0,62,24:0:0:62,24:2222,864:-251.395,-70.6702,-52.0063,-181.026,0,-173.802 1/1:168:0,167,0:0:0:167,0:5810,0:-521.675,-50.272,0,-521.675,-50.272,-521.675 1/1:122:0,121,1:0:0:121,1:4281,36:-383.048,-36.4246,0,-380.111,-33.1274,-379.81 1/2:177:0,138,38:0:0:138,38:4841,1360:-502.7,-111.009,-69.4667,-391.794,0,-380.355 2/2:71:0,0,71:0:0:0,71:0,2499:-225.16,-225.16,-225.16,-21.3731,-21.3731,0 1/1:160:0,158,0:0:0:158,0:5557,0:-498.734,-47.5627,0,-498.734,-47.5627,-498.734 1/1:15:0,15,0:0:0:15,0:534,0:-47.425,-4.51545,0,-47.425,-4.51545,-47.425 1/1:6:0,6,0:0:0:6,0:214,0:-19.4339,-1.80618,0,-19.4339,-1.80618,-19.4339 1/1:15:0,14,1:0:0:14,1:487,32:-43.7577,-4.21442,0,-41.1812,-1.31614,-40.8802 1/2:71:0,34,37:0:0:34,37:1187,1328:-204.901,-108.684,-98.4491,-96.5698,0,-85.4317 1/1:146:1,145,0:1:23:145,0:5085,0:-453.971,-41.6521,0,-454.272,-43.6494,-456.039 1/2:90:0,49,41:0:0:49,41:1743,1472:-262.199,-120.434,-105.683,-142.122,0,-129.78 1/2:69:0,52,17:0:0:52,17:1816,612:-196.894,-50.2959,-34.6424,-146.955,0,-141.837 1/1:80:0,79,0:0:0:79,0:2793,0:-250.44,-23.7814,0,-250.44,-23.7814,-250.44 1/2:64:0,35,29:0:0:35,29:1220,1040:-184.251,-85.1845,-74.6484,-99.4203,0,-90.6904 1/2:71:0,54,17:0:0:54,17:1938,593:-206.437,-48.5772,-32.3216,-158.211,0,-153.094 1/1:137:0,135,1:0:0:135,1:4760,36:-426.744,-40.6391,0,-423.806,-37.7016,-423.505 1/1:71:0,71,0:0:0:71,0:2523,0:-225.747,-21.3731,0,-225.747,-21.3731,-225.747 chr07 19238320 . A G 36532.4 PASS AB=0.674121;ABP=167.862;AC=33;AF=0.785714;AN=42;AO=1685;CIGAR=1X;DP=1965;DPB=1965;DPRA=1.3338;EPP=3661.94;EPPR=611.023;GTI=0;LEN=1;MEANALT=1;MQM=54.105;MQMR=59.9286;NS=21;NUMALT=1;ODDS=25.0792;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60320;QR=9985;RO=280;RPL=1685;RPP=3661.94;RPPR=611.023;RPR=0;RUN=1;SAF=0;SAP=3661.94;SAR=1685;SRF=0;SRP=611.023;SRR=280;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:1,161:1:36:161:5756:-511.91,-45.1686,0 1/1:95:0,95:0:0:95:3404:-303.088,-28.5979,0 1/1:103:0,103:0:0:103:3700:-332.61,-31.0061,0 0/1:86:24,62:24:864:62:2209:-172.661,0,-52.064 1/1:166:0,166:0:0:166:5936:-532.852,-49.971,0 1/1:122:1,121:1:36:121:4344:-384.501,-33.1274,0 0/1:174:38,136:38:1356:136:4864:-383.022,0,-69.9613 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.211 1/1:156:1,155:1:36:155:5560:-496.625,-43.3624,0 1/1:15:0,15:0:0:15:540:-47.9608,-4.51545,0 1/1:6:0,6:0:0:6:208:-18.8344,-1.80618,0 1/1:15:1,14:1:36:14:496:-41.2914,-0.917175,0 0/1:72:38,34:38:1349:34:1216:-87.7396,0,-100.034 1/1:143:0,143:0:0:143:5091:-456.767,-43.0473,0 0/1:90:41,49:41:1453:49:1756:-130.945,0,-103.971 0/1:70:18,52:18:644:52:1860:-145.377,0,-37.2185 1/1:77:0,77:0:0:77:2760:-247.828,-23.1793,0 0/1:63:28,35:28:987:35:1248:-93.507,0,-70.1781 0/1:71:17,54:17:608:54:1936:-152.919,0,-33.6789 1/1:138:1,137:1:36:137:4920:-438.114,-37.9439,0 1/1:70:0,70:0:0:70:2516:-225.137,-21.0721,0 chr07 19251211 . T C 14837 PASS AB=0.453704;ABP=39.2015;AC=21;AF=0.5;AN=42;AO=882;CIGAR=1X;DP=1944;DPB=1944;DPRA=0;EPP=1815.44;EPPR=2227.26;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9705;MQMR=59.9915;NS=21;NUMALT=1;ODDS=34.7944;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31450;QR=37840;RO=1060;RPL=12;RPP=1815.44;RPPR=2227.26;RPR=870;RUN=1;SAF=882;SAP=1918.25;SAR=0;SRF=1060;SRP=2304.77;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:43,53:43:1544:53:1904:-142.739,0,-110.354 0/1:72:44,28:44:1576:28:997:-68.3697,0,-120.457 0/1:86:39,47:39:1392:47:1684:-125.958,0,-99.6891 0/1:63:34,29:34:1220:29:1036:-74.5875,0,-91.1419 0/1:227:88,138:88:3115:138:4940:-376.506,0,-212.329 0/1:51:19,32:19:680:32:1144:-87.917,0,-46.1766 0/1:240:163,77:163:5783:77:2693:-170.364,0,-448.338 0/1:63:37,26:37:1294:26:921:-64.2403,0,-97.7921 0/1:273:159,114:159:5705:114:4062:-283.584,0,-431.383 0/1:27:20,7:20:701:7:252:-14.9011,0,-55.2839 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:37:25,12:25:896:12:428:-27.7207,0,-69.8222 0/1:118:75,43:75:2700:43:1544:-103.732,0,-207.722 0/1:136:87,49:87:3116:49:1725:-114.593,0,-239.726 0/1:134:58,76:58:2046:76:2716:-204.336,0,-144.07 0/1:49:19,30:19:684:30:1080:-82.7628,0,-47.1399 0/1:53:30,23:30:1080:23:828:-58.8895,0,-81.5587 0/1:13:4,9:4:144:9:315:-24.7738,0,-9.40023 0/1:22:10,12:10:360:12:428:-32.2361,0,-26.1216 0/1:131:73,57:73:2616:57:2033:-143.894,0,-196.342 0/1:44:30,14:30:1080:14:504:-32.4528,0,-84.2679 chr07 19251227 . C T 18585.5 PASS AB=0.545874;ABP=38.6721;AC=21;AF=0.5;AN=42;AO=1065;CIGAR=1X;DP=1951;DPB=1951;DPRA=0;EPP=2315.63;EPPR=1926.93;GTI=0;LEN=1;MEANALT=1;MQM=59.984;MQMR=59.9029;NS=21;NUMALT=1;ODDS=28.6794;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38072;QR=31569;RO=886;RPL=1065;RPP=2315.63;RPPR=1926.93;RPR=0;RUN=1;SAF=1065;SAP=2315.63;SAR=0;SRF=886;SRP=1926.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:53,44:53:1904:44:1567:-112.121,0,-142.438 0/1:71:27,44:27:964:44:1541:-117.606,0,-65.7037 0/1:85:47,38:47:1669:38:1356:-96.7516,0,-124.908 0/1:65:31,34:31:1112:34:1224:-90.9001,0,-80.5951 0/1:228:142,86:142:5035:86:3091:-209.782,0,-384.649 0/1:51:33,18:33:1165:18:644:-42.9381,0,-89.8025 0/1:239:77,162:77:2734:162:5805:-450.616,0,-174.357 0/1:64:26,38:26:919:38:1364:-103.795,0,-63.7602 0/1:270:111,159:111:3963:159:5691:-431.03,0,-275.314 0/1:27:7,20:7:224:20:705:-55.645,0,-12.345 0/1:9:6,3:6:212:3:104:-6.99354,0,-16.7155 0/1:36:11,25:11:392:25:886:-69.221,0,-24.783 0/1:120:44,76:44:1571:76:2728:-209.639,0,-105.557 0/1:137:48,89:48:1705:89:3146:-242.122,0,-112.493 0/1:136:76,60:76:2736:60:2152:-153.007,0,-205.315 0/1:48:30,18:30:1076:18:648:-44.2024,0,-82.7034 0/1:54:23,31:23:824:31:1116:-84.4961,0,-58.2277 0/1:13:9,4:9:316:4:140:-9.03119,0,-24.8655 0/1:22:12,10:12:428:10:360:-26.1216,0,-32.2361 0/1:135:59,76:59:2116:76:2728:-205.113,0,-150.07 0/1:44:14,30:14:504:30:1076:-83.9075,0,-32.4528 chr07 19356205 . A G 6967.2 PASS AB=0.486226;ABP=4.2067;AC=10;AF=0.238095;AN=42;AO=408;CIGAR=1X;DP=1800;DPB=1800;DPRA=1.34175;EPP=888.971;EPPR=3008.35;GTI=0;LEN=1;MEANALT=1;MQM=59.9216;MQMR=59.982;NS=21;NUMALT=1;ODDS=12.6265;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14557;QR=49549;RO=1392;RPL=0;RPP=888.971;RPPR=3017.02;RPR=408;RUN=1;SAF=0;SAP=888.971;SAR=408;SRF=1;SRP=3017.02;SRR=1391;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2640:0:0:0,-22.2762,-237.847 0/0:92:92,0:92:3296:0:0:0,-27.6948,-296.859 0/0:102:102,0:102:3614:0:0:0,-30.7051,-325.465 0/1:134:63,71:63:2240:71:2528:-187.432,0,-161.526 0/0:165:165,0:165:5890:0:0:0,-49.6699,-530.211 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 0/1:173:91,82:91:3222:82:2937:-212.485,0,-238.126 1/1:51:0,51:0:0:51:1813:-163.45,-15.3525,0 0/0:143:142,1:142:5079:1:36:0,-39.449,-453.656 0/0:6:6,0:6:197:0:0:0,-1.80618,-18.0513 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:33:13,20:13:460:20:712:-54.4727,0,-31.8014 0/1:96:53,43:53:1904:43:1548:-110.714,0,-142.421 0/0:78:78,0:78:2753:0:0:0,-23.4803,-248.012 0/1:72:29,43:29:1040:43:1523:-115.629,0,-72.2402 0/1:72:38,34:38:1351:34:1203:-86.9009,0,-100.215 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 0/1:58:26,32:26:911:32:1145:-85.8995,0,-64.8452 0/1:88:60,28:60:2128:28:1004:-64.1852,0,-165.298 0/0:153:150,3:150:5317:3:108:0,-35.9824,-468.591 0/0:70:70,0:70:2487:0:0:0,-21.0721,-224.083 chr07 19616709 . A G 26899.3 PASS AB=0.461027;ABP=16.8896;AC=32;AF=0.761905;AN=42;AO=1374;CIGAR=1X;DP=2017;DPB=2017;DPRA=1.31284;EPP=2986.61;EPPR=1399.27;GTI=1;LEN=1;MEANALT=1;MQM=53.8188;MQMR=59.3593;NS=21;NUMALT=1;ODDS=1.85445;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47684;QR=22843;RO=643;RPL=0;RPP=2986.61;RPPR=1399.27;RPR=1374;RUN=1;SAF=0;SAP=2986.61;SAR=1374;SRF=0;SRP=1399.27;SRR=643;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40:0:0:40:1374:-123.34,-12.0412,0 1/1:69:0,69:0:0:69:2433:-218.122,-20.7711,0 1/1:65:1,64:1:36:64:2189:-192.507,-15.9687,0 0/1:94:54,40:54:1928:40:1370:-95.1093,0,-144.362 1/1:203:0,203:0:0:203:7038:-631.646,-61.1091,0 1/1:51:0,51:0:0:51:1797:-161.229,-15.3525,0 0/1:181:101,80:101:3607:80:2762:-193.197,0,-270.19 0/0:74:74,0:74:2631:0:0:0,-22.2762,-236.5 1/1:146:1,145:1:21:145:5083:-453.934,-41.8504,0 1/1:14:0,14:0:0:14:483:-43.7377,-4.21442,0 1/1:7:0,7:0:0:7:244:-22.2514,-2.10721,0 0/1:25:17,8:17:612:8:288:-18.6386,0,-47.8021 0/1:137:78,59:78:2726:59:2061:-143.822,0,-204.337 1/1:66:0,66:0:0:66:2304:-206.839,-19.868,0 0/1:91:45,46:45:1605:46:1585:-115.416,0,-117.337 0/1:219:119,100:119:4213:100:3466:-245.685,0,-313.38 1/1:74:0,74:0:0:74:2574:-231.65,-22.2762,0 0/1:225:118,107:118:4212:107:3738:-267.184,0,-311.363 0/1:80:35,45:35:1252:45:1569:-116.641,0,-88.9003 1/1:56:0,56:0:0:56:1940:-174.193,-16.8577,0 1/1:100:0,100:0:0:100:3386:-303.236,-30.103,0 chr07 19621077 . GG GA 29869.2 PASS AB=0.531915;ABP=11.3266;AC=32;AF=0.761905;AN=42;AO=1415;CIGAR=1M1X;DP=1931;DPB=1931;DPRA=1.43538;EPP=3041;EPPR=1050.49;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9774;MQMR=59.9922;NS=21;NUMALT=1;ODDS=2.4394;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50626;QR=17862;RO=510;RPL=1411;RPP=3041;RPPR=1050.49;RPR=4;RUN=1;SAF=0;SAP=3075.64;SAR=1415;SRF=0;SRP=1110.46;SRR=510;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35:0:0:35:1239:-111.814,-10.5361,0 1/1:63:0,59:0:0:59:2116:-190.349,-17.7608,0 1/1:106:1,105:1:36:105:3758:-334.816,-28.3109,0 0/1:155:69,85:69:2386:85:3027:-225.943,0,-168.278 1/1:168:0,168:0:0:168:6012:-541.185,-50.573,0 1/1:104:0,104:0:0:104:3715:-334.552,-31.3071,0 0/1:147:67,80:67:2349:80:2880:-215.182,0,-167.416 0/0:65:65,0:65:2255:0:0:0,-19.5669,-203.209 1/1:122:0,121:0:0:121:4344:-390.883,-36.4246,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:26:16,10:16:554:10:356:-24.5526,0,-42.3585 0/1:90:39,51:39:1378:51:1820:-136.988,0,-97.2264 1/1:80:0,80:0:0:80:2856:-257.276,-24.0824,0 0/1:159:87,72:87:3096:72:2583:-184.854,0,-231.005 0/1:71:39,32:39:1349:32:1148:-82.2567,0,-100.331 1/1:88:0,88:0:0:88:3156:-284.265,-26.4906,0 0/1:210:104,106:104:3652:106:3808:-279.7,0,-265.67 0/1:82:18,64:18:631:64:2268:-179.697,0,-32.4309 1/1:82:1,81:1:34:81:2891:-257.027,-21.2855,0 1/1:62:4,58:4:142:58:2073:-173.709,-5.53465,0 chr07 19626465 . TTAA CTAG,TTAG 60849.4 PASS AB=0.522135,0.47526;ABP=6.27882,7.09312;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1734,492;CIGAR=1X2M1X,3M1X;DP=2230;DPB=2230;DPRA=0.849194,1.37516;EPP=94.3023,68.7018;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.75,2.08333;MQM=55.3806,59.9167;MQMR=0;NS=21;NUMALT=2;ODDS=16.7695;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61033,17457;QR=0;RO=0;RPL=1,0;RPP=3759.66,1071.37;RPPR=0;RPR=1733,492;RUN=1,1;SAF=733,185;SAP=92.9548,68.7018;SAR=1001,307;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,112,0:0:0:112,0:3956,0:-354.525,-33.7154,0,-354.525,-33.7154,-354.525 1/1:108:0,106,0:0:0:106,0:3718,0:-334.163,-31.9092,0,-334.163,-31.9092,-334.163 1/1:88:0,88,0:0:0:88,0:3083,0:-277.246,-26.4906,0,-277.246,-26.4906,-277.246 1/2:113:0,60,52:0:0:60,52:2113,1852:-321.766,-150.947,-132.885,-170.813,0,-155.16 1/1:196:0,195,1:0:0:195,1:6883,36:-616.986,-58.7009,0,-614.049,-55.4036,-613.748 1/1:108:0,108,0:0:0:108,0:3802,0:-341.507,-32.5112,0,-341.507,-32.5112,-341.507 1/2:120:0,57,63:0:0:57,63:2005,2221:-344.22,-181.186,-164.027,-163.386,0,-144.421 2/2:124:0,0,124:0:0:0,124:0,4385:-394.772,-394.772,-394.772,-37.3277,-37.3277,0 1/1:211:0,210,1:0:0:210,1:7384,36:-662.977,-63.2163,0,-660.039,-59.9191,-659.738 1/1:15:0,15,0:0:0:15,0:527,0:-47.7349,-4.51545,0,-47.7349,-4.51545,-47.7349 1/1:8:0,8,0:0:0:8,0:265,0:-23.8172,-2.40824,0,-23.8172,-2.40824,-23.8172 1/2:31:0,19,12:0:0:19,12:670,432:-90.0756,-35.6088,-29.8893,-54.8235,0,-51.2112 1/2:133:0,73,60:0:0:73,60:2562,2121:-381.164,-173.095,-151.12,-208.42,0,-190.358 1/1:156:0,156,0:0:0:156,0:5458,0:-489.106,-46.9607,0,-489.106,-46.9607,-489.106 1/2:108:0,61,47:0:0:61,47:2124,1677:-309.35,-137.068,-118.706,-172.635,0,-158.486 1/2:78:0,26,52:0:0:26,52:902,1868:-225.568,-152.746,-144.919,-73.1716,0,-57.518 1/1:80:0,80,0:0:0:80,0:2843,0:-255.023,-24.0824,0,-255.023,-24.0824,-255.023 1/2:75:0,31,43:0:0:31,43:1095,1531:-213.761,-124.709,-115.377,-89.0466,0,-76.1023 1/2:110:0,74,36:0:0:74,36:2614,1266:-315.061,-103.404,-81.1278,-212.008,0,-201.171 1/1:144:0,143,1:0:0:143,1:5077,32:-455.346,-43.0473,0,-452.768,-40.149,-452.467 1/1:112:0,112,0:0:0:112,0:3952,0:-354.933,-33.7154,0,-354.933,-33.7154,-354.933 chr07 19626492 . G A,T 62238.1 PASS AB=0.516297,0.483703;ABP=4.77975,4.77975;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1742,502;CIGAR=1X,1X;DP=2244;DPB=2244;DPRA=0.840476,1.3485;EPP=3759.7,1093.09;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.55,1.91667;MQM=55.5189,59.8765;MQMR=0;NS=21;NUMALT=2;ODDS=16.261;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62203,17976;QR=0;RO=0;RPL=718,185;RPP=119.731,78.3803;RPPR=0;RPR=1024,317;RUN=1,1;SAF=715,185;SAP=124.353,78.3803;SAR=1027,317;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106,0:0:0:106,0:3777,0:-338.804,-31.9092,0,-338.804,-31.9092,-338.804 1/1:115:0,115,0:0:0:115,0:4112,0:-369.606,-34.6185,0,-369.606,-34.6185,-369.606 1/1:90:0,90,0:0:0:90,0:3222,0:-289.878,-27.0927,0,-289.878,-27.0927,-289.878 1/2:113:0,61,52:0:0:61,52:2183,1857:-328.025,-151.756,-133.393,-176.626,0,-160.972 1/1:194:0,193,1:0:0:193,1:6900,36:-618.502,-58.0988,0,-615.564,-54.8015,-615.263 1/1:114:0,114,0:0:0:114,0:4081,0:-366.52,-34.3174,0,-366.52,-34.3174,-366.52 1/2:117:0,54,63:0:0:54,63:1893,2260:-338.498,-184.698,-168.442,-154.154,0,-135.189 2/2:126:0,0,126:0:0:0,126:0,4518:-406.733,-406.733,-406.733,-37.9298,-37.9298,0 1/1:208:0,206,2:0:0:206,2:7367,72:-661.308,-62.0122,0,-655.451,-55.7961,-654.849 1/1:16:0,16,0:0:0:16,0:576,0:-52.149,-4.81648,0,-52.149,-4.81648,-52.149 1/1:8:0,8,0:0:0:8,0:280,0:-25.3555,-2.40824,0,-25.3555,-2.40824,-25.3555 1/2:31:0,19,12:0:0:19,12:684,432:-91.3346,-35.6088,-29.8893,-56.0854,0,-52.473 1/2:134:0,71,63:0:0:71,63:2526,2249:-389.101,-183.706,-162.333,-205.751,0,-186.786 1/1:155:0,155,0:0:0:155,0:5551,0:-497.287,-46.6597,0,-497.287,-46.6597,-497.287 1/2:112:0,61,51:0:0:61,51:2176,1819:-325.555,-148.638,-130.275,-177.273,0,-161.92 1/2:76:0,24,52:0:0:24,52:851,1872:-222.225,-153.097,-145.873,-69.4833,0,-53.8298 1/1:80:0,80,0:0:0:80,0:2868,0:-257.183,-24.0824,0,-257.183,-24.0824,-257.183 1/2:76:0,33,43:0:0:33,43:1176,1529:-220.664,-124.939,-115.005,-96.0808,0,-83.1365 1/2:108:0,73,35:0:0:73,35:2593,1260:-313.407,-103.169,-81.1942,-210.596,0,-200.06 1/1:147:0,145,2:0:0:145,2:5170,72:-463.77,-43.6494,0,-457.895,-37.4147,-457.293 1/1:118:0,118,0:0:0:118,0:4217,0:-378.805,-35.5215,0,-378.805,-35.5215,-378.805 chr07 19785039 . G C 37599.1 PASS AB=0.504634;ABP=3.19144;AC=32;AF=0.761905;AN=42;AO=1746;CIGAR=1X;DP=2378;DPB=2378;DPRA=0.837313;EPP=3622.67;EPPR=1338.69;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9897;MQMR=60;NS=21;NUMALT=1;ODDS=5.14137;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62117;QR=22148;RO=631;RPL=20;RPP=3622.67;RPPR=1338.69;RPR=1726;RUN=1;SAF=0;SAP=3794.4;SAR=1746;SRF=0;SRP=1373.21;SRR=631;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:146:0,146:0:0:146:5177:-466.07,-43.9504,0 1/1:32:0,32:0:0:32:1140:-102.909,-9.63296,0 1/1:144:0,144:0:0:144:5115:-460.489,-43.3483,0 0/1:120:67,53:67:2368:53:1895:-134.704,0,-177.253 1/1:188:13,174:13:468:174:6180:-513.84,-14.1928,0 1/1:95:3,92:3:108:92:3271:-284.533,-18.5227,0 0/1:132:67,65:67:2368:65:2316:-168.965,0,-173.641 0/0:134:134,0:134:4671:0:0:0,-40.338,-420.557 1/1:318:0,318:0:0:318:11346:-1021.02,-95.7275,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:17:0,17:0:0:17:593:-53.6947,-5.11751,0 0/1:40:20,20:20:711:20:716:-52.7265,0,-52.2744 0/1:233:133,100:133:4649:100:3569:-251.277,0,-348.432 1/1:112:0,112:0:0:112:3990:-359.289,-33.7154,0 0/1:191:91,100:91:3212:100:3575:-264.46,0,-231.804 0/1:27:11,16:11:396:16:572:-43.6856,0,-27.8549 1/1:33:0,33:0:0:33:1176:-106.148,-9.93399,0 0/1:113:66,47:66:2306:47:1640:-113.869,0,-173.782 0/1:115:26,89:26:891:89:3156:-249.646,0,-45.8808 1/1:130:0,130:0:0:130:4618:-415.775,-39.1339,0 1/1:50:0,50:0:0:50:1784:-160.843,-15.0515,0 chr07 19821643 . C A 23050.6 PASS AB=0.453947;ABP=14.2105;AC=32;AF=0.761905;AN=42;AO=1079;CIGAR=1X;DP=1487;DPB=1487;DPRA=0.941333;EPP=2346.03;EPPR=886.8;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7303;MQMR=59.9951;NS=21;NUMALT=1;ODDS=2.40322;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38658;QR=14516;RO=407;RPL=1079;RPP=2346.03;RPPR=886.8;RPR=0;RUN=1;SAF=0;SAP=2346.03;SAR=1079;SRF=0;SRP=886.8;SRR=407;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,97:0:0:97:3467:-312.214,-29.1999,0 1/1:45:0,45:0:0:45:1620:-146.074,-13.5464,0 1/1:59:0,59:0:0:59:2116:-190.706,-17.7608,0 0/1:131:72,59:72:2553:59:2124:-151.986,0,-190.585 1/1:126:0,126:0:0:126:4524:-407.05,-37.9298,0 1/1:74:0,74:0:0:74:2641:-237.911,-22.2762,0 0/1:130:71,59:71:2548:59:2120:-151.93,0,-190.436 0/0:75:75,0:75:2696:0:0:0,-22.5772,-242.884 1/1:140:0,139:0:0:139:4988:-448.687,-41.8432,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:33:27,6:27:949:6:212:-9.49081,0,-75.7888 0/1:109:38,71:38:1360:71:2526:-194.756,0,-89.8883 1/1:79:0,79:0:0:79:2816:-253.675,-23.7814,0 0/1:79:41,38:41:1449:38:1352:-98.1853,0,-106.923 0/1:32:19,13:19:669:13:468:-32.8267,0,-50.901 1/1:60:0,60:0:0:60:2148:-193.585,-18.0618,0 0/1:42:28,14:28:1000:14:500:-32.6883,0,-77.6721 0/1:52:36,16:36:1292:16:576:-36.5214,0,-100.93 1/1:69:0,69:0:0:69:2480:-223.447,-20.7711,0 1/1:41:0,41:0:0:41:1476:-133.075,-12.3422,0 chr07 19945770 . T C 7038.84 PASS AB=0.501592;ABP=3.02413;AC=10;AF=0.238095;AN=42;AO=403;CIGAR=1X;DP=1409;DPB=1409;DPRA=2.27487;EPP=878.114;EPPR=2183.17;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9777;MQMR=59.9482;NS=21;NUMALT=1;ODDS=4.03368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14417;QR=36019;RO=1004;RPL=0;RPP=878.114;RPPR=2183.17;RPR=403;RUN=1;SAF=0;SAP=878.114;SAR=403;SRF=0;SRP=2183.17;SRR=1004;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.407 0/0:54:54,0:54:1944:0:0:0,-16.2556,-175.236 0/1:59:24,34:24:860:34:1224:-92.7445,0,-59.9982 0/0:141:136,5:136:4869:5:180:0,-25.8932,-421.809 0/0:62:61,1:61:2180:1:36:0,-15.0656,-192.868 0/1:147:73,74:73:2620:74:2664:-195.754,0,-191.796 1/1:79:0,79:0:0:79:2817:-253.757,-23.7814,0 0/0:143:142,1:142:5104:1:36:0,-39.449,-455.9 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:19:18,0:18:648:0:0:0,-5.41854,-58.2921 0/1:22:12,10:12:428:10:360:-26.1216,0,-32.2361 0/1:44:10,34:10:360:34:1220:-96.8615,0,-19.499 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.537 0/1:127:66,61:66:2368:61:2188:-158.955,0,-175.147 0/1:69:37,32:37:1317:32:1129:-81.1453,0,-98.0588 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.858 0/1:116:63,53:63:2264:53:1883:-134.828,0,-169.103 0/1:44:27,17:27:972:17:608:-41.8067,0,-74.5526 0/0:56:54,2:54:1944:2:72:0,-10.021,-168.399 0/0:60:60,0:60:2145:0:0:0,-18.0618,-193.312 chr07 19945783 . C G 20471.6 PASS AB=0.499205;ABP=3.01375;AC=32;AF=0.761905;AN=42;AO=993;CIGAR=1X;DP=1398;DPB=1398;DPRA=0.82375;EPP=2159.28;EPPR=871.621;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9335;MQMR=59.9777;NS=21;NUMALT=1;ODDS=3.58914;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35250;QR=14386;RO=404;RPL=0;RPP=2159.28;RPPR=871.621;RPR=993;RUN=1;SAF=0;SAP=2159.28;SAR=993;SRF=0;SRP=880.285;SRR=404;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 1/1:28:0,28:0:0:28:1004:-90.5696,-8.42884,0 1/1:53:0,53:0:0:53:1884:-169.839,-15.9546,0 0/1:59:36,23:36:1288:23:820:-56.3617,0,-98.4628 1/1:136:5,131:5:180:131:4678:-404.629,-24.388,0 1/1:62:1,60:1:32:60:2143:-189.918,-15.5034,0 0/1:143:71,72:71:2544:72:2540:-185.803,0,-186.163 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.346 1/1:143:1,142:1:36:142:5060:-451.944,-39.449,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:19:0,19:0:0:19:668:-60.4457,-5.71957,0 0/1:24:11,13:11:392:13:453:-33.8749,0,-28.3953 0/1:46:35,11:35:1248:11:396:-22.1354,0,-98.7775 1/1:63:0,63:0:0:63:2230:-200.962,-18.9649,0 0/1:128:62,66:62:2185:66:2352:-173.393,0,-158.38 0/1:70:32,38:32:1144:38:1352:-100.908,0,-82.1974 1/1:36:0,36:0:0:36:1277:-115.224,-10.8371,0 0/1:114:52,62:52:1836:62:2201:-164.036,0,-131.2 0/1:45:16,29:16:561:29:1044:-80.7285,0,-37.2708 1/1:54:2,52:2:72:52:1820:-157.24,-9.4189,0 1/1:60:0,60:0:0:60:2076:-187.101,-18.0618,0 chr07 20009176 . TAAT CAAG 15197 PASS AB=0.419643;ABP=34.4191;AC=32;AF=0.761905;AN=42;AO=812;CIGAR=1X2M1X;DP=1238;DPB=1238;DPRA=0.588144;EPP=1766.25;EPPR=923.715;GTI=1;LEN=4;MEANALT=1.1;MQM=40.4557;MQMR=59.6368;NS=21;NUMALT=1;ODDS=1.18278;PAIRED=0;PAIREDR=0;PAO=1;PQA=32;PQR=0;PRO=0;QA=28380;QR=14860;RO=424;RPL=812;RPP=1766.25;RPPR=923.715;RPR=0;RUN=1;SAF=812;SAP=1766.25;SAR=0;SRF=424;SRP=923.715;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32:0:0:32:1136:-99.4117,-9.63296,0 1/1:19:0,18:0:0:18:614:-52.5157,-5.41854,0 1/1:25:0,25:0:0:25:888:-75.7838,-7.52575,0 0/1:51:33,18:33:1165:18:639:-40.4534,0,-89.7989 1/1:113:0,113:0:0:113:3914:-339.251,-34.0164,0 1/1:30:0,30:0:0:30:1059:-90.3388,-9.0309,0 0/1:112:68,44:68:2385:44:1532:-96.9081,0,-180.811 0/0:97:97,0:97:3401:0:0:0,-29.1999,-306.298 1/1:109:0,109:0:0:109:3767:-331.57,-32.8123,0 1/1:12:0,12:0:0:12:425:-35.8592,-3.61236,0 1/1:10:0,10:0:0:10:349:-30.0989,-3.0103,0 0/1:32:20,12:20:697:12:410:-25.8744,0,-53.4178 0/1:61:28,33:28:993:33:1131:-79.8527,0,-71.3194 1/1:94:0,94:0:0:94:3330:-290.589,-28.2968,0 0/1:108:69,38:69:2422:38:1345:-84.026,0,-185.659 0/1:26:15,11:15:525:11:379:-26.0892,0,-39.7528 1/1:31:0,31:0:0:31:1114:-96.0715,-9.33193,0 0/1:120:73,47:73:2545:47:1620:-104.839,0,-193.042 0/1:50:18,32:18:620:32:1120:-83.1046,0,-41.07 1/1:72:3,69:3:107:69:2416:-198.154,-11.692,0 1/1:34:0,34:0:0:34:1192:-101.079,-10.235,0 chr07 20027783 . TCG TCT,CCT 81685.3 PASS AB=0.487342,0.511392;ABP=5.20926,4.79146;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2659,1123;CIGAR=2M1X,1X1M1X;DP=3789;DPB=3789;DPRA=0,1.5597;EPP=5776.96,2441.57;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.95238,2.38462;MQM=59.9504,59.9706;MQMR=0;NS=21;NUMALT=2;ODDS=11.6701;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=95041,39455;QR=0;RO=0;RPL=0,0;RPP=5776.96,2441.57;RPPR=0;RPR=2659,1123;RUN=1,1;SAF=0,0;SAP=5776.96,2441.57;SAR=2659,1123;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:0,173,0:0:0:173,0:6204,0:-558.142,-52.0782,0,-558.142,-52.0782,-558.142 1/1:247:0,246,0:0:0:246,0:8779,0:-789.871,-74.0534,0,-789.871,-74.0534,-789.871 1/1:219:0,219,0:0:0:219,0:7843,0:-705.872,-65.9256,0,-705.872,-65.9256,-705.872 1/2:192:0,82,110:0:0:82,110:2927,3877:-554.481,-316.013,-291.328,-238.823,0,-205.709 1/1:241:0,241,0:0:0:241,0:8615,0:-775.332,-72.5482,0,-775.332,-72.5482,-775.332 1/1:90:0,90,0:0:0:90,0:3209,0:-289.033,-27.0927,0,-289.033,-27.0927,-289.033 1/2:348:0,190,157:0:0:190,157:6788,5490:-1000.04,-446.599,-389.403,-553.436,0,-506.174 2/2:310:0,1,309:0:0:1,309:36,10787:-970.394,-967.457,-967.156,-93.0183,-89.721,0 1/1:301:0,299,1:0:0:299,1:10677,36:-960.474,-90.008,0,-957.537,-87.0606,-957.236 1/1:40:0,40,0:0:0:40,0:1432,0:-129.178,-12.0412,0,-129.178,-12.0412,-129.178 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:90:0,48,42:0:0:48,42:1712,1490:-261.311,-121.751,-107.301,-139.916,0,-127.273 1/2:115:0,57,58:0:0:57,58:2035,2068:-334.836,-168.93,-151.771,-166.262,0,-148.802 1/1:206:0,204,1:0:0:204,1:7315,28:-658.116,-61.4101,0,-655.897,-59.1764,-655.596 1/2:413:0,166,247:0:0:166,247:5955,8670:-1191.68,-705.956,-655.985,-486.084,0,-411.73 1/2:196:0,95,101:0:0:95,101:3405,3573:-569.077,-291.373,-262.776,-278.06,0,-247.656 1/1:177:0,176,1:0:0:176,1:6307,36:-567.35,-52.9813,0,-564.412,-49.684,-564.111 1/2:160:0,89,70:0:0:89,70:3150,2484:-459.003,-202.422,-175.63,-256.615,0,-235.543 1/2:66:0,43,23:0:0:43,23:1548,808:-192.431,-66.1162,-53.1719,-126.669,0,-119.745 1/1:143:0,139,3:0:0:139,3:4937,108:-444.122,-41.8432,0,-435.31,-33.0309,-434.407 1/1:50:0,50,0:0:0:50,0:1771,0:-159.672,-15.0515,0,-159.672,-15.0515,-159.672 chr07 20027811 . A C 56783.1 PASS AB=0.485987;ABP=5.68799;AC=32;AF=0.761905;AN=42;AO=2644;CIGAR=1X;DP=3765;DPB=3765;DPRA=0;EPP=5614.83;EPPR=2325.62;GTI=1;LEN=1;MEANALT=1;MQM=59.9512;MQMR=59.9723;NS=21;NUMALT=1;ODDS=12.051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=94466;QR=40187;RO=1121;RPL=2629;RPP=5614.83;RPPR=2325.62;RPR=15;RUN=1;SAF=0;SAP=5744.38;SAR=2644;SRF=0;SRP=2437.23;SRR=1121;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:0,174:0:0:174:6171:-555.488,-52.3792,0 1/1:241:0,241:0:0:241:8655:-778.781,-72.5482,0 1/1:222:0,222:0:0:222:7938:-714.43,-66.8287,0 0/1:188:112,76:112:4020:76:2720:-188.45,0,-305.386 1/1:235:0,235:0:0:235:8412:-757.076,-70.7421,0 1/1:88:0,88:0:0:88:3155:-284.166,-26.4906,0 0/1:342:155,187:155:5560:187:6691:-499.314,0,-397.548 0/0:310:309,1:309:11041:1:36:0,-89.721,-989.984 1/1:298:1,297:1:36:297:10591:-949.502,-86.1087,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:89:42,47:42:1508:47:1680:-124.695,0,-109.223 0/1:117:58,59:58:2088:59:2060:-150.446,0,-152.969 1/1:203:0,203:0:0:203:7243:-651.917,-61.1091,0 0/1:413:247,166:247:8876:166:5960:-412.179,0,-674.494 0/1:194:101,93:101:3614:93:3327:-241.248,0,-267.065 1/1:179:1,178:1:36:178:6343:-567.221,-50.2861,0 0/1:160:69,91:69:2476:91:3259:-245.365,0,-174.929 0/1:67:23,44:23:824:44:1580:-122.323,0,-54.3128 1/1:144:2,142:2:72:142:5080:-450.507,-36.5116,0 1/1:49:1,48:1:36:48:1701:-149.776,-11.1522,0 chr07 20063661 . CATAAAGTAT GATAGAGTT,CATAGAGTAT 75362.3 PASS AB=0.75,0.247727;ABP=480.734,489.46;AC=33,9;AF=0.785714,0.214286;AN=42;AO=3137,307;CIGAR=1X3M1X3M1D1M,4M1X5M;DP=3453;DPB=3141.7;DPRA=2.41643,0.691669;EPP=6814.92,18.635;EPPR=0;GTI=3;LEN=9,1;MEANALT=1.85,2.18182;MQM=48.5805,59.9609;MQMR=0;NS=21;NUMALT=2;ODDS=5.67566;PAIRED=0,0;PAIREDR=0;PAO=32,0;PQA=1066,0;PQR=0;PRO=0;QA=110752,10944;QR=0;RO=0;RPL=3137,307;RPP=6814.92,669.652;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,177;SAP=6814.92,18.635;SAR=3137,130;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:252:0,252,0:0:0:252,0:8854,0:-789.817,-75.8596,0,-789.817,-75.8596,-789.817 1/1:280:0,277,0:0:0:277,0:9812,0:-874.947,-83.3853,0,-874.947,-83.3853,-874.947 1/1:113:0,113,0:0:0:113,0:4014,0:-358.907,-34.0164,0,-358.907,-34.0164,-358.907 1/1:229:0,212,17:0:0:212,17:7503,604:-668.764,-63.8184,0,-619.545,-14.2453,-614.428 1/1:313:0,312,0:0:0:312,0:10996,0:-981.853,-93.9214,0,-981.853,-93.9214,-981.853 1/1:248:0,248,0:0:0:248,0:8715,0:-778.337,-74.6554,0,-778.337,-74.6554,-778.337 1/2:143:0,129,14:0:0:129,14:4538,504:-405.735,-41.1303,-2.29743,-364.61,0,-360.396 2/2:70:0,0,70:0:0:0,70:0,2488:-224.163,-224.163,-224.163,-21.0721,-21.0721,0 1/1:275:0,274,0:0:0:274,0:9706,0:-867.028,-82.4822,0,-867.028,-82.4822,-867.028 1/1:20:0,20,0:0:0:20,0:698,0:-62.3091,-6.0206,0,-62.3091,-6.0206,-62.3091 1/1:12:0,12,0:0:0:12,0:423,0:-38.1773,-3.61236,0,-38.1773,-3.61236,-38.1773 1/2:32:0,20,12:0:0:20,12:707,424:-91.8575,-34.8841,-28.8635,-57.3254,0,-53.713 1/2:157:0,119,38:0:0:119,38:4220,1360:-452.394,-110.941,-75.118,-341.489,0,-330.05 1/1:225:0,224,0:0:0:224,0:7899,0:-704.068,-67.4307,0,-704.068,-67.4307,-704.068 1/2:211:0,181,29:0:0:181,29:6414,1044:-604.078,-85.2056,-30.7191,-518.892,0,-510.162 1/2:132:0,114,18:0:0:114,18:4060,644:-381.725,-52.8721,-18.5546,-329.21,0,-323.792 1/1:234:0,232,1:0:0:232,1:8159,36:-730.556,-69.839,0,-727.619,-66.8817,-727.318 1/2:99:0,29,69:0:0:29,69:1015,2448:-279.793,-199.537,-190.807,-80.3272,0,-59.5562 1/2:106:0,68,38:0:0:68,38:2381,1356:-302.965,-110.542,-90.0716,-192.417,0,-180.978 1/1:223:0,223,0:0:0:223,0:7885,0:-701.374,-67.1297,0,-701.374,-67.1297,-701.374 1/1:79:0,78,1:0:0:78,1:2753,36:-244.919,-23.4803,0,-241.981,-20.1831,-241.68 chr07 20109093 . T C 4059.55 PASS AB=0.470852;ABP=6.30159;AC=10;AF=0.238095;AN=42;AO=247;CIGAR=1X;DP=1238;DPB=1238;DPRA=1.2678;EPP=530.713;EPPR=2146.26;GTI=0;LEN=1;MEANALT=1;MQM=54.1174;MQMR=59.9072;NS=21;NUMALT=1;ODDS=5.57285;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8724;QR=35223;RO=991;RPL=0;RPP=539.364;RPPR=2146.26;RPR=247;RUN=1;SAF=1;SAP=530.713;SAR=246;SRF=0;SRP=2154.94;SRR=991;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:95:95,0:95:3391:0:0:0,-28.5978,-304.043 0/0:53:53,0:53:1900:0:0:0,-15.9546,-171.27 0/0:50:50,0:50:1775:0:0:0,-15.0515,-160.032 0/1:40:26,14:26:904:14:486:-31.9979,0,-69.6307 0/0:121:120,1:120:4247:1:36:0,-32.8289,-378.813 0/0:66:66,0:66:2356:0:0:0,-19.868,-212.299 0/1:98:59,39:59:2094:39:1404:-96.5394,0,-159.199 1/1:35:0,35:0:0:35:1238:-110.668,-10.5361,0 0/0:119:118,1:118:4223:1:36:0,-32.2253,-376.65 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:9:9,0:9:316:0:0:0,-2.70927,-28.7789 0/1:14:10,4:10:356:4:144:-9.08032,0,-28.1668 0/1:93:46,47:46:1635:47:1675:-122.87,0,-119.442 0/0:73:73,0:73:2601:0:0:0,-21.9752,-234.337 0/1:76:34,42:34:1224:42:1492:-110.886,0,-87.5888 0/1:46:20,26:20:716:26:898:-67.2654,0,-50.8632 0/0:57:57,0:57:2024:0:0:0,-17.1587,-182.43 0/1:38:16,22:16:568:22:752:-56.1205,0,-40.0127 0/1:41:25,16:25:888:16:563:-38.5788,0,-67.8968 0/0:75:75,0:75:2653:0:0:0,-22.5772,-239.013 0/0:31:31,0:31:1064:0:0:0,-9.33193,-96.0625 chr07 20109126 . G A 4197.15 PASS AB=0.465784;ABP=7.61689;AC=10;AF=0.238095;AN=42;AO=249;CIGAR=1X;DP=1263;DPB=1263;DPRA=1.23704;EPP=535.056;EPPR=2196.21;GTI=0;LEN=1;MEANALT=1;MQM=54.0803;MQMR=59.8343;NS=21;NUMALT=1;ODDS=9.90789;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8921;QR=36296;RO=1014;RPL=249;RPP=543.707;RPPR=2196.21;RPR=0;RUN=1;SAF=1;SAP=535.056;SAR=248;SRF=0;SRP=2204.88;SRR=1014;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:98:98,0:98:3500:0:0:0,-29.5009,-313.478 0/0:57:57,0:57:2018:0:0:0,-17.1587,-181.889 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.636 0/1:40:26,14:26:936:14:504:-33.6239,0,-72.5183 0/0:120:119,1:119:4253:1:36:0,-32.5279,-379.35 0/0:66:66,0:66:2342:0:0:0,-19.868,-211.038 0/1:99:59,40:59:2120:40:1431:-98.62,0,-161.238 1/1:36:0,36:0:0:36:1296:-115.858,-10.8371,0 0/0:119:118,1:118:4208:1:36:0,-32.2253,-375.03 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:15:10,5:10:360:5:180:-12.0131,0,-28.2289 0/1:92:46,46:46:1648:46:1656:-121.461,0,-120.914 0/0:78:78,0:78:2808:0:0:0,-23.4803,-252.956 0/1:78:36,42:36:1288:42:1486:-110.237,0,-92.7432 0/1:46:20,26:20:720:26:936:-70.687,0,-51.2242 0/0:58:58,0:58:2088:0:0:0,-17.4597,-188.19 0/1:40:18,22:18:648:22:792:-59.0018,0,-46.6107 0/1:43:27,16:27:972:16:568:-38.4282,0,-74.8536 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.12 0/0:32:32,0:32:1139:0:0:0,-9.63296,-102.814 chr07 20110511 . A C 5854.81 PASS AB=0.467803;ABP=7.76451;AC=10;AF=0.238095;AN=42;AO=335;CIGAR=1X;DP=1468;DPB=1468;DPRA=1.10903;EPP=730.454;EPPR=2463.29;GTI=0;LEN=1;MEANALT=1;MQM=59.9881;MQMR=59.9788;NS=21;NUMALT=1;ODDS=11.7684;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11844;QR=40576;RO=1133;RPL=335;RPP=730.454;RPPR=2463.29;RPR=0;RUN=1;SAF=335;SAP=730.454;SAR=0;SRF=1133;SRP=2463.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.541 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/0:117:117,0:117:4204:0:0:0,-35.2205,-378.539 0/1:79:40,39:40:1436:39:1369:-99.7249,0,-105.756 0/0:122:121,1:121:4328:1:36:0,-33.1274,-386.098 0/0:94:94,0:94:3368:0:0:0,-28.2968,-303.336 0/1:76:46,30:46:1652:30:1076:-74.2746,0,-126.09 1/1:87:0,87:0:0:87:3051:-274.816,-26.1896,0 0/0:108:108,0:108:3880:0:0:0,-32.5112,-349.393 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.0111 0/1:26:12,14:12:428:14:504:-37.8713,0,-31.032 0/1:88:37,51:37:1332:51:1806:-136.33,0,-93.6917 0/0:131:131,0:131:4660:0:0:0,-39.4349,-419.534 0/1:97:49,48:49:1745:48:1695:-123.635,0,-128.132 0/1:18:9,9:9:320:9:324:-24.0873,0,-23.7238 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/1:67:33,34:33:1180:34:1214:-89.3968,0,-86.339 0/1:77:55,22:55:1972:22:769:-46.35,0,-154.576 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.122 0/0:61:61,0:61:2179:0:0:0,-18.3628,-196.376 chr07 20241123 . 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A G 70846.1 PASS AB=0.464132;ABP=18.5876;AC=32;AF=0.761905;AN=42;AO=3268;CIGAR=1X;DP=4194;DPB=4194;DPRA=1.20569;EPP=7099.38;EPPR=2000.77;GTI=0;LEN=1;MEANALT=1.1;MQM=59.5817;MQMR=60;NS=21;NUMALT=1;ODDS=25.6583;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=116702;QR=32819;RO=924;RPL=0;RPP=7099.38;RPPR=2009.45;RPR=3268;RUN=1;SAF=3268;SAP=7099.38;SAR=0;SRF=923;SRP=2000.77;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:333:1,331:1:36:331:11792:-1057.36,-96.7035,0 1/1:194:0,193:0:0:193:6928:-622.79,-58.0988,0 1/1:346:2,344:2:72:344:12285:-1098.49,-97.3197,0 0/1:285:161,124:161:5699:124:4422:-312.345,0,-427.237 1/1:394:6,388:6:216:388:13800:-1221.7,-98.8153,0 1/1:156:0,156:0:0:156:5585:-502.621,-46.9607,0 0/1:286:159,127:159:5684:127:4525:-321.13,0,-425.585 0/0:167:167,0:167:5909:0:0:0,-50.272,-531.918 1/1:453:0,453:0:0:453:16180:-1455.73,-136.367,0 1/1:51:0,51:0:0:51:1827:-164.571,-15.3525,0 1/1:9:0,9:0:0:9:324:-29.5049,-2.70927,0 0/1:62:34,28:34:1205:28:1008:-72.3679,0,-90.09 0/1:238:153,85:153:5431:85:2995:-198.113,0,-417.274 1/1:296:0,296:0:0:296:10601:-953.792,-89.1049,0 0/1:233:112,121:112:3985:121:4302:-316.579,0,-288.701 0/1:135:65,70:65:2309:70:2516:-186.046,0,-167.43 1/1:164:0,164:0:0:164:5865:-527.955,-49.3689,0 0/1:77:34,43:34:1209:43:1539:-115.614,0,-85.9348 0/1:78:29,49:29:1032:49:1760:-135.19,0,-69.7131 1/1:186:1,185:1:32:185:6624:-592.991,-52.7923,0 1/1:51:0,51:0:0:51:1824:-163.359,-15.3525,0 chr07 20359092 . 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G T 65998.3 PASS AB=0.461481;ABP=20.4078;AC=32;AF=0.761905;AN=42;AO=3146;CIGAR=1X;DP=4046;DPB=4046;DPRA=1.20652;EPP=6808.43;EPPR=1935.66;GTI=0;LEN=1;MEANALT=1.1;MQM=59.596;MQMR=60;NS=21;NUMALT=1;ODDS=24.3583;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=109734;QR=32068;RO=898;RPL=3143;RPP=6808.43;RPPR=1944.32;RPR=3;RUN=1;SAF=3146;SAP=6834.46;SAR=0;SRF=897;SRP=1944.32;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:323:1,322:1:36:322:11249:-1008.61,-93.6344,0 1/1:183:0,183:0:0:183:6389:-574.614,-55.0885,0 1/1:341:2,339:2:72:339:11976:-1070.74,-95.8145,0 0/1:279:155,124:155:5509:124:4261:-299.686,0,-411.949 1/1:373:6,367:6:216:367:12782:-1130.26,-92.4937,0 1/1:155:1,154:1:32:154:5395:-482.385,-43.4603,0 0/1:277:155,122:155:5564:122:4249:-299.087,0,-417.497 0/0:161:161,0:161:5693:0:0:0,-48.4658,-512.493 1/1:428:0,428:0:0:428:14907:-1341.38,-128.841,0 1/1:49:0,49:0:0:49:1714:-154.542,-14.7505,0 1/1:9:0,9:0:0:9:303:-27.5966,-2.70927,0 0/1:59:32,27:32:1139:27:934:-66.6086,0,-85.0576 0/1:230:149,81:149:5327:81:2809:-183.804,0,-410.327 1/1:287:0,287:0:0:287:9998:-899.735,-86.3956,0 0/1:226:109,116:109:3920:116:4050:-296.278,0,-284.9 0/1:130:64,66:64:2300:66:2272:-165.605,0,-168.127 1/1:161:0,161:0:0:161:5566:-501.065,-48.4658,0 0/1:75:34,41:34:1216:41:1421:-105.6,0,-87.1693 0/1:74:28,46:28:1008:46:1623:-124.073,0,-68.7601 1/1:176:1,174:1:36:174:6096:-545.117,-49.4418,0 1/1:50:0,50:0:0:50:1740:-155.84,-15.0515,0 chr07 20501785 . G A 31190.8 PASS AB=0.474305;ABP=15.174;AC=11;AF=0.261905;AN=42;AO=1317;CIGAR=1X;DP=5429;DPB=5429;DPRA=1.41165;EPP=2862.84;EPPR=8932.1;GTI=0;LEN=1;MEANALT=1;MQM=59.997;MQMR=59.9905;NS=21;NUMALT=1;ODDS=36.9781;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46955;QR=146433;RO=4112;RPL=652;RPP=3.28895;RPPR=94.398;RPR=665;RUN=1;SAF=652;SAP=3.28895;SAR=665;SRF=1848;SRP=94.398;SRR=2264;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:342:342,0:342:12212:0:0:0,-102.952,-1098.92 0/0:265:265,0:265:9446:0:0:0,-79.7729,-850.103 0/0:212:212,0:212:7567:0:0:0,-63.8184,-681.067 0/1:217:120,97:120:4295:97:3437:-244.22,0,-321.403 0/0:570:564,6:564:20110:6:212:0,-152.162,-1789.99 0/0:265:262,3:262:9344:3:108:0,-69.6978,-830.85 0/0:342:341,1:341:12157:1:36:0,-99.354,-1090.19 1/1:295:0,295:0:0:295:10510:-945.817,-88.8039,0 0/1:417:211,206:211:7538:206:7378:-538.536,0,-552.917 0/1:37:22,15:22:788:15:540:-37.7984,0,-60.1067 0/0:18:18,0:18:623:0:0:0,-5.41854,-56.3931 0/1:64:33,31:33:1142:31:1112:-81.1254,0,-83.8153 0/1:353:173,180:173:6138:180:6390:-468.927,0,-446.259 0/0:308:306,2:306:10904:2:72:0,-85.8805,-974.424 0/1:515:264,251:264:9380:251:8934:-649.015,0,-689.138 0/1:172:83,89:83:2937:89:3175:-234.197,0,-212.785 0/0:179:177,2:177:6320:2:72:0,-47.0476,-562.055 0/1:135:66,69:66:2330:69:2472:-182.095,0,-169.321 0/1:211:143,68:143:5086:68:2435:-155.887,0,-394.366 0/0:365:363,2:363:12910:2:72:0,-103.039,-1154.89 0/0:147:147,0:147:5206:0:0:0,-44.2514,-468.681 chr07 20509265 . G C 6230.05 PASS AB=0.463252;ABP=13.5436;AC=11;AF=0.261905;AN=42;AO=526;CIGAR=1X;DP=2359;DPB=2359;DPRA=1.03172;EPP=1136.54;EPPR=3918.41;GTI=1;LEN=1;MEANALT=1.08333;MQM=31.038;MQMR=38.3244;NS=21;NUMALT=1;ODDS=3.94244;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18568;QR=65206;RO=1831;RPL=525;RPP=1136.54;RPPR=3918.41;RPR=1;RUN=1;SAF=526;SAP=1145.2;SAR=0;SRF=1831;SRP=3978.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:124,0:124:4399:0:0:0,-37.3277,-379.471 0/0:86:86,0:86:3065:0:0:0,-25.8886,-251.094 0/0:148:144,4:144:5152:4:144:0,-33.2506,-432.32 0/1:94:52,42:52:1856:42:1480:-85.209,0,-132.055 0/0:215:214,1:214:7647:1:36:0,-61.6669,-652.819 0/0:245:245,0:245:8767:0:0:0,-73.7523,-720.6 0/0:167:166,0:166:5909:0:0:0,-49.971,-482.668 1/1:105:0,105:0:0:105:3721:-264.133,-31.6082,0 0/1:199:106,92:106:3771:92:3232:-196.989,0,-270.398 0/1:38:18,20:18:644:20:712:-39.4463,0,-43.5208 0/0:7:7,0:7:252:0:0:0,-2.10721,-20.3281 0/1:21:15,6:15:536:6:197:-8.38597,0,-39.3495 0/1:130:73,57:73:2624:57:2024:-114.332,0,-183.712 0/0:111:111,0:111:3868:0:0:0,-33.4143,-333.501 0/1:179:83,96:83:2942:96:3419:-204.683,0,-198.583 0/1:75:31,44:31:1089:44:1533:-98.365,0,-73.098 0/0:58:58,0:58:2076:0:0:0,-17.4597,-181.061 0/1:99:53,46:53:1867:46:1610:-84.0822,0,-128.554 0/1:63:50,13:50:1796:13:460:-15.6827,0,-136.058 0/0:145:145,0:145:5146:0:0:0,-43.6493,-433.782 0/0:50:50,0:50:1800:0:0:0,-15.0515,-146.676 chr07 20529533 . AAATTC CAAGTG,CAAGTC 44550.3 PASS AB=0.493482,0.503724;ABP=3.40658,3.1397;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1469,646;CIGAR=1X2M1X1M1X,1X2M1X2M;DP=2124;DPB=2124;DPRA=1.03367,1.37741;EPP=3184.22,1397.11;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.15,2.26667;MQM=59.4411,59.7337;MQMR=0;NS=21;NUMALT=2;ODDS=2.37092;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51824,22829;QR=0;RO=0;RPL=1468,645;RPP=3184.22,1397.11;RPPR=0;RPR=1,1;RUN=1,1;SAF=1469,646;SAP=3192.9,1405.78;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:0,128,1:0:0:128,1:4475,36:-402.532,-38.5318,0,-399.595,-35.5944,-399.294 1/1:46:0,46,0:0:0:46,0:1632,0:-147.092,-13.8474,0,-147.092,-13.8474,-147.092 1/1:106:0,105,0:0:0:105,0:3730,0:-335.574,-31.6082,0,-335.574,-31.6082,-335.574 1/2:133:0,62,71:0:0:62,71:2204,2510:-384.312,-204.751,-186.087,-179.915,0,-158.542 1/1:83:0,80,3:0:0:80,3:2819,105:-253.218,-24.0824,0,-244.675,-15.1895,-243.772 1/1:88:0,87,0:0:0:87,0:3067,0:-275.952,-26.1896,0,-275.952,-26.1896,-275.952 1/1:126:0,125,1:0:0:125,1:4439,36:-399.265,-37.6288,0,-396.327,-34.3315,-396.026 2/2:98:0,0,98:0:0:0,98:0,3443:-310.076,-310.076,-310.076,-29.5009,-29.5009,0 1/2:240:0,106,134:0:0:106,134:3735,4752:-691.248,-387.185,-355.276,-304.416,0,-264.078 1/2:14:0,5,9:0:0:5,9:179,323:-41.3029,-26.7058,-25.2006,-14.9552,0,-12.246 1/1:10:0,10,0:0:0:10,0:354,0:-32.1884,-3.0103,0,-32.1884,-3.0103,-32.1884 1/2:32:0,20,12:0:0:20,12:695,432:-92.1047,-35.6088,-29.5882,-56.851,0,-53.2387 1/2:103:0,49,54:0:0:49,54:1720,1889:-293.685,-153.895,-139.145,-140.139,0,-123.884 1/1:144:0,142,0:0:0:142,0:4994,0:-448.457,-42.7463,0,-448.457,-42.7463,-448.457 1/2:273:0,140,131:0:0:140,131:4966,4637:-782.226,-377.689,-335.545,-404.609,0,-365.174 1/2:50:0,22,28:0:0:22,28:784,1005:-146.241,-82.3374,-75.7147,-64.2611,0,-55.8323 1/1:84:0,84,0:0:0:84,0:2901,0:-261.051,-25.2865,0,-261.051,-25.2865,-261.051 1/2:161:0,84,76:0:0:84,76:2974,2685:-460.84,-218.65,-193.364,-242.184,0,-219.305 1/2:68:0,42,26:0:0:42,26:1468,910:-193.801,-74.3872,-61.7439,-119.764,0,-111.937 1/1:62:0,60,1:0:0:60,1:2122,30:-190.051,-18.0618,0,-187.653,-15.6927,-187.352 1/1:73:0,72,1:0:0:72,1:2566,36:-229.948,-21.6742,0,-227.011,-18.3769,-226.71 chr07 20539156 . AT GT 24261.7 PASS AB=0.513605;ABP=3.9557;AC=30;AF=0.714286;AN=42;AO=1227;CIGAR=1X1M;DP=1545;DPB=1545;DPRA=2.70893;EPP=2667.41;EPPR=687.024;GTI=2;LEN=1;MEANALT=1.05;MQM=40.2575;MQMR=59.6444;NS=21;NUMALT=1;ODDS=1.68536;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43215;QR=11183;RO=315;RPL=0;RPP=2667.41;RPPR=687.024;RPR=1227;RUN=1;SAF=0;SAP=2667.41;SAR=1227;SRF=0;SRP=687.024;SRR=315;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:96:0,96:0:0:96:3375:-294.093,-28.8989,0 1/1:70:0,70:0:0:70:2440:-207.014,-21.0721,0 1/1:84:0,84:0:0:84:2979:-260.733,-25.2865,0 0/1:66:18,48:18:637:48:1683:-127.378,0,-37.7845 1/1:186:0,186:0:0:186:6524:-569.227,-55.9916,0 1/1:64:0,64:0:0:64:2242:-190.315,-19.2659,0 1/1:161:0,161:0:0:161:5693:-482.665,-48.4658,0 0/0:28:28,0:28:992:0:0:0,-8.42884,-89.5908 0/1:109:60,49:60:2152:49:1743:-121.681,0,-161.127 0/1:12:3,6:3:108:6:212:-15.7164,0,-7.05105 0/1:5:1,4:1:25:4:144:-11.029,0,-0.994713 0/1:18:8,10:8:288:10:337:-23.7682,0,-20.8489 0/1:97:54,43:54:1895:43:1510:-103.028,0,-141.622 1/1:102:4,98:4:142:98:3469:-289.999,-17.593,0 0/1:99:53,46:53:1889:46:1626:-112.487,0,-140.353 0/1:67:39,28:39:1391:28:995:-67.9095,0,-105.318 1/1:46:0,46:0:0:46:1632:-144.206,-13.8474,0 0/1:50:20,30:20:716:30:1059:-76.3834,0,-49.7082 0/1:65:27,38:27:948:38:1340:-98.0743,0,-66.0647 1/1:63:0,63:0:0:63:2220:-192.38,-18.9649,0 1/1:57:0,57:0:0:57:1992:-168.845,-17.1587,0 chr07 20539186 . C T 23921.8 PASS AB=0.517123;ABP=4.49761;AC=30;AF=0.714286;AN=42;AO=1207;CIGAR=1X;DP=1517;DPB=1517;DPRA=2.65893;EPP=2623.98;EPPR=676.167;GTI=2;LEN=1;MEANALT=1;MQM=40.2245;MQMR=59.6935;NS=21;NUMALT=1;ODDS=1.85804;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42740;QR=11111;RO=310;RPL=1207;RPP=2623.98;RPPR=676.167;RPR=0;RUN=1;SAF=0;SAP=2623.98;SAR=1207;SRF=0;SRP=676.167;SRR=310;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:96:0,96:0:0:96:3417:-295.483,-28.8989,0 1/1:70:0,70:0:0:70:2489:-208.216,-21.0721,0 1/1:82:0,82:0:0:82:2879:-251.535,-24.6845,0 0/1:65:18,47:18:640:47:1642:-124.275,0,-38.3577 1/1:177:0,177:0:0:177:6291:-546.115,-53.2823,0 1/1:63:0,63:0:0:63:2229:-188.092,-18.9649,0 1/1:154:0,154:0:0:154:5437:-458.971,-46.3586,0 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.8634 0/1:109:60,49:60:2148:49:1740:-121.461,0,-160.767 0/1:11:3,8:3:108:8:284:-19.4033,0,-6.7554 0/1:5:1,4:1:36:4:140:-10.7655,0,-2.09312 0/1:18:8,10:8:288:10:348:-24.4368,0,-20.8489 0/1:96:54,42:54:1928:42:1495:-101.213,0,-144.893 1/1:102:0,102:0:0:102:3616:-314.636,-30.7051,0 0/1:99:54,45:54:1944:45:1591:-109.32,0,-145.286 0/1:67:39,28:39:1404:28:1004:-68.3374,0,-106.489 1/1:42:0,42:0:0:42:1480:-130.602,-12.6433,0 0/1:50:20,30:20:720:30:1058:-75.5806,0,-50.0691 0/1:64:25,39:25:900:39:1396:-103.203,0,-62.0551 1/1:62:0,62:0:0:62:2171:-187.914,-18.6639,0 1/1:57:0,57:0:0:57:2033:-169.41,-17.1587,0 chr07 20841246 . 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T C 12381.3 PASS AB=0.716578;ABP=79.1976;AC=33;AF=0.785714;AN=42;AO=576;CIGAR=1X;DP=646;DPB=646;DPRA=2.88636;EPP=1253.78;EPPR=152.842;GTI=1;LEN=1;MEANALT=1.05;MQM=55.099;MQMR=59.4058;NS=21;NUMALT=1;ODDS=0.0405756;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20608;QR=2480;RO=69;RPL=576;RPP=1253.78;RPPR=152.842;RPR=0;RUN=1;SAF=0;SAP=1253.78;SAR=576;SRF=0;SRP=152.842;SRR=69;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:19:0,19:0:0:19:669:-60.3829,-5.71957,0 1/1:20:0,20:0:0:20:720:-64.7148,-6.0206,0 1/1:14:0,14:0:0:14:504:-45.6477,-4.21442,0 0/1:10:5,5:5:180:5:176:-13.1275,0,-13.5394 1/1:28:0,28:0:0:28:1000:-89.8131,-8.42884,0 1/1:17:0,17:0:0:17:612:-55.3372,-5.11751,0 1/1:37:0,37:0:0:37:1332:-119.854,-11.1381,0 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9079 0/1:31:13,18:13:468:18:648:-49.2135,0,-33.1244 1/1:65:0,65:0:0:65:2328:-209.259,-19.567,0 1/1:98:0,97:0:0:97:3484:-311.236,-29.1999,0 1/1:87:5,82:5:180:82:2918:-245.72,-9.63755,0 0/1:10:5,5:5:180:5:180:-13.4943,0,-13.5418 1/1:25:0,25:0:0:25:892:-80.39,-7.52575,0 0/1:17:4,13:4:144:13:468:-37.0602,0,-8.19611 0/1:11:3,8:3:108:8:284:-22.5516,0,-6.76384 1/1:9:0,9:0:0:9:309:-27.6415,-2.70927,0 0/1:84:14,70:14:504:70:2504:-199.636,0,-20.4034 0/1:24:9,15:9:320:15:540:-41.5181,0,-21.9176 1/1:19:0,19:0:0:19:684:-61.5189,-5.71957,0 1/1:10:0,10:0:0:10:356:-32.2332,-3.0103,0 chr07 20982454 . 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T C 7629.77 PASS AB=0.586505;ABP=40.579;AC=12;AF=0.285714;AN=42;AO=413;CIGAR=1X;DP=1087;DPB=1087;DPRA=1.56756;EPP=882.541;EPPR=1381.01;GTI=1;LEN=1;MEANALT=1;MQM=59.9855;MQMR=60;NS=21;NUMALT=1;ODDS=3.87309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14753;QR=24022;RO=674;RPL=413;RPP=899.828;RPPR=1466.58;RPR=0;RUN=1;SAF=411;SAP=882.541;SAR=2;SRF=664;SRP=1381.01;SRR=10;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:48,0:48:1716:0:0:0,-14.4494,-154.726 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/0:37:36,1:36:1284:1:36:0,-7.53983,-112.265 0/1:43:17,26:17:612:26:924:-70.5334,0,-42.4691 0/0:56:56,0:56:1987:0:0:0,-16.8577,-179.104 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/0:72:72,0:72:2564:0:0:0,-21.6742,-231.011 1/1:67:0,67:0:0:67:2389:-215.267,-20.169,0 0/1:164:55,109:55:1953:109:3888:-300.745,0,-126.675 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:13:5,8:5:176:8:288:-22.354,0,-12.2716 0/1:57:22,35:22:788:35:1256:-96.182,0,-54.0861 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/1:113:40,73:40:1436:73:2592:-199.512,0,-95.5213 0/1:38:15,23:15:536:23:828:-63.405,0,-37.1357 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/1:70:29,41:29:1032:41:1476:-112.064,0,-72.1214 0/1:80:56,24:56:1992:24:860:-53.6394,0,-155.472 0/0:71:71,0:71:2527:0:0:0,-21.3731,-227.682 0/0:48:48,0:48:1687:0:0:0,-14.4494,-152.113 chr07 21302335 . G A 493.795 PASS AB=0.516605;ABP=4.30838;AC=32;AF=0.761905;AN=42;AO=1144;CIGAR=1X;DP=1492;DPB=1492;DPRA=0.944667;EPP=2487.17;EPPR=754.34;GTI=9;LEN=1;MEANALT=1.05;MQM=11.0341;MQMR=12.0983;NS=21;NUMALT=1;ODDS=2.50687;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40972;QR=12300;RO=346;RPL=1144;RPP=2487.17;RPPR=754.34;RPR=0;RUN=1;SAF=0;SAP=2487.17;SAR=1144;SRF=0;SRP=754.34;SRR=346;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:1,67:1:36:67:2391:-64.5253,-19.2717,0 1/1:96:0,96:0:0:96:3436:-95.4806,-28.8989,0 1/1:53:0,53:0:0:53:1900:-52.3358,-15.9546,0 1/1:90:1,89:1:36:89:3185:-87.6187,-26.0937,0 1/1:142:2,140:2:72:140:5009:-135.901,-40.4693,0 1/1:109:4,105:4:144:105:3772:-102.483,-28.4704,0 1/1:83:0,83:0:0:83:2972:-83.075,-24.9855,0 0/0:75:75,0:75:2672:0:0:0,-22.5772,-82.8733 0/1:119:59,60:59:2096:60:2156:-23.3477,0,-27.4676 0/1:11:6,5:6:216:5:176:-1.74111,0,-3.18844 1/1:8:0,8:0:0:8:288:-8.20264,-2.40824,0 0/1:22:13,9:13:464:9:324:-2.38699,0,-7.51605 0/1:77:45,32:45:1600:32:1148:-8.21226,0,-24.9251 1/1:68:0,68:0:0:68:2409:-67.0468,-20.47,0 0/1:107:51,56:51:1789:56:2008:-23.2726,0,-22.4062 0/1:54:28,26:28:1004:26:936:-9.47458,0,-13.7019 1/1:32:0,32:0:0:32:1140:-31.5686,-9.63296,0 0/1:70:34,36:34:1203:36:1292:-14.7246,0,-17.2344 0/1:82:24,56:24:860:56:2012:-31.1176,0,-1.54417 1/1:57:3,54:3:108:54:1940:-50.0613,-13.8032,0 1/1:69:0,69:0:0:69:2478:-69.2356,-20.7711,0 chr07 21314008 . ATTT GTTT 29471.4 PASS AB=0.510204;ABP=3.63072;AC=32;AF=0.761905;AN=42;AO=1370;CIGAR=1X3M;DP=1804;DPB=1804;DPRA=0.986782;EPP=2969.25;EPPR=904.354;GTI=0;LEN=1;MEANALT=1.25;MQM=59.9394;MQMR=59.9204;NS=21;NUMALT=1;ODDS=10.3077;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49054;QR=15181;RO=427;RPL=1369;RPP=2969.25;RPPR=904.354;RPR=1;RUN=1;SAF=0;SAP=2977.93;SAR=1370;SRF=0;SRP=930.229;SRR=427;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,125:0:0:125:4477:-403.091,-37.6288,0 1/1:58:0,57:0:0:57:2040:-183.295,-17.1587,0 1/1:111:1,110:1:35:110:3928:-350.055,-29.9157,0 1/1:65:0,65:0:0:65:2323:-209.33,-19.567,0 1/1:143:0,142:0:0:142:5100:-458.775,-42.7463,0 1/1:56:1,55:1:36:55:1980:-174.876,-13.2594,0 1/1:108:4,104:4:143:104:3711:-320.969,-19.2898,0 0/0:87:87,0:87:3083:0:0:0,-26.1896,-277.698 0/1:178:78,98:78:2761:98:3516:-263.378,0,-195.464 0/1:14:7,7:7:252:7:252:-18.8145,0,-18.8145 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:30:17,13:17:598:13:468:-33.4287,0,-45.1176 0/1:144:84,60:84:2996:60:2132:-148.794,0,-226.524 1/1:121:0,121:0:0:121:4328:-389.696,-36.4246,0 0/1:157:85,72:85:3025:72:2584:-185.547,0,-224.901 0/1:45:18,27:18:647:27:968:-73.891,0,-45.0153 1/1:60:0,57:0:0:57:2036:-183.158,-17.1587,0 0/1:49:26,23:26:933:23:815:-58.9203,0,-69.5366 0/1:69:19,50:19:672:50:1792:-140.791,0,-40.0353 1/1:125:0,125:0:0:125:4488:-404.087,-37.6288,0 1/1:53:0,53:0:0:53:1900:-171.278,-15.9546,0 chr07 21316909 . CGGA TGGG,CGGG 20028.8 PASS AB=0.535613,0.452991;ABP=6.87688,9.74743;AC=32,10;AF=0.761905,0.238095;AN=42;AO=809,200;CIGAR=1X2M1X,3M1X;DP=1017;DPB=1017.5;DPRA=1.19024,1.0807;EPP=1759.73,437.305;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.8,2.4;MQM=59.937,59.78;MQMR=0;NS=21;NUMALT=2;ODDS=0.951419;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=26721,7046;QR=0;RO=0;RPL=0,0;RPP=1759.73,437.305;RPPR=0;RPR=809,200;RUN=1,1;SAF=0,0;SAP=1759.73,437.305;SAR=809,200;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71,0:0:0:71,0:2329,0:-209.87,-21.3731,0,-209.87,-21.3731,-209.87 1/1:35:0,34,0:0:0:34,0:1131,0:-101.768,-10.235,0,-101.768,-10.235,-101.768 1/1:48:0,48,0:0:0:48,0:1627,0:-146.716,-14.4494,0,-146.716,-14.4494,-146.716 1/1:57:0,56,0:0:0:56,0:1874,0:-168.633,-16.8577,0,-168.633,-16.8577,-168.633 1/1:112:0,111,1:0:0:111,1:3670,36:-330.092,-33.4143,0,-327.154,-30.1171,-326.853 1/1:78:0,78,0:0:0:78,0:2555,0:-230.203,-23.4803,0,-230.203,-23.4803,-230.203 1/1:83:0,83,0:0:0:83,0:2774,0:-249.908,-24.9855,0,-249.908,-24.9855,-249.908 2/2:41:0,0,40:0:0:0,40:0,1392:-125.228,-125.228,-125.228,-12.0412,-12.0412,0 1/2:75:0,45,30:0:0:45,30:1533,1048:-209.964,-85.5973,-72.0509,-124.712,0,-115.681 1/2:6:0,3,2:0:0:3,2:106,72:-14.5709,-5.92807,-5.02498,-8.6878,0,-8.08574 1/1:4:0,4,0:0:0:4,0:131,0:-12.1138,-1.20412,0,-12.1138,-1.20412,-12.1138 1/2:12:0,5,7:0:0:5,7:163,252:-34.0687,-20.9217,-19.4166,-13.487,0,-11.3798 1/2:46:0,22,23:0:0:22,23:721,799:-123.328,-65.0882,-58.4655,-58.359,0,-51.4353 1/1:48:0,48,0:0:0:48,0:1569,0:-141.335,-14.4494,0,-141.335,-14.4494,-141.335 1/2:85:0,43,41:0:0:43,41:1428,1464:-234.845,-119.326,-106.382,-115.562,0,-103.22 1/2:27:0,12,15:0:0:12,15:395,540:-76.3329,-44.4211,-40.8087,-32.2546,0,-27.7391 1/1:27:0,27,0:0:0:27,0:903,0:-81.5761,-8.12781,0,-81.5761,-8.12781,-81.5761 1/2:56:0,24,32:0:0:24,32:715,1127:-149.192,-92.1021,-84.8774,-57.411,0,-47.778 1/2:44:0,34,9:0:0:34,9:1093,316:-113.862,-25.7735,-15.5385,-88.1371,0,-85.4279 1/1:41:0,41,0:0:0:41,0:1370,0:-123.589,-12.3422,0,-123.589,-12.3422,-123.589 1/1:21:0,20,0:0:0:20,0:634,0:-57.0134,-6.0206,0,-57.0134,-6.0206,-57.0134 chr07 21317552 . T C 24913.2 PASS AB=0.586035;ABP=54.5733;AC=32;AF=0.761905;AN=42;AO=2460;CIGAR=1X;DP=2870;DPB=2870;DPRA=2;EPP=5344.83;EPPR=888.971;GTI=1;LEN=1;MEANALT=1.05;MQM=22.9167;MQMR=34.277;NS=21;NUMALT=1;ODDS=15.6195;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87073;QR=14613;RO=408;RPL=2460;RPP=5344.83;RPPR=888.971;RPR=0;RUN=1;SAF=2460;SAP=5344.83;SAR=0;SRF=408;SRP=888.971;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:1,138:1:36:138:4881:-279.582,-38.6555,0 1/1:109:0,109:0:0:109:3848:-223.212,-32.8123,0 1/1:140:0,140:0:0:140:4960:-286.621,-42.1442,0 1/1:191:0,191:0:0:191:6789:-392.091,-57.4967,0 1/1:301:2,299:2:72:299:10623:-607.003,-84.5535,0 1/1:190:0,190:0:0:190:6729:-389.512,-57.1957,0 1/1:317:0,315:0:0:315:11123:-645.172,-94.8245,0 0/0:70:70,0:70:2508:0:0:0,-21.0721,-203.376 0/1:155:57,98:57:2016:98:3490:-146.145,0,-112.363 0/1:13:5,8:5:180:8:284:-12.8664,0,-11.0189 1/1:6:0,6:0:0:6:212:-12.6643,-1.80618,0 0/1:33:19,14:19:684:14:504:-19.0076,0,-46.2187 0/1:202:84,118:84:3016:118:4170:-180.591,0,-179.702 1/1:259:1,258:1:36:258:9188:-525.155,-74.6206,0 0/1:150:77,73:77:2757:73:2582:-104.382,0,-174.882 0/1:99:28,71:28:1004:71:2523:-110.712,0,-49.5646 1/1:140:1,139:1:36:139:4917:-270.297,-39.0206,0 0/1:99:45,54:45:1620:54:1868:-79.6633,0,-100.534 0/1:51:17,34:17:612:34:1180:-54.1786,0,-32.5155 1/1:151:1,150:1:36:150:5260:-303.438,-42.2094,0 1/1:55:0,55:0:0:55:1942:-112.916,-16.5567,0 chr07 21528628 . A G,T 22257.1 PASS AB=0.621262,0.378738;ABP=41.4547,41.4547;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1047,144;CIGAR=1X,1X;DP=1193;DPB=1193;DPRA=2.15926,0.862162;EPP=2267.86,315.702;EPPR=5.18177;GTI=2;LEN=1,1;MEANALT=1.6,2;MQM=35.2818,36.7153;MQMR=60;NS=21;NUMALT=2;ODDS=0.0813863;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37329,5117;QR=36;RO=1;RPL=1,0;RPP=2267.86,315.702;RPPR=5.18177;RPR=1046,144;RUN=1,1;SAF=0,0;SAP=2276.54,315.702;SAR=1047,144;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,97,0:0:0:97,0:3469,0:-286.917,-29.1999,0,-286.917,-29.1999,-286.917 1/1:70:0,70,0:0:0:70,0:2507,0:-188.04,-21.0721,0,-188.04,-21.0721,-188.04 1/1:40:0,40,0:0:0:40,0:1423,0:-118.595,-12.0412,0,-118.595,-12.0412,-118.595 1/1:83:0,83,0:0:0:83,0:2944,0:-242.374,-24.9855,0,-242.374,-24.9855,-242.374 1/1:115:0,113,1:0:0:113,1:4032,36:-328.905,-34.0164,0,-326.097,-31.1918,-325.796 1/1:60:1,59,0:1:36:59,0:2108,0:-157.448,-14.4635,0,-157.749,-17.7608,-160.687 1/1:86:0,86,0:0:0:86,0:3076,0:-231.577,-25.8886,0,-231.577,-25.8886,-231.577 2/2:27:0,0,27:0:0:0,27:0,972:-78.6086,-78.6086,-78.6086,-8.12781,-8.12781,0 1/2:55:0,26,29:0:0:26,29:927,1020:-147.708,-77.8474,-70.0206,-70.1923,0,-61.4625 1/2:8:0,5,3:0:0:5,3:180,108:-19.7898,-7.82274,-6.31759,-12.2742,0,-11.3711 1/1:5:0,5,0:0:0:5,0:176,0:-14.5552,-1.50515,0,-14.5552,-1.50515,-14.5552 1/2:14:0,11,3:0:0:11,3:392,104:-35.6398,-8.10599,-4.79466,-27.8534,0,-26.9503 1/2:41:0,27,14:0:0:27,14:972,488:-109.242,-36.9945,-28.8667,-72.5738,0,-68.3594 1/1:108:0,107,1:0:0:107,1:3805,36:-310.771,-32.2102,0,-308.261,-29.3876,-307.96 1/2:60:0,45,15:0:0:45,15:1612,536:-156.466,-40.205,-26.6586,-116.587,0,-112.072 1/2:48:0,25,23:0:0:25,23:896,809:-129.61,-62.6863,-55.1605,-67.257,0,-60.3333 1/1:61:0,61,0:0:0:61,0:2177,0:-184.647,-18.3628,0,-184.647,-18.3628,-184.647 1/2:36:0,19,17:0:0:19,17:672,612:-92.3449,-43.864,-38.1444,-48.7985,0,-43.6809 1/2:39:0,29,10:0:0:29,10:1044,360:-104.797,-26.318,-17.5882,-78.8041,0,-75.7938 1/1:87:0,86,1:0:0:86,1:3056,36:-242.044,-25.8886,0,-239.663,-23.2089,-239.362 1/1:53:0,53,0:0:0:53,0:1861,0:-144.615,-15.9546,0,-144.615,-15.9546,-144.615 chr07 21597556 . C T 13496.2 PASS AB=0.483077;ABP=5.43567;AC=10;AF=0.238095;AN=42;AO=726;CIGAR=1X;DP=2897;DPB=2897;DPRA=1.45279;EPP=1579.5;EPPR=4712.93;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9848;MQMR=59.9949;NS=21;NUMALT=1;ODDS=10.331;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25933;QR=77348;RO=2169;RPL=1;RPP=1570.83;RPPR=4574.98;RPR=725;RUN=1;SAF=1;SAP=1570.83;SAR=725;SRF=16;SRP=4574.98;SRR=2153;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:138:138,0:138:4881:0:0:0,-41.5421,-439.44 0/0:98:98,0:98:3516:0:0:0,-29.5009,-316.649 0/0:138:138,0:138:4903:0:0:0,-41.5421,-441.42 0/0:233:231,2:231:8276:2:72:0,-63.3033,-738.009 0/0:286:282,4:282:10030:4:144:0,-72.781,-889.321 0/0:132:132,0:132:4735:0:0:0,-39.736,-426.307 0/0:175:175,0:175:6231:0:0:0,-52.6802,-560.884 1/1:245:0,245:0:0:245:8729:-785.597,-73.7524,0 0/1:249:137,112:137:4858:112:4013:-286.383,0,-362.409 0/1:28:12,16:12:428:16:576:-43.7461,0,-30.43 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:64:29,35:29:1044:35:1248:-93.3589,0,-75.0089 0/1:161:74,86:74:2656:86:3080:-229.052,0,-190.909 0/0:150:149,1:149:5306:1:36:0,-41.5562,-474.076 0/1:176:75,101:75:2666:101:3620:-273.024,0,-187.202 0/1:119:60,59:60:2135:59:2120:-155.246,0,-156.595 0/0:91:91,0:91:3238:0:0:0,-27.3937,-291.639 0/1:97:58,38:58:2061:38:1338:-91.4583,0,-156.501 0/1:81:57,24:57:2048:24:849:-52.3444,0,-160.208 0/0:146:143,3:143:5113:3:108:0,-33.8752,-450.236 0/0:80:80,0:80:2863:0:0:0,-24.0824,-257.907 chr07 21711873 . GTCA ATCG,ATCA 148338 PASS AB=0.516293,0.480652;ABP=7.53899,9.39646;AC=32,10;AF=0.761905,0.238095;AN=42;AO=4253,1293;CIGAR=1X2M1X,1X3M;DP=5571;DPB=5574.5;DPRA=0.776558,1.47308;EPP=9238.28,2810.72;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.7,3.0625;MQM=59.7653,59.9768;MQMR=0;NS=21;NUMALT=2;ODDS=30.0531;PAIRED=0,0;PAIREDR=0;PAO=7,7;PQA=241.5,241.5;PQR=0;PRO=0;QA=147116,45675;QR=0;RO=0;RPL=2602,892;RPP=464.774,407.883;RPPR=0;RPR=1651,401;RUN=1,1;SAF=2602,892;SAP=464.774,407.883;SAR=1651,401;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:395:0,389,5:0:0:389,5:13453,180:-1209.88,-117.101,0,-1195.19,-102.455,-1193.69 1/1:236:0,233,0:0:0:233,0:8083,0:-727.062,-70.14,0,-727.062,-70.14,-727.062 1/1:284:0,282,2:0:0:282,2:9794,72:-881.03,-84.8905,0,-875.155,-78.6558,-874.553 1/1:351:0,350,0:0:0:350,0:11920,0:-1072.31,-105.361,0,-1072.31,-105.361,-1072.31 1/1:538:0,535,1:0:0:535,1:18571,36:-1670.57,-161.051,0,-1667.63,-158.095,-1667.33 1/1:165:0,163,1:0:0:163,1:5700,32:-512.85,-49.0679,0,-510.272,-46.4345,-509.971 1/1:395:0,391,2:0:0:391,2:13484,72:-1212.95,-117.703,0,-1207.07,-111.841,-1206.47 2/2:337:0,0,332:0:0:0,332:0,11750:-1057.07,-1057.07,-1057.07,-99.942,-99.942,0 1/2:376:0,157,218:0:0:157,218:5408,7666:-1063.37,-624.111,-576.849,-439.353,0,-373.729 1/2:54:0,30,24:0:0:30,24:1030,856:-153.761,-70.1364,-61.1055,-83.975,0,-76.7503 1/1:20:0,20,0:0:0:20,0:658,0:-59.5285,-6.0206,0,-59.5285,-6.0206,-59.5285 1/2:102:0,48,54:0:0:48,54:1680,1928:-294.085,-157.541,-143.092,-136.897,0,-120.641 1/2:255:0,132,120:0:0:132,120:4553,4254:-716.495,-346.634,-306.898,-369.928,0,-333.804 1/1:263:0,263,0:0:0:263,0:9012,0:-810.949,-79.1709,0,-810.949,-79.1709,-810.949 1/2:519:0,266,253:0:0:266,253:9262,8962:-1483.51,-730.405,-650.331,-753.461,0,-677.3 1/2:182:0,112,69:0:0:112,69:3928,2426:-517.118,-197.473,-163.757,-319.647,0,-298.876 1/1:293:0,287,3:0:0:287,3:10001,108:-899.668,-86.3956,0,-890.856,-77.5985,-889.953 1/2:320:0,159,161:0:0:159,161:5509,5621:-904.993,-457.366,-409.502,-447.856,0,-399.39 1/2:156:0,110,45:0:0:110,45:3801,1604:-439.507,-130.867,-97.7542,-308.756,0,-295.209 1/1:225:0,221,3:0:0:221,3:7615,108:-684.878,-66.5276,0,-676.066,-57.633,-675.162 1/1:105:0,105,0:0:0:105,0:3654,0:-329.042,-31.6082,0,-329.042,-31.6082,-329.042 chr07 21772733 . TAG TTG,TCG 43186.5 PASS AB=0.500684,0.488372;ABP=3.01327,3.86879;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1443,514;CIGAR=1M1X1M,1M1X1M;DP=1976;DPB=1976;DPRA=0.622109,1.71717;EPP=3024.55,1110.48;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.95,2.54545;MQM=59.9376,59.8774;MQMR=60;NS=21;NUMALT=2;ODDS=8.37101;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51522,18283;QR=36;RO=1;RPL=1441,514;RPP=3119.1,1119.15;RPPR=5.18177;RPR=2,0;RUN=1,1;SAF=11,1;SAP=3041.63,1110.48;SAR=1432,513;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:134:0,132,0:0:0:132,0:4715,0:-424.204,-39.736,0,-424.204,-39.736,-424.204 1/1:61:0,61,0:0:0:61,0:2181,0:-196.555,-18.3628,0,-196.555,-18.3628,-196.555 1/1:75:0,75,0:0:0:75,0:2692,0:-242.514,-22.5773,0,-242.514,-22.5773,-242.514 1/1:87:0,86,0:0:0:86,0:3084,0:-277.564,-25.8886,0,-277.564,-25.8886,-277.564 1/1:316:0,310,6:0:0:310,6:11058,207:-994.681,-93.3193,0,-977.866,-76.1586,-976.059 1/1:49:0,49,0:0:0:49,0:1756,0:-158.324,-14.7505,0,-158.324,-14.7505,-158.324 1/1:104:0,104,0:0:0:104,0:3727,0:-335.616,-31.3071,0,-335.616,-31.3071,-335.616 2/2:147:0,0,145:0:0:0,145:0,5162:-464.363,-464.363,-464.363,-43.6494,-43.6494,0 1/2:145:0,75,70:0:0:75,70:2680,2508:-423.411,-204.9,-182.323,-218.868,0,-197.796 1/2:13:0,9,4:0:0:9,4:324,140:-38.1841,-11.7405,-9.03119,-26.7966,0,-25.5925 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:36:0,15,21:0:0:15,21:540,742:-104.845,-60.7813,-56.2658,-44.4211,0,-38.0995 1/2:176:0,73,102:0:0:73,102:2600,3635:-508.199,-296.282,-274.307,-211.913,0,-181.208 1/1:85:0,85,0:0:0:85,0:3037,0:-273.55,-25.5876,0,-273.55,-25.5876,-273.55 1/2:157:1,76,79:1:36:76,79:2709,2795:-445.286,-224.766,-204.825,-217.932,0,-197.088 1/2:52:0,26,22:0:0:26,22:913,788:-138.567,-64.2645,-56.4377,-74.3029,0,-67.6802 1/1:40:0,34,0:0:0:34,0:1201,0:-108.034,-10.235,0,-108.034,-10.235,-108.034 1/2:58:0,36,22:0:0:36,22:1284,780:-168.572,-63.9004,-53.0633,-105.026,0,-98.4037 1/2:94:0,56,37:0:0:56,37:1995,1310:-269.313,-106.702,-89.8446,-162.606,0,-151.468 1/1:98:0,92,6:0:0:92,6:3271,216:-294.252,-27.6948,0,-276.627,-9.71043,-274.821 1/1:38:0,38,0:0:0:38,0:1359,0:-122.608,-11.4391,0,-122.608,-11.4391,-122.608 chr07 21782708 . TGGCTGCT TGGCCGCT,TGGCCGTG 171007 PASS AB=0.527299,0.461991;ABP=33.8359,62.7664;AC=32,10;AF=0.761905,0.238095;AN=42;AO=5786,2321;CIGAR=4M1X3M,4M1X1M2X;DP=8207;DPB=8206.88;DPRA=4.0535,3.42067;EPP=12567.1,5043;EPPR=7.35324;GTI=0;LEN=1,8;MEANALT=5.25,5.9375;MQM=59.9729,59.4705;MQMR=60;NS=21;NUMALT=2;ODDS=6.9633;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=206445,81922;QR=65;RO=2;RPL=0,0;RPP=12567.1,5043;RPPR=7.35324;RPR=5786,2321;RUN=1,1;SAF=5786,2321;SAP=12567.1,5043;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,122,1:0:0:122,1:4363,36:-392.494,-36.7257,0,-389.556,-33.7783,-389.255 1/1:83:0,78,0:0:0:78,0:2783,0:-250.353,-23.4803,0,-250.353,-23.4803,-250.353 1/1:255:0,248,3:0:0:248,3:8851,107:-796.221,-74.6554,0,-787.498,-65.9322,-786.595 1/1:328:0,326,0:0:0:326,0:11605,0:-1043.97,-98.1358,0,-1043.97,-98.1358,-1043.97 1/1:341:1,335,2:1:29:335,2:11956,61:-1072.73,-98.5347,0,-1068.15,-95.9471,-1069.86 1/1:101:0,99,0:0:0:99,0:3527,0:-317.279,-29.802,0,-317.279,-29.802,-317.279 1/1:246:0,238,2:0:0:238,2:8493,72:-763.908,-71.6451,0,-758.033,-65.7695,-757.431 2/2:100:0,0,98:0:0:0,98:0,3482:-313.239,-313.239,-313.239,-29.5009,-29.5009,0 1/2:229:0,136,91:0:0:136,91:4841,3214:-656.259,-261.707,-220.767,-394.546,0,-367.152 1/2:993:0,493,488:0:0:493,488:17604,17179:-2831.75,-1396.54,-1248.13,-1435.23,0,-1288.33 1/1:1227:0,1207,3:0:0:1207,3:43096,108:-3876.79,-363.343,0,-3867.97,-354.524,-3867.07 1/2:1026:0,560,461:0:0:560,461:19958,16277:-2951.86,-1325.05,-1156.47,-1626.86,0,-1488.08 1/2:220:0,122,95:0:0:122,95:4339,3364:-626.299,-272.69,-235.965,-353.638,0,-325.04 1/1:118:0,115,0:0:0:115,0:4095,0:-368.377,-34.6185,0,-368.377,-34.6185,-368.377 1/2:182:0,101,80:0:0:101,80:3607,2835:-524.822,-230.947,-200.543,-293.87,0,-269.788 1/2:137:0,80,56:0:0:80,56:2864,1991:-395.805,-162.247,-138.164,-233.555,0,-216.697 1/1:227:0,226,1:0:0:226,1:8070,36:-725.96,-68.0328,0,-723.023,-64.7355,-722.722 1/2:1877:1,963,888:1:36:963,888:34385,31350:-5352,-2548.98,-2262.03,-2800.4,0,-2536.02 1/2:98:0,56,41:0:0:56,41:1975,1415:-275.816,-114.997,-98.1396,-160.866,0,-148.524 1/1:238:0,224,11:0:0:224,11:8002,395:-719.843,-67.4307,0,-687.621,-35.177,-684.309 1/1:57:0,57,0:0:0:57,0:2031,0:-183.062,-17.1587,0,-183.062,-17.1587,-183.062 chr07 21782781 . G A 8383.08 PASS AB=0.451923;ABP=21.8019;AC=10;AF=0.238095;AN=42;AO=508;CIGAR=1X;DP=2856;DPB=2856;DPRA=0.698992;EPP=1106.12;EPPR=5092.95;GTI=0;LEN=1;MEANALT=1;MQM=59.937;MQMR=59.9736;NS=21;NUMALT=1;ODDS=2.83956;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18148;QR=83051;RO=2348;RPL=0;RPP=1106.12;RPPR=5092.95;RPR=508;RUN=1;SAF=0;SAP=1106.12;SAR=508;SRF=0;SRP=5101.63;SRR=2348;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:310:310,0:310:10967:0:0:0,-93.3193,-986.938 0/0:130:130,0:130:4606:0:0:0,-39.1339,-414.706 0/0:99:99,0:99:3517:0:0:0,-29.802,-316.74 0/0:106:105,1:105:3740:1:36:0,-28.3109,-332.577 0/0:394:394,0:394:13924:0:0:0,-118.606,-1252.95 0/0:177:177,0:177:6276:0:0:0,-53.2823,-564.939 0/0:145:144,1:144:5085:1:36:0,-40.0511,-454.199 1/1:75:0,75:0:0:75:2696:-242.884,-22.5773,0 0/1:305:137,168:137:4846:168:6003:-448.562,0,-344.485 0/1:28:14,14:14:504:14:492:-36.0507,0,-37.2693 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:13:7,6:7:248:6:216:-15.8771,0,-18.7508 0/1:141:82,59:82:2884:59:2103:-147.093,0,-217.352 0/0:187:186,1:186:6574:1:36:0,-52.6943,-588.148 0/1:222:117,105:117:4153:105:3749:-270.781,0,-307.126 0/1:65:42,23:42:1487:23:824:-54.9164,0,-114.557 0/0:105:101,4:101:3591:4:140:0,-18.6636,-310.344 0/1:75:53,22:53:1848:22:773:-47.3122,0,-144.018 0/1:87:61,26:61:2148:26:936:-58.3699,0,-167.396 0/0:111:108,3:108:3799:3:108:0,-23.3392,-332.036 0/0:77:77,0:77:2710:0:0:0,-23.1793,-244.142 chr07 21784431 . CGTTCCC TGTTCCG,TGTACCG 25009 PASS AB=0.26971,0.728907;ABP=336.057,332.068;AC=32,10;AF=0.761905,0.238095;AN=42;AO=759,604;CIGAR=1X5M1X,1X2M1X2M1X;DP=1371;DPB=1371.14;DPRA=0,1.58863;EPP=1651.16,1314.58;EPPR=0;GTI=6;LEN=7,7;MEANALT=1.90476,2.18182;MQM=44.4295,37.6325;MQMR=0;NS=21;NUMALT=2;ODDS=0.0471519;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=25219,20749;QR=0;RO=0;RPL=0,0;RPP=1651.16,1314.58;RPPR=0;RPR=759,604;RUN=1,1;SAF=759,604;SAP=1651.16,1314.58;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,56,0:0:0:56,0:1862,0:-164.861,-16.8577,0,-164.861,-16.8577,-164.861 1/1:26:0,26,0:0:0:26,0:785,0:-70.1131,-7.82678,0,-70.1131,-7.82678,-70.1131 1/2:87:0,12,75:0:0:12,75:388,2569:-228.711,-198.014,-194.402,-31.0161,0,-8.43883 2/2:81:0,7,73:0:0:7,73:240,2509:-216.161,-196.91,-194.803,-21.9752,-2.70151,0 1/2:251:0,89,162:0:0:89,162:2984,5553:-662.822,-424.37,-397.578,-238.781,0,-190.014 1/2:70:0,11,59:0:0:11,59:373,2022:-177.906,-147.975,-144.663,-30.2635,0,-12.5027 1/1:81:0,79,0:0:0:79,0:2584,0:-230.269,-23.7814,0,-230.269,-23.7814,-230.269 1/2:67:0,7,60:0:0:7,60:232,2055:-171.799,-153.213,-151.106,-18.913,0,-0.851245 1/1:105:0,103,0:0:0:103,0:3483,0:-308.648,-31.0061,0,-308.648,-31.0061,-308.648 1/1:18:0,18,0:0:0:18,0:628,0:-55.271,-5.41854,0,-55.271,-5.41854,-55.271 1/2:6:0,5,1:0:0:5,1:164,36:-16.1027,-2.94513,-1.43998,-13.4824,0,-13.1814 1/1:26:0,26,0:0:0:26,0:813,0:-72.5826,-7.82678,0,-72.5826,-7.82678,-72.5826 1/1:25:0,23,2:0:0:23,2:781,71:-69.3103,-6.92369,0,-63.8117,-1.08655,-63.2097 1/2:105:0,14,91:0:0:14,91:469,3152:-281.408,-244.132,-239.918,-37.6054,0,-10.2117 1/1:74:0,74,0:0:0:74,0:2438,0:-217.006,-22.2762,0,-217.006,-22.2762,-217.006 1/1:39:0,39,0:0:0:39,0:1306,0:-116.325,-11.7402,0,-116.325,-11.7402,-116.325 1/1:46:0,46,0:0:0:46,0:1528,0:-135.188,-13.8474,0,-135.188,-13.8474,-135.188 1/2:84:0,38,45:0:0:38,45:1264,1539:-215.292,-114.379,-102.94,-100.916,0,-87.3692 1/2:53:0,19,34:0:0:19,34:640,1172:-141.519,-90.5696,-84.85,-51.2794,0,-41.0444 1/1:43:0,41,2:0:0:41,2:1373,71:-122.084,-12.3422,0,-116.715,-6.64222,-116.113 1/1:27:0,26,0:0:0:26,0:884,0:-78.8557,-7.82678,0,-78.8557,-7.82678,-78.8557 chr07 21784443 . CCTGT GCAGT,GCAGG 29183.7 PASS AB=0.298667,0.697333;ABP=267.073,256.685;AC=32,10;AF=0.761905,0.238095;AN=42;AO=879,601;CIGAR=1X1M1X2M,1X1M1X1M1X;DP=1494;DPB=1494;DPRA=0,1.40863;EPP=1911.73,1308.07;EPPR=0;GTI=3;LEN=5,5;MEANALT=2.14286,2.27273;MQM=44.3606,37.6572;MQMR=0;NS=21;NUMALT=2;ODDS=1.22632;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31137,21238;QR=0;RO=0;RPL=0,0;RPP=1911.73,1308.07;RPPR=0;RPR=879,601;RUN=1,1;SAF=879,601;SAP=1911.73,1308.07;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:0,61,0:0:0:61,0:2145,0:-189.719,-18.3628,0,-189.719,-18.3628,-189.719 1/1:26:0,26,0:0:0:26,0:901,0:-79.8749,-7.82678,0,-79.8749,-7.82678,-79.8749 1/2:89:0,15,74:0:0:15,74:534,2618:-243.671,-201.01,-196.495,-43.0074,0,-20.7311 2/2:81:0,7,74:0:0:7,74:252,2608:-223.193,-202.943,-200.836,-22.2762,-1.67293,0 1/2:262:0,100,161:0:0:100,161:3575,5717:-721.224,-435.013,-404.91,-286.299,0,-237.833 1/2:73:0,14,59:0:0:14,59:486,2080:-189.752,-150.663,-146.449,-39.4272,0,-21.6664 1/1:99:0,98,0:0:0:98,0:3480,0:-308.665,-29.5009,0,-308.665,-29.5009,-308.665 1/2:68:0,9,58:0:0:9,58:314,2050:-176.577,-151.585,-148.876,-24.9958,0,-7.53609 1/1:123:0,121,0:0:0:121,0:4281,0:-377.615,-36.4246,0,-377.615,-36.4246,-377.615 1/1:22:0,21,0:0:0:21,0:739,0:-64.907,-6.32163,0,-64.907,-6.32163,-64.907 1/2:6:0,5,1:0:0:5,1:178,36:-17.31,-2.94513,-1.43998,-14.6941,0,-14.3931 1/1:33:0,33,0:0:0:33,0:1175,0:-104.014,-9.93399,0,-104.014,-9.93399,-104.014 1/1:28:0,26,2:0:0:26,2:921,67:-81.5575,-7.82678,0,-76.3476,-2.29207,-75.7456 1/2:106:0,15,91:0:0:15,91:536,3227:-291.766,-248.959,-244.443,-43.1556,0,-15.7618 1/1:87:0,84,0:0:0:84,0:2976,0:-264.028,-25.2865,0,-264.028,-25.2865,-264.028 1/1:49:0,49,0:0:0:49,0:1751,0:-155.246,-14.7505,0,-155.246,-14.7505,-155.246 1/1:56:0,55,0:0:0:55,0:1909,0:-167.693,-16.5567,0,-167.693,-16.5567,-167.693 1/2:90:0,44,45:0:0:44,45:1566,1586:-242.285,-116.954,-103.709,-125.308,0,-111.761 1/2:56:0,22,34:0:0:22,34:773,1183:-152.91,-91.1411,-84.5184,-62.1079,0,-51.8729 1/1:49:0,47,2:0:0:47,2:1677,66:-148.68,-14.1484,0,-143.643,-8.79662,-143.041 1/1:28:0,27,0:0:0:27,0:968,0:-86.1274,-8.12781,0,-86.1274,-8.12781,-86.1274 chr07 21784487 . A C 15644 PASS AB=0.290761;ABP=282.894;AC=32;AF=0.761905;AN=42;AO=851;CIGAR=1X;DP=1455;DPB=1455;DPRA=0;EPP=1850.93;EPPR=1314.58;GTI=4;LEN=1;MEANALT=1;MQM=44.3208;MQMR=38.6573;NS=21;NUMALT=1;ODDS=2.49618;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29644;QR=21465;RO=604;RPL=851;RPP=1850.93;RPPR=1314.58;RPR=0;RUN=1;SAF=851;SAP=1850.93;SAR=0;SRF=604;SRP=1314.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:2157:-189.918,-18.6639,0 1/1:24:0,24:0:0:24:852:-75.4241,-7.22472,0 0/1:92:78,14:78:2783:14:496:-16.5272,0,-210.651 0/0:83:76,7:76:2715:7:248:0,-2.61304,-210.568 0/1:256:159,97:159:5645:97:3381:-222.557,0,-402.341 0/1:71:58,13:58:2053:13:451:-19.1395,0,-144.605 1/1:96:1,95:1:36:95:3303:-289.032,-25.3006,0 0/1:66:58,8:58:2075:8:288:-6.03618,0,-150.729 1/1:119:0,119:0:0:119:4153:-366.642,-35.8226,0 1/1:21:0,21:0:0:21:702:-61.7833,-6.32163,0 0/1:6:1,5:1:36:5:171:-13.7685,0,-1.43998 1/1:32:0,32:0:0:32:1103:-97.4328,-9.63296,0 1/1:26:2,24:2:63:24:837:-68.8715,-2.03455,0 0/1:104:89,15:89:3132:15:536:-16.1696,0,-237.941 1/1:82:0,82:0:0:82:2875:-254.643,-24.6845,0 1/1:46:0,46:0:0:46:1591:-141.221,-13.8474,0 1/1:54:0,54:0:0:54:1859:-163.196,-16.2556,0 0/1:89:47,42:47:1684:42:1487:-105.097,0,-112.528 0/1:52:32,20:32:1144:20:708:-47.1129,0,-82.2001 1/1:48:2,46:2:72:46:1601:-136.031,-8.09176,0 1/1:26:1,25:1:27:25:845:-72.9462,-5.127,0 chr07 21793922 . G A 29592.5 PASS AB=0.488889;ABP=3.63761;AC=32;AF=0.761905;AN=42;AO=1417;CIGAR=1X;DP=1777;DPB=1777;DPRA=0;EPP=3079.99;EPPR=782.569;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9873;MQMR=60;NS=21;NUMALT=1;ODDS=10.9653;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49517;QR=12830;RO=359;RPL=1417;RPP=3079.99;RPPR=782.569;RPR=0;RUN=1;SAF=1417;SAP=3079.99;SAR=0;SRF=359;SRP=782.569;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:191:2,189:2:68:189:6596:-587.284,-51.039,0 1/1:85:0,85:0:0:85:2934:-264.296,-25.5876,0 1/1:57:0,57:0:0:57:1997:-180.003,-17.1587,0 1/1:141:0,140:0:0:140:4870:-438.248,-42.1442,0 1/1:176:1,175:1:36:175:6133:-548.488,-49.383,0 1/1:99:0,99:0:0:99:3485:-313.865,-29.802,0 1/1:72:0,72:0:0:72:2504:-225.616,-21.6742,0 0/0:52:51,1:51:1824:1:36:0,-12.0553,-160.843 0/1:109:64,45:64:2300:45:1553:-107.244,0,-174.449 0/1:13:6,7:6:216:7:248:-18.7508,0,-15.8771 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.433 0/1:142:76,66:76:2700:66:2314:-165.772,0,-200.499 1/1:90:0,90:0:0:90:3119:-280.94,-27.0927,0 0/1:146:71,75:71:2543:75:2645:-194.34,0,-185.17 0/1:77:40,37:40:1436:37:1298:-93.9409,0,-106.358 1/1:68:0,68:0:0:68:2387:-215.089,-20.47,0 0/1:42:19,23:19:684:23:794:-59.1326,0,-49.2471 0/1:45:13,32:13:451:32:1144:-89.7232,0,-27.3735 1/1:116:6,110:6:212:110:3846:-326.92,-15.4947,0 1/1:33:0,33:0:0:33:1146:-103.444,-9.93399,0 chr07 21835845 . C T 14538.3 PASS AB=0.432171;ABP=23.6309;AC=32;AF=0.761905;AN=42;AO=1054;CIGAR=1X;DP=1492;DPB=1492;DPRA=0.494526;EPP=2291.74;EPPR=945.429;GTI=1;LEN=1;MEANALT=1.15;MQM=28.5114;MQMR=28.47;NS=21;NUMALT=1;ODDS=4.7402;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36556;QR=15186;RO=434;RPL=0;RPP=2291.74;RPPR=945.429;RPR=1054;RUN=1;SAF=0;SAP=2291.74;SAR=1054;SRF=0;SRP=945.429;SRR=434;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:1,51:1:36:51:1740:-120.38,-12.8325,0 1/1:88:0,88:0:0:88:3030:-217.685,-26.4906,0 1/1:143:1,142:1:36:142:4982:-350.274,-40.2262,0 1/1:81:0,81:0:0:81:2780:-196.947,-24.3834,0 1/1:90:0,90:0:0:90:3153:-223.493,-27.0927,0 1/1:37:0,37:0:0:37:1255:-89.2954,-11.1381,0 1/1:100:0,99:0:0:99:3473:-245.511,-29.802,0 0/0:137:136,0:136:4771:0:0:0,-40.9401,-339.463 0/1:85:59,26:59:2078:26:902:-37.4868,0,-117.645 0/1:8:6,2:6:203:2:72:-1.50483,0,-12.555 1/1:8:0,8:0:0:8:288:-20.6684,-2.40824,0 0/1:9:5,4:5:163:4:144:-7.31475,0,-9.78208 0/1:19:7,12:7:243:12:424:-24.5401,0,-12.0307 1/1:78:0,77:0:0:77:2633:-189.216,-23.1793,0 0/1:165:99,66:99:3505:66:2333:-116.469,0,-193.347 0/1:60:38,22:38:1328:22:765:-31.4672,0,-74.8089 1/1:87:1,86:1:36:86:2984:-204.403,-23.4534,0 0/1:131:59,71:59:2011:71:2438:-135.577,0,-105.544 0/1:39:19,20:19:668:20:681:-38.0943,0,-36.3293 1/1:36:3,33:3:108:33:1161:-75.1729,-2.93805,0 1/1:39:0,39:0:0:39:1318:-95.2746,-11.7402,0 chr07 21835870 . A G 6264.01 PASS AB=0.533563;ABP=8.695;AC=10;AF=0.238095;AN=42;AO=469;CIGAR=1X;DP=1696;DPB=1696;DPRA=1.27035;EPP=823.637;EPPR=2138.36;GTI=0;LEN=1;MEANALT=1.07143;MQM=29.2324;MQMR=29.5563;NS=21;NUMALT=1;ODDS=1.82821;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16716;QR=43150;RO=1226;RPL=445;RPP=823.637;RPPR=2138.36;RPR=24;RUN=1;SAF=0;SAP=1021.43;SAR=469;SRF=0;SRP=2665.24;SRR=1226;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2155:1:36:0,-15.8428,-147.732 0/0:103:103,0:103:3638:0:0:0,-31.0061,-261.579 0/0:165:164,1:164:5773:1:36:0,-46.8489,-409.096 0/0:89:89,0:89:3156:0:0:0,-26.7917,-222.856 0/0:106:106,0:106:3704:0:0:0,-31.9092,-264.159 0/0:43:43,0:43:1520:0:0:0,-12.9443,-108.616 0/0:112:111,1:111:3906:1:36:0,-30.8943,-274.311 1/1:153:0,152:0:0:152:5431:-386.693,-45.7566,0 0/1:94:32,62:32:1127:62:2200:-124.827,0,-50.9968 0/1:9:3,6:3:108:6:212:-12.5593,0,-4.83564 0/0:6:6,0:6:216:0:0:0,-1.80618,-15.9056 0/1:12:5,7:5:180:7:252:-14.8695,0,-8.95287 0/1:20:11,9:11:380:9:320:-16.7009,0,-22.0883 0/0:88:88,0:88:3082:0:0:0,-26.4906,-220.641 0/1:182:82,100:82:2896:100:3564:-191.303,0,-153.335 0/1:62:23,39:23:805:39:1392:-78.7656,0,-32.0437 0/0:95:94,1:94:3311:1:36:0,-25.8616,-229.528 0/1:148:79,69:79:2769:69:2453:-129.665,0,-154.956 0/1:54:36,18:36:1256:18:640:-30.1086,0,-74.5058 0/0:49:46,3:46:1604:3:108:0,-6.85144,-109.46 0/0:44:44,0:44:1564:0:0:0,-13.2453,-111.942 chr07 21836014 . C T 10193.5 PASS AB=0.547455;ABP=17.2309;AC=32;AF=0.761905;AN=42;AO=2078;CIGAR=1X;DP=2549;DPB=2549;DPRA=0.91553;EPP=4515.33;EPPR=1008.48;GTI=5;LEN=1;MEANALT=1;MQM=16.9509;MQMR=59.9703;NS=21;NUMALT=1;ODDS=2.46636;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74328;QR=16794;RO=471;RPL=2078;RPP=4515.33;RPPR=1008.48;RPR=0;RUN=1;SAF=0;SAP=4515.33;SAR=2078;SRF=0;SRP=1025.77;SRR=471;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,150:0:0:150:5388:-171.555,-45.1545,0 1/1:126:0,126:0:0:126:4528:-329.425,-37.9298,0 1/1:71:1,70:1:36:70:2481:-76.8884,-17.7749,0 1/1:225:0,225:0:0:225:8072:-252.824,-67.7318,0 1/1:368:7,361:7:248:361:12863:-388.1,-88.1148,0 1/1:164:0,164:0:0:164:5869:-425.712,-49.3689,0 1/1:148:0,148:0:0:148:5286:-384.066,-44.5524,0 0/0:132:132,0:132:4703:0:0:0,-39.736,-423.432 0/1:153:80,73:80:2845:73:2628:-31.5645,0,-210.217 0/1:10:4,6:4:144:6:216:-5.14316,0,-10.3033 1/1:4:0,4:0:0:4:144:-10.7402,-1.20412,0 0/1:43:20,23:20:716:23:828:-11.9821,0,-51.8234 0/1:158:59,99:59:2100:99:3537:-63.3742,0,-141.707 1/1:123:0,123:0:0:123:4398:-138.225,-37.0267,0 0/1:181:92,89:92:3304:89:3192:-47.7301,0,-243.092 0/1:69:31,38:31:1108:38:1364:-20.3482,0,-79.2599 1/1:112:0,112:0:0:112:3991:-119.936,-33.7154,0 0/1:49:21,28:21:752:28:1004:-17.0164,0,-53.2558 0/1:64:22,42:22:770:42:1504:-27.2931,0,-50.3534 1/1:128:1,127:1:32:127:4545:-141.017,-35.3325,0 1/1:71:1,70:1:36:70:2490:-174.714,-17.7749,0 chr07 21864633 . A G 27815.5 PASS AB=0.49931;ABP=3.02228;AC=10;AF=0.238095;AN=42;AO=1596;CIGAR=1X;DP=4834;DPB=4834;DPRA=2.79996;EPP=3399.54;EPPR=6750.52;GTI=1;LEN=1;MEANALT=1;MQM=59.9474;MQMR=59.9737;NS=21;NUMALT=1;ODDS=9.51306;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56948;QR=115765;RO=3238;RPL=8;RPP=3399.54;RPPR=6750.52;RPR=1588;RUN=1;SAF=1596;SAP=3468.68;SAR=0;SRF=3238;SRP=7034.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:145:142,3:142:5072:3:108:0,-33.5742,-446.551 0/0:109:109,0:109:3904:0:0:0,-32.8123,-351.553 0/0:84:84,0:84:3012:0:0:0,-25.2865,-271.311 0/0:57:57,0:57:2039:0:0:0,-17.1587,-183.781 0/0:161:161,0:161:5741:0:0:0,-48.4658,-516.807 0/0:109:108,1:108:3864:1:36:0,-29.214,-344.357 0/0:238:238,0:238:8520:0:0:0,-71.6451,-766.791 1/1:142:0,142:0:0:142:5070:-456.445,-42.7463,0 0/1:249:103,146:103:3635:146:5194:-392.642,0,-252.397 0/1:806:413,393:413:14772:393:14045:-1021.16,0,-1086.59 0/0:549:548,1:548:19564:1:36:0,-161.667,-1756.7 0/1:446:228,218:228:8157:218:7791:-566.953,0,-599.88 0/1:91:24,67:24:860:67:2404:-189.223,0,-50.3281 0/0:120:120,0:120:4288:0:0:0,-36.1236,-386.098 0/1:168:78,90:78:2796:90:3208:-238.371,0,-201.307 0/1:83:28,55:28:1000:55:1967:-152.128,0,-65.3299 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 0/1:968:513,455:513:18377:455:16201:-1166.36,0,-1361.57 0/1:89:65,24:65:2320:24:852:-50.2072,0,-182.269 0/0:118:117,1:117:4196:1:36:0,-31.9233,-374.093 0/0:56:56,0:56:2004:0:0:0,-16.8577,-180.633 chr07 21886069 . TTCTC TTCTT,GTCTT 42534.9 PASS AB=0.526984,0.473016;ABP=6.99478,6.99478;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1541,399;CIGAR=4M1X,1X3M1X;DP=1942;DPB=1942;DPRA=0.930808,0.770695;EPP=3349.25,869.428;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.6,1.90909;MQM=57.7372,46.1078;MQMR=0;NS=21;NUMALT=2;ODDS=15.9638;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55171,14200;QR=0;RO=0;RPL=1541,399;RPP=3349.25,869.428;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3349.25,869.428;SAR=1541,399;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82,0:0:0:82,0:2948,0:-263.701,-24.6845,0,-263.701,-24.6845,-263.701 1/1:305:0,305,0:0:0:305,0:10911,0:-980.461,-91.8142,0,-980.461,-91.8142,-980.461 1/1:65:0,65,0:0:0:65,0:2306,0:-207.606,-19.567,0,-207.606,-19.567,-207.606 1/1:101:0,100,0:0:0:100,0:3577,0:-320.516,-30.103,0,-320.516,-30.103,-320.516 1/1:153:0,153,0:0:0:153,0:5447,0:-489.858,-46.0576,0,-489.858,-46.0576,-489.858 1/1:98:0,97,1:0:0:97,1:3488,36:-312.99,-29.1999,0,-310.122,-25.9799,-309.821 1/1:114:0,113,0:0:0:113,0:4014,0:-360.597,-34.0164,0,-360.597,-34.0164,-360.597 2/2:99:0,0,99:0:0:0,99:0,3542:-313.796,-313.796,-313.796,-29.802,-29.802,0 1/2:153:0,91,62:0:0:91,62:3268,2173:-441.855,-175.931,-148.537,-266.276,0,-247.612 1/2:12:0,6,6:0:0:6,6:216,215:-35.2524,-17.6282,-15.8221,-17.9807,0,-16.1745 1/1:5:0,5,0:0:0:5,0:180,0:-16.5424,-1.50515,0,-16.5424,-1.50515,-16.5424 1/2:28:0,13,15:0:0:13,15:468,537:-81.5878,-43.4109,-39.4975,-38.5332,0,-34.0177 1/2:106:0,52,54:0:0:52,54:1868,1929:-307.985,-155.879,-140.226,-152.462,0,-136.206 1/1:69:0,69,0:0:0:69,0:2468,0:-222.25,-20.7711,0,-222.25,-20.7711,-222.25 1/2:149:0,70,79:0:0:70,79:2520,2813:-432.396,-226.93,-205.858,-205.822,0,-182.04 1/2:43:0,18,25:0:0:18,25:648,885:-124.62,-71.7779,-66.3594,-53.198,0,-45.6723 1/1:56:0,56,0:0:0:56,0:2012,0:-181.353,-16.8577,0,-181.353,-16.8577,-181.353 1/2:58:0,33,25:0:0:33,25:1184,892:-168.025,-71.4612,-61.5272,-96.9172,0,-89.3915 1/2:81:0,49,32:0:0:49,32:1756,1142:-234.342,-91.3138,-76.5633,-143.381,0,-133.748 1/1:64:0,63,1:0:0:63,1:2260,36:-203.197,-18.9649,0,-200.304,-15.7174,-200.003 1/1:101:0,101,0:0:0:101,0:3632,0:-326.627,-30.404,0,-326.627,-30.404,-326.627 chr07 21905694 . CTCCA ATCCA,ATCCG 58553.6 PASS AB=0.496429,0.489286;ABP=3.10336,3.84787;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1596,536;CIGAR=1X4M,1X3M1X;DP=2148;DPB=2155.2;DPRA=0.867949,1.19401;EPP=3425.39,1149.61;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.35,2.85714;MQM=59.9637,59.7668;MQMR=0;NS=21;NUMALT=2;ODDS=7.17543;PAIRED=0,0;PAIREDR=0;PAO=18,18;PQA=606.5,606.5;PQR=0;PRO=0;QA=56767,18644;QR=0;RO=0;RPL=766,240;RPP=8.5832,15.715;RPPR=0;RPR=830,296;RUN=1,1;SAF=771,242;SAP=6.97773,13.9649;SAR=825,294;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:0,94,0:0:0:94,0:3372,0:-303.695,-28.2968,0,-303.695,-28.2968,-303.695 1/1:87:0,87,0:0:0:87,0:3119,0:-280.935,-26.1896,0,-280.935,-26.1896,-280.935 1/1:51:0,50,1:0:0:50,1:1788,36:-160.843,-15.0515,0,-157.905,-11.7543,-157.604 1/1:88:0,87,0:0:0:87,0:3097,0:-278.703,-26.1896,0,-278.703,-26.1896,-278.703 1/1:156:0,153,2:0:0:153,2:5424,70:-487.892,-46.0576,0,-482.196,-40.3958,-481.594 1/1:115:0,115,0:0:0:115,0:4048,0:-364.507,-34.6185,0,-364.507,-34.6185,-364.507 1/1:145:0,144,0:0:0:144,0:5147,0:-463.089,-43.3483,0,-463.089,-43.3483,-463.089 2/2:117:0,0,116:0:0:0,116:0,4046:-363.601,-363.601,-363.601,-34.9195,-34.9195,0 1/2:191:0,84,100:0:0:84,100:3020,3493:-530.566,-284.176,-258.89,-246.443,0,-216.34 1/2:12:0,2,10:0:0:2,10:72,341:-33.8864,-28.0084,-27.4064,-6.23466,0,-3.22436 1/1:13:0,13,0:0:0:13,0:419,0:-38.0174,-3.91339,0,-38.0174,-3.91339,-38.0174 1/2:47:0,22,25:0:0:22,25:773,874:-134.132,-71.2201,-64.5975,-63.037,0,-55.5113 1/2:81:0,30,51:0:0:30,51:1080,1755:-230.893,-142.77,-133.739,-88.4777,0,-73.1252 1/1:92:0,92,0:0:0:92,0:3300,0:-297.196,-27.6948,0,-297.196,-27.6948,-297.196 1/2:151:0,71,77:0:0:71,77:2548,2682:-425.827,-217.982,-196.609,-207.892,0,-184.713 1/2:90:0,37,52:0:0:37,52:1313,1793:-252.736,-145.754,-134.616,-107.089,0,-91.4357 1/1:65:0,64,1:0:0:64,1:2269,36:-204.111,-19.2659,0,-201.174,-15.9687,-200.873 1/2:165:0,97,68:0:0:97,68:3417,2344:-468.111,-189.92,-160.72,-277.715,0,-257.245 1/2:103:0,74,28:0:0:74,28:2609,995:-292.816,-80.4345,-58.1583,-211.746,0,-203.317 1/1:142:0,138,4:0:0:138,4:4917,144:-442.322,-41.5421,0,-430.572,-29.4326,-429.368 1/1:143:0,142,1:0:0:142,1:5035,35:-452.946,-42.7463,0,-450.098,-39.5487,-449.797 chr07 21916364 . A G 97778.9 PASS AB=0.499451;ABP=3.01984;AC=32;AF=0.761905;AN=42;AO=4738;CIGAR=1X;DP=6859;DPB=6859;DPRA=1.15333;EPP=10291.4;EPPR=4604.36;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9831;MQMR=59.9972;NS=21;NUMALT=1;ODDS=13.555;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=169293;QR=75754;RO=2119;RPL=4738;RPP=10291.4;RPPR=4604.36;RPR=0;RUN=1;SAF=0;SAP=10291.4;SAR=4738;SRF=0;SRP=4604.36;SRR=2119;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:165:0,165:0:0:165:5896:-530.751,-49.67,0 1/1:135:0,135:0:0:135:4833:-435.123,-40.6391,0 1/1:159:1,158:1:36:158:5645:-504.571,-44.2655,0 1/1:150:0,150:0:0:150:5386:-484.869,-45.1545,0 1/1:274:3,271:3:108:271:9670:-860.178,-72.4071,0 1/1:139:0,138:0:0:138:4905:-441.24,-41.5421,0 1/1:251:0,251:0:0:251:8965:-806.83,-75.5585,0 0/0:285:285,0:285:10202:0:0:0,-85.7935,-918.105 0/1:225:133,92:133:4765:92:3285:-228.137,0,-361.273 0/1:1061:516,545:516:18365:545:19492:-1434.41,0,-1333.04 1/1:1176:4,1172:4:144:1172:41868:-3753.4,-340.698,0 0/1:910:447,463:447:15969:463:16517:-1212.25,0,-1162.95 0/1:157:64,93:64:2289:93:3304:-250.319,0,-159.008 1/1:203:1,202:1:36:202:7228:-646.973,-57.5108,0 0/1:229:126,102:126:4507:102:3663:-261.026,0,-336.952 0/1:98:55,43:55:1961:43:1540:-109.392,0,-147.262 1/1:88:0,88:0:0:88:3148:-283.546,-26.4906,0 0/1:901:465,436:465:16692:436:15592:-1131.75,0,-1230.7 0/1:59:15,44:15:536:44:1576:-124.371,0,-30.814 1/1:145:4,141:4:144:141:5029:-439.073,-30.3357,0 1/1:49:0,49:0:0:49:1751:-157.873,-14.7505,0 chr07 21987847 . ATTTT GTTTT,GTTTC 27493 PASS AB=0.589527,0.403716;ABP=44.2243,50.68;AC=33,9;AF=0.785714,0.214286;AN=42;AO=780,240;CIGAR=1X4M,1X3M1X;DP=1026;DPB=1026;DPRA=0,1.73568;EPP=3.0103,3.58936;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.7619,2.4;MQM=59.8179,57.8042;MQMR=0;NS=21;NUMALT=2;ODDS=4.10435;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27785,8397;QR=0;RO=0;RPL=780,240;RPP=1696.76,524.164;RPPR=0;RPR=0,0;RUN=1,1;SAF=390,116;SAP=3.0103,3.58936;SAR=390,124;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:30:0,30,0:0:0:30,0:1076,0:-97.1529,-9.0309,0,-97.1529,-9.0309,-97.1529 1/1:23:0,23,0:0:0:23,0:824,0:-74.481,-6.92369,0,-74.481,-6.92369,-74.481 1/1:27:0,27,0:0:0:27,0:964,0:-87.0768,-8.12781,0,-87.0768,-8.12781,-87.0768 1/1:31:0,31,0:0:0:31,0:1099,0:-99.2195,-9.33193,0,-99.2195,-9.33193,-99.2195 1/1:36:0,35,1:0:0:35,1:1248,36:-112.265,-10.5361,0,-109.328,-7.23881,-109.027 1/1:36:0,36,0:0:0:36,0:1292,0:-116.584,-10.8371,0,-116.584,-10.8371,-116.584 1/1:61:0,61,0:0:0:61,0:2157,0:-194.387,-18.3628,0,-194.387,-18.3628,-194.387 1/2:58:0,19,39:0:0:19,39:680,1365:-166.661,-111.206,-105.486,-55.8096,0,-44.0694 1/2:71:0,37,34:0:0:37,34:1328,1199:-206.296,-97.9674,-86.8293,-108.684,0,-98.4491 1/2:16:0,14,2:0:0:14,2:495,67:-46.091,-5.75952,-1.5451,-40.6686,0,-40.0666 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:18:0,11,7:0:0:11,7:396,246:-52.6854,-20.3685,-17.0572,-32.6714,0,-30.5642 1/2:49:0,20,29:0:0:20,29:716,1028:-142.268,-83.8769,-77.8563,-58.7471,0,-50.0172 1/1:44:0,44,0:0:0:44,0:1558,0:-140.474,-13.2453,0,-140.474,-13.2453,-140.474 1/2:65:0,43,21:0:0:43,21:1529,728:-183.797,-59.1883,-46.244,-124.667,0,-118.345 1/2:19:0,10,8:0:0:10,8:356,282:-51.9704,-22.9538,-19.9435,-29.0115,0,-26.6032 1/1:17:0,16,0:0:0:16,0:564,0:-50.7309,-4.81648,0,-50.7309,-4.81648,-50.7309 1/2:194:0,128,64:0:0:128,64:4579,2236:-554.631,-181.476,-142.944,-373.186,0,-353.92 1/2:102:0,67,35:0:0:67,35:2363,1210:-291.003,-98.593,-78.424,-192.757,0,-182.221 1/1:21:0,21,0:0:0:21,0:741,0:-67.0107,-6.32163,0,-67.0107,-6.32163,-67.0107 1/1:101:0,100,0:0:0:100,0:3568,0:-320.893,-30.103,0,-320.893,-30.103,-320.893 chr07 21989865 . T C 6034.7 PASS AB=0.415493;ABP=47.0514;AC=10;AF=0.238095;AN=42;AO=370;CIGAR=1X;DP=1982;DPB=1982;DPRA=0.960015;EPP=806.455;EPPR=3468.77;GTI=1;LEN=1;MEANALT=1;MQM=58.3865;MQMR=57.7512;NS=21;NUMALT=1;ODDS=0.52029;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13169;QR=57733;RO=1612;RPL=0;RPP=806.455;RPPR=3348.82;RPR=370;RUN=1;SAF=0;SAP=806.455;SAR=370;SRF=14;SRP=3382.88;SRR=1598;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:144:142,2:142:5092:2:72:0,-36.5124,-451.232 0/0:93:93,0:93:3336:0:0:0,-27.9958,-300.065 0/0:91:91,0:91:3253:0:0:0,-27.3937,-291.796 0/0:65:65,0:65:2327:0:0:0,-19.5669,-209.53 0/0:220:220,0:220:7861:0:0:0,-66.2266,-706.557 0/0:89:89,0:89:3192:0:0:0,-26.7917,-287.072 0/0:164:164,0:164:5872:0:0:0,-49.3689,-527.22 1/1:71:0,71:0:0:71:2528:-227.634,-21.3731,0 0/1:141:81,60:81:2908:60:2148:-150.979,0,-218.865 0/1:17:10,7:10:360:7:243:-17.0756,0,-27.6127 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3726 0/1:22:17,5:17:608:5:180:-9.9294,0,-48.4266 0/1:81:46,35:46:1644:35:1243:-87.6881,0,-123.666 0/0:119:119,0:119:4276:0:0:0,-35.8226,-384.704 0/1:159:100,59:100:3596:59:2107:-141.38,0,-275.72 0/1:66:42,24:42:1500:24:858:-57.5429,0,-115.292 0/0:93:91,2:91:3241:2:72:0,-21.161,-284.758 0/1:163:84,79:84:3012:79:2791:-202.28,0,-221.848 0/1:61:35,26:35:1247:26:927:-65.3331,0,-94.1083 0/0:66:66,0:66:2360:0:0:0,-19.868,-212.334 0/0:47:47,0:47:1692:0:0:0,-14.1484,-151.883 chr07 21989903 . A C 34645.5 PASS AB=0.572395;ABP=36.652;AC=32;AF=0.761905;AN=42;AO=1612;CIGAR=1X;DP=2010;DPB=2010;DPRA=1.29;EPP=3503.42;EPPR=862.913;GTI=0;LEN=1;MEANALT=1.1;MQM=57.7333;MQMR=58.2551;NS=21;NUMALT=1;ODDS=5.93914;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57594;QR=14184;RO=396;RPL=1612;RPP=3503.42;RPPR=862.913;RPR=0;RUN=1;SAF=0;SAP=3503.42;SAR=1612;SRF=0;SRP=862.913;SRR=396;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:141:2,138:2:72:138:4953:-438.35,-35.6681,0 1/1:90:0,90:0:0:90:3224:-289.704,-27.0927,0 1/1:95:0,95:0:0:95:3376:-303.282,-28.5979,0 1/1:66:0,66:0:0:66:2357:-212.27,-19.868,0 1/1:217:0,217:0:0:217:7736:-695.359,-65.3235,0 1/1:89:0,89:0:0:89:3165:-284.629,-26.7917,0 1/1:160:0,160:0:0:160:5714:-513.1,-48.1648,0 0/0:75:75,0:75:2684:0:0:0,-22.5772,-241.576 0/1:145:63,82:63:2260:82:2932:-219.856,0,-159.847 0/1:18:7,11:7:252:11:396:-30.5501,0,-17.5649 1/1:11:0,11:0:0:11:396:-35.6535,-3.31133,0 0/1:24:6,18:6:216:18:644:-50.9567,0,-12.5658 0/1:84:37,47:37:1317:47:1676:-125.667,0,-93.4398 1/1:119:1,118:1:36:118:4228:-376.816,-32.2243,0 0/1:165:64,101:64:2296:101:3616:-275.563,0,-156.445 0/1:70:26,44:26:936:44:1580:-121.281,0,-63.2708 1/1:92:2,90:2:72:90:3186:-280.005,-20.8599,0 0/1:170:85,85:85:3039:85:3048:-222.988,0,-222.354 0/1:63:28,35:28:1004:35:1256:-94.3166,0,-71.6413 1/1:69:0,68:0:0:68:2431:-218.315,-20.47,0 1/1:47:0,47:0:0:47:1680:-150.992,-14.1484,0 chr07 22006907 . GGGAA AGGAG,GGGAG 123767 PASS AB=0.515598,0.474192;ABP=10.462,23.4096;AC=32,10;AF=0.761905,0.238095;AN=42;AO=4213,1781;CIGAR=1X3M1X,4M1X;DP=6051;DPB=6053.6;DPRA=3.38807,2.73118;EPP=9142.74,3861.72;EPPR=7.35324;GTI=0;LEN=5,1;MEANALT=3.9,4.66667;MQM=59.8744,59.9966;MQMR=60;NS=21;NUMALT=2;ODDS=1.46331;PAIRED=0,0;PAIREDR=0;PAO=4.5,4.5;PQA=149,149;PQR=0;PRO=4;QA=147084,63246;QR=71;RO=2;RPL=1,1;RPP=9142.74,3861.72;RPPR=7.35324;RPR=4212,1780;RUN=1,1;SAF=0,0;SAP=9151.42,3870.4;SAR=4213,1781;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,123,0:0:0:123,0:4245,0:-382.017,-37.0267,0,-382.017,-37.0267,-382.017 1/1:111:0,111,0:0:0:111,0:3894,0:-350.614,-33.4143,0,-350.614,-33.4143,-350.614 1/1:65:0,62,2:0:0:62,2:2150,72:-193.405,-18.6639,0,-187.53,-12.789,-186.928 1/1:115:0,113,0:0:0:113,0:3936,0:-354.175,-34.0164,0,-354.175,-34.0164,-354.175 1/1:255:0,251,0:0:0:251,0:8800,0:-791.602,-75.5585,0,-791.602,-75.5585,-791.602 1/1:121:0,121,0:0:0:121,0:4232,0:-381.066,-36.4246,0,-381.066,-36.4246,-381.066 1/1:228:0,218,6:0:0:218,6:7622,216:-685.432,-65.6245,0,-667.808,-47.9565,-666.001 2/2:88:0,0,87:0:0:0,87:0,3079:-276.998,-276.998,-276.998,-26.1896,-26.1896,0 1/2:341:0,204,134:0:0:204,134:7062,4765:-962.251,-388.363,-326.953,-573.931,0,-533.593 1/2:482:2,236,236:2:71:236,236:8306,8365:-1351.24,-675.728,-610.47,-670.372,0,-605.114 1/1:1005:0,991,10:0:0:991,10:34520,352:-3105.19,-298.321,0,-3076.53,-269.681,-3073.52 1/2:849:0,436,408:0:0:436,408:15310,14479:-2425.75,-1179.72,-1048.47,-1246.06,0,-1123.24 1/2:116:0,50,66:0:0:50,66:1760,2351:-335.258,-191.981,-176.929,-143.631,0,-123.763 1/1:115:0,112,1:0:0:112,1:3848,36:-346.21,-33.7154,0,-343.273,-30.7546,-342.972 1/2:172:0,88,83:0:0:88,83:3073,2967:-491.874,-241.917,-215.427,-249.951,0,-224.965 1/2:171:0,87,81:0:0:87,81:3019,2886:-480.719,-235.319,-209.13,-245.477,0,-221.093 1/1:127:0,125,1:0:0:125,1:4342,36:-390.618,-37.6288,0,-387.68,-34.6764,-387.379 1/2:1306:0,660,633:0:0:660,633:23112,22458:-3710.29,-1829.82,-1631.14,-1880.55,0,-1689.99 1/2:89:0,57,31:0:0:57,31:1974,1116:-251.578,-91.1567,-73.998,-160.513,0,-151.181 1/1:124:0,121,2:0:0:121,2:4249,68:-382.293,-36.4246,0,-376.778,-30.8289,-376.176 1/1:47:0,47,0:0:0:47,0:1630,0:-146.877,-14.1484,0,-146.877,-14.1484,-146.877 chr07 22008824 . G A 4852.19 PASS AB=0.487356;ABP=3.61432;AC=10;AF=0.238095;AN=42;AO=278;CIGAR=1X;DP=1166;DPB=1166;DPRA=0.992032;EPP=606.68;EPPR=1931.28;GTI=0;LEN=1;MEANALT=1;MQM=56.8453;MQMR=59.9764;NS=21;NUMALT=1;ODDS=7.53386;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9950;QR=31780;RO=888;RPL=278;RPP=606.68;RPPR=1931.28;RPR=0;RUN=1;SAF=0;SAP=606.68;SAR=278;SRF=0;SRP=1931.28;SRR=888;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:29,1:29:1044:1:36:0,-5.43363,-90.6775 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.478 0/0:105:105,0:105:3756:0:0:0,-31.6081,-338.24 0/0:82:82,0:82:2944:0:0:0,-24.6845,-265.193 0/0:65:64,1:64:2288:1:36:0,-15.9697,-202.584 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/0:71:71,0:71:2536:0:0:0,-21.3731,-228.491 1/1:63:0,63:0:0:63:2252:-201.278,-18.9649,0 0/1:67:31,36:31:1108:36:1288:-95.7987,0,-79.862 0/1:4:2,2:2:68:2:72:-5.63176,0,-5.25359 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:27:19,8:19:672:8:284:-17.6999,0,-52.679 0/1:123:48,75:48:1712:75:2676:-203.643,0,-117.339 0/0:86:86,0:86:3080:0:0:0,-25.8886,-277.428 0/1:94:63,31:63:2252:31:1116:-70.4719,0,-174.646 0/1:20:12,8:12:428:8:288:-20.2296,0,-32.8382 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 0/1:58:27,31:27:968:31:1110:-82.3048,0,-69.9776 0/1:42:21,21:21:752:21:756:-55.6495,0,-55.363 0/0:71:70,1:70:2512:1:36:0,-17.7759,-222.735 0/0:34:34,0:34:1212:0:0:0,-10.235,-109.386 chr07 22059603 . G A 31325.8 PASS AB=0.51926;ABP=7.19264;AC=32;AF=0.761905;AN=42;AO=1796;CIGAR=1X;DP=2449;DPB=2449;DPRA=4.48519;EPP=3902.97;EPPR=1418.81;GTI=0;LEN=1;MEANALT=1;MQM=34.5239;MQMR=44.9387;NS=21;NUMALT=1;ODDS=6.16554;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64236;QR=23220;RO=652;RPL=0;RPP=3902.97;RPPR=1418.81;RPR=1796;RUN=1;SAF=1796;SAP=3902.97;SAR=0;SRF=652;SRP=1418.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74:0:0:74:2634:-209.955,-22.2762,0 1/1:48:0,48:0:0:48:1705:-139.188,-14.4494,0 1/1:68:0,68:0:0:68:2398:-190.577,-20.47,0 1/1:41:0,41:0:0:41:1472:-116.207,-12.3422,0 1/1:145:0,145:0:0:145:5208:-413.145,-43.6494,0 1/1:69:0,69:0:0:69:2476:-201.193,-20.7711,0 1/1:93:0,93:0:0:93:3295:-264.826,-27.9958,0 0/0:27:26,0:26:917:0:0:0,-7.82678,-80.9808 0/1:100:49,51:49:1726:51:1816:-120.284,0,-123.029 0/1:441:217,224:217:7735:224:8036:-514.264,0,-551.755 1/1:398:1,397:1:36:397:14221:-1145.31,-116.251,0 0/1:310:128,182:128:4581:182:6508:-433.393,0,-312.352 0/1:94:49,45:49:1749:45:1620:-100.386,0,-127.057 1/1:83:0,83:0:0:83:2961:-234.983,-24.9855,0 0/1:67:24,43:24:864:43:1548:-102.671,0,-55.596 0/1:65:41,24:41:1468:24:864:-51.9741,0,-111.702 1/1:57:1,56:1:36:56:2012:-162.725,-13.5919,0 0/1:196:104,92:104:3676:92:3285:-203.422,0,-266.925 0/1:25:12,13:12:432:13:468:-30.0882,0,-29.9998 1/1:36:0,36:0:0:36:1296:-105.5,-10.8371,0 1/1:12:0,12:0:0:12:413:-34.1247,-3.61236,0 chr07 22059798 . TCT TT,TTT 23918.1 PASS AB=0.574359,0.425641;ABP=21.7406,21.7406;AC=32,10;AF=0.761905,0.238095;AN=42;AO=928,195;CIGAR=1M1D1M,1M1X1M;DP=1124;DPB=814.667;DPRA=2.76,1.63688;EPP=2018.14,426.447;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.65,1.92857;MQM=59.9806,59.9641;MQMR=60;NS=21;NUMALT=2;ODDS=0.415422;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32692,6951;QR=36;RO=1;RPL=0,0;RPP=2018.14,426.447;RPPR=5.18177;RPR=928,195;RUN=1,1;SAF=0,0;SAP=2018.14,426.447;SAR=928,195;SRF=0;SRP=5.18177;SRR=1;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,123,1:0:0:123,1:4301,36:-386.908,-37.0267,0,-383.971,-33.7294,-383.67 1/1:50:0,50,0:0:0:50,0:1767,0:-159.313,-15.0515,0,-159.313,-15.0515,-159.313 1/1:43:0,43,0:0:0:43,0:1509,0:-136.101,-12.9443,0,-136.101,-12.9443,-136.101 1/1:51:0,51,0:0:0:51,0:1780,0:-160.48,-15.3525,0,-160.48,-15.3525,-160.48 1/1:102:0,97,5:0:0:97,5:3413,180:-307.028,-29.1999,0,-292.34,-14.153,-290.835 1/1:74:0,73,1:0:0:73,1:2581,36:-232.178,-21.9752,0,-229.241,-18.6779,-228.94 1/1:87:1,85,1:1:36:85,1:3010,36:-267.531,-22.6501,0,-264.895,-22.6506,-267.532 2/2:20:0,0,20:0:0:0,20:0,716:-64.7677,-64.7677,-64.7677,-6.0206,-6.0206,0 1/2:123:0,68,55:0:0:68,55:2413,1965:-357.167,-160.567,-140.097,-196.956,0,-180.399 1/2:12:0,9,3:0:0:9,3:320,108:-35.2464,-9.17208,-6.46281,-26.4331,0,-25.53 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:72:0,45,27:0:0:45,27:1577,957:-206.635,-78.3161,-64.7697,-128.672,0,-120.544 1/1:58:0,58,0:0:0:58,0:2032,0:-183.15,-17.4597,0,-183.15,-17.4597,-183.15 1/2:88:0,48,40:0:0:48,40:1697,1428:-254.986,-116.776,-102.327,-138.565,0,-126.523 1/2:55:0,29,26:0:0:29,26:1025,913:-158.134,-74.6554,-65.9255,-83.8308,0,-76.004 1/1:64:0,63,1:0:0:63,1:2232,36:-200.785,-18.9649,0,-197.847,-15.6676,-197.546 1/2:21:0,12,9:0:0:12,9:420,324:-60.9627,-26.7966,-23.1842,-34.5217,0,-31.8124 1/2:15:0,11,4:0:0:11,4:396,144:-44.4211,-12.1095,-8.79817,-32.6714,0,-31.4673 1/1:36:0,36,0:0:0:36,0:1280,0:-115.417,-10.8371,0,-115.417,-10.8371,-115.417 1/1:14:0,14,0:0:0:14,0:471,0:-42.7104,-4.21442,0,-42.7104,-4.21442,-42.7104 chr07 22059815 . T G 3598.67 PASS AB=0.418782;ABP=25.5848;AC=10;AF=0.238095;AN=42;AO=191;CIGAR=1X;DP=1172;DPB=1172;DPRA=1.26144;EPP=158.64;EPPR=453.244;GTI=1;LEN=1;MEANALT=1;MQM=59.9686;MQMR=59.9368;NS=21;NUMALT=1;ODDS=3.1086;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6805;QR=34951;RO=981;RPL=154;RPP=158.64;RPPR=453.244;RPR=37;RUN=1;SAF=0;SAP=417.762;SAR=191;SRF=0;SRP=2133.22;SRR=981;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:128:127,1:127:4525:1:36:0,-34.9336,-403.82 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.993 0/0:47:47,0:47:1669:0:0:0,-14.1484,-150.495 0/0:54:54,0:54:1920:0:0:0,-16.2556,-173.077 0/0:112:108,4:108:3828:4:144:0,-20.4017,-331.401 0/0:81:80,1:80:2857:1:36:0,-20.7852,-253.765 0/0:94:94,0:94:3326:0:0:0,-28.2968,-299.557 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 0/1:123:68,55:68:2440:55:1976:-141.088,0,-182.828 0/1:13:10,3:10:356:3:108:-6.16178,0,-28.4679 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:73:46,27:46:1633:27:962:-64.9211,0,-125.282 0/0:58:58,0:58:2064:0:0:0,-17.4597,-186.027 0/1:86:47,39:47:1668:39:1363:-97.0778,0,-124.463 0/1:58:32,26:32:1148:26:924:-66.0133,0,-86.1701 0/0:64:64,0:64:2273:0:0:0,-19.2659,-204.831 0/1:21:12,9:12:432:9:320:-22.8207,0,-32.8996 0/1:16:12,4:12:432:4:144:-8.49714,0,-34.4047 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.786 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 chr07 22134705 . A T 31092.4 PASS AB=0.535047;ABP=12.1427;AC=32;AF=0.761905;AN=42;AO=1838;CIGAR=1X;DP=2375;DPB=2375;DPRA=0.863462;EPP=3994.18;EPPR=1166.92;GTI=0;LEN=1;MEANALT=1.05;MQM=32.531;MQMR=59.6175;NS=21;NUMALT=1;ODDS=11.6244;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65686;QR=19141;RO=536;RPL=0;RPP=3994.18;RPPR=1166.92;RPR=1838;RUN=1;SAF=1838;SAP=3994.18;SAR=0;SRF=536;SRP=1166.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:157:0,157:0:0:157:5602:-439.177,-47.2617,0 1/1:91:0,91:0:0:91:3249:-234.047,-27.3937,0 1/1:160:0,160:0:0:160:5680:-446.234,-48.1648,0 1/1:108:1,107:1:32:107:3840:-298.232,-29.3119,0 1/1:254:1,253:1:36:253:9058:-706.562,-72.8633,0 1/1:67:0,67:0:0:67:2389:-172.383,-20.169,0 1/1:146:0,146:0:0:146:5209:-375.741,-43.9504,0 0/0:130:130,0:130:4645:0:0:0,-39.1339,-418.047 0/1:224:88,136:88:3160:136:4872:-321.857,0,-217.152 0/1:10:4,6:4:144:6:216:-13.7897,0,-10.3033 1/1:6:0,6:0:0:6:212:-15.7071,-1.80618,0 0/1:31:11,20:11:381:20:716:-45.6772,0,-25.2887 0/1:180:85,95:85:3018:95:3387:-212.668,0,-217.464 1/1:135:1,134:1:36:134:4767:-370.413,-37.0408,0 0/1:169:89,80:89:3165:80:2872:-176.091,0,-234.183 0/1:79:34,45:34:1220:45:1601:-103.258,0,-86.3254 1/1:67:1,65:1:36:65:2336:-180.13,-16.609,0 0/1:69:41,28:41:1472:28:1000:-54.9845,0,-111.991 0/1:94:46,48:46:1652:48:1716:-106.999,0,-120.662 1/1:137:4,133:4:144:133:4772:-349.145,-27.9275,0 1/1:61:0,61:0:0:61:2192:-158.724,-18.3628,0 chr07 22134768 . C T 3488.51 PASS AB=0.243243;ABP=575.047;AC=9;AF=0.214286;AN=42;AO=328;CIGAR=1X;DP=3617;DPB=3617;DPRA=1.05236;EPP=715.253;EPPR=7142.81;GTI=2;LEN=1;MEANALT=1;MQM=46.6585;MQMR=29.3355;NS=21;NUMALT=1;ODDS=7.43944;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11723;QR=117012;RO=3288;RPL=4;RPP=680.933;RPPR=82.9902;RPR=324;RUN=1;SAF=4;SAP=680.933;SAR=324;SRF=1818;SRP=82.9902;SRR=1470;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:289:288,0:288:10263:0:0:0,-86.6966,-737.762 0/0:173:173,0:173:6196:0:0:0,-52.0782,-410.799 0/0:240:237,3:237:8356:3:108:0,-62.2601,-608.799 0/0:215:214,1:214:7630:1:36:0,-61.1546,-541.259 0/0:392:391,1:391:13896:1:32:0,-115.423,-1017.44 0/0:135:135,0:135:4803:0:0:0,-40.639,-317.195 0/0:290:290,0:290:10274:0:0:0,-87.2987,-681.689 1/1:75:0,75:0:0:75:2696:-238.437,-22.5773,0 0/1:213:179,34:179:6369:34:1224:-45.0502,0,-421.332 0/1:8:6,2:6:216:2:72:-4.38128,0,-14.3917 0/0:7:7,0:7:248:0:0:0,-2.10721,-18.3202 0/0:31:29,2:29:1044:2:72:0,-2.5424,-69.0706 0/1:157:123,34:123:4360:34:1212:-60.5079,0,-282.126 0/0:258:256,2:256:9053:2:72:0,-72.6334,-641.484 0/1:237:180,57:180:6415:57:2048:-111.451,0,-384.386 0/1:134:88,46:88:3160:46:1641:-105.642,0,-187.082 0/0:144:144,0:144:5151:0:0:0,-43.3483,-363.529 0/1:105:67,38:67:2396:38:1330:-87.6157,0,-134.355 0/1:145:113,32:113:4039:32:1144:-58.4141,0,-241.28 0/0:242:241,1:241:8604:1:36:0,-69.2758,-606.35 0/0:127:127,0:127:4539:0:0:0,-38.2308,-299.057 chr07 22134865 . G C 22097.4 PASS AB=0.519737;ABP=4.55319;AC=32;AF=0.761905;AN=42;AO=1030;CIGAR=1X;DP=1305;DPB=1305;DPRA=1.11518;EPP=2239.63;EPPR=600.165;GTI=0;LEN=1;MEANALT=1;MQM=58.0029;MQMR=59.8218;NS=21;NUMALT=1;ODDS=12.7353;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36621;QR=9851;RO=275;RPL=1030;RPP=2239.63;RPPR=600.165;RPR=0;RUN=1;SAF=1030;SAP=2239.63;SAR=0;SRF=275;SRP=600.165;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,97:0:0:97:3463:-311.336,-29.1999,0 1/1:38:0,38:0:0:38:1347:-121.356,-11.4391,0 1/1:70:0,70:0:0:70:2508:-225.385,-21.0721,0 1/1:38:0,38:0:0:38:1364:-122.97,-11.4391,0 1/1:150:0,150:0:0:150:5320:-478.761,-45.1545,0 1/1:90:0,90:0:0:90:3236:-290.569,-27.0927,0 1/1:88:0,88:0:0:88:3123:-281.02,-26.4906,0 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.962 0/1:80:34,46:34:1207:46:1618:-121.773,0,-84.8529 0/1:21:9,12:9:324:12:432:-32.8129,0,-23.1842 1/1:5:0,5:0:0:5:180:-16.5485,-1.50515,0 0/1:30:12,18:12:432:18:648:-49.5884,0,-30.1903 0/1:68:38,30:38:1364:30:1072:-76.2667,0,-102.543 1/1:49:0,49:0:0:49:1740:-156.821,-14.7505,0 0/1:139:73,66:73:2612:66:2315:-166.606,0,-193.485 0/1:40:20,20:20:720:20:697:-51.0034,0,-53.0876 1/1:78:0,78:0:0:78:2780:-250.388,-23.4803,0 0/1:51:23,28:23:824:28:994:-74.1574,0,-59.1271 0/1:27:10,17:10:360:17:599:-46.1044,0,-24.6165 1/1:64:0,64:0:0:64:2269:-204.125,-19.2659,0 1/1:26:0,26:0:0:26:916:-82.6816,-7.82678,0 chr07 22134972 . CTTCG CTTTC,ATTTC 31445.6 PASS AB=0.501099,0.494505;ABP=3.01507,3.12961;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1178,277;CIGAR=3M2X,1X2M2X;DP=1460;DPB=1460.2;DPRA=1.41,0.860928;EPP=2561,604.508;EPPR=0;GTI=0;LEN=2,5;MEANALT=1.65,2.1;MQM=59.5908,54.9242;MQMR=0;NS=21;NUMALT=2;ODDS=16.741;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=41649,9715;QR=0;RO=0;RPL=0,0;RPP=2561,604.508;RPPR=0;RPR=1178,277;RUN=1,1;SAF=0,0;SAP=2561,604.508;SAR=1178,277;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:55:0,55,0:0:0:55,0:1943,0:-175.133,-16.5567,0,-175.133,-16.5567,-175.133 1/1:64:0,64,0:0:0:64,0:2240,0:-201.819,-19.2659,0,-201.819,-19.2659,-201.819 1/1:56:0,56,0:0:0:56,0:1986,0:-179.006,-16.8577,0,-179.006,-16.8577,-179.006 1/1:100:0,99,0:0:0:99,0:3482,0:-313.316,-29.802,0,-313.316,-29.802,-313.316 1/1:197:0,197,0:0:0:197,0:6993,0:-629.334,-59.3029,0,-629.334,-59.3029,-629.334 1/1:74:0,74,0:0:0:74,0:2614,0:-235.432,-22.2762,0,-235.432,-22.2762,-235.432 1/1:136:0,134,2:0:0:134,2:4742,69:-426.556,-40.338,0,-420.963,-34.4005,-420.361 2/2:50:0,0,50:0:0:0,50:0,1748:-157.388,-157.388,-157.388,-15.0515,-15.0515,0 1/2:78:0,33,44:0:0:33,44:1138,1569:-219.156,-126.716,-116.782,-92.4764,0,-79.2311 1/2:12:0,5,7:0:0:5,7:180,236:-34.1344,-19.4376,-17.9325,-15.0469,0,-12.9397 1/1:4:0,4,0:0:0:4,0:136,0:-12.575,-1.20412,0,-12.575,-1.20412,-12.575 1/2:15:0,6,8:0:0:6,8:205,278:-39.2056,-22.57,-20.7638,-16.6712,0,-14.2629 1/2:67:0,41,26:0:0:41,26:1437,913:-191.473,-74.5493,-62.2071,-117.217,0,-109.39 1/1:89:0,89,0:0:0:89,0:3168,0:-285.19,-26.7917,0,-285.19,-26.7917,-285.19 1/2:71:0,34,37:0:0:34,37:1196,1307:-204.037,-106.681,-96.4455,-97.7084,0,-86.5703 1/2:86:0,45,41:0:0:45,41:1591,1448:-247.534,-117.963,-104.416,-129.924,0,-117.582 1/1:79:0,77,0:0:0:77,0:2717,0:-244.409,-23.1793,0,-244.409,-23.1793,-244.409 1/2:82:0,32,50:0:0:32,50:1146,1727:-233.133,-139.676,-130.043,-93.8095,0,-78.758 1/2:44:0,32,12:0:0:32,12:1130,420:-126.462,-34.441,-24.8081,-92.3708,0,-88.7585 1/1:59:0,59,0:0:0:59,0:2116,0:-190.695,-17.7608,0,-190.695,-17.7608,-190.695 1/1:42:0,42,0:0:0:42,0:1489,0:-134.284,-12.6433,0,-134.284,-12.6433,-134.284 chr07 22157563 . CAGC CAATC,CAATA 35889.9 PASS AB=0.525659,0.472954;ABP=7.13339,7.59117;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1405,486;CIGAR=1M1I1M1X1M,1M1I1M2X;DP=1899;DPB=2373;DPRA=0.595918,1.12253;EPP=3053.93,1058.35;EPPR=0;GTI=0;LEN=5,5;MEANALT=1.7,2.22222;MQM=42.5381,29.4033;MQMR=0;NS=21;NUMALT=2;ODDS=5.91693;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49013,17065;QR=0;RO=0;RPL=1405,486;RPP=3053.93,1058.35;RPPR=0;RPR=0,0;RUN=1,1;SAF=1405,486;SAP=3053.93,1058.35;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,86,0:0:0:86,0:2985,0:-263.924,-25.8886,0,-263.924,-25.8886,-263.924 1/1:105:0,104,0:0:0:104,0:3592,0:-307.678,-31.3071,0,-307.678,-31.3071,-307.678 1/1:94:0,94,0:0:0:94,0:3299,0:-291.223,-28.2968,0,-291.223,-28.2968,-291.223 1/1:113:0,113,0:0:0:113,0:3969,0:-351.422,-34.0164,0,-351.422,-34.0164,-351.422 1/1:129:0,128,0:0:0:128,0:4441,0:-391.363,-38.5318,0,-391.363,-38.5318,-391.363 1/1:73:0,73,0:0:0:73,0:2516,0:-215.777,-21.9752,0,-215.777,-21.9752,-215.777 1/1:110:0,109,0:0:0:109,0:3867,0:-331.938,-32.8123,0,-331.938,-32.8123,-331.938 2/2:147:0,0,145:0:0:0,145:0,5095:-352.772,-352.772,-352.772,-43.6494,-43.6494,0 1/2:207:0,120,87:0:0:120,87:4147,3074:-542.852,-210.282,-174.159,-332.888,0,-306.698 1/2:21:0,13,8:0:0:13,8:427,267:-50.7205,-17.169,-13.2556,-33.8394,0,-31.4312 1/1:7:0,7,0:0:0:7,0:243,0:-20.5975,-2.10721,0,-20.5975,-2.10721,-20.5975 1/2:28:0,12,16:0:0:12,16:405,566:-66.7,-34.7433,-31.1309,-32.2617,0,-27.4453 1/2:90:0,40,50:0:0:40,50:1423,1751:-227.697,-113.858,-101.817,-114.16,0,-99.1082 1/1:89:0,89,0:0:0:89,0:3089,0:-273.669,-26.7917,0,-273.669,-26.7917,-273.669 1/2:132:0,66,66:0:0:66,66:2332,2314:-334.988,-149.239,-129.371,-186.064,0,-166.196 1/2:54:0,32,22:0:0:32,22:1141,774:-144.96,-53.1956,-43.5627,-92.086,0,-85.4633 1/1:80:0,80,0:0:0:80,0:2793,0:-248.858,-24.0824,0,-248.858,-24.0824,-248.858 1/2:129:0,53,75:0:0:53,75:1820,2618:-304.648,-161.198,-145.243,-143.488,0,-120.911 1/2:60:0,43,17:0:0:43,17:1504,606:-159.441,-39.3108,-26.3666,-120.434,0,-115.317 1/1:81:0,81,0:0:0:81,0:2832,0:-247.887,-24.3834,0,-247.887,-24.3834,-247.887 1/1:62:0,62,0:0:0:62,0:2188,0:-187.662,-18.6639,0,-187.662,-18.6639,-187.662 chr07 22196533 . CAAGAAGGAT CAAGGAT 6506.89 PASS AB=0.535645;ABP=8.73813;AC=10;AF=0.238095;AN=42;AO=364;CIGAR=1M3D6M;DP=1297;DPB=1187.5;DPRA=1.09276;EPP=759.064;EPPR=1936.38;GTI=1;LEN=3;MEANALT=1.18182;MQM=59.6896;MQMR=59.986;NS=21;NUMALT=1;ODDS=2.83412;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12662;QR=32576;RO=926;RPL=360;RPP=759.064;RPPR=1936.38;RPR=4;RUN=1;SAF=364;SAP=793.426;SAR=0;SRF=926;SRP=2013.79;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:102:102,0:102:3577:0:0:0,-30.7051,-322.142 0/0:38:38,0:38:1340:0:0:0,-11.4391,-120.901 0/0:54:54,0:54:1898:0:0:0,-16.2556,-171.098 0/0:38:36,1:36:1255:1:36:0,-7.89953,-109.655 0/0:134:132,0:132:4642:0:0:0,-39.736,-417.591 0/0:80:80,0:80:2824:0:0:0,-24.0824,-254.402 0/0:73:72,0:72:2526:0:0:0,-21.6742,-227.235 1/1:84:0,84:0:0:84:2904:-261.586,-25.2865,0 0/1:142:65,76:65:2310:76:2672:-197.814,0,-165.357 0/1:15:6,9:6:213:9:297:-22.5348,0,-15.001 0/0:12:12,0:12:429:0:0:0,-3.61236,-38.9495 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:65:26,39:26:924:39:1328:-100.238,0,-63.9112 0/0:67:66,1:66:2290:1:21:0,-18.0691,-204.25 0/1:146:72,74:72:2548:74:2585:-188.873,0,-185.622 0/1:40:11,29:11:387:29:1015:-79.6093,0,-23.1253 0/0:25:24,0:24:852:0:0:0,-7.22472,-76.7848 0/1:72:33,39:33:1151:39:1384:-103.18,0,-82.2209 0/1:32:26,6:26:921:6:208:-9.42612,0,-73.5746 0/0:46:46,0:46:1605:0:0:0,-13.8474,-144.739 0/0:25:24,0:24:848:0:0:0,-7.22472,-76.2802 chr07 22196551 . CAAC TAAT,TAAC 28565.5 PASS AB=0.435337,0.555556;ABP=22.9491,17.7281;AC=32,10;AF=0.761905,0.238095;AN=42;AO=928,400;CIGAR=1X2M1X,1X3M;DP=1336;DPB=1336;DPRA=0.660638,1.15296;EPP=1949.25,837.203;EPPR=9.52472;GTI=1;LEN=4,1;MEANALT=1.75,2.27273;MQM=59.9752,59.6825;MQMR=60;NS=21;NUMALT=2;ODDS=6.02441;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32333,14266;QR=108;RO=3;RPL=920,396;RPP=1949.25,837.203;RPPR=9.52472;RPR=8,4;RUN=1,1;SAF=928,400;SAP=2018.14,871.599;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102,0:0:0:102,0:3527,0:-317.644,-30.7051,0,-317.644,-30.7051,-317.644 1/1:38:0,38,0:0:0:38,0:1310,0:-118.197,-11.4391,0,-118.197,-11.4391,-118.197 1/1:52:0,52,0:0:0:52,0:1811,0:-163.269,-15.6536,0,-163.269,-15.6536,-163.269 1/1:37:0,36,1:0:0:36,1:1245,36:-111.991,-10.8371,0,-109.053,-7.53984,-108.752 1/1:134:0,134,0:0:0:134,0:4705,0:-423.619,-40.338,0,-423.619,-40.338,-423.619 1/1:80:0,80,0:0:0:80,0:2800,0:-252.244,-24.0824,0,-252.244,-24.0824,-252.244 1/1:73:0,73,0:0:0:73,0:2541,0:-228.942,-21.9752,0,-228.942,-21.9752,-228.942 2/2:94:1,0,93:1:36:0,93:0,3324:-295.765,-296.066,-299.003,-24.6985,-27.9958,0 1/2:152:0,63,87:0:0:63,87:2203,3104:-432.262,-253.044,-234.079,-179.239,0,-153.05 1/2:18:0,7,11:0:0:7,11:238,396:-51.9673,-32.6714,-30.5642,-19.6435,0,-16.3322 1/1:12:0,12,0:0:0:12,0:415,0:-37.681,-3.61236,0,-37.681,-3.61236,-37.681 1/2:7:0,1,6:0:0:1,6:36,216:-20.9217,-17.9843,-17.6833,-3.29724,0,-1.49106 1/2:67:0,26,41:0:0:26,41:917,1453:-193.38,-118.712,-110.886,-75.0204,0,-62.6781 1/1:67:0,65,1:0:0:65,1:2218,36:-199.548,-19.567,0,-196.61,-16.5996,-196.309 1/2:157:2,72,82:2:72:72,82:2538,2924:-438.467,-232.425,-216.625,-200.796,0,-181.986 1/2:40:0,11,29:0:0:11,29:381,1044:-116.495,-85.5345,-82.2232,-31.3109,0,-22.581 1/1:25:0,24,0:0:0:24,0:860,0:-77.4582,-7.22472,0,-77.4582,-7.22472,-77.4582 1/2:74:0,33,41:0:0:33,41:1149,1445:-211.428,-117.997,-108.063,-93.781,0,-81.4388 1/2:34:0,26,8:0:0:26,8:921,288:-98.8819,-23.8592,-16.0324,-75.3812,0,-72.9729 1/1:47:0,47,0:0:0:47,0:1616,0:-145.727,-14.1484,0,-145.727,-14.1484,-145.727 1/1:26:0,26,0:0:0:26,0:902,0:-81.4937,-7.82678,0,-81.4937,-7.82678,-81.4937 chr07 22196694 . GGT AGG,GGG 34839.5 PASS AB=0.434701,0.563433;ABP=22.8614,21.7433;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1207,438;CIGAR=1X1M1X,2M1X;DP=1651;DPB=1651;DPRA=0.594922,1.52356;EPP=2615.3,954.115;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.9,2.23077;MQM=59.9047,53.3493;MQMR=0;NS=21;NUMALT=2;ODDS=7.0475;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41830,15568;QR=0;RO=0;RPL=1,0;RPP=2615.3,954.115;RPPR=0;RPR=1206,438;RUN=1,1;SAF=0,0;SAP=2623.98,954.115;SAR=1207,438;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:0,63,0:0:0:63,0:2228,0:-200.784,-18.9649,0,-200.784,-18.9649,-200.784 1/1:66:0,66,0:0:0:66,0:2277,0:-205.188,-19.868,0,-205.188,-19.868,-205.188 1/1:32:0,32,0:0:0:32,0:1138,0:-102.729,-9.63296,0,-102.729,-9.63296,-102.729 1/1:105:0,104,0:0:0:104,0:3568,0:-320.968,-31.3071,0,-320.968,-31.3071,-320.968 1/1:203:0,201,1:0:0:201,1:6924,36:-622.867,-60.507,0,-619.931,-57.5122,-619.63 1/1:92:0,90,2:0:0:90,2:3077,63:-276.846,-27.0927,0,-271.78,-21.7116,-271.178 1/1:98:0,94,3:0:0:94,3:3282,108:-295.262,-28.2968,0,-287.131,-20.1842,-286.228 2/2:128:0,0,128:0:0:0,128:0,4572:-408.621,-408.621,-408.621,-38.5318,-38.5318,0 1/2:102:0,49,53:0:0:49,53:1691,1861:-288.995,-151.631,-136.88,-137.712,0,-121.757 1/2:12:0,7,5:0:0:7,5:241,180:-34.4336,-14.8664,-12.7592,-19.9181,0,-18.413 1/1:10:0,10,0:0:0:10,0:358,0:-32.5629,-3.0103,0,-32.5629,-3.0103,-32.5629 1/2:42:0,12,30:0:0:12,30:419,1076:-121.794,-87.7221,-84.1098,-34.4232,0,-25.3923 1/2:180:0,81,98:0:0:81,98:2841,3494:-515.317,-284.141,-259.757,-231.327,0,-201.826 1/1:104:0,103,0:0:0:103,0:3555,0:-319.801,-31.0061,0,-319.801,-31.0061,-319.801 1/2:67:0,35,32:0:0:35,32:1219,1140:-192.159,-93.0366,-82.5006,-99.4745,0,-89.8415 1/2:46:0,10,36:0:0:10,36:341,1296:-133.549,-105.886,-102.875,-28.0083,0,-17.1712 1/1:68:0,68,0:0:0:68,0:2362,0:-212.836,-20.47,0,-212.836,-20.47,-212.836 1/2:40:0,13,27:0:0:13,27:448,914:-110.214,-73.8219,-69.9085,-36.7341,0,-28.6063 1/2:47:0,26,21:0:0:26,21:893,756:-134.33,-61.828,-54.0013,-72.8537,0,-66.5321 1/1:119:0,116,2:0:0:116,2:4013,72:-361.007,-34.9195,0,-355.141,-29.0542,-354.539 1/1:27:0,27,0:0:0:27,0:955,0:-86.2662,-8.12781,0,-86.2662,-8.12781,-86.2662 chr07 22196709 . ACACTGA GCACTGTGA 8193.21 PASS AB=0.571949;ABP=27.6955;AC=10;AF=0.238095;AN=42;AO=447;CIGAR=1X3M2I3M;DP=1672;DPB=1799.71;DPRA=1.45;EPP=973.658;EPPR=2602.44;GTI=0;LEN=9;MEANALT=1.5;MQM=53.2908;MQMR=59.9055;NS=21;NUMALT=1;ODDS=7.00973;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15843;QR=42758;RO=1217;RPL=447;RPP=973.658;RPPR=2602.44;RPR=0;RUN=1;SAF=0;SAP=973.658;SAR=447;SRF=0;SRP=2645.69;SRR=1217;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:62,0:62:2209:0:0:0,-18.6639,-198.715 0/0:66:66,0:66:2326:0:0:0,-19.868,-209.6 0/0:32:32,0:32:1129:0:0:0,-9.63296,-101.919 0/0:105:105,0:105:3668:0:0:0,-31.6081,-330.322 0/0:206:205,1:205:7149:1:36:0,-58.4165,-639.796 0/0:93:93,0:93:3278:0:0:0,-27.9958,-295.244 0/0:98:94,3:94:3308:3:104:0,-20.4297,-288.813 1/1:129:0,127:0:0:127:4520:-404.117,-38.2308,0 0/1:107:50,57:50:1737:57:2031:-150.57,0,-124.401 0/1:12:7,5:7:251:5:175:-12.3164,0,-19.3255 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:42:12,30:12:418:30:1060:-82.6812,0,-25.3066 0/1:185:81,103:81:2855:103:3623:-269.736,0,-201.506 0/0:104:103,0:103:3633:0:0:0,-31.0061,-326.819 0/1:68:35,33:35:1258:33:1174:-85.1893,0,-93.0555 0/1:48:10,38:10:350:38:1337:-105.968,0,-17.3874 0/0:69:69,0:69:2436:0:0:0,-20.7711,-219.496 0/1:40:13,27:13:465:27:961:-74.3202,0,-30.147 0/1:47:25,21:25:862:21:750:-53.4195,0,-63.6864 0/0:120:117,2:117:4077:2:72:0,-29.3552,-360.298 0/0:27:27,0:27:953:0:0:0,-8.12781,-86.0849 chr07 22213725 . C G 2261.43 PASS AB=0.540856;ABP=6.73645;AC=10;AF=0.238095;AN=42;AO=164;CIGAR=1X;DP=524;DPB=524;DPRA=1.55372;EPP=359.132;EPPR=784.74;GTI=0;LEN=1;MEANALT=1;MQM=36.4512;MQMR=37;NS=21;NUMALT=1;ODDS=1.90062;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5649;QR=12788;RO=360;RPL=0;RPP=359.132;RPPR=784.74;RPR=164;RUN=1;SAF=0;SAP=359.132;SAR=164;SRF=0;SRP=784.74;SRR=360;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:21,0:21:748:0:0:0,-6.32163,-63.006 0/0:19:19,0:19:680:0:0:0,-5.71957,-58.0088 0/0:28:28,0:28:1000:0:0:0,-8.42884,-84.1779 0/0:16:16,0:16:572:0:0:0,-4.81648,-48.2786 0/0:39:39,0:39:1396:0:0:0,-11.7402,-116.331 0/0:15:15,0:15:540:0:0:0,-4.51545,-46.0714 0/0:23:23,0:23:815:0:0:0,-6.92369,-68.6739 1/1:25:0,25:0:0:25:842:-71.3395,-7.52575,0 0/1:36:16,20:16:553:20:673:-45.6496,0,-35.5233 0/1:6:2,4:2:72:4:136:-10.0836,0,-4.5515 0/0:7:7,0:7:252:0:0:0,-2.10721,-21.6806 0/1:22:10,12:10:356:12:419:-27.3875,0,-23.5857 0/1:22:4,18:4:144:18:629:-46.541,0,-5.75808 0/0:15:15,0:15:532:0:0:0,-4.51545,-44.2291 0/1:57:19,38:19:684:38:1309:-92.831,0,-40.2515 0/1:10:7,3:7:248:3:108:-6.22697,0,-17.5889 0/0:12:12,0:12:432:0:0:0,-3.61236,-36.0022 0/1:81:46,35:46:1630:35:1213:-76.9336,0,-112.637 0/1:23:14,9:14:491:9:320:-19.4718,0,-34.708 0/0:19:19,0:19:656:0:0:0,-5.71957,-55.6378 0/0:28:28,0:28:987:0:0:0,-8.42884,-84.2828 chr07 22213764 . A G 6728.56 PASS AB=0.454545;ABP=7.74806;AC=32;AF=0.761905;AN=42;AO=368;CIGAR=1X;DP=539;DPB=539;DPRA=0.948148;EPP=802.112;EPPR=374.332;GTI=1;LEN=1;MEANALT=1;MQM=36.9728;MQMR=37.076;NS=21;NUMALT=1;ODDS=1.13236;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13158;QR=6140;RO=171;RPL=368;RPP=802.112;RPPR=374.332;RPR=0;RUN=1;SAF=0;SAP=802.112;SAR=368;SRF=0;SRP=374.332;SRR=171;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,22:0:0:22:779:-65.636,-6.62266,0 1/1:19:0,19:0:0:19:684:-58.2667,-5.71957,0 1/1:28:0,28:0:0:28:996:-83.938,-8.42884,0 1/1:17:0,17:0:0:17:612:-51.3871,-5.11751,0 1/1:40:0,40:0:0:40:1431:-119.209,-12.0412,0 1/1:15:0,15:0:0:15:540:-46.0714,-4.51545,0 1/1:25:0,25:0:0:25:896:-74.964,-7.52575,0 0/0:27:27,0:27:968:0:0:0,-8.12781,-81.4281 0/1:37:21,16:21:756:16:576:-36.7832,0,-51.5434 0/1:6:4,2:4:144:2:72:-4.5515,0,-10.5746 1/1:7:0,7:0:0:7:248:-21.4202,-2.10721,0 0/1:21:11,10:11:396:10:360:-24.1283,0,-26.3405 0/1:25:21,4:21:752:4:140:-4.60949,0,-56.2671 1/1:15:0,15:0:0:15:540:-44.7104,-4.51545,0 0/1:58:38,20:38:1368:20:720:-42.962,0,-96.6172 0/1:11:3,8:3:108:8:284:-20.0146,0,-5.92594 1/1:12:0,12:0:0:12:432:-36.0022,-3.61236,0 0/1:83:37,46:37:1324:46:1628:-111.615,0,-85.0813 0/1:23:9,14:9:324:14:504:-35.5724,0,-19.7136 1/1:19:0,19:0:0:19:680:-57.2825,-5.71957,0 1/1:29:0,29:0:0:29:1036:-88.2404,-8.72987,0 chr07 22234391 . C G 50657.7 PASS AB=0.502918;ABP=3.08634;AC=32;AF=0.761905;AN=42;AO=1927;CIGAR=1X;DP=2606;DPB=2606;DPRA=0.749387;EPP=4187.44;EPPR=1466.6;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8521;MQMR=59.9145;NS=21;NUMALT=1;ODDS=3.18515;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66654;QR=23801;RO=678;RPL=1051;RPP=37.5206;RPPR=41.7637;RPR=876;RUN=1;SAF=1051;SAP=37.5206;SAR=876;SRF=285;SRP=40.3673;SRR=393;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:145:1,144:1:36:144:5009:-447.363,-40.0511,0 1/1:92:0,92:0:0:92:3233:-291.192,-27.6948,0 1/1:120:0,120:0:0:120:4144:-372.864,-36.1236,0 1/1:120:0,120:0:0:120:4100:-369.19,-36.1236,0 1/1:207:1,206:1:36:206:7019:-628.161,-58.7149,0 1/1:93:0,93:0:0:93:3267:-294.253,-27.9958,0 1/1:149:1,148:1:36:148:5108:-456.267,-41.2552,0 0/0:163:163,0:163:5743:0:0:0,-49.0679,-516.992 0/1:175:99,76:99:3524:76:2658:-186.785,0,-264.585 0/1:7:5,2:5:176:2:72:-4.72951,0,-14.0778 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:51:28,23:28:992:23:803:-57.2345,0,-74.2419 0/1:145:88,57:88:3096:57:2007:-137.253,0,-235.22 1/1:134:0,134:0:0:134:4557:-410.29,-40.338,0 0/1:166:108,58:108:3791:58:2026:-132.641,0,-291.423 0/1:77:29,48:29:1028:48:1662:-126.681,0,-69.6537 1/1:104:0,104:0:0:104:3667:-330.235,-31.3071,0 0/1:191:84,107:84:2875:107:3692:-274.978,0,-201.493 0/1:216:70,146:70:2432:146:5011:-386.122,0,-153.094 1/1:120:1,119:1:36:119:4098:-365.412,-32.5253,0 1/1:126:0,125:0:0:125:4345:-390.872,-37.6288,0 chr07 22241556 . A T 16441.3 PASS AB=0.550314;ABP=10.0027;AC=33;AF=0.785714;AN=42;AO=792;CIGAR=1X;DP=999;DPB=999;DPRA=0.768852;EPP=1722.82;EPPR=452.505;GTI=0;LEN=1;MEANALT=1;MQM=59.6566;MQMR=59.8357;NS=21;NUMALT=1;ODDS=8.35081;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27502;QR=7365;RO=207;RPL=792;RPP=1722.82;RPPR=452.505;RPR=0;RUN=1;SAF=792;SAP=1722.82;SAR=0;SRF=207;SRP=452.505;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,58:0:0:58:2034:-183.278,-17.4597,0 1/1:61:0,61:0:0:61:2120:-191.064,-18.3628,0 1/1:21:0,21:0:0:21:736:-66.5543,-6.32163,0 1/1:42:0,42:0:0:42:1466:-132.231,-12.6433,0 1/1:93:2,91:2:72:91:3097:-272.109,-21.1591,0 1/1:72:0,72:0:0:72:2515:-226.598,-21.6742,0 1/1:97:0,97:0:0:97:3324:-299.362,-29.1999,0 0/0:61:61,0:61:2161:0:0:0,-18.3628,-194.666 0/1:51:29,22:29:1032:22:780:-55.1696,0,-77.8408 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:15:9,6:9:320:6:216:-15.2751,0,-24.6269 0/1:52:22,30:22:788:30:1034:-77.6912,0,-55.5912 1/1:46:1,45:1:36:45:1557:-136.82,-10.2491,0 0/1:92:43,49:43:1528:49:1689:-124.543,0,-110.118 0/1:15:5,10:5:176:10:360:-28.2265,0,-11.6696 1/1:29:0,29:0:0:29:1013:-91.4629,-8.72987,0 0/1:46:22,24:22:784:24:831:-61.2391,0,-57.0308 0/1:47:13,34:13:468:34:1203:-94.398,0,-28.3112 1/1:42:0,42:0:0:42:1444:-130.248,-12.6433,0 1/1:50:0,50:0:0:50:1767:-159.29,-15.0515,0 chr07 22241558 . T C 3638.81 PASS AB=0.450311;ABP=9.91585;AC=10;AF=0.238095;AN=42;AO=211;CIGAR=1X;DP=1006;DPB=1006;DPRA=0.992251;EPP=461.191;EPPR=1729.33;GTI=1;LEN=1;MEANALT=1;MQM=59.8626;MQMR=59.6465;NS=21;NUMALT=1;ODDS=3.16931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7489;QR=28371;RO=795;RPL=211;RPP=461.191;RPPR=1729.33;RPR=0;RUN=1;SAF=211;SAP=461.191;SAR=0;SRF=795;SRP=1729.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.583 0/0:60:60,0:60:2140:0:0:0,-18.0618,-192.866 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.5857 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.888 0/0:93:91,2:91:3242:2:68:0,-21.5381,-285.529 0/0:72:72,0:72:2568:0:0:0,-21.6742,-231.366 0/0:100:100,0:100:3568:0:0:0,-30.103,-321.29 1/1:63:0,63:0:0:63:2206:-198.763,-18.9649,0 0/1:50:21,29:21:737:29:1044:-79.2229,0,-51.5982 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:15:6,9:6:216:9:324:-24.9904,0,-15.2751 0/1:54:31,23:31:1108:23:815:-57.4151,0,-83.7554 0/0:47:46,1:46:1627:1:36:0,-10.5501,-143.12 0/1:91:49,42:49:1752:42:1500:-107.901,0,-130.443 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2555 0/1:43:22,21:22:792:21:752:-55.0596,0,-58.6338 0/1:49:34,15:34:1216:15:528:-33.1009,0,-94.9669 0/0:43:43,0:43:1513:0:0:0,-12.9443,-136.458 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.302 chr07 22251945 . G T,A 48507.1 PASS AB=0.567827,0.429772;ABP=36.2967,38.6949;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1782,430;CIGAR=1X,1X;DP=2217;DPB=2217;DPRA=1.55652,1.00211;EPP=3872.57,936.743;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=1.6,1.91667;MQM=59.9978,60;MQMR=60;NS=21;NUMALT=2;ODDS=1.83992;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63803,15452;QR=72;RO=2;RPL=1782,430;RPP=3872.57,936.743;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3872.57,936.743;SAR=1782,430;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:135:0,135,0:0:0:135,0:4829,0:-434.763,-40.6391,0,-434.763,-40.6391,-434.763 1/1:89:0,89,0:0:0:89,0:3192,0:-287.503,-26.7917,0,-287.503,-26.7917,-287.503 1/1:60:0,59,1:0:0:59,1:2124,36:-191.068,-17.7608,0,-188.131,-14.4635,-187.83 1/1:158:0,158,0:0:0:158,0:5657,0:-509.247,-47.5627,0,-509.247,-47.5627,-509.247 1/1:83:0,83,0:0:0:83,0:2972,0:-267.711,-24.9855,0,-267.711,-24.9855,-267.711 1/1:137:0,134,0:0:0:134,0:4796,0:-431.436,-40.338,0,-431.436,-40.338,-431.436 1/1:177:0,176,1:0:0:176,1:6279,36:-564.841,-52.9813,0,-561.903,-49.684,-561.602 2/2:69:0,0,69:0:0:0,69:0,2484:-223.813,-223.813,-223.813,-20.7711,-20.7711,0 1/2:132:0,77,55:0:0:77,55:2760,1972:-386.302,-161.198,-138.019,-225.462,0,-208.906 1/2:12:0,7,5:0:0:7,5:252,176:-35.2464,-14.6799,-12.5727,-20.9217,0,-19.4166 1/1:7:0,7,0:0:0:7,0:237,0:-21.6591,-2.10721,0,-21.6591,-2.10721,-21.6591 1/2:20:0,15,5:0:0:15,5:532,180:-58.3861,-15.0469,-10.5315,-43.6976,0,-42.1925 1/2:89:0,53,36:0:0:53,36:1896,1292:-260.352,-105.747,-89.7921,-154.963,0,-144.126 1/1:112:0,112,0:0:0:112,0:4001,0:-360.278,-33.7154,0,-360.278,-33.7154,-360.278 1/2:232:0,120,112:0:0:120,112:4297,4028:-679.414,-328.991,-292.868,-350.781,0,-317.066 1/2:123:0,72,51:0:0:72,51:2576,1832:-359.865,-149.808,-128.134,-210.415,0,-195.062 1/1:129:0,128,1:0:0:128,1:4600,36:-413.803,-38.5318,0,-410.865,-35.2346,-410.564 1/2:126:1,66,59:1:36:66,59:2376,2120:-363.579,-170.01,-153.08,-190.932,0,-176.109 1/2:99:1,63,35:1:36:63,35:2253,1260:-283.278,-99.8722,-83.8447,-180.769,0,-173.17 1/1:165:0,165,0:0:0:165,0:5916,0:-532.546,-49.67,0,-532.546,-49.67,-532.546 1/1:63:0,63,0:0:0:63,0:2258,0:-203.483,-18.9649,0,-203.483,-18.9649,-203.483 chr07 22255733 . GGG CGA,CGG 29452.3 PASS AB=0.539405,0.458844;ABP=10.7112,11.411;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1136,303;CIGAR=1X1M1X,1X2M;DP=1447;DPB=1447;DPRA=1.75875,1.03938;EPP=2469.8,660.966;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=1.8,1.9;MQM=40.1796,54.967;MQMR=60;NS=21;NUMALT=2;ODDS=3.53304;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40214,10784;QR=36;RO=1;RPL=1136,303;RPP=2469.8,660.966;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2469.8,660.966;SAR=1136,303;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,76,0:0:0:76,0:2687,0:-234.023,-22.8783,0,-234.023,-22.8783,-234.023 1/1:40:0,40,0:0:0:40,0:1411,0:-119.687,-12.0412,0,-119.687,-12.0412,-119.687 1/1:84:0,84,0:0:0:84,0:2978,0:-260.979,-25.2865,0,-260.979,-25.2865,-260.979 1/1:86:0,85,0:0:0:85,0:3015,0:-262.361,-25.5876,0,-262.361,-25.5876,-262.361 1/1:128:0,126,0:0:0:126,0:4435,0:-385.706,-37.9298,0,-385.706,-37.9298,-385.706 1/1:69:0,67,0:0:0:67,0:2396,0:-200.786,-20.169,0,-200.786,-20.169,-200.786 1/1:77:0,77,0:0:0:77,0:2736,0:-230.33,-23.1793,0,-230.33,-23.1793,-230.33 2/2:40:0,0,40:0:0:0,40:0,1418:-127.732,-127.732,-127.732,-12.0412,-12.0412,0 1/2:153:0,74,79:0:0:74,79:2640,2828:-433.99,-230.247,-207.971,-204.091,0,-180.31 1/2:11:0,8,3:0:0:8,3:285,108:-31.3996,-9.15779,-6.74955,-22.5965,0,-21.6934 1/1:10:0,9,0:0:0:9,0:309,0:-26.4766,-2.70927,0,-26.4766,-2.70927,-26.4766 1/2:45:0,29,16:0:0:29,16:1013,572:-125.874,-46.9222,-38.1923,-79.3015,0,-74.485 1/2:89:0,56,33:0:0:56,33:1987,1184:-253.012,-96.7452,-79.8875,-156.62,0,-146.686 1/1:76:0,75,0:0:0:75,0:2662,0:-232.814,-22.5773,0,-232.814,-22.5773,-232.814 1/2:147:0,76,71:0:0:76,71:2696,2540:-418.712,-207.204,-184.326,-211.858,0,-190.485 1/2:28:1,16,11:1:36:16,11:561,392:-72.4479,-28.6753,-26.7968,-41.1239,0,-40.7511 1/1:48:0,48,0:0:0:48,0:1687,0:-146.928,-14.4494,0,-146.928,-14.4494,-146.928 1/2:49:0,19,30:0:0:19,30:668,1038:-136.303,-84.1809,-78.4613,-52.4626,0,-43.4317 1/2:49:0,30,19:0:0:30,19:1078,668:-139.823,-54.6467,-45.6158,-85.5266,0,-79.8071 1/1:92:0,91,1:0:0:91,1:3196,36:-274.472,-27.3937,0,-271.539,-24.1016,-271.238 1/1:50:0,50,0:0:0:50,0:1774,0:-149.664,-15.0515,0,-149.664,-15.0515,-149.664 chr07 22282174 . TGGAT TT,TTAAT 50944.6 PASS AB=0.41594,0.579078;ABP=52.2943,46.6263;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1861,526;CIGAR=1M3D1M,1M2X2M;DP=2394;DPB=1277.4;DPRA=2.44375,0.892308;EPP=4044.12,1145.2;EPPR=5.18177;GTI=0;LEN=3,2;MEANALT=1.9,2.13333;MQM=54.4197,59.8118;MQMR=60;NS=21;NUMALT=2;ODDS=21.9798;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65328,18626;QR=35;RO=1;RPL=0,0;RPP=4044.12,1145.2;RPPR=5.18177;RPR=1861,526;RUN=1,1;SAF=0,0;SAP=4044.12,1145.2;SAR=1861,526;SRF=0;SRP=5.18177;SRR=1;TYPE=del,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,79,2:0:0:79,2:2788,72:-250.294,-23.7814,0,-244.419,-17.5467,-243.816 1/1:72:0,71,1:0:0:71,1:2472,36:-221.701,-21.3731,0,-218.764,-18.0759,-218.463 1/1:121:0,121,0:0:0:121,0:4246,0:-381.577,-36.4246,0,-381.577,-36.4246,-381.577 1/1:172:0,172,0:0:0:172,0:6087,0:-547.43,-51.7772,0,-547.43,-51.7772,-547.43 1/1:270:0,266,4:0:0:266,4:9392,142:-843.295,-80.074,0,-831.727,-68.1513,-830.523 1/1:133:0,132,1:0:0:132,1:4592,36:-411.536,-39.736,0,-408.598,-36.4387,-408.297 1/1:246:1,243,0:1:35:243,0:8484,0:-756.104,-70.2959,0,-756.405,-73.1503,-759.253 2/2:48:0,0,48:0:0:0,48:0,1698:-153.102,-153.102,-153.102,-14.4494,-14.4494,0 1/2:206:0,79,123:0:0:79,123:2808,4362:-583.997,-355.395,-331.613,-228.623,0,-191.596 1/2:34:0,9,25:0:0:9,25:305,900:-98.48,-73.7907,-71.0814,-25.0334,0,-17.5076 1/1:13:0,13,0:0:0:13,0:444,0:-40.0421,-3.91339,0,-40.0421,-3.91339,-40.0421 1/2:70:0,26,44:0:0:26,44:904,1563:-201.103,-127.717,-119.89,-73.7358,0,-60.4905 1/2:181:0,77,104:0:0:77,104:2735,3701:-524.431,-301.979,-278.8,-222.807,0,-191.499 1/1:158:0,158,0:0:0:158,0:5540,0:-498.109,-47.5627,0,-498.109,-47.5627,-498.109 1/2:119:0,46,73:0:0:46,73:1618,2574:-341.395,-209.917,-196.07,-131.829,0,-109.854 1/2:120:0,62,58:0:0:62,58:2183,2058:-345.571,-168.027,-149.363,-177.897,0,-160.438 1/1:109:0,108,1:0:0:108,1:3791,36:-340.756,-32.5112,0,-337.819,-29.214,-337.518 1/2:49:0,22,27:0:0:22,27:771,921:-137.636,-75.0539,-68.4312,-62.9279,0,-54.8001 1/2:24:0,13,11:0:0:13,11:448,385:-68.0036,-31.6672,-27.7538,-36.6835,0,-33.3721 1/1:137:0,133,4:0:0:133,4:4652,142:-417.396,-40.037,0,-405.825,-28.1119,-404.621 1/1:31:0,31,0:0:0:31,0:1068,0:-96.2158,-9.33193,0,-96.2158,-9.33193,-96.2158 chr07 22282191 . C T 51710.4 PASS AB=0.430521;ABP=36.8055;AC=32;AF=0.761905;AN=42;AO=1946;CIGAR=1X;DP=2467;DPB=2467;DPRA=2.57447;EPP=867.136;EPPR=1072.19;GTI=0;LEN=1;MEANALT=1.05;MQM=54.3613;MQMR=59.7769;NS=21;NUMALT=1;ODDS=19.7324;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69463;QR=18634;RO=520;RPL=1413;RPP=867.136;RPPR=1072.19;RPR=533;RUN=1;SAF=0;SAP=4228.7;SAR=1946;SRF=0;SRP=1132.18;SRR=520;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:2,78:2:72:78:2780:-243.145,-17.2457,0 1/1:78:1,77:1:36:77:2730:-241.498,-19.8821,0 1/1:127:0,127:0:0:127:4560:-409.733,-38.2308,0 1/1:188:0,188:0:0:188:6638:-596.861,-56.5936,0 1/1:281:4,276:4:144:276:9854:-871.427,-71.3368,0 1/1:138:1,137:1:36:137:4909:-436.261,-37.9439,0 1/1:254:1,253:1:36:253:9039:-804.967,-72.8633,0 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.562 0/1:206:124,82:124:4456:82:2952:-203.586,0,-339.106 0/1:33:23,10:23:828:10:356:-22.4055,0,-64.9055 1/1:15:0,15:0:0:15:540:-48.6633,-4.51545,0 0/1:72:44,28:44:1584:28:999:-68.3889,0,-121.177 0/1:179:103,76:103:3683:76:2724:-191.078,0,-277.783 1/1:166:0,166:0:0:166:5915:-531.802,-49.971,0 0/1:121:71,50:71:2528:50:1781:-123.883,0,-191.327 0/1:120:56,64:56:2004:64:2281:-169.233,0,-144.507 1/1:110:1,109:1:36:109:3912:-348.378,-29.515,0 0/1:49:27,22:27:959:22:788:-56.3172,0,-71.8669 0/1:26:11,15:11:396:15:521:-39.2749,0,-28.1503 1/1:145:4,141:4:144:141:5032:-438.709,-30.3357,0 1/1:32:0,32:0:0:32:1152:-103.729,-9.63296,0 chr07 22368496 . A G 3284.07 PASS AB=0.421365;ABP=21.1102;AC=10;AF=0.238095;AN=42;AO=194;CIGAR=1X;DP=819;DPB=819;DPRA=1.07636;EPP=424.276;EPPR=1360.18;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9808;NS=21;NUMALT=1;ODDS=7.0947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6954;QR=21932;RO=625;RPL=0;RPP=424.276;RPPR=1360.18;RPR=194;RUN=1;SAF=194;SAP=424.276;SAR=0;SRF=625;SRP=1360.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:23:22,1:22:788:1:36:0,-3.32541,-67.6465 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:118:118,0:118:4111:0:0:0,-35.5215,-370.178 0/0:42:42,0:42:1458:0:0:0,-12.6433,-131.508 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:32:32,0:32:1129:0:0:0,-9.63296,-101.916 0/0:34:33,1:33:1161:1:36:0,-6.63674,-101.188 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 0/1:95:57,38:57:1972:38:1356:-93.7426,0,-149.15 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:4:4,0:4:136:0:0:0,-1.20412,-12.5755 0/1:20:5,15:5:176:15:540:-42.9159,0,-10.1644 0/1:63:43,20:43:1509:20:716:-45.8028,0,-117.136 0/0:81:81,0:81:2839:0:0:0,-24.3834,-255.747 0/1:63:35,28:35:1232:28:1008:-72.0715,0,-92.2192 0/1:11:7,4:7:244:4:144:-10.0023,0,-18.9881 0/0:19:19,0:19:672:0:0:0,-5.71957,-60.8068 0/1:44:24,20:24:864:20:714:-51.3416,0,-64.8372 0/1:36:22,14:22:773:14:500:-34.4991,0,-59.0524 0/0:34:34,0:34:1188:0:0:0,-10.235,-107.225 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 chr07 22368497 . G A 13388.4 PASS AB=0.581602;ABP=22.502;AC=32;AF=0.761905;AN=42;AO=629;CIGAR=1X;DP=821;DPB=821;DPRA=0.787755;EPP=1368.87;EPPR=419.933;GTI=0;LEN=1;MEANALT=1;MQM=59.9809;MQMR=60;NS=21;NUMALT=1;ODDS=6.61846;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22518;QR=6853;RO=192;RPL=0;RPP=1368.87;RPPR=419.933;RPR=629;RUN=1;SAF=629;SAP=1368.87;SAR=0;SRF=192;SRP=419.933;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:1,21:1:36:21:726:-62.0577,-3.02439,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:118:0,118:0:0:118:4235:-381.328,-35.5215,0 1/1:43:0,43:0:0:43:1544:-139.251,-12.9443,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 1/1:35:1,34:1:36:34:1196:-104.343,-6.93778,0 0/0:49:49,0:49:1752:0:0:0,-14.7505,-157.964 0/1:95:38,57:38:1364:57:2040:-155.274,0,-94.4629 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:20:15,5:15:540:5:180:-10.5315,0,-42.9159 0/1:63:20,43:20:697:43:1544:-120.288,0,-44.0858 1/1:83:0,83:0:0:83:2980:-268.432,-24.9855,0 0/1:63:28,35:28:1008:35:1256:-94.3804,0,-72.0715 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:44:20,24:20:712:24:864:-64.8372,0,-51.1613 0/1:37:14,23:14:492:23:813:-62.351,0,-33.4742 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 chr07 22381218 . G C 87498 PASS AB=0.497743;ABP=3.0789;AC=32;AF=0.761905;AN=42;AO=3487;CIGAR=1X;DP=4471;DPB=4471;DPRA=1.12658;EPP=7574.93;EPPR=2131.05;GTI=0;LEN=1;MEANALT=1.15;MQM=47.4465;MQMR=41.3765;NS=21;NUMALT=1;ODDS=30.2371;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=122584;QR=34713;RO=980;RPL=1624;RPP=38.5815;RPPR=5.00451;RPR=1863;RUN=1;SAF=1624;SAP=38.5815;SAR=1863;SRF=475;SRP=5.00451;SRR=505;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:208:0,207:0:0:207:7322:-623.628,-62.3132,0 1/1:177:0,177:0:0:177:6219:-512.714,-53.2823,0 1/1:209:1,207:1:36:207:7237:-619.828,-59.3758,0 1/1:265:0,265:0:0:265:9204:-790.834,-79.773,0 1/1:482:3,478:3:108:478:16881:-1409.9,-135.108,0 1/1:212:1,211:1:36:211:7462:-618.692,-60.2319,0 1/1:366:0,366:0:0:366:12789:-1057.37,-110.177,0 0/0:190:189,0:189:6705:0:0:0,-56.8947,-576.672 0/1:399:205,194:205:7285:194:6890:-472.331,0,-429.394 0/1:22:14,8:14:491:8:284:-18.7764,0,-34.3195 1/1:13:0,13:0:0:13:468:-37.5567,-3.91339,0 0/1:49:28,21:28:1004:21:748:-44.9429,0,-66.9907 0/1:260:139,121:139:4909:121:4269:-289.295,0,-308.751 1/1:242:0,242:0:0:242:8476:-721.897,-72.8493,0 0/1:318:158,160:158:5600:160:5589:-386.286,0,-381.168 0/1:203:94,109:94:3303:109:3831:-269.146,0,-208.637 1/1:166:0,166:0:0:166:5854:-503.502,-49.971,0 0/1:189:101,88:101:3565:88:3103:-195.774,0,-229.689 0/1:111:40,71:40:1419:71:2514:-178.395,0,-77.1648 1/1:272:7,265:7:252:265:9366:-751.34,-62.3746,0 1/1:118:0,118:0:0:118:4078:-326.257,-35.5215,0 chr07 22381253 . AATA GATA,GATG 53825.9 PASS AB=0.540473,0.457036;ABP=14.4355,15.885;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1962,522;CIGAR=1X3M,1X2M1X;DP=2491;DPB=2491;DPRA=0.808966,1.08033;EPP=4228.77,1136.52;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.95,2.23077;MQM=59.603,50.3295;MQMR=0;NS=21;NUMALT=2;ODDS=19.7366;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69427,18307;QR=0;RO=0;RPL=1958,522;RPP=4228.77,1136.52;RPPR=0;RPR=4,0;RUN=1,1;SAF=0,0;SAP=4263.44,1136.52;SAR=1962,522;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:0,131,0:0:0:131,0:4683,0:-421.562,-39.4349,0,-421.562,-39.4349,-421.562 1/1:114:0,113,0:0:0:113,0:4022,0:-361.525,-34.0164,0,-361.525,-34.0164,-361.525 1/1:141:0,140,0:0:0:140,0:4949,0:-445.097,-42.1442,0,-445.097,-42.1442,-445.097 1/1:168:0,167,1:0:0:167,1:5869,28:-527.869,-50.272,0,-525.738,-47.8702,-525.437 1/1:208:0,201,6:0:0:201,6:7129,216:-641.154,-60.507,0,-623.624,-42.8919,-621.818 1/1:135:0,133,1:0:0:133,1:4715,36:-424.109,-40.037,0,-421.182,-37.1095,-420.881 1/1:230:0,229,0:0:0:229,0:8065,0:-725.47,-68.9359,0,-725.47,-68.9359,-725.47 2/2:145:0,0,145:0:0:0,145:0,5090:-456.172,-456.172,-456.172,-43.6494,-43.6494,0 1/2:188:0,108,80:0:0:108,80:3828,2823:-540.467,-228.642,-196.131,-312.177,0,-288.095 1/2:15:0,5,9:0:0:5,9:180,311:-39.7989,-25.1068,-23.6017,-14.6892,0,-11.9799 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:18:0,8,10:0:0:8,10:276,343:-50.5055,-28.0848,-25.6765,-22.7642,0,-19.7539 1/2:125:0,71,53:0:0:71,53:2543,1847:-356.842,-149.511,-128.138,-207.439,0,-191.485 1/1:129:0,129,0:0:0:129,0:4495,0:-404.675,-38.8329,0,-404.675,-38.8329,-404.675 1/2:210:0,112,98:0:0:112,98:3992,3443:-604.708,-279.359,-245.643,-325.703,0,-296.202 1/2:118:0,59,59:0:0:59,59:2077,2074:-337.237,-168.205,-150.444,-169.383,0,-151.622 1/1:97:0,97,0:0:0:97,0:3411,0:-307.147,-29.1999,0,-307.147,-29.1999,-307.147 1/2:85:0,42,43:0:0:42,43:1479,1502:-242.05,-121.639,-108.995,-120.76,0,-107.816 1/2:44:0,29,15:0:0:29,15:1031,528:-127.188,-43.1726,-34.4427,-84.3681,0,-79.8527 1/1:128:0,126,2:0:0:126,2:4487,66:-403.665,-37.9298,0,-398.343,-32.2779,-397.741 1/1:57:0,57,0:0:0:57,0:2016,0:-181.704,-17.1587,0,-181.704,-17.1587,-181.704 chr07 22497503 . GA AG,AA 55250 PASS AB=0.528067,0.471933;ABP=9.59243,9.59243;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1924,611;CIGAR=2X,1X1M;DP=2537;DPB=2537;DPRA=0.757962,1.05219;EPP=4180.92,1329.78;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.5,1.88889;MQM=59.9579,59.9984;MQMR=0;NS=21;NUMALT=2;ODDS=9.78759;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68648,21580;QR=0;RO=0;RPL=1924,611;RPP=4180.92,1329.78;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4180.92,1329.78;SAR=1924,611;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,104,0:0:0:104,0:3707,0:-333.461,-31.3071,0,-333.461,-31.3071,-333.461 1/1:74:0,74,0:0:0:74,0:2649,0:-238.655,-22.2762,0,-238.655,-22.2762,-238.655 1/1:142:0,142,0:0:0:142,0:5074,0:-456.803,-42.7463,0,-456.803,-42.7463,-456.803 1/1:158:0,157,0:0:0:157,0:5551,0:-499.34,-47.2617,0,-499.34,-47.2617,-499.34 1/1:219:0,219,0:0:0:219,0:7826,0:-704.368,-65.9256,0,-704.368,-65.9256,-704.368 1/1:97:0,97,0:0:0:97,0:3473,0:-312.781,-29.1999,0,-312.781,-29.1999,-312.781 1/1:283:0,283,0:0:0:283,0:10083,0:-907.399,-85.1915,0,-907.399,-85.1915,-907.399 2/2:157:0,0,157:0:0:0,157:0,5565:-500.979,-500.979,-500.979,-47.2617,-47.2617,0 1/2:281:0,137,144:0:0:137,144:4883,5035:-807.987,-409.96,-368.719,-398.38,0,-355.031 1/2:13:0,8,5:0:0:8,5:284,180:-38.1841,-15.0469,-12.6387,-23.4951,0,-21.99 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:38:0,26,12:0:0:26,12:934,428:-111.442,-35.2464,-27.4197,-76.5525,0,-72.9401 1/2:126:0,57,69:0:0:57,69:2035,2444:-365.352,-199.445,-182.286,-166.263,0,-145.491 1/1:83:0,82,0:0:0:82,0:2894,0:-260.444,-24.6845,0,-260.444,-24.6845,-260.444 1/2:228:0,122,106:0:0:122,106:4356,3756:-661.462,-306.334,-269.609,-355.483,0,-323.574 1/2:70:0,34,36:0:0:34,36:1211,1256:-201.213,-102.505,-92.2701,-99.0602,0,-88.2231 1/1:69:0,69,0:0:0:69,0:2455,0:-221.204,-20.7711,0,-221.204,-20.7711,-221.204 1/2:107:0,51,56:0:0:51,56:1832,1999:-312.776,-163.325,-147.973,-149.808,0,-132.951 1/2:99:0,73,26:0:0:73,26:2628,917:-289.455,-75.0178,-53.0426,-214.791,0,-206.965 1/1:131:0,131,0:0:0:131,0:4691,0:-422.35,-39.4349,0,-422.35,-39.4349,-422.35 1/1:52:0,52,0:0:0:52,0:1866,0:-168.219,-15.6536,0,-168.219,-15.6536,-168.219 chr07 22506636 . C A 30161.5 PASS AB=0.54498;ABP=16.4893;AC=32;AF=0.761905;AN=42;AO=1613;CIGAR=1X;DP=2065;DPB=2065;DPRA=0.992929;EPP=3496.91;EPPR=973.678;GTI=0;LEN=1;MEANALT=1.05;MQM=35.7663;MQMR=51.9579;NS=21;NUMALT=1;ODDS=13.1807;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57680;QR=16103;RO=451;RPL=1612;RPP=3496.91;RPPR=973.678;RPR=1;RUN=1;SAF=0;SAP=3505.6;SAR=1613;SRF=0;SRP=982.344;SRR=451;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:0,107:0:0:107:3832:-317.06,-32.2102,0 1/1:74:0,74:0:0:74:2664:-204.825,-22.2762,0 1/1:135:0,135:0:0:135:4840:-403.003,-40.6391,0 1/1:92:0,92:0:0:92:3287:-273.054,-27.6948,0 1/1:200:0,200:0:0:200:7122:-593.521,-60.206,0 1/1:98:1,97:1:36:97:3467:-264.575,-25.9222,0 1/1:123:0,123:0:0:123:4367:-338.511,-37.0267,0 0/0:99:99,0:99:3548:0:0:0,-29.802,-318.13 0/1:216:105,111:105:3772:111:3975:-273.957,0,-273.578 0/1:12:5,7:5:176:7:252:-15.2823,0,-12.5249 1/1:11:0,11:0:0:11:396:-31.1065,-3.31133,0 0/1:52:30,22:30:1065:22:771:-47.1653,0,-79.9037 0/1:109:45,64:45:1582:64:2304:-159.467,0,-109.286 1/1:120:0,120:0:0:120:4269:-356.689,-36.1236,0 0/1:159:65,94:65:2328:94:3372:-232.252,0,-161.357 0/1:52:24,28:24:860:28:1004:-68.5609,0,-61.981 1/1:92:0,92:0:0:92:3295:-280.516,-27.6948,0 0/1:103:54,49:54:1908:49:1760:-110.266,0,-139.618 0/1:64:20,43:20:720:43:1544:-110.411,0,-45.5404 1/1:115:3,112:3:108:112:4007:-313.627,-24.5763,0 1/1:32:0,32:0:0:32:1152:-89.3365,-9.63296,0 chr07 22509259 . CAC CC 51296.5 PASS AB=0.446932;ABP=32.5106;AC=32;AF=0.761905;AN=42;AO=2446;CIGAR=1M1D1M;DP=3249;DPB=2433.67;DPRA=1.26008;EPP=5305.75;EPPR=1746.7;GTI=0;LEN=1;MEANALT=1;MQM=58.8361;MQMR=52.5268;NS=21;NUMALT=1;ODDS=11.9772;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=86053;QR=28311;RO=803;RPL=2445;RPP=5305.75;RPPR=1746.7;RPR=1;RUN=1;SAF=0;SAP=5314.43;SAR=2446;SRF=0;SRP=1746.7;SRR=803;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:1,157:1:36:157:5480:-489.454,-43.9713,0 1/1:116:0,116:0:0:116:4085:-367.529,-34.9195,0 1/1:162:0,162:0:0:162:5667:-509.762,-48.7669,0 1/1:136:0,136:0:0:136:4835:-435.245,-40.9401,0 1/1:384:1,383:1:36:383:13563:-1215.95,-112.004,0 1/1:116:5,111:5:168:111:3917:-337.216,-19.4838,0 1/1:255:1,254:1:31:254:8930:-799.383,-73.6644,0 0/0:124:124,0:124:4353:0:0:0,-37.3277,-391.07 0/1:243:159,84:159:5601:84:2973:-194.636,0,-427.896 0/1:45:16,29:16:558:29:1010:-77.6157,0,-36.9316 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:48:23,25:23:802:25:900:-66.8716,0,-57.8256 0/1:112:62,50:62:2189:50:1753:-124.317,0,-163.034 1/1:129:0,129:0:0:129:4498:-403.948,-38.8329,0 0/1:353:188,165:188:6689:165:5776:-413.372,0,-493.518 0/1:186:116,70:116:4072:70:2425:-162.445,0,-309.531 1/1:236:1,235:1:36:235:8224:-736.317,-67.4763,0 0/1:152:77,75:77:2710:75:2665:-194.216,0,-198.04 0/1:67:26,41:26:931:41:1468:-112.138,0,-63.7623 1/1:158:2,156:2:72:156:5486:-486.415,-40.7357,0 1/1:59:1,58:1:27:58:2042:-181.293,-15.0777,0 chr07 22509266 . T C 14190.4 PASS AB=0.539088;ABP=19.307;AC=10;AF=0.238095;AN=42;AO=797;CIGAR=1X;DP=3345;DPB=3345;DPRA=1.52138;EPP=1733.67;EPPR=5533.75;GTI=0;LEN=1;MEANALT=1.0625;MQM=52.537;MQMR=58.7499;NS=21;NUMALT=1;ODDS=15.0625;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28482;QR=89539;RO=2547;RPL=797;RPP=1733.67;RPPR=5533.75;RPR=0;RUN=1;SAF=0;SAP=1733.67;SAR=797;SRF=0;SRP=5533.75;SRR=2547;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:169:168,1:168:5859:1:36:0,-47.2826,-523.485 0/0:117:117,0:117:4134:0:0:0,-35.2205,-371.879 0/0:165:165,0:165:5789:0:0:0,-49.6699,-519.474 0/0:148:148,0:148:5190:0:0:0,-44.5524,-466.875 0/0:395:394,1:394:13920:1:36:0,-115.315,-1247.94 0/0:120:115,5:115:4079:5:176:0,-19.9536,-351.015 0/0:268:267,1:267:9355:1:36:0,-77.0815,-836.614 1/1:123:0,123:0:0:123:4386:-394.092,-37.0267,0 0/1:250:90,159:90:3176:159:5660:-430.534,0,-210.765 0/1:46:31,15:31:1100:15:540:-35.0162,0,-85.373 0/0:9:9,0:9:305:0:0:0,-2.70927,-27.7772 0/1:47:25,22:25:892:22:792:-57.2346,0,-66.4513 0/1:112:50,62:50:1760:62:2232:-166.87,0,-124.888 0/0:131:131,0:131:4578:0:0:0,-39.4349,-411.535 0/1:359:171,188:171:6015:188:6733:-495.268,0,-433.165 0/1:189:75,114:75:2615:114:4073:-308.634,0,-178.571 0/0:244:243,1:243:8504:1:36:0,-69.8845,-761.011 0/1:152:75,77:75:2638:77:2753:-201.887,0,-191.717 0/1:73:48,25:48:1708:25:885:-57.8157,0,-131.875 0/0:162:160,2:160:5606:2:72:0,-41.9398,-497.093 0/0:66:65,1:65:2316:1:36:0,-16.3873,-205.148 chr07 22509271 . C A 14289.8 PASS AB=0.537157;ABP=17.8563;AC=10;AF=0.238095;AN=42;AO=798;CIGAR=1X;DP=3376;DPB=3376;DPRA=1.71;EPP=1735.85;EPPR=5601.07;GTI=0;LEN=1;MEANALT=1;MQM=52.5301;MQMR=58.7708;NS=21;NUMALT=1;ODDS=16.5492;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28615;QR=91840;RO=2578;RPL=798;RPP=1735.85;RPPR=5601.07;RPR=0;RUN=1;SAF=0;SAP=1735.85;SAR=798;SRF=0;SRP=5601.07;SRR=2578;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:170:169,1:169:5997:1:36:0,-47.5837,-535.791 0/0:117:117,0:117:4155:0:0:0,-35.2205,-373.87 0/0:165:165,0:165:5876:0:0:0,-49.6699,-527.717 0/0:149:149,0:149:5306:0:0:0,-44.8535,-477.613 0/0:401:400,1:400:14206:1:36:0,-117.122,-1273.33 0/0:120:115,5:115:4128:5:180:0,-19.5886,-355.053 0/0:273:272,1:272:9704:1:32:0,-78.9834,-867.87 1/1:122:0,122:0:0:122:4346:-390.354,-36.7257,0 0/1:250:90,160:90:3176:160:5731:-437.083,0,-210.791 0/1:49:33,16:33:1180:16:576:-37.347,0,-91.6228 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:49:26,23:26:928:23:828:-59.8629,0,-69.0878 0/1:114:52,62:52:1853:62:2228:-165.911,0,-132.616 0/0:133:133,0:133:4735:0:0:0,-40.037,-425.147 0/1:359:172,187:172:6150:187:6728:-494.333,0,-445.175 0/1:191:76,115:76:2716:115:4114:-311.836,0,-187.073 0/0:248:247,1:247:8786:1:36:0,-71.0886,-786.459 0/1:154:77,77:77:2753:77:2772:-202.962,0,-201.419 0/1:72:47,25:47:1684:25:900:-59.4653,0,-130.017 0/0:164:162,2:162:5790:2:72:0,-42.5419,-513.88 0/0:66:66,0:66:2357:0:0:0,-19.868,-212.209 chr07 22515971 . ATTTTAG ATTTTAC,ATTTTTAC 41289.9 PASS AB=0.541735,0.448445;ABP=12.2542,17.116;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1559,326;CIGAR=6M1X,1M1I5M1X;DP=1891;DPB=1937.86;DPRA=2.31375,1.17345;EPP=3345.05,702.251;EPPR=0;GTI=1;LEN=1,8;MEANALT=1.9,2.28571;MQM=59.5285,49.3957;MQMR=0;NS=21;NUMALT=2;ODDS=2.09567;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55662,11486;QR=0;RO=0;RPL=5,1;RPP=3345.05,702.251;RPPR=0;RPR=1554,325;RUN=1,1;SAF=1559,326;SAP=3388.34,710.91;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82,0:0:0:82,0:2944,0:-265.15,-24.6845,0,-265.15,-24.6845,-265.15 1/1:92:0,92,0:0:0:92,0:3280,0:-295.369,-27.6948,0,-295.369,-27.6948,-295.369 1/1:135:0,134,1:0:0:134,1:4781,36:-429.889,-40.338,0,-426.965,-37.056,-426.664 1/1:139:0,137,2:0:0:137,2:4858,72:-436.915,-41.2411,0,-431.067,-35.0354,-430.465 1/1:224:0,223,1:0:0:223,1:7955,36:-715.483,-67.1297,0,-712.773,-64.0846,-712.472 1/1:73:0,70,3:0:0:70,3:2512,108:-225.973,-21.0721,0,-217.185,-11.9254,-216.282 1/1:86:0,86,0:0:0:86,0:3088,0:-278.08,-25.8886,0,-278.08,-25.8886,-278.08 2/2:40:0,0,40:0:0:0,40:0,1416:-126.622,-126.622,-126.622,-12.0412,-12.0412,0 1/2:145:0,60,85:0:0:60,85:2152,2986:-417.482,-241.97,-223.908,-175.866,0,-150.279 1/2:10:0,6,4:0:0:6,4:212,140:-28.9714,-11.7033,-9.89717,-17.6186,0,-16.4145 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:16:0,5,11:0:0:5,11:180,392:-46.8908,-32.2022,-30.6971,-15.0469,0,-11.7356 1/2:83:0,54,29:0:0:54,29:1917,1023:-238.808,-82.6271,-66.3715,-156.532,0,-147.802 1/1:87:0,87,0:0:0:87,0:3124,0:-281.333,-26.1896,0,-281.333,-26.1896,-281.333 1/2:139:0,82,53:0:0:82,53:2924,1865:-389.108,-150.773,-126.088,-238.36,0,-222.406 1/2:81:0,34,47:0:0:34,47:1212,1641:-231.919,-133.128,-122.893,-99.1431,0,-84.9947 1/1:133:0,133,0:0:0:133,0:4735,0:-426.26,-40.037,0,-426.26,-40.037,-426.26 1/2:57:0,37,18:0:0:37,18:1332,632:-159.953,-51.2622,-40.1241,-108.686,0,-103.267 1/2:80:0,53,27:0:0:53,27:1908,964:-234.213,-78.5634,-62.6088,-156.007,0,-147.879 1/1:104:0,99,5:0:0:99,5:3519,175:-316.462,-29.802,0,-302.537,-15.5337,-301.032 1/1:78:0,78,0:0:0:78,0:2777,0:-250.071,-23.4803,0,-250.071,-23.4803,-250.071 chr07 22515993 . CTAATC CTATC,CTAGTC 40637.3 PASS AB=0.533011,0.463768;ABP=8.88831,10.0912;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1533,339;CIGAR=2M1D3M,3M1X2M;DP=1892;DPB=1633.83;DPRA=2.20238,1.18327;EPP=3331.88,739.139;EPPR=0;GTI=0;LEN=1,1;MEANALT=2.15,2.57143;MQM=59.6412,49.531;MQMR=0;NS=21;NUMALT=2;ODDS=1.3854;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54545,12151;QR=0;RO=0;RPL=1533,339;RPP=3331.88,739.139;RPPR=0;RPR=0,0;RUN=1,1;SAF=1533,339;SAP=3331.88,739.139;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,81,0:0:0:81,0:2891,0:-260.383,-24.3834,0,-260.383,-24.3834,-260.383 1/1:92:0,92,0:0:0:92,0:3244,0:-292.111,-27.6948,0,-292.111,-27.6948,-292.111 1/1:137:0,128,1:0:0:128,1:4523,36:-406.815,-38.5318,0,-403.891,-35.6069,-403.59 1/1:137:0,135,2:0:0:135,2:4825,72:-433.94,-40.6391,0,-428.093,-34.4333,-427.491 1/1:218:0,216,1:0:0:216,1:7705,36:-693.011,-65.0225,0,-690.301,-62.3236,-690 1/1:72:0,69,3:0:0:69,3:2446,108:-220.036,-20.7711,0,-211.248,-11.6243,-210.345 1/1:84:0,84,0:0:0:84,0:2997,0:-269.907,-25.2865,0,-269.907,-25.2865,-269.907 2/2:42:0,0,39:0:0:0,39:0,1385:-123.869,-123.869,-123.869,-11.7402,-11.7402,0 1/2:149:0,60,89:0:0:60,89:2152,3196:-434.948,-259.439,-241.378,-175.866,0,-149.075 1/2:9:0,5,4:0:0:5,4:180,144:-26.7536,-12.0659,-10.5607,-15.0469,0,-13.8428 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/2:16:0,5,11:0:0:5,11:180,392:-46.8908,-32.2022,-30.6971,-15.0469,0,-11.7356 1/2:85:0,53,31:0:0:53,31:1849,1111:-239.915,-89.536,-73.5814,-150.373,0,-141.041 1/1:88:0,87,0:0:0:87,0:3077,0:-276.766,-26.1896,0,-276.766,-26.1896,-276.766 1/2:143:0,84,58:0:0:84,58:2992,2080:-412.456,-168.679,-143.393,-243.797,0,-226.338 1/2:82:0,34,48:0:0:34,48:1216,1728:-239.677,-140.531,-130.296,-99.5034,0,-85.0539 1/1:134:0,132,0:0:0:132,0:4729,0:-425.382,-39.736,0,-425.382,-39.736,-425.382 1/2:57:0,38,19:0:0:38,19:1360,684:-166.823,-55.9485,-44.5093,-111.233,0,-105.513 1/2:80:0,52,28:0:0:52,28:1864,1004:-233.832,-81.8395,-66.1859,-152.35,0,-143.921 1/1:103:0,96,5:0:0:96,5:3397,175:-305.54,-28.8989,0,-291.615,-14.9833,-290.11 1/1:76:0,75,0:0:0:75,0:2670,0:-240.103,-22.5773,0,-240.103,-22.5773,-240.103 chr07 22516022 . T C 24276.5 PASS AB=0.493062;ABP=3.85392;AC=10;AF=0.238095;AN=42;AO=1346;CIGAR=1X;DP=5812;DPB=5812;DPRA=1.26295;EPP=2925.81;EPPR=9696.46;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9807;MQMR=59.9852;NS=21;NUMALT=1;ODDS=44.2091;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47963;QR=160133;RO=4464;RPL=0;RPP=2925.81;RPPR=9696.46;RPR=1346;RUN=1;SAF=0;SAP=2925.81;SAR=1346;SRF=0;SRP=9696.46;SRR=4464;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:552:541,11:541:19420:11:396:0,-130.186,-1711.34 0/0:253:252,1:252:9029:1:36:0,-72.5623,-808.987 0/0:317:317,0:317:11360:0:0:0,-95.4265,-1022.28 0/0:273:272,1:272:9756:1:36:0,-78.5829,-874.386 0/0:539:538,1:538:19316:1:36:0,-158.657,-1734.38 0/0:257:257,0:257:9232:0:0:0,-77.3647,-830.827 0/0:426:426,0:426:15304:0:0:0,-128.239,-1377.04 1/1:335:2,333:2:72:333:11859:-1060.3,-94.0083,0 0/1:462:221,240:221:7919:240:8572:-632.341,0,-573.598 0/1:49:29,20:29:1044:20:708:-49.2951,0,-79.5243 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 0/1:77:46,31:46:1652:31:1104:-76.4913,0,-125.789 0/1:444:224,220:224:8044:220:7837:-571.703,0,-590.212 0/0:277:276,0:276:9909:0:0:0,-83.0843,-891.474 0/1:604:296,308:296:10587:308:10984:-806.637,0,-770.909 0/1:204:86,118:86:3084:118:4214:-318.03,0,-216.378 0/0:205:204,1:204:7317:1:36:0,-58.1129,-654.978 0/1:61:39,22:39:1385:22:769:-51.1658,0,-106.584 0/1:117:81,36:81:2900:36:1268:-79.1995,0,-226.015 0/0:239:236,3:236:8464:3:108:0,-61.871,-751.684 0/0:83:83,0:83:2971:0:0:0,-24.9855,-267.622 chr07 22573168 . T C 5571.73 PASS AB=0.480198;ABP=4.38628;AC=10;AF=0.238095;AN=42;AO=247;CIGAR=1X;DP=818;DPB=818;DPRA=1.72379;EPP=4.07406;EPPR=13.6927;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.025299;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8807;QR=20381;RO=571;RPL=0;RPP=539.364;RPPR=1242.92;RPR=247;RUN=1;SAF=118;SAP=4.07406;SAR=129;SRF=259;SRP=13.6927;SRR=312;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/0:40:38,2:38:1364:2:72:0,-5.20448,-116.224 0/0:39:36,3:36:1276:3:108:0,-1.665,-105.068 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 0/1:34:12,22:12:428:22:788:-61.0098,0,-28.6238 0/1:7:3,4:3:108:4:131:-10.0063,0,-7.96796 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:74:37,37:37:1324:37:1320:-96.8257,0,-97.1859 0/0:40:39,1:39:1404:1:36:0,-8.44292,-123.061 0/1:52:27,25:27:968:25:877:-63.5925,0,-71.7838 0/1:21:11,10:11:396:10:351:-25.605,0,-29.6611 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:96:43,53:43:1525:53:1900:-142.379,0,-108.642 0/1:115:76,39:76:2688:39:1396:-91.3206,0,-207.546 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:63:63,0:63:2240:0:0:0,-18.9649,-201.864 chr07 22636722 . A G 24300.7 PASS AB=0.554184;ABP=21.6004;AC=32;AF=0.761905;AN=42;AO=1283;CIGAR=1X;DP=1686;DPB=1686;DPRA=1.12083;EPP=2789.01;EPPR=875.942;GTI=0;LEN=1;MEANALT=1.05;MQM=37.4521;MQMR=59.6841;NS=21;NUMALT=1;ODDS=12.701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45775;QR=14265;RO=402;RPL=0;RPP=2789.01;RPPR=875.942;RPR=1283;RUN=1;SAF=1283;SAP=2789.01;SAR=0;SRF=402;SRP=875.942;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:1,93:1:36:93:3307:-274.677,-24.6985,0 1/1:58:0,58:0:0:58:2072:-167.96,-17.4597,0 1/1:59:0,59:0:0:59:2104:-178.684,-17.7608,0 1/1:59:0,59:0:0:59:2088:-178.628,-17.7608,0 1/1:157:0,157:0:0:157:5608:-476.67,-47.2617,0 1/1:137:0,137:0:0:137:4881:-393.114,-41.2411,0 1/1:76:0,76:0:0:76:2716:-221.08,-22.8783,0 0/0:72:72,0:72:2536:0:0:0,-21.6742,-228.481 0/1:159:65,93:65:2316:93:3320:-241.3,0,-160.782 0/1:23:9,14:9:320:14:504:-35.5724,0,-22.2187 1/1:10:0,10:0:0:10:356:-29.1146,-3.0103,0 0/1:75:36,39:36:1284:39:1396:-91.8191,0,-93.2604 0/1:88:39,49:39:1396:49:1748:-122.036,0,-99.4423 1/1:48:0,48:0:0:48:1708:-146.258,-14.4494,0 0/1:144:72,72:72:2557:72:2566:-174.325,0,-186.871 0/1:52:25,27:25:884:27:964:-67.8094,0,-64.2215 1/1:47:1,46:1:36:46:1648:-138.259,-10.5501,0 0/1:103:53,50:53:1883:50:1788:-117.604,0,-138.724 0/1:85:25,60:25:888:60:2135:-156.615,0,-54.6515 1/1:102:4,98:4:129:98:3502:-279.623,-18.7774,0 1/1:38:0,38:0:0:38:1364:-111.39,-11.4391,0 chr07 22636743 . C G 7146.56 PASS AB=0.451743;ABP=18.1;AC=10;AF=0.238095;AN=42;AO=420;CIGAR=1X;DP=1720;DPB=1720;DPRA=1.43988;EPP=906.364;EPPR=2780.49;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.6048;MQMR=37.4196;NS=21;NUMALT=1;ODDS=11.5887;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14964;QR=46194;RO=1299;RPL=1;RPP=906.364;RPPR=2780.49;RPR=419;RUN=1;SAF=420;SAP=915.029;SAR=0;SRF=1299;SRP=2823.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:95:94,1:94:3363:1:36:0,-24.9996,-278.795 0/0:57:57,0:57:2040:0:0:0,-17.1587,-165.418 0/0:60:60,0:60:2140:0:0:0,-18.0618,-181.612 0/0:61:61,0:61:2152:0:0:0,-18.3628,-183.927 0/0:160:160,0:160:5669:0:0:0,-48.1648,-482.682 0/0:136:135,1:135:4800:1:36:0,-37.3613,-382.025 0/0:78:78,0:78:2774:0:0:0,-23.4803,-225.967 1/1:76:0,76:0:0:76:2680:-241.393,-22.8783,0 0/1:163:97,66:97:3464:66:2351:-162.778,0,-252.673 0/1:23:14,9:14:504:9:324:-22.5822,0,-35.5724 0/0:10:10,0:10:360:0:0:0,-3.0103,-29.3171 0/1:76:39,37:39:1396:37:1332:-97.2959,0,-91.5975 0/1:91:48,43:48:1689:43:1514:-109.152,0,-116.436 0/0:50:50,0:50:1792:0:0:0,-15.0515,-152.663 0/1:148:72,76:72:2566:76:2728:-200.904,0,-172.732 0/1:50:25,25:25:888:25:892:-65.5448,0,-60.9254 0/0:47:46,1:46:1626:1:36:0,-10.5501,-136.136 0/1:108:53,55:53:1864:55:1968:-144.856,0,-122.937 0/1:87:60,26:60:2140:26:923:-57.1385,0,-156.27 0/0:105:101,4:101:3591:4:144:0,-18.2945,-286.56 0/0:39:39,0:39:1376:0:0:0,-11.7402,-112.576 chr07 22636750 . A G 61722.6 PASS AB=0.528174;ABP=12.1873;AC=32;AF=0.761905;AN=42;AO=2397;CIGAR=1X;DP=3199;DPB=3199;DPRA=0;EPP=5173.34;EPPR=1714.23;GTI=0;LEN=1;MEANALT=1.09524;MQM=47.569;MQMR=59.7212;NS=21;NUMALT=1;ODDS=14.5486;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84765;QR=28474;RO=800;RPL=1284;RPP=29.5001;RPPR=7.35324;RPR=1113;RUN=1;SAF=1288;SAP=32.0366;SAR=1109;SRF=423;SRP=8.75384;SRR=377;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:191:1,189:1:36:189:6640:-575.631,-53.9373,0 1/1:146:0,146:0:0:146:5186:-447.936,-43.9504,0 1/1:141:1,140:1:36:140:4941:-429.194,-38.847,0 1/1:149:0,149:0:0:149:5225:-461.184,-44.8535,0 1/1:194:0,194:0:0:194:6889:-592.058,-58.3998,0 1/1:254:1,253:1:36:253:8908:-751.051,-72.8829,0 1/1:139:0,139:0:0:139:4949:-421.62,-41.8432,0 0/0:165:164,1:164:5835:1:36:0,-46.0734,-521.19 0/1:292:131,161:131:4665:161:5683:-413.146,0,-332.099 0/1:44:26,18:26:936:18:640:-41.4651,0,-71.3141 1/1:16:0,16:0:0:16:572:-48.4003,-4.81648,0 0/1:117:54,63:54:1927:63:2256:-156.552,0,-138.46 0/1:171:87,83:87:3097:83:2947:-204.916,0,-227.427 1/1:122:0,122:0:0:122:4296:-377.928,-36.7257,0 0/1:272:133,139:133:4719:139:4955:-349.793,0,-342.689 0/1:123:67,56:67:2367:56:1975:-136.309,0,-176.259 1/1:91:1,90:1:36:90:3174:-275.219,-23.7955,0 0/1:175:86,89:86:3079:89:3146:-217.896,0,-224.627 0/1:137:43,94:43:1529:94:3351:-250.091,0,-96.66 1/1:158:5,153:5:176:153:5396:-444.907,-31.3777,0 1/1:102:0,102:0:0:102:3600:-312.134,-30.7051,0 chr07 22636759 . GAAT AGAC,AGAT 86037.8 PASS AB=0.522344,0.47033;ABP=8.92975,13.4477;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2442,820;CIGAR=2X1M1X,2X2M;DP=3286;DPB=3287.25;DPRA=0.916471,1.34193;EPP=5305.75,1757.66;EPPR=0;GTI=0;LEN=4,2;MEANALT=2.6,3;MQM=47.5979,59.7378;MQMR=0;NS=21;NUMALT=2;ODDS=15.4891;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=85886,28835;QR=0;RO=0;RPL=1307,423;RPP=29.317,4.80044;RPPR=0;RPR=1135,397;RUN=1,1;SAF=1307,426;SAP=29.317,5.72199;SAR=1135,394;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:203:0,202,1:0:0:202,1:7116,36:-620.017,-60.8081,0,-617.08,-57.5108,-616.779 1/1:151:0,151,0:0:0:151,0:5281,0:-457.136,-45.4555,0,-457.136,-45.4555,-457.136 1/1:145:0,143,1:0:0:143,1:5056,36:-442.931,-43.0473,0,-439.993,-40.1099,-439.692 1/1:153:0,152,0:0:0:152,0:5332,0:-470.482,-45.7566,0,-470.482,-45.7566,-470.482 1/1:199:0,197,0:0:0:197,0:6958,0:-598.494,-59.3029,0,-598.494,-59.3029,-598.494 1/1:258:0,254,1:0:0:254,1:8926,36:-760.054,-76.4616,0,-757.134,-73.5198,-756.833 1/1:144:0,144,0:0:0:144,0:5016,0:-429.806,-43.3483,0,-429.806,-43.3483,-429.806 2/2:170:0,0,169:0:0:0,169:0,5867:-527.485,-527.485,-527.485,-50.8741,-50.8741,0 1/2:299:0,162,133:0:0:162,133:5673,4684:-832.727,-381.326,-332.559,-451.406,0,-411.369 1/2:44:0,18,26:0:0:18,26:631,932:-124.786,-76.3723,-70.9538,-48.7565,0,-40.9297 1/1:18:0,18,0:0:0:18,0:641,0:-54.7146,-5.41854,0,-54.7146,-5.41854,-54.7146 1/2:127:0,63,63:0:0:63,63:2260,2202:-352.282,-179.166,-160.201,-173.159,0,-154.195 1/2:178:0,91,87:0:0:91,87:3161,3087:-500.289,-251.859,-224.465,-248.776,0,-222.587 1/1:125:0,124,0:0:0:124,0:4313,0:-379.527,-37.3277,0,-379.527,-37.3277,-379.527 1/2:275:0,139,134:0:0:139,134:4941,4728:-774.394,-384.984,-343.14,-389.435,0,-349.097 1/2:128:0,57,69:0:0:57,69:2024,2385:-353.896,-193.823,-176.664,-160.112,0,-139.341 1/1:93:0,90,1:0:0:90,1:3157,36:-278.229,-27.0927,0,-275.291,-24.1295,-274.99 1/2:177:0,90,87:0:0:90,87:3174,3095:-498.383,-252.561,-225.468,-246.169,0,-219.979 1/2:137:0,93,43:0:0:93,43:3268,1531:-381.467,-124.895,-96.8988,-256.678,0,-243.734 1/1:160:0,153,5:0:0:153,5:5416,180:-462.674,-46.0576,0,-447.987,-31.3027,-446.481 1/1:102:0,101,0:0:0:101,0:3542,0:-307.43,-30.404,0,-307.43,-30.404,-307.43 chr07 22636908 . A C 17481.5 PASS AB=0.573003;ABP=19.8138;AC=32;AF=0.761905;AN=42;AO=820;CIGAR=1X;DP=1088;DPB=1088;DPRA=0.449083;EPP=1783.62;EPPR=576.311;GTI=0;LEN=1;MEANALT=1;MQM=59.8829;MQMR=59.9179;NS=21;NUMALT=1;ODDS=2.62702;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29131;QR=9533;RO=268;RPL=0;RPP=1783.62;RPPR=576.311;RPR=820;RUN=1;SAF=0;SAP=1783.62;SAR=820;SRF=0;SRP=584.965;SRR=268;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,52:0:0:52:1856:-167.32,-15.6536,0 1/1:16:0,16:0:0:16:553:-50.094,-4.81648,0 1/1:76:1,75:1:36:75:2688:-238.566,-19.28,0 1/1:108:0,108:0:0:108:3842:-345.975,-32.5112,0 1/1:64:2,62:2:72:62:2224:-193.587,-12.4292,0 1/1:21:0,21:0:0:21:736:-66.5597,-6.32163,0 1/1:62:0,62:0:0:62:2190:-197.348,-18.6639,0 0/0:109:109,0:109:3887:0:0:0,-32.8123,-349.835 0/1:64:33,31:33:1175:31:1083:-78.5094,0,-86.791 0/1:7:3,4:3:100:4:144:-11.2064,0,-7.22323 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:20:3,17:3:108:17:608:-49.0314,0,-4.05457 0/1:36:17,19:17:608:19:671:-49.8787,0,-44.2149 1/1:69:1,68:1:36:68:2430:-215.356,-17.1728,0 0/1:96:45,51:45:1607:51:1816:-134.753,0,-116.02 0/1:19:10,9:10:352:9:315:-22.9677,0,-26.2986 1/1:18:0,18:0:0:18:631:-57.1106,-5.41854,0 0/1:67:28,39:28:988:39:1366:-103.068,0,-69.0649 0/1:54:16,38:16:564:38:1340:-104.635,0,-34.8347 1/1:87:0,87:0:0:87:3112:-280.293,-26.1896,0 1/1:34:0,34:0:0:34:1206:-108.819,-10.235,0 chr07 22660392 . C T 27946.2 PASS AB=0.787791;ABP=497.955;AC=30;AF=0.714286;AN=42;AO=1076;CIGAR=1X;DP=1244;DPB=1244;DPRA=0;EPP=102.47;EPPR=132.265;GTI=7;LEN=1;MEANALT=1;MQM=53.8764;MQMR=59.6845;NS=21;NUMALT=1;ODDS=0.0231035;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38479;QR=6008;RO=168;RPL=1076;RPP=2339.51;RPPR=350.653;RPR=0;RUN=1;SAF=427;SAP=102.47;SAR=649;SRF=32;SRP=142.812;SRR=136;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:4,32:4:136:32:1144:-92.1646,0,-1.73846 0/1:29:5,24:5:176:24:856:-67.5425,0,-7.44683 1/1:31:1,30:1:36:30:1068:-92.7699,-5.73366,0 0/1:67:8,59:8:284:59:2120:-170.472,0,-5.73434 0/1:85:10,75:10:360:75:2668:-214.248,0,-7.15439 1/1:25:1,24:1:36:24:864:-74.0615,-3.92748,0 0/1:20:3,17:3:104:17:612:-48.4372,0,-3.67023 1/1:14:0,14:0:0:14:492:-44.4339,-4.21442,0 1/1:92:2,90:2:72:90:3187:-279.306,-20.858,0 0/1:11:7,4:7:252:4:144:-9.91038,0,-19.7176 0/1:16:13,3:13:464:3:108:-5.15736,0,-37.1943 0/1:31:25,6:25:900:6:216:-10.3353,0,-71.9891 0/1:118:20,98:20:716:98:3508:-278.222,0,-29.2438 1/1:88:6,82:6:216:82:2944:-244.946,-6.70013,0 1/1:170:5,165:5:180:165:5892:-513.038,-34.623,0 0/1:91:9,82:9:320:82:2936:-235.7,0,-1.74771 1/1:41:3,38:3:108:38:1360:-111.817,-2.26706,0 0/1:81:31,50:31:1112:50:1796:-135.688,0,-76.0079 0/1:103:11,92:11:392:92:3296:-265.061,0,-4.61161 1/1:39:1,38:1:36:38:1368:-119.13,-8.1419,0 1/1:56:3,53:3:108:53:1900:-157.401,-6.78251,0 chr07 22660393 . G A 933.346 PASS AB=0.277592;ABP=131.476;AC=10;AF=0.238095;AN=42;AO=107;CIGAR=1X;DP=865;DPB=865;DPRA=1.14394;EPP=210.031;EPPR=1004.93;GTI=5;LEN=1;MEANALT=1.05556;MQM=59.9065;MQMR=51.5112;NS=21;NUMALT=1;ODDS=1.87951;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3848;QR=27075;RO=757;RPL=107;RPP=235.358;RPPR=1646.81;RPR=0;RUN=1;SAF=3;SAP=210.031;SAR=104;SRF=83;SRP=1004.93;SRR=674;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7074 0/1:29:24,5:24:860:5:176:-7.44683,0,-67.7652 0/1:6:5,1:5:171:1:36:-1.79209,0,-13.8563 0/0:45:42,3:42:1508:3:108:0,-3.47118,-125.557 0/0:47:43,4:43:1544:4:144:0,-0.834792,-125.402 0/0:25:24,1:24:860:1:36:0,-3.92747,-73.7057 0/1:20:18,2:18:644:2:72:-0.816123,0,-51.3031 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.49 0/0:93:90,2:90:3200:2:72:0,-21.1619,-280.457 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.3258 0/1:16:6,10:6:203:10:360:-27.9278,0,-13.6048 0/1:29:11,18:11:396:18:648:-49.922,0,-27.1759 0/1:52:47,5:47:1676:5:180:-0.898505,0,-134.501 0/0:45:43,2:43:1535:2:72:0,-6.70963,-131.219 0/0:71:68,3:68:2423:3:108:0,-11.298,-207.479 0/0:89:82,7:82:2944:7:252:0,-3.76363,-240.586 0/0:41:39,2:39:1396:2:72:0,-5.50551,-118.294 0/1:80:52,28:52:1872:28:1008:-66.954,0,-142.835 0/1:49:41,8:41:1468:8:288:-11.5169,0,-116.901 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.16 0/0:56:56,0:56:1999:0:0:0,-16.8577,-176.637 chr07 22660398 . C A 13490.9 PASS AB=0.751397;ABP=199.535;AC=31;AF=0.738095;AN=42;AO=655;CIGAR=1X;DP=762;DPB=762;DPRA=0;EPP=1425.32;EPPR=235.358;GTI=6;LEN=1;MEANALT=1;MQM=50.4092;MQMR=59.9813;NS=21;NUMALT=1;ODDS=4.90408;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23445;QR=3805;RO=107;RPL=655;RPP=1425.32;RPPR=235.358;RPR=0;RUN=1;SAF=0;SAP=1425.32;SAR=655;SRF=0;SRP=235.358;SRR=107;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:7:1,6:1:36:6:212:-17.2783,0,-1.49106 0/1:28:4,24:4:135:24:852:-67.4933,0,-4.05367 0/1:6:1,5:1:36:5:176:-14.3152,0,-1.79209 1/1:46:3,43:3:108:43:1527:-127.235,-3.77221,0 1/1:45:4,41:4:144:41:1468:-118.606,-0.232733,0 1/1:23:1,22:1:36:22:792:-67.6008,-3.32542,0 0/1:20:2,18:2:72:18:648:-51.6475,0,-0.816122 1/1:15:0,15:0:0:15:536:-48.2076,-4.51545,0 1/1:49:2,47:2:72:47:1679:-143.643,-7.91375,0 0/1:12:5,7:5:172:7:252:-19.3258,0,-12.2056 0/1:15:10,5:10:360:5:172:-11.2076,0,-28.2289 0/1:30:19,11:19:680:11:392:-26.5256,0,-52.4983 0/1:52:6,46:6:216:46:1639:-131.184,0,-4.13695 1/1:44:2,42:2:72:42:1508:-128.821,-6.4086,0 1/1:69:3,66:3:99:66:2364:-202.927,-11.5345,0 0/1:61:6,55:6:216:55:1980:-158.559,0,-1.42676 1/1:23:1,22:1:36:22:792:-67.2113,-3.32542,0 0/1:79:27,52:27:959:52:1868:-142.793,0,-62.844 0/1:48:8,40:8:284:40:1436:-114.312,0,-11.4539 1/1:36:0,36:0:0:36:1292:-115.896,-10.8371,0 1/1:54:2,52:2:72:52:1860:-157.431,-9.4189,0 chr07 22660405 . C T 13824.8 PASS AB=0.684;ABP=76.5277;AC=33;AF=0.785714;AN=42;AO=668;CIGAR=1X;DP=773;DPB=773;DPRA=0;EPP=1453.55;EPPR=231.015;GTI=4;LEN=1;MEANALT=1;MQM=50.3892;MQMR=59.981;NS=21;NUMALT=1;ODDS=4.6162;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23875;QR=3742;RO=105;RPL=668;RPP=1453.55;RPPR=231.015;RPR=0;RUN=1;SAF=0;SAP=1453.55;SAR=668;SRF=0;SRP=231.015;SRR=105;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:7:1,6:1:36:6:216:-17.6426,0,-1.49106 0/1:29:4,25:4:144:25:900:-71.33,0,-4.58375 0/1:6:1,5:1:36:5:176:-14.3309,0,-1.79209 1/1:47:3,44:3:108:44:1569:-130.996,-4.07324,0 1/1:48:4,44:4:140:44:1564:-127.578,-1.50486,0 1/1:24:1,23:1:36:23:824:-70.4753,-3.62645,0 0/1:20:2,18:2:72:18:644:-51.2911,0,-0.816122 1/1:14:0,14:0:0:14:500:-44.8446,-4.21442,0 1/1:50:2,48:2:72:48:1716:-146.946,-8.21478,0 0/1:11:5,6:5:176:6:216:-16.4109,0,-12.8737 0/1:17:10,7:10:360:7:248:-17.402,0,-27.6268 0/1:31:19,12:19:680:12:432:-29.7671,0,-52.1972 1/1:50:4,46:4:144:46:1644:-133.186,-1.73788,0 1/1:44:1,43:1:36:43:1544:-135.244,-9.64705,0 1/1:70:3,67:3:108:67:2404:-205.688,-10.9969,0 1/1:61:5,56:5:180:56:1989:-161.375,-1.81169,0 1/1:24:1,23:1:36:23:824:-70.0803,-3.62645,0 0/1:81:28,53:28:982:53:1885:-144.007,0,-64.3082 0/1:48:9,39:9:324:39:1400:-111.073,0,-15.0564 1/1:37:0,37:0:0:37:1320:-118.492,-11.1381,0 1/1:54:2,52:2:72:52:1860:-157.726,-9.4189,0 chr07 22667640 . T C 3978.52 PASS AB=0.505618;ABP=3.0835;AC=10;AF=0.238095;AN=42;AO=175;CIGAR=1X;DP=807;DPB=807;DPRA=0.890359;EPP=13.4458;EPPR=209.575;GTI=0;LEN=1;MEANALT=1;MQM=59.5257;MQMR=59.2837;NS=21;NUMALT=1;ODDS=7.51731;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6239;QR=22648;RO=631;RPL=73;RPP=13.4458;RPPR=209.575;RPR=102;RUN=1;SAF=175;SAP=383.018;SAR=0;SRF=631;SRP=1373.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2035 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.807 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.226 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.06 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.11 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.746 0/0:57:57,0:57:2039:0:0:0,-17.1587,-183.577 1/1:37:0,37:0:0:37:1332:-120.181,-11.1381,0 0/1:42:27,15:27:968:15:528:-35.2081,0,-74.7941 0/1:8:5,3:5:180:3:104:-7.29457,0,-13.766 0/0:10:10,0:10:345:0:0:0,-3.0103,-31.3059 0/1:29:14,15:14:504:15:528:-39.1181,0,-36.9505 0/1:67:32,35:32:1152:35:1256:-93.1587,0,-83.8012 0/0:79:79,0:79:2832:0:0:0,-23.7814,-255.027 0/1:58:17,41:17:612:41:1464:-114.586,0,-37.936 0/1:14:8,6:8:288:6:216:-15.5578,0,-22.0352 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:29:13,16:13:468:16:568:-42.6843,0,-33.7298 0/1:20:16,4:16:576:4:135:-6.46191,0,-46.1544 0/0:57:54,3:54:1944:3:108:0,-7.09198,-165.169 0/0:27:26,0:26:936:0:0:0,-7.82678,-84.1192 chr07 22667658 . GC AT,AC 17203.7 PASS AB=0.501916,0.494253;ABP=3.01862,3.08518;AC=32,10;AF=0.761905,0.238095;AN=42;AO=629,168;CIGAR=2X,1X1M;DP=798;DPB=798;DPRA=1.12353,1.09722;EPP=1368.87,367.818;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.6,2;MQM=59.2576,59.5298;MQMR=0;NS=21;NUMALT=2;ODDS=2.24087;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22290,6008;QR=0;RO=0;RPL=629,168;RPP=1368.87,367.818;RPPR=0;RPR=0,0;RUN=1,1;SAF=629,168;SAP=1368.87,367.818;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:13:0,13,0:0:0:13,0:466,0:-42.261,-3.91339,0,-42.261,-3.91339,-42.261 1/1:16:0,16,0:0:0:16,0:566,0:-51.264,-4.81648,0,-51.264,-4.81648,-51.264 1/1:65:0,64,1:0:0:64,1:2291,36:-206.055,-19.2659,0,-203.118,-15.9687,-202.817 1/1:57:0,57,0:0:0:57,0:2022,0:-182.243,-17.1587,0,-182.243,-17.1587,-182.243 1/1:51:0,51,0:0:0:51,0:1806,0:-162.753,-15.3525,0,-162.753,-15.3525,-162.753 1/1:52:0,52,0:0:0:52,0:1808,0:-162.847,-15.6536,0,-162.847,-15.6536,-162.847 1/1:56:0,55,1:0:0:55,1:1956,36:-175.411,-16.5567,0,-172.474,-13.2594,-172.173 2/2:34:0,0,34:0:0:0,34:0,1220:-110.105,-110.105,-110.105,-10.235,-10.235,0 1/2:41:0,26,15:0:0:26,15:936,536:-120.434,-44.0594,-36.2326,-76.7327,0,-72.2172 1/2:8:0,5,3:0:0:5,3:180,104:-23.1204,-8.79971,-7.29456,-14.6691,0,-13.766 1/1:10:0,10,0:0:0:10,0:337,0:-30.6434,-3.0103,0,-30.6434,-3.0103,-30.6434 1/2:28:0,14,14:0:0:14,14:504,504:-82.5865,-41.4803,-37.2659,-41.466,0,-37.2516 1/2:63:0,31,31:0:0:31,31:1099,1104:-179.474,-89.9614,-80.6295,-89.5078,0,-80.1759 1/1:78:0,78,0:0:0:78,0:2748,0:-247.469,-23.4803,0,-247.469,-23.4803,-247.469 1/2:58:0,17,41:0:0:17,41:591,1468:-168.082,-120.053,-114.936,-48.3792,0,-36.037 1/2:14:0,8,6:0:0:8,6:277,216:-40.4515,-17.966,-15.5578,-22.8391,0,-21.0329 1/1:21:0,21,0:0:0:21,0:745,0:-67.3734,-6.32163,0,-67.3734,-6.32163,-67.3734 1/2:28:0,13,15:0:0:13,15:468,536:-82.2118,-44.024,-40.1106,-38.5463,0,-34.0308 1/2:21:0,17,4:0:0:17,4:601,140:-60.6908,-11.7405,-6.62295,-49.3009,0,-48.0968 1/1:58:0,55,3:0:0:55,3:1965,108:-176.747,-16.5567,0,-167.943,-7.39301,-167.04 1/1:26:0,26,0:0:0:26,0:924,0:-83.3975,-7.82678,0,-83.3975,-7.82678,-83.3975 chr07 22737395 . TC CG,CC 23712 PASS AB=0.550439,0.445175;ABP=13.0867,14.9153;AC=32,10;AF=0.761905,0.238095;AN=42;AO=816,292;CIGAR=2X,1X1M;DP=1110;DPB=1110;DPRA=0.580682,1.32744;EPP=1774.93,637.08;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.55,2.1;MQM=59.6446,59.9897;MQMR=0;NS=21;NUMALT=2;ODDS=3.72299;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28771,10410;QR=0;RO=0;RPL=0,0;RPP=1774.93,637.08;RPPR=0;RPR=816,292;RUN=1,1;SAF=816,292;SAP=1774.93,637.08;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,22,0:0:0:22,0:788,0:-71.2411,-6.62266,0,-71.2411,-6.62266,-71.2411 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:117:0,117,0:0:0:117,0:4109,0:-369.947,-35.2205,0,-369.947,-35.2205,-369.947 1/1:101:0,101,0:0:0:101,0:3587,0:-323.018,-30.404,0,-323.018,-30.404,-323.018 1/1:63:0,62,1:0:0:62,1:2177,36:-195.801,-18.6639,0,-192.863,-15.3666,-192.562 1/1:42:0,42,0:0:0:42,0:1458,0:-131.402,-12.6433,0,-131.402,-12.6433,-131.402 1/1:57:0,57,0:0:0:57,0:2018,0:-181.802,-17.1587,0,-181.802,-17.1587,-181.802 2/2:88:0,0,88:0:0:0,88:0,3136:-282.467,-282.467,-282.467,-26.4906,-26.4906,0 1/2:108:0,61,46:0:0:61,46:2178,1644:-311.628,-134.06,-115.698,-177.584,0,-163.737 1/2:7:0,3,4:0:0:3,4:108,140:-20.557,-11.7405,-10.8374,-9.17208,0,-7.96796 1/1:12:0,12,0:0:0:12,0:419,0:-38.0424,-3.61236,0,-38.0424,-3.61236,-38.0424 1/2:26:0,20,6:0:0:20,6:705,216:-75.3475,-17.9843,-11.9637,-57.7212,0,-55.9151 1/2:85:0,40,45:0:0:40,45:1417,1604:-246.534,-131.104,-119.063,-115.786,0,-102.239 1/1:58:0,58,0:0:0:58,0:2025,0:-182.513,-17.4597,0,-182.513,-17.4597,-182.513 1/2:51:0,23,28:0:0:23,28:815,1002:-148.451,-82.0665,-75.1428,-66.7406,0,-58.3117 1/2:26:0,19,6:0:0:19,6:671,212:-71.9796,-17.3282,-11.6086,-54.7133,0,-52.9071 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:92:0,50,42:0:0:50,42:1792,1496:-268.435,-122.291,-107.24,-146.501,0,-133.857 1/2:61:0,35,26:0:0:35,26:1230,924:-175.756,-75.6509,-65.1148,-100.459,0,-92.632 1/1:46:0,46,0:0:0:46,0:1606,0:-144.807,-13.8474,0,-144.807,-13.8474,-144.807 1/1:39:0,39,0:0:0:39,0:1344,0:-121.251,-11.7402,0,-121.251,-11.7402,-121.251 chr07 22737405 . C T 17141.6 PASS AB=0.547253;ABP=11.8346;AC=32;AF=0.761905;AN=42;AO=810;CIGAR=1X;DP=1109;DPB=1109;DPRA=0.552717;EPP=1761.9;EPPR=652.281;GTI=0;LEN=1;MEANALT=1;MQM=59.642;MQMR=59.99;NS=21;NUMALT=1;ODDS=2.86533;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28891;QR=10712;RO=299;RPL=0;RPP=1761.9;RPPR=652.281;RPR=810;RUN=1;SAF=810;SAP=1761.9;SAR=0;SRF=299;SRP=652.281;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,22:0:0:22:788:-71.2386,-6.62266,0 1/1:5:0,5:0:0:5:165:-15.1736,-1.50515,0 1/1:116:0,116:0:0:116:4139:-372.643,-34.9195,0 1/1:100:0,100:0:0:100:3558:-320.416,-30.103,0 1/1:62:1,61:1:36:61:2150:-190.132,-15.0656,0 1/1:41:0,41:0:0:41:1472:-132.635,-12.3422,0 1/1:59:0,59:0:0:59:2109:-190.005,-17.7608,0 0/0:92:92,0:92:3296:0:0:0,-27.6948,-296.859 0/1:108:47,61:47:1684:61:2188:-164.674,0,-119.334 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:26:6,20:6:216:20:716:-56.9089,0,-11.9637 0/1:85:44,41:44:1572:41:1476:-107.549,0,-116.184 1/1:59:0,59:0:0:59:2116:-190.703,-17.7608,0 0/1:53:30,23:30:1072:23:813:-57.5283,0,-80.8379 0/1:23:5,18:5:180:18:648:-51.7282,0,-9.62837 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:92:44,48:44:1576:48:1720:-127.38,0,-114.437 0/1:61:26,35:26:936:35:1248:-94.2559,0,-66.1966 1/1:45:0,45:0:0:45:1596:-143.913,-13.5464,0 1/1:38:0,38:0:0:38:1341:-120.952,-11.4391,0 chr07 22745808 . GTTA ATTG 6697.97 PASS AB=0.440165;ABP=25.6181;AC=11;AF=0.261905;AN=42;AO=337;CIGAR=1X2M1X;DP=1151;DPB=1151;DPRA=1.88121;EPP=268.542;EPPR=261.346;GTI=0;LEN=4;MEANALT=1.09091;MQM=59.9644;MQMR=60;NS=21;NUMALT=1;ODDS=2.96622;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11771;QR=28313;RO=813;RPL=332;RPP=692.011;RPPR=1716.69;RPR=5;RUN=1;SAF=267;SAP=253.078;SAR=70;SRF=556;SRP=241.795;SRR=257;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:41,0:41:1442:0:0:0,-12.3422,-130.074 0/0:16:16,0:16:552:0:0:0,-4.81648,-50.0047 0/1:10:9,1:9:319:1:36:-0.587975,0,-26.0411 0/0:26:26,0:26:902:0:0:0,-7.82678,-81.4928 0/0:70:70,0:70:2427:0:0:0,-21.0721,-218.686 0/0:27:27,0:27:951:0:0:0,-8.12781,-85.9054 0/0:23:23,0:23:799:0:0:0,-6.92369,-72.2264 1/1:16:0,16:0:0:16:566:-51.271,-4.81648,0 0/1:42:22,20:22:774:20:698:-50.4988,0,-57.3387 0/1:170:96,74:96:3373:74:2576:-180.907,0,-252.613 0/0:79:79,0:79:2743:0:0:0,-23.7814,-247.113 0/1:34:23,11:23:809:11:384:-24.6592,0,-62.8951 0/1:27:12,15:12:416:15:514:-38.4565,0,-29.6432 0/0:33:32,1:32:1076:1:35:0,-6.43536,-93.6426 0/1:42:18,24:18:611:24:833:-62.642,0,-42.6644 0/1:20:10,10:10:347:10:353:-26.0882,0,-25.5431 0/0:10:10,0:10:346:0:0:0,-3.0103,-31.4732 0/1:333:183,149:183:6403:149:5219:-369.549,0,-476.072 0/1:49:33,16:33:1144:16:557:-35.7063,0,-88.5129 0/0:22:22,0:22:770:0:0:0,-6.62266,-69.62 0/0:61:61,0:61:2109:0:0:0,-18.3628,-190.077 chr07 22805734 . A C 51313.8 PASS AB=0.453234;ABP=46.4739;AC=32;AF=0.761905;AN=42;AO=2609;CIGAR=1X;DP=4024;DPB=4024;DPRA=1.25649;EPP=5668.38;EPPR=3071.3;GTI=2;LEN=1;MEANALT=1.1;MQM=59.9774;MQMR=60;NS=21;NUMALT=1;ODDS=8.77348;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91713;QR=50225;RO=1413;RPL=2609;RPP=5668.38;RPPR=3071.3;RPR=0;RUN=1;SAF=2609;SAP=5668.38;SAR=0;SRF=1413;SRP=3071.3;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:6,76:6:216:76:2652:-219.134,-4.89395,0 1/1:71:0,71:0:0:71:2494:-224.712,-21.3731,0 1/1:73:0,73:0:0:73:2560:-230.651,-21.9752,0 1/1:100:0,99:0:0:99:3478:-312.866,-29.802,0 1/1:173:0,173:0:0:173:6054:-544.971,-52.0782,0 1/1:67:1,66:1:36:66:2311:-204.651,-16.5707,0 1/1:123:0,123:0:0:123:4292:-386.46,-37.0267,0 0/0:154:154,0:154:5461:0:0:0,-46.3586,-491.62 0/1:159:93,66:93:3301:66:2319:-161.105,0,-249.446 0/1:766:444,322:444:15820:322:11332:-788.92,0,-1192.91 1/1:650:1,649:1:36:649:22969:-2063.03,-192.071,0 0/1:444:265,179:265:9424:179:6298:-433.259,0,-714.471 0/1:96:52,44:52:1840:44:1556:-111.433,0,-136.979 1/1:89:1,88:1:36:88:3114:-276.89,-23.1934,0 0/1:173:100,73:100:3549:73:2589:-181.18,0,-267.541 0/1:74:28,46:28:1000:46:1619:-123.719,0,-68.0392 1/1:76:0,76:0:0:76:2630:-236.945,-22.8783,0 0/1:537:255,281:255:9042:281:9820:-722.049,0,-652.052 0/1:39:13,26:13:464:26:914:-70.8345,0,-30.3573 1/1:50:0,50:0:0:50:1757:-158.412,-15.0515,0 1/1:28:0,28:0:0:28:955:-86.2569,-8.42884,0 chr07 22838521 . G T 5360.03 PASS AB=0.494253;ABP=3.16006;AC=11;AF=0.261905;AN=42;AO=309;CIGAR=1X;DP=1296;DPB=1296;DPRA=0.970354;EPP=673.995;EPPR=2146.25;GTI=1;LEN=1;MEANALT=1;MQM=59.8511;MQMR=59.8764;NS=21;NUMALT=1;ODDS=4.19019;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11036;QR=35201;RO=987;RPL=0;RPP=673.995;RPPR=2146.25;RPR=309;RUN=1;SAF=309;SAP=673.995;SAR=0;SRF=987;SRP=2146.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:94,0:94:3338:0:0:0,-28.2968,-300.627 0/0:62:62,0:62:2213:0:0:0,-18.6639,-199.433 0/0:64:64,0:64:2285:0:0:0,-19.2659,-205.91 0/1:8:7,1:7:248:1:36:-1.19004,0,-20.256 0/0:115:114,1:114:4070:1:36:0,-31.0202,-362.886 0/0:83:83,0:83:2980:0:0:0,-24.9855,-268.43 0/0:116:116,0:116:4134:0:0:0,-34.9195,-372.242 1/1:49:0,49:0:0:49:1734:-156.341,-14.7505,0 0/1:133:75,58:75:2670:58:2065:-146.081,0,-200.496 0/1:21:15,6:15:540:6:216:-13.4461,0,-42.6149 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:35:20,15:20:705:15:540:-38.4001,0,-53.2358 0/1:50:19,31:19:665:31:1116:-85.6998,0,-45.1213 0/0:85:85,0:85:3018:0:0:0,-25.5875,-271.479 0/1:141:69,72:69:2461:72:2569:-189.004,0,-179.255 0/1:75:27,48:27:972:48:1716:-132.136,0,-65.2207 0/0:39:39,0:39:1389:0:0:0,-11.7402,-125.307 0/1:32:15,17:15:540:17:612:-45.7805,0,-38.9843 0/1:27:17,10:17:612:10:360:-24.6165,0,-47.2856 0/0:45:44,1:44:1569:1:36:0,-9.94807,-137.901 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 chr07 22861715 . AGCG GGCA,AGCA 30406.6 PASS AB=0.516364,0.48;ABP=4.28949,4.9212;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1087,346;CIGAR=1X2M1X,3M1X;DP=1438;DPB=1438;DPRA=0.860127,1.28359;EPP=2363.4,754.34;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.8,2.23077;MQM=59.9669,59.9971;MQMR=0;NS=21;NUMALT=2;ODDS=6.18712;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37931,12353;QR=0;RO=0;RPL=1087,346;RPP=2363.4,754.34;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2363.4,754.34;SAR=1087,346;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,103,0:0:0:103,0:3561,0:-320.701,-31.0061,0,-320.701,-31.0061,-320.701 1/1:44:0,44,0:0:0:44,0:1551,0:-139.881,-13.2453,0,-139.881,-13.2453,-139.881 1/1:47:0,46,0:0:0:46,0:1615,0:-145.357,-13.8474,0,-145.357,-13.8474,-145.357 1/1:41:0,41,0:0:0:41,0:1440,0:-129.894,-12.3422,0,-129.894,-12.3422,-129.894 1/1:108:0,107,1:0:0:107,1:3747,36:-337.074,-32.2102,0,-334.137,-28.913,-333.836 1/1:72:0,70,1:0:0:70,1:2451,36:-220.514,-21.0721,0,-217.576,-18.1046,-217.275 1/1:149:0,148,1:0:0:148,1:5221,32:-469.714,-44.5524,0,-467.136,-41.6542,-466.835 2/2:79:0,0,78:0:0:0,78:0,2775:-249.632,-249.632,-249.632,-23.4803,-23.4803,0 1/2:159:0,84,74:0:0:84,74:2917,2656:-453.406,-216.65,-191.363,-236.75,0,-214.474 1/2:4:0,1,3:0:0:1,3:36,108:-12.1095,-9.17208,-8.87105,-3.29724,0,-2.39415 1/1:14:0,13,1:0:0:13,1:466,36:-41.919,-3.91339,0,-38.9815,-0.616145,-38.6805 1/2:51:0,24,27:0:0:24,27:835,968:-147.199,-79.3096,-72.0848,-68.2419,0,-60.1141 1/2:88:0,44,43:0:0:44,43:1515,1536:-248.339,-125.297,-112.052,-123.101,0,-110.156 1/1:81:0,81,0:0:0:81,0:2832,0:-255.12,-24.3834,0,-255.12,-24.3834,-255.12 1/2:104:0,55,49:0:0:55,49:1905,1752:-298.03,-143.214,-126.657,-155.169,0,-140.418 1/2:26:0,11,15:0:0:11,15:380,540:-75.2892,-44.4211,-41.1098,-31.2196,0,-26.7041 1/1:49:0,49,0:0:0:49,0:1708,0:-153.999,-14.7505,0,-153.999,-14.7505,-153.999 1/2:58:0,27,31:0:0:27,31:934,1108:-166.59,-90.6991,-82.5713,-76.2416,0,-66.9097 1/2:60:0,38,22:0:0:38,22:1295,770:-168.055,-62.9965,-51.5574,-105.405,0,-98.7828 1/1:54:0,54,0:0:0:54,0:1874,0:-168.936,-16.2556,0,-168.936,-16.2556,-168.936 1/1:47:0,47,0:0:0:47,0:1648,0:-148.605,-14.1484,0,-148.605,-14.1484,-148.605 chr07 22861820 . C T 9685.56 PASS AB=0.491166;ABP=3.58578;AC=10;AF=0.238095;AN=42;AO=546;CIGAR=1X;DP=2151;DPB=2151;DPRA=1.04546;EPP=1188.63;EPPR=3488.22;GTI=0;LEN=1;MEANALT=1;MQM=59.9634;MQMR=59.9925;NS=21;NUMALT=1;ODDS=11.972;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19429;QR=56580;RO=1605;RPL=0;RPP=1188.63;RPPR=3488.22;RPR=546;RUN=1;SAF=0;SAP=1188.63;SAR=546;SRF=0;SRP=3488.22;SRR=1605;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:156:155,1:155:5457:1:36:0,-43.3624,-487.664 0/0:71:71,0:71:2513:0:0:0,-21.3731,-226.421 0/0:120:120,0:120:4242:0:0:0,-36.1236,-381.964 0/0:60:60,0:60:2077:0:0:0,-18.0618,-187.198 0/0:211:211,0:211:7413:0:0:0,-63.5173,-667.219 0/0:70:70,0:70:2493:0:0:0,-21.0721,-224.622 0/0:141:141,0:141:4948:0:0:0,-42.4452,-445.476 1/1:123:0,123:0:0:123:4387:-395.004,-37.0267,0 0/1:273:105,168:105:3695:168:5966:-454.869,0,-250.574 0/1:31:12,19:12:428:19:680:-52.1972,0,-29.5269 0/0:14:14,0:14:496:0:0:0,-4.21442,-44.9743 0/1:39:19,20:19:676:20:707:-52.2144,0,-49.4278 0/1:94:51,43:51:1795:43:1533:-109.965,0,-133.535 0/0:110:110,0:110:3881:0:0:0,-33.1133,-349.485 0/1:114:58,56:58:2062:56:1991:-145.132,0,-151.532 0/1:83:39,44:39:1396:44:1563:-115.975,0,-100.954 0/0:105:103,2:103:3644:2:72:0,-24.7714,-321.329 0/1:125:77,48:77:2705:48:1706:-116.196,0,-206.066 0/1:90:71,19:71:2503:19:680:-34.4227,0,-198.431 0/0:63:62,1:62:2177:1:36:0,-15.3666,-192.597 0/0:58:56,2:56:1979:2:72:0,-10.623,-171.547 chr07 22892939 . GTGA GTGG,ATGG 38369.6 PASS AB=0.483146,0.514045;ABP=4.767,4.23023;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1241,478;CIGAR=3M1X,1X2M1X;DP=1727;DPB=1727;DPRA=0.749537,1.2475;EPP=2560.63,939.36;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.9,2.18182;MQM=59.8421,56.5084;MQMR=0;NS=21;NUMALT=2;ODDS=3.24016;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44392,16827;QR=0;RO=0;RPL=17,12;RPP=2552.17,939.36;RPPR=0;RPR=1224,466;RUN=1,1;SAF=1240,478;SAP=2689.13,1040.97;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77,0:0:0:77,0:2732,0:-246.08,-23.1793,0,-246.08,-23.1793,-246.08 1/1:47:0,44,3:0:0:44,3:1576,108:-141.769,-13.2453,0,-132.959,-4.07606,-132.056 1/1:103:0,102,0:0:0:102,0:3656,0:-328.943,-30.7051,0,-328.943,-30.7051,-328.943 1/1:83:0,83,0:0:0:83,0:2979,0:-268.336,-24.9855,0,-268.336,-24.9855,-268.336 1/1:132:0,130,1:0:0:130,1:4664,29:-419.562,-39.1339,0,-417.255,-36.8605,-416.954 1/1:46:0,46,0:0:0:46,0:1625,0:-146.535,-13.8474,0,-146.535,-13.8474,-146.535 1/1:151:0,151,0:0:0:151,0:5394,0:-485.55,-45.4555,0,-485.55,-45.4555,-485.55 2/2:108:0,0,108:0:0:0,108:0,3816:-343.248,-343.248,-343.248,-32.5112,-32.5112,0 1/2:205:0,94,110:0:0:94,110:3368,3847:-587.455,-312.773,-284.476,-274.792,0,-241.679 1/2:11:0,5,5:0:0:5,5:180,180:-29.4833,-14.7878,-13.2826,-14.7941,0,-13.2889 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:19:0,12,7:0:0:12,7:429,246:-55.3495,-20.3666,-16.7542,-35.3363,0,-33.2291 1/2:46:0,24,22:0:0:24,22:864,774:-133.744,-63.2437,-56.019,-70.8555,0,-64.2328 1/1:79:0,78,0:0:0:78,0:2788,0:-250.947,-23.4803,0,-250.947,-23.4803,-250.947 1/2:125:0,62,63:0:0:62,63:2224,2200:-360.424,-179.024,-160.36,-181.754,0,-162.789 1/2:43:0,26,17:0:0:26,17:928,604:-125.189,-49.5336,-41.7068,-76.0115,0,-70.894 1/1:50:0,49,0:0:0:49,0:1764,0:-158.791,-14.7505,0,-158.791,-14.7505,-158.791 1/2:200:0,81,119:0:0:81,119:2895,4204:-578.092,-342.047,-317.664,-236.401,0,-200.578 1/2:63:0,40,23:0:0:40,23:1436,819:-184.11,-66.9759,-54.9347,-117.49,0,-110.567 1/1:63:0,62,0:0:0:62,0:2216,0:-199.358,-18.6639,0,-199.358,-18.6639,-199.358 1/1:67:0,66,0:0:0:66,0:2350,0:-211.455,-19.868,0,-211.455,-19.868,-211.455 chr07 23048119 . G A 7902.85 PASS AB=0.495037;ABP=3.18272;AC=10;AF=0.238095;AN=42;AO=458;CIGAR=1X;DP=2349;DPB=2349;DPRA=1.05364;EPP=997.545;EPPR=4107.09;GTI=1;LEN=1;MEANALT=1.09091;MQM=59.8428;MQMR=59.9852;NS=21;NUMALT=1;ODDS=11.4668;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16353;QR=67256;RO=1890;RPL=0;RPP=997.545;RPPR=4107.09;RPR=458;RUN=1;SAF=458;SAP=997.545;SAR=0;SRF=1890;SRP=4107.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:119:117,1:117:4146:1:36:0,-32.2831,-369.726 0/0:101:101,0:101:3616:0:0:0,-30.404,-325.646 0/0:98:98,0:98:3486:0:0:0,-29.5009,-313.949 0/0:87:87,0:87:3108:0:0:0,-26.1896,-279.948 0/0:280:278,2:278:9874:2:72:0,-77.4517,-881.763 0/0:92:92,0:92:3262:0:0:0,-27.6948,-293.799 0/0:206:206,0:206:7369:0:0:0,-62.0122,-663.067 1/1:56:0,56:0:0:56:1982:-178.652,-16.8577,0 0/1:216:95,121:95:3367:121:4335:-325.298,0,-238.221 0/1:7:6,1:6:212:1:36:-1.49107,0,-17.3176 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:40:22,18:22:784:18:648:-45.9809,0,-58.8427 0/1:150:62,88:62:2190:88:3152:-238.751,0,-152.208 0/0:158:158,0:158:5642:0:0:0,-47.5627,-507.898 0/1:149:87,62:87:3116:62:2199:-153.19,0,-235.813 0/1:72:36,36:36:1288:36:1296:-95.2698,0,-94.5494 0/0:155:155,0:155:5472:0:0:0,-46.6596,-492.609 0/1:95:41,54:41:1468:54:1936:-145.919,0,-103.818 0/1:77:58,19:58:2084:19:661:-36.6267,0,-164.651 0/0:128:128,0:128:4546:0:0:0,-38.5318,-409.307 0/0:55:55,0:55:1938:0:0:0,-16.5566,-174.693 chr07 23048236 . A G 9273.6 PASS AB=0.502235;ABP=3.03943;AC=10;AF=0.238095;AN=42;AO=507;CIGAR=1X;DP=2043;DPB=2043;DPRA=0.942797;EPP=1103.95;EPPR=3334.05;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9763;MQMR=59.9961;NS=21;NUMALT=1;ODDS=10.541;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18139;QR=54855;RO=1534;RPL=507;RPP=1103.95;RPPR=3334.05;RPR=0;RUN=1;SAF=0;SAP=1103.95;SAR=507;SRF=0;SRP=3334.05;SRR=1534;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:89:89,0:89:3173:0:0:0,-26.7917,-285.793 0/0:167:167,0:167:5969:0:0:0,-50.272,-537.316 0/0:95:95,0:95:3385:0:0:0,-28.5978,-304.865 0/0:114:114,0:114:4072:0:0:0,-34.3174,-366.666 0/0:165:162,3:162:5812:3:108:0,-39.5948,-513.117 0/0:50:48,2:48:1728:2:72:0,-8.21478,-148.969 0/0:157:156,1:156:5588:1:36:0,-43.6634,-499.444 1/1:159:0,158:0:0:158:5644:-507.722,-47.5627,0 0/1:112:49,63:49:1732:63:2252:-169.228,0,-122.449 0/1:19:12,7:12:432:7:252:-17.3094,0,-33.5016 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:43:23,19:23:828:19:684:-48.9251,0,-61.8793 0/1:102:56,46:56:2004:46:1656:-118.623,0,-149.928 0/0:128:128,0:128:4576:0:0:0,-38.5318,-412.006 0/1:107:53,54:53:1888:54:1928:-141.587,0,-137.988 0/1:80:27,53:27:964:53:1896:-146.836,0,-62.9944 0/0:106:106,0:106:3792:0:0:0,-31.9092,-341.479 0/1:134:56,78:56:2004:78:2783:-210.367,0,-140.296 0/1:74:57,17:57:2040:17:612:-33.1372,0,-161.596 0/0:89:84,5:84:2996:5:180:0,-10.2396,-253.321 0/0:44:43,1:43:1548:1:36:0,-9.64704,-136.015 chr07 23236873 . GATTT GATTA,AAA 36915 PASS AB=0.479434,0.51671;ABP=5.86838,4.89708;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1342,450;CIGAR=4M1X,1X1M2D1X;DP=1801;DPB=1620.6;DPRA=2.09405,0.867665;EPP=2908.45,980.173;EPPR=0;GTI=1;LEN=1,5;MEANALT=2,2.33333;MQM=59.9255,32.9711;MQMR=0;NS=21;NUMALT=2;ODDS=2.21342;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48011,15845;QR=0;RO=0;RPL=1341,450;RPP=2908.45,980.173;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=2917.13,980.173;SAR=1342,450;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,93,5:0:0:93,5:3313,172:-298.064,-27.9958,0,-285.914,-15.5396,-284.409 1/1:41:0,41,0:0:0:41,0:1461,0:-131.784,-12.3422,0,-131.784,-12.3422,-131.784 1/1:85:0,85,0:0:0:85,0:3041,0:-273.907,-25.5876,0,-273.907,-25.5876,-273.907 1/2:88:0,22,66:0:0:22,66:788,2330:-224.245,-159.967,-153.344,-64.6221,0,-44.7542 1/1:197:0,195,0:0:0:195,0:6950,0:-625.197,-58.7009,0,-625.197,-58.7009,-625.197 1/1:76:0,76,0:0:0:76,0:2732,0:-246.122,-22.8783,0,-246.122,-22.8783,-246.122 1/2:150:0,55,94:0:0:55,94:1961,3290:-395.313,-235.446,-218.89,-159.896,0,-131.599 2/2:42:0,0,42:0:0:0,42:0,1490:-119.359,-119.359,-119.359,-12.6433,-12.6433,0 1/1:194:0,192,0:0:0:192,0:6874,0:-618.45,-57.7978,0,-618.45,-57.7978,-618.45 1/2:6:0,5,1:0:0:5,1:180,34:-17.5267,-2.79803,-1.29288,-15.0469,0,-14.7459 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:23:0,9,14:0:0:9,14:324,504:-62.3898,-35.9359,-33.2266,-26.7966,0,-22.5822 1/2:118:0,66,52:0:0:66,52:2372,1843:-317.343,-123.803,-103.935,-193.864,0,-178.211 1/1:93:0,93,0:0:0:93,0:3317,0:-298.376,-27.9958,0,-298.376,-27.9958,-298.376 1/2:178:0,97,80:0:0:97,80:3488,2803:-480.691,-196.091,-166.891,-284.605,0,-260.522 1/2:59:0,29,30:0:0:29,30:1044,1061:-159.067,-73.8551,-65.1252,-85.5449,0,-76.514 1/1:48:0,45,1:0:0:45,1:1601,36:-144.041,-13.5464,0,-141.531,-11.0386,-141.23 1/2:78:0,38,40:0:0:38,40:1337,1408:-208.924,-100.067,-88.6281,-109.188,0,-97.1467 1/2:78:0,52,25:0:0:52,25:1872,874:-214.272,-61.4928,-45.8393,-152.746,0,-145.22 1/1:90:0,90,0:0:0:90,0:3236,0:-291.461,-27.0927,0,-291.461,-27.0927,-291.461 1/1:54:0,54,0:0:0:54,0:1940,0:-174.873,-16.2556,0,-174.873,-16.2556,-174.873 chr07 23243073 . C T 12857.1 PASS AB=0.478378;ABP=7.51757;AC=10;AF=0.238095;AN=42;AO=721;CIGAR=1X;DP=2935;DPB=2935;DPRA=1.5611;EPP=1568.64;EPPR=4810.65;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9977;NS=21;NUMALT=1;ODDS=16.967;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25832;QR=78780;RO=2214;RPL=721;RPP=1568.64;RPPR=4810.65;RPR=0;RUN=1;SAF=721;SAP=1568.64;SAR=0;SRF=2214;SRP=4810.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:143:142,1:142:5064:1:36:0,-39.449,-452.306 0/0:156:156,0:156:5568:0:0:0,-46.9607,-501.246 0/0:181:180,1:180:6422:1:36:0,-50.8882,-574.471 0/1:156:78,78:78:2742:78:2791:-204.469,0,-200.064 0/0:353:347,6:347:12392:6:216:0,-86.4731,-1095.33 0/0:115:115,0:115:4093:0:0:0,-34.6184,-368.556 0/1:268:151,117:151:5394:117:4181:-295.795,0,-404.915 1/1:174:0,174:0:0:174:6252:-562.772,-52.3792,0 0/0:184:184,0:184:6569:0:0:0,-55.3895,-591.292 0/0:18:18,0:18:636:0:0:0,-5.41854,-57.568 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/1:67:33,34:33:1168:34:1212:-89.2173,0,-85.2582 0/1:87:45,42:45:1608:42:1501:-109.194,0,-118.82 0/0:182:182,0:182:6439:0:0:0,-54.7875,-579.601 0/1:204:109,95:109:3888:95:3408:-245.524,0,-288.706 0/1:136:70,66:70:2493:66:2363:-171.988,0,-183.682 0/0:122:119,3:119:4216:3:108:0,-26.6505,-369.547 0/1:133:56,77:56:1983:77:2764:-208.964,0,-138.705 0/1:59:37,22:37:1316:22:792:-53.8449,0,-100.981 0/0:140:135,5:135:4754:5:172:0,-26.3262,-412.205 0/0:41:41,0:41:1459:0:0:0,-12.3422,-131.605 chr07 23243170 . AAG GAA,GAG 48779.2 PASS AB=0.556741,0.437439;ABP=31.8418,38.0593;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1694,507;CIGAR=1X1M1X,1X2M;DP=2210;DPB=2210;DPRA=2.35217,1.55022;EPP=3292.78,1035.56;EPPR=0;GTI=0;LEN=3,1;MEANALT=2,2.30769;MQM=59.9463,59.9487;MQMR=0;NS=21;NUMALT=2;ODDS=14.737;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59685,18083;QR=0;RO=0;RPL=1649,499;RPP=3301,1035.56;RPPR=0;RPR=45,8;RUN=1,1;SAF=1,0;SAP=3672.8,1103.95;SAR=1693,507;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,85,1:0:0:85,1:2974,36:-267.532,-25.5876,0,-264.595,-22.2903,-264.294 1/1:138:0,138,0:0:0:138,0:4892,0:-440.432,-41.5421,0,-440.432,-41.5421,-440.432 1/1:58:0,58,0:0:0:58,0:2042,0:-184.05,-17.4597,0,-184.05,-17.4597,-184.05 1/2:183:0,84,96:0:0:84,96:2934,3435:-518.676,-280.208,-254.922,-238.565,0,-209.667 1/1:251:0,247,4:0:0:247,4:8673,140:-780.225,-74.3544,0,-768.834,-62.614,-767.63 1/1:74:0,74,0:0:0:74,0:2608,0:-234.969,-22.2762,0,-234.969,-22.2762,-234.969 1/2:173:0,95,78:0:0:95,78:3362,2758:-498.827,-224.981,-196.383,-274.2,0,-250.72 2/2:46:0,0,46:0:0:0,46:0,1636:-147.529,-147.529,-147.529,-13.8474,-13.8474,0 1/1:170:0,170,0:0:0:170,0:5990,0:-539.212,-51.1751,0,-539.212,-51.1751,-539.212 1/1:19:0,19,0:0:0:19,0:667,0:-60.3535,-5.71957,0,-60.3535,-5.71957,-60.3535 1/1:9:0,8,0:0:0:8,0:272,0:-24.5234,-2.40824,0,-24.5234,-2.40824,-24.5234 1/2:43:0,30,13:0:0:30,13:1060,459:-124.057,-37.7307,-28.6998,-86.6794,0,-82.7661 1/2:158:0,87,71:0:0:87,71:3077,2534:-457.342,-206.747,-180.558,-250.95,0,-229.577 1/1:64:0,63,1:0:0:63,1:2205,36:-198.354,-18.9649,0,-195.417,-15.6676,-195.116 1/2:156:0,93,63:0:0:93,63:3315,2260:-454.913,-184.698,-156.702,-270.573,0,-251.608 1/2:98:0,44,52:0:0:44,52:1551,1866:-278.583,-152.307,-139.061,-126.371,0,-110.717 1/1:80:0,79,0:0:0:79,0:2773,0:-249.54,-23.7814,0,-249.54,-23.7814,-249.54 1/2:141:0,80,60:0:0:80,60:2824,2148:-405.108,-175.166,-151.083,-229.938,0,-211.876 1/2:79:0,61,18:0:0:61,18:2171,635:-228.997,-52.0576,-33.6948,-177.292,0,-171.874 1/1:104:0,100,4:0:0:100,4:3527,140:-317.293,-30.103,0,-305.902,-18.3625,-304.698 1/1:80:0,79,0:0:0:79,0:2768,0:-249.076,-23.7814,0,-249.076,-23.7814,-249.076 chr07 23278896 . T C 815.882 PASS AB=0.31441;ABP=71.5207;AC=8;AF=0.190476;AN=42;AO=76;CIGAR=1X;DP=667;DPB=667;DPRA=0.915659;EPP=168.042;EPPR=1286.35;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=58.3046;NS=21;NUMALT=1;ODDS=5.26187;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2702;QR=21181;RO=591;RPL=76;RPP=168.042;RPPR=1286.35;RPR=0;RUN=1;SAF=76;SAP=168.042;SAR=0;SRF=591;SRP=1286.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1942 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/0:63:63,0:63:2255:0:0:0,-18.9649,-203.204 0/0:37:34,3:34:1220:3:108:0,-1.06294,-99.9178 0/0:22:22,0:22:784:0:0:0,-6.62266,-69.4144 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:19:17,2:17:612:2:72:-1.11715,0,-49.6848 0/1:27:12,15:12:432:15:531:-39.9941,0,-30.4345 0/0:57:57,0:57:2039:0:0:0,-17.1587,-183.195 0/0:26:26,0:26:936:0:0:0,-7.82678,-83.8086 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.48 0/1:21:16,5:16:576:5:176:-9.86339,0,-45.8274 0/1:49:36,13:36:1292:13:468:-27.7092,0,-100.753 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.304 0/1:22:16,6:16:576:6:203:-11.9785,0,-45.2917 0/1:11:7,4:7:244:4:144:-10.0023,0,-18.9881 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9347 0/1:43:28,15:28:1008:15:540:-35.9922,0,-78.0415 0/1:37:25,12:25:896:12:424:-27.3583,0,-69.8167 0/0:59:59,0:59:2111:0:0:0,-17.7608,-190.256 0/0:37:36,1:36:1292:1:36:0,-7.53983,-112.978 chr07 23291045 . G A 7389.72 PASS AB=0.45679;ABP=12.2055;AC=10;AF=0.238095;AN=42;AO=329;CIGAR=1X;DP=1358;DPB=1358;DPRA=1.59568;EPP=7.13544;EPPR=41.4701;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9164;NS=21;NUMALT=1;ODDS=8.09694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11660;QR=36408;RO=1029;RPL=0;RPP=717.425;RPPR=2194.24;RPR=329;RUN=1;SAF=152;SAP=7.13544;SAR=177;SRF=452;SRP=35.9833;SRR=577;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:85:84,1:84:2949:1:36:0,-21.9893,-262.048 0/0:79:78,1:78:2747:1:36:0,-20.1831,-243.684 0/0:35:35,0:35:1223:0:0:0,-10.536,-110.37 0/1:51:25,26:25:896:26:924:-68.1251,0,-65.6045 0/0:116:115,1:115:4067:1:36:0,-31.3212,-362.614 0/0:60:58,2:58:2037:2:72:0,-11.2251,-176.764 0/1:77:35,42:35:1229:42:1466:-109.054,0,-87.7326 1/1:65:1,64:1:36:64:2283:-202.133,-15.9687,0 0/0:106:106,0:106:3760:0:0:0,-31.9092,-338.6 0/0:18:18,0:18:636:0:0:0,-5.41854,-57.568 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:13:7,6:7:248:6:207:-15.0535,0,-18.7508 0/1:68:35,33:35:1256:33:1177:-85.7667,0,-92.8752 0/0:48:48,0:48:1670:0:0:0,-14.4494,-150.583 0/1:109:54,55:54:1898:55:1968:-144.583,0,-138.284 0/1:37:26,11:26:932:11:392:-24.4819,0,-73.0608 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:106:56,50:56:2004:50:1770:-127.673,0,-148.719 0/1:106:70,36:70:2473:36:1257:-81.5208,0,-190.914 0/0:62:61,1:61:2164:1:36:0,-15.0656,-191.343 0/0:78:78,0:78:2787:0:0:0,-23.4803,-251.047 chr07 23291051 . CTCA GTCG,CTCG 36618.6 PASS AB=0.543706,0.452797;ABP=12.501,14.0803;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1040,324;CIGAR=1X2M1X,3M1X;DP=1377;DPB=1377.5;DPRA=0,1.11979;EPP=43.9342,9.87323;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.04762,2.45455;MQM=59.9096,59.9537;MQMR=60;NS=21;NUMALT=2;ODDS=8.6368;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=68,0;PQR=0;PRO=0;QA=35988,11455;QR=36;RO=1;RPL=5,3;RPP=2218.12,680.751;RPPR=5.18177;RPR=1035,321;RUN=1,1;SAF=455,149;SAP=38.2967,7.5409;SAR=585,175;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,88,0:0:0:88,0:3018,0:-271.584,-26.4906,0,-271.584,-26.4906,-271.584 1/1:81:0,81,0:0:0:81,0:2799,0:-252.082,-24.3834,0,-252.082,-24.3834,-252.082 1/1:35:0,32,0:0:0:32,0:1110,0:-99.8679,-9.63296,0,-99.8679,-9.63296,-99.8679 1/2:49:0,25,24:0:0:25,24:891,852:-142.401,-69.7757,-62.2499,-72.9811,0,-65.7563 1/1:116:0,115,0:0:0:115,0:3989,0:-358.845,-34.6185,0,-358.845,-34.6185,-358.845 1/1:61:0,57,2:0:0:57,2:1961,72:-176.43,-17.1587,0,-170.555,-11.2564,-169.953 1/2:78:1,35,41:1:36:35,41:1198,1451:-212.259,-115.322,-107.724,-94.3624,0,-84.9582 2/2:64:0,1,62:0:0:1,62:30,2216:-199.374,-196.976,-196.675,-18.6639,-16.2952,0 1/1:109:0,108,0:0:0:108,0:3711,0:-333.941,-32.5112,0,-333.941,-32.5112,-333.941 1/1:18:0,18,0:0:0:18,0:612,0:-55.3995,-5.41854,0,-55.3995,-5.41854,-55.3995 1/1:5:0,5,0:0:0:5,0:174,0:-16.0013,-1.50515,0,-16.0013,-1.50515,-16.0013 1/2:12:0,7,5:0:0:7,5:243,176:-34.4309,-14.6799,-12.5727,-20.1009,0,-18.5957 1/2:66:0,35,31:0:0:35,31:1248,1104:-192.072,-90.3387,-79.8027,-102.089,0,-92.7575 1/1:50:0,50,0:0:0:50,0:1706,0:-153.821,-15.0515,0,-153.821,-15.0515,-153.821 1/2:113:0,54,59:0:0:54,59:1864,2080:-321.14,-169.707,-153.451,-151.782,0,-134.021 1/2:38:0,26,12:0:0:26,12:895,424:-107.568,-34.8841,-27.0573,-73.0346,0,-69.4223 1/1:35:0,35,0:0:0:35,0:1216,0:-109.741,-10.5361,0,-109.741,-10.5361,-109.741 1/2:107:0,58,49:0:0:58,49:2021,1732:-305.401,-141.055,-123.595,-164.337,0,-149.587 1/2:109:0,71,38:0:0:71,38:2430,1312:-303.853,-106.614,-85.2409,-197.262,0,-185.823 1/1:63:0,61,1:0:0:61,1:2144,36:-192.869,-18.3628,0,-189.932,-15.4254,-189.631 1/1:79:0,78,0:0:0:78,0:2728,0:-245.387,-23.4803,0,-245.387,-23.4803,-245.387 chr07 23291067 . C T 27067.2 PASS AB=0.533688;ABP=8.56989;AC=32;AF=0.761905;AN=42;AO=1004;CIGAR=1X;DP=1336;DPB=1336;DPRA=0.962121;EPP=2183.17;EPPR=723.939;GTI=0;LEN=1;MEANALT=1;MQM=59.9024;MQMR=60;NS=21;NUMALT=1;ODDS=6.06996;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35737;QR=11646;RO=332;RPL=423;RPP=57.003;RPPR=8.13811;RPR=581;RUN=1;SAF=423;SAP=57.003;SAR=581;SRF=152;SRP=8.13811;SRR=180;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:1,86:1:36:86:3049:-270.952,-22.5913,0 1/1:76:0,76:0:0:76:2696:-242.876,-22.8783,0 1/1:35:0,35:0:0:35:1252:-112.985,-10.5361,0 0/1:50:26,24:26:890:24:836:-60.5032,0,-65.357 1/1:113:0,113:0:0:113:4037:-363.517,-34.0164,0 1/1:56:2,54:2:72:54:1940:-168.039,-10.021,0 0/1:78:44,34:44:1544:34:1206:-85.3641,0,-115.769 0/0:66:66,0:66:2330:0:0:0,-19.868,-209.96 1/1:105:0,105:0:0:105:3757:-338.328,-31.6082,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 1/1:4:0,4:0:0:4:142:-13.1292,-1.20412,0 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 0/1:67:34,33:34:1187:33:1169:-85.3463,0,-86.9623 1/1:47:0,47:0:0:47:1665:-150.135,-14.1484,0 0/1:111:58,53:58:2068:53:1885:-136.513,0,-152.977 0/1:37:12,25:12:428:25:900:-70.1829,0,-27.7207 1/1:32:0,32:0:0:32:1146:-103.45,-9.63296,0 0/1:107:49,58:49:1685:58:2071:-154.445,0,-119.721 0/1:101:34,67:34:1190:67:2369:-183.063,0,-76.997 1/1:61:0,61:0:0:61:2169:-195.389,-18.3628,0 1/1:72:0,72:0:0:72:2548:-229.465,-21.6742,0 chr07 23363289 . T C 1059.79 PASS AB=0.237918;ABP=163.497;AC=10;AF=0.238095;AN=42;AO=92;CIGAR=1X;DP=1034;DPB=1034;DPRA=1.00148;EPP=93.7401;EPPR=1996.75;GTI=4;LEN=1;MEANALT=1;MQM=42.3696;MQMR=58.8609;NS=21;NUMALT=1;ODDS=1.24336;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3300;QR=33768;RO=942;RPL=15;RPP=93.7401;RPPR=1996.75;RPR=77;RUN=1;SAF=92;SAP=202.786;SAR=0;SRF=942;SRP=2048.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:68:66,2:66:2368:2:72:0,-13.7279,-206.245 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.823 0/0:44:44,0:44:1571:0:0:0,-13.2453,-141.375 0/1:24:16,8:16:576:8:288:-18.6794,0,-44.9365 0/0:181:179,2:179:6418:2:72:0,-47.9816,-570.659 0/0:62:62,0:62:2209:0:0:0,-18.6639,-198.768 0/1:52:37,15:37:1332:15:540:-31.7734,0,-104.507 1/1:24:0,24:0:0:24:864:-75.737,-7.22472,0 0/0:125:125,0:125:4471:0:0:0,-37.6287,-401.616 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9754 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9729 0/1:16:10,6:10:360:6:216:-13.9079,0,-27.9162 0/1:41:32,9:32:1148:9:320:-15.7166,0,-91.2867 0/0:59:59,0:59:2100:0:0:0,-17.7608,-188.236 0/1:61:48,13:48:1715:13:464:-22.4286,0,-135.999 0/1:22:18,4:18:648:4:144:-6.49489,0,-52.0292 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.413 0/1:30:25,5:25:900:5:176:-6.83989,0,-72.2869 0/1:23:19,4:19:684:4:144:-5.97473,0,-54.9016 0/0:89:89,0:89:3204:0:0:0,-26.7917,-288.224 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.0403 chr07 23398955 . C G 2353.68 PASS AB=0.311828;ABP=146.024;AC=10;AF=0.238095;AN=42;AO=175;CIGAR=1X;DP=1072;DPB=1072;DPRA=1.15521;EPP=383.018;EPPR=1950.82;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.893;NS=21;NUMALT=1;ODDS=3.837;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6250;QR=31759;RO=897;RPL=175;RPP=383.018;RPPR=4.07788;RPR=0;RUN=1;SAF=175;SAP=383.018;SAR=0;SRF=438;SRP=4.07788;SRR=459;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:63,1:63:2201:1:36:0,-15.6676,-194.757 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 0/1:38:22,16:22:779:16:572:-40.3743,0,-58.9896 0/0:87:87,0:87:3085:0:0:0,-26.1896,-277.878 0/0:45:44,1:44:1553:1:36:0,-9.94807,-136.461 0/1:67:37,30:37:1312:30:1060:-75.5423,0,-98.2127 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 0/0:64:64,0:64:2283:0:0:0,-19.2659,-205.73 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7334 0/0:7:7,0:7:244:0:0:0,-2.10721,-22.2994 0/1:22:17,5:17:612:5:180:-9.9294,0,-48.7908 0/1:56:32,24:32:1117:24:864:-61.2249,0,-83.9775 0/0:53:53,0:53:1879:0:0:0,-15.9546,-169.383 0/1:52:37,15:37:1296:15:531:-32.4683,0,-101.282 0/1:24:21,3:21:747:3:108:-2.85045,0,-60.3296 0/0:17:17,0:17:604:0:0:0,-5.11751,-54.6897 0/1:109:74,35:74:2607:35:1247:-79.7218,0,-202.05 0/1:97:80,17:80:2848:17:608:-25.8521,0,-227.335 0/0:50:48,2:48:1705:2:72:0,-8.21478,-146.897 0/0:103:103,0:103:3623:0:0:0,-31.0061,-326.262 chr07 23409808 . C A 34433.4 PASS AB=0.519178;ABP=5.3424;AC=32;AF=0.761905;AN=42;AO=1589;CIGAR=1X;DP=2031;DPB=2031;DPRA=1.09101;EPP=3453.48;EPPR=962.801;GTI=1;LEN=1;MEANALT=1;MQM=59.9723;MQMR=59.9796;NS=21;NUMALT=1;ODDS=2.68787;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56863;QR=15674;RO=442;RPL=0;RPP=3453.48;RPPR=962.801;RPR=1589;RUN=1;SAF=1589;SAP=3453.48;SAR=0;SRF=442;SRP=962.801;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:122:0,122:0:0:122:4353:-391.944,-36.7257,0 1/1:120:2,118:2:72:118:4217:-372.873,-29.2869,0 1/1:134:0,134:0:0:134:4797:-431.883,-40.338,0 0/1:137:78,59:78:2775:59:2108:-148.748,0,-208.75 1/1:149:0,149:0:0:149:5329:-479.636,-44.8535,0 1/1:80:0,80:0:0:80:2868:-258.357,-24.0824,0 0/1:167:68,99:68:2411:99:3552:-269.616,0,-166.975 0/0:89:89,0:89:3158:0:0:0,-26.7917,-284.445 1/1:178:0,178:0:0:178:6369:-573.297,-53.5833,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:4:0,4:0:0:4:136:-12.5749,-1.20412,0 0/1:13:2,11:2:72:11:396:-32.0694,0,-2.92333 0/1:82:37,45:37:1316:45:1612:-120.686,0,-94.0573 1/1:134:0,134:0:0:134:4766:-429.094,-40.338,0 0/1:112:56,56:56:1992:56:2012:-147.634,0,-145.839 0/1:66:38,28:38:1344:28:1008:-71.1684,0,-101.392 1/1:77:0,77:0:0:77:2764:-249.001,-23.1793,0 0/1:91:50,41:50:1771:41:1468:-105.022,0,-132.278 0/1:62:22,40:22:763:40:1436:-110.874,0,-50.3247 1/1:117:0,117:0:0:117:4192:-377.461,-35.2205,0 1/1:87:0,87:0:0:87:3124:-281.386,-26.1896,0 chr07 23409913 . C T 12504.6 PASS AB=0.490351;ABP=3.93222;AC=10;AF=0.238095;AN=42;AO=696;CIGAR=1X;DP=2536;DPB=2536;DPRA=1.40863;EPP=1514.36;EPPR=3998.52;GTI=0;LEN=1;MEANALT=1;MQM=59.9713;MQMR=59.975;NS=21;NUMALT=1;ODDS=3.27353;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24950;QR=65708;RO=1840;RPL=0;RPP=1514.36;RPPR=3998.52;RPR=696;RUN=1;SAF=0;SAP=1514.36;SAR=696;SRF=0;SRP=3998.52;SRR=1840;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:220:220,0:220:7841:0:0:0,-66.2266,-705.712 0/0:76:76,0:76:2715:0:0:0,-22.8783,-244.593 0/0:112:112,0:112:4020:0:0:0,-33.7154,-361.988 0/1:98:46,52:46:1641:52:1860:-138.179,0,-118.471 0/0:235:235,0:235:8381:0:0:0,-70.742,-754.278 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.211 0/1:190:83,107:83:2972:107:3832:-287.878,0,-210.517 1/1:136:0,136:0:0:136:4879:-439.261,-40.9401,0 0/0:148:147,1:147:5263:1:36:0,-40.9542,-470.185 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/1:22:9,13:9:324:13:468:-35.837,0,-22.8832 0/1:184:87,97:87:3083:97:3476:-257.662,0,-222.305 0/0:140:140,0:140:5003:0:0:0,-42.1442,-450.418 0/1:258:119,139:119:4268:139:4980:-370.682,0,-306.632 0/1:177:113,64:113:4056:64:2291:-153.168,0,-311.944 0/0:74:74,0:74:2652:0:0:0,-22.2762,-238.926 0/1:103:47,56:47:1680:56:2012:-150.329,0,-120.481 0/1:108:77,31:77:2746:31:1116:-68.2405,0,-214.87 0/0:105:105,0:105:3717:0:0:0,-31.6081,-334.731 0/0:54:54,0:54:1910:0:0:0,-16.2556,-172.176 chr07 23446092 . GA GG,AG 61423.1 PASS AB=0.671541,0.327334;ABP=230.233,233.223;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1966,374;CIGAR=1M1X,2X;DP=2343;DPB=2343;DPRA=1.49145,1.4576;EPP=4272.13,815.141;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.65,2.08333;MQM=59.999,59.6604;MQMR=60;NS=21;NUMALT=2;ODDS=11.1262;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68927,13126;QR=36;RO=1;RPL=943,1;RPP=10.0792,806.478;RPPR=5.18177;RPR=1023,373;RUN=1,1;SAF=943,1;SAP=10.0792,806.478;SAR=1023,373;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:0,125,2:0:0:125,2:4427,72:-398.245,-37.6288,0,-392.37,-31.3941,-391.768 1/1:84:0,84,0:0:0:84,0:2980,0:-268.434,-25.2865,0,-268.434,-25.2865,-268.434 1/1:118:0,117,1:0:0:117,1:4139,36:-372.336,-35.2205,0,-369.398,-31.9233,-369.097 1/2:155:0,84,71:0:0:84,71:2860,2480:-434.073,-202.068,-176.781,-232.35,0,-210.977 1/1:211:1,207,2:1:36:207,2:7240,72:-648.095,-59.3666,0,-642.521,-56.4109,-644.857 1/1:113:0,113,0:0:0:113,0:3985,0:-358.841,-34.0164,0,-358.841,-34.0164,-358.841 1/1:72:0,72,0:0:0:72,0:2490,0:-224.353,-21.6742,0,-224.353,-21.6742,-224.353 2/2:76:0,0,76:0:0:0,76:0,2664:-239.998,-239.998,-239.998,-22.8783,-22.8783,0 1/1:179:0,179,0:0:0:179,0:6294,0:-566.561,-53.8844,0,-566.561,-53.8844,-566.561 1/1:20:0,20,0:0:0:20,0:690,0:-62.4193,-6.0206,0,-62.4193,-6.0206,-62.4193 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:27:0,18,9:0:0:18,9:609,309:-74.7991,-25.432,-20.0135,-49.7086,0,-46.9993 1/2:202:0,133,69:0:0:133,69:4670,2426:-577.902,-197.824,-157.787,-380.429,0,-359.658 1/1:123:0,123,0:0:0:123,0:4345,0:-391.229,-37.0267,0,-391.229,-37.0267,-391.229 1/2:147:0,87,60:0:0:87,60:2993,2112:-415.348,-172.282,-146.092,-243.415,0,-225.353 1/2:101:0,66,34:0:0:66,34:2322,1199:-285.761,-96.7374,-76.8694,-189.12,0,-178.885 1/1:77:0,77,0:0:0:77,0:2691,0:-242.435,-23.1793,0,-242.435,-23.1793,-242.435 1/2:117:0,95,22:0:0:95,22:3355,767:-335.942,-62.7223,-34.1244,-273.569,0,-266.946 1/2:140:0,114,26:0:0:114,26:4021,917:-402.428,-75.0152,-40.6978,-327.766,0,-319.939 1/1:126:0,124,2:0:0:124,2:4294,72:-386.284,-37.3277,0,-380.409,-31.0931,-379.807 1/1:119:0,119,0:0:0:119,0:4202,0:-378.366,-35.8226,0,-378.366,-35.8226,-378.366 chr07 23508346 . 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G A 20026.9 PASS AB=0.40708;ABP=45.3828;AC=31;AF=0.738095;AN=42;AO=950;CIGAR=1X;DP=1389;DPB=1389;DPRA=0.651515;EPP=2057.23;EPPR=956.287;GTI=0;LEN=1;MEANALT=1;MQM=59.7347;MQMR=59.9909;NS=21;NUMALT=1;ODDS=6.65607;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33963;QR=15655;RO=439;RPL=949;RPP=2057.23;RPPR=956.287;RPR=1;RUN=1;SAF=950;SAP=2065.91;SAR=0;SRF=439;SRP=956.287;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:1,76:1:36:76:2697:-239.344,-19.581,0 1/1:38:0,38:0:0:38:1368:-123.347,-11.4391,0 1/1:54:0,54:0:0:54:1940:-174.874,-16.2556,0 0/1:69:45,24:45:1616:24:860:-56.9508,0,-124.959 1/1:107:0,107:0:0:107:3848:-346.321,-32.2102,0 1/1:37:0,37:0:0:37:1332:-120.174,-11.1381,0 0/1:126:73,53:73:2586:53:1893:-132.716,0,-195.059 0/0:99:99,0:99:3544:0:0:0,-29.802,-319.169 1/1:144:0,144:0:0:144:5160:-464.512,-43.3483,0 1/1:15:0,15:0:0:15:536:-48.5715,-4.51545,0 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:24:11,13:11:396:13:453:-33.8715,0,-28.758 0/1:88:54,34:54:1932:34:1201:-81.8941,0,-147.666 1/1:56:0,56:0:0:56:1981:-178.554,-16.8577,0 0/1:110:73,37:73:2585:37:1328:-86.7085,0,-199.785 0/1:39:26,13:26:936:13:449:-28.9982,0,-72.8193 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 0/1:72:37,35:37:1304:35:1248:-90.9042,0,-95.9835 0/1:30:13,17:13:468:17:612:-46.3825,0,-33.4287 1/1:128:4,124:4:144:124:4433:-385.436,-25.2182,0 1/1:35:0,35:0:0:35:1260:-113.696,-10.5361,0 chr07 23575116 . 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T C 12881.1 PASS AB=0.442506;ABP=39.2159;AC=11;AF=0.261905;AN=42;AO=746;CIGAR=1X;DP=3842;DPB=3842;DPRA=0.902707;EPP=1622.93;EPPR=6721.55;GTI=1;LEN=1;MEANALT=1.125;MQM=52.1528;MQMR=59.6768;NS=21;NUMALT=1;ODDS=17.2873;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26703;QR=110581;RO=3094;RPL=0;RPP=1622.93;RPPR=6721.55;RPR=746;RUN=1;SAF=746;SAP=1622.93;SAR=0;SRF=3094;SRP=6721.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:210:209,1:209:7484:1:36:0,-59.6231,-669.775 0/0:179:179,0:179:6329:0:0:0,-53.8844,-569.537 0/0:200:200,0:200:7165:0:0:0,-60.206,-644.879 0/1:217:115,102:115:4124:102:3656:-261.899,0,-305.991 0/0:498:497,1:497:17779:1:36:0,-146.32,-1595.96 0/0:279:278,1:278:9930:1:36:0,-80.3981,-889.96 0/1:307:161,146:161:5784:146:5236:-377.012,0,-427.928 1/1:180:0,180:0:0:180:6436:-576.21,-54.1854,0 0/0:433:433,0:433:15445:0:0:0,-130.346,-1389.57 0/0:10:10,0:10:345:0:0:0,-3.0103,-31.3808 0/1:6:3,3:3:108:3:108:-8.24366,0,-8.26899 0/1:33:17,15:17:612:15:536:-38.4856,0,-45.5622 0/1:183:96,87:96:3410:87:3108:-224.456,0,-252.009 0/0:186:185,1:185:6621:1:36:0,-52.3984,-592.008 0/1:243:154,89:154:5483:89:3184:-212.124,0,-420.425 0/1:142:81,60:81:2889:60:2152:-150.872,0,-217.257 0/0:166:166,0:166:5933:0:0:0,-49.971,-534.035 0/1:59:23,36:23:828:36:1283:-97.1277,0,-57.0514 0/1:71:51,20:51:1828:20:716:-43.305,0,-143.423 0/0:186:183,3:183:6580:3:108:0,-45.9469,-582.153 0/0:54:53,1:53:1904:1:36:0,-12.6664,-168.048 chr07 23726941 . G A 66469.4 PASS AB=0.553006;ABP=33.8576;AC=31;AF=0.738095;AN=42;AO=3064;CIGAR=1X;DP=3822;DPB=3822;DPRA=0.982973;EPP=6656.4;EPPR=1588.75;GTI=1;LEN=1;MEANALT=1;MQM=59.6733;MQMR=52.2335;NS=21;NUMALT=1;ODDS=15.2054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=109452;QR=27151;RO=758;RPL=3064;RPP=6656.4;RPPR=1588.75;RPR=0;RUN=1;SAF=3064;SAP=6656.4;SAR=0;SRF=758;SRP=1648.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:208:1,207:1:36:207:7399:-662.304,-59.0211,0 1/1:179:0,179:0:0:179:6422:-577.901,-53.8844,0 1/1:199:0,199:0:0:199:7139:-642.484,-59.905,0 0/1:219:103,116:103:3695:116:4163:-308.904,0,-264.958 1/1:488:2,486:2:72:486:17411:-1559.64,-140.071,0 1/1:276:1,275:1:36:275:9860:-883.672,-79.4951,0 0/1:310:147,163:147:5247:163:5801:-428.78,0,-377.237 0/0:185:185,0:185:6606:0:0:0,-55.6905,-591.727 1/1:431:0,431:0:0:431:15402:-1385.79,-129.744,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.24366 0/1:33:15,18:15:536:18:648:-48.7072,0,-38.4036 0/1:180:88,92:88:3168:92:3279:-241.129,0,-230.73 1/1:174:1,173:1:36:173:6053:-541.255,-48.786,0 0/1:245:92,153:92:3312:153:5451:-416.944,0,-223.009 0/1:143:62,81:62:2215:81:2901:-218.086,0,-156.291 1/1:168:0,168:0:0:168:5968:-537.18,-50.573,0 0/1:58:35,23:35:1260:23:820:-56.6308,0,-95.3647 0/1:70:20,50:20:720:50:1785:-139.854,0,-43.9643 1/1:186:3,183:3:104:183:6546:-579.484,-46.3127,0 1/1:53:0,53:0:0:53:1900:-171.27,-15.9546,0 chr07 23726985 . A C 140808 PASS AB=0.63734;ABP=323.31;AC=33;AF=0.785714;AN=42;AO=6434;CIGAR=1X;DP=7572;DPB=7572;DPRA=0;EPP=13974.3;EPPR=2461.12;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.8822;MQMR=59.9868;NS=21;NUMALT=1;ODDS=25.1556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=229213;QR=40671;RO=1136;RPL=2;RPP=13956.9;RPPR=2443.81;RPR=6432;RUN=1;SAF=2;SAP=13956.9;SAR=6432;SRF=2;SRP=2452.46;SRR=1134;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:197:0,197:0:0:197:7024:-631.896,-59.3029,0 1/1:173:1,172:1:36:172:6126:-547.799,-48.4799,0 1/1:199:0,199:0:0:199:7094:-638.462,-59.905,0 0/1:180:88,92:88:3156:92:3288:-241.953,0,-230.079 1/1:466:10,456:10:360:456:16260:-1430.28,-107.536,0 1/1:207:1,206:1:36:206:7322:-655.398,-58.7149,0 0/1:301:156,145:156:5560:145:5191:-376.715,0,-409.914 0/0:364:363,1:363:12996:1:36:0,-105.977,-1165.81 1/1:394:0,394:0:0:394:14035:-1262.87,-118.606,0 1/1:1410:4,1405:4:144:1405:49980:-4483.05,-411.197,0 1/1:846:7,839:7:252:839:29941:-2670.64,-231.642,0 1/1:831:36,794:36:1283:794:28307:-2430.93,-134.442,0 0/1:216:118,98:118:4235:98:3512:-251.267,0,-316.305 1/1:176:0,176:0:0:176:6248:-562.379,-52.9813,0 0/1:287:137,150:137:4919:150:5367:-396.755,0,-356.463 0/1:192:117,75:117:4195:75:2677:-183.366,0,-319.932 1/1:123:2,121:2:72:121:4312:-381.389,-30.19,0 0/1:702:69,633:69:2463:633:22437:-1807.41,0,-10.6008 0/1:77:24,53:24:856:53:1872:-145.577,0,-54.1818 1/1:179:3,176:3:108:176:6324:-559.174,-43.8092,0 1/1:52:0,52:0:0:52:1860:-167.122,-15.6536,0 chr07 23866748 . T C 13634.2 PASS AB=0.554482;ABP=32.35;AC=11;AF=0.261905;AN=42;AO=753;CIGAR=1X;DP=2537;DPB=2537;DPRA=1.20635;EPP=1638.13;EPPR=3870.4;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9907;MQMR=59.9905;NS=21;NUMALT=1;ODDS=11.954;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26828;QR=63787;RO=1781;RPL=0;RPP=1638.13;RPPR=3870.4;RPR=753;RUN=1;SAF=753;SAP=1638.13;SAR=0;SRF=1781;SRP=3870.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:108:107,1:107:3844:1:36:0,-28.913,-342.557 0/0:151:151,0:151:5391:0:0:0,-45.4555,-485.322 0/0:102:101,0:101:3620:0:0:0,-30.404,-325.645 0/1:149:64,85:64:2292:85:3024:-227.539,0,-161.688 0/0:194:193,1:193:6913:1:36:0,-54.8015,-618.607 0/0:94:94,0:94:3372:0:0:0,-28.2968,-303.695 0/1:313:143,169:143:5116:169:6023:-447.896,0,-366.302 1/1:119:0,119:0:0:119:4234:-381.24,-35.8226,0 0/0:266:266,0:266:9513:0:0:0,-80.074,-856.127 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:20:7,13:7:248:13:468:-36.439,0,-16.6436 0/1:51:23,28:23:819:28:988:-73.8814,0,-58.679 0/1:170:61,109:61:2188:109:3896:-299.658,0,-146.011 0/0:79:79,0:79:2820:0:0:0,-23.7814,-254.04 0/1:124:48,76:48:1728:76:2705:-206.366,0,-118.478 0/1:122:52,69:52:1872:69:2476:-186.309,0,-131.975 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/1:106:47,59:47:1688:59:2078:-155.379,0,-120.298 0/1:83:60,23:60:2152:23:828:-49.8586,0,-168.962 0/0:121:120,1:120:4312:1:36:0,-32.8264,-384.656 0/0:92:92,0:92:3283:0:0:0,-27.6948,-295.69 chr07 23895915 . A C 19343.6 PASS AB=0.544093;ABP=13.1595;AC=31;AF=0.738095;AN=42;AO=924;CIGAR=1X;DP=1251;DPB=1251;DPRA=1.43929;EPP=1974.86;EPPR=700.08;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.44626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32948;QR=11579;RO=325;RPL=923;RPP=2000.77;RPPR=700.08;RPR=1;RUN=1;SAF=3;SAP=1983.48;SAR=921;SRF=0;SRP=708.739;SRR=325;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2929:-263.843,-24.6845,0 1/1:34:3,31:3:108:31:1116:-90.6765,-0.15985,0 1/1:38:0,38:0:0:38:1349:-121.708,-11.4391,0 0/1:25:7,18:7:248:18:648:-51.1261,0,-15.1384 1/1:124:2,122:2:68:122:4337:-384.049,-30.87,0 1/1:19:0,19:0:0:19:671:-60.7158,-5.71957,0 0/1:103:50,53:50:1776:53:1904:-140.632,0,-129.117 0/0:42:42,0:42:1484:0:0:0,-12.6433,-133.852 1/1:129:1,128:1:36:128:4539:-405.081,-35.2346,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:22:8,14:8:284:14:491:-37.8985,0,-19.2807 0/1:69:29,40:29:1040:40:1436:-108.767,0,-73.1433 1/1:48:0,48:0:0:48:1716:-154.726,-14.4494,0 0/1:106:73,33:73:2608:33:1180:-74.5989,0,-203.059 0/1:37:9,28:9:320:28:996:-78.8168,0,-18.0042 1/1:32:0,32:0:0:32:1121:-101.196,-9.63296,0 0/1:131:58,73:58:2076:73:2616:-196.253,0,-147.676 0/1:102:36,66:36:1279:66:2376:-183.392,0,-84.7074 1/1:38:1,35:1:36:35:1232:-107.583,-7.59863,0 1/1:60:2,58:2:72:58:2075:-180.183,-11.2251,0 chr07 23895929 . T A 19824.4 PASS AB=0.542345;ABP=12.5733;AC=31;AF=0.738095;AN=42;AO=943;CIGAR=1X;DP=1274;DPB=1274;DPRA=1.46667;EPP=2024.73;EPPR=719.596;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.54719;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33754;QR=11781;RO=330;RPL=943;RPP=2050.71;RPPR=719.596;RPR=0;RUN=1;SAF=3;SAP=2024.73;SAR=940;SRF=0;SRP=719.596;SRR=330;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,86:0:0:86:3092:-278.507,-25.8886,0 1/1:35:3,32:3:108:32:1141:-92.923,-0.46088,0 1/1:38:0,38:0:0:38:1368:-123.421,-11.4391,0 0/1:27:7,20:7:252:20:716:-56.6399,0,-14.9011 1/1:126:1,125:1:36:125:4456:-397.611,-34.3315,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:102:49,53:49:1760:53:1904:-140.933,0,-127.979 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 1/1:127:1,126:1:36:126:4518:-403.187,-34.6325,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:7:5,2:5:176:2:72:-4.72951,0,-14.0778 0/1:22:7,14:7:252:14:504:-39.0166,0,-16.3475 0/1:73:30,43:30:1050:43:1535:-116.467,0,-72.8311 1/1:52:0,52:0:0:52:1864:-168.039,-15.6536,0 0/1:112:78,34:78:2759:34:1212:-75.6704,0,-214.833 0/1:35:9,26:9:324:26:932:-73.6628,0,-18.9698 1/1:32:0,32:0:0:32:1144:-103.27,-9.63296,0 0/1:130:59,71:59:2120:71:2517:-187.647,0,-151.935 0/1:106:36,70:36:1296:70:2503:-193.613,0,-85.0348 1/1:38:1,37:1:36:37:1328:-116.224,-7.84087,0 1/1:61:2,59:2:72:59:2124:-184.592,-11.5261,0 chr07 23895940 . C T 5365.8 PASS AB=0.448613;ABP=17.07;AC=11;AF=0.261905;AN=42;AO=322;CIGAR=1X;DP=1271;DPB=1271;DPRA=1.79124;EPP=702.224;EPPR=2037.76;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.48525;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11537;QR=33797;RO=949;RPL=322;RPP=702.224;RPPR=2063.74;RPR=0;RUN=1;SAF=0;SAP=702.224;SAR=322;SRF=3;SRP=2037.76;SRR=946;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:85:85,0:85:3044:0:0:0,-25.5875,-274.19 0/0:35:35,0:35:1244:0:0:0,-10.536,-112.265 0/0:38:38,0:38:1322:0:0:0,-11.4391,-119.275 0/1:27:20,7:20:712:7:252:-14.9011,0,-56.2788 0/0:126:124,2:124:4425:2:68:0,-31.4721,-391.964 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:102:52,50:52:1860:50:1792:-130.857,0,-136.975 1/1:43:0,43:0:0:43:1525:-137.541,-12.9443,0 0/0:127:126,1:126:4463:1:36:0,-34.6325,-398.241 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:23:16,7:16:572:7:252:-16.1053,0,-44.8897 0/1:74:45,29:45:1593:29:1044:-71.9986,0,-121.382 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/1:111:34,77:34:1212:77:2768:-215.946,0,-75.972 0/1:36:27,9:27:960:9:324:-18.6688,0,-75.8792 0/0:33:33,0:33:1146:0:0:0,-9.93399,-103.442 0/1:131:74,57:74:2652:57:2036:-144.077,0,-199.491 0/1:103:69,34:69:2460:34:1224:-79.461,0,-190.649 0/0:37:36,1:36:1288:1:36:0,-7.53983,-112.625 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.068 chr07 23895946 . C T 14579.3 PASS AB=0.469247;ABP=18.5031;AC=20;AF=0.47619;AN=42;AO=885;CIGAR=1X;DP=1947;DPB=1947;DPRA=1.5459;EPP=1924.76;EPPR=2309.11;GTI=0;LEN=1;MEANALT=1;MQM=59.2486;MQMR=59.7137;NS=21;NUMALT=1;ODDS=10.2864;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31693;QR=37908;RO=1062;RPL=0;RPP=1924.76;RPPR=2309.11;RPR=885;RUN=1;SAF=885;SAP=1924.76;SAR=0;SRF=1062;SRP=2309.11;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:37,61:37:1308:61:2181:-166.946,0,-88.5206 0/1:25:6,19:6:216:19:684:-54.3564,0,-12.2648 0/1:122:49,73:49:1764:73:2616:-198.536,0,-122.318 0/1:119:78,41:78:2800:41:1472:-96.9419,0,-216.376 0/1:179:66,113:66:2360:113:4040:-309.636,0,-158.688 0/1:49:24,25:24:864:25:900:-66.5672,0,-63.2962 0/1:137:75,62:75:2692:62:2224:-158.761,0,-201.11 0/0:61:61,0:61:2176:0:0:0,-18.3628,-196.095 0/1:123:56,67:56:1992:67:2404:-179.585,0,-142.525 0/1:17:2,15:2:72:15:532:-43.091,0,-1.71921 0/1:12:5,7:5:180:7:248:-19.0518,0,-12.9397 0/1:24:18,6:18:640:6:216:-12.5658,0,-50.6964 0/1:98:62,36:62:2216:36:1292:-87.0734,0,-170.201 0/1:109:59,50:59:2104:50:1795:-128.988,0,-156.815 0/1:150:92,58:92:3292:58:2069:-141.176,0,-251.324 0/1:35:22,13:22:765:13:468:-31.1458,0,-58.5689 0/1:39:17,22:17:608:22:788:-59.5037,0,-43.3119 0/1:208:147,61:147:5244:61:2176:-133.48,0,-409.457 0/1:101:60,41:60:2131:41:1464:-101.638,0,-161.644 0/1:166:85,81:85:3032:81:2904:-211.538,0,-223.011 0/1:75:41,34:41:1452:34:1220:-87.5286,0,-108.37 chr07 23895949 . C T 5314.36 PASS AB=0.332579;ABP=218.232;AC=11;AF=0.261905;AN=42;AO=362;CIGAR=1X;DP=1962;DPB=1962;DPRA=1.3072;EPP=789.083;EPPR=3473.02;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.4337;MQMR=59.4869;NS=21;NUMALT=1;ODDS=5.17136;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12981;QR=57114;RO=1598;RPL=0;RPP=789.083;RPPR=3473.02;RPR=362;RUN=1;SAF=362;SAP=789.083;SAR=0;SRF=1598;SRP=3473.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:98:96,2:96:3432:2:65:0,-23.3279,-302.813 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5892 0/0:125:125,0:125:4445:0:0:0,-37.6287,-400.105 0/1:120:81,39:81:2892:39:1400:-90.1392,0,-224.383 0/0:180:178,2:178:6341:2:72:0,-47.3487,-563.612 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.883 0/1:134:85,49:85:3048:49:1760:-118.234,0,-233.781 1/1:62:0,62:0:0:62:2224:-200.41,-18.6639,0 0/0:128:127,0:127:4528:0:0:0,-38.2308,-407.182 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.0474 0/1:13:9,4:9:324:4:144:-9.40023,0,-25.5842 0/1:24:14,10:14:500:10:360:-25.5113,0,-38.1115 0/1:97:59,38:59:2124:38:1364:-93.8608,0,-162.213 0/0:110:108,2:108:3856:2:72:0,-26.2766,-340.353 0/1:150:104,45:104:3716:45:1620:-101.009,0,-289.429 0/1:34:22,12:22:792:12:428:-28.4875,0,-60.5979 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.938 0/1:207:137,70:137:4908:70:2516:-164.374,0,-379.522 0/1:105:78,27:78:2796:27:956:-54.7373,0,-220.258 0/0:169:169,0:169:6032:0:0:0,-50.8741,-542.712 0/0:75:75,0:75:2688:0:0:0,-22.5772,-242.135 chr07 23962807 . GTT CTC 5520.92 PASS AB=0.459283;ABP=11.8518;AC=11;AF=0.261905;AN=42;AO=343;CIGAR=1X1M1X;DP=1777;DPB=1777;DPRA=1.15456;EPP=747.825;EPPR=3101.71;GTI=1;LEN=3;MEANALT=1.07143;MQM=48.7988;MQMR=59.9483;NS=21;NUMALT=1;ODDS=3.39335;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12175;QR=50616;RO=1431;RPL=0;RPP=747.825;RPPR=3101.71;RPR=343;RUN=1;SAF=343;SAP=747.825;SAR=0;SRF=1431;SRP=3110.39;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:130:129,0:129:4546:0:0:0,-38.8329,-408.818 0/0:49:46,3:46:1603:3:106:0,-4.89883,-134.704 0/0:76:76,0:76:2700:0:0:0,-22.8783,-243.242 0/1:104:40,64:40:1406:64:2285:-172.338,0,-95.5279 0/0:214:213,1:213:7585:1:36:0,-60.8416,-679.106 0/0:93:92,1:92:3240:1:34:0,-24.6066,-288.433 0/1:185:98,87:98:3494:87:3070:-219.23,0,-258.981 1/1:55:0,55:0:0:55:1950:-174.075,-16.5567,0 0/0:215:214,1:214:7547:1:36:0,-61.135,-675.687 0/0:8:8,0:8:267:0:0:0,-2.40824,-24.3544 0/1:7:4,3:4:144:3:108:-7.9311,0,-11.2064 0/1:15:8,7:8:278:7:252:-18.3887,0,-20.8414 0/1:101:57,43:57:1996:43:1529:-106.723,0,-149.448 0/0:85:84,0:84:2975:0:0:0,-25.2865,-267.771 0/1:88:51,37:51:1811:37:1306:-89.863,0,-136.779 0/1:73:46,27:46:1641:27:964:-64.6308,0,-126.003 0/0:109:109,0:109:3858:0:0:0,-32.8123,-347.415 0/1:26:17,9:17:610:9:319:-21.0183,0,-47.4061 0/1:15:10,5:10:360:5:180:-11.9469,0,-28.2289 0/0:117:117,0:117:4123:0:0:0,-35.2205,-371.209 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 chr07 23962842 . AGTA AATA,AA 36827.1 PASS AB=0.55802,0.440273;ABP=20.1449,21.1677;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1404,307;CIGAR=1M1X2M,1M2D1M;DP=1712;DPB=1558.5;DPRA=0,0.793089;EPP=3051.76,669.652;EPPR=5.18177;GTI=1;LEN=1,2;MEANALT=1.61905,2;MQM=59.9188,48.7752;MQMR=60;NS=21;NUMALT=2;ODDS=2.38202;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49958,10656;QR=36;RO=1;RPL=1404,307;RPP=3051.76,669.652;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1404,307;SAP=3051.76,669.652;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:0,129,0:0:0:129,0:4591,0:-413.083,-38.8329,0,-413.083,-38.8329,-413.083 1/1:49:0,46,3:0:0:46,3:1629,108:-146.539,-13.8474,0,-137.767,-4.71793,-136.864 1/1:73:0,72,1:0:0:72,1:2561,36:-230.379,-21.6742,0,-227.441,-18.3769,-227.14 1/2:99:0,38,61:0:0:38,61:1345,2126:-280.027,-170.468,-159.029,-109.909,0,-91.5462 1/1:211:0,210,1:0:0:210,1:7527,32:-677.15,-63.2163,0,-674.579,-60.3259,-674.278 1/1:90:0,90,0:0:0:90,0:3202,0:-288.401,-27.0927,0,-288.401,-27.0927,-288.401 1/2:180:1,100,79:1:36:100,79:3544,2756:-508.182,-219.963,-192.797,-285.573,0,-264.729 2/2:45:0,1,44:0:0:1,44:36,1526:-135.943,-133.013,-132.712,-13.2453,-9.95712,0 1/1:209:0,209,0:0:0:209,0:7425,0:-668.288,-62.9153,0,-668.288,-62.9153,-668.288 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/2:6:0,4,2:0:0:4,2:144,68:-17.599,-5.83535,-4.63123,-12.1095,0,-11.5074 1/2:15:0,8,7:0:0:8,7:273,252:-42.9388,-20.7969,-18.3887,-22.4919,0,-20.3847 1/2:97:0,57,40:0:0:57,40:2028,1413:-280.051,-114.772,-97.6135,-165.632,0,-153.591 1/1:83:0,83,0:0:0:83,0:2946,0:-265.372,-24.9855,0,-265.372,-24.9855,-265.372 1/2:82:0,47,35:0:0:47,35:1684,1159:-230.386,-93.0282,-78.8798,-137.699,0,-127.163 1/2:69:0,46,23:0:0:46,23:1648,796:-199.168,-64.7558,-50.9085,-134.761,0,-127.837 1/1:102:0,102,0:0:0:102,0:3614,0:-325.466,-30.7051,0,-325.466,-30.7051,-325.466 1/2:24:0,18,6:0:0:18,6:636,212:-69.3275,-17.5383,-12.1197,-52.1413,0,-50.3351 1/2:14:0,9,5:0:0:9,5:316,172:-39.9686,-14.2445,-11.5352,-26.0696,0,-24.5644 1/1:117:0,117,0:0:0:117,0:4165,0:-374.961,-35.2205,0,-374.961,-35.2205,-374.961 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 chr07 23967065 . A G 11729.6 PASS AB=0.522051;ABP=7.1283;AC=11;AF=0.261905;AN=42;AO=658;CIGAR=1X;DP=2100;DPB=2100;DPRA=1.19457;EPP=1431.84;EPPR=3132.1;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.3252;MQMR=40.6301;NS=21;NUMALT=1;ODDS=10.6319;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23299;QR=51249;RO=1441;RPL=0;RPP=1431.84;RPPR=3132.1;RPR=658;RUN=1;SAF=0;SAP=1431.84;SAR=658;SRF=0;SRP=3132.1;SRR=1441;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:96:96,0:96:3401:0:0:0,-28.8989,-296.858 0/0:73:73,0:73:2600:0:0:0,-21.9752,-220.342 0/0:110:110,0:110:3902:0:0:0,-33.1133,-341.695 0/1:68:35,33:35:1219:33:1172:-85.3039,0,-86.4481 0/0:166:163,3:163:5791:3:100:0,-40.6405,-496.283 0/0:59:58,1:58:2055:1:36:0,-14.1662,-171.222 0/1:98:46,52:46:1639:52:1856:-137.818,0,-108.903 1/1:144:0,144:0:0:144:5078:-456.972,-43.3483,0 0/0:220:220,0:220:7844:0:0:0,-66.2266,-682.215 0/0:25:25,0:25:887:0:0:0,-7.52575,-76.6363 0/1:18:10,8:10:352:8:288:-20.8489,0,-24.9633 0/1:45:16,29:16:576:29:1040:-80.368,0,-34.8922 0/1:159:91,68:91:3255:68:2394:-167.678,0,-235.939 0/0:72:72,0:72:2563:0:0:0,-21.6742,-223.093 0/1:180:56,124:56:2004:124:4416:-343.226,0,-121.136 0/1:104:40,64:40:1420:64:2275:-173.64,0,-92.8723 0/0:60:60,0:60:2135:0:0:0,-18.0618,-186.53 0/1:217:105,111:105:3739:111:3900:-284.851,0,-256.697 0/1:86:66,20:66:2336:20:708:-38.1285,0,-177.963 0/0:42:41,1:41:1463:1:36:0,-9.04498,-122.401 0/0:58:58,0:58:2068:0:0:0,-17.4597,-175.056 chr07 23967072 . CAATATAAATG CATATGAATG,CAATATGAATG 40852.9 PASS AB=0.467975,0.52376;ABP=11.6334,7.75703;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1382,652;CIGAR=1M1D4M1X4M,6M1X4M;DP=2049;DPB=1923.18;DPRA=0.666434,1.21204;EPP=3003.99,1418.81;EPPR=5.18177;GTI=0;LEN=10,1;MEANALT=2.2,2.61538;MQM=40.5912,59.4601;MQMR=60;NS=21;NUMALT=2;ODDS=7.74601;PAIRED=0,0;PAIREDR=0;PAO=1.33333,1.33333;PQA=46.6667,46.6667;PQR=46.6667;PRO=1.33333;QA=47903,23117;QR=33;RO=1;RPL=0,0;RPP=3003.99,1418.81;RPPR=5.18177;RPR=1382,652;RUN=1,1;SAF=0,0;SAP=3003.99,1418.81;SAR=1382,652;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:0,88,0:0:0:88,0:3043,0:-266.959,-26.4906,0,-266.959,-26.4906,-266.959 1/1:71:0,71,0:0:0:71,0:2447,0:-209.308,-21.3731,0,-209.308,-21.3731,-209.308 1/1:104:0,103,0:0:0:103,0:3593,0:-315.135,-31.0061,0,-315.135,-31.0061,-315.135 1/2:68:0,36,32:0:0:36,32:1267,1130:-191.999,-92.3453,-81.5082,-100.001,0,-90.368 1/1:154:0,152,2:0:0:152,2:5277,68:-462.319,-45.7566,0,-456.803,-39.9273,-456.201 1/1:54:0,53,1:0:0:53,1:1872,36:-159.137,-15.9546,0,-156.203,-12.6611,-155.902 1/2:98:0,44,53:0:0:44,53:1513,1886:-269.706,-153.81,-140.564,-115.983,0,-100.028 2/2:143:0,0,141:0:0:0,141:0,4997:-449.271,-449.271,-449.271,-42.4452,-42.4452,0 1/1:212:0,210,0:0:0:210,0:7302,0:-637.653,-63.2163,0,-637.653,-63.2163,-637.653 1/1:23:0,23,0:0:0:23,0:795,0:-69.2103,-6.92369,0,-69.2103,-6.92369,-69.2103 1/2:17:0,8,9:0:0:8,9:280,324:-48.2521,-26.7957,-24.3874,-21.8014,0,-19.0921 1/2:45:0,15,30:0:0:15,30:494,1072:-125.655,-87.7616,-83.2461,-38.222,0,-29.1911 1/2:156:0,88,67:0:0:88,67:3060,2395:-437.152,-195.245,-168.755,-242.048,0,-221.879 1/1:71:0,71,0:0:0:71,0:2447,0:-214.694,-21.3731,0,-214.694,-21.3731,-214.694 1/2:177:1,53,120:1:33:53,120:1769,4270:-483.95,-345.078,-331.792,-136.509,0,-103.053 1/2:102:0,38,64:0:0:38,64:1317,2234:-285.567,-181.892,-170.453,-103.965,0,-84.6995 1/1:61:0,61,0:0:0:61,0:2119,0:-185.609,-18.3628,0,-185.609,-18.3628,-185.609 1/2:220:0,106,113:0:0:106,113:3669,3997:-610.756,-325.539,-293.63,-285.248,0,-251.232 1/2:85:0,65,19:0:0:65,19:2269,672:-234.016,-54.8041,-35.2371,-179.279,0,-173.559 1/1:40:0,39,1:0:0:39,1:1358,36:-117.257,-11.7402,0,-114.319,-8.44293,-114.018 1/1:58:0,58,0:0:0:58,0:2012,0:-171.739,-17.4597,0,-171.739,-17.4597,-171.739 chr07 23967123 . A G 28723.4 PASS AB=0.478916;ABP=6.85616;AC=31;AF=0.738095;AN=42;AO=1463;CIGAR=1X;DP=2136;DPB=2136;DPRA=0.666779;EPP=3179.87;EPPR=1462.24;GTI=0;LEN=1;MEANALT=1.05;MQM=40.4764;MQMR=59.3006;NS=21;NUMALT=1;ODDS=8.66176;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52397;QR=24056;RO=672;RPL=1463;RPP=3179.87;RPPR=1462.24;RPR=0;RUN=1;SAF=0;SAP=3179.87;SAR=1463;SRF=0;SRP=1462.24;SRR=672;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:95:0,95:0:0:95:3404:-296.943,-28.5979,0 1/1:70:0,69:0:0:69:2457:-207.467,-20.7711,0 1/1:114:0,114:0:0:114:4081:-356.426,-34.3174,0 0/1:71:32,39:32:1152:39:1400:-100.585,0,-82.5871 1/1:168:3,165:3:108:165:5916:-505.77,-40.4979,0 1/1:56:0,56:0:0:56:2012:-170.686,-16.8577,0 0/1:101:52,49:52:1872:49:1764:-117.516,0,-138.354 0/0:149:149,0:149:5321:0:0:0,-44.8535,-478.484 1/1:227:0,227:0:0:227:8141:-706.639,-68.3338,0 1/1:23:0,23:0:0:23:820:-70.6368,-6.92369,0 0/1:19:9,10:9:320:10:360:-24.9256,0,-23.4224 0/1:46:30,16:30:1065:16:572:-34.3027,0,-82.3124 0/1:160:71,89:71:2548:89:3188:-229.555,0,-181.199 1/1:74:0,74:0:0:74:2626:-229.327,-22.2762,0 0/1:183:126,57:126:4512:57:2036:-122.142,0,-350.886 0/1:109:68,41:68:2448:41:1464:-95.2081,0,-187.632 1/1:62:0,62:0:0:62:2232:-194.756,-18.6639,0 0/1:219:111,108:111:3973:108:3864:-264.83,0,-291.764 0/1:88:20,68:20:701:68:2440:-186.048,0,-36.9202 1/1:44:1,43:1:36:43:1536:-126.699,-9.64705,0 1/1:58:0,58:0:0:58:2084:-176.119,-17.4597,0 chr07 24045311 . AT CT,CA 34845.8 PASS AB=0.500901,0.499099;ABP=3.01421,3.01421;AC=31,11;AF=0.738095,0.261905;AN=42;AO=958,342;CIGAR=1X1M,2X;DP=1300;DPB=1300;DPRA=0.95,1.00294;EPP=2074.6,745.654;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.45,1.9;MQM=55.0793,55.5877;MQMR=0;NS=21;NUMALT=2;ODDS=13.5371;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33748,11578;QR=0;RO=0;RPL=422,168;RPP=32.468,3.23888;RPPR=0;RPR=536,174;RUN=1,1;SAF=421,168;SAP=33.5106,3.23888;SAR=537,174;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74,0:0:0:74,0:2564,0:-230.341,-22.2762,0,-230.341,-22.2762,-230.341 1/1:61:0,61,0:0:0:61,0:2184,0:-196.377,-18.3628,0,-196.377,-18.3628,-196.377 1/1:50:0,50,0:0:0:50,0:1759,0:-158.149,-15.0515,0,-158.149,-15.0515,-158.149 1/2:77:0,36,41:0:0:36,41:1296,1317:-211.185,-105.64,-94.8024,-105.886,0,-93.5438 1/1:111:0,111,0:0:0:111,0:3940,0:-353.557,-33.4143,0,-353.557,-33.4143,-353.557 1/1:41:0,41,0:0:0:41,0:1436,0:-129.081,-12.3422,0,-129.081,-12.3422,-129.081 1/2:104:0,49,55:0:0:49,55:1751,1865:-293.765,-151.546,-136.795,-142.567,0,-126.01 2/2:65:0,0,65:0:0:0,65:0,2214:-199.474,-199.474,-199.474,-19.567,-19.567,0 1/1:58:0,58,0:0:0:58,0:2068,0:-186.037,-17.4597,0,-186.037,-17.4597,-186.037 1/1:13:0,13,0:0:0:13,0:446,0:-40.071,-3.91339,0,-40.071,-3.91339,-40.071 1/2:8:0,4,4:0:0:4,4:144,142:-23.6772,-11.9251,-10.721,-12.1095,0,-10.9054 1/2:20:0,9,11:0:0:9,11:324,381:-57.7533,-31.3104,-28.6011,-26.7966,0,-23.4853 1/2:56:0,23,33:0:0:23,33:790,1123:-154.539,-90.7793,-83.8556,-64.0995,0,-54.1655 1/1:83:0,83,0:0:0:83,0:2936,0:-264.018,-24.9855,0,-264.018,-24.9855,-264.018 1/2:123:0,68,55:0:0:68,55:2388,1903:-347.476,-153.77,-133.3,-194.052,0,-177.496 1/2:32:0,19,13:0:0:19,13:665,444:-90.0119,-36.1198,-30.4002,-54.2352,0,-50.3218 1/1:29:0,29,0:0:0:29,0:1007,0:-90.7594,-8.72987,0,-90.7594,-8.72987,-90.7594 1/2:78:0,36,42:0:0:36,42:1260,1425:-217.871,-115.839,-105.002,-102.376,0,-89.733 1/2:57:0,34,23:0:0:34,23:1189,764:-158.104,-61.8456,-51.6106,-96.5964,0,-89.6727 1/1:64:0,64,0:0:0:64,0:2270,0:-204.187,-19.2659,0,-204.187,-19.2659,-204.187 1/1:96:0,96,0:0:0:96,0:3331,0:-298.846,-28.8989,0,-298.846,-28.8989,-298.846 chr07 24046375 . ATCT GTCT,GTCC 62008.6 PASS AB=0.569405,0.423041;ABP=47.3194,57.4899;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2258,554;CIGAR=1X3M,1X2M1X;DP=2828;DPB=2829.25;DPRA=1.52111,1.30609;EPP=4708.45,1180.09;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=2.35,2.75;MQM=60,60;MQMR=60;NS=21;NUMALT=2;ODDS=1.38963;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=90,90;PQR=0;PRO=0;QA=80568,19501;QR=30;RO=1;RPL=2240,551;RPP=4751.1,1180.09;RPPR=5.18177;RPR=18,3;RUN=1,1;SAF=5,0;SAP=4862.86,1206.01;SAR=2253,554;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:171:0,171,0:0:0:171,0:6101,0:-549.192,-51.4761,0,-549.192,-51.4761,-549.192 1/1:105:0,105,0:0:0:105,0:3757,0:-338.09,-31.6082,0,-338.09,-31.6082,-338.09 1/1:159:1,156,1:1:30:156,1:5569,36:-498.33,-44.5638,0,-495.694,-43.995,-497.791 1/2:175:0,102,71:0:0:102,71:3630,2491:-498.568,-202.72,-172.015,-295.851,0,-274.478 1/1:247:0,243,3:0:0:243,3:8669,107:-779.846,-73.1503,0,-771.123,-64.4302,-770.22 1/1:122:0,121,1:0:0:121,1:4306,36:-387.358,-36.4246,0,-384.421,-33.1274,-384.12 1/2:214:0,108,105:0:0:108,105:3853,3675:-613.03,-298.929,-266.418,-314.035,0,-282.427 2/2:90:0,0,88:0:0:0,88:0,3104:-279.228,-279.228,-279.228,-26.4906,-26.4906,0 1/1:310:0,308,1:0:0:308,1:10975,36:-987.345,-92.7172,0,-984.407,-89.7249,-984.106 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 1/2:10:0,6,4:0:0:6,4:216,144:-29.734,-12.1095,-10.3033,-17.9843,0,-16.7802 1/2:23:0,17,6:0:0:17,6:604,214:-67.0185,-17.8016,-12.6841,-49.5731,0,-47.7669 1/2:196:0,108,86:0:0:108,86:3851,3044:-561.864,-247.944,-215.433,-313.916,0,-288.027 1/1:196:0,195,0:0:0:195,0:6953,0:-625.477,-58.7009,0,-625.477,-58.7009,-625.477 1/2:232:0,144,87:0:0:144,87:5160,3057:-669.738,-248.899,-205.551,-420.921,0,-394.732 1/2:95:0,54,41:0:0:54,41:1936,1440:-275.459,-117.553,-101.297,-158.261,0,-145.919 1/1:117:0,115,1:0:0:115,1:4083,35:-367.301,-34.6185,0,-364.453,-31.7757,-364.152 1/2:56:0,27,27:0:0:27,27:963,963:-157.054,-78.5504,-70.4226,-78.5497,0,-70.4219 1/2:58:0,37,21:0:0:37,21:1324,730:-167.671,-59.6983,-48.5602,-108.324,0,-102.002 1/1:178:0,167,11:0:0:167,11:5954,389:-535.612,-50.272,0,-503.929,-18.2355,-500.618 1/1:53:0,53,0:0:0:53,0:1908,0:-171.998,-15.9546,0,-171.998,-15.9546,-171.998 chr07 24079292 . CG TA 4835.08 PASS AB=0.595745;ABP=36.6912;AC=11;AF=0.261905;AN=42;AO=291;CIGAR=2X;DP=898;DPB=898;DPRA=1.6262;EPP=634.909;EPPR=1316.75;GTI=0;LEN=2;MEANALT=1.09091;MQM=48.0859;MQMR=59.3355;NS=21;NUMALT=1;ODDS=0.596644;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10159;QR=21218;RO=605;RPL=0;RPP=634.909;RPPR=1316.75;RPR=291;RUN=1;SAF=0;SAP=634.909;SAR=291;SRF=0;SRP=1316.75;SRR=605;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:31,0:31:1097:0:0:0,-9.33193,-99.0075 0/0:17:17,0:17:603:0:0:0,-5.11751,-54.4524 0/0:13:13,0:13:458:0:0:0,-3.91339,-41.5538 0/1:74:32,42:32:1123:42:1466:-108.838,0,-79.0027 0/0:119:113,5:113:3990:5:180:0,-19.3978,-341.906 0/0:34:34,0:34:1212:0:0:0,-10.235,-109.374 0/1:68:24,44:24:815:44:1538:-115.128,0,-53.1877 1/1:34:0,34:0:0:34:1188:-106.338,-10.235,0 0/0:93:93,0:93:3261:0:0:0,-27.9958,-293.686 0/0:4:4,0:4:137:0:0:0,-1.20412,-12.6674 0/1:5:3,2:3:92:2:72:-5.23703,0,-7.07822 0/1:12:4,8:4:139:8:286:-22.2429,0,-9.23985 0/1:60:31,29:31:1102:29:1025:-73.5914,0,-81.2612 0/0:27:27,0:27:942:0:0:0,-8.12781,-85.0815 0/1:49:21,28:21:751:28:980:-73.4156,0,-53.1654 0/1:74:22,52:22:783:52:1796:-139.13,0,-48.5176 0/0:32:31,0:31:1091:0:0:0,-9.33193,-98.2345 0/1:44:10,34:10:360:34:1186:-92.5286,0,-19.499 0/1:37:24,13:24:818:13:442:-28.8214,0,-62.7898 0/0:52:52,0:52:1790:0:0:0,-15.6536,-161.178 0/0:19:19,0:19:654:0:0:0,-5.71957,-59.1803 chr07 24079295 . C A 12114.2 PASS AB=0.40241;ABP=37.3405;AC=31;AF=0.738095;AN=42;AO=592;CIGAR=1X;DP=876;DPB=876;DPRA=1.27727;EPP=1288.52;EPPR=619.708;GTI=0;LEN=1;MEANALT=1;MQM=59.3108;MQMR=48.1373;NS=21;NUMALT=1;ODDS=0.605433;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21087;QR=10116;RO=284;RPL=0;RPP=1288.52;RPPR=619.708;RPR=592;RUN=1;SAF=0;SAP=1288.52;SAR=592;SRF=0;SRP=619.708;SRR=284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,31:0:0:31:1108:-100,-9.33193,0 1/1:16:0,16:0:0:16:556:-50.2666,-4.81648,0 1/1:13:0,13:0:0:13:453:-41.0996,-3.91339,0 0/1:73:42,31:42:1508:31:1108:-77.9585,0,-112.8 1/1:116:3,113:3:108:113:4044:-353.191,-24.8869,0 1/1:33:0,33:0:0:33:1184:-106.856,-9.93399,0 0/1:65:42,23:42:1508:23:816:-54.1944,0,-113.136 0/0:33:33,0:33:1157:0:0:0,-9.93399,-103.568 1/1:91:0,91:0:0:91:3248:-292.349,-27.3937,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:2,3:2:68:3:99:-7.72983,0,-4.88578 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.6072 0/1:60:29,31:29:1044:31:1107:-81.4937,0,-75.2716 1/1:25:0,25:0:0:25:881:-79.5962,-7.52575,0 0/1:48:28,20:28:1004:20:720:-50.6793,0,-75.8494 0/1:73:52,21:52:1859:21:756:-46.392,0,-144.757 1/1:32:0,32:0:0:32:1137:-102.627,-9.63296,0 0/1:44:34,10:34:1180:10:356:-19.1359,0,-92.0609 0/1:37:13,24:13:464:24:818:-62.7885,0,-30.788 1/1:49:0,49:0:0:49:1764:-158.584,-14.7505,0 1/1:18:0,18:0:0:18:644:-58.2897,-5.41854,0 chr07 24085460 . G A 28971.7 PASS AB=0.532623;ABP=9.95265;AC=31;AF=0.738095;AN=42;AO=1391;CIGAR=1X;DP=1810;DPB=1810;DPRA=1.51034;EPP=3023.53;EPPR=904.192;GTI=0;LEN=1;MEANALT=1;MQM=59.9892;MQMR=59.9642;NS=21;NUMALT=1;ODDS=11.3296;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49187;QR=14155;RO=419;RPL=0;RPP=3023.53;RPPR=904.192;RPR=1391;RUN=1;SAF=0;SAP=3023.53;SAR=1391;SRF=0;SRP=912.857;SRR=419;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:116:3,113:3:108:113:3983:-348.633,-24.8908,0 1/1:39:0,39:0:0:39:1368:-123.416,-11.7402,0 1/1:106:1,105:1:36:105:3693:-328.973,-28.3109,0 0/1:175:106,69:106:3560:69:2443:-167.443,0,-267.934 1/1:205:0,205:0:0:205:7251:-652.641,-61.7112,0 1/1:95:0,95:0:0:95:3336:-300.457,-28.5979,0 0/1:117:58,59:58:1987:59:2086:-152.788,0,-143.879 0/0:58:58,0:58:1978:0:0:0,-17.4597,-178.29 1/1:142:4,138:4:135:138:4874:-426.332,-30.2637,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:7:6,1:6:193:1:36:-1.49107,0,-15.5784 0/1:24:13,11:13:447:11:387:-27.9412,0,-33.333 0/1:157:61,96:61:2106:96:3410:-259.851,0,-142.545 1/1:75:1,74:1:36:74:2630:-233.349,-18.979,0 0/1:97:43,54:43:1402:54:1932:-144.957,0,-97.2584 0/1:49:17,32:17:578:32:1148:-88.8794,0,-37.5895 1/1:69:1,68:1:36:68:2402:-212.836,-17.1728,0 0/1:49:27,22:27:905:22:780:-55.7726,0,-67.0036 0/1:76:20,56:20:648:56:1963:-154.067,0,-35.7459 1/1:82:0,82:0:0:82:2906:-261.773,-24.6845,0 1/1:57:0,57:0:0:57:2019:-181.983,-17.1587,0 chr07 24085491 . G A 29639.9 PASS AB=0.518041;ABP=5.20416;AC=31;AF=0.738095;AN=42;AO=1405;CIGAR=1X;DP=1857;DPB=1857;DPRA=0;EPP=3053.93;EPPR=984.516;GTI=0;LEN=1;MEANALT=1;MQM=59.9893;MQMR=60;NS=21;NUMALT=1;ODDS=8.81396;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50089;QR=15957;RO=452;RPL=1405;RPP=3053.93;RPPR=984.516;RPR=0;RUN=1;SAF=0;SAP=3053.93;SAR=1405;SRF=0;SRP=984.516;SRR=452;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:2,115:2:72:115:4078:-360.369,-28.3838,0 1/1:38:0,38:0:0:38:1364:-123.061,-11.4391,0 1/1:104:0,104:0:0:104:3704:-333.561,-31.3071,0 0/1:182:111,71:111:3910:71:2536:-173.704,0,-297.308 1/1:206:1,205:1:36:205:7322:-655.428,-58.4139,0 1/1:94:0,94:0:0:94:3340:-300.817,-28.2968,0 0/1:123:62,61:62:2209:61:2177:-159.169,0,-162.047 0/0:70:69,1:69:2420:1:36:0,-17.4738,-214.46 1/1:142:4,138:4:144:138:4916:-429.28,-29.4326,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 0/1:7:6,1:6:212:1:36:-1.49107,0,-17.3176 0/1:23:12,11:12:428:11:392:-28.6964,0,-31.9351 0/1:158:64,94:64:2269:94:3347:-253.885,0,-156.908 1/1:81:1,80:1:36:80:2845:-252.69,-20.7852,0 0/1:98:46,52:46:1594:52:1855:-137.728,0,-114.244 0/1:56:21,35:21:735:35:1248:-95.7672,0,-49.6137 1/1:73:1,72:1:36:72:2584:-229.211,-18.3769,0 0/1:51:29,22:29:1040:22:784:-55.5314,0,-78.5618 0/1:78:23,55:23:816:55:1958:-153.015,0,-50.2814 1/1:83:0,83:0:0:83:2951:-265.824,-24.9855,0 1/1:58:0,58:0:0:58:2080:-187.47,-17.4597,0 chr07 24126916 . T C 51353.8 PASS AB=0.539526;ABP=16.7429;AC=32;AF=0.761905;AN=42;AO=2362;CIGAR=1X;DP=2960;DPB=2960;DPRA=1.1246;EPP=5114.67;EPPR=1279.89;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9297;MQMR=59.9933;NS=21;NUMALT=1;ODDS=9.69816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84337;QR=21401;RO=596;RPL=2360;RPP=5114.67;RPPR=1279.89;RPR=2;RUN=1;SAF=0;SAP=5132.03;SAR=2362;SRF=0;SRP=1297.21;SRR=596;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:171:0,171:0:0:171:6085:-547.747,-51.4761,0 1/1:133:0,133:0:0:133:4757:-428.286,-40.037,0 1/1:126:0,126:0:0:126:4507:-405.798,-37.9298,0 1/1:183:0,183:0:0:183:6502:-585.249,-55.0885,0 1/1:285:3,282:3:108:282:10063:-895.524,-75.7184,0 1/1:114:0,114:0:0:114:4063:-365.857,-34.3174,0 0/1:201:83,118:83:2969:118:4224:-319.833,0,-206.934 0/0:126:126,0:126:4536:0:0:0,-37.9298,-408.404 1/1:325:1,323:1:36:323:11561:-1036.73,-94.2953,0 1/1:10:0,10:0:0:10:360:-32.7397,-3.0103,0 0/1:12:2,10:2:72:10:360:-29.1319,0,-3.22436 0/1:26:12,14:12:432:14:486:-36.2407,0,-31.3944 0/1:186:85,101:85:3052:101:3627:-270.643,0,-218.915 1/1:138:0,138:0:0:138:4952:-445.822,-41.5421,0 0/1:312:165,146:165:5916:146:5209:-374.882,0,-438.568 0/1:135:50,85:50:1800:85:3014:-230.849,0,-121.643 1/1:106:0,106:0:0:106:3784:-340.76,-31.9092,0 0/1:72:35,37:35:1256:37:1315:-96.9769,0,-91.6711 0/1:68:33,35:33:1188:35:1240:-91.4321,0,-86.7586 1/1:167:1,166:1:36:166:5928:-529.726,-46.6737,0 1/1:64:0,64:0:0:64:2300:-207.257,-19.2659,0 chr07 24126920 . 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G A 5883.32 PASS AB=0.518672;ABP=4.46996;AC=11;AF=0.261905;AN=42;AO=325;CIGAR=1X;DP=1087;DPB=1087;DPRA=1.07123;EPP=708.739;EPPR=1567.61;GTI=1;LEN=1;MEANALT=1.09091;MQM=59.5969;MQMR=59.5237;NS=21;NUMALT=1;ODDS=1.14784;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11644;QR=27094;RO=760;RPL=325;RPP=708.739;RPPR=1567.61;RPR=0;RUN=1;SAF=325;SAP=708.739;SAR=0;SRF=760;SRP=1653.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.0438 0/0:67:67,0:67:2384:0:0:0,-20.169,-214.811 0/0:30:30,0:30:1071:0:0:0,-9.0309,-96.7016 0/0:64:64,0:64:2295:0:0:0,-19.2659,-206.769 0/0:37:37,0:37:1319:0:0:0,-11.1381,-118.786 0/1:55:23,31:23:811:31:1116:-84.1363,0,-56.1441 1/1:74:0,74:0:0:74:2644:-238.175,-22.2762,0 0/0:63:63,0:63:2244:0:0:0,-18.9649,-202.222 0/1:8:7,1:7:252:1:36:-1.19004,0,-20.6207 0/1:6:1,5:1:36:5:176:-14.3788,0,-1.79209 0/1:23:12,11:12:432:11:396:-29.0544,0,-32.2975 0/1:95:43,52:43:1539:52:1872:-139.819,0,-110.2 0/0:58:58,0:58:2051:0:0:0,-17.4597,-184.824 0/1:81:35,46:35:1251:46:1656:-124.933,0,-88.5062 0/1:17:8,9:8:288:9:324:-24.3883,0,-21.1466 0/0:32:31,1:31:1112:1:36:0,-6.03468,-96.7918 0/1:143:71,72:71:2526:72:2564:-187.944,0,-184.539 0/1:54:31,23:31:1104:23:824:-58.2277,0,-83.4127 0/0:98:97,0:97:3466:0:0:0,-29.1999,-311.53 0/0:40:40,0:40:1409:0:0:0,-12.0412,-127.091 chr07 24139994 . GATTA AATTT,AATTA 14153.9 PASS AB=0.594203,0.402174;ABP=24.2844,25.9524;AC=33,9;AF=0.785714,0.214286;AN=42;AO=657,137;CIGAR=1X3M1X,1X4M;DP=796;DPB=796;DPRA=1.68043,0.994737;EPP=1386.57,258.658;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.55,2;MQM=31.6986,53.1387;MQMR=0;NS=21;NUMALT=2;ODDS=2.86898;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23086,4880;QR=0;RO=0;RPL=5,5;RPP=1386.57,258.658;RPPR=0;RPR=652,132;RUN=1,1;SAF=657,137;SAP=1429.67,300.502;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,29,2:0:0:29,2:1005,72:-73.9663,-8.72987,0,-68.0933,-2.50225,-67.4912 1/1:14:0,14,0:0:0:14,0:484,0:-36.8216,-4.21442,0,-36.8216,-4.21442,-36.8216 1/1:72:0,72,0:0:0:72,0:2513,0:-184.989,-21.6742,0,-184.989,-21.6742,-184.989 1/1:51:0,51,0:0:0:51,0:1785,0:-131.336,-15.3525,0,-131.336,-15.3525,-131.336 1/1:74:0,74,0:0:0:74,0:2600,0:-190.962,-22.2762,0,-190.962,-22.2762,-190.962 1/1:24:0,23,0:0:0:23,0:820,0:-62.129,-6.92369,0,-62.129,-6.92369,-62.129 1/2:59:0,32,27:0:0:32,27:1117,956:-154.666,-77.8076,-68.1746,-77.1868,0,-69.059 2/2:23:0,0,23:0:0:0,23:0,828:-74.342,-74.342,-74.342,-6.92369,-6.92369,0 1/1:48:0,47,1:0:0:47,1:1658,36:-139.48,-14.1484,0,-136.55,-10.8602,-136.249 1/1:5:0,5,0:0:0:5,0:179,0:-14.6249,-1.50515,0,-14.6249,-1.50515,-14.6249 1/1:6:0,6,0:0:0:6,0:216,0:-16.6608,-1.80618,0,-16.6608,-1.80618,-16.6608 1/2:19:0,13,6:0:0:13,6:451,212:-49.314,-17.5639,-13.6505,-32.0874,0,-30.2813 1/2:33:0,21,12:0:0:21,12:734,424:-82.5857,-34.8477,-28.5261,-48.0666,0,-44.4542 1/1:54:0,54,0:0:0:54,0:1890,0:-139.579,-16.2556,0,-139.579,-16.2556,-139.579 1/2:68:0,38,30:0:0:38,30:1347,1068:-174.091,-87.1623,-75.7231,-87.2543,0,-78.2234 1/2:32:0,16,16:0:0:16,16:567,564:-85.769,-46.0353,-41.2188,-40.0638,0,-35.2474 1/1:58:0,58,0:0:0:58,0:2032,0:-166.855,-17.4597,0,-166.855,-17.4597,-166.855 1/2:37:0,22,15:0:0:22,15:790,540:-99.9027,-44.3296,-37.707,-55.9141,0,-51.3986 1/2:28:0,22,5:0:0:22,5:778,180:-64.466,-14.7411,-8.11844,-49.7822,0,-48.277 1/1:34:0,34,0:0:0:34,0:1203,0:-96.9512,-10.235,0,-96.9512,-10.235,-96.9512 1/1:26:0,26,0:0:0:26,0:917,0:-69.1605,-7.82678,0,-69.1605,-7.82678,-69.1605 chr07 24140005 . TTTGCTG TTTACTA,TTTGCTA 13612.6 PASS AB=0.584838,0.397112;ABP=20.3272,28.48;AC=33,9;AF=0.785714,0.214286;AN=42;AO=654,134;CIGAR=3M1X2M1X,6M1X;DP=794;DPB=794;DPRA=1.75455,0.999519;EPP=1423.15,293.988;EPPR=0;GTI=0;LEN=7,1;MEANALT=1.6,2.3;MQM=31.7385,53.3134;MQMR=0;NS=21;NUMALT=2;ODDS=1.42711;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23014,4725;QR=0;RO=0;RPL=654,134;RPP=1423.15,293.988;RPPR=0;RPR=0,0;RUN=1,1;SAF=654,134;SAP=1423.15,293.988;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,29,2:0:0:29,2:1016,72:-74.5678,-8.72987,0,-68.6949,-2.50225,-68.0929 1/1:14:0,14,0:0:0:14,0:486,0:-36.9512,-4.21442,0,-36.9512,-4.21442,-36.9512 1/1:72:0,72,0:0:0:72,0:2517,0:-184.867,-21.6742,0,-184.867,-21.6742,-184.867 1/1:51:0,51,0:0:0:51,0:1796,0:-131.91,-15.3525,0,-131.91,-15.3525,-131.91 1/1:73:0,73,0:0:0:73,0:2585,0:-189.034,-21.9752,0,-189.034,-21.9752,-189.034 1/1:24:0,24,0:0:0:24,0:851,0:-63.9552,-7.22472,0,-63.9552,-7.22472,-63.9552 1/2:59:0,32,27:0:0:32,27:1122,955:-154.777,-77.7152,-68.0822,-77.3903,0,-69.2625 2/2:22:0,0,21:0:0:0,21:0,736:-65.8965,-65.8965,-65.8965,-6.32163,-6.32163,0 1/1:48:0,47,1:0:0:47,1:1657,36:-138.738,-14.1484,0,-135.808,-10.8602,-135.507 1/1:5:0,5,0:0:0:5,0:180,0:-14.6631,-1.50515,0,-14.6631,-1.50515,-14.6631 1/1:6:0,6,0:0:0:6,0:207,0:-16.3395,-1.80618,0,-16.3395,-1.80618,-16.3395 1/2:19:0,12,6:0:0:12,6:419,212:-47.5067,-17.3341,-13.7217,-30.2673,0,-28.4611 1/2:34:0,22,12:0:0:22,12:784,420:-85.2145,-34.4873,-27.8647,-51.0557,0,-47.4433 1/1:54:0,54,0:0:0:54,0:1905,0:-140.386,-16.2556,0,-140.386,-16.2556,-140.386 1/2:68:0,38,29:0:0:38,29:1328,1022:-169.453,-83.1088,-71.6697,-86.3865,0,-77.6566 1/2:31:0,13,15:0:0:13,15:465,524:-76.7671,-42.4851,-38.5717,-34.3486,0,-29.8332 1/1:57:0,57,0:0:0:57,0:2002,0:-165.522,-17.1587,0,-165.522,-17.1587,-165.522 1/2:38:0,22,16:0:0:22,16:780,572:-102.007,-46.903,-40.2804,-55.4423,0,-50.6258 1/2:28:0,23,5:0:0:23,5:809,176:-66.4832,-14.6649,-7.74117,-52.1578,0,-50.6527 1/1:34:0,34,0:0:0:34,0:1194,0:-96.3252,-10.235,0,-96.3252,-10.235,-96.3252 1/1:26:0,26,0:0:0:26,0:911,0:-68.9592,-7.82678,0,-68.9592,-7.82678,-68.9592 chr07 24140030 . C T 1981.66 PASS AB=0.4;ABP=26.4622;AC=9;AF=0.214286;AN=42;AO=132;CIGAR=1X;DP=763;DPB=763;DPRA=0.99825;EPP=289.645;EPPR=1373.21;GTI=0;LEN=1;MEANALT=1;MQM=52.9773;MQMR=31.7956;NS=21;NUMALT=1;ODDS=4.02079;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4716;QR=22248;RO=631;RPL=132;RPP=289.645;RPPR=1373.21;RPR=0;RUN=1;SAF=132;SAP=289.645;SAR=0;SRF=631;SRP=1373.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:26,2:26:932:2:72:0,-1.59916,-61.1308 0/0:14:14,0:14:482:0:0:0,-4.21442,-36.7017 0/0:63:63,0:63:2240:0:0:0,-18.9649,-163.841 0/0:49:49,0:49:1744:0:0:0,-14.7505,-127.513 0/0:71:71,0:71:2508:0:0:0,-21.3731,-184.232 0/0:23:23,0:23:816:0:0:0,-6.92369,-62.1001 0/1:59:32,27:32:1127:27:968:-69.1778,0,-69.389 1/1:21:0,21:0:0:21:752:-67.5076,-6.32163,0 0/0:44:43,1:43:1495:1:36:0,-9.65609,-123.162 0/0:5:5,0:5:176:0:0:0,-1.50515,-14.4791 0/0:6:6,0:6:216:0:0:0,-1.80618,-16.6608 0/1:18:13,5:13:434:5:176:-10.7115,0,-29.8287 0/1:32:21,11:21:748:11:384:-25.2307,0,-45.3114 0/0:54:54,0:54:1928:0:0:0,-16.2556,-140.95 0/1:66:37,29:37:1324:29:1036:-73.49,0,-76.7263 0/1:32:16,16:16:558:16:572:-42.0002,0,-34.8951 0/0:56:56,0:56:1960:0:0:0,-16.8577,-161.639 0/1:37:22,15:22:752:15:540:-37.7008,0,-49.2348 0/1:26:21,5:21:752:5:180:-8.70823,0,-46.9104 0/0:33:33,0:33:1133:0:0:0,-9.93399,-91.755 0/0:26:26,0:26:923:0:0:0,-7.82678,-69.1755 chr07 24156333 . C A 4649.32 PASS AB=0.514451;ABP=3.63789;AC=9;AF=0.214286;AN=42;AO=258;CIGAR=1X;DP=929;DPB=929;DPRA=1.52074;EPP=563.25;EPPR=1460.07;GTI=0;LEN=1;MEANALT=1;MQM=59.9612;MQMR=59.9344;NS=21;NUMALT=1;ODDS=3.20221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9159;QR=23911;RO=671;RPL=0;RPP=563.25;RPPR=1460.07;RPR=258;RUN=1;SAF=258;SAP=563.25;SAR=0;SRF=671;SRP=1460.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:54:54,0:54:1928:0:0:0,-16.2556,-173.74 0/0:34:34,0:34:1203:0:0:0,-10.235,-108.575 0/0:17:17,0:17:604:0:0:0,-5.11751,-54.6906 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.086 0/0:70:69,1:69:2468:1:36:0,-17.4738,-218.776 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:55:18,37:18:640:37:1324:-102.905,0,-41.3727 1/1:79:0,79:0:0:79:2828:-254.759,-23.7814,0 0/0:62:62,0:62:2208:0:0:0,-18.6639,-198.929 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:6:4,2:4:144:2:68:-4.65153,0,-11.5074 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:48:22,26:22:780:26:883:-65.326,0,-56.0736 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:93:41,52:41:1456:52:1849:-138.687,0,-103.34 0/1:32:13,19:13:460:19:680:-51.8962,0,-32.1024 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/1:54:28,26:28:991:26:923:-67.132,0,-73.2479 0/1:58:42,16:42:1482:16:568:-33.9921,0,-116.213 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 0/0:59:59,0:59:2091:0:0:0,-17.7608,-188.451 chr07 24159308 . AAAA GAAT,GAAC 29592.9 PASS AB=0.279483,0.718901;ABP=264.46,260.644;AC=29,13;AF=0.690476,0.309524;AN=42;AO=609,864;CIGAR=1X2M1X,1X2M1X;DP=1477;DPB=1477;DPRA=1.31759,2.41449;EPP=1308.12,1879.16;EPPR=0;GTI=6;LEN=4,4;MEANALT=1.7,2.09091;MQM=59.954,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.477504;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21312,29343;QR=0;RO=0;RPL=2,0;RPP=1308.12,1879.16;RPPR=0;RPR=607,864;RUN=1,1;SAF=609,864;SAP=1325.44,1879.16;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40,0:0:0:40,0:1387,0:-125.124,-12.0412,0,-125.124,-12.0412,-125.124 1/1:27:0,26,0:0:0:26,0:909,0:-81.822,-7.82678,0,-81.822,-7.82678,-81.822 1/1:22:0,22,0:0:0:22,0:775,0:-70.072,-6.62266,0,-70.072,-6.62266,-70.072 1/1:30:0,30,0:0:0:30,0:1043,0:-94.1784,-9.0309,0,-94.1784,-9.0309,-94.1784 1/1:94:0,93,0:0:0:93,0:3274,0:-294.521,-27.9958,0,-294.521,-27.9958,-294.521 1/1:16:0,16,0:0:0:16,0:562,0:-50.909,-4.81648,0,-50.909,-4.81648,-50.909 1/2:65:0,24,41:0:0:24,41:844,1382:-181.035,-112.328,-105.103,-69.0532,0,-56.711 2/2:54:0,0,54:0:0:0,54:0,1827:-164.708,-164.708,-164.708,-16.2556,-16.2556,0 1/1:49:0,49,0:0:0:49,0:1705,0:-153.729,-14.7505,0,-153.729,-14.7505,-153.729 1/2:17:0,13,4:0:0:13,4:446,135:-47.4936,-11.2787,-7.36528,-36.5536,0,-35.3495 2/2:182:0,1,181:0:0:1,181:36,6107:-549.405,-546.468,-546.167,-54.4864,-51.1892,0 2/2:191:0,7,183:0:0:7,183:251,6270:-564.07,-543.598,-541.49,-55.0885,-34.5738,0 1/2:44:0,16,28:0:0:16,28:564,952:-123.485,-77.5589,-72.7424,-46.274,0,-37.8452 1/1:46:0,46,0:0:0:46,0:1598,0:-144.108,-13.8474,0,-144.108,-13.8474,-144.108 1/2:71:0,34,36:0:0:34,36:1210,1242:-199.574,-100.953,-90.7175,-98.6794,0,-87.8424 1/2:31:0,18,13:0:0:18,13:637,446:-88.4457,-36.5533,-31.1348,-52.2399,0,-48.3265 1/1:27:0,26,1:0:0:26,1:910,35:-81.8651,-7.82678,0,-79.0174,-4.62918,-78.7164 1/2:342:0,41,301:0:0:41,301:1439,10195:-944.045,-826.935,-814.593,-117.459,0,-26.8491 1/2:49:0,27,22:0:0:27,22:949,752:-138.624,-61.3733,-53.2455,-77.5966,0,-70.974 1/1:46:0,46,0:0:0:46,0:1611,0:-145.277,-13.8474,0,-145.277,-13.8474,-145.277 1/1:34:0,34,0:0:0:34,0:1162,0:-104.88,-10.235,0,-104.88,-10.235,-104.88 chr07 24161951 . TCGC ACGC 20903.6 PASS AB=0.496614;ABP=3.05442;AC=31;AF=0.738095;AN=42;AO=902;CIGAR=1X3M;DP=1163;DPB=1163;DPRA=4.99561;EPP=1467.67;EPPR=548.084;GTI=1;LEN=1;MEANALT=1.21053;MQM=57.8426;MQMR=56.8235;NS=21;NUMALT=1;ODDS=1.20818;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32075;QR=8970;RO=255;RPL=840;RPP=1460.17;RPPR=556.736;RPR=62;RUN=1;SAF=901;SAP=1953;SAR=1;SRF=254;SRP=548.084;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:2,84:2:71:84:2992:-262.232,-19.5091,0 1/1:43:0,43:0:0:43:1536:-138.385,-12.9443,0 1/1:39:0,36:0:0:36:1292:-116.212,-10.8371,0 1/1:21:1,20:1:36:20:720:-61.4603,-2.72336,0 1/1:164:4,160:4:144:160:5728:-501.414,-36.0553,0 1/1:47:0,47:0:0:47:1645:-148.288,-14.1484,0 0/1:71:36,34:36:1281:34:1212:-87.9715,0,-94.0001 0/0:17:17,0:17:597:0:0:0,-5.11751,-52.9287 1/1:78:0,78:0:0:78:2791:-250.956,-23.4803,0 1/1:12:0,12:0:0:12:428:-38.8578,-3.61236,0 0/0:7:7,0:7:234:0:0:0,-2.10721,-21.2194 0/1:12:8,4:8:287:4:144:-9.70002,0,-22.532 0/1:61:38,23:38:1357:23:824:-55.8766,0,-103.657 1/1:61:0,61:0:0:61:2145:-193.203,-18.3628,0 0/1:87:46,41:46:1630:41:1451:-104.652,0,-120.625 0/1:64:27,37:27:950:37:1311:-98.4168,0,-66.531 1/1:51:0,51:0:0:51:1805:-161.708,-15.3525,0 0/1:91:39,52:39:1340:52:1847:-139.101,0,-92.9813 0/1:57:28,29:28:971:29:1040:-76.7413,0,-70.4955 1/1:52:2,50:2:72:50:1743:-150.345,-8.90806,0 1/1:41:0,40:0:0:40:1421:-127.826,-12.0412,0 chr07 24169935 . CGGGGT TGGCGC,CGGCGC 70613.8 PASS AB=0.639767,0.346922;ABP=206.963,247.66;AC=34,8;AF=0.809524,0.190476;AN=42;AO=3170,563;CIGAR=1X2M1X1M1X,3M1X1M1X;DP=3766;DPB=3766;DPRA=2.06573,1.75429;EPP=6843.22,1225.55;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.9,3.38462;MQM=39.9259,28.9343;MQMR=0;NS=21;NUMALT=2;ODDS=31.491;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=109240,19513;QR=0;RO=0;RPL=5,0;RPP=6843.22,1225.55;RPPR=0;RPR=3165,563;RUN=1,1;SAF=0,0;SAP=6886.58,1225.55;SAR=3170,563;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:0,114,0:0:0:114,0:3922,0:-342.854,-34.3174,0,-342.854,-34.3174,-342.854 1/1:69:0,68,0:0:0:68,0:2337,0:-197.703,-20.47,0,-197.703,-20.47,-197.703 1/1:103:0,103,0:0:0:103,0:3525,0:-307.555,-31.0061,0,-307.555,-31.0061,-307.555 1/1:87:0,83,0:0:0:83,0:2879,0:-252.535,-24.9855,0,-252.535,-24.9855,-252.535 1/1:172:0,172,0:0:0:172,0:5905,0:-515.398,-51.7772,0,-515.398,-51.7772,-515.398 1/1:144:0,139,5:0:0:139,5:4795,180:-407.84,-41.8432,0,-393.556,-27.2089,-392.051 1/2:159:0,74,79:0:0:74,79:2565,2760:-352.395,-156.46,-134.184,-195.898,0,-172.117 2/2:89:0,0,89:0:0:0,89:0,3063:-214.683,-214.683,-214.683,-26.7917,-26.7917,0 1/1:291:0,290,0:0:0:290,0:10054,0:-885.906,-87.2987,0,-885.906,-87.2987,-885.906 1/1:500:0,491,8:0:0:491,8:16842,277:-1452.51,-147.806,0,-1435.79,-131.115,-1433.38 1/1:370:0,359,8:0:0:359,8:12477,255:-1054.14,-108.07,0,-1039.09,-93.0241,-1036.69 1/1:289:0,259,28:0:0:259,28:8998,976:-774.511,-77.9668,0,-715.28,-18.7302,-706.851 1/2:180:0,92,86:0:0:92,86:3179,2978:-444.815,-193.493,-165.798,-251.374,0,-225.486 1/1:111:0,109,1:0:0:109,1:3773,36:-330.191,-32.8123,0,-328.03,-30.633,-327.729 1/2:128:0,67,60:0:0:67,60:2343,2064:-318.477,-135.377,-115.208,-183.06,0,-164.998 1/2:107:0,41,65:0:0:41,65:1386,2262:-265.484,-155.455,-143.113,-110.146,0,-90.5789 1/1:82:0,82,0:0:0:82,0:2804,0:-245.838,-24.6845,0,-245.838,-24.6845,-245.838 1/2:537:0,451,80:0:0:451,80:15400,2785:-1366.59,-171.185,-35.4203,-1195.4,0,-1171.32 1/2:91:0,44,47:0:0:44,47:1505,1628:-223.992,-105.784,-92.5386,-118.516,0,-104.368 1/1:83:0,74,7:0:0:74,7:2534,249:-219.121,-22.2762,0,-204.045,-7.23929,-201.938 1/1:59:0,58,0:0:0:58,0:2017,0:-171.007,-17.4597,0,-171.007,-17.4597,-171.007 chr07 24169952 . CCGTGC CTGTGA,TTGTGA 73461.1 PASS AB=0.646523,0.346854;ABP=228.275,249.099;AC=34,8;AF=0.809524,0.190476;AN=42;AO=3195,561;CIGAR=1M1X3M1X,2X3M1X;DP=3776;DPB=3776.5;DPRA=2.07135,1.76545;EPP=6665.7,1212.54;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.25,2.69231;MQM=39.9574,28.7558;MQMR=0;NS=21;NUMALT=2;ODDS=29.5546;PAIRED=0,0;PAIREDR=0;PAO=0,5;PQA=0,165;PQR=0;PRO=0;QA=111618,19542;QR=0;RO=0;RPL=3163,560;RPP=6665.7,1212.54;RPPR=0;RPR=32,1;RUN=1,1;SAF=0,0;SAP=6940.86,1221.21;SAR=3195,561;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:0,111,0:0:0:111,0:3898,0:-338.903,-33.4143,0,-338.903,-33.4143,-338.903 1/1:67:0,67,0:0:0:67,0:2359,0:-197.298,-20.169,0,-197.298,-20.169,-197.298 1/1:105:0,104,0:0:0:104,0:3643,0:-316.608,-31.3071,0,-316.608,-31.3071,-316.608 1/1:88:0,87,0:0:0:87,0:3017,0:-264.523,-26.1896,0,-264.523,-26.1896,-264.523 1/1:172:0,171,0:0:0:171,0:5936,0:-518.615,-51.4761,0,-518.615,-51.4761,-518.615 1/1:144:0,141,2:0:0:141,2:4911,69:-418.238,-42.4452,0,-412.928,-37.0874,-412.326 1/2:161:0,77,79:0:0:77,79:2694,2777:-361.321,-156.831,-133.652,-204.428,0,-180.647 2/2:89:0,0,87:0:0:0,87:0,3011:-211.076,-211.076,-211.076,-26.1896,-26.1896,0 1/1:292:0,290,0:0:0:290,0:10141,0:-892.043,-87.2987,0,-892.043,-87.2987,-892.043 1/1:503:0,493,9:0:0:493,9:17180,324:-1477.67,-148.408,0,-1458.54,-129.267,-1455.83 1/1:373:0,365,8:0:0:365,8:12806,273:-1076.17,-109.876,0,-1060.39,-93.842,-1057.98 1/1:288:0,259,28:0:0:259,28:9124,956:-783.354,-77.9668,0,-724.465,-19.0547,-716.037 1/2:182:0,95,87:0:0:95,87:3289,2989:-454.649,-195.953,-167.355,-259.004,0,-232.815 1/1:112:0,110,1:0:0:110,1:3816,35:-333.369,-33.1133,0,-331.221,-30.9705,-330.92 1/2:130:0,68,61:0:0:68,61:2381,2131:-325.349,-138.887,-118.417,-186.482,0,-168.119 1/2:106:0,40,66:0:0:40,66:1389,2325:-268.676,-158.422,-146.381,-110.22,0,-90.3517 1/1:82:0,82,0:0:0:82,0:2838,0:-248.633,-24.6845,0,-248.633,-24.6845,-248.633 1/2:538:0,457,79:0:0:457,79:16028,2789:-1410.66,-169.513,-31.9423,-1241.17,0,-1217.39 1/2:91:0,44,47:0:0:44,47:1498,1620:-223.63,-106.112,-92.8669,-117.825,0,-103.677 1/1:83:0,75,7:0:0:75,7:2613,243:-225.881,-22.5773,0,-210.92,-7.64111,-208.813 1/1:59:0,59,0:0:0:59,0:2057,0:-174.359,-17.7608,0,-174.359,-17.7608,-174.359 chr07 24169963 . C A 4537.85 PASS AB=0.348896;ABP=236.63;AC=8;AF=0.190476;AN=42;AO=550;CIGAR=1X;DP=3684;DPB=3684;DPRA=1.76869;EPP=1197.32;EPPR=6726.11;GTI=1;LEN=1;MEANALT=1.16667;MQM=28.7236;MQMR=40.0051;NS=21;NUMALT=1;ODDS=29.2489;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19688;QR=111821;RO=3132;RPL=550;RPP=1197.32;RPPR=6726.11;RPR=0;RUN=1;SAF=0;SAP=1197.32;SAR=550;SRF=0;SRP=6804.06;SRR=3132;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:109:109,0:109:3890:0:0:0,-32.8123,-338.648 0/0:64:64,0:64:2291:0:0:0,-19.2659,-191.406 0/0:103:103,0:103:3669:0:0:0,-31.0061,-318.431 0/0:85:85,0:85:3025:0:0:0,-25.5875,-263.888 0/0:167:167,0:167:5968:0:0:0,-50.272,-518.437 0/0:142:142,0:142:5080:0:0:0,-42.7463,-429.834 0/1:158:80,77:80:2864:77:2755:-129.426,0,-195.512 1/1:86:0,86:0:0:86:3075:-210.798,-25.8886,0 0/0:288:288,0:288:10270:0:0:0,-86.6966,-900.938 0/0:490:482,8:482:17161:8:288:0,-127.854,-1449.5 0/0:367:359,8:359:12786:8:288:0,-91.7994,-1051.78 0/0:282:254,28:254:9059:28:1008:0,-16.1457,-706.618 0/1:174:91,83:91:3255:83:2957:-161.973,0,-231.46 0/0:104:102,2:102:3664:2:72:0,-26.1083,-315.03 0/1:128:68,60:68:2427:60:2147:-118.062,0,-171.351 0/1:104:38,66:38:1368:66:2376:-149.191,0,-89.337 0/0:80:80,0:80:2872:0:0:0,-24.0824,-251.254 0/1:525:445,79:445:15897:79:2836:-36.345,0,-1205.64 0/1:89:43,46:43:1544:46:1634:-92.1724,0,-107.388 0/0:80:73,7:73:2620:7:252:0,-6.57071,-207.37 0/0:59:59,0:59:2111:0:0:0,-17.7608,-177.819 chr07 24212237 . GCAT ACAC,GCAC 76621 PASS AB=0.733088,0.263971;ABP=1286.59,1319.19;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3031,734;CIGAR=1X2M1X,3M1X;DP=3781;DPB=3786.75;DPRA=0,0;EPP=6567.38,1570.92;EPPR=7.35324;GTI=5;LEN=4,1;MEANALT=2.66667,2.66667;MQM=59.9367,59.951;MQMR=60;NS=21;NUMALT=2;ODDS=5.66125;PAIRED=0,0;PAIREDR=0;PAO=1,11.5;PQA=36,410;PQR=374;PRO=10.5;QA=106514,26079;QR=70;RO=2;RPL=2,1;RPP=6567.38,1588.2;RPPR=7.35324;RPR=3029,733;RUN=1,1;SAF=0,2;SAP=6584.74,1579.55;SAR=3031,732;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:205:0,198,6:0:0:198,6:6894,207:-620.21,-59.6039,0,-603.394,-42.7068,-601.588 1/1:162:0,157,3:0:0:157,3:5491,104:-494.001,-47.2617,0,-485.548,-38.7746,-484.645 1/2:163:0,144,19:0:0:144,19:5045,680:-466.238,-55.7526,-12.4043,-410.785,0,-405.066 1/2:331:2,176,153:2:70:176,153:6179,5449:-940.703,-438.426,-391.141,-497.187,0,-456.825 1/2:42:0,31,10:0:0:31,10:1108,356:-119.354,-29.0112,-19.6793,-90.3389,0,-87.3286 1/2:112:0,53,59:0:0:53,59:1867,2095:-322.938,-170.94,-154.986,-152.234,0,-134.473 1/1:230:0,227,1:0:0:227,1:7963,36:-716.332,-68.3338,0,-713.405,-65.4042,-713.104 1/2:303:0,242,60:0:0:242,60:8487,2136:-864.665,-174.084,-101.235,-690.576,0,-672.515 1/2:546:0,407,137:0:0:407,137:14360,4853:-1564.44,-395.176,-272.656,-1169.11,0,-1127.87 1/2:49:0,39,9:0:0:39,9:1372,324:-137.987,-26.3284,-14.5883,-111.55,0,-108.84 1/2:10:0,7,3:0:0:7,3:248,108:-29.3169,-9.13196,-7.02475,-20.5056,0,-19.6025 1/2:93:0,81,11:0:0:81,11:2848,392:-263.808,-31.9858,-7.60234,-231.855,0,-228.543 1/2:426:0,324,102:0:0:324,102:11470,3629:-1230.34,-296.05,-198.517,-934.588,0,-903.882 1/2:417:0,308,109:0:0:308,109:10758,3868:-1190.57,-315.501,-222.784,-875.426,0,-842.614 1/1:220:0,217,1:0:0:217,1:7622,36:-685.65,-65.3235,0,-682.713,-62.3961,-682.412 1/1:108:0,105,2:0:0:105,2:3683,72:-331.308,-31.6082,0,-325.433,-25.7403,-324.831 1/2:32:0,24,8:0:0:24,8:852,279:-92.4041,-22.9843,-15.7596,-69.7178,0,-67.3096 1/2:126:0,96,30:0:0:96,30:3374,1059:-361.098,-86.4732,-57.5743,-274.861,0,-265.83 1/2:70:0,62,8:0:0:62,8:2215,288:-204.451,-23.8592,-5.19531,-180.951,0,-178.543 1/1:94:0,92,2:0:0:92,2:3226,72:-290.145,-27.6948,0,-284.27,-21.5203,-283.668 1/1:42:0,41,1:0:0:41,1:1452,36:-130.615,-12.3422,0,-127.677,-9.04499,-127.376 chr07 24238379 . AATACAT AAGACAA,GAGACAA 41713.3 PASS AB=0.485207,0.508876;ABP=3.97397,3.35722;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1548,393;CIGAR=2M1X3M1X,1X1M1X3M1X;DP=1950;DPB=1950;DPRA=0.72381,0.919797;EPP=3364.45,856.399;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.1,2.33333;MQM=59.8947,59.3995;MQMR=0;NS=21;NUMALT=2;ODDS=10.9243;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54293,13693;QR=0;RO=0;RPL=1548,393;RPP=3364.45,856.399;RPPR=0;RPR=0,0;RUN=1,1;SAF=1548,393;SAP=3364.45,856.399;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:0,111,1:0:0:111,1:3900,32:-350.856,-33.4143,0,-348.278,-30.8559,-347.977 1/1:91:0,90,1:0:0:90,1:3152,29:-283.611,-27.0927,0,-281.303,-24.4941,-281.002 1/1:76:0,75,0:0:0:75,0:2647,0:-238.117,-22.5773,0,-238.117,-22.5773,-238.117 1/1:141:0,141,0:0:0:141,0:4962,0:-446.73,-42.4452,0,-446.73,-42.4452,-446.73 1/1:147:0,146,0:0:0:146,0:5153,0:-463.536,-43.9504,0,-463.536,-43.9504,-463.536 1/1:122:0,122,0:0:0:122,0:4297,0:-386.896,-36.7257,0,-386.896,-36.7257,-386.896 1/2:111:0,45,66:0:0:45,66:1564,2296:-314.133,-187,-173.454,-127.48,0,-107.612 2/2:126:0,0,126:0:0:0,126:0,4397:-395.862,-395.862,-395.862,-37.9298,-37.9298,0 1/1:258:0,254,1:0:0:254,1:8886,36:-798.992,-76.4616,0,-796.054,-73.5117,-795.753 1/1:9:0,9,0:0:0:9,0:309,0:-28.1419,-2.70927,0,-28.1419,-2.70927,-28.1419 1/2:16:0,10,6:0:0:10,6:346,208:-45.3691,-17.2529,-14.2426,-28.4624,0,-26.6563 1/2:53:0,15,37:0:0:15,37:531,1310:-149.842,-106.588,-102.073,-43.2478,0,-32.1097 1/2:70:0,38,32:0:0:38,32:1341,1131:-201.615,-92.4205,-80.9813,-109.547,0,-99.9144 1/1:123:0,122,1:0:0:122,1:4210,36:-378.575,-36.7257,0,-375.637,-33.4284,-375.336 1/2:115:0,65,50:0:0:65,50:2286,1749:-328.704,-142.624,-123.057,-186.43,0,-171.378 1/2:68:0,37,30:0:0:37,30:1315,1021:-189.968,-82.8026,-71.6645,-107.163,0,-98.132 1/1:96:0,96,0:0:0:96,0:3342,0:-300.998,-28.8989,0,-300.998,-28.8989,-300.998 1/2:36:0,15,21:0:0:15,21:531,729:-102.848,-59.5915,-55.0761,-43.6072,0,-37.2855 1/2:38:0,21,16:0:0:21,16:735,542:-103.697,-43.8907,-37.5691,-59.7913,0,-54.9748 1/1:110:0,106,4:0:0:106,4:3726,142:-335.194,-31.9092,0,-323.646,-20.007,-322.442 1/1:31:0,30,1:0:0:30,1:1060,35:-95.3618,-9.0309,0,-92.5141,-5.8333,-92.2131 chr07 24338537 . TG TA 46428.9 PASS AB=0.487636;ABP=4.3527;AC=32;AF=0.761905;AN=42;AO=2136;CIGAR=1M1X;DP=2801;DPB=2801.5;DPRA=1.03566;EPP=4554.82;EPPR=1438.35;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9714;MQMR=59.9697;NS=21;NUMALT=1;ODDS=15.8652;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=76351;QR=22579;RO=661;RPL=2126;RPP=4554.82;RPPR=1429.68;RPR=10;RUN=1;SAF=2136;SAP=4641.28;SAR=0;SRF=660;SRP=1429.68;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:143:6,135:6:203:135:4827:-415.992,-24.1581,0 1/1:112:0,112:0:0:112:3991:-359.381,-33.7154,0 1/1:170:0,170:0:0:170:6099:-549.009,-51.1751,0 1/1:121:0,121:0:0:121:4299:-387.086,-36.4246,0 1/1:244:3,241:3:94:241:8624:-767.38,-64.6807,0 1/1:107:0,107:0:0:107:3827:-344.624,-32.2102,0 0/1:140:69,71:69:2299:71:2536:-186.347,0,-165.019 0/0:129:129,0:129:4446:0:0:0,-38.8329,-400.32 1/1:243:2,241:2:72:241:8605:-767.608,-66.3136,0 1/1:19:1,18:1:36:18:648:-55.0536,-2.1213,0 0/1:18:13,5:13:445:5:180:-11.1335,0,-34.9568 0/1:38:20,18:20:680:18:648:-47.2127,0,-50.0769 0/1:178:107,71:107:3663:71:2552:-176.287,0,-276.239 1/1:161:0,160:0:0:160:5728:-515.344,-48.1648,0 0/1:310:150,159:150:5194:159:5701:-419.928,0,-374.33 0/1:69:45,24:45:1553:24:845:-55.596,0,-119.231 1/1:103:0,103:0:0:103:3659:-329.483,-31.0061,0 0/1:173:89,84:89:2953:84:2999:-218.058,0,-213.926 0/1:85:24,61:24:848:61:2180:-170.876,0,-51.0525 1/1:184:3,181:3:93:181:6480:-574.608,-46.7122,0 1/1:54:0,54:0:0:54:1923:-173.344,-16.2556,0 chr07 24338559 . A G 38841.7 PASS AB=0.517812;ABP=5.17625;AC=32;AF=0.761905;AN=42;AO=1798;CIGAR=1X;DP=2283;DPB=2283;DPRA=1.0476;EPP=3907.32;EPPR=1056.17;GTI=0;LEN=1;MEANALT=1;MQM=59.9633;MQMR=60;NS=21;NUMALT=1;ODDS=19.3733;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63306;QR=17272;RO=485;RPL=14;RPP=3786.66;RPPR=1047.51;RPR=1784;RUN=1;SAF=14;SAP=3786.66;SAR=1784;SRF=1;SRP=1047.51;SRR=484;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:146:1,145:1:36:145:5119:-457.252,-40.3521,0 1/1:76:0,76:0:0:76:2696:-242.883,-22.8783,0 1/1:85:0,85:0:0:85:3003:-270.501,-25.5876,0 1/1:204:0,204:0:0:204:7150:-643.561,-61.4101,0 1/1:257:0,257:0:0:257:9059:-815.208,-77.3647,0 1/1:99:0,99:0:0:99:3493:-314.581,-29.802,0 0/1:127:63,64:63:2228:64:2260:-165.43,0,-162.551 0/0:104:104,0:104:3732:0:0:0,-31.3071,-336.08 1/1:165:0,165:0:0:165:5790:-521.214,-49.67,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/1:25:9,16:9:309:16:572:-44.2877,0,-20.615 0/1:212:101,111:101:3606:111:3932:-290.253,0,-260.927 1/1:135:0,135:0:0:135:4761:-428.647,-40.6391,0 0/1:190:93,97:93:3313:97:3426:-251.358,0,-241.192 0/1:71:39,32:39:1377:32:1140:-81.5361,0,-102.854 1/1:70:0,70:0:0:70:2443:-220.124,-21.0721,0 0/1:74:33,41:33:1168:41:1419:-105.725,0,-83.151 0/1:74:33,41:33:1179:41:1456:-109.06,0,-84.141 1/1:93:1,92:1:36:92:3201:-284.711,-24.3975,0 1/1:55:0,55:0:0:55:1918:-172.893,-16.5567,0 chr07 24357988 . C A 23665.8 PASS AB=0.541601;ABP=12.5859;AC=33;AF=0.785714;AN=42;AO=1514;CIGAR=1X;DP=1911;DPB=1911;DPRA=0.945312;EPP=3264.61;EPPR=821.856;GTI=0;LEN=1;MEANALT=1.2;MQM=30.7021;MQMR=45.9229;NS=21;NUMALT=1;ODDS=12.5679;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53535;QR=13886;RO=389;RPL=3;RPP=3264.61;RPPR=821.856;RPR=1511;RUN=1;SAF=1514;SAP=3290.62;SAR=0;SRF=389;SRP=847.713;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,79:0:0:79:2774:-200.771,-23.7814,0 1/1:89:0,88:0:0:88:3114:-229.105,-26.4906,0 1/1:110:0,109:0:0:109:3833:-281.756,-32.8123,0 1/1:56:0,56:0:0:56:1948:-143.289,-16.8577,0 1/1:161:0,161:0:0:161:5715:-412.573,-48.4658,0 1/1:103:0,103:0:0:103:3609:-272.993,-31.0061,0 0/1:196:100,96:100:3588:96:3406:-194.983,0,-259.76 0/0:96:96,0:96:3421:0:0:0,-28.8989,-304.772 1/1:205:1,202:1:36:202:7143:-514.252,-57.8939,0 1/1:10:0,10:0:0:10:345:-25.6381,-3.0103,0 1/1:6:0,6:0:0:6:201:-15.5491,-1.80618,0 0/1:34:18,16:18:648:16:568:-31.8586,0,-47.8557 0/1:86:31,55:31:1112:55:1927:-117.112,0,-72.3757 1/1:100:0,100:0:0:100:3550:-259.534,-30.103,0 0/1:108:36,72:36:1280:72:2558:-154.082,0,-81.6214 0/1:51:38,13:38:1359:13:468:-18.8259,0,-105.553 1/1:53:0,53:0:0:53:1862:-137.226,-15.9546,0 0/1:79:40,39:40:1416:39:1404:-77.5673,0,-102.674 0/1:83:29,54:29:1026:54:1930:-115.752,0,-66.6503 1/1:138:0,134:0:0:134:4759:-350.746,-40.338,0 1/1:68:0,68:0:0:68:2421:-180.138,-20.47,0 chr07 24415914 . C T 57975.9 PASS AB=0.629139;ABP=156.121;AC=32;AF=0.761905;AN=42;AO=2745;CIGAR=1X;DP=3206;DPB=3206;DPRA=2.45469;EPP=5963.7;EPPR=991.049;GTI=1;LEN=1;MEANALT=1.1;MQM=59.91;MQMR=59.9739;NS=21;NUMALT=1;ODDS=9.66616;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=96063;QR=16045;RO=459;RPL=2745;RPP=5963.7;RPPR=991.049;RPR=0;RUN=1;SAF=2745;SAP=5963.7;SAR=0;SRF=459;SRP=999.716;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:225:0,225:0:0:225:7880:-709.234,-67.7318,0 1/1:130:0,130:0:0:130:4538:-408.588,-39.1339,0 1/1:146:0,146:0:0:146:5158:-464.365,-43.9504,0 1/1:206:0,205:0:0:205:7204:-648.152,-61.7112,0 1/1:371:1,370:1:36:370:12896:-1156.25,-108.084,0 1/1:179:0,178:0:0:178:6232:-560.78,-53.5833,0 0/1:243:89,154:89:3180:154:5409:-413.526,0,-213.274 0/0:64:64,0:64:2261:0:0:0,-19.2659,-203.752 1/1:304:0,304:0:0:304:10705:-963.374,-91.5131,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:7:2,5:2:72:5:176:-14.0778,0,-4.72951 0/1:32:13,19:13:450:19:672:-51.1739,0,-31.1956 0/1:296:84,212:84:2938:212:7427:-579.154,0,-175.546 1/1:211:1,210:1:32:210:7381:-661.139,-60.318,0 0/1:202:82,120:82:2875:120:4212:-318.452,0,-198.175 0/1:79:30,49:30:1043:49:1718:-131.121,0,-70.3947 1/1:106:0,106:0:0:106:3681:-331.498,-31.9092,0 0/1:88:56,32:56:1919:32:1132:-75.6979,0,-146.489 0/1:110:36,74:36:1203:74:2531:-194.931,0,-75.4503 1/1:143:1,142:1:36:142:4927:-439.99,-39.449,0 1/1:50:0,50:0:0:50:1684:-151.84,-15.0515,0 chr07 24415995 . G A 31575 PASS AB=0.537133;ABP=9.94476;AC=32;AF=0.761905;AN=42;AO=1459;CIGAR=1X;DP=1835;DPB=1835;DPRA=0.840777;EPP=3171.19;EPPR=817.312;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9459;MQMR=60;NS=21;NUMALT=1;ODDS=5.74714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51966;QR=13279;RO=375;RPL=0;RPP=3171.19;RPPR=817.312;RPR=1459;RUN=1;SAF=0;SAP=3171.19;SAR=1459;SRF=0;SRP=817.312;SRR=375;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:1,129:1:36:129:4568:-407.762,-35.8205,0 1/1:79:0,79:0:0:79:2828:-254.759,-23.7814,0 1/1:79:0,79:0:0:79:2823:-254.309,-23.7814,0 1/1:59:0,59:0:0:59:2105:-189.689,-17.7608,0 1/1:230:0,230:0:0:230:8164:-734.776,-69.2369,0 1/1:95:1,94:1:36:94:3363:-299.283,-24.9996,0 0/1:100:59,41:59:2084:41:1455:-101.142,0,-157.725 0/0:103:103,0:103:3637:0:0:0,-31.0061,-327.535 1/1:176:1,175:1:32:175:6263:-560.564,-49.782,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:17:10,7:10:351:7:252:-17.9114,0,-26.8092 0/1:12:4,8:4:144:8:288:-22.655,0,-9.70126 0/1:77:24,53:24:846:53:1887:-146.928,0,-53.2785 1/1:73:0,73:0:0:73:2597:-233.977,-21.9752,0 0/1:105:52,53:52:1872:53:1900:-139.67,0,-137.151 0/1:44:26,18:26:928:18:648:-45.4066,0,-70.5929 1/1:68:0,68:0:0:68:2427:-218.613,-20.47,0 0/1:176:79,97:79:2782:97:3420:-255.032,0,-197.638 0/1:48:14,34:14:495:34:1212:-94.9369,0,-30.4336 1/1:97:1,96:1:36:96:3406:-303.128,-25.6016,0 1/1:53:0,53:0:0:53:1896:-170.91,-15.9546,0 chr07 24416010 . A G 31788.7 PASS AB=0.543403;ABP=12.4351;AC=32;AF=0.761905;AN=42;AO=1472;CIGAR=1X;DP=1843;DPB=1843;DPRA=0.853431;EPP=3190.74;EPPR=797.793;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9049;MQMR=60;NS=21;NUMALT=1;ODDS=0.647306;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52291;QR=13243;RO=370;RPL=1471;RPP=3190.74;RPPR=797.793;RPR=1;RUN=1;SAF=0;SAP=3199.42;SAR=1472;SRF=0;SRP=806.455;SRR=370;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:132:1,131:1:36:131:4631:-413.358,-36.1377,0 1/1:80:0,80:0:0:80:2850:-256.737,-24.0824,0 1/1:81:0,81:0:0:81:2841:-255.927,-24.3834,0 1/1:59:0,59:0:0:59:2071:-186.656,-17.7608,0 1/1:235:1,233:1:36:233:8274:-741.051,-67.2026,0 1/1:99:1,98:1:36:98:3495:-311.158,-26.2037,0 0/1:95:56,39:56:2008:39:1394:-97.161,0,-152.395 0/0:102:102,0:102:3648:0:0:0,-30.7051,-328.525 1/1:179:0,179:0:0:179:6347:-571.325,-53.8844,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:17:10,7:10:356:7:252:-17.9114,0,-27.2637 0/1:12:3,9:3:108:9:320:-25.53,0,-6.46281 0/1:77:24,53:24:856:53:1904:-148.458,0,-54.1818 1/1:74:0,74:0:0:74:2634:-237.306,-22.2762,0 0/1:105:52,53:52:1864:53:1888:-138.59,0,-136.431 0/1:43:25,18:25:887:18:648:-45.7076,0,-67.2038 1/1:64:0,64:0:0:64:2267:-204.274,-19.2659,0 0/1:178:79,99:79:2832:99:3513:-262.796,0,-201.535 0/1:49:14,35:14:504:35:1252:-98.2346,0,-30.9476 1/1:94:1,93:1:36:93:3310:-294.493,-24.6985,0 1/1:54:1,53:1:36:53:1896:-167.312,-12.6573,0 chr07 24437429 . T C 17106.3 PASS AB=0.489011;ABP=4.34659;AC=10;AF=0.238095;AN=42;AO=759;CIGAR=1X;DP=3516;DPB=3516;DPRA=1.40308;EPP=235.392;EPPR=311.772;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9868;MQMR=59.9815;NS=21;NUMALT=1;ODDS=16.7273;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26922;QR=97134;RO=2756;RPL=3;RPP=1625.2;RPPR=5883.81;RPR=756;RUN=1;SAF=523;SAP=238.665;SAR=236;SRF=1703;SRP=335.901;SRR=1053;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:175:175,0:175:6216:0:0:0,-52.6802,-559.543 0/0:152:152,0:152:5426:0:0:0,-45.7566,-488.47 0/0:155:154,1:154:5408:1:36:0,-43.0614,-483.265 0/0:212:212,0:212:7439:0:0:0,-63.8184,-669.571 0/0:394:390,4:390:13694:4:135:0,-106.123,-1219.8 0/0:132:132,0:132:4723:0:0:0,-39.736,-425.211 0/1:175:98,77:98:3512:77:2729:-193.159,0,-263.61 1/1:124:1,123:1:36:123:4345:-387.63,-33.7294,0 0/0:356:355,1:355:12375:1:36:0,-103.568,-1110.02 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:11:1,10:1:36:10:356:-29.0699,0,-0.286945 0/1:22:5,17:5:180:17:596:-47.3451,0,-9.9294 0/1:259:124,135:124:4336:135:4812:-355.271,0,-311.97 0/0:203:201,1:201:7035:1:36:0,-57.5145,-629.689 0/1:358:172,186:172:6046:186:6594:-485.779,0,-436.488 0/1:208:114,94:114:3989:94:3331:-237.396,0,-296.593 0/0:154:152,2:152:5305:2:72:0,-39.5219,-470.762 0/1:92:44,48:44:1567:48:1696:-125.231,0,-113.626 0/1:149:93,56:93:3320:56:2008:-136.14,0,-254.166 0/0:76:72,4:72:2584:4:140:0,-9.9337,-219.864 0/0:94:94,0:94:3367:0:0:0,-28.2968,-303.245 chr07 24512072 . C G 6781.13 PASS AB=0.475104;ABP=5.60525;AC=10;AF=0.238095;AN=42;AO=296;CIGAR=1X;DP=1251;DPB=1251;DPRA=1.04163;EPP=34.9662;EPPR=154.522;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9581;NS=21;NUMALT=1;ODDS=8.83888;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10553;QR=33830;RO=954;RPL=294;RPP=628.512;RPPR=2065.92;RPR=2;RUN=1;SAF=113;SAP=38.957;SAR=183;SRF=347;SRP=156.88;SRR=607;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:41,0:41:1453:0:0:0,-12.3422,-131.064 0/0:47:47,0:47:1661:0:0:0,-14.1484,-149.776 0/0:38:37,0:37:1307:0:0:0,-11.1381,-117.571 0/0:65:65,0:65:2317:0:0:0,-19.5669,-208.789 0/0:74:70,4:70:2467:4:144:0,-8.9626,-208.969 0/0:50:49,1:49:1737:1:36:0,-11.4532,-153.014 0/1:51:22,29:22:788:29:1018:-76.5779,0,-55.8923 1/1:62:0,62:0:0:62:2211:-199.254,-18.6639,0 0/0:96:96,0:96:3400:0:0:0,-28.8989,-306.215 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:19:12,7:12:432:7:234:-15.6664,0,-33.5016 0/1:78:37,41:37:1313:41:1472:-109.296,0,-94.9894 0/0:74:74,0:74:2624:0:0:0,-22.2762,-236.406 0/1:67:42,25:42:1483:25:900:-61.152,0,-112.489 0/1:39:17,22:17:608:22:778:-58.6022,0,-43.3119 0/0:50:50,0:50:1784:0:0:0,-15.0515,-160.843 0/1:116:56,60:56:1980:60:2152:-159.028,0,-143.553 0/1:108:66,42:66:2350:42:1500:-102.783,0,-179.247 0/0:41:41,0:41:1455:0:0:0,-12.3422,-131.245 0/0:124:124,0:124:4387:0:0:0,-37.3277,-395.006 chr07 24529569 . C A 5518.06 PASS AB=0.454073;ABP=13.5816;AC=10;AF=0.238095;AN=42;AO=333;CIGAR=1X;DP=2066;DPB=2066;DPRA=0.645695;EPP=726.111;EPPR=3722.87;GTI=1;LEN=1;MEANALT=1;MQM=50.7628;MQMR=59.9873;NS=21;NUMALT=1;ODDS=12.0614;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11934;QR=61788;RO=1733;RPL=0;RPP=726.111;RPPR=3722.87;RPR=333;RUN=1;SAF=333;SAP=726.111;SAR=0;SRF=1733;SRP=3766.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:91,0:91:3236:0:0:0,-27.3937,-291.463 0/0:124:124,0:124:4425:0:0:0,-37.3277,-398.404 0/0:130:130,0:130:4644:0:0:0,-39.1339,-418.124 0/0:188:188,0:188:6708:0:0:0,-56.5936,-603.799 0/0:146:146,0:146:5197:0:0:0,-43.9504,-467.864 0/0:106:105,1:105:3726:1:36:0,-28.3109,-331.945 0/1:147:68,79:68:2401:79:2821:-209.876,0,-172.095 1/1:66:0,66:0:0:66:2372:-211.522,-19.868,0 0/0:166:166,0:166:5939:0:0:0,-49.971,-534.618 0/0:22:22,0:22:784:0:0:0,-6.62266,-70.8839 0/1:4:2,2:2:68:2:72:-5.6326,0,-5.25359 0/1:28:15,13:15:536:13:468:-33.4256,0,-40.146 0/1:121:65,56:65:2324:56:2008:-143.065,0,-172.996 0/0:166:166,0:166:5934:0:0:0,-49.971,-534.165 0/1:87:41,46:41:1459:46:1637:-119.888,0,-105.416 0/1:61:45,16:45:1616:16:576:-33.2371,0,-127.367 0/0:102:102,0:102:3632:0:0:0,-30.7051,-327.087 0/1:78:42,36:42:1496:36:1296:-92.6261,0,-111.454 0/1:51:37,14:37:1308:14:504:-29.5252,0,-102.669 0/0:109:105,4:105:3744:4:144:0,-19.586,-323.935 0/0:73:73,0:73:2611:0:0:0,-21.9752,-235.237 chr07 24529651 . CACT TCCT,CCCT 32283.1 PASS AB=0.545794,0.450467;ABP=12.7555,14.4115;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1183,306;CIGAR=2X2M,1M1X2M;DP=1499;DPB=1498.75;DPRA=1.19917,0.942827;EPP=2563.18,641.679;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.9,2.38462;MQM=59.5004,59.9314;MQMR=0;NS=21;NUMALT=2;ODDS=0.506073;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41785,10934;QR=0;RO=0;RPL=1182,303;RPP=2563.18,641.679;RPPR=0;RPR=1,3;RUN=1,1;SAF=0,0;SAP=2571.86,667.481;SAR=1183,306;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,102,1:0:0:102,1:3598,36:-323.647,-30.7051,0,-320.709,-27.7427,-320.408 1/1:61:0,58,1:0:0:58,1:2067,36:-185.802,-17.4597,0,-182.865,-14.5207,-182.564 1/1:83:0,80,2:0:0:80,2:2842,72:-255.582,-24.0824,0,-249.707,-18.2076,-249.105 1/1:55:0,55,0:0:0:55,0:1953,0:-176.038,-16.5567,0,-176.038,-16.5567,-176.038 1/1:170:0,170,0:0:0:170,0:6026,0:-542.416,-51.1751,0,-542.416,-51.1751,-542.416 1/1:34:0,34,0:0:0:34,0:1222,0:-110.285,-10.235,0,-110.285,-10.235,-110.285 1/2:102:0,66,36:0:0:66,36:2320,1284:-293.772,-105.026,-85.1584,-189.1,0,-178.263 2/2:60:0,0,60:0:0:0,60:0,2133:-192.236,-192.236,-192.236,-18.0618,-18.0618,0 1/1:149:0,149,0:0:0:149,0:5276,0:-474.966,-44.8535,0,-474.966,-44.8535,-474.966 1/1:12:0,12,0:0:0:12,0:413,0:-37.4682,-3.61236,0,-37.4682,-3.61236,-37.4682 1/2:7:0,5,2:0:0:5,2:172,72:-20.1916,-6.23466,-4.72951,-14.3123,0,-13.7102 1/2:25:0,9,16:0:0:9,16:324,576:-73.7907,-47.3585,-44.6492,-26.7919,0,-21.9755 1/2:65:0,26,38:0:0:26,38:877,1364:-182.324,-111.262,-103.435,-71.0491,0,-59.61 1/1:88:0,88,0:0:0:88,0:3090,0:-278.029,-26.4906,0,-278.029,-26.4906,-278.029 1/2:134:0,69,64:0:0:69,64:2441,2281:-384.721,-185.907,-165.136,-198.809,0,-179.543 1/2:63:0,34,29:0:0:34,29:1177,1044:-181.078,-85.5449,-75.3099,-95.8864,0,-87.1565 1/1:47:0,47,0:0:0:47,0:1659,0:-149.588,-14.1484,0,-149.588,-14.1484,-149.588 1/2:75:0,40,35:0:0:40,35:1421,1244:-217.509,-101.724,-89.6828,-116.14,0,-105.604 1/2:64:0,43,21:0:0:43,21:1514,756:-185.245,-62.0432,-49.099,-123.559,0,-117.237 1/1:64:0,59,1:0:0:59,1:2074,36:-186.513,-17.7608,0,-183.576,-14.8233,-183.274 1/1:37:0,37,0:0:0:37,0:1319,0:-118.873,-11.1381,0,-118.873,-11.1381,-118.873 chr07 24600152 . G A 59621.5 PASS AB=0.547923;ABP=27.9857;AC=32;AF=0.761905;AN=42;AO=2747;CIGAR=1X;DP=3639;DPB=3639;DPRA=0.523975;EPP=5924.69;EPPR=1911.82;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9549;MQMR=60;NS=21;NUMALT=1;ODDS=14.5826;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98083;QR=31743;RO=891;RPL=2742;RPP=5924.69;RPPR=1911.82;RPR=5;RUN=1;SAF=0;SAP=5968.05;SAR=2747;SRF=0;SRP=1937.79;SRR=891;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:192:2,189:2:72:189:6723:-598.309,-51.0198,0 1/1:115:0,115:0:0:115:4112:-370.264,-34.6185,0 1/1:183:0,183:0:0:183:6571:-591.468,-55.0885,0 1/1:145:0,145:0:0:145:5196:-467.779,-43.6494,0 1/1:417:2,415:2:72:415:14805:-1325.34,-118.693,0 1/1:139:1,138:1:36:138:4918:-439.173,-38.2449,0 0/1:247:109,138:109:3904:138:4937:-370.124,0,-277.199 0/0:317:317,0:317:11302:0:0:0,-95.4265,-1017.07 1/1:306:0,306:0:0:306:10942:-984.592,-92.1152,0 1/1:35:1,34:1:36:34:1200:-104.705,-6.93778,0 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 0/1:49:21,28:21:752:28:1004:-75.9254,0,-53.2558 0/1:110:51,59:51:1824:59:2092:-155.434,0,-131.328 1/1:169:0,169:0:0:169:5997:-539.675,-50.8741,0 0/1:445:188,257:188:6669:257:9175:-691.764,0,-466.335 0/1:138:66,72:66:2338:72:2582:-190.816,0,-169.137 1/1:147:0,147:0:0:147:5251:-472.727,-44.2514,0 0/1:183:106,77:106:3787:77:2747:-192.384,0,-285.94 0/1:71:19,52:19:667:52:1864:-146.666,0,-38.9815 1/1:152:1,151:1:36:151:5404:-482.891,-42.1583,0 1/1:70:1,69:1:36:69:2455:-217.606,-17.4738,0 chr07 24600845 . C T 7962.74 PASS AB=0.468795;ABP=8.83766;AC=10;AF=0.238095;AN=42;AO=444;CIGAR=1X;DP=2135;DPB=2135;DPRA=0.939082;EPP=967.144;EPPR=3668.46;GTI=1;LEN=1;MEANALT=1.25;MQM=59.982;MQMR=59.9591;NS=21;NUMALT=1;ODDS=6.40892;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15947;QR=60434;RO=1688;RPL=0;RPP=967.144;RPPR=3668.46;RPR=444;RUN=1;SAF=444;SAP=967.144;SAR=0;SRF=1688;SRP=3668.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:150:150,0:150:5384:0:0:0,-45.1545,-484.661 0/0:126:126,0:126:4508:0:0:0,-37.9298,-404.869 0/0:210:207,2:207:7412:2:72:0,-56.4384,-660.289 0/0:121:120,1:120:4296:1:36:0,-32.8264,-383.219 0/0:148:148,0:148:5289:0:0:0,-44.5524,-476.144 0/1:175:97,77:97:3457:77:2759:-195.852,0,-258.642 1/1:115:0,115:0:0:115:4132:-372.062,-34.6185,0 0/0:169:169,0:169:6052:0:0:0,-50.8741,-544.776 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:17:8,9:8:288:9:324:-24.3883,0,-21.1499 0/1:158:73,84:73:2624:84:3016:-224.179,0,-188.918 0/0:144:144,0:144:5164:0:0:0,-43.3483,-464.9 0/1:127:58,69:58:2084:69:2476:-184.863,0,-149.599 0/1:109:58,51:58:2068:51:1836:-132.708,0,-153.579 0/0:102:102,0:102:3656:0:0:0,-30.7051,-329.235 0/1:52:31,21:31:1108:21:756:-52.7137,0,-84.3774 0/1:45:34,11:34:1216:11:396:-22.4364,0,-96.2002 0/0:52:49,3:49:1752:3:108:0,-5.57839,-147.889 0/0:57:57,0:57:2036:0:0:0,-17.1587,-183.512 chr07 24600874 . C T 36218 PASS AB=0.527007;ABP=7.35007;AC=32;AF=0.761905;AN=42;AO=1668;CIGAR=1X;DP=2115;DPB=2115;DPRA=0.869565;EPP=3607.68;EPPR=969.316;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9466;MQMR=59.9371;NS=21;NUMALT=1;ODDS=6.61803;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59477;QR=15850;RO=445;RPL=1666;RPP=3607.68;RPPR=969.316;RPR=2;RUN=1;SAF=1668;SAP=3625.03;SAR=0;SRF=445;SRP=969.316;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:1,38:1:36:38:1352:-118.382,-8.1419,0 1/1:151:0,151:0:0:151:5378:-484.151,-45.4555,0 1/1:125:0,125:0:0:125:4462:-401.479,-37.6288,0 1/1:206:2,204:2:72:204:7265:-647.066,-55.1755,0 1/1:118:1,116:1:36:116:4156:-370.624,-31.9821,0 1/1:150:0,150:0:0:150:5366:-483.07,-45.1545,0 0/1:177:78,99:78:2779:99:3516:-262.263,0,-197.069 0/0:115:115,0:115:4116:0:0:0,-34.6184,-370.625 1/1:163:0,163:0:0:163:5825:-524.362,-49.0679,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 0/1:6:1,5:1:32:5:180:-14.7459,0,-1.39313 0/1:17:9,8:9:315:8:279:-20.33,0,-23.5697 0/1:153:84,69:84:2991:69:2472:-176.676,0,-222.875 1/1:145:0,145:0:0:145:5154:-464.004,-43.6494,0 0/1:127:68,59:68:2419:59:2099:-150.948,0,-179.735 0/1:108:51,57:51:1824:57:2034:-150.821,0,-131.93 1/1:100:0,99:0:0:99:3542:-318.62,-29.802,0 0/1:52:22,30:22:766:30:1049:-79.0646,0,-53.6049 0/1:45:11,34:11:396:34:1224:-96.9207,0,-22.4364 1/1:48:2,46:2:68:46:1647:-142.06,-7.99173,0 1/1:57:0,57:0:0:57:2013:-181.441,-17.1587,0 chr07 24600971 . T C 8150.33 PASS AB=0.584639;ABP=42.7094;AC=9;AF=0.214286;AN=42;AO=454;CIGAR=1X;DP=1854;DPB=1854;DPRA=1.13885;EPP=988.859;EPPR=3043.07;GTI=0;LEN=1;MEANALT=1;MQM=59.5793;MQMR=59.9329;NS=21;NUMALT=1;ODDS=2.4666;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16197;QR=49792;RO=1400;RPL=454;RPP=988.859;RPPR=3043.07;RPR=0;RUN=1;SAF=0;SAP=988.859;SAR=454;SRF=0;SRP=3043.07;SRR=1400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:121:120,1:120:4235:1:36:0,-32.8264,-377.409 0/0:97:97,0:97:3446:0:0:0,-29.1999,-310.351 0/0:67:67,0:67:2378:0:0:0,-20.169,-214.275 0/0:58:58,0:58:2065:0:0:0,-17.4597,-186.119 0/0:223:223,0:223:7966:0:0:0,-67.1297,-716.961 0/0:47:47,0:47:1658:0:0:0,-14.1484,-149.504 0/1:138:53,85:53:1888:85:3043:-232.493,0,-128.656 1/1:71:0,71:0:0:71:2512:-226.296,-21.3731,0 0/0:114:114,0:114:4057:0:0:0,-34.3174,-365.318 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:20:10,10:10:345:10:360:-26.7203,0,-25.3602 0/1:116:36,80:36:1251:80:2842:-221.092,0,-77.9665 0/0:109:108,1:108:3846:1:36:0,-29.2191,-342.11 0/1:164:73,91:73:2601:91:3248:-243.15,0,-184.968 0/1:91:29,62:29:1044:62:2220:-172.665,0,-66.8811 0/0:141:141,0:141:5041:0:0:0,-42.4452,-453.835 0/1:45:24,21:24:864:21:752:-54.4243,0,-64.5362 0/1:64:40,24:40:1440:24:864:-58.8166,0,-110.632 0/0:92:84,8:84:2988:8:284:0,-1.7914,-243.247 0/0:61:61,0:61:2139:0:0:0,-18.3628,-192.773 chr07 24638302 . A T 16306.5 PASS AB=0.480392;ABP=8.11965;AC=10;AF=0.238095;AN=42;AO=1005;CIGAR=1X;DP=4414;DPB=4414;DPRA=1.02103;EPP=2185.34;EPPR=7405.56;GTI=0;LEN=1;MEANALT=1;MQM=39.8577;MQMR=53.9451;NS=21;NUMALT=1;ODDS=23.5214;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35040;QR=121871;RO=3409;RPL=0;RPP=2185.34;RPPR=7405.56;RPR=1005;RUN=1;SAF=0;SAP=2185.34;SAR=1005;SRF=0;SRP=7405.56;SRR=3409;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:291:291,0:291:10397:0:0:0,-87.5997,-933.794 0/0:200:200,0:200:7152:0:0:0,-60.206,-639.255 0/0:261:261,0:261:9355:0:0:0,-78.5688,-838.073 0/0:261:261,0:261:9359:0:0:0,-78.5688,-839.383 0/0:370:368,2:368:13105:2:68:0,-105.479,-1170.38 0/0:149:149,0:149:5328:0:0:0,-44.8535,-478.054 0/1:293:166,127:166:5934:127:4389:-284.784,0,-442.414 1/1:267:0,267:0:0:267:9330:-801.295,-80.375,0 0/0:351:351,0:351:12539:0:0:0,-105.662,-1125.29 0/0:48:48,0:48:1716:0:0:0,-14.4494,-154.372 0/1:17:9,8:9:320:8:284:-18.5148,0,-23.755 0/1:90:46,44:46:1648:44:1520:-103.878,0,-120.51 0/1:141:62,79:62:2224:79:2752:-197.418,0,-157.743 0/0:242:242,0:242:8680:0:0:0,-72.8493,-777.231 0/1:527:277,250:277:9901:250:8745:-604.172,0,-730.208 0/1:224:112,112:112:3993:112:3905:-273.505,0,-290.921 0/0:226:226,0:226:8075:0:0:0,-68.0328,-724.712 0/1:190:89,101:89:3178:101:3513:-243.471,0,-227.268 0/1:48:34,14:34:1211:14:498:-28.5631,0,-94.5066 0/0:168:167,1:167:5972:1:36:0,-47.1185,-531.785 0/0:50:50,0:50:1784:0:0:0,-15.0515,-160.251 chr07 24638320 . GAC AAA,AGA 95536.8 PASS AB=0.511097,0.487635;ABP=4.69708,5.10466;AC=32,10;AF=0.761905,0.238095;AN=42;AO=3464,1042;CIGAR=1X1M1X,3X;DP=4516;DPB=4516;DPRA=0.777106,1.03662;EPP=7421.12,2265.68;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.8,2.27273;MQM=53.8741,39.9107;MQMR=0;NS=21;NUMALT=2;ODDS=23.7624;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=121626,36425;QR=0;RO=0;RPL=12,0;RPP=7421.12,2265.68;RPPR=0;RPR=3452,1042;RUN=1,1;SAF=0,0;SAP=7524.99,2265.68;SAR=3464,1042;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:296:0,296,0:0:0:296,0:10333,0:-928.166,-89.1049,0,-928.166,-89.1049,-928.166 1/1:205:0,204,0:0:0:204,0:7204,0:-644.528,-61.4101,0,-644.528,-61.4101,-644.528 1/1:261:0,261,0:0:0:261,0:9202,0:-825.251,-78.5688,0,-825.251,-78.5688,-825.251 1/1:262:0,261,0:0:0:261,0:9193,0:-824.696,-78.5688,0,-824.696,-78.5688,-824.696 1/1:384:0,382,2:0:0:382,2:13283,60:-1191.85,-114.993,0,-1187.2,-110.058,-1186.6 1/1:152:0,152,0:0:0:152,0:5350,0:-480.082,-45.7566,0,-480.082,-45.7566,-480.082 1/2:302:0,168,133:0:0:168,133:5870,4624:-825.842,-351.779,-301.206,-474.153,0,-434.116 2/2:273:0,0,270:0:0:0,270:0,9363:-807.275,-807.275,-807.275,-81.2781,-81.2781,0 1/1:356:0,353,0:0:0:353,0:12424,0:-1114.97,-106.264,0,-1114.97,-106.264,-1114.97 1/1:48:0,48,0:0:0:48,0:1711,0:-154.028,-14.4494,0,-154.028,-14.4494,-154.028 1/2:16:0,9,7:0:0:9,7:309,252:-44.3239,-19.4924,-16.7832,-25.1701,0,-23.0629 1/2:95:0,48,47:0:0:48,47:1702,1656:-265.32,-127.677,-113.227,-137.987,0,-123.839 1/2:149:0,62,87:0:0:62,87:2174,3046:-415.996,-239.272,-220.608,-177.07,0,-150.88 1/1:246:0,246,0:0:0:246,0:8539,0:-765.543,-74.0534,0,-765.543,-74.0534,-765.543 1/2:545:0,281,264:0:0:281,264:9918,9327:-1538.47,-732.844,-648.255,-805.972,0,-726.501 1/2:231:0,114,116:0:0:114,116:4019,4066:-645.483,-319.262,-284.945,-326.234,0,-291.314 1/1:233:0,233,0:0:0:233,0:8202,0:-736.314,-70.14,0,-736.314,-70.14,-736.314 1/2:191:0,90,101:0:0:90,101:3178,3503:-527.476,-269.819,-242.726,-257.998,0,-227.594 1/2:48:0,34,14:0:0:34,14:1194,492:-135.224,-38.369,-28.134,-97.1944,0,-92.98 1/1:172:0,171,1:0:0:171,1:6011,36:-539.021,-51.4761,0,-536.213,-48.3227,-535.912 1/1:51:0,51,0:0:0:51,0:1810,0:-162.589,-15.3525,0,-162.589,-15.3525,-162.589 chr07 24638332 . T C 72623.9 PASS AB=0.507292;ABP=3.73871;AC=32;AF=0.761905;AN=42;AO=3397;CIGAR=1X;DP=4453;DPB=4453;DPRA=0.765568;EPP=7353.47;EPPR=2203.54;GTI=0;LEN=1;MEANALT=1.15;MQM=53.9217;MQMR=40.0817;NS=21;NUMALT=1;ODDS=28.7911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=120536;QR=37581;RO=1053;RPL=3394;RPP=7353.47;RPPR=2203.54;RPR=3;RUN=1;SAF=0;SAP=7379.5;SAR=3397;SRF=0;SRP=2289.57;SRR=1053;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:290:0,290:0:0:290:10340:-928.601,-87.2987,0 1/1:206:0,206:0:0:206:7358:-657.566,-62.0122,0 1/1:260:0,260:0:0:260:9301:-833.729,-78.2678,0 1/1:257:0,257:0:0:257:9121:-818.468,-77.3647,0 1/1:372:2,370:2:72:370:13078:-1167.66,-105.754,0 1/1:151:0,151:0:0:151:5387:-483.161,-45.4555,0 0/1:300:134,166:134:4770:166:5880:-435.301,0,-311.935 0/0:273:273,0:273:9716:0:0:0,-82.1812,-832.97 1/1:349:0,349:0:0:349:12327:-1107.38,-105.059,0 1/1:48:0,48:0:0:48:1709:-153.743,-14.4494,0 0/1:17:8,9:8:284:9:324:-24.1136,0,-18.5148 0/1:95:48,47:48:1708:47:1662:-120.459,0,-117.749 0/1:148:85,63:85:3044:63:2230:-156.199,0,-219.75 1/1:229:0,227:0:0:227:7941:-711.187,-68.3338,0 0/1:546:268,278:268:9582:278:9866:-720.37,0,-668.214 0/1:234:121,113:121:4329:113:4011:-289.583,0,-306.333 1/1:222:0,221:0:0:221:7824:-702.098,-66.5276,0 0/1:191:100,91:100:3572:91:3215:-230.404,0,-247.437 0/1:46:13,33:13:468:33:1188:-93.0406,0,-26.3849 1/1:169:1,168:1:36:168:5982:-533.186,-47.4196,0 1/1:50:0,50:0:0:50:1792:-161.067,-15.0515,0 chr07 24702068 . T A 48911.5 PASS AB=0.641587;ABP=130.295;AC=32;AF=0.761905;AN=42;AO=2237;CIGAR=1X;DP=2564;DPB=2564;DPRA=2.12288;EPP=4860.59;EPPR=704.422;GTI=1;LEN=1;MEANALT=1;MQM=58.5606;MQMR=39.4954;NS=21;NUMALT=1;ODDS=5.46502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80011;QR=11701;RO=327;RPL=2237;RPP=4860.59;RPPR=713.082;RPR=0;RUN=1;SAF=0;SAP=4860.59;SAR=2237;SRF=1;SRP=704.422;SRR=326;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:182:0,182:0:0:182:6520:-586.318,-54.7875,0 1/1:100:2,98:2:72:98:3516:-309.634,-23.2733,0 1/1:120:0,120:0:0:120:4289:-385.902,-36.1236,0 1/1:193:0,193:0:0:193:6921:-622.743,-58.0988,0 1/1:283:1,282:1:36:282:10085:-903.793,-81.7679,0 1/1:157:1,156:1:36:156:5557:-496.647,-43.8072,0 0/1:100:32,68:32:1144:68:2433:-189.012,0,-69.3414 0/0:59:59,0:59:2116:0:0:0,-17.7608,-181.633 1/1:189:0,189:0:0:189:6723:-604.04,-56.8947,0 1/1:10:0,10:0:0:10:360:-32.6537,-3.0103,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.25649 0/1:30:16,14:16:568:14:504:-36.559,0,-40.1189 0/1:149:65,84:65:2324:84:3020:-226.654,0,-154.454 1/1:141:0,141:0:0:141:5050:-454.464,-42.4452,0 0/1:160:53,107:53:1881:107:3817:-294.379,0,-112.872 0/1:86:23,63:23:824:63:2256:-177.198,0,-44.5566 1/1:168:0,168:0:0:168:6008:-540.43,-50.573,0 0/1:74:43,31:43:1548:31:1116:-78.2028,0,-111.148 0/1:128:28,100:28:1008:100:3592:-284.663,0,-48.1132 1/1:138:1,137:1:36:137:4876:-435.223,-38.1185,0 1/1:93:1,92:1:36:92:3296:-293.189,-24.3975,0 chr07 24702078 . G C 4267.16 PASS AB=0.357735;ABP=130.287;AC=10;AF=0.238095;AN=42;AO=321;CIGAR=1X;DP=2551;DPB=2551;DPRA=0.857773;EPP=691.394;EPPR=4843.22;GTI=1;LEN=1;MEANALT=1;MQM=39.3209;MQMR=58.5913;NS=21;NUMALT=1;ODDS=5.35049;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11490;QR=79703;RO=2229;RPL=321;RPP=700.053;RPPR=4843.22;RPR=0;RUN=1;SAF=1;SAP=691.394;SAR=320;SRF=0;SRP=4843.22;SRR=2229;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:185:184,0:184:6534:0:0:0,-55.3895,-587.205 0/0:99:99,0:99:3536:0:0:0,-29.802,-318.272 0/0:120:120,0:120:4296:0:0:0,-36.1236,-386.497 0/0:192:192,0:192:6876:0:0:0,-57.7978,-618.682 0/0:287:286,1:286:10248:1:36:0,-82.972,-918.405 0/0:155:154,1:154:5504:1:36:0,-43.2052,-491.774 0/1:101:69,32:69:2468:32:1125:-67.5247,0,-191.916 1/1:59:0,59:0:0:59:2116:-181.618,-17.7608,0 0/0:185:185,0:185:6640:0:0:0,-55.6905,-597.203 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.4605 0/1:4:2,2:2:72:2:72:-5.25649,0,-5.6326 0/1:30:13,17:13:456:17:597:-42.5166,0,-32.3408 0/1:149:84,65:84:2992:65:2328:-154.779,0,-224.358 0/0:139:139,0:139:4960:0:0:0,-41.8432,-445.843 0/1:160:107,53:107:3809:53:1904:-114.766,0,-294.351 0/1:84:63,21:63:2264:21:756:-39.3187,0,-178.519 0/0:168:168,0:168:6020:0:0:0,-50.573,-541.663 0/1:72:31,41:31:1108:41:1476:-105.499,0,-78.0842 0/1:124:96,28:96:3440:28:1008:-49.3173,0,-272.24 0/0:136:135,1:135:4824:1:36:0,-37.5165,-430.518 0/0:93:93,0:93:3332:0:0:0,-27.9958,-300.026 chr07 24739704 . CGCG AGCG,AGCA 48095.1 PASS AB=0.605087,0.390897;ABP=74.6631,80.2444;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1756,455;CIGAR=1X3M,1X2M1X;DP=2218;DPB=2218;DPRA=0.674837,1.44066;EPP=3816.12,991.03;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=2,2.33333;MQM=59.9328,59.3429;MQMR=60;NS=21;NUMALT=2;ODDS=15.6726;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62569,16057;QR=29;RO=1;RPL=1756,455;RPP=3816.12,991.03;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3816.12,991.03;SAR=1756,455;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:127:0,125,1:0:0:125,1:4449,36:-400.243,-37.6288,0,-397.305,-34.6616,-397.004 1/1:51:0,51,0:0:0:51,0:1813,0:-163.45,-15.3525,0,-163.45,-15.3525,-163.45 1/1:134:1,133,0:1:29:133,0:4769,0:-426.465,-37.4384,0,-426.766,-40.037,-429.074 1/1:104:0,104,0:0:0:104,0:3671,0:-330.578,-31.3071,0,-330.578,-31.3071,-330.578 1/1:208:0,207,1:0:0:207,1:7379,36:-663.771,-62.3132,0,-660.834,-59.016,-660.533 1/1:76:0,74,2:0:0:74,2:2631,71:-236.683,-22.2762,0,-230.897,-16.1362,-230.295 1/2:172:0,111,61:0:0:111,61:3960,2142:-497.208,-174.389,-140.975,-323.172,0,-304.809 2/2:153:0,0,153:0:0:0,153:0,5372:-483.567,-483.567,-483.567,-46.0576,-46.0576,0 1/1:250:0,247,2:0:0:247,2:8778,72:-789.632,-74.3544,0,-783.774,-68.4978,-783.172 1/2:21:0,19,2:0:0:19,2:676,72:-61.3237,-6.23466,-0.515092,-55.4484,0,-54.8464 1/2:7:0,1,6:0:0:1,6:36,216:-20.9135,-17.976,-17.675,-3.29724,0,-1.49106 1/2:38:0,22,16:0:0:22,16:788,570:-111.078,-46.8123,-40.1896,-64.6221,0,-59.8057 1/2:203:0,106,94:0:0:106,94:3785,3359:-582.454,-273.872,-241.963,-308.621,0,-280.324 1/1:111:0,111,0:0:0:111,0:3951,0:-355.782,-33.4143,0,-355.782,-33.4143,-355.782 1/2:162:0,104,58:0:0:104,58:3728,2045:-470.061,-166.001,-134.694,-304.413,0,-286.954 1/2:38:0,21,17:0:0:21,17:752,610:-111.442,-50.1154,-43.7938,-61.6846,0,-56.5671 1/1:41:0,41,0:0:0:41,0:1455,0:-131.245,-12.3422,0,-131.245,-12.3422,-131.245 1/2:45:0,23,22:0:0:23,22:811,752:-127.407,-61.3675,-54.4438,-66.3863,0,-59.7636 1/2:61:0,45,16:0:0:45,16:1603,560:-176.558,-45.8963,-32.3499,-131.013,0,-126.197 1/1:175:0,170,4:0:0:170,4:6070,144:-546.026,-51.1751,0,-534.276,-39.3376,-533.072 1/1:41:0,41,0:0:0:41,0:1464,0:-132.056,-12.3422,0,-132.056,-12.3422,-132.056 chr07 24807166 . G A 7851.27 PASS AB=0.431373;ABP=32.2187;AC=10;AF=0.238095;AN=42;AO=459;CIGAR=1X;DP=2254;DPB=2254;DPRA=1.12158;EPP=999.716;EPPR=3872.62;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9967;NS=21;NUMALT=1;ODDS=16.309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16206;QR=63950;RO=1794;RPL=0;RPP=999.716;RPPR=3889.95;RPR=459;RUN=1;SAF=459;SAP=999.716;SAR=0;SRF=1792;SRP=3881.28;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:111:110,1:110:3921:1:36:0,-29.8161,-349.484 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 0/0:159:158,1:158:5669:1:36:0,-44.2655,-506.727 0/0:172:172,0:172:6116:0:0:0,-51.7772,-550.538 0/0:192:191,1:191:6754:1:36:0,-54.1995,-604.335 0/0:72:72,0:72:2565:0:0:0,-21.6742,-231.099 0/1:135:79,56:79:2821:56:1918:-132.248,0,-213.489 1/1:142:0,141:0:0:141:4957:-446.069,-42.4452,0 0/0:182:182,0:182:6460:0:0:0,-54.7875,-581.486 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:25:13,12:13:464:12:417:-30.3345,0,-34.5718 0/1:87:44,43:44:1580:43:1518:-110.72,0,-116.302 0/0:130:130,0:130:4653:0:0:0,-39.1339,-418.928 0/1:212:129,83:129:4619:83:2956:-202.456,0,-352.054 0/1:58:33,25:33:1158:25:900:-63.8613,0,-87.0628 0/0:75:75,0:75:2673:0:0:0,-22.5772,-240.814 0/1:115:55,60:55:1972:60:2148:-158.969,0,-143.136 0/1:75:52,23:52:1857:23:824:-51.9061,0,-144.83 0/0:167:162,5:162:5774:5:176:0,-34.087,-503.589 0/0:74:72,2:72:2558:2:72:0,-15.4395,-223.633 chr07 24895880 . C T 6325.97 PASS AB=0.481928;ABP=3.48122;AC=32;AF=0.761905;AN=42;AO=306;CIGAR=1X;DP=398;DPB=398;DPRA=3.93;EPP=667.481;EPPR=202.786;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.63883;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10804;QR=3300;RO=92;RPL=306;RPP=667.481;RPPR=202.786;RPR=0;RUN=1;SAF=0;SAP=667.481;SAR=306;SRF=0;SRP=202.786;SRR=92;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:20:1,19:1:32:19:680:-58.3298,-2.82129,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:22:0,22:0:0:22:773:-69.8895,-6.62266,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:16:9,7:9:324:7:244:-17.4829,0,-24.6894 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 1/1:22:0,22:0:0:22:769:-69.5286,-6.62266,0 1/1:86:0,86:0:0:86:3033:-273.199,-25.8886,0 0/1:28:14,14:14:504:14:504:-37.2693,0,-37.2693 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:15:11,4:11:396:4:129:-7.41221,0,-31.4673 0/1:13:7,6:7:252:6:208:-15.1457,0,-19.1156 1/1:15:0,15:0:0:15:510:-46.2196,-4.51545,0 0/1:74:35,39:35:1256:39:1389:-103.031,0,-91.0691 0/1:6:3,3:3:104:3:108:-8.26899,0,-7.89663 1/1:10:0,10:0:0:10:341:-31.0178,-3.0103,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 chr07 24935425 . TTGA TTGG 24866.3 PASS AB=0.555012;ABP=13.7615;AC=31;AF=0.738095;AN=42;AO=1135;CIGAR=3M1X;DP=1429;DPB=1429;DPRA=0.702105;EPP=2398.63;EPPR=611.143;GTI=1;LEN=1;MEANALT=1.25;MQM=59.9718;MQMR=59.9028;NS=21;NUMALT=1;ODDS=6.73776;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40478;QR=10157;RO=288;RPL=1127;RPP=2398.63;RPPR=611.143;RPR=8;RUN=1;SAF=0;SAP=2467.63;SAR=1135;SRF=0;SRP=628.394;SRR=288;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:1,93:1:36:93:3272:-291.103,-24.6985,0 1/1:60:0,59:0:0:59:2104:-189.287,-17.7608,0 1/1:56:3,52:3:108:52:1856:-157.241,-6.84131,0 1/1:44:0,44:0:0:44:1552:-139.97,-13.2453,0 1/1:169:0,169:0:0:169:6055:-545.052,-50.8741,0 1/1:60:4,55:4:134:55:1976:-165.719,-5.72492,0 0/1:76:34,42:34:1200:42:1495:-111.966,0,-85.4267 0/0:95:95,0:95:3358:0:0:0,-28.5978,-302.433 1/1:167:2,163:2:70:163:5808:-516.205,-43.35,0 0/1:34:11,23:11:384:23:824:-64.2483,0,-24.6586 0/1:9:2,7:2:72:7:252:-20.3197,0,-4.12745 0/1:28:19,9:19:658:9:320:-20.7135,0,-51.1124 0/1:32:11,21:11:396:21:756:-58.7343,0,-26.3498 1/1:100:0,100:0:0:100:3547:-319.438,-30.103,0 0/1:112:55,57:55:1940:57:2032:-149.437,0,-141.159 0/1:57:26,31:26:917:31:1108:-82.8723,0,-65.6786 1/1:89:2,87:2:66:87:3124:-275.118,-20.5237,0 0/1:36:14,21:14:503:21:748:-56.8544,0,-34.8144 0/1:25:9,16:9:315:16:572:-44.2861,0,-21.1598 1/1:54:0,54:0:0:54:1944:-175.231,-16.2556,0 1/1:32:0,32:0:0:32:1133:-102.276,-9.63296,0 chr07 24970711 . G A 50598.8 PASS AB=0.482826;ABP=10.9165;AC=32;AF=0.761905;AN=42;AO=2689;CIGAR=1X;DP=4595;DPB=4595;DPRA=0;EPP=5842.1;EPPR=4139.67;GTI=4;LEN=1;MEANALT=1.04762;MQM=53.0074;MQMR=59.5963;NS=21;NUMALT=1;ODDS=4.09692;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=95331;QR=67350;RO=1905;RPL=0;RPP=5842.1;RPPR=4139.67;RPR=2689;RUN=1;SAF=0;SAP=5842.1;SAR=2689;SRF=0;SRP=4139.67;SRR=1905;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:1,77:1:36:77:2732:-242.072,-19.8821,0 1/1:42:0,42:0:0:42:1503:-134.22,-12.6433,0 1/1:56:0,56:0:0:56:1987:-178.664,-16.8577,0 1/1:29:1,28:1:36:28:995:-86.1775,-5.1316,0 1/1:235:3,232:3:108:232:8242:-729.287,-60.6669,0 1/1:97:1,96:1:36:96:3387:-299.965,-25.6016,0 0/1:94:55,39:55:1972:39:1391:-96.6138,0,-149.447 0/0:299:298,1:298:10563:1:36:0,-86.4148,-946.263 1/1:90:0,90:0:0:90:3180:-285.428,-27.0927,0 1/1:316:6,310:6:216:310:11002:-966.932,-75.3396,0 0/1:929:410,518:410:14423:518:18336:-1361.25,0,-1017.59 0/1:669:364,305:364:12907:305:10853:-771.946,0,-959.998 0/1:91:49,42:49:1735:42:1493:-106.968,0,-129.035 1/1:92:0,92:0:0:92:3267:-292.75,-27.6948,0 0/1:117:56,61:56:2004:61:2157:-158.498,0,-144.635 0/1:32:13,19:13:468:19:684:-52.0872,0,-32.8233 1/1:41:0,41:0:0:41:1442:-129.859,-12.3422,0 0/1:1052:610,442:610:21499:442:15638:-1086.03,0,-1617.41 0/1:102:38,64:38:1347:64:2288:-175.145,0,-90.8127 1/1:74:0,74:0:0:74:2631:-235.797,-22.2762,0 1/1:60:0,60:0:0:60:2087:-187.054,-18.0618,0 chr07 24970786 . A G 17195.2 PASS AB=0.540685;ABP=16.439;AC=33;AF=0.785714;AN=42;AO=1171;CIGAR=1X;DP=1606;DPB=1606;DPRA=0;EPP=34.8332;EPPR=58.0459;GTI=1;LEN=1;MEANALT=1;MQM=23.0102;MQMR=25.177;NS=21;NUMALT=1;ODDS=1.71545;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41413;QR=15482;RO=435;RPL=0;RPP=2545.8;RPPR=930.309;RPR=1171;RUN=1;SAF=520;SAP=34.8332;SAR=651;SRF=167;SRP=53.9326;SRR=268;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,53:0:0:53:1874:-110.352,-15.9546,0 1/1:53:0,53:0:0:53:1883:-107.6,-15.9546,0 1/1:35:0,35:0:0:35:1247:-72.8979,-10.5361,0 1/1:31:0,31:0:0:31:1112:-65.4847,-9.33193,0 1/1:118:2,116:2:72:116:4093:-236.205,-30.9231,0 1/1:43:0,43:0:0:43:1531:-85.7642,-12.9443,0 0/1:82:47,35:47:1671:35:1238:-42.0342,0,-78.2067 0/1:78:61,17:61:2157:17:604:-11.28,0,-110.894 1/1:62:0,62:0:0:62:2202:-126.307,-18.6639,0 1/1:7:0,7:0:0:7:248:-14.6363,-2.10721,0 0/1:14:6,8:6:216:8:269:-10.7341,0,-8.57586 0/1:34:15,19:15:536:19:668:-29.0982,0,-23.012 0/1:84:48,36:48:1707:36:1296:-47.9619,0,-79.9053 1/1:68:1,67:1:36:67:2404:-136.928,-18.1912,0 0/1:126:61,65:61:2160:65:2324:-96.1618,0,-96.818 0/1:48:23,25:23:824:25:896:-36.5567,0,-36.0597 1/1:41:0,41:0:0:41:1450:-85.8196,-12.3422,0 0/1:265:104,161:104:3711:161:5621:-251.349,0,-148.607 0/1:203:64,139:64:2288:139:4898:-226.801,0,-76.9994 1/1:41:2,39:2:68:39:1392:-76.418,-7.69851,0 1/1:120:1,119:1:36:119:4163:-231.833,-32.5253,0 chr07 24970837 . A G 3208.63 PASS AB=0.453473;ABP=17.3568;AC=9;AF=0.214286;AN=42;AO=349;CIGAR=1X;DP=1307;DPB=1307;DPRA=2.41915;EPP=206.849;EPPR=351.316;GTI=1;LEN=1;MEANALT=1;MQM=23.5989;MQMR=23.143;NS=21;NUMALT=1;ODDS=0.911188;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12418;QR=34273;RO=958;RPL=349;RPP=760.854;RPPR=2083.28;RPR=0;RUN=1;SAF=84;SAP=206.849;SAR=265;SRF=283;SRP=351.316;SRR=675;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:52,0:52:1856:0:0:0,-15.6536,-108.023 0/0:20:20,0:20:705:0:0:0,-6.0206,-37.32 0/0:34:34,0:34:1212:0:0:0,-10.235,-70.8178 0/0:30:30,0:30:1076:0:0:0,-9.0309,-63.3548 0/0:120:118,2:118:4224:2:72:0,-31.5252,-241.235 0/0:23:23,0:23:820:0:0:0,-6.92369,-43.3656 0/1:63:33,30:33:1180:30:1072:-41.076,0,-47.0171 0/1:53:15,38:15:540:38:1352:-62.3118,0,-18.7606 0/0:61:61,0:61:2175:0:0:0,-18.3628,-124.325 0/0:5:5,0:5:180:0:0:0,-1.50515,-10.3947 0/1:12:6,6:6:216:6:216:-8.65599,0,-7.68505 0/1:26:17,9:17:612:9:324:-10.5983,0,-29.2905 0/1:85:51,34:51:1832:34:1193:-45.6829,0,-83.5338 0/0:67:66,1:66:2368:1:36:0,-17.8901,-134.773 0/1:128:64,64:64:2292:64:2288:-99.1234,0,-95.9933 0/1:47:27,20:27:968:20:711:-28.5524,0,-42.3899 0/0:39:39,0:39:1388:0:0:0,-11.7402,-81.7161 0/1:152:81,71:81:2912:71:2519:-99.3009,0,-123.64 0/1:197:123,74:123:4385:74:2635:-96.1265,0,-198.551 0/0:24:24,0:24:864:0:0:0,-7.22472,-49.1883 0/0:69:69,0:69:2468:0:0:0,-20.7711,-129.274 chr07 24976178 . C T 1127.73 PASS AB=0.244833;ABP=1070.18;AC=18;AF=0.428571;AN=42;AO=477;CIGAR=1X;DP=2132;DPB=2132;DPRA=0.984951;EPP=1038.8;EPPR=3594.63;GTI=10;LEN=1;MEANALT=1.05;MQM=26.5556;MQMR=27.506;NS=21;NUMALT=1;ODDS=1.24348;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17027;QR=58775;RO=1654;RPL=0;RPP=1038.8;RPPR=3594.63;RPR=477;RUN=1;SAF=477;SAP=1038.8;SAR=0;SRF=1654;SRP=3594.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:106,23:106:3769:23:820:-14.2025,0,-216.293 0/1:35:30,5:30:1064:5:180:-1.64751,0,-65.1753 0/1:53:36,17:36:1272:17:612:-23.2817,0,-72.2098 0/1:65:43,22:43:1519:22:792:-31.3496,0,-83.7294 0/1:339:249,89:249:8846:89:3172:-103.726,0,-505.274 0/1:59:40,19:40:1436:19:668:-27.5478,0,-83.5876 0/1:210:176,34:176:6248:34:1216:-17.8111,0,-360.288 0/0:103:103,0:103:3644:0:0:0,-31.0061,-242.44 0/1:159:102,57:102:3614:57:2018:-88.2522,0,-208.552 0/1:19:14,5:14:496:5:180:-6.46399,0,-29.3003 0/1:9:7,2:7:248:2:72:-2.32307,0,-14.5753 0/0:26:23,3:23:820:3:104:0,-0.473908,-48.932 0/1:177:147,30:147:5236:30:1072:-15.7902,0,-288.804 0/1:102:61,41:61:2184:41:1463:-64.5034,0,-117.562 0/0:116:104,12:104:3707:12:428:0,-7.08027,-217.491 0/1:66:55,11:55:1948:11:392:-6.48556,0,-112.897 0/1:51:37,14:37:1320:14:500:-18.0602,0,-77.5906 0/1:147:117,30:117:4158:30:1080:-27.1939,0,-237.444 0/1:139:113,26:113:4006:26:936:-18.2003,0,-223.899 0/1:75:53,22:53:1880:22:782:-29.8265,0,-107.999 0/1:53:38,15:38:1360:15:540:-19.9849,0,-78.4445 chr07 24976214 . G A 5469 PASS AB=0.548165;ABP=20.5813;AC=10;AF=0.238095;AN=42;AO=587;CIGAR=1X;DP=2095;DPB=2095;DPRA=1.83097;EPP=1277.66;EPPR=3273.25;GTI=0;LEN=1;MEANALT=1.07692;MQM=26.4889;MQMR=27.6541;NS=21;NUMALT=1;ODDS=2.32932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20982;QR=53497;RO=1506;RPL=587;RPP=1277.66;RPPR=3273.25;RPR=0;RUN=1;SAF=587;SAP=1277.66;SAR=0;SRF=1506;SRP=3273.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:125:125,0:125:4438:0:0:0,-37.6287,-301.597 0/0:37:37,0:37:1324:0:0:0,-11.1381,-92.9086 0/0:52:51,1:51:1828:1:36:0,-13.0949,-120.111 0/0:64:64,0:64:2292:0:0:0,-19.2659,-151.899 0/0:338:332,5:332:11789:5:180:0,-90.107,-786.444 0/0:56:55,0:55:1933:0:0:0,-16.5566,-135.622 0/1:203:78,125:78:2769:125:4435:-234.204,0,-130.54 1/1:101:0,101:0:0:101:3610:-238.708,-30.404,0 0/0:154:153,1:153:5468:1:36:0,-43.71,-375.542 0/0:19:19,0:19:668:0:0:0,-5.71957,-46.788 0/1:9:4,5:4:144:5:176:-9.47986,0,-7.40964 0/1:26:12,14:12:424:14:504:-26.1877,0,-21.8519 0/1:177:68,109:68:2417:109:3901:-196.27,0,-108.316 0/0:97:97,0:97:3401:0:0:0,-29.1999,-230.087 0/1:115:53,62:53:1891:62:2224:-108.237,0,-93.4875 0/1:66:29,37:29:1035:37:1328:-68.1371,0,-51.5899 0/0:51:50,1:50:1788:1:36:0,-12.7938,-121.035 0/1:142:76,66:76:2702:66:2372:-114.832,0,-141.496 0/1:134:74,60:74:2626:60:2144:-96.7568,0,-137.085 0/0:76:76,0:76:2716:0:0:0,-22.8783,-185.469 0/0:53:53,0:53:1844:0:0:0,-15.9546,-128.682 chr07 24995588 . TA CG,CA 65995.9 PASS AB=0.527451,0.467647;ABP=9.68651,12.2838;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2619,573;CIGAR=2X,1X1M;DP=3202;DPB=3202;DPRA=1.69022,1.31848;EPP=5690.1,1247.26;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.95,2.33333;MQM=40.6487,53.8237;MQMR=0;NS=21;NUMALT=2;ODDS=2.37298;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=92597,20420;QR=0;RO=0;RPL=2619,573;RPP=5690.1,1247.26;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5690.1,1247.26;SAR=2619,573;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:479:0,475,2:0:0:475,2:16760,72:-1459.37,-142.989,0,-1453.5,-137.084,-1452.9 1/1:118:0,117,0:0:0:117,0:4124,0:-341.794,-35.2205,0,-341.794,-35.2205,-341.794 1/1:127:0,127,0:0:0:127,0:4512,0:-392.263,-38.2308,0,-392.263,-38.2308,-392.263 1/1:186:0,185,0:0:0:185,0:6513,0:-565.79,-55.6906,0,-565.79,-55.6906,-565.79 1/1:300:0,299,1:0:0:299,1:10585,36:-921.003,-90.008,0,-918.068,-86.7133,-917.767 1/1:150:0,149,1:0:0:149,1:5309,36:-445.225,-44.8535,0,-442.295,-41.5653,-441.994 1/2:180:0,102,77:0:0:102,77:3624,2749:-495.458,-222.113,-191.408,-273.35,0,-250.171 2/2:92:0,0,92:0:0:0,92:0,3285:-294.705,-294.705,-294.705,-27.6948,-27.6948,0 1/1:176:0,176,0:0:0:176,0:6239,0:-547.988,-52.9813,0,-547.988,-52.9813,-547.988 1/1:28:0,28,0:0:0:28,0:991,0:-83.8381,-8.42884,0,-83.8381,-8.42884,-83.8381 1/2:12:0,6,6:0:0:6,6:212,216:-34.081,-17.9065,-16.1003,-16.5203,0,-14.7141 1/2:36:0,14,22:0:0:14,22:486,780:-101.026,-63.6502,-59.4358,-37.7151,0,-31.0924 1/2:197:0,116,81:0:0:116,81:4130,2881:-559.457,-234.561,-199.641,-325.246,0,-300.863 1/1:157:0,156,0:0:0:156,0:5458,0:-474.286,-46.9607,0,-474.286,-46.9607,-474.286 1/2:203:0,92,108:0:0:92,108:3258,3868:-570.825,-314.884,-287.189,-255.972,0,-223.461 1/2:153:0,85,68:0:0:85,68:3023,2427:-437.151,-197.664,-172.076,-239.838,0,-219.368 1/1:179:0,179,0:0:0:179,0:6304,0:-550.509,-53.8844,0,-550.509,-53.8844,-550.509 1/2:172:0,75,97:0:0:75,97:2599,3422:-476.934,-277.414,-254.836,-199.859,0,-170.659 1/2:67:0,48,18:0:0:48,18:1713,648:-186.178,-52.7827,-38.3332,-133.428,0,-128.009 1/1:118:0,118,0:0:0:118,0:4195,0:-360.028,-35.5215,0,-360.028,-35.5215,-360.028 1/1:72:0,72,0:0:0:72,0:2562,0:-214.476,-21.6742,0,-214.476,-21.6742,-214.476 chr07 25015265 . 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T A 28499.7 PASS AB=0.451562;ABP=16.0527;AC=32;AF=0.761905;AN=42;AO=1328;CIGAR=1X;DP=1788;DPB=1788;DPRA=0.85303;EPP=2878.05;EPPR=999.716;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9684;MQMR=59.9346;NS=21;NUMALT=1;ODDS=11.6331;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47482;QR=16410;RO=459;RPL=1328;RPP=2886.73;RPPR=999.716;RPR=0;RUN=1;SAF=1;SAP=2878.05;SAR=1327;SRF=0;SRP=999.716;SRR=459;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:3,56:3:108:56:1997:-169.927,-7.6856,0 1/1:80:0,80:0:0:80:2810:-253.136,-24.0824,0 1/1:128:0,128:0:0:128:4593:-413.531,-38.5318,0 1/1:123:0,123:0:0:123:4417:-397.701,-37.0267,0 1/1:167:5,162:5:180:162:5790:-503.641,-33.7199,0 1/1:44:0,44:0:0:44:1572:-141.772,-13.2453,0 0/1:154:88,66:88:3149:66:2355:-165.848,0,-237.275 0/0:99:99,0:99:3515:0:0:0,-29.802,-316.557 1/1:97:0,97:0:0:97:3488:-314.13,-29.1999,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:33:23,10:23:828:10:356:-22.4473,0,-64.9101 0/1:97:51,46:51:1832:46:1618:-116.705,0,-135.334 1/1:101:0,101:0:0:101:3593:-323.574,-30.404,0 0/1:141:75,66:75:2673:66:2372:-171.292,0,-198.369 0/1:88:53,35:53:1893:35:1252:-86.4944,0,-144.156 1/1:103:1,101:1:36:101:3621:-322.497,-27.4666,0 0/1:92:49,43:49:1764:43:1544:-111.558,0,-131.349 0/1:30:10,20:10:360:20:720:-56.0979,0,-23.7134 1/1:68:0,68:0:0:68:2436:-219.495,-20.47,0 1/1:65:0,65:0:0:65:2336:-210.499,-19.567,0 chr07 25045661 . 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C T 2736.09 PASS AB=0.43913;ABP=10.4122;AC=11;AF=0.261905;AN=42;AO=157;CIGAR=1X;DP=668;DPB=668;DPRA=1.36392;EPP=326.781;EPPR=814.525;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.86011;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5614;QR=18252;RO=511;RPL=157;RPP=343.931;RPPR=1112.63;RPR=0;RUN=1;SAF=2;SAP=326.781;SAR=155;SRF=37;SRP=814.525;SRR=474;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1368:1:36:0,-8.14189,-119.823 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:50:47,3:47:1692:3:108:0,-4.97633,-142.492 0/0:24:24,0:24:849:0:0:0,-7.22472,-76.7278 0/1:52:25,27:25:885:27:972:-72.1443,0,-64.313 1/1:46:0,46:0:0:46:1637:-147.617,-13.8474,0 0/0:61:60,1:60:2110:1:36:0,-14.7646,-186.568 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:38:21,17:21:748:17:612:-43.9743,0,-56.2062 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/1:29:20,9:20:720:9:309:-19.4108,0,-56.3989 0/1:21:12,9:12:424:9:324:-23.1842,0,-32.1748 0/0:26:26,0:26:908:0:0:0,-7.82678,-82.0353 0/1:37:19,18:19:684:18:644:-47.1525,0,-50.7522 0/1:48:29,19:29:1040:19:684:-47.4409,0,-79.4649 0/0:50:50,0:50:1800:0:0:0,-15.0515,-162.282 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 chr07 25095737 . AAAT AAAG,AAAC 34758 PASS AB=0.507293,0.489465;ABP=3.29537,3.60508;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1252,357;CIGAR=3M1X,3M1X;DP=1621;DPB=1621.5;DPRA=3.37701,1.3069;EPP=2721.69,778.226;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.84211,2;MQM=59.9856,60;MQMR=60;NS=21;NUMALT=2;ODDS=4.3921;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=44460,12750;QR=36;RO=1;RPL=0,0;RPP=2721.69,778.226;RPPR=5.18177;RPR=1252,357;RUN=1,1;SAF=1252,357;SAP=2721.69,778.226;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:0,89,0:0:0:89,0:3131,0:-281.894,-26.7917,0,-281.894,-26.7917,-281.894 1/1:89:0,89,0:0:0:89,0:3185,0:-286.872,-26.7917,0,-286.872,-26.7917,-286.872 1/1:78:0,76,0:0:0:76,0:2690,0:-241.988,-22.8783,0,-241.988,-22.8783,-241.988 1/1:50:0,50,0:0:0:50,0:1796,0:-161.922,-15.0515,0,-161.922,-15.0515,-161.922 1/1:202:0,198,4:0:0:198,4:7018,144:-631.318,-59.6039,0,-619.568,-47.4944,-618.364 1/1:55:0,55,0:0:0:55,0:1942,0:-175.052,-16.5567,0,-175.052,-16.5567,-175.052 1/2:88:0,50,38:0:0:50,38:1777,1345:-254.714,-109.909,-94.8575,-145.159,0,-133.72 2/2:45:0,0,45:0:0:0,45:0,1608:-145.01,-145.01,-145.01,-13.5464,-13.5464,0 1/1:85:0,80,0:0:0:80,0:2804,0:-252.272,-24.0824,0,-252.272,-24.0824,-252.272 1/1:23:0,23,0:0:0:23,0:824,0:-74.4833,-6.92369,0,-74.4833,-6.92369,-74.4833 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:54:0,29,25:0:0:29,25:1025,896:-156.909,-73.4346,-64.7047,-83.8308,0,-76.3051 1/2:63:0,29,34:0:0:29,34:1029,1220:-183.707,-99.8718,-91.1419,-84.1913,0,-73.9562 1/1:79:0,78,0:0:0:78,0:2773,0:-249.451,-23.4803,0,-249.451,-23.4803,-249.451 1/2:171:0,75,94:0:0:75,94:2654,3360:-490.215,-274.043,-251.466,-216.25,0,-187.953 1/2:63:0,37,26:0:0:37,26:1332,928:-184.698,-76.0115,-64.8734,-109.044,0,-101.217 1/1:67:0,67,0:0:0:67,0:2389,0:-215.266,-20.169,0,-215.266,-20.169,-215.266 1/2:87:0,36,51:0:0:36,51:1273,1824:-252.767,-149.089,-138.251,-104.034,0,-88.6813 1/2:91:0,57,34:0:0:57,34:2033,1209:-264.606,-98.88,-81.7213,-166.082,0,-155.847 1/1:88:1,85,2:1:36:85,2:3044,72:-270.591,-22.6501,0,-265.018,-19.7127,-267.353 1/1:50:0,49,0:0:0:49,0:1741,0:-156.613,-14.7505,0,-156.613,-14.7505,-156.613 chr07 25096067 . G A 5708.54 PASS AB=0.477707;ABP=5.04346;AC=10;AF=0.238095;AN=42;AO=317;CIGAR=1X;DP=1785;DPB=1785;DPRA=0.637611;EPP=691.367;EPPR=3186.39;GTI=1;LEN=1;MEANALT=1;MQM=59.9621;MQMR=59.9864;NS=21;NUMALT=1;ODDS=12.2816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11342;QR=52414;RO=1466;RPL=317;RPP=691.367;RPPR=3186.39;RPR=0;RUN=1;SAF=0;SAP=691.367;SAR=317;SRF=0;SRP=3186.39;SRR=1466;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:115:115,0:115:4128:0:0:0,-34.6184,-371.703 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/0:110:110,0:110:3932:0:0:0,-33.1133,-354.073 0/0:170:170,0:170:6050:0:0:0,-51.1751,-544.604 0/0:157:156,0:156:5572:0:0:0,-46.9607,-501.245 0/0:167:167,0:167:5969:0:0:0,-50.272,-537.316 0/1:97:55,42:55:1972:42:1502:-106.274,0,-148.555 1/1:91:0,91:0:0:91:3248:-292.537,-27.3937,0 0/0:115:114,0:114:4067:0:0:0,-34.3174,-365.967 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/1:6:5,1:5:176:1:36:-1.79209,0,-14.3788 0/1:15:7,8:7:252:8:288:-21.7486,0,-18.5135 0/1:132:68,64:68:2436:64:2292:-166.805,0,-179.759 0/0:120:120,0:120:4292:0:0:0,-36.1236,-386.458 0/1:103:51,52:51:1832:52:1864:-137.033,0,-134.155 0/1:33:13,20:13:468:20:708:-54.1116,0,-32.5257 0/0:67:67,0:67:2392:0:0:0,-20.169,-215.537 0/1:43:19,24:19:684:24:864:-65.1383,0,-48.946 0/1:42:28,14:28:1004:14:504:-33.0548,0,-78.0326 0/0:93:92,1:92:3284:1:36:0,-24.3975,-292.053 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 chr07 25137694 . C G 4935.39 PASS AB=0.609756;ABP=50.2001;AC=10;AF=0.238095;AN=42;AO=308;CIGAR=1X;DP=1473;DPB=1473;DPRA=0.993027;EPP=671.824;EPPR=2526.26;GTI=0;LEN=1;MEANALT=1;MQM=39.3344;MQMR=35.9828;NS=21;NUMALT=1;ODDS=8.00204;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10881;QR=41213;RO=1162;RPL=0;RPP=671.824;RPPR=2526.26;RPR=308;RUN=1;SAF=0;SAP=671.824;SAR=308;SRF=0;SRP=2526.26;SRR=1162;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:101:101,0:101:3611:0:0:0,-30.404,-299.533 0/0:54:54,0:54:1923:0:0:0,-16.2556,-149.5 0/0:44:43,0:43:1517:0:0:0,-12.9443,-127.382 0/0:69:68,0:68:2415:0:0:0,-20.47,-200.942 0/0:186:184,2:184:6537:2:72:0,-49.4867,-535.142 0/0:72:71,0:71:2540:0:0:0,-21.3731,-196.175 0/1:122:45,77:45:1585:77:2688:-198.196,0,-86.9304 1/1:30:0,30:0:0:30:1054:-91.7195,-9.0309,0 0/0:162:162,0:162:5723:0:0:0,-48.7669,-486.606 0/0:12:12,0:12:420:0:0:0,-3.61236,-34.5952 0/1:12:2,10:2:72:10:360:-27.3845,0,-2.32255 0/1:40:13,27:13:468:27:960:-71.409,0,-25.8006 0/1:69:38,31:38:1340:31:1112:-72.274,0,-91.2136 0/0:115:115,0:115:4077:0:0:0,-34.6184,-337.605 0/1:96:33,63:33:1154:63:2219:-159.741,0,-68.286 0/1:86:28,58:28:996:58:2056:-148.343,0,-58.6997 0/0:55:55,0:55:1928:0:0:0,-16.5566,-164.59 0/1:9:5,4:5:180:4:144:-10.0723,0,-11.7539 0/1:17:12,5:12:432:5:180:-10.6595,0,-29.7582 0/0:102:101,1:101:3579:1:36:0,-27.2506,-285.465 0/0:20:20,0:20:716:0:0:0,-6.0206,-56.248 chr07 25137705 . AG CG,CA 28090.8 PASS AB=0.383772,0.614035;ABP=56.5161,54.5161;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1166,315;CIGAR=1X1M,2X;DP=1484;DPB=1484;DPRA=2.19848,0.991037;EPP=2534.95,687.024;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.6,2.09091;MQM=35.9331,39.2889;MQMR=0;NS=21;NUMALT=2;ODDS=5.44945;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40160,11033;QR=0;RO=0;RPL=0,0;RPP=2534.95,687.024;RPPR=0;RPR=1166,315;RUN=1,1;SAF=0,0;SAP=2534.95,687.024;SAR=1166,315;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,103,0:0:0:103,0:3611,0:-302.314,-31.0061,0,-302.314,-31.0061,-302.314 1/1:54:0,54,0:0:0:54,0:1754,0:-143.884,-16.2556,0,-143.884,-16.2556,-143.884 1/1:46:0,46,0:0:0:46,0:1629,0:-136.615,-13.8474,0,-136.615,-13.8474,-136.615 1/1:70:0,70,0:0:0:70,0:2466,0:-206.567,-21.0721,0,-206.567,-21.0721,-206.567 1/1:184:0,182,2:0:0:182,2:6367,70:-532.566,-54.7875,0,-527.134,-49.0204,-526.532 1/1:76:0,76,0:0:0:76,0:2441,0:-199.798,-22.8783,0,-199.798,-22.8783,-199.798 1/2:127:0,47,80:0:0:47,80:1496,2797:-328.597,-220.257,-206.109,-108.648,0,-84.5652 2/2:33:0,0,32:0:0:0,32:0,1112:-96.5069,-96.5069,-96.5069,-9.63296,-9.63296,0 1/1:163:0,163,0:0:0:163,0:5752,0:-491.465,-49.0679,0,-491.465,-49.0679,-491.465 1/1:11:0,11,0:0:0:11,0:375,0:-31.3079,-3.31133,0,-31.3079,-3.31133,-31.3079 1/2:12:0,2,10:0:0:2,10:66,358:-32.631,-27.8412,-27.2392,-5.09619,0,-2.08589 1/2:39:0,12,27:0:0:12,27:417,947:-105.076,-74.3026,-70.6903,-31.0979,0,-22.97 1/2:69:0,38,31:0:0:38,31:1325,1081:-181.517,-81.7772,-70.3381,-100.065,0,-90.7328 1/1:113:0,112,0:0:0:112,0:3885,0:-325.835,-33.7154,0,-325.835,-33.7154,-325.835 1/2:98:0,33,64:0:0:33,64:1163,2232:-258.028,-170.268,-160.334,-87.7544,0,-68.4885 1/2:84:0,26,58:0:0:26,58:913,2058:-227.192,-156.986,-149.159,-70.5394,0,-53.0797 1/1:54:0,54,0:0:0:54,0:1894,0:-162.507,-16.2556,0,-162.507,-16.2556,-162.507 1/2:10:0,5,5:0:0:5,5:176,178:-26.704,-14.2459,-12.7407,-12.7846,0,-11.2795 1/2:17:0,12,5:0:0:12,5:406,164:-43.1529,-12.9298,-9.31741,-30.5368,0,-29.0316 1/1:101:0,100,1:0:0:100,1:3376,36:-278.527,-30.103,0,-275.718,-26.9495,-275.417 1/1:20:0,20,0:0:0:20,0:648,0:-53.5524,-6.0206,0,-53.5524,-6.0206,-53.5524 chr07 25137712 . GAT CGC,CAT 29042 PASS AB=0.386609,0.604752;ABP=54.7176,47.1386;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1195,317;CIGAR=3X,1X2M;DP=1523;DPB=1523;DPRA=2.18971,0.990148;EPP=2597.92,691.367;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.05,2.63636;MQM=35.8762,39.4953;MQMR=0;NS=21;NUMALT=2;ODDS=7.92979;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42029,11240;QR=0;RO=0;RPL=0,0;RPP=2597.92,691.367;RPPR=0;RPR=1195,317;RUN=1,1;SAF=0,0;SAP=2597.92,691.367;SAR=1195,317;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,103,0:0:0:103,0:3665,0:-304.404,-31.0061,0,-304.404,-31.0061,-304.404 1/1:59:0,59,0:0:0:59,0:2056,0:-161.386,-17.7608,0,-161.386,-17.7608,-161.386 1/1:48:0,48,0:0:0:48,0:1659,0:-139.33,-14.4494,0,-139.33,-14.4494,-139.33 1/1:70:0,70,0:0:0:70,0:2479,0:-205.928,-21.0721,0,-205.928,-21.0721,-205.928 1/1:191:0,186,2:0:0:186,2:6560,72:-544.168,-55.9916,0,-538.608,-50.3971,-538.006 1/1:77:0,75,0:0:0:75,0:2650,0:-204.731,-22.5773,0,-204.731,-22.5773,-204.731 1/2:131:0,49,82:0:0:49,82:1698,2940:-349.757,-231.642,-216.891,-118.434,0,-93.7495 2/2:34:0,0,34:0:0:0,34:0,1192:-103.823,-103.823,-103.823,-10.235,-10.235,0 1/1:164:0,164,0:0:0:164,0:5824,0:-494.565,-49.3689,0,-494.565,-49.3689,-494.565 1/1:12:0,12,0:0:0:12,0:406,0:-33.7819,-3.61236,0,-33.7819,-3.61236,-33.7819 1/2:12:0,2,10:0:0:2,10:72,352:-32.7871,-27.771,-27.1689,-5.33285,0,-2.32255 1/2:40:0,13,27:0:0:13,27:437,968:-107.853,-75.8978,-71.9844,-32.2744,0,-24.1466 1/2:68:0,38,28:0:0:38,28:1329,990:-175.831,-76.1028,-64.6637,-99.7954,0,-91.3666 1/1:119:0,119,0:0:0:119,0:4172,0:-346.449,-35.8226,0,-346.449,-35.8226,-346.449 1/2:99:0,33,65:0:0:33,65:1178,2273:-263.177,-174.707,-164.773,-88.5511,0,-68.9842 1/2:86:0,27,58:0:0:27,58:947,2057:-230.2,-158.108,-149.98,-72.0664,0,-54.6067 1/1:57:0,56,0:0:0:56,0:1969,0:-167.972,-16.8577,0,-167.972,-16.8577,-167.972 1/2:10:0,5,5:0:0:5,5:178,180:-26.9226,-14.3855,-12.8804,-12.866,0,-11.3609 1/2:17:0,12,5:0:0:12,5:427,180:-45.0603,-14.2718,-10.6595,-31.1243,0,-29.6191 1/1:106:0,104,1:0:0:104,1:3619,36:-294.007,-31.3071,0,-291.198,-28.4403,-290.897 1/1:20:0,20,0:0:0:20,0:704,0:-55.6843,-6.0206,0,-55.6843,-6.0206,-55.6843 chr07 25145068 . T A 22445.6 PASS AB=0.504032;ABP=3.08035;AC=32;AF=0.761905;AN=42;AO=824;CIGAR=1X;DP=1135;DPB=1135;DPRA=0.895833;EPP=5.38205;EPPR=25.6956;GTI=0;LEN=1;MEANALT=1;MQM=59.9405;MQMR=30.7203;NS=21;NUMALT=1;ODDS=6.01307;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29443;QR=11070;RO=311;RPL=814;RPP=1706.5;RPPR=652.532;RPR=10;RUN=1;SAF=389;SAP=8.58656;SAR=435;SRF=124;SRP=30.7228;SRR=187;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:51:0,51:0:0:51:1819:-163.991,-15.3525,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 1/1:68:3,65:3:104:65:2332:-202.787,-13.1172,0 1/1:30:1,29:1:36:29:1044:-91.618,-6.3823,0 0/1:78:30,48:30:1076:48:1720:-131.605,0,-55.9909 0/0:60:60,0:60:2140:0:0:0,-18.0618,-153.44 1/1:97:0,97:0:0:97:3450:-310.712,-29.1999,0 1/1:9:0,9:0:0:9:316:-28.7789,-2.70927,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-1.44448 0/1:19:10,9:10:356:9:324:-23.7863,0,-21.3604 0/1:56:31,25:31:1080:25:896:-64.1027,0,-63.8191 1/1:46:0,46:0:0:46:1643:-148.156,-13.8474,0 0/1:65:36,29:36:1270:29:1038:-74.167,0,-76.1003 0/1:41:27,14:27:968:14:500:-32.9939,0,-60.1726 1/1:38:0,38:0:0:38:1351:-121.262,-11.4391,0 0/1:121:68,53:68:2420:53:1891:-134.043,0,-133.167 0/1:112:43,69:43:1548:69:2472:-189.016,0,-78.7367 1/1:53:1,52:1:36:52:1872:-165.513,-12.7084,0 1/1:109:0,109:0:0:109:3875:-348.944,-32.8123,0 chr07 25149353 . G A 6228.3 PASS AB=0.492872;ABP=3.227;AC=10;AF=0.238095;AN=42;AO=340;CIGAR=1X;DP=1363;DPB=1363;DPRA=1.3115;EPP=741.311;EPPR=2224.43;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.05574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12211;QR=36511;RO=1023;RPL=0;RPP=741.311;RPPR=2224.43;RPR=340;RUN=1;SAF=340;SAP=741.311;SAR=0;SRF=1023;SRP=2224.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:87:87,0:87:3117:0:0:0,-26.1896,-280.755 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.638 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/0:56:56,0:56:1993:0:0:0,-16.8577,-179.642 0/0:141:140,1:140:4970:1:36:0,-38.847,-443.852 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/1:108:61,47:61:2157:47:1692:-120.056,0,-161.885 1/1:96:0,96:0:0:96:3436:-309.453,-28.8989,0 0/0:66:66,0:66:2376:0:0:0,-19.868,-214.097 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:66:31,35:31:1082:35:1260:-93.8375,0,-77.8167 0/0:69:69,0:69:2464:0:0:0,-20.7711,-222.014 0/1:137:65,72:65:2324:72:2592:-192.287,0,-168.179 0/1:61:35,26:35:1241:26:931:-65.7458,0,-93.6297 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.738 0/1:58:23,35:23:815:35:1256:-95.8855,0,-56.211 0/1:41:26,15:26:927:15:540:-36.5943,0,-71.4051 0/0:77:76,1:76:2713:1:36:0,-19.581,-240.814 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 chr07 25152101 . A G 53432 PASS AB=0.524459;ABP=9.48989;AC=32;AF=0.761905;AN=42;AO=2495;CIGAR=1X;DP=3266;DPB=3266;DPRA=0.927844;EPP=5420.83;EPPR=1666.37;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8337;MQMR=60;NS=21;NUMALT=1;ODDS=16.3265;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89064;QR=27632;RO=770;RPL=0;RPP=5420.83;RPPR=1675.04;RPR=2495;RUN=1;SAF=2495;SAP=5420.83;SAR=0;SRF=769;SRP=1666.37;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,104:0:0:104:3719:-334.909,-31.3071,0 1/1:144:1,143:1:36:143:5132:-458.169,-39.75,0 1/1:212:0,211:0:0:211:7521:-676.54,-63.5173,0 1/1:188:0,188:0:0:188:6699:-602.973,-56.5936,0 1/1:210:2,208:2:68:208:7415:-660.933,-56.7586,0 1/1:151:0,151:0:0:151:5397:-484.931,-45.4555,0 0/1:206:112,94:112:4020:94:3342:-238.972,0,-299.975 0/0:167:167,0:167:5980:0:0:0,-50.272,-538.306 1/1:320:2,318:2:72:318:11382:-1016.2,-89.4929,0 1/1:33:2,31:2:72:31:1101:-92.5616,-3.09727,0 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:32:7,25:7:252:25:881:-69.9729,0,-13.396 0/1:177:60,117:60:2160:117:4200:-324.894,0,-141.384 1/1:133:0,133:0:0:133:4757:-428.224,-40.037,0 0/1:465:233,232:233:8364:232:8279:-605.083,0,-612.784 0/1:102:52,50:52:1868:50:1796:-131.21,0,-137.694 1/1:163:3,160:3:108:160:5705:-503.491,-38.9927,0 0/1:195:107,88:107:3840:88:3148:-224.789,0,-287.095 0/1:62:18,44:18:648:44:1523:-118.692,0,-39.988 1/1:128:0,128:0:0:128:4581:-412.352,-38.5318,0 1/1:66:0,66:0:0:66:2342:-211.034,-19.868,0 chr07 25152113 . ATTTTGGC ATTTTTGGC 49468.6 PASS AB=0.507768;ABP=3.65127;AC=32;AF=0.761905;AN=42;AO=2356;CIGAR=1M1I7M;DP=3152;DPB=3448.25;DPRA=0.888095;EPP=5119;EPPR=1664.23;GTI=0;LEN=1;MEANALT=1.95;MQM=59.9177;MQMR=60;NS=21;NUMALT=1;ODDS=13.5479;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83191;QR=26971;RO=773;RPL=0;RPP=5119;RPPR=1672.88;RPR=2356;RUN=1;SAF=2356;SAP=5119;SAR=0;SRF=772;SRP=1672.88;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,100:0:0:100:3528:-317.442,-30.103,0 1/1:141:1,139:1:35:139:4847:-432.682,-39.0004,0 1/1:212:0,210:0:0:210:7413:-666.874,-63.2163,0 1/1:176:1,173:1:28:173:6113:-547.414,-49.8861,0 1/1:196:2,192:2:59:192:6820:-608.235,-53.1235,0 1/1:147:0,147:0:0:147:5187:-466.96,-44.2514,0 0/1:203:114,85:114:3984:85:3013:-211.136,0,-298.495 0/0:168:168,0:168:5857:0:0:0,-50.573,-527.259 1/1:293:2,290:2:67:290:10243:-915.431,-81.8894,0 1/1:32:2,30:2:65:30:1057:-89.2654,-3.45943,0 0/1:8:4,4:4:144:4:114:-8.13347,0,-10.9054 0/1:33:8,25:8:277:25:892:-70.6657,0,-15.3325 0/1:171:58,111:58:2033:111:3908:-300.695,0,-132.029 1/1:126:0,126:0:0:126:4425:-398.421,-37.9298,0 0/1:454:231,219:231:8058:219:7789:-565.243,0,-589.515 0/1:99:50,49:50:1767:49:1721:-125.371,0,-129.512 1/1:152:4,145:4:143:145:5158:-451.14,-31.9908,0 0/1:193:108,85:108:3771:85:2994:-211.582,0,-281.497 0/1:62:19,43:19:647:43:1502:-116.807,0,-39.8824 1/1:118:1,117:1:36:117:4122:-367.513,-31.9233,0 1/1:66:0,66:0:0:66:2345:-211.304,-19.868,0 chr07 25156746 . G A 54475.7 PASS AB=0.482659;ABP=5.7215;AC=32;AF=0.761905;AN=42;AO=1995;CIGAR=1X;DP=2618;DPB=2618;DPRA=1.58625;EPP=4335.1;EPPR=1351.49;GTI=0;LEN=1;MEANALT=1.05;MQM=59.982;MQMR=60;NS=21;NUMALT=1;ODDS=22.7509;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71105;QR=21816;RO=621;RPL=1026;RPP=6.5467;RPPR=13.5879;RPR=969;RUN=1;SAF=1026;SAP=6.5467;SAR=969;SRF=338;SRP=13.5879;SRR=283;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:0,111:0:0:111:3992:-359.468,-33.4143,0 1/1:171:0,171:0:0:171:6107:-549.73,-51.4761,0 1/1:47:1,46:1:36:46:1639:-144.2,-10.5501,0 1/1:130:0,130:0:0:130:4629:-416.773,-39.1339,0 1/1:216:1,215:1:36:215:7681:-687.723,-61.4242,0 1/1:142:1,141:1:36:141:5003:-446.818,-39.148,0 0/1:186:103,83:103:3650:83:2964:-211.002,0,-272.712 0/0:80:79,0:79:2801:0:0:0,-23.7814,-251.97 1/1:213:1,212:1:36:212:7540:-675.039,-60.5211,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 0/1:13:8,5:8:279:5:180:-12.6387,0,-21.5341 0/1:54:25,29:25:896:29:1044:-78.0192,0,-64.7047 0/1:142:85,57:85:2950:57:2039:-141.035,0,-222.985 1/1:129:2,127:2:72:127:4501:-398.42,-31.9961,0 0/1:178:95,83:95:3329:83:2976:-214.489,0,-246.243 0/1:93:56,37:56:1951:37:1311:-90.2951,0,-147.865 1/1:59:0,59:0:0:59:2107:-189.899,-17.7608,0 0/1:193:98,94:98:3435:94:3363:-244.768,0,-251.246 0/1:179:66,113:66:2309:113:4021:-308.191,0,-154.184 1/1:123:0,123:0:0:123:4348:-391.496,-37.0267,0 1/1:137:0,137:0:0:137:4872:-438.625,-41.2411,0 chr07 25158465 . G A 3376.28 PASS AB=0.37401;ABP=90.0103;AC=9;AF=0.214286;AN=42;AO=337;CIGAR=1X;DP=1825;DPB=1825;DPRA=1.08829;EPP=734.797;EPPR=3234.16;GTI=0;LEN=1;MEANALT=1;MQM=29.0119;MQMR=34.3448;NS=21;NUMALT=1;ODDS=15.7549;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12024;QR=53128;RO=1488;RPL=0;RPP=734.797;RPPR=3234.16;RPR=337;RUN=1;SAF=337;SAP=734.797;SAR=0;SRF=1488;SRP=3234.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:99:99,0:99:3552:0:0:0,-29.802,-285.014 0/0:96:96,0:96:3440:0:0:0,-28.8989,-276.897 0/0:66:66,0:66:2364:0:0:0,-19.868,-190.245 0/0:101:101,0:101:3593:0:0:0,-30.404,-286.921 0/0:217:217,0:217:7733:0:0:0,-65.3235,-623.111 0/0:60:60,0:60:2148:0:0:0,-18.0618,-168.995 0/1:128:84,44:84:3008:44:1553:-75.5223,0,-204.374 1/1:101:0,101:0:0:101:3590:-261.665,-30.404,0 0/0:117:117,0:117:4184:0:0:0,-35.2205,-333.628 0/0:8:8,0:8:288:0:0:0,-2.40824,-23.5852 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.0108 0/1:28:8,20:8:288:20:720:-44.52,0,-15.2681 0/1:91:60,31:60:2152:31:1116:-47.7645,0,-144.947 0/0:119:119,0:119:4233:0:0:0,-35.8226,-338.231 0/1:155:102,53:102:3630:53:1881:-82.1365,0,-242.684 0/1:75:47,28:47:1688:28:1008:-44.662,0,-111.912 0/0:95:95,0:95:3377:0:0:0,-28.5978,-272.363 0/1:86:49,37:49:1743:37:1328:-70.8862,0,-114.469 0/1:68:45,23:45:1594:23:828:-34.976,0,-107.742 0/0:72:72,0:72:2584:0:0:0,-21.6742,-209.077 0/0:39:39,0:39:1385:0:0:0,-11.7402,-110.786 chr07 25158473 . CAACAG CACAG 24941.7 PASS AB=0.613162;ABP=72.3057;AC=33;AF=0.785714;AN=42;AO=1421;CIGAR=1M1D4M;DP=1778;DPB=1539.83;DPRA=0.780841;EPP=3088.67;EPPR=756.511;GTI=0;LEN=1;MEANALT=1.45;MQM=34.4567;MQMR=29.0144;NS=21;NUMALT=1;ODDS=12.6396;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48264;QR=12297;RO=347;RPL=0;RPP=3088.67;RPPR=756.511;RPR=1421;RUN=1;SAF=1421;SAP=3088.67;SAR=0;SRF=347;SRP=756.511;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:0,92:0:0:92:3141:-258.969,-27.6948,0 1/1:88:0,88:0:0:88:3018:-249.029,-26.4906,0 1/1:64:0,64:0:0:64:2181:-180.016,-19.2659,0 1/1:99:0,97:0:0:97:3294:-271.522,-29.1999,0 1/1:213:0,212:0:0:212:7249:-597.799,-63.8184,0 1/1:59:0,59:0:0:59:1965:-161.741,-17.7608,0 0/1:126:45,81:45:1605:81:2773:-190.802,0,-79.4876 0/0:107:107,0:107:3773:0:0:0,-32.2102,-277.12 1/1:111:0,110:0:0:110:3754:-309.484,-33.1133,0 1/1:7:0,7:0:0:7:243:-20.291,-2.10721,0 1/1:4:0,4:0:0:4:134:-11.512,-1.20412,0 0/1:28:20,8:20:708:8:280:-14.9241,0,-44.2418 0/1:90:32,58:32:1133:58:1936:-133.005,0,-50.0905 1/1:112:0,112:0:0:112:3747:-309.817,-33.7154,0 0/1:152:54,98:54:1928:98:3301:-226.012,0,-86.1416 0/1:74:28,45:28:990:45:1512:-102.873,0,-44.8014 1/1:90:0,90:0:0:90:3068:-253.454,-27.0927,0 0/1:84:37,47:37:1311:47:1597:-106.812,0,-71.0595 0/1:69:24,45:24:849:45:1510:-104.373,0,-36.7645 1/1:70:0,69:0:0:69:2377:-196.022,-20.7711,0 1/1:37:0,35:0:0:35:1184:-97.7893,-10.5361,0 chr07 25158482 . GATTGCCC AATCGCCT,AATCACCT 34373.5 PASS AB=0.623437,0.371875;ABP=87.7113,94.2664;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1502,345;CIGAR=1X2M1X3M1X,1X2M2X2M1X;DP=1860;DPB=1860;DPRA=0.819159,1.09063;EPP=3255.88,75.0717;EPPR=0;GTI=0;LEN=8,8;MEANALT=1.95,2.25;MQM=34.3395,28.9449;MQMR=0;NS=21;NUMALT=2;ODDS=15.3429;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52645,12014;QR=0;RO=0;RPL=1501,226;RPP=3255.88,75.0717;RPPR=0;RPR=1,119;RUN=1,1;SAF=1502,345;SAP=3264.56,752.168;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,98,0:0:0:98,0:3431,0:-278.533,-29.5009,0,-278.533,-29.5009,-278.533 1/1:97:0,97,0:0:0:97,0:3409,0:-276.613,-29.1999,0,-276.613,-29.1999,-276.613 1/1:67:0,66,0:0:0:66,0:2314,0:-188.395,-19.868,0,-188.395,-19.868,-188.395 1/1:104:0,104,0:0:0:104,0:3625,0:-291.143,-31.3071,0,-291.143,-31.3071,-291.143 1/1:219:0,219,0:0:0:219,0:7690,0:-623.858,-65.9256,0,-623.858,-65.9256,-623.858 1/1:61:0,61,0:0:0:61,0:2128,0:-169.866,-18.3628,0,-169.866,-18.3628,-169.866 1/2:130:0,85,45:0:0:85,45:3022,1577:-321.14,-103.205,-77.6171,-218.233,0,-204.687 2/2:107:0,0,107:0:0:0,107:0,3684:-274.705,-274.705,-274.705,-32.2102,-32.2102,0 1/1:120:0,115,0:0:0:115,0:4055,0:-326.35,-34.6185,0,-326.35,-34.6185,-326.35 1/1:8:0,8,0:0:0:8,0:279,0:-23.1624,-2.40824,0,-23.1624,-2.40824,-23.1624 1/1:4:0,4,0:0:0:4,0:141,0:-11.8747,-1.20412,0,-11.8747,-1.20412,-11.8747 1/2:28:0,9,19:0:0:9,19:320,657:-66.9255,-43.2655,-40.5563,-23.9723,0,-18.2527 1/2:92:0,60,32:0:0:60,32:2093,1122:-219.13,-67.4118,-49.35,-152.001,0,-142.368 1/1:122:0,120,0:0:0:120,0:4148,0:-335.105,-36.1236,0,-335.105,-36.1236,-335.105 1/2:159:0,105,53:0:0:105,53:3682,1856:-374.364,-111.749,-80.1405,-262.564,0,-246.609 1/2:75:0,46,28:0:0:46,28:1632,981:-175.733,-58.1616,-44.3142,-117.635,0,-109.206 1/1:99:0,99,0:0:0:99,0:3440,0:-279.838,-29.802,0,-279.838,-29.802,-279.838 1/2:86:0,48,37:0:0:48,37:1672,1309:-206.002,-84.8597,-70.4103,-121.118,0,-109.98 1/2:70:0,46,24:0:0:46,24:1597,828:-165.266,-49.9927,-36.1454,-115.553,0,-108.329 1/1:72:0,72,0:0:0:72,0:2569,0:-208.403,-21.6742,0,-208.403,-21.6742,-208.403 1/1:40:0,40,0:0:0:40,0:1398,0:-112.12,-12.0412,0,-112.12,-12.0412,-112.12 chr07 25158569 . T G 39584.8 PASS AB=0.57074;ABP=30.0455;AC=32;AF=0.761905;AN=42;AO=1835;CIGAR=1X;DP=2180;DPB=2180;DPRA=0;EPP=3987.66;EPPR=752.168;GTI=1;LEN=1;MEANALT=1;MQM=59.7362;MQMR=59.4261;NS=21;NUMALT=1;ODDS=19.2563;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64851;QR=12376;RO=345;RPL=0;RPP=3987.66;RPPR=752.168;RPR=1835;RUN=1;SAF=0;SAP=3987.66;SAR=1835;SRF=0;SRP=752.168;SRR=345;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:145:0,145:0:0:145:5110:-460.023,-43.6494,0 1/1:109:1,108:1:36:108:3832:-341.468,-29.214,0 1/1:133:0,133:0:0:133:4737:-426.485,-40.037,0 1/1:123:0,123:0:0:123:4328:-389.619,-37.0267,0 1/1:187:0,187:0:0:187:6585:-592.659,-56.2926,0 1/1:146:0,146:0:0:146:5179:-466.191,-43.9504,0 0/1:159:67,92:67:2404:92:3237:-243.683,0,-168.7 0/0:77:76,1:76:2724:1:27:0,-20.4795,-242.682 1/1:243:0,243:0:0:243:8595:-773.469,-73.1503,0 1/1:13:0,13:0:0:13:468:-42.455,-3.91339,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:24:11,13:11:396:13:453:-33.8749,0,-28.758 0/1:41:21,20:21:748:20:701:-51.0671,0,-55.2975 1/1:145:0,145:0:0:145:5166:-465.034,-43.6494,0 0/1:173:86,87:86:3096:87:3111:-228.138,0,-226.733 0/1:78:17,61:17:608:61:2122:-167.062,0,-31.5363 1/1:84:1,83:1:36:83:2937:-260.961,-21.6882,0 0/1:92:48,44:48:1724:44:1547:-111.82,0,-127.628 0/1:51:16,35:16:568:35:1244:-96.9098,0,-36.0993 1/1:69:0,69:0:0:69:2452:-220.495,-20.7711,0 1/1:84:0,84:0:0:84:2912:-262.026,-25.2865,0 chr07 25158573 . CG CA,TA 48547.7 PASS AB=0.568218,0.431782;ABP=28.1931,28.1931;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1850,346;CIGAR=1M1X,2X;DP=2200;DPB=2200;DPRA=0,0.623527;EPP=4011.55,754.34;EPPR=5.18177;GTI=1;LEN=1,2;MEANALT=1.57143,2;MQM=59.7465,59.3613;MQMR=60;NS=21;NUMALT=2;ODDS=19.4023;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66017,12341;QR=36;RO=1;RPL=1,0;RPP=4011.55,754.34;RPPR=5.18177;RPR=1849,346;RUN=1,1;SAF=0,0;SAP=4020.23,754.34;SAR=1850,346;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,150,0:0:0:150,0:5330,0:-479.736,-45.1545,0,-479.736,-45.1545,-479.736 1/1:109:0,108,0:0:0:108,0:3884,0:-349.39,-32.5112,0,-349.39,-32.5112,-349.39 1/1:132:0,132,0:0:0:132,0:4717,0:-424.684,-39.736,0,-424.684,-39.736,-424.684 1/1:122:0,122,0:0:0:122,0:4371,0:-393.486,-36.7257,0,-393.486,-36.7257,-393.486 1/1:192:0,192,0:0:0:192,0:6833,0:-614.991,-57.7978,0,-614.991,-57.7978,-614.991 1/1:147:0,147,0:0:0:147,0:5253,0:-472.832,-44.2514,0,-472.832,-44.2514,-472.832 1/2:159:0,92,67:0:0:92,67:3262,2401:-461.893,-196.15,-168.455,-266.1,0,-245.931 2/2:78:0,1,77:0:0:1,77:36,2760:-248.262,-245.324,-245.023,-23.1793,-19.8821,0 1/1:245:0,244,0:0:0:244,0:8729,0:-785.105,-73.4513,0,-785.105,-73.4513,-785.105 1/1:15:0,15,0:0:0:15,0:536,0:-48.5702,-4.51545,0,-48.5702,-4.51545,-48.5702 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/2:24:0,13,11:0:0:13,11:464,383:-69.3232,-31.4911,-27.5777,-38.1841,0,-34.8728 1/2:41:0,20,21:0:0:20,21:711,754:-119.787,-61.8514,-55.8308,-58.2927,0,-51.9711 1/1:147:0,147,0:0:0:147,0:5237,0:-471.444,-44.2514,0,-471.444,-44.2514,-471.444 1/2:171:0,85,86:0:0:85,86:3011,3071:-495.949,-250.674,-225.087,-245.63,0,-219.741 1/2:77:0,59,18:0:0:59,18:2093,644:-222.893,-52.8008,-35.04,-170.448,0,-165.03 1/1:86:0,85,0:0:0:85,0:3047,0:-274.175,-25.5876,0,-274.175,-25.5876,-274.175 1/2:95:0,46,49:0:0:46,49:1639,1716:-273.482,-139.895,-126.047,-133.94,0,-119.19 1/2:52:0,36,16:0:0:36,16:1296,576:-153.103,-47.3585,-36.5214,-106.105,0,-101.288 1/1:71:0,71,0:0:0:71,0:2539,0:-228.323,-21.3731,0,-228.323,-21.3731,-228.323 1/1:83:1,82,0:1:36:82,0:2921,0:-259.507,-21.3872,0,-259.808,-24.6845,-262.746 chr07 25208394 . G T 10199.1 PASS AB=0.498681;ABP=3.02176;AC=9;AF=0.214286;AN=42;AO=502;CIGAR=1X;DP=2121;DPB=2121;DPRA=1.07008;EPP=744.408;EPPR=1381.05;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9602;MQMR=59.9307;NS=21;NUMALT=1;ODDS=2.32023;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17892;QR=57741;RO=1617;RPL=458;RPP=744.408;RPPR=1381.05;RPR=44;RUN=1;SAF=502;SAP=1093.09;SAR=0;SRF=1617;SRP=3514.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:33:33,0:33:1176:0:0:0,-9.93399,-106.148 0/0:122:121,1:121:4316:1:36:0,-33.1274,-385.02 0/0:102:102,0:102:3648:0:0:0,-30.7051,-328.525 0/0:154:154,0:154:5512:0:0:0,-46.3586,-496.206 0/0:150:147,3:147:5252:3:104:0,-35.4517,-463.115 0/0:127:127,0:127:4548:0:0:0,-38.2308,-409.486 0/1:156:82,74:82:2905:74:2651:-191.866,0,-214.724 1/1:116:0,116:0:0:116:4144:-373.144,-34.9195,0 0/0:183:183,0:183:6552:0:0:0,-55.0885,-589.572 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:5:4,1:4:144:1:36:-2.09312,0,-10.8469 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/1:107:66,41:66:2367:41:1472:-100.566,0,-181.077 0/0:90:90,0:90:3190:0:0:0,-27.0927,-286.62 0/1:155:71,84:71:2537:84:3012:-224.643,0,-181.92 0/1:80:36,44:36:1288:44:1580:-118.409,0,-92.1274 0/0:88:88,0:88:3148:0:0:0,-26.4906,-283.546 0/1:158:52,106:52:1864:106:3736:-288.876,0,-120.477 0/1:97:69,28:69:2461:28:977:-59.0401,0,-192.543 0/0:89:85,3:85:3029:3:108:0,-16.7006,-262.788 0/0:90:89,0:89:3156:0:0:0,-26.7917,-284.065 chr07 25208399 . T C,G 47028.7 PASS AB=0.501295,0.497409;ABP=3.02155,3.0553;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1641,513;CIGAR=1X,1X;DP=2156;DPB=2156;DPRA=0.833607,1.06075;EPP=3549.05,1116.98;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.6,2;MQM=59.9183,59.961;MQMR=60;NS=21;NUMALT=2;ODDS=1.98766;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58391,18320;QR=36;RO=1;RPL=1639,513;RPP=3549.05,1116.98;RPPR=5.18177;RPR=2,0;RUN=1,1;SAF=1641,513;SAP=3566.4,1116.98;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35,0:0:0:35,0:1251,0:-112.895,-10.5361,0,-112.895,-10.5361,-112.895 1/1:118:0,117,1:0:0:117,1:4179,36:-375.931,-35.2205,0,-372.993,-31.9233,-372.692 1/1:105:0,105,0:0:0:105,0:3767,0:-339.228,-31.6082,0,-339.228,-31.6082,-339.228 1/1:162:0,162,0:0:0:162,0:5770,0:-519.415,-48.7669,0,-519.415,-48.7669,-519.415 1/1:152:1,148,3:1:36:148,3:5291,108:-472.727,-41.615,0,-464.216,-35.7402,-466.25 1/1:128:0,128,0:0:0:128,0:4585,0:-412.814,-38.5318,0,-412.814,-38.5318,-412.814 1/2:156:0,84,71:0:0:84,71:2991,2524:-449.534,-205.753,-180.466,-243.874,0,-222.501 2/2:122:0,0,122:0:0:0,122:0,4361:-392.665,-392.665,-392.665,-36.7257,-36.7257,0 1/1:185:0,185,0:0:0:185,0:6579,0:-592.167,-55.6906,0,-592.167,-55.6906,-592.167 1/1:8:0,8,0:0:0:8,0:282,0:-25.7211,-2.40824,0,-25.7211,-2.40824,-25.7211 1/2:5:0,4,1:0:0:4,1:131,36:-13.6909,-3.29724,-2.09312,-10.7461,0,-10.445 1/1:12:0,11,1:0:0:11,1:396,36:-35.6229,-3.31133,0,-32.6855,-0.0140851,-32.3845 1/2:111:0,68,43:0:0:68,43:2428,1540:-323.897,-125.949,-105.479,-198.306,0,-185.362 1/1:86:0,86,0:0:0:86,0:2939,0:-264.748,-25.8886,0,-264.748,-25.8886,-264.748 1/2:158:0,72,86:0:0:72,86:2588,3080:-462.667,-251.531,-229.857,-211.494,0,-185.606 1/2:82:0,36,46:0:0:36,46:1288,1652:-240.149,-135.121,-124.284,-105.387,0,-91.5391 1/1:92:0,92,0:0:0:92,0:3270,0:-294.521,-27.6948,0,-294.521,-27.6948,-294.521 1/2:162:0,55,107:0:0:55,107:1954,3795:-468.761,-309.538,-292.982,-159.578,0,-127.367 1/2:98:0,68,30:0:0:68,30:2427,1080:-286.339,-88.4823,-68.0123,-198.215,0,-189.184 1/1:87:0,85,2:0:0:85,2:3015,72:-271.133,-25.5876,0,-265.258,-19.3529,-264.656 1/1:92:0,92,0:0:0:92,0:3260,0:-293.3,-27.6948,0,-293.3,-27.6948,-293.3 chr07 25208415 . G A 69330.6 PASS AB=0.507181;ABP=3.50931;AC=33;AF=0.785714;AN=42;AO=2564;CIGAR=1X;DP=3252;DPB=3252;DPRA=1.2938;EPP=5570.67;EPPR=1486.14;GTI=0;LEN=1;MEANALT=1;MQM=57.2087;MQMR=58.8675;NS=21;NUMALT=1;ODDS=3.55478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=91476;QR=24390;RO=687;RPL=1672;RPP=518.269;RPPR=353.509;RPR=892;RUN=1;SAF=1672;SAP=518.269;SAR=892;SRF=511;SRP=357.732;SRR=176;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:1,96:1:36:96:3436:-304.545,-25.6331,0 1/1:123:2,121:2:72:121:4324:-382.5,-30.19,0 1/1:167:0,167:0:0:167:5968:-536.655,-50.272,0 1/1:230:0,230:0:0:230:8230:-739.309,-69.2369,0 1/1:343:8,335:8:288:335:11996:-1051.38,-76.9977,0 1/1:129:0,129:0:0:129:4620:-415.963,-38.8329,0 0/1:158:73,85:73:2604:85:3038:-226.087,0,-187.024 0/0:121:120,0:120:4258:0:0:0,-36.1236,-383.039 1/1:363:0,363:0:0:363:12914:-1160.4,-109.274,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:12:1,11:1:36:11:396:-32.3845,-0.0140851,0 0/1:205:85,120:85:3016:120:4292:-324.434,0,-209.768 1/1:171:1,170:1:36:170:6037:-538.711,-47.8805,0 0/1:269:160,109:160:5703:109:3876:-267.793,0,-431.933 0/1:161:81,80:81:2871:80:2841:-206.693,0,-210.021 1/1:190:0,190:0:0:190:6736:-605.433,-57.1957,0 0/1:160:105,55:105:3695:55:1952:-127.791,0,-284.588 0/1:157:44,113:44:1572:113:4016:-314.119,0,-94.4671 1/1:89:3,86:3:99:86:3088:-268.483,-17.5551,0 1/1:95:2,93:2:68:93:3324:-292.248,-22.1401,0 chr07 25208427 . 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G A 6122.01 PASS AB=0.496659;ABP=3.05383;AC=10;AF=0.238095;AN=42;AO=318;CIGAR=1X;DP=1296;DPB=1296;DPRA=1.33506;EPP=577.29;EPPR=1137.24;GTI=0;LEN=1;MEANALT=1;MQM=59.8679;MQMR=60;NS=21;NUMALT=1;ODDS=12.4286;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11358;QR=34928;RO=976;RPL=304;RPP=577.29;RPPR=1137.24;RPR=14;RUN=1;SAF=318;SAP=693.539;SAR=0;SRF=976;SRP=2122.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:31,0:31:1097:0:0:0,-9.33193,-99.038 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:123:123,0:123:4393:0:0:0,-37.0267,-395.542 0/0:50:48,0:48:1713:0:0:0,-14.4494,-154.094 0/0:121:118,3:118:4213:3:108:0,-26.3495,-369.275 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/1:104:52,52:52:1860:52:1853:-135.742,0,-136.372 1/1:87:0,87:0:0:87:3124:-281.386,-26.1896,0 0/0:112:112,0:112:4013:0:0:0,-33.7154,-361.357 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:11:3,8:3:108:8:273:-21.5889,0,-6.76384 0/1:34:18,16:18:648:16:572:-41.5784,0,-48.4169 0/1:97:52,45:52:1868:45:1612:-116.17,0,-139.199 0/0:72:72,0:72:2576:0:0:0,-21.6742,-232.09 0/1:78:33,45:33:1184:45:1604:-121.015,0,-83.388 0/1:20:7,13:7:252:13:460:-35.7148,0,-17.0084 0/0:20:20,0:20:707:0:0:0,-6.0206,-63.9546 0/1:45:21,24:21:756:24:856:-63.8142,0,-54.8209 0/1:60:40,20:40:1431:20:716:-46.7059,0,-111.025 0/0:114:109,5:109:3901:5:180:0,-17.7654,-334.73 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 chr07 25246357 . 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C T 6482.72 PASS AB=0.459038;ABP=14.2178;AC=10;AF=0.238095;AN=42;AO=411;CIGAR=1X;DP=2188;DPB=2188;DPRA=1.36371;EPP=886.821;EPPR=3751.68;GTI=0;LEN=1;MEANALT=1.21429;MQM=45.9367;MQMR=58.6116;NS=21;NUMALT=1;ODDS=15.454;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14578;QR=63470;RO=1774;RPL=410;RPP=886.821;RPPR=3751.68;RPR=1;RUN=1;SAF=0;SAP=895.485;SAR=411;SRF=0;SRP=3855.2;SRR=1774;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:126:124,2:124:4447:2:72:0,-31.1403,-392.941 0/0:114:114,0:114:4091:0:0:0,-34.3174,-367.135 0/0:79:78,1:78:2800:1:36:0,-20.2079,-248.643 0/0:117:117,0:117:4180:0:0:0,-35.2205,-376.169 0/0:244:240,3:240:8558:3:108:0,-63.502,-760.052 0/0:94:94,0:94:3361:0:0:0,-28.2968,-302.093 0/1:135:71,64:71:2552:64:2287:-160.868,0,-188.106 1/1:49:0,49:0:0:49:1726:-151.697,-14.7505,0 0/0:247:244,2:244:8703:2:68:0,-67.9678,-776.174 0/0:12:12,0:12:417:0:0:0,-3.61236,-37.6203 0/1:10:1,9:1:36:9:320:-25.136,0,-0.586969 0/1:39:24,15:24:851:15:532:-35.7409,0,-65.1328 0/1:195:102,93:102:3660:93:3300:-235.046,0,-270.644 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.611 0/1:91:43,48:43:1544:48:1720:-125.204,0,-111.462 0/1:104:52,51:52:1860:51:1810:-130.736,0,-136.447 0/0:87:86,1:86:3080:1:36:0,-22.6066,-273.679 0/1:92:53,39:53:1900:39:1373:-94.3051,0,-141.782 0/1:103:69,34:69:2484:34:1190:-74.4568,0,-192.72 0/0:109:109,0:109:3878:0:0:0,-32.8123,-348.093 0/0:71:71,0:71:2552:0:0:0,-21.3731,-229.525 chr07 25276410 . A G 12074.3 PASS AB=0.519164;ABP=5.7568;AC=11;AF=0.261905;AN=42;AO=652;CIGAR=1X;DP=2820;DPB=2820;DPRA=1.20942;EPP=1418.81;EPPR=4689.06;GTI=1;LEN=1;MEANALT=1.15385;MQM=60;MQMR=59.9963;NS=21;NUMALT=1;ODDS=5.57983;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23277;QR=75550;RO=2166;RPL=652;RPP=1418.81;RPPR=4689.06;RPR=0;RUN=1;SAF=652;SAP=1418.81;SAR=0;SRF=2166;SRP=4706.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:104:104,0:104:3667:0:0:0,-31.3071,-330.238 0/0:79:79,0:79:2718:0:0:0,-23.7814,-244.867 0/0:203:202,1:202:7081:1:36:0,-57.5108,-633.771 0/0:164:164,0:164:5780:0:0:0,-49.3689,-520.327 0/0:350:348,1:348:12134:1:36:0,-101.821,-1088.35 0/0:105:105,0:105:3636:0:0:0,-31.6081,-327.451 0/1:149:61,88:61:2069:88:3134:-237.431,0,-141.626 1/1:192:0,192:0:0:192:6878:-619.086,-57.7978,0 0/0:297:297,0:297:10366:0:0:0,-89.4059,-932.897 0/0:14:14,0:14:484:0:0:0,-4.21442,-43.8885 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:20:14,6:14:500:6:212:-13.4042,0,-39.3156 0/1:150:75,75:75:2608:75:2687:-196.919,0,-189.818 0/0:115:114,1:114:3936:1:36:0,-31.0202,-350.835 0/1:219:104,114:104:3648:114:4038:-297.781,0,-262.706 0/1:134:63,71:63:2189:71:2540:-188.513,0,-156.938 0/0:144:144,0:144:5041:0:0:0,-43.3483,-453.848 0/1:129:62,67:62:2164:67:2384:-175.985,0,-156.193 0/1:60:34,26:34:1196:26:936:-66.4977,0,-89.8836 0/0:144:138,6:138:4805:6:216:0,-23.5578,-412.827 0/0:44:44,0:44:1528:0:0:0,-13.2453,-137.812 chr07 25276469 . CGAC CAAA,CAA 59228.1 PASS AB=0.495261,0.5;ABP=3.17496,3.0103;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2226,525;CIGAR=1M1X1M1X,1M1D1M1X;DP=2765;DPB=2633.5;DPRA=1.42074,1.15569;EPP=4836.71,1143.03;EPPR=0;GTI=0;LEN=4,3;MEANALT=2.25,2.42857;MQM=59.7215,58.9257;MQMR=0;NS=21;NUMALT=2;ODDS=14.9513;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=78257,18552;QR=0;RO=0;RPL=0,0;RPP=4836.71,1143.03;RPPR=0;RPR=2226,525;RUN=1,1;SAF=0,0;SAP=4836.71,1143.03;SAR=2226,525;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,123,0:0:0:123,0:4303,0:-387.358,-37.0267,0,-387.358,-37.0267,-387.358 1/1:105:0,104,1:0:0:104,1:3692,36:-332.04,-31.3071,0,-329.103,-28.0099,-328.802 1/1:204:0,202,0:0:0:202,0:7142,0:-642.563,-60.8081,0,-642.563,-60.8081,-642.563 1/1:157:0,154,0:0:0:154,0:5402,0:-485.91,-46.3586,0,-485.91,-46.3586,-485.91 1/1:355:0,352,2:0:0:352,2:12342,72:-1110.26,-105.963,0,-1104.4,-99.9963,-1103.8 1/1:143:0,141,2:0:0:141,2:4959,72:-445.992,-42.4452,0,-440.117,-36.2106,-439.515 1/2:239:0,111,127:0:0:111,127:3885,4542:-686.073,-370.071,-336.656,-316.144,0,-277.913 2/2:94:0,0,94:0:0:0,94:0,3272:-293.288,-293.288,-293.288,-28.2968,-28.2968,0 1/1:222:0,218,2:0:0:218,2:7681,72:-690.968,-65.6245,0,-685.093,-59.7497,-684.491 1/1:17:0,17,0:0:0:17,0:592,0:-53.6053,-5.11751,0,-53.6053,-5.11751,-53.6053 1/2:11:0,4,7:0:0:4,7:139,252:-32.2161,-20.9199,-19.7158,-11.6481,0,-9.54088 1/2:20:0,6,14:0:0:6,14:216,489:-57.7486,-40.1256,-38.3194,-17.9797,0,-13.7652 1/2:161:0,78,82:0:0:78,82:2731,2887:-456.561,-234.655,-211.174,-221.897,0,-197.213 1/1:195:0,193,0:0:0:193,0:6703,0:-603.032,-58.0988,0,-603.032,-58.0988,-603.032 1/2:189:0,102,86:0:0:102,86:3578,3051:-539.601,-248.44,-217.735,-291.154,0,-265.265 1/2:115:0,67,48:0:0:67,48:2355,1715:-331.848,-140.168,-119.999,-192.034,0,-177.585 1/1:93:0,93,0:0:0:93,0:3288,0:-296.126,-27.9958,0,-296.126,-27.9958,-296.126 1/2:60:0,26,33:0:0:26,33:915,1161:-168.936,-94.4492,-86.6224,-74.4787,0,-64.5447 1/2:49:0,24,25:0:0:24,25:862,859:-140.358,-70.0313,-62.8066,-70.6776,0,-63.1518 1/1:167:0,165,2:0:0:165,2:5826,72:-524.076,-49.67,0,-518.201,-43.4353,-517.599 1/1:46:0,46,0:0:0:46,0:1646,0:-148.427,-13.8474,0,-148.427,-13.8474,-148.427 chr07 25323724 . T C 34535.2 PASS AB=0.47151;ABP=7.95952;AC=33;AF=0.785714;AN=42;AO=1335;CIGAR=1X;DP=1831;DPB=1831;DPRA=0.739224;EPP=811.457;EPPR=833.105;GTI=1;LEN=1;MEANALT=1.05;MQM=59.6989;MQMR=60;NS=21;NUMALT=1;ODDS=4.65185;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47652;QR=17765;RO=495;RPL=1020;RPP=811.457;RPPR=833.105;RPR=315;RUN=1;SAF=1335;SAP=2901.93;SAR=0;SRF=495;SRP=1077.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:3,49:3:108:49:1756:-148.246,-5.57839,0 1/1:71:0,71:0:0:71:2543:-229.041,-21.3731,0 1/1:81:0,81:0:0:81:2903:-260.835,-24.3834,0 1/1:48:1,47:1:36:47:1688:-148.597,-10.8512,0 1/1:191:2,189:2:72:189:6760:-601.581,-50.66,0 1/1:65:0,65:0:0:65:2340:-210.857,-19.567,0 0/1:142:63,79:63:2238:79:2800:-209.491,0,-158.934 0/0:116:116,0:116:4172:0:0:0,-34.9195,-375.66 1/1:213:1,212:1:36:212:7554:-676.287,-60.5211,0 1/1:24:0,24:0:0:24:849:-76.707,-7.22472,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:32:19,13:19:684:13:468:-32.8267,0,-52.2574 0/1:155:91,63:91:3272:63:2240:-155.144,0,-248.02 1/1:93:0,93:0:0:93:3313:-298.362,-27.9958,0 0/1:141:87,54:87:3124:54:1922:-130.763,0,-238.94 0/1:64:22,42:22:792:42:1504:-116.389,0,-52.3398 1/1:60:2,58:2:72:58:2043:-177.297,-11.2251,0 0/1:101:64,37:64:2295:37:1317:-88.4227,0,-176.406 0/1:67:24,43:24:864:43:1544:-119.084,0,-57.9136 1/1:69:0,69:0:0:69:2456:-221.285,-20.7711,0 1/1:42:0,42:0:0:42:1508:-136.012,-12.6433,0 chr07 25323754 . T C 27167.3 PASS AB=0.467836;ABP=9.15646;AC=33;AF=0.785714;AN=42;AO=1306;CIGAR=1X;DP=1794;DPB=1794;DPRA=0.743805;EPP=2838.95;EPPR=1060.52;GTI=1;LEN=1;MEANALT=1.05;MQM=59.7389;MQMR=60;NS=21;NUMALT=1;ODDS=4.59598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46058;QR=17324;RO=487;RPL=1306;RPP=2838.95;RPPR=1060.52;RPR=0;RUN=1;SAF=1306;SAP=2838.95;SAR=0;SRF=487;SRP=1060.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:4,45:4:144:45:1604:-130.707,-1.43685,0 1/1:70:0,70:0:0:70:2461:-221.691,-21.0721,0 1/1:77:0,77:0:0:77:2686:-241.961,-23.1793,0 1/1:48:1,47:1:32:47:1639:-144.584,-11.2501,0 1/1:190:2,188:2:72:188:6618:-588.736,-50.359,0 1/1:65:0,64:0:0:64:2292:-206.179,-19.2659,0 0/1:138:63,75:63:2243:75:2635:-195.851,0,-160.591 0/0:113:113,0:113:4044:0:0:0,-34.0164,-364.148 1/1:214:1,213:1:36:213:7532:-674.31,-60.8221,0 1/1:23:0,23:0:0:23:824:-74.4787,-6.92369,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:31:19,12:19:684:12:428:-29.5269,0,-52.5584 0/1:152:89,63:89:3171:63:2191:-151.652,0,-239.858 1/1:91:0,91:0:0:91:3203:-288.488,-27.3937,0 0/1:136:86,50:86:3038:50:1784:-119.858,0,-232.709 0/1:63:22,41:22:792:41:1429:-109.938,0,-52.6408 1/1:58:2,56:2:72:56:1983:-171.905,-10.623,0 0/1:99:63,36:63:2235:36:1251:-83.0848,0,-171.612 0/1:65:22,43:22:761:43:1540:-119.326,0,-49.2397 1/1:68:0,68:0:0:68:2390:-215.347,-20.47,0 1/1:40:0,40:0:0:40:1428:-128.816,-12.0412,0 chr07 25323982 . A T 37755.1 PASS AB=0.538745;ABP=13.6113;AC=32;AF=0.761905;AN=42;AO=1735;CIGAR=1X;DP=2192;DPB=2192;DPRA=0;EPP=3709.96;EPPR=993.202;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9931;MQMR=60;NS=21;NUMALT=1;ODDS=4.54823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61935;QR=16303;RO=456;RPL=1728;RPP=3709.96;RPPR=993.202;RPR=7;RUN=1;SAF=0;SAP=3770.51;SAR=1735;SRF=0;SRP=993.202;SRR=456;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:126:0,126:0:0:126:4493:-404.538,-37.9298,0 1/1:94:0,94:0:0:94:3353:-301.985,-28.2968,0 1/1:111:0,111:0:0:111:3976:-358.03,-33.4143,0 1/1:127:0,127:0:0:127:4556:-410.205,-38.2308,0 1/1:202:0,202:0:0:202:7208:-648.776,-60.8081,0 1/1:86:0,86:0:0:86:3041:-273.921,-25.8886,0 0/1:155:71,84:71:2539:84:3004:-223.932,0,-182.101 0/0:80:79,1:79:2823:1:32:0,-20.8831,-251.109 1/1:187:0,187:0:0:187:6681:-601.367,-56.2926,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:14:4,10:4:144:10:343:-26.9853,0,-9.0992 0/1:39:19,20:19:680:20:720:-53.3886,0,-49.789 0/1:206:98,108:98:3499:108:3853:-284.953,0,-253.109 1/1:146:1,145:1:36:145:5176:-462.384,-40.3521,0 0/1:138:68,70:68:2440:70:2508:-184.43,0,-178.313 0/1:72:34,38:34:1212:38:1360:-101.026,0,-87.7122 1/1:90:1,89:1:36:89:3166:-281.566,-23.4944,0 0/1:84:45,39:45:1616:39:1381:-99.3002,0,-120.443 0/1:105:36,69:36:1278:69:2456:-189.687,0,-83.7135 1/1:78:0,78:0:0:78:2800:-252.24,-23.4803,0 1/1:43:0,42:0:0:42:1508:-135.655,-12.6433,0 chr07 25325935 . T C 12966.6 PASS AB=0.55298;ABP=10.3732;AC=31;AF=0.738095;AN=42;AO=618;CIGAR=1X;DP=814;DPB=814;DPRA=0.703704;EPP=1344.98;EPPR=394.584;GTI=0;LEN=1;MEANALT=1;MQM=59.9547;MQMR=59.9694;NS=21;NUMALT=1;ODDS=8.52341;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22068;QR=7021;RO=196;RPL=618;RPP=1344.98;RPPR=394.584;RPR=0;RUN=1;SAF=0;SAP=1344.98;SAR=618;SRF=0;SRP=428.619;SRR=196;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:45:1,44:1:36:44:1576:-138.533,-9.94808,0 1/1:43:0,43:0:0:43:1533:-138.261,-12.9443,0 1/1:36:0,36:0:0:36:1269:-114.51,-10.8371,0 1/1:40:3,37:3:108:37:1324:-109.387,-1.96603,0 1/1:64:0,64:0:0:64:2288:-206.182,-19.2659,0 1/1:33:0,33:0:0:33:1183:-106.778,-9.93399,0 0/1:75:32,43:32:1152:43:1544:-116.676,0,-81.4129 0/0:54:54,0:54:1917:0:0:0,-16.2556,-172.803 1/1:68:1,67:1:36:67:2385:-210.818,-16.8718,0 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:16:5,11:5:180:11:396:-31.1663,0,-11.7356 0/1:67:35,32:35:1256:32:1148:-83.4608,0,-93.1763 1/1:48:1,47:1:36:47:1669:-146.897,-10.8512,0 0/1:49:20,29:20:716:29:1029:-78.1707,0,-50.0172 0/1:14:9,5:9:324:5:180:-12.3376,0,-25.2914 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:34:13,21:13:468:21:748:-57.4103,0,-32.2246 0/1:33:12,21:12:432:21:756:-58.4332,0,-29.2872 1/1:36:0,36:0:0:36:1276:-115.142,-10.8371,0 1/1:34:1,33:1:36:33:1188:-103.63,-6.63675,0 chr07 25551791 . T A 35205.2 PASS AB=0.432593;ABP=29.6502;AC=31;AF=0.738095;AN=42;AO=1620;CIGAR=1X;DP=2087;DPB=2087;DPRA=2.98888;EPP=3494.79;EPPR=1008.42;GTI=1;LEN=1;MEANALT=1;MQM=59.9901;MQMR=60;NS=21;NUMALT=1;ODDS=6.25867;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57973;QR=16788;RO=467;RPL=1617;RPP=3494.79;RPPR=1008.42;RPR=3;RUN=1;SAF=0;SAP=3520.8;SAR=1620;SRF=0;SRP=1017.09;SRR=467;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:142:5,137:5:180:137:4877:-422.53,-26.1942,0 1/1:85:0,85:0:0:85:3042:-274.008,-25.5876,0 1/1:93:0,93:0:0:93:3327:-299.647,-27.9958,0 1/1:199:0,199:0:0:199:7101:-639.104,-59.905,0 1/1:169:0,169:0:0:169:6057:-545.23,-50.8741,0 1/1:97:1,96:1:36:96:3435:-305.764,-25.6016,0 0/1:123:66,57:66:2372:57:2048:-147.565,0,-176.711 0/0:67:67,0:67:2408:0:0:0,-20.169,-216.976 1/1:186:0,186:0:0:186:6671:-600.466,-55.9916,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.6268 0/1:110:63,47:63:2268:47:1688:-119.094,0,-171.269 1/1:80:0,80:0:0:80:2865:-258.086,-24.0824,0 0/1:216:124,92:124:4452:92:3289:-231.206,0,-335.827 0/1:96:64,32:64:2304:32:1139:-73.9195,0,-178.722 1/1:104:0,104:0:0:104:3731:-335.989,-31.3071,0 0/1:56:36,20:36:1292:20:720:-48.2711,0,-99.7261 0/1:57:20,37:20:720:37:1327:-102.573,0,-47.9701 1/1:111:7,104:7:252:104:3728:-312.692,-10.3854,0 1/1:69:0,69:0:0:69:2460:-221.653,-20.7711,0 chr07 25591942 . ATGAGG GTGATA,GTGACA 31152.6 PASS AB=0.479371,0.516699;ABP=4.89167,4.24322;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1090,359;CIGAR=1X3M2X,1X3M2X;DP=1454;DPB=1454;DPRA=0.707292,1.09975;EPP=2369.92,782.569;EPPR=5.18177;GTI=0;LEN=6,6;MEANALT=1.6,2.18182;MQM=59.6294,59.9916;MQMR=60;NS=21;NUMALT=2;ODDS=10.9837;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38385,12725;QR=36;RO=1;RPL=0,0;RPP=2369.92,782.569;RPPR=5.18177;RPR=1090,359;RUN=1,1;SAF=1090,359;SAP=2369.92,782.569;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102,0:0:0:102,0:3556,0:-320.234,-30.7051,0,-320.234,-30.7051,-320.234 1/1:83:0,82,0:0:0:82,0:2907,0:-261.521,-24.6845,0,-261.521,-24.6845,-261.521 1/1:44:0,44,0:0:0:44,0:1546,0:-139.429,-13.2453,0,-139.429,-13.2453,-139.429 1/1:54:0,53,1:0:0:53,1:1872,36:-168.394,-15.9546,0,-165.457,-12.6573,-165.156 1/1:137:0,136,1:0:0:136,1:4763,36:-428.363,-40.9401,0,-425.426,-37.6428,-425.125 1/1:38:0,38,0:0:0:38,0:1351,0:-121.851,-11.4391,0,-121.851,-11.4391,-121.851 1/2:118:1,44,73:1:36:44,73:1551,2589:-333.943,-207.986,-197.678,-123.314,0,-104.277 2/2:96:0,0,94:0:0:0,94:0,3342:-300.702,-300.702,-300.702,-28.2968,-28.2968,0 1/1:122:0,122,0:0:0:122,0:4292,0:-386.457,-36.7257,0,-386.457,-36.7257,-386.457 1/1:11:0,11,0:0:0:11,0:391,0:-35.5297,-3.31133,0,-35.5297,-3.31133,-35.5297 1/2:9:0,4,5:0:0:4,5:144,179:-26.7058,-14.9552,-13.7511,-12.1095,0,-10.6043 1/2:26:0,9,17:0:0:9,17:315,602:-75.0199,-49.3925,-46.6832,-25.9787,0,-20.8612 1/2:50:0,28,22:0:0:28,22:973,765:-141.651,-62.5464,-54.1176,-79.4525,0,-72.8299 1/1:61:0,61,0:0:0:61,0:2136,0:-192.43,-18.3628,0,-192.43,-18.3628,-192.43 1/2:77:0,29,48:0:0:29,48:1026,1707:-223.031,-139.467,-130.737,-83.9184,0,-69.469 1/2:52:0,23,29:0:0:23,29:823,1016:-150.135,-83.0198,-76.0961,-67.4698,0,-58.7399 1/1:39:0,39,0:0:0:39,0:1388,0:-125.218,-11.7402,0,-125.218,-11.7402,-125.218 1/2:99:0,47,52:0:0:47,52:1629,1848:-283.334,-150.946,-136.797,-132.74,0,-117.086 1/2:78:0,60,17:0:0:60,17:2119,605:-221.908,-49.351,-31.2892,-172.599,0,-167.482 1/1:96:0,96,0:0:0:96,0:3383,0:-304.587,-28.8989,0,-304.587,-28.8989,-304.587 1/1:62:0,62,0:0:0:62,0:2220,0:-199.996,-18.6639,0,-199.996,-18.6639,-199.996 chr07 25591971 . G A 80283.5 PASS AB=0.480752;ABP=6.6048;AC=32;AF=0.761905;AN=42;AO=2924;CIGAR=1X;DP=3754;DPB=3754;DPRA=0.738655;EPP=6352.4;EPPR=1803.16;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7336;MQMR=59.9686;NS=21;NUMALT=1;ODDS=21.8316;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=104317;QR=29278;RO=829;RPL=1079;RPP=438.757;RPPR=36.4573;RPR=1845;RUN=1;SAF=1079;SAP=438.757;SAR=1845;SRF=358;SRP=36.4573;SRR=471;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:227:0,226:0:0:226:8075:-726.351,-68.0328,0 1/1:209:0,209:0:0:209:7439:-669.468,-62.9153,0 1/1:134:2,132:2:72:132:4686:-415.052,-33.5013,0 1/1:210:1,209:1:36:209:7445:-666.481,-59.618,0 1/1:364:2,362:2:63:362:12896:-1154.3,-103.592,0 1/1:175:1,174:1:36:174:6222:-556.452,-49.082,0 0/1:301:159,142:159:5621:142:5075:-366.252,0,-415.403 0/0:238:238,0:238:8387:0:0:0,-71.6451,-754.84 1/1:314:0,314:0:0:314:11219:-1009.55,-94.5234,0 1/1:16:0,16:0:0:16:571:-51.7224,-4.81648,0 0/1:11:5,6:5:180:6:212:-16.1135,0,-13.2407 0/1:43:27,16:27:949:16:576:-39.2291,0,-72.7785 0/1:141:73,68:73:2552:68:2427:-176.234,0,-187.483 1/1:224:0,224:0:0:224:8025:-722.112,-67.4307,0 0/1:230:138,92:138:4881:92:3286:-226.706,0,-370.205 0/1:124:71,53:71:2533:53:1896:-133.588,0,-190.892 1/1:155:0,155:0:0:155:5520:-496.883,-46.6597,0 0/1:133:65,68:65:2315:68:2423:-178.278,0,-168.573 0/1:134:42,92:42:1473:92:3253:-252.649,0,-92.5242 1/1:257:5,252:5:180:252:9018:-794.932,-60.8126,0 1/1:114:0,114:0:0:114:4053:-364.866,-34.3174,0 chr07 25637847 . C T 14809.2 PASS AB=0.540496;ABP=20.2457;AC=10;AF=0.238095;AN=42;AO=809;CIGAR=1X;DP=3665;DPB=3665;DPRA=0.915563;EPP=1759.73;EPPR=6196.05;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9982;NS=21;NUMALT=1;ODDS=23.6598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28933;QR=102004;RO=2856;RPL=0;RPP=1759.73;RPPR=6204.74;RPR=809;RUN=1;SAF=0;SAP=1759.73;SAR=809;SRF=1;SRP=6196.05;SRR=2855;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:234:234,0:234:8352:0:0:0,-70.441,-751.688 0/0:183:183,0:183:6526:0:0:0,-55.0885,-587.423 0/0:116:116,0:116:4136:0:0:0,-34.9195,-372.423 0/0:224:224,0:224:8010:0:0:0,-67.4307,-720.918 0/0:276:273,3:273:9788:3:108:0,-73.0091,-870.786 0/0:228:228,0:228:8123:0:0:0,-68.6348,-731.086 0/1:340:152,188:152:5451:188:6737:-504.051,0,-388.366 1/1:151:0,151:0:0:151:5397:-485.86,-45.4555,0 0/0:401:401,0:401:14347:0:0:0,-120.713,-1290.98 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:13:4,9:4:144:9:320:-25.229,0,-9.40023 0/1:33:13,20:13:464:20:712:-54.4727,0,-32.1635 0/1:260:113,147:113:4028:147:5271:-396.257,0,-284.44 0/0:200:200,0:200:7102:0:0:0,-60.206,-639.24 0/1:232:99,133:99:3548:133:4750:-357.816,0,-249.689 0/1:170:73,97:73:2611:97:3469:-261.245,0,-184.062 0/0:167:167,0:167:5943:0:0:0,-50.272,-534.979 0/1:65:37,28:37:1324:28:1004:-71.1089,0,-99.8951 0/1:97:65,32:65:2324:32:1129:-72.7164,0,-180.22 0/0:202:201,1:201:7184:1:36:0,-57.2098,-643.016 0/0:63:63,0:63:2239:0:0:0,-18.9649,-201.773 chr07 25643404 . G A 40217.3 PASS AB=0.506901;ABP=3.33997;AC=32;AF=0.761905;AN=42;AO=1852;CIGAR=1X;DP=2352;DPB=2352;DPRA=1.10294;EPP=4007.22;EPPR=1084.4;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9919;MQMR=60;NS=21;NUMALT=1;ODDS=5.21737;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66097;QR=17796;RO=498;RPL=1852;RPP=4024.58;RPPR=1084.4;RPR=0;RUN=1;SAF=2;SAP=4007.22;SAR=1850;SRF=0;SRP=1084.4;SRR=498;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:168:0,168:0:0:168:5992:-539.386,-50.573,0 1/1:67:0,67:0:0:67:2408:-216.976,-20.169,0 1/1:51:0,51:0:0:51:1832:-165.161,-15.3525,0 1/1:191:0,191:0:0:191:6822:-614.049,-57.4967,0 1/1:245:1,244:1:36:244:8698:-779.21,-70.1541,0 1/1:82:0,82:0:0:82:2915:-262.584,-24.6845,0 0/1:148:68,80:68:2419:80:2868:-213.804,0,-173.414 0/0:102:101,0:101:3608:0:0:0,-30.404,-324.567 1/1:308:0,308:0:0:308:11006:-990.434,-92.7172,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:39:28,11:28:1008:11:396:-24.2426,0,-79.2962 0/1:123:69,54:69:2467:54:1908:-134.968,0,-185.257 1/1:94:0,94:0:0:94:3329:-299.827,-28.2968,0 0/1:195:102,93:102:3652:93:3344:-242.475,0,-270.183 0/1:77:39,38:39:1400:38:1340:-97.7186,0,-103.12 1/1:48:0,47:0:0:47:1673:-150.613,-14.1484,0 0/1:105:49,56:49:1756:56:1984:-147.224,0,-126.716 0/1:104:35,69:35:1238:69:2463:-190.617,0,-80.4157 1/1:130:3,127:3:104:127:4535:-398.615,-29.4311,0 1/1:63:0,63:0:0:63:2260:-203.663,-18.9649,0 chr07 25652055 . AAAA GAAG 3628.51 PASS AB=0.501272;ABP=3.01583;AC=10;AF=0.238095;AN=42;AO=217;CIGAR=1X2M1X;DP=1183;DPB=1183;DPRA=0.715152;EPP=474.22;EPPR=2094.14;GTI=1;LEN=4;MEANALT=1;MQM=55.2949;MQMR=59.702;NS=21;NUMALT=1;ODDS=1.89;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7747;QR=34381;RO=963;RPL=0;RPP=474.22;RPPR=2094.14;RPR=217;RUN=1;SAF=217;SAP=474.22;SAR=0;SRF=963;SRP=2094.14;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:41,0:41:1473:0:0:0,-12.3422,-132.862 0/0:70:70,0:70:2513:0:0:0,-21.0721,-226.142 0/0:44:44,0:44:1566:0:0:0,-13.2453,-141.23 0/0:58:58,0:58:2069:0:0:0,-17.4597,-186.477 0/0:189:186,0:186:6636:0:0:0,-55.9916,-596.925 0/0:54:54,0:54:1941:0:0:0,-16.2556,-174.921 0/1:82:38,44:38:1352:44:1571:-116.454,0,-97.2691 1/1:20:0,20:0:0:20:714:-64.4956,-6.0206,0 0/0:78:78,0:78:2792:0:0:0,-23.4803,-251.52 0/0:6:6,0:6:214:0:0:0,-1.80618,-19.6078 0/1:5:3,2:3:108:2:72:-5.31438,0,-8.57002 0/1:23:13,10:13:467:10:353:-25.107,0,-35.4455 0/1:33:16,17:16:574:17:609:-45.1831,0,-42.0603 0/0:90:90,0:90:3214:0:0:0,-27.0927,-289.402 0/1:82:38,44:38:1350:44:1574:-117.204,0,-97.1157 0/1:92:45,47:45:1597:47:1682:-123.954,0,-115.952 0/0:86:86,0:86:3067:0:0:0,-25.8886,-276.254 0/1:52:23,29:23:827:29:1029:-77.0767,0,-59.0958 0/1:24:20,4:20:718:4:143:-5.99072,0,-57.7195 0/0:35:35,0:35:1223:0:0:0,-10.536,-110.371 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 chr07 25652066 . ATA GTC,GTA 25436.1 PASS AB=0.497462,0.502538;ABP=3.03235,3.03235;AC=32,10;AF=0.761905,0.238095;AN=42;AO=963,219;CIGAR=1X1M1X,1X2M;DP=1184;DPB=1184;DPRA=2.91,0.686557;EPP=2094.14,478.563;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.55,1.9;MQM=59.6937,55.4201;MQMR=0;NS=21;NUMALT=2;ODDS=2.00009;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33827,7849;QR=0;RO=0;RPL=0,0;RPP=2094.14,478.563;RPPR=0;RPR=963,219;RUN=1,1;SAF=963,219;SAP=2094.14,478.563;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,40,1:0:0:40,1:1395,36:-125.48,-12.0412,0,-122.543,-8.74396,-122.242 1/1:70:0,70,0:0:0:70,0:2502,0:-225.152,-21.0721,0,-225.152,-21.0721,-225.152 1/1:44:0,44,0:0:0:44,0:1563,0:-140.959,-13.2453,0,-140.959,-13.2453,-140.959 1/1:58:0,58,0:0:0:58,0:2016,0:-181.705,-17.4597,0,-181.705,-17.4597,-181.705 1/1:189:0,189,0:0:0:189,0:6617,0:-595.587,-56.8947,0,-595.587,-56.8947,-595.587 1/1:54:0,54,0:0:0:54,0:1930,0:-173.934,-16.2556,0,-173.934,-16.2556,-173.934 1/2:83:0,38,45:0:0:38,45:1322,1612:-238.71,-131.239,-119.8,-107.823,0,-94.277 2/2:20:0,0,20:0:0:0,20:0,697:-62.9692,-62.9692,-62.9692,-6.0206,-6.0206,0 1/1:78:0,78,0:0:0:78,0:2760,0:-248.642,-23.4803,0,-248.642,-23.4803,-248.642 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:5:0,3,2:0:0:3,2:108,72:-15.0303,-6.21747,-5.31438,-9.17208,0,-8.57002 1/2:23:0,13,10:0:0:13,10:456,360:-66.6661,-29.5614,-25.648,-37.4595,0,-34.4492 1/2:34:0,16,18:0:0:16,18:574,648:-100.026,-53.207,-48.3905,-47.1778,0,-41.7593 1/1:90:0,89,0:0:0:89,0:3110,0:-279.837,-26.7917,0,-279.837,-26.7917,-279.837 1/2:82:0,38,44:0:0:38,44:1335,1584:-238.193,-129.539,-118.1,-109.009,0,-95.7634 1/2:92:0,45,47:0:0:45,47:1548,1692:-264.018,-138.4,-124.853,-125.97,0,-111.822 1/1:86:0,86,0:0:0:86,0:3008,0:-270.948,-25.8886,0,-270.948,-25.8886,-270.948 1/2:51:0,23,28:0:0:23,28:823,1004:-149.228,-82.1207,-75.197,-67.465,0,-59.0362 1/2:24:0,20,4:0:0:20,4:677,144:-66.9674,-12.1032,-6.08257,-55.2203,0,-54.0162 1/1:35:0,35,0:0:0:35,0:1225,0:-110.545,-10.5361,0,-110.545,-10.5361,-110.545 1/1:19:0,18,0:0:0:18,0:642,0:-57.7506,-5.41854,0,-57.7506,-5.41854,-57.7506 chr07 25652075 . G A 3521.28 PASS AB=0.509186;ABP=3.28957;AC=10;AF=0.238095;AN=42;AO=214;CIGAR=1X;DP=1158;DPB=1158;DPRA=0.706297;EPP=467.705;EPPR=2050.71;GTI=1;LEN=1;MEANALT=1;MQM=55.4486;MQMR=59.7476;NS=21;NUMALT=1;ODDS=2.12263;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7559;QR=33616;RO=943;RPL=0;RPP=467.705;RPPR=2050.71;RPR=214;RUN=1;SAF=214;SAP=467.705;SAR=0;SRF=943;SRP=2050.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:41,0:41:1449:0:0:0,-12.3422,-130.701 0/0:69:69,0:69:2465:0:0:0,-20.7711,-221.824 0/0:44:44,0:44:1565:0:0:0,-13.2453,-141.137 0/0:57:57,0:57:2021:0:0:0,-17.1587,-182.156 0/0:186:186,0:186:6638:0:0:0,-55.9916,-597.474 0/0:53:53,0:53:1900:0:0:0,-15.9546,-171.242 0/1:81:37,44:37:1332:44:1550:-114.881,0,-95.7717 1/1:20:0,20:0:0:20:701:-63.3226,-6.0206,0 0/0:77:77,0:77:2749:0:0:0,-23.1793,-247.65 0/0:6:6,0:6:201:0:0:0,-1.80618,-18.417 0/1:5:3,2:3:108:2:72:-5.31438,0,-8.57002 0/1:21:11,10:11:396:10:345:-25.0125,0,-29.6611 0/1:34:16,18:16:576:18:636:-47.3095,0,-41.94 0/0:87:87,0:87:3097:0:0:0,-26.1896,-278.911 0/1:80:38,42:38:1364:42:1482:-109.526,0,-98.9783 0/1:87:40,47:40:1432:47:1661:-123.568,0,-102.985 0/0:84:83,0:83:2934:0:0:0,-24.9855,-263.929 0/1:50:23,27:23:828:27:968:-72.2641,0,-59.788 0/1:23:19,4:19:680:4:144:-6.3836,0,-54.6022 0/0:34:34,0:34:1201:0:0:0,-10.235,-108.385 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 chr07 25652112 . T C 19882.1 PASS AB=0.488312;ABP=3.46716;AC=32;AF=0.761905;AN=42;AO=930;CIGAR=1X;DP=1149;DPB=1149;DPRA=2.8225;EPP=2022.48;EPPR=474.22;GTI=1;LEN=1;MEANALT=1.1;MQM=59.6839;MQMR=55.424;NS=21;NUMALT=1;ODDS=2.8182;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32900;QR=7715;RO=217;RPL=930;RPP=2022.48;RPPR=474.22;RPR=0;RUN=1;SAF=930;SAP=2022.48;SAR=0;SRF=217;SRP=474.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:38:0,38:0:0:38:1345:-121.345,-11.4391,0 1/1:67:0,67:0:0:67:2375:-213.729,-20.169,0 1/1:42:0,42:0:0:42:1496:-134.932,-12.6433,0 1/1:57:0,57:0:0:57:1992:-179.547,-17.1587,0 1/1:183:0,182:0:0:182:6431:-578.497,-54.7875,0 1/1:53:0,53:0:0:53:1863:-167.912,-15.9546,0 0/1:79:44,35:44:1563:35:1256:-89.5394,0,-116.657 0/0:20:20,0:20:694:0:0:0,-6.0206,-62.7001 1/1:76:0,75:0:0:75:2659:-239.193,-22.5773,0 1/1:6:0,6:0:0:6:207:-18.9669,-1.80618,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.31438 0/1:23:10,13:10:360:13:456:-34.4495,0,-25.648 0/1:33:17,16:17:599:16:576:-42.241,0,-44.2816 1/1:88:0,88:0:0:88:3110:-280.03,-26.4906,0 0/1:82:44,38:44:1568:38:1343:-96.4849,0,-116.664 0/1:88:48,40:48:1724:40:1411:-100.421,0,-128.936 1/1:81:0,81:0:0:81:2866:-258.171,-24.3834,0 0/1:51:28,23:28:995:23:824:-59.1262,0,-74.3778 0/1:24:4,20:4:140:20:691:-55.2807,0,-5.71448 1/1:34:0,34:0:0:34:1207:-108.927,-10.235,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 chr07 25654020 . AG GT 26745.5 PASS AB=0.542574;ABP=10.9609;AC=32;AF=0.761905;AN=42;AO=1274;CIGAR=2X;DP=1601;DPB=1601;DPRA=0.963291;EPP=2769.47;EPPR=693.566;GTI=0;LEN=2;MEANALT=1.2;MQM=54.0651;MQMR=59.882;NS=21;NUMALT=1;ODDS=8.39746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44875;QR=11098;RO=322;RPL=0;RPP=2769.47;RPPR=693.566;RPR=1274;RUN=1;SAF=1274;SAP=2769.47;SAR=0;SRF=322;SRP=702.224;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:2,65:2:72:65:2264:-196.131,-13.3323,0 1/1:8:0,8:0:0:8:288:-26.2014,-2.40824,0 1/1:89:0,89:0:0:89:3111:-279.716,-26.7917,0 1/1:95:0,95:0:0:95:3338:-300.111,-28.5979,0 1/1:183:3,180:3:97:180:6372:-563.148,-46.0385,0 1/1:168:5,162:5:180:162:5750:-498.776,-34.079,0 0/1:111:54,57:54:1828:57:2001:-146.124,0,-131.379 0/0:79:79,0:79:2726:0:0:0,-23.7814,-245.581 1/1:161:0,159:0:0:159:5605:-502.403,-47.8638,0 1/1:15:0,15:0:0:15:532:-47.7737,-4.51545,0 0/1:6:4,2:4:140:2:56:-3.50333,0,-11.1386 0/1:15:6,9:6:190:9:309:-23.5922,0,-12.8953 0/1:126:48,78:48:1696:78:2764:-210.481,0,-114.996 1/1:45:1,44:1:36:44:1526:-133.83,-9.94808,0 0/1:114:55,58:55:1872:58:2050:-150.285,0,-134.469 0/1:14:6,8:6:216:8:286:-21.8603,0,-15.5761 1/1:27:0,27:0:0:27:948:-85.4723,-8.12781,0 0/1:70:38,32:38:1325:32:1121:-79.5791,0,-98.4737 0/1:49:19,30:19:648:30:1066:-81.2335,0,-43.8873 1/1:126:1,124:1:36:124:4336:-386.037,-34.3254,0 1/1:33:1,32:1:36:32:1152:-99.9483,-6.33572,0 chr07 25654028 . CA CG 26805.6 PASS AB=0.536779;ABP=8.92033;AC=32;AF=0.761905;AN=42;AO=1238;CIGAR=1M1X;DP=1566;DPB=1566;DPRA=0.953846;EPP=2613.69;EPPR=657.3;GTI=1;LEN=1;MEANALT=1.15;MQM=54.1729;MQMR=59.9065;NS=21;NUMALT=1;ODDS=9.75392;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44120;QR=11309;RO=321;RPL=9;RPP=2613.69;RPPR=657.3;RPR=1229;RUN=1;SAF=1238;SAP=2691.29;SAR=0;SRF=321;SRP=700.053;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:2,62:2:72:62:2200:-190.564,-12.4292,0 1/1:9:0,9:0:0:9:320:-28.9164,-2.70927,0 1/1:86:0,86:0:0:86:3076:-276.433,-25.8886,0 1/1:92:0,92:0:0:92:3278:-294.661,-27.6948,0 1/1:178:3,175:3:108:175:6236:-549.998,-43.5082,0 1/1:166:5,161:5:180:161:5746:-498.125,-33.4189,0 0/1:110:54,56:54:1903:56:1996:-145.202,0,-138.432 0/0:78:78,0:78:2778:0:0:0,-23.4803,-250.255 1/1:152:0,152:0:0:152:5405:-484.978,-45.7566,0 1/1:14:0,11:0:0:11:396:-35.5833,-3.31133,0 0/1:6:4,2:4:142:2:63:-4.16729,0,-11.323 0/1:14:6,8:6:214:8:288:-22.0157,0,-15.3933 0/1:125:47,77:47:1637:77:2752:-209.526,0,-109.926 1/1:42:1,41:1:36:41:1444:-126.353,-9.04499,0 0/1:117:56,58:56:1951:58:2084:-152.835,0,-141.177 0/1:14:6,8:6:211:8:288:-22.0419,0,-15.1188 1/1:27:0,27:0:0:27:963:-86.7075,-8.12781,0 0/1:69:38,31:38:1332:31:1107:-78.5413,0,-99.4055 0/1:48:18,30:18:637:30:1072:-82.0137,0,-43.2078 1/1:122:2,120:2:72:120:4262:-375.871,-29.8889,0 1/1:33:1,32:1:36:32:1144:-99.2375,-6.33572,0 chr07 25654046 . G C 5377.33 PASS AB=0.464503;ABP=8.40595;AC=10;AF=0.238095;AN=42;AO=321;CIGAR=1X;DP=1554;DPB=1554;DPRA=1.22298;EPP=700.053;EPPR=2680.44;GTI=0;LEN=1;MEANALT=1;MQM=59.9003;MQMR=54.1679;NS=21;NUMALT=1;ODDS=10.9754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11397;QR=43841;RO=1233;RPL=321;RPP=700.053;RPPR=2680.44;RPR=0;RUN=1;SAF=321;SAP=700.053;SAR=0;SRF=1233;SRP=2680.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:61,2:61:2160:2:72:0,-12.1282,-187.053 0/0:9:9,0:9:320:0:0:0,-2.70927,-28.9164 0/0:85:85,0:85:3024:0:0:0,-25.5875,-271.911 0/0:92:92,0:92:3280:0:0:0,-27.6948,-294.857 0/0:174:171,3:171:6104:3:108:0,-42.304,-537.869 0/0:165:160,5:160:5694:5:180:0,-33.1179,-493.068 0/1:107:53,54:53:1887:54:1899:-138.975,0,-136.326 1/1:79:0,79:0:0:79:2808:-252.955,-23.7814,0 0/0:157:157,0:157:5556:0:0:0,-47.2617,-497.944 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.2559 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.08408 0/1:15:9,6:9:315:6:216:-15.2751,0,-24.134 0/1:125:78,47:78:2777:47:1679:-113.768,0,-211.831 0/0:42:41,1:41:1425:1:36:0,-9.04498,-124.788 0/1:113:57,56:57:2037:56:1981:-144.452,0,-149.364 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1054 0/0:26:26,0:26:932:0:0:0,-7.82678,-83.9211 0/1:67:30,37:30:1064:37:1310:-98.0311,0,-75.5435 0/1:48:29,19:29:1010:19:676:-46.7186,0,-76.4323 0/0:122:121,1:121:4328:1:36:0,-33.1274,-385.057 0/0:33:32,1:32:1136:1:36:0,-6.33571,-98.5266 chr07 25654137 . A C 27526.7 PASS AB=0.550247;ABP=16.3217;AC=32;AF=0.761905;AN=42;AO=1274;CIGAR=1X;DP=1626;DPB=1626;DPRA=1.034;EPP=2760.79;EPPR=765.197;GTI=1;LEN=1;MEANALT=1.05;MQM=59.989;MQMR=60;NS=21;NUMALT=1;ODDS=3.88561;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45567;QR=12601;RO=351;RPL=1273;RPP=2760.79;RPPR=765.197;RPR=1;RUN=1;SAF=0;SAP=2769.47;SAR=1274;SRF=0;SRP=765.197;SRR=351;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:25:0,25:0:0:25:885:-79.9665,-7.52575,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 1/1:87:0,87:0:0:87:3094:-278.685,-26.1896,0 1/1:243:0,243:0:0:243:8700:-782.989,-73.1503,0 1/1:98:1,97:1:36:97:3484:-310.172,-25.9027,0 1/1:54:0,54:0:0:54:1932:-174.156,-16.2556,0 0/1:82:36,46:36:1296:46:1637:-122.932,0,-92.2595 0/0:75:75,0:75:2692:0:0:0,-22.5772,-242.524 1/1:123:0,123:0:0:123:4407:-396.802,-37.0267,0 1/1:28:0,28:0:0:28:993:-89.6825,-8.42884,0 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:33:20,13:20:720:13:464:-32.1635,0,-55.1948 0/1:128:57,71:57:2048:71:2548:-191.038,0,-146.06 1/1:76:0,76:0:0:76:2724:-245.403,-22.8783,0 0/1:91:35,56:35:1252:56:2016:-154.319,0,-85.5913 0/1:33:15,18:15:540:18:648:-48.7179,0,-39.0025 1/1:35:0,35:0:0:35:1238:-111.723,-10.5361,0 0/1:165:85,80:85:3045:80:2842:-206.346,0,-224.608 0/1:68:24,44:24:864:44:1580:-122.022,0,-57.6125 1/1:74:0,73:0:0:73:2616:-235.488,-21.9752,0 1/1:74:2,72:2:72:72:2575:-225.162,-15.4395,0 chr07 25655596 . G T 7075.09 PASS AB=0.504146;ABP=3.10033;AC=10;AF=0.238095;AN=42;AO=396;CIGAR=1X;DP=1761;DPB=1761;DPRA=1.79818;EPP=862.913;EPPR=2964.9;GTI=0;LEN=1;MEANALT=1.07692;MQM=54.6061;MQMR=56.3644;NS=21;NUMALT=1;ODDS=8.98859;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14228;QR=48691;RO=1364;RPL=0;RPP=862.913;RPPR=2964.9;RPR=396;RUN=1;SAF=396;SAP=862.913;SAR=0;SRF=1364;SRP=2964.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:106:106,0:106:3776:0:0:0,-31.9092,-339.956 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.029 0/0:65:63,2:63:2252:2:72:0,-12.7311,-196.047 0/0:78:78,0:78:2796:0:0:0,-23.4803,-251.812 0/0:178:176,2:176:6284:2:72:0,-46.7475,-558.712 0/0:97:97,0:97:3452:0:0:0,-29.1999,-309.261 0/1:174:74,100:74:2656:100:3592:-269.387,0,-185.626 1/1:86:0,86:0:0:86:3088:-277.547,-25.8886,0 0/0:257:256,1:256:9132:1:36:0,-73.7669,-818.096 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2302 0/1:6:3,3:3:108:3:108:-8.21437,0,-8.21437 0/1:38:15,23:15:540:23:828:-63.2988,0,-37.4149 0/1:103:51,52:51:1832:52:1872:-137.72,0,-134.13 0/0:66:66,0:66:2360:0:0:0,-19.868,-212.592 0/1:159:95,64:95:3400:64:2296:-158.991,0,-258.293 0/1:59:27,32:27:964:32:1152:-86.2165,0,-69.2884 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5901 0/1:47:27,19:27:956:19:680:-47.2245,0,-72.0305 0/1:17:6,11:6:216:11:396:-30.8608,0,-14.6706 0/0:123:122,1:122:4363:1:36:0,-33.4335,-388.616 0/0:25:25,0:25:852:0:0:0,-7.52575,-76.6449 chr07 25655598 . A T 29536.7 PASS AB=0.494932;ABP=3.14235;AC=32;AF=0.761905;AN=42;AO=1364;CIGAR=1X;DP=1754;DPB=1754;DPRA=0.981765;EPP=2964.9;EPPR=849.885;GTI=0;LEN=1;MEANALT=1;MQM=56.4516;MQMR=54.641;NS=21;NUMALT=1;ODDS=8.39277;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48884;QR=13690;RO=390;RPL=0;RPP=2964.9;RPPR=849.885;RPR=1364;RUN=1;SAF=1364;SAP=2964.9;SAR=0;SRF=390;SRP=849.885;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106:0:0:106:3796:-341.762,-31.9092,0 1/1:41:0,41:0:0:41:1467:-131.619,-12.3422,0 1/1:64:2,62:2:72:62:2219:-193.092,-12.43,0 1/1:80:0,80:0:0:80:2851:-256.743,-24.0824,0 1/1:180:2,178:2:72:178:6383:-567.586,-47.3495,0 1/1:95:0,95:0:0:95:3412:-305.644,-28.5979,0 0/1:167:96,71:96:3361:71:2544:-177.722,0,-250.995 0/0:85:85,0:85:2978:0:0:0,-25.5875,-267.692 1/1:261:1,260:1:36:260:9305:-833.689,-74.971,0 1/1:8:0,8:0:0:8:288:-26.2302,-2.40824,0 0/1:6:3,3:3:108:3:108:-8.21437,0,-8.21437 0/1:37:22,15:22:761:15:540:-37.716,0,-57.5827 0/1:103:52,51:52:1822:51:1836:-134.49,0,-133.224 1/1:68:0,68:0:0:68:2440:-219.783,-20.47,0 0/1:157:63,94:63:2208:94:3376:-256.728,0,-151.682 0/1:59:32,27:32:1140:27:972:-70.009,0,-85.1363 1/1:27:0,27:0:0:27:968:-87.4267,-8.12781,0 0/1:46:20,26:20:700:26:932:-70.2343,0,-49.3923 0/1:17:11,6:11:396:6:216:-14.6706,0,-30.8608 1/1:122:1,121:1:36:121:4344:-386.906,-33.1325,0 1/1:25:0,25:0:0:25:887:-79.7331,-7.52575,0 chr07 25655667 . T C 6822.04 PASS AB=0.484536;ABP=4.21916;AC=9;AF=0.214286;AN=42;AO=385;CIGAR=1X;DP=1800;DPB=1800;DPRA=1.35963;EPP=839.027;EPPR=3071.3;GTI=0;LEN=1;MEANALT=1.1;MQM=60;MQMR=59.9476;NS=21;NUMALT=1;ODDS=10.0921;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13643;QR=50253;RO=1413;RPL=0;RPP=839.027;RPPR=3071.3;RPR=385;RUN=1;SAF=0;SAP=839.027;SAR=385;SRF=0;SRP=3071.3;SRR=1413;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:69,1:69:2456:1:36:0,-17.4738,-217.694 0/0:56:56,0:56:1991:0:0:0,-16.8577,-179.464 0/0:101:100,0:100:3539:0:0:0,-30.103,-318.362 0/0:123:123,0:123:4331:0:0:0,-37.0267,-389.963 0/0:243:240,2:240:8548:2:72:0,-66.3724,-762.485 0/0:40:40,0:40:1423:0:0:0,-12.0412,-128.367 0/1:68:26,42:26:924:42:1476:-112.662,0,-63.0076 1/1:100:0,100:0:0:100:3539:-318.722,-30.103,0 0/0:166:166,0:166:5908:0:0:0,-49.971,-531.745 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:37:20,17:20:716:17:608:-43.9139,0,-53.6296 0/1:114:58,56:58:2061:56:1992:-145.237,0,-151.442 0/0:94:94,0:94:3351:0:0:0,-28.2968,-301.805 0/1:208:97,111:97:3455:111:3950:-293.078,0,-248.549 0/1:68:44,24:44:1567:24:842:-55.627,0,-120.851 0/0:121:121,0:121:4316:0:0:0,-36.4246,-388.618 0/1:47:26,21:26:936:21:740:-52.775,0,-70.4111 0/1:40:29,11:29:1036:11:388:-23.2162,0,-81.4566 0/0:68:68,0:68:2411:0:0:0,-20.47,-217.247 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0615 chr07 25655678 . GACTC AGCTT,AACTT 44085.4 PASS AB=0.516129,0.481066;ABP=4.62139,5.2305;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1619,451;CIGAR=2X2M1X,1X3M1X;DP=2076;DPB=2076.2;DPRA=0.948077,1.12139;EPP=3518.62,982.344;EPPR=0;GTI=0;LEN=5,5;MEANALT=1.85,2.08333;MQM=59.9419,59.9933;MQMR=0;NS=21;NUMALT=2;ODDS=1.80915;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=56618,15818;QR=0;RO=0;RPL=0,0;RPP=3518.62,982.344;RPPR=0;RPR=1619,451;RUN=1,1;SAF=0,0;SAP=3518.62,982.344;SAR=1619,451;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,69,1:0:0:69,1:2390,36:-214.998,-20.7711,0,-212.061,-17.4738,-211.76 1/1:93:0,93,0:0:0:93,0:3271,0:-294.612,-27.9958,0,-294.612,-27.9958,-294.612 1/1:104:0,103,0:0:0:103,0:3591,0:-323.091,-31.0061,0,-323.091,-31.0061,-323.091 1/1:124:0,124,0:0:0:124,0:4337,0:-390.451,-37.3277,0,-390.451,-37.3277,-390.451 1/1:247:0,245,2:0:0:245,2:8589,67:-772.692,-73.7524,0,-767.266,-67.9916,-766.664 1/1:110:0,109,1:0:0:109,1:3817,36:-343.374,-32.8123,0,-340.437,-29.515,-340.136 1/2:174:0,82,92:0:0:82,92:2865,3212:-494.666,-261.611,-236.927,-233.404,0,-205.709 2/2:104:0,0,104:0:0:0,104:0,3627:-326.64,-326.64,-326.64,-31.3071,-31.3071,0 1/1:170:0,168,0:0:0:168,0:5822,0:-523.812,-50.573,0,-523.812,-50.573,-523.812 1/1:17:0,17,0:0:0:17,0:605,0:-54.781,-5.11751,0,-54.781,-5.11751,-54.781 1/2:14:0,11,3:0:0:11,3:391,108:-41.0317,-9.17208,-5.86075,-32.2185,0,-31.3154 1/2:38:0,21,17:0:0:21,17:751,612:-111.532,-50.2959,-43.9743,-61.5948,0,-56.4773 1/2:119:0,59,60:0:0:59,60:2042,2114:-338.407,-172.466,-154.705,-166.29,0,-148.228 1/1:94:0,94,0:0:0:94,0:3303,0:-297.492,-28.2968,0,-297.492,-28.2968,-297.492 1/2:212:0,96,115:0:0:96,115:3404,4044:-606.55,-329.225,-300.326,-277.367,0,-242.749 1/2:68:0,43,24:0:0:43,24:1513,847:-192.28,-69.1089,-56.1646,-123.307,0,-116.082 1/1:121:0,120,0:0:0:120,0:4197,0:-377.62,-36.1236,0,-377.62,-36.1236,-377.62 1/2:47:0,26,21:0:0:26,21:927,747:-136.799,-61.2334,-53.4067,-75.9213,0,-69.5997 1/2:41:0,30,11:0:0:30,11:1032,368:-113.934,-30.1314,-21.1005,-84.1397,0,-80.8284 1/1:72:0,72,0:0:0:72,0:2496,0:-224.893,-21.6742,0,-224.893,-21.6742,-224.893 1/1:37:0,37,0:0:0:37,0:1275,0:-115.047,-11.1381,0,-115.047,-11.1381,-115.047 chr07 25825232 . G A 39153.4 PASS AB=0.629853;ABP=172.758;AC=33;AF=0.785714;AN=42;AO=1853;CIGAR=1X;DP=2316;DPB=2316;DPRA=3.56875;EPP=4026.75;EPPR=1008.4;GTI=1;LEN=1;MEANALT=1;MQM=56.2385;MQMR=42.5184;NS=21;NUMALT=1;ODDS=4.07739;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66345;QR=16521;RO=463;RPL=0;RPP=4026.75;RPPR=1008.4;RPR=1853;RUN=1;SAF=1853;SAP=4026.75;SAR=0;SRF=463;SRP=1008.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,83:0:0:83:2961:-265.652,-24.9855,0 1/1:49:0,49:0:0:49:1741:-156.284,-14.7505,0 1/1:46:0,46:0:0:46:1637:-147.553,-13.8474,0 1/1:49:0,49:0:0:49:1756:-158.124,-14.7505,0 1/1:118:0,118:0:0:118:4199:-377.529,-35.5215,0 1/1:68:1,67:1:36:67:2403:-212.326,-16.9893,0 0/1:68:12,56:12:432:56:2008:-160.14,0,-17.4695 0/0:32:32,0:32:1152:0:0:0,-9.63296,-101.746 1/1:106:0,106:0:0:106:3808:-342.746,-31.9092,0 1/1:394:0,394:0:0:394:14125:-1267.05,-118.606,0 0/1:218:39,179:39:1392:179:6417:-509.995,0,-54.5686 0/1:370:142,228:142:5053:228:8141:-618.94,0,-331.872 0/1:36:20,16:20:720:16:564:-40.2028,0,-52.9191 1/1:71:0,71:0:0:71:2548:-228.774,-21.3731,0 1/1:28:1,27:1:36:27:957:-83.1808,-5.3743,0 0/1:17:2,15:2:72:15:540:-43.819,0,-1.65943 1/1:40:0,40:0:0:40:1440:-129.796,-12.0412,0 0/1:406:201,205:201:7160:205:7360:-538.143,0,-506.29 0/1:44:13,31:13:468:31:1116:-87.3545,0,-28.1538 1/1:52:0,52:0:0:52:1872:-168.635,-15.6536,0 1/1:21:0,21:0:0:21:752:-67.7109,-6.32163,0 chr07 25825238 . ACCAAAC AACGAAC,GCCGAAT 48587.8 PASS AB=0.62116,0.372867;ABP=152.449,167.546;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1843,474;CIGAR=1M1X1M1X3M,1X2M1X2M1X;DP=2337;DPB=2337;DPRA=3.28857,1.38617;EPP=3961.72,1014.99;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.25,2.7;MQM=56.3407,42.481;MQMR=0;NS=21;NUMALT=2;ODDS=2.51259;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64798,16665;QR=0;RO=0;RPL=5,2;RPP=3961.72,1014.99;RPPR=0;RPR=1838,472;RUN=1,1;SAF=1843,474;SAP=4005.03,1032.29;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,80,0:0:0:80,0:2786,0:-250.425,-24.0824,0,-250.425,-24.0824,-250.425 1/1:49:0,49,0:0:0:49,0:1711,0:-153.757,-14.7505,0,-153.757,-14.7505,-153.757 1/1:46:0,46,0:0:0:46,0:1617,0:-145.789,-13.8474,0,-145.789,-13.8474,-145.789 1/1:50:0,50,0:0:0:50,0:1741,0:-156.772,-15.0515,0,-156.772,-15.0515,-156.772 1/1:119:0,119,0:0:0:119,0:4192,0:-376.92,-35.8226,0,-376.92,-35.8226,-376.92 1/1:68:0,66,1:0:0:66,1:2352,36:-210.987,-19.868,0,-208.155,-17.0107,-207.854 1/2:68:0,56,12:0:0:56,12:1970,427:-194.013,-33.9697,-17.112,-160.39,0,-156.777 2/2:35:0,0,35:0:0:0,35:0,1229:-108.629,-108.629,-108.629,-10.5361,-10.5361,0 1/1:107:0,106,0:0:0:106,0:3746,0:-336.92,-31.9092,0,-336.92,-31.9092,-336.92 1/1:395:0,391,0:0:0:391,0:13677,0:-1228.31,-117.703,0,-1228.31,-117.703,-1228.31 1/2:220:0,180,40:0:0:180,40:6309,1406:-621.184,-109.474,-55.2884,-512.049,0,-500.008 1/2:374:0,225,146:0:0:225,146:7969,5112:-1052.51,-405.214,-337.482,-647.305,0,-603.355 1/2:39:0,16,21:0:0:16,21:561,734:-104.472,-58.8683,-54.0518,-45.6487,0,-39.3271 1/1:72:0,71,0:0:0:71,0:2442,0:-219.398,-21.3731,0,-219.398,-21.3731,-219.398 1/1:28:0,26,1:0:0:26,1:921,36:-82.7693,-7.82678,0,-80.323,-5.40205,-80.0219 1/2:17:0,15,2:0:0:15,2:535,72:-49.7873,-6.17488,-1.65943,-43.9691,0,-43.3671 1/1:40:0,39,0:0:0:39,0:1386,0:-124.681,-11.7402,0,-124.681,-11.7402,-124.681 1/2:410:0,205,203:0:0:205,203:7254,7156:-1157.25,-567.55,-505.839,-589.746,0,-528.637 1/2:44:0,31,13:0:0:31,13:1091,457:-125.259,-36.5692,-27.2372,-89.0356,0,-85.1223 1/1:52:0,51,0:0:0:51,0:1807,0:-162.484,-15.3525,0,-162.484,-15.3525,-162.484 1/1:21:0,21,0:0:0:21,0:731,0:-65.8353,-6.32163,0,-65.8353,-6.32163,-65.8353 chr07 25825265 . C T 6640.92 PASS AB=0.3726;ABP=164.571;AC=9;AF=0.214286;AN=42;AO=465;CIGAR=1X;DP=2283;DPB=2283;DPRA=2.40633;EPP=1012.74;EPPR=3948.58;GTI=1;LEN=1;MEANALT=1.09091;MQM=42.3828;MQMR=56.3049;NS=21;NUMALT=1;ODDS=3.03405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16592;QR=64077;RO=1817;RPL=465;RPP=1012.74;RPPR=3948.58;RPR=0;RUN=1;SAF=465;SAP=1012.74;SAR=0;SRF=1817;SRP=3948.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:82:82,0:82:2885:0:0:0,-24.6845,-259.339 0/0:49:49,0:49:1728:0:0:0,-14.7505,-155.52 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.543 0/0:48:48,0:48:1673:0:0:0,-14.4494,-150.656 0/0:114:114,0:114:4060:0:0:0,-34.3174,-365.021 0/0:65:63,1:63:2248:1:36:0,-16.1333,-198.487 0/1:67:55,12:55:1942:12:428:-17.4689,0,-154.51 1/1:34:0,34:0:0:34:1207:-106.49,-10.235,0 0/0:105:105,0:105:3701:0:0:0,-31.6081,-333.14 0/0:385:384,1:384:13535:1:36:0,-112.376,-1212.1 0/1:215:176,39:176:6176:39:1380:-54.9794,0,-489.861 0/1:368:225,143:225:7935:143:5120:-338.446,0,-600.655 0/1:37:14,23:14:496:23:824:-61.2353,0,-33.7862 0/0:71:71,0:71:2499:0:0:0,-21.3731,-224.406 0/0:27:25,2:25:892:2:72:0,-1.85491,-74.1643 0/1:17:15,2:15:527:2:72:-1.65943,0,-42.6427 0/0:38:38,0:38:1347:0:0:0,-11.4391,-121.428 0/1:399:204,195:204:7176:195:6957:-489.525,0,-524.236 0/1:43:30,13:30:1053:13:460:-27.7836,0,-81.9839 0/0:52:52,0:52:1837:0:0:0,-15.6536,-165.49 0/0:21:21,0:21:719:0:0:0,-6.32163,-64.8061 chr07 25829918 . G A 2919.48 PASS AB=0.457317;ABP=8.20065;AC=10;AF=0.238095;AN=42;AO=179;CIGAR=1X;DP=969;DPB=969;DPRA=0.760209;EPP=391.704;EPPR=1716.3;GTI=0;LEN=1;MEANALT=1;MQM=59.8268;MQMR=60;NS=21;NUMALT=1;ODDS=0.0212148;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6379;QR=27950;RO=789;RPL=0;RPP=391.704;RPPR=1716.3;RPR=179;RUN=1;SAF=0;SAP=391.704;SAR=179;SRF=0;SRP=1716.3;SRR=789;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:62,0:62:2198:0:0:0,-18.6639,-198.085 0/0:60:60,0:60:2121:0:0:0,-18.0618,-191.157 0/0:29:29,0:29:1031:0:0:0,-8.72987,-93.1026 0/0:40:40,0:40:1405:0:0:0,-12.0412,-126.745 0/0:103:103,0:103:3568:0:0:0,-31.0061,-321.331 0/0:40:39,1:39:1372:1:36:0,-8.44292,-120.178 0/1:65:36,29:36:1276:29:1040:-74.3474,0,-95.5761 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 0/1:19:6,13:6:216:13:464:-36.3779,0,-14.0709 0/1:50:39,11:39:1396:11:396:-20.9312,0,-110.888 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/1:69:39,30:39:1387:30:1064:-75.2984,0,-104.357 0/1:31:13,18:13:468:18:640:-48.5932,0,-33.1277 0/0:67:66,0:66:2363:0:0:0,-19.868,-212.568 0/1:48:22,26:22:769:26:923:-68.9188,0,-55.0792 0/1:42:21,21:21:744:21:748:-55.002,0,-54.6411 0/0:52:52,0:52:1829:0:0:0,-15.6536,-164.886 0/0:57:57,0:57:2035:0:0:0,-17.1587,-183.422 chr07 25829936 . TG CA 2964.52 PASS AB=0.459941;ABP=7.70764;AC=10;AF=0.238095;AN=42;AO=186;CIGAR=2X;DP=999;DPB=999;DPRA=0.765705;EPP=406.904;EPPR=1759.74;GTI=0;LEN=2;MEANALT=1;MQM=59.7527;MQMR=59.9988;NS=21;NUMALT=1;ODDS=0.00600202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6529;QR=28462;RO=813;RPL=0;RPP=406.904;RPPR=1759.74;RPR=186;RUN=1;SAF=0;SAP=406.904;SAR=186;SRF=0;SRP=1768.42;SRR=813;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:63,0:63:2205:0:0:0,-18.9649,-198.714 0/0:61:61,0:61:2149:0:0:0,-18.3628,-193.676 0/0:30:30,0:30:1069:0:0:0,-9.0309,-96.522 0/0:40:40,0:40:1397:0:0:0,-12.0412,-126.026 0/0:107:107,0:107:3677:0:0:0,-32.2102,-331.133 0/0:43:42,1:42:1464:1:36:0,-9.34601,-128.453 0/1:66:36,30:36:1264:30:1072:-76.9249,0,-94.1934 1/1:30:0,30:0:0:30:1007:-90.9292,-9.0309,0 0/0:62:62,0:62:2185:0:0:0,-18.6639,-196.915 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 0/1:19:6,13:6:214:13:464:-36.3782,0,-13.8882 0/1:51:39,12:39:1371:12:416:-22.4157,0,-108.333 0/0:39:39,0:39:1360:0:0:0,-11.7402,-122.695 0/1:70:40,30:40:1415:30:1041:-72.9199,0,-106.575 0/1:34:14,20:14:482:20:716:-54.5287,0,-33.4702 0/0:68:68,0:68:2374:0:0:0,-20.47,-213.915 0/1:51:24,27:24:841:27:953:-70.7281,0,-60.6552 0/1:42:21,21:21:747:21:756:-55.724,0,-54.9119 0/0:55:55,0:55:1938:0:0:0,-16.5566,-174.695 0/0:59:59,0:59:2058:0:0:0,-17.7608,-185.49 chr07 25849210 . AAGT AAGAGA,AAGAAA 84929.4 PASS AB=0.50118,0.487018;ABP=3.02568,4.87083;AC=33,9;AF=0.785714,0.214286;AN=42;AO=3254,795;CIGAR=1M2I2M1X,3M2I1X;DP=4083;DPB=6118.75;DPRA=1.13692,1.46419;EPP=7068.98,1729.33;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.7,3.18182;MQM=41.0541,59.7635;MQMR=0;NS=21;NUMALT=2;ODDS=24.3434;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=115190,28175;QR=0;RO=0;RPL=3254,795;RPP=7068.98,1729.33;RPPR=0;RPR=0,0;RUN=1,1;SAF=3254,795;SAP=7068.98,1729.33;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:404:0,401,1:0:0:401,1:14234,36:-1244.21,-120.713,0,-1241.27,-117.757,-1240.97 1/1:176:0,174,0:0:0:174,0:6148,0:-531.151,-52.3792,0,-531.151,-52.3792,-531.151 1/1:176:0,176,0:0:0:176,0:6242,0:-545.277,-52.9813,0,-545.277,-52.9813,-545.277 1/1:244:0,243,0:0:0:243,0:8614,0:-752.291,-73.1503,0,-752.291,-73.1503,-752.291 1/1:495:0,491,2:0:0:491,2:17405,72:-1517.81,-147.806,0,-1511.94,-141.903,-1511.33 1/1:177:0,175,1:0:0:175,1:6168,36:-536.616,-52.6803,0,-533.678,-49.7323,-533.377 1/2:267:0,123,144:0:0:123,144:4355,5076:-753.992,-413.584,-376.557,-340.755,0,-297.406 2/2:172:0,0,172:0:0:0,172:0,6088:-547.991,-547.991,-547.991,-51.7772,-51.7772,0 1/1:307:0,303,0:0:0:303,0:10790,0:-934.293,-91.2121,0,-934.293,-91.2121,-934.293 1/1:26:0,26,0:0:0:26,0:925,0:-79.482,-7.82678,0,-79.482,-7.82678,-79.482 1/1:10:0,7,0:0:0:7,0:250,0:-21.3504,-2.10721,0,-21.3504,-2.10721,-21.3504 1/2:35:0,19,16:0:0:19,16:684,568:-99.8758,-46.5045,-40.7849,-53.7214,0,-48.9049 1/2:267:0,151,106:0:0:151,106:5339,3772:-729.647,-307.423,-261.968,-422.229,0,-390.32 1/1:203:0,202,0:0:0:202,0:7062,0:-615.799,-60.8081,0,-615.799,-60.8081,-615.799 1/2:259:0,99,160:0:0:99,160:3523,5680:-740.489,-463.149,-433.347,-277.689,0,-229.524 1/2:227:0,108,117:0:0:108,117:3782,4146:-633.84,-337.735,-305.224,-296.107,0,-260.886 1/1:185:0,185,0:0:0:185,0:6533,0:-568.397,-55.6906,0,-568.397,-55.6906,-568.397 1/2:103:0,66,34:0:0:66,34:2331,1213:-278.671,-98.9044,-79.0364,-179.788,0,-169.553 1/2:113:0,71,42:0:0:71,42:2529,1488:-320.919,-121.568,-100.195,-199.702,0,-187.059 1/1:175:0,173,0:0:0:173,0:6119,0:-527.266,-52.0782,0,-527.266,-52.0782,-527.266 1/1:62:0,61,0:0:0:61,0:2157,0:-186.65,-18.3628,0,-186.65,-18.3628,-186.65 chr07 25849221 . G A 195765 PASS AB=0.527982;ABP=21.4822;AC=32;AF=0.761905;AN=42;AO=7212;CIGAR=1X;DP=8883;DPB=8883;DPRA=1.15693;EPP=15663.7;EPPR=3625.03;GTI=1;LEN=1;MEANALT=1.15;MQM=51.6016;MQMR=59.8759;NS=21;NUMALT=1;ODDS=43.7072;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=256227;QR=58892;RO=1668;RPL=3181;RPP=220.549;RPPR=13.5552;RPR=4031;RUN=1;SAF=3181;SAP=220.549;SAR=4031;SRF=789;SRP=13.5552;SRR=879;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:946:2,944:2:72:944:33533:-2973.6,-277.938,0 1/1:447:0,447:0:0:447:15897:-1407.17,-134.56,0 1/1:339:3,336:3:104:336:11945:-1048.31,-92.3464,0 1/1:507:0,507:0:0:507:17978:-1594.55,-152.622,0 1/1:914:7,906:7:248:906:32152:-2819.17,-252.527,0 1/1:545:5,540:5:176:540:19223:-1694.94,-147.876,0 0/1:580:263,317:263:9278:317:11254:-823.536,0,-660.354 0/0:368:368,0:368:12991:0:0:0,-110.779,-1168.99 1/1:696:2,694:2:72:694:24630:-2172.95,-202.68,0 1/1:71:0,71:0:0:71:2531:-223.921,-21.3731,0 0/1:21:3,18:3:108:18:644:-50.7003,0,-3.75354 0/1:72:40,32:40:1383:32:1125:-77.6135,0,-102.959 0/1:618:304,313:304:10686:313:11195:-807.395,0,-775.71 1/1:298:0,298:0:0:298:10582:-930.247,-89.7069,0 0/1:610:314,296:314:11148:296:10538:-755.164,0,-818.954 0/1:450:226,224:226:7985:224:7942:-567.096,0,-583.189 1/1:463:0,463:0:0:463:16409:-1457.29,-139.377,0 0/1:169:64,104:64:2262:104:3701:-270.154,0,-152.905 0/1:196:66,130:66:2343:130:4626:-350.872,0,-152.127 1/1:454:1,453:1:36:453:16106:-1422.14,-133.069,0 1/1:119:0,119:0:0:119:4216:-372.786,-35.8226,0 chr07 25849227 . T C 197468 PASS AB=0.524052;ABP=16.7988;AC=32;AF=0.761905;AN=42;AO=7261;CIGAR=1X;DP=8968;DPB=8968;DPRA=1.13311;EPP=15770.1;EPPR=3705.37;GTI=1;LEN=1;MEANALT=1.1;MQM=51.5822;MQMR=59.8745;NS=21;NUMALT=1;ODDS=34.4353;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=258419;QR=60919;RO=1705;RPL=3210;RPP=214.53;RPPR=25.5388;RPR=4051;RUN=1;SAF=3210;SAP=214.53;SAR=4051;SRF=786;SRP=25.5388;SRR=919;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:957:2,955:2:72:955:33931:-3008.76,-281.249,0 1/1:451:1,450:1:36:450:16022:-1415.57,-132.181,0 1/1:345:3,342:3:108:342:12175:-1067.62,-93.7802,0 1/1:518:0,518:0:0:518:18438:-1635.26,-155.934,0 1/1:922:7,915:7:252:915:32533:-2854.92,-254.521,0 1/1:549:5,544:5:180:544:19434:-1712.59,-148.713,0 0/1:585:267,318:267:9519:318:11301:-826.861,0,-680.515 0/0:379:379,0:379:13568:0:0:0,-114.09,-1220.89 1/1:691:1,690:1:36:690:24577:-2170.69,-204.413,0 1/1:71:0,71:0:0:71:2539:-224.697,-21.3731,0 0/1:21:4,17:4:144:17:612:-48.4527,0,-6.99199 0/1:73:40,33:40:1415:33:1184:-82.4498,0,-105.542 0/1:624:310,314:310:11060:314:11182:-804.723,0,-807.441 1/1:301:1,299:1:36:299:10538:-923.761,-87.0802,0 0/1:616:320,296:320:11468:296:10587:-757.305,0,-845.921 0/1:459:234,225:234:8364:225:7971:-565.986,0,-614.567 1/1:468:0,468:0:0:468:16692:-1481.34,-140.882,0 0/1:168:65,103:65:2332:103:3658:-266.761,0,-159.56 0/1:198:66,132:66:2329:132:4728:-359.171,0,-150.26 1/1:451:0,450:0:0:450:16027:-1419.14,-135.464,0 1/1:121:0,121:0:0:121:4290:-379.031,-36.4246,0 chr07 25859683 . T C 2179.61 PASS AB=0.392593;ABP=30.0652;AC=10;AF=0.238095;AN=42;AO=136;CIGAR=1X;DP=660;DPB=660;DPRA=1.11111;EPP=298.331;EPPR=1140.86;GTI=1;LEN=1;MEANALT=1;MQM=59.9485;MQMR=59.9599;NS=21;NUMALT=1;ODDS=3.79607;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4858;QR=18697;RO=524;RPL=136;RPP=298.331;RPPR=1140.86;RPR=0;RUN=1;SAF=0;SAP=298.331;SAR=136;SRF=0;SRP=1140.86;SRR=524;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:53,0:53:1874:0:0:0,-15.9546,-168.935 0/0:24:24,0:24:849:0:0:0,-7.22472,-76.7273 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.738 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 0/0:55:55,0:55:1931:0:0:0,-16.5566,-174.061 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:47:30,17:30:1080:17:608:-40.9036,0,-83.3648 1/1:30:0,30:0:0:30:1061:-95.7994,-9.0309,0 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:8:7,1:7:252:1:36:-1.19004,0,-20.6207 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/1:25:17,8:17:612:8:288:-18.7417,0,-47.8877 0/0:35:35,0:35:1245:0:0:0,-10.536,-112.353 0/1:46:28,18:28:993:18:648:-44.8045,0,-75.8351 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:16:16,0:16:561:0:0:0,-4.81648,-50.8171 0/1:71:40,31:40:1440:31:1116:-79.3786,0,-108.525 0/1:55:33,22:33:1184:22:777:-53.6875,0,-90.3117 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 chr07 25902878 . TCAA TCAG,TCAC 38179.4 PASS AB=0.506706,0.47839;ABP=3.27243,5.73192;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1465,415;CIGAR=3M1X,3M1X;DP=1897;DPB=1897;DPRA=1.12099,1.23761;EPP=3149.57,786.671;EPPR=11.6962;GTI=0;LEN=1,1;MEANALT=2.05,2.38462;MQM=38.7563,40.5663;MQMR=53;NS=21;NUMALT=2;ODDS=1.90397;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52236,14715;QR=135;RO=4;RPL=1461,401;RPP=3149.57,786.671;RPPR=11.6962;RPR=4,14;RUN=1,1;SAF=1465,415;SAP=3184.22,904.171;SAR=0,0;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,76,2:0:0:76,2:2688,68:-228.511,-22.8783,0,-223.094,-17.1269,-222.492 1/1:63:0,62,0:0:0:62,0:2224,0:-177.613,-18.6639,0,-177.613,-18.6639,-177.613 1/1:85:0,85,0:0:0:85,0:3029,0:-257.148,-25.5876,0,-257.148,-25.5876,-257.148 1/1:85:0,83,0:0:0:83,0:2984,0:-255.783,-24.9855,0,-255.783,-24.9855,-255.783 1/1:239:0,230,9:0:0:230,9:8234,324:-704.175,-69.2369,0,-678.483,-43.1951,-675.774 1/1:84:0,82,1:0:0:82,1:2908,36:-231.929,-24.6845,0,-229.181,-21.8667,-228.88 1/2:119:1,61,56:1:36:61,56:2162,1977:-301.501,-145.564,-130.137,-153.339,0,-139.417 2/2:81:0,0,81:0:0:0,81:0,2884:-247.282,-247.282,-247.282,-24.3834,-24.3834,0 1/1:193:0,192,0:0:0:192,0:6852,0:-599.042,-57.7978,0,-599.042,-57.7978,-599.042 1/1:13:0,13,0:0:0:13,0:464,0:-39.5867,-3.91339,0,-39.5867,-3.91339,-39.5867 1/2:5:0,3,2:0:0:3,2:108,72:-13.6874,-5.83438,-4.93129,-8.18615,0,-7.58409 1/2:41:0,25,15:0:0:25,15:900,536:-110.422,-41.7239,-34.1982,-68.803,0,-64.2875 1/2:145:1,66,78:1:36:66,78:2359,2760:-399.684,-216.706,-199.775,-180.326,0,-159.784 1/1:114:0,113,1:0:0:113,1:4047,36:-348.207,-34.0164,0,-345.339,-30.7964,-345.038 1/2:129:0,59,70:0:0:59,70:2124,2485:-361.793,-197.749,-179.988,-164.389,0,-143.317 1/2:45:0,29,13:0:0:29,13:1016,468:-118.217,-37.4965,-28.7667,-80.7187,0,-76.8053 1/1:47:0,47,0:0:0:47,0:1666,0:-144.961,-14.1484,0,-144.961,-14.1484,-144.961 1/2:97:0,42,53:0:0:42,53:1487,1874:-255.475,-143.995,-131.352,-111.465,0,-95.5103 1/2:90:0,55,34:0:0:55,34:1951,1195:-241.367,-92.2129,-75.6563,-149.209,0,-138.974 1/1:78:0,78,0:0:0:78,0:2795,0:-236.091,-23.4803,0,-236.091,-23.4803,-236.091 1/1:66:2,64,0:2:63:64,0:2238,0:-174.873,-13.9335,0,-175.475,-19.2659,-180.495 chr07 25902891 . CAC GAT,GAA 37995.3 PASS AB=0.508746,0.483965;ABP=3.46612,4.54236;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1510,425;CIGAR=1X1M1X,1X1M1X;DP=1944;DPB=1944.33;DPRA=0,1.23362;EPP=3281.93,925.886;EPPR=0;GTI=0;LEN=3,3;MEANALT=2,2.61538;MQM=38.6934,40.6471;MQMR=0;NS=21;NUMALT=2;ODDS=1.4695;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=53133,14899;QR=0;RO=0;RPL=1510,425;RPP=3281.93,925.886;RPPR=0;RPR=0,0;RUN=1,1;SAF=1510,425;SAP=3281.93,925.886;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,77,2:0:0:77,2:2730,70:-231.273,-23.1793,0,-225.693,-17.2553,-225.091 1/1:66:0,66,0:0:0:66,0:2332,0:-186.686,-19.868,0,-186.686,-19.868,-186.686 1/1:87:0,87,0:0:0:87,0:3081,0:-262.91,-26.1896,0,-262.91,-26.1896,-262.91 1/1:89:0,89,0:0:0:89,0:3127,0:-269.137,-26.7917,0,-269.137,-26.7917,-269.137 1/1:252:0,242,9:0:0:242,9:8506,316:-729.699,-72.8493,0,-704.62,-47.6714,-701.911 1/1:85:0,82,1:0:0:82,1:2891,36:-230.713,-24.6845,0,-227.965,-21.9138,-227.664 1/2:120:0,60,60:0:0:60,60:2111,2107:-311.3,-159.008,-140.946,-152.555,0,-134.493 2/2:81:0,1,80:0:0:1,80:36,2788:-238.953,-236.145,-235.844,-24.0824,-20.9289,0 1/1:196:0,196,0:0:0:196,0:6939,0:-606.935,-59.0019,0,-606.935,-59.0019,-606.935 1/1:14:0,14,0:0:0:14,0:504,0:-42.8942,-4.21442,0,-42.8942,-4.21442,-42.8942 1/2:5:0,3,2:0:0:3,2:108,72:-13.6874,-5.83438,-4.93129,-8.18615,0,-7.58409 1/2:42:0,26,16:0:0:26,16:911,565:-112.93,-43.3479,-35.5211,-69.9141,0,-65.0976 1/2:147:0,67,77:0:0:67,77:2350,2716:-398.633,-215.899,-195.73,-182.747,0,-159.568 1/1:114:0,112,1:0:0:112,1:3934,36:-339.716,-33.7154,0,-336.848,-30.8513,-336.547 1/2:134:0,63,71:0:0:63,71:2238,2504:-370.518,-198.51,-179.545,-172.348,0,-150.975 1/2:46:0,30,16:0:0:30,16:1046,566:-128.821,-45.6761,-36.6452,-83.4911,0,-78.6747 1/1:49:0,49,0:0:0:49,0:1717,0:-149.62,-14.7505,0,-149.62,-14.7505,-149.62 1/2:100:0,44,56:0:0:44,56:1550,1941:-266.722,-150.281,-137.036,-116.77,0,-99.9127 1/2:92:0,56,34:0:0:56,34:1934,1182:-240.553,-92.0723,-75.2146,-148.506,0,-138.27 1/1:79:0,79,0:0:0:79,0:2736,0:-232.045,-23.7814,0,-232.045,-23.7814,-232.045 1/1:67:0,67,0:0:0:67,0:2352,0:-191.07,-20.169,0,-191.07,-20.169,-191.07 chr07 25942754 . CGACA TGACG 6151.08 PASS AB=0.528713;ABP=6.62655;AC=11;AF=0.261905;AN=42;AO=342;CIGAR=1X3M1X;DP=1305;DPB=1305;DPRA=0.845885;EPP=745.654;EPPR=2081.11;GTI=1;LEN=5;MEANALT=1.36364;MQM=59.962;MQMR=59.9781;NS=21;NUMALT=1;ODDS=0.989103;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12154;QR=33706;RO=957;RPL=342;RPP=745.654;RPPR=2081.11;RPR=0;RUN=1;SAF=0;SAP=745.654;SAR=342;SRF=0;SRP=2081.11;SRR=957;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:70,0:70:2490:0:0:0,-21.0721,-224.353 0/0:68:68,0:68:2368:0:0:0,-20.47,-213.377 0/1:19:17,2:17:604:2:71:-1.02249,0,-48.9715 0/0:73:73,0:73:2589:0:0:0,-21.9752,-233.26 0/0:140:140,0:140:4914:0:0:0,-42.1442,-442.415 0/0:52:52,0:52:1840:0:0:0,-15.6536,-165.879 0/1:104:49,55:49:1705:55:1961:-145.455,0,-122.426 1/1:74:0,74:0:0:74:2623:-236.318,-22.2762,0 0/0:88:87,0:87:3070:0:0:0,-26.1896,-276.17 0/0:6:6,0:6:208:0:0:0,-1.80618,-19.0592 0/1:10:6,4:6:182:4:144:-10.3033,0,-13.669 0/1:6:1,5:1:36:5:171:-13.9193,0,-1.79209 0/1:55:28,24:28:984:24:861:-61.7986,0,-72.861 0/0:37:37,0:37:1290:0:0:0,-11.1381,-116.398 0/1:85:26,58:26:917:58:2066:-160.623,0,-57.2565 0/1:86:28,57:28:1005:57:2015:-155.675,0,-64.8189 0/0:50:49,1:49:1711:1:36:0,-11.4532,-150.675 0/1:55:28,27:28:993:27:963:-70.4303,0,-73.1276 0/1:85:50,35:50:1775:35:1243:-86.5833,0,-134.445 0/0:64:64,0:64:2279:0:0:0,-19.2659,-205.372 0/0:78:78,0:78:2746:0:0:0,-23.4803,-247.347 chr07 25942761 . A G 20064.1 PASS AB=0.460285;ABP=9.737;AC=31;AF=0.738095;AN=42;AO=936;CIGAR=1X;DP=1277;DPB=1277;DPRA=0.812838;EPP=2035.51;EPPR=743.482;GTI=1;LEN=1;MEANALT=1;MQM=59.9776;MQMR=59.9853;NS=21;NUMALT=1;ODDS=0.517283;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33539;QR=12229;RO=341;RPL=936;RPP=2035.51;RPPR=743.482;RPR=0;RUN=1;SAF=0;SAP=2035.51;SAR=936;SRF=0;SRP=743.482;SRR=341;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68:0:0:68:2440:-219.855,-20.47,0 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 0/1:18:2,16:2:68:16:576:-46.7564,0,-1.03917 1/1:73:0,73:0:0:73:2616:-235.687,-21.9752,0 1/1:137:1,136:1:36:136:4888:-436.472,-37.6428,0 1/1:51:0,51:0:0:51:1832:-165.161,-15.3525,0 0/1:100:54,46:54:1944:46:1648:-118.506,0,-145.131 0/0:74:74,0:74:2656:0:0:0,-22.2762,-239.286 1/1:84:0,84:0:0:84:3016:-271.67,-25.2865,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:10:4,6:4:144:6:212:-16.4145,0,-10.3033 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:50:24,26:24:864:26:928:-68.7868,0,-63.0307 1/1:38:0,38:0:0:38:1345:-121.348,-11.4391,0 0/1:84:58,26:58:2080:26:936:-59.2729,0,-162.184 0/1:85:57,28:57:2025:28:1004:-65.0883,0,-156.933 1/1:51:1,50:1:36:50:1784:-157.244,-11.7543,0 0/1:54:27,27:27:972:27:972:-71.5423,0,-71.5423 0/1:84:34,50:34:1224:50:1792:-136.276,0,-85.1805 1/1:64:0,64:0:0:64:2284:-205.822,-19.2659,0 1/1:76:0,76:0:0:76:2722:-245.094,-22.8783,0 chr07 25976013 . TGT AGA,AGT 21466.1 PASS AB=0.484185,0.513382;ABP=3.90319,3.64959;AC=32,10;AF=0.761905,0.238095;AN=42;AO=730,271;CIGAR=1X1M1X,1X2M;DP=1002;DPB=1002;DPRA=0.828947,1.26475;EPP=1588.19,591.479;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.6,2;MQM=58.8151,59.8598;MQMR=0;NS=21;NUMALT=2;ODDS=0.128884;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25832,9717;QR=0;RO=0;RPL=730,271;RPP=1588.19,591.479;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1588.19,591.479;SAR=730,271;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:0,48,1:0:0:48,1:1723,36:-154.923,-14.4494,0,-151.985,-11.1522,-151.684 1/1:42:0,42,0:0:0:42,0:1495,0:-134.74,-12.6433,0,-134.74,-12.6433,-134.74 1/1:40:0,40,0:0:0:40,0:1419,0:-127.933,-12.0412,0,-127.933,-12.0412,-127.933 1/1:29:0,29,0:0:0:29,0:1024,0:-92.431,-8.72987,0,-92.431,-8.72987,-92.431 1/1:78:0,77,1:0:0:77,1:2696,36:-242.321,-23.1793,0,-239.384,-19.8821,-239.083 1/1:43:0,43,0:0:0:43,0:1519,0:-136.907,-12.9443,0,-136.907,-12.9443,-136.907 1/2:82:0,37,45:0:0:37,45:1310,1616:-238.806,-132.154,-121.016,-107.008,0,-93.4612 2/2:57:0,0,57:0:0:0,57:0,2048:-184.592,-184.592,-184.592,-17.1587,-17.1587,0 1/1:99:0,99,0:0:0:99,0:3492,0:-314.244,-29.802,0,-314.244,-29.802,-314.244 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:7:0,4,3:0:0:4,3:144,104:-20.557,-8.79971,-7.59559,-12.1095,0,-11.2064 1/2:10:0,8,2:0:0:8,2:288,72:-29.734,-6.23466,-3.82642,-23.8592,0,-23.2571 1/2:72:0,23,49:0:0:23,49:821,1756:-210.438,-143.55,-136.627,-67.2443,0,-52.4938 1/1:45:0,45,0:0:0:45,0:1568,0:-141.35,-13.5464,0,-141.35,-13.5464,-141.35 1/2:117:0,50,67:0:0:50,67:1792,2393:-341.431,-195.456,-180.405,-146.332,0,-126.163 1/2:27:0,5,22:0:0:5,22:180,792:-79.6251,-64.983,-63.4779,-15.0011,0,-8.37848 1/1:21:0,21,0:0:0:21,0:736,0:-65.7172,-6.32163,0,-65.7172,-6.32163,-65.7172 1/2:61:0,42,19:0:0:42,19:1476,684:-176.147,-56.1708,-43.5275,-120.334,0,-114.614 1/2:35:0,30,4:0:0:30,4:1058,144:-97.8054,-11.7497,-2.71877,-86.0549,0,-84.8508 1/1:46:0,46,0:0:0:46,0:1648,0:-148.057,-13.8474,0,-148.057,-13.8474,-148.057 1/1:34:0,33,1:0:0:33,1:1155,36:-103.792,-9.93399,0,-100.854,-6.63675,-100.553 chr07 26009776 . A G 8853.91 PASS AB=0.437068;ABP=27.8816;AC=10;AF=0.238095;AN=42;AO=490;CIGAR=1X;DP=2263;DPB=2263;DPRA=1.03283;EPP=1058.36;EPPR=3850.86;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.7306;MQMR=59.5327;NS=21;NUMALT=1;ODDS=0.574709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17394;QR=63508;RO=1772;RPL=489;RPP=1058.36;RPPR=3850.86;RPR=1;RUN=1;SAF=0;SAP=1067.03;SAR=490;SRF=0;SRP=3850.86;SRR=1772;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:97:97,0:97:3472:0:0:0,-29.1999,-312.533 0/0:99:99,0:99:3556:0:0:0,-29.802,-320.206 0/0:127:127,0:127:4564:0:0:0,-38.2308,-410.812 0/0:100:100,0:100:3583:0:0:0,-30.103,-322.664 0/0:157:157,0:157:5640:0:0:0,-47.2617,-507.702 0/0:113:112,1:112:4020:1:36:0,-30.4181,-358.32 0/1:162:79,83:79:2832:83:2947:-216.683,0,-206.079 1/1:172:0,171:0:0:171:6072:-546.216,-51.4761,0 0/0:154:153,1:153:5484:1:36:0,-42.7603,-489.251 0/0:63:63,0:63:2264:0:0:0,-18.9649,-203.799 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:39:29,10:29:1040:10:352:-20.278,0,-82.1696 0/1:101:56,45:56:2008:45:1599:-113.795,0,-150.571 0/0:164:164,0:164:5859:0:0:0,-49.3689,-527.087 0/1:157:83,74:83:2984:74:2634:-190.038,0,-221.508 0/1:75:50,25:50:1796:25:891:-57.9291,0,-139.342 0/0:149:148,1:148:5276:1:36:0,-41.2552,-471.369 0/1:127:65,62:65:2319:62:2202:-160.078,0,-170.422 0/1:53:38,15:38:1356:15:517:-30.8999,0,-106.384 0/0:97:97,0:97:3475:0:0:0,-29.1999,-312.173 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 chr07 26009782 . GTTA ATTG,GTTG 49924.1 PASS AB=0.565574,0.430328;ABP=30.3495,33.8737;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1799,485;CIGAR=1X2M1X,3M1X;DP=2294;DPB=2294;DPRA=0.628698,0.917397;EPP=3909.49,1056.17;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.95,2.30769;MQM=59.5158,59.7588;MQMR=0;NS=21;NUMALT=2;ODDS=2.00261;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63804,17370;QR=0;RO=0;RPL=1799,485;RPP=3909.49,1056.17;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3909.49,1056.17;SAR=1799,485;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,100,0:0:0:100,0:3526,0:-317.522,-30.103,0,-317.522,-30.103,-317.522 1/1:99:0,99,0:0:0:99,0:3543,0:-319.038,-29.802,0,-319.038,-29.802,-319.038 1/1:128:0,128,0:0:0:128,0:4556,0:-410.166,-38.5318,0,-410.166,-38.5318,-410.166 1/1:100:0,98,0:0:0:98,0:3478,0:-312.903,-29.5009,0,-312.903,-29.5009,-312.903 1/1:165:0,165,0:0:0:165,0:5839,0:-525.61,-49.67,0,-525.61,-49.67,-525.61 1/1:116:0,115,1:0:0:115,1:4084,36:-367.327,-34.6185,0,-364.389,-31.3212,-364.088 1/2:163:0,80,83:0:0:80,83:2839,2984:-474.989,-243.782,-219.7,-231.564,0,-206.578 2/2:169:0,0,166:0:0:0,166:0,5960:-536.131,-536.131,-536.131,-49.971,-49.971,0 1/1:154:0,153,1:0:0:153,1:5412,36:-486.325,-46.0576,0,-483.388,-42.7603,-483.087 1/1:64:0,64,0:0:0:64,0:2242,0:-201.948,-19.2659,0,-201.948,-19.2659,-201.948 1/2:9:0,7,2:0:0:7,2:252,72:-26.7966,-6.23466,-4.12745,-20.9217,0,-20.3197 1/2:40:0,29,11:0:0:29,11:1038,392:-116.952,-32.3087,-23.5789,-84.9998,0,-81.6885 1/2:103:0,57,46:0:0:57,46:2012,1637:-297.594,-133.767,-116.608,-164.181,0,-150.334 1/1:164:0,162,0:0:0:162,0:5748,0:-516.812,-48.7669,0,-516.812,-48.7669,-516.812 1/2:159:0,86,73:0:0:86,73:3072,2607:-463.338,-212.894,-187.006,-250.801,0,-228.826 1/2:75:0,49,25:0:0:49,25:1748,900:-215.925,-73.4319,-58.6814,-142.492,0,-134.967 1/1:151:0,150,1:0:0:150,1:5313,36:-477.941,-45.1545,0,-475.003,-41.8573,-474.702 1/2:128:0,65,61:0:0:65,61:2282,2174:-362.723,-177.2,-157.633,-185.547,0,-167.184 1/2:55:0,41,14:0:0:41,14:1443,500:-158.585,-41.1199,-28.7777,-117.82,0,-113.606 1/1:101:0,101,0:0:0:101,0:3600,0:-323.377,-30.404,0,-323.377,-30.404,-323.377 1/1:51:0,50,1:0:0:50,1:1777,36:-159.853,-15.0515,0,-156.915,-11.7543,-156.614 chr07 26011636 . A T 4607.96 PASS AB=0.475379;ABP=5.79044;AC=10;AF=0.238095;AN=42;AO=282;CIGAR=1X;DP=1672;DPB=1672;DPRA=0.9;EPP=615.366;EPPR=2982.37;GTI=1;LEN=1;MEANALT=1.08333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.07771;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10086;QR=49551;RO=1388;RPL=282;RPP=615.366;RPPR=2982.37;RPR=0;RUN=1;SAF=0;SAP=615.366;SAR=282;SRF=0;SRP=3017.01;SRR=1388;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:134:134,0:134:4764:0:0:0,-40.338,-428.918 0/0:151:151,0:151:5390:0:0:0,-45.4555,-485.232 0/0:85:85,0:85:3039:0:0:0,-25.5875,-273.74 0/0:66:66,0:66:2355:0:0:0,-19.868,-212.208 0/0:185:184,1:184:6583:1:36:0,-52.0923,-588.952 0/0:71:70,1:70:2490:1:36:0,-17.7749,-220.754 0/1:147:63,84:63:2225:84:3008:-226.7,0,-156.262 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 0/0:108:108,0:108:3849:0:0:0,-32.5112,-346.606 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:19:8,11:8:288:11:392:-29.9005,0,-20.5478 0/1:57:38,19:38:1347:19:676:-44.0093,0,-104.371 0/0:53:53,0:53:1891:0:0:0,-15.9546,-170.468 0/1:102:56,44:56:2000:44:1572:-111.309,0,-149.811 0/1:64:32,32:32:1152:32:1142:-83.8232,0,-84.7242 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 0/1:61:27,34:27:968:34:1216:-91.3837,0,-69.0745 0/1:74:50,24:50:1792:24:864:-55.8063,0,-139.286 0/0:100:99,1:99:3530:1:36:0,-26.5047,-314.311 0/0:95:95,0:95:3408:0:0:0,-28.5978,-306.934 chr07 26011660 . T C 4814.1 PASS AB=0.480447;ABP=4.79358;AC=10;AF=0.238095;AN=42;AO=291;CIGAR=1X;DP=1697;DPB=1697;DPRA=0.909387;EPP=626.253;EPPR=3027.93;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9313;MQMR=59.9751;NS=21;NUMALT=1;ODDS=1.05875;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10381;QR=50142;RO=1405;RPL=290;RPP=626.253;RPPR=3027.93;RPR=1;RUN=1;SAF=0;SAP=634.909;SAR=291;SRF=0;SRP=3053.93;SRR=1405;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:133,0:133:4768:0:0:0,-40.037,-429.277 0/0:150:150,0:150:5312:0:0:0,-45.1545,-478.214 0/0:85:85,0:85:3018:0:0:0,-25.5875,-271.849 0/0:67:67,0:67:2389:0:0:0,-20.169,-215.266 0/0:190:189,1:189:6754:1:36:0,-53.5974,-603.397 0/0:71:69,1:69:2460:1:36:0,-17.8337,-218.057 0/1:147:65,82:65:2328:82:2932:-219.863,0,-165.528 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 0/0:115:115,0:115:4102:0:0:0,-34.6184,-369.363 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:5:1,4:1:36:4:129:-10.4225,0,-2.09312 0/1:20:8,12:8:288:12:432:-33.2006,0,-20.2468 0/1:59:39,20:39:1400:20:703:-45.8243,0,-108.538 0/0:55:55,0:55:1961:0:0:0,-16.5566,-176.763 0/1:103:58,45:58:2088:45:1604:-113.644,0,-157.184 0/1:67:33,34:33:1171:34:1224:-90.298,0,-85.5277 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 0/1:61:27,34:27:968:34:1205:-90.3911,0,-69.0745 0/1:75:48,27:48:1728:27:968:-64.8601,0,-133.228 0/0:102:101,1:101:3567:1:36:0,-27.1068,-317.638 0/0:94:94,0:94:3368:0:0:0,-28.2968,-303.336 chr07 26042315 . G T 11342.2 PASS AB=0.47646;ABP=8.12205;AC=10;AF=0.238095;AN=42;AO=658;CIGAR=1X;DP=3361;DPB=3361;DPRA=1.46168;EPP=1431.84;EPPR=5859.47;GTI=1;LEN=1;MEANALT=1.125;MQM=59.9453;MQMR=59.9867;NS=21;NUMALT=1;ODDS=0.946903;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23375;QR=96536;RO=2701;RPL=658;RPP=1431.84;RPPR=5859.47;RPR=0;RUN=1;SAF=658;SAP=1431.84;SAR=0;SRF=2701;SRP=5868.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:360:359,1:359:12830:1:36:0,-104.773,-1150.92 0/0:114:114,0:114:4079:0:0:0,-34.3174,-367.296 0/0:104:103,1:103:3671:1:36:0,-27.7088,-326.996 0/0:274:271,2:271:9683:2:72:0,-75.7043,-864.586 0/0:333:330,2:330:11784:2:72:0,-93.3585,-1053.64 0/0:234:230,4:230:8236:4:144:0,-57.1274,-727.929 0/1:187:109,78:109:3838:78:2769:-193.154,0,-289.323 1/1:139:0,139:0:0:139:4972:-447.6,-41.8432,0 0/0:245:245,0:245:8791:0:0:0,-73.7523,-791.146 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:6:2,4:2:68:4:136:-10.7694,0,-4.65153 0/1:36:8,28:8:284:28:1004:-79.8388,0,-15.0663 0/1:233:133,100:133:4767:100:3535:-248.22,0,-359.046 0/0:168:166,2:166:5936:2:72:0,-43.7363,-527.481 0/1:237:106,131:106:3807:131:4667:-348.848,0,-271.481 0/1:170:85,85:85:3052:85:3012:-220.127,0,-223.734 0/0:162:162,0:162:5799:0:0:0,-48.7669,-522.023 0/1:79:36,43:36:1279:43:1488:-110.426,0,-91.6311 0/1:114:77,37:77:2747:37:1324:-85.1447,0,-213.155 0/0:95:94,1:94:3354:1:36:0,-24.9996,-298.478 0/0:62:62,0:62:2207:0:0:0,-18.6639,-198.895 chr07 26067067 . A G 7284.49 PASS AB=0.508993;ABP=3.40085;AC=10;AF=0.238095;AN=42;AO=399;CIGAR=1X;DP=1571;DPB=1571;DPRA=1.08368;EPP=869.428;EPPR=2547.98;GTI=0;LEN=1;MEANALT=1;MQM=59.7318;MQMR=59.8669;NS=21;NUMALT=1;ODDS=5.82316;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14219;QR=41897;RO=1172;RPL=2;RPP=852.143;RPPR=2196.24;RPR=397;RUN=1;SAF=2;SAP=852.143;SAR=397;SRF=42;SRP=2196.24;SRR=1130;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:94,0:94:3376:0:0:0,-28.2968,-304.054 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7185 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.989 0/0:95:95,0:95:3408:0:0:0,-28.5978,-306.93 0/0:106:103,3:103:3683:3:108:0,-21.834,-321.595 0/0:65:63,2:63:2245:2:72:0,-12.7302,-195.358 0/1:106:69,37:69:2461:37:1320:-87.1857,0,-189.83 1/1:109:0,109:0:0:109:3859:-347.426,-32.8123,0 0/0:207:207,0:207:7387:0:0:0,-62.3132,-664.866 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:34:17,17:17:608:17:612:-45.1769,0,-44.817 0/1:88:37,51:37:1328:51:1813:-136.957,0,-93.3297 0/0:77:76,1:76:2732:1:36:0,-19.581,-242.524 0/1:115:44,71:44:1557:71:2543:-194.496,0,-105.8 0/1:74:38,36:38:1364:36:1284:-93.5872,0,-100.751 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/1:89:39,50:39:1391:50:1784:-134.05,0,-98.6904 0/1:46:26,20:26:936:20:716:-50.9187,0,-70.7117 0/0:89:88,1:88:3130:1:36:0,-23.1934,-278.312 0/0:50:50,0:50:1767:0:0:0,-15.0515,-159.302 chr07 26067076 . C T 27518 PASS AB=0.488372;ABP=3.66679;AC=32;AF=0.761905;AN=42;AO=1179;CIGAR=1X;DP=1583;DPB=1583;DPRA=0.669545;EPP=2317.48;EPPR=810.006;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8253;MQMR=59.732;NS=21;NUMALT=1;ODDS=5.9584;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42214;QR=14472;RO=403;RPL=60;RPP=2068.54;RPPR=801.686;RPR=1119;RUN=1;SAF=31;SAP=2300.99;SAR=1148;SRF=1;SRP=869.449;SRR=402;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,93:0:0:93:3329:-299.755,-27.9958,0 1/1:18:0,18:0:0:18:648:-58.6485,-5.41854,0 1/1:53:0,53:0:0:53:1908:-171.989,-15.9546,0 1/1:96:0,96:0:0:96:3433:-309.178,-28.8989,0 1/1:106:3,103:3:108:103:3653:-318.878,-21.834,0 1/1:69:2,67:2:72:67:2408:-209.908,-13.9343,0 0/1:105:36,69:36:1296:69:2480:-191.842,0,-85.2966 0/0:110:110,0:110:3952:0:0:0,-33.1133,-355.726 1/1:210:0,210:0:0:210:7484:-673.589,-63.2163,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:34:17,17:17:612:17:612:-45.1784,0,-45.1769 0/1:89:51,38:51:1828:38:1364:-96.2671,0,-138.006 1/1:79:1,78:1:36:78:2789:-247.65,-20.1831,0 0/1:117:72,44:72:2588:44:1576:-106.852,0,-197.884 0/1:74:36,38:36:1288:38:1364:-100.768,0,-93.9474 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 0/1:90:52,38:52:1868:38:1368:-96.322,0,-141.305 0/1:46:20,26:20:716:26:936:-70.7117,0,-50.9187 1/1:93:1,92:1:36:92:3308:-294.326,-24.3975,0 1/1:51:1,50:1:36:50:1798:-158.495,-11.7543,0 chr07 26101288 . GTACTT ATACTC,AGACTC 41290.6 PASS AB=0.486268,0.50727;ABP=4.02412,3.29445;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1478,418;CIGAR=1X4M1X,2X3M1X;DP=1905;DPB=1904.83;DPRA=0.893069,0.827938;EPP=3212.45,902.021;EPPR=0;GTI=1;LEN=6,6;MEANALT=1.95,2.36364;MQM=59.7253,54.0813;MQMR=0;NS=21;NUMALT=2;ODDS=2.65401;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52495,14719;QR=0;RO=0;RPL=0,1;RPP=3212.45,902.021;RPPR=0;RPR=1478,417;RUN=1,1;SAF=1478,418;SAP=3212.45,910.686;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,109,0:0:0:109,0:3861,0:-347.234,-32.8123,0,-347.234,-32.8123,-347.234 1/1:65:0,65,0:0:0:65,0:2296,0:-206.605,-19.567,0,-206.605,-19.567,-206.605 1/1:90:0,90,0:0:0:90,0:3228,0:-290.621,-27.0927,0,-290.621,-27.0927,-290.621 1/1:90:0,90,0:0:0:90,0:3201,0:-288.303,-27.0927,0,-288.303,-27.0927,-288.303 1/1:210:0,209,0:0:0:209,0:7423,0:-667.447,-62.9153,0,-667.447,-62.9153,-667.447 1/1:86:0,85,0:0:0:85,0:3041,0:-273.522,-25.5876,0,-273.522,-25.5876,-273.522 1/2:126:0,58,67:0:0:58,67:2084,2355:-360.693,-190.677,-173.217,-170.031,0,-149.862 2/2:101:0,0,101:0:0:0,101:0,3555:-319.132,-319.132,-319.132,-30.404,-30.404,0 1/1:200:0,199,0:0:0:199,0:7023,0:-631.747,-59.905,0,-631.747,-59.905,-631.747 1/1:9:0,9,0:0:0:9,0:315,0:-28.6872,-2.70927,0,-28.6872,-2.70927,-28.6872 1/2:4:0,3,1:0:0:3,1:108,29:-11.4616,-2.5968,-1.69371,-9.17208,0,-8.87105 1/2:35:0,18,16:0:0:18,16:648,564:-98.7582,-45.8878,-40.4693,-52.9033,0,-48.0868 1/2:146:0,56,88:0:0:56,88:2000,3110:-416.184,-253.123,-236.265,-163.089,0,-136.598 1/1:97:0,95,1:0:0:95,1:3286,32:-295.667,-28.5979,0,-293.09,-25.9905,-292.789 1/2:144:0,63,81:0:0:63,81:2224,2845:-412.713,-231.61,-212.645,-181.455,0,-157.072 1/2:63:0,37,26:0:0:37,26:1328,919:-183.263,-74.9341,-63.796,-108.684,0,-100.857 1/1:71:0,71,0:0:0:71,0:2540,0:-228.838,-21.3731,0,-228.838,-21.3731,-228.838 1/2:32:0,20,12:0:0:20,12:720,416:-92.6761,-33.9227,-27.9021,-59.1036,0,-55.4912 1/2:69:0,46,23:0:0:46,23:1648,822:-201.73,-67.3308,-53.4834,-134.756,0,-127.833 1/1:91:0,89,2:0:0:89,2:3161,72:-284.336,-26.7917,0,-278.471,-20.5667,-277.869 1/1:66:0,66,0:0:0:66,0:2360,0:-212.626,-19.868,0,-212.626,-19.868,-212.626 chr07 26101358 . GCT ACC,ACT 71811 PASS AB=0.502547,0.496604;ABP=3.07666,3.12827;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2423,839;CIGAR=1X1M1X,1X2M;DP=3271;DPB=3271.67;DPRA=0,1.31722;EPP=4830.83,1663.58;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.09524,2.35714;MQM=59.9711,59.9952;MQMR=0;NS=21;NUMALT=2;ODDS=10.1754;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=36,0;PQR=0;PRO=0;QA=83823,29888;QR=0;RO=0;RPL=51,19;RPP=4830.83,1663.58;RPPR=0;RPR=2372,820;RUN=1,1;SAF=0,0;SAP=5264.49,1824.88;SAR=2423,839;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,105,1:0:0:105,1:3645,36:-327.874,-31.6082,0,-324.936,-28.3109,-324.635 1/1:84:0,84,0:0:0:84,0:2938,0:-264.473,-25.2865,0,-264.473,-25.2865,-264.473 1/1:250:0,248,0:0:0:248,0:8661,0:-779.185,-74.6554,0,-779.185,-74.6554,-779.185 1/1:124:0,124,0:0:0:124,0:4241,0:-381.771,-37.3277,0,-381.771,-37.3277,-381.771 1/1:305:0,302,2:0:0:302,2:10363,68:-932.331,-90.9111,0,-926.815,-85.3087,-926.213 1/1:149:0,146,2:0:0:146,2:5112,68:-459.882,-43.9504,0,-454.366,-38.4479,-453.764 1/2:159:0,72,87:0:0:72,87:2490,3075:-453.115,-250.788,-229.114,-202.676,0,-176.486 2/2:247:0,1,246:0:0:1,246:36,8775:-789.38,-786.443,-786.142,-74.0534,-70.7561,0 1/1:207:0,204,1:0:0:204,1:7096,36:-638.355,-61.4101,0,-635.418,-58.4727,-635.117 1/1:15:0,14,0:0:0:14,0:483,0:-43.4569,-4.21442,0,-43.4569,-4.21442,-43.4569 1/2:7:0,4,3:0:0:4,3:135,104:-19.7355,-8.79971,-7.59559,-11.2784,0,-10.3753 1/2:78:0,33,45:0:0:33,45:1140,1611:-224.349,-131.733,-121.799,-92.9667,0,-79.4204 1/2:138:0,74,64:0:0:74,64:2557,2275:-393.498,-185.746,-163.47,-208.103,0,-188.837 1/1:250:0,249,0:0:0:249,0:8480,0:-762.951,-74.9565,0,-762.951,-74.9565,-762.951 1/2:437:0,206,231:0:0:206,231:7147,8233:-1252.38,-671.442,-609.43,-581.293,0,-511.755 1/2:142:0,60,82:0:0:60,82:2080,2936:-408.844,-239.79,-221.728,-169.406,0,-144.721 1/1:121:0,121,0:0:0:121,0:4195,0:-377.737,-36.4246,0,-377.737,-36.4246,-377.737 1/2:149:0,87,61:0:0:87,61:3028,2167:-422.784,-176.574,-150.384,-246.203,0,-227.84 1/2:68:0,56,12:0:0:56,12:1936,432:-192.906,-35.6088,-18.7512,-157.654,0,-154.042 1/1:179:0,177,2:0:0:177,2:6108,72:-549.478,-53.2823,0,-543.603,-47.0476,-543.001 1/1:56:0,56,0:0:0:56,0:1952,0:-175.954,-16.8577,0,-175.954,-16.8577,-175.954 chr07 26101462 . A T 6940.03 PASS AB=0.439523;ABP=21.6583;AC=10;AF=0.238095;AN=42;AO=384;CIGAR=1X;DP=1541;DPB=1541;DPRA=1.22524;EPP=836.856;EPPR=2472.16;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.94773;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13740;QR=41464;RO=1157;RPL=0;RPP=836.856;RPPR=2472.16;RPR=384;RUN=1;SAF=384;SAP=836.856;SAR=0;SRF=1157;SRP=2515.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:62,0:62:2232:0:0:0,-18.6639,-201.144 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 0/0:91:91,0:91:3268:0:0:0,-27.3937,-294.34 0/0:67:67,0:67:2408:0:0:0,-20.169,-216.976 0/0:126:126,0:126:4501:0:0:0,-37.9298,-405.258 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 0/1:95:38,57:38:1364:57:2036:-154.914,0,-94.4629 1/1:125:0,125:0:0:125:4488:-404.088,-37.6288,0 0/0:121:121,0:121:4328:0:0:0,-36.4246,-389.696 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:33:25,8:25:885:8:279:-15.5135,0,-70.0325 0/1:158:98,60:98:3497:60:2156:-146.744,0,-267.377 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 0/1:128:59,69:59:2105:69:2457:-182.851,0,-151.186 0/1:29:12,17:12:432:17:604:-45.9607,0,-30.4913 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/1:76:47,29:47:1688:29:1040:-71.0361,0,-129.329 0/1:62:45,17:45:1612:17:608:-36.3882,0,-126.706 0/0:100:99,1:99:3556:1:36:0,-26.5047,-316.649 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 chr07 26101493 . C T 7117 PASS AB=0.453469;ABP=14.1249;AC=10;AF=0.238095;AN=42;AO=396;CIGAR=1X;DP=1548;DPB=1548;DPRA=1.20711;EPP=862.913;EPPR=2504.55;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9965;NS=21;NUMALT=1;ODDS=5.23612;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14100;QR=41107;RO=1152;RPL=396;RPP=862.913;RPPR=2504.55;RPR=0;RUN=1;SAF=396;SAP=862.913;SAR=0;SRF=1152;SRP=2504.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:63,0:63:2250:0:0:0,-18.9649,-202.762 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 0/0:91:91,0:91:3248:0:0:0,-27.3937,-292.539 0/0:67:66,1:66:2363:1:36:0,-16.5707,-209.329 0/0:126:126,0:126:4513:0:0:0,-37.9298,-406.336 0/0:67:67,0:67:2395:0:0:0,-20.169,-215.806 0/1:97:38,59:38:1359:59:2099:-159.979,0,-93.4099 1/1:126:0,126:0:0:126:4486:-403.908,-37.9298,0 0/0:123:123,0:123:4364:0:0:0,-37.0267,-392.936 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:6:5,1:5:176:1:36:-1.79209,0,-14.3788 0/1:33:25,8:25:900:8:284:-15.9694,0,-71.387 0/1:162:96,66:96:3407:66:2353:-163.261,0,-258.077 0/0:69:69,0:69:2472:0:0:0,-20.7711,-222.733 0/1:128:59,69:59:2103:69:2455:-182.673,0,-151.007 0/1:30:12,18:12:417:18:640:-48.8984,0,-28.8293 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/1:75:45,30:45:1604:30:1063:-73.4036,0,-122.073 0/1:60:43,17:43:1514:17:612:-37.3516,0,-118.49 0/0:99:98,1:98:3494:1:36:0,-26.2037,-311.072 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 chr07 26103285 . T C 4194.18 PASS AB=0.450402;ABP=10.9801;AC=10;AF=0.238095;AN=42;AO=242;CIGAR=1X;DP=1167;DPB=1167;DPRA=1.0395;EPP=528.507;EPPR=2011.62;GTI=0;LEN=1;MEANALT=1;MQM=59.9628;MQMR=59.9395;NS=21;NUMALT=1;ODDS=15.7408;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8612;QR=33000;RO=925;RPL=242;RPP=528.507;RPPR=2011.62;RPR=0;RUN=1;SAF=0;SAP=528.507;SAR=242;SRF=0;SRP=2011.62;SRR=925;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:121:121,0:121:4290:0:0:0,-36.4246,-386.106 0/0:43:43,0:43:1514:0:0:0,-12.9443,-136.549 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/0:123:120,3:120:4296:3:108:0,-26.9515,-376.742 0/0:42:42,0:42:1492:0:0:0,-12.6433,-134.575 0/1:65:36,29:36:1277:29:1036:-73.987,0,-95.6642 1/1:71:0,71:0:0:71:2513:-226.42,-21.3731,0 0/0:89:89,0:89:3192:0:0:0,-26.7917,-287.503 0/0:36:36,0:36:1284:0:0:0,-10.8371,-115.863 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:22:15,7:15:536:7:252:-16.4063,0,-41.9517 0/1:45:30,15:30:1076:15:531:-34.5756,0,-83.6065 0/0:65:65,0:65:2302:0:0:0,-19.5669,-207.438 0/1:92:55,37:55:1972:37:1332:-92.4876,0,-150.06 0/1:54:16,38:16:572:38:1368:-107.165,0,-35.5578 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.655 0/1:46:23,23:23:828:23:819:-60.1842,0,-60.9967 0/1:40:26,14:26:924:14:473:-30.8498,0,-71.4365 0/0:63:63,0:63:2253:0:0:0,-18.9649,-203.031 0/0:23:23,0:23:820:0:0:0,-6.92369,-74.1225 chr07 26113556 . C T 8505.54 PASS AB=0.472826;ABP=6.55074;AC=10;AF=0.238095;AN=42;AO=367;CIGAR=1X;DP=1768;DPB=1768;DPRA=0.968439;EPP=23.6067;EPPR=303.294;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.8937;MQMR=59.945;NS=21;NUMALT=1;ODDS=13.6377;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13001;QR=49762;RO=1400;RPL=154;RPP=23.6067;RPPR=303.294;RPR=213;RUN=1;SAF=0;SAP=799.941;SAR=367;SRF=0;SRP=3043.07;SRR=1400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:96:96,0:96:3411:0:0:0,-28.8989,-307.206 0/0:124:123,1:123:4411:1:36:0,-33.7294,-393.562 0/0:92:91,1:91:3245:1:32:0,-24.4954,-289.071 0/0:95:93,1:93:3299:1:36:0,-25.0384,-293.552 0/0:159:157,2:157:5541:2:64:0,-41.7851,-492.741 0/0:73:73,0:73:2584:0:0:0,-21.9752,-232.811 0/1:111:55,56:55:1955:56:1992:-146.14,0,-142.811 1/1:100:0,100:0:0:100:3584:-322.767,-30.103,0 0/0:165:165,0:165:5891:0:0:0,-49.6699,-530.301 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/1:29:13,16:13:445:16:557:-41.7257,0,-31.6455 0/1:88:41,47:41:1464:47:1659:-123.106,0,-105.565 0/0:63:63,0:63:2253:0:0:0,-18.9649,-203.031 0/1:89:47,42:47:1668:42:1468:-105.62,0,-123.111 0/1:111:71,40:71:2533:40:1432:-95.7633,0,-194.805 0/0:108:108,0:108:3841:0:0:0,-32.5112,-345.887 0/1:54:25,29:25:864:29:1012:-74.9749,0,-61.6867 0/1:62:38,24:38:1355:24:841:-57.3421,0,-103.586 0/0:44:43,1:43:1503:1:36:0,-9.64704,-131.964 0/0:78:78,0:78:2783:0:0:0,-23.4803,-250.711 chr07 26321946 . G A 2328.18 PASS AB=0.267884;ABP=310.47;AC=10;AF=0.238095;AN=42;AO=207;CIGAR=1X;DP=2078;DPB=2078;DPRA=0.944022;EPP=452.505;EPPR=4061.49;GTI=4;LEN=1;MEANALT=1;MQM=53.4879;MQMR=59.5522;NS=21;NUMALT=1;ODDS=5.49535;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7432;QR=66616;RO=1869;RPL=0;RPP=452.505;RPPR=4061.49;RPR=207;RUN=1;SAF=207;SAP=452.505;SAR=0;SRF=1869;SRP=4061.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:151:151,0:151:5399:0:0:0,-45.4555,-485.876 0/0:71:70,0:70:2504:0:0:0,-21.0721,-225.207 0/0:85:85,0:85:3056:0:0:0,-25.5875,-275.252 0/0:121:120,0:120:4300:0:0:0,-36.1236,-386.322 0/0:291:290,1:290:10322:1:36:0,-84.004,-924.991 0/0:101:101,0:101:3607:0:0:0,-30.404,-324.697 0/1:153:110,43:110:3888:43:1540:-92.1124,0,-303.938 1/1:29:1,28:1:36:28:1004:-86.6453,-5.1367,0 0/0:206:206,0:206:7317:0:0:0,-62.0122,-657.608 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0676 0/1:5:3,2:3:108:2:72:-5.31438,0,-8.56158 0/1:23:15,8:15:536:8:288:-19.3065,0,-41.6419 0/1:87:58,29:58:2084:29:1044:-67.9137,0,-161.638 0/0:90:90,0:90:3149:0:0:0,-27.0927,-283.613 0/1:112:98,14:98:3497:14:504:-11.8654,0,-281.211 0/1:62:41,21:41:1464:21:756:-49.0006,0,-113.381 0/0:104:103,1:103:3655:1:36:0,-27.7098,-325.552 0/1:154:106,48:106:3770:48:1724:-108.742,0,-293.111 0/1:61:50,11:50:1796:11:392:-16.8013,0,-143.55 0/0:77:76,1:76:2716:1:36:0,-19.7248,-241.188 0/0:68:68,0:68:2448:0:0:0,-20.47,-220.505 chr07 26321951 . G T 2188.1 PASS AB=0.265941;ABP=308.979;AC=10;AF=0.238095;AN=42;AO=203;CIGAR=1X;DP=2039;DPB=2039;DPRA=0.914822;EPP=443.819;EPPR=3983.32;GTI=4;LEN=1;MEANALT=1;MQM=53.4778;MQMR=59.5652;NS=21;NUMALT=1;ODDS=1.28114;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7200;QR=65545;RO=1833;RPL=0;RPP=443.819;RPPR=3983.32;RPR=203;RUN=1;SAF=203;SAP=443.819;SAR=0;SRF=1833;SRP=3983.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:150:147,0:147:5218:0:0:0,-44.2514,-469.28 0/0:70:70,0:70:2504:0:0:0,-21.0721,-225.563 0/0:85:84,1:84:3000:1:36:0,-21.9919,-266.622 0/0:120:120,0:120:4292:0:0:0,-36.1236,-385.96 0/0:288:287,1:287:10285:1:36:0,-83.101,-921.594 0/0:99:99,0:99:3556:0:0:0,-29.802,-320.206 0/1:147:106,41:106:3770:41:1476:-88.1562,0,-295.131 1/1:29:1,28:1:32:28:1000:-86.6835,-5.5326,0 0/0:202:202,0:202:7222:0:0:0,-60.8081,-649.06 0/0:27:27,0:27:960:0:0:0,-8.12781,-86.7071 0/1:5:3,2:3:108:2:72:-5.31438,0,-8.56158 0/1:21:14,7:14:504:7:237:-15.3093,0,-39.3672 0/1:87:59,28:59:2116:28:1000:-63.9662,0,-164.517 0/0:84:84,0:84:3012:0:0:0,-25.2865,-271.297 0/1:111:97,14:97:3465:14:484:-10.3749,0,-278.634 0/1:60:40,20:40:1425:20:692:-44.3064,0,-110.472 0/0:100:99,1:99:3556:1:36:0,-26.5057,-316.648 0/1:152:104,48:104:3709:48:1699:-107.148,0,-288.225 0/1:60:49,11:49:1752:11:396:-17.4636,0,-139.893 0/0:74:73,1:73:2620:1:36:0,-18.8217,-232.555 0/0:68:68,0:68:2439:0:0:0,-20.47,-219.693 chr07 26321963 . CA GG,CG 44910.9 PASS AB=0.731818,0.266667;ABP=311.083,315.123;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1876,208;CIGAR=2X,1M1X;DP=2085;DPB=2085;DPRA=0,0.949728;EPP=4016.12,428.995;EPPR=0;GTI=3;LEN=2,1;MEANALT=1.61905,2.08333;MQM=59.5416,53.6154;MQMR=0;NS=21;NUMALT=2;ODDS=2.88731;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65676,7397;QR=0;RO=0;RPL=1869,205;RPP=4016.12,428.995;RPPR=0;RPR=7,3;RUN=1,1;SAF=1876,208;SAP=4076.69,454.677;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:152:0,152,0:0:0:152,0:5304,0:-477.456,-45.7566,0,-477.456,-45.7566,-477.456 1/1:71:0,71,0:0:0:71,0:2465,0:-222.066,-21.3731,0,-222.066,-21.3731,-222.066 1/1:85:0,85,0:0:0:85,0:2987,0:-269.045,-25.5876,0,-269.045,-25.5876,-269.045 1/1:122:0,122,0:0:0:122,0:4287,0:-385.902,-36.7257,0,-385.902,-36.7257,-385.902 1/1:295:0,294,1:0:0:294,1:10191,36:-916.547,-88.5028,0,-913.612,-85.2082,-913.311 1/1:101:0,101,0:0:0:101,0:3522,0:-317.161,-30.404,0,-317.161,-30.404,-317.161 1/2:151:0,109,42:0:0:109,42:3826,1504:-433.557,-122.288,-89.4755,-311.624,0,-298.98 2/2:30:0,1,29:0:0:1,29:36,1029:-92.3355,-89.4025,-89.1015,-8.72987,-5.43773,0 1/1:207:0,207,0:0:0:207,0:7282,0:-655.174,-62.3132,0,-655.174,-62.3132,-655.174 1/1:25:0,25,0:0:0:25,0:865,0:-78.1527,-7.52575,0,-78.1527,-7.52575,-78.1527 1/2:5:0,3,2:0:0:3,2:108,72:-15.0219,-6.21747,-5.31438,-9.16364,0,-8.56158 1/2:23:0,15,8:0:0:15,8:530,284:-66.6171,-23.4607,-18.9452,-43.5104,0,-41.1022 1/2:88:0,59,29:0:0:59,29:2091,1036:-254.996,-84.6554,-66.8946,-170.696,0,-161.966 1/1:88:0,88,0:0:0:88,0:3060,0:-275.612,-26.4906,0,-275.612,-26.4906,-275.612 1/2:113:0,98,15:0:0:98,15:3450,536:-324.785,-43.9412,-14.4402,-281.2,0,-276.685 1/2:61:0,41,20:0:0:41,20:1413,708:-172.718,-57.9531,-45.6109,-115.115,0,-109.094 1/1:104:0,103,1:0:0:103,1:3639,32:-327.391,-31.0061,0,-324.814,-28.1082,-324.513 1/2:157:0,108,49:0:0:108,49:3759,1728:-446.363,-140.742,-108.23,-305.971,0,-291.221 1/2:62:0,50,11:0:0:50,11:1766,396:-175.682,-31.8729,-16.8214,-143.822,0,-140.511 1/1:76:0,75,1:0:0:75,1:2657,36:-238.992,-22.5773,0,-236.184,-19.4238,-235.883 1/1:69:0,69,0:0:0:69,0:2438,0:-219.606,-20.7711,0,-219.606,-20.7711,-219.606 chr07 26321987 . G A 1824.58 PASS AB=0.256911;ABP=318.672;AC=10;AF=0.238095;AN=42;AO=187;CIGAR=1X;DP=1969;DPB=1969;DPRA=1.15351;EPP=409.076;EPPR=3868.23;GTI=4;LEN=1;MEANALT=1.07692;MQM=53.631;MQMR=59.6022;NS=21;NUMALT=1;ODDS=6.25677;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6446;QR=63033;RO=1780;RPL=187;RPP=409.076;RPPR=3868.23;RPR=0;RUN=1;SAF=187;SAP=409.076;SAR=0;SRF=1780;SRP=3868.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:142:142,0:142:5057:0:0:0,-42.7463,-455.215 0/0:67:67,0:67:2396:0:0:0,-20.169,-215.856 0/0:82:82,0:82:2917:0:0:0,-24.6845,-262.748 0/0:121:121,0:121:4265:0:0:0,-36.4246,-384.024 0/0:271:270,1:270:9516:1:32:0,-78.3808,-853.052 0/0:97:96,0:96:3395:0:0:0,-28.8989,-305.452 0/1:140:101,39:101:3591:39:1347:-79.1143,0,-281.143 1/1:26:1,25:1:36:25:864:-74.2042,-4.23361,0 0/0:197:195,1:195:6911:1:34:0,-55.8985,-617.738 0/0:24:24,0:24:855:0:0:0,-7.22472,-77.261 0/1:4:3,1:3:108:1:27:-1.49451,0,-8.86261 0/1:21:13,8:13:460:8:284:-19.5473,0,-35.4045 0/1:80:57,23:57:2018:23:777:-46.0249,0,-157.807 0/0:85:85,0:85:3021:0:0:0,-25.5875,-272.102 0/1:107:95,12:95:3383:12:405:-4.45662,0,-272.466 0/1:56:36,20:36:1268:20:687:-45.063,0,-97.5596 0/0:100:99,1:99:3513:1:36:0,-26.5057,-312.779 0/1:146:102,44:102:3587:44:1530:-93.7964,0,-279.06 0/1:61:50,11:50:1746:11:387:-16.3478,0,-139.052 0/0:75:74,1:74:2640:1:36:0,-19.1228,-234.353 0/0:67:67,0:67:2350:0:0:0,-20.169,-211.694 chr07 26321988 . A G 38756.4 PASS AB=0.727838;ABP=292.931;AC=32;AF=0.761905;AN=42;AO=1801;CIGAR=1X;DP=2011;DPB=2011;DPRA=0;EPP=3913.83;EPPR=454.677;GTI=4;LEN=1;MEANALT=1.09524;MQM=59.5997;MQMR=53.5817;NS=21;NUMALT=1;ODDS=5.68316;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63833;QR=7400;RO=208;RPL=1801;RPP=3913.83;RPPR=454.677;RPR=0;RUN=1;SAF=1801;SAP=3913.83;SAR=0;SRF=208;SRP=454.677;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:143:0,143:0:0:143:5066:-455.986,-43.0473,0 1/1:68:0,68:0:0:68:2411:-217.2,-20.47,0 1/1:85:0,85:0:0:85:3048:-274.531,-25.5876,0 1/1:117:0,117:0:0:117:4184:-376.737,-35.2205,0 1/1:278:2,276:2:72:276:9744:-869.921,-76.8521,0 1/1:97:0,97:0:0:97:3419:-307.873,-29.1999,0 0/1:149:42,106:42:1500:106:3763:-293.933,0,-89.7515 0/0:30:29,1:29:1028:1:36:0,-5.43773,-88.9051 1/1:201:0,201:0:0:201:7089:-637.411,-60.507,0 1/1:22:0,22:0:0:22:784:-70.8747,-6.62266,0 0/1:5:2,3:2:72:3:108:-8.56158,0,-5.31438 0/1:23:8,15:8:288:15:540:-42.0036,0,-19.3065 0/1:87:29,58:29:1025:58:2069:-160.287,0,-66.2033 1/1:86:0,86:0:0:86:3043:-274.08,-25.8886,0 0/1:109:13,96:13:464:96:3440:-276.985,0,-9.17163 0/1:61:21,40:21:748:40:1395:-107.472,0,-48.5808 1/1:100:1,98:1:36:98:3508:-312.331,-26.5645,0 0/1:147:48,99:48:1708:99:3486:-269.674,0,-109.484 0/1:62:11,51:11:387:51:1784:-142.166,0,-16.0488 1/1:73:2,71:2:72:71:2526:-220.853,-15.2751,0 1/1:68:0,68:0:0:68:2390:-215.291,-20.47,0 chr07 26322120 . GACGA CACGA,CACGG 99223.2 PASS AB=0.797706,0.199166;ABP=741.268,756.864;AC=34,8;AF=0.809524,0.190476;AN=42;AO=3343,297;CIGAR=1X4M,1X3M1X;DP=3670;DPB=3670.2;DPRA=2.08372,0.707089;EPP=7253.56,647.938;EPPR=0;GTI=3;LEN=1,5;MEANALT=2.9,3.13333;MQM=59.8872,44.9529;MQMR=0;NS=21;NUMALT=2;ODDS=9.54888;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=118337,10089;QR=0;RO=0;RPL=1717,3;RPP=8.38929,622.143;RPPR=0;RPR=1626,294;RUN=1,1;SAF=1716,3;SAP=8.15545,622.143;SAR=1627,294;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:201:0,200,0:0:0:200,0:7092,0:-637.956,-60.206,0,-637.956,-60.206,-637.956 1/1:226:0,222,1:0:0:222,1:7900,36:-710.499,-66.8287,0,-707.562,-63.8788,-707.261 1/1:135:0,134,0:0:0:134,0:4757,0:-427.927,-40.338,0,-427.927,-40.338,-427.927 1/1:266:0,265,0:0:0:265,0:9353,0:-841.344,-79.773,0,-841.344,-79.773,-841.344 1/1:418:0,413,3:0:0:413,3:14615,93:-1314.79,-124.325,0,-1307.39,-116.903,-1306.49 1/1:148:0,148,0:0:0:148,0:5258,0:-473.346,-44.5524,0,-473.346,-44.5524,-473.346 1/2:241:0,173,68:0:0:173,68:6131,2324:-686.281,-186.81,-134.732,-499.754,0,-479.284 2/2:86:0,0,86:0:0:0,86:0,2896:-256.828,-256.828,-256.828,-25.8886,-25.8886,0 1/1:362:0,357,0:0:0:357,0:12578,0:-1131.44,-107.468,0,-1131.44,-107.468,-1131.44 1/1:37:0,36,1:0:0:36,1:1267,36:-113.951,-10.8371,0,-111.036,-7.56468,-110.735 1/1:16:0,15,1:0:0:15,1:532,34:-47.8713,-4.51545,0,-45.1373,-1.44304,-44.8363 1/2:37:0,32,5:0:0:32,5:1131,163:-105.496,-13.3588,-3.72584,-92.4648,0,-90.9596 1/1:134:0,123,10:0:0:123,10:4359,338:-392.118,-37.0267,0,-365.053,-9.98279,-362.042 1/1:187:0,179,2:0:0:179,2:6349,68:-571.103,-53.8844,0,-565.644,-48.4113,-565.042 1/2:237:0,178,58:0:0:178,58:6310,1999:-673.347,-159.277,-105.694,-514.094,0,-496.634 1/2:108:0,85,23:0:0:85,23:2988,790:-306.48,-63.2588,-37.6713,-243.561,0,-236.638 1/1:178:0,173,1:0:0:173,1:6124,35:-550.905,-52.0782,0,-548.058,-49.2322,-547.757 1/2:181:0,158,21:0:0:158,21:5594,696:-511.301,-55.6293,-8.06656,-455.696,0,-449.374 1/2:155:0,139,16:0:0:139,16:4900,554:-443.34,-44.4297,-2.5865,-399.251,0,-394.434 1/1:214:0,212,0:0:0:212,0:7520,0:-676.474,-63.8184,0,-676.474,-63.8184,-676.474 1/1:103:0,101,1:0:0:101,1:3579,27:-322.011,-30.404,0,-319.883,-28.3102,-319.582 chr07 26325743 . GCCC ACCT,ACCC 80797.3 PASS AB=0.544415,0.44679;ABP=22.4924,30.9721;AC=32,10;AF=0.761905,0.238095;AN=42;AO=3102,657;CIGAR=1X2M1X,1X3M;DP=3790;DPB=3790;DPRA=1.26597,1.21376;EPP=6738.92,1421;EPPR=9.52472;GTI=1;LEN=4,1;MEANALT=2.85,3.125;MQM=59.5451,60;MQMR=60;NS=21;NUMALT=2;ODDS=9.41867;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=108527,23452;QR=105;RO=3;RPL=0,1;RPP=6738.92,1421;RPPR=9.52472;RPR=3102,656;RUN=1,1;SAF=0,0;SAP=6738.92,1429.67;SAR=3102,657;SRF=0;SRP=9.52472;SRR=3;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:153:0,152,1:0:0:152,1:5325,36:-478.731,-45.7566,0,-475.793,-42.4593,-475.492 1/1:249:0,247,0:0:0:247,0:8692,0:-781.354,-74.3544,0,-781.354,-74.3544,-781.354 1/1:148:0,146,2:0:0:146,2:5150,72:-463.238,-43.9504,0,-457.363,-37.7157,-456.761 1/1:290:0,287,2:0:0:287,2:9979,72:-897.477,-86.3956,0,-891.602,-80.4573,-891 1/1:450:0,445,1:0:0:445,1:15631,36:-1405.92,-133.958,0,-1402.98,-131.014,-1402.68 1/1:215:0,214,1:0:0:214,1:7532,36:-677.513,-64.4204,0,-674.576,-61.1232,-674.275 1/2:241:2,126,110:2:69:126,110:4374,3893:-666.36,-311.492,-279.168,-349.861,0,-322.354 2/2:144:1,0,139:1:36:0,139:0,4963:-443.221,-443.522,-446.459,-38.9058,-41.8432,0 1/1:220:0,215,2:0:0:215,2:7492,72:-673.939,-64.7215,0,-668.064,-58.8359,-667.462 1/1:25:0,25,0:0:0:25,0:849,0:-76.3435,-7.52575,0,-76.3435,-7.52575,-76.3435 1/2:11:0,9,2:0:0:9,2:313,72:-31.6729,-6.23466,-3.52539,-25.7958,0,-25.1937 1/2:60:0,47,13:0:0:47,13:1672,459:-173.985,-37.7307,-23.5823,-136.608,0,-132.694 1/2:170:0,66,103:0:0:66,103:2317,3670:-487.855,-299.286,-279.418,-188.709,0,-157.703 1/1:257:0,254,1:0:0:254,1:8903,36:-800.907,-76.4616,0,-797.969,-73.5142,-797.668 1/2:248:0,134,112:0:0:134,112:4604,3999:-699.905,-326.079,-285.741,-373.873,0,-340.158 1/2:209:0,123,86:0:0:123,86:4338,3096:-606.177,-252.978,-215.951,-353.556,0,-327.668 1/1:229:0,227,0:0:0:227,0:7910,0:-711.632,-68.3338,0,-711.632,-68.3338,-711.632 1/2:104:0,57,47:0:0:57,47:2003,1688:-300.956,-138.059,-120.9,-163.253,0,-149.104 1/2:94:0,57,35:0:0:57,35:1988,1252:-263.758,-102.108,-84.9495,-161.663,0,-151.127 1/1:191:0,189,0:0:0:189,0:6596,0:-593.198,-56.8947,0,-593.198,-56.8947,-593.198 1/1:82:0,82,0:0:0:82,0:2859,0:-257.493,-24.6845,0,-257.493,-24.6845,-257.493 chr07 26325776 . A G 67731.2 PASS AB=0.542073;ABP=20.3686;AC=32;AF=0.761905;AN=42;AO=3091;CIGAR=1X;DP=3761;DPB=3761;DPRA=1.20367;EPP=6715.03;EPPR=1457.9;GTI=1;LEN=1;MEANALT=1;MQM=59.5254;MQMR=60;NS=21;NUMALT=1;ODDS=19.0779;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=110466;QR=23954;RO=670;RPL=3091;RPP=6715.03;RPPR=1457.9;RPR=0;RUN=1;SAF=0;SAP=6715.03;SAR=3091;SRF=0;SRP=1457.9;SRR=670;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:1,149:1:36:149:5321:-475.121,-41.5562,0 1/1:245:0,245:0:0:245:8765:-788.018,-73.7524,0 1/1:144:0,144:0:0:144:5141:-462.708,-43.3483,0 1/1:282:0,282:0:0:282:10068:-905.669,-84.8905,0 1/1:446:0,446:0:0:446:15918:-1431.21,-134.259,0 1/1:216:1,215:1:36:215:7704:-689.722,-61.4242,0 0/1:239:114,125:114:4092:125:4480:-331.32,0,-296.518 0/0:150:150,0:150:5375:0:0:0,-45.1545,-483.88 1/1:220:1,219:1:36:219:7799:-698.325,-62.6283,0 1/1:25:0,25:0:0:25:871:-78.5863,-7.52575,0 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:60:14,46:14:504:46:1644:-130.178,0,-27.6363 0/1:168:103,65:103:3667:65:2317:-158.213,0,-279.662 1/1:254:0,254:0:0:254:9089:-817.865,-76.4616,0 0/1:246:115,131:115:4105:131:4683:-347.154,0,-295.581 0/1:209:87,122:87:3108:122:4378:-331.26,0,-217.032 1/1:228:0,228:0:0:228:8153:-733.71,-68.6348,0 0/1:103:47,56:47:1684:56:2007:-149.738,0,-120.841 0/1:93:35,58:35:1239:58:2063:-157.907,0,-83.8179 1/1:191:0,191:0:0:191:6837:-614.399,-57.4967,0 1/1:81:0,81:0:0:81:2904:-261.491,-24.3834,0 chr07 26418755 . A G 13782.5 PASS AB=0.471981;ABP=11.6499;AC=10;AF=0.238095;AN=42;AO=785;CIGAR=1X;DP=3968;DPB=3968;DPRA=0.911724;EPP=1690.29;EPPR=6877.92;GTI=1;LEN=1;MEANALT=1.23077;MQM=59.9694;MQMR=60;NS=21;NUMALT=1;ODDS=2.99372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27816;QR=113862;RO=3178;RPL=783;RPP=1690.29;RPPR=6877.92;RPR=2;RUN=1;SAF=0;SAP=1707.62;SAR=785;SRF=0;SRP=6903.95;SRR=3178;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:191:185,6:185:6636:6:216:0,-37.7062,-577.526 0/0:152:152,0:152:5420:0:0:0,-45.7566,-487.93 0/0:180:180,0:180:6463:0:0:0,-54.1854,-581.753 0/0:198:197,1:197:7072:1:36:0,-56.0057,-632.939 0/0:516:515,1:515:18427:1:36:0,-151.733,-1654.41 0/0:221:221,0:221:7928:0:0:0,-66.5276,-713.542 0/1:287:136,151:136:4884:151:5370:-397.039,0,-353.315 1/1:178:0,178:0:0:178:6314:-568.356,-53.5833,0 0/0:362:361,0:361:12891:0:0:0,-108.672,-1159.65 0/0:19:18,1:18:644:1:36:0,-2.12129,-54.6923 0/1:7:3,4:3:108:4:134:-10.2836,0,-7.96796 0/1:36:16,20:16:576:20:703:-52.7564,0,-41.3379 0/1:263:126,137:126:4524:137:4872:-359.451,0,-328.155 0/0:179:179,0:179:6406:0:0:0,-53.8844,-576.627 0/1:301:160,140:160:5739:140:4970:-356.863,0,-426.035 0/1:209:125,83:125:4483:83:2942:-202.041,0,-340.664 0/0:197:196,0:196:7036:0:0:0,-59.0019,-633.088 0/1:83:51,32:51:1836:32:1139:-77.8329,0,-140.535 0/1:81:49,31:49:1755:31:1048:-70.1797,0,-133.791 0/0:246:246,0:246:8814:0:0:0,-74.0534,-793.245 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 chr07 26429769 . CCAGA TCAGT,TCAAT 12753.1 PASS AB=0.410256,0.582418;ABP=22.1081,19.1174;AC=33,9;AF=0.785714,0.214286;AN=42;AO=390,188;CIGAR=1X3M1X,1X2M2X;DP=581;DPB=581;DPRA=0.951724,1.75896;EPP=807.012,169.336;EPPR=0;GTI=1;LEN=5,5;MEANALT=1.5,2.125;MQM=55.9821,39.3936;MQMR=0;NS=21;NUMALT=2;ODDS=2.33363;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=13737,6608;QR=0;RO=0;RPL=5,154;RPP=807.012,169.336;RPPR=0;RPR=385,34;RUN=1,1;SAF=0,0;SAP=849.885,411.247;SAR=390,188;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:17:0,17,0:0:0:17,0:605,0:-54.7559,-5.11751,0,-54.7559,-5.11751,-54.7559 1/1:8:0,8,0:0:0:8,0:283,0:-25.7886,-2.40824,0,-25.7886,-2.40824,-25.7886 1/1:30:0,30,0:0:0:30,0:1053,0:-94.9271,-9.0309,0,-94.9271,-9.0309,-94.9271 1/1:19:0,19,0:0:0:19,0:677,0:-61.2306,-5.71957,0,-61.2306,-5.71957,-61.2306 1/1:36:0,36,0:0:0:36,0:1264,0:-113.921,-10.8371,0,-113.921,-10.8371,-113.921 1/1:15:0,15,0:0:0:15,0:530,0:-47.9696,-4.51545,0,-47.9696,-4.51545,-47.9696 1/2:45:0,16,27:0:0:16,27:564,963:-119.53,-73.6516,-68.8351,-45.9315,0,-37.8037 2/2:29:0,0,29:0:0:0,29:0,1012:-88.0621,-88.0621,-88.0621,-8.72987,-8.72987,0 1/1:43:0,43,0:0:0:43,0:1519,0:-136.835,-12.9443,0,-136.835,-12.9443,-136.835 1/1:12:0,12,0:0:0:12,0:413,0:-37.4758,-3.61236,0,-37.4758,-3.61236,-37.4758 1/1:4:0,4,0:0:0:4,0:144,0:-12.4791,-1.20412,0,-12.4791,-1.20412,-12.4791 1/2:8:0,4,4:0:0:4,4:130,144:-22.1493,-11.6745,-10.4703,-10.8112,0,-9.6071 1/2:45:0,16,29:0:0:16,29:559,1013:-123.882,-78.4806,-73.6641,-45.7442,0,-37.0143 1/1:29:0,29,0:0:0:29,0:1018,0:-91.8226,-8.72987,0,-91.8226,-8.72987,-91.8226 1/2:105:0,40,65:0:0:40,65:1419,2269:-290.97,-175.407,-163.366,-115.91,0,-96.3428 1/2:11:0,3,8:0:0:3,8:108,285:-30.794,-21.9818,-21.0787,-9.16481,0,-6.75657 1/1:12:0,12,0:0:0:12,0:431,0:-39.1029,-3.61236,0,-39.1029,-3.61236,-39.1029 1/2:25:0,9,16:0:0:9,16:317,566:-70.7079,-44.9081,-42.1989,-26.1485,0,-21.332 1/2:34:0,24,10:0:0:24,10:854,356:-97.0627,-27.4822,-20.2575,-69.9215,0,-66.9112 1/1:37:0,36,0:0:0:36,0:1251,0:-112.217,-10.8371,0,-112.217,-10.8371,-112.217 1/1:17:0,17,0:0:0:17,0:598,0:-53.9925,-5.11751,0,-53.9925,-5.11751,-53.9925 chr07 26466921 . T A 18273.6 PASS AB=0.676724;ABP=65.9456;AC=33;AF=0.785714;AN=42;AO=843;CIGAR=1X;DP=941;DPB=941;DPRA=2.89062;EPP=1833.56;EPPR=215.815;GTI=2;LEN=1;MEANALT=1;MQM=59.9727;MQMR=60;NS=21;NUMALT=1;ODDS=0.163318;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29855;QR=3501;RO=98;RPL=3;RPP=1807.6;RPPR=215.815;RPR=840;RUN=1;SAF=3;SAP=1807.6;SAR=840;SRF=0;SRP=215.815;SRR=98;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,60:0:0:60:2092:-188.536,-18.0618,0 1/1:76:0,76:0:0:76:2702:-243.424,-22.8783,0 1/1:31:0,31:0:0:31:1103:-99.5798,-9.33193,0 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 1/1:141:3,138:3:108:138:4892:-430.358,-32.3701,0 1/1:101:3,98:3:108:98:3443:-300.012,-20.3289,0 0/1:51:15,36:15:540:36:1273:-99.5187,0,-33.584 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 1/1:78:0,78:0:0:78:2774:-249.9,-23.4803,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:21:7,14:7:248:14:500:-39.0145,0,-16.3426 0/1:37:15,22:15:525:22:788:-60.1067,0,-36.4399 1/1:57:0,57:0:0:57:2019:-181.982,-17.1587,0 0/1:53:19,34:19:684:34:1200:-92.351,0,-45.9357 0/1:44:10,34:10:356:34:1184:-93.6152,0,-19.1359 1/1:52:1,51:1:36:51:1820:-160.483,-12.0553,0 0/1:14:4,10:4:144:10:356:-28.1668,0,-9.0992 0/1:12:5,7:5:180:7:248:-19.0518,0,-12.9397 1/1:40:0,40:0:0:40:1421:-128.185,-12.0412,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 chr07 26466974 . G C 203.43 PASS AB=0.169312;ABP=182.53;AC=9;AF=0.214286;AN=42;AO=46;CIGAR=1X;DP=912;DPB=912;DPRA=0.851751;EPP=102.898;EPPR=1881.33;GTI=6;LEN=1;MEANALT=1;MQM=60;MQMR=59.9931;NS=21;NUMALT=1;ODDS=1.70491;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1648;QR=30961;RO=865;RPL=46;RPP=102.898;RPPR=1881.33;RPR=0;RUN=1;SAF=0;SAP=102.898;SAR=46;SRF=0;SRP=1881.33;SRR=865;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:62,0:62:2228:0:0:0,-18.6639,-200.784 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.24 0/0:32:32,0:32:1125:0:0:0,-9.63296,-101.556 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.701 0/0:144:142,2:142:5076:2:72:0,-36.5116,-450.149 0/0:99:98,0:98:3516:0:0:0,-29.5009,-316.289 0/1:40:35,5:35:1260:5:180:-4.51087,0,-101.664 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/0:83:83,0:83:2972:0:0:0,-24.9855,-267.713 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:19:14,5:14:500:5:180:-10.8325,0,-39.6166 0/1:30:23,7:23:828:7:248:-13.6333,0,-65.8132 0/0:57:57,0:57:2028:0:0:0,-17.1587,-182.793 0/1:40:34,6:34:1212:6:212:-7.3836,0,-97.3451 0/1:40:34,6:34:1220:6:216:-7.74931,0,-98.0656 0/0:54:53,1:53:1908:1:36:0,-12.6573,-168.399 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.433 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.168 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 chr07 26485094 . T G 30524.2 PASS AB=0.530648;ABP=7.66889;AC=32;AF=0.761905;AN=42;AO=1413;CIGAR=1X;DP=1784;DPB=1784;DPRA=0.869588;EPP=3071.3;EPPR=808.627;GTI=0;LEN=1;MEANALT=1;MQM=59.9943;MQMR=59.9838;NS=21;NUMALT=1;ODDS=5.90576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50360;QR=13260;RO=371;RPL=0;RPP=3071.3;RPPR=808.627;RPR=1413;RUN=1;SAF=1413;SAP=3071.3;SAR=0;SRF=371;SRP=808.627;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:1,93:1:36:93:3314:-294.878,-24.6985,0 1/1:40:0,40:0:0:40:1421:-128.185,-12.0412,0 1/1:106:0,106:0:0:106:3751:-337.788,-31.9092,0 1/1:125:0,125:0:0:125:4461:-401.66,-37.6288,0 1/1:189:0,189:0:0:189:6757:-608.203,-56.8947,0 1/1:132:3,129:3:108:129:4600:-404.08,-29.6608,0 0/1:117:58,59:58:2076:59:2112:-155.128,0,-151.89 0/0:97:97,0:97:3460:0:0:0,-29.1999,-311.609 1/1:108:1,107:1:36:107:3771:-335.987,-28.913,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:16:5,11:5:180:11:377:-29.4415,0,-11.7356 0/1:148:67,81:67:2396:81:2900:-216.683,0,-171.345 1/1:116:0,116:0:0:116:4164:-374.941,-34.9195,0 0/1:106:49,57:49:1752:57:2028:-150.884,0,-126.055 0/1:78:37,41:37:1328:41:1457:-107.944,0,-96.3419 1/1:86:0,86:0:0:86:3073:-276.798,-25.8886,0 0/1:59:35,24:35:1244:24:849:-58.9676,0,-94.5039 0/1:42:14,28:14:500:28:1004:-78.0326,0,-32.6929 1/1:72:0,72:0:0:72:2580:-232.449,-21.6742,0 1/1:43:1,42:1:36:42:1489:-130.704,-9.34602,0 chr07 26485128 . C T 6706.12 PASS AB=0.471503;ABP=7.09447;AC=10;AF=0.238095;AN=42;AO=374;CIGAR=1X;DP=1805;DPB=1805;DPRA=0.918202;EPP=806.478;EPPR=3099.54;GTI=0;LEN=1;MEANALT=1;MQM=59.984;MQMR=59.9804;NS=21;NUMALT=1;ODDS=9.25554;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13367;QR=51097;RO=1430;RPL=373;RPP=806.478;RPPR=3082.21;RPR=1;RUN=1;SAF=374;SAP=815.141;SAR=0;SRF=1428;SRP=3090.87;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:93:92,1:92:3304:1:36:0,-24.3975,-293.98 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/0:104:104,0:104:3702:0:0:0,-31.3071,-333.383 0/0:129:129,0:129:4616:0:0:0,-38.8329,-415.604 0/0:190:190,0:190:6824:0:0:0,-57.1957,-614.228 0/0:137:135,2:135:4788:2:68:0,-34.7834,-424.428 0/1:121:62,59:62:2224:59:2116:-154.284,0,-163.996 1/1:98:0,98:0:0:98:3501:-315.296,-29.5009,0 0/0:109:109,0:109:3865:0:0:0,-32.8123,-348.044 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 0/1:16:11,5:11:396:5:180:-11.7356,0,-31.1663 0/1:149:81,68:81:2900:68:2421:-173.291,0,-216.382 0/0:115:115,0:115:4107:0:0:0,-34.6184,-369.815 0/1:103:56,47:56:2012:47:1673:-119.849,0,-150.347 0/1:81:42,39:42:1493:39:1400:-101.916,0,-110.279 0/0:90:89,0:89:3196:0:0:0,-26.7917,-287.651 0/1:60:24,36:24:856:36:1292:-98.522,0,-59.2993 0/1:43:28,15:28:989:15:540:-35.9922,0,-76.3777 0/0:75:75,0:75:2661:0:0:0,-22.5772,-239.735 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.136 chr07 26487791 . A G 36862.9 PASS AB=0.540909;ABP=12.6043;AC=32;AF=0.761905;AN=42;AO=1691;CIGAR=1X;DP=2161;DPB=2161;DPRA=0.600904;EPP=3674.97;EPPR=1021.43;GTI=1;LEN=1;MEANALT=1.05;MQM=59.984;MQMR=60;NS=21;NUMALT=1;ODDS=2.59443;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60302;QR=16764;RO=469;RPL=0;RPP=3674.97;RPPR=1021.43;RPR=1691;RUN=1;SAF=1691;SAP=3674.97;SAR=0;SRF=469;SRP=1021.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:0,128:0:0:128:4579:-412.275,-38.5318,0 1/1:38:0,38:0:0:38:1356:-122.336,-11.4391,0 1/1:79:0,79:0:0:79:2828:-254.759,-23.7814,0 1/1:172:0,171:0:0:171:6105:-549.191,-51.4761,0 1/1:324:0,324:0:0:324:11560:-1040.27,-97.5337,0 1/1:85:0,85:0:0:85:3029:-272.839,-25.5876,0 0/1:139:65,74:65:2316:74:2644:-196.364,0,-166.858 0/0:166:166,0:166:5916:0:0:0,-49.971,-532.553 1/1:152:0,152:0:0:152:5392:-485.409,-45.7566,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 0/1:107:47,60:47:1688:60:2139:-160.497,0,-119.997 1/1:100:0,100:0:0:100:3541:-318.9,-30.103,0 0/1:203:106,97:106:3804:97:3469:-251.311,0,-281.448 0/1:42:15,27:15:528:27:953:-73.4401,0,-35.2081 1/1:64:0,64:0:0:64:2281:-205.55,-19.2659,0 0/1:82:36,46:36:1296:46:1648:-123.924,0,-92.2595 0/1:73:27,46:27:968:46:1628:-124.834,0,-65.4622 1/1:123:0,123:0:0:123:4390:-395.271,-37.0267,0 1/1:58:0,58:0:0:58:2076:-187.111,-17.4597,0 chr07 26538627 . A G 95847.1 PASS AB=0.538257;ABP=22.1172;AC=32;AF=0.761905;AN=42;AO=3443;CIGAR=1X;DP=4388;DPB=4388;DPRA=0.84918;EPP=73.7897;EPPR=16.6632;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9402;MQMR=59.9809;NS=21;NUMALT=1;ODDS=31.8711;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=122501;QR=33638;RO=943;RPL=3392;RPP=7042.97;RPPR=1914.09;RPR=51;RUN=1;SAF=1503;SAP=123.453;SAR=1940;SRF=417;SRP=30.369;SRR=526;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,159:0:0:159:5659:-509.433,-47.8638,0 1/1:39:0,39:0:0:39:1384:-124.857,-11.7402,0 1/1:258:1,257:1:36:257:9164:-821.137,-74.0675,0 1/1:332:1,331:1:36:331:11766:-1055.08,-96.3437,0 1/1:467:5,462:5:180:462:16433:-1462.08,-124.029,0 1/1:121:0,121:0:0:121:4309:-387.985,-36.4246,0 0/1:182:92,89:92:3295:89:3177:-231.306,0,-241.866 0/0:244:244,0:244:8711:0:0:0,-73.4513,-783.984 1/1:410:0,410:0:0:410:14572:-1311.23,-123.422,0 1/1:50:0,50:0:0:50:1784:-160.843,-15.0515,0 0/1:23:19,4:19:684:4:144:-6.38993,0,-54.9666 0/1:94:50,44:50:1780:44:1576:-113.835,0,-132.186 0/1:308:130,177:130:4623:177:6290:-473.418,0,-323.457 1/1:296:0,296:0:0:296:10504:-945.23,-89.1049,0 0/1:408:198,210:198:7065:210:7496:-551.859,0,-513.091 0/1:28:16,12:16:576:12:428:-30.4284,0,-43.7461 1/1:56:0,56:0:0:56:1982:-178.653,-16.8577,0 0/1:253:128,125:128:4565:125:4472:-326.489,0,-334.855 0/1:207:59,148:59:2087:148:5259:-411.132,0,-125.787 1/1:373:0,373:0:0:373:13254:-1192.57,-112.284,0 1/1:80:0,80:0:0:80:2848:-256.538,-24.0824,0 chr07 26538641 . TGAG GGAG,GGAT 57212.5 PASS AB=0.528258,0.471742;ABP=9.0238,9.0238;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1986,541;CIGAR=1X3M,1X2M1X;DP=2531;DPB=2531;DPRA=0.931008,1.09475;EPP=3892.19,1143.29;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.65,2.16667;MQM=59.9194,59.9704;MQMR=0;NS=21;NUMALT=2;ODDS=19.1772;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70612,19107;QR=0;RO=0;RPL=1986,541;RPP=4315.55,1177.78;RPPR=0;RPR=0,0;RUN=1,1;SAF=50,4;SAP=3892.19,1143.29;SAR=1936,537;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88,0:0:0:88,0:3128,0:-281.748,-26.4906,0,-281.748,-26.4906,-281.748 1/1:39:0,39,0:0:0:39,0:1400,0:-126.291,-11.7402,0,-126.291,-11.7402,-126.291 1/1:151:0,150,1:0:0:150,1:5347,36:-481.005,-45.1545,0,-478.068,-41.8573,-477.767 1/1:120:0,118,2:0:0:118,2:4195,61:-377.423,-35.5215,0,-372.538,-30.3304,-371.936 1/1:235:0,232,2:0:0:232,2:8240,65:-741.307,-69.839,0,-736.061,-64.5629,-735.459 1/1:118:0,118,0:0:0:118,0:4196,0:-377.737,-35.5215,0,-377.737,-35.5215,-377.737 1/2:182:0,86,96:0:0:86,96:3084,3403:-529.121,-277.579,-251.691,-251.899,0,-223 2/2:129:0,0,127:0:0:0,127:0,4482:-403.243,-403.243,-403.243,-38.2308,-38.2308,0 1/1:236:0,235,0:0:0:235,0:8351,0:-751.257,-70.7421,0,-751.257,-70.7421,-751.257 1/1:31:0,31,0:0:0:31,0:1112,0:-100.391,-9.33193,0,-100.391,-9.33193,-100.391 1/2:23:0,4,19:0:0:4,19:144,672:-66.8378,-55.087,-53.8829,-12.1095,0,-6.38993 1/2:52:0,28,24:0:0:28,24:996,856:-151.307,-70.1367,-61.7079,-81.526,0,-74.3013 1/2:155:0,99,56:0:0:99,56:3534,1994:-450.974,-162.876,-133.074,-288.455,0,-271.597 1/1:192:0,192,0:0:0:192,0:6820,0:-613.791,-57.7978,0,-613.791,-57.7978,-613.791 1/2:200:0,99,101:0:0:99,101:3510,3584:-578.316,-292.366,-262.564,-286.305,0,-255.901 1/2:20:0,11,9:0:0:11,9:392,320:-58.3847,-26.4332,-23.1219,-32.3072,0,-29.5979 1/1:30:0,30,0:0:0:30,0:1068,0:-96.4321,-9.0309,0,-96.4321,-9.0309,-96.4321 1/2:130:0,58,72:0:0:58,72:2076,2527:-375.304,-206.007,-188.548,-169.651,0,-147.977 1/2:105:0,73,32:0:0:73,32:2568,1107:-299.348,-90.3018,-68.3267,-209.394,0,-199.761 1/1:218:0,218,0:0:0:218,0:7708,0:-693.489,-65.6245,0,-693.489,-65.6245,-693.489 1/1:77:0,77,0:0:0:77,0:2743,0:-247.093,-23.1793,0,-247.093,-23.1793,-247.093 chr07 26538681 . TGCTG TTTG,TTTA 45764.5 PASS AB=0.566563,0.430341;ABP=27.8713,30.2377;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1750,326;CIGAR=1M1D1X2M,1M1D1X1M1X;DP=2085;DPB=1666.4;DPRA=2.2163,1.04499;EPP=3768.42,710.91;EPPR=0;GTI=2;LEN=4,4;MEANALT=1.7,2.18182;MQM=59.8451,44.9417;MQMR=0;NS=21;NUMALT=2;ODDS=15.9459;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62588,11536;QR=0;RO=0;RPL=4,0;RPP=3768.42,710.91;RPPR=0;RPR=1746,326;RUN=1,1;SAF=1750,326;SAP=3803.09,710.91;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42,0:0:0:42,0:1503,0:-135.558,-12.6433,0,-135.558,-12.6433,-135.558 1/1:15:0,15,0:0:0:15,0:531,0:-48.1219,-4.51545,0,-48.1219,-4.51545,-48.1219 1/1:130:0,130,0:0:0:130,0:4649,0:-418.538,-39.1339,0,-418.538,-39.1339,-418.538 1/1:174:0,174,0:0:0:174,0:6229,0:-560.704,-52.3792,0,-560.704,-52.3792,-560.704 1/1:297:0,295,2:0:0:295,2:10541,72:-948.234,-88.8039,0,-942.394,-82.6063,-941.792 1/1:126:0,125,1:0:0:125,1:4452,36:-400.484,-37.6288,0,-397.546,-34.3315,-397.245 1/2:65:0,32,33:0:0:32,33:1152,1179:-187.654,-93.651,-84.018,-94.3572,0,-84.4232 2/2:46:0,0,45:0:0:0,45:0,1597:-138.567,-138.567,-138.567,-13.5464,-13.5464,0 1/1:140:0,135,0:0:0:135,0:4835,0:-434.686,-40.6391,0,-434.686,-40.6391,-434.686 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:20:0,18,2:0:0:18,2:648,72:-59.0181,-6.14012,-0.721579,-53.2333,0,-52.6313 1/2:38:0,18,20:0:0:18,20:640,691:-106.126,-53.9625,-48.5439,-52.5074,0,-46.4868 1/2:180:0,102,78:0:0:102,78:3644,2751:-517.46,-220.363,-189.658,-297.448,0,-273.968 1/1:104:0,104,0:0:0:104,0:3715,0:-334.548,-31.3071,0,-334.548,-31.3071,-334.548 1/2:174:0,86,87:0:0:86,87:3079,3084:-498.288,-247.192,-221.303,-251.153,0,-224.963 1/2:15:0,13,2:0:0:13,2:468,72:-44.1352,-6.02593,-2.11254,-38.4595,0,-37.8574 1/1:42:0,42,0:0:0:42,0:1508,0:-136.015,-12.6433,0,-136.015,-12.6433,-136.015 1/2:69:0,43,25:0:0:43,25:1540,882:-193.737,-68.1683,-55.224,-125.687,0,-118.162 1/2:85:0,54,31:0:0:54,31:1940,1100:-247.213,-89.0021,-72.7465,-158.565,0,-149.233 1/1:252:0,252,0:0:0:252,0:9015,0:-811.268,-75.8596,0,-811.268,-75.8596,-811.268 1/1:60:0,59,0:0:0:59,0:2103,0:-189.179,-17.7608,0,-189.179,-17.7608,-189.179 chr07 26538719 . A C 3381.67 PASS AB=0.27421;ABP=437.413;AC=10;AF=0.238095;AN=42;AO=314;CIGAR=1X;DP=3548;DPB=3548;DPRA=0.747917;EPP=684.853;EPPR=7023.38;GTI=3;LEN=1;MEANALT=1;MQM=45.1083;MQMR=59.8757;NS=21;NUMALT=1;ODDS=12.2113;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11187;QR=114752;RO=3233;RPL=314;RPP=684.853;RPPR=62.2566;RPR=0;RUN=1;SAF=314;SAP=684.853;SAR=0;SRF=1765;SRP=62.2566;SRR=1468;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:92:92,0:92:3250:0:0:0,-27.6948,-292.708 0/0:26:26,0:26:910:0:0:0,-7.82678,-82.2141 0/0:326:326,0:326:11636:0:0:0,-98.1358,-1046.95 0/0:314:314,0:314:11104:0:0:0,-94.5234,-999.257 0/0:410:408,2:408:14485:2:72:0,-116.623,-1296.47 0/0:234:233,0:233:8287:0:0:0,-70.14,-745.476 0/1:120:88,32:88:3131:32:1140:-64.9392,0,-245.893 1/1:45:2,43:2:72:43:1531:-126.751,-6.70963,0 0/0:320:320,0:320:11362:0:0:0,-96.3296,-1022.31 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:20:18,2:18:648:2:72:-0.721579,0,-52.6313 0/1:52:35,17:35:1218:17:608:-36.9738,0,-94.2649 0/1:263:186,77:186:6627:77:2724:-163.433,0,-517.335 0/0:230:230,0:230:8078:0:0:0,-69.2369,-726.605 0/1:278:193,85:193:6862:85:3048:-186.549,0,-533.651 0/1:19:17,2:17:608:2:72:-0.908417,0,-49.3325 0/0:59:59,0:59:2087:0:0:0,-17.7608,-188.1 0/1:101:77,24:77:2717:24:856:-43.1801,0,-214.227 0/1:128:98,30:98:3508:30:1064:-56.5829,0,-277.342 0/0:396:396,0:396:14056:0:0:0,-119.208,-1264.76 0/0:99:99,0:99:3534:0:0:0,-29.802,-318.268 chr07 26561531 . G A 4438.89 PASS AB=0.460317;ABP=9.90386;AC=10;AF=0.238095;AN=42;AO=281;CIGAR=1X;DP=1515;DPB=1515;DPRA=1.48232;EPP=613.194;EPPR=2665.26;GTI=0;LEN=1;MEANALT=1;MQM=42.605;MQMR=55.8225;NS=21;NUMALT=1;ODDS=11.2765;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10043;QR=43933;RO=1234;RPL=281;RPP=613.194;RPPR=2665.26;RPR=0;RUN=1;SAF=0;SAP=613.194;SAR=281;SRF=0;SRP=2682.61;SRR=1234;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:136:135,1:135:4800:1:36:0,-37.4191,-427.652 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2267 0/0:106:106,0:106:3775:0:0:0,-31.9092,-339.28 0/0:96:96,0:96:3397:0:0:0,-28.8989,-305.663 0/0:214:211,3:211:7512:3:108:0,-54.5958,-664.426 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.414 0/1:116:57,59:57:2044:59:2116:-151.759,0,-149.107 1/1:44:0,44:0:0:44:1564:-138.186,-13.2453,0 0/0:48:48,0:48:1712:0:0:0,-14.4494,-154.108 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.5851 0/1:7:2,5:2:72:5:180:-14.0894,0,-4.7276 0/1:12:6,6:6:216:6:216:-15.7532,0,-16.1694 0/1:106:62,44:62:2228:44:1576:-106.8,0,-168.488 0/0:99:99,0:99:3489:0:0:0,-29.802,-313.422 0/1:92:59,33:59:2112:33:1180:-76.1213,0,-162.067 0/1:49:23,26:23:815:26:928:-66.4454,0,-58.7452 0/0:25:25,0:25:877:0:0:0,-7.52575,-79.1099 0/1:72:32,40:32:1140:40:1432:-104.797,0,-81.0547 0/1:50:31,19:31:1108:19:671:-44.2109,0,-84.8442 0/0:108:107,1:107:3800:1:36:0,-28.9902,-338.319 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.511 chr07 26563252 . GTGC TTGT,GTGT 44932.1 PASS AB=0.44026,0.557143;ABP=26.8796,24.8491;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1567,482;CIGAR=1X2M1X,3M1X;DP=2058;DPB=2058;DPRA=4.50392,0.963727;EPP=3276.67,1006.68;EPPR=0;GTI=1;LEN=4,1;MEANALT=2,2.21429;MQM=57.1985,55.2967;MQMR=0;NS=21;NUMALT=2;ODDS=2.47916;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55529,16950;QR=0;RO=0;RPL=15,5;RPP=3276.67,1006.68;RPPR=0;RPR=1552,477;RUN=1,1;SAF=0,0;SAP=3405.71,1049.66;SAR=1567,482;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,110,2:0:0:110,2:3910,72:-350.584,-33.1133,0,-344.711,-26.8811,-344.109 1/1:114:0,114,0:0:0:114,0:4038,0:-363.273,-34.3174,0,-363.273,-34.3174,-363.273 1/1:41:0,39,1:0:0:39,1:1400,36:-125.787,-11.7402,0,-122.852,-8.77527,-122.551 1/1:119:0,119,0:0:0:119,0:4206,0:-378.2,-35.8226,0,-378.2,-35.8226,-378.2 1/1:211:0,206,1:0:0:206,1:7262,36:-652.769,-62.0122,0,-649.834,-59.0768,-649.533 1/1:122:0,121,1:0:0:121,1:4291,36:-385.238,-36.4246,0,-382.303,-33.13,-382.002 1/2:225:0,94,130:0:0:94,130:3350,4586:-645.293,-372.5,-344.203,-272.787,0,-233.653 2/2:43:0,0,43:0:0:0,43:0,1528:-137.201,-137.201,-137.201,-12.9443,-12.9443,0 1/1:172:0,172,0:0:0:172,0:6084,0:-547.254,-51.7772,0,-547.254,-51.7772,-547.254 1/1:7:0,7,0:0:0:7,0:250,0:-22.8407,-2.10721,0,-22.8407,-2.10721,-22.8407 2/2:4:0,0,4:0:0:0,4:0,140:-12.9364,-12.9364,-12.9364,-1.20412,-1.20412,0 1/2:17:0,8,9:0:0:8,9:284,316:-49.1866,-26.0511,-23.6429,-23.4883,0,-20.7791 1/2:105:0,44,60:0:0:44,60:1552,2084:-295.332,-169.099,-155.854,-126.23,0,-108.168 1/1:131:0,130,0:0:0:130,0:4606,0:-414.158,-39.1339,0,-414.158,-39.1339,-414.158 1/2:187:0,93,94:0:0:93,94:3288,3294:-535.555,-268.076,-240.08,-267.831,0,-239.534 1/2:137:0,44,93:0:0:44,93:1555,3262:-391.681,-265.454,-252.209,-126.578,0,-98.5823 1/1:107:0,107,0:0:0:107,0:3796,0:-341.59,-32.2102,0,-341.59,-32.2102,-341.59 1/2:61:0,31,30:0:0:31,30:1107,1064:-177.072,-86.942,-77.61,-90.4857,0,-81.4548 1/2:38:0,25,13:0:0:25,13:890,464:-110.107,-37.969,-30.4433,-72.4923,0,-68.5789 1/1:52:0,51,1:0:0:51,1:1802,32:-161.891,-15.3525,0,-159.314,-12.4553,-159.013 1/1:53:0,52,0:0:0:52,0:1858,0:-166.601,-15.6536,0,-166.601,-15.6536,-166.601 chr07 26563268 . CGGA TGGG,TGTC 44125.1 PASS AB=0.421973,0.573034;ABP=45.3689,40.1205;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1562,515;CIGAR=1X2M1X,1X1M2X;DP=2091;DPB=2091.25;DPRA=4.21053,0.989316;EPP=3394.85,1121.32;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.21053,2.42857;MQM=57.2561,55.2621;MQMR=0;NS=21;NUMALT=2;ODDS=1.51796;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=54916,18084;QR=0;RO=0;RPL=1562,515;RPP=3394.85,1121.32;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3394.85,1121.32;SAR=1562,515;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:0,110,2:0:0:110,2:3832,65:-343.555,-33.1133,0,-338.312,-27.8867,-337.71 1/1:113:0,111,0:0:0:111,0:3933,0:-353.402,-33.4143,0,-353.402,-33.4143,-353.402 1/1:41:0,39,1:0:0:39,1:1368,36:-122.986,-11.7402,0,-120.05,-8.76946,-119.749 1/1:119:0,118,0:0:0:118,0:4095,0:-368.097,-35.5215,0,-368.097,-35.5215,-368.097 1/1:209:0,208,1:0:0:208,1:7322,36:-658.076,-62.6142,0,-655.14,-59.3196,-654.839 1/1:122:0,120,1:0:0:120,1:4206,36:-377.85,-36.1236,0,-374.915,-33.1235,-374.614 1/2:235:0,94,140:0:0:94,140:3302,4945:-670.238,-401.666,-373.369,-268.565,0,-226.42 2/2:46:0,0,45:0:0:0,45:0,1570:-140.976,-140.976,-140.976,-13.5464,-13.5464,0 1/1:171:0,168,0:0:0:168,0:5933,0:-533.527,-50.573,0,-533.527,-50.573,-533.527 1/1:7:0,7,0:0:0:7,0:248,0:-22.6586,-2.10721,0,-22.6586,-2.10721,-22.6586 2/2:5:0,0,5:0:0:0,5:0,176:-16.1745,-16.1745,-16.1745,-1.50515,-1.50515,0 1/2:17:0,8,9:0:0:8,9:282,313:-48.7329,-25.7767,-23.3685,-23.3062,0,-20.5969 1/2:114:0,45,69:0:0:45,69:1586,2396:-323.669,-194.796,-181.25,-129.222,0,-108.451 1/1:132:0,132,0:0:0:132,0:4644,0:-417.776,-39.736,0,-417.776,-39.736,-417.776 1/2:195:0,93,102:0:0:93,102:3289,3610:-561.686,-294.084,-266.088,-267.955,0,-237.25 1/2:140:0,43,96:0:0:43,96:1522,3346:-395.352,-271.711,-258.766,-123.64,0,-94.7415 1/1:107:0,107,0:0:0:107,0:3777,0:-339.874,-32.2102,0,-339.874,-32.2102,-339.874 1/2:61:0,31,30:0:0:31,30:1095,1066:-176.147,-87.087,-77.755,-89.4133,0,-80.3824 1/2:39:0,24,13:0:0:24,13:837,455:-104.786,-36.8744,-29.6497,-67.9753,0,-64.0619 1/1:52:0,51,1:0:0:51,1:1786,34:-160.434,-15.3525,0,-157.678,-12.2563,-157.377 1/1:53:0,53,0:0:0:53,0:1859,0:-166.99,-15.9546,0,-166.99,-15.9546,-166.99 chr08 12749 . TTG TTA,ATA 42317.6 PASS AB=0.532292,0.465578;ABP=15.7725,17.5109;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1326,727;CIGAR=2M1X,1X1M1X;DP=2058;DPB=2058;DPRA=0,1.07355;EPP=2856.38,1573;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.95238,2.1875;MQM=59.9419,59.9188;MQMR=60;NS=21;NUMALT=2;ODDS=6.32337;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47180,25299;QR=36;RO=1;RPL=1323,726;RPP=2856.38,1573;RPPR=5.18177;RPR=3,1;RUN=1,1;SAF=1326,727;SAP=2882.38,1581.67;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:148:0,75,73:0:0:75,73:2677,2539:-424.963,-206.786,-184.209,-218.529,0,-196.554 1/2:166:0,93,72:0:0:93,72:3311,2530:-475.859,-205.998,-178.002,-269.934,0,-248.259 1/1:116:0,112,3:0:0:112,3:3962,92:-356.481,-33.7154,0,-349.117,-26.2927,-348.214 1/2:30:0,18,12:0:0:18,12:640,411:-85.8684,-33.7052,-28.2866,-52.5108,0,-48.8984 1/2:220:1,125,94:1:36:125,94:4460,3241:-623.614,-260.322,-225.631,-360.646,0,-335.287 1/1:83:0,83,0:0:0:83,0:2956,0:-266.275,-24.9855,0,-266.275,-24.9855,-266.275 1/2:159:0,80,79:0:0:80,79:2828,2720:-451.593,-221.263,-197.181,-230.679,0,-206.898 2/2:69:0,1,68:0:0:1,68:36,2377:-213.828,-210.89,-210.589,-20.47,-17.1728,0 1/2:139:0,76,63:0:0:76,63:2714,2182:-398.954,-177.679,-154.801,-221.626,0,-202.661 1/2:27:0,14,13:0:0:14,13:504,466:-79.4899,-38.3653,-34.1509,-41.4837,0,-37.5703 1/2:5:0,2,3:0:0:2,3:72,106:-14.8635,-8.98601,-8.38395,-6.23466,0,-5.33157 1/2:18:0,5,13:0:0:5,13:165,468:-51.8765,-38.5463,-37.0411,-13.6685,0,-9.75506 1/1:161:0,161,0:0:0:161,0:5744,0:-517.077,-48.4658,0,-517.077,-48.4658,-517.077 1/2:90:0,34,56:0:0:34,56:1200,1929:-254.746,-157.026,-146.791,-98.07,0,-81.2123 1/2:172:0,84,88:0:0:84,88:2996,3070:-493.846,-249.612,-224.326,-244.586,0,-218.095 1/2:50:0,30,20:0:0:30,20:1072,712:-145.792,-58.3865,-49.3556,-87.7616,0,-81.741 1/1:84:0,84,0:0:0:84,0:2978,0:-268.217,-25.2865,0,-268.217,-25.2865,-268.217 1/2:124:0,72,51:0:0:72,51:2580,1798:-356.888,-146.467,-124.793,-210.494,0,-195.141 1/2:61:0,42,19:0:0:42,19:1499,658:-176.032,-53.821,-41.1777,-122.561,0,-116.841 1/1:76:0,75,0:0:0:75,0:2660,0:-239.396,-22.5773,0,-239.396,-22.5773,-239.396 1/1:60:0,60,0:0:0:60,0:2126,0:-191.551,-18.0618,0,-191.551,-18.0618,-191.551 chr08 12841 . T C 24565.7 PASS AB=0.516308;ABP=6.76394;AC=16;AF=0.380952;AN=42;AO=1034;CIGAR=1X;DP=2504;DPB=2504;DPRA=1.20164;EPP=112.18;EPPR=94.66;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.9574;MQMR=60;NS=21;NUMALT=1;ODDS=3.19801;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36975;QR=52623;RO=1469;RPL=630;RPP=110.273;RPPR=94.66;RPR=404;RUN=1;SAF=1;SAP=2239.64;SAR=1033;SRF=0;SRP=3192.9;SRR=1469;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:58,94:58:2076:94:3376:-257.939,0,-140.994 0/1:130:71,59:71:2537:59:2116:-151.575,0,-189.445 0/0:96:95,1:95:3412:1:32:0,-25.6996,-304.094 0/1:192:98,94:98:3516:94:3373:-245.987,0,-258.851 0/1:312:141,171:141:5045:171:6104:-455.539,0,-360.273 0/0:144:142,2:142:5085:2:57:0,-37.935,-452.378 0/1:133:58,75:58:2080:75:2692:-202.487,0,-147.433 1/1:128:0,128:0:0:128:4551:-409.753,-38.5318,0 0/1:194:81,113:81:2912:113:4046:-305.436,0,-203.915 1/1:58:0,58:0:0:58:2076:-187.111,-17.4597,0 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/1:49:31,18:31:1097:18:644:-43.5401,0,-84.2875 0/0:106:106,0:106:3777:0:0:0,-31.9092,-340.129 0/1:141:74,67:74:2660:67:2400:-173.812,0,-197.2 0/1:98:45,53:45:1616:53:1885:-140.423,0,-116.229 0/1:81:37,44:37:1328:44:1580:-118.108,0,-95.4388 0/0:130:130,0:130:4649:0:0:0,-39.1339,-418.571 0/1:70:46,24:46:1648:24:864:-57.0105,0,-127.536 0/1:72:45,27:45:1605:27:963:-65.3118,0,-123.064 0/0:136:131,5:131:4708:5:180:0,-24.388,-407.326 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.093 chr08 137644 . TA CA,CC 97375.9 PASS AB=0.555858,0.442974;ABP=72.6335,75.575;AC=27,15;AF=0.642857,0.357143;AN=42;AO=2543,1217;CIGAR=1X1M,2X;DP=3764;DPB=3764;DPRA=2.42632,1.30768;EPP=5525.06,2645.69;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.95,2.125;MQM=50.4691,50.2638;MQMR=0;NS=21;NUMALT=2;ODDS=1.82523;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=89933,42175;QR=0;RO=0;RPL=1189,672;RPP=26.2578,31.789;RPPR=0;RPR=1354,545;RUN=1,1;SAF=1189,672;SAP=26.2578,31.789;SAR=1354,545;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:304:0,160,144:0:0:160,144:5673,4928:-840.21,-387.123,-338.958,-453.427,0,-410.078 1/2:160:0,93,67:0:0:93,67:3315,2262:-449.395,-183.651,-155.656,-266.086,0,-245.917 1/1:191:0,189,2:0:0:189,2:6720,72:-595.203,-56.8947,0,-589.643,-50.9919,-589.041 1/2:275:0,168,107:0:0:168,107:5941,3677:-770.939,-290.759,-240.186,-480.522,0,-448.311 1/2:350:0,165,185:0:0:165,185:5858,6400:-971.439,-500.304,-450.634,-471.478,0,-415.787 1/1:202:0,201,1:0:0:201,1:7183,36:-640.003,-60.507,0,-637.066,-57.2098,-636.765 1/2:160:0,129,31:0:0:129,31:4541,1096:-453.084,-89.5806,-50.7477,-363.856,0,-354.524 2/2:76:0,0,76:0:0:0,76:0,2662:-239.821,-239.821,-239.821,-22.8783,-22.8783,0 1/2:289:0,132,156:0:0:132,156:4647,5410:-796.151,-423.871,-384.135,-372.304,0,-325.343 1/2:34:0,28,5:0:0:28,5:960,180:-90.8072,-14.7203,-6.29149,-76.1164,0,-74.6113 1/1:6:0,6,0:0:0:6,0:207,0:-18.8252,-1.80618,0,-18.8252,-1.80618,-18.8252 1/2:63:0,48,15:0:0:48,15:1720,500:-178.634,-40.8009,-26.3514,-138.171,0,-133.656 1/1:213:0,213,0:0:0:213,0:7513,0:-664.436,-64.1194,0,-664.436,-64.1194,-664.436 1/2:196:0,97,99:0:0:97,99:3411,3483:-550.019,-276.806,-247.606,-273.558,0,-243.756 1/2:272:0,139,133:0:0:139,133:4903,4680:-765.342,-372.885,-331.042,-392.803,0,-352.766 1/2:176:0,76,99:0:0:76,99:2679,3457:-488.192,-272.195,-249.317,-215.982,0,-186.18 1/1:173:0,172,0:0:0:172,0:6057,0:-538.592,-51.7772,0,-538.592,-51.7772,-538.592 1/2:110:0,79,31:0:0:79,31:2738,1077:-307.94,-87.9044,-64.1231,-220.382,0,-211.05 1/2:180:0,114,66:0:0:114,66:4041,2255:-504.548,-179.821,-145.504,-325.067,0,-305.199 1/1:217:0,217,0:0:0:217,0:7680,0:-683.193,-65.3235,0,-683.193,-65.3235,-683.193 1/1:117:0,117,0:0:0:117,0:4146,0:-368.47,-35.2205,0,-368.47,-35.2205,-368.47 chr08 147294 . C T 25761.4 PASS AB=0.494461;ABP=3.46739;AC=26;AF=0.619048;AN=42;AO=1349;CIGAR=1X;DP=2321;DPB=2321;DPRA=1.08775;EPP=2932.33;EPPR=2113.68;GTI=1;LEN=1;MEANALT=1;MQM=59.9896;MQMR=59.9918;NS=21;NUMALT=1;ODDS=4.01913;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48247;QR=34619;RO=972;RPL=1349;RPP=2932.33;RPPR=2113.68;RPR=0;RUN=1;SAF=1349;SAP=2932.33;SAR=0;SRF=972;SRP=2113.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:87,79:87:3115:79:2836:-205.507,0,-230.605 0/1:93:41,52:41:1467:52:1831:-137.072,0,-104.33 1/1:97:1,96:1:36:96:3429:-305.225,-25.6016,0 0/1:116:56,60:56:2008:60:2143:-158.218,0,-146.074 0/1:339:183,156:183:6523:156:5568:-399.195,0,-485.104 1/1:99:0,99:0:0:99:3541:-318.897,-29.802,0 0/1:140:79,61:79:2814:61:2181:-154.411,0,-211.352 0/0:102:102,0:102:3628:0:0:0,-30.7051,-326.724 0/1:217:91,126:91:3251:126:4524:-341.992,0,-227.487 0/1:21:17,4:17:608:4:140:-6.62295,0,-48.7304 0/1:9:5,4:5:165:4:144:-10.6043,0,-12.4643 0/1:37:22,15:22:783:15:532:-37.075,0,-59.6548 1/1:90:0,90:0:0:90:3228:-290.742,-27.0927,0 0/1:118:52,66:52:1830:66:2345:-175.784,0,-129.455 0/1:214:109,105:109:3912:105:3768:-274.898,0,-287.852 0/1:104:54,50:54:1889:50:1792:-130.252,0,-138.977 1/1:91:1,90:1:36:90:3224:-286.784,-23.7955,0 0/1:87:49,38:49:1730:38:1364:-96.8711,0,-129.791 0/1:54:22,32:22:788:32:1152:-87.7345,0,-54.9892 1/1:88:1,87:1:36:87:3128:-278.147,-22.8924,0 1/1:39:0,39:0:0:39:1377:-124.227,-11.7402,0 chr08 147356 . T C 32481 PASS AB=0.5372;ABP=23.528;AC=26;AF=0.619048;AN=42;AO=1640;CIGAR=1X;DP=2511;DPB=2511;DPRA=1.64662;EPP=3564.23;EPPR=1881.33;GTI=1;LEN=1;MEANALT=1.25;MQM=59.8732;MQMR=59.9977;NS=21;NUMALT=1;ODDS=7.69093;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58627;QR=30870;RO=865;RPL=1640;RPP=3564.23;RPPR=1881.33;RPR=0;RUN=1;SAF=0;SAP=3564.23;SAR=1640;SRF=0;SRP=1881.33;SRR=865;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:48,68:48:1709:68:2429:-183.94,0,-119.174 0/1:139:58,80:58:2073:80:2876:-217.174,0,-144.937 1/1:115:1,112:1:36:112:4020:-358.388,-30.7779,0 0/1:191:85,106:85:3048:106:3793:-284.063,0,-217.053 0/1:324:158,165:158:5638:165:5909:-434.288,0,-409.947 1/1:146:0,146:0:0:146:5229:-470.741,-43.9504,0 0/1:172:71,101:71:2536:101:3620:-274.135,0,-176.714 0/0:74:74,0:74:2652:0:0:0,-22.2762,-238.926 0/1:193:104,88:104:3705:88:3153:-225.835,0,-275.494 0/1:23:9,14:9:309:14:490:-37.5063,0,-21.217 0/1:9:2,7:2:57:7:248:-19.9503,0,-2.70404 0/1:47:28,19:28:989:19:684:-47.7327,0,-75.1736 1/1:152:0,152:0:0:152:5411:-487.113,-45.7566,0 0/1:96:56,40:56:1986:40:1436:-100.639,0,-150.112 0/1:141:54,87:54:1936:87:3109:-237.576,0,-132.071 0/1:129:64,65:64:2300:65:2317:-169.951,0,-168.428 1/1:164:0,164:0:0:164:5857:-527.233,-49.3689,0 0/1:65:34,31:34:1212:31:1104:-80.0429,0,-89.819 0/1:62:16,46:16:576:46:1644:-129.58,0,-33.5111 1/1:104:2,101:2:72:101:3574:-315.033,-24.5176,0 1/1:49:1,48:1:36:48:1724:-151.847,-11.1522,0 chr08 183122 . A G 68345.4 PASS AB=0.520395;ABP=19.8394;AC=16;AF=0.380952;AN=42;AO=2897;CIGAR=1X;DP=6636;DPB=6636;DPRA=1.47202;EPP=6285.08;EPPR=8117.8;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9537;MQMR=59.8523;NS=21;NUMALT=1;ODDS=29.0639;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102100;QR=133635;RO=3737;RPL=1478;RPP=5.61951;RPPR=3.22007;RPR=1419;RUN=1;SAF=1477;SAP=5.44562;SAR=1420;SRF=1859;SRP=3.22007;SRR=1878;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:388:179,209:179:6416:209:7325:-542.438,0,-460.453 0/1:349:162,187:162:5807:187:6579:-487.132,0,-417.318 0/0:211:210,1:210:7487:1:36:0,-59.9195,-670.267 0/1:381:188,193:188:6706:193:6757:-493.485,0,-488.922 0/1:635:287,348:287:10280:348:12275:-913.453,0,-733.192 0/0:268:266,2:266:9511:2:72:0,-73.8393,-848.995 0/1:476:233,243:233:8348:243:8495:-621.267,0,-607.948 1/1:461:0,461:0:0:461:16226:-1460.04,-138.775,0 0/1:546:261,285:261:9368:285:10083:-743.047,0,-678.077 0/1:34:13,21:13:464:21:744:-57.0493,0,-31.8625 0/1:19:11,8:11:396:8:288:-20.5478,0,-30.2632 0/1:93:52,41:52:1863:41:1441:-101.988,0,-139.953 0/0:367:365,1:365:13070:1:36:0,-106.939,-1172.5 0/1:330:169,161:169:6025:161:5642:-408.566,0,-443 0/1:731:323,408:323:11531:408:14463:-1081.38,0,-817.508 0/1:337:165,172:165:5877:172:6092:-446.936,0,-427.592 0/0:218:218,0:218:7790:0:0:0,-65.6245,-701.1 0/1:162:82,80:82:2916:80:2855:-208.421,0,-213.888 0/1:177:108,68:108:3867:68:2411:-163.536,0,-294.876 0/0:306:299,7:299:10700:7:248:0,-69.451,-940.229 0/0:147:146,1:146:5213:1:32:0,-41.0521,-466.098 chr08 183156 . A G 36461.1 PASS AB=0.475361;ABP=15.4229;AC=26;AF=0.619048;AN=42;AO=1907;CIGAR=1X;DP=3434;DPB=3434;DPRA=0.552456;EPP=4144.01;EPPR=3312.33;GTI=1;LEN=1;MEANALT=1.1;MQM=59.957;MQMR=59.9606;NS=21;NUMALT=1;ODDS=6.11387;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68062;QR=54528;RO=1524;RPL=1907;RPP=4144.01;RPPR=3312.33;RPR=0;RUN=1;SAF=0;SAP=4144.01;SAR=1907;SRF=0;SRP=3312.33;SRR=1524;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:214:122,92:122:4338:92:3283:-231.265,0,-326.174 0/1:174:103,71:103:3696:71:2535:-176.022,0,-280.46 1/1:119:0,119:0:0:119:4238:-381.601,-35.8226,0 0/1:183:79,103:79:2820:103:3676:-275.897,0,-198.892 0/1:281:158,123:158:5640:123:4399:-311.457,0,-422.763 1/1:138:0,138:0:0:138:4900:-441.152,-41.5421,0 0/1:222:112,110:112:4020:110:3928:-286.883,0,-295.13 0/0:285:285,0:285:10194:0:0:0,-85.7935,-917.389 0/1:295:157,138:157:5620:138:4937:-355.676,0,-417.118 0/1:17:12,5:12:432:5:180:-11.4346,0,-34.1037 0/1:15:6,9:6:216:9:316:-24.2634,0,-15.2751 0/1:48:22,26:22:788:26:924:-69.0282,0,-56.7944 1/1:187:0,187:0:0:187:6680:-601.278,-56.2926,0 0/1:167:80,87:80:2864:87:3103:-229.224,0,-207.723 0/1:389:215,174:215:7704:174:6216:-442.435,0,-576.292 0/1:132:70,62:70:2508:62:2224:-160.687,0,-186.236 1/1:120:0,120:0:0:120:4272:-384.644,-36.1236,0 0/1:117:59,58:59:2108:58:2068:-151.16,0,-154.768 0/1:100:37,61:37:1332:61:2179:-166.581,0,-90.3927 1/1:158:7,151:7:248:151:5393:-462.837,-24.8985,0 1/1:73:0,73:0:0:73:2611:-235.237,-21.9752,0 chr08 187558 . ACGTTC ATGTTC,ATG 38512.2 PASS AB=0.512924,0.483037;ABP=4.80641,6.10439;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1145,724;CIGAR=1M1X4M,1M3D1M1X;DP=1875;DPB=1511.5;DPRA=0.751282,1.25517;EPP=2489.35,1325.38;EPPR=9.52472;GTI=0;LEN=1,3;MEANALT=1.9,2.05882;MQM=43.4882,42.9461;MQMR=58;NS=21;NUMALT=2;ODDS=9.09414;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40832,25779;QR=101;RO=3;RPL=1145,694;RPP=2489.35,1325.38;RPPR=9.52472;RPR=0,30;RUN=1,1;SAF=0,0;SAP=2489.35,1575.16;SAR=1145,724;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:111:0,49,62:0:0:49,62:1760,2202:-316.418,-175.259,-160.508,-141.51,0,-122.846 1/2:29:0,17,12:0:0:17,12:601,428:-81.2196,-34.6202,-29.5027,-46.9449,0,-43.3326 1/1:150:0,150,0:0:0:150,0:5357,0:-474.846,-45.1545,0,-474.846,-45.1545,-474.846 1/2:116:0,50,66:0:0:50,66:1790,2331:-327.18,-183.765,-168.713,-143.763,0,-123.895 1/2:214:0,97,116:0:0:97,116:3428,4135:-600.387,-326.776,-297.576,-273.659,0,-238.739 1/1:54:1,53,0:1:29:53,0:1899,0:-161.339,-13.3563,0,-161.64,-15.9546,-163.948 1/2:184:1,98,85:1:36:98,85:3482,3049:-510.877,-240.718,-214.153,-267.511,0,-244.86 2/2:117:0,0,117:0:0:0,117:0,4152:-364.997,-364.997,-364.997,-35.2205,-35.2205,0 1/2:191:0,103,88:0:0:103,88:3674,3137:-546.888,-250.813,-219.807,-296.426,0,-269.935 1/2:13:0,9,4:0:0:9,4:324,144:-37.4412,-11.8236,-9.11434,-25.9689,0,-24.7648 1/2:10:0,7,3:0:0:7,3:252,108:-28.6484,-8.99805,-6.89084,-20.0015,0,-19.0984 1/2:23:0,7,16:0:0:7,16:252,576:-65.7088,-45.7485,-43.6413,-20.3101,0,-15.4936 1/1:122:0,119,3:0:0:119,3:4256,108:-376.722,-35.8226,0,-368.119,-26.8668,-367.216 1/2:83:0,39,44:0:0:39,44:1404,1567:-235.078,-122.3,-110.56,-113.126,0,-99.8809 1/2:112:0,50,62:0:0:50,62:1784,2186:-316.158,-172.969,-157.917,-143.536,0,-124.873 1/2:37:0,20,15:0:0:20,15:720,540:-101.583,-43.3995,-37.3789,-58.194,0,-53.6786 1/1:46:0,46,0:0:0:46,0:1648,0:-147.021,-13.8474,0,-147.021,-13.8474,-147.021 1/2:50:0,39,11:0:0:39,11:1395,396:-141.576,-31.4076,-19.6674,-110.516,0,-107.204 1/2:65:1,50,14:1:36:50,14:1780,504:-178.546,-36.2812,-24.1682,-139.615,0,-138.338 1/1:102:0,96,6:0:0:96,6:3385,216:-295.307,-28.8989,0,-278.729,-11.9811,-276.923 1/1:46:0,46,0:0:0:46,0:1641,0:-141.821,-13.8474,0,-141.821,-13.8474,-141.821 chr08 187565 . T C 21468.2 PASS AB=0.517101;ABP=6.12958;AC=26;AF=0.619048;AN=42;AO=1145;CIGAR=1X;DP=1862;DPB=1862;DPRA=0.759565;EPP=2489.35;EPPR=1551.28;GTI=0;LEN=1;MEANALT=1;MQM=43.4934;MQMR=42.9344;NS=21;NUMALT=1;ODDS=8.41155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40952;QR=25636;RO=717;RPL=1145;RPP=2489.35;RPPR=1551.28;RPR=0;RUN=1;SAF=0;SAP=2489.35;SAR=1145;SRF=0;SRP=1559.96;SRR=717;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:62,45:62:2217:45:1616:-111.402,0,-162.955 0/1:29:12,17:12:432:17:608:-43.5333,0,-29.8251 1/1:152:0,152:0:0:152:5464:-482.991,-45.7566,0 0/1:116:66,50:66:2337:50:1792:-123.745,0,-169.263 0/1:211:115,96:115:4124:96:3431:-238.328,0,-296.716 1/1:52:0,52:0:0:52:1845:-159.627,-15.6536,0 0/1:181:83,98:83:2988:98:3505:-246.81,0,-209.677 0/0:115:115,0:115:4112:0:0:0,-34.6184,-361.593 0/1:194:90,104:90:3232:104:3725:-272.745,0,-226.693 0/1:13:4,9:4:144:9:320:-24.4513,0,-9.11434 0/1:10:3,7:3:108:7:252:-19.0984,0,-6.89084 0/1:23:16,7:16:572:7:252:-15.4936,0,-43.3203 1/1:123:3,120:3:108:120:4285:-368.643,-27.1679,0 0/1:86:43,43:43:1536:43:1514:-108.76,0,-107.411 0/1:109:59,50:59:2078:50:1800:-127.058,0,-149.549 0/1:37:17,20:17:612:20:716:-53.077,0,-43.4592 1/1:45:0,45:0:0:45:1582:-140.965,-13.5464,0 0/1:48:11,37:11:396:37:1332:-101.726,0,-20.2695 0/1:64:12,52:12:432:52:1864:-144.865,0,-18.6787 1/1:101:6,95:6:208:95:3393:-274.428,-12.094,0 1/1:46:0,46:0:0:46:1656:-142.35,-13.8474,0 chr08 194616 . TT AC 17609.6 PASS AB=0.442678;ABP=37.116;AC=25;AF=0.595238;AN=42;AO=898;CIGAR=2X;DP=1697;DPB=1697;DPRA=1.25834;EPP=1684.95;EPPR=1635.11;GTI=1;LEN=2;MEANALT=1.21053;MQM=56.5824;MQMR=59.9509;NS=21;NUMALT=1;ODDS=1.62063;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31632;QR=28066;RO=795;RPL=866;RPP=1684.95;RPPR=1635.11;RPR=32;RUN=1;SAF=898;SAP=1952.99;SAR=0;SRF=795;SRP=1729.33;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:22,20:22:764:20:698:-50.2311,0,-56.1793 0/1:25:16,9:16:566:9:324:-21.9497,0,-43.7449 1/1:74:0,74:0:0:74:2610:-234.833,-22.2762,0 0/1:271:172,98:172:6082:98:3455:-229.252,0,-465.844 0/1:134:77,57:77:2723:57:1995:-139.195,0,-204.975 1/1:60:0,59:0:0:59:2076:-185.414,-17.7608,0 0/1:128:67,61:67:2341:61:2141:-154.016,0,-172.411 0/0:122:122,0:122:4312:0:0:0,-36.7257,-388.256 0/1:159:82,77:82:2871:77:2730:-198.037,0,-210.748 0/1:8:5,3:5:180:3:97:-6.63501,0,-14.1438 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:25:11,14:11:396:14:480:-35.9767,0,-28.457 1/1:107:0,107:0:0:107:3762:-338.559,-32.2102,0 0/1:135:75,60:75:2640:60:2114:-149.693,0,-197.206 0/1:126:68,58:68:2389:58:2078:-149.225,0,-177.334 0/1:36:23,13:23:828:13:457:-30.621,0,-64.007 1/1:20:0,20:0:0:20:689:-62.3207,-6.0206,0 0/1:53:24,29:24:864:29:1027:-76.0061,0,-62.128 0/1:52:21,30:21:752:30:1064:-80.3242,0,-52.294 1/1:77:1,76:1:34:76:2664:-236.376,-19.7804,0 1/1:33:0,33:0:0:33:1171:-105.259,-9.93399,0 chr08 298157 . A G 21209.8 PASS AB=0.542857;ABP=19.2033;AC=26;AF=0.619048;AN=42;AO=1059;CIGAR=1X;DP=1632;DPB=1632;DPRA=0.719811;EPP=2302.6;EPPR=1227.78;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9424;MQMR=59.9091;NS=21;NUMALT=1;ODDS=0.654143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37924;QR=20505;RO=572;RPL=0;RPP=2302.6;RPPR=1227.78;RPR=1059;RUN=1;SAF=0;SAP=2302.6;SAR=1059;SRF=0;SRP=1245.09;SRR=572;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:42,36:42:1504:36:1292:-93.1034,0,-112.172 0/1:50:34,15:34:1224:15:536:-33.4647,0,-95.3452 1/1:128:0,128:0:0:128:4571:-411.548,-38.5318,0 0/1:110:53,57:53:1900:57:2044:-151.115,0,-138.156 0/1:127:59,68:59:2124:68:2432:-180.901,0,-153.197 1/1:111:0,111:0:0:111:3960:-356.586,-33.4143,0 0/1:99:55,44:55:1976:44:1571:-111.879,0,-148.313 0/0:106:106,0:106:3808:0:0:0,-31.9092,-342.912 0/1:125:51,74:51:1817:74:2660:-202.017,0,-126.181 0/1:21:7,14:7:248:14:504:-39.3737,0,-16.3426 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:43:15,28:15:540:28:1008:-78.0921,0,-35.9922 1/1:101:3,98:3:108:98:3516:-306.571,-20.3289,0 0/1:128:47,81:47:1684:81:2908:-223.423,0,-113.315 0/1:68:31,37:31:1112:37:1320:-98.6319,0,-79.918 0/1:38:14,24:14:504:24:856:-65.922,0,-34.259 1/1:42:0,42:0:0:42:1500:-135.291,-12.6433,0 0/1:59:33,26:33:1172:26:936:-66.7987,0,-88.012 0/1:61:20,41:20:712:41:1476:-114.773,0,-46.0438 1/1:87:0,87:0:0:87:3123:-281.288,-26.1896,0 1/1:42:0,42:0:0:42:1495:-134.84,-12.6433,0 chr08 298176 . 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T C 7671.04 PASS AB=0.5;ABP=3.0103;AC=13;AF=0.309524;AN=42;AO=461;CIGAR=1X;DP=1570;DPB=1570;DPRA=1.0084;EPP=1004.06;EPPR=2411.17;GTI=1;LEN=1;MEANALT=1;MQM=59.9957;MQMR=59.9964;NS=21;NUMALT=1;ODDS=0.353584;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16237;QR=39537;RO=1109;RPL=461;RPP=1004.06;RPPR=2411.17;RPR=0;RUN=1;SAF=461;SAP=1004.06;SAR=0;SRF=1109;SRP=2411.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:80,68:80:2868:68:2427:-174.133,0,-213.804 0/1:54:31,23:31:1112:23:811:-57.0543,0,-84.1357 0/0:76:76,0:76:2713:0:0:0,-22.8783,-244.412 0/1:102:46,56:46:1648:56:1987:-148.399,0,-117.903 0/1:188:91,97:91:3241:97:3420:-251.421,0,-235.316 0/0:66:66,0:66:2359:0:0:0,-19.868,-212.568 0/0:127:127,0:127:4495:0:0:0,-38.2308,-404.721 1/1:34:0,34:0:0:34:1182:-106.68,-10.235,0 0/1:149:54,95:54:1940:95:3303:-252.634,0,-130.023 0/1:20:12,8:12:428:8:288:-20.2468,0,-32.8382 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:11:8,3:8:288:3:104:-6.39148,0,-22.9561 0/0:66:66,0:66:2339:0:0:0,-19.868,-210.767 0/1:94:45,49:45:1579:49:1727:-127.417,0,-114.1 0/0:114:114,0:114:4048:0:0:0,-34.3174,-364.508 0/0:41:41,0:41:1459:0:0:0,-12.3422,-131.605 0/0:72:72,0:72:2576:0:0:0,-21.6742,-232.09 0/1:49:31,18:31:1108:18:644:-43.5401,0,-85.2805 0/1:33:25,8:25:896:8:276:-15.2413,0,-71.0264 0/0:89:88,1:88:3148:1:32:0,-23.5924,-280.346 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 chr08 507684 . T C 12889.1 PASS AB=0.454173;ABP=25.3008;AC=13;AF=0.309524;AN=42;AO=730;CIGAR=1X;DP=2473;DPB=2473;DPRA=0.912573;EPP=1588.19;EPPR=3787.89;GTI=0;LEN=1;MEANALT=1;MQM=59.9534;MQMR=59.9799;NS=21;NUMALT=1;ODDS=22.9501;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25987;QR=62365;RO=1743;RPL=730;RPP=1588.19;RPPR=3787.89;RPR=0;RUN=1;SAF=0;SAP=1588.19;SAR=730;SRF=0;SRP=3787.89;SRR=1743;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:53,43:53:1873:43:1519:-108.102,0,-139.948 0/1:133:73,60:73:2601:60:2119:-150.939,0,-194.3 0/0:147:147,0:147:5280:0:0:0,-44.2514,-475.334 0/1:111:37,74:37:1332:74:2641:-204.521,0,-86.7681 0/1:189:116,73:116:4152:73:2588:-176.274,0,-316.966 0/0:69:69,0:69:2433:0:0:0,-20.7711,-219.222 0/0:176:176,0:176:6293:0:0:0,-52.9813,-566.454 1/1:174:0,174:0:0:174:6201:-558.184,-52.3792,0 0/1:182:92,90:92:3308:90:3226:-235.754,0,-243.15 0/1:18:6,12:6:216:12:432:-33.8027,0,-14.372 0/1:14:7,7:7:252:7:243:-17.9931,0,-18.8145 0/1:38:27,11:27:964:11:388:-23.8182,0,-75.6377 0/0:51:51,0:51:1805:0:0:0,-15.3525,-162.73 0/1:156:85,71:85:3056:71:2536:-181.53,0,-228.308 0/0:288:288,0:288:10320:0:0:0,-86.6966,-928.722 0/0:133:133,0:133:4768:0:0:0,-40.037,-429.221 0/0:87:87,0:87:3097:0:0:0,-26.1896,-278.957 0/1:182:103,79:103:3708:79:2815:-198.801,0,-279.132 0/1:103:68,35:68:2428:35:1243:-81.1678,0,-187.77 0/0:81:80,1:80:2868:1:36:0,-20.7852,-254.754 0/0:45:45,0:45:1611:0:0:0,-13.5463,-145.279 chr08 571186 . A G 4769.85 PASS AB=0.496441;ABP=3.07212;AC=13;AF=0.309524;AN=42;AO=290;CIGAR=1X;DP=697;DPB=697;DPRA=3.46573;EPP=632.737;EPPR=886.8;GTI=1;LEN=1;MEANALT=1;MQM=59.9966;MQMR=60;NS=21;NUMALT=1;ODDS=0.624806;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10368;QR=14285;RO=407;RPL=0;RPP=632.737;RPPR=886.8;RPR=290;RUN=1;SAF=290;SAP=632.737;SAR=0;SRF=407;SRP=886.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:11,16:11:377:16:576:-44.0472,0,-26.1301 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/0:11:11,0:11:381:0:0:0,-3.31133,-34.6206 0/1:11:6,5:6:216:5:176:-12.8737,0,-16.4792 0/1:30:14,16:14:500:16:576:-43.1441,0,-36.3053 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/0:19:19,0:19:668:0:0:0,-5.71957,-60.4457 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:15:6,9:6:216:9:324:-24.9904,0,-15.2751 0/1:94:52,42:52:1794:42:1508:-107.718,0,-133.439 0/1:81:35,46:35:1221:46:1644:-123.865,0,-85.808 0/1:170:95,75:95:3343:75:2673:-189.639,0,-249.911 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:14:10,4:10:330:4:144:-9.0992,0,-25.8029 0/0:24:24,0:24:837:0:0:0,-7.22472,-75.6456 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:98:44,54:44:1561:54:1927:-144.205,0,-111.279 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/0:5:5,0:5:172:0:0:0,-1.50515,-15.818 0/0:10:10,0:10:341:0:0:0,-3.0103,-31.0178 chr08 597043 . C T 22842 PASS AB=0.509211;ABP=3.57031;AC=30;AF=0.714286;AN=42;AO=1035;CIGAR=1X;DP=1452;DPB=1452;DPRA=1.72073;EPP=1924.5;EPPR=813.324;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.17327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36990;QR=14709;RO=416;RPL=39;RPP=1924.5;RPPR=813.324;RPR=996;RUN=1;SAF=0;SAP=2250.48;SAR=1035;SRF=0;SRP=906.343;SRR=416;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:39,32:39:1396:32:1140:-81.5361,0,-104.566 0/1:62:32,30:32:1144:30:1068:-77.7682,0,-84.6057 1/1:49:1,48:1:36:48:1708:-150.408,-11.1522,0 0/1:64:23,41:23:819:41:1472:-113.51,0,-54.7656 0/1:142:75,67:75:2653:67:2392:-172.791,0,-196.27 1/1:77:0,77:0:0:77:2752:-247.922,-23.1793,0 1/1:77:0,77:0:0:77:2748:-247.563,-23.1793,0 0/0:41:41,0:41:1416:0:0:0,-12.3422,-127.733 0/1:232:128,103:128:4535:103:3668:-260.576,0,-338.573 0/1:11:6,5:6:212:5:176:-12.8737,0,-16.1135 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:16:7,9:7:244:9:320:-24.3259,0,-17.4829 1/1:130:0,130:0:0:130:4660:-419.561,-39.1339,0 0/1:61:28,33:28:983:33:1169:-87.1541,0,-70.4197 1/1:59:0,59:0:0:59:2112:-190.349,-17.7608,0 1/1:77:1,76:1:32:76:2728:-242.563,-19.98,0 1/1:71:0,71:0:0:71:2539:-228.76,-21.3731,0 0/1:72:19,53:19:671:53:1882:-147.983,0,-39.0416 0/1:29:15,14:15:536:14:504:-36.9682,0,-39.8449 1/1:68:0,68:0:0:68:2448:-220.574,-20.47,0 1/1:37:1,36:1:32:36:1288:-113.024,-7.9388,0 chr08 627634 . GCTG ACTC,GCTC 89796.1 PASS AB=0.616101,0.379242;ABP=178.983,193.385;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2583,694;CIGAR=1X2M1X,3M1X;DP=3286;DPB=3288;DPRA=1.34237,0.894975;EPP=4224.97,436.003;EPPR=0;GTI=2;LEN=4,1;MEANALT=2.15,2.4;MQM=59.9644,60;MQMR=0;NS=21;NUMALT=2;ODDS=6.83475;PAIRED=0,0;PAIREDR=0;PAO=8,0;PQA=284,0;PQR=0;PRO=0;QA=89728,24729;QR=0;RO=0;RPL=1415,164;RPP=54.2993,422.148;RPPR=0;RPR=1168,530;RUN=1,1;SAF=1244,3;SAP=10.5974,1484.07;SAR=1339,691;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:103:0,71,31:0:0:71,31:2473,1112:-291.795,-90.6996,-69.3265,-201.091,0,-191.759 1/2:118:0,86,32:0:0:86,32:2976,1142:-334.929,-93.0964,-67.2079,-241.827,0,-232.194 1/1:130:0,130,0:0:0:130,0:4569,0:-411.024,-39.1339,0,-411.024,-39.1339,-411.024 1/2:148:0,114,34:0:0:114,34:3922,1202:-416.69,-98.2492,-63.9318,-318.792,0,-308.557 1/2:282:0,156,124:0:0:156,124:5403,4431:-800.429,-361.328,-314.368,-439.147,0,-401.819 1/1:263:0,260,3:0:0:260,3:9071,108:-816.013,-78.2678,0,-807.201,-69.4555,-806.297 1/1:249:0,249,0:0:0:249,0:8607,0:-774.655,-74.9565,0,-774.655,-74.9565,-774.655 2/2:118:0,0,118:0:0:0,118:0,4219:-379.89,-379.89,-379.89,-35.5215,-35.5215,0 1/2:301:0,145,155:0:0:145,155:5049,5528:-861.188,-450.626,-406.977,-410.554,0,-363.895 1/2:30:0,21,8:0:0:21,8:733,284:-82.8191,-23.1979,-16.8763,-59.6766,0,-57.2683 1/2:7:0,4,3:0:0:4,3:143,108:-20.8306,-9.17208,-7.96796,-12.0173,0,-11.1142 1/2:37:0,20,17:0:0:20,17:674,604:-104.18,-49.5731,-43.5525,-54.9541,0,-49.8366 1/1:198:0,196,2:0:0:196,2:6722,72:-604.723,-59.0019,0,-598.848,-53.127,-598.246 1/2:124:0,53,71:0:0:53,71:1816,2517:-352.822,-205.408,-189.453,-147.762,0,-126.389 1/1:323:0,322,0:0:0:322,0:11320,0:-1018.4,-96.9317,0,-1018.4,-96.9317,-1018.4 1/1:112:0,111,0:0:0:111,0:3900,0:-350.84,-33.4143,0,-350.84,-33.4143,-350.84 1/1:88:0,88,0:0:0:88,0:3033,0:-273.203,-26.4906,0,-273.203,-26.4906,-273.203 1/2:210:0,129,79:0:0:129,79:4494,2799:-593.555,-228.1,-189.267,-365.54,0,-341.758 1/2:143:0,127,16:0:0:127,16:4328,567:-397.67,-46.5442,-8.31344,-351.478,0,-346.662 1/1:189:0,188,1:0:0:188,1:6575,36:-591.487,-56.5936,0,-588.549,-53.6562,-588.248 1/1:113:0,113,0:0:0:113,0:3920,0:-352.999,-34.0164,0,-352.999,-34.0164,-352.999 chr08 669634 . GCA CCA 23168.7 PASS AB=0.483528;ABP=5.22792;AC=29;AF=0.690476;AN=42;AO=1137;CIGAR=1X2M;DP=1793;DPB=1793;DPRA=0.521019;EPP=2471.97;EPPR=1394.92;GTI=0;LEN=1;MEANALT=1.5;MQM=59.9894;MQMR=59.986;NS=21;NUMALT=1;ODDS=8.86828;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40653;QR=22238;RO=641;RPL=0;RPP=2471.97;RPPR=1394.92;RPR=1137;RUN=1;SAF=1137;SAP=2471.97;SAR=0;SRF=641;SRP=1394.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:82,51:82:2840:51:1819:-123.709,0,-215.559 0/1:59:30,28:30:1064:28:995:-72.0446,0,-78.2521 1/1:105:1,103:1:36:103:3685:-328.308,-28.0138,0 0/1:61:34,27:34:1201:27:972:-69.4351,0,-90.0317 0/1:200:108,91:108:3733:91:3260:-233.484,0,-276.037 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 1/1:98:0,97:0:0:97:3476:-312.8,-29.1999,0 0/0:157:157,0:157:5396:0:0:0,-47.2617,-485.775 0/1:195:103,92:103:3614:92:3284:-237.08,0,-266.767 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:13:8,5:8:284:5:180:-12.6387,0,-21.9902 0/1:27:15,12:15:508:12:432:-31.0934,0,-37.9139 1/1:90:0,90:0:0:90:3228:-290.742,-27.0927,0 0/1:87:53,34:53:1808:34:1199:-82.0244,0,-136.807 1/1:164:2,161:2:72:161:5767:-512.356,-42.4911,0 1/1:52:0,48:0:0:48:1724:-155.109,-14.4494,0 1/1:31:0,30:0:0:30:1061:-95.5663,-9.0309,0 0/1:92:31,59:31:1087:59:2109:-162.69,0,-70.747 0/1:65:13,52:13:459:52:1851:-147.302,0,-22.0771 1/1:63:0,62:0:0:62:2204:-198.394,-18.6639,0 1/1:42:1,41:1:28:41:1467:-129.508,-9.84353,0 chr08 677335 . AT GT 17108.2 PASS AB=0.549747;ABP=15.7572;AC=29;AF=0.690476;AN=42;AO=821;CIGAR=1X1M;DP=1138;DPB=1138;DPRA=2.55673;EPP=1785.79;EPPR=676.167;GTI=0;LEN=1;MEANALT=1.15789;MQM=59.9903;MQMR=59.9968;NS=21;NUMALT=1;ODDS=4.65557;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29430;QR=10959;RO=310;RPL=821;RPP=1785.79;RPPR=676.167;RPR=0;RUN=1;SAF=0;SAP=1785.79;SAR=821;SRF=0;SRP=676.167;SRR=310;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:38,33:38:1341:33:1188:-85.8555,0,-99.6152 0/1:50:20,30:20:716:30:1076:-82.1014,0,-49.7162 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 0/1:36:22,14:22:788:14:504:-34.861,0,-60.4077 0/1:115:52,63:52:1831:63:2256:-168.684,0,-130.448 1/1:80:0,79:0:0:79:2832:-254.808,-23.7814,0 1/1:76:0,76:0:0:76:2724:-245.395,-22.8783,0 0/0:35:34,0:34:1203:0:0:0,-10.235,-108.215 0/1:112:47,64:47:1672:64:2292:-172.767,0,-116.992 0/1:12:6,6:6:214:6:216:-16.1782,0,-15.9954 0/0:10:10,0:10:349:0:0:0,-3.0103,-31.7447 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:57:0,57:0:0:57:2048:-184.592,-17.1587,0 0/1:26:16,10:16:542:10:360:-24.9175,0,-41.2712 1/1:51:0,51:0:0:51:1832:-165.161,-15.3525,0 1/1:58:0,54:0:0:54:1938:-174.337,-16.2556,0 1/1:45:0,45:0:0:45:1612:-145.37,-13.5464,0 0/1:44:28,16:28:984:16:572:-38.5681,0,-75.6259 0/1:127:37,90:37:1319:90:3220:-251.792,0,-80.7801 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 1/1:53:0,53:0:0:53:1892:-170.558,-15.9546,0 chr08 704845 . AAGAGAGAAGT AAGAGAAGT,AGGAGAGAAGT 32010.7 PASS AB=0.412722,0.579882;ABP=47.7375,40.4778;AC=28,14;AF=0.666667,0.333333;AN=42;AO=938,573;CIGAR=1M2D8M,1M1X9M;DP=1523;DPB=1351.36;DPRA=18.9875,1.97043;EPP=2039.85,1221.34;EPPR=7.35324;GTI=0;LEN=2,1;MEANALT=2.2,2.4;MQM=59.7196,59.9756;MQMR=60;NS=21;NUMALT=2;ODDS=2.23206;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32955,20379;QR=70;RO=2;RPL=0,3;RPP=2039.85,1221.34;RPPR=7.35324;RPR=938,570;RUN=1,1;SAF=938,573;SAP=2039.85,1247.26;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:64:0,18,45:0:0:18,45:632,1596:-181.454,-130.017,-124.599,-51.4289,0,-37.8825 1/2:58:0,17,41:0:0:17,41:596,1472:-168.93,-120.433,-115.315,-48.8499,0,-36.5076 1/1:120:0,117,2:0:0:117,2:4089,72:-367.834,-35.2205,0,-361.959,-29.3452,-361.357 1/2:72:0,40,32:0:0:40,32:1413,1133:-207.714,-92.6437,-80.6025,-115.424,0,-105.791 1/2:136:0,37,99:0:0:37,99:1297,3492:-390.224,-284.686,-273.548,-105.889,0,-76.0873 1/1:14:0,14,0:0:0:14,0:473,0:-42.885,-4.21442,0,-42.885,-4.21442,-42.885 1/1:82:0,80,2:0:0:80,2:2856,72:-256.908,-24.0824,0,-251.034,-17.8477,-250.431 2/2:172:0,1,170:0:0:1,170:36,6048:-544.13,-541.193,-540.892,-51.1751,-48.1626,0 1/2:119:0,45,73:0:0:45,73:1555,2609:-339.132,-212.85,-199.303,-126.399,0,-104.424 1/2:11:0,3,7:0:0:3,7:100,252:-28.6491,-20.5622,-19.6592,-8.07445,0,-5.96724 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:41:0,16,25:0:0:16,25:560,877:-117.282,-71.7194,-66.903,-45.9123,0,-38.3865 1/1:70:0,69,0:0:0:69,0:2426,0:-218.082,-20.7711,0,-218.082,-20.7711,-218.082 1/2:106:0,62,44:0:0:62,44:2160,1572:-304.162,-128.526,-109.862,-175.99,0,-162.744 1/1:106:0,106,0:0:0:106,0:3745,0:-337.247,-31.9092,0,-337.247,-31.9092,-337.247 1/1:18:0,17,0:0:0:17,0:593,0:-53.3249,-5.11751,0,-53.3249,-5.11751,-53.3249 1/1:32:0,31,0:0:0:31,0:1089,0:-98.0987,-9.33193,0,-98.0987,-9.33193,-98.0987 1/2:32:1,17,14:1:35:17,14:608,504:-87.5046,-38.2861,-36.0156,-46.6806,0,-45.3135 1/2:37:0,24,12:0:0:24,12:860,428:-105.027,-34.8869,-27.6622,-70.1374,0,-66.525 1/1:212:1,207,3:1:35:207,3:7278,108:-651.426,-59.4629,0,-642.915,-53.4705,-644.86 1/1:17:0,17,0:0:0:17,0:589,0:-53.3299,-5.11751,0,-53.3299,-5.11751,-53.3299 chr08 741628 . T G 7140.2 PASS AB=0.476665;ABP=10.6111;AC=13;AF=0.309524;AN=42;AO=901;CIGAR=1X;DP=3083;DPB=3083;DPRA=1.08221;EPP=1959.51;EPPR=4620.34;GTI=0;LEN=1;MEANALT=1;MQM=25.7447;MQMR=48.9775;NS=21;NUMALT=1;ODDS=0.729255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32084;QR=78191;RO=2182;RPL=0;RPP=1959.51;RPPR=4706.48;RPR=901;RUN=1;SAF=0;SAP=1959.51;SAR=901;SRF=10;SRP=4654.7;SRR=2172;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:216:121,95:121:4348:95:3391:-154.773,0,-323.493 0/1:163:113,50:113:4041:50:1792:-66.0621,0,-307.84 0/0:130:130,0:130:4668:0:0:0,-39.1339,-417.106 0/1:250:113,137:113:4029:137:4832:-231.846,0,-283.198 0/1:306:152,154:152:5432:154:5503:-265.852,0,-392.664 0/0:144:144,0:144:5119:0:0:0,-43.3483,-450.813 0/0:232:231,1:231:8297:1:36:0,-67.2802,-729.691 1/1:129:0,129:0:0:129:4612:-281.829,-38.8329,0 0/1:225:109,116:109:3908:116:4126:-209.083,0,-282.721 0/1:22:6,16:6:216:16:563:-26.8549,0,-12.9315 0/1:6:3,3:3:108:3:108:-5.3582,0,-8.17999 0/1:63:34,29:34:1216:29:1032:-42.421,0,-89.7435 0/0:111:110,1:110:3941:1:36:0,-30.6781,-348.486 0/1:190:94,96:94:3357:96:3426:-161.862,0,-240.348 0/0:158:158,0:158:5684:0:0:0,-47.5627,-506.591 0/0:154:154,0:154:5532:0:0:0,-46.3586,-495.196 0/0:188:188,0:188:6749:0:0:0,-56.5936,-602.446 0/1:88:44,44:44:1584:44:1555:-66.2948,0,-112.952 0/1:78:52,26:52:1868:26:928:-34.1055,0,-144.025 0/0:172:168,4:168:6036:4:144:0,-43.4559,-523.81 0/0:58:58,0:58:2058:0:0:0,-17.4597,-182.028 chr08 741637 . A T 7352.69 PASS AB=0.482099;ABP=7.51946;AC=13;AF=0.309524;AN=42;AO=917;CIGAR=1X;DP=3083;DPB=3083;DPRA=1.1522;EPP=1994.25;EPPR=4689.06;GTI=0;LEN=1;MEANALT=1;MQM=25.7121;MQMR=49.0134;NS=21;NUMALT=1;ODDS=1.88372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32874;QR=77432;RO=2166;RPL=0;RPP=1994.25;RPPR=4602.77;RPR=917;RUN=1;SAF=0;SAP=1994.25;SAR=917;SRF=10;SRP=4619.96;SRR=2156;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:219:124,95:124:4423:95:3387:-153.673,0,-328.905 0/1:166:112,54:112:3998:54:1944:-74.7813,0,-303.427 0/0:130:130,0:130:4660:0:0:0,-39.1339,-416.433 0/1:251:111,140:111:3958:140:4983:-239.513,0,-276.881 0/1:310:153,157:153:5477:157:5636:-271.009,0,-395.518 0/0:143:143,0:143:5106:0:0:0,-43.0473,-449.444 0/0:228:227,1:227:8109:1:36:0,-66.0761,-713.978 1/1:131:0,131:0:0:131:4704:-285.896,-39.4349,0 0/1:224:106,118:106:3785:118:4236:-214.725,0,-272.075 0/1:22:6,16:6:216:16:576:-27.0043,0,-12.9315 0/1:7:4,3:4:140:3:108:-5.05717,0,-10.7458 0/1:64:34,30:34:1224:30:1080:-44.162,0,-90.1198 0/0:110:110,0:110:3939:0:0:0,-33.1133,-351.964 0/1:190:93,97:93:3331:97:3488:-164.32,0,-237.547 0/0:155:155,0:155:5554:0:0:0,-46.6596,-494.745 0/0:154:154,0:154:5513:0:0:0,-46.3586,-493.535 0/0:185:185,0:185:6602:0:0:0,-55.6905,-590.236 0/1:89:44,45:44:1576:45:1616:-68.1286,0,-112.155 0/1:78:52,26:52:1868:26:936:-34.2367,0,-144.025 0/0:171:167,4:167:5965:4:144:0,-43.1549,-517.089 0/0:56:56,0:56:1988:0:0:0,-16.8577,-175.904 chr08 743902 . 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G T 14444.1 PASS AB=0.343348;ABP=152.003;AC=28;AF=0.666667;AN=42;AO=728;CIGAR=1X;DP=1401;DPB=1401;DPRA=0.278873;EPP=1566.52;EPPR=1464.41;GTI=3;LEN=1;MEANALT=1;MQM=58.9327;MQMR=60;NS=21;NUMALT=1;ODDS=1.87714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26039;QR=24080;RO=673;RPL=726;RPP=1566.52;RPPR=1464.41;RPR=2;RUN=1;SAF=0;SAP=1583.84;SAR=728;SRF=0;SRP=1464.41;SRR=673;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:65,22:65:2298:22:792:-45.4161,0,-180.889 0/1:42:32,10:32:1137:10:356:-19.7294,0,-89.9937 1/1:64:0,64:0:0:64:2296:-206.837,-19.2659,0 0/1:92:62,30:62:2232:30:1071:-68.9414,0,-173.449 0/1:104:86,18:86:3088:18:644:-26.9546,0,-246.84 1/1:14:0,14:0:0:14:504:-45.6853,-4.21442,0 1/1:51:0,51:0:0:51:1809:-162.019,-15.3525,0 0/0:213:213,0:213:7648:0:0:0,-64.1194,-688.353 0/1:124:78,46:78:2796:46:1652:-111.602,0,-214.552 0/1:5:3,2:3:108:2:72:-5.33062,0,-8.57002 0/1:5:2,3:2:72:3:108:-8.5672,0,-5.33157 0/1:26:16,10:16:576:10:360:-24.9104,0,-44.3482 1/1:102:0,102:0:0:102:3638:-327.351,-30.7051,0 0/1:65:48,17:48:1709:17:608:-35.4851,0,-134.527 1/1:78:0,78:0:0:78:2807:-252.786,-23.4803,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:13:2,11:2:72:11:396:-32.0694,0,-2.92333 0/1:90:50,40:50:1772:40:1440:-102.749,0,-132.668 0/1:46:15,31:15:536:31:1111:-86.2527,0,-34.7274 1/1:145:0,145:0:0:145:5151:-462.319,-43.6494,0 1/1:27:1,26:1:36:26:936:-80.9239,-4.52954,0 chr08 824732 . G A 14182.1 PASS AB=0.341954;ABP=154.015;AC=28;AF=0.666667;AN=42;AO=717;CIGAR=1X;DP=1391;DPB=1391;DPRA=0.273488;EPP=1551.28;EPPR=1466.58;GTI=3;LEN=1;MEANALT=1;MQM=59.0139;MQMR=60;NS=21;NUMALT=1;ODDS=2.35304;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25688;QR=24130;RO=674;RPL=716;RPP=1551.28;RPPR=1466.58;RPR=1;RUN=1;SAF=0;SAP=1559.96;SAR=717;SRF=0;SRP=1466.58;SRR=674;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:66,21:66:2352:21:756:-42.1776,0,-185.75 0/1:41:31,10:31:1116:10:360:-20.3929,0,-88.4095 1/1:63:0,63:0:0:63:2251:-202.789,-18.9649,0 0/1:92:62,30:62:2228:30:1067:-68.5979,0,-173.089 0/1:104:86,18:86:3076:18:644:-26.9546,0,-245.762 1/1:14:0,14:0:0:14:504:-45.6853,-4.21442,0 1/1:49:0,49:0:0:49:1749:-157.234,-14.7505,0 0/0:215:215,0:215:7691:0:0:0,-64.7214,-692.224 0/1:124:78,46:78:2792:46:1656:-111.957,0,-214.193 0/1:5:3,2:3:108:2:72:-5.33062,0,-8.57002 0/1:5:2,3:2:72:3:108:-8.5672,0,-5.33157 0/1:25:16,9:16:576:9:324:-21.9745,0,-44.6492 1/1:100:0,100:0:0:100:3592:-323.232,-30.103,0 0/1:64:47,17:47:1688:17:603:-35.3336,0,-132.941 1/1:76:0,76:0:0:76:2723:-245.258,-22.8783,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:13:2,11:2:72:11:396:-32.0694,0,-2.92333 0/1:90:50,40:50:1787:40:1427:-101.579,0,-134.019 0/1:46:15,31:15:536:31:1116:-86.6659,0,-34.7274 1/1:143:0,143:0:0:143:5124:-459.688,-43.0473,0 1/1:27:1,26:1:36:26:932:-80.5639,-4.52954,0 chr08 826736 . A G 5963.8 PASS AB=0.383178;ABP=91.7971;AC=13;AF=0.309524;AN=42;AO=371;CIGAR=1X;DP=1526;DPB=1526;DPRA=0.95242;EPP=808.627;EPPR=2485.07;GTI=1;LEN=1;MEANALT=1;MQM=59.9838;MQMR=59.8719;NS=21;NUMALT=1;ODDS=6.46097;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13252;QR=41227;RO=1155;RPL=371;RPP=808.627;RPPR=2485.07;RPR=0;RUN=1;SAF=0;SAP=808.627;SAR=371;SRF=0;SRP=2511.06;SRR=1155;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:29,33:29:1040:33:1169:-86.8514,0,-75.1725 0/1:46:32,14:32:1140:14:500:-31.4888,0,-88.9547 0/0:99:97,2:97:3450:2:72:0,-22.9652,-303.871 0/1:108:70,38:70:2501:38:1359:-90.0986,0,-192.83 0/1:220:147,73:147:5254:73:2612:-169.101,0,-406.763 0/0:46:46,0:46:1641:0:0:0,-13.8474,-147.941 0/0:60:60,0:60:2122:0:0:0,-18.0618,-191.242 1/1:79:0,79:0:0:79:2836:-255.476,-23.7814,0 0/1:59:33,26:33:1165:26:936:-66.7987,0,-87.3942 0/1:14:9,5:9:300:5:180:-12.3376,0,-23.1077 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:26:13,13:13:464:13:457:-33.6358,0,-34.2707 0/0:60:60,0:60:2160:0:0:0,-18.0618,-194.667 0/1:45:25,20:25:900:20:701:-49.8654,0,-67.757 0/0:144:144,0:144:5157:0:0:0,-43.3483,-462.82 0/0:67:67,0:67:2363:0:0:0,-20.169,-212.924 0/0:52:51,1:51:1832:1:36:0,-12.0553,-161.563 0/1:115:63,52:63:2264:52:1854:-132.521,0,-169.404 0/1:46:35,11:35:1260:11:396:-22.1354,0,-99.8581 0/0:124:123,1:123:4378:1:36:0,-33.7294,-390.593 0/0:46:45,1:45:1620:1:36:0,-10.2491,-142.49 chr08 826738 . TCAACAACAACCC TCAACAACCC,TCAACAACAATCC 29416.4 PASS AB=0.590782,0.398045;ABP=54.2643,67.6571;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1049,371;CIGAR=1M3D9M,10M1X2M;DP=1438;DPB=1193.62;DPRA=0.816265,0.975107;EPP=2272.21,808.627;EPPR=7.35324;GTI=1;LEN=3,1;MEANALT=2.45,2.6875;MQM=59.8866,59.9838;MQMR=60;NS=21;NUMALT=2;ODDS=3.01193;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36399,13297;QR=72;RO=2;RPL=1048,371;RPP=2272.21,808.627;RPPR=7.35324;RPR=1,0;RUN=1,1;SAF=0,0;SAP=2280.88,808.627;SAR=1049,371;SRF=0;SRP=7.35324;SRR=2;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,27,32:0:0:27,32:918,1148:-168.136,-93.6951,-85.5673,-74.4868,0,-64.8538 1/2:43:0,29,14:0:0:29,14:1002,489:-121.533,-40.1245,-31.3946,-81.7563,0,-77.5419 1/1:90:0,87,2:0:0:87,2:2962,72:-266.415,-26.1896,0,-260.54,-20.3148,-259.938 1/2:107:0,67,38:0:0:67,38:2358,1364:-303.223,-111.271,-91.1023,-191.957,0,-180.518 1/2:208:1,134,73:1:36:134,73:4686,2608:-590.604,-209.696,-172.295,-378.266,0,-359.229 1/1:43:0,43,0:0:0:43,0:1483,0:-133.756,-12.9443,0,-133.756,-12.9443,-133.756 1/1:57:0,56,0:0:0:56,0:1932,0:-173.787,-16.8577,0,-173.787,-16.8577,-173.787 2/2:83:0,0,81:0:0:0,81:0,2908:-261.664,-261.664,-261.664,-24.3834,-24.3834,0 1/2:57:0,30,27:0:0:30,27:1053,972:-165.362,-79.6701,-70.6392,-86.0477,0,-77.9199 1/2:14:0,9,5:0:0:9,5:320,180:-41.1218,-15.0469,-12.3376,-26.4331,0,-24.9279 1/2:8:0,6,2:0:0:6,2:208,72:-23.1311,-6.23466,-4.42848,-17.2529,0,-16.6508 1/2:23:0,10,13:0:0:10,13:348,464:-66.4772,-38.1841,-35.1738,-28.6448,0,-24.7314 1/1:56:0,55,0:0:0:55,0:1934,0:-173.973,-16.5567,0,-173.973,-16.5567,-173.973 1/2:42:0,22,18:0:0:22,18:776,648:-116.121,-52.9409,-46.3183,-63.2418,0,-57.8233 1/1:135:0,133,0:0:0:133,0:4571,0:-410.999,-40.037,0,-410.999,-40.037,-410.999 1/1:58:0,58,0:0:0:58,0:1979,0:-178.378,-17.4597,0,-178.378,-17.4597,-178.378 1/1:47:0,45,1:0:0:45,1:1577,36:-141.859,-13.5464,0,-138.921,-10.6089,-138.62 1/2:114:0,60,53:0:0:60,53:2091,1904:-325.363,-155.323,-137.262,-170.034,0,-154.079 1/2:40:0,29,10:0:0:29,10:1032,360:-113.479,-29.3742,-20.6443,-84.1039,0,-81.0936 1/1:109:0,108,1:0:0:108,1:3760,36:-338.24,-32.5112,0,-335.302,-29.214,-335.001 1/1:44:1,41,1:1:36:41,1:1409,36:-123.503,-9.40481,0,-120.866,-9.40481,-123.503 chr08 831072 . G A 24061.6 PASS AB=0.55988;ABP=23.8148;AC=30;AF=0.714286;AN=42;AO=1119;CIGAR=1X;DP=1485;DPB=1485;DPRA=1.05821;EPP=2355.34;EPPR=771.925;GTI=1;LEN=1;MEANALT=1;MQM=59.5433;MQMR=59.9481;NS=21;NUMALT=1;ODDS=6.01733;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40058;QR=13038;RO=366;RPL=9;RPP=2355.34;RPPR=771.925;RPR=1110;RUN=1;SAF=1119;SAP=2432.89;SAR=0;SRF=366;SRP=797.769;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:56,57:56:2004:57:2030:-148.812,0,-146.617 0/1:34:10,24:10:351:24:860:-67.4868,0,-21.6917 1/1:48:1,47:1:36:47:1684:-147.603,-10.8512,0 0/1:74:31,43:31:1091:43:1540:-116.609,0,-76.2225 0/1:141:75,66:75:2688:66:2364:-170.512,0,-199.719 1/1:61:0,61:0:0:61:2172:-195.684,-18.3628,0 1/1:104:1,103:1:36:103:3681:-327.672,-27.7088,0 0/0:67:67,0:67:2408:0:0:0,-20.169,-216.975 0/1:117:45,72:45:1591:72:2584:-197.567,0,-108.203 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:124:0,124:0:0:124:4434:-399.161,-37.3277,0 0/1:51:22,29:22:779:29:1036:-78.1907,0,-55.0795 1/1:198:0,198:0:0:198:7096:-638.653,-59.6039,0 1/1:43:0,43:0:0:43:1544:-139.243,-12.9443,0 1/1:30:0,30:0:0:30:1076:-97.0967,-9.0309,0 0/1:66:35,31:35:1248:31:1105:-79.8598,0,-92.7569 0/1:58:15,43:15:518:43:1544:-121.783,0,-29.4858 1/1:94:2,92:2:72:92:3300:-290.236,-21.4601,0 1/1:43:1,42:1:36:42:1504:-132.002,-9.34602,0 chr08 860763 . A G 3878.68 PASS AB=0.472149;ABP=5.5504;AC=13;AF=0.309524;AN=42;AO=229;CIGAR=1X;DP=852;DPB=852;DPRA=1.13218;EPP=500.277;EPPR=1347.17;GTI=0;LEN=1;MEANALT=1;MQM=59.9956;MQMR=59.9984;NS=21;NUMALT=1;ODDS=0.861069;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8173;QR=22315;RO=623;RPL=229;RPP=500.277;RPPR=1347.17;RPR=0;RUN=1;SAF=0;SAP=500.277;SAR=229;SRF=0;SRP=1355.84;SRR=623;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:33,24:33:1184:24:856:-60.2024,0,-89.7096 0/1:24:6,18:6:216:18:648:-51.4272,0,-12.5658 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/1:30:13,17:13:468:17:612:-46.3825,0,-33.4287 0/1:115:51,64:51:1832:64:2285:-171.291,0,-130.542 0/0:30:30,0:30:1061:0:0:0,-9.0309,-95.7994 0/0:88:88,0:88:3144:0:0:0,-26.4906,-283.186 1/1:48:0,48:0:0:48:1692:-152.563,-14.4494,0 0/1:39:22,17:22:792:17:612:-43.6733,0,-59.8655 0/1:7:5,2:5:176:2:72:-4.72951,0,-14.0778 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:13:7,6:7:252:6:208:-15.1457,0,-19.1156 0/0:35:35,0:35:1245:0:0:0,-10.536,-112.353 0/1:38:25,13:25:900:13:468:-31.0205,0,-69.8819 0/0:84:82,2:82:2944:2:72:0,-18.4502,-258.357 0/0:31:31,0:31:1101:0:0:0,-9.33193,-99.3984 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:29:20,9:20:720:9:324:-20.776,0,-56.3989 0/1:21:16,5:16:572:5:180:-10.2304,0,-45.4918 0/0:82:81,1:81:2904:1:36:0,-21.0862,-257.997 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 chr08 917274 . A G 13754.7 PASS AB=0.734021;ABP=233.719;AC=16;AF=0.380952;AN=42;AO=591;CIGAR=1X;DP=1084;DPB=1084;DPRA=1.21791;EPP=367.586;EPPR=1064.88;GTI=3;LEN=1;MEANALT=1;MQM=57.9865;MQMR=59.8905;NS=21;NUMALT=1;ODDS=0.969175;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20580;QR=17385;RO=493;RPL=1;RPP=1277.68;RPPR=1073.55;RPR=590;RUN=1;SAF=139;SAP=362.971;SAR=452;SRF=1;SRP=1064.88;SRR=492;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:61:5,56:5:180:56:1937:-155.362,-1.81077,0 1/1:87:6,81:6:216:81:2866:-237.178,-6.3991,0 0/0:37:37,0:37:1315:0:0:0,-11.1381,-118.651 0/1:76:18,58:18:621:58:2030:-159.874,0,-33.3329 0/1:117:21,96:21:740:96:3316:-261.197,0,-31.7029 0/0:36:35,1:35:1232:1:36:0,-7.2388,-107.583 0/0:34:34,0:34:1188:0:0:0,-10.235,-107.222 1/1:96:0,96:0:0:96:3350:-301.081,-28.8989,0 0/1:89:27,62:27:955:62:2131:-165.146,0,-59.4732 0/1:17:6,11:6:207:11:392:-30.4979,0,-13.8494 0/1:7:3,4:3:100:4:144:-11.1955,0,-7.22323 0/1:45:18,27:18:630:27:956:-72.7394,0,-43.4783 0/0:97:97,0:97:3429:0:0:0,-29.1999,-308.789 0/1:72:17,55:17:599:55:1897:-149.235,0,-32.5639 0/0:51:50,1:50:1771:1:36:0,-11.7543,-156.074 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/1:36:5,31:5:180:31:1065:-85.0637,0,-5.71498 0/1:17:6,11:6:216:11:388:-30.1399,0,-14.673 0/0:69:69,0:69:2411:0:0:0,-20.7711,-217.246 0/0:19:19,0:19:684:0:0:0,-5.71957,-60.7816 chr08 922942 . A C 15559 PASS AB=0.530275;ABP=7.34926;AC=29;AF=0.690476;AN=42;AO=744;CIGAR=1X;DP=1045;DPB=1045;DPRA=1.16512;EPP=1566.89;EPPR=566.165;GTI=0;LEN=1;MEANALT=1.15;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.87072;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26483;QR=10586;RO=298;RPL=0;RPP=1618.59;RPPR=650.109;RPR=744;RUN=1;SAF=6;SAP=1566.89;SAR=738;SRF=10;SRP=566.165;SRR=288;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:23,45:23:820:45:1587:-122.65,0,-53.6525 0/1:26:8,17:8:280:17:596:-46.0827,0,-17.6548 1/1:50:0,50:0:0:50:1771:-159.672,-15.0515,0 0/1:24:11,13:11:396:13:464:-34.8728,0,-28.758 0/1:87:59,28:59:2088:28:1004:-64.4863,0,-161.998 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:70:0,70:0:0:70:2508:-225.972,-21.0721,0 0/0:43:43,0:43:1548:0:0:0,-12.9443,-139.613 0/1:67:32,35:32:1140:35:1240:-91.7354,0,-82.7402 0/1:6:3,3:3:100:3:108:-8.26899,0,-7.52426 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:19:7,12:7:243:12:432:-33.5016,0,-16.4879 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 0/1:41:16,25:16:559:25:892:-68.2575,0,-38.2954 1/1:120:1,118:1:36:118:4205:-375.033,-32.5841,0 1/1:36:0,36:0:0:36:1275:-115.052,-10.8371,0 1/1:23:0,23:0:0:23:807:-72.9492,-6.92369,0 0/1:148:73,75:73:2593:75:2670:-195.992,0,-189.065 0/1:53:19,33:19:675:33:1188:-91.2152,0,-45.0638 1/1:49:0,49:0:0:49:1732:-156.162,-14.7505,0 1/1:34:0,34:0:0:34:1208:-109.026,-10.235,0 chr08 922988 . A G 15941.3 PASS AB=0.532258;ABP=8.05372;AC=29;AF=0.690476;AN=42;AO=766;CIGAR=1X;DP=1076;DPB=1076;DPRA=1.14556;EPP=1614.65;EPPR=587.785;GTI=0;LEN=1;MEANALT=1.05;MQM=59.983;MQMR=60;NS=21;NUMALT=1;ODDS=7.16585;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27196;QR=10967;RO=308;RPL=766;RPP=1666.36;RPPR=671.824;RPR=0;RUN=1;SAF=6;SAP=1614.65;SAR=760;SRF=10;SRP=587.785;SRR=298;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:21,45:21:752:45:1604:-124.782,0,-48.1383 0/1:28:11,17:11:392:17:608:-46.6232,0,-27.1912 1/1:53:0,53:0:0:53:1863:-167.946,-15.9546,0 0/1:24:11,13:11:396:13:460:-34.5107,0,-28.758 0/1:91:62,29:62:2197:29:1034:-65.9797,0,-170.6 1/1:32:0,32:0:0:32:1128:-101.828,-9.63296,0 1/1:72:0,72:0:0:72:2572:-231.73,-21.6742,0 0/0:45:45,0:45:1605:0:0:0,-13.5463,-144.738 0/1:71:33,38:33:1172:38:1335:-99.0754,0,-84.4144 0/1:6:3,3:3:108:3:99:-7.4304,0,-8.26899 0/1:8:3,5:3:108:5:167:-12.9502,0,-7.66693 0/1:21:8,13:8:288:13:464:-35.7759,0,-19.9458 1/1:46:0,46:0:0:46:1645:-148.339,-13.8474,0 0/1:40:15,25:15:525:25:900:-69.2798,0,-35.5369 1/1:124:1,121:1:36:121:4312:-384.658,-33.4872,0 1/1:38:1,37:1:32:37:1324:-116.263,-8.23983,0 1/1:24:0,24:0:0:24:845:-76.3671,-7.22472,0 0/1:149:75,74:75:2676:74:2652:-194.073,0,-196.232 0/1:54:19,35:19:680:35:1240:-95.6488,0,-45.2735 1/1:49:0,49:0:0:49:1714:-154.544,-14.7505,0 1/1:35:0,35:0:0:35:1230:-111.002,-10.5361,0 chr08 924034 . TTTC CTTT,CTTC 21409.3 PASS AB=0.529532,0.460285;ABP=6.72967,9.737;AC=29,13;AF=0.690476,0.309524;AN=42;AO=788,260;CIGAR=1X2M1X,1X3M;DP=1056;DPB=1057.75;DPRA=1.65323,0.797297;EPP=1714.13,567.593;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.05,2.35714;MQM=59.849,59.9423;MQMR=0;NS=21;NUMALT=2;ODDS=8.17922;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=70;PRO=2;QA=27051,9234;QR=0;RO=0;RPL=788,260;RPP=1714.13,567.593;RPPR=0;RPR=0,0;RUN=1,1;SAF=788,260;SAP=1714.13,567.593;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:34:0,17,16:0:0:17,16:596,576:-95.5227,-47.0268,-41.9093,-48.5191,0,-43.7026 1/2:13:0,8,5:0:0:8,5:278,180:-37.0081,-15.0469,-12.6387,-22.3129,0,-20.8077 1/1:67:0,67,0:0:0:67,0:2301,0:-207.348,-20.169,0,-207.348,-20.169,-207.348 1/2:27:0,10,17:0:0:10,17:343,592:-75.9342,-48.0898,-45.0795,-27.7953,0,-22.6778 1/2:73:0,37,35:0:0:37,35:1283,1256:-206.875,-102.596,-91.458,-104.417,0,-93.8806 1/1:44:0,44,0:0:0:44,0:1496,0:-134.926,-13.2453,0,-134.926,-13.2453,-134.926 1/1:58:0,55,2:0:0:55,2:1822,72:-163.887,-16.5567,0,-158.011,-10.6869,-157.409 2/2:31:0,0,31:0:0:0,31:0,1107:-99.9408,-99.9408,-99.9408,-9.33193,-9.33193,0 1/2:54:0,28,25:0:0:28,25:947,884:-148.86,-72.0986,-63.6698,-76.8518,0,-69.3261 1/2:18:0,11,7:0:0:11,7:385,243:-51.426,-20.1003,-16.7889,-31.6739,0,-29.5666 1/2:6:0,2,4:0:0:2,4:72,144:-17.9843,-12.1095,-11.5074,-6.23466,0,-5.03054 1/2:24:0,12,12:0:0:12,12:425,428:-69.8657,-35.2464,-31.6341,-34.9745,0,-31.3621 1/1:87:0,87,0:0:0:87,0:3006,0:-270.773,-26.1896,0,-270.773,-26.1896,-270.773 1/2:54:0,22,31:0:0:22,31:773,1108:-153.362,-90.4457,-83.8231,-63.0138,0,-53.6819 1/1:141:0,140,0:0:0:140,0:4871,0:-438.317,-42.1442,0,-438.317,-42.1442,-438.317 1/1:7:0,7,0:0:0:7,0:244,0:-22.2989,-2.10721,0,-22.2989,-2.10721,-22.2989 1/1:16:0,15,0:0:0:15,0:520,0:-46.843,-4.51545,0,-46.843,-4.51545,-46.843 1/2:112:0,57,54:0:0:57,54:1901,1896:-308.158,-154.294,-137.135,-153.846,0,-137.591 1/2:76:0,56,20:0:0:56,20:1881,716:-211.101,-58.7471,-41.8894,-152.706,0,-146.685 1/1:69:0,68,1:0:0:68,1:2394,32:-215.127,-20.47,0,-212.549,-17.5718,-212.248 1/1:45:0,45,0:0:0:45,0:1513,0:-136.455,-13.5464,0,-136.455,-13.5464,-136.455 chr08 924157 . C T 17656.5 PASS AB=0.532468;ABP=8.65049;AC=29;AF=0.690476;AN=42;AO=869;CIGAR=1X;DP=1213;DPB=1213;DPRA=1.163;EPP=1872.69;EPPR=715.657;GTI=0;LEN=1;MEANALT=1;MQM=59.9735;MQMR=60;NS=21;NUMALT=1;ODDS=3.49875;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30695;QR=12307;RO=344;RPL=867;RPP=1872.69;RPPR=724.166;RPR=2;RUN=1;SAF=0;SAP=1890.02;SAR=869;SRF=1;SRP=741.336;SRR=343;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:24,48:24:856:48:1719:-133.321,0,-55.6869 0/1:35:19,16:19:680:16:560:-40.1927,0,-50.9931 1/1:52:0,52:0:0:52:1860:-167.68,-15.6536,0 0/1:113:59,54:59:2112:54:1917:-138.789,0,-156.333 0/1:86:46,40:46:1644:40:1425:-102.657,0,-122.36 1/1:66:2,64:2:72:64:2224:-193.582,-13.0313,0 1/1:73:0,73:0:0:73:2597:-233.977,-21.9752,0 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/1:116:56,60:56:1995:60:2118:-155.967,0,-144.904 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:16:11,5:11:392:5:165:-10.3571,0,-30.8036 1/1:89:0,89:0:0:89:3116:-280.665,-26.7917,0 0/1:49:21,28:21:756:28:984:-74.1229,0,-53.6168 1/1:71:2,69:2:72:69:2426:-211.755,-14.5364,0 1/1:41:0,41:0:0:41:1436:-129.532,-12.3422,0 1/1:42:0,42:0:0:42:1484:-133.855,-12.6433,0 0/1:64:23,41:23:824:41:1468:-113.122,0,-55.2174 0/1:55:23,32:23:824:32:1110:-83.6462,0,-57.9267 1/1:71:2,69:2:72:69:2453:-214.187,-14.5364,0 1/1:42:0,42:0:0:42:1489:-134.303,-12.6433,0 chr08 928692 . A T,G 23759.3 PASS AB=0.310198,0.689802;ABP=223.922,223.922;AC=29,13;AF=0.690476,0.309524;AN=42;AO=566,596;CIGAR=1X,1X;DP=1162;DPB=1162;DPRA=0.503333,1.51276;EPP=1232.06,1297.21;EPPR=0;GTI=2;LEN=1,1;MEANALT=1.7,1.93333;MQM=59.3251,48.0973;MQMR=0;NS=21;NUMALT=2;ODDS=1.78481;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20139,21133;QR=0;RO=0;RPL=566,596;RPP=1232.06,1297.21;RPPR=0;RPR=0,0;RUN=1,1;SAF=566,596;SAP=1232.06,1297.21;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,21,72:0:0:21,72:748,2567:-268.942,-207.99,-201.669,-61.3073,0,-39.6331 1/2:67:0,21,46:0:0:21,46:756,1628:-192.66,-130.971,-124.649,-62.0456,0,-48.1982 1/1:34:0,33,1:0:0:33,1:1172,32:-105.458,-9.93399,0,-102.881,-7.03571,-102.58 1/2:100:0,22,78:0:0:22,78:788,2767:-287.888,-223.622,-216.999,-64.6221,0,-41.1418 1/2:76:0,21,55:0:0:21,55:752,1938:-217.5,-156.182,-149.86,-61.6732,0,-45.1165 1/1:41:0,39,2:0:0:39,2:1396,72:-125.556,-11.7402,0,-119.771,-5.60005,-119.169 1/1:28:0,28,0:0:0:28,0:1004,0:-89.726,-8.42884,0,-89.726,-8.42884,-89.726 2/2:105:0,0,105:0:0:0,105:0,3725:-331.805,-331.805,-331.805,-31.6082,-31.6082,0 1/2:125:0,36,89:0:0:36,89:1288,3137:-359.172,-254.149,-243.312,-105.378,0,-78.5867 1/2:6:0,1,5:0:0:1,5:36,180:-17.7504,-14.823,-14.5219,-3.28545,0,-1.7803 1/2:6:0,3,3:0:0:3,3:108,108:-17.8475,-9.03275,-8.12966,-9.17208,0,-8.26899 1/2:13:0,5,8:0:0:5,8:180,288:-38.2964,-23.6295,-22.1243,-15.0252,0,-12.617 1/1:51:0,51,0:0:0:51,0:1797,0:-161.994,-15.3525,0,-161.994,-15.3525,-161.994 1/2:140:0,35,105:0:0:35,105:1238,3732:-403.013,-302.189,-291.653,-101.177,0,-69.569 1/1:64:0,64,0:0:0:64,0:2292,0:-206.523,-19.2659,0,-206.523,-19.2659,-206.523 1/1:25:0,25,0:0:0:25,0:888,0:-80.2227,-7.52575,0,-80.2227,-7.52575,-80.2227 1/1:45:0,45,0:0:0:45,0:1579,0:-142.37,-13.5464,0,-142.37,-13.5464,-142.37 1/2:43:0,26,17:0:0:26,17:912,599:-122.165,-48.1971,-40.3703,-74.3155,0,-69.198 1/2:37:0,28,9:0:0:28,9:1004,324:-108.525,-26.6366,-18.2078,-82.2461,0,-79.5368 1/1:33:0,32,1:0:0:32,1:1129,36:-101.279,-9.63296,0,-98.3696,-6.36718,-98.0686 1/1:30:0,30,0:0:0:30,0:1072,0:-96.7679,-9.0309,0,-96.7679,-9.0309,-96.7679 chr08 950902 . C T 12335.8 PASS AB=0.573003;ABP=19.8138;AC=30;AF=0.714286;AN=42;AO=587;CIGAR=1X;DP=806;DPB=806;DPRA=0;EPP=1260.35;EPPR=450.692;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9864;MQMR=59.9817;NS=21;NUMALT=1;ODDS=8.49368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21005;QR=7786;RO=218;RPL=2;RPP=1260.35;RPPR=450.692;RPR=585;RUN=1;SAF=587;SAP=1277.66;SAR=0;SRF=218;SRP=476.391;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.3516 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:43:13,30:13:455:30:1080:-84.569,0,-28.3377 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 1/1:61:0,61:0:0:61:2188:-197.186,-18.3628,0 0/0:61:60,1:60:2160:1:36:0,-14.7646,-191.068 0/1:70:40,30:40:1432:30:1061:-74.7273,0,-108.105 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:31:18,13:18:648:13:464:-32.7656,0,-49.32 1/1:79:0,79:0:0:79:2809:-253.049,-23.7814,0 0/1:49:19,30:19:663:30:1072:-82.042,0,-45.243 1/1:46:2,44:2:68:44:1580:-136.033,-7.38967,0 1/1:14:1,13:1:36:13:468:-38.8605,-0.616145,0 1/1:17:0,17:0:0:17:600:-54.3269,-5.11751,0 0/1:77:27,49:27:960:49:1764:-135.884,0,-63.5553 0/1:36:12,24:12:428:24:860:-66.8848,0,-28.0217 1/1:91:1,90:1:36:90:3215:-285.974,-23.7955,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 chr08 950905 . C T 4534.39 PASS AB=0.423077;ABP=21.7184;AC=12;AF=0.285714;AN=42;AO=220;CIGAR=1X;DP=810;DPB=810;DPRA=1.2382;EPP=207.681;EPPR=793.327;GTI=0;LEN=1;MEANALT=1;MQM=59.9818;MQMR=59.9864;NS=21;NUMALT=1;ODDS=8.48144;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7884;QR=21012;RO=589;RPL=182;RPP=207.681;RPPR=793.327;RPR=38;RUN=1;SAF=220;SAP=480.734;SAR=0;SRF=589;SRP=1282.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:13:5,8:5:180:8:284:-21.9876,0,-12.6387 0/1:14:9,5:9:320:5:180:-12.3376,0,-24.9279 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 0/1:43:30,13:30:1076:13:468:-29.5154,0,-84.2086 0/1:19:11,8:11:392:8:288:-20.5478,0,-29.9005 0/0:16:16,0:16:559:0:0:0,-4.81648,-50.6376 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 1/1:62:1,61:1:36:61:2188:-193.587,-15.0656,0 0/1:73:33,40:33:1176:40:1432:-107.202,0,-84.1726 0/1:11:6,5:6:207:5:180:-13.2407,0,-15.6556 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:31:13,18:13:464:18:644:-48.9587,0,-32.7656 0/0:79:79,0:79:2809:0:0:0,-23.7814,-253.049 0/1:51:32,19:32:1152:19:684:-46.5378,0,-88.6376 0/0:46:44,2:44:1576:2:72:0,-7.01066,-135.293 0/0:14:13,1:13:464:1:36:0,-0.616145,-38.4983 0/0:18:17,0:17:603:0:0:0,-5.11751,-54.3522 0/1:73:47,26:47:1673:26:928:-61.8625,0,-128.88 0/1:36:24,12:24:864:12:428:-28.0217,0,-67.2455 0/0:91:89,2:89:3174:2:72:0,-20.557,-279.047 0/0:23:23,0:23:815:0:0:0,-6.92369,-73.6708 chr08 963329 . A G 50602 PASS AB=0.551557;ABP=36.3728;AC=29;AF=0.690476;AN=42;AO=2400;CIGAR=1X;DP=3216;DPB=3216;DPRA=1.00789;EPP=5162.56;EPPR=1731.67;GTI=0;LEN=1;MEANALT=1.05;MQM=57.9317;MQMR=59.5998;NS=21;NUMALT=1;ODDS=9.33067;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85571;QR=29108;RO=812;RPL=6;RPP=5162.56;RPPR=1731.67;RPR=2394;RUN=1;SAF=2400;SAP=5214.54;SAR=0;SRF=812;SRP=1766.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:147:62,85:62:2228:85:3027:-228.345,0,-156.532 0/1:109:40,69:40:1440:69:2434:-186.144,0,-97.0731 1/1:227:4,223:4:144:223:7900:-697.2,-55.0202,0 0/1:169:98,71:98:3524:71:2526:-176.647,0,-266.483 0/1:227:107,120:107:3827:120:4292:-317.785,0,-276.249 1/1:172:2,170:2:72:170:6087:-540.153,-44.9404,0 1/1:219:1,218:1:36:218:7759:-693.895,-62.3273,0 0/0:152:152,0:152:5468:0:0:0,-45.7566,-491.272 0/1:285:127,158:127:4527:158:5638:-421.596,0,-321.734 0/1:30:15,15:15:540:15:540:-39.8155,0,-39.819 0/1:13:7,6:7:248:6:216:-15.8589,0,-18.7508 0/1:52:21,31:21:752:31:1116:-85.0704,0,-52.1164 1/1:156:0,156:0:0:156:5579:-501.895,-46.9607,0 0/1:175:89,86:89:3174:86:3084:-223.652,0,-232.15 1/1:384:0,384:0:0:384:13671:-1228.06,-115.596,0 1/1:87:0,83:0:0:83:2959:-265.503,-24.9855,0 1/1:95:1,94:1:36:94:3376:-299.527,-24.9996,0 0/1:127:52,75:52:1868:75:2672:-202.29,0,-130.168 0/1:111:30,81:30:1080:81:2866:-224.586,0,-64.0989 1/1:172:4,168:4:144:168:6008:-525.875,-38.4635,0 1/1:107:0,107:0:0:107:3821:-343.187,-32.2102,0 chr08 963350 . G C 48595.7 PASS AB=0.554302;ABP=39.3281;AC=29;AF=0.690476;AN=42;AO=2377;CIGAR=1X;DP=3168;DPB=3168;DPRA=0;EPP=5164.6;EPPR=1714.13;GTI=0;LEN=1;MEANALT=1.14286;MQM=57.883;MQMR=59.6332;NS=21;NUMALT=1;ODDS=5.52955;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83441;QR=27873;RO=788;RPL=2377;RPP=5164.6;RPPR=1714.13;RPR=0;RUN=1;SAF=2377;SAP=5164.6;SAR=0;SRF=788;SRP=1714.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:61,84:61:2179:84:2920:-219.283,0,-152.726 0/1:104:38,66:38:1360:66:2347:-179.825,0,-91.3811 1/1:223:4,219:4:144:219:7674:-676.744,-53.8161,0 0/1:167:98,68:98:3435:68:2412:-166.96,0,-259.065 0/1:218:101,117:101:3584:117:4104:-303.718,0,-257.1 1/1:172:2,170:2:72:170:5953:-528.129,-44.9404,0 1/1:216:1,215:1:36:215:7573:-676.995,-61.4242,0 0/0:148:146,1:146:5155:1:36:0,-40.9663,-460.271 0/1:281:122,159:122:4340:159:5589:-418.155,0,-306.129 0/1:29:15,14:15:532:14:504:-36.8863,0,-39.3966 0/1:13:7,6:7:235:6:207:-15.0374,0,-17.5646 0/1:51:19,32:19:680:32:1094:-83.3842,0,-45.9451 1/1:153:0,153:0:0:153:5405:-486.341,-46.0576,0 0/1:174:87,86:87:3056:86:2980:-214.506,0,-221.779 1/1:378:0,378:0:0:378:13326:-1196.67,-113.789,0 1/1:89:0,89:0:0:89:3136:-282.276,-26.7917,0 1/1:95:1,94:1:36:94:3244:-287.7,-24.9996,0 0/1:125:52,73:52:1822:73:2526:-189.71,0,-126.631 0/1:111:30,81:30:1063:81:2824:-220.81,0,-62.5665 1/1:168:4,164:4:144:164:5789:-506.448,-37.2594,0 1/1:108:0,108:0:0:108:3798:-341.41,-32.5112,0 chr08 963354 . T G 13032.1 PASS AB=0.445965;ABP=38.2107;AC=13;AF=0.309524;AN=42;AO=772;CIGAR=1X;DP=3097;DPB=3097;DPRA=0.788169;EPP=1679.39;EPPR=5043;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.579;MQMR=57.9759;NS=21;NUMALT=1;ODDS=4.8664;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27595;QR=82460;RO=2321;RPL=772;RPP=1679.39;RPPR=5043;RPR=0;RUN=1;SAF=772;SAP=1679.39;SAR=0;SRF=2321;SRP=5043;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:82,60:82:2889:60:2156:-151.561,0,-217.45 0/1:102:65,37:65:2320:37:1323:-88.6601,0,-178.062 0/0:222:217,4:217:7724:4:144:0,-53.4935,-681.086 0/1:165:71,94:71:2521:94:3363:-253.205,0,-177.378 0/1:214:113,101:113:3999:101:3615:-261.075,0,-295.273 0/0:168:166,2:166:5910:2:72:0,-43.7363,-523.315 0/0:212:211,1:211:7459:1:36:0,-60.2201,-666.824 1/1:142:1,141:1:36:141:5024:-448.12,-39.149,0 0/1:276:151,123:151:5388:123:4400:-313.357,0,-402.195 0/1:29:14,15:14:504:15:536:-39.7583,0,-36.8863 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.16 0/1:49:29,20:29:1040:20:720:-50.1419,0,-79.137 0/0:147:147,0:147:5242:0:0:0,-44.2514,-471.614 0/1:168:85,83:85:3001:83:2953:-214.378,0,-218.681 0/0:369:368,0:368:13104:0:0:0,-110.779,-1177.52 0/0:91:91,0:91:3233:0:0:0,-27.3937,-290.543 0/0:94:93,1:93:3328:1:36:0,-24.6985,-295.58 0/1:120:70,50:70:2500:50:1796:-125.799,0,-188.93 0/1:111:81,30:81:2832:30:1061:-62.385,0,-221.503 0/0:159:155,4:155:5514:4:144:0,-34.5502,-481.854 0/0:105:105,0:105:3700:0:0:0,-31.6081,-332.471 chr08 963359 . ATTCATTCT GTTCGTTCT,TTTCGTTCC 65097.7 PASS AB=0.559582,0.434146;ABP=47.2584,57.0641;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2415,776;CIGAR=1X3M1X4M,1X3M1X3M1X;DP=3221;DPB=3229.67;DPRA=0,0.878698;EPP=5247.12,1688.07;EPPR=0;GTI=0;LEN=9,9;MEANALT=3.09524,3.0625;MQM=57.9354,59.6108;MQMR=0;NS=21;NUMALT=2;ODDS=0.285049;PAIRED=0,0;PAIREDR=0;PAO=8,18;PQA=270,558;PQR=0;PRO=0;QA=83534,26448;QR=0;RO=0;RPL=2415,776;RPP=5247.12,1688.07;RPPR=0;RPR=0,0;RUN=1,1;SAF=2415,776;SAP=5247.12,1688.07;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:143:0,82,60:0:0:82,60:2854,2066:-399.85,-167.842,-143.157,-232.045,0,-213.983 1/2:108:0,70,37:0:0:70,37:2396,1279:-298.049,-103.911,-82.8392,-194.13,0,-182.992 1/1:229:0,222,4:0:0:222,4:7697,140:-692.201,-66.8287,0,-680.81,-55.3935,-679.606 1/2:168:0,74,93:0:0:74,93:2521,3163:-460.895,-256.548,-234.272,-204.335,0,-176.339 1/2:221:0,116,103:0:0:116,103:4013,3526:-612.117,-286.262,-251.343,-325.941,0,-294.935 1/1:178:0,174,2:0:0:174,2:6051,70:-543.387,-52.3792,0,-537.692,-46.6637,-537.09 1/1:219:0,218,1:0:0:218,1:7508,35:-674.769,-65.6245,0,-671.921,-62.7583,-671.62 2/2:144:0,1,142:0:0:1,142:34,4833:-434.599,-431.841,-431.54,-42.7463,-39.9848,0 1/2:288:0,163,124:0:0:163,124:5648,4221:-801.211,-342.473,-293.405,-458.83,0,-421.502 1/2:30:0,15,15:0:0:15,15:536,514:-85.6219,-41.9996,-37.4842,-43.9715,0,-39.4561 1/2:12:0,5,6:0:0:5,6:171,207:-30.7092,-16.8385,-15.3333,-13.8889,0,-12.0827 1/2:49:0,30,19:0:0:30,19:1040,658:-137.753,-53.246,-44.2151,-84.5089,0,-78.7893 1/1:159:0,158,0:0:0:158,0:5464,0:-491.431,-47.5627,0,-491.431,-47.5627,-491.431 1/2:177:0,90,86:0:0:90,86:3069,2859:-479.492,-230.993,-203.901,-248.486,0,-222.598 1/1:388:0,382,0:0:0:382,0:13272,0:-1193.06,-114.993,0,-1193.06,-114.993,-1193.06 1/1:91:0,89,0:0:0:89,0:3050,0:-274.286,-26.7917,0,-274.286,-26.7917,-274.286 1/1:96:0,94,0:0:0:94,0:3251,0:-292.038,-28.2968,0,-292.038,-28.2968,-292.038 1/2:125:0,75,50:0:0:75,50:2606,1696:-349.213,-137.523,-114.946,-211.683,0,-196.631 1/2:114:0,83,30:0:0:83,30:2879,1038:-318.252,-84.3404,-59.355,-233.899,0,-224.868 1/1:171:0,165,4:0:0:165,4:5729,143:-514.521,-49.67,0,-502.861,-37.9787,-501.657 1/1:111:0,109,0:0:0:109,0:3745,0:-336.159,-32.8123,0,-336.159,-32.8123,-336.159 chr08 1090521 . T A 9172.68 PASS AB=0.473233;ABP=8.82259;AC=13;AF=0.309524;AN=42;AO=534;CIGAR=1X;DP=1865;DPB=1865;DPRA=1.09499;EPP=1162.58;EPPR=2875.89;GTI=1;LEN=1;MEANALT=1;MQM=59.9813;MQMR=59.9775;NS=21;NUMALT=1;ODDS=1.41128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19132;QR=47623;RO=1331;RPL=0;RPP=1162.58;RPPR=2875.89;RPR=534;RUN=1;SAF=534;SAP=1162.58;SAR=0;SRF=1331;SRP=2893.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:63,36:63:2251:36:1281:-85.7893,0,-173.051 0/1:76:39,37:39:1404:37:1332:-97.3041,0,-103.781 0/0:45:44,1:44:1584:1:36:0,-9.94807,-139.253 0/1:97:47,50:47:1673:50:1795:-132.632,0,-121.655 0/1:195:98,97:98:3485:97:3472:-253.991,0,-254.534 0/0:110:110,0:110:3943:0:0:0,-33.1133,-355.061 0/0:117:117,0:117:4196:0:0:0,-35.2205,-377.821 1/1:83:0,83:0:0:83:2964:-266.991,-24.9855,0 0/1:172:80,92:80:2859:92:3292:-244.72,0,-205.77 0/1:10:8,2:8:284:2:72:-3.82642,0,-22.8931 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:34:20,14:20:716:14:496:-34.7387,0,-54.5327 0/0:108:108,0:108:3875:0:0:0,-32.5112,-348.943 0/1:59:26,33:26:916:33:1188:-89.4678,0,-64.9957 0/0:195:193,2:193:6911:2:72:0,-51.8641,-615.219 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/1:88:38,50:38:1346:50:1800:-135.792,0,-94.9481 0/1:98:69,29:69:2476:29:1044:-64.7739,0,-193.592 0/0:109:103,6:103:3680:6:216:0,-13.0218,-311.613 0/0:76:76,0:76:2736:0:0:0,-22.8783,-246.482 chr08 1115519 . T G 8923.38 PASS AB=0.495747;ABP=3.13959;AC=14;AF=0.333333;AN=42;AO=511;CIGAR=1X;DP=1651;DPB=1651;DPRA=0.88233;EPP=1112.63;EPPR=2476.32;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9569;MQMR=59.9947;NS=21;NUMALT=1;ODDS=4.65312;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18150;QR=40700;RO=1139;RPL=511;RPP=1112.63;RPPR=2450.33;RPR=0;RUN=1;SAF=511;SAP=1112.63;SAR=0;SRF=1136;SRP=2450.33;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:78,67:78:2780:67:2379:-170.693,0,-206.79 0/1:53:26,27:26:916:27:955:-70.3103,0,-66.8019 0/0:99:99,0:99:3552:0:0:0,-29.802,-319.888 0/1:86:44,42:44:1576:42:1503:-109.676,0,-116.243 0/1:160:74,86:74:2656:86:3045:-226.115,0,-191.121 0/0:100:100,0:100:3575:0:0:0,-30.103,-321.957 0/0:41:39,2:39:1388:2:72:0,-5.50551,-118.382 1/1:92:1,91:1:36:91:3245:-288.672,-24.0965,0 0/1:146:65,81:65:2332:81:2867:-214.317,0,-166.189 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:11:6,5:6:216:5:176:-12.8737,0,-16.4792 0/1:21:16,5:16:567:5:176:-9.86339,0,-45.0345 0/0:121:119,1:119:4256:1:36:0,-32.8102,-379.695 0/1:93:46,47:46:1644:47:1665:-122.141,0,-120.253 0/0:127:127,0:127:4551:0:0:0,-38.2308,-409.755 0/0:67:67,0:67:2404:0:0:0,-20.169,-216.616 0/0:77:77,0:77:2744:0:0:0,-23.1793,-247.2 0/1:58:26,32:26:917:32:1135:-84.9983,0,-65.3849 0/1:50:34,16:34:1212:16:572:-36.7596,0,-94.3348 0/0:51:50,1:50:1783:1:36:0,-11.7543,-157.154 0/0:45:45,0:45:1595:0:0:0,-13.5463,-143.84 chr08 1130233 . T C 34587.7 PASS AB=0.514595;ABP=5.22886;AC=30;AF=0.714286;AN=42;AO=1672;CIGAR=1X;DP=2471;DPB=2471;DPRA=0.54686;EPP=3633.71;EPPR=1729.34;GTI=1;LEN=1;MEANALT=1;MQM=59.9593;MQMR=59.995;NS=21;NUMALT=1;ODDS=0.0206494;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59725;QR=28440;RO=799;RPL=1672;RPP=3633.71;RPPR=1729.34;RPR=0;RUN=1;SAF=0;SAP=3633.71;SAR=1672;SRF=0;SRP=1738.02;SRR=799;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:160:88,72:88:3110:72:2574:-183.743,0,-231.961 0/1:159:62,97:62:2216:97:3460:-263.75,0,-151.841 1/1:175:1,174:1:36:174:6246:-558.634,-49.082,0 0/1:134:72,62:72:2572:62:2209:-158.735,0,-191.392 0/1:226:111,115:111:3912:115:4094:-300.61,0,-284.238 1/1:33:1,32:1:36:32:1129:-98.3181,-6.33572,0 1/1:154:4,150:4:144:150:5336:-467.035,-33.045,0 0/0:207:207,0:207:7392:0:0:0,-62.3132,-665.33 0/1:183:79,104:79:2824:104:3736:-281.351,0,-199.311 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:31:17,14:17:608:14:504:-36.3662,0,-45.7201 1/1:89:0,89:0:0:89:3165:-285.071,-26.7917,0 0/1:119:65,54:65:2313:54:1932:-138.334,0,-172.606 1/1:210:1,209:1:36:209:7466:-668.381,-59.618,0 1/1:107:0,107:0:0:107:3824:-344.358,-32.2102,0 1/1:127:1,126:1:36:126:4502:-401.706,-34.6325,0 0/1:108:63,45:63:2252:45:1616:-113.219,0,-170.432 0/1:67:20,47:20:701:47:1688:-132.038,0,-43.2427 1/1:104:2,102:2:72:102:3636:-320.607,-24.4704,0 1/1:61:0,61:0:0:61:2180:-196.466,-18.3628,0 chr08 1134083 . AATTCAG AGATCAA,ATCAG 14306.5 PASS AB=0.594728,0.405272;ABP=50.3212,50.3212;AC=30,12;AF=0.714286,0.285714;AN=42;AO=848,262;CIGAR=1M2X3M1X,1M2D4M;DP=1112;DPB=1037.14;DPRA=3.425,1.15821;EPP=1844.42,571.936;EPPR=0;GTI=1;LEN=7,2;MEANALT=1.6,1.90909;MQM=24.0825,47.855;MQMR=0;NS=21;NUMALT=2;ODDS=0.672371;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29931,9271;QR=0;RO=0;RPL=848,262;RPP=1844.42,571.936;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1844.42,571.936;SAR=848,262;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,33,23:0:0:33,23:1172,813:-128.822,-65.883,-55.949,-63.2459,0,-56.3222 1/2:39:0,22,17:0:0:22,17:781,608:-84.2983,-49.9345,-43.3119,-34.6559,0,-29.5384 1/1:43:0,42,0:0:0:42,0:1507,0:-93.1889,-12.6433,0,-93.1889,-12.6433,-93.1889 1/2:43:0,21,22:0:0:21,22:732,780:-103.066,-63.2809,-56.9593,-40.0819,0,-33.4593 1/2:155:0,100,55:0:0:100,55:3536,1921:-345.346,-154.665,-124.562,-190.99,0,-174.433 1/1:51:0,51,0:0:0:51,0:1799,0:-95.6983,-15.3525,0,-95.6983,-15.3525,-95.6983 1/1:63:0,63,0:0:0:63,0:2207,0:-118.283,-18.9649,0,-118.283,-18.9649,-118.283 2/2:16:0,0,16:0:0:0,16:0,572:-50.7729,-50.7729,-50.7729,-4.81648,-4.81648,0 1/2:114:0,54,60:0:0:54,60:1899,2129:-283.064,-172.668,-156.412,-110.7,0,-92.6384 1/2:13:0,9,4:0:0:9,4:322,144:-27.5876,-11.937,-9.22776,-15.9666,0,-14.7625 1/1:9:0,9,0:0:0:9,0:316,0:-16.7247,-2.70927,0,-16.7247,-2.70927,-16.7247 1/2:13:0,8,5:0:0:8,5:286,176:-28.4008,-14.4845,-12.0763,-14.2178,0,-12.7126 1/1:79:0,79,0:0:0:79,0:2811,0:-174.478,-23.7814,0,-174.478,-23.7814,-174.478 1/2:58:0,37,21:0:0:37,21:1287,744:-130.856,-60.4155,-49.2774,-70.7533,0,-64.4317 1/1:78:0,78,0:0:0:78,0:2759,0:-172.934,-23.4803,0,-172.934,-23.4803,-172.934 1/1:34:0,33,0:0:0:33,0:1159,0:-77.9385,-9.93399,0,-77.9385,-9.93399,-77.9385 1/1:32:0,32,0:0:0:32,0:1126,0:-75.596,-9.63296,0,-75.596,-9.63296,-75.596 1/2:58:0,33,25:0:0:33,25:1159,884:-128.559,-71.2711,-61.3371,-57.5839,0,-50.0581 1/2:58:0,44,14:0:0:44,14:1561,500:-124.689,-40.6994,-27.4541,-84.3173,0,-80.1028 1/1:55:0,55,0:0:0:55,0:1920,0:-112.237,-16.5567,0,-112.237,-16.5567,-112.237 1/1:45:0,45,0:0:0:45,0:1592,0:-84.6762,-13.5464,0,-84.6762,-13.5464,-84.6762 chr08 1134094 . G A 8267.1 PASS AB=0.572347;ABP=31.2883;AC=30;AF=0.714286;AN=42;AO=835;CIGAR=1X;DP=1117;DPB=1117;DPRA=3.44062;EPP=1816.19;EPPR=615.366;GTI=0;LEN=1;MEANALT=1;MQM=24.0994;MQMR=47.7482;NS=21;NUMALT=1;ODDS=1.49412;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29914;QR=10060;RO=282;RPL=835;RPP=1816.19;RPPR=615.366;RPR=0;RUN=1;SAF=0;SAP=1816.19;SAR=835;SRF=0;SRP=615.366;SRR=282;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:24,32:24:851:32:1148:-54.2248,0,-59.3551 0/1:39:17,22:17:603:22:788:-29.5888,0,-42.8593 1/1:43:0,43:0:0:43:1544:-95.8387,-12.9443,0 0/1:44:23,21:23:811:21:756:-33.4558,0,-59.4169 0/1:156:59,97:59:2120:97:3488:-168.273,0,-140.86 1/1:51:0,51:0:0:51:1824:-95.8458,-15.3525,0 1/1:61:0,61:0:0:61:2188:-114.897,-18.3628,0 0/0:16:16,0:16:576:0:0:0,-4.81648,-51.1016 0/1:121:67,54:67:2400:54:1936:-91.4416,0,-178.11 0/1:14:5,9:5:180:9:320:-14.4448,0,-12.1089 1/1:9:0,9:0:0:9:324:-16.7546,-2.70927,0 0/1:13:5,8:5:176:8:284:-12.6948,0,-12.0763 1/1:78:0,78:0:0:78:2796:-172.525,-23.4803,0 0/1:58:21,37:21:756:37:1328:-64.8937,0,-50.3097 1/1:76:0,76:0:0:76:2702:-168.103,-22.8783,0 1/1:33:0,33:0:0:33:1169:-78.4135,-9.93399,0 1/1:32:0,32:0:0:32:1148:-75.901,-9.63296,0 0/1:63:31,32:31:1096:32:1148:-46.6911,0,-78.3283 0/1:58:14,44:14:491:44:1580:-80.2998,0,-26.6718 1/1:52:0,52:0:0:52:1859:-106.43,-15.6536,0 1/1:44:0,44:0:0:44:1584:-82.9245,-13.2453,0 chr08 1160969 . C A 21822 PASS AB=0.484357;ABP=4.8446;AC=30;AF=0.714286;AN=42;AO=1070;CIGAR=1X;DP=1568;DPB=1568;DPRA=1.55;EPP=2326.49;EPPR=1082.23;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.03585;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38178;QR=17716;RO=497;RPL=1070;RPP=2326.49;RPPR=1082.23;RPR=0;RUN=1;SAF=1070;SAP=2326.49;SAR=0;SRF=497;SRP=1082.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:79,77:79:2827:77:2752:-200.962,0,-207.708 0/1:58:33,25:33:1163:25:900:-63.8613,0,-87.5164 1/1:52:0,52:0:0:52:1848:-166.598,-15.6536,0 0/1:68:36,32:36:1280:32:1135:-81.988,0,-95.0332 0/1:219:121,98:121:4288:98:3489:-248.295,0,-320.174 1/1:68:1,67:1:36:67:2377:-210.588,-16.8718,0 1/1:111:0,111:0:0:111:3967:-357.222,-33.4143,0 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.324 0/1:106:47,58:47:1683:58:2084:-155.862,0,-119.788 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:29:21,8:21:748:8:273:-16.1703,0,-58.9154 1/1:85:0,85:0:0:85:3044:-274.19,-25.5876,0 0/1:108:56,52:56:1995:52:1847:-133.998,0,-147.312 1/1:86:0,86:0:0:86:3084:-277.788,-25.8886,0 1/1:52:0,52:0:0:52:1859:-167.59,-15.6536,0 1/1:70:0,70:0:0:70:2504:-225.613,-21.0721,0 0/1:55:31,24:31:1116:24:856:-60.8045,0,-84.195 0/1:52:13,39:13:464:39:1382:-109.023,0,-26.4439 1/1:81:3,78:3:108:78:2769:-239.377,-14.3083,0 1/1:42:0,42:0:0:42:1504:-135.655,-12.6433,0 chr08 1170492 . T A 6519.67 PASS AB=0.534091;ABP=8.34028;AC=11;AF=0.261905;AN=42;AO=366;CIGAR=1X;DP=1331;DPB=1331;DPRA=0.927133;EPP=797.769;EPPR=2098.48;GTI=0;LEN=1;MEANALT=1;MQM=59.9891;MQMR=60;NS=21;NUMALT=1;ODDS=10.121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13033;QR=34516;RO=965;RPL=0;RPP=797.769;RPPR=2098.48;RPR=366;RUN=1;SAF=0;SAP=797.769;SAR=366;SRF=0;SRP=2098.48;SRR=965;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:24,16:24:860:16:572:-39.7722,0,-65.6806 0/1:27:11,16:11:396:16:576:-44.0472,0,-27.8549 0/0:61:58,3:58:2067:3:108:0,-8.28766,-176.225 0/1:144:56,88:56:2008:88:3116:-237.313,0,-137.645 0/1:106:41,65:41:1468:65:2314:-176.61,0,-100.507 0/0:46:46,0:46:1640:0:0:0,-13.8474,-147.889 0/0:58:58,0:58:2053:0:0:0,-17.4597,-185.04 1/1:78:0,78:0:0:78:2789:-251.25,-23.4803,0 0/0:69:67,2:67:2404:2:72:0,-13.9343,-209.78 0/1:8:5,3:5:176:3:108:-7.66693,0,-13.7768 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:28:13,15:13:464:15:522:-38.8781,0,-33.6687 0/0:133:133,0:133:4763:0:0:0,-40.037,-428.827 0/1:66:30,36:30:1067:36:1284:-95.9954,0,-76.4732 0/0:79:79,0:79:2822:0:0:0,-23.7814,-254.218 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:51:23,28:23:828:28:996:-74.6024,0,-59.4916 0/1:58:43,15:43:1540:15:540:-31.4768,0,-121.433 0/0:163:163,0:163:5832:0:0:0,-49.0679,-524.993 0/0:64:63,1:63:2264:1:36:0,-15.6676,-200.424 chr08 1208283 . GAAAAAAGACAAC GAAAAAAACAAC,GAAAAAAAAACAAC 43685.3 PASS AB=0.505213,0.449289;ABP=3.25935,26.5754;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1523,552;CIGAR=7M1D5M,1M1I6M1X5M;DP=2158;DPB=2082.38;DPRA=1.20465,1.17221;EPP=3310.16,1201.66;EPPR=0;GTI=0;LEN=1,14;MEANALT=3.8,4.83333;MQM=59.7978,54.4601;MQMR=0;NS=21;NUMALT=2;ODDS=9.79372;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53964,19153;QR=0;RO=0;RPL=1523,552;RPP=3310.16,1201.66;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3310.16,1201.66;SAR=1523,552;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:68:0,28,35:0:0:28,35:996,1231:-181.269,-100.115,-91.6858,-81.1709,0,-70.6349 1/2:135:0,69,63:0:0:69,63:2441,2193:-376.631,-177.817,-157.046,-198.805,0,-179.841 1/1:56:0,56,0:0:0:56,0:2004,0:-180.634,-16.8577,0,-180.634,-16.8577,-180.634 1/2:172:0,94,74:0:0:94,74:3360,2523:-478.056,-204.103,-175.806,-273.977,0,-251.701 1/2:283:0,125,142:0:0:125,142:4437,4941:-762.839,-401.339,-363.71,-361.514,0,-318.768 1/1:108:0,103,0:0:0:103,0:3642,0:-327.612,-31.0061,0,-327.612,-31.0061,-327.612 1/1:142:0,139,0:0:0:139,0:4923,0:-442.583,-41.8432,0,-442.583,-41.8432,-442.583 2/2:86:0,0,75:0:0:0,75:0,2615:-234.693,-234.693,-234.693,-22.5773,-22.5773,0 1/2:130:0,71,54:0:0:71,54:2535,1912:-362.134,-155.481,-134.108,-206.693,0,-190.438 1/2:9:0,4,5:0:0:4,5:140,168:-25.0127,-13.6126,-12.4085,-11.7405,0,-10.2353 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:37:0,22,12:0:0:22,12:784,416:-97.7461,-33.8374,-27.2147,-63.9655,0,-60.3531 1/1:122:0,118,0:0:0:118,0:4185,0:-376.49,-35.5215,0,-376.49,-35.5215,-376.49 1/2:105:0,49,50:0:0:49,50:1710,1706:-277.406,-138.326,-123.576,-139.121,0,-124.069 1/1:119:0,116,0:0:0:116,0:4125,0:-371.074,-34.9195,0,-371.074,-34.9195,-371.074 1/1:80:0,79,0:0:0:79,0:2767,0:-248.904,-23.7814,0,-248.904,-23.7814,-248.904 1/1:132:0,131,0:0:0:131,0:4635,0:-416.94,-39.4349,0,-416.94,-39.4349,-416.94 1/2:63:0,30,29:0:0:30,29:1072,1001:-168.356,-80.9453,-71.9144,-87.4115,0,-78.6816 1/2:53:0,41,10:0:0:41,10:1468,343:-147.557,-27.8399,-15.4976,-119.738,0,-116.728 1/1:175:0,168,3:0:0:168,3:5884,104:-529.317,-50.573,0,-520.872,-42.1175,-519.968 1/1:77:0,74,0:0:0:74,0:2640,0:-237.382,-22.2762,0,-237.382,-22.2762,-237.382 chr08 1244331 . AGTC GGTT,GGTC 43605.8 PASS AB=0.51061,0.478117;ABP=4.48483,9.2828;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1411,751;CIGAR=1X2M1X,1X3M;DP=2179;DPB=2179;DPRA=4.14038,1.77453;EPP=2997.86,1556.55;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.45,3.07143;MQM=59.5769,59.992;MQMR=0;NS=21;NUMALT=2;ODDS=4.1969;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47905,26750;QR=0;RO=0;RPL=8,9;RPP=2997.86,1556.55;RPPR=0;RPR=1403,742;RUN=1,1;SAF=0,0;SAP=3066.96,1633.79;SAR=1411,751;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,29,30:0:0:29,30:955,1072:-164.571,-87.4018,-78.6719,-77.1528,0,-68.1219 1/2:36:0,16,20:0:0:16,20:530,716:-101.593,-58.7471,-53.9306,-43.189,0,-37.1684 1/1:29:0,28,1:0:0:28,1:951,36:-85.5161,-8.42884,0,-82.578,-5.1316,-82.277 1/2:33:0,18,15:0:0:18,15:606,536:-93.1474,-44.0594,-38.6408,-49.4359,0,-44.9204 1/2:102:0,43,58:0:0:43,58:1480,2067:-288.754,-168.559,-155.615,-120.262,0,-102.802 1/1:37:0,37,0:0:0:37,0:1267,0:-114.317,-11.1381,0,-114.317,-11.1381,-114.317 1/1:77:0,76,1:0:0:76,1:2619,36:-235.526,-22.8783,0,-232.589,-19.581,-232.288 2/2:26:0,0,26:0:0:0,26:0,919:-83.0262,-83.0262,-83.0262,-7.82678,-7.82678,0 1/2:40:0,15,24:0:0:15,24:524,860:-112.826,-70.2044,-65.689,-42.6796,0,-35.4549 1/2:305:0,161,141:0:0:161,141:5472,5048:-855.527,-411.742,-363.276,-443.856,0,-401.411 1/1:249:0,249,0:0:0:249,0:8280,0:-744.69,-74.9565,0,-744.69,-74.9565,-744.69 1/2:429:0,233,193:0:0:233,193:7985,6856:-1206.92,-558.735,-488.595,-648.261,0,-590.162 1/1:38:0,38,0:0:0:38,0:1301,0:-117.372,-11.4391,0,-117.372,-11.4391,-117.372 1/2:39:0,25,13:0:0:25,13:870,468:-108.921,-38.1867,-30.6609,-70.7307,0,-66.8173 1/1:71:0,71,0:0:0:71,0:2453,0:-221.021,-21.3731,0,-221.021,-21.3731,-221.021 1/1:24:0,24,0:0:0:24,0:796,0:-71.9336,-7.22472,0,-71.9336,-7.22472,-71.9336 1/1:41:0,41,0:0:0:41,0:1399,0:-126.2,-12.3422,0,-126.2,-12.3422,-126.2 1/2:437:0,209,221:0:0:209,221:7056,7848:-1211.37,-639.527,-576.611,-571.893,0,-505.365 1/2:27:0,21,6:0:0:21,6:725,216:-76.8738,-17.9843,-11.6627,-59.246,0,-57.4398 1/1:60:0,58,2:0:0:58,2:1989,72:-178.908,-17.4597,0,-173.032,-11.2251,-172.43 1/1:19:0,19,0:0:0:19,0:647,0:-58.5488,-5.71957,0,-58.5488,-5.71957,-58.5488 chr08 1329663 . GAAAAAAGC GAAAAAAAC,GAAAAAAAAAAC 23520.7 PASS AB=0.531685,0.369397;ABP=8.6521,98.8672;AC=30,12;AF=0.714286,0.285714;AN=42;AO=891,288;CIGAR=7M1X1M,1M3I6M1X1M;DP=1252;DPB=1367.44;DPRA=1.15385,1.09479;EPP=1937.79,628.394;EPPR=0;GTI=2;LEN=1,12;MEANALT=2.85,3.75;MQM=59.8305,33.8889;MQMR=0;NS=21;NUMALT=2;ODDS=2.2947;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31571,9250;QR=0;RO=0;RPL=0,0;RPP=1937.79,628.394;RPPR=0;RPR=891,288;RUN=1,1;SAF=891,288;SAP=1937.79,628.394;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,38,30:0:0:38,30:1338,981:-182.296,-73.3529,-61.9137,-108.952,0,-99.9211 1/2:42:0,25,12:0:0:25,12:896,374:-100.049,-26.9359,-19.4102,-73.0998,0,-69.4874 1/1:68:0,67,0:0:0:67,0:2351,0:-211.485,-20.169,0,-211.485,-20.169,-211.485 1/2:101:0,53,41:0:0:53,41:1904,1415:-261.649,-106.301,-90.3464,-155.406,0,-143.064 1/2:113:0,60,42:0:0:60,42:2130,1361:-275.015,-101.436,-83.3744,-173.626,0,-160.982 1/1:44:0,43,1:0:0:43,1:1518,33:-136.608,-12.9443,0,-134.211,-10.2462,-133.91 1/1:74:0,74,0:0:0:74,0:2623,0:-236.245,-22.2762,0,-236.245,-22.2762,-236.245 2/2:52:0,0,48:0:0:0,48:0,1392:-112.216,-112.216,-112.216,-14.4494,-14.4494,0 1/2:77:0,23,45:0:0:23,45:828,1531:-184.845,-117.272,-110.349,-67.6104,0,-54.0641 1/2:7:0,5,2:0:0:5,2:176,58:-18.7302,-4.3365,-2.83135,-14.6799,0,-14.0778 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:12:0,7,5:0:0:7,5:252,143:-30.89,-10.2675,-8.16031,-20.9217,0,-19.4166 1/1:38:0,38,0:0:0:38,0:1338,0:-120.714,-11.4391,0,-120.714,-11.4391,-120.714 1/2:72:0,35,27:0:0:35,27:1230,923:-169.315,-69.1892,-58.6532,-100.154,0,-92.0264 1/1:101:0,101,0:0:0:101,0:3587,0:-323.034,-30.404,0,-323.034,-30.404,-323.034 1/1:35:0,35,0:0:0:35,0:1245,0:-112.35,-10.5361,0,-112.35,-10.5361,-112.35 1/1:77:0,76,0:0:0:76,0:2672,0:-240.36,-22.8783,0,-240.36,-22.8783,-240.36 1/2:72:0,40,25:0:0:40,25:1410,709:-164.594,-49.906,-37.8648,-114.68,0,-107.155 1/2:70:0,58,10:0:0:58,10:2084,330:-194.362,-24.3187,-6.85898,-170.013,0,-167.002 1/1:65:0,64,0:0:0:64,0:2229,0:-200.433,-19.2659,0,-200.433,-19.2659,-200.433 1/1:46:0,44,0:0:0:44,0:1580,0:-142.124,-13.2453,0,-142.124,-13.2453,-142.124 chr08 1335658 . TG CG,CA 44327.7 PASS AB=0.450844,0.54717;ABP=24.145,22.4716;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1373,701;CIGAR=1X1M,2X;DP=2079;DPB=2079;DPRA=0.671875,1.29844;EPP=2984.44,1525.21;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.9,2.21429;MQM=59.716,54.1526;MQMR=0;NS=21;NUMALT=2;ODDS=1.2469;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49121,24818;QR=0;RO=0;RPL=0,0;RPP=2984.44,1525.21;RPPR=0;RPR=1373,701;RUN=1,1;SAF=1373,701;SAP=2984.44,1525.21;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:112:0,42,69:0:0:42,69:1508,2443:-321.141,-198.163,-185.52,-122.975,0,-102.204 1/2:135:0,64,71:0:0:64,71:2292,2524:-391.772,-204.914,-185.648,-187.214,0,-165.841 1/1:93:0,89,3:0:0:89,3:3183,106:-286.32,-26.7917,0,-277.705,-18.1818,-276.802 1/2:63:0,34,29:0:0:34,29:1224,1031:-184.09,-84.2222,-73.9871,-100.225,0,-91.4952 1/2:144:0,63,81:0:0:63,81:2256,2875:-417.465,-233.489,-214.524,-184.332,0,-159.949 1/1:101:0,98,2:0:0:98,2:3512,72:-315.849,-29.5009,0,-309.99,-23.6424,-309.388 1/1:156:0,155,1:0:0:155,1:5527,36:-497.188,-46.6597,0,-494.259,-43.3715,-493.957 2/2:144:0,0,144:0:0:0,144:0,5030:-451.882,-451.882,-451.882,-43.3483,-43.3483,0 1/2:181:0,74,107:0:0:74,107:2656,3824:-528.003,-311.359,-289.083,-217.002,0,-184.791 1/2:19:0,9,10:0:0:9,10:324,356:-55.636,-29.2011,-26.4918,-26.7919,0,-23.7816 1/1:7:0,7,0:0:0:7,0:252,0:-23.0243,-2.10721,0,-23.0243,-2.10721,-23.0243 1/2:27:0,8,19:0:0:8,19:288,684:-79.2348,-55.7347,-53.3264,-23.8592,0,-18.1396 1/1:78:0,78,0:0:0:78,0:2772,0:-249.404,-23.4803,0,-249.404,-23.4803,-249.404 1/2:155:0,60,94:0:0:60,94:2136,3304:-442.005,-267.917,-249.855,-174.209,0,-145.913 1/1:178:0,177,0:0:0:177,0:6348,0:-571.02,-53.2823,0,-571.02,-53.2823,-571.02 1/1:84:0,84,0:0:0:84,0:3020,0:-272.024,-25.2865,0,-272.024,-25.2865,-272.024 1/1:101:0,101,0:0:0:101,0:3597,0:-323.927,-30.404,0,-323.927,-30.404,-323.927 1/2:99:0,52,47:0:0:52,47:1855,1684:-288.317,-137.103,-121.449,-151.571,0,-137.422 1/2:72:0,48,24:0:0:48,24:1711,849:-208.672,-69.1995,-54.7501,-139.826,0,-132.601 1/1:72:0,72,0:0:0:72,0:2588,0:-233.155,-21.6742,0,-233.155,-21.6742,-233.155 1/1:58:0,58,0:0:0:58,0:2072,0:-186.743,-17.4597,0,-186.743,-17.4597,-186.743 chr08 1396856 . T C 10816.1 PASS AB=0.467914;ABP=13.0432;AC=13;AF=0.309524;AN=42;AO=624;CIGAR=1X;DP=1987;DPB=1987;DPRA=1.42294;EPP=1358.01;EPPR=2962.73;GTI=0;LEN=1;MEANALT=1;MQM=59.9712;MQMR=59.8591;NS=21;NUMALT=1;ODDS=8.47013;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22355;QR=48879;RO=1363;RPL=624;RPP=1358.01;RPPR=2962.73;RPR=0;RUN=1;SAF=0;SAP=1358.01;SAR=624;SRF=0;SRP=2962.73;SRR=1363;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:144:69,75:69:2476:75:2692:-199.176,0,-179.201 0/1:76:49,27:49:1764:27:968:-64.5591,0,-136.096 0/1:58:16,42:16:576:42:1512:-118.915,0,-34.7152 0/1:110:58,52:58:2072:52:1860:-134.566,0,-153.637 0/1:195:101,94:101:3628:94:3372:-244.995,0,-267.978 0/0:88:88,0:88:3156:0:0:0,-26.4906,-283.947 0/0:121:121,0:121:4333:0:0:0,-36.4246,-390.127 1/1:95:0,95:0:0:95:3391:-305.393,-28.5979,0 0/1:135:65,70:65:2336:70:2497:-184.343,0,-169.857 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:19:7,12:7:252:12:428:-33.1392,0,-17.3094 0/0:98:98,0:98:3524:0:0:0,-29.5009,-317.368 0/1:61:31,30:31:1116:30:1072:-78.4296,0,-82.3889 0/0:126:125,1:125:4485:1:36:0,-34.3315,-399.79 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.939 0/0:112:111,1:111:3980:1:36:0,-30.1171,-354.792 0/1:51:25,26:25:896:26:936:-69.2069,0,-65.6078 0/1:266:173,93:173:6173:93:3339:-220.652,0,-475.595 0/0:96:94,2:94:3372:2:72:0,-22.0622,-296.859 0/0:64:64,0:64:2300:0:0:0,-19.2659,-207.234 chr08 1398777 . TTATTAT GAATTCC,GAATTAC 19867.8 PASS AB=0.414501,0.577291;ABP=49.4252,40.9413;AC=29,13;AF=0.690476,0.309524;AN=42;AO=732,521;CIGAR=2X3M2X,2X4M1X;DP=1262;DPB=1262.86;DPRA=0.614211,1.68339;EPP=1592.53,1134.35;EPPR=5.18177;GTI=2;LEN=7,7;MEANALT=2.05,2.35714;MQM=26.8484,52.4914;MQMR=60;NS=21;NUMALT=2;ODDS=2.03258;PAIRED=0,0;PAIREDR=0;PAO=3,3;PQA=95,95;PQR=0;PRO=0;QA=25613,18446;QR=36;RO=1;RPL=0,0;RPP=1592.53,1134.35;RPPR=5.18177;RPR=732,521;RUN=1,1;SAF=732,521;SAP=1592.53,1134.35;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:94:0,45,49:0:0:45,49:1572,1721:-232.361,-139.558,-126.012,-93.1074,0,-78.3569 1/2:46:0,11,35:0:0:11,35:389,1245:-123.182,-101.264,-97.9525,-22.1459,0,-11.6099 1/2:39:0,18,21:0:0:18,21:635,754:-98.6445,-61.3572,-55.9387,-37.5384,0,-31.2168 1/2:91:0,38,53:0:0:38,53:1303,1878:-230.05,-153.008,-141.568,-77.3404,0,-61.3858 1/2:111:0,41,69:0:0:41,69:1452,2450:-284.014,-198.917,-186.575,-85.0315,0,-64.2605 1/1:48:0,47,0:0:0:47,0:1644,0:-107.308,-14.1484,0,-107.308,-14.1484,-107.308 1/1:68:0,67,1:0:0:67,1:2347,36:-152.656,-20.169,0,-149.725,-16.8808,-149.424 2/2:95:0,0,95:0:0:0,95:0,3353:-300.892,-300.892,-300.892,-28.5979,-28.5979,0 1/2:98:0,46,51:0:0:46,51:1631,1812:-242.596,-147.209,-133.362,-95.4271,0,-80.0746 1/2:10:0,7,3:0:0:7,3:242,108:-24.0348,-9.15411,-7.0469,-15.2134,0,-14.3103 1/1:8:0,8,0:0:0:8,0:279,0:-18.4155,-2.40824,0,-18.4155,-2.40824,-18.4155 1/2:18:0,10,8:0:0:10,8:354,284:-45.4061,-23.2823,-20.272,-22.3941,0,-19.9859 1/1:46:0,46,0:0:0:46,0:1591,0:-108.795,-13.8474,0,-108.795,-13.8474,-108.795 1/2:91:0,26,63:0:0:26,63:896,2230:-234.213,-181.126,-173.299,-53.0359,0,-34.071 1/1:76:0,75,0:0:0:75,0:2621,0:-177.246,-22.5773,0,-177.246,-22.5773,-177.246 1/1:6:0,6,0:0:0:6,0:208,0:-14.4864,-1.80618,0,-14.4864,-1.80618,-14.4864 1/1:39:0,39,0:0:0:39,0:1353,0:-92.5839,-11.7402,0,-92.5839,-11.7402,-92.5839 1/2:56:1,20,35:1:36:20,35:714,1239:-140.382,-97.7566,-94.6735,-39.8742,0,-32.2796 1/2:77:0,41,35:0:0:41,35:1449,1228:-184.771,-99.6694,-87.3272,-85.0103,0,-74.4742 1/1:79:0,75,3:0:0:75,3:2633,108:-182.495,-22.5773,0,-173.693,-13.7145,-172.79 1/1:66:0,66,0:0:0:66,0:2300,0:-150.287,-19.868,0,-150.287,-19.868,-150.287 chr08 1398797 . TG CT,CG 55737.7 PASS AB=0.433134,0.564205;ABP=61.38,56.8261;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1550,1032;CIGAR=2X,1X1M;DP=2586;DPB=2586;DPRA=0.676404,1.54436;EPP=3368.79,2243.97;EPPR=5.18177;GTI=1;LEN=2,1;MEANALT=1.85,2.13333;MQM=26.4413,55.2306;MQMR=60;NS=21;NUMALT=2;ODDS=11.5899;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54825,36411;QR=36;RO=1;RPL=737,525;RPP=11.1022,3.69204;RPPR=5.18177;RPR=813,507;RUN=1,1;SAF=737,525;SAP=11.1022,3.69204;SAR=813,507;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:212:0,94,117:0:0:94,117:3318,4069:-520.257,-329.594,-301.297,-190.603,0,-155.383 1/2:89:0,30,59:0:0:30,59:1065,2093:-229.4,-170.027,-160.996,-59.66,0,-41.8993 1/2:77:0,32,45:0:0:32,45:1133,1599:-195.144,-130.027,-120.394,-65.4156,0,-51.8692 1/2:168:0,74,94:0:0:74,94:2600,3316:-418.582,-269.917,-247.641,-148.964,0,-120.667 1/2:219:0,87,132:0:0:87,132:3088,4706:-559.556,-382.767,-356.578,-177.086,0,-137.35 1/1:92:0,91,1:0:0:91,1:3214,36:-207.428,-27.3937,0,-204.489,-24.0965,-204.188 1/1:145:0,144,1:0:0:144,1:5096,36:-329.263,-43.3483,0,-326.333,-40.0601,-326.032 2/2:178:0,0,178:0:0:0,178:0,6300:-565.496,-565.496,-565.496,-53.5833,-53.5833,0 1/2:213:0,89,124:0:0:89,124:3160,4387:-537.615,-356.78,-329.988,-181.134,0,-143.806 1/2:27:0,14,13:0:0:14,13:495,460:-67.468,-37.7407,-33.5263,-30.0402,0,-26.1268 1/1:10:0,10,0:0:0:10,0:360,0:-23.1157,-3.0103,0,-23.1157,-3.0103,-23.1157 1/2:31:0,14,16:0:0:14,16:504,551:-74.0175,-44.5888,-40.3744,-29.39,0,-24.5736 1/1:107:0,107,0:0:0:107,0:3794,0:-248.58,-32.2102,0,-248.58,-32.2102,-248.58 1/2:170:0,61,109:0:0:61,109:2134,3875:-438.035,-315.436,-297.073,-122.892,0,-90.0796 1/1:190:0,190,0:0:0:190,0:6771,0:-441.69,-57.1957,0,-441.69,-57.1957,-441.69 1/1:44:0,44,0:0:0:44,0:1543,0:-101.003,-13.2453,0,-101.003,-13.2453,-101.003 1/1:72:0,72,0:0:0:72,0:2541,0:-168.143,-21.6742,0,-168.143,-21.6742,-168.143 1/2:161:1,74,86:1:36:74,86:2607,2989:-389.069,-239.823,-220.484,-146.549,0,-123.599 1/2:136:0,82,53:0:0:82,53:2921,1850:-318.099,-149.926,-125.242,-168.133,0,-152.179 1/1:136:0,132,4:0:0:132,4:4619,144:-312.639,-39.736,0,-300.901,-27.6406,-299.697 1/1:109:0,109,0:0:0:109,0:3862,0:-249.848,-32.8123,0,-249.848,-32.8123,-249.848 chr08 1417536 . C A 32012.6 PASS AB=0.491922;ABP=4.41351;AC=13;AF=0.309524;AN=42;AO=1379;CIGAR=1X;DP=4354;DPB=4354;DPRA=1.30514;EPP=2997.47;EPPR=6456.63;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.992;MQMR=59.9973;NS=21;NUMALT=1;ODDS=20.8382;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49180;QR=105915;RO=2972;RPL=831;RPP=129.124;RPPR=202.099;RPR=548;RUN=1;SAF=831;SAP=129.124;SAR=548;SRF=1747;SRP=202.099;SRR=1225;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:214:92,122:92:3282:122:4338:-326.172,0,-231.179 0/1:236:134,102:134:4774:102:3644:-257.122,0,-358.775 0/1:210:104,106:104:3717:106:3782:-277.363,0,-271.514 0/1:272:105,167:105:3771:167:5960:-454.627,0,-257.707 0/1:493:241,252:241:8528:252:9008:-662.289,0,-619.118 0/0:207:205,0:205:7303:0:0:0,-61.7111,-656.962 0/0:338:338,0:338:12043:0:0:0,-101.748,-1083.72 1/1:156:0,156:0:0:156:5550:-499.624,-46.9607,0 0/1:338:175,163:175:6224:163:5812:-421.445,0,-458.51 0/1:24:16,8:16:576:8:276:-17.9505,0,-44.9503 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/1:64:39,25:39:1391:25:881:-60.3399,0,-106.222 0/0:313:312,1:312:11159:1:36:0,-90.6241,-1000.6 0/1:281:151,129:151:5332:129:4604:-329.986,0,-395.476 0/0:241:241,0:241:8594:0:0:0,-72.5482,-773.457 0/0:139:139,0:139:4966:0:0:0,-41.8432,-447.089 0/0:168:168,0:168:6019:0:0:0,-50.573,-541.813 0/1:191:97,94:97:3456:94:3345:-243.771,0,-253.757 0/1:153:103,50:103:3692:50:1800:-116.225,0,-286.425 0/0:203:199,4:199:7070:4:144:0,-47.7955,-623.048 0/0:91:91,0:91:3226:0:0:0,-27.3937,-290.559 chr08 1417554 . C T 21834.3 PASS AB=0.489407;ABP=3.93042;AC=29;AF=0.690476;AN=42;AO=1102;CIGAR=1X;DP=1649;DPB=1649;DPRA=1.27984;EPP=2387.29;EPPR=1190.81;GTI=0;LEN=1;MEANALT=1;MQM=59.9891;MQMR=60;NS=21;NUMALT=1;ODDS=10.3489;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38522;QR=19432;RO=547;RPL=4;RPP=2361.36;RPPR=1173.5;RPR=1098;RUN=1;SAF=3;SAP=2369.99;SAR=1099;SRF=2;SRP=1173.5;SRR=545;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:56,48:56:1990:48:1653:-117.746,0,-148.066 0/1:77:42,35:42:1495:35:1240:-88.7251,0,-111.664 0/1:96:49,47:49:1756:47:1659:-120.698,0,-129.425 0/1:79:49,30:49:1743:30:1041:-70.2155,0,-133.372 0/1:193:102,91:102:3597:91:3194:-229.587,0,-265.838 1/1:64:0,64:0:0:64:2206:-198.804,-19.2659,0 1/1:118:0,118:0:0:118:4121:-371.081,-35.5215,0 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 0/1:126:58,68:58:2049:68:2404:-178.688,0,-146.75 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 1/1:14:0,14:0:0:14:483:-43.7973,-4.21442,0 0/1:19:11,8:11:392:8:284:-20.1838,0,-29.9005 1/1:115:0,115:0:0:115:4072:-366.671,-34.6185,0 0/1:90:51,39:51:1832:39:1339:-93.7084,0,-138.068 1/1:108:0,108:0:0:108:3772:-339.683,-32.5112,0 1/1:47:1,46:1:36:46:1624:-142.851,-10.5501,0 1/1:53:1,52:1:36:52:1774:-156.338,-12.3563,0 0/1:92:44,48:44:1530:48:1686:-124.33,0,-110.293 0/1:62:18,44:18:648:44:1515:-117.972,0,-39.988 1/1:80:1,79:1:36:79:2772:-246.124,-20.4841,0 1/1:44:0,44:0:0:44:1543:-139.154,-13.2453,0 chr08 1417574 . C T 25850.2 PASS AB=0.521113;ABP=7.04482;AC=29;AF=0.690476;AN=42;AO=1264;CIGAR=1X;DP=1827;DPB=1827;DPRA=1.4;EPP=2739.07;EPPR=1216.88;GTI=0;LEN=1;MEANALT=1;MQM=59.9834;MQMR=60;NS=21;NUMALT=1;ODDS=5.0462;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45050;QR=20021;RO=563;RPL=1263;RPP=2739.07;RPPR=1216.88;RPR=1;RUN=1;SAF=0;SAP=2747.75;SAR=1264;SRF=0;SRP=1225.55;SRR=563;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:60,56:60:2126:56:2003:-145.624,0,-156.685 0/1:85:44,41:44:1561:41:1468:-106.829,0,-115.192 0/1:106:50,56:50:1781:56:1982:-146.742,0,-128.662 0/1:82:47,35:47:1688:35:1226:-85.9553,0,-127.522 0/1:208:108,100:108:3846:100:3566:-258.526,0,-283.72 1/1:72:0,72:0:0:72:2554:-230.108,-21.6742,0 1/1:132:0,132:0:0:132:4721:-425.048,-39.736,0 0/0:63:63,0:63:2245:0:0:0,-18.9649,-202.312 0/1:143:60,83:60:2096:83:2953:-222.956,0,-145.856 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 0/1:21:11,10:11:396:10:356:-26.0596,0,-29.6611 1/1:137:0,137:0:0:137:4855:-437.102,-41.2411,0 0/1:104:54,50:54:1906:50:1796:-130.611,0,-140.507 1/1:117:0,117:0:0:117:4185:-376.83,-35.2205,0 1/1:53:0,53:0:0:53:1908:-171.998,-15.9546,0 1/1:59:0,59:0:0:59:2112:-190.349,-17.7608,0 0/1:100:45,55:45:1620:55:1957:-146.301,0,-115.987 0/1:69:18,51:18:648:51:1832:-144.39,0,-37.8808 1/1:88:1,87:1:36:87:3083:-274.096,-22.8924,0 1/1:49:0,49:0:0:49:1741:-156.968,-14.7505,0 chr08 1473346 . CACA CACC,TACC 14649.8 PASS AB=0.476596,0.523404;ABP=5.24645,5.24645;AC=29,13;AF=0.690476,0.309524;AN=42;AO=473,299;CIGAR=3M1X,1X2M1X;DP=773;DPB=773;DPRA=0.679245,1.569;EPP=1030.12,652.281;EPPR=0;GTI=2;LEN=1,4;MEANALT=1.6,1.91667;MQM=59.9408,59.8395;MQMR=0;NS=21;NUMALT=2;ODDS=0.523526;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=15400,10403;QR=0;RO=0;RPL=473,299;RPP=1030.12,652.281;RPPR=0;RPR=0,0;RUN=1,1;SAF=473,299;SAP=1030.12,652.281;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:36:0,13,23:0:0:13,23:433,792:-99.7108,-64.6723,-60.7589,-35.3756,0,-28.4519 1/2:13:0,4,9:0:0:4,9:136,312:-36.7356,-25.7061,-24.502,-11.3714,0,-8.66215 1/2:40:0,23,17:0:0:23,17:736,601:-108.579,-49.3022,-42.3785,-59.6163,0,-54.4988 1/2:31:0,12,19:0:0:12,19:407,663:-87.2747,-54.2743,-50.662,-33.3431,0,-27.6236 1/2:77:0,40,37:0:0:40,37:1256,1297:-206.842,-105.893,-93.8518,-101.282,0,-90.144 1/1:28:0,28,0:0:0:28,0:941,0:-84.9934,-8.42884,0,-84.9934,-8.42884,-84.9934 1/1:49:0,49,0:0:0:49,0:1580,0:-142.478,-14.7505,0,-142.478,-14.7505,-142.478 2/2:53:0,0,53:0:0:0,53:0,1836:-165.448,-165.448,-165.448,-15.9546,-15.9546,0 1/2:73:0,37,36:0:0:37,36:1218,1265:-201.751,-103.316,-92.1776,-98.7759,0,-87.9388 1/2:13:0,2,11:0:0:2,11:63,395:-37.6403,-32.5808,-31.9788,-5.38109,0,-2.06976 1/1:6:0,6,0:0:0:6,0:193,0:-17.6856,-1.80618,0,-17.6856,-1.80618,-17.6856 1/2:12:0,2,10:0:0:2,10:72,338:-33.6151,-27.7366,-27.1346,-6.23466,0,-3.22436 1/1:26:0,26,0:0:0:26,0:871,0:-78.6971,-7.82678,0,-78.6971,-7.82678,-78.6971 1/2:27:0,16,11:0:0:16,11:530,394:-75.3423,-32.4902,-27.6738,-43.1991,0,-39.8877 1/1:49:0,49,0:0:0:49,0:1632,0:-147.165,-14.7505,0,-147.165,-14.7505,-147.165 1/1:16:0,16,0:0:0:16,0:525,0:-47.5629,-4.81648,0,-47.5629,-4.81648,-47.5629 1/1:14:0,13,0:0:0:13,0:409,0:-36.7568,-3.91339,0,-36.7568,-3.91339,-36.7568 1/2:103:0,48,55:0:0:48,55:1515,1885:-275.133,-153.282,-138.833,-122.179,0,-105.623 1/2:45:0,27,18:0:0:27,18:893,625:-123.362,-51.1557,-43.0279,-72.5471,0,-67.1286 1/1:25:0,25,0:0:0:25,0:791,0:-71.4465,-7.52575,0,-71.4465,-7.52575,-71.4465 1/1:37:0,37,0:0:0:37,0:1199,0:-108.201,-11.1381,0,-108.201,-11.1381,-108.201 chr08 1473457 . T C 12183.9 PASS AB=0.505495;ABP=3.15347;AC=26;AF=0.619048;AN=42;AO=619;CIGAR=1X;DP=967;DPB=967;DPRA=1.30848;EPP=1347.15;EPPR=756.511;GTI=1;LEN=1;MEANALT=1.05263;MQM=55.4071;MQMR=59.5187;NS=21;NUMALT=1;ODDS=3.37215;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22047;QR=12377;RO=347;RPL=0;RPP=1347.15;RPPR=756.511;RPR=619;RUN=1;SAF=0;SAP=1347.15;SAR=619;SRF=0;SRP=756.511;SRR=347;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:20,17:20:716:17:608:-43.8211,0,-53.6249 0/1:25:16,9:16:568:9:315:-21.017,0,-43.9117 0/1:38:15,23:15:532:23:824:-62.9487,0,-36.5806 0/1:67:41,26:41:1464:26:927:-63.3951,0,-111.87 0/1:96:51,45:51:1820:45:1607:-115.728,0,-135.165 1/1:22:0,22:0:0:22:788:-69.1068,-6.62266,0 1/1:69:0,69:0:0:69:2450:-218.146,-20.7711,0 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.775 0/1:76:31,45:31:1108:45:1616:-122.731,0,-77.1509 0/0:7:7,0:7:233:0:0:0,-2.10721,-21.2943 0/1:10:1,9:1:36:9:320:-25.6796,0,-0.587975 0/1:12:6,6:6:216:6:216:-15.9136,0,-15.985 1/1:118:3,115:3:108:115:4093:-357.353,-25.4464,0 0/1:16:8,8:8:288:8:288:-21.3609,0,-21.4509 1/1:43:0,43:0:0:43:1532:-137.293,-12.9443,0 1/1:17:0,17:0:0:17:604:-54.6811,-5.11751,0 0/1:17:3,14:3:108:14:500:-39.7658,0,-4.89965 0/1:87:49,37:49:1748:37:1307:-91.3862,0,-131.345 0/1:65:28,37:28:996:37:1314:-98.9488,0,-70.3856 1/1:41:3,38:3:108:38:1355:-112.022,-2.26706,0 1/1:39:0,39:0:0:39:1383:-123.677,-11.7402,0 chr08 1520144 . A G 5870.67 PASS AB=0.460064;ABP=11.6823;AC=13;AF=0.309524;AN=42;AO=345;CIGAR=1X;DP=1105;DPB=1105;DPRA=1.29967;EPP=752.168;EPPR=1653.33;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.18155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12343;QR=27144;RO=760;RPL=0;RPP=752.168;RPPR=1653.33;RPR=345;RUN=1;SAF=345;SAP=752.168;SAR=0;SRF=760;SRP=1653.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:48,36:48:1720:36:1292:-91.2972,0,-129.799 0/1:46:19,27:19:665:27:955:-72.4175,0,-46.3254 0/1:72:32,40:32:1121:40:1421:-106.511,0,-79.5216 0/1:62:41,21:41:1476:21:752:-49.3424,0,-114.472 0/1:75:46,29:46:1644:29:1040:-71.3371,0,-125.671 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 0/0:54:54,0:54:1917:0:0:0,-16.2556,-172.805 1/1:55:0,55:0:0:55:1967:-177.305,-16.5567,0 0/1:83:42,41:42:1497:41:1472:-107.791,0,-110.037 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:13:7,6:7:248:6:216:-15.8771,0,-18.7508 0/0:74:74,0:74:2664:0:0:0,-22.2762,-240.005 0/1:83:51,32:51:1836:32:1144:-78.2835,0,-140.535 0/0:91:91,0:91:3234:0:0:0,-27.3937,-291.28 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:24:24,0:24:849:0:0:0,-7.22472,-76.7278 0/1:75:34,41:34:1205:41:1472:-110.199,0,-86.1766 0/1:29:17,12:17:612:12:432:-30.4913,0,-46.6836 0/0:71:70,1:70:2508:1:36:0,-17.7749,-222.374 0/0:46:45,1:45:1620:1:36:0,-10.2491,-142.492 chr08 1540707 . ATGGC ATGAC,TTGAA 74404.1 PASS AB=0.715311,0.281499;ABP=507.956,523.028;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2272,595;CIGAR=3M1X1M,1X2M2X;DP=2877;DPB=2877;DPRA=0.541975,0.813559;EPP=4936.6,1295.04;EPPR=5.18177;GTI=3;LEN=1,5;MEANALT=1.95,2.30769;MQM=59.9463,59.1613;MQMR=60;NS=21;NUMALT=2;ODDS=0.246788;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80439,20619;QR=36;RO=1;RPL=1201,0;RPP=19.1625,1295.04;RPPR=5.18177;RPR=1071,595;RUN=1,1;SAF=1201,0;SAP=19.1625,1295.04;SAR=1071,595;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:132:0,93,39:0:0:93,39:3290,1360:-378.918,-110.943,-82.9473,-268.325,0,-256.585 1/2:137:0,74,63:0:0:74,63:2625,2215:-394.394,-180.526,-158.25,-214.221,0,-195.256 1/2:100:0,85,15:0:0:85,15:3036,534:-291.291,-43.8785,-18.2909,-247.769,0,-243.253 1/2:108:0,74,33:0:0:74,33:2641,1138:-307.513,-92.2026,-69.9263,-215.309,0,-205.375 1/2:157:0,119,38:0:0:119,38:4179,1313:-447.143,-107.02,-71.1979,-340.469,0,-329.03 1/1:171:0,171,0:0:0:171,0:6057,0:-545.237,-51.4761,0,-545.237,-51.4761,-545.237 1/1:138:0,137,0:0:0:137,0:4854,0:-436.658,-41.2411,0,-436.658,-41.2411,-436.658 2/2:243:0,0,241:0:0:0,241:0,8279:-744.38,-744.38,-744.38,-72.5482,-72.5482,0 1/2:195:0,145,49:0:0:145,49:5161,1712:-559.902,-139.274,-95.6246,-420.726,0,-405.976 1/2:14:0,9,5:0:0:9,5:324,175:-41.0265,-14.5833,-11.874,-26.7966,0,-25.2914 1/1:23:0,23,0:0:0:23,0:801,0:-72.4067,-6.92369,0,-72.4067,-6.92369,-72.4067 1/2:69:0,53,16:0:0:53,16:1881,566:-199.708,-46.4498,-30.4952,-153.612,0,-148.796 1/1:204:0,204,0:0:0:204,0:7166,0:-645.008,-61.4101,0,-645.008,-61.4101,-645.008 1/2:108:0,86,21:0:0:86,21:3038,727:-306.53,-59.16,-33.2714,-247.455,0,-241.133 1/1:288:0,286,0:0:0:286,0:10184,0:-916.19,-86.0946,0,-916.19,-86.0946,-916.19 1/1:141:0,140,1:0:0:140,1:4988,36:-448.71,-42.1442,0,-445.773,-38.848,-445.472 1/1:99:0,99,0:0:0:99,0:3510,0:-316.112,-29.802,0,-316.112,-29.802,-316.112 1/2:117:0,62,55:0:0:62,55:2189,1905:-333.148,-154.887,-136.223,-178.611,0,-162.054 1/2:117:1,97,19:1:36:97,19:3411,659:-327.699,-50.6137,-24.3519,-274.437,0,-271.655 1/1:233:0,232,0:0:0:232,0:8148,0:-732.923,-69.839,0,-732.923,-69.839,-732.923 1/1:83:0,83,0:0:0:83,0:2956,0:-266.275,-24.9855,0,-266.275,-24.9855,-266.275 chr08 1569999 . 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T A 42436.2 PASS AB=0.547877;ABP=26.9218;AC=29;AF=0.690476;AN=42;AO=1736;CIGAR=1X;DP=2416;DPB=2416;DPRA=0;EPP=3764.01;EPPR=1464.41;GTI=0;LEN=1;MEANALT=1.2381;MQM=59.7097;MQMR=59.8648;NS=21;NUMALT=1;ODDS=15.6764;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60641;QR=23624;RO=673;RPL=354;RPP=1324.89;RPPR=400.525;RPR=1382;RUN=1;SAF=353;SAP=1330.04;SAR=1383;SRF=161;SRP=400.525;SRR=512;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:70,75:70:2440:75:2565:-187.446,0,-176.204 0/1:67:33,34:33:1163:34:1209:-88.9206,0,-84.8071 0/1:83:36,46:36:1225:46:1564:-115.995,0,-85.2309 0/1:171:84,87:84:2998:87:3022:-220.718,0,-218.575 0/1:202:90,111:90:3154:111:3863:-287.027,0,-223.259 1/1:128:0,128:0:0:128:4479:-403.182,-38.5318,0 1/1:183:0,183:0:0:183:6409:-576.87,-55.0885,0 0/0:126:124,1:124:4343:1:36:0,-34.3153,-387.525 0/1:166:71,95:71:2516:95:3293:-246.483,0,-176.719 0/1:8:5,3:5:176:3:104:-7.29457,0,-13.7768 1/1:8:0,8:0:0:8:276:-25.1752,-2.40824,0 0/1:45:20,25:20:708:25:879:-65.8712,0,-50.4992 1/1:206:0,206:0:0:206:7179:-646.116,-62.0122,0 0/1:111:52,59:52:1842:59:2096:-155.456,0,-131.787 1/1:206:1,202:1:32:202:7097:-635.54,-58.2363,0 1/1:47:0,47:0:0:47:1676:-151.125,-14.1484,0 1/1:94:5,88:5:180:88:3118:-264.187,-11.8036,0 0/1:126:53,73:53:1828:73:2490:-186.412,0,-126.866 0/1:77:27,50:27:947:50:1722:-131.89,0,-62.3645 1/1:141:2,139:2:72:139:4883:-432.755,-35.6085,0 1/1:76:0,76:0:0:76:2681:-241.524,-22.8783,0 chr08 1570081 . GACCC AACCT,AACCC 40184.9 PASS AB=0.565264,0.433657;ABP=37.3064,38.4496;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1429,495;CIGAR=1X3M1X,1X4M;DP=1926;DPB=1927.2;DPRA=0,0.862093;EPP=3106.04,1077.89;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.7619,2.14286;MQM=59.7348,60;MQMR=0;NS=21;NUMALT=2;ODDS=11.1911;PAIRED=0,0;PAIREDR=0;PAO=3,3;PQA=86,86;PQR=0;PRO=0;QA=49892,17632;QR=0;RO=0;RPL=1429,495;RPP=3106.04,1077.89;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3106.04,1077.89;SAR=1429,495;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:104:0,55,49:0:0:55,49:1937,1748:-300.544,-142.854,-126.297,-158.044,0,-143.294 1/2:53:0,31,22:0:0:31,22:1098,762:-151.692,-62.2724,-52.9405,-89.769,0,-83.1464 1/2:54:0,32,22:0:0:32,22:1116,788:-155.383,-64.6221,-54.9892,-91.1147,0,-84.492 1/2:149:0,76,73:0:0:76,73:2675,2574:-427.636,-209.873,-186.995,-218.056,0,-196.08 1/2:172:0,98,74:0:0:98,74:3386,2629:-489.68,-214.58,-185.079,-275.451,0,-253.175 1/1:104:0,104,0:0:0:104,0:3628,0:-326.715,-31.3071,0,-326.715,-31.3071,-326.715 1/1:151:0,151,0:0:0:151,0:5287,0:-475.881,-45.4555,0,-475.881,-45.4555,-475.881 2/2:88:0,1,87:0:0:1,87:36,3107:-279.439,-276.501,-276.2,-26.1896,-22.8924,0 1/2:133:0,80,52:0:0:80,52:2761,1872:-377.085,-152.893,-128.81,-224.333,0,-208.679 1/2:7:0,2,5:0:0:2,5:69,180:-20.6482,-15.0469,-14.4449,-5.95048,0,-4.44533 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:27:0,18,9:0:0:18,9:624,324:-77.4426,-26.7431,-21.3245,-51.0026,0,-48.2933 1/1:172:0,172,0:0:0:172,0:5979,0:-538.194,-51.7772,0,-538.194,-51.7772,-538.194 1/2:101:0,54,47:0:0:54,47:1884,1680:-290.563,-137.339,-121.083,-153.578,0,-139.43 1/1:163:0,163,0:0:0:163,0:5695,0:-512.607,-49.0679,0,-512.607,-49.0679,-512.607 1/1:45:0,45,0:0:0:45,0:1590,0:-143.388,-13.5464,0,-143.388,-13.5464,-143.388 1/1:87:0,82,4:0:0:82,4:2837,144:-255.193,-24.6845,0,-243.443,-12.9348,-242.238 1/2:75:0,43,32:0:0:43,32:1505,1148:-216.428,-93.9969,-81.0526,-122.786,0,-113.153 1/2:52:0,35,17:0:0:35,17:1230,608:-150.046,-49.9345,-39.3985,-100.467,0,-95.3492 1/1:117:0,115,2:0:0:115,2:4032,68:-362.695,-34.6185,0,-357.18,-28.7929,-356.577 1/1:68:0,68,0:0:0:68,0:2379,0:-214.13,-20.47,0,-214.13,-20.47,-214.13 chr08 1613663 . G A 5599.27 PASS AB=0.37037;ABP=109.412;AC=13;AF=0.309524;AN=42;AO=351;CIGAR=1X;DP=1419;DPB=1419;DPRA=0.9752;EPP=765.197;EPPR=2322.14;GTI=0;LEN=1;MEANALT=1;MQM=59.5128;MQMR=59.9785;NS=21;NUMALT=1;ODDS=11.2238;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12544;QR=38069;RO=1068;RPL=0;RPP=765.197;RPPR=2322.14;RPR=351;RUN=1;SAF=0;SAP=765.197;SAR=351;SRF=0;SRP=2322.14;SRR=1068;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:47,22:47:1673:22:788:-50.4337,0,-130.084 0/1:49:21,28:21:744:28:1004:-75.8901,0,-52.5339 0/1:64:45,19:45:1608:19:684:-42.6244,0,-125.744 0/1:70:42,28:42:1504:28:996:-68.8737,0,-114.582 0/1:118:72,46:72:2563:46:1636:-111.95,0,-195.399 0/0:64:64,0:64:2288:0:0:0,-19.2659,-206.182 0/0:138:138,0:138:4920:0:0:0,-41.5421,-442.764 1/1:78:0,78:0:0:78:2795:-251.722,-23.4803,0 0/1:106:72,34:72:2546:34:1209:-77.1873,0,-197.482 0/1:6:1,5:1:32:5:176:-14.3788,0,-1.39313 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:11:5,6:5:180:6:212:-16.1135,0,-13.2407 0/0:67:67,0:67:2381:0:0:0,-20.169,-214.546 0/1:98:66,32:66:2368:32:1144:-73.7118,0,-183.877 0/0:92:92,0:92:3270:0:0:0,-27.6948,-294.521 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/0:72:72,0:72:2563:0:0:0,-21.6742,-230.92 0/1:84:48,36:48:1713:36:1288:-90.9146,0,-129.167 0/1:54:40,14:40:1419:14:504:-29.4425,0,-111.751 0/0:63:60,3:60:2137:3:108:0,-8.88972,-182.521 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 chr08 1613668 . 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T G 7313.35 PASS AB=0.368056;ABP=111.886;AC=13;AF=0.309524;AN=42;AO=344;CIGAR=1X;DP=1419;DPB=1419;DPRA=0.946746;EPP=4.24753;EPPR=116.47;GTI=0;LEN=1;MEANALT=1;MQM=59.468;MQMR=59.9786;NS=21;NUMALT=1;ODDS=13.4424;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12112;QR=38511;RO=1075;RPL=179;RPP=4.24753;RPPR=116.47;RPR=165;RUN=1;SAF=0;SAP=749.997;SAR=344;SRF=0;SRP=2337.34;SRR=1075;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:49,22:49:1752:22:775:-48.6411,0,-136.591 0/1:50:23,27:23:828:27:964:-71.9901,0,-59.7926 0/1:63:44,19:44:1580:19:680:-42.5643,0,-123.527 0/1:71:41,30:41:1476:30:1065:-74.7642,0,-111.763 0/1:115:71,44:71:2556:44:1554:-105.503,0,-195.671 0/0:67:67,0:67:2392:0:0:0,-20.169,-215.537 0/0:139:139,0:139:4992:0:0:0,-41.8432,-449.236 1/1:76:0,76:0:0:76:2648:-238.524,-22.8783,0 0/1:103:70,33:70:2484:33:1155:-73.2424,0,-192.806 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:5,5:5:180:5:163:-11.9811,0,-13.5418 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.691 0/1:92:62,30:62:2201:30:1060:-67.9933,0,-170.659 0/0:92:92,0:92:3285:0:0:0,-27.6948,-295.868 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.093 0/0:74:74,0:74:2652:0:0:0,-22.2762,-238.926 0/1:87:49,38:49:1764:38:1332:-93.9761,0,-132.854 0/1:52:40,12:40:1432:12:428:-23.2052,0,-113.524 0/0:64:61,3:61:2181:3:108:0,-9.19075,-186.479 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 chr08 1633000 . 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ATTTAC ATTAC 57470.9 PASS AB=0.490815;ABP=4.56603;AC=29;AF=0.690476;AN=42;AO=2863;CIGAR=1M1D4M;DP=4067;DPB=3589.17;DPRA=1.94363;EPP=6219.94;EPPR=2589.23;GTI=0;LEN=1;MEANALT=1.55;MQM=49.1443;MQMR=59.89;NS=21;NUMALT=1;ODDS=19.9772;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=101015;QR=41609;RO=1191;RPL=2863;RPP=6219.94;RPPR=2589.23;RPR=0;RUN=1;SAF=2863;SAP=6219.94;SAR=0;SRF=1191;SRP=2589.23;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:249:139,110:139:4860:110:3874:-271.487,0,-362.605 0/1:174:86,88:86:2996:88:3113:-226.675,0,-217.483 0/1:85:34,49:34:1213:49:1721:-128.859,0,-84.17 0/1:228:97,131:97:3403:131:4614:-344.428,0,-237.854 0/1:425:234,191:234:8162:191:6680:-469.108,0,-606.676 1/1:134:4,130:4:139:130:4557:-395.39,-27.49,0 1/1:278:2,276:2:72:276:9743:-864.807,-76.8496,0 0/0:102:102,0:102:3541:0:0:0,-30.7051,-318.906 0/1:366:211,153:211:7418:153:5400:-372.543,0,-557.76 0/1:16:10,6:10:348:6:201:-13.5303,0,-26.8382 1/1:5:0,5:0:0:5:176:-16.1373,-1.50515,0 0/1:72:35,36:35:1231:36:1234:-89.1891,0,-89.4074 1/1:377:3,372:3:108:372:13190:-1168.16,-103.148,0 0/1:281:114,165:114:3942:165:5790:-433.668,0,-270.727 1/1:302:0,302:0:0:302:10669:-953.53,-90.9111,0 1/1:241:0,241:0:0:241:8536:-762.282,-72.5482,0 1/1:258:2,253:2:71:253:8986:-796.035,-70.3648,0 0/1:128:79,49:79:2766:49:1715:-114.61,0,-210.652 0/1:99:34,64:34:1160:64:2245:-170.974,0,-74.8394 1/1:192:5,187:5:179:187:6630:-577.173,-41.3374,0 1/1:55:0,55:0:0:55:1941:-174.217,-16.5567,0 chr08 1754337 . GATTCATTTTTCA CAATCCTTTTCA,CAATCATTTTCA 57840.3 PASS AB=0.485794,0.506407;ABP=6.15682,3.65025;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2021,1113;CIGAR=1X1M1X2M1D1X6M,1X1M1X3M1D6M;DP=3160;DPB=2916.69;DPRA=0.74397,1.46615;EPP=4391.56,2402.52;EPPR=0;GTI=1;LEN=12,12;MEANALT=2.75,3;MQM=34.6091,47.7179;MQMR=0;NS=21;NUMALT=2;ODDS=3.16199;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68642,39323;QR=0;RO=0;RPL=2021,1111;RPP=4391.56,2402.52;RPPR=0;RPR=0,2;RUN=1,1;SAF=0,0;SAP=4391.56,2419.86;SAR=2021,1113;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:154:0,66,87:0:0:66,87:2282,3072:-417.451,-248.35,-228.482,-169.211,0,-143.021 1/2:153:0,82,70:0:0:82,70:2569,2496:-384.37,-199.926,-175.242,-184.473,0,-163.401 1/2:147:0,80,67:0:0:80,67:2822,2356:-399.684,-190.781,-166.699,-209.24,0,-189.071 1/2:223:0,99,122:0:0:99,122:3484,4323:-607.314,-349.352,-319.55,-258.026,0,-221.3 1/2:407:0,173,233:0:0:173,233:6092,8194:-1111.74,-660.285,-608.207,-451.463,0,-381.323 1/1:111:0,109,1:0:0:109,1:3389,36:-275.887,-32.8123,0,-272.994,-29.8322,-272.693 1/1:206:0,205,1:0:0:205,1:6385,36:-519.599,-61.7112,0,-516.706,-58.4637,-516.405 2/2:199:0,0,195:0:0:0,195:0,6873:-611.465,-611.465,-611.465,-58.7009,-58.7009,0 1/2:259:0,150,106:0:0:150,106:5255,3769:-705.454,-305.189,-260.035,-400.32,0,-368.411 1/2:6:0,2,4:0:0:2,4:68,144:-16.937,-11.9762,-11.3741,-5.28615,0,-4.08203 1/1:5:0,5,0:0:0:5,0:159,0:-13.2873,-1.50515,0,-13.2873,-1.50515,-13.2873 1/2:23:0,13,10:0:0:13,10:431,359:-60.5251,-29.1983,-25.2849,-31.6579,0,-28.6476 1/1:176:0,173,1:0:0:173,1:6076,36:-502.244,-52.0782,0,-499.324,-49.109,-499.023 1/2:159:0,56,102:0:0:56,102:1935,3622:-436.063,-293.139,-276.281,-143.031,0,-112.326 1/1:228:0,226,0:0:0:226,0:7868,0:-649.401,-68.0328,0,-649.401,-68.0328,-649.401 1/1:123:0,120,1:0:0:120,1:4227,36:-357.385,-36.1236,0,-354.455,-33.1547,-354.154 1/1:128:0,127,0:0:0:127,0:4482,0:-379.645,-38.2308,0,-379.645,-38.2308,-379.645 1/2:164:0,80,79:0:0:80,79:2655,2771:-416.484,-222.855,-198.773,-193.724,0,-169.942 1/2:100:0,71,29:0:0:71,29:2471,1020:-265.231,-82.3608,-60.9877,-183.21,0,-174.48 1/1:113:0,108,5:0:0:108,5:3609,180:-296.232,-32.5112,0,-281.684,-17.6091,-280.179 1/1:76:0,76,0:0:0:76,0:2383,0:-194.218,-22.8783,0,-194.218,-22.8783,-194.218 chr08 1754427 . A G 23524.7 PASS AB=0.478712;ABP=10.5913;AC=13;AF=0.309524;AN=42;AO=1056;CIGAR=1X;DP=3705;DPB=3705;DPRA=1.21294;EPP=2296.09;EPPR=5746.56;GTI=0;LEN=1;MEANALT=1;MQM=59.9612;MQMR=59.9913;NS=21;NUMALT=1;ODDS=23.9588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37216;QR=94624;RO=2649;RPL=704;RPP=257.796;RPPR=544.828;RPR=352;RUN=1;SAF=704;SAP=257.796;SAR=352;SRF=1730;SRP=542.166;SRR=919;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:71,87:71:2552:87:3085:-230.317,0,-182.367 0/1:208:128,80:128:4584:80:2818:-191.244,0,-350.111 0/1:135:60,75:60:2143:75:2661:-199.096,0,-152.498 0/1:234:117,117:117:4175:117:4115:-300.095,0,-305.49 0/1:322:176,146:176:6290:146:5131:-364.974,0,-469.262 0/0:225:222,3:222:7899:3:97:0,-58.6818,-701.821 0/0:319:318,1:318:11347:1:36:0,-92.4303,-1017.51 1/1:126:0,126:0:0:126:4419:-397.876,-37.9298,0 0/1:239:127,112:127:4520:112:3955:-284.197,0,-335.022 0/1:42:22,20:22:788:20:696:-50.3173,0,-58.6015 0/0:8:8,0:8:276:0:0:0,-2.40824,-25.1752 0/1:72:33,39:33:1188:39:1365:-101.472,0,-85.5544 0/0:195:194,1:194:6908:1:36:0,-55.1026,-618.191 0/1:223:115,108:115:4128:108:3831:-277.857,0,-304.573 0/0:352:352,0:352:12610:0:0:0,-105.963,-1134.72 0/0:140:140,0:140:5000:0:0:0,-42.1442,-450.146 0/0:141:141,0:141:5052:0:0:0,-42.4452,-454.825 0/1:159:72,87:72:2562:87:3056:-227.404,0,-182.966 0/1:134:83,51:83:2955:51:1807:-122.573,0,-225.846 0/0:155:152,3:152:5432:3:108:0,-36.5845,-478.935 0/0:118:118,0:118:4215:0:0:0,-35.5215,-379.531 chr08 1762683 . A G 9906.18 PASS AB=0.489623;ABP=4.0018;AC=13;AF=0.309524;AN=42;AO=580;CIGAR=1X;DP=1946;DPB=1946;DPRA=1.01171;EPP=1262.46;EPPR=2967.07;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9052;MQMR=59.9451;NS=21;NUMALT=1;ODDS=17.9653;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20675;QR=48856;RO=1365;RPL=0;RPP=1262.46;RPPR=2967.07;RPR=580;RUN=1;SAF=580;SAP=1262.46;SAR=0;SRF=1365;SRP=2967.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:60,48:60:2137:48:1698:-120.593,0,-159.811 0/1:54:28,25:28:1008:25:873:-62.5664,0,-74.7219 0/1:70:38,32:38:1353:32:1137:-81.5649,0,-100.996 0/1:150:80,70:80:2864:70:2508:-180.813,0,-212.831 0/1:231:90,141:90:3240:141:5048:-384.688,0,-222.282 0/0:92:89,3:89:3166:3:108:0,-17.6196,-274.31 0/0:167:167,0:167:5948:0:0:0,-50.272,-535.424 1/1:58:0,58:0:0:58:2058:-185.488,-17.4597,0 0/1:178:96,82:96:3448:82:2929:-210.26,0,-256.948 0/1:11:5,6:5:180:6:212:-16.1135,0,-13.2407 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:35:18,17:18:644:17:608:-44.516,0,-47.7545 0/0:93:93,0:93:3321:0:0:0,-27.9958,-299.107 0/1:67:35,32:35:1233:32:1148:-83.4608,0,-91.1031 0/0:70:70,0:70:2501:0:0:0,-21.0721,-225.341 0/0:104:104,0:104:3736:0:0:0,-31.3071,-336.439 0/0:96:96,0:96:3448:0:0:0,-28.8989,-310.532 0/1:80:35,45:35:1260:45:1604:-120.567,0,-89.6231 0/1:76:55,21:55:1976:21:744:-44.406,0,-155.236 0/0:142:142,0:142:5089:0:0:0,-42.7463,-458.151 0/0:50:50,0:50:1800:0:0:0,-15.0515,-162.282 chr08 1762696 . A T 9954.55 PASS AB=0.493359;ABP=3.4141;AC=13;AF=0.309524;AN=42;AO=578;CIGAR=1X;DP=1938;DPB=1938;DPRA=1.00282;EPP=1258.12;EPPR=2910.77;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9048;MQMR=59.9588;NS=21;NUMALT=1;ODDS=15.4869;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20686;QR=48547;RO=1359;RPL=0;RPP=1258.12;RPPR=2910.77;RPR=578;RUN=1;SAF=578;SAP=1258.12;SAR=0;SRF=1359;SRP=2954.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:59,49:59:2124:49:1764:-126.173,0,-158.287 0/1:52:28,24:28:974:24:857:-61.7939,0,-72.3146 0/1:69:38,31:38:1368:31:1116:-79.9806,0,-102.65 0/1:149:80,69:80:2880:69:2442:-175.179,0,-214.582 0/1:231:88,143:88:3148:143:5119:-391.273,0,-214.008 0/0:92:89,3:89:3166:3:108:0,-17.6196,-274.31 0/0:170:170,0:170:6112:0:0:0,-51.1751,-550.177 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 0/1:178:95,83:95:3404:83:2971:-214.039,0,-252.991 0/1:9:4,5:4:125:5:180:-13.8428,0,-8.84935 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:35:17,18:17:608:18:648:-48.1158,0,-44.516 0/0:92:92,0:92:3296:0:0:0,-27.6948,-296.859 0/1:67:34,33:34:1189:33:1169:-85.3463,0,-87.1439 0/0:71:71,0:71:2483:0:0:0,-21.3731,-223.72 0/0:104:104,0:104:3717:0:0:0,-31.3071,-334.73 0/0:95:95,0:95:3377:0:0:0,-28.5978,-304.146 0/1:80:35,45:35:1260:45:1612:-121.286,0,-89.6231 0/1:75:55,20:55:1972:20:720:-42.5515,0,-155.178 0/0:141:141,0:141:5048:0:0:0,-42.4452,-454.465 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 chr08 1762849 . T G 11621.9 PASS AB=0.330061;ABP=207.446;AC=29;AF=0.690476;AN=42;AO=652;CIGAR=1X;DP=1339;DPB=1339;DPRA=0.445926;EPP=1401.49;EPPR=1486.14;GTI=4;LEN=1;MEANALT=1;MQM=53.7423;MQMR=59.8093;NS=21;NUMALT=1;ODDS=1.81693;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22917;QR=24476;RO=687;RPL=0;RPP=1418.81;RPPR=3.39276;RPR=652;RUN=1;SAF=2;SAP=1401.49;SAR=650;SRF=350;SRP=3.54448;SRR=337;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:32,15:32:1125:15:531:-33.856,0,-87.4053 0/1:80:64,16:64:2279:16:558:-26.336,0,-181.288 0/1:32:20,12:20:716:12:416:-28.0223,0,-55.1277 0/1:78:61,17:61:2179:17:608:-31.3534,0,-172.893 0/1:105:67,38:67:2389:38:1340:-89.1518,0,-183.654 1/1:45:3,42:3:108:42:1496:-124.36,-3.47118,0 1/1:73:0,73:0:0:73:2544:-228.07,-21.9752,0 0/0:135:135,0:135:4805:0:0:0,-40.639,-432.576 0/1:109:74,35:74:2652:35:1252:-79.0664,0,-206.11 0/1:20:11,9:11:373:9:320:-22.9512,0,-27.87 1/1:6:0,6:0:0:6:212:-19.3743,-1.80618,0 0/1:31:15,16:15:540:16:561:-41.4072,0,-39.6031 1/1:45:0,45:0:0:45:1591:-142.816,-13.5464,0 0/1:80:57,23:57:2044:23:807:-48.7872,0,-160.147 1/1:75:0,75:0:0:75:2648:-238.01,-22.5773,0 1/1:14:0,14:0:0:14:487:-44.0632,-4.21442,0 1/1:28:1,27:1:36:27:948:-82.0019,-4.83057,0 0/1:139:90,49:90:3182:49:1707:-111.494,0,-244.748 0/1:94:55,39:55:1976:39:1369:-95.1064,0,-149.732 1/1:53:2,51:2:72:51:1806:-155.277,-9.11787,0 1/1:50:0,50:0:0:50:1716:-154.304,-15.0515,0 chr08 1762936 . C T 24723.3 PASS AB=0.528169;ABP=9.86114;AC=29;AF=0.690476;AN=42;AO=1205;CIGAR=1X;DP=1743;DPB=1743;DPRA=0;EPP=2619.63;EPPR=1169.09;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9751;MQMR=60;NS=21;NUMALT=1;ODDS=10.502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43139;QR=19228;RO=537;RPL=1205;RPP=2619.63;RPPR=1169.09;RPR=0;RUN=1;SAF=1205;SAP=2619.63;SAR=0;SRF=537;SRP=1169.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:60,31:60:2139:31:1116:-73.358,0,-165.384 0/1:86:33,53:33:1184:53:1903:-145.659,0,-80.9797 0/1:81:56,25:56:2016:25:892:-56.2163,0,-157.329 0/1:121:51,69:51:1819:69:2480:-187.09,0,-127.627 0/1:180:91,89:91:3272:89:3195:-233.587,0,-240.514 1/1:117:1,116:1:36:116:4156:-370.58,-31.6222,0 1/1:122:0,122:0:0:122:4356:-392.213,-36.7257,0 0/0:69:68,1:68:2431:1:36:0,-17.1728,-215.447 0/1:191:86,105:86:3080:105:3759:-281.012,0,-219.931 0/1:15:5,10:5:180:10:345:-26.8652,0,-12.0366 1/1:7:0,7:0:0:7:232:-21.2032,-2.10721,0 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 1/1:111:0,111:0:0:111:3977:-358.114,-33.4143,0 0/1:82:28,54:28:1008:54:1936:-149.832,0,-66.3519 1/1:98:0,98:0:0:98:3512:-316.29,-29.5009,0 1/1:80:0,80:0:0:80:2861:-257.726,-24.0824,0 1/1:45:0,45:0:0:45:1599:-144.199,-13.5464,0 0/1:67:33,34:33:1171:34:1224:-90.298,0,-85.5277 0/1:63:18,45:18:640:45:1612:-126.405,0,-38.9644 1/1:63:0,63:0:0:63:2260:-203.663,-18.9649,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 chr08 1768928 . G A 13394.7 PASS AB=0.496302;ABP=3.15483;AC=12;AF=0.285714;AN=42;AO=735;CIGAR=1X;DP=2321;DPB=2321;DPRA=1.03493;EPP=1547.35;EPPR=3309.39;GTI=0;LEN=1;MEANALT=1;MQM=59.9605;MQMR=60;NS=21;NUMALT=1;ODDS=0.435111;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26361;QR=56657;RO=1586;RPL=4;RPP=1564.49;RPPR=3334.97;RPR=731;RUN=1;SAF=733;SAP=1581.72;SAR=2;SRF=1583;SRP=3420.96;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:51,62:51:1811:62:2224:-166.138,0,-129.254 0/1:81:45,36:45:1603:36:1292:-92.2003,0,-120.176 0/1:82:55,27:55:1960:27:972:-63.1134,0,-151.991 0/1:150:48,102:48:1720:102:3664:-284.808,0,-109.931 0/1:227:114,113:114:4088:113:4037:-295.183,0,-299.771 0/0:121:121,0:121:4329:0:0:0,-36.4246,-389.784 0/0:212:212,0:212:7580:0:0:0,-63.8184,-682.238 1/1:126:0,126:0:0:126:4512:-406.248,-37.9298,0 0/1:234:103,131:103:3696:131:4700:-352.718,0,-262.401 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:45:29,16:29:1044:16:576:-38.6286,0,-80.7285 0/0:136:136,0:136:4844:0:0:0,-40.9401,-436.114 0/1:158:92,66:92:3273:66:2368:-165.815,0,-247.227 0/0:144:144,0:144:5142:0:0:0,-43.3483,-462.919 0/0:101:100,1:100:3569:1:36:0,-26.8058,-317.818 0/0:101:100,1:100:3564:1:36:0,-26.8058,-317.368 0/1:69:33,36:33:1165:36:1296:-96.1729,0,-84.3839 0/1:58:43,15:43:1548:15:540:-31.4734,0,-122.153 0/0:117:115,2:115:4105:2:72:0,-28.3838,-362.798 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 chr08 1768943 . T C 36608.6 PASS AB=0.50209;ABP=3.11017;AC=13;AF=0.309524;AN=42;AO=1591;CIGAR=1X;DP=4914;DPB=4914;DPRA=1.33517;EPP=3431.81;EPPR=7194.94;GTI=0;LEN=1;MEANALT=1.125;MQM=59.978;MQMR=59.9988;NS=21;NUMALT=1;ODDS=5.92608;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55350;QR=115598;RO=3320;RPL=724;RPP=30.9201;RPPR=28.652;RPR=867;RUN=1;SAF=723;SAP=31.7062;SAR=868;SRF=1559;SRP=29.6985;SRR=1761;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:263:135,128:135:4687:128:4467:-322.997,0,-342.83 0/1:169:84,85:84:2889:85:2981:-217.649,0,-209.373 0/1:235:118,117:118:4089:117:4065:-295.299,0,-297.46 0/1:314:127,187:127:4376:187:6500:-490.572,0,-299.498 0/1:503:255,248:255:8905:248:8594:-622.061,0,-650.039 0/0:211:211,0:211:7382:0:0:0,-63.5173,-664.445 0/0:350:350,0:350:12217:0:0:0,-105.36,-1099.41 1/1:260:0,260:0:0:260:9109:-819.801,-78.2678,0 0/1:484:220,262:220:7615:262:9128:-676.057,0,-539.957 0/1:32:15,17:15:536:17:591:-43.8823,0,-38.9419 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:75:43,31:43:1536:31:1077:-74.6004,0,-115.897 0/0:299:299,0:299:10383:0:0:0,-90.008,-934.421 0/1:314:170,144:170:5907:144:4977:-353.565,0,-437.23 0/0:426:425,1:425:14740:1:36:0,-124.64,-1322.8 0/0:195:194,1:194:6755:1:36:0,-55.1026,-604.446 0/0:204:202,2:202:7059:2:68:0,-54.9524,-628.931 0/1:151:74,77:74:2565:77:2639:-192.3,0,-185.644 0/1:91:66,25:66:2322:25:881:-52.2084,0,-181.847 0/0:266:260,6:260:9124:6:201:0,-61.6569,-802.739 0/0:67:67,0:67:2331:0:0:0,-20.169,-210.049 chr08 1803373 . TTCC CTCT 37379.6 PASS AB=0.527111;ABP=10.1926;AC=29;AF=0.690476;AN=42;AO=1790;CIGAR=1X2M1X;DP=2432;DPB=2432;DPRA=1.17828;EPP=3889.95;EPPR=1381.9;GTI=0;LEN=4;MEANALT=1.3;MQM=59.8888;MQMR=60;NS=21;NUMALT=1;ODDS=7.45601;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63713;QR=22329;RO=635;RPL=1790;RPP=3889.95;RPPR=1381.9;RPR=0;RUN=1;SAF=0;SAP=3889.95;SAR=1790;SRF=0;SRP=1381.9;SRR=635;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:69,61:69:2468:61:2175:-156.565,0,-182.93 0/1:141:68,73:68:2402:73:2612:-192.665,0,-173.992 0/1:127:65,62:65:2266:62:2183:-158.503,0,-165.971 0/1:103:46,57:46:1596:57:2035:-152.416,0,-112.92 0/1:230:110,120:110:3855:120:4269:-315.083,0,-277.912 1/1:81:5,76:5:179:76:2709:-227.587,-7.92304,0 1/1:192:0,191:0:0:191:6775:-609.405,-57.4967,0 0/0:99:99,0:99:3503:0:0:0,-29.802,-315.483 0/1:151:62,88:62:2173:88:3136:-236.953,0,-150.322 0/1:22:11,11:11:373:11:394:-29.1788,0,-27.2724 1/1:21:0,21:0:0:21:751:-67.9161,-6.32163,0 0/1:41:19,22:19:669:22:784:-58.542,0,-48.194 1/1:94:0,94:0:0:94:3346:-301.329,-28.2968,0 0/1:91:48,43:48:1680:43:1535:-111.049,0,-124.09 1/1:375:0,372:0:0:372:13255:-1192.38,-111.983,0 1/1:169:0,169:0:0:169:6005:-540.521,-50.8741,0 1/1:146:0,146:0:0:146:5172:-465.624,-43.9504,0 0/1:56:24,32:24:849:32:1140:-86.0492,0,-59.8717 0/1:32:8,24:8:280:24:864:-68.4496,0,-15.9063 1/1:90:1,89:1:36:89:3179:-282.737,-23.4944,0 1/1:40:0,39:0:0:39:1394:-125.399,-11.7402,0 chr08 1915714 . T C 8164.64 PASS AB=0.442822;ABP=14.6813;AC=29;AF=0.690476;AN=42;AO=417;CIGAR=1X;DP=686;DPB=686;DPRA=0.8075;EPP=908.514;EPPR=569.894;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.97879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14862;QR=9524;RO=269;RPL=0;RPP=908.514;RPPR=569.894;RPR=417;RUN=1;SAF=417;SAP=908.514;SAR=0;SRF=269;SRP=587.136;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:22,8:22:784:8:284:-16.8725,0,-61.853 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/1:50:22,28:22:780:28:992:-74.5429,0,-55.4715 0/1:26:14,12:14:496:12:428:-31.032,0,-37.1475 0/1:52:42,10:42:1500:10:342:-15.4555,0,-119.641 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 0/0:40:40,0:40:1396:0:0:0,-12.0412,-125.937 0/1:76:43,33:43:1525:33:1172:-82.9092,0,-114.663 0/1:17:7,10:7:248:10:352:-26.9007,0,-17.5467 1/1:6:0,6:0:0:6:215:-19.6992,-1.80618,0 0/1:45:27,18:27:950:18:648:-45.1055,0,-72.2671 1/1:69:0,69:0:0:69:2442:-220.033,-20.7711,0 0/1:44:23,21:23:824:21:756:-55.1219,0,-61.238 1/1:34:0,34:0:0:34:1207:-108.935,-10.235,0 1/1:7:0,7:0:0:7:244:-22.2994,-2.10721,0 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 0/1:36:12,24:12:413:24:860:-66.8848,0,-26.6607 0/1:24:14,10:14:500:10:360:-25.5196,0,-38.1115 1/1:38:0,38:0:0:38:1364:-123.061,-11.4391,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 chr08 1947432 . C A 15366.2 PASS AB=0.460674;ABP=12.5745;AC=29;AF=0.690476;AN=42;AO=772;CIGAR=1X;DP=1252;DPB=1252;DPRA=0.645556;EPP=1670.71;EPPR=1045.32;GTI=1;LEN=1;MEANALT=1;MQM=58.0997;MQMR=60;NS=21;NUMALT=1;ODDS=1.44907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27649;QR=17145;RO=480;RPL=771;RPP=1670.71;RPPR=1045.32;RPR=1;RUN=1;SAF=0;SAP=1679.39;SAR=772;SRF=0;SRP=1045.32;SRR=480;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:31,26:31:1112:26:932:-66.9413,0,-83.2326 0/1:61:33,28:33:1188:28:992:-71.1957,0,-88.8658 0/1:124:64,60:64:2281:60:2148:-156.133,0,-168.223 0/1:41:21,20:21:747:20:716:-50.4557,0,-55.2121 0/1:146:85,61:85:3028:61:2184:-152.713,0,-228.798 1/1:56:1,55:1:36:55:1961:-172.603,-13.2594,0 1/1:79:0,79:0:0:79:2822:-253.031,-23.7814,0 0/0:90:90,0:90:3217:0:0:0,-27.0927,-289.751 0/1:57:39,18:39:1389:18:644:-40.9223,0,-108.148 0/1:12:7,5:7:248:5:180:-12.9397,0,-19.0518 1/1:5:0,5:0:0:5:180:-16.4637,-1.50515,0 0/1:32:14,18:14:504:18:648:-49.0189,0,-36.0651 1/1:50:0,50:0:0:50:1787:-160.446,-15.0515,0 0/1:53:28,25:28:1004:25:896:-64.8819,0,-74.7213 1/1:83:0,83:0:0:83:2980:-267.733,-24.9855,0 1/1:30:0,30:0:0:30:1067:-96.259,-9.0309,0 1/1:36:2,34:2:72:34:1224:-103.379,-4.00036,0 0/1:70:41,29:41:1455:29:1044:-73.1128,0,-110.173 0/1:59:21,38:21:756:38:1364:-105.161,0,-50.6065 1/1:64:2,62:2:72:62:2228:-193.115,-12.4292,0 1/1:47:1,46:1:36:46:1652:-144.477,-10.5501,0 chr08 1947437 . C A 15470.4 PASS AB=0.469274;ABP=8.88177;AC=29;AF=0.690476;AN=42;AO=781;CIGAR=1X;DP=1259;DPB=1259;DPRA=0.641758;EPP=1698.93;EPPR=1040.97;GTI=1;LEN=1;MEANALT=1;MQM=58.0717;MQMR=60;NS=21;NUMALT=1;ODDS=0.910928;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27921;QR=17106;RO=478;RPL=781;RPP=1698.93;RPPR=1040.97;RPR=0;RUN=1;SAF=0;SAP=1698.93;SAR=781;SRF=0;SRP=1040.97;SRR=478;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:32,27:32:1144:27:957:-68.5582,0,-85.5087 0/1:62:34,28:34:1220:28:1004:-71.9762,0,-91.4429 0/1:125:63,62:63:2268:62:2229:-163.122,0,-166.753 0/1:43:21,22:21:756:22:769:-55.7706,0,-55.4229 0/1:144:83,61:83:2957:61:2188:-153.693,0,-223.014 1/1:58:1,57:1:36:57:2033:-179.618,-13.8615,0 1/1:78:0,78:0:0:78:2756:-247.139,-23.4803,0 0/0:91:91,0:91:3238:0:0:0,-27.3937,-291.642 0/1:58:39,19:39:1391:19:684:-44.1263,0,-108.029 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 1/1:5:0,5:0:0:5:180:-16.5517,-1.50515,0 0/1:32:14,18:14:504:18:644:-48.6576,0,-36.0651 1/1:49:0,49:0:0:49:1760:-158.491,-14.7505,0 0/1:52:27,25:27:972:25:900:-65.5434,0,-72.1443 1/1:79:0,79:0:0:79:2831:-254.82,-23.7814,0 1/1:32:0,32:0:0:32:1152:-103.89,-9.63296,0 1/1:37:2,35:2:72:35:1260:-106.574,-4.30139,0 0/1:71:41,30:41:1476:30:1062:-74.4269,0,-111.763 0/1:58:19,39:19:680:39:1404:-109.016,0,-44.0694 1/1:67:3,64:3:104:64:2285:-195.362,-10.4662,0 1/1:47:1,46:1:36:46:1643:-143.631,-10.5501,0 chr08 1947444 . A T,C 26748.6 PASS AB=0.469529,0.529086;ABP=8.83297,8.31567;AC=29,13;AF=0.690476,0.309524;AN=42;AO=794,476;CIGAR=1X,1X;DP=1272;DPB=1272;DPRA=0.672727,1.30738;EPP=1727.16,1036.63;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.75,2;MQM=57.9534,60;MQMR=60;NS=21;NUMALT=2;ODDS=0.312514;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28410,16980;QR=36;RO=1;RPL=794,476;RPP=1727.16,1036.63;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1727.16,1036.63;SAR=794,476;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,27,32:0:0:27,32:953,1148:-171.477,-93.9969,-85.8691,-77.8355,0,-68.2025 1/2:61:0,27,34:0:0:27,34:959,1197:-175.938,-97.7984,-89.6706,-78.4929,0,-68.2579 1/2:127:0,62,65:0:0:62,65:2229,2311:-370.412,-188.682,-170.019,-182.087,0,-162.52 1/2:43:0,22,21:0:0:22,21:771,752:-123.705,-61.6846,-55.062,-62.3729,0,-56.0513 1/2:148:0,64,84:0:0:64,84:2292,2994:-431.132,-244.403,-225.137,-187.086,0,-161.799 1/1:58:0,57,1:0:0:57,1:2040,36:-183.303,-17.1587,0,-180.365,-13.8615,-180.064 1/1:79:0,79,0:0:0:79,0:2836,0:-253.893,-23.7814,0,-253.893,-23.7814,-253.893 2/2:88:0,0,88:0:0:0,88:0,3164:-284.984,-284.984,-284.984,-26.4906,-26.4906,0 1/2:58:0,20,38:0:0:20,38:712,1364:-169.397,-111.622,-105.601,-58.1312,0,-46.6921 1/2:12:0,5,7:0:0:5,7:180,252:-35.6088,-20.9217,-19.4166,-15.0469,0,-12.9397 1/1:6:0,6,0:0:0:6,0:216,0:-19.7025,-1.80618,0,-19.7025,-1.80618,-19.7025 1/2:32:0,18,14:0:0:18,14:648,500:-93.9969,-41.1218,-35.7032,-53.2333,0,-49.0189 1/1:51:0,51,0:0:0:51,0:1832,0:-164.697,-15.3525,0,-164.697,-15.3525,-164.697 1/2:54:0,25,28:0:0:25,28:896,981:-152.769,-79.8127,-72.2869,-72.951,0,-64.5222 1/1:83:0,83,0:0:0:83,0:2960,0:-266.238,-24.9855,0,-266.238,-24.9855,-266.238 1/1:32:0,32,0:0:0:32,0:1152,0:-103.89,-9.63296,0,-103.89,-9.63296,-103.89 1/1:38:0,36,2:0:0:36,2:1296,72:-116.288,-10.8371,0,-110.413,-4.60242,-109.811 1/2:70:0,30,40:0:0:30,40:1080,1425:-204.54,-116.505,-107.474,-88.3925,0,-76.3513 1/2:58:0,39,19:0:0:39,19:1404,676:-169.827,-55.4484,-43.7083,-114.736,0,-109.016 1/1:68:0,65,3:0:0:65,3:2340,108:-209.653,-19.567,0,-200.841,-10.3949,-199.938 1/1:47:1,46,0:1:36:46,0:1614,0:-141.556,-10.5501,0,-141.857,-13.8474,-144.794 chr08 1947450 . C T 15427.2 PASS AB=0.461859;ABP=12.1208;AC=29;AF=0.690476;AN=42;AO=788;CIGAR=1X;DP=1275;DPB=1275;DPRA=0.642935;EPP=1714.13;EPPR=1060.52;GTI=1;LEN=1;MEANALT=1;MQM=58.0165;MQMR=60;NS=21;NUMALT=1;ODDS=1.33226;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27977;QR=17312;RO=487;RPL=788;RPP=1714.13;RPPR=1060.52;RPR=0;RUN=1;SAF=0;SAP=1714.13;SAR=788;SRF=0;SRP=1060.52;SRR=487;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:33,27:33:1161:27:960:-68.4924,0,-86.7329 0/1:62:34,28:34:1205:28:985:-70.2965,0,-90.09 0/1:125:64,61:64:2277:61:2188:-159.414,0,-167.562 0/1:41:21,20:21:741:20:705:-51.2456,0,-54.6694 0/1:147:85,62:85:3010:62:2201:-153.916,0,-226.878 1/1:59:1,58:1:36:58:2065:-181.906,-14.1625,0 1/1:79:0,79:0:0:79:2809:-251.665,-23.7814,0 0/0:92:92,0:92:3297:0:0:0,-27.6948,-296.947 0/1:59:39,20:39:1385:20:716:-46.7515,0,-107.186 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 1/1:5:0,5:0:0:5:176:-16.0967,-1.50515,0 0/1:32:14,18:14:496:18:648:-49.0189,0,-35.3413 1/1:50:0,50:0:0:50:1758:-157.828,-15.0515,0 0/1:55:30,25:30:1076:25:855:-60.578,0,-80.5962 1/1:83:0,83:0:0:83:2950:-265.076,-24.9855,0 1/1:32:0,32:0:0:32:1148:-103.531,-9.63296,0 1/1:38:2,36:2:72:36:1258:-106.388,-4.60242,0 0/1:70:40,30:40:1421:30:1064:-74.9097,0,-107.113 0/1:58:21,37:21:743:37:1321:-101.589,0,-49.7336 1/1:68:3,65:3:108:65:2302:-196.517,-10.3949,0 1/1:48:1,47:1:32:47:1688:-148.079,-11.2501,0 chr08 1954653 . CTTCTCA CCTTTCCA,CTTCTCCA 38317.8 PASS AB=0.499031,0.488372;ABP=3.01872,4.22228;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1236,577;CIGAR=1M2I3M1D2M,5M1I2M;DP=1833;DPB=2093.57;DPRA=1.20548,1.13839;EPP=2541.32,1204.38;EPPR=0;GTI=0;LEN=8,1;MEANALT=2.5,2.91667;MQM=59.2848,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.25846;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43072,20217;QR=0;RO=0;RPL=17,6;RPP=2541.32,1204.38;RPPR=0;RPR=1219,571;RUN=1,1;SAF=1236,577;SAP=2686.95,1255.95;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:160:0,86,72:0:0:86,72:2962,2525:-446.114,-205.566,-179.677,-240.632,0,-218.958 1/2:125:0,48,77:0:0:48,77:1695,2691:-357.279,-219.256,-204.806,-138.374,0,-115.195 1/2:92:0,33,58:0:0:33,58:1172,2068:-264.087,-168.591,-158.657,-95.5111,0,-78.0514 1/2:94:0,50,43:0:0:50,43:1724,1487:-260.866,-120.856,-105.805,-140.034,0,-127.089 1/2:185:0,88,92:0:0:88,92:3064,3204:-509.643,-260.586,-234.095,-249.1,0,-221.405 1/1:92:0,91,0:0:0:91,0:3162,0:-284.195,-27.3937,0,-284.195,-27.3937,-284.195 1/1:112:0,112,0:0:0:112,0:3897,0:-350.678,-33.7154,0,-350.678,-33.7154,-350.678 2/2:73:0,0,73:0:0:0,73:0,2560:-230.65,-230.65,-230.65,-21.9752,-21.9752,0 1/2:105:0,53,52:0:0:53,52:1874,1828:-301.773,-149.145,-133.19,-152.98,0,-137.327 1/2:6:0,5,1:0:0:5,1:180,36:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459 1/1:5:0,5,0:0:0:5,0:168,0:-14.9484,-1.50515,0,-14.9484,-1.50515,-14.9484 1/2:35:0,19,16:0:0:19,16:659,557:-99.1911,-45.6391,-39.9195,-53.8993,0,-49.0828 1/1:80:0,80,0:0:0:80,0:2739,0:-246.747,-24.0824,0,-246.747,-24.0824,-246.747 1/2:88:0,50,36:0:0:50,36:1711,1267:-241.82,-103.154,-88.1028,-138.672,0,-127.835 1/1:137:0,137,0:0:0:137,0:4836,0:-435.349,-41.2411,0,-435.349,-41.2411,-435.349 1/1:79:0,76,0:0:0:76,0:2620,0:-235.731,-22.8783,0,-235.731,-22.8783,-235.731 1/1:73:0,73,0:0:0:73,0:2542,0:-228.762,-21.9752,0,-228.762,-21.9752,-228.762 1/2:90:0,50,38:0:0:50,38:1752,1318:-249.695,-107.174,-92.1225,-142.566,0,-131.127 1/2:52:0,33,19:0:0:33,19:1151,676:-149.054,-55.4484,-45.5144,-93.9584,0,-88.2388 1/1:73:0,72,0:0:0:72,0:2533,0:-227.683,-21.6742,0,-227.683,-21.6742,-227.683 1/1:77:0,75,0:0:0:75,0:2631,0:-236.657,-22.5773,0,-236.657,-22.5773,-236.657 chr08 1981799 . ACCAAC GCCGAA,ACCGAA 19236.4 PASS AB=0.51663,0.474501;ABP=4.09363,5.55733;AC=29,13;AF=0.690476,0.309524;AN=42;AO=644,284;CIGAR=1X2M1X1M1X,3M1X1M1X;DP=932;DPB=932;DPRA=0.625362,0.995678;EPP=1401.44,619.708;EPPR=0;GTI=0;LEN=6,6;MEANALT=1.8,2.23077;MQM=59.3866,59.9577;MQMR=0;NS=21;NUMALT=2;ODDS=6.66051;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22538,9895;QR=0;RO=0;RPL=644,284;RPP=1401.44,619.708;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1401.44,619.708;SAR=644,284;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,23,32:0:0:23,32:819,1120:-157.439,-91.1144,-84.1907,-66.3176,0,-56.6847 1/2:14:0,8,6:0:0:8,6:287,211:-40.923,-17.527,-15.1187,-23.7504,0,-21.9443 1/2:47:0,20,26:0:0:20,26:691,934:-132.37,-76.2407,-70.2201,-56.1678,0,-48.3411 1/2:36:0,17,19:0:0:17,19:593,660:-102.23,-54.0021,-48.8846,-48.5763,0,-42.8567 1/2:112:0,65,46:0:0:65,46:2291,1585:-315.332,-128.805,-109.238,-186.592,0,-172.745 1/1:54:0,54,0:0:0:54,0:1881,0:-169.56,-16.2556,0,-169.56,-16.2556,-169.56 1/1:66:0,66,0:0:0:66,0:2305,0:-207.691,-19.868,0,-207.691,-19.868,-207.691 2/2:69:0,0,69:0:0:0,69:0,2392:-215.534,-215.534,-215.534,-20.7711,-20.7711,0 1/2:64:0,32,32:0:0:32,32:1115,1083:-178.04,-88.1376,-78.5046,-90.2445,0,-80.6115 1/2:5:0,2,3:0:0:2,3:65,101:-13.7598,-8.52004,-7.91798,-5.56924,0,-4.66615 1/1:6:0,6,0:0:0:6,0:208,0:-19.0551,-1.80618,0,-19.0551,-1.80618,-19.0551 1/2:24:0,14,10:0:0:14,10:496,351:-69.3251,-28.9172,-24.7028,-40.7601,0,-37.7498 1/1:61:0,61,0:0:0:61,0:2114,0:-190.41,-18.3628,0,-190.41,-18.3628,-190.41 1/2:42:0,25,17:0:0:25,17:863,602:-119.177,-49.3929,-41.8672,-70.1336,0,-65.0161 1/1:60:0,60,0:0:0:60,0:2112,0:-190.256,-18.0618,0,-190.256,-18.0618,-190.256 1/1:40:0,40,0:0:0:40,0:1405,0:-126.735,-12.0412,0,-126.735,-12.0412,-126.735 1/1:34:0,34,0:0:0:34,0:1162,0:-104.874,-10.235,0,-104.874,-10.235,-104.874 1/2:42:0,21,20:0:0:21,20:744,718:-119.156,-58.568,-52.2463,-60.5852,0,-54.5646 1/2:9:0,6,3:0:0:6,3:215,102:-26.1607,-8.61368,-6.8075,-17.893,0,-16.9899 1/1:56:0,55,1:0:0:55,1:1943,36:-174.765,-16.5567,0,-171.827,-13.2594,-171.526 1/1:35:0,35,0:0:0:35,0:1229,0:-110.895,-10.5361,0,-110.895,-10.5361,-110.895 chr08 2020869 . GACCTAC TGCCAAT,TGCCCAT 42480.6 PASS AB=0.543074,0.446791;ABP=22.0914,32.1271;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1551,613;CIGAR=2X2M1X1M1X,2X2M1X1M1X;DP=2188;DPB=2188;DPRA=1.37078,1.18367;EPP=3370.96,1334.12;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.8,2.9375;MQM=53.4043,53.7259;MQMR=0;NS=21;NUMALT=2;ODDS=3.07263;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52677,20914;QR=0;RO=0;RPL=0,0;RPP=3370.96,1334.12;RPPR=0;RPR=1551,613;RUN=1,1;SAF=0,0;SAP=3370.96,1334.12;SAR=1551,613;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:119:0,56,62:0:0:56,62:1899,2139:-326.766,-173.266,-156.408,-153.589,0,-134.925 1/2:113:0,66,45:0:0:66,45:2212,1553:-302.955,-124.685,-104.817,-178.325,0,-164.779 1/2:70:0,40,30:0:0:40,30:1364,999:-191.37,-81.0179,-68.9767,-110.688,0,-101.657 1/2:117:0,65,51:0:0:65,51:2163,1759:-317.189,-142.457,-122.89,-174.729,0,-159.376 1/2:231:0,117,111:0:0:117,111:3968,3769:-626.077,-304.747,-269.526,-321.369,0,-287.954 1/1:117:0,115,0:0:0:115,0:3908,0:-350.053,-34.6185,0,-350.053,-34.6185,-350.053 1/1:176:0,172,2:0:0:172,2:5847,71:-522.046,-51.7772,0,-516.275,-46.0009,-515.673 2/2:77:0,0,75:0:0:0,75:0,2551:-228.864,-228.864,-228.864,-22.5773,-22.5773,0 1/2:152:0,79,73:0:0:79,73:2689,2527:-422.061,-205.45,-181.669,-216.953,0,-194.977 1/2:9:0,7,2:0:0:7,2:230,67:-24.1743,-5.69712,-3.58991,-18.8077,0,-18.2056 1/1:12:0,11,0:0:0:11,0:372,0:-33.4309,-3.31133,0,-33.4309,-3.31133,-33.4309 1/2:28:0,20,8:0:0:20,8:677,247:-74.7074,-20.1065,-14.0859,-54.9175,0,-52.5092 1/1:89:0,88,0:0:0:88,0:3013,0:-269.413,-26.4906,0,-269.413,-26.4906,-269.413 1/2:133:0,59,71:0:0:59,71:1985,2428:-356.775,-196.28,-178.52,-160.488,0,-139.115 1/1:185:0,183,0:0:0:183,0:6305,0:-565.392,-55.0885,0,-565.392,-55.0885,-565.392 1/1:103:0,101,1:0:0:101,1:3434,35:-308.477,-30.404,0,-305.63,-27.5589,-305.329 1/1:50:0,49,1:0:0:49,1:1662,36:-149.338,-14.7505,0,-146.401,-11.4542,-146.1 1/2:124:0,71,51:0:0:71,51:2432,1740:-337.059,-140.825,-119.452,-196.294,0,-180.942 1/2:88:0,63,25:0:0:63,25:2085,818:-234.645,-66.3549,-47.39,-168.618,0,-161.092 1/1:141:0,135,5:0:0:135,5:4619,175:-414.238,-40.6391,0,-400.019,-26.4167,-398.513 1/1:54:0,54,0:0:0:54,0:1813,0:-162.791,-16.2556,0,-162.791,-16.2556,-162.791 chr08 2069471 . CTTCA TTTCG 45761 PASS AB=0.431995;ABP=70.0527;AC=29;AF=0.690476;AN=42;AO=1834;CIGAR=1X3M1X;DP=2924;DPB=2924;DPRA=1.11032;EPP=606.613;EPPR=258.301;GTI=1;LEN=5;MEANALT=1.55;MQM=53.5894;MQMR=59.9249;NS=21;NUMALT=1;ODDS=7.6573;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64767;QR=38134;RO=1078;RPL=560;RPP=606.613;RPPR=258.301;RPR=1274;RUN=1;SAF=1834;SAP=3985.49;SAR=0;SRF=1078;SRP=2343.86;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:103,67:103:3632:67:2367:-160.246,0,-275.912 0/1:154:89,64:89:3151:64:2247:-156.02,0,-237.4 0/1:113:77,36:77:2693:36:1279:-81.0683,0,-208.598 0/1:166:85,81:85:3020:81:2860:-207.177,0,-222.062 0/1:324:179,145:179:6359:145:5129:-362.691,0,-474.834 1/1:123:0,121:0:0:121:4275:-383.461,-36.4246,0 1/1:109:3,105:3:108:105:3671:-319.855,-22.7584,0 0/0:126:126,0:126:4477:0:0:0,-37.9298,-403.102 0/1:230:159,70:159:5604:70:2464:-151.29,0,-435.287 0/1:25:16,9:16:554:9:312:-20.8741,0,-42.5281 1/1:6:0,6:0:0:6:214:-19.6016,-1.80618,0 0/1:33:22,11:22:778:11:383:-24.5858,0,-60.4087 1/1:541:0,539:0:0:539:19050:-1707.42,-162.255,0 0/1:235:115,118:115:4086:118:4186:-305.136,0,-297.477 1/1:100:0,99:0:0:99:3491:-313.039,-29.802,0 1/1:72:3,69:3:108:69:2443:-209.122,-11.599,0 1/1:47:0,47:0:0:47:1651:-148.131,-14.1484,0 0/1:108:62,46:62:2180:46:1627:-114.168,0,-163.954 0/1:111:37,74:37:1312:74:2626:-202.748,0,-84.9672 1/1:82:2,80:2:72:80:2827:-247.683,-17.8477,0 1/1:49:0,47:0:0:47:1665:-149.571,-14.1484,0 chr08 2069485 . G A 19261.8 PASS AB=0.567237;ABP=67.2519;AC=13;AF=0.309524;AN=42;AO=1065;CIGAR=1X;DP=2865;DPB=2865;DPRA=4.56106;EPP=2315.63;EPPR=3909.49;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.8751;MQMR=53.6298;NS=21;NUMALT=1;ODDS=7.69977;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38149;QR=64282;RO=1799;RPL=1065;RPP=2315.63;RPPR=3909.49;RPR=0;RUN=1;SAF=1065;SAP=2315.63;SAR=0;SRF=1799;SRP=3909.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:165:66,99:66:2332:99:3556:-270.571,0,-159.242 0/1:150:63,87:63:2247:87:3120:-235.872,0,-157.281 0/1:111:35,76:35:1256:76:2708:-210.541,0,-79.3557 0/1:162:79,83:79:2804:83:2976:-219.305,0,-203.342 0/1:316:140,175:140:5024:175:6258:-468.083,0,-355.211 0/0:120:118,2:118:4219:2:70:0,-29.5975,-372.015 0/0:108:106,2:106:3790:2:72:0,-25.6745,-333.716 1/1:126:0,126:0:0:126:4507:-405.797,-37.9298,0 0/1:228:70,158:70:2508:158:5665:-441.331,0,-155.061 0/1:24:9,15:9:316:15:534:-41.0375,0,-21.5232 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7835 0/1:32:10,22:10:360:22:792:-61.9727,0,-22.8271 0/0:527:526,1:526:18836:1:36:0,-155.219,-1684.96 0/1:231:116,115:116:4163:115:4140:-303.242,0,-303.85 0/0:99:98,1:98:3512:1:36:0,-26.2037,-311.502 0/0:67:64,3:64:2300:3:108:0,-10.0938,-196.259 0/0:46:46,0:46:1648:0:0:0,-13.8474,-147.841 0/1:106:45,61:45:1566:61:2179:-164.465,0,-109.28 0/1:111:74,37:74:2620:37:1320:-85.6876,0,-202.205 0/0:81:79,2:79:2817:2:72:0,-17.5467,-246.768 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.29 chr08 2069486 . A C 35834.6 PASS AB=0.435308;ABP=63.1341;AC=29;AF=0.690476;AN=42;AO=1816;CIGAR=1X;DP=2886;DPB=2886;DPRA=1.09524;EPP=3946.4;EPPR=2319.97;GTI=1;LEN=1;MEANALT=1.05;MQM=53.5352;MQMR=59.9241;NS=21;NUMALT=1;ODDS=7.32554;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64365;QR=38235;RO=1067;RPL=1816;RPP=3946.4;RPPR=2319.97;RPR=0;RUN=1;SAF=1816;SAP=3946.4;SAR=0;SRF=1067;SRP=2319.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:101,66:101:3624:66:2372:-162.185,0,-276.086 0/1:149:86,63:86:3088:63:2251:-157.94,0,-233.294 0/1:110:75,35:75:2688:35:1251:-79.2105,0,-209.048 0/1:164:83,81:83:2973:81:2876:-209.108,0,-218.432 0/1:325:179,146:179:6408:146:5151:-363.637,0,-478.911 1/1:120:0,120:0:0:120:4277:-384.191,-36.1236,0 1/1:108:3,105:3:108:105:3685:-321.119,-22.4361,0 0/0:126:126,0:126:4516:0:0:0,-37.9298,-406.607 0/1:229:155,71:155:5564:71:2501:-154.378,0,-432.484 0/1:25:16,9:16:572:9:324:-21.9472,0,-43.9155 1/1:6:0,6:0:0:6:216:-19.7835,-1.80618,0 0/1:33:22,11:22:784:11:381:-24.4026,0,-60.9499 1/1:533:1,532:1:36:532:18920:-1691.4,-156.851,0 0/1:235:115,120:115:4117:120:4269:-312.017,0,-299.97 1/1:95:1,94:1:36:94:3348:-296.943,-24.9996,0 1/1:68:3,65:3:108:65:2293:-195.642,-10.3949,0 1/1:47:0,47:0:0:47:1629:-146.285,-14.1484,0 0/1:108:62,46:62:2228:46:1614:-112.998,0,-168.272 0/1:109:37,72:37:1313:72:2516:-193.478,0,-85.6574 1/1:80:2,78:2:72:78:2766:-242.199,-17.2457,0 1/1:49:0,49:0:0:49:1725:-155.181,-14.7505,0 chr08 2069553 . G C 9928.8 PASS AB=0.483849;ABP=6.37711;AC=13;AF=0.309524;AN=42;AO=800;CIGAR=1X;DP=2473;DPB=2473;DPRA=1.21736;EPP=1740.19;EPPR=3633.71;GTI=0;LEN=1;MEANALT=1.07143;MQM=32.1512;MQMR=45.2213;NS=21;NUMALT=1;ODDS=7.65664;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28620;QR=59866;RO=1672;RPL=800;RPP=1740.19;RPPR=3633.71;RPR=0;RUN=1;SAF=0;SAP=1740.19;SAR=800;SRF=0;SRP=3633.71;SRR=1672;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:53,63:53:1904:63:2264:-135.82,0,-132.92 0/1:71:32,39:32:1136:39:1404:-88.4726,0,-80.1173 0/1:158:78,80:78:2796:80:2864:-169.942,0,-200.081 0/1:75:47,28:47:1684:28:1008:-53.6908,0,-126.861 0/1:335:159,176:159:5681:176:6286:-380.375,0,-400.179 0/0:103:100,3:100:3584:3:108:0,-22.2599,-308.115 0/0:177:177,0:177:6326:0:0:0,-53.2823,-557.395 1/1:77:0,77:0:0:77:2755:-209.541,-23.1793,0 0/1:304:176,127:176:6308:127:4538:-264.83,0,-466.208 0/1:22:12,10:12:432:10:336:-19.3185,0,-32.0562 0/0:7:7,0:7:252:0:0:0,-2.10721,-22.8114 0/1:44:17,27:17:612:27:968:-60.8573,0,-41.422 0/0:134:134,0:134:4812:0:0:0,-40.338,-426.155 0/1:193:98,95:98:3516:95:3393:-198.33,0,-250.497 0/0:177:177,0:177:6302:0:0:0,-53.2823,-556.833 0/0:92:92,0:92:3293:0:0:0,-27.6948,-291.626 0/0:78:78,0:78:2788:0:0:0,-23.4803,-246.439 0/1:74:33,41:33:1184:41:1472:-91.036,0,-82.2636 0/1:94:61,33:61:2192:33:1188:-63.0374,0,-165.688 0/0:87:86,1:86:3088:1:36:0,-23.1351,-269.725 0/0:55:55,0:55:1976:0:0:0,-16.5566,-174.714 chr08 2077049 . CA AG,CG 27617.9 PASS AB=0.688958,0.306376;ABP=202.424,212.394;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1096,229;CIGAR=2X,1M1X;DP=1328;DPB=1328;DPRA=2.16333,0.794347;EPP=2382.94,500.277;EPPR=0;GTI=2;LEN=2,1;MEANALT=1.8,2.14286;MQM=45.5839,58.9782;MQMR=0;NS=21;NUMALT=2;ODDS=0.700295;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38960,8195;QR=0;RO=0;RPL=1096,229;RPP=2382.94,500.277;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2382.94,500.277;SAR=1096,229;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,41,13:0:0:41,13:1461,468:-156.48,-38.5463,-26.204,-118.292,0,-114.379 1/2:34:0,21,13:0:0:21,13:752,468:-97.7695,-38.4627,-32.1411,-59.6613,0,-55.7479 1/2:64:0,42,21:0:0:42,21:1497,756:-182.502,-61.6858,-49.0425,-120.814,0,-114.493 1/2:80:0,56,24:0:0:56,24:1992,847:-230.045,-69.2956,-52.4379,-161.102,0,-153.877 1/2:127:0,82,44:0:0:82,44:2923,1576:-362.75,-128.413,-103.729,-234.336,0,-221.091 1/1:48:0,48,0:0:0:48,0:1718,0:-151.038,-14.4494,0,-151.038,-14.4494,-151.038 1/1:148:0,148,0:0:0:148,0:5277,0:-464.476,-44.5524,0,-464.476,-44.5524,-464.476 2/2:30:0,0,30:0:0:0,30:0,1076:-97.0777,-97.0777,-97.0777,-9.0309,-9.0309,0 1/2:132:0,103,29:0:0:103,29:3643,1044:-379.722,-85.4921,-54.486,-294.587,0,-285.857 1/2:6:0,4,2:0:0:4,2:144,72:-17.6874,-6.23466,-5.03054,-11.8098,0,-11.2078 1/1:8:0,8,0:0:0:8,0:284,0:-24.7993,-2.40824,0,-24.7993,-2.40824,-24.7993 1/2:24:0,21,3:0:0:21,3:756,108:-69.3764,-9.0792,-2.75757,-60.6532,0,-59.7501 1/1:100:0,99,1:0:0:99,1:3498,36:-311.625,-29.802,0,-308.687,-26.5047,-308.386 1/2:68:0,49,19:0:0:49,19:1745,672:-194.229,-55.0767,-40.3262,-139.505,0,-133.785 1/1:143:0,143,0:0:0:143,0:5072,0:-450.66,-43.0473,0,-450.66,-43.0473,-450.66 1/1:42:0,41,1:0:0:41,1:1426,36:-127.335,-12.3422,0,-124.398,-9.04499,-124.096 1/1:59:0,59,0:0:0:59,0:2098,0:-187.086,-17.7608,0,-187.086,-17.7608,-187.086 1/2:33:0,15,17:0:0:15,17:540,612:-92.4573,-49.9844,-45.4689,-42.56,0,-37.4424 1/2:21:0,9,12:0:0:9,12:324,424:-61.0095,-34.8841,-32.1748,-26.4802,0,-22.8678 1/1:71:0,71,0:0:0:71,0:2529,0:-223.933,-21.3731,0,-223.933,-21.3731,-223.933 1/1:36:0,36,0:0:0:36,0:1281,0:-112.129,-10.8371,0,-112.129,-10.8371,-112.129 chr08 2111779 . ACGGG ACGGA 29986.5 PASS AB=0.487468;ABP=4.5887;AC=29;AF=0.690476;AN=42;AO=1460;CIGAR=4M1X;DP=2128;DPB=2127.4;DPRA=1.72333;EPP=3173.36;EPPR=1401.49;GTI=0;LEN=1;MEANALT=1.7;MQM=58.7411;MQMR=59.9248;NS=21;NUMALT=1;ODDS=11.4076;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52293;QR=22662;RO=652;RPL=1460;RPP=3173.36;RPPR=1401.49;RPR=0;RUN=1;SAF=1460;SAP=3173.36;SAR=0;SRF=652;SRP=1418.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:54,45:54:1895:45:1616:-115.829,0,-141.025 0/1:110:63,46:63:2170:46:1648:-115.158,0,-162.392 0/1:58:18,39:18:626:39:1400:-108.77,0,-39.1466 0/1:140:71,69:71:2475:69:2471:-180.307,0,-180.861 0/1:245:136,106:136:4735:106:3787:-267.746,0,-353.151 1/1:72:1,70:1:36:70:2511:-221.509,-18.1308,0 1/1:165:0,164:0:0:164:5865:-527.114,-49.3689,0 0/0:60:60,0:60:2051:0:0:0,-18.0618,-184.86 0/1:177:109,67:109:3803:67:2408:-162.566,0,-289.125 0/1:8:4,4:4:144:4:140:-10.5363,0,-10.9054 1/1:7:0,7:0:0:7:252:-23.0225,-2.10721,0 0/1:36:13,23:13:451:23:816:-62.8346,0,-30.0832 1/1:139:0,139:0:0:139:4992:-448.975,-41.8432,0 0/1:79:30,48:30:1059:48:1701:-129.496,0,-71.7848 1/1:200:0,199:0:0:199:7125:-640.756,-59.905,0 1/1:65:0,64:0:0:64:2300:-206.846,-19.2659,0 1/1:103:0,103:0:0:103:3696:-332.783,-31.0061,0 0/1:148:67,81:67:2325:81:2912:-217.601,0,-164.959 0/1:57:20,36:20:682:36:1292:-99.3711,0,-44.3775 1/1:105:6,98:6:210:98:3513:-296.806,-12.4193,0 1/1:55:0,52:0:0:52:1848:-165.907,-15.6536,0 chr08 2112116 . CC CA,AA 15084.9 PASS AB=0.446043,0.549161;ABP=13.5552,11.7639;AC=29,13;AF=0.690476,0.309524;AN=42;AO=438,297;CIGAR=1M1X,2X;DP=737;DPB=737;DPRA=0.508333,1.59375;EPP=954.115,647.938;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.75,2.07143;MQM=60,59.9697;MQMR=0;NS=21;NUMALT=2;ODDS=0.597395;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=15510,10325;QR=0;RO=0;RPL=0,0;RPP=954.115,647.938;RPPR=0;RPR=438,297;RUN=1,1;SAF=0,0;SAP=954.115,647.938;SAR=438,297;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:41:0,19,22:0:0:19,22:669,733:-114.115,-59.6425,-53.9229,-54.8152,0,-48.1926 1/2:64:0,29,35:0:0:29,35:1040,1204:-182.955,-98.1223,-89.3924,-85.1845,0,-74.6484 1/2:22:0,5,17:0:0:5,17:180,597:-63.6288,-48.9397,-47.4345,-15.0469,0,-9.9294 1/2:33:0,15,18:0:0:15,18:536,624:-94.7705,-51.0635,-46.548,-44.0594,0,-38.6408 1/2:78:0,35,42:0:0:35,42:1260,1477:-223.082,-120.268,-109.732,-102.858,0,-90.2148 1/1:25:0,25,0:0:0:25,0:876,0:-79.1551,-7.52575,0,-79.1551,-7.52575,-79.1551 1/1:35:0,35,0:0:0:35,0:1243,0:-112.173,-10.5361,0,-112.173,-10.5361,-112.173 2/2:66:0,0,66:0:0:0,66:0,2327:-209.689,-209.689,-209.689,-19.868,-19.868,0 1/2:26:0,8,18:0:0:8,18:288,621:-74.2966,-50.7927,-48.3845,-23.8592,0,-18.4406 1/2:7:0,3,4:0:0:3,4:108,142:-20.7395,-11.9251,-11.022,-9.17208,0,-7.96796 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:23:0,6,17:0:0:6,17:212,584:-65.0321,-47.7641,-45.9579,-17.6186,0,-12.5011 1/1:37:0,37,0:0:0:37,0:1291,0:-116.488,-11.1381,0,-116.488,-11.1381,-116.488 1/2:17:0,10,7:0:0:10,7:360,252:-50.2959,-20.9217,-17.9114,-29.734,0,-27.6268 1/1:34:0,34,0:0:0:34,0:1176,0:-106.14,-10.235,0,-106.14,-10.235,-106.14 1/1:53:0,52,1:0:0:52,1:1833,36:-164.889,-15.6536,0,-161.951,-12.3563,-161.65 1/1:20:0,20,0:0:0:20,0:720,0:-65.1288,-6.0206,0,-65.1288,-6.0206,-65.1288 1/2:75:0,40,35:0:0:40,35:1403,1205:-212.391,-98.213,-86.1718,-114.525,0,-103.989 1/2:31:0,16,14:0:0:16,14:576,489:-86.8572,-39.8503,-35.0338,-47.0832,0,-42.8688 1/1:25:0,24,1:0:0:24,1:851,34:-76.569,-7.22472,0,-73.8116,-4.12684,-73.5105 1/1:21:0,21,0:0:0:21,0:744,0:-67.2843,-6.32163,0,-67.2843,-6.32163,-67.2843 chr08 2138287 . G T,C 81847.2 PASS AB=0.545403,0.454597;ABP=34.3621,34.3621;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2117,912;CIGAR=1X,1X;DP=3029;DPB=3029;DPRA=0,2.14773;EPP=4600.02,1983.39;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.66667,2;MQM=59.9745,59.9989;MQMR=0;NS=21;NUMALT=2;ODDS=12.7835;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=75469,32139;QR=0;RO=0;RPL=972,369;RPP=33.7094,75.0975;RPPR=0;RPR=1145,543;RUN=1,1;SAF=972,369;SAP=33.7094,75.0975;SAR=1145,543;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:134:0,70,64:0:0:70,64:2481,2265:-386.962,-184.846,-163.773,-202.471,0,-183.205 1/2:45:0,29,16:0:0:29,16:1040,567:-131.373,-46.5442,-37.8144,-85.1845,0,-80.368 1/2:155:0,86,69:0:0:86,69:3059,2432:-447.662,-198.364,-172.476,-249.651,0,-228.88 1/2:163:0,84,79:0:0:84,79:3004,2775:-471.161,-226.21,-200.923,-245.305,0,-221.524 1/2:351:0,172,179:0:0:172,179:6106,6291:-1009.92,-512.405,-460.628,-497.869,0,-443.984 1/1:64:0,64,0:0:0:64,0:2287,0:-206.091,-19.2659,0,-206.091,-19.2659,-206.091 1/1:119:0,119,0:0:0:119,0:4259,0:-383.488,-35.8226,0,-383.488,-35.8226,-383.488 2/2:114:0,1,113:0:0:1,113:36,3976:-357.675,-354.738,-354.436,-34.0164,-30.7191,0 1/2:288:0,159,129:0:0:159,129:5636,4523:-827.556,-368.409,-320.546,-459.499,0,-420.666 1/2:10:0,3,7:0:0:3,7:108,252:-29.734,-20.9217,-20.0187,-9.17208,0,-7.06487 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:49:0,32,17:0:0:32,17:1127,604:-141.324,-49.5731,-39.9401,-92.1045,0,-86.987 1/1:174:0,174,0:0:0:174,0:6236,0:-561.316,-52.3792,0,-561.316,-52.3792,-561.316 1/2:202:0,114,88:0:0:114,88:4053,3114:-584.284,-253.998,-219.68,-330.641,0,-304.15 1/1:353:0,351,2:0:0:351,2:12550,72:-1128.97,-105.662,0,-1123.1,-99.4269,-1122.49 1/1:101:0,101,0:0:0:101,0:3599,0:-324.115,-30.404,0,-324.115,-30.404,-324.115 1/1:63:0,63,0:0:0:63,0:2257,0:-203.392,-18.9649,0,-203.392,-18.9649,-203.392 1/2:188:0,89,99:0:0:89,99:3172,3498:-543.349,-285.231,-258.44,-258.472,0,-228.67 1/2:166:0,117,49:0:0:117,49:4139,1734:-478.717,-141.593,-106.372,-337.478,0,-322.727 1/1:239:0,238,1:0:0:238,1:8492,36:-763.922,-71.6451,0,-760.985,-68.3479,-760.684 1/1:47:0,47,0:0:0:47,0:1684,0:-151.847,-14.1484,0,-151.847,-14.1484,-151.847 chr08 2179152 . C A 13473.8 PASS AB=0.62002;ABP=125.502;AC=13;AF=0.309524;AN=42;AO=751;CIGAR=1X;DP=1701;DPB=1701;DPRA=1.39844;EPP=1582.09;EPPR=1997.01;GTI=2;LEN=1;MEANALT=1;MQM=59.9614;MQMR=59.8484;NS=21;NUMALT=1;ODDS=3.87075;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25973;QR=33992;RO=950;RPL=6;RPP=1582.09;RPPR=1997.01;RPR=745;RUN=1;SAF=751;SAP=1633.79;SAR=0;SRF=950;SRP=2065.91;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:17,49:17:600:49:1699:-133.322,0,-34.4612 0/1:71:24,47:24:860:47:1654:-127.771,0,-54.9819 0/1:96:28,68:28:1004:68:2379:-185.465,0,-61.777 0/1:150:66,84:66:2357:84:2917:-217.607,0,-167.23 0/1:126:45,81:45:1598:81:2802:-214.486,0,-105.988 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.746 0/0:98:98,0:98:3511:0:0:0,-29.5009,-316.191 1/1:141:0,141:0:0:141:4889:-440.167,-42.4452,0 0/1:188:60,128:60:2160:128:4342:-334.361,0,-138.072 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:28:15,13:15:525:13:445:-31.9465,0,-39.1492 0/0:97:97,0:97:3484:0:0:0,-29.1999,-313.768 0/1:122:47,75:47:1684:75:2541:-192.203,0,-115.119 0/0:100:100,0:100:3584:0:0:0,-30.103,-322.762 0/0:59:59,0:59:2103:0:0:0,-17.7608,-189.527 0/0:77:76,1:76:2711:1:36:0,-19.581,-240.635 0/1:55:25,30:25:888:30:1057:-78.8823,0,-63.6824 0/1:66:41,25:41:1476:25:888:-60.371,0,-113.263 0/0:56:54,2:54:1927:2:72:0,-10.021,-166.864 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.703 chr08 2179171 . TAT AAC,AAT 35350.6 PASS AB=0.376008,0.620968;ABP=135.479,129.096;AC=28,14;AF=0.666667,0.333333;AN=42;AO=949,770;CIGAR=1X1M1X,1X2M;DP=1725;DPB=1726;DPRA=0,1.24099;EPP=2003.38,1675.04;EPPR=0;GTI=2;LEN=3,1;MEANALT=2,2.25;MQM=59.8483,59.9688;MQMR=0;NS=21;NUMALT=2;ODDS=0.253965;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=52,52;PQR=0;PRO=0;QA=32480,27563;QR=0;RO=0;RPL=942,770;RPP=2003.38,1675.04;RPPR=0;RPR=7,0;RUN=1,1;SAF=949,770;SAP=2063.74,1675.04;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,17,52:0:0:17,52:584,1872:-200.522,-153.106,-147.988,-47.7635,0,-32.1099 1/2:73:0,24,49:0:0:24,49:831,1755:-210.312,-143.483,-136.259,-67.1767,0,-52.4262 1/2:97:0,28,69:0:0:28,69:946,2480:-279.354,-202.682,-194.253,-77.0166,0,-56.2455 1/2:154:0,65,89:0:0:65,89:2234,3184:-441.397,-259.991,-240.425,-181.755,0,-154.963 1/2:128:0,46,80:0:0:46,80:1581,2842:-359.955,-231.62,-217.772,-128.366,0,-104.284 1/1:55:0,55,0:0:0:55,0:1863,0:-167.936,-16.5567,0,-167.936,-16.5567,-167.936 1/1:100:0,100,0:0:0:100,0:3453,0:-310.977,-30.103,0,-310.977,-30.103,-310.977 2/2:150:0,1,149:0:0:1,149:36,5329:-479.383,-476.446,-476.145,-44.8535,-41.5562,0 1/2:183:0,59,123:0:0:59,123:1981,4408:-519.9,-359.446,-341.685,-160.379,0,-123.352 1/2:11:0,4,7:0:0:4,7:124,252:-30.8567,-20.9217,-19.7176,-10.263,0,-8.15582 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/2:30:0,16,14:0:0:16,14:546,500:-85.4176,-41.1218,-36.3053,-44.6454,0,-40.431 1/1:98:0,98,0:0:0:98,0:3384,0:-304.778,-29.5009,0,-304.778,-29.5009,-304.778 1/2:122:0,45,77:0:0:45,77:1556,2749:-350.884,-224.454,-210.907,-126.78,0,-103.601 1/1:101:0,98,2:0:0:98,2:3414,72:-307.139,-29.5009,0,-301.264,-23.5729,-300.662 1/1:59:0,59,0:0:0:59,0:2026,0:-182.523,-17.7608,0,-182.523,-17.7608,-182.523 1/1:79:0,77,1:0:0:77,1:2594,36:-233.342,-23.1793,0,-230.405,-20.247,-230.104 1/2:55:0,25,30:0:0:25,30:841,1080:-156.608,-88.4823,-80.9566,-68.4723,0,-59.4414 1/2:66:0,41,25:0:0:41,25:1397,896:-186.76,-73.4346,-61.0924,-113.677,0,-106.151 1/1:56:0,54,2:0:0:54,2:1835,72:-165.064,-16.2556,0,-159.189,-10.021,-158.587 1/1:35:0,34,0:0:0:34,0:1146,0:-103.079,-10.235,0,-103.079,-10.235,-103.079 chr08 2179297 . AGCGAATG GGCGAATA,GGCAAATA 28368.6 PASS AB=0.40988,0.567423;ABP=55.8475,32.5847;AC=29,13;AF=0.690476,0.309524;AN=42;AO=873,517;CIGAR=1X6M1X,1X2M1X3M1X;DP=1412;DPB=1412;DPRA=0.761494,1.05507;EPP=1898.71,1125.66;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.6,2.92857;MQM=59.9977,59.3926;MQMR=0;NS=21;NUMALT=2;ODDS=2.05977;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30436,17888;QR=0;RO=0;RPL=0,0;RPP=1898.71,1125.66;RPPR=0;RPR=873,517;RUN=1,1;SAF=0,0;SAP=1898.71,1125.66;SAR=873,517;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:89:0,46,43:0:0:46,43:1593,1503:-252.078,-122.618,-108.771,-129.807,0,-116.863 1/2:64:0,24,40:0:0:24,40:832,1387:-180.693,-113.071,-105.846,-67.9693,0,-55.9281 1/2:45:0,19,26:0:0:19,26:663,921:-129.303,-75.3804,-69.6609,-54.2739,0,-46.4471 1/2:77:0,26,50:0:0:26,50:911,1746:-216.151,-142.023,-134.196,-74.1379,0,-59.0864 1/2:140:0,63,71:0:0:63,71:2193,2477:-379.766,-201.445,-182.48,-178.361,0,-156.988 1/1:41:0,40,0:0:0:40,0:1395,0:-125.574,-12.0412,0,-125.574,-12.0412,-125.574 1/1:126:0,124,0:0:0:124,0:4288,0:-385.85,-37.3277,0,-385.85,-37.3277,-385.85 2/2:87:0,0,87:0:0:0,87:0,2984:-268.785,-268.785,-268.785,-26.1896,-26.1896,0 1/2:118:0,33,82:0:0:33,82:1167,2841:-325.748,-230.696,-220.763,-95.0981,0,-70.4136 1/2:17:0,4,9:0:0:4,9:135,303:-35.4747,-24.5351,-23.331,-10.9298,0,-8.22053 1/1:10:0,10,0:0:0:10,0:356,0:-32.3812,-3.0103,0,-32.3812,-3.0103,-32.3812 1/2:15:0,5,10:0:0:5,10:180,336:-42.1669,-27.4715,-25.9664,-15.0469,0,-12.0366 1/1:61:0,59,2:0:0:59,2:2057,63:-185.082,-17.7608,0,-180.016,-12.3797,-179.414 1/2:60:0,22,37:0:0:22,37:744,1295:-165.639,-105.332,-98.7092,-60.3571,0,-49.219 1/1:122:0,122,0:0:0:122,0:4302,0:-387.359,-36.7257,0,-387.359,-36.7257,-387.359 1/1:65:0,63,0:0:0:63,0:2220,0:-199.733,-18.9649,0,-199.733,-18.9649,-199.733 1/1:54:0,54,0:0:0:54,0:1887,0:-170.105,-16.2556,0,-170.105,-16.2556,-170.105 1/2:72:0,29,42:0:0:29,42:977,1426:-194.788,-115.624,-106.894,-79.1437,0,-66.5005 1/2:52:0,36,15:0:0:36,15:1264,507:-144.079,-41.1908,-30.3537,-102.982,0,-98.467 1/1:61:0,58,3:0:0:58,3:2015,99:-181.29,-17.4597,0,-173.293,-9.13241,-172.39 1/1:36:0,36,0:0:0:36,0:1257,0:-113.43,-10.8371,0,-113.43,-10.8371,-113.43 chr08 2179317 . TTA TTG 9107.6 PASS AB=0.547837;ABP=18.1765;AC=13;AF=0.309524;AN=42;AO=508;CIGAR=2M1X;DP=1483;DPB=1483;DPRA=0.98004;EPP=1097.45;EPPR=2098.49;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.3957;MQMR=59.9752;NS=21;NUMALT=1;ODDS=8.16681;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18076;QR=34289;RO=969;RPL=507;RPP=1097.45;RPPR=2098.49;RPR=1;RUN=1;SAF=0;SAP=1106.12;SAR=508;SRF=0;SRP=2107.17;SRR=969;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:50,41:50:1777:41:1476:-105.74,0,-132.818 0/1:63:25,38:25:898:38:1356:-103.359,0,-62.1759 0/1:43:19,24:19:659:24:860:-64.7775,0,-46.6868 0/1:78:27,51:27:966:51:1820:-140.581,0,-63.7771 0/1:144:71,70:71:2518:70:2495:-181.7,0,-184.081 0/0:45:45,0:45:1579:0:0:0,-13.5463,-142.399 0/0:138:138,0:138:4881:0:0:0,-41.5421,-439.359 1/1:85:0,85:0:0:85:3013:-271.389,-25.5876,0 0/1:121:39,82:39:1393:82:2921:-225.165,0,-89.2446 0/1:17:5,9:5:180:9:320:-24.5692,0,-11.9778 0/0:12:12,0:12:426:0:0:0,-3.61236,-38.6779 0/1:14:5,9:5:177:9:324:-24.6495,0,-12.0624 0/0:70:68,2:68:2387:2:72:0,-14.2354,-208.251 0/1:64:26,38:26:886:38:1346:-102.086,0,-60.7824 0/0:134:134,0:134:4754:0:0:0,-40.338,-428.019 0/0:71:71,0:71:2502:0:0:0,-21.3731,-225.431 0/0:58:58,0:58:2049:0:0:0,-17.4597,-184.68 0/1:75:34,41:34:1219:41:1460:-109.11,0,-87.4397 0/1:53:38,15:38:1349:15:518:-30.991,0,-105.755 0/0:64:61,3:61:2161:3:95:0,-10.4079,-185.899 0/0:43:43,0:43:1528:0:0:0,-12.9443,-137.812 chr08 2180520 . C T 20595.1 PASS AB=0.461735;ABP=12.9813;AC=29;AF=0.690476;AN=42;AO=1007;CIGAR=1X;DP=1528;DPB=1528;DPRA=0.771505;EPP=2189.68;EPPR=1134.35;GTI=0;LEN=1;MEANALT=1;MQM=59.9861;MQMR=60;NS=21;NUMALT=1;ODDS=5.14525;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35989;QR=18645;RO=521;RPL=0;RPP=2189.68;RPPR=1134.35;RPR=1007;RUN=1;SAF=0;SAP=2189.68;SAR=1007;SRF=0;SRP=1134.35;SRR=521;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:83:55,28:55:1953:28:1007:-65.9608,0,-151.058 0/1:20:9,11:9:324:11:392:-29.5995,0,-23.4853 0/1:124:75,49:75:2696:49:1740:-119.556,0,-205.556 0/1:61:29,32:29:1044:32:1148:-85.2652,0,-75.912 0/1:151:93,58:93:3319:58:2056:-139.856,0,-253.473 1/1:44:2,42:2:72:42:1488:-127.375,-6.4086,0 1/1:114:0,114:0:0:114:4087:-368.015,-34.3174,0 0/0:93:93,0:93:3336:0:0:0,-27.9958,-300.457 0/1:128:62,66:62:2220:66:2344:-172.686,0,-161.533 0/1:32:14,18:14:500:18:644:-48.6576,0,-35.7032 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:24:10,14:10:356:14:492:-37.3876,0,-25.1565 1/1:112:1,111:1:36:111:3976:-354.432,-30.1171,0 0/1:62:29,33:29:1029:33:1188:-88.5647,0,-74.2573 1/1:193:2,191:2:72:191:6842:-609.011,-51.2621,0 1/1:28:1,27:1:36:27:959:-83.0271,-4.83057,0 1/1:43:0,43:0:0:43:1531:-138.082,-12.9443,0 0/1:69:40,29:40:1436:29:1044:-73.5037,0,-108.767 0/1:30:6,24:6:216:24:864:-69.0517,0,-10.7596 1/1:79:0,79:0:0:79:2823:-254.309,-23.7814,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 chr08 2230324 . C T 13143.8 PASS AB=0.533937;ABP=11.8534;AC=13;AF=0.309524;AN=42;AO=564;CIGAR=1X;DP=1483;DPB=1483;DPRA=1.27818;EPP=78.4728;EPPR=53.432;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9989;NS=21;NUMALT=1;ODDS=0.840816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19992;QR=32333;RO=918;RPL=559;RPP=1184.68;RPPR=1961.83;RPR=5;RUN=1;SAF=207;SAP=89.6382;SAR=357;SRF=382;SRP=59.109;SRR=536;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:34,40:34:1205:40:1432:-106.901,0,-86.4777 0/1:90:38,52:38:1344:52:1847:-139.417,0,-94.1647 0/1:49:23,26:23:824:26:901:-66.6515,0,-59.7328 0/1:75:42,33:42:1477:33:1161:-82.2185,0,-110.645 0/1:133:52,81:52:1840:81:2843:-216.07,0,-125.841 0/0:37:37,0:37:1281:0:0:0,-11.1381,-115.586 0/0:100:100,0:100:3506:0:0:0,-30.103,-315.75 1/1:87:0,87:0:0:87:3092:-278.507,-26.1896,0 0/1:118:53,65:53:1858:65:2288:-170.659,0,-131.974 0/1:12:4,8:4:144:8:288:-22.655,0,-9.70126 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3808 0/1:30:9,21:9:320:21:756:-59.3363,0,-20.1115 0/0:36:35,1:35:1214:1:36:0,-7.2388,-105.963 0/1:73:27,46:27:968:46:1639:-125.823,0,-65.4622 0/0:83:83,0:83:2912:0:0:0,-24.9855,-262.314 0/0:42:41,0:41:1459:0:0:0,-12.3422,-131.246 0/0:40:40,0:40:1400:0:0:0,-12.0412,-126.294 0/1:145:71,74:71:2496:74:2637:-193.926,0,-181.24 0/1:85:59,26:59:2080:26:928:-58.2507,0,-161.881 0/0:59:55,4:55:1932:4:144:0,-4.44715,-160.841 0/0:105:105,0:105:3717:0:0:0,-31.6081,-334.733 chr08 2230331 . A T 22717.1 PASS AB=0.464037;ABP=12.6938;AC=29;AF=0.690476;AN=42;AO=900;CIGAR=1X;DP=1456;DPB=1456;DPRA=0;EPP=67.9035;EPPR=81.7613;GTI=0;LEN=1;MEANALT=1;MQM=59.9989;MQMR=60;NS=21;NUMALT=1;ODDS=0.841053;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31795;QR=19821;RO=556;RPL=899;RPP=1948.66;RPPR=1201.68;RPR=1;RUN=1;SAF=367;SAP=69.496;SAR=533;SRF=206;SRP=83.9953;SRR=350;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:70:38,32:38:1351:32:1136:-81.4768,0,-100.817 0/1:87:51,36:51:1809:36:1272:-88.5933,0,-136.9 0/1:43:24,19:24:839:19:669:-47.5897,0,-62.883 0/1:74:33,41:33:1176:41:1447:-108.249,0,-83.8715 0/1:130:78,52:78:2775:52:1833:-126.115,0,-210.858 1/1:33:0,33:0:0:33:1156:-104.343,-9.93399,0 1/1:99:0,99:0:0:99:3528:-317.731,-29.802,0 0/0:89:88,1:88:3149:1:36:0,-23.1934,-280.035 0/1:113:61,52:61:2192:52:1824:-130.422,0,-163.529 0/1:12:9,3:9:324:3:108:-6.46281,0,-25.8935 1/1:10:0,10:0:0:10:356:-32.3808,-3.0103,0 0/1:30:21,9:21:748:9:320:-20.1115,0,-58.6144 1/1:35:1,34:1:36:34:1197:-104.435,-6.93778,0 0/1:74:47,27:47:1659:27:944:-62.9951,0,-127.321 1/1:83:0,83:0:0:83:2934:-264.296,-24.9855,0 1/1:43:0,43:0:0:43:1517:-136.822,-12.9443,0 1/1:41:0,41:0:0:41:1435:-129.445,-12.3422,0 0/1:145:74,71:74:2655:71:2519:-183.312,0,-195.546 0/1:84:26,58:26:932:58:2075:-161.733,0,-58.9123 1/1:56:4,52:4:140:52:1840:-152.933,-3.9131,0 1/1:105:1,104:1:36:104:3649:-325.018,-28.0099,0 chr08 2241709 . TTCTC TTCTT,GTCTT 61943.4 PASS AB=0.491878,0.506173;ABP=3.89215,3.51966;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1954,949;CIGAR=4M1X,1X3M1X;DP=2911;DPB=2911;DPRA=0,2.00813;EPP=4228.71,2063.74;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.14286,2.3125;MQM=59.9759,59.96;MQMR=0;NS=21;NUMALT=2;ODDS=12.3168;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69928,33519;QR=0;RO=0;RPL=1952,949;RPP=4228.71,2063.74;RPPR=0;RPR=2,0;RUN=1,1;SAF=0,0;SAP=4246.07,2063.74;SAR=1954,949;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:166:0,57,107:0:0:57,107:2040,3761:-472.522,-306.164,-289.006,-166.407,0,-134.196 1/2:56:0,34,21:0:0:34,21:1213,751:-160.117,-61.235,-51,-98.8791,0,-92.5574 1/2:157:0,84,73:0:0:84,73:3012,2576:-455.784,-210.115,-184.829,-246.024,0,-224.049 1/2:144:0,73,71:0:0:73,71:2612,2508:-417.598,-204.6,-182.625,-213.353,0,-191.98 1/2:326:0,142,184:0:0:142,184:5088,6494:-944.126,-529.165,-486.419,-415.317,0,-359.927 1/1:104:0,103,1:0:0:103,1:3674,35:-330.512,-31.0061,0,-327.664,-27.8085,-327.363 1/1:145:0,144,0:0:0:144,0:5168,0:-464.899,-43.3483,0,-464.899,-43.3483,-464.899 2/2:164:0,1,162:0:0:1,162:32,5738:-516.202,-513.624,-513.323,-48.7669,-46.2085,0 1/2:215:0,113,102:0:0:113,102:4026,3621:-623.537,-295.381,-261.365,-328.512,0,-297.807 1/2:39:0,13,26:0:0:13,26:468,902:-111.856,-73.6656,-69.7522,-38.5463,0,-30.7195 1/1:15:0,15,0:0:0:15,0:536,0:-48.5748,-4.51545,0,-48.5748,-4.51545,-48.5748 1/2:75:0,42,33:0:0:42,33:1501,1151:-216.349,-93.9608,-81.3176,-122.74,0,-112.806 1/1:200:0,198,1:0:0:198,1:7073,36:-636.31,-59.6039,0,-633.373,-56.6263,-633.072 1/2:156:0,90,66:0:0:90,66:3227,2313:-451.738,-188.564,-161.471,-263.528,0,-243.66 1/1:330:0,329,1:0:0:329,1:11792,36:-1060.77,-99.0389,0,-1057.83,-95.7416,-1057.53 1/1:74:0,74,0:0:0:74,0:2656,0:-239.286,-22.2762,0,-239.286,-22.2762,-239.286 1/1:93:0,93,0:0:0:93,0:3319,0:-298.928,-27.9958,0,-298.928,-27.9958,-298.928 1/2:150:0,79,71:0:0:79,71:2824,2520:-435.941,-205.679,-181.898,-230.618,0,-209.245 1/2:55:0,30,25:0:0:30,25:1076,897:-161.288,-73.525,-64.4941,-88.122,0,-80.5962 1/1:182:0,177,5:0:0:177,5:6335,180:-569.88,-53.2823,0,-555.193,-38.2354,-553.688 1/1:65:0,63,0:0:0:63,0:2256,0:-202.943,-18.9649,0,-202.943,-18.9649,-202.943 chr08 2246823 . C G 41438.1 PASS AB=0.557769;ABP=46.6647;AC=30;AF=0.714286;AN=42;AO=2000;CIGAR=1X;DP=2756;DPB=2756;DPRA=1.53391;EPP=4345.96;EPPR=1640.3;GTI=0;LEN=1;MEANALT=1.05;MQM=59.985;MQMR=60;NS=21;NUMALT=1;ODDS=14.8338;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71434;QR=26953;RO=754;RPL=0;RPP=4345.96;RPPR=1640.3;RPR=2000;RUN=1;SAF=2000;SAP=4345.96;SAR=0;SRF=754;SRP=1640.3;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:79,79:79:2832:79:2829:-207.286,0,-207.556 0/1:120:51,69:51:1820:69:2457:-185.259,0,-127.958 0/1:101:32,69:32:1144:69:2461:-191.339,0,-72.8655 0/1:206:84,120:84:3012:120:4269:-322.617,0,-209.541 0/1:246:134,112:134:4776:112:4006:-286.589,0,-355.946 1/1:185:0,185:0:0:185:6591:-593.27,-55.6906,0 1/1:200:1,199:1:36:199:7120:-637.25,-56.6077,0 0/0:87:87,0:87:3081:0:0:0,-26.1896,-277.519 0/1:265:113,152:113:4052:152:5407:-406.986,0,-285.094 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:27:0,27:0:0:27:956:-86.3557,-8.12781,0 0/1:66:29,37:29:1040:37:1328:-99.9543,0,-74.0464 1/1:152:0,152:0:0:152:5440:-489.729,-45.7566,0 0/1:138:73,65:73:2616:65:2312:-166.799,0,-194.146 1/1:204:0,204:0:0:204:7294:-656.506,-61.4101,0 1/1:107:0,107:0:0:107:3844:-346.155,-32.2102,0 1/1:74:0,74:0:0:74:2660:-239.645,-22.2762,0 0/1:90:26,64:26:924:64:2284:-178.729,0,-56.385 0/1:116:43,73:43:1548:73:2608:-200.049,0,-104.694 1/1:138:2,136:2:72:136:4853:-430.087,-34.7054,0 1/1:70:0,70:0:0:70:2503:-225.522,-21.0721,0 chr08 2281468 . C T 26186.2 PASS AB=0.518721;ABP=6.34386;AC=29;AF=0.690476;AN=42;AO=1297;CIGAR=1X;DP=2001;DPB=2001;DPRA=0;EPP=2819.41;EPPR=1529.56;GTI=1;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.85466;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46102;QR=25008;RO=703;RPL=0;RPP=2819.41;RPPR=1529.56;RPR=1297;RUN=1;SAF=0;SAP=2819.41;SAR=1297;SRF=0;SRP=1529.56;SRR=703;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:30,54:30:1072:54:1932:-148.87,0,-71.5059 0/1:51:28,23:28:996:23:824:-59.1308,0,-74.6024 0/1:149:84,65:84:2991:65:2304:-162.768,0,-224.569 0/1:74:43,31:43:1536:31:1100:-77.0341,0,-116.257 0/1:180:96,84:96:3406:84:2958:-212.268,0,-252.57 1/1:47:1,46:1:36:46:1644:-144.65,-10.5501,0 1/1:195:0,195:0:0:195:6944:-625.031,-58.7009,0 0/0:175:174,1:174:6176:1:36:0,-49.082,-552.344 0/1:212:88,124:88:3139:124:4391:-331.544,0,-218.918 0/1:11:9,2:9:320:2:72:-3.52539,0,-25.831 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:20:12,8:12:432:8:284:-19.8828,0,-33.2006 1/1:74:0,74:0:0:74:2623:-236.318,-22.2762,0 0/1:78:39,39:39:1392:39:1382:-101.198,0,-102.099 1/1:138:0,138:0:0:138:4927:-443.581,-41.5421,0 1/1:44:0,44:0:0:44:1547:-139.521,-13.2453,0 1/1:90:2,88:2:72:88:3130:-275.09,-20.256,0 0/1:156:67,88:67:2372:88:3136:-235.448,0,-166.717 0/1:80:30,50:30:1068:50:1776:-136.041,0,-72.3497 1/1:100:0,100:0:0:100:3548:-319.532,-30.103,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 chr08 2285541 . G C 115.76 PASS AB=0.278127;ABP=2313.68;AC=20;AF=0.47619;AN=42;AO=1574;CIGAR=1X;DP=5790;DPB=5790;DPRA=0;EPP=3420.91;EPPR=9149.25;GTI=17;LEN=1;MEANALT=1;MQM=17.4422;MQMR=18.5946;NS=21;NUMALT=1;ODDS=9.91607;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56370;QR=150078;RO=4216;RPL=0;RPP=3420.91;RPPR=9157.94;RPR=1574;RUN=1;SAF=1574;SAP=3420.91;SAR=0;SRF=4215;SRP=9149.25;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:449:326,123:326:11591:123:4420:-53.983,0,-399.212 0/1:265:210,55:210:7498:55:1972:-4.2686,0,-266.46 0/1:329:260,69:260:9264:69:2480:-6.42624,0,-329.764 0/1:236:178,58:178:6354:58:2068:-17.0165,0,-213.624 0/1:513:393,120:393:13922:120:4308:-34.635,0,-481.126 0/1:283:222,61:222:7915:61:2188:-14.6249,0,-285.182 0/1:426:316,110:316:11195:110:3921:-43.6781,0,-392.866 0/1:275:201,74:201:7133:74:2656:-31.5965,0,-247.521 0/1:538:256,282:256:9102:282:10112:-274.146,0,-256.626 0/1:27:12,15:12:432:15:540:-14.9198,0,-11.417 0/1:11:6,5:6:212:5:165:-4.35745,0,-6.54346 0/1:77:54,23:54:1936:23:824:-11.7939,0,-68.6092 0/0:386:315,71:315:11203:71:2544:0,-7.3424,-398.349 0/1:343:250,93:250:8908:93:3320:-38.3285,0,-294.679 0/1:544:393,151:393:14003:151:5404:-67.4741,0,-455.251 0/1:235:188,47:188:6715:47:1692:-2.11322,0,-233.999 0/1:221:169,52:169:6041:52:1872:-13.6427,0,-217.811 0/1:139:95,44:95:3362:44:1576:-28.769,0,-117.599 0/1:148:103,45:103:3689:45:1595:-25.6422,0,-122.669 0/1:215:169,46:169:6015:46:1633:-4.93133,0,-207.921 0/1:130:100,30:100:3588:30:1080:-6.16412,0,-117.115 chr08 2285555 . C T 399.737 PASS AB=0.383894;ABP=664.577;AC=20;AF=0.47619;AN=42;AO=2176;CIGAR=1X;DP=5727;DPB=5727;DPRA=0;EPP=4710.78;EPPR=7644.58;GTI=13;LEN=1;MEANALT=1;MQM=17.6636;MQMR=18.6474;NS=21;NUMALT=1;ODDS=0.234938;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77840;QR=126803;RO=3551;RPL=2;RPP=4710.78;RPPR=7653.23;RPR=2174;RUN=1;SAF=2176;SAP=4728.13;SAR=0;SRF=3550;SRP=7705.23;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:447:315,132:315:11251:132:4728:-68.563,0,-384.033 0/1:257:182,75:182:6481:75:2692:-37.2854,0,-223.775 0/1:329:242,87:242:8662:87:3115:-36.8614,0,-303.644 0/1:231:126,105:126:4516:105:3753:-91.8225,0,-135.071 0/1:506:255,251:255:9097:251:8978:-238.316,0,-268.241 0/1:276:181,95:181:6476:95:3416:-63.4922,0,-227.344 0/1:422:312,110:312:11149:110:3920:-44.4847,0,-389.104 0/1:271:183,88:183:6522:88:3148:-53.8598,0,-222.764 0/1:529:387,142:387:13805:142:5093:-68.5792,0,-454.165 0/1:27:21,6:21:737:6:216:-1.1929,0,-24.9498 0/1:11:8,3:8:288:3:108:-1.43376,0,-9.59868 0/0:77:70,7:70:2520:7:252:0,-12.4238,-104.921 0/1:378:186,192:186:6666:192:6895:-187.171,0,-190.841 0/1:341:155,186:155:5513:186:6627:-184.577,0,-146.731 0/1:537:255,282:255:9130:282:10081:-270.073,0,-247.552 0/1:234:127,107:127:4560:107:3794:-96.2901,0,-137.342 0/1:219:165,54:165:5882:54:1932:-17.7694,0,-212.812 0/1:138:106,32:106:3768:32:1137:-9.8371,0,-135.099 0/1:147:91,56:91:3224:56:2007:-40.4094,0,-106.956 0/1:218:121,97:121:4297:97:3473:-88.2825,0,-129.198 0/1:132:63,69:63:2259:69:2475:-66.4055,0,-59.6504 chr08 2320115 . G A 12718.1 PASS AB=0.471952;ABP=12.1461;AC=13;AF=0.309524;AN=42;AO=743;CIGAR=1X;DP=2379;DPB=2379;DPRA=1.35572;EPP=1616.41;EPPR=3538.19;GTI=0;LEN=1;MEANALT=1;MQM=59.6676;MQMR=59.8833;NS=21;NUMALT=1;ODDS=10.6654;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26647;QR=58411;RO=1636;RPL=743;RPP=1616.41;RPPR=3512.24;RPR=0;RUN=1;SAF=743;SAP=1616.41;SAR=0;SRF=1633;SRP=3529.53;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:63,52:63:2256:52:1868:-133.763,0,-168.684 0/1:158:69,89:69:2468:89:3204:-241.001,0,-174.811 0/1:69:36,33:36:1292:33:1180:-85.737,0,-95.8121 0/1:212:113,99:113:4052:99:3552:-256.027,0,-301.031 0/1:313:177,136:177:6326:136:4884:-345.464,0,-475.209 0/0:126:126,0:126:4468:0:0:0,-37.9298,-402.292 0/0:149:146,3:146:5222:3:108:0,-34.7783,-460.024 1/1:98:0,98:0:0:98:3513:-316.36,-29.5009,0 0/1:165:87,78:87:3112:78:2799:-202.444,0,-229.441 0/1:10:3,7:3:108:7:248:-19.6539,0,-7.06487 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:21:11,10:11:396:10:360:-26.4227,0,-29.6611 0/0:134:134,0:134:4752:0:0:0,-40.338,-427.838 0/1:97:43,54:43:1535:54:1914:-143.259,0,-109.242 0/0:162:162,0:162:5787:0:0:0,-48.7669,-519.314 0/0:90:88,2:88:3148:2:72:0,-20.256,-276.708 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/1:87:46,41:46:1628:41:1469:-106.237,0,-120.617 0/1:90:58,32:58:2088:32:1152:-76.8798,0,-161.097 0/0:163:154,9:154:5491:9:324:0,-19.562,-463.269 0/0:78:78,0:78:2778:0:0:0,-23.4803,-250.26 chr08 2330039 . CGTTCT TGTTT,TGTTTT 49407.7 PASS AB=0.713376,0.276615;ABP=437.623,479.353;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2018,318;CIGAR=1X3M1D1M,1X3M1X1M;DP=2358;DPB=2018.33;DPRA=0,0.882181;EPP=4376.36,684.88;EPPR=0;GTI=1;LEN=5,6;MEANALT=2.57143,2.92857;MQM=59.6432,59.8019;MQMR=0;NS=21;NUMALT=2;ODDS=5.07559;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71519,11298;QR=0;RO=0;RPL=2017,317;RPP=4376.36,684.88;RPPR=0;RPR=1,1;RUN=1,1;SAF=2018,318;SAP=4385.04,693.539;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:109:0,82,27:0:0:82,27:2900,958:-314.58,-78.408,-53.7236,-236.526,0,-228.398 1/2:110:0,76,34:0:0:76,34:2704,1222:-320.324,-100.052,-77.1738,-220.63,0,-210.395 1/1:79:0,75,3:0:0:75,3:2639,108:-237.36,-22.5773,0,-228.548,-13.7418,-227.644 1/2:162:0,108,52:0:0:108,52:3851,1848:-464.547,-150.644,-118.133,-313.966,0,-298.313 1/2:188:0,134,53:0:0:134,53:4755,1890:-541.269,-153.956,-113.618,-387.309,0,-371.354 1/1:97:0,88,9:0:0:88,9:3127,315:-281.1,-26.4906,0,-255.472,-0.512682,-252.763 1/2:125:0,96,26:0:0:96,26:3417,927:-353.515,-75.614,-46.7152,-277.95,0,-270.123 1/1:70:0,68,1:0:0:68,1:2383,36:-213.758,-20.47,0,-210.82,-17.5024,-210.519 1/2:174:0,141,32:0:0:141,32:4998,1134:-499.318,-92.1855,-49.7403,-407.127,0,-397.494 1/2:61:0,34,27:0:0:34,27:1209,952:-176.362,-77.8666,-67.6315,-98.8493,0,-90.7215 1/1:74:0,74,0:0:0:74,0:2635,0:-237.397,-22.2762,0,-237.397,-22.2762,-237.397 1/1:49:0,49,0:0:0:49,0:1752,0:-157.964,-14.7505,0,-157.964,-14.7505,-157.964 1/1:198:0,197,0:0:0:197,0:6935,0:-623.295,-59.3029,0,-623.295,-59.3029,-623.295 1/1:191:0,191,0:0:0:191,0:6705,0:-603.461,-57.4967,0,-603.461,-57.4967,-603.461 1/1:160:0,157,1:0:0:157,1:5610,36:-504.621,-47.2617,0,-501.683,-44.3243,-501.382 1/1:141:0,136,0:0:0:136,0:4845,0:-435.39,-40.9401,0,-435.39,-40.9401,-435.39 1/2:69:0,53,13:0:0:53,13:1865,452:-188.585,-36.7591,-20.8045,-151.835,0,-147.922 1/2:54:0,28,26:0:0:28,26:997,927:-157.182,-75.9213,-67.4925,-81.6164,0,-73.7896 1/2:47:0,32,14:0:0:32,14:1143,493:-133.315,-40.1397,-30.5068,-93.1803,0,-88.9659 1/1:148:0,147,0:0:0:147,0:5205,0:-468.353,-44.2514,0,-468.353,-44.2514,-468.353 1/1:52:0,52,0:0:0:52,0:1844,0:-166.239,-15.6536,0,-166.239,-15.6536,-166.239 chr08 2376030 . C T 23493.6 PASS AB=0.420455;ABP=65.8843;AC=29;AF=0.690476;AN=42;AO=1188;CIGAR=1X;DP=1999;DPB=1999;DPRA=0.669065;EPP=2582.72;EPPR=1764.07;GTI=1;LEN=1;MEANALT=1;MQM=59.7618;MQMR=59.9926;NS=21;NUMALT=1;ODDS=6.00002;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42436;QR=28927;RO=811;RPL=1188;RPP=2582.72;RPPR=1764.07;RPR=0;RUN=1;SAF=0;SAP=2582.72;SAR=1188;SRF=0;SRP=1764.07;SRR=811;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:164:110,54:110:3937:54:1936:-125.14,0,-305.147 0/1:71:39,32:39:1385:32:1152:-82.617,0,-103.574 0/1:148:103,45:103:3700:45:1581:-98.0153,0,-288.649 0/1:93:52,41:52:1868:41:1472:-104.78,0,-140.403 0/1:203:106,97:106:3742:97:3455:-249.86,0,-275.872 1/1:74:0,74:0:0:74:2637:-237.531,-22.2762,0 1/1:93:0,93:0:0:93:3344:-301.076,-27.9958,0 0/0:139:139,0:139:4955:0:0:0,-41.8432,-446.096 0/1:230:133,97:133:4765:97:3453:-241.744,0,-359.768 0/1:27:20,7:20:716:7:252:-14.9011,0,-56.6399 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:49:26,23:26:928:23:824:-59.7328,0,-69.0878 1/1:142:0,142:0:0:142:5073:-456.703,-42.7463,0 0/1:32:24,8:24:841:8:284:-16.2704,0,-66.3734 1/1:132:0,132:0:0:132:4720:-424.959,-39.736,0 1/1:45:0,45:0:0:45:1616:-145.721,-13.5464,0 1/1:61:0,61:0:0:61:2180:-196.466,-18.3628,0 0/1:61:29,32:29:1029:32:1144:-84.7746,0,-74.5583 0/1:66:21,45:21:737:45:1616:-125.831,0,-46.7826 1/1:115:7,108:7:252:108:3833:-322.113,-11.5895,0 1/1:47:2,45:2:72:45:1612:-138.525,-7.31169,0 chr08 2392936 . TTCC CTCT 4671.39 PASS AB=0.521028;ABP=4.65412;AC=13;AF=0.309524;AN=42;AO=273;CIGAR=1X2M1X;DP=855;DPB=855;DPRA=1.01863;EPP=595.822;EPPR=1262.46;GTI=0;LEN=4;MEANALT=1.07692;MQM=59.7912;MQMR=60;NS=21;NUMALT=1;ODDS=4.36496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9601;QR=20136;RO=580;RPL=0;RPP=595.822;RPPR=1262.46;RPR=273;RUN=1;SAF=0;SAP=595.822;SAR=273;SRF=0;SRP=1262.46;SRR=580;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:15,21:15:521:21:711:-53.4661,0,-36.3808 0/1:15:11,4:11:377:4:138:-8.24436,0,-29.7431 0/1:33:22,11:22:753:11:390:-25.5036,0,-58.1506 0/1:31:11,20:11:376:20:718:-55.6165,0,-24.837 0/1:57:28,29:28:978:29:1033:-76.1247,0,-71.1732 0/0:59:59,0:59:2015:0:0:0,-17.7608,-181.62 0/0:67:67,0:67:2334:0:0:0,-20.169,-210.319 1/1:49:0,49:0:0:49:1721:-155.167,-14.7505,0 0/1:53:28,25:28:980:25:870:-62.6554,0,-72.5578 0/1:6:4,2:4:143:2:63:-4.17726,0,-11.4153 0/0:6:6,0:6:211:0:0:0,-1.80618,-19.3335 0/1:11:7,4:7:240:4:137:-9.35631,0,-18.6228 0/0:60:60,0:60:2083:0:0:0,-18.0618,-187.737 0/1:41:18,23:18:641:23:802:-60.1549,0,-45.6773 0/0:57:57,0:57:1947:0:0:0,-17.1587,-175.503 0/0:19:18,0:18:626:0:0:0,-5.41854,-56.3048 0/0:26:26,0:26:912:0:0:0,-7.82678,-82.3948 0/1:101:39,61:39:1361:61:2172:-165.274,0,-92.3243 0/1:44:21,23:21:752:23:810:-59.974,0,-54.7613 0/0:56:55,1:55:1910:1:36:0,-13.2594,-168.578 0/0:28:28,0:28:976:0:0:0,-8.42884,-88.1512 chr08 2421748 . GCC ACC 16015.2 PASS AB=0.502924;ABP=3.06109;AC=29;AF=0.690476;AN=42;AO=878;CIGAR=1X2M;DP=1311;DPB=1311.33;DPRA=0.721176;EPP=1909.56;EPPR=925.886;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9522;MQMR=60;NS=21;NUMALT=1;ODDS=6.01425;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=0;PRO=0;QA=29127;QR=14719;RO=425;RPL=878;RPP=1909.56;RPPR=925.886;RPR=0;RUN=1;SAF=878;SAP=1909.56;SAR=0;SRF=425;SRP=925.886;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:27,38:27:921:38:1243:-92.3148,0,-63.359 0/1:48:27,21:27:933:21:725:-51.1183,0,-69.8316 0/1:77:28,49:28:1000:49:1654:-125.956,0,-67.1365 0/1:54:31,23:31:1088:23:796:-55.7,0,-81.9728 0/1:135:87,48:87:2982:48:1629:-106.249,0,-227.975 1/1:26:0,26:0:0:26:886:-80.0479,-7.82678,0 1/1:78:0,78:0:0:78:2599:-234.058,-23.4803,0 0/0:85:85,0:85:2944:0:0:0,-25.5875,-265.196 0/1:51:17,34:17:586:34:1101:-83.9794,0,-37.7103 0/1:5:3,2:3:105:2:72:-5.33157,0,-8.29082 1/1:8:0,8:0:0:8:280:-25.5393,-2.40824,0 0/1:28:16,12:16:545:12:398:-27.708,0,-40.9422 1/1:97:1,95:1:36:95:3127:-278.128,-25.583,0 0/1:80:42,38:42:1467:38:1228:-86.7177,0,-108.241 1/1:112:0,111:0:0:111:3602:-324.022,-33.4143,0 1/1:64:0,64:0:0:64:2211:-199.25,-19.2659,0 1/1:61:0,61:0:0:61:2059:-185.571,-18.3628,0 0/1:102:44,58:44:1527:58:1911:-141.554,0,-107.015 0/1:38:17,21:17:585:21:661:-48.3451,0,-41.5342 1/1:59:0,54:0:0:54:1802:-162.091,-16.2556,0 1/1:37:0,37:0:0:37:1143:-103.144,-11.1381,0 chr08 2435271 . T C 33502.5 PASS AB=0.468119;ABP=25.3021;AC=13;AF=0.309524;AN=42;AO=1391;CIGAR=1X;DP=4509;DPB=4509;DPRA=1.18211;EPP=2461.76;EPPR=4296.01;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9957;MQMR=59.9987;NS=21;NUMALT=1;ODDS=25.7342;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49549;QR=111590;RO=3116;RPL=664;RPP=9.20626;RPPR=101.532;RPR=727;RUN=1;SAF=732;SAP=11.3293;SAR=659;SRF=1687;SRP=49.3973;SRR=1429;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:230:133,97:133:4772:97:3458:-242.195,0,-360.397 0/1:290:138,152:138:4931:152:5424:-400.993,0,-356.642 0/1:198:105,92:105:3776:92:3269:-234.766,0,-280.375 0/1:231:123,108:123:4424:108:3864:-278.418,0,-328.792 0/1:420:200,220:200:7129:220:7832:-578.48,0,-515.235 0/0:164:163,1:163:5822:1:36:0,-45.7706,-520.495 0/0:349:349,0:349:12487:0:0:0,-105.059,-1123.66 1/1:204:1,203:1:36:203:7258:-649.674,-57.8118,0 0/1:306:187,119:187:6704:119:4217:-287.595,0,-511.319 0/1:86:47,39:47:1684:39:1396:-100.051,0,-125.958 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:94:46,48:46:1644:48:1720:-126.789,0,-119.952 0/0:234:233,1:233:8338:1:36:0,-66.8427,-746.828 0/1:322:164,158:164:5875:158:5599:-407.104,0,-431.928 0/0:331:331,0:331:11887:0:0:0,-99.6409,-1069.68 0/0:169:169,0:169:6051:0:0:0,-50.8741,-544.692 0/0:128:127,0:127:4547:0:0:0,-38.2308,-409.036 0/1:211:103,108:103:3689:108:3832:-281.56,0,-268.693 0/1:137:96,41:96:3433:41:1464:-90.8149,0,-267.941 0/0:242:238,4:238:8523:4:144:0,-59.5356,-753.755 0/0:140:140,0:140:5010:0:0:0,-42.1442,-451.046 chr08 2435323 . A T 29376.4 PASS AB=0.512278;ABP=4.55662;AC=29;AF=0.690476;AN=42;AO=1435;CIGAR=1X;DP=2108;DPB=2108;DPRA=0;EPP=3119.07;EPPR=1462.24;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9965;MQMR=60;NS=21;NUMALT=1;ODDS=11.4892;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51301;QR=24057;RO=672;RPL=1435;RPP=3119.07;RPPR=1462.24;RPR=0;RUN=1;SAF=0;SAP=3119.07;SAR=1435;SRF=0;SRP=1462.24;SRR=672;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:37,39:37:1328:39:1404:-103.781,0,-96.944 0/1:163:95,68:95:3404:68:2436:-170.427,0,-257.506 0/1:81:40,41:40:1425:41:1476:-108.753,0,-104.162 0/1:141:69,72:69:2476:72:2580:-190.004,0,-180.648 0/1:245:137,107:137:4908:107:3832:-271.265,0,-368.06 1/1:107:0,107:0:0:107:3837:-345.524,-32.2102,0 1/1:174:0,174:0:0:174:6207:-558.724,-52.3792,0 0/0:95:94,1:94:3368:1:36:0,-24.9996,-299.738 0/1:149:57,92:57:2040:92:3285:-251.012,0,-139.019 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 1/1:11:0,11:0:0:11:381:-34.6206,-3.31133,0 0/1:38:12,26:12:428:26:924:-72.0385,0,-27.4197 1/1:120:0,120:0:0:120:4270:-384.477,-36.1236,0 0/1:132:67,65:67:2392:65:2340:-171.123,0,-175.802 1/1:85:0,85:0:0:85:3042:-274.009,-25.5876,0 1/1:68:0,68:0:0:68:2436:-219.495,-20.47,0 1/1:16:0,16:0:0:16:557:-50.4556,-4.81648,0 0/1:72:32,40:32:1140:40:1432:-107.503,0,-81.235 0/1:74:25,49:25:896:49:1764:-136.768,0,-58.6841 1/1:155:3,152:3:108:152:5430:-478.755,-36.5845,0 1/1:96:0,96:0:0:96:3416:-307.655,-28.8989,0 chr08 2499514 . C T 36484.1 PASS AB=0.520465;ABP=11.4539;AC=13;AF=0.309524;AN=42;AO=1542;CIGAR=1X;DP=4373;DPB=4373;DPRA=1.40576;EPP=3351.42;EPPR=6141.76;GTI=0;LEN=1;MEANALT=1.17647;MQM=59.9818;MQMR=60;NS=21;NUMALT=1;ODDS=5.6233;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54515;QR=99711;RO=2827;RPL=743;RPP=7.42647;RPPR=22.4291;RPR=799;RUN=1;SAF=743;SAP=7.42647;SAR=799;SRF=1334;SRP=22.4291;SRR=1493;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:270:133,137:133:4692:137:4828:-353.401,0,-341.168 0/1:235:87,148:87:3042:148:5275:-404.146,0,-203.269 0/1:154:73,81:73:2531:81:2875:-212.628,0,-181.678 0/1:231:94,137:94:3317:137:4827:-365.049,0,-229.21 0/1:436:191,245:191:6727:245:8657:-647.883,0,-474.259 0/0:208:206,2:206:7278:2:72:0,-55.7775,-648.239 0/0:223:221,1:221:7805:1:36:0,-63.5099,-698.969 1/1:312:0,312:0:0:312:11039:-993.415,-93.9214,0 0/1:310:154,156:154:5476:156:5544:-405.768,0,-399.65 0/1:33:23,10:23:824:10:348:-21.7211,0,-64.5493 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/1:58:25,32:25:885:32:1144:-85.8873,0,-62.5833 0/0:251:250,1:250:8875:1:36:0,-71.9603,-795.144 0/1:266:142,124:142:5010:124:4347:-311.23,0,-370.975 0/0:321:321,0:321:11268:0:0:0,-96.6306,-1014.02 0/0:172:172,0:172:6110:0:0:0,-51.7772,-550.003 0/0:236:230,4:230:8073:4:144:0,-57.4872,-713.288 0/1:160:80,80:80:2831:80:2838:-207.494,0,-206.863 0/1:168:110,58:110:3854:58:2029:-132.309,0,-296.484 0/0:195:181,14:181:6410:14:476:0,-15.5389,-533.831 0/0:111:111,0:111:3879:0:0:0,-33.4143,-349.308 chr08 2516379 . CTCTATA CTCTGTA,TTCTGTG 38454.6 PASS AB=0.617353,0.370412;ABP=110.548,134.142;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1426,411;CIGAR=4M1X2M,1X3M1X1M1X;DP=1860;DPB=1860.14;DPRA=0,0.833428;EPP=2911.39,769.952;EPPR=0;GTI=1;LEN=1,7;MEANALT=2.66667,3;MQM=59.9355,59.5085;MQMR=0;NS=21;NUMALT=2;ODDS=9.74211;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=49458,13394;QR=0;RO=0;RPL=22,15;RPP=2911.39,769.952;RPPR=0;RPR=1404,396;RUN=1,1;SAF=0,0;SAP=3099.53,895.485;SAR=1426,411;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:91:0,61,27:0:0:61,27:2168,894:-249.007,-72.3202,-53.9574,-176.709,0,-168.581 1/2:82:0,37,44:0:0:37,44:1282,1459:-222.245,-118.046,-106.908,-104.247,0,-91.0015 1/2:61:0,35,26:0:0:35,26:1217,853:-168.196,-69.2375,-58.7015,-99.295,0,-91.4682 1/2:90:0,59,30:0:0:59,30:2040,988:-245.63,-79.8854,-62.1247,-165.778,0,-156.747 1/2:171:0,122,47:0:0:122,47:4236,1588:-473.169,-128.81,-92.0841,-344.455,0,-330.307 1/1:61:0,58,0:0:0:58,0:2033,0:-182.996,-17.4597,0,-182.996,-17.4597,-182.996 1/1:143:0,141,0:0:0:141,0:4955,0:-445.808,-42.4452,0,-445.808,-42.4452,-445.808 2/2:80:0,1,78:0:0:1,78:36,2575:-231.658,-228.72,-228.419,-23.4803,-20.513,0 1/2:125:0,86,37:0:0:86,37:2899,1217:-333.357,-98.4535,-72.5649,-235.004,0,-223.866 1/2:17:0,13,4:0:0:13,4:464,129:-48.5793,-10.7257,-6.81228,-38.1841,0,-36.98 1/1:12:0,11,0:0:0:11,0:368,0:-33.0834,-3.31133,0,-33.0834,-3.31133,-33.0834 1/2:25:0,11,14:0:0:11,14:387,479:-70.7253,-39.2181,-35.9068,-31.8546,0,-27.6402 1/1:62:0,62,0:0:0:62,0:2165,0:-194.754,-18.6639,0,-194.754,-18.6639,-194.754 1/2:92:0,41,50:0:0:41,50:1437,1626:-248.103,-131.191,-118.849,-116.891,0,-101.84 1/1:181:0,181,0:0:0:181,0:6275,0:-564.849,-54.4864,0,-564.849,-54.4864,-564.849 1/1:144:0,142,0:0:0:142,0:4958,0:-446.012,-42.7463,0,-446.012,-42.7463,-446.012 1/1:164:0,162,0:0:0:162,0:5673,0:-510.434,-48.7669,0,-510.434,-48.7669,-510.434 1/2:79:0,47,31:0:0:47,31:1562,905:-198.534,-72.1343,-57.9859,-126.445,0,-117.114 1/2:66:0,43,23:0:0:43,23:1480,681:-174.885,-54.6514,-41.7071,-120.546,0,-113.622 1/1:80:0,79,0:0:0:79,0:2713,0:-244.13,-23.7814,0,-244.13,-23.7814,-244.13 1/1:34:0,34,0:0:0:34,0:1110,0:-100.187,-10.235,0,-100.187,-10.235,-100.187 chr08 2516430 . GTTG CTTA,CTTG 42276.6 PASS AB=0.62002,0.375894;ABP=125.502,133.984;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1534,455;CIGAR=1X2M1X,1X3M;DP=1996;DPB=1996;DPRA=1.08409,0.86141;EPP=3334.05,991.03;EPPR=5.18177;GTI=1;LEN=4,1;MEANALT=1.8,2.33333;MQM=59.7542,59.4462;MQMR=60;NS=21;NUMALT=2;ODDS=7.94402;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54411,16187;QR=36;RO=1;RPL=1534,455;RPP=3334.05,991.03;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3334.05,991.03;SAR=1534,455;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,66,32:0:0:66,32:2359,1144:-285.895,-93.6228,-73.7548,-192.629,0,-182.996 1/2:81:0,40,41:0:0:40,41:1423,1445:-233.932,-117.961,-105.92,-116.325,0,-103.983 1/2:65:0,39,26:0:0:39,26:1368,891:-183.979,-72.6594,-60.9192,-111.665,0,-103.839 1/2:95:0,61,34:0:0:61,34:2181,1220:-277.668,-99.8628,-81.5,-178.163,0,-167.928 1/2:183:0,132,51:0:0:132,51:4657,1802:-526.31,-147.101,-107.365,-379.562,0,-364.21 1/1:64:0,64,0:0:0:64,0:2245,0:-202.295,-19.2659,0,-202.295,-19.2659,-202.295 1/1:151:0,150,0:0:0:150,0:5348,0:-481.066,-45.1545,0,-481.066,-45.1545,-481.066 2/2:88:0,0,87:0:0:0,87:0,3109:-279.791,-279.791,-279.791,-26.1896,-26.1896,0 1/2:139:0,95,42:0:0:95,42:3365,1489:-394.65,-121.271,-92.6733,-273.373,0,-260.73 1/2:18:0,13,4:0:0:13,4:461,144:-49.3037,-11.7497,-7.83628,-37.5529,0,-36.3488 1/1:13:0,13,0:0:0:13,0:460,0:-41.7352,-3.91339,0,-41.7352,-3.91339,-41.7352 1/2:26:0,11,15:0:0:11,15:393,540:-76.4578,-44.4165,-41.1051,-32.3996,0,-27.8841 1/1:67:0,67,0:0:0:67,0:2387,0:-215.088,-20.169,0,-215.088,-20.169,-215.088 1/2:102:0,44,57:0:0:44,57:1568,2033:-293.388,-165.768,-152.522,-127.675,0,-110.516 1/1:196:0,196,0:0:0:196,0:6907,0:-621.576,-59.0019,0,-621.576,-59.0019,-621.576 1/1:143:0,143,0:0:0:143,0:5084,0:-456.673,-43.0473,0,-456.673,-43.0473,-456.673 1/1:171:0,171,0:0:0:171,0:6047,0:-544.326,-51.4761,0,-544.326,-51.4761,-544.326 1/2:89:0,52,37:0:0:52,37:1856,1332:-260.233,-108.984,-93.3305,-151.607,0,-140.469 1/2:83:0,54,29:0:0:54,29:1931,1038:-242.187,-84.7327,-68.477,-157.811,0,-149.081 1/1:84:0,84,0:0:0:84,0:2977,0:-268.107,-25.2865,0,-268.107,-25.2865,-268.107 1/1:40:1,39,0:1:36:39,0:1394,0:-121.839,-8.44293,0,-122.14,-11.7402,-125.078 chr08 2523297 . T C 10003.6 PASS AB=0.490052;ABP=3.83114;AC=13;AF=0.309524;AN=42;AO=568;CIGAR=1X;DP=1696;DPB=1696;DPRA=1.17483;EPP=1236.41;EPPR=2452.43;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.15139;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20264;QR=40353;RO=1128;RPL=0;RPP=1236.41;RPPR=2452.43;RPR=568;RUN=1;SAF=568;SAP=1236.41;SAR=0;SRF=1128;SRP=2452.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:29,25:29:1040:25:896:-64.7047,0,-77.6587 0/1:55:21,34:21:737:34:1209:-92.5591,0,-50.094 0/1:142:74,68:74:2637:68:2428:-176.03,0,-194.829 0/1:74:36,38:36:1296:38:1348:-99.344,0,-94.6677 0/1:115:61,54:61:2184:54:1936:-139.898,0,-162.208 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.324 0/0:59:58,1:58:2080:1:36:0,-14.1625,-183.872 1/1:99:0,99:0:0:99:3515:-316.562,-29.802,0 0/1:106:60,46:60:2156:46:1645:-116.429,0,-162.398 0/1:20:12,8:12:432:8:288:-20.2468,0,-33.2006 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:50:24,26:24:860:26:932:-69.1474,0,-62.6703 0/0:81:81,0:81:2900:0:0:0,-24.3834,-261.236 0/1:176:78,98:78:2777:98:3500:-262.229,0,-197.189 0/0:218:218,0:218:7778:0:0:0,-65.6245,-700.051 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/0:73:73,0:73:2616:0:0:0,-21.9752,-235.688 0/1:85:37,48:37:1324:48:1728:-130.218,0,-93.8745 0/1:78:55,23:55:1976:23:803:-49.108,0,-154.634 0/0:69:69,0:69:2468:0:0:0,-20.7711,-222.374 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 chr08 2523356 . CAT GAC,CAC 34862 PASS AB=0.568789,0.426078;ABP=43.0421,49.2399;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1241,462;CIGAR=1X1M1X,2M1X;DP=1713;DPB=1713;DPRA=1.89659,1.17285;EPP=2697.81,1006.23;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=2.1,2.35714;MQM=59.9702,59.987;MQMR=60;NS=21;NUMALT=2;ODDS=12.098;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42975,16457;QR=36;RO=1;RPL=0,0;RPP=2697.81,1006.23;RPPR=5.18177;RPR=1241,462;RUN=1,1;SAF=0,0;SAP=2697.81,1006.23;SAR=1241,462;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:41:0,21,20:0:0:21,20:711,716:-116.38,-58.7453,-52.4236,-57.9829,0,-51.9623 1/2:36:0,23,13:0:0:23,13:783,464:-101.693,-38.1841,-31.2604,-63.8594,0,-59.9461 1/2:97:1,54,42:1:36:54,42:1880,1484:-270.479,-117.912,-104.594,-149.922,0,-140.216 1/2:68:0,46,22:0:0:46,22:1605,768:-193.357,-62.815,-48.9676,-130.891,0,-124.268 1/2:163:0,81,81:0:0:81,81:2794,2868:-460.731,-233.761,-209.378,-227.106,0,-202.722 1/1:50:0,49,1:0:0:49,1:1695,36:-152.473,-14.7505,0,-149.535,-11.4532,-149.234 1/1:152:0,152,0:0:0:152,0:5280,0:-475.346,-45.7566,0,-475.346,-45.7566,-475.346 2/2:44:0,0,44:0:0:0,44:0,1565:-141.14,-141.14,-141.14,-13.2453,-13.2453,0 1/2:245:0,146,98:0:0:146,98:5019,3516:-694.354,-286.788,-242.838,-407.558,0,-378.057 1/2:10:0,2,8:0:0:2,8:70,280:-28.8265,-23.1311,-22.529,-6.04527,0,-3.63703 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:40:0,23,17:0:0:23,17:799,612:-115.245,-50.2959,-43.3722,-65.3035,0,-60.186 1/1:133:0,129,2:0:0:129,2:4465,72:-401.617,-38.8329,0,-395.742,-32.9381,-395.14 1/2:112:0,65,46:0:0:65,46:2213,1656:-314.634,-135.121,-115.554,-179.505,0,-165.657 1/1:52:0,52,0:0:0:52,0:1833,0:-165.25,-15.6536,0,-165.25,-15.6536,-165.25 1/1:48:0,46,0:0:0:46,0:1594,0:-143.429,-13.8474,0,-143.429,-13.8474,-143.429 1/1:36:0,36,0:0:0:36,0:1260,0:-113.7,-10.8371,0,-113.7,-10.8371,-113.7 1/2:87:0,40,46:0:0:40,46:1396,1632:-246.643,-133.099,-121.057,-113.671,0,-99.8237 1/2:75:0,53,22:0:0:53,22:1826,788:-212.932,-64.6221,-48.6675,-148.664,0,-142.041 1/1:162:0,162,0:0:0:162,0:5629,0:-506.743,-48.7669,0,-506.743,-48.7669,-506.743 1/1:56:0,55,0:0:0:55,0:1907,0:-171.547,-16.5567,0,-171.547,-16.5567,-171.547 chr08 2523369 . C T 7639.8 PASS AB=0.436401;ABP=36.9836;AC=13;AF=0.309524;AN=42;AO=468;CIGAR=1X;DP=1692;DPB=1692;DPRA=0.963668;EPP=1019.26;EPPR=2652.21;GTI=0;LEN=1;MEANALT=1;MQM=59.9295;MQMR=59.973;NS=21;NUMALT=1;ODDS=15.6982;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16710;QR=43784;RO=1224;RPL=0;RPP=1019.26;RPPR=2660.89;RPR=468;RUN=1;SAF=0;SAP=1019.26;SAR=468;SRF=1;SRP=2652.21;SRR=1223;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:21,20:21:756:20:716:-52.4209,0,-56.025 0/1:37:23,14:23:811:14:500:-34.1981,0,-62.1719 0/1:100:56,44:56:2008:44:1561:-110.677,0,-150.89 0/1:69:45,24:45:1620:24:864:-57.3115,0,-125.319 0/1:160:78,82:78:2796:82:2952:-217.651,0,-203.715 0/0:50:49,1:49:1760:1:36:0,-11.4532,-155.086 0/0:148:148,0:148:5308:0:0:0,-44.5524,-477.853 1/1:44:0,44:0:0:44:1584:-142.852,-13.2453,0 0/1:241:143,98:143:5094:98:3470:-239.964,0,-386.054 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:37:20,17:20:705:17:612:-44.2753,0,-52.6347 0/0:128:128,0:128:4580:0:0:0,-38.5318,-411.739 0/1:108:61,47:61:2173:47:1663:-117.443,0,-163.323 0/0:53:52,1:52:1868:1:36:0,-12.3563,-164.801 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 0/1:92:42,50:42:1496:50:1792:-133.868,0,-107.24 0/1:71:51,20:51:1824:20:708:-42.6725,0,-143.068 0/0:161:161,0:161:5761:0:0:0,-48.4658,-518.604 0/0:52:52,0:52:1852:0:0:0,-15.6536,-166.96 chr08 2552892 . G C 8838.26 PASS AB=0.479303;ABP=6.42599;AC=12;AF=0.285714;AN=42;AO=544;CIGAR=1X;DP=1691;DPB=1691;DPRA=1.31168;EPP=1184.29;EPPR=2485.01;GTI=0;LEN=1;MEANALT=1;MQM=41.807;MQMR=51.1883;NS=21;NUMALT=1;ODDS=1.33848;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19195;QR=40536;RO=1147;RPL=0;RPP=1184.29;RPPR=2485.01;RPR=544;RUN=1;SAF=0;SAP=1184.29;SAR=544;SRF=0;SRP=2493.69;SRR=1147;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:63,45:63:2256:45:1597:-106.743,0,-169.776 0/1:69:35,34:35:1226:34:1220:-86.8973,0,-87.6403 0/1:95:50,45:50:1788:45:1604:-112.102,0,-131.546 0/1:64:33,31:33:1167:31:1087:-76.4825,0,-85.7323 0/1:193:92,101:92:3265:101:3579:-253.47,0,-234.844 0/0:51:50,1:50:1754:1:27:0,-12.6633,-152.76 0/0:118:118,0:118:4158:0:0:0,-35.5215,-371.655 1/1:101:0,101:0:0:101:3584:-315.922,-30.404,0 0/1:132:66,66:66:2338:66:2314:-161.217,0,-169.685 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2628 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2414 0/1:16:9,7:9:320:7:239:-16.5117,0,-24.2286 0/0:83:83,0:83:2948:0:0:0,-24.9855,-263.832 0/1:107:43,64:43:1492:64:2246:-164.56,0,-101.943 0/0:150:150,0:150:5298:0:0:0,-45.1545,-474.093 0/0:61:61,0:61:2133:0:0:0,-18.3628,-190.574 0/0:72:72,0:72:2541:0:0:0,-21.6742,-227.768 0/1:77:43,34:43:1505:34:1186:-80.6816,0,-112.115 0/1:57:44,13:44:1567:13:440:-21.4637,0,-123.672 0/0:81:79,2:79:2810:2:72:0,-17.6935,-244.163 0/0:48:48,0:48:1682:0:0:0,-14.4494,-150.473 chr08 2564393 . G T 5800.25 PASS AB=0.52093;ABP=5.46457;AC=13;AF=0.309524;AN=42;AO=357;CIGAR=1X;DP=1072;DPB=1072;DPRA=1.30159;EPP=778.226;EPPR=1555.61;GTI=0;LEN=1;MEANALT=1;MQM=59.5434;MQMR=59.3203;NS=21;NUMALT=1;ODDS=5.51778;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12512;QR=25096;RO=715;RPL=0;RPP=778.226;RPPR=1555.61;RPR=357;RUN=1;SAF=0;SAP=778.226;SAR=357;SRF=0;SRP=1555.61;SRR=715;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:20,25:20:696:25:892:-67.0533,0,-49.3434 0/1:20:10,10:10:360:10:352:-25.9894,0,-26.7059 0/1:75:30,45:30:1058:45:1592:-120.939,0,-72.9436 0/1:46:16,30:16:559:30:1044:-80.4138,0,-36.7634 0/1:97:42,55:42:1480:55:1955:-146.787,0,-104.267 0/0:34:33,1:33:1171:1:36:0,-6.63674,-102.09 0/0:85:85,0:85:2949:0:0:0,-25.5875,-265.515 1/1:17:0,17:0:0:17:576:-52.027,-5.11751,0 0/1:124:57,67:57:2030:67:2372:-176.41,0,-145.575 0/1:10:4,6:4:140:6:212:-16.4145,0,-9.93428 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7255 0/1:24:10,14:10:345:14:496:-37.7449,0,-24.1561 0/0:93:93,0:93:3280:0:0:0,-27.9958,-295.224 0/1:86:48,38:48:1677:38:1283:-89.8755,0,-125.189 0/0:54:53,1:53:1874:1:36:0,-12.6573,-165.314 0/0:24:24,0:24:833:0:0:0,-7.22472,-75.2826 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:59:30,29:30:1044:29:1014:-73.8029,0,-76.4816 0/1:59:42,17:42:1468:17:580:-34.7411,0,-114.631 0/0:70:68,2:68:2358:2:72:0,-14.2354,-205.609 0/0:35:35,0:35:1243:0:0:0,-10.536,-111.962 chr08 2564411 . C G 18224.7 PASS AB=0.455882;ABP=14.5063;AC=29;AF=0.690476;AN=42;AO=717;CIGAR=1X;DP=1110;DPB=1110;DPRA=2.87105;EPP=120.545;EPPR=7.0383;GTI=0;LEN=1;MEANALT=1;MQM=59.3291;MQMR=59.5267;NS=21;NUMALT=1;ODDS=2.92008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25578;QR=14016;RO=393;RPL=260;RPP=120.545;RPPR=7.0383;RPR=457;RUN=1;SAF=0;SAP=1559.96;SAR=717;SRF=0;SRP=856.399;SRR=393;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:29,21:29:1023:21:752:-52.8849,0,-77.3233 0/1:24:14,10:14:487:10:360:-25.5018,0,-36.9334 0/1:78:48,30:48:1716:30:1059:-72.1319,0,-131.235 0/1:50:33,17:33:1184:17:608:-39.9569,0,-91.8037 0/1:98:58,40:58:2067:40:1415:-98.1234,0,-156.755 1/1:35:1,34:1:32:34:1199:-105.004,-7.33674,0 1/1:86:0,86:0:0:86:3068:-276.224,-25.8886,0 0/0:19:19,0:19:667:0:0:0,-5.71957,-59.903 0/1:123:67,56:67:2392:56:1991:-142.369,0,-178.509 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:26:16,10:16:576:10:360:-24.9175,0,-44.3436 1/1:93:0,93:0:0:93:3336:-300.263,-27.9958,0 0/1:90:42,48:42:1500:48:1707:-126.689,0,-108.202 1/1:55:1,54:1:36:54:1920:-169.45,-12.9584,0 1/1:23:0,23:0:0:23:808:-73.0378,-6.92369,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:65:35,30:35:1260:30:1063:-76.199,0,-94.1289 0/1:65:22,43:22:788:43:1548:-120.02,0,-51.6569 1/1:70:2,68:2:72:68:2440:-212.92,-14.2354,0 1/1:35:0,35:0:0:35:1260:-113.684,-10.5361,0 chr08 2584490 . CGTCC TGTCT,CGTCT 37377.2 PASS AB=0.559748,0.430189;ABP=27.6613,36.664;AC=29,13;AF=0.690476,0.309524;AN=42;AO=998,409;CIGAR=1X3M1X,4M1X;DP=1420;DPB=1420;DPRA=1.0097,1.04592;EPP=51.9663,26.8434;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.2,2.61538;MQM=59.9379,59.9976;MQMR=0;NS=21;NUMALT=2;ODDS=11.9306;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34531,14545;QR=0;RO=0;RPL=7,3;RPP=2109.76,865.276;RPPR=0;RPR=991,406;RUN=1,1;SAF=431,174;SAP=43.2543,22.7659;SAR=567,235;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,26,28:0:0:26,28:879,1004:-153.198,-81.9525,-74.1258,-71.2972,0,-62.8683 1/2:61:0,37,24:0:0:37,24:1279,851:-173.605,-69.6847,-58.5466,-104.271,0,-97.0464 1/2:21:0,12,9:0:0:12,9:400,307:-57.6206,-25.2501,-21.6378,-32.7081,0,-29.9988 1/2:66:0,30,34:0:0:30,34:1030,1204:-181.79,-98.161,-89.1301,-83.7053,0,-73.4702 1/2:94:0,46,45:0:0:46,45:1579,1599:-258.583,-130.381,-116.534,-128.277,0,-114.731 1/1:78:0,78,0:0:0:78,0:2669,0:-240.457,-23.4803,0,-240.457,-23.4803,-240.457 1/1:79:0,78,0:0:0:78,0:2680,0:-241.187,-23.4803,0,-241.187,-23.4803,-241.187 2/2:67:0,0,66:0:0:0,66:0,2346:-211.186,-211.186,-211.186,-19.868,-19.868,0 1/2:98:0,64,34:0:0:64,34:2219,1216:-279.865,-99.5115,-80.2456,-180.708,0,-170.473 1/2:6:0,3,3:0:0:3,3:106,108:-17.8016,-9.17208,-8.26899,-8.98607,0,-8.08298 1/1:12:0,12,0:0:0:12,0:406,0:-36.8636,-3.61236,0,-36.8636,-3.61236,-36.8636 1/2:21:0,12,9:0:0:12,9:419,320:-60.5115,-26.4331,-22.8207,-34.4311,0,-31.7218 1/1:71:0,71,0:0:0:71,0:2442,0:-220.037,-21.3731,0,-220.037,-21.3731,-220.037 1/2:67:0,42,25:0:0:42,25:1423,892:-188.44,-73.0739,-60.4307,-115.716,0,-108.191 1/1:116:0,116,0:0:0:116,0:4089,0:-368.201,-34.9195,0,-368.201,-34.9195,-368.201 1/1:32:0,31,1:0:0:31,1:1096,36:-98.5897,-9.33193,0,-95.6521,-6.03469,-95.3511 1/1:24:0,24,0:0:0:24,0:825,0:-74.5642,-7.22472,0,-74.5642,-7.22472,-74.5642 1/2:187:0,96,91:0:0:96,91:3342,3239:-535.931,-264.339,-235.44,-271.944,0,-244.55 1/2:118:0,77,40:0:0:77,40:2668,1423:-332.841,-116.005,-92.8254,-216.868,0,-204.827 1/1:53:0,52,0:0:0:52,0:1796,0:-161.561,-15.6536,0,-161.561,-15.6536,-161.561 1/1:93:0,91,0:0:0:91,0:3184,0:-286.485,-27.3937,0,-286.485,-27.3937,-286.485 chr08 2610250 . T A 8054.58 PASS AB=0.55122;ABP=21.6956;AC=13;AF=0.309524;AN=42;AO=504;CIGAR=1X;DP=1401;DPB=1401;DPRA=1.26291;EPP=1097.43;EPPR=1948.65;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9911;NS=21;NUMALT=1;ODDS=0.341955;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17162;QR=31413;RO=896;RPL=504;RPP=1097.43;RPPR=1948.65;RPR=0;RUN=1;SAF=504;SAP=1097.43;SAR=0;SRF=896;SRP=1948.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:50,51:50:1748:51:1740:-126.478,0,-127.197 0/1:61:28,33:28:965:33:1138:-84.3608,0,-68.796 0/1:71:28,43:28:1000:43:1459:-110.225,0,-68.9422 0/1:123:47,76:47:1641:76:2576:-195.066,0,-110.949 0/1:151:67,84:67:2347:84:2875:-213.535,0,-166.032 0/0:55:52,3:52:1821:3:95:0,-7.69244,-155.305 0/0:94:94,0:94:3278:0:0:0,-28.2968,-295.24 1/1:45:0,45:0:0:45:1533:-138.259,-13.5464,0 0/1:88:35,53:35:1247:53:1813:-136.959,0,-86.0434 0/1:13:3,10:3:104:10:352:-28.1048,0,-5.78942 0/0:6:6,0:6:208:0:0:0,-1.80618,-19.0591 0/1:27:15,12:15:528:12:390:-27.2842,0,-39.7236 0/0:90:89,1:89:3126:1:32:0,-23.8934,-278.368 0/1:44:17,27:17:600:27:908:-68.7809,0,-41.0839 0/0:60:59,0:59:2062:0:0:0,-17.7608,-185.488 0/0:44:44,0:44:1554:0:0:0,-13.2453,-140.15 0/0:59:59,0:59:2083:0:0:0,-17.7608,-187.74 0/1:64:23,41:23:791:41:1401:-107.117,0,-52.24 0/1:77:55,22:55:1955:22:742:-43.9139,0,-153.046 0/0:54:51,3:51:1770:3:108:0,-6.18045,-149.496 0/0:74:74,0:74:2585:0:0:0,-22.2762,-232.898 chr08 2635380 . T A 52961.1 PASS AB=0.508886;ABP=4.16808;AC=29;AF=0.690476;AN=42;AO=2094;CIGAR=1X;DP=3094;DPB=3094;DPRA=0.887576;EPP=4550.07;EPPR=2174.48;GTI=0;LEN=1;MEANALT=1;MQM=52.3682;MQMR=57.434;NS=21;NUMALT=1;ODDS=12.6051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73764;QR=35456;RO=1000;RPL=1292;RPP=251.993;RPPR=14.2672;RPR=802;RUN=1;SAF=1292;SAP=251.993;SAR=802;SRF=536;SRP=14.2672;SRR=464;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:187:91,96:91:3264:96:3367:-242.414,0,-237.606 0/1:103:59,44:59:2099:44:1559:-106.756,0,-157.951 0/1:139:78,61:78:2778:61:2155:-148.645,0,-208.088 0/1:111:52,59:52:1846:59:2095:-153.984,0,-132.641 0/1:241:123,118:123:4336:118:4165:-298.286,0,-316.124 1/1:113:1,112:1:36:112:3950:-344.857,-30.4181,0 1/1:275:2,273:2:72:273:9606:-836.996,-75.9465,0 0/0:165:165,0:165:5844:0:0:0,-49.6699,-525.571 0/1:291:148,143:148:5241:143:5059:-364.733,0,-383.576 0/1:19:15,4:15:536:4:144:-7.32763,0,-42.8275 1/1:17:0,17:0:0:17:593:-53.313,-5.11751,0 0/1:35:10,25:10:356:25:860:-65.988,0,-21.8359 1/1:173:0,173:0:0:173:6123:-544.299,-52.0782,0 0/1:214:101,113:101:3575:113:3990:-289.292,0,-256.773 1/1:229:1,228:1:36:228:7980:-702.501,-65.3376,0 1/1:71:0,71:0:0:71:2472:-221.238,-21.3731,0 1/1:99:0,99:0:0:99:3512:-314.832,-29.802,0 0/1:173:83,90:83:2923:90:3149:-224.238,0,-210.945 0/1:175:69,106:69:2442:106:3767:-281.804,0,-167.275 1/1:154:2,152:2:72:152:5347:-463.732,-39.5219,0 1/1:110:0,110:0:0:110:3871:-336.441,-33.1133,0 chr08 2636577 . TCAT AAAG,TAAG 56201.5 PASS AB=0.469109,0.530172;ABP=14.5478,14.0174;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1756,903;CIGAR=2X1M1X,1M1X1M1X;DP=2661;DPB=2661.5;DPRA=0.797452,0.945537;EPP=3816.12,1963.85;EPPR=0;GTI=1;LEN=4,4;MEANALT=1.85,2.0625;MQM=59.664,59.9369;MQMR=0;NS=21;NUMALT=2;ODDS=2.89686;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=68,0;PQR=0;PRO=0;QA=62269,31976;QR=0;RO=0;RPL=1756,903;RPP=3816.12,1963.85;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3816.12,1963.85;SAR=1756,903;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:145:0,69,75:0:0:69,75:2455,2635:-414.507,-214.45,-193.679,-200.05,0,-177.473 1/2:83:0,34,49:0:0:34,49:1202,1733:-239.4,-141.504,-131.269,-98.25,0,-83.4996 1/2:95:0,42,53:0:0:42,53:1493,1885:-275.252,-153.613,-140.97,-121.634,0,-105.68 1/2:200:0,92,108:0:0:92,108:3231,3808:-573.364,-310.405,-282.71,-263.311,0,-230.799 1/2:334:0,157,177:0:0:157,177:5540,6255:-960.83,-509.762,-462.501,-451.421,0,-398.138 1/1:140:0,138,2:0:0:138,2:4903,70:-440.98,-41.5421,0,-435.284,-35.4969,-434.682 1/1:217:0,217,0:0:0:217,0:7704,0:-692.944,-65.3235,0,-692.944,-65.3235,-692.944 2/2:157:0,0,157:0:0:0,157:0,5554:-499.983,-499.983,-499.983,-47.2617,-47.2617,0 1/2:243:0,122,121:0:0:122,121:4342,4316:-706.063,-352.192,-315.467,-354.227,0,-317.803 1/2:12:0,2,10:0:0:2,10:72,345:-34.2479,-28.3705,-27.7685,-6.23466,0,-3.22436 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:18:0,4,14:0:0:4,14:144,504:-53.2333,-41.4837,-40.2796,-12.1095,0,-7.89508 1/1:225:0,225,0:0:0:225,0:7962,0:-716.553,-67.7318,0,-716.553,-67.7318,-716.553 1/2:121:0,57,64:0:0:57,64:2019,2256:-348.496,-184.034,-166.875,-164.815,0,-145.549 1/1:140:0,140,0:0:0:140,0:4999,0:-450.013,-42.1442,0,-450.013,-42.1442,-450.013 1/1:95:0,94,1:0:0:94,1:3335,36:-300.004,-28.2968,0,-297.066,-24.9996,-296.765 1/1:73:0,73,0:0:0:73,0:2606,0:-234.786,-21.9752,0,-234.786,-21.9752,-234.786 1/2:61:0,30,31:0:0:30,31:1036,1108:-174.86,-90.6995,-81.6686,-84.5119,0,-75.1799 1/2:80:0,44,36:0:0:44,36:1570,1291:-233.639,-105.657,-92.4115,-128.34,0,-117.502 1/1:145:0,140,4:0:0:140,4:4961,144:-446.254,-42.1442,0,-434.504,-30.3945,-433.3 1/1:71:0,70,1:0:0:70,1:2479,36:-222.968,-21.0721,0,-220.031,-17.7749,-219.73 chr08 2636678 . A C 13949.3 PASS AB=0.447246;ABP=39.4383;AC=13;AF=0.309524;AN=42;AO=816;CIGAR=1X;DP=2874;DPB=2874;DPRA=1.1886;EPP=1774.93;EPPR=4465.39;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.9449;MQMR=59.9849;NS=21;NUMALT=1;ODDS=4.70108;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29070;QR=73532;RO=2055;RPL=816;RPP=1774.93;RPPR=4465.39;RPR=0;RUN=1;SAF=0;SAP=1774.93;SAR=816;SRF=0;SRP=4465.39;SRR=2055;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:234:131,102:131:4685:102:3634:-256.911,0,-351.458 0/1:147:91,56:91:3257:56:2004:-136.377,0,-249.097 0/1:107:62,45:62:2209:45:1604:-112.354,0,-166.863 0/1:169:95,73:95:3385:73:2612:-184.395,0,-253.932 0/1:282:138,144:138:4932:144:5122:-376.232,0,-359.138 0/0:111:111,0:111:3972:0:0:0,-33.4143,-357.671 0/0:235:234,1:234:8363:1:24:0,-68.3422,-750.274 1/1:142:2,140:2:72:140:5008:-444.031,-35.9095,0 0/1:197:134,63:134:4808:63:2230:-141.658,0,-373.571 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:38:19,19:19:684:19:676:-49.7289,0,-50.4512 0/0:118:118,0:118:4213:0:0:0,-35.5215,-379.35 0/1:167:79,87:79:2824:87:3101:-228.916,0,-204.069 0/0:205:205,0:205:7334:0:0:0,-61.7111,-660.106 0/0:112:112,0:112:4005:0:0:0,-33.7154,-360.638 0/0:225:225,0:225:8053:0:0:0,-67.7317,-724.701 0/1:88:38,50:38:1360:50:1779:-133.902,0,-96.21 0/1:71:39,32:39:1396:32:1132:-80.8155,0,-104.566 0/0:139:138,1:138:4956:1:36:0,-38.2449,-442.589 0/0:70:70,0:70:2520:0:0:0,-21.0721,-227.051 chr08 2658035 . TT CT,CC 26033.8 PASS AB=0.498649,0.494595;ABP=3.02204,3.1981;AC=29,13;AF=0.690476,0.309524;AN=42;AO=847,421;CIGAR=1X1M,2X;DP=1274;DPB=1274;DPRA=1.25,1.19555;EPP=1833.57,917.2;EPPR=0;GTI=0;LEN=1,2;MEANALT=2,2.1875;MQM=58.477,52.5748;MQMR=0;NS=21;NUMALT=2;ODDS=4.73946;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29909,14620;QR=0;RO=0;RPL=846,421;RPP=1833.57,917.2;RPPR=0;RPR=1,0;RUN=1,1;SAF=847,421;SAP=1842.25,917.2;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:53:0,32,21:0:0:32,21:1123,725:-150.234,-59.2076,-49.5746,-91.3732,0,-85.0516 1/2:59:0,31,28:0:0:31,28:1096,991:-169.895,-80.6383,-71.3063,-89.6097,0,-81.1808 1/2:65:0,29,36:0:0:29,36:1019,1235:-183.402,-100.515,-91.7846,-83.2352,0,-72.3982 1/2:48:0,11,36:0:0:11,36:377,1247:-131.738,-101.161,-97.8494,-30.5622,0,-19.7252 1/2:136:0,78,57:0:0:78,57:2762,1927:-380.849,-155.972,-132.492,-224.862,0,-207.704 1/1:54:0,54,0:0:0:54,0:1913,0:-172.359,-16.2556,0,-172.359,-16.2556,-172.359 1/1:99:0,98,0:0:0:98,0:3486,0:-313.61,-29.5009,0,-313.61,-29.5009,-313.61 2/2:49:0,0,49:0:0:0,49:0,1700:-151.422,-151.422,-151.422,-14.7505,-14.7505,0 1/2:122:0,60,60:0:0:60,60:2128,2132:-346.55,-173.571,-155.509,-172.983,0,-154.922 1/2:4:0,3,1:0:0:3,1:108,36:-12.0804,-3.26578,-2.36269,-9.17208,0,-8.87105 1/1:8:0,8,0:0:0:8,0:279,0:-25.4475,-2.40824,0,-25.4475,-2.40824,-25.4475 1/2:33:0,17,16:0:0:17,16:593,576:-95.1267,-46.9023,-41.7848,-48.5772,0,-43.7607 1/1:48:0,48,0:0:0:48,0:1686,0:-151.951,-14.4494,0,-151.951,-14.4494,-151.951 1/2:66:0,23,42:0:0:23,42:809,1454:-183.369,-117.522,-110.599,-65.8365,0,-53.1932 1/1:91:0,89,2:0:0:89,2:3168,70:-284.663,-26.7917,0,-279.014,-20.7952,-278.412 1/1:55:0,54,1:0:0:54,1:1906,36:-170.806,-16.2556,0,-167.869,-12.9594,-167.568 1/1:30:0,29,1:0:0:29,1:1002,36:-89.9247,-8.72987,0,-86.9877,-5.43363,-86.6867 1/2:98:0,44,54:0:0:44,54:1525,1867:-273.889,-150.185,-136.939,-124.048,0,-107.792 1/2:56:0,41,15:0:0:41,15:1436,516:-158.76,-42.0185,-29.6763,-117.086,0,-112.57 1/1:45:0,43,2:0:0:43,2:1536,72:-138.16,-12.9443,0,-132.342,-6.76941,-131.74 1/1:55:0,55,0:0:0:55,0:1957,0:-176.404,-16.5567,0,-176.404,-16.5567,-176.404 chr08 2714653 . CGA AGT,CGT 14651.5 PASS AB=0.596288,0.401392;ABP=37.7186,39.4114;AC=29,13;AF=0.690476,0.309524;AN=42;AO=515,191;CIGAR=1X1M1X,2M1X;DP=708;DPB=708;DPRA=1.91667,1.30019;EPP=970.437,383.746;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.65,2;MQM=39.8621,53.1204;MQMR=0;NS=21;NUMALT=2;ODDS=3.14061;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18144,6798;QR=0;RO=0;RPL=18,4;RPP=970.437,383.746;RPPR=0;RPR=497,187;RUN=1,1;SAF=515,191;SAP=1121.32,417.762;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,37,17:0:0:37,17:1305,608:-152.372,-49.7751,-38.637,-102.949,0,-97.8311 1/2:19:0,12,7:0:0:12,7:424,248:-53.8131,-20.5418,-16.9294,-33.6206,0,-31.5134 1/2:27:0,12,15:0:0:12,15:417,531:-75.9295,-43.4181,-39.8057,-32.8539,0,-28.3384 1/2:23:0,14,9:0:0:14,9:492,320:-64.5686,-26.4132,-22.1988,-38.5032,0,-35.7939 1/2:67:0,37,30:0:0:37,30:1320,1068:-190.385,-87.327,-76.1889,-103.408,0,-94.3771 1/1:12:0,12,0:0:0:12,0:432,0:-37.9396,-3.61236,0,-37.9396,-3.61236,-37.9396 1/1:35:0,35,0:0:0:35,0:1214,0:-104.638,-10.5361,0,-104.638,-10.5361,-104.638 2/2:18:0,0,18:0:0:0,18:0,644:-58.0219,-58.0219,-58.0219,-5.41854,-5.41854,0 1/2:49:0,34,14:0:0:34,14:1191,504:-133.966,-41.1019,-30.8669,-92.8682,0,-88.6538 1/2:13:0,4,9:0:0:4,9:144,315:-36.1525,-25.2421,-24.038,-11.2483,0,-8.539 1/1:5:0,5,0:0:0:5,0:176,0:-15.7174,-1.50515,0,-15.7174,-1.50515,-15.7174 1/2:6:0,3,3:0:0:3,3:108,108:-17.2585,-9.13906,-8.23597,-8.46612,0,-7.56303 1/1:19:0,19,0:0:0:19,0:669,0:-57.6383,-5.71957,0,-57.6383,-5.71957,-57.6383 1/2:14:0,8,6:0:0:8,6:284,212:-39.7613,-17.6024,-15.1941,-22.5069,0,-20.7007 1/1:74:0,74,0:0:0:74,0:2603,0:-227.006,-22.2762,0,-227.006,-22.2762,-227.006 1/1:32:0,32,0:0:0:32,0:1120,0:-98.0583,-9.63296,0,-98.0583,-9.63296,-98.0583 1/1:21:0,21,0:0:0:21,0:754,0:-65.6032,-6.32163,0,-65.6032,-6.32163,-65.6032 1/2:121:0,74,47:0:0:74,47:2584,1668:-327.824,-134.668,-112.391,-193.496,0,-179.348 1/2:38:0,22,16:0:0:22,16:792,572:-109.205,-46.9148,-40.2921,-62.6432,0,-57.8267 1/1:27:0,26,0:0:0:26,0:909,0:-75.5121,-7.82678,0,-75.5121,-7.82678,-75.5121 1/1:34:0,34,0:0:0:34,0:1206,0:-104.048,-10.235,0,-104.048,-10.235,-104.048 chr08 2774950 . T C 19895.3 PASS AB=0.504993;ABP=3.16209;AC=29;AF=0.690476;AN=42;AO=904;CIGAR=1X;DP=1332;DPB=1332;DPRA=0.814935;EPP=1586.8;EPPR=743.361;GTI=1;LEN=1;MEANALT=1;MQM=59.9668;MQMR=60;NS=21;NUMALT=1;ODDS=2.42483;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32086;QR=15269;RO=428;RPL=858;RPP=1586.8;RPPR=743.361;RPR=46;RUN=1;SAF=904;SAP=1966.02;SAR=0;SRF=428;SRP=932.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:40,47:40:1432:47:1688:-126.017,0,-102.988 0/1:22:19,3:19:680:3:93:-2.05407,0,-54.9065 0/1:68:39,29:39:1385:29:1021:-71.7302,0,-104.477 0/1:44:26,18:26:932:18:648:-45.4066,0,-70.9535 0/1:118:63,55:63:2244:55:1940:-139.353,0,-166.7 1/1:81:0,81:0:0:81:2865:-258.086,-24.3834,0 1/1:68:0,68:0:0:68:2421:-218.144,-20.47,0 0/0:77:77,0:77:2731:0:0:0,-23.1793,-246.031 0/1:122:52,70:52:1868:70:2497:-188.256,0,-131.674 0/1:12:10,2:10:360:2:72:-3.22436,0,-29.1319 1/1:14:0,14:0:0:14:481:-43.6151,-4.21442,0 0/1:33:14,19:14:504:19:667:-50.4206,0,-35.7641 1/1:82:0,82:0:0:82:2904:-261.595,-24.6845,0 0/1:57:20,37:20:716:37:1320:-101.943,0,-47.609 1/1:169:0,169:0:0:169:6013:-541.275,-50.8741,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:23:0,23:0:0:23:819:-74.0316,-6.92369,0 0/1:83:45,38:45:1593:38:1355:-97.2642,0,-118.673 0/1:55:19,36:19:680:36:1273:-98.2078,0,-44.9725 1/1:53:4,49:4:144:49:1724:-142.129,-2.64097,0 1/1:43:0,43:0:0:43:1529:-137.901,-12.9443,0 chr08 2774998 . TG AC,AG 37918.5 PASS AB=0.474183,0.523709;ABP=8.50419,7.64384;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1175,625;CIGAR=2X,1X1M;DP=1804;DPB=1804;DPRA=0.689344,1.09091;EPP=2554.49,1360.18;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.9,2.06667;MQM=59.9532,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.66665;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41408,22358;QR=0;RO=0;RPL=0,0;RPP=2554.49,1360.18;RPPR=0;RPR=1175,625;RUN=1,1;SAF=0,0;SAP=2554.49,1360.18;SAR=1175,625;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,43,38:0:0:43,38:1483,1348:-230.644,-110.181,-97.2363,-120.813,0,-109.374 1/2:53:0,14,39:0:0:14,39:489,1400:-154.333,-114.559,-110.345,-40.1256,0,-28.3854 1/2:91:0,43,48:0:0:43,48:1516,1719:-263.976,-140.545,-127.601,-123.786,0,-109.337 1/2:191:0,89,100:0:0:89,100:3147,3588:-549.076,-292.771,-265.979,-256.407,0,-226.304 1/2:117:0,45,72:0:0:45,72:1572,2556:-336.483,-208.615,-195.068,-128.22,0,-106.546 1/1:127:0,124,3:0:0:124,3:4407,108:-396.444,-37.3277,0,-387.632,-28.1556,-386.729 1/1:84:0,83,1:0:0:83,1:2971,36:-267.262,-24.9855,0,-264.325,-21.6882,-264.024 2/2:122:0,0,122:0:0:0,122:0,4372:-393.653,-393.653,-393.653,-36.7257,-36.7257,0 1/2:134:0,72,62:0:0:72,62:2569,2228:-391.547,-182.12,-160.446,-209.785,0,-191.121 1/2:9:0,3,6:0:0:3,6:108,216:-26.7966,-17.9843,-17.0812,-9.17208,0,-7.3659 1/1:12:0,12,0:0:0:12,0:426,0:-38.6779,-3.61236,0,-38.6779,-3.61236,-38.6779 1/2:35:0,15,20:0:0:15,20:504,716:-99.5512,-58.7471,-54.2317,-41.1493,0,-35.1287 1/1:199:0,199,0:0:0:199,0:7009,0:-630.865,-59.905,0,-630.865,-59.905,-630.865 1/2:97:0,45,52:0:0:45,52:1550,1859:-277.824,-151.935,-138.389,-126.239,0,-110.586 1/1:144:0,143,0:0:0:143,0:5101,0:-458.984,-43.0473,0,-458.984,-43.0473,-458.984 1/1:26:0,25,0:0:0:25,0:893,0:-80.3301,-7.52575,0,-80.3301,-7.52575,-80.3301 1/1:55:0,55,0:0:0:55,0:1921,0:-173.163,-16.5567,0,-173.163,-16.5567,-173.163 1/2:67:0,34,33:0:0:34,33:1179,1180:-192.397,-96.5741,-86.339,-96.1755,0,-86.2415 1/2:74:0,47,27:0:0:47,27:1608,960:-209.091,-78.5885,-64.4401,-130.853,0,-122.725 1/1:38:0,36,2:0:0:36,2:1247,72:-112.167,-10.8371,0,-106.291,-4.60242,-105.689 1/1:48:0,48,0:0:0:48,0:1708,0:-154.005,-14.4494,0,-154.005,-14.4494,-154.005 chr08 2781087 . C T 17917.8 PASS AB=0.486486;ABP=4.18407;AC=29;AF=0.690476;AN=42;AO=881;CIGAR=1X;DP=1325;DPB=1325;DPRA=1.05417;EPP=1916.08;EPPR=958.478;GTI=0;LEN=1;MEANALT=1;MQM=59.2554;MQMR=59.982;NS=21;NUMALT=1;ODDS=6.97499;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31551;QR=15807;RO=444;RPL=0;RPP=1916.08;RPPR=958.478;RPR=881;RUN=1;SAF=881;SAP=1916.08;SAR=0;SRF=444;SRP=967.144;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:37,39:37:1324:39:1400:-103.336,0,-96.5838 0/1:81:45,36:45:1603:36:1296:-92.5605,0,-120.176 0/1:53:37,16:37:1328:16:572:-35.8563,0,-103.868 0/1:46:23,23:23:824:23:828:-60.9839,0,-60.6359 0/1:116:61,55:61:2170:55:1972:-142.779,0,-160.646 1/1:68:0,68:0:0:68:2440:-219.326,-20.47,0 1/1:82:2,80:2:72:80:2846:-249.451,-17.8477,0 0/0:60:60,0:60:2144:0:0:0,-18.0618,-193.228 0/1:98:42,56:42:1487:56:2012:-151.715,0,-104.623 0/1:7:2,5:2:72:5:180:-14.4269,0,-4.72951 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:13:8,5:8:284:5:180:-12.5701,0,-21.99 1/1:48:0,48:0:0:48:1720:-155,-14.4494,0 0/1:79:50,29:50:1780:29:1040:-70.1297,0,-136.693 1/1:116:1,115:1:36:115:4131:-368.295,-31.3212,0 1/1:50:0,50:0:0:50:1784:-160.786,-15.0515,0 1/1:34:0,34:0:0:34:1224:-110.382,-10.235,0 0/1:82:44,38:44:1551:38:1348:-96.8744,0,-115.197 0/1:89:31,58:31:1100:58:2076:-160.234,0,-72.5186 1/1:61:0,61:0:0:61:2192:-197.499,-18.3628,0 1/1:58:1,57:1:32:57:2022:-179.016,-14.2604,0 chr08 2781118 . G A 57729.2 PASS AB=0.51539;ABP=6.15161;AC=29;AF=0.690476;AN=42;AO=2192;CIGAR=1X;DP=3105;DPB=3105;DPRA=0.896646;EPP=4762.88;EPPR=1985.56;GTI=0;LEN=1;MEANALT=1;MQM=59.4065;MQMR=60;NS=21;NUMALT=1;ODDS=17.0815;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77714;QR=32283;RO=913;RPL=854;RPP=235.073;RPPR=4.26847;RPR=1338;RUN=1;SAF=854;SAP=235.073;SAR=1338;SRF=445;SRP=4.26847;SRR=468;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:62,74:62:2228:74:2620:-195.014,0,-159.844 0/1:215:104,111:104:3661:111:3879:-284.096,0,-264.973 0/1:96:53,43:53:1904:43:1536:-109.627,0,-142.739 0/1:152:80,72:80:2817:72:2580:-186.68,0,-208.011 0/1:230:110,120:110:3935:120:4257:-314.009,0,-285.105 1/1:143:0,143:0:0:143:5032:-452.311,-43.0473,0 1/1:216:2,214:2:72:214:7595:-676.158,-58.1858,0 0/0:164:164,0:164:5735:0:0:0,-49.3689,-516.27 0/1:236:106,130:106:3743:130:4660:-348.392,0,-266.029 0/1:18:5,13:5:180:13:468:-37.0411,0,-11.1335 1/1:16:0,16:0:0:16:553:-50.0758,-4.81648,0 0/1:37:19,18:19:684:18:648:-47.4463,0,-50.7522 1/1:190:0,190:0:0:190:6743:-606.084,-57.1957,0 0/1:158:86,72:86:3064:72:2576:-184.516,0,-228.427 1/1:214:1,213:1:36:213:7613:-681.519,-60.8221,0 1/1:202:2,200:2:72:200:7053:-627.897,-53.9713,0 1/1:137:0,137:0:0:137:4867:-438.06,-41.2411,0 0/1:111:63,48:63:2221:48:1720:-121.635,0,-166.739 0/1:138:52,86:52:1796:86:2990:-227.686,0,-120.375 1/1:193:1,192:1:36:192:6814:-609.624,-54.5005,0 1/1:103:3,100:3:99:100:3510:-306.59,-21.7695,0 chr08 2781124 . CCAT ACAC 56084.2 PASS AB=0.505096;ABP=3.36437;AC=29;AF=0.690476;AN=42;AO=2213;CIGAR=1X2M1X;DP=3182;DPB=3185.75;DPRA=0.853977;EPP=4791.12;EPPR=2048.57;GTI=0;LEN=4;MEANALT=1.85;MQM=59.4374;MQMR=60;NS=21;NUMALT=1;ODDS=17.4427;PAIRED=0;PAIREDR=0;PAO=10;PQA=356;PQR=0;PRO=5;QA=76012;QR=32657;RO=950;RPL=841;RPP=279.68;RPPR=9.67558;RPR=1372;RUN=1;SAF=839;SAP=283.864;SAR=1374;SRF=446;SRP=10.6996;SRR=504;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:66,70:66:2280:70:2402:-175.415,0,-164.521 0/1:215:105,106:105:3590:106:3686:-267.711,0,-259.503 0/1:101:55,46:55:1927:46:1580:-111.969,0,-143.302 0/1:156:83,73:83:2836:73:2509:-178.858,0,-208.277 0/1:236:116,120:116:4024:120:4135:-301.238,0,-291.308 1/1:147:0,147:0:0:147:4979:-447.851,-44.2514,0 1/1:221:2,218:2:69:218:7390:-658.203,-60.0139,0 0/0:176:175,0:175:6007:0:0:0,-52.6802,-540.393 0/1:242:110,130:110:3764:130:4464:-329.28,0,-266.36 0/1:19:5,14:5:174:14:501:-39.6896,0,-10.2817 1/1:15:0,15:0:0:15:511:-46.2667,-4.51545,0 0/1:38:19,19:19:669:19:674:-49.4804,0,-49.0968 1/1:194:0,192:0:0:192:6662:-599.155,-57.7978,0 0/1:160:87,72:87:3006:72:2476:-174.929,0,-222.613 1/1:214:1,212:1:36:212:7371:-659.779,-60.871,0 1/1:204:0,202:0:0:202:6855:-616.649,-60.8081,0 1/1:141:0,140:0:0:140:4835:-434.884,-42.1442,0 0/1:120:67,53:67:2259:53:1780:-124.202,0,-167.447 0/1:147:56,90:56:1913:90:3105:-235.282,0,-128.134 1/1:198:1,195:1:36:195:6701:-599.539,-55.7522,0 1/1:102:2,99:2:67:99:3396:-299.453,-24.3506,0 chr08 2839029 . G A 3547.65 PASS AB=0.464995;ABP=13.196;AC=13;AF=0.309524;AN=42;AO=551;CIGAR=1X;DP=1702;DPB=1702;DPRA=2.26765;EPP=1199.49;EPPR=2433.37;GTI=0;LEN=1;MEANALT=1;MQM=23.8984;MQMR=34.1633;NS=21;NUMALT=1;ODDS=6.73709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19777;QR=41003;RO=1151;RPL=551;RPP=1199.49;RPPR=2433.37;RPR=0;RUN=1;SAF=0;SAP=1199.49;SAR=551;SRF=0;SRP=2502.38;SRR=1151;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:41,27:41:1463:27:968:-39.3413,0,-99.5131 0/1:162:84,78:84:2995:78:2804:-97.9025,0,-175.391 0/1:74:41,33:41:1468:33:1188:-50.898,0,-97.6837 0/1:88:35,53:35:1252:53:1904:-90.8775,0,-75.9063 0/1:107:65,42:65:2310:42:1493:-60.1821,0,-156.926 0/0:46:46,0:46:1625:0:0:0,-13.8474,-124.283 0/0:138:137,1:137:4869:1:36:0,-39.4556,-365.976 1/1:98:0,98:0:0:98:3524:-199.723,-29.5009,0 0/1:110:51,59:51:1832:59:2124:-107.125,0,-117.071 0/1:16:7,9:7:244:9:320:-13.8428,0,-15.2187 0/0:5:5,0:5:180:0:0:0,-1.50515,-14.0509 0/1:40:24,16:24:860:16:572:-20.8008,0,-56.5919 0/0:73:72,1:72:2571:1:36:0,-19.5083,-205.234 0/1:99:50,49:50:1774:49:1764:-78.7226,0,-114.296 0/0:142:141,1:141:5020:1:36:0,-40.4674,-404.83 0/0:50:50,0:50:1792:0:0:0,-15.0515,-147.944 0/0:72:71,1:71:2526:1:36:0,-19.0256,-208.009 0/1:119:66,53:66:2355:53:1900:-72.8795,0,-148.327 0/1:74:48,26:48:1716:26:932:-36.0631,0,-117.457 0/0:62:58,4:58:2047:4:140:0,-10.2599,-153.206 0/0:59:59,0:59:2104:0:0:0,-17.7608,-158.338 chr08 2934237 . A C 9039.34 PASS AB=0.516548;ABP=5.02263;AC=13;AF=0.309524;AN=42;AO=513;CIGAR=1X;DP=1622;DPB=1622;DPRA=1.16337;EPP=1108.31;EPPR=2406.83;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.8168;MQMR=59.9892;NS=21;NUMALT=1;ODDS=9.02492;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18260;QR=39658;RO=1107;RPL=512;RPP=1108.31;RPPR=2406.83;RPR=1;RUN=1;SAF=0;SAP=1116.98;SAR=513;SRF=0;SRP=2406.83;SRR=1107;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:49,67:49:1749:67:2342:-176.059,0,-122.773 0/1:32:19,13:19:684:13:449:-31.1012,0,-52.2574 0/1:93:41,52:41:1464:52:1853:-139.052,0,-104.06 0/1:44:17,27:17:612:27:960:-73.471,0,-42.1681 0/1:149:71,78:71:2522:78:2755:-203.177,0,-182.373 0/0:69:68,1:68:2440:1:36:0,-17.1728,-216.257 0/0:140:140,0:140:5013:0:0:0,-42.1442,-451.315 1/1:73:0,73:0:0:73:2620:-236.047,-21.9752,0 0/1:147:67,79:67:2408:79:2840:-211.448,0,-172.814 0/1:16:9,7:9:324:7:248:-17.8477,0,-24.6894 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:40:24,16:24:864:16:576:-40.1256,0,-66.0414 0/0:66:66,0:66:2361:0:0:0,-19.868,-212.747 0/1:79:31,48:31:1116:48:1713:-130.672,0,-76.9703 0/0:125:123,1:123:4412:1:36:0,-34.0144,-393.727 0/0:89:89,0:89:3204:0:0:0,-26.7917,-288.582 0/0:94:93,1:93:3313:1:36:0,-24.6985,-294.79 0/1:71:38,33:38:1368:33:1188:-85.8555,0,-102.048 0/1:59:42,17:42:1504:17:608:-37.2913,0,-117.894 0/0:74:74,0:74:2648:0:0:0,-22.2762,-238.558 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 chr08 2935165 . C T 10336.2 PASS AB=0.442045;ABP=28.683;AC=13;AF=0.309524;AN=42;AO=577;CIGAR=1X;DP=1564;DPB=1564;DPRA=1.14469;EPP=1255.95;EPPR=2135.41;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9029;MQMR=59.9757;NS=21;NUMALT=1;ODDS=0.110073;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20595;QR=34917;RO=986;RPL=0;RPP=1255.95;RPPR=2135.41;RPR=577;RUN=1;SAF=0;SAP=1255.95;SAR=577;SRF=0;SRP=2144.08;SRR=986;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:42,18:42:1508:18:644:-40.2288,0,-117.953 0/1:42:24,18:24:851:18:648:-46.0086,0,-64.2662 0/1:106:64,42:64:2278:42:1498:-103.205,0,-173.372 0/1:35:14,21:14:491:21:745:-56.8374,0,-33.9851 0/1:104:54,50:54:1901:50:1778:-128.958,0,-140.059 0/0:30:28,2:28:991:2:72:0,-2.19418,-82.6668 0/0:105:105,0:105:3729:0:0:0,-31.6081,-335.812 1/1:184:0,184:0:0:184:6558:-590.216,-55.3895,0 0/1:153:83,70:83:2959:70:2512:-180.274,0,-220.486 0/1:28:12,16:12:428:16:576:-43.7461,0,-30.1581 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:28:12,16:12:428:16:568:-43.023,0,-30.43 0/0:60:60,0:60:2115:0:0:0,-18.0618,-190.616 0/1:88:41,47:41:1463:47:1676:-124.636,0,-105.475 0/0:159:159,0:159:5635:0:0:0,-47.8638,-507.274 0/0:25:25,0:25:891:0:0:0,-7.52575,-80.5088 0/0:43:41,1:41:1451:1:36:0,-9.40481,-127.287 0/1:183:108,75:108:3813:75:2680:-186.357,0,-288.279 0/1:53:37,16:37:1311:16:568:-35.4973,0,-102.336 0/0:22:21,1:21:725:1:36:0,-3.02438,-61.9692 0/0:49:49,0:49:1697:0:0:0,-14.7505,-153.011 chr08 2958948 . C T 20796 PASS AB=0.385965;ABP=138.213;AC=27;AF=0.642857;AN=42;AO=1137;CIGAR=1X;DP=2618;DPB=2618;DPRA=0.956923;EPP=2471.97;EPPR=3208.11;GTI=3;LEN=1;MEANALT=1.05;MQM=59.9525;MQMR=59.9926;NS=21;NUMALT=1;ODDS=0.804388;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40642;QR=52895;RO=1480;RPL=0;RPP=2471.97;RPPR=3208.11;RPR=1137;RUN=1;SAF=1137;SAP=2471.97;SAR=0;SRF=1480;SRP=3216.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:62,41:62:2224:41:1476:-102.13,0,-169.418 0/1:130:58,72:58:2084:72:2565:-191.965,0,-148.696 0/1:98:42,56:42:1500:56:1996:-150.413,0,-105.794 0/1:63:26,37:26:928:37:1328:-100.857,0,-64.8734 0/1:179:100,79:100:3575:79:2817:-199.884,0,-268.073 1/1:62:3,59:3:108:59:2105:-179.634,-8.58869,0 1/1:126:1,125:1:36:125:4459:-396.431,-34.3315,0 0/0:130:130,0:130:4643:0:0:0,-39.1339,-418.033 0/1:109:66,43:66:2356:43:1544:-106.441,0,-179.487 0/0:296:283,13:283:10093:13:460:0,-47.3695,-866.569 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/0:343:323,20:323:11534:20:720:0,-38.1245,-972.796 1/1:86:0,86:0:0:86:3067:-276.259,-25.8886,0 0/1:103:60,43:60:2141:43:1544:-108.247,0,-161.95 1/1:121:0,121:0:0:121:4332:-390.056,-36.4246,0 1/1:51:1,50:1:32:50:1800:-159.083,-12.1532,0 1/1:57:0,57:0:0:57:2016:-181.71,-17.1587,0 0/1:331:284,46:284:10169:46:1652:-49.4154,0,-815.587 0/1:81:36,45:36:1292:45:1608:-120.627,0,-92.2003 1/1:93:4,89:4:144:89:3181:-273.199,-14.6822,0 1/1:50:1,49:1:36:49:1760:-155.086,-11.4532,0 chr08 3055588 . T C 42010.7 PASS AB=0.568759;ABP=57.956;AC=30;AF=0.714286;AN=42;AO=2021;CIGAR=1X;DP=2724;DPB=2724;DPRA=1.12414;EPP=4391.56;EPPR=1516.53;GTI=1;LEN=1;MEANALT=1.25;MQM=59.62;MQMR=59.7561;NS=21;NUMALT=1;ODDS=3.99993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71869;QR=25039;RO=697;RPL=0;RPP=4391.56;RPPR=1516.53;RPR=2021;RUN=1;SAF=2021;SAP=4391.56;SAR=0;SRF=697;SRP=1516.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:67,107:67:2412:107:3754:-285.676,0,-164.814 1/1:53:0,53:0:0:53:1887:-170.091,-15.9546,0 0/1:124:54,69:54:1944:69:2447:-182.978,0,-137.843 0/1:208:98,110:98:3515:110:3932:-291.424,0,-253.94 0/1:294:122,170:122:4388:170:6050:-456.353,0,-306.864 1/1:111:0,110:0:0:110:3939:-354.007,-33.1133,0 1/1:229:2,227:2:72:227:8065:-718.987,-62.0991,0 0/0:116:116,0:116:4168:0:0:0,-34.9195,-375.17 0/1:208:94,114:94:3368:114:4036:-299.874,0,-240.66 0/1:16:3,13:3:104:13:468:-37.6385,0,-4.88633 1/1:11:0,11:0:0:11:388:-35.2195,-3.31133,0 0/1:29:13,16:13:468:16:568:-42.7146,0,-33.7251 1/1:87:2,85:2:72:85:2999:-263.217,-19.3529,0 0/1:123:56,67:56:2012:67:2356:-175.134,0,-144.326 1/1:238:1,236:1:36:236:8406:-752.748,-68.1057,0 1/1:140:1,139:1:36:139:4945:-441.591,-38.5459,0 1/1:225:0,225:0:0:225:8014:-721.221,-67.7318,0 0/1:95:44,51:44:1580:51:1832:-136.563,0,-113.75 0/1:67:23,44:23:828:44:1580:-122.305,0,-54.6704 1/1:127:1,125:1:36:125:4439:-396.068,-34.6913,0 1/1:49:0,49:0:0:49:1764:-158.999,-14.7505,0 chr08 3055590 . T C 11659.9 PASS AB=0.427504;ABP=64.0907;AC=12;AF=0.285714;AN=42;AO=692;CIGAR=1X;DP=2731;DPB=2731;DPRA=1.18779;EPP=1505.67;EPPR=4404.6;GTI=1;LEN=1;MEANALT=1.26667;MQM=59.7572;MQMR=59.685;NS=21;NUMALT=1;ODDS=4.53052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24725;QR=72896;RO=2035;RPL=0;RPP=1505.67;RPPR=4404.6;RPR=692;RUN=1;SAF=692;SAP=1505.67;SAR=0;SRF=2035;SRP=4421.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:109,68:109:3916:68:2433:-165.9,0,-299.332 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.739 0/1:126:70,55:70:2511:55:1951:-137.951,0,-188.235 0/1:210:111,98:111:3984:98:3502:-252.112,0,-295.436 0/1:292:170,122:170:6074:122:4353:-304.019,0,-458.83 0/0:111:111,0:111:3969:0:0:0,-33.4143,-357.322 0/0:229:229,0:229:8223:0:0:0,-68.9359,-740.021 1/1:115:0,115:0:0:115:4124:-371.315,-34.6185,0 0/1:204:114,89:114:4080:89:3183:-225.346,0,-306.055 0/1:17:14,3:14:504:3:108:-4.95766,0,-40.576 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0016 0/1:30:17,13:17:612:13:467:-33.3346,0,-46.3733 0/0:90:88,2:88:3132:2:72:0,-20.256,-275.18 0/1:122:65,56:65:2324:56:1999:-143.551,0,-172.697 0/0:238:237,1:237:8477:1:36:0,-68.0469,-759.215 0/0:135:134,1:134:4797:1:36:0,-37.0408,-428.283 0/0:232:232,0:232:8304:0:0:0,-69.839,-747.301 0/1:95:50,45:50:1800:45:1616:-117.118,0,-133.684 0/1:65:42,23:42:1497:23:813:-53.9219,0,-115.44 0/0:127:126,1:126:4532:1:32:0,-35.0315,-404.832 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.401 chr08 3062388 . A G 19391 PASS AB=0.528962;ABP=16.3429;AC=13;AF=0.309524;AN=42;AO=1120;CIGAR=1X;DP=3067;DPB=3067;DPRA=2.00257;EPP=2435.06;EPPR=4226.52;GTI=1;LEN=1;MEANALT=1.125;MQM=51.5357;MQMR=59.5044;NS=21;NUMALT=1;ODDS=3.18664;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39675;QR=69705;RO=1945;RPL=0;RPP=2435.06;RPPR=4226.52;RPR=1120;RUN=1;SAF=0;SAP=2435.06;SAR=1120;SRF=0;SRP=4226.52;SRR=1945;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:324:131,192:131:4685:192:6826:-514.167,0,-324.01 0/1:127:63,64:63:2251:64:2264:-164.763,0,-164.592 0/1:139:65,74:65:2332:74:2635:-194.84,0,-168.183 0/1:147:76,70:76:2728:70:2495:-179.496,0,-201.21 0/1:437:215,222:215:7706:222:7896:-575.674,0,-561.814 0/0:116:114,2:114:4076:2:72:0,-28.6042,-360.64 0/0:324:320,4:320:11475:4:135:0,-85.066,-1019.97 1/1:141:0,141:0:0:141:4941:-443.447,-42.4452,0 0/1:346:161,185:161:5763:185:6567:-484.016,0,-414.478 0/1:12:7,5:7:252:5:176:-12.5456,0,-19.3939 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:30:12,18:12:432:18:618:-46.5982,0,-30.1452 0/0:142:142,0:142:5087:0:0:0,-42.7463,-457.717 0/1:176:71,105:71:2543:105:3728:-280.751,0,-176.04 0/0:105:105,0:105:3776:0:0:0,-31.6081,-339.974 0/0:112:111,1:111:3984:1:36:0,-30.1261,-354.708 0/0:129:129,0:129:4628:0:0:0,-38.8329,-416.375 0/1:51:26,25:26:932:25:858:-61.0333,0,-68.8463 0/1:41:33,8:33:1179:8:288:-13.708,0,-94.075 0/0:130:126,4:126:4516:4:140:0,-27.0186,-394.167 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0484 chr08 3062405 . CAAATA TAAATA,TAAAA 62925.5 PASS AB=0.458963,0.539417;ABP=30.0998,28.0033;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1925,1155;CIGAR=1X5M,1X3M1D1M;DP=3088;DPB=2895;DPRA=1.00753,2.04691;EPP=4183.09,2511.06;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=2,2.25;MQM=59.4504,51.5325;MQMR=60;NS=21;NUMALT=2;ODDS=7.2495;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67371,40461;QR=31;RO=1;RPL=1925,1155;RPP=4183.09,2511.06;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4183.09,2511.06;SAR=1925,1155;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:330:0,132,196:0:0:132,196:4650,6859:-934.327,-555.95,-516.214,-378.426,0,-319.424 1/2:125:0,61,64:0:0:61,64:2117,2238:-353.752,-181.689,-163.326,-172.41,0,-153.144 1/2:143:0,65,78:0:0:65,78:2229,2688:-398.863,-217.994,-198.427,-181.212,0,-157.732 1/2:151:0,75,76:0:0:75,76:2588,2639:-423.853,-213.88,-191.303,-210.317,0,-187.439 1/2:437:0,207,230:0:0:207,230:7233,8044:-1239.68,-651.435,-589.122,-588.593,0,-519.356 1/1:120:0,115,2:0:0:115,2:4047,67:-363.758,-34.6185,0,-358.565,-29.4334,-357.963 1/1:319:1,314,4:1:31:314,4:10985,141:-985.016,-92.0433,0,-973.853,-83.0255,-975.137 2/2:146:0,0,146:0:0:0,146:0,5136:-460.751,-460.751,-460.751,-43.9504,-43.9504,0 1/2:355:0,163,191:0:0:163,191:5733,6777:-1015.84,-549.299,-500.231,-466.617,0,-409.12 1/2:12:0,7,5:0:0:7,5:252,179:-35.4675,-14.9266,-12.8194,-20.899,0,-19.3939 1/1:10:0,10,0:0:0:10,0:341,0:-31.0178,-3.0103,0,-31.0178,-3.0103,-31.0178 1/2:30:0,12,18:0:0:12,18:412,623:-84.1215,-50.6998,-47.0874,-33.7652,0,-28.3466 1/1:138:0,138,0:0:0:138,0:4842,0:-435.669,-41.5421,0,-435.669,-41.5421,-435.669 1/2:176:0,69,107:0:0:69,107:2398,3747:-498.149,-303.282,-282.511,-195.215,0,-163.004 1/1:103:0,103,0:0:0:103,0:3590,0:-323.266,-31.0061,0,-323.266,-31.0061,-323.266 1/1:110:0,109,1:0:0:109,1:3795,36:-341.229,-32.8123,0,-338.299,-29.5241,-337.998 1/1:130:0,130,0:0:0:130,0:4527,0:-407.311,-39.1339,0,-407.311,-39.1339,-407.311 1/2:52:0,27,25:0:0:27,25:964,870:-148.395,-69.7957,-61.6679,-78.949,0,-71.4233 1/2:41:0,32,9:0:0:32,9:1148,313:-119.233,-25.584,-15.951,-93.9969,0,-91.2876 1/1:132:0,128,3:0:0:128,3:4524,104:-406.651,-38.5318,0,-398.835,-30.6905,-397.932 1/1:28:0,28,0:0:0:28,0:996,0:-89.9265,-8.42884,0,-89.9265,-8.42884,-89.9265 chr08 3062417 . T A 39303.6 PASS AB=0.462036;ABP=26.258;AC=29;AF=0.690476;AN=42;AO=1959;CIGAR=1X;DP=3111;DPB=3111;DPRA=1.03021;EPP=4256.92;EPPR=2500.2;GTI=1;LEN=1;MEANALT=1.1;MQM=59.4313;MQMR=51.54;NS=21;NUMALT=1;ODDS=5.06681;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70134;QR=41082;RO=1150;RPL=1959;RPP=4256.92;RPPR=2500.2;RPR=0;RUN=1;SAF=0;SAP=4256.92;SAR=1959;SRF=0;SRP=2500.2;SRR=1150;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:328:198,130:198:7089:130:4646:-319.391,0,-536.494 0/1:128:64,63:64:2277:63:2260:-165.057,0,-165.494 0/1:142:78,64:78:2785:64:2288:-163.322,0,-207.233 0/1:150:74,76:74:2641:76:2721:-199.705,0,-191.705 0/1:444:230,214:230:8234:214:7631:-552.961,0,-603.647 1/1:120:2,118:2:68:118:4225:-373.344,-29.9559,0 1/1:328:4,324:4:144:324:11610:-1030.97,-85.4431,0 0/0:144:144,0:144:5142:0:0:0,-43.3483,-460.318 0/1:353:190,163:190:6760:163:5848:-420.016,0,-498.743 0/1:12:5,7:5:165:7:252:-19.3939,0,-11.5359 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:31:18,13:18:648:13:468:-33.0826,0,-48.9877 1/1:144:0,144:0:0:144:5142:-462.646,-43.3483,0 0/1:177:107,69:107:3848:69:2484:-170.373,0,-290.727 1/1:107:0,107:0:0:107:3828:-344.654,-32.2102,0 1/1:112:1,111:1:36:111:3965:-353.301,-30.1261,0 1/1:130:0,130:0:0:130:4676:-420.687,-39.1339,0 0/1:50:24,26:24:849:26:932:-69.1474,0,-60.3834 0/1:42:9,33:9:324:33:1188:-94.5853,0,-16.6375 1/1:130:2,128:2:72:128:4566:-403.17,-32.3102,0 1/1:28:0,28:0:0:28:1008:-91.0079,-8.42884,0 chr08 3062426 . T C 38920.8 PASS AB=0.468578;ABP=18.5673;AC=29;AF=0.690476;AN=42;AO=1941;CIGAR=1X;DP=3057;DPB=3057;DPRA=1.01888;EPP=4217.84;EPPR=2422.03;GTI=1;LEN=1;MEANALT=1.1;MQM=59.4286;MQMR=51.6113;NS=21;NUMALT=1;ODDS=3.10468;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69347;QR=38787;RO=1114;RPL=1941;RPP=4217.84;RPPR=2422.03;RPR=0;RUN=1;SAF=0;SAP=4217.84;SAR=1941;SRF=0;SRP=2422.03;SRR=1114;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:322:193,129:193:6714:129:4610:-317.931,0,-505.06 0/1:126:63,63:63:2174:63:2264:-166.063,0,-157.605 0/1:136:70,66:70:2347:66:2368:-172.324,0,-169.818 0/1:149:72,77:72:2441:77:2764:-204.056,0,-174.229 0/1:431:222,208:222:7689:208:7411:-537.053,0,-559.159 1/1:119:1,118:1:32:118:4206:-374.245,-32.6253,0 1/1:324:4,319:4:140:319:11399:-1012.52,-84.6619,0 0/0:143:143,0:143:5073:0:0:0,-43.0473,-454.148 0/1:348:187,161:187:6625:161:5742:-411.986,0,-488.718 0/1:11:4,7:4:144:7:252:-19.6949,0,-9.97693 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:31:18,13:18:636:13:468:-33.0826,0,-47.9141 1/1:141:0,141:0:0:141:5017:-451.421,-42.4452,0 0/1:170:102,68:102:3535:68:2428:-167.519,0,-265.665 1/1:106:0,106:0:0:106:3789:-341.144,-31.9092,0 1/1:109:1,108:1:36:108:3836:-341.555,-29.223,0 1/1:130:0,130:0:0:130:4653:-418.624,-39.1339,0 0/1:50:24,26:24:845:26:931:-69.0573,0,-59.9237 0/1:40:8,32:8:284:32:1152:-91.9489,0,-13.6499 1/1:132:2,130:2:72:130:4653:-410.905,-32.9123,0 1/1:28:0,28:0:0:28:1008:-91.0079,-8.42884,0 chr08 3130212 . CTTTTTGTC CTTTTTTGTC 11841.9 PASS AB=0.494607;ABP=3.17425;AC=29;AF=0.690476;AN=42;AO=731;CIGAR=1M1I8M;DP=1105;DPB=1186.78;DPRA=1.44324;EPP=1590.36;EPPR=789.083;GTI=0;LEN=1;MEANALT=1.5;MQM=35.3912;MQMR=59.9586;NS=21;NUMALT=1;ODDS=5.08967;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24808;QR=12721;RO=362;RPL=0;RPP=1590.36;RPPR=789.083;RPR=731;RUN=1;SAF=0;SAP=1590.36;SAR=731;SRF=0;SRP=789.083;SRR=362;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:29,35:29:987:35:1240:-84.9651,0,-69.8703 0/1:58:34,22:34:1195:22:702:-40.549,0,-90.639 0/1:69:35,34:35:1247:34:1194:-79.425,0,-91.7641 0/1:39:16,23:16:572:23:762:-52.9249,0,-40.0735 0/1:138:69,67:69:2423:67:2296:-151.368,0,-177.156 1/1:86:0,83:0:0:83:2673:-218.846,-24.9855,0 1/1:77:0,77:0:0:77:2457:-201.849,-23.1793,0 0/0:37:36,0:36:1282:0:0:0,-10.8371,-115.324 0/1:124:63,60:63:2205:60:2088:-141.38,0,-161.331 0/1:6:3,3:3:104:3:93:-6.03208,0,-7.89679 1/1:4:0,4:0:0:4:132:-11.0966,-1.20412,0 0/1:12:4,8:4:141:8:263:-18.5624,0,-9.42455 1/1:60:0,60:0:0:60:2116:-177.667,-18.0618,0 0/1:84:46,36:46:1615:36:1272:-81.9384,0,-120.735 1/1:67:0,67:0:0:67:2283:-190.882,-20.169,0 1/1:22:0,22:0:0:22:770:-65.9331,-6.62266,0 1/1:28:0,28:0:0:28:973:-83.4014,-8.42884,0 0/1:37:18,19:18:638:19:650:-42.6412,0,-46.611 0/1:18:4,14:4:135:14:484:-35.3984,0,-7.06397 1/1:54:4,50:4:141:50:1736:-130.427,-3.21871,0 1/1:21:1,19:1:36:19:624:-47.832,-2.70224,0 chr08 3130228 . GC TT,TC 21634.2 PASS AB=0.512859,0.485628;ABP=3.9597,4.19623;AC=29,13;AF=0.690476,0.309524;AN=42;AO=770,363;CIGAR=2X,1X1M;DP=1137;DPB=1137;DPRA=1.48649,1.08357;EPP=1675.04,748.424;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.8,2;MQM=35.187,59.9118;MQMR=0;NS=21;NUMALT=2;ODDS=1.74678;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27410,13008;QR=0;RO=0;RPL=0,5;RPP=1675.04,748.424;RPPR=0;RPR=770,358;RUN=1,1;SAF=0,0;SAP=1675.04,791.255;SAR=770,363;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,38,28:0:0:38,28:1358,1004:-184.492,-82.2461,-70.807,-102.593,0,-94.1646 1/2:59:0,23,36:0:0:23,36:816,1296:-161.888,-106.105,-99.1813,-56.1084,0,-45.2714 1/2:69:0,34,35:0:0:34,35:1222,1256:-193.259,-102.809,-92.5742,-90.7932,0,-80.2572 1/2:38:0,22,16:0:0:22,16:790,576:-106.444,-47.3585,-40.7358,-59.4339,0,-54.6174 1/2:143:0,72,70:0:0:72,70:2547,2512:-392.917,-204.98,-183.306,-188.026,0,-166.954 1/1:90:0,90,0:0:0:90,0:3155,0:-245.652,-27.0927,0,-245.652,-27.0927,-245.652 1/1:80:0,80,0:0:0:80,0:2837,0:-220.263,-24.0824,0,-220.263,-24.0824,-220.263 2/2:37:0,0,37:0:0:0,37:0,1332:-120.182,-120.182,-120.182,-11.1381,-11.1381,0 1/2:124:0,62,62:0:0:62,62:2197,2224:-348.97,-181.76,-163.096,-167.555,0,-148.891 1/2:6:0,3,3:0:0:3,3:108,108:-16.1293,-9.17208,-8.26899,-7.28335,0,-6.38026 1/1:4:0,4,0:0:0:4,0:144,0:-11.5575,-1.20412,0,-11.5575,-1.20412,-11.5575 1/2:12:0,8,4:0:0:8,4:286,140:-32.5969,-11.7405,-9.33222,-21.1975,0,-19.9934 1/1:62:0,61,0:0:0:61,0:2185,0:-182.224,-18.3628,0,-182.224,-18.3628,-182.224 1/2:85:0,39,46:0:0:39,46:1398,1624:-235.225,-132.591,-120.851,-102.972,0,-89.1248 1/1:71:0,69,0:0:0:69,0:2461,0:-200.073,-20.7711,0,-200.073,-20.7711,-200.073 1/1:23:0,23,0:0:0:23,0:824,0:-69.133,-6.92369,0,-69.133,-6.92369,-69.133 1/1:29:0,29,0:0:0:29,0:1042,0:-88.2732,-8.72987,0,-88.2732,-8.72987,-88.2732 1/2:38:0,20,18:0:0:20,18:713,648:-104.684,-53.2333,-47.2127,-51.7909,0,-46.3724 1/2:21:0,18,3:0:0:18,3:646,108:-56.2038,-9.17208,-3.75354,-47.3864,0,-46.4833 1/1:57:0,53,4:0:0:53,4:1904,144:-153.297,-15.9546,0,-141.544,-3.84509,-140.34 1/1:23:0,22,1:0:0:22,1:777,36:-60.207,-6.62266,0,-57.2672,-3.32542,-56.9662 chr08 3156984 . C T 26177.1 PASS AB=0.49712;ABP=3.13538;AC=13;AF=0.309524;AN=42;AO=1102;CIGAR=1X;DP=3262;DPB=3262;DPRA=2.07654;EPP=2369.99;EPPR=4650.06;GTI=0;LEN=1;MEANALT=1;MQM=59.9764;MQMR=59.9796;NS=21;NUMALT=1;ODDS=11.5336;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39294;QR=76795;RO=2160;RPL=558;RPP=3.39651;RPPR=10.1038;RPR=544;RUN=1;SAF=561;SAP=3.79849;SAR=541;SRF=1043;SRP=8.51538;SRR=1117;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:69,76:69:2453:76:2696:-199.233,0,-177.374 0/1:143:87,56:87:3095:56:2004:-137.586,0,-235.728 0/1:84:36,48:36:1269:48:1707:-128.629,0,-89.2242 0/1:147:70,77:70:2482:77:2756:-204.031,0,-179.382 0/1:334:156,178:156:5578:178:6343:-470.416,0,-401.598 0/0:165:161,4:161:5717:4:144:0,-36.3563,-501.335 0/0:205:200,5:200:7117:5:180:0,-45.1591,-624.038 1/1:224:0,224:0:0:224:7966:-716.837,-67.4307,0 0/1:297:161,136:161:5751:136:4866:-348.686,0,-428.144 0/1:34:14,20:14:496:20:705:-53.5394,0,-34.7392 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:45:18,27:18:636:27:964:-73.5305,0,-44.0217 0/0:126:125,1:125:4457:1:36:0,-34.3315,-397.696 0/1:145:66,79:66:2355:79:2840:-212.188,0,-168.559 0/0:331:329,2:329:11729:2:72:0,-92.8042,-1048.64 0/0:97:97,0:97:3430:0:0:0,-29.1999,-308.916 0/0:100:100,0:100:3535:0:0:0,-30.103,-318.36 0/1:204:88,116:88:3095:116:4128:-310.295,0,-217.368 0/1:158:108,50:108:3858:50:1779:-112.829,0,-299.852 0/0:143:140,3:140:4962:3:108:0,-32.9721,-436.656 0/0:116:116,0:116:4096:0:0:0,-34.9195,-368.829 chr08 3157041 . 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A T 15139.8 PASS AB=0.486834;ABP=5.35471;AC=13;AF=0.309524;AN=42;AO=866;CIGAR=1X;DP=3182;DPB=3182;DPRA=0.823171;EPP=1883.51;EPPR=5029.97;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9954;MQMR=59.9901;NS=21;NUMALT=1;ODDS=11.6574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30995;QR=82989;RO=2315;RPL=866;RPP=1883.51;RPPR=5029.97;RPR=0;RUN=1;SAF=0;SAP=1883.51;SAR=866;SRF=0;SRP=5029.97;SRR=2315;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:196:102,94:102:3644:94:3364:-243.975,0,-269.163 0/1:129:79,50:79:2836:50:1796:-123.089,0,-216.645 0/1:152:85,66:85:3052:66:2352:-166.124,0,-229.093 0/1:133:76,57:76:2721:57:2052:-144.914,0,-205.094 0/1:273:125,148:125:4488:148:5289:-393.963,0,-321.906 0/0:205:205,0:205:7345:0:0:0,-61.7111,-661.026 0/0:336:336,0:336:12037:0:0:0,-101.146,-1083.18 1/1:108:0,108:0:0:108:3850:-346.693,-32.5112,0 0/1:296:139,157:139:4996:157:5612:-416.098,0,-360.68 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:26:9,17:9:324:17:612:-47.5867,0,-21.6791 0/0:202:202,0:202:7264:0:0:0,-60.8081,-653.808 0/1:211:102,109:102:3621:109:3912:-288.755,0,-262.579 0/0:230:230,0:230:8240:0:0:0,-69.2369,-741.61 0/0:124:124,0:124:4460:0:0:0,-37.3277,-401.568 0/0:156:156,0:156:5573:0:0:0,-46.9607,-501.693 0/1:42:19,23:19:680:23:828:-62.2009,0,-48.8859 0/1:93:61,32:61:2188:32:1148:-75.634,0,-169.19 0/0:178:178,0:178:6388:0:0:0,-53.5833,-575.007 0/0:81:81,0:81:2916:0:0:0,-24.3834,-262.673 chr08 3196188 . GGGTG AGGCT,AGGCG 25897 PASS AB=0.509434,0.485175;ABP=3.5839,4.42673;AC=29,13;AF=0.690476,0.309524;AN=42;AO=823,430;CIGAR=1X2M2X,1X2M1X1M;DP=1262;DPB=1262;DPRA=0.920769,1.38739;EPP=1790.13,936.743;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.1,2.3125;MQM=59.6185,59.9419;MQMR=0;NS=21;NUMALT=2;ODDS=3.27873;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29079,15111;QR=0;RO=0;RPL=823,430;RPP=1790.13,936.743;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1790.13,936.743;SAR=823,430;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:84:0,47,35:0:0:47,35:1629,1238:-233.216,-100.829,-86.6804,-132.379,0,-121.843 1/2:69:0,35,34:0:0:35,34:1245,1200:-199.532,-98.0675,-87.5314,-101.819,0,-91.5841 1/2:54:0,24,30:0:0:24,30:852,1065:-156.551,-87.1298,-79.9051,-69.7759,0,-60.745 1/2:41:0,17,24:0:0:17,24:598,814:-115.028,-66.3456,-61.228,-49.0285,0,-41.8038 1/2:106:0,51,54:0:0:51,54:1798,1893:-300.419,-154.032,-138.679,-146.379,0,-130.124 1/1:27:0,26,1:0:0:26,1:923,36:-82.7244,-7.82678,0,-79.7868,-4.52954,-79.4857 1/1:74:0,74,0:0:0:74,0:2616,0:-235.687,-22.2762,0,-235.687,-22.2762,-235.687 2/2:65:0,0,65:0:0:0,65:0,2299:-207.17,-207.17,-207.17,-19.567,-19.567,0 1/2:110:0,69,41:0:0:69,41:2445,1438:-316.452,-117.37,-96.5992,-199.433,0,-187.091 1/2:16:0,10,5:0:0:10,5:345,172:-41.9589,-13.9555,-10.9452,-27.9908,0,-26.4856 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:37:0,16,21:0:0:16,21:570,747:-107.67,-61.2328,-56.4163,-46.7931,0,-40.4715 1/1:80:0,77,1:0:0:77,1:2734,36:-245.942,-23.1793,0,-243.004,-20.2419,-242.703 1/2:68:0,20,48:0:0:20,48:708,1683:-194.968,-137.306,-131.286,-58.0141,0,-43.5647 1/1:87:0,87,0:0:0:87,0:3063,0:-275.899,-26.1896,0,-275.899,-26.1896,-275.899 1/1:33:0,33,0:0:0:33,0:1171,0:-105.697,-9.93399,0,-105.697,-9.93399,-105.697 1/1:34:0,33,0:0:0:33,0:1163,0:-104.705,-9.93399,0,-104.705,-9.93399,-104.705 1/2:90:0,38,52:0:0:38,52:1336,1826:-257.688,-148.964,-137.525,-109.075,0,-93.4218 1/2:67:0,51,16:0:0:51,16:1805,558:-192.749,-45.7302,-30.3777,-147.368,0,-142.552 1/1:44:0,42,2:0:0:42,2:1487,71:-133.747,-12.6433,0,-127.964,-6.50489,-127.362 1/1:72:0,69,1:0:0:69,1:2447,35:-219.774,-20.7711,0,-216.926,-17.9267,-216.625 chr08 3243334 . GACAT AACAC,AACAT 42986.9 PASS AB=0.672816,0.321359;ABP=270.198,288.515;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1605,394;CIGAR=1X3M1X,1X4M;DP=2006;DPB=2006.2;DPRA=1.62167,0.887275;EPP=3182.55,849.907;EPPR=0;GTI=2;LEN=5,1;MEANALT=2,2.35714;MQM=59.9402,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.269877;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=56013,14028;QR=0;RO=0;RPL=36,1;RPP=3182.55,849.907;RPPR=0;RPR=1569,393;RUN=1,1;SAF=0,0;SAP=3488.22,858.57;SAR=1605,394;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:0,16,27:0:0:16,27:567,963:-124.708,-78.5176,-73.7012,-46.2045,0,-38.0767 1/2:64:0,48,16:0:0:48,16:1701,568:-185.206,-46.6354,-32.1859,-138.926,0,-134.109 1/2:65:0,54,11:0:0:54,11:1884,396:-185.894,-32.6714,-16.4158,-153.581,0,-150.269 1/2:86:0,44,42:0:0:44,42:1539,1499:-247.763,-122.561,-109.315,-125.556,0,-112.913 1/2:232:0,165,67:0:0:165,67:5741,2395:-662.433,-195.637,-145.968,-467.15,0,-446.981 1/1:28:0,28,0:0:0:28,0:987,0:-89.1434,-8.42884,0,-89.1434,-8.42884,-89.1434 1/1:197:0,197,0:0:0:197,0:6886,0:-619.815,-59.3029,0,-619.815,-59.3029,-619.815 2/2:60:0,0,60:0:0:0,60:0,2143:-193.137,-193.137,-193.137,-18.0618,-18.0618,0 1/2:182:0,119,60:0:0:119,60:4160,2147:-513.544,-175.129,-139.307,-338.463,0,-320.402 1/2:11:0,8,3:0:0:8,3:263,108:-30.4042,-9.17208,-6.76384,-21.5835,0,-20.6804 1/1:6:0,6,0:0:0:6,0:212,0:-19.4251,-1.80618,0,-19.4251,-1.80618,-19.4251 1/2:20:0,16,4:0:0:16,4:553,144:-57.0311,-12.1095,-7.29302,-45.2786,0,-44.0744 1/1:193:0,193,0:0:0:193,0:6758,0:-608.206,-58.0988,0,-608.206,-58.0988,-608.206 1/2:77:0,59,17:0:0:59,17:2053,595:-215.438,-48.5036,-30.7429,-167.028,0,-161.911 1/1:154:0,154,0:0:0:154,0:5427,0:-488.554,-46.3586,0,-488.554,-46.3586,-488.554 1/1:92:0,91,0:0:0:91,0:3180,0:-286.068,-27.3937,0,-286.068,-27.3937,-286.068 1/1:53:0,53,0:0:0:53,0:1845,0:-166.324,-15.9546,0,-166.324,-15.9546,-166.324 1/2:132:0,74,58:0:0:74,58:2505,2030:-368.59,-165.509,-143.233,-203.426,0,-185.966 1/2:117:0,90,26:0:0:90,26:3157,932:-333.029,-76.1181,-49.0254,-257.013,0,-249.187 1/1:103:0,101,2:0:0:101,2:3515,72:-316.205,-30.404,0,-310.33,-24.1694,-309.728 1/1:90:0,89,1:0:0:89,1:3080,36:-277.071,-26.7917,0,-274.133,-23.4944,-273.832 chr08 3243367 . G A 33477.3 PASS AB=0.660767;ABP=231.322;AC=29;AF=0.690476;AN=42;AO=1553;CIGAR=1X;DP=1963;DPB=1963;DPRA=1.55902;EPP=3170.07;EPPR=856.739;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9369;MQMR=60;NS=21;NUMALT=1;ODDS=3.55632;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55470;QR=14622;RO=409;RPL=1529;RPP=3170.07;RPPR=856.739;RPR=24;RUN=1;SAF=0;SAP=3375.31;SAR=1553;SRF=0;SRP=891.143;SRR=409;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:29,15:29:1032:15:540:-35.6912,0,-79.9482 0/1:56:16,40:16:572:40:1436:-112.678,0,-34.9557 0/1:65:12,53:12:432:53:1881:-150,0,-19.6542 0/1:86:41,45:41:1456:45:1583:-116.868,0,-105.447 0/1:236:71,165:71:2544:165:5887:-458.862,0,-158.168 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 1/1:193:0,193:0:0:193:6879:-619.164,-58.0988,0 0/0:61:61,0:61:2183:0:0:0,-18.3628,-196.735 0/1:179:62,117:62:2215:117:4200:-324.296,0,-145.73 0/1:11:3,8:3:108:8:284:-22.592,0,-6.76384 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:20:5,15:5:180:15:540:-42.9159,0,-10.5315 1/1:192:0,192:0:0:192:6846:-616.166,-57.7978,0 0/1:75:20,55:20:712:55:1976:-155.537,0,-41.8294 1/1:154:0,154:0:0:154:5510:-496.012,-46.3586,0 1/1:79:0,79:0:0:79:2828:-254.759,-23.7814,0 1/1:44:0,44:0:0:44:1580:-142.492,-13.2453,0 0/1:130:60,70:60:2156:70:2508:-186.838,0,-155.173 0/1:115:26,89:26:924:89:3179:-251.715,0,-48.8592 1/1:103:2,101:2:72:101:3593:-316.74,-24.1694,0 1/1:87:1,85:1:36:85:3044:-270.591,-22.6501,0 chr08 3249887 . G A 17594.9 PASS AB=0.541076;ABP=23.7039;AC=13;AF=0.309524;AN=42;AO=985;CIGAR=1X;DP=2612;DPB=2612;DPRA=1.42576;EPP=2141.91;EPPR=3533.82;GTI=1;LEN=1;MEANALT=1.05882;MQM=59.9401;MQMR=59.9754;NS=21;NUMALT=1;ODDS=4.62469;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34904;QR=58003;RO=1626;RPL=985;RPP=2141.91;RPPR=3533.82;RPR=0;RUN=1;SAF=985;SAP=2141.91;SAR=0;SRF=1626;SRP=3533.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:253:126,127:126:4512:127:4506:-329.548,0,-330.087 0/1:93:40,53:40:1440:53:1873:-140.848,0,-101.902 0/1:159:72,86:72:2584:86:3059:-227.655,0,-184.926 0/1:126:51,75:51:1819:75:2637:-199.643,0,-126.061 0/1:243:113,130:113:4052:130:4601:-341.101,0,-291.716 0/0:135:135,0:135:4826:0:0:0,-40.639,-434.494 0/0:198:197,1:197:7003:1:36:0,-56.0057,-626.629 1/1:204:0,204:0:0:204:7215:-649.406,-61.4101,0 0/1:250:124,126:124:4386:126:4482:-328.287,0,-319.655 0/1:16:9,7:9:324:7:252:-18.2125,0,-24.6894 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:33:7,26:7:252:26:917:-72.9106,0,-13.095 0/0:116:115,1:115:4112:1:36:0,-31.3212,-366.667 0/1:120:45,75:45:1604:75:2669:-204.328,0,-108.527 0/0:180:180,0:180:6417:0:0:0,-54.1854,-577.619 0/0:101:96,5:96:3431:5:176:0,-14.219,-292.818 0/0:99:95,4:95:3388:4:144:0,-16.4884,-291.818 0/1:73:29,44:29:1032:44:1568:-119.436,0,-71.2183 0/1:46:31,15:31:1116:15:525:-33.7307,0,-86.9043 0/0:112:106,6:106:3780:6:208:0,-14.6809,-321.363 0/0:45:45,0:45:1565:0:0:0,-13.5463,-141.136 chr08 3249904 . G A 19028.4 PASS AB=0.559275;ABP=46.7729;AC=13;AF=0.309524;AN=42;AO=1038;CIGAR=1X;DP=2624;DPB=2624;DPRA=1.83656;EPP=2231.02;EPPR=3420.96;GTI=2;LEN=1;MEANALT=1;MQM=59.8362;MQMR=59.9565;NS=21;NUMALT=1;ODDS=0.368263;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37033;QR=56075;RO=1586;RPL=1035;RPP=2231.02;RPPR=3420.96;RPR=3;RUN=1;SAF=1038;SAP=2257;SAR=0;SRF=1586;SRP=3446.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:256:125,131:125:4463:131:4680:-344.298,0,-324.777 0/1:92:38,54:38:1356:54:1931:-146.372,0,-94.6457 0/1:163:72,91:72:2518:91:3266:-245.092,0,-177.803 0/1:126:50,76:50:1767:76:2719:-207.023,0,-121.383 0/1:245:109,136:109:3873:136:4862:-362.959,0,-275.013 0/0:132:132,0:132:4676:0:0:0,-39.736,-421.004 0/0:188:187,1:187:6544:1:36:0,-52.9954,-585.139 1/1:218:0,218:0:0:218:7750:-695.496,-65.6245,0 0/1:255:119,136:119:4222:136:4880:-362.528,0,-303.4 0/1:18:9,9:9:320:9:320:-23.7238,0,-23.7238 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:34:7,27:7:248:27:962:-76.6613,0,-12.4292 0/0:115:115,0:115:4062:0:0:0,-34.6184,-365.768 0/1:120:40,80:40:1424:80:2817:-217.641,0,-92.3339 0/0:180:179,1:179:6353:1:36:0,-50.5871,-568.265 0/0:100:94,6:94:3342:6:216:0,-10.3125,-281.207 0/0:93:89,4:89:3117:4:144:0,-14.6822,-267.064 0/1:75:30,45:30:1027:45:1590:-120.811,0,-70.1573 0/1:50:33,17:33:1164:17:612:-40.3586,0,-90.0154 0/0:113:107,6:107:3810:6:212:0,-14.6495,-323.731 0/0:41:41,0:41:1429:0:0:0,-12.3422,-128.903 chr08 3274262 . G A 13462.5 PASS AB=0.497689;ABP=3.07053;AC=13;AF=0.309524;AN=42;AO=760;CIGAR=1X;DP=2354;DPB=2354;DPRA=1.08687;EPP=1653.33;EPPR=3464.34;GTI=0;LEN=1;MEANALT=1;MQM=59.9974;MQMR=60;NS=21;NUMALT=1;ODDS=9.74095;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27178;QR=56663;RO=1594;RPL=0;RPP=1653.33;RPPR=3464.34;RPR=760;RUN=1;SAF=760;SAP=1653.33;SAR=0;SRF=1594;SRP=3464.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:236:118,118:118:4184:118:4200:-307.136,0,-305.695 0/1:111:55,56:55:1961:56:2012:-147.939,0,-143.349 0/1:96:55,41:55:1968:41:1476:-104.237,0,-148.496 0/1:110:57,53:57:2029:53:1908:-138.884,0,-149.767 0/1:218:118,100:118:4183:100:3573:-256.152,0,-311.026 0/0:111:111,0:111:3942:0:0:0,-33.4143,-354.971 0/0:166:166,0:166:5896:0:0:0,-49.971,-530.748 1/1:113:0,113:0:0:113:4043:-364.056,-34.0164,0 0/1:179:75,104:75:2651:104:3721:-281.205,0,-184.948 0/1:24:10,14:10:360:14:489:-37.1142,0,-25.5196 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:31:19,12:19:654:12:432:-29.8893,0,-49.8456 0/0:98:98,0:98:3489:0:0:0,-29.5009,-314.221 0/1:172:89,83:89:3169:83:2952:-214.134,0,-233.657 0/0:203:203,0:203:7213:0:0:0,-61.1091,-649.222 0/0:84:84,0:84:2949:0:0:0,-25.2865,-265.638 0/0:149:149,0:149:5325:0:0:0,-44.8535,-479.383 0/1:61:25,36:25:900:36:1292:-98.2209,0,-62.9582 0/1:60:31,29:31:1116:29:1044:-76.213,0,-82.6899 0/0:92:91,1:91:3234:1:36:0,-24.0965,-287.681 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 chr08 3274389 . ATCAACA GTCGACG,GTCGACA 38633.1 PASS AB=0.53072,0.45339;ABP=10.7485,20.8237;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1355,505;CIGAR=1X2M1X2M1X,1X2M1X3M;DP=1886;DPB=1886;DPRA=1.20733,0.953005;EPP=2936.68,1099.6;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.75,3.07143;MQM=59.5742,59.9822;MQMR=0;NS=21;NUMALT=2;ODDS=16.9341;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47338,17677;QR=0;RO=0;RPL=1354,505;RPP=2936.68,1099.6;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=2945.36,1099.6;SAR=1355,505;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:84:0,46,34:0:0:46,34:1622,1198:-229.617,-97.5572,-83.7098,-132.078,0,-121.843 1/2:56:0,32,24:0:0:32,24:1120,827:-158.639,-67.52,-57.8871,-91.4658,0,-84.2411 1/2:98:0,42,55:0:0:42,55:1490,1891:-274.887,-153.619,-140.975,-121.327,0,-104.771 1/2:97:0,43,53:0:0:43,53:1505,1860:-273.824,-151.377,-138.433,-122.451,0,-106.496 1/2:234:0,123,107:0:0:123,107:4266,3741:-650.678,-304.352,-267.325,-346.342,0,-314.131 1/1:127:0,123,1:0:0:123,1:4276,36:-383.918,-37.0267,0,-380.981,-34.072,-380.68 1/1:161:0,159,0:0:0:159,0:5551,0:-499.341,-47.8638,0,-499.341,-47.8638,-499.341 2/2:75:0,0,74:0:0:0,74:0,2603:-234.206,-234.206,-234.206,-22.2762,-22.2762,0 1/2:147:0,79,64:0:0:79,64:2768,2251:-408.485,-183.253,-159.472,-225.249,0,-205.983 1/2:21:0,9,12:0:0:9,12:318,412:-59.6958,-33.7959,-31.0866,-26.2488,0,-22.6365 1/1:5:0,5,0:0:0:5,0:178,0:-16.3686,-1.50515,0,-16.3686,-1.50515,-16.3686 1/2:17:0,7,10:0:0:7,10:247,348:-48.7593,-28.6444,-26.5371,-20.4657,0,-17.4554 1/1:131:0,131,0:0:0:131,0:4562,0:-409.912,-39.4349,0,-409.912,-39.4349,-409.912 1/2:76:0,44,31:0:0:44,31:1525,1077:-211.486,-87.5435,-74.2982,-123.931,0,-114.599 1/1:110:0,110,0:0:0:110,0:3855,0:-347.138,-33.1133,0,-347.138,-33.1133,-347.138 1/1:76:0,75,0:0:0:75,0:2624,0:-236.039,-22.5773,0,-236.039,-22.5773,-236.039 1/1:128:0,126,0:0:0:126,0:4396,0:-395.367,-37.9298,0,-395.367,-37.9298,-395.367 1/2:62:0,37,25:0:0:37,25:1311,895:-180.138,-73.3447,-62.2066,-107.15,0,-99.6238 1/2:52:0,39,13:0:0:39,13:1379,466:-150.677,-38.3654,-26.6252,-112.669,0,-108.756 1/1:91:0,89,2:0:0:89,2:3083,72:-277.328,-26.7917,0,-271.453,-20.557,-270.851 1/1:38:0,36,0:0:0:36,0:1262,0:-113.555,-10.8371,0,-113.555,-10.8371,-113.555 chr08 3293901 . T C 12658 PASS AB=0.493553;ABP=3.51428;AC=13;AF=0.309524;AN=42;AO=734;CIGAR=1X;DP=2522;DPB=2522;DPRA=0.969906;EPP=1570.92;EPPR=3831.49;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9414;MQMR=59.9938;NS=21;NUMALT=1;ODDS=4.16449;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26200;QR=63972;RO=1787;RPL=3;RPP=1570.92;RPPR=3831.49;RPR=731;RUN=1;SAF=734;SAP=1596.87;SAR=0;SRF=1787;SRP=3883.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:54,75:54:1921:75:2676:-202.253,0,-134.332 0/1:189:90,99:90:3240:99:3539:-261.824,0,-234.925 0/1:157:83,74:83:2969:74:2652:-191.664,0,-220.179 0/1:149:86,63:86:3088:63:2235:-156.56,0,-233.294 0/1:306:146,160:146:5236:160:5731:-423.787,0,-379.261 0/0:104:102,2:102:3652:2:62:0,-25.4189,-322.996 0/0:236:236,0:236:8456:0:0:0,-71.0431,-761.041 1/1:43:0,43:0:0:43:1526:-137.632,-12.9443,0 0/1:102:51,51:51:1817:51:1817:-133.105,0,-133.104 0/1:19:15,4:15:536:4:144:-7.59405,0,-42.8552 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:34:20,14:20:720:14:490:-34.1954,0,-54.8938 0/0:97:97,0:97:3480:0:0:0,-29.1999,-313.411 0/1:145:66,79:66:2372:79:2824:-210.686,0,-170.088 0/0:128:128,0:128:4549:0:0:0,-38.5318,-409.573 0/0:146:146,0:146:5214:0:0:0,-43.9504,-469.396 0/0:152:152,0:152:5464:0:0:0,-45.7566,-491.885 0/1:47:24,22:24:864:22:788:-57.0377,0,-63.8754 0/1:119:71,48:71:2544:48:1716:-118.903,0,-193.388 0/0:140:140,0:140:4990:0:0:0,-42.1442,-449.247 0/0:73:73,0:73:2608:0:0:0,-21.9752,-234.968 chr08 3294986 . C G 26525.1 PASS AB=0.475543;ABP=8.74582;AC=29;AF=0.690476;AN=42;AO=1322;CIGAR=1X;DP=1977;DPB=1977;DPRA=1.34225;EPP=2873.7;EPPR=1423.15;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9894;MQMR=60;NS=21;NUMALT=1;ODDS=5.5754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46784;QR=23132;RO=654;RPL=1322;RPP=2873.7;RPPR=1423.15;RPR=0;RUN=1;SAF=1322;SAP=2873.7;SAR=0;SRF=654;SRP=1423.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:70,66:70:2468:66:2346:-170.098,0,-181.073 0/1:131:69,62:69:2447:62:2197:-158.559,0,-181.05 0/1:89:57,32:57:2030:32:1114:-73.774,0,-156.179 0/1:69:42,27:42:1495:27:972:-67.0268,0,-114.073 0/1:196:104,92:104:3700:92:3234:-232.277,0,-274.2 1/1:84:1,83:1:36:83:2933:-260.606,-21.6882,0 1/1:97:0,97:0:0:97:3413:-307.387,-29.1999,0 0/0:71:71,0:71:2480:0:0:0,-21.3731,-223.451 0/1:85:48,37:48:1688:37:1307:-92.3432,0,-126.616 0/1:23:9,14:9:320:14:486:-37.1443,0,-22.2187 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:36:17,19:17:612:19:661:-48.9745,0,-44.5764 1/1:97:0,97:0:0:97:3446:-310.354,-29.1999,0 0/1:131:70,61:70:2499:61:2173:-156.401,0,-185.727 1/1:178:1,177:1:36:177:6259:-559.81,-49.9851,0 1/1:110:2,108:2:72:108:3859:-340.669,-26.2766,0 1/1:80:0,80:0:0:80:2826:-254.579,-24.0824,0 0/1:119:59,60:59:2056:60:2131:-156.235,0,-149.487 0/1:88:33,55:33:1157:55:1958:-150.003,0,-77.9436 1/1:89:1,88:1:36:88:3129:-278.238,-23.1934,0 1/1:61:0,61:0:0:61:2128:-191.787,-18.3628,0 chr08 3294995 . A G 30189 PASS AB=0.504285;ABP=3.36389;AC=13;AF=0.309524;AN=42;AO=1299;CIGAR=1X;DP=4037;DPB=4037;DPRA=1.41275;EPP=2823.75;EPPR=5948.5;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9883;NS=21;NUMALT=1;ODDS=11.3013;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45893;QR=97683;RO=2738;RPL=625;RPP=7.02393;RPPR=6.05893;RPR=674;RUN=1;SAF=625;SAP=7.02393;SAR=674;SRF=1338;SRP=6.05893;SRR=1400;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:259:125,134:125:4464:134:4706:-345.739,0,-323.962 0/1:246:121,125:121:4312:125:4451:-326.709,0,-314.205 0/1:184:74,110:74:2648:110:3876:-293.646,0,-183.177 0/1:192:83,109:83:2961:109:3840:-288.002,0,-208.924 0/1:430:215,215:215:7663:215:7620:-556.4,0,-560.25 0/0:185:184,1:184:6559:1:32:0,-52.4912,-587.193 0/0:164:162,2:162:5779:2:57:0,-43.9556,-514.813 1/1:171:0,171:0:0:171:6006:-540.654,-51.4761,0 0/1:184:87,97:87:3112:97:3412:-251.905,0,-224.918 0/1:26:15,11:15:540:11:388:-27.4306,0,-41.1098 0/0:11:11,0:11:388:0:0:0,-3.31133,-35.2574 0/1:61:23,38:23:824:38:1356:-103.978,0,-56.1205 0/0:214:214,0:214:7576:0:0:0,-64.4204,-681.889 0/1:232:111,121:111:3976:121:4296:-316.979,0,-288.191 0/0:362:360,2:360:12864:2:72:0,-102.136,-1150.66 0/0:204:202,2:202:7220:2:72:0,-54.5734,-643.019 0/0:201:201,0:201:7192:0:0:0,-60.507,-647.335 0/1:220:120,100:120:4296:100:3538:-252.402,0,-320.591 0/1:183:125,58:125:4450:58:2063:-130.852,0,-345.583 0/0:191:189,2:189:6691:2:72:0,-50.66,-595.434 0/0:117:116,1:116:4168:1:36:0,-31.6222,-371.703 chr08 3295025 . C T 37242.3 PASS AB=0.507923;ABP=3.62963;AC=29;AF=0.690476;AN=42;AO=1425;CIGAR=1X;DP=2087;DPB=2087;DPRA=1.02577;EPP=255.433;EPPR=69.1516;GTI=0;LEN=1;MEANALT=1;MQM=59.9832;MQMR=60;NS=21;NUMALT=1;ODDS=7.97791;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50984;QR=23540;RO=662;RPL=916;RPP=255.433;RPPR=69.1516;RPR=509;RUN=1;SAF=0;SAP=3097.36;SAR=1425;SRF=0;SRP=1440.53;SRR=662;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:63,55:63:2240:55:1960:-141.154,0,-166.343 0/1:117:60,57:60:2130:57:2025:-147.3,0,-156.747 0/1:93:53,40:53:1892:40:1440:-101.902,0,-142.562 0/1:122:67,55:67:2391:55:1951:-139.137,0,-178.721 0/1:249:117,132:117:4156:132:4720:-350.003,0,-299.267 1/1:100:1,99:1:36:99:3548:-315.93,-26.5047,0 1/1:68:1,67:1:36:67:2389:-211.668,-16.8718,0 0/0:97:97,0:97:3450:0:0:0,-29.1999,-310.713 0/1:103:48,55:48:1708:55:1976:-147.109,0,-123 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:24:20,4:20:716:4:144:-6.0889,0,-57.543 1/1:118:0,118:0:0:118:4227:-380.609,-35.5215,0 0/1:103:53,50:53:1900:50:1797:-131.006,0,-140.272 1/1:192:1,191:1:36:191:6825:-610.631,-54.1995,0 1/1:91:0,91:0:0:91:3251:-292.81,-27.3937,0 1/1:119:1,118:1:36:118:4240:-378.18,-32.2243,0 0/1:105:50,55:50:1742:55:1965:-145.516,0,-125.452 0/1:95:25,70:25:891:70:2482:-195.033,0,-51.9109 1/1:105:1,104:1:36:104:3740:-333.201,-28.0099,0 1/1:56:1,55:1:36:55:1980:-174.876,-13.2594,0 chr08 3295764 . G A 10878.9 PASS AB=0.528302;ABP=9.64763;AC=13;AF=0.309524;AN=42;AO=619;CIGAR=1X;DP=1719;DPB=1719;DPRA=1.4604;EPP=1347.15;EPPR=2389.46;GTI=1;LEN=1;MEANALT=1;MQM=45.8772;MQMR=58.7234;NS=21;NUMALT=1;ODDS=0.423437;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22200;QR=39203;RO=1099;RPL=0;RPP=1347.15;RPPR=2389.46;RPR=619;RUN=1;SAF=619;SAP=1347.15;SAR=0;SRF=1099;SRP=2389.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:41,76:41:1453:76:2732:-208.372,0,-95.815 0/1:62:39,23:39:1385:23:828:-54.2352,0,-106.178 0/1:101:36,65:36:1281:65:2313:-175.66,0,-85.1648 0/1:98:37,61:37:1298:61:2196:-166.342,0,-87.1887 0/1:161:72,89:72:2573:89:3180:-233.046,0,-182.877 0/0:36:35,0:35:1233:0:0:0,-10.536,-110.749 0/0:127:127,0:127:4549:0:0:0,-38.2308,-408.97 1/1:111:0,111:0:0:111:3988:-352.195,-33.4143,0 0/1:152:86,66:86:3088:66:2364:-165.596,0,-232.305 0/1:4:2,2:2:72:2:72:-5.53806,0,-5.6326 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5474 0/1:30:12,18:12:428:18:639:-47.1371,0,-29.8245 0/0:105:104,1:104:3721:1:36:0,-28.0596,-331.088 0/1:83:43,40:43:1536:40:1440:-101.872,0,-113.05 0/0:104:103,1:103:3692:1:36:0,-27.7403,-328.189 0/0:80:80,0:80:2804:0:0:0,-24.0824,-252.577 0/0:73:72,1:72:2584:1:36:0,-18.3964,-229.209 0/1:61:27,34:27:964:34:1224:-90.0457,0,-68.7131 0/1:85:55,30:55:1957:30:1080:-69.9853,0,-150.816 0/0:69:68,1:68:2425:1:36:0,-17.2226,-214.842 0/0:55:55,0:55:1980:0:0:0,-16.5566,-177.722 chr08 3326456 . ATACT ATACC,GTACC 77823.2 PASS AB=0.525858,0.469022;ABP=14.3524,19.2891;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2522,1088;CIGAR=4M1X,1X3M1X;DP=3626;DPB=3626.2;DPRA=1.02917,1.30035;EPP=5358.54,2330.96;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.4,2.66667;MQM=59.9937,59.9688;MQMR=60;NS=21;NUMALT=2;ODDS=0.0756527;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=90264,38283;QR=36;RO=1;RPL=2508,1084;RPP=5358.54,2330.96;RPPR=5.18177;RPR=14,4;RUN=1,1;SAF=0,0;SAP=5479.46,2365.57;SAR=2522,1088;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:252:0,130,122:0:0:130,122:4643,4291:-728.191,-349.646,-310.512,-378.899,0,-342.173 1/2:199:0,118,79:0:0:118,79:4223,2753:-568.287,-223.911,-188.389,-344.422,0,-320.641 1/2:122:0,66,56:0:0:66,56:2364,1987:-354.681,-161.887,-142.019,-192.791,0,-175.933 1/2:223:0,132,89:0:0:132,89:4739,3155:-643.603,-257.029,-217.293,-386.575,0,-359.784 1/2:444:1,218,224:1:36:218,224:7777,7879:-1272.1,-638.42,-575.733,-631.035,0,-566.541 1/1:229:0,227,1:0:0:227,1:8128,36:-731.205,-68.3338,0,-728.268,-65.3665,-727.967 1/1:212:0,210,1:0:0:210,1:7540,36:-678.278,-63.2163,0,-675.34,-60.2789,-675.039 2/2:168:0,0,168:0:0:0,168:0,5932:-533.998,-533.998,-533.998,-50.573,-50.573,0 1/2:294:0,145,147:0:0:145,147:5196,5135:-841.55,-417.775,-374.126,-423.857,0,-379.606 1/2:14:0,12,2:0:0:12,2:428,72:-41.1218,-6.23466,-2.6223,-35.2464,0,-34.6444 1/1:21:0,21,0:0:0:21,0:752,0:-68.0063,-6.32163,0,-68.0063,-6.32163,-68.0063 1/2:65:0,33,32:0:0:33,32:1188,1143:-190.482,-93.5457,-83.6117,-97.2946,0,-87.6616 1/1:247:0,245,0:0:0:245,0:8764,0:-788.447,-73.7524,0,-788.447,-73.7524,-788.447 1/2:219:0,102,116:0:0:102,116:3660,4057:-628.688,-330.144,-299.439,-298.637,0,-263.718 1/1:254:0,254,0:0:0:254,0:9099,0:-818.882,-76.4616,0,-818.882,-76.4616,-818.882 1/1:168:0,167,0:0:0:167,0:5969,0:-536.943,-50.272,0,-536.943,-50.272,-536.943 1/1:120:0,120,0:0:0:120,0:4291,0:-386.367,-36.1236,0,-386.367,-36.1236,-386.367 1/2:44:0,22,21:0:0:22,21:788,731:-123.698,-59.4293,-52.8066,-64.2624,0,-57.9408 1/2:77:0,49,28:0:0:49,28:1760,1004:-225.822,-82.2474,-67.4969,-143.933,0,-135.505 1/1:211:0,208,2:0:0:208,2:7411,72:-666.675,-62.6142,0,-660.8,-56.7394,-660.198 1/1:43:0,43,0:0:0:43,0:1544,0:-139.253,-12.9443,0,-139.253,-12.9443,-139.253 chr08 3335295 . G A 43797.5 PASS AB=0.525559;ABP=10.1144;AC=29;AF=0.690476;AN=42;AO=1683;CIGAR=1X;DP=2386;DPB=2386;DPRA=1.06495;EPP=3657.6;EPPR=1529.56;GTI=0;LEN=1;MEANALT=1;MQM=50.9465;MQMR=57.5391;NS=21;NUMALT=1;ODDS=14.3898;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59808;QR=24974;RO=703;RPL=809;RPP=8.46156;RPPR=16.0608;RPR=874;RUN=1;SAF=809;SAP=8.46156;SAR=874;SRF=319;SRP=16.0608;SRR=384;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:42,64:42:1504:64:2288:-170.197,0,-103.638 0/1:113:62,51:62:2200:51:1828:-127.947,0,-164.137 0/1:85:42,43:42:1504:43:1523:-108.299,0,-109.963 0/1:101:54,47:54:1895:47:1676:-118.204,0,-140.175 0/1:248:108,140:108:3855:140:4978:-368.111,0,-271.817 1/1:96:0,96:0:0:96:3416:-302.836,-28.8989,0 1/1:258:0,258:0:0:258:9204:-807.064,-77.6657,0 0/0:107:107,0:107:3804:0:0:0,-32.2102,-341.963 0/1:200:103,97:103:3643:97:3439:-248.45,0,-267.844 0/1:13:7,6:7:252:6:208:-14.956,0,-19.0935 1/1:6:0,6:0:0:6:216:-19.6587,-1.80618,0 0/1:25:16,9:16:576:9:320:-21.035,0,-44.6169 1/1:146:0,146:0:0:146:5169:-454.929,-43.9504,0 0/1:104:39,65:39:1383:65:2312:-172.285,0,-93.381 1/1:147:0,147:0:0:147:5232:-461.594,-44.2514,0 1/1:96:1,95:1:32:95:3360:-298.634,-25.6996,0 1/1:61:0,61:0:0:61:2180:-196.093,-18.3628,0 0/1:149:78,71:78:2775:71:2492:-176.007,0,-204.793 0/1:108:43,65:43:1515:65:2282:-171.817,0,-103.929 1/1:122:1,121:1:36:121:4312:-375.978,-33.1325,0 1/1:95:0,95:0:0:95:3373:-299.858,-28.5979,0 chr08 3463891 . G A 10209.8 PASS AB=0.481773;ABP=5.93911;AC=13;AF=0.309524;AN=42;AO=587;CIGAR=1X;DP=1886;DPB=1886;DPRA=0.975743;EPP=1277.66;EPPR=2821.58;GTI=0;LEN=1;MEANALT=1;MQM=59.8944;MQMR=59.9831;NS=21;NUMALT=1;ODDS=8.85708;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20926;QR=46256;RO=1298;RPL=587;RPP=1277.66;RPPR=2821.58;RPR=0;RUN=1;SAF=587;SAP=1277.66;SAR=0;SRF=1298;SRP=2821.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:20,9:20:720:9:324:-20.776,0,-56.3989 0/1:66:26,40:26:924:40:1421:-108.319,0,-63.6097 0/1:114:56,58:56:2012:58:2080:-153.151,0,-147.036 0/1:129:66,63:66:2341:63:2264:-165.189,0,-172.115 0/1:136:71,65:71:2527:65:2300:-166.238,0,-186.741 0/0:99:99,0:99:3540:0:0:0,-29.802,-318.809 0/0:101:101,0:101:3598:0:0:0,-30.404,-324.027 1/1:95:0,95:0:0:95:3391:-305.405,-28.5979,0 0/1:192:90,102:90:3212:102:3607:-267.037,0,-231.506 0/1:12:8,4:8:269:4:144:-9.70126,0,-20.9238 0/0:5:5,0:5:161:0:0:0,-1.50515,-14.8066 0/1:26:17,9:17:612:9:324:-21.6791,0,-47.5867 0/0:110:109,0:109:3895:0:0:0,-32.8123,-350.384 0/1:77:44,33:44:1565:33:1172:-82.6082,0,-117.96 0/0:181:181,0:181:6450:0:0:0,-54.4864,-580.52 0/0:88:88,0:88:3144:0:0:0,-26.4906,-283.183 0/0:70:69,1:69:2464:1:36:0,-17.4738,-218.416 0/1:180:93,87:93:3336:87:3107:-225.672,0,-246.272 0/1:54:35,19:35:1251:19:684:-45.6347,0,-96.6387 0/0:67:65,2:65:2308:2:72:0,-13.3323,-201.142 0/0:55:55,0:55:1927:0:0:0,-16.5566,-173.704 chr08 3464487 . GTCA ATCA,ATCG 116291 PASS AB=0.635685,0.361826;ABP=388.393,402.666;AC=29,13;AF=0.690476,0.309524;AN=42;AO=3394,990;CIGAR=1X3M,1X2M1X;DP=4394;DPB=4395.75;DPRA=1.98426,0.966015;EPP=7372.99,2152.77;EPPR=0;GTI=1;LEN=1,4;MEANALT=2.05,2.3125;MQM=59.86,55.6747;MQMR=0;NS=21;NUMALT=2;ODDS=8.47225;PAIRED=0,0;PAIREDR=0;PAO=1,6;PQA=36,181;PQR=0;PRO=0;QA=121162,34624;QR=0;RO=0;RPL=1836,847;RPP=52.4564,1090.1;RPPR=0;RPR=1558,143;RUN=1,1;SAF=1836,847;SAP=52.4564,1090.1;SAR=1558,143;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:259:0,185,74:0:0:185,74:6636,2601:-752.944,-211.793,-156.102,-541.504,0,-519.228 1/2:106:0,44,62:0:0:44,62:1576,2187:-306.113,-177.583,-164.338,-128.603,0,-109.94 1/2:127:0,97,30:0:0:97,30:3488,1045:-369.756,-85.1763,-55.9763,-284.93,0,-275.899 1/2:328:0,219,109:0:0:219,109:7802,3828:-947.434,-311.522,-245.596,-636.265,0,-603.452 1/2:497:0,307,186:0:0:307,186:10940,6486:-1417.1,-525.671,-433.254,-891.429,0,-835.437 1/1:165:0,162,2:0:0:162,2:5791,71:-520.909,-48.7669,0,-515.125,-42.9859,-514.523 1/1:120:0,118,1:0:0:118,1:4199,35:-377.757,-35.5215,0,-374.918,-32.6427,-374.617 2/2:108:0,0,107:0:0:0,107:0,3712:-333.329,-333.329,-333.329,-32.2102,-32.2102,0 1/2:529:0,277,250:0:0:277,250:9895,8822:-1524.87,-718.123,-634.738,-806.774,0,-731.517 1/2:38:0,23,15:0:0:23,15:828,526:-110.613,-43.0467,-36.123,-67.9204,0,-63.405 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:75:0,60,15:0:0:60,15:2152,512:-217.023,-41.4802,-23.4184,-175.885,0,-171.37 1/1:288:0,288,0:0:0:288,0:10256,0:-922.966,-86.6966,0,-922.966,-86.6966,-922.966 1/2:166:0,116,50:0:0:116,50:4101,1682:-469.862,-135.922,-101.003,-334.28,0,-319.228 1/1:503:0,502,0:0:0:502,0:17941,0:-1613.97,-151.117,0,-1613.97,-151.117,-1613.97 1/1:297:0,296,1:0:0:296,1:10602,36:-953.725,-89.1049,0,-950.788,-85.8076,-950.487 1/1:229:0,229,0:0:0:229,0:8174,0:-735.668,-68.9359,0,-735.668,-68.9359,-735.668 1/2:155:0,111,44:0:0:111,44:3923,1540:-444.26,-124.779,-91.3646,-319.471,0,-306.226 1/2:130:0,93,37:0:0:93,37:3307,1303:-375.294,-105.791,-77.7956,-269.854,0,-258.716 1/1:220:0,213,7:0:0:213,7:7620,238:-685.477,-64.1194,0,-666.188,-44.4909,-664.081 1/1:49:0,49,0:0:0:49,0:1751,0:-157.868,-14.7505,0,-157.868,-14.7505,-157.868 chr08 3470262 . C T 44273.2 PASS AB=0.467314;ABP=17.3476;AC=28;AF=0.666667;AN=42;AO=1830;CIGAR=1X;DP=2783;DPB=2783;DPRA=2.33596;EPP=1199.12;EPPR=2070.25;GTI=0;LEN=1;MEANALT=1.05263;MQM=42.8781;MQMR=59.9842;NS=21;NUMALT=1;ODDS=9.4758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65489;QR=33963;RO=952;RPL=1417;RPP=1199.12;RPPR=2070.25;RPR=413;RUN=1;SAF=1830;SAP=3976.8;SAR=0;SRF=952;SRP=2070.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:71,72:71:2548:72:2556:-180.077,0,-186.509 0/1:94:55,39:55:1947:39:1400:-94.9135,0,-147.209 0/1:123:69,54:69:2467:54:1940:-132.66,0,-185.257 0/1:197:103,94:103:3679:94:3376:-236.061,0,-272.01 0/1:394:201,193:201:7151:193:6879:-482.077,0,-525.044 1/1:127:1,126:1:32:126:4503:-391.253,-35.0315,0 1/1:172:1,171:1:36:171:6119:-534.337,-48.1789,0 0/0:112:112,0:112:3990:0:0:0,-33.7154,-359.291 0/1:263:155,108:155:5560:108:3872:-260.801,0,-421.352 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 1/1:8:0,8:0:0:8:284:-25.4758,-2.40824,0 0/1:20:13,7:13:468:7:252:-16.5139,0,-36.439 1/1:207:1,206:1:36:206:7375:-638.826,-58.7149,0 0/1:177:94,83:94:3347:83:2951:-205.087,0,-248.163 1/1:99:0,99:0:0:99:3560:-312.189,-29.802,0 1/1:109:2,106:2:72:106:3791:-326.374,-26.0302,0 1/1:216:1,215:1:36:215:7716:-676.679,-61.4242,0 0/1:68:35,33:35:1243:33:1188:-84.456,0,-91.7038 0/1:66:27,39:27:955:39:1395:-102.428,0,-66.3969 1/1:134:3,131:3:108:131:4684:-403.176,-30.2629,0 1/1:46:0,46:0:0:46:1648:-145.564,-13.8474,0 chr08 3483407 . T C 9841.45 PASS AB=0.541451;ABP=14.5315;AC=13;AF=0.309524;AN=42;AO=549;CIGAR=1X;DP=1609;DPB=1609;DPRA=1.05609;EPP=1195.15;EPPR=2289.58;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.9872;MQMR=60;NS=21;NUMALT=1;ODDS=3.90932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19339;QR=37529;RO=1057;RPL=549;RPP=1195.15;RPPR=2289.58;RPR=0;RUN=1;SAF=549;SAP=1195.15;SAR=0;SRF=1057;SRP=2298.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:21,41:21:752:41:1440:-110.869,0,-48.9827 0/1:76:41,34:41:1457:34:1224:-87.627,0,-108.584 0/1:86:26,59:26:909:59:2077:-161.252,0,-56.1764 0/1:98:39,59:39:1377:59:2086:-158.508,0,-94.7257 0/1:127:58,69:58:2059:69:2392:-177.3,0,-147.35 0/0:83:83,0:83:2927:0:0:0,-24.9855,-263.664 0/0:142:141,1:141:5050:1:36:0,-39.148,-451.045 1/1:128:0,128:0:0:128:4459:-401.482,-38.5318,0 0/1:111:48,63:48:1720:63:2247:-169.079,0,-121.671 0/1:12:5,7:5:176:7:243:-18.5951,0,-12.5727 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:17:6,11:6:216:11:392:-30.5025,0,-14.673 0/0:184:184,0:184:6541:0:0:0,-55.3895,-588.772 0/1:22:7,15:7:252:15:532:-41.5904,0,-16.4063 0/0:101:101,0:101:3562:0:0:0,-30.404,-320.789 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:53:53,0:53:1888:0:0:0,-15.9546,-170.198 0/1:96:54,42:54:1890:42:1499:-106.305,0,-141.478 0/1:64:46,18:46:1637:18:640:-38.6634,0,-128.351 0/0:50:48,2:48:1684:2:72:0,-8.21478,-145.007 0/0:63:63,0:63:2244:0:0:0,-18.9649,-202.224 chr08 3483425 . A G 9635.24 PASS AB=0.535526;ABP=11.3419;AC=13;AF=0.309524;AN=42;AO=536;CIGAR=1X;DP=1600;DPB=1600;DPRA=1.03846;EPP=1166.92;EPPR=2313.46;GTI=0;LEN=1;MEANALT=1;MQM=59.9869;MQMR=59.9821;NS=21;NUMALT=1;ODDS=5.04426;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18906;QR=37825;RO=1064;RPL=536;RPP=1166.92;RPPR=2313.46;RPR=0;RUN=1;SAF=536;SAP=1166.92;SAR=0;SRF=1064;SRP=2313.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:23,38:23:824:38:1324:-101.092,0,-56.1205 0/1:76:44,32:44:1543:32:1130:-79.1287,0,-116.28 0/1:86:26,60:26:927:60:2118:-164.999,0,-57.8588 0/1:96:39,57:39:1388:57:2010:-152.271,0,-96.32 0/1:127:60,67:60:2143:67:2347:-173.258,0,-154.906 0/0:87:87,0:87:3103:0:0:0,-26.1896,-279.452 0/0:140:139,1:139:4964:1:36:0,-38.5459,-443.309 1/1:127:0,127:0:0:127:4481:-403.462,-38.2308,0 0/1:111:48,63:48:1724:63:2239:-168.359,0,-122.031 0/1:12:5,7:5:180:7:239:-18.2304,0,-12.9397 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:16:6,10:6:212:10:360:-27.9278,0,-14.6083 0/0:184:184,0:184:6497:0:0:0,-55.3895,-584.822 0/1:21:6,15:6:216:15:527:-41.4386,0,-13.4689 0/0:103:103,0:103:3662:0:0:0,-31.0061,-329.785 0/0:28:28,0:28:991:0:0:0,-8.42884,-89.5035 0/0:51:51,0:51:1815:0:0:0,-15.3525,-163.631 0/1:94:54,40:54:1920:40:1415:-99.3498,0,-144.78 0/1:60:42,18:42:1488:18:644:-40.2288,0,-116.153 0/0:53:52,1:52:1860:1:36:0,-12.3563,-164.081 0/0:61:61,0:61:2152:0:0:0,-18.3628,-193.945 chr08 3512757 . A G 6064.31 PASS AB=0.41958;ABP=43.1749;AC=13;AF=0.309524;AN=42;AO=368;CIGAR=1X;DP=1476;DPB=1476;DPRA=1.01244;EPP=793.45;EPPR=2365.77;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.17489;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13098;QR=39550;RO=1108;RPL=367;RPP=793.45;RPPR=2365.77;RPR=1;RUN=1;SAF=0;SAP=802.112;SAR=368;SRF=0;SRP=2409;SRR=1108;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:28,37:28:1004:37:1311:-98.7248,0,-71.1089 0/1:43:17,26:17:612:26:936:-71.6152,0,-42.4691 0/1:93:53,40:53:1881:40:1419:-100.011,0,-141.571 0/1:54:32,22:32:1132:22:792:-55.3501,0,-85.933 0/1:85:54,31:54:1940:31:1095:-73.2715,0,-149.289 0/0:61:61,0:61:2165:0:0:0,-18.3628,-195.115 0/0:181:181,0:181:6449:0:0:0,-54.4864,-580.499 1/1:65:0,65:0:0:65:2312:-208.341,-19.567,0 0/1:128:78,50:78:2788:50:1788:-122.671,0,-212.629 0/1:7:5,2:5:180:2:68:-4.3505,0,-14.4449 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:28:14,14:14:489:14:491:-36.0923,0,-35.9101 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 0/1:70:41,29:41:1449:29:1040:-72.8423,0,-109.632 0/0:177:176,1:176:6299:1:36:0,-49.684,-563.404 0/0:67:67,0:67:2412:0:0:0,-20.169,-217.336 0/0:71:71,0:71:2536:0:0:0,-21.3731,-228.491 0/1:89:54,35:54:1922:35:1260:-86.9138,0,-146.464 0/1:53:39,14:39:1396:14:478:-27.3895,0,-109.985 0/0:39:38,1:38:1352:1:36:0,-8.14189,-118.382 0/0:62:61,1:61:2176:1:36:0,-15.0656,-192.508 chr08 3565497 . A G 4410.35 PASS AB=0.44942;ABP=16.41;AC=13;AF=0.309524;AN=42;AO=314;CIGAR=1X;DP=1034;DPB=1034;DPRA=1.32686;EPP=4.78067;EPPR=5.7322;GTI=0;LEN=1;MEANALT=1;MQM=26.9682;MQMR=59.3454;NS=21;NUMALT=1;ODDS=7.49218;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11169;QR=25545;RO=718;RPL=0;RPP=684.853;RPPR=1562.13;RPR=314;RUN=1;SAF=165;SAP=4.78067;SAR=149;SRF=344;SRP=5.7322;SRR=374;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:28,25:28:992:25:892:-43.3117,0,-73.2687 0/1:37:16,21:16:550:21:735:-37.7471,0,-38.6852 0/1:14:10,4:10:341:4:144:-5.66043,0,-26.8033 0/1:53:28,25:28:995:25:885:-40.7166,0,-73.8918 0/1:71:38,33:38:1345:33:1188:-55.4119,0,-99.975 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.49 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.405 1/1:41:0,41:0:0:41:1444:-97.5794,-12.3422,0 0/1:73:38,35:38:1359:35:1260:-66.5395,0,-100.584 0/1:9:5,4:5:180:4:144:-7.25049,0,-13.8428 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:23:12,11:12:428:11:383:-19.2266,0,-31.9351 0/0:52:51,1:51:1794:1:32:0,-13.2323,-159.295 0/1:33:14,19:14:504:19:684:-36.1535,0,-35.7464 0/0:55:54,1:54:1925:1:36:0,-13.8204,-170.779 0/0:40:40,0:40:1424:0:0:0,-12.0412,-128.251 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.5096 0/1:127:73,54:73:2620:54:1928:-91.2905,0,-197.764 0/1:110:70,40:70:2507:40:1414:-60.0544,0,-192.723 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/0:107:105,0:105:3709:0:0:0,-31.6081,-333.571 chr08 3565513 . CTCAAG CTCAGA,TTCAGA 26277.2 PASS AB=0.548387,0.446774;ABP=15.6188,18.2666;AC=29,13;AF=0.690476,0.309524;AN=42;AO=730,324;CIGAR=4M2X,1X3M2X;DP=1058;DPB=1058;DPRA=1.20952,1.99096;EPP=1213.81,3.03711;EPPR=0;GTI=0;LEN=2,6;MEANALT=1.9,2.2;MQM=59.3863,27.1481;MQMR=0;NS=21;NUMALT=2;ODDS=9.25697;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25797,11127;QR=0;RO=0;RPL=302,7;RPP=50.2354,647.08;RPPR=0;RPR=428,317;RUN=1,1;SAF=346,168;SAP=7.30565,3.9754;SAR=384,156;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,28,25:0:0:28,25:1004,869:-132.918,-50.9822,-42.5534,-81.9067,0,-74.3809 1/2:40:0,19,21:0:0:19,21:668,702:-96.4936,-42.0733,-36.3537,-54.7258,0,-48.4042 1/2:15:0,10,5:0:0:10,5:358,175:-39.9399,-10.6832,-7.67291,-29.5526,0,-28.0474 1/2:55:0,29,26:0:0:29,26:1029,894:-134.849,-50.9741,-42.2443,-84.1747,0,-76.3479 1/2:73:0,37,35:0:0:37,35:1319,1222:-178.448,-70.8834,-59.7453,-107.637,0,-97.1011 1/1:34:0,34,0:0:0:34,0:1200,0:-108.286,-10.235,0,-108.286,-10.235,-108.286 1/1:41:0,41,0:0:0:41,0:1441,0:-129.876,-12.3422,0,-129.876,-12.3422,-129.876 2/2:42:0,0,42:0:0:0,42:0,1416:-98.9442,-98.9442,-98.9442,-12.6433,-12.6433,0 1/2:75:0,39,36:0:0:39,36:1400,1259:-193.794,-79.6007,-67.8605,-114.51,0,-103.673 1/2:9:0,5,4:0:0:5,4:178,141:-23.2772,-8.72091,-7.21576,-14.8635,0,-13.6594 1/1:6:0,6,0:0:0:6,0:192,0:-17.5935,-1.80618,0,-17.5935,-1.80618,-17.5935 1/2:24:0,13,11:0:0:13,11:466,364:-60.4281,-22.3661,-18.4527,-38.3653,0,-35.054 1/1:54:0,53,1:0:0:53,1:1861,32:-167.5,-15.9546,0,-165.624,-13.8344,-165.323 1/2:34:0,15,19:0:0:15,19:520,673:-82.5299,-40.2476,-35.7322,-42.5937,0,-36.8742 1/1:57:0,56,1:0:0:56,1:1944,36:-174.938,-16.8577,0,-172.777,-14.4225,-172.476 1/1:41:0,41,0:0:0:41,0:1472,0:-132.564,-12.3422,0,-132.564,-12.3422,-132.564 1/1:19:0,19,0:0:0:19,0:682,0:-61.5716,-5.71957,0,-61.5716,-5.71957,-61.5716 1/2:127:0,73,54:0:0:73,54:2550,1882:-319.97,-112.525,-90.5499,-207.746,0,-191.49 1/2:113:0,72,41:0:0:72,41:2550,1364:-289.67,-81.9013,-60.2271,-208.06,0,-195.718 1/1:36:0,36,0:0:0:36,0:1268,0:-114.421,-10.8371,0,-114.421,-10.8371,-114.421 1/1:108:0,104,3:0:0:104,3:3695,98:-332.358,-31.3071,0,-325.924,-24.9361,-325.021 chr08 3578230 . ATTTTCTCTTTTCA ATTCTCTCTTTTCA,ATTCTCTTTTCA 39736.3 PASS AB=0.534707,0.460954;ABP=12.6571,15.2195;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1368,489;CIGAR=3M1X10M,1M2D11M;DP=1871;DPB=1801;DPRA=1.43492,1.03986;EPP=2964.91,1064.86;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.2,2.5;MQM=59.9678,60;MQMR=0;NS=21;NUMALT=2;ODDS=13.7661;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48913,17128;QR=0;RO=0;RPL=1,0;RPP=2964.91,1064.86;RPPR=0;RPR=1367,489;RUN=1,1;SAF=0,0;SAP=2973.58,1064.86;SAR=1368,489;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:82:0,46,36:0:0:46,36:1652,1276:-239.071,-104.306,-90.4586,-135.121,0,-124.284 1/1:19:0,19,0:0:0:19,0:680,0:-61.5292,-5.71957,0,-61.5292,-5.71957,-61.5292 1/2:100:0,60,40:0:0:60,40:2144,1392:-288.347,-113.533,-95.4712,-175.166,0,-163.125 1/2:81:0,44,37:0:0:44,37:1557,1324:-235.142,-108.324,-95.0787,-127.174,0,-116.036 1/2:243:0,130,112:0:0:130,112:4640,3932:-698.277,-320.003,-280.869,-378.269,0,-344.553 1/1:178:0,178,0:0:0:178,0:6370,0:-573.385,-53.5833,0,-573.385,-53.5833,-573.385 1/1:165:0,162,0:0:0:162,0:5787,0:-520.661,-48.7669,0,-520.661,-48.7669,-520.661 2/2:63:0,0,63:0:0:0,63:0,2210:-199.165,-199.165,-199.165,-18.9649,-18.9649,0 1/2:160:0,85,74:0:0:85,74:3038,2574:-457.02,-209.311,-183.723,-247.741,0,-225.465 1/2:12:0,7,5:0:0:7,5:252,180:-35.6088,-15.0469,-12.9397,-20.9217,0,-19.4166 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:32:0,20,12:0:0:20,12:720,405:-91.9231,-33.1607,-27.1401,-59.1082,0,-55.4958 1/1:95:0,95,0:0:0:95,0:3386,0:-304.683,-28.5979,0,-304.683,-28.5979,-304.683 1/2:112:0,43,67:0:0:43,67:1536,2321:-313.9,-188.664,-175.719,-125.272,0,-105.103 1/1:104:0,102,0:0:0:102,0:3647,0:-328.084,-30.7051,0,-328.084,-30.7051,-328.084 1/1:102:0,98,1:0:0:98,1:3512,36:-315.944,-29.5009,0,-313.007,-26.5585,-312.706 1/1:108:0,108,0:0:0:108,0:3860,0:-347.596,-32.5112,0,-347.596,-32.5112,-347.596 1/2:53:0,24,29:0:0:24,29:860,1010:-152.623,-82.4797,-75.255,-70.4971,0,-61.7672 1/2:47:0,34,13:0:0:34,13:1216,468:-137.699,-38.5463,-28.3112,-99.5115,0,-95.5982 1/1:81:0,79,0:0:0:79,0:2832,0:-254.759,-23.7814,0,-254.759,-23.7814,-254.759 1/1:29:0,29,0:0:0:29,0:1044,0:-94.2748,-8.72987,0,-94.2748,-8.72987,-94.2748 chr08 3582165 . C T 28119.9 PASS AB=0.473684;ABP=8.61041;AC=28;AF=0.666667;AN=42;AO=1098;CIGAR=1X;DP=1737;DPB=1737;DPRA=0.56162;EPP=8.77716;EPPR=9.5996;GTI=0;LEN=1;MEANALT=1.05;MQM=49.9362;MQMR=56.8605;NS=21;NUMALT=1;ODDS=13.5963;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38744;QR=22507;RO=638;RPL=28;RPP=2150.28;RPPR=1277.79;RPR=1070;RUN=1;SAF=550;SAP=3.01821;SAR=548;SRF=310;SRP=4.11305;SRR=328;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:31,34:31:1066:34:1203:-87.5807,0,-76.6291 0/1:59:34,25:34:1194:25:869:-57.7852,0,-89.8561 0/1:47:28,19:28:1008:19:680:-46.2192,0,-76.8599 0/1:99:47,52:47:1666:52:1847:-134.831,0,-120.344 0/1:157:98,59:98:3476:59:2084:-136.841,0,-265.22 1/1:72:3,69:3:104:69:2440:-200.324,-11.9747,0 1/1:109:1,108:1:36:108:3804:-328.982,-29.4247,0 0/0:142:142,0:142:5030:0:0:0,-42.7463,-452.178 0/1:129:66,63:66:2336:63:2239:-159.89,0,-171.123 0/1:22:15,6:15:536:6:207:-11.2707,0,-41.3969 0/1:6:2,4:2:72:4:140:-10.6593,0,-4.63026 0/1:14:10,4:10:356:4:135:-8.00209,0,-28.1447 1/1:111:0,111:0:0:111:3943:-347.474,-33.4143,0 0/1:80:46,34:46:1632:34:1191:-81.6433,0,-123.017 1/1:115:0,115:0:0:115:4054:-360.301,-34.6185,0 1/1:41:1,40:1:27:40:1415:-122.62,-9.64257,0 1/1:54:0,54:0:0:54:1902:-168.98,-16.2556,0 0/1:143:74,69:74:2581:69:2417:-169.14,0,-189.166 0/1:110:38,72:38:1324:72:2483:-186.679,0,-86.294 1/1:87:1,86:1:27:86:3064:-267.96,-23.4905,0 1/1:75:1,74:1:36:74:2627:-227.536,-19.1897,0 chr08 3683444 . GTTTTTTTTGCTC GTTTTTTGCTC 15001.7 PASS AB=0.483908;ABP=6.92394;AC=13;AF=0.309524;AN=42;AO=927;CIGAR=1M2D10M;DP=3241;DPB=3096.08;DPRA=0.992481;EPP=2015.97;EPPR=4936.6;GTI=0;LEN=2;MEANALT=2.33333;MQM=60;MQMR=59.9974;NS=21;NUMALT=1;ODDS=17.2616;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=36;PRO=1;QA=32156;QR=78278;RO=2272;RPL=927;RPP=2015.97;RPPR=4936.6;RPR=0;RUN=1;SAF=927;SAP=2015.97;SAR=0;SRF=2272;SRP=4936.6;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:178:86,86:86:2974:86:2986:-216.839,0,-215.763 0/1:157:62,94:62:2154:94:3274:-247.639,0,-146.889 0/1:140:73,67:73:2509:67:2353:-169.884,0,-183.923 0/1:174:85,88:85:2937:88:3067:-223.766,0,-212.077 0/1:360:184,173:184:6337:173:6001:-432.413,0,-462.658 0/0:145:143,1:143:4945:1:36:0,-40.1099,-441.623 0/0:243:242,0:242:8341:0:0:0,-72.8493,-750.424 1/1:81:0,79:0:0:79:2719:-244.692,-23.7814,0 0/1:250:136,113:136:4675:113:3891:-275.106,0,-345.647 0/1:26:5,21:5:170:21:729:-58.1019,0,-7.80794 0/0:8:8,0:8:276:0:0:0,-2.40824,-25.1757 0/1:46:25,21:25:865:21:726:-51.8111,0,-64.319 0/0:171:166,0:166:5715:0:0:0,-49.971,-514.138 0/1:187:94,91:94:3224:91:3171:-229.646,0,-234.425 0/0:330:323,0:323:11122:0:0:0,-97.2327,-1000.61 0/0:126:124,0:124:4272:0:0:0,-37.3277,-384.346 0/0:139:136,1:136:4698:1:36:0,-38.0027,-419.402 0/1:109:49,60:49:1669:60:2048:-151.779,0,-117.683 0/1:113:84,28:84:2899:28:984:-54.837,0,-227.12 0/0:205:194,4:194:6685:4:135:0,-47.467,-589.269 0/0:53:53,0:53:1811:0:0:0,-15.9546,-163.27 chr08 3683457 . G T 43208.6 PASS AB=0.344444;ABP=532.657;AC=29;AF=0.690476;AN=42;AO=2261;CIGAR=1X;DP=4184;DPB=4184;DPRA=0;EPP=4912.71;EPPR=4167.89;GTI=2;LEN=1;MEANALT=1.19048;MQM=59.9867;MQMR=57.464;NS=21;NUMALT=1;ODDS=4.43116;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80121;QR=67022;RO=1918;RPL=2259;RPP=4895.35;RPPR=23.3393;RPR=2;RUN=1;SAF=2259;SAP=4895.35;SAR=2;SRF=1026;SRP=23.3393;SRR=892;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:231:144,87:144:5028:87:3090:-208.79,0,-381.788 0/1:220:157,63:157:5478:63:2230:-134.736,0,-426.522 0/1:203:132,71:132:4635:71:2510:-165.043,0,-356.034 0/1:261:177,83:177:6190:83:2944:-186.575,0,-478.181 0/1:553:376,176:376:13205:176:6222:-393.552,0,-1020.6 1/1:146:2,144:2:68:144:5095:-452.248,-37.5013,0 1/1:240:2,238:2:72:238:8465:-755.021,-65.4105,0 0/0:258:257,1:257:8948:1:36:0,-74.2112,-799.448 0/1:381:248,133:248:8687:133:4713:-309.638,0,-666.319 0/1:42:37,5:37:1298:5:180:-3.90881,0,-104.412 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:61:36,25:36:1266:25:892:-62.2369,0,-95.8258 1/1:170:0,170:0:0:170:6026:-542.448,-51.1751,0 0/1:236:141,95:141:4930:95:3350:-230.673,0,-372.512 1/1:327:0,327:0:0:327:11583:-1042.35,-98.4368,0 1/1:125:1,124:1:36:124:4371:-389.965,-34.0305,0 1/1:136:2,132:2:68:132:4690:-415.793,-34.2302,0 0/1:195:148,47:148:5076:47:1666:-91.5251,0,-397.315 0/1:137:53,83:53:1861:83:2937:-223.265,0,-126.285 1/1:202:5,197:5:176:197:7007:-614.643,-44.7553,0 1/1:53:0,53:0:0:53:1862:-167.856,-15.9546,0 chr08 3686242 . T C 28372.2 PASS AB=0.315565;ABP=557.296;AC=29;AF=0.690476;AN=42;AO=1521;CIGAR=1X;DP=3056;DPB=3056;DPRA=0.584025;EPP=3305.82;EPPR=3336.22;GTI=1;LEN=1;MEANALT=1;MQM=59.5371;MQMR=59.8378;NS=21;NUMALT=1;ODDS=6.4907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54266;QR=54906;RO=1535;RPL=1519;RPP=3288.47;RPPR=55.7042;RPR=2;RUN=1;SAF=1519;SAP=3288.47;SAR=2;SRF=671;SRP=55.7042;SRR=864;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:180:113,67:113:4051:67:2385:-160.515,0,-310.531 0/1:160:113,47:113:4052:47:1669:-102.278,0,-316.694 0/1:141:88,53:88:3148:53:1885:-127.481,0,-241.1 0/1:268:192,76:192:6846:76:2724:-164.558,0,-535.487 0/1:210:157,53:157:5599:53:1899:-107.959,0,-440.805 1/1:110:0,110:0:0:110:3944:-355.111,-33.1133,0 1/1:205:0,205:0:0:205:7348:-661.275,-61.7112,0 0/0:241:241,0:241:8611:0:0:0,-72.5482,-774.961 0/1:280:192,88:192:6885:88:3152:-199.608,0,-534.932 0/1:41:25,16:25:896:16:557:-38.1005,0,-68.6135 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:56:37,19:37:1316:19:669:-43.6716,0,-101.884 1/1:84:0,84:0:0:84:3024:-272.383,-25.2865,0 0/1:266:195,71:195:6978:71:2517:-146.346,0,-547.986 1/1:140:0,140:0:0:140:5008:-450.828,-42.1442,0 1/1:66:0,66:0:0:66:2359:-211.98,-19.868,0 1/1:94:2,92:2:72:92:3264:-287.127,-21.4601,0 0/1:164:106,58:106:3796:58:2067:-136.931,0,-292.455 0/1:110:66,44:66:2368:44:1562:-107.745,0,-180.262 1/1:170:8,162:8:288:162:5738:-490.164,-24.9077,0 1/1:65:0,65:0:0:65:2315:-208.372,-19.567,0 chr08 3686250 . T C 28115.9 PASS AB=0.312766;ABP=575.466;AC=29;AF=0.690476;AN=42;AO=1516;CIGAR=1X;DP=3055;DPB=3055;DPRA=0.594515;EPP=3294.96;EPPR=3342.73;GTI=1;LEN=1;MEANALT=1.05;MQM=59.5759;MQMR=59.844;NS=21;NUMALT=1;ODDS=6.80153;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53956;QR=54989;RO=1538;RPL=1514;RPP=3277.61;RPPR=59.4855;RPR=2;RUN=1;SAF=1514;SAP=3277.61;SAR=2;SRF=669;SRP=59.4855;SRR=869;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:178:114,64:114:4084:64:2267:-150.697,0,-314.098 0/1:161:113,48:113:4047:48:1711:-105.752,0,-315.943 0/1:138:85,53:85:3056:53:1895:-129.285,0,-233.726 0/1:270:194,75:194:6930:75:2679:-159.925,0,-542.381 0/1:211:157,54:157:5592:54:1939:-111.248,0,-439.884 1/1:107:0,107:0:0:107:3834:-345.221,-32.2102,0 1/1:206:0,206:0:0:206:7338:-660.384,-62.0122,0 0/0:237:237,0:237:8483:0:0:0,-71.3441,-763.442 0/1:280:191,89:191:6827:89:3161:-200.417,0,-529.718 0/1:41:25,16:25:896:16:576:-39.8199,0,-68.6135 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:56:37,19:37:1324:19:680:-44.6669,0,-102.604 1/1:85:0,85:0:0:85:3027:-272.655,-25.5876,0 0/1:270:201,69:201:7175:69:2408:-134.819,0,-564.507 1/1:140:0,140:0:0:140:5003:-450.233,-42.1442,0 1/1:68:0,68:0:0:68:2409:-216.848,-20.47,0 1/1:94:2,92:2:72:92:3269:-287.573,-21.4601,0 0/1:162:106,56:106:3788:56:1990:-130.606,0,-292.335 0/1:113:68,45:68:2427:45:1580:-108.456,0,-184.667 1/1:167:8,159:8:288:159:5660:-483.18,-24.0046,0 1/1:66:0,66:0:0:66:2350:-211.521,-19.868,0 chr08 3700554 . CCTTCCCATATCT CCTTAACTTAT,TCTTACCTTAT 36873.4 PASS AB=0.519669,0.473085;ABP=6.25627,9.08862;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1246,541;CIGAR=4M2X1M1X2M2D1M,1X3M1X2M1X2M2D1M;DP=1803;DPB=1525.69;DPRA=1.06296,1.24939;EPP=2708.66,1177.78;EPPR=0;GTI=0;LEN=11,11;MEANALT=2.4,2.61538;MQM=57.5369,44.6118;MQMR=0;NS=21;NUMALT=2;ODDS=4.93507;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=0,0;PQR=0;PRO=0.333333;QA=43929,18934;QR=0;RO=0;RPL=0,0;RPP=2708.66,1177.78;RPPR=0;RPR=1246,541;RUN=1,1;SAF=1246,541;SAP=2708.66,1177.78;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,36,29:0:0:36,29:1274,1008:-183.367,-79.6353,-68.7983,-103.746,0,-95.0162 1/2:39:0,19,20:0:0:19,20:667,710:-110.033,-55.9123,-50.1927,-54.4668,0,-48.4462 1/2:85:0,38,47:0:0:38,47:1353,1665:-244.313,-134.071,-122.631,-110.595,0,-96.4468 1/2:155:0,80,72:0:0:80,72:2806,2539:-431.474,-203.416,-179.334,-228.11,0,-206.436 1/2:107:0,49,58:0:0:49,58:1751,2022:-303.569,-162.088,-147.338,-141.83,0,-124.371 1/1:60:0,59,0:0:0:59,0:2063,0:-185.193,-17.7608,0,-185.193,-17.7608,-185.193 1/1:110:0,109,0:0:0:109,0:3824,0:-342.334,-32.8123,0,-342.334,-32.8123,-342.334 2/2:81:0,0,81:0:0:0,81:0,2808:-247.654,-247.654,-247.654,-24.3834,-24.3834,0 1/2:82:0,33,49:0:0:33,49:1165,1718:-233.642,-138.784,-128.85,-95.2089,0,-80.4584 1/2:5:0,1,4:0:0:1,4:36,143:-14.6804,-11.7985,-11.4975,-3.23509,0,-2.03097 1/1:5:0,5,0:0:0:5,0:164,0:-15.0729,-1.50515,0,-15.0729,-1.50515,-15.0729 1/2:33:0,19,13:0:0:19,13:680,448:-90.502,-35.1527,-29.4332,-55.3716,0,-51.4582 1/1:161:0,160,0:0:0:160,0:5670,0:-508.149,-48.1648,0,-508.149,-48.1648,-508.149 1/2:215:0,133,82:0:0:133,82:4671,2845:-607.923,-228.008,-187.971,-380.26,0,-355.576 1/1:140:0,139,0:0:0:139,0:4916,0:-442.141,-41.8432,0,-442.141,-41.8432,-442.141 1/1:44:0,43,0:0:0:43,0:1508,0:-135.574,-12.9443,0,-135.574,-12.9443,-135.574 1/1:27:0,26,0:0:0:26,0:923,0:-83.0284,-7.82678,0,-83.0284,-7.82678,-83.0284 1/2:94:0,41,53:0:0:41,53:1432,1862:-264.442,-148.122,-135.78,-116.667,0,-100.712 1/2:85:0,53,30:0:0:53,30:1858,1059:-235.439,-84.6435,-68.6889,-150.798,0,-141.767 1/1:161:0,156,3:0:0:156,3:5511,107:-494.494,-46.9607,0,-485.928,-38.3541,-485.025 1/1:48:0,47,0:0:0:47,0:1657,0:-148.554,-14.1484,0,-148.554,-14.1484,-148.554 chr08 3700575 . C T 24788.6 PASS AB=0.47103;ABP=16.5983;AC=13;AF=0.309524;AN=42;AO=1067;CIGAR=1X;DP=3171;DPB=3171;DPRA=1.96201;EPP=2276.75;EPPR=4550.09;GTI=0;LEN=1;MEANALT=1.13333;MQM=52.1593;MQMR=58.5347;NS=21;NUMALT=1;ODDS=1.79511;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38118;QR=74934;RO=2102;RPL=541;RPP=3.4682;RPPR=152.183;RPR=526;RUN=1;SAF=546;SAP=4.28225;SAR=521;SRF=1243;SRP=155.34;SRR=859;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:83,75:83:2972:75:2669:-189.986,0,-220.07 0/1:39:19,20:19:672:20:720:-50.8306,0,-48.8948 0/1:171:83,88:83:2946:88:3151:-230.246,0,-213.86 0/1:206:113,93:113:4027:93:3313:-232.001,0,-300.239 0/1:298:155,142:155:5535:142:5078:-363.694,0,-408.036 0/0:60:60,0:60:2156:0:0:0,-18.0618,-193.798 0/0:107:107,0:107:3832:0:0:0,-32.2102,-343.301 1/1:182:0,182:0:0:182:6507:-579.439,-54.7875,0 0/1:241:122,119:122:4330:119:4235:-307.352,0,-317.314 0/1:12:3,9:3:108:9:324:-25.667,0,-6.4048 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.1698 0/1:60:34,26:34:1220:26:936:-64.5818,0,-91.9159 0/0:251:251,0:251:8950:0:0:0,-75.5585,-803.227 0/1:359:188,171:188:6711:171:6106:-436.888,0,-495.675 0/0:305:302,2:302:10759:2:72:0,-85.0336,-961.119 0/0:80:79,1:79:2806:1:36:0,-20.4841,-249.069 0/0:65:65,0:65:2315:0:0:0,-19.5669,-208.608 0/1:141:67,74:67:2383:74:2644:-191.663,0,-172.06 0/1:179:118,61:118:4206:61:2183:-141.144,0,-324.143 0/0:203:199,4:199:7098:4:144:0,-47.9679,-622.795 0/0:49:49,0:49:1732:0:0:0,-14.7505,-155.473 chr08 3750837 . TTTC CTTC,CTTA 29506.7 PASS AB=0.523227,0.469438;ABP=6.84356,9.64683;AC=29,13;AF=0.690476,0.309524;AN=42;AO=961,446;CIGAR=1X3M,1X2M1X;DP=1414;DPB=1414.75;DPRA=1.12833,1.34885;EPP=2089.8,962.821;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.9,2.38462;MQM=59.9969,59.7265;MQMR=60;NS=21;NUMALT=2;ODDS=11.5653;PAIRED=0,0;PAIREDR=0;PAO=0,3;PQA=0,95;PQR=0;PRO=0;QA=34295,15559;QR=30;RO=1;RPL=0,1;RPP=2089.8,962.821;RPPR=5.18177;RPR=961,445;RUN=1,1;SAF=961,446;SAP=2089.8,971.487;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:105:0,55,50:0:0:55,50:1963,1751:-302.535,-142.5,-125.944,-160.067,0,-145.016 1/2:38:0,19,18:0:0:19,18:684,642:-108.144,-52.3315,-46.612,-55.8109,0,-50.3924 1/2:47:0,27,19:0:0:27,19:959,676:-133.231,-55.0885,-46.9607,-78.1379,0,-72.4184 1/2:43:0,24,19:0:0:24,19:846,651:-122.076,-53.1894,-45.9647,-69.2331,0,-63.5135 1/2:176:0,88,86:0:0:88,86:3133,2981:-497.671,-242.316,-215.825,-255.385,0,-229.497 1/1:47:0,47,0:0:0:47,0:1683,0:-151.756,-14.1484,0,-151.756,-14.1484,-151.756 1/1:82:0,82,0:0:0:82,0:2905,0:-261.686,-24.6845,0,-261.686,-24.6845,-261.686 2/2:60:0,0,60:0:0:0,60:0,2061:-185.729,-185.729,-185.729,-18.0618,-18.0618,0 1/2:115:0,49,66:0:0:49,66:1747,2330:-332.185,-189.776,-175.026,-142.447,0,-122.579 1/2:16:0,10,6:0:0:10,6:356,206:-46.0921,-17.0691,-14.0588,-29.3709,0,-27.5648 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:15:0,6,9:0:0:6,9:216,316:-43.6973,-26.0693,-24.2631,-17.9843,0,-15.2751 1/1:77:0,77,0:0:0:77,0:2751,0:-247.832,-23.1793,0,-247.832,-23.1793,-247.832 1/2:72:0,34,38:0:0:34,38:1220,1296:-205.015,-105.494,-95.2594,-99.8714,0,-88.4322 1/1:93:0,91,2:0:0:91,2:3258,63:-293.134,-27.3937,0,-288.227,-22.1798,-287.625 1/1:60:0,60,0:0:0:60,0:2137,0:-192.598,-18.0618,0,-192.598,-18.0618,-192.598 1/1:60:0,60,0:0:0:60,0:2134,0:-192.329,-18.0618,0,-192.329,-18.0618,-192.329 1/2:105:0,59,45:0:0:59,45:2111,1584:-300.989,-128.847,-111.086,-172.137,0,-158.591 1/2:86:0,57,28:0:0:57,28:2036,1002:-247.703,-81.7068,-64.5481,-165.994,0,-157.565 1/1:59:0,59,0:0:0:59,0:2108,0:-189.989,-17.7608,0,-189.989,-17.7608,-189.989 1/1:47:1,46,0:1:30:46,0:1652,0:-145.969,-11.1488,0,-146.27,-13.8474,-148.667 chr08 3787403 . AAATG CAATA,CAATG 67386.7 PASS AB=0.50317,0.491066;ABP=3.16174,4.21306;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2268,971;CIGAR=1X3M1X,1X4M;DP=3252;DPB=3252;DPRA=1.36391,1.17864;EPP=4927.91,2102.83;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.3,2.53333;MQM=51.8924,59.5705;MQMR=60;NS=21;NUMALT=2;ODDS=17.978;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=79280,34576;QR=35;RO=1;RPL=2268,971;RPP=4927.91,2111.51;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,1;SAP=4927.91,2102.83;SAR=2268,970;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:180:0,75,104:0:0:75,104:2590,3700:-511.484,-301.568,-278.99,-210.019,0,-178.712 1/2:143:0,68,74:0:0:68,74:2395,2641:-408.468,-215.263,-194.793,-193.227,0,-170.951 1/2:102:0,51,51:0:0:51,51:1779,1824:-293.513,-149.081,-133.728,-144.785,0,-129.432 1/2:207:0,123,84:0:0:123,84:4263,2984:-588.898,-243.5,-206.473,-345.75,0,-320.463 1/2:336:1,181,153:1:35:181,153:6357,5438:-955.943,-440.298,-388.659,-513.156,0,-469.946 1/1:261:0,261,0:0:0:261,0:9172,0:-817.638,-78.5688,0,-817.638,-78.5688,-817.638 1/1:259:0,258,1:0:0:258,1:9048,36:-807.16,-77.6657,0,-804.223,-74.3685,-803.922 2/2:115:0,0,115:0:0:0,115:0,4116:-370.547,-370.547,-370.547,-34.6185,-34.6185,0 1/2:318:0,115,200:0:0:115,200:4046,7128:-908.883,-580.814,-546.195,-328.154,0,-267.948 1/2:12:0,5,7:0:0:5,7:155,252:-33.3169,-20.9202,-19.415,-12.7271,0,-10.6199 1/1:10:0,10,0:0:0:10,0:351,0:-31.7731,-3.0103,0,-31.7731,-3.0103,-31.7731 1/2:36:0,16,20:0:0:16,20:565,711:-104.183,-58.295,-53.4786,-46.2411,0,-40.2205 1/1:190:0,188,2:0:0:188,2:6586,72:-590.334,-56.5936,0,-584.459,-50.359,-583.857 1/2:243:0,145,96:0:0:145,96:5085,3382:-687.747,-275.39,-231.741,-412.462,0,-383.563 1/1:267:0,266,0:0:0:266,0:9264,0:-830.513,-80.074,0,-830.513,-80.074,-830.513 1/1:109:0,108,0:0:0:108,0:3759,0:-337.219,-32.5112,0,-337.219,-32.5112,-337.219 1/1:128:0,128,0:0:0:128,0:4512,0:-405.565,-38.5318,0,-405.565,-38.5318,-405.565 1/2:81:0,38,43:0:0:38,43:1322,1544:-233.372,-126.212,-114.773,-107.512,0,-94.5679 1/2:77:0,56,20:0:0:56,20:1955,712:-216.593,-58.0246,-41.1669,-158.563,0,-152.543 1/1:129:0,128,1:0:0:128,1:4406,36:-394.818,-38.5318,0,-391.88,-35.2346,-391.579 1/1:49:0,48,0:0:0:48,0:1670,0:-148.841,-14.4494,0,-148.841,-14.4494,-148.841 chr08 3803687 . G A 87288.2 PASS AB=0.485695;ABP=8.41506;AC=29;AF=0.690476;AN=42;AO=3342;CIGAR=1X;DP=5150;DPB=5150;DPRA=1.07939;EPP=6882.92;EPPR=141.111;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9862;MQMR=60;NS=21;NUMALT=1;ODDS=8.17143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=118766;QR=64112;RO=1807;RPL=1358;RPP=257.633;RPPR=3883.55;RPR=1984;RUN=1;SAF=1314;SAP=334.251;SAR=2028;SRF=729;SRP=149.379;SRR=1078;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:373:191,182:191:6767:182:6453:-468.576,0,-496.825 0/1:129:65,64:65:2309:64:2288:-167.349,0,-169.237 0/1:246:116,130:116:4137:130:4639:-343.62,0,-298.46 0/1:364:183,181:183:6457:181:6339:-461.037,0,-471.649 0/1:600:332,268:332:11740:268:9499:-674.251,0,-875.864 1/1:114:1,113:1:36:113:4031:-359.376,-30.7191,0 1/1:194:2,192:2:72:192:6886:-612.969,-51.5631,0 0/0:228:228,0:228:8160:0:0:0,-68.6348,-734.415 0/1:476:271,204:271:9576:204:7265:-510.554,0,-718.457 0/1:50:39,11:39:1396:11:392:-20.5686,0,-110.888 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:111:47,64:47:1692:64:2292:-173.127,0,-119.153 1/1:243:0,243:0:0:243:8610:-774.905,-73.1503,0 0/1:327:151,176:151:5334:176:6242:-463.434,0,-381.761 1/1:547:4,543:4:135:543:19326:-1726.41,-152.181,0 1/1:206:0,206:0:0:206:7288:-655.981,-62.0122,0 1/1:220:2,218:2:72:218:7725:-688.455,-59.3899,0 0/1:205:119,86:119:4240:86:3069:-214.726,0,-320.068 0/1:160:49,111:49:1737:111:3939:-306.539,0,-108.448 1/1:296:7,289:7:252:289:10295:-903.436,-66.0759,0 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 chr08 3961019 . G A 14106.8 PASS AB=0.47018;ABP=14.1478;AC=13;AF=0.309524;AN=42;AO=817;CIGAR=1X;DP=2812;DPB=2812;DPRA=1.17188;EPP=1777.1;EPPR=4326.41;GTI=0;LEN=1;MEANALT=1.0625;MQM=54.3158;MQMR=59.9483;NS=21;NUMALT=1;ODDS=7.33818;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29179;QR=71204;RO=1991;RPL=0;RPP=1777.1;RPPR=4326.41;RPR=817;RUN=1;SAF=817;SAP=1777.1;SAR=0;SRF=1991;SRP=4326.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:226:117,109:117:4208:109:3870:-279.675,0,-310.866 0/1:114:43,71:43:1548:71:2522:-192.058,0,-105.296 0/1:123:65,58:65:2325:58:2088:-149.709,0,-172.479 0/1:223:122,101:122:4368:101:3604:-256.53,0,-326.162 0/1:285:171,114:171:6102:114:4088:-281.577,0,-463.486 0/0:136:135,1:135:4833:1:36:0,-37.3508,-431.533 0/0:160:158,2:158:5573:2:72:0,-41.3367,-494.838 1/1:135:0,134:0:0:134:4800:-429.579,-40.338,0 0/1:215:111,104:111:3973:104:3725:-269.838,0,-293.036 0/1:9:5,4:5:180:4:129:-9.20408,0,-13.8428 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5297 0/1:38:20,18:20:705:18:624:-44.9199,0,-52.3336 0/0:292:291,1:291:10406:1:36:0,-84.3051,-932.847 0/1:116:44,72:44:1580:72:2577:-195.203,0,-107.486 0/0:195:192,0:192:6900:0:0:0,-57.7978,-620.704 0/0:113:113,0:113:4033:0:0:0,-34.0164,-363.157 0/0:153:153,0:153:5477:0:0:0,-46.0576,-493.052 0/1:42:25,17:25:900:17:612:-42.566,0,-68.6778 0/1:51:41,10:41:1453:10:360:-17.3659,0,-115.711 0/0:116:116,0:116:4168:0:0:0,-34.9195,-375.301 0/0:55:54,1:54:1936:1:36:0,-12.9584,-170.918 chr08 3961043 . 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T C 13307.3 PASS AB=0.583633;ABP=70.5681;AC=13;AF=0.309524;AN=42;AO=736;CIGAR=1X;DP=1800;DPB=1800;DPRA=1.32556;EPP=1601.21;EPPR=2311.29;GTI=2;LEN=1;MEANALT=1.07143;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.93846;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26283;QR=38026;RO=1063;RPL=0;RPP=1601.21;RPPR=2311.29;RPR=736;RUN=1;SAF=736;SAP=1601.21;SAR=0;SRF=1063;SRP=2311.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:50,61:50:1788:61:2161:-161.341,0,-127.788 0/1:67:24,43:24:864:43:1532:-118.004,0,-57.9136 0/1:115:54,61:54:1936:61:2183:-162.117,0,-139.898 0/1:111:48,63:48:1720:63:2239:-168.359,0,-121.671 0/1:185:54,131:54:1928:131:4704:-367.828,0,-118.106 0/0:88:88,0:88:3156:0:0:0,-26.4906,-284.265 0/0:106:106,0:106:3778:0:0:0,-31.9092,-340.219 1/1:85:0,85:0:0:85:3048:-274.549,-25.5876,0 0/1:198:73,124:73:2611:124:4443:-340.377,0,-175.575 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:18:4,14:4:144:14:504:-40.2796,0,-7.89508 0/0:140:140,0:140:4996:0:0:0,-42.1442,-449.79 0/1:150:57,93:57:2039:93:3281:-250.358,0,-138.627 0/0:51:51,0:51:1823:0:0:0,-15.3525,-164.35 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.232 0/0:55:54,1:54:1940:1:36:0,-12.9584,-171.278 0/1:64:34,30:34:1216:30:1080:-78.2473,0,-90.4806 0/1:81:57,24:57:2023:24:856:-52.9777,0,-157.959 0/0:55:54,1:54:1936:1:36:0,-12.9584,-170.918 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 chr08 3971209 . 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C T 13057.4 PASS AB=0.503015;ABP=3.10195;AC=13;AF=0.309524;AN=42;AO=737;CIGAR=1X;DP=2255;DPB=2255;DPRA=1.63958;EPP=1603.39;EPPR=3243.05;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.9077;MQMR=59.998;NS=21;NUMALT=1;ODDS=9.99433;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26259;QR=54047;RO=1516;RPL=0;RPP=1603.39;RPPR=3243.05;RPR=737;RUN=1;SAF=0;SAP=1603.39;SAR=737;SRF=0;SRP=3294.96;SRR=1516;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:94,62:94:3380:62:2220:-153.104,0,-257.454 0/1:99:50,49:50:1768:49:1736:-126.72,0,-129.599 0/1:88:42,46:42:1476:46:1633:-120.766,0,-106.641 0/1:131:51,80:51:1832:80:2844:-215.399,0,-125.726 0/1:164:76,88:76:2694:88:3118:-231.476,0,-193.333 0/0:142:137,5:137:4885:5:176:0,-26.5612,-423.618 0/0:159:158,1:158:5642:1:36:0,-44.2655,-504.303 1/1:144:0,144:0:0:144:5137:-462.454,-43.3483,0 0/1:148:80,67:80:2860:67:2399:-171.555,0,-213.027 0/1:18:12,6:12:432:6:216:-14.372,0,-33.8027 0/0:11:11,0:11:381:0:0:0,-3.31133,-34.6206 0/1:35:17,18:17:612:18:648:-48.1158,0,-44.8774 0/0:107:107,0:107:3832:0:0:0,-32.2102,-345.077 0/1:101:49,52:49:1747:52:1849:-136.284,0,-127.109 0/0:202:201,1:201:7159:1:36:0,-57.2098,-640.77 0/0:70:69,0:69:2458:0:0:0,-20.7711,-221.114 0/0:95:95,0:95:3366:0:0:0,-28.5978,-303.155 0/1:153:67,86:67:2400:86:3072:-230.652,0,-170.199 0/1:68:38,30:38:1347:30:1067:-75.863,0,-101.059 0/0:100:99,1:99:3529:1:36:0,-26.5047,-314.22 0/0:64:63,1:63:2247:1:36:0,-15.6676,-198.894 chr08 3984715 . 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T A 3809.19 PASS AB=0.40396;ABP=43.4685;AC=13;AF=0.309524;AN=42;AO=242;CIGAR=1X;DP=1009;DPB=1009;DPRA=1.02879;EPP=528.507;EPPR=1668.53;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.9909;NS=21;NUMALT=1;ODDS=2.7506;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8601;QR=27470;RO=767;RPL=0;RPP=528.507;RPPR=1668.53;RPR=242;RUN=1;SAF=242;SAP=528.507;SAR=0;SRF=767;SRP=1668.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:41,38:41:1472:38:1349:-97.9269,0,-108.995 0/1:39:25,14:25:880:14:500:-33.596,0,-67.7775 0/1:43:22,21:22:792:21:756:-55.4229,0,-58.6614 0/1:53:33,20:33:1169:20:716:-48.8131,0,-89.5607 0/1:78:45,33:45:1605:33:1165:-81.6747,0,-121.258 0/0:81:80,1:80:2871:1:36:0,-20.7852,-255.028 0/0:57:56,1:56:2004:1:36:0,-13.5604,-177.035 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 0/1:93:59,34:59:2120:34:1186:-79.045,0,-163.073 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:14:11,3:11:396:3:108:-5.86075,0,-31.7683 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.755 0/1:62:32,30:32:1144:30:1061:-77.1355,0,-84.6057 0/0:110:110,0:110:3944:0:0:0,-33.1133,-355.145 0/0:53:53,0:53:1893:0:0:0,-15.9546,-170.646 0/0:49:49,0:49:1752:0:0:0,-14.7505,-157.964 0/1:21:13,8:13:468:8:288:-19.9458,0,-36.138 0/1:16:14,2:14:504:2:72:-2.02024,0,-40.8816 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 chr08 4002858 . A C 11542.5 PASS AB=0.435226;ABP=53.0838;AC=13;AF=0.309524;AN=42;AO=747;CIGAR=1X;DP=2785;DPB=2785;DPRA=0.894591;EPP=1625.1;EPPR=4424.13;GTI=0;LEN=1;MEANALT=1.125;MQM=39.5877;MQMR=59.0457;NS=21;NUMALT=1;ODDS=8.44983;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26744;QR=71367;RO=2036;RPL=0;RPP=1625.1;RPPR=4424.13;RPR=747;RUN=1;SAF=747;SAP=1625.1;SAR=0;SRF=2036;SRP=4424.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:112,86:112:3887:86:3080:-207.68,0,-289.784 0/1:99:49,50:49:1666:50:1792:-117.607,0,-120.174 0/1:115:57,58:57:2025:58:2080:-145.76,0,-146.94 0/1:158:90,68:90:3202:68:2444:-161.372,0,-240.05 0/1:236:124,112:124:4350:112:4008:-271.32,0,-319.577 0/0:180:180,0:180:6278:0:0:0,-54.1854,-563.983 0/0:214:213,1:213:7507:1:36:0,-61.0328,-669.954 1/1:143:0,143:0:0:143:5105:-428.782,-43.0473,0 0/1:163:94,69:94:3281:69:2472:-168.16,0,-246.407 0/1:14:8,6:8:273:6:216:-14.4174,0,-20.248 0/0:10:10,0:10:345:0:0:0,-3.0103,-31.3808 0/1:15:4,11:4:136:11:396:-28.7684,0,-8.05279 0/0:200:200,0:200:7006:0:0:0,-60.206,-630.51 0/1:136:81,55:81:2848:55:1955:-128.809,0,-214.917 0/0:205:205,0:205:7245:0:0:0,-61.7111,-652.049 0/0:113:112,1:112:3947:1:36:0,-30.4803,-351.503 0/0:126:126,0:126:4374:0:0:0,-37.9298,-393.765 0/1:143:83,60:83:2944:60:2156:-136.105,0,-220.864 0/1:95:72,23:72:2439:23:824:-43.0351,0,-191.142 0/0:154:153,1:153:5370:1:36:0,-42.971,-479.261 0/0:66:63,3:63:2244:3:108:0,-10.1945,-192.521 chr08 4002878 . TTATAGAGTCCC CTACAGAGTCCA,CTACAGAATCCA 56761.2 PASS AB=0.550439,0.436404;ABP=33.2395,51.0684;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1982,746;CIGAR=1X2M1X7M1X,1X2M1X3M1X3M1X;DP=2764;DPB=2764.67;DPRA=0.896575,1.02291;EPP=4272.2,1596.98;EPPR=0;GTI=0;LEN=12,12;MEANALT=3.3,3.26667;MQM=59.1862,39.6702;MQMR=0;NS=21;NUMALT=2;ODDS=10.6475;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=35,35;PQR=0;PRO=0;QA=70064,26065;QR=0;RO=0;RPL=1978,743;RPP=4272.2,1596.98;RPPR=0;RPR=4,3;RUN=1,1;SAF=1982,746;SAP=4306.87,1622.93;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:200:0,109,88:0:0:109,88:3886,3092:-559.707,-243.319,-210.507,-316.411,0,-289.921 1/2:98:0,48,49:0:0:48,49:1673,1696:-263.457,-127.465,-113.015,-136.114,0,-121.363 1/2:116:0,57,57:0:0:57,57:2000,2004:-319.838,-157.202,-140.043,-162.691,0,-145.532 1/2:156:0,87,69:0:0:87,69:3096,2401:-437.858,-185.89,-159.701,-252.31,0,-231.539 1/2:232:0,119,109:0:0:119,109:4234,3809:-640.466,-295.768,-259.945,-344.779,0,-311.967 1/1:174:0,171,0:0:0:171,0:5997,0:-539.149,-51.4761,0,-539.149,-51.4761,-539.149 1/1:213:0,212,1:0:0:212,1:7492,34:-672.87,-63.8184,0,-670.242,-60.8649,-669.941 2/2:146:0,0,146:0:0:0,146:0,5073:-429.641,-429.641,-429.641,-43.9504,-43.9504,0 1/2:167:0,97,70:0:0:97,70:3422,2464:-474.692,-196.075,-166.875,-278.965,0,-257.893 1/2:13:0,7,6:0:0:7,6:241,213:-35.9546,-16.6496,-14.5424,-19.6425,0,-17.8363 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:14:0,3,11:0:0:3,11:104,387:-37.9738,-29.5167,-28.6136,-8.79971,0,-5.48838 1/1:197:0,193,0:0:0:193,0:6819,0:-613.407,-58.0988,0,-613.407,-58.0988,-613.407 1/2:135:0,74,56:0:0:74,56:2615,1938:-364.45,-151.785,-129.509,-212.673,0,-195.816 1/1:208:0,202,0:0:0:202,0:7181,0:-645.956,-60.8081,0,-645.956,-60.8081,-645.956 1/1:107:0,105,1:0:0:105,1:3724,35:-334.816,-31.6082,0,-332.013,-28.8431,-331.712 1/1:125:0,123,0:0:0:123,0:4375,0:-393.613,-37.0267,0,-393.613,-37.0267,-393.613 1/2:145:0,83,59:0:0:83,59:2931,2078:-394.236,-156.225,-131.239,-238.109,0,-220.348 1/2:92:0,69,23:0:0:69,23:2413,805:-259.642,-63.3371,-42.566,-196.645,0,-189.721 1/1:153:0,151,1:0:0:151,1:5312,36:-477.472,-45.4555,0,-474.724,-42.6623,-474.423 1/1:64:0,63,0:0:0:63,0:2225,0:-200.001,-18.9649,0,-200.001,-18.9649,-200.001 chr08 4010459 . G A 11944.2 PASS AB=0.536737;ABP=12.4236;AC=13;AF=0.309524;AN=42;AO=508;CIGAR=1X;DP=1374;DPB=1374;DPRA=1.40833;EPP=3.07869;EPPR=3.65221;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9931;NS=21;NUMALT=1;ODDS=1.76407;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18077;QR=30887;RO=866;RPL=1;RPP=1097.45;RPPR=1874.83;RPR=507;RUN=1;SAF=253;SAP=3.0274;SAR=255;SRF=426;SRP=3.50176;SRR=440;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:34,57:34:1220:57:2017:-154.408,0,-82.7131 0/1:41:10,31:10:360:31:1096:-86.6077,0,-20.4021 0/1:38:13,25:13:468:25:862:-66.4516,0,-31.0205 0/1:71:33,38:33:1184:38:1333:-98.8947,0,-85.4952 0/1:109:50,59:50:1796:59:2109:-157.266,0,-129.11 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.701 0/0:70:70,0:70:2454:0:0:0,-21.0721,-221.11 1/1:73:0,73:0:0:73:2616:-235.688,-21.9752,0 0/1:112:50,62:50:1796:62:2220:-166.349,0,-128.207 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:24:9,15:9:315:15:528:-40.6266,0,-21.4625 0/0:96:95,1:95:3391:1:36:0,-25.3006,-301.807 0/1:52:27,25:27:959:25:896:-65.3068,0,-70.9718 0/0:71:71,0:71:2525:0:0:0,-21.3731,-227.5 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/1:146:67,79:67:2391:79:2824:-210.449,0,-171.496 0/1:111:74,37:74:2624:37:1324:-86.0478,0,-202.992 0/0:42:39,3:39:1396:3:108:0,-2.56809,-115.862 0/0:117:117,0:117:4172:0:0:0,-35.2205,-375.661 chr08 4010480 . A G 22197.2 PASS AB=0.472681;ABP=8.11202;AC=29;AF=0.690476;AN=42;AO=856;CIGAR=1X;DP=1347;DPB=1347;DPRA=0.872603;EPP=3.05089;EPPR=3.54543;GTI=0;LEN=1;MEANALT=1;MQM=59.993;MQMR=60;NS=21;NUMALT=1;ODDS=0.461085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30497;QR=17500;RO=491;RPL=855;RPP=1853.11;RPPR=1069.2;RPR=1;RUN=1;SAF=425;SAP=3.10162;SAR=431;SRF=240;SRP=3.54543;SRR=251;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:55,35:55:1964:35:1256:-86.2526,0,-149.943 0/1:41:31,10:31:1108:10:360:-20.4021,0,-87.6888 0/1:37:24,13:24:855:13:464:-30.9594,0,-66.1321 0/1:67:35,32:35:1252:32:1143:-83.0105,0,-92.8161 0/1:110:59,51:59:2097:51:1807:-129.798,0,-155.885 1/1:38:0,38:0:0:38:1342:-121.079,-11.4391,0 1/1:69:0,69:0:0:69:2456:-221.295,-20.7711,0 0/0:73:73,0:73:2597:0:0:0,-21.9752,-233.977 0/1:108:59,49:59:2097:49:1735:-123.923,0,-156.487 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:23:14,9:14:504:9:324:-22.5822,0,-38.7744 1/1:92:1,91:1:36:91:3242:-288.404,-24.0965,0 0/1:52:25,27:25:881:27:964:-71.4233,0,-63.9523 1/1:70:0,70:0:0:70:2482:-223.634,-21.0721,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 0/1:146:77,69:77:2745:69:2468:-178.424,0,-203.341 0/1:106:34,72:34:1220:72:2562:-198.92,0,-78.1976 1/1:41:2,39:2:72:39:1382:-117.839,-5.50551,0 1/1:116:0,116:0:0:116:4146:-373.323,-34.9195,0 chr08 4016767 . ACCC GCCG,ACCG 42043.7 PASS AB=0.53125,0.467014;ABP=12.7819,13.8978;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1412,606;CIGAR=1X2M1X,3M1X;DP=2025;DPB=2025;DPRA=1.58306,0.968243;EPP=3069.13,1310.25;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.05,2.06667;MQM=59.9674,60;MQMR=0;NS=21;NUMALT=2;ODDS=12.5686;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49527,21616;QR=0;RO=0;RPL=1412,605;RPP=3069.13,1310.25;RPPR=0;RPR=0,1;RUN=1,1;SAF=0,0;SAP=3069.13,1318.92;SAR=1412,606;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:110:0,58,52:0:0:58,52:2055,1863:-319.7,-152.295,-134.835,-167.761,0,-152.108 1/2:70:0,44,26:0:0:44,26:1543,936:-202.29,-76.7327,-63.4874,-125.914,0,-118.087 1/2:108:0,65,43:0:0:65,43:2294,1540:-312.748,-125.949,-106.382,-187.155,0,-174.211 1/2:146:0,74,72:0:0:74,72:2593,2555:-419.513,-208.524,-186.248,-211.341,0,-189.667 1/2:209:0,101,108:0:0:101,108:3549,3857:-603.678,-314.815,-284.411,-289.218,0,-256.706 1/1:92:0,89,3:0:0:89,3:3150,108:-283.366,-26.7917,0,-274.553,-17.6196,-273.65 1/1:147:0,145,0:0:0:145,0:5091,0:-457.976,-43.6494,0,-457.976,-43.6494,-457.976 2/2:62:0,0,62:0:0:0,62:0,2215:-199.614,-199.614,-199.614,-18.6639,-18.6639,0 1/2:152:0,73,78:0:0:73,78:2574,2780:-436.241,-226.661,-204.685,-209.634,0,-186.153 1/2:24:0,18,6:0:0:18,6:628,212:-68.6918,-17.6186,-12.2001,-51.4253,0,-49.6191 1/1:14:0,14,0:0:0:14,0:492,0:-44.6119,-4.21442,0,-44.6119,-4.21442,-44.6119 1/2:24:0,11,13:0:0:11,13:395,464:-70.407,-38.1841,-34.8728,-32.5808,0,-28.6674 1/1:104:0,104,0:0:0:104,0:3634,0:-327.246,-31.3071,0,-327.246,-31.3071,-327.246 1/2:81:0,45,36:0:0:45,36:1576,1271:-232.087,-103.855,-90.3087,-128.583,0,-117.746 1/1:122:0,122,0:0:0:122,0:4265,0:-384.036,-36.7257,0,-384.036,-36.7257,-384.036 1/1:121:0,119,0:0:0:119,0:4183,0:-376.38,-35.8226,0,-376.38,-35.8226,-376.38 1/1:33:0,32,1:0:0:32,1:1137,36:-102.28,-9.63296,0,-99.3421,-6.33572,-99.041 1/2:130:0,68,62:0:0:68,62:2358,2211:-372.247,-180.59,-160.12,-192.008,0,-173.344 1/2:98:0,55,42:0:0:55,42:1893,1496:-275.755,-122.019,-105.463,-153.814,0,-141.171 1/1:94:0,92,2:0:0:92,2:3222,72:-289.844,-27.6948,0,-283.969,-21.4601,-283.367 1/1:84:0,83,0:0:0:83,0:2895,0:-260.421,-24.9855,0,-260.421,-24.9855,-260.421 chr08 4095336 . T C 38063.1 PASS AB=0.638677;ABP=199.951;AC=29;AF=0.690476;AN=42;AO=1599;CIGAR=1X;DP=2100;DPB=2100;DPRA=0;EPP=1758.62;EPPR=595.535;GTI=1;LEN=1;MEANALT=1.09524;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.08194;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56471;QR=17839;RO=499;RPL=1368;RPP=1758.62;RPPR=595.535;RPR=231;RUN=1;SAF=1599;SAP=3475.19;SAR=0;SRF=499;SRP=1086.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:209:50,159:50:1792:159:5619:-442.923,0,-98.6472 0/1:158:47,110:47:1684:110:3855:-299.529,0,-104.226 0/1:107:30,77:30:1072:77:2748:-215.353,0,-64.5822 0/1:79:30,49:30:1063:49:1730:-132.203,0,-72.1995 0/1:152:65,87:65:2315:87:3098:-233.29,0,-162.854 1/1:85:0,85:0:0:85:3026:-272.57,-25.5876,0 1/1:171:1,170:1:36:170:5974:-534.175,-47.8779,0 0/0:69:68,1:68:2436:1:36:0,-17.1728,-215.897 0/1:143:62,81:62:2215:81:2857:-214.321,0,-156.567 0/1:24:18,6:18:644:6:216:-12.5658,0,-51.0659 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:44:18,26:18:644:26:923:-70.1414,0,-45.0453 1/1:128:1,127:1:36:127:4495:-401.124,-34.9336,0 0/1:45:7,38:7:252:38:1329:-106.36,0,-9.48261 1/1:176:0,176:0:0:176:6238:-561.52,-52.9813,0 1/1:75:0,75:0:0:75:2658:-239.466,-22.5773,0 1/1:91:1,89:1:36:89:3147:-279.9,-23.8111,0 0/1:138:67,71:67:2390:71:2462:-180.287,0,-173.814 0/1:80:31,49:31:1116:49:1690:-128.297,0,-76.6693 1/1:71:3,68:3:108:68:2416:-207.622,-11.298,0 1/1:46:0,46:0:0:46:1630:-146.987,-13.8474,0 chr08 4095430 . TGA TA 4621.3 PASS AB=0.341542;ABP=206.71;AC=13;AF=0.309524;AN=42;AO=352;CIGAR=1M1D1M;DP=1822;DPB=1704.67;DPRA=0.988665;EPP=767.369;EPPR=3192.9;GTI=1;LEN=1;MEANALT=1.07692;MQM=48.1392;MQMR=54.3485;NS=21;NUMALT=1;ODDS=0.103209;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12429;QR=51996;RO=1469;RPL=352;RPP=767.369;RPPR=3192.9;RPR=0;RUN=1;SAF=0;SAP=767.369;SAR=352;SRF=0;SRP=3192.9;SRR=1469;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:78,25:78:2769:25:874:-47.2375,0,-217.986 0/1:46:34,12:34:1220:12:428:-24.4016,0,-95.3639 0/1:80:46,34:46:1628:34:1185:-82.015,0,-122.46 0/1:82:43,39:43:1523:39:1384:-99.3058,0,-112.24 0/1:256:184,72:184:6462:72:2538:-150.035,0,-503.43 0/0:102:102,0:102:3642:0:0:0,-30.7051,-326.712 0/0:143:143,0:143:5031:0:0:0,-43.0473,-451.421 1/1:31:0,31:0:0:31:1108:-99.1672,-9.33193,0 0/1:135:83,51:83:2953:51:1808:-121.26,0,-225.116 0/1:15:7,8:7:250:8:280:-20.8115,0,-18.3032 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2801 0/1:16:10,6:10:350:6:201:-13.4554,0,-26.9789 0/0:146:146,0:146:5145:0:0:0,-43.9504,-461.583 0/1:102:64,38:64:2255:38:1331:-88.2219,0,-172.006 0/0:147:147,0:147:5195:0:0:0,-44.2514,-466.966 0/0:28:28,0:28:991:0:0:0,-8.42884,-87.7074 0/0:68:68,0:68:2439:0:0:0,-20.47,-219.497 0/1:53:32,21:32:1136:21:752:-51.3928,0,-86.1504 0/1:46:33,13:33:1163:13:468:-28.0283,0,-91.0567 0/0:158:156,2:156:5550:2:72:0,-40.7858,-491.772 0/0:61:61,0:61:2150:0:0:0,-18.3628,-193.049 chr08 4102922 . T A,C 167820 PASS AB=0.485068,0.514027;ABP=9.43039,8.67578;AC=29,13;AF=0.690476,0.309524;AN=42;AO=4058,2133;CIGAR=1X,1X;DP=6195;DPB=6195;DPRA=0.7,1.4001;EPP=8806.16,4634.76;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=1.95,2.05556;MQM=59.9596,59.338;MQMR=60;NS=21;NUMALT=2;ODDS=5.2714;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=144136,75166;QR=72;RO=2;RPL=2118,1117;RPP=19.9647,13.3953;RPPR=7.35324;RPR=1940,1016;RUN=1,1;SAF=2119,1117;SAP=20.3478,13.3953;SAR=1939,1016;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:318:0,153,165:0:0:153,165:5470,5800:-918.414,-472.399,-426.341,-446.369,0,-396.699 1/2:200:0,107,93:0:0:107,93:3815,3261:-576.634,-265.65,-233.439,-311.338,0,-283.342 1/2:248:0,101,146:0:0:101,146:3610,5123:-711.172,-416.826,-386.422,-294.341,0,-250.39 1/2:395:0,208,186:0:0:208,186:7405,6571:-1138.52,-534.992,-472.378,-603.522,0,-547.53 1/2:532:0,230,302:0:0:230,302:8168,10675:-1535.07,-869.53,-800.293,-665.893,0,-574.982 1/1:291:0,289,2:0:0:289,2:10282,68:-924.967,-86.9977,0,-919.452,-81.142,-918.85 1/1:345:1,343,1:1:36:343,1:12195,36:-1093.75,-100.316,0,-1091.11,-100.316,-1093.75 2/2:413:0,0,413:0:0:0,413:0,14623:-1315.11,-1315.11,-1315.11,-124.325,-124.325,0 1/2:586:0,280,306:0:0:280,306:10000,10775:-1692.53,-877.238,-792.95,-815.647,0,-723.532 1/2:52:0,29,23:0:0:29,23:1029,796:-148.872,-65.0304,-56.3005,-84.1913,0,-77.2676 1/1:24:0,24,0:0:0:24,0:852,0:-77.0004,-7.22472,0,-77.0004,-7.22472,-77.0004 1/2:120:0,67,53:0:0:67,53:2385,1877:-347.635,-153.252,-133.083,-194.737,0,-178.782 1/1:415:0,415,0:0:0:415,0:14669,0:-1319.92,-124.927,0,-1319.92,-124.927,-1319.92 1/2:350:1,158,191:1:36:158,191:5585,6758:-1001.47,-546.938,-502.313,-451.892,0,-397.333 1/1:581:0,579,2:0:0:579,2:20576,70:-1850.99,-174.296,0,-1845.32,-168.275,-1844.71 1/1:220:0,220,0:0:0:220,0:7800,0:-702.028,-66.2266,0,-702.028,-66.2266,-702.028 1/1:165:0,164,1:0:0:164,1:5813,32:-522.963,-49.3689,0,-520.385,-46.471,-520.084 1/2:286:0,130,156:0:0:130,156:4583,5451:-816.692,-443.54,-404.406,-373.503,0,-326.542 1/2:228:0,145,83:0:0:145,83:5130,2927:-656.433,-238.65,-195,-418.136,0,-393.151 1/1:295:0,287,8:0:0:287,8:10168,266:-914.724,-86.3956,0,-893.202,-64.5402,-890.793 1/1:131:0,129,2:0:0:129,2:4601,57:-413.968,-38.8329,0,-409.443,-34.0216,-408.841 chr08 4102974 . G A 18740.8 PASS AB=0.529412;ABP=15.5282;AC=13;AF=0.309524;AN=42;AO=1046;CIGAR=1X;DP=3074;DPB=3074;DPRA=1.1452;EPP=2274.37;EPPR=4404.58;GTI=0;LEN=1;MEANALT=1;MQM=58.5306;MQMR=59.9295;NS=21;NUMALT=1;ODDS=5.24895;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37495;QR=72267;RO=2027;RPL=1046;RPP=2274.37;RPPR=4404.58;RPR=0;RUN=1;SAF=0;SAP=2274.37;SAR=1046;SRF=0;SRP=4404.58;SRR=2027;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:66,72:66:2360:72:2584:-191.183,0,-171.116 0/1:112:56,56:56:1991:56:2012:-147.538,0,-145.748 0/1:121:43,78:43:1528:78:2800:-215.703,0,-101.388 0/1:290:150,140:150:5368:140:4994:-362.08,0,-395.953 0/1:259:120,139:120:4248:139:4981:-370.036,0,-304.52 0/0:163:161,2:161:5759:2:72:0,-42.2312,-511.585 0/0:161:161,0:161:5752:0:0:0,-48.4658,-517.747 1/1:152:0,152:0:0:152:5442:-488.883,-45.7566,0 0/1:184:73,111:73:2612:111:3976:-302.1,0,-179.937 0/1:28:17,11:17:604:11:396:-27.5506,0,-46.2618 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:52:26,26:26:936:26:936:-68.9059,0,-68.9059 0/0:268:268,0:268:9552:0:0:0,-80.676,-859.64 0/1:212:96,116:96:3423:116:4166:-310.695,0,-244.465 0/0:193:191,2:191:6794:2:72:0,-51.291,-604.724 0/0:145:144,0:144:5144:0:0:0,-43.3483,-462.739 0/0:91:90,1:90:3216:1:36:0,-23.7965,-286.063 0/1:155:65,90:65:2302:90:3232:-244.189,0,-160.77 0/1:115:72,43:72:2571:43:1544:-104.599,0,-196.394 0/0:150:143,7:143:5080:7:252:0,-22.1255,-434.32 0/0:74:74,0:74:2635:0:0:0,-22.2762,-237.397 chr08 4130257 . 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A T 10393.1 PASS AB=0.539267;ABP=10.6844;AC=13;AF=0.309524;AN=42;AO=537;CIGAR=1X;DP=1255;DPB=1255;DPRA=1.24112;EPP=1169.09;EPPR=1562.13;GTI=3;LEN=1;MEANALT=1;MQM=60;MQMR=59.9694;NS=21;NUMALT=1;ODDS=0.73091;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19181;QR=25711;RO=718;RPL=537;RPP=1169.09;RPPR=1562.13;RPR=0;RUN=1;SAF=537;SAP=1169.09;SAR=0;SRF=718;SRP=1562.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:23:14,9:14:500:9:324:-22.5822,0,-38.4125 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4391 0/1:96:31,65:31:1112:65:2331:-181.15,0,-71.4925 0/1:55:23,32:23:828:32:1152:-87.4335,0,-58.2875 0/1:45:19,26:19:680:26:927:-70.201,0,-47.9828 0/0:39:38,1:38:1364:1:36:0,-8.14189,-119.462 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 1/1:227:0,227:0:0:227:8055:-724.973,-68.3338,0 0/1:130:67,63:67:2388:63:2264:-164.888,0,-176.044 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:36:10,26:10:360:26:936:-73.7224,0,-21.9072 0/0:103:103,0:103:3688:0:0:0,-31.0061,-332.123 0/1:51:14,37:14:504:37:1324:-104.11,0,-30.3456 0/0:76:76,0:76:2736:0:0:0,-22.8783,-246.453 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:81:47,34:47:1672:34:1220:-85.7234,0,-126.384 0/1:44:34,10:34:1220:10:360:-19.499,0,-96.8615 0/0:136:136,0:136:4868:0:0:0,-40.9401,-438.267 0/0:26:26,0:26:927:0:0:0,-7.82678,-83.7474 chr08 4130288 . 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T C 34649.2 PASS AB=0.505747;ABP=3.40965;AC=29;AF=0.690476;AN=42;AO=1734;CIGAR=1X;DP=2568;DPB=2568;DPRA=0.854225;EPP=3768.34;EPPR=1803.17;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9435;MQMR=59.9928;NS=21;NUMALT=1;ODDS=14.2441;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60853;QR=29622;RO=833;RPL=1734;RPP=3768.34;RPPR=1803.17;RPR=0;RUN=1;SAF=1734;SAP=3768.34;SAR=0;SRF=833;SRP=1811.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:223:101,122:101:3595:122:4185:-309.7,0,-256.625 0/1:65:41,24:41:1468:24:814:-54.0018,0,-112.849 0/1:149:80,69:80:2859:69:2441:-175.091,0,-212.694 0/1:133:76,57:76:2704:57:1945:-135.28,0,-203.565 0/1:202:99,103:99:3477:103:3588:-262.32,0,-252.332 1/1:144:0,144:0:0:144:5097:-458.861,-43.3483,0 1/1:188:0,188:0:0:188:6655:-599.028,-56.5936,0 0/0:142:142,0:142:5069:0:0:0,-42.7463,-456.354 0/1:287:142,145:142:5053:145:5119:-374.458,0,-368.514 0/1:13:6,7:6:212:7:237:-17.7457,0,-15.5114 1/1:17:0,17:0:0:17:603:-54.5995,-5.11751,0 0/1:39:17,22:17:603:22:792:-59.8655,0,-42.8593 1/1:112:0,112:0:0:112:3943:-355.063,-33.7154,0 0/1:152:62,90:62:2207:90:3141:-237.158,0,-153.138 1/1:251:1,249:1:36:249:8783:-786.837,-72.0191,0 1/1:77:0,77:0:0:77:2712:-244.321,-23.1793,0 1/1:74:0,74:0:0:74:2627:-236.675,-22.2762,0 0/1:71:40,31:40:1403:31:1080:-76.1354,0,-105.191 0/1:58:24,34:24:864:34:1152:-86.5175,0,-60.6228 1/1:128:2,126:2:72:126:4424:-391.493,-31.6951,0 1/1:43:0,43:0:0:43:1515:-136.642,-12.9443,0 chr08 4294678 . G A 17626 PASS AB=0.518283;ABP=4.83655;AC=29;AF=0.690476;AN=42;AO=868;CIGAR=1X;DP=1216;DPB=1216;DPRA=1.47;EPP=1879.17;EPPR=756.511;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=14.4745;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30666;QR=12262;RO=347;RPL=1;RPP=1879.17;RPPR=756.511;RPR=867;RUN=1;SAF=0;SAP=1887.85;SAR=868;SRF=0;SRP=756.511;SRR=347;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:22,23:22:775:23:804:-58.8884,0,-56.28 0/1:23:12,11:12:428:11:396:-29.0591,0,-31.9351 0/1:79:29,50:29:1016:50:1765:-135.35,0,-67.9676 0/1:61:30,31:30:1063:31:1108:-81.6682,0,-77.618 0/1:81:41,40:41:1452:40:1389:-100.921,0,-106.593 1/1:54:0,54:0:0:54:1897:-171.004,-16.2556,0 1/1:99:0,99:0:0:99:3520:-317.009,-29.802,0 0/0:40:40,0:40:1414:0:0:0,-12.0412,-127.556 0/1:148:80,68:80:2824:68:2402:-171.882,0,-209.846 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 1/1:9:0,9:0:0:9:305:-27.7772,-2.70927,0 0/1:26:13,13:13:468:13:460:-33.9086,0,-34.6329 1/1:75:0,75:0:0:75:2700:-243.243,-22.5773,0 0/1:55:27,28:27:955:28:984:-72.314,0,-69.7082 1/1:110:0,110:0:0:110:3816:-343.637,-33.1133,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 1/1:23:0,23:0:0:23:809:-73.1292,-6.92369,0 0/1:48:26,22:26:921:22:766:-54.809,0,-68.7558 0/1:52:16,36:16:550:36:1284:-100.21,0,-34.1698 1/1:128:5,123:5:180:123:4361:-376.114,-21.9798,0 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 chr08 4354750 . C T 21103.4 PASS AB=0.486674;ABP=4.34136;AC=29;AF=0.690476;AN=42;AO=1045;CIGAR=1X;DP=1597;DPB=1597;DPRA=0.696262;EPP=2272.2;EPPR=1201.66;GTI=0;LEN=1;MEANALT=1;MQM=59.9799;MQMR=60;NS=21;NUMALT=1;ODDS=3.1918;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37093;QR=19687;RO=552;RPL=1045;RPP=2272.2;RPPR=1201.66;RPR=0;RUN=1;SAF=0;SAP=2272.2;SAR=1045;SRF=0;SRP=1201.66;SRR=552;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:52,55:52:1845:55:1965:-144.843,0,-134.118 0/1:76:37,39:37:1328:39:1385:-102.069,0,-96.944 0/1:61:31,30:31:1108:30:1065:-77.7969,0,-81.6682 0/1:75:38,37:38:1368:37:1328:-97.245,0,-100.844 0/1:158:92,66:92:3273:66:2322:-161.673,0,-247.227 1/1:46:0,46:0:0:46:1627:-146.717,-13.8474,0 1/1:90:0,90:0:0:90:3179:-286.332,-27.0927,0 0/0:107:107,0:107:3791:0:0:0,-32.2102,-341.386 0/1:123:74,49:74:2656:49:1718:-117.874,0,-202.259 0/1:13:4,9:4:144:9:324:-25.5925,0,-9.40023 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 1/1:62:0,62:0:0:62:2201:-198.352,-18.6639,0 0/1:99:47,52:47:1673:52:1834:-135.535,0,-121.053 1/1:137:0,137:0:0:137:4867:-438.182,-41.2411,0 1/1:85:0,85:0:0:85:3033:-273.199,-25.5876,0 1/1:91:0,91:0:0:91:3248:-292.54,-27.3937,0 0/1:69:37,32:37:1332:32:1125:-80.7844,0,-99.4113 0/1:65:24,41:24:845:41:1457:-111.857,0,-56.8001 1/1:82:2,80:2:72:80:2850:-249.899,-17.8477,0 1/1:28:0,28:0:0:28:989:-89.322,-8.42884,0 chr08 4366215 . GCGGGCGGTAGAGGT AGGGGCGGTGGACGA,GGGGGTGGTGGAGGA 12831.7 PASS AB=0.566092,0.41092;ABP=29.4174,50.9824;AC=30,12;AF=0.714286,0.285714;AN=42;AO=863,354;CIGAR=2X7M1X2M1X1M1X,1M1X3M1X3M1X4M1X;DP=1242;DPB=1240.4;DPRA=0.876866,1.87422;EPP=1876.99,771.712;EPPR=0;GTI=1;LEN=15,15;MEANALT=2.6,3.53846;MQM=24.0684,34.0085;MQMR=0;NS=21;NUMALT=2;ODDS=2.92993;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20753,11830;QR=0;RO=0;RPL=0,0;RPP=1876.99,771.712;RPPR=0;RPR=863,354;RUN=1,1;SAF=863,354;SAP=1876.99,771.712;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:0,54,27:0:0:54,27:1403,942:-165.383,-69.9843,-53.7287,-95.4653,0,-87.3375 1/2:39:0,21,18:0:0:21,18:456,549:-68.6469,-39.6379,-33.3163,-29.2442,0,-23.8257 1/2:44:0,25,17:0:0:25,17:650,586:-87.6785,-43.508,-35.9823,-44.2364,0,-39.1189 1/2:43:0,20,22:0:0:20,22:520,752:-91.3244,-55.9946,-49.974,-35.2582,0,-28.6355 1/2:108:0,61,40:0:0:61,40:1574,1395:-211.072,-104.126,-85.7631,-106.961,0,-94.9201 1/1:44:0,44,0:0:0:44,0:966,0:-75.2639,-13.2453,0,-75.2639,-13.2453,-75.2639 1/1:101:0,101,0:0:0:101,0:2217,0:-172.485,-30.404,0,-172.485,-30.404,-172.485 2/2:67:0,0,65:0:0:0,65:0,2171:-178.777,-178.777,-178.777,-19.567,-19.567,0 1/2:130:0,73,56:0:0:73,56:1605,1752:-228.565,-125.827,-103.852,-102.742,0,-85.8847 1/1:4:0,4,0:0:0:4,0:96,0:-7.76939,-1.20412,0,-7.76939,-1.20412,-7.76939 1/1:5:0,5,0:0:0:5,0:110,0:-8.74157,-1.50515,0,-8.74157,-1.50515,-8.74157 1/2:12:0,2,10:0:0:2,10:48,336:-28.1549,-24.9935,-24.3915,-3.38763,0,-0.377327 1/1:78:0,74,1:0:0:74,1:1919,33:-152.814,-22.2762,0,-150.415,-19.8714,-150.114 1/2:74:0,42,31:0:0:42,31:1086,1076:-154.153,-80.4222,-67.7789,-73.761,0,-64.4291 1/1:94:0,89,2:0:0:89,2:2299,72:-182.983,-26.7917,0,-177.645,-21.3982,-177.043 1/1:38:0,38,0:0:0:38,0:836,0:-65.1817,-11.4391,0,-65.1817,-11.4391,-65.1817 1/1:40:0,40,0:0:0:40,0:876,0:-68.2428,-12.0412,0,-68.2428,-12.0412,-68.2428 1/2:93:0,44,48:0:0:44,48:1048,1566:-183.48,-114.332,-101.087,-69.1882,0,-54.7388 1/2:70:0,52,17:0:0:52,17:1343,600:-135.848,-44.6803,-29.0267,-91.1405,0,-86.023 1/1:37:0,37,0:0:0:37,0:882,0:-69.5943,-11.1381,0,-69.5943,-11.1381,-69.5943 1/1:38:0,37,0:0:0:37,0:819,0:-63.713,-11.1381,0,-63.713,-11.1381,-63.713 chr08 4407842 . TTAA TTAT,CTAT 24931.3 PASS AB=0.454936,0.539342;ABP=15.3402,12.4076;AC=29,13;AF=0.690476,0.309524;AN=42;AO=791,409;CIGAR=3M1X,1X2M1X;DP=1206;DPB=1206;DPRA=1.96,0.981572;EPP=1711.97,891.143;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.95,2.21429;MQM=59.9924,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.428358;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28062,14218;QR=0;RO=0;RPL=1,0;RPP=1711.97,891.143;RPPR=0;RPR=790,409;RUN=1,1;SAF=0,0;SAP=1720.64,891.143;SAR=791,409;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,47,65:0:0:47,65:1656,2243:-317.094,-182.266,-168.118,-134.875,0,-115.308 1/2:42:0,22,19:0:0:22,19:776,659:-116.802,-53.6106,-46.988,-63.2372,0,-57.5177 1/2:54:0,28,26:0:0:28,26:1000,882:-153.4,-71.8612,-63.4324,-81.8865,0,-74.0598 1/2:34:0,8,26:0:0:8,26:288,920:-98.791,-75.2902,-72.882,-23.8592,0,-16.0324 1/2:133:0,61,71:0:0:61,71:2188,2491:-381.307,-202.839,-184.476,-178.591,0,-157.218 1/1:29:0,28,1:0:0:28,1:1000,35:-89.9653,-8.42884,0,-87.1178,-5.23124,-86.8167 1/1:93:0,93,0:0:0:93,0:3231,0:-291.008,-27.9958,0,-291.008,-27.9958,-291.008 2/2:30:0,0,30:0:0:0,30:0,1033:-93.2755,-93.2755,-93.2755,-9.0309,-9.0309,0 1/2:110:0,50,60:0:0:50,60:1792,2105:-317.813,-171.657,-156.605,-146.511,0,-128.449 1/2:4:0,1,3:0:0:1,3:36,102:-11.5557,-8.61329,-8.31226,-3.29724,0,-2.39415 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:29:0,9,20:0:0:9,20:324,695:-83.2912,-56.8506,-54.1413,-26.7966,0,-20.776 1/1:48:0,48,0:0:0:48,0:1724,0:-155.445,-14.4494,0,-155.445,-14.4494,-155.445 1/2:77:0,38,39:0:0:38,39:1356,1349:-220.514,-109.964,-98.5246,-110.901,0,-99.1612 1/1:133:0,132,0:0:0:132,0:4631,0:-416.702,-39.736,0,-416.702,-39.736,-416.702 1/1:42:0,42,0:0:0:42,0:1496,0:-134.935,-12.6433,0,-134.935,-12.6433,-134.935 1/1:55:0,54,0:0:0:54,0:1920,0:-172.784,-16.2556,0,-172.784,-16.2556,-172.784 1/2:52:0,21,30:0:0:21,30:752,1033:-145.218,-83.8864,-77.5648,-61.3249,0,-52.294 1/2:51:0,33,18:0:0:33,18:1172,635:-147.559,-52.059,-42.125,-95.8535,0,-90.435 1/1:41:0,40,1:0:0:40,1:1436,36:-129.178,-12.0412,0,-126.24,-8.74396,-125.939 1/1:32:0,32,0:0:0:32,0:1140,0:-102.909,-9.63296,0,-102.909,-9.63296,-102.909 chr08 4413627 . T C 14602.3 PASS AB=0.559772;ABP=19.3643;AC=29;AF=0.690476;AN=42;AO=720;CIGAR=1X;DP=1003;DPB=1003;DPRA=1.01702;EPP=1566.47;EPPR=606.71;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9472;MQMR=60;NS=21;NUMALT=1;ODDS=4.46951;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25524;QR=10001;RO=282;RPL=0;RPP=1566.47;RPPR=606.71;RPR=720;RUN=1;SAF=0;SAP=1566.47;SAR=720;SRF=0;SRP=615.366;SRR=282;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:14,43:14:504:43:1526:-120.22,0,-28.2822 0/1:26:13,13:13:460:13:464:-34.2707,0,-33.9086 0/1:39:20,19:20:712:19:672:-49.0667,0,-52.6665 0/1:68:39,29:39:1377:29:1018:-71.4596,0,-103.757 0/1:106:38,68:38:1353:68:2432:-187.226,0,-90.1592 1/1:31:1,30:1:36:30:1076:-93.5546,-5.73366,0 1/1:61:0,61:0:0:61:2177:-195.967,-18.3628,0 0/0:47:47,0:47:1644:0:0:0,-14.1484,-148.245 0/1:49:25,24:25:888:24:852:-62.2499,0,-65.4886 0/1:7:6,1:6:212:1:36:-1.49107,0,-17.3176 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:23:11,12:11:396:12:428:-31.9351,0,-29.0591 1/1:58:0,58:0:0:58:2064:-186.031,-17.4597,0 0/1:55:23,32:23:820:32:1148:-87.0732,0,-57.5659 1/1:99:1,98:1:36:98:3495:-311.163,-26.2037,0 1/1:50:0,50:0:0:50:1775:-160.032,-15.0515,0 1/1:34:0,34:0:0:34:1208:-109.026,-10.235,0 0/1:64:34,30:34:1211:30:1053:-75.8124,0,-90.0296 0/1:32:8,24:8:284:24:826:-65.0186,0,-16.2704 1/1:57:2,55:2:68:55:1956:-169.858,-10.701,0 1/1:30:0,30:0:0:30:998:-90.1187,-9.0309,0 chr08 4413691 . TTG TTA,CTA 52896.9 PASS AB=0.48565,0.513595;ABP=5.37858,5.13585;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1613,889;CIGAR=2M1X,1X1M1X;DP=2504;DPB=2504;DPRA=0,1.0362;EPP=3505.6,1933.45;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.7619,2.14286;MQM=53.4916,50.4061;MQMR=0;NS=21;NUMALT=2;ODDS=3.01076;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57784,31394;QR=0;RO=0;RPL=0,0;RPP=3505.6,1933.45;RPPR=0;RPR=1613,889;RUN=1,1;SAF=1613,889;SAP=3505.6,1933.45;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:134:0,60,74:0:0:60,74:2141,2649:-388.243,-214.647,-196.585,-173.952,0,-151.676 1/2:65:0,31,34:0:0:31,34:1108,1199:-186.973,-96.803,-87.471,-90.5226,0,-80.2876 1/2:145:0,61,83:0:0:61,83:2181,2944:-414.14,-236.872,-218.51,-177.34,0,-152.355 1/2:131:0,67,64:0:0:67,64:2404,2251:-376.847,-181.88,-161.711,-195.32,0,-176.054 1/2:202:0,96,106:0:0:96,106:3436,3748:-581.525,-302.395,-273.496,-279.483,0,-247.574 1/1:103:0,98,5:0:0:98,5:3515,170:-314.831,-29.5009,0,-301.069,-15.3988,-299.563 1/1:167:0,167,0:0:0:167,0:5987,0:-537.587,-50.272,0,-537.587,-50.272,-537.587 2/2:206:0,2,203:0:0:2,203:72,7147:-639.425,-633.55,-632.948,-61.1091,-55.1807,0 1/2:267:0,133,134:0:0:133,134:4731,4715:-768.2,-382.984,-342.947,-385.569,0,-345.231 1/2:9:0,4,5:0:0:4,5:144,180:-26.7062,-14.9992,-13.7951,-12.0657,0,-10.5605 1/1:4:0,4,0:0:0:4,0:144,0:-13.2648,-1.20412,0,-13.2648,-1.20412,-13.2648 1/2:43:0,22,21:0:0:22,21:784,731:-123.113,-59.3769,-52.7542,-64.0863,0,-57.7647 1/1:117:0,117,0:0:0:117,0:4208,0:-377.129,-35.2205,0,-377.129,-35.2205,-377.129 1/2:119:0,46,73:0:0:46,73:1652,2566:-341.519,-207.388,-193.541,-134.485,0,-112.51 1/1:207:0,207,0:0:0:207,0:7444,0:-667.444,-62.3132,0,-667.444,-62.3132,-667.444 1/1:102:0,102,0:0:0:102,0:3638,0:-327.292,-30.7051,0,-327.292,-30.7051,-327.292 1/1:90:0,90,0:0:0:90,0:3210,0:-288.84,-27.0927,0,-288.84,-27.0927,-288.84 1/2:116:0,62,54:0:0:62,54:2228,1915:-335.576,-155.112,-136.448,-180.818,0,-164.563 1/2:93:0,61,32:0:0:61,32:2196,1143:-271.486,-92.9609,-74.598,-178.882,0,-169.249 1/1:128:0,128,0:0:0:128,0:4581,0:-410.913,-38.5318,0,-410.913,-38.5318,-410.913 1/1:56:0,55,1:0:0:55,1:1980,36:-177.626,-16.5567,0,-174.692,-13.2631,-174.391 chr08 4413723 . TGGAG CGGAA,TGGAA 106161 PASS AB=0.445459,0.549064;ABP=59.6222,48.8233;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2508,1484;CIGAR=1X3M1X,4M1X;DP=4006;DPB=4023;DPRA=0.69461,1.36117;EPP=5225.57,3020.39;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.55,2.66667;MQM=55.7887,54.4946;MQMR=0;NS=21;NUMALT=2;ODDS=12.4109;PAIRED=0,0;PAIREDR=0;PAO=44,41;PQA=1440,1332;PQR=0;PRO=0;QA=87002,52883;QR=0;RO=0;RPL=1608,859;RPP=437.014,83.1324;RPPR=0;RPR=900,625;RUN=1,1;SAF=1634,883;SAP=503.107,119.374;SAR=874,601;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:222:0,100,121:0:0:100,121:3474,4324:-632.839,-351.2,-321.097,-281.571,0,-245.147 1/2:141:0,69,68:0:0:69,68:2410,2440:-394.573,-198.693,-177.922,-195.88,0,-175.41 1/2:197:0,76,120:0:0:76,120:2667,4277:-561.887,-345.327,-322.448,-216.615,0,-180.492 1/2:224:0,95,129:0:0:95,129:3295,4608:-640.978,-374.116,-345.518,-267.212,0,-228.379 1/2:375:0,154,221:0:0:154,221:5302,7892:-1070.62,-640.82,-594.462,-430.145,0,-363.617 1/1:182:0,176,6:0:0:176,6:6109,212:-548.348,-52.9813,0,-531.113,-35.3943,-529.307 1/1:238:0,237,0:0:0:237,0:8249,0:-740.862,-71.3441,0,-740.862,-71.3441,-740.862 2/2:269:0,0,269:0:0:0,269:0,9599:-859.909,-859.909,-859.909,-80.9771,-80.9771,0 1/2:414:0,199,212:0:0:199,212:6882,7515:-1169.68,-610.738,-550.833,-558.922,0,-495.104 1/2:18:0,11,7:0:0:11,7:364,248:-49.9153,-20.5142,-17.2029,-29.7456,0,-27.6384 1/1:8:0,8,0:0:0:8,0:276,0:-25.1515,-2.40824,0,-25.1515,-2.40824,-25.1515 1/2:60:0,25,35:0:0:25,35:862,1244:-170.708,-100.851,-93.3249,-69.8462,0,-59.3101 1/1:189:0,188,1:0:0:188,1:6556,36:-588.166,-56.5936,0,-585.229,-53.2964,-584.928 1/2:230:0,77,152:0:0:77,152:2653,5406:-653.523,-438.437,-415.257,-215.034,0,-169.278 1/1:301:0,300,1:0:0:300,1:10450,36:-938.061,-90.309,0,-935.124,-87.0118,-934.823 1/1:191:0,191,0:0:0:191,0:6637,0:-597.174,-57.4967,0,-597.174,-57.4967,-597.174 1/1:150:0,149,1:0:0:149,1:5176,36:-465.433,-44.8535,0,-462.496,-41.5562,-462.194 1/2:161:0,79,80:0:0:79,80:2723,2872:-452.128,-232.03,-208.249,-219.17,0,-195.088 1/2:149:0,91,58:0:0:91,58:3133,2030:-418.911,-164.907,-137.513,-254.291,0,-236.832 1/1:192:0,189,2:0:0:189,2:6528,72:-585.984,-56.8947,0,-580.109,-51.0589,-579.507 1/1:95:0,94,1:0:0:94,1:3256,36:-290.743,-28.2968,0,-287.809,-25.0033,-287.508 chr08 4429026 . TGGCGGT TGCTAGGCGGT,TGCAAGGCGGT 40739.9 PASS AB=0.5,0.487179;ABP=3.0103,4.56931;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1434,614;CIGAR=1M4I6M,1M4I6M;DP=2065;DPB=3243.86;DPRA=1.22469,0.924138;EPP=3090.9,1336.29;EPPR=7.35324;GTI=0;LEN=4,4;MEANALT=2.4,2.92857;MQM=47.1074,46.9332;MQMR=55.5;NS=21;NUMALT=2;ODDS=10.2011;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49213,20971;QR=58;RO=2;RPL=3,0;RPP=3090.9,1336.29;RPPR=7.35324;RPR=1431,614;RUN=1,1;SAF=0,0;SAP=3116.9,1336.29;SAR=1434,614;SRF=0;SRP=7.35324;SRR=2;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:166:0,84,81:0:0:84,81:2900,2739:-452.891,-220.181,-194.895,-232.694,0,-208.31 1/2:94:1,47,45:1:35:47,45:1647,1550:-254.085,-122.103,-110.802,-129.435,0,-118.737 1/2:83:0,46,37:0:0:46,37:1603,1237:-228.474,-99.4687,-85.6213,-129.343,0,-118.205 1/2:110:0,56,53:0:0:56,53:1906,1808:-298.325,-145.285,-128.427,-153.024,0,-137.069 1/2:180:0,72,106:0:0:72,106:2457,3630:-488.705,-291.677,-270.003,-197.029,0,-165.12 1/1:103:0,103,0:0:0:103,0:3503,0:-313.436,-31.0061,0,-313.436,-31.0061,-313.436 1/1:156:0,156,0:0:0:156,0:5357,0:-478.768,-46.9607,0,-478.768,-46.9607,-478.768 2/2:81:1,0,80:1:23:0,80:0,2718:-240.473,-240.774,-242.541,-22.0841,-24.0824,0 1/2:203:0,101,98:0:0:101,98:3404,3372:-543.206,-270.45,-240.046,-272.78,0,-243.279 1/2:6:0,2,4:0:0:2,4:72,135:-17.0439,-11.2065,-10.6044,-6.18746,0,-4.98334 1/1:4:0,4,0:0:0:4,0:136,0:-12.5249,-1.20412,0,-12.5249,-1.20412,-12.5249 1/2:12:0,8,4:0:0:8,4:288,140:-34.9891,-11.6622,-9.25396,-23.6778,0,-22.4737 1/1:99:0,99,0:0:0:99,0:3405,0:-303.615,-29.802,0,-303.615,-29.802,-303.615 1/2:130:0,62,68:0:0:62,68:2130,2350:-360.139,-188.987,-170.323,-171.493,0,-151.023 1/1:180:0,180,0:0:0:180,0:6251,0:-558.022,-54.1854,0,-558.022,-54.1854,-558.022 1/1:77:0,76,0:0:0:76,0:2637,0:-235.462,-22.8783,0,-235.462,-22.8783,-235.462 1/1:106:0,106,0:0:0:106,0:3641,0:-324.404,-31.9092,0,-324.404,-31.9092,-324.404 1/2:43:0,23,18:0:0:23,18:808,610:-114.517,-49.1916,-42.2679,-65.3569,0,-59.9384 1/2:65:0,45,18:0:0:45,18:1473,623:-167.67,-50.2315,-36.6851,-117.441,0,-112.022 1/1:115:0,113,1:0:0:113,1:3865,27:-344.737,-34.0164,0,-342.611,-31.923,-342.31 1/1:52:0,51,1:0:0:51,1:1730,32:-154.305,-15.3525,0,-151.727,-12.4542,-151.426 chr08 4429051 . CAT TGT,TAC 50372 PASS AB=0.492549,0.504314;ABP=3.62512,3.21638;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1627,739;CIGAR=2X1M,1X1M1X;DP=2373;DPB=2373;DPRA=1.18594,1.04973;EPP=3330.61,1505.19;EPPR=0;GTI=0;LEN=2,3;MEANALT=1.85,2.23077;MQM=47.0731,46.843;MQMR=0;NS=21;NUMALT=2;ODDS=6.85897;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57340,26039;QR=0;RO=0;RPL=1603,727;RPP=3330.61,1505.19;RPPR=0;RPR=24,12;RUN=1,1;SAF=0,0;SAP=3536,1607.73;SAR=1627,739;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:205:0,97,105:0:0:97,105:3410,3673:-569.211,-295.977,-266.777,-273.283,0,-241.674 1/2:105:0,49,56:0:0:49,56:1731,1970:-297.3,-158.126,-143.376,-139.522,0,-122.664 1/2:96:0,54,42:0:0:54,42:1893,1470:-271.178,-118.788,-102.532,-152.737,0,-140.094 1/2:123:0,65,58:0:0:65,58:2306,2066:-352.52,-166.858,-147.291,-186.014,0,-168.555 1/2:206:0,80,126:0:0:80,126:2828,4419:-582.891,-355.59,-331.507,-227.65,0,-189.72 1/1:115:0,115,0:0:0:115,0:4038,0:-361.016,-34.6185,0,-361.016,-34.6185,-361.016 1/1:178:0,177,0:0:0:177,0:6292,0:-561.716,-53.2823,0,-561.716,-53.2823,-561.716 2/2:96:0,0,95:0:0:0,95:0,3371:-299.367,-299.367,-299.367,-28.5979,-28.5979,0 1/2:236:0,117,119:0:0:117,119:4061,4190:-662.172,-336.004,-300.784,-326.512,0,-290.69 1/2:8:0,2,6:0:0:2,6:72,214:-23.5041,-17.6732,-17.0711,-6.18746,0,-4.38128 1/1:6:0,6,0:0:0:6,0:212,0:-19.3307,-1.80618,0,-19.3307,-1.80618,-19.3307 1/2:13:0,9,4:0:0:9,4:324,144:-38.2753,-12.0176,-9.30832,-26.6151,0,-25.411 1/1:114:0,114,0:0:0:114,0:4007,0:-356.416,-34.3174,0,-356.416,-34.3174,-356.416 1/2:161:0,77,83:0:0:77,83:2704,2942:-453.901,-236.131,-212.952,-217.9,0,-192.915 1/1:201:0,201,0:0:0:201,0:7112,0:-634.326,-60.507,0,-634.326,-60.507,-634.326 1/1:83:0,83,0:0:0:83,0:2917,0:-260.1,-24.9855,0,-260.1,-24.9855,-260.1 1/1:124:0,124,0:0:0:124,0:4348,0:-385.006,-37.3277,0,-385.006,-37.3277,-385.006 1/2:49:0,26,23:0:0:26,23:923,807:-139.85,-65.4239,-57.5971,-74.7756,0,-67.8519 1/2:73:0,52,21:0:0:52,21:1854,737:-208.526,-59.8101,-44.1565,-149.065,0,-142.743 1/1:125:0,124,1:0:0:124,1:4387,36:-390.301,-37.3277,0,-387.386,-34.0553,-387.085 1/1:56:0,55,0:0:0:55,0:1921,0:-171.386,-16.5567,0,-171.386,-16.5567,-171.386 chr08 4434707 . ATGG TTGT 40102.8 PASS AB=0.530421;ABP=13.3155;AC=29;AF=0.690476;AN=42;AO=1964;CIGAR=1X2M1X;DP=2741;DPB=2741;DPRA=0.801242;EPP=4267.78;EPPR=1659.86;GTI=0;LEN=4;MEANALT=1.45;MQM=59.3101;MQMR=59.9713;NS=21;NUMALT=1;ODDS=4.41585;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69047;QR=27123;RO=767;RPL=0;RPP=4267.78;RPPR=1659.86;RPR=1964;RUN=1;SAF=1964;SAP=4267.78;SAR=0;SRF=767;SRP=1668.53;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:48,54:48:1698:54:1884:-139.123,0,-122.4 0/1:116:55,61:55:1925:61:2153:-159.101,0,-138.606 0/1:115:56,58:56:1986:58:2023:-147.699,0,-144.376 0/1:156:52,104:52:1861:104:3666:-283.147,0,-120.809 0/1:139:60,79:60:2132:79:2782:-208.771,0,-150.305 1/1:156:3,153:3:103:153:5368:-473.189,-37.3511,0 1/1:202:1,201:1:36:201:7057:-631.29,-57.2098,0 0/0:161:160,0:160:5663:0:0:0,-48.1648,-509.412 0/1:231:127,104:127:4512:104:3694:-263.102,0,-336.712 0/1:13:4,9:4:143:9:316:-24.8534,0,-9.30805 1/1:6:0,6:0:0:6:214:-19.6012,-1.80618,0 0/1:43:19,24:19:674:24:850:-63.848,0,-48.0429 1/1:131:0,129:0:0:129:4559:-410.072,-38.8329,0 0/1:206:104,102:104:3639:102:3582:-260.471,0,-265.701 1/1:397:0,396:0:0:396:13984:-1258.02,-119.208,0 1/1:99:0,99:0:0:99:3454:-311.004,-29.802,0 1/1:147:0,146:0:0:146:5158:-463.733,-43.9504,0 0/1:108:55,51:55:1957:51:1789:-128.998,0,-144.171 0/1:53:19,34:19:650:34:1186:-91.0557,0,-42.8637 1/1:114:4,110:4:144:110:3818:-329.895,-21.0038,0 1/1:46:0,44:0:0:44:1510:-135.524,-13.2453,0 chr08 4434731 . TTTA CTTG,CTTA 54743.6 PASS AB=0.541329,0.452998;ABP=21.3182,26.6889;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1930,717;CIGAR=1X2M1X,1X3M;DP=2666;DPB=2668;DPRA=0.832781,1.67113;EPP=4193.95,1559.96;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.5,2.6875;MQM=59.3741,59.9512;MQMR=0;NS=21;NUMALT=2;ODDS=2.91002;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=75,75;PQR=36;PRO=2;QA=66880,25140;QR=0;RO=0;RPL=1930,717;RPP=4193.95,1559.96;RPPR=0;RPR=0,0;RUN=1,1;SAF=1930,717;SAP=4193.95,1559.96;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:99:0,52,45:0:0:52,45:1759,1582:-271.348,-128.763,-113.11,-142.571,0,-129.025 1/2:111:0,61,50:0:0:61,50:2119,1774:-317.138,-144.89,-126.527,-172.599,0,-157.548 1/2:114:0,58,56:0:0:58,56:2046,1982:-328.389,-161.796,-144.336,-166.947,0,-150.089 1/2:151:0,100,50:0:0:100,50:3451,1734:-421.387,-141.047,-110.944,-280.444,0,-265.392 1/2:133:0,76,56:0:0:76,56:2669,1955:-376.242,-159.018,-136.139,-217.226,0,-200.368 1/1:152:0,147,3:0:0:147,3:5126,95:-461.044,-44.2514,0,-453.401,-36.601,-452.497 1/1:200:0,199,1:0:0:199,1:6870,32:-617.885,-59.905,0,-615.306,-57.0067,-615.005 2/2:151:0,0,149:0:0:0,149:0,5215:-469.282,-469.282,-469.282,-44.8535,-44.8535,0 1/2:215:0,102,113:0:0:102,113:3526,3979:-610.714,-324.228,-293.523,-286.775,0,-252.759 1/2:12:0,9,3:0:0:9,3:324,108:-35.5636,-9.17208,-6.46281,-26.7512,0,-25.8482 1/1:6:0,6,0:0:0:6,0:208,0:-19.0505,-1.80618,0,-19.0505,-1.80618,-19.0505 1/2:43:0,23,20:0:0:23,20:816,708:-124.48,-58.025,-51.1013,-66.8096,0,-60.789 1/1:128:0,126,0:0:0:126,0:4399,0:-395.761,-37.9298,0,-395.761,-37.9298,-395.761 1/2:200:0,100,97:0:0:100,97:3409,3388:-552.204,-275.652,-245.549,-276.639,0,-247.439 1/1:397:0,393,1:0:0:393,1:13656,36:-1228.45,-118.305,0,-1225.51,-115.367,-1225.21 1/1:98:0,97,0:0:0:97,0:3358,0:-301.807,-29.1999,0,-301.807,-29.1999,-301.807 1/1:145:0,143,0:0:0:143,0:4938,0:-444.278,-43.0473,0,-444.278,-43.0473,-444.278 1/2:105:0,52,53:0:0:52,53:1780,1862:-296.324,-151.904,-136.25,-144.767,0,-128.812 1/2:51:0,35,16:0:0:35,16:1209,550:-143.224,-45.0069,-34.4708,-98.5611,0,-93.7446 1/1:112:0,108,4:0:0:108,4:3747,140:-336.299,-32.5112,0,-324.908,-20.7708,-323.704 1/1:43:0,43,0:0:0:43,0:1470,0:-132.292,-12.9443,0,-132.292,-12.9443,-132.292 chr08 4474474 . A C 1916.61 PASS AB=0.459091;ABP=6.20829;AC=14;AF=0.333333;AN=42;AO=117;CIGAR=1X;DP=426;DPB=426;DPRA=0.931579;EPP=177.638;EPPR=327.853;GTI=1;LEN=1;MEANALT=1;MQM=40.4701;MQMR=59.7282;NS=21;NUMALT=1;ODDS=1.01357;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4148;QR=11039;RO=309;RPL=117;RPP=257.073;RPPR=673.995;RPR=0;RUN=1;SAF=10;SAP=177.638;SAR=107;SRF=47;SRP=327.853;SRR=262;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:7:2,5:2:72:5:180:-13.5089,0,-4.72951 0/1:6:5,1:5:180:1:36:-1.61742,0,-14.7459 0/1:9:7,2:7:248:2:68:-3.47393,0,-19.9549 0/1:7:5,2:5:180:2:72:-3.48877,0,-14.4449 0/1:14:7,7:7:252:7:236:-15.4753,0,-18.8145 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.904 1/1:8:0,8:0:0:8:288:-25.3063,-2.40824,0 0/1:44:28,16:28:1004:16:564:-37.1919,0,-77.4305 0/1:20:12,8:12:423:8:288:-18.9717,0,-32.3827 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 1/1:8:0,8:0:0:8:284:-24.7162,-2.40824,0 0/0:10:10,0:10:348:0:0:0,-3.0103,-31.6551 0/1:18:12,6:12:428:6:212:-12.9521,0,-33.4334 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.0497 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:14:14,0:14:492:0:0:0,-4.21442,-44.5985 0/1:58:15,43:15:540:43:1524:-112.93,0,-31.4744 0/1:37:26,11:26:936:11:396:-21.9843,0,-73.2893 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 chr08 4497412 . T A 24868.8 PASS AB=0.480247;ABP=5.75547;AC=29;AF=0.690476;AN=42;AO=972;CIGAR=1X;DP=1482;DPB=1482;DPRA=0;EPP=2105;EPPR=1101.79;GTI=0;LEN=1;MEANALT=1;MQM=59.9979;MQMR=60;NS=21;NUMALT=1;ODDS=3.08854;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34144;QR=18260;RO=510;RPL=382;RPP=99.6632;RPPR=101.382;RPR=590;RUN=1;SAF=381;SAP=101.531;SAR=591;SRF=178;SRP=103.988;SRR=332;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:55,46:55:1976:46:1590:-112.981,0,-147.711 0/1:82:42,40:42:1499:40:1420:-103.413,0,-110.519 0/1:40:32,8:32:1148:8:288:-14.2262,0,-91.5886 0/1:42:22,20:22:792:20:700:-50.6802,0,-58.9624 0/1:97:52,45:52:1854:45:1591:-114.28,0,-137.938 1/1:65:0,65:0:0:65:2308:-207.981,-19.567,0 1/1:85:0,85:0:0:85:2975:-267.985,-25.5876,0 0/0:87:86,1:86:3080:1:36:0,-22.5913,-273.83 0/1:99:54,45:54:1936:45:1593:-113.856,0,-144.714 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 1/1:107:0,107:0:0:107:3811:-343.189,-32.2102,0 0/1:79:34,45:34:1207:45:1595:-120.058,0,-85.1539 1/1:85:0,85:0:0:85:3005:-270.682,-25.5876,0 1/1:30:0,30:0:0:30:1057:-95.439,-9.0309,0 1/1:31:0,31:0:0:31:1085:-97.9564,-9.33193,0 0/1:132:75,57:75:2688:57:1968:-137.657,0,-202.429 0/1:123:49,74:49:1760:74:2551:-192.813,0,-121.657 1/1:63:3,60:3:104:60:2135:-182.715,-9.26208,0 1/1:114:0,114:0:0:114:3932:-354.079,-34.3174,0 chr08 4510777 . C G 15507.7 PASS AB=0.495035;ABP=3.31215;AC=13;AF=0.309524;AN=42;AO=879;CIGAR=1X;DP=2640;DPB=2640;DPRA=1.5395;EPP=1911.73;EPPR=3809.61;GTI=0;LEN=1;MEANALT=1.23529;MQM=59.9659;MQMR=59.9994;NS=21;NUMALT=1;ODDS=12.5705;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31266;QR=62888;RO=1757;RPL=0;RPP=1911.73;RPPR=3809.61;RPR=879;RUN=1;SAF=0;SAP=1911.73;SAR=879;SRF=0;SRP=3818.29;SRR=1757;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:52,70:52:1856:70:2498:-188.347,0,-130.594 0/1:85:42,42:42:1504:42:1484:-108.206,0,-110.008 0/1:111:52,59:52:1864:59:2098:-155.674,0,-134.625 0/1:192:108,83:108:3872:83:2972:-209.856,0,-290.818 0/1:347:131,215:131:4676:215:7600:-579.517,0,-316.487 0/0:48:47,1:47:1684:1:36:0,-10.8512,-148.249 0/0:150:148,2:148:5300:2:72:0,-38.3178,-470.298 1/1:171:0,171:0:0:171:6083:-547.573,-51.4761,0 0/1:82:58,24:58:2080:24:845:-51.6802,0,-162.786 0/1:8:4,4:4:144:4:135:-10.0743,0,-10.9054 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/1:44:21,23:21:752:23:828:-61.5988,0,-54.7609 0/0:209:209,0:209:7488:0:0:0,-62.9153,-673.962 0/1:168:86,82:86:3084:82:2948:-214.98,0,-227.215 0/0:250:247,2:247:8826:2:72:0,-68.4796,-787.491 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/0:85:83,2:83:2961:2:72:0,-18.7508,-259.885 0/1:131:70,61:70:2507:61:2172:-156.309,0,-186.447 0/1:120:85,35:85:3028:35:1243:-76.0503,0,-236.625 0/0:176:173,3:173:6198:3:108:0,-42.9061,-547.84 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.161 chr08 4524791 . C A 40254.3 PASS AB=0.613753;ABP=156.651;AC=29;AF=0.690476;AN=42;AO=1923;CIGAR=1X;DP=2514;DPB=2514;DPRA=2.11724;EPP=4161.4;EPPR=1241.12;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9813;MQMR=59.9559;NS=21;NUMALT=1;ODDS=15.4879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68873;QR=21106;RO=590;RPL=2;RPP=4161.4;RPPR=1241.12;RPR=1921;RUN=1;SAF=0;SAP=4178.75;SAR=1923;SRF=0;SRP=1284.18;SRR=590;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:203:84,119:84:3008:119:4238:-320.489,0,-209.842 0/1:121:46,75:46:1633:75:2684:-205.38,0,-110.816 0/1:70:22,48:22:788:48:1699:-132.12,0,-50.1727 0/1:216:100,116:100:3572:116:4156:-309.2,0,-256.666 0/1:267:103,164:103:3692:164:5875:-448.483,0,-252.102 1/1:178:2,176:2:68:176:6326:-562.97,-47.1256,0 1/1:159:0,159:0:0:159:5707:-513.745,-47.8638,0 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/1:239:70,169:70:2508:169:6050:-472.656,0,-154.025 0/1:9:2,7:2:72:7:252:-20.3197,0,-4.12745 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 1/1:186:0,186:0:0:186:6672:-600.555,-55.9916,0 0/1:110:49,61:49:1760:61:2180:-163.349,0,-125.571 1/1:150:0,150:0:0:150:5376:-483.97,-45.1545,0 1/1:147:0,146:0:0:146:5248:-472.235,-43.9504,0 1/1:93:0,93:0:0:93:3323:-299.287,-27.9958,0 0/1:70:31,39:31:1101:39:1387:-104.056,0,-78.3263 0/1:53:14,39:14:504:39:1398:-110.165,0,-29.7435 1/1:120:2,118:2:72:118:4214:-372.603,-29.2869,0 1/1:52:0,52:0:0:52:1872:-168.759,-15.6536,0 chr08 4574470 . A C 24331.5 PASS AB=0.541882;ABP=17.7435;AC=29;AF=0.690476;AN=42;AO=1193;CIGAR=1X;DP=1756;DPB=1756;DPRA=0.706897;EPP=2584.9;EPPR=1225.55;GTI=0;LEN=1;MEANALT=1;MQM=59.9933;MQMR=60;NS=21;NUMALT=1;ODDS=6.33205;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42482;QR=20131;RO=563;RPL=1;RPP=2584.9;RPPR=1225.55;RPR=1192;RUN=1;SAF=0;SAP=2593.58;SAR=1193;SRF=0;SRP=1225.55;SRR=563;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:33,32:33:1184:32:1148:-84.0629,0,-87.3014 0/1:20:15,5:15:521:5:180:-10.5315,0,-41.1957 0/1:98:47,51:47:1683:51:1821:-134.669,0,-122.255 0/1:93:48,45:48:1715:45:1599:-116.204,0,-126.639 0/1:116:60,56:60:2144:56:1992:-144.634,0,-158.308 1/1:50:0,50:0:0:50:1758:-158.5,-15.0515,0 1/1:111:0,111:0:0:111:3953:-355.961,-33.4143,0 0/0:116:116,0:116:4148:0:0:0,-34.9195,-373.504 0/1:132:64,68:64:2300:68:2418:-178.138,0,-167.525 0/1:13:8,5:8:284:5:172:-11.904,0,-21.99 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:19:9,10:9:324:10:360:-27.0247,0,-23.7863 1/1:205:0,205:0:0:205:7343:-660.916,-61.7112,0 0/1:89:47,42:47:1692:42:1484:-107.061,0,-125.775 1/1:98:0,98:0:0:98:3507:-315.84,-29.5009,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:23:0,23:0:0:23:814:-73.5795,-6.92369,0 0/1:168:66,102:66:2368:102:3610:-274.533,0,-162.805 0/1:154:46,108:46:1624:108:3818:-297.456,0,-100.088 1/1:122:3,119:3:108:119:4249:-372.514,-26.6505,0 1/1:38:1,37:1:36:37:1324:-115.864,-7.84087,0 chr08 4574495 . 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G C 31097.5 PASS AB=0.451613;ABP=32.01;AC=29;AF=0.690476;AN=42;AO=1565;CIGAR=1X;DP=2560;DPB=2560;DPRA=0.580542;EPP=3401.36;EPPR=2163.63;GTI=1;LEN=1;MEANALT=1;MQM=59.9335;MQMR=59.9809;NS=21;NUMALT=1;ODDS=3.86621;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55664;QR=35592;RO=995;RPL=1565;RPP=3401.36;RPPR=2163.63;RPR=0;RUN=1;SAF=0;SAP=3401.36;SAR=1565;SRF=0;SRP=2163.63;SRR=995;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:91,43:91:3241:43:1532:-97.8351,0,-251.573 0/1:132:64,68:64:2291:68:2412:-177.599,0,-166.7 0/1:99:52,47:52:1860:47:1688:-122.405,0,-137.878 0/1:111:49,62:49:1760:62:2224:-167.01,0,-125.27 0/1:279:188,91:188:6728:91:3244:-208.195,0,-521.608 1/1:122:4,118:4:144:118:4198:-364.131,-23.412,0 1/1:132:0,132:0:0:132:4689:-422.17,-39.736,0 0/0:203:203,0:203:7288:0:0:0,-61.1091,-655.968 0/1:259:124,135:124:4428:135:4808:-354.909,0,-320.726 0/1:31:19,12:19:672:12:432:-29.8893,0,-51.4749 1/1:16:0,16:0:0:16:560:-50.7143,-4.81648,0 0/1:50:23,27:23:824:27:964:-72.0191,0,-59.4318 1/1:154:1,153:1:36:153:5430:-485.23,-42.7603,0 0/1:120:62,58:62:2209:58:2026:-146.485,0,-162.95 1/1:212:0,212:0:0:212:7551:-679.627,-63.8184,0 1/1:96:1,95:1:36:95:3385:-301.267,-25.3006,0 1/1:76:1,75:1:36:75:2680:-237.847,-19.28,0 0/1:115:71,44:71:2540:44:1562:-106.247,0,-194.233 0/1:96:39,57:39:1391:57:2007:-152,0,-96.5894 1/1:74:2,72:2:72:72:2565:-224.257,-15.4395,0 1/1:49:1,48:1:36:48:1707:-150.317,-11.1522,0 chr08 4806215 . T G 15166.9 PASS AB=0.561014;ABP=23.4139;AC=29;AF=0.690476;AN=42;AO=732;CIGAR=1X;DP=1051;DPB=1051;DPRA=1.23171;EPP=1549.4;EPPR=571.548;GTI=0;LEN=1;MEANALT=1;MQM=59.8689;MQMR=31.1317;NS=21;NUMALT=1;ODDS=10.7876;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26109;QR=11341;RO=319;RPL=724;RPP=1523.8;RPPR=571.548;RPR=8;RUN=1;SAF=729;SAP=1566.58;SAR=3;SRF=319;SRP=695.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:12,29:12:424:29:1027:-80.3999,0,-19.0889 0/1:29:12,17:12:420:17:612:-46.6836,0,-23.4128 0/1:97:52,45:52:1832:45:1609:-115.899,0,-105.977 0/1:46:14,32:14:504:32:1139:-88.971,0,-23.6487 0/1:23:8,15:8:288:15:536:-41.6511,0,-14.2665 1/1:66:1,65:1:36:65:2332:-205.782,-16.8872,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 0/0:41:41,0:41:1455:0:0:0,-12.3422,-109.179 0/1:75:39,36:39:1387:36:1288:-93.643,0,-74.1222 0/1:16:7,9:7:252:9:324:-24.6894,0,-13.8325 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:21:10,11:10:356:11:396:-29.6611,0,-19.9888 1/1:62:0,62:0:0:62:2212:-199.342,-18.6639,0 0/1:106:46,60:46:1652:60:2144:-161.319,0,-90.1484 1/1:63:0,63:0:0:63:2248:-202.581,-18.9649,0 1/1:27:0,27:0:0:27:960:-86.7163,-8.12781,0 1/1:22:0,22:0:0:22:784:-70.8839,-6.62266,0 0/1:109:47,62:47:1664:62:2186:-164.134,0,-88.6269 0/1:68:30,38:30:1071:38:1353:-101.598,0,-58.4809 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 1/1:49:0,49:0:0:49:1727:-155.712,-14.7505,0 chr08 4806219 . GTTAAGAGCATTTAAGGCAT GT 1925.39 PASS AB=0.371377;ABP=82.332;AC=12;AF=0.285714;AN=42;AO=241;CIGAR=1M18D1M;DP=981;DPB=764.1;DPRA=1.26528;EPP=526.335;EPPR=1560.15;GTI=0;LEN=18;MEANALT=1.46154;MQM=29.668;MQMR=59.9673;NS=21;NUMALT=1;ODDS=2.17928;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8018;QR=25565;RO=733;RPL=241;RPP=526.335;RPPR=1525.97;RPR=0;RUN=1;SAF=241;SAP=526.335;SAR=0;SRF=729;SRP=1560.15;SRR=4;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:29,9:29:993:9:307:-11.4565,0,-77.8806 0/1:25:17,8:17:600:8:266:-13.1918,0,-46.804 0/1:81:43,37:43:1509:37:1251:-69.0744,0,-111.663 0/1:43:32,11:32:1122:11:373:-15.0979,0,-88.3443 0/1:22:15,7:15:508:7:233:-11.0692,0,-39.4203 0/0:65:63,2:63:2220:2:68:0,-14.8808,-195.38 0/0:48:48,0:48:1660:0:0:0,-14.4494,-149.689 1/1:33:0,33:0:0:33:1093:-82.6831,-9.93399,0 0/1:63:34,29:34:1202:29:969:-50.5889,0,-89.5223 0/0:10:8,1:8:283:1:32:0,-0.240844,-22.9849 0/0:9:9,0:9:312:0:0:0,-2.70927,-28.4151 0/1:21:12,9:12:421:9:311:-17.031,0,-31.9035 0/0:64:64,0:64:2212:0:0:0,-19.2659,-199.349 0/1:96:61,34:61:2122:34:1114:-56.098,0,-162.333 0/0:66:66,0:66:2304:0:0:0,-19.868,-207.625 0/0:27:27,0:27:944:0:0:0,-8.12781,-85.2754 0/0:22:22,0:22:776:0:0:0,-6.62266,-70.1625 0/1:102:60,40:60:2099:40:1320:-70.2368,0,-158.633 0/1:60:38,21:38:1310:21:681:-34.2111,0,-100.08 0/0:36:36,0:36:1249:0:0:0,-10.8371,-112.712 0/0:49:49,0:49:1719:0:0:0,-14.7505,-154.998 chr08 4815259 . C T 15280.7 PASS AB=0.491863;ABP=3.64643;AC=13;AF=0.309524;AN=42;AO=647;CIGAR=1X;DP=2027;DPB=2027;DPRA=1.13656;EPP=15.4988;EPPR=20.0296;GTI=0;LEN=1;MEANALT=1;MQM=59.7821;MQMR=59.9391;NS=21;NUMALT=1;ODDS=7.13988;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23076;QR=49006;RO=1380;RPL=644;RPP=1382.02;RPPR=2828.44;RPR=3;RUN=1;SAF=290;SAP=18.0764;SAR=357;SRF=618;SRP=35.639;SRR=762;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:33,33:33:1167:33:1180:-86.6391,0,-85.4684 0/1:112:64,48:64:2288:48:1705:-120.01,0,-172.466 0/1:38:21,17:21:752:17:612:-43.9743,0,-56.5671 0/1:123:60,63:60:2116:63:2215:-162.573,0,-153.309 0/1:181:92,89:92:3288:89:3186:-232.414,0,-241.651 0/0:97:97,0:97:3460:0:0:0,-29.1999,-311.613 0/0:173:173,0:173:6098:0:0:0,-52.0782,-548.737 1/1:102:0,102:0:0:102:3648:-328.511,-30.7051,0 0/1:150:66,84:66:2356:84:2996:-224.659,0,-167.144 0/1:18:7,11:7:252:11:396:-30.5642,0,-17.6058 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:38:11,27:11:392:27:964:-75.6275,0,-24.1809 0/0:110:110,0:110:3940:0:0:0,-33.1133,-354.792 0/1:102:43,59:43:1519:59:2094:-158.011,0,-106.297 0/0:115:115,0:115:4098:0:0:0,-34.6184,-369.006 0/0:57:57,0:57:2027:0:0:0,-17.1587,-182.702 0/0:52:52,0:52:1828:0:0:0,-15.6536,-164.797 0/1:166:88,78:88:3106:78:2800:-202.264,0,-229.798 0/1:112:77,35:77:2721:35:1244:-78.547,0,-211.418 0/0:107:106,1:106:3772:1:36:0,-28.6119,-336.081 0/0:103:103,0:103:3650:0:0:0,-31.0061,-328.681 chr08 4819339 . C A 11486 PASS AB=0.452174;ABP=14.4341;AC=29;AF=0.690476;AN=42;AO=612;CIGAR=1X;DP=977;DPB=977;DPRA=0.946939;EPP=1331.95;EPPR=793.426;GTI=0;LEN=1;MEANALT=1.05;MQM=42.7663;MQMR=45.4121;NS=21;NUMALT=1;ODDS=0.395044;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21668;QR=12949;RO=364;RPL=0;RPP=1331.95;RPPR=793.426;RPR=612;RUN=1;SAF=0;SAP=1331.95;SAR=612;SRF=0;SRP=793.426;SRR=364;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:79,39:79:2809:39:1383:-87.1995,0,-213.982 0/1:56:28,28:28:989:28:996:-69.7723,0,-70.1292 0/1:35:19,16:19:676:16:572:-40.7235,0,-49.9604 0/1:35:20,15:20:704:15:536:-37.3557,0,-51.4671 0/1:107:46,61:46:1639:61:2192:-161.291,0,-114 1/1:40:0,40:0:0:40:1389:-120.73,-12.0412,0 1/1:67:0,66:0:0:66:2347:-203.086,-19.868,0 0/0:49:49,0:49:1752:0:0:0,-14.7505,-153.726 0/1:91:53,38:53:1889:38:1349:-91.7003,0,-139.94 0/1:22:9,13:9:324:13:460:-33.6816,0,-22.2496 1/1:4:0,4:0:0:4:144:-12.8786,-1.20412,0 0/1:28:7,21:7:252:21:731:-54.0385,0,-14.1655 1/1:18:0,18:0:0:18:648:-57.7704,-5.41854,0 0/1:28:22,6:22:792:6:203:-9.97561,0,-61.7403 1/1:67:0,67:0:0:67:2342:-206.565,-20.169,0 1/1:36:0,36:0:0:36:1261:-112.358,-10.8371,0 1/1:38:0,38:0:0:38:1349:-119.204,-11.4391,0 0/1:45:26,19:26:911:19:684:-44.7521,0,-67.1595 0/1:10:6,4:6:212:4:140:-9.43409,0,-16.2914 1/1:67:0,67:0:0:67:2383:-206.709,-20.169,0 1/1:16:0,16:0:0:16:559:-48.5944,-4.81648,0 chr08 4833398 . AGGG GGGT,AGGT 16572.3 PASS AB=0.430063,0.569937;ABP=23.3605,23.3605;AC=29,13;AF=0.690476,0.309524;AN=42;AO=474,320;CIGAR=1X2M1X,3M1X;DP=795;DPB=795;DPRA=0.81413,1.45763;EPP=1006.4,697.881;EPPR=0;GTI=2;LEN=4,1;MEANALT=1.65,1.92308;MQM=59.8987,59.9438;MQMR=0;NS=21;NUMALT=2;ODDS=1.6767;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=16616,11464;QR=0;RO=0;RPL=3,0;RPP=1006.4,697.881;RPPR=0;RPR=471,320;RUN=1,1;SAF=474,320;SAP=1032.29,697.881;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:45:0,15,30:0:0:15,30:524,1076:-130.738,-88.122,-83.6065,-42.9686,0,-33.9377 1/2:21:0,8,13:0:0:8,13:287,464:-61.5945,-38.1841,-35.7759,-23.7682,0,-19.8549 1/2:49:0,22,27:0:0:22,27:771,968:-141.957,-79.2232,-72.6005,-63.0875,0,-54.9596 1/2:39:0,12,27:0:0:12,27:425,964:-113.568,-78.949,-75.3367,-34.9743,0,-26.8464 1/2:92:0,33,59:0:0:33,59:1179,2108:-268.356,-172.228,-162.294,-96.4844,0,-78.7236 1/1:23:0,23,0:0:0:23,0:816,0:-73.7616,-6.92369,0,-73.7616,-6.92369,-73.7616 1/1:46:0,46,0:0:0:46,0:1618,0:-145.907,-13.8474,0,-145.907,-13.8474,-145.907 2/2:46:0,0,46:0:0:0,46:0,1656:-149.328,-149.328,-149.328,-13.8474,-13.8474,0 1/2:74:0,25,49:0:0:25,49:881,1756:-215.301,-143.574,-136.048,-72.0815,0,-57.331 1/2:4:0,1,3:0:0:1,3:36,104:-11.7405,-8.79971,-8.49868,-3.29724,0,-2.39415 1/1:9:0,9,0:0:0:9,0:316,0:-28.7785,-2.70927,0,-28.7785,-2.70927,-28.7785 1/2:4:0,1,3:0:0:1,3:35,108:-12.0173,-9.17208,-8.87105,-3.1976,0,-2.29451 1/1:34:0,33,1:0:0:33,1:1144,36:-102.903,-9.93399,0,-99.9653,-6.63675,-99.6643 1/2:43:0,22,21:0:0:22,21:776,756:-125.228,-62.0456,-55.4229,-63.5389,0,-57.2172 1/1:50:0,49,0:0:0:49,0:1730,0:-155.673,-14.7505,0,-155.673,-14.7505,-155.673 1/1:29:0,29,0:0:0:29,0:1022,0:-92.292,-8.72987,0,-92.292,-8.72987,-92.292 1/1:14:0,14,0:0:0:14,0:496,0:-44.974,-4.21442,0,-44.974,-4.21442,-44.974 1/2:49:0,25,24:0:0:25,24:849,864:-139.698,-70.8578,-63.3321,-69.1902,0,-61.9655 1/2:59:0,42,17:0:0:42,17:1452,604:-167.546,-49.5731,-36.9298,-118.325,0,-113.208 1/1:23:0,23,0:0:0:23,0:802,0:-72.4971,-6.92369,0,-72.4971,-6.92369,-72.4971 1/1:42:0,42,0:0:0:42,0:1457,0:-131.422,-12.6433,0,-131.422,-12.6433,-131.422 chr08 4866876 . T C 25111.9 PASS AB=0.509628;ABP=3.63749;AC=29;AF=0.690476;AN=42;AO=966;CIGAR=1X;DP=1438;DPB=1438;DPRA=0.837654;EPP=30.2099;EPPR=6.12029;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.48068;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34246;QR=16768;RO=472;RPL=963;RPP=2074.68;RPPR=1027.95;RPR=3;RUN=1;SAF=535;SAP=27.3236;SAR=431;SRF=249;SRP=6.12029;SRR=223;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:48,44:48:1701:44:1548:-111.914,0,-125.679 0/1:62:30,32:30:1076:32:1148:-84.966,0,-78.489 0/1:35:17,18:17:604:18:606:-44.3183,0,-44.1546 0/1:68:41,27:41:1476:27:964:-66.6068,0,-112.666 0/1:96:56,40:56:1980:40:1436:-100.639,0,-149.573 1/1:56:1,55:1:36:55:1951:-172.267,-13.2594,0 1/1:88:0,88:0:0:88:3088:-278.148,-26.4906,0 0/0:81:81,0:81:2891:0:0:0,-24.3834,-260.426 0/1:100:42,58:42:1462:58:2055:-155.118,0,-101.767 0/1:15:6,9:6:212:9:313:-23.9896,0,-14.9093 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 1/1:109:1,108:1:36:108:3845:-342.645,-29.214,0 0/1:53:30,23:30:1061:23:828:-58.8895,0,-79.8448 1/1:84:1,83:1:32:83:2945:-262.084,-22.0872,0 1/1:33:0,33:0:0:33:1168:-105.427,-9.93399,0 1/1:37:2,35:2:72:35:1239:-104.977,-4.30139,0 0/1:117:58,59:58:2060:59:2095:-153.599,0,-150.448 0/1:121:43,78:43:1529:78:2778:-213.836,0,-101.476 1/1:59:4,55:4:144:55:1953:-162.73,-4.44715,0 1/1:108:0,108:0:0:108:3818:-343.815,-32.5112,0 chr08 4878147 . G A 42444.2 PASS AB=0.513694;ABP=5.44867;AC=29;AF=0.690476;AN=42;AO=2064;CIGAR=1X;DP=3039;DPB=3039;DPRA=0.593856;EPP=4484.93;EPPR=2111.52;GTI=0;LEN=1;MEANALT=1;MQM=59.9462;MQMR=59.9631;NS=21;NUMALT=1;ODDS=6.88286;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73398;QR=34781;RO=975;RPL=0;RPP=4484.93;RPPR=2111.52;RPR=2064;RUN=1;SAF=2064;SAP=4484.93;SAR=0;SRF=975;SRP=2120.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:68,80:68:2428:80:2848:-212.007,0,-174.224 0/1:170:91,79:91:3242:79:2812:-202.142,0,-240.81 0/1:139:69,70:69:2480:70:2488:-182.323,0,-181.608 0/1:168:72,96:72:2575:96:3425:-257.886,0,-181.426 0/1:288:147,141:147:5198:141:5032:-366.331,0,-381.264 1/1:52:3,49:3:104:49:1756:-148.551,-5.95075,0 1/1:254:1,253:1:36:253:8983:-804.846,-72.8633,0 0/0:236:236,0:236:8417:0:0:0,-71.0431,-757.533 0/1:194:107,87:107:3824:87:3112:-221.906,0,-285.958 0/1:9:3,6:3:104:6:212:-16.7155,0,-6.99354 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:24:13,11:13:468:11:392:-28.3953,0,-35.2349 1/1:96:0,96:0:0:96:3389:-305.227,-28.8989,0 0/1:202:104,98:104:3717:98:3488:-252.698,0,-273.836 1/1:328:0,328:0:0:328:11629:-1046.49,-98.7378,0 1/1:158:0,158:0:0:158:5594:-503.587,-47.5627,0 1/1:177:3,174:3:108:174:6224:-550.182,-43.2071,0 0/1:89:33,56:33:1180:56:2008:-154.202,0,-79.7164 0/1:66:21,45:21:756:45:1585:-123.068,0,-48.4992 1/1:179:4,175:4:144:175:6201:-544.878,-40.5708,0 1/1:58:0,58:0:0:58:2076:-187.097,-17.4597,0 chr08 4879200 . 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C T 17210.1 PASS AB=0.5323;ABP=10.0241;AC=29;AF=0.690476;AN=42;AO=860;CIGAR=1X;DP=1279;DPB=1279;DPRA=1.17981;EPP=1870.48;EPPR=910.686;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8872;MQMR=59.9785;NS=21;NUMALT=1;ODDS=13.7842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30676;QR=14909;RO=418;RPL=0;RPP=1870.48;RPPR=910.686;RPR=860;RUN=1;SAF=860;SAP=1870.48;SAR=0;SRF=418;SRP=910.686;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:17,35:17:591:35:1237:-95.9787,0,-37.8617 0/1:15:6,9:6:212:9:324:-24.9904,0,-14.9093 0/1:84:43,41:43:1536:41:1460:-106.392,0,-113.247 0/1:86:48,38:48:1712:38:1340:-95.0078,0,-128.477 0/1:117:58,59:58:2072:59:2107:-154.664,0,-151.53 1/1:52:3,49:3:108:49:1756:-148.249,-5.57839,0 1/1:124:0,124:0:0:124:4410:-397.046,-37.3277,0 0/0:52:52,0:52:1856:0:0:0,-15.6536,-167.309 0/1:169:66,103:66:2355:103:3691:-281.5,0,-161.334 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 0/1:43:20,23:20:720:23:828:-61.8998,0,-52.1845 1/1:84:0,84:0:0:84:3008:-270.946,-25.2865,0 0/1:68:36,31:36:1292:31:1095:-78.3297,0,-96.055 1/1:42:0,42:0:0:42:1500:-135.289,-12.6433,0 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 1/1:16:0,16:0:0:16:549:-49.7324,-4.81648,0 0/1:72:41,31:41:1459:31:1107:-78.266,0,-109.931 0/1:56:21,35:21:748:35:1248:-95.7672,0,-50.7876 1/1:68:2,66:2:68:66:2356:-205.214,-14.0123,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 chr08 4895339 . C A 17434.5 PASS AB=0.544174;ABP=16.2477;AC=29;AF=0.690476;AN=42;AO=867;CIGAR=1X;DP=1277;DPB=1277;DPRA=1.25306;EPP=1868.35;EPPR=873.856;GTI=0;LEN=1;MEANALT=1;MQM=59.8881;MQMR=59.9487;NS=21;NUMALT=1;ODDS=14.0036;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30894;QR=14569;RO=409;RPL=2;RPP=1868.35;RPPR=873.856;RPR=865;RUN=1;SAF=867;SAP=1885.68;SAR=0;SRF=409;SRP=891.143;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:17,38:17:604:38:1358:-105.964,0,-38.134 0/1:15:6,9:6:212:9:313:-23.9904,0,-14.9093 0/1:82:42,40:42:1482:40:1440:-105.196,0,-108.989 0/1:88:48,40:48:1720:40:1428:-102.326,0,-128.595 0/1:116:55,61:55:1958:61:2158:-159.564,0,-141.575 1/1:52:3,49:3:108:49:1746:-147.347,-5.57839,0 1/1:124:0,124:0:0:124:4418:-397.762,-37.3277,0 0/0:49:48,0:48:1715:0:0:0,-14.4494,-154.275 0/1:169:65,104:65:2306:104:3717:-283.854,0,-156.856 0/1:12:5,7:5:180:7:248:-19.0518,0,-12.9397 1/1:15:0,15:0:0:15:525:-47.5781,-4.51545,0 0/1:43:20,23:20:712:23:824:-61.539,0,-51.4624 1/1:83:0,83:0:0:83:2961:-266.708,-24.9855,0 0/1:69:35,34:35:1252:34:1200:-87.5325,0,-92.214 1/1:43:0,43:0:0:43:1544:-139.239,-12.9443,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:73:42,31:42:1504:31:1112:-78.4162,0,-113.679 0/1:59:21,38:21:744:38:1342:-103.318,0,-49.5236 1/1:65:2,63:2:72:63:2237:-194.385,-12.7302,0 1/1:28:0,28:0:0:28:991:-89.5035,-8.42884,0 chr08 4895388 . C T 10132.4 PASS AB=0.486789;ABP=4.50208;AC=13;AF=0.309524;AN=42;AO=581;CIGAR=1X;DP=1679;DPB=1679;DPRA=1.50624;EPP=1264.64;EPPR=2387.29;GTI=0;LEN=1;MEANALT=1;MQM=59.6386;MQMR=59.9954;NS=21;NUMALT=1;ODDS=4.58523;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20787;QR=39147;RO=1098;RPL=0;RPP=1264.64;RPPR=2369.95;RPR=581;RUN=1;SAF=0;SAP=1264.64;SAR=581;SRF=2;SRP=2369.95;SRR=1096;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:75,47:75:2666:47:1684:-115.024,0,-203.46 0/1:34:16,18:16:563:18:636:-47.3223,0,-40.7641 0/1:64:35,29:35:1252:29:1031:-73.832,0,-93.7192 0/1:98:52,46:52:1847:46:1648:-119.103,0,-137.008 0/1:182:87,95:87:3089:95:3388:-250.319,0,-223.45 0/0:52:52,0:52:1842:0:0:0,-15.6536,-166.059 0/0:72:72,0:72:2560:0:0:0,-21.6742,-230.645 1/1:96:0,96:0:0:96:3440:-309.014,-28.8989,0 0/1:164:81,83:81:2893:83:2975:-218.606,0,-211.236 0/1:15:7,8:7:252:8:288:-21.752,0,-18.5135 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:39:17,22:17:612:22:779:-58.6873,0,-43.6733 0/0:150:150,0:150:5349:0:0:0,-45.1545,-481.543 0/1:108:43,65:43:1544:65:2330:-177.28,0,-106.742 0/0:111:111,0:111:3988:0:0:0,-33.4143,-359.109 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/0:34:34,0:34:1211:0:0:0,-10.235,-109.296 0/1:89:47,42:47:1662:42:1508:-109.221,0,-123.074 0/1:69:45,24:45:1612:24:864:-57.3115,0,-124.599 0/0:112:106,6:106:3792:6:216:0,-13.9248,-321.688 0/0:31:31,0:31:1093:0:0:0,-9.33193,-98.6777 chr08 4895396 . G A 10185.4 PASS AB=0.477017;ABP=7.50185;AC=13;AF=0.309524;AN=42;AO=569;CIGAR=1X;DP=1683;DPB=1683;DPRA=1.48116;EPP=1136.55;EPPR=2274.45;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.652;MQMR=59.9955;NS=21;NUMALT=1;ODDS=6.69404;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20151;QR=39578;RO=1113;RPL=12;RPP=1136.55;RPPR=2257.64;RPR=557;RUN=1;SAF=0;SAP=1238.58;SAR=569;SRF=2;SRP=2402.52;SRR=1111;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:124:78,46:78:2727:46:1629:-109.552,0,-208.341 0/1:34:16,18:16:567:18:640:-47.6836,0,-41.1257 0/1:64:35,29:35:1260:29:1035:-74.1938,0,-94.4396 0/1:97:53,44:53:1867:44:1557:-111.215,0,-139.106 0/1:175:86,89:86:3092:89:3178:-233.554,0,-225.827 0/0:52:52,0:52:1831:0:0:0,-15.6536,-165.067 0/0:76:76,0:76:2719:0:0:0,-22.8783,-244.949 1/1:96:0,96:0:0:96:3384:-304.696,-28.8989,0 0/1:162:80,82:80:2854:82:2913:-213.629,0,-208.33 0/1:16:8,8:8:288:8:261:-18.9915,0,-21.4509 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:41:19,22:19:684:22:767:-57.0026,0,-49.5481 0/0:152:152,0:152:5377:0:0:0,-45.7566,-484.065 0/1:109:45,64:45:1601:64:2276:-172.191,0,-111.566 0/0:112:112,0:112:3999:0:0:0,-33.7154,-360.1 0/0:29:29,0:29:1027:0:0:0,-8.72987,-92.7422 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/1:88:47,41:47:1667:41:1446:-103.943,0,-123.826 0/1:69:45,24:45:1607:24:849:-55.9568,0,-124.148 0/0:114:107,6:107:3815:6:216:0,-14.5857,-323.755 0/0:30:30,0:30:1052:0:0:0,-9.0309,-94.9877 chr08 4973016 . ATCA GTCG 16856.2 PASS AB=0.455665;ABP=16.8735;AC=29;AF=0.690476;AN=42;AO=851;CIGAR=1X2M1X;DP=1335;DPB=1335;DPRA=1.91324;EPP=1842.26;EPPR=1030.12;GTI=0;LEN=4;MEANALT=1.5;MQM=59.9424;MQMR=59.9937;NS=21;NUMALT=1;ODDS=1.39085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30180;QR=16697;RO=473;RPL=1;RPP=1842.26;RPPR=1030.12;RPR=850;RUN=1;SAF=851;SAP=1850.93;SAR=0;SRF=473;SRP=1030.12;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:33:21,12:21:723:12:415:-27.746,0,-55.4524 0/1:44:23,21:23:825:21:747:-54.2944,0,-61.3284 0/1:46:27,19:27:965:19:662:-46.0554,0,-73.3194 0/1:91:56,35:56:1976:35:1252:-85.5917,0,-150.72 0/1:172:91,79:91:3234:79:2789:-199.674,0,-239.748 1/1:35:0,35:0:0:35:1249:-112.715,-10.5361,0 1/1:121:0,118:0:0:118:4179:-375.973,-35.5215,0 0/0:34:34,0:34:1186:0:0:0,-10.235,-107.042 0/1:161:95,66:95:3369:66:2329:-161.403,0,-254.961 0/1:5:3,2:3:107:2:71:-5.23691,0,-8.47702 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 1/1:75:0,75:0:0:75:2666:-240.186,-22.5773,0 0/1:102:54,47:54:1895:47:1672:-120.002,0,-140.061 1/1:64:0,62:0:0:62:2180:-196.105,-18.6639,0 1/1:41:0,41:0:0:41:1464:-132.055,-12.3422,0 1/1:44:1,43:1:36:43:1526:-134.035,-9.64705,0 0/1:90:44,45:44:1541:45:1591:-116.365,0,-111.867 0/1:60:23,37:23:804:37:1326:-101.581,0,-54.6163 1/1:51:0,49:0:0:49:1752:-157.647,-14.7505,0 1/1:52:0,52:0:0:52:1842:-166.06,-15.6536,0 chr08 4975026 . C T 11559.2 PASS AB=0.501799;ABP=3.04154;AC=13;AF=0.309524;AN=42;AO=661;CIGAR=1X;DP=2033;DPB=2033;DPRA=1.43619;EPP=1438.35;EPPR=2977.93;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.6021;MQMR=59.9613;NS=21;NUMALT=1;ODDS=8.89458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23595;QR=48851;RO=1370;RPL=661;RPP=1438.35;RPPR=2977.93;RPR=0;RUN=1;SAF=0;SAP=1438.35;SAR=661;SRF=0;SRP=2977.93;SRR=1370;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:54,46:54:1940:46:1610:-115.05,0,-144.771 0/1:37:20,17:20:705:17:612:-44.2671,0,-52.6347 0/1:116:52,64:52:1834:64:2285:-170.983,0,-130.417 0/1:147:91,56:91:3245:56:2000:-135.923,0,-248.019 0/1:167:67,100:67:2385:100:3569:-271.132,0,-164.634 0/0:115:115,0:115:4132:0:0:0,-34.6184,-372.062 0/0:164:162,1:162:5777:1:36:0,-45.8294,-516.447 1/1:97:0,97:0:0:97:3473:-311.825,-29.1999,0 0/1:180:91,89:91:3264:89:3142:-228.798,0,-239.795 0/1:14:10,4:10:356:4:144:-9.0992,0,-28.1668 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5054 0/1:38:13,25:13:453:25:900:-69.8819,0,-29.6605 0/0:145:144,0:144:5125:0:0:0,-43.3483,-460.256 0/1:112:38,74:38:1349:74:2664:-205.655,0,-87.9929 0/0:142:142,0:142:5061:0:0:0,-42.7463,-455.636 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:79:34,45:34:1224:45:1612:-121.579,0,-86.6857 0/1:122:84,38:84:2974:38:1368:-86.6928,0,-231.165 0/0:135:130,5:130:4622:5:180:0,-24.087,-399.589 0/0:74:74,0:74:2645:0:0:0,-22.2762,-238.295 chr08 5058936 . C T 4364.77 PASS AB=0.444444;ABP=15.5566;AC=13;AF=0.309524;AN=42;AO=260;CIGAR=1X;DP=856;DPB=856;DPRA=1.1917;EPP=567.593;EPPR=1297.21;GTI=0;LEN=1;MEANALT=1;MQM=59.9885;MQMR=59.9681;NS=21;NUMALT=1;ODDS=7.68903;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9287;QR=21324;RO=596;RPL=0;RPP=567.593;RPPR=1297.21;RPR=260;RUN=1;SAF=260;SAP=567.593;SAR=0;SRF=596;SRP=1297.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:39,26:39:1396:26:924:-63.9107,0,-106.326 0/1:47:25,22:25:896:22:773:-55.7411,0,-66.8119 0/1:25:14,11:14:504:11:392:-28.0943,0,-38.1723 0/1:20:8,12:8:288:12:432:-33.2006,0,-20.2468 0/1:113:63,50:63:2256:50:1788:-127.186,0,-169.287 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.993 1/1:50:0,50:0:0:50:1774:-159.941,-15.0515,0 0/1:46:23,23:23:811:23:828:-60.9967,0,-59.4626 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:15:6,9:6:216:9:324:-24.9904,0,-15.2751 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/1:36:18,18:18:648:18:648:-47.8148,0,-47.8148 0/0:81:81,0:81:2888:0:0:0,-24.3834,-260.157 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/1:55:37,18:37:1323:18:648:-42.0952,0,-102.815 0/1:41:25,16:25:896:16:576:-39.8328,0,-68.6181 0/0:34:33,1:33:1180:1:36:0,-6.63674,-102.91 0/0:51:50,1:50:1782:1:36:0,-11.7543,-157.063 chr08 5058972 . A G 10951.6 PASS AB=0.443311;ABP=27.6302;AC=13;AF=0.309524;AN=42;AO=491;CIGAR=1X;DP=1631;DPB=1631;DPRA=1.40942;EPP=1069.2;EPPR=2474.15;GTI=0;LEN=1;MEANALT=1.125;MQM=60;MQMR=59.978;NS=21;NUMALT=1;ODDS=11.1241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17149;QR=40509;RO=1138;RPL=254;RPP=4.28842;RPPR=8.16993;RPR=237;RUN=1;SAF=254;SAP=4.28842;SAR=237;SRF=595;SRP=8.16993;SRR=543;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:61,34:61:2169:34:1212:-80.7885,0,-166.771 0/1:94:49,45:49:1748:45:1592:-115.273,0,-129.307 0/1:51:30,21:30:1080:21:743:-51.8408,0,-82.1607 0/1:92:54,38:54:1940:38:1334:-92.6636,0,-147.179 0/1:159:87,72:87:3100:72:2502:-177.566,0,-231.362 0/0:51:51,0:51:1817:0:0:0,-15.3525,-163.809 0/0:109:109,0:109:3832:0:0:0,-32.8123,-345.075 1/1:97:0,96:0:0:96:3385:-304.505,-28.8989,0 0/1:58:25,33:25:892:33:1131:-84.6301,0,-63.1399 0/1:14:9,5:9:320:5:180:-12.3376,0,-24.9279 0/0:6:6,0:6:207:0:0:0,-1.80618,-18.9669 0/1:22:8,13:8:284:13:464:-35.4163,0,-19.2225 0/0:68:68,0:68:2420:0:0:0,-20.47,-218.054 0/1:70:30,40:30:1076:40:1378:-103.24,0,-76.0808 0/0:138:137,1:137:4898:1:36:0,-37.9439,-437.373 0/0:46:45,1:45:1592:1:36:0,-10.2491,-139.969 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 0/1:138:77,61:77:2721:61:2082:-146.101,0,-203.591 0/1:89:60,29:60:2143:29:1002:-63.697,0,-166.345 0/0:78:77,1:77:2740:1:36:0,-19.8821,-243.245 0/0:94:93,1:93:3310:1:36:0,-24.6985,-294.52 chr08 5059110 . C G 16030.7 PASS AB=0.461704;ABP=20.8064;AC=13;AF=0.309524;AN=42;AO=811;CIGAR=1X;DP=2712;DPB=2712;DPRA=0.997392;EPP=1764.07;EPPR=4128.81;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.6533;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28714;QR=67754;RO=1900;RPL=77;RPP=1158.76;RPPR=2223.9;RPR=734;RUN=1;SAF=77;SAP=1158.76;SAR=734;SRF=253;SRP=2223.9;SRR=1647;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:213:115,98:115:4105:98:3489:-250.102,0,-305.515 0/1:96:43,53:43:1540:53:1880:-140.577,0,-109.994 0/1:77:43,34:43:1548:34:1215:-86.4764,0,-116.434 0/1:122:61,61:61:2149:61:2136:-155.779,0,-156.948 0/1:212:109,103:109:3859:103:3679:-267.494,0,-283.685 0/0:127:126,1:126:4505:1:36:0,-34.6325,-402.019 0/0:150:149,0:149:5312:0:0:0,-44.8535,-478.003 1/1:156:0,156:0:0:156:5483:-493.598,-46.9607,0 0/1:295:159,136:159:5680:136:4844:-347.31,0,-422.517 0/1:9:2,7:2:72:7:252:-20.3197,0,-4.12745 0/0:12:12,0:12:420:0:0:0,-3.61236,-38.134 0/1:46:20,26:20:716:26:928:-69.9909,0,-50.9203 0/0:170:169,1:169:6046:1:36:0,-47.5768,-540.644 0/1:147:85,62:85:3013:62:2138:-148.43,0,-227.147 0/0:230:230,0:230:8235:0:0:0,-69.2369,-741.158 0/0:127:127,0:127:4536:0:0:0,-38.2308,-408.408 0/0:97:96,1:96:3421:1:36:0,-25.6016,-304.505 0/1:99:60,39:60:2125:39:1389:-95.5058,0,-161.715 0/1:81:55,26:55:1942:26:921:-58.8226,0,-150.671 0/0:118:111,7:111:3972:7:252:0,-12.4926,-334.642 0/0:128:128,0:128:4558:0:0:0,-38.5318,-410.385 chr08 5069164 . AAC GTT,GGT 31311.9 PASS AB=0.525031,0.468864;ABP=7.46725,9.90651;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1013,541;CIGAR=3X,3X;DP=1561;DPB=1561;DPRA=0,1.14398;EPP=2202.71,1177.78;EPPR=0;GTI=1;LEN=3,3;MEANALT=1.95238,2.46154;MQM=59.6525,59.6174;MQMR=0;NS=21;NUMALT=2;ODDS=0.585443;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35260,18126;QR=0;RO=0;RPL=0,0;RPP=2202.71,1177.78;RPPR=0;RPR=1013,541;RUN=1,1;SAF=0,0;SAP=2202.71,1177.78;SAR=1013,541;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:52:0,30,22:0:0:30,22:1026,756:-144.962,-61.7328,-52.7019,-83.5718,0,-76.9491 1/2:9:0,2,7:0:0:2,7:72,242:-25.8874,-20.0094,-19.4073,-6.23466,0,-4.12745 1/2:118:0,58,60:0:0:58,60:2022,2000:-326.645,-162.201,-144.741,-164.785,0,-146.723 1/2:104:0,50,54:0:0:50,54:1749,1791:-287.502,-145.208,-130.156,-142.635,0,-126.379 1/2:101:0,52,48:0:0:52,48:1799,1584:-274.299,-128.106,-112.452,-146.249,0,-131.8 1/1:38:0,37,1:0:0:37,1:1272,28:-114.389,-11.1381,0,-112.172,-8.63941,-111.871 1/1:90:0,90,0:0:0:90,0:3121,0:-280.547,-27.0927,0,-280.547,-27.0927,-280.547 2/2:158:0,1,156:0:0:1,156:21,5243:-471.727,-470.138,-469.837,-46.9607,-45.4067,0 1/2:129:0,65,64:0:0:65,64:2303,2135:-360.754,-173.135,-153.568,-187.962,0,-168.696 1/2:14:0,6,8:0:0:6,8:193,272:-37.9502,-22.4007,-20.5945,-15.8789,0,-13.4706 1/1:5:0,5,0:0:0:5,0:171,0:-15.7255,-1.50515,0,-15.7255,-1.50515,-15.7255 1/2:26:0,11,14:0:0:11,14:393,480:-71.0871,-39.0366,-35.7253,-32.1222,0,-27.9078 1/1:127:0,127,0:0:0:127,0:4438,0:-399.577,-38.2308,0,-399.577,-38.2308,-399.577 1/2:102:0,54,47:0:0:54,47:1874,1584:-280.818,-128.478,-112.223,-152.468,0,-138.319 1/1:134:0,134,0:0:0:134,0:4704,0:-423.515,-40.338,0,-423.515,-40.338,-423.515 1/1:13:0,13,0:0:0:13,0:456,0:-41.3727,-3.91339,0,-41.3727,-3.91339,-41.3727 1/1:15:0,15,0:0:0:15,0:512,0:-46.4005,-4.51545,0,-46.4005,-4.51545,-46.4005 1/2:99:0,57,40:0:0:57,40:1974,1355:-270.222,-109.909,-92.7505,-160.367,0,-148.325 1/2:65:0,45,20:0:0:45,20:1524,656:-176.854,-53.3213,-39.7749,-123.864,0,-117.844 1/1:136:0,135,0:0:0:135,0:4731,0:-425.668,-40.6391,0,-425.668,-40.6391,-425.668 1/1:26:0,26,0:0:0:26,0:905,0:-81.7168,-7.82678,0,-81.7168,-7.82678,-81.7168 chr08 5073443 . A G 64813.1 PASS AB=0.503077;ABP=3.17065;AC=29;AF=0.690476;AN=42;AO=2465;CIGAR=1X;DP=3714;DPB=3714;DPRA=0.63524;EPP=5355.69;EPPR=2704.32;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9801;MQMR=60;NS=21;NUMALT=1;ODDS=2.65423;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87243;QR=44248;RO=1244;RPL=1212;RPP=4.49113;RPPR=9.72022;RPR=1253;RUN=1;SAF=1212;SAP=4.49113;SAR=1253;SRF=653;SRP=9.72022;SRR=591;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:223:111,111:111:3948:111:3934:-287.207,0,-288.475 0/1:146:70,76:70:2477:76:2687:-198.123,0,-179.232 0/1:117:69,48:69:2428:48:1702:-118.114,0,-183.554 0/1:258:134,124:134:4776:124:4379:-316.619,0,-352.331 0/1:306:144,162:144:5127:162:5717:-422.541,0,-369.46 1/1:181:0,181:0:0:181:6436:-579.33,-54.4864,0 1/1:232:1,231:1:32:231:8170:-732.12,-66.6396,0 0/0:271:271,0:271:9646:0:0:0,-81.5791,-868.096 0/1:278:154,124:154:5473:124:4377:-310.42,0,-409.014 0/1:13:10,3:10:352:3:108:-6.16178,0,-28.1048 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:62:29,33:29:1027:33:1171:-87.0328,0,-74.0783 1/1:196:1,194:1:36:194:6862:-614.103,-55.4125,0 0/1:197:111,86:111:3976:86:3043:-214.798,0,-298.727 1/1:290:0,288:0:0:288:10277:-924.573,-86.6966,0 1/1:128:0,128:0:0:128:4541:-408.858,-38.5318,0 1/1:134:0,134:0:0:134:4681:-421.455,-40.338,0 0/1:184:84,100:84:2995:100:3539:-263.33,0,-214.392 0/1:166:52,114:52:1851:114:4023:-312.29,0,-116.898 1/1:214:2,211:2:68:211:7465:-665.432,-58.0149,0 1/1:111:1,110:1:36:110:3879:-345.707,-29.8161,0 chr08 5077222 . A T 8807.77 PASS AB=0.456887;ABP=17.4276;AC=13;AF=0.309524;AN=42;AO=503;CIGAR=1X;DP=1478;DPB=1478;DPRA=1.58757;EPP=1095.26;EPPR=2109.34;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.5825;MQMR=59.9361;NS=21;NUMALT=1;ODDS=3.47886;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17898;QR=34613;RO=970;RPL=4;RPP=1060.79;RPPR=2040.42;RPR=499;RUN=1;SAF=4;SAP=1060.79;SAR=499;SRF=8;SRP=2040.42;SRR=962;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:22,14:22:792:14:489:-33.5018,0,-60.7686 0/1:29:21,8:21:752:8:288:-17.337,0,-59.2764 0/1:137:64,73:64:2287:73:2608:-193.213,0,-164.85 0/1:76:30,46:30:1076:46:1656:-126.438,0,-74.2746 0/1:138:76,62:76:2679:62:2187:-155.527,0,-199.807 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/0:83:83,0:83:2950:0:0:0,-24.9855,-265.734 1/1:93:0,93:0:0:93:3305:-297.662,-27.9958,0 0/1:116:68,48:68:2432:48:1709:-119.173,0,-184.078 0/1:7:2,2:2:72:2:68:-4.90573,0,-5.27277 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:14:8,6:8:279:6:216:-15.5761,0,-21.2331 0/0:129:129,0:129:4618:0:0:0,-38.8329,-415.782 0/1:120:50,70:50:1779:70:2505:-189.554,0,-124.269 0/0:67:67,0:67:2412:0:0:0,-20.169,-217.336 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 0/0:14:14,0:14:495:0:0:0,-4.21442,-44.883 0/1:98:54,44:54:1922:44:1555:-110.72,0,-143.75 0/1:122:87,35:87:3102:35:1240:-75.1726,0,-242.675 0/0:94:93,1:93:3298:1:36:0,-24.6985,-293.439 0/0:44:41,1:41:1472:1:36:0,-9.39779,-129.191 chr08 5133145 . C A 3875.85 PASS AB=0.519288;ABP=4.09926;AC=13;AF=0.309524;AN=42;AO=220;CIGAR=1X;DP=645;DPB=645;DPRA=1.375;EPP=480.734;EPPR=925.886;GTI=0;LEN=1;MEANALT=1;MQM=59.9545;MQMR=60;NS=21;NUMALT=1;ODDS=1.93313;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7908;QR=15210;RO=425;RPL=220;RPP=480.734;RPPR=925.886;RPR=0;RUN=1;SAF=0;SAP=480.734;SAR=220;SRF=0;SRP=925.886;SRR=425;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:6:3,3:3:104:3:108:-8.26899,0,-7.89663 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:32:21,11:21:756:11:396:-26.3498,0,-58.7343 0/1:49:24,25:24:860:25:900:-66.5568,0,-62.9714 0/1:32:17,15:17:597:15:540:-39.3036,0,-44.4232 0/0:29:28,1:28:1008:1:36:0,-5.13159,-87.4381 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 1/1:43:0,43:0:0:43:1536:-138.533,-12.9443,0 0/1:77:27,50:27:972:50:1800:-139.103,0,-64.6186 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:18:10,8:10:360:8:288:-20.8489,0,-27.3258 0/0:65:65,0:65:2323:0:0:0,-19.5669,-209.33 0/1:47:18,29:18:644:29:1044:-80.1264,0,-44.1422 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:44:20,24:20:720:24:864:-64.8372,0,-51.8835 0/1:22:15,7:15:540:7:252:-16.4063,0,-42.3139 0/0:64:63,1:63:2238:1:36:0,-15.6676,-198.082 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 chr08 5137790 . T C 54503.1 PASS AB=0.524968;ABP=11.4682;AC=29;AF=0.690476;AN=42;AO=2071;CIGAR=1X;DP=3065;DPB=3065;DPRA=0.572967;EPP=4500.13;EPPR=2159.28;GTI=0;LEN=1;MEANALT=1.05;MQM=59.1323;MQMR=59.8802;NS=21;NUMALT=1;ODDS=9.50879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73201;QR=35266;RO=993;RPL=995;RPP=9.8896;RPPR=5.3917;RPR=1076;RUN=1;SAF=995;SAP=9.8896;SAR=1076;SRF=513;SRP=5.3917;SRR=480;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:195:89,106:89:3171:106:3724:-276.552,0,-226.882 0/1:113:54,59:54:1932:59:2067:-152.039,0,-140.132 0/1:124:61,63:61:2158:63:2241:-164.362,0,-157.156 0/1:164:83,81:83:2955:81:2888:-210.472,0,-216.812 0/1:273:144,129:144:5108:129:4558:-328.113,0,-377.682 1/1:90:0,90:0:0:90:3172:-285.437,-27.0927,0 1/1:228:0,228:0:0:228:8042:-723.438,-68.6348,0 0/0:246:246,0:246:8697:0:0:0,-74.0534,-782.699 0/1:252:125,127:125:4437:127:4526:-330.819,0,-323.535 0/1:7:2,5:2:72:5:176:-14.0778,0,-4.72951 1/1:10:0,10:0:0:10:356:-32.3772,-3.0103,0 0/1:17:3,14:3:108:14:500:-40.2178,0,-4.95766 1/1:168:1,167:1:36:167:5942:-531.196,-46.9748,0 0/1:105:58,47:58:2075:47:1667:-118.674,0,-155.409 1/1:290:2,287:2:72:287:10140:-905.616,-80.4209,0 1/1:116:1,115:1:36:115:4085:-363.821,-31.3212,0 1/1:68:0,68:0:0:68:2412:-217.264,-20.47,0 0/1:187:82,105:82:2916:105:3699:-276.742,0,-206.221 0/1:125:41,84:41:1457:84:2986:-231.293,0,-93.7952 1/1:167:1,166:1:36:166:5840:-522.105,-46.6737,0 1/1:120:0,120:0:0:120:4180:-376.177,-36.1236,0 chr08 5139228 . GCTA ACTG,ACTA 38365.2 PASS AB=0.564565,0.433433;ABP=39.1819,41.4599;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1278,526;CIGAR=1X2M1X,1X3M;DP=1807;DPB=1807;DPRA=0.988506,1.14775;EPP=2726.28,1102.19;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.85,2.13333;MQM=59.8803,59.9259;MQMR=0;NS=21;NUMALT=2;ODDS=1.94057;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44991,18772;QR=0;RO=0;RPL=7,5;RPP=2717.68,1102.19;RPPR=0;RPR=1271,521;RUN=1,1;SAF=1277,526;SAP=2769.47,1145.2;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:111:0,67,43:0:0:67,43:2385,1544:-320.328,-125.949,-105.78,-194.377,0,-181.433 1/2:61:0,35,26:0:0:35,26:1236,919:-175.854,-75.1994,-64.6633,-101.007,0,-93.1805 1/2:80:0,43,37:0:0:43,37:1501,1328:-230.75,-108.684,-95.7398,-122.42,0,-111.282 1/2:93:0,55,38:0:0:55,38:1938,1364:-269.404,-111.622,-95.0649,-158.138,0,-146.699 1/2:239:0,114,125:0:0:114,125:3989,4483:-690.458,-366.009,-331.691,-324.803,0,-287.174 1/1:88:0,88,0:0:0:88,0:3087,0:-278.059,-26.4906,0,-278.059,-26.4906,-278.059 1/1:134:0,134,0:0:0:134,0:4716,0:-424.601,-40.338,0,-424.601,-40.338,-424.601 2/2:87:0,0,87:0:0:0,87:0,3080:-277.428,-277.428,-277.428,-26.1896,-26.1896,0 1/2:155:0,94,61:0:0:94,61:3304,2184:-447.38,-178.463,-150.166,-269.272,0,-250.909 1/2:5:0,4,1:0:0:4,1:143,36:-14.9552,-3.29724,-2.09312,-12.0173,0,-11.7163 1/1:9:0,9,0:0:0:9,0:323,0:-29.4151,-2.70927,0,-29.4151,-2.70927,-29.4151 1/2:14:0,6,8:0:0:6,8:209,284:-40.4882,-23.4951,-21.6889,-17.3442,0,-14.9359 1/1:62:0,62,0:0:0:62,0:2205,0:-198.705,-18.6639,0,-198.705,-18.6639,-198.705 1/2:108:0,61,46:0:0:61,46:2143,1623:-306.554,-132.134,-113.771,-174.47,0,-160.623 1/1:127:0,126,1:0:0:126,1:4450,32:-400.354,-37.9298,0,-397.776,-35.0315,-397.475 1/1:71:0,71,0:0:0:71,0:2500,0:-225.244,-21.3731,0,-225.244,-21.3731,-225.244 1/1:103:0,103,0:0:0:103,0:3583,0:-322.674,-31.0061,0,-322.674,-31.0061,-322.674 1/2:78:0,46,32:0:0:46,32:1616,1152:-225.881,-94.3572,-80.5098,-131.88,0,-122.247 1/2:55:0,39,16:0:0:39,16:1389,572:-160.208,-46.9969,-35.2568,-113.568,0,-108.752 1/1:91:0,86,4:0:0:86,4:3026,135:-272.242,-25.8886,0,-261.302,-14.9176,-260.098 1/1:36:0,35,1:0:0:35,1:1248,36:-112.265,-10.5361,0,-109.327,-7.23881,-109.026 chr08 5143127 . C T 12865.8 PASS AB=0.462446;ABP=14.4268;AC=13;AF=0.309524;AN=42;AO=520;CIGAR=1X;DP=1740;DPB=1740;DPRA=1.22998;EPP=112.603;EPPR=665.309;GTI=0;LEN=1;MEANALT=1;MQM=51.8173;MQMR=59.5164;NS=21;NUMALT=1;ODDS=12.4715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18544;QR=43072;RO=1220;RPL=412;RPP=388.931;RPPR=581.298;RPR=108;RUN=1;SAF=233;SAP=15.1872;SAR=287;SRF=590;SRP=5.85813;SRR=630;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:57,38:57:2012:38:1356:-92.3846,0,-152.628 0/1:103:60,43:60:2112:43:1544:-107.539,0,-159.304 0/1:48:25,23:25:875:23:824:-59.4962,0,-64.6111 0/1:87:45,42:45:1580:42:1484:-105.801,0,-116.169 0/1:178:74,104:74:2634:104:3705:-276.609,0,-183.721 0/0:102:101,1:101:3558:1:36:0,-27.1158,-316.384 0/0:115:115,0:115:4076:0:0:0,-34.6184,-366.963 1/1:86:0,86:0:0:86:3054:-273.009,-25.8886,0 0/1:113:56,57:56:1986:57:2037:-147.716,0,-144.996 0/1:16:9,7:9:324:7:248:-17.8085,0,-24.6832 0/0:7:7,0:7:252:0:0:0,-2.10721,-22.9835 0/1:16:12,4:12:432:4:144:-8.4689,0,-34.394 0/0:110:109,1:109:3868:1:36:0,-29.5176,-344.705 0/1:93:47,46:47:1671:46:1652:-119.257,0,-122.658 0/0:83:83,0:83:2946:0:0:0,-24.9855,-265.1 0/0:63:63,0:63:2219:0:0:0,-18.9649,-199.954 0/0:55:55,0:55:1936:0:0:0,-16.5566,-174.513 0/1:69:39,30:39:1374:30:1076:-75.0579,0,-103.177 0/1:114:77,37:77:2675:37:1312:-83.6582,0,-206.545 0/0:83:82,1:82:2900:1:36:0,-21.3923,-257.39 0/0:104:104,0:104:3642:0:0:0,-31.3071,-327.983 chr08 5157397 . A G 23361.8 PASS AB=0.494781;ABP=3.23697;AC=29;AF=0.690476;AN=42;AO=1155;CIGAR=1X;DP=1756;DPB=1756;DPRA=0.778302;EPP=2511.06;EPPR=1305.89;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7541;MQMR=59.825;NS=21;NUMALT=1;ODDS=3.30979;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41243;QR=21462;RO=600;RPL=0;RPP=2511.06;RPPR=1305.89;RPR=1155;RUN=1;SAF=1155;SAP=2511.06;SAR=0;SRF=600;SRP=1305.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:23,49:23:813:49:1726:-133.943,0,-51.8149 0/1:67:42,25:42:1512:25:900:-61.152,0,-116.206 0/1:93:57,36:57:2029:36:1290:-88.4077,0,-154.515 0/1:130:55,75:55:1961:75:2692:-203.338,0,-137.612 0/1:97:62,35:62:2232:35:1260:-84.4607,0,-171.944 1/1:97:4,93:4:144:93:3340:-287.213,-15.8863,0 1/1:127:0,127:0:0:127:4513:-406.273,-38.2308,0 0/0:106:106,0:106:3797:0:0:0,-31.9092,-341.924 0/1:185:96,89:96:3425:89:3175:-230.253,0,-252.772 0/1:13:10,3:10:360:3:108:-6.16178,0,-28.8309 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:26:15,11:15:540:11:381:-26.7939,0,-41.1098 1/1:93:0,92:0:0:92:3262:-293.437,-27.6948,0 0/1:88:47,41:47:1684:41:1468:-105.925,0,-124.5 1/1:81:0,81:0:0:81:2908:-261.948,-24.3834,0 1/1:43:0,43:0:0:43:1548:-139.611,-12.9443,0 1/1:35:0,35:0:0:35:1241:-111.992,-10.5361,0 0/1:70:37,33:37:1332:33:1184:-85.7931,0,-99.0879 0/1:117:40,77:40:1417:77:2745:-212.064,0,-92.6044 1/1:130:3,127:3:108:127:4538:-398.497,-29.0587,0 1/1:80:3,77:3:108:77:2748:-237.587,-14.117,0 chr08 5284503 . C A 16922.4 PASS AB=0.515272;ABP=4.53581;AC=29;AF=0.690476;AN=42;AO=832;CIGAR=1X;DP=1294;DPB=1294;DPRA=0.631053;EPP=1775.1;EPPR=997.563;GTI=0;LEN=1;MEANALT=1;MQM=59.9904;MQMR=60;NS=21;NUMALT=1;ODDS=1.00077;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29716;QR=16524;RO=462;RPL=828;RPP=1775.1;RPPR=997.563;RPR=4;RUN=1;SAF=832;SAP=1809.68;SAR=0;SRF=462;SRP=1006.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:47,32:47:1668:32:1144:-79.4881,0,-126.623 0/1:36:19,17:19:684:17:612:-44.5764,0,-51.0532 0/1:81:47,34:47:1680:34:1224:-86.0836,0,-127.104 0/1:43:21,22:21:756:22:758:-55.5899,0,-55.4229 0/1:117:46,71:46:1647:71:2528:-192.549,0,-113.297 1/1:52:0,52:0:0:52:1864:-168.039,-15.6536,0 1/1:69:0,69:0:0:69:2457:-221.383,-20.7711,0 0/0:95:95,0:95:3412:0:0:0,-28.5978,-307.293 0/1:100:49,51:49:1764:51:1808:-132.899,0,-128.941 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:29:17,12:17:612:12:424:-29.7665,0,-46.6836 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 0/1:91:38,53:38:1359:53:1900:-143.884,0,-95.2161 1/1:90:0,90:0:0:90:3232:-291.101,-27.0927,0 1/1:39:0,39:0:0:39:1392:-125.579,-11.7402,0 1/1:44:0,44:0:0:44:1576:-142.131,-13.2453,0 0/1:125:65,60:65:2294:60:2160:-157.038,0,-169.09 0/1:42:9,33:9:324:33:1173:-93.2323,0,-16.8626 1/1:71:2,69:2:72:69:2472:-215.889,-14.5364,0 1/1:47:0,47:0:0:47:1664:-150.045,-14.1484,0 chr08 5284504 . A T 8235.33 PASS AB=0.483444;ABP=4.80788;AC=13;AF=0.309524;AN=42;AO=461;CIGAR=1X;DP=1300;DPB=1300;DPRA=1.4403;EPP=995.392;EPPR=1816.2;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9905;NS=21;NUMALT=1;ODDS=1.32052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16528;QR=30053;RO=839;RPL=460;RPP=995.392;RPPR=1816.2;RPR=1;RUN=1;SAF=461;SAP=1004.06;SAR=0;SRF=839;SRP=1824.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:35,44:35:1251:44:1580:-118.71,0,-89.1129 0/1:38:17,21:17:612:21:756:-56.9281,0,-43.9743 0/1:80:34,46:34:1216:46:1656:-125.246,0,-85.6642 0/1:44:22,22:22:777:22:792:-58.3604,0,-57.005 0/1:115:70,45:70:2486:45:1616:-111.112,0,-189.372 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.759 0/0:72:72,0:72:2592:0:0:0,-21.6742,-233.528 1/1:94:0,94:0:0:94:3367:-303.245,-28.2968,0 0/1:101:50,51:50:1792:51:1813:-133.045,0,-131.158 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:29:12,17:12:428:17:612:-46.6836,0,-30.1289 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/1:92:54,38:54:1944:38:1360:-95.0058,0,-147.541 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.382 0/0:37:37,0:37:1317:0:0:0,-11.1381,-118.83 0/0:45:44,1:44:1580:1:28:0,-10.7466,-139.692 0/1:125:60,65:60:2160:65:2340:-173.23,0,-157.038 0/1:42:33,9:33:1184:9:320:-16.4991,0,-94.2251 0/0:71:70,1:70:2501:1:36:0,-17.7749,-221.734 0/0:48:48,0:48:1713:0:0:0,-14.4494,-154.454 chr08 5290683 . CGCA TGCG,TGCA 11493.2 PASS AB=0.524355,0.469914;ABP=4.80845,5.75419;AC=29,13;AF=0.690476,0.309524;AN=42;AO=373,198;CIGAR=1X2M1X,1X3M;DP=576;DPB=576.25;DPRA=0.879032,1.71538;EPP=812.97,432.962;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.9,2.07143;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.0758842;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=12928,7011;QR=0;RO=0;RPL=373,198;RPP=812.97,432.962;RPPR=0;RPR=0,0;RUN=1,1;SAF=373,198;SAP=812.97,432.962;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:0,20,23:0:0:20,23:700,807:-122.675,-65.7219,-59.7013,-56.9999,0,-50.0762 1/2:20:0,6,14:0:0:6,14:208,491:-57.2118,-40.3067,-38.5005,-17.2528,0,-13.0384 1/2:25:0,14,11:0:0:14,11:500,392:-73.0741,-32.3087,-28.0943,-41.1219,0,-37.8106 1/2:27:0,20,7:0:0:20,7:682,252:-76.2424,-20.9217,-14.9011,-55.6755,0,-53.5683 1/2:68:0,33,34:0:0:33,34:1145,1220:-192.649,-99.5799,-89.6459,-93.1293,0,-82.8943 1/1:17:0,16,0:0:0:16,0:568,0:-51.036,-4.81648,0,-51.036,-4.81648,-51.036 1/1:38:0,38,0:0:0:38,0:1299,0:-117.206,-11.4391,0,-117.206,-11.4391,-117.206 2/2:31:0,0,31:0:0:0,31:0,1099:-99.2195,-99.2195,-99.2195,-9.33193,-9.33193,0 1/2:51:0,29,22:0:0:29,22:1007,769:-144.767,-62.9059,-54.1761,-82.2099,0,-75.5872 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/1:5:0,5,0:0:0:5,0:177,0:-16.277,-1.50515,0,-16.277,-1.50515,-16.277 1/2:13:0,3,10:0:0:3,10:105,356:-37.9126,-29.3709,-28.4679,-8.89288,0,-5.88258 1/1:18:0,17,0:0:0:17,0:583,0:-52.4901,-5.11751,0,-52.4901,-5.11751,-52.4901 1/2:29:0,11,18:0:0:11,18:362,644:-82.1183,-52.8721,-49.5607,-29.5861,0,-24.1675 1/1:42:0,40,2:0:0:40,2:1404,63:-126.34,-12.0412,0,-121.275,-6.66011,-120.673 1/1:15:0,15,0:0:0:15,0:530,0:-48.0324,-4.51545,0,-48.0324,-4.51545,-48.0324 1/1:25:0,24,0:0:0:24,0:831,0:-74.7458,-7.22472,0,-74.7458,-7.22472,-74.7458 1/2:39:0,23,16:0:0:23,16:784,558:-109.334,-45.73,-38.8063,-63.9492,0,-59.1328 1/2:28:0,23,5:0:0:23,5:803,180:-80.3548,-15.0469,-8.12322,-65.6658,0,-64.1606 1/1:12:0,12,0:0:0:12,0:421,0:-38.2247,-3.61236,0,-38.2247,-3.61236,-38.2247 1/1:24:0,23,1:0:0:23,1:783,36:-70.4238,-6.92369,0,-67.4856,-3.62645,-67.1846 chr08 5290989 . AACA GACG,GACA 42632.4 PASS AB=0.469981,0.52439;ABP=11.354,8.51843;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1328,681;CIGAR=1X2M1X,1X3M;DP=2020;DPB=2020;DPRA=1.74371,1.03772;EPP=2886.73,1481.78;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.21053,2.4;MQM=59.9292,59.9824;MQMR=0;NS=21;NUMALT=2;ODDS=7.00573;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47116,24372;QR=0;RO=0;RPL=1328,681;RPP=2886.73,1481.78;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2886.73,1481.78;SAR=1328,681;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:105:0,50,53:0:0:50,53:1768,1892:-298.293,-154.297,-139.245,-144.043,0,-128.089 1/2:66:0,36,30:0:0:36,30:1256,1080:-190.63,-88.4823,-77.6453,-102.502,0,-93.4713 1/2:77:0,33,44:0:0:33,44:1182,1572:-224.923,-128.526,-118.592,-96.7546,0,-83.5093 1/2:216:0,92,122:0:0:92,122:3249,4370:-621.005,-356.422,-328.728,-264.612,0,-227.887 1/2:156:0,68,88:0:0:68,88:2432,3164:-456.8,-258.493,-238.023,-198.666,0,-172.175 1/1:75:0,75,0:0:0:75,0:2644,0:-238.191,-22.5773,0,-238.191,-22.5773,-238.191 1/1:116:0,115,0:0:0:115,0:4107,0:-369.456,-34.6185,0,-369.456,-34.6185,-369.456 2/2:109:0,0,109:0:0:0,109:0,3910:-352.086,-352.086,-352.086,-32.8123,-32.8123,0 1/2:134:0,53,79:0:0:53,79:1887,2816:-383.484,-229.685,-213.73,-153.938,0,-130.157 2/2:6:0,0,6:0:0:0,6:0,216:-19.7905,-19.7905,-19.7905,-1.80618,-1.80618,0 1/1:4:0,4,0:0:0:4,0:135,0:-12.4825,-1.20412,0,-12.4825,-1.20412,-12.4825 1/2:27:0,10,17:0:0:10,17:345,608:-77.9565,-49.9345,-46.9242,-28.3715,0,-23.254 1/1:188:0,187,0:0:0:187,0:6626,0:-596.045,-56.2926,0,-596.045,-56.2926,-596.045 1/2:122:0,69,53:0:0:69,53:2430,1868:-350.275,-152.443,-131.672,-198.184,0,-182.229 1/1:132:0,132,0:0:0:132,0:4666,0:-420.106,-39.736,0,-420.106,-39.736,-420.106 1/1:60:0,57,1:0:0:57,1:2022,36:-181.915,-17.1587,0,-178.977,-14.2096,-178.676 1/1:69:0,66,3:0:0:66,3:2347,108:-211.13,-19.868,0,-202.317,-10.6959,-201.414 1/2:65:0,31,34:0:0:31,34:1106,1220:-190.033,-99.8718,-90.5399,-90.5188,0,-80.2838 1/2:98:0,59,39:0:0:59,39:2115,1404:-287.418,-114.919,-97.1583,-172.858,0,-161.118 1/1:148:0,144,3:0:0:144,3:5112,108:-459.838,-43.3483,0,-451.026,-34.5361,-450.123 1/1:47:0,47,0:0:0:47,0:1687,0:-151.799,-14.1484,0,-151.799,-14.1484,-151.799 chr08 5291079 . T A 25090.2 PASS AB=0.577436;ABP=53.7916;AC=29;AF=0.690476;AN=42;AO=1282;CIGAR=1X;DP=1744;DPB=1744;DPRA=1.84565;EPP=2760.84;EPPR=997.563;GTI=0;LEN=1;MEANALT=1;MQM=41.3978;MQMR=55.2771;NS=21;NUMALT=1;ODDS=15.7897;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45702;QR=16517;RO=462;RPL=3;RPP=2760.84;RPPR=997.563;RPR=1279;RUN=1;SAF=1282;SAP=2786.84;SAR=0;SRF=462;SRP=1006.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:50,61:50:1792:61:2157:-155.549,0,-127.949 0/1:14:11,3:11:396:3:108:-5.53153,0,-31.7313 0/1:82:38,44:38:1364:44:1557:-111.501,0,-98.2772 0/1:71:19,52:19:672:52:1840:-138.739,0,-39.3483 0/1:209:109,100:109:3874:100:3556:-247.752,0,-285.172 1/1:90:0,90:0:0:90:3202:-276.928,-27.0927,0 1/1:97:0,97:0:0:97:3448:-298.437,-29.1999,0 0/0:46:46,0:46:1639:0:0:0,-13.8474,-147.6 0/1:130:58,72:58:2084:72:2568:-188.136,0,-148.526 0/1:21:10,11:10:360:11:396:-28.2947,0,-26.3775 1/1:5:0,5:0:0:5:180:-16.0112,-1.50515,0 0/1:42:12,30:12:424:30:1060:-77.9729,0,-25.7685 1/1:107:0,107:0:0:107:3840:-336.004,-32.2102,0 0/1:85:27,58:27:968:58:2072:-153.234,0,-61.7039 1/1:183:2,181:2:72:181:6480:-558.257,-48.2567,0 1/1:59:0,59:0:0:59:2101:-184.349,-17.7608,0 1/1:49:0,49:0:0:49:1752:-154.197,-14.7505,0 0/1:102:48,54:48:1724:54:1936:-136.989,0,-124.288 0/1:108:30,78:30:1076:78:2792:-211.245,0,-64.5292 1/1:90:2,88:2:72:88:3117:-260.688,-20.2643,0 1/1:43:0,43:0:0:43:1540:-133.164,-12.9443,0 chr08 5291253 . T C 75056.3 PASS AB=0.527935;ABP=19.7526;AC=29;AF=0.690476;AN=42;AO=2882;CIGAR=1X;DP=4215;DPB=4215;DPRA=1.26719;EPP=6252.51;EPPR=2873.72;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9896;MQMR=59.9992;NS=21;NUMALT=1;ODDS=16.6074;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=101761;QR=47269;RO=1330;RPL=1416;RPP=4.89395;RPPR=3.17357;RPR=1466;RUN=1;SAF=1417;SAP=4.74627;SAR=1465;SRF=662;SRP=3.06908;SRR=668;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:254:121,133:121:4284:133:4684:-345.261,0,-309.276 0/1:134:66,68:66:2346:68:2378:-173.936,0,-171.06 0/1:177:86,91:86:3075:91:3217:-236.469,0,-223.696 0/1:242:106,136:106:3757:136:4801:-359.399,0,-265.482 0/1:478:196,279:196:6997:279:9844:-742.566,0,-486.445 1/1:146:0,146:0:0:146:5144:-463.104,-43.9504,0 1/1:188:0,188:0:0:188:6685:-601.728,-56.5936,0 0/0:160:160,0:160:5696:0:0:0,-48.1648,-512.762 0/1:330:165,165:165:5891:165:5810:-423.679,0,-430.961 0/1:28:10,18:10:360:18:640:-49.5005,0,-24.3155 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:52:24,28:24:846:28:991:-73.85,0,-60.8042 1/1:164:0,164:0:0:164:5833:-525.081,-49.3689,0 0/1:258:149,109:149:5276:109:3856:-269.569,0,-397.312 1/1:303:0,303:0:0:303:10765:-968.674,-91.2121,0 1/1:188:0,188:0:0:188:6643:-597.952,-56.5936,0 1/1:222:0,222:0:0:222:7871:-708.419,-66.8287,0 0/1:293:152,141:152:5383:141:4926:-355.296,0,-396.403 0/1:224:88,136:88:3106:136:4732:-358.61,0,-212.338 1/1:208:6,202:6:216:202:7172:-625.751,-42.8237,0 1/1:151:1,150:1:36:150:5229:-467.159,-41.8573,0 chr08 5291262 . 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T A 10195 PASS AB=0.374229;ABP=203.472;AC=9;AF=0.214286;AN=42;AO=555;CIGAR=1X;DP=2866;DPB=2866;DPRA=1.33718;EPP=1199.51;EPPR=2163.44;GTI=0;LEN=1;MEANALT=1;MQM=59.8649;MQMR=59.7727;NS=21;NUMALT=1;ODDS=22.3926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19804;QR=82447;RO=2310;RPL=460;RPP=524.261;RPPR=523.351;RPR=95;RUN=1;SAF=461;SAP=529.989;SAR=94;SRF=1924;SRP=2226.6;SRR=386;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:87,66:87:3112:66:2348:-165.295,0,-234.243 0/1:125:73,52:73:2595:52:1847:-128.878,0,-196.17 0/1:209:141,68:141:5009:68:2421:-155.23,0,-388.044 0/0:77:77,0:77:2751:0:0:0,-23.1793,-247.832 0/0:179:175,4:175:6272:4:144:0,-40.5707,-551.257 0/0:83:82,1:82:2927:1:36:0,-21.3872,-260.066 0/0:170:168,2:168:5970:2:72:0,-44.3384,-530.572 0/1:94:61,33:61:2188:33:1176:-77.8509,0,-168.889 0/1:435:275,160:275:9835:160:5724:-384.216,0,-753.447 0/1:57:30,27:30:1068:27:964:-69.9181,0,-79.2587 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1341 0/1:52:17,35:17:599:35:1252:-97.3315,0,-38.5845 0/0:69:69,0:69:2456:0:0:0,-20.7711,-221.292 0/0:90:89,1:89:3183:1:36:0,-23.4944,-283.095 0/0:141:140,0:140:5007:0:0:0,-42.1442,-450.417 0/0:214:214,0:214:7652:0:0:0,-64.4204,-688.717 0/0:205:205,0:205:7344:0:0:0,-61.7111,-660.986 0/1:228:143,85:143:5080:85:3036:-204.836,0,-388.711 0/1:106:86,20:86:3068:20:712:-32.4975,0,-244.438 0/0:105:104,1:104:3708:1:36:0,-28.0099,-330.325 0/0:65:65,0:65:2303:0:0:0,-19.5669,-207.531 chr08 5296425 . 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A G 27151.5 PASS AB=0.406569;ABP=106.886;AC=29;AF=0.690476;AN=42;AO=1297;CIGAR=1X;DP=2208;DPB=2208;DPRA=0;EPP=2819.41;EPPR=1981.22;GTI=1;LEN=1;MEANALT=1;MQM=59.7147;MQMR=59.9857;NS=21;NUMALT=1;ODDS=11.3354;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46232;QR=32569;RO=911;RPL=53;RPP=2377.87;RPPR=1753.65;RPR=1244;RUN=1;SAF=53;SAP=2377.87;SAR=1244;SRF=27;SRP=1753.65;SRR=884;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:36,32:36:1272:32:1136:-82.0685,0,-94.3101 0/1:132:80,52:80:2825:52:1849:-126.786,0,-214.751 0/1:168:87,81:87:3100:81:2884:-209.217,0,-228.653 0/1:120:87,33:87:3132:33:1184:-70.7447,0,-245.981 0/1:161:85,76:85:3033:76:2707:-195.397,0,-224.733 1/1:49:2,47:2:68:47:1675:-144.571,-8.29276,0 1/1:98:0,98:0:0:98:3500:-315.187,-29.5009,0 0/0:93:92,1:92:3284:1:36:0,-24.3975,-292.179 0/1:258:173,85:173:6212:85:3048:-196.884,0,-481.508 0/1:39:9,30:9:324:30:1072:-85.0458,0,-17.7657 1/1:15:1,14:1:36:14:500:-41.7379,-0.917175,0 0/1:43:23,20:23:828:20:720:-52.1845,0,-61.8998 1/1:126:0,126:0:0:126:4489:-404.159,-37.9298,0 0/1:115:85,30:85:3056:30:1056:-60.7157,0,-240.638 1/1:154:0,154:0:0:154:5504:-495.482,-46.3586,0 1/1:70:0,70:0:0:70:2503:-225.507,-21.0721,0 1/1:65:1,64:1:36:64:2283:-202.119,-15.9687,0 0/1:181:112,69:112:4007:69:2463:-167.308,0,-306.332 0/1:85:36,49:36:1284:49:1727:-130.124,0,-90.2759 1/1:124:2,122:2:72:122:4344:-384.284,-30.491,0 1/1:44:0,44:0:0:44:1552:-139.967,-13.2453,0 chr08 5351453 . AA CG,AG 44707 PASS AB=0.402872,0.593348;ABP=111.418,103.146;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1256,883;CIGAR=2X,1M1X;DP=2146;DPB=2146;DPRA=1.09149,1.33065;EPP=2721.7,1911.74;EPPR=5.18177;GTI=1;LEN=2,1;MEANALT=1.85,2;MQM=59.9108,59.9796;MQMR=60;NS=21;NUMALT=2;ODDS=6.85399;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44483,31501;QR=36;RO=1;RPL=1255,882;RPP=2721.7,1911.74;RPPR=5.18177;RPR=1,1;RUN=1,1;SAF=0,0;SAP=2730.38,1920.42;SAR=1256,883;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:58:0,29,29:0:0:29,29:1018,1030:-167.129,-84.2824,-75.5526,-83.2,0,-74.4701 1/2:113:0,40,73:0:0:40,73:1414,2615:-328.781,-213.623,-201.581,-115.513,0,-93.5379 1/2:168:0,81,87:0:0:81,87:2873,3107:-487.733,-253.667,-229.284,-234.421,0,-208.232 1/2:118:0,33,85:0:0:33,85:1173,3040:-343.831,-248.243,-238.309,-95.944,0,-70.3564 1/2:154:0,71,83:0:0:71,83:2519,2943:-445.349,-240.117,-218.744,-205.587,0,-180.601 1/1:50:0,49,1:0:0:49,1:1703,36:-153.19,-14.7505,0,-150.253,-11.4532,-149.952 1/1:96:0,95,0:0:0:95,0:3355,0:-301.799,-28.5979,0,-301.799,-28.5979,-301.799 2/2:94:0,0,94:0:0:0,94:0,3324:-299.377,-299.377,-299.377,-28.2968,-28.2968,0 1/2:253:0,86,163:0:0:86,163:3047,5839:-724.441,-476.225,-450.336,-248.243,0,-199.175 1/2:38:0,29,9:0:0:29,9:1027,324:-110.449,-26.7966,-18.0667,-84.0113,0,-81.302 1/1:16:0,16,0:0:0:16,0:557,0:-50.4569,-4.81648,0,-50.4569,-4.81648,-50.4569 1/2:43:0,20,23:0:0:20,23:707,824:-125.138,-67.5596,-61.539,-57.9337,0,-51.01 1/1:124:0,124,0:0:0:124,0:4405,0:-396.611,-37.3277,0,-396.611,-37.3277,-396.611 1/2:110:1,26,83:1:36:26,83:920,2948:-311.876,-237.241,-232.352,-71.9927,0,-49.9448 1/1:156:0,156,0:0:0:156,0:5518,0:-496.749,-46.9607,0,-496.749,-46.9607,-496.749 1/1:58:0,57,0:0:0:57,0:2033,0:-182.989,-17.1587,0,-182.989,-17.1587,-182.989 1/1:60:0,58,2:0:0:58,2:2069,72:-186.115,-17.4597,0,-180.24,-11.2251,-179.638 1/2:183:0,70,113:0:0:70,113:2476,4051:-532.413,-330.76,-309.688,-202.008,0,-167.992 1/2:85:0,48,37:0:0:48,37:1702,1312:-245.904,-107.243,-92.7935,-139.016,0,-127.878 1/1:123:0,122,1:0:0:122,1:4352,36:-391.487,-36.7257,0,-388.55,-33.4284,-388.249 1/1:46:0,46,0:0:0:46,0:1615,0:-145.635,-13.8474,0,-145.635,-13.8474,-145.635 chr08 5351578 . TAGA GAGT,GAGA 16078 PASS AB=0.500688,0.495186;ABP=3.01329,3.15666;AC=29,13;AF=0.690476,0.309524;AN=42;AO=921,410;CIGAR=1X2M1X,1X3M;DP=1336;DPB=1336;DPRA=1.31327,1.16033;EPP=2002.94,893.314;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.85,2.15385;MQM=24.6862,31.6659;MQMR=0;NS=21;NUMALT=2;ODDS=7.9034;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32587,12800;QR=0;RO=0;RPL=921,410;RPP=2002.94,893.314;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2002.94,893.314;SAR=921,410;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,17,42:0:0:17,42:608,1328:-127.71,-96.0519,-90.9344,-31.9114,0,-19.2681 1/2:29:0,15,14:0:0:15,14:540,379:-50.2212,-26.5853,-22.0698,-23.8621,0,-19.6477 1/2:123:0,56,66:0:0:56,66:1999,2088:-259.334,-150.807,-133.95,-108.562,0,-88.6944 1/2:38:0,25,13:0:0:25,13:889,424:-78.8809,-31.2497,-23.724,-47.9112,0,-43.9978 1/2:20:0,7,12:0:0:7,12:243,388:-42.0315,-28.1975,-26.0902,-13.772,0,-10.1596 1/1:59:0,59,0:0:0:59,0:2101,0:-113.955,-17.7608,0,-113.955,-17.7608,-113.955 1/1:87:0,87,0:0:0:87,0:3082,0:-165.998,-26.1896,0,-165.998,-26.1896,-165.998 2/2:49:0,0,49:0:0:0,49:0,1454:-117.862,-117.862,-117.862,-14.7505,-14.7505,0 1/2:151:0,79,72:0:0:79,72:2752,2398:-341.469,-175.683,-151.901,-166.072,0,-144.398 1/2:26:0,12,14:0:0:12,14:429,425:-53.5752,-30.7765,-27.1641,-23.0577,0,-18.8433 1/1:4:0,4,0:0:0:4,0:143,0:-7.53793,-1.20412,0,-7.53793,-1.20412,-7.53793 1/2:43:0,30,13:0:0:30,13:1061,392:-80.7073,-28.3854,-19.3545,-52.5816,0,-48.6682 1/1:174:0,173,0:0:0:173,0:6125,0:-391.076,-52.0782,0,-391.076,-52.0782,-391.076 1/2:102:0,49,53:0:0:49,53:1743,1665:-216.5,-120.62,-105.869,-96.1479,0,-80.1933 1/1:97:0,96,1:0:0:96,1:3353,32:-218.441,-28.8989,0,-216.133,-26.3008,-215.832 1/1:24:0,24,0:0:0:24,0:853,0:-58.7872,-7.22472,0,-58.7872,-7.22472,-58.7872 1/1:27:0,26,0:0:0:26,0:916,0:-63.5593,-7.82678,0,-63.5593,-7.82678,-63.5593 1/2:78:0,35,43:0:0:35,43:1243,1265:-151.008,-89.5305,-78.9944,-61.7219,0,-48.7776 1/2:58:0,39,18:0:0:39,18:1367,562:-117.217,-40.5076,-28.7674,-76.645,0,-71.2264 1/1:43:0,43,0:0:0:43,0:1545,0:-88.4282,-12.9443,0,-88.4282,-12.9443,-88.4282 1/1:45:0,45,0:0:0:45,0:1595,0:-87.5631,-13.5464,0,-87.5631,-13.5464,-87.5631 chr08 5357863 . CTGCG TTGTA,TTGCG 63714.2 PASS AB=0.356447,0.636103;ABP=315.355,283.777;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1797,1248;CIGAR=1X2M2X,1X4M;DP=3059;DPB=3059.6;DPRA=1.10871,1.77015;EPP=3896.47,2704.33;EPPR=5.18177;GTI=1;LEN=5,1;MEANALT=2.35,2.6875;MQM=47.4224,59.9295;MQMR=60;NS=21;NUMALT=2;ODDS=4.27653;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=52,52;PQR=0;PRO=0;QA=63696,44669;QR=36;RO=1;RPL=1796,1247;RPP=3896.47,2704.33;RPPR=5.18177;RPR=1,1;RUN=1,1;SAF=1797,1248;SAP=3905.15,2713.01;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:207:0,65,139:0:0:65,139:2306,4979:-592.196,-406.058,-386.491,-186.137,0,-144.294 1/2:194:0,66,128:0:0:66,128:2332,4549:-556.411,-370.756,-350.888,-186.004,0,-147.472 1/2:104:0,37,65:0:0:37,65:1302,2332:-295.397,-190.33,-179.192,-105.173,0,-85.6064 1/2:273:0,109,163:0:0:109,163:3871,5851:-789.469,-477.274,-444.461,-312.193,0,-263.125 1/2:217:0,58,158:0:0:58,158:2063,5657:-627.754,-461.431,-443.971,-166.425,0,-118.862 1/1:96:0,96,0:0:0:96,0:3398,0:-300.546,-28.8989,0,-300.546,-28.8989,-300.546 1/1:165:0,164,1:0:0:164,1:5835,36:-515.372,-49.3689,0,-512.435,-46.0717,-512.134 2/2:132:1,0,131:1:36:0,131:0,4703:-419.748,-420.049,-422.986,-36.1377,-39.4349,0 1/2:276:0,109,163:0:0:109,163:3871,5860:-790.551,-478.119,-445.307,-312.482,0,-263.414 1/2:5:0,4,1:0:0:4,1:144,36:-14.9311,-3.29724,-2.09312,-11.9931,0,-11.6921 1/1:4:0,4,0:0:0:4,0:138,0:-12.5491,-1.20412,0,-12.5491,-1.20412,-12.5491 1/2:33:0,13,20:0:0:13,20:457,720:-95.8802,-59.1082,-55.1948,-37.1246,0,-31.104 1/1:159:0,159,0:0:0:159,0:5644,0:-504.831,-47.8638,0,-504.831,-47.8638,-504.831 1/2:226:0,69,156:0:0:69,156:2436,5574:-651.217,-454.403,-433.632,-196.747,0,-149.787 1/1:299:0,297,2:0:0:297,2:10553,72:-941.466,-89.4059,0,-935.592,-83.1712,-934.99 1/1:98:0,98,0:0:0:98,0:3486,0:-312.31,-29.5009,0,-312.31,-29.5009,-312.31 1/1:102:0,102,0:0:0:102,0:3617,0:-323.429,-30.7051,0,-323.429,-30.7051,-323.429 1/2:106:0,45,61:0:0:45,61:1599,2181:-306.13,-178.192,-164.645,-128.291,0,-109.928 1/2:104:0,47,56:0:0:47,56:1653,1979:-294.08,-161.272,-147.124,-132.905,0,-116.048 1/1:186:0,183,3:0:0:183,3:6449,104:-572.675,-55.0885,0,-564.222,-46.2888,-563.319 1/1:73:0,72,1:0:0:72,1:2542,36:-224.55,-21.6742,0,-221.613,-18.3769,-221.312 chr08 5371053 . T G 0 PASS AB=0.555494;ABP=50.9704;AC=31;AF=0.738095;AN=42;AO=1891;CIGAR=1X;DP=2702;DPB=2702;DPRA=0;EPP=4109.26;EPPR=1761.9;GTI=12;LEN=1;MEANALT=1.04762;MQM=10.0021;MQMR=10.4062;NS=21;NUMALT=1;ODDS=63.8772;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67609;QR=29040;RO=810;RPL=0;RPP=4109.26;RPPR=1761.9;RPR=1891;RUN=1;SAF=1891;SAP=4109.26;SAR=0;SRF=810;SRP=1761.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:217:89,128:89:3188:128:4596:-49.9492,0,-15.6903 0/1:109:54,55:54:1936:55:1968:-16.825,0,-20.6029 0/1:135:55,80:55:1976:80:2849:-31.3588,0,-9.18069 0/1:226:96,130:96:3432:130:4657:-48.9236,0,-18.7334 0/1:355:161,194:161:5765:194:6934:-67.6041,0,-38.8512 1/1:76:0,76:0:0:76:2728:-68.4302,-22.8783,0 1/1:135:0,135:0:0:135:4837:-121.542,-40.6391,0 0/1:299:156,142:156:5604:142:5039:-37.8802,0,-64.2015 1/1:160:11,149:11:396:149:5295:-123.992,-38.1746,0 0/1:15:8,7:8:284:7:252:-1.87827,0,-3.5036 1/1:9:0,9:0:0:9:324:-8.19196,-2.70927,0 0/1:46:21,25:21:756:25:896:-8.72912,0,-7.02863 1/1:116:0,116:0:0:116:4138:-104.343,-34.9195,0 0/1:169:66,103:66:2376:103:3673:-41.892,0,-9.01707 1/1:127:0,127:0:0:127:4564:-114.285,-38.2308,0 1/1:68:0,68:0:0:68:2429:-61.2124,-20.47,0 1/1:67:0,67:0:0:67:2408:-60.3394,-20.169,0 0/1:140:62,78:62:2219:78:2796:-28.0829,0,-18.9065 0/1:82:28,54:28:1000:54:1925:-23.9403,0,-0.768262 1/1:90:3,87:3:108:87:3120:-75.2427,-24.0162,0 1/1:61:0,61:0:0:61:2181:-54.9199,-18.3628,0 chr08 5391437 . GAGAT TAGAC,GAGAC 37966.4 PASS AB=0.547256,0.451982;ABP=28.4589,29.2864;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1230,624;CIGAR=1X3M1X,4M1X;DP=1855;DPB=1855.8;DPRA=3.04167,1.70482;EPP=2673.92,1358.01;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=1.6,1.92308;MQM=59.9528,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.47479;PAIRED=0,0;PAIREDR=0;PAO=4,0;PQA=144,0;PQR=0;PRO=0;QA=43183,22280;QR=36;RO=1;RPL=1230,624;RPP=2673.92,1358.01;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2673.92,1358.01;SAR=1230,624;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,25,12:0:0:25,12:876,432:-106.882,-35.6088,-28.0831,-71.6298,0,-68.0174 1/2:26:0,15,11:0:0:15,11:537,396:-76.4625,-32.6714,-28.156,-44.1501,0,-40.8387 1/2:20:0,13,7:0:0:13,7:461,252:-58.4761,-20.9217,-17.0084,-37.9123,0,-35.8051 1/2:35:0,24,11:0:0:24,11:842,381:-99.8358,-31.3093,-24.0846,-68.8741,0,-65.5627 1/2:75:0,44,31:0:0:44,31:1523,1104:-214.103,-90.3387,-77.0934,-124.116,0,-114.784 1/1:33:0,33,0:0:0:33,0:1157,0:-104.435,-9.93399,0,-104.435,-9.93399,-104.435 1/1:63:0,63,0:0:0:63,0:2203,0:-198.536,-18.9649,0,-198.536,-18.9649,-198.536 2/2:30:0,0,30:0:0:0,30:0,1061:-95.7994,-95.7994,-95.7994,-9.0309,-9.0309,0 1/2:87:0,55,32:0:0:55,32:1937,1148:-251.692,-93.9969,-77.4402,-158.051,0,-148.418 1/2:176:1,94,81:1:36:94,81:3267,2896:-498.495,-233.196,-207.836,-262.656,0,-241.21 1/1:205:0,205,0:0:0:205,0:7216,0:-649.51,-61.7112,0,-649.51,-61.7112,-649.51 1/2:219:0,121,98:0:0:121,98:4254,3508:-632.337,-286.07,-249.645,-346.263,0,-316.762 1/1:62:0,62,0:0:0:62,0:2191,0:-197.457,-18.6639,0,-197.457,-18.6639,-197.457 1/2:34:0,20,14:0:0:20,14:714,500:-99.3318,-41.1218,-35.1012,-58.567,0,-54.3525 1/1:44:0,44,0:0:0:44,0:1541,0:-138.974,-13.2453,0,-138.974,-13.2453,-138.974 1/1:36:0,36,0:0:0:36,0:1267,0:-114.332,-10.8371,0,-114.332,-10.8371,-114.332 1/1:25:0,25,0:0:0:25,0:872,0:-78.4355,-7.52575,0,-78.4355,-7.52575,-78.4355 1/2:574:0,290,284:0:0:290,284:10209,10142:-1657.97,-826.859,-739.56,-831.105,0,-745.612 1/2:29:0,17,12:0:0:17,12:596,424:-83.3821,-34.8841,-29.7665,-48.8501,0,-45.2378 1/1:24:0,24,0:0:0:24,0:826,0:-74.6541,-7.22472,0,-74.6541,-7.22472,-74.6541 1/1:21:0,20,1:0:0:20,1:694,36:-62.4203,-6.0206,0,-59.4823,-2.72336,-59.1812 chr08 5435311 . A T,G 65046.9 PASS AB=0.550353,0.447723;ABP=37.343,40.0173;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2143,887;CIGAR=1X,1X;DP=3033;DPB=3033;DPRA=0.787845,1.0107;EPP=4656.48,1929.11;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.75,2;MQM=59.9958,59.9729;MQMR=0;NS=21;NUMALT=2;ODDS=19.42;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76797,31546;QR=0;RO=0;RPL=0,0;RPP=4656.48,1929.11;RPPR=0;RPR=2143,887;RUN=1,1;SAF=2143,887;SAP=4656.48,1929.11;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:174:0,91,80:0:0:91,80:3256,2845:-497.355,-231.845,-204.452,-265.507,0,-241.424 1/2:81:0,47,34:0:0:47,34:1692,1171:-233.52,-95.4528,-81.3044,-138.418,0,-128.183 1/2:112:0,56,56:0:0:56,56:2012,1978:-325.573,-161.433,-144.576,-164.495,0,-147.638 1/2:287:0,163,124:0:0:163,124:5848,4431:-838.637,-361.633,-312.565,-477.362,0,-440.035 1/2:257:0,151,106:0:0:151,106:5406,3769:-748.356,-307.501,-262.045,-441.212,0,-409.303 1/1:219:0,219,0:0:0:219,0:7814,0:-703.289,-65.9256,0,-703.289,-65.9256,-703.289 1/1:185:0,185,0:0:0:185,0:6656,0:-599.113,-55.6906,0,-599.113,-55.6906,-599.113 2/2:181:0,0,181:0:0:0,181:0,6435:-579.237,-579.237,-579.237,-54.4864,-54.4864,0 1/2:291:0,184,107:0:0:184,107:6583,3800:-846.772,-309.968,-254.579,-537.16,0,-504.95 1/2:22:0,7,15:0:0:7,15:252,536:-64.6221,-44.0594,-41.9522,-20.9217,0,-16.4063 1/1:9:0,9,0:0:0:9,0:320,0:-29.1424,-2.70927,0,-29.1424,-2.70927,-29.1424 1/2:38:0,10,28:0:0:10,28:352,1000:-110.541,-81.8865,-78.8762,-29.0079,0,-20.5791 1/1:230:0,230,0:0:0:230,0:8256,0:-743.045,-69.2369,0,-743.045,-69.2369,-743.045 1/2:134:0,65,69:0:0:65,69:2328,2476:-392.177,-202.322,-182.755,-190.213,0,-169.442 1/1:187:0,186,1:0:0:186,1:6652,36:-598.399,-55.9916,0,-595.462,-52.6943,-595.161 1/1:70:0,68,2:0:0:68,2:2436,72:-219.136,-20.47,0,-213.261,-14.2354,-212.659 1/1:146:0,146,0:0:0:146,0:5230,0:-470.838,-43.9504,0,-470.838,-43.9504,-470.838 1/2:91:0,36,55:0:0:36,55:1296,1968:-266.586,-160.838,-150.001,-106.107,0,-89.5502 1/2:72:0,48,24:0:0:48,24:1724,849:-210.145,-69.504,-55.0545,-140.996,0,-133.771 1/1:176:0,171,5:0:0:171,5:6140,180:-552.337,-51.4761,0,-537.65,-36.4292,-536.145 1/1:71:0,71,0:0:0:71,0:2544,0:-229.211,-21.3731,0,-229.211,-21.3731,-229.211 chr08 5435341 . T C 18475.3 PASS AB=0.451941;ABP=34.5264;AC=13;AF=0.309524;AN=42;AO=896;CIGAR=1X;DP=3021;DPB=3021;DPRA=1.03616;EPP=1065.1;EPPR=2002.98;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9732;MQMR=59.9995;NS=21;NUMALT=1;ODDS=18.0161;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31948;QR=75990;RO=2122;RPL=779;RPP=1065.1;RPPR=2002.98;RPR=117;RUN=1;SAF=896;SAP=1948.65;SAR=0;SRF=2122;SRP=4610.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:181:95,86:95:3378:86:3053:-220.513,0,-249.75 0/1:78:46,32:46:1644:32:1148:-80.1495,0,-124.768 0/1:112:55,57:55:1972:57:2018:-148.176,0,-144.039 0/1:292:163,128:163:5852:128:4574:-323.865,0,-438.83 0/1:254:147,107:147:5265:107:3823:-267.805,0,-397.522 0/0:214:214,0:214:7660:0:0:0,-64.4204,-689.433 0/0:185:185,0:185:6614:0:0:0,-55.6905,-595.339 1/1:179:0,178:0:0:178:6346:-570.873,-53.5833,0 0/1:295:186,109:186:6664:109:3891:-261.311,0,-511.033 0/1:22:7,15:7:252:15:536:-41.9522,0,-16.4063 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:36:9,27:9:324:27:972:-76.9608,0,-18.6688 0/0:224:223,0:223:8020:0:0:0,-67.1297,-721.604 0/1:134:64,70:64:2273:70:2499:-184.824,0,-164.493 0/0:180:179,1:179:6431:1:36:0,-50.5871,-575.275 0/0:67:66,1:66:2372:1:36:0,-16.5707,-210.139 0/0:145:144,1:144:5163:1:36:0,-40.0511,-461.211 0/1:92:37,55:37:1315:55:1944:-147.539,0,-90.9563 0/1:75:51,24:51:1805:24:856:-54.7839,0,-140.153 0/0:179:174,5:174:6231:5:180:0,-37.3323,-544.332 0/0:68:68,0:68:2435:0:0:0,-20.47,-219.405 chr08 5435351 . C T 43990.1 PASS AB=0.547497;ABP=33.5391;AC=29;AF=0.690476;AN=42;AO=2119;CIGAR=1X;DP=3014;DPB=3014;DPRA=0.787222;EPP=4578.34;EPPR=1913.95;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9962;MQMR=59.973;NS=21;NUMALT=1;ODDS=17.8846;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75663;QR=31551;RO=888;RPL=2116;RPP=4578.34;RPPR=1913.95;RPR=3;RUN=1;SAF=2119;SAP=4604.36;SAR=0;SRF=888;SRP=1931.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:84,93:84:2993:93:3312:-245.013,0,-216.319 0/1:82:34,48:34:1190:48:1700:-128.599,0,-82.7191 0/1:111:55,56:55:1944:56:2005:-147.308,0,-141.819 0/1:290:128,162:128:4558:162:5787:-433.646,0,-323.089 0/1:251:107,144:107:3792:144:5164:-389.341,0,-265.921 1/1:217:0,217:0:0:217:7726:-695.375,-65.3235,0 1/1:185:0,185:0:0:185:6610:-594.979,-55.6906,0 0/0:180:179,0:179:6377:0:0:0,-53.8844,-573.662 0/1:296:109,186:109:3905:186:6632:-507.943,0,-262.357 0/1:22:11,7:11:396:7:243:-16.4338,0,-30.2044 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:35:27,8:27:954:8:288:-15.7314,0,-75.6379 1/1:227:0,227:0:0:227:8098:-728.835,-68.3338,0 0/1:131:67,64:67:2373:64:2292:-167.106,0,-174.392 1/1:182:1,181:1:32:181:6470:-579.186,-51.5881,0 1/1:67:2,65:2:72:65:2332:-203.303,-13.3323,0 1/1:147:1,146:1:36:146:5220:-466.338,-40.6531,0 0/1:92:56,36:56:1961:36:1292:-88.889,0,-149.066 0/1:71:22,49:22:788:49:1728:-134.429,0,-49.8717 1/1:174:5,168:5:180:168:6005:-524.009,-35.8527,0 1/1:69:0,69:0:0:69:2471:-222.643,-20.7711,0 chr08 5465316 . TAAAGAAAGA TTTGGAAAAA,TTGGGGAAA 23081.6 PASS AB=0.43054,0.370838;ABP=39.5115,129.222;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1082,378;CIGAR=1M3X4M1X1M,1M3X1M1X2M1D1M;DP=1816;DPB=1736.6;DPRA=1.48898,0.950186;EPP=2309.31,823.827;EPPR=0;GTI=10;LEN=10,9;MEANALT=6.4,6.66667;MQM=38.6876,18.0556;MQMR=0;NS=21;NUMALT=2;ODDS=125.693;PAIRED=0,0;PAIREDR=0;PAO=0.783333,0.783333;PQA=27.8,27.8;PQR=12;PRO=0.333333;QA=37358,13310;QR=0;RO=0;RPL=5,0;RPP=2309.31,823.827;RPPR=0;RPR=1077,378;RUN=1,1;SAF=1082,378;SAP=2352.54,823.827;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,21,14:0:0:21,14:702,480:-73.7699,-19.5125,-13.1909,-54.2579,0,-50.0435 1/2:91:0,36,40:0:0:36,40:1229,1417:-133.141,-41.7019,-30.8648,-91.3977,0,-79.3565 1/2:60:0,28,22:0:0:28,22:949,770:-104.236,-30.6883,-22.2595,-73.5256,0,-66.903 1/2:79:0,29,36:0:0:29,36:1007,1267:-128.809,-50.1541,-41.4242,-78.6665,0,-67.8294 1/2:135:0,56,55:0:0:56,55:1940,1928:-226.441,-75.4328,-58.5751,-151.011,0,-134.455 1/1:68:0,47,1:0:0:47,1:1587,36:-133.02,-14.1484,0,-131.976,-13.1099,-131.675 1/1:189:0,152,1:0:0:152,1:5281,33:-442.584,-45.7566,0,-441.542,-44.7181,-441.241 2/2:59:0,0,52:0:0:0,52:0,1834:-77.8001,-77.8001,-77.8001,-15.6536,-15.6536,0 1/2:123:0,46,47:0:0:46,47:1616,1638:-199.444,-71.8598,-58.0124,-127.591,0,-113.443 1/2:22:0,9,7:0:0:9,7:310,252:-32.3961,-8.34996,-5.64069,-24.0459,0,-21.9387 1/1:12:0,8,0:0:0:8,0:281,0:-23.7171,-2.40824,0,-23.7171,-2.40824,-23.7171 1/2:18:0,11,5:0:0:11,5:378,173:-34.6407,-5.85533,-2.544,-28.7476,0,-27.2425 1/1:132:0,109,0:0:0:109,0:3797,0:-329.207,-32.8123,0,-329.207,-32.8123,-329.207 1/2:95:0,38,32:0:0:38,32:1301,1136:-146.294,-44.5888,-33.1497,-101.704,0,-92.0708 1/1:127:0,108,0:0:0:108,0:3743,0:-324.944,-32.5112,0,-324.944,-32.5112,-324.944 1/1:85:0,71,0:0:0:71,0:2485,0:-218.158,-21.3731,0,-218.158,-21.3731,-218.158 1/1:86:0,66,0:0:0:66,0:2287,0:-200.86,-19.868,0,-200.86,-19.868,-200.86 1/2:139:0,59,45:0:0:59,45:2002,1596:-206.92,-53.9328,-36.172,-152.978,0,-139.432 1/2:66:0,42,20:0:0:42,20:1443,714:-139.156,-27.5272,-14.8839,-111.546,0,-105.525 1/1:96:0,77,0:0:0:77,0:2719,0:-232.009,-23.1793,0,-232.009,-23.1793,-232.009 1/1:91:0,69,1:0:0:69,1:2301,36:-191.509,-20.7711,0,-189.061,-18.3238,-188.76 chr08 5465331 . C A 15264.4 PASS AB=0.461455;ABP=26.781;AC=13;AF=0.309524;AN=42;AO=992;CIGAR=1X;DP=3742;DPB=3742;DPRA=1.45928;EPP=2148.43;EPPR=5970.22;GTI=0;LEN=1;MEANALT=1.0625;MQM=40.2792;MQMR=49.9505;NS=21;NUMALT=1;ODDS=5.41149;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35313;QR=97192;RO=2748;RPL=468;RPP=9.87495;RPPR=27.4876;RPR=524;RUN=1;SAF=469;SAP=9.39338;SAR=523;SRF=1286;SRP=27.4876;SRR=1462;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:173:91,82:91:3239:82:2944:-185.163,0,-235.241 0/1:185:101,84:101:3561:84:2960:-137.347,0,-250.238 0/1:123:70,53:70:2495:53:1872:-93.3332,0,-180.64 0/1:193:102,91:102:3630:91:3222:-163.109,0,-263.779 0/1:291:146,143:146:5166:143:5093:-264.968,0,-366.291 0/0:272:268,4:268:9527:4:144:0,-70.5105,-826.811 0/0:366:365,1:365:12906:1:36:0,-108.68,-1114.59 1/1:132:0,132:0:0:132:4702:-323.958,-39.736,0 0/1:306:146,160:146:5172:160:5681:-327.392,0,-366.574 0/1:41:26,15:26:919:15:536:-19.8443,0,-68.7747 0/0:21:21,0:21:744:0:0:0,-6.32163,-63.6693 0/1:27:17,10:17:573:10:360:-12.4001,0,-42.4112 0/0:224:221,3:221:7832:3:108:0,-60.0105,-678.624 0/1:222:121,101:121:4275:101:3596:-187.089,0,-312.812 0/0:246:244,2:244:8686:2:72:0,-67.2167,-755.869 0/0:131:131,0:131:4625:0:0:0,-39.4349,-409.169 0/0:149:149,0:149:5264:0:0:0,-44.8535,-462.357 0/1:155:89,66:89:3083:66:2376:-64.1979,0,-216.748 0/1:126:81,45:81:2869:45:1611:-76.196,0,-213.375 0/0:195:195,0:195:6828:0:0:0,-58.7008,-595.895 0/0:164:164,0:164:5798:0:0:0,-49.3689,-493.881 chr08 5491727 . G A 17747.8 PASS AB=0.484578;ABP=5.55543;AC=13;AF=0.309524;AN=42;AO=758;CIGAR=1X;DP=2267;DPB=2267;DPRA=1.02803;EPP=29.4117;EPPR=3.25349;GTI=0;LEN=1;MEANALT=1;MQM=58.7876;MQMR=59.9914;NS=21;NUMALT=1;ODDS=6.03887;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26960;QR=53735;RO=1509;RPL=1;RPP=1640.31;RPPR=3271.08;RPR=757;RUN=1;SAF=332;SAP=28.3231;SAR=426;SRF=749;SRP=3.18442;SRR=760;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:44,49:44:1575:49:1748:-129.449,0,-114.045 0/1:84:58,26:58:2067:26:932:-58.8775,0,-161.014 0/1:93:38,55:38:1360:55:1952:-147.807,0,-94.7046 0/1:145:77,68:77:2721:68:2417:-174.122,0,-201.481 0/1:220:98,122:98:3479:122:4344:-323.317,0,-247.094 0/0:94:91,3:91:3256:3:108:0,-18.2216,-283.186 0/0:122:122,0:122:4371:0:0:0,-36.7257,-393.563 1/1:153:0,153:0:0:153:5426:-488.247,-46.0576,0 0/1:186:89,97:89:3172:97:3445:-254.267,0,-229.711 0/1:15:6,9:6:207:9:324:-24.9153,0,-14.4485 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:37:24,13:24:864:13:460:-30.5833,0,-66.9445 0/0:137:137,0:137:4865:0:0:0,-41.2411,-438.003 0/1:118:65,53:65:2320:53:1892:-135.03,0,-173.539 0/0:167:167,0:167:5946:0:0:0,-50.272,-535.248 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/0:49:47,2:47:1684:2:72:0,-7.91375,-145.01 0/1:99:50,49:50:1784:49:1735:-126.568,0,-131.041 0/1:142:86,56:86:3066:56:1997:-137.244,0,-233.422 0/0:104:101,3:101:3591:3:108:0,-21.237,-313.328 0/0:134:134,0:134:4719:0:0:0,-40.338,-424.872 chr08 5491780 . A G 7715.97 PASS AB=0.503876;ABP=3.09447;AC=13;AF=0.309524;AN=42;AO=429;CIGAR=1X;DP=1198;DPB=1198;DPRA=1.05584;EPP=934.572;EPPR=1666.36;GTI=0;LEN=1;MEANALT=1.07143;MQM=57.8089;MQMR=59.983;NS=21;NUMALT=1;ODDS=2.59071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15385;QR=27468;RO=766;RPL=429;RPP=934.572;RPPR=1666.36;RPR=0;RUN=1;SAF=0;SAP=934.572;SAR=429;SRF=0;SRP=1666.36;SRR=766;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:17,32:17:612:32:1148:-88.732,0,-40.663 0/1:40:28,12:28:1004:12:432:-27.1396,0,-78.6347 0/1:55:20,35:20:720:35:1256:-96.6791,0,-48.5717 0/1:67:38,29:38:1364:29:1044:-74.091,0,-102.892 0/1:124:55,69:55:1960:69:2484:-184.89,0,-139.348 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/0:55:54,0:54:1940:0:0:0,-16.2556,-174.516 1/1:101:0,101:0:0:101:3620:-325.711,-30.404,0 0/1:109:49,59:49:1756:59:2116:-157.832,0,-125.453 0/1:8:4,4:4:144:4:144:-10.8292,0,-10.8824 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:20:11,9:11:396:9:320:-23.1068,0,-29.9621 0/0:73:72,0:72:2588:0:0:0,-21.6742,-232.956 0/1:47:28,19:28:1008:19:665:-46.0173,0,-76.8879 0/0:116:116,0:116:4164:0:0:0,-34.9195,-374.941 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.701 0/0:19:18,1:18:632:1:36:0,-2.12129,-53.6085 0/1:60:33,27:33:1184:27:972:-69.6261,0,-88.8065 0/1:66:36,30:36:1288:30:1076:-77.273,0,-96.3556 0/0:48:46,2:46:1648:2:72:0,-7.61786,-141.777 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 chr08 5491806 . TCGT TCGC,CCGC 33230.1 PASS AB=0.542268,0.448454;ABP=18.0629,25.3966;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1074,516;CIGAR=3M1X,1X2M1X;DP=1610;DPB=1610;DPRA=1.24839,0.979015;EPP=2335.17,1123.49;EPPR=0;GTI=2;LEN=1,4;MEANALT=2.4,2.73333;MQM=60,59.9283;MQMR=0;NS=21;NUMALT=2;ODDS=7.09715;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38333,18064;QR=0;RO=0;RPL=0,0;RPP=2335.17,1123.49;RPPR=0;RPR=1074,516;RUN=1,1;SAF=1074,516;SAP=2335.17,1123.49;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,33,36:0:0:33,36:1163,1281:-199.084,-104.396,-94.4621,-94.6825,0,-83.8455 1/2:13:0,4,9:0:0:4,9:144,315:-37.7313,-25.9785,-24.7744,-12.1095,0,-9.40023 1/2:98:0,42,54:0:0:42,54:1492,1901:-276.418,-154.839,-142.196,-121.657,0,-105.402 1/2:85:0,52,33:0:0:52,33:1851,1172:-246.714,-95.8535,-80.1999,-151.216,0,-141.282 1/2:158:0,69,85:0:0:69,85:2451,2939:-438.54,-238.817,-218.046,-199.733,0,-174.146 1/2:42:0,38,4:0:0:38,4:1341,144:-121.299,-12.1095,-0.670357,-109.549,0,-108.345 1/1:112:0,112,0:0:0:112,0:4004,0:-360.55,-33.7154,0,-360.55,-33.7154,-360.55 2/2:62:0,0,62:0:0:0,62:0,2184:-196.825,-196.825,-196.825,-18.6639,-18.6639,0 1/2:223:0,110,112:0:0:110,112:3948,3928:-641.684,-319.642,-286.528,-322.038,0,-288.322 1/2:10:0,6,4:0:0:6,4:216,137:-29.0983,-11.4633,-9.65709,-17.9843,0,-16.7802 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 2/2:17:0,1,16:0:0:1,16:36,558:-50.1885,-47.2504,-46.9494,-4.81648,-1.51924,0 1/1:175:0,175,0:0:0:175,0:6250,0:-562.595,-52.6803,0,-562.595,-52.6803,-562.595 1/2:122:0,75,47:0:0:75,47:2679,1621:-349.897,-131.468,-108.89,-218.777,0,-204.629 1/1:62:0,62,0:0:0:62,0:2198,0:-198.085,-18.6639,0,-198.085,-18.6639,-198.085 1/1:20:0,15,0:0:0:15,0:532,0:-47.8546,-4.51545,0,-47.8546,-4.51545,-47.8546 1/1:38:0,33,1:0:0:33,1:1188,35:-106.89,-9.93399,0,-104.042,-7.08275,-103.741 1/2:77:0,42,35:0:0:42,35:1508,1222:-222.764,-99.7465,-87.1033,-123.371,0,-112.835 1/2:72:0,55,16:0:0:55,16:1976,555:-206.417,-45.2046,-28.648,-161.306,0,-156.49 1/1:94:0,93,0:0:0:93,0:3316,0:-298.426,-27.9958,0,-298.426,-27.9958,-298.426 1/1:56:0,53,2:0:0:53,2:1896,72:-170.558,-15.9546,0,-164.683,-10.0798,-164.081 chr08 5505324 . G A 24857.1 PASS AB=0.488455;ABP=4.31395;AC=28;AF=0.666667;AN=42;AO=1232;CIGAR=1X;DP=1898;DPB=1898;DPRA=1.06647;EPP=2678.26;EPPR=1447.04;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8693;MQMR=59.9789;NS=21;NUMALT=1;ODDS=0.23251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44100;QR=23785;RO=665;RPL=1232;RPP=2678.26;RPPR=1447.04;RPR=0;RUN=1;SAF=0;SAP=2678.26;SAR=1232;SRF=0;SRP=1447.04;SRR=665;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:36,38:36:1292:38:1356:-100.064,0,-94.3075 0/1:59:39,20:39:1396:20:701:-45.651,0,-108.175 0/1:97:53,44:53:1896:44:1572:-112.572,0,-141.718 0/1:160:95,65:95:3396:65:2328:-161.558,0,-257.691 0/1:215:126,89:126:4508:89:3188:-222.15,0,-341.165 0/1:35:4,31:4:144:31:1102:-88.3246,0,-2.77757 1/1:88:0,88:0:0:88:3148:-283.545,-26.4906,0 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.549 0/1:168:91,77:91:3241:77:2768:-198.788,0,-241.338 0/1:18:10,8:10:360:8:280:-20.1208,0,-27.3258 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:42:13,29:13:468:29:1028:-80.1336,0,-29.8164 1/1:303:0,303:0:0:303:10857:-977.027,-91.2121,0 0/1:63:29,34:29:1044:34:1224:-91.4998,0,-75.3099 1/1:107:1,106:1:36:106:3800:-338.599,-28.6119,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 1/1:41:0,41:0:0:41:1450:-130.796,-12.3422,0 0/1:117:56,61:56:1988:61:2192:-162.325,0,-143.971 0/1:78:24,54:24:860:54:1940:-151.396,0,-54.2415 1/1:72:2,70:2:72:70:2510:-219.287,-14.8374,0 1/1:51:1,49:1:36:49:1756:-153.788,-11.8131,0 chr08 5526226 . AGGAT GGGAT,GGGAC 20483.6 PASS AB=0.496933,0.496933;ABP=3.05027,3.05027;AC=29,13;AF=0.690476,0.309524;AN=42;AO=686,287;CIGAR=1X4M,1X3M1X;DP=980;DPB=980;DPRA=1.11667,0.980363;EPP=1492.64,626.223;EPPR=0;GTI=1;LEN=1,5;MEANALT=1.95,2.14286;MQM=59.949,59.7979;MQMR=0;NS=21;NUMALT=2;ODDS=0.0218312;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24356,10057;QR=0;RO=0;RPL=0,0;RPP=1492.64,626.223;RPPR=0;RPR=686,287;RUN=1,1;SAF=686,287;SAP=1492.64,626.223;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:27:0,10,17:0:0:10,17:356,603:-78.498,-49.4824,-46.4721,-29.3709,0,-24.2534 1/2:49:0,22,26:0:0:22,26:761,923:-137.173,-75.3364,-68.7137,-61.959,0,-54.1323 1/2:26:0,14,12:0:0:14,12:500,420:-75.2888,-34.5211,-30.3066,-41.1208,0,-37.5085 1/2:75:0,31,42:0:0:31,42:1097,1478:-209.661,-120.311,-110.98,-89.3433,0,-76.7 1/2:67:0,39,28:0:0:39,28:1392,979:-193.479,-79.9931,-68.2529,-113.839,0,-105.41 1/1:33:0,33,0:0:0:33,0:1180,0:-106.508,-9.93399,0,-106.508,-9.93399,-106.508 1/1:72:0,70,1:0:0:70,1:2497,36:-224.622,-21.0721,0,-221.684,-18.1347,-221.383 2/2:42:0,0,42:0:0:0,42:0,1454:-131.15,-131.15,-131.15,-12.6433,-12.6433,0 1/2:49:0,20,29:0:0:20,29:712,1017:-141.111,-83.0786,-77.058,-58.3861,0,-49.6562 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:26:0,10,16:0:0:10,16:352,574:-75.8314,-47.1779,-44.1676,-29.0079,0,-24.1914 1/1:52:0,51,0:0:0:51,0:1798,0:-161.817,-15.3525,0,-161.817,-15.3525,-161.817 1/2:44:0,23,21:0:0:23,21:796,702:-121.813,-57.1685,-50.2448,-64.9842,0,-58.6625 1/1:80:0,79,0:0:0:79,0:2805,0:-252.389,-23.7814,0,-252.389,-23.7814,-252.389 1/1:33:0,33,0:0:0:33,0:1154,0:-104.162,-9.93399,0,-104.162,-9.93399,-104.162 1/1:46:0,45,1:0:0:45,1:1589,36:-142.939,-13.5464,0,-140.001,-10.2491,-139.7 1/2:45:0,18,27:0:0:18,27:644,964:-131.461,-78.9467,-73.5282,-52.8721,0,-44.7442 1/2:77:0,53,24:0:0:53,24:1908,835:-223.928,-68.2364,-52.2818,-156.043,0,-148.818 1/1:44:0,43,0:0:0:43,0:1528,0:-137.453,-12.9443,0,-137.453,-12.9443,-137.453 1/1:82:0,82,0:0:0:82,0:2927,0:-263.665,-24.6845,0,-263.665,-24.6845,-263.665 chr08 5588019 . TTGGTA CTGATG,TTGGTG 57476 PASS AB=0.619504,0.371703;ABP=158.192,181.868;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2221,529;CIGAR=1X2M1X1M1X,5M1X;DP=2779;DPB=2779;DPRA=2.15556,0.741734;EPP=4722.18,1125.81;EPPR=0;GTI=1;LEN=6,1;MEANALT=2.95,3.14286;MQM=53.4012,59.9338;MQMR=0;NS=21;NUMALT=2;ODDS=7.42864;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76907,18793;QR=0;RO=0;RPL=2209,526;RPP=4722.18,1125.81;RPPR=0;RPR=12,3;RUN=1,1;SAF=2221,529;SAP=4825.85,1151.72;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,42,45:0:0:42,45:1458,1612:-250.236,-131.824,-119.18,-118.764,0,-105.218 1/2:183:0,106,76:0:0:106,76:3738,2708:-523.297,-220.813,-188.904,-302.567,0,-279.688 1/2:105:0,71,33:0:0:71,33:2502,1175:-299.31,-95.8707,-74.4975,-203.541,0,-193.607 1/2:158:0,110,46:0:0:110,46:3742,1648:-437.144,-134.514,-101.401,-302.735,0,-288.887 1/2:164:0,104,58:0:0:104,58:3561,2045:-454.117,-166.549,-135.241,-287.615,0,-270.155 1/1:132:0,131,0:0:0:131,0:4527,0:-404.84,-39.4349,0,-404.84,-39.4349,-404.84 1/1:254:0,252,0:0:0:252,0:8686,0:-777.609,-75.8596,0,-777.609,-75.8596,-777.609 2/2:63:0,0,60:0:0:0,60:0,2136:-192.085,-192.085,-192.085,-18.0618,-18.0618,0 1/2:214:0,129,83:0:0:129,83:4464,2954:-601.673,-240.782,-201.949,-360.917,0,-335.931 1/2:17:0,13,3:0:0:13,3:436,108:-44.1276,-8.86711,-4.95372,-35.3103,0,-34.4073 1/1:9:0,8,0:0:0:8,0:272,0:-24.416,-2.40824,0,-24.416,-2.40824,-24.416 1/2:32:0,21,11:0:0:21,11:746,392:-92.9819,-32.3087,-25.9871,-61.0288,0,-57.7175 1/1:192:0,190,0:0:0:190,0:6555,0:-588.587,-57.1957,0,-588.587,-57.1957,-588.587 1/2:113:0,86,26:0:0:86,26:2997,915:-317.281,-74.5562,-48.6676,-242.793,0,-234.966 1/1:204:0,202,0:0:0:202,0:7046,0:-633.125,-60.8081,0,-633.125,-60.8081,-633.125 1/1:145:0,142,1:0:0:142,1:4902,36:-440.425,-42.7463,0,-437.488,-39.7819,-437.187 1/1:259:0,256,0:0:0:256,0:8889,0:-797.481,-77.0637,0,-797.481,-77.0637,-797.481 1/2:90:0,30,59:0:0:30,59:1033,2066:-251.717,-168.087,-159.056,-83.6163,0,-65.8556 1/2:88:0,63,25:0:0:63,25:2187,890:-249.775,-72.8937,-53.9288,-177.234,0,-169.709 1/1:201:0,197,3:0:0:197,3:6827,108:-612.707,-59.3029,0,-603.895,-50.3995,-602.992 1/1:69:0,68,0:0:0:68,0:2339,0:-209.666,-20.47,0,-209.666,-20.47,-209.666 chr08 5588344 . C T 14794.5 PASS AB=0.511127;ABP=4.55661;AC=13;AF=0.309524;AN=42;AO=845;CIGAR=1X;DP=2628;DPB=2628;DPRA=1.28533;EPP=1829.23;EPPR=3837.91;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.6225;MQMR=59.9444;NS=21;NUMALT=1;ODDS=11.4993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29948;QR=61944;RO=1782;RPL=844;RPP=1829.23;RPPR=3837.91;RPR=1;RUN=1;SAF=845;SAP=1837.9;SAR=0;SRF=1782;SRP=3872.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:65,87:65:2237:87:3110:-233.967,0,-155.47 0/1:100:48,52:48:1702:52:1860:-137.467,0,-123.361 0/1:120:55,65:55:1923:65:2328:-173.566,0,-137.218 0/1:172:91,81:91:3223:81:2866:-206.346,0,-238.511 0/1:251:119,132:119:4190:132:4654:-343.379,0,-301.726 0/0:148:148,0:148:5177:0:0:0,-44.5524,-466.074 0/0:211:211,0:211:7306:0:0:0,-63.5173,-657.605 1/1:108:0,108:0:0:108:3807:-342.805,-32.5112,0 0/1:239:113,126:113:3901:126:4472:-330.69,0,-279.234 0/1:22:13,9:13:433:9:315:-22.0646,0,-32.6568 0/0:12:12,0:12:419:0:0:0,-3.61236,-38.0427 0/1:59:27,32:27:935:32:1138:-84.9537,0,-66.6986 0/0:163:163,0:163:5582:0:0:0,-49.0679,-502.5 0/1:160:73,87:73:2525:87:3034:-225.107,0,-179.324 0/0:238:237,1:237:8289:1:36:0,-68.0469,-742.429 0/0:47:47,0:47:1655:0:0:0,-14.1484,-149.234 0/0:107:107,0:107:3731:0:0:0,-32.2102,-335.994 0/1:93:49,44:49:1667:44:1580:-114.387,0,-122.315 0/1:69:49,20:49:1715:20:712:-43.6356,0,-133.863 0/0:108:107,1:107:3704:1:36:0,-28.913,-329.895 0/0:48:48,0:48:1630:0:0:0,-14.4494,-146.981 chr08 5594194 . C A 14734 PASS AB=0.527736;ABP=7.46719;AC=29;AF=0.690476;AN=42;AO=738;CIGAR=1X;DP=1114;DPB=1114;DPRA=0.910345;EPP=1605.56;EPPR=817.312;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9702;MQMR=59.9707;NS=21;NUMALT=1;ODDS=5.53587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26268;QR=13323;RO=375;RPL=0;RPP=1605.56;RPPR=817.312;RPR=738;RUN=1;SAF=738;SAP=1605.56;SAR=0;SRF=375;SRP=817.312;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:42,33:42:1496:33:1180:-83.9308,0,-112.34 0/1:40:26,14:26:928:14:492:-32.5711,0,-71.7971 0/1:45:18,27:18:632:27:956:-72.8094,0,-43.6604 0/1:42:20,22:20:712:22:769:-56.8853,0,-51.7634 0/1:125:65,60:65:2300:60:2126:-153.976,0,-169.631 1/1:34:1,33:1:36:33:1169:-101.917,-6.63675,0 1/1:79:0,79:0:0:79:2817:-253.768,-23.7814,0 0/0:58:58,0:58:2064:0:0:0,-17.4597,-186.031 0/1:103:49,54:49:1733:54:1921:-142.159,0,-125.247 0/1:12:5,7:5:180:7:233:-17.6819,0,-12.9397 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:10:5,5:5:176:5:180:-13.5418,0,-13.1747 1/1:45:0,45:0:0:45:1605:-144.738,-13.5464,0 0/1:56:33,23:33:1180:23:802:-55.6191,0,-89.6504 1/1:105:0,105:0:0:105:3750:-337.7,-31.6082,0 1/1:25:0,25:0:0:25:888:-80.239,-7.52575,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:85:32,53:32:1130:53:1897:-145.421,0,-76.4194 0/1:74:20,54:20:720:54:1931:-151.79,0,-42.8526 1/1:53:1,52:1:36:52:1864:-164.441,-12.3563,0 1/1:21:0,20:0:0:20:720:-64.7689,-6.0206,0 chr08 5616659 . GGCAA TGCAC,TGCAA 129366 PASS AB=0.438464,0.552879;ABP=90.3996,67.5423;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3144,1822;CIGAR=1X3M1X,1X4M;DP=4998;DPB=4999;DPRA=1.18103,1.84541;EPP=6830.12,3950.75;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.95,3.11111;MQM=58.9644,59.7854;MQMR=0;NS=21;NUMALT=2;ODDS=50.7675;PAIRED=0,0;PAIREDR=0;PAO=3,1;PQA=93,34;PQR=0;PRO=0;QA=107527,63571;QR=0;RO=0;RPL=1387,717;RPP=97.5633,182.43;RPPR=0;RPR=1757,1105;RUN=1,1;SAF=1387,718;SAP=97.5633,180.585;SAR=1757,1104;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:237:0,99,132:0:0:99,132:3367,4608:-647.522,-374.711,-344.909,-272.853,0,-233.117 1/2:163:0,61,101:0:0:61,101:2072,3516:-453.716,-285.883,-267.521,-167.816,0,-137.412 1/2:211:0,87,123:0:0:87,123:2978,4310:-592.408,-350.738,-324.548,-241.705,0,-204.679 1/2:306:0,144,161:0:0:144,161:4898,5617:-853.811,-456.664,-413.316,-397.131,0,-348.665 1/2:490:0,232,254:0:0:232,254:7921,8883:-1364.94,-722.332,-652.493,-642.637,0,-566.176 1/1:222:0,220,2:0:0:220,2:7535,68:-677.704,-66.2266,0,-672.257,-60.4744,-671.655 1/1:343:0,342,1:0:0:342,1:11579,36:-1041.1,-102.952,0,-1038.16,-99.655,-1037.86 2/2:203:0,0,203:0:0:0,203:0,7092:-638.226,-638.226,-638.226,-61.1091,-61.1091,0 1/2:389:0,191,190:0:0:191,190:6463,6600:-1060.1,-536.54,-479.044,-523.548,0,-466.352 2/2:147:0,11,133:0:0:11,133:382,4606:-414.033,-382.979,-379.668,-40.037,-8.94629,0 1/1:111:0,108,1:0:0:108,1:3698,36:-332.613,-32.5112,0,-329.675,-29.5655,-329.374 1/2:215:0,50,164:0:0:50,164:1707,5720:-603.645,-465.269,-450.217,-138.428,0,-89.0589 1/1:200:0,198,1:0:0:198,1:6863,36:-617.222,-59.6039,0,-614.285,-56.6157,-613.984 1/2:234:0,109,125:0:0:109,125:3726,4423:-662.926,-360.553,-327.741,-302.66,0,-265.031 1/1:473:0,467,6:0:0:467,6:16117,216:-1449.43,-140.581,0,-1431.81,-122.597,-1430 1/1:152:0,152,0:0:0:152,0:5202,0:-468.043,-45.7566,0,-468.043,-45.7566,-468.043 1/1:136:0,135,0:0:0:135,0:4646,0:-417.841,-40.6391,0,-417.841,-40.6391,-417.841 1/2:232:0,72,160:0:0:72,160:2479,5575:-655.027,-453.709,-432.035,-201.663,0,-153.499 1/2:180:0,120,59:0:0:120,59:4051,2030:-493.049,-164.847,-128.724,-328.184,0,-310.423 1/1:228:0,220,6:0:0:220,6:7524,199:-676.809,-66.2266,0,-660.711,-50.1127,-658.905 1/1:126:0,126,0:0:0:126,0:4319,0:-388.729,-37.9298,0,-388.729,-37.9298,-388.729 chr08 5619792 . CAC CC 25054.5 PASS AB=0.4689;ABP=11.7897;AC=29;AF=0.690476;AN=42;AO=1268;CIGAR=1M1D1M;DP=1982;DPB=1559.33;DPRA=0.585256;EPP=2756.44;EPPR=1518.81;GTI=1;LEN=1;MEANALT=1.2;MQM=59.9132;MQMR=59.9859;NS=21;NUMALT=1;ODDS=0.691898;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44356;QR=24181;RO=710;RPL=0;RPP=2756.44;RPPR=1518.81;RPR=1268;RUN=1;SAF=1268;SAP=2756.44;SAR=0;SRF=710;SRP=1544.76;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:148:102,46:102:3397:46:1610:-100.635,0,-261.399 0/1:64:32,32:32:1090:32:1140:-83.5319,0,-79.1369 0/1:65:33,32:33:1125:32:1078:-77.7536,0,-81.9832 0/1:60:28,32:28:979:32:1116:-82.6774,0,-70.3599 0/1:174:87,87:87:3010:87:3041:-221.542,0,-218.755 1/1:70:1,69:1:33:69:2393:-212.313,-17.773,0 1/1:119:1,118:1:28:118:4132:-369.27,-33.0247,0 0/0:156:156,0:156:5324:0:0:0,-46.9607,-479.315 0/1:178:98,79:98:3332:79:2773:-196.171,0,-246.462 0/1:15:9,6:9:320:6:208:-14.5436,0,-24.6271 1/1:6:0,6:0:0:6:208:-19.0591,-1.80618,0 0/1:59:25,34:25:840:34:1190:-89.6427,0,-58.1474 1/1:84:0,84:0:0:84:2961:-266.724,-25.2865,0 0/1:120:64,55:64:2186:55:1926:-137.473,0,-160.861 1/1:219:0,219:0:0:219:7695:-692.602,-65.9256,0 1/1:61:0,61:0:0:61:2147:-193.498,-18.3628,0 1/1:68:0,67:0:0:67:2347:-211.128,-20.169,0 0/1:90:46,43:46:1575:43:1514:-109.399,0,-114.882 0/1:72:28,44:28:942:44:1512:-114.695,0,-63.4117 1/1:101:0,101:0:0:101:3524:-317.373,-30.404,0 1/1:53:0,53:0:0:53:1841:-165.968,-15.9546,0 chr08 5619813 . C A 50964.7 PASS AB=0.469222;ABP=18.2481;AC=29;AF=0.690476;AN=42;AO=1987;CIGAR=1X;DP=3119;DPB=3119;DPRA=1.00372;EPP=4300.37;EPPR=2445.92;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8817;MQMR=60;NS=21;NUMALT=1;ODDS=7.97288;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70102;QR=39889;RO=1129;RPL=1188;RPP=168.38;RPPR=107.428;RPR=799;RUN=1;SAF=1190;SAP=171.798;SAR=797;SRF=682;SRP=109.228;SRR=447;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:269:164,105:164:5791:105:3708:-252.942,0,-440.334 0/1:58:31,27:31:1095:27:952:-68.2969,0,-81.3994 0/1:135:72,63:72:2539:63:2215:-158.976,0,-188.121 0/1:233:121,112:121:4284:112:4000:-290.042,0,-315.603 0/1:334:171,163:171:6065:163:5789:-420.572,0,-445.414 1/1:65:1,64:1:21:64:2262:-201.724,-17.467,0 1/1:109:0,109:0:0:109:3828:-344.717,-32.8123,0 0/0:148:148,0:148:5220:0:0:0,-44.5524,-469.942 0/1:270:144,123:144:5107:123:4356:-311.485,0,-379.041 0/1:14:9,5:9:324:5:171:-11.511,0,-25.2914 1/1:4:0,4:0:0:4:127:-11.7444,-1.20412,0 0/1:59:26,33:26:910:33:1117:-82.7975,0,-64.4533 1/1:204:0,204:0:0:204:7223:-650.124,-61.4101,0 0/1:264:148,116:148:5226:116:4099:-289.626,0,-391.014 1/1:342:0,342:0:0:342:12071:-1086.25,-102.952,0 1/1:123:0,123:0:0:123:4370:-392.921,-37.0267,0 1/1:131:0,131:0:0:131:4579:-412.276,-39.4349,0 0/1:84:42,42:42:1504:42:1495:-109.556,0,-110.368 0/1:132:52,80:52:1803:80:2830:-215.204,0,-122.813 1/1:90:0,90:0:0:90:3169:-285.433,-27.0927,0 1/1:51:0,51:0:0:51:1741:-156.969,-15.3525,0 chr08 5623185 . G A 10065.8 PASS AB=0.498013;ABP=3.03619;AC=13;AF=0.309524;AN=42;AO=441;CIGAR=1X;DP=1334;DPB=1334;DPRA=1.39663;EPP=4.78785;EPPR=4.29954;GTI=0;LEN=1;MEANALT=1.13333;MQM=58.5669;MQMR=59.8799;NS=21;NUMALT=1;ODDS=4.99796;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15638;QR=31517;RO=891;RPL=439;RPP=943.337;RPPR=1903.2;RPR=2;RUN=1;SAF=209;SAP=5.61508;SAR=232;SRF=453;SRP=3.55865;SRR=438;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:25,20:25:888:20:712:-50.8103,0,-66.6927 0/1:38:15,23:15:528:23:824:-63.0093,0,-36.4122 0/1:57:33,24:33:1172:24:826:-57.4618,0,-88.6288 0/1:45:20,25:20:704:25:883:-64.7798,0,-50.1382 0/1:114:45,69:45:1591:69:2472:-187.943,0,-109.162 0/0:63:60,2:60:2103:2:72:0,-12.1939,-182.703 0/0:106:105,1:105:3734:1:36:0,-28.3146,-332.55 1/1:58:0,58:0:0:58:2038:-183.637,-17.4597,0 0/1:82:37,45:37:1319:45:1603:-119.87,0,-94.3267 0/1:18:7,11:7:244:11:392:-30.1969,0,-16.8809 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:27:11,15:11:388:15:536:-40.3799,0,-27.0715 0/0:69:69,0:69:2443:0:0:0,-20.7711,-220.125 0/1:108:56,52:56:1956:52:1841:-133.378,0,-143.801 0/0:69:69,0:69:2444:0:0:0,-20.7711,-220.215 0/0:32:32,0:32:1127:0:0:0,-9.63296,-101.737 0/0:39:39,0:39:1379:0:0:0,-11.7402,-124.363 0/1:133:62,71:62:2190:71:2515:-186.459,0,-157.328 0/1:88:67,21:67:2384:21:748:-41.126,0,-188.327 0/0:55:51,4:51:1797:4:140:0,-3.61613,-149.066 0/0:84:84,0:84:2982:0:0:0,-25.2865,-268.598 chr08 5656129 . CGT CT,CTT 53268.6 PASS AB=0.521106,0.477438;ABP=8.32677,9.08537;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1726,808;CIGAR=1M1D1M,1M1X1M;DP=2539;DPB=1963.67;DPRA=0.813605,1.43521;EPP=3750.97,1757.56;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.85,2.14286;MQM=59.9884,60;MQMR=0;NS=21;NUMALT=2;ODDS=8.33967;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60753,28812;QR=0;RO=0;RPL=1726,808;RPP=3750.97,1757.56;RPPR=0;RPR=0,0;RUN=1,1;SAF=1726,808;SAP=3750.97,1757.56;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:156:0,78,77:0:0:78,77:2776,2729:-448.56,-222.314,-198.833,-226.242,0,-203.063 1/2:128:0,69,59:0:0:69,59:2432,2124:-371.674,-173.667,-152.896,-198.363,0,-180.603 1/2:105:0,49,56:0:0:49,56:1732,1996:-304.113,-163.056,-148.305,-141.411,0,-124.554 1/2:214:0,99,114:0:0:99,114:3476,4066:-614.345,-331.45,-301.648,-282.889,0,-248.571 1/2:276:0,128,148:0:0:128,148:4429,5251:-788.079,-428.177,-389.646,-360.252,0,-315.699 1/1:57:0,57,0:0:0:57,0:1996,0:-179.912,-17.1587,0,-179.912,-17.1587,-179.912 1/1:202:0,200,0:0:0:200,0:7039,0:-633.221,-60.206,0,-633.221,-60.206,-633.221 2/2:147:0,0,147:0:0:0,147:0,5254:-472.996,-472.996,-472.996,-44.2514,-44.2514,0 1/2:197:0,109,88:0:0:109,88:3848,3145:-570.135,-256.784,-223.972,-313.706,0,-287.216 1/2:18:0,14,4:0:0:14,4:472,144:-50.3403,-12.1095,-7.89508,-38.5856,0,-37.3815 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:42:0,20,22:0:0:20,22:697,775:-120.128,-63.4485,-57.4279,-57.0301,0,-50.4074 1/1:127:0,127,0:0:0:127,0:4471,0:-402.562,-38.2308,0,-402.562,-38.2308,-402.562 1/2:138:0,87,51:0:0:87,51:3059,1828:-398.443,-149.448,-123.259,-249.35,0,-233.998 1/1:223:0,221,2:0:0:221,2:7779,68:-699.811,-66.5276,0,-694.295,-60.672,-693.693 1/1:93:0,93,0:0:0:93,0:3312,0:-298.3,-27.9958,0,-298.3,-27.9958,-298.3 1/1:117:0,117,0:0:0:117,0:4159,0:-374.493,-35.2205,0,-374.493,-35.2205,-374.493 1/2:38:0,24,14:0:0:24,14:841,496:-109.189,-40.7598,-33.5351,-68.7816,0,-64.5672 1/2:62:0,39,23:0:0:39,23:1379,828:-180.231,-67.9204,-56.1803,-112.668,0,-105.744 1/1:139:0,135,3:0:0:135,3:4738,108:-426.248,-40.6391,0,-417.436,-31.7669,-416.532 1/1:54:0,54,0:0:0:54,0:1902,0:-171.457,-16.2556,0,-171.457,-16.2556,-171.457 chr08 5656189 . ACTCC ACTCG,ACTCA 27328.9 PASS AB=0.536481,0.446352;ABP=11.0904,20.4846;AC=29,13;AF=0.690476,0.309524;AN=42;AO=932,389;CIGAR=4M1X,4M1X;DP=1340;DPB=1339.8;DPRA=0.831579,1.06408;EPP=1790.92,763.087;EPPR=0;GTI=1;LEN=1,1;MEANALT=2.25,2.61538;MQM=45.147,32.0283;MQMR=0;NS=21;NUMALT=2;ODDS=4.16912;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33268,13924;QR=0;RO=0;RPL=904,379;RPP=1790.92,763.087;RPPR=0;RPR=28,10;RUN=1,1;SAF=0,0;SAP=2026.82,847.713;SAR=932,389;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,28,25:0:0:28,25:996,892:-140.19,-60.1683,-51.7395,-80.0393,0,-72.5136 1/2:70:0,36,34:0:0:36,34:1292,1220:-189.87,-85.6814,-74.8443,-104.522,0,-94.2871 1/2:50:0,17,33:0:0:17,33:612,1173:-129.437,-80.1995,-75.082,-49.5747,0,-39.6407 1/2:32:0,16,16:0:0:16,16:572,576:-84.2776,-39.4743,-34.6578,-45.1282,0,-40.3117 1/2:127:0,70,55:0:0:70,55:2500,1972:-331.772,-131.915,-110.843,-199.919,0,-183.362 1/1:45:0,45,0:0:0:45,0:1616,0:-144.141,-13.5464,0,-144.141,-13.5464,-144.141 1/1:82:0,81,0:0:0:81,0:2904,0:-257.966,-24.3834,0,-257.966,-24.3834,-257.966 2/2:76:0,0,75:0:0:0,75:0,2692:-204.901,-204.901,-204.901,-22.5773,-22.5773,0 1/2:115:0,58,50:0:0:58,50:2075,1780:-288.701,-122.519,-105.06,-166.281,0,-151.23 1/2:8:0,7,1:0:0:7,1:243,36:-22.2647,-2.75351,-0.646298,-19.8213,0,-19.5202 1/1:4:0,4,0:0:0:4,0:133,0:-12.0249,-1.20412,0,-12.0249,-1.20412,-12.0249 1/2:26:0,16,10:0:0:16,10:567,360:-69.8858,-24.3434,-19.5269,-45.8618,0,-42.8515 1/1:71:0,69,0:0:0:69,0:2467,0:-218.168,-20.7711,0,-218.168,-20.7711,-218.168 1/2:67:0,38,29:0:0:38,29:1351,1031:-178.754,-70.2089,-58.7698,-108.868,0,-100.138 1/1:167:0,167,0:0:0:167,0:5932,0:-526.542,-50.272,0,-526.542,-50.272,-526.542 1/1:28:0,27,0:0:0:27,0:956,0:-84.6682,-8.12781,0,-84.6682,-8.12781,-84.6682 1/1:59:0,59,0:0:0:59,0:2108,0:-186.136,-17.7608,0,-186.136,-17.7608,-186.136 1/2:77:0,39,37:0:0:39,37:1396,1332:-202.99,-90.5976,-78.8574,-112.508,0,-101.37 1/2:73:0,50,22:0:0:50,22:1792,788:-196.035,-53.3495,-38.298,-142.697,0,-136.075 1/1:74:0,71,2:0:0:71,2:2532,72:-222.731,-21.3731,0,-217.836,-16.4069,-217.234 1/1:35:0,34,0:0:0:34,0:1224,0:-108.586,-10.235,0,-108.586,-10.235,-108.586 chr08 5669075 . A G 16509.5 PASS AB=0.548128;ABP=18.0596;AC=29;AF=0.690476;AN=42;AO=820;CIGAR=1X;DP=1237;DPB=1237;DPRA=0.742949;EPP=1774.94;EPPR=897.678;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9878;MQMR=59.9712;NS=21;NUMALT=1;ODDS=3.84042;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29151;QR=14687;RO=416;RPL=818;RPP=1766.29;RPPR=897.678;RPR=2;RUN=1;SAF=819;SAP=1774.94;SAR=1;SRF=416;SRP=906.343;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:38,53:38:1360:53:1908:-144.604,0,-95.3069 0/1:19:10,9:10:337:9:324:-23.7863,0,-24.9351 0/1:76:21,55:21:744:55:1946:-152.534,0,-44.406 0/1:76:35,41:35:1226:41:1464:-109.178,0,-87.7614 0/1:107:50,57:50:1784:57:2036:-151.302,0,-128.633 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 1/1:124:0,123:0:0:123:4373:-393.383,-37.0267,0 0/0:78:78,0:78:2757:0:0:0,-23.4803,-248.363 0/1:121:48,73:48:1693:73:2560:-194.222,0,-116.23 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:21:10,11:10:360:11:396:-29.6611,0,-26.4227 1/1:87:0,87:0:0:87:3093:-278.597,-26.1896,0 0/1:97:63,34:63:2201:34:1215:-80.4558,0,-169.155 1/1:51:0,51:0:0:51:1799:-162.189,-15.3525,0 1/1:17:0,17:0:0:17:597:-54.0561,-5.11751,0 1/1:34:0,34:0:0:34:1205:-108.754,-10.235,0 0/1:72:39,33:39:1369:33:1147:-81.8581,0,-101.832 0/1:63:21,42:21:748:42:1504:-116.69,0,-48.6804 1/1:32:0,32:0:0:32:1144:-103.27,-9.63296,0 1/1:39:0,39:0:0:39:1400:-126.299,-11.7402,0 chr08 5669087 . 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C T 24016.3 PASS AB=0.491632;ABP=3.59178;AC=29;AF=0.690476;AN=42;AO=1183;CIGAR=1X;DP=1812;DPB=1812;DPRA=0.611314;EPP=2571.86;EPPR=1366.69;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9391;MQMR=60;NS=21;NUMALT=1;ODDS=2.62452;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42117;QR=22277;RO=628;RPL=0;RPP=2571.86;RPPR=1366.69;RPR=1183;RUN=1;SAF=0;SAP=2571.86;SAR=1183;SRF=0;SRP=1366.69;SRR=628;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:56,33:56:1991:33:1172:-78.9953,0,-152.672 0/1:105:38,67:38:1355:67:2355:-180.599,0,-90.6416 0/1:96:61,35:61:2179:35:1252:-84.0862,0,-167.477 0/1:71:43,28:43:1480:28:981:-67.2272,0,-112.115 0/1:132:62,70:62:2212:70:2500:-185.446,0,-159.609 1/1:110:2,107:2:72:107:3820:-337.15,-26.3354,0 1/1:117:1,116:1:36:116:4122:-367.568,-31.6222,0 0/0:137:137,0:137:4882:0:0:0,-41.2411,-439.534 0/1:172:88,84:88:3138:84:2972:-215.933,0,-230.868 0/1:20:6,14:6:216:14:500:-39.3156,0,-13.7699 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:20:13,7:13:460:7:248:-16.6436,0,-35.7148 1/1:89:0,89:0:0:89:3204:-288.553,-26.7917,0 0/1:96:49,47:49:1719:47:1649:-119.797,0,-126.093 1/1:127:0,127:0:0:127:4529:-407.779,-38.2308,0 1/1:66:0,66:0:0:66:2343:-211.129,-19.868,0 1/1:43:0,43:0:0:43:1532:-138.173,-12.9443,0 0/1:91:44,47:44:1559:47:1679:-124.003,0,-113.207 0/1:64:26,38:26:906:38:1360:-103.435,0,-62.5875 1/1:89:2,87:2:72:87:3112:-273.47,-19.9549,0 1/1:72:0,72:0:0:72:2571:-231.639,-21.6742,0 chr08 5688712 . 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A T 28734.1 PASS AB=0.567291;ABP=49.1846;AC=29;AF=0.690476;AN=42;AO=1399;CIGAR=1X;DP=2051;DPB=2051;DPRA=0.672183;EPP=3040.9;EPPR=1401.45;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9971;MQMR=60;NS=21;NUMALT=1;ODDS=11.9655;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50135;QR=23151;RO=648;RPL=1399;RPP=3040.9;RPPR=1410.12;RPR=0;RUN=1;SAF=0;SAP=3040.9;SAR=1399;SRF=1;SRP=1401.45;SRR=647;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:145:54,91:54:1940:91:3272:-251.05,0,-131.227 0/1:93:39,54:39:1404:54:1940:-146.88,0,-98.6635 0/1:88:37,51:37:1300:51:1816:-137.231,0,-90.8106 0/1:48:25,23:25:877:23:828:-60.3947,0,-64.7958 0/1:225:94,131:94:3372:131:4700:-355.427,0,-235.964 1/1:63:0,63:0:0:63:2264:-204.022,-18.9649,0 1/1:138:0,138:0:0:138:4953:-445.918,-41.5421,0 0/0:142:142,0:142:5053:0:0:0,-42.7463,-454.917 0/1:161:77,84:77:2772:84:3012:-222.845,0,-201.254 0/1:23:7,12:7:252:12:428:-32.7802,0,-16.9496 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:32:16,16:16:572:16:576:-42.542,0,-42.1805 1/1:59:0,59:0:0:59:2101:-189.358,-17.7608,0 0/1:86:31,55:31:1104:55:1968:-151.506,0,-73.7821 1/1:225:0,225:0:0:225:8069:-726.224,-67.7318,0 1/1:62:2,60:2:68:60:2150:-187.31,-12.2062,0 1/1:102:0,102:0:0:102:3661:-329.692,-30.7051,0 0/1:204:102,102:102:3649:102:3656:-267.834,0,-267.202 0/1:69:22,47:22:788:47:1684:-131.076,0,-50.4737 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 1/1:49:0,49:0:0:49:1725:-155.53,-14.7505,0 chr08 5790870 . 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GGCA AGAG,AGCA 39668.8 PASS AB=0.493838,0.5;ABP=3.38496,3.0103;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1237,681;CIGAR=1X1M2X,1X3M;DP=1935;DPB=1935;DPRA=0.845833,1.85;EPP=2689.12,1481.78;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.45,2.8;MQM=59.8909,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.351076;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43220,24323;QR=0;RO=0;RPL=1237,681;RPP=2689.12,1481.78;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2689.12,1481.78;SAR=1237,681;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:127:0,62,64:0:0:62,64:2199,2289:-365.92,-186.762,-168.098,-179.271,0,-160.005 1/2:77:0,39,37:0:0:39,37:1368,1317:-218.655,-107.332,-95.5918,-111.317,0,-100.179 1/2:132:0,68,64:0:0:68,64:2395,2288:-381.873,-186.916,-166.446,-195.312,0,-176.046 1/2:105:0,50,54:0:0:50,54:1767,1932:-301.458,-157.551,-142.499,-143.912,0,-127.656 1/2:195:0,87,107:0:0:87,107:3027,3820:-557.594,-311.487,-285.298,-246.157,0,-213.947 1/1:63:0,59,2:0:0:59,2:2044,68:-183.878,-17.7608,0,-178.363,-12.255,-177.761 1/1:96:0,93,0:0:0:93,0:3247,0:-292.119,-27.9958,0,-292.119,-27.9958,-292.119 2/2:108:0,0,107:0:0:0,107:0,3829:-344.446,-344.446,-344.446,-32.2102,-32.2102,0 1/2:184:0,65,119:0:0:65,119:2263,4241:-530.058,-346.047,-326.48,-184.362,0,-148.54 1/2:5:0,2,3:0:0:2,3:70,108:-14.8598,-9.17208,-8.57002,-6.04148,0,-5.13839 1/1:5:0,5,0:0:0:5,0:167,0:-15.3585,-1.50515,0,-15.3585,-1.50515,-15.3585 1/2:51:0,34,15:0:0:34,15:1189,540:-140.626,-44.0613,-33.8262,-96.5615,0,-92.0461 1/1:76:0,75,0:0:0:75,0:2616,0:-235.329,-22.5773,0,-235.329,-22.5773,-235.329 1/2:79:0,31,47:0:0:31,47:1053,1676:-222.012,-136.619,-127.287,-85.3804,0,-71.232 1/1:190:0,186,1:0:0:186,1:6534,36:-587.812,-55.9916,0,-584.874,-53.045,-584.573 1/1:83:0,83,0:0:0:83,0:2894,0:-260.696,-24.9855,0,-260.696,-24.9855,-260.696 1/1:36:0,36,0:0:0:36,0:1250,0:-112.799,-10.8371,0,-112.799,-10.8371,-112.799 1/2:86:0,53,33:0:0:53,33:1885,1180:-250.191,-96.5741,-80.6195,-153.974,0,-144.04 1/2:95:0,70,25:0:0:70,25:2381,891:-266.103,-72.983,-51.9109,-193.472,0,-185.946 1/1:94:0,91,3:0:0:91,3:3165,108:-284.226,-27.3937,0,-275.413,-18.2217,-274.51 1/1:48:0,48,0:0:0:48,0:1706,0:-153.826,-14.4494,0,-153.826,-14.4494,-153.826 chr08 5850252 . T A 38288.9 PASS AB=0.516667;ABP=7.64277;AC=29;AF=0.690476;AN=42;AO=2735;CIGAR=1X;DP=3892;DPB=3892;DPRA=0.807269;EPP=5941.99;EPPR=2515.4;GTI=0;LEN=1;MEANALT=1;MQM=29.0545;MQMR=24.8807;NS=21;NUMALT=1;ODDS=11.7975;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=97863;QR=41514;RO=1157;RPL=2735;RPP=5941.99;RPPR=2515.4;RPR=0;RUN=1;SAF=2735;SAP=5941.99;SAR=0;SRF=1157;SRP=2515.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:320:117,203:117:4208:203:7248:-417.355,0,-154.135 0/1:130:68,62:68:2444:62:2200:-116.944,0,-111.36 0/1:145:73,72:73:2620:72:2584:-138.473,0,-113.343 0/1:222:114,108:114:4075:108:3869:-206.86,0,-177.509 0/1:360:177,183:177:6355:183:6561:-351.026,0,-275.239 1/1:211:0,211:0:0:211:7529:-531.497,-63.5173,0 1/1:264:0,264:0:0:264:9449:-663.949,-79.4719,0 0/0:227:227,0:227:8144:0:0:0,-68.3338,-504.132 0/1:320:153,167:153:5491:167:5976:-328.86,0,-255.346 0/1:31:12,19:12:432:19:680:-39.1026,0,-17.5573 1/1:35:0,35:0:0:35:1252:-88.6206,-10.5361,0 0/1:80:48,32:48:1728:32:1152:-57.1353,0,-83.1902 1/1:199:0,199:0:0:199:7134:-503.051,-59.905,0 0/1:197:97,100:97:3469:100:3567:-193.063,0,-149.868 1/1:374:0,374:0:0:374:13408:-947.807,-112.585,0 1/1:167:0,167:0:0:167:5992:-421.426,-50.272,0 1/1:271:1,270:1:36:270:9629:-675.347,-79.0204,0 0/1:60:37,23:37:1328:23:828:-39.8838,0,-63.9521 0/1:55:32,23:32:1148:23:828:-42.8982,0,-51.9219 1/1:200:1,199:1:36:199:7113:-497.224,-57.7391,0 1/1:24:0,24:0:0:24:864:-60.3288,-7.22472,0 chr08 5850259 . CGA TGA,TGC 46336.4 PASS AB=0.511334,0.484976;ABP=5.12683,6.72939;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2665,1149;CIGAR=1X2M,1X1M1X;DP=3828;DPB=3828;DPRA=0.782174,1.04604;EPP=5789.98,2498.03;EPPR=9.52472;GTI=0;LEN=1,3;MEANALT=2,2.64286;MQM=29.0649,24.7128;MQMR=29;NS=21;NUMALT=2;ODDS=12.8563;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76822,38982;QR=100;RO=3;RPL=2665,1149;RPP=5789.98,2498.03;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=2665,1149;SAP=5789.98,2498.03;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:316:1,198,117:1:36:198,117:5707,3935:-609.329,-207.896,-150.674,-399.297,0,-366.458 1/2:130:0,61,69:0:0:61,69:1745,2374:-252.702,-130.091,-111.728,-122.861,0,-102.09 1/2:145:0,72,72:0:0:72,72:2084,2465:-276.793,-130.741,-109.067,-146.071,0,-124.397 1/2:219:0,104,113:0:0:104,113:3014,3821:-417.404,-204.97,-173.663,-212.457,0,-178.44 1/2:358:0,182,176:0:0:182,176:5226,6063:-687.37,-322.404,-267.616,-365.213,0,-312.232 1/1:206:0,206,0:0:0:206,0:5950,0:-480.51,-62.0122,0,-480.51,-62.0122,-480.51 1/1:252:0,252,0:0:0:252,0:7246,0:-584.672,-75.8596,0,-584.672,-75.8596,-584.672 2/2:230:0,0,227:0:0:0,227:0,7619:-493.19,-493.19,-493.19,-68.3338,-68.3338,0 1/2:318:0,166,151:0:0:166,151:4810,5050:-631.515,-291.823,-241.852,-339.71,0,-294.254 1/2:31:0,19,12:0:0:19,12:543,416:-61.2822,-23.0535,-17.334,-38.4781,0,-34.8657 1/1:35:0,35,0:0:0:35,0:1010,0:-81.6852,-10.5361,0,-81.6852,-10.5361,-81.6852 1/2:78:0,31,47:0:0:31,47:895,1599:-152.332,-89.4993,-80.1673,-63.0859,0,-48.9375 1/1:198:0,198,0:0:0:198,0:5710,0:-461.076,-59.6039,0,-461.076,-59.6039,-461.076 1/2:190:1,94,94:1:36:94,94:2713,3172:-357.695,-167.473,-141.096,-188.613,0,-162.235 1/1:359:0,359,0:0:0:359,0:10392,0:-839.527,-108.07,0,-839.527,-108.07,-839.527 1/1:165:0,165,0:0:0:165,0:4748,0:-384.071,-49.67,0,-384.071,-49.67,-384.071 1/1:267:1,262,1:1:28:262,1:7540,34:-605.747,-76.8047,0,-604.067,-76.8856,-605.826 1/2:58:0,21,37:0:0:21,37:605,1291:-112.916,-70.3871,-64.0655,-42.7824,0,-31.6443 1/2:54:0,22,32:0:0:22,32:646,1115:-104.294,-58.4506,-51.8279,-46.096,0,-36.463 1/1:196:0,195,1:0:0:195,1:5575,28:-449.163,-58.7009,0,-447.373,-56.6779,-447.072 1/1:23:0,23,0:0:0:23,0:663,0:-53.7028,-6.92369,0,-53.7028,-6.92369,-53.7028 chr08 5916502 . C T 5661.88 PASS AB=0.462069;ABP=10.2585;AC=13;AF=0.309524;AN=42;AO=330;CIGAR=1X;DP=1000;DPB=1000;DPRA=1.49203;EPP=710.937;EPPR=1416.85;GTI=0;LEN=1;MEANALT=1.14286;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.06706;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11778;QR=23705;RO=667;RPL=1;RPP=710.937;RPPR=1416.85;RPR=329;RUN=1;SAF=330;SAP=719.596;SAR=0;SRF=667;SRP=1451.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:25,27:25:892:27:972:-72.1443,0,-64.9461 0/1:28:13,15:13:468:15:536:-40.146,0,-34.0308 0/1:64:36,28:36:1288:28:1000:-71.0495,0,-96.9577 0/1:54:33,21:33:1171:21:741:-50.7568,0,-89.4411 0/1:71:45,26:45:1604:26:915:-61.2924,0,-123.277 0/0:57:57,0:57:2019:0:0:0,-17.1587,-181.983 0/0:45:45,0:45:1591:0:0:0,-13.5463,-143.48 1/1:59:0,59:0:0:59:2120:-191.068,-17.7608,0 0/1:68:34,33:34:1203:33:1184:-86.3923,0,-88.0992 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:17:6,9:6:216:9:324:-24.6306,0,-14.9152 0/0:46:46,0:46:1647:0:0:0,-13.8474,-148.518 0/1:67:36,31:36:1275:31:1112:-80.2223,0,-94.8833 0/0:65:63,2:63:2221:2:72:0,-12.7302,-193.317 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:41:41,0:41:1456:0:0:0,-12.3422,-131.336 0/1:115:48,67:48:1695:67:2370:-178.939,0,-118.217 0/1:40:31,9:31:1104:9:324:-17.4647,0,-87.6294 0/0:45:44,1:44:1568:1:36:0,-9.94807,-137.813 0/0:40:40,0:40:1423:0:0:0,-12.0412,-128.367 chr08 5934967 . G A 20498.4 PASS AB=0.508557;ABP=3.5306;AC=28;AF=0.666667;AN=42;AO=1005;CIGAR=1X;DP=1481;DPB=1481;DPRA=2.18731;EPP=2185.34;EPPR=1032.29;GTI=0;LEN=1;MEANALT=1.10526;MQM=59.8905;MQMR=59.9916;NS=21;NUMALT=1;ODDS=3.73158;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35934;QR=16882;RO=474;RPL=0;RPP=2185.34;RPPR=1032.29;RPR=1005;RUN=1;SAF=0;SAP=2185.34;SAR=1005;SRF=0;SRP=1032.29;SRR=474;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:52,38:52:1853:38:1368:-96.3281,0,-139.955 0/1:56:22,34:22:792:34:1209:-92.2573,0,-54.748 0/1:146:69,77:69:2460:77:2760:-204.669,0,-177.699 0/1:106:64,42:64:2296:42:1500:-103.385,0,-174.992 0/1:186:98,88:98:3477:88:3152:-227.914,0,-257.151 1/1:82:0,82:0:0:82:2944:-264.924,-24.6845,0 1/1:100:0,100:0:0:100:3535:-318.311,-30.103,0 0/0:64:64,0:64:2276:0:0:0,-19.2659,-205.1 0/1:106:48,58:48:1712:58:2084:-155.921,0,-122.457 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:13:4,9:4:144:9:324:-25.5925,0,-9.40023 1/1:81:2,79:2:72:79:2828:-247.921,-17.5467,0 0/1:67:20,46:20:701:46:1646:-128.19,0,-43.1844 1/1:52:1,51:1:36:51:1820:-160.48,-12.0553,0 1/1:69:0,69:0:0:69:2460:-221.651,-20.7711,0 1/1:110:0,109:0:0:109:3916:-352.272,-32.8123,0 0/1:18:11,7:11:388:7:252:-17.6104,0,-29.8388 0/1:30:13,17:13:468:17:604:-45.6597,0,-33.4287 1/1:66:1,65:1:27:65:2324:-206.717,-17.1682,0 1/1:31:1,30:1:36:30:1064:-92.4734,-5.73366,0 chr08 5934982 . ATTA GTTT,GTTC 30916.6 PASS AB=0.505441,0.490931;ABP=3.22298,3.60109;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1017,481;CIGAR=1X2M1X,1X2M1X;DP=1505;DPB=1505;DPRA=2.19069,0.941667;EPP=2202.72,1038.82;EPPR=0;GTI=0;LEN=4,4;MEANALT=2,2.0625;MQM=59.8456,59.9917;MQMR=0;NS=21;NUMALT=2;ODDS=3.75513;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35754,16623;QR=0;RO=0;RPL=1016,480;RPP=2202.72,1038.82;RPPR=0;RPR=1,1;RUN=1,1;SAF=0,0;SAP=2211.4,1047.49;SAR=1017,481;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:90:0,39,51:0:0:39,51:1354,1748:-252.317,-142.248,-130.508,-110.415,0,-95.0621 1/2:57:0,34,23:0:0:34,23:1201,799:-163.113,-65.3033,-55.0683,-98.1594,0,-91.2357 1/2:147:0,78,68:0:0:78,68:2748,2323:-412.336,-188.598,-165.118,-223.823,0,-203.353 1/2:107:0,43,64:0:0:43,64:1531,2247:-308.013,-183.228,-170.284,-125.139,0,-105.873 1/2:190:0,87,101:0:0:87,101:3044,3489:-531.123,-283.468,-257.279,-247.648,0,-217.244 1/1:84:0,84,0:0:0:84,0:2926,0:-263.38,-25.2865,0,-263.38,-25.2865,-263.38 1/1:105:0,105,0:0:0:105,0:3668,0:-330.26,-31.6082,0,-330.26,-31.6082,-330.26 2/2:65:0,0,65:0:0:0,65:0,2225:-200.514,-200.514,-200.514,-19.567,-19.567,0 1/2:107:0,58,49:0:0:58,49:2055,1706:-306.482,-139.073,-121.613,-167.761,0,-153.01 2/2:4:0,0,4:0:0:0,4:0,142:-13.1293,-13.1293,-13.1293,-1.20412,-1.20412,0 1/1:4:0,4,0:0:0:4,0:138,0:-12.7598,-1.20412,0,-12.7598,-1.20412,-12.7598 1/2:13:0,9,4:0:0:9,4:321,134:-37.3693,-11.1867,-8.47738,-26.5242,0,-25.3201 1/1:83:0,82,1:0:0:82,1:2838,36:-255.3,-24.6845,0,-252.362,-21.3872,-252.061 1/2:68:0,46,22:0:0:46,22:1621,771:-195.054,-63.0883,-49.241,-132.317,0,-125.694 1/1:52:0,49,2:0:0:49,2:1753,72:-157.681,-14.7505,0,-151.806,-8.87564,-151.204 1/1:70:0,69,0:0:0:69,0:2425,0:-218.205,-20.7711,0,-218.205,-20.7711,-218.205 1/1:112:0,110,0:0:0:110,0:3899,0:-350.765,-33.1133,0,-350.765,-33.1133,-350.765 1/2:18:0,7,11:0:0:7,11:252,382:-51.9685,-31.4016,-29.2944,-20.9217,0,-17.6104 1/2:30:0,17,13:0:0:17,13:592,457:-85.6886,-37.5503,-32.4328,-48.4882,0,-44.5749 1/1:68:0,67,1:0:0:67,1:2354,24:-211.87,-20.169,0,-210.013,-18.0701,-209.712 1/1:31:0,29,2:0:0:29,2:1034,68:-93.0327,-8.72987,0,-87.518,-2.87422,-86.9159 chr08 6023828 . AACGG GACGA,GACAG 12467.9 PASS AB=0.522388,0.471642;ABP=4.46875,5.3503;AC=29,13;AF=0.690476,0.309524;AN=42;AO=408,189;CIGAR=1X3M1X,1X2M1X1M;DP=600;DPB=600;DPRA=0.95,1.18574;EPP=888.971,413.419;EPPR=0;GTI=0;LEN=5,5;MEANALT=1.75,2.07692;MQM=59.9853,59.9153;MQMR=0;NS=21;NUMALT=2;ODDS=6.97257;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=14463,6713;QR=0;RO=0;RPL=408,189;RPP=888.971,413.419;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=888.971,413.419;SAR=408,189;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:32:0,14,18:0:0:14,18:491,645:-92.9106,-52.9579,-48.7435,-40.3066,0,-34.888 1/2:34:0,19,15:0:0:19,15:676,539:-99.4133,-44.3225,-38.603,-55.4484,0,-50.9329 1/2:21:0,9,12:0:0:9,12:321,423:-60.9625,-34.793,-32.0837,-26.5242,0,-22.9119 1/2:10:0,6,4:0:0:6,4:216,141:-29.462,-11.833,-10.0268,-17.9843,0,-16.7802 1/2:40:0,14,26:0:0:14,26:490,924:-115.515,-75.6512,-71.4367,-40.2159,0,-32.3891 1/1:30:0,29,1:0:0:29,1:1032,36:-92.8337,-8.72987,0,-89.8962,-5.43263,-89.5952 1/1:28:0,28,0:0:0:28,0:981,0:-88.6029,-8.42884,0,-88.6029,-8.42884,-88.6029 2/2:30:0,0,30:0:0:0,30:0,1060:-95.7114,-95.7114,-95.7114,-9.0309,-9.0309,0 1/2:25:0,13,12:0:0:13,12:464,431:-73.3448,-35.5183,-31.6049,-38.1844,0,-34.572 1/2:11:0,4,7:0:0:4,7:141,228:-30.2207,-18.7304,-17.5263,-11.8329,0,-9.7257 1/1:5:0,5,0:0:0:5,0:174,0:-16.0013,-1.50515,0,-16.0013,-1.50515,-16.0013 1/2:11:0,5,6:0:0:5,6:174,216:-32.1271,-17.9843,-16.4792,-14.4961,0,-12.6899 1/1:44:0,44,0:0:0:44,0:1562,0:-140.872,-13.2453,0,-140.872,-13.2453,-140.872 1/2:46:0,25,21:0:0:25,21:888,753:-134.131,-61.7751,-54.2493,-72.7128,0,-66.3912 1/1:52:0,51,0:0:0:51,0:1815,0:-163.271,-15.3525,0,-163.271,-15.3525,-163.271 1/1:19:0,19,0:0:0:19,0:677,0:-61.2584,-5.71957,0,-61.2584,-5.71957,-61.2584 1/1:10:0,10,0:0:0:10,0:350,0:-31.8366,-3.0103,0,-31.8366,-3.0103,-31.8366 1/2:56:0,34,20:0:0:34,20:1207,705:-155.741,-57.3945,-47.1595,-98.3405,0,-92.3199 1/2:49:0,32,17:0:0:32,17:1130,612:-142.312,-50.2959,-40.663,-92.3736,0,-87.2561 1/1:15:0,15,0:0:0:15,0:530,0:-48.0316,-4.51545,0,-48.0316,-4.51545,-48.0316 1/1:32:0,32,0:0:0:32,0:1144,0:-103.269,-9.63296,0,-103.269,-9.63296,-103.269 chr08 6040524 . C G 14736.9 PASS AB=0.532944;ABP=14.3132;AC=13;AF=0.309524;AN=42;AO=795;CIGAR=1X;DP=2453;DPB=2453;DPRA=0.884312;EPP=1669.06;EPPR=3280.81;GTI=0;LEN=1;MEANALT=1;MQM=59.9849;MQMR=59.9964;NS=21;NUMALT=1;ODDS=7.93449;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28273;QR=58753;RO=1658;RPL=788;RPP=1669.06;RPPR=3280.81;RPR=7;RUN=1;SAF=795;SAP=1729.33;SAR=0;SRF=1658;SRP=3603.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:47,75:47:1669:75:2684:-205.079,0,-113.77 0/1:112:61,51:61:2170:51:1824:-130.726,0,-161.85 0/1:110:45,65:45:1604:65:2276:-171.986,0,-111.537 0/1:142:64,78:64:2234:78:2792:-208.77,0,-158.576 0/1:213:90,123:90:3189:123:4371:-329.445,0,-223.115 0/0:121:120,1:120:4255:1:36:0,-32.8264,-379.532 0/0:186:186,0:186:6569:0:0:0,-55.9916,-591.299 1/1:154:0,154:0:0:154:5474:-492.787,-46.3586,0 0/1:156:80,76:80:2843:76:2700:-196.282,0,-209.148 0/1:18:4,14:4:144:14:504:-40.2796,0,-7.89508 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/1:40:28,12:28:996:12:432:-27.18,0,-77.9137 0/0:156:156,0:156:5554:0:0:0,-46.9607,-499.987 0/1:137:61,76:61:2152:76:2672:-199.482,0,-152.704 0/0:223:223,0:223:7923:0:0:0,-67.1297,-713.1 0/0:93:92,1:92:3262:1:36:0,-24.3975,-290.203 0/0:100:100,0:100:3544:0:0:0,-30.103,-319.169 0/1:49:15,34:15:532:34:1212:-94.6359,0,-33.4626 0/1:100:65,35:65:2324:35:1260:-83.6025,0,-179.317 0/0:162:162,0:162:5733:0:0:0,-48.7669,-516.086 0/0:47:47,0:47:1633:0:0:0,-14.1484,-147.253 chr08 6085898 . TCTTGCT TCTCT,TCTTT 24000.3 PASS AB=0.454088,0.515723;ABP=17.566,4.71743;AC=29,13;AF=0.690476,0.309524;AN=42;AO=842,501;CIGAR=3M2D2M,4M2D1M;DP=1400;DPB=988;DPRA=0.736517,1.3617;EPP=1831.39,1090.92;EPPR=0;GTI=1;LEN=2,2;MEANALT=2.9,3.14286;MQM=34.4822,40.8403;MQMR=0;NS=21;NUMALT=2;ODDS=1.14628;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28387,17632;QR=0;RO=0;RPL=0,0;RPP=1831.39,1090.92;RPPR=0;RPR=842,501;RUN=1,1;SAF=0,0;SAP=1831.39,1090.92;SAR=842,501;SRF=0;SRP=0;SRR=0;TYPE=del,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:58:0,28,29:0:0:28,29:963,1021:-151.151,-79.6853,-71.2565,-71.4939,0,-62.7641 1/2:21:0,6,15:0:0:6,15:192,540:-55.3108,-41.4756,-39.6694,-14.1389,0,-9.62346 1/2:75:0,36,37:0:0:36,37:1231,1309:-192.887,-102.556,-91.7189,-90.333,0,-79.1948 1/2:33:0,14,18:0:0:14,18:500,629:-86.6202,-49.628,-45.4136,-37.1398,0,-31.7213 1/2:155:0,58,95:0:0:58,95:2022,3358:-414.315,-264.672,-247.212,-149.66,0,-121.062 1/1:42:0,42,0:0:0:42,0:1293,0:-105.762,-12.6433,0,-105.762,-12.6433,-105.762 1/1:100:0,97,0:0:0:97,0:3047,0:-248.105,-29.1999,0,-248.105,-29.1999,-248.105 2/2:89:0,0,89:0:0:0,89:0,3128:-266.643,-266.643,-266.643,-26.7917,-26.7917,0 1/2:164:0,84,71:0:0:84,71:2955,2502:-422.524,-197.938,-172.651,-224.603,0,-203.23 1/2:43:0,10,32:0:0:10,32:323,1087:-107.482,-84.0575,-81.0472,-23.3988,0,-13.7658 1/1:18:0,18,0:0:0:18,0:545,0:-44.6931,-5.41854,0,-44.6931,-5.41854,-44.6931 1/2:10:0,7,3:0:0:7,3:236,108:-25.9795,-8.76948,-6.66227,-17.5439,0,-16.6409 1/1:65:0,59,1:0:0:59,1:2074,32:-171.366,-17.7608,0,-168.918,-15.3145,-168.617 1/2:68:0,33,34:0:0:33,34:1113,1182:-175.847,-93.5061,-83.5721,-82.3454,0,-72.1104 1/1:75:0,64,1:0:0:64,1:2245,36:-185.557,-19.2659,0,-182.705,-16.4115,-182.404 1/1:53:0,48,0:0:0:48,0:1695,0:-143.354,-14.4494,0,-143.354,-14.4494,-143.354 1/1:61:0,56,0:0:0:56,0:1952,0:-165.079,-16.8577,0,-165.079,-16.8577,-165.079 1/2:122:0,61,57:0:0:61,57:2035,2032:-306.22,-157.171,-138.809,-149.085,0,-131.927 1/2:46:0,24,19:0:0:24,19:831,668:-113.944,-52.4652,-45.2405,-61.5294,0,-55.8099 1/1:59:0,57,0:0:0:57,0:1873,0:-153.499,-17.1587,0,-153.499,-17.1587,-153.499 1/1:43:0,40,0:0:0:40,0:1262,0:-102.726,-12.0412,0,-102.726,-12.0412,-102.726 chr08 6106717 . CTC GTC,GTT 70848.7 PASS AB=0.52546,0.471711;ABP=10.9713,12.8387;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2429,834;CIGAR=1X2M,1X1M1X;DP=3274;DPB=3274.67;DPRA=0.936145,0.668726;EPP=5277.52,1814.02;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=2,2.15385;MQM=59.9984,59.9532;MQMR=60;NS=21;NUMALT=2;ODDS=12.7752;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=87019,29522;QR=36;RO=1;RPL=2429,834;RPP=5277.52,1814.02;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5277.52,1814.02;SAR=2429,834;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:138:0,70,68:0:0:70,68:2512,2398:-400.512,-195.608,-174.536,-205.26,0,-184.79 1/2:165:0,89,76:0:0:89,76:3165,2698:-478.114,-220.186,-193.395,-258.283,0,-235.404 1/2:142:0,70,72:0:0:70,72:2512,2567:-414.238,-209.336,-188.264,-205.259,0,-183.585 1/2:95:0,46,47:0:0:46,47:1648,1657:-269.314,-134.908,-121.061,-134.401,0,-120.253 1/2:270:0,118,152:0:0:118,152:4236,5391:-785.109,-439.569,-404.048,-345.897,0,-300.14 1/1:150:0,150,0:0:0:150,0:5376,0:-483.971,-45.1545,0,-483.971,-45.1545,-483.971 1/1:235:0,235,0:0:0:235,0:8408,0:-756.725,-70.7421,0,-756.725,-70.7421,-756.725 2/2:166:0,0,166:0:0:0,166:0,5844:-526.078,-526.078,-526.078,-49.971,-49.971,0 1/2:198:0,109,88:0:0:109,88:3896,3118:-571.655,-253.988,-221.176,-317.662,0,-291.172 1/2:14:0,11,3:0:0:11,3:396,100:-40.7593,-8.42677,-5.11544,-32.6714,0,-31.7683 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:39:0,27,12:0:0:27,12:964,427:-113.749,-35.1557,-27.0279,-78.949,0,-75.3367 1/1:150:0,150,0:0:0:150,0:5365,0:-482.983,-45.1545,0,-482.983,-45.1545,-482.983 1/2:125:0,76,49:0:0:76,49:2690,1735:-360.793,-141.683,-118.805,-219.464,0,-204.714 1/1:764:0,761,0:0:0:761,0:27308,0:-2456.53,-229.084,0,-2456.53,-229.084,-2456.53 1/1:121:0,119,0:0:0:119,0:4274,0:-384.477,-35.8226,0,-384.477,-35.8226,-384.477 1/1:72:0,72,0:0:0:72,0:2592,0:-233.469,-21.6742,0,-233.469,-21.6742,-233.469 1/2:131:0,65,66:0:0:65,66:2328,2347:-381.478,-191.621,-172.054,-190.213,0,-170.345 1/2:97:0,62,34:0:0:62,34:2224,1204:-279.476,-98.0713,-79.4074,-181.4,0,-171.165 1/1:125:0,124,1:0:0:124,1:4433,36:-398.78,-37.3277,0,-395.843,-34.0305,-395.542 1/1:67:1,65,0:1:36:65,0:2332,0:-206.541,-16.6295,0,-206.842,-19.567,-209.78 chr08 6131994 . G C 9240.18 PASS AB=0.417559;ABP=30.5792;AC=28;AF=0.666667;AN=42;AO=471;CIGAR=1X;DP=813;DPB=813;DPRA=0.796875;EPP=1025.77;EPPR=745.654;GTI=1;LEN=1;MEANALT=1;MQM=59.9936;MQMR=60;NS=21;NUMALT=1;ODDS=2.24959;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16844;QR=12252;RO=342;RPL=471;RPP=1025.77;RPPR=745.654;RPR=0;RUN=1;SAF=0;SAP=1025.77;SAR=471;SRF=0;SRP=745.654;SRR=342;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:13,17:13:464:17:593:-44.6647,0,-33.0666 0/1:24:7,17:7:252:17:612:-48.1887,0,-15.8042 0/1:45:34,11:34:1224:11:396:-22.4364,0,-96.9207 0/1:50:31,19:31:1112:19:684:-46.8388,0,-85.3398 0/1:68:37,31:37:1320:31:1089:-77.8473,0,-98.6319 1/1:8:0,8:0:0:8:288:-26.2658,-2.40824,0 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 0/0:48:48,0:48:1716:0:0:0,-14.4494,-154.726 0/1:82:47,35:47:1680:35:1260:-89.021,0,-126.803 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/0:23:21,2:21:752:2:68:0,-0.465981,-61.5485 1/1:56:0,56:0:0:56:2012:-181.353,-16.8577,0 0/1:74:46,28:46:1648:28:1008:-68.7601,0,-126.332 1/1:43:0,43:0:0:43:1525:-137.541,-12.9443,0 1/1:21:0,21:0:0:21:737:-66.6506,-6.32163,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:60:44,16:44:1580:16:576:-34.1132,0,-124.43 0/1:25:5,20:5:180:20:716:-57.242,0,-9.02631 1/1:63:1,62:1:36:62:2220:-196.466,-15.3666,0 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 chr08 6155896 . T G,C 59026.3 PASS AB=0.505398,0.494602;ABP=3.3854,3.3854;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1916,852;CIGAR=1X,1X;DP=2768;DPB=2768;DPRA=0,0.888941;EPP=4163.55,1853.1;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.71429,2;MQM=59.9864,59.9296;MQMR=0;NS=21;NUMALT=2;ODDS=16.4746;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68213,30446;QR=0;RO=0;RPL=0,0;RPP=4163.55,1853.1;RPPR=0;RPR=1916,852;RUN=1,1;SAF=1916,852;SAP=4163.55,1853.1;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:134:0,56,78:0:0:56,78:1982,2780:-388.403,-226.961,-210.104,-161.797,0,-138.317 1/2:128:0,73,55:0:0:73,55:2597,1972:-372.824,-161.197,-139.222,-211.985,0,-195.428 1/2:92:0,36,56:0:0:36,56:1288,1992:-267.726,-162.697,-151.859,-105.387,0,-88.5288 1/2:201:0,116,85:0:0:116,85:4145,3044:-586.555,-248.6,-213.68,-338.313,0,-312.725 1/2:300:0,145,155:0:0:145,155:5168,5536:-872.857,-451.6,-407.951,-421.613,0,-374.954 1/1:141:0,140,1:0:0:140,1:4979,36:-447.897,-42.1442,0,-444.959,-38.847,-444.658 1/1:261:0,261,0:0:0:261,0:9281,0:-835.242,-78.5688,0,-835.242,-78.5688,-835.242 2/2:117:0,1,116:0:0:1,116:36,4137:-372.047,-369.109,-368.808,-34.9195,-31.6222,0 1/2:284:0,151,133:0:0:151,133:5404,4752:-828.479,-387.801,-342.346,-441.035,0,-400.998 1/2:20:0,5,15:0:0:5,15:180,536:-58.7471,-44.0594,-42.5542,-15.0469,0,-10.5315 1/1:14:0,14,0:0:0:14,0:492,0:-44.6123,-4.21442,0,-44.6123,-4.21442,-44.6123 1/2:51:0,19,32:0:0:19,32:680,1152:-149.808,-94.3572,-88.6376,-55.8096,0,-46.1766 1/1:115:0,115,0:0:0:115,0:4098,0:-369.003,-34.6185,0,-369.003,-34.6185,-369.003 1/2:74:0,44,30:0:0:44,30:1538,1070:-212.69,-87.5811,-74.3358,-125.462,0,-116.432 1/1:243:0,243,0:0:0:243,0:8660,0:-779.391,-73.1503,0,-779.391,-73.1503,-779.391 1/1:130:0,130,0:0:0:130,0:4652,0:-418.842,-39.1339,0,-418.842,-39.1339,-418.842 1/1:91:0,90,1:0:0:90,1:3201,36:-287.953,-27.0927,0,-285.015,-23.7955,-284.714 1/2:128:0,60,68:0:0:60,68:2127,2448:-373.382,-200.104,-182.042,-173.635,0,-153.165 1/2:70:0,44,26:0:0:44,26:1530,919:-199.591,-75.1994,-61.9541,-124.743,0,-116.916 1/1:96:0,96,0:0:0:96,0:3432,0:-309.094,-28.8989,0,-309.094,-28.8989,-309.094 1/1:78:0,77,1:0:0:77,1:2743,36:-246.752,-23.1793,0,-243.815,-19.8821,-243.514 chr08 6155911 . C T 40124.3 PASS AB=0.504;ABP=3.21876;AC=29;AF=0.690476;AN=42;AO=1937;CIGAR=1X;DP=2796;DPB=2796;DPRA=1.19821;EPP=4200.47;EPPR=1838;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9876;MQMR=59.9673;NS=21;NUMALT=1;ODDS=16.8003;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69235;QR=30482;RO=857;RPL=1;RPP=4200.47;RPPR=1838;RPR=1936;RUN=1;SAF=1937;SAP=4209.15;SAR=0;SRF=857;SRP=1863.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:79,54:79:2815:54:1919:-132.949,0,-213.553 0/1:129:57,72:57:2035:72:2592:-194.695,0,-144.585 0/1:93:57,36:57:2013:36:1288:-88.2278,0,-153.446 0/1:201:85,115:85:3026:115:4120:-310.577,0,-212.163 0/1:298:154,144:154:5481:144:5136:-372.674,0,-403.712 1/1:146:1,145:1:36:145:5177:-462.472,-40.3521,0 1/1:257:0,256:0:0:256:9120:-820.534,-77.0637,0 0/0:112:112,0:112:3994:0:0:0,-33.7154,-359.423 0/1:293:139,154:139:4947:154:5524:-409.082,0,-357.181 0/1:20:15,5:15:527:5:180:-10.5315,0,-41.7396 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:53:33,20:33:1167:20:720:-49.1742,0,-89.3818 1/1:119:0,119:0:0:119:4256:-383.217,-35.8226,0 0/1:76:31,45:31:1103:45:1604:-121.758,0,-76.7015 1/1:240:0,240:0:0:240:8589:-773.003,-72.2472,0 1/1:134:0,134:0:0:134:4804:-432.515,-40.338,0 1/1:94:1,93:1:36:93:3309:-294.43,-24.6985,0 0/1:131:66,65:66:2356:65:2314:-169.085,0,-172.864 0/1:73:27,46:27:946:46:1624:-124.471,0,-63.4777 1/1:98:0,98:0:0:98:3511:-316.199,-29.5009,0 1/1:82:0,82:0:0:82:2944:-265.193,-24.6845,0 chr08 6156019 . C T 22664.6 PASS AB=0.570186;ABP=37.4544;AC=30;AF=0.714286;AN=42;AO=1093;CIGAR=1X;DP=1502;DPB=1502;DPRA=1.14206;EPP=2376.43;EPPR=888.971;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=59.9902;NS=21;NUMALT=1;ODDS=10.1535;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39025;QR=14521;RO=408;RPL=0;RPP=2376.43;RPPR=888.971;RPR=1093;RUN=1;SAF=1093;SAP=2376.43;SAR=0;SRF=408;SRP=888.971;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:32,65:32:1139:65:2309:-178.869,0,-73.6185 0/1:53:29,24:29:1029:24:860:-61.7672,0,-76.9666 0/1:68:34,34:34:1201:34:1224:-89.997,0,-87.9236 0/1:81:43,38:43:1521:38:1364:-98.6773,0,-112.798 0/1:191:58,132:58:2071:132:4729:-368.36,0,-129.252 1/1:45:0,45:0:0:45:1612:-145.37,-13.5464,0 1/1:160:0,160:0:0:160:5728:-515.637,-48.1648,0 0/0:63:63,0:63:2251:0:0:0,-18.9649,-202.853 0/1:130:60,70:60:2148:70:2486:-184.856,0,-154.454 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:9:6,3:6:208:3:108:-7.3659,0,-16.3498 1/1:41:0,41:0:0:41:1467:-132.326,-12.3422,0 0/1:48:21,27:21:744:27:964:-72.6274,0,-52.8325 1/1:134:0,134:0:0:134:4781:-430.447,-40.338,0 1/1:91:0,91:0:0:91:3238:-291.639,-27.3937,0 1/1:58:0,58:0:0:58:2061:-185.759,-17.4597,0 0/1:78:45,33:45:1612:33:1180:-83.0277,0,-121.89 0/1:50:17,33:17:597:33:1180:-91.4565,0,-39.0046 1/1:68:0,68:0:0:68:2406:-216.794,-20.47,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 chr08 6162854 . TACA CACG,TACG 22908.7 PASS AB=0.502318,0.488408;ABP=3.04051,3.76545;AC=29,13;AF=0.690476,0.309524;AN=42;AO=750,366;CIGAR=1X2M1X,3M1X;DP=1126;DPB=1126;DPRA=1.076,1.21853;EPP=1631.61,797.769;EPPR=0;GTI=0;LEN=4,1;MEANALT=2,2.33333;MQM=59.66,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.08943;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26108,12911;QR=0;RO=0;RPL=0,0;RPP=1631.61,797.769;RPPR=0;RPR=750,366;RUN=1,1;SAF=0,0;SAP=1631.61,797.769;SAR=750,366;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:74:0,36,37:0:0:36,37:1254,1310:-208.77,-106.8,-95.9625,-102.057,0,-90.9194 1/2:54:0,31,23:0:0:31,23:1072,800:-152.493,-65.3921,-56.0601,-87.4476,0,-80.524 1/2:59:0,36,23:0:0:36,23:1279,809:-170.428,-66.2046,-55.3675,-104.576,0,-97.6525 1/2:46:0,28,17:0:0:28,17:965,604:-127.69,-49.3078,-40.879,-78.4672,0,-73.3497 1/2:141:0,71,69:0:0:71,69:2459,2437:-398.263,-198.452,-177.079,-199.801,0,-179.03 1/1:31:0,30,0:0:0:30,0:1055,0:-94.886,-9.0309,0,-94.886,-9.0309,-94.886 1/1:69:0,69,0:0:0:69,0:2405,0:-216.678,-20.7711,0,-216.678,-20.7711,-216.678 2/2:50:0,0,50:0:0:0,50:0,1777:-160.211,-160.211,-160.211,-15.0515,-15.0515,0 1/2:122:0,48,71:0:0:48,71:1654,2519:-339.597,-205.252,-190.803,-134.359,0,-112.986 1/2:8:0,3,5:0:0:3,5:108,180:-23.8592,-15.0469,-14.1438,-9.17208,0,-7.66693 1/1:4:0,4,0:0:0:4,0:136,0:-12.5736,-1.20412,0,-12.5736,-1.20412,-12.5736 1/2:22:0,15,7:0:0:15,7:531,248:-63.8102,-20.557,-16.0415,-43.6072,0,-41.5 1/1:42:0,42,0:0:0:42,0:1485,0:-133.926,-12.6433,0,-133.926,-12.6433,-133.926 1/2:48:0,18,30:0:0:18,30:622,1063:-137.482,-86.9499,-81.5314,-50.8806,0,-41.8497 1/1:111:0,108,0:0:0:108,0:3760,0:-338.236,-32.5112,0,-338.236,-32.5112,-338.236 1/1:65:0,65,0:0:0:65,0:2266,0:-204.202,-19.567,0,-204.202,-19.567,-204.202 1/1:57:0,57,0:0:0:57,0:1973,0:-177.351,-17.1587,0,-177.351,-17.1587,-177.351 1/2:55:0,28,27:0:0:28,27:960,927:-153.547,-75.6105,-67.1816,-78.2799,0,-70.1521 1/2:18:0,11,7:0:0:11,7:384,237:-50.7931,-19.5518,-16.2405,-31.5838,0,-29.4765 1/1:33:0,33,0:0:0:33,0:1151,0:-103.883,-9.93399,0,-103.883,-9.93399,-103.883 1/1:17:0,17,0:0:0:17,0:589,0:-53.3351,-5.11751,0,-53.3351,-5.11751,-53.3351 chr08 6162890 . A G 15121.9 PASS AB=0.496885;ABP=3.06442;AC=29;AF=0.690476;AN=42;AO=748;CIGAR=1X;DP=1126;DPB=1126;DPRA=0.973636;EPP=1627.27;EPPR=815.164;GTI=0;LEN=1;MEANALT=1;MQM=59.6471;MQMR=60;NS=21;NUMALT=1;ODDS=4.12995;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26656;QR=13532;RO=378;RPL=748;RPP=1627.27;RPPR=815.164;RPR=0;RUN=1;SAF=0;SAP=1627.27;SAR=748;SRF=0;SRP=823.827;SRR=378;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:38,33:38:1368:33:1188:-85.8527,0,-102.048 0/1:54:23,31:23:820:31:1112:-84.1276,0,-57.8669 0/1:60:23,37:23:828:37:1316:-100.68,0,-56.7823 0/1:45:18,27:18:636:27:963:-73.4368,0,-44.0217 0/1:140:70,70:70:2497:70:2471:-180.468,0,-182.837 1/1:30:0,30:0:0:30:1080:-97.4969,-9.0309,0 1/1:70:0,70:0:0:70:2483:-223.68,-21.0721,0 0/0:55:55,0:55:1980:0:0:0,-16.5566,-178.474 0/1:123:74,49:74:2660:49:1744:-120.215,0,-202.619 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 1/1:4:0,4:0:0:4:144:-13.3052,-1.20412,0 0/1:20:6,14:6:216:14:504:-39.6775,0,-13.7699 1/1:41:0,41:0:0:41:1468:-132.414,-12.3422,0 0/1:48:30,18:30:1059:18:644:-43.8388,0,-81.171 1/1:109:0,109:0:0:109:3881:-349.438,-32.8123,0 1/1:66:0,66:0:0:66:2366:-213.195,-19.868,0 1/1:57:0,57:0:0:57:2013:-181.211,-17.1587,0 0/1:55:28,27:28:1004:27:964:-70.5202,0,-74.1192 0/1:18:8,10:8:284:10:360:-27.3258,0,-20.4848 1/1:33:0,33:0:0:33:1184:-106.85,-9.93399,0 1/1:19:0,19:0:0:19:663:-59.9935,-5.71957,0 chr08 6162897 . T C 15277.3 PASS AB=0.497674;ABP=3.0406;AC=29;AF=0.690476;AN=42;AO=754;CIGAR=1X;DP=1131;DPB=1131;DPRA=0;EPP=1640.3;EPPR=812.993;GTI=0;LEN=1;MEANALT=1;MQM=59.6379;MQMR=60;NS=21;NUMALT=1;ODDS=4.37952;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26928;QR=13491;RO=377;RPL=754;RPP=1640.3;RPPR=812.993;RPR=0;RUN=1;SAF=0;SAP=1640.3;SAR=754;SRF=0;SRP=821.655;SRR=377;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:38,35:38:1364:35:1252:-91.0071,0,-101.086 0/1:54:22,32:22:784:32:1148:-87.366,0,-54.6283 0/1:58:23,35:23:828:35:1260:-96.2457,0,-57.3844 0/1:46:19,27:19:684:27:946:-71.6033,0,-48.0429 0/1:139:70,69:70:2497:69:2459:-179.647,0,-183.138 1/1:31:0,31:0:0:31:1112:-100.375,-9.33193,0 1/1:72:0,72:0:0:72:2572:-231.691,-21.6742,0 0/0:54:53,1:53:1896:1:36:0,-12.6573,-167.32 0/1:122:73,49:73:2628:49:1748:-120.877,0,-200.041 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 1/1:4:0,4:0:0:4:140:-12.9412,-1.20412,0 0/1:22:6,16:6:216:16:576:-45.5523,0,-13.1679 1/1:42:0,42:0:0:42:1504:-135.635,-12.6433,0 0/1:51:32,19:32:1118:19:676:-45.8108,0,-85.5709 1/1:111:0,111:0:0:111:3938:-354.572,-33.4143,0 1/1:64:0,64:0:0:64:2285:-205.909,-19.2659,0 1/1:57:0,57:0:0:57:2048:-184.031,-17.1587,0 0/1:55:29,26:29:1044:26:932:-67.6422,0,-77.7182 0/1:17:7,10:7:252:10:352:-26.9007,0,-17.9114 1/1:33:0,33:0:0:33:1188:-107.21,-9.93399,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 chr08 6203265 . C T 5056.57 PASS AB=0.564557;ABP=17.309;AC=13;AF=0.309524;AN=42;AO=281;CIGAR=1X;DP=749;DPB=749;DPRA=1.11092;EPP=613.194;EPPR=1014.92;GTI=0;LEN=1;MEANALT=1;MQM=59.9359;MQMR=60;NS=21;NUMALT=1;ODDS=2.88308;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10032;QR=16718;RO=466;RPL=0;RPP=613.194;RPPR=1014.92;RPR=281;RUN=1;SAF=0;SAP=613.194;SAR=281;SRF=0;SRP=1014.92;SRR=466;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:26:10,16:10:360:16:572:-43.9866,0,-24.9175 0/1:17:6,11:6:216:11:392:-30.5025,0,-14.673 0/1:23:6,17:6:216:17:608:-48.1283,0,-12.8668 0/1:33:14,19:14:500:19:679:-51.5048,0,-35.4022 0/1:61:25,36:25:885:36:1296:-98.5811,0,-61.6037 0/0:30:29,1:29:1025:1:36:0,-5.43262,-88.9624 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 1/1:57:0,57:0:0:57:2036:-183.512,-17.1587,0 0/1:82:27,55:27:972:55:1952:-151.269,0,-63.1134 0/1:8:4,4:4:140:4:144:-10.9054,0,-10.5363 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/0:65:64,0:64:2300:0:0:0,-19.2659,-206.901 0/1:38:14,24:14:504:24:849:-65.2887,0,-34.259 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:39:38,0:38:1364:0:0:0,-11.4391,-122.847 0/1:61:36,25:36:1296:25:892:-62.2369,0,-98.5811 0/1:32:22,10:22:792:10:360:-23.0244,0,-61.9727 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.136 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 chr08 6204083 . T C 11904.4 PASS AB=0.463953;ABP=16.3172;AC=13;AF=0.309524;AN=42;AO=681;CIGAR=1X;DP=2086;DPB=2086;DPRA=1.57356;EPP=1481.78;EPPR=3051.76;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.3598;MQMR=59.9373;NS=21;NUMALT=1;ODDS=6.30376;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24325;QR=50272;RO=1404;RPL=0;RPP=1481.78;RPPR=3051.76;RPR=681;RUN=1;SAF=681;SAP=1481.78;SAR=0;SRF=1404;SRP=3051.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:78,65:78:2773:65:2336:-167.313,0,-206.763 0/1:86:34,52:34:1208:52:1852:-140.925,0,-83.1375 0/1:81:35,46:35:1252:46:1656:-124.943,0,-88.6016 0/1:115:66,49:66:2359:49:1748:-122.985,0,-177.95 0/1:300:184,116:184:6584:116:4131:-280.732,0,-502.328 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.353 0/0:130:130,0:130:4653:0:0:0,-39.1339,-418.914 1/1:131:0,131:0:0:131:4683:-421.533,-39.4349,0 0/1:205:100,105:100:3583:105:3748:-275.592,0,-260.958 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:17:12,5:12:432:5:180:-11.4262,0,-34.1037 0/0:73:73,0:73:2615:0:0:0,-21.9752,-235.597 0/1:97:46,50:46:1652:50:1779:-131.257,0,-119.84 0/0:148:146,2:146:5233:2:72:0,-37.7157,-464.268 0/0:125:124,1:124:4441:1:36:0,-34.0305,-396.25 0/0:119:119,0:119:4255:0:0:0,-35.8226,-383.129 0/1:71:35,36:35:1260:36:1280:-94.0522,0,-92.3147 0/1:53:35,18:35:1248:18:644:-42.336,0,-96.6703 0/0:80:80,0:80:2876:0:0:0,-24.0824,-259.076 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.656 chr08 6206041 . G T 25151.3 PASS AB=0.509141;ABP=3.80426;AC=29;AF=0.690476;AN=42;AO=1242;CIGAR=1X;DP=1872;DPB=1872;DPRA=0.956452;EPP=2699.98;EPPR=1368.87;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7118;MQMR=59.744;NS=21;NUMALT=1;ODDS=3.55711;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44229;QR=22379;RO=629;RPL=1;RPP=2691.3;RPPR=1368.87;RPR=1241;RUN=1;SAF=1;SAP=2691.3;SAR=1241;SRF=0;SRP=1368.87;SRR=629;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:84,86:84:3012:86:3063:-224.695,0,-220.116 0/1:95:55,40:55:1949:40:1416:-98.7641,0,-147.078 0/1:110:43,67:43:1539:67:2392:-182.401,0,-105.684 0/1:94:35,58:35:1256:58:2072:-158.392,0,-84.9876 0/1:190:105,85:105:3728:85:3048:-217.349,0,-278.521 1/1:69:0,69:0:0:69:2429:-218.854,-20.7711,0 1/1:141:0,141:0:0:141:5009:-450.887,-42.4452,0 0/0:93:93,0:93:3300:0:0:0,-27.9958,-297.209 0/1:145:74,71:74:2624:71:2532:-184.425,0,-191.48 0/1:7:2,5:2:72:5:176:-14.0778,0,-4.72951 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:38:23,15:23:819:15:532:-36.7693,0,-62.5878 1/1:62:0,62:0:0:62:2184:-196.812,-18.6639,0 0/1:123:68,55:68:2409:55:1972:-140.711,0,-179.998 1/1:146:0,146:0:0:146:5212:-469.213,-43.9504,0 1/1:53:0,53:0:0:53:1885:-169.927,-15.9546,0 1/1:118:0,118:0:0:118:4192:-376.513,-35.5215,0 0/1:77:32,45:32:1135:45:1608:-121.831,0,-79.2742 0/1:45:15,30:15:536:30:1063:-82.4345,0,-35.0238 1/1:55:0,55:0:0:55:1976:-178.113,-16.5567,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 chr08 6206051 . TCG TCC,CCC 41666.2 PASS AB=0.508065,0.489247;ABP=3.64073,4.13106;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1271,641;CIGAR=2M1X,1X1M1X;DP=1916;DPB=1916;DPRA=0.969149,1.25024;EPP=2583.56,1259.42;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.8,2.15385;MQM=59.716,59.7332;MQMR=0;NS=21;NUMALT=2;ODDS=3.75957;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45366,22396;QR=0;RO=0;RPL=1251,625;RPP=2591.97,1259.42;RPPR=0;RPR=20,16;RUN=1,1;SAF=1,0;SAP=2754.27,1394.92;SAR=1270,641;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:172:0,86,86:0:0:86,86:3073,3021:-496.757,-246.216,-220.328,-250.895,0,-225.007 1/2:96:0,40,56:0:0:40,56:1422,1974:-276.68,-161.07,-149.028,-115.964,0,-99.1066 1/2:112:0,68,44:0:0:68,44:2426,1569:-326,-128.25,-107.78,-198.106,0,-184.861 1/2:97:0,61,36:0:0:61,36:2176,1254:-279.71,-102.32,-83.9576,-177.741,0,-166.904 1/2:198:0,90,108:0:0:90,108:3179,3743:-563.065,-304.557,-277.464,-258.858,0,-226.347 1/1:74:0,73,1:0:0:73,1:2612,36:-234.961,-21.9752,0,-232.032,-18.687,-231.731 1/1:145:0,144,0:0:0:144,0:5147,0:-462.82,-43.3483,0,-462.82,-43.3483,-462.82 2/2:94:0,0,94:0:0:0,94:0,3247:-292.444,-292.444,-292.444,-28.2968,-28.2968,0 1/2:145:0,71,72:0:0:71,72:2544,2523:-412.783,-205.356,-183.983,-207.493,0,-185.819 1/2:6:0,4,2:0:0:4,2:144,67:-17.5271,-5.76078,-4.55666,-12.1095,0,-11.5074 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:41:0,17,24:0:0:17,24:597,835:-116.824,-68.2393,-63.1218,-48.934,0,-41.7093 1/1:64:0,64,0:0:0:64,0:2270,0:-204.527,-19.2659,0,-204.527,-19.2659,-204.527 1/2:127:0,56,70:0:0:56,70:1978,2436:-359.106,-198.04,-181.182,-161.057,0,-139.985 1/1:145:0,145,0:0:0:145,0:5186,0:-466.869,-43.6494,0,-466.869,-43.6494,-466.869 1/1:56:0,56,0:0:0:56,0:2012,0:-181.353,-16.8577,0,-181.353,-16.8577,-181.353 1/1:123:0,123,0:0:0:123,0:4397,0:-394.94,-37.0267,0,-394.94,-37.0267,-394.94 1/2:78:0,45,33:0:0:45,33:1607,1158:-225.606,-94.5866,-81.0402,-131.373,0,-121.439 1/2:44:0,29,15:0:0:29,15:1040,533:-128.612,-43.7834,-35.0535,-85.1845,0,-80.669 1/1:56:0,56,0:0:0:56,0:2012,0:-181.353,-16.8577,0,-181.353,-16.8577,-181.353 1/1:38:0,38,0:0:0:38,0:1364,0:-123.061,-11.4391,0,-123.061,-11.4391,-123.061 chr08 6225962 . C T 36303.7 PASS AB=0.44981;ABP=43.3351;AC=29;AF=0.690476;AN=42;AO=1812;CIGAR=1X;DP=3093;DPB=3093;DPRA=0.533585;EPP=3894.41;EPPR=2758.67;GTI=1;LEN=1;MEANALT=1;MQM=59.7279;MQMR=59.8704;NS=21;NUMALT=1;ODDS=14.22;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64916;QR=45886;RO=1281;RPL=5;RPP=3894.41;RPPR=2758.67;RPR=1807;RUN=1;SAF=0;SAP=3937.72;SAR=1812;SRF=0;SRP=2784.67;SRR=1281;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:336:200,136:200:7159:136:4876:-337.792,0,-543.016 0/1:132:53,79:53:1896:79:2820:-214.281,0,-131.182 0/1:150:86,64:86:3076:64:2292:-161.335,0,-231.64 0/1:170:91,79:91:3268:79:2835:-204.203,0,-243.147 0/1:285:163,122:163:5844:122:4357:-306.508,0,-440.143 1/1:118:1,117:1:32:117:4191:-374.142,-32.3222,0 1/1:187:1,186:1:36:186:6680:-596.599,-52.6943,0 0/0:265:265,0:265:9489:0:0:0,-79.7729,-853.963 0/1:277:160,117:160:5740:117:4200:-294.767,0,-433.33 0/1:24:14,10:14:500:10:360:-25.5196,0,-38.1115 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:57:40,17:40:1436:17:597:-36.8983,0,-112.379 1/1:175:0,175:0:0:175:6276:-564.901,-52.6803,0 0/1:249:139,110:139:4966:110:3936:-279.307,0,-372.132 1/1:130:0,130:0:0:130:4642:-417.845,-39.1339,0 1/1:115:0,115:0:0:115:4128:-371.692,-34.6185,0 1/1:119:0,119:0:0:119:4276:-384.915,-35.8226,0 0/1:80:42,38:42:1508:38:1364:-98.9768,0,-111.918 0/1:83:26,57:26:936:57:2038:-158.433,0,-59.574 1/1:82:0,82:0:0:82:2936:-264.446,-24.6845,0 1/1:48:0,48:0:0:48:1716:-154.724,-14.4494,0 chr08 6289644 . A T 7065.39 PASS AB=0.398026;ABP=85.3834;AC=13;AF=0.309524;AN=42;AO=441;CIGAR=1X;DP=1715;DPB=1715;DPRA=1.5082;EPP=960.63;EPPR=2767.29;GTI=0;LEN=1;MEANALT=1.07143;MQM=57.8073;MQMR=58.8295;NS=21;NUMALT=1;ODDS=20.8847;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15760;QR=45535;RO=1273;RPL=0;RPP=960.63;RPPR=2767.29;RPR=441;RUN=1;SAF=441;SAP=960.63;SAR=0;SRF=1273;SRP=2767.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:76,40:76:2720:40:1424:-93.1002,0,-208.412 0/1:84:55,29:55:1980:29:1042:-68.7612,0,-152.063 0/1:92:50,42:50:1762:42:1512:-108.388,0,-131.059 0/1:42:27,15:27:960:15:528:-35.1974,0,-73.9849 0/1:130:95,35:95:3404:35:1252:-73.7638,0,-267.296 0/0:52:52,0:52:1868:0:0:0,-15.6536,-167.752 0/0:87:86,1:86:3084:1:32:0,-23.0108,-274.528 1/1:73:0,73:0:0:73:2609:-234.819,-21.9752,0 0/1:105:64,40:64:2296:40:1432:-97.4789,0,-175.148 0/1:18:10,8:10:360:8:288:-20.7627,0,-27.2685 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2665 0/1:31:14,17:14:500:17:612:-45.9479,0,-35.9685 0/0:163:163,0:163:5837:0:0:0,-49.0679,-525.179 0/1:108:58,50:58:2060:50:1773:-126.268,0,-152.841 0/0:216:212,4:212:7570:4:144:0,-51.7089,-667.742 0/0:62:62,0:62:2224:0:0:0,-18.6639,-200.173 0/0:54:54,0:54:1932:0:0:0,-16.2556,-173.717 0/1:120:54,66:54:1944:66:2368:-176.738,0,-138.879 0/1:66:45,21:45:1616:21:744:-47.3704,0,-125.738 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.487 0/0:48:48,0:48:1694:0:0:0,-14.4494,-152.381 chr08 6289686 . TTTTA GTTTG,TTTTG 33461.5 PASS AB=0.6292,0.360371;ABP=128.138,149.153;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1260,383;CIGAR=1X3M1X,4M1X;DP=1657;DPB=1658.2;DPRA=1.16838,1.3801;EPP=2739.07,834.684;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.3,2.69231;MQM=58.8627,58.2846;MQMR=0;NS=21;NUMALT=2;ODDS=14.0775;PAIRED=0,0;PAIREDR=0;PAO=2,1;PQA=46,18;PQR=18;PRO=1;QA=43721,13318;QR=0;RO=0;RPL=1260,383;RPP=2739.07,834.684;RPPR=0;RPR=0,0;RUN=1,1;SAF=1260,383;SAP=2739.07,834.684;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,74,39:0:0:74,39:2520,1369:-315.118,-111.29,-89.0136,-204.174,0,-192.434 1/2:82:0,55,26:0:0:55,26:1908,919:-229.164,-74.9482,-58.3916,-154.342,0,-146.515 1/2:87:0,49,37:0:0:49,37:1741,1300:-247.668,-105.866,-91.1155,-141.895,0,-130.757 1/2:36:0,26,10:0:0:26,10:910,352:-102.652,-28.6851,-20.8583,-73.9947,0,-70.9844 1/2:126:0,95,31:0:0:95,31:3296,1096:-357.099,-89.3945,-60.7967,-267.851,0,-258.519 1/1:52:0,51,0:0:0:51,0:1803,0:-161.992,-15.3525,0,-161.992,-15.3525,-161.992 1/1:87:0,86,0:0:0:86,0:2976,0:-267.66,-25.8886,0,-267.66,-25.8886,-267.66 2/2:68:0,0,68:0:0:0,68:0,2369:-213.299,-213.299,-213.299,-20.47,-20.47,0 1/2:100:0,65,34:0:0:65,34:2249,1178:-278.441,-95.7087,-76.1418,-182.719,0,-172.484 1/2:19:0,10,8:0:0:10,8:352,284:-51.777,-23.1477,-20.1374,-28.7168,0,-26.3086 1/1:8:0,8,0:0:0:8,0:272,0:-24.8103,-2.40824,0,-24.8103,-2.40824,-24.8103 1/2:29:0,14,15:0:0:14,15:480,509:-80.4865,-41.5622,-37.3478,-39.2649,0,-34.7495 1/1:162:0,161,0:0:0:161,0:5590,0:-502.94,-48.4658,0,-502.94,-48.4658,-502.94 1/2:89:0,57,31:0:0:57,31:1932,1014:-238.162,-81.5165,-64.3578,-156.723,0,-147.391 1/1:215:0,210,4:0:0:210,4:7343,144:-660.426,-63.2163,0,-648.677,-51.3786,-647.472 1/1:62:0,62,0:0:0:62,0:2153,0:-194.001,-18.6639,0,-194.001,-18.6639,-194.001 1/1:54:0,54,0:0:0:54,0:1885,0:-169.856,-16.2556,0,-169.856,-16.2556,-169.856 1/2:117:0,54,61:0:0:54,61:1855,2138:-324.451,-173.943,-157.688,-150.595,0,-132.232 1/2:65:0,44,19:0:0:44,19:1493,646:-173.434,-52.4294,-39.1841,-121.053,0,-115.334 1/1:39:0,39,0:0:0:39,0:1374,0:-123.907,-11.7402,0,-123.907,-11.7402,-123.907 1/1:47:0,46,0:0:0:46,0:1589,0:-142.699,-13.8474,0,-142.699,-13.8474,-142.699 chr08 6289892 . AACAG AACACAG,AACAAAG 46549 PASS AB=0.519469,0.476991;ABP=6.73063,8.20646;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1538,676;CIGAR=1M2I4M,3M2I2M;DP=2223;DPB=3111;DPRA=0,0.999728;EPP=3342.73,1470.93;EPPR=5.18177;GTI=0;LEN=2,2;MEANALT=1.85714,2.30769;MQM=57.3466,57.4349;MQMR=60;NS=21;NUMALT=2;ODDS=14.7331;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54256,23867;QR=35;RO=1;RPL=1538,676;RPP=3342.73,1470.93;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3342.73,1470.93;SAR=1538,676;SRF=0;SRP=5.18177;SRR=1;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:124:0,56,68:0:0:56,68:1936,2370:-349.793,-192.772,-175.914,-157.368,0,-136.898 1/2:121:0,53,68:0:0:53,68:1851,2413:-346.62,-196.524,-180.57,-150.446,0,-129.976 1/2:100:0,49,51:0:0:49,51:1710,1789:-284.92,-145.875,-131.125,-139.394,0,-124.041 1/2:125:1,61,63:1:35:61,63:2157,2205:-351.73,-176.486,-160.971,-172.699,0,-156.581 1/2:228:0,125,102:0:0:125,102:4435,3629:-656.107,-295.28,-257.652,-360.861,0,-330.156 1/1:109:0,105,2:0:0:105,2:3676,72:-329.937,-31.6082,0,-324.068,-25.7382,-323.466 1/1:139:0,139,0:0:0:139,0:4885,0:-438.588,-41.8432,0,-438.588,-41.8432,-438.588 2/2:137:0,1,135:0:0:1,135:32,4771:-428.73,-426.152,-425.851,-40.6391,-38.0813,0 1/2:121:0,66,53:0:0:66,53:2344,1876:-343.775,-152.806,-132.938,-191.002,0,-175.048 1/2:16:0,11,5:0:0:11,5:396,180:-47.3337,-15.039,-11.7277,-32.6543,0,-31.1492 1/1:11:0,11,0:0:0:11,0:396,0:-35.9457,-3.31133,0,-35.9457,-3.31133,-35.9457 1/2:28:0,15,13:0:0:15,13:540,460:-81.7086,-37.6665,-33.1511,-44.3978,0,-40.4844 1/1:109:0,109,0:0:0:109,0:3888,0:-349.881,-32.8123,0,-349.881,-32.8123,-349.881 1/2:97:0,50,47:0:0:50,47:1776,1657:-279.833,-135.248,-120.197,-144.938,0,-130.79 1/1:227:0,227,0:0:0:227,0:8014,0:-720.839,-68.3338,0,-720.839,-68.3338,-720.839 1/1:68:0,66,0:0:0:66,0:2333,0:-209.799,-19.868,0,-209.799,-19.868,-209.799 1/1:131:0,131,0:0:0:131,0:4625,0:-416.31,-39.4349,0,-416.31,-39.4349,-416.31 1/2:119:0,61,58:0:0:61,58:2172,2057:-344.304,-167.523,-149.16,-177.136,0,-159.676 1/2:51:0,40,11:0:0:40,11:1402,388:-145.915,-31.9416,-19.9004,-114.326,0,-111.014 1/1:114:0,114,0:0:0:114,0:3991,0:-359.015,-34.3174,0,-359.015,-34.3174,-359.015 1/1:48:0,48,0:0:0:48,0:1697,0:-152.76,-14.4494,0,-152.76,-14.4494,-152.76 chr08 6310295 . G A 30617.1 PASS AB=0.607648;ABP=124.095;AC=29;AF=0.690476;AN=42;AO=1452;CIGAR=1X;DP=2023;DPB=2023;DPRA=0.971717;EPP=3010.06;EPPR=1234.25;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.18913;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51960;QR=20423;RO=571;RPL=17;RPP=3010.06;RPPR=1234.25;RPR=1435;RUN=1;SAF=1452;SAP=3155.99;SAR=0;SRF=571;SRP=1242.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:18,45:18:644:45:1592:-124.603,0,-39.3257 0/1:46:12,34:12:432:34:1220:-96.2594,0,-25.3738 0/1:47:11,36:11:396:36:1296:-102.796,0,-21.8343 0/1:41:14,27:14:500:27:968:-75.0951,0,-32.9939 0/1:64:27,37:27:963:37:1324:-100.196,0,-67.72 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 1/1:85:0,85:0:0:85:3056:-275.268,-25.5876,0 0/0:99:99,0:99:3556:0:0:0,-29.802,-320.247 0/1:102:44,58:44:1572:58:2046:-153.702,0,-111.067 0/1:298:128,170:128:4576:170:6080:-457.595,0,-322.299 1/1:328:0,328:0:0:328:11725:-1055.11,-98.7378,0 0/1:147:60,87:60:2152:87:3113:-236.144,0,-149.696 1/1:69:0,69:0:0:69:2469:-222.463,-20.7711,0 0/1:53:12,41:12:432:41:1468:-116.462,0,-23.2666 1/1:49:0,49:0:0:49:1764:-159.044,-14.7505,0 1/1:40:0,40:0:0:40:1440:-129.898,-12.0412,0 1/1:42:0,42:0:0:42:1512:-136.375,-12.6433,0 0/1:330:143,187:143:5092:187:6699:-503.643,0,-359.084 0/1:12:3,9:3:108:9:320:-25.53,0,-6.46281 1/1:56:0,56:0:0:56:2004:-180.634,-16.8577,0 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 chr08 6310304 . C T 9535.96 PASS AB=0.39749;ABP=112.084;AC=13;AF=0.309524;AN=42;AO=575;CIGAR=1X;DP=2014;DPB=2014;DPRA=1.35083;EPP=1251.61;EPPR=3103.9;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.68956;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20592;QR=51033;RO=1436;RPL=575;RPP=1251.61;RPPR=3103.9;RPR=0;RUN=1;SAF=575;SAP=1251.61;SAR=0;SRF=1436;SRP=3121.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:44,19:44:1580:19:684:-42.9254,0,-123.527 0/1:44:32,12:32:1144:12:428:-25.6135,0,-90.0242 0/1:46:35,11:35:1252:11:396:-22.1354,0,-99.1377 0/1:41:27,14:27:959:14:500:-32.9939,0,-74.2832 0/1:64:37,27:37:1297:27:972:-68.532,0,-97.763 0/0:34:34,0:34:1207:0:0:0,-10.235,-108.935 0/0:85:85,0:85:3039:0:0:0,-25.5875,-273.74 1/1:100:0,100:0:0:100:3596:-323.845,-30.103,0 0/1:99:55,44:55:1972:44:1572:-111.969,0,-147.953 0/1:300:171,129:171:6074:129:4616:-325.295,0,-456.456 0/0:330:329,0:329:11679:0:0:0,-99.0389,-1050.62 0/1:147:87,60:87:3100:60:2152:-149.696,0,-234.977 0/0:71:71,0:71:2532:0:0:0,-21.3731,-228.132 0/1:50:38,12:38:1364:12:417:-22.8087,0,-108.009 0/0:50:50,0:50:1762:0:0:0,-15.0515,-158.859 0/0:40:39,0:39:1400:0:0:0,-11.7402,-125.939 0/0:42:42,0:42:1495:0:0:0,-12.6433,-134.844 0/1:328:184,143:184:6471:143:5115:-361.845,0,-483.83 0/1:13:9,4:9:324:4:144:-9.40023,0,-25.5925 0/0:51:51,0:51:1806:0:0:0,-15.3525,-162.82 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 chr08 6323138 . 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T C 2959.8 PASS AB=0.346087;ABP=121.323;AC=13;AF=0.309524;AN=42;AO=220;CIGAR=1X;DP=1201;DPB=1201;DPRA=0.848134;EPP=480.734;EPPR=2128.88;GTI=2;LEN=1;MEANALT=1.07692;MQM=59.6455;MQMR=59.9254;NS=21;NUMALT=1;ODDS=1.66777;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7882;QR=35059;RO=979;RPL=0;RPP=480.734;RPPR=2128.88;RPR=220;RUN=1;SAF=0;SAP=480.734;SAR=220;SRF=0;SRP=2128.88;SRR=979;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:54,31:54:1936:31:1116:-75.1403,0,-148.929 0/1:44:36,8:36:1296:8:288:-13.0221,0,-103.699 0/1:36:25,11:25:892:11:396:-25.1457,0,-69.7626 0/1:76:54,22:54:1932:22:792:-48.7212,0,-151.272 0/1:93:60,33:60:2148:33:1184:-78.8648,0,-165.592 0/0:103:100,3:100:3577:3:99:0,-21.7695,-312.893 0/0:99:99,0:99:3549:0:0:0,-29.802,-319.608 1/1:18:0,18:0:0:18:640:-57.9247,-5.41854,0 0/1:105:60,43:60:2156:43:1548:-108.141,0,-162.941 0/1:9:3,6:3:104:6:216:-17.0704,0,-6.99354 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:14:10,4:10:360:4:144:-9.0992,0,-28.5299 0/0:124:124,0:124:4440:0:0:0,-37.3277,-399.614 0/1:50:39,11:39:1404:11:396:-20.9312,0,-111.608 0/0:76:76,0:76:2736:0:0:0,-22.8783,-246.324 0/0:40:40,0:40:1428:0:0:0,-12.0412,-128.818 0/0:68:68,0:68:2429:0:0:0,-20.47,-218.864 0/1:38:19,19:19:680:19:676:-49.7182,0,-50.09 0/1:25:14,11:14:496:11:387:-27.6402,0,-37.4485 0/0:64:64,0:64:2276:0:0:0,-19.2659,-205.092 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 chr08 6379154 . GTTCC GTTTCC 107504 PASS AB=0.463141;ABP=47.1914;AC=29;AF=0.690476;AN=42;AO=4308;CIGAR=1M1I4M;DP=6691;DPB=7555.4;DPRA=0.933971;EPP=9357.71;EPPR=5062.54;GTI=0;LEN=1;MEANALT=3;MQM=50.9099;MQMR=59.9597;NS=21;NUMALT=1;ODDS=7.16986;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=148866;QR=79923;RO=2330;RPL=2397;RPP=122.066;RPPR=4.50144;RPR=1911;RUN=1;SAF=2397;SAP=122.066;SAR=1911;SRF=1145;SRP=4.50144;SRR=1185;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:456:288,168:288:9859:168:5737:-375.622,0,-750.041 0/1:315:149,164:149:5091:164:5654:-405.68,0,-363.69 0/1:260:134,123:134:4675:123:4301:-306.617,0,-343.201 0/1:394:199,193:199:6818:193:6697:-478.829,0,-495.358 0/1:717:361,348:361:12468:348:12066:-862.762,0,-908.224 1/1:366:3,358:3:104:358:12114:-1061.53,-99.3145,0 1/1:412:0,409:0:0:409:14196:-1254.56,-123.121,0 0/0:340:339,0:339:11572:0:0:0,-102.049,-1041.06 0/1:640:341,294:341:11753:294:10212:-723.298,0,-866.212 0/1:46:24,22:24:818:22:750:-53.452,0,-60.0857 1/1:36:0,36:0:0:36:1258:-111.43,-10.8371,0 0/1:109:61,47:61:2119:47:1614:-110.874,0,-158.109 1/1:355:0,351:0:0:351:12187:-1084.97,-105.662,0 0/1:372:211,158:211:7108:158:5512:-380.763,0,-528.437 1/1:425:1,419:1:26:419:14505:-1294.14,-124.109,0 1/1:293:0,293:0:0:293:10068:-900.092,-88.2018,0 1/1:287:0,284:0:0:284:9847:-880.064,-85.4925,0 0/1:242:140,101:140:4786:101:3476:-236.548,0,-358.026 0/1:193:75,116:75:2582:116:3955:-294.822,0,-174.796 1/1:284:4,275:4:144:275:9645:-843.28,-71.0197,0 1/1:149:0,149:0:0:149:5072:-447.378,-44.8535,0 chr08 6379163 . T G 121714 PASS AB=0.489395;ABP=6.78707;AC=29;AF=0.690476;AN=42;AO=4730;CIGAR=1X;DP=7052;DPB=7052;DPRA=0.990118;EPP=10274.1;EPPR=5038.65;GTI=0;LEN=1;MEANALT=1.15;MQM=51.2397;MQMR=59.9495;NS=21;NUMALT=1;ODDS=26.2593;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=166625;QR=82401;RO=2319;RPL=2527;RPP=51.2032;RPPR=6.49458;RPR=2203;RUN=1;SAF=2527;SAP=51.2032;SAR=2203;SRF=1129;SRP=6.49458;SRR=1190;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:473:282,190:282:10028:190:6664:-452.928,0,-760.057 0/1:329:148,180:148:5241:180:6401:-466.512,0,-372.463 0/1:271:135,136:135:4828:136:4761:-343.898,0,-353.096 0/1:402:202,200:202:7197:200:7050:-507.615,0,-526.674 0/1:737:361,376:361:12778:376:13237:-957.549,0,-927.885 1/1:402:3,399:3:108:399:14095:-1236.35,-110.939,0 1/1:440:0,440:0:0:440:15517:-1369.82,-132.453,0 0/0:339:339,0:339:12034:0:0:0,-102.049,-1082.91 0/1:663:339,324:339:12097:324:11384:-819.81,0,-888.997 0/1:49:25,24:25:896:24:852:-61.532,0,-66.2099 1/1:41:0,41:0:0:41:1445:-128.426,-12.3422,0 0/1:113:63,50:63:2225:50:1719:-119.174,0,-166.497 1/1:387:0,387:0:0:387:13666:-1214.29,-116.499,0 0/1:376:207,169:207:7369:169:5951:-417.566,0,-550.071 1/1:469:1,468:1:32:468:16503:-1469.97,-137.984,0 1/1:313:0,312:0:0:312:10998:-982.068,-93.9214,0 1/1:315:0,315:0:0:315:11115:-993.692,-94.8245,0 0/1:252:140,112:140:4948:112:3911:-272.038,0,-369.587 0/1:201:70,131:70:2476:131:4637:-352.83,0,-162.588 1/1:313:4,309:4:144:309:10863:-950.14,-80.9088,0 1/1:167:0,167:0:0:167:5856:-515.927,-50.272,0 chr08 6390312 . A G 24684.3 PASS AB=0.490695;ABP=3.77808;AC=29;AF=0.690476;AN=42;AO=1218;CIGAR=1X;DP=1862;DPB=1862;DPRA=0.732353;EPP=2639.18;EPPR=1392.77;GTI=0;LEN=1;MEANALT=1;MQM=59.9475;MQMR=59.9596;NS=21;NUMALT=1;ODDS=1.28069;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43359;QR=23100;RO=644;RPL=1;RPP=2639.18;RPPR=1392.77;RPR=1217;RUN=1;SAF=0;SAP=2647.86;SAR=1218;SRF=0;SRP=1401.44;SRR=644;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:51,49:51:1832:49:1755:-128.13,0,-135.058 0/1:81:38,43:38:1360:43:1544:-114.87,0,-98.3172 0/1:88:37,51:37:1324:51:1825:-138.04,0,-92.9715 0/1:93:58,35:58:2080:35:1240:-83.9064,0,-159.474 0/1:188:104,84:104:3728:84:2990:-212.738,0,-279.127 1/1:88:1,87:1:36:87:3117:-277.156,-22.8924,0 1/1:160:0,160:0:0:160:5711:-513.964,-48.1648,0 0/0:119:119,0:119:4268:0:0:0,-35.8226,-384.297 0/1:160:72,88:72:2588:88:3152:-235.739,0,-184.633 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:19:13,6:13:468:6:216:-14.0709,0,-36.7401 1/1:86:1,85:1:36:85:3015:-267.981,-22.2903,0 0/1:90:57,33:57:2040:33:1178:-79.2353,0,-156.779 1/1:143:0,143:0:0:143:5114:-460.402,-43.0473,0 1/1:46:0,46:0:0:46:1624:-146.446,-13.8474,0 1/1:47:0,47:0:0:47:1659:-149.595,-14.1484,0 0/1:102:49,53:49:1760:53:1879:-138.682,0,-127.979 0/1:88:33,55:33:1184:55:1949:-149.194,0,-80.3777 1/1:91:3,88:3:108:88:3114:-270.411,-17.3186,0 1/1:57:0,57:0:0:57:1989:-179.278,-17.1587,0 chr08 6390324 . C T 25129.1 PASS AB=0.494106;ABP=3.31746;AC=29;AF=0.690476;AN=42;AO=1228;CIGAR=1X;DP=1865;DPB=1865;DPRA=0.747009;EPP=2669.58;EPPR=1368.92;GTI=0;LEN=1;MEANALT=1;MQM=59.9479;MQMR=59.9592;NS=21;NUMALT=1;ODDS=2.15036;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44008;QR=22727;RO=637;RPL=1228;RPP=2669.58;RPPR=1368.92;RPR=0;RUN=1;SAF=0;SAP=2669.58;SAR=1228;SRF=0;SRP=1386.24;SRR=637;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:51,47:51:1828:47:1688:-122.706,0,-135.3 0/1:78:35,43:35:1256:43:1548:-116.133,0,-89.8649 0/1:89:37,52:37:1297:52:1864:-141.248,0,-90.2372 0/1:92:57,35:57:2023:35:1260:-86.0084,0,-154.648 0/1:191:105,86:105:3740:86:3096:-221.37,0,-279.306 1/1:92:1,91:1:36:91:3260:-290.022,-24.0965,0 1/1:162:0,162:0:0:162:5792:-521.186,-48.7669,0 0/0:117:117,0:117:4200:0:0:0,-35.2205,-378.18 0/1:159:71,88:71:2540:88:3152:-236.041,0,-180.797 0/1:11:8,3:8:288:3:108:-6.76384,0,-22.9561 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:19:13,6:13:464:6:216:-14.0709,0,-36.3779 1/1:86:1,85:1:36:85:3051:-271.221,-22.2903,0 0/1:90:54,36:54:1928:36:1288:-89.1309,0,-146.704 1/1:143:0,143:0:0:143:5103:-459.409,-43.0473,0 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 1/1:51:0,51:0:0:51:1828:-164.8,-15.3525,0 0/1:102:49,53:49:1752:53:1904:-140.928,0,-127.259 0/1:89:35,54:35:1231:54:1940:-148.085,0,-84.3016 1/1:91:3,88:3:108:88:3138:-272.571,-17.3186,0 1/1:56:0,56:0:0:56:2008:-180.985,-16.8577,0 chr08 6390333 . T C 24932 PASS AB=0.497053;ABP=3.08709;AC=29;AF=0.690476;AN=42;AO=1228;CIGAR=1X;DP=1861;DPB=1861;DPRA=0.752155;EPP=2669.58;EPPR=1375.38;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9479;MQMR=59.9589;NS=21;NUMALT=1;ODDS=2.5209;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43771;QR=21761;RO=632;RPL=1228;RPP=2669.58;RPPR=1375.38;RPR=0;RUN=1;SAF=0;SAP=2669.58;SAR=1228;SRF=0;SRP=1375.38;SRR=632;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:51,48:51:1764:48:1709:-124.292,0,-129.233 0/1:79:35,43:35:1229:43:1518:-113.186,0,-87.1885 0/1:91:39,52:39:1362:52:1872:-141.365,0,-95.4806 0/1:93:58,35:58:2040:35:1252:-84.9869,0,-155.874 0/1:188:102,86:102:3519:86:3083:-221.103,0,-260.322 1/1:91:1,90:1:36:90:3218:-286.244,-23.7955,0 1/1:160:0,160:0:0:160:5710:-513.81,-48.1648,0 0/0:116:116,0:116:3968:0:0:0,-34.9195,-357.306 0/1:159:70,89:70:2349:89:3151:-235.948,0,-163.773 0/1:12:8,4:8:265:4:144:-9.70126,0,-20.5597 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:18:12,6:12:374:6:212:-14.0063,0,-28.5412 1/1:87:1,86:1:36:86:3043:-270.5,-22.5913,0 0/1:90:55,35:55:1863:35:1241:-84.8998,0,-140.844 1/1:143:0,143:0:0:143:5132:-462.018,-43.0473,0 1/1:46:0,46:0:0:46:1621:-146.175,-13.8474,0 1/1:50:0,50:0:0:50:1773:-159.85,-15.0515,0 0/1:101:46,55:46:1637:55:1980:-148.066,0,-117.213 0/1:88:35,53:35:1226:53:1881:-143.076,0,-84.1491 1/1:90:3,87:3:93:87:3105:-270.999,-18.416,0 1/1:56:0,56:0:0:56:1982:-178.643,-16.8577,0 chr08 6405286 . CTTGC TTTGC,TTTGT 17238.4 PASS AB=0.465191,0.0553506;ABP=25.8373,3260.76;AC=19,1;AF=0.452381,0.0238095;AN=42;AO=1009,107;CIGAR=1X4M,1X3M1X;DP=2386;DPB=2438;DPRA=0.49977,0;EPP=2194.03,235.358;EPPR=2602.26;GTI=2;LEN=1,5;MEANALT=3.5,3.9375;MQM=60,59.785;MQMR=59.4102;NS=21;NUMALT=2;ODDS=0.373419;PAIRED=0,0;PAIREDR=0;PAO=72.5,0.5;PQA=2598,18;PQR=2598;PRO=72.5;QA=35979,3753;QR=41598;RO=1197;RPL=1009,107;RPP=2194.03,235.358;RPPR=2602.26;RPR=0,0;RUN=1,1;SAF=1009,107;SAP=2194.03,235.358;SAR=0,0;SRF=1197;SRP=2602.26;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:53,28,2:53:1823:28,2:1000,71:-65.5053,0,-139.528,-75.6756,-142.171,-223.101 0/1:23:11,10,2:11:396:10,2:360,72:-25.9528,0,-29.1896,-23.3937,-26.3287,-55.0894 0/1:166:112,49,1:112:3933:49,1:1756,36:-109.345,0,-305.177,-140.123,-316.99,-459.905 0/1:152:93,51,3:93:3243:51,3:1802,108:-118.652,0,-248.003,-137.836,-254.543,-400.392 0/1:109:58,44,1:58:2023:44,1:1580,29:-111.429,0,-150.98,-126.582,-161.917,-290.507 0/1:52:25,27,0:25:863:27,0:972,0:-71.8392,0,-62.0239,-79.365,-70.1518,-149.463 0/1:128:28,83,11:28:956:83,11:2953,375:-232.159,0,-52.4371,-210.166,-47.0097,-284.334 0/0:217:213,0,2:213:7376:0,2:0,72:0,-64.1194,-663.552,-58.2446,-657.677,-657.075 0/1:259:162,85,5:162:5645:85,5:3048,177:-199.834,0,-433.242,-234.183,-444.411,-691.513 0/2:145:98,8,31:98:3392:8,31:273,1075:-57.8153,-65.173,-338.22,0,-253.254,-266.071 0/1:47:30,7,4:30:1018:7,4:252,139:-11.4782,0,-80.2252,-9.25033,-71.0496,-90.4043 0/1:85:44,26,9:44:1540:26,9:923,324:-61.9455,0,-117.132,-48.755,-98.5213,-171.017 0/1:286:38,225,20:38:1337:225,20:7965,708:-637.321,0,-40.9454,-591.089,-51.0114,-693.767 0/1:122:73,39,5:73:2534:39,5:1396,180:-91.756,0,-194.112,-99.0471,-191.165,-303.499 0/1:89:20,67,0:20:696:67,0:2404,0:-189.952,0,-36.1202,-195.973,-56.2892,-252.378 0/1:29:10,18,0:10:359:18,0:644,0:-49.502,0,-23.1632,-52.5123,-28.5817,-81.0997 0/1:37:23,12,0:23:801:12,0:428,0:-28.0212,0,-61.5734,-34.9449,-65.1858,-100.08 0/1:116:67,38,4:67:2299:38,4:1368,144:-91.4266,0,-175.063,-99.8466,-174.752,-285.173 0/1:65:19,46,0:19:669:46,0:1652,0:-129.298,0,-40.8692,-135.018,-54.7165,-189.48 0/1:135:14,117,4:14:495:117,4:4184,136:-336.913,0,-5.00907,-330.097,-29.2044,-369.152 0/1:39:6,29,3:6:200:29,3:1019,107:-81.1144,0,-7.43381,-74.2042,-7.44464,-89.4856 chr08 6405307 . CTG TTG 16625.6 PASS AB=0.451015;ABP=50.2384;AC=19;AF=0.452381;AN=42;AO=1031;CIGAR=1X2M;DP=2657;DPB=2660.67;DPRA=0.562212;EPP=2241.8;EPPR=1531.78;GTI=1;LEN=1;MEANALT=2.15;MQM=59.9486;MQMR=58.7989;NS=21;NUMALT=1;ODDS=17.459;PAIRED=0;PAIREDR=0;PAO=5.5;PQA=122;PQR=0;PRO=0;QA=36736;QR=54505;RO=1566;RPL=1031;RPP=2241.8;RPPR=1531.78;RPR=0;RUN=1;SAF=1031;SAP=2241.8;SAR=0;SRF=1566;SRP=3403.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:61,28:61:2106:28:995:-62.7127,0,-162.593 0/1:27:18,9:18:644:9:305:-19.5959,0,-50.0664 0/1:181:130,50:130:4535:50:1775:-105.526,0,-353.455 0/1:176:120,52:120:4130:52:1837:-113.456,0,-319.476 0/1:114:62,47:62:2178:47:1671:-117.503,0,-163.051 0/1:57:31,26:31:1087:26:936:-67.4008,0,-80.9754 0/1:165:75,86:75:2629:86:3029:-224.005,0,-186.83 0/0:217:216,0:216:7475:0:0:0,-65.0225,-672.456 0/1:285:195,83:195:6822:83:2976:-184.041,0,-529.797 0/0:174:158,9:158:5518:9:320:0,-21.4756,-467.378 0/1:72:60,7:60:2095:7:252:-2.49697,0,-167.778 0/1:88:55,24:55:1902:24:860:-53.5825,0,-147.226 0/1:309:72,233:72:2484:233:8312:-655.899,0,-131.368 0/1:153:110,42:110:3871:42:1504:-89.627,0,-302.292 0/1:92:24,65:24:820:65:2319:-181.834,0,-46.935 0/1:33:13,17:13:461:17:608:-45.6835,0,-32.4031 0/1:45:33,12:33:1144:12:432:-25.6748,0,-89.5396 0/1:130:80,46:80:2752:46:1630:-108.701,0,-209.559 0/1:67:21,46:21:743:46:1648:-128.44,0,-46.983 0/1:143:21,121:21:734:121:4332:-346.973,0,-23.2161 0/1:39:11,28:11:375:28:995:-78.1238,0,-22.3361 chr08 6405361 . T C 4694.04 PASS AB=0.355698;ABP=172.845;AC=11;AF=0.261905;AN=42;AO=336;CIGAR=1X;DP=1638;DPB=1638;DPRA=1.16553;EPP=732.625;EPPR=2752.63;GTI=0;LEN=1;MEANALT=1;MQM=59.8274;MQMR=56.5069;NS=21;NUMALT=1;ODDS=25.4486;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12023;QR=46535;RO=1302;RPL=0;RPP=732.625;RPPR=2752.63;RPR=336;RUN=1;SAF=0;SAP=732.625;SAR=336;SRF=0;SRP=2830.27;SRR=1302;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:33,15:33:1188:15:540:-34.4871,0,-91.2444 0/1:19:10,9:10:360:9:324:-23.7863,0,-24.5909 0/1:103:78,25:78:2804:25:900:-50.3149,0,-218.571 0/1:95:71,24:71:2548:24:864:-49.4847,0,-198.93 0/1:112:71,41:71:2552:41:1464:-98.3251,0,-194.008 0/0:41:40,1:40:1421:1:36:0,-8.74395,-124.535 0/0:124:124,0:124:4410:0:0:0,-37.3277,-396.701 0/1:45:9,36:9:309:36:1273:-101.325,0,-13.6985 0/1:211:126,85:126:4501:85:3042:-210.361,0,-339.51 0/0:92:91,1:91:3237:1:36:0,-24.0965,-284.415 0/0:59:59,0:59:2101:0:0:0,-17.7608,-188.613 0/1:51:34,17:34:1220:17:612:-40.0609,0,-92.1353 0/0:100:100,0:100:3584:0:0:0,-30.103,-321.642 0/1:116:76,40:76:2724:40:1432:-94.2576,0,-208.398 0/0:89:89,0:89:3188:0:0:0,-26.7917,-285.532 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.7583 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0789 0/1:84:60,24:60:2156:24:864:-52.796,0,-164.11 0/1:55:37,18:37:1279:18:636:-41.0091,0,-97.3032 0/0:117:117,0:117:4181:0:0:0,-35.2205,-374.115 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.429 chr08 6405371 . TGAAGTA GGAAGTA 14448.6 PASS AB=0.456376;ABP=27.6398;AC=24;AF=0.571429;AN=42;AO=815;CIGAR=1X6M;DP=1646;DPB=1667.71;DPRA=0;EPP=1755.43;EPPR=1427.55;GTI=1;LEN=1;MEANALT=3.47619;MQM=57.1656;MQMR=59.9744;NS=21;NUMALT=1;ODDS=0.777658;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29086;QR=23527;RO=664;RPL=813;RPP=1755.43;RPPR=1427.55;RPR=2;RUN=1;SAF=0;SAP=1772.76;SAR=815;SRF=0;SRP=1444.87;SRR=664;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:14,30:14:501:30:1072:-82.8516,0,-31.8223 1/1:19:1,16:1:36:16:560:-47.1126,-1.84243,0 0/1:103:40,47:40:1423:47:1680:-124.702,0,-101.838 0/1:94:23,63:23:801:63:2242:-174.992,0,-46.1764 0/1:115:38,68:38:1348:68:2432:-186.665,0,-89.3811 0/1:42:30,12:30:1070:12:424:-25.8007,0,-83.9689 0/1:124:80,30:80:2828:30:1076:-63.4399,0,-221.3 1/1:44:0,43:0:0:43:1536:-137.968,-12.9443,0 0/1:213:52,138:52:1838:138:4920:-384.8,0,-108.158 1/1:93:4,76:4:144:76:2718:-230.615,-11.1219,0 0/1:57:6,39:6:212:39:1396:-111.657,0,-5.52471 0/1:51:7,34:7:246:34:1220:-97.2069,0,-9.79997 0/1:100:60,31:60:2130:31:1112:-72.4761,0,-164.225 0/1:119:37,65:37:1297:65:2309:-176.78,0,-85.9881 0/1:89:67,19:67:2397:19:680:-35.2847,0,-189.806 0/1:21:10,8:10:358:8:284:-19.957,0,-26.7856 0/1:24:12,9:12:427:9:315:-22.0174,0,-32.0986 0/1:83:32,39:32:1143:39:1395:-103.76,0,-81.4855 0/1:56:32,23:32:1137:23:819:-57.0118,0,-85.7232 0/1:118:93,18:93:3260:18:648:-24.7333,0,-259.875 0/1:34:26,7:26:931:7:248:-12.3842,0,-73.8538 chr08 6405387 . T A 8177.14 PASS AB=0.363362;ABP=271.233;AC=21;AF=0.5;AN=42;AO=601;CIGAR=1X;DP=1654;DPB=1654;DPRA=0;EPP=1308.07;EPPR=2289.57;GTI=2;LEN=1;MEANALT=1;MQM=52.7404;MQMR=59.9668;NS=21;NUMALT=1;ODDS=3.51541;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21449;QR=37739;RO=1053;RPL=601;RPP=1308.07;RPPR=2289.57;RPR=0;RUN=1;SAF=0;SAP=1308.07;SAR=601;SRF=0;SRP=2289.57;SRR=1053;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:33,15:33:1188:15:536:-33.7808,0,-92.7792 0/1:20:10,10:10:360:10:356:-23.9268,0,-26.7237 0/1:103:67,36:67:2404:36:1288:-82.3712,0,-185.61 0/1:99:51,48:51:1828:48:1712:-122.509,0,-134.999 0/1:114:80,34:80:2872:34:1220:-73.665,0,-224.399 0/1:42:31,11:31:1116:11:392:-22.9292,0,-88.1084 0/1:126:83,43:83:2946:43:1540:-100.61,0,-227.442 0/1:46:37,9:37:1332:9:324:-14.6786,0,-106.335 0/1:212:137,75:137:4912:75:2675:-175.241,0,-378.412 0/1:91:16,75:16:576:75:2676:-209.954,0,-24.7789 0/1:57:8,49:8:288:49:1760:-141.059,0,-9.1087 0/1:53:29,24:29:1044:24:864:-59.1753,0,-78.3202 0/1:100:64,36:64:2292:36:1280:-84.3519,0,-176.436 0/1:116:85,31:85:3037:31:1080:-61.1483,0,-238.637 0/1:89:69,20:69:2460:20:720:-36.8041,0,-194.863 0/1:20:11,9:11:396:9:320:-22.988,0,-29.9621 0/1:24:12,12:12:432:12:424:-31.268,0,-31.9965 0/1:85:62,23:62:2228:23:810:-43.3275,0,-175.196 0/1:57:50,7:50:1796:7:252:-4.30586,0,-144.75 0/1:118:92,26:92:3296:26:932:-46.3865,0,-261.309 0/1:34:26,8:26:936:8:288:-15.9937,0,-74.3244 chr08 6405388 . GTTTT GTTTC 22779 PASS AB=0.629864;ABP=164.876;AC=28;AF=0.666667;AN=42;AO=1178;CIGAR=4M1X;DP=1663;DPB=1663;DPRA=0;EPP=2561;EPPR=934.572;GTI=2;LEN=1;MEANALT=1.90476;MQM=56.899;MQMR=58.0093;NS=21;NUMALT=1;ODDS=4.0863;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42012;QR=15257;RO=429;RPL=1178;RPP=2561;RPPR=934.572;RPR=0;RUN=1;SAF=0;SAP=2561;SAR=1178;SRF=0;SRP=934.572;SRR=429;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:17,27:17:607:27:972:-73.9599,0,-41.2886 0/1:20:9,11:9:322:11:396:-27.5307,0,-23.3037 0/1:103:29,71:29:1038:71:2544:-196.19,0,-62.9925 0/1:99:30,66:30:1068:66:2329:-178.547,0,-67.1359 0/1:116:47,68:47:1664:68:2440:-182.765,0,-115.006 1/1:42:1,41:1:33:41:1468:-129.065,-9.34413,0 1/1:124:6,115:6:216:115:4060:-345.551,-17.019,0 0/0:46:42,4:42:1494:4:144:0,-1.26442,-121.919 0/1:212:90,119:90:3207:119:4245:-316.995,0,-224.971 0/1:92:17,64:17:601:64:2285:-178.182,0,-28.9505 1/1:58:4,52:4:140:52:1872:-155.399,-4.2935,0 0/1:53:20,29:20:711:29:1044:-76.3173,0,-49.1265 0/1:101:12,86:12:424:86:3065:-245.16,0,-8.61502 0/1:119:47,62:47:1665:62:2174:-161.344,0,-116.954 1/1:90:6,82:6:214:82:2936:-243.421,-7.30727,0 1/1:21:0,20:0:0:20:705:-63.2821,-6.0206,0 1/1:24:1,23:1:36:23:824:-70.8833,-3.62745,0 0/1:85:27,55:27:966:55:1976:-148.209,0,-62.1713 0/1:57:18,38:18:640:38:1360:-103.939,0,-40.7014 1/1:119:5,112:5:180:112:4005:-342.061,-19.1291,0 1/1:34:1,33:1:31:33:1168:-102.313,-7.14045,0 chr08 6411595 . G A 5063.29 PASS AB=0.462898;ABP=9.77793;AC=13;AF=0.309524;AN=42;AO=303;CIGAR=1X;DP=979;DPB=979;DPRA=1.28512;EPP=660.966;EPPR=1470.93;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.23598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10797;QR=23781;RO=676;RPL=0;RPP=660.966;RPPR=1470.93;RPR=303;RUN=1;SAF=0;SAP=660.966;SAR=303;SRF=0;SRP=1470.93;SRR=676;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:23,20:23:800:20:720:-52.1845,0,-59.3715 0/1:39:25,14:25:873:14:504:-33.9579,0,-67.1444 0/1:33:10,23:10:360:23:828:-64.9101,0,-22.8103 0/1:47:21,26:21:743:26:921:-69.0568,0,-53.0449 0/1:131:75,56:75:2618:56:1993:-140.209,0,-196.432 0/0:21:21,0:21:747:0:0:0,-6.32163,-67.5543 0/0:69:69,0:69:2433:0:0:0,-20.7711,-219.225 1/1:40:0,40:0:0:40:1424:-128.457,-12.0412,0 0/1:108:54,54:54:1927:54:1923:-140.835,0,-141.195 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:5:5,0:5:172:0:0:0,-1.50515,-15.818 0/1:5:3,2:3:99:2:72:-5.33157,0,-7.73143 0/0:34:34,0:34:1215:0:0:0,-10.235,-109.656 0/1:33:15,18:15:528:18:648:-48.7179,0,-37.9174 0/0:95:95,0:95:3341:0:0:0,-28.5978,-300.908 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.864 0/0:56:55,1:55:1941:1:36:0,-13.2594,-171.366 0/1:84:50,34:50:1753:34:1188:-81.9342,0,-132.765 0/1:38:26,12:26:909:12:432:-27.7821,0,-70.6843 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/0:33:33,0:33:1115:0:0:0,-9.93399,-100.647 chr08 6411602 . A G 13632.5 PASS AB=0.534031;ABP=8.77437;AC=29;AF=0.690476;AN=42;AO=683;CIGAR=1X;DP=996;DPB=996;DPRA=1.03261;EPP=1486.13;EPPR=682.681;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.67085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24104;QR=11142;RO=313;RPL=0;RPP=1486.13;RPPR=682.681;RPR=683;RUN=1;SAF=0;SAP=1486.13;SAR=683;SRF=0;SRP=682.681;SRR=313;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:21,23:21:756:23:828:-61.5988,0,-55.1219 0/1:39:14,25:14:504:25:855:-65.5193,0,-33.9579 0/1:34:23,11:23:807:11:396:-25.7477,0,-62.7141 0/1:48:27,21:27:960:21:752:-53.5568,0,-72.2668 0/1:134:57,77:57:2004:77:2724:-205.064,0,-140.293 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 1/1:70:0,70:0:0:70:2479:-223.361,-21.0721,0 0/0:46:46,0:46:1640:0:0:0,-13.8474,-147.889 0/1:107:54,53:54:1927:53:1859:-135.375,0,-141.496 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 1/1:34:0,34:0:0:34:1177:-106.23,-10.235,0 0/1:34:19,15:19:684:15:536:-38.3398,0,-51.6553 1/1:95:0,95:0:0:95:3360:-302.614,-28.5979,0 1/1:29:0,29:0:0:29:1029:-92.9211,-8.72987,0 1/1:57:0,57:0:0:57:2007:-180.9,-17.1587,0 0/1:87:35,52:35:1256:52:1824:-138.249,0,-87.1557 0/1:35:11,24:11:388:24:856:-66.8251,0,-24.7213 1/1:33:0,33:0:0:33:1151:-103.893,-9.93399,0 1/1:33:0,33:0:0:33:1159:-104.615,-9.93399,0 chr08 6450285 . GTGGTGC ATGGTGT,ATGGTGC 37507 PASS AB=0.495028,0.489503;ABP=3.20465,3.87649;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1235,530;CIGAR=1X5M1X,1X6M;DP=1782;DPB=1782;DPRA=1.01071,1.11413;EPP=2684.78,1153.89;EPPR=0;GTI=0;LEN=7,1;MEANALT=2.3,2.78571;MQM=53.6146,55.2264;MQMR=0;NS=21;NUMALT=2;ODDS=4.39059;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43883,18991;QR=0;RO=0;RPL=0,0;RPP=2684.78,1153.89;RPPR=0;RPR=1235,530;RUN=1,1;SAF=1235,530;SAP=2684.78,1153.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:71:0,34,37:0:0:34,37:1212,1328:-207.048,-108.426,-98.1905,-98.9796,0,-87.8415 1/1:38:0,38,0:0:0:38,0:1364,0:-122.334,-11.4391,0,-122.334,-11.4391,-122.334 1/2:94:0,41,53:0:0:41,53:1472,1904:-275.391,-155.532,-143.19,-120.218,0,-104.263 1/2:115:0,55,60:0:0:55,60:1968,2156:-335.739,-176.01,-159.453,-160.087,0,-142.025 1/2:228:0,114,110:0:0:114,110:4018,3937:-646.138,-320.432,-286.115,-325.727,0,-292.614 1/1:123:0,122,0:0:0:122,0:4336,0:-387.931,-36.7257,0,-387.931,-36.7257,-387.931 1/1:140:0,140,0:0:0:140,0:5012,0:-447.211,-42.1442,0,-447.211,-42.1442,-447.211 2/2:84:0,0,84:0:0:0,84:0,3001:-269.692,-269.692,-269.692,-25.2865,-25.2865,0 1/2:137:0,59,78:0:0:59,78:2079,2792:-396.762,-227.876,-210.115,-169.241,0,-145.76 1/2:6:0,5,1:0:0:5,1:180,36:-17.9563,-3.29214,-1.78699,-15.0234,0,-14.7224 1/1:5:0,5,0:0:0:5,0:180,0:-16.325,-1.50515,0,-16.325,-1.50515,-16.325 1/2:26:0,11,14:0:0:11,14:390,504:-72.4042,-41.0725,-37.7612,-31.3394,0,-27.125 1/1:114:0,113,1:0:0:113,1:4025,36:-361.263,-34.0164,0,-358.328,-30.7217,-358.027 1/2:95:0,57,38:0:0:57,38:2010,1353:-273.65,-110.359,-93.2,-163.645,0,-152.206 1/1:149:0,149,0:0:0:149,0:5254,0:-471.458,-44.8535,0,-471.458,-44.8535,-471.458 1/1:47:0,47,0:0:0:47,0:1692,0:-152.319,-14.1484,0,-152.319,-14.1484,-152.319 1/1:50:0,50,0:0:0:50,0:1752,0:-157.881,-15.0515,0,-157.881,-15.0515,-157.881 1/2:64:0,26,32:0:0:26,32:928,1152:-169,-93.8601,-86.0334,-75.1461,0,-65.5132 1/2:69:0,46,20:0:0:46,20:1618,720:-190.202,-58.6215,-44.7741,-131.593,0,-125.572 1/1:87:0,84,1:0:0:84,1:3001,36:-269.136,-25.2865,0,-266.203,-22.3465,-265.902 1/1:40:0,39,1:0:0:39,1:1392,36:-124.147,-11.7402,0,-121.217,-8.45197,-120.916 chr08 6450300 . C G 9218.8 PASS AB=0.487179;ABP=4.29091;AC=12;AF=0.285714;AN=42;AO=525;CIGAR=1X;DP=1780;DPB=1780;DPRA=1.22251;EPP=1143.03;EPPR=2708.69;GTI=0;LEN=1;MEANALT=1;MQM=55.1771;MQMR=53.4801;NS=21;NUMALT=1;ODDS=3.34997;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18828;QR=44808;RO=1254;RPL=0;RPP=1143.03;RPPR=2708.69;RPR=525;RUN=1;SAF=525;SAP=1143.03;SAR=0;SRF=1254;SRP=2726.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:35,34:35:1248:34:1220:-89.1667,0,-91.6866 0/0:38:38,0:38:1364:0:0:0,-11.4391,-122.432 0/1:95:42,53:42:1504:53:1904:-142.894,0,-106.84 0/1:114:55,59:55:1976:59:2112:-155.805,0,-142.753 0/1:228:118,110:118:4208:110:3956:-286.868,0,-307.787 0/0:124:124,0:124:4419:0:0:0,-37.3277,-395.261 0/0:145:145,0:145:5173:0:0:0,-43.6493,-461.511 1/1:85:0,85:0:0:85:3033:-272.567,-25.5876,0 0/1:136:58,78:58:2067:78:2796:-210.688,0,-144.993 0/1:6:5,1:5:180:1:36:-1.78699,0,-14.7224 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.0629 0/1:26:12,14:12:432:14:504:-37.8065,0,-30.7185 0/0:114:113,1:113:4060:1:36:0,-30.7217,-361.079 0/1:93:57,36:57:2022:36:1287:-87.967,0,-153.877 0/0:151:150,0:150:5344:0:0:0,-45.1545,-478.8 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.198 0/0:47:47,0:47:1667:0:0:0,-14.1484,-150.202 0/1:63:30,33:30:1080:33:1188:-87.9864,0,-77.006 0/1:67:48,19:48:1728:19:684:-41.5811,0,-135.327 0/0:88:86,2:86:3076:2:72:0,-19.7954,-269.267 0/0:38:38,0:38:1360:0:0:0,-11.4391,-121.764 chr08 6453566 . A C 27770.9 PASS AB=0.489152;ABP=4.04678;AC=29;AF=0.690476;AN=42;AO=1351;CIGAR=1X;DP=1949;DPB=1949;DPRA=1.24933;EPP=2936.67;EPPR=1297.21;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9808;MQMR=59.9933;NS=21;NUMALT=1;ODDS=10.8172;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48121;QR=21275;RO=596;RPL=0;RPP=2936.67;RPPR=1297.21;RPR=1351;RUN=1;SAF=1351;SAP=2936.67;SAR=0;SRF=596;SRP=1297.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:44,50:44:1553:50:1767:-131.016,0,-111.763 0/1:103:44,58:44:1576:58:2063:-154.876,0,-111.067 0/1:53:32,21:32:1144:21:756:-52.4126,0,-87.3149 0/1:79:40,39:40:1432:39:1396:-102.158,0,-105.396 0/1:183:99,84:99:3501:84:2988:-214.065,0,-260.209 1/1:114:1,113:1:36:113:4032:-359.467,-30.7191,0 1/1:154:0,154:0:0:154:5508:-495.845,-46.3586,0 0/0:75:75,0:75:2673:0:0:0,-22.5772,-240.814 0/1:151:80,71:80:2860:71:2544:-183.699,0,-212.182 0/1:24:12,12:12:424:12:432:-31.9965,0,-31.2717 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:41:19,22:19:684:22:779:-58.0898,0,-49.5481 1/1:97:0,97:0:0:97:3431:-309.005,-29.1999,0 0/1:92:48,44:48:1728:44:1572:-114.077,0,-128.111 1/1:195:1,194:1:36:194:6904:-617.832,-55.1026,0 1/1:78:0,78:0:0:78:2788:-251.161,-23.4803,0 1/1:61:0,61:0:0:61:2169:-195.476,-18.3628,0 0/1:124:75,49:75:2696:49:1730:-118.655,0,-205.556 0/1:70:24,46:24:860:46:1634:-126.275,0,-56.6497 1/1:78:2,75:2:72:75:2665:-233.272,-16.6758,0 1/1:77:0,77:0:0:77:2751:-247.832,-23.1793,0 chr08 6496197 . G T 26422.8 PASS AB=0.387435;ABP=171.18;AC=28;AF=0.666667;AN=42;AO=1405;CIGAR=1X;DP=2632;DPB=2632;DPRA=0;EPP=3053.93;EPPR=2656.56;GTI=3;LEN=1;MEANALT=1.04762;MQM=49.3381;MQMR=38.3173;NS=21;NUMALT=1;ODDS=4.42884;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49987;QR=43309;RO=1226;RPL=0;RPP=3053.93;RPPR=2656.56;RPR=1405;RUN=1;SAF=0;SAP=3053.93;SAR=1405;SRF=0;SRP=2665.24;SRR=1226;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:192:152,40:152:5388:40:1436:-69.6498,0,-397.874 0/0:87:80,7:80:2846:7:252:0,-3.31744,-220.608 0/1:179:98,81:98:3475:81:2904:-205.297,0,-239.838 0/1:141:93,48:93:3291:48:1688:-106.932,0,-236.834 0/1:206:150,56:150:5283:56:1999:-116.325,0,-384.808 1/1:75:2,72:2:72:72:2555:-222.02,-16.402,0 1/1:124:1,123:1:36:123:4376:-385.394,-33.7363,0 0/0:202:201,1:201:7110:1:36:0,-57.5619,-605.166 0/1:365:220,145:220:7793:145:5160:-350.532,0,-557.011 0/1:22:17,5:17:612:5:180:-9.87516,0,-45.831 1/1:11:0,11:0:0:11:396:-34.3838,-3.31133,0 0/1:55:20,35:20:699:35:1222:-92.0709,0,-43.2088 1/1:170:1,169:1:36:169:5991:-530.703,-47.7875,0 0/1:127:80,47:80:2825:47:1660:-109.642,0,-199.853 1/1:141:0,141:0:0:141:5035:-450.153,-42.4452,0 1/1:38:1,37:1:36:37:1302:-112.978,-7.98465,0 1/1:21:0,21:0:0:21:756:-68.0779,-6.32163,0 0/1:110:64,46:64:2246:46:1639:-112.816,0,-158.521 0/1:131:42,89:42:1430:89:3176:-245.508,0,-82.4138 1/1:192:2,190:2:72:190:6760:-595.138,-51.2929,0 1/1:43:2,41:2:59:41:1464:-125.266,-7.34749,0 chr08 6496205 . G C 21226.2 PASS AB=0.615483;ABP=184.065;AC=14;AF=0.333333;AN=42;AO=1249;CIGAR=1X;DP=2682;DPB=2682;DPRA=2.62018;EPP=2706.5;EPPR=3108.22;GTI=3;LEN=1;MEANALT=1.11765;MQM=38.2986;MQMR=49.4266;NS=21;NUMALT=1;ODDS=3.53842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44647;QR=50716;RO=1430;RPL=1;RPP=2706.5;RPPR=3108.22;RPR=1248;RUN=1;SAF=0;SAP=2715.18;SAR=1249;SRF=0;SRP=3108.22;SRR=1430;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:192:38,154:38:1356:154:5487:-404.746,0,-63.7622 1/1:87:7,80:7:248:80:2858:-222.49,-3.64903,0 0/1:186:85,99:85:3015:99:3524:-242.604,0,-213.813 0/1:144:50,94:50:1750:94:3372:-241.546,0,-111.615 0/1:214:56,158:56:1993:158:5663:-413.343,0,-113.802 0/0:76:74,2:74:2643:2:72:0,-16.6584,-229.846 0/0:127:125,1:125:4439:1:36:0,-34.6441,-391.308 1/1:200:0,200:0:0:200:7142:-611.088,-60.206,0 0/1:373:143,230:143:5096:230:8244:-591.895,0,-342.068 0/1:24:5,19:5:176:19:673:-50.6271,0,-8.91254 0/0:11:11,0:11:388:0:0:0,-3.31133,-34.3525 0/1:55:35,20:35:1233:20:720:-44.7092,0,-92.8184 0/0:173:172,1:172:6105:1:36:0,-48.6906,-541.069 0/1:133:51,82:51:1824:82:2904:-205.822,0,-122.35 0/0:146:146,0:146:5187:0:0:0,-43.9504,-463.63 0/0:40:39,1:39:1383:1:36:0,-8.58671,-120.518 0/0:23:23,0:23:820:0:0:0,-6.92369,-73.8235 0/1:110:46,64:46:1608:64:2300:-162.328,0,-110.544 0/1:132:90,42:90:3179:42:1512:-87.481,0,-245.502 0/0:195:193,2:193:6816:2:68:0,-52.4834,-600.687 0/0:41:41,0:41:1457:0:0:0,-12.3422,-130.457 chr08 6496209 . GAGATAGACA CAGAGAGA,GAGA 52159.8 PASS AB=0.40503,0.588352;ABP=121.384,105.46;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1443,1164;CIGAR=1X2M2D3M1X1M,3M6D1M;DP=2646;DPB=1649;DPRA=0.64267,2.24317;EPP=3041.63,2530.6;EPPR=0;GTI=2;LEN=8,6;MEANALT=3.3,3.5;MQM=49.3777,38.4287;MQMR=0;NS=21;NUMALT=2;ODDS=2.16376;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50764,41119;QR=0;RO=0;RPL=1432,1164;RPP=3041.63,2530.6;RPPR=0;RPR=11,0;RUN=1,1;SAF=0,0;SAP=3136.44,2530.6;SAR=1443,1164;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:185:0,42,141:0:0:42,141:1476,4993:-499.925,-380.886,-368.243,-119.107,0,-76.6615 2/2:84:0,6,78:0:0:6,78:216,2758:-236.818,-219.335,-217.529,-23.4803,-5.64239,0 1/2:183:0,85,97:0:0:85,97:3006,3435:-504.817,-261.63,-236.042,-243.27,0,-214.07 1/2:139:0,51,86:0:0:51,86:1795,3035:-376.518,-232.26,-216.908,-144.268,0,-118.38 1/2:203:0,55,147:0:0:55,147:1948,5198:-552.382,-395.015,-378.458,-157.365,0,-113.114 1/1:77:0,69,2:0:0:69,2:2433,72:-217.247,-20.7711,0,-211.957,-15.4857,-211.355 1/1:133:0,122,1:0:0:122,1:4308,36:-383.655,-36.7257,0,-380.724,-33.7933,-380.423 2/2:191:0,0,190:0:0:0,190:0,6686:-574.03,-574.03,-574.03,-57.1957,-57.1957,0 1/2:358:0,147,210:0:0:147,210:5143,7419:-989.996,-574.959,-530.708,-415.024,0,-351.808 1/2:22:0,5,17:0:0:5,17:175,587:-59.7069,-45.5086,-44.0034,-14.5426,0,-9.42513 1/1:12:0,12,0:0:0:12,0:404,0:-35.9205,-3.61236,0,-35.9205,-3.61236,-35.9205 1/2:55:0,36,19:0:0:36,19:1264,676:-153.566,-51.917,-41.0799,-101.988,0,-96.2683 1/1:177:0,173,1:0:0:173,1:6064,36:-541.961,-52.0782,0,-539.214,-49.3337,-538.913 1/2:124:0,53,70:0:0:53,70:1861,2445:-335.99,-186.34,-170.386,-149.689,0,-128.617 1/1:148:0,145,0:0:0:145,0:5107,0:-456.919,-43.6494,0,-456.919,-43.6494,-456.919 1/1:41:0,39,1:0:0:39,1:1384,36:-123.477,-11.7402,0,-120.67,-8.93922,-120.369 1/1:23:0,23,0:0:0:23,0:827,0:-74.4426,-6.92369,0,-74.4426,-6.92369,-74.4426 1/2:108:0,46,61:0:0:46,61:1616,2175:-296.817,-166.423,-152.576,-130.387,0,-112.024 1/2:134:0,92,41:0:0:92,41:3278,1464:-376.853,-110.719,-83.0243,-266.154,0,-253.812 1/1:202:0,198,1:0:0:198,1:6925,32:-618.065,-59.6039,0,-615.557,-57.1061,-615.256 1/1:47:0,44,1:0:0:44,1:1534,36:-137.016,-13.2453,0,-134.086,-10.3091,-133.785 chr08 6496233 . C T 21543.6 PASS AB=0.615819;ABP=188.616;AC=14;AF=0.333333;AN=42;AO=1276;CIGAR=1X;DP=2744;DPB=2744;DPRA=2.07608;EPP=2773.81;EPPR=3190.73;GTI=3;LEN=1;MEANALT=1;MQM=38.2555;MQMR=49.3604;NS=21;NUMALT=1;ODDS=3.80615;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45479;QR=52454;RO=1468;RPL=1276;RPP=2773.81;RPPR=3190.73;RPR=0;RUN=1;SAF=0;SAP=2773.81;SAR=1276;SRF=0;SRP=3190.73;SRR=1468;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:198:40,158:40:1421:158:5669:-417.764,0,-67.7738 1/1:89:7,82:7:252:82:2918:-226.543,-3.9195,0 0/1:185:84,101:84:3020:101:3605:-247.862,0,-213.847 0/1:151:52,99:52:1860:99:3482:-249.476,0,-119.186 0/1:215:56,159:56:2008:159:5643:-412.525,0,-114.417 0/0:78:76,2:76:2721:2:72:0,-17.2605,-235.074 0/0:131:131,0:131:4696:0:0:0,-39.4349,-417.884 1/1:208:0,208:0:0:208:7406:-632.973,-62.6142,0 0/1:384:148,236:148:5289:236:8431:-604.894,0,-356.084 0/1:25:5,20:5:180:20:720:-54.1719,0,-8.97207 0/0:12:12,0:12:428:0:0:0,-3.61236,-37.301 0/1:55:35,20:35:1256:20:716:-44.4353,0,-94.8618 0/0:177:176,1:176:6255:1:36:0,-49.8947,-553.704 0/1:135:53,82:53:1896:82:2913:-204.703,0,-128.031 0/0:145:145,0:145:5173:0:0:0,-43.6493,-462.908 0/0:40:39,1:39:1400:1:36:0,-8.58671,-122.02 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.5305 0/1:109:46,63:46:1644:63:2252:-158.73,0,-114.049 0/1:136:93,43:93:3340:43:1544:-89.0687,0,-258.68 0/0:200:199,1:199:7102:1:36:0,-56.7824,-628.959 0/0:48:48,0:48:1685:0:0:0,-14.4494,-150.84 chr08 6508372 . C T 7126.21 PASS AB=0.48954;ABP=3.69172;AC=13;AF=0.309524;AN=42;AO=391;CIGAR=1X;DP=1283;DPB=1283;DPRA=1.03637;EPP=852.056;EPPR=1939.96;GTI=1;LEN=1;MEANALT=1;MQM=59.8798;MQMR=59.9933;NS=21;NUMALT=1;ODDS=2.04539;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14007;QR=31833;RO=892;RPL=11;RPP=759.199;RPPR=1506.96;RPR=380;RUN=1;SAF=11;SAP=759.199;SAR=380;SRF=53;SRP=1506.96;SRR=839;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:50,50:50:1758:50:1788:-131.061,0,-128.397 0/1:86:43,43:43:1525:43:1540:-113.004,0,-111.653 0/1:52:27,25:27:968:25:897:-65.397,0,-71.7838 0/1:57:34,23:34:1224:23:828:-57.6854,0,-93.3083 0/1:151:72,79:72:2524:79:2840:-210.36,0,-181.953 0/0:49:48,1:48:1720:1:36:0,-11.1522,-151.487 0/0:101:101,0:101:3592:0:0:0,-30.404,-323.486 1/1:39:0,39:0:0:39:1389:-125.308,-11.7402,0 0/1:114:71,43:71:2533:43:1544:-104.936,0,-193.902 0/1:9:8,1:8:284:1:36:-0.889005,0,-23.1941 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:3,7:3:108:7:241:-19.0144,0,-7.06487 0/0:72:72,0:72:2592:0:0:0,-21.6742,-233.528 0/1:57:21,36:21:756:36:1292:-99.4227,0,-51.2085 0/0:100:100,0:100:3596:0:0:0,-30.103,-323.845 0/0:74:74,0:74:2656:0:0:0,-22.2762,-239.286 0/0:64:64,0:64:2269:0:0:0,-19.2659,-204.467 0/1:44:15,29:15:540:29:1040:-80.669,0,-35.6912 0/1:37:22,15:22:788:15:536:-37.4367,0,-60.1067 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.136 0/0:22:22,0:22:780:0:0:0,-6.62266,-70.523 chr08 6524544 . A G 10686.4 PASS AB=0.534177;ABP=7.0179;AC=29;AF=0.690476;AN=42;AO=488;CIGAR=1X;DP=708;DPB=708;DPRA=0.933333;EPP=864.48;EPPR=351.867;GTI=0;LEN=1;MEANALT=1;MQM=53.9959;MQMR=59.6545;NS=21;NUMALT=1;ODDS=0.0681758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17440;QR=7876;RO=220;RPL=0;RPP=1062.69;RPPR=480.734;RPR=488;RUN=1;SAF=464;SAP=864.48;SAR=24;SRF=204;SRP=351.867;SRR=16;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:20:11,9:11:396:9:316:-21.6655,0,-29.9621 0/1:30:16,14:16:572:14:504:-36.3638,0,-42.7825 0/1:14:4,10:4:144:10:360:-28.5063,0,-9.0992 0/1:34:13,21:13:468:21:748:-57.2773,0,-32.219 0/1:33:13,20:13:468:20:716:-54.7836,0,-32.5257 1/1:21:0,21:0:0:21:756:-68.1898,-6.32163,0 1/1:20:0,20:0:0:20:716:-64.583,-6.0206,0 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.084 0/1:72:43,29:43:1524:29:1028:-71.1222,0,-115.777 0/1:5:1,4:1:36:4:144:-11.6577,0,-2.09312 1/1:5:0,5:0:0:5:176:-16.1202,-1.50515,0 0/1:8:7,1:7:252:1:36:-1.18493,0,-20.6161 1/1:33:0,33:0:0:33:1180:-106.346,-9.93399,0 0/1:16:10,6:10:360:6:216:-14.9575,0,-27.9278 1/1:43:0,43:0:0:43:1525:-137.006,-12.9443,0 1/1:23:0,23:0:0:23:820:-74.078,-6.92369,0 1/1:13:0,13:0:0:13:468:-42.3932,-3.91339,0 0/1:85:47,38:47:1688:38:1356:-96.3323,0,-126.606 0/1:78:19,59:19:680:59:2116:-167.093,0,-38.0465 1/1:13:0,13:0:0:13:464:-42.0365,-3.91339,0 1/1:106:0,106:0:0:106:3795:-339.134,-31.9092,0 chr08 6546799 . T A 10351.9 PASS AB=0.439626;ABP=40.2429;AC=13;AF=0.309524;AN=42;AO=613;CIGAR=1X;DP=2307;DPB=2307;DPRA=0.932919;EPP=1334.12;EPPR=3642.48;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.4861;MQMR=60;NS=21;NUMALT=1;ODDS=10.4204;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21919;QR=60581;RO=1692;RPL=0;RPP=1334.12;RPPR=3642.48;RPR=613;RUN=1;SAF=613;SAP=1334.12;SAR=0;SRF=1692;SRP=3677.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:105,79:105:3755:79:2825:-199.062,0,-282.76 0/1:153:84,69:84:2974:69:2461:-175.473,0,-221.834 0/1:82:44,38:44:1580:38:1364:-98.3735,0,-117.807 0/1:132:68,62:68:2436:62:2220:-160.185,0,-180.002 0/1:165:77,88:77:2764:88:3128:-231.811,0,-199.331 0/0:151:151,0:151:5412:0:0:0,-45.4555,-487.209 0/0:115:114,1:114:4088:1:36:0,-31.0202,-364.507 1/1:94:0,94:0:0:94:3372:-303.524,-28.2968,0 0/1:203:105,98:105:3757:98:3524:-256.257,0,-277.219 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:23:13,10:13:468:10:360:-25.8206,0,-35.536 0/0:159:159,0:159:5682:0:0:0,-47.8638,-511.496 0/1:90:64,26:64:2288:26:909:-55.0307,0,-179.089 0/0:144:144,0:144:5147:0:0:0,-43.3483,-463.372 0/0:118:118,0:118:4221:0:0:0,-35.5215,-380.069 0/0:149:149,0:149:5360:0:0:0,-44.8535,-482.529 0/1:58:30,28:30:1080:28:1004:-73.2033,0,-80.0535 0/1:77:63,14:63:2264:14:500:-22.1569,0,-180.843 0/0:117:116,1:116:4157:1:36:0,-31.6222,-370.712 0/0:78:78,0:78:2788:0:0:0,-23.4803,-251.161 chr08 6546803 . GAAAAATC GAAAAAATC 9801.66 PASS AB=0.427234;ABP=57.0495;AC=13;AF=0.309524;AN=42;AO=596;CIGAR=1M1I7M;DP=2315;DPB=2390.12;DPRA=0.92725;EPP=1297.21;EPPR=3634.04;GTI=0;LEN=1;MEANALT=1.71429;MQM=59.5487;MQMR=60;NS=21;NUMALT=1;ODDS=9.47664;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21137;QR=60272;RO=1704;RPL=0;RPP=1297.21;RPPR=3634.04;RPR=596;RUN=1;SAF=596;SAP=1297.21;SAR=0;SRF=1704;SRP=3703.2;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:105,78:105:3697:78:2754:-192.618,0,-277.488 0/1:154:82,69:82:2892:69:2457:-175.373,0,-214.717 0/1:82:45,36:45:1590:36:1292:-91.8378,0,-118.647 0/1:133:73,59:73:2591:59:2093:-148.158,0,-193.345 0/1:164:77,83:77:2731:83:2949:-217.012,0,-197.546 0/0:152:152,0:152:5369:0:0:0,-45.7566,-483.353 0/0:118:117,1:117:4131:1:36:0,-31.9233,-368.382 1/1:92:0,92:0:0:92:3261:-293.631,-27.6948,0 0/1:200:106,94:106:3772:94:3341:-240.7,0,-279.476 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/0:7:7,0:7:244:0:0:0,-2.10721,-22.2991 0/1:23:13,10:13:465:10:360:-25.8206,0,-35.2645 0/0:162:159,0:159:5634:0:0:0,-47.8638,-506.83 0/1:90:63,27:63:2216:27:926:-56.5549,0,-172.613 0/0:143:143,0:143:5066:0:0:0,-43.0473,-456.092 0/0:121:120,0:120:4236:0:0:0,-36.1236,-381.065 0/0:147:146,0:146:5178:0:0:0,-43.9504,-465.807 0/1:59:32,27:32:1128:27:948:-67.8706,0,-84.0678 0/1:78:64,14:64:2262:14:504:-22.2178,0,-180.364 0/0:119:118,1:118:4181:1:36:0,-32.2243,-372.879 0/0:79:79,0:79:2781:0:0:0,-23.7814,-250.534 chr08 6546867 . CAGC CAGT,TAGT 52599 PASS AB=0.573416,0.424266;ABP=63.59,67.4765;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1785,704;CIGAR=3M1X,1X2M1X;DP=2495;DPB=2495;DPRA=0.760065,0.985642;EPP=3879.09,1531.73;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.9,2.15385;MQM=59.9574,58.6165;MQMR=0;NS=21;NUMALT=2;ODDS=20.5934;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63251,24792;QR=0;RO=0;RPL=1785,704;RPP=3879.09,1531.73;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3879.09,1531.73;SAR=1785,704;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:139:0,90,48:0:0:90,48:3205,1696:-399.296,-138.071,-110.978,-261.22,0,-246.77 1/2:119:0,66,53:0:0:66,53:2312,1874:-340.974,-152.859,-132.991,-188.467,0,-172.512 1/2:162:0,81,81:0:0:81,81:2889,2859:-468.568,-233.061,-208.677,-235.862,0,-211.478 1/2:115:0,62,52:0:0:62,52:2175,1835:-326.195,-149.198,-130.534,-177.047,0,-161.394 1/2:249:0,147,102:0:0:147,102:5200,3592:-715.835,-292.682,-248.431,-423.506,0,-392.8 1/1:44:0,43,0:0:0:43,0:1544,0:-138.893,-12.9443,0,-138.893,-12.9443,-138.893 1/1:191:0,191,0:0:0:191,0:6840,0:-615.67,-57.4967,0,-615.67,-57.4967,-615.67 2/2:154:0,0,154:0:0:0,154:0,5405:-485.198,-485.198,-485.198,-46.3586,-46.3586,0 1/2:105:0,69,36:0:0:69,36:2442,1278:-303.378,-104.475,-83.7044,-199.257,0,-188.42 1/2:27:0,13,14:0:0:13,14:449,496:-77.2344,-40.7598,-36.8464,-36.8241,0,-32.6097 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:49:0,25,24:0:0:25,24:877,828:-138.85,-67.4776,-59.9518,-71.7194,0,-64.4947 1/1:82:0,82,0:0:0:82,0:2933,0:-264.045,-24.6845,0,-264.045,-24.6845,-264.045 1/2:170:0,87,82:0:0:87,82:3064,2892:-484.96,-235.517,-209.327,-249.568,0,-224.884 1/1:297:0,297,0:0:0:297,0:10579,0:-952.023,-89.4059,0,-952.023,-89.4059,-952.023 1/1:127:0,125,0:0:0:125,0:4386,0:-394.593,-37.6288,0,-394.593,-37.6288,-394.593 1/1:162:0,162,0:0:0:162,0:5664,0:-509.882,-48.7669,0,-509.882,-48.7669,-509.882 1/2:103:0,60,43:0:0:60,43:2118,1520:-296.567,-124.097,-106.035,-172.824,0,-159.879 1/2:56:0,42,14:0:0:42,14:1480,489:-160.533,-40.0331,-27.3898,-120.849,0,-116.635 1/1:88:0,87,1:0:0:87,1:3094,28:-278.404,-26.1896,0,-276.187,-23.6909,-275.886 1/1:46:0,46,0:0:0:46,0:1640,0:-147.889,-13.8474,0,-147.889,-13.8474,-147.889 chr08 6546879 . 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A C 4763.01 PASS AB=0.503788;ABP=3.0761;AC=13;AF=0.309524;AN=42;AO=296;CIGAR=1X;DP=957;DPB=957;DPRA=0.928358;EPP=645.766;EPPR=1438.35;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.7142;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10312;QR=23549;RO=661;RPL=296;RPP=645.766;RPPR=1438.35;RPR=0;RUN=1;SAF=296;SAP=645.766;SAR=0;SRF=661;SRP=1438.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:48,25:48:1711:25:877:-57.27,0,-132.3 0/1:32:14,18:14:491:18:644:-48.6576,0,-34.8882 0/1:27:10,17:10:360:17:593:-45.5669,0,-24.6165 0/1:39:22,17:22:784:17:560:-38.9686,0,-59.1437 0/1:115:53,62:53:1896:62:2127:-157.076,0,-136.3 0/0:32:30,2:30:1071:2:72:0,-2.79624,-89.8649 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.701 1/1:27:0,27:0:0:27:955:-86.2648,-8.12781,0 0/1:70:23,47:23:811:47:1636:-126.45,0,-52.2379 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/0:11:11,0:11:375:0:0:0,-3.31133,-34.0779 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/0:35:34,1:34:1220:1:30:0,-7.53648,-107.107 0/1:40:18,22:18:648:22:783:-58.7524,0,-46.6107 0/0:88:88,0:88:3136:0:0:0,-26.4906,-282.467 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/0:115:115,0:115:4093:0:0:0,-34.6184,-368.556 0/1:75:37,38:37:1310:38:1319:-96.4287,0,-95.6228 0/1:43:30,13:30:1063:13:464:-29.1532,0,-83.0365 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 chr08 6568797 . T C 10529 PASS AB=0.482944;ABP=5.82503;AC=13;AF=0.309524;AN=42;AO=614;CIGAR=1X;DP=2070;DPB=2070;DPRA=1.10964;EPP=1336.29;EPPR=3164.67;GTI=0;LEN=1;MEANALT=1;MQM=59.9739;MQMR=59.9828;NS=21;NUMALT=1;ODDS=13.7869;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21888;QR=52067;RO=1456;RPL=614;RPP=1336.29;RPPR=3164.67;RPR=0;RUN=1;SAF=0;SAP=1336.29;SAR=614;SRF=0;SRP=3164.67;SRR=1456;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:26,29:26:913:29:1016:-75.1931,0,-65.9272 0/1:51:32,19:32:1152:19:684:-46.5378,0,-88.6376 0/1:87:53,34:53:1908:34:1205:-82.5643,0,-145.808 0/1:99:49,50:49:1745:50:1792:-131.761,0,-127.53 0/1:237:113,124:113:4060:124:4429:-327.437,0,-294.241 0/0:133:131,2:131:4708:2:72:0,-33.2003,-417.041 0/0:161:161,0:161:5757:0:0:0,-48.4658,-518.245 1/1:73:0,73:0:0:73:2612:-235.328,-21.9752,0 0/1:183:104,79:104:3701:79:2814:-198.408,0,-278.2 0/1:16:8,8:8:288:8:273:-20.0837,0,-21.4509 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:18:9,9:9:316:9:324:-24.0873,0,-23.3603 0/0:133:133,0:133:4772:0:0:0,-40.037,-429.636 0/1:131:60,71:60:2129:71:2522:-187.738,0,-152.442 0/0:153:153,0:153:5446:0:0:0,-46.0576,-490.263 0/0:56:56,0:56:2016:0:0:0,-16.8577,-181.713 0/0:82:82,0:82:2929:0:0:0,-24.6845,-263.843 0/1:159:76,83:76:2717:83:2980:-220.568,0,-196.908 0/1:78:46,32:46:1652:32:1129:-78.436,0,-125.488 0/0:107:106,1:106:3793:1:36:0,-28.6119,-337.968 0/0:51:51,0:51:1817:0:0:0,-15.3525,-163.809 chr08 6568818 . GGAT TGAG,TGAT 18347.1 PASS AB=0.479121,0.512088;ABP=4.73316,3.58777;AC=29,13;AF=0.690476,0.309524;AN=42;AO=588,283;CIGAR=1X2M1X,1X3M;DP=876;DPB=876;DPRA=0.881915,1.24507;EPP=1279.84,617.537;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.9,2.2;MQM=59.483,59.4806;MQMR=0;NS=21;NUMALT=2;ODDS=2.11272;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20824,10107;QR=0;RO=0;RPL=0,0;RPP=1279.84,617.537;RPPR=0;RPR=588,283;RUN=1,1;SAF=588,283;SAP=1279.84,617.537;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,26,40:0:0:26,40:928,1425:-192.023,-116.368,-108.541,-76.0114,0,-63.9702 1/2:18:0,4,14:0:0:4,14:138,504:-52.6912,-41.4837,-40.2796,-11.5557,0,-7.34127 1/2:60:0,18,41:0:0:18,41:630,1472:-171.309,-120.077,-114.659,-51.2283,0,-38.8861 1/2:23:0,10,13:0:0:10,13:353,468:-67.2886,-38.5463,-35.536,-29.0983,0,-25.1849 1/2:77:0,40,37:0:0:40,37:1389,1313:-220.065,-107.262,-95.2206,-113.154,0,-102.016 1/1:42:0,42,0:0:0:42,0:1482,0:-133.614,-12.6433,0,-133.614,-12.6433,-133.614 1/1:71:0,71,0:0:0:71,0:2512,0:-226.179,-21.3731,0,-226.179,-21.3731,-226.179 2/2:47:0,0,47:0:0:0,47:0,1661:-149.773,-149.773,-149.773,-14.1484,-14.1484,0 1/2:85:0,48,37:0:0:48,37:1712,1332:-248.5,-109.016,-94.5664,-139.842,0,-128.704 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/1:4:0,4,0:0:0:4,0:143,0:-13.2214,-1.20412,0,-13.2214,-1.20412,-13.2214 1/2:12:0,10,2:0:0:10,2:349,72:-34.5882,-6.21106,-3.20076,-28.7341,0,-28.132 1/1:31:0,31,0:0:0:31,0:1094,0:-98.7657,-9.33193,0,-98.7657,-9.33193,-98.7657 1/2:41:0,21,19:0:0:21,19:737,684:-115.738,-55.7854,-49.4638,-59.9514,0,-54.2318 1/1:96:0,94,1:0:0:94,1:3359,36:-302.159,-28.2968,0,-299.221,-25.3594,-298.92 1/1:36:0,36,0:0:0:36,0:1286,0:-115.998,-10.8371,0,-115.998,-10.8371,-115.998 1/1:29:0,29,0:0:0:29,0:1015,0:-91.657,-8.72987,0,-91.657,-8.72987,-91.657 1/2:38:0,18,18:0:0:18,18:648,640:-105.058,-52.1795,-46.761,-52.9241,0,-47.5056 1/2:30:0,19,11:0:0:19,11:671,392:-86.9096,-32.3087,-26.5892,-54.9558,0,-51.6445 1/1:36:0,35,1:0:0:35,1:1236,36:-111.184,-10.5361,0,-108.246,-7.23881,-107.945 1/1:29:0,28,1:0:0:28,1:998,36:-89.7539,-8.42884,0,-86.8245,-5.14064,-86.5235 chr08 6568824 . C A 5001.56 PASS AB=0.528217;ABP=6.07389;AC=13;AF=0.309524;AN=42;AO=283;CIGAR=1X;DP=844;DPB=844;DPRA=1.35088;EPP=617.537;EPPR=1221.21;GTI=0;LEN=1;MEANALT=1;MQM=59.4629;MQMR=59.4759;NS=21;NUMALT=1;ODDS=2.57344;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10150;QR=19862;RO=561;RPL=0;RPP=617.537;RPPR=1221.21;RPR=283;RUN=1;SAF=283;SAP=617.537;SAR=0;SRF=561;SRP=1221.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:26,39:26:911:39:1394:-106.08,0,-62.738 0/1:17:3,14:3:108:14:504:-40.5806,0,-4.95766 0/1:61:18,43:18:644:43:1540:-120.502,0,-39.9278 0/1:23:10,13:10:351:13:468:-35.536,0,-25.003 0/1:74:38,36:38:1340:36:1288:-93.8776,0,-98.403 0/0:40:40,0:40:1415:0:0:0,-12.0412,-127.606 0/0:66:66,0:66:2348:0:0:0,-19.868,-211.438 1/1:47:0,47:0:0:47:1684:-151.841,-14.1484,0 0/1:82:46,36:46:1627:36:1292:-91.8709,0,-121.944 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:12:9,3:9:324:3:108:-6.43963,0,-25.8935 0/0:25:25,0:25:884:0:0:0,-7.52575,-79.8784 0/1:39:18,21:18:636:21:756:-56.5986,0,-45.8054 0/0:94:93,1:93:3279:1:36:0,-24.6985,-291.726 0/0:35:35,0:35:1240:0:0:0,-10.536,-111.873 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.911 0/1:36:19,17:19:680:17:612:-44.5539,0,-50.5847 0/1:29:18,11:18:628:11:396:-27.2529,0,-48.084 0/0:32:31,1:31:1103:1:36:0,-6.03468,-95.9815 0/0:29:29,0:29:1020:0:0:0,-8.72987,-92.0815 chr08 6647881 . TGATG CGATA,CGATG 24292.7 PASS AB=0.450832,0.543116;ABP=16.89,13.6837;AC=29,13;AF=0.690476,0.309524;AN=42;AO=714,443;CIGAR=1X3M1X,1X4M;DP=1165;DPB=1165;DPRA=0.651807,1.52468;EPP=1553.44,964.973;EPPR=7.35324;GTI=1;LEN=5,1;MEANALT=1.85,2.23077;MQM=59.6036,59.9684;MQMR=60;NS=21;NUMALT=2;ODDS=1.73195;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25318,15873;QR=72;RO=2;RPL=714,443;RPP=1553.44,964.973;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1553.44,964.973;SAR=714,443;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:29:0,12,17:0:0:12,17:424,612:-84.5535,-50.2959,-46.6836,-34.6121,0,-29.4946 1/2:26:1,16,9:1:36:16,9:574,324:-70.0087,-23.4993,-21.6203,-43.8725,0,-44.1007 1/2:60:0,29,31:0:0:29,31:1035,1112:-175.433,-91.0594,-82.3295,-84.7316,0,-75.3997 1/2:106:0,55,51:0:0:55,51:1938,1824:-306.852,-149.083,-132.526,-158.123,0,-142.771 1/2:131:0,42,88:0:0:42,88:1494,3156:-379.197,-257.444,-244.801,-121.779,0,-95.2887 1/1:63:0,63,0:0:0:63,0:2221,0:-200.135,-18.9649,0,-200.135,-18.9649,-200.135 1/1:92:1,90,0:1:36:90,0:3209,0:-285.419,-24.1553,0,-285.72,-27.0927,-288.657 2/2:83:0,0,82:0:0:0,82:0,2944:-264.912,-264.912,-264.912,-24.6845,-24.6845,0 1/2:95:0,44,50:0:0:44,50:1570,1796:-274.557,-146.57,-133.324,-128.044,0,-112.992 1/2:9:0,3,6:0:0:3,6:108,216:-26.7966,-17.9843,-17.0812,-9.17208,0,-7.3659 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:23:0,13,10:0:0:13,10:465,360:-67.6501,-29.734,-25.8206,-38.2749,0,-35.2646 1/1:75:0,75,0:0:0:75,0:2667,0:-240.275,-22.5773,0,-240.275,-22.5773,-240.275 1/2:106:0,42,64:0:0:42,64:1465,2273:-304.709,-185.563,-172.919,-119.497,0,-100.231 1/1:29:0,29,0:0:0:29,0:1006,0:-90.8406,-8.72987,0,-90.8406,-8.72987,-90.8406 1/1:22:0,22,0:0:0:22,0:768,0:-69.4401,-6.62266,0,-69.4401,-6.62266,-69.4401 1/1:26:0,25,0:0:0:25,0:879,0:-78.7482,-7.52575,0,-78.7482,-7.52575,-78.7482 1/2:41:0,22,18:0:0:22,18:792,644:-117.121,-52.5123,-45.8897,-64.6079,0,-59.1894 1/2:35:0,20,15:0:0:20,15:718,540:-102.751,-44.4211,-38.4005,-58.6886,0,-54.1732 1/1:86:0,84,2:0:0:84,2:2985,72:-268.483,-25.2865,0,-262.608,-19.0519,-262.006 1/1:24:0,24,0:0:0:24,0:856,0:-77.3613,-7.22472,0,-77.3613,-7.22472,-77.3613 chr08 6709298 . G T 18691.3 PASS AB=0.540687;ABP=10.9619;AC=29;AF=0.690476;AN=42;AO=697;CIGAR=1X;DP=1010;DPB=1010;DPRA=0.885185;EPP=955.745;EPPR=671.824;GTI=0;LEN=1;MEANALT=1.2;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.7608;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24885;QR=10855;RO=308;RPL=225;RPP=193.081;RPPR=637.531;RPR=472;RUN=1;SAF=544;SAP=479.304;SAR=153;SRF=304;SRP=637.531;SRR=4;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:22,15:22:779:15:532:-37.075,0,-59.294 0/1:24:17,7:17:589:7:248:-15.4395,0,-46.1086 0/1:21:11,10:11:392:10:356:-26.0596,0,-29.2984 0/1:62:36,26:36:1257:26:920:-64.4532,0,-94.7664 0/1:83:33,50:33:1172:50:1792:-136.577,0,-80.802 1/1:27:0,27:0:0:27:960:-86.7163,-8.12781,0 1/1:54:0,54:0:0:54:1920:-173.077,-16.2556,0 0/0:54:54,0:54:1920:0:0:0,-16.2556,-173.077 0/1:63:35,28:35:1237:28:1000:-71.3505,0,-92.6674 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:15:9,6:9:324:6:216:-15.2751,0,-24.9904 1/1:62:0,61:0:0:61:2168:-195.025,-18.3628,0 0/1:52:32,20:32:1135:20:720:-49.4752,0,-86.8045 1/1:74:1,73:1:36:73:2589:-229.66,-18.6779,0 1/1:17:0,16:0:0:16:576:-51.8152,-4.81648,0 1/1:17:0,17:0:0:17:604:-54.6906,-5.11751,0 0/1:126:41,84:41:1418:84:3012:-233.322,0,-89.9259 0/1:63:13,50:13:452:50:1776:-141.158,0,-22.0462 1/1:51:0,51:0:0:51:1828:-164.801,-15.3525,0 1/1:91:0,89:0:0:89:3200:-287.862,-26.7917,0 chr08 6728352 . TAT TGT,TGTAAT 22403.1 PASS AB=0.555556,0.440678;ABP=17.2455,19.2411;AC=29,13;AF=0.690476,0.309524;AN=42;AO=738,253;CIGAR=1M1X1M,1M3I2M;DP=996;DPB=1249;DPRA=3.27,0.948195;EPP=1562.42,62.1379;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.85,2.07692;MQM=56.7493,59.9051;MQMR=0;NS=21;NUMALT=2;ODDS=1.8564;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26364,8847;QR=0;RO=0;RPL=5,85;RPP=1562.42,62.1379;RPPR=0;RPR=733,168;RUN=1,1;SAF=738,253;SAP=1605.56,552.393;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,41,19:0:0:41,19:1472,668:-174.613,-54.7261,-42.3839,-120.24,0,-114.521 1/2:33:0,13,20:0:0:13,20:464,689:-94.1247,-56.3079,-52.3946,-38.1685,0,-32.1479 1/2:46:0,25,20:0:0:25,20:890,696:-129.167,-56.6776,-49.1519,-72.5752,0,-66.5546 1/2:25:0,4,21:0:0:4,21:144,729:-71.3526,-59.6071,-58.4029,-12.1032,0,-5.78154 1/2:120:0,62,58:0:0:62,58:2218,2047:-347.519,-167.024,-148.36,-180.849,0,-163.39 1/1:48:0,47,0:0:0:47,0:1680,0:-150.896,-14.1484,0,-150.896,-14.1484,-150.896 1/1:95:0,95,0:0:0:95,0:3384,0:-304.666,-28.5979,0,-304.666,-28.5979,-304.666 2/2:15:0,0,15:0:0:0,15:0,532:-48.2127,-48.2127,-48.2127,-4.51545,-4.51545,0 1/2:67:0,46,20:0:0:46,20:1645,692:-189.853,-56.3262,-42.4788,-133.62,0,-127.599 1/2:11:0,5,6:0:0:5,6:180,212:-32.301,-17.6186,-16.1135,-15.039,0,-13.2329 1/1:5:0,5,0:0:0:5,0:176,0:-16.1809,-1.50515,0,-16.1809,-1.50515,-16.1809 1/2:14:0,7,7:0:0:7,7:244,244:-40.0273,-20.1922,-18.085,-20.1834,0,-18.0762 1/1:75:0,75,0:0:0:75,0:2681,0:-241.095,-22.5773,0,-241.095,-22.5773,-241.095 1/2:67:0,48,19:0:0:48,19:1720,649:-193.202,-52.9909,-38.5414,-140.557,0,-134.837 1/1:35:0,35,0:0:0:35,0:1256,0:-113.289,-10.5361,0,-113.289,-10.5361,-113.289 1/1:45:0,43,0:0:0:43,0:1531,0:-137.528,-12.9443,0,-137.528,-12.9443,-137.528 1/1:31:0,31,0:0:0:31,0:1108,0:-99.9797,-9.33193,0,-99.9797,-9.33193,-99.9797 1/2:47:0,24,23:0:0:24,23:854,812:-136.041,-66.4772,-59.2525,-69.9179,0,-62.9942 1/2:41:0,20,21:0:0:20,21:716,737:-118.686,-60.329,-54.3084,-58.711,0,-52.3893 1/1:58:0,54,4:0:0:54,4:1925,140:-172.887,-16.2556,0,-161.497,-4.51516,-160.293 1/1:58:0,58,0:0:0:58,0:2076,0:-187.043,-17.4597,0,-187.043,-17.4597,-187.043 chr08 6728455 . A G 23536.9 PASS AB=0.55776;ABP=27.8441;AC=29;AF=0.690476;AN=42;AO=1143;CIGAR=1X;DP=1580;DPB=1580;DPRA=1.33596;EPP=2485;EPPR=951.944;GTI=0;LEN=1;MEANALT=1;MQM=55.1225;MQMR=59.8261;NS=21;NUMALT=1;ODDS=12.7502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40795;QR=15652;RO=437;RPL=1143;RPP=2485;RPPR=951.944;RPR=0;RUN=1;SAF=0;SAP=2485;SAR=1143;SRF=0;SRP=951.944;SRR=437;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:41,37:41:1468:37:1324:-95.8782,0,-108.93 0/1:39:24,15:24:856:15:536:-36.7773,0,-65.6209 0/1:89:42,47:42:1512:47:1684:-124.921,0,-109.583 0/1:111:53,58:53:1896:58:2064:-152.448,0,-137.498 0/1:127:48,79:48:1712:79:2812:-214.771,0,-116.05 1/1:71:0,71:0:0:71:2519:-226.385,-21.3731,0 1/1:106:1,105:1:36:105:3756:-334.171,-28.3109,0 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.229 0/1:174:68,106:68:2444:106:3808:-290.404,0,-167.835 0/1:12:5,7:5:180:7:252:-19.3743,0,-12.9397 1/1:5:0,5:0:0:5:176:-16.1662,-1.50515,0 0/1:19:14,5:14:504:5:180:-10.8026,0,-39.9785 1/1:116:0,116:0:0:116:4110:-369.687,-34.9195,0 0/1:98:41,57:41:1464:57:2044:-154.515,0,-102.547 1/1:133:0,133:0:0:133:4753:-427.28,-40.037,0 1/1:42:0,42:0:0:42:1508:-135.909,-12.6433,0 1/1:37:0,37:0:0:37:1324:-119.425,-11.1381,0 0/1:55:26,29:26:932:29:1028:-75.9191,0,-67.6422 0/1:55:17,38:17:604:38:1364:-106.164,0,-38.134 1/1:108:0,108:0:0:108:3837:-344.585,-32.5112,0 1/1:48:0,48:0:0:48:1716:-154.237,-14.4494,0 chr08 6733400 . C T 36239.4 PASS AB=0.580769;ABP=76.6733;AC=29;AF=0.690476;AN=42;AO=1905;CIGAR=1X;DP=2501;DPB=2501;DPRA=2.72889;EPP=4139.67;EPPR=1271.28;GTI=0;LEN=1;MEANALT=1;MQM=38.4084;MQMR=53.4195;NS=21;NUMALT=1;ODDS=6.66947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68062;QR=21332;RO=596;RPL=1905;RPP=4139.67;RPPR=1271.28;RPR=0;RUN=1;SAF=0;SAP=4139.67;SAR=1905;SRF=0;SRP=1297.21;SRR=596;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:70,83:70:2504:83:2972:-204.983,0,-178.406 0/1:180:102,78:102:3653:78:2788:-184.96,0,-273.955 0/1:81:20,61:20:720:61:2188:-160.766,0,-39.8489 0/1:159:74,85:74:2637:85:3052:-210.246,0,-189.058 0/1:228:85,143:85:3037:143:5090:-360.307,0,-203.938 1/1:116:2,114:2:72:114:4092:-343.414,-28.0898,0 1/1:166:3,163:3:108:163:5844:-487.655,-39.9062,0 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.153 0/1:269:100,169:100:3573:169:6037:-438.803,0,-240.27 0/1:12:7,5:7:252:5:180:-11.9706,0,-19.3839 1/1:12:0,12:0:0:12:432:-37.3173,-3.61236,0 0/1:18:13,5:13:468:5:176:-9.93546,0,-36.9834 1/1:162:0,162:0:0:162:5750:-484.933,-48.7669,0 0/1:86:26,60:26:932:60:2152:-154.585,0,-57.7796 1/1:238:0,238:0:0:238:8484:-717.378,-71.6451,0 1/1:149:0,149:0:0:149:5315:-456.571,-44.8535,0 1/1:105:0,105:0:0:105:3747:-321.993,-31.6082,0 0/1:55:23,32:23:828:32:1152:-81.5029,0,-58.1849 0/1:59:25,34:25:900:34:1205:-84.7736,0,-63.4054 1/1:151:0,151:0:0:151:5394:-455.908,-45.4555,0 1/1:57:1,56:1:36:56:2012:-168.206,-13.5641,0 chr08 6733674 . T C 11704.2 PASS AB=0.552326;ABP=31.6434;AC=21;AF=0.5;AN=42;AO=675;CIGAR=1X;DP=1232;DPB=1232;DPRA=0;EPP=1468.75;EPPR=1210.35;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.9941;MQMR=59.9856;NS=21;NUMALT=1;ODDS=10.2687;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24087;QR=19921;RO=556;RPL=0;RPP=1468.75;RPPR=1210.35;RPR=675;RUN=1;SAF=675;SAP=1468.75;SAR=0;SRF=556;SRP=1210.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:34,26:34:1220:26:936:-66.4977,0,-92.045 0/1:43:23,20:23:824:20:720:-52.1845,0,-61.539 0/1:70:28,42:28:1008:42:1499:-114.132,0,-69.9643 0/1:48:31,17:31:1116:17:604:-40.2412,0,-86.3023 0/1:72:39,32:39:1396:32:1121:-79.6078,0,-104.352 0/1:73:22,51:22:792:51:1813:-141.475,0,-49.6305 0/1:110:39,71:39:1395:71:2532:-195.019,0,-92.735 0/0:19:18,1:18:648:1:36:0,-2.12129,-55.0536 0/1:86:47,39:47:1692:39:1396:-100.051,0,-126.678 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:23:16,7:16:576:7:248:-15.7405,0,-45.2513 0/1:64:24,40:24:856:40:1436:-110.272,0,-58.0952 0/1:89:49,40:49:1737:40:1428:-102.026,0,-129.821 0/1:70:15,55:15:540:55:1960:-155.603,0,-27.8644 0/1:67:20,47:20:720:47:1676:-130.958,0,-44.9598 0/1:64:33,31:33:1184:31:1093:-79.4117,0,-87.6024 0/1:57:32,25:32:1148:25:896:-63.8016,0,-86.4711 0/1:36:20,16:20:716:16:576:-41.3356,0,-53.9306 0/1:99:49,50:49:1745:50:1789:-131.491,0,-127.53 0/1:58:12,46:12:428:46:1648:-131.149,0,-21.3958 chr08 6759206 . CAAACGTG CAAACATA,CAAAACATA 50888.7 PASS AB=0.482512,0.513205;ABP=6.73172,5.13217;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1588,830;CIGAR=5M1X1M1X,1M1I4M1X1M1X;DP=2432;DPB=2536.12;DPRA=1.08645,1.23221;EPP=3451.31,1805.33;EPPR=0;GTI=0;LEN=8,9;MEANALT=2.35,2.53333;MQM=59.9798,59.8012;MQMR=0;NS=21;NUMALT=2;ODDS=1.79258;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56581,29274;QR=0;RO=0;RPL=0,0;RPP=3451.31,1805.33;RPPR=0;RPR=1588,830;RUN=1,1;SAF=1588,830;SAP=3451.31,1805.33;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:205:0,118,86:0:0:118,86:4213,3038:-590.956,-247.483,-211.961,-343.547,0,-317.658 1/2:173:0,78,94:0:0:78,94:2786,3309:-496.347,-269.201,-245.721,-227.141,0,-198.844 1/2:99:0,50,49:0:0:50,49:1782,1736:-287.03,-141.774,-126.722,-145.611,0,-130.861 1/2:223:0,97,126:0:0:97,126:3454,4448:-644.078,-362.558,-333.358,-281.874,0,-243.944 1/2:204:0,99,102:0:0:99,102:3552,3578:-580.941,-291.208,-261.406,-289.769,0,-259.063 1/1:87:0,87,0:0:0:87,0:3117,0:-280.756,-26.1896,0,-280.756,-26.1896,-280.756 1/1:122:0,116,2:0:0:116,2:4116,72:-370.287,-34.9195,0,-364.412,-29.0338,-363.81 2/2:107:0,0,107:0:0:0,107:0,3785:-340.681,-340.681,-340.681,-32.2102,-32.2102,0 1/2:169:0,66,103:0:0:66,103:2364,3631:-488.716,-295.921,-276.053,-193.151,0,-162.144 1/2:8:0,7,1:0:0:7,1:252,36:-23.8592,-3.29724,-1.19003,-20.9217,0,-20.6207 1/1:6:0,6,0:0:0:6,0:201,0:-18.4176,-1.80618,0,-18.4176,-1.80618,-18.4176 1/2:27:0,14,13:0:0:14,13:501,464:-79.0392,-38.1841,-33.9697,-41.2123,0,-37.2989 1/1:239:0,238,0:0:0:238,0:8475,0:-762.405,-71.6451,0,-762.405,-71.6451,-762.405 1/2:169:0,83,85:0:0:83,85:2931,3006:-483.547,-244.863,-219.877,-238.727,0,-213.139 1/1:117:0,116,1:0:0:116,1:4133,32:-371.836,-34.9195,0,-369.258,-32.0212,-368.957 1/1:121:0,119,0:0:0:119,0:4244,0:-381.756,-35.8226,0,-381.756,-35.8226,-381.756 1/1:96:0,96,0:0:0:96,0:3405,0:-306.666,-28.8989,0,-306.666,-28.8989,-306.666 1/2:43:0,11,32:0:0:11,32:386,1132:-123.961,-92.5485,-89.2372,-31.7642,0,-22.1313 1/2:81:0,53,28:0:0:53,28:1889,971:-233.252,-79.2686,-63.314,-154.333,0,-145.905 1/1:89:0,88,1:0:0:88,1:3135,36:-282.016,-26.4906,0,-279.078,-23.1934,-278.777 1/1:47:0,46,0:0:0:46,0:1645,0:-147.978,-13.8474,0,-147.978,-13.8474,-147.978 chr08 6951448 . GTAG ATAA,ATAG 36860.4 PASS AB=0.547347,0.451613;ABP=21.722,22.5536;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1262,489;CIGAR=1X2M1X,1X3M;DP=1754;DPB=1754;DPRA=1.704,1.28553;EPP=2743.41,1064.86;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.9,2.0625;MQM=55.9786,59.6605;MQMR=0;NS=21;NUMALT=2;ODDS=4.95208;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44659,17519;QR=0;RO=0;RPL=1262,489;RPP=2743.41,1064.86;RPPR=0;RPR=0,0;RUN=1,1;SAF=1262,489;SAP=2743.41,1064.86;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,69,37:0:0:69,37:2429,1316:-304.69,-107.604,-86.8326,-197.44,0,-186.302 1/2:120:0,61,59:0:0:61,59:2178,2120:-350.528,-173.304,-154.941,-177.582,0,-159.821 1/2:61:0,32,29:0:0:32,29:1115,1044:-175.893,-85.5402,-75.9073,-90.7065,0,-81.9767 1/2:112:0,62,50:0:0:62,50:2183,1796:-324.101,-146.866,-128.202,-177.59,0,-162.539 1/2:201:0,102,99:0:0:102,99:3585,3548:-580.504,-289.708,-259.003,-291.151,0,-261.349 1/1:132:0,132,0:0:0:132,0:4674,0:-420.28,-39.736,0,-420.28,-39.736,-420.28 1/1:99:0,98,1:0:0:98,1:3475,36:-311.997,-29.5009,0,-309.06,-26.2037,-308.759 2/2:50:0,0,50:0:0:0,50:0,1796:-161.913,-161.913,-161.913,-15.0515,-15.0515,0 1/2:159:0,88,70:0:0:88,70:3130,2508:-459.294,-204.588,-178.097,-254.764,0,-233.692 1/2:6:0,5,1:0:0:5,1:179,36:-17.8846,-3.29624,-1.79109,-14.9477,0,-14.6467 1/1:9:0,9,0:0:0:9,0:317,0:-28.7088,-2.70927,0,-28.7088,-2.70927,-28.7088 1/2:26:0,9,17:0:0:9,17:311,612:-75.5339,-50.2959,-47.5867,-25.5882,0,-20.4707 1/1:124:0,122,1:0:0:122,1:4319,36:-387.657,-36.7257,0,-384.721,-33.7599,-384.42 1/2:96:0,60,36:0:0:60,36:2125,1292:-278.697,-105.725,-87.6632,-173.329,0,-162.492 1/1:103:0,102,0:0:0:102,0:3621,0:-324.736,-30.7051,0,-324.736,-30.7051,-324.736 1/1:57:0,57,0:0:0:57,0:2013,0:-181.307,-17.1587,0,-181.307,-17.1587,-181.307 1/1:65:0,64,1:0:0:64,1:2265,36:-203.383,-19.2659,0,-200.445,-15.9687,-200.144 1/2:32:0,8,24:0:0:8,24:287,839:-91.8623,-68.5305,-66.1223,-23.6871,0,-16.4624 1/2:42:0,30,12:0:0:30,12:1068,432:-122.588,-35.6065,-26.5756,-87.3405,0,-83.7281 1/1:112:0,110,2:0:0:110,2:3912,72:-351.213,-33.1133,0,-345.339,-26.8803,-344.737 1/1:42:0,42,0:0:0:42,0:1473,0:-132.803,-12.6433,0,-132.803,-12.6433,-132.803 chr08 6951565 . G A 11116.4 PASS AB=0.463609;ABP=14.5475;AC=13;AF=0.309524;AN=42;AO=621;CIGAR=1X;DP=1858;DPB=1858;DPRA=1.06014;EPP=1351.49;EPPR=2686.95;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.8599;MQMR=59.979;NS=21;NUMALT=1;ODDS=5.62215;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22271;QR=44164;RO=1236;RPL=621;RPP=1351.49;RPPR=2686.95;RPR=0;RUN=1;SAF=0;SAP=1351.49;SAR=621;SRF=0;SRP=2686.95;SRR=1236;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:57,32:57:2044:32:1148:-76.8336,0,-157.17 0/1:71:35,36:35:1252:36:1296:-95.5662,0,-91.6119 0/1:87:57,29:57:2035:29:1040:-67.6211,0,-157.173 0/1:67:44,23:44:1580:23:828:-54.6751,0,-122.323 0/1:116:48,68:48:1707:68:2441:-185.019,0,-118.996 0/0:81:80,1:80:2839:1:36:0,-20.7852,-252.151 0/0:113:113,0:113:4034:0:0:0,-34.0164,-363.248 1/1:152:0,152:0:0:152:5464:-491.885,-45.7566,0 0/1:104:49,55:49:1752:55:1980:-147.167,0,-126.657 0/1:21:6,15:6:216:15:540:-42.6149,0,-13.4689 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:19:6,13:6:208:13:464:-36.3779,0,-13.3395 0/0:38:37,1:37:1324:1:36:0,-7.84086,-115.864 0/1:111:61,50:61:2184:50:1796:-128.472,0,-163.411 0/0:192:192,0:192:6876:0:0:0,-57.7978,-618.908 0/0:75:74,1:74:2648:1:33:0,-19.2783,-235.268 0/0:86:85,1:85:3048:1:36:0,-22.2903,-270.951 0/1:286:154,132:154:5494:132:4710:-337.894,0,-408.493 0/1:32:20,12:20:716:12:423:-28.7721,0,-55.1348 0/0:47:47,0:47:1671:0:0:0,-14.1484,-150.677 0/0:64:64,0:64:2284:0:0:0,-19.2659,-205.822 chr08 6951575 . T C 11039.8 PASS AB=0.461078;ABP=16.1952;AC=13;AF=0.309524;AN=42;AO=622;CIGAR=1X;DP=1872;DPB=1872;DPRA=1.05965;EPP=1353.67;EPPR=2717.35;GTI=0;LEN=1;MEANALT=1;MQM=59.8344;MQMR=59.9728;NS=21;NUMALT=1;ODDS=5.27207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22167;QR=44761;RO=1250;RPL=622;RPP=1353.67;RPPR=2717.35;RPR=0;RUN=1;SAF=0;SAP=1353.67;SAR=622;SRF=0;SRP=2717.35;SRR=1250;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:57,33:57:2033:33:1175:-78.9459,0,-155.878 0/1:67:31,36:31:1112:36:1283:-95.5982,0,-80.2223 0/1:87:58,29:58:2069:29:1014:-65.3764,0,-160.289 0/1:66:44,22:44:1584:22:777:-50.3824,0,-122.984 0/1:118:47,71:47:1676:71:2529:-192.334,0,-115.606 0/0:84:83,1:83:2958:1:36:0,-21.6882,-262.852 0/0:115:115,0:115:4136:0:0:0,-34.6184,-372.422 1/1:157:0,157:0:0:157:5595:-503.67,-47.2617,0 0/1:104:50,54:50:1796:54:1929:-142.578,0,-130.615 0/1:22:6,16:6:216:16:576:-45.5523,0,-13.1679 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:20:7,13:7:237:13:453:-35.079,0,-15.6382 0/0:39:38,1:38:1345:1:36:0,-8.14189,-117.75 0/1:108:62,46:62:2228:46:1636:-115.011,0,-168.272 0/0:194:194,0:194:6968:0:0:0,-58.3998,-627.182 0/0:77:76,1:76:2709:1:36:0,-19.5815,-240.455 0/0:86:86,0:86:3065:0:0:0,-25.8886,-276.078 0/1:289:158,131:158:5676:131:4696:-335.727,0,-423.959 0/1:31:20,11:20:720:11:396:-26.6508,0,-55.7968 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/0:64:64,0:64:2289:0:0:0,-19.2659,-206.27 chr08 6972845 . A G 2419.92 PASS AB=0.423423;ABP=19.9713;AC=12;AF=0.285714;AN=42;AO=158;CIGAR=1X;DP=566;DPB=566;DPRA=1.47306;EPP=346.103;EPPR=888.971;GTI=0;LEN=1;MEANALT=1;MQM=59.943;MQMR=60;NS=21;NUMALT=1;ODDS=2.55437;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5586;QR=14568;RO=408;RPL=0;RPP=346.103;RPPR=888.971;RPR=158;RUN=1;SAF=158;SAP=346.103;SAR=0;SRF=408;SRP=888.971;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:20:16,4:16:568:4:129:-5.90706,0,-45.4313 0/0:9:9,0:9:305:0:0:0,-2.70927,-27.7772 0/1:18:9,9:9:324:9:294:-21.357,0,-24.0873 0/1:28:18,10:18:644:10:345:-22.9516,0,-49.8618 0/1:30:15,15:15:540:15:525:-38.5472,0,-39.9056 0/0:20:20,0:20:690:0:0:0,-6.0206,-62.4168 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 0/1:78:36,42:36:1284:42:1508:-112.534,0,-92.3831 0/1:9:7,2:7:248:2:72:-4.12745,0,-19.9549 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:12:4,8:4:144:8:288:-22.655,0,-9.70126 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 0/1:27:18,9:18:648:9:309:-20.0129,0,-50.5241 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 0/0:7:7,0:7:233:0:0:0,-2.10721,-21.2943 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:63:34,29:34:1224:29:1040:-74.9495,0,-91.5022 0/1:48:35,13:35:1260:13:468:-28.0102,0,-99.256 0/0:24:24,0:24:856:0:0:0,-7.22472,-77.3611 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.659 chr08 6972853 . G C,A 11698.3 PASS AB=0.577508,0.422492;ABP=20.1775,20.1775;AC=30,12;AF=0.714286,0.285714;AN=42;AO=401,157;CIGAR=1X,1X;DP=558;DPB=558;DPRA=1.59118,1.575;EPP=873.771,343.931;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.55,1.91667;MQM=60,59.9427;MQMR=0;NS=21;NUMALT=2;ODDS=2.76902;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=14305,5587;QR=0;RO=0;RPL=0,0;RPP=873.771,343.931;RPPR=0;RPR=401,157;RUN=1,1;SAF=401,157;SAP=873.771,343.931;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:20:0,16,4:0:0:16,4:563,144:-57.9332,-12.1095,-7.29302,-46.1819,0,-44.9777 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:18:0,9,9:0:0:9,9:324,324:-53.2333,-26.7966,-24.0873,-26.7966,0,-24.0873 1/2:28:0,18,10:0:0:18,10:648,341:-80.8889,-28.0032,-22.5846,-53.2333,0,-50.223 1/2:30:0,15,15:0:0:15,15:525,517:-85.0562,-42.3392,-37.8237,-43.0642,0,-38.5488 1/1:19:0,19,0:0:0:19,0:680,0:-61.5292,-5.71957,0,-61.5292,-5.71957,-61.5292 1/1:24:0,24,0:0:0:24,0:864,0:-78.0826,-7.22472,0,-78.0826,-7.22472,-78.0826 2/2:17:0,0,17:0:0:0,17:0,612:-55.4134,-55.4134,-55.4134,-5.11751,-5.11751,0 1/2:76:0,35,41:0:0:35,41:1256,1457:-221.534,-119.082,-108.546,-102.809,0,-90.467 1/2:9:0,7,2:0:0:7,2:243,72:-25.978,-6.23466,-4.12745,-20.1003,0,-19.4982 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:12:0,4,8:0:0:4,8:144,288:-35.6088,-23.8592,-22.655,-12.1095,0,-9.70126 1/1:41:0,41,0:0:0:41,0:1472,0:-132.776,-12.3422,0,-132.776,-12.3422,-132.776 1/2:26:0,17,9:0:0:17,9:608,324:-76.3721,-26.7966,-21.6791,-49.9345,0,-47.2252 1/1:32:0,31,1:0:0:31,1:1096,36:-98.5903,-9.33193,0,-95.6527,-6.03469,-95.3517 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:62:0,34,28:0:0:34,28:1215,1004:-181.31,-82.247,-72.012,-99.4207,0,-90.9919 1/2:48:0,35,13:0:0:35,13:1247,468:-140.185,-38.5463,-28.0102,-101.998,0,-98.0846 1/1:23:0,23,0:0:0:23,0:828,0:-74.8441,-6.92369,0,-74.8441,-6.92369,-74.8441 1/1:38:0,38,0:0:0:38,0:1336,0:-120.537,-11.4391,0,-120.537,-11.4391,-120.537 chr08 6987629 . CTGG TTGG,TTGC 43545.8 PASS AB=0.829891,0.165249;ABP=780.965,804.057;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1769,162;CIGAR=1X3M,1X2M1X;DP=1940;DPB=1940;DPRA=5.33889,0.747453;EPP=3546.35,346.157;EPPR=0;GTI=8;LEN=1,4;MEANALT=1.95,2.15385;MQM=59.8886,59.8765;MQMR=0;NS=21;NUMALT=2;ODDS=8.68206;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63342,5716;QR=0;RO=0;RPL=35,1;RPP=3546.35,346.157;RPPR=0;RPR=1734,161;RUN=1,1;SAF=0,0;SAP=3844.34,354.789;SAR=1769,162;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:53:0,45,8:0:0:45,8:1616,286:-155.496,-23.6773,-10.131,-132.177,0,-129.768 1/1:64:0,58,6:0:0:58,6:2084,210:-187.469,-17.4597,0,-170.384,-0.0242242,-168.578 1/2:113:0,102,11:0:0:102,11:3664,388:-330.817,-31.9459,-1.24084,-299.224,0,-295.913 1/2:105:0,94,10:0:0:94,10:3372,352:-303.813,-28.7577,-0.460844,-275.157,0,-272.147 1/2:97:0,60,37:0:0:60,37:2144,1297:-280.616,-105.892,-87.8297,-175.077,0,-163.939 1/1:61:0,61,0:0:0:61,0:2174,0:-195.925,-18.3628,0,-195.925,-18.3628,-195.925 1/1:141:0,139,0:0:0:139,0:4972,0:-447.33,-41.8432,0,-447.33,-41.8432,-447.33 2/2:18:0,0,18:0:0:0,18:0,648:-58.6519,-58.6519,-58.6519,-5.41854,-5.41854,0 1/2:192:0,167,23:0:0:167,23:5958,815:-552.157,-66.4515,-16.1794,-485.765,0,-478.841 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:17:0,12,5:0:0:12,5:423,174:-48.9396,-14.4961,-10.8837,-34.7927,0,-33.2876 1/1:167:0,167,0:0:0:167,0:5988,0:-539.022,-50.272,0,-539.022,-50.272,-539.022 1/2:101:0,90,11:0:0:90,11:3236,390:-296.051,-32.04,-4.94733,-264.366,0,-261.054 1/1:236:0,235,0:0:0:235,0:8406,0:-756.293,-70.7421,0,-756.293,-70.7421,-756.293 1/1:145:0,145,0:0:0:145,0:5212,0:-469.207,-43.6494,0,-469.207,-43.6494,-469.207 1/1:112:0,110,0:0:0:110,0:3937,0:-353.903,-33.1133,0,-353.903,-33.1133,-353.903 1/2:76:0,54,21:0:0:54,21:1928,741:-217.519,-60.332,-44.0764,-157.181,0,-150.86 1/2:69:0,59,10:0:0:59,10:2100,356:-200.524,-29.3713,-11.6105,-171.509,0,-168.499 1/1:82:0,81,1:0:0:81,1:2904,35:-261.235,-24.3834,0,-258.387,-21.1858,-258.086 1/1:77:0,76,1:0:0:76,1:2720,24:-244.802,-22.8783,0,-242.945,-20.7794,-242.644 chr08 7048604 . AGATC GGATT,GGATC 50927.6 PASS AB=0.539474,0.457602;ABP=21.525,24.3695;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1722,735;CIGAR=1X3M1X,1X4M;DP=2468;DPB=2468;DPRA=1.184,1.51511;EPP=3742.29,1599.04;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.2,2.375;MQM=59.6231,59.9714;MQMR=60;NS=21;NUMALT=2;ODDS=7.22832;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60379,25959;QR=36;RO=1;RPL=1722,735;RPP=3742.29,1599.04;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1722,735;SAP=3742.29,1599.04;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,59,61:0:0:59,61:2066,2154:-343.85,-175.764,-158.003,-168.438,0,-150.075 1/2:65:0,43,22:0:0:43,22:1526,783:-188.454,-64.1703,-51.226,-124.639,0,-118.017 1/2:153:0,86,66:0:0:86,66:3033,2324:-436.138,-189.191,-163.303,-246.939,0,-227.071 1/2:111:0,62,49:0:0:62,49:2193,1740:-320.747,-142.134,-123.47,-178.967,0,-164.216 1/2:199:0,95,102:0:0:95,102:3336,3599:-564.56,-293.053,-264.455,-271.499,0,-240.794 1/1:127:0,126,0:0:0:126,0:4396,0:-395.5,-37.9298,0,-395.5,-37.9298,-395.5 1/1:218:1,213,3:1:36:213,3:7418,93:-664.075,-61.1715,0,-656.913,-56.6677,-658.947 2/2:100:0,0,99:0:0:0,99:0,3503:-315.26,-315.26,-315.26,-29.802,-29.802,0 1/2:308:0,178,130:0:0:178,130:6235,4595:-881.829,-374.524,-320.941,-507.656,0,-468.522 1/2:31:0,25,6:0:0:25,6:884,212:-89.6094,-17.6186,-10.0929,-72.344,0,-70.5378 1/1:6:0,6,0:0:0:6,0:211,0:-19.325,-1.80618,0,-19.325,-1.80618,-19.325 1/2:41:0,15,26:0:0:15,26:533,909:-117.727,-74.2966,-69.7812,-43.7833,0,-35.9565 1/1:111:0,110,0:0:0:110,0:3835,0:-344.936,-33.1133,0,-344.936,-33.1133,-344.936 1/2:159:0,77,82:0:0:77,82:2692,2928:-458.058,-239.071,-215.891,-219.341,0,-194.656 1/1:156:0,155,1:0:0:155,1:5455,36:-490.715,-46.6597,0,-487.777,-43.3624,-487.476 1/1:99:0,98,0:0:0:98,0:3483,0:-313.415,-29.5009,0,-313.415,-29.5009,-313.415 1/1:114:0,112,2:0:0:112,2:3913,72:-351.963,-33.7154,0,-346.088,-27.4807,-345.486 1/2:113:0,57,56:0:0:57,56:1987,1961:-321.489,-159.906,-142.748,-161.932,0,-145.074 1/2:68:0,41,26:0:0:41,26:1442,906:-191.048,-73.6684,-61.3262,-117.371,0,-109.544 1/1:90:0,85,4:0:0:85,4:2974,144:-267.286,-25.5876,0,-255.536,-13.8379,-254.332 1/1:79:0,79,0:0:0:79,0:2767,0:-249.256,-23.7814,0,-249.256,-23.7814,-249.256 chr08 7066888 . TGCC CGCA,TGCA 33330 PASS AB=0.565986,0.428571;ABP=30.8081,35.5824;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1200,384;CIGAR=1X2M1X,3M1X;DP=1594;DPB=1593.75;DPRA=1.15758,0.898246;EPP=2608.78,836.856;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.1,2.35714;MQM=59.9392,60;MQMR=0;NS=21;NUMALT=2;ODDS=7.1118;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42055,13705;QR=0;RO=0;RPL=0,0;RPP=2608.78,836.856;RPPR=0;RPR=1200,384;RUN=1,1;SAF=0,0;SAP=2608.78,836.856;SAR=1200,384;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,26,30:0:0:26,30:896,1076:-160.893,-88.122,-80.2952,-73.1225,0,-64.0916 1/2:70:0,42,28:0:0:42,28:1469,999:-201.296,-81.7957,-69.1524,-119.855,0,-111.426 1/2:32:0,21,11:0:0:21,11:743,392:-92.8256,-32.3087,-25.9871,-60.8722,0,-57.5609 1/2:84:0,45,38:0:0:45,38:1591,1360:-240.538,-110.96,-97.4137,-129.632,0,-118.193 1/2:103:0,54,49:0:0:54,49:1881,1747:-295.721,-142.763,-126.507,-153.31,0,-138.56 1/1:166:0,166,0:0:0:166,0:5816,0:-523.56,-49.971,0,-523.56,-49.971,-523.56 1/1:144:0,144,0:0:0:144,0:5034,0:-453.213,-43.3483,0,-453.213,-43.3483,-453.213 2/2:66:0,0,66:0:0:0,66:0,2368:-213.378,-213.378,-213.378,-19.868,-19.868,0 1/2:142:0,93,49:0:0:93,49:3265,1736:-407.494,-141.772,-113.776,-266.075,0,-251.325 1/2:9:0,2,7:0:0:2,7:69,252:-26.5242,-20.9217,-20.3197,-5.9506,0,-3.84339 1/1:6:0,6,0:0:0:6,0:202,0:-18.5105,-1.80618,0,-18.5105,-1.80618,-18.5105 1/2:20:0,14,6:0:0:14,6:485,216:-57.3926,-17.9843,-13.7699,-39.7641,0,-37.9579 1/1:75:0,75,0:0:0:75,0:2627,0:-236.678,-22.5773,0,-236.678,-22.5773,-236.678 1/2:107:0,52,53:0:0:52,53:1805,1895:-301.23,-154.513,-138.859,-146.709,0,-130.755 1/1:143:0,140,2:0:0:140,2:4956,72:-445.858,-42.1442,0,-439.983,-36.2228,-439.381 1/1:59:0,58,0:0:0:58,0:2040,0:-183.512,-17.4597,0,-183.512,-17.4597,-183.512 1/1:79:0,77,0:0:0:77,0:2683,0:-241.424,-23.1793,0,-241.424,-23.1793,-241.424 1/2:57:0,27,29:0:0:27,29:961,1020:-161.472,-83.1455,-75.0177,-78.4443,0,-69.7144 1/2:55:0,40,15:0:0:40,15:1398,540:-158.137,-44.4211,-32.3799,-114.073,0,-109.557 1/1:80:0,78,1:0:0:78,1:2747,32:-247.133,-23.4803,0,-244.555,-20.9219,-244.254 1/1:41:0,40,0:0:0:40,0:1387,0:-124.852,-12.0412,0,-124.852,-12.0412,-124.852 chr08 7067517 . T C 47648.5 PASS AB=0.553779;ABP=37.5771;AC=30;AF=0.714286;AN=42;AO=1825;CIGAR=1X;DP=2539;DPB=2539;DPRA=0;EPP=3965.95;EPPR=1549.1;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.7699;MQMR=59.9256;NS=21;NUMALT=1;ODDS=15.6146;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64199;QR=25460;RO=712;RPL=776;RPP=91.6885;RPPR=39.9131;RPR=1049;RUN=1;SAF=776;SAP=91.6885;SAR=1049;SRF=301;SRP=39.9131;SRR=411;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:60,59:60:2148:59:2050:-148.947,0,-157.737 0/1:131:48,83:48:1719:83:2880:-219.991,0,-115.555 0/1:84:34,50:34:1215:50:1749:-132.401,0,-84.3692 0/1:150:71,79:71:2548:79:2801:-207.175,0,-184.415 0/1:238:119,119:119:4231:119:4187:-305.205,0,-309.327 1/1:163:0,163:0:0:163:5801:-522.18,-49.0679,0 1/1:176:0,176:0:0:176:6221:-559.785,-52.9813,0 0/0:98:97,1:97:3472:1:36:0,-25.9027,-309.088 0/1:218:114,104:114:4075:104:3630:-261.007,0,-301.309 1/1:11:0,11:0:0:11:379:-34.4406,-3.31133,0 1/1:23:0,23:0:0:23:815:-73.6626,-6.92369,0 0/1:66:21,45:21:756:45:1598:-124.112,0,-48.4992 1/1:172:0,171:0:0:171:5962:-536.335,-51.4761,0 0/1:118:52,65:52:1856:65:2299:-171.621,0,-131.75 1/1:106:0,106:0:0:106:3735:-336.351,-31.9092,0 1/1:82:0,82:0:0:82:2915:-262.585,-24.6845,0 1/1:108:0,108:0:0:108:3798:-341.982,-32.5112,0 0/1:110:40,70:40:1440:70:2433:-186.096,0,-96.7835 0/1:142:54,88:54:1928:88:3120:-238.276,0,-131.051 1/1:138:2,136:2:72:136:4790:-424.221,-34.7054,0 1/1:86:0,86:0:0:86:3000:-270.23,-25.8886,0 chr08 7067526 . C T 16440.5 PASS AB=0.449317;ABP=34.0463;AC=12;AF=0.285714;AN=42;AO=724;CIGAR=1X;DP=2572;DPB=2572;DPRA=1.29777;EPP=1575.16;EPPR=4011.55;GTI=0;LEN=1;MEANALT=1;MQM=59.8177;MQMR=59.7952;NS=21;NUMALT=1;ODDS=16.0592;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25800;QR=65144;RO=1846;RPL=300;RPP=49.1271;RPPR=116.054;RPR=424;RUN=1;SAF=300;SAP=49.1271;SAR=424;SRF=768;SRP=116.054;SRR=1078;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:60,60:60:2082:60:2143:-157.013,0,-151.521 0/1:130:82,48:82:2905:48:1706:-114.686,0,-222.551 0/1:81:51,30:51:1805:30:1053:-70.6951,0,-138.345 0/1:159:83,76:83:2924:76:2710:-196.276,0,-215.527 0/1:239:120,119:120:4166:119:4263:-311.893,0,-303.013 0/0:168:168,0:168:5969:0:0:0,-50.573,-537.296 0/0:180:179,0:179:6272:0:0:0,-53.8844,-564.161 1/1:98:1,97:1:36:97:3445:-306.659,-25.9027,0 0/1:223:103,120:103:3641:120:4298:-319.816,0,-260.448 0/0:12:12,0:12:409:0:0:0,-3.61236,-37.1354 0/0:24:24,0:24:841:0:0:0,-7.22472,-75.9982 0/1:63:42,21:42:1504:21:748:-48.6804,0,-116.56 0/0:175:175,0:175:6179:0:0:0,-52.6802,-556.205 0/1:121:67,54:67:2380:54:1915:-136.173,0,-178.024 0/0:110:110,0:110:3850:0:0:0,-33.1133,-346.694 0/0:84:84,0:84:2996:0:0:0,-25.2865,-269.785 0/0:104:103,0:103:3675:0:0:0,-31.0061,-330.706 0/1:114:70,44:70:2457:44:1552:-105.158,0,-187.049 0/1:141:88,53:88:3112:53:1895:-128.382,0,-237.856 0/0:141:139,2:139:4960:2:72:0,-35.6085,-439.443 0/0:85:85,0:85:2981:0:0:0,-25.5875,-268.515 chr08 7155597 . T C 12958.8 PASS AB=0.509761;ABP=3.39184;AC=29;AF=0.690476;AN=42;AO=629;CIGAR=1X;DP=890;DPB=890;DPRA=1.25882;EPP=1368.87;EPPR=569.765;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.19037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22470;QR=9303;RO=261;RPL=629;RPP=1368.87;RPPR=569.765;RPR=0;RUN=1;SAF=0;SAP=1368.87;SAR=629;SRF=0;SRP=569.765;SRR=261;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:17,22:17:608:22:784:-59.1437,0,-43.3119 0/1:33:18,15:18:633:15:540:-39.0025,0,-47.3611 0/1:49:18,31:18:640:31:1101:-84.6479,0,-43.1788 0/1:21:5,16:5:180:16:572:-45.4918,0,-10.2304 0/1:98:57,41:57:2032:41:1468:-102.915,0,-153.652 1/1:30:0,30:0:0:30:1072:-96.7925,-9.0309,0 1/1:54:0,54:0:0:54:1936:-174.516,-16.2556,0 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/1:85:43,42:43:1529:42:1504:-110.067,0,-112.314 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:25:10,15:10:341:15:540:-41.4108,0,-23.492 1/1:40:1,39:1:36:39:1373:-120.268,-8.44293,0 0/1:45:19,26:19:684:26:932:-70.6525,0,-48.344 1/1:95:0,95:0:0:95:3404:-306.574,-28.5979,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 0/1:42:29,13:29:1040:13:460:-29.0921,0,-81.2711 0/1:17:8,9:8:288:9:315:-23.5697,0,-21.1499 1/1:79:0,79:0:0:79:2813:-253.408,-23.7814,0 1/1:22:0,22:0:0:22:784:-70.8839,-6.62266,0 chr08 7164691 . G A 19900.3 PASS AB=0.426332;ABP=48.1211;AC=29;AF=0.690476;AN=42;AO=997;CIGAR=1X;DP=1672;DPB=1672;DPRA=0.629675;EPP=2167.97;EPPR=1468.75;GTI=2;LEN=1;MEANALT=1;MQM=59.6008;MQMR=59.9837;NS=21;NUMALT=1;ODDS=3.65315;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35717;QR=24206;RO=675;RPL=0;RPP=2167.97;RPPR=1468.75;RPR=997;RUN=1;SAF=997;SAP=2167.97;SAR=0;SRF=675;SRP=1468.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:65,52:65:2321:52:1853:-131.825,0,-173.928 0/1:75:49,26:49:1764:26:934:-61.66,0,-136.467 0/1:77:55,22:55:1972:22:792:-48.4217,0,-154.558 0/1:166:97,69:97:3480:69:2463:-171.942,0,-263.44 0/1:103:47,56:47:1692:56:2012:-150.347,0,-121.561 1/1:51:1,50:1:36:50:1785:-157.324,-11.7543,0 1/1:73:0,73:0:0:73:2609:-234.471,-21.9752,0 0/0:123:123,0:123:4397:0:0:0,-37.0267,-395.902 0/1:149:89,60:89:3196:60:2156:-149.394,0,-243.009 0/1:18:6,12:6:216:12:432:-33.8027,0,-14.372 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:21:17,4:17:612:4:144:-6.99199,0,-49.0918 1/1:128:0,128:0:0:128:4561:-410.515,-38.5318,0 0/1:71:34,37:34:1224:37:1332:-98.8069,0,-89.0939 1/1:100:1,99:1:36:99:3556:-316.634,-26.5047,0 1/1:61:0,61:0:0:61:2196:-197.415,-18.3628,0 1/1:45:0,45:0:0:45:1616:-145.644,-13.5464,0 0/1:112:65,47:65:2328:47:1684:-118.119,0,-176.065 0/1:48:25,23:25:896:23:828:-60.3923,0,-66.5109 1/1:77:1,76:1:36:76:2720:-241.397,-19.581,0 1/1:51:0,51:0:0:51:1832:-165.128,-15.3525,0 chr08 7164706 . T A 23167.1 PASS AB=0.416051;ABP=60.9797;AC=29;AF=0.690476;AN=42;AO=966;CIGAR=1X;DP=1640;DPB=1640;DPRA=0.644915;EPP=692.927;EPPR=998.975;GTI=2;LEN=1;MEANALT=1;MQM=59.5735;MQMR=59.9837;NS=21;NUMALT=1;ODDS=3.2669;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34241;QR=24169;RO=674;RPL=206;RPP=692.927;RPPR=998.975;RPR=760;RUN=1;SAF=966;SAP=2100.65;SAR=0;SRF=674;SRP=1466.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:66,49:66:2364:49:1736:-121.904,0,-178.4 0/1:73:49,24:49:1760:24:854:-55.1365,0,-136.709 0/1:77:55,22:55:1976:22:784:-47.7017,0,-154.918 0/1:163:97,66:97:3476:66:2342:-161.958,0,-263.983 0/1:101:47,54:47:1684:54:1940:-144.472,0,-121.443 1/1:49:1,48:1:36:48:1704:-150.027,-11.1522,0 1/1:68:0,68:0:0:68:2363:-212.72,-20.47,0 0/0:118:118,0:118:4236:0:0:0,-35.5215,-381.418 0/1:149:89,60:89:3187:60:2136:-147.595,0,-242.199 0/1:19:7,12:7:252:12:432:-33.5016,0,-17.3094 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:21:17,4:17:603:4:144:-6.99199,0,-48.2779 1/1:125:0,125:0:0:125:4424:-398.085,-37.6288,0 0/1:72:36,36:36:1292:36:1269:-92.8343,0,-94.9096 1/1:99:1,98:1:36:98:3496:-311.238,-26.2037,0 1/1:59:0,59:0:0:59:2070:-186.538,-17.7608,0 1/1:45:0,45:0:0:45:1612:-145.284,-13.5464,0 0/1:110:64,46:64:2295:46:1640:-114.763,0,-173.697 0/1:47:26,21:26:936:21:728:-51.6869,0,-70.4111 1/1:73:1,72:1:36:72:2550:-226.098,-18.3769,0 1/1:51:0,51:0:0:51:1801:-162.337,-15.3525,0 chr08 7198860 . CTA CTC,GTC 73669.1 PASS AB=0.496901,0.499718;ABP=3.15833,3.01152;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2362,1094;CIGAR=2M1X,1X1M1X;DP=3469;DPB=3468.67;DPRA=0.787923,1.03181;EPP=5132.03,2378.6;EPPR=7.35324;GTI=0;LEN=1,3;MEANALT=1.95,2.38462;MQM=59.9945,59.9963;MQMR=60;NS=21;NUMALT=2;ODDS=3.7459;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84167,38555;QR=70;RO=2;RPL=2362,1093;RPP=5132.03,2369.92;RPPR=7.35324;RPR=0,1;RUN=1,1;SAF=2362,1093;SAP=5132.03,2369.92;SAR=0,1;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:221:0,126,94:0:0:126,94:4483,3321:-635.956,-270.6,-232.67,-365.499,0,-337.202 1/2:117:0,61,54:0:0:61,54:2192,1914:-334.781,-155.955,-137.592,-178.857,0,-162.601 1/2:154:0,86,68:0:0:86,68:3065,2406:-446.161,-196.326,-170.438,-250.189,0,-229.719 1/2:344:1,175,168:1:34:175,168:6225,5920:-986.257,-479.243,-429.32,-504.571,0,-456.756 1/2:284:0,130,153:0:0:130,153:4639,5378:-815.974,-437.788,-398.655,-378.229,0,-332.172 1/1:122:0,122,0:0:0:122,0:4333,0:-390.144,-36.7257,0,-390.144,-36.7257,-390.144 1/1:290:1,288,0:1:36:288,0:10242,0:-918.186,-83.6793,0,-918.487,-86.6966,-921.425 2/2:207:0,0,206:0:0:0,206:0,7285:-655.349,-655.349,-655.349,-62.0122,-62.0122,0 1/2:301:0,120,181:0:0:120,181:4270,6367:-866.641,-518.642,-482.518,-348.353,0,-293.867 1/2:9:0,2,7:0:0:2,7:63,252:-25.978,-20.9217,-20.3197,-5.38109,0,-3.27388 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:43:0,31,12:0:0:31,12:1095,432:-124.778,-35.6088,-26.2769,-89.5272,0,-85.9148 1/1:323:0,322,0:0:0:322,0:11445,0:-1029.68,-96.9317,0,-1029.68,-96.9317,-1029.68 1/2:130:0,48,82:0:0:48,82:1718,2857:-372.784,-232.683,-218.233,-140.456,0,-115.771 1/1:191:0,187,1:0:0:187,1:6676,36:-600.556,-56.2926,0,-597.619,-53.3552,-597.318 1/1:123:0,123,0:0:0:123,0:4386,0:-394.914,-37.0267,0,-394.914,-37.0267,-394.914 1/1:164:0,164,0:0:0:164,0:5851,0:-526.699,-49.3689,0,-526.699,-49.3689,-526.699 1/2:90:0,48,41:0:0:48,41:1708,1422:-254.775,-115.571,-101.121,-139.195,0,-126.853 1/2:82:0,55,27:0:0:55,27:1955,965:-238.351,-79.0394,-62.4828,-159.668,0,-151.541 1/1:173:0,173,0:0:0:173,0:6205,0:-558.545,-52.0782,0,-558.545,-52.0782,-558.545 1/1:94:0,94,0:0:0:94,0:3364,0:-302.976,-28.2968,0,-302.976,-28.2968,-302.976 chr08 7198869 . CAG TAA 65011 PASS AB=0.40007;ABP=249.082;AC=29;AF=0.690476;AN=42;AO=2847;CIGAR=1X1M1X;DP=4984;DPB=4985;DPRA=0.536353;EPP=6185.19;EPPR=4606.54;GTI=1;LEN=3;MEANALT=1.65;MQM=59.9807;MQMR=59.9981;NS=21;NUMALT=1;ODDS=9.83227;PAIRED=0;PAIREDR=0;PAO=3;PQA=50;PQR=0;PRO=0;QA=99082;QR=73883;RO=2124;RPL=2391;RPP=2858.82;RPPR=5.99147;RPR=456;RUN=1;SAF=2391;SAP=2858.82;SAR=456;SRF=1088;SRP=5.77474;SRR=1036;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:300:173,127:173:5996:127:4470:-312.166,0,-449.449 0/1:165:101,62:101:3488:62:2155:-144.98,0,-264.905 0/1:254:167,87:167:5823:87:3053:-198.541,0,-447.735 0/1:398:214,183:214:7446:183:6376:-454.071,0,-550.334 0/1:411:277,133:277:9644:133:4586:-289.133,0,-744.157 1/1:124:0,123:0:0:123:4348:-391.298,-37.0267,0 1/1:285:2,283:2:72:283:9813:-876.311,-78.9568,0 0/0:425:425,0:425:14787:0:0:0,-127.938,-1330.62 0/1:680:383,294:383:13331:294:10088:-703.742,0,-995.529 0/1:54:41,13:41:1429:13:447:-24.3017,0,-112.647 1/1:7:0,7:0:0:7:243:-22.2075,-2.10721,0 0/1:87:39,48:39:1381:48:1672:-124.575,0,-98.3985 1/1:328:0,328:0:0:328:11491:-1034.09,-98.7378,0 0/1:216:165,51:165:5725:51:1778:-95.2776,0,-450.36 1/1:196:3,192:3:108:192:6723:-595.084,-48.9855,0 1/1:203:0,202:0:0:202:6986:-628.467,-60.8081,0 1/1:228:0,228:0:0:228:7998:-719.858,-68.6348,0 0/1:159:77,81:77:2648:81:2788:-203.24,0,-190.644 0/1:113:57,56:57:2005:56:1964:-143.019,0,-146.707 1/1:258:0,257:0:0:257:8874:-798.4,-77.3647,0 1/1:93:0,92:0:0:92:3229:-290.554,-27.6948,0 chr08 7198908 . G A 32708.7 PASS AB=0.445275;ABP=41.2746;AC=29;AF=0.690476;AN=42;AO=1609;CIGAR=1X;DP=2647;DPB=2647;DPRA=0.554338;EPP=3470.9;EPPR=2239.66;GTI=1;LEN=1;MEANALT=1;MQM=59.9546;MQMR=60;NS=21;NUMALT=1;ODDS=11.5728;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57642;QR=37006;RO=1038;RPL=1606;RPP=3470.9;RPPR=2239.66;RPR=3;RUN=1;SAF=0;SAP=3496.91;SAR=1609;SRF=0;SRP=2257;SRR=1038;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:83,71:83:2984:71:2539:-182.402,0,-222.433 0/1:83:44,39:44:1572:39:1404:-101.674,0,-116.786 0/1:153:97,56:97:3476:56:2007:-134.845,0,-266.994 0/1:108:48,60:48:1724:60:2156:-161.793,0,-122.934 0/1:227:130,97:130:4645:97:3463:-243.547,0,-349.877 1/1:70:0,70:0:0:70:2520:-227.05,-21.0721,0 1/1:198:1,197:1:36:197:7075:-633.208,-56.0057,0 0/0:219:219,0:219:7790:0:0:0,-65.9256,-701.136 0/1:377:203,174:203:7181:174:6220:-446.138,0,-532.865 0/1:45:34,11:34:1208:11:396:-22.4364,0,-95.4797 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:44:27,17:27:964:17:612:-42.1681,0,-73.8315 1/1:94:0,94:0:0:94:3376:-304.055,-28.2968,0 0/1:132:83,49:83:2959:49:1760:-118.948,0,-226.808 1/1:306:2,304:2:72:304:10877:-971.986,-85.2785,0 1/1:83:0,83:0:0:83:2967:-267.263,-24.9855,0 1/1:71:0,71:0:0:71:2527:-227.66,-21.3731,0 0/1:72:38,34:38:1355:34:1211:-87.6214,0,-100.576 0/1:76:29,47:29:1040:47:1688:-129.329,0,-71.0361 1/1:88:0,88:0:0:88:3152:-283.905,-26.4906,0 1/1:39:0,39:0:0:39:1404:-126.658,-11.7402,0 chr08 7198914 . TTCC ATCC,ATCT 55517.6 PASS AB=0.434487,0.558045;ABP=57.9222,46.1169;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1581,1050;CIGAR=1X3M,1X2M1X;DP=2646;DPB=2646;DPRA=0.538,2.4;EPP=3436.11,2283.06;EPPR=9.52472;GTI=1;LEN=1,4;MEANALT=2.2,2.53333;MQM=59.9658,60;MQMR=60;NS=21;NUMALT=2;ODDS=7.14658;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56423,37103;QR=99;RO=3;RPL=1581,1050;RPP=3436.11,2283.06;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3436.11,2283.06;SAR=1581,1050;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:155:0,71,83:0:0:71,83:2480,2957:-442.89,-241.166,-219.793,-201.864,0,-176.878 1/2:85:0,40,45:0:0:40,45:1428,1584:-245.723,-129.301,-117.26,-116.776,0,-103.23 1/2:155:0,55,99:0:0:55,99:1942,3483:-441.666,-283.522,-266.966,-158.136,0,-128.334 1/2:107:0,59,48:0:0:59,48:2108,1704:-311.067,-139.197,-121.436,-172.226,0,-157.777 1/2:225:0,94,131:0:0:94,131:3361,4649:-653.191,-379.139,-350.842,-274.408,0,-234.973 1/1:70:0,70,0:0:0:70,0:2508,0:-225.971,-21.0721,0,-225.971,-21.0721,-225.971 1/1:199:0,198,1:0:0:198,1:7069,36:-635.911,-59.6039,0,-632.974,-56.3067,-632.673 2/2:225:0,0,225:0:0:0,225:0,7932:-713.915,-713.915,-713.915,-67.7318,-67.7318,0 1/2:377:0,169,206:0:0:169,206:6051,7268:-1085.22,-591.885,-541.011,-493.402,0,-431.39 1/2:44:0,10,33:0:0:10,33:356,1161:-123.626,-94.6088,-91.5985,-29.1113,0,-19.1773 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:44:0,17,27:0:0:17,27:612,952:-127.806,-77.8668,-72.7493,-50.2959,0,-42.1681 1/1:93:0,93,0:0:0:93,0:3295,0:-296.766,-27.9958,0,-296.766,-27.9958,-296.766 1/2:134:0,46,83:0:0:46,83:1643,2938:-373.269,-239.314,-225.467,-133.955,0,-108.969 1/1:302:1,299,1:1:36:299,1:10652,32:-954.995,-87.0639,0,-952.717,-87.4429,-955.354 1/1:82:0,82,0:0:0:82,0:2952,0:-265.913,-24.6845,0,-265.913,-24.6845,-265.913 1/1:69:0,68,1:0:0:68,1:2429,30:-218.562,-20.47,0,-216.164,-17.7715,-215.863 1/2:70:1,32,37:1:36:32,37:1152,1298:-196.384,-102.683,-95.9877,-91.0599,0,-82.8592 1/2:77:0,47,30:0:0:47,30:1688,1079:-226.092,-88.3923,-74.2439,-138.059,0,-129.028 1/1:85:1,83,0:1:27:83,0:2969,0:-264.696,-22.9016,0,-264.997,-24.9855,-267.125 1/1:40:0,40,0:0:0:40,0:1440,0:-129.896,-12.0412,0,-129.896,-12.0412,-129.896 chr08 7216687 . A C 5307.3 PASS AB=0.472275;ABP=6.50209;AC=13;AF=0.309524;AN=42;AO=315;CIGAR=1X;DP=939;DPB=939;DPRA=1.54076;EPP=687.024;EPPR=1358.01;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.01297;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11145;QR=22087;RO=624;RPL=315;RPP=687.024;RPPR=1358.01;RPR=0;RUN=1;SAF=315;SAP=687.024;SAR=0;SRF=624;SRP=1358.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:37,52:37:1311:52:1846:-139.627,0,-91.4992 0/1:15:3,12:3:108:12:410:-32.7111,0,-5.55972 0/1:50:26,24:26:913:24:860:-62.6703,0,-67.4325 0/1:35:19,16:19:676:16:567:-40.8247,0,-50.6319 0/1:110:58,52:58:2072:52:1840:-132.767,0,-153.637 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.173 0/0:54:54,0:54:1880:0:0:0,-16.2556,-169.476 1/1:63:0,63:0:0:63:2223:-200.335,-18.9649,0 0/1:95:61,34:61:2159:34:1211:-80.6977,0,-165.979 0/1:9:7,2:7:244:2:72:-4.12745,0,-19.5902 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:23:16,7:16:564:7:252:-16.1053,0,-44.1666 0/0:58:58,0:58:2052:0:0:0,-17.4597,-184.952 0/1:66:35,31:35:1237:31:1090:-78.5399,0,-91.7643 0/0:49:49,0:49:1736:0:0:0,-14.7505,-156.525 0/0:14:14,0:14:492:0:0:0,-4.21442,-44.6123 0/0:29:29,0:29:1028:0:0:0,-8.72987,-92.833 0/1:22:9,13:9:320:13:459:-35.0214,0,-22.5197 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/0:85:80,5:80:2831:5:171:0,-9.8621,-239.305 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 chr08 7995434 . T A 23111.5 PASS AB=0.36234;ABP=337.806;AC=29;AF=0.690476;AN=42;AO=1829;CIGAR=1X;DP=3229;DPB=3229;DPRA=1.5645;EPP=3974.63;EPPR=2971.81;GTI=2;LEN=1;MEANALT=1.05;MQM=29.0634;MQMR=42.1215;NS=21;NUMALT=1;ODDS=0.630686;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65572;QR=49972;RO=1399;RPL=1829;RPP=3974.63;RPPR=677.084;RPR=0;RUN=1;SAF=0;SAP=3974.63;SAR=1829;SRF=362;SRP=710.213;SRR=1037;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:223:137,86:137:4878:86:3088:-157.614,0,-336.854 0/1:173:115,58:115:4076:58:2088:-81.5752,0,-306.909 0/1:195:117,78:117:4180:78:2804:-142.709,0,-267.558 0/1:225:152,73:152:5438:73:2605:-121.206,0,-358.466 0/1:442:273,169:273:9767:169:6069:-303.968,0,-586.399 1/1:111:1,110:1:36:110:3940:-249.484,-29.8161,0 1/1:205:1,204:1:36:204:7305:-463.848,-58.2875,0 0/0:100:100,0:100:3569:0:0:0,-30.103,-306.848 0/1:346:227,119:227:8130:119:4257:-216.238,0,-553.133 0/1:21:9,12:9:324:12:428:-23.7315,0,-22.7557 1/1:7:0,7:0:0:7:248:-16.487,-2.10721,0 0/1:23:13,10:13:468:10:360:-18.1273,0,-34.2101 1/1:168:0,168:0:0:168:6025:-433.117,-50.573,0 0/1:210:145,65:145:5178:65:2336:-104.869,0,-356.682 1/1:217:0,216:0:0:216:7741:-562.223,-65.0225,0 1/1:122:0,122:0:0:122:4387:-327.293,-36.7257,0 1/1:101:0,101:0:0:101:3617:-275.924,-30.404,0 0/1:71:43,28:43:1535:28:1000:-47.0587,0,-114.797 0/1:105:66,39:66:2357:39:1404:-71.0572,0,-140.46 1/1:126:0,126:0:0:126:4506:-308.913,-37.9298,0 1/1:38:0,38:0:0:38:1364:-87.8735,-11.4391,0 chr08 8070542 . C T 37856.4 PASS AB=0.483146;ABP=6.96287;AC=28;AF=0.666667;AN=42;AO=1866;CIGAR=1X;DP=2887;DPB=2887;DPRA=0.743132;EPP=4046.3;EPPR=2209.23;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9625;MQMR=60;NS=21;NUMALT=1;ODDS=7.47635;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66584;QR=36290;RO=1020;RPL=1865;RPP=4046.3;RPPR=2209.23;RPR=1;RUN=1;SAF=1866;SAP=4054.98;SAR=0;SRF=1020;SRP=2217.91;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:187:95,92:95:3383:92:3291:-240.116,0,-248.394 0/1:123:64,59:64:2300:59:2112:-153.314,0,-170.234 0/1:150:74,76:74:2651:76:2727:-200.518,0,-193.681 0/1:137:82,55:82:2908:55:1931:-132.822,0,-220.714 0/1:328:175,153:175:6270:153:5490:-395.487,0,-465.654 1/1:85:3,82:3:108:82:2948:-255.478,-15.5124,0 1/1:231:3,227:3:104:227:8086:-717.894,-59.7782,0 0/0:182:182,0:182:6430:0:0:0,-54.7875,-578.795 0/1:272:143,129:143:5111:129:4590:-331.386,0,-378.253 0/1:11:6,5:6:216:5:176:-12.8737,0,-16.4792 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:46:30,16:30:1057:16:568:-37.6045,0,-81.5916 1/1:120:0,120:0:0:120:4285:-385.827,-36.1236,0 0/1:153:77,76:77:2704:76:2697:-196.916,0,-197.547 1/1:240:0,240:0:0:240:8547:-769.23,-72.2472,0 1/1:147:2,145:2:72:145:5208:-462.02,-37.4147,0 1/1:98:1,97:1:36:97:3484:-310.172,-25.9027,0 0/1:124:58,66:58:2052:66:2331:-172.719,0,-147.622 0/1:64:23,41:23:816:41:1467:-113.059,0,-54.4958 1/1:107:1,106:1:36:106:3763:-335.223,-28.6119,0 1/1:75:0,75:0:0:75:2667:-240.275,-22.5773,0 chr08 8103452 . GCT GCA,ACA 29031.3 PASS AB=0.587444,0.412556;ABP=47.4427,47.4427;AC=29,13;AF=0.690476,0.309524;AN=42;AO=990,372;CIGAR=2M1X,1X1M1X;DP=1362;DPB=1362;DPRA=0.674468,1.21066;EPP=2144.09,810.798;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.6,1.92308;MQM=53.9384,45.6855;MQMR=0;NS=21;NUMALT=2;ODDS=5.99211;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35398,13254;QR=0;RO=0;RPL=1,0;RPP=2144.09,810.798;RPPR=0;RPR=989,372;RUN=1,1;SAF=990,372;SAP=2152.77,810.798;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,56,31:0:0:56,31:1996,1107:-251.608,-89.226,-72.3683,-162.736,0,-153.404 1/2:101:0,66,35:0:0:66,35:2372,1248:-293.026,-99.8786,-80.0106,-193.5,0,-182.964 1/2:59:0,31,28:0:0:31,28:1112,999:-170.572,-80.116,-70.7841,-90.8098,0,-82.381 1/2:100:0,52,48:0:0:52,48:1848,1708:-287.488,-137.218,-121.565,-150.622,0,-136.173 1/2:58:0,33,25:0:0:33,25:1169,900:-167.368,-72.3821,-62.4481,-95.3396,0,-87.8139 1/1:29:0,29,0:0:0:29,0:1040,0:-93.7034,-8.72987,0,-93.7034,-8.72987,-93.7034 1/1:59:0,59,0:0:0:59,0:2113,0:-189.953,-17.7608,0,-189.953,-17.7608,-189.953 2/2:94:0,0,94:0:0:0,94:0,3352:-297.228,-297.228,-297.228,-28.2968,-28.2968,0 1/2:106:0,64,42:0:0:64,42:2288,1502:-305.103,-119.146,-99.8798,-186.308,0,-173.665 1/2:5:0,4,1:0:0:4,1:140,28:-13.9299,-2.49355,-1.28943,-11.7298,0,-11.4288 1/1:5:0,5,0:0:0:5,0:180,0:-16.5362,-1.50515,0,-16.5362,-1.50515,-16.5362 1/2:19:0,8,11:0:0:8,11:288,396:-55.6035,-32.1229,-29.7147,-23.838,0,-20.5266 1/1:114:0,114,0:0:0:114,0:4080,0:-365.97,-34.3174,0,-365.97,-34.3174,-365.97 1/2:73:0,41,32:0:0:41,32:1439,1131:-208.029,-91.627,-79.2847,-116.752,0,-107.119 1/1:101:0,101,0:0:0:101,0:3615,0:-324.681,-30.404,0,-324.681,-30.404,-324.681 1/1:71:0,71,0:0:0:71,0:2534,0:-227.875,-21.3731,0,-227.875,-21.3731,-227.875 1/1:48:0,48,0:0:0:48,0:1712,0:-153.542,-14.4494,0,-153.542,-14.4494,-153.542 1/2:24:0,13,11:0:0:13,11:464,381:-68.5112,-30.7308,-26.8175,-38.1281,0,-34.8167 1/2:37:0,25,12:0:0:25,12:900,430:-107.899,-34.7398,-27.2141,-73.513,0,-69.9007 1/1:140:0,138,2:0:0:138,2:4956,72:-445.263,-41.5421,0,-439.523,-35.4491,-438.921 1/1:32:0,32,0:0:0:32,0:1152,0:-103.776,-9.63296,0,-103.776,-9.63296,-103.776 chr08 8103479 . ATTAC ATA,ATAA 27711.4 PASS AB=0.579909,0.420091;ABP=39.4494,39.4494;AC=29,13;AF=0.690476,0.309524;AN=42;AO=963,366;CIGAR=2M2D1X,1M1D2M1X;DP=1334;DPB=875;DPRA=0.667204,1.20484;EPP=2094.14,797.769;EPPR=0;GTI=1;LEN=3,4;MEANALT=1.65,2.15385;MQM=53.8775,45.7295;MQMR=0;NS=21;NUMALT=2;ODDS=3.01589;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=12,12;PQR=12;PRO=0.333333;QA=34137,12702;QR=0;RO=0;RPL=963,366;RPP=2094.14,797.769;RPPR=0;RPR=0,0;RUN=1,1;SAF=963,366;SAP=2094.14,797.769;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,56,31:0:0:56,31:1991,1079:-248.642,-86.7964,-69.9387,-162.193,0,-152.861 1/2:99:0,64,35:0:0:64,35:2276,1210:-281.924,-96.6897,-77.4238,-185.579,0,-175.043 1/2:58:0,30,28:0:0:30,28:1064,970:-164.218,-77.762,-68.7311,-86.8033,0,-78.3745 1/2:98:0,50,48:0:0:50,48:1762,1673:-277.496,-134.344,-119.293,-143.499,0,-129.05 1/2:55:0,30,25:0:0:30,25:1056,871:-155.926,-70.0731,-61.0422,-86.2001,0,-78.6744 1/1:27:0,27,0:0:0:27,0:956,0:-86.1522,-8.12781,0,-86.1522,-8.12781,-86.1522 1/1:59:0,58,0:0:0:58,0:2063,0:-184.959,-17.4597,0,-184.959,-17.4597,-184.959 2/2:93:0,0,89:0:0:0,89:0,3088:-274.11,-274.11,-274.11,-26.7917,-26.7917,0 1/2:103:0,61,42:0:0:61,42:2160,1478:-292.59,-117.236,-98.8733,-175.649,0,-163.006 1/2:4:0,3,1:0:0:3,1:104,36:-11.7042,-3.26578,-2.36269,-8.79245,0,-8.49142 1/1:5:0,5,0:0:0:5,0:180,0:-16.5362,-1.50515,0,-16.5362,-1.50515,-16.5362 1/2:18:0,7,11:0:0:7,11:252,377:-51.0121,-30.4626,-28.3554,-20.9005,0,-17.5892 1/1:113:0,113,0:0:0:113,0:3988,0:-357.934,-34.0164,0,-357.934,-34.0164,-357.934 1/2:71:0,39,32:0:0:39,32:1380,1088:-199.393,-87.8846,-76.1444,-111.852,0,-102.219 1/1:99:0,99,0:0:0:99,0:3506,0:-314.901,-29.802,0,-314.901,-29.802,-314.901 1/1:73:0,73,0:0:0:73,0:2574,0:-231.327,-21.9752,0,-231.327,-21.9752,-231.327 1/1:47:0,47,0:0:0:47,0:1668,0:-149.591,-14.1484,0,-149.591,-14.1484,-149.591 1/2:24:0,13,11:0:0:13,11:464,384:-69.0236,-31.2461,-27.3327,-38.1281,0,-34.8167 1/2:40:0,28,12:0:0:28,12:988,412:-113.615,-33.4352,-25.0063,-80.523,0,-76.9106 1/1:133:0,132,1:0:0:132,1:4701,36:-422.175,-39.736,0,-419.266,-36.4702,-418.965 1/1:28:0,28,0:0:0:28,0:1004,0:-90.4805,-8.42884,0,-90.4805,-8.42884,-90.4805 chr08 8168391 . C T 52731.3 PASS AB=0.564495;ABP=57.3491;AC=29;AF=0.690476;AN=42;AO=2527;CIGAR=1X;DP=3294;DPB=3294;DPRA=1.53365;EPP=5490.32;EPPR=1666.36;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9592;MQMR=59.9491;NS=21;NUMALT=1;ODDS=15.9213;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89369;QR=27265;RO=766;RPL=2524;RPP=5464.29;RPPR=1666.36;RPR=3;RUN=1;SAF=2524;SAP=5464.29;SAR=3;SRF=766;SRP=1666.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:181:80,101:80:2837:101:3559:-265.989,0,-201.082 0/1:142:58,84:58:2071:84:2984:-226.045,0,-143.286 0/1:144:61,83:61:2188:83:2947:-222.114,0,-153.837 0/1:139:63,76:63:2240:76:2688:-200.321,0,-160.021 0/1:268:114,154:114:4062:154:5428:-407.969,0,-285.091 1/1:188:0,188:0:0:188:6705:-603.516,-56.5936,0 1/1:299:0,299:0:0:299:10594:-953.383,-90.008,0 0/0:104:104,0:104:3690:0:0:0,-31.3071,-332.302 0/1:321:137,183:137:4876:183:6488:-487.465,0,-342.453 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:19:11,8:11:392:8:284:-20.1838,0,-29.9005 1/1:253:1,252:1:36:252:8872:-794.804,-72.5623,0 0/1:140:69,71:69:2460:71:2489:-182.117,0,-179.511 1/1:377:0,377:0:0:377:13341:-1200.49,-113.488,0 1/1:181:3,178:3:108:178:6271:-554.414,-44.4113,0 1/1:125:0,125:0:0:125:4432:-399.051,-37.6288,0 0/1:54:29,25:29:1032:25:870:-62.3589,0,-76.9379 0/1:88:29,59:29:1025:59:2108:-163.499,0,-66.0701 1/1:196:4,192:4:140:192:6751:-594.725,-46.0573,0 1/1:57:0,57:0:0:57:2018:-181.892,-17.1587,0 chr08 8223701 . A G 14310.7 PASS AB=0.507095;ABP=3.59574;AC=13;AF=0.309524;AN=42;AO=811;CIGAR=1X;DP=2339;DPB=2339;DPRA=1.14135;EPP=1764.07;EPPR=3312.34;GTI=0;LEN=1;MEANALT=1;MQM=59.9716;MQMR=59.9424;NS=21;NUMALT=1;ODDS=8.64567;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28852;QR=54686;RO=1528;RPL=810;RPP=1755.4;RPPR=3312.34;RPR=1;RUN=1;SAF=810;SAP=1755.4;SAR=1;SRF=1528;SRP=3321.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:78,94:78:2780:94:3363:-251.109,0,-198.665 0/1:153:71,82:71:2548:82:2936:-218.417,0,-183.513 0/1:102:42,60:42:1508:60:2136:-161.8,0,-105.31 0/1:190:93,97:93:3340:97:3424:-251.166,0,-243.621 0/1:281:123,158:123:4384:158:5636:-422.773,0,-310.143 0/0:37:36,1:36:1288:1:36:0,-7.53983,-112.625 0/0:89:89,0:89:3196:0:0:0,-26.7917,-287.863 1/1:129:0,129:0:0:129:4598:-413.979,-38.8329,0 0/1:42:20,22:20:716:22:788:-58.6015,0,-52.1245 0/1:29:16,13:16:568:13:453:-32.3698,0,-42.722 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:53:34,19:34:1216:19:684:-45.9357,0,-93.792 0/0:86:86,0:86:3088:0:0:0,-25.8886,-278.147 0/1:129:71,58:71:2540:58:2046:-145.573,0,-190.018 0/0:124:123,1:123:4373:1:36:0,-33.7294,-390.141 0/0:103:102,1:102:3668:1:36:0,-27.4078,-326.724 0/0:222:222,0:222:7952:0:0:0,-66.8287,-715.33 0/1:119:69,50:69:2476:50:1771:-123.85,0,-187.271 0/1:69:43,26:43:1540:26:909:-61.3523,0,-118.122 0/0:120:120,0:120:4293:0:0:0,-36.1236,-386.416 0/0:73:73,0:73:2604:0:0:0,-21.9752,-233.753 chr08 8223757 . G T 42097.9 PASS AB=0.476589;ABP=11.5509;AC=29;AF=0.690476;AN=42;AO=2071;CIGAR=1X;DP=3147;DPB=3147;DPRA=1.15115;EPP=4500.13;EPPR=2337.34;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9734;MQMR=59.9823;NS=21;NUMALT=1;ODDS=0.659346;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73944;QR=38372;RO=1075;RPL=2071;RPP=4500.13;RPPR=2337.34;RPR=0;RUN=1;SAF=0;SAP=4500.13;SAR=2071;SRF=0;SRP=2337.34;SRR=1075;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:84,83:84:3004:83:2969:-217.17,0,-220.32 0/1:141:81,60:81:2887:60:2122:-148.8,0,-217.621 0/1:181:78,103:78:2783:103:3665:-275.567,0,-196.224 0/1:136:93,43:93:3332:43:1540:-97.953,0,-259.157 0/1:342:183,159:183:6544:159:5673:-407.737,0,-486.087 1/1:90:4,86:4:144:86:3088:-264.834,-13.7791,0 1/1:203:0,203:0:0:203:7224:-650.217,-61.1091,0 0/0:131:131,0:131:4667:0:0:0,-39.4349,-420.193 0/1:314:170,144:170:6067:144:5113:-365.788,0,-451.611 0/1:23:11,12:11:392:12:417:-30.9365,0,-28.6964 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:42:16,26:16:576:26:936:-71.9162,0,-39.5317 1/1:191:0,191:0:0:191:6798:-611.88,-57.4967,0 0/1:186:86,100:86:3060:100:3550:-263.711,0,-219.637 1/1:307:0,307:0:0:307:11001:-989.981,-92.4162,0 1/1:133:0,133:0:0:133:4776:-429.995,-40.037,0 1/1:73:0,72:0:0:72:2564:-230.651,-21.6742,0 0/1:182:106,76:106:3790:76:2732:-191.27,0,-286.505 0/1:80:31,49:31:1090:49:1764:-134.961,0,-74.3255 1/1:147:1,146:1:36:146:5212:-465.617,-40.6531,0 1/1:72:0,72:0:0:72:2584:-232.809,-21.6742,0 chr08 8279102 . T G 17498.8 PASS AB=0.482153;ABP=8.04845;AC=13;AF=0.309524;AN=42;AO=1004;CIGAR=1X;DP=3089;DPB=3089;DPRA=1.20475;EPP=2148.56;EPPR=4433.32;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.6056;MQMR=59.9928;NS=21;NUMALT=1;ODDS=6.30309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35725;QR=74630;RO=2084;RPL=4;RPP=2148.56;RPPR=4433.32;RPR=1000;RUN=1;SAF=1004;SAP=2183.17;SAR=0;SRF=2084;SRP=4528.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:323:175,147:175:6265:147:5242:-374.743,0,-466.796 0/1:145:71,74:71:2518:74:2595:-189.785,0,-183.222 0/1:156:71,85:71:2556:85:3022:-224.617,0,-183.329 0/1:184:84,100:84:2994:100:3541:-263.461,0,-214.299 0/1:367:178,189:178:6372:189:6707:-493.212,0,-463.092 0/0:75:75,0:75:2688:0:0:0,-22.5772,-242.156 0/0:137:137,0:137:4903:0:0:0,-41.2411,-441.421 1/1:122:0,122:0:0:122:4349:-391.304,-36.7257,0 0/1:103:71,32:71:2540:32:1148:-72.6219,0,-197.845 0/1:23:17,6:17:612:6:216:-12.8653,0,-48.4897 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:35:20,15:20:720:15:521:-36.6787,0,-54.5927 0/0:167:167,0:167:5977:0:0:0,-50.272,-538.035 0/1:151:83,68:83:2954:68:2436:-174.028,0,-220.635 0/0:262:262,0:262:9400:0:0:0,-78.8699,-845.959 0/0:144:144,0:144:5155:0:0:0,-43.3483,-464.09 0/0:83:81,2:81:2904:2:72:0,-18.1488,-254.759 0/1:178:81,97:81:2904:97:3476:-259.447,0,-208.012 0/1:156:91,65:91:3260:65:2328:-162.789,0,-246.66 0/0:157:155,2:155:5568:2:72:0,-40.425,-494.404 0/0:115:115,0:115:4124:0:0:0,-34.6184,-371.344 chr08 8279130 . C A 45804.7 PASS AB=0.496656;ABP=3.34432;AC=13;AF=0.309524;AN=42;AO=1971;CIGAR=1X;DP=6043;DPB=6043;DPRA=1.42192;EPP=4282.98;EPPR=8840.9;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.7433;MQMR=59.8791;NS=21;NUMALT=1;ODDS=16.8566;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69743;QR=143733;RO=4070;RPL=979;RPP=3.19649;RPPR=4.68345;RPR=992;RUN=1;SAF=979;SAP=3.19649;SAR=992;SRF=2063;SRP=4.68345;SRR=2007;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:459:249,210:249:8823:210:7504:-537.203,0,-655.88 0/1:285:133,152:133:4703:152:5412:-400.971,0,-337.634 0/1:280:120,160:120:4232:160:5670:-425.5,0,-295.293 0/1:321:155,165:155:5465:165:5800:-425.358,0,-395.249 0/1:591:261,330:261:9216:330:11655:-870.899,0,-651.51 0/0:215:211,4:211:7467:4:140:0,-51.7769,-658.778 0/0:391:391,0:391:13817:0:0:0,-117.703,-1242.9 1/1:249:0,249:0:0:249:8811:-792.452,-74.9565,0 0/1:428:229,199:229:8112:199:6991:-500.419,0,-601.26 0/1:43:23,20:23:791:20:698:-50.1972,0,-58.5589 0/0:23:23,0:23:811:0:0:0,-6.92369,-73.31 0/1:109:65,44:65:2283:44:1548:-106.796,0,-172.914 0/0:336:335,1:335:11859:1:36:0,-97.5478,-1063.06 0/1:254:113,141:113:4019:141:5006:-374.178,0,-285.436 0/0:441:440,1:440:15506:1:32:0,-129.555,-1392.01 0/0:220:220,0:220:7760:0:0:0,-66.2266,-698.395 0/0:134:133,1:133:4725:1:36:0,-36.7397,-421.813 0/1:361:176,184:176:6148:184:6521:-478.226,0,-444.7 0/1:308:205,103:205:7199:103:3646:-235.576,0,-555.169 0/0:353:347,6:347:12268:6:201:0,-87.8465,-1085.07 0/0:242:241,1:241:8529:1:36:0,-69.251,-764.016 chr08 8279144 . TATTGA CATTGA,CATTTGA 68892.8 PASS AB=0.686766,0.307839;ABP=957.693,1013.64;AC=22,20;AF=0.52381,0.47619;AN=42;AO=2292,970;CIGAR=1X5M,1X1M1I4M;DP=3281;DPB=3815.17;DPRA=0,1.21192;EPP=4971.34,2109.34;EPPR=0;GTI=4;LEN=1,7;MEANALT=2.85714,2.85;MQM=59.918,59.4433;MQMR=0;NS=21;NUMALT=2;ODDS=0.753808;PAIRED=0,0;PAIREDR=0;PAO=1117,1117;PQA=38896.5,38896.5;PQR=0;PRO=0;QA=81399,33768;QR=0;RO=0;RPL=204,0;RPP=3365.81,2109.34;RPPR=0;RPR=2088,970;RUN=1,1;SAF=203,0;SAP=3372.96,2109.34;SAR=2089,970;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:151:0,116,35:0:0:116,35:4126,1207:-419.307,-83.3895,-48.47,-321.311,0,-310.775 1/2:150:0,122,26:0:0:122,26:4344,919:-424.782,-71.013,-34.2873,-349.954,0,-342.127 1/2:121:0,92,27:0:0:92,27:3275,906:-336.487,-69.7442,-42.0494,-263.319,0,-255.191 1/2:151:0,120,31:0:0:120,31:4256,1062:-425.027,-78.5901,-42.4665,-338.841,0,-329.509 1/2:238:0,187,50:0:0:187,50:6656,1741:-667.49,-125.297,-69.0041,-525.942,0,-510.89 1/2:148:0,89,59:0:0:89,59:3196,2032:-421.275,-160.6,-133.808,-256.628,0,-238.867 1/2:254:0,146,106:0:0:146,106:5148,3686:-714.891,-295.77,-251.819,-415.332,0,-383.423 1/1:130:0,128,0:0:0:128,0:4517,0:-402.935,-38.5318,0,-402.935,-38.5318,-402.935 1/2:394:0,304,89:0:0:304,89:10845,3145:-1140.3,-256.208,-164.695,-884.17,0,-857.378 1/2:22:0,18,4:0:0:18,4:629,144:-61.9488,-11.0739,-5.65536,-50.2112,0,-49.007 1/2:18:0,12,6:0:0:12,6:420,207:-50.9236,-16.7877,-13.1754,-34.1907,0,-32.3845 1/2:76:0,56,19:0:0:56,19:1999,675:-215.954,-53.0592,-36.2015,-160.965,0,-155.246 1/2:174:0,91,83:0:0:91,83:3245,2882:-493.583,-229.104,-201.71,-259.393,0,-234.407 1/2:112:0,91,20:0:0:91,20:3212,705:-312.114,-50.8305,-23.4367,-254.727,0,-248.707 1/2:193:0,80,110:0:0:80,110:2836,3832:-539.798,-308.793,-284.711,-228.281,0,-195.167 1/2:169:0,145,23:0:0:145,23:5125,800:-482.304,-64.9116,-21.2622,-417.266,0,-410.342 1/2:104:0,71,32:0:0:71,32:2497,1106:-292.795,-89.5391,-68.1659,-202.934,0,-193.301 1/2:190:0,142,48:0:0:142,48:5020,1694:-536.734,-128.047,-85.301,-398.819,0,-384.37 1/2:157:0,108,49:0:0:108,49:3839,1687:-443.334,-130.714,-98.2023,-306.392,0,-291.641 1/2:197:0,102,94:0:0:102,94:3630,3264:-551.877,-256.081,-225.376,-286.615,0,-258.318 1/2:132:0,72,59:0:0:72,59:2584,2074:-372.432,-161.715,-140.041,-203.952,0,-186.192 chr08 8299437 . GGAG AGAA,GGAA 29962.8 PASS AB=0.492647,0.503676;ABP=3.3935,3.1061;AC=29,13;AF=0.690476,0.309524;AN=42;AO=947,500;CIGAR=1X2M1X,3M1X;DP=1454;DPB=1454;DPRA=0.785632,1.61337;EPP=2050.72,1088.75;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=1.95,2.21429;MQM=60,59.932;MQMR=60;NS=21;NUMALT=2;ODDS=4.99276;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33090,17693;QR=35;RO=1;RPL=0,0;RPP=2059.39,1088.75;RPPR=5.18177;RPR=947,500;RUN=1,1;SAF=1,0;SAP=2050.72,1088.75;SAR=946,500;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:138:0,78,60:0:0:78,60:2741,2130:-397.005,-173.905,-150.425,-223.453,0,-205.391 1/2:44:0,15,29:0:0:15,29:497,1027:-124.202,-84.0123,-79.4969,-40.5291,0,-31.7992 1/2:71:0,44,27:0:0:44,27:1538,945:-202.35,-77.2344,-63.9891,-125.465,0,-117.338 1/2:68:0,31,36:0:0:31,36:1077,1283:-192.278,-104.722,-95.3897,-87.6913,0,-76.8542 1/2:129:0,61,67:0:0:61,67:2132,2374:-366.821,-193.389,-175.026,-173.424,0,-153.255 1/1:49:0,49,0:0:0:49,0:1725,0:-155.533,-14.7505,0,-155.533,-14.7505,-155.533 1/1:141:1,139,1:1:35:139,1:4857,36:-433.79,-39.0004,0,-431.153,-38.9008,-433.7 2/2:87:0,0,87:0:0:0,87:0,3079:-276.848,-276.848,-276.848,-26.1896,-26.1896,0 1/2:114:0,40,74:0:0:40,74:1427,2614:-329.562,-213.23,-201.189,-116.687,0,-94.4109 1/2:14:0,8,6:0:0:8,6:280,212:-40.3974,-17.6186,-15.2104,-23.1305,0,-21.3243 1/1:8:0,8,0:0:0:8,0:273,0:-24.9008,-2.40824,0,-24.9008,-2.40824,-24.9008 1/2:18:0,10,8:0:0:10,8:353,284:-52.2399,-23.4951,-20.4848,-29.0987,0,-26.6905 1/1:68:0,68,0:0:0:68,0:2396,0:-215.898,-20.47,0,-215.898,-20.47,-215.898 1/2:76:0,29,46:0:0:29,46:996,1628:-213.609,-132.737,-124.007,-80.9935,0,-67.1462 1/1:66:0,64,1:0:0:64,1:2245,36:-201.954,-19.2659,0,-199.017,-16.3285,-198.716 1/1:50:0,50,0:0:0:50,0:1738,0:-156.703,-15.0515,0,-156.703,-15.0515,-156.703 1/1:73:0,71,0:0:0:71,0:2485,0:-223.579,-21.3731,0,-223.579,-21.3731,-223.579 1/2:117:0,65,52:0:0:65,52:2264,1829:-333.342,-149.235,-129.668,-184.457,0,-168.803 1/2:27:0,21,6:0:0:21,6:724,216:-76.784,-17.9843,-11.6627,-59.1561,0,-57.3499 1/1:53:0,53,0:0:0:53,0:1853,0:-167.047,-15.9546,0,-167.047,-15.9546,-167.047 1/1:43:0,43,0:0:0:43,0:1489,0:-134.301,-12.9443,0,-134.301,-12.9443,-134.301 chr08 8299555 . ACA AA,AAA 39204.4 PASS AB=0.818239,0.181137;ABP=1411.36,1416.9;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1769,328;CIGAR=1M1D1M,1M1X1M;DP=2098;DPB=1508.33;DPRA=0,0;EPP=3844.34,715.253;EPPR=0;GTI=9;LEN=1,1;MEANALT=2.04762,2.04762;MQM=41.7021,53.4726;MQMR=0;NS=21;NUMALT=2;ODDS=5.76577;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62713,11266;QR=0;RO=0;RPL=1769,299;RPP=3844.34,485.633;RPPR=0;RPR=0,29;RUN=1,1;SAF=1769,299;SAP=3844.34,485.633;SAR=0,29;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,91,7:0:0:91,7:3236,252:-276.247,-27.3937,0,-255.684,-6.47239,-253.577 1/2:62:0,44,18:0:0:44,18:1572,644:-172.152,-52.8346,-39.5893,-119.669,0,-114.25 1/2:110:0,95,15:0:0:95,15:3392,515:-306.156,-41.2986,-12.7007,-265.195,0,-260.68 1/2:209:0,183,26:0:0:183,26:6480,803:-558.223,-61.0682,-5.97974,-497.454,0,-489.627 1/2:173:0,114,59:0:0:114,59:4032,2089:-482.583,-169.93,-135.613,-313.001,0,-295.24 1/2:64:0,58,6:0:0:58,6:2049,212:-181.094,-17.5296,-0.0698772,-163.916,0,-162.11 1/1:145:0,133,12:0:0:133,12:4736,407:-402.433,-40.037,0,-369.881,-7.1501,-366.269 1/2:106:0,90,16:0:0:90,16:3191,532:-294.154,-42.0107,-14.918,-252.469,0,-247.653 1/2:119:0,90,29:0:0:90,29:3178,1023:-319.679,-82.8372,-55.7445,-237.185,0,-228.455 1/1:99:0,93,6:0:0:93,6:3296,186:-237.76,-27.9958,0,-223.997,-13.9453,-222.191 1/2:62:0,43,19:0:0:43,19:1509,668:-154.613,-54.0081,-41.0638,-100.936,0,-95.2161 1/2:41:0,36,5:0:0:36,5:1273,176:-110.868,-14.6795,-3.84238,-96.5377,0,-95.0325 1/2:140:0,122,17:0:0:122,17:4331,540:-379.139,-41.2315,-4.50587,-337.868,0,-332.751 1/2:98:0,84,14:0:0:84,14:2988,481:-260.415,-38.8559,-13.5694,-221.896,0,-217.682 1/2:117:0,96,21:0:0:96,21:3397,739:-320.882,-59.8313,-30.9324,-261.397,0,-255.075 1/2:85:0,76,9:0:0:76,9:2695,320:-241.085,-26.396,-3.51774,-215.043,0,-212.334 1/2:57:0,50,7:0:0:50,7:1771,231:-158.107,-18.7298,-3.67833,-139.705,0,-137.598 1/1:62:0,57,5:0:0:57,5:1999,160:-173.993,-17.1587,0,-161.692,-4.54811,-160.187 1/1:93:0,85,8:0:0:85,8:3020,260:-264.88,-25.5876,0,-244.995,-5.38935,-242.586 1/2:106:0,86,20:0:0:86,20:3041,713:-300.752,-58.3819,-32.4933,-242.724,0,-236.703 1/2:52:0,43,9:0:0:43,9:1527,315:-146.76,-25.944,-12.9998,-121.165,0,-118.456 chr08 8299634 . A T 5611.52 PASS AB=0.3581;ABP=146.6;AC=11;AF=0.261905;AN=42;AO=303;CIGAR=1X;DP=1413;DPB=1413;DPRA=1.78529;EPP=20.2172;EPPR=13.1517;GTI=1;LEN=1;MEANALT=1;MQM=59.9637;MQMR=57.9712;NS=21;NUMALT=1;ODDS=5.19944;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10523;QR=39710;RO=1110;RPL=0;RPP=660.966;RPPR=2413.34;RPR=303;RUN=1;SAF=127;SAP=20.2172;SAR=176;SRF=519;SRP=13.1517;SRR=591;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:47,37:47:1684:37:1270:-89.3099,0,-125.696 0/1:37:19,18:19:680:18:648:-47.5138,0,-50.3911 0/1:42:35,7:35:1248:7:224:-7.82956,0,-99.9382 0/1:83:53,30:53:1888:30:1038:-68.7405,0,-145.002 0/1:98:62,36:62:2217:36:1280:-86.0023,0,-170.213 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.437 0/1:43:6,37:6:216:37:1296:-103.997,0,-6.81305 0/1:126:95,31:95:3404:31:1043:-56.2346,0,-266.459 0/0:174:165,9:165:5896:9:316:0,-23.6004,-497.674 0/0:16:16,0:16:576:0:0:0,-4.81648,-51.7366 0/1:32:29,3:29:1040:3:108:-0.44221,0,-82.9438 0/0:84:84,0:84:2979:0:0:0,-25.2865,-268.311 0/1:81:58,23:58:2062:23:779:-46.0374,0,-160.804 0/0:66:66,0:66:2376:0:0:0,-19.868,-214.079 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.75 0/0:39:39,0:39:1388:0:0:0,-11.7402,-124.193 0/1:112:64,48:64:2292:48:1688:-118.491,0,-172.467 0/1:83:59,24:59:2108:24:833:-50.2992,0,-164.996 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.655 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 chr08 8299671 . T G 6131.59 PASS AB=0.363322;ABP=143.69;AC=11;AF=0.261905;AN=42;AO=324;CIGAR=1X;DP=1666;DPB=1666;DPRA=1.27184;EPP=45.9036;EPPR=140.134;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.8858;MQMR=57.4862;NS=21;NUMALT=1;ODDS=2.25542;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11396;QR=47925;RO=1341;RPL=323;RPP=697.908;RPPR=2863.07;RPR=1;RUN=1;SAF=121;SAP=48.0751;SAR=203;SRF=519;SRP=151.676;SRR=822;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:47,39:47:1679:39:1381:-98.6992,0,-124.54 0/1:54:30,24:30:1072:24:860:-61.4662,0,-80.4135 0/1:42:35,7:35:1256:7:235:-8.83469,0,-100.651 0/1:85:55,29:55:1953:29:1035:-67.8168,0,-150.187 0/1:97:61,36:61:2177:36:1283:-86.5727,0,-166.915 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.627 0/0:112:112,0:112:3985:0:0:0,-33.7154,-358.526 0/1:44:6,38:6:216:38:1348:-108.375,0,-6.51202 0/1:133:99,34:99:3531:34:1212:-69.3317,0,-275.852 0/0:181:172,9:172:6159:9:295:0,-27.6189,-522.595 0/0:75:75,0:75:2676:0:0:0,-22.5772,-238.752 0/1:34:30,4:30:1080:4:140:-2.70956,0,-85.9359 0/0:85:85,0:85:3043:0:0:0,-25.5875,-274.064 0/1:87:60,27:60:2160:27:950:-59.5997,0,-167.678 0/0:66:66,0:66:2376:0:0:0,-19.868,-214.079 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.984 0/0:40:40,0:40:1394:0:0:0,-12.0412,-124.727 0/1:120:67,53:67:2404:53:1842:-129.934,0,-180.087 0/1:85:61,24:61:2173:24:815:-48.0726,0,-170.239 0/0:54:54,0:54:1919:0:0:0,-16.2556,-172.886 0/0:84:84,0:84:3004:0:0:0,-25.2865,-269.648 chr08 8302431 . TAC CAT,TAT 16311.9 PASS AB=0.497826,0.502174;ABP=3.02918,3.02918;AC=30,12;AF=0.714286,0.285714;AN=42;AO=618,254;CIGAR=1X1M1X,2M1X;DP=872;DPB=872;DPRA=1.84565,1.12877;EPP=1344.98,554.564;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.5,1.90909;MQM=34.6618,44.3858;MQMR=0;NS=21;NUMALT=2;ODDS=5.269;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21825,9113;QR=0;RO=0;RPL=0,0;RPP=1344.98,554.564;RPPR=0;RPR=618,254;RUN=1,1;SAF=618,254;SAP=1344.98,554.564;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:28:0,15,13:0:0:15,13:540,468:-76.1273,-37.7956,-33.2802,-38.6685,0,-34.7551 1/2:27:0,12,15:0:0:12,15:412,540:-73.0099,-43.0074,-39.395,-30.3308,0,-25.8154 1/2:23:0,15,8:0:0:15,8:532,288:-62.3091,-23.4959,-18.9805,-39.1563,0,-36.748 1/2:32:0,18,14:0:0:18,14:644,504:-87.3772,-40.4036,-34.9851,-47.3128,0,-43.0983 1/2:53:0,12,41:0:0:12,41:426,1476:-149.12,-118.061,-114.449,-31.387,0,-19.0448 1/1:25:0,25,0:0:0:25,0:879,0:-71.3363,-7.52575,0,-71.3363,-7.52575,-71.3363 1/1:71:0,71,0:0:0:71,0:2500,0:-203.466,-21.3731,0,-203.466,-21.3731,-203.466 2/2:23:0,0,23:0:0:0,23:0,828:-73.7842,-73.7842,-73.7842,-6.92369,-6.92369,0 1/2:111:0,55,56:0:0:55,56:1930,2008:-301.583,-160.185,-143.628,-141.733,0,-124.875 1/2:7:0,5,2:0:0:5,2:172,72:-18.741,-6.14012,-4.63497,-12.9441,0,-12.3421 1/1:6:0,6,0:0:0:6,0:212,0:-17.6706,-1.80618,0,-17.6706,-1.80618,-17.6706 1/1:5:0,5,0:0:0:5,0:178,0:-14.8403,-1.50515,0,-14.8403,-1.50515,-14.8403 1/1:66:0,66,0:0:0:66,0:2360,0:-189.863,-19.868,0,-189.863,-19.868,-189.863 1/2:50:0,22,28:0:0:22,28:776,993:-136.775,-80.0382,-73.4156,-57.07,0,-48.6411 1/1:65:0,65,0:0:0:65,0:2304,0:-186.385,-19.567,0,-186.385,-19.567,-186.385 1/1:19:0,19,0:0:0:19,0:682,0:-55.7434,-5.71957,0,-55.7434,-5.71957,-55.7434 1/1:13:0,13,0:0:0:13,0:468,0:-38.3047,-3.91339,0,-38.3047,-3.91339,-38.3047 1/2:51:0,24,27:0:0:24,27:844,968:-138.665,-77.6646,-70.4399,-61.3327,0,-53.2049 1/2:78:0,51,27:0:0:51,27:1759,968:-205.514,-77.9228,-62.5703,-127.929,0,-119.802 1/1:58:0,58,0:0:0:58,0:2062,0:-166.175,-17.4597,0,-166.175,-17.4597,-166.175 1/1:61:0,61,0:0:0:61,0:2145,0:-173.473,-18.3628,0,-173.473,-18.3628,-173.473 chr08 8312015 . T C 99.4659 PASS AB=0.175676;ABP=205.838;AC=10;AF=0.238095;AN=42;AO=55;CIGAR=1X;DP=661;DPB=661;DPRA=1.3848;EPP=122.441;EPPR=1318.92;GTI=8;LEN=1;MEANALT=1;MQM=57.0727;MQMR=60;NS=21;NUMALT=1;ODDS=0.991256;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1975;QR=21721;RO=606;RPL=0;RPP=122.441;RPPR=1318.92;RPR=55;RUN=1;SAF=55;SAP=122.441;SAR=0;SRF=606;SRP=1318.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/1:41:32,9:32:1133:9:320:-16.7924,0,-89.9344 0/1:20:18,2:18:648:2:72:-0.811192,0,-52.6313 0/0:32:31,1:31:1116:1:36:0,-6.03728,-97.156 0/0:71:65,6:65:2328:6:216:0,-1.59451,-190.001 0/0:22:21,1:21:748:1:36:0,-3.02539,-64.048 0/0:81:78,3:78:2788:3:108:0,-14.3111,-241.088 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/0:60:59,1:59:2120:1:36:0,-14.4645,-187.471 0/1:8:6,2:6:216:2:71:-4.32511,0,-17.3823 0/1:7:2,5:2:72:5:180:-14.4402,0,-4.72951 0/1:7:6,1:6:216:1:36:-1.48935,0,-17.6833 0/1:21:19,2:19:684:2:72:-0.511003,0,-55.5687 0/0:31:29,2:29:1036:2:72:0,-2.50358,-86.7256 0/0:46:44,2:44:1580:2:72:0,-7.01559,-135.66 0/1:20:16,4:16:572:4:144:-7.2893,0,-45.7928 0/1:24:20,4:20:720:4:144:-6.08371,0,-57.9041 0/1:50:43,7:43:1540:7:252:-7.96716,0,-123.842 0/1:24:21,3:21:756:3:108:-2.84318,0,-61.1425 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 chr08 8312041 . AC AT,GT 14529.8 PASS AB=0.823529,0.176471;ABP=203.935,203.935;AC=32,10;AF=0.761905,0.238095;AN=42;AO=600,55;CIGAR=1M1X,2X;DP=655;DPB=655;DPRA=0,1.3701;EPP=1187.13,105.701;EPPR=0;GTI=8;LEN=1,2;MEANALT=1.80952,2;MQM=60,57.1273;MQMR=0;NS=21;NUMALT=2;ODDS=4.06526;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21434,1923;QR=0;RO=0;RPL=14,2;RPP=1187.13,105.701;RPPR=0;RPR=586,53;RUN=1,1;SAF=600,55;SAP=1305.89,122.441;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32,0:0:0:32,0:1140,0:-102.909,-9.63296,0,-102.909,-9.63296,-102.909 1/2:40:0,31,9:0:0:31,9:1108,311:-115.958,-25.6071,-16.2752,-90.6991,0,-87.9898 1/2:20:0,18,2:0:0:18,2:639,72:-58.2903,-6.22973,-0.811191,-52.4197,0,-51.8176 1/1:32:0,31,1:0:0:31,1:1112,36:-100.032,-9.33193,0,-97.0967,-6.03728,-96.7957 1/1:67:0,61,6:0:0:61,6:2177,214:-195.838,-18.3628,0,-178.404,-0.572269,-176.598 1/1:23:0,22,1:0:0:22,1:780,36:-70.1635,-6.62266,0,-67.2268,-3.32642,-66.9258 1/1:81:0,78,3:0:0:78,3:2800,104:-251.893,-23.4803,0,-243.442,-14.6829,-242.539 1/1:24:0,24,0:0:0:24,0:849,0:-76.7278,-7.22472,0,-76.7278,-7.22472,-76.7278 1/1:58:0,57,1:0:0:57,1:2044,34:-183.892,-17.1587,0,-181.135,-14.0615,-180.834 1/2:7:0,5,2:0:0:5,2:176,70:-20.3671,-6.03735,-4.5322,-14.6799,0,-14.0778 1/2:7:0,2,5:0:0:2,5:57,180:-19.5473,-15.0423,-14.4402,-4.81125,0,-3.3061 1/2:7:0,6,1:0:0:6,1:216,36:-20.9202,-3.29553,-1.48935,-17.9843,0,-17.6833 1/2:22:0,20,2:0:0:20,2:716,72:-64.6182,-6.23057,-0.209972,-58.7471,0,-58.1451 1/1:32:0,30,2:0:0:30,2:1080,59:-97.2145,-9.0309,0,-92.5171,-4.0347,-91.915 1/1:45:0,43,2:0:0:43,2:1536,68:-138.193,-12.9443,0,-132.681,-7.09209,-132.079 1/2:20:0,16,4:0:0:16,4:576,129:-57.7503,-10.7216,-5.90513,-47.3585,0,-46.1544 1/2:22:0,19,3:0:0:19,3:680,108:-64.6194,-9.16926,-3.44969,-55.8096,0,-54.9065 1/2:51:0,44,7:0:0:44,7:1572,250:-148.899,-20.7295,-7.48419,-128.526,0,-126.419 1/2:25:0,21,4:0:0:21,4:748,144:-73.0665,-12.1019,-5.78025,-61.3237,0,-60.1195 1/1:30:0,30,0:0:0:30,0:1068,0:-96.4321,-9.0309,0,-96.4321,-9.0309,-96.4321 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 chr08 8326477 . CCACAGCG TCACTGCC,TCACAGCC 38753.4 PASS AB=0.539166,0.453713;ABP=16.1076,21.3032;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1339,526;CIGAR=1X3M1X2M1X,1X6M1X;DP=1888;DPB=1888.12;DPRA=1.14494,1.20397;EPP=2910.61,1145.2;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.6,2.71429;MQM=53.7901,54.5133;MQMR=0;NS=21;NUMALT=2;ODDS=1.99183;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=46818,18749;QR=0;RO=0;RPL=0,0;RPP=2910.61,1145.2;RPPR=0;RPR=1339,526;RUN=1,1;SAF=1339,526;SAP=2910.61,1145.2;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,70,30:0:0:70,30:2415,1072:-283.106,-87.6765,-66.6044,-195.783,0,-186.752 1/2:63:0,43,19:0:0:43,19:1475,660:-171.996,-53.6101,-40.6658,-118.485,0,-112.765 1/2:92:0,47,45:0:0:47,45:1653,1616:-266.382,-131.973,-117.825,-134.764,0,-121.218 1/2:84:0,40,44:0:0:40,44:1410,1572:-242.743,-128.341,-116.3,-114.755,0,-101.51 1/2:166:0,79,86:0:0:79,86:2779,3067:-474.84,-249.282,-225.5,-225.653,0,-199.764 1/1:103:0,100,0:0:0:100,0:3500,0:-313.352,-30.103,0,-313.352,-30.103,-313.352 1/1:154:0,152,0:0:0:152,0:5292,0:-474.183,-45.7566,0,-474.183,-45.7566,-474.183 2/2:79:0,0,77:0:0:0,77:0,2743:-245.91,-245.91,-245.91,-23.1793,-23.1793,0 1/2:143:0,71,71:0:0:71,71:2482,2536:-407.886,-206.631,-185.257,-201.317,0,-179.943 1/2:11:0,8,3:0:0:8,3:271,104:-30.5474,-8.78828,-6.38004,-22.1024,0,-21.1993 1/1:13:0,12,0:0:0:12,0:397,0:-35.6814,-3.61236,0,-35.6814,-3.61236,-35.6814 1/2:32:0,17,15:0:0:17,15:599,540:-93.0342,-44.3445,-39.227,-49.0453,0,-44.5299 1/1:92:0,92,0:0:0:92,0:3287,0:-295.291,-27.6948,0,-295.291,-27.6948,-295.291 1/2:65:0,39,25:0:0:39,25:1354,892:-182.642,-72.6875,-60.9474,-110.059,0,-102.534 1/1:184:0,181,1:0:0:181,1:6318,32:-566.774,-54.4864,0,-564.386,-52.0922,-564.085 1/1:60:0,60,0:0:0:60,0:2107,0:-189.716,-18.0618,0,-189.716,-18.0618,-189.716 1/1:76:0,72,0:0:0:72,0:2549,0:-229.104,-21.6742,0,-229.104,-21.6742,-229.104 1/2:140:0,60,77:0:0:60,77:2085,2739:-391.26,-222.412,-204.35,-168.87,0,-145.691 1/2:87:0,56,31:0:0:56,31:1967,1104:-249.977,-90.2521,-73.3944,-160.079,0,-150.747 1/1:56:0,54,0:0:0:54,0:1885,0:-169.193,-16.2556,0,-169.193,-16.2556,-169.193 1/1:88:0,86,2:0:0:86,2:2993,72:-267.811,-25.8886,0,-262.075,-19.8007,-261.473 chr08 8326490 . CGC TGC,TGT 39223 PASS AB=0.522006,0.475947;ABP=7.11987,7.92001;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1297,546;CIGAR=1X2M,1X1M1X;DP=1850;DPB=1850;DPRA=1.10625,0.981336;EPP=2741.78,1179.96;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.85,2.15385;MQM=53.8913,54.2729;MQMR=60;NS=21;NUMALT=2;ODDS=4.36337;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46329,18974;QR=34;RO=1;RPL=9,1;RPP=2741.78,1179.96;RPPR=5.18177;RPR=1288,545;RUN=1,1;SAF=1297,546;SAP=2819.41,1188.63;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:95:0,64,31:0:0:64,31:2267,1093:-273.287,-89.2577,-69.9918,-184.381,0,-175.05 1/2:64:0,43,21:0:0:43,21:1508,712:-178.907,-57.8659,-44.9216,-121.381,0,-115.06 1/2:91:0,46,45:0:0:46,45:1652,1584:-263.666,-129.097,-115.249,-134.924,0,-121.378 1/2:84:0,39,45:0:0:39,45:1398,1572:-241.684,-128.016,-116.276,-114.021,0,-100.475 1/2:163:0,75,88:0:0:75,88:2674,3057:-465.182,-247.815,-225.237,-217.718,0,-191.228 1/1:101:0,101,0:0:0:101,0:3613,0:-323.193,-30.404,0,-323.193,-30.404,-323.193 1/1:143:1,142,0:1:34:142,0:5074,0:-451.058,-39.6484,0,-451.359,-42.7463,-454.117 2/2:80:0,0,79:0:0:0,79:0,2737:-245.288,-245.288,-245.288,-23.7814,-23.7814,0 1/2:144:0,68,76:0:0:68,76:2435,2613:-410.225,-211.919,-191.449,-198.656,0,-175.778 1/2:10:0,7,3:0:0:7,3:245,98:-28.1056,-8.23019,-6.12298,-20.2083,0,-19.3052 1/1:13:0,13,0:0:0:13,0:468,0:-42.1439,-3.91339,0,-42.1439,-3.91339,-42.1439 1/2:33:0,17,16:0:0:17,16:612,556:-95.3409,-45.4856,-40.3681,-50.2082,0,-45.3917 1/1:91:0,91,0:0:0:91,0:3238,0:-291.057,-27.3937,0,-291.057,-27.3937,-291.057 1/2:65:0,39,26:0:0:39,26:1383,896:-185.493,-72.9885,-61.2483,-112.852,0,-105.025 1/1:177:0,175,0:0:0:175,0:6268,0:-562.501,-52.6803,0,-562.501,-52.6803,-562.501 1/1:58:0,58,0:0:0:58,0:2071,0:-186.203,-17.4597,0,-186.203,-17.4597,-186.203 1/1:76:0,75,0:0:0:75,0:2684,0:-240.958,-22.5773,0,-240.958,-22.5773,-240.958 1/2:142:0,59,82:0:0:59,82:2111,2841:-401.542,-230.117,-212.356,-171.564,0,-146.88 1/2:86:0,53,32:0:0:53,32:1900,1143:-247.766,-93.107,-77.1524,-154.666,0,-145.033 1/1:54:0,54,0:0:0:54,0:1931,0:-173.37,-16.2556,0,-173.37,-16.2556,-173.37 1/1:80:0,78,2:0:0:78,2:2797,72:-250.042,-23.4803,0,-244.307,-17.3925,-243.704 chr08 8326577 . T C 11868.5 PASS AB=0.497824;ABP=3.05755;AC=13;AF=0.309524;AN=42;AO=681;CIGAR=1X;DP=2083;DPB=2083;DPRA=1.19003;EPP=1481.78;EPPR=3045.24;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.619757;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24316;QR=50157;RO=1401;RPL=681;RPP=1481.78;RPPR=3045.24;RPR=0;RUN=1;SAF=0;SAP=1481.78;SAR=681;SRF=0;SRP=3045.24;SRR=1401;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:61,34:61:2188:34:1220:-81.509,0,-168.588 0/1:118:56,62:56:2004:62:2224:-164.903,0,-145.112 0/1:106:48,58:48:1728:58:2084:-155.921,0,-123.896 0/1:158:75,83:75:2681:83:2961:-219.159,0,-193.971 0/1:154:86,68:86:3088:68:2425:-172.146,0,-231.789 0/0:59:58,0:58:2084:0:0:0,-17.4597,-187.47 0/0:137:137,0:137:4904:0:0:0,-41.2411,-441.512 1/1:100:0,100:0:0:100:3551:-319.799,-30.103,0 0/1:199:103,96:103:3684:96:3429:-248.917,0,-271.858 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:33:9,24:9:324:24:860:-67.7878,0,-19.5719 0/0:95:95,0:95:3401:0:0:0,-28.5978,-306.303 0/1:136:57,79:57:2040:79:2798:-211.118,0,-142.932 0/0:207:207,0:207:7412:0:0:0,-62.3132,-667.126 0/0:84:84,0:84:3008:0:0:0,-25.2865,-270.951 0/0:74:74,0:74:2629:0:0:0,-22.2762,-236.856 0/1:66:34,32:34:1194:32:1152:-84.1222,0,-87.8933 0/1:79:47,32:47:1684:32:1148:-79.8485,0,-128.066 0/0:124:115,9:115:4132:9:320:0,-8.18536,-342.92 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 chr08 8335248 . C T 42566.6 PASS AB=0.506032;ABP=3.95341;AC=13;AF=0.309524;AN=42;AO=1799;CIGAR=1X;DP=5263;DPB=5263;DPRA=1.61576;EPP=3909.49;EPPR=7514.13;GTI=0;LEN=1;MEANALT=1.23529;MQM=59.9805;MQMR=58.9306;NS=21;NUMALT=1;ODDS=15.3814;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64140;QR=122401;RO=3459;RPL=771;RPP=82.7344;RPPR=43.8313;RPR=1028;RUN=1;SAF=771;SAP=82.7344;SAR=1028;SRF=1602;SRP=43.8313;SRR=1857;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:388:183,204:183:6492:204:7289:-539.203,0,-467.259 0/1:287:146,141:146:5190:141:5006:-364.292,0,-380.326 0/1:313:134,179:134:4729:179:6394:-481.327,0,-331.421 0/1:318:187,131:187:6670:131:4660:-323.835,0,-504.295 0/1:497:248,249:248:8710:249:8846:-646.518,0,-632.674 0/0:167:163,4:163:5793:4:140:0,-37.3274,-507.642 0/0:324:323,1:323:11379:1:36:0,-93.9354,-1019.44 1/1:281:1,280:1:36:280:10013:-897.508,-80.9912,0 0/1:371:157,214:157:5553:214:7658:-577.569,0,-388.126 0/1:46:22,23:22:788:23:811:-59.4423,0,-57.3674 0/0:34:34,0:34:1194:0:0:0,-10.235,-107.743 0/1:94:51,43:51:1813:43:1544:-110.956,0,-135.135 0/0:206:204,1:204:7270:1:36:0,-58.4727,-650.048 0/1:254:120,134:120:4220:134:4745:-350.746,0,-303.375 0/0:381:379,2:379:13475:2:72:0,-107.856,-1205.35 0/0:244:243,0:243:8593:0:0:0,-73.1503,-772.517 0/0:271:271,0:271:9635:0:0:0,-81.5791,-866.866 0/1:235:103,131:103:3655:131:4670:-349.659,0,-258.063 0/1:181:120,61:120:4254:61:2184:-142.34,0,-328.374 0/0:251:250,1:250:8742:1:36:0,-71.9603,-783.018 0/0:120:120,0:120:4210:0:0:0,-36.1236,-378.689 chr08 8335257 . TT AC,AT 142074 PASS AB=0.494828,0.503837;ABP=3.70659,3.39359;AC=29,13;AF=0.690476,0.309524;AN=42;AO=3508,1796;CIGAR=2X,1X1M;DP=5316;DPB=5316.5;DPRA=0.909567,1.5934;EPP=7620.54,3902.97;EPPR=0;GTI=0;LEN=2,1;MEANALT=2.35,2.47059;MQM=58.8706,59.9716;MQMR=0;NS=21;NUMALT=2;ODDS=16.6651;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=122523,64118;QR=0;RO=0;RPL=1620,783;RPP=47.4698,66.9696;RPPR=0;RPR=1888,1013;RUN=1,1;SAF=1620,783;SAP=47.4698,66.9696;SAR=1888,1013;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:394:0,187,207:0:0:187,207:6568,7422:-1140.08,-605.697,-549.404,-534.741,0,-472.428 1/2:290:0,148,142:0:0:148,142:5159,5072:-833.006,-413.88,-369.327,-419.479,0,-376.733 1/2:315:0,137,178:0:0:137,178:4793,6319:-905.019,-515.219,-473.978,-390.152,0,-336.568 1/2:317:0,186,130:0:0:186,130:6512,4656:-909.232,-379.708,-323.716,-529.519,0,-490.385 1/2:500:0,249,249:0:0:249,249:8623,8882:-1424.21,-724.112,-649.155,-700.157,0,-625.201 1/1:176:0,172,4:0:0:172,4:5980,144:-537.313,-51.7772,0,-525.563,-39.6677,-524.359 1/1:328:0,325,1:0:0:325,1:11406,36:-1025.45,-97.8348,0,-1022.51,-94.894,-1022.21 2/2:277:0,0,277:0:0:0,277:0,9881:-889.233,-889.233,-889.233,-83.3853,-83.3853,0 1/2:372:0,160,211:0:0:160,211:5556,7554:-1067.54,-616.019,-567.854,-451.518,0,-388 1/2:47:0,24,23:0:0:24,23:823,824:-134.358,-67.5596,-60.3349,-67.1492,0,-60.2255 1/1:33:0,33,0:0:0:33,0:1080,0:-97.4787,-9.93399,0,-97.4787,-9.93399,-97.4787 1/2:94:0,51,43:0:0:51,43:1816,1544:-274.303,-126.309,-110.956,-148.351,0,-135.407 1/1:208:0,206,1:0:0:206,1:7207,36:-647.449,-62.0122,0,-644.511,-59.0748,-644.21 1/2:251:0,118,133:0:0:118,133:4110,4730:-719.918,-385.817,-350.295,-334.453,0,-294.416 1/1:394:0,392,2:0:0:392,2:13686,72:-1230.79,-118.004,0,-1224.92,-111.769,-1224.32 1/1:247:0,246,0:0:0:246,0:8597,0:-772.84,-74.0534,0,-772.84,-74.0534,-772.84 1/1:281:0,280,0:0:0:280,0:9806,0:-881.994,-84.2884,0,-881.994,-84.2884,-881.994 1/2:235:0,100,135:0:0:100,135:3494,4803:-675.791,-391.785,-361.682,-284.358,0,-243.719 1/2:182:0,123,59:0:0:123,59:4299,2107:-521.729,-172.138,-135.111,-349.945,0,-332.184 1/1:252:0,248,1:0:0:248,1:8690,36:-781.617,-74.6554,0,-778.68,-71.7072,-778.379 1/1:123:0,123,0:0:0:123,0:4318,0:-388.503,-37.0267,0,-388.503,-37.0267,-388.503 chr08 8335267 . T G 88971.4 PASS AB=0.4875;ABP=7.02752;AC=29;AF=0.690476;AN=42;AO=3413;CIGAR=1X;DP=5220;DPB=5220;DPRA=0.885484;EPP=7405.56;EPPR=3924.69;GTI=0;LEN=1;MEANALT=1.05;MQM=58.8734;MQMR=59.9884;NS=21;NUMALT=1;ODDS=11.2782;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=121034;QR=64492;RO=1806;RPL=1557;RPP=59.8904;RPPR=94.6017;RPR=1856;RUN=1;SAF=1556;SAP=60.6539;SAR=1857;SRF=765;SRP=94.6017;SRR=1041;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:388:205,183:205:7312:183:6515:-469.421,0,-541.332 0/1:286:142,144:142:5088:144:5110:-373.601,0,-371.969 0/1:311:179,132:179:6406:132:4708:-330.144,0,-483.005 0/1:312:131,181:131:4695:181:6437:-485.086,0,-328.788 0/1:493:251,242:251:8919:242:8565:-621.271,0,-654.289 1/1:168:4,164:4:144:164:5751:-503.933,-37.2594,0 1/1:314:1,313:1:36:313:11148:-998.669,-90.9251,0 0/0:279:279,0:279:9948:0:0:0,-83.9874,-895.261 0/1:367:215,152:215:7699:152:5415:-376.926,0,-582.46 0/1:46:24,22:24:860:22:783:-56.9364,0,-63.8745 1/1:31:0,31:0:0:31:1104:-99.6492,-9.33193,0 0/1:93:43,50:43:1548:50:1796:-133.908,0,-111.617 1/1:204:1,202:1:36:202:7165:-640.481,-57.8706,0 0/1:252:135,117:135:4813:117:4143:-297.07,0,-357.466 1/1:383:3,380:3:108:380:13536:-1207.52,-105.219,0 1/1:245:0,245:0:0:245:8635:-776.798,-73.7524,0 1/1:270:0,270:0:0:270:9539:-858.21,-81.2781,0 0/1:232:132,100:132:4709:100:3526:-247.47,0,-354.129 0/1:180:60,120:60:2135:120:4246:-327.956,0,-138.232 1/1:248:1,247:1:36:247:8734:-782.3,-71.0572,0 1/1:118:0,118:0:0:118:4178:-375.943,-35.5215,0 chr08 8335288 . GGAGAGAGAGAAAAGT GGAGAGAGAAAAGT 34531.5 PASS AB=0.460749;ABP=25.1709;AC=29;AF=0.690476;AN=42;AO=1757;CIGAR=1M2D13M;DP=2814;DPB=2591.5;DPRA=0.869608;EPP=3818.29;EPPR=2222.26;GTI=1;LEN=2;MEANALT=2.35;MQM=58.3022;MQMR=59.9961;NS=21;NUMALT=1;ODDS=5.88667;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61895;QR=35876;RO=1022;RPL=1757;RPP=3818.29;RPPR=2222.26;RPR=0;RUN=1;SAF=0;SAP=3818.29;SAR=1757;SRF=0;SRP=2222.26;SRR=1022;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:203:109,91:109:3820:91:3223:-229.605,0,-283.442 0/1:197:110,86:110:3872:86:3002:-210.792,0,-289.345 0/1:151:92,59:92:3230:59:2092:-142.991,0,-245.472 0/1:238:101,134:101:3564:134:4730:-354.548,0,-249.895 0/1:308:165,136:165:5797:136:4752:-336.694,0,-430.895 1/1:83:1,81:1:35:81:2855:-253.493,-21.4798,0 1/1:148:0,147:0:0:147:5149:-462.617,-44.2514,0 0/0:153:152,0:152:5330:0:0:0,-45.7566,-479.489 0/1:194:120,72:120:4214:72:2528:-169.571,0,-321.293 0/1:26:15,11:15:518:11:392:-27.7838,0,-39.1203 1/1:7:0,7:0:0:7:240:-21.9205,-2.10721,0 0/1:30:10,20:10:355:20:711:-55.2673,0,-23.2599 1/1:114:0,113:0:0:113:3980:-357.891,-34.0164,0 0/1:139:79,53:79:2751:53:1862:-127.724,0,-207.763 1/1:180:1,176:1:36:176:6217:-555.895,-50.025,0 1/1:154:0,153:0:0:153:5400:-485.612,-46.0576,0 1/1:168:0,167:0:0:167:5912:-531.657,-50.272,0 0/1:78:42,36:42:1489:36:1279:-91.7279,0,-110.825 0/1:92:24,65:24:830:65:2287:-178.897,0,-47.8918 1/1:90:1,89:1:35:89:3142:-279.375,-23.5941,0 1/1:61:0,61:0:0:61:2142:-192.744,-18.3628,0 chr08 8413640 . C T 22746.2 PASS AB=0.523256;ABP=5.83826;AC=29;AF=0.690476;AN=42;AO=851;CIGAR=1X;DP=1183;DPB=1183;DPRA=1.35833;EPP=1833.6;EPPR=723.939;GTI=0;LEN=1;MEANALT=1;MQM=59.6545;MQMR=60;NS=21;NUMALT=1;ODDS=12.7619;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30436;QR=11788;RO=332;RPL=428;RPP=3.07409;RPPR=28.1523;RPR=423;RUN=1;SAF=430;SAP=3.21699;SAR=421;SRF=197;SRP=28.1523;SRR=135;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:17,21:17:600:21:756:-56.9257,0,-42.8901 0/1:49:25,24:25:888:24:860:-62.9714,0,-65.4886 0/1:25:12,13:12:404:13:464:-34.5718,0,-29.1559 0/1:52:19,33:19:660:33:1169:-89.8468,0,-44.067 0/1:92:47,45:47:1663:45:1608:-117.296,0,-122.262 1/1:75:1,74:1:36:74:2644:-234.419,-18.979,0 1/1:89:0,89:0:0:89:3183:-286.685,-26.7917,0 0/0:42:42,0:42:1500:0:0:0,-12.6433,-135.295 0/1:59:24,35:24:864:35:1256:-95.5822,0,-60.3218 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:17:13,4:13:468:4:144:-8.19611,0,-37.3421 1/1:77:0,77:0:0:77:2753:-248.006,-23.1793,0 0/1:31:16,15:16:568:15:540:-39.6046,0,-42.1199 1/1:69:0,69:0:0:69:2476:-223.093,-20.7711,0 1/1:34:0,34:0:0:34:1203:-108.078,-10.235,0 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 0/1:130:77,53:77:2746:53:1892:-131.403,0,-208.248 0/1:99:31,68:31:1103:68:2440:-190.051,0,-69.7778 1/1:64:1,63:1:36:63:2261:-200.023,-15.6676,0 1/1:85:1,84:1:36:84:2991:-265.724,-21.9893,0 chr08 8474901 . G T 35668.2 PASS AB=0.518195;ABP=6.96131;AC=29;AF=0.690476;AN=42;AO=1726;CIGAR=1X;DP=2500;DPB=2500;DPRA=1.07613;EPP=3750.97;EPPR=1683.73;GTI=0;LEN=1;MEANALT=1;MQM=59.9455;MQMR=60;NS=21;NUMALT=1;ODDS=11.9492;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61786;QR=27554;RO=774;RPL=0;RPP=3750.97;RPPR=1683.73;RPR=1726;RUN=1;SAF=1726;SAP=3750.97;SAR=0;SRF=774;SRP=1683.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:25,24:25:858:24:837:-60.896,0,-62.7796 0/1:143:68,75:68:2425:75:2685:-198.84,0,-175.457 0/1:133:62,71:62:2175:71:2552:-189.893,0,-155.975 0/1:179:82,97:82:2933:97:3464:-258.086,0,-210.318 0/1:322:171,151:171:6080:151:5404:-389.513,0,-450.368 1/1:87:0,87:0:0:87:3123:-281.295,-26.1896,0 1/1:157:0,157:0:0:157:5620:-505.847,-47.2617,0 0/0:111:111,0:111:3950:0:0:0,-33.4143,-355.69 0/1:191:93,98:93:3329:98:3520:-259.322,0,-242.329 0/1:16:5,11:5:180:11:384:-30.0776,0,-11.7356 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:34:15,19:15:536:19:684:-51.6553,0,-38.3398 1/1:151:0,151:0:0:151:5401:-486.219,-45.4555,0 0/1:143:71,72:71:2548:72:2580:-189.402,0,-186.523 1/1:201:0,201:0:0:201:7220:-649.851,-60.507,0 1/1:114:0,114:0:0:114:4084:-367.743,-34.3174,0 1/1:71:0,71:0:0:71:2544:-229.211,-21.3731,0 0/1:94:48,46:48:1716:46:1656:-121.032,0,-126.429 0/1:70:22,48:22:788:48:1711:-133.203,0,-50.1727 1/1:142:0,142:0:0:142:5079:-457.254,-42.7463,0 1/1:84:1,83:1:36:83:2954:-262.495,-21.6882,0 chr08 8474945 . CTCA TTCA,TTCC 118257 PASS AB=0.509546,0.489181;ABP=4.87591,5.40657;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2989,1390;CIGAR=1X3M,1X2M1X;DP=4390;DPB=4396.5;DPRA=0.896121,1.09957;EPP=6493.54,3012.68;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.2,2.4;MQM=55.4951,59.9777;MQMR=60;NS=21;NUMALT=2;ODDS=17.1538;PAIRED=0,0;PAIREDR=0;PAO=13,13;PQA=353.5,353.5;PQR=0;PRO=0;QA=106770,48241;QR=36;RO=1;RPL=1702,748;RPP=128.13,20.5633;RPPR=5.18177;RPR=1287,642;RUN=1,1;SAF=1702,749;SAP=128.13,21.2319;SAR=1287,641;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:196:0,83,113:0:0:83,113:2972,3949:-562.693,-321.591,-296.605,-241.456,0,-207.439 1/2:250:0,128,122:0:0:128,122:4600,4211:-716.87,-342.393,-303.861,-374.769,0,-338.044 1/2:185:0,95,90:0:0:95,90:3393,3136:-531.597,-255.378,-226.78,-276.572,0,-249.479 1/2:251:0,129,121:0:0:129,121:4616,4150:-712.705,-336.794,-297.961,-375.783,0,-339.358 1/2:468:0,231,237:0:0:231,237:8251,8177:-1335.5,-664.276,-594.738,-671.221,0,-599.876 1/1:251:0,249,2:0:0:249,2:8851,72:-793.852,-74.9565,0,-787.977,-68.7519,-787.375 1/1:303:0,303,0:0:0:303,0:10795,0:-969.264,-91.2121,0,-969.264,-91.2121,-969.264 2/2:232:0,0,232:0:0:0,232:0,8124:-731.082,-731.082,-731.082,-69.839,-69.839,0 1/2:328:0,165,162:0:0:165,162:5915,5597:-935.59,-454.815,-405.145,-480.837,0,-432.07 1/2:27:0,19,8:0:0:19,8:680,280:-78.348,-23.131,-17.4114,-55.5688,0,-53.1605 1/1:17:0,17,0:0:0:17,0:604,0:-54.5926,-5.11751,0,-54.5926,-5.11751,-54.5926 1/2:74:0,47,27:0:0:47,27:1676,937:-212.769,-76.5145,-62.3661,-136.604,0,-128.477 1/1:252:0,251,0:0:0:251,0:8957,0:-803.796,-75.5585,0,-803.796,-75.5585,-803.796 1/2:255:0,120,134:0:0:120,134:4278,4672:-727.163,-380.074,-343.95,-347.199,0,-306.861 1/1:325:0,325,0:0:0:325,0:11654,0:-1045.93,-97.8348,0,-1045.93,-97.8348,-1045.93 1/1:157:0,157,0:0:0:157,0:5609,0:-504.158,-47.2617,0,-504.158,-47.2617,-504.158 1/1:117:0,115,0:0:0:115,0:4110,0:-368.853,-34.6185,0,-368.853,-34.6185,-368.853 1/2:165:0,79,86:0:0:79,86:2819,2973:-470.667,-241.858,-218.077,-229.1,0,-203.212 1/2:158:0,105,53:0:0:105,53:3749,1862:-456.23,-151.905,-120.297,-304.677,0,-288.722 1/1:245:0,239,2:0:0:239,2:8518,69:-764.972,-71.9462,0,-759.366,-66.3334,-758.764 1/1:134:1,132,1:1:36:132,1:4723,32:-421.057,-36.7786,0,-418.78,-37.1776,-421.416 chr08 8474961 . C T 23577 PASS AB=0.472973;ABP=9.1139;AC=29;AF=0.690476;AN=42;AO=1182;CIGAR=1X;DP=1818;DPB=1818;DPRA=0.6772;EPP=2569.69;EPPR=1373.22;GTI=0;LEN=1;MEANALT=1;MQM=49.5635;MQMR=59.9717;NS=21;NUMALT=1;ODDS=3.38286;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41836;QR=22672;RO=635;RPL=0;RPP=2569.69;RPPR=1364.58;RPR=1182;RUN=1;SAF=0;SAP=2569.69;SAR=1182;SRF=1;SRP=1373.22;SRR=634;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:86,55:86:3083:55:1933:-130.733,0,-235.252 0/1:100:54,46:54:1936:46:1609:-114.493,0,-144.385 0/1:53:30,23:30:1076:23:822:-57.9746,0,-81.1983 0/1:78:46,32:46:1637:32:1132:-78.2177,0,-124.136 0/1:146:71,75:71:2532:75:2636:-192.299,0,-184.181 1/1:148:2,146:2:72:146:5125:-452.649,-37.7157,0 1/1:138:0,138:0:0:138:4903:-439.582,-41.5421,0 0/0:125:124,0:124:4435:0:0:0,-37.3277,-398.961 0/1:136:70,66:70:2497:66:2324:-166.943,0,-184.041 0/1:10:3,7:3:108:7:252:-19.7754,0,-7.06487 1/1:8:0,8:0:0:8:288:-26.1528,-2.40824,0 0/1:37:12,25:12:428:25:892:-69.1415,0,-27.7203 1/1:101:0,101:0:0:101:3612:-323.601,-30.404,0 0/1:108:62,46:62:2197:46:1623:-112.487,0,-165.481 1/1:113:0,113:0:0:113:4022:-360.02,-34.0164,0 1/1:37:0,37:0:0:37:1315:-118.024,-11.1381,0 1/1:44:0,44:0:0:44:1552:-138.877,-13.2453,0 0/1:74:41,33:41:1463:33:1176:-82.9077,0,-109.689 0/1:79:32,47:32:1140:47:1672:-126.209,0,-79.1278 1/1:98:2,96:2:68:96:3408:-298.73,-23.0432,0 1/1:44:0,44:0:0:44:1540:-138.424,-13.2453,0 chr08 8474976 . C T 27020.3 PASS AB=0.5;ABP=3.0103;AC=29;AF=0.690476;AN=42;AO=1314;CIGAR=1X;DP=1949;DPB=1949;DPRA=0.723413;EPP=2847.65;EPPR=1347.37;GTI=0;LEN=1;MEANALT=1;MQM=49.5731;MQMR=59.9512;NS=21;NUMALT=1;ODDS=8.70806;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47110;QR=22720;RO=635;RPL=1313;RPP=2847.65;RPPR=1355.96;RPR=1;RUN=1;SAF=0;SAP=2856.33;SAR=1314;SRF=1;SRP=1373.22;SRR=634;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:88,62:88:3145:62:2212:-152.823,0,-238.113 0/1:107:55,52:55:1968:52:1857:-134.548,0,-145.156 0/1:54:29,25:29:1029:25:900:-64.6437,0,-76.6655 0/1:78:44,34:44:1580:34:1224:-86.4382,0,-119.011 0/1:156:71,85:71:2525:85:3047:-225.99,0,-180.54 1/1:167:2,165:2:72:165:5902:-522.032,-43.4353,0 1/1:154:0,154:0:0:154:5528:-495.171,-46.3586,0 0/0:126:126,0:126:4520:0:0:0,-37.9298,-406.967 0/1:140:71,69:71:2548:69:2457:-177.564,0,-187.426 0/1:10:3,7:3:108:7:248:-19.4988,0,-7.06487 1/1:9:0,9:0:0:9:324:-29.3807,-2.70927,0 0/1:42:13,29:13:453:29:1040:-80.888,0,-28.456 1/1:108:0,108:0:0:108:3867:-346.423,-32.5112,0 0/1:108:58,50:58:2076:50:1792:-127.308,0,-154.597 1/1:127:0,127:0:0:127:4560:-407.776,-38.2308,0 1/1:43:0,43:0:0:43:1548:-138.813,-12.9443,0 1/1:48:0,48:0:0:48:1728:-154.556,-14.4494,0 0/1:76:40,36:40:1436:36:1292:-92.6957,0,-106.659 0/1:89:33,56:33:1188:56:2016:-153.529,0,-80.4369 1/1:106:2,104:2:72:104:3736:-327.704,-25.0725,0 1/1:51:0,51:0:0:51:1832:-164.554,-15.3525,0 chr08 8563956 . A G 44234.6 PASS AB=0.620045;ABP=170.363;AC=29;AF=0.690476;AN=42;AO=1680;CIGAR=1X;DP=2275;DPB=2275;DPRA=1.25747;EPP=3651.08;EPPR=1295.04;GTI=0;LEN=1;MEANALT=1;MQM=59.9661;MQMR=59.9866;NS=21;NUMALT=1;ODDS=7.01129;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59554;QR=21127;RO=595;RPL=821;RPP=4.87673;RPPR=1016.59;RPR=859;RUN=1;SAF=821;SAP=4.87673;SAR=859;SRF=561;SRP=1016.59;SRR=34;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:39,131:39:1367:131:4612:-364.073,0,-72.1526 0/1:22:3,19:3:108:19:650:-52.1963,0,-3.45251 0/1:112:46,66:46:1604:66:2349:-177.952,0,-110.931 0/1:104:61,43:61:2188:43:1508:-104.704,0,-165.879 0/1:250:121,129:121:4312:129:4581:-337.2,0,-313.001 1/1:36:0,36:0:0:36:1266:-114.239,-10.8371,0 1/1:82:0,82:0:0:82:2903:-261.504,-24.6845,0 0/0:87:87,0:87:3092:0:0:0,-26.1896,-278.505 0/1:200:71,129:71:2520:129:4590:-353.06,0,-166.847 0/1:19:7,12:7:252:12:427:-33.0485,0,-17.3094 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:39:14,25:14:496:25:875:-67.326,0,-33.2341 1/1:155:0,155:0:0:155:5473:-492.21,-46.6597,0 0/1:142:53,89:53:1872:89:3130:-239.181,0,-126.013 1/1:247:0,247:0:0:247:8804:-792.35,-74.3544,0 1/1:114:0,114:0:0:114:4046:-364.33,-34.3174,0 1/1:81:0,81:0:0:81:2864:-257.996,-24.3834,0 0/1:162:73,89:73:2604:89:3145:-234.499,0,-185.842 0/1:117:20,97:20:712:97:3463:-276.661,0,-29.1861 1/1:94:0,94:0:0:94:3372:-303.695,-28.2968,0 1/1:36:0,36:0:0:36:1280:-115.502,-10.8371,0 chr08 8563995 . AGCT GGCT,GGCC 27461.5 PASS AB=0.537112,0.45749;ABP=11.8749,14.6413;AC=29,13;AF=0.690476,0.309524;AN=42;AO=876,391;CIGAR=1X3M,1X2M1X;DP=1274;DPB=1275.5;DPRA=1.27708,1.05366;EPP=1905.22,582.416;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=1.85,2.21429;MQM=59.9795,59.9284;MQMR=60;NS=21;NUMALT=2;ODDS=9.34096;PAIRED=0,0;PAIREDR=0;PAO=3,3;PQA=90,90;PQR=0;PRO=0;QA=31305,13721;QR=108;RO=3;RPL=876,34;RPP=1905.22,582.416;RPPR=9.52472;RPR=0,357;RUN=1,1;SAF=0,0;SAP=1905.22,852.056;SAR=876,391;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,47,46:0:0:47,46:1688,1575:-265.893,-128.187,-114.039,-138.056,0,-124.209 1/2:33:0,19,14:0:0:19,14:680,501:-96.6643,-41.2124,-35.4929,-55.8096,0,-51.5952 1/2:66:0,33,33:0:0:33,33:1176,1157:-190.361,-94.501,-84.567,-96.2138,0,-86.2798 1/2:47:0,22,25:0:0:22,25:784,880:-135.898,-71.9913,-65.3687,-64.2613,0,-56.7355 1/2:112:0,73,39:0:0:73,39:2611,1384:-326.026,-113.119,-91.144,-213.263,0,-201.523 1/1:37:0,37,0:0:0:37,0:1332,0:-120.182,-11.1381,0,-120.182,-11.1381,-120.182 1/1:81:0,81,0:0:0:81,0:2864,0:-257.878,-24.3834,0,-257.878,-24.3834,-257.878 2/2:48:0,0,48:0:0:0,48:0,1694:-152.746,-152.746,-152.746,-14.4494,-14.4494,0 1/2:167:0,76,89:0:0:76,89:2708,3147:-476.688,-255.957,-233.079,-220.697,0,-193.906 1/2:12:0,4,8:0:0:4,8:144,287:-35.5183,-23.7682,-22.5641,-12.1095,0,-9.70126 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/2:22:0,11,11:0:0:11,11:392,379:-63.0876,-31.1292,-27.8178,-32.3087,0,-28.9974 1/1:89:0,89,0:0:0:89,0:3180,0:-286.425,-26.7917,0,-286.425,-26.7917,-286.425 1/2:74:0,34,38:0:0:34,38:1214,1333:-207.471,-108.494,-98.2593,-98.994,0,-87.5549 1/1:117:0,117,0:0:0:117,0:4192,0:-377.401,-35.2205,0,-377.401,-35.2205,-377.401 1/1:52:3,49,0:3:108:49,0:1760,0:-148.609,-5.57839,0,-149.512,-14.7505,-158.324 1/1:28:0,28,0:0:0:28,0:1008,0:-91.0354,-8.42884,0,-91.0354,-8.42884,-91.0354 1/2:49:0,32,17:0:0:32,17:1140,584:-140.693,-47.7642,-38.1312,-93.2762,0,-88.1587 1/2:66:0,47,19:0:0:47,19:1692,658:-191.888,-53.8222,-39.6737,-138.416,0,-132.697 1/1:39:0,36,3:0:0:36,3:1280,106:-115.15,-10.8371,0,-106.517,-1.85101,-105.614 1/1:36:0,35,1:0:0:35,1:1248,36:-112.264,-10.5361,0,-109.327,-7.23881,-109.026 chr08 8616215 . TTT TTG,CTG 39377.9 PASS AB=0.477545,0.520958;ABP=8.86157,8.10741;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1589,819;CIGAR=2M1X,1X1M1X;DP=2413;DPB=2413;DPRA=0.955417,1.14185;EPP=3453.48,1781.45;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.9,2.2;MQM=36.9465,25.2918;MQMR=0;NS=21;NUMALT=2;ODDS=5.77576;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56643,28597;QR=0;RO=0;RPL=1589,819;RPP=3453.48,1781.45;RPPR=0;RPR=0,0;RUN=1,1;SAF=1589,819;SAP=3453.48,1781.45;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:136:0,60,75:0:0:60,75:2126,2648:-302.006,-143.259,-125.197,-158.705,0,-136.128 1/2:77:0,38,39:0:0:38,39:1351,1382:-179.551,-78.5679,-67.1287,-101.276,0,-89.5357 1/2:144:0,75,69:0:0:75,69:2671,2425:-329.116,-131.821,-109.243,-197.579,0,-176.808 1/2:198:0,75,123:0:0:75,123:2672,4327:-436.312,-235.465,-212.888,-201.146,0,-164.119 1/2:281:0,137,143:0:0:137,143:4880,4942:-632.714,-271.465,-230.224,-361.289,0,-318.241 1/1:130:0,128,1:0:0:128,1:4579,36:-386.12,-38.5318,0,-384.119,-36.5354,-383.818 1/1:142:0,142,0:0:0:142,0:5067,0:-429.695,-42.7463,0,-429.695,-42.7463,-429.695 2/2:120:0,0,119:0:0:0,119:0,4122:-261.789,-261.789,-261.789,-35.8226,-35.8226,0 1/2:200:0,102,98:0:0:102,98:3656,3441:-457.739,-186.821,-156.116,-271.204,0,-241.703 1/2:10:0,1,9:0:0:1,9:36,320:-20.2852,-17.5659,-17.2649,-3.04512,0,-0.335846 1/1:9:0,9,0:0:0:9,0:324,0:-27.6976,-2.70927,0,-27.6976,-2.70927,-27.6976 1/2:19:0,8,11:0:0:8,11:288,376:-42.4388,-20.6774,-18.2692,-22.0565,0,-18.7451 1/1:202:0,201,0:0:0:201,0:7165,0:-598.716,-60.507,0,-598.716,-60.507,-598.716 1/2:145:0,68,77:0:0:68,77:2419,2653:-328.947,-148.033,-127.563,-181.204,0,-158.025 1/1:162:0,162,0:0:0:162,0:5786,0:-481.696,-48.7669,0,-481.696,-48.7669,-481.696 1/1:62:0,62,0:0:0:62,0:2220,0:-183.214,-18.6639,0,-183.214,-18.6639,-183.214 1/1:80:0,78,2:0:0:78,2:2792,64:-229.734,-23.4803,0,-226.026,-19.531,-225.424 1/2:69:0,31,38:0:0:31,38:1104,1325:-157.142,-74.4764,-65.1444,-82.9602,0,-71.521 1/2:57:0,43,14:0:0:43,14:1512,500:-141.969,-27.5711,-14.6268,-114.668,0,-110.453 1/1:121:0,120,1:0:0:120,1:4265,36:-356.63,-36.1236,0,-354.711,-33.9577,-354.41 1/1:49:0,49,0:0:0:49,0:1730,0:-147.269,-14.7505,0,-147.269,-14.7505,-147.269 chr08 8619445 . A G 33646.1 PASS AB=0.520522;ABP=6.93191;AC=29;AF=0.690476;AN=42;AO=1308;CIGAR=1X;DP=1930;DPB=1930;DPRA=0.877885;EPP=2843.3;EPPR=1340.65;GTI=0;LEN=1;MEANALT=1.1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.76243;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45694;QR=21954;RO=620;RPL=652;RPP=3.03686;RPPR=9.18849;RPR=656;RUN=1;SAF=652;SAP=3.03686;SAR=656;SRF=290;SRP=8.6141;SRR=330;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:42,44:42:1485:44:1497:-109.127,0,-108.054 0/1:70:31,39:31:1093:39:1373:-102.794,0,-77.6056 0/1:43:21,22:21:747:22:760:-55.7716,0,-54.61 0/1:119:64,55:64:2292:55:1947:-139.683,0,-170.719 0/1:186:105,81:105:3752:81:2796:-195.885,0,-281.886 1/1:86:1,85:1:36:85:2994:-266.094,-22.2903,0 1/1:110:0,110:0:0:110:3825:-344.448,-33.1133,0 0/0:104:104,0:104:3686:0:0:0,-31.3071,-331.942 0/1:136:62,74:62:2149:74:2582:-191.687,0,-152.732 0/1:22:11,11:11:377:11:396:-29.3601,0,-27.6353 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:29:10,19:10:345:19:667:-51.6248,0,-22.651 1/1:108:1,106:1:36:106:3706:-330.146,-28.9718,0 0/1:85:43,41:43:1509:41:1447:-104.879,0,-110.455 1/1:115:0,115:0:0:115:4042:-363.973,-34.6185,0 1/1:54:0,54:0:0:54:1932:-174.157,-16.2556,0 1/1:52:0,52:0:0:52:1848:-166.6,-15.6536,0 0/1:147:66,81:66:2339:81:2766:-204.929,0,-166.518 0/1:149:58,91:58:2072:91:3139:-237.88,0,-141.897 1/1:82:1,81:1:36:81:2822:-250.622,-21.0862,0 1/1:142:0,142:0:0:142:4979:-448.262,-42.7463,0 chr08 8656852 . C T 10684.8 PASS AB=0.50494;ABP=3.20337;AC=13;AF=0.309524;AN=42;AO=589;CIGAR=1X;DP=1650;DPB=1650;DPRA=1.35811;EPP=1264.69;EPPR=2302.6;GTI=0;LEN=1;MEANALT=1;MQM=59.9593;MQMR=60;NS=21;NUMALT=1;ODDS=0.247933;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21078;QR=37419;RO=1059;RPL=588;RPP=1273.34;RPPR=2302.6;RPR=1;RUN=1;SAF=588;SAP=1273.34;SAR=1;SRF=1059;SRP=2302.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:77,79:77:2737:79:2823:-207.348,0,-199.611 0/1:45:24,21:24:860:21:756:-54.8209,0,-64.1755 0/1:93:40,53:40:1408:53:1900:-143.282,0,-99.0214 0/1:63:33,30:33:1159:30:1080:-78.5484,0,-85.651 0/1:216:106,110:106:3707:110:3944:-289.859,0,-268.812 0/0:110:110,0:110:3900:0:0:0,-33.1133,-351.195 0/0:93:93,0:93:3266:0:0:0,-27.9958,-294.161 1/1:127:0,127:0:0:127:4545:-409.215,-38.2308,0 0/1:112:53,59:53:1884:59:2112:-156.634,0,-136.123 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/0:6:5,0:5:180:0:0:0,-1.50515,-16.1922 0/1:23:12,11:12:432:11:396:-29.0591,0,-32.2975 0/0:42:42,0:42:1476:0:0:0,-12.6433,-133.132 0/1:82:44,38:44:1556:38:1351:-97.2051,0,-115.647 0/0:122:121,1:121:4271:1:36:0,-33.1274,-380.97 0/0:62:62,0:62:2205:0:0:0,-18.6639,-198.714 0/0:46:45,1:45:1604:1:36:0,-10.2491,-141.052 0/1:69:31,38:31:1079:38:1351:-101.119,0,-76.6466 0/1:42:24,18:24:847:18:640:-45.2861,0,-63.9055 0/0:80:79,0:79:2790:0:0:0,-23.7814,-250.982 0/0:51:51,0:51:1810:0:0:0,-15.3525,-163.18 chr08 8664017 . G T 19149.9 PASS AB=0.536471;ABP=12.8305;AC=29;AF=0.690476;AN=42;AO=953;CIGAR=1X;DP=1403;DPB=1403;DPRA=1.27358;EPP=2072.42;EPPR=978.001;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9916;MQMR=59.9866;NS=21;NUMALT=1;ODDS=6.28433;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33963;QR=15984;RO=449;RPL=953;RPP=2072.42;RPPR=978.001;RPR=0;RUN=1;SAF=953;SAP=2072.42;SAR=0;SRF=449;SRP=978.001;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:45,44:45:1600:44:1556:-113.537,0,-117.499 0/1:18:12,6:12:423:6:216:-14.372,0,-32.9865 0/1:87:36,51:36:1274:51:1815:-137.441,0,-88.7719 0/1:61:25,36:25:891:36:1277:-96.8683,0,-62.1459 0/1:177:80,97:80:2864:97:3472:-259.41,0,-204.715 1/1:50:2,48:2:72:48:1702:-146.628,-8.21478,0 1/1:64:0,64:0:0:64:2287:-206.091,-19.2659,0 0/0:53:53,0:53:1878:0:0:0,-15.9546,-169.293 0/1:154:73,81:73:2597:81:2894:-214.336,0,-187.619 0/1:15:10,5:10:360:5:180:-12.0366,0,-28.2289 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:34:19,15:19:671:15:532:-37.9781,0,-50.4808 1/1:68:0,68:0:0:68:2415:-217.606,-20.47,0 0/1:80:42,38:42:1499:38:1360:-98.6159,0,-111.121 1/1:99:0,99:0:0:99:3518:-316.831,-29.802,0 1/1:35:0,35:0:0:35:1225:-110.552,-10.5361,0 1/1:52:0,52:0:0:52:1850:-166.779,-15.6536,0 0/1:99:40,58:40:1423:58:2078:-157.429,0,-98.506 0/1:36:11,25:11:396:25:896:-70.1233,0,-25.1457 1/1:84:1,83:1:36:83:2966:-263.574,-21.6882,0 1/1:44:0,44:0:0:44:1580:-142.492,-13.2453,0 chr08 8669399 . C T 7654.72 PASS AB=0.543689;ABP=8.13329;AC=29;AF=0.690476;AN=42;AO=376;CIGAR=1X;DP=545;DPB=545;DPRA=0.923214;EPP=810.821;EPPR=369.989;GTI=1;LEN=1;MEANALT=1;MQM=59.7979;MQMR=60;NS=21;NUMALT=1;ODDS=1.17729;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13432;QR=6023;RO=169;RPL=376;RPP=819.484;RPPR=369.989;RPR=0;RUN=1;SAF=1;SAP=810.821;SAR=375;SRF=0;SRP=369.989;SRR=169;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:13,12:13:468:12:432:-31.4236,0,-34.9339 0/1:25:8,17:8:288:17:612:-47.8877,0,-18.7417 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:18:12,6:12:432:6:216:-14.372,0,-33.8027 0/1:33:19,14:19:680:14:504:-35.7641,0,-51.5952 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:26:0,26:0:0:26:921:-83.1722,-7.82678,0 0/0:28:28,0:28:989:0:0:0,-8.42884,-89.322 0/1:15:2,13:2:72:13:468:-37.9442,0,-2.32127 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:22:12,10:12:417:10:360:-26.1216,0,-31.2376 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 0/1:10:5,5:5:165:5:180:-13.5418,0,-12.1633 1/1:37:0,37:0:0:37:1313:-118.47,-11.1381,0 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:87:38,49:38:1360:49:1752:-131.775,0,-96.511 0/1:59:23,36:23:828:36:1262:-96.1177,0,-57.0833 1/1:15:0,15:0:0:15:540:-48.8062,-4.51545,0 1/1:53:0,53:0:0:53:1892:-170.547,-15.9546,0 chr08 8669486 . TCG TCT,CCT 51882.1 PASS AB=0.534326,0.459884;ABP=15.3836,19.9097;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1231,713;CIGAR=2M1X,1X1M1X;DP=1956;DPB=1956;DPRA=0.568987,1.14931;EPP=2632.84,1525.32;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2.1,2.46667;MQM=59.9634,59.8373;MQMR=60;NS=21;NUMALT=2;ODDS=1.83059;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43790,24697;QR=36;RO=1;RPL=684,408;RPP=36.1186,35.3205;RPPR=5.18177;RPR=547,305;RUN=1,1;SAF=689,411;SAP=41.1284,39.1944;SAR=542,302;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:62:0,29,33:0:0:29,33:1040,1134:-177.261,-92.4277,-83.6978,-85.1845,0,-75.2505 1/2:7:0,4,3:0:0:4,3:144,108:-20.9217,-9.17208,-7.96796,-12.1095,0,-11.2064 1/2:85:0,36,47:0:0:36,47:1273,1606:-234.054,-130.368,-119.531,-103.726,0,-89.578 1/2:84:0,29,55:0:0:29,55:1036,1876:-237.028,-152.556,-143.826,-84.824,0,-68.2674 1/2:133:0,60,71:0:0:60,71:2139,2472:-375.356,-200.993,-182.931,-174.356,0,-152.983 1/2:84:0,74,10:0:0:74,10:2627,324:-240.536,-26.4624,-4.18615,-214.402,0,-211.391 1/1:115:1,114,0:1:36:114,0:4051,0:-361.172,-31.0202,0,-361.473,-34.3174,-364.41 2/2:158:0,0,156:0:0:0,156:0,5377:-483.768,-483.768,-483.768,-46.9607,-46.9607,0 1/2:193:0,99,91:0:0:99,91:3548,3215:-551.217,-261.846,-232.044,-289.392,0,-261.999 1/2:17:0,12,5:0:0:12,5:417,165:-47.5813,-13.6685,-10.0561,-34.2479,0,-32.7427 1/1:11:0,11,0:0:0:11,0:378,0:-34.3491,-3.31133,0,-34.3491,-3.31133,-34.3491 1/2:64:0,34,30:0:0:34,30:1224,1049:-185.561,-85.6834,-75.4484,-100.232,0,-91.2011 1/1:136:0,135,0:0:0:135,0:4810,0:-432.803,-40.6391,0,-432.803,-40.6391,-432.803 1/2:142:0,62,80:0:0:62,80:2228,2808:-410.642,-228.878,-210.214,-182.12,0,-158.038 1/1:115:0,115,0:0:0:115,0:4082,0:-367.564,-34.6185,0,-367.564,-34.6185,-367.564 1/1:6:0,5,0:0:0:5,0:180,0:-16.1923,-1.50515,0,-16.1923,-1.50515,-16.1923 1/2:4:0,3,1:0:0:3,1:104,20:-10.262,-1.69893,-0.795837,-8.79971,0,-8.49868 1/2:194:0,112,82:0:0:112,82:3986,2836:-555.652,-230.789,-197.074,-325.213,0,-300.528 1/2:140:0,92,48:0:0:92,48:3270,1671:-402.701,-136.225,-108.53,-266.826,0,-252.377 1/1:122:0,122,0:0:0:122,0:4303,0:-387.447,-36.7257,0,-387.447,-36.7257,-387.447 1/1:84:0,83,1:0:0:83,1:2950,36:-265.368,-24.9855,0,-262.431,-21.6882,-262.13 chr08 8669729 . C G 18877 PASS AB=0.613565;ABP=74.0318;AC=29;AF=0.690476;AN=42;AO=913;CIGAR=1X;DP=1181;DPB=1181;DPRA=3.64062;EPP=1985.56;EPPR=582.793;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9463;MQMR=60;NS=21;NUMALT=1;ODDS=1.21597;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32684;QR=9488;RO=267;RPL=913;RPP=1985.56;RPPR=582.793;RPR=0;RUN=1;SAF=0;SAP=1985.56;SAR=913;SRF=0;SRP=582.793;SRR=267;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:26:6,20:6:216:20:712:-56.5799,0,-11.9637 0/1:21:4,17:4:140:17:608:-48.7304,0,-6.62295 0/1:78:41,37:41:1468:37:1332:-96.702,0,-108.936 0/1:58:23,35:23:820:35:1244:-94.8049,0,-56.6628 0/1:103:35,68:35:1241:68:2440:-188.849,0,-80.9864 1/1:49:1,48:1:36:48:1724:-151.847,-11.1522,0 1/1:86:2,84:2:72:84:2990:-262.472,-19.0519,0 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:95:31,64:31:1097:64:2296:-178.303,0,-70.4402 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:18:14,4:14:500:4:140:-7.52604,0,-39.9176 1/1:122:1,121:1:36:121:4339:-387.085,-33.1274,0 0/1:84:43,41:43:1521:41:1464:-106.769,0,-111.895 1/1:80:0,80:0:0:80:2860:-257.638,-24.0824,0 1/1:34:0,34:0:0:34:1220:-110.107,-10.235,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:76:28,48:28:1000:48:1699:-130.317,0,-67.4371 0/1:70:18,52:18:629:52:1864:-146.967,0,-35.8617 1/1:88:1,87:1:32:87:3128:-278.546,-23.2913,0 1/1:45:1,43:1:36:43:1544:-135.585,-10.0069,0 chr08 8669735 . T A 3706.99 PASS AB=0.383387;ABP=76.9514;AC=13;AF=0.309524;AN=42;AO=260;CIGAR=1X;DP=1169;DPB=1169;DPRA=1.64104;EPP=567.593;EPPR=1976.88;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.9571;NS=21;NUMALT=1;ODDS=0.983183;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9232;QR=32546;RO=909;RPL=260;RPP=567.593;RPPR=1968.2;RPR=0;RUN=1;SAF=0;SAP=567.593;SAR=260;SRF=1;SRP=1968.2;SRR=908;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:26:20,6:20:720:6:216:-11.9637,0,-57.302 0/1:20:16,4:16:576:4:144:-7.29302,0,-46.1544 0/1:78:38,40:38:1364:40:1436:-106.057,0,-99.5804 0/1:57:35,22:35:1252:22:784:-53.7252,0,-95.8264 0/1:101:65,36:65:2340:36:1292:-86.1797,0,-180.455 0/0:49:48,1:48:1724:1:36:0,-11.1522,-151.847 0/0:85:83,2:83:2952:2:68:0,-19.1298,-259.428 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 0/1:93:64,29:64:2300:29:1036:-65.5581,0,-179.265 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:18:4,14:4:140:14:500:-39.9176,0,-7.52604 0/0:120:119,1:119:4264:1:36:0,-32.5253,-380.339 0/1:83:41,42:41:1468:42:1440:-104.901,0,-107.43 0/0:80:80,0:80:2872:0:0:0,-24.0824,-258.716 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:81:52,29:52:1841:29:1036:-69.1705,0,-141.585 0/1:64:49,15:49:1745:15:528:-28.5854,0,-138.066 0/0:87:86,1:86:3080:1:36:0,-22.5913,-273.83 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.179 chr08 8795692 . CGGTAAGTA TGGTGAGTA,TGGTGAGTC 29350.6 PASS AB=0.453771,0.53528;ABP=18.2687,11.897;AC=29,13;AF=0.690476,0.309524;AN=42;AO=878,544;CIGAR=1X3M1X4M,1X3M1X3M1X;DP=1434;DPB=1434;DPRA=0.646117,1.41326;EPP=1909.56,1184.29;EPPR=0;GTI=1;LEN=9,9;MEANALT=2.2,2.69231;MQM=59.4658,53.8419;MQMR=0;NS=21;NUMALT=2;ODDS=1.44174;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30846,19127;QR=0;RO=0;RPL=0,0;RPP=1909.56,1184.29;RPPR=0;RPR=878,544;RUN=1,1;SAF=878,544;SAP=1909.56,1184.29;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,39,26:0:0:39,26:1377,912:-186.593,-74.4681,-62.7279,-112.477,0,-104.65 1/2:27:0,10,17:0:0:10,17:360,578:-76.465,-47.0831,-44.0728,-29.734,0,-24.6165 1/2:114:0,42,70:0:0:42,70:1487,2472:-321.614,-200.527,-187.884,-121.09,0,-100.018 1/2:77:0,26,50:0:0:26,50:924,1762:-218.475,-143.193,-135.366,-75.3274,0,-60.2759 1/2:163:0,74,88:0:0:74,88:2588,3088:-461.219,-250.88,-228.604,-210.446,0,-183.955 1/1:60:0,60,0:0:0:60,0:2124,0:-191.425,-18.0618,0,-191.425,-18.0618,-191.425 1/1:80:0,80,0:0:0:80,0:2782,0:-250.55,-24.0824,0,-250.55,-24.0824,-250.55 2/2:103:0,0,103:0:0:0,103:0,3632:-325.991,-325.991,-325.991,-31.0061,-31.0061,0 1/2:134:0,54,77:0:0:54,77:1889,2736:-376.055,-222.379,-206.123,-153.718,0,-130.539 1/2:9:0,3,6:0:0:3,6:100,213:-25.7023,-17.6151,-16.712,-8.42703,0,-6.62085 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:26:0,13,13:0:0:13,13:460,461:-75.2769,-37.8086,-33.8952,-37.8219,0,-33.9085 1/1:95:0,95,0:0:0:95,0:3333,0:-300.169,-28.5979,0,-300.169,-28.5979,-300.169 1/2:100:0,49,49:0:0:49,49:1711,1681:-275.325,-136.175,-121.425,-139.17,0,-124.42 1/1:74:0,72,1:0:0:72,1:2529,32:-227.573,-21.6742,0,-224.997,-19.0376,-224.696 1/1:34:0,34,0:0:0:34,0:1197,0:-108.03,-10.235,0,-108.03,-10.235,-108.03 1/1:34:0,34,0:0:0:34,0:1219,0:-110.016,-10.235,0,-110.016,-10.235,-110.016 1/2:46:0,19,27:0:0:19,27:672,956:-132.18,-77.445,-71.7255,-55.0872,0,-46.9594 1/2:61:0,44,17:0:0:44,17:1536,604:-174.262,-49.3578,-36.1125,-125.257,0,-120.139 1/1:98:0,97,0:0:0:97,0:3383,0:-304.339,-29.1999,0,-304.339,-29.1999,-304.339 1/1:29:0,28,0:0:0:28,0:995,0:-89.5042,-8.42884,0,-89.5042,-8.42884,-89.5042 chr08 8841434 . G A 59106.2 PASS AB=0.50371;ABP=3.30031;AC=29;AF=0.690476;AN=42;AO=3052;CIGAR=1X;DP=4453;DPB=4453;DPRA=1.15351;EPP=6621.66;EPPR=3045.24;GTI=0;LEN=1;MEANALT=1;MQM=40.6383;MQMR=42.9714;NS=21;NUMALT=1;ODDS=17.6818;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=109021;QR=49987;RO=1401;RPL=1;RPP=6621.66;RPPR=3045.24;RPR=3051;RUN=1;SAF=0;SAP=6630.34;SAR=3052;SRF=0;SRP=3045.24;SRR=1401;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:175:72,103:72:2563:103:3673:-263.81,0,-173.363 0/1:271:130,141:130:4607:141:5033:-357.149,0,-323.599 0/1:297:166,131:166:5925:131:4676:-315.205,0,-431.357 0/1:387:197,190:197:7033:190:6803:-468.855,0,-502.052 0/1:278:135,143:135:4818:143:5099:-356.488,0,-339.105 1/1:87:0,87:0:0:87:3107:-271.022,-26.1896,0 1/1:418:2,416:2:72:416:14864:-1283.96,-119.112,0 0/0:185:185,0:185:6600:0:0:0,-55.6905,-578.7 0/1:163:76,87:76:2719:87:3116:-220.71,0,-189.666 0/1:53:33,20:33:1184:20:716:-46.9475,0,-88.0176 1/1:15:0,15:0:0:15:540:-47.3989,-4.51545,0 0/1:100:74,26:74:2652:26:913:-49.8577,0,-203.078 1/1:174:0,174:0:0:174:6224:-536.26,-52.3792,0 0/1:350:175,175:175:6266:175:6234:-433.259,0,-445.512 1/1:394:0,394:0:0:394:14112:-1218.64,-118.606,0 1/1:184:1,183:1:36:183:6538:-561.159,-51.8685,0 1/1:164:4,160:4:144:160:5697:-479.942,-36.3412,0 0/1:263:114,149:114:4062:149:5292:-378.826,0,-277.494 0/1:89:32,57:32:1126:57:2044:-150.705,0,-72.4783 1/1:311:2,309:2:72:309:11066:-956.37,-86.9161,0 1/1:95:3,92:3:108:92:3274:-275.743,-18.6967,0 chr08 8842815 . A G 30770.9 PASS AB=0.476005;ABP=15.8282;AC=13;AF=0.309524;AN=42;AO=1415;CIGAR=1X;DP=4811;DPB=4811;DPRA=1.29202;EPP=3075.64;EPPR=7372.99;GTI=0;LEN=1;MEANALT=1.125;MQM=50.6629;MQMR=55.959;NS=21;NUMALT=1;ODDS=28.5363;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49649;QR=121263;RO=3394;RPL=596;RPP=79.3249;RPPR=154.128;RPR=819;RUN=1;SAF=596;SAP=79.3249;SAR=819;SRF=1454;SRP=154.128;SRR=1940;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:383:199,184:199:7101:184:6422:-448.633,0,-522.244 0/1:135:69,66:69:2467:66:2307:-156.152,0,-180.943 0/1:218:106,112:106:3804:112:3904:-278.086,0,-276.623 0/1:295:139,156:139:4992:156:5511:-388.048,0,-359.614 0/1:470:255,215:255:9095:215:7546:-522.732,0,-674.967 0/0:162:161,1:161:5741:1:36:0,-45.1686,-510.534 0/0:393:391,1:391:13942:1:32:0,-115.311,-1245.39 1/1:185:1,184:1:27:184:6484:-564.027,-52.9927,0 0/1:477:251,226:251:8975:226:7928:-562.499,0,-663.49 0/1:19:10,9:10:360:9:312:-21.6169,0,-26.9693 0/0:15:15,0:15:523:0:0:0,-4.51545,-46.9355 0/1:34:15,19:15:540:19:660:-47.0596,0,-38.3964 0/0:309:307,2:307:10977:2:72:0,-86.1815,-978.087 0/1:237:126,111:126:4511:111:3917:-275.582,0,-333.063 0/0:457:457,0:457:16312:0:0:0,-137.571,-1464.68 0/0:188:188,0:188:6726:0:0:0,-56.5936,-603.601 0/0:165:165,0:165:5894:0:0:0,-49.6699,-529.665 0/1:140:65,75:65:2309:75:2629:-183.288,0,-164.712 0/1:155:108,47:108:3872:47:1645:-95.1101,0,-301.347 0/0:262:254,7:254:9097:7:244:0,-58.1625,-794.68 0/0:112:112,0:112:3998:0:0:0,-33.7154,-358.105 chr08 8872895 . CAGTC AAGTT,CAGTT 40274.3 PASS AB=0.573604,0.422335;ABP=49.3608,54.6164;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1397,514;CIGAR=1X3M1X,4M1X;DP=1920;DPB=1920;DPRA=0.971277,1.0894;EPP=3036.56,1119.15;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2,2.28571;MQM=59.927,59.9786;MQMR=60;NS=21;NUMALT=2;ODDS=15.0678;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49192,18374;QR=36;RO=1;RPL=0,0;RPP=3036.56,1119.15;RPPR=5.18177;RPR=1397,514;RUN=1,1;SAF=0,0;SAP=3036.56,1119.15;SAR=1397,514;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:114:0,62,52:0:0:62,52:2174,1854:-328.395,-151.485,-132.821,-177.264,0,-161.61 1/2:92:0,65,27:0:0:65,27:2311,972:-267.995,-79.6701,-60.1031,-188.684,0,-180.556 1/2:92:0,32,60:0:0:32,60:1139,2152:-268.714,-175.885,-166.252,-93.1857,0,-75.1239 1/2:74:0,41,33:0:0:41,33:1453,1154:-212.599,-94.2283,-81.886,-118.723,0,-108.789 1/2:172:0,104,67:0:0:104,67:3694,2389:-495.898,-194.894,-163.587,-301.156,0,-280.987 1/1:74:0,73,1:0:0:73,1:2560,36:-230.291,-21.9752,0,-227.354,-18.6779,-227.053 1/1:139:0,136,2:0:0:136,2:4800,72:-431.822,-40.9401,0,-425.947,-35.0253,-425.345 2/2:94:0,0,94:0:0:0,94:0,3372:-303.677,-303.677,-303.677,-28.2968,-28.2968,0 1/2:102:0,60,41:0:0:60,41:2104,1476:-291.644,-120.434,-102.372,-171.206,0,-158.864 1/1:24:0,22,1:0:0:22,1:777,36:-69.8928,-6.62266,0,-66.9551,-3.68524,-66.6541 1/1:8:0,8,0:0:0:8,0:278,0:-25.3571,-2.40824,0,-25.3571,-2.40824,-25.3571 1/2:36:0,22,14:0:0:22,14:755,504:-102.774,-41.4837,-34.861,-61.6438,0,-57.4293 1/1:61:0,61,0:0:0:61,0:2153,0:-194.037,-18.3628,0,-194.037,-18.3628,-194.037 1/2:114:0,59,55:0:0:59,55:2074,1976:-330.37,-161.558,-143.797,-169.167,0,-152.611 1/1:219:0,218,0:0:0:218,0:7703,0:-692.825,-65.6245,0,-692.825,-65.6245,-692.825 1/1:88:0,86,0:0:0:86,0:3027,0:-272.307,-25.8886,0,-272.307,-25.8886,-272.307 1/1:61:0,61,0:0:0:61,0:2156,0:-194.307,-18.3628,0,-194.307,-18.3628,-194.307 1/2:136:1,85,49:1:36:85,49:2978,1756:-382.18,-140.276,-117.626,-239.263,0,-227.45 1/2:53:0,35,18:0:0:35,18:1219,625:-150.282,-51.154,-40.6179,-99.4758,0,-94.0572 1/1:116:0,116,0:0:0:116,0:4056,0:-365.232,-34.9195,0,-365.232,-34.9195,-365.232 1/1:51:0,51,0:0:0:51,0:1781,0:-160.518,-15.3525,0,-160.518,-15.3525,-160.518 chr08 8875680 . GTTGG ATTGC,ATTGG 40298.5 PASS AB=0.528701,0.462236;ABP=10.1151,15.3109;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1371,550;CIGAR=1X3M1X,1X4M;DP=1933;DPB=1933.8;DPRA=1.02389,0.884664;EPP=2980.1,1197.32;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.2,2.61538;MQM=58.0518,59.2655;MQMR=0;NS=21;NUMALT=2;ODDS=13.3194;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=68,68;PQR=0;PRO=0;QA=48084,19691;QR=0;RO=0;RPL=1371,550;RPP=2980.1,1197.32;RPPR=0;RPR=0,0;RUN=1,1;SAF=1371,550;SAP=2980.1,1197.32;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,64,46:0:0:64,46:2238,1644:-315.512,-134.04,-114.774,-181.477,0,-167.629 1/2:79:0,47,32:0:0:47,32:1642,1144:-225.983,-93.6366,-79.4881,-132.7,0,-123.067 1/2:94:0,49,45:0:0:49,45:1707,1616:-269.935,-132.01,-117.259,-138.278,0,-124.732 1/2:123:0,57,66:0:0:57,66:2002,2355:-354.871,-192.325,-175.166,-162.899,0,-143.031 1/2:140:0,73,66:0:0:73,66:2528,2364:-397.977,-192.572,-170.597,-205.503,0,-185.635 1/1:47:0,47,0:0:0:47,0:1636,0:-147.276,-14.1484,0,-147.276,-14.1484,-147.276 1/1:177:0,177,0:0:0:177,0:6184,0:-554.151,-53.2823,0,-554.151,-53.2823,-554.151 2/2:90:0,0,90:0:0:0,90:0,3236:-291.278,-291.278,-291.278,-27.0927,-27.0927,0 1/2:142:0,76,63:0:0:76,63:2677,2260:-401.413,-183.943,-161.065,-217.53,0,-198.565 1/2:9:0,3,5:0:0:3,5:96,180:-22.4184,-14.697,-13.794,-7.71298,0,-6.20783 1/1:4:0,4,0:0:0:4,0:144,0:-13.3073,-1.20412,0,-13.3073,-1.20412,-13.3073 1/2:20:0,7,13:0:0:7,13:245,468:-58.2094,-38.2814,-36.1742,-20.2805,0,-16.3671 1/1:57:0,56,1:0:0:56,1:1977,36:-177.416,-16.8577,0,-174.479,-13.5604,-174.178 1/2:138:0,69,69:0:0:69,69:2440,2474:-400.223,-201.542,-180.771,-198.978,0,-178.207 1/1:146:0,144,0:0:0:144,0:5096,0:-458.358,-43.3483,0,-458.358,-43.3483,-458.358 1/1:108:0,108,0:0:0:108,0:3798,0:-341.713,-32.5112,0,-341.713,-32.5112,-341.713 1/1:119:0,119,0:0:0:119,0:4147,0:-371.598,-35.8226,0,-371.598,-35.8226,-371.598 1/2:65:0,31,33:0:0:31,33:1087,1175:-184.291,-95.8491,-86.5172,-88.5705,0,-78.6365 1/2:70:0,49,21:0:0:49,21:1729,739:-201.273,-60.5098,-45.7594,-141.115,0,-134.794 1/1:95:0,94,0:0:0:94,0:3325,0:-297.699,-28.2968,0,-297.699,-28.2968,-297.699 1/1:97:0,97,0:0:0:97,0:3386,0:-302.999,-29.1999,0,-302.999,-29.1999,-302.999 chr08 8968107 . ATGAT TCGAG,ACGAA 48599.3 PASS AB=0.514615,0.4845;ABP=5.10484,5.36641;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1591,739;CIGAR=2X2M1X,1M1X2M1X;DP=2335;DPB=2335;DPRA=0.587978,1.43497;EPP=3457.82,1607.73;EPPR=0;GTI=0;LEN=5,5;MEANALT=1.95,2.06667;MQM=44.11,59.8484;MQMR=0;NS=21;NUMALT=2;ODDS=9.01222;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56456,26214;QR=0;RO=0;RPL=0,0;RPP=3457.82,1607.73;RPPR=0;RPR=1591,739;RUN=1,1;SAF=1591,739;SAP=3457.82,1607.73;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:179:0,74,105:0:0:74,105:2620,3744:-514.886,-305.554,-283.277,-209.684,0,-178.076 1/2:92:0,61,31:0:0:61,31:2174,1095:-263.308,-89.1555,-70.7927,-174.504,0,-165.172 1/2:85:0,39,45:0:0:39,45:1387,1596:-241.42,-130.024,-118.284,-111.389,0,-97.8426 1/2:78:0,40,38:0:0:40,38:1404,1342:-221.166,-109.626,-97.5852,-111.888,0,-100.449 1/2:206:0,111,95:0:0:111,95:3926,3377:-589.303,-275.549,-242.135,-314.106,0,-285.508 1/1:106:0,104,0:0:0:104,0:3718,0:-329.372,-31.3071,0,-329.372,-31.3071,-329.372 1/1:145:0,144,0:0:0:144,0:5125,0:-454.576,-43.3483,0,-454.576,-43.3483,-454.576 2/2:183:0,0,183:0:0:0,183:0,6498:-584.911,-584.911,-584.911,-55.0885,-55.0885,0 1/2:132:0,58,74:0:0:58,74:2069,2604:-373.397,-212.321,-194.861,-161.423,0,-139.147 1/2:32:0,16,16:0:0:16,16:566,574:-92.184,-47.1778,-42.3614,-45.3584,0,-40.542 1/1:6:0,6,0:0:0:6,0:215,0:-19.4344,-1.80618,0,-19.4344,-1.80618,-19.4344 1/2:64:0,28,36:0:0:28,36:1001,1284:-184.502,-105.015,-96.5859,-79.8393,0,-69.0023 1/1:127:0,127,0:0:0:127,0:4519,0:-401.105,-38.2308,0,-401.105,-38.2308,-401.105 1/2:141:0,67,74:0:0:67,74:2365,2615:-403.072,-213.299,-193.13,-190.123,0,-167.847 1/1:262:0,260,2:0:0:260,2:9197,72:-813.533,-78.2678,0,-807.658,-72.0331,-807.056 1/1:86:0,86,0:0:0:86,0:3039,0:-265.423,-25.8886,0,-265.423,-25.8886,-265.423 1/1:80:0,78,2:0:0:78,2:2777,71:-241.96,-23.4803,0,-236.174,-17.3403,-235.572 1/2:51:0,31,20:0:0:31,20:1086,699:-143.486,-57.2119,-47.88,-86.6213,0,-80.6007 1/2:69:0,56,13:0:0:56,13:2005,464:-199.271,-38.1844,-21.3267,-161.442,0,-157.529 1/1:172:0,166,5:0:0:166,5:5881,179:-519.926,-49.971,0,-505.328,-35.3752,-503.823 1/1:39:0,39,0:0:0:39,0:1382,0:-122.896,-11.7402,0,-122.896,-11.7402,-122.896 chr08 8968128 . A G 77910.8 PASS AB=0.500707;ABP=3.01951;AC=29;AF=0.690476;AN=42;AO=2970;CIGAR=1X;DP=4355;DPB=4355;DPRA=0.656981;EPP=6452.28;EPPR=3008.33;GTI=0;LEN=1;MEANALT=1.05;MQM=51.6465;MQMR=59.9075;NS=21;NUMALT=1;ODDS=10.8154;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=105518;QR=49300;RO=1384;RPL=1558;RPP=18.5952;RPPR=14.6145;RPR=1412;RUN=1;SAF=1558;SAP=18.5952;SAR=1412;SRF=735;SRP=14.6145;SRR=649;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:243:140,103:140:5010:103:3654:-252.174,0,-377.896 0/1:167:76,91:76:2703:91:3251:-238.744,0,-192.465 0/1:167:102,65:102:3643:65:2332:-158.144,0,-277.803 0/1:196:98,98:98:3500:98:3489:-252.612,0,-255.583 0/1:405:188,217:188:6675:217:7709:-566.307,0,-478.914 1/1:167:1,166:1:36:166:5912:-523.385,-46.6737,0 1/1:338:2,336:2:72:336:11963:-1063.2,-94.9114,0 0/0:308:308,0:308:10979:0:0:0,-92.7172,-987.962 0/1:286:164,122:164:5822:122:4306:-294.662,0,-437.99 0/1:35:18,17:18:644:17:604:-43.0388,0,-47.7545 1/1:7:0,7:0:0:7:252:-22.756,-2.10721,0 0/1:102:54,48:54:1913:48:1720:-122.209,0,-141.696 1/1:225:1,224:1:36:224:7967:-707.24,-64.1335,0 0/1:217:123,94:123:4383:94:3337:-232.349,0,-329.293 1/1:411:2,409:2:72:409:14523:-1285.48,-116.887,0 1/1:171:0,171:0:0:171:6047:-535.551,-51.4761,0 1/1:153:2,151:2:68:151:5357:-467.929,-39.5999,0 0/1:158:69,89:69:2452:89:3177:-236.03,0,-173.37 0/1:147:28,119:28:1004:119:4256:-336.5,0,-46.4245 1/1:333:8,324:8:288:324:11475:-997.06,-74.03,0 1/1:119:0,119:0:0:119:4187:-374.909,-35.8226,0 chr08 9249493 . ATTCTAC ATTCTAT,ATCCAT 21559.6 PASS AB=0.547237,0.449198;ABP=13.8831,15.5863;AC=28,14;AF=0.666667,0.333333;AN=42;AO=699,322;CIGAR=6M1X,1M1D2M1X1M1X;DP=1026;DPB=979.857;DPRA=1.48297,1.13898;EPP=1512.2,702.224;EPPR=5.18177;GTI=0;LEN=1,6;MEANALT=1.84211,2.07143;MQM=59.9485,56.5528;MQMR=60;NS=21;NUMALT=2;ODDS=6.325;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25012,11296;QR=36;RO=1;RPL=698,322;RPP=1512.2,702.224;RPPR=5.18177;RPR=1,0;RUN=1,1;SAF=0,0;SAP=1520.87,702.224;SAR=699,322;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:89:0,47,42:0:0:47,42:1684,1444:-254.917,-117.569,-103.42,-137.699,0,-125.055 1/2:37:0,23,13:0:0:23,13:824,457:-104.219,-37.0125,-30.0888,-67.2007,0,-63.2873 1/2:45:0,26,19:0:0:26,19:932,649:-128.975,-52.9512,-45.1244,-76.3721,0,-70.6525 1/2:49:0,26,23:0:0:26,23:932,816:-142.754,-66.7383,-58.9115,-76.3721,0,-69.4484 1/2:93:0,42,50:0:0:42,50:1493,1760:-264.822,-143.156,-130.513,-121.66,0,-106.608 1/1:43:0,42,1:0:0:42,1:1500,36:-134.935,-12.6433,0,-132.002,-9.35112,-131.701 1/1:56:0,56,0:0:0:56,0:2008,0:-180.993,-16.8577,0,-180.993,-16.8577,-180.993 2/2:59:0,0,59:0:0:0,59:0,2067:-185.797,-185.797,-185.797,-17.7608,-17.7608,0 1/2:87:0,54,33:0:0:54,33:1934,1186:-254.761,-97.0788,-80.8232,-158.041,0,-148.107 2/2:9:0,0,9:0:0:0,9:0,324:-29.4846,-29.4846,-29.4846,-2.70927,-2.70927,0 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:4:0,1,3:0:0:1,3:36,108:-12.1023,-9.16481,-8.86378,-3.29724,0,-2.39415 1/1:56:0,56,0:0:0:56,0:1995,0:-179.821,-16.8577,0,-179.821,-16.8577,-179.821 1/2:55:0,29,26:0:0:29,26:1017,896:-155.805,-73.0418,-64.3119,-83.1099,0,-75.2832 1/1:85:1,84,0:1:36:84,0:3016,0:-268.061,-21.9893,0,-268.362,-25.2865,-271.3 1/1:35:0,34,0:0:0:34,0:1224,0:-110.165,-10.235,0,-110.165,-10.235,-110.165 1/1:52:0,52,0:0:0:52,0:1868,0:-168.399,-15.6536,0,-168.399,-15.6536,-168.399 1/2:59:0,28,31:0:0:28,31:1004,1100:-171.718,-89.8271,-81.3982,-82.247,0,-72.9151 1/2:43:0,31,12:0:0:31,12:1116,417:-125.25,-34.1803,-24.8483,-91.4198,0,-87.8074 1/1:41:0,39,1:0:0:39,1:1385,36:-124.638,-11.7402,0,-121.703,-8.7503,-121.402 1/1:23:0,23,0:0:0:23,0:828,0:-74.8441,-6.92369,0,-74.8441,-6.92369,-74.8441 chr08 9265549 . CAAAATAG CAAAAATAG 19323 PASS AB=0.581666;ABP=92.7416;AC=13;AF=0.309524;AN=42;AO=1084;CIGAR=1M1I7M;DP=2915;DPB=3050.62;DPRA=1.6423;EPP=2287.91;EPPR=3916.08;GTI=1;LEN=1;MEANALT=1.6875;MQM=45.6504;MQMR=59.6128;NS=21;NUMALT=1;ODDS=8.63133;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38120;QR=64139;RO=1818;RPL=1076;RPP=2287.91;RPPR=3916.08;RPR=8;RUN=1;SAF=1084;SAP=2356.89;SAR=0;SRF=1818;SRP=3950.75;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:36,134:36:1277:134:4693:-364.38,0,-63.7629 0/1:161:66,94:66:2330:94:3320:-243.599,0,-161.521 0/1:167:66,101:66:2330:101:3560:-266.783,0,-159.318 0/1:103:40,63:40:1394:63:2209:-166.318,0,-94.533 0/1:278:111,166:111:3901:166:5830:-434.853,0,-267.425 0/0:326:321,2:321:11356:2:72:0,-90.8648,-1014.95 0/0:208:208,0:208:7299:0:0:0,-62.6142,-656.917 1/1:177:0,177:0:0:177:6219:-551.407,-53.2823,0 0/1:242:100,142:100:3549:142:5002:-374.164,0,-246.762 0/1:26:7,19:7:250:19:664:-51.2809,0,-15.0199 0/0:4:4,0:4:141:0:0:0,-1.20412,-13.0369 0/1:52:28,24:28:982:24:841:-59.1165,0,-73.0301 0/0:94:92,0:92:3247:0:0:0,-27.6948,-292.135 0/1:158:73,83:73:2551:83:2927:-212.502,0,-182.585 0/0:204:201,2:201:7094:2:72:0,-54.6906,-631.698 0/0:106:106,0:106:3751:0:0:0,-31.9092,-337.785 0/0:54:54,0:54:1925:0:0:0,-16.2556,-173.519 0/1:94:50,43:50:1767:43:1517:-105.497,0,-130.952 0/1:96:64,32:64:2276:32:1122:-70.8016,0,-176.132 0/0:121:120,1:120:4236:1:36:0,-32.8459,-377.823 0/0:72:71,1:71:2483:1:36:0,-18.1532,-220.198 chr08 9287615 . TGC TC 44589.5 PASS AB=0.527829;ABP=14.0084;AC=29;AF=0.690476;AN=42;AO=2194;CIGAR=1M1D1M;DP=3112;DPB=2379.67;DPRA=1.08577;EPP=4767.22;EPPR=1987.74;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9713;MQMR=60;NS=21;NUMALT=1;ODDS=18.4415;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77442;QR=31861;RO=914;RPL=0;RPP=4767.22;RPPR=1987.74;RPR=2194;RUN=1;SAF=0;SAP=4767.22;SAR=2194;SRF=0;SRP=1987.74;SRR=914;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:68,108:68:2334:108:3763:-285.89,0,-157.335 0/1:129:57,72:57:1997:72:2498:-186.222,0,-141.171 0/1:140:73,66:73:2532:66:2364:-170.815,0,-185.927 0/1:224:107,117:107:3767:117:4167:-307.782,0,-271.801 0/1:293:143,150:143:4969:150:5304:-389.295,0,-359.165 1/1:158:0,158:0:0:158:5604:-504.483,-47.5627,0 1/1:209:0,209:0:0:209:7371:-663.448,-62.9153,0 0/0:137:137,0:137:4733:0:0:0,-41.2411,-426.138 0/1:286:137,148:137:4805:148:5182:-380.369,0,-346.456 0/1:13:8,5:8:288:5:176:-12.2716,0,-22.354 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:29:18,11:18:639:11:360:-23.9859,0,-49.1084 1/1:164:0,164:0:0:164:5834:-525.175,-49.3689,0 0/1:183:97,86:97:3373:86:3020:-216.941,0,-248.701 1/1:209:0,209:0:0:209:7355:-662.006,-62.9153,0 1/1:136:1,135:1:36:135:4809:-429.363,-37.3418,0 1/1:164:0,164:0:0:164:5846:-526.252,-49.3689,0 0/1:59:24,35:24:847:35:1215:-91.8889,0,-58.7885 0/1:103:38,65:38:1330:65:2292:-175.535,0,-88.992 1/1:227:5,222:5:175:222:7795:-685.492,-52.2404,0 1/1:65:1,62:1:36:62:2199:-194.576,-15.7264,0 chr08 9356619 . T G,A 50420.7 PASS AB=0.566755,0.433245;ABP=46.7873,46.7873;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1754,582;CIGAR=1X,1X;DP=2336;DPB=2336;DPRA=1.29253,1.01148;EPP=3811.77,1266.81;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.7,1.93333;MQM=58.9869,59.9605;MQMR=0;NS=21;NUMALT=2;ODDS=12.7089;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62349,20646;QR=0;RO=0;RPL=12,0;RPP=3708.26,1266.81;RPPR=0;RPR=1742,582;RUN=1,1;SAF=12,0;SAP=3708.26,1266.81;SAR=1742,582;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:181:0,100,81:0:0:100,81:3544,2868:-522.64,-233.971,-203.868,-289.023,0,-264.64 1/2:97:0,52,45:0:0:52,45:1851,1608:-282.274,-131.462,-115.808,-151.169,0,-137.623 1/2:50:0,30,20:0:0:30,20:1068,718:-145.948,-58.9278,-49.8969,-87.3777,0,-81.3571 1/2:124:0,73,51:0:0:73,51:2620,1814:-361.832,-148.188,-126.213,-214.001,0,-198.648 1/2:291:0,173,118:0:0:173,118:6114,4193:-839.756,-342.029,-289.95,-498.082,0,-462.56 1/1:164:0,163,1:0:0:163,1:5807,36:-522.357,-49.0679,0,-519.42,-45.7706,-519.119 1/1:189:0,189,0:0:0:189,0:6700,0:-602.856,-56.8947,0,-602.856,-56.8947,-602.856 2/2:87:0,0,87:0:0:0,87:0,3105:-279.676,-279.676,-279.676,-26.1896,-26.1896,0 1/2:179:0,91,88:0:0:91,88:3243,3091:-516.248,-251.92,-224.526,-264.682,0,-238.191 1/2:12:0,10,2:0:0:10,2:348,72:-34.5201,-6.23466,-3.22436,-28.6433,0,-28.0412 1/1:6:0,6,0:0:0:6,0:207,0:-18.9651,-1.80618,0,-18.9651,-1.80618,-18.9651 1/2:31:0,11,20:0:0:11,20:396,719:-91.316,-59.018,-55.7067,-32.6576,0,-26.637 1/1:167:0,164,3:0:0:164,3:5830,108:-524.072,-49.3689,0,-515.26,-40.1968,-514.357 1/2:86:0,47,39:0:0:47,39:1665,1358:-246.291,-110.774,-96.6257,-135.868,0,-124.128 1/1:160:0,160,0:0:0:160,0:5717,0:-514.277,-48.1648,0,-514.277,-48.1648,-514.277 1/1:125:0,124,1:0:0:124,1:4413,36:-396.773,-37.3277,0,-393.836,-34.0305,-393.535 1/1:153:0,153,0:0:0:153,0:5438,0:-489.373,-46.0576,0,-489.373,-46.0576,-489.373 1/2:45:0,29,16:0:0:29,16:1026,564:-129.827,-46.2738,-37.544,-83.9058,0,-79.0893 1/2:35:0,25,10:0:0:25,10:892,356:-102.062,-29.3709,-21.8452,-73.0468,0,-70.0365 1/1:120:0,120,0:0:0:120,0:4263,0:-383.727,-36.1236,0,-383.727,-36.1236,-383.727 1/1:34:0,34,0:0:0:34,0:1207,0:-108.929,-10.235,0,-108.929,-10.235,-108.929 chr08 9356636 . GCAAT ACAAC,GCAAC 51271.1 PASS AB=0.57155,0.42845;ABP=55.5246,55.5246;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1804,595;CIGAR=1X3M1X,4M1X;DP=2403;DPB=2403;DPRA=1.38036,1.01353;EPP=3885.68,1286.37;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.85,2;MQM=58.9479,59.9849;MQMR=0;NS=21;NUMALT=2;ODDS=14.2206;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63863,21243;QR=0;RO=0;RPL=1800,594;RPP=3885.68,1286.37;RPPR=0;RPR=4,1;RUN=1,1;SAF=0,0;SAP=3920.35,1295.04;SAR=1804,595;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:192:0,106,86:0:0:106,86:3758,3064:-556.194,-250.1,-218.191,-306.449,0,-280.561 1/2:99:0,53,46:0:0:53,46:1892,1638:-288.061,-133.859,-117.905,-154.558,0,-140.71 1/2:53:0,31,22:0:0:31,22:1092,792:-153.706,-64.983,-55.6511,-89.079,0,-82.4564 1/2:130:0,77,53:0:0:77,53:2727,1895:-376.943,-154.873,-131.693,-222.426,0,-206.471 1/2:299:0,178,121:0:0:178,121:6256,4302:-859.908,-350.933,-297.35,-509.329,0,-472.904 1/1:166:0,165,1:0:0:165,1:5868,36:-527.848,-49.67,0,-524.911,-46.3727,-524.61 1/1:193:0,193,0:0:0:193,0:6828,0:-613.967,-58.0988,0,-613.967,-58.0988,-613.967 2/2:84:0,0,84:0:0:0,84:0,3007:-270.861,-270.861,-270.861,-25.2865,-25.2865,0 1/2:188:0,100,88:0:0:100,88:3556,3137:-545.728,-256.062,-225.959,-290.022,0,-263.532 1/2:12:0,10,2:0:0:10,2:359,68:-35.1544,-5.85565,-2.84535,-29.6418,0,-29.0397 1/1:6:0,6,0:0:0:6,0:215,0:-19.6973,-1.80618,0,-19.6973,-1.80618,-19.6973 1/2:31:0,12,19:0:0:12,19:429,684:-91.136,-56.1708,-52.5584,-35.3234,0,-29.6038 1/1:171:0,166,3:0:0:166,3:5876,108:-528.252,-49.971,0,-519.439,-41.1578,-518.536 1/2:94:0,53,41:0:0:53,41:1833,1468:-268.893,-120.074,-104.119,-149.171,0,-136.829 1/1:169:0,169,0:0:0:169,0:5972,0:-537.216,-50.8741,0,-537.216,-50.8741,-537.216 1/1:121:0,120,1:0:0:120,1:4274,36:-384.233,-36.1236,0,-381.296,-32.8264,-380.995 1/1:151:0,150,0:0:0:150,0:5313,0:-477.763,-45.1545,0,-477.763,-45.1545,-477.763 1/2:45:0,29,16:0:0:29,16:1038,576:-131.988,-47.3585,-38.6286,-84.9882,0,-80.1717 1/2:38:0,26,12:0:0:26,12:916,432:-110.154,-35.6088,-27.7821,-74.9026,0,-71.2903 1/1:124:0,123,0:0:0:123,0:4356,0:-391.805,-37.0267,0,-391.805,-37.0267,-391.805 1/1:37:0,37,0:0:0:37,0:1305,0:-117.743,-11.1381,0,-117.743,-11.1381,-117.743 chr08 9367358 . C T 9705.95 PASS AB=0.464706;ABP=14.0465;AC=13;AF=0.309524;AN=42;AO=566;CIGAR=1X;DP=1818;DPB=1818;DPRA=1.62881;EPP=1232.06;EPPR=2721.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9894;MQMR=59.9856;NS=21;NUMALT=1;ODDS=0.523919;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20221;QR=44758;RO=1252;RPL=0;RPP=1232.06;RPPR=2721.69;RPR=566;RUN=1;SAF=566;SAP=1232.06;SAR=0;SRF=1252;SRP=2721.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:43,31:43:1532:31:1116:-78.4755,0,-115.895 0/1:6:5,1:5:180:1:32:-1.39313,0,-14.7459 0/1:103:57,46:57:2048:46:1625:-115.531,0,-153.585 0/1:103:61,42:61:2188:42:1500:-104.288,0,-166.18 0/1:231:113,118:113:4032:118:4223:-310.711,0,-293.531 0/0:54:54,0:54:1932:0:0:0,-16.2556,-174.157 0/0:129:127,2:127:4516:2:72:0,-31.9961,-399.764 1/1:87:0,87:0:0:87:3114:-280.487,-26.1896,0 0/1:191:94,97:94:3360:97:3451:-253.305,0,-245.12 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/0:5:5,0:5:172:0:0:0,-1.50515,-15.818 0/1:54:31,23:31:1108:23:824:-58.2277,0,-83.7754 0/0:180:180,0:180:6428:0:0:0,-54.1854,-578.61 0/1:114:60,54:60:2152:54:1936:-140.199,0,-159.63 0/0:111:111,0:111:3980:0:0:0,-33.4143,-358.39 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:53:26,27:26:923:27:964:-71.1176,0,-67.4322 0/1:80:53,27:53:1896:27:968:-63.355,0,-146.836 0/0:155:152,3:152:5444:3:108:0,-36.5845,-480.013 0/0:62:62,0:62:2219:0:0:0,-18.6639,-199.974 chr08 9367379 . A G 33555.5 PASS AB=0.5128;ABP=4.78917;AC=29;AF=0.690476;AN=42;AO=1363;CIGAR=1X;DP=2066;DPB=2066;DPRA=1.12386;EPP=2113.63;EPPR=778.319;GTI=0;LEN=1;MEANALT=1;MQM=59.9853;MQMR=59.9758;NS=21;NUMALT=1;ODDS=2.76382;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48583;QR=25217;RO=703;RPL=1120;RPP=1228.35;RPPR=162.176;RPR=243;RUN=1;SAF=1226;SAP=1892.37;SAR=137;SRF=566;SRP=571.488;SRR=137;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:31,42:31:1116:42:1484:-111.878,0,-78.7765 0/1:6:1,5:1:36:5:175:-14.2872,0,-1.79209 0/1:100:44,56:44:1576:56:1994:-149.63,0,-112.029 0/1:101:42,59:42:1493:59:2103:-159.135,0,-104.259 0/1:227:117,110:117:4208:110:3892:-282.142,0,-310.565 1/1:53:0,53:0:0:53:1896:-170.918,-15.9546,0 1/1:127:2,125:2:72:125:4462:-394.913,-31.3941,0 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.624 0/1:437:235,202:235:8427:202:7215:-517.856,0,-626.863 0/1:12:9,3:9:324:3:108:-6.46281,0,-25.8935 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:53:23,30:23:824:30:1068:-80.4775,0,-58.5287 1/1:177:0,177:0:0:177:6327:-569.522,-53.2823,0 0/1:111:53,58:53:1893:58:2072:-153.336,0,-137.232 1/1:111:0,111:0:0:111:3963:-356.861,-33.4143,0 1/1:25:1,24:1:36:24:856:-73.7628,-3.92748,0 1/1:18:0,18:0:0:18:636:-57.568,-5.41854,0 0/1:51:27,24:27:972:24:835:-60.1121,0,-72.4408 0/1:79:27,52:27:972:52:1859:-143.808,0,-64.0165 1/1:151:3,148:3:108:148:5295:-466.61,-35.3804,0 1/1:61:0,61:0:0:61:2167:-195.296,-18.3628,0 chr08 9367437 . A T,G 42183.7 PASS AB=0.531117,0.468883;ABP=12.8754,12.8754;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1344,646;CIGAR=1X,1X;DP=1990;DPB=1990;DPRA=1.00851,1.04984;EPP=2921.47,1405.78;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.65,1.92857;MQM=59.9137,59.9195;MQMR=0;NS=21;NUMALT=2;ODDS=4.00269;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48068,22978;QR=0;RO=0;RPL=1344,646;RPP=2921.47,1405.78;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2921.47,1405.78;SAR=1344,646;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:101:0,62,39:0:0:62,39:2224,1388:-294.854,-113.45,-94.7865,-181.76,0,-170.02 1/2:7:0,2,5:0:0:2,5:72,180:-20.9217,-15.0469,-14.4449,-6.23466,0,-4.72951 1/2:143:0,66,77:0:0:66,77:2368,2733:-416.187,-223.034,-203.166,-193.51,0,-170.331 1/2:92:0,56,36:0:0:56,36:2008,1284:-268.802,-105.024,-88.1663,-164.136,0,-153.299 1/2:201:0,126,75:0:0:126,75:4509,2651:-583.582,-215.889,-177.959,-368.047,0,-345.47 1/1:60:0,60,0:0:0:60,0:2156,0:-194.307,-18.0618,0,-194.307,-18.0618,-194.307 1/1:169:0,169,0:0:0:169,0:6033,0:-542.318,-50.8741,0,-542.318,-50.8741,-542.318 2/2:94:0,0,94:0:0:0,94:0,3327:-299.65,-299.65,-299.65,-28.2968,-28.2968,0 1/2:249:0,116,133:0:0:116,133:4156,4756:-727.107,-388.161,-353.242,-339.303,0,-299.266 1/2:6:0,5,1:0:0:5,1:180,32:-17.6186,-2.89828,-1.39313,-15.0469,0,-14.7459 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:33:0,13,20:0:0:13,20:464,716:-96.5741,-58.7471,-54.8337,-38.1841,0,-32.1635 1/1:196:0,196,0:0:0:196,0:6996,0:-629.689,-59.0019,0,-629.689,-59.0019,-629.689 1/2:190:0,94,96:0:0:94,96:3356,3404:-551.279,-277.677,-249.38,-273.958,0,-245.059 1/1:152:0,152,0:0:0:152,0:5414,0:-487.385,-45.7566,0,-487.385,-45.7566,-487.385 1/1:20:0,19,1:0:0:19,1:684,36:-61.5305,-5.71957,0,-58.5931,-2.42233,-58.2921 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/2:68:0,27,41:0:0:27,41:968,1467:-198.931,-119.983,-111.855,-79.3056,0,-66.9634 1/2:83:0,56,27:0:0:56,27:2004,968:-242.727,-79.3096,-62.4519,-163.776,0,-155.648 1/1:61:0,60,1:0:0:60,1:2148,36:-193.205,-18.0618,0,-190.268,-14.7646,-189.967 1/1:51:0,51,0:0:0:51,0:1828,0:-164.797,-15.3525,0,-164.797,-15.3525,-164.797 chr08 9369544 . C G 44218 PASS AB=0.496786;ABP=3.24756;AC=29;AF=0.690476;AN=42;AO=2964;CIGAR=1X;DP=4554;DPB=4554;DPRA=0.868145;EPP=6439.25;EPPR=3451.31;GTI=0;LEN=1;MEANALT=1.1;MQM=26.496;MQMR=34.2903;NS=21;NUMALT=1;ODDS=3.43407;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=105512;QR=56590;RO=1588;RPL=1382;RPP=32.3149;RPPR=111.753;RPR=1582;RUN=1;SAF=1382;SAP=32.3149;SAR=1582;SRF=653;SRP=111.753;SRR=935;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:320:139,181:139:4954:181:6494:-260.449,0,-248.951 0/1:229:113,116:113:4047:116:4144:-207.541,0,-150.709 0/1:222:109,113:109:3891:113:4033:-155.74,0,-211.698 0/1:292:158,133:158:5635:133:4718:-224,0,-338.403 0/1:438:230,208:230:8226:208:7408:-305.797,0,-485.427 1/1:213:4,209:4:144:209:7450:-486.645,-55.9532,0 1/1:250:0,250:0:0:250:8886:-591.745,-75.2575,0 0/0:248:248,0:248:8792:0:0:0,-74.6554,-567.575 0/1:391:224,166:224:8015:166:5913:-214.773,0,-314.31 0/1:45:25,20:25:882:20:700:-22.2777,0,-40.6343 1/1:19:0,19:0:0:19:684:-42.293,-5.71957,0 0/1:81:44,37:44:1544:37:1307:-40.4302,0,-62.1459 1/1:187:2,185:2:72:185:6591:-367.614,-50.3581,0 0/1:252:117,135:117:4151:135:4794:-226.868,0,-219.812 1/1:335:0,335:0:0:335:11856:-602.885,-100.845,0 1/1:178:0,178:0:0:178:6363:-394.07,-53.5833,0 1/1:164:2,162:2:72:162:5774:-338.791,-45.0391,0 0/1:245:116,129:116:4138:129:4585:-127.166,0,-188.971 0/1:130:54,76:54:1919:76:2685:-107.878,0,-94.337 1/1:211:3,208:3:108:208:7421:-409.744,-53.4422,0 1/1:104:0,104:0:0:104:3706:-223.535,-31.3071,0 chr08 9369573 . C A 9963.36 PASS AB=0.523777;ABP=10.2387;AC=13;AF=0.309524;AN=42;AO=932;CIGAR=1X;DP=2505;DPB=2505;DPRA=1.44871;EPP=2026.82;EPPR=3418.74;GTI=1;LEN=1;MEANALT=1;MQM=40.9292;MQMR=36.3458;NS=21;NUMALT=1;ODDS=4.13925;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33392;QR=56099;RO=1573;RPL=932;RPP=2026.82;RPPR=3418.74;RPR=0;RUN=1;SAF=0;SAP=2026.82;SAR=932;SRF=0;SRP=3418.74;SRR=1573;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:173:86,87:86:3076:87:3124:-175.569,0,-171.46 0/1:134:69,65:69:2472:65:2319:-85.3603,0,-169.336 0/1:113:54,59:54:1936:59:2120:-127.073,0,-108.544 0/1:243:111,132:111:3923:132:4728:-293.499,0,-212.426 0/1:265:124,141:124:4416:141:5040:-330.505,0,-241.581 0/0:116:115,1:115:4100:1:36:0,-32.6406,-359.683 0/0:139:139,0:139:4968:0:0:0,-41.8432,-431.084 1/1:156:0,156:0:0:156:5595:-377.004,-46.9607,0 0/1:219:80,139:80:2841:139:4970:-198.145,0,-142.187 0/1:19:7,12:7:252:12:432:-20.9648,0,-12.7058 0/0:9:9,0:9:305:0:0:0,-2.70927,-24.7629 0/1:31:12,19:12:432:19:684:-23.4947,0,-22.7887 0/0:103:102,1:102:3656:1:36:0,-27.4078,-255.833 0/1:170:102,68:102:3640:68:2440:-130.492,0,-212.615 0/0:126:126,0:126:4490:0:0:0,-37.9298,-325.109 0/0:121:121,0:121:4344:0:0:0,-36.4246,-315.839 0/0:99:99,0:99:3528:0:0:0,-29.802,-255.938 0/1:44:21,23:21:752:23:828:-50.7055,0,-41.2811 0/1:61:35,26:35:1232:26:932:-51.2229,0,-70.178 0/0:116:113,3:113:4020:3:108:0,-24.8443,-282.146 0/0:48:48,0:48:1716:0:0:0,-14.4494,-145.873 chr08 9369723 . T G 27289.9 PASS AB=0.509452;ABP=3.83127;AC=29;AF=0.690476;AN=42;AO=1351;CIGAR=1X;DP=1952;DPB=1952;DPRA=1.21753;EPP=2936.67;EPPR=1305.89;GTI=0;LEN=1;MEANALT=1.05;MQM=52.7624;MQMR=59.235;NS=21;NUMALT=1;ODDS=10.5208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48171;QR=21258;RO=600;RPL=1351;RPP=2936.67;RPPR=1305.89;RPR=0;RUN=1;SAF=0;SAP=2936.67;SAR=1351;SRF=0;SRP=1305.89;SRR=600;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:56,58:56:1978:58:2080:-150.924,0,-143.956 0/1:111:54,57:54:1913:57:2032:-147.723,0,-139.02 0/1:100:57,43:57:2006:43:1536:-107.536,0,-150.602 0/1:108:55,53:55:1937:53:1892:-137.365,0,-141.921 0/1:209:90,119:90:3193:119:4232:-316.103,0,-224.653 1/1:87:2,84:2:72:84:2949:-254.016,-19.4111,0 1/1:160:0,160:0:0:160:5724:-507.993,-48.1648,0 0/0:77:77,0:77:2710:0:0:0,-23.1793,-244.038 0/1:144:82,62:82:2909:62:2220:-155.807,0,-217.767 0/1:12:4,8:4:140:8:288:-22.6163,0,-9.3275 1/1:6:0,6:0:0:6:212:-19.38,-1.80618,0 0/1:31:12,19:12:424:19:667:-48.6122,0,-29.1599 1/1:52:1,51:1:36:51:1824:-159.844,-12.0553,0 0/1:136:72,64:72:2572:64:2296:-165.137,0,-190.725 1/1:141:0,141:0:0:141:5035:-450.278,-42.4452,0 1/1:86:0,86:0:0:86:3076:-275.437,-25.8886,0 1/1:130:1,129:1:36:129:4624:-411.41,-35.5356,0 0/1:54:22,32:22:792:32:1131:-85.3683,0,-55.1513 0/1:39:15,24:15:540:24:864:-65.8221,0,-37.187 1/1:108:0,108:0:0:108:3801:-339.06,-32.5112,0 1/1:47:0,47:0:0:47:1688:-148.072,-14.1484,0 chr08 9588950 . TAT TAA,GAA 115806 PASS AB=0.495055,0.502198;ABP=3.39687,3.08666;AC=29,13;AF=0.690476,0.309524;AN=42;AO=3111,1126;CIGAR=2M1X,1X1M1X;DP=4250;DPB=4250;DPRA=1.03974,1.14783;EPP=6758.46,2439.41;EPPR=16.0391;GTI=0;LEN=1,3;MEANALT=2.15,2.35294;MQM=59.8962,52.0355;MQMR=58.6667;NS=21;NUMALT=2;ODDS=2.19235;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=111134,39271;QR=176;RO=6;RPL=1513,554;RPP=8.05334,3.63513;RPPR=3.0103;RPR=1598,572;RUN=1,1;SAF=1513,555;SAP=8.05334,3.50399;SAR=1598,571;SRF=3;SRP=3.0103;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:247:0,112,134:0:0:112,134:4016,4629:-699.817,-372.262,-338.547,-327.546,0,-287.208 1/2:195:1,84,110:1:28:84,110:2985,3780:-544.802,-301.857,-278.789,-241.096,0,-210.201 1/2:144:0,63,80:0:0:63,80:2260,2799:-409.984,-225.64,-206.675,-184.34,0,-160.257 1/2:224:0,90,134:0:0:90,134:3203,4657:-635.729,-374.683,-347.591,-261.397,0,-221.058 1/1:506:1,498,6:1:28:498,6:17778,214:-1596.76,-147.704,0,-1579.77,-132.597,-1580.18 1/1:237:1,233,3:1:21:233,3:8293,108:-744.126,-68.5842,0,-736.078,-61.6911,-736.763 1/1:327:3,324,0:3:99:324,0:11557,0:-1030.33,-89.2013,0,-1031.23,-97.5337,-1039.23 2/2:195:0,0,195:0:0:0,195:0,6810:-607.995,-607.995,-607.995,-58.7009,-58.7009,0 1/2:273:0,139,134:0:0:139,134:4981,4721:-790.457,-384.222,-342.379,-406.589,0,-366.251 1/2:38:0,16,22:0:0:16,22:568,767:-108.725,-62.4413,-57.6248,-46.6354,0,-40.0127 1/2:15:0,10,5:0:0:10,5:360,168:-43.2475,-13.856,-10.8457,-29.734,0,-28.2289 1/2:55:0,21,34:0:0:21,34:739,1178:-155.398,-95.2357,-88.9141,-60.5107,0,-50.2757 1/2:257:0,132,125:0:0:132,125:4699,4427:-741.458,-358.491,-318.755,-383.32,0,-345.691 1/1:209:0,206,2:0:0:206,2:7388,72:-664.628,-62.0122,0,-658.753,-56.0774,-658.151 1/1:323:0,321,1:0:0:321,1:11502,36:-1034.74,-96.6306,0,-1032.12,-93.9878,-1031.81 1/1:152:0,152,0:0:0:152,0:5432,0:-489.007,-45.7566,0,-489.007,-45.7566,-489.007 1/1:143:0,143,0:0:0:143,0:5135,0:-462.275,-43.0473,0,-462.275,-43.0473,-462.275 1/2:200:0,112,87:0:0:112,87:4007,3011:-566.884,-240.146,-206.431,-326.731,0,-300.542 1/2:172:0,122,49:0:0:122,49:4361,1725:-494.4,-138.815,-102.089,-355.605,0,-340.855 1/1:237:0,232,5:0:0:232,5:8295,169:-746.217,-69.839,0,-732.688,-55.975,-731.183 1/1:101:0,101,0:0:0:101,0:3575,0:-321.95,-30.404,0,-321.95,-30.404,-321.95 chr08 9588990 . G A 11549.9 PASS AB=0.551142;ABP=25.8873;AC=13;AF=0.309524;AN=42;AO=666;CIGAR=1X;DP=2299;DPB=2299;DPRA=0.909972;EPP=1449.21;EPPR=3549.02;GTI=0;LEN=1;MEANALT=1;MQM=45.5691;MQMR=59.7777;NS=21;NUMALT=1;ODDS=10.5364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23769;QR=58299;RO=1633;RPL=666;RPP=1449.21;RPPR=3549.02;RPR=0;RUN=1;SAF=0;SAP=1449.21;SAR=666;SRF=0;SRP=3549.02;SRR=1633;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:50,75:50:1792:75:2664:-197.93,0,-123.928 0/1:116:49,67:49:1764:67:2396:-177.205,0,-124.121 0/1:57:15,42:15:540:42:1492:-115.662,0,-31.7778 0/1:151:56,95:56:2000:95:3400:-255.486,0,-134.811 0/0:257:253,4:253:9016:4:136:0,-64.9099,-798.96 0/0:132:130,2:130:4651:2:72:0,-33.3878,-412.287 0/0:177:177,0:177:6301:0:0:0,-53.2823,-567.088 1/1:100:0,100:0:0:100:3561:-315.352,-30.103,0 0/1:152:57,95:57:2035:95:3392:-258.393,0,-137.662 0/1:19:11,8:11:392:8:284:-19.8472,0,-29.9005 0/1:8:4,4:4:144:4:144:-10.7586,0,-10.9054 0/1:33:16,17:16:563:17:612:-44.3038,0,-41.0652 0/1:127:63,64:63:2240:64:2284:-163.937,0,-163.624 0/0:112:112,0:112:4008:0:0:0,-33.7154,-360.904 0/0:183:183,0:183:6514:0:0:0,-55.0885,-586.333 0/0:75:75,0:75:2692:0:0:0,-22.5772,-242.516 0/0:99:99,0:99:3527:0:0:0,-29.802,-317.523 0/1:130:66,64:66:2368:64:2300:-162.767,0,-174.232 0/1:89:65,24:65:2312:24:860:-49.2046,0,-181.547 0/0:101:96,5:96:3432:5:172:0,-14.7612,-293.442 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.985 chr08 9635298 . 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G C,T 37044 PASS AB=0.370848,0.267424;ABP=722.647,1533.26;AC=14,8;AF=0.333333,0.190476;AN=42;AO=1842,871;CIGAR=1X,1X;DP=4967;DPB=4967;DPRA=0,0;EPP=4002.86,1894.36;EPPR=4893.17;GTI=1;LEN=1,1;MEANALT=1.7619,2.07143;MQM=59.962,59.9495;MQMR=59.9663;NS=21;NUMALT=2;ODDS=13.5964;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65816,31082;QR=80046;RO=2252;RPL=0,0;RPP=4002.86,1894.36;RPPR=4893.17;RPR=1842,871;RUN=1,1;SAF=1842,871;SAP=4002.86,1894.36;SAR=0,0;SRF=2252;SRP=4893.17;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:242:87,81,74:87:3067:81,74:2904,2649:-210.664,0,-225.328,-20.8352,-33.6901,-248.27 0/2:253:115,67,71:115:4113:67,71:2393,2548:-173.221,-12.749,-327.957,0,-140.287,-314.004 0/2:308:117,75,115:117:4174:75,115:2669,4111:-299.978,-117.677,-435.362,0,-122.742,-305.645 0/2:306:160,68,78:160:5653:68,78:2429,2777:-178.168,-28.2958,-468.196,0,-262.331,-436.889 0/1:363:151,212,0:151:5383:212,0:7579,0:-572.872,0,-375.285,-618.327,-439.103,-1057.07 0/1:215:71,144,0:71:2537:144,0:5142,0:-398.2,0,-163.858,-419.573,-207.206,-626.422 0/1:411:204,206,1:204:7188:206,1:7317,36:-534.795,0,-523.194,-593.268,-582.268,-1178.18 0/2:398:144,1,253:144:5112:1,253:36,8997:-689.813,-730.224,-1146.44,0,-413.575,-340.351 0/2:450:228,89,133:228:8162:89,133:3177,4757:-319.229,-128.948,-767.754,0,-406.682,-625.562 0/1:23:6,14,3:6:216:14,3:504,104:-39.3286,0,-13.419,-32.684,-9.18462,-49.4054 0/2:11:3,3,5:3:108:3,5:108,176:-13.4199,-5.50779,-13.4199,0,-5.21153e-08,-7.3071 1/2:80:24,31,25:24:860:31,25:1104,900:-86.054,-3.29815,-64.1044,-19.8416,0,-82.4558 0/2:237:122,54,61:122:4342:54,61:1932,2180:-141.018,-20.2001,-357.816,0,-196.327,-335.508 0/1:290:134,156,0:134:4724:156,0:5579,0:-414.935,0,-337.934,-455.273,-384.895,-839.813 0/1:370:200,170,0:200:7098:170,0:6090,0:-436.817,0,-527.495,-497.023,-578.67,-1075.34 0/1:177:61,116,0:61:2196:116,0:4144,0:-319.862,0,-144.623,-338.225,-179.542,-517.408 0/1:163:65,97,0:65:2283:97,0:3472,0:-263.565,0,-156.601,-283.132,-185.8,-468.939 0/1:193:106,52,35:106:3774:52,35:1864,1252:-120.119,0,-291.937,-49.9368,-205.499,-346.991 0/1:165:99,52,14:99:3533:52,14:1864,492:-122.231,0,-272.371,-111.989,-247.979,-395.793 0/1:180:91,86,3:91:3268:86,3:3080,103:-223.785,0,-240.714,-242.816,-258.239,-508.5 0/1:132:64,68,0:64:2255:68,0:2429,0:-179.128,0,-163.472,-198.394,-183.942,-381.982 chr08 9635318 . T G 36529.4 PASS AB=0.452703;ABP=97.9095;AC=21;AF=0.5;AN=42;AO=2211;CIGAR=1X;DP=4884;DPB=4884;DPRA=0;EPP=4743.53;EPPR=5705.69;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9738;MQMR=59.9607;NS=21;NUMALT=1;ODDS=13.953;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78966;QR=95470;RO=2670;RPL=7;RPP=4743.53;RPPR=5705.69;RPR=2204;RUN=1;SAF=2211;SAP=4804.14;SAR=0;SRF=2670;SRP=5800.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:240:154,86:154:5480:86:3063:-203.651,0,-421.079 0/1:251:137,114:137:4924:114:4070:-290.928,0,-367.741 0/1:300:185,115:185:6631:115:4091:-278.065,0,-506.558 0/1:296:140,156:140:4997:156:5596:-414.656,0,-360.773 0/1:357:209,148:209:7480:148:5278:-367.603,0,-565.771 0/1:214:143,71:143:5128:71:2529:-163.436,0,-397.241 0/1:403:201,202:201:7195:202:7230:-529.434,0,-526.281 0/1:390:248,142:248:8869:142:5057:-337.871,0,-680.783 0/1:442:220,220:220:7873:220:7876:-576.051,0,-575.384 0/1:21:16,5:16:576:5:180:-10.2304,0,-45.8534 0/1:11:8,3:8:276:3:108:-6.76384,0,-21.8639 0/1:77:54,23:54:1936:23:824:-51.304,0,-151.337 0/1:234:114,120:114:4067:120:4296:-316.376,0,-295.774 0/1:286:151,135:151:5383:135:4752:-341.735,0,-398.509 0/1:360:166,194:166:5960:194:6943:-516.565,0,-428.131 0/1:177:116,61:116:4140:61:2180:-143.184,0,-319.5 0/1:161:97,64:97:3449:64:2271:-156.183,0,-262.157 0/1:191:87,104:87:3123:104:3727:-278.133,0,-223.798 0/1:165:67,97:67:2391:97:3488:-264.401,0,-165.718 0/1:180:90,90:90:3193:90:3217:-235.566,0,-233.39 0/1:128:67,61:67:2399:61:2190:-158.834,0,-177.634 chr08 9656628 . 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A G 25406.6 PASS AB=0.51897;ABP=5.31712;AC=29;AF=0.690476;AN=42;AO=1207;CIGAR=1X;DP=1624;DPB=1624;DPRA=1.30333;EPP=2623.98;EPPR=902;GTI=1;LEN=1;MEANALT=1.15;MQM=59.9577;MQMR=59.9082;NS=21;NUMALT=1;ODDS=3.93471;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43079;QR=14853;RO=414;RPL=0;RPP=2623.98;RPPR=902;RPR=1207;RUN=1;SAF=1207;SAP=2623.98;SAR=0;SRF=414;SRP=902;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:39,53:39:1404:53:1893:-142.617,0,-98.6436 0/1:74:36,37:36:1292:37:1328:-97.4175,0,-94.2488 0/1:76:36,40:36:1296:40:1436:-106.659,0,-94.0657 0/1:55:34,21:34:1220:21:741:-50.4549,0,-93.5502 1/1:182:0,182:0:0:182:6479:-583.194,-54.7875,0 1/1:57:1,56:1:36:56:1997:-176.404,-13.5604,0 1/1:143:0,143:0:0:143:5094:-458.602,-43.0473,0 0/0:60:60,0:60:2133:0:0:0,-18.0618,-192.236 0/1:111:64,47:64:2300:47:1680:-118.073,0,-172.571 0/1:14:4,10:4:144:10:360:-28.5299,0,-9.0992 0/1:13:10,3:10:360:3:104:-5.78942,0,-28.8309 0/1:15:3,12:3:108:12:432:-34.7057,0,-5.55972 0/1:92:54,38:54:1940:38:1364:-95.366,0,-147.181 1/1:89:0,89:0:0:89:3185:-286.872,-26.7917,0 1/1:109:0,109:0:0:109:3878:-349.213,-32.8123,0 1/1:69:0,68:0:0:68:2436:-219.135,-20.47,0 1/1:66:0,66:0:0:66:2360:-212.659,-19.868,0 0/1:135:59,76:59:2116:76:2713:-203.773,0,-150.07 0/1:60:14,46:14:504:46:1637:-129.555,0,-27.6363 1/1:69:0,69:0:0:69:2454:-221.111,-20.7711,0 1/1:42:0,42:0:0:42:1508:-135.986,-12.6433,0 chr08 10222597 . CACG GACG,GACA 36116.4 PASS AB=0.596131,0.401451;ABP=69.3912,72.7731;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1267,426;CIGAR=1X3M,1X2M1X;DP=1701;DPB=1701;DPRA=0.854787,0.885577;EPP=2754.27,928.058;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.95,2.08333;MQM=59.9842,59.8451;MQMR=0;NS=21;NUMALT=2;ODDS=0.730254;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45300,14861;QR=0;RO=0;RPL=0,0;RPP=2754.27,928.058;RPPR=0;RPR=1267,426;RUN=1,1;SAF=1267,426;SAP=2754.27,928.058;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,56,42:0:0:56,42:2004,1462:-282.654,-119.23,-102.372,-163.776,0,-151.133 1/2:72:0,34,38:0:0:34,38:1224,1345:-209.786,-109.911,-99.6764,-100.232,0,-88.7929 1/2:80:0,47,33:0:0:47,33:1684,1146:-230.839,-93.4917,-79.3433,-137.699,0,-127.765 1/2:100:0,59,41:0:0:59,41:2120,1443:-290.775,-117.822,-100.061,-173.308,0,-160.965 1/1:174:0,174,0:0:0:174,0:6221,0:-559.985,-52.3792,0,-559.985,-52.3792,-559.985 1/1:50:0,50,0:0:0:50,0:1781,0:-160.571,-15.0515,0,-160.571,-15.0515,-160.571 1/1:91:0,90,0:0:0:90,0:3190,0:-287.041,-27.0927,0,-287.041,-27.0927,-287.041 2/2:94:0,0,94:0:0:0,94:0,3256:-293.142,-293.142,-293.142,-28.2968,-28.2968,0 1/2:72:0,40,32:0:0:40,32:1413,1117:-206.277,-91.204,-79.1628,-115.424,0,-105.791 1/2:19:0,7,12:0:0:7,12:252,415:-54.6358,-34.0687,-31.9615,-20.9217,0,-17.3094 1/2:9:0,6,3:0:0:6,3:216,108:-26.7966,-9.17208,-7.3659,-17.9843,0,-17.0812 1/2:46:0,30,16:0:0:30,16:1076,553:-133.05,-45.2784,-36.2475,-88.122,0,-83.3055 1/2:78:0,48,30:0:0:48,30:1724,1028:-224.441,-83.7936,-69.3441,-140.996,0,-131.965 1/1:88:0,87,0:0:0:87,0:3115,0:-280.325,-26.1896,0,-280.325,-26.1896,-280.325 1/1:142:0,140,0:0:0:140,0:5016,0:-451.264,-42.1442,0,-451.264,-42.1442,-451.264 1/1:61:0,61,0:0:0:61,0:2188,0:-197.186,-18.3628,0,-197.186,-18.3628,-197.186 1/1:57:0,57,0:0:0:57,0:2040,0:-183.872,-17.1587,0,-183.872,-17.1587,-183.872 1/2:119:0,73,45:0:0:73,45:2600,1572:-339.785,-127.863,-105.888,-211.914,0,-198.368 1/2:134:0,93,40:0:0:93,40:3312,1416:-385.228,-115.337,-87.341,-269.886,0,-257.844 1/1:72:0,70,0:0:0:70,0:2512,0:-226.025,-21.0721,0,-226.025,-21.0721,-226.025 1/1:45:0,45,0:0:0:45,0:1612,0:-145.37,-13.5464,0,-145.37,-13.5464,-145.37 chr08 10222669 . A G 37450.2 PASS AB=0.548355;ABP=23.3806;AC=29;AF=0.690476;AN=42;AO=1649;CIGAR=1X;DP=2254;DPB=2254;DPRA=0.755;EPP=2321.88;EPPR=971.976;GTI=1;LEN=1;MEANALT=1.3;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.40272;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56925;QR=21207;RO=599;RPL=161;RPP=2321.88;RPPR=971.976;RPR=1488;RUN=1;SAF=0;SAP=3583.77;SAR=1649;SRF=0;SRP=1303.72;SRR=599;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:25,55:25:883:55:1902:-147.373,0,-55.7051 0/1:101:44,56:44:1584:56:1934:-143.872,0,-112.389 0/1:158:82,76:82:2914:76:2607:-187.316,0,-214.933 0/1:122:58,64:58:2047:64:2165:-158.388,0,-147.773 1/1:206:1,204:1:36:204:7057:-631.614,-58.4727,0 1/1:71:0,71:0:0:71:2434:-219.314,-21.3731,0 1/1:184:2,182:2:72:182:6284:-558.834,-48.5528,0 0/0:140:140,0:140:4919:0:0:0,-42.1442,-442.863 0/1:202:81,120:81:2869:120:4188:-316.239,0,-197.58 0/1:13:9,4:9:324:4:144:-9.40023,0,-25.5925 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:26:14,12:14:496:12:424:-30.6696,0,-37.1475 0/1:111:51,60:51:1814:60:2080:-154.055,0,-130.126 1/1:174:0,174:0:0:174:5999:-540.034,-52.3792,0 1/1:131:1,129:1:36:129:4416:-394.043,-35.8755,0 1/1:79:0,79:0:0:79:2748:-247.561,-23.7814,0 1/1:78:0,77:0:0:77:2683:-241.356,-23.1793,0 0/1:119:65,54:65:2294:54:1867:-132.483,0,-170.896 0/1:64:20,44:20:703:44:1530:-118.724,0,-44.3276 1/1:139:4,134:4:144:134:4590:-399.965,-28.5884,0 1/1:49:0,49:0:0:49:1693:-152.651,-14.7505,0 chr08 10307674 . C G 10061.5 PASS AB=0.568675;ABP=20.0106;AC=32;AF=0.761905;AN=42;AO=707;CIGAR=1X;DP=929;DPB=929;DPRA=1.05595;EPP=1529.57;EPPR=485.077;GTI=2;LEN=1;MEANALT=1;MQM=28.8218;MQMR=30.0315;NS=21;NUMALT=1;ODDS=0.244239;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25307;QR=7932;RO=222;RPL=706;RPP=1529.57;RPPR=485.077;RPR=1;RUN=1;SAF=0;SAP=1538.24;SAR=707;SRF=0;SRP=485.077;SRR=222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:45:0,45:0:0:45:1592:-114.295,-13.5464,0 1/1:25:0,25:0:0:25:900:-63.6744,-7.52575,0 1/1:50:0,50:0:0:50:1788:-126.291,-15.0515,0 0/1:38:6,32:6:197:32:1152:-69.5461,0,-3.63789 0/1:125:50,75:50:1792:75:2687:-151.903,0,-92.71 1/1:49:0,49:0:0:49:1761:-123.623,-14.7505,0 0/1:52:25,27:25:900:27:968:-52.7811,0,-50.9294 0/0:42:42,0:42:1504:0:0:0,-12.6433,-108.888 0/1:84:42,42:42:1496:42:1504:-78.1969,0,-84.481 0/1:8:7,1:7:252:1:36:-0.412841,0,-16.0914 1/1:6:0,6:0:0:6:212:-15.4854,-1.80618,0 1/1:10:0,10:0:0:10:360:-25.5149,-3.0103,0 1/1:43:0,43:0:0:43:1548:-109.302,-12.9443,0 0/1:36:16,20:16:576:20:716:-39.851,0,-29.7719 1/1:74:0,74:0:0:74:2664:-186.767,-22.2762,0 1/1:34:0,34:0:0:34:1220:-83.6905,-10.235,0 1/1:36:0,36:0:0:36:1288:-88.7769,-10.8371,0 0/1:39:23,16:23:828:16:576:-29.1655,0,-48.634 0/1:33:10,23:10:351:23:828:-48.4325,0,-16.1364 1/1:64:1,63:1:36:63:2247:-156.534,-16.3632,0 1/1:36:0,36:0:0:36:1260:-89.9785,-10.8371,0 chr08 10396696 . T C 13856.9 PASS AB=0.525164;ABP=5.52389;AC=29;AF=0.690476;AN=42;AO=662;CIGAR=1X;DP=933;DPB=933;DPRA=0.847115;EPP=1380.37;EPPR=582.825;GTI=1;LEN=1;MEANALT=1;MQM=59.8852;MQMR=59.8819;NS=21;NUMALT=1;ODDS=1.3427;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23510;QR=9569;RO=271;RPL=662;RPP=1440.53;RPPR=582.825;RPR=0;RUN=1;SAF=7;SAP=1380.37;SAR=655;SRF=0;SRP=591.479;SRR=271;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:36,16:36:1269:16:576:-36.5214,0,-98.8549 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:56:23,33:23:801:33:1188:-90.3709,0,-55.549 0/1:44:28,16:28:977:16:572:-38.5681,0,-74.724 1/1:72:0,72:0:0:72:2529:-227.8,-21.6742,0 1/1:23:0,23:0:0:23:812:-73.4009,-6.92369,0 1/1:56:1,55:1:36:55:1968:-173.797,-13.2594,0 0/0:52:52,0:52:1832:0:0:0,-15.6536,-165.161 0/1:87:30,57:30:1053:57:2023:-156.153,0,-68.889 0/1:13:2,11:2:72:11:372:-29.8903,0,-2.92333 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:21:11,10:11:392:10:360:-26.4227,0,-29.2984 0/1:48:22,26:22:773:26:917:-68.3952,0,-55.44 1/1:74:1,73:1:36:73:2591:-229.747,-18.6779,0 1/1:113:0,113:0:0:113:3990:-359.284,-34.0164,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:87:52,35:52:1860:35:1248:-86.4353,0,-141.49 0/1:36:7,29:7:252:29:1036:-82.7168,0,-12.1919 1/1:35:0,35:0:0:35:1252:-112.985,-10.5361,0 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 chr08 10610766 . T G 21478.6 PASS AB=0.548501;ABP=14.5953;AC=30;AF=0.714286;AN=42;AO=1012;CIGAR=1X;DP=1325;DPB=1325;DPRA=1.17685;EPP=2174.56;EPPR=682.681;GTI=1;LEN=1;MEANALT=1;MQM=59.9713;MQMR=60;NS=21;NUMALT=1;ODDS=0.740141;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36020;QR=11105;RO=313;RPL=1011;RPP=2191.86;RPPR=682.681;RPR=1;RUN=1;SAF=1010;SAP=2183.2;SAR=2;SRF=313;SRP=682.681;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:12,24:12:417:24:860:-66.8848,0,-27.0231 0/1:37:17,20:17:612:20:716:-53.6296,0,-44.2753 0/1:71:30,41:30:1072:41:1441:-108.612,0,-75.4193 0/1:36:21,15:21:748:15:536:-37.7377,0,-56.8082 1/1:185:0,185:0:0:185:6593:-593.452,-55.6906,0 1/1:52:0,52:0:0:52:1837:-165.608,-15.6536,0 1/1:97:0,97:0:0:97:3460:-311.613,-29.1999,0 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 0/1:73:44,29:44:1556:29:1040:-71.9392,0,-118.354 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:7:3,4:3:104:4:135:-10.3753,0,-7.5956 0/1:54:22,32:22:792:32:1135:-86.2024,0,-55.3501 1/1:52:1,51:1:36:51:1809:-159.492,-12.0553,0 1/1:103:0,103:0:0:103:3688:-332.123,-31.0061,0 1/1:48:0,48:0:0:48:1711:-154.275,-14.4494,0 1/1:43:0,43:0:0:43:1528:-137.813,-12.9443,0 0/1:180:85,95:85:2986:95:3367:-249.006,0,-214.787 0/1:68:20,48:20:707:48:1707:-133.445,0,-43.4845 1/1:65:2,63:2:63:63:2247:-196.51,-13.5838,0 1/1:54:0,54:0:0:54:1922:-173.256,-16.2556,0 chr08 10610807 . GGG AGA,AGG 35836.9 PASS AB=0.567568,0.427518;ABP=35.2889,40.1547;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1320,386;CIGAR=1X1M1X,1X2M;DP=1714;DPB=1714;DPRA=2.33056,0.893496;EPP=2869.35,841.199;EPPR=5.18177;GTI=1;LEN=3,1;MEANALT=2,2.21429;MQM=59.9894,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.24215;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46236,13794;QR=36;RO=1;RPL=0,0;RPP=2869.35,841.199;RPPR=5.18177;RPR=1320,386;RUN=1,1;SAF=0,0;SAP=2869.35,841.199;SAR=1320,386;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:112:0,53,59:0:0:53,59:1835,2116:-322.07,-172.948,-156.993,-149.474,0,-131.713 1/2:111:0,58,52:0:0:58,52:2027,1838:-314.596,-149.705,-132.246,-164.902,0,-149.248 1/2:54:0,32,22:0:0:32,22:1114,783:-154.751,-64.1703,-54.5373,-90.9331,0,-84.3104 1/2:114:0,87,26:0:0:87,26:3035,928:-322.489,-75.6518,-49.4622,-246.833,0,-239.006 1/1:181:0,180,1:0:0:180,1:6293,36:-566.116,-54.1854,0,-563.179,-50.8882,-562.878 1/1:70:0,70,0:0:0:70,0:2495,0:-224.802,-21.0721,0,-224.802,-21.0721,-224.802 1/1:96:0,96,0:0:0:96,0:3369,0:-303.427,-28.8989,0,-303.427,-28.8989,-303.427 2/2:36:0,0,36:0:0:0,36:0,1284:-115.863,-115.863,-115.863,-10.8371,-10.8371,0 1/2:122:1,67,53:1:36:67,53:2357,1896:-343.27,-151.705,-134.473,-188.962,0,-175.945 1/2:8:0,2,6:0:0:2,6:69,216:-23.5862,-17.9843,-17.3823,-5.95048,0,-4.1443 1/2:5:0,4,1:0:0:4,1:133,36:-14.0364,-3.29724,-2.09312,-11.0935,0,-10.7924 1/2:12:0,4,8:0:0:4,8:142,288:-35.4277,-23.8592,-22.655,-11.9251,0,-9.51685 1/2:106:0,61,45:0:0:61,45:2155,1613:-307.412,-131.914,-113.551,-175.854,0,-162.308 1/1:111:0,110,0:0:0:110,0:3832,0:-344.85,-33.1133,0,-344.85,-33.1133,-344.85 1/1:82:0,82,0:0:0:82,0:2872,0:-258.718,-24.6845,0,-258.718,-24.6845,-258.718 1/1:78:0,77,0:0:0:77,0:2658,0:-239.184,-23.1793,0,-239.184,-23.1793,-239.184 1/1:101:0,100,0:0:0:100,0:3517,0:-316.383,-30.103,0,-316.383,-30.103,-316.383 1/2:67:0,33,34:0:0:33,34:1155,1220:-193.839,-99.8718,-89.9378,-94.3215,0,-84.0864 1/2:103:0,61,42:0:0:61,42:2143,1504:-297.428,-123.011,-104.648,-174.771,0,-162.128 1/1:68:0,66,1:0:0:66,1:2316,36:-208.339,-19.868,0,-205.402,-16.9306,-205.101 1/1:77:0,77,0:0:0:77,0:2719,0:-244.953,-23.1793,0,-244.953,-23.1793,-244.953 chr08 11044102 . TGGA AGGG,TGGG 20751.7 PASS AB=0.533605,0.462322;ABP=7.82646,9.06477;AC=30,12;AF=0.714286,0.285714;AN=42;AO=737,259;CIGAR=1X2M1X,3M1X;DP=999;DPB=999;DPRA=2.03125,1.30769;EPP=1577.43,556.769;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.85,2.06667;MQM=49.7626,59.4093;MQMR=0;NS=21;NUMALT=2;ODDS=1.8596;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25819,9198;QR=0;RO=0;RPL=3,1;RPP=1577.43,556.769;RPPR=0;RPR=734,258;RUN=1,1;SAF=0,0;SAP=1603.39,565.422;SAR=737,259;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,29,21:0:0:29,21:1012,748:-143.275,-61.3043,-52.5745,-82.3234,0,-76.0018 1/2:50:0,24,26:0:0:24,26:843,936:-144.366,-76.7327,-69.508,-67.986,0,-60.1592 1/2:36:0,15,21:0:0:15,21:532,721:-102.042,-58.8803,-54.3648,-43.5103,0,-37.1887 1/2:87:0,51,36:0:0:51,36:1792,1284:-250.096,-104.862,-89.5097,-145.588,0,-134.75 1/1:73:0,71,2:0:0:71,2:2467,68:-221.123,-21.3731,0,-215.613,-15.5233,-215.011 1/1:59:0,59,0:0:0:59,0:2070,0:-185.865,-17.7608,0,-185.865,-17.7608,-185.865 1/1:66:0,64,2:0:0:64,2:2243,72:-201.011,-19.2659,0,-195.136,-13.0313,-194.534 2/2:24:0,0,24:0:0:0,24:0,860:-77.7218,-77.7218,-77.7218,-7.22472,-7.22472,0 1/2:66:0,33,32:0:0:33,32:1158,1136:-186.298,-92.4533,-82.5193,-93.8478,0,-84.2149 1/2:4:0,2,1:0:0:2,1:71,36:-8.6959,-2.93818,-2.33612,-5.7573,0,-5.45627 1/1:8:0,8,0:0:0:8,0:288,0:-26.1563,-2.40824,0,-26.1563,-2.40824,-26.1563 1/2:13:0,8,5:0:0:8,5:285,176:-37.81,-14.6799,-12.2716,-23.483,0,-21.9779 1/2:53:0,24,29:0:0:24,29:846,1027:-152.027,-83.9986,-76.7738,-68.3797,0,-59.6498 1/1:37:0,37,0:0:0:37,0:1292,0:-115.881,-11.1381,0,-115.881,-11.1381,-115.881 1/1:58:0,57,0:0:0:57,0:2005,0:-179.754,-17.1587,0,-179.754,-17.1587,-179.754 1/1:51:0,50,1:0:0:50,1:1739,36:-155.857,-15.0515,0,-152.919,-11.7543,-152.618 1/1:32:0,32,0:0:0:32,0:1121,0:-100.814,-9.63296,0,-100.814,-9.63296,-100.814 1/2:79:0,41,38:0:0:41,38:1451,1351:-228.09,-110.423,-98.0807,-118.021,0,-106.582 1/2:53:0,35,18:0:0:35,18:1216,639:-150.108,-52.4197,-41.8837,-98.0393,0,-92.6208 1/1:60:0,57,3:0:0:57,3:1986,108:-175.775,-17.1587,0,-166.962,-7.98663,-166.059 1/1:40:0,40,0:0:0:40,0:1402,0:-125.986,-12.0412,0,-125.986,-12.0412,-125.986 chr08 11060383 . G A 7940.73 PASS AB=0.517241;ABP=6.15519;AC=31;AF=0.738095;AN=42;AO=2417;CIGAR=1X;DP=3146;DPB=3146;DPRA=1.13271;EPP=5242.78;EPPR=1573;GTI=5;LEN=1;MEANALT=1.1;MQM=15.518;MQMR=59.9821;NS=21;NUMALT=1;ODDS=7.6034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=86109;QR=25892;RO=727;RPL=2416;RPP=5242.78;RPPR=1573;RPR=1;RUN=1;SAF=2417;SAP=5251.46;SAR=0;SRF=727;SRP=1581.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:0,130:0:0:130:4637:-177.503,-39.1339,0 1/1:139:0,139:0:0:139:4941:-192.083,-41.8432,0 0/1:194:82,112:82:2901:112:3992:-92.124,0,-202.924 1/1:197:0,197:0:0:197:7048:-275.445,-59.3029,0 0/1:294:167,127:167:5973:127:4506:-85.8257,0,-449.161 1/1:127:1,125:1:36:125:4464:-168.471,-34.6913,0 1/1:277:4,273:4:129:273:9693:-364.469,-71.4576,0 0/0:133:133,0:133:4721:0:0:0,-40.037,-425.049 1/1:299:0,299:0:0:299:10667:-412.562,-90.008,0 1/1:16:0,16:0:0:16:553:-22.1315,-4.81648,0 0/1:7:1,6:1:36:6:208:-6.11535,0,-1.49106 0/1:41:24,17:24:856:17:604:-10.6075,0,-65.0189 0/1:235:127,107:127:4536:107:3832:-74.7534,0,-337.753 0/1:195:91,104:91:3241:104:3728:-85.1255,0,-233.21 1/1:242:0,242:0:0:242:8651:-329.496,-72.8493,0 1/1:119:0,119:0:0:119:4240:-162.034,-35.8226,0 0/1:85:32,53:32:1148:53:1862:-48.799,0,-78.0423 0/1:64:31,33:31:1103:33:1177:-25.9718,0,-80.3139 0/1:103:32,71:32:1140:71:2536:-68.1594,0,-71.9031 1/1:196:2,194:2:72:194:6881:-257.993,-52.1652,0 1/1:53:0,53:0:0:53:1889:-71.454,-15.9546,0 chr08 11592519 . T G 14626.1 PASS AB=0.294327;ABP=1550.97;AC=20;AF=0.47619;AN=42;AO=1241;CIGAR=1X;DP=4226;DPB=4226;DPRA=0;EPP=2697.81;EPPR=6480.51;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.8662;MQMR=59.8498;NS=21;NUMALT=1;ODDS=6.32896;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44410;QR=106884;RO=2983;RPL=0;RPP=2697.81;RPPR=6480.51;RPR=1241;RUN=1;SAF=1241;SAP=2697.81;SAR=0;SRF=2983;SRP=6480.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:232:182,50:182:6519:50:1796:-92.083,0,-516.902 0/1:199:149,50:149:5347:50:1784:-100.93,0,-421.309 0/1:252:193,59:193:6893:59:2118:-115.029,0,-544.53 0/1:164:118,46:118:4217:46:1656:-99.9595,0,-330.339 0/1:277:220,57:220:7876:57:2048:-101.202,0,-625.423 0/1:183:124,59:124:4443:59:2116:-135.616,0,-344.947 0/1:441:333,108:333:11935:108:3864:-215.194,0,-941.214 0/1:251:168,82:168:6013:82:2944:-189.663,0,-465.733 0/1:313:141,172:141:5068:172:6140:-458.449,0,-362.034 0/1:54:29,25:29:1044:25:900:-65.0572,0,-78.0192 0/0:13:12,1:12:432:1:36:0,-0.315115,-35.6229 0/1:84:55,29:55:1980:29:1044:-68.9867,0,-153.188 0/1:83:64,19:64:2288:19:676:-36.1825,0,-181.129 0/1:207:154,53:154:5532:53:1908:-109.684,0,-435.369 0/1:418:298,120:298:10686:120:4281:-259.57,0,-835.565 0/1:138:109,29:109:3885:29:1036:-52.0118,0,-308.3 0/1:271:195,75:195:6983:75:2686:-160.318,0,-546.864 0/1:328:256,72:256:9179:72:2560:-131.902,0,-727.311 0/1:112:81,31:81:2900:31:1116:-67.0363,0,-227.508 0/1:112:55,57:55:1976:57:2029:-149.164,0,-144.382 0/1:94:47,47:47:1688:47:1672:-122.466,0,-123.896 chr08 11592539 . AG AC,CC 85730.7 PASS AB=0.718904,0.27589;ABP=1522.21,1595.32;AC=25,17;AF=0.595238,0.404762;AN=42;AO=3208,1008;CIGAR=1M1X,2X;DP=4235;DPB=4235;DPRA=0,1.33192;EPP=6728.01,2131.48;EPPR=0;GTI=3;LEN=1,2;MEANALT=2.52381,2.77778;MQM=59.9055,59.748;MQMR=0;NS=21;NUMALT=2;ODDS=22.0465;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=114242,34538;QR=0;RO=0;RPL=3180,1001;RPP=6728.01,2131.48;RPPR=0;RPR=28,7;RUN=1,1;SAF=3208,1008;SAP=6969.09,2191.85;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:231:0,158,72:0:0:158,72:5626,2484:-660.317,-201.768,-154.205,-458.538,0,-436.864 1/2:190:0,142,47:0:0:142,47:5087,1615:-545.992,-131.119,-88.3726,-414.86,0,-400.712 1/2:251:0,162,85:0:0:162,85:5776,2959:-711.421,-240.583,-191.816,-470.854,0,-445.266 1/2:163:0,124,38:0:0:124,38:4398,1274:-461.557,-103.229,-65.9009,-358.387,0,-346.948 1/2:276:0,200,75:0:0:200,75:7125,2548:-787.521,-206.787,-146.581,-580.875,0,-558.298 1/2:181:0,113,68:0:0:113,68:4024,2345:-518.812,-190.831,-156.815,-328.33,0,-307.86 1/2:449:0,300,147:0:0:300,147:10709,4977:-1276.55,-403.508,-313.199,-873.064,0,-828.812 1/2:256:0,201,54:0:0:201,54:7119,1839:-728.978,-149.061,-88.5541,-579.901,0,-563.645 1/1:318:0,318,0:0:0:318,0:11329,0:-1019.46,-95.7275,0,-1019.46,-95.7275,-1019.46 1/1:55:0,55,0:0:0:55,0:1959,0:-176.585,-16.5567,0,-176.585,-16.5567,-176.585 1/2:13:0,10,3:0:0:10,3:360,108:-38.5463,-9.17208,-6.16178,-29.734,0,-28.8309 1/2:87:0,71,16:0:0:71,16:2536,539:-250.788,-44.0112,-22.6381,-207.117,0,-202.3 1/2:81:0,58,23:0:0:58,23:2070,779:-232.26,-63.4963,-46.0365,-169.107,0,-162.184 1/2:211:0,152,58:0:0:152,58:5381,1920:-593.559,-155.25,-109.494,-438.394,0,-420.934 1/2:414:0,281,131:0:0:281,131:10022,4571:-1188.45,-371.771,-287.182,-816.767,0,-777.332 1/2:137:0,99,36:0:0:99,36:3527,1260:-389.987,-102.505,-72.7028,-287.474,0,-276.637 1/2:268:0,210,56:0:0:210,56:7471,1917:-764.424,-155.58,-92.3634,-608.83,0,-591.972 1/2:330:0,249,81:0:0:249,81:8872,2780:-949.188,-226.043,-151.086,-723.491,0,-699.108 1/2:112:0,94,17:0:0:94,17:3349,587:-320.658,-47.6762,-19.3793,-272.97,0,-267.852 1/1:114:0,113,1:0:0:113,1:4048,36:-364.111,-34.0164,0,-361.174,-30.7191,-360.873 1/1:98:0,98,0:0:0:98,0:3454,0:-311.06,-29.5009,0,-311.06,-29.5009,-311.06 chr08 11592564 . C T 18772.5 PASS AB=0.34432;ABP=833.27;AC=20;AF=0.47619;AN=42;AO=1359;CIGAR=1X;DP=4192;DPB=4192;DPRA=0;EPP=2954.04;EPPR=6152.62;GTI=3;LEN=1;MEANALT=1.04762;MQM=59.9264;MQMR=59.8369;NS=21;NUMALT=1;ODDS=23.7774;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48355;QR=99526;RO=2832;RPL=1359;RPP=2954.04;RPPR=6152.62;RPR=0;RUN=1;SAF=1359;SAP=2954.04;SAR=0;SRF=2832;SRP=6152.62;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:228:181,47:181:6395:47:1671:-82.0417,0,-506.961 0/1:198:160,38:160:5647:38:1359:-63.0059,0,-448.597 0/1:245:193,52:193:6785:52:1850:-93.0038,0,-536.914 0/1:158:112,46:112:3922:46:1639:-100.234,0,-305.612 0/1:268:127,141:127:4419:141:5019:-371.158,0,-317.203 0/1:182:123,59:123:4357:59:2120:-136.281,0,-337.51 0/1:440:253,187:253:8787:187:6608:-462.356,0,-658.094 0/0:248:247,1:247:8648:1:36:0,-71.0572,-773.941 0/1:316:252,64:252:8872:64:2291:-111.319,0,-703.337 0/1:54:48,6:48:1720:6:212:-3.16918,0,-138.83 0/1:13:9,4:9:316:4:144:-9.40023,0,-24.8655 0/1:86:65,21:65:2299:21:743:-41.3048,0,-181.279 0/1:81:68,13:68:2365:13:464:-17.7141,0,-188.723 0/1:206:114,92:114:3980:92:3249:-230.621,0,-296.252 0/1:421:257,163:257:9045:163:5803:-395.158,0,-687.003 0/1:140:67,73:67:2352:73:2612:-193.182,0,-169.794 0/1:266:127,139:127:4513:139:4937:-364.405,0,-326.263 0/1:320:242,78:242:8467:78:2763:-152.583,0,-665.702 0/1:114:82,32:82:2940:32:1143:-68.8613,0,-230.504 0/1:113:60,53:60:2102:53:1896:-136.902,0,-155.432 0/1:95:45,50:45:1595:50:1796:-133.319,0,-115.238 chr08 11961018 . C G 17444.4 PASS AB=0.519912;ABP=4.56684;AC=29;AF=0.690476;AN=42;AO=834;CIGAR=1X;DP=1086;DPB=1086;DPRA=2.03846;EPP=1814.02;EPPR=539.399;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9928;MQMR=60;NS=21;NUMALT=1;ODDS=1.09976;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29704;QR=8929;RO=251;RPL=0;RPP=1814.02;RPPR=539.399;RPR=834;RUN=1;SAF=0;SAP=1814.02;SAR=834;SRF=0;SRP=548.05;SRR=251;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:22,30:22:788:30:1065:-80.5062,0,-55.5912 0/1:37:31,6:31:1116:6:212:-8.28669,0,-89.6136 0/1:39:16,23:16:560:23:824:-62.7431,0,-38.9886 0/1:41:25,16:25:896:16:567:-39.0185,0,-68.6181 1/1:128:1,126:1:36:126:4482:-400.024,-34.9174,0 1/1:46:0,46:0:0:46:1641:-147.977,-13.8474,0 1/1:86:1,85:1:36:85:3033:-269.601,-22.2903,0 0/0:26:26,0:26:917:0:0:0,-7.82678,-82.8446 0/1:85:38,47:38:1359:47:1692:-126.979,0,-97.0223 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:58:18,40:18:644:40:1427:-111.267,0,-40.8309 1/1:43:0,43:0:0:43:1525:-137.541,-12.9443,0 1/1:88:0,88:0:0:88:3125:-281.474,-26.4906,0 1/1:42:0,42:0:0:42:1497:-135.023,-12.6433,0 1/1:52:1,51:1:36:51:1809:-159.491,-12.0553,0 0/1:65:40,25:40:1406:25:888:-60.6721,0,-107.269 0/1:48:21,27:21:743:27:953:-71.6347,0,-52.7439 1/1:86:5,81:5:176:81:2884:-243.611,-9.70356,0 1/1:37:0,37:0:0:37:1324:-119.462,-11.1381,0 chr08 11961054 . T C 17584.8 PASS AB=0.525164;ABP=5.52389;AC=29;AF=0.690476;AN=42;AO=840;CIGAR=1X;DP=1092;DPB=1092;DPRA=1.97222;EPP=1827.05;EPPR=550.221;GTI=2;LEN=1;MEANALT=1;MQM=59.9929;MQMR=60;NS=21;NUMALT=1;ODDS=0.119697;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29941;QR=8976;RO=252;RPL=840;RPP=1827.05;RPPR=550.221;RPR=0;RUN=1;SAF=0;SAP=1827.05;SAR=840;SRF=0;SRP=550.221;SRR=252;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:22,31:22:769:31:1101:-83.4438,0,-53.574 0/1:38:32,6:32:1144:6:216:-8.35137,0,-91.8304 0/1:38:15,23:15:540:23:828:-63.405,0,-37.4974 0/1:40:24,16:24:860:16:576:-40.1338,0,-65.6806 1/1:131:1,130:1:36:130:4646:-414.7,-35.8367,0 1/1:46:0,46:0:0:46:1648:-148.609,-13.8474,0 1/1:85:1,84:1:36:84:2978:-264.652,-21.9893,0 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/1:86:37,49:37:1309:49:1760:-132.795,0,-92.221 0/1:6:2,4:2:68:4:129:-10.1215,0,-4.65153 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:60:18,42:18:633:42:1488:-116.15,0,-39.2333 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 1/1:87:0,87:0:0:87:3109:-280.033,-26.1896,0 1/1:42:0,42:0:0:42:1497:-135.023,-12.6433,0 1/1:51:1,50:1:36:50:1755:-154.629,-11.7543,0 0/1:66:41,25:41:1461:25:900:-61.453,0,-111.916 0/1:49:22,27:22:788:27:972:-73.0474,0,-56.4943 1/1:86:5,81:5:180:81:2897:-244.412,-9.33652,0 1/1:37:0,37:0:0:37:1285:-115.946,-11.1381,0 chr08 12050124 . G A 7009.91 PASS AB=0.480447;ABP=5.388;AC=13;AF=0.309524;AN=42;AO=414;CIGAR=1X;DP=1635;DPB=1635;DPRA=0.763524;EPP=902;EPPR=2654.38;GTI=0;LEN=1;MEANALT=1;MQM=59.9493;MQMR=59.6339;NS=21;NUMALT=1;ODDS=1.08709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14666;QR=43686;RO=1221;RPL=0;RPP=902;RPPR=2654.38;RPR=414;RUN=1;SAF=414;SAP=902;SAR=0;SRF=1221;SRP=2654.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:33,24:33:1180:24:830:-57.8536,0,-89.3493 0/1:78:35,43:35:1248:43:1540:-115.413,0,-89.1445 0/1:45:22,23:22:788:23:792:-58.0466,0,-57.6984 0/1:94:46,48:46:1652:48:1720:-126.789,0,-120.652 0/0:147:147,0:147:5265:0:0:0,-44.2514,-473 0/0:68:68,0:68:2424:0:0:0,-20.47,-218.046 0/0:129:129,0:129:4606:0:0:0,-38.8329,-414.279 1/1:68:0,68:0:0:68:2376:-214.091,-20.47,0 0/1:131:70,61:70:2512:61:2166:-155.767,0,-186.841 0/1:16:5,11:5:180:11:396:-31.1663,0,-11.7356 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:26:14,12:14:500:12:428:-31.032,0,-37.4521 0/1:78:44,34:44:1584:34:1209:-85.6338,0,-118.744 0/0:112:112,0:112:3949:0:0:0,-33.7154,-355.579 0/0:136:135,1:135:4833:1:36:0,-37.3418,-430.689 0/0:77:77,0:77:2768:0:0:0,-23.1793,-249.353 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/1:115:51,64:51:1836:64:2296:-172.273,0,-130.902 0/1:69:48,21:48:1728:21:733:-45.5186,0,-135.034 0/0:68:67,1:67:2389:1:36:0,-16.8718,-211.659 0/0:64:64,0:64:2304:0:0:0,-19.2659,-207.597 chr08 12050131 . GATTCGCCC GATTGGCCT,GATTGGCCC 33725.1 PASS AB=0.514727,0.469846;ABP=4.35338,8.64151;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1205,400;CIGAR=4M1X3M1X,4M1X4M;DP=1635;DPB=1641;DPRA=1.18864,0.723711;EPP=2490.97,828.713;EPPR=5.18177;GTI=1;LEN=9,1;MEANALT=2.85,2.93333;MQM=59.7793,59.9625;MQMR=56;NS=21;NUMALT=2;ODDS=1.15569;PAIRED=0,0;PAIREDR=0;PAO=23,3.33333;PQA=615,101;PQR=101;PRO=3.33333;QA=41103,14244;QR=28;RO=1;RPL=15,5;RPP=2490.97,828.713;RPPR=5.18177;RPR=1190,395;RUN=1,1;SAF=1205,400;SAP=2619.63,871.599;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:57:0,33,24:0:0:33,24:1106,828:-157.172,-67.6085,-57.6745,-89.9046,0,-82.6798 1/2:79:0,35,44:0:0:35,44:1171,1567:-222.491,-127.685,-117.149,-94.7615,0,-81.5162 1/2:46:1,21,23:1:28:21,23:727,813:-122.871,-64.0915,-59.9856,-56.953,0,-52.245 1/2:94:0,45,47:0:0:45,47:1517,1684:-260.393,-137.469,-123.922,-123.04,0,-108.891 1/1:148:0,144,0:0:0:144,0:4892,0:-440.124,-43.3483,0,-440.124,-43.3483,-440.124 1/1:68:0,66,1:0:0:66,1:2224,36:-199.975,-19.868,0,-197.038,-16.9213,-196.737 1/1:128:0,126,0:0:0:126,0:4325,0:-389.092,-37.9298,0,-389.092,-37.9298,-389.092 2/2:66:0,0,62:0:0:0,62:0,2212:-198.984,-198.984,-198.984,-18.6639,-18.6639,0 1/2:129:0,68,58:0:0:68,58:2329,2069:-357.835,-168.776,-148.306,-189.162,0,-171.702 1/2:16:0,5,11:0:0:5,11:161,392:-44.9572,-31.9859,-30.4807,-12.9823,0,-9.67097 1/2:7:0,4,3:0:0:4,3:137,100:-19.5537,-8.42735,-7.22323,-11.4635,0,-10.5604 1/2:26:0,14,12:0:0:14,12:486,428:-74.7362,-35.2464,-31.032,-39.8419,0,-36.2295 1/2:76:0,43,31:0:0:43,31:1489,1107:-211.309,-90.3023,-77.358,-121.052,0,-111.72 1/1:114:0,111,0:0:0:111,0:3724,0:-335.059,-33.4143,0,-335.059,-33.4143,-335.059 1/1:137:0,133,1:0:0:133,1:4558,36:-410.089,-40.037,0,-407.151,-37.0737,-406.85 1/1:78:0,77,0:0:0:77,0:2678,0:-240.992,-23.1793,0,-240.992,-23.1793,-240.992 1/1:50:0,50,0:0:0:50,0:1722,0:-155.076,-15.0515,0,-155.076,-15.0515,-155.076 1/2:115:0,51,64:0:0:51,64:1732,2288:-327.008,-186.547,-171.194,-140.449,0,-121.183 1/2:68:0,48,18:0:0:48,18:1653,648:-187.155,-52.902,-38.4526,-134.277,0,-128.858 1/1:69:0,68,1:0:0:68,1:2372,36:-213.377,-20.47,0,-210.439,-17.4877,-210.138 1/1:64:0,63,0:0:0:63,0:2100,0:-188.981,-18.9649,0,-188.981,-18.9649,-188.981 chr08 12050185 . G A 30038.8 PASS AB=0.49835;ABP=3.0318;AC=29;AF=0.690476;AN=42;AO=1431;CIGAR=1X;DP=1996;DPB=1996;DPRA=0.88271;EPP=3110.39;EPPR=1227.72;GTI=0;LEN=1;MEANALT=1.05;MQM=59.4214;MQMR=60;NS=21;NUMALT=1;ODDS=10.34;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51093;QR=20168;RO=564;RPL=1431;RPP=3110.39;RPPR=1227.72;RPR=0;RUN=1;SAF=0;SAP=3110.39;SAR=1431;SRF=0;SRP=1227.72;SRR=564;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:53,41:53:1900:41:1463:-103.628,0,-142.981 0/1:96:36,60:36:1292:60:2139:-163.869,0,-87.6849 0/1:106:60,46:60:2152:46:1656:-117.409,0,-162.038 0/1:123:58,65:58:2067:65:2324:-171.15,0,-149.274 1/1:151:0,151:0:0:151:5351:-481.488,-45.4555,0 1/1:130:0,130:0:0:130:4648:-418.27,-39.1339,0 1/1:153:0,153:0:0:153:5436:-489.089,-46.0576,0 0/0:107:107,0:107:3840:0:0:0,-32.2102,-345.795 0/1:163:75,88:75:2653:88:3140:-233.339,0,-189.948 0/1:22:16,6:16:576:6:212:-12.8012,0,-45.5523 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:31:20,11:20:716:11:396:-26.6508,0,-55.4358 0/1:122:55,66:55:1972:66:2364:-176.184,0,-141.121 1/1:104:0,104:0:0:104:3694:-332.299,-31.3071,0 1/1:162:0,162:0:0:162:5795:-521.609,-48.7669,0 1/1:79:0,79:0:0:79:2840:-255.799,-23.7814,0 1/1:56:0,56:0:0:56:2002:-180.368,-16.8577,0 0/1:80:45,35:45:1612:35:1260:-89.6185,0,-121.288 0/1:64:33,31:33:1172:31:1108:-80.7438,0,-86.5216 1/1:91:1,90:1:36:90:3217:-286.084,-23.7955,0 1/1:54:1,53:1:36:53:1904:-167.677,-12.6573,0 chr08 12594924 . T A 29350.5 PASS AB=0.472505;ABP=9.45838;AC=30;AF=0.714286;AN=42;AO=1400;CIGAR=1X;DP=2009;DPB=2009;DPRA=1.06611;EPP=3043.07;EPPR=1325.44;GTI=0;LEN=1;MEANALT=1;MQM=59.9907;MQMR=59.9901;NS=21;NUMALT=1;ODDS=5.24586;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50167;QR=21782;RO=609;RPL=0;RPP=3043.07;RPPR=1325.44;RPR=1400;RUN=1;SAF=1400;SAP=3043.07;SAR=0;SRF=609;SRP=1325.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:49,38:49:1764:38:1367:-97.1413,0,-132.854 0/1:51:33,18:33:1184:18:640:-42.5768,0,-91.5158 0/1:142:65,77:65:2328:77:2764:-206.255,0,-167.034 0/1:169:104,65:104:3705:65:2336:-159.625,0,-282.778 1/1:85:0,85:0:0:85:3037:-273.559,-25.5876,0 1/1:122:0,122:0:0:122:4380:-394.372,-36.7257,0 1/1:143:1,142:1:36:142:5096:-455.184,-39.449,0 0/0:90:90,0:90:3201:0:0:0,-27.0927,-288.313 0/1:220:113,107:113:4052:107:3831:-278.759,0,-298.64 1/1:5:0,5:0:0:5:170:-15.6335,-1.50515,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:31:14,17:14:504:17:612:-46.0815,0,-36.3662 0/1:128:64,64:64:2284:64:2277:-166.659,0,-167.29 1/1:149:0,149:0:0:149:5337:-480.461,-44.8535,0 1/1:132:0,132:0:0:132:4744:-427.116,-39.736,0 1/1:50:0,50:0:0:50:1800:-162.282,-15.0515,0 1/1:57:0,57:0:0:57:2029:-182.881,-17.1587,0 0/1:77:45,32:45:1608:32:1148:-80.4505,0,-121.826 0/1:71:30,41:30:1080:41:1476:-111.763,0,-76.1401 1/1:139:0,139:0:0:139:4963:-446.807,-41.8432,0 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 chr08 12595017 . G T 40766.3 PASS AB=0.504083;ABP=3.20536;AC=29;AF=0.690476;AN=42;AO=1907;CIGAR=1X;DP=2750;DPB=2750;DPRA=0;EPP=3895.95;EPPR=1713.98;GTI=0;LEN=1;MEANALT=1;MQM=59.957;MQMR=60;NS=21;NUMALT=1;ODDS=0.954813;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67834;QR=30024;RO=843;RPL=1878;RPP=3895.95;RPPR=1713.98;RPR=29;RUN=1;SAF=0;SAP=4144.01;SAR=1907;SRF=0;SRP=1833.56;SRR=843;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:237:121,116:121:4308:116:4129:-300.451,0,-316.552 0/1:57:25,32:25:887:32:1140:-85.7423,0,-62.9894 0/1:147:74,73:74:2634:73:2585:-188.647,0,-193.055 0/1:141:72,69:72:2547:69:2422:-175.791,0,-187.034 1/1:272:1,271:1:36:271:9622:-862.333,-78.2819,0 1/1:103:0,103:0:0:103:3627:-326.636,-31.0061,0 1/1:178:0,178:0:0:178:6342:-570.875,-53.5833,0 0/0:173:172,1:172:6138:1:36:0,-48.4799,-548.922 0/1:292:148,144:148:5283:144:5112:-372.324,0,-387.706 0/1:18:9,9:9:324:9:324:-24.0873,0,-24.0873 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:41:23,18:23:820:18:644:-45.9484,0,-61.7803 0/1:171:93,78:93:3307:78:2784:-199.325,0,-246.374 1/1:174:0,174:0:0:174:6183:-556.57,-52.3792,0 1/1:194:0,194:0:0:194:6920:-622.784,-58.3998,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 1/1:86:0,86:0:0:86:3056:-275.271,-25.8886,0 0/1:128:71,57:71:2525:57:2021:-143.629,0,-188.969 0/1:108:31,77:31:1107:77:2766:-216.665,0,-67.4289 1/1:112:0,112:0:0:112:3997:-359.907,-33.7154,0 1/1:63:2,61:2:72:61:2184:-189.976,-12.1282,0 chr08 12595029 . T C 39193.7 PASS AB=0.505593;ABP=3.37464;AC=29;AF=0.690476;AN=42;AO=1883;CIGAR=1X;DP=2728;DPB=2728;DPRA=0.738439;EPP=4083.21;EPPR=1822.71;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9634;MQMR=60;NS=21;NUMALT=1;ODDS=1.37805;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67223;QR=30074;RO=842;RPL=1882;RPP=4083.21;RPPR=1822.71;RPR=1;RUN=1;SAF=0;SAP=4091.89;SAR=1883;SRF=0;SRP=1831.39;SRR=842;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:238:120,118:120:4312:118:4214:-307.794,0,-316.61 0/1:56:24,32:24:856:32:1144:-86.4086,0,-60.5034 0/1:146:74,72:74:2656:72:2575:-188.049,0,-195.335 0/1:141:72,69:72:2580:69:2430:-176.511,0,-190.004 1/1:260:1,259:1:36:259:9249:-828.782,-74.6695,0 1/1:102:0,102:0:0:102:3652:-328.884,-30.7051,0 1/1:179:1,178:1:21:178:6374:-571.65,-51.7844,0 0/0:173:173,0:173:6139:0:0:0,-52.0782,-552.611 0/1:291:148,143:148:5289:143:5098:-371.364,0,-388.545 0/1:18:9,9:9:324:9:324:-24.0873,0,-24.0873 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:41:23,18:23:820:18:648:-46.3097,0,-61.7803 0/1:168:90,78:90:3209:78:2796:-201.307,0,-238.459 1/1:173:0,173:0:0:173:6194:-557.555,-52.0782,0 1/1:191:0,189:0:0:189:6741:-606.4,-56.8947,0 1/1:49:0,49:0:0:49:1752:-157.964,-14.7505,0 1/1:86:0,85:0:0:85:3022:-271.852,-25.5876,0 0/1:127:73,54:73:2612:54:1932:-135.926,0,-197.097 0/1:108:29,79:29:1044:79:2796:-219.367,0,-61.7636 1/1:111:1,110:1:36:110:3929:-350.174,-29.8161,0 1/1:63:3,60:3:104:60:2141:-183.241,-9.26208,0 chr08 12649671 . C T 11743.5 PASS AB=0.285413;ABP=762.54;AC=24;AF=0.571429;AN=42;AO=792;CIGAR=1X;DP=2153;DPB=2153;DPRA=0;EPP=1722.82;EPPR=2958.38;GTI=4;LEN=1;MEANALT=1;MQM=58.0455;MQMR=59.9647;NS=21;NUMALT=1;ODDS=3.62339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28254;QR=48227;RO=1361;RPL=792;RPP=1722.82;RPPR=2958.38;RPR=0;RUN=1;SAF=792;SAP=1722.82;SAR=0;SRF=0;SRP=2958.38;SRR=1361;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:99,38:99:3499:38:1364:-81.6457,0,-273.879 0/1:60:39,21:39:1400:21:748:-49.5476,0,-108.237 0/1:125:106,19:106:3744:19:665:-21.1606,0,-299.532 0/1:107:56,51:56:1982:51:1832:-132.799,0,-146.442 0/1:223:151,72:151:5375:72:2558:-163.037,0,-416.755 0/1:94:75,19:75:2672:19:684:-33.5576,0,-212.429 0/1:173:131,42:131:4652:42:1492:-82.4606,0,-366.712 0/1:117:84,33:84:2965:33:1180:-70.8465,0,-231.863 1/1:83:3,80:3:100:80:2864:-248.27,-15.655,0 0/1:21:17,4:17:587:4:144:-6.99034,0,-46.7871 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 0/1:48:35,13:35:1215:13:468:-27.9602,0,-95.2002 0/1:97:57,40:57:1993:40:1399:-96.882,0,-150.44 0/1:153:111,42:111:3924:42:1487:-87.9405,0,-307.297 0/1:152:106,46:106:3775:46:1643:-102.35,0,-294.194 1/1:67:1,66:1:36:66:2364:-209.363,-16.5707,0 1/1:104:0,104:0:0:104:3719:-334.732,-31.3071,0 0/1:127:102,25:102:3627:25:896:-42.6713,0,-288.406 0/1:73:48,25:48:1707:25:887:-58.1481,0,-131.94 0/1:123:86,37:86:3050:37:1324:-82.4222,0,-237.704 0/1:60:48,12:48:1712:12:428:-20.7822,0,-136.304 chr08 12649715 . G A 7489.54 PASS AB=0.472109;ABP=7.97662;AC=13;AF=0.309524;AN=42;AO=437;CIGAR=1X;DP=1642;DPB=1642;DPRA=1.09613;EPP=951.944;EPPR=2606.61;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.8352;MQMR=59.9152;NS=21;NUMALT=1;ODDS=2.84524;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15615;QR=42973;RO=1203;RPL=437;RPP=951.944;RPPR=2606.61;RPR=0;RUN=1;SAF=0;SAP=951.944;SAR=437;SRF=0;SRP=2615.29;SRR=1203;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:60,43:60:2139:43:1543:-108.156,0,-161.77 0/1:39:23,16:23:820:16:576:-40.4348,0,-62.3823 0/1:108:48,60:48:1707:60:2140:-160.355,0,-121.404 0/1:54:26,28:26:932:28:1008:-74.778,0,-67.9432 0/0:158:156,2:156:5546:2:72:0,-40.726,-492.161 0/0:78:78,0:78:2796:0:0:0,-23.4803,-250.518 0/0:137:134,2:134:4777:2:72:0,-34.4632,-423.194 1/1:84:0,83:0:0:83:2974:-266.756,-24.9855,0 0/1:159:79,80:79:2823:80:2841:-208.045,0,-206.445 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.5815 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/1:34:10,24:10:360:24:846:-66.2228,0,-22.5093 0/1:59:36,23:36:1292:23:824:-56.7225,0,-98.823 0/0:108:108,0:108:3861:0:0:0,-32.5112,-347.684 0/0:110:110,0:110:3944:0:0:0,-33.1133,-355.151 0/0:58:58,0:58:2063:0:0:0,-17.4597,-185.941 0/0:36:36,0:36:1283:0:0:0,-10.8371,-115.773 0/1:106:58,48:58:2076:48:1724:-123.536,0,-155.201 0/1:50:35,15:35:1248:15:531:-33.07,0,-97.5734 0/0:89:86,3:86:3078:3:108:0,-16.7165,-267.172 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 chr08 12875872 . GATA AATA,AATG 52967.9 PASS AB=0.510698,0.487442;ABP=4.07887,4.48286;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1792,663;CIGAR=1X3M,1X2M1X;DP=2457;DPB=2457;DPRA=0.86,1.04956;EPP=3894.29,1442.7;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.8,2.06667;MQM=53.1412,53.2293;MQMR=0;NS=21;NUMALT=2;ODDS=1.96711;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64236,23569;QR=0;RO=0;RPL=0,0;RPP=3894.29,1442.7;RPPR=0;RPR=1792,663;RUN=1,1;SAF=1792,663;SAP=3894.29,1442.7;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:139:0,87,51:0:0:87,51:3127,1808:-401.204,-147.069,-120.88,-254.148,0,-238.795 1/2:106:0,53,53:0:0:53,53:1885,1884:-305.514,-152.803,-136.849,-153.063,0,-137.109 1/2:79:0,34,45:0:0:34,45:1220,1607:-229.867,-130.529,-120.294,-99.6941,0,-86.1477 1/2:135:0,54,81:0:0:54,81:1935,2891:-392.421,-235.408,-219.152,-157.37,0,-132.986 1/1:266:0,264,2:0:0:264,2:9465,72:-846.665,-79.4719,0,-840.799,-73.247,-840.197 1/1:110:0,110,0:0:0:110,0:3950,0:-354.481,-33.1133,0,-354.481,-33.1133,-354.481 1/1:254:0,253,1:0:0:253,1:9061,36:-810.659,-76.1606,0,-807.744,-72.8882,-807.443 2/2:135:0,0,135:0:0:0,135:0,4808:-430.226,-430.226,-430.226,-40.6391,-40.6391,0 1/2:221:0,123,98:0:0:123,98:4408,3495:-642.662,-284.523,-247.496,-358.495,0,-328.994 1/2:21:0,5,16:0:0:5,16:180,560:-60.4943,-45.8278,-44.3226,-15.0234,0,-10.207 1/2:6:0,3,3:0:0:3,3:108,108:-17.9563,-9.15779,-8.2547,-9.15779,0,-8.2547 1/2:27:0,10,17:0:0:10,17:360,607:-79.0769,-49.7475,-46.7372,-29.6876,0,-24.5701 1/2:277:0,147,129:0:0:147,129:5256,4580:-798.503,-371.669,-327.418,-426.846,0,-388.013 1/1:75:0,75,0:0:0:75,0:2684,0:-241.041,-22.5773,0,-241.041,-22.5773,-241.041 1/1:238:0,238,0:0:0:238,0:8522,0:-764.281,-71.6451,0,-764.281,-71.6451,-764.281 1/1:116:0,116,0:0:0:116,0:4172,0:-374.377,-34.9195,0,-374.377,-34.9195,-374.377 1/1:49:0,48,1:0:0:48,1:1728,30:-154.68,-14.4494,0,-152.283,-11.7522,-151.982 1/2:41:0,17,24:0:0:17,24:612,832:-117.466,-67.7511,-62.6336,-50.0684,0,-42.8436 1/2:23:0,16,7:0:0:16,7:576,251:-67.6716,-20.7989,-15.9825,-47.2309,0,-45.1236 1/1:106:0,106,0:0:0:106,0:3799,0:-341.176,-31.9092,0,-341.176,-31.9092,-341.176 1/1:33:0,33,0:0:0:33,0:1188,0:-107.077,-9.93399,0,-107.077,-9.93399,-107.077 chr08 12875891 . C G 37382.3 PASS AB=0.511737;ABP=4.28464;AC=29;AF=0.690476;AN=42;AO=1777;CIGAR=1X;DP=2435;DPB=2435;DPRA=0;EPP=3861.72;EPPR=1423.15;GTI=0;LEN=1;MEANALT=1.14286;MQM=53.139;MQMR=53.2676;NS=21;NUMALT=1;ODDS=1.7997;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63608;QR=23398;RO=654;RPL=1777;RPP=3861.72;RPPR=1423.15;RPR=0;RUN=1;SAF=1777;SAP=3861.72;SAR=0;SRF=654;SRP=1423.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:53,87:53:1885:87:3113:-237.236,0,-126.605 0/1:102:52,50:52:1864:50:1790:-130.105,0,-136.184 0/1:79:45,34:45:1612:34:1220:-86.1618,0,-120.67 0/1:133:80,53:80:2863:53:1887:-129.289,0,-217.233 1/1:262:2,260:2:72:260:9296:-825.713,-72.0428,0 1/1:110:0,110:0:0:110:3941:-353.573,-33.1133,0 1/1:253:1,252:1:36:252:8974:-799.506,-72.5872,0 0/0:133:131,1:131:4687:1:36:0,-36.6429,-415.785 0/1:219:97,122:97:3480:122:4364:-325.599,0,-246.826 0/1:21:16,5:16:572:5:180:-10.207,0,-45.2669 0/1:6:3,3:3:108:3:108:-8.2547,0,-8.2547 0/1:26:17,9:17:612:9:324:-21.6372,0,-47.4806 0/1:275:126,148:126:4491:148:5308:-392.349,0,-320.09 1/1:73:0,73:0:0:73:2620:-234.702,-21.9752,0 1/1:235:0,233:0:0:233:8367:-749.232,-70.14,0 1/1:117:0,117:0:0:117:4205:-377.412,-35.2205,0 1/1:49:1,48:1:36:48:1715:-150.385,-11.1573,0 0/1:40:23,17:23:828:17:608:-42.786,0,-62.615 0/1:24:7,17:7:252:17:608:-47.68,0,-15.7716 1/1:105:0,105:0:0:105:3760:-337.343,-31.6082,0 1/1:33:0,33:0:0:33:1184:-106.719,-9.93399,0 chr08 13033890 . CA AG,CG 36788.6 PASS AB=0.459288,0.538168;ABP=14.3263,12.956;AC=28,14;AF=0.666667,0.333333;AN=42;AO=845,533;CIGAR=2X,1M1X;DP=1380;DPB=1380;DPRA=1.2782,1.10609;EPP=1837.9,1160.41;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.84211,2;MQM=59.974,60;MQMR=0;NS=21;NUMALT=2;ODDS=10.2497;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29779,18939;QR=0;RO=0;RPL=359,235;RPP=44.4584,19.1802;RPPR=0;RPR=486,298;RUN=1,1;SAF=359,235;SAP=44.4584,19.1802;SAR=486,298;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:49:0,23,26:0:0:23,26:815,936:-143.123,-76.7327,-69.809,-66.7468,0,-58.92 1/2:74:0,31,43:0:0:31,43:1105,1526:-214.761,-124.687,-115.355,-90.429,0,-77.4847 1/2:37:0,15,22:0:0:15,22:532,783:-107.513,-64.1703,-59.6548,-43.6978,0,-37.0752 1/2:75:0,31,44:0:0:31,44:1091,1576:-217.679,-128.886,-119.554,-89.1468,0,-75.9014 1/1:63:0,61,2:0:0:61,2:2130,72:-191.606,-18.3628,0,-185.731,-12.1282,-185.129 1/1:55:0,54,1:0:0:54,1:1892,36:-170.195,-16.2556,0,-167.258,-12.9584,-166.957 1/1:87:0,87,0:0:0:87,0:3005,0:-270.678,-26.1896,0,-270.678,-26.1896,-270.678 2/2:101:0,0,101:0:0:0,101:0,3601:-324.295,-324.295,-324.295,-30.404,-30.404,0 1/2:132:0,38,94:0:0:38,94:1340,3338:-381.444,-272.339,-260.9,-109.458,0,-81.1616 1/2:20:0,12,8:0:0:12,8:421,288:-58.1141,-23.8592,-20.2468,-34.6111,0,-32.2029 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:31:0,11,20:0:0:11,20:372,716:-88.8951,-58.7471,-55.4358,-30.4931,0,-24.4725 1/2:60:0,22,37:0:0:22,37:774,1324:-170.968,-107.964,-101.342,-62.9985,0,-51.8604 1/1:46:0,46,0:0:0:46,0:1635,0:-147.438,-13.8474,0,-147.438,-13.8474,-147.438 1/1:53:0,53,0:0:0:53,0:1850,0:-166.775,-15.9546,0,-166.775,-15.9546,-166.775 1/1:30:0,29,1:0:0:29,1:1040,36:-93.5548,-8.72987,0,-90.6173,-5.43263,-90.3163 1/1:21:0,21,0:0:0:21,0:743,0:-67.1934,-6.32163,0,-67.1934,-6.32163,-67.1934 1/2:173:0,84,88:0:0:84,88:2971,3087:-493.191,-251.206,-225.92,-241.977,0,-215.487 1/2:135:0,94,41:0:0:94,41:3342,1440:-389.898,-117.551,-89.2538,-272.7,0,-260.358 1/1:37:0,36,1:0:0:36,1:1280,36:-115.14,-10.8371,0,-112.203,-7.53984,-111.902 1/1:97:0,97,0:0:0:97,0:3441,0:-309.903,-29.1999,0,-309.903,-29.1999,-309.903 chr08 13077852 . C T 4154.53 PASS AB=0.512195;ABP=3.48696;AC=12;AF=0.285714;AN=42;AO=244;CIGAR=1X;DP=883;DPB=883;DPRA=1.04912;EPP=532.85;EPPR=1390.58;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9797;NS=21;NUMALT=1;ODDS=0.534234;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8572;QR=22717;RO=639;RPL=244;RPP=532.85;RPPR=1390.58;RPR=0;RUN=1;SAF=0;SAP=532.85;SAR=244;SRF=0;SRP=1390.58;SRR=639;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:25,50:25:900:50:1761:-136.195,0,-58.7438 0/1:40:22,18:22:788:18:644:-46.2494,0,-59.2036 0/1:55:25,30:25:879:30:1030:-76.4476,0,-62.8701 0/1:30:14,16:14:500:16:564:-42.0594,0,-36.3053 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/0:43:42,1:42:1496:1:36:0,-9.34601,-131.336 0/0:70:70,0:70:2488:0:0:0,-21.0721,-224.174 1/1:52:0,52:0:0:52:1844:-166.24,-15.6536,0 0/1:69:42,27:42:1472:27:933:-63.5095,0,-112.001 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49869 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:11:6,5:6:216:5:172:-12.5066,0,-16.4792 0/1:42:23,19:23:816:19:664:-47.4412,0,-61.1069 0/0:51:51,0:51:1812:0:0:0,-15.3525,-163.362 0/0:97:96,1:96:3411:1:32:0,-26.0006,-304.007 0/0:37:36,1:36:1288:1:36:0,-7.53983,-112.625 0/0:32:32,0:32:1104:0:0:0,-9.63296,-99.6636 0/1:28:9,19:9:324:19:676:-52.7392,0,-21.077 0/1:15:11,4:11:379:4:144:-8.79817,0,-29.9251 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 chr08 13137557 . G C 9242.32 PASS AB=0.466475;ABP=13.2021;AC=13;AF=0.309524;AN=42;AO=563;CIGAR=1X;DP=2191;DPB=2191;DPRA=0.915441;EPP=1225.55;EPPR=3531.65;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.9503;MQMR=59.9803;NS=21;NUMALT=1;ODDS=18.936;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19812;QR=57460;RO=1625;RPL=563;RPP=1225.55;RPPR=3531.65;RPR=0;RUN=1;SAF=563;SAP=1225.55;SAR=0;SRF=1625;SRP=3531.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:40,70:40:1415:70:2460:-188.539,0,-94.5333 0/1:104:55,49:55:1944:49:1730:-124.676,0,-143.926 0/1:145:76,69:76:2679:69:2453:-177.374,0,-197.705 0/1:70:39,31:39:1348:31:1085:-76.8849,0,-100.54 0/0:226:226,0:226:8027:0:0:0,-68.0328,-722.327 0/0:83:82,1:82:2935:1:36:0,-21.3872,-260.785 0/0:204:202,1:202:7133:1:27:0,-58.6693,-639.346 1/1:71:0,71:0:0:71:2504:-225.612,-21.3731,0 0/1:217:123,94:123:4360:94:3316:-233.336,0,-327.253 0/1:33:21,12:21:728:12:424:-28.5624,0,-55.9037 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/1:47:24,23:24:851:23:824:-60.3349,0,-62.761 0/1:120:66,54:66:2351:54:1892:-134.394,0,-175.723 0/0:48:48,0:48:1676:0:0:0,-14.4494,-151.127 0/0:114:113,1:113:3999:1:27:0,-31.6176,-357.401 0/0:107:107,0:107:3779:0:0:0,-32.2102,-340.31 0/0:122:121,1:121:4300:1:36:0,-33.1274,-383.575 0/1:112:55,55:55:1944:55:1915:-139.151,0,-141.763 0/1:76:53,23:53:1864:23:795:-48.9885,0,-145.159 0/0:105:104,1:104:3675:1:36:0,-28.0099,-327.356 0/0:67:67,0:67:2344:0:0:0,-20.169,-211.219 chr08 13137558 . T C 31304.5 PASS AB=0.524263;ABP=8.38423;AC=29;AF=0.690476;AN=42;AO=1601;CIGAR=1X;DP=2178;DPB=2178;DPRA=1.52826;EPP=3479.54;EPPR=1247.28;GTI=0;LEN=1;MEANALT=1;MQM=59.9713;MQMR=59.9515;NS=21;NUMALT=1;ODDS=19.6109;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54919;QR=20542;RO=577;RPL=1601;RPP=3479.54;RPPR=1247.28;RPR=0;RUN=1;SAF=1601;SAP=3479.54;SAR=0;SRF=577;SRP=1255.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:72,39:72:2563:39:1387:-91.7138,0,-197.506 0/1:102:49,53:49:1737:53:1810:-132.468,0,-125.907 0/1:148:69,79:69:2472:79:2802:-207.865,0,-178.181 0/1:68:31,37:31:1108:37:1282:-95.2081,0,-79.561 1/1:220:1,219:1:36:219:7626:-682.792,-62.6283,0 1/1:82:1,81:1:36:81:2798:-248.462,-21.0862,0 1/1:203:2,201:2:72:201:6797:-604.994,-54.2724,0 0/0:69:69,0:69:2476:0:0:0,-20.7711,-223.093 0/1:222:99,123:99:3508:123:4223:-313.428,0,-249.102 0/1:32:10,22:10:356:22:747:-57.909,0,-22.7483 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/1:49:25,24:25:892:24:816:-59.0004,0,-65.8492 0/1:123:58,65:58:2071:65:2222:-163.213,0,-149.594 1/1:51:0,51:0:0:51:1714:-154.536,-15.3525,0 1/1:117:1,116:1:36:116:3977:-354.526,-31.6222,0 1/1:99:0,99:0:0:99:3406:-306.755,-29.802,0 1/1:121:1,120:1:36:120:4142:-369.368,-32.8264,0 0/1:115:58,57:58:2048:57:1930:-139.356,0,-149.966 0/1:71:22,49:22:775:49:1651:-127.498,0,-48.6981 1/1:103:1,102:1:36:102:3493:-310.983,-27.4078,0 1/1:62:1,61:1:36:61:1988:-175.585,-15.0656,0 chr08 13572891 . C T 15803.3 PASS AB=0.472648;ABP=5.98004;AC=30;AF=0.714286;AN=42;AO=726;CIGAR=1X;DP=1004;DPB=1004;DPRA=1.47121;EPP=1468.6;EPPR=564.031;GTI=0;LEN=1;MEANALT=1;MQM=59.5606;MQMR=60;NS=21;NUMALT=1;ODDS=9.13048;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26062;QR=9933;RO=278;RPL=713;RPP=1468.6;RPPR=564.031;RPR=13;RUN=1;SAF=0;SAP=1579.5;SAR=726;SRF=0;SRP=606.68;SRR=278;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:22,28:22:784:28:1004:-75.6244,0,-55.8324 0/1:50:30,20:30:1068:20:720:-50.0527,0,-81.3806 0/1:51:32,19:32:1148:19:684:-46.5378,0,-88.2773 0/1:38:19,19:19:684:19:684:-50.4465,0,-50.4512 1/1:78:3,75:3:108:75:2686:-231.89,-13.4052,0 1/1:37:0,37:0:0:37:1328:-119.23,-11.1381,0 1/1:127:0,127:0:0:127:4568:-411.259,-38.2308,0 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/1:109:56,53:56:1989:53:1908:-139.169,0,-146.47 0/1:16:12,4:12:432:4:144:-8.49714,0,-34.4047 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:20:12,8:12:428:8:288:-20.2468,0,-32.8382 0/1:41:25,16:25:896:16:568:-39.1083,0,-68.6181 1/1:59:0,59:0:0:59:2116:-190.697,-17.7608,0 1/1:57:1,56:1:32:56:2008:-177.794,-13.9594,0 1/1:30:0,30:0:0:30:1080:-97.5051,-9.0309,0 1/1:27:0,27:0:0:27:972:-87.7496,-8.12781,0 0/1:56:25,31:25:892:31:1108:-83.1595,0,-63.742 0/1:26:8,18:8:288:18:644:-50.3323,0,-18.4406 1/1:60:0,60:0:0:60:2156:-193.878,-18.0618,0 1/1:34:0,34:0:0:34:1216:-109.721,-10.235,0 chr08 13572897 . 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G A 8551.36 PASS AB=0.464688;ABP=13.5921;AC=13;AF=0.309524;AN=42;AO=525;CIGAR=1X;DP=2156;DPB=2156;DPRA=0.956332;EPP=1143.03;EPPR=3544.68;GTI=1;LEN=1;MEANALT=1;MQM=59.9543;MQMR=59.9908;NS=21;NUMALT=1;ODDS=13.0547;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18441;QR=57555;RO=1631;RPL=0;RPP=1143.03;RPPR=3544.68;RPR=525;RUN=1;SAF=0;SAP=1143.03;SAR=525;SRF=0;SRP=3544.68;SRR=1631;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:42,37:42:1460:37:1324:-95.4106,0,-107.91 0/1:104:39,65:39:1391:65:2295:-175.505,0,-94.1811 0/1:104:67,37:67:2385:37:1285:-84.6388,0,-183.599 0/1:159:87,72:87:3024:72:2532:-180.268,0,-224.528 0/0:241:240,1:240:8480:1:36:0,-68.95,-759.608 0/0:115:114,1:114:4023:1:36:0,-31.0202,-358.663 0/0:138:136,2:136:4762:2:72:0,-34.7054,-421.904 1/1:66:0,66:0:0:66:2324:-209.42,-19.868,0 0/1:148:79,69:79:2780:69:2427:-174.132,0,-205.889 0/1:20:7,13:7:248:13:455:-35.2614,0,-16.6436 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:32:16,16:16:576:16:559:-41.0046,0,-42.542 0/1:116:54,62:54:1918:62:2136:-157.584,0,-137.976 0/0:135:135,0:135:4798:0:0:0,-40.639,-431.979 0/0:104:104,0:104:3686:0:0:0,-31.3071,-331.945 0/0:126:126,0:126:4481:0:0:0,-37.9298,-403.46 0/0:88:87,1:87:3092:1:36:0,-22.8924,-274.911 0/1:125:67,58:67:2364:58:2046:-146.782,0,-175.388 0/1:86:62,24:62:2164:24:842:-50.2085,0,-169.137 0/0:106:106,0:106:3737:0:0:0,-31.9092,-336.53 0/0:60:60,0:60:2078:0:0:0,-18.0618,-187.288 chr08 17075694 . G A 16757.7 PASS AB=0.527817;ABP=12.4334;AC=13;AF=0.309524;AN=42;AO=924;CIGAR=1X;DP=3250;DPB=3250;DPRA=0.893705;EPP=2009.45;EPPR=5047.34;GTI=0;LEN=1;MEANALT=1.1875;MQM=59.6732;MQMR=59.901;NS=21;NUMALT=1;ODDS=17.511;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33106;QR=83053;RO=2323;RPL=0;RPP=2009.45;RPPR=5047.34;RPR=924;RUN=1;SAF=924;SAP=2009.45;SAR=0;SRF=2323;SRP=5047.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:249:112,137:112:3997:137:4932:-369.051,0,-284.957 0/1:161:75,86:75:2677:86:3084:-229.138,0,-192.708 0/1:172:69,102:69:2480:102:3645:-276.412,0,-171.617 0/1:241:133,107:133:4760:107:3836:-272.629,0,-355.947 0/0:310:308,2:308:11013:2:72:0,-86.4826,-984.228 0/0:190:189,1:189:6761:1:36:0,-53.5974,-604.939 0/0:283:283,0:283:10089:0:0:0,-85.1915,-907.919 1/1:174:0,174:0:0:174:6212:-558.684,-52.3792,0 0/1:248:120,128:120:4308:128:4600:-339.39,0,-313.24 0/1:14:3,11:3:104:11:396:-31.7683,0,-5.48839 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/1:29:13,16:13:464:16:572:-43.0836,0,-33.3676 0/1:186:83,102:83:2968:102:3641:-271.834,0,-211.303 0/0:138:137,1:137:4896:1:36:0,-37.9439,-437.067 0/0:256:256,0:256:9122:0:0:0,-77.0637,-820.952 0/0:128:128,0:128:4592:0:0:0,-38.5318,-413.216 0/0:153:153,0:153:5454:0:0:0,-46.0576,-490.957 0/1:56:29,27:29:1044:27:968:-70.5797,0,-77.4156 0/1:37:20,17:20:716:17:612:-44.2749,0,-53.6296 0/0:194:188,6:188:6744:6:216:0,-38.6093,-586.538 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 chr08 17075734 . C A 49983.5 PASS AB=0.476728;ABP=9.68092;AC=29;AF=0.690476;AN=42;AO=2359;CIGAR=1X;DP=3282;DPB=3282;DPRA=0.898555;EPP=5125.51;EPPR=2007.28;GTI=0;LEN=1;MEANALT=1;MQM=59.8754;MQMR=59.6685;NS=21;NUMALT=1;ODDS=18.6922;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84459;QR=33073;RO=923;RPL=2359;RPP=5125.51;RPPR=2007.28;RPR=0;RUN=1;SAF=2359;SAP=5125.51;SAR=0;SRF=923;SRP=2007.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:248:136,112:136:4875:112:3996:-285.167,0,-364.228 0/1:163:87,76:87:3100:76:2717:-195.704,0,-229.823 0/1:173:104,69:104:3728:69:2464:-169.9,0,-283.635 0/1:242:106,136:106:3799:136:4884:-366.861,0,-269.038 1/1:317:1,316:1:36:316:11332:-1015.46,-91.8282,0 1/1:193:1,192:1:36:192:6867:-614.474,-54.5005,0 1/1:290:0,290:0:0:290:10407:-936.531,-87.2987,0 0/0:173:173,0:173:6211:0:0:0,-52.0782,-558.587 0/1:253:129,124:129:4613:124:4440:-323.293,0,-338.935 0/1:14:11,3:11:396:3:108:-5.86075,0,-31.7683 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:29:16,13:16:576:13:464:-33.3676,0,-43.4451 0/1:192:102,90:102:3651:90:3216:-231.865,0,-270.982 1/1:142:0,142:0:0:142:5058:-455.175,-42.7463,0 1/1:252:0,252:0:0:252:9024:-812.127,-75.8596,0 1/1:127:0,127:0:0:127:4541:-408.855,-38.2308,0 1/1:154:0,154:0:0:154:5540:-497.121,-46.3586,0 0/1:57:27,30:27:972:30:1080:-80.353,0,-70.6392 0/1:38:17,21:17:612:21:752:-56.5671,0,-43.9739 1/1:194:6,188:6:216:188:6711:-583.838,-38.6093,0 1/1:22:0,22:0:0:22:786:-71.0645,-6.62266,0 chr08 17075742 . CTATC CCATC,CC 62330.5 PASS AB=0.484965,0.51118;ABP=5.5568,4.41832;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2238,825;CIGAR=1M1X3M,1M3D1M;DP=3079;DPB=2583;DPRA=0.943226,0.900528;EPP=4862.77,1794.48;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.35,2.53333;MQM=59.9504,59.8145;MQMR=0;NS=21;NUMALT=2;ODDS=7.82859;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=10.6667,10.6667;PQR=10.6667;PRO=0.333333;QA=76870,27937;QR=0;RO=0;RPL=2238,825;RPP=4862.77,1794.48;RPPR=0;RPR=0,0;RUN=1,1;SAF=2238,825;SAP=4862.77,1794.48;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:230:0,106,122:0:0:106,122:3697,4139:-636.359,-335.68,-303.771,-300.737,0,-264.011 1/2:148:0,68,79:0:0:68,79:2346,2687:-408.5,-217.917,-197.447,-190.566,0,-166.785 1/2:159:0,69,90:0:0:69,90:2400,3089:-446.282,-251.144,-230.373,-195.484,0,-168.391 1/2:225:0,127,97:0:0:127,97:4364,3273:-619.402,-265.04,-226.809,-354.343,0,-325.143 1/1:310:0,306,1:0:0:306,1:10513,32:-945.807,-92.1152,0,-943.229,-89.5356,-942.928 1/1:181:0,178,1:0:0:178,1:6132,32:-551.675,-53.5833,0,-549.097,-51,-548.796 1/1:279:0,278,0:0:0:278,0:9423,0:-847.704,-83.6863,0,-847.704,-83.6863,-847.704 2/2:155:0,0,155:0:0:0,155:0,5207:-468.752,-468.752,-468.752,-46.6597,-46.6597,0 1/2:233:0,115,117:0:0:115,117:4025,3996:-651.873,-324.396,-289.778,-327.601,0,-292.38 1/2:14:0,3,11:0:0:3,11:108,372:-39.3094,-30.4925,-29.5894,-9.17208,0,-5.86075 1/2:8:0,2,6:0:0:2,6:72,184:-20.944,-15.0558,-14.4538,-6.23466,0,-4.42848 1/2:29:0,13,16:0:0:13,16:430,536:-78.5096,-43.7401,-39.8268,-35.1019,0,-30.2855 1/2:165:0,80,85:0:0:80,85:2803,2864:-460.488,-232.404,-208.321,-228.428,0,-202.841 1/1:135:0,131,0:0:0:131,0:4508,0:-405.631,-39.4349,0,-405.631,-39.4349,-405.631 1/1:246:0,246,0:0:0:246,0:8369,0:-753.246,-74.0534,0,-753.246,-74.0534,-753.246 1/1:120:0,119,0:0:0:119,0:4131,0:-371.701,-35.8226,0,-371.701,-35.8226,-371.701 1/1:146:0,146,0:0:0:146,0:4976,0:-447.98,-43.9504,0,-447.98,-43.9504,-447.98 1/2:51:0,27,24:0:0:27,24:907,826:-140.897,-67.4294,-59.3016,-73.8078,0,-66.583 1/2:35:0,19,16:0:0:19,16:645,520:-94.6066,-42.2907,-36.5712,-52.6474,0,-47.8309 1/1:189:0,184,5:0:0:184,5:6300,180:-566.723,-55.3895,0,-552.035,-40.3426,-550.53 1/1:21:0,21,0:0:0:21,0:721,0:-65.2065,-6.32163,0,-65.2065,-6.32163,-65.2065 chr08 17112025 . CCAATT CCAAATT,CTAAATT 38560.6 PASS AB=0.411215,0.582555;ABP=46.9674,41.0144;AC=26,16;AF=0.619048,0.380952;AN=42;AO=948,1055;CIGAR=2M1I4M,1M1I1X4M;DP=2015;DPB=2350;DPRA=1.60164,1.21905;EPP=2061.57,2293.91;EPPR=0;GTI=2;LEN=1,7;MEANALT=2.4,2.47059;MQM=59.6329,35.1251;MQMR=0;NS=21;NUMALT=2;ODDS=0.482877;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32853,35939;QR=0;RO=0;RPL=0,0;RPP=2061.57,2293.91;RPPR=0;RPR=948,1055;RUN=1,1;SAF=0,0;SAP=2061.57,2293.91;SAR=948,1055;SRF=0;SRP=0;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,53,45:0:0:53,45:1835,1515:-261.133,-111.999,-96.0446,-149.46,0,-135.913 1/2:42:0,23,19:0:0:23,19:815,655:-115.331,-48.9177,-41.994,-66.7471,0,-61.0275 1/2:46:0,19,25:0:0:19,25:652,843:-115.427,-62.4774,-56.7579,-52.9933,0,-45.4675 1/2:47:0,24,23:0:0:24,23:851,780:-127.379,-58.0383,-50.8136,-69.6735,0,-62.7498 1/1:155:0,153,0:0:0:153,0:5266,0:-473.592,-46.0576,0,-473.592,-46.0576,-473.592 1/1:30:0,29,1:0:0:29,1:995,36:-89.5242,-8.72987,0,-86.8566,-5.73188,-86.5555 1/1:103:0,102,1:0:0:102,1:3479,36:-312.975,-30.7051,0,-310.307,-27.7071,-310.006 2/2:61:0,0,61:0:0:0,61:0,2111:-174.119,-174.119,-174.119,-18.3628,-18.3628,0 1/2:92:0,45,47:0:0:45,47:1556,1650:-250.657,-124.218,-110.672,-126.775,0,-112.627 2/2:234:0,4,229:0:0:4,229:140,7769:-643.078,-631.687,-630.483,-68.9359,-57.553,0 2/2:195:0,5,189:0:0:5,189:176,6457:-539.527,-525.216,-523.711,-56.8947,-42.5082,0 2/2:205:0,8,195:0:0:8,195:269,6575:-545.912,-524.127,-521.719,-58.7009,-36.8786,0 1/2:48:0,24,23:0:0:24,23:829,772:-124.511,-57.2675,-50.0428,-67.2325,0,-60.3088 1/1:33:0,31,1:0:0:31,1:1085,35:-97.5129,-9.33193,0,-94.9357,-6.76344,-94.6347 1/1:78:0,77,0:0:0:77,0:2688,0:-241.924,-23.1793,0,-241.924,-23.1793,-241.924 1/1:109:0,106,3:0:0:106,3:3688,106:-331.777,-31.9092,0,-323.756,-23.5574,-322.853 1/1:61:0,61,0:0:0:61,0:2149,0:-193.665,-18.3628,0,-193.665,-18.3628,-193.665 1/2:203:0,20,182:0:0:20,182:686,6215:-514.442,-458.744,-452.723,-55.7357,0,-0.948248 1/2:66:0,56,10:0:0:56,10:1956,349:-185.221,-26.0906,-9.23288,-159.455,0,-156.445 1/1:77:0,76,1:0:0:76,1:2654,35:-238.735,-22.8783,0,-236.158,-19.9803,-235.857 1/1:32:0,32,0:0:0:32,0:1084,0:-97.8618,-9.63296,0,-97.8618,-9.63296,-97.8618 chr08 17112032 . G C 18516.6 PASS AB=0.57764;ABP=36.7288;AC=16;AF=0.380952;AN=42;AO=1066;CIGAR=1X;DP=2065;DPB=2065;DPRA=1.13699;EPP=2317.8;EPPR=2165.8;GTI=2;LEN=1;MEANALT=1.16667;MQM=35.6398;MQMR=59.5351;NS=21;NUMALT=1;ODDS=2.35824;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37995;QR=34975;RO=996;RPL=0;RPP=2317.8;RPPR=2165.8;RPR=1066;RUN=1;SAF=0;SAP=2317.8;SAR=1066;SRF=0;SRP=2165.8;SRR=996;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:54,44:54:1896:44:1575:-97.7944,0,-141.398 0/1:44:25,19:25:870:19:676:-42.1744,0,-65.3692 0/1:49:24,25:24:828:25:888:-58.0093,0,-59.8923 0/1:47:23,23:23:798:23:824:-53.1143,0,-57.9311 0/0:165:165,0:165:5811:0:0:0,-49.6699,-522.956 0/0:30:29,1:29:1005:1:36:0,-5.73187,-87.4559 0/0:111:110,1:110:3853:1:36:0,-30.1153,-343.256 1/1:62:0,61:0:0:61:2160:-175.572,-18.3628,0 0/1:91:45,46:45:1595:46:1638:-108.61,0,-116.44 1/1:237:4,233:4:144:233:8320:-661.868,-58.0305,0 1/1:197:5,192:5:180:192:6837:-548.342,-42.7688,0 1/1:209:8,200:8:288:200:7167:-557.039,-36.6836,0 0/1:47:25,22:25:875:22:775:-49.4959,0,-64.7752 0/0:34:33,1:33:1144:1:36:0,-6.98886,-99.8998 0/0:86:85,1:85:2987:1:36:0,-22.6424,-265.799 0/0:115:112,3:112:3951:3:108:0,-25.2492,-346.375 0/0:66:66,0:66:2331:0:0:0,-19.868,-210.035 0/1:206:23,183:23:811:183:6506:-466.011,0,-11.2801 0/1:62:52,10:52:1821:10:341:-9.6635,0,-145.505 0/0:76:75,1:75:2621:1:36:0,-19.6321,-232.852 0/0:33:33,0:33:1166:0:0:0,-9.93399,-105.243 chr08 17125386 . A G 10520.5 PASS AB=0.659389;ABP=104.074;AC=16;AF=0.380952;AN=42;AO=452;CIGAR=1X;DP=829;DPB=829;DPRA=1.8869;EPP=348.063;EPPR=7.20925;GTI=2;LEN=1;MEANALT=1;MQM=59.9757;MQMR=60;NS=21;NUMALT=1;ODDS=0.911102;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16103;QR=13477;RO=377;RPL=0;RPP=984.516;RPPR=821.655;RPR=452;RUN=1;SAF=360;SAP=348.063;SAR=92;SRF=202;SRP=7.20925;SRR=175;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:3,19:3:108:19:684:-55.2677,0,-3.45251 0/1:15:8,7:8:288:7:252:-18.5135,0,-21.752 0/1:13:6,7:6:212:7:243:-18.2941,0,-15.5114 0/1:37:18,19:18:635:19:667:-49.2165,0,-46.3389 0/0:47:46,1:46:1648:1:36:0,-10.5501,-145.01 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 0/1:60:30,30:30:1072:30:1067:-78.2794,0,-78.7307 0/1:35:6,29:6:212:29:1044:-83.7388,0,-8.88875 1/1:63:0,63:0:0:63:2256:-203.303,-18.9649,0 1/1:58:2,56:2:72:56:2008:-174.157,-10.623,0 0/1:33:16,17:16:576:17:604:-44.7566,0,-42.241 0/0:29:28,1:28:981:1:32:0,-5.53056,-85.4017 0/0:47:47,0:47:1673:0:0:0,-14.1484,-150.855 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:181:24,157:24:864:157:5562:-446.215,0,-23.5961 0/1:53:37,16:37:1332:16:572:-35.8588,0,-104.228 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 chr08 18405100 . C T 28180.3 PASS AB=0.486079;ABP=4.46131;AC=29;AF=0.690476;AN=42;AO=1360;CIGAR=1X;DP=1885;DPB=1885;DPRA=1.15833;EPP=2956.21;EPPR=1132.19;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9882;MQMR=60;NS=21;NUMALT=1;ODDS=10.1871;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48183;QR=18490;RO=524;RPL=1360;RPP=2956.21;RPPR=1123.56;RPR=0;RUN=1;SAF=1360;SAP=2956.21;SAR=0;SRF=523;SRP=1132.19;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:83,78:83:2875:78:2751:-199.368,0,-210.516 0/1:108:44,64:44:1552:64:2253:-170.518,0,-107.458 0/1:70:33,37:33:1180:37:1323:-98.2992,0,-85.4359 0/1:50:31,19:31:1103:19:671:-45.6643,0,-84.5283 1/1:189:1,188:1:36:188:6699:-599.36,-53.2964,0 1/1:100:1,99:1:36:99:3497:-311.342,-26.5047,0 1/1:124:0,124:0:0:124:4389:-395.184,-37.3277,0 0/0:78:78,0:78:2774:0:0:0,-23.4803,-249.901 0/1:186:96,90:96:3406:90:3184:-230.791,0,-250.762 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:41:21,20:21:709:20:700:-50.979,0,-51.7789 0/1:106:58,47:58:2071:47:1663:-118.136,0,-154.84 1/1:46:0,46:0:0:46:1626:-146.627,-13.8474,0 1/1:190:0,190:0:0:190:6723:-605.15,-57.1957,0 1/1:62:0,62:0:0:62:2208:-198.985,-18.6639,0 1/1:75:0,75:0:0:75:2680:-241.445,-22.5773,0 0/1:64:40,24:40:1402:24:856:-58.0952,0,-107.21 0/1:63:28,35:28:986:35:1220:-91.1342,0,-70.0873 1/1:113:1,112:1:36:112:3962:-353.174,-30.4181,0 1/1:46:1,45:1:36:45:1598:-140.51,-10.2491,0 chr08 18405188 . G T,C 65590.4 PASS AB=0.51889,0.48111;ABP=7.03012,7.03012;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2205,814;CIGAR=1X,1X;DP=3019;DPB=3019;DPRA=0.77038,0.86093;EPP=4791.11,1770.59;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.75,1.9375;MQM=59.9864,59.9914;MQMR=0;NS=21;NUMALT=2;ODDS=8.74059;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=78930,29036;QR=0;RO=0;RPL=2205,814;RPP=4791.11,1770.59;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4791.11,1770.59;SAR=2205,814;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:168:0,87,81:0:0:87,81:3116,2885:-489.622,-235.502,-209.312,-254.477,0,-230.094 1/2:138:0,72,66:0:0:72,66:2552,2334:-398.353,-190.449,-168.775,-208.258,0,-188.39 1/2:111:0,57,54:0:0:57,54:2048,1917:-323.625,-156.549,-139.391,-167.433,0,-151.177 1/2:215:0,125,90:0:0:125,90:4484,3228:-629.387,-263.649,-226.02,-366.097,0,-339.004 1/1:316:0,315,1:0:0:315,1:11269,36:-1013.7,-94.8245,0,-1010.76,-91.5272,-1010.46 1/1:135:0,133,2:0:0:133,2:4788,72:-430.714,-40.037,0,-424.839,-33.8023,-424.237 1/1:191:0,190,1:0:0:190,1:6782,36:-610.083,-57.1957,0,-607.146,-53.8985,-606.845 2/2:184:0,0,184:0:0:0,184:0,6558:-590.297,-590.297,-590.297,-55.3895,-55.3895,0 1/2:297:0,144,153:0:0:144,153:5164,5472:-867.742,-446.549,-403.2,-421.551,0,-375.494 1/2:13:0,5,8:0:0:5,8:180,288:-38.5463,-23.8592,-22.354,-15.0469,0,-12.6387 1/2:9:0,4,5:0:0:4,5:140,180:-26.4331,-15.0469,-13.8428,-11.7405,0,-10.2353 1/2:37:0,12,25:0:0:12,25:428,892:-107.964,-73.0739,-69.4616,-35.2464,0,-27.7207 1/2:174:0,79,95:0:0:79,95:2831,3378:-506.526,-275.636,-251.855,-231.247,0,-202.649 1/1:163:0,163,0:0:0:163,0:5856,0:-527.149,-49.0679,0,-527.149,-49.0679,-527.149 1/1:260:0,260,0:0:0:260,0:9298,0:-836.784,-78.2678,0,-836.784,-78.2678,-836.784 1/1:153:0,153,0:0:0:153,0:5460,0:-491.53,-46.0576,0,-491.53,-46.0576,-491.53 1/1:166:0,166,0:0:0:166,0:5932,0:-533.99,-49.971,0,-533.99,-49.971,-533.99 1/2:55:0,30,25:0:0:30,25:1080,900:-161.918,-73.7953,-64.7644,-88.4823,0,-80.9566 1/2:80:0,58,22:0:0:58,22:2088,788:-234.994,-64.6221,-47.1624,-170.73,0,-164.107 1/1:92:0,90,2:0:0:90,2:3202,72:-288.041,-27.0927,0,-282.166,-20.858,-281.564 1/1:62:0,62,0:0:0:62,0:2232,0:-201.144,-18.6639,0,-201.144,-18.6639,-201.144 chr08 18476529 . CG AG,AC 28892.5 PASS AB=0.402685,0.59396;ABP=52.036,48.7132;AC=29,13;AF=0.690476,0.309524;AN=42;AO=919,416;CIGAR=1X1M,2X;DP=1337;DPB=1337;DPRA=1.31429,0.901217;EPP=1946.82,889.055;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.8,2.06667;MQM=59.6703,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.62569;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32882,14718;QR=0;RO=0;RPL=6,2;RPP=1946.82,889.055;RPPR=0;RPR=913,414;RUN=1,1;SAF=919,416;SAP=1998.59,906.343;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:91:0,17,74:0:0:17,74:612,2658:-267.126,-217.19,-212.072,-50.2959,0,-28.0197 1/2:60:0,17,43:0:0:17,43:612,1546:-176.425,-126.489,-121.371,-50.2959,0,-37.3516 1/2:51:0,16,35:0:0:16,35:561,1201:-143.504,-97.8518,-93.0354,-46.0006,0,-35.4646 1/2:38:0,18,20:0:0:18,20:648,700:-110.18,-57.3015,-51.8829,-53.2333,0,-47.2127 1/1:173:0,163,10:0:0:163,10:5832,358:-524.479,-49.0679,0,-495.285,-19.5153,-492.274 1/1:62:0,60,2:0:0:60,2:2126,72:-191.237,-18.0618,0,-185.362,-11.8271,-184.76 1/1:117:0,117,0:0:0:117,0:4200,0:-378.17,-35.2205,0,-378.17,-35.2205,-378.17 2/2:49:0,0,49:0:0:0,49:0,1716:-154.721,-154.721,-154.721,-14.7505,-14.7505,0 1/2:126:0,74,51:0:0:74,51:2659,1813:-364.589,-147.777,-125.501,-216.848,0,-201.495 1/2:22:0,8,14:0:0:8,14:288,480:-62.8155,-39.31,-36.9017,-23.8592,0,-19.6447 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/2:31:0,11,20:0:0:11,20:396,697:-89.3457,-57.03,-53.7187,-32.6714,0,-26.6508 1/2:29:0,12,17:0:0:12,17:428,601:-84.1921,-49.3009,-45.6885,-35.2464,0,-30.1289 1/1:76:0,76,0:0:0:76,0:2673,0:-240.497,-22.8783,0,-240.497,-22.8783,-240.497 1/1:85:0,85,0:0:0:85,0:3043,0:-274.09,-25.5876,0,-274.09,-25.5876,-274.09 1/1:62:0,62,0:0:0:62,0:2228,0:-200.784,-18.6639,0,-200.784,-18.6639,-200.784 1/1:50:0,50,0:0:0:50,0:1796,0:-161.873,-15.0515,0,-161.873,-15.0515,-161.873 1/2:99:0,40,58:0:0:40,58:1440,2052:-284.758,-167.258,-155.217,-117.623,0,-100.164 1/2:44:0,26,18:0:0:26,18:936,644:-129.246,-52.8723,-45.0455,-76.7327,0,-71.3141 1/1:46:0,45,1:0:0:45,1:1612,36:-145.01,-13.5464,0,-142.073,-10.2491,-141.772 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 chr08 18476536 . T C 18416.5 PASS AB=0.403114;ABP=50.1365;AC=29;AF=0.690476;AN=42;AO=898;CIGAR=1X;DP=1303;DPB=1303;DPRA=1.33617;EPP=1952.99;EPPR=882.457;GTI=0;LEN=1;MEANALT=1;MQM=59.6804;MQMR=60;NS=21;NUMALT=1;ODDS=3.68947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31953;QR=14512;RO=405;RPL=898;RPP=1952.99;RPPR=882.457;RPR=0;RUN=1;SAF=898;SAP=1952.99;SAR=0;SRF=405;SRP=882.457;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:71,17:71:2544:17:608:-28.5614,0,-202.72 0/1:58:42,16:42:1512:16:564:-33.6306,0,-118.915 0/1:48:32,16:32:1139:16:563:-36.5497,0,-88.3689 0/1:36:19,17:19:680:17:608:-44.2149,0,-50.6921 1/1:169:10,159:10:360:159:5660:-476.61,-18.1298,0 1/1:62:2,60:2:72:60:2147:-186.659,-11.8271,0 1/1:115:0,115:0:0:115:4098:-368.994,-34.6185,0 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 0/1:120:50,70:50:1800:70:2484:-187.688,0,-126.159 0/1:21:14,7:14:491:7:252:-16.7073,0,-38.1995 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:31:20,11:20:716:11:396:-26.6508,0,-55.4358 0/1:29:17,12:17:612:12:428:-30.1289,0,-46.6836 1/1:72:0,72:0:0:72:2526:-227.311,-21.6742,0 1/1:84:0,84:0:0:84:2995:-269.776,-25.2865,0 1/1:59:0,59:0:0:59:2120:-191.068,-17.7608,0 1/1:50:0,50:0:0:50:1776:-160.074,-15.0515,0 0/1:98:58,40:58:2079:40:1419:-98.4881,0,-157.879 0/1:44:18,26:18:639:26:923:-70.1414,0,-44.5929 1/1:46:1,45:1:36:45:1598:-140.51,-10.2491,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 chr08 18476553 . G A 18513 PASS AB=0.412174;ABP=41.5341;AC=29;AF=0.690476;AN=42;AO=910;CIGAR=1X;DP=1308;DPB=1308;DPRA=1.34149;EPP=1979.05;EPPR=862.913;GTI=0;LEN=1;MEANALT=1.05;MQM=59.6549;MQMR=60;NS=21;NUMALT=1;ODDS=5.45974;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32171;QR=14107;RO=396;RPL=910;RPP=1979.05;RPPR=862.913;RPR=0;RUN=1;SAF=910;SAP=1979.05;SAR=0;SRF=396;SRP=862.913;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:69,17:69:2472:17:604:-28.4829,0,-196.529 0/1:57:41,16:41:1468:16:568:-34.2932,0,-115.257 0/1:48:32,16:32:1136:16:572:-37.364,0,-88.0995 0/1:35:18,17:18:648:17:600:-43.7931,0,-48.1158 1/1:172:10,162:10:360:162:5700:-480.275,-19.0329,0 1/1:61:2,59:2:72:59:2084:-180.988,-11.5261,0 1/1:117:0,117:0:0:117:4143:-373.046,-35.2205,0 0/0:47:47,0:47:1659:0:0:0,-14.1484,-149.597 0/1:123:50,73:50:1779:73:2591:-196.364,0,-123.365 0/1:21:13,8:13:453:8:284:-19.5817,0,-34.778 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:31:20,11:20:716:11:392:-26.2881,0,-55.4358 0/1:28:16,12:16:576:12:428:-30.43,0,-43.7461 1/1:73:0,73:0:0:73:2570:-231.135,-21.9752,0 1/1:85:0,85:0:0:85:3006:-270.76,-25.5876,0 1/1:60:0,60:0:0:60:2124:-191.429,-18.0618,0 1/1:51:0,51:0:0:51:1811:-163.221,-15.3525,0 0/1:96:57,39:57:2016:39:1372:-94.8726,0,-152.812 0/1:44:17,27:17:608:27:955:-73.0195,0,-41.8067 1/1:46:1,45:1:36:45:1583:-139.161,-10.2491,0 1/1:21:0,21:0:0:21:748:-67.6453,-6.32163,0 chr08 18476561 . TAC TTC,TC 26885.4 PASS AB=0.411765,0.582888;ABP=40.9472,36.4881;AC=29,13;AF=0.690476,0.309524;AN=42;AO=894,382;CIGAR=1M1X1M,1M1D1M;DP=1282;DPB=1155.67;DPRA=1.4407,0.866173;EPP=1944.31,832.513;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.95,2.06667;MQM=59.6935,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.16359;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=36;PRO=1;QA=31762,13317;QR=0;RO=0;RPL=894,382;RPP=1944.31,832.513;RPPR=0;RPR=0,0;RUN=1,1;SAF=894,382;SAP=1944.31,832.513;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,17,70:0:0:17,70:612,2444:-249.081,-199.143,-194.025,-50.2959,0,-29.2238 1/2:59:0,17,42:0:0:17,42:604,1488:-170.79,-121.571,-116.454,-49.5731,0,-36.9298 1/2:46:0,15,31:0:0:15,31:540,1086:-132.78,-88.7156,-84.2002,-44.4211,0,-35.0892 1/2:34:0,18,16:0:0:18,16:640,550:-97.1685,-45.0069,-39.5883,-52.5108,0,-47.6943 1/1:167:0,158,9:0:0:158,9:5629,320:-506.216,-47.5627,0,-480.138,-21.1297,-477.429 1/1:60:0,58,2:0:0:58,2:2071,68:-186.283,-17.4597,0,-180.768,-11.6305,-180.165 1/1:113:0,112,0:0:0:112,0:3969,0:-357.033,-33.7154,0,-357.033,-33.7154,-357.033 2/2:43:0,0,43:0:0:0,43:0,1452:-130.968,-130.968,-130.968,-12.9443,-12.9443,0 1/2:121:0,70,49:0:0:70,49:2485,1722:-342.698,-140.221,-119.149,-202.537,0,-187.787 1/2:19:0,8,11:0:0:8,11:279,366:-52.6471,-29.9497,-27.5415,-23.0393,0,-19.728 1/2:5:0,1,4:0:0:1,4:36,140:-14.6799,-11.7405,-11.4394,-3.29724,0,-2.09312 1/2:29:0,11,18:0:0:11,18:396,644:-85.1845,-52.8721,-49.5607,-32.6714,0,-27.2529 1/2:28:0,11,17:0:0:11,17:392,585:-79.7608,-47.8047,-44.4933,-32.2607,0,-27.1432 1/1:74:0,74,0:0:0:74,0:2593,0:-233.242,-22.2762,0,-233.242,-22.2762,-233.242 1/1:86:0,86,0:0:0:86,0:3080,0:-277.42,-25.8886,0,-277.42,-25.8886,-277.42 1/1:61:0,60,0:0:0:60,0:2140,0:-192.616,-18.0618,0,-192.616,-18.0618,-192.616 1/1:50:0,49,0:0:0:49,0:1729,0:-155.641,-14.7505,0,-155.641,-14.7505,-155.641 1/2:91:0,37,53:0:0:37,53:1306,1852:-256.986,-150.643,-139.505,-106.335,0,-90.3805 1/2:42:0,26,16:0:0:26,16:910,564:-120.31,-46.2738,-38.447,-74.3873,0,-69.5708 1/1:46:0,45,1:0:0:45,1:1608,36:-144.65,-13.5464,0,-141.713,-10.2491,-141.412 1/1:21:0,21,0:0:0:21,0:743,0:-67.1933,-6.32163,0,-67.1933,-6.32163,-67.1933 chr08 18476735 . GGGAGGAGAAC GGAAGGAGCAC,GGGAGAAC 37497 PASS AB=0.539846,0.451157;ABP=13.7393,19.1317;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1377,437;CIGAR=2M1X5M1X2M,1M3D7M;DP=1828;DPB=1708.55;DPRA=1.02529,0.685104;EPP=2993.13,951.944;EPPR=0;GTI=2;LEN=11,3;MEANALT=2.2,2.38462;MQM=42.1511,38.2838;MQMR=0;NS=21;NUMALT=2;ODDS=5.75493;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48760,15319;QR=0;RO=0;RPL=1361,437;RPP=2855.77,951.944;RPPR=0;RPR=16,0;RUN=1,1;SAF=1361,437;SAP=2855.77,951.944;SAR=16,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,46,34:0:0:46,34:1621,1178:-219.623,-90.6578,-76.8104,-128.956,0,-118.721 1/2:44:0,23,21:0:0:23,21:815,693:-114.005,-50.7422,-43.8185,-63.5816,0,-57.26 1/2:95:0,47,48:0:0:47,48:1684,1690:-264.648,-130.773,-116.625,-134.218,0,-119.768 1/2:120:0,56,63:0:0:56,63:1964,2229:-327.569,-171.588,-154.731,-155.969,0,-137.004 1/1:236:0,235,0:0:0:235,0:8305,0:-731.326,-70.7421,0,-731.326,-70.7421,-731.326 1/1:100:0,100,0:0:0:100,0:3574,0:-303.471,-30.103,0,-303.471,-30.103,-303.471 1/1:147:0,146,0:0:0:146,0:5171,0:-439.711,-43.9504,0,-439.711,-43.9504,-439.711 2/2:85:0,0,85:0:0:0,85:0,2960:-249.116,-249.116,-249.116,-25.5876,-25.5876,0 1/2:242:0,123,118:0:0:123,118:4366,4184:-677.175,-327.134,-290.108,-350.051,0,-314.529 1/2:10:0,4,6:0:0:4,6:135,208:-26.7205,-16.111,-14.9069,-10.9367,0,-9.13048 1/2:15:0,10,2:0:0:10,2:352,68:-31.9682,-4.98185,-1.97155,-26.9939,0,-26.3919 1/2:16:0,6,10:0:0:6,10:216,360:-44.5346,-27.4396,-25.6335,-17.4391,0,-14.4288 1/2:90:0,53,37:0:0:53,37:1884,1299:-250.392,-100.43,-84.475,-150.302,0,-139.164 1/1:82:0,82,0:0:0:82,0:2893,0:-254.621,-24.6845,0,-254.621,-24.6845,-254.621 1/1:130:0,127,0:0:0:127,0:4500,0:-395.451,-38.2308,0,-395.451,-38.2308,-395.451 1/1:65:0,64,0:0:0:64,0:2289,0:-202.883,-19.2659,0,-202.883,-19.2659,-202.883 1/1:83:0,83,0:0:0:83,0:2937,0:-260.757,-24.9855,0,-260.757,-24.9855,-260.757 1/2:30:0,24,5:0:0:24,5:845,162:-78.3289,-11.9673,-4.74261,-66.3657,0,-64.8606 1/2:35:0,28,7:0:0:28,7:1002,252:-99.1988,-19.6622,-11.2334,-79.8785,0,-77.7713 1/1:100:0,98,1:0:0:98,1:3439,36:-298.669,-29.5009,0,-295.958,-26.7181,-295.657 1/1:22:0,22,0:0:0:22,0:768,0:-65.1675,-6.62266,0,-65.1675,-6.62266,-65.1675 chr08 18734574 . G A 87759.4 PASS AB=0.499299;ABP=3.01944;AC=29;AF=0.690476;AN=42;AO=3281;CIGAR=1X;DP=4711;DPB=4711;DPRA=0;EPP=7127.61;EPPR=3106.04;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9576;MQMR=59.9902;NS=21;NUMALT=1;ODDS=30.0905;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=116638;QR=50775;RO=1429;RPL=1495;RPP=59.0549;RPPR=6.6588;RPR=1786;RUN=1;SAF=1495;SAP=59.0549;SAR=1786;SRF=690;SRP=6.6588;SRR=739;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:221:130,91:130:4585:91:3194:-221.152,0,-346.275 0/1:252:123,129:123:4381:129:4615:-339.654,0,-318.604 0/1:232:123,109:123:4397:109:3874:-278.99,0,-326.063 0/1:220:121,99:121:4272:99:3539:-252.492,0,-318.433 1/1:318:4,314:4:144:314:11154:-990.429,-82.4139,0 1/1:217:2,215:2:72:215:7675:-683.948,-58.4868,0 1/1:331:2,329:2:72:329:11649:-1041.42,-92.8042,0 0/0:343:342,1:342:12182:1:36:0,-99.655,-1092.63 0/1:365:182,182:182:6433:182:6424:-468.315,0,-469.126 0/1:72:42,30:42:1512:30:1076:-75.4787,0,-114.7 0/1:19:14,5:14:500:5:180:-10.8325,0,-39.6166 0/1:103:48,55:48:1716:55:1972:-146.749,0,-123.72 0/1:200:102,98:102:3640:98:3480:-253.205,0,-267.6 1/1:273:0,273:0:0:273:9735:-876.099,-82.1812,0 1/1:349:0,349:0:0:349:12368:-1112.88,-105.059,0 1/1:193:0,193:0:0:193:6879:-619.179,-58.0988,0 1/1:228:0,228:0:0:228:8105:-729.46,-68.6348,0 0/1:275:130,145:130:4586:145:5186:-384.091,0,-330.125 0/1:180:55,125:55:1972:125:4456:-347.018,0,-123.569 1/1:193:8,185:8:275:185:6593:-568.369,-33.0153,0 1/1:127:1,126:1:36:126:4448:-396.894,-34.6325,0 chr08 18888485 . T A 31518.3 PASS AB=0.469899;ABP=22.4886;AC=13;AF=0.309524;AN=42;AO=1397;CIGAR=1X;DP=5230;DPB=5230;DPRA=1.04046;EPP=3036.56;EPPR=8306.72;GTI=0;LEN=1;MEANALT=1.25;MQM=59.8067;MQMR=59.9558;NS=21;NUMALT=1;ODDS=6.78881;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48823;QR=136447;RO=3824;RPL=720;RPP=5.88435;RPPR=104.136;RPR=677;RUN=1;SAF=720;SAP=5.88435;SAR=677;SRF=2123;SRP=104.136;SRR=1701;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:377:185,191:185:6579:191:6606:-481.064,0,-478.537 0/1:278:136,142:136:4858:142:4986:-364.597,0,-353.681 0/1:212:115,97:115:4106:97:3352:-238.072,0,-305.906 0/1:218:108,110:108:3847:110:3897:-285.294,0,-280.803 0/0:395:386,9:386:13777:9:320:0,-89.7645,-1210.53 0/0:185:185,0:185:6626:0:0:0,-55.6905,-596.1 0/0:469:465,1:465:16527:1:32:0,-137.41,-1483.89 1/1:224:1,221:1:36:221:7697:-689.129,-63.5902,0 0/1:615:326,289:326:11653:289:10204:-733.164,0,-863.502 0/1:27:13,14:13:468:14:491:-36.3933,0,-34.3318 0/1:25:18,7:18:644:7:240:-14.4089,0,-50.7648 0/1:56:36,20:36:1287:20:684:-45.0179,0,-99.2751 0/1:305:165,139:165:5928:139:4858:-345.48,0,-441.753 0/0:318:316,0:316:11284:0:0:0,-95.1255,-1015.1 0/0:350:350,0:350:12511:0:0:0,-105.36,-1125.82 0/0:205:205,0:205:7282:0:0:0,-61.7111,-655.435 0/0:234:233,1:233:8304:1:36:0,-66.8427,-743.771 0/1:186:91,95:91:3256:95:3334:-244.276,0,-237.269 0/1:176:117,59:117:4129:59:2014:-128.546,0,-318.114 0/0:225:223,2:223:7965:2:72:0,-60.895,-710.034 0/0:150:150,0:150:5380:0:0:0,-45.1545,-484.141 chr08 18888536 . ACCA GCCA,GCCG 82276 PASS AB=0.507159,0.49174;ABP=3.81862,4.08647;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2780,1058;CIGAR=1X3M,1X2M1X;DP=3841;DPB=3841.5;DPRA=1.26541,1.09963;EPP=6039.7,2300.43;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.8,2.0625;MQM=59.9885,60;MQMR=0;NS=21;NUMALT=2;ODDS=31.5127;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,72;PQR=0;PRO=0;QA=99223,37593;QR=0;RO=0;RPL=0,0;RPP=6039.7,2300.43;RPPR=0;RPR=2780,1058;RUN=1,1;SAF=2780,1058;SAP=6039.7,2300.43;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:104:0,40,64:0:0:40,64:1432,2272:-302.255,-185.475,-173.434,-117.136,0,-97.8705 1/2:200:0,115,85:0:0:115,85:4081,3002:-577.329,-244.823,-210.205,-332.859,0,-307.272 1/2:255:0,142,113:0:0:142,113:5100,4005:-742.303,-326.265,-283.518,-416.035,0,-382.019 1/2:111:0,62,49:0:0:62,49:2228,1750:-324.796,-143.034,-124.37,-182.12,0,-167.37 1/1:399:0,385,14:0:0:385,14:13708,485:-1233.13,-115.897,0,-1193.71,-76.1337,-1189.5 1/1:140:0,140,0:0:0:140,0:4986,0:-448.887,-42.1442,0,-448.887,-42.1442,-448.887 1/1:294:0,293,1:0:0:293,1:10470,36:-941.857,-88.2018,0,-938.919,-84.9045,-938.618 2/2:146:0,0,145:0:0:0,145:0,5164:-464.543,-464.543,-464.543,-43.6494,-43.6494,0 1/2:479:0,220,259:0:0:220,259:7885,9202:-1393.28,-750.192,-683.965,-643.446,0,-565.479 1/2:44:0,27,17:0:0:27,17:953,604:-127.174,-49.573,-41.4452,-77.9555,0,-72.838 1/2:20:0,9,11:0:0:9,11:324,391:-58.6572,-32.2184,-29.5091,-26.7966,0,-23.4853 1/2:73:0,30,43:0:0:30,43:1072,1534:-212.814,-125.409,-116.378,-87.7616,0,-74.8173 1/2:186:0,101,85:0:0:101,85:3594,3021:-539.438,-246.533,-216.129,-293.261,0,-267.673 1/1:198:0,194,4:0:0:194,4:6930,135:-623.427,-58.3998,0,-612.485,-47.1208,-611.281 1/1:281:0,281,0:0:0:281,0:10057,0:-905.053,-84.5894,0,-905.053,-84.5894,-905.053 1/1:162:0,162,0:0:0:162,0:5778,0:-520.127,-48.7669,0,-520.127,-48.7669,-520.127 1/1:171:0,171,0:0:0:171,0:6075,0:-546.853,-51.4761,0,-546.853,-51.4761,-546.853 1/2:255:0,112,141:0:0:112,141:3982,5033:-734.847,-410.349,-376.633,-324.53,0,-282.084 1/2:89:0,63,26:0:0:63,26:2268,923:-260.622,-75.561,-56.5961,-185.417,0,-177.59 1/1:138:0,137,1:0:0:137,1:4874,36:-438.453,-41.2411,0,-435.515,-37.9439,-435.214 1/1:96:0,96,0:0:0:96,0:3426,0:-308.551,-28.8989,0,-308.551,-28.8989,-308.551 chr08 19903530 . G A 10659.9 PASS AB=0.461263;ABP=13.9453;AC=13;AF=0.309524;AN=42;AO=477;CIGAR=1X;DP=1750;DPB=1750;DPRA=1.21233;EPP=1038.8;EPPR=2767.29;GTI=1;LEN=1;MEANALT=1;MQM=59.9874;MQMR=60;NS=21;NUMALT=1;ODDS=4.45325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16714;QR=45411;RO=1273;RPL=182;RPP=61.1393;RPPR=3.50327;RPR=295;RUN=1;SAF=182;SAP=61.1393;SAR=295;SRF=628;SRP=3.50327;SRR=645;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:47,48:47:1673:48:1637:-119.015,0,-122.257 0/1:39:12,27:12:432:27:936:-72.8109,0,-27.481 0/1:63:35,28:35:1260:28:1008:-72.0715,0,-94.7406 0/1:85:40,45:40:1418:45:1549:-114.107,0,-102.328 0/0:168:167,1:167:5967:1:32:0,-47.3737,-533.938 0/0:62:62,0:62:2211:0:0:0,-18.6639,-199.254 0/0:86:86,0:86:3073:0:0:0,-25.8886,-276.797 1/1:87:0,87:0:0:87:3064:-275.987,-26.1896,0 0/1:94:44,50:44:1559:50:1792:-133.266,0,-112.304 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/1:38:31,7:31:1112:7:252:-11.5898,0,-88.9522 0/1:119:58,61:58:2063:61:2142:-157.222,0,-150.118 0/0:92:92,0:92:3279:0:0:0,-27.6948,-295.33 0/0:95:95,0:95:3402:0:0:0,-28.5978,-306.393 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:32:32,0:32:1139:0:0:0,-9.63296,-102.818 0/1:122:64,58:64:2292:58:2031:-146.337,0,-169.816 0/1:173:113,60:113:4025:60:2106:-137.731,0,-310.36 0/0:145:143,2:143:5123:2:57:0,-38.236,-455.798 0/0:109:109,0:109:3843:0:0:0,-32.8123,-346.066 chr08 20329972 . GAAG TAAT 8451.85 PASS AB=0.5;ABP=3.0103;AC=12;AF=0.285714;AN=42;AO=538;CIGAR=1X2M1X;DP=1825;DPB=1825;DPRA=1.02414;EPP=1171.26;EPPR=2784.67;GTI=0;LEN=4;MEANALT=1.23077;MQM=38.316;MQMR=59.8587;NS=21;NUMALT=1;ODDS=6.36154;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18894;QR=45468;RO=1281;RPL=0;RPP=1171.26;RPPR=2784.67;RPR=538;RUN=1;SAF=538;SAP=1171.26;SAR=0;SRF=1281;SRP=2784.67;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:53,42:53:1881:42:1475:-97.8027,0,-140.97 0/1:53:21,32:21:744:32:1110:-79.4369,0,-51.3296 0/1:108:50,57:50:1774:57:2009:-139.07,0,-127.376 0/1:147:79,68:79:2812:68:2393:-159.881,0,-209.066 0/0:197:196,0:196:6964:0:0:0,-59.0019,-626.459 0/0:82:79,2:79:2826:2:56:0,-19.4829,-249.319 0/0:112:112,0:112:3964:0:0:0,-33.7154,-356.951 1/1:111:0,111:0:0:111:3886:-333.329,-33.4143,0 0/1:177:81,95:81:2899:95:3335:-228.393,0,-207.951 0/1:12:3,9:3:108:9:317:-24.0492,0,-6.46121 0/0:4:4,0:4:127:0:0:0,-1.20412,-11.7437 0/1:26:14,12:14:504:12:420:-28.6897,0,-37.8698 0/1:103:52,51:52:1850:51:1809:-121.613,0,-135.773 0/0:151:150,0:150:5294:0:0:0,-45.1545,-476.267 0/0:80:80,0:80:2843:0:0:0,-24.0824,-256.088 0/0:46:46,0:46:1635:0:0:0,-13.8474,-147.436 0/0:63:63,0:63:2237:0:0:0,-18.9649,-201.594 0/1:81:43,38:43:1518:38:1339:-91.1039,0,-112.527 0/1:46:26,20:26:927:20:709:-46.8376,0,-69.8931 0/0:99:98,1:98:3455:1:36:0,-26.3784,-307.656 0/0:32:31,0:31:1106:0:0:0,-9.33193,-99.4903 chr08 20633346 . GTTC GTTT,ATTT 50962.3 PASS AB=0.733749,0.263134;ABP=1068.93,1097.54;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1874,600;CIGAR=3M1X,1X2M1X;DP=2481;DPB=2481;DPRA=0,2.64377;EPP=3858.1,1203.75;EPPR=0;GTI=3;LEN=1,4;MEANALT=2.19048,2.31579;MQM=59.9851,59.8183;MQMR=0;NS=21;NUMALT=2;ODDS=2.2629;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66984,21103;QR=0;RO=0;RPL=25,12;RPP=3858.1,1203.75;RPPR=0;RPR=1849,588;RUN=1,1;SAF=1874,600;SAP=4072.35,1305.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:75:0,66,9:0:0:66,9:2372,322:-220.127,-26.615,-6.74703,-193.87,0,-191.16 1/2:95:0,74,21:0:0:74,21:2652,739:-276.808,-60.5111,-38.2349,-216.65,0,-210.328 1/2:151:0,106,45:0:0:106,45:3808,1591:-440.557,-129.905,-97.9961,-311.007,0,-297.461 1/1:140:0,131,9:0:0:131,9:4699,306:-422.727,-39.4349,0,-397.909,-14.2754,-395.2 1/2:233:0,180,53:0:0:180,53:6407,1884:-676.041,-153.861,-99.6757,-522.535,0,-506.581 1/2:104:0,73,30:0:0:73,30:2618,1048:-298.928,-85.385,-63.4098,-213.682,0,-204.651 1/2:83:0,57,26:0:0:57,26:2044,918:-241.806,-75.0879,-57.9292,-167.073,0,-159.246 1/1:85:0,85,0:0:0:85,0:3033,0:-273.199,-25.5876,0,-273.199,-25.5876,-273.199 1/2:236:0,200,35:0:0:200,35:7133,1228:-681.035,-100.052,-39.8463,-581.101,0,-570.565 1/2:18:0,16,2:0:0:16,2:572,72:-52.8721,-6.23466,-1.41818,-46.9969,0,-46.3949 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/2:49:0,39,10:0:0:39,10:1396,346:-142.313,-28.4628,-16.7226,-114.199,0,-111.189 1/2:102:0,82,20:0:0:82,20:2914,711:-295.751,-58.2958,-33.6113,-237.811,0,-231.79 1/2:103:0,50,53:0:0:50,53:1788,1860:-297.521,-151.724,-136.672,-146.151,0,-130.197 1/2:205:0,136,69:0:0:136,69:4878,2412:-594.44,-196.561,-155.621,-398.231,0,-377.46 1/2:114:0,63,51:0:0:63,51:2251,1810:-331.248,-147.715,-128.75,-183.888,0,-168.536 1/2:95:0,54,40:0:0:54,40:1925,1413:-272.058,-115.142,-98.8862,-156.988,0,-144.947 1/2:294:0,248,46:0:0:248,46:8854,1610:-853.176,-131.339,-56.6834,-722.188,0,-708.341 1/2:116:0,90,23:0:0:90,23:3216,802:-327.506,-65.2805,-38.1878,-262.282,0,-255.358 1/2:75:0,53,22:0:0:53,22:1892,769:-217.159,-62.9071,-46.9525,-154.604,0,-147.981 1/2:98:0,61,36:0:0:61,36:2172,1262:-279.785,-102.755,-84.3917,-177.11,0,-166.273 chr08 20633359 . A G 5732.18 PASS AB=0.240944;ABP=1435.22;AC=21;AF=0.5;AN=42;AO=592;CIGAR=1X;DP=2457;DPB=2457;DPRA=0;EPP=1245.46;EPPR=4050.63;GTI=6;LEN=1;MEANALT=1.04762;MQM=59.6689;MQMR=59.9238;NS=21;NUMALT=1;ODDS=0.784863;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21098;QR=66520;RO=1864;RPL=587;RPP=1245.46;RPPR=4050.63;RPR=5;RUN=1;SAF=592;SAP=1288.52;SAR=0;SRF=1864;SRP=4050.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:37,40:37:1320:40:1431:-105.908,0,-95.9226 0/1:93:62,31:62:2216:31:1112:-70.0121,0,-171.709 0/1:150:132,18:132:4740:18:648:-13.4974,0,-381.574 0/1:139:107,32:107:3806:32:1144:-61.4264,0,-300.893 0/1:233:194,39:194:6884:39:1359:-52.4645,0,-549.487 0/1:102:91,11:91:3264:11:385:-4.2777,0,-262.958 0/1:79:62,17:62:2205:17:612:-31.6321,0,-174.91 0/1:81:65,16:65:2324:16:567:-26.9773,0,-185.037 0/1:238:149,89:149:5329:89:3180:-214.779,0,-408.097 0/1:18:13,5:13:468:5:180:-11.1335,0,-37.0411 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/1:51:33,18:33:1169:18:648:-43.2994,0,-90.1628 0/1:104:78,26:78:2800:26:908:-50.7264,0,-220.932 0/1:104:90,14:90:3201:14:504:-14.391,0,-256.992 0/1:203:144,59:144:5160:59:2103:-128.43,0,-403.428 0/1:113:76,37:76:2732:37:1321:-81.6014,0,-211.724 0/1:92:70,22:70:2512:22:792:-43.9109,0,-198.637 0/1:290:251,38:251:8980:38:1337:-33.2714,0,-720.823 0/1:106:85,21:85:2972:21:752:-36.0971,0,-235.799 0/1:75:46,29:46:1618:29:1039:-71.2469,0,-123.328 0/1:99:71,28:71:2532:28:1004:-60.8739,0,-198.306 chr08 20633362 . G A 6129.39 PASS AB=0.25939;ABP=1140.97;AC=18;AF=0.428571;AN=42;AO=595;CIGAR=1X;DP=2497;DPB=2497;DPRA=2.69093;EPP=1295.04;EPPR=4083.32;GTI=3;LEN=1;MEANALT=1.10526;MQM=59.7529;MQMR=59.8968;NS=21;NUMALT=1;ODDS=4.36595;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21254;QR=67950;RO=1899;RPL=595;RPP=1295.04;RPPR=4083.32;RPR=0;RUN=1;SAF=595;SAP=1295.04;SAR=0;SRF=1899;SRP=4126.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:66,9:66:2372:9:320:-6.20572,0,-190.801 0/1:98:77,21:77:2753:21:756:-38.8663,0,-216.131 0/1:149:105,44:105:3740:44:1576:-97.2497,0,-291.949 0/0:140:132,8:132:4712:8:265:0,-17.9721,-400.066 0/1:235:181,53:181:6495:53:1900:-100.585,0,-513.97 0/1:108:77,31:77:2768:31:1112:-67.5621,0,-216.832 0/1:83:57,26:57:2044:26:934:-59.3713,0,-159.246 0/0:84:83,0:83:2971:0:0:0,-24.9855,-267.262 0/1:238:203,35:203:7275:35:1256:-41.7001,0,-583.152 0/1:18:16,2:16:572:2:68:-1.03917,0,-46.3949 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:50:40,10:40:1436:10:356:-17.3297,0,-114.486 0/1:103:83,20:83:2968:20:716:-33.7616,0,-236.347 0/1:103:51,52:51:1819:52:1872:-137.739,0,-132.984 0/1:207:139,68:139:4951:68:2425:-156.189,0,-383.426 0/1:117:66,51:66:2376:51:1827:-129.303,0,-175.308 0/1:92:54,38:54:1944:38:1353:-94.3736,0,-147.541 0/1:294:249,45:249:8887:45:1599:-55.6966,0,-711.315 0/1:117:91,26:91:3261:26:926:-48.4319,0,-258.488 0/1:76:55,21:55:1980:21:756:-45.4889,0,-155.596 0/1:99:64,35:64:2266:35:1237:-81.8298,0,-174.4 chr08 20633452 . G T 8901.18 PASS AB=0.280447;ABP=1127.19;AC=21;AF=0.5;AN=42;AO=753;CIGAR=1X;DP=2685;DPB=2685;DPRA=0;EPP=1603.57;EPPR=4022.03;GTI=6;LEN=1;MEANALT=1.09524;MQM=54.243;MQMR=59.958;NS=21;NUMALT=1;ODDS=2.80104;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26970;QR=68857;RO=1930;RPL=749;RPP=1603.57;RPPR=4022.03;RPR=4;RUN=1;SAF=0;SAP=1638.13;SAR=753;SRF=0;SRP=4193.95;SRR=1930;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:56,35:56:2003:35:1256:-85.8663,0,-153.149 0/1:111:62,49:62:2204:49:1764:-124.967,0,-165.209 0/1:112:95,16:95:3404:16:576:-18.2792,0,-272.801 0/1:125:97,28:97:3461:28:996:-52.0648,0,-274.07 0/1:282:246,35:246:8799:35:1256:-28.1484,0,-706.941 0/1:148:125,23:125:4445:23:824:-29.7398,0,-355.669 0/1:314:215,99:215:7675:99:3548:-223.544,0,-596.264 0/1:86:65,21:65:2324:21:748:-41.5398,0,-183.532 0/1:253:163,90:163:5785:90:3214:-212.94,0,-444.58 0/1:17:13,4:13:452:4:144:-8.04895,0,-35.8936 0/1:10:6,4:6:216:4:144:-10.2719,0,-16.7802 0/1:84:37,47:37:1332:47:1669:-124.768,0,-94.8959 0/1:76:56,20:56:1986:20:716:-41.8168,0,-156.135 0/1:119:105,14:105:3738:14:504:-9.84256,0,-300.796 0/1:157:87,70:87:3124:70:2516:-178.652,0,-234.122 0/1:99:67,32:67:2412:32:1152:-74.1525,0,-187.534 0/1:132:95,37:95:3375:37:1332:-80.3539,0,-264.216 0/1:150:128,22:128:4550:22:788:-25.84,0,-364.483 0/1:113:85,28:85:3036:28:1008:-56.8082,0,-239.454 0/1:111:66,45:66:2372:45:1608:-111.327,0,-180.323 0/1:95:61,34:61:2164:34:1207:-79.904,0,-166.427 chr08 20633470 . G A 12542 PASS AB=0.341427;ABP=587.694;AC=21;AF=0.5;AN=42;AO=914;CIGAR=1X;DP=2677;DPB=2677;DPRA=0;EPP=1987.74;EPPR=3826.97;GTI=3;LEN=1;MEANALT=1.09524;MQM=55.3457;MQMR=59.9415;NS=21;NUMALT=1;ODDS=8.24591;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32670;QR=62890;RO=1761;RPL=914;RPP=1987.74;RPPR=3826.97;RPR=0;RUN=1;SAF=0;SAP=1987.74;SAR=914;SRF=0;SRP=3826.97;SRR=1761;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:55,34:55:1972:34:1220:-83.2255,0,-150.963 0/1:113:65,48:65:2320:48:1720:-120.426,0,-175.044 0/1:111:82,29:82:2928:29:1040:-60.3799,0,-230.341 0/1:123:79,44:79:2819:44:1572:-104.485,0,-216.922 0/1:285:206,79:206:7360:79:2827:-168.684,0,-576.413 0/1:148:104,43:104:3727:43:1532:-93.3795,0,-291.019 0/1:315:197,117:197:7052:117:4200:-281.901,0,-539.898 0/1:83:56,27:56:1992:27:972:-62.5949,0,-154.569 0/1:253:164,89:164:5837:89:3169:-208.818,0,-449.273 0/1:16:13,3:13:464:3:108:-5.11497,0,-37.281 0/1:10:5,5:5:180:5:180:-13.5105,0,-13.5418 0/1:82:36,46:36:1287:46:1648:-123.484,0,-91.4483 0/1:73:53,20:53:1896:20:720:-43.0806,0,-148.943 0/1:118:104,14:104:3708:14:485:-8.42617,0,-298.399 0/1:156:87,69:87:3116:69:2484:-176.075,0,-233.704 0/1:100:69,31:69:2468:31:1107:-69.8045,0,-192.271 0/1:131:87,44:87:3104:44:1584:-103.324,0,-240.049 0/1:152:93,59:93:3323:59:2066:-140.311,0,-253.514 0/1:112:75,37:75:2654:37:1323:-85.5097,0,-205.391 0/1:112:67,45:67:2404:45:1601:-110.069,0,-182.901 0/1:95:64,31:64:2279:31:1112:-71.4637,0,-176.774 chr08 20633478 . T C 34558.1 PASS AB=0.675548;ABP=625.887;AC=24;AF=0.571429;AN=42;AO=1835;CIGAR=1X;DP=2608;DPB=2608;DPRA=0;EPP=3987.66;EPPR=1675.04;GTI=2;LEN=1;MEANALT=1.14286;MQM=57.6332;MQMR=59.9299;NS=21;NUMALT=1;ODDS=5.1926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65546;QR=25956;RO=770;RPL=1835;RPP=3987.66;RPPR=1675.04;RPR=0;RUN=1;SAF=0;SAP=3987.66;SAR=1835;SRF=0;SRP=1675.04;SRR=770;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:19,72:19:612:72:2588:-205.68,0,-27.9876 1/1:112:12,100:12:368:100:3588:-289.064,-0.300483,0 0/1:107:25,82:25:854:82:2925:-231.15,0,-44.9592 0/1:121:25,95:25:832:95:3364:-266.244,0,-38.6993 0/1:271:119,152:119:4080:152:5441:-407.986,0,-285.567 0/1:144:60,84:60:1984:84:2978:-224.703,0,-135.474 0/1:306:97,209:97:3256:209:7485:-580.188,0,-201.141 1/1:87:0,87:0:0:87:3097:-278.736,-26.1896,0 0/1:244:48,196:48:1665:196:6984:-554.761,0,-76.6836 0/1:15:4,11:4:140:11:388:-30.5973,0,-8.42913 0/1:10:2,8:2:57:8:284:-22.8658,0,-2.40301 1/1:82:5,76:5:165:76:2732:-230.501,-9.56466,0 0/1:74:16,58:16:553:58:2084:-165.479,0,-27.8178 0/1:111:38,73:38:1223:73:2614:-202.06,0,-76.9383 0/1:153:55,98:55:1876:98:3490:-267.559,0,-123.054 0/1:92:48,43:48:1648:43:1548:-111.824,0,-120.846 0/1:130:60,70:60:2026:70:2516:-187.378,0,-143.451 0/1:147:27,120:27:956:120:4271:-340.184,0,-42.1043 0/1:106:25,81:25:839:81:2906:-229.711,0,-43.9057 0/1:108:43,65:43:1465:65:2325:-176.739,0,-99.6219 0/1:97:42,55:42:1357:55:1938:-145.065,0,-93.2061 chr08 20633556 . T C 111.714 PASS AB=0.133803;ABP=1326.2;AC=8;AF=0.190476;AN=42;AO=177;CIGAR=1X;DP=3089;DPB=3089;DPRA=1.33428;EPP=387.361;EPPR=6326.34;GTI=6;LEN=1;MEANALT=1;MQM=60;MQMR=59.9942;NS=21;NUMALT=1;ODDS=11.5441;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6364;QR=104297;RO=2912;RPL=0;RPP=387.361;RPPR=6326.34;RPR=177;RUN=1;SAF=177;SAP=387.361;SAR=0;SRF=2912;SRP=6326.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:334:333,1:333:11948:1:36:0,-96.9457,-1071.57 0/0:148:148,0:148:5297:0:0:0,-44.5524,-476.863 0/0:122:111,11:111:3996:11:396:0,-0.742909,-323.845 0/1:140:114,26:114:4084:26:936:-42.4153,0,-325.602 0/1:163:143,20:143:5120:20:716:-15.6998,0,-411.845 0/1:134:114,20:114:4072:20:716:-24.4297,0,-326.329 0/1:219:195,24:195:6988:24:864:-12.157,0,-563.057 0/1:132:108,24:108:3856:24:864:-38.3466,0,-307.501 0/0:312:312,0:312:11116:0:0:0,-93.9214,-1000.34 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/0:178:178,0:178:6388:0:0:0,-53.5833,-575.007 0/0:100:100,0:100:3592:0:0:0,-30.103,-323.486 0/0:237:236,1:236:8440:1:36:0,-67.7458,-756.006 0/0:109:109,0:109:3904:0:0:0,-32.8123,-351.553 0/0:118:110,8:110:3932:8:288:0,-9.25413,-327.806 0/1:172:155,17:155:5568:17:612:-3.63628,0,-449.464 0/1:167:148,19:148:5308:19:684:-11.6183,0,-427.581 0/0:167:163,4:163:5848:4:144:0,-36.9584,-513.117 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.211 chr08 20633613 . 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G A 22869.3 PASS AB=0.473842;ABP=6.98646;AC=29;AF=0.690476;AN=42;AO=876;CIGAR=1X;DP=1279;DPB=1279;DPRA=1.47262;EPP=3.81345;EPPR=30.1726;GTI=0;LEN=1;MEANALT=1;MQM=59.9338;MQMR=59.9082;NS=21;NUMALT=1;ODDS=14.3345;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31110;QR=14358;RO=403;RPL=0;RPP=1905.22;RPPR=878.114;RPR=876;RUN=1;SAF=447;SAP=3.81345;SAR=429;SRF=166;SRP=30.1726;SRR=237;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:22,20:22:788:20:712:-51.7634,0,-58.6015 0/1:73:40,33:40:1436:33:1184:-84.8931,0,-107.562 0/1:31:18,13:18:648:13:468:-33.1277,0,-49.32 0/1:68:40,28:40:1427:28:981:-68.131,0,-108.257 1/1:77:3,74:3:104:74:2636:-227.783,-13.4765,0 1/1:33:0,33:0:0:33:1180:-106.508,-9.93399,0 1/1:65:0,65:0:0:65:2304:-207.619,-19.567,0 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.525 0/1:45:22,23:22:775:23:813:-59.9428,0,-56.5248 0/1:21:13,8:13:459:8:284:-19.5817,0,-35.3225 0/1:8:4,4:4:140:4:144:-10.9054,0,-10.5363 0/1:34:19,15:19:671:15:529:-37.7064,0,-50.4808 0/1:38:21,17:21:747:17:604:-43.2515,0,-56.1152 1/1:43:0,43:0:0:43:1521:-137.181,-12.9443,0 1/1:95:0,95:0:0:95:3361:-302.704,-28.5979,0 1/1:34:0,34:0:0:34:1197:-108.033,-10.235,0 1/1:29:0,29:0:0:29:1032:-93.1935,-8.72987,0 0/1:210:110,100:110:3911:100:3562:-257.567,0,-288.969 0/1:99:43,56:43:1540:56:1986:-149.211,0,-109.069 1/1:64:5,59:5:176:59:2093:-172.321,-3.0809,0 1/1:128:1,127:1:32:127:4519:-403.673,-35.3325,0 chr08 22821449 . A G 14879.8 PASS AB=0.431915;ABP=21.9345;AC=28;AF=0.666667;AN=42;AO=697;CIGAR=1X;DP=1018;DPB=1018;DPRA=1.91658;EPP=1389.04;EPPR=657.3;GTI=0;LEN=1;MEANALT=1;MQM=59.8092;MQMR=59.8847;NS=21;NUMALT=1;ODDS=4.88391;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24655;QR=11498;RO=321;RPL=682;RPP=1389.04;RPPR=657.3;RPR=15;RUN=1;SAF=0;SAP=1516.53;SAR=697;SRF=0;SRP=700.053;SRR=321;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:35,18:35:1256:18:640:-41.9747,0,-97.3907 0/1:45:30,15:30:1055:15:536:-35.0285,0,-81.7126 0/1:53:29,24:29:1044:24:856:-61.2765,0,-78.3202 0/1:38:24,14:24:864:14:487:-32.7201,0,-66.6434 1/1:90:0,90:0:0:90:3178:-286.246,-27.0927,0 1/1:33:0,33:0:0:33:1151:-103.877,-9.93399,0 1/1:78:0,78:0:0:78:2759:-248.553,-23.4803,0 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 0/1:85:54,31:54:1927:31:1073:-70.8582,0,-148.119 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:25:14,11:14:504:11:388:-27.7316,0,-38.1723 0/1:45:27,18:27:968:18:648:-45.1055,0,-73.7611 1/1:39:0,39:0:0:39:1376:-124.139,-11.7402,0 1/1:131:0,131:0:0:131:4676:-420.216,-39.4349,0 1/1:17:0,17:0:0:17:596:-53.9678,-5.11751,0 1/1:40:0,40:0:0:40:1417:-127.825,-12.0412,0 0/1:62:28,34:28:1008:34:1207:-90.2714,0,-72.3618 0/1:55:19,36:19:680:36:1269:-97.9482,0,-44.9725 1/1:32:0,32:0:0:32:1128:-101.826,-9.63296,0 1/1:35:1,34:1:36:34:1198:-104.526,-6.93778,0 chr08 23326102 . A G 28216.3 PASS AB=0.498339;ABP=3.03194;AC=29;AF=0.690476;AN=42;AO=1383;CIGAR=1X;DP=1920;DPB=1920;DPRA=1.16519;EPP=3006.16;EPPR=1166.92;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9422;MQMR=60;NS=21;NUMALT=1;ODDS=15.0371;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48585;QR=18968;RO=536;RPL=0;RPP=3006.16;RPPR=1166.92;RPR=1383;RUN=1;SAF=0;SAP=3006.16;SAR=1383;SRF=0;SRP=1166.92;SRR=536;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:43,44:43:1528:44:1548:-113.419,0,-111.623 0/1:88:54,34:54:1907:34:1216:-83.2559,0,-145.416 0/1:43:22,21:22:792:21:739:-53.8881,0,-58.6614 0/1:170:98,72:98:3436:72:2558:-179.294,0,-258.279 1/1:181:1,179:1:32:179:6311:-564.801,-51.326,0 1/1:37:0,37:0:0:37:1304:-117.659,-11.1381,0 1/1:179:1,178:1:36:178:6177:-552.44,-50.2861,0 0/0:79:79,0:79:2792:0:0:0,-23.7814,-251.52 0/1:169:93,76:93:3311:76:2632:-186.249,0,-247.335 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:11:7,4:7:248:4:144:-10.0023,0,-19.3529 0/1:31:10,21:10:356:21:723:-56.0538,0,-23.0493 0/1:102:46,56:46:1629:56:1963:-146.237,0,-116.192 1/1:96:2,94:2:72:94:3321:-292.272,-22.0622,0 1/1:56:0,56:0:0:56:1972:-177.724,-16.8577,0 1/1:123:0,123:0:0:123:4355:-392.126,-37.0267,0 1/1:138:0,138:0:0:138:4856:-437.196,-41.5421,0 0/1:128:57,71:57:2010:71:2502:-186.899,0,-142.64 0/1:66:18,48:18:639:48:1680:-131.616,0,-37.9703 1/1:69:0,69:0:0:69:2413:-217.423,-20.7711,0 1/1:59:0,59:0:0:59:2063:-185.779,-17.7608,0 chr08 23441904 . GG CG,CA 146308 PASS AB=0.499789,0.499789;ABP=3.01122,3.01122;AC=29,13;AF=0.690476,0.309524;AN=42;AO=3913,1466;CIGAR=1X1M,2X;DP=5386;DPB=5388;DPRA=0,1.90169;EPP=8499.98,3186.39;EPPR=9.52472;GTI=0;LEN=1,2;MEANALT=2,2.11111;MQM=59.942,59.8308;MQMR=60;NS=21;NUMALT=2;ODDS=3.624;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=66,66;PQR=0;PRO=0;QA=138462,51576;QR=104;RO=3;RPL=1885,693;RPP=14.3582,12.4901;RPPR=3.73412;RPR=2028,773;RUN=1,1;SAF=1885,693;SAP=14.3582,12.4901;SAR=2028,773;SRF=1;SRP=3.73412;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:206:0,88,118:0:0:88,118:3085,4111:-585.677,-334.65,-308.159,-251.377,0,-215.855 1/2:197:0,70,126:0:0:70,126:2496,4476:-568.139,-364.674,-343.602,-203.461,0,-165.532 1/2:250:0,141,109:0:0:141,109:5008,3830:-720.078,-312.008,-269.563,-408.364,0,-375.552 1/2:447:0,230,217:0:0:230,217:8163,7616:-1284.96,-620.133,-550.896,-665.181,0,-599.858 1/1:463:0,458,5:0:0:458,5:16193,178:-1456.69,-137.872,0,-1442.19,-123.008,-1440.68 1/1:350:0,348,1:0:0:348,1:12267,34:-1103.51,-104.758,0,-1100.75,-102.041,-1100.45 1/1:346:3,337,6:3:104:337,6:11850,189:-1056.62,-92.9867,0,-1042.32,-86.283,-1048.97 2/2:252:0,1,251:0:0:1,251:36,8811:-792.608,-789.67,-789.369,-75.5585,-72.2613,0 1/2:429:0,222,207:0:0:222,207:7877,7223:-1229.58,-587.8,-520.971,-642.134,0,-579.821 1/2:30:0,9,21:0:0:9,21:311,752:-86.9439,-61.6786,-58.9694,-25.6145,0,-19.2928 1/2:16:0,11,5:0:0:11,5:392,180:-46.9969,-15.0469,-11.7356,-32.3087,0,-30.8036 1/2:93:0,46,47:0:0:46,47:1640,1657:-268.461,-134.776,-120.929,-134.038,0,-119.89 1/2:335:0,161,174:0:0:161,174:5692,6198:-969.077,-505.505,-457.039,-463.926,0,-411.547 1/1:293:0,291,2:0:0:291,2:10256,72:-922.602,-87.5997,0,-916.727,-81.3651,-916.125 1/1:324:0,323,1:0:0:323,1:11448,25:-1029.95,-97.2327,0,-1028.01,-95.0339,-1027.7 1/1:144:0,142,0:0:0:142,0:5027,0:-452.218,-42.7463,0,-452.218,-42.7463,-452.218 1/1:144:0,144,0:0:0:144,0:5100,0:-459.142,-43.3483,0,-459.142,-43.3483,-459.142 1/2:185:0,88,97:0:0:88,97:3126,3432:-534.142,-279.422,-252.931,-255.075,0,-225.875 1/2:185:0,120,65:0:0:120,65:4247,2304:-533.981,-188.05,-151.927,-346.285,0,-326.718 1/1:551:0,537,14:0:0:537,14:19053,488:-1713.93,-161.653,0,-1674.24,-121.674,-1670.03 1/1:146:0,146,0:0:0:146,0:5195,0:-467.692,-43.9504,0,-467.692,-43.9504,-467.692 chr08 23765683 . A G 6866.36 PASS AB=0.434599;ABP=29.4253;AC=13;AF=0.309524;AN=42;AO=400;CIGAR=1X;DP=1569;DPB=1569;DPRA=0.936813;EPP=871.599;EPPR=2530.61;GTI=2;LEN=1;MEANALT=1.07143;MQM=59.985;MQMR=59.9426;NS=21;NUMALT=1;ODDS=0.522644;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14288;QR=41852;RO=1168;RPL=0;RPP=871.599;RPPR=2530.61;RPR=400;RUN=1;SAF=400;SAP=871.599;SAR=0;SRF=1168;SRP=2539.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:48,24:48:1716:24:858:-55.5073,0,-132.686 0/1:56:29,27:29:1044:27:957:-69.5862,0,-77.4171 0/1:126:70,56:70:2520:56:1997:-142.072,0,-189.121 0/1:59:35,24:35:1260:24:856:-59.6003,0,-95.9447 0/0:107:107,0:107:3829:0:0:0,-32.2102,-344.805 0/0:70:70,0:70:2508:0:0:0,-21.0721,-225.972 0/0:98:98,0:98:3520:0:0:0,-29.5009,-316.849 1/1:89:0,89:0:0:89:3184:-286.782,-26.7917,0 0/1:90:39,51:39:1404:51:1828:-137.708,0,-99.5584 0/1:9:8,1:8:284:1:36:-0.889005,0,-23.1941 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:61:37,24:37:1317:24:855:-58.908,0,-100.467 0/0:73:73,0:73:2628:0:0:0,-21.9752,-236.766 0/0:115:114,1:114:4053:1:36:0,-31.0202,-361.274 0/0:87:87,0:87:3128:0:0:0,-26.1896,-281.745 0/0:108:107,1:107:3829:1:36:0,-28.913,-341.207 0/1:153:75,78:75:2684:78:2790:-205.282,0,-195.747 0/1:72:52,20:52:1864:20:711:-42.6415,0,-146.365 0/0:48:48,0:48:1716:0:0:0,-14.4494,-154.721 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 chr08 23953231 . GAGA AAGT 10497.7 PASS AB=0.527273;ABP=4.78696;AC=27;AF=0.642857;AN=42;AO=512;CIGAR=1X2M1X;DP=669;DPB=669.25;DPRA=4.47917;EPP=1114.8;EPPR=339.589;GTI=4;LEN=4;MEANALT=1.11111;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.737985;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17988;QR=5507;RO=155;RPL=512;RPP=1114.8;RPPR=339.589;RPR=0;RUN=1;SAF=512;SAP=1114.8;SAR=0;SRF=155;SRP=339.589;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:33,24:33:1173:24:839:-58.6684,0,-88.719 0/1:26:18,8:18:641:8:271:-16.8923,0,-50.1927 0/1:26:13,13:13:467:13:461:-33.999,0,-34.5424 0/1:64:31,33:31:1111:33:1156:-85.0788,0,-81.0358 1/1:66:0,65:0:0:65:2270:-204.31,-19.567,0 1/1:26:0,26:0:0:26:896:-80.9509,-7.82678,0 1/1:41:0,41:0:0:41:1441:-129.985,-12.3422,0 0/0:16:16,0:16:568:0:0:0,-4.81648,-51.4518 0/1:39:17,22:17:600:22:773:-58.1509,0,-42.5889 0/0:4:4,0:4:143:0:0:0,-1.20412,-13.2214 0/0:4:4,0:4:131:0:0:0,-1.20412,-12.1138 0/1:5:1,4:1:36:4:140:-11.4394,0,-2.09312 0/1:44:12,32:12:421:32:1138:-89.4841,0,-24.9784 1/1:31:0,31:0:0:31:1103:-99.5808,-9.33193,0 1/1:50:0,50:0:0:50:1755:-158.232,-15.0515,0 1/1:23:0,23:0:0:23:804:-72.6781,-6.92369,0 1/1:24:1,22:1:36:22:784:-67.2857,-3.68522,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 1/1:97:0,97:0:0:97:3416:-307.657,-29.1999,0 1/1:12:0,12:0:0:12:421:-38.2247,-3.61236,0 chr08 24038381 . CGCCGC CCCCC,CGCCC 28368.3 PASS AB=0.444965,0.54918;ABP=25.4777,20.9516;AC=29,13;AF=0.690476,0.309524;AN=42;AO=864,562;CIGAR=1M1D2M1X1M,4M1D1M;DP=1435;DPB=1195.83;DPRA=0.75618,1.34923;EPP=1879.16,1223.38;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.05,2.35714;MQM=43.0012,58.3719;MQMR=0;NS=21;NUMALT=2;ODDS=3.94613;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29951,19822;QR=0;RO=0;RPL=0,0;RPP=1879.16,1223.38;RPPR=0;RPR=864,562;RUN=1,1;SAF=0,0;SAP=1879.16,1223.38;SAR=864,562;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:106:0,59,47:0:0:59,47:2021,1664:-294.834,-135.785,-118.024,-159.393,0,-145.245 1/2:55:0,15,40:0:0:15,40:511,1419:-156.376,-115.963,-111.448,-40.7519,0,-28.7107 1/2:79:0,35,44:0:0:35,44:1180,1568:-220.538,-127.853,-117.317,-93.0249,0,-79.7796 1/2:61:0,24,36:0:0:24,36:830,1268:-168.992,-103.265,-96.0401,-65.7774,0,-54.9403 1/1:47:0,44,3:0:0:44,3:1505,104:-132.62,-13.2453,0,-124.168,-4.44786,-123.265 1/1:65:0,65,0:0:0:65,0:2257,0:-199.945,-19.567,0,-199.945,-19.567,-199.945 1/1:37:0,36,0:0:0:36,0:1229,0:-108.523,-10.8371,0,-108.523,-10.8371,-108.523 2/2:89:0,0,88:0:0:0,88:0,3131:-281.592,-281.592,-281.592,-26.4906,-26.4906,0 1/2:139:0,70,67:0:0:70,67:2404,2358:-381.221,-191.917,-170.845,-189.398,0,-169.229 1/2:22:0,9,13:0:0:9,13:314,450:-62.2328,-36.9151,-34.2059,-25.6637,0,-21.7503 1/2:16:0,8,8:0:0:8,8:280,288:-46.2479,-23.8592,-21.4509,-22.7409,0,-20.3327 1/2:37:0,17,20:0:0:17,20:596,712:-106.451,-58.3808,-53.2633,-48.4214,0,-42.4008 1/2:101:0,40,61:0:0:40,61:1387,2153:-285.322,-175.438,-163.397,-110.228,0,-91.8654 1/1:57:0,55,2:0:0:55,2:1925,72:-169.097,-16.5567,0,-163.224,-10.3239,-162.622 1/1:101:0,100,0:0:0:100,0:3451,0:-303.272,-30.103,0,-303.272,-30.103,-303.272 1/1:52:0,52,0:0:0:52,0:1836,0:-161.669,-15.6536,0,-161.669,-15.6536,-161.669 1/1:60:0,59,0:0:0:59,0:2086,0:-183.14,-17.7608,0,-183.14,-17.7608,-183.14 1/2:166:0,65,99:0:0:65,99:2267,3452:-462.125,-280.635,-261.068,-181.499,0,-151.697 1/2:72:0,38,34:0:0:38,34:1306,1183:-199.723,-96.5015,-85.0623,-103.563,0,-93.3283 1/1:17:0,17,0:0:0:17,0:593,0:-53.0288,-5.11751,0,-53.0288,-5.11751,-53.0288 1/1:56:0,56,0:0:0:56,0:1973,0:-175.568,-16.8577,0,-175.568,-16.8577,-175.568 chr08 24038406 . CCTC GCTC,GCTT 29792.4 PASS AB=0.418994,0.578771;ABP=54.0217,51.2461;AC=29,13;AF=0.690476,0.309524;AN=42;AO=858,615;CIGAR=1X3M,1X2M1X;DP=1478;DPB=1478;DPRA=0.744624,1.42448;EPP=1866.13,1338.47;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.9,2.14286;MQM=43.0559,57.974;MQMR=0;NS=21;NUMALT=2;ODDS=0.426901;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30460,21624;QR=0;RO=0;RPL=858,615;RPP=1866.13,1338.47;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1866.13,1338.47;SAR=858,615;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:109:0,58,51:0:0:58,51:2035,1784:-305.605,-145.374,-127.914,-160.576,0,-145.224 1/2:56:0,15,41:0:0:15,41:532,1449:-160.578,-118.36,-113.844,-42.5668,0,-30.2245 1/2:80:0,34,46:0:0:34,46:1186,1628:-225.911,-132.617,-122.382,-93.6383,0,-79.7909 1/2:63:0,23,40:0:0:23,40:814,1409:-178.826,-114.405,-107.481,-64.7674,0,-52.7262 1/1:48:0,46,2:0:0:46,2:1640,67:-144.106,-13.8474,0,-138.682,-8.08786,-138.08 1/1:63:0,62,0:0:0:62,0:2208,0:-194.925,-18.6639,0,-194.925,-18.6639,-194.925 1/1:35:0,35,0:0:0:35,0:1247,0:-110.086,-10.5361,0,-110.086,-10.5361,-110.086 2/2:93:0,0,93:0:0:0,93:0,3301:-297.145,-297.145,-297.145,-27.9958,-27.9958,0 1/2:145:0,67,76:0:0:67,76:2374,2657:-403.341,-215.921,-195.752,-187.49,0,-164.611 1/2:25:0,10,15:0:0:10,15:360,520:-71.7354,-42.6118,-39.6015,-29.4763,0,-24.9609 1/2:18:0,8,10:0:0:8,10:287,353:-51.9063,-29.0807,-26.6725,-23.177,0,-20.1667 1/2:37:0,17,20:0:0:17,20:608,718:-108.01,-58.8993,-53.7818,-49.4669,0,-43.4463 1/2:111:0,39,72:0:0:39,72:1369,2515:-312.623,-204.131,-192.391,-108.837,0,-87.163 1/1:58:0,55,2:0:0:55,2:1948,72:-171.016,-16.5567,0,-165.142,-10.6238,-164.54 1/1:100:0,100,0:0:0:100,0:3556,0:-312.15,-30.103,0,-312.15,-30.103,-312.15 1/1:52:0,52,0:0:0:52,0:1852,0:-162.978,-15.6536,0,-162.978,-15.6536,-162.978 1/1:60:0,59,0:0:0:59,0:2104,0:-184.508,-17.7608,0,-184.508,-17.7608,-184.508 1/2:175:0,66,109:0:0:66,109:2354,3827:-499.984,-311.572,-291.704,-188.762,0,-155.95 1/2:76:0,38,38:0:0:38,38:1343,1324:-214.044,-107.976,-96.5372,-106.414,0,-94.9745 1/1:18:0,18,0:0:0:18,0:642,0:-57.3641,-5.41854,0,-57.3641,-5.41854,-57.3641 1/1:56:0,56,0:0:0:56,0:2001,0:-177.867,-16.8577,0,-177.867,-16.8577,-177.867 chr08 24038413 . G A 15923.2 PASS AB=0.421348;ABP=50.8315;AC=29;AF=0.690476;AN=42;AO=856;CIGAR=1X;DP=1467;DPB=1467;DPRA=0.747283;EPP=1861.79;EPPR=1325.44;GTI=0;LEN=1;MEANALT=1.1;MQM=43.0164;MQMR=58.0624;NS=21;NUMALT=1;ODDS=0.108219;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30563;QR=21787;RO=609;RPL=856;RPP=1861.79;RPPR=1325.44;RPR=0;RUN=1;SAF=0;SAP=1861.79;SAR=856;SRF=0;SRP=1325.44;SRR=609;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:51,55:51:1824:55:1961:-137.487,0,-132.404 0/1:56:41,15:41:1472:15:521:-29.2758,0,-115.916 0/1:81:45,35:45:1596:35:1260:-84.0656,0,-119.257 0/1:64:40,24:40:1432:24:864:-56.3723,0,-109.25 1/1:46:2,44:2:72:44:1545:-129.357,-7.01257,0 1/1:63:0,63:0:0:63:2248:-198.372,-18.9649,0 1/1:36:0,36:0:0:36:1296:-113.889,-10.8371,0 0/0:92:92,0:92:3300:0:0:0,-27.6948,-297.07 0/1:149:75,74:75:2680:74:2614:-182.096,0,-196.295 0/1:25:16,9:16:576:9:324:-21.7221,0,-44.6492 0/1:18:10,8:10:352:8:288:-20.2097,0,-26.5925 0/1:36:20,16:20:712:16:576:-40.8817,0,-53.5411 0/1:107:70,36:70:2516:36:1292:-81.5177,0,-193.032 1/1:58:2,56:2:72:56:1984:-167.085,-10.6249,0 1/1:97:0,97:0:0:97:3468:-303.178,-29.1999,0 1/1:52:0,52:0:0:52:1860:-163.025,-15.6536,0 1/1:60:0,60:0:0:60:2152:-188.283,-18.0618,0 0/1:172:107,65:107:3823:65:2334:-154.445,0,-292.287 0/1:76:38,38:38:1360:38:1364:-96.0619,0,-99.7527 1/1:17:0,17:0:0:17:604:-54.0528,-5.11751,0 1/1:56:0,56:0:0:56:2008:-178.522,-16.8577,0 chr08 24123958 . C T 19435 PASS AB=0.536207;ABP=9.61457;AC=29;AF=0.690476;AN=42;AO=855;CIGAR=1X;DP=1174;DPB=1174;DPRA=1.17292;EPP=1337.96;EPPR=530.746;GTI=1;LEN=1;MEANALT=1.05;MQM=58.1064;MQMR=59.2987;NS=21;NUMALT=1;ODDS=3.74822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30532;QR=11353;RO=318;RPL=790;RPP=1337.96;RPPR=530.746;RPR=65;RUN=1;SAF=855;SAP=1859.62;SAR=0;SRF=318;SRP=693.539;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:32,21:32:1137:21:752:-52.0517,0,-86.6824 0/1:56:37,19:37:1328:19:671:-43.8443,0,-102.964 0/1:33:18,15:18:640:15:525:-37.6441,0,-47.9953 0/1:72:31,40:31:1104:40:1427:-106.993,0,-77.9378 1/1:117:0,117:0:0:117:4199:-378.076,-35.2205,0 1/1:41:0,41:0:0:41:1468:-132.346,-12.3422,0 1/1:69:0,69:0:0:69:2441:-219.945,-20.7711,0 0/0:48:48,0:48:1702:0:0:0,-14.4494,-153.464 0/1:56:27,29:27:968:29:1014:-66.542,0,-69.5233 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:9:6,3:6:216:3:102:-6.80711,0,-17.0812 0/1:113:50,63:50:1787:63:2246:-168.374,0,-127.096 1/1:38:0,38:0:0:38:1360:-122.7,-11.4391,0 1/1:92:0,92:0:0:92:3288:-296.126,-27.6948,0 1/1:49:0,49:0:0:49:1756:-136.681,-14.7505,0 1/1:16:0,16:0:0:16:572:-49.9225,-4.81648,0 0/1:83:39,44:39:1400:44:1567:-116.333,0,-101.314 0/1:94:25,69:25:891:69:2476:-194.769,0,-52.212 1/1:63:1,62:1:36:62:2220:-196.452,-15.3666,0 1/1:61:1,60:1:36:60:2160:-191.054,-14.7646,0 chr08 24124021 . G A 9964.34 PASS AB=0.583062;ABP=39.8051;AC=29;AF=0.690476;AN=42;AO=1120;CIGAR=1X;DP=1447;DPB=1447;DPRA=1.19741;EPP=2435.06;EPPR=710.91;GTI=1;LEN=1;MEANALT=1.05;MQM=23.2982;MQMR=33.7301;NS=21;NUMALT=1;ODDS=1.67663;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39987;QR=11642;RO=326;RPL=1120;RPP=2435.06;RPPR=710.91;RPR=0;RUN=1;SAF=0;SAP=2435.06;SAR=1120;SRF=0;SRP=710.91;SRR=326;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:27,50:27:964:50:1800:-77.8329,0,-52.833 0/1:70:34,36:34:1220:36:1288:-51.0299,0,-77.1913 0/1:72:33,39:33:1180:39:1404:-56.4496,0,-71.0898 0/1:38:12,26:12:428:26:936:-40.9642,0,-21.5931 1/1:169:2,167:2:68:167:5957:-330.54,-45.1077,0 1/1:57:0,57:0:0:57:2021:-114.369,-17.1587,0 1/1:115:1,114:1:32:114:4043:-231.44,-31.4191,0 0/0:58:58,0:58:2075:0:0:0,-17.4597,-162.917 0/1:133:64,69:64:2288:69:2457:-96.4874,0,-138.905 0/1:7:4,3:4:140:3:108:-4.00561,0,-9.28614 0/1:8:4,4:4:144:4:144:-5.66942,0,-9.76582 0/1:23:7,16:7:252:16:576:-24.732,0,-12.2077 0/1:59:28,31:28:992:31:1100:-44.1291,0,-61.2836 1/1:80:0,80:0:0:80:2856:-163.482,-24.0824,0 1/1:102:0,102:0:0:102:3641:-201.342,-30.7051,0 1/1:60:0,60:0:0:60:2156:-119.362,-18.0618,0 1/1:38:0,38:0:0:38:1360:-78.1519,-11.4391,0 0/1:53:26,27:26:923:27:960:-41.0838,0,-57.1239 0/1:74:17,57:17:612:57:2032:-91.1039,0,-24.1131 1/1:112:9,102:9:324:102:3644:-176.808,-8.02822,0 1/1:42:0,42:0:0:42:1504:-82.8703,-12.6433,0 chr08 24126494 . A G 6307.82 PASS AB=0.40813;ABP=48.0957;AC=13;AF=0.309524;AN=42;AO=362;CIGAR=1X;DP=1167;DPB=1167;DPRA=1.17107;EPP=780.421;EPPR=1714.3;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.9503;MQMR=59.9614;NS=21;NUMALT=1;ODDS=1.4534;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12877;QR=28828;RO=804;RPL=361;RPP=780.421;RPPR=1714.3;RPR=1;RUN=1;SAF=0;SAP=789.083;SAR=362;SRF=0;SRP=1748.87;SRR=804;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:12:7,5:7:252:5:169:-11.9292,0,-19.4166 0/1:9:8,1:8:284:1:36:-0.889005,0,-23.1941 0/1:132:59,73:59:2116:73:2594:-193.936,0,-150.973 0/1:72:44,28:44:1563:28:992:-67.9202,0,-119.287 0/0:39:38,1:38:1360:1:36:0,-8.14189,-119.1 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.099 1/1:111:0,110:0:0:110:3935:-353.981,-33.1133,0 0/1:57:29,28:29:1044:28:996:-72.7962,0,-77.1161 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:20:15,5:15:540:5:176:-10.1644,0,-42.9159 0/1:43:22,21:22:792:21:748:-54.701,0,-58.6614 0/1:124:70,54:70:2516:54:1920:-135.749,0,-189.364 0/0:70:70,0:70:2520:0:0:0,-21.0721,-227.049 0/0:113:113,0:113:4055:0:0:0,-34.0164,-365.131 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:75:53,22:53:1891:22:775:-47.4939,0,-147.886 0/1:63:51,12:51:1832:12:428:-19.8939,0,-146.196 0/0:87:87,0:87:3107:0:0:0,-26.1896,-279.857 0/0:52:52,0:52:1864:0:0:0,-15.6536,-168.039 chr08 24212913 . 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A G 28787.8 PASS AB=0.440212;ABP=32.3516;AC=29;AF=0.690476;AN=42;AO=1377;CIGAR=1X;DP=1994;DPB=1994;DPRA=1.26184;EPP=2924.04;EPPR=1180.7;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9426;MQMR=59.8377;NS=21;NUMALT=1;ODDS=6.60908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49014;QR=22088;RO=616;RPL=8;RPP=2924.04;RPPR=1205.27;RPR=1369;RUN=1;SAF=1377;SAP=2993.13;SAR=0;SRF=613;SRP=1314.71;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:79,89:79:2844:89:3170:-234.951,0,-205.567 0/1:100:64,36:64:2300:36:1288:-86.1206,0,-176.221 0/1:54:33,21:33:1184:21:756:-52.1116,0,-90.5843 0/1:221:136,85:136:4867:85:3006:-204.245,0,-371.227 1/1:251:4,247:4:144:247:8785:-777.331,-62.2449,0 1/1:47:0,47:0:0:47:1658:-149.506,-14.1484,0 1/1:148:4,144:4:144:144:5125:-448.076,-31.2388,0 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.403 0/1:101:67,34:67:2404:34:1216:-79.3425,0,-186.212 0/1:13:5,8:5:180:8:288:-22.354,0,-12.6387 0/1:10:8,2:8:284:2:72:-3.82642,0,-22.8931 0/1:14:4,10:4:144:10:356:-28.1668,0,-9.0992 0/1:108:61,47:61:2173:47:1688:-119.696,0,-163.323 1/1:69:0,68:0:0:68:2418:-217.515,-20.47,0 1/1:131:0,131:0:0:131:4642:-417.909,-39.4349,0 1/1:56:0,56:0:0:56:2008:-180.993,-16.8577,0 1/1:106:3,103:3:108:103:3667:-320.155,-21.834,0 0/1:74:38,36:38:1368:36:1254:-90.8838,0,-101.145 0/1:82:34,48:34:1220:48:1716:-130.041,0,-85.4223 1/1:102:0,102:0:0:102:3642:-327.981,-30.7051,0 1/1:63:0,63:0:0:63:2259:-203.572,-18.9649,0 chr08 24344286 . AGAG AGAA,GGAA 41743 PASS AB=0.44765,0.550214;ABP=25.2911,23.5094;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1365,605;CIGAR=3M1X,1X2M1X;DP=1976;DPB=1976;DPRA=1.23312,1.5192;EPP=2967.07,1290.82;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.1,2.17647;MQM=59.9509,59.9124;MQMR=0;NS=21;NUMALT=2;ODDS=5.93822;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48542,21067;QR=0;RO=0;RPL=1364,605;RPP=2958.39,1316.75;RPPR=0;RPR=1,0;RUN=1,1;SAF=1364,602;SAP=2958.39,1290.82;SAR=1,3;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,90,75:0:0:90,75:3211,2599:-473.34,-211.571,-184.478,-262.12,0,-239.543 1/2:101:0,37,63:0:0:37,63:1324,2200:-287.064,-179.094,-167.956,-108.114,0,-89.1496 1/2:55:0,24,31:0:0:24,31:852,1076:-157.211,-87.7863,-80.5616,-69.7757,0,-60.4437 1/2:220:0,85,135:0:0:85,135:3017,4663:-624.76,-378.938,-353.351,-246.173,0,-205.534 1/1:250:0,245,4:0:0:245,4:8765,139:-788.488,-73.7524,0,-777.187,-62.4616,-775.983 1/1:44:0,43,0:0:0:43,0:1519,0:-136.643,-12.9443,0,-136.643,-12.9443,-136.643 1/1:148:0,144,4:0:0:144,4:5125,142:-460.969,-43.3483,0,-449.398,-31.4232,-448.194 2/2:77:0,0,77:0:0:0,77:0,2678:-241.267,-241.267,-241.267,-23.1793,-23.1793,0 1/2:97:0,32,64:0:0:32,64:1135,2250:-275.608,-183.136,-173.504,-92.4654,0,-73.1995 1/2:13:0,8,5:0:0:8,5:288,176:-38.1844,-14.6802,-12.2719,-23.8592,0,-22.354 1/2:10:0,2,8:0:0:2,8:72,278:-28.8262,-22.9488,-22.3468,-6.23466,0,-3.82642 1/2:13:0,10,3:0:0:10,3:352,108:-37.822,-9.17208,-6.16178,-29.0079,0,-28.1048 1/2:107:0,46,61:0:0:46,61:1629,2136:-306.842,-174.145,-160.298,-133.049,0,-114.687 1/1:67:0,67,0:0:0:67,0:2392,0:-215.537,-20.169,0,-215.537,-20.169,-215.537 1/1:131:0,130,1:0:0:130,1:4589,36:-412.66,-39.1339,0,-409.722,-35.8367,-409.421 1/1:57:0,57,0:0:0:57,0:2028,0:-182.793,-17.1587,0,-182.793,-17.1587,-182.793 1/1:107:0,103,3:0:0:103,3:3659,108:-329.152,-31.0061,0,-320.339,-22.1938,-319.436 1/2:76:0,38,38:0:0:38,38:1340,1334:-218.03,-108.921,-97.4817,-109.461,0,-98.0216 1/2:79:0,47,32:0:0:47,32:1667,1109:-226.3,-90.4829,-76.3345,-136.167,0,-126.534 1/1:97:0,96,0:0:0:96,0:3409,0:-306.813,-28.8989,0,-306.813,-28.8989,-306.813 1/1:62:0,61,1:0:0:61,1:2169,35:-195.125,-18.3628,0,-192.277,-15.1652,-191.976 chr08 24344301 . C T 27147.3 PASS AB=0.583333;ABP=69.6021;AC=14;AF=0.333333;AN=42;AO=1378;CIGAR=1X;DP=2921;DPB=2921;DPRA=0.942293;EPP=2969.3;EPPR=3353.59;GTI=1;LEN=1;MEANALT=1;MQM=59.598;MQMR=59.9844;NS=21;NUMALT=1;ODDS=4.98844;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49011;QR=54268;RO=1543;RPL=3;RPP=2969.3;RPPR=3353.59;RPR=1375;RUN=1;SAF=0;SAP=2995.3;SAR=1378;SRF=0;SRP=3353.59;SRR=1543;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:46,58:46:1598:58:2056:-153.991,0,-112.531 0/1:68:16,52:16:564:52:1851:-146.177,0,-30.6203 0/1:188:89,99:89:3125:99:3520:-260.35,0,-224.883 0/1:87:35,52:35:1240:52:1834:-139.105,0,-85.7148 0/0:194:185,9:185:6495:9:320:0,-29.2575,-555.501 0/0:91:89,2:89:3146:2:68:0,-20.936,-276.907 0/0:169:169,0:169:5930:0:0:0,-50.8741,-533.815 1/1:147:0,147:0:0:147:5219:-469.785,-44.2514,0 0/1:169:66,103:66:2305:103:3692:-281.548,0,-156.834 1/1:585:16,569:16:553:569:20276:-1774.09,-126.009,0 0/1:24:5,19:5:180:19:671:-53.4796,0,-9.32734 0/1:40:15,25:15:517:25:892:-68.5339,0,-34.8134 0/1:130:48,82:48:1699:82:2886:-220.831,0,-114.061 0/0:121:119,2:119:4238:2:72:0,-29.5879,-374.764 0/0:169:169,0:169:5936:0:0:0,-50.8741,-534.355 0/0:101:101,0:101:3557:0:0:0,-30.404,-320.339 0/0:107:106,1:106:3730:1:36:0,-28.6119,-332.305 0/1:205:80,125:80:2808:125:4444:-338.351,0,-191.25 0/1:89:60,29:60:2109:29:1036:-66.7485,0,-163.286 0/0:72:69,3:69:2427:3:108:0,-11.599,-208.609 0/0:61:60,1:60:2111:1:30:0,-15.3633,-187.26 chr08 24344316 . G A 27482.8 PASS AB=0.585859;ABP=72.7387;AC=14;AF=0.333333;AN=42;AO=1389;CIGAR=1X;DP=2934;DPB=2934;DPRA=1.13174;EPP=2993.18;EPPR=3331.93;GTI=1;LEN=1;MEANALT=1;MQM=59.4982;MQMR=60;NS=21;NUMALT=1;ODDS=7.03725;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49486;QR=54290;RO=1545;RPL=3;RPP=2993.18;RPPR=3331.93;RPR=1386;RUN=1;SAF=0;SAP=3019.19;SAR=1389;SRF=0;SRP=3357.94;SRR=1545;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:45,57:45:1574:57:2028:-152.071,0,-111.241 0/1:68:17,51:17:589:51:1812:-142.851,0,-32.8633 0/1:185:87,98:87:3069:98:3518:-261.08,0,-220.747 0/1:85:33,52:33:1152:52:1850:-141.142,0,-78.3958 0/0:201:192,9:192:6751:9:324:0,-31.0012,-578.169 0/0:87:85,2:85:2985:2:72:0,-19.3529,-262.045 0/0:175:175,0:175:6083:0:0:0,-52.6802,-547.579 1/1:148:0,148:0:0:148:5288:-475.976,-44.5524,0 0/1:166:65,101:65:2276:101:3595:-273.709,0,-155.128 1/1:602:16,586:16:564:586:20862:-1825.56,-130.13,0 0/1:24:6,18:6:216:18:648:-51.4108,0,-12.5658 0/1:40:14,26:14:480:26:930:-71.9537,0,-31.4826 0/1:130:49,81:49:1725:81:2864:-218.838,0,-116.399 0/0:120:118,2:118:4136:2:72:0,-29.2869,-365.588 0/0:169:169,0:169:5948:0:0:0,-50.8741,-535.433 0/0:102:102,0:102:3612:0:0:0,-30.7051,-325.287 0/0:106:105,1:105:3751:1:36:0,-28.3109,-334.192 0/1:203:78,125:78:2759:125:4435:-338.138,0,-187.444 0/1:86:57,29:57:1984:29:1044:-68.3725,0,-152.941 0/0:76:73,3:73:2558:3:108:0,-12.8031,-220.394 0/0:59:59,0:59:2078:0:0:0,-17.7608,-187.29 chr08 24344358 . G C 27433.5 PASS AB=0.583106;ABP=69.0597;AC=14;AF=0.333333;AN=42;AO=1384;CIGAR=1X;DP=2951;DPB=2951;DPRA=1.19188;EPP=2990.98;EPPR=3394.85;GTI=1;LEN=1;MEANALT=1.1875;MQM=59.5181;MQMR=59.9846;NS=21;NUMALT=1;ODDS=9.35221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49334;QR=55919;RO=1562;RPL=1382;RPP=2990.98;RPPR=3394.85;RPR=2;RUN=1;SAF=0;SAP=3008.33;SAR=1384;SRF=0;SRP=3394.85;SRR=1562;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:44,58:44:1580:58:2072:-156.032,0,-111.516 0/1:69:17,52:17:608:52:1864:-147.136,0,-34.281 0/1:187:90,97:90:3204:97:3427:-252.281,0,-232.292 0/1:86:35,51:35:1256:51:1832:-139.223,0,-87.4567 0/0:200:191,9:191:6844:9:324:0,-30.7001,-586.523 0/0:90:88,2:88:3156:2:72:0,-20.256,-277.428 0/0:176:176,0:176:6270:0:0:0,-52.9813,-564.394 1/1:150:0,149:0:0:149:5307:-477.32,-44.8535,0 0/1:168:65,103:65:2332:103:3681:-280.831,0,-159.567 1/1:595:14,578:14:492:578:20585:-1807.32,-133.956,0 0/1:24:5,19:5:180:19:680:-54.293,0,-9.32734 0/1:40:14,26:14:504:26:928:-71.7676,0,-33.6569 0/1:134:50,84:50:1796:84:2985:-228.259,0,-121.584 0/0:124:123,1:123:4408:1:36:0,-33.7294,-393.294 0/0:170:170,0:170:6084:0:0:0,-51.1751,-547.662 0/0:101:101,0:101:3612:0:0:0,-30.404,-325.286 0/0:105:105,0:105:3772:0:0:0,-31.6081,-339.678 0/1:207:81,125:81:2897:125:4465:-339.552,0,-198.592 0/1:84:57,27:57:2052:27:968:-62.1371,0,-159.665 0/0:78:75,3:75:2692:3:108:0,-13.4052,-232.449 0/0:61:61,0:61:2180:0:0:0,-18.3628,-196.466 chr08 24347800 . A G 37891 PASS AB=0.504378;ABP=3.20045;AC=30;AF=0.714286;AN=42;AO=1803;CIGAR=1X;DP=2476;DPB=2476;DPRA=1.23958;EPP=3918.18;EPPR=1449.22;GTI=0;LEN=1;MEANALT=1.15;MQM=60;MQMR=59.9985;NS=21;NUMALT=1;ODDS=10.1544;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64467;QR=23980;RO=670;RPL=0;RPP=3918.18;RPPR=1449.22;RPR=1803;RUN=1;SAF=1803;SAP=3918.18;SAR=0;SRF=670;SRP=1457.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:206:99,106:99:3537:106:3808:-280.845,0,-256.467 0/1:83:44,39:44:1576:39:1388:-100.233,0,-117.146 0/1:149:75,74:75:2692:74:2660:-194.792,0,-197.671 0/1:129:68,61:68:2425:61:2169:-156.642,0,-179.671 1/1:248:0,248:0:0:248:8892:-800.262,-74.6554,0 1/1:123:5,118:5:180:118:4217:-363.159,-20.4746,0 1/1:198:1,196:1:36:196:6989:-625.475,-56.0645,0 0/0:96:96,0:96:3437:0:0:0,-28.8989,-309.541 0/1:249:120,129:120:4288:129:4601:-339.297,0,-311.142 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:27:21,6:21:756:6:216:-11.6627,0,-60.2394 0/1:122:55,67:55:1965:67:2396:-179.171,0,-140.397 1/1:132:0,132:0:0:132:4729:-425.767,-39.736,0 1/1:169:0,169:0:0:169:6052:-544.783,-50.8741,0 1/1:97:0,97:0:0:97:3484:-313.77,-29.1999,0 1/1:94:0,93:0:0:93:3299:-296.916,-27.9958,0 0/1:91:52,39:52:1864:39:1394:-98.3651,0,-140.646 0/1:81:27,54:27:972:54:1932:-149.773,0,-63.4145 1/1:103:2,101:2:72:101:3603:-317.64,-24.1694,0 1/1:69:1,68:1:36:68:2422:-214.637,-17.1728,0 chr08 24482410 . G A,T 15747.8 PASS AB=0.46473,0.53527;ABP=5.61426,5.61426;AC=29,13;AF=0.690476,0.309524;AN=42;AO=562,169;CIGAR=1X,1X;DP=731;DPB=731;DPRA=1.025,0.506887;EPP=1223.38,369.989;EPPR=0;GTI=2;LEN=1,1;MEANALT=1.65,1.92857;MQM=59.8203,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.845778;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20023,5970;QR=0;RO=0;RPL=0,0;RPP=1223.38,369.989;RPPR=0;RPR=562,169;RUN=1,1;SAF=0,0;SAP=1223.38,369.989;SAR=562,169;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:12:0,2,10:0:0:2,10:72,360:-35.6088,-29.734,-29.1319,-6.23466,0,-3.22436 1/2:18:0,2,16:0:0:2,16:72,549:-50.7935,-44.9168,-44.3148,-6.23466,0,-1.41818 1/2:37:0,20,17:0:0:20,17:720,608:-108.684,-49.9345,-43.9139,-59.1082,0,-53.9907 1/2:18:0,7,11:0:0:7,11:248,392:-52.5108,-32.3087,-30.2015,-20.557,0,-17.2457 1/1:122:0,122,0:0:0:122,0:4353,0:-391.919,-36.7257,0,-391.919,-36.7257,-391.919 1/1:43:0,40,3:0:0:40,3:1432,108:-128.812,-12.0412,0,-119.999,-2.86912,-119.096 1/1:76:0,76,0:0:0:76,0:2686,0:-241.977,-22.8783,0,-241.977,-22.8783,-241.977 2/2:34:0,0,34:0:0:0,34:0,1212:-109.386,-109.386,-109.386,-10.235,-10.235,0 1/2:56:0,21,35:0:0:21,35:744,1252:-163.054,-102.449,-96.1274,-60.9602,0,-50.4242 1/2:8:0,6,2:0:0:6,2:216,72:-23.8592,-6.23466,-4.42848,-17.9843,0,-17.3823 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/2:25:0,18,7:0:0:18,7:639,248:-72.61,-20.557,-15.1384,-52.4073,0,-50.3001 1/2:31:0,17,14:0:0:17,14:603,485:-88.8945,-39.7626,-34.645,-49.482,0,-45.2676 1/1:40:0,40,0:0:0:40,0:1432,0:-129.178,-12.0412,0,-129.178,-12.0412,-129.178 1/1:94:0,94,0:0:0:94,0:3350,0:-301.696,-28.2968,0,-301.696,-28.2968,-301.696 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/2:17:0,6,11:0:0:6,11:216,379:-48.7536,-31.1299,-29.3237,-17.9781,0,-14.6667 1/2:14:0,9,5:0:0:9,5:320,180:-41.1218,-15.0469,-12.3376,-26.4331,0,-24.9279 1/1:50:0,47,3:0:0:47,3:1672,89:-150.467,-14.1484,0,-143.366,-6.74714,-142.463 1/1:19:0,19,0:0:0:19,0:676,0:-61.168,-5.71957,0,-61.168,-5.71957,-61.168 chr08 24482431 . G C 11943.6 PASS AB=0.46281;ABP=5.91756;AC=29;AF=0.690476;AN=42;AO=560;CIGAR=1X;DP=731;DPB=731;DPRA=0.965278;EPP=1219.03;EPPR=372.161;GTI=2;LEN=1;MEANALT=1.05;MQM=59.8125;MQMR=59.8824;NS=21;NUMALT=1;ODDS=0.630791;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20038;QR=6100;RO=170;RPL=560;RPP=1219.03;RPPR=372.161;RPR=0;RUN=1;SAF=0;SAP=1219.03;SAR=560;SRF=0;SRP=372.161;SRR=170;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:12:10,2:10:356:2:72:-3.22436,0,-28.638 0/1:19:17,2:17:608:2:72:-1.11715,0,-49.3325 0/1:37:17,20:17:612:20:716:-53.6296,0,-44.2753 0/1:18:11,7:11:396:7:252:-17.6104,0,-30.5642 1/1:123:0,123:0:0:123:4376:-393.998,-37.0267,0 1/1:42:3,39:3:104:39:1400:-116.584,-2.94045,0 1/1:74:0,74:0:0:74:2652:-238.92,-22.2762,0 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/1:57:35,21:35:1256:21:756:-51.1435,0,-96.1278 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:25:7,18:7:252:18:648:-51.1137,0,-15.5032 0/1:31:14,17:14:504:17:603:-45.2676,0,-36.3662 1/1:39:0,39:0:0:39:1396:-125.939,-11.7402,0 1/1:97:0,97:0:0:97:3479:-313.295,-29.1999,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:17:11,6:11:396:6:216:-14.6667,0,-30.8652 0/1:13:4,9:4:144:9:320:-25.229,0,-9.40023 1/1:47:2,45:2:68:45:1608:-138.552,-7.6907,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 chr08 24556084 . ATAA GTAA,GTAG 24639.1 PASS AB=0.542169,0.454389;ABP=11.984,13.5089;AC=29,13;AF=0.690476,0.309524;AN=42;AO=847,315;CIGAR=1X3M,1X2M1X;DP=1166;DPB=1166.5;DPRA=1.19043,0.771949;EPP=1842.25,687.024;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=1.9,2;MQM=59.778,56.5079;MQMR=56;NS=21;NUMALT=2;ODDS=0.172569;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=30275,11075;QR=36;RO=1;RPL=847,315;RPP=1842.25,687.024;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=847,315;SAP=1842.25,687.024;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,40,29:0:0:40,29:1436,1017:-199.9,-82.7569,-70.7157,-117.28,0,-108.551 1/2:41:0,19,22:0:0:19,22:684,773:-119.058,-63.2513,-57.5317,-56.1626,0,-49.5399 1/2:79:0,48,31:0:0:48,31:1720,1104:-230.208,-90.1186,-75.6691,-140.446,0,-131.114 1/2:78:0,44,34:0:0:44,34:1580,1198:-226.706,-97.8196,-84.5743,-129.242,0,-119.007 1/1:86:0,85,1:0:0:85,1:3037,30:-273.236,-25.5876,0,-270.838,-22.8897,-270.537 1/1:28:0,27,1:0:0:27,1:972,36:-87.385,-8.12781,0,-84.4485,-4.83157,-84.1475 1/1:94:0,94,0:0:0:94,0:3365,0:-303.001,-28.2968,0,-303.001,-28.2968,-303.001 2/2:47:0,0,47:0:0:0,47:0,1677:-151.087,-151.087,-151.087,-14.1484,-14.1484,0 1/2:145:0,79,66:0:0:79,66:2825,2317:-419.025,-188.673,-164.891,-230.706,0,-210.838 1/2:7:0,5,2:0:0:5,2:180,71:-20.8278,-6.13708,-4.63193,-15.0469,0,-14.4449 1/2:5:0,1,4:0:0:1,4:32,137:-14.0342,-11.4603,-11.1593,-2.89828,0,-1.69416 1/2:22:0,15,7:0:0:15,7:536,234:-62.9815,-19.2728,-14.7574,-44.0501,0,-41.9429 1/2:54:1,21,32:1:36:21,32:756,1113:-148.877,-87.4876,-84.1014,-58.7509,0,-52.0531 1/1:128:0,127,0:0:0:127,0:4503,0:-405.167,-38.2308,0,-405.167,-38.2308,-405.167 1/1:36:0,35,0:0:0:35,0:1260,0:-113.343,-10.5361,0,-113.343,-10.5361,-113.343 1/1:26:0,26,0:0:0:26,0:916,0:-82.7543,-7.82678,0,-82.7543,-7.82678,-82.7543 1/1:18:0,17,1:0:0:17,1:608,36:-54.6915,-5.11751,0,-51.7548,-1.82127,-51.4538 1/2:38:0,15,23:0:0:15,23:536,806:-109.61,-65.9048,-61.3893,-44.0594,0,-37.1357 1/2:42:0,28,14:0:0:28,14:1004,490:-122.079,-40.1868,-31.758,-82.2447,0,-78.0303 1/1:70:0,69,1:0:0:69,1:2465,36:-221.734,-20.7711,0,-218.798,-17.4755,-218.497 1/1:52:0,52,0:0:0:52,0:1860,0:-167.668,-15.6536,0,-167.668,-15.6536,-167.668 chr08 24556193 . G A 8150.98 PASS AB=0.527591;ABP=7.92315;AC=13;AF=0.309524;AN=42;AO=460;CIGAR=1X;DP=1531;DPB=1531;DPRA=0.842982;EPP=1001.89;EPPR=2326.49;GTI=0;LEN=1;MEANALT=1;MQM=59.6457;MQMR=59.9271;NS=21;NUMALT=1;ODDS=3.10269;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16502;QR=38200;RO=1070;RPL=460;RPP=1001.89;RPPR=2326.49;RPR=0;RUN=1;SAF=0;SAP=1001.89;SAR=460;SRF=0;SRP=2326.49;SRR=1070;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:29,23:29:1044:23:824:-58.8251,0,-78.6212 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/1:111:45,66:45:1604:66:2376:-180.655,0,-111.236 0/1:101:48,53:48:1709:53:1908:-141.589,0,-123.69 0/0:154:154,0:154:5508:0:0:0,-46.3586,-495.847 0/0:49:48,1:48:1688:1:32:0,-11.5512,-149.004 0/0:107:107,0:107:3811:0:0:0,-32.2102,-343.189 1/1:63:0,63:0:0:63:2251:-202.824,-18.9649,0 0/1:188:89,99:89:3179:99:3556:-263.647,0,-229.385 0/1:8:6,2:6:216:2:72:-4.42364,0,-17.3823 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:49:18,31:18:648:31:1116:-85.9966,0,-43.9014 0/1:105:42,63:42:1491:63:2256:-171.691,0,-102.876 0/0:86:85,0:85:3044:0:0:0,-25.5875,-273.828 0/0:98:98,0:98:3499:0:0:0,-29.5009,-314.344 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.604 0/1:69:34,35:34:1224:35:1251:-92.0799,0,-89.696 0/1:43:31,12:31:1112:12:428:-25.9145,0,-87.4471 0/0:106:102,4:102:3644:4:144:0,-18.5971,-314.853 0/0:45:45,0:45:1595:0:0:0,-13.5463,-143.84 chr08 24775198 . 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A C 1835.43 PASS AB=0.206089;ABP=643.783;AC=11;AF=0.261905;AN=42;AO=250;CIGAR=1X;DP=3127;DPB=3127;DPRA=0.45744;EPP=537.227;EPPR=5721.25;GTI=5;LEN=1;MEANALT=1.07143;MQM=59.112;MQMR=53.5396;NS=21;NUMALT=1;ODDS=1.24538;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8836;QR=101220;RO=2876;RPL=249;RPP=537.227;RPPR=3.78345;RPR=1;RUN=1;SAF=250;SAP=545.878;SAR=0;SRF=1516;SRP=21.3848;SRR=1360;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:105,23:105:3686:23:811:-34.7644,0,-291.899 0/0:99:90,9:90:3170:9:320:0,-0.660964,-255.105 0/1:93:73,19:73:2569:19:676:-33.0852,0,-202.171 0/1:123:107,16:107:3748:16:572:-14.7729,0,-298.844 0/0:309:309,0:309:10836:0:0:0,-93.0183,-970.179 0/0:164:164,0:164:5793:0:0:0,-49.3689,-518.319 0/0:296:296,0:296:10404:0:0:0,-89.1049,-931.104 1/1:49:0,49:0:0:49:1717:-154.78,-14.7505,0 0/1:200:154,46:154:5459:46:1644:-87.937,0,-428.183 0/1:21:16,5:16:560:5:180:-10.2304,0,-44.1996 0/1:11:10,1:10:360:1:36:-0.28435,0,-29.3975 0/1:29:13,16:13:441:16:568:-42.7006,0,-31.1516 0/0:151:137,14:137:4766:14:496:0,-0.587929,-381.528 0/0:196:196,0:196:6891:0:0:0,-59.0019,-617.315 0/0:411:411,0:411:14446:0:0:0,-123.723,-1295.14 0/0:151:151,0:151:5345:0:0:0,-45.4555,-478.922 0/0:105:104,1:104:3619:1:36:0,-28.0099,-321.223 0/1:116:82,34:82:2919:34:1178:-71.4006,0,-226.489 0/1:133:117,16:117:4132:16:566:-11.2027,0,-330.395 0/0:236:235,1:235:8305:1:36:0,-67.4448,-739.174 0/0:106:106,0:106:3771:0:0:0,-31.9092,-338.754 chr08 25191916 . TGAGAA TGGGAA,TGCC 21209.3 PASS AB=0.5666,0.423459;ABP=22.3895,28.606;AC=29,13;AF=0.690476,0.309524;AN=42;AO=741,271;CIGAR=2M1X3M,1M2D1M2X;DP=1021;DPB=929;DPRA=0.830172,0.914674;EPP=1612.07,591.479;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.95,2.25;MQM=51.8502,43.8192;MQMR=0;NS=21;NUMALT=2;ODDS=1.05394;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26447,9478;QR=0;RO=0;RPL=0,0;RPP=1612.07,591.479;RPPR=0;RPR=741,271;RUN=1,1;SAF=741,271;SAP=1612.07,591.479;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:48:0,26,21:0:0:26,21:920,733:-133.164,-58.9786,-51.1518,-74.2804,0,-67.9588 1/2:60:0,33,26:0:0:33,26:1154,909:-165.173,-72.0537,-62.1198,-93.2134,0,-85.3867 1/2:46:0,21,25:0:0:21,25:748,851:-129.42,-68.6653,-62.3436,-61.1015,0,-53.5757 1/2:45:0,26,19:0:0:26,19:932,684:-131.375,-55.4886,-47.6619,-76.2428,0,-70.5232 1/1:43:0,42,0:0:0:42,0:1508,0:-135.291,-12.6433,0,-135.291,-12.6433,-135.291 1/1:37:0,37,0:0:0:37,0:1316,0:-117.875,-11.1381,0,-117.875,-11.1381,-117.875 1/1:79:0,79,0:0:0:79,0:2816,0:-251.984,-23.7814,0,-251.984,-23.7814,-251.984 2/2:58:0,0,58:0:0:0,58:0,2032:-179.369,-179.369,-179.369,-17.4597,-17.4597,0 1/2:72:0,43,27:0:0:43,27:1533,958:-199.142,-74.368,-61.4237,-124.761,0,-116.634 1/2:7:0,2,5:0:0:2,5:72,173:-19.7572,-13.8917,-13.2896,-6.21747,0,-4.71232 1/2:5:0,3,2:0:0:3,2:108,70:-14.4066,-5.89483,-4.99174,-8.85636,0,-8.2543 1/2:20:0,5,15:0:0:5,15:180,517:-56.234,-41.5827,-40.0775,-15.0053,0,-10.4899 1/2:41:0,30,11:0:0:30,11:1076,388:-119.197,-31.579,-22.5481,-87.9697,0,-84.6584 1/1:62:0,61,0:0:0:61,0:2171,0:-194.791,-18.3628,0,-194.791,-18.3628,-194.791 1/1:88:0,87,0:0:0:87,0:3124,0:-279.929,-26.1896,0,-279.929,-26.1896,-279.929 1/1:31:0,30,0:0:0:30,0:1045,0:-93.6636,-9.0309,0,-93.6636,-9.0309,-93.6636 1/1:27:0,27,0:0:0:27,0:964,0:-86.746,-8.12781,0,-86.746,-8.12781,-86.746 1/2:106:0,61,44:0:0:61,44:2192,1535:-300.361,-122.059,-103.696,-178.297,0,-165.052 1/2:53:0,35,18:0:0:35,18:1248,628:-152.393,-50.843,-40.307,-101.899,0,-96.4803 1/1:37:0,37,0:0:0:37,0:1328,0:-118.995,-11.1381,0,-118.995,-11.1381,-118.995 1/1:56:0,56,0:0:0:56,0:2012,0:-180.171,-16.8577,0,-180.171,-16.8577,-180.171 chr08 25191936 . GAC AAA,GAA 28647.9 PASS AB=0.428986,0.568116;ABP=33.2347,30.8177;AC=29,13;AF=0.690476,0.309524;AN=42;AO=774,478;CIGAR=1X1M1X,2M1X;DP=1256;DPB=1256;DPRA=0.697619,1.3046;EPP=1683.73,1040.97;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.8,2.14286;MQM=51.6525,42.2531;MQMR=0;NS=21;NUMALT=2;ODDS=3.35426;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27444,17023;QR=0;RO=0;RPL=772,267;RPP=1666.4,17.2566;RPPR=0;RPR=2,211;RUN=1,1;SAF=772,267;SAP=1666.4,17.2566;SAR=2,211;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,27,38:0:0:27,38:960,1351:-183.448,-106.511,-98.3828,-77.0165,0,-65.5773 1/2:74:0,34,40:0:0:34,40:1188,1394:-205.64,-110.08,-99.8451,-95.9022,0,-83.861 1/2:57:0,22,35:0:0:22,35:769,1247:-162.267,-99.9367,-93.3141,-62.6794,0,-52.1434 1/2:70:0,26,44:0:0:26,44:927,1580:-200.744,-125.302,-117.475,-75.7951,0,-62.5498 1/1:47:0,45,2:0:0:45,2:1599,68:-143.509,-13.5464,0,-138.087,-7.78839,-137.485 1/1:39:0,39,0:0:0:39,0:1384,0:-123.96,-11.7402,0,-123.96,-11.7402,-123.96 1/1:87:0,86,1:0:0:86,1:3076,36:-274.385,-25.8886,0,-271.577,-22.7351,-271.276 2/2:84:0,0,83:0:0:0,83:0,2953:-258.559,-258.559,-258.559,-24.9855,-24.9855,0 1/2:103:0,45,58:0:0:45,58:1601,2084:-292.23,-161.945,-148.398,-130.635,0,-113.176 1/2:8:0,2,6:0:0:2,6:72,216:-22.9884,-17.1262,-16.5242,-6.21747,0,-4.41129 1/2:7:0,4,3:0:0:4,3:139,104:-19.5441,-8.56235,-7.35823,-11.32,0,-10.4169 1/2:26:0,5,21:0:0:5,21:180,756:-75.2147,-60.567,-59.0618,-15.0053,0,-8.68367 1/2:63:0,30,33:0:0:30,33:1043,1180:-178.042,-93.3676,-84.3367,-85.0214,0,-75.0874 1/1:66:0,66,0:0:0:66,0:2348,0:-210.869,-19.868,0,-210.869,-19.868,-210.869 1/1:91:0,90,0:0:0:90,0:3178,0:-284.709,-27.0927,0,-284.709,-27.0927,-284.709 1/1:31:0,31,0:0:0:31,0:1087,0:-97.3586,-9.33193,0,-97.3586,-9.33193,-97.3586 1/1:28:0,28,0:0:0:28,0:993,0:-89.5088,-8.42884,0,-89.5088,-8.42884,-89.5088 1/2:129:0,61,68:0:0:61,68:2178,2431:-368.251,-191.194,-172.831,-177.409,0,-156.939 1/2:87:0,40,46:0:0:40,46:1412,1623:-241.721,-127.579,-115.538,-114.142,0,-100.295 1/1:37:0,37,0:0:0:37,0:1328,0:-118.801,-11.1381,0,-118.801,-11.1381,-118.801 1/1:56:0,56,0:0:0:56,0:1982,0:-177.53,-16.8577,0,-177.53,-16.8577,-177.53 chr08 25191956 . G A 14921.1 PASS AB=0.42029;ABP=41.0897;AC=29;AF=0.690476;AN=42;AO=755;CIGAR=1X;DP=1245;DPB=1245;DPRA=0.673837;EPP=1642.47;EPPR=10.8276;GTI=1;LEN=1;MEANALT=1;MQM=51.7629;MQMR=42.1653;NS=21;NUMALT=1;ODDS=4.04164;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26987;QR=17427;RO=490;RPL=755;RPP=1642.47;RPPR=1067.03;RPR=0;RUN=1;SAF=755;SAP=1642.47;SAR=0;SRF=266;SRP=10.8276;SRR=224;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:39,27:39:1395:27:968:-66.2421,0,-101.999 0/1:70:38,32:38:1351:32:1148:-81.4181,0,-97.1266 0/1:57:35,22:35:1235:22:792:-54.2069,0,-92.2264 0/1:72:46,26:46:1644:26:932:-62.3933,0,-122.559 1/1:46:2,44:2:72:44:1576:-135.125,-7.18493,0 1/1:38:0,38:0:0:38:1348:-120.74,-11.4391,0 1/1:84:2,82:2:72:82:2920:-254.97,-19.0373,0 0/0:86:86,0:86:3049:0:0:0,-25.8886,-266.353 0/1:101:57,44:57:2031:44:1572:-111.17,0,-146.004 0/1:8:6,2:6:216:2:72:-4.41129,0,-16.5242 0/1:6:2,4:2:72:4:144:-11.1485,0,-4.80315 0/1:25:20,5:20:716:5:180:-8.9847,0,-55.852 0/1:66:36,30:36:1280:30:1072:-76.775,0,-92.0477 1/1:65:0,65:0:0:65:2291:-205.842,-19.567,0 1/1:87:0,87:0:0:87:3116:-279.507,-26.1896,0 1/1:30:0,30:0:0:30:1068:-95.6396,-9.0309,0 1/1:27:0,27:0:0:27:968:-87.3494,-8.12781,0 0/1:129:70,59:70:2487:59:2120:-151.72,0,-177.088 0/1:90:51,39:51:1807:39:1404:-99.1953,0,-130.417 1/1:37:0,37:0:0:37:1328:-118.8,-11.1381,0 1/1:55:0,55:0:0:55:1968:-176.27,-16.5567,0 chr08 25196237 . G A 8159.34 PASS AB=0.459752;ABP=12.0996;AC=14;AF=0.333333;AN=42;AO=376;CIGAR=1X;DP=1279;DPB=1279;DPRA=1.54525;EPP=793.634;EPPR=1955.17;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9989;NS=21;NUMALT=1;ODDS=0.248121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12970;QR=30353;RO=903;RPL=181;RPP=4.14224;RPPR=11.9583;RPR=195;RUN=1;SAF=184;SAP=3.37991;SAR=192;SRF=422;SRP=11.3812;SRR=481;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:22,18:22:719:18:621:-44.17,0,-52.9722 0/1:47:24,23:24:795:23:807:-58.8008,0,-57.7053 0/1:35:16,19:16:548:19:647:-48.0127,0,-39.108 0/1:54:29,25:29:981:25:861:-61.5469,0,-72.34 0/0:83:76,7:76:2578:7:244:0,-2.68606,-209.968 0/0:44:44,0:44:1456:0:0:0,-13.2453,-131.324 0/0:68:68,0:68:2289:0:0:0,-20.47,-206.27 1/1:66:0,66:0:0:66:2295:-206.813,-19.868,0 0/1:109:59,50:59:1939:50:1729:-123.08,0,-141.968 0/1:12:7,5:7:244:5:176:-12.5727,0,-18.6871 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:21:11,10:11:361:10:331:-23.7898,0,-26.4853 0/1:72:36,36:36:1193:36:1251:-91.2171,0,-85.9903 0/0:64:64,0:64:2153:0:0:0,-19.2659,-194.034 0/0:67:66,1:66:2200:1:32:0,-16.9697,-195.061 0/0:22:22,0:22:746:0:0:0,-6.62266,-67.4541 0/0:21:21,0:21:694:0:0:0,-6.32163,-62.768 0/1:147:71,76:71:2409:76:2603:-190.266,0,-172.814 0/1:109:74,35:74:2474:35:1197:-75.2177,0,-190.096 0/0:44:44,0:44:1514:0:0:0,-13.2453,-136.55 0/0:150:149,1:149:5060:1:32:0,-41.9552,-452.365 chr08 25278788 . C A,G 42453.8 PASS AB=0.535506,0.464494;ABP=12.4166,12.4166;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1435,450;CIGAR=1X,1X;DP=1885;DPB=1885;DPRA=1.99891,0.925132;EPP=2748.61,790.608;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.7,1.93333;MQM=58.9024,58.8044;MQMR=0;NS=21;NUMALT=2;ODDS=11.6902;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50856,15968;QR=0;RO=0;RPL=44,23;RPP=2748.61,790.608;RPPR=0;RPR=1391,427;RUN=1,1;SAF=1435,450;SAP=3119.07,980.173;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,29,30:0:0:29,30:1029,1056:-169.922,-86.2095,-77.4796,-84.0653,0,-75.0344 1/2:123:0,57,66:0:0:57,66:2029,2353:-356.611,-191.419,-174.26,-165.547,0,-145.679 1/2:63:0,36,27:0:0:36,27:1281,959:-182.795,-78.4176,-67.5805,-104.732,0,-96.6043 1/2:139:0,85,54:0:0:85,54:3005,1913:-400.263,-156.068,-130.48,-244.548,0,-228.293 1/1:251:0,248,3:0:0:248,3:8835,108:-794.108,-74.6554,0,-785.332,-65.5204,-784.428 1/1:77:0,76,1:0:0:76,1:2696,36:-242.333,-22.8783,0,-239.396,-19.582,-239.095 1/1:109:0,109,0:0:0:109,0:3894,0:-348.598,-32.8123,0,-348.598,-32.8123,-348.598 2/2:46:0,0,46:0:0:0,46:0,1624:-146.034,-146.034,-146.034,-13.8474,-13.8474,0 1/2:121:0,52,69:0:0:52,69:1862,2460:-352.249,-200.543,-184.889,-152.063,0,-131.292 1/2:17:0,8,9:0:0:8,9:288,324:-50.2959,-26.7966,-24.3883,-23.8592,0,-21.1499 1/2:14:0,7,7:0:0:7,7:252,248:-41.1218,-20.557,-18.4498,-20.9217,0,-18.8145 1/2:58:0,33,25:0:0:33,25:1165,892:-167.894,-73.0381,-63.1041,-95.2104,0,-87.6846 1/2:94:0,61,33:0:0:61,33:2184,1163:-272.946,-94.8752,-76.5124,-178.425,0,-168.491 1/1:61:0,61,0:0:0:61,0:2144,0:-193.035,-18.3628,0,-193.035,-18.3628,-193.035 1/1:151:0,151,0:0:0:151,0:5369,0:-481.284,-45.4555,0,-481.284,-45.4555,-481.284 1/1:81:0,81,0:0:0:81,0:2847,0:-256.404,-24.3834,0,-256.404,-24.3834,-256.404 1/1:111:0,111,0:0:0:111,0:3884,0:-349.081,-33.4143,0,-349.081,-33.4143,-349.081 1/2:114:0,55,59:0:0:55,59:1942,2080:-327.472,-169.439,-152.882,-158.385,0,-140.625 1/2:57:0,37,20:0:0:37,20:1309,716:-165.26,-58.7448,-47.6067,-106.872,0,-100.851 1/1:83:0,82,1:0:0:82,1:2940,36:-264.304,-24.6845,0,-261.366,-21.3872,-261.065 1/1:56:0,56,0:0:0:56,0:1901,0:-169.943,-16.8577,0,-169.943,-16.8577,-169.943 chr08 25398114 . CCA CCG,ACG 20567.3 PASS AB=0.488095,0.510204;ABP=3.73412,3.54209;AC=29,13;AF=0.690476,0.309524;AN=42;AO=692,355;CIGAR=2M1X,1X1M1X;DP=1051;DPB=1051;DPRA=0.941509,1.38351;EPP=1505.67,773.883;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.8,2.21429;MQM=42.1965,37.9099;MQMR=0;NS=21;NUMALT=2;ODDS=2.26551;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24703,12467;QR=0;RO=0;RPL=692,355;RPP=1505.67,773.883;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1505.67,773.883;SAR=692,355;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:10:0,3,7:0:0:3,7:108,247:-28.0991,-19.4496,-18.5465,-8.99805,0,-6.89084 1/2:35:0,6,29:0:0:6,29:216,1027:-90.2422,-74.0375,-72.2314,-16.5351,0,-7.80522 1/2:61:0,24,36:0:0:24,36:852,1235:-161.511,-94.6888,-87.4641,-66.8237,0,-55.9866 1/2:68:0,35,33:0:0:35,33:1256,1181:-191.635,-91.6318,-81.0958,-100.349,0,-90.4153 1/1:88:0,86,1:0:0:86,1:3064,36:-269.782,-25.8886,0,-267.002,-23.1045,-266.701 1/1:22:0,22,0:0:0:22,0:784,0:-65.5437,-6.62266,0,-65.5437,-6.62266,-65.5437 1/1:45:0,45,0:0:0:45,0:1596,0:-138.393,-13.5464,0,-138.393,-13.5464,-138.393 2/2:53:0,0,52:0:0:0,52:0,1860:-154.9,-154.9,-154.9,-15.6536,-15.6536,0 1/2:111:0,48,63:0:0:48,63:1716,2203:-310.367,-172.479,-158.03,-138.233,0,-119.269 1/2:9:0,7,2:0:0:7,2:248,72:-25.4141,-5.75562,-3.64841,-19.9955,0,-19.3934 1/2:7:0,4,3:0:0:4,3:144,108:-17.9756,-7.3717,-6.16758,-10.9131,0,-10.01 1/2:21:0,8,13:0:0:8,13:280,465:-57.5318,-35.3365,-32.9283,-22.5335,0,-18.6202 1/2:103:0,57,46:0:0:57,46:2040,1580:-283.323,-121.576,-104.418,-162.083,0,-148.235 1/1:43:0,40,2:0:0:40,2:1436,72:-125.298,-12.0412,0,-119.738,-6.47561,-119.136 1/1:55:0,55,0:0:0:55,0:1972,0:-173.405,-16.5567,0,-173.405,-16.5567,-173.405 1/1:22:0,22,0:0:0:22,0:788,0:-70.1192,-6.62266,0,-70.1192,-6.62266,-70.1192 1/1:17:0,17,0:0:0:17,0:608,0:-54.0635,-5.11751,0,-54.0635,-5.11751,-54.0635 1/2:116:0,65,51:0:0:65,51:2332,1775:-312.312,-133.367,-113.8,-179.276,0,-163.923 1/2:47:0,30,17:0:0:30,17:1080,606:-133.167,-47.1475,-38.1166,-86.363,0,-81.2455 1/1:44:0,44,0:0:0:44,0:1549,0:-135.65,-13.2453,0,-135.65,-13.2453,-135.65 1/1:74:0,74,0:0:0:74,0:2634,0:-224.483,-22.2762,0,-224.483,-22.2762,-224.483 chr08 25643842 . G A 6383.91 PASS AB=0.4437;ABP=23.5491;AC=13;AF=0.309524;AN=42;AO=389;CIGAR=1X;DP=1673;DPB=1673;DPRA=0.939759;EPP=847.713;EPPR=2747.92;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9696;NS=21;NUMALT=1;ODDS=7.69249;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13906;QR=45824;RO=1284;RPL=389;RPP=847.713;RPPR=2747.92;RPR=0;RUN=1;SAF=0;SAP=847.713;SAR=389;SRF=0;SRP=2791.18;SRR=1284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:31,24:31:1112:24:864:-61.5259,0,-83.8347 0/1:76:51,25:51:1827:25:887:-57.2698,0,-141.832 0/1:47:20,27:20:720:27:972:-73.6495,0,-50.9804 0/1:99:60,39:60:2156:39:1400:-96.4972,0,-164.505 0/0:143:141,2:141:5022:2:72:0,-36.2106,-445.291 0/0:75:75,0:75:2671:0:0:0,-22.5772,-240.636 0/0:148:147,1:147:5233:1:36:0,-40.9542,-467.511 1/1:55:0,55:0:0:55:1952:-175.954,-16.5567,0 0/1:165:93,72:93:3301:72:2578:-182.599,0,-247.639 0/1:7:2,5:2:57:5:177:-14.1696,0,-3.3061 0/1:21:13,8:13:455:8:284:-19.5817,0,-34.9603 0/1:17:8,9:8:288:9:320:-24.0248,0,-21.1499 0/1:97:48,49:48:1719:49:1752:-128.764,0,-125.795 0/0:73:73,0:73:2604:0:0:0,-21.9752,-234.609 0/0:128:128,0:128:4575:0:0:0,-38.5318,-411.915 0/0:99:99,0:99:3525:0:0:0,-29.802,-317.459 0/0:39:39,0:39:1392:0:0:0,-11.7402,-125.579 0/1:58:25,33:25:896:33:1176:-88.688,0,-63.5006 0/1:104:64,40:64:2292:40:1436:-98.2305,0,-175.234 0/0:97:97,0:97:3467:0:0:0,-29.1999,-310.88 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 chr08 25643851 . C T 27240.7 PASS AB=0.561737;ABP=27.4092;AC=29;AF=0.690476;AN=42;AO=1286;CIGAR=1X;DP=1671;DPB=1671;DPRA=1.44196;EPP=2795.52;EPPR=836.856;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9697;MQMR=60;NS=21;NUMALT=1;ODDS=6.08475;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46105;QR=13716;RO=384;RPL=1286;RPP=2795.52;RPPR=836.856;RPR=0;RUN=1;SAF=0;SAP=2795.52;SAR=1286;SRF=0;SRP=836.856;SRR=384;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:22,30:22:792:30:1076:-81.4993,0,-55.9521 0/1:73:23,50:23:813:50:1785:-138.956,0,-51.5139 0/1:47:27,20:27:972:20:716:-50.6193,0,-73.6495 0/1:96:38,58:38:1360:58:2080:-158.571,0,-93.8017 1/1:144:2,142:2:72:142:5081:-450.598,-36.5116,0 1/1:75:0,75:0:0:75:2684:-241.805,-22.5773,0 1/1:149:1,148:1:36:148:5316:-474.974,-41.2552,0 0/0:56:56,0:56:2004:0:0:0,-16.8577,-180.634 0/1:164:70,94:70:2504:94:3373:-254.416,0,-176.244 0/1:7:5,2:5:172:2:72:-4.72951,0,-13.7108 0/1:21:8,13:8:288:13:460:-35.4137,0,-19.9458 0/1:18:9,9:9:324:9:320:-23.7238,0,-24.0873 0/1:99:51,48:51:1812:48:1724:-125.643,0,-133.56 1/1:74:0,74:0:0:74:2660:-239.645,-22.2762,0 1/1:128:0,128:0:0:128:4596:-413.803,-38.5318,0 1/1:99:0,99:0:0:99:3544:-319.169,-29.802,0 1/1:40:0,40:0:0:40:1435:-129.448,-12.0412,0 0/1:55:30,25:30:1076:25:900:-64.7644,0,-80.5962 0/1:105:40,65:40:1427:65:2332:-178.531,0,-97.1186 1/1:100:2,97:2:64:97:3471:-306.138,-24.0698,0 1/1:69:0,69:0:0:69:2480:-223.453,-20.7711,0 chr08 25730058 . G A 8726.78 PASS AB=0.463784;ABP=13.5484;AC=13;AF=0.309524;AN=42;AO=526;CIGAR=1X;DP=2131;DPB=2131;DPRA=0.851726;EPP=1145.2;EPPR=3483.88;GTI=0;LEN=1;MEANALT=1;MQM=51.1654;MQMR=59.5346;NS=21;NUMALT=1;ODDS=8.88209;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18813;QR=57223;RO=1603;RPL=0;RPP=1145.2;RPPR=3483.88;RPR=526;RUN=1;SAF=526;SAP=1145.2;SAR=0;SRF=1603;SRP=3483.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:36,33:36:1296:33:1188:-85.5046,0,-96.0667 0/1:82:41,41:41:1460:41:1468:-106.471,0,-106.967 0/1:70:43,27:43:1521:27:972:-65.8485,0,-116.109 0/1:139:78,61:78:2758:61:2176:-152.881,0,-206.464 0/0:192:190,0:190:6782:0:0:0,-57.1957,-610.111 0/0:113:113,0:113:4037:0:0:0,-34.0164,-363.464 0/0:154:152,2:152:5413:2:72:0,-39.5391,-480.081 1/1:87:1,86:1:36:86:3084:-273.658,-22.5913,0 0/1:192:90,102:90:3213:102:3640:-267.967,0,-231.542 0/1:25:13,12:13:468:12:428:-31.2247,0,-34.9339 0/1:13:7,6:7:252:6:216:-15.8274,0,-19.1156 0/1:33:17,16:17:608:16:553:-40.0961,0,-45.1134 0/1:123:63,60:63:2225:60:2144:-155.029,0,-163.427 0/0:129:129,0:129:4587:0:0:0,-38.8329,-412.763 0/0:163:162,1:162:5805:1:36:0,-45.4848,-518.92 0/0:94:94,0:94:3346:0:0:0,-28.2968,-301.285 0/0:97:96,1:96:3444:1:36:0,-25.6169,-306.278 0/1:123:70,53:70:2516:53:1908:-134.589,0,-189.638 0/1:56:38,18:38:1360:18:644:-40.6658,0,-105.788 0/0:133:126,7:126:4512:7:248:0,-17.4027,-382.959 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 chr08 25732941 . C T 17885.5 PASS AB=0.562327;ABP=39.5524;AC=13;AF=0.309524;AN=42;AO=772;CIGAR=1X;DP=1941;DPB=1941;DPRA=1.35049;EPP=1679.39;EPPR=2539.29;GTI=1;LEN=1;MEANALT=1.05882;MQM=54.4819;MQMR=59.8476;NS=21;NUMALT=1;ODDS=3.45303;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27509;QR=41230;RO=1168;RPL=532;RPP=242.84;RPPR=241.285;RPR=240;RUN=1;SAF=532;SAP=242.84;SAR=240;SRF=763;SRP=241.285;SRR=405;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:29,71:29:1036:71:2518:-195.722,0,-63.2782 0/1:75:15,60:15:536:60:2148:-170.096,0,-25.9976 0/1:112:50,62:50:1745:62:2184:-161.482,0,-123.614 0/1:165:68,97:68:2428:97:3455:-256.734,0,-169.101 0/0:111:108,3:108:3803:3:104:0,-23.814,-332.695 0/0:74:72,2:72:2524:2:72:0,-15.5576,-220.69 0/0:66:66,0:66:2338:0:0:0,-19.868,-210.679 1/1:155:0,155:0:0:155:5544:-497.356,-46.6597,0 0/1:169:67,101:67:2381:101:3602:-271.578,0,-163.614 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:13:9,4:9:315:4:144:-9.28525,0,-24.7738 0/1:53:30,23:30:1044:23:828:-58.329,0,-78.3123 0/1:190:90,100:90:3144:100:3555:-260.408,0,-225.988 0/0:95:95,0:95:3399:0:0:0,-28.5978,-306.124 0/0:91:91,0:91:3187:0:0:0,-27.3937,-287.025 0/0:25:24,1:24:839:1:36:0,-3.97723,-72.1664 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.167 0/1:102:48,54:48:1674:54:1932:-140.933,0,-120.208 0/1:94:62,32:62:2207:32:1135:-71.9266,0,-170.598 0/0:142:141,1:141:4956:1:36:0,-39.148,-442.572 0/0:63:62,1:62:2206:1:36:0,-15.3666,-195.206 chr08 25744362 . CTA TTT,CTT 21962.3 PASS AB=0.516522,0.483478;ABP=4.37361,4.37361;AC=29,13;AF=0.690476,0.309524;AN=42;AO=805,338;CIGAR=1X1M1X,2M1X;DP=1144;DPB=1144;DPRA=1.07157,1.29481;EPP=1751.05,736.968;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.75,1.93333;MQM=37.5801,45.5562;MQMR=0;NS=21;NUMALT=2;ODDS=0.700538;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28077,12115;QR=0;RO=0;RPL=0,0;RPP=1751.05,736.968;RPPR=0;RPR=805,338;RUN=1,1;SAF=805,338;SAP=1751.05,736.968;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:47:0,20,27:0:0:20,27:672,972:-130.539,-78.8693,-72.8487,-52.0052,0,-43.8774 1/2:59:0,33,26:0:0:33,26:1137,936:-157.183,-73.7818,-63.8478,-83.7344,0,-75.9076 1/2:72:0,34,38:0:0:34,38:1187,1364:-200.635,-108.771,-98.5355,-92.2059,0,-80.7667 1/2:105:0,45,60:0:0:45,60:1560,2152:-292.601,-173.596,-160.05,-119.344,0,-101.283 1/1:98:0,92,6:0:0:92,6:3221,216:-273.789,-27.6948,0,-256.332,-9.88347,-254.526 1/1:50:0,50,0:0:0:50,0:1756,0:-142.581,-15.0515,0,-142.581,-15.0515,-142.581 1/1:42:0,42,0:0:0:42,0:1460,0:-119.703,-12.6433,0,-119.703,-12.6433,-119.703 2/2:51:0,0,51:0:0:0,51:0,1828:-161.55,-161.55,-161.55,-15.3525,-15.3525,0 1/2:46:0,29,17:0:0:29,17:1016,608:-128.833,-48.9163,-40.1864,-80.2629,0,-75.1454 1/2:8:0,3,5:0:0:3,5:92,180:-20.4528,-14.3636,-13.4605,-6.38116,0,-4.87601 1/2:4:0,3,1:0:0:3,1:98,36:-10.4827,-3.21998,-2.31689,-7.60279,0,-7.30176 1/2:24:0,5,19:0:0:5,19:177,680:-67.2136,-54.6327,-53.1276,-12.9019,0,-7.18236 1/2:101:0,54,47:0:0:54,47:1890,1676:-280.686,-134.763,-118.507,-146.266,0,-132.117 1/1:64:0,63,0:0:0:63,0:2194,0:-186.545,-18.9649,0,-186.545,-18.9649,-186.545 1/1:45:0,45,0:0:0:45,0:1574,0:-135.16,-13.5464,0,-135.16,-13.5464,-135.16 1/1:30:0,30,0:0:0:30,0:1041,0:-89.5402,-9.0309,0,-89.5402,-9.0309,-89.5402 1/1:39:0,39,0:0:0:39,0:1383,0:-120.306,-11.7402,0,-120.306,-11.7402,-120.306 1/2:43:0,27,16:0:0:27,16:951,576:-116.998,-46.6121,-38.4843,-70.7293,0,-65.9128 1/2:66:0,44,22:0:0:44,22:1544,783:-181.344,-63.2259,-49.9806,-118.462,0,-111.84 1/1:110:0,108,2:0:0:108,2:3732,72:-313.744,-32.5112,0,-307.958,-26.3711,-307.356 1/1:40:0,39,1:0:0:39,1:1392,36:-113.32,-11.7402,0,-110.385,-8.44663,-110.083 chr08 25744979 . T C 8864.98 PASS AB=0.335526;ABP=145.87;AC=26;AF=0.619048;AN=42;AO=479;CIGAR=1X;DP=982;DPB=982;DPRA=1.52062;EPP=1043.15;EPPR=1090.92;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.9624;MQMR=60;NS=21;NUMALT=1;ODDS=2.25405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17089;QR=17971;RO=501;RPL=0;RPP=1043.15;RPPR=1090.92;RPR=479;RUN=1;SAF=0;SAP=1043.15;SAR=479;SRF=0;SRP=1090.92;SRR=501;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:106,19:106:3800:19:684:-23.9018,0,-304.209 0/1:81:65,16:65:2328:16:563:-26.6157,0,-185.396 0/1:62:37,25:37:1332:25:891:-61.8449,0,-101.519 0/1:57:45,12:45:1611:12:422:-21.146,0,-128.121 0/1:27:4,23:4:144:23:824:-66.3555,0,-5.18581 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/0:83:83,0:83:2980:0:0:0,-24.9855,-268.432 0/1:66:36,30:36:1288:30:1076:-77.2849,0,-96.3556 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:24:18,6:18:648:6:216:-12.5658,0,-51.4272 0/1:82:52,30:52:1860:30:1072:-72.108,0,-142.995 1/1:56:0,56:0:0:56:2016:-181.713,-16.8577,0 1/1:43:1,42:1:36:42:1499:-131.606,-9.34602,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:18:0,18:0:0:18:614:-55.577,-5.41854,0 0/1:47:25,22:25:900:22:760:-54.5675,0,-67.1726 0/1:35:14,21:14:504:21:748:-57.1092,0,-35.162 1/1:58:1,57:1:36:57:2044:-180.634,-13.8615,0 1/1:32:0,32:0:0:32:1144:-103.27,-9.63296,0 chr08 25882224 . G A 9890.43 PASS AB=0.470052;ABP=8.99316;AC=14;AF=0.333333;AN=42;AO=455;CIGAR=1X;DP=1651;DPB=1651;DPRA=1.0276;EPP=15.4235;EPPR=8.11462;GTI=1;LEN=1;MEANALT=1.0625;MQM=49.9253;MQMR=46.8544;NS=21;NUMALT=1;ODDS=3.94711;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16259;QR=42355;RO=1195;RPL=0;RPP=991.03;RPPR=2571.93;RPR=455;RUN=1;SAF=202;SAP=15.4235;SAR=253;SRF=627;SRP=9.33574;SRR=568;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:42,40:42:1492:40:1436:-102.81,0,-103.549 0/1:39:25,14:25:896:14:504:-27.3328,0,-56.308 0/1:61:40,21:40:1415:21:747:-48.7558,0,-106.516 0/1:88:55,33:55:1951:33:1176:-78.1736,0,-143.791 0/0:195:193,2:193:6849:2:68:0,-52.3339,-587.481 0/0:48:47,1:47:1680:1:36:0,-11.3949,-128.724 0/0:84:84,0:84:2939:0:0:0,-25.2865,-227.91 1/1:80:0,80:0:0:80:2834:-238.996,-24.0824,0 0/1:119:66,53:66:2342:53:1895:-131.46,0,-167.554 0/1:16:9,7:9:316:7:248:-17.8477,0,-23.9624 1/1:5:0,5:0:0:5:180:-15.5015,-1.50515,0 0/1:17:13,4:13:464:4:140:-7.32411,0,-34.5947 0/1:76:38,38:38:1352:38:1355:-96.2106,0,-92.9845 0/0:74:74,0:74:2610:0:0:0,-22.2762,-225.716 0/0:140:140,0:140:4979:0:0:0,-42.1442,-436.714 0/0:82:81,1:81:2870:1:36:0,-22.5979,-238.466 0/0:65:65,0:65:2307:0:0:0,-19.5669,-194.747 0/1:154:59,94:59:2079:94:3376:-244.486,0,-134.711 0/1:116:59,57:59:2090:57:2048:-147.437,0,-147.674 0/0:88:83,5:83:2940:5:180:0,-11.6816,-242.369 0/0:22:22,0:22:784:0:0:0,-6.62266,-61.579 chr08 26003648 . TGGAA TGAAA,TGAA 55038.2 PASS AB=0.508277,0.484907;ABP=3.62136,5.04222;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1918,617;CIGAR=2M1X2M,1M1D3M;DP=2545;DPB=2421.6;DPRA=0,0.900128;EPP=4115.94,1342.81;EPPR=0;GTI=1;LEN=1,1;MEANALT=2,2.33333;MQM=59.6053,59.3079;MQMR=0;NS=21;NUMALT=2;ODDS=3.58252;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68553,21906;QR=0;RO=0;RPL=6,0;RPP=4115.94,1342.81;RPPR=0;RPR=1912,617;RUN=1,1;SAF=1918,617;SAP=4167.89,1342.81;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:199:0,94,104:0:0:94,104:3346,3698:-573.406,-301.163,-272.866,-272.347,0,-241.04 1/2:133:0,64,69:0:0:64,69:2284,2446:-385.3,-199.526,-180.26,-186.129,0,-165.358 1/2:100:0,47,51:0:0:47,51:1688,1807:-284.899,-147.205,-133.057,-137.7,0,-122.348 1/2:163:0,85,78:0:0:85,78:3046,2759:-471.018,-224.586,-198.998,-246.786,0,-223.306 1/1:391:0,379,10:0:0:379,10:13569,352:-1219.97,-114.09,0,-1191.33,-85.459,-1188.32 1/1:110:0,109,1:0:0:109,1:3895,30:-350.473,-32.8123,0,-348.346,-30.4141,-348.045 1/1:187:0,187,0:0:0:187,0:6700,0:-602.757,-56.2926,0,-602.757,-56.2926,-602.757 2/2:107:0,2,105:0:0:2,105:64,3736:-336.13,-331.248,-330.646,-31.6082,-26.4202,0 1/2:206:0,106,96:0:0:106,96:3770,3403:-584.431,-277.207,-245.297,-307.236,0,-278.337 1/2:8:0,5,3:0:0:5,3:180,108:-23.8592,-9.17208,-7.66693,-15.0469,0,-14.1438 1/2:6:0,2,4:0:0:2,4:72,140:-17.3434,-11.4628,-10.8607,-6.23466,0,-5.03054 1/2:18:0,8,10:0:0:8,10:284,356:-52.4233,-29.3709,-26.9627,-23.407,0,-20.3967 1/2:96:0,55,41:0:0:55,41:1976,1468:-280.865,-120.045,-103.489,-161.178,0,-148.836 1/1:105:0,104,0:0:0:104,0:3694,0:-332.294,-31.3071,0,-332.294,-31.3071,-332.294 1/1:158:0,158,0:0:0:158,0:5633,0:-506.332,-47.5627,0,-506.332,-47.5627,-506.332 1/1:130:0,130,0:0:0:130,0:4652,0:-418.842,-39.1339,0,-418.842,-39.1339,-418.842 1/1:160:0,160,0:0:0:160,0:5732,0:-515.047,-48.1648,0,-515.047,-48.1648,-515.047 1/2:44:0,20,24:0:0:20,24:706,855:-127.418,-70.017,-63.9964,-57.7552,0,-50.5304 1/2:54:0,36,18:0:0:36,18:1296,640:-158.243,-52.4931,-41.656,-106.107,0,-100.688 1/1:127:0,124,3:0:0:124,3:4418,108:-397.273,-37.3277,0,-388.461,-28.1556,-387.558 1/1:43:0,43,0:0:0:43,0:1548,0:-139.612,-12.9443,0,-139.612,-12.9443,-139.612 chr08 26003654 . T A 11061.8 PASS AB=0.494696;ABP=3.26367;AC=13;AF=0.309524;AN=42;AO=636;CIGAR=1X;DP=2553;DPB=2553;DPRA=0.802194;EPP=1358.13;EPPR=4098.63;GTI=1;LEN=1;MEANALT=1.11765;MQM=59.2327;MQMR=59.6688;NS=21;NUMALT=1;ODDS=5.44039;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22745;QR=68503;RO=1914;RPL=3;RPP=1358.13;RPPR=4098.63;RPR=633;RUN=1;SAF=636;SAP=1384.07;SAR=0;SRF=1914;SRP=4159.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:92,108:92:3296:108:3880:-287.916,0,-236.452 0/1:136:64,72:64:2288:72:2550:-188.708,0,-164.954 0/1:103:49,54:49:1764:54:1925:-142.515,0,-128.03 0/1:161:82,79:82:2937:79:2817:-203.844,0,-216.096 0/0:391:381,10:381:13629:10:360:0,-84.9766,-1190.82 0/0:112:111,1:111:3969:1:36:0,-30.8126,-354.497 0/0:185:185,0:185:6625:0:0:0,-55.6905,-596.096 1/1:108:1,107:1:21:107:3833:-343.047,-30.4219,0 0/1:208:110,98:110:3917:98:3524:-254.649,0,-290.017 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:6:2,4:2:72:4:144:-11.0045,0,-5.03054 0/1:18:8,10:8:288:10:360:-27.3258,0,-20.6566 0/1:97:55,42:55:1980:42:1504:-106.426,0,-148.895 0/0:105:105,0:105:3764:0:0:0,-31.6081,-338.769 0/0:158:155,1:155:5518:1:28:0,-44.4609,-493.334 0/0:131:131,0:131:4678:0:0:0,-39.4349,-420.989 0/0:158:158,0:158:5680:0:0:0,-47.5627,-510.746 0/1:46:20,25:20:720:25:884:-66.113,0,-51.365 0/1:54:36,18:36:1292:18:648:-42.3786,0,-100.328 0/0:126:123,3:123:4409:3:108:0,-27.8546,-386.59 0/0:42:41,1:41:1476:1:36:0,-10.1764,-130.668 chr08 26003661 . A G 10966.7 PASS AB=0.494175;ABP=3.31388;AC=13;AF=0.309524;AN=42;AO=632;CIGAR=1X;DP=2551;DPB=2551;DPRA=0.859835;EPP=1366.71;EPPR=4133.22;GTI=1;LEN=1;MEANALT=1.0625;MQM=59.3259;MQMR=59.6079;NS=21;NUMALT=1;ODDS=5.0121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22650;QR=68822;RO=1918;RPL=631;RPP=1366.71;RPPR=4133.22;RPR=1;RUN=1;SAF=632;SAP=1375.38;SAR=0;SRF=1918;SRP=4167.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:201:93,108:93:3344:108:3872:-287.245,0,-239.106 0/1:135:63,72:63:2260:72:2576:-191.3,0,-162.596 0/1:101:48,52:48:1728:52:1864:-137.573,0,-125.342 0/1:161:82,79:82:2948:79:2821:-204.069,0,-217 0/0:392:382,10:382:13697:10:356:0,-85.6403,-1197.11 0/0:110:109,1:109:3916:1:36:0,-30.2105,-349.729 0/0:186:186,0:186:6680:0:0:0,-55.9916,-600.956 1/1:108:0,108:0:0:108:3888:-350.084,-32.5112,0 0/1:204:108,96:108:3865:96:3437:-248.097,0,-286.437 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:6:2,4:2:72:4:144:-11.0045,0,-5.03054 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 0/1:97:55,42:55:1968:42:1508:-106.786,0,-147.815 0/0:103:102,1:102:3672:1:36:0,-27.4078,-327.083 0/0:160:160,0:160:5744:0:0:0,-48.1648,-516.418 0/0:132:132,0:132:4704:0:0:0,-39.736,-423.333 0/0:158:158,0:158:5672:0:0:0,-47.5627,-509.649 0/1:46:21,25:21:756:25:888:-66.3884,0,-53.7399 0/1:54:36,18:36:1292:18:648:-42.3786,0,-100.328 0/0:128:125,3:125:4492:3:108:0,-28.4567,-394.057 0/0:44:44,0:44:1580:0:0:0,-13.2453,-141.469 chr08 26003664 . G T 40684.5 PASS AB=0.508325;ABP=3.62495;AC=29;AF=0.690476;AN=42;AO=1912;CIGAR=1X;DP=2536;DPB=2536;DPRA=1.12407;EPP=4154.87;EPPR=1355.84;GTI=1;LEN=1;MEANALT=1.05;MQM=59.7165;MQMR=59.199;NS=21;NUMALT=1;ODDS=4.53007;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68553;QR=22316;RO=623;RPL=1912;RPP=4154.87;RPPR=1355.84;RPR=0;RUN=1;SAF=1912;SAP=4154.87;SAR=0;SRF=623;SRP=1355.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:105,95:105:3772:95:3397:-244.516,0,-278.561 0/1:131:69,61:69:2465:61:2173:-156.346,0,-182.508 0/1:101:53,48:53:1892:48:1728:-125.401,0,-140.143 0/1:162:79,83:79:2828:83:2972:-218.756,0,-202.51 1/1:387:9,378:9:324:378:13573:-1188.85,-87.0105,0 1/1:111:1,110:1:36:110:3952:-352.967,-30.5116,0 1/1:190:0,190:0:0:190:6816:-613.191,-57.1957,0 0/0:108:108,0:108:3868:0:0:0,-32.5112,-348.076 0/1:202:95,107:95:3412:107:3833:-284.328,0,-246.453 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.0045 0/1:18:10,8:10:360:8:288:-20.6566,0,-27.3258 0/1:95:41,54:41:1472:54:1944:-146.258,0,-104.15 1/1:105:0,105:0:0:105:3772:-339.488,-31.6082,0 1/1:157:0,157:0:0:157:5640:-507.528,-47.2617,0 1/1:129:0,129:0:0:129:4627:-416.402,-38.8329,0 1/1:159:0,159:0:0:159:5692:-511.638,-47.8638,0 0/1:44:24,20:24:847:20:707:-50.7093,0,-63.3034 0/1:54:18,36:18:644:36:1276:-98.8856,0,-42.0173 1/1:125:3,122:3:108:122:4372:-383.421,-27.5536,0 1/1:44:1,43:1:36:43:1539:-136.335,-10.7784,0 chr08 26031336 . T C 5385.26 PASS AB=0.355556;ABP=166.112;AC=10;AF=0.238095;AN=42;AO=407;CIGAR=1X;DP=2316;DPB=2316;DPRA=1.55284;EPP=886.8;EPPR=4146.18;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.2801;MQMR=59.4036;NS=21;NUMALT=1;ODDS=5.08697;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14451;QR=67790;RO=1908;RPL=0;RPP=886.8;RPPR=4137.5;RPR=407;RUN=1;SAF=0;SAP=886.8;SAR=407;SRF=1;SRP=4137.5;SRR=1907;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:30,35:30:1035:35:1252:-93.3875,0,-73.847 0/1:71:37,34:37:1320:34:1211:-87.8499,0,-97.675 0/1:57:20,36:20:712:36:1296:-99.7264,0,-47.1893 0/1:78:36,42:36:1267:42:1493:-111.139,0,-90.8516 0/0:82:82,0:82:2900:0:0:0,-24.6845,-261.216 0/0:81:79,2:79:2815:2:72:0,-17.5844,-246.623 0/0:114:114,0:114:4057:0:0:0,-34.3174,-364.73 1/1:49:1,48:1:21:48:1692:-150.392,-12.6505,0 0/1:139:72,67:72:2555:67:2392:-173.693,0,-188.239 0/0:258:246,12:246:8719:12:419:0,-39.6456,-746.364 0/0:193:188,5:188:6736:5:176:0,-41.9138,-589.856 0/0:226:210,16:210:7416:16:572:0,-16.2193,-615.6 0/1:85:48,37:48:1693:37:1292:-90.9407,0,-127.034 0/0:62:62,0:62:2220:0:0:0,-18.6639,-199.987 0/0:101:99,2:99:3540:2:68:0,-23.9885,-312.335 0/0:56:56,0:56:2004:0:0:0,-16.8577,-180.393 0/0:74:74,0:74:2636:0:0:0,-22.2762,-237.284 0/1:375:319,56:319:11354:56:1992:-66.556,0,-908.139 0/1:30:17,13:17:595:13:461:-32.7918,0,-44.8444 0/0:80:79,1:79:2808:1:36:0,-20.4841,-249.295 0/0:40:39,1:39:1387:1:27:0,-9.34142,-122.371 chr08 26031342 . C T 38876.7 PASS AB=0.637714;ABP=147.149;AC=32;AF=0.761905;AN=42;AO=1865;CIGAR=1X;DP=2263;DPB=2263;DPRA=0;EPP=4052.81;EPPR=867.256;GTI=0;LEN=1;MEANALT=1;MQM=59.356;MQMR=59.2663;NS=21;NUMALT=1;ODDS=1.84465;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66136;QR=14134;RO=398;RPL=0;RPP=4052.81;RPPR=867.256;RPR=1865;RUN=1;SAF=0;SAP=4052.81;SAR=1865;SRF=0;SRP=867.256;SRR=398;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:32,25:32:1135:25:892:-63.4051,0,-85.2769 0/1:69:33,36:33:1180:36:1280:-94.6572,0,-85.665 0/1:57:37,20:37:1324:20:708:-46.8869,0,-102.303 0/1:75:41,34:41:1463:34:1208:-86.4488,0,-109.334 1/1:80:0,80:0:0:80:2848:-256.539,-24.0824,0 1/1:80:1,79:1:36:79:2808:-249.181,-20.4841,0 1/1:109:0,109:0:0:109:3868:-347.693,-32.8123,0 0/0:48:47,1:47:1661:1:36:0,-10.8512,-146.092 0/1:138:68,70:68:2418:70:2472:-181.093,0,-175.775 1/1:254:10,244:10:356:244:8599:-741.311,-44.0804,0 1/1:187:5,182:5:180:182:6481:-566.589,-39.7405,0 1/1:223:16,207:16:576:207:7358:-609.86,-14.9547,0 0/1:83:38,45:38:1336:45:1585:-117.934,0,-94.7994 1/1:61:0,61:0:0:61:2166:-194.987,-18.3628,0 1/1:94:0,94:0:0:94:3359:-302.431,-28.2968,0 1/1:60:0,60:0:0:60:2133:-191.995,-18.0618,0 1/1:72:0,72:0:0:72:2548:-229.519,-21.6742,0 0/1:370:55,315:55:1941:315:11136:-890.353,0,-63.4935 0/1:26:13,13:13:460:13:464:-34.2707,0,-33.8948 1/1:81:1,80:1:32:80:2831:-251.779,-21.1841,0 1/1:39:1,38:1:36:38:1356:-118.741,-8.1419,0 chr08 26031387 . GTG ATC,ATA 48580.9 PASS AB=0.644124,0.353659;ABP=165.75,170.796;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1932,401;CIGAR=1X1M1X,1X1M1X;DP=2336;DPB=2336;DPRA=2.33367,1.47631;EPP=4198.29,873.771;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.85,2.13333;MQM=59.2883,59.1945;MQMR=0;NS=21;NUMALT=2;ODDS=6.31468;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67484,14220;QR=0;RO=0;RPL=1932,401;RPP=4198.29,873.771;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4198.29,873.771;SAR=1932,401;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,28,36:0:0:28,36:956,1263:-180.293,-102.766,-94.3367,-77.514,0,-66.6769 1/2:72:0,37,35:0:0:37,35:1306,1253:-208.703,-102.431,-91.293,-106.627,0,-96.0911 1/2:57:0,20,37:0:0:20,37:708,1326:-166.174,-108.504,-102.484,-58.0246,0,-46.8865 1/2:77:0,34,43:0:0:34,43:1171,1504:-217.762,-122.653,-112.418,-95.4565,0,-82.5122 1/1:85:0,85,0:0:0:85,0:3001,0:-270.117,-25.5876,0,-270.117,-25.5876,-270.117 1/1:85:0,84,1:0:0:84,1:2934,36:-263.73,-25.2865,0,-260.792,-21.9893,-260.491 1/1:116:0,116,0:0:0:116,0:3975,0:-357.776,-34.9195,0,-357.776,-34.9195,-357.776 2/2:49:0,0,49:0:0:0,49:0,1727:-155.637,-155.637,-155.637,-14.7505,-14.7505,0 1/2:139:0,73,66:0:0:73,66:2565,2355:-400.102,-191.461,-169.485,-208.994,0,-189.126 1/1:263:0,253,10:0:0:253,10:8770,360:-788.557,-76.1606,0,-759.182,-46.4266,-756.172 1/1:192:0,186,5:0:0:186,5:6510,180:-585.403,-55.9916,0,-570.716,-41.3045,-569.211 1/1:225:0,210,15:0:0:210,15:7358,540:-661.842,-63.2163,0,-617.78,-18.7952,-613.265 1/2:87:0,49,38:0:0:49,38:1728,1334:-249.414,-108.737,-93.9861,-141.029,0,-129.589 1/1:63:0,63,0:0:0:63,0:2200,0:-198.156,-18.9649,0,-198.156,-18.9649,-198.156 1/1:103:0,103,0:0:0:103,0:3574,0:-321.8,-31.0061,0,-321.8,-31.0061,-321.8 1/1:58:0,58,0:0:0:58,0:2043,0:-183.923,-17.4597,0,-183.923,-17.4597,-183.923 1/1:73:0,73,0:0:0:73,0:2567,0:-231.242,-21.9752,0,-231.242,-21.9752,-231.242 1/2:375:0,323,51:0:0:323,51:11293,1820:-1066.38,-148.379,-51.1466,-918.076,0,-902.723 1/2:30:0,17,13:0:0:17,13:606,450:-86.3064,-36.9134,-31.7959,-49.7434,0,-45.83 1/1:84:0,83,1:0:0:83,1:2920,36:-262.619,-24.9855,0,-259.682,-21.6882,-259.381 1/1:38:0,37,1:0:0:37,1:1299,36:-116.821,-11.1381,0,-113.884,-7.84087,-113.583 chr08 26067124 . T A 2527.94 PASS AB=0.268349;ABP=409.454;AC=10;AF=0.238095;AN=42;AO=238;CIGAR=1X;DP=1572;DPB=1572;DPRA=1.36696;EPP=519.821;EPPR=2882.41;GTI=1;LEN=1;MEANALT=1;MQM=48.3487;MQMR=59.9708;NS=21;NUMALT=1;ODDS=0.956307;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8540;QR=47585;RO=1334;RPL=238;RPP=519.821;RPPR=2882.41;RPR=0;RUN=1;SAF=0;SAP=519.821;SAR=238;SRF=0;SRP=2899.75;SRR=1334;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2533:1:36:0,-18.0954,-224.641 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.186 0/0:65:65,0:65:2316:0:0:0,-19.5669,-208.617 0/1:151:114,37:114:4077:37:1320:-72.2342,0,-321.659 0/1:88:69,19:69:2453:19:680:-34.3363,0,-194.533 0/1:34:23,11:23:824:11:392:-25.241,0,-64.2483 0/0:77:76,1:76:2713:1:36:0,-19.5963,-240.829 0/1:125:83,42:83:2945:42:1508:-97.6603,0,-227.655 0/1:118:91,27:91:3252:27:972:-51.3745,0,-257.38 0/1:11:10,1:10:360:1:36:-0.267437,0,-29.433 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:45:23,22:23:816:22:788:-57.2819,0,-60.2154 0/0:66:66,0:66:2372:0:0:0,-19.868,-213.73 0/1:132:108,24:108:3829:24:864:-36.9085,0,-305.073 0/0:127:127,0:127:4521:0:0:0,-38.2308,-407.059 0/0:36:36,0:36:1265:0:0:0,-10.8371,-114.151 0/0:63:61,2:61:2181:2:72:0,-12.1703,-189.76 0/1:118:76,42:76:2728:42:1512:-99.8652,0,-210.241 0/1:50:41,9:41:1460:9:324:-14.0434,0,-116.645 0/0:96:96,0:96:3432:0:0:0,-28.8989,-309.094 0/0:33:33,0:33:1176:0:0:0,-9.93399,-106.148 chr08 26067131 . CAGT CT 2156.8 PASS AB=0.254042;ABP=458.057;AC=10;AF=0.238095;AN=42;AO=224;CIGAR=1M2D1M;DP=1572;DPB=1460;DPRA=1.34686;EPP=489.42;EPPR=2873.7;GTI=2;LEN=2;MEANALT=1.53846;MQM=48.375;MQMR=60;NS=21;NUMALT=1;ODDS=0.735482;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7950;QR=46352;RO=1322;RPL=224;RPP=489.42;RPPR=2873.7;RPR=0;RUN=1;SAF=0;SAP=489.42;SAR=224;SRF=0;SRP=2873.7;SRR=1322;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2476:1:36:0,-18.0954,-219.515 0/0:63:62,0:62:2160:0:0:0,-18.6639,-194.305 0/0:66:63,0:63:2197:0:0:0,-18.9649,-197.685 0/1:150:111,35:111:3911:35:1240:-66.5891,0,-307.878 0/1:86:69,17:69:2445:17:612:-28.971,0,-194.417 0/1:34:24,10:24:842:10:360:-22.3707,0,-65.8626 0/0:77:73,1:73:2560:1:36:0,-19.0485,-227.078 0/1:120:83,37:83:2872:37:1301:-80.6747,0,-222.594 0/1:119:89,25:89:3125:25:865:-43.0079,0,-246.809 0/1:11:6,1:6:193:1:36:-1.11329,0,-15.2347 0/0:4:4,0:4:133:0:0:0,-1.20412,-12.2976 0/1:46:24,22:24:844:22:788:-56.9809,0,-62.4316 0/0:66:64,0:64:2249:0:0:0,-19.2659,-202.342 0/1:133:109,23:109:3866:23:820:-32.6275,0,-308.041 0/0:128:128,0:128:4479:0:0:0,-38.5318,-403.283 0/0:37:37,0:37:1291:0:0:0,-11.1381,-116.489 0/0:64:62,2:62:2204:2:72:0,-12.4713,-191.831 0/1:117:75,41:75:2661:41:1464:-95.838,0,-204.458 0/1:50:41,9:41:1410:9:320:-13.6882,0,-112.14 0/0:96:96,0:96:3355:0:0:0,-28.8989,-302.171 0/0:33:31,0:31:1079:0:0:0,-9.33193,-97.1285 chr08 26145820 . C G 18480.9 PASS AB=0.490969;ABP=3.44174;AC=30;AF=0.714286;AN=42;AO=913;CIGAR=1X;DP=1324;DPB=1324;DPRA=0.677473;EPP=1985.56;EPPR=893.314;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.58496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32186;QR=14488;RO=410;RPL=0;RPP=1985.56;RPPR=893.314;RPR=913;RUN=1;SAF=0;SAP=1985.56;SAR=913;SRF=0;SRP=893.314;SRR=410;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:49,59:49:1724:59:2071:-154.147,0,-122.931 0/1:27:19,8:19:671:8:284:-17.7755,0,-52.588 0/1:58:38,20:38:1356:20:708:-46.5859,0,-104.881 0/1:52:32,20:32:1136:20:716:-49.1142,0,-86.8953 1/1:142:4,138:4:144:138:4847:-423.073,-29.4326,0 1/1:68:0,68:0:0:68:2390:-215.358,-20.47,0 1/1:90:1,89:1:36:89:3163:-281.295,-23.4944,0 0/0:91:90,0:90:3160:0:0:0,-27.0927,-284.343 0/1:167:82,85:82:2929:85:3031:-222.748,0,-213.571 0/1:5:1,4:1:36:4:129:-10.4225,0,-2.09312 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:14:9,5:9:320:5:180:-12.3376,0,-24.9279 0/1:85:47,38:47:1667:38:1327:-94.1408,0,-124.729 1/1:75:1,74:1:32:74:2610:-231.947,-19.3779,0 1/1:87:0,87:0:0:87:3070:-276.528,-26.1896,0 1/1:16:0,16:0:0:16:568:-51.4519,-4.81648,0 1/1:35:0,35:0:0:35:1241:-111.993,-10.5361,0 0/1:47:15,32:15:510:32:1120:-86.9565,0,-32.0737 0/1:46:18,28:18:623:28:961:-72.9493,0,-42.5457 1/1:72:4,68:4:144:68:2403:-203.214,-8.36054,0 1/1:33:0,33:0:0:33:1151:-103.895,-9.93399,0 chr08 26145895 . A T 38743 PASS AB=0.507937;ABP=3.52732;AC=29;AF=0.690476;AN=42;AO=1815;CIGAR=1X;DP=2464;DPB=2464;DPRA=0;EPP=3944.23;EPPR=1401.44;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9824;MQMR=59.9829;NS=21;NUMALT=1;ODDS=8.42578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64972;QR=22729;RO=644;RPL=0;RPP=3944.23;RPPR=1401.44;RPR=1815;RUN=1;SAF=1815;SAP=3944.23;SAR=0;SRF=644;SRP=1401.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:74,87:74:2580:87:3120:-232.56,0,-183.979 0/1:19:8,11:8:269:11:396:-30.2632,0,-18.8166 0/1:128:62,66:62:2194:66:2349:-173.137,0,-159.19 0/1:105:58,47:58:2065:47:1688:-120.599,0,-154.511 1/1:353:2,347:2:72:347:12448:-1113.23,-98.5826,0 1/1:124:3,121:3:104:121:4318:-379.091,-27.6249,0 1/1:193:2,191:2:72:191:6837:-608.562,-51.2621,0 0/0:174:172,2:172:6046:2:72:0,-45.5425,-537.4 0/1:198:103,95:103:3666:95:3412:-247.689,0,-270.538 0/1:27:15,12:15:510:12:428:-30.731,0,-38.0918 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:31:11,20:11:366:20:720:-55.7968,0,-23.9266 0/1:83:45,38:45:1616:38:1345:-96.3627,0,-120.745 1/1:125:0,125:0:0:125:4484:-403.728,-37.6288,0 1/1:162:0,162:0:0:162:5792:-521.391,-48.7669,0 1/1:115:0,115:0:0:115:4120:-370.984,-34.6185,0 1/1:95:0,95:0:0:95:3385:-304.866,-28.5979,0 0/1:105:49,56:49:1756:56:2012:-149.745,0,-126.716 0/1:79:34,44:34:1197:44:1576:-118.291,0,-84.1935 1/1:132:1,131:1:36:131:4674:-417.222,-36.1377,0 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 chr08 26145934 . T C 11451.2 PASS AB=0.491579;ABP=3.59545;AC=13;AF=0.309524;AN=42;AO=647;CIGAR=1X;DP=2471;DPB=2471;DPRA=0.941051;EPP=1407.95;EPPR=3963.78;GTI=0;LEN=1;MEANALT=1;MQM=59.9706;MQMR=59.9863;NS=21;NUMALT=1;ODDS=7.66497;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22885;QR=64996;RO=1824;RPL=647;RPP=1407.95;RPPR=3963.78;RPR=0;RUN=1;SAF=647;SAP=1407.95;SAR=0;SRF=1824;SRP=3963.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:158:84,74:84:3007:74:2604:-187.045,0,-223.298 0/1:19:11,8:11:396:8:288:-20.5478,0,-30.2632 0/1:130:66,64:66:2356:64:2279:-166.238,0,-173.165 0/1:107:48,59:48:1693:59:2094:-156.518,0,-120.444 0/0:350:349,1:349:12480:1:36:0,-101.762,-1119.35 0/0:125:122,3:122:4318:3:99:0,-28.3922,-379.558 0/0:194:194,0:194:6932:0:0:0,-58.3998,-623.945 1/1:176:2,174:2:72:174:6165:-548.106,-46.1446,0 0/1:197:95,102:95:3373:102:3589:-263.913,0,-244.483 0/1:30:13,17:13:468:17:612:-46.3825,0,-33.4287 0/1:9:4,5:4:140:5:176:-13.4757,0,-10.2353 0/1:32:21,11:21:752:11:396:-26.3498,0,-58.3733 0/1:86:41,45:41:1436:45:1608:-119.122,0,-103.644 0/0:125:124,1:124:4439:1:36:0,-34.0305,-396.082 0/0:164:164,0:164:5872:0:0:0,-49.3689,-528.588 0/0:117:117,0:117:4171:0:0:0,-35.2205,-375.573 0/0:94:94,0:94:3376:0:0:0,-28.2968,-304.055 0/1:103:55,48:55:1945:48:1671:-119.667,0,-144.318 0/1:79:45,34:45:1586:34:1196:-84.164,0,-119.245 0/0:129:128,1:128:4513:1:36:0,-35.2346,-402.74 0/0:47:47,0:47:1671:0:0:0,-14.1484,-150.677 chr08 26145940 . C T 38232.2 PASS AB=0.504752;ABP=3.19603;AC=29;AF=0.690476;AN=42;AO=1812;CIGAR=1X;DP=2458;DPB=2458;DPRA=0;EPP=3937.72;EPPR=1405.78;GTI=0;LEN=1;MEANALT=1;MQM=59.9862;MQMR=59.9706;NS=21;NUMALT=1;ODDS=7.12795;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64323;QR=22683;RO=646;RPL=1812;RPP=3937.72;RPPR=1405.78;RPR=0;RUN=1;SAF=1812;SAP=3937.72;SAR=0;SRF=646;SRP=1405.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:159:74,85:74:2606:85:3004:-222.725,0,-186.923 0/1:19:8,11:8:264:11:390:-29.7189,0,-18.3607 0/1:127:63,64:63:2201:64:2277:-166.96,0,-160.121 0/1:105:58,47:58:2063:47:1670:-118.978,0,-154.332 1/1:353:1,352:1:36:352:12492:-1120.51,-102.665,0 1/1:120:2,118:2:72:118:4157:-367.476,-29.2869,0 1/1:194:2,192:2:68:192:6856:-610.651,-51.9421,0 0/0:173:171,2:171:5974:2:72:0,-45.2415,-530.912 0/1:201:105,96:105:3723:96:3415:-247.058,0,-274.764 0/1:30:17,13:17:593:13:464:-33.0666,0,-44.6638 0/1:9:5,4:5:172:4:140:-10.2353,0,-13.1087 0/1:32:11,21:11:392:21:756:-58.7343,0,-25.9871 0/1:84:46,38:46:1617:38:1359:-97.3233,0,-120.53 1/1:124:0,124:0:0:124:4353:-391.948,-37.3277,0 1/1:160:0,160:0:0:160:5722:-515.094,-48.1648,0 1/1:116:0,116:0:0:116:4099:-369.094,-34.9195,0 1/1:95:0,95:0:0:95:3379:-304.325,-28.5979,0 0/1:104:50,54:50:1749:54:1915:-141.32,0,-126.385 0/1:77:32,45:32:1117:45:1584:-119.668,0,-77.6561 1/1:129:1,128:1:36:128:4535:-404.72,-35.2346,0 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 chr08 26145991 . C T 7394.11 PASS AB=0.484185;ABP=4.79609;AC=13;AF=0.309524;AN=42;AO=474;CIGAR=1X;DP=2035;DPB=2035;DPRA=0.77971;EPP=1032.29;EPPR=3386.16;GTI=0;LEN=1;MEANALT=1;MQM=40.5802;MQMR=59.5719;NS=21;NUMALT=1;ODDS=5.39411;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16976;QR=55587;RO=1558;RPL=474;RPP=1032.29;RPPR=3386.16;RPR=0;RUN=1;SAF=0;SAP=1032.29;SAR=474;SRF=0;SRP=3386.16;SRR=1558;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:28,18:28:1000:18:633:-41.8617,0,-76.4676 0/1:77:59,18:59:2120:18:648:-31.9584,0,-167.873 0/1:70:19,51:19:665:51:1824:-135.536,0,-38.9397 0/1:120:72,48:72:2580:48:1728:-112.687,0,-196.224 0/0:237:234,3:234:8336:3:108:0,-61.4498,-739.957 0/0:116:114,0:114:4083:0:0:0,-34.3174,-367.253 0/0:151:151,0:151:5382:0:0:0,-45.4555,-484.189 1/1:68:0,68:0:0:68:2436:-208.646,-20.47,0 0/1:131:50,81:50:1796:81:2904:-216.533,0,-122.408 0/1:11:5,6:5:172:6:212:-15.2234,0,-12.5066 0/1:12:3,9:3:108:9:317:-23.2879,0,-6.46281 0/1:23:12,11:12:428:11:396:-27.2424,0,-31.9305 0/1:133:72,61:72:2576:61:2192:-150.892,0,-191.959 0/0:118:117,0:117:4179:0:0:0,-35.2205,-375.888 0/0:122:122,0:122:4352:0:0:0,-36.7257,-391.788 0/0:140:140,0:140:4947:0:0:0,-42.1442,-444.887 0/0:140:139,1:139:4972:1:36:0,-38.6081,-444.017 0/1:108:40,68:40:1432:68:2434:-175.727,0,-96.6525 0/1:91:64,27:64:2292:27:972:-57.3179,0,-179.138 0/0:78:74,4:74:2644:4:136:0,-12.5616,-227.286 0/0:43:43,0:43:1523:0:0:0,-12.9443,-137.336 chr08 26146001 . G A 7290.15 PASS AB=0.483516;ABP=4.94315;AC=13;AF=0.309524;AN=42;AO=470;CIGAR=1X;DP=2049;DPB=2049;DPRA=0.663586;EPP=1023.6;EPPR=3427.42;GTI=0;LEN=1;MEANALT=1.0625;MQM=40.6511;MQMR=59.5606;NS=21;NUMALT=1;ODDS=5.19739;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16812;QR=56359;RO=1577;RPL=470;RPP=1023.6;RPPR=3427.42;RPR=0;RUN=1;SAF=0;SAP=1023.6;SAR=470;SRF=0;SRP=3427.42;SRR=1577;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:28,17:28:1004:17:612:-39.6572,0,-77.1291 0/1:72:56,16:56:2000:16:576:-27.3658,0,-158.591 0/1:70:20,50:20:700:50:1770:-130.722,0,-42.1745 0/1:123:74,49:74:2648:49:1751:-113.486,0,-201.439 0/0:238:235,2:235:8400:2:72:0,-65.0454,-749.049 0/0:116:116,0:116:4164:0:0:0,-34.9195,-374.875 0/0:156:155,0:155:5540:0:0:0,-46.6596,-498.073 1/1:67:0,67:0:0:67:2404:-205.854,-20.169,0 0/1:131:50,81:50:1796:81:2908:-216.656,0,-122.408 0/1:11:5,6:5:180:6:216:-15.4845,0,-13.2407 0/1:14:3,11:3:104:11:396:-28.908,0,-5.48839 0/1:24:13,11:13:464:11:396:-26.9414,0,-34.8495 0/1:135:74,61:74:2640:61:2173:-148.712,0,-197.193 0/0:124:124,0:124:4428:0:0:0,-37.3277,-398.553 0/0:120:120,0:120:4300:0:0:0,-36.1236,-387.07 0/0:140:140,0:140:4999:0:0:0,-42.1442,-449.563 0/0:144:143,1:143:5099:1:36:0,-39.8122,-455.444 0/1:106:39,67:39:1396:67:2395:-173.467,0,-94.0207 0/1:88:61,27:61:2170:27:963:-57.862,0,-169.067 0/0:79:76,3:76:2719:3:108:0,-14.7792,-235.95 0/0:46:45,1:45:1608:1:36:0,-10.2582,-141.397 chr08 26150650 . A G 5996.76 PASS AB=0.338542;ABP=220.384;AC=13;AF=0.309524;AN=42;AO=339;CIGAR=1X;DP=1121;DPB=1121;DPRA=4.96939;EPP=362.802;EPPR=783.019;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.16263;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12094;QR=28017;RO=782;RPL=1;RPP=730.479;RPPR=1531.83;RPR=338;RUN=1;SAF=287;SAP=356.755;SAR=52;SRF=672;SRP=880.052;SRR=110;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:8,14:8:288:14:503:-38.985,0,-19.6447 0/1:13:11,2:11:396:2:72:-2.92333,0,-32.0694 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:12:9,3:9:324:3:104:-6.09045,0,-25.8935 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:13:7,6:7:252:6:212:-15.5114,0,-19.1156 0/1:52:25,27:25:900:27:964:-71.4233,0,-65.6675 0/1:72:44,28:44:1576:28:1004:-69.0017,0,-120.457 0/1:202:145,57:145:5181:57:2036:-122.704,0,-405.621 0/1:12:8,4:8:288:4:140:-9.33222,0,-22.655 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:13:13,0:13:449:0:0:0,-3.91339,-40.7375 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:8:8,0:8:279:0:0:0,-2.40824,-25.4475 0/1:522:359,163:359:12904:163:5807:-365.606,0,-1004.03 0/1:34:16,18:16:572:18:640:-47.6943,0,-41.5784 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:29:29,0:29:1020:0:0:0,-8.72987,-92.1094 chr08 26150677 . T C 16980 PASS AB=0.65291;ABP=194.929;AC=29;AF=0.690476;AN=42;AO=765;CIGAR=1X;DP=1108;DPB=1108;DPRA=3.90714;EPP=839.947;EPPR=362.662;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.97908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26869;QR=12170;RO=342;RPL=765;RPP=1664.19;RPPR=745.654;RPR=0;RUN=1;SAF=654;SAP=839.947;SAR=111;SRF=290;SRP=362.662;SRR=52;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:14,8:14:500:8:280:-18.9166,0,-38.7135 0/1:13:2,11:2:72:11:377:-30.3445,0,-2.92333 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:12:5,7:5:180:7:237:-18.0467,0,-12.9397 0/1:53:29,24:29:1040:24:843:-60.2334,0,-77.9598 0/1:72:30,42:30:1080:42:1462:-110.196,0,-75.8391 0/1:199:57,142:57:2026:142:5029:-392.856,0,-122.706 0/1:11:4,7:4:144:7:240:-18.6233,0,-10.0023 1/1:17:0,17:0:0:17:603:-54.5995,-5.11751,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:9:0,8:0:0:8:286:-25.7259,-2.40824,0 0/1:512:163,349:163:5779:349:12161:-940.244,0,-366.098 0/1:34:18,16:18:629:16:571:-41.4879,0,-46.6988 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 1/1:29:0,29:0:0:29:1008:-91.0281,-8.72987,0 chr08 26153383 . 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T C 9806.85 PASS AB=0.511658;ABP=3.92164;AC=13;AF=0.309524;AN=42;AO=537;CIGAR=1X;DP=1647;DPB=1647;DPRA=1.28491;EPP=1169.09;EPPR=2411.17;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.32488;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19192;QR=39760;RO=1109;RPL=0;RPP=1169.09;RPPR=2411.17;RPR=537;RUN=1;SAF=537;SAP=1169.09;SAR=0;SRF=1109;SRP=2411.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:22,40:22:792:40:1440:-111.234,0,-52.9418 0/1:95:52,43:52:1838:43:1544:-110.655,0,-137.099 0/1:97:45,52:45:1616:52:1872:-139.559,0,-116.53 0/1:92:42,50:42:1508:50:1796:-134.228,0,-108.32 0/0:182:180,1:180:6468:1:36:0,-51.1781,-578.673 0/0:69:69,0:69:2469:0:0:0,-20.7711,-222.462 0/0:132:132,0:132:4725:0:0:0,-39.736,-425.407 1/1:138:0,138:0:0:138:4929:-443.761,-41.5421,0 0/1:194:93,101:93:3340:101:3590:-264.905,0,-242.417 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:19:13,6:13:468:6:212:-13.7052,0,-36.7401 0/1:90:39,51:39:1404:51:1813:-136.357,0,-99.5666 0/0:114:113,1:113:4048:1:36:0,-30.7191,-360.909 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.993 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/1:62:35,27:35:1256:27:960:-68.0524,0,-94.6814 0/1:48:30,18:30:1080:18:640:-43.4799,0,-83.0638 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/0:50:48,2:48:1720:2:72:0,-8.21478,-148.249 chr08 26546727 . A G 11337.2 PASS AB=0.580139;ABP=35.0301;AC=15;AF=0.357143;AN=42;AO=571;CIGAR=1X;DP=1469;DPB=1469;DPRA=1.18183;EPP=1191.35;EPPR=1944.32;GTI=0;LEN=1;MEANALT=1;MQM=53.4168;MQMR=59.804;NS=21;NUMALT=1;ODDS=10.2253;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20400;QR=32035;RO=898;RPL=6;RPP=1191.35;RPPR=1944.32;RPR=565;RUN=1;SAF=571;SAP=1242.92;SAR=0;SRF=898;SRP=1952.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:26,18:26:932:18:648:-45.2079,0,-70.9535 0/1:33:17,16:17:608:16:568:-41.0311,0,-45.118 0/1:35:20,15:20:720:15:536:-37.9934,0,-54.5927 0/1:48:31,17:31:1104:17:593:-39.0382,0,-85.2212 0/0:149:148,1:148:5297:1:21:0,-42.7535,-474.62 0/0:59:59,0:59:2108:0:0:0,-17.7608,-189.981 0/0:86:86,0:86:3057:0:0:0,-25.8886,-275.331 1/1:39:0,39:0:0:39:1404:-126.319,-11.7402,0 0/1:116:67,49:67:2385:49:1749:-122.639,0,-179.984 1/1:82:6,76:6:216:76:2736:-225.479,-4.89735,0 1/1:122:0,122:0:0:122:4353:-390.716,-36.7257,0 0/1:45:9,36:9:320:36:1281:-101.727,0,-15.596 0/1:55:28,27:28:1000:27:964:-70.2893,0,-73.753 0/0:62:62,0:62:2213:0:0:0,-18.6639,-199.423 0/0:91:91,0:91:3260:0:0:0,-27.3937,-293.618 0/0:71:71,0:71:2495:0:0:0,-21.3731,-224.791 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.575 0/1:176:25,151:25:896:151:5403:-432.261,0,-27.9689 0/1:22:18,4:18:648:4:144:-6.68136,0,-52.0259 0/0:45:45,0:45:1589:0:0:0,-13.5463,-143.288 0/0:36:36,0:36:1283:0:0:0,-10.8371,-115.773 chr08 26546744 . CC GC,GT 31304.2 PASS AB=0.422067,0.577933;ABP=33.1333,33.1333;AC=27,15;AF=0.642857,0.357143;AN=42;AO=881,571;CIGAR=1X1M,2X;DP=1452;DPB=1453;DPRA=0.832418,0.891426;EPP=1907.4,1242.92;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.57895,1.84615;MQM=59.7889,53.3275;MQMR=0;NS=21;NUMALT=2;ODDS=6.98557;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=0;QA=31427,20225;QR=0;RO=0;RPL=1,0;RPP=1907.4,1242.92;RPPR=0;RPR=880,571;RUN=1,1;SAF=881,571;SAP=1916.08,1242.92;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,25,18:0:0:25,18:889,624:-123.325,-50.8721,-43.3463,-72.8023,0,-67.3838 1/2:33:0,17,16:0:0:17,16:608,553:-94.3622,-45.0057,-39.8882,-49.7061,0,-44.8896 1/2:35:0,20,15:0:0:20,15:720,531:-102.316,-43.5639,-37.5433,-59.1082,0,-54.5927 1/2:46:0,29,17:0:0:29,17:1036,612:-134.549,-50.083,-41.3531,-84.824,0,-79.7065 1/1:146:0,146,0:0:0:146,0:5206,0:-468.541,-43.9504,0,-468.541,-43.9504,-468.541 1/1:55:0,55,0:0:0:55,0:1976,0:-178.115,-16.5567,0,-178.115,-16.5567,-178.115 1/1:83:0,83,0:0:0:83,0:2968,0:-267.353,-24.9855,0,-267.353,-24.9855,-267.353 2/2:40:0,0,40:0:0:0,40:0,1414:-127.22,-127.22,-127.22,-12.0412,-12.0412,0 1/2:118:0,70,48:0:0:70,48:2516,1720:-345.762,-140.504,-119.432,-205.617,0,-191.168 2/2:83:0,6,77:0:0:6,77:208,2713:-243.006,-226.101,-224.295,-23.1793,-5.92777,0 2/2:123:0,0,123:0:0:0,123:0,4364:-391.779,-391.779,-391.779,-37.0267,-37.0267,0 1/2:46:0,9,37:0:0:9,37:320,1319:-133.631,-107.554,-104.845,-26.4331,0,-15.295 1/2:55:0,28,27:0:0:28,27:990,952:-158.265,-77.6382,-69.2093,-80.9794,0,-72.8516 1/1:60:0,60,0:0:0:60,0:2130,0:-191.775,-18.0618,0,-191.775,-18.0618,-191.775 1/1:90:0,90,0:0:0:90,0:3228,0:-290.739,-27.0927,0,-290.739,-27.0927,-290.739 1/1:70:0,70,0:0:0:70,0:2500,0:-225.234,-21.0721,0,-225.234,-21.0721,-225.234 1/1:54:0,54,0:0:0:54,0:1898,0:-171.081,-16.2556,0,-171.081,-16.2556,-171.081 1/2:172:0,24,148:0:0:24,148:860,5245:-496.509,-426.388,-419.163,-70.4211,0,-25.8686 1/2:23:0,19,4:0:0:19,4:663,142:-65.8348,-11.9164,-6.1968,-54.272,0,-53.0679 1/1:42:0,41,1:0:0:41,1:1468,36:-132.056,-12.3422,0,-129.118,-9.04499,-128.817 1/1:35:0,35,0:0:0:35,0:1243,0:-112.115,-10.5361,0,-112.115,-10.5361,-112.115 chr08 26546754 . T C 10706.1 PASS AB=0.57041;ABP=27.1674;AC=15;AF=0.357143;AN=42;AO=559;CIGAR=1X;DP=1447;DPB=1447;DPRA=0.876176;EPP=1216.86;EPPR=1671.42;GTI=0;LEN=1;MEANALT=1;MQM=53.3399;MQMR=59.7342;NS=21;NUMALT=1;ODDS=10.6795;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19877;QR=31732;RO=888;RPL=0;RPP=1216.86;RPPR=1671.42;RPR=559;RUN=1;SAF=559;SAP=1216.86;SAR=0;SRF=888;SRP=1931.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:26,17:26:923:17:612:-42.275,0,-70.4425 0/1:33:18,15:18:648:15:540:-38.5139,0,-48.4896 0/1:33:19,14:19:680:14:500:-35.3706,0,-51.5952 0/1:48:31,17:31:1112:17:596:-39.3124,0,-85.9419 0/0:146:146,0:146:5240:0:0:0,-43.9504,-471.591 0/0:56:56,0:56:1991:0:0:0,-16.8577,-179.46 0/0:87:87,0:87:3107:0:0:0,-26.1896,-279.829 1/1:39:0,39:0:0:39:1400:-125.962,-11.7402,0 0/1:115:68,47:68:2440:47:1670:-115.836,0,-185.234 1/1:82:6,76:6:212:76:2708:-223.466,-5.26306,0 1/1:123:0,123:0:0:123:4359:-391.413,-37.0267,0 0/1:44:9,35:9:324:35:1252:-99.559,0,-16.2605 0/1:54:28,26:28:995:26:918:-66.4524,0,-73.6027 0/0:63:63,0:63:2230:0:0:0,-18.9649,-200.767 0/0:89:89,0:89:3175:0:0:0,-26.7917,-285.971 0/0:69:69,0:69:2471:0:0:0,-20.7711,-222.625 0/0:52:52,0:52:1856:0:0:0,-15.6536,-167.284 0/1:168:23,145:23:820:145:5142:-411.066,0,-23.5339 0/1:23:19,4:19:676:4:144:-6.38033,0,-54.241 0/0:45:44,1:44:1576:1:36:0,-9.94807,-138.51 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 chr08 26546766 . CGTTA TGTTG,CGTTG 31249.6 PASS AB=0.428322,0.566434;ABP=28.5365,24.9376;AC=27,15;AF=0.642857,0.357143;AN=42;AO=901,560;CIGAR=1X3M1X,4M1X;DP=1466;DPB=1466.2;DPRA=0.865276,0.865985;EPP=1959.51,1219.03;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.84211,2.07692;MQM=59.7569,53.3839;MQMR=0;NS=21;NUMALT=2;ODDS=0.956818;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=31669,20072;QR=0;RO=0;RPL=901,560;RPP=1959.51,1219.03;RPPR=0;RPR=0,0;RUN=1,1;SAF=901,560;SAP=1959.51,1219.03;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:0,26,18:0:0:26,18:920,648:-127.968,-53.0347,-45.2079,-75.2902,0,-69.8716 1/2:34:0,18,16:0:0:18,16:626,572:-97.3122,-46.5052,-41.0867,-51.1577,0,-46.3412 1/2:35:0,20,15:0:0:20,15:703,540:-101.591,-44.3743,-38.3537,-57.573,0,-53.0576 1/2:47:0,31,15:0:0:31,15:1065,540:-130.543,-44.0687,-34.7367,-86.5987,0,-82.0833 1/1:148:0,148,0:0:0:148,0:5214,0:-469.391,-44.5524,0,-469.391,-44.5524,-469.391 1/1:59:0,59,0:0:0:59,0:2048,0:-184.588,-17.7608,0,-184.588,-17.7608,-184.588 1/1:87:0,86,0:0:0:86,0:3040,0:-273.621,-25.8886,0,-273.621,-25.8886,-273.621 2/2:39:0,0,39:0:0:0,39:0,1400:-125.962,-125.962,-125.962,-11.7402,-11.7402,0 1/2:119:0,70,48:0:0:70,48:2468,1724:-341.527,-140.58,-119.508,-201.021,0,-186.571 2/2:82:0,6,76:0:0:6,76:205,2724:-243.984,-227.353,-225.547,-22.8783,-5.90422,0 2/2:120:0,0,120:0:0:0,120:0,4304:-386.3,-386.3,-386.3,-36.1236,-36.1236,0 1/2:43:0,9,34:0:0:9,34:320,1224:-126.027,-99.9503,-97.241,-26.4331,0,-16.1981 1/2:55:0,28,27:0:0:28,27:987,968:-159.431,-79.0773,-70.6485,-80.7086,0,-72.5808 1/1:63:0,62,0:0:0:62,0:2206,0:-198.524,-18.6639,0,-198.524,-18.6639,-198.524 1/1:91:0,91,0:0:0:91,0:3193,0:-287.593,-27.3937,0,-287.593,-27.3937,-287.593 1/1:72:0,72,0:0:0:72,0:2545,0:-229.292,-21.6742,0,-229.292,-21.6742,-229.292 1/1:54:0,54,0:0:0:54,0:1893,0:-170.271,-16.2556,0,-170.271,-16.2556,-170.271 1/2:172:0,24,147:0:0:24,147:826,5248:-493.708,-426.632,-419.407,-67.0632,0,-22.8118 1/2:23:0,19,4:0:0:19,4:666,144:-66.2864,-12.0999,-6.38032,-54.5445,0,-53.3404 1/1:44:0,43,1:0:0:43,1:1502,36:-135.108,-12.9443,0,-132.17,-9.64705,-131.869 1/1:35:0,35,0:0:0:35,0:1242,0:-112.085,-10.5361,0,-112.085,-10.5361,-112.085 chr08 26547688 . G C,T 46967.6 PASS AB=0.518519,0.481481;ABP=6.14687,6.14687;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1539,648;CIGAR=1X,1X;DP=2191;DPB=2191;DPRA=0.855372,1.1656;EPP=3344.91,1410.12;EPPR=0;GTI=1;LEN=1,1;MEANALT=2,2.11765;MQM=59.8954,59.9182;MQMR=0;NS=21;NUMALT=2;ODDS=3.01136;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54972,23208;QR=0;RO=0;RPL=0,0;RPP=3344.91,1410.12;RPPR=0;RPR=1539,648;RUN=1,1;SAF=1539,648;SAP=3344.91,1410.12;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:121:0,61,60:0:0:61,60:2184,2152:-353.977,-175.872,-157.509,-178.463,0,-160.401 1/2:89:0,41,48:0:0:41,48:1449,1720:-258.639,-140.633,-128.291,-118.362,0,-103.912 1/2:127:0,78,49:0:0:78,49:2781,1760:-370.625,-143.933,-120.453,-227.049,0,-212.299 1/2:174:0,79,95:0:0:79,95:2828,3402:-508.402,-277.782,-254.001,-230.978,0,-202.38 1/1:178:0,175,3:0:0:175,3:6268,108:-563.831,-52.6803,0,-555.018,-43.5082,-554.115 1/1:69:0,66,2:0:0:66,2:2360,72:-212.291,-19.868,0,-206.416,-13.9931,-205.814 1/1:151:0,150,0:0:0:150,0:5345,0:-480.973,-45.1545,0,-480.973,-45.1545,-480.973 2/2:121:0,0,121:0:0:0,121:0,4320:-388.967,-388.967,-388.967,-36.4246,-36.4246,0 1/2:156:0,71,85:0:0:71,85:2544,3042:-455.894,-248.419,-227.046,-207.833,0,-182.245 1/2:15:0,9,6:0:0:9,6:324,216:-44.4207,-17.9843,-15.2751,-26.7962,0,-24.99 2/2:12:0,1,11:0:0:1,11:36,392:-35.2605,-32.3228,-32.0218,-3.31133,-0.0140851,0 1/2:30:0,16,14:0:0:16,14:576,504:-88.4823,-41.4837,-36.6672,-47.3585,0,-43.1441 1/2:93:0,49,44:0:0:49,44:1744,1572:-270.426,-128.526,-113.776,-142.256,0,-129.01 1/1:104:0,101,2:0:0:101,2:3620,72:-324.626,-30.404,0,-318.751,-24.5292,-318.149 1/1:159:0,157,1:0:0:157,1:5543,36:-498.712,-47.2617,0,-495.774,-44.2494,-495.473 1/1:127:0,126,1:0:0:126,1:4506,36:-405.302,-37.9298,0,-402.364,-34.6325,-402.063 1/1:90:0,90,0:0:0:90,0:3228,0:-290.704,-27.0927,0,-290.704,-27.0927,-290.704 1/2:154:0,76,78:0:0:76,78:2724,2800:-450.919,-228.757,-205.879,-222.52,0,-199.04 1/2:94:0,66,28:0:0:66,28:2368,1004:-275.398,-82.2466,-62.3786,-193.51,0,-185.081 1/1:56:0,56,0:0:0:56,0:2000,0:-180.263,-16.8577,0,-180.263,-16.8577,-180.263 1/1:71:0,71,0:0:0:71,0:2544,0:-229.211,-21.3731,0,-229.211,-21.3731,-229.211 chr08 26557919 . T C,G 20999 PASS AB=0.502347,0.495305;ABP=3.03069,3.09186;AC=29,13;AF=0.690476,0.309524;AN=42;AO=725,257;CIGAR=1X,1X;DP=984;DPB=984;DPRA=1.01957,0.691406;EPP=1577.33,561.079;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.6,1.91667;MQM=59.9697,59.8444;MQMR=60;NS=21;NUMALT=2;ODDS=1.30433;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25701,9153;QR=36;RO=1;RPL=725,257;RPP=1577.33,561.079;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=725,257;SAP=1577.33,561.079;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,21,39:0:0:21,39:737,1396:-174.175,-114.199,-107.877,-60.329,0,-48.5888 1/2:37:0,19,18:0:0:19,18:680,648:-108.684,-53.2333,-47.5138,-55.8096,0,-50.3911 1/2:31:0,13,18:0:0:13,18:468,639:-90.6082,-52.4197,-48.5063,-38.5463,0,-33.1277 1/2:20:0,9,11:0:0:9,11:320,396:-58.7471,-32.6714,-29.9621,-26.4331,0,-23.1218 1/1:106:0,105,0:0:0:105,0:3740,0:-336.44,-31.6082,0,-336.44,-31.6082,-336.44 1/1:41:0,41,0:0:0:41,0:1455,0:-131.245,-12.3422,0,-131.245,-12.3422,-131.245 1/1:96:0,96,0:0:0:96,0:3395,0:-305.764,-28.8989,0,-305.764,-28.8989,-305.764 2/2:46:0,0,46:0:0:0,46:0,1632:-147.147,-147.147,-147.147,-13.8474,-13.8474,0 1/2:104:1,58,45:1:36:58,45:2054,1608:-295.177,-128.167,-113.644,-164.37,0,-153.761 1/2:9:0,6,3:0:0:6,3:216,108:-26.7966,-9.17208,-7.3659,-17.9843,0,-17.0812 1/2:12:0,7,5:0:0:7,5:237,180:-34.2479,-15.0469,-12.9397,-19.5518,0,-18.0467 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:45:0,17,28:0:0:17,28:599,995:-130.202,-81.4352,-76.3177,-49.1206,0,-40.6917 1/1:36:0,36,0:0:0:36,0:1241,0:-111.987,-10.8371,0,-111.987,-10.8371,-111.987 1/1:92:0,92,0:0:0:92,0:3263,0:-293.878,-27.6948,0,-293.878,-27.6948,-293.878 1/1:49:0,49,0:0:0:49,0:1752,0:-157.964,-14.7505,0,-157.964,-14.7505,-157.964 1/1:31:0,31,0:0:0:31,0:1108,0:-100.031,-9.33193,0,-100.031,-9.33193,-100.031 1/2:55:0,21,34:0:0:21,34:748,1195:-158.573,-97.6036,-91.282,-61.3237,0,-51.0886 1/2:48:0,40,8:0:0:40,8:1411,284:-138.386,-23.4951,-11.4539,-115.245,0,-112.837 1/1:32:0,32,0:0:0:32,0:1129,0:-101.916,-9.63296,0,-101.916,-9.63296,-101.916 1/1:29:0,29,0:0:0:29,0:1040,0:-93.9144,-8.72987,0,-93.9144,-8.72987,-93.9144 chr08 26579740 . G A 25527.7 PASS AB=0.555402;ABP=22.2588;AC=29;AF=0.690476;AN=42;AO=1212;CIGAR=1X;DP=1606;DPB=1606;DPRA=0;EPP=2634.83;EPPR=858.57;GTI=0;LEN=1;MEANALT=1;MQM=59.9736;MQMR=60;NS=21;NUMALT=1;ODDS=1.85024;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43358;QR=14073;RO=394;RPL=0;RPP=2634.83;RPPR=858.57;RPR=1212;RUN=1;SAF=1212;SAP=2634.83;SAR=0;SRF=394;SRP=858.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:21,38:21:752:38:1352:-104.22,0,-50.2455 0/1:91:38,53:38:1364:53:1896:-143.524,0,-95.667 0/1:85:33,52:33:1188:52:1864:-142.452,0,-81.641 0/1:92:39,53:39:1396:53:1899:-143.493,0,-98.2443 1/1:122:0,122:0:0:122:4359:-392.484,-36.7257,0 1/1:119:0,119:0:0:119:4272:-384.657,-35.8226,0 1/1:118:1,117:1:36:117:4192:-373.863,-31.9233,0 0/0:70:69,1:69:2441:1:36:0,-17.4738,-216.346 0/1:145:70,75:70:2504:75:2681:-197.884,0,-181.963 0/1:18:7,11:7:248:11:382:-29.1012,0,-17.2457 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:23:12,11:12:428:11:396:-29.0591,0,-31.9351 0/1:79:36,43:36:1284:43:1544:-115.472,0,-92.082 1/1:92:0,92:0:0:92:3281:-295.509,-27.6948,0 1/1:87:0,87:0:0:87:3120:-281.026,-26.1896,0 1/1:65:0,65:0:0:65:2307:-207.889,-19.567,0 1/1:120:3,117:3:108:117:4192:-367.386,-26.0484,0 0/1:70:43,27:43:1544:27:972:-66.7258,0,-118.181 0/1:56:19,37:19:672:37:1332:-103.325,0,-43.9492 1/1:59:0,59:0:0:59:2101:-189.358,-17.7608,0 1/1:32:0,32:0:0:32:1144:-103.269,-9.63296,0 chr08 26599522 . T C 28194 PASS AB=0.510074;ABP=3.84158;AC=29;AF=0.690476;AN=42;AO=1372;CIGAR=1X;DP=1944;DPB=1944;DPRA=0.902941;EPP=2982.27;EPPR=1242.92;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9993;MQMR=60;NS=21;NUMALT=1;ODDS=7.70129;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48648;QR=20416;RO=571;RPL=0;RPP=2982.27;RPPR=1242.92;RPR=1372;RUN=1;SAF=0;SAP=2982.27;SAR=1372;SRF=0;SRP=1242.92;SRR=571;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:41,40:41:1468:40:1411:-102.902,0,-108.033 0/1:36:22,14:22:788:14:504:-34.861,0,-60.4077 0/1:144:65,79:65:2328:79:2817:-210.421,0,-166.432 0/1:52:26,26:26:936:26:924:-67.8241,0,-68.9059 1/1:71:4,66:4:144:66:2325:-196.194,-8.11831,0 1/1:68:1,67:1:36:67:2390:-211.758,-16.8718,0 1/1:104:0,104:0:0:104:3693:-332.573,-31.3071,0 0/0:102:102,0:102:3660:0:0:0,-30.7051,-329.603 0/1:185:99,86:99:3532:86:3051:-219.128,0,-262.4 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:73:43,30:43:1535:30:1053:-73.1034,0,-116.467 0/1:109:60,49:60:2152:49:1737:-123.801,0,-161.135 1/1:252:0,252:0:0:252:8947:-805.214,-75.8596,0 1/1:150:0,150:0:0:150:5303:-477.407,-45.1545,0 1/1:40:0,40:0:0:40:1412:-127.375,-12.0412,0 1/1:55:0,55:0:0:55:1966:-177.215,-16.5567,0 0/1:134:60,74:60:2117:74:2607:-194.539,0,-150.459 0/1:109:36,73:36:1288:73:2603:-201.706,0,-83.4113 1/1:88:2,86:2:72:86:3041:-267.084,-19.6539,0 1/1:71:0,71:0:0:71:2504:-225.612,-21.3731,0 chr08 26839040 . 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C T 18507.2 PASS AB=0.498407;ABP=3.0449;AC=13;AF=0.309524;AN=42;AO=866;CIGAR=1X;DP=2200;DPB=2200;DPRA=2.28481;EPP=756.015;EPPR=318.151;GTI=0;LEN=1;MEANALT=1;MQM=59.9284;MQMR=59.9798;NS=21;NUMALT=1;ODDS=3.92623;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30803;QR=47515;RO=1334;RPL=12;RPP=1780.72;RPPR=2762.45;RPR=854;RUN=1;SAF=719;SAP=823.416;SAR=147;SRF=901;SRP=359.535;SRR=433;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:31,27:31:1116:27:959:-69.1581,0,-83.292 0/1:40:17,23:17:612:23:828:-62.8029,0,-43.3722 0/1:20:12,8:12:432:8:288:-20.2468,0,-33.2006 0/1:54:26,28:26:928:28:1004:-74.4202,0,-67.5826 0/0:61:60,1:60:2131:1:36:0,-14.7646,-188.46 0/0:44:44,0:44:1567:0:0:0,-13.2453,-141.321 0/0:74:74,0:74:2639:0:0:0,-22.2762,-237.721 1/1:82:0,82:0:0:82:2911:-262.224,-24.6845,0 0/1:96:57,39:57:2031:39:1390:-96.4983,0,-154.163 0/1:219:99,120:99:3519:120:4273:-318.821,0,-250.996 0/1:137:66,71:66:2316:71:2478:-182.03,0,-167.458 0/1:360:168,192:168:5986:192:6834:-506.733,0,-430.478 0/1:56:28,28:28:1000:28:1004:-73.8148,0,-73.4577 0/0:54:54,0:54:1893:0:0:0,-16.2556,-170.646 0/0:93:92,1:92:3275:1:36:0,-24.3975,-291.344 0/0:58:58,0:58:2067:0:0:0,-17.4597,-186.3 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/1:437:215,222:215:7685:222:7902:-579.651,0,-560.134 0/1:92:68,24:68:2413:24:860:-50.0271,0,-189.731 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 0/0:97:97,0:97:3469:0:0:0,-29.1999,-312.42 chr08 27683334 . AGTGT AT,AGCGT 36283.3 PASS AB=0.430605,0.569395;ABP=38.2716,38.2716;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1085,632;CIGAR=1M3D1M,2M1X2M;DP=1717;DPB=1066;DPRA=1.1412,1.0633;EPP=2359.06,1375.38;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.73684,1.875;MQM=59.965,59.9873;MQMR=0;NS=21;NUMALT=2;ODDS=5.4458;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38154,22620;QR=0;RO=0;RPL=0,0;RPP=2359.06,1375.38;RPPR=0;RPR=1085,632;RUN=1,1;SAF=1085,632;SAP=2359.06,1375.38;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:58:0,25,33:0:0:25,33:884,1176:-168.212,-96.2138,-88.688,-72.3526,0,-62.4186 1/2:74:0,17,57:0:0:17,57:600,2036:-215.211,-166.354,-161.236,-49.2117,0,-32.053 1/2:87:0,38,49:0:0:38,49:1356,1756:-254.118,-143.574,-132.134,-110.901,0,-96.1509 1/2:87:0,42,45:0:0:42,45:1477,1608:-251.689,-131.464,-118.82,-120.579,0,-107.033 1/1:148:0,146,2:0:0:146,2:5142,72:-462.555,-43.9504,0,-456.68,-37.7157,-456.078 1/1:62:0,61,1:0:0:61,1:2137,36:-192.238,-18.3628,0,-189.3,-15.0656,-188.999 1/1:131:0,131,0:0:0:131,0:4547,0:-409.381,-39.4349,0,-409.381,-39.4349,-409.381 2/2:139:0,0,139:0:0:0,139:0,4979:-448.258,-448.258,-448.258,-41.8432,-41.8432,0 1/2:144:0,60,84:0:0:60,84:2101,3020:-417.686,-246.743,-228.682,-171.297,0,-146.01 2/2:6:0,0,6:0:0:0,6:0,216:-19.7905,-19.7905,-19.7905,-1.80618,-1.80618,0 1/2:14:0,7,7:0:0:7,7:252,248:-41.1218,-20.557,-18.4498,-20.9217,0,-18.8145 1/2:14:0,4,10:0:0:4,10:129,360:-40.1245,-29.734,-28.5299,-10.7235,0,-7.71324 1/2:43:0,21,22:0:0:21,22:748,788:-125.589,-64.6221,-58.3005,-61.3237,0,-54.701 1/1:30:0,30,0:0:0:30,0:1056,0:-95.3509,-9.0309,0,-95.3509,-9.0309,-95.3509 1/1:128:0,128,0:0:0:128,0:4514,0:-406.43,-38.5318,0,-406.43,-38.5318,-406.43 1/1:76:0,74,2:0:0:74,2:2620,72:-235.69,-22.2762,0,-229.815,-16.0416,-229.213 1/1:53:0,53,0:0:0:53,0:1873,0:-168.847,-15.9546,0,-168.847,-15.9546,-168.847 1/2:263:0,111,152:0:0:111,152:3933,5434:-763.823,-443.429,-410.014,-320.75,0,-274.994 1/2:59:0,38,21:0:0:38,21:1356,747:-171.778,-61.2327,-49.7935,-110.901,0,-104.58 1/1:53:0,51,2:0:0:51,2:1729,72:-155.526,-15.3525,0,-149.65,-9.11787,-149.048 1/1:48:0,48,0:0:0:48,0:1700,0:-153.286,-14.4494,0,-153.286,-14.4494,-153.286 chr08 27728101 . TGATTAAAAAGAT TAATTAAAAGAT,TATTTAAAAGAT 30835.9 PASS AB=0.502994,0.492515;ABP=3.06231,3.33537;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1077,409;CIGAR=1M1X3M1D7M,1M1D3M1X7M;DP=1498;DPB=1382.85;DPRA=0.898101,0.952381;EPP=2315.7,891.143;EPPR=0;GTI=0;LEN=12,12;MEANALT=2.15,2.38462;MQM=49.9861,49.9046;MQMR=0;NS=21;NUMALT=2;ODDS=3.29944;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37389,14369;QR=0;RO=0;RPL=3,0;RPP=2315.7,891.143;RPPR=0;RPR=1074,409;RUN=1,1;SAF=1077,409;SAP=2341.69,891.143;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,60,63:0:0:60,63:2053,2219:-345.665,-179.791,-161.73,-166.218,0,-147.253 1/2:78:0,35,42:0:0:35,42:1202,1468:-214.797,-118.229,-107.693,-96.5998,0,-83.9565 1/2:108:0,54,54:0:0:54,54:1879,1898:-306.421,-154.326,-138.07,-152.443,0,-136.187 1/2:68:0,46,22:0:0:46,22:1614,774:-193.73,-62.9766,-49.1292,-131.103,0,-124.481 1/1:163:0,158,1:0:0:158,1:5500,35:-492.982,-47.5627,0,-490.143,-44.7237,-489.842 1/1:80:0,80,0:0:0:80,0:2809,0:-251.039,-24.0824,0,-251.039,-24.0824,-251.039 1/1:134:0,132,0:0:0:132,0:4509,0:-401.465,-39.736,0,-401.465,-39.736,-401.465 2/2:79:0,0,79:0:0:0,79:0,2809:-251.523,-251.523,-251.523,-23.7814,-23.7814,0 1/2:127:0,57,69:0:0:57,69:1942,2407:-351.924,-194.984,-177.825,-156.944,0,-136.173 1/2:19:0,9,10:0:0:9,10:321,337:-53.5219,-27.5032,-24.7939,-26.3641,0,-23.3538 1/2:16:0,12,4:0:0:12,4:428,139:-46.1345,-11.5549,-7.94255,-34.9266,0,-33.7225 1/2:32:0,12,20:0:0:12,20:412,691:-89.4097,-56.1378,-52.5254,-33.6142,0,-27.5936 1/2:50:0,25,25:0:0:25,25:879,874:-142.487,-71.1719,-63.6462,-71.6641,0,-64.1384 1/1:68:0,67,0:0:0:67,0:2338,0:-209.493,-20.169,0,-209.493,-20.169,-209.493 1/1:45:0,44,0:0:0:44,0:1505,0:-134.497,-13.2453,0,-134.497,-13.2453,-134.497 1/1:68:0,68,0:0:0:68,0:2409,0:-216.73,-20.47,0,-216.73,-20.47,-216.73 1/1:112:0,111,0:0:0:111,0:3860,0:-346.5,-33.4143,0,-346.5,-33.4143,-346.5 1/2:33:0,17,15:0:0:17,15:587,538:-90.8185,-43.6373,-38.5198,-47.2503,0,-42.7349 1/2:14:0,9,5:0:0:9,5:322,180:-40.9518,-14.8097,-12.1004,-26.4973,0,-24.9921 1/1:62:0,62,0:0:0:62,0:2147,0:-192.36,-18.6639,0,-192.36,-18.6639,-192.36 1/1:19:0,19,0:0:0:19,0:673,0:-60.4102,-5.71957,0,-60.4102,-5.71957,-60.4102 chr08 27729687 . C T 8878.32 PASS AB=0.455724;ABP=18.7781;AC=13;AF=0.309524;AN=42;AO=517;CIGAR=1X;DP=1907;DPB=1907;DPRA=1.39506;EPP=1125.66;EPPR=3019.19;GTI=1;LEN=1;MEANALT=1.0625;MQM=59.9923;MQMR=59.9914;NS=21;NUMALT=1;ODDS=2.85652;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18490;QR=49677;RO=1389;RPL=0;RPP=1125.66;RPPR=3019.19;RPR=517;RUN=1;SAF=517;SAP=1125.66;SAR=0;SRF=1389;SRP=3019.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:55,33:55:1968:33:1178:-79.837,0,-150.904 0/1:73:45,28:45:1620:28:998:-68.16,0,-124.115 0/1:82:44,38:44:1559:38:1368:-98.7364,0,-115.916 0/1:86:41,45:41:1472:45:1608:-119.122,0,-106.888 0/0:207:206,1:206:7364:1:36:0,-58.7149,-659.211 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 0/0:91:90,1:90:3220:1:36:0,-23.7955,-286.416 1/1:91:0,91:0:0:91:3237:-291.552,-27.3937,0 0/1:258:121,137:121:4336:137:4901:-363.574,0,-312.749 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:19:15,4:15:540:4:144:-7.59405,0,-43.217 0/1:178:100,77:100:3572:77:2752:-194.428,0,-268.195 0/0:113:113,0:113:4036:0:0:0,-34.0164,-363.428 0/0:151:150,1:150:5373:1:36:0,-41.8573,-480.101 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.541 0/0:57:57,0:57:2017:0:0:0,-17.1587,-181.801 0/1:71:34,37:34:1220:37:1332:-98.8093,0,-88.7337 0/1:52:35,17:35:1256:17:612:-39.7599,0,-97.6917 0/0:92:91,1:91:3253:1:36:0,-24.0965,-289.391 0/0:39:39,0:39:1383:0:0:0,-11.7402,-124.768 chr08 27805163 . A G 32433.8 PASS AB=0.507125;ABP=3.53633;AC=29;AF=0.690476;AN=42;AO=1574;CIGAR=1X;DP=2309;DPB=2309;DPRA=0.798897;EPP=3420.91;EPPR=1596.87;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9663;MQMR=59.9986;NS=21;NUMALT=1;ODDS=16.6271;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56299;QR=26192;RO=734;RPL=0;RPP=3420.91;RPPR=1596.87;RPR=1574;RUN=1;SAF=1574;SAP=3420.91;SAR=0;SRF=734;SRP=1596.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:201:98,103:98:3486:103:3681:-270.985,0,-253.442 0/1:110:54,56:54:1932:56:2012:-148.24,0,-141.043 0/1:146:85,61:85:3013:61:2169:-151.525,0,-227.451 0/1:101:45,56:45:1620:56:2008:-150.589,0,-115.686 1/1:215:4,210:4:144:210:7516:-663.16,-51.4666,0 1/1:79:0,79:0:0:79:2828:-254.758,-23.7814,0 1/1:112:0,112:0:0:112:3996:-359.829,-33.7154,0 0/0:136:136,0:136:4861:0:0:0,-40.9401,-437.642 0/1:186:93,93:93:3310:93:3332:-244.106,0,-242.124 0/1:20:12,8:12:432:8:288:-20.2468,0,-33.2006 0/1:10:4,6:4:144:6:216:-16.7798,0,-10.3033 0/1:36:15,21:15:536:21:756:-57.5301,0,-37.7377 0/1:120:55,65:55:1957:65:2317:-172.665,0,-140.28 1/1:63:0,63:0:0:63:2255:-203.213,-18.9649,0 1/1:203:0,203:0:0:203:7237:-651.384,-61.1091,0 1/1:82:1,81:1:36:81:2898:-257.458,-21.0862,0 1/1:109:0,109:0:0:109:3909:-351.511,-32.8123,0 0/1:196:110,86:110:3937:86:3088:-219.137,0,-295.518 0/1:67:17,50:17:608:50:1796:-141.753,0,-34.883 1/1:70:5,65:5:176:65:2317:-192.604,-4.88708,0 1/1:47:0,47:0:0:47:1680:-151.487,-14.1484,0 chr08 27805211 . A T 11298.1 PASS AB=0.532587;ABP=12.0677;AC=13;AF=0.309524;AN=42;AO=654;CIGAR=1X;DP=1865;DPB=1865;DPRA=1.16723;EPP=1380.06;EPPR=2582.9;GTI=0;LEN=1;MEANALT=1.13333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.25465;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22628;QR=41513;RO=1208;RPL=649;RPP=1380.06;RPPR=2582.9;RPR=5;RUN=1;SAF=654;SAP=1423.15;SAR=0;SRF=1208;SRP=2626.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:82,92:82:2764:92:3227:-238.275,0,-196.623 0/1:95:47,48:47:1624:48:1679:-122.798,0,-117.848 0/1:130:50,80:50:1751:80:2800:-213.109,0,-118.739 0/1:88:45,43:45:1527:43:1479:-106.909,0,-111.224 0/0:164:160,4:160:5511:4:140:0,-36.4243,-483.185 0/0:56:56,0:56:1949:0:0:0,-16.8577,-175.684 0/0:94:94,0:94:3205:0:0:0,-28.2968,-288.679 1/1:121:0,121:0:0:121:4205:-378.635,-36.4246,0 0/1:156:78,78:78:2683:78:2725:-198.535,0,-194.758 0/1:17:7,10:7:230:10:340:-25.8115,0,-15.9037 0/1:7:4,3:4:132:3:94:-6.66371,0,-10.0993 0/1:25:13,12:13:447:12:405:-29.2467,0,-33.0319 0/1:95:49,46:49:1662:46:1609:-116.499,0,-121.265 0/0:40:40,0:40:1384:0:0:0,-12.0412,-124.857 0/0:161:161,0:161:5598:0:0:0,-48.4658,-503.954 0/0:67:64,2:64:2214:2:72:0,-13.2912,-192.734 0/0:88:88,0:88:3088:0:0:0,-26.4906,-278.15 0/1:152:54,96:54:1840:96:3221:-244.622,0,-120.381 0/1:43:28,15:28:895:15:497:-32.1014,0,-67.8994 0/0:55:51,4:51:1763:4:135:0,-4.07414,-146.467 0/0:37:37,0:37:1246:0:0:0,-11.1381,-112.438 chr08 27821433 . T G 17054.6 PASS AB=0.481481;ABP=4.37752;AC=29;AF=0.690476;AN=42;AO=805;CIGAR=1X;DP=1071;DPB=1071;DPRA=2.00962;EPP=1751.05;EPPR=569.797;GTI=1;LEN=1;MEANALT=1.05;MQM=60;MQMR=59.9774;NS=21;NUMALT=1;ODDS=2.10257;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28823;QR=9443;RO=265;RPL=805;RPP=1751.05;RPPR=569.797;RPR=0;RUN=1;SAF=0;SAP=1751.05;SAR=805;SRF=0;SRP=578.45;SRR=265;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:48,46:48:1705:46:1639:-119.501,0,-125.437 0/1:30:14,16:14:504:16:576:-43.1441,0,-36.6672 0/1:45:24,21:24:864:21:756:-54.8209,0,-64.5362 0/1:26:12,14:12:432:14:504:-37.8713,0,-31.3944 1/1:177:0,177:0:0:177:6328:-569.613,-53.2823,0 1/1:43:1,42:1:36:42:1499:-131.606,-9.34602,0 1/1:67:0,67:0:0:67:2393:-215.625,-20.169,0 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/1:64:39,25:39:1388:25:896:-61.6944,0,-105.952 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:10:5,5:5:165:5:180:-13.5418,0,-12.1633 0/1:22:12,10:12:417:10:360:-26.1216,0,-31.2376 0/1:72:38,34:38:1356:34:1216:-88.0724,0,-100.664 1/1:53:0,53:0:0:53:1896:-170.918,-15.9546,0 1/1:58:0,57:0:0:57:2052:-184.592,-17.1587,0 1/1:56:0,56:0:0:56:2012:-181.353,-16.8577,0 1/1:50:0,50:0:0:50:1792:-161.562,-15.0515,0 0/1:47:28,19:28:1004:19:676:-47.0196,0,-76.5275 0/1:42:16,26:16:572:26:928:-71.195,0,-39.1702 1/1:51:0,51:0:0:51:1824:-164.441,-15.3525,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 chr08 28007415 . ATGTT AT,ATGTA 33094.4 PASS AB=0.529709,0.470291;ABP=9.0745,9.0745;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1121,473;CIGAR=1M3D1M,4M1X;DP=1595;DPB=921.8;DPRA=0,1.26496;EPP=2437.23,1030.12;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.66667,2;MQM=48.8591,59.8668;MQMR=0;NS=21;NUMALT=2;ODDS=6.24997;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39082,16962;QR=0;RO=0;RPL=0,0;RPP=2437.23,1030.12;RPPR=0;RPR=1121,473;RUN=1,1;SAF=1121,473;SAP=2437.23,1030.12;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:127:0,82,45:0:0:82,45:2879,1601:-363.385,-130.832,-106.147,-232.906,0,-219.36 1/2:48:0,33,15:0:0:33,15:1090,540:-131.938,-44.4211,-34.4871,-87.8669,0,-83.3514 1/2:101:0,50,51:0:0:50,51:1758,1836:-292.836,-150.168,-135.117,-143.023,0,-127.67 1/2:51:0,30,21:0:0:30,21:1045,756:-146.537,-62.0456,-53.0147,-84.8462,0,-78.5246 1/1:182:0,180,2:0:0:180,2:6246,72:-559.278,-54.1854,0,-553.403,-47.9507,-552.801 1/1:41:0,41,0:0:0:41,0:1449,0:-129.551,-12.3422,0,-129.551,-12.3422,-129.551 1/1:55:0,55,0:0:0:55,0:1868,0:-166.214,-16.5567,0,-166.214,-16.5567,-166.214 2/2:100:0,1,99:0:0:1,99:36,3533:-317.82,-314.939,-314.638,-29.802,-26.5669,0 1/2:164:0,89,75:0:0:89,75:3100,2700:-470.432,-220.666,-193.874,-250.119,0,-227.541 1/2:15:0,5,10:0:0:5,10:180,360:-44.1393,-29.734,-28.2289,-14.761,0,-11.7507 1/2:4:0,1,3:0:0:1,3:36,108:-12.0865,-9.17208,-8.87105,-3.2724,0,-2.36931 1/2:10:0,7,3:0:0:7,3:244,108:-28.678,-9.17208,-7.06487,-19.8608,0,-18.9577 1/2:80:0,28,52:0:0:28,52:993,1864:-233.063,-152.386,-143.957,-81.0327,0,-65.3791 1/1:69:0,69,0:0:0:69,0:2356,0:-211.825,-20.7711,0,-211.825,-20.7711,-211.825 1/1:91:0,91,0:0:0:91,0:3211,0:-288.045,-27.3937,0,-288.045,-27.3937,-288.045 1/1:70:0,70,0:0:0:70,0:2408,0:-214.486,-21.0721,0,-214.486,-21.0721,-214.486 1/1:52:0,52,0:0:0:52,0:1826,0:-163.413,-15.6536,0,-163.413,-15.6536,-163.413 1/2:121:0,54,67:0:0:54,67:1900,2412:-347.823,-197.167,-180.911,-151.007,0,-130.838 1/2:70:0,40,30:0:0:40,30:1412,1072:-200.932,-86.4974,-74.4562,-114.787,0,-105.756 1/1:95:0,94,0:0:0:94,0:3325,0:-292.969,-28.2968,0,-292.969,-28.2968,-292.969 1/1:49:0,49,0:0:0:49,0:1720,0:-154.086,-14.7505,0,-154.086,-14.7505,-154.086 chr08 28007427 . A C,G 33911.7 PASS AB=0.540201,0.459799;ABP=14.1841,14.1841;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1145,464;CIGAR=1X,1X;DP=1611;DPB=1611;DPRA=0,1.23767;EPP=2472,1001.91;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.66667,2.07692;MQM=48.7852,59.8642;MQMR=60;NS=21;NUMALT=2;ODDS=7.75082;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40414,16579;QR=36;RO=1;RPL=2,1;RPP=2472,1001.91;RPPR=5.18177;RPR=1143,463;RUN=1,1;SAF=1145,464;SAP=2489.35,1010.57;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,86,44:0:0:86,44:3044,1580:-375.743,-129.246,-103.358,-246.853,0,-233.608 1/2:48:0,34,14:0:0:34,14:1194,504:-137.967,-41.4837,-31.2487,-96.8396,0,-92.6252 1/2:101:0,52,49:0:0:52,49:1847,1741:-292.276,-142.223,-126.569,-150.408,0,-135.658 1/2:49:0,28,21:0:0:28,21:1000,748:-142.635,-61.3237,-52.8948,-81.6674,0,-75.3458 1/1:183:1,179,2:1:36:179,2:6266,72:-557.133,-50.9469,0,-551.559,-48.0093,-553.895 1/1:44:0,44,0:0:0:44,0:1552,0:-138.502,-13.2453,0,-138.502,-13.2453,-138.502 1/1:57:0,57,0:0:0:57,0:2006,0:-178.738,-17.1587,0,-178.738,-17.1587,-178.738 2/2:97:0,1,96:0:0:1,96:36,3436:-309.095,-306.214,-305.913,-28.8989,-25.6638,0 1/2:161:0,86,75:0:0:86,75:3058,2700:-467.606,-220.666,-194.778,-247.296,0,-224.719 1/2:15:0,5,10:0:0:5,10:171,352:-42.65,-29.0079,-27.5027,-13.9839,0,-10.9736 1/2:4:0,1,3:0:0:1,3:36,108:-12.0865,-9.17208,-8.87105,-3.2724,0,-2.36931 1/2:11:0,7,4:0:0:7,4:252,144:-32.2759,-12.1095,-10.0023,-20.524,0,-19.3199 1/2:80:0,29,51:0:0:29,51:1040,1828:-234.043,-149.448,-140.719,-84.9524,0,-69.5998 1/1:66:0,66,0:0:0:66,0:2347,0:-210.982,-19.868,0,-210.982,-19.868,-210.982 1/1:96:0,96,0:0:0:96,0:3371,0:-302.049,-28.8989,0,-302.049,-28.8989,-302.049 1/1:70:0,70,0:0:0:70,0:2456,0:-218.146,-21.0721,0,-218.146,-21.0721,-218.146 1/1:56:0,56,0:0:0:56,0:1962,0:-175.216,-16.8577,0,-175.216,-16.8577,-175.216 1/2:124:0,59,65:0:0:59,65:2091,2298:-353.107,-187.511,-169.751,-165.945,0,-146.378 1/2:73:0,43,30:0:0:43,30:1516,1068:-209.046,-86.137,-73.1927,-123.26,0,-114.229 1/1:95:0,95,0:0:0:95,0:3366,0:-296.745,-28.5979,0,-296.745,-28.5979,-296.745 1/1:51:0,51,0:0:0:51,0:1803,0:-161.404,-15.3525,0,-161.404,-15.3525,-161.404 chr08 28007455 . G T 23726 PASS AB=0.541353;ABP=14.8636;AC=29;AF=0.690476;AN=42;AO=1156;CIGAR=1X;DP=1625;DPB=1625;DPRA=0;EPP=2513.23;EPPR=1019.26;GTI=0;LEN=1;MEANALT=1.04762;MQM=48.7509;MQMR=59.9103;NS=21;NUMALT=1;ODDS=7.83662;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41320;QR=16727;RO=468;RPL=1156;RPP=2513.23;RPPR=1019.26;RPR=0;RUN=1;SAF=1156;SAP=2513.23;SAR=0;SRF=468;SRP=1019.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:44,86:44:1580:86:3038:-232.8,0,-103.358 0/1:47:15,32:15:536:32:1133:-87.432,0,-34.4264 0/1:103:51,52:51:1832:52:1872:-137.275,0,-134.155 0/1:49:21,28:21:752:28:1008:-76.057,0,-53.2558 1/1:187:2,185:2:72:185:6618:-584.979,-49.4559,0 1/1:44:0,44:0:0:44:1569:-140.364,-13.2453,0 1/1:59:0,59:0:0:59:2093:-186.157,-17.7608,0 0/0:101:100,1:100:3566:1:36:0,-26.8679,-317.607 0/1:164:74,90:74:2660:90:3219:-238.079,0,-190.276 0/1:15:10,5:10:351:5:176:-11.4171,0,-27.4112 0/1:4:3,1:3:108:1:36:-2.36931,0,-8.87105 0/1:10:4,6:4:144:6:216:-16.4384,0,-10.3033 0/1:79:50,29:50:1776:29:1044:-70.2564,0,-136.342 1/1:70:0,70:0:0:70:2496:-224.3,-21.0721,0 1/1:93:0,92:0:0:92:3306:-296.007,-27.6948,0 1/1:71:0,71:0:0:71:2532:-224.851,-21.3731,0 1/1:55:0,55:0:0:55:1976:-176.123,-16.5567,0 0/1:126:65,61:65:2315:61:2172:-152.076,0,-170.68 0/1:71:29,42:29:1035:42:1508:-113.935,0,-70.9834 1/1:97:0,97:0:0:97:3488:-306.976,-29.1999,0 1/1:50:0,50:0:0:50:1784:-159.77,-15.0515,0 chr08 28321232 . T A 1.81679e-12 PASS AB=0.247059;ABP=50.2462;AC=2;AF=0.047619;AN=42;AO=141;CIGAR=1X;DP=3001;DPB=3001;DPRA=0;EPP=309.188;EPPR=3858.35;GTI=1;LEN=1;MEANALT=1.04762;MQM=16.7234;MQMR=23.1536;NS=21;NUMALT=1;ODDS=64.5159;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5004;QR=100227;RO=2859;RPL=0;RPP=309.188;RPPR=6211.25;RPR=141;RUN=1;SAF=0;SAP=309.188;SAR=141;SRF=303;SRP=3858.35;SRR=2556;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:128:120,8:120:4267:8:279:0,-26.9083,-199.645 0/0:83:82,1:82:2893:1:36:0,-23.2908,-167.535 0/0:159:154,5:154:5396:5:180:0,-40.5231,-256.378 0/0:201:199,2:199:6898:2:68:0,-57.481,-354.942 0/0:165:160,4:160:5606:4:144:0,-43.621,-295.25 0/0:66:64,2:64:2263:2:72:0,-16.6481,-111.065 0/0:246:239,7:239:8384:7:234:0,-63.272,-460.808 0/0:189:179,10:179:6296:10:356:0,-42.3787,-343.799 0/0:123:112,11:112:3863:11:392:0,-16.1786,-207.709 0/0:144:118,26:118:4130:26:915:0,-5.10251,-230.08 0/0:162:157,5:157:5542:5:180:0,-40.9714,-272.176 0/0:84:80,4:80:2764:4:144:0,-19.5656,-132.603 0/0:135:127,8:127:4449:8:288:0,-28.9898,-199.988 0/0:153:144,9:144:5032:9:320:0,-32.9779,-249.965 0/0:129:121,8:121:4232:8:288:0,-27.1836,-208.256 0/0:68:65,3:65:2300:3:108:0,-14.6276,-122.611 0/0:107:106,1:106:3738:1:36:0,-30.1236,-193.287 0/0:508:504,4:504:17663:4:144:0,-147.019,-852.508 0/0:66:64,2:64:2276:2:72:0,-16.836,-133.711 0/1:58:44,14:44:1523:14:504:-2.62677,0,-63.2027 0/1:27:20,7:20:712:7:244:-2.70361,0,-31.3649 chr08 28321268 . A G 4870.09 PASS AB=0.330272;ABP=656.836;AC=19;AF=0.452381;AN=42;AO=882;CIGAR=1X;DP=2779;DPB=2779;DPRA=0;EPP=1918.25;EPPR=3891.11;GTI=6;LEN=1;MEANALT=1;MQM=28.4399;MQMR=20.8703;NS=21;NUMALT=1;ODDS=4.19627;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31547;QR=67907;RO=1897;RPL=882;RPP=1918.25;RPPR=4122.29;RPR=0;RUN=1;SAF=0;SAP=1918.25;SAR=882;SRF=27;SRP=3891.11;SRR=1870;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:97:87,10:87:3120:10:360:0,-6.75107,-136.788 0/0:69:60,9:60:2143:9:320:0,-0.58407,-102.255 0/1:143:91,52:91:3246:52:1860:-86.421,0,-82.222 0/1:192:140,52:140:5024:52:1859:-59.4482,0,-183.249 0/1:136:111,25:111:3961:25:874:-16.3392,0,-178.427 0/1:52:43,9:43:1548:9:324:-6.08464,0,-47.2611 0/1:212:132,80:132:4740:80:2876:-122.308,0,-161.968 0/1:177:126,51:126:4499:51:1824:-81.5811,0,-173.859 0/1:119:56,63:56:1991:63:2243:-121.653,0,-53.2154 0/1:142:62,80:62:2224:80:2867:-160.989,0,-59.3187 0/1:143:88,55:88:3144:55:1959:-84.4717,0,-68.9816 0/1:77:50,27:50:1777:27:964:-42.4417,0,-47.4012 0/1:136:101,35:101:3624:35:1256:-42.6958,0,-109.843 0/1:141:107,34:107:3836:34:1216:-34.134,0,-141.75 0/1:115:85,30:85:3035:30:1076:-42.8179,0,-106.587 0/1:69:53,16:53:1889:16:576:-18.2645,0,-78.6707 0/1:108:81,27:81:2904:27:972:-31.2898,0,-104.481 0/1:506:332,174:332:11906:174:6217:-264.59,0,-303.683 0/1:54:35,19:35:1260:19:680:-30.9734,0,-60.1823 0/1:61:39,22:39:1396:22:792:-31.7249,0,-38.634 0/1:30:18,12:18:640:12:432:-18.8296,0,-18.4268 chr08 28373401 . T C 36989.8 PASS AB=0.557012;ABP=24.5514;AC=29;AF=0.690476;AN=42;AO=1743;CIGAR=1X;DP=2247;DPB=2247;DPRA=0.656604;EPP=3787.89;EPPR=1086.59;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9541;MQMR=59.9801;NS=21;NUMALT=1;ODDS=7.3175;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61697;QR=17953;RO=503;RPL=1743;RPP=3787.89;RPPR=1086.59;RPR=0;RUN=1;SAF=1743;SAP=3787.89;SAR=0;SRF=501;SRP=1077.96;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:53,53:53:1878:53:1859:-135.677,0,-137.388 0/1:76:31,45:31:1116:45:1581:-119.699,0,-77.8734 0/1:86:24,62:24:860:62:2211:-173.366,0,-51.8333 0/1:71:31,40:31:1095:40:1424:-107.084,0,-77.4814 1/1:335:0,335:0:0:335:11823:-1063.93,-100.845,0 1/1:106:1,105:1:36:105:3729:-332.213,-28.3109,0 1/1:200:2,198:2:72:198:7007:-623.86,-53.3693,0 0/0:159:159,0:159:5665:0:0:0,-47.8638,-509.969 0/1:189:81,108:81:2891:108:3850:-289.801,0,-203.531 0/1:18:7,11:7:252:11:388:-29.8388,0,-17.6104 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/1:80:41,39:41:1472:39:1391:-101.406,0,-108.694 1/1:102:0,101:0:0:101:3513:-316.025,-30.404,0 1/1:274:1,273:1:36:273:9670:-866.404,-78.8839,0 1/1:61:0,61:0:0:61:2184:-196.823,-18.3628,0 1/1:90:0,90:0:0:90:3216:-289.663,-27.0927,0 0/1:85:48,37:48:1720:37:1309:-92.5234,0,-129.498 0/1:39:11,28:11:392:28:991:-77.7634,0,-23.8799 1/1:116:2,114:2:72:114:4056:-358.388,-28.0828,0 1/1:41:0,41:0:0:41:1423:-128.359,-12.3422,0 chr08 28373422 . G A 8454.25 PASS AB=0.43883;ABP=27.4509;AC=13;AF=0.309524;AN=42;AO=488;CIGAR=1X;DP=2213;DPB=2213;DPRA=0.678197;EPP=1062.69;EPPR=3748.8;GTI=1;LEN=1;MEANALT=1;MQM=59.9816;MQMR=59.9896;NS=21;NUMALT=1;ODDS=4.77483;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17329;QR=61068;RO=1725;RPL=488;RPP=1062.69;RPPR=3748.8;RPR=0;RUN=1;SAF=488;SAP=1062.69;SAR=0;SRF=1725;SRP=3748.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:55,53:55:1959:53:1877:-136.696,0,-144.073 0/1:73:43,30:43:1527:30:1072:-74.8173,0,-115.747 0/1:85:62,23:62:2189:23:816:-48.1742,0,-171.687 0/1:69:38,31:38:1332:31:1104:-78.895,0,-99.406 0/0:331:331,0:331:11733:0:0:0,-99.6409,-1055.85 0/0:107:105,2:105:3734:2:72:0,-25.3735,-329.422 0/0:203:203,0:203:7138:0:0:0,-61.1091,-642.489 1/1:153:0,153:0:0:153:5448:-490.449,-46.0576,0 0/1:188:108,80:108:3852:80:2835:-198.796,0,-290.284 0/1:17:11,6:11:396:6:216:-14.673,0,-30.8652 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:8:1,7:1:36:7:248:-20.256,0,-1.19003 0/1:76:39,37:39:1384:37:1315:-95.7727,0,-101.978 0/0:99:99,0:99:3437:0:0:0,-29.802,-309.548 0/0:266:265,1:265:9398:1:36:0,-76.4757,-842.165 0/0:58:58,0:58:2055:0:0:0,-17.4597,-185.221 0/0:91:91,0:91:3260:0:0:0,-27.3937,-293.621 0/1:83:35,48:35:1235:48:1686:-127.039,0,-86.468 0/1:41:29,12:29:1032:12:428:-26.5166,0,-80.8512 0/0:114:112,2:112:3960:2:72:0,-27.4807,-349.76 0/0:39:39,0:39:1375:0:0:0,-11.7402,-124.048 chr08 28373458 . 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C T 60838.6 PASS AB=0.486988;ABP=8.32235;AC=29;AF=0.690476;AN=42;AO=3133;CIGAR=1X;DP=5078;DPB=5078;DPRA=3.12375;EPP=6754.22;EPPR=4157.32;GTI=0;LEN=1;MEANALT=1;MQM=51.8752;MQMR=59.9578;NS=21;NUMALT=1;ODDS=0.310741;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=112013;QR=69456;RO=1945;RPL=3127;RPP=6754.22;RPPR=4157.32;RPR=6;RUN=1;SAF=0;SAP=6806.23;SAR=3133;SRF=0;SRP=4226.52;SRR=1945;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:55,54:55:1951:54:1916:-139.588,0,-143.053 0/1:159:71,88:71:2552:88:3164:-235.352,0,-182.066 0/1:77:38,39:38:1368:39:1396:-102.586,0,-100.242 0/1:215:90,125:90:3228:125:4465:-336.178,0,-226.02 1/1:323:7,316:7:252:316:11288:-990.082,-74.2037,0 1/1:162:0,162:0:0:162:5797:-518.605,-48.7669,0 1/1:160:1,159:1:36:159:5646:-500.152,-44.5665,0 0/0:80:80,0:80:2836:0:0:0,-24.0824,-255.478 0/1:157:67,90:67:2396:90:3217:-242.105,0,-168.634 0/1:381:273,108:273:9726:108:3872:-232.688,0,-760.595 0/1:908:472,436:472:16865:436:15592:-1120.74,0,-1244.15 0/1:631:296,335:296:10562:335:12008:-886.65,0,-760.547 0/1:228:94,134:94:3360:134:4812:-363.183,0,-233.982 1/1:96:1,95:1:36:95:3392:-301.317,-25.3006,0 1/1:160:3,157:3:108:157:5573:-490.354,-38.0896,0 1/1:113:0,113:0:0:113:4031:-362.176,-34.0164,0 1/1:212:0,212:0:0:212:7572:-679.973,-63.8184,0 0/1:644:363,281:363:12960:281:10048:-706.333,0,-971.563 0/1:103:34,69:34:1220:69:2484:-191.759,0,-79.1007 1/1:116:0,116:0:0:116:4160:-373.38,-34.9195,0 1/1:44:0,44:0:0:44:1580:-141.773,-13.2453,0 chr08 28378997 . 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T A 33189.4 PASS AB=0.492439;ABP=3.53572;AC=29;AF=0.690476;AN=42;AO=1591;CIGAR=1X;DP=2165;DPB=2165;DPRA=3.44194;EPP=3440.47;EPPR=1223.51;GTI=1;LEN=1;MEANALT=1;MQM=59.9195;MQMR=59.993;NS=21;NUMALT=1;ODDS=10.0835;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56636;QR=20510;RO=574;RPL=2;RPP=3440.47;RPPR=1223.51;RPR=1589;RUN=1;SAF=1591;SAP=3457.82;SAR=0;SRF=574;SRP=1249.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:47,46:47:1671:46:1632:-119.173,0,-122.681 0/1:111:57,54:57:2039:54:1928:-140.382,0,-150.367 0/1:114:70,44:70:2512:44:1580:-108.174,0,-192.014 0/1:99:59,40:59:2120:40:1416:-97.9335,0,-161.267 1/1:233:1,232:1:36:232:8253:-739.1,-66.5417,0 1/1:121:2,119:2:72:119:4233:-374.313,-29.5879,0 1/1:178:0,178:0:0:178:6329:-569.681,-53.5833,0 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 0/1:201:110,91:110:3927:91:3252:-232.394,0,-293.116 0/1:39:22,17:22:773:17:608:-43.3119,0,-58.1493 0/1:15:2,13:2:72:13:468:-37.9442,0,-2.32127 0/1:43:20,23:20:720:23:820:-61.1782,0,-52.1845 0/1:128:63,65:63:2240:65:2312:-169.776,0,-163.33 1/1:115:1,114:1:36:114:4075:-362.483,-31.0202,0 1/1:80:1,79:1:32:79:2805:-249.485,-20.8831,0 1/1:83:0,83:0:0:83:2937:-264.565,-24.9855,0 1/1:116:0,116:0:0:116:4136:-372.425,-34.9195,0 0/1:118:58,60:58:2076:60:2125:-155.995,0,-151.589 0/1:97:29,68:29:1040:68:2433:-190.021,0,-64.7145 1/1:103:1,102:1:36:102:3602:-320.788,-27.4078,0 1/1:47:0,47:0:0:47:1692:-152.567,-14.1484,0 chr08 28648318 . A G 32068.5 PASS AB=0.488417;ABP=4.21761;AC=29;AF=0.690476;AN=42;AO=1552;CIGAR=1X;DP=2123;DPB=2123;DPRA=3.26719;EPP=3364.46;EPPR=1240.75;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9543;MQMR=59.993;NS=21;NUMALT=1;ODDS=9.28363;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55036;QR=20381;RO=570;RPL=1551;RPP=3364.46;RPPR=1240.75;RPR=1;RUN=1;SAF=1552;SAP=3373.14;SAR=0;SRF=570;SRP=1240.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:46,44:46:1636:44:1519:-109.906,0,-120.436 0/1:107:55,52:55:1968:52:1856:-135.11,0,-145.185 0/1:111:69,42:69:2471:42:1483:-100.349,0,-189.226 0/1:97:59,38:59:2107:38:1360:-93.5007,0,-160.699 1/1:228:2,225:2:72:225:7962:-709.771,-61.8569,0 1/1:116:2,114:2:72:114:4052:-358.03,-28.0828,0 1/1:177:0,177:0:0:177:6279:-565.136,-53.2823,0 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/1:196:108,88:108:3888:88:3144:-224.184,0,-291.11 0/1:39:22,17:22:792:17:608:-43.3119,0,-59.8655 0/1:15:2,13:2:72:13:460:-37.2199,0,-2.32127 0/1:44:21,23:21:752:23:824:-61.238,0,-54.7609 0/1:124:61,63:61:2184:63:2228:-163.452,0,-159.498 1/1:114:1,113:1:36:113:4011:-357.582,-30.7191,0 1/1:79:1,78:1:36:78:2771:-246.032,-20.1831,0 1/1:82:0,82:0:0:82:2910:-262.136,-24.6845,0 1/1:114:1,113:1:36:113:3985:-355.242,-30.7191,0 0/1:117:58,59:58:2060:59:2094:-153.508,0,-150.448 0/1:96:29,67:29:1015:67:2375:-185.099,0,-62.762 1/1:98:1,97:1:36:97:3449:-307.024,-25.9027,0 1/1:47:0,47:0:0:47:1666:-150.226,-14.1484,0 chr08 28648375 . CCCG TCTG,TCTA 42864.7 PASS AB=0.432403,0.564378;ABP=39.9999,36.5609;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1444,624;CIGAR=1X1M1X1M,1X1M2X;DP=2082;DPB=2082;DPRA=1.04579,0.759889;EPP=3060.93,1349.34;EPPR=0;GTI=2;LEN=4,4;MEANALT=2.2,2.06667;MQM=53.8089,40.8478;MQMR=0;NS=21;NUMALT=2;ODDS=4.69199;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50295,21852;QR=0;RO=0;RPL=1435,623;RPP=3060.93,1349.34;RPPR=0;RPR=9,1;RUN=1,1;SAF=0,0;SAP=3138.62,1358.01;SAR=1444,624;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,8,69:0:0:8,69:276,2419:-212.773,-190.366,-187.957,-22.7514,0,-1.98037 1/2:81:0,34,47:0:0:34,47:1188,1611:-218.717,-122.856,-112.621,-96.1978,0,-82.0494 1/2:96:0,36,60:0:0:36,60:1259,2090:-264.915,-162.916,-152.079,-102.342,0,-84.28 1/2:152:0,65,87:0:0:65,87:2193,3063:-418.451,-241.151,-221.584,-177.638,0,-151.449 1/1:189:0,188,1:0:0:188,1:6525,36:-584.549,-56.5936,0,-581.697,-53.392,-581.396 1/1:100:0,99,1:0:0:99,1:3472,36:-310.121,-29.802,0,-307.373,-26.7154,-307.072 1/1:201:0,198,0:0:0:198,0:6838,0:-611,-59.6039,0,-611,-59.6039,-611 2/2:95:0,0,95:0:0:0,95:0,3347:-285.173,-285.173,-285.173,-28.5979,-28.5979,0 1/2:286:0,141,143:0:0:141,143:4958,5011:-801.02,-398.15,-355.705,-402.97,0,-359.922 1/2:8:0,5,3:0:0:5,3:176,101:-22.5456,-8.22101,-6.71586,-14.6601,0,-13.757 1/2:4:0,3,1:0:0:3,1:106,30:-11.2906,-2.63514,-1.73205,-8.96377,0,-8.66274 1/2:30:0,19,11:0:0:19,11:678,390:-85.4972,-30.4192,-24.6996,-55.4219,0,-52.1106 1/2:74:0,23,50:0:0:23,50:803,1773:-204.564,-139.295,-132.371,-65.2989,0,-50.2474 1/1:104:0,102,0:0:0:102,0:3550,0:-318.401,-30.7051,0,-318.401,-30.7051,-318.401 1/1:194:0,189,0:0:0:189,0:6562,0:-589.162,-56.8947,0,-589.162,-56.8947,-589.162 1/1:48:0,47,1:0:0:47,1:1627,36:-146.007,-14.1484,0,-143.125,-10.9133,-142.824 1/1:69:0,69,0:0:0:69,0:2407,0:-216.494,-20.7711,0,-216.494,-20.7711,-216.494 1/2:61:0,28,33:0:0:28,33:987,1150:-168.887,-88.6646,-80.2358,-80.5643,0,-70.6303 1/2:63:0,41,22:0:0:41,22:1430,759:-176.082,-60.3143,-47.972,-116.108,0,-109.486 1/1:94:0,93,0:0:0:93,0:3306,0:-296.735,-27.9958,0,-296.735,-27.9958,-296.735 1/1:56:0,56,0:0:0:56,0:1954,0:-174.833,-16.8577,0,-174.833,-16.8577,-174.833 chr08 28648433 . T C 68036.4 PASS AB=0.660112;ABP=240.823;AC=33;AF=0.785714;AN=42;AO=3154;CIGAR=1X;DP=3590;DPB=3590;DPRA=3.40192;EPP=6851.83;EPPR=947.601;GTI=2;LEN=1;MEANALT=1;MQM=59.9841;MQMR=59.9954;NS=21;NUMALT=1;ODDS=13.9147;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=111905;QR=15203;RO=435;RPL=0;RPP=6851.83;RPPR=947.601;RPR=3154;RUN=1;SAF=3154;SAP=6851.83;SAR=0;SRF=435;SRP=947.601;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:26,59:26:891:59:2096:-163.322,0,-54.9117 1/1:55:4,51:4:135:51:1824:-151.959,-4.07414,0 0/1:80:41,39:41:1439:39:1377:-100.144,0,-105.723 0/1:187:101,86:101:3524:86:3072:-220.417,0,-261.083 1/1:333:1,332:1:36:332:11777:-1056.14,-96.6447,0 1/1:44:0,44:0:0:44:1518:-136.908,-13.2453,0 1/1:208:0,208:0:0:208:7255:-653.024,-62.6142,0 0/0:52:51,0:51:1784:0:0:0,-15.3525,-160.522 0/1:148:59,89:59:2096:89:3152:-239.356,0,-144.357 1/1:186:1,185:1:32:185:6601:-590.973,-52.7923,0 1/1:369:2,367:2:72:367:13005:-1163.44,-104.243,0 1/1:680:13,667:13:444:667:23910:-2110.92,-164.414,0 0/1:104:56,48:56:1972:48:1692:-121.259,0,-146.448 1/1:108:0,108:0:0:108:3849:-346.606,-32.5112,0 1/1:103:0,103:0:0:103:3602:-324.39,-31.0061,0 1/1:132:0,132:0:0:132:4660:-419.569,-39.736,0 1/1:85:0,85:0:0:85:3028:-272.752,-25.5876,0 0/1:385:51,334:51:1779:334:11849:-950.388,0,-44.4955 0/1:79:29,50:29:999:50:1757:-134.63,0,-66.4377 1/1:93:0,93:0:0:93:3261:-293.712,-27.9958,0 1/1:74:0,74:0:0:74:2620:-236.046,-22.2762,0 chr08 28656243 . G A 14197 PASS AB=0.379377;ABP=67.9686;AC=28;AF=0.666667;AN=42;AO=686;CIGAR=1X;DP=1063;DPB=1063;DPRA=2.04656;EPP=1440.98;EPPR=3.01606;GTI=0;LEN=1;MEANALT=1;MQM=59.8776;MQMR=60;NS=21;NUMALT=1;ODDS=2.40367;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24457;QR=13394;RO=377;RPL=680;RPP=1440.98;RPPR=804.376;RPR=6;RUN=1;SAF=0;SAP=1492.64;SAR=686;SRF=186;SRP=3.1543;SRR=191;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:36,27:36:1255:27:946:-66.4869,0,-94.2838 0/1:48:30,18:30:1067:18:640:-43.4799,0,-81.8918 0/1:40:18,22:18:648:22:792:-59.5645,0,-46.6107 0/1:37:22,15:22:783:15:540:-37.7984,0,-59.6548 1/1:92:4,88:4:140:88:3122:-268.157,-14.7502,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 1/1:51:1,50:1:36:50:1800:-158.684,-11.7543,0 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/1:84:45,39:45:1579:39:1391:-100.202,0,-117.11 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:16:9,7:9:320:7:252:-18.2125,0,-24.3259 0/1:51:32,19:32:1140:19:661:-44.4591,0,-87.5567 1/1:42:0,42:0:0:42:1500:-135.294,-12.6433,0 1/1:134:1,133:1:32:133:4722:-421.307,-37.1387,0 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 1/1:28:0,28:0:0:28:999:-90.2245,-8.42884,0 0/1:104:77,27:77:2742:27:968:-56.1302,0,-215.715 0/1:67:47,20:47:1680:20:716:-44.5987,0,-131.318 1/1:56:0,56:0:0:56:2008:-180.993,-16.8577,0 1/1:25:0,25:0:0:25:892:-80.5991,-7.52575,0 chr08 28906750 . T C 65541.9 PASS AB=0.567433;ABP=82.0814;AC=16;AF=0.380952;AN=42;AO=3209;CIGAR=1X;DP=6085;DPB=6085;DPRA=1.40288;EPP=6971.27;EPPR=6241.65;GTI=1;LEN=1;MEANALT=1.11765;MQM=59.9551;MQMR=59.9802;NS=21;NUMALT=1;ODDS=38.5587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=114718;QR=102117;RO=2873;RPL=3209;RPP=6971.27;RPPR=6241.65;RPR=0;RUN=1;SAF=0;SAP=6971.27;SAR=3209;SRF=0;SRP=6241.65;SRR=2873;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:169:79,90:79:2832:90:3190:-236.448,0,-204.244 0/1:182:82,100:82:2925:100:3576:-267.26,0,-208.696 0/1:311:126,185:126:4516:185:6629:-503.066,0,-312.987 0/1:296:151,145:151:5389:145:5163:-375.703,0,-396.032 0/0:207:205,2:205:7309:2:72:0,-55.4765,-650.945 0/0:230:226,4:226:8012:4:144:0,-55.9233,-707.791 0/0:287:287,0:287:10230:0:0:0,-86.3956,-920.631 1/1:228:0,228:0:0:228:8142:-732.791,-68.6348,0 0/1:282:163,119:163:5829:119:4280:-300.482,0,-439.831 1/1:588:9,578:9:320:578:20686:-1832.07,-147.922,0 1/1:811:9,800:9:320:800:28557:-2539.51,-214.75,0 1/1:482:29,453:29:1040:453:16195:-1363.31,-51.1821,0 0/1:260:127,133:127:4537:133:4772:-351.368,0,-330.228 0/0:242:240,2:240:8359:2:72:0,-66.0125,-745.492 0/0:315:315,0:315:11200:0:0:0,-94.8244,-1007.89 0/0:176:175,1:175:6231:1:36:0,-49.383,-557.286 0/0:207:207,0:207:7363:0:0:0,-62.3132,-662.709 0/1:424:78,346:78:2777:346:12376:-985.974,0,-122.533 0/1:78:60,18:60:2140:18:648:-35.1715,0,-169.388 0/0:245:240,5:240:8486:5:180:0,-57.2003,-747.191 0/0:65:65,0:65:2302:0:0:0,-19.5669,-207.438 chr08 28925716 . TTAT CTAC,TTAC 34387.4 PASS AB=0.492578,0.519663;ABP=3.36489,5.40136;AC=28,13;AF=0.666667,0.309524;AN=42;AO=1166,447;CIGAR=1X2M1X,3M1X;DP=1623;DPB=1623;DPRA=1.12609,1.28269;EPP=2526.27,973.658;EPPR=11.6962;GTI=2;LEN=4,1;MEANALT=2.05,2.25;MQM=59.6484,59.9418;MQMR=60;NS=21;NUMALT=2;ODDS=5.28375;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41265,15976;QR=142;RO=4;RPL=1,0;RPP=2526.27,973.658;RPPR=11.6962;RPR=1165,447;RUN=1,1;SAF=1166,447;SAP=2534.95,973.658;SAR=0,0;SRF=4;SRP=11.6962;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:88:0,42,46:0:0:42,46:1486,1653:-256.238,-135.211,-122.568,-121.383,0,-107.536 1/2:79:0,33,46:0:0:33,46:1176,1643:-230.105,-134.302,-124.368,-96.1593,0,-82.3119 1/2:110:0,53,57:0:0:53,57:1863,2027:-317.162,-165.525,-149.57,-151.99,0,-134.832 1/2:101:0,39,62:0:0:39,62:1384,2201:-292.449,-179.69,-167.95,-113.113,0,-94.4496 1/1:201:0,198,2:0:0:198,2:7030,72:-632.256,-59.6039,0,-626.381,-53.7291,-625.779 0/1:29:4,25,0:4:142:25,0:894,0:-72.0338,0,-4.3994,-73.2379,-11.9252,-84.8079 1/1:61:0,61,0:0:0:61,0:2160,0:-194.658,-18.3628,0,-194.658,-18.3628,-194.658 2/2:69:0,0,69:0:0:0,69:0,2472:-222.734,-222.734,-222.734,-20.7711,-20.7711,0 1/2:66:0,22,43:0:0:22,43:768,1528:-187.116,-124.65,-118.027,-62.5949,0,-49.6506 1/2:6:0,5,1:0:0:5,1:179,36:-17.893,-3.29724,-1.79209,-14.9552,0,-14.6542 1/2:9:0,3,6:0:0:3,6:105,216:-26.5242,-17.9843,-17.0812,-8.893,0,-7.08682 1/2:17:0,5,12:0:0:5,12:180,432:-50.2959,-35.6088,-34.1037,-15.0469,0,-11.4346 1/2:53:0,33,20:0:0:33,20:1163,720:-153.784,-59.1066,-49.1726,-95.0342,0,-89.0136 1/1:67:0,65,1:0:0:65,1:2293,36:-206.299,-19.567,0,-203.362,-16.5992,-203.061 1/1:227:0,224,3:0:0:224,3:7919,108:-712.23,-67.4307,0,-703.418,-58.2586,-702.515 1/1:78:0,78,0:0:0:78,0:2757,0:-248.371,-23.4803,0,-248.371,-23.4803,-248.371 1/1:80:0,79,0:0:0:79,0:2776,0:-249.862,-23.7814,0,-249.862,-23.7814,-249.862 1/2:123:0,60,62:0:0:60,62:2142,2224:-356.05,-181.44,-163.378,-174.647,0,-155.983 1/2:60:0,45,15:0:0:45,15:1569,536:-171.569,-44.0594,-30.513,-127.865,0,-123.349 1/1:58:0,55,2:0:0:55,2:1951,72:-175.524,-16.5567,0,-169.649,-10.5702,-169.047 1/1:41:0,41,0:0:0:41,0:1470,0:-132.54,-12.3422,0,-132.54,-12.3422,-132.54 chr08 29108822 . GGACGT GGATGT,GGATGC 91294.6 PASS AB=0.653763,0.267853;ABP=857.106,1949.85;AC=24,18;AF=0.571429,0.428571;AN=42;AO=3024,1143;CIGAR=3M1X2M,3M1X1M1X;DP=4498;DPB=4507.5;DPRA=0,0;EPP=252.974,87.5913;EPPR=0;GTI=3;LEN=1,6;MEANALT=3.38095,3.38095;MQM=42.6792,43.0087;MQMR=0;NS=21;NUMALT=2;ODDS=1.89403;PAIRED=0,0;PAIREDR=0;PAO=14.25,0;PQA=491,0;PQR=491;PRO=14.25;QA=97928,39761;QR=0;RO=0;RPL=6,0;RPP=6517.53,2485;RPPR=0;RPR=3018,1143;RUN=1,1;SAF=1223,466;SAP=242.909,87.5913;SAR=1801,677;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:82:0,49,32:0:0:49,32:1748,1104:-228.033,-86.2966,-71.5462,-141.728,0,-132.095 1/2:58:0,49,7:0:0:49,7:1745,240:-160.483,-18.7697,-4.01928,-141.706,0,-139.599 1/2:28:0,19,9:0:0:19,9:676,316:-80.8508,-25.8817,-20.1622,-55.3197,0,-52.6104 1/2:95:0,40,55:0:0:40,55:1397,1863:-261.949,-149.296,-137.255,-112.994,0,-96.437 1/2:440:0,227,158:0:0:227,158:6947,5538:-919.784,-405.408,-337.075,-514.359,0,-466.796 1/2:174:0,117,47:0:0:117,47:3645,1622:-399.565,-128.279,-93.0586,-271.36,0,-257.212 1/2:283:0,213,52:0:0:213,52:6282,1779:-594.73,-138.548,-74.4281,-456.241,0,-440.587 1/2:562:0,383,97:0:0:383,97:11797,3369:-1089.92,-219.24,-103.946,-870.675,0,-841.475 1/2:254:0,204,31:0:0:204,31:6291,1096:-545.069,-78.1315,-16.7213,-466.974,0,-457.642 1/1:138:0,120,13:0:0:120,13:4091,458:-359.981,-36.1236,0,-330.929,-7.11662,-327.015 1/1:80:0,73,7:0:0:73,7:2620,239:-234.928,-21.9752,0,-216.106,-2.81928,-213.999 1/1:121:0,112,9:0:0:112,9:4018,322:-360.307,-33.7154,0,-334.672,-7.73036,-331.963 1/2:259:0,147,72:0:0:147,72:4584,2510:-530.007,-184.642,-140.391,-345.364,0,-323.69 1/2:57:0,30,27:0:0:30,27:1061,957:-163.274,-77.127,-68.0961,-86.4981,0,-78.3703 1/2:83:0,40,42:0:0:40,42:1420,1479:-234.349,-118.644,-106.603,-115.697,0,-103.053 1/2:17:0,14,3:0:0:14,3:486,108:-47.8639,-8.92186,-4.70744,-39.2915,0,-38.3884 1/2:39:0,24,15:0:0:24,15:860,538:-112.433,-42.3733,-35.1486,-70.4098,0,-65.8943 1/2:1058:0,806,199:0:0:806,199:26412,6870:-2545.05,-491.923,-249.293,-2053.15,0,-1993.25 1/2:367:0,214,110:0:0:214,110:6814,3863:-798.652,-278.951,-214.53,-519.699,0,-486.585 1/2:102:0,48,54:0:0:48,54:1669,1856:-282.328,-147.167,-132.718,-135.502,0,-119.247 1/2:201:0,95,104:0:0:95,104:3365,3634:-560.489,-286.367,-257.769,-274.13,0,-242.823 chr08 29108841 . A G 10550.9 PASS AB=0.328504;ABP=1025.62;AC=9;AF=0.214286;AN=42;AO=1324;CIGAR=1X;DP=5007;DPB=5007;DPRA=2.94357;EPP=2878.04;EPPR=6679.11;GTI=1;LEN=1;MEANALT=1;MQM=31.8814;MQMR=47.8219;NS=21;NUMALT=1;ODDS=12.9888;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46897;QR=131372;RO=3683;RPL=0;RPP=2878.04;RPPR=6.68995;RPR=1324;RUN=1;SAF=0;SAP=2878.04;SAR=1324;SRF=1951;SRP=31.2878;SRR=1732;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:82:81,1:81:2884:1:36:0,-21.2609,-252.618 0/0:59:59,0:59:2093:0:0:0,-17.7608,-187.628 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.3679 0/0:95:92,3:92:3285:3:99:0,-21.5115,-286.014 0/1:485:320,165:320:11456:165:5864:-297.874,0,-779.801 0/1:214:134,80:134:4793:80:2848:-151.17,0,-327.592 0/1:376:223,153:223:7964:153:5436:-285.419,0,-517.959 0/1:629:326,303:326:11637:303:10731:-613.355,0,-726.729 0/1:353:212,141:212:7572:141:4981:-272.623,0,-509.185 0/1:142:109,33:109:3901:33:1153:-40.5487,0,-298.136 0/0:82:82,0:82:2940:0:0:0,-24.6845,-263.481 0/0:123:123,0:123:4397:0:0:0,-37.0267,-393.776 0/1:282:194,88:194:6920:88:3124:-146.951,0,-487.095 0/0:61:60,1:60:2137:1:36:0,-15.8959,-188.937 0/0:81:81,0:81:2904:0:0:0,-24.3834,-260.082 0/0:18:17,1:17:608:1:36:0,-3.23539,-52.1158 0/0:44:43,1:43:1548:1:36:0,-9.85772,-134.348 0/1:1132:886,246:886:31606:246:8687:-287.412,0,-2308.9 0/1:390:284,106:284:10085:106:3758:-173.009,0,-707.14 0/0:105:103,2:103:3582:2:72:0,-27.2783,-314.094 0/0:226:226,0:226:8056:0:0:0,-68.0328,-711.517 chr08 29108851 . CTGAGATTACAGTG CAGAGGTTAGAGTG,CAGAGATTACAGTG 105364 PASS AB=0.600853,0.28777;ABP=334.574,1471.28;AC=17,25;AF=0.404762,0.595238;AN=42;AO=2931,1655;CIGAR=1M1X3M1X3M1X4M,1M1X12M;DP=5079;DPB=5078.86;DPRA=1.6592,0;EPP=559.91,13.8755;EPPR=5.18177;GTI=5;LEN=14,1;MEANALT=4.68421,4.52381;MQM=39.638,55.1595;MQMR=60;NS=21;NUMALT=2;ODDS=9.62827;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=93286,59193;QR=36;RO=1;RPL=2927,1606;RPP=6332.9,3183.79;RPPR=5.18177;RPR=4,49;RUN=1,1;SAF=1028,733;SAP=570.234,49.8787;SAR=1903,922;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:84:0,42,41:0:0:42,41:1446,1476:-235.567,-119.301,-106.658,-116.285,0,-103.943 1/2:57:0,27,30:0:0:27,30:941,1068:-162.188,-86.4347,-78.3069,-76.1018,0,-67.0709 1/2:28:0,11,17:0:0:11,17:382,612:-81.0477,-50.1077,-46.7964,-31.2909,0,-26.1734 1/2:96:0,25,70:0:0:25,70:857,2513:-271.127,-202.477,-194.951,-68.6433,0,-47.5712 1/2:488:0,239,179:0:0:239,179:7300,6386:-1057.93,-517.059,-445.113,-540.916,0,-487.031 1/2:213:0,104,84:0:0:104,84:3153,3004:-475.547,-243.616,-212.309,-231.987,0,-206.701 1/2:386:0,204,112:0:0:204,112:6155,4003:-776.49,-323.979,-262.569,-452.554,0,-418.838 1/1:652:0,537,55:0:0:537,55:16679,1971:-1410.48,-161.653,0,-1249.72,-0.845728,-1233.17 1/2:362:0,233,82:0:0:233,82:7317,2936:-788.332,-237.846,-167.706,-550.535,0,-525.851 1/1:148:0,132,11:0:0:132,11:4347,396:-380.389,-39.736,0,-348.274,-7.55389,-344.962 1/2:83:0,72,10:0:0:72,10:2520,360:-233.334,-28.8151,-7.14094,-204.531,0,-201.521 1/2:123:0,104,18:0:0:104,18:3641,640:-347.078,-51.7887,-20.4816,-295.318,0,-289.9 1/2:288:0,185,70:0:0:185,70:5833,2516:-646.776,-204.215,-148.525,-442.613,0,-421.541 2/2:60:0,1,59:0:0:1,59:25,2107:-188.487,-186.811,-186.51,-17.7608,-15.8621,0 2/2:81:0,0,81:0:0:0,81:0,2907:-260.352,-260.352,-260.352,-24.3834,-24.3834,0 2/2:19:0,2,17:0:0:2,17:58,597:-53.5016,-49.1804,-48.5783,-5.11751,-0.514416,0 2/2:44:0,1,43:0:0:1,43:35,1538:-136.822,-134.133,-133.831,-12.9443,-9.92171,0 1/2:1147:1,808,216:1:36:808,216:26259,7702:-2656.6,-617.863,-377.569,-2036.16,0,-1974.07 1/2:398:0,201,151:0:0:201,151:6257,5395:-908.068,-436.353,-375.846,-471.768,0,-426.313 2/2:100:0,3,96:0:0:3,96:81,3424:-304.73,-298.924,-298.021,-28.8989,-23.0901,0 2/2:222:0,0,213:0:0:0,213:0,7642:-679.867,-679.867,-679.867,-64.1194,-64.1194,0 chr08 29229162 . A G 34288.7 PASS AB=0.522115;ABP=7.42841;AC=30;AF=0.714286;AN=42;AO=1722;CIGAR=1X;DP=2348;DPB=2348;DPRA=0.881746;EPP=3742.29;EPPR=1358.01;GTI=0;LEN=1;MEANALT=1.1;MQM=40.8891;MQMR=53.5529;NS=21;NUMALT=1;ODDS=15.7347;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61516;QR=22255;RO=624;RPL=1722;RPP=3742.29;RPPR=1358.01;RPR=0;RUN=1;SAF=0;SAP=3742.29;SAR=1722;SRF=0;SRP=1358.01;SRR=624;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:192:108,84:108:3815:84:3016:-202.726,0,-284.835 0/1:107:58,49:58:2042:49:1731:-115.305,0,-151.295 0/1:114:67,47:67:2404:47:1672:-110.919,0,-180.663 0/1:130:49,81:49:1764:81:2908:-213.234,0,-119.268 1/1:250:1,249:1:36:249:8885:-762.537,-71.6643,0 1/1:134:0,134:0:0:134:4785:-416.492,-40.338,0 1/1:161:0,160:0:0:160:5711:-495.383,-48.1648,0 0/0:126:126,0:126:4501:0:0:0,-37.9298,-404.221 0/1:199:101,98:101:3609:98:3495:-241.532,0,-264.183 0/1:11:7,4:7:252:4:140:-9.22393,0,-19.6099 1/1:6:0,6:0:0:6:205:-17.598,-1.80618,0 0/1:34:17,17:17:608:17:612:-43.108,0,-44.3422 0/1:113:42,70:42:1504:70:2508:-181.213,0,-101.118 1/1:140:0,140:0:0:140:5016:-434.876,-42.1442,0 1/1:179:0,179:0:0:179:6403:-554.117,-53.8844,0 1/1:82:0,82:0:0:82:2939:-254.66,-24.6845,0 1/1:99:0,99:0:0:99:3544:-307.011,-29.802,0 0/1:75:27,48:27:968:48:1720:-127.701,0,-64.4138 0/1:65:20,45:20:716:45:1595:-118.515,0,-45.1162 1/1:94:1,93:1:36:93:3308:-285.073,-24.7023,0 1/1:37:0,37:0:0:37:1323:-113.771,-11.1381,0 chr08 29602599 . C T 5998.53 PASS AB=0.393665;ABP=68.125;AC=13;AF=0.309524;AN=42;AO=356;CIGAR=1X;DP=1349;DPB=1349;DPRA=0.939211;EPP=776.054;EPPR=2073.3;GTI=1;LEN=1;MEANALT=1;MQM=59.9888;MQMR=60;NS=21;NUMALT=1;ODDS=2.723;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12714;QR=35239;RO=993;RPL=0;RPP=776.054;RPPR=2073.3;RPR=356;RUN=1;SAF=0;SAP=776.054;SAR=356;SRF=0;SRP=2159.28;SRR=993;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:41,23:41:1448:23:816:-54.4949,0,-111.347 0/1:19:11,8:11:378:8:284:-20.1838,0,-28.6296 0/1:93:56,37:56:1982:37:1321:-91.1951,0,-150.657 0/1:36:28,8:28:1008:8:280:-14.7022,0,-80.1993 0/0:96:96,0:96:3420:0:0:0,-28.8989,-308.015 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.086 0/0:74:74,0:74:2631:0:0:0,-22.2762,-237.037 1/1:94:0,94:0:0:94:3354:-302.076,-28.2968,0 0/1:61:33,28:33:1168:28:1008:-72.6735,0,-87.0644 0/1:18:10,8:10:351:8:284:-20.4848,0,-26.5081 0/1:9:7,2:7:237:2:72:-4.12745,0,-18.9498 0/1:52:38,14:38:1341:14:504:-30.0445,0,-105.334 0/1:70:42,28:42:1499:28:992:-68.5223,0,-114.132 0/0:64:64,0:64:2275:0:0:0,-19.2659,-205.012 0/0:131:131,0:131:4644:0:0:0,-39.4349,-418.125 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/0:31:31,0:31:1104:0:0:0,-9.33193,-99.6706 0/1:186:97,89:97:3422:89:3191:-231.421,0,-252.205 0/1:55:39,16:39:1392:16:572:-35.2568,0,-109.022 0/0:58:57,1:57:2040:1:36:0,-13.8615,-180.274 0/0:66:66,0:66:2319:0:0:0,-19.868,-208.969 chr08 29602612 . T C 20873.6 PASS AB=0.638535;ABP=107.697;AC=29;AF=0.690476;AN=42;AO=985;CIGAR=1X;DP=1293;DPB=1293;DPRA=0.758125;EPP=2055.93;EPPR=671.824;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.3946;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34933;QR=10811;RO=308;RPL=10;RPP=2055.93;RPPR=671.824;RPR=975;RUN=1;SAF=0;SAP=2141.91;SAR=985;SRF=0;SRP=671.824;SRR=308;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:20,40:20:704:40:1420:-110.035,0,-45.6227 0/1:20:9,11:9:316:11:383:-28.7826,0,-22.7583 0/1:88:32,56:32:1112:56:1987:-152.613,0,-73.8936 0/1:36:8,28:8:280:28:1004:-79.8388,0,-14.7022 1/1:92:0,92:0:0:92:3260:-293.621,-27.6948,0 1/1:47:0,47:0:0:47:1688:-152.207,-14.1484,0 1/1:73:0,73:0:0:73:2603:-234.518,-21.9752,0 0/0:80:80,0:80:2835:0:0:0,-24.0824,-255.39 0/1:60:26,34:26:915:34:1216:-91.6848,0,-64.6038 0/1:15:5,10:5:176:10:360:-28.2289,0,-11.6696 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:52:14,38:14:504:38:1353:-106.417,0,-30.0445 0/1:68:24,44:24:851:44:1541:-118.51,0,-56.4394 1/1:64:0,64:0:0:64:2271:-204.652,-19.2659,0 1/1:129:0,129:0:0:129:4598:-413.984,-38.8329,0 1/1:24:0,24:0:0:24:829:-74.9242,-7.22472,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:171:75,96:75:2601:96:3364:-251.504,0,-182.865 0/1:50:12,38:12:409:38:1322:-104.224,0,-22.0839 1/1:58:0,58:0:0:58:2071:-186.66,-17.4597,0 1/1:67:1,66:1:36:66:2335:-206.812,-16.5707,0 chr08 29602615 . T A 6125.62 PASS AB=0.408736;ABP=49.3836;AC=13;AF=0.309524;AN=42;AO=358;CIGAR=1X;DP=1295;DPB=1295;DPRA=0.968955;EPP=780.397;EPPR=1949.58;GTI=1;LEN=1;MEANALT=1;MQM=59.9888;MQMR=60;NS=21;NUMALT=1;ODDS=0.72512;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12793;QR=33199;RO=936;RPL=0;RPP=780.397;RPPR=1949.58;RPR=358;RUN=1;SAF=0;SAP=780.397;SAR=358;SRF=0;SRP=2035.51;SRR=936;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:35,25:35:1244:25:878:-61.2738,0,-94.2029 0/1:19:10,9:10:360:9:315:-22.9677,0,-27.0247 0/1:92:55,37:55:1964:37:1331:-92.3977,0,-149.341 0/1:36:28,8:28:1004:8:275:-14.2464,0,-79.8388 0/0:93:92,0:92:3252:0:0:0,-27.6948,-292.644 0/0:44:44,0:44:1564:0:0:0,-13.2453,-141.052 0/0:66:66,0:66:2356:0:0:0,-19.868,-212.299 1/1:95:0,95:0:0:95:3403:-306.484,-28.5979,0 0/1:62:34,28:34:1220:28:1008:-72.3725,0,-91.4429 0/1:16:8,8:8:284:8:288:-21.4509,0,-21.0869 0/1:9:7,2:7:248:2:72:-4.12745,0,-19.9549 0/1:48:34,14:34:1196:14:504:-31.2487,0,-93.4959 0/1:68:41,27:41:1441:27:968:-66.9673,0,-109.514 0/0:60:60,0:60:2132:0:0:0,-18.0618,-192.149 0/0:124:124,0:124:4377:0:0:0,-37.3277,-394.109 0/0:24:24,0:24:856:0:0:0,-7.22472,-77.3611 0/0:30:30,0:30:1057:0:0:0,-9.0309,-95.439 0/1:183:94,89:94:3327:89:3175:-230.885,0,-244.562 0/1:48:33,15:33:1157:15:540:-34.4871,0,-89.985 0/0:56:55,1:55:1944:1:36:0,-13.2594,-171.638 0/0:62:62,0:62:2216:0:0:0,-18.6639,-199.705 chr08 29602638 . A C 20556.4 PASS AB=0.606241;ABP=68.9902;AC=29;AF=0.690476;AN=42;AO=986;CIGAR=1X;DP=1346;DPB=1346;DPRA=0.673656;EPP=2144.08;EPPR=784.74;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9889;NS=21;NUMALT=1;ODDS=3.14107;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35251;QR=12898;RO=360;RPL=986;RPP=2144.08;RPPR=784.74;RPR=0;RUN=1;SAF=0;SAP=2144.08;SAR=986;SRF=0;SRP=784.74;SRR=360;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:25,40:25:877:40:1440:-110.331,0,-59.6782 0/1:20:9,11:9:324:11:377:-28.2373,0,-23.4853 0/1:96:38,58:38:1368:58:2083:-158.841,0,-94.5219 0/1:37:8,29:8:288:29:1021:-81.0621,0,-15.1293 1/1:95:0,95:0:0:95:3340:-300.815,-28.5979,0 1/1:48:0,48:0:0:48:1709:-154.094,-14.4494,0 1/1:68:0,68:0:0:68:2448:-220.574,-20.47,0 0/0:93:93,0:93:3340:0:0:0,-27.9958,-300.816 0/1:64:29,35:29:1044:35:1260:-94.4396,0,-75.0089 0/1:17:7,10:7:237:10:360:-27.6268,0,-16.5415 0/1:9:2,7:2:68:7:252:-20.3197,0,-3.74844 0/1:51:14,37:14:504:37:1332:-104.83,0,-30.3456 0/1:73:28,45:28:1008:45:1620:-124.115,0,-69.0612 1/1:63:0,63:0:0:63:2242:-202.042,-18.9649,0 1/1:131:0,131:0:0:131:4697:-422.887,-39.4349,0 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 0/1:186:89,97:89:3192:97:3480:-257.419,0,-231.512 0/1:55:16,39:16:576:39:1374:-107.399,0,-35.6183 1/1:61:1,60:1:36:60:2152:-190.349,-14.7646,0 1/1:65:1,64:1:36:64:2300:-203.662,-15.9687,0 chr08 29893300 . GTCG GTCA,ATCA 31211.7 PASS AB=0.556671,0.439024;ABP=22.4539,25.5195;AC=29,13;AF=0.690476,0.309524;AN=42;AO=876,373;CIGAR=3M1X,1X2M1X;DP=1261;DPB=1260.75;DPRA=0.935156,1.12082;EPP=725.843,449.699;EPPR=20.3821;GTI=0;LEN=1,4;MEANALT=1.85,2.14286;MQM=60,59.9035;MQMR=60;NS=21;NUMALT=2;ODDS=9.2145;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31272,13267;QR=278;RO=8;RPL=169,48;RPP=720.498,449.699;RPPR=20.3821;RPR=707,325;RUN=1,1;SAF=1,0;SAP=1896.54,812.97;SAR=875,373;SRF=0;SRP=20.3821;SRR=8;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:68:0,34,34:0:0:34,34:1212,1217:-198.396,-99.6017,-89.3667,-99.1513,0,-88.9163 1/2:60:0,27,32:0:0:27,32:964,1151:-172.606,-94.0139,-85.8861,-78.6952,0,-69.0622 1/2:71:0,43,27:0:0:43,27:1540,968:-204.541,-78.9501,-66.0058,-125.589,0,-117.461 1/2:51:0,27,24:0:0:27,24:960,843:-147.198,-68.9631,-60.8353,-78.5885,0,-71.3637 1/2:67:0,35,32:0:0:35,32:1256,1143:-195.998,-93.5463,-83.0102,-102.809,0,-93.1763 1/1:34:0,32,2:0:0:32,2:1143,72:-102.819,-9.63296,0,-96.944,-3.3983,-96.342 1/1:100:7,92,0:7:246:92,0:3299,0:-274.645,-7.67916,0,-276.752,-27.6948,-296.775 2/2:64:0,0,64:0:0:0,64:0,2275:-205.007,-205.007,-205.007,-19.2659,-19.2659,0 1/2:136:0,89,46:0:0:89,46:3174,1632:-391.809,-133.069,-106.277,-258.843,0,-244.995 1/2:6:0,3,3:0:0:3,3:100,106:-17.0702,-8.98601,-8.08292,-8.42735,0,-7.52426 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:26:0,14,12:0:0:14,12:500,422:-75.4703,-34.7026,-30.4882,-41.1218,0,-37.5094 1/1:78:0,78,0:0:0:78,0:2756,0:-248.281,-23.4803,0,-248.281,-23.4803,-248.281 1/2:68:0,37,31:0:0:37,31:1332,1089:-197.628,-88.9392,-77.8011,-109.044,0,-99.7123 1/1:72:1,71,0:1:32:71,0:2536,0:-225.29,-18.4748,0,-225.591,-21.3731,-228.169 1/1:29:0,29,0:0:0:29,0:1040,0:-93.9144,-8.72987,0,-93.9144,-8.72987,-93.9144 1/1:40:0,40,0:0:0:40,0:1436,0:-129.538,-12.0412,0,-129.538,-12.0412,-129.538 1/2:81:0,42,39:0:0:42,39:1512,1379:-236.042,-112.667,-100.024,-123.731,0,-111.991 1/2:63:0,37,26:0:0:37,26:1319,934:-184.068,-76.5526,-65.4144,-107.873,0,-100.046 1/1:77:0,76,1:0:0:76,1:2703,36:-243.155,-22.8783,0,-240.217,-19.581,-239.916 1/1:66:0,66,0:0:0:66,0:2346,0:-211.398,-19.868,0,-211.398,-19.868,-211.398 chr08 29909186 . CCATTG CTATTA,TTATTA 52736.6 PASS AB=0.552469,0.44213;ABP=34.0007,40.7095;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1783,739;CIGAR=1M1X3M1X,2X3M1X;DP=2535;DPB=2535;DPRA=0.74717,1.33446;EPP=3866.06,1607.73;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.4,2.5;MQM=59.6427,45.9364;MQMR=0;NS=21;NUMALT=2;ODDS=6.95258;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62947,26039;QR=0;RO=0;RPL=1782,739;RPP=3866.06,1607.73;RPPR=0;RPR=1,0;RUN=1,1;SAF=1783,739;SAP=3874.75,1607.73;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:328:0,187,138:0:0:187,138:6623,4867:-930.101,-390.629,-334.337,-539.525,0,-497.983 1/2:157:0,92,64:0:0:92,64:3259,2254:-444.532,-179.102,-151.407,-265.419,0,-246.153 1/2:98:0,52,45:0:0:52,45:1833,1600:-277.915,-128.67,-113.017,-149.268,0,-135.721 1/2:121:0,56,64:0:0:56,64:1990,2260:-344.025,-181.896,-165.039,-162.189,0,-142.924 1/2:214:0,114,100:0:0:114,100:4038,3488:-607.824,-279.037,-244.72,-329.135,0,-299.032 1/1:91:0,89,2:0:0:89,2:3137,70:-282.19,-26.7917,0,-276.585,-20.8415,-275.983 1/1:184:0,183,0:0:0:183,0:6447,0:-578.804,-55.0885,0,-578.804,-55.0885,-578.804 2/2:159:0,0,159:0:0:0,159:0,5600:-498.327,-498.327,-498.327,-47.8638,-47.8638,0 1/2:85:0,56,29:0:0:56,29:1990,1024:-244.474,-82.309,-65.4513,-162.516,0,-153.786 1/2:5:0,2,3:0:0:2,3:72,101:-14.3403,-8.45526,-7.8532,-6.23466,0,-5.33157 1/1:5:0,5,0:0:0:5,0:180,0:-16.5505,-1.50515,0,-16.5505,-1.50515,-16.5505 1/2:26:0,11,15:0:0:11,15:391,530:-74.2958,-42.4289,-39.1175,-32.2179,0,-27.7025 1/1:87:0,86,0:0:0:86,0:3024,0:-271.825,-25.8886,0,-271.825,-25.8886,-271.825 1/2:108:0,53,55:0:0:53,55:1867,1932:-307.493,-155.518,-139.563,-152.325,0,-135.768 1/1:279:0,277,1:0:0:277,1:9731,36:-874.454,-83.3853,0,-871.545,-80.4778,-871.244 1/1:148:0,146,1:0:0:146,1:5152,36:-462.794,-43.9504,0,-459.892,-40.9807,-459.591 1/1:152:0,150,0:0:0:150,0:5287,0:-475.705,-45.1545,0,-475.705,-45.1545,-475.705 1/2:82:0,44,38:0:0:44,38:1543,1346:-233.863,-108.297,-95.0519,-125.915,0,-114.476 1/2:72:0,49,22:0:0:49,22:1740,791:-204.905,-63.1236,-48.3731,-141.833,0,-135.21 1/1:81:0,78,3:0:0:78,3:2752,104:-247.578,-23.4803,0,-239.19,-14.7483,-238.287 1/1:53:0,53,0:0:0:53,0:1891,0:-170.398,-15.9546,0,-170.398,-15.9546,-170.398 chr08 29909207 . A G 27362.5 PASS AB=0.444206;ABP=66.011;AC=13;AF=0.309524;AN=42;AO=1295;CIGAR=1X;DP=4613;DPB=4613;DPRA=1.91126;EPP=2815.07;EPPR=7205.78;GTI=0;LEN=1;MEANALT=1.05556;MQM=40.6973;MQMR=59.7926;NS=21;NUMALT=1;ODDS=30.7166;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45990;QR=118578;RO=3317;RPL=714;RPP=32.6714;RPPR=29.4588;RPR=581;RUN=1;SAF=714;SAP=32.6714;SAR=581;SRF=1759;SRP=29.4588;SRR=1558;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:527:287,240:287:10268:240:8526:-563.353,0,-765.381 0/1:295:158,137:158:5664:137:4884:-321.241,0,-420.799 0/1:175:90,84:90:3227:84:2946:-196.49,0,-237.915 0/1:224:118,106:118:4179:106:3745:-252.205,0,-308.751 0/1:328:188,140:188:6707:140:4983:-326.553,0,-504.968 0/0:172:167,5:167:5965:5:180:0,-36.3138,-521.437 0/0:316:315,1:315:11284:1:36:0,-91.5289,-1009.9 1/1:248:1,247:1:36:247:8819:-752.925,-71.0572,0 0/1:206:135,71:135:4804:71:2531:-152.776,0,-370.504 0/1:15:6,9:6:212:9:320:-22.7768,0,-14.9093 0/0:9:9,0:9:315:0:0:0,-2.70927,-28.6857 0/1:51:34,17:34:1216:17:608:-37.4154,0,-94.394 0/0:212:212,0:212:7565:0:0:0,-63.8184,-680.291 0/1:213:111,102:111:3941:102:3588:-238.531,0,-290.761 0/0:367:366,1:366:13073:1:36:0,-106.911,-1171.41 0/0:273:272,1:272:9738:1:36:0,-78.6226,-872.161 0/0:335:334,1:334:11984:1:36:0,-97.546,-1073.47 0/1:149:78,71:78:2800:71:2508:-167.165,0,-207.383 0/1:147:89,58:89:3187:58:2068:-127.119,0,-242.802 0/0:202:198,4:198:7079:4:140:0,-48.2593,-624.622 0/0:149:149,0:149:5334:0:0:0,-44.8535,-480.089 chr08 29909220 . TCCTTCA TCATTCG,CCATTCG 44208 PASS AB=0.547016,0.449367;ABP=24.246,27.6386;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1605,597;CIGAR=2M1X3M1X,1X1M1X3M1X;DP=2214;DPB=2277.43;DPRA=1.10313,1.05898;EPP=3488.22,1299.38;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.2,2.46667;MQM=59.8511,34.2479;MQMR=0;NS=21;NUMALT=2;ODDS=13.0233;PAIRED=0,0;PAIREDR=0;PAO=0,444;PQA=0,14804;PQR=0;PRO=0;QA=56495,20910;QR=0;RO=0;RPL=0,0;RPP=3488.22,1299.38;RPPR=0;RPR=1605,597;RUN=1,1;SAF=0,0;SAP=3488.22,1299.38;SAR=1605,597;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:212:0,103,109:0:0:103,109:3654,3810:-570.079,-272.366,-241.359,-297.71,0,-264.898 1/2:146:0,70,76:0:0:70,76:2462,2683:-394.695,-194.27,-173.198,-200.76,0,-177.882 1/2:82:0,40,42:0:0:40,42:1395,1473:-218.79,-105.329,-93.2876,-113.456,0,-100.812 1/2:111:0,64,46:0:0:64,46:2246,1620:-299.569,-116.805,-97.5394,-182.758,0,-168.911 1/2:130:0,79,51:0:0:79,51:2777,1775:-354.119,-128.074,-104.292,-226.041,0,-210.688 1/1:83:0,79,3:0:0:79,3:2790,108:-251.041,-23.7814,0,-243.18,-15.8414,-242.277 1/1:146:0,143,0:0:0:143,0:5042,0:-453.613,-43.0473,0,-453.613,-43.0473,-453.613 2/2:96:0,0,95:0:0:0,95:0,3326:-271.202,-271.202,-271.202,-28.5979,-28.5979,0 1/2:124:0,80,42:0:0:80,42:2812,1484:-338.883,-109.949,-85.8661,-228.986,0,-216.342 1/2:10:0,4,6:0:0:4,6:143,208:-27.243,-15.5664,-14.3623,-12.0173,0,-10.2111 1/1:4:0,4,0:0:0:4,0:138,0:-12.76,-1.20412,0,-12.76,-1.20412,-12.76 1/2:28:0,24,3:0:0:24,3:844,108:-76.6007,-7.87254,-0.647822,-68.7418,0,-67.8388 1/1:130:0,130,0:0:0:130,0:4600,0:-413.613,-39.1339,0,-413.613,-39.1339,-413.613 1/2:115:0,64,51:0:0:64,51:2188,1779:-303.607,-126.585,-107.319,-177.013,0,-161.66 1/1:96:0,95,0:0:0:95,0:3355,0:-301.831,-28.5979,0,-301.831,-28.5979,-301.831 1/1:133:0,133,0:0:0:133,0:4709,0:-423.526,-40.037,0,-423.526,-40.037,-423.526 1/1:196:0,193,1:0:0:193,1:6785,36:-610.397,-58.0988,0,-607.729,-55.4074,-607.428 1/2:70:0,35,35:0:0:35,35:1227,1216:-188.225,-88.3609,-77.8249,-100.196,0,-89.6597 1/2:78:0,42,36:0:0:42,36:1476,1248:-208.754,-88.603,-75.9597,-120.139,0,-109.302 1/1:126:0,125,1:0:0:125,1:4413,36:-397.018,-37.6288,0,-394.398,-34.6836,-394.097 1/1:98:0,98,0:0:0:98,0:3439,0:-309.713,-29.5009,0,-309.713,-29.5009,-309.713 chr08 29909238 . A G 8323.92 PASS AB=0.450835;ABP=25.6436;AC=13;AF=0.309524;AN=42;AO=586;CIGAR=1X;DP=2159;DPB=2159;DPRA=1.05632;EPP=1181.74;EPPR=3205.04;GTI=1;LEN=1;MEANALT=1;MQM=34.3208;MQMR=59.8868;NS=21;NUMALT=1;ODDS=12.8651;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20825;QR=56345;RO=1573;RPL=575;RPP=1181.74;RPPR=3205.04;RPR=11;RUN=1;SAF=0;SAP=1275.49;SAR=586;SRF=0;SRP=3418.74;SRR=1573;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:208:104,104:104:3732:104:3673:-231.228,0,-273.466 0/1:141:65,76:65:2316:76:2715:-176.338,0,-166.254 0/1:80:39,41:39:1396:41:1463:-92.6607,0,-101.857 0/1:109:63,46:63:2256:46:1648:-99.362,0,-170.462 0/1:127:78,49:78:2808:49:1725:-100.745,0,-214.728 0/0:81:77,4:77:2772:4:144:0,-12.0479,-237.38 0/0:141:141,0:141:5064:0:0:0,-42.4452,-455.87 1/1:95:1,94:1:36:94:3314:-265.77,-25.0244,0 0/1:119:77,42:77:2738:42:1504:-87.9706,0,-210.84 0/1:10:4,6:4:144:6:208:-14.4357,0,-10.3033 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:28:25,3:25:896:3:108:-0.660405,0,-72.5315 0/0:128:128,0:128:4587:0:0:0,-38.5318,-412.994 0/1:110:61,49:61:2192:49:1752:-105.599,0,-164.432 0/0:95:95,0:95:3386:0:0:0,-28.5978,-304.954 0/0:130:130,0:130:4664:0:0:0,-39.1339,-419.649 0/0:192:191,1:191:6828:1:36:0,-54.4987,-611.05 0/1:69:34,35:34:1190:35:1252:-79.8289,0,-86.6324 0/1:77:42,35:42:1508:35:1247:-75.6164,0,-112.835 0/0:120:119,1:119:4272:1:36:0,-32.8774,-381.393 0/0:95:95,0:95:3420:0:0:0,-28.5978,-307.996 chr08 29982788 . C T 22882.9 PASS AB=0.434146;ABP=41.6201;AC=29;AF=0.690476;AN=42;AO=1132;CIGAR=1X;DP=1839;DPB=1839;DPRA=0.674016;EPP=2461.12;EPPR=1533.9;GTI=1;LEN=1;MEANALT=1.05;MQM=58.97;MQMR=59.8652;NS=21;NUMALT=1;ODDS=4.54885;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40622;QR=25115;RO=705;RPL=1132;RPP=2461.12;RPPR=1533.9;RPR=0;RUN=1;SAF=0;SAP=2461.12;SAR=1132;SRF=0;SRP=1533.9;SRR=705;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:56,28:56:2008:28:1004:-64.7609,0,-155.707 0/1:65:41,24:41:1472:24:864:-57.8165,0,-113.209 0/1:80:59,21:59:2101:21:756:-44.2778,0,-165.189 0/1:102:51,51:51:1820:51:1828:-133.995,0,-133.376 0/1:183:99,84:99:3533:84:3016:-215.115,0,-263.086 1/1:30:0,30:0:0:30:1076:-96.5209,-9.0309,0 1/1:132:0,132:0:0:132:4744:-427.111,-39.736,0 0/0:127:126,0:126:4471:0:0:0,-37.9298,-402.195 0/1:137:64,73:64:2285:73:2608:-192.621,0,-164.669 0/1:29:21,8:21:741:8:288:-17.467,0,-57.8523 1/1:7:0,7:0:0:7:248:-22.6638,-2.10721,0 0/1:41:26,15:26:936:15:536:-36.232,0,-72.2172 1/1:61:0,61:0:0:61:2196:-197.853,-18.3628,0 0/1:82:40,41:40:1383:41:1468:-107.654,0,-99.9718 1/1:247:0,247:0:0:247:8870:-795.899,-74.3544,0 1/1:54:0,54:0:0:54:1936:-173.997,-16.2556,0 1/1:64:0,64:0:0:64:2296:-206.709,-19.2659,0 0/1:149:96,53:96:3448:53:1908:-125.437,0,-265.677 0/1:73:26,47:26:917:47:1688:-129.329,0,-60.8694 1/1:39:0,39:0:0:39:1396:-125.939,-11.7402,0 1/1:53:0,53:0:0:53:1896:-170.159,-15.9546,0 chr08 30067827 . C T 18158.3 PASS AB=0.580696;ABP=38.7571;AC=28;AF=0.666667;AN=42;AO=862;CIGAR=1X;DP=1187;DPB=1187;DPRA=0.955932;EPP=1780.49;EPPR=700.08;GTI=2;LEN=1;MEANALT=1;MQM=59.9745;MQMR=59.9815;NS=21;NUMALT=1;ODDS=4.40849;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30607;QR=11584;RO=325;RPL=11;RPP=1780.49;RPPR=700.08;RPR=851;RUN=1;SAF=862;SAP=1874.82;SAR=0;SRF=325;SRP=708.739;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:24,31:24:864:31:1104:-83.114,0,-61.5259 0/1:41:15,26:15:540:26:932:-71.8566,0,-36.5943 0/1:39:14,25:14:504:25:884:-68.1376,0,-33.9579 0/1:70:31,39:31:1108:39:1370:-102.525,0,-78.9589 0/1:101:40,61:40:1436:61:2168:-164.983,0,-99.1336 1/1:63:0,63:0:0:63:2247:-202.479,-18.9649,0 1/1:105:0,105:0:0:105:3735:-336.352,-31.6082,0 0/0:59:59,0:59:2095:0:0:0,-17.7608,-188.815 0/1:85:47,38:47:1671:38:1343:-95.5818,0,-125.089 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:5:0,5:0:0:5:172:-15.818,-1.50515,0 0/1:15:8,7:8:284:7:252:-18.5135,0,-21.3879 1/1:112:0,112:0:0:112:3973:-357.755,-33.7154,0 0/1:73:37,36:37:1302:36:1288:-94.2484,0,-95.5046 1/1:70:0,70:0:0:70:2475:-223.004,-21.0721,0 1/1:29:0,29:0:0:29:1014:-91.57,-8.72987,0 0/1:24:3,21:3:108:21:756:-61.1402,0,-2.85045 0/1:61:27,34:27:956:34:1204:-90.303,0,-67.9929 0/1:62:18,44:18:648:44:1555:-121.577,0,-39.988 1/1:61:1,60:1:32:60:2144:-190.028,-15.1635,0 1/1:51:0,51:0:0:51:1811:-163.271,-15.3525,0 chr08 30067986 . 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G C 33508.9 PASS AB=0.512649;ABP=4.87802;AC=29;AF=0.690476;AN=42;AO=1632;CIGAR=1X;DP=2418;DPB=2418;DPRA=0.965966;EPP=3512.19;EPPR=1664.36;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9994;MQMR=59.9872;NS=21;NUMALT=1;ODDS=11.5714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58307;QR=27793;RO=781;RPL=4;RPP=3512.19;RPPR=1664.36;RPR=1628;RUN=1;SAF=1632;SAP=3546.85;SAR=0;SRF=781;SRP=1698.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:143:69,74:69:2449:74:2660:-196.598,0,-177.617 0/1:114:54,60:54:1940:60:2156:-159.99,0,-140.559 0/1:135:61,74:61:2173:74:2638:-197.028,0,-155.196 0/1:135:58,75:58:2084:75:2688:-201.787,0,-147.453 0/1:129:55,74:55:1949:74:2625:-197.663,0,-136.846 1/1:146:0,146:0:0:146:5221:-470.027,-43.9504,0 1/1:171:1,169:1:36:169:6047:-540.735,-47.9367,0 0/0:119:119,0:119:4233:0:0:0,-35.8226,-381.148 0/1:310:185,124:185:6561:124:4444:-306.752,0,-497.192 0/1:36:16,20:16:576:20:716:-53.9305,0,-41.3379 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:31:14,17:14:504:17:604:-45.3587,0,-36.3662 1/1:116:0,116:0:0:116:4168:-375.301,-34.9195,0 0/1:134:73,61:73:2590:61:2164:-154.687,0,-193.008 1/1:221:1,219:1:36:219:7825:-700.68,-62.9882,0 1/1:49:0,49:0:0:49:1748:-157.604,-14.7505,0 1/1:66:0,66:0:0:66:2337:-210.589,-19.868,0 0/1:97:43,54:43:1548:54:1923:-144.146,0,-110.413 0/1:80:24,56:24:845:56:1991:-155.382,0,-52.2847 1/1:121:8,113:8:269:113:4020:-337.452,-11.8885,0 1/1:53:0,53:0:0:53:1904:-171.638,-15.9546,0 chr08 30200491 . C T 12240.8 PASS AB=0.508651;ABP=3.76167;AC=13;AF=0.309524;AN=42;AO=708;CIGAR=1X;DP=2083;DPB=2083;DPRA=1.10974;EPP=1540.41;EPPR=2986.61;GTI=0;LEN=1;MEANALT=1;MQM=59.8927;MQMR=59.9782;NS=21;NUMALT=1;ODDS=3.70754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24895;QR=48230;RO=1374;RPL=0;RPP=1540.41;RPPR=2969.27;RPR=708;RUN=1;SAF=0;SAP=1540.41;SAR=708;SRF=2;SRP=2969.27;SRR=1372;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:27,14:27:947:14:495:-32.5408,0,-73.2015 0/1:91:39,52:39:1364:52:1815:-136.234,0,-95.6619 0/1:97:49,48:49:1747:48:1706:-124.626,0,-128.314 0/1:144:64,80:64:2272:80:2792:-208.168,0,-161.395 0/1:217:112,105:112:3920:105:3696:-267.521,0,-287.676 0/0:68:67,1:67:2387:1:32:0,-17.2707,-211.888 0/0:136:135,0:135:4743:0:0:0,-40.639,-426.713 1/1:117:0,117:0:0:117:4138:-372.606,-35.2205,0 0/1:152:71,81:71:2508:81:2839:-209.979,0,-180.217 0/1:10:3,7:3:104:7:231:-18.1029,0,-6.69251 0/0:7:7,0:7:233:0:0:0,-2.10721,-21.2943 0/1:24:15,9:15:528:9:318:-21.736,0,-40.6266 0/0:139:139,0:139:4894:0:0:0,-41.8432,-440.618 0/1:99:32,67:32:1116:67:2335:-180.606,0,-70.9426 0/0:119:119,0:119:4181:0:0:0,-35.8226,-376.476 0/0:82:82,0:82:2887:0:0:0,-24.6845,-259.439 0/0:76:76,0:76:2655:0:0:0,-22.8783,-239.196 0/1:161:76,85:76:2643:85:3003:-221.259,0,-189.652 0/1:120:80,40:80:2781:40:1423:-92.2408,0,-214.408 0/0:95:93,2:93:3243:2:72:0,-21.7611,-285.258 0/0:88:88,0:88:3077:0:0:0,-26.4906,-277.162 chr08 30204944 . TTCGA CTCGA,CTCGG 87599.8 PASS AB=0.534633,0.463828;ABP=23.3156,25.1607;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2343,981;CIGAR=1X4M,1X3M1X;DP=3335;DPB=3440;DPRA=2.26597,2.08881;EPP=5090.77,2133.22;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.2,2.33333;MQM=59.9586,59.9674;MQMR=60;NS=21;NUMALT=2;ODDS=14.9672;PAIRED=0,0;PAIREDR=0;PAO=230.5,231.5;PQA=8068.5,8104.5;PQR=0;PRO=63;QA=82999,33483;QR=35;RO=1;RPL=913,381;RPP=250.731,109.173;RPPR=5.18177;RPR=1430,600;RUN=1,1;SAF=913,381;SAP=250.731,109.173;SAR=1430,600;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:207:0,100,107:0:0:100,107:3558,3674:-588.395,-298.42,-268.317,-290.087,0,-257.877 1/2:95:0,50,45:0:0:50,45:1761,1522:-262.877,-119.552,-104.501,-139.54,0,-125.993 1/2:136:0,65,71:0:0:65,71:2319,2416:-384.721,-195.669,-176.102,-188.746,0,-167.372 1/2:262:0,145,116:0:0:145,116:5131,4005:-742.159,-324.227,-280.577,-416.781,0,-381.861 1/2:467:0,254,212:0:0:254,212:9034,7325:-1331.46,-595.229,-518.768,-736.291,0,-672.473 1/1:114:0,113,0:0:0:113,0:4028,0:-360.442,-34.0164,0,-360.442,-34.0164,-360.442 1/1:127:0,126,0:0:0:126,0:4480,0:-401.144,-37.9298,0,-401.144,-37.9298,-401.144 2/2:72:0,0,72:0:0:0,72:0,2403:-216.402,-216.402,-216.402,-21.6742,-21.6742,0 1/2:204:0,74,130:0:0:74,130:2640,4387:-570.456,-355.236,-332.96,-214.918,0,-175.784 1/2:18:0,13,5:0:0:13,5:459,178:-52.1435,-14.7126,-10.7993,-37.6315,0,-36.1263 1/1:7:0,7,0:0:0:7,0:239,0:-21.5332,-2.10721,0,-21.5332,-2.10721,-21.5332 1/2:45:0,29,16:0:0:29,16:1022,538:-127.045,-43.8022,-35.0723,-83.4553,0,-78.6388 1/1:338:0,335,1:0:0:335,1:11871,36:-1067.42,-100.845,0,-1064.49,-97.9769,-1064.18 1/2:191:0,103,88:0:0:103,88:3594,3039:-538.413,-246.128,-215.122,-291.51,0,-265.019 1/1:279:0,275,2:0:0:275,2:9708,65:-872.939,-82.7833,0,-867.694,-77.9601,-867.091 1/1:118:0,117,0:0:0:117,0:4162,0:-373.895,-35.2205,0,-373.895,-35.2205,-373.895 1/1:84:0,83,0:0:0:83,0:2947,0:-264.837,-24.9855,0,-264.837,-24.9855,-264.837 1/2:144:0,88,56:0:0:88,56:3103,1821:-399.863,-147.159,-120.669,-252.87,0,-236.012 1/2:180:1,121,58:1:35:121,58:4289,2007:-508.945,-159.834,-126.257,-346.15,0,-331.538 1/1:161:0,159,2:0:0:159,2:5633,67:-506.975,-47.8638,0,-501.55,-42.406,-500.947 1/1:86:0,86,0:0:0:86,0:3021,0:-268.079,-25.8886,0,-268.079,-25.8886,-268.079 chr08 30220924 . AATA CATC,CATT 44881.7 PASS AB=0.488636,0.503247;ABP=4.39215,3.1231;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1455,749;CIGAR=1X2M1X,1X2M1X;DP=2216;DPB=2216;DPRA=0.829365,1.59452;EPP=2841.06,1186.8;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.15,2.5;MQM=39.8619,35.8611;MQMR=0;NS=21;NUMALT=2;ODDS=1.66778;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51606,26407;QR=0;RO=0;RPL=38,55;RPP=2841.06,1186.8;RPPR=0;RPR=1417,694;RUN=1,1;SAF=1455,749;SAP=3162.5,1629.44;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:131:0,63,68:0:0:63,68:2235,2414:-345.908,-174.657,-155.692,-171.579,0,-151.109 1/2:91:0,42,48:0:0:42,48:1484,1681:-235.444,-118.985,-106.342,-116.435,0,-101.986 1/2:100:0,47,52:0:0:47,52:1666,1841:-258.024,-132.146,-117.998,-125.843,0,-110.19 1/2:86:0,32,53:0:0:32,53:1133,1876:-223.016,-135.635,-126.002,-87.4191,0,-71.4646 1/2:160:0,62,97:0:0:62,97:2211,3389:-414.059,-244.245,-225.581,-169.912,0,-140.712 1/1:68:0,68,0:0:0:68,0:2424,0:-210.79,-20.47,0,-210.79,-20.47,-210.79 1/1:153:0,153,0:0:0:153,0:5417,0:-469.005,-46.0576,0,-469.005,-46.0576,-469.005 2/2:126:0,0,126:0:0:0,126:0,4459:-362.662,-362.662,-362.662,-37.9298,-37.9298,0 1/2:198:0,102,94:0:0:102,94:3610,3325:-520.056,-237.304,-206.599,-282.808,0,-254.512 1/2:23:0,8,14:0:0:8,14:269,502:-57.5634,-36.5935,-34.1853,-21.0696,0,-16.8552 1/1:4:0,4,0:0:0:4,0:143,0:-12.8064,-1.20412,0,-12.8064,-1.20412,-12.8064 1/2:35:0,20,15:0:0:20,15:710,522:-94.4356,-39.0708,-33.0502,-55.6941,0,-51.1787 1/1:55:0,54,0:0:0:54,0:1929,0:-162.619,-16.2556,0,-162.619,-16.2556,-162.619 1/2:158:0,80,77:0:0:80,77:2811,2711:-413.653,-198.729,-174.647,-214.893,0,-191.714 1/1:246:0,245,1:0:0:245,1:8703,36:-738.947,-73.7524,0,-736.379,-70.8658,-736.078 1/1:88:0,88,0:0:0:88,0:3130,0:-272.711,-26.4906,0,-272.711,-26.4906,-272.711 1/1:92:0,91,0:0:0:91,0:3205,0:-277.165,-27.3937,0,-277.165,-27.3937,-277.165 1/2:193:0,108,83:0:0:108,83:3828,2933:-504.778,-210.562,-178.051,-294.309,0,-269.324 1/2:57:0,38,19:0:0:38,19:1358,649:-149.566,-46.9007,-35.4616,-102.98,0,-97.2608 1/1:83:0,81,2:0:0:81,2:2891,69:-246.904,-24.3834,0,-241.807,-18.9684,-241.205 1/1:69:0,69,0:0:0:69,0:2449,0:-212.115,-20.7711,0,-212.115,-20.7711,-212.115 chr08 30220947 . GCCAT GGGGTTACCAT,GGGGGGTTACCAT 31305 PASS AB=0.511458,0.447917;ABP=4.10508,25.6298;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1201,530;CIGAR=1M6I4M,1M8I4M;DP=1788;DPB=4132.4;DPRA=0.817961,1.55517;EPP=2610.95,1153.89;EPPR=5.18177;GTI=0;LEN=6,8;MEANALT=3.45,4.28571;MQM=39.4938,33.9736;MQMR=60;NS=21;NUMALT=2;ODDS=8.98423;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=12,12;PQR=12;PRO=0.333333;QA=41143,17321;QR=36;RO=1;RPL=1200,530;RPP=2602.27,1153.89;RPPR=5.18177;RPR=1,0;RUN=1,1;SAF=1200,530;SAP=2602.27,1153.89;SAR=1,0;SRF=0;SRP=5.18177;SRR=1;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:105:0,52,51:0:0:52,51:1765,1678:-259.786,-123.619,-107.966,-136.156,0,-120.804 1/2:64:0,30,32:0:0:30,32:1033,1023:-155.91,-74.5935,-65.5626,-81.2511,0,-71.6182 1/2:76:0,34,38:0:0:34,38:1177,1253:-182.878,-92.2135,-81.9785,-90.6505,0,-79.2113 1/2:68:0,27,39:0:0:27,39:933,1269:-165.773,-93.5178,-85.39,-72.2767,0,-60.5365 1/2:129:0,52,71:0:0:52,71:1832,2284:-309.393,-167.755,-152.101,-141.636,0,-120.263 1/1:55:0,55,0:0:0:55,0:1908,0:-166.825,-16.5567,0,-166.825,-16.5567,-166.825 1/1:125:0,124,0:0:0:124,0:4184,0:-364.999,-37.3277,0,-364.999,-37.3277,-364.999 2/2:103:0,0,97:0:0:0,97:0,3201:-265.943,-265.943,-265.943,-29.1999,-29.1999,0 1/2:154:0,85,65:0:0:85,65:2946,2129:-386.948,-155.936,-130.348,-231.002,0,-211.435 1/2:20:0,5,14:0:0:5,14:165,482:-48.4103,-35.5703,-34.0652,-12.8175,0,-8.6031 1/1:4:0,4,0:0:0:4,0:144,0:-12.8786,-1.20412,0,-12.8786,-1.20412,-12.8786 1/2:31:0,19,9:0:0:19,9:657,315:-74.3574,-23.1856,-17.466,-51.1586,0,-48.4493 1/1:47:0,46,0:0:0:46,0:1558,0:-133.141,-13.8474,0,-133.141,-13.8474,-133.141 1/2:114:0,68,42:0:0:68,42:2307,1351:-277.874,-99.82,-79.35,-178.052,0,-165.409 1/1:217:0,211,1:0:0:211,1:7285,34:-625.184,-63.5173,0,-622.696,-61.0304,-622.395 1/1:73:0,71,0:0:0:71,0:2504,0:-218.241,-21.3731,0,-218.241,-21.3731,-218.241 1/1:74:0,73,0:0:0:73,0:2487,0:-216.825,-21.9752,0,-216.825,-21.9752,-216.825 1/2:150:0,86,57:0:0:86,57:2849,1846:-357.249,-135.631,-109.743,-221.615,0,-204.456 1/2:49:0,33,12:0:0:33,12:1126,386:-115.272,-28.6443,-18.7103,-86.6175,0,-83.0052 1/1:73:1,70,2:1:36:70,2:2398,70:-204.229,-18.1214,0,-199.374,-15.9425,-201.71 1/1:57:0,56,0:0:0:56,0:1885,0:-164.906,-16.8577,0,-164.906,-16.8577,-164.906 chr08 30242928 . G A 3436.04 PASS AB=0.43659;ABP=19.8087;AC=13;AF=0.309524;AN=42;AO=235;CIGAR=1X;DP=813;DPB=813;DPRA=1.23616;EPP=513.306;EPPR=1247.28;GTI=0;LEN=1;MEANALT=1;MQM=59.8723;MQMR=59.9099;NS=21;NUMALT=1;ODDS=0.209535;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8005;QR=20363;RO=577;RPL=235;RPP=513.306;RPPR=1247.28;RPR=0;RUN=1;SAF=0;SAP=513.306;SAR=235;SRF=0;SRP=1255.95;SRR=577;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:35:21,14:21:744:14:477:-32.7171,0,-55.5545 0/1:25:13,12:13:460:12:424:-30.9707,0,-34.2096 0/1:44:22,22:22:784:22:743:-53.9336,0,-57.6386 0/1:66:30,36:30:1072:36:1268:-94.5547,0,-76.9245 0/1:128:79,49:79:2784:49:1668:-111.239,0,-212.267 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:33:33,0:33:1160:0:0:0,-9.93399,-104.707 1/1:25:0,25:0:0:25:868:-78.4357,-7.52575,0 0/1:31:15,16:15:532:16:526:-38.3195,0,-38.8812 0/1:5:3,2:3:100:2:53:-3.52915,0,-7.81685 0/0:6:6,0:6:204:0:0:0,-1.80618,-18.6934 0/1:16:7,9:7:248:9:295:-22.0524,0,-17.8477 0/0:54:53,0:53:1888:0:0:0,-15.9546,-169.986 0/1:62:37,25:37:1301:25:836:-56.8785,0,-98.7254 0/0:73:73,0:73:2569:0:0:0,-21.9752,-231.46 0/0:25:25,0:25:880:0:0:0,-7.52575,-79.5177 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/1:40:23,17:23:797:17:563:-38.942,0,-60.0032 0/1:29:21,8:21:736:8:284:-17.1735,0,-57.8325 0/0:45:45,0:45:1580:0:0:0,-13.5463,-142.49 0/0:18:18,0:18:632:0:0:0,-5.41854,-57.2068 chr08 30438625 . GCT ACA,GCA 33677.8 PASS AB=0.562092,0.43573;ABP=33.7515,35.9467;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1129,478;CIGAR=1X1M1X,2M1X;DP=1612;DPB=1612;DPRA=0.996753,0.832231;EPP=2454.6,1040.97;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.85,2.07143;MQM=59.9929,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.5791;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39765,17090;QR=0;RO=0;RPL=1129,478;RPP=2454.6,1040.97;RPPR=0;RPR=0,0;RUN=1,1;SAF=1129,478;SAP=2454.6,1040.97;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,28,27:0:0:28,27:975,968:-158.247,-78.969,-70.5402,-79.2903,0,-71.1625 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:95:0,48,47:0:0:48,47:1701,1661:-274.199,-135.627,-121.177,-138.926,0,-124.777 1/2:106:0,66,40:0:0:66,40:2352,1440:-309.569,-117.857,-97.9885,-192.071,0,-180.029 1/2:131:0,69,62:0:0:69,62:2420,2210:-377.43,-180.5,-159.729,-197.284,0,-178.62 1/1:71:0,71,0:0:0:71,0:2497,0:-224.979,-21.3731,0,-224.979,-21.3731,-224.979 1/1:112:0,112,0:0:0:112,0:3946,0:-355.335,-33.7154,0,-355.335,-33.7154,-355.335 2/2:77:0,0,77:0:0:0,77:0,2755:-248.191,-248.191,-248.191,-23.1793,-23.1793,0 1/2:169:0,93,76:0:0:93,76:3262,2732:-488.695,-223.244,-195.248,-265.806,0,-242.928 1/2:20:0,10,10:0:0:10,10:351,360:-58.2959,-29.734,-26.7237,-28.9172,0,-25.9069 1/1:12:0,11,1:0:0:11,1:386,36:-34.7165,-3.31133,0,-31.7783,-0.0140851,-31.4773 1/2:61:0,35,26:0:0:35,26:1234,924:-176.123,-75.6509,-65.1148,-100.827,0,-92.9997 1/1:123:0,123,0:0:0:123,0:4331,0:-389.967,-37.0267,0,-389.967,-37.0267,-389.967 1/2:71:0,41,30:0:0:41,30:1449,1072:-205.768,-87.7616,-75.4193,-118.362,0,-109.331 1/1:127:0,125,0:0:0:125,0:4420,0:-397.617,-37.6288,0,-397.617,-37.6288,-397.617 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:9:0,8,1:0:0:8,1:286,36:-26.6149,-3.29724,-0.889005,-23.6772,0,-23.3762 1/2:119:0,64,55:0:0:64,55:2257,1972:-344.968,-161.198,-141.932,-184.126,0,-167.569 1/2:77:0,52,24:0:0:52,24:1787,852:-214.596,-69.4927,-53.8391,-145.172,0,-137.947 1/1:115:0,115,0:0:0:115,0:4066,0:-366.13,-34.6185,0,-366.13,-34.6185,-366.13 1/1:51:0,50,0:0:0:50,0:1757,0:-158.051,-15.0515,0,-158.051,-15.0515,-158.051 chr08 30438673 . G A 25140.3 PASS AB=0.56513;ABP=39.7817;AC=29;AF=0.690476;AN=42;AO=1206;CIGAR=1X;DP=1700;DPB=1700;DPRA=1.41552;EPP=2552.78;EPPR=1049.82;GTI=1;LEN=1;MEANALT=1;MQM=59.995;MQMR=60;NS=21;NUMALT=1;ODDS=1.74982;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43179;QR=17608;RO=494;RPL=1198;RPP=2552.78;RPPR=1049.82;RPR=8;RUN=1;SAF=0;SAP=2621.81;SAR=1206;SRF=0;SRP=1075.72;SRR=494;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:31,10:31:1108:10:360:-20.4021,0,-87.6888 0/1:23:10,13:10:356:13:464:-35.1738,0,-25.4576 0/1:98:49,49:49:1752:49:1760:-129.183,0,-128.463 0/1:193:79,114:79:2827:114:4104:-311.444,0,-196.569 0/1:179:70,109:70:2512:109:3885:-295.96,0,-172.448 1/1:76:0,76:0:0:76:2731:-246.032,-22.8783,0 1/1:114:0,114:0:0:114:4074:-366.845,-34.3174,0 0/0:58:58,0:58:2064:0:0:0,-17.4597,-186.031 0/1:169:81,88:81:2872:88:3156:-233.391,0,-207.842 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:5:1,4:1:36:4:129:-10.4225,0,-2.09312 0/1:28:16,12:16:572:12:428:-30.43,0,-43.3846 1/1:109:0,109:0:0:109:3892:-350.473,-32.8123,0 0/1:103:40,63:40:1423:63:2264:-173.016,0,-97.3606 1/1:75:0,75:0:0:75:2696:-242.884,-22.5773,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:67:29,38:29:1014:38:1368:-103.252,0,-71.3985 0/1:92:28,64:28:1000:64:2304:-179.926,0,-62.6206 1/1:168:2,166:2:72:166:5909:-525.081,-43.7363,0 1/1:70:0,70:0:0:70:2507:-225.882,-21.0721,0 chr08 30438754 . G C 99094.9 PASS AB=0.513494;ABP=7.34691;AC=29;AF=0.690476;AN=42;AO=3744;CIGAR=1X;DP=5430;DPB=5430;DPRA=0.748529;EPP=8124.32;EPPR=3651.08;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9565;MQMR=59.969;NS=21;NUMALT=1;ODDS=20.9924;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=132325;QR=59396;RO=1680;RPL=1831;RPP=6.91013;RPPR=5.74532;RPR=1913;RUN=1;SAF=1830;SAP=7.10269;SAR=1914;SRF=863;SRP=5.74532;SRR=817;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:210:85,125:85:2975:125:4401:-333.035,0,-204.765 0/1:189:68,121:68:2407:121:4292:-329.561,0,-159.99 0/1:282:146,136:146:5157:136:4794:-346.728,0,-379.384 0/1:362:172,190:172:6020:190:6733:-497.073,0,-432.936 0/1:397:228,168:228:8099:168:5947:-415.857,0,-609.452 1/1:327:2,325:2:72:325:11539:-1031.55,-91.6001,0 1/1:329:0,329:0:0:329:11560:-1040.29,-99.0389,0 0/0:340:339,0:339:11999:0:0:0,-102.049,-1079.41 0/1:488:247,241:247:8825:241:8501:-618.197,0,-647.334 0/1:34:20,14:20:716:14:500:-35.1012,0,-54.5327 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:112:52,60:52:1850:60:2103:-155.822,0,-133.063 1/1:346:0,345:0:0:345:12231:-1100.25,-103.855,0 0/1:346:171,175:171:5981:175:6186:-452.655,0,-434.023 1/1:569:1,566:1:36:566:20060:-1801.13,-167.402,0 1/1:147:0,147:0:0:147:5211:-469.132,-44.2514,0 1/1:175:0,175:0:0:175:6149:-553.512,-52.6803,0 0/1:175:87,88:87:3085:88:3079:-224.66,0,-225.068 0/1:147:57,90:57:2003:90:3145:-239.024,0,-136.289 1/1:314:4,310:4:144:310:11014:-977.849,-81.2098,0 1/1:126:1,124:1:27:124:4340:-388.036,-35.2439,0 chr08 30470951 . G A 22177.9 PASS AB=0.469671;ABP=16.8407;AC=13;AF=0.309524;AN=42;AO=962;CIGAR=1X;DP=3273;DPB=3273;DPRA=0.919341;EPP=2091.97;EPPR=5003.93;GTI=0;LEN=1;MEANALT=1;MQM=55.6913;MQMR=59.8546;NS=21;NUMALT=1;ODDS=26.9372;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34278;QR=81721;RO=2311;RPL=392;RPP=74.5289;RPPR=43.2723;RPR=570;RUN=1;SAF=392;SAP=74.5289;SAR=570;SRF=1050;SRP=44.8433;SRR=1261;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:175:91,84:91:3190:84:3003:-217.456,0,-234.588 0/1:158:84,74:84:3004:74:2656:-189.909,0,-222.831 0/1:103:57,46:57:2026:46:1656:-118.163,0,-151.6 0/1:170:86,84:86:3004:84:2995:-217.679,0,-219.405 0/1:247:124,123:124:4375:123:4360:-315.865,0,-319.57 0/0:198:198,0:198:7006:0:0:0,-59.6039,-630.382 0/0:267:267,0:267:9424:0:0:0,-80.375,-847.731 1/1:147:0,147:0:0:147:5229:-469.199,-44.2514,0 0/1:210:112,98:112:3981:98:3459:-247.769,0,-295.252 0/1:31:13,18:13:460:18:617:-46.3732,0,-32.4034 0/0:20:20,0:20:703:0:0:0,-6.0206,-63.5935 0/1:62:23,39:23:824:39:1396:-107.03,0,-55.8195 0/0:151:151,0:151:5352:0:0:0,-45.4555,-481.807 0/1:158:85,73:85:3044:73:2615:-187.661,0,-226.576 0/0:240:240,0:240:8462:0:0:0,-72.2472,-761.555 0/0:115:115,0:115:4116:0:0:0,-34.6184,-370.623 0/0:106:105,1:105:3700:1:36:0,-28.3119,-329.605 0/1:240:119,121:119:4143:121:4316:-314.284,0,-300.81 0/1:177:124,53:124:4435:53:1904:-116.978,0,-345.907 0/0:136:135,1:135:4781:1:36:0,-37.4856,-426.993 0/0:162:162,0:162:5691:0:0:0,-48.7669,-512.307 chr08 30470986 . T C 9756.48 PASS AB=0.465257;ABP=13.4216;AC=13;AF=0.309524;AN=42;AO=567;CIGAR=1X;DP=1850;DPB=1850;DPRA=1.05147;EPP=1234.24;EPPR=2789.01;GTI=0;LEN=1;MEANALT=1;MQM=53.7848;MQMR=59.7927;NS=21;NUMALT=1;ODDS=11.051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20205;QR=45992;RO=1283;RPL=567;RPP=1234.24;RPPR=2789.01;RPR=0;RUN=1;SAF=0;SAP=1234.24;SAR=567;SRF=0;SRP=2789.01;SRR=1283;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:62,58:62:2201:58:2072:-149.654,0,-161.603 0/1:83:51,32:51:1832:32:1136:-76.5281,0,-139.982 0/1:68:39,29:39:1404:29:1021:-71.585,0,-106.183 0/1:60:39,21:39:1404:21:752:-49.0211,0,-108.595 0/1:119:58,61:58:2080:61:2161:-157.367,0,-151.518 0/0:101:101,0:101:3620:0:0:0,-30.404,-325.807 0/0:148:148,0:148:5308:0:0:0,-44.5524,-476.644 1/1:104:0,104:0:0:104:3708:-332.134,-31.3071,0 0/1:128:65,63:65:2332:63:2243:-163.113,0,-171.575 0/1:18:6,12:6:212:12:424:-32.816,0,-14.0063 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:29:13,16:13:464:16:572:-42.8867,0,-33.3676 0/0:81:81,0:81:2892:0:0:0,-24.3834,-260.517 0/1:100:52,48:52:1868:48:1724:-124.942,0,-138.292 0/0:137:137,0:137:4912:0:0:0,-41.2411,-442.142 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.561 0/1:186:90,96:90:3236:96:3420:-251.257,0,-235.469 0/1:82:56,26:56:2008:26:936:-58.5373,0,-156.223 0/0:70:69,1:69:2467:1:36:0,-17.6176,-218.829 0/0:102:102,0:102:3664:0:0:0,-30.7051,-329.954 chr08 30483144 . AGG GGA,GGG 42763.7 PASS AB=0.299283,0.692652;ABP=393.533,362.782;AC=27,15;AF=0.642857,0.357143;AN=42;AO=701,1107;CIGAR=1X1M1X,1X2M;DP=1819;DPB=1819.33;DPRA=0.308071,2.28235;EPP=1525.21,2398.15;EPPR=7.35324;GTI=6;LEN=3,1;MEANALT=2.2,2.35294;MQM=59.9786,59.6459;MQMR=55.5;NS=21;NUMALT=2;ODDS=2.16588;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=24654,39090;QR=72;RO=2;RPL=701,701;RPP=1525.21,173.717;RPPR=3.0103;RPR=0,406;RUN=1,1;SAF=701,700;SAP=1525.21,171.41;SAR=0,407;SRF=1;SRP=3.0103;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:170:0,32,136:0:0:32,136:1132,4795:-482.632,-390.43,-380.797,-92.2716,0,-51.3316 2/2:66:0,6,60:0:0:6,60:216,2088:-187.827,-170.202,-168.396,-18.0618,-0.077468,0 1/2:87:0,23,63:0:0:23,63:819,2233:-248.549,-181.796,-174.872,-66.7494,0,-47.7845 1/2:104:0,35,67:0:0:35,67:1235,2353:-292.072,-191.506,-180.97,-100.601,0,-80.4319 1/2:180:0,44,135:0:0:44,135:1563,4742:-513.125,-385.764,-372.519,-127.362,0,-86.7225 1/1:46:0,45,1:0:0:45,1:1590,36:-143.03,-13.5464,0,-140.093,-10.2491,-139.792 1/1:71:0,70,0:0:0:70,0:2458,0:-221.115,-21.0721,0,-221.115,-21.0721,-221.115 2/2:254:1,0,253:1:36:0,253:0,9035:-809.541,-809.842,-812.769,-72.8751,-76.1606,0 1/2:195:1,38,154:1:36:38,154:1337,5428:-547.286,-438.749,-430.247,-105.875,0,-62.4539 2/2:14:0,1,13:0:0:1,13:36,458:-41.1944,-38.2564,-37.9554,-3.91339,-0.616145,0 1/1:9:0,9,0:0:0:9,0:311,0:-28.3241,-2.70927,0,-28.3241,-2.70927,-28.3241 1/2:27:0,7,20:0:0:7,20:250,711:-78.6776,-58.2946,-56.1874,-20.7395,0,-14.7189 1/1:33:0,32,1:0:0:32,1:1095,36:-98.4818,-9.63296,0,-95.5438,-6.33572,-95.2428 1/2:95:0,26,69:0:0:26,69:930,2436:-274.5,-198.664,-190.837,-76.1921,0,-55.421 1/1:66:0,66,0:0:0:66,0:2311,0:-208.249,-19.868,0,-208.249,-19.868,-208.249 1/1:21:0,20,1:0:0:20,1:714,36:-64.2278,-6.0206,0,-61.2903,-2.72336,-60.9892 1/1:40:0,38,2:0:0:38,2:1351,72:-121.531,-11.4391,0,-115.656,-5.20448,-115.053 1/2:149:0,78,71:0:0:78,71:2726,2521:-427.519,-205.767,-182.287,-222.104,0,-200.731 1/2:109:0,51,58:0:0:51,58:1823,2002:-311.507,-162.864,-147.512,-148.995,0,-131.535 1/1:24:0,24,0:0:0:24,0:852,0:-77.0008,-7.22472,0,-77.0008,-7.22472,-77.0008 1/1:59:0,56,3:0:0:56,3:1905,108:-171.364,-16.8577,0,-162.595,-7.73197,-161.692 chr08 30496421 . AG CC,CG 37075.4 PASS AB=0.574364,0.423679;ABP=52.1,54.7177;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1305,538;CIGAR=2X,1X1M;DP=1845;DPB=1845;DPRA=0.845631,1.18968;EPP=2836.78,1162.59;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.7,2.07692;MQM=41.4452,55.0502;MQMR=0;NS=21;NUMALT=2;ODDS=7.64404;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45798,18969;QR=0;RO=0;RPL=0,1;RPP=2836.78,1162.59;RPPR=0;RPR=1305,537;RUN=1,1;SAF=0,0;SAP=2836.78,1171.26;SAR=1305,538;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:89:0,51,38:0:0:51,38:1813,1348:-252.871,-109.847,-94.4948,-143.373,0,-131.934 1/2:32:0,21,11:0:0:21,11:724,396:-89.4886,-32.581,-26.2593,-57.2583,0,-53.9469 1/2:123:0,59,64:0:0:59,64:2097,2269:-350.186,-184.809,-167.048,-165.726,0,-146.46 1/2:119:0,68,51:0:0:68,51:2323,1811:-327.872,-147.401,-126.931,-180.814,0,-165.461 1/2:195:0,102,93:0:0:102,93:3595,3274:-547.44,-266.402,-235.697,-281.383,0,-253.388 1/1:45:0,45,0:0:0:45,0:1583,0:-137.356,-13.5464,0,-137.356,-13.5464,-137.356 1/1:146:0,146,0:0:0:146,0:5156,0:-448.291,-43.9504,0,-448.291,-43.9504,-448.291 2/2:103:0,0,103:0:0:0,103:0,3575:-321.178,-321.178,-321.178,-31.0061,-31.0061,0 1/2:187:0,116,70:0:0:116,70:4060,2485:-526.015,-202.304,-167.385,-323.707,0,-302.635 1/2:4:0,1,3:0:0:1,3:36,104:-11.5961,-8.78828,-8.48725,-3.15346,0,-2.25037 1/1:7:0,7,0:0:0:7,0:250,0:-22.1305,-2.10721,0,-22.1305,-2.10721,-22.1305 1/2:29:0,23,6:0:0:23,6:778,216:-78.4378,-17.9527,-11.029,-60.8374,0,-59.0313 1/1:99:0,99,0:0:0:99,0:3430,0:-298.948,-29.802,0,-298.948,-29.802,-298.948 1/2:141:0,83,57:0:0:83,57:2933,2011:-394.004,-163.426,-138.441,-230.567,0,-213.408 1/1:164:0,164,0:0:0:164,0:5792,0:-506.321,-49.3689,0,-506.321,-49.3689,-506.321 1/1:55:0,55,0:0:0:55,0:1936,0:-170.546,-16.5567,0,-170.546,-16.5567,-170.546 1/1:70:0,70,0:0:0:70,0:2480,0:-219.466,-21.0721,0,-219.466,-21.0721,-219.466 1/2:51:0,27,24:0:0:27,24:930,845:-141.635,-69.0389,-60.9111,-72.9389,0,-65.7142 1/2:52:0,36,16:0:0:36,16:1229,563:-143.094,-46.0091,-35.172,-97.4301,0,-92.6136 1/1:91:0,89,2:0:0:89,2:3143,72:-270.914,-26.7917,0,-265.048,-20.5667,-264.446 1/1:43:0,43,0:0:0:43,0:1510,0:-130.535,-12.9443,0,-130.535,-12.9443,-130.535 chr08 30496461 . GAGATC GAAATT,AAAATC 37933.7 PASS AB=0.566763,0.425552;ABP=43.3129,53.1252;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1323,551;CIGAR=2M1X2M1X,1X1M1X3M;DP=1887;DPB=1886.83;DPRA=0.840094,1.18219;EPP=2875.87,1199.49;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.15,2.46154;MQM=41.4974,54.9292;MQMR=0;NS=21;NUMALT=2;ODDS=7.31528;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46880,19328;QR=0;RO=0;RPL=1323,551;RPP=2875.87,1199.49;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2875.87,1199.49;SAR=1323,551;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:91:0,52,39:0:0:52,39:1862,1393:-260.609,-113.617,-97.9638,-147.344,0,-135.604 1/2:32:0,21,11:0:0:21,11:731,394:-89.9157,-32.4027,-26.0811,-57.8635,0,-54.5522 1/2:125:0,60,65:0:0:60,65:2128,2259:-350.569,-183.381,-165.319,-167.533,0,-147.966 1/2:120:0,64,52:0:0:64,52:2262,1812:-323.24,-146.965,-127.699,-176.302,0,-160.648 1/2:201:0,105,96:0:0:105,96:3707,3379:-565.274,-275.098,-243.49,-290.522,0,-261.623 1/1:48:0,48,0:0:0:48,0:1705,0:-147.796,-14.4494,0,-147.796,-14.4494,-147.796 1/1:155:0,155,0:0:0:155,0:5488,0:-476.947,-46.6597,0,-476.947,-46.6597,-476.947 2/2:106:0,0,106:0:0:0,106:0,3691:-331.579,-331.579,-331.579,-31.9092,-31.9092,0 1/2:191:0,116,73:0:0:116,73:4111,2594:-538.984,-211.224,-176.305,-327.811,0,-305.836 1/2:4:0,1,3:0:0:1,3:36,108:-11.9623,-9.15779,-8.85676,-3.15346,0,-2.25037 1/1:7:0,7,0:0:0:7,0:245,0:-21.7353,-2.10721,0,-21.7353,-2.10721,-21.7353 1/2:30:0,23,7:0:0:23,7:817,248:-83.955,-20.5244,-13.6007,-63.7811,0,-61.6739 1/1:99:0,97,0:0:0:97,0:3455,0:-300.343,-29.1999,0,-300.343,-29.1999,-300.343 1/2:144:0,85,57:0:0:85,57:3014,2009:-399.724,-163.176,-137.589,-236.55,0,-219.392 1/1:167:0,164,0:0:0:164,0:5828,0:-509.606,-49.3689,0,-509.606,-49.3689,-509.606 1/1:56:0,56,0:0:0:56,0:1973,0:-173.585,-16.8577,0,-173.585,-16.8577,-173.585 1/1:70:0,70,0:0:0:70,0:2473,0:-219.008,-21.0721,0,-219.008,-21.0721,-219.008 1/2:53:0,28,25:0:0:28,25:992,863:-147.283,-70.0834,-61.6546,-77.5414,0,-70.0157 1/2:50:0,35,15:0:0:35,15:1217,506:-137.616,-41.3124,-30.7764,-96.6412,0,-92.1257 1/1:94:0,92,2:0:0:92,2:3268,72:-282.236,-27.6948,0,-276.37,-21.4698,-275.768 1/1:44:0,44,0:0:0:44,0:1568,0:-135.509,-13.2453,0,-135.509,-13.2453,-135.509 chr08 30563466 . C T 32769.5 PASS AB=0.463442;ABP=33.9703;AC=14;AF=0.333333;AN=42;AO=1440;CIGAR=1X;DP=4916;DPB=4916;DPRA=0.841713;EPP=3129.93;EPPR=7535.85;GTI=0;LEN=1;MEANALT=1.11765;MQM=60;MQMR=59.9882;NS=21;NUMALT=1;ODDS=45.1691;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51008;QR=122402;RO=3473;RPL=583;RPP=116.222;RPPR=175.343;RPR=857;RUN=1;SAF=583;SAP=116.222;SAR=857;SRF=1473;SRP=176.659;SRR=2000;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:69,84:69:2432:84:2962:-220.395,0,-172.717 0/1:186:100,86:100:3489:86:3042:-218.02,0,-258.23 0/1:193:97,96:97:3404:96:3392:-247.396,0,-248.474 0/1:344:188,156:188:6558:156:5512:-392.655,0,-486.754 0/1:474:240,234:240:8440:234:8301:-604.416,0,-616.923 0/0:295:294,1:294:10387:1:36:0,-85.2056,-931.162 0/0:344:344,0:344:12212:0:0:0,-103.554,-1098.93 1/1:200:1,199:1:36:199:7051:-631.059,-56.6077,0 0/1:410:215,195:215:7595:195:6943:-501.515,0,-560.174 0/1:25:7,18:7:248:18:644:-50.7648,0,-15.1384 0/1:22:11,11:11:383:11:396:-29.3601,0,-28.1806 0/1:77:44,33:44:1580:33:1167:-82.1571,0,-119.312 0/0:272:271,1:271:9580:1:36:0,-78.2819,-858.564 0/1:296:170,126:170:6009:126:4460:-312.466,0,-451.815 0/0:464:463,0:463:16334:0:0:0,-139.377,-1468.61 0/0:144:143,1:143:5001:1:32:0,-40.149,-447.045 0/0:137:137,0:137:4857:0:0:0,-41.2411,-437.284 0/1:301:164,136:164:5743:136:4812:-342.716,0,-426.474 0/1:185:124,61:124:4326:61:2150:-138.075,0,-333.828 0/0:264:262,2:262:9254:2:72:0,-72.6352,-826.001 0/0:129:129,0:129:4534:0:0:0,-38.8329,-408.23 chr08 30564371 . C T 14877 PASS AB=0.522008;ABP=9.12746;AC=14;AF=0.333333;AN=42;AO=841;CIGAR=1X;DP=2327;DPB=2327;DPRA=1.21355;EPP=1829.22;EPPR=3227.65;GTI=1;LEN=1;MEANALT=1;MQM=59.9952;MQMR=60;NS=21;NUMALT=1;ODDS=4.07231;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30143;QR=53244;RO=1485;RPL=0;RPP=1829.22;RPPR=3227.65;RPR=841;RUN=1;SAF=841;SAP=1829.22;SAR=0;SRF=1485;SRP=3227.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:18,33:18:648:33:1180:-91.1555,0,-43.2994 0/1:67:39,28:39:1404:28:1004:-70.5069,0,-106.49 0/1:172:96,76:96:3439:76:2732:-194.345,0,-257.945 0/1:335:169,166:169:6072:166:5956:-435.298,0,-445.734 0/1:169:74,95:74:2656:95:3389:-254.35,0,-188.412 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.898 0/0:165:164,0:164:5892:0:0:0,-49.3689,-530.027 1/1:79:0,79:0:0:79:2832:-255.118,-23.7814,0 0/1:195:113,82:113:4052:82:2934:-205.594,0,-306.166 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:14:2,12:2:72:12:432:-35.0068,0,-2.6223 0/1:44:18,26:18:640:26:932:-70.9535,0,-44.684 0/0:168:168,0:168:6009:0:0:0,-50.573,-540.914 0/1:165:83,82:83:2972:82:2933:-214.535,0,-218.043 0/0:92:92,0:92:3295:0:0:0,-27.6948,-296.768 0/0:64:64,0:64:2273:0:0:0,-19.2659,-204.831 0/0:106:106,0:106:3812:0:0:0,-31.9092,-343.276 0/1:165:29,136:29:1036:136:4883:-389.95,0,-43.884 0/1:67:50,17:50:1796:17:612:-35.2444,0,-141.753 0/0:115:112,3:112:4012:3:108:0,-24.5433,-351.194 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 chr08 30564511 . C T 31082 PASS AB=0.551188;ABP=30.7984;AC=28;AF=0.666667;AN=42;AO=1529;CIGAR=1X;DP=2227;DPB=2227;DPRA=0.728671;EPP=3323.19;EPPR=1516.53;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9974;MQMR=60;NS=21;NUMALT=1;ODDS=14.909;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54362;QR=24897;RO=697;RPL=1529;RPP=3323.19;RPPR=1516.53;RPR=0;RUN=1;SAF=0;SAP=3323.19;SAR=1529;SRF=0;SRP=1516.53;SRR=697;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:54,55:54:1902:55:1935:-141.611,0,-138.642 0/1:37:13,24:13:468:24:848:-65.5015,0,-31.3215 0/1:97:45,52:45:1616:52:1848:-137.4,0,-116.53 0/1:86:53,33:53:1892:33:1168:-79.5386,0,-144.67 0/1:150:79,71:79:2809:71:2512:-181.179,0,-207.894 1/1:77:0,77:0:0:77:2699:-243.152,-23.1793,0 1/1:162:1,161:1:36:161:5707:-510.153,-45.1686,0 0/0:143:143,0:143:5120:0:0:0,-43.0473,-460.942 0/1:237:106,131:106:3785:131:4665:-348.666,0,-269.503 0/1:32:17,15:17:612:15:536:-38.9419,0,-45.7805 0/1:11:8,3:8:288:3:108:-6.76384,0,-22.9561 0/1:28:8,20:8:284:20:716:-56.3389,0,-17.4745 1/1:142:3,139:3:108:139:4926:-433.417,-32.6711,0 0/1:118:52,66:52:1860:66:2344:-175.698,0,-132.158 1/1:217:1,215:1:36:215:7668:-686.635,-61.7091,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 1/1:55:0,55:0:0:55:1953:-176.044,-16.5567,0 0/1:176:83,93:83:2980:93:3308:-244.957,0,-215.451 0/1:140:30,110:30:1065:110:3956:-314.085,0,-54.0156 1/1:132:1,131:1:36:131:4677:-417.492,-36.1377,0 1/1:49:0,49:0:0:49:1752:-157.964,-14.7505,0 chr08 30588593 . T A 13467.3 PASS AB=0.548773;ABP=35.842;AC=14;AF=0.333333;AN=42;AO=954;CIGAR=1X;DP=2523;DPB=2523;DPRA=1.13572;EPP=2048.62;EPPR=3392.7;GTI=0;LEN=1;MEANALT=1;MQM=33.9633;MQMR=48.037;NS=21;NUMALT=1;ODDS=3.34282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34137;QR=55944;RO=1569;RPL=951;RPP=2048.62;RPPR=3392.7;RPR=3;RUN=1;SAF=0;SAP=2074.59;SAR=954;SRF=0;SRP=3410.05;SRR=1569;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:61,79:61:2173:79:2823:-179.96,0,-151.703 0/1:57:23,34:23:824:34:1216:-82.3416,0,-56.6261 0/1:161:61,100:61:2188:100:3584:-238.069,0,-145.679 0/1:196:102,94:102:3656:94:3371:-208.993,0,-267.517 0/1:271:139,132:139:4941:132:4733:-292.99,0,-355.926 0/0:103:101,2:101:3605:2:72:0,-24.8384,-313.38 0/0:170:168,2:168:5986:2:72:0,-44.9572,-528.667 1/1:72:0,72:0:0:72:2572:-207.618,-21.6742,0 0/1:279:95,184:95:3342:184:6584:-436.524,0,-216.265 0/1:28:6,22:6:216:22:792:-55.4553,0,-11.225 0/1:25:11,14:11:396:14:504:-33.3155,0,-28.2619 0/1:53:23,30:23:820:30:1076:-70.9415,0,-57.3998 0/0:211:211,0:211:7511:0:0:0,-63.5173,-667.071 0/1:196:87,109:87:3104:109:3875:-247.467,0,-217.745 0/0:114:114,0:114:4077:0:0:0,-34.3174,-362.53 0/0:44:44,0:44:1576:0:0:0,-13.2453,-141.681 0/0:50:49,1:49:1736:1:36:0,-11.8639,-153.032 0/1:74:35,39:35:1244:39:1404:-91.1155,0,-88.6961 0/1:109:74,35:74:2656:35:1247:-66.9262,0,-202.861 0/0:106:101,5:101:3597:5:176:0,-17.1815,-305.721 0/0:64:64,0:64:2296:0:0:0,-19.2659,-205.689 chr08 30615804 . TGAC CGAT,CGAC 18857 PASS AB=0.684492,0.31016;ABP=113.581,120.084;AC=28,14;AF=0.666667,0.333333;AN=42;AO=589,147;CIGAR=1X2M1X,1X3M;DP=739;DPB=739;DPRA=1.18167,0.937743;EPP=4.63614,322.217;EPPR=0;GTI=2;LEN=4,1;MEANALT=1.8,2.07143;MQM=53.8506,54.0476;MQMR=0;NS=21;NUMALT=2;ODDS=3.6564;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20715,5224;QR=0;RO=0;RPL=4,0;RPP=1247.5,322.217;RPPR=0;RPR=585,147;RUN=1,1;SAF=309,0;SAP=6.11082,322.217;SAR=280,147;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:41:0,25,15:0:0:25,15:876,525:-113.874,-42.6447,-35.119,-71.2775,0,-66.762 1/2:14:0,10,4:0:0:10,4:359,144:-40.9142,-11.8895,-8.87922,-29.3792,0,-28.1751 1/2:10:0,9,1:0:0:9,1:313,36:-28.6464,-3.29465,-0.58538,-25.71,0,-25.4089 1/2:28:0,19,9:0:0:19,9:664,324:-80.5534,-26.7753,-21.0557,-54.1339,0,-51.4246 1/2:39:0,29,10:0:0:29,10:1029,360:-112.989,-29.7104,-20.9805,-83.6369,0,-80.6266 1/1:38:0,37,0:0:0:37,0:1316,0:-117.926,-11.1381,0,-117.926,-11.1381,-117.926 1/1:51:0,51,0:0:0:51,0:1785,0:-159.785,-15.3525,0,-159.785,-15.3525,-159.785 2/2:30:0,0,30:0:0:0,30:0,1068:-96.1732,-96.1732,-96.1732,-9.0309,-9.0309,0 1/2:38:0,21,17:0:0:21,17:740,612:-110.45,-50.2236,-43.902,-60.5823,0,-55.4647 1/2:4:0,3,1:0:0:3,1:106,36:-11.9079,-3.29214,-2.38905,-8.97347,0,-8.67244 1/2:6:0,1,5:0:0:1,5:36,172:-17.0427,-14.1101,-13.8091,-3.2882,0,-1.78305 1/2:12:0,7,5:0:0:7,5:240,180:-34.3085,-14.8716,-12.7644,-19.7871,0,-18.282 1/1:51:0,51,0:0:0:51,0:1788,0:-160.592,-15.3525,0,-160.592,-15.3525,-160.592 1/2:29:0,15,14:0:0:15,14:523,500:-83.4226,-40.9215,-36.4061,-42.8531,0,-38.6387 1/1:52:0,52,0:0:0:52,0:1840,0:-165.638,-15.6536,0,-165.638,-15.6536,-165.638 1/1:21:0,21,0:0:0:21,0:744,0:-67.2041,-6.32163,0,-67.2041,-6.32163,-67.2041 1/1:15:0,15,0:0:0:15,0:519,0:-47.0249,-4.51545,0,-47.0249,-4.51545,-47.0249 1/2:75:0,54,21:0:0:54,21:1877,744:-212.944,-60.7486,-44.493,-152.547,0,-146.225 1/2:78:0,63,14:0:0:63,14:2233,491:-221.712,-39.9716,-21.0067,-181.872,0,-177.657 1/1:29:0,29,0:0:0:29,0:1017,0:-91.5711,-8.72987,0,-91.5711,-8.72987,-91.5711 1/1:78:0,77,1:0:0:77,1:2710,32:-243.234,-23.1793,0,-240.659,-20.2847,-240.358 chr08 30615827 . A G 2059.05 PASS AB=0.322404;ABP=103.278;AC=14;AF=0.333333;AN=42;AO=149;CIGAR=1X;DP=720;DPB=720;DPRA=0.756371;EPP=326.56;EPPR=3.86596;GTI=2;LEN=1;MEANALT=1;MQM=53.8255;MQMR=53.8039;NS=21;NUMALT=1;ODDS=6.74594;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5296;QR=20417;RO=571;RPL=149;RPP=326.56;RPPR=1242.92;RPR=0;RUN=1;SAF=0;SAP=326.56;SAR=149;SRF=293;SRP=3.86596;SRR=278;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:26,15:26:928:15:540:-36.4747,0,-71.3457 0/1:15:10,5:10:360:5:180:-10.8614,0,-27.963 0/1:10:9,1:9:324:1:36:-0.58538,0,-26.3896 0/1:29:19,10:19:684:10:360:-23.9908,0,-52.9168 0/1:37:27,10:27:972:10:356:-21.2209,0,-75.7383 0/0:36:36,0:36:1288:0:0:0,-10.8371,-115.56 0/0:51:51,0:51:1807:0:0:0,-15.3525,-161.731 1/1:31:0,31:0:0:31:1099:-98.9484,-9.33193,0 0/1:38:21,17:21:744:17:608:-43.542,0,-55.8262 0/1:4:3,1:3:108:1:36:-2.38905,0,-8.85676 0/1:5:1,4:1:36:4:133:-10.7479,0,-2.08408 0/1:12:7,5:7:252:5:180:-12.7644,0,-19.2571 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.211 0/1:27:14,13:14:504:13:468:-34.1324,0,-37.5373 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.315 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.048 0/0:14:14,0:14:491:0:0:0,-4.21442,-44.5097 0/1:72:50,22:50:1788:22:773:-48.1127,0,-139.098 0/1:76:61,15:61:2171:15:527:-24.6806,0,-172.612 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.3957 0/0:77:77,0:77:2760:0:0:0,-23.1793,-247.808 chr08 30627910 . CTTTTCA CTTTTTTCA 8093.63 PASS AB=0.492398;ABP=3.43951;AC=14;AF=0.333333;AN=42;AO=485;CIGAR=1M2I6M;DP=1524;DPB=1662.86;DPRA=0.98873;EPP=1056.17;EPPR=2252.66;GTI=0;LEN=2;MEANALT=1.1875;MQM=59.7959;MQMR=59.4469;NS=21;NUMALT=1;ODDS=8.76945;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17057;QR=36109;RO=1036;RPL=0;RPP=1056.17;RPPR=2252.66;RPR=485;RUN=1;SAF=0;SAP=1056.17;SAR=485;SRF=0;SRP=2252.66;SRR=1036;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:62,65:62:2162:65:2274:-166.673,0,-156.517 0/1:52:24,27:24:847:27:949:-70.011,0,-60.8385 0/1:70:25,45:25:862:45:1582:-121.594,0,-56.8151 0/1:75:35,40:35:1215:40:1428:-106.236,0,-87.068 0/1:116:54,61:54:1876:61:2126:-156.611,0,-134.138 0/0:66:64,2:64:2244:2:72:0,-13.0313,-195.372 0/0:114:114,0:114:3918:0:0:0,-34.3174,-352.257 1/1:60:0,60:0:0:60:2121:-191.103,-18.0618,0 0/1:163:99,63:99:3466:63:2229:-151.827,0,-263.12 0/1:20:11,9:11:383:9:316:-22.7583,0,-28.783 0/1:6:2,4:2:68:4:144:-11.5074,0,-4.65153 0/1:28:16,12:16:559:12:402:-28.0704,0,-42.2019 0/0:90:89,1:89:3127:1:36:0,-23.4944,-278.025 0/1:106:47,59:47:1633:59:2069:-154.561,0,-115.342 0/0:87:86,1:86:3039:1:36:0,-22.5913,-270.021 0/0:53:53,0:53:1839:0:0:0,-15.9546,-165.787 0/0:71:71,0:71:2465:0:0:0,-21.3731,-222.015 0/1:57:30,27:30:1052:27:953:-68.9246,0,-77.8316 0/1:35:26,9:26:909:9:320:-18.6063,0,-71.5251 0/0:81:81,0:81:2808:0:0:0,-24.3834,-252.727 0/0:47:47,0:47:1637:0:0:0,-14.1484,-147.072 chr08 30627925 . T C 20757.7 PASS AB=0.497647;ABP=3.05117;AC=28;AF=0.666667;AN=42;AO=1020;CIGAR=1X;DP=1513;DPB=1513;DPRA=0;EPP=2200.57;EPPR=1073.55;GTI=0;LEN=1;MEANALT=1;MQM=59.4706;MQMR=59.7627;NS=21;NUMALT=1;ODDS=3.86244;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36398;QR=17618;RO=493;RPL=2;RPP=2200.57;RPPR=1073.55;RPR=1018;RUN=1;SAF=0;SAP=2217.91;SAR=1020;SRF=0;SRP=1073.55;SRR=493;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:65,62:65:2328:62:2224:-161.503,0,-171.535 0/1:51:28,23:28:985:23:820:-58.77,0,-73.6067 0/1:69:45,24:45:1612:24:860:-56.9508,0,-124.594 0/1:74:40,34:40:1432:34:1212:-87.1101,0,-106.897 0/1:116:62,54:62:2201:54:1918:-137.967,0,-163.421 1/1:65:2,63:2:72:63:2260:-196.808,-12.7302,0 1/1:110:0,110:0:0:110:3909:-351.429,-33.1133,0 0/0:63:62,1:62:2220:1:36:0,-15.3757,-196.419 0/1:163:65,98:65:2332:98:3508:-266.855,0,-161.058 0/1:19:9,10:9:316:10:360:-27.0247,0,-23.0593 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:27:12,15:12:432:15:536:-40.4388,0,-31.0934 1/1:89:1,88:1:36:88:3131:-278.357,-23.1934,0 0/1:106:59,47:59:2116:47:1680:-119.533,0,-158.79 1/1:87:1,86:1:36:86:3084:-274.06,-22.5913,0 1/1:52:0,52:0:0:52:1864:-168.032,-15.6536,0 1/1:70:0,70:0:0:70:2482:-223.52,-21.0721,0 0/1:57:28,29:28:996:29:1027:-75.5835,0,-72.7962 0/1:36:10,26:10:360:26:932:-73.2761,0,-21.9072 1/1:81:0,81:0:0:81:2892:-260.228,-24.3834,0 1/1:46:0,46:0:0:46:1627:-145.892,-13.8474,0 chr08 30627939 . C T 21023.9 PASS AB=0.496528;ABP=3.10078;AC=28;AF=0.666667;AN=42;AO=1032;CIGAR=1X;DP=1533;DPB=1533;DPRA=1.18629;EPP=2243.97;EPPR=1090.92;GTI=0;LEN=1;MEANALT=1;MQM=59.4496;MQMR=59.7784;NS=21;NUMALT=1;ODDS=8.41631;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36964;QR=17856;RO=501;RPL=1032;RPP=2243.97;RPPR=1090.92;RPR=0;RUN=1;SAF=0;SAP=2243.97;SAR=1032;SRF=0;SRP=1090.92;SRR=501;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:66,61:66:2357:61:2191:-158.537,0,-174.142 0/1:50:26,24:26:928:24:860:-62.6703,0,-68.7844 0/1:71:47,24:47:1658:24:845:-54.9868,0,-128.125 0/1:77:42,35:42:1500:35:1260:-90.4978,0,-112.111 0/1:119:65,54:65:2279:54:1932:-138.324,0,-169.531 1/1:65:2,63:2:72:63:2260:-196.819,-12.7302,0 1/1:114:0,114:0:0:114:4076:-366.407,-34.3174,0 0/0:62:62,0:62:2232:0:0:0,-18.6639,-201.079 0/1:166:66,100:66:2353:100:3561:-270.718,0,-162.049 0/1:20:9,11:9:324:11:392:-29.5995,0,-23.4853 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:28:12,16:12:428:16:576:-43.7379,0,-30.43 1/1:90:1,89:1:36:89:3196:-284.203,-23.4944,0 0/1:106:59,47:59:2109:47:1680:-119.533,0,-158.163 1/1:87:1,86:1:36:86:3088:-274.419,-22.5913,0 1/1:53:0,53:0:0:53:1900:-171.271,-15.9546,0 1/1:71:0,71:0:0:71:2548:-229.455,-21.3731,0 0/1:59:29,30:29:1040:30:1076:-79.3921,0,-76.1536 0/1:35:10,25:10:360:25:899:-70.6433,0,-22.2083 1/1:80:0,80:0:0:80:2860:-257.349,-24.0824,0 1/1:47:0,47:0:0:47:1692:-151.621,-14.1484,0 chr08 30768648 . AGAACA CGAACA,CGTACG 28567.4 PASS AB=0.679144,0.314617;ABP=315.772,337.936;AC=14,28;AF=0.333333,0.666667;AN=42;AO=939,927;CIGAR=1X5M,1X1M1X2M1X;DP=1876;DPB=1876;DPRA=2.08273,0.508333;EPP=2042.02,2015.97;EPPR=0;GTI=8;LEN=1,6;MEANALT=2.38889,2.3;MQM=36.5953,19.849;MQMR=0;NS=21;NUMALT=2;ODDS=5.53158;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31235,32711;QR=0;RO=0;RPL=476,1;RPP=3.40112,2007.29;RPPR=0;RPR=463,926;RUN=1,1;SAF=476,1;SAP=3.40112,2007.29;SAR=463,926;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:161:0,112,48:0:0:112,48:3711,1694:-352.838,-71.5343,-37.819,-281.346,0,-266.896 1/2:116:0,64,52:0:0:64,52:2260,1822:-252.525,-77.4239,-58.158,-175.362,0,-159.709 1/2:57:0,44,13:0:0:44,13:1446,459:-127.574,-19.5287,-6.28338,-108.268,0,-104.355 1/2:105:0,86,19:0:0:86,19:2780,657:-234.664,-28.4579,-2.56934,-206.423,0,-200.704 1/2:216:0,159,56:0:0:159,56:5209,1933:-473.038,-83.0199,-35.1562,-390.073,0,-373.215 2/2:52:0,0,52:0:0:0,52:0,1866:-93.285,-93.285,-93.285,-15.6536,-15.6536,0 2/2:94:0,1,93:0:0:1,93:36,3282:-166.089,-163.42,-163.119,-27.9958,-24.9978,0 1/1:168:0,168,0:0:0:168,0:5595,0:-476.461,-50.573,0,-476.461,-50.573,-476.461 1/2:186:0,143,42:0:0:143,42:4737,1477:-411.013,-54.9866,-11.9393,-355.992,0,-343.349 1/2:12:0,9,3:0:0:9,3:296,107:-27.545,-4.93617,-2.2269,-22.8431,0,-21.94 1/2:9:0,6,3:0:0:6,3:212,106:-20.7374,-4.66196,-2.85578,-16.3178,0,-15.4147 1/2:11:0,2,9:0:0:2,9:72,321:-20.2033,-14.3914,-13.7894,-6.14012,0,-3.43085 2/2:97:0,4,93:0:0:4,93:129,3281:-166.049,-156.539,-155.335,-27.9958,-18.1923,0 1/2:88:0,48,37:0:0:48,37:1618,1317:-178.108,-55.107,-40.6575,-123.011,0,-111.873 2/2:140:0,1,139:0:0:1,139:31,4927:-248.564,-246.345,-246.044,-41.8432,-39.3451,0 2/2:48:0,0,47:0:0:0,47:0,1646:-76.5486,-76.5486,-76.5486,-14.1484,-14.1484,0 2/2:39:0,0,39:0:0:0,39:0,1368:-63.001,-63.001,-63.001,-11.7402,-11.7402,0 1/2:59:0,41,17:0:0:41,17:1366,604:-131.682,-26.8093,-14.4671,-104.939,0,-99.8217 1/2:102:0,48,54:0:0:48,54:1634,1937:-206.042,-80.7788,-66.3294,-125.528,0,-109.273 2/2:60:0,2,57:0:0:2,57:67,2009:-106.782,-101.667,-101.065,-17.1587,-11.9667,0 2/2:56:0,1,54:0:0:1,54:36,1898:-97.2584,-94.3879,-94.0868,-16.2556,-13.3256,0 chr08 30801672 . T C 18664 PASS AB=0.513193;ABP=4.1562;AC=28;AF=0.666667;AN=42;AO=933;CIGAR=1X;DP=1360;DPB=1360;DPRA=1.12241;EPP=2028.99;EPPR=921.563;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.911;NS=21;NUMALT=1;ODDS=5.68647;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32847;QR=15119;RO=427;RPL=0;RPP=2028.99;RPPR=921.563;RPR=933;RUN=1;SAF=0;SAP=2028.99;SAR=933;SRF=0;SRP=930.229;SRR=427;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:32,29:32:1116:29:999:-71.8535,0,-82.3817 0/1:54:22,32:22:788:32:1144:-87.0139,0,-54.9892 0/1:59:22,37:22:788:37:1297:-99.2687,0,-53.484 0/1:33:18,15:18:639:15:540:-39.0025,0,-47.9043 0/1:199:107,92:107:3794:92:3214:-229.576,0,-281.199 1/1:52:0,52:0:0:52:1836:-165.519,-15.6536,0 1/1:114:0,114:0:0:114:4019:-361.901,-34.3174,0 0/0:58:58,0:58:2042:0:0:0,-17.4597,-184.047 0/1:150:65,85:65:2308:85:3007:-225.706,0,-162.827 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49869 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:23:14,9:14:484:9:324:-22.5822,0,-36.9648 1/1:65:0,65:0:0:65:2293:-206.63,-19.567,0 0/1:60:29,31:29:1016:31:1091:-80.4369,0,-73.6899 1/1:71:0,71:0:0:71:2470:-222.551,-21.3731,0 1/1:48:0,48:0:0:48:1708:-154.006,-14.4494,0 1/1:67:0,67:0:0:67:2366:-213.198,-20.169,0 0/1:61:35,26:35:1256:26:917:-64.4818,0,-94.9825 0/1:46:19,27:19:676:27:946:-71.6055,0,-47.3206 1/1:92:0,92:0:0:92:3238:-291.642,-27.6948,0 1/1:35:0,35:0:0:35:1222:-110.282,-10.5361,0 chr08 30801693 . C T 8223.12 PASS AB=0.489822;ABP=3.71755;AC=14;AF=0.333333;AN=42;AO=449;CIGAR=1X;DP=1411;DPB=1411;DPRA=0.932401;EPP=901.395;EPPR=1978.41;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.2207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16095;QR=34269;RO=961;RPL=440;RPP=901.395;RPPR=1978.41;RPR=9;RUN=1;SAF=0;SAP=978.001;SAR=449;SRF=0;SRP=2089.8;SRR=961;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:30,33:30:1068:33:1180:-87.5426,0,-77.4672 0/1:56:33,23:33:1184:23:828:-57.9864,0,-90.0106 0/1:62:38,24:38:1356:24:860:-59.058,0,-103.677 0/1:36:17,19:17:604:19:680:-50.6921,0,-43.8535 0/1:205:94,111:94:3333:111:3973:-296.05,0,-238.477 0/0:54:54,0:54:1904:0:0:0,-16.2556,-171.635 0/0:123:123,0:123:4404:0:0:0,-37.0267,-396.533 1/1:64:0,64:0:0:64:2300:-207.261,-19.2659,0 0/1:157:88,69:88:3135:69:2480:-176.191,0,-235.115 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:7:4,3:4:144:3:98:-7.03608,0,-11.2064 0/1:25:10,15:10:356:15:540:-41.4108,0,-24.8555 0/0:65:65,0:65:2327:0:0:0,-19.5669,-209.689 0/1:63:33,30:33:1156:30:1072:-77.8276,0,-85.3788 0/0:72:71,0:71:2536:0:0:0,-21.3731,-228.132 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/0:69:69,0:69:2459:0:0:0,-20.7711,-221.564 0/1:62:26,36:26:936:36:1296:-98.2801,0,-65.8956 0/1:46:27,19:27:972:19:684:-48.0429,0,-73.9505 0/0:94:94,0:94:3360:0:0:0,-28.2968,-302.617 0/0:34:34,0:34:1211:0:0:0,-10.235,-109.296 chr08 30872665 . 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GAAGA AAAGT,AAAGA 84945.5 PASS AB=0.327475,0.666952;ABP=606.169,567.836;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1902,1784;CIGAR=1X3M1X,1X4M;DP=3703;DPB=3704.8;DPRA=0.803226,2.22881;EPP=4133.15,3876.92;EPPR=5.18177;GTI=2;LEN=5,1;MEANALT=2.55,2.63158;MQM=59.9553,57.4148;MQMR=39;NS=21;NUMALT=2;ODDS=16.9246;PAIRED=0,0;PAIREDR=0;PAO=4,3;PQA=123,87;PQR=0;PRO=0;QA=64824,63549;QR=26;RO=1;RPL=2,906;RPP=4115.8,3.96458;RPPR=5.18177;RPR=1900,878;RUN=1,1;SAF=2,906;SAP=4115.8,3.96458;SAR=1900,878;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:187:0,83,103:0:0:83,103:2798,3654:-524.286,-297.554,-272.568,-226.826,0,-195.82 1/2:176:0,49,126:0:0:49,126:1670,4500:-501.845,-366.358,-351.607,-135.415,0,-97.4857 1/2:227:0,100,125:0:0:100,125:3429,4454:-641.154,-362.79,-332.687,-278.35,0,-240.721 1/2:289:0,91,195:0:0:91,195:3113,6927:-816.869,-564.208,-536.814,-252.715,0,-194.014 1/2:365:0,81,282:0:0:81,282:2731,10064:-1041.2,-819.892,-795.508,-221.369,0,-136.479 1/1:184:0,181,3:0:0:181,3:6171,108:-555.155,-54.4864,0,-546.358,-45.3312,-545.455 1/1:196:0,193,3:0:0:193,3:6631,108:-596.536,-58.0988,0,-587.724,-48.9267,-586.821 2/2:217:0,0,216:0:0:0,216:0,7673:-689.057,-689.057,-689.057,-65.0225,-65.0225,0 1/2:495:1,175,318:1:26:175,318:5942,11341:-1403.66,-922.12,-871.459,-479.824,0,-386.116 1/2:15:0,3,12:0:0:3,12:108,428:-44.039,-35.2261,-34.323,-9.17208,0,-5.55972 1/2:15:0,6,9:0:0:6,9:212,324:-44.0269,-26.7636,-24.9574,-17.619,0,-14.9097 1/2:75:0,26,49:0:0:26,49:880,1756:-214.69,-143.353,-135.527,-71.6819,0,-56.9314 1/1:211:0,209,2:0:0:209,2:7171,72:-645.093,-62.9153,0,-639.218,-56.6806,-638.616 1/2:198:0,48,148:0:0:48,148:1572,5266:-555.869,-428.89,-414.441,-127.017,0,-82.4646 1/1:161:0,159,2:0:0:159,2:5427,72:-488.22,-47.8638,0,-482.355,-41.6403,-481.753 1/1:100:0,97,1:0:0:97,1:3295,36:-296.431,-29.1999,0,-293.494,-26.2551,-293.193 1/1:95:0,94,0:0:0:94,0:3213,0:-289.127,-28.2968,0,-289.127,-28.2968,-289.127 1/2:173:0,37,136:0:0:37,136:1245,4834:-494.035,-393.169,-382.031,-101.207,0,-60.2669 1/2:118:0,65,53:0:0:65,53:2195,1896:-332.733,-154.835,-135.269,-178.246,0,-162.292 1/1:134:0,133,1:0:0:133,1:4559,36:-410.13,-40.037,0,-407.197,-36.7448,-406.896 1/1:72:0,72,0:0:0:72,0:2462,0:-221.801,-21.6742,0,-221.801,-21.6742,-221.801 chr08 30998708 . G T 25799.8 PASS AB=0.542088;ABP=16.7191;AC=27;AF=0.642857;AN=42;AO=1240;CIGAR=1X;DP=1732;DPB=1732;DPRA=2.14555;EPP=2686.96;EPPR=1054.07;GTI=1;LEN=1;MEANALT=1;MQM=59.9363;MQMR=59.935;NS=21;NUMALT=1;ODDS=5.04659;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44393;QR=17554;RO=492;RPL=1;RPP=2686.96;RPPR=1054.07;RPR=1239;RUN=1;SAF=1240;SAP=2695.64;SAR=0;SRF=492;SRP=1071.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:32,62:32:1133:62:2220:-171.768,0,-73.9798 0/1:35:18,17:18:648:17:612:-44.8774,0,-48.1158 0/1:102:35,67:35:1237:67:2408:-186.271,0,-80.9272 0/1:70:32,38:32:1148:38:1355:-101.178,0,-82.5531 0/1:136:63,73:63:2253:73:2613:-194.477,0,-161.721 1/1:113:0,113:0:0:113:4040:-363.786,-34.0164,0 1/1:123:0,123:0:0:123:4408:-396.889,-37.0267,0 0/0:75:75,0:75:2669:0:0:0,-22.5772,-240.454 0/1:172:103,69:103:3681:69:2480:-171.676,0,-279.714 0/0:6:6,0:6:201:0:0:0,-1.80618,-18.417 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 1/1:159:0,159:0:0:159:5656:-509.156,-47.8638,0 0/1:94:46,48:46:1644:48:1719:-126.695,0,-119.952 1/1:150:0,150:0:0:150:5382:-484.507,-45.1545,0 1/1:37:0,37:0:0:37:1318:-118.92,-11.1381,0 1/1:49:0,49:0:0:49:1760:-158.683,-14.7505,0 0/1:97:47,50:47:1684:50:1791:-132.27,0,-122.647 0/1:71:21,50:21:756:50:1800:-140.909,0,-46.9941 1/1:74:1,73:1:36:73:2614:-231.416,-18.6779,0 1/1:55:2,53:2:68:53:1893:-164.189,-10.0989,0 chr08 30998801 . G A 11284.2 PASS AB=0.497409;ABP=3.06656;AC=15;AF=0.357143;AN=42;AO=639;CIGAR=1X;DP=1687;DPB=1687;DPRA=1.26591;EPP=1390.58;EPPR=2272.2;GTI=0;LEN=1;MEANALT=1.125;MQM=58.8138;MQMR=28.8756;NS=21;NUMALT=1;ODDS=9.07837;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22572;QR=34903;RO=1045;RPL=0;RPP=1390.58;RPPR=2272.2;RPR=639;RUN=1;SAF=0;SAP=1390.58;SAR=639;SRF=0;SRP=2272.2;SRR=1045;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:15,40:15:499:40:1397:-109.173,0,-19.9601 0/1:57:29,28:29:976:28:991:-72.1575,0,-54.3639 0/1:123:52,70:52:1772:70:2468:-185.351,0,-91.6465 0/1:117:64,53:64:2191:53:1891:-135.186,0,-122.026 0/1:140:72,68:72:2368:68:2416:-175.514,0,-133.081 0/0:76:74,2:74:2436:2:72:0,-16.0486,-173.954 0/0:109:108,0:108:3619:0:0:0,-32.5112,-264.128 1/1:142:0,142:0:0:142:4995:-449.494,-42.7463,0 0/1:184:98,86:98:3301:86:3078:-221.118,0,-185.424 1/1:11:0,11:0:0:11:387:-35.1659,-3.31133,0 0/1:8:5,3:5:165:3:100:-6.89516,0,-9.55493 0/1:24:11,13:11:392:13:451:-33.6353,0,-19.9835 0/0:78:77,1:77:2534:1:36:0,-20.8317,-184.033 0/1:105:53,52:53:1770:52:1832:-133.513,0,-97.8801 0/0:118:118,0:118:3944:0:0:0,-35.5215,-288.481 0/0:33:33,0:33:1113:0:0:0,-9.93399,-81.6485 0/0:29:29,0:29:1006:0:0:0,-8.72987,-72.9382 0/1:104:54,50:54:1793:50:1750:-126.419,0,-98.5272 0/1:47:30,17:30:997:17:604:-40.5306,0,-59.735 0/0:81:78,3:78:2606:3:104:0,-14.6806,-176.563 0/0:45:45,0:45:1421:0:0:0,-13.5463,-106.641 chr08 30998813 . AGGA GGGA,GGGG 27114.5 PASS AB=0.517824,0.470919;ABP=5.95177,10.8406;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1160,666;CIGAR=1X3M,1X2M1X;DP=1846;DPB=1846;DPRA=1.10921,1.26682;EPP=2521.92,1449.21;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.57895,2.93333;MQM=29.019,58.8468;MQMR=28;NS=21;NUMALT=2;ODDS=6.92563;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33193,22565;QR=30;RO=1;RPL=0,0;RPP=2521.92,1449.21;RPPR=5.18177;RPR=1160,666;RUN=1,1;SAF=0,0;SAP=2521.92,1449.21;SAR=1160,666;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:67:0,21,44:0:0:21,44:607,1471:-161.823,-118.951,-112.63,-42.8985,0,-29.6532 1/2:59:0,31,28:0:0:31,28:906,965:-142.598,-78.5541,-69.2221,-64.3492,0,-55.9204 1/2:131:0,59,72:0:0:59,72:1698,2451:-318.832,-199.14,-181.38,-119.988,0,-98.3134 1/2:128:0,71,56:0:0:71,56:2034,1916:-298.106,-155.57,-134.197,-142.599,0,-125.741 1/2:150:0,75,74:0:0:75,74:2161,2522:-357.059,-204.703,-182.126,-152.451,0,-130.174 1/1:96:0,91,2:0:0:91,2:2587,65:-209.154,-27.3937,0,-203.909,-22.1295,-203.307 1/1:117:0,116,0:0:0:116,0:3338,0:-269.404,-34.9195,0,-269.404,-34.9195,-269.404 2/2:149:0,0,148:0:0:0,148:0,4958:-445.998,-445.998,-445.998,-44.5524,-44.5524,0 1/2:204:0,112,90:0:0:112,90:3241,3111:-481.161,-252.294,-218.579,-228.884,0,-201.792 2/2:11:0,0,11:0:0:0,11:0,375:-34.0786,-34.0786,-34.0786,-3.31133,-3.31133,0 1/2:11:0,6,3:0:0:6,3:171,90:-19.1527,-7.20751,-5.40133,-11.9593,0,-11.0562 1/2:30:0,16,13:0:0:16,13:447,440:-66.681,-35.6027,-30.7862,-31.0253,0,-27.1119 1/1:86:0,85,0:0:0:85,0:2446,0:-197.941,-25.5876,0,-197.941,-25.5876,-197.941 1/2:115:0,62,51:0:0:62,51:1767,1758:-266.651,-142.762,-124.099,-123.855,0,-108.503 1/1:125:0,125,0:0:0:125,0:3600,0:-291.153,-37.6288,0,-291.153,-37.6288,-291.153 1/1:35:0,35,0:0:0:35,0:1011,0:-82.0151,-10.5361,0,-82.0151,-10.5361,-82.0151 1/1:31:0,31,0:0:0:31,0:880,0:-71.518,-9.33193,0,-71.518,-9.33193,-71.518 1/2:121:0,67,54:0:0:67,54:1892,1791:-276.804,-145.169,-125,-131.931,0,-115.676 1/2:50:0,32,17:0:0:32,17:907,550:-108.126,-44.4164,-34.7835,-63.7464,0,-58.6289 1/1:81:0,77,3:0:0:77,3:2156,102:-173.538,-23.1793,0,-165.261,-14.8226,-164.358 1/1:49:1,48,0:1:30:48,0:1344,0:-106.793,-12.1626,0,-107.094,-14.4494,-109.122 chr08 31012992 . A G 47286.1 PASS AB=0.512077;ABP=5.10834;AC=28;AF=0.666667;AN=42;AO=2299;CIGAR=1X;DP=3358;DPB=3358;DPRA=0.667521;EPP=4995.23;EPPR=2300.43;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9626;MQMR=59.983;NS=21;NUMALT=1;ODDS=11.5447;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81836;QR=37930;RO=1058;RPL=2299;RPP=4995.23;RPPR=2300.43;RPR=0;RUN=1;SAF=2299;SAP=4995.23;SAR=0;SRF=1058;SRP=2300.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:56,43:56:2016:43:1540:-109.091,0,-151.911 0/1:146:71,75:71:2556:75:2650:-194.792,0,-186.339 0/1:212:105,107:105:3772:107:3805:-278.742,0,-275.86 0/1:229:115,114:115:4124:114:4070:-297.55,0,-302.322 0/1:229:127,102:127:4552:102:3622:-257.246,0,-340.91 1/1:136:4,132:4:144:132:4733:-412.807,-27.6265,0 1/1:217:2,215:2:72:215:7613:-678.376,-58.4868,0 0/0:234:234,0:234:8381:0:0:0,-70.441,-754.293 0/1:332:158,174:158:5668:174:6198:-457.975,0,-410.296 0/1:13:9,4:9:320:4:144:-9.40023,0,-25.229 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:36:12,24:12:432:24:860:-66.8848,0,-28.3841 1/1:273:2,271:2:72:271:9669:-863.323,-75.3445,0 0/1:188:80,108:80:2880:108:3853:-290.37,0,-202.842 1/1:342:0,341:0:0:341:12107:-1089.14,-102.651,0 1/1:120:0,120:0:0:120:4295:-386.726,-36.1236,0 1/1:146:0,146:0:0:146:5219:-469.848,-43.9504,0 0/1:100:53,47:53:1874:47:1676:-121.024,0,-138.835 0/1:66:17,49:17:599:49:1724:-135.574,0,-34.3701 1/1:166:6,160:6:216:160:5672:-490.804,-30.1805,0 1/1:68:2,66:2:72:66:2350:-204.921,-13.6333,0 chr08 31021588 . GG AA,GA 12930 PASS AB=0.445498,0.554502;ABP=13.8985,13.8985;AC=27,15;AF=0.642857,0.357143;AN=42;AO=414,262;CIGAR=2X,1M1X;DP=676;DPB=676.5;DPRA=2.53021,1.3172;EPP=902,571.936;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.63158,1.85714;MQM=44.3961,40.9466;MQMR=0;NS=21;NUMALT=2;ODDS=8.56956;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=14070,9292;QR=0;RO=0;RPL=0,0;RPP=902,571.936;RPPR=0;RPR=414,262;RUN=1,1;SAF=0,0;SAP=902,571.936;SAR=414,262;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:22:0,8,14:0:0:8,14:260,500:-60.5605,-39.8597,-37.4514,-21.0313,0,-16.8169 1/2:31:0,13,18:0:0:13,18:451,635:-85.0079,-48.7117,-44.7984,-36.635,0,-31.2164 1/2:23:0,8,15:0:0:8,15:274,540:-65.108,-43.1213,-40.713,-22.3295,0,-17.8141 1/2:61:0,33,28:0:0:33,28:1108,981:-165.932,-77.7203,-67.7863,-88.4902,0,-80.0614 1/2:70:0,27,43:0:0:27,43:916,1513:-190.835,-118.131,-110.003,-73.0384,0,-60.0941 1/1:20:0,20,0:0:0:20,0:702,0:-62.9075,-6.0206,0,-62.9075,-6.0206,-62.9075 1/1:34:0,34,0:0:0:34,0:1156,0:-102.349,-10.235,0,-102.349,-10.235,-102.349 2/2:22:0,0,22:0:0:0,22:0,788:-67.8526,-67.8526,-67.8526,-6.62266,-6.62266,0 1/2:65:0,31,34:0:0:31,34:1037,1220:-178.929,-97.1732,-87.8413,-82.0933,0,-71.8583 1/2:9:0,4,5:0:0:4,5:133,180:-24.9735,-14.324,-13.1198,-10.9855,0,-9.48039 2/2:5:0,0,5:0:0:0,5:0,180:-15.4528,-15.4528,-15.4528,-1.50515,-1.50515,0 1/2:21:0,12,9:0:0:12,9:420,324:-59.2765,-25.5566,-21.9442,-34.065,0,-31.3557 1/1:49:0,49,0:0:0:49,0:1718,0:-151.089,-14.7505,0,-151.089,-14.7505,-151.089 1/2:52:0,17,35:0:0:17,35:553,1223:-140.012,-96.012,-90.8945,-44.3262,0,-33.7901 1/1:26:0,26,0:0:0:26,0:892,0:-78.6593,-7.82678,0,-78.6593,-7.82678,-78.6593 1/1:26:0,26,0:0:0:26,0:879,0:-78.01,-7.82678,0,-78.01,-7.82678,-78.01 1/1:13:0,13,0:0:0:13,0:450,0:-39.3742,-3.91339,0,-39.3742,-3.91339,-39.3742 1/2:40:0,20,20:0:0:20,20:678,708:-109.47,-55.1508,-49.1302,-54.6563,0,-48.6357 1/2:28:0,15,13:0:0:15,13:519,468:-78.8017,-37.3747,-32.8593,-41.7725,0,-37.8591 1/1:41:0,40,1:0:0:40,1:1308,32:-116.599,-12.0412,0,-114.078,-9.20608,-113.777 1/1:18:0,18,0:0:0:18,0:616,0:-55.1838,-5.41854,0,-55.1838,-5.41854,-55.1838 chr08 31021640 . T C 4322.42 PASS AB=0.546697;ABP=11.3252;AC=15;AF=0.357143;AN=42;AO=269;CIGAR=1X;DP=697;DPB=697;DPRA=1.5773;EPP=587.136;EPPR=932.4;GTI=0;LEN=1;MEANALT=1;MQM=40.7881;MQMR=44.6168;NS=21;NUMALT=1;ODDS=8.47437;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9582;QR=14809;RO=428;RPL=269;RPP=587.136;RPPR=932.4;RPR=0;RUN=1;SAF=0;SAP=587.136;SAR=269;SRF=0;SRP=932.4;SRR=428;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:8,13:8:254:13:468:-34.8253,0,-16.5939 0/1:31:13,18:13:464:18:648:-45.6453,0,-32.3263 0/1:26:10,16:10:356:16:576:-42.9187,0,-24.1782 0/1:63:35,28:35:1158:28:996:-68.4357,0,-84.3907 0/1:75:29,46:29:1025:46:1629:-118.39,0,-68.3392 0/0:21:21,0:21:696:0:0:0,-6.32163,-62.3651 0/0:32:32,0:32:1120:0:0:0,-9.63296,-100.159 1/1:22:0,22:0:0:22:792:-68.1406,-6.62266,0 0/1:70:35,35:35:1226:35:1252:-89.3783,0,-85.181 0/1:9:4,5:4:140:5:180:-13.1198,0,-10.0876 1/1:5:0,5:0:0:5:180:-15.4528,-1.50515,0 0/1:21:12,9:12:428:9:324:-21.9442,0,-32.0305 0/0:49:48,1:48:1693:1:21:0,-12.6834,-147.39 0/1:52:17,35:17:604:35:1237:-92.5562,0,-37.8762 0/0:26:26,0:26:894:0:0:0,-7.82678,-78.8454 0/0:26:26,0:26:920:0:0:0,-7.82678,-81.0574 0/0:15:15,0:15:513:0:0:0,-4.51545,-45.0088 0/1:42:21,21:21:717:21:739:-51.2735,0,-51.2117 0/1:29:15,14:15:525:14:504:-35.0154,0,-37.7764 0/0:41:40,1:40:1384:1:36:0,-8.88774,-119.951 0/0:21:21,0:21:692:0:0:0,-6.32163,-61.0701 chr08 31022497 . AT GC 26667 PASS AB=0.476755;ABP=8.15889;AC=28;AF=0.666667;AN=42;AO=1324;CIGAR=2X;DP=1991;DPB=1991;DPRA=1.05611;EPP=2878.04;EPPR=1440.53;GTI=0;LEN=2;MEANALT=1.25;MQM=59.9131;MQMR=60;NS=21;NUMALT=1;ODDS=8.09387;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46836;QR=23508;RO=662;RPL=0;RPP=2878.04;RPPR=1440.53;RPR=1324;RUN=1;SAF=1324;SAP=2878.04;SAR=0;SRF=662;SRP=1440.53;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:61,33:61:2166:33:1184:-78.5717,0,-166.909 0/1:54:41,13:41:1450:13:466:-26.0231,0,-114.538 0/1:89:54,35:54:1900:35:1234:-84.5699,0,-144.484 0/1:78:41,37:41:1453:37:1301:-93.8523,0,-107.584 0/1:195:98,96:98:3502:96:3388:-246.376,0,-256.629 1/1:81:0,81:0:0:81:2884:-259.796,-24.3834,0 1/1:171:0,171:0:0:171:5998:-539.904,-51.4761,0 0/0:90:90,0:90:3209:0:0:0,-27.0927,-289.034 0/1:154:75,79:75:2671:79:2783:-204.351,0,-194.276 0/1:15:8,7:8:267:7:239:-17.327,0,-19.8391 0/1:11:3,8:3:106:8:284:-22.5922,0,-6.57777 0/1:38:29,9:29:1044:9:324:-18.0667,0,-82.8357 1/1:76:0,76:0:0:76:2702:-243.423,-22.8783,0 0/1:147:84,62:84:2971:62:2202:-154.135,0,-223.312 1/1:187:0,187:0:0:187:6641:-597.77,-56.2926,0 1/1:48:0,48:0:0:48:1706:-153.825,-14.4494,0 1/1:23:0,23:0:0:23:826:-74.6638,-6.92369,0 0/1:136:54,82:54:1916:82:2875:-218.022,0,-131.775 0/1:86:23,62:23:817:62:2206:-172.985,0,-48.028 1/1:162:1,161:1:36:161:5671:-506.743,-45.1686,0 1/1:56:0,54:0:0:54:1922:-172.896,-16.2556,0 chr08 31040490 . GTCAAAG ATCAAAG,ATCGAAA 68268.5 PASS AB=0.639403,0.357041;ABP=240.334,252.597;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1913,586;CIGAR=1X6M,1X2M1X2M1X;DP=2508;DPB=2508.57;DPRA=1.55769,1.36577;EPP=2970.98,595.904;EPPR=0;GTI=1;LEN=1,7;MEANALT=2.2,2.375;MQM=59.9895,59.4078;MQMR=0;NS=21;NUMALT=2;ODDS=6.64199;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,21;PQR=0;PRO=0;QA=68308,20526;QR=0;RO=0;RPL=1038,493;RPP=33.1691,595.904;RPPR=0;RPR=875,93;RUN=1,1;SAF=1186,586;SAP=242.157,1275.49;SAR=727,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:138:0,95,43:0:0:95,43:3381,1517:-399.426,-123.873,-95.2749,-275.907,0,-262.963 1/2:65:0,37,28:0:0:37,28:1316,985:-187.552,-80.2987,-69.1606,-107.39,0,-98.961 1/2:120:0,78,42:0:0:78,42:2799,1472:-348.445,-120.129,-96.6491,-228.669,0,-216.025 1/2:135:0,91,43:0:0:91,43:3245,1488:-385.476,-120.948,-93.554,-264.576,0,-251.632 1/2:288:0,180,107:0:0:180,107:6422,3733:-826.941,-303.41,-249.225,-523.523,0,-491.313 1/1:80:0,80,0:0:0:80,0:2868,0:-258.357,-24.0824,0,-258.357,-24.0824,-258.357 1/1:83:0,81,1:0:0:81,1:2900,36:-260.876,-24.3834,0,-257.942,-21.4495,-257.641 2/2:78:0,0,78:0:0:0,78:0,2715:-243.951,-243.951,-243.951,-23.4803,-23.4803,0 1/2:179:0,92,86:0:0:92,86:3254,3021:-510.904,-245.872,-218.177,-265.025,0,-239.136 1/2:26:0,15,11:0:0:15,11:536,393:-76.0936,-32.3914,-27.8759,-44.0594,0,-40.748 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:52:0,31,21:0:0:31,21:1112,730:-150.326,-59.6877,-50.3558,-90.9896,0,-84.668 1/1:191:0,189,1:0:0:189,1:6739,36:-606.225,-56.8947,0,-603.287,-53.9573,-602.986 1/2:169:0,111,57:0:0:111,57:3953,1995:-484.534,-162.338,-128.923,-322.296,0,-305.138 1/1:249:0,248,0:0:0:248,0:8888,0:-799.689,-74.6554,0,-799.689,-74.6554,-799.689 1/1:78:0,77,0:0:0:77,0:2747,0:-247.221,-23.1793,0,-247.221,-23.1793,-247.221 1/1:68:0,67,1:0:0:67,1:2374,36:-213.555,-20.169,0,-210.618,-16.8718,-210.317 1/2:124:0,76,48:0:0:76,48:2720,1708:-360.575,-138.765,-115.887,-222.165,0,-207.716 1/2:110:0,93,16:0:0:93,16:3333,553:-316.8,-44.9569,-16.9611,-271.869,0,-267.053 1/1:215:0,212,3:0:0:212,3:7581,108:-681.968,-63.8184,0,-673.156,-54.6463,-672.253 1/1:55:0,55,0:0:0:55,0:1960,0:-176.675,-16.5567,0,-176.675,-16.5567,-176.675 chr08 31076354 . G A 23852 PASS AB=0.560818;ABP=32.8569;AC=28;AF=0.666667;AN=42;AO=1160;CIGAR=1X;DP=1675;DPB=1675;DPRA=0.747619;EPP=2521.92;EPPR=1121.32;GTI=1;LEN=1;MEANALT=1;MQM=58.9112;MQMR=38.6816;NS=21;NUMALT=1;ODDS=0.368275;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41578;QR=18413;RO=515;RPL=0;RPP=2521.92;RPPR=1121.32;RPR=1160;RUN=1;SAF=1160;SAP=2521.92;SAR=0;SRF=515;SRP=1121.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:67,54:67:2389:54:1932:-137.704,0,-166.3 0/1:40:28,12:28:1008:12:428:-26.8072,0,-69.9422 0/1:108:45,63:45:1593:63:2268:-171.753,0,-103.915 0/1:69:27,42:27:938:42:1512:-115.518,0,-60.0494 0/1:135:61,74:61:2196:74:2656:-198.479,0,-147.294 1/1:49:0,49:0:0:49:1741:-156.86,-14.7505,0 1/1:91:0,91:0:0:91:3252:-292.417,-27.3937,0 0/0:105:105,0:105:3776:0:0:0,-31.6081,-315.219 0/1:168:71,97:71:2552:97:3484:-263.162,0,-170.792 0/1:18:13,5:13:464:5:180:-11.1335,0,-34.2966 0/1:7:2,5:2:72:5:180:-14.4402,0,-4.16094 0/1:35:11,24:11:392:24:860:-67.1672,0,-23.0005 1/1:139:0,139:0:0:139:4980:-447.823,-41.8432,0 0/1:58:20,38:20:716:38:1364:-105.601,0,-44.1284 1/1:134:0,134:0:0:134:4808:-431.611,-40.338,0 1/1:57:0,57:0:0:57:2044:-183.781,-17.1587,0 1/1:54:0,54:0:0:54:1936:-174.499,-16.2556,0 0/1:113:43,70:43:1544:70:2516:-192.054,0,-94.7717 0/1:57:20,37:20:705:37:1328:-102.629,0,-44.1369 1/1:58:2,56:2:68:56:2001:-173.81,-11.002,0 1/1:59:0,59:0:0:59:2108:-188.886,-17.7608,0 chr08 31076360 . GAAT GAAC,AAAG 34694.6 PASS AB=0.552575,0.445279;ABP=25.3867,27.2506;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1153,520;CIGAR=3M1X,1X2M1X;DP=1679;DPB=1679;DPRA=0.749524,0.994009;EPP=2506.72,1132.18;EPPR=11.6962;GTI=0;LEN=1,4;MEANALT=1.7,2;MQM=58.9384,38.5346;MQMR=59;NS=21;NUMALT=2;ODDS=3.33272;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41367,18545;QR=144;RO=4;RPL=0,0;RPP=2506.72,1132.18;RPPR=11.6962;RPR=1153,520;RUN=1,1;SAF=1153,520;SAP=2506.72,1132.18;SAR=0,0;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:122:0,53,69:0:0:53,69:1900,2463:-342.477,-187.53,-171.576,-155.295,0,-134.524 1/2:41:0,12,29:0:0:12,29:432,1034:-111.001,-75.7521,-72.1398,-35.5979,0,-26.868 1/2:108:0,63,45:0:0:63,45:2264,1596:-308.051,-123.458,-104.493,-184.94,0,-171.393 1/2:69:1,40,27:1:36:40,27:1440,959:-188.441,-71.3192,-62.2161,-114.474,0,-109.284 1/2:134:0,72,62:0:0:72,62:2592,2225:-383.033,-171.692,-150.018,-211.691,0,-193.027 1/1:49:0,49,0:0:0:49,0:1760,0:-158.57,-14.7505,0,-158.57,-14.7505,-158.57 1/1:91:0,91,0:0:0:91,0:3241,0:-291.531,-27.3937,0,-291.531,-27.3937,-291.531 2/2:105:0,0,105:0:0:0,105:0,3747:-313.488,-313.488,-313.488,-31.6082,-31.6082,0 1/2:168:0,96,72:0:0:96,72:3456,2559:-482.408,-200.441,-171.543,-282.317,0,-260.643 1/2:18:0,5,13:0:0:5,13:180,464:-50.4953,-35.8017,-34.2966,-15.0469,0,-11.1335 1/2:8:0,5,3:0:0:5,3:180,104:-22.5688,-7.85697,-6.35182,-15.0423,0,-14.1392 1/2:35:0,24,11:0:0:24,11:864,395:-100.894,-30.426,-23.2013,-70.8129,0,-67.5015 1/1:139:1,138,0:1:36:138,0:4956,0:-442.086,-38.2475,0,-442.387,-41.5421,-445.322 1/2:58:0,38,20:0:0:38,20:1360,709:-165.992,-55.0753,-43.6361,-111.261,0,-105.241 1/1:133:0,132,0:0:0:132,0:4733,0:-425.665,-39.736,0,-425.665,-39.736,-425.665 1/1:57:0,57,0:0:0:57,0:2048,0:-184.13,-17.1587,0,-184.13,-17.1587,-184.13 1/1:55:0,55,0:0:0:55,0:1968,0:-177.36,-16.5567,0,-177.36,-16.5567,-177.36 1/2:113:0,70,43:0:0:70,43:2493,1541:-318.392,-115.802,-94.7303,-202.931,0,-189.986 1/2:58:0,37,21:0:0:37,21:1332,749:-167.459,-58.7983,-47.6602,-109.01,0,-102.688 1/1:59:2,57,0:2:72:57,0:2052,0:-177.977,-10.924,0,-178.579,-17.1587,-184.454 1/1:59:0,59,0:0:0:59,0:2116,0:-189.875,-17.7608,0,-189.875,-17.7608,-189.875 chr08 31076370 . TCA CAG,TAG 34252.2 PASS AB=0.556624,0.442308;ABP=29.0772,30.0702;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1157,518;CIGAR=3X,1M2X;DP=1684;DPB=1684;DPRA=0.751905,0.996291;EPP=2515.4,1127.83;EPPR=7.35324;GTI=0;LEN=3,2;MEANALT=1.9,2.07692;MQM=58.943,38.5521;MQMR=60;NS=21;NUMALT=2;ODDS=2.75546;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40987,18379;QR=72;RO=2;RPL=0,0;RPP=2515.4,1127.83;RPPR=7.35324;RPR=1157,518;RUN=1,1;SAF=1157,518;SAP=2515.4,1127.83;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,54,69:0:0:54,69:1876,2448:-339.265,-186.751,-170.496,-152.855,0,-132.084 1/2:41:0,12,29:0:0:12,29:432,1025:-110.865,-75.6155,-72.0032,-35.5979,0,-26.868 1/2:107:0,63,44:0:0:63,44:2250,1565:-304.392,-121.058,-102.093,-183.681,0,-170.435 1/2:69:0,42,27:0:0:42,27:1490,951:-195.359,-74.0178,-61.3746,-121.685,0,-113.557 1/2:136:0,74,62:0:0:74,62:2598,2215:-382.247,-170.924,-148.648,-211.667,0,-193.004 1/1:49:0,48,0:0:0:48,0:1706,0:-153.355,-14.4494,0,-153.355,-14.4494,-153.355 1/1:91:0,91,0:0:0:91,0:3215,0:-289.339,-27.3937,0,-289.339,-27.3937,-289.339 2/2:105:0,0,104:0:0:0,104:0,3707:-310.423,-310.423,-310.423,-31.3071,-31.3071,0 1/2:169:0,97,72:0:0:97,72:3434,2535:-478.032,-198.338,-169.138,-280.039,0,-258.365 1/2:18:0,5,13:0:0:5,13:178,455:-49.5756,-35.0609,-33.5557,-14.8635,0,-10.9501 1/2:8:0,5,3:0:0:5,3:180,101:-22.4398,-7.72501,-6.21986,-15.0423,0,-14.1392 1/2:35:0,24,11:0:0:24,11:855,396:-100.142,-30.4841,-23.2594,-70.0013,0,-66.69 1/1:139:0,136,0:0:0:136,0:4815,0:-432.919,-40.9401,0,-432.919,-40.9401,-432.919 1/2:59:0,39,20:0:0:39,20:1390,716:-168.894,-55.5809,-43.8407,-113.659,0,-107.638 1/1:134:0,133,0:0:0:133,0:4734,0:-425.945,-40.037,0,-425.945,-40.037,-425.945 1/1:57:0,57,0:0:0:57,0:2004,0:-180.202,-17.1587,0,-180.202,-17.1587,-180.202 1/1:55:0,55,0:0:0:55,0:1964,0:-177.012,-16.5567,0,-177.012,-16.5567,-177.012 1/2:113:0,70,43:0:0:70,43:2474,1522:-315.542,-114.525,-93.4529,-201.354,0,-188.41 1/2:58:0,36,21:0:0:36,21:1284,743:-162.666,-58.0179,-47.1808,-104.71,0,-98.3888 1/1:59:2,57,0:2:72:57,0:2024,0:-175.498,-10.924,0,-176.1,-17.1587,-181.975 1/1:59:0,59,0:0:0:59,0:2084,0:-187.264,-17.7608,0,-187.264,-17.7608,-187.264 chr08 31076377 . C T 7889.22 PASS AB=0.437964;ABP=34.5323;AC=14;AF=0.333333;AN=42;AO=514;CIGAR=1X;DP=1695;DPB=1695;DPRA=0.986884;EPP=1119.15;EPPR=2548.01;GTI=0;LEN=1;MEANALT=1.07692;MQM=38.607;MQMR=59.0102;NS=21;NUMALT=1;ODDS=1.70908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18379;QR=42227;RO=1180;RPL=0;RPP=1119.15;RPPR=2548.01;RPR=514;RUN=1;SAF=514;SAP=1119.15;SAR=0;SRF=1180;SRP=2565.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:54,69:54:1932:69:2446:-170.506,0,-137.102 0/1:44:15,29:15:536:29:1031:-71.3116,0,-35.3191 0/1:109:64,45:64:2288:45:1615:-105.378,0,-173.252 0/1:69:41,27:41:1468:27:972:-62.7399,0,-111.533 0/1:137:75,62:75:2679:62:2220:-148.966,0,-199.94 0/0:49:49,0:49:1736:0:0:0,-14.7505,-156.411 0/0:91:91,0:91:3246:0:0:0,-27.3937,-292.066 1/1:101:0,101:0:0:101:3632:-304.188,-30.404,0 0/1:167:97,70:97:3480:70:2499:-166.919,0,-263.104 0/1:19:6,13:6:216:13:459:-33.5999,0,-14.0709 0/1:8:5,3:5:180:3:101:-6.21986,0,-14.1392 0/1:35:24,11:24:864:11:396:-23.2594,0,-67.5015 0/0:141:141,0:141:5036:0:0:0,-42.4452,-453.291 0/1:58:38,20:38:1360:20:720:-44.4165,0,-105.241 0/0:133:133,0:133:4759:0:0:0,-40.037,-427.222 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.421 0/0:56:56,0:56:2003:0:0:0,-16.8577,-180.508 0/1:114:71,43:71:2540:43:1532:-93.8226,0,-194.155 0/1:60:39,21:39:1400:21:756:-47.5735,0,-108.203 0/0:61:61,0:61:2196:0:0:0,-18.3628,-197.767 0/0:63:63,0:63:2268:0:0:0,-18.9649,-203.237 chr08 31076382 . C A 8097.96 PASS AB=0.439362;ABP=33.0321;AC=14;AF=0.333333;AN=42;AO=518;CIGAR=1X;DP=1692;DPB=1692;DPRA=0.993937;EPP=1110.53;EPPR=2483.31;GTI=0;LEN=1;MEANALT=1;MQM=38.5463;MQMR=59.0383;NS=21;NUMALT=1;ODDS=2.76355;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18573;QR=42028;RO=1174;RPL=2;RPP=1110.53;RPPR=2483.31;RPR=516;RUN=1;SAF=518;SAP=1127.83;SAR=0;SRF=1174;SRP=2552.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:54,69:54:1932:69:2453:-170.982,0,-137.102 0/1:44:15,29:15:528:29:1035:-71.3452,0,-34.5962 0/1:108:64,44:64:2304:44:1584:-102.894,0,-174.991 0/1:67:41,26:41:1472:26:928:-59.7427,0,-112.55 0/1:133:72,61:72:2568:61:2196:-147.709,0,-191.17 0/0:49:49,0:49:1745:0:0:0,-14.7505,-157.22 0/0:89:89,0:89:3180:0:0:0,-26.7917,-286.24 1/1:105:0,105:0:0:105:3772:-314.998,-31.6082,0 0/1:171:98,73:98:3508:73:2609:-174.554,0,-264.437 0/1:19:6,13:6:216:13:468:-34.2541,0,-14.0709 0/1:8:5,3:5:176:3:108:-6.45919,0,-13.7727 0/1:35:24,11:24:864:11:396:-23.2594,0,-67.5015 0/0:142:142,0:142:5081:0:0:0,-42.7463,-457.278 0/1:59:39,20:39:1400:20:720:-44.1155,0,-108.538 0/0:133:133,0:133:4763:0:0:0,-40.037,-427.563 0/0:57:57,0:57:2044:0:0:0,-17.1587,-183.798 0/0:54:54,0:54:1927:0:0:0,-16.2556,-173.688 0/1:114:71,43:71:2552:43:1548:-94.7277,0,-194.985 0/1:59:38,21:38:1368:21:756:-47.8746,0,-105.625 0/0:61:61,0:61:2180:0:0:0,-18.3628,-196.33 0/0:62:62,0:62:2220:0:0:0,-18.6639,-198.991 chr08 31076472 . CTTAC CGTATTAC 29957.2 PASS AB=0.46223;ABP=16.789;AC=29;AF=0.690476;AN=42;AO=1486;CIGAR=1M3I4M;DP=2227;DPB=3124;DPRA=0.78097;EPP=3229.82;EPPR=1573.03;GTI=0;LEN=3;MEANALT=1.4;MQM=56.6178;MQMR=59.8536;NS=21;NUMALT=1;ODDS=6.28656;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52234;QR=25823;RO=731;RPL=0;RPP=3229.82;RPPR=1573.03;RPR=1486;RUN=1;SAF=0;SAP=3229.82;SAR=1486;SRF=0;SRP=1590.36;SRR=731;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:82,46:82:2896:46:1617:-107.152,0,-221.41 0/1:70:52,18:52:1820:18:631:-36.0296,0,-143.007 0/1:85:45,40:45:1593:40:1405:-100.969,0,-118.067 0/1:179:80,98:80:2829:98:3442:-255.781,0,-200.998 0/1:258:146,112:146:5145:112:3951:-277.585,0,-385.534 1/1:205:1,204:1:36:204:7202:-644.388,-58.1129,0 1/1:161:0,161:0:0:161:5673:-510.492,-48.4658,0 0/0:134:133,0:133:4743:0:0:0,-40.037,-426.73 0/1:120:63,57:63:2219:57:2027:-146.368,0,-163.851 0/1:7:1,6:1:36:6:208:-16.9443,0,-1.49106 1/1:8:0,8:0:0:8:284:-25.8966,-2.40824,0 0/1:21:12,9:12:415:9:320:-22.8076,0,-31.3592 1/1:163:0,160:0:0:160:5637:-506.238,-48.1648,0 0/1:151:76,75:76:2661:75:2586:-187.149,0,-194.24 1/1:141:0,141:0:0:141:4970:-446.873,-42.4452,0 1/1:58:0,57:0:0:57:2000:-179.727,-17.1587,0 1/1:79:0,78:0:0:78:2748:-246.885,-23.4803,0 0/1:37:22,15:22:783:15:519:-35.8362,0,-59.6558 0/1:56:18,38:18:647:38:1313:-101.434,0,-40.7626 1/1:120:0,117:0:0:117:4103:-368.16,-35.2205,0 1/1:46:0,46:0:0:46:1598:-144.045,-13.8474,0 chr08 31301553 . 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G A 11402.2 PASS AB=0.462151;ABP=21.749;AC=20;AF=0.47619;AN=42;AO=696;CIGAR=1X;DP=1558;DPB=1558;DPRA=1.44808;EPP=1514.36;EPPR=1874.82;GTI=1;LEN=1;MEANALT=1;MQM=59.9454;MQMR=59.8666;NS=21;NUMALT=1;ODDS=3.34634;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24947;QR=30898;RO=862;RPL=696;RPP=1514.36;RPPR=1874.82;RPR=0;RUN=1;SAF=0;SAP=1514.36;SAR=696;SRF=0;SRP=1874.82;SRR=862;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:49,40:49:1764:40:1440:-103.106,0,-132.252 0/1:35:26,9:26:921:9:324:-18.9698,0,-72.6692 0/1:86:67,19:67:2404:19:680:-35.6406,0,-190.728 0/1:45:38,7:38:1356:7:248:-9.11628,0,-107.602 0/1:213:70,143:70:2508:143:5144:-398.979,0,-161.853 0/1:79:50,29:50:1796:29:1025:-68.7793,0,-138.141 0/1:118:42,76:42:1508:76:2728:-210.205,0,-100.493 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/1:116:80,36:80:2872:36:1288:-81.3041,0,-223.797 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:13:10,3:10:360:3:108:-6.16178,0,-28.8309 0/1:78:57,21:57:2040:21:752:-44.5259,0,-159.006 0/1:70:42,28:42:1512:28:1004:-69.5753,0,-115.303 0/1:154:62,92:62:2220:92:3308:-251.579,0,-153.706 0/1:69:38,31:38:1368:31:1112:-79.6203,0,-102.422 0/1:52:25,27:25:881:27:949:-70.0686,0,-63.9523 0/1:56:40,16:40:1432:16:576:-35.3173,0,-112.32 0/1:55:28,27:28:1008:27:949:-69.1661,0,-74.4797 0/1:94:49,45:49:1756:45:1620:-117.79,0,-130.027 0/1:61:25,36:25:900:36:1296:-98.5811,0,-62.9582 chr08 31545913 . T A 15471.2 PASS AB=0.431777;ABP=69.6754;AC=18;AF=0.428571;AN=42;AO=713;CIGAR=1X;DP=1717;DPB=1717;DPRA=3.18086;EPP=1542.6;EPPR=2165.83;GTI=0;LEN=1;MEANALT=1;MQM=59.9986;MQMR=60;NS=21;NUMALT=1;ODDS=9.14317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25380;QR=35951;RO=1004;RPL=379;RPP=9.17753;RPPR=16.1689;RPR=334;RUN=1;SAF=380;SAP=9.73791;SAR=333;SRF=539;SRP=14.8539;SRR=465;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:43,18:43:1544:18:640:-39.5665,0,-120.89 0/1:36:26,10:26:936:10:352:-21.1809,0,-73.7224 0/1:45:31,14:31:1112:14:500:-31.7898,0,-86.845 0/1:64:45,19:45:1616:19:672:-41.5403,0,-126.464 0/1:123:68,55:68:2436:55:1941:-137.935,0,-182.469 0/1:100:50,50:50:1800:50:1773:-129.748,0,-132.179 0/1:99:53,46:53:1904:46:1648:-118.807,0,-141.836 0/0:51:51,0:51:1813:0:0:0,-15.3525,-163.45 0/1:118:67,51:67:2393:51:1828:-129.279,0,-180.104 0/0:13:12,1:12:432:1:36:0,-0.315115,-35.6229 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:23:16,7:16:572:7:252:-16.1053,0,-44.8897 0/1:105:63,42:63:2260:42:1489:-102.694,0,-172.054 0/1:85:41,44:41:1472:44:1565:-115.552,0,-107.189 0/1:132:76,56:76:2719:56:2000:-140.538,0,-205.217 0/1:22:9,13:9:320:13:464:-35.4748,0,-22.5197 0/1:27:11,16:11:381:16:563:-42.8714,0,-26.4928 0/1:119:70,49:70:2500:49:1737:-120.791,0,-189.43 0/1:174:108,66:108:3849:66:2368:-160.999,0,-294.226 0/1:123:54,69:54:1944:69:2440:-182.828,0,-138.209 0/1:193:106,87:106:3804:87:3112:-222.208,0,-284.458 chr08 31625970 . AGGAGAA GGTAGAA 41953.2 PASS AB=0.501254;ABP=3.03754;AC=27;AF=0.642857;AN=42;AO=2034;CIGAR=1X1M1X4M;DP=3180;DPB=3180;DPRA=1.15455;EPP=4419.79;EPPR=2441.57;GTI=11;LEN=7;MEANALT=1.8;MQM=59.4233;MQMR=14.6883;NS=21;NUMALT=1;ODDS=2.27266;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71606;QR=39715;RO=1123;RPL=0;RPP=4419.79;RPPR=2441.57;RPR=2034;RUN=1;SAF=2034;SAP=4419.79;SAR=0;SRF=1123;SRP=2441.57;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:106,76:106:3786:76:2690:-187.512,0,-86.974 0/1:107:60,47:60:2126:47:1661:-117.294,0,-59.7231 0/1:87:49,38:49:1742:38:1356:-96.1324,0,-39.3572 0/1:200:97,102:97:3441:102:3558:-260.178,0,-64.2548 0/1:292:124,165:124:4391:165:5820:-436.513,0,-70.7448 1/1:125:0,123:0:0:123:4329:-389.392,-37.0267,0 1/1:241:0,240:0:0:240:8409:-755.699,-72.2472,0 0/0:132:132,0:132:4666:0:0:0,-39.736,-181.434 0/1:322:238,84:238:8369:84:2973:-170.547,0,-206.492 0/1:16:7,9:7:250:9:317:-24.0533,0,-4.76065 0/1:8:4,4:4:139:4:144:-10.9054,0,-3.85161 0/1:22:11,10:11:381:10:337:-23.9772,0,-10.374 0/1:244:101,142:101:3563:142:5042:-380.372,0,-54.0351 0/1:287:115,172:115:4052:172:6035:-456.249,0,-61.0445 1/1:175:1,172:1:36:172:6092:-545.704,-49.8957,0 1/1:116:0,109:0:0:109:3825:-344.044,-32.8123,0 1/1:108:0,107:0:0:107:3774:-339.511,-32.2102,0 0/1:105:44,60:44:1556:60:2122:-159.293,0,-29.0774 0/1:121:31,90:31:1109:90:3185:-250.373,0,-2.78717 1/1:228:3,224:3:108:224:7828:-699.927,-64.6341,0 1/1:62:0,60:0:0:60:2109:-189.719,-18.0618,0 chr08 31626008 . A T 552.455 PASS AB=0.508914;ABP=4.28784;AC=15;AF=0.357143;AN=42;AO=1075;CIGAR=1X;DP=2918;DPB=2918;DPRA=1.36067;EPP=2337.34;EPPR=3994.18;GTI=11;LEN=1;MEANALT=1;MQM=14.8642;MQMR=59.304;NS=21;NUMALT=1;ODDS=4.8584;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38050;QR=64348;RO=1842;RPL=1075;RPP=2337.34;RPPR=4002.86;RPR=0;RUN=1;SAF=1075;SAP=2337.34;SAR=0;SRF=1841;SRP=3994.18;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:72,95:72:2530:95:3376:-76.4198,0,-171.719 0/1:99:41,58:41:1464:58:2076:-59.1563,0,-101.396 0/1:80:36,44:36:1262:44:1553:-33.707,0,-89.7784 0/1:192:97,95:97:3335:95:3384:-63.8641,0,-242.551 0/1:266:147,119:147:5139:119:4228:-70.7169,0,-382.523 0/0:120:120,0:120:4213:0:0:0,-36.1236,-379.098 0/0:206:205,1:205:7094:1:36:0,-58.4165,-631.784 1/1:127:0,127:0:0:127:4500:-173.53,-38.2308,0 0/1:307:78,229:78:2717:229:8013:-201.232,0,-151.296 0/1:16:9,7:9:305:7:248:-4.75767,0,-22.9607 0/1:6:2,4:2:72:4:144:-4.46412,0,-5.03054 0/1:18:7,11:7:244:11:377:-12.1374,0,-16.8809 0/1:233:134,99:134:4741:99:3540:-56.8099,0,-356.657 0/1:253:147,106:147:5088:106:3728:-57.9969,0,-379.966 0/0:159:158,0:158:5523:0:0:0,-47.5627,-496.735 0/0:106:106,0:106:3761:0:0:0,-31.9092,-338.542 0/0:101:101,0:101:3563:0:0:0,-30.404,-319.83 0/1:102:57,45:57:2025:45:1599:-33.3024,0,-151.021 0/1:112:82,30:82:2903:30:1068:-4.14276,0,-225.844 0/0:189:184,5:184:6304:5:180:0,-46.3616,-556.452 0/0:59:59,0:59:2065:0:0:0,-17.7608,-186.117 chr08 31661109 . GTT GTG,CTG 42610.8 PASS AB=0.526656,0.463651;ABP=10.6508,17.2178;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1358,676;CIGAR=2M1X,1X1M1X;DP=2049;DPB=2049;DPRA=0.995408,0.853825;EPP=2865.65,1419.27;EPPR=9.52472;GTI=0;LEN=1,3;MEANALT=2.2,2.4375;MQM=59.9728,59.6317;MQMR=60;NS=21;NUMALT=2;ODDS=4.23791;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47804,23684;QR=100;RO=3;RPL=10,6;RPP=2865.65,1419.27;RPPR=9.52472;RPR=1348,670;RUN=1,1;SAF=0,0;SAP=2951.87,1470.93;SAR=1358,676;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:138:0,72,65:0:0:72,65:2537,2280:-392.09,-185.535,-163.861,-206.547,0,-186.98 1/2:68:0,39,28:0:0:39,28:1368,973:-190.458,-79.1294,-67.3893,-111.356,0,-102.928 1/2:113:0,63,50:0:0:63,50:2217,1734:-321.75,-141.27,-122.305,-180.829,0,-165.777 1/2:93:0,62,30:0:0:62,30:2179,1048:-262.681,-85.3167,-66.6529,-177.442,0,-168.411 1/2:208:3,106,95:3:100:106,95:3718,3328:-564.103,-262.441,-238.625,-294.488,0,-273.984 1/1:116:0,114,0:0:0:114,0:4018,0:-361.451,-34.3174,0,-361.451,-34.3174,-361.451 1/1:145:0,145,0:0:0:145,0:5149,0:-463.553,-43.6494,0,-463.553,-43.6494,-463.553 2/2:98:0,0,97:0:0:0,97:0,3397:-305.578,-305.578,-305.578,-29.1999,-29.1999,0 1/2:157:0,86,71:0:0:86,71:3039,2520:-453.039,-205.539,-179.651,-247.854,0,-226.481 1/2:15:0,2,13:0:0:2,13:63,440:-41.0719,-36.0088,-35.4068,-5.38109,0,-1.4677 1/2:8:0,1,7:0:0:1,7:36,252:-23.8592,-20.9217,-20.6207,-3.29724,0,-1.19003 1/2:18:0,6,12:0:0:6,12:208,422:-51.6071,-34.7024,-32.8962,-17.2529,0,-13.6405 1/2:165:0,101,63:0:0:101,63:3555,2222:-470.261,-180.856,-150.452,-289.398,0,-270.433 1/2:72:0,23,49:0:0:23,49:809,1716:-205.807,-139.953,-133.029,-66.2057,0,-51.4552 1/1:137:0,137,0:0:0:137,0:4857,0:-437.287,-41.2411,0,-437.287,-41.2411,-437.287 1/1:68:0,68,0:0:0:68,0:2385,0:-214.903,-20.47,0,-214.903,-20.47,-214.903 1/1:63:0,62,1:0:0:62,1:2168,36:-195.018,-18.6639,0,-192.08,-15.3666,-191.779 1/2:101:0,39,61:0:0:39,61:1375,2120:-284.307,-172.35,-160.61,-111.954,0,-93.5913 1/2:82:0,52,30:0:0:52,30:1852,1052:-236.913,-85.9591,-70.3055,-151.306,0,-142.275 1/1:101:0,97,4:0:0:97,4:3394,144:-305.318,-29.1999,0,-293.568,-17.0904,-292.364 1/1:83:0,83,0:0:0:83,0:2877,0:-259.169,-24.9855,0,-259.169,-24.9855,-259.169 chr08 31661173 . G T 10426.1 PASS AB=0.551845;ABP=16.2948;AC=28;AF=0.666667;AN=42;AO=535;CIGAR=1X;DP=867;DPB=867;DPRA=0.528;EPP=1156.08;EPPR=723.939;GTI=0;LEN=1;MEANALT=1;MQM=59.9402;MQMR=59.988;NS=21;NUMALT=1;ODDS=3.43228;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19072;QR=11830;RO=332;RPL=534;RPP=1156.08;RPPR=723.939;RPR=1;RUN=1;SAF=535;SAP=1164.75;SAR=0;SRF=332;SRP=723.939;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:34,20:34:1192:20:720:-48.8732,0,-91.3268 0/1:26:14,12:14:500:12:424:-30.6696,0,-37.5094 0/1:36:24,12:24:864:12:428:-28.0217,0,-67.2455 0/1:44:13,31:13:468:31:1096:-85.6452,0,-29.2143 0/1:75:46,29:46:1629:29:1015:-69.0814,0,-124.32 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:39:0,39:0:0:39:1395:-125.849,-11.7402,0 0/0:75:75,0:75:2653:0:0:0,-22.5772,-239.016 0/1:95:30,65:30:1080:65:2304:-179.024,0,-68.9154 1/1:9:0,9:0:0:9:318:-28.9604,-2.70927,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/1:52:13,39:13:464:39:1396:-110.286,0,-26.4439 0/1:51:23,28:23:824:28:1004:-75.3233,0,-59.1284 1/1:34:0,34:0:0:34:1216:-109.747,-10.235,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:74:28,46:28:1004:46:1633:-124.981,0,-68.3996 0/1:44:20,24:20:720:24:860:-64.4765,0,-51.8835 1/1:63:2,61:2:72:61:2190:-190.529,-12.1282,0 1/1:35:0,35:0:0:35:1241:-111.993,-10.5361,0 chr08 31661194 . G C 9902.06 PASS AB=0.549372;ABP=14.8033;AC=28;AF=0.666667;AN=42;AO=522;CIGAR=1X;DP=855;DPB=855;DPRA=0.498077;EPP=1136.52;EPPR=723.939;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9387;MQMR=60;NS=21;NUMALT=1;ODDS=2.23152;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18438;QR=11803;RO=332;RPL=522;RPP=1136.52;RPPR=723.939;RPR=0;RUN=1;SAF=522;SAP=1136.52;SAR=0;SRF=332;SRP=723.939;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:29,20:29:1031:20:711:-49.5652,0,-78.3522 0/1:27:14,13:14:496:13:454:-33.0635,0,-36.8465 0/1:36:24,12:24:852:12:432:-28.3841,0,-66.1633 0/1:45:14,31:14:495:31:1089:-83.9923,0,-31.3367 0/1:71:46,25:46:1632:25:884:-58.5047,0,-125.796 1/1:17:0,17:0:0:17:596:-53.9678,-5.11751,0 1/1:37:0,37:0:0:37:1315:-118.651,-11.1381,0 0/0:78:78,0:78:2791:0:0:0,-23.4803,-251.43 0/1:98:32,65:32:1144:65:2269:-174.91,0,-73.7099 1/1:9:0,9:0:0:9:305:-27.7772,-2.70927,0 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/1:52:13,39:13:464:39:1372:-108.122,0,-26.4439 0/1:46:20,26:20:716:26:924:-69.6303,0,-50.9203 1/1:37:0,37:0:0:37:1298:-117.12,-11.1381,0 1/1:13:0,13:0:0:13:451:-40.919,-3.91339,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:72:28,44:28:983:44:1552:-118.295,0,-67.1084 0/1:44:20,24:20:704:24:864:-64.8372,0,-50.4392 1/1:62:3,59:3:108:59:2107:-179.823,-8.58869,0 1/1:32:1,31:1:27:31:1099:-96.5197,-6.93318,0 chr08 31661240 . CGT TGC,CGC 18428.1 PASS AB=0.455497,0.544503;ABP=12.8672,12.8672;AC=27,15;AF=0.642857,0.357143;AN=42;AO=517,378;CIGAR=1X1M1X,2M1X;DP=900;DPB=900;DPRA=0.653125,1.54424;EPP=1125.66,823.827;EPPR=5.18177;GTI=1;LEN=3,1;MEANALT=1.95,2.05882;MQM=59.6074,59.9841;MQMR=60;NS=21;NUMALT=2;ODDS=2.04574;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18245,13490;QR=28;RO=1;RPL=0,0;RPP=1125.66,823.827;RPPR=5.18177;RPR=517,378;RUN=1,1;SAF=0,0;SAP=1125.66,823.827;SAR=517,378;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:31:0,13,18:0:0:13,18:455,648:-90.2471,-53.2333,-49.32,-37.3677,0,-31.9492 1/2:31:0,16,15:0:0:16,15:549,540:-88.9843,-44.4211,-39.6046,-44.9148,0,-40.3994 1/2:36:0,21,15:0:0:21,15:756,540:-106.107,-44.4211,-38.0995,-62.0456,0,-57.5301 1/2:78:0,25,53:0:0:25,53:884,1896:-226.952,-154.959,-147.433,-72.3481,0,-56.3935 1/2:45:0,13,32:0:0:13,32:459,1136:-130.293,-92.9159,-89.0025,-37.7307,0,-28.0977 1/1:35:0,34,1:0:0:34,1:1205,32:-108.431,-10.235,0,-105.853,-7.33674,-105.552 1/1:65:0,63,1:0:0:63,1:2226,36:-200.262,-18.9649,0,-197.324,-15.9875,-197.023 2/2:64:0,0,63:0:0:0,63:0,2222:-199.99,-199.99,-199.99,-18.9649,-18.9649,0 1/2:60:0,32,28:0:0:32,28:1124,1004:-173.727,-82.247,-72.6141,-91.8349,0,-83.406 1/2:7:0,5,2:0:0:5,2:169,72:-19.918,-6.23466,-4.72951,-14.0369,0,-13.4348 1/2:4:0,2,2:0:0:2,2:56,72:-10.6311,-6.23466,-5.6326,-4.71626,0,-4.1142 1/2:11:0,4,7:0:0:4,7:139,252:-32.2182,-20.9217,-19.7176,-11.6484,0,-9.54117 1/2:77:0,29,48:0:0:29,48:1017,1720:-223.387,-140.636,-131.906,-83.1047,0,-68.6553 1/2:71:0,27,44:0:0:27,44:952,1565:-205.393,-127.894,-119.767,-77.8519,0,-64.6066 1/1:46:0,45,0:0:0:45,0:1601,0:-144.105,-13.5464,0,-144.105,-13.5464,-144.105 1/1:15:0,15,0:0:0:15,0:533,0:-48.3031,-4.51545,0,-48.3031,-4.51545,-48.3031 1/1:20:0,19,0:0:0:19,0:682,0:-61.4259,-5.71957,0,-61.4259,-5.71957,-61.4259 1/2:74:0,43,31:0:0:43,31:1490,1107:-211.688,-90.6082,-77.6639,-121.432,0,-112.1 1/2:48:0,31,17:0:0:31,17:1105,612:-140.365,-50.2959,-40.964,-90.4278,0,-85.3103 1/1:44:0,43,1:0:0:43,1:1542,36:-138.695,-12.9443,0,-135.758,-9.64705,-135.457 1/1:38:1,37,0:1:28:37,0:1301,0:-114.374,-8.63941,0,-114.675,-11.1381,-116.891 chr08 31742286 . TGA CGG,TGG 19524 PASS AB=0.348057,0.651943;ABP=116.51,116.51;AC=26,16;AF=0.619048,0.380952;AN=42;AO=500,443;CIGAR=1X1M1X,2M1X;DP=943;DPB=943;DPRA=1.31278,2.10297;EPP=1088.75,964.973;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.73684,1.875;MQM=59.88,59.9774;MQMR=0;NS=21;NUMALT=2;ODDS=0.875097;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17616,15790;QR=0;RO=0;RPL=0,0;RPP=1088.75,964.973;RPPR=0;RPR=500,443;RUN=1,1;SAF=500,443;SAP=1088.75,964.973;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:96:0,24,72:0:0:24,72:850,2580:-280.014,-210.775,-203.55,-69.5941,0,-47.92 1/2:26:0,4,22:0:0:4,22:144,780:-75.6509,-63.9004,-62.6963,-12.1095,0,-5.48684 1/2:63:0,18,45:0:0:18,45:634,1597:-182.087,-130.472,-125.053,-51.9683,0,-38.4219 1/2:34:0,16,18:0:0:16,18:567,648:-99.4207,-53.2333,-48.4169,-46.5442,0,-41.1257 1/2:117:0,23,94:0:0:23,94:808,3342:-338.433,-272.698,-265.775,-66.0868,0,-37.79 1/1:29:0,29,0:0:0:29,0:1019,0:-92.0212,-8.72987,0,-92.0212,-8.72987,-92.0212 1/1:26:0,26,0:0:0:26,0:924,0:-83.4754,-7.82678,0,-83.4754,-7.82678,-83.4754 2/2:63:0,0,63:0:0:0,63:0,2264:-204.022,-204.022,-204.022,-18.9649,-18.9649,0 1/2:64:0,24,40:0:0:24,40:854,1417:-185.386,-115.784,-108.559,-69.9566,0,-57.9154 2/2:7:0,0,7:0:0:0,7:0,252:-23.029,-23.029,-23.029,-2.10721,-2.10721,0 1/2:4:0,2,2:0:0:2,2:70,72:-11.9251,-6.23466,-5.6326,-6.04527,0,-5.44321 1/2:20:0,10,10:0:0:10,10:360,351:-58.295,-28.9164,-25.9061,-29.734,0,-26.7237 1/2:68:0,36,32:0:0:36,32:1263,1123:-194.525,-91.7422,-80.9052,-103.133,0,-93.5001 1/1:53:0,53,0:0:0:53,0:1851,0:-166.867,-15.9546,0,-166.867,-15.9546,-166.867 1/1:84:0,83,1:0:0:83,1:2926,36:-263.214,-24.9855,0,-260.277,-21.6882,-259.976 1/1:9:0,9,0:0:0:9,0:322,0:-29.3242,-2.70927,0,-29.3242,-2.70927,-29.3242 1/2:7:0,6,1:0:0:6,1:207,36:-20.1002,-3.29724,-1.49106,-17.1606,0,-16.8596 1/2:39:0,15,24:0:0:15,24:535,860:-114.109,-70.4971,-65.9817,-43.9691,0,-36.7444 1/2:28:0,19,9:0:0:19,9:658,324:-80.2633,-26.7966,-21.077,-53.8222,0,-51.1129 1/1:101:0,98,3:0:0:98,3:3444,108:-309.815,-29.5009,0,-301.003,-20.3289,-300.099 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 chr08 31742612 . C T 42794.5 PASS AB=0.540823;ABP=23.7537;AC=28;AF=0.666667;AN=42;AO=2046;CIGAR=1X;DP=2867;DPB=2867;DPRA=0.845938;EPP=4445.84;EPPR=1785.79;GTI=1;LEN=1;MEANALT=1;MQM=59.587;MQMR=59.6273;NS=21;NUMALT=1;ODDS=6.71456;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73247;QR=29348;RO=821;RPL=2046;RPP=4445.84;RPPR=1785.79;RPR=0;RUN=1;SAF=0;SAP=4445.84;SAR=2046;SRF=0;SRP=1785.79;SRR=821;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:58,71:58:2073:71:2521:-188.295,0,-147.97 0/1:102:61,41:61:2177:41:1464:-101.327,0,-165.358 0/1:124:47,77:47:1680:77:2737:-209.219,0,-114.159 0/1:103:37,66:37:1317:66:2364:-181.923,0,-87.8237 0/1:222:117,105:117:4192:105:3758:-271.573,0,-310.616 1/1:156:0,156:0:0:156:5561:-499.79,-46.9607,0 1/1:218:0,218:0:0:218:7844:-705.891,-65.6245,0 0/0:160:160,0:160:5728:0:0:0,-48.1648,-515.585 0/1:228:83,145:83:2972:145:5197:-399.203,0,-199.075 0/1:43:23,20:23:824:20:717:-51.8679,0,-61.5252 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.02959 0/1:43:22,21:22:788:21:756:-55.4137,0,-58.2328 0/1:156:72,84:72:2576:84:3004:-223.615,0,-185.023 1/1:147:0,147:0:0:147:5251:-472.229,-44.2514,0 1/1:266:0,266:0:0:266:9540:-858.217,-80.074,0 1/1:110:0,110:0:0:110:3952:-355.868,-33.1133,0 1/1:194:0,194:0:0:194:6930:-623.745,-58.3998,0 0/1:190:108,82:108:3860:82:2948:-208.344,0,-290.372 0/1:87:28,59:28:981:59:2114:-164.332,0,-62.4114 1/1:109:3,106:3:108:106:3793:-331.315,-22.7371,0 1/1:74:0,74:0:0:74:2652:-238.877,-22.2762,0 chr08 31742618 . A T 14634.2 PASS AB=0.46816;ABP=15.5939;AC=14;AF=0.333333;AN=42;AO=832;CIGAR=1X;DP=2840;DPB=2840;DPRA=0.744522;EPP=1809.68;EPPR=4361.16;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.6226;MQMR=59.6348;NS=21;NUMALT=1;ODDS=4.5772;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29746;QR=71877;RO=2007;RPL=832;RPP=1809.68;RPPR=4361.16;RPR=0;RUN=1;SAF=0;SAP=1809.68;SAR=832;SRF=0;SRP=4361.16;SRR=2007;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:69,58:69:2480:58:2076:-148.861,0,-185.202 0/1:103:40,63:40:1425:63:2247:-170.523,0,-97.5149 0/1:123:76,47:76:2728:47:1677:-114.188,0,-208.71 0/1:103:66,37:66:2334:37:1332:-89.1763,0,-179.301 0/1:219:99,120:99:3552:120:4304:-321.602,0,-253.946 0/0:150:150,0:150:5357:0:0:0,-45.1545,-481.715 0/0:216:216,0:216:7760:0:0:0,-65.0225,-698.342 1/1:160:0,160:0:0:160:5744:-517.018,-48.1648,0 0/1:229:144,85:144:5160:85:3026:-203.631,0,-395.584 0/1:42:19,23:19:665:23:809:-60.4712,0,-47.455 0/1:6:4,2:4:144:2:72:-5.02959,0,-11.5074 0/1:44:20,24:20:720:24:864:-64.7696,0,-51.8742 0/1:153:81,72:81:2904:72:2565:-184.935,0,-215.521 0/0:140:140,0:140:5016:0:0:0,-42.1442,-451.457 0/0:265:265,0:265:9480:0:0:0,-79.7729,-852.807 0/0:110:110,0:110:3932:0:0:0,-33.1133,-354.072 0/0:187:187,0:187:6720:0:0:0,-56.2926,-604.855 0/1:191:80,110:80:2868:110:3922:-295.595,0,-200.798 0/1:89:61,28:61:2192:28:1000:-63.5237,0,-170.744 0/0:110:107,3:107:3832:3:108:0,-23.0381,-334.825 0/0:73:73,0:73:2608:0:0:0,-21.9752,-234.92 chr08 31743692 . G A 12381.8 PASS AB=0.513642;ABP=4.37294;AC=14;AF=0.333333;AN=42;AO=652;CIGAR=1X;DP=1568;DPB=1568;DPRA=1.63969;EPP=1375.71;EPPR=1940.31;GTI=0;LEN=1;MEANALT=1;MQM=59.5261;MQMR=59.4574;NS=21;NUMALT=1;ODDS=15.947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23376;QR=32731;RO=916;RPL=647;RPP=1375.71;RPPR=1940.31;RPR=5;RUN=1;SAF=652;SAP=1418.81;SAR=0;SRF=916;SRP=1992.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:14,42:14:504:42:1508:-119.152,0,-28.8404 0/1:45:23,22:23:828:22:792:-58.0593,0,-60.6155 0/1:123:69,54:69:2476:54:1932:-137.112,0,-186.059 0/1:74:29,45:29:1025:45:1620:-123.811,0,-70.1934 0/1:66:28,38:28:1004:38:1360:-102.695,0,-70.7192 0/0:69:66,3:66:2364:3:108:0,-10.7323,-202.971 0/0:80:79,1:79:2824:1:36:0,-20.4841,-250.116 1/1:212:0,212:0:0:212:7618:-685.495,-63.8184,0 0/1:133:58,75:58:2058:75:2685:-201.657,0,-145.416 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/1:9:7,2:7:248:2:72:-4.1265,0,-19.9467 0/1:43:19,24:19:684:24:860:-64.7729,0,-48.946 0/1:150:76,74:76:2728:74:2637:-192.415,0,-200.606 0/0:79:79,0:79:2825:0:0:0,-23.7814,-254.433 0/0:62:62,0:62:2220:0:0:0,-18.6639,-199.967 0/0:40:40,0:40:1424:0:0:0,-12.0412,-128.424 0/0:35:35,0:35:1245:0:0:0,-10.536,-112.328 0/1:81:44,37:44:1557:37:1328:-95.4274,0,-115.982 0/1:52:34,18:34:1216:18:640:-42.2711,0,-94.093 0/0:113:110,3:110:3929:3:108:0,-23.9412,-343.556 0/0:35:35,0:35:1248:0:0:0,-10.536,-112.617 chr08 31743705 . G C 20156.3 PASS AB=0.489607;ABP=3.82272;AC=28;AF=0.666667;AN=42;AO=961;CIGAR=1X;DP=1620;DPB=1620;DPRA=0.335714;EPP=2089.8;EPPR=1429.67;GTI=0;LEN=1;MEANALT=1.1;MQM=59.462;MQMR=59.586;NS=21;NUMALT=1;ODDS=14.908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34141;QR=23487;RO=657;RPL=931;RPP=1837.35;RPPR=1318.99;RPR=30;RUN=1;SAF=931;SAP=1837.35;SAR=30;SRF=644;SRP=1318.99;SRR=13;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:48,17:48:1716:17:612:-35.8465,0,-135.152 0/1:54:29,25:29:1040:25:884:-63.4063,0,-77.6587 0/1:124:54,70:54:1936:70:2494:-187.377,0,-137.168 0/1:77:45,32:45:1616:32:1114:-77.2928,0,-122.548 0/1:73:37,36:37:1313:36:1292:-94.5023,0,-96.4312 1/1:69:2,67:2:72:67:2371:-206.834,-13.9714,0 1/1:81:1,80:1:36:80:2859:-253.264,-20.7852,0 0/0:210:210,0:210:7504:0:0:0,-63.2163,-675.243 0/1:126:69,57:69:2459:57:2028:-144.834,0,-183.444 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:10:2,8:2:72:8:279:-22.429,0,-3.82547 0/1:44:25,19:25:896:19:684:-48.645,0,-67.7104 0/1:148:74,73:74:2652:73:2612:-190.714,0,-194.307 1/1:79:0,79:0:0:79:2827:-254.657,-23.7814,0 1/1:72:0,72:0:0:72:2554:-230.012,-21.6742,0 1/1:48:0,48:0:0:48:1689:-152.261,-14.4494,0 1/1:41:0,41:0:0:41:1444:-130.237,-12.3422,0 0/1:81:38,43:38:1360:43:1536:-114.096,0,-98.3008 0/1:53:18,35:18:644:35:1234:-95.4081,0,-42.3314 1/1:119:3,115:3:99:115:4061:-356.262,-26.6373,0 1/1:35:0,35:0:0:35:1243:-112.166,-10.5361,0 chr08 31853692 . ACCAA ACAA,ACGAA 35172.7 PASS AB=0.512077,0.479469;ABP=4.05932,6.04197;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1426,471;CIGAR=1M1D3M,2M1X2M;DP=1905;DPB=1619.8;DPRA=1.27292,0.73062;EPP=3099.53,1025.77;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.95,2.42857;MQM=37.4173,52.414;MQMR=0;NS=21;NUMALT=2;ODDS=10.9861;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46827,16828;QR=0;RO=0;RPL=0,0;RPP=3099.53,1025.77;RPPR=0;RPR=1426,471;RUN=1,1;SAF=1426,471;SAP=3099.53,1025.77;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:129:0,64,64:0:0:64,64:2216,2282:-359.162,-185.273,-166.007,-173.959,0,-154.693 1/2:98:0,60,38:0:0:60,38:1824,1364:-241.747,-111.244,-93.1817,-130.829,0,-119.39 1/2:112:0,58,52:0:0:58,52:1986,1864:-304.572,-150.387,-132.927,-154.188,0,-138.535 1/2:150:0,60,90:0:0:60,90:2076,3212:-423.255,-260.546,-242.484,-163.053,0,-135.96 1/1:144:0,143,1:0:0:143,1:4862,36:-421.916,-43.0473,0,-418.986,-39.7591,-418.685 1/1:90:0,90,0:0:0:90,0:2722,0:-222.288,-27.0927,0,-222.288,-27.0927,-222.288 1/1:106:0,106,0:0:0:106,0:3221,0:-262.4,-31.9092,0,-262.4,-31.9092,-262.4 2/2:72:0,0,71:0:0:0,71:0,2518:-225.346,-225.346,-225.346,-21.3731,-21.3731,0 1/2:108:0,53,54:0:0:53,54:1808,1932:-300.857,-157.594,-141.64,-143.326,0,-127.071 1/2:8:0,2,5:0:0:2,5:62,180:-19.063,-14.6464,-14.0443,-4.38372,0,-2.87857 1/2:5:0,4,1:0:0:4,1:124,36:-12.1045,-3.29553,-2.09141,-9.15271,0,-8.85168 1/2:32:0,16,16:0:0:16,16:484,576:-81.5918,-46.9884,-42.1719,-34.9191,0,-30.1026 1/2:80:0,46,34:0:0:46,34:1525,1212:-217.731,-98.8846,-85.0373,-119.187,0,-108.952 1/1:141:0,141,0:0:0:141,0:4716,0:-409.655,-42.4452,0,-409.655,-42.4452,-409.655 1/1:204:0,204,0:0:0:204,0:6883,0:-598.174,-61.4101,0,-598.174,-61.4101,-598.174 1/1:70:0,70,0:0:0:70,0:2358,0:-207.98,-21.0721,0,-207.98,-21.0721,-207.98 1/1:104:0,104,0:0:0:104,0:3629,0:-319.208,-31.3071,0,-319.208,-31.3071,-319.208 1/2:69:0,36,32:0:0:36,32:1106,1148:-172.08,-93.1654,-82.3283,-78.8956,0,-69.2627 1/2:37:0,25,11:0:0:25,11:863,396:-99.1074,-32.2164,-24.6907,-66.8829,0,-63.5716 1/1:87:0,85,2:0:0:85,2:2557,72:-208.554,-25.5876,0,-202.693,-19.3701,-202.091 1/1:59:0,59,0:0:0:59,0:1805,0:-146.985,-17.7608,0,-146.985,-17.7608,-146.985 chr08 31853704 . AGCTT GGCTA 27198 PASS AB=0.518214;ABP=5.46246;AC=29;AF=0.690476;AN=42;AO=1489;CIGAR=1X3M1X;DP=1975;DPB=1975;DPRA=1.30274;EPP=3236.33;EPPR=1058.35;GTI=1;LEN=5;MEANALT=1;MQM=37.3163;MQMR=52.1914;NS=21;NUMALT=1;ODDS=11.9125;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52667;QR=17155;RO=486;RPL=0;RPP=3236.33;RPPR=1058.35;RPR=1489;RUN=1;SAF=1489;SAP=3236.33;SAR=0;SRF=486;SRP=1058.35;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:67,67:67:2362:67:2371:-165.167,0,-171.353 0/1:99:38,61:38:1354:61:2180:-133.252,0,-91.985 0/1:115:55,60:55:1931:60:2113:-146.085,0,-137.638 0/1:153:90,63:90:3196:63:2193:-144.974,0,-239.991 1/1:151:1,150:1:35:150:5293:-452.039,-41.9641,0 1/1:96:0,96:0:0:96:3386:-254.277,-28.8989,0 1/1:113:0,113:0:0:113:3954:-296.676,-34.0164,0 0/0:73:73,0:73:2534:0:0:0,-21.9752,-226.885 0/1:113:57,56:57:2020:56:1980:-139.928,0,-148.018 0/1:9:6,3:6:211:3:107:-5.61239,0,-16.5799 0/1:5:1,4:1:36:4:138:-9.33141,0,-2.09141 0/1:34:16,18:16:565:18:634:-37.7346,0,-40.7399 0/1:80:34,46:34:1207:46:1640:-117.016,0,-84.5995 1/1:150:0,150:0:0:150:5289:-453.499,-45.1545,0 1/1:213:0,213:0:0:213:7556:-647.577,-64.1194,0 1/1:72:0,72:0:0:72:2556:-224.731,-21.6742,0 1/1:106:0,106:0:0:106:3751:-328.302,-31.9092,0 0/1:69:33,36:33:1174:36:1276:-74.7295,0,-84.524 0/1:40:13,27:13:458:27:967:-70.0384,0,-29.4072 1/1:88:2,86:2:72:86:3065:-222.215,-19.6711,0 1/1:62:0,62:0:0:62:2218:-165.171,-18.6639,0 chr08 31853709 . C A 8183.37 PASS AB=0.479191;ABP=6.17327;AC=13;AF=0.309524;AN=42;AO=478;CIGAR=1X;DP=1957;DPB=1957;DPRA=0.71402;EPP=1040.97;EPPR=3214.62;GTI=1;LEN=1;MEANALT=1;MQM=52.2427;MQMR=37.3347;NS=21;NUMALT=1;ODDS=12.2063;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17133;QR=52906;RO=1479;RPL=0;RPP=1040.97;RPPR=3214.62;RPR=478;RUN=1;SAF=478;SAP=1040.97;SAR=0;SRF=1479;SRP=3214.62;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:67,66:67:2389:66:2368:-171.907,0,-166.566 0/1:99:61,38:61:2188:38:1368:-93.2303,0,-133.453 0/1:114:60,54:60:2152:54:1940:-138.535,0,-148.513 0/1:148:63,85:63:2255:85:3034:-227.404,0,-150.252 0/0:150:149,1:149:5327:1:36:0,-41.5653,-452.895 0/0:96:96,0:96:3420:0:0:0,-28.8989,-254.905 0/0:112:112,0:112:4008:0:0:0,-33.7154,-297.959 1/1:72:0,72:0:0:72:2584:-230.935,-21.6742,0 0/1:112:55,57:55:1957:57:2032:-149.394,0,-138.18 0/1:9:3,6:3:93:6:216:-17.0315,0,-4.77646 0/1:5:4,1:4:144:1:36:-2.09141,0,-9.52363 0/1:33:17,16:17:608:16:571:-41.5387,0,-35.7031 0/1:80:46,34:46:1637:34:1220:-85.748,0,-116.581 0/0:147:147,0:147:5259:0:0:0,-44.2514,-449.625 0/0:212:212,0:212:7604:0:0:0,-63.8184,-650.408 0/0:72:72,0:72:2556:0:0:0,-21.6742,-224.476 0/0:105:105,0:105:3768:0:0:0,-31.6081,-328.447 0/1:68:35,33:35:1256:33:1188:-86.0713,0,-73.0236 0/1:40:27,13:27:972:13:468:-30.2857,0,-70.3402 0/0:88:86,2:86:3081:2:72:0,-19.6711,-222.176 0/0:62:62,0:62:2232:0:0:0,-18.6639,-165.605 chr08 31853838 . CCTCC TCTCT,CCTCT 26987.3 PASS AB=0.526946,0.47006;ABP=7.22322,8.21143;AC=28,14;AF=0.666667,0.333333;AN=42;AO=934,378;CIGAR=1X3M1X,4M1X;DP=1314;DPB=1314.6;DPRA=2.36466,1.1488;EPP=2031.17,823.827;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.84211,2;MQM=46.4497,59.9101;MQMR=0;NS=21;NUMALT=2;ODDS=0.420481;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=52,52;PQR=0;PRO=0;QA=32866,13460;QR=0;RO=0;RPL=0,0;RPP=2031.17,823.827;RPPR=0;RPR=934,378;RUN=1,1;SAF=0,0;SAP=2031.17,823.827;SAR=934,378;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:99:0,56,43:0:0:56,43:1951,1517:-281.78,-123.876,-107.018,-158.254,0,-145.31 1/2:66:0,35,31:0:0:35,31:1234,1111:-189.442,-90.9112,-80.3751,-98.8263,0,-89.4944 1/2:88:0,32,56:0:0:32,56:1116,1992:-251.956,-162.697,-153.064,-89.6074,0,-72.7498 1/2:38:0,28,10:0:0:28,10:984,356:-108.859,-29.3709,-20.9421,-79.8421,0,-76.8318 1/1:114:0,110,4:0:0:110,4:3860,144:-343.268,-33.1133,0,-331.518,-21.0038,-330.314 1/1:51:0,51,0:0:0:51,0:1797,0:-159.114,-15.3525,0,-159.114,-15.3525,-159.114 1/1:109:0,108,1:0:0:108,1:3816,36:-336.966,-32.5112,0,-334.028,-29.214,-333.727 2/2:51:0,0,51:0:0:0,51:0,1819:-163.832,-163.832,-163.832,-15.3525,-15.3525,0 1/2:111:0,69,42:0:0:69,42:2442,1489:-315.464,-121.601,-100.829,-194.156,0,-181.513 1/2:14:0,6,8:0:0:6,8:215,288:-41.2277,-23.8592,-22.053,-17.7257,0,-15.3175 2/2:5:0,0,5:0:0:0,5:0,180:-16.5521,-16.5521,-16.5521,-1.50515,-1.50515,0 1/2:27:0,13,14:0:0:13,14:456,500:-77.908,-41.1218,-37.2084,-37.1385,0,-32.9241 1/2:55:0,25,28:0:0:25,28:892,1000:-153.818,-81.6013,-74.0756,-72.2848,0,-63.856 1/1:55:0,55,0:0:0:55,0:1908,0:-171.011,-16.5567,0,-171.011,-16.5567,-171.011 1/1:85:0,85,0:0:0:85,0:2995,0:-265.961,-25.5876,0,-265.961,-25.5876,-265.961 1/1:50:0,50,0:0:0:50,0:1751,0:-153.137,-15.0515,0,-153.137,-15.0515,-153.137 1/1:40:0,40,0:0:0:40,0:1413,0:-125.507,-12.0412,0,-125.507,-12.0412,-125.507 1/2:138:0,69,69:0:0:69,69:2432,2452:-394.864,-200.163,-179.392,-195.052,0,-174.281 1/2:32:0,19,13:0:0:19,13:681,468:-93.0648,-38.5463,-32.8267,-54.8753,0,-50.9619 1/1:52:0,50,2:0:0:50,2:1759,72:-154.441,-15.0515,0,-148.566,-8.81684,-147.964 1/1:34:0,33,1:0:0:33,1:1164,36:-103.304,-9.93399,0,-100.366,-6.63675,-100.065 chr08 31853874 . G A 18588.8 PASS AB=0.519345;ABP=5.1947;AC=28;AF=0.666667;AN=42;AO=928;CIGAR=1X;DP=1315;DPB=1315;DPRA=2.36654;EPP=2018.14;EPPR=834.707;GTI=0;LEN=1;MEANALT=1;MQM=46.4989;MQMR=59.9276;NS=21;NUMALT=1;ODDS=0.457039;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33183;QR=13832;RO=387;RPL=928;RPP=2018.14;RPPR=834.707;RPR=0;RUN=1;SAF=0;SAP=2018.14;SAR=928;SRF=0;SRP=843.37;SRR=387;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:45,55:45:1601:55:1980:-147.216,0,-114.275 0/1:68:32,36:32:1148:36:1277:-92.7178,0,-83.1598 0/1:88:57,31:57:2044:31:1104:-71.3913,0,-157.371 0/1:38:10,28:10:360:28:1008:-78.9467,0,-21.3052 1/1:113:4,109:4:144:109:3883:-331.827,-20.7028,0 1/1:50:0,50:0:0:50:1792:-158.498,-15.0515,0 1/1:108:1,107:1:36:107:3813:-334.026,-28.913,0 0/0:51:51,0:51:1811:0:0:0,-15.3525,-163.271 0/1:113:44,69:44:1557:69:2464:-182.602,0,-106.403 0/1:14:8,6:8:288:6:216:-15.403,0,-22.053 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:28:15,13:15:540:13:468:-33.6595,0,-40.5077 0/1:56:31,25:31:1116:25:900:-63.9426,0,-83.894 1/1:54:0,54:0:0:54:1935:-173.298,-16.2556,0 1/1:84:0,84:0:0:84:3013:-267.007,-25.2865,0 1/1:50:0,50:0:0:50:1777:-155.296,-15.0515,0 1/1:42:0,42:0:0:42:1493:-132.512,-12.6433,0 0/1:135:68,67:68:2431:67:2396:-171.887,0,-178.405 0/1:32:13,19:13:468:19:684:-51.2241,0,-32.8267 1/1:52:2,50:2:72:50:1792:-150.909,-8.81684,0 1/1:34:1,33:1:36:33:1188:-101.922,-6.63675,0 chr08 31914855 . A G 15631.4 PASS AB=0.56229;ABP=33.038;AC=13;AF=0.309524;AN=42;AO=658;CIGAR=1X;DP=1947;DPB=1947;DPRA=1.1293;EPP=11.9338;EPPR=4.62922;GTI=0;LEN=1;MEANALT=1;MQM=51.5258;MQMR=51.8627;NS=21;NUMALT=1;ODDS=0.74461;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23174;QR=45967;RO=1289;RPL=1;RPP=1423.17;RPPR=2767.4;RPR=657;RUN=1;SAF=304;SAP=11.2606;SAR=354;SRF=633;SRP=3.90146;SRR=656;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:54,61:54:1944:61:2147:-155.987,0,-136.253 0/1:139:82,57:82:2922:57:2015:-139.163,0,-220.153 0/1:48:20,28:20:711:28:999:-74.8666,0,-49.1204 0/1:139:60,79:60:2133:79:2806:-209.778,0,-149.392 0/0:193:192,1:192:6793:1:36:0,-54.5005,-600.446 0/0:90:90,0:90:3217:0:0:0,-27.0927,-287.689 0/0:116:116,0:116:4164:0:0:0,-34.9195,-372.99 1/1:133:0,133:0:0:133:4640:-413.769,-40.037,0 0/1:124:47,77:47:1684:77:2700:-204.202,0,-113.081 0/1:29:10,19:10:356:19:665:-50.9739,0,-23.5375 0/0:8:7,1:7:252:1:21:0,-0.309321,-20.813 1/1:18:0,18:0:0:18:644:-57.952,-5.41854,0 0/1:85:20,65:20:720:65:2312:-181.428,0,-39.199 0/0:78:78,0:78:2758:0:0:0,-23.4803,-246.521 0/0:105:104,1:104:3710:1:36:0,-28.0099,-326.721 0/0:74:73,1:73:2592:1:36:0,-18.6789,-227.873 0/0:61:61,0:61:2177:0:0:0,-18.3628,-191.395 0/1:122:46,76:46:1647:76:2679:-200.779,0,-109.441 0/1:90:51,39:51:1836:39:1370:-95.1891,0,-136.603 0/0:103:101,2:101:3596:2:68:0,-24.5957,-315.774 0/0:77:77,0:77:2755:0:0:0,-23.1793,-246.063 chr08 31914885 . G T 32983.8 PASS AB=0.431894;ABP=39.3915;AC=28;AF=0.666667;AN=42;AO=1266;CIGAR=1X;DP=1934;DPB=1934;DPRA=1.25193;EPP=3.18182;EPPR=18.0416;GTI=0;LEN=1;MEANALT=1;MQM=51.9329;MQMR=51.3817;NS=21;NUMALT=1;ODDS=4.11551;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44725;QR=23818;RO=668;RPL=1266;RPP=2752.09;RPPR=1453.55;RPR=0;RUN=1;SAF=628;SAP=3.18182;SAR=638;SRF=300;SRP=18.0416;SRR=368;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:114:63,51:63:2256:51:1828:-127.169,0,-165.713 0/1:140:57,83:57:2039:83:2902:-218.184,0,-140.911 0/1:50:30,20:30:1076:20:698:-47.4621,0,-81.0323 0/1:138:80,58:80:2852:58:2056:-142.824,0,-213.942 1/1:188:1,187:1:36:187:6605:-584.215,-52.9954,0 1/1:90:0,90:0:0:90:3193:-285.855,-27.0927,0 1/1:113:0,113:0:0:113:3999:-358.227,-34.0164,0 0/0:133:133,0:133:4750:0:0:0,-40.037,-423.159 0/1:127:80,47:80:2809:47:1667:-110.688,0,-212.682 0/1:29:19,10:19:676:10:360:-23.8739,0,-51.8976 0/1:8:1,7:1:36:7:248:-20.1389,0,-1.15857 0/0:17:17,0:17:608:0:0:0,-5.11751,-54.6914 0/1:82:64,18:64:2264:18:624:-31.511,0,-177.872 1/1:76:0,76:0:0:76:2664:-238.775,-22.8783,0 1/1:106:1,105:1:36:105:3690:-325.062,-28.3109,0 1/1:72:1,71:1:32:71:2511:-221.1,-18.4752,0 1/1:59:0,59:0:0:59:2091:-183.891,-17.7608,0 0/1:124:80,44:80:2876:44:1552:-100.511,0,-216.91 0/1:91:39,52:39:1400:52:1837:-136.575,0,-97.3831 1/1:103:2,101:2:72:101:3557:-312.098,-24.2166,0 1/1:74:0,74:0:0:74:2643:-236.045,-22.2762,0 chr08 31921754 . CGCA TGCA,TGCG 45950.5 PASS AB=0.537449,0.458502;ABP=15.0457,17.7886;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1633,508;CIGAR=1X3M,1X2M1X;DP=2152;DPB=2152;DPRA=1.94259,0.697111;EPP=3549.02,1106.12;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.05,2.23077;MQM=59.9424,59.5827;MQMR=60;NS=21;NUMALT=2;ODDS=8.66976;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58335,17936;QR=35;RO=1;RPL=0,0;RPP=3549.02,1106.12;RPPR=5.18177;RPR=1633,508;RUN=1,1;SAF=1633,508;SAP=3549.02,1106.12;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:94:0,42,52:0:0:42,52:1508,1829:-271.997,-148.981,-136.338,-123.371,0,-107.718 1/2:79:0,55,24:0:0:55,24:1951,856:-229.063,-70.1135,-53.5568,-159.306,0,-152.081 1/2:87:0,34,52:0:0:34,52:1224,1838:-249.548,-149.674,-139.439,-99.8722,0,-84.2186 1/2:158:0,103,55:0:0:103,55:3673,1926:-456.42,-157.034,-126.028,-299.738,0,-283.182 1/1:217:1,215,0:1:35:215,0:7646,0:-684.475,-61.8038,0,-684.776,-64.7215,-687.624 1/1:132:0,131,0:0:0:131,0:4673,0:-420.371,-39.4349,0,-420.371,-39.4349,-420.371 1/1:188:0,188,0:0:0:188,0:6725,0:-605.324,-56.5936,0,-605.324,-56.5936,-605.324 2/2:54:0,0,54:0:0:0,54:0,1914:-172.532,-172.532,-172.532,-16.2556,-16.2556,0 1/2:159:0,70,88:0:0:70,88:2482,3116:-456.058,-253.854,-232.782,-202.238,0,-175.747 1/2:19:0,12,7:0:0:12,7:423,251:-55.2672,-20.8306,-17.2183,-34.7927,0,-32.6855 1/2:11:0,4,7:0:0:4,7:144,241:-31.6729,-19.9175,-18.7134,-12.1095,0,-10.0023 1/2:43:0,19,24:0:0:19,24:676,849:-124.598,-69.504,-63.7844,-55.4484,0,-48.2237 1/2:164:0,73,90:0:0:73,90:2606,3173:-470.441,-258.323,-236.348,-212.113,0,-185.02 1/1:93:0,92,0:0:0:92,0:3281,0:-295.297,-27.6948,0,-295.297,-27.6948,-295.297 1/1:89:0,89,0:0:0:89,0:3181,0:-286.512,-26.7917,0,-286.512,-26.7917,-286.512 1/1:101:0,100,1:0:0:100,1:3577,36:-321.776,-30.103,0,-318.838,-26.8058,-318.537 1/1:101:0,100,0:0:0:100,0:3592,0:-323.126,-30.103,0,-323.126,-30.103,-323.126 1/2:73:0,38,34:0:0:38,34:1368,1193:-208.7,-97.0739,-85.6348,-111.622,0,-101.387 1/2:101:0,81,20:0:0:81,20:2904,714:-295.421,-58.5668,-34.1833,-237.212,0,-231.191 1/1:126:0,124,0:0:0:124,0:4437,0:-399.208,-37.3277,0,-399.208,-37.3277,-399.208 1/1:63:0,63,0:0:0:63,0:2264,0:-204.022,-18.9649,0,-204.022,-18.9649,-204.022 chr08 31921787 . G A 21070.5 PASS AB=0.427447;ABP=95.9628;AC=13;AF=0.309524;AN=42;AO=1005;CIGAR=1X;DP=4545;DPB=4545;DPRA=1.09814;EPP=2185.34;EPPR=7681.34;GTI=0;LEN=1;MEANALT=1;MQM=48.6975;MQMR=59.498;NS=21;NUMALT=1;ODDS=7.01554;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35545;QR=124099;RO=3540;RPL=481;RPP=7.00538;RPPR=82.5083;RPR=524;RUN=1;SAF=481;SAP=7.00538;SAR=524;SRF=1591;SRP=81.6274;SRR=1949;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:203:115,88:115:3999:88:3109:-212.133,0,-298.813 0/1:163:108,55:108:3799:55:1954:-120.048,0,-292.791 0/1:174:85,89:85:3039:89:3182:-227.069,0,-221.292 0/1:324:196,128:196:6867:128:4493:-294.975,0,-520.177 0/0:507:505,2:505:17664:2:72:0,-146.191,-1581.8 0/0:276:275,1:275:9625:1:36:0,-79.5257,-861.63 0/0:345:345,0:345:12099:0:0:0,-103.855,-1087.96 1/1:127:0,127:0:0:127:4501:-393.972,-38.2308,0 0/1:391:206,185:206:7209:185:6590:-456.823,0,-530.913 0/1:41:28,13:28:991:13:464:-28.9149,0,-77.1388 0/1:24:14,10:14:500:10:348:-23.625,0,-38.0755 0/1:87:45,42:45:1595:42:1484:-103.401,0,-117.65 0/1:308:153,155:153:5431:155:5509:-392.232,0,-395.423 0/0:182:182,0:182:6391:0:0:0,-54.7875,-575.113 0/0:303:301,2:301:10489:2:72:0,-84.7072,-936.116 0/0:224:223,1:223:7846:1:32:0,-64.2314,-702.796 0/0:156:156,0:156:5460:0:0:0,-46.9607,-491.448 0/1:159:90,69:90:3117:69:2399:-162.481,0,-232.84 0/1:159:124,35:124:4323:35:1192:-57.8787,0,-341.354 0/0:273:270,3:270:9555:3:108:0,-72.8819,-850.425 0/0:119:119,0:119:4100:0:0:0,-35.8226,-369.165 chr08 31921835 . CTACGAT GTACGAT,GTACGAC 52767.5 PASS AB=0.593205,0.398531;ABP=85.1813,100.4;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1971,521;CIGAR=1X6M,1X5M1X;DP=2510;DPB=2510.57;DPRA=1.51875,1.11891;EPP=4282.98,1134.35;EPPR=0;GTI=2;LEN=1,7;MEANALT=2.35,2.6;MQM=59.0502,38.6622;MQMR=0;NS=21;NUMALT=2;ODDS=1.68027;PAIRED=0,0;PAIREDR=0;PAO=1.33333,1.33333;PQA=46.6667,46.6667;PQR=0;PRO=0;QA=70397,18456;QR=0;RO=0;RPL=1971,521;RPP=4282.98,1134.35;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4282.98,1134.35;SAR=1971,521;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:115:0,73,42:0:0:73,42:2601,1466:-324.832,-113.288,-91.3123,-211.885,0,-199.242 1/2:91:0,53,35:0:0:53,35:1896,1224:-247.303,-92.8163,-76.8618,-154.49,0,-143.954 1/2:85:0,49,36:0:0:49,36:1748,1276:-240.712,-98.2877,-83.5373,-142.769,0,-131.932 1/2:174:0,99,74:0:0:99,74:3531,2632:-490.261,-202.826,-173.024,-287.458,0,-265.182 1/1:303:0,298,2:0:0:298,2:10622,72:-954.637,-89.7069,0,-949.146,-84.221,-948.544 1/1:148:0,148,0:0:0:148,0:5288,0:-475.142,-44.5524,0,-475.142,-44.5524,-475.142 1/1:171:0,167,0:0:0:167,0:5958,0:-535.396,-50.272,0,-535.396,-50.272,-535.396 2/2:80:0,0,80:0:0:0,80:0,2850:-245.832,-245.832,-245.832,-24.0824,-24.0824,0 1/2:244:0,139,104:0:0:139,104:4976,3670:-688.156,-282.663,-240.819,-405.481,0,-374.174 1/2:24:0,17,7:0:0:17,7:608,252:-69.5871,-20.0015,-14.884,-49.9345,0,-47.8273 1/2:14:0,10,4:0:0:10,4:356,140:-39.9209,-10.9217,-7.91142,-29.3349,0,-28.1307 1/2:48:0,28,17:0:0:28,17:986,596:-126.78,-46.4963,-38.0675,-80.3271,0,-75.2096 1/2:150:0,81,69:0:0:81,69:2905,2472:-427.9,-191.304,-166.92,-236.946,0,-216.175 1/1:89:0,89,0:0:0:89,0:3165,0:-284.664,-26.7917,0,-284.664,-26.7917,-284.664 1/1:221:0,219,2:0:0:219,2:7834,72:-703.94,-65.9256,0,-698.38,-60.0228,-697.778 1/1:130:0,130,0:0:0:130,0:4660,0:-419.304,-39.1339,0,-419.304,-39.1339,-419.304 1/1:62:0,62,0:0:0:62,0:2212,0:-199.208,-18.6639,0,-199.208,-18.6639,-199.208 1/2:84:0,51,32:0:0:51,32:1832,1126:-236.425,-87.0768,-71.7242,-149.336,0,-139.703 1/2:60:0,46,14:0:0:46,14:1643,504:-172.929,-39.2653,-25.4179,-134.01,0,-129.795 1/1:156:0,151,3:0:0:151,3:5393,104:-484.927,-45.4555,0,-477.004,-37.5332,-476.1 1/1:61:0,61,0:0:0:61,0:2183,0:-196.409,-18.3628,0,-196.409,-18.3628,-196.409 chr08 31921847 . A T 41741.9 PASS AB=0.594348;ABP=87.8284;AC=29;AF=0.690476;AN=42;AO=1969;CIGAR=1X;DP=2506;DPB=2506;DPRA=1.47805;EPP=4278.64;EPPR=1169.09;GTI=2;LEN=1;MEANALT=1;MQM=58.9746;MQMR=38.8045;NS=21;NUMALT=1;ODDS=1.24654;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70587;QR=19175;RO=537;RPL=1969;RPP=4278.64;RPPR=1169.09;RPR=0;RUN=1;SAF=0;SAP=4278.64;SAR=1969;SRF=0;SRP=1169.09;SRR=537;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:45,72:45:1608:72:2573:-196.368,0,-101.408 0/1:90:34,56:34:1224:56:2016:-154.282,0,-74.9953 0/1:86:36,50:36:1292:50:1800:-135.938,0,-83.706 0/1:174:73,101:73:2616:101:3624:-272.243,0,-170.636 1/1:299:3,296:3:108:296:10620:-944.707,-80.3311,0 1/1:151:0,151:0:0:151:5408:-485.659,-45.4555,0 1/1:168:0,168:0:0:168:6024:-541.394,-50.573,0 0/0:82:82,0:82:2917:0:0:0,-24.6845,-250.044 0/1:245:104,141:104:3686:141:5037:-378.891,0,-239.469 0/1:25:7,18:7:252:18:644:-50.7424,0,-14.583 0/1:12:3,9:3:108:9:320:-25.4939,0,-5.87292 0/1:48:20,28:20:720:28:1004:-76.2264,0,-46.5789 0/1:155:73,82:73:2604:82:2932:-216.67,0,-176.72 1/1:89:0,89:0:0:89:3185:-286.759,-26.7917,0 1/1:220:2,218:2:72:218:7828:-696.445,-59.7218,0 1/1:128:0,128:0:0:128:4588:-412.863,-38.5318,0 1/1:61:0,61:0:0:61:2184:-196.741,-18.3628,0 0/1:85:34,51:34:1220:51:1832:-139.436,0,-78.0719 0/1:60:16,44:16:568:44:1580:-123.911,0,-31.032 1/1:154:3,151:3:108:151:5420:-478.414,-37.0593,0 1/1:57:2,55:2:72:55:1968:-170.502,-10.322,0 chr08 31938483 . C T 13366.1 PASS AB=0.534177;ABP=15.0331;AC=13;AF=0.309524;AN=42;AO=743;CIGAR=1X;DP=2562;DPB=2562;DPRA=0.998347;EPP=1599.09;EPPR=3952.92;GTI=1;LEN=1;MEANALT=1;MQM=59.9489;MQMR=59.9912;NS=21;NUMALT=1;ODDS=4.76515;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26438;QR=64069;RO=1819;RPL=2;RPP=1599.09;RPPR=3952.92;RPR=741;RUN=1;SAF=0;SAP=1616.41;SAR=743;SRF=0;SRP=3952.92;SRR=1819;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:169:76,93:76:2693:93:3316:-247.785,0,-191.74 0/1:108:50,58:50:1727:58:2067:-153.789,0,-123.197 0/1:135:74,61:74:2602:61:2183:-156.088,0,-193.788 0/1:166:60,106:60:2128:106:3759:-288.537,0,-141.818 0/0:293:290,3:290:10218:3:108:0,-78.1266,-909.486 0/0:116:116,0:116:4088:0:0:0,-34.9195,-368.107 0/0:148:148,0:148:5204:0:0:0,-44.5524,-468.505 1/1:107:0,107:0:0:107:3806:-342.736,-32.2102,0 0/1:159:71,88:71:2515:88:3116:-232.774,0,-178.736 0/1:8:7,1:7:233:1:36:-1.19004,0,-18.8861 0/1:8:5,3:5:176:3:108:-7.66693,0,-13.7768 0/1:26:14,12:14:500:12:428:-31.032,0,-37.5094 0/1:216:97,119:97:3408:119:4245:-317.207,0,-241.912 0/0:201:201,0:201:7033:0:0:0,-60.507,-633.045 0/0:109:109,0:109:3831:0:0:0,-32.8123,-344.988 0/0:90:90,0:90:3199:0:0:0,-27.0927,-288.134 0/0:125:125,0:125:4430:0:0:0,-37.6287,-398.875 0/1:96:40,56:40:1398:56:1986:-150.114,0,-97.1606 0/1:94:58,36:58:2045:36:1280:-87.2064,0,-156.024 0/0:122:122,0:122:4303:0:0:0,-36.7257,-387.45 0/0:66:66,0:66:2338:0:0:0,-19.868,-210.679 chr08 32147348 . TT CC,TC 40227.5 PASS AB=0.468223,0.531777;ABP=9.77256,9.77256;AC=28,14;AF=0.666667,0.333333;AN=42;AO=997,517;CIGAR=2X,1M1X;DP=1517;DPB=1517.5;DPRA=1.50771,0.716549;EPP=142.422,3.95533;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.89474,2.05882;MQM=59.998,60;MQMR=0;NS=21;NUMALT=2;ODDS=10.1344;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=34743,18325;QR=0;RO=0;RPL=993,515;RPP=2133.36,1108.36;RPPR=0;RPR=4,2;RUN=1,1;SAF=368,249;SAP=151.378,4.52655;SAR=629,268;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:79:0,42,37:0:0:42,37:1467,1315:-226.839,-107.513,-94.8697,-119.679,0,-108.541 1/2:49:0,12,37:0:0:12,37:410,1332:-142.313,-109.044,-105.432,-33.6145,0,-22.4764 1/2:47:0,22,25:0:0:22,25:735,880:-131.483,-71.9897,-65.3671,-59.8357,0,-52.3099 1/2:119:0,53,66:0:0:53,66:1801,2343:-337.325,-191.261,-175.306,-146.411,0,-126.543 1/1:116:0,112,3:0:0:112,3:3920,108:-352.662,-33.7154,0,-343.85,-24.8207,-342.947 1/1:34:0,33,1:0:0:33,1:1157,36:-104.075,-9.93399,0,-101.137,-6.63675,-100.836 1/1:56:0,56,0:0:0:56,0:1962,0:-176.852,-16.8577,0,-176.852,-16.8577,-176.852 2/2:89:0,0,88:0:0:0,88:0,3132:-281.856,-281.856,-281.856,-26.4906,-26.4906,0 1/2:114:0,43,71:0:0:43,71:1519,2507:-328.216,-204.51,-191.566,-124.059,0,-102.686 2/2:10:0,0,10:0:0:0,10:0,343:-31.2006,-31.2006,-31.2006,-3.0103,-3.0103,0 1/2:7:0,3,4:0:0:3,4:108,140:-20.557,-11.7405,-10.8374,-9.17208,0,-7.96796 1/2:23:0,11,12:0:0:11,12:384,432:-66.8384,-35.6088,-32.2975,-31.5838,0,-27.9714 1/2:88:0,44,44:0:0:44,44:1528,1551:-250.849,-126.636,-113.39,-124.564,0,-111.318 1/1:162:0,162,0:0:0:162,0:5604,0:-504.494,-48.7669,0,-504.494,-48.7669,-504.494 1/1:120:0,120,0:0:0:120,0:4217,0:-379.714,-36.1236,0,-379.714,-36.1236,-379.714 1/1:29:0,28,1:0:0:28,1:997,36:-89.6853,-8.42884,0,-86.7478,-5.1316,-86.4467 1/1:37:0,37,0:0:0:37,0:1270,0:-114.595,-11.1381,0,-114.595,-11.1381,-114.595 1/2:93:0,31,62:0:0:31,62:1087,2167:-265.082,-176.628,-167.296,-88.804,0,-70.1402 1/2:152:0,100,52:0:0:100,52:3487,1859:-435.162,-151.577,-121.474,-283.581,0,-267.927 1/1:40:0,37,3:0:0:37,3:1279,108:-115.048,-11.1381,0,-106.235,-1.96603,-105.331 1/1:53:0,51,1:0:0:51,1:1811,36:-162.911,-15.3525,0,-159.974,-12.4151,-159.672 chr08 32227134 . G A 16582 PASS AB=0.646971;ABP=253.857;AC=22;AF=0.52381;AN=42;AO=906;CIGAR=1X;DP=1378;DPB=1378;DPRA=0;EPP=1953.03;EPPR=1027.95;GTI=3;LEN=1;MEANALT=1;MQM=59.66;MQMR=31.3136;NS=21;NUMALT=1;ODDS=1.37576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32180;QR=16829;RO=472;RPL=2;RPP=1953.03;RPPR=1027.95;RPR=904;RUN=1;SAF=906;SAP=1970.36;SAR=0;SRF=472;SRP=1027.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:20,49:20:720:49:1734:-135.565,0,-33.3099 0/1:85:48,37:48:1720:37:1305:-92.1512,0,-106.803 0/1:35:4,31:4:144:31:1097:-88.4321,0,-0.560984 0/1:137:57,80:57:2048:80:2841:-214.571,0,-111.848 0/1:112:27,85:27:964:85:3037:-238.986,0,-39.2436 0/1:37:9,28:9:324:28:1004:-79.5378,0,-13.9091 0/1:104:36,68:36:1261:68:2429:-187.557,0,-66.4148 1/1:41:0,41:0:0:41:1461:-131.784,-12.3422,0 0/1:62:24,38:24:849:38:1352:-103.154,0,-43.4005 0/1:23:7,16:7:248:16:557:-43.5319,0,-12.0976 0/1:4:1,3:1:36:3:104:-8.49868,0,-1.85042 0/1:23:6,17:6:216:17:612:-48.4897,0,-9.66906 0/1:60:12,48:12:432:48:1712:-136.304,0,-14.4284 0/1:121:48,73:48:1705:73:2595:-197.337,0,-91.8548 0/1:97:41,56:41:1468:56:1967:-147.939,0,-81.0407 0/1:52:15,37:15:540:37:1324:-103.809,0,-23.824 0/1:104:28,76:28:1004:76:2677:-209.407,0,-42.0289 0/1:71:36,35:36:1254:35:1247:-91.1321,0,-73.8066 0/1:47:14,33:14:500:33:1160:-90.5558,0,-24.1146 0/1:56:20,36:20:712:36:1281:-98.7112,0,-37.0508 0/1:38:19,19:19:684:19:684:-50.4405,0,-41.6537 chr08 32227140 . G A 3906.26 PASS AB=0.349962;ABP=257.789;AC=20;AF=0.47619;AN=42;AO=456;CIGAR=1X;DP=1343;DPB=1343;DPRA=1.62875;EPP=993.202;EPPR=1254.54;GTI=3;LEN=1;MEANALT=1;MQM=31.1754;MQMR=59.761;NS=21;NUMALT=1;ODDS=0.835872;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16263;QR=31671;RO=887;RPL=0;RPP=993.202;RPPR=1254.54;RPR=456;RUN=1;SAF=456;SAP=993.202;SAR=0;SRF=887;SRP=1929.11;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:48,20:48:1724:20:693:-32.4115,0,-134.969 0/1:79:37,42:37:1328:42:1477:-90.365,0,-96.0302 0/1:34:30,4:30:1080:4:144:-0.862014,0,-87.2083 0/1:136:80,56:80:2857:56:2000:-109.103,0,-216.286 0/1:110:83,27:83:2965:27:957:-39.4426,0,-233.968 0/1:34:26,8:26:936:8:288:-12.0631,0,-74.3244 0/1:99:63,36:63:2252:36:1292:-69.3926,0,-173.141 0/0:40:40,0:40:1427:0:0:0,-12.0412,-128.727 0/1:62:38,24:38:1352:24:860:-44.1893,0,-103.154 0/1:22:16,6:16:548:6:216:-9.83911,0,-43.0186 0/1:4:3,1:3:104:1:36:-1.85042,0,-8.49869 0/1:23:17,6:17:612:6:212:-9.50643,0,-48.4897 0/1:60:48,12:48:1711:12:428:-14.3062,0,-136.213 0/1:115:69,46:69:2467:46:1648:-88.9303,0,-187.665 0/1:94:54,40:54:1940:40:1432:-79.1321,0,-146.576 0/1:54:38,16:38:1368:16:576:-25.8345,0,-107.165 0/1:103:76,27:76:2698:27:968:-39.7174,0,-211.814 0/1:69:34,35:34:1212:35:1256:-73.6243,0,-88.6153 0/1:48:32,16:32:1133:16:576:-29.4342,0,-87.8272 0/1:55:36,19:36:1273:19:668:-34.3877,0,-98.2919 0/1:34:19,15:19:684:15:536:-31.2284,0,-51.6446 chr08 32227153 . TGACGAAG TG 2474.91 PASS AB=0.298785;ABP=437.321;AC=20;AF=0.47619;AN=42;AO=369;CIGAR=1M6D1M;DP=1275;DPB=998.25;DPRA=1.54375;EPP=795.621;EPPR=1944.31;GTI=6;LEN=6;MEANALT=1.4;MQM=31.1816;MQMR=59.7573;NS=21;NUMALT=1;ODDS=1.12972;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12718;QR=30368;RO=894;RPL=1;RPP=795.621;RPPR=1944.31;RPR=368;RUN=1;SAF=369;SAP=804.284;SAR=0;SRF=894;SRP=1944.31;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:49,17:49:1656:17:588:-25.3045,0,-129.451 0/1:72:38,34:38:1281:34:1187:-70.947,0,-93.9023 0/1:34:30,4:30:1022:4:140:-0.737601,0,-82.0431 0/1:130:79,49:79:2694:49:1668:-89.0931,0,-203.93 0/1:106:83,21:83:2838:21:701:-22.5708,0,-223.439 0/1:35:28,7:28:954:7:244:-8.72878,0,-75.6323 0/1:94:67,27:67:2272:27:940:-45.1102,0,-176.449 0/0:40:39,0:39:1325:0:0:0,-11.7402,-119.224 0/1:58:37,21:37:1227:21:727:-36.5888,0,-93.262 0/1:22:16,6:16:550:6:204:-9.45005,0,-43.2024 0/1:4:3,1:3:101:1:36:-1.85042,0,-8.21949 0/1:22:17,5:17:585:5:176:-7.03294,0,-46.3504 0/1:57:45,9:45:1540:9:316:-7.63527,0,-122.323 0/1:108:72,36:72:2411:36:1224:-61.9766,0,-184.723 0/1:91:56,35:56:1921:35:1207:-65.1877,0,-145.663 0/1:52:39,13:39:1321:13:444:-17.9725,0,-103.532 0/1:96:74,20:74:2493:20:700:-23.4003,0,-195.979 0/1:59:33,24:33:1132:24:833:-46.2455,0,-84.7381 0/1:44:33,11:33:1123:11:376:-16.1882,0,-88.1273 0/1:50:35,15:35:1206:15:520:-24.9918,0,-93.7686 0/1:35:21,14:21:716:14:487:-27.5449,0,-54.2156 chr08 32227176 . T C 2155.15 PASS AB=0.283662;ABP=229.44;AC=13;AF=0.309524;AN=42;AO=192;CIGAR=1X;DP=1251;DPB=1251;DPRA=0.642534;EPP=419.933;EPPR=2298.26;GTI=3;LEN=1;MEANALT=1.07692;MQM=59.6198;MQMR=47.1334;NS=21;NUMALT=1;ODDS=0.296998;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6709;QR=37750;RO=1057;RPL=192;RPP=419.933;RPPR=2298.26;RPR=0;RUN=1;SAF=192;SAP=419.933;SAR=0;SRF=1057;SRP=2298.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:44,24:44:1576:24:843:-55.7117,0,-110.885 0/1:74:62,12:62:2195:12:428:-16.5826,0,-154.5 0/1:24:16,8:16:572:8:265:-16.9474,0,-42.3607 0/1:128:93,35:93:3331:35:1237:-73.0314,0,-229.73 0/0:108:108,0:108:3857:0:0:0,-32.5112,-331.422 0/0:37:37,0:37:1324:0:0:0,-11.1381,-115.045 0/0:91:91,0:91:3255:0:0:0,-27.3937,-275.977 1/1:33:0,32:0:0:32:1120:-100.891,-9.63296,0 0/1:54:35,19:35:1256:19:648:-42.2233,0,-82.7287 0/1:23:19,4:19:680:4:140:-6.02089,0,-50.7591 0/1:4:2,2:2:68:2:72:-5.6326,0,-4.73704 0/1:22:15,7:15:536:7:243:-15.5848,0,-38.7893 0/1:52:30,22:30:1061:22:788:-55.5912,0,-73.4519 0/0:117:117,0:117:4151:0:0:0,-35.2205,-348.883 0/0:81:81,0:81:2912:0:0:0,-24.3834,-241.201 0/0:47:46,0:46:1652:0:0:0,-13.8474,-138.716 0/0:96:96,0:96:3420:0:0:0,-28.8989,-291.78 0/1:63:51,12:51:1812:12:410:-18.2617,0,-125.528 0/1:45:32,13:32:1152:13:447:-27.0113,0,-82.499 0/0:49:47,2:47:1684:2:68:0,-8.29276,-134.049 0/0:35:35,0:35:1256:0:0:0,-10.536,-104.989 chr08 32227289 . ATG CTA,CTG 22292.9 PASS AB=0.477041,0.517857;ABP=4.80509,4.09604;AC=29,13;AF=0.690476,0.309524;AN=42;AO=602,237;CIGAR=1X1M1X,1X2M;DP=841;DPB=841;DPRA=1.26406,0.81428;EPP=45.0835,3.45925;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.7,2.07692;MQM=47.9834,58.9494;MQMR=0;NS=21;NUMALT=2;ODDS=13.4171;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21069,8453;QR=0;RO=0;RPL=355,115;RPP=45.0835,3.45925;RPPR=0;RPR=247,122;RUN=1,1;SAF=0,0;SAP=1310.24,517.649;SAR=602,237;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:32:0,20,12:0:0:20,12:692,432:-91.2339,-35.6088,-29.5882,-55.9784,0,-52.366 1/2:34:0,16,18:0:0:16,18:559,645:-97.6304,-52.6548,-47.8383,-45.3263,0,-39.9078 1/2:47:0,19,28:0:0:19,28:679,985:-135.225,-80.5102,-74.7907,-55.0674,0,-46.6385 1/2:42:0,18,24:0:0:18,24:625,845:-119.513,-69.135,-63.7164,-50.7261,0,-43.5013 1/1:88:0,88,0:0:0:88,0:3061,0:-273.467,-26.4906,0,-273.467,-26.4906,-273.467 1/1:38:0,38,0:0:0:38,0:1322,0:-117.245,-11.4391,0,-117.245,-11.4391,-117.245 1/1:48:0,48,0:0:0:48,0:1681,0:-149.538,-14.4494,0,-149.538,-14.4494,-149.538 2/2:32:0,0,32:0:0:0,32:0,1152:-103.916,-103.916,-103.916,-9.63296,-9.63296,0 1/2:35:0,13,22:0:0:13,22:461,788:-101.948,-64.5513,-60.6379,-37.7514,0,-31.1287 1/2:31:0,9,22:0:0:9,22:310,788:-89.1824,-64.6175,-61.9082,-24.9078,0,-18.2852 1/2:22:0,12,9:0:0:12,9:421,317:-59.3827,-25.5339,-21.9215,-33.8439,0,-31.1346 1/2:42:0,19,23:0:0:19,23:661,821:-120.258,-67.2698,-61.5502,-53.3374,0,-46.4137 1/2:37:0,18,19:0:0:18,19:636,676:-106.655,-55.2997,-49.8812,-51.708,0,-45.9885 1/1:46:0,46,0:0:0:46,0:1622,0:-145.484,-13.8474,0,-145.484,-13.8474,-145.484 1/1:57:0,57,0:0:0:57,0:1979,0:-177.188,-17.1587,0,-177.188,-17.1587,-177.188 1/1:35:0,35,0:0:0:35,0:1185,0:-106.136,-10.5361,0,-106.136,-10.5361,-106.136 1/1:34:0,34,0:0:0:34,0:1189,0:-106.714,-10.235,0,-106.714,-10.235,-106.714 1/2:33:0,21,12:0:0:21,12:756,428:-95.7624,-35.2441,-28.9225,-60.8738,0,-57.2614 1/2:37:0,22,14:0:0:22,14:783,504:-104.192,-41.1238,-34.5012,-63.0649,0,-58.8505 1/1:55:0,53,2:0:0:53,2:1875,72:-166.885,-15.9546,0,-161.01,-9.71993,-160.408 1/1:16:0,16,0:0:0:16,0:572,0:-51.286,-4.81648,0,-51.286,-4.81648,-51.286 chr08 32254958 . TTC TTCTCTC 5984.4 PASS AB=0.491071;ABP=3.47562;AC=12;AF=0.285714;AN=42;AO=378;CIGAR=1M4I2M;DP=1445;DPB=1954.33;DPRA=1.25616;EPP=823.827;EPPR=2302.6;GTI=1;LEN=4;MEANALT=1.4;MQM=47.7249;MQMR=59.3399;NS=21;NUMALT=1;ODDS=3.30312;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13176;QR=37209;RO=1059;RPL=0;RPP=823.827;RPPR=2302.6;RPR=378;RUN=1;SAF=0;SAP=823.827;SAR=378;SRF=0;SRP=2302.6;SRR=1059;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:47,31:47:1632:31:1085:-73.2228,0,-123.641 0/1:133:58,72:58:2034:72:2512:-184.777,0,-143.819 0/1:34:17,16:17:584:16:560:-40.1294,0,-42.5896 0/1:82:43,39:43:1507:39:1338:-94.8873,0,-111.195 0/0:199:198,1:198:6954:1:36:0,-56.3315,-620.541 0/0:73:70,3:70:2479:3:104:0,-12.3162,-213.658 0/0:76:76,0:76:2683:0:0:0,-22.8783,-241.683 1/1:41:0,41:0:0:41:1448:-129.816,-12.3422,0 0/1:71:23,47:23:798:47:1623:-123.627,0,-50.7236 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:6:5,1:5:180:1:36:-1.77259,0,-14.7459 0/1:32:13,19:13:466:19:649:-48.8266,0,-32.628 0/1:98:50,47:50:1727:47:1671:-119.884,0,-125.716 0/0:52:50,2:50:1743:2:72:0,-8.86403,-150.326 0/0:114:114,0:114:4016:0:0:0,-34.3174,-361.59 0/0:59:58,1:58:2063:1:36:0,-14.194,-182.373 0/0:70:70,0:70:2467:0:0:0,-21.0721,-222.236 0/1:88:46,41:46:1630:41:1429:-101.437,0,-120.089 0/1:50:33,17:33:1174:17:577:-36.3765,0,-90.2875 0/0:41:40,0:40:1392:0:0:0,-12.0412,-125.146 0/0:44:44,0:44:1536:0:0:0,-13.2453,-138.518 chr08 33123206 . C G 8920.83 PASS AB=0.473684;ABP=7.69611;AC=13;AF=0.309524;AN=42;AO=431;CIGAR=1X;DP=1742;DPB=1742;DPRA=0.572663;EPP=400.833;EPPR=1323.93;GTI=0;LEN=1;MEANALT=1;MQM=59.7053;MQMR=59.9664;NS=21;NUMALT=1;ODDS=15.8788;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15404;QR=46044;RO=1308;RPL=356;RPP=400.833;RPPR=1323.93;RPR=75;RUN=1;SAF=431;SAP=938.915;SAR=0;SRF=1308;SRP=2843.3;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:39,41:39:1374:41:1472:-108.522,0,-99.8747 0/1:33:11,22:11:381:22:788:-61.3108,0,-24.6866 0/1:109:55,54:55:1934:54:1932:-141.341,0,-141.523 0/1:49:22,27:22:775:27:968:-72.6869,0,-55.3207 0/0:193:191,0:191:6690:0:0:0,-57.4967,-601.83 0/0:84:82,2:82:2908:2:72:0,-18.4498,-255.121 0/0:121:121,0:121:4260:0:0:0,-36.4246,-383.583 1/1:57:0,57:0:0:57:2032:-183.076,-17.1587,0 0/1:152:74,78:74:2589:78:2796:-206.118,0,-187.501 0/1:19:8,11:8:280:11:392:-29.9005,0,-19.8197 0/1:13:2,11:2:72:11:383:-30.8876,0,-2.92333 0/1:12:5,7:5:180:7:248:-19.0518,0,-12.9397 0/1:67:38,29:38:1347:29:1035:-73.2938,0,-101.36 0/0:82:81,0:81:2871:0:0:0,-24.3834,-258.269 0/0:159:159,0:159:5591:0:0:0,-47.8638,-503.322 0/0:60:60,0:60:2113:0:0:0,-18.0618,-190.438 0/0:73:72,1:72:2541:1:36:0,-18.3769,-225.342 0/1:150:86,64:86:3026:64:2286:-160.829,0,-227.416 0/1:95:70,25:70:2458:25:892:-51.9995,0,-192.875 0/0:86:85,1:85:3036:1:36:0,-22.2903,-268.334 0/0:48:47,1:47:1618:1:36:0,-10.8512,-142.306 chr08 33123227 . G C 18652.2 PASS AB=0.47417;ABP=12.4334;AC=13;AF=0.309524;AN=42;AO=839;CIGAR=1X;DP=3413;DPB=3413;DPRA=0.82555;EPP=1816.2;EPPR=5592.38;GTI=0;LEN=1;MEANALT=1;MQM=59.8367;MQMR=59.9973;NS=21;NUMALT=1;ODDS=11.3573;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29743;QR=91567;RO=2574;RPL=445;RPP=9.74212;RPPR=21.9917;RPR=394;RUN=1;SAF=446;SAP=10.2805;SAR=393;SRF=1362;SRP=21.9917;SRR=1212;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:225:119,106:119:4252:106:3792:-273.576,0,-315.128 0/1:33:11,22:11:396:22:780:-60.589,0,-26.0488 0/1:224:104,120:104:3696:120:4255:-315.699,0,-265.411 0/1:233:110,123:110:3909:123:4347:-321.27,0,-281.864 0/0:499:494,5:494:17505:5:176:0,-134.029,-1558.9 0/0:88:85,3:85:3029:3:108:0,-16.4155,-262.764 0/0:126:126,0:126:4504:0:0:0,-37.9298,-405.526 1/1:57:0,57:0:0:57:2000:-180.193,-17.1587,0 0/1:311:159,152:159:5626:152:5390:-391.603,0,-412.845 0/1:20:9,11:9:324:11:379:-28.42,0,-23.4853 0/1:13:2,11:2:72:11:387:-31.2348,0,-2.92333 0/1:13:6,7:6:212:7:252:-19.1156,0,-15.5114 0/1:235:127,108:127:4520:108:3836:-274.695,0,-336.229 0/0:193:193,0:193:6908:0:0:0,-58.0988,-621.787 0/0:349:349,0:349:12434:0:0:0,-105.059,-1118.89 0/0:163:162,1:162:5761:1:36:0,-45.4696,-515.01 0/0:171:170,1:170:6023:1:36:0,-47.8779,-538.578 0/1:152:87,65:87:3120:65:2285:-160.137,0,-235.27 0/1:167:121,46:121:4288:46:1648:-98.3342,0,-335.827 0/0:89:89,0:89:3183:0:0:0,-26.7917,-286.693 0/0:52:51,1:51:1805:1:36:0,-12.0553,-159.132 chr08 33242943 . T C 5734.66 PASS AB=0.462081;ABP=10.0915;AC=13;AF=0.309524;AN=42;AO=343;CIGAR=1X;DP=1496;DPB=1496;DPRA=0.873191;EPP=747.825;EPPR=2506.72;GTI=1;LEN=1;MEANALT=1;MQM=59.9825;MQMR=59.9376;NS=21;NUMALT=1;ODDS=1.66144;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12217;QR=41181;RO=1153;RPL=343;RPP=747.825;RPPR=2506.72;RPR=0;RUN=1;SAF=0;SAP=747.825;SAR=343;SRF=0;SRP=2506.72;SRR=1153;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:42,30:42:1504:30:1080:-75.8391,0,-113.974 0/1:36:26,10:26:921:10:356:-21.5442,0,-72.3681 0/1:63:27,36:27:953:36:1281:-96.6272,0,-67.1184 0/1:51:32,19:32:1144:19:651:-43.5552,0,-87.9145 0/0:179:176,3:176:6278:3:104:0,-44.1816,-555.389 0/0:36:36,0:36:1281:0:0:0,-10.8371,-115.591 0/0:142:141,1:141:5053:1:36:0,-39.148,-451.313 1/1:74:0,74:0:0:74:2629:-236.856,-22.2762,0 0/1:166:92,74:92:3266:74:2652:-188.951,0,-244.184 0/1:4:1,3:1:32:3:104:-8.49868,0,-1.99519 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:7:1,6:1:36:6:216:-17.6829,0,-1.49106 0/1:54:21,33:21:748:33:1188:-90.973,0,-51.3897 0/0:91:91,0:91:3260:0:0:0,-27.3937,-293.621 0/0:169:169,0:169:6019:0:0:0,-50.8741,-541.813 0/0:61:61,0:61:2192:0:0:0,-18.3628,-197.545 0/0:52:52,0:52:1857:0:0:0,-15.6536,-167.408 0/1:58:29,29:29:1044:29:1036:-76.0936,0,-76.8151 0/1:50:31,19:31:1116:19:668:-45.3942,0,-85.7002 0/0:64:61,3:61:2181:3:108:0,-9.19075,-186.459 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.184 chr08 33242948 . GTTGC CTTGT,GTTGT 31580.9 PASS AB=0.541593,0.456637;ABP=11.5002,12.2381;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1156,337;CIGAR=1X3M1X,4M1X;DP=1494;DPB=1494;DPRA=0.9875,0.858105;EPP=2513.23,734.797;EPPR=5.18177;GTI=1;LEN=5,1;MEANALT=1.7,1.93333;MQM=59.9265,59.9822;MQMR=60;NS=21;NUMALT=2;ODDS=1.53028;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40795,11701;QR=34;RO=1;RPL=1156,337;RPP=2513.23,734.797;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2513.23,734.797;SAR=1156,337;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:72:0,42,30:0:0:42,30:1446,1012:-199.792,-82.3476,-69.7043,-117.784,0,-108.753 1/2:37:0,28,9:0:0:28,9:972,309:-104.427,-25.4314,-17.0026,-79.3395,0,-76.6302 1/2:62:0,26,36:0:0:26,36:921,1224:-174.648,-99.6157,-91.7889,-75.3805,0,-64.5434 1/2:53:0,33,20:0:0:33,20:1166,678:-150.278,-55.313,-45.379,-95.3089,0,-89.2883 1/1:178:0,175,3:0:0:175,3:6157,104:-553.881,-52.6803,0,-545.427,-43.8805,-544.524 1/1:38:0,38,0:0:0:38,0:1349,0:-121.71,-11.4391,0,-121.71,-11.4391,-121.71 1/1:140:0,139,1:0:0:139,1:4921,36:-442.686,-41.8432,0,-439.749,-38.5459,-439.448 2/2:72:0,0,72:0:0:0,72:0,2527:-227.678,-227.678,-227.678,-21.6742,-21.6742,0 1/2:164:0,93,71:0:0:93,71:3271,2483:-468.608,-202.344,-174.348,-266.614,0,-245.241 1/2:4:0,1,3:0:0:1,3:35,104:-11.6483,-8.79971,-8.49868,-3.1976,0,-2.29451 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/2:7:0,1,6:0:0:1,6:36,212:-20.5566,-17.6182,-17.3172,-3.29724,0,-1.49106 1/2:56:1,22,33:1:34:22,33:770,1146:-152.758,-90.4098,-86.5449,-59.8997,0,-52.7233 1/1:94:0,94,0:0:0:94,0:3312,0:-298.303,-28.2968,0,-298.303,-28.2968,-298.303 1/1:168:0,168,0:0:0:168,0:5960,0:-536.514,-50.573,0,-536.514,-50.573,-536.514 1/1:63:0,63,0:0:0:63,0:2201,0:-198.356,-18.9649,0,-198.356,-18.9649,-198.356 1/1:52:0,52,0:0:0:52,0:1840,0:-165.881,-15.6536,0,-165.881,-15.6536,-165.881 1/2:56:0,28,28:0:0:28,28:999,993:-162.695,-81.2537,-72.8248,-81.7966,0,-73.3678 1/2:48:0,29,19:0:0:29,19:1017,657:-136.495,-53.7309,-45.001,-83.1118,0,-77.3922 1/1:64:0,61,3:0:0:61,3:2177,108:-195.823,-18.3628,0,-187.011,-9.19075,-186.107 1/1:60:0,60,0:0:0:60,0:2137,0:-192.597,-18.0618,0,-192.597,-18.0618,-192.597 chr08 33305050 . T C 8239.52 PASS AB=0.44358;ABP=31.4338;AC=13;AF=0.309524;AN=42;AO=513;CIGAR=1X;DP=2367;DPB=2367;DPRA=0.879371;EPP=1116.98;EPPR=4015.89;GTI=1;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9096;NS=21;NUMALT=1;ODDS=3.60323;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18377;QR=66081;RO=1848;RPL=0;RPP=1116.98;RPPR=4015.89;RPR=513;RUN=1;SAF=513;SAP=1116.98;SAR=0;SRF=1848;SRP=4015.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:130:71,59:71:2544:59:2108:-150.855,0,-190.077 0/1:52:37,15:37:1324:15:536:-32.9213,0,-103.809 0/1:98:52,46:52:1856:46:1644:-118.748,0,-137.819 0/1:150:81,69:81:2896:69:2484:-178.658,0,-215.586 0/0:313:309,4:309:10995:4:144:0,-80.9088,-976.046 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 0/0:231:231,0:231:8284:0:0:0,-69.5379,-745.567 1/1:50:0,50:0:0:50:1788:-161.203,-15.0515,0 0/1:240:135,105:135:4825:105:3768:-267.071,0,-362.157 0/1:11:6,5:6:212:5:180:-13.2407,0,-16.1135 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:58:25,33:25:892:33:1173:-88.4158,0,-63.1399 0/1:197:102,94:102:3652:94:3372:-244.334,0,-269.522 0/0:195:190,0:190:6785:0:0:0,-57.1957,-608.713 0/0:125:125,0:125:4484:0:0:0,-37.6287,-403.728 0/0:102:102,0:102:3648:0:0:0,-30.7051,-328.525 0/0:73:73,0:73:2612:0:0:0,-21.9752,-235.328 0/1:32:19,13:19:684:13:464:-32.4645,0,-52.2574 0/1:53:42,11:42:1504:11:396:-20.0282,0,-119.686 0/0:118:115,3:115:4108:3:108:0,-25.4464,-359.673 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.353 chr08 33305081 . G T 46450.7 PASS AB=0.558532;ABP=33.0059;AC=29;AF=0.690476;AN=42;AO=1814;CIGAR=1X;DP=2316;DPB=2316;DPRA=2.31327;EPP=1248.43;EPPR=1075.79;GTI=1;LEN=1;MEANALT=1;MQM=59.9432;MQMR=60;NS=21;NUMALT=1;ODDS=2.05252;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64729;QR=17931;RO=502;RPL=397;RPP=1248.43;RPPR=1075.79;RPR=1417;RUN=1;SAF=1814;SAP=3942.06;SAR=0;SRF=502;SRP=1093.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:57,69:57:2036:69:2464:-184.085,0,-145.582 0/1:51:15,36:15:540:36:1292:-101.231,0,-33.584 0/1:93:43,50:43:1548:50:1783:-132.756,0,-111.617 0/1:149:68,81:68:2436:81:2887:-215.185,0,-174.642 1/1:311:5,306:5:180:306:10922:-966.328,-77.0683,0 1/1:76:0,76:0:0:76:2709:-244.053,-22.8783,0 1/1:224:0,224:0:0:224:7978:-718.043,-67.4307,0 0/0:49:49,0:49:1751:0:0:0,-14.7505,-157.873 0/1:237:102,135:102:3622:135:4809:-361.622,0,-254.84 0/1:11:5,6:5:165:6:216:-16.4792,0,-11.8623 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:58:33,25:33:1184:25:900:-63.8613,0,-89.4086 0/1:193:94,99:94:3368:99:3544:-261.07,0,-245.237 1/1:184:0,184:0:0:184:6589:-592.457,-55.3895,0 1/1:125:0,125:0:0:125:4465:-402.019,-37.6288,0 1/1:95:0,95:0:0:95:3412:-307.293,-28.5979,0 1/1:71:0,71:0:0:71:2507:-225.882,-21.3731,0 0/1:30:12,18:12:432:18:644:-49.2597,0,-30.1903 0/1:54:11,43:11:381:43:1532:-121.912,0,-18.365 1/1:117:3,114:3:108:114:4032:-352.935,-25.1453,0 1/1:56:0,56:0:0:56:2008:-180.993,-16.8577,0 chr08 33305097 . T C 38803.5 PASS AB=0.563672;ABP=38.682;AC=29;AF=0.690476;AN=42;AO=1860;CIGAR=1X;DP=2360;DPB=2360;DPRA=2.35816;EPP=4041.95;EPPR=1086.58;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9188;MQMR=60;NS=21;NUMALT=1;ODDS=0.608593;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65764;QR=17788;RO=499;RPL=1859;RPP=4033.27;RPPR=1086.58;RPR=1;RUN=1;SAF=1859;SAP=4033.27;SAR=1;SRF=499;SRP=1086.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:56,69:56:1999:69:2443:-182.495,0,-142.554 0/1:53:15,38:15:536:38:1343:-105.215,0,-32.6202 0/1:97:46,51:46:1652:51:1790:-132.179,0,-119.769 0/1:151:68,83:68:2411:83:2912:-216.724,0,-171.788 1/1:323:5,318:5:180:318:11236:-994.497,-80.6806,0 1/1:76:0,76:0:0:76:2681:-241.533,-22.8783,0 1/1:230:0,230:0:0:230:8133:-731.992,-69.2369,0 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.324 0/1:235:101,134:101:3596:134:4776:-359.255,0,-253.104 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/1:7:6,1:6:207:1:36:-1.49107,0,-16.8597 0/1:56:31,25:31:1116:25:896:-64.1027,0,-83.894 0/1:196:92,104:92:3268:104:3716:-275.64,0,-235.338 1/1:197:0,197:0:0:197:6903:-620.915,-59.3029,0 1/1:123:0,123:0:0:123:4358:-392.395,-37.0267,0 1/1:102:0,101:0:0:101:3591:-323.036,-30.404,0 1/1:75:0,75:0:0:75:2651:-238.835,-22.5773,0 0/1:32:13,19:13:459:19:666:-50.6306,0,-32.0111 0/1:50:9,41:9:320:41:1440:-114.842,0,-14.0909 1/1:117:3,114:3:108:114:4041:-353.787,-25.1453,0 1/1:55:0,55:0:0:55:1936:-174.514,-16.5567,0 chr08 33305928 . TAT TAA,TAAT 26321.3 PASS AB=0.456811,0.543189;ABP=12.7639,12.7639;AC=29,13;AF=0.690476,0.309524;AN=42;AO=848,376;CIGAR=2M1X,1M1I2M;DP=1225;DPB=1350.33;DPRA=1.31111,0.988102;EPP=1827.09,819.484;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.75,1.93333;MQM=59.263,55.6011;MQMR=0;NS=21;NUMALT=2;ODDS=5.30961;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30385,13386;QR=0;RO=0;RPL=2,0;RPP=1827.09,819.484;RPPR=0;RPR=846,376;RUN=1,1;SAF=848,376;SAP=1844.42,819.484;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:49:0,8,41:0:0:8,41:288,1460:-142.713,-119.225,-116.817,-23.8467,0,-11.5044 1/2:56:0,24,32:0:0:24,32:864,1136:-162.555,-92.0614,-84.8367,-70.8497,0,-61.2167 1/2:60:0,35,25:0:0:35,25:1256,896:-175.811,-73.3896,-62.8536,-102.78,0,-95.254 1/2:86:0,44,42:0:0:44,42:1576,1504:-251.461,-122.95,-109.705,-128.869,0,-116.225 1/1:98:0,96,2:0:0:96,2:3453,72:-310.516,-28.8989,0,-304.644,-22.6675,-304.042 1/1:43:0,43,0:0:0:43,0:1544,0:-139.106,-12.9443,0,-139.106,-12.9443,-139.106 1/1:85:0,84,1:0:0:84,1:3012,36:-270.908,-25.2865,0,-267.976,-21.9961,-267.675 2/2:45:0,0,45:0:0:0,45:0,1604:-144.452,-144.452,-144.452,-13.5464,-13.5464,0 1/2:94:0,37,57:0:0:37,57:1324,2005:-271.397,-163.469,-152.331,-108.283,0,-91.124 1/2:20:0,4,16:0:0:4,16:140,572:-58.1897,-46.8003,-45.5962,-11.7405,0,-6.92398 1/2:6:0,4,2:0:0:4,2:144,72:-17.9718,-6.22164,-5.01752,-12.1095,0,-11.5074 1/2:19:0,7,12:0:0:7,12:252,428:-55.7713,-35.2081,-33.1009,-20.9217,0,-17.3094 1/2:55:0,24,31:0:0:24,31:860,1089:-159.027,-88.8958,-81.6711,-70.4865,0,-61.1545 1/1:94:0,93,0:0:0:93,0:3314,0:-297.711,-27.9958,0,-297.711,-27.9958,-297.711 1/1:94:0,94,0:0:0:94,0:3372,0:-303.582,-28.2968,0,-303.582,-28.2968,-303.582 1/1:35:0,35,0:0:0:35,0:1237,0:-111.546,-10.5361,0,-111.546,-10.5361,-111.546 1/1:26:0,26,0:0:0:26,0:928,0:-83.8383,-7.82678,0,-83.8383,-7.82678,-83.8383 1/2:109:0,60,49:0:0:60,49:2156,1756:-318.778,-142.948,-124.886,-176.188,0,-161.438 1/2:48:0,28,20:0:0:28,20:1004,720:-140.925,-59.0772,-50.6484,-82.2068,0,-76.1862 1/1:61:0,61,0:0:0:61,0:2189,0:-197.101,-18.3628,0,-197.101,-18.3628,-197.101 1/1:42:0,41,1:0:0:41,1:1472,36:-132.39,-12.3422,0,-129.459,-9.05184,-129.158 chr09 39526 . A G 60699.5 PASS AB=0.553281;ABP=43.9676;AC=30;AF=0.714286;AN=42;AO=2861;CIGAR=1X;DP=3831;DPB=3831;DPRA=0.82867;EPP=6215.59;EPPR=2102.82;GTI=1;LEN=1;MEANALT=1.15;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.71829;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102101;QR=32762;RO=967;RPL=2861;RPP=6215.59;RPPR=2102.82;RPR=0;RUN=1;SAF=2861;SAP=6215.59;SAR=0;SRF=967;SRP=2102.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:300:2,298:2:57:298:10619:-950.21,-84.8957,0 1/1:105:0,105:0:0:105:3724:-335.361,-31.6082,0 0/1:219:94,125:94:3097:125:4475:-336.993,0,-213.021 1/1:189:0,188:0:0:188:6703:-603.076,-56.5936,0 0/1:416:170,246:170:5831:246:8736:-661.004,0,-399.678 0/1:129:58,71:58:1993:71:2511:-187.407,0,-140.803 0/1:308:171,137:171:5787:137:4892:-347.714,0,-428.231 0/0:218:218,0:218:7231:0:0:0,-65.6245,-650.857 1/1:335:0,334:0:0:334:11947:-1074.72,-100.544,0 0/1:15:2,13:2:68:13:464:-37.5821,0,-1.94226 0/1:17:3,14:3:108:14:504:-40.5806,0,-4.95766 0/1:69:34,35:34:1208:35:1260:-92.9344,0,-88.255 1/1:203:0,203:0:0:203:7266:-653.988,-61.1091,0 0/1:277:136,141:136:4635:141:5028:-369.281,0,-333.925 1/1:240:0,239:0:0:239:8566:-770.575,-71.9462,0 1/1:191:1,190:1:36:190:6776:-606.314,-53.8985,0 1/1:164:0,164:0:0:164:5841:-525.802,-49.3689,0 0/1:94:39,55:39:1354:55:1960:-148.379,0,-93.8573 0/1:117:35,82:35:1213:82:2927:-228.444,0,-74.2506 1/1:134:4,130:4:144:130:4668:-406.966,-27.0244,0 1/1:91:0,91:0:0:91:3234:-291.28,-27.3937,0 chr09 54343 . TATTTAC AATGTTAC,TATGTTAC 24770 PASS AB=0.557927,0.432927;ABP=22.1298,28.6443;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1408,427;CIGAR=1X2M1I4M,3M1I4M;DP=1842;DPB=2105.29;DPRA=0.61259,0.937408;EPP=3060.44,878.846;EPPR=0;GTI=0;LEN=8,1;MEANALT=1.9,2.46154;MQM=26.576,51.1241;MQMR=0;NS=21;NUMALT=2;ODDS=5.21045;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=12,12;PQR=12;PRO=0.333333;QA=37375,15126;QR=0;RO=0;RPL=0,6;RPP=3060.44,878.846;RPPR=0;RPR=1408,421;RUN=1,1;SAF=1408,427;SAP=3060.44,930.229;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:143:0,143,0:0:0:143,0:3860,0:-309.512,-43.0473,0,-309.512,-43.0473,-309.512 1/1:54:0,54,0:0:0:54,0:1246,0:-97.7632,-16.2556,0,-97.7632,-16.2556,-97.7632 1/2:51:0,24,26:0:0:24,26:651,928:-120.597,-75.5523,-68.3276,-45.0381,0,-37.2113 1/1:76:0,75,1:0:0:75,1:2041,32:-163.27,-22.5773,0,-160.693,-19.6817,-160.392 1/2:184:0,105,77:0:0:105,77:2841,2727:-416.731,-221.118,-189.509,-195.661,0,-172.482 1/2:59:0,34,25:0:0:34,25:780,892:-123.236,-72.5379,-62.3029,-50.9868,0,-43.4611 1/2:110:0,65,44:0:0:65,44:1493,1538:-221.087,-123.915,-104.348,-97.1974,0,-83.9521 2/2:139:0,0,138:0:0:0,138:0,4885:-437.658,-437.658,-437.658,-41.5421,-41.5421,0 1/1:169:0,169,0:0:0:169,0:4884,0:-394.119,-50.8741,0,-394.119,-50.8741,-394.119 1/1:12:0,12,0:0:0:12,0:300,0:-23.9763,-3.61236,0,-23.9763,-3.61236,-23.9763 1/1:11:0,11,0:0:0:11,0:249,0:-19.6381,-3.31133,0,-19.6381,-3.31133,-19.6381 1/2:15:0,4,11:0:0:4,11:100,396:-39.2312,-32.5535,-31.3494,-6.93461,0,-3.62328 1/1:76:0,74,2:0:0:74,2:2002,72:-160.045,-22.2762,0,-154.174,-16.0486,-153.572 1/2:66:0,29,37:0:0:29,37:787,1320:-161.86,-107.656,-98.9258,-54.4956,0,-43.3575 1/1:209:0,209,0:0:0:209,0:5639,0:-451.208,-62.9153,0,-451.208,-62.9153,-451.208 1/1:90:0,90,0:0:0:90,0:2602,0:-210.373,-27.0927,0,-210.373,-27.0927,-210.373 1/1:42:0,42,0:0:0:42,0:1203,0:-97.4116,-12.6433,0,-97.4116,-12.6433,-97.4116 1/2:101:0,51,48:0:0:51,48:1271,1692:-222.628,-137.439,-122.087,-85.258,0,-70.8086 1/2:70:0,54,16:0:0:54,16:1464,576:-148.138,-47.2547,-30.999,-101.216,0,-96.3994 1/1:112:0,111,1:0:0:111,1:2768,32:-219.019,-33.4143,0,-216.444,-30.5208,-216.143 1/1:53:0,52,1:0:0:52,1:1194,36:-93.2756,-15.6536,0,-90.4213,-12.4519,-90.1203 chr09 54353 . T A 71708.2 PASS AB=0.577394;ABP=75.2755;AC=31;AF=0.738095;AN=42;AO=3051;CIGAR=1X;DP=3880;DPB=3880;DPRA=0.768565;EPP=6628.17;EPPR=1783.66;GTI=1;LEN=1;MEANALT=1.05;MQM=44.45;MQMR=54.9686;NS=21;NUMALT=1;ODDS=6.31397;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=108871;QR=29380;RO=828;RPL=1401;RPP=47.138;RPPR=15.137;RPR=1650;RUN=1;SAF=1401;SAP=47.138;SAR=1650;SRF=450;SRP=16.6056;SRR=378;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:292:0,292:0:0:292:10379:-814.325,-87.9008,0 1/1:140:0,140:0:0:140:5009:-389.623,-42.1442,0 0/1:115:54,61:54:1907:61:2187:-142.746,0,-136.814 1/1:234:1,233:1:36:233:8317:-682.823,-66.8496,0 0/1:304:122,182:122:4368:182:6519:-406.477,0,-299.871 0/1:120:46,74:46:1635:74:2647:-161.735,0,-110.54 0/1:283:125,158:125:4441:158:5582:-342.514,0,-312.531 0/0:237:237,0:237:8436:0:0:0,-71.3441,-757.05 1/1:293:0,293:0:0:293:10473:-824.07,-88.2018,0 1/1:28:0,28:0:0:28:996:-77.6582,-8.42884,0 0/1:20:4,16:4:144:16:561:-32.4917,0,-7.27497 0/1:56:31,25:31:1092:25:891:-59.5585,0,-81.6299 1/1:170:1,169:1:36:169:6047:-478.401,-47.5805,0 0/1:179:87,92:87:3056:92:3280:-216.238,0,-221.066 1/1:454:0,454:0:0:454:16186:-1279.95,-136.668,0 1/1:183:0,182:0:0:182:6500:-522.279,-54.7875,0 1/1:136:0,136:0:0:136:4849:-407.867,-40.9401,0 0/1:178:86,92:86:3030:92:3299:-191.492,0,-218.598 0/1:134:32,102:32:1127:102:3643:-242.723,0,-61.2913 1/1:216:1,215:1:36:215:7674:-575.987,-61.436,0 1/1:108:1,107:1:36:107:3832:-280.225,-29.0085,0 chr09 54361 . TGCATGCAG TGCAAGCAA,AGCAAGCAG 96846.7 PASS AB=0.560386,0.433402;ABP=48.9049,58.8317;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3090,883;CIGAR=4M1X3M1X,1X3M1X4M;DP=4004;DPB=4005.22;DPRA=0.728988,0.882065;EPP=6712.86,1920.42;EPPR=0;GTI=1;LEN=9,9;MEANALT=2.85,3.25;MQM=44.6003,55.1019;MQMR=0;NS=21;NUMALT=2;ODDS=1.74934;PAIRED=0,0;PAIREDR=0;PAO=0,4;PQA=0,144;PQR=0;PRO=0;QA=108659,30787;QR=0;RO=0;RPL=1406,462;RPP=57.321,7.14421;RPPR=0;RPR=1684,421;RUN=1,1;SAF=1406,462;SAP=57.321,7.14421;SAR=1684,421;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:296:0,295,0:0:0:295,0:10347,0:-819.323,-88.8039,0,-819.323,-88.8039,-819.323 1/1:144:0,144,0:0:0:144,0:5098,0:-397.748,-43.3483,0,-397.748,-43.3483,-397.748 1/2:118:0,61,56:0:0:61,56:2144,1956:-315.405,-158.824,-140.461,-156.567,0,-139.709 1/1:239:0,236,1:0:0:236,1:8311,36:-689.159,-71.0431,0,-686.228,-68.0968,-685.927 1/2:315:0,185,130:0:0:185,130:6538,4572:-818.509,-371.139,-315.448,-447.41,0,-408.276 1/2:127:0,75,51:0:0:75,51:2678,1786:-323.535,-144.958,-122.381,-178.674,0,-163.322 1/2:298:0,159,138:0:0:159,138:5591,4806:-770.94,-389.049,-341.185,-381.857,0,-340.315 2/2:257:0,0,253:0:0:0,253:0,8864:-795.553,-795.553,-795.553,-76.1606,-76.1606,0 1/1:298:0,295,0:0:0:295,0:10339,0:-821.855,-88.8039,0,-821.855,-88.8039,-821.855 1/1:29:0,29,0:0:0:29,0:980,0:-77.8573,-8.72987,0,-77.8573,-8.72987,-77.8573 1/2:22:0,17,5:0:0:17,5:598,157:-48.8945,-12.9291,-7.81161,-36.2689,0,-34.7638 1/2:59:0,25,34:0:0:25,34:881,1207:-166.326,-98.5967,-91.0709,-68.072,0,-57.837 1/1:173:0,169,0:0:0:169,0:5929,0:-475.797,-50.8741,0,-475.797,-50.8741,-475.797 1/2:187:0,96,90:0:0:96,90:3344,3086:-499.409,-250.204,-221.305,-249.197,0,-222.105 1/1:463:0,459,0:0:0:459,0:16169,0:-1285.08,-138.173,0,-1285.08,-138.173,-1285.08 1/1:188:0,186,0:0:0:186,0:6553,0:-531.359,-55.9916,0,-531.359,-55.9916,-531.359 1/1:141:0,141,0:0:0:141,0:4928,0:-416.964,-42.4452,0,-416.964,-42.4452,-416.964 1/2:184:0,92,88:0:0:92,88:3245,3053:-462.923,-247.686,-219.991,-215.25,0,-188.759 1/2:139:0,102,36:0:0:102,36:3615,1228:-350.91,-99.5413,-68.8363,-251.342,0,-240.505 1/1:219:0,217,1:0:0:217,1:7614,36:-578.237,-65.3235,0,-575.31,-62.397,-575.009 1/1:108:0,107,0:0:0:107,0:3757,0:-279.904,-32.2102,0,-279.904,-32.2102,-279.904 chr09 54394 . G C 6969 PASS AB=0.422222;ABP=40.8422;AC=11;AF=0.261905;AN=42;AO=408;CIGAR=1X;DP=2016;DPB=2016;DPRA=0.761965;EPP=888.971;EPPR=3490.39;GTI=0;LEN=1;MEANALT=1.2;MQM=59.6324;MQMR=59.655;NS=21;NUMALT=1;ODDS=2.57008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14540;QR=56684;RO=1606;RPL=408;RPP=888.971;RPPR=3490.39;RPR=0;RUN=1;SAF=0;SAP=888.971;SAR=408;SRF=0;SRP=3490.39;SRR=1606;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:146,0:146:5135:0:0:0,-43.9504,-462.156 0/0:86:86,0:86:3029:0:0:0,-25.8886,-272.816 0/1:64:35,29:35:1244:29:1036:-74.288,0,-92.9978 0/0:153:153,0:153:5411:0:0:0,-46.0576,-487.074 0/1:119:76,43:76:2682:43:1546:-103.602,0,-205.798 0/1:61:39,22:39:1392:22:784:-52.4337,0,-107.2 0/1:175:90,84:90:3161:84:3008:-218.213,0,-231.947 1/1:105:0,104:0:0:104:3692:-332.021,-31.3071,0 0/0:121:121,0:121:4293:0:0:0,-36.4246,-386.512 0/0:15:15,0:15:523:0:0:0,-4.51545,-47.3284 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:42:19,23:19:676:23:815:-61.0257,0,-48.5232 0/0:92:92,0:92:3238:0:0:0,-27.6948,-291.599 0/1:108:61,47:61:2172:47:1669:-117.968,0,-163.236 0/0:243:243,0:243:8554:0:0:0,-73.1503,-769.572 0/0:89:89,0:89:3155:0:0:0,-26.7917,-284.144 0/0:92:92,0:92:3258:0:0:0,-27.6948,-293.393 0/1:78:43,35:43:1506:35:1235:-87.9685,0,-112.318 0/1:65:48,17:48:1687:17:611:-35.752,0,-132.544 0/0:99:99,0:99:3481:0:0:0,-29.802,-313.478 0/0:55:55,0:55:1943:0:0:0,-16.5566,-175.118 chr09 72126 . G A 43961.6 PASS AB=0.481067;ABP=6.62817;AC=32;AF=0.761905;AN=42;AO=2069;CIGAR=1X;DP=2868;DPB=2868;DPRA=0.696875;EPP=4495.79;EPPR=1738.02;GTI=1;LEN=1;MEANALT=1;MQM=59.827;MQMR=59.9262;NS=21;NUMALT=1;ODDS=3.83907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73831;QR=28458;RO=799;RPL=0;RPP=4495.79;RPPR=1738.02;RPR=2069;RUN=1;SAF=2069;SAP=4495.79;SAR=0;SRF=799;SRP=1738.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:263:2,261:2:72:261:9272:-827.607,-72.3342,0 1/1:95:0,95:0:0:95:3412:-307.293,-28.5979,0 0/1:138:67,71:67:2392:71:2537:-187.035,0,-173.986 1/1:102:0,102:0:0:102:3648:-328.454,-30.7051,0 0/1:364:193,171:193:6878:171:6107:-440.078,0,-509.023 0/1:99:55,44:55:1959:44:1575:-112.239,0,-146.76 0/1:227:134,93:134:4783:93:3328:-231.404,0,-362.294 0/0:192:192,0:192:6843:0:0:0,-57.7978,-615.938 1/1:260:2,258:2:72:258:9177:-819.06,-71.4311,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:39:19,20:19:672:20:697:-51.3105,0,-49.0667 1/1:173:0,173:0:0:173:6145:-553.085,-52.0782,0 0/1:146:72,74:72:2531:74:2656:-195.324,0,-184.087 1/1:152:0,152:0:0:152:5444:-490.079,-45.7566,0 1/1:136:0,136:0:0:136:4867:-437.64,-40.9401,0 1/1:101:0,101:0:0:101:3603:-324.263,-30.404,0 0/1:62:29,33:29:1040:33:1184:-88.2035,0,-75.2505 0/1:87:34,53:34:1216:53:1908:-145.49,0,-83.557 1/1:155:0,155:0:0:155:5503:-495.247,-46.6597,0 1/1:63:0,63:0:0:63:2264:-204.01,-18.9649,0 chr09 101296 . T C 34770.1 PASS AB=0.56278;ABP=33.5472;AC=31;AF=0.738095;AN=42;AO=1715;CIGAR=1X;DP=2163;DPB=2163;DPRA=1.95278;EPP=3727.09;EPPR=973.658;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7609;MQMR=59.9128;NS=21;NUMALT=1;ODDS=13.8443;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59204;QR=15783;RO=447;RPL=1715;RPP=3727.09;RPPR=973.658;RPR=0;RUN=1;SAF=1715;SAP=3727.09;SAR=0;SRF=447;SRP=973.658;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,136:0:0:136:4735:-426.314,-40.9401,0 1/1:65:0,64:0:0:64:2233:-200.873,-19.2659,0 0/1:104:46,58:46:1616:58:2016:-150.4,0,-114.419 1/1:107:0,107:0:0:107:3702:-333.384,-32.2102,0 0/1:195:102,93:102:3624:93:3221:-231.41,0,-267.664 0/1:124:61,63:61:2153:63:2184:-159.354,0,-156.701 0/1:121:49,72:49:1748:72:2440:-183.384,0,-121.18 0/0:54:54,0:54:1912:0:0:0,-16.2556,-172.355 1/1:230:0,230:0:0:230:7914:-711.688,-69.2369,0 1/1:22:0,22:0:0:22:741:-66.9978,-6.62266,0 0/1:11:7,4:7:237:4:136:-9.25758,0,-18.3477 0/1:33:13,20:13:468:20:672:-50.8591,0,-32.5257 1/1:150:0,150:0:0:150:5151:-462.702,-45.1545,0 0/1:113:58,55:58:2035:55:1895:-136.802,0,-149.403 1/1:186:0,186:0:0:186:6399:-576.008,-55.9916,0 1/1:76:0,76:0:0:76:2653:-239.002,-22.8783,0 1/1:66:2,64:2:72:64:2247:-195.634,-13.0313,0 0/1:88:27,61:27:942:61:2059:-159.077,0,-58.281 0/1:103:27,76:27:940:76:2654:-208.055,0,-53.9047 1/1:102:1,101:1:36:101:3504:-311.907,-27.1068,0 1/1:77:0,77:0:0:77:2648:-238.528,-23.1793,0 chr09 199591 . G T 28968.9 PASS AB=0.463855;ABP=10.545;AC=31;AF=0.738095;AN=42;AO=1343;CIGAR=1X;DP=1818;DPB=1818;DPRA=0.733621;EPP=2910.62;EPPR=1034.46;GTI=0;LEN=1;MEANALT=1;MQM=59.5949;MQMR=26.2716;NS=21;NUMALT=1;ODDS=0.727546;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48046;QR=16980;RO=475;RPL=1;RPP=2910.62;RPPR=1034.46;RPR=1342;RUN=1;SAF=1343;SAP=2919.3;SAR=0;SRF=475;SRP=1034.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,87:0:0:87:3104:-279.567,-26.1896,0 1/1:72:0,72:0:0:72:2573:-231.618,-21.6742,0 0/1:94:44,50:44:1580:50:1796:-133.623,0,-73.4515 1/1:135:0,135:0:0:135:4841:-435.834,-40.6391,0 0/1:163:101,62:101:3567:62:2226:-151.528,0,-182.256 0/1:71:39,32:39:1404:32:1130:-80.5592,0,-71.9367 0/1:96:65,31:65:2313:31:1112:-71.4925,0,-125.623 0/0:116:116,0:116:4160:0:0:0,-34.9195,-267.459 1/1:115:0,115:0:0:115:4099:-369.067,-34.6185,0 1/1:7:0,7:0:0:7:233:-21.2894,-2.10721,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-1.44448 0/1:23:6,17:6:216:17:608:-48.1191,0,-7.1492 1/1:179:0,179:0:0:179:6386:-574.802,-53.8844,0 0/1:103:62,41:62:2228:41:1472:-101.768,0,-112.216 1/1:117:0,117:0:0:117:4193:-377.487,-35.2205,0 1/1:77:0,77:0:0:77:2772:-249.583,-23.1793,0 1/1:73:0,73:0:0:73:2624:-236.381,-21.9752,0 0/1:49:17,32:17:612:32:1148:-88.8748,0,-24.8165 0/1:61:21,40:21:756:40:1440:-111.528,0,-30.4132 1/1:128:3,125:3:108:125:4453:-393.514,-31.2836,0 1/1:48:0,48:0:0:48:1728:-155.548,-14.4494,0 chr09 199611 . TGTG TGTA,CGTA 35737.7 PASS AB=0.457271,0.541229;ABP=13.5877,12.8584;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1347,481;CIGAR=3M1X,1X2M1X;DP=1832;DPB=1832;DPRA=0.739655,0.903156;EPP=2927.98,1030.19;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.7,2;MQM=59.6028,26.3326;MQMR=0;NS=21;NUMALT=2;ODDS=1.07571;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48132,16930;QR=0;RO=0;RPL=1347,2;RPP=2927.98,1030.19;RPPR=0;RPR=0,479;RUN=1,1;SAF=1347,481;SAP=2927.98,1047.49;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,87,0:0:0:87,0:3124,0:-281.374,-26.1896,0,-281.374,-26.1896,-281.374 1/1:72:0,71,0:0:0:71,0:2536,0:-228.216,-21.3731,0,-228.216,-21.3731,-228.216 1/2:94:0,48,46:0:0:48,46:1724,1627:-233.01,-92.323,-77.8736,-140.994,0,-127.146 1/1:141:0,141,0:0:0:141,0:5044,0:-454.093,-42.4452,0,-454.093,-42.4452,-454.093 1/2:163:0,62,101:0:0:62,101:2211,3570:-382.078,-201.813,-183.149,-180.583,0,-150.179 1/2:69:0,31,38:0:0:31,38:1116,1336:-170.033,-78.9456,-69.6137,-91.4034,0,-79.9643 1/2:97:0,31,66:0:0:31,66:1112,2339:-227.932,-137.201,-127.869,-91.0594,0,-71.1914 2/2:116:0,0,116:0:0:0,116:0,4086:-265.612,-265.612,-265.612,-34.9195,-34.9195,0 1/1:114:0,114,0:0:0:114,0:4084,0:-367.714,-34.3174,0,-367.714,-34.3174,-367.714 1/1:7:0,7,0:0:0:7,0:252,0:-23.016,-2.10721,0,-23.016,-2.10721,-23.016 1/2:4:0,3,1:0:0:3,1:108,36:-11.231,-2.34757,-1.44448,-9.17208,0,-8.87105 1/2:23:0,17,6:0:0:17,6:608,214:-61.8914,-12.2482,-7.13071,-49.9253,0,-48.1191 1/1:181:0,181,0:0:0:181,0:6453,0:-580.837,-54.4864,0,-580.837,-54.4864,-580.837 1/2:105:0,42,63:0:0:42,63:1502,2182:-247.344,-124.831,-112.188,-122.828,0,-103.863 1/1:117:0,117,0:0:0:117,0:4200,0:-378.105,-35.2205,0,-378.105,-35.2205,-378.105 1/1:78:0,78,0:0:0:78,0:2751,0:-247.691,-23.4803,0,-247.691,-23.4803,-247.691 1/1:74:0,74,0:0:0:74,0:2648,0:-238.542,-22.2762,0,-238.542,-22.2762,-238.542 1/2:50:0,32,17:0:0:32,17:1152,603:-128.157,-34.0942,-24.4613,-94.103,0,-88.9855 1/2:62:0,39,23:0:0:39,23:1400,799:-160.153,-45.8943,-34.1541,-114.552,0,-107.628 1/1:130:0,126,4:0:0:126,4:4466,138:-401.344,-37.9298,0,-392.421,-28.7228,-391.217 1/1:48:0,46,0:0:0:46,0:1641,0:-147.598,-13.8474,0,-147.598,-13.8474,-147.598 chr09 199657 . T A 4825.85 PASS AB=0.484725;ABP=4.00537;AC=11;AF=0.261905;AN=42;AO=284;CIGAR=1X;DP=1104;DPB=1104;DPRA=1.1233;EPP=619.708;EPPR=1777.1;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.5176;MQMR=59.5006;NS=21;NUMALT=1;ODDS=12.8352;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10127;QR=29270;RO=817;RPL=0;RPP=619.708;RPPR=1777.1;RPR=284;RUN=1;SAF=0;SAP=619.708;SAR=284;SRF=0;SRP=1777.1;SRR=817;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:38,0:38:1353:0:0:0,-11.4391,-121.176 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3509 0/1:50:28,22:28:989:22:792:-56.5418,0,-74.2581 0/0:53:53,0:53:1893:0:0:0,-15.9546,-170.498 0/1:84:40,44:40:1436:44:1580:-116.98,0,-104.237 0/1:39:17,22:17:612:22:760:-56.9757,0,-43.6651 0/1:71:43,28:43:1548:28:980:-67.1286,0,-118.213 1/1:43:0,43:0:0:43:1547:-139.505,-12.9443,0 0/0:81:81,0:81:2897:0:0:0,-24.3834,-259.588 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:8:4,4:4:144:4:140:-10.528,0,-10.9054 0/1:32:17,15:17:612:15:540:-39.3036,0,-45.7759 0/0:63:63,0:63:2268:0:0:0,-18.9649,-204.374 0/1:59:35,24:35:1260:24:856:-59.5879,0,-95.9323 0/0:83:81,0:81:2912:0:0:0,-24.3834,-261.937 0/0:37:36,1:36:1296:1:36:0,-7.53983,-113.329 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.048 0/1:92:41,51:41:1457:51:1820:-136.377,0,-103.534 0/1:56:28,28:28:989:28:1004:-73.812,0,-72.4643 0/0:91:88,2:88:3160:2:72:0,-20.6062,-277.507 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.757 chr09 199679 . A G 5082.09 PASS AB=0.48996;ABP=3.44634;AC=11;AF=0.261905;AN=42;AO=290;CIGAR=1X;DP=1101;DPB=1101;DPRA=1.15704;EPP=606.949;EPPR=1669.83;GTI=0;LEN=1;MEANALT=1;MQM=59.5103;MQMR=59.5857;NS=21;NUMALT=1;ODDS=12.1164;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10347;QR=29027;RO=811;RPL=287;RPP=606.949;RPPR=1669.83;RPR=3;RUN=1;SAF=0;SAP=632.737;SAR=290;SRF=0;SRP=1764.07;SRR=811;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.793 0/0:21:21,0:21:752:0:0:0,-6.32163,-67.9899 0/1:51:28,23:28:999:23:824:-59.1184,0,-74.8596 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.843 0/1:86:41,45:41:1468:45:1611:-119.309,0,-106.503 0/1:38:16,22:16:576:22:775:-58.632,0,-40.7276 0/1:70:43,27:43:1536:27:960:-65.6278,0,-117.451 1/1:43:0,43:0:0:43:1544:-139.239,-12.9443,0 0/0:79:79,0:79:2828:0:0:0,-23.7814,-254.745 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:8:4,4:4:144:4:135:-10.0659,0,-10.9054 0/1:30:15,15:15:525:15:536:-39.5439,0,-38.5425 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.179 0/1:61:36,25:36:1292:25:883:-61.4122,0,-98.2123 0/0:80:80,0:80:2847:0:0:0,-24.0824,-256.438 0/0:37:36,1:36:1296:1:36:0,-7.53983,-113.329 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.768 0/1:94:41,53:41:1472:53:1895:-142.526,0,-104.104 0/1:60:30,30:30:1072:30:1076:-79.0849,0,-78.7307 0/0:90:88,2:88:3152:2:72:0,-20.256,-276.923 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.519 chr09 199690 . AT TC 17169.8 PASS AB=0.514851;ABP=3.97779;AC=31;AF=0.738095;AN=42;AO=833;CIGAR=2X;DP=1127;DPB=1127;DPRA=1.23068;EPP=1811.85;EPPR=637.08;GTI=0;LEN=2;MEANALT=1.1;MQM=59.4586;MQMR=59.4932;NS=21;NUMALT=1;ODDS=12.6637;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29414;QR=10347;RO=292;RPL=833;RPP=1811.85;RPPR=637.08;RPR=0;RUN=1;SAF=0;SAP=1811.85;SAR=833;SRF=0;SRP=637.08;SRR=292;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39:0:0:39:1393:-124.775,-11.7402,0 1/1:21:0,21:0:0:21:744:-67.2676,-6.32163,0 0/1:51:23,28:23:828:28:991:-74.1434,0,-59.4792 1/1:54:0,54:0:0:54:1901:-171.326,-16.2556,0 0/1:87:45,42:45:1594:42:1471:-106.472,0,-117.494 0/1:39:22,17:22:769:17:612:-43.6651,0,-57.7889 0/1:72:28,44:28:1008:44:1520:-115.386,0,-69.3458 0/0:44:44,0:44:1551:0:0:0,-13.2453,-139.865 1/1:82:0,81:0:0:81:2855:-255.625,-24.3834,0 1/1:11:0,11:0:0:11:386:-35.0756,-3.31133,0 0/1:8:4,4:4:144:4:136:-10.1667,0,-10.897 0/1:32:15,17:15:536:17:592:-43.9679,0,-38.9419 1/1:64:0,63:0:0:63:2233:-200.865,-18.9649,0 0/1:61:25,36:25:881:36:1257:-95.0596,0,-61.2314 1/1:84:0,84:0:0:84:2971:-267.591,-25.2865,0 1/1:37:1,36:1:36:36:1290:-112.789,-7.53984,0 1/1:42:0,42:0:0:42:1488:-134.205,-12.6433,0 0/1:95:53,42:53:1883:42:1510:-107.222,0,-141.139 0/1:60:30,30:30:1045:30:1063:-77.9179,0,-76.2879 1/1:92:2,90:2:72:90:3170:-278.361,-20.858,0 1/1:52:0,52:0:0:52:1831:-165.036,-15.6536,0 chr09 250029 . A T 93342.5 PASS AB=0.503034;ABP=3.15522;AC=31;AF=0.738095;AN=42;AO=3528;CIGAR=1X;DP=4674;DPB=4674;DPRA=0;EPP=7663.96;EPPR=2491.52;GTI=0;LEN=1;MEANALT=1;MQM=51.6114;MQMR=56.1702;NS=21;NUMALT=1;ODDS=39.4866;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=126286;QR=41020;RO=1146;RPL=1785;RPP=4.09604;RPPR=324.646;RPR=1743;RUN=1;SAF=1743;SAP=4.09604;SAR=1785;SRF=779;SRP=324.646;SRR=367;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:346:3,343:3:108:343:12255:-1050.32,-94.191,0 1/1:200:4,196:4:144:196:6990:-615.842,-46.8924,0 0/1:276:153,123:153:5492:123:4404:-302.665,0,-406.027 1/1:261:0,261:0:0:261:9344:-799.139,-78.5688,0 0/1:567:289,278:289:10357:278:9952:-687.404,0,-747.941 0/1:118:50,68:50:1792:68:2402:-180.892,0,-125.881 0/1:337:166,171:166:5937:171:6121:-449.498,0,-432.045 0/0:232:230,2:230:8213:2:72:0,-63.0072,-732.225 1/1:421:2,419:2:72:419:15014:-1291.35,-120.009,0 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 0/1:22:13,9:13:468:9:324:-22.8832,0,-35.837 0/1:39:21,18:21:756:18:648:-46.9117,0,-56.6133 1/1:191:2,189:2:68:189:6776:-582.352,-51.0406,0 0/1:248:124,124:124:4436:124:4429:-309.483,0,-319.727 1/1:348:0,348:0:0:348:12466:-1066.84,-104.758,0 1/1:198:0,198:0:0:198:7097:-611.552,-59.6039,0 1/1:214:1,213:1:21:213:7628:-646.478,-62.3205,0 0/1:128:64,64:64:2292:64:2292:-168.005,0,-167.526 0/1:78:21,57:21:756:57:2040:-155.322,0,-44.6565 1/1:321:2,319:2:72:319:11440:-1022.49,-89.7939,0 1/1:101:1,100:1:36:100:3584:-319.159,-26.8058,0 chr09 250083 . ATTCG TTTCG,TTTCA 123282 PASS AB=0.454035,0.54239;ABP=38.9427,33.5706;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3148,1353;CIGAR=1X4M,1X3M1X;DP=4522;DPB=4523.2;DPRA=0.74894,1.40872;EPP=6838.81,2941.01;EPPR=9.52472;GTI=0;LEN=1,5;MEANALT=2.45,2.8125;MQM=59.9549,59.4826;MQMR=60;NS=21;NUMALT=2;ODDS=12.8046;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=71,71;PQR=0;PRO=0;QA=112500,47263;QR=79;RO=3;RPL=1753,793;RPP=91.4171,90.1404;RPPR=9.52472;RPR=1395,560;RUN=1,1;SAF=1753,793;SAP=91.4171,90.1404;SAR=1395,560;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:317:0,312,4:0:0:312,4:11143,144:-1002.37,-93.9214,0,-990.62,-82.2207,-989.416 1/1:142:0,140,1:0:0:140,1:4977,35:-447.718,-42.1442,0,-444.872,-39.3027,-444.571 1/2:297:0,129,167:0:0:129,167:4612,5797:-847.233,-471.177,-432.344,-376.129,0,-325.857 1/1:190:0,189,0:0:0:189,0:6766,0:-608.787,-56.8947,0,-608.787,-56.8947,-608.787 1/2:515:0,209,304:0:0:209,304:7481,10648:-1476.41,-866.356,-803.441,-610.084,0,-518.571 1/2:127:0,51,76:0:0:51,76:1811,2666:-364.708,-217.142,-201.79,-147.918,0,-125.04 1/2:326:0,138,188:0:0:138,188:4939,6576:-937.214,-534.557,-493.015,-403.011,0,-346.418 2/2:283:0,0,281:0:0:0,281:0,9763:-878.234,-878.234,-878.234,-84.5894,-84.5894,0 1/1:432:1,428,1:1:25:428,1:15329,36:-1376.77,-126.906,0,-1374.14,-125.881,-1375.78 1/1:34:0,34,0:0:0:34,0:1220,0:-110.107,-10.235,0,-110.107,-10.235,-110.107 1/2:18:0,10,8:0:0:10,8:360,287:-53.1431,-23.7682,-20.7579,-29.734,0,-27.3258 1/2:77:0,43,33:0:0:43,33:1517,1158:-217.689,-94.1641,-81.2198,-123.537,0,-113.603 1/1:167:0,166,0:0:0:166,0:5945,0:-534.903,-49.971,0,-534.903,-49.971,-534.903 1/2:318:0,156,161:0:0:156,161:5528,5645:-909.769,-459.436,-412.476,-450.465,0,-401.999 1/1:254:0,254,0:0:0:254,0:9093,0:-818.34,-76.4616,0,-818.34,-76.4616,-818.34 1/1:176:0,176,0:0:0:176,0:6296,0:-566.729,-52.9813,0,-566.729,-52.9813,-566.729 1/1:134:1,130,1:1:26:130,1:4625,36:-413.767,-37.1109,0,-411.13,-36.179,-412.867 1/2:163:0,74,88:0:0:74,88:2643,3069:-464.759,-249.273,-226.997,-215.421,0,-188.93 1/2:117:1,79,37:1:28:79,37:2828,1301:-334.058,-103.736,-82.1715,-228.478,0,-219.558 1/1:290:0,286,2:0:0:286,2:10220,66:-919.385,-86.0946,0,-914.049,-80.7537,-913.447 1/1:145:0,144,1:0:0:144,1:5167,36:-464.799,-43.3483,0,-461.862,-40.0511,-461.561 chr09 250122 . A G 10084.1 PASS AB=0.535758;ABP=12.1726;AC=11;AF=0.261905;AN=42;AO=557;CIGAR=1X;DP=1944;DPB=1944;DPRA=1.17015;EPP=1212.52;EPPR=3006.16;GTI=0;LEN=1;MEANALT=1;MQM=59.7163;MQMR=59.9805;NS=21;NUMALT=1;ODDS=0.827471;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19868;QR=49712;RO=1387;RPL=557;RPP=1212.52;RPPR=3006.16;RPR=0;RUN=1;SAF=0;SAP=1212.52;SAR=557;SRF=0;SRP=3014.84;SRR=1387;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:132,1:132:4697:1:36:0,-36.4387,-419.293 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/1:107:46,61:46:1656:61:2188:-164.885,0,-117.118 0/0:79:79,0:79:2844:0:0:0,-23.7814,-256.197 0/1:217:87,130:87:3128:130:4640:-352.419,0,-216.419 0/1:47:17,30:17:604:30:1072:-82.5743,0,-40.5422 0/1:141:68,73:68:2432:73:2590:-190.897,0,-176.645 1/1:111:0,111:0:0:111:3933:-354.159,-33.4143,0 0/0:189:189,0:189:6784:0:0:0,-56.8947,-610.629 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:38:25,13:25:896:13:467:-30.8587,0,-69.5212 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 0/1:164:77,87:77:2764:87:3108:-230.565,0,-199.632 0/0:113:113,0:113:4048:0:0:0,-34.0164,-364.507 0/0:82:82,0:82:2940:0:0:0,-24.6845,-264.833 0/0:62:61,1:61:2188:1:36:0,-15.0656,-193.587 0/1:49:21,28:21:747:28:1006:-76.1036,0,-52.8038 0/1:58:41,17:41:1472:17:612:-37.9537,0,-115.316 0/0:143:141,2:141:5064:2:72:0,-36.2106,-449.066 0/0:69:69,0:69:2464:0:0:0,-20.7711,-222.014 chr09 284758 . CTTTCTCTTTTTCA CTTTTTCTTTTTCA,CTCTCTTTTTCA 110029 PASS AB=0.570714,0.301502;ABP=315.646,2371.96;AC=21,15;AF=0.5,0.357143;AN=42;AO=4108,2087;CIGAR=4M1X9M,1M2D11M;DP=7198;DPB=6897.29;DPRA=0,0;EPP=8923.42,4534.87;EPPR=2020.31;GTI=1;LEN=1,2;MEANALT=5.04762,5.2;MQM=59.9783,59.7403;MQMR=60;NS=21;NUMALT=2;ODDS=6.07376;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=147037,73763;QR=32794;RO=929;RPL=0,0;RPP=8923.42,4534.87;RPPR=2020.31;RPR=4108,2087;RUN=1,1;SAF=4108,2087;SAP=8923.42,4534.87;SAR=0,0;SRF=929;SRP=2020.31;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:319:0,247,70:0:0:247,70:8832,2494:-923.243,-203.086,-128.732,-720.231,0,-699.159 1/2:373:0,284,85:0:0:284,85:10189,3002:-1075.37,-244.279,-158.786,-831.101,0,-805.513 0/1:352:119,182,44:119:4223:182,44:6512,1560:-495.201,0,-289.293,-403.932,-216.988,-734.764 1/2:663:0,321,337:0:0:321,337:11490,11854:-1901.61,-964.667,-868.037,-936.954,0,-835.507 0/1:619:170,352,92:170:5984:352,92:12597,3259:-975.795,0,-381.192,-761.773,-221.955,-1221.23 0/1:405:100,214,90:100:3532:214,90:7652,3150:-593.838,0,-223.219,-367.668,-31.3655,-628.211 0/1:606:158,299,139:158:5573:299,139:10704,4914:-825.34,0,-363.783,-472.847,-53.7328,-884.792 0/1:276:157,118,0:157:5553:118,0:4231,0:-297.974,0,-416.909,-345.236,-452.43,-797.521 1/2:531:0,308,220:0:0:308,220:11024,7768:-1531.34,-632.354,-539.637,-898.997,0,-832.771 1/2:40:0,22,18:0:0:22,18:792,644:-117.494,-52.8697,-46.247,-64.983,0,-59.5645 1/2:14:2,4,8:2:72:4,8:144,284:-28.4097,-17.2605,-21.9322,-5.87483,0,-9.34143 1/2:72:15,32,25:15:538:32,25:1152,888:-117.957,-28.4729,-62.7231,-50.1168,0,-86.4725 1/2:587:2,367,213:2:69:367,213:13153,7499:-1676.64,-604.502,-499.629,-1067.13,0,-1008.62 0/1:502:153,276,68:153:5385:276,68:9857,2408:-757.581,0,-355.299,-607.485,-242.229,-1025.4 1/2:359:0,204,147:0:0:204,147:7316,5234:-1023.34,-426.622,-365.212,-596.751,0,-552.5 1/2:296:0,188,102:0:0:188,102:6740,3594:-842.299,-292.586,-235.992,-549.712,0,-519.007 1/2:332:0,258,73:0:0:258,73:9176,2596:-959.346,-211.554,-133.889,-747.788,0,-725.812 1/2:109:19,49,40:19:661:49,40:1760,1381:-196.307,-58.445,-97.4412,-89.8387,0,-131.54 1/2:233:34,120,76:34:1204:120,76:4280,2695:-460.141,-121.478,-183.432,-250.822,0,-326.021 1/2:402:0,210,187:0:0:210,187:7528,6658:-1156.61,-542.623,-479.406,-613.984,0,-557.691 1/2:108:0,53,53:0:0:53,53:1908,1881:-308.972,-153.285,-137.331,-155.722,0,-139.767 chr09 284791 . GTTTT GTTTA,CTTTA 143123 PASS AB=0.678878,0.31597;ABP=1945.15,2058.63;AC=22,20;AF=0.52381,0.47619;AN=42;AO=5019,2208;CIGAR=4M1X,1X3M1X;DP=7266;DPB=7266.4;DPRA=0,1.25683;EPP=10892.9,4797.62;EPPR=7.35324;GTI=3;LEN=1,5;MEANALT=3.61905,3.6;MQM=59.9795,59.7043;MQMR=60;NS=21;NUMALT=2;ODDS=3.49035;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,72;PQR=0;PRO=0;QA=179532,76820;QR=63;RO=2;RPL=5018,2208;RPP=10892.9,4797.62;RPPR=7.35324;RPR=1,0;RUN=1,1;SAF=5019,2208;SAP=10901.6,4797.62;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:318:0,241,74:0:0:241,74:8621,2577:-912.398,-209.415,-136.866,-703.037,0,-680.761 1/2:384:0,290,92:0:0:290,92:10323,3201:-1101.5,-260.15,-172.851,-841.39,0,-813.695 1/2:356:0,308,46:0:0:308,46:10995,1606:-1027.02,-130.651,-37.9342,-896.395,0,-882.547 1/2:685:1,312,366:1:27:312,366:11172,12771:-1946.94,-1036.16,-944.364,-909.03,0,-800.982 1/2:620:0,513,104:0:0:513,104:18377,3549:-1785.66,-287.697,-133.269,-1498.01,0,-1466.71 1/2:397:0,305,90:0:0:305,90:10872,3140:-1141.64,-255.427,-163.613,-886.259,0,-859.167 1/2:610:0,467,143:0:0:467,143:16750,4984:-1771.81,-405.595,-265.014,-1366.56,0,-1323.52 1/1:278:0,275,0:0:0:275,0:9810,0:-882.551,-82.7833,0,-882.551,-82.7833,-882.551 1/2:543:0,307,233:0:0:307,233:11020,8057:-1553.66,-654.741,-562.325,-898.986,0,-828.846 1/2:41:0,21,19:0:0:21,19:756,665:-115.796,-54.1048,-47.7832,-61.6955,0,-55.9759 1/2:15:0,6,9:0:0:6,9:216,305:-42.7021,-25.0692,-23.263,-17.9843,0,-15.2751 1/2:73:0,47,26:0:0:47,26:1684,905:-211.283,-73.9361,-59.7877,-137.699,0,-129.872 1/2:582:0,359,221:0:0:359,221:12808,7671:-1667.14,-623.024,-514.955,-1044.16,0,-977.635 1/2:504:1,429,74:1:36:429,74:15332,2562:-1455.03,-205.234,-79.0298,-1247.15,0,-1227.81 1/2:365:0,205,157:0:0:205,157:7343,5534:-1049.43,-450.578,-388.867,-598.864,0,-551.602 1/2:296:0,186,109:0:0:186,109:6672,3816:-854.768,-310.556,-254.565,-544.313,0,-511.501 1/2:335:0,260,74:0:0:260,74:9307,2598:-970.499,-211.522,-133.255,-759.058,0,-736.781 1/2:107:0,65,40:0:0:65,40:2320,1394:-302.587,-113.443,-93.8758,-189.226,0,-177.185 1/2:233:0,155,77:0:0:155,77:5558,2653:-668.828,-215.494,-168.834,-453.343,0,-430.164 1/2:412:0,213,197:0:0:213,197:7624,6862:-1179.75,-558.026,-493.907,-621.747,0,-562.444 1/2:112:0,55,57:0:0:55,57:1972,1970:-321.21,-160.372,-143.816,-161.19,0,-144.031 chr09 284825 . A G 20502.3 PASS AB=0.308994;ABP=1669.53;AC=20;AF=0.47619;AN=42;AO=1626;CIGAR=1X;DP=5579;DPB=5579;DPRA=0;EPP=3533.82;EPPR=8554.29;GTI=5;LEN=1;MEANALT=1.14286;MQM=59.845;MQMR=59.9734;NS=21;NUMALT=1;ODDS=7.73246;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57397;QR=141400;RO=3950;RPL=0;RPP=3533.82;RPPR=8554.29;RPR=1626;RUN=1;SAF=0;SAP=3533.82;SAR=1626;SRF=0;SRP=8580.33;SRR=3950;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:265:144,121:144:5142:121:4268:-304.527,0,-383.131 0/1:111:93,18:93:3336:18:631:-23.7014,0,-267.043 0/1:334:281,53:281:10072:53:1887:-69.5632,0,-805.837 0/1:226:134,92:134:4782:92:3227:-222.619,0,-362.499 0/1:526:469,56:469:16761:56:1985:-20.008,0,-1349.77 0/1:268:222,46:222:7952:46:1648:-67.8463,0,-635.027 0/1:447:362,85:362:12987:85:2988:-134.4,0,-1034.06 0/0:320:319,1:319:11421:1:36:0,-92.7313,-1024.01 0/1:535:292,243:292:10449:243:8615:-614.187,0,-779.273 0/1:24:16,8:16:576:8:284:-18.6786,0,-44.9503 0/1:9:7,2:7:248:2:72:-4.12745,0,-19.9549 0/1:64:48,16:48:1728:16:568:-32.1859,0,-136.539 0/1:296:150,145:150:5341:145:5109:-370.688,0,-391.658 0/1:301:252,49:252:8994:49:1752:-67.3541,0,-718.826 0/1:430:290,139:290:10416:139:4896:-311.422,0,-807.982 0/1:342:221,121:221:7924:121:4299:-284.135,0,-610.227 0/1:205:143,62:143:5097:62:2180:-134.743,0,-397.151 0/1:207:159,48:159:5712:48:1697:-90.6893,0,-451.882 0/1:167:113,54:113:4048:54:1884:-119.546,0,-314.235 0/1:393:180,213:180:6442:213:7545:-560.787,0,-461.556 0/1:109:55,54:55:1972:54:1826:-131.798,0,-144.942 chr09 284828 . TTCT ATCA,TTCA 84213.6 PASS AB=0.557065,0.306512;ABP=163.356,1740.77;AC=21,14;AF=0.5,0.333333;AN=42;AO=3158,1638;CIGAR=1X2M1X,3M1X;DP=5669;DPB=5669.25;DPRA=0,0;EPP=6817.16,3533.87;EPPR=1868.32;GTI=2;LEN=4,1;MEANALT=2.38095,2.45;MQM=59.9772,59.8504;MQMR=59.9884;NS=21;NUMALT=2;ODDS=0.604623;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=111158,58672;QR=30464;RO=863;RPL=5,3;RPP=6817.16,3533.87;RPPR=1868.32;RPR=3153,1635;RUN=1,1;SAF=0,0;SAP=6860.52,3559.88;SAR=3158,1638;SRF=0;SRP=1876.99;SRR=863;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:268:0,145,123:0:0:145,123:5084,4401:-771.923,-358.215,-314.566,-414.062,0,-377.035 1/2:113:0,94,19:0:0:94,19:3339,680:-327.885,-55.8096,-27.5128,-272.433,0,-266.713 0/1:338:102,183,52:102:3585:183,52:6424,1872:-492.106,0,-236.711,-370.064,-139.051,-646.215 1/2:229:0,136,93:0:0:136,93:4802,3335:-663.414,-272.371,-231.43,-391.399,0,-363.403 0/1:535:207,267,60:207:7302:267,60:9390,2150:-702.022,0,-514.199,-589.58,-419.82,-1166.1 0/1:269:57,167,45:57:2019:167,45:5877,1616:-461.26,0,-114.196,-346.678,-32.7272,-497.603 0/1:456:133,237,86:133:4696:237,86:8356,3065:-640.322,0,-311.067,-430.894,-132.947,-787.42 0/1:325:175,150,0:175:6160:150,0:5252,0:-374.971,0,-456.675,-427.651,-501.829,-929.129 1/2:541:0,295,245:0:0:295,245:10430,8775:-1565.02,-715.549,-626.745,-849.505,0,-775.753 1/2:24:0,16,8:0:0:16,8:558,288:-69.233,-23.8592,-19.0427,-45.7299,0,-43.3217 1/2:9:0,7,2:0:0:7,2:252,72:-26.7966,-6.23466,-4.12745,-20.9217,0,-20.3197 0/1:65:21,29,15:21:742:29,15:1016,540:-76.3421,0,-51.6941,-38.5992,-16.3599,-94.5129 1/2:295:0,153,141:0:0:153,141:5342,5055:-846.782,-412.271,-366.213,-434.505,0,-392.06 0/1:311:84,174,53:84:2988:174,53:6118,1892:-472.705,0,-191.131,-343.761,-89.2804,-571.319 1/2:440:1,299,140:1:29:299,140:10558,5013:-1266.05,-406.57,-318.87,-857.539,0,-817.704 1/2:347:0,226,121:0:0:226,121:7998,4334:-1005.27,-353.811,-285.778,-651.815,0,-615.391 1/2:215:0,148,66:0:0:148,66:5133,2352:-608.875,-191.664,-147.112,-417.204,0,-397.336 1/2:206:45,115,46:45:1605:115,46:4057,1656:-321.057,-4.25873,-100.476,-199.509,0,-316.5 1/2:170:33,81,55:33:1164:81,55:2866,1972:-289.526,-66.0211,-136.415,-138.663,0,-216.885 1/2:398:5,178,211:5:174:178,211:6259,7560:-1110.4,-602.429,-562.993,-495.338,0,-445.969 1/2:115:0,58,57:0:0:58,57:2047,2044:-333.759,-167.073,-149.613,-167.041,0,-149.883 chr09 284839 . GCT GT 19278.7 PASS AB=0.298924;ABP=1863.93;AC=20;AF=0.47619;AN=42;AO=1584;CIGAR=1M1D1M;DP=5624;DPB=5096;DPRA=0.815231;EPP=3425.27;EPPR=8566.26;GTI=6;LEN=1;MEANALT=1.25;MQM=59.8523;MQMR=59.9831;NS=21;NUMALT=1;ODDS=3.20893;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55600;QR=142631;RO=4035;RPL=1582;RPP=3425.27;RPPR=8566.26;RPR=2;RUN=1;SAF=0;SAP=3442.62;SAR=1584;SRF=0;SRP=8764.9;SRR=4035;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:258:145,113:145:5095:113:3974:-280.186,0,-381.032 0/1:114:94,19:94:3331:19:661:-25.436,0,-265.634 0/1:337:286,51:286:10096:51:1771:-58.22,0,-807.117 0/1:228:137,91:137:4881:91:3239:-223.098,0,-370.806 0/1:540:480,59:480:16884:59:2058:-22.7228,0,-1356.77 0/1:270:226,44:226:7963:44:1534:-56.9835,0,-635.422 0/1:458:373,84:373:13163:84:2958:-128.152,0,-1046.56 0/0:325:325,0:325:11460:0:0:0,-97.8347,-1031.29 0/1:532:294,238:294:10399:238:8375:-593.413,0,-775.692 0/1:22:16,6:16:568:6:197:-11.4287,0,-44.8286 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:65:49,16:49:1732:16:564:-31.5234,0,-136.597 0/1:290:153,137:153:5427:137:4784:-343.388,0,-401.265 0/1:309:259,50:259:9142:50:1688:-59.1594,0,-729.745 0/1:435:301,134:301:10721:134:4735:-295.361,0,-833.857 0/1:344:227,117:227:8054:117:4117:-267.16,0,-621.329 0/1:214:147,66:147:5167:66:2318:-144.356,0,-400.829 0/1:205:160,45:160:5676:45:1570:-79.8754,0,-449.251 0/1:165:115,50:115:4102:50:1784:-111.128,0,-319.696 0/1:391:183,208:183:6446:208:7296:-538.989,0,-462.532 0/1:113:58,54:58:2072:54:1905:-137.798,0,-152.822 chr09 333194 . ACA AA 6801.6 PASS AB=0.509231;ABP=3.49136;AC=11;AF=0.261905;AN=42;AO=389;CIGAR=1M1D1M;DP=1558;DPB=1427.67;DPRA=0.852881;EPP=839.05;EPPR=2504.61;GTI=0;LEN=1;MEANALT=1.41667;MQM=59.9563;MQMR=59.9725;NS=21;NUMALT=1;ODDS=9.05082;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13850;QR=40959;RO=1164;RPL=388;RPP=839.05;RPPR=2504.61;RPR=1;RUN=1;SAF=389;SAP=847.713;SAR=0;SRF=1164;SRP=2530.6;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:101:101,0:101:3530:0:0:0,-30.404,-317.912 0/0:58:57,1:57:2016:1:36:0,-13.8615,-178.114 0/1:106:35,71:35:1237:71:2548:-197.639,0,-79.7243 0/0:66:66,0:66:2331:0:0:0,-19.868,-210.05 0/1:120:51,68:51:1787:68:2422:-182.052,0,-124.924 0/1:76:40,36:40:1385:36:1273:-91.9926,0,-102.064 0/1:123:70,52:70:2447:52:1853:-130.067,0,-183.509 1/1:55:0,55:0:0:55:1952:-175.953,-16.5567,0 0/0:167:167,0:167:5907:0:0:0,-50.272,-531.747 0/0:15:15,0:15:504:0:0:0,-4.51545,-45.6779 0/1:7:4,3:4:142:3:108:-7.96796,0,-11.022 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 0/0:85:85,0:85:3002:0:0:0,-25.5875,-270.412 0/1:90:44,45:44:1523:45:1593:-116.524,0,-110.223 0/0:130:130,0:130:4597:0:0:0,-39.1339,-413.891 0/0:63:63,0:63:2217:0:0:0,-18.9649,-199.792 0/0:66:64,2:64:2250:2:72:0,-13.0313,-195.926 0/1:79:43,34:43:1522:34:1201:-84.8737,0,-113.752 0/1:29:16,13:16:558:13:468:-33.7298,0,-41.8175 0/0:72:72,0:72:2539:0:0:0,-21.6742,-228.761 0/0:30:30,0:30:1069:0:0:0,-9.0309,-96.5224 chr09 342137 . G A 12480.1 PASS AB=0.516071;ABP=5.523;AC=11;AF=0.261905;AN=42;AO=701;CIGAR=1X;DP=2795;DPB=2795;DPRA=1.0509;EPP=1525.21;EPPR=4547.9;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.5949;MQMR=59.8772;NS=21;NUMALT=1;ODDS=7.69167;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24981;QR=74473;RO=2093;RPL=0;RPP=1525.21;RPPR=4547.9;RPR=701;RUN=1;SAF=0;SAP=1525.21;SAR=701;SRF=0;SRP=4547.9;SRR=2093;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:127:123,4:123:4384:4:144:0,-24.9172,-381.419 0/0:145:145,0:145:5159:0:0:0,-43.6493,-464.379 0/1:213:100,113:100:3546:113:4047:-300.264,0,-255.228 0/0:183:183,0:183:6492:0:0:0,-55.0885,-584.14 0/1:210:98,112:98:3478:112:3991:-296.162,0,-249.998 0/1:101:39,62:39:1396:62:2214:-169.076,0,-95.5351 0/1:241:111,130:111:3938:130:4630:-344.201,0,-282.064 1/1:118:0,118:0:0:118:4240:-381.666,-35.5215,0 0/0:266:264,1:264:9400:1:27:0,-77.3911,-842.648 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0356 0/1:46:24,22:24:860:22:780:-56.357,0,-63.8745 0/0:185:185,0:185:6564:0:0:0,-55.6905,-590.811 0/1:179:95,84:95:3388:84:2962:-212.891,0,-251.249 0/0:196:196,0:196:7020:0:0:0,-59.0019,-631.853 0/0:149:149,0:149:5302:0:0:0,-44.8535,-477.309 0/0:103:103,0:103:3674:0:0:0,-31.0061,-330.821 0/1:52:30,22:30:1043:22:773:-54.2253,0,-78.5225 0/1:69:39,30:39:1400:30:1065:-75.3749,0,-105.528 0/0:121:121,0:121:4300:0:0:0,-36.4246,-387.178 0/0:63:63,0:63:2229:0:0:0,-18.9649,-200.833 chr09 360137 . C T 6594.95 PASS AB=0.585551;ABP=36.4493;AC=11;AF=0.261905;AN=42;AO=371;CIGAR=1X;DP=1159;DPB=1159;DPRA=1.32955;EPP=808.627;EPPR=1711.96;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.8895;MQMR=60;NS=21;NUMALT=1;ODDS=2.98221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13136;QR=28219;RO=787;RPL=371;RPP=808.627;RPPR=1711.96;RPR=0;RUN=1;SAF=0;SAP=808.627;SAR=371;SRF=0;SRP=1711.96;SRR=787;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:77,3:77:2768:3:93:0,-15.4057,-240.684 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/1:36:11,25:11:396:25:892:-69.7622,0,-25.1457 0/0:37:37,0:37:1313:0:0:0,-11.1381,-118.47 0/1:149:56,93:56:2012:93:3298:-252.183,0,-136.5 0/1:68:31,37:31:1107:37:1324:-98.9921,0,-79.4701 0/1:123:40,82:40:1432:82:2902:-224.321,0,-92.0922 1/1:59:0,59:0:0:59:2084:-187.815,-17.7608,0 0/0:103:103,0:103:3683:0:0:0,-31.0061,-331.673 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:12:7,5:7:248:5:172:-12.2056,0,-19.0518 0/0:69:69,0:69:2464:0:0:0,-20.7711,-222.014 0/1:39:14,25:14:500:25:863:-66.2322,0,-33.596 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 0/1:55:29,26:29:1044:26:932:-67.6422,0,-77.7182 0/1:40:26,14:26:936:14:504:-33.6569,0,-72.5183 0/0:76:75,1:75:2692:1:36:0,-19.28,-238.926 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 chr09 410870 . C T 9037.98 PASS AB=0.558611;ABP=23.6283;AC=11;AF=0.261905;AN=42;AO=392;CIGAR=1X;DP=1319;DPB=1319;DPRA=0.956298;EPP=5.22609;EPPR=26.9059;GTI=0;LEN=1;MEANALT=1;MQM=59.7959;MQMR=59.9871;NS=21;NUMALT=1;ODDS=6.09465;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13943;QR=32673;RO=927;RPL=386;RPP=802.91;RPPR=1871.01;RPR=6;RUN=1;SAF=200;SAP=3.36483;SAR=192;SRF=396;SRP=45.7019;SRR=531;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2503:1:36:0,-18.0759,-221.923 0/0:55:55,0:55:1963:0:0:0,-16.5566,-176.945 0/1:46:13,33:13:460:33:1169:-91.6679,0,-27.888 0/0:43:43,0:43:1518:0:0:0,-12.9443,-136.912 0/0:87:85,2:85:3005:2:72:0,-19.3529,-263.843 0/1:57:22,35:22:780:35:1237:-94.4615,0,-53.3643 0/1:102:48,54:48:1685:54:1899:-140.417,0,-121.227 0/1:78:33,45:33:1167:45:1586:-119.547,0,-81.8561 0/1:88:33,55:33:1115:55:1968:-150.904,0,-74.1542 0/1:8:5,3:5:176:3:104:-7.29457,0,-13.7768 0/1:7:1,6:1:36:6:212:-17.2988,0,-1.49106 0/1:22:6,16:6:216:16:568:-44.8292,0,-13.1679 0/0:69:69,0:69:2453:0:0:0,-20.7711,-221.023 0/0:63:63,0:63:2247:0:0:0,-18.9649,-202.493 0/0:66:66,0:66:2311:0:0:0,-19.868,-208.246 0/0:35:34,1:34:1181:1:36:0,-6.93777,-102.991 0/1:43:15,28:15:540:28:1008:-78.0921,0,-35.9922 0/1:111:53,58:53:1888:58:2076:-153.696,0,-136.784 0/1:129:76,53:76:2653:53:1900:-132.445,0,-200.182 0/0:45:43,2:43:1496:2:72:0,-6.70963,-128.085 0/0:93:93,0:93:3280:0:0:0,-27.9958,-295.421 chr09 431689 . 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T C 12021.9 PASS AB=0.370147;ABP=221.82;AC=11;AF=0.261905;AN=42;AO=735;CIGAR=1X;DP=3838;DPB=3838;DPRA=0.8608;EPP=1599.04;EPPR=6715.06;GTI=1;LEN=1;MEANALT=1;MQM=59.1946;MQMR=35.8669;NS=21;NUMALT=1;ODDS=7.63836;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26252;QR=111248;RO=3103;RPL=0;RPP=1599.04;RPPR=6715.06;RPR=735;RUN=1;SAF=735;SAP=1599.04;SAR=0;SRF=3103;SRP=6741.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:130:129,1:129:4615:1:36:0,-35.5356,-377.383 0/0:214:214,0:214:7666:0:0:0,-64.4204,-589.736 0/1:159:98,61:98:3516:61:2184:-148.865,0,-244.064 0/0:337:337,0:337:12067:0:0:0,-101.447,-995.931 0/1:381:291,90:291:10456:90:3224:-175.468,0,-748.247 0/1:183:106,77:106:3804:77:2733:-190.854,0,-236.984 0/1:266:145,121:145:5193:121:4352:-311.587,0,-319.66 1/1:179:0,179:0:0:179:6376:-573.112,-53.8844,0 0/0:425:425,0:425:15241:0:0:0,-127.938,-1286.02 0/0:29:29,0:29:1040:0:0:0,-8.72987,-84.5381 0/1:14:8,6:8:284:6:212:-15.2104,0,-17.4799 0/1:94:63,31:63:2264:31:1116:-72.4549,0,-151.214 0/0:270:270,0:270:9688:0:0:0,-81.2781,-800.181 0/1:200:108,92:108:3867:92:3284:-235.321,0,-260.451 0/0:248:246,2:246:8802:2:72:0,-67.8187,-720.408 0/0:120:120,0:120:4299:0:0:0,-36.1236,-363.154 0/0:150:150,0:150:5392:0:0:0,-45.1545,-457.874 0/1:95:50,45:50:1796:45:1598:-115.471,0,-116.089 0/1:102:72,30:72:2592:30:1065:-65.4091,0,-184.916 0/0:174:174,0:174:6231:0:0:0,-52.3792,-496.399 0/0:68:68,0:68:2435:0:0:0,-20.47,-186.609 chr09 486208 . 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T G 8562.68 PASS AB=0.529494;ABP=8.39018;AC=13;AF=0.309524;AN=42;AO=475;CIGAR=1X;DP=1428;DPB=1428;DPRA=0.98301;EPP=1034.46;EPPR=2046.45;GTI=0;LEN=1;MEANALT=1;MQM=59.9579;MQMR=59.9601;NS=21;NUMALT=1;ODDS=4.82835;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16886;QR=33879;RO=953;RPL=475;RPP=1034.46;RPPR=2046.45;RPR=0;RUN=1;SAF=0;SAP=1034.46;SAR=475;SRF=0;SRP=2072.42;SRR=953;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:30,35:30:1072:35:1256:-93.7783,0,-77.2255 0/1:36:15,21:15:532:21:743:-56.3563,0,-37.376 0/1:65:23,42:23:804:42:1492:-115.008,0,-53.1124 0/0:143:143,0:143:5108:0:0:0,-43.0473,-458.59 0/1:154:45,109:45:1604:109:3852:-300.519,0,-98.2915 0/1:46:26,20:26:928:20:720:-51.2814,0,-69.9909 0/1:116:62,54:62:2201:54:1915:-137.707,0,-163.434 1/1:98:0,98:0:0:98:3495:-314.753,-29.5009,0 0/0:112:112,0:112:3965:0:0:0,-33.7154,-357.044 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/1:31:12,19:12:432:19:684:-52.5584,0,-29.8893 0/0:74:74,0:74:2628:0:0:0,-22.2762,-236.768 0/1:87:46,41:46:1644:41:1459:-105.416,0,-122.059 0/0:81:81,0:81:2880:0:0:0,-24.3834,-259.438 0/0:43:43,0:43:1524:0:0:0,-12.9443,-137.453 0/0:67:67,0:67:2362:0:0:0,-20.169,-212.836 0/1:46:34,12:34:1224:12:423:-24.5577,0,-96.6197 0/1:55:39,16:39:1404:16:559:-34.081,0,-110.103 0/0:61:61,0:61:2143:0:0:0,-18.3628,-193.138 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 chr09 870328 . 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GTG CTT,GTT 25185.1 PASS AB=0.352291,0.647709;ABP=122.97,122.97;AC=30,12;AF=0.714286,0.285714;AN=42;AO=736,500;CIGAR=1X1M1X,2M1X;DP=1236;DPB=1255.67;DPRA=0.644382,1.1934;EPP=1601.21,1088.75;EPPR=0;GTI=2;LEN=3,1;MEANALT=1.55,1.91667;MQM=56.6889,55.63;MQMR=0;NS=21;NUMALT=2;ODDS=1.52688;PAIRED=0,0;PAIREDR=0;PAO=33.5,25.5;PQA=972.5,696.5;PQR=0;PRO=0;QA=25369,17664;QR=0;RO=0;RPL=736,500;RPP=1601.21,1088.75;RPPR=0;RPR=0,0;RUN=1,1;SAF=736,500;SAP=1601.21,1088.75;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:74:0,29,45:0:0:29,45:991,1592:-209.692,-129.357,-120.627,-80.2201,0,-66.6738 1/2:52:0,21,31:0:0:21,31:724,1103:-148.942,-90.1725,-83.8509,-59.118,0,-49.7861 1/2:114:0,36,78:0:0:36,78:1250,2767:-324.849,-223.236,-212.399,-101.787,0,-78.3066 1/1:52:0,52,0:0:0:52,0:1778,0:-159.984,-15.6536,0,-159.984,-15.6536,-159.984 1/2:80:0,29,51:0:0:29,51:997,1800:-227.448,-146.538,-137.808,-81.1412,0,-65.7887 1/2:74:0,19,55:0:0:19,55:660,1942:-211.81,-158.156,-152.437,-54.002,0,-37.4453 1/2:78:0,23,55:0:0:23,55:801,1972:-225.309,-160.176,-153.252,-65.1278,0,-48.5711 2/2:89:0,0,89:0:0:0,89:0,3082:-277.186,-277.186,-277.186,-26.7917,-26.7917,0 1/1:200:0,200,0:0:0:200,0:6895,0:-612.887,-60.206,0,-612.887,-60.206,-612.887 1/1:10:0,10,0:0:0:10,0:348,0:-31.6546,-3.0103,0,-31.6546,-3.0103,-31.6546 1/1:4:0,4,0:0:0:4,0:137,0:-12.6674,-1.20412,0,-12.6674,-1.20412,-12.6674 1/2:27:0,5,22:0:0:5,22:166,788:-77.913,-64.511,-63.0059,-13.7381,0,-7.11547 1/1:71:0,71,0:0:0:71,0:2470,0:-221.908,-21.3731,0,-221.908,-21.3731,-221.908 1/2:58:0,27,31:0:0:27,31:921,1086:-162.739,-88.0406,-79.9128,-74.9852,0,-65.6533 1/1:40:0,40,0:0:0:40,0:1357,0:-122.134,-12.0412,0,-122.134,-12.0412,-122.134 1/1:37:0,36,1:0:0:36,1:1247,36:-110.934,-10.8371,0,-107.996,-7.53984,-107.695 1/1:44:0,44,0:0:0:44,0:1517,0:-135.903,-13.2453,0,-135.903,-13.2453,-135.903 1/2:25:0,11,14:0:0:11,14:365,492:-69.9133,-40.3979,-37.0866,-29.8557,0,-25.6413 1/2:51:0,23,28:0:0:23,28:791,1004:-146.35,-82.1286,-75.205,-64.4587,0,-56.0299 1/1:34:0,34,0:0:0:34,0:1183,0:-106.396,-10.235,0,-106.396,-10.235,-106.396 1/1:22:0,22,0:0:0:22,0:771,0:-69.3525,-6.62266,0,-69.3525,-6.62266,-69.3525 chr09 932667 . C A 6268.93 PASS AB=0.526596;ABP=5.32038;AC=13;AF=0.309524;AN=42;AO=248;CIGAR=1X;DP=707;DPB=707;DPRA=1.13701;EPP=105.14;EPPR=74.5837;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9782;NS=21;NUMALT=1;ODDS=3.55823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8879;QR=16358;RO=459;RPL=44;RPP=227.162;RPPR=376.565;RPR=204;RUN=1;SAF=114;SAP=6.51267;SAR=134;SRF=255;SRP=15.3153;SRR=204;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:19,33:19:676:33:1175:-90.4034,0,-45.5144 0/1:33:13,20:13:464:20:716:-54.8337,0,-32.1635 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/1:36:14,22:14:504:22:788:-60.4077,0,-34.861 0/1:21:9,12:9:312:12:432:-32.8996,0,-22.0881 0/1:47:26,21:26:921:21:756:-54.2188,0,-69.0568 1/1:50:0,50:0:0:50:1792:-161.562,-15.0515,0 0/0:31:31,0:31:1084:0:0:0,-9.33193,-97.8661 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:18:6,12:6:216:12:424:-33.0779,0,-14.372 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 0/1:28:15,13:15:540:13:464:-33.6687,0,-40.5077 0/0:59:59,0:59:2086:0:0:0,-17.7608,-188.009 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:54:27,27:27:968:27:964:-70.8212,0,-71.1817 0/1:69:43,26:43:1527:26:936:-63.7884,0,-116.951 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 chr09 1031510 . C G 5128.58 PASS AB=0.519187;ABP=4.4269;AC=13;AF=0.309524;AN=42;AO=287;CIGAR=1X;DP=905;DPB=905;DPRA=0.925926;EPP=626.223;EPPR=1340.64;GTI=0;LEN=1;MEANALT=1;MQM=59.993;MQMR=59.9416;NS=21;NUMALT=1;ODDS=7.62802;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10272;QR=22026;RO=616;RPL=0;RPP=626.223;RPPR=1340.64;RPR=287;RUN=1;SAF=287;SAP=626.223;SAR=0;SRF=616;SRP=1340.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:21,9:21:740:9:324:-20.475,0,-57.8216 0/1:7:4,3:4:144:3:104:-7.5956,0,-11.2064 0/1:73:35,38:35:1251:38:1364:-101.086,0,-90.9191 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.63 0/1:64:24,40:24:856:40:1436:-110.272,0,-58.0952 0/1:29:12,17:12:432:17:608:-46.3212,0,-30.4913 0/1:38:12,26:12:428:26:936:-73.1203,0,-27.4197 1/1:57:0,57:0:0:57:2040:-183.872,-17.1587,0 0/0:101:101,0:101:3604:0:0:0,-30.404,-324.567 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/0:86:86,0:86:3076:0:0:0,-25.8886,-277.069 0/1:61:26,35:26:932:35:1253:-94.7119,0,-65.836 0/0:50:49,0:49:1752:0:0:0,-14.7505,-157.604 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:69:33,36:33:1179:36:1279:-94.6414,0,-85.6462 0/1:62:41,21:41:1472:21:748:-48.9814,0,-114.11 0/0:76:75,0:75:2676:0:0:0,-22.5772,-240.726 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 chr09 1031522 . A G 12515.9 PASS AB=0.471783;ABP=6.07389;AC=29;AF=0.690476;AN=42;AO=607;CIGAR=1X;DP=898;DPB=898;DPRA=0.737719;EPP=1303.78;EPPR=634.909;GTI=0;LEN=1;MEANALT=1;MQM=59.9522;MQMR=59.9931;NS=21;NUMALT=1;ODDS=7.01576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21550;QR=10410;RO=291;RPL=2;RPP=1303.78;RPPR=634.909;RPR=605;RUN=1;SAF=607;SAP=1321.09;SAR=0;SRF=291;SRP=634.909;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:10,21:10:360:21:752:-58.6035,0,-23.4124 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:73:39,34:39:1396:34:1193:-85.6966,0,-103.964 1/1:52:0,52:0:0:52:1835:-165.419,-15.6536,0 0/1:64:40,24:40:1436:24:852:-57.7345,0,-110.272 0/1:30:18,12:18:644:12:432:-30.1903,0,-49.2588 0/1:39:27,12:27:968:12:432:-27.481,0,-75.6972 0/0:57:57,0:57:2037:0:0:0,-17.1587,-183.6 1/1:97:0,97:0:0:97:3453:-310.982,-29.1999,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:4:2,2:2:68:2:72:-5.6326,0,-5.25359 0/1:6:3,3:3:93:3:108:-8.26899,0,-6.87055 1/1:87:0,87:0:0:87:3104:-279.588,-26.1896,0 0/1:59:35,24:35:1256:24:864:-60.3218,0,-95.5845 1/1:50:0,50:0:0:50:1762:-158.859,-15.0515,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:69:36,33:36:1292:33:1165:-84.3839,0,-95.8127 0/1:61:21,40:21:752:40:1421:-109.823,0,-49.6434 1/1:75:0,75:0:0:75:2638:-237.663,-22.5773,0 1/1:18:0,18:0:0:18:639:-57.8382,-5.41854,0 chr09 1047838 . T C 22706.9 PASS AB=0.45293;ABP=32.243;AC=13;AF=0.309524;AN=42;AO=960;CIGAR=1X;DP=3204;DPB=3204;DPRA=0.929461;EPP=3.15506;EPPR=7.35615;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9991;NS=21;NUMALT=1;ODDS=0.867441;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33912;QR=79448;RO=2243;RPL=960;RPP=2087.62;RPPR=4856.27;RPR=0;RUN=1;SAF=476;SAP=3.15506;SAR=484;SRF=1153;SRP=6.85273;SRR=1090;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:183:94,89:94:3328:89:3119:-225.85,0,-244.65 0/1:156:78,78:78:2773:78:2737:-199.611,0,-202.85 0/1:80:50,30:50:1759:30:1041:-69.9131,0,-134.508 0/0:154:154,0:154:5437:0:0:0,-46.3586,-489.464 0/1:252:126,126:126:4471:126:4485:-327.959,0,-326.701 0/1:118:63,55:63:2264:55:1960:-141.154,0,-168.501 0/1:249:130,118:130:4628:118:4188:-302.09,0,-341.671 1/1:268:0,268:0:0:268:9478:-852.992,-80.676,0 0/0:244:243,1:243:8593:1:36:0,-69.853,-769.775 0/0:23:22,1:22:749:1:32:0,-3.72438,-64.5221 0/1:6:5,1:5:176:1:36:-1.79209,0,-14.3788 0/1:24:9,15:9:324:15:540:-41.7118,0,-22.2811 0/0:183:183,0:183:6463:0:0:0,-55.0885,-581.757 0/1:133:79,54:79:2787:54:1893:-130.609,0,-211.03 0/0:294:294,0:294:10448:0:0:0,-88.5028,-940.245 0/0:106:106,0:106:3760:0:0:0,-31.9092,-338.6 0/0:97:97,0:97:3434:0:0:0,-29.1999,-309.273 0/1:168:94,74:94:3302:74:2619:-185.386,0,-246.827 0/1:150:102,48:102:3609:48:1676:-105.969,0,-279.863 0/0:186:184,2:184:6519:2:72:0,-49.1549,-579.96 0/0:130:130,0:130:4624:0:0:0,-39.1339,-416.327 chr09 1058491 . T C 12445.3 PASS AB=0.508;ABP=3.28825;AC=29;AF=0.690476;AN=42;AO=620;CIGAR=1X;DP=900;DPB=900;DPRA=1.31364;EPP=1349.32;EPPR=611.023;GTI=1;LEN=1;MEANALT=1;MQM=46.6306;MQMR=25.2321;NS=21;NUMALT=1;ODDS=5.40507;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22184;QR=9898;RO=280;RPL=0;RPP=1349.32;RPPR=611.023;RPR=620;RUN=1;SAF=0;SAP=1349.32;SAR=620;SRF=0;SRP=611.023;SRR=280;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:20,25:20:701:25:888:-66.043,0,-30.6004 0/1:51:36,15:36:1258:15:540:-33.1621,0,-64.9005 0/1:47:23,24:23:824:24:864:-62.8507,0,-37.1219 1/1:21:0,21:0:0:21:744:-66.7476,-6.32163,0 0/1:69:27,42:27:964:42:1504:-112.579,0,-40.5485 0/1:55:39,16:39:1381:16:576:-34.9418,0,-69.7343 0/1:82:44,38:44:1554:38:1360:-95.6667,0,-72.2335 0/0:33:33,0:33:1173:0:0:0,-9.93399,-72.7085 1/1:111:0,111:0:0:111:3973:-353.911,-33.4143,0 1/1:8:0,8:0:0:8:288:-26.0377,-2.40824,0 0/1:5:3,2:3:108:2:68:-4.91048,0,-5.40219 0/1:14:10,4:10:345:4:144:-8.98279,0,-18.8385 1/1:34:0,34:0:0:34:1209:-107.962,-10.235,0 0/1:59:26,33:26:921:33:1184:-87.3794,0,-39.8322 1/1:54:0,54:0:0:54:1940:-172.296,-16.2556,0 1/1:27:0,27:0:0:27:968:-86.286,-8.12781,0 1/1:29:1,28:1:36:28:1008:-87.6287,-6.26296,0 0/1:47:14,33:14:489:33:1169:-89.7016,0,-17.6025 0/1:26:4,22:4:144:22:792:-63.1812,0,-1.30077 1/1:42:0,42:0:0:42:1512:-134.29,-12.6433,0 1/1:41:0,41:0:0:41:1453:-128.671,-12.3422,0 chr09 1058503 . CAAC CAT 2134.33 PASS AB=0.497099;ABP=3.0481;AC=13;AF=0.309524;AN=42;AO=293;CIGAR=1M1D1M1X;DP=924;DPB=850.75;DPRA=1.05211;EPP=639.252;EPPR=1345.1;GTI=1;LEN=3;MEANALT=1;MQM=25.256;MQMR=46.6286;NS=21;NUMALT=1;ODDS=4.88018;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10398;QR=22182;RO=630;RPL=293;RPP=639.252;RPPR=1345.1;RPR=0;RUN=1;SAF=0;SAP=639.252;SAR=293;SRF=0;SRP=1371.04;SRR=630;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:26,20:26:909:20:705:-30.5287,0,-67.641 0/1:52:15,37:15:539:37:1330:-68.1115,0,-32.7764 0/1:49:26,23:26:918:23:826:-36.5447,0,-67.0984 0/0:21:21,0:21:749:0:0:0,-6.32163,-67.1825 0/1:70:43,27:43:1493:27:948:-39.265,0,-112.035 0/1:58:15,43:15:529:43:1512:-77.6563,0,-30.074 0/1:84:39,45:39:1372:45:1586:-74.2895,0,-96.4047 1/1:35:0,35:0:0:35:1239:-77.2872,-10.5361,0 0/0:112:112,0:112:3949:0:0:0,-33.7154,-351.913 0/0:8:8,0:8:287:0:0:0,-2.40824,-25.9525 0/1:6:2,4:2:72:4:140:-7.28761,0,-4.97076 0/1:14:4,10:4:132:10:352:-19.1739,0,-7.90148 0/0:34:34,0:34:1192:0:0:0,-10.235,-106.525 0/1:63:34,29:34:1192:29:1040:-45.718,0,-87.0103 0/0:56:56,0:56:1954:0:0:0,-16.8577,-173.791 0/0:27:27,0:27:968:0:0:0,-8.12781,-86.291 0/0:31:30,1:30:1043:1:36:0,-6.86502,-90.7867 0/1:48:33,15:33:1159:15:540:-19.9852,0,-88.5488 0/1:27:23,4:23:817:4:144:-0.999741,0,-65.1267 0/0:42:41,0:41:1450:0:0:0,-12.3422,-128.812 0/0:41:41,0:41:1458:0:0:0,-12.3422,-129.146 chr09 1058519 . TCCC CCTC,TCTT 16045.8 PASS AB=0.508841,0.491159;ABP=3.35586,3.35586;AC=29,13;AF=0.690476,0.309524;AN=42;AO=623,286;CIGAR=1X1M1X1M,2M2X;DP=911;DPB=911;DPRA=1.25143,1.03348;EPP=1355.84,624.051;EPPR=0;GTI=1;LEN=4,2;MEANALT=1.7,1.92308;MQM=46.4157,25.007;MQMR=0;NS=21;NUMALT=2;ODDS=5.17567;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22050,10144;QR=0;RO=0;RPL=623,286;RPP=1355.84,624.051;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1355.84,624.051;SAR=623,286;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:46:0,26,20:0:0:26,20:932,698:-113.636,-38.2688,-30.442,-75.6604,0,-69.6398 1/2:50:0,15,35:0:0:15,35:540,1248:-111.258,-67.5822,-63.0668,-43.9992,0,-33.4632 1/2:49:0,26,23:0:0:26,23:921,805:-118.138,-43.984,-36.1573,-74.4482,0,-67.5246 1/1:21:0,21,0:0:0:21,0:753,0:-67.5243,-6.32163,0,-67.5243,-6.32163,-67.5243 1/2:69:0,43,26:0:0:43,26:1492,928:-169.945,-50.2598,-37.3155,-119.968,0,-112.141 1/2:58:0,16,42:0:0:16,42:570,1494:-126.609,-80.696,-75.8795,-46.2363,0,-33.593 1/2:83:0,38,45:0:0:38,45:1331,1600:-192.74,-86.2735,-74.8343,-106.766,0,-93.22 2/2:35:0,0,35:0:0:0,35:0,1233:-77.1746,-77.1746,-77.1746,-10.5361,-10.5361,0 1/1:112:0,111,0:0:0:111,0:3928,0:-350.012,-33.4143,0,-350.012,-33.4143,-350.012 1/1:8:0,8,0:0:0:8,0:277,0:-25.0712,-2.40824,0,-25.0712,-2.40824,-25.0712 1/2:6:0,2,4:0:0:2,4:72,144:-13.7783,-7.92343,-7.32137,-6.17488,0,-4.97076 1/2:12:0,4,8:0:0:4,8:141,288:-27.0155,-15.6002,-14.396,-11.7306,0,-9.32237 1/1:33:0,33,0:0:0:33,0:1165,0:-104.058,-9.93399,0,-104.058,-9.93399,-104.058 1/2:63:0,34,29:0:0:34,29:1207,1034:-152.83,-55.8404,-45.6054,-97.2837,0,-88.5539 1/1:55:0,55,0:0:0:55,0:1939,0:-172.559,-16.5567,0,-172.559,-16.5567,-172.559 1/1:27:0,27,0:0:0:27,0:969,0:-86.5172,-8.12781,0,-86.5172,-8.12781,-86.5172 1/1:27:0,26,1:0:0:26,1:928,36:-82.6368,-7.82678,0,-80.7215,-5.6609,-80.4205 1/2:46:0,32,14:0:0:32,14:1128,494:-117.466,-26.8844,-17.2514,-90.8578,0,-86.6434 1/2:27:0,23,4:0:0:23,4:820,142:-74.224,-7.90655,-0.98286,-66.5795,0,-65.3754 1/1:43:0,42,0:0:0:42,0:1490,0:-132.481,-12.6433,0,-132.481,-12.6433,-132.481 1/1:41:0,41,0:0:0:41,0:1447,0:-128.451,-12.3422,0,-128.451,-12.3422,-128.451 chr09 1130425 . G T 1124.91 PASS AB=0.456175;ABP=11.3847;AC=13;AF=0.309524;AN=42;AO=257;CIGAR=1X;DP=1047;DPB=1047;DPRA=0.785284;EPP=561.079;EPPR=1711.96;GTI=3;LEN=1;MEANALT=1;MQM=22.8521;MQMR=55.1792;NS=21;NUMALT=1;ODDS=0.253771;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8708;QR=28019;RO=787;RPL=0;RPP=561.079;RPPR=1703.28;RPR=257;RUN=1;SAF=0;SAP=561.079;SAR=257;SRF=1;SRP=1703.28;SRR=786;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:23,27:23:824:27:922:-39.8861,0,-59.2111 0/1:32:17,15:17:589:15:509:-20.8153,0,-43.6733 0/1:43:22,21:22:788:21:732:-28.2283,0,-57.5504 0/0:61:61,0:61:2188:0:0:0,-18.3628,-196.755 0/1:89:54,35:54:1940:35:1172:-40.8306,0,-147.112 0/1:73:40,33:40:1427:33:1079:-43.7049,0,-106.575 0/1:71:31,40:31:1089:40:1326:-62.2906,0,-76.6223 1/1:27:0,27:0:0:27:941:-52.5648,-8.12781,0 0/0:126:126,0:126:4498:0:0:0,-37.9298,-403.563 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.4918 0/1:9:5,4:5:176:4:125:-5.33395,0,-13.4717 0/1:35:18,17:18:644:17:596:-22.6531,0,-47.7276 0/0:81:78,0:78:2787:0:0:0,-23.4803,-250.17 0/1:50:22,28:22:779:28:969:-39.8338,0,-55.3332 0/0:104:104,0:104:3701:0:0:0,-31.3071,-332.059 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.5391 0/0:36:36,0:36:1249:0:0:0,-10.8371,-112.499 0/1:25:21,4:21:743:4:144:-1.53519,0,-59.6374 0/1:25:20,5:20:716:5:157:-2.16336,0,-57.0921 0/0:58:57,1:57:2013:1:36:0,-15.2766,-178.538 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.6597 chr09 1130440 . TATAAAAAAAGTT GATAAAAAAAATT,GATAAAAAAAAATT 21283.7 PASS AB=0.487805,0.500938;ABP=3.69882,3.01437;AC=29,13;AF=0.690476,0.309524;AN=42;AO=740,305;CIGAR=1X9M1X2M,1X2M1I7M1X2M;DP=1059;DPB=1082.46;DPRA=1.50735,1.19849;EPP=285.008,665.309;EPPR=0;GTI=2;LEN=13,14;MEANALT=2.4,2.46667;MQM=55.2311,22.5016;MQMR=0;NS=21;NUMALT=2;ODDS=2.71811;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=25986,6856;QR=0;RO=0;RPL=525,0;RPP=285.008,665.309;RPPR=0;RPR=215,305;RUN=1,1;SAF=0,0;SAP=1609.9,665.309;SAR=740,305;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,23,28:0:0:23,28:806,616:-105.027,-39.6498,-32.7261,-65.6549,0,-57.226 1/2:34:0,16,18:0:0:16,18:565,414:-73.2197,-27.1824,-22.366,-46.3181,0,-40.8995 1/2:45:0,21,23:0:0:21,23:724,506:-91.2172,-32.4325,-26.1109,-58.8785,0,-51.9548 1/1:55:0,53,0:0:0:53,0:1862,0:-167.273,-15.9546,0,-167.273,-15.9546,-167.273 1/2:88:0,52,36:0:0:52,36:1833,791:-199.604,-50.8765,-35.2229,-148.984,0,-138.147 1/2:80:0,38,41:0:0:38,41:1321,943:-168.777,-61.4794,-50.0403,-107.39,0,-95.0483 1/2:82:0,35,45:0:0:35,45:1231,1034:-167.245,-67.3081,-56.772,-99.9175,0,-86.3712 2/2:34:0,0,34:0:0:0,34:0,748:-58.3409,-58.3409,-58.3409,-10.235,-10.235,0 1/1:124:0,121,0:0:0:121,0:4275,0:-383.549,-36.4246,0,-383.549,-36.4246,-383.549 1/1:10:0,10,0:0:0:10,0:356,0:-32.3666,-3.0103,0,-32.3666,-3.0103,-32.3666 1/2:9:0,3,6:0:0:3,6:108,137:-18.0089,-9.1458,-8.24271,-9.16926,0,-7.36308 1/2:36:0,13,22:0:0:13,22:464,486:-69.1144,-31.246,-27.3326,-37.9814,0,-31.3588 1/1:77:0,75,1:0:0:75,1:2636,22:-236.571,-22.5773,0,-235.164,-21.2481,-234.863 1/2:51:0,20,30:0:0:20,30:712,660:-100.206,-42.1565,-36.1359,-57.9831,0,-48.9522 1/1:95:0,93,2:0:0:93,2:3247,68:-291.754,-27.9958,0,-286.778,-22.7096,-286.176 1/1:27:0,27,0:0:0:27,0:956,0:-86.1148,-8.12781,0,-86.1148,-8.12781,-86.1148 1/1:34:0,34,0:0:0:34,0:1192,0:-107.386,-10.235,0,-107.386,-10.235,-107.386 1/2:26:0,19,7:0:0:19,7:663,166:-65.2341,-11.2317,-5.51211,-54.2486,0,-52.1414 1/2:31:0,20,11:0:0:20,11:707,243:-73.3207,-15.7827,-9.76214,-57.7862,0,-54.4749 1/1:55:0,53,1:0:0:53,1:1847,22:-166.105,-15.9546,0,-164.699,-14.5615,-164.398 1/1:15:0,14,0:0:0:14,0:481,0:-43.2342,-4.21442,0,-43.2342,-4.21442,-43.2342 chr09 1155431 . C T 13461.5 PASS AB=0.502861;ABP=3.12212;AC=12;AF=0.285714;AN=42;AO=791;CIGAR=1X;DP=2972;DPB=2972;DPRA=0.843281;EPP=1720.64;EPPR=4734.65;GTI=0;LEN=1;MEANALT=1;MQM=59.9001;MQMR=59.9872;NS=21;NUMALT=1;ODDS=12.9217;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28371;QR=77997;RO=2179;RPL=0;RPP=1720.64;RPPR=4734.65;RPR=791;RUN=1;SAF=791;SAP=1720.64;SAR=0;SRF=2179;SRP=4734.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:178:83,95:83:2955:95:3409:-253.44,0,-212.601 0/1:129:64,65:64:2300:65:2332:-170.117,0,-168.428 0/1:177:85,92:85:3048:92:3308:-244.655,0,-221.267 0/0:161:161,0:161:5771:0:0:0,-48.4658,-519.499 0/1:273:158,115:158:5663:115:4120:-288.769,0,-427.607 0/1:112:55,57:55:1959:57:2048:-150.876,0,-142.869 0/1:229:122,107:122:4375:107:3845:-277.259,0,-324.986 0/1:134:56,78:56:2012:78:2808:-212.621,0,-141.015 0/0:340:340,0:340:12179:0:0:0,-102.35,-1095.95 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:6:2,4:2:63:4:144:-11.5074,0,-4.17697 0/1:24:11,13:11:392:13:468:-35.2349,0,-28.3953 0/0:184:184,0:184:6588:0:0:0,-55.3895,-593.001 0/1:176:81,95:81:2904:95:3401:-253.321,0,-208.614 0/0:245:244,0:244:8709:0:0:0,-73.4513,-783.254 0/0:141:141,0:141:5052:0:0:0,-42.4452,-454.825 0/0:118:117,0:117:4200:0:0:0,-35.2205,-377.82 0/1:70:30,40:30:1067:40:1421:-107.113,0,-75.2691 0/1:65:35,30:35:1248:30:1067:-76.7743,0,-93.0579 0/0:155:155,0:155:5532:0:0:0,-46.6596,-498.005 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 chr09 1155448 . A G 13531.3 PASS AB=0.502228;ABP=3.07803;AC=12;AF=0.285714;AN=42;AO=790;CIGAR=1X;DP=2981;DPB=2981;DPRA=0.880914;EPP=1692.51;EPPR=4752.02;GTI=0;LEN=1;MEANALT=1;MQM=59.9468;MQMR=59.9758;NS=21;NUMALT=1;ODDS=12.4083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28271;QR=78636;RO=2191;RPL=787;RPP=1692.51;RPPR=4752.02;RPR=3;RUN=1;SAF=790;SAP=1718.47;SAR=0;SRF=2191;SRP=4760.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:176:81,95:81:2881:95:3404:-253.593,0,-206.545 0/1:129:64,65:64:2300:65:2323:-170.497,0,-168.428 0/1:178:85,93:85:3056:93:3333:-246.603,0,-221.527 0/0:162:162,0:162:5820:0:0:0,-48.7669,-523.906 0/1:270:156,114:156:5612:114:4076:-285.716,0,-423.92 0/1:113:55,58:55:1976:58:2057:-151.383,0,-144.098 0/1:231:124,107:124:4433:107:3839:-276.117,0,-329.602 0/1:135:58,77:58:2073:77:2760:-208.002,0,-146.2 0/0:342:342,0:342:12281:0:0:0,-102.952,-1105.12 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:6:2,4:2:68:4:144:-11.5074,0,-4.65153 0/1:24:11,13:11:392:13:468:-35.2349,0,-28.3953 0/0:184:183,1:183:6572:1:36:0,-51.7912,-587.96 0/1:176:82,94:82:2928:94:3364:-249.995,0,-210.774 0/0:247:247,0:247:8868:0:0:0,-74.3544,-798.014 0/0:144:144,0:144:5168:0:0:0,-43.3483,-465.259 0/0:117:117,0:117:4208:0:0:0,-35.2205,-378.899 0/1:70:30,40:30:1080:40:1423:-107.295,0,-76.4412 0/1:63:34,29:34:1224:29:1044:-75.3099,0,-91.5022 0/0:157:157,0:157:5644:0:0:0,-47.2617,-508.077 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 chr09 1294484 . A G 22552.8 PASS AB=0.539739;ABP=14.5735;AC=30;AF=0.714286;AN=42;AO=1089;CIGAR=1X;DP=1479;DPB=1479;DPRA=0;EPP=2341.76;EPPR=847.713;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9807;MQMR=60;NS=21;NUMALT=1;ODDS=4.28588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38813;QR=13928;RO=389;RPL=1086;RPP=2341.76;RPPR=847.713;RPR=3;RUN=1;SAF=0;SAP=2367.74;SAR=1089;SRF=0;SRP=847.713;SRR=389;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:32,37:32:1148:37:1319:-98.2386,0,-82.8588 0/1:22:7,15:7:252:15:536:-41.9522,0,-16.4063 0/1:60:22,38:22:788:38:1319:-100.944,0,-53.183 1/1:96:0,95:0:0:95:3374:-303.665,-28.5979,0 0/1:110:56,54:56:2008:54:1927:-140.593,0,-147.88 0/1:89:48,41:48:1705:41:1459:-104.814,0,-126.942 0/1:160:76,84:76:2728:84:3000:-222.067,0,-197.598 0/1:67:28,39:28:1008:39:1392:-105.41,0,-70.8673 1/1:151:0,151:0:0:151:5391:-485.322,-45.4555,0 1/1:8:0,8:0:0:8:280:-25.5393,-2.40824,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 1/1:72:0,72:0:0:72:2575:-231.999,-21.6742,0 0/1:112:62,50:62:2220:50:1770:-125.867,0,-166.349 1/1:91:0,91:0:0:91:3252:-292.902,-27.3937,0 1/1:30:0,30:0:0:30:1064:-96.0717,-9.0309,0 1/1:38:0,38:0:0:38:1356:-122.34,-11.4391,0 0/1:66:33,33:33:1175:33:1175:-86.189,0,-86.189 0/1:74:19,55:19:684:55:1960:-154.399,0,-39.6141 1/1:98:1,97:1:32:97:3468:-309.133,-26.3016,0 1/1:52:0,52:0:0:52:1872:-168.759,-15.6536,0 chr09 1357632 . C T 5310.15 PASS AB=0.446194;ABP=22.1717;AC=12;AF=0.285714;AN=42;AO=340;CIGAR=1X;DP=994;DPB=994;DPRA=2.46336;EPP=741.311;EPPR=1420.98;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.3618;MQMR=59.9694;NS=21;NUMALT=1;ODDS=5.145;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12082;QR=23347;RO=653;RPL=0;RPP=741.311;RPPR=1420.98;RPR=340;RUN=1;SAF=0;SAP=741.311;SAR=340;SRF=0;SRP=1420.98;SRR=653;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:18,13:18:648:13:456:-32.0275,0,-49.32 0/1:20:8,12:8:288:12:413:-31.1042,0,-20.2468 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:46:29,17:29:1040:17:597:-40.2,0,-80.067 0/1:24:17,7:17:612:7:248:-15.4395,0,-48.1887 0/1:47:21,26:21:756:26:936:-70.4111,0,-54.2184 0/1:17:10,7:10:360:7:248:-17.5467,0,-27.6268 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.24 0/1:83:44,39:44:1572:39:1404:-101.653,0,-116.775 0/1:196:112,83:112:4011:83:2949:-206.542,0,-302.116 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:19:11,8:11:396:8:288:-20.5478,0,-30.2632 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:14:14,0:14:486:0:0:0,-4.21442,-44.068 0/1:236:125,111:125:4452:111:3931:-282.834,0,-329.81 0/1:31:20,11:20:703:11:396:-26.6426,0,-54.2616 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:25:25,0:25:883:0:0:0,-7.52575,-79.7875 chr09 1421442 . A C 45135 PASS AB=0.512687;ABP=5.15917;AC=30;AF=0.714286;AN=42;AO=2170;CIGAR=1X;DP=2924;DPB=2924;DPRA=0;EPP=4715.11;EPPR=1640.3;GTI=1;LEN=1;MEANALT=1;MQM=59.4461;MQMR=59.8501;NS=21;NUMALT=1;ODDS=5.79471;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77428;QR=27018;RO=754;RPL=2170;RPP=4715.11;RPPR=1640.3;RPR=0;RUN=1;SAF=0;SAP=4715.11;SAR=2170;SRF=0;SRP=1640.3;SRR=754;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:188:96,92:96:3432:92:3278:-238.624,0,-252.31 0/1:88:45,43:45:1620:43:1544:-112.754,0,-119.599 0/1:103:56,47:56:2004:47:1688:-121.168,0,-149.605 1/1:125:0,125:0:0:125:4439:-399.624,-37.6288,0 0/1:262:143,119:143:5140:119:4257:-304.346,0,-383.814 0/1:116:52,64:52:1845:64:2269:-169.535,0,-131.356 0/1:215:96,119:96:3425:119:4235:-316.588,0,-243.713 0/1:173:95,78:95:3404:78:2800:-199.769,0,-254.496 1/1:324:0,324:0:0:324:11574:-1041.25,-97.5337,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 0/1:5:1,4:1:36:4:136:-11.0704,0,-2.09312 0/1:76:36,40:36:1292:40:1425:-105.641,0,-93.7039 1/1:237:1,236:1:36:236:8436:-755.276,-67.7458,0 0/1:115:53,62:53:1904:62:2228:-166.114,0,-137.019 1/1:254:1,253:1:36:253:9027:-808.514,-72.8633,0 1/1:62:0,62:0:0:62:2186:-196.087,-18.6639,0 1/1:86:0,86:0:0:86:3069:-276.24,-25.8886,0 0/1:67:31,36:31:1116:36:1296:-96.7536,0,-80.5827 0/1:129:45,84:45:1620:84:2989:-229.773,0,-107.257 1/1:197:1,196:1:36:196:6978:-624.355,-55.7046,0 1/1:82:2,80:2:72:80:2854:-250.24,-17.8477,0 chr09 1422391 . TGCAC AGCAT 11639.1 PASS AB=0.458491;ABP=26.8064;AC=12;AF=0.285714;AN=42;AO=735;CIGAR=1X3M1X;DP=3217;DPB=3217.2;DPRA=1.01317;EPP=1599.04;EPPR=5357.86;GTI=1;LEN=5;MEANALT=1.78571;MQM=58.0054;MQMR=38.5527;NS=21;NUMALT=1;ODDS=11.825;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=26042;QR=87282;RO=2466;RPL=0;RPP=1599.04;RPPR=5357.86;RPR=735;RUN=1;SAF=735;SAP=1599.04;SAR=0;SRF=2466;SRP=5357.86;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:69,71:69:2461:71:2500:-182.833,0,-163.511 0/1:83:42,41:42:1449:41:1459:-106.223,0,-104.264 0/1:181:95,82:95:3336:82:2908:-208.323,0,-227.938 0/0:182:181,0:181:6443:0:0:0,-54.4864,-539.362 0/1:211:106,105:106:3731:105:3742:-273.365,0,-250.253 0/1:139:85,53:85:3010:53:1891:-128.08,0,-227.89 0/1:197:111,85:111:3928:85:2996:-209.215,0,-292.594 0/1:214:122,91:122:4340:91:3245:-227.733,0,-299.475 0/0:191:191,0:191:6740:0:0:0,-57.4967,-557.676 0/0:16:16,0:16:574:0:0:0,-4.81648,-47.6113 0/1:5:3,2:3:108:2:71:-5.23691,0,-8.5154 0/1:27:13,14:13:463:14:496:-36.8459,0,-31.2562 0/0:332:331,0:331:11703:0:0:0,-99.6409,-982.374 0/1:130:47,80:47:1686:80:2824:-215.828,0,-102.978 0/0:367:366,1:366:12984:1:36:0,-106.88,-1085.37 0/0:135:135,0:135:4778:0:0:0,-40.639,-396.067 0/0:136:136,0:136:4799:0:0:0,-40.9401,-398.57 0/1:155:74,81:74:2614:81:2860:-210.87,0,-173.15 0/1:106:82,24:82:2864:24:848:-44.3346,0,-208.154 0/0:197:190,5:190:6738:5:166:0,-43.7362,-548.202 0/0:71:71,0:71:2533:0:0:0,-21.3731,-226.473 chr09 1422413 . T C 47362.2 PASS AB=0.54042;ABP=25.3042;AC=30;AF=0.714286;AN=42;AO=2445;CIGAR=1X;DP=3172;DPB=3172;DPRA=0;EPP=5139.96;EPPR=1504.47;GTI=1;LEN=1;MEANALT=1;MQM=38.4376;MQMR=58.0633;NS=21;NUMALT=1;ODDS=11.4756;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87410;QR=26038;RO=727;RPL=20;RPP=5139.96;RPPR=1504.47;RPR=2425;RUN=1;SAF=2445;SAP=5312.26;SAR=0;SRF=727;SRP=1581.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:68,69:68:2417:69:2463:-164.485,0,-176.528 0/1:83:42,41:42:1497:41:1459:-105.109,0,-109.622 0/1:177:82,95:82:2924:95:3404:-232.129,0,-210.077 1/1:178:0,178:0:0:178:6391:-533.645,-53.5833,0 0/1:207:105,102:105:3764:102:3656:-244,0,-276.547 0/1:140:55,85:55:1980:85:3039:-229.632,0,-135.589 0/1:194:82,112:82:2936:112:3988:-298.744,0,-204.612 0/1:213:90,123:90:3236:123:4397:-304.081,0,-227.218 1/1:186:0,186:0:0:186:6633:-546.217,-55.9916,0 1/1:16:0,16:0:0:16:576:-47.7223,-4.81648,0 0/1:5:2,3:2:72:3:104:-8.15388,0,-5.33157 0/1:26:14,12:14:504:12:428:-28.4051,0,-37.8713 1/1:326:0,326:0:0:326:11642:-973.854,-98.1358,0 0/1:127:79,48:79:2840:48:1728:-106.194,0,-217.593 1/1:366:1,365:1:36:365:13017:-1087.27,-106.579,0 1/1:135:0,135:0:0:135:4840:-399.351,-40.6391,0 1/1:133:0,133:0:0:133:4764:-394.412,-40.037,0 0/1:156:79,77:79:2828:77:2743:-182.459,0,-207.727 0/1:106:24,82:24:864:82:2918:-211.873,0,-46.1375 1/1:192:4,188:4:140:188:6744:-548.766,-44.8532,0 1/1:69:0,69:0:0:69:2476:-221.38,-20.7711,0 chr09 1422428 . G C 46628.2 PASS AB=0.538511;ABP=23.2474;AC=30;AF=0.714286;AN=42;AO=2456;CIGAR=1X;DP=3187;DPB=3187;DPRA=0;EPP=5336.15;EPPR=1590.36;GTI=1;LEN=1;MEANALT=1;MQM=38.4218;MQMR=57.9932;NS=21;NUMALT=1;ODDS=12.4976;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87873;QR=26216;RO=731;RPL=2456;RPP=5336.15;RPPR=1590.36;RPR=0;RUN=1;SAF=2456;SAP=5336.15;SAR=0;SRF=731;SRP=1590.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:140:70,70:70:2500:70:2499:-166.709,0,-182.532 0/1:82:41,41:41:1467:41:1468:-106.205,0,-107.226 0/1:177:81,96:81:2893:96:3448:-235.502,0,-207.287 1/1:181:0,181:0:0:181:6496:-542.953,-54.4864,0 0/1:207:104,103:104:3736:103:3665:-245.114,0,-274.027 0/1:139:54,85:54:1944:85:3044:-230.361,0,-132.722 0/1:193:83,110:83:2984:110:3948:-295.431,0,-209.157 0/1:209:88,121:88:3164:121:4321:-298.844,0,-221.948 1/1:189:0,189:0:0:189:6762:-556.652,-56.8947,0 1/1:16:0,16:0:0:16:576:-47.7223,-4.81648,0 0/1:5:2,3:2:68:3:108:-8.5154,0,-4.95256 0/1:27:14,13:14:504:13:451:-30.3514,0,-37.5703 1/1:331:0,331:0:0:331:11856:-991.585,-99.6409,0 0/1:130:81,49:81:2892:49:1760:-108.063,0,-221.369 1/1:363:1,362:1:36:362:12955:-1079.92,-105.676,0 1/1:137:0,137:0:0:137:4882:-403.527,-41.2411,0 1/1:134:0,134:0:0:134:4788:-396.259,-40.338,0 0/1:156:82,74:82:2948:74:2639:-173.404,0,-218.485 0/1:106:25,81:25:900:81:2908:-210.874,0,-49.376 1/1:194:5,189:5:180:189:6756:-546.706,-41.8478,0 1/1:71:0,71:0:0:71:2543:-227.077,-21.3731,0 chr09 1492817 . 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G T 11226.4 PASS AB=0.483602;ABP=7.21202;AC=20;AF=0.47619;AN=42;AO=870;CIGAR=1X;DP=1805;DPB=1805;DPRA=14.9917;EPP=1892.19;EPPR=2024.66;GTI=1;LEN=1;MEANALT=1;MQM=33.8966;MQMR=57.3027;NS=21;NUMALT=1;ODDS=15.5731;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30953;QR=33197;RO=935;RPL=0;RPP=1892.19;RPPR=2024.66;RPR=870;RUN=1;SAF=0;SAP=1892.19;SAR=870;SRF=0;SRP=2033.34;SRR=935;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:36,54:36:1258:54:1911:-126.361,0,-85.9662 0/1:41:17,24:17:612:24:860:-55.2803,0,-42.9572 0/1:81:46,35:46:1637:35:1256:-76.5886,0,-122.178 0/1:124:59,65:59:2099:65:2324:-148.578,0,-151.851 0/1:239:80,159:80:2841:159:5671:-376.792,0,-182.783 0/1:51:30,21:30:1076:21:744:-43.515,0,-81.0031 0/1:101:73,28:73:2601:28:987:-47.6725,0,-202.39 0/1:84:55,29:55:1952:29:1021:-58.302,0,-149.541 0/1:134:62,72:62:2199:72:2572:-166.632,0,-157.836 0/1:6:3,3:3:108:3:108:-7.28306,0,-8.26899 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.2977 0/1:40:32,8:32:1148:8:284:-11.4527,0,-90.7488 0/1:122:58,64:58:2054:64:2256:-144.246,0,-148.402 0/1:143:79,64:79:2822:64:2284:-137.766,0,-211.171 0/1:138:91,47:91:3252:47:1688:-92.608,0,-251.329 0/1:46:13,33:13:464:33:1175:-80.6614,0,-28.2501 0/1:51:22,29:22:765:29:1036:-67.4344,0,-53.8152 0/1:65:47,18:47:1633:18:631:-32.2183,0,-127.326 0/1:77:50,27:50:1777:27:964:-53.8031,0,-136.482 0/1:102:45,57:45:1587:57:2032:-132.591,0,-112.415 0/1:64:31,33:31:1100:33:1149:-71.9736,0,-80.0444 chr09 1782145 . C T 1763.33 PASS AB=0.249102;ABP=459.568;AC=10;AF=0.238095;AN=42;AO=212;CIGAR=1X;DP=1818;DPB=1818;DPRA=0.852878;EPP=446.155;EPPR=3327.32;GTI=1;LEN=1;MEANALT=1;MQM=48.3208;MQMR=45.6252;NS=21;NUMALT=1;ODDS=3.66156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7576;QR=57417;RO=1606;RPL=210;RPP=446.155;RPPR=3327.32;RPR=2;RUN=1;SAF=0;SAP=463.362;SAR=212;SRF=0;SRP=3490.39;SRR=1606;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:70,22:70:2484:22:792:-43.0521,0,-176.247 0/0:45:41,4:41:1472:4:140:0,-0.700944,-108.794 0/1:83:62,21:62:2232:21:733:-40.984,0,-163.252 0/0:123:123,0:123:4400:0:0:0,-37.0267,-373.227 0/1:239:200,39:200:7146:39:1396:-52.9721,0,-508.226 0/1:51:35,16:35:1260:16:565:-35.3529,0,-89.3538 0/1:97:59,38:59:2090:38:1366:-92.5238,0,-149.03 0/1:85:62,23:62:2203:23:824:-48.0372,0,-163.332 0/0:133:133,0:133:4742:0:0:0,-40.037,-402.265 0/0:8:8,0:8:288:0:0:0,-2.40824,-24.9822 0/1:6:1,5:1:36:5:180:-14.6012,0,-1.79209 0/1:41:28,13:28:1008:13:468:-29.2628,0,-75.8307 0/0:125:125,0:125:4450:0:0:0,-37.6287,-376.929 0/0:148:148,0:148:5281:0:0:0,-44.5524,-448.217 0/0:142:142,0:142:5092:0:0:0,-42.7463,-439.604 0/0:46:46,0:46:1652:0:0:0,-13.8474,-136.523 0/0:49:49,0:49:1764:0:0:0,-14.7505,-148.186 0/1:64:46,18:46:1637:18:648:-39.0173,0,-122.159 0/1:77:64,13:64:2300:13:464:-18.3653,0,-173.652 0/0:102:102,0:102:3660:0:0:0,-30.7051,-308.954 0/0:62:62,0:62:2220:0:0:0,-18.6639,-187.027 chr09 1782148 . GCCCTCA GCCCCTCA 10001.4 PASS AB=0.469274;ABP=17.689;AC=20;AF=0.47619;AN=42;AO=840;CIGAR=1M1I6M;DP=1796;DPB=1916.57;DPRA=14.9167;EPP=1827.05;EPPR=2050.72;GTI=1;LEN=1;MEANALT=1.45;MQM=33.875;MQMR=57.3358;NS=21;NUMALT=1;ODDS=13.5511;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28149;QR=33196;RO=947;RPL=840;RPP=1827.05;RPPR=2050.72;RPR=0;RUN=1;SAF=0;SAP=1827.05;SAR=840;SRF=0;SRP=2059.39;SRR=947;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:37,52:37:1282:52:1747:-117.273,0,-88.4952 0/1:45:19,26:19:653:26:858:-56.932,0,-45.4761 0/1:82:47,34:47:1671:34:1123:-68.357,0,-125.81 0/1:120:60,59:60:2116:59:1990:-128.165,0,-154.622 0/1:236:82,153:82:2891:153:5103:-348.839,0,-188.462 0/1:51:30,21:30:1063:21:691:-41.5343,0,-80.0281 0/1:98:72,26:72:2510:26:854:-40.8238,0,-195.315 0/1:86:55,31:55:1920:31:1058:-61.9067,0,-146.287 0/1:129:62,66:62:2187:66:2243:-145.695,0,-158.214 0/1:8:4,4:4:136:4:137:-9.26597,0,-10.1673 0/0:6:6,0:6:211:0:0:0,-1.80618,-19.2085 0/1:41:32,9:32:1132:9:312:-13.7301,0,-89.1067 0/1:122:59,62:59:2056:62:2073:-134.454,0,-148.596 0/1:144:81,63:81:2792:63:2090:-128.873,0,-208.176 0/1:142:94,48:94:3294:48:1596:-88.8414,0,-253.918 0/1:45:13,32:13:448:32:1074:-75.1127,0,-27.1016 0/1:51:23,27:23:816:27:916:-60.2685,0,-58.5118 0/1:62:45,16:45:1578:16:546:-26.9039,0,-123.357 0/1:77:50,26:50:1776:26:870:-48.7748,0,-136.453 0/1:100:45,54:45:1593:54:1846:-121.901,0,-113.509 0/1:62:31,31:31:1071:31:1022:-65.3903,0,-78.0319 chr09 1782167 . GG TT 11249 PASS AB=0.483941;ABP=7.1251;AC=20;AF=0.47619;AN=42;AO=889;CIGAR=2X;DP=1843;DPB=1843;DPRA=15.3083;EPP=1933.45;EPPR=2072.42;GTI=1;LEN=2;MEANALT=1.05;MQM=33.7773;MQMR=57.2592;NS=21;NUMALT=1;ODDS=15.6627;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31313;QR=33889;RO=953;RPL=889;RPP=1933.45;RPPR=2072.42;RPR=0;RUN=1;SAF=0;SAP=1933.45;SAR=889;SRF=0;SRP=2072.42;SRR=953;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:37,56:37:1328:56:1957:-129.326,0,-91.0697 0/1:46:19,27:19:669:27:964:-61.9692,0,-46.5732 0/1:83:48,35:48:1718:35:1213:-73.0444,0,-128.827 0/1:125:60,65:60:2110:65:2270:-144.946,0,-152.537 0/1:241:82,159:82:2932:159:5661:-375.399,0,-190.434 0/1:51:30,21:30:1067:21:725:-42.3589,0,-80.5158 0/1:102:73,29:73:2581:29:1020:-49.9919,0,-200.316 0/1:86:55,31:55:1938:31:1090:-62.7302,0,-147.864 0/1:134:63,71:63:2248:71:2525:-162.051,0,-162.245 0/1:8:4,4:4:144:4:144:-9.60255,0,-10.9054 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.6463 0/1:41:32,9:32:1148:9:324:-14.2763,0,-90.4503 0/1:125:59,65:59:2104:65:2282:-144.961,0,-151.943 0/1:150:81,69:81:2865:69:2431:-147.751,0,-212.93 0/1:144:94,50:94:3328:50:1711:-94.4189,0,-256.37 0/1:46:13,33:13:455:33:1169:-79.9048,0,-27.4343 0/1:52:23,29:23:822:29:1032:-66.7772,0,-58.6497 0/1:65:47,18:47:1673:18:648:-32.8836,0,-130.915 0/1:77:50,27:50:1791:27:958:-53.4863,0,-137.738 0/1:104:46,58:46:1646:58:2034:-132.935,0,-117.122 0/1:64:31,33:31:1106:33:1155:-72.3363,0,-80.5852 chr09 1782926 . T A 2410.37 PASS AB=0.485623;ABP=3.57225;AC=10;AF=0.238095;AN=42;AO=153;CIGAR=1X;DP=736;DPB=736;DPRA=0.847053;EPP=335.246;EPPR=1266.81;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.8039;MQMR=60;NS=21;NUMALT=1;ODDS=8.42716;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5438;QR=20841;RO=582;RPL=0;RPP=335.246;RPPR=1266.81;RPR=153;RUN=1;SAF=153;SAP=335.246;SAR=0;SRF=582;SRP=1266.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:19:6,13:6:216:13:464:-36.3779,0,-14.0709 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:52:25,27:25:900:27:956:-70.7022,0,-65.6675 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 0/1:45:22,22:22:788:22:769:-55.9239,0,-57.6397 0/1:27:19,8:19:684:8:288:-18.1396,0,-53.7625 0/1:36:19,17:19:684:17:612:-44.5764,0,-51.0532 0/1:28:12,16:12:428:16:576:-43.7461,0,-30.43 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/0:118:118,0:118:4224:0:0:0,-35.5215,-380.34 0/0:46:46,0:46:1633:0:0:0,-13.8474,-147.257 0/0:42:41,1:41:1468:1:21:0,-10.5944,-130.367 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:45:23,22:23:820:22:780:-56.9767,0,-60.5762 0/1:44:26,18:26:928:18:648:-45.4066,0,-70.5929 0/0:90:90,0:90:3224:0:0:0,-27.0927,-290.382 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 chr09 1934481 . C A 27461.3 PASS AB=0.479146;ABP=6.90463;AC=31;AF=0.738095;AN=42;AO=1330;CIGAR=1X;DP=1869;DPB=1869;DPRA=0;EPP=2891.07;EPPR=1164.75;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9699;MQMR=60;NS=21;NUMALT=1;ODDS=9.77854;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47470;QR=19146;RO=535;RPL=0;RPP=2891.07;RPPR=1164.75;RPR=1330;RUN=1;SAF=0;SAP=2891.07;SAR=1330;SRF=0;SRP=1164.75;SRR=535;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:33,29:33:1180:29:1031:-74.4388,0,-87.8442 0/1:119:71,46:71:2533:46:1648:-113.028,0,-192.639 0/1:127:72,55:72:2573:55:1951:-137.634,0,-193.587 1/1:76:0,76:0:0:76:2736:-246.482,-22.8783,0 0/1:177:86,91:86:3088:91:3244:-238.897,0,-224.865 0/1:87:37,50:37:1328:50:1784:-134.653,0,-93.6326 0/1:114:64,50:64:2295:50:1775:-125.714,0,-172.493 0/1:93:56,37:56:2012:37:1328:-91.8264,0,-153.357 1/1:118:0,118:0:0:118:4202:-378.36,-35.5215,0 1/1:35:0,35:0:0:35:1232:-111.166,-10.5361,0 0/1:11:2,9:2:72:9:320:-25.831,0,-3.52539 0/1:34:10,24:10:341:24:856:-67.1261,0,-20.7827 1/1:167:0,167:0:0:167:5964:-536.866,-50.272,0 1/1:138:0,136:0:0:136:4846:-435.939,-40.9401,0 1/1:75:0,75:0:0:75:2669:-240.455,-22.5773,0 1/1:84:0,84:0:0:84:3004:-270.592,-25.2865,0 1/1:61:0,61:0:0:61:2188:-197.186,-18.3628,0 0/1:150:79,71:79:2828:71:2536:-183.337,0,-209.604 0/1:57:25,32:25:896:32:1140:-85.7505,0,-63.8016 1/1:39:0,39:0:0:39:1400:-126.299,-11.7402,0 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 chr09 1934527 . G A 27745.8 PASS AB=0.478764;ABP=7.06819;AC=31;AF=0.738095;AN=42;AO=1337;CIGAR=1X;DP=1878;DPB=1878;DPRA=0;EPP=2906.27;EPPR=1164.76;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9701;MQMR=60;NS=21;NUMALT=1;ODDS=9.84918;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47904;QR=19324;RO=539;RPL=1337;RPP=2906.27;RPPR=1173.43;RPR=0;RUN=1;SAF=0;SAP=2906.27;SAR=1337;SRF=1;SRP=1164.76;SRR=538;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:35,31:35:1252:31:1108:-80.163,0,-93.1171 0/1:118:70,48:70:2512:48:1728:-120.284,0,-190.81 0/1:130:72,58:72:2576:58:2068:-147.257,0,-192.956 1/1:77:0,77:0:0:77:2729:-245.854,-23.1793,0 0/1:176:87,88:87:3124:88:3156:-231.264,0,-228.385 0/1:88:37,51:37:1320:51:1828:-138.31,0,-92.6113 0/1:115:64,50:64:2284:50:1788:-126.525,0,-171.145 0/1:93:57,36:57:2052:36:1296:-88.9481,0,-156.956 1/1:120:0,120:0:0:120:4308:-387.895,-36.1236,0 1/1:34:0,34:0:0:34:1216:-109.702,-10.235,0 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:34:10,24:10:360:24:864:-67.8475,0,-22.5093 1/1:167:0,167:0:0:167:6004:-540.462,-50.272,0 1/1:138:0,138:0:0:138:4935:-444.231,-41.5421,0 1/1:76:1,75:1:36:75:2690:-238.746,-19.28,0 1/1:85:0,85:0:0:85:3048:-274.549,-25.5876,0 1/1:59:0,59:0:0:59:2109:-190.079,-17.7608,0 0/1:148:79,69:79:2840:69:2484:-179.26,0,-211.285 0/1:57:25,32:25:896:32:1144:-86.1108,0,-63.8016 1/1:40:0,40:0:0:40:1429:-128.907,-12.0412,0 1/1:46:0,46:0:0:46:1648:-148.605,-13.8474,0 chr09 1941762 . G A 5473.05 PASS AB=0.449553;ABP=20.3183;AC=11;AF=0.261905;AN=42;AO=354;CIGAR=1X;DP=1568;DPB=1568;DPRA=0.979412;EPP=771.712;EPPR=2639.18;GTI=0;LEN=1;MEANALT=1;MQM=59.8672;MQMR=59.9712;NS=21;NUMALT=1;ODDS=9.9084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12503;QR=43456;RO=1214;RPL=354;RPP=771.712;RPPR=2639.18;RPR=0;RUN=1;SAF=354;SAP=771.712;SAR=0;SRF=1214;SRP=2639.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:17,19:17:612:19:680:-50.6921,0,-44.5764 0/1:26:15,11:15:540:11:388:-27.3853,0,-41.1098 0/1:97:54,43:54:1936:43:1524:-108.253,0,-145.316 0/0:66:66,0:66:2357:0:0:0,-19.868,-212.373 0/1:145:75,70:75:2692:70:2484:-180.165,0,-198.872 0/1:36:19,17:19:684:17:608:-44.2149,0,-51.0532 0/1:121:63,58:63:2256:58:2021:-145.717,0,-166.878 0/1:118:76,42:76:2689:42:1479:-97.8822,0,-206.73 0/0:178:178,0:178:6373:0:0:0,-53.5833,-573.656 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4067 0/1:14:9,5:9:324:5:176:-11.9706,0,-25.2914 0/1:41:13,28:13:464:28:992:-77.2522,0,-29.7553 0/0:105:103,2:103:3684:2:72:0,-24.7714,-324.926 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.645 0/0:183:183,0:183:6568:0:0:0,-55.0885,-591.199 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0317 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7803 0/1:110:61,49:61:2176:49:1723:-122.239,0,-162.993 0/1:39:29,10:29:1036:10:356:-20.6411,0,-81.8137 0/0:73:73,0:73:2605:0:0:0,-21.9752,-234.697 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 chr09 1941767 . A T 25879.4 PASS AB=0.552664;ABP=22.4513;AC=31;AF=0.738095;AN=42;AO=1234;CIGAR=1X;DP=1597;DPB=1597;DPRA=0;EPP=2682.61;EPPR=789.083;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9708;MQMR=59.8702;NS=21;NUMALT=1;ODDS=7.68276;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44065;QR=12932;RO=362;RPL=1234;RPP=2682.61;RPPR=789.083;RPR=0;RUN=1;SAF=1234;SAP=2682.61;SAR=0;SRF=362;SRP=789.083;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:21,18:21:741:18:644:-46.5504,0,-55.2714 0/1:28:11,17:11:396:17:604:-46.2618,0,-27.5087 0/1:102:45,57:45:1605:57:2023:-151.637,0,-114.033 1/1:65:0,65:0:0:65:2336:-210.486,-19.567,0 0/1:148:72,76:72:2549:76:2717:-200.217,0,-185.105 0/1:36:17,19:17:608:19:679:-50.6019,0,-44.2149 0/1:126:58,68:58:2088:68:2406:-178.866,0,-150.198 0/1:120:43,77:43:1548:77:2750:-211.617,0,-103.489 1/1:176:0,176:0:0:176:6302:-567.271,-52.9813,0 1/1:20:0,20:0:0:20:712:-64.4067,-6.0206,0 0/1:14:5,9:5:165:9:324:-25.2914,0,-10.9592 0/1:42:29,13:29:1044:13:468:-29.8164,0,-81.6315 1/1:107:2,105:2:72:105:3759:-331.672,-25.3735,0 1/1:78:0,78:0:0:78:2761:-248.731,-23.4803,0 1/1:185:0,185:0:0:185:6639:-597.586,-55.6906,0 1/1:27:0,27:0:0:27:968:-87.4355,-8.12781,0 1/1:26:0,26:0:0:26:936:-84.5418,-7.82678,0 0/1:112:50,62:50:1796:62:2202:-164.729,0,-128.202 0/1:40:9,30:9:320:30:1064:-84.0104,0,-17.0787 1/1:74:0,74:0:0:74:2632:-237.125,-22.2762,0 1/1:32:0,32:0:0:32:1139:-102.818,-9.63296,0 chr09 2082670 . CTACA CTACG,GTACG 42451.7 PASS AB=0.578947,0.415682;ABP=53.4113,60.5018;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1583,389;CIGAR=4M1X,1X3M1X;DP=1983;DPB=1983;DPRA=0,0.911732;EPP=3440.45,847.713;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=2,2.58333;MQM=59.9261,53.4781;MQMR=60;NS=21;NUMALT=2;ODDS=13.0355;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56686,13739;QR=31;RO=1;RPL=1583,389;RPP=3440.45,847.713;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3440.45,847.713;SAR=1583,389;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,53,47:0:0:53,47:1892,1669:-289.998,-135.75,-119.795,-154.604,0,-140.455 1/2:45:0,26,19:0:0:26,19:928,668:-130.134,-54.4749,-46.6481,-76.0115,0,-70.2919 1/2:106:0,59,47:0:0:59,47:2108,1672:-307.48,-135.606,-117.846,-172.228,0,-158.08 1/1:82:0,82,0:0:0:82,0:2928,0:-263.755,-24.6845,0,-263.755,-24.6845,-263.755 1/2:191:0,113,76:0:0:113,76:4048,2630:-542.308,-212.166,-178.15,-330.17,0,-307.292 1/2:67:0,38,29:0:0:38,29:1368,1031:-195.776,-84.1507,-72.7116,-111.982,0,-103.252 1/2:132:0,87,45:0:0:87,45:3120,1592:-384.15,-129.67,-103.48,-254.835,0,-241.289 1/2:94:0,47,45:0:0:47,45:1680,1597:-266.651,-129.858,-115.709,-136.793,0,-123.246 1/1:245:0,243,0:0:0:243,0:8708,0:-783.347,-73.1503,0,-783.347,-73.1503,-783.347 1/1:20:0,20,0:0:0:20,0:716,0:-64.7677,-6.0206,0,-64.7677,-6.0206,-64.7677 1/2:5:0,4,1:0:0:4,1:144,36:-15.0386,-3.2882,-2.08408,-12.1095,0,-11.8085 1/2:17:0,6,11:0:0:6,11:216,389:-49.6152,-31.9883,-30.1821,-17.9843,0,-14.673 1/1:162:0,161,0:0:0:161,0:5780,0:-519.897,-48.4658,0,-519.897,-48.4658,-519.897 1/1:130:0,130,0:0:0:130,0:4652,0:-418.211,-39.1339,0,-418.211,-39.1339,-418.211 1/1:90:0,90,0:0:0:90,0:3232,0:-291.101,-27.0927,0,-291.101,-27.0927,-291.101 1/1:66:0,66,0:0:0:66,0:2368,0:-213.378,-19.868,0,-213.378,-19.868,-213.378 1/1:45:0,45,0:0:0:45,0:1612,0:-145.37,-13.5464,0,-145.37,-13.5464,-145.37 1/2:80:0,39,40:0:0:39,40:1384,1434:-229.15,-116.404,-104.664,-112.749,0,-100.708 1/2:94:0,67,27:0:0:67,27:2400,949:-273.272,-77.5374,-57.3684,-196.087,0,-187.96 1/1:157:0,153,2:0:0:153,2:5471,72:-492.158,-46.0576,0,-486.293,-40.1922,-485.691 1/1:55:1,54,0:1:31:54,0:1931,0:-170.962,-13.4572,0,-171.263,-16.2556,-173.75 chr09 2082682 . C T 5795.68 PASS AB=0.411135;ABP=67.0757;AC=11;AF=0.261905;AN=42;AO=386;CIGAR=1X;DP=1975;DPB=1975;DPRA=0.918074;EPP=841.199;EPPR=3451.31;GTI=1;LEN=1;MEANALT=1.08333;MQM=53.487;MQMR=59.9225;NS=21;NUMALT=1;ODDS=13.4714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13782;QR=56588;RO=1588;RPL=386;RPP=841.199;RPPR=3451.31;RPR=0;RUN=1;SAF=0;SAP=841.199;SAR=386;SRF=0;SRP=3451.31;SRR=1588;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:53,46:53:1893:46:1652:-118.573,0,-140.844 0/1:46:27,19:27:972:19:654:-45.1273,0,-73.9505 0/1:106:60,46:60:2140:46:1648:-116.213,0,-160.959 0/0:82:82,0:82:2948:0:0:0,-24.6845,-265.553 0/1:193:118,75:118:4209:75:2659:-178.356,0,-320.874 0/1:68:39,29:39:1400:29:1036:-72.8511,0,-105.829 0/1:134:89,45:89:3162:45:1620:-105.351,0,-244.464 0/1:94:48,46:48:1701:46:1652:-120.271,0,-124.887 0/0:243:243,0:243:8637:0:0:0,-73.1503,-777.317 0/0:20:20,0:20:675:0:0:0,-6.0206,-61.0608 0/1:5:4,1:4:144:1:36:-2.08408,0,-11.8085 0/1:17:6,11:6:216:11:381:-29.453,0,-14.673 0/0:160:160,0:160:5733:0:0:0,-48.1648,-516.079 0/0:129:129,0:129:4628:0:0:0,-38.8329,-416.051 0/0:90:90,0:90:3183:0:0:0,-27.0927,-286.691 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.14 0/0:43:43,0:43:1491:0:0:0,-12.9443,-134.477 0/1:79:39,40:39:1381:40:1436:-105.113,0,-100.786 0/1:93:67,26:67:2385:26:936:-56.5004,0,-186.91 0/0:153:150,2:150:5365:2:72:0,-39.2892,-476.154 0/0:56:56,0:56:1993:0:0:0,-16.8577,-179.638 chr09 2111306 . C T 48826.6 PASS AB=0.646473;ABP=938.111;AC=21;AF=0.5;AN=42;AO=3244;CIGAR=1X;DP=5018;DPB=5018;DPRA=0;EPP=7047.27;EPPR=3855.2;GTI=2;LEN=1;MEANALT=1;MQM=38.2155;MQMR=45.1821;NS=21;NUMALT=1;ODDS=28.4901;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=115967;QR=63422;RO=1774;RPL=0;RPP=7047.27;RPPR=3855.2;RPR=3244;RUN=1;SAF=3244;SAP=7047.27;SAR=0;SRF=1774;SRP=3855.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:296:99,197:99:3536:197:7045:-530.139,0,-225.405 0/1:185:67,118:67:2404:118:4217:-281.148,0,-154.602 0/1:403:73,330:73:2620:330:11807:-917.586,0,-112.063 0/1:254:100,154:100:3584:154:5482:-398.397,0,-242.168 0/1:368:121,247:121:4320:247:8806:-662.161,0,-273.858 0/1:222:76,146:76:2705:146:5222:-347.889,0,-169.537 0/1:309:122,187:122:4360:187:6692:-435.002,0,-286.623 0/1:163:70,93:70:2512:93:3309:-156.043,0,-174.144 0/1:436:175,261:175:6228:261:9348:-617.864,0,-423.176 0/1:21:8,13:8:284:13:468:-27.0078,0,-19.0452 0/1:7:3,4:3:108:4:144:-9.687,0,-7.63874 0/1:42:21,21:21:752:21:756:-40.276,0,-54.5602 0/1:271:69,202:69:2468:202:7240:-446.754,0,-138.666 0/1:161:65,96:65:2328:96:3417:-251.689,0,-157.695 0/1:310:98,212:98:3512:212:7554:-449.112,0,-216.963 0/1:436:148,288:148:5312:288:10306:-706.599,0,-341.855 0/1:191:52,139:52:1852:139:4953:-379.36,0,-104.998 0/1:423:203,220:203:7251:220:7900:-475.53,0,-515.418 0/1:203:69,134:69:2467:134:4800:-322.461,0,-158.193 0/1:170:62,108:62:2228:108:3849:-282.822,0,-146.378 0/1:147:73,74:73:2591:74:2652:-164.984,0,-178.097 chr09 2111311 . G A 2402.83 PASS AB=0.292714;ABP=878.935;AC=9;AF=0.214286;AN=42;AO=695;CIGAR=1X;DP=5111;DPB=5111;DPRA=1.57091;EPP=1512.18;EPPR=9587.89;GTI=5;LEN=1;MEANALT=1.07143;MQM=25.4763;MQMR=43.1579;NS=21;NUMALT=1;ODDS=7.17713;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24873;QR=157793;RO=4414;RPL=0;RPP=1512.18;RPPR=9587.89;RPR=695;RUN=1;SAF=695;SAP=1512.18;SAR=0;SRF=4414;SRP=9587.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:303:303,0:303:10831:0:0:0,-91.2121,-955.34 0/0:187:187,0:187:6704:0:0:0,-56.2926,-553.276 0/0:416:415,1:415:14817:1:36:0,-122.762,-1304.71 0/0:257:256,1:256:9085:1:36:0,-73.7701,-790.833 0/0:377:376,1:376:13420:1:36:0,-111.021,-1180.8 0/0:218:218,0:218:7779:0:0:0,-65.6245,-638.921 0/0:307:304,3:304:10878:3:108:0,-87.1199,-891.087 0/1:166:71,95:71:2548:95:3401:-159.786,0,-176.504 0/1:445:357,88:357:12775:88:3160:-63.7341,0,-998.39 0/1:21:13,8:13:468:8:288:-11.6868,0,-35.0017 0/0:7:7,0:7:252:0:0:0,-2.10721,-21.2046 0/1:43:30,13:30:1076:13:468:-15.7263,0,-81.9021 0/1:278:159,119:159:5705:119:4257:-180.931,0,-420.194 0/0:168:167,0:167:5973:0:0:0,-50.272,-525.414 0/1:315:176,139:176:6282:139:4945:-218.401,0,-460.31 0/1:450:372,78:372:13280:78:2793:-41.4469,0,-1036.5 0/0:200:200,0:200:7176:0:0:0,-60.206,-631.67 0/1:427:325,102:325:11673:102:3657:-102.462,0,-899.411 0/1:202:157,45:157:5602:45:1616:-40.8086,0,-434.996 0/0:173:170,2:170:6078:2:72:0,-47.9292,-529.236 0/0:151:151,0:151:5391:0:0:0,-45.4555,-444.678 chr09 2111327 . C T 53580.1 PASS AB=0.529126;ABP=39.4404;AC=20;AF=0.47619;AN=42;AO=2616;CIGAR=1X;DP=5109;DPB=5109;DPRA=1.49818;EPP=1900.68;EPPR=2450.74;GTI=0;LEN=1;MEANALT=1.25;MQM=41.7576;MQMR=39.6702;NS=21;NUMALT=1;ODDS=26.8351;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93729;QR=88473;RO=2486;RPL=2064;RPP=1900.68;RPPR=2450.74;RPR=552;RUN=1;SAF=2616;SAP=5683.58;SAR=0;SRF=2486;SRP=5401.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:299:98,201:98:3495:201:7215:-543.977,0,-220.876 0/1:184:65,119:65:2318:119:4267:-285.609,0,-147.396 0/1:415:76,339:76:2719:339:12127:-943.841,0,-116.062 0/1:256:97,159:97:3428:159:5668:-413.606,0,-228.127 0/1:373:122,251:122:4352:251:9020:-679.745,0,-274.248 0/1:220:73,145:73:2594:145:5187:-346.114,0,-160.551 0/1:310:125,184:125:4423:184:6588:-429.728,0,-288.514 0/0:165:165,0:165:5861:0:0:0,-49.6699,-433.058 0/1:446:264,180:264:9395:180:6463:-437.158,0,-620.23 0/1:22:16,5:16:559:5:180:-9.07169,0,-35.9108 0/1:7:3,4:3:108:4:144:-9.687,0,-7.63874 0/1:42:35,7:35:1244:7:252:-9.45252,0,-85.9917 0/1:282:196,86:196:6996:86:3087:-186.131,0,-424.232 0/1:167:65,102:65:2324:102:3649:-270.469,0,-155.57 0/1:317:240,77:240:8559:77:2764:-147.885,0,-534.808 0/1:452:233,219:233:8293:219:7835:-552.594,0,-531.627 0/1:199:52,147:52:1851:147:5261:-403.902,0,-102.488 0/1:430:308,121:308:10932:121:4339:-249.004,0,-749.106 0/1:202:115,87:115:4100:87:3115:-214.041,0,-262.041 0/1:174:65,109:65:2328:109:3908:-289.803,0,-151.638 0/1:147:73,74:73:2594:74:2660:-167.539,0,-177.68 chr09 2111403 . G A 12263 PASS AB=0.567474;ABP=94.4376;AC=22;AF=0.52381;AN=42;AO=1320;CIGAR=1X;DP=2321;DPB=2321;DPRA=0;EPP=2869.35;EPPR=2176.65;GTI=2;LEN=1;MEANALT=1;MQM=26.9712;MQMR=25.2907;NS=21;NUMALT=1;ODDS=0.205314;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47296;QR=35687;RO=1001;RPL=0;RPP=2869.35;RPPR=2176.65;RPR=1320;RUN=1;SAF=0;SAP=2869.35;SAR=1320;SRF=0;SRP=2176.65;SRR=1001;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:49,73:49:1751:73:2619:-137.328,0,-74.9507 0/1:93:32,61:32:1152:61:2188:-116.283,0,-41.7491 0/1:70:37,33:37:1328:33:1170:-57.1577,0,-62.5613 0/1:129:60,69:60:2156:69:2480:-125.536,0,-100.055 0/1:208:80,128:80:2826:128:4583:-242.301,0,-117.138 0/1:63:22,41:22:773:41:1476:-79.0333,0,-27.9164 0/1:144:54,90:54:1944:90:3236:-171.392,0,-72.4468 0/1:116:42,74:42:1485:74:2660:-141.681,0,-52.0889 0/1:164:74,90:74:2633:90:3236:-165.291,0,-114.13 0/1:27:17,10:17:608:10:351:-15.7477,0,-27.0178 1/1:9:1,8:1:36:8:288:-16.9612,-0.33574,0 0/1:37:12,25:12:428:25:896:-48.5778,0,-13.7602 0/1:200:101,99:101:3584:99:3536:-175.02,0,-169.399 0/1:115:48,67:48:1720:67:2400:-125.174,0,-74.6092 0/1:215:109,106:109:3870:106:3795:-187.393,0,-183.753 0/1:109:39,70:39:1381:70:2508:-134.131,0,-54.2008 0/1:109:49,60:49:1752:60:2160:-110.477,0,-77.4245 0/1:94:23,71:23:820:71:2533:-140.181,0,-19.3904 0/1:126:56,70:56:2003:70:2504:-128.801,0,-91.9942 0/1:108:64,44:64:2304:44:1565:-71.9245,0,-100.744 0/1:63:32,31:32:1133:31:1112:-55.1347,0,-49.1912 chr09 2111410 . A G 12272.6 PASS AB=0.564807;ABP=88.009;AC=22;AF=0.52381;AN=42;AO=1324;CIGAR=1X;DP=2339;DPB=2339;DPRA=0;EPP=2878.04;EPPR=2131.6;GTI=1;LEN=1;MEANALT=1.14286;MQM=26.9826;MQMR=25.2045;NS=21;NUMALT=1;ODDS=1.05174;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47394;QR=36319;RO=1012;RPL=0;RPP=2878.04;RPPR=2131.6;RPR=1324;RUN=1;SAF=0;SAP=2878.04;SAR=1324;SRF=0;SRP=2200.54;SRR=1012;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:50,73:50:1796:73:2619:-136.779,0,-77.1607 0/1:93:32,60:32:1152:60:2145:-113.476,0,-41.786 0/1:72:39,33:39:1404:33:1165:-56.5491,0,-66.4484 0/1:130:61,69:61:2192:69:2480:-125.224,0,-101.95 0/1:207:79,128:79:2844:128:4584:-242.704,0,-116.236 0/1:62:21,41:21:756:41:1459:-78.9872,0,-26.7613 0/1:147:54,93:54:1940:93:3336:-177.518,0,-71.5102 0/1:118:44,73:44:1571:73:2620:-138.67,0,-56.0962 0/1:164:73,90:73:2608:90:3227:-165.129,0,-112.633 0/1:28:18,10:18:640:10:360:-15.6734,0,-28.6474 1/1:9:1,8:1:36:8:288:-16.9612,-0.33574,0 0/1:36:12,24:12:428:24:864:-46.5563,0,-14.0612 0/1:203:102,101:102:3664:101:3607:-179.233,0,-171.684 0/1:117:49,68:49:1760:68:2440:-127.017,0,-76.3604 0/1:218:112,106:112:4020:106:3808:-186.775,0,-189.187 0/1:109:40,69:40:1436:69:2461:-131.227,0,-57.7959 0/1:107:48,59:48:1720:59:2100:-108.329,0,-74.8117 0/1:95:23,72:23:824:72:2568:-142.612,0,-19.1166 0/1:128:56,72:56:2012:72:2575:-133.623,0,-89.4905 0/1:111:66,45:66:2364:45:1612:-73.9155,0,-103.595 0/1:62:32,30:32:1152:30:1076:-53.052,0,-49.9312 chr09 2111434 . CCTT ACTG,CCTG 25215.7 PASS AB=0.570685,0.426279;ABP=103.086,111.866;AC=22,20;AF=0.52381,0.47619;AN=42;AO=1324,984;CIGAR=1X2M1X,3M1X;DP=2315;DPB=2315;DPRA=0,0;EPP=2878.04,2139.74;EPPR=0;GTI=2;LEN=4,1;MEANALT=2.2381,2.2381;MQM=26.9932,25.2835;MQMR=0;NS=21;NUMALT=2;ODDS=2.43398;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46895,35200;QR=0;RO=0;RPL=1324,984;RPP=2878.04,2139.74;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2878.04,2139.74;SAR=1324,984;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,74,49:0:0:74,49:2642,1764:-250.567,-97.1676,-74.8914,-153.657,0,-138.907 1/2:92:0,60,32:0:0:60,32:2143,1148:-183.805,-59.5543,-41.4925,-124.498,0,-114.866 1/2:72:0,33,39:0:0:33,39:1185,1404:-145.083,-76.3824,-66.4484,-68.9583,0,-57.2181 1/2:124:0,65,59:0:0:65,59:2296,2104:-252.918,-118.386,-98.819,-134.792,0,-117.031 1/2:206:0,129,75:0:0:129,75:4553,2665:-413.533,-146.607,-107.774,-266.92,0,-244.343 1/2:63:0,41,22:0:0:41,22:1447,788:-125.83,-40.8649,-28.5227,-85.213,0,-78.5903 1/2:149:0,94,54:0:0:94,54:3345,1936:-294.519,-99.4879,-71.1911,-195.06,0,-178.804 1/2:117:0,76,41:0:0:76,41:2695,1472:-230.177,-73.1142,-50.2359,-157.305,0,-144.963 1/2:160:0,90,68:0:0:90,68:3188,2432:-316.066,-129.891,-102.798,-186.163,0,-165.693 1/2:28:0,10,18:0:0:10,18:358,644:-52.5158,-31.6978,-28.6875,-21.0694,0,-15.6509 1/1:9:0,8,1:0:0:8,1:283,36:-19.0214,-2.40824,0,-17.1892,-0.33574,-16.8882 1/2:35:0,24,11:0:0:24,11:859,392:-69.4877,-19.536,-12.3113,-50.1915,0,-46.8802 1/2:198:0,99,98:0:0:99,98:3479,3512:-399.649,-195.357,-165.555,-204.286,0,-174.786 1/2:113:0,67,46:0:0:67,46:2359,1648:-229.328,-91.0037,-70.8347,-138.581,0,-124.734 1/2:220:0,106,114:0:0:106,114:3741,4084:-444.747,-225.95,-194.041,-219.056,0,-184.738 1/2:107:0,70,37:0:0:70,37:2479,1320:-217.954,-72.8444,-51.7723,-145.365,0,-134.227 1/2:108:0,60,48:0:0:60,48:2124,1708:-216.87,-92.5187,-74.4569,-124.606,0,-110.156 1/2:95:0,71,23:0:0:71,23:2509,824:-187.389,-40.5274,-19.1542,-146.836,0,-139.912 1/2:122:0,71,51:0:0:71,51:2520,1824:-249.877,-101.899,-80.5257,-148.238,0,-132.885 1/2:111:0,45,66:0:0:45,66:1592,2352:-210.23,-117.059,-103.513,-93.4208,0,-73.5528 1/2:63:0,31,32:0:0:31,32:1098,1143:-123.084,-58.8271,-49.4952,-64.5075,0,-54.8746 chr09 2179265 . A C,G 27264.4 PASS AB=0.330084,0.662953;ABP=183.067,168.611;AC=27,15;AF=0.642857,0.357143;AN=42;AO=501,594;CIGAR=1X,1X;DP=1103;DPB=1103;DPRA=1.14891,1.85684;EPP=6.16999,536.461;EPPR=8.80089;GTI=2;LEN=1,1;MEANALT=1.75,2;MQM=60,59.9714;MQMR=58.6667;NS=21;NUMALT=2;ODDS=1.83041;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17576,20834;QR=216;RO=6;RPL=498,586;RPP=1065.02,1224.31;RPPR=16.0391;RPR=3,8;RUN=1,1;SAF=261,98;SAP=4.92172,582.084;SAR=240,496;SRF=1;SRP=8.80089;SRR=5;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:24:0,11,13:0:0:11,13:370,430:-65.0813,-35.1026,-31.7912,-30.3124,0,-26.399 1/2:33:0,19,14:0:0:19,14:663,483:-93.5102,-39.5829,-33.8633,-54.2739,0,-50.0595 1/2:15:0,9,6:0:0:9,6:324,216:-44.4211,-17.9843,-15.2751,-26.7966,0,-24.9904 1/2:18:0,12,6:0:0:12,6:432,212:-52.8721,-17.6186,-14.0063,-35.6088,0,-33.8027 1/2:55:0,25,30:0:0:25,30:880,1060:-158.32,-86.6804,-79.1546,-71.992,0,-62.9611 1/2:15:0,8,7:0:0:8,7:288,252:-44.4211,-20.9217,-18.5135,-23.8592,0,-21.752 1/2:35:0,22,13:0:0:22,13:773,468:-101.456,-38.5463,-31.9236,-63.2668,0,-59.3534 1/2:33:0,18,15:0:0:18,15:636,523:-94.6819,-42.883,-37.4645,-52.1495,0,-47.634 1/1:35:0,34,0:0:0:34,0:1203,0:-108.254,-10.235,0,-108.254,-10.235,-108.254 1/2:4:0,3,1:0:0:3,1:104,36:-11.7405,-3.29724,-2.39415,-8.79971,0,-8.49868 2/2:46:0,0,46:0:0:0,46:0,1623:-146.358,-146.358,-146.358,-13.8474,-13.8474,0 2/2:76:0,5,71:0:0:5,71:180,2498:-224.714,-210.027,-208.521,-21.3731,-6.32622,0 1/1:22:0,22,0:0:0:22,0:788,0:-71.2448,-6.62266,0,-71.2448,-6.62266,-71.2448 1/1:29:0,27,1:0:0:27,1:951,36:-85.545,-8.12781,0,-82.6073,-5.19039,-82.3063 1/1:42:0,42,0:0:0:42,0:1491,0:-134.484,-12.6433,0,-134.484,-12.6433,-134.484 1/1:19:0,19,0:0:0:19,0:671,0:-60.7158,-5.71957,0,-60.7158,-5.71957,-60.7158 1/1:17:0,17,0:0:0:17,0:608,0:-55.052,-5.11751,0,-55.052,-5.11751,-55.052 1/2:401:3,54,344:3:108:54,344:1882,12050:-1123.77,-971.623,-964.18,-144.227,0,-49.4856 1/2:85:2,56,27:2:72:56,27:1946,947:-228.787,-71.1862,-60.1993,-152.322,0,-150.065 1/1:19:0,19,0:0:0:19,0:659,0:-59.6323,-5.71957,0,-59.6323,-5.71957,-59.6323 1/1:80:1,79,0:1:36:79,0:2727,0:-242.072,-20.4841,0,-242.373,-23.7814,-245.311 chr09 2205795 . T C 22274.6 PASS AB=0.477477;ABP=6.92286;AC=30;AF=0.714286;AN=42;AO=1109;CIGAR=1X;DP=1576;DPB=1576;DPRA=0;EPP=2411.17;EPPR=1014.92;GTI=0;LEN=1;MEANALT=1.04762;MQM=45.6763;MQMR=51.0966;NS=21;NUMALT=1;ODDS=6.51993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39717;QR=16678;RO=466;RPL=0;RPP=2411.17;RPPR=1014.92;RPR=1109;RUN=1;SAF=1109;SAP=2411.17;SAR=0;SRF=466;SRP=1014.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:29,33:29:1044:33:1180:-84.8762,0,-74.9943 0/1:51:13,38:13:464:38:1364:-105.585,0,-26.6486 0/1:90:53,37:53:1904:37:1319:-89.3861,0,-143.312 0/1:82:45,37:45:1620:37:1328:-93.6567,0,-120.521 0/1:215:116,99:116:4160:99:3525:-248.758,0,-307.87 0/1:97:50,47:50:1792:47:1688:-120.523,0,-131.869 0/1:139:76,63:76:2697:63:2236:-155.315,0,-200.24 0/1:65:33,32:33:1165:32:1136:-81.3899,0,-84.9184 1/1:214:0,213:0:0:213:7640:-680.302,-64.1194,0 1/1:5:0,5:0:0:5:180:-16.2662,-1.50515,0 0/1:8:3,5:3:108:5:176:-13.5748,0,-7.63391 0/1:9:6,3:6:216:3:108:-7.19187,0,-17.038 1/1:51:0,51:0:0:51:1832:-162.113,-15.3525,0 1/1:49:0,49:0:0:49:1756:-154.55,-14.7505,0 1/1:133:0,133:0:0:133:4772:-422.091,-40.037,0 1/1:86:0,86:0:0:86:3088:-274.816,-25.8886,0 1/1:52:0,52:0:0:52:1872:-165.651,-15.6536,0 0/1:51:33,18:33:1184:18:648:-42.3141,0,-90.793 0/1:19:7,12:7:252:12:432:-33.0489,0,-17.2119 1/1:66:2,64:2:72:64:2285:-193.236,-13.0537,0 1/1:32:0,32:0:0:32:1152:-102.552,-9.63296,0 chr09 2205834 . ACAACTC AAAAG,AA 31806 PASS AB=0.50119,0.495238;ABP=3.02064,3.17575;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1108,418;CIGAR=1M1X2M2D1X,1M5D1X;DP=1531;DPB=915.429;DPRA=0,0.892062;EPP=2409,910.686;EPPR=0;GTI=0;LEN=5,2;MEANALT=1.85714,2.23077;MQM=45.519,49.9545;MQMR=0;NS=21;NUMALT=2;ODDS=8.51321;PAIRED=0,0;PAIREDR=0;PAO=2.66667,2.66667;PQA=48,48;PQR=48;PRO=2.66667;QA=39455,14971;QR=0;RO=0;RPL=1108,418;RPP=2409,910.686;RPPR=0;RPR=0,0;RUN=1,1;SAF=1108,418;SAP=2409,910.686;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,32,28:0:0:32,28:1142,1004:-171.814,-81.577,-71.944,-90.5389,0,-82.1101 1/2:45:0,36,9:0:0:36,9:1290,320:-129.537,-26.3428,-15.5057,-103.548,0,-100.838 1/2:82:0,37,45:0:0:37,45:1314,1620:-235.865,-131.296,-120.158,-104.921,0,-91.3745 1/2:75:0,37,37:0:0:37,37:1317,1324:-212.687,-106.778,-95.6397,-105.902,0,-94.7639 1/2:207:0,100,107:0:0:100,107:3564,3848:-598.363,-311.988,-281.885,-286.677,0,-254.467 1/2:93:0,47,46:0:0:47,46:1690,1641:-269.015,-133.646,-119.497,-135.723,0,-121.876 1/2:137:0,63,73:0:0:63,73:2256,2590:-389.768,-210.032,-191.067,-179.728,0,-157.753 1/2:62:0,31,31:0:0:31,31:1114,1112:-179.591,-90.3763,-81.0444,-89.5689,0,-80.237 1/1:213:0,212,0:0:0:212,0:7512,0:-669.22,-63.8184,0,-669.22,-63.8184,-669.22 1/1:5:0,5,0:0:0:5,0:179,0:-16.1856,-1.50515,0,-16.1856,-1.50515,-16.1856 1/2:8:0,5,3:0:0:5,3:176,108:-23.2625,-9.13906,-7.63391,-14.4779,0,-13.5748 1/2:7:0,3,4:0:0:3,4:108,144:-20.7081,-12.0659,-11.1628,-8.99805,0,-7.79393 1/1:52:0,52,0:0:0:52,0:1857,0:-164.335,-15.6536,0,-164.335,-15.6536,-164.335 1/1:50:0,50,0:0:0:50,0:1787,0:-157.332,-15.0515,0,-157.332,-15.0515,-157.332 1/1:131:0,130,0:0:0:130,0:4627,0:-408.821,-39.1339,0,-408.821,-39.1339,-408.821 1/1:88:0,88,0:0:0:88,0:3126,0:-278.388,-26.4906,0,-278.388,-26.4906,-278.388 1/1:53:0,53,0:0:0:53,0:1881,0:-166.534,-15.9546,0,-166.534,-15.9546,-166.534 1/2:45:0,18,26:0:0:18,26:636,936:-126.568,-75.6563,-70.2377,-50.9036,0,-43.0768 1/2:19:0,12,7:0:0:12,7:423,252:-54.8639,-20.8243,-17.2119,-34.3943,0,-32.2871 1/1:66:0,64,2:0:0:64,2:2269,72:-198.489,-19.2659,0,-192.635,-13.0801,-192.033 1/1:33:0,33,0:0:0:33,0:1187,0:-105.687,-9.93399,0,-105.687,-9.93399,-105.687 chr09 2205856 . TTT CTT,CTG 30826.3 PASS AB=0.485172,0.512456;ABP=4.62023,4.14627;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1083,434;CIGAR=1X2M,1X1M1X;DP=1523;DPB=1525.67;DPRA=0,0.90117;EPP=2354.71,945.429;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.90476,2.15385;MQM=45.5337,50.3456;MQMR=0;NS=21;NUMALT=2;ODDS=8.19985;PAIRED=0,0;PAIREDR=0;PAO=2.5,2.5;PQA=85.5,85.5;PQR=0;PRO=3;QA=38353,14782;QR=0;RO=0;RPL=1083,434;RPP=2354.71,945.429;RPPR=0;RPR=0,0;RUN=1,1;SAF=1083,434;SAP=2354.71,945.429;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,30,29:0:0:30,29:1061,1021:-167.192,-82.3315,-73.3006,-85.1345,0,-76.4046 1/2:46:0,37,9:0:0:37,9:1328,322:-132.921,-26.5222,-15.3841,-106.755,0,-104.045 1/2:83:0,35,47:0:0:35,47:1222,1567:-223.131,-125.893,-115.357,-97.2192,0,-83.0708 1/2:77:0,36,41:0:0:36,41:1284,1425:-218.576,-115.322,-104.485,-103.603,0,-91.2607 1/2:211:0,97,114:0:0:97,114:3473,3884:-592.785,-313.652,-284.452,-279.415,0,-245.098 1/2:93:0,47,46:0:0:47,46:1669,1627:-266.178,-132.426,-118.278,-134.103,0,-120.256 1/2:132:0,60,71:0:0:60,71:2136,2336:-359.113,-188.31,-170.248,-170.985,0,-149.611 1/2:62:0,30,32:0:0:30,32:1056,1070:-170.895,-86.4874,-77.4565,-84.7469,0,-75.114 1/1:210:0,208,0:0:0:208,0:7333,0:-653.483,-62.6142,0,-653.483,-62.6142,-653.483 1/1:5:0,5,0:0:0:5,0:180,0:-16.2662,-1.50515,0,-16.2662,-1.50515,-16.2662 1/2:8:0,5,3:0:0:5,3:171,103:-22.3715,-8.68098,-7.17583,-14.0311,0,-13.128 1/2:9:0,3,6:0:0:3,6:108,210:-26.0506,-17.4047,-16.5016,-8.99805,0,-7.19187 1/1:51:0,51,0:0:0:51,0:1797,0:-159.554,-15.3525,0,-159.554,-15.3525,-159.554 1/1:49:0,49,0:0:0:49,0:1720,0:-152.167,-14.7505,0,-152.167,-14.7505,-152.167 1/1:129:0,128,0:0:0:128,0:4527,0:-401.357,-38.5318,0,-401.357,-38.5318,-401.357 1/1:89:0,89,0:0:0:89,0:3148,0:-280.613,-26.7917,0,-280.613,-26.7917,-280.613 1/1:52:0,51,0:0:0:51,0:1813,0:-161.144,-15.3525,0,-161.144,-15.3525,-161.144 1/2:44:0,17,27:0:0:17,27:589,898:-119.606,-72.5652,-67.4477,-47.3221,0,-39.1943 1/2:19:0,12,7:0:0:12,7:428,247:-54.8553,-20.3805,-16.7681,-34.8267,0,-32.7195 1/1:62:0,60,2:0:0:60,2:2126,72:-186.973,-18.0618,0,-181.119,-11.8495,-180.517 1/1:33:0,33,0:0:0:33,0:1184,0:-105.434,-9.93399,0,-105.434,-9.93399,-105.434 chr09 2207206 . C G 14825.8 PASS AB=0.436012;ABP=26.9094;AC=28;AF=0.666667;AN=42;AO=737;CIGAR=1X;DP=1124;DPB=1124;DPRA=9.31667;EPP=1603.39;EPPR=841.199;GTI=1;LEN=1;MEANALT=1.05;MQM=59.962;MQMR=59.9845;NS=21;NUMALT=1;ODDS=0.861427;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26348;QR=13840;RO=386;RPL=0;RPP=1603.39;RPPR=841.199;RPR=737;RUN=1;SAF=737;SAP=1603.39;SAR=0;SRF=386;SRP=841.199;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:62,14:62:2228:14:504:-22.8198,0,-177.906 0/1:39:29,10:29:1036:10:360:-21.0041,0,-81.8137 0/1:44:16,28:16:576:28:1004:-77.4305,0,-38.9297 0/1:74:42,32:42:1504:32:1148:-81.3536,0,-113.378 0/1:113:74,39:74:2656:39:1373:-89.8502,0,-205.265 0/1:35:18,17:18:648:17:608:-44.516,0,-48.1158 0/1:72:51,21:51:1828:21:756:-46.6931,0,-143.127 0/1:78:38,40:38:1364:40:1432:-105.697,0,-99.5804 1/1:74:0,74:0:0:74:2637:-237.562,-22.2762,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:13:6,7:6:212:7:248:-18.7508,0,-15.5114 1/1:94:0,94:0:0:94:3376:-304.055,-28.2968,0 1/1:48:0,48:0:0:48:1716:-154.726,-14.4494,0 1/1:83:0,82:0:0:82:2936:-264.154,-24.6845,0 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 1/1:20:0,20:0:0:20:693:-62.6905,-6.0206,0 0/1:40:18,22:18:640:22:792:-59.5645,0,-45.8881 0/1:77:23,54:23:824:54:1925:-150.346,0,-51.304 1/1:90:1,89:1:36:89:3192:-283.905,-23.4944,0 1/1:33:0,33:0:0:33:1180:-106.471,-9.93399,0 chr09 2207245 . T C 6627.14 PASS AB=0.559942;ABP=24.3568;AC=14;AF=0.333333;AN=42;AO=390;CIGAR=1X;DP=1139;DPB=1139;DPRA=1.08194;EPP=849.885;EPPR=1629.44;GTI=1;LEN=1;MEANALT=1;MQM=59.9846;MQMR=59.9866;NS=21;NUMALT=1;ODDS=0.98609;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13810;QR=26745;RO=749;RPL=390;RPP=849.885;RPPR=1629.44;RPR=0;RUN=1;SAF=390;SAP=849.885;SAR=0;SRF=749;SRP=1629.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:14,62:14:504:62:2201:-175.476,0,-22.8198 0/1:40:11,29:11:396:29:1018:-79.8892,0,-23.9415 0/1:44:28,16:28:1000:16:576:-38.9297,0,-77.0701 0/1:73:30,43:30:1076:43:1525:-115.567,0,-75.1777 0/1:112:39,73:39:1362:73:2581:-198.819,0,-89.1587 0/1:37:18,19:18:639:19:680:-50.3911,0,-46.7001 0/1:76:23,53:23:820:53:1868:-145.518,0,-51.2442 0/1:79:39,40:39:1392:40:1419:-104.225,0,-101.798 0/0:77:77,0:77:2764:0:0:0,-23.1793,-248.996 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:13:7,6:7:252:6:208:-15.1457,0,-19.1156 0/0:98:98,0:98:3520:0:0:0,-29.5009,-317.009 0/0:48:48,0:48:1712:0:0:0,-14.4494,-154.366 0/0:83:83,0:83:2975:0:0:0,-24.9855,-267.982 0/1:11:9,2:9:311:2:72:-3.52539,0,-25.0124 0/0:19:19,0:19:671:0:0:0,-5.71957,-60.7158 0/1:43:25,18:25:887:18:648:-45.7076,0,-67.2038 0/1:80:58,22:58:2062:22:762:-44.8135,0,-161.767 0/0:89:88,1:88:3155:1:36:0,-23.1934,-280.576 0/0:31:31,0:31:1103:0:0:0,-9.33193,-99.5798 chr09 2208064 . C T 15408 PASS AB=0.54698;ABP=14.436;AC=30;AF=0.714286;AN=42;AO=755;CIGAR=1X;DP=1029;DPB=1029;DPRA=0;EPP=1642.47;EPPR=597.994;GTI=0;LEN=1;MEANALT=1;MQM=59.657;MQMR=59.8832;NS=21;NUMALT=1;ODDS=4.9657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26957;QR=9793;RO=274;RPL=0;RPP=1642.47;RPPR=597.994;RPR=755;RUN=1;SAF=0;SAP=1642.47;SAR=755;SRF=0;SRP=597.994;SRR=274;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:25,33:25:892:33:1184:-89.4039,0,-63.1399 0/1:25:15,10:15:540:10:341:-23.492,0,-41.4108 0/1:40:33,7:33:1184:7:252:-10.9854,0,-94.8189 0/1:28:10,18:10:356:18:644:-49.8546,0,-23.9524 0/1:83:34,49:34:1224:49:1752:-132.976,0,-85.4816 0/1:25:15,10:15:540:10:360:-25.2186,0,-41.4108 0/1:81:31,50:31:1112:50:1757:-133.972,0,-76.0079 0/1:99:35,64:35:1256:64:2296:-177.085,0,-83.3527 1/1:82:0,82:0:0:82:2932:-264.112,-24.6845,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:8:3,5:3:108:5:176:-13.7768,0,-7.66693 1/1:45:0,45:0:0:45:1616:-145.723,-13.5464,0 1/1:60:0,60:0:0:60:2156:-194.265,-18.0618,0 1/1:95:3,92:3:108:92:3278:-285.096,-18.5231,0 1/1:40:0,40:0:0:40:1432:-129.177,-12.0412,0 1/1:50:0,50:0:0:50:1796:-161.92,-15.0515,0 0/1:97:49,48:49:1730:48:1715:-125.418,0,-126.783 0/1:48:18,30:18:639:30:1071:-82.2474,0,-43.3888 1/1:21:1,20:1:32:20:712:-61.2055,-3.12232,0 1/1:31:0,31:0:0:31:1091:-98.2691,-9.33193,0 chr09 2208070 . C G 15125.8 PASS AB=0.556667;ABP=19.7451;AC=30;AF=0.714286;AN=42;AO=758;CIGAR=1X;DP=1029;DPB=1029;DPRA=0;EPP=1648.99;EPPR=589.308;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.6372;MQMR=59.9704;NS=21;NUMALT=1;ODDS=2.46779;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26700;QR=9607;RO=270;RPL=0;RPP=1648.99;RPPR=589.308;RPR=758;RUN=1;SAF=0;SAP=1648.99;SAR=758;SRF=0;SRP=589.308;SRR=270;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:25,35:25:883:35:1225:-92.4866,0,-61.7257 0/1:25:14,11:14:504:11:388:-27.7316,0,-38.1723 0/1:41:32,9:32:1144:9:315:-16.296,0,-90.924 0/1:27:9,18:9:315:18:636:-49.4226,0,-20.5594 0/1:85:34,51:34:1220:51:1813:-137.86,0,-84.5193 0/1:26:16,10:16:563:10:356:-24.5462,0,-43.1724 0/1:81:31,50:31:1112:50:1770:-135.171,0,-76.0079 0/1:97:34,63:34:1216:63:2214:-170.311,0,-80.5467 1/1:85:0,85:0:0:85:3033:-273.196,-25.5876,0 1/1:9:0,9:0:0:9:293:-26.6865,-2.70927,0 0/1:4:2,2:2:68:2:72:-5.6326,0,-5.25359 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 1/1:43:0,42:0:0:42:1467:-131.952,-12.6433,0 1/1:59:0,59:0:0:59:2111:-190.244,-17.7608,0 1/1:93:2,91:2:72:91:3199:-281.234,-21.1591,0 1/1:41:0,41:0:0:41:1442:-130.074,-12.3422,0 1/1:51:0,51:0:0:51:1808:-162.946,-15.3525,0 0/1:99:49,50:49:1726:50:1743:-127.303,0,-125.821 0/1:48:18,30:18:640:30:1035:-79.0041,0,-43.4799 1/1:21:1,20:1:36:20:698:-59.5386,-2.72336,0 1/1:27:1,26:1:36:26:902:-77.8946,-4.52954,0 chr09 2208100 . GTCC GTCT,ATCT 22064.8 PASS AB=0.557003,0.439739;ABP=20.3396,22.3767;AC=30,12;AF=0.714286,0.285714;AN=42;AO=777,274;CIGAR=3M1X,1X2M1X;DP=1054;DPB=1054;DPRA=0,1.13665;EPP=1690.24,597.994;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.7619,2.14286;MQM=59.5997,59.8832;MQMR=60;NS=21;NUMALT=2;ODDS=4.28681;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27731,9695;QR=36;RO=1;RPL=777,274;RPP=1690.24,597.994;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1690.24,597.994;SAR=777,274;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:62:0,37,25:0:0:37,25:1328,871:-179.502,-71.179,-60.0409,-108.675,0,-101.15 1/2:27:0,12,15:0:0:12,15:424,540:-78.949,-44.4211,-40.8087,-34.8841,0,-30.3686 1/2:39:0,6,33:0:0:6,33:212,1173:-113.204,-95.941,-94.1348,-17.6162,0,-7.68225 1/2:30:0,20,9:0:0:20,9:716,296:-82.4386,-24.0291,-18.0085,-58.5229,0,-55.8137 1/2:84:0,50,34:0:0:50,34:1796,1214:-245.842,-99.3315,-84.28,-146.868,0,-136.633 1/2:27:0,11,16:0:0:11,16:396,561:-78.3099,-46.0027,-42.6914,-32.6632,0,-27.8467 1/2:82:0,51,31:0:0:51,31:1801,1108:-237.325,-90.6988,-75.3462,-146.982,0,-137.65 1/2:102:0,66,36:0:0:66,36:2341,1260:-293.391,-102.674,-82.8064,-191.068,0,-180.231 1/1:86:0,86,0:0:0:86,0:3080,0:-277.425,-25.8886,0,-277.425,-25.8886,-277.425 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:8:0,5,3:0:0:5,3:180,101:-23.2217,-8.52004,-7.01489,-15.0469,0,-14.1438 1/1:46:0,46,0:0:0:46,0:1633,0:-147.253,-13.8474,0,-147.253,-13.8474,-147.253 1/1:59:0,59,0:0:0:59,0:2116,0:-190.671,-17.7608,0,-190.671,-17.7608,-190.671 1/1:97:0,94,3:0:0:94,3:3360,104:-302.205,-28.2968,0,-293.752,-19.4973,-292.849 1/1:40:0,40,0:0:0:40,0:1425,0:-128.545,-12.0412,0,-128.545,-12.0412,-128.545 1/1:51:0,51,0:0:0:51,0:1815,0:-163.574,-15.3525,0,-163.574,-15.3525,-163.574 1/2:99:0,50,49:0:0:50,49:1788,1750:-288.708,-143.034,-127.982,-146.031,0,-131.281 1/2:50:0,32,17:0:0:32,17:1143,609:-142.849,-49.6654,-40.0324,-93.1812,0,-88.0637 1/1:21:0,20,1:0:0:20,1:705,36:-63.4087,-6.0206,0,-60.4709,-2.72336,-60.1699 1/1:31:1,30,0:1:36:30,0:1076,0:-93.3187,-5.73366,0,-93.6197,-9.0309,-96.5572 chr09 2257056 . CACC CACT,TACT 32553.9 PASS AB=0.507883,0.490991;ABP=3.48959,3.63631;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1103,438;CIGAR=3M1X,1X2M1X;DP=1544;DPB=1544;DPRA=0,1.06911;EPP=2398.14,954.115;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.80952,2.07143;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.5516;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39307,15527;QR=0;RO=0;RPL=1103,438;RPP=2398.14,954.115;RPPR=0;RPR=0,0;RUN=1,1;SAF=1103,438;SAP=2398.14,954.115;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,50,58:0:0:50,58:1759,2040:-309.598,-166.411,-151.36,-143.539,0,-126.079 1/2:62:0,29,33:0:0:29,33:1029,1176:-180.049,-96.2127,-87.4828,-84.1913,0,-74.2573 1/2:65:0,31,34:0:0:31,34:1116,1191:-188.322,-97.2579,-87.9259,-91.4198,0,-81.1847 1/2:47:0,23,23:0:0:23,23:828,808:-133.428,-65.8615,-58.9378,-67.6659,0,-60.7422 1/2:150:0,64,86:0:0:64,86:2285,3074:-437.288,-251,-231.734,-186.645,0,-160.757 1/2:67:0,37,30:0:0:37,30:1319,1042:-192.578,-85.0561,-73.918,-107.873,0,-98.8422 1/2:114:0,61,53:0:0:61,53:2170,1883:-330.641,-153.794,-135.431,-177.203,0,-161.248 1/2:89:0,43,46:0:0:43,46:1535,1637:-258.913,-133.772,-120.827,-125.498,0,-111.651 1/1:113:0,112,0:0:0:112,0:3988,0:-358.75,-33.7154,0,-358.75,-33.7154,-358.75 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/2:23:0,8,15:0:0:8,15:288,533:-67.2889,-43.7879,-41.3797,-23.8592,0,-19.3437 1/1:79:0,78,0:0:0:78,0:2791,0:-251.07,-23.4803,0,-251.07,-23.4803,-251.07 1/1:48:0,48,0:0:0:48,0:1711,0:-154.275,-14.4494,0,-154.275,-14.4494,-154.275 1/1:148:0,148,0:0:0:148,0:5285,0:-475.785,-44.5524,0,-475.785,-44.5524,-475.785 1/1:67:0,66,1:0:0:66,1:2358,36:-212.118,-19.868,0,-209.181,-16.5707,-208.88 1/1:37:0,37,0:0:0:37,0:1332,0:-120.182,-11.1381,0,-120.182,-11.1381,-120.182 1/2:85:0,49,36:0:0:49,36:1737,1290:-247.073,-105.567,-90.8166,-141.863,0,-131.026 1/2:74:0,53,21:0:0:53,21:1889,745:-215.03,-61.0529,-45.0984,-154.332,0,-148.01 1/1:97:0,96,1:0:0:96,1:3428,36:-308.375,-28.8989,0,-305.437,-25.6016,-305.136 1/1:59:0,59,0:0:0:59,0:2063,0:-185.939,-17.7608,0,-185.939,-17.7608,-185.939 chr09 2289479 . C T 29857.5 PASS AB=0.488316;ABP=4.48186;AC=30;AF=0.714286;AN=42;AO=1464;CIGAR=1X;DP=2103;DPB=2103;DPRA=0;EPP=3182.05;EPPR=1388.41;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.929;MQMR=59.9843;NS=21;NUMALT=1;ODDS=6.49188;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52299;QR=22857;RO=638;RPL=0;RPP=3182.05;RPPR=1388.41;RPR=1464;RUN=1;SAF=1464;SAP=3182.05;SAR=0;SRF=638;SRP=1388.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:70,67:70:2512:67:2377:-172.945,0,-185.091 0/1:89:43,46:43:1532:46:1640:-121.097,0,-111.381 0/1:96:47,49:47:1688:49:1752:-129.065,0,-123.308 0/1:76:42,33:42:1500:33:1180:-83.7132,0,-112.504 0/1:165:90,75:90:3213:75:2687:-192.405,0,-239.721 0/1:59:34,25:34:1224:25:892:-62.8384,0,-92.7063 0/1:115:52,63:52:1868:63:2237:-166.971,0,-133.781 0/1:221:124,97:124:4445:97:3472:-246.161,0,-333.677 1/1:152:0,152:0:0:152:5413:-487.267,-45.7566,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:50:34,16:34:1220:16:572:-36.7619,0,-95.0553 1/1:112:0,112:0:0:112:3974:-357.851,-33.7154,0 1/1:100:0,100:0:0:100:3545:-319.26,-30.103,0 1/1:190:0,190:0:0:190:6804:-612.431,-57.1957,0 1/1:79:0,79:0:0:79:2828:-254.741,-23.7814,0 1/1:40:0,40:0:0:40:1440:-129.74,-12.0412,0 0/1:146:73,73:73:2620:73:2618:-191.917,0,-192.097 0/1:81:24,57:24:855:57:2040:-159.444,0,-52.8867 1/1:112:2,110:2:72:110:3948:-348.671,-26.8786,0 1/1:53:2,51:2:72:51:1836:-158.684,-9.11787,0 chr09 2289524 . AGGCGGCGGT AGGCGGT,AGGCGGTGGT 77060.8 PASS AB=0.501969,0.494584;ABP=3.14715,4.04525;AC=21,21;AF=0.5,0.5;AN=42;AO=2039,2009;CIGAR=1M3D6M,6M1X3M;DP=4062;DPB=3448.3;DPRA=0,0;EPP=4430.64,4365.5;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=2.61905,2.61905;MQM=59.9917,59.9587;MQMR=60;NS=21;NUMALT=2;ODDS=46.7923;PAIRED=0,0;PAIREDR=0;PAO=0.666667,0.666667;PQA=19,19;PQR=19;PRO=0.666667;QA=68591,71394;QR=36;RO=1;RPL=1,2009;RPP=4421.96,4365.5;RPPR=5.18177;RPR=2038,0;RUN=1,1;SAF=1,2009;SAP=4421.96,4365.5;SAR=2038,0;SRF=1;SRP=5.18177;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:236:0,104,129:0:0:104,129:3466,4571:-652.888,-372.374,-341.067,-280.52,0,-241.687 1/2:170:0,89,80:0:0:89,80:2970,2838:-471.62,-231.217,-204.425,-240.389,0,-216.306 1/2:161:0,69,91:0:0:69,91:2294,3239:-449.582,-263.979,-243.208,-185.586,0,-158.193 1/2:228:0,156,71:0:0:156,71:5357,2518:-640.145,-205.176,-158.215,-434.997,0,-413.624 1/2:324:0,168,156:0:0:168,156:5617,5536:-906.169,-451.408,-400.834,-455.106,0,-408.145 1/2:179:0,124,55:0:0:124,55:4101,1959:-491.643,-160.028,-122.7,-331.963,0,-315.407 1/2:260:0,150,109:0:0:150,109:5141,3894:-734.825,-317.481,-272.327,-417.335,0,-384.523 1/2:289:0,74,215:0:0:74,215:2491,7656:-826.097,-624.27,-601.994,-202.169,0,-137.448 1/2:397:0,250,144:0:0:250,144:8443,5134:-1102.85,-418.533,-343.275,-684.36,0,-641.011 1/2:43:0,21,22:0:0:21,22:710,792:-122.527,-64.983,-58.6614,-57.893,0,-51.2703 1/2:12:0,6,6:0:0:6,6:204,208:-33.7969,-17.2529,-15.4467,-16.8872,0,-15.081 1/2:90:0,41,48:0:0:41,48:1358,1715:-249.698,-139.875,-127.532,-109.855,0,-95.4057 1/2:224:0,117,107:0:0:117,107:3957,3797:-630.487,-309.719,-274.498,-321.115,0,-288.905 1/2:209:0,110,99:0:0:110,99:3715,3494:-585.974,-284.872,-251.759,-301.448,0,-271.646 1/2:326:0,141,185:0:0:141,185:4744,6597:-922.416,-538.069,-495.623,-384.64,0,-328.95 1/2:145:0,69,76:0:0:69,76:2354,2702:-411.526,-220.546,-199.774,-191.328,0,-168.45 1/2:59:0,18,41:0:0:18,41:617,1455:-168.917,-118.832,-113.414,-50.4314,0,-38.0892 1/2:240:0,96,144:0:0:96,144:3157,5104:-671.278,-416.156,-387.257,-255.462,0,-212.113 1/2:152:1,76,75:1:36:76,75:2505,2671:-416.941,-214.761,-194.82,-199.527,0,-179.887 1/2:204:0,98,106:0:0:98,106:3268,3743:-569.66,-305.159,-275.658,-264.844,0,-232.935 1/2:114:0,62,50:0:0:62,50:2122,1771:-316.567,-144.333,-125.669,-172.294,0,-157.242 chr09 2304698 . C T 32248.1 PASS AB=0.521435;ABP=7.57172;AC=30;AF=0.714286;AN=42;AO=1564;CIGAR=1X;DP=2119;DPB=2119;DPRA=0;EPP=3399.19;EPPR=1206.01;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9891;MQMR=60;NS=21;NUMALT=1;ODDS=12.6866;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55727;QR=19683;RO=554;RPL=1564;RPP=3399.19;RPPR=1206.01;RPR=0;RUN=1;SAF=1564;SAP=3399.19;SAR=0;SRF=554;SRP=1206.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:66,43:66:2372:43:1539:-105.981,0,-180.925 0/1:109:55,54:55:1945:54:1913:-139.633,0,-142.512 0/1:89:36,53:36:1292:53:1885:-143.135,0,-89.7921 0/1:146:74,72:74:2627:72:2570:-187.598,0,-192.727 0/1:214:95,119:95:3403:119:4268:-319.877,0,-242.063 0/1:73:41,32:41:1454:32:1117:-78.86,0,-109.179 0/1:157:80,77:80:2819:77:2731:-198.772,0,-206.684 0/1:80:30,50:30:1053:50:1800:-138.2,0,-70.9962 1/1:197:1,195:1:36:195:6946:-621.68,-55.6885,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:10:5,5:5:171:5:180:-13.5418,0,-12.7152 0/1:20:9,11:9:324:11:392:-29.5995,0,-23.4853 1/1:117:0,117:0:0:117:4176:-376.022,-35.2205,0 1/1:137:0,137:0:0:137:4893:-440.522,-41.2411,0 1/1:182:3,179:3:108:179:6387:-564.844,-44.7123,0 1/1:70:0,70:0:0:70:2499:-225.163,-21.0721,0 1/1:106:1,105:1:36:105:3735:-332.751,-28.3109,0 0/1:60:28,32:28:988:32:1127:-83.6748,0,-71.1721 0/1:76:28,48:28:983:48:1693:-129.777,0,-65.9043 1/1:91:2,89:2:72:89:3161:-277.877,-20.557,0 1/1:55:0,55:0:0:55:1963:-176.945,-16.5567,0 chr09 2324846 . G A 28647.9 PASS AB=0.588499;ABP=94.1002;AC=27;AF=0.642857;AN=42;AO=1242;CIGAR=1X;DP=1799;DPB=1799;DPRA=0;EPP=1394.12;EPPR=1212.52;GTI=1;LEN=1;MEANALT=1;MQM=59.9533;MQMR=59.9677;NS=21;NUMALT=1;ODDS=3.07869;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44252;QR=19518;RO=557;RPL=2;RPP=2682.64;RPPR=1212.52;RPR=1240;RUN=1;SAF=177;SAP=1381.67;SAR=1065;SRF=0;SRP=1212.52;SRR=557;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:47,47:47:1675:47:1684:-123.545,0,-122.738 0/1:69:12,57:12:424:57:2040:-163.101,0,-17.7253 0/1:92:43,49:43:1458:49:1735:-128.739,0,-103.814 0/1:113:62,51:62:2168:51:1814:-129.521,0,-161.372 0/1:145:53,92:53:1823:92:3254:-249.428,0,-120.699 0/1:138:49,89:49:1740:89:3176:-244.523,0,-115.342 0/1:134:46,88:46:1644:88:3148:-243.049,0,-107.911 0/1:124:63,61:63:2197:61:2180:-159.139,0,-160.665 1/1:110:0,110:0:0:110:3928:-353.703,-33.1133,0 0/1:15:3,12:3:108:12:432:-34.7057,0,-5.55972 0/1:17:13,4:13:464:4:140:-7.82707,0,-36.98 0/1:38:25,13:25:879:13:456:-29.9341,0,-67.9877 1/1:99:1,98:1:32:98:3487:-310.843,-26.6027,0 1/1:82:2,80:2:72:80:2831:-248.191,-17.8477,0 0/1:88:35,53:35:1239:53:1879:-142.897,0,-85.3207 0/1:65:16,49:16:563:49:1737:-137.046,0,-31.4322 1/1:79:1,78:1:36:78:2779:-246.751,-20.1831,0 0/1:142:68,74:68:2370:74:2648:-195.82,0,-170.809 0/1:65:16,49:16:554:49:1752:-138.397,0,-30.618 1/1:46:1,45:1:36:45:1608:-141.412,-10.2491,0 1/1:44:1,43:1:36:43:1544:-135.655,-9.64705,0 chr09 2324875 . C T 8446.55 PASS AB=0.40583;ABP=106.072;AC=14;AF=0.333333;AN=42;AO=545;CIGAR=1X;DP=1814;DPB=1814;DPRA=1.57081;EPP=1169.15;EPPR=2723.97;GTI=0;LEN=1;MEANALT=1;MQM=59.9615;MQMR=59.9598;NS=21;NUMALT=1;ODDS=10.3189;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19489;QR=45301;RO=1269;RPL=2;RPP=1169.15;RPPR=1460.8;RPR=543;RUN=1;SAF=0;SAP=1186.46;SAR=545;SRF=169;SRP=1486.18;SRR=1100;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:53,45:53:1868:45:1616:-116.224,0,-138.893 0/1:69:57,12:57:2044:12:428:-18.0877,0,-163.46 0/1:93:49,44:49:1751:44:1565:-113.144,0,-129.878 0/1:113:52,61:52:1868:61:2192:-163.529,0,-134.381 0/1:144:92,52:92:3262:52:1853:-123.7,0,-250.449 0/1:139:90,49:90:3205:49:1752:-116.119,0,-246.829 0/1:136:89,47:89:3174:47:1688:-111.267,0,-244.626 0/1:125:61,64:61:2168:64:2288:-168.553,0,-157.756 0/0:113:113,0:113:4037:0:0:0,-34.0164,-363.506 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:18:8,10:8:288:10:360:-27.3258,0,-20.8489 0/1:39:13,26:13:468:26:924:-71.7375,0,-30.7195 0/0:98:97,1:97:3488:1:36:0,-25.9027,-310.531 0/0:79:79,0:79:2808:0:0:0,-23.7814,-252.958 0/1:90:55,35:55:1964:35:1256:-86.2502,0,-149.943 0/1:66:49,17:49:1760:17:612:-35.5455,0,-138.816 0/0:77:76,1:76:2685:1:36:0,-19.581,-238.292 0/1:142:77,65:77:2764:65:2326:-166.852,0,-206.255 0/1:66:50,16:50:1792:16:557:-30.5876,0,-141.694 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/0:49:49,0:49:1751:0:0:0,-14.7505,-157.873 chr09 2332072 . G A 20438.3 PASS AB=0.5734;ABP=40.3068;AC=27;AF=0.642857;AN=42;AO=1044;CIGAR=1X;DP=1385;DPB=1385;DPRA=0;EPP=2270.03;EPPR=741.311;GTI=3;LEN=1;MEANALT=1.04762;MQM=59.8927;MQMR=59.9971;NS=21;NUMALT=1;ODDS=0.0513562;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36172;QR=12140;RO=340;RPL=0;RPP=2270.03;RPPR=741.311;RPR=1044;RUN=1;SAF=1044;SAP=2270.03;SAR=0;SRF=340;SRP=741.311;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:7,20:7:252:20:671:-52.5719,0,-14.9011 0/1:8:3,5:3:104:5:161:-12.3983,0,-7.29457 0/1:98:50,48:50:1792:48:1677:-121.711,0,-132.061 0/1:61:30,31:30:1065:31:1093:-79.9981,0,-77.7969 0/1:96:32,63:32:1137:63:2205:-169.387,0,-73.6794 0/1:26:9,17:9:309:17:574:-44.1492,0,-20.3139 0/1:116:43,73:43:1536:73:2491:-189.516,0,-103.614 0/1:41:17,24:17:612:24:856:-65.0189,0,-43.0712 1/1:190:0,190:0:0:190:6541:-588.735,-57.1957,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:7:2,5:2:72:5:150:-11.6879,0,-4.72951 0/1:39:27,12:27:972:12:432:-27.481,0,-76.0577 1/1:121:1,120:1:36:120:4205:-375.033,-32.8264,0 1/1:104:0,104:0:0:104:3549:-319.531,-31.3071,0 0/1:119:53,66:53:1892:66:2310:-172.336,0,-134.736 0/1:13:4,9:4:144:9:320:-25.229,0,-9.40023 1/1:23:0,23:0:0:23:771:-69.6967,-6.92369,0 0/1:94:40,54:40:1440:54:1874:-140.632,0,-101.601 0/1:47:21,26:21:741:26:908:-67.8841,0,-52.8632 1/1:115:0,115:0:0:115:4011:-361.176,-34.6185,0 1/1:35:0,35:0:0:35:1229:-110.912,-10.5361,0 chr09 2332111 . G A 4662.83 PASS AB=0.415701;ABP=50.9699;AC=14;AF=0.333333;AN=42;AO=323;CIGAR=1X;DP=1369;DPB=1369;DPRA=0.65625;EPP=704.396;EPPR=2272.2;GTI=2;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9799;NS=21;NUMALT=1;ODDS=1.17908;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11320;QR=36924;RO=1045;RPL=323;RPP=704.396;RPPR=2272.2;RPR=0;RUN=1;SAF=323;SAP=704.396;SAR=0;SRF=1045;SRP=2272.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:19,6:19:667:6:208:-11.5333,0,-52.8289 0/1:8:5,3:5:180:3:104:-7.29457,0,-14.1438 0/1:96:48,48:48:1669:48:1684:-122.946,0,-121.595 0/1:62:32,30:32:1133:30:1067:-77.6774,0,-83.6128 0/1:99:65,33:65:2258:33:1176:-76.2871,0,-173.621 0/1:26:18,8:18:639:8:288:-18.4406,0,-50.0115 0/1:115:73,42:73:2599:42:1458:-96.8939,0,-199.54 0/1:37:22,15:22:780:15:536:-37.4367,0,-59.3849 0/0:184:184,0:184:6523:0:0:0,-55.3895,-587.159 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:34:12,22:12:423:22:780:-60.288,0,-28.17 0/0:124:124,0:124:4402:0:0:0,-37.3277,-396.355 0/0:106:106,0:106:3747:0:0:0,-31.9092,-337.395 0/1:117:67,50:67:2360:50:1741:-121.751,0,-177.437 0/1:13:9,4:9:320:4:140:-9.03119,0,-25.229 0/0:22:22,0:22:783:0:0:0,-6.62266,-70.7929 0/1:91:52,39:52:1835:39:1354:-94.7629,0,-138.033 0/1:47:26,21:26:932:21:712:-50.2454,0,-70.0505 0/0:117:117,0:117:4131:0:0:0,-35.2205,-371.976 0/0:34:34,0:34:1183:0:0:0,-10.235,-106.774 chr09 2332246 . AATG GATA,AATA 53906.2 PASS AB=0.532876,0.463694;ABP=19.4298,23.0353;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1768,811;CIGAR=1X2M1X,3M1X;DP=2589;DPB=2588.75;DPRA=0,1.04107;EPP=3816.16,1755.4;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.04762,2.42857;MQM=59.8643,59.8718;MQMR=0;NS=21;NUMALT=2;ODDS=1.86291;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62507,29088;QR=0;RO=0;RPL=3,1;RPP=3816.16,1755.4;RPPR=0;RPR=1765,810;RUN=1,1;SAF=1768,811;SAP=3842.17,1764.07;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:150:0,76,73:0:0:76,73:2685,2624:-432.731,-214.072,-191.194,-218.656,0,-196.681 1/2:100:0,58,42:0:0:58,42:2033,1512:-289.157,-123.731,-106.272,-165.781,0,-153.138 1/2:153:0,91,62:0:0:91,62:3225,2232:-445.2,-182.48,-155.086,-263.078,0,-244.414 1/2:99:0,55,44:0:0:55,44:1971,1580:-289.996,-129.246,-112.69,-161.108,0,-147.863 1/2:251:0,118,131:0:0:118,131:4162,4688:-721.119,-382.274,-346.753,-338.904,0,-299.469 1/2:142:0,81,61:0:0:81,61:2838,2192:-409.089,-179.113,-154.729,-230.331,0,-211.968 1/2:165:0,96,69:0:0:96,69:3407,2480:-479.827,-202.237,-173.338,-277.948,0,-257.177 1/2:143:0,68,75:0:0:68,75:2395,2692:-414.904,-219.947,-199.477,-195.312,0,-172.735 1/1:246:0,245,0:0:0:245,0:8696,0:-782.275,-73.7524,0,-782.275,-73.7524,-782.275 1/1:25:0,25,0:0:0:25,0:888,0:-80.2385,-7.52575,0,-80.2385,-7.52575,-80.2385 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/2:49:0,26,22:0:0:26,22:933,784:-140.007,-63.9016,-56.0748,-76.1027,0,-69.4801 1/1:169:0,169,0:0:0:169,0:5950,0:-535.439,-50.8741,0,-535.439,-50.8741,-535.439 1/1:127:0,127,0:0:0:127,0:4403,0:-396.22,-38.2308,0,-396.22,-38.2308,-396.22 1/2:218:0,100,117:0:0:100,117:3566,4172:-630.849,-340.16,-310.057,-290.795,0,-255.574 1/2:62:0,35,27:0:0:35,27:1237,972:-180.411,-79.6701,-69.134,-101.098,0,-92.9698 1/1:122:0,119,0:0:0:119,0:4230,0:-380.521,-35.8226,0,-380.521,-35.8226,-380.521 1/2:143:0,71,71:0:0:71,71:2515,2548:-412.789,-207.916,-186.543,-204.949,0,-183.575 1/2:69:0,53,16:0:0:53,16:1903,576:-202.593,-47.3585,-31.4039,-155.594,0,-150.777 1/1:99:0,99,0:0:0:99,0:3500,0:-315.213,-29.802,0,-315.213,-29.802,-315.213 1/1:52:0,52,0:0:0:52,0:1826,0:-164.615,-15.6536,0,-164.615,-15.6536,-164.615 chr09 2332276 . G A 13377.9 PASS AB=0.473099;ABP=13.7585;AC=14;AF=0.333333;AN=42;AO=809;CIGAR=1X;DP=2505;DPB=2505;DPRA=1.07547;EPP=1759.73;EPPR=3683.66;GTI=0;LEN=1;MEANALT=1;MQM=59.8158;MQMR=59.9186;NS=21;NUMALT=1;ODDS=5.85635;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28925;QR=60287;RO=1695;RPL=809;RPP=1759.73;RPPR=3683.66;RPR=0;RUN=1;SAF=809;SAP=1759.73;SAR=0;SRF=1695;SRP=3683.66;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:75,75:75:2666:75:2665:-194.94,0,-195.025 0/1:100:57,43:57:2023:43:1544:-109.15,0,-152.239 0/1:152:88,64:88:3128:64:2300:-160.484,0,-235.989 0/1:98:54,44:54:1929:44:1584:-113.351,0,-144.384 0/1:241:115,126:115:4113:126:4509:-333.242,0,-297.799 0/1:135:77,58:77:2744:58:2065:-145.48,0,-205.086 0/1:160:92,68:92:3263:68:2433:-170.912,0,-245.728 0/1:141:66,75:66:2340:75:2692:-200.068,0,-168.412 0/0:234:234,0:234:8310:0:0:0,-70.441,-747.903 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/1:47:24,23:24:843:23:828:-60.6953,0,-62.0396 0/0:164:163,0:163:5775:0:0:0,-49.0679,-519.352 0/0:118:118,0:118:4212:0:0:0,-35.5215,-378.992 0/1:219:100,119:100:3573:119:4213:-313.421,0,-255.851 0/1:60:34,26:34:1212:26:932:-66.1371,0,-91.3245 0/0:113:113,0:113:4051:0:0:0,-34.0164,-364.773 0/1:135:65,70:65:2297:70:2512:-185.692,0,-166.351 0/1:67:51,16:51:1828:16:576:-32.006,0,-144.632 0/0:94:94,0:94:3331:0:0:0,-28.2968,-300.01 0/0:47:47,0:47:1649:0:0:0,-14.1484,-148.693 chr09 2332342 . TACA CACT,CACA 70012.9 PASS AB=0.497597,0.498908;ABP=3.12509,3.03402;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2182,1144;CIGAR=1X2M1X,1X3M;DP=3339;DPB=3339;DPRA=0,1.13871;EPP=4620.34,2443.94;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.28571,2.53333;MQM=59.6957,59.9851;MQMR=0;NS=21;NUMALT=2;ODDS=11.6183;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77157,40900;QR=0;RO=0;RPL=14,5;RPP=4620.34,2443.94;RPPR=0;RPR=2168,1139;RUN=1,1;SAF=0,0;SAP=4741.16,2487.17;SAR=2182,1144;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:210:0,112,95:0:0:112,95:3956,3400:-599.423,-277.297,-243.582,-322.161,0,-293.563 1/2:138:0,73,64:0:0:73,64:2619,2287:-399.959,-186.465,-164.49,-213.492,0,-194.226 1/2:138:0,53,84:0:0:53,84:1893,2996:-398.563,-244.226,-228.272,-154.334,0,-129.048 1/2:261:0,122,138:0:0:122,138:4314,4925:-752.783,-401.499,-364.773,-351.279,0,-309.736 1/2:408:0,217,191:0:0:217,191:7705,6835:-1185.46,-557.722,-492.398,-628.09,0,-570.593 1/2:278:0,107,171:0:0:107,171:3787,6083:-803.434,-496.087,-463.877,-307.701,0,-256.225 1/2:218:0,118,100:0:0:118,100:4160,3592:-631.62,-293.383,-257.861,-338.593,0,-308.49 1/2:152:0,85,67:0:0:85,67:3040,2393:-443.342,-195.457,-169.87,-248.242,0,-228.073 1/1:225:0,225,0:0:0:225,0:7935,0:-712.887,-67.7318,0,-712.887,-67.7318,-712.887 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:24:0,13,11:0:0:13,11:466,396:-70.6776,-32.6714,-28.758,-38.3653,0,-35.054 1/1:267:0,264,0:0:0:264,0:9313,0:-836.954,-79.4719,0,-836.954,-79.4719,-836.954 1/1:145:0,145,0:0:0:145,0:5126,0:-461.474,-43.6494,0,-461.474,-43.6494,-461.474 1/2:194:0,93,101:0:0:93,101:3287,3624:-563.65,-295.961,-267.965,-268.045,0,-237.641 1/2:116:0,60,54:0:0:60,54:2144,1925:-331.724,-156.914,-138.853,-174.811,0,-158.555 1/1:149:0,148,0:0:0:148,0:5194,0:-467.378,-44.5524,0,-467.378,-44.5524,-467.378 1/2:61:0,30,31:0:0:30,31:1058,1116:-177.558,-91.4198,-82.3889,-86.4944,0,-77.1624 1/2:87:0,54,33:0:0:54,33:1860,1184:-247.998,-96.9343,-80.6787,-151.417,0,-141.483 1/1:182:0,179,2:0:0:179,2:6297,72:-566.477,-53.8844,0,-560.603,-47.943,-560 1/1:70:0,70,0:0:0:70,0:2499,0:-225.163,-21.0721,0,-225.163,-21.0721,-225.163 chr09 2332481 . T C 44859.1 PASS AB=0.572654;ABP=93.8835;AC=28;AF=0.666667;AN=42;AO=2176;CIGAR=1X;DP=3023;DPB=3023;DPRA=0;EPP=4564.54;EPPR=1766.9;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9678;MQMR=59.9976;NS=21;NUMALT=1;ODDS=3.79946;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77533;QR=30211;RO=844;RPL=19;RPP=4564.54;RPPR=1766.9;RPR=2157;RUN=1;SAF=0;SAP=4728.13;SAR=2176;SRF=0;SRP=1835.73;SRR=844;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:49,116:49:1752:116:4144:-323.261,0,-108.081 0/1:170:57,113:57:2036:113:4034:-312.072,0,-132.336 0/1:198:88,110:88:3144:110:3928:-294.11,0,-223.582 0/1:162:75,87:75:2683:87:3085:-229.111,0,-192.947 0/1:268:113,155:113:4068:155:5511:-415.429,0,-285.628 0/1:239:108,131:108:3876:131:4689:-350.223,0,-277.088 0/1:142:77,64:77:2752:64:2265:-161.345,0,-205.157 0/1:152:65,87:65:2313:87:3113:-234.64,0,-162.673 1/1:322:0,322:0:0:322:11477:-1032.8,-96.9317,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:37:24,13:24:864:13:468:-31.3215,0,-66.9445 1/1:187:0,187:0:0:187:6685:-601.569,-56.2926,0 1/1:163:0,163:0:0:163:5789:-521.128,-49.0679,0 0/1:245:107,138:107:3832:138:4932:-370.27,0,-271.324 0/1:96:47,49:47:1680:49:1752:-129.065,0,-122.588 1/1:171:0,171:0:0:171:6059:-545.416,-51.4761,0 0/1:47:23,24:23:815:24:848:-62.4912,0,-59.5224 0/1:53:9,43:9:324:43:1535:-122.429,0,-13.4925 1/1:135:0,135:0:0:135:4805:-432.605,-40.6391,0 1/1:48:0,48:0:0:48:1694:-152.745,-14.4494,0 chr09 2332517 . C T 43979.9 PASS AB=0.573507;ABP=96.547;AC=28;AF=0.666667;AN=42;AO=2209;CIGAR=1X;DP=3059;DPB=3059;DPRA=0;EPP=4799.79;EPPR=1848.76;GTI=1;LEN=1;MEANALT=1;MQM=59.9402;MQMR=59.9976;NS=21;NUMALT=1;ODDS=2.48204;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77956;QR=30319;RO=850;RPL=2209;RPP=4799.79;RPPR=1848.76;RPR=0;RUN=1;SAF=0;SAP=4799.79;SAR=2209;SRF=0;SRP=1848.76;SRR=850;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:53,113:53:1870:113:4014:-311.471,0,-118.604 0/1:174:56,118:56:1992:118:4148:-321.124,0,-127.175 0/1:199:89,110:89:3181:110:3901:-291.381,0,-226.607 0/1:165:78,87:78:2785:87:3053:-225.332,0,-201.219 0/1:265:112,153:112:3998:153:5396:-405.98,0,-280.234 0/1:244:112,132:112:3989:132:4717:-351.22,0,-285.746 0/1:141:75,66:75:2677:66:2326:-167.145,0,-198.728 0/1:152:64,88:64:2269:88:3144:-237.43,0,-158.715 1/1:328:0,328:0:0:328:11536:-1038.13,-98.7378,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:38:25,13:25:900:13:452:-29.572,0,-69.8819 1/1:192:0,192:0:0:192:6746:-607.213,-57.7978,0 1/1:169:0,169:0:0:169:5895:-530.668,-50.8741,0 0/1:245:105,140:105:3761:140:4930:-370.086,0,-264.935 0/1:97:48,49:48:1713:49:1737:-127.414,0,-125.254 1/1:175:0,175:0:0:175:6187:-556.859,-52.6803,0 0/1:46:22,24:22:788:24:848:-62.7923,0,-57.3974 0/1:54:9,45:9:324:45:1589:-127.043,0,-13.2502 1/1:139:0,139:0:0:139:4893:-440.53,-41.8432,0 1/1:48:0,48:0:0:48:1728:-155.805,-14.4494,0 chr09 2357523 . G A 10663.6 PASS AB=0.451923;ABP=32.2417;AC=14;AF=0.333333;AN=42;AO=662;CIGAR=1X;DP=2307;DPB=2307;DPRA=0.916405;EPP=1440.53;EPPR=3568.57;GTI=0;LEN=1;MEANALT=1.13333;MQM=60;MQMR=59.9817;NS=21;NUMALT=1;ODDS=1.53449;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23725;QR=58892;RO=1642;RPL=662;RPP=1440.53;RPPR=3568.57;RPR=0;RUN=1;SAF=0;SAP=1440.53;SAR=662;SRF=0;SRP=3568.57;SRR=1642;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:66,63:66:2372:63:2260:-164.83,0,-174.905 0/1:65:27,38:27:972:38:1368:-103.854,0,-68.231 0/1:83:45,38:45:1612:38:1356:-97.355,0,-120.385 0/1:144:93,51:93:3344:51:1820:-120.733,0,-257.828 0/1:197:97,100:97:3480:100:3588:-263.823,0,-254.108 0/1:133:72,60:72:2588:60:2156:-154.211,0,-193.064 0/1:162:76,86:76:2716:86:3092:-229.74,0,-195.917 0/1:125:74,51:74:2652:51:1828:-127.172,0,-201.297 0/0:236:236,0:236:8448:0:0:0,-71.0431,-760.236 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:30:18,12:18:648:12:432:-30.1903,0,-49.621 0/0:183:183,0:183:6580:0:0:0,-55.0885,-592.277 0/0:132:132,0:132:4736:0:0:0,-39.736,-426.397 0/1:199:137,62:137:4908:62:2220:-140.159,0,-381.966 0/1:71:24,46:24:864:46:1644:-126.817,0,-56.6506 0/0:87:87,0:87:3128:0:0:0,-26.1896,-281.745 0/1:49:19,30:19:680:30:1061:-81.0489,0,-46.7787 0/1:63:45,18:45:1612:18:648:-39.687,0,-126.405 0/0:150:146,4:146:5224:4:144:0,-31.8409,-456.985 0/0:52:51,0:51:1824:0:0:0,-15.3525,-164.081 chr09 2504611 . GCCATTTATTTC ACCAATTTC,GCCAATTTC 53839.4 PASS AB=0.532527,0.457686;ABP=18.9732,30.0243;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1828,801;CIGAR=1X3M3D5M,4M3D5M;DP=2652;DPB=1989;DPRA=0,1.062;EPP=3972.46,1742.36;EPPR=0;GTI=0;LEN=9,3;MEANALT=2.80952,3.05882;MQM=57.9103,59.9988;MQMR=0;NS=21;NUMALT=2;ODDS=24.7641;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64223,28243;QR=0;RO=0;RPL=0,0;RPP=3972.46,1742.36;RPPR=0;RPR=1828,801;RUN=1,1;SAF=1828,801;SAP=3972.46,1742.36;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,57,49:0:0:57,49:1994,1752:-305.061,-142.931,-125.773,-162.2,0,-147.45 1/2:148:0,103,44:0:0:103,44:3622,1536:-419.243,-125.032,-94.0255,-294.309,0,-281.063 1/2:76:0,40,36:0:0:40,36:1409,1272:-218.55,-103.946,-91.9044,-114.957,0,-104.12 1/2:171:0,93,77:0:0:93,77:3252,2707:-484.093,-220.413,-192.418,-263.749,0,-240.569 1/2:256:0,128,123:0:0:128,123:4484,4343:-717.963,-353.751,-315.22,-364.291,0,-327.265 1/2:103:0,42,59:0:0:42,59:1482,2100:-291.802,-171.214,-158.571,-120.646,0,-102.885 1/2:152:0,91,56:0:0:91,56:3209,1996:-423.379,-162.752,-135.358,-260.676,0,-243.819 1/2:121:0,63,57:0:0:63,57:2225,2021:-344.941,-164.742,-145.777,-180.291,0,-163.133 1/1:190:0,188,0:0:0:188,0:6636,0:-596.439,-56.5936,0,-596.439,-56.5936,-596.439 1/1:15:0,15,0:0:0:15,0:525,0:-47.4318,-4.51545,0,-47.4318,-4.51545,-47.4318 1/2:17:0,6,11:0:0:6,11:212,383:-48.7442,-31.4919,-29.6857,-17.6035,0,-14.2921 1/2:43:0,25,18:0:0:25,18:879,632:-123.22,-51.7882,-44.2625,-71.7825,0,-66.364 1/1:175:0,174,1:0:0:174,1:6108,36:-548.987,-52.3792,0,-546.049,-49.082,-545.748 1/1:204:0,204,0:0:0:204,0:7125,0:-640.82,-61.4101,0,-640.82,-61.4101,-640.82 1/2:217:0,108,109:0:0:108,109:3810,3825:-621.456,-311.638,-279.126,-310.17,0,-277.358 1/2:142:0,70,72:0:0:70,72:2473,2510:-405.765,-204.478,-183.406,-201.639,0,-179.964 1/1:105:0,101,3:0:0:101,3:3540,108:-318.367,-30.404,0,-309.554,-21.5467,-308.651 1/2:107:0,53,54:0:0:53,54:1850,1908:-306.087,-155.742,-139.788,-150.695,0,-134.44 1/2:76:0,46,30:0:0:46,30:1632,1042:-217.812,-85.0571,-71.2097,-133.104,0,-124.074 1/1:154:0,150,2:0:0:150,2:5291,72:-475.719,-45.1545,0,-469.844,-39.2306,-469.242 1/1:72:0,71,0:0:0:71,0:2465,0:-221.515,-21.3731,0,-221.515,-21.3731,-221.515 chr09 2504625 . CAT CT 34934.5 PASS AB=0.511351;ABP=4.98213;AC=28;AF=0.666667;AN=42;AO=1770;CIGAR=1M1D1M;DP=2637;DPB=2047;DPRA=0;EPP=3803.21;EPPR=1831.64;GTI=0;LEN=1;MEANALT=1.14286;MQM=57.9158;MQMR=59.9524;NS=21;NUMALT=1;ODDS=16.991;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62610;QR=30557;RO=862;RPL=5;RPP=3803.21;RPPR=1831.64;RPR=1765;RUN=1;SAF=1770;SAP=3846.52;SAR=0;SRF=862;SRP=1874.82;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:52,55:52:1840:55:1938:-142.379,0,-133.667 0/1:146:46,100:46:1624:100:3560:-275.884,0,-102.498 0/1:80:40,40:40:1424:40:1428:-104.542,0,-104.375 0/1:176:86,90:86:3026:90:3200:-234.283,0,-219.589 0/1:256:133,120:133:4714:120:4240:-303.6,0,-347.901 0/1:107:66,41:66:2350:41:1435:-97.1487,0,-178.771 0/1:152:62,90:62:2182:90:3159:-236.582,0,-150.888 0/1:123:61,62:61:2173:62:2183:-158.955,0,-158.809 1/1:177:1,176:1:36:176:6228:-556.249,-49.684,0 1/1:13:0,13:0:0:13:464:-42.0789,-3.91339,0 0/1:17:11,6:11:370:6:216:-14.6564,0,-28.5057 0/1:43:19,24:19:674:24:860:-64.6588,0,-48.0427 1/1:166:1,165:1:36:165:5854:-523.145,-46.3727,0 1/1:197:0,196:0:0:196:6937:-623.901,-59.0019,0 0/1:219:112,106:112:3998:106:3769:-272.791,0,-294.027 0/1:147:77,70:77:2728:70:2485:-179.449,0,-201.51 1/1:101:1,100:1:36:100:3482:-309.941,-26.8058,0 0/1:112:60,52:60:2122:52:1834:-131.491,0,-157.532 0/1:77:32,45:32:1152:45:1608:-121.703,0,-80.8108 1/1:150:2,148:2:72:148:5219:-462.414,-38.3178,0 1/1:71:0,71:0:0:71:2511:-225.663,-21.3731,0 chr09 2504696 . C T 48241.1 PASS AB=0.553155;ABP=60.9539;AC=28;AF=0.666667;AN=42;AO=2379;CIGAR=1X;DP=3439;DPB=3439;DPRA=0;EPP=5099.69;EPPR=2257.2;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9567;MQMR=59.9991;NS=21;NUMALT=1;ODDS=9.46677;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85248;QR=37819;RO=1058;RPL=2371;RPP=5099.69;RPPR=2257.2;RPR=8;RUN=1;SAF=0;SAP=5168.94;SAR=2379;SRF=0;SRP=2300.43;SRR=1058;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:225:99,126:99:3521:126:4516:-338.871,0,-249.368 0/1:221:107,114:107:3840:114:4104:-303.012,0,-279.267 0/1:123:52,71:52:1846:71:2541:-191.913,0,-129.392 0/1:173:85,88:85:3031:88:3156:-232.186,0,-220.942 0/1:225:87,138:87:3106:138:4948:-377.737,0,-212.035 0/1:192:81,111:81:2899:111:3984:-300.951,0,-203.347 0/1:240:96,144:96:3452:144:5151:-391.484,0,-238.644 0/1:222:129,92:129:4617:92:3304:-230.691,0,-348.804 1/1:164:0,164:0:0:164:5865:-527.96,-49.3689,0 1/1:50:0,50:0:0:50:1800:-162.282,-15.0515,0 0/1:7:4,3:4:144:3:99:-7.12937,0,-11.2064 0/1:49:28,21:28:999:21:752:-53.2558,0,-75.474 1/1:240:2,238:2:72:238:8556:-763.196,-65.4105,0 1/1:232:0,232:0:0:232:8300:-746.925,-69.839,0 0/1:310:133,176:133:4737:176:6319:-475.421,0,-333.111 0/1:178:53,125:53:1899:125:4477:-349.51,0,-117.604 1/1:200:1,199:1:36:199:7109:-636.27,-56.6077,0 0/1:130:78,52:78:2796:52:1872:-129.625,0,-212.746 0/1:66:21,45:21:756:45:1599:-124.283,0,-48.4992 1/1:141:1,140:1:32:140:5012:-448.028,-39.2459,0 1/1:51:1,50:1:36:50:1784:-157.244,-11.7543,0 chr09 2547444 . CGTCC TGTCC,TGTCT 40510.2 PASS AB=0.524687,0.473839;ABP=10.1936,11.0769;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1320,645;CIGAR=1X4M,1X3M1X;DP=1973;DPB=1973;DPRA=0,1.43109;EPP=2869.35,1403.61;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2,2.2;MQM=59.9652,59.8946;MQMR=60;NS=21;NUMALT=2;ODDS=7.68642;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46924,22627;QR=36;RO=1;RPL=0,0;RPP=2869.35,1403.61;RPPR=5.18177;RPR=1320,645;RUN=1,1;SAF=0,0;SAP=2869.35,1403.61;SAR=1320,645;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,82,83:0:0:82,83:2902,2922:-474.553,-238.173,-213.489,-236.732,0,-211.747 1/2:80:0,50,30:0:0:50,30:1783,1050:-231.127,-85.7788,-70.7273,-145.701,0,-136.67 1/2:68:0,41,27:0:0:41,27:1455,959:-197.047,-78.4988,-66.1565,-118.903,0,-110.775 1/2:52:0,22,30:0:0:22,30:765,1060:-148.875,-86.6811,-80.0584,-62.5441,0,-53.5132 1/2:272:0,142,130:0:0:142,130:5048,4549:-781.814,-370.443,-327.697,-411.724,0,-372.59 1/2:79:0,39,39:0:0:39,39:1378,1374:-224.082,-111.858,-100.118,-112.217,0,-100.477 1/2:130:0,64,66:0:0:64,66:2284,2303:-373.87,-187.666,-168.401,-186.556,0,-166.688 1/2:49:0,30,19:0:0:30,19:1068,640:-139.246,-52.1886,-43.1577,-87.4012,0,-81.6816 1/1:185:0,182,2:0:0:182,2:6491,67:-583.958,-54.7875,0,-578.532,-49.325,-577.93 1/1:30:0,30,0:0:0:30,0:1058,0:-95.5253,-9.0309,0,-95.5253,-9.0309,-95.5253 1/2:10:0,7,3:0:0:7,3:248,104:-29.0081,-8.79988,-6.69267,-20.557,0,-19.6539 1/2:25:0,20,5:0:0:20,5:716,180:-73.4315,-15.0469,-9.02631,-58.744,0,-57.2389 1/1:125:1,122,0:1:36:122,0:4310,0:-384.535,-33.7616,0,-384.836,-36.7257,-387.774 1/1:102:0,102,0:0:0:102,0:3660,0:-329.591,-30.7051,0,-329.591,-30.7051,-329.591 1/2:191:0,98,92:0:0:98,92:3480,3241:-547.507,-263.95,-234.449,-283.639,0,-255.945 1/2:90:0,45,45:0:0:45,45:1603,1577:-259.33,-128.671,-115.124,-131.013,0,-117.467 1/1:86:0,85,0:0:0:85,0:3018,0:-271.6,-25.5876,0,-271.6,-25.5876,-271.6 1/2:94:0,43,51:0:0:43,51:1536,1788:-271.084,-145.849,-132.904,-125.589,0,-110.236 1/2:52:0,29,23:0:0:29,23:1044,813:-151.756,-66.567,-57.8372,-85.5449,0,-78.6212 1/1:58:0,57,0:0:0:57,0:2018,0:-181.601,-17.1587,0,-181.601,-17.1587,-181.601 1/1:30:0,30,0:0:0:30,0:1059,0:-95.6204,-9.0309,0,-95.6204,-9.0309,-95.6204 chr09 2862192 . A T 14933.7 PASS AB=0.508922;ABP=3.90146;AC=15;AF=0.357143;AN=42;AO=657;CIGAR=1X;DP=1682;DPB=1682;DPRA=1.54483;EPP=10.9459;EPPR=2134.25;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.14309;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23417;QR=36751;RO=1025;RPL=304;RPP=10.9459;RPPR=2134.25;RPR=353;RUN=1;SAF=0;SAP=1429.67;SAR=657;SRF=0;SRP=2228.77;SRR=1025;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:9:5,4:5:176:4:144:-10.6043,0,-13.4757 0/1:102:52,50:52:1868:50:1773:-129.146,0,-137.694 0/1:89:41,48:41:1476:48:1709:-127.302,0,-106.345 0/1:93:35,58:35:1260:58:2073:-158.843,0,-85.7097 0/1:225:111,114:111:3951:114:4064:-298.213,0,-288.046 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:145:85,60:85:3056:60:2126:-147.956,0,-231.619 0/1:73:38,35:38:1360:35:1260:-91.7303,0,-100.725 0/0:75:75,0:75:2700:0:0:0,-22.5772,-243.243 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/0:110:109,1:109:3902:1:36:0,-29.515,-347.774 0/0:78:78,0:78:2796:0:0:0,-23.4803,-251.88 0/1:132:71,61:71:2548:61:2168:-155.651,0,-189.834 0/1:58:17,41:17:612:41:1461:-114.324,0,-37.9537 0/1:28:18,10:18:648:10:330:-21.5885,0,-50.223 0/1:248:109,139:109:3890:139:4985:-374.14,0,-275.638 0/1:61:37,24:37:1332:24:856:-58.9983,0,-101.82 0/0:65:65,0:65:2340:0:0:0,-19.5669,-210.859 0/0:55:55,0:55:1980:0:0:0,-16.5566,-178.474 chr09 2909938 . GTCG ATCG,ATCA 22837.9 PASS AB=0.662939,0.325879;ABP=147.368,167.862;AC=27,15;AF=0.642857,0.357143;AN=42;AO=712,204;CIGAR=1X3M,1X2M1X;DP=925;DPB=925;DPRA=0,0.837458;EPP=17.9544,437.347;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=2.04762,2.4;MQM=51.0534,51.6765;MQMR=60;NS=21;NUMALT=2;ODDS=4.16754;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25335,7256;QR=36;RO=1;RPL=7,1;RPP=1488.9,437.347;RPPR=5.18177;RPR=705,203;RUN=1,1;SAF=398,204;SAP=24.5298,445.991;SAR=314,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:41:0,31,10:0:0:31,10:1107,359:-118.116,-29.3266,-19.9947,-89.1436,0,-86.1333 1/2:23:0,17,6:0:0:17,6:608,206:-63.9653,-17.0247,-11.9072,-47.2824,0,-45.4762 1/2:19:0,13,6:0:0:13,6:462,212:-54.3837,-17.5432,-13.6298,-37.1912,0,-35.385 1/2:48:0,24,23:0:0:24,23:841,817:-133.122,-65.3074,-58.0827,-67.8325,0,-60.9089 1/2:81:0,53,28:0:0:53,28:1908,992:-234.754,-80.6153,-64.6607,-154.492,0,-146.063 1/2:39:0,28,11:0:0:28,11:989,388:-110.075,-31.0531,-22.6242,-79.3669,0,-76.0556 1/2:49:0,32,17:0:0:32,17:1148,607:-140.769,-49.7904,-40.1574,-91.3331,0,-86.2156 1/2:61:0,32,28:0:0:32,28:1152,997:-174.402,-81.1852,-71.5522,-93.2952,0,-84.8664 1/1:44:0,43,0:0:0:43,0:1518,0:-134.46,-12.9443,0,-134.46,-12.9443,-134.46 1/1:5:0,5,0:0:0:5,0:180,0:-16.0229,-1.50515,0,-16.0229,-1.50515,-16.0229 1/2:5:0,3,2:0:0:3,2:104,72:-14.4792,-6.22762,-5.32453,-8.60308,0,-8.00102 1/2:11:0,5,6:0:0:5,6:180,213:-31.7231,-17.6871,-16.1819,-14.3855,0,-12.5793 1/1:49:0,49,0:0:0:49,0:1750,0:-155.839,-14.7505,0,-155.839,-14.7505,-155.839 1/1:59:0,59,0:0:0:59,0:2085,0:-184.699,-17.7608,0,-184.699,-17.7608,-184.699 1/2:31:0,23,8:0:0:23,8:822,281:-89.6899,-23.1257,-16.202,-66.9153,0,-64.5071 1/2:22:0,12,10:0:0:12,10:432,353:-63.6678,-28.4286,-24.8163,-35.5911,0,-32.5808 1/2:16:0,8,8:0:0:8,8:288,286:-46.699,-23.5575,-21.1493,-23.4968,0,-21.0885 1/2:105:0,72,29:0:0:72,29:2537,1041:-288.095,-84.9007,-63.2266,-203.27,0,-194.54 1/2:75:0,62,12:0:0:62,12:2218,432:-212.907,-34.8894,-16.2255,-178.014,0,-174.402 1/1:37:0,37,0:0:0:37,0:1328,0:-117.639,-11.1381,0,-117.639,-11.1381,-117.639 1/1:105:1,104,0:1:36:104,0:3678,0:-319.374,-28.0099,0,-319.676,-31.3071,-322.613 chr09 2909947 . G A 3614.05 PASS AB=0.323764;ABP=172.16;AC=15;AF=0.357143;AN=42;AO=203;CIGAR=1X;DP=934;DPB=934;DPRA=0.816938;EPP=4.30463;EPPR=328.467;GTI=1;LEN=1;MEANALT=1;MQM=51.4926;MQMR=50.5636;NS=21;NUMALT=1;ODDS=3.78452;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7270;QR=25932;RO=731;RPL=107;RPP=4.30463;RPPR=344.389;RPR=96;RUN=1;SAF=203;SAP=443.819;SAR=0;SRF=394;SRP=12.6616;SRR=337;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:30,10:30:1076:10:360:-20.349,0,-83.0603 0/1:22:16,6:16:555:6:212:-12.7272,0,-41.5359 0/1:19:13,6:13:464:6:216:-13.9872,0,-35.2077 0/1:50:26,24:26:936:24:844:-59.625,0,-68.703 0/1:80:53,27:53:1881:27:964:-62.449,0,-143.377 0/1:39:29,10:29:1040:10:360:-20.1096,0,-79.4544 0/1:51:34,17:34:1224:17:612:-40.0038,0,-92.0709 0/1:60:33,27:33:1180:27:972:-69.575,0,-86.882 0/0:49:49,0:49:1702:0:0:0,-14.7505,-149.086 0/0:5:5,0:5:176:0:0:0,-1.50515,-15.7301 0/1:5:3,2:3:104:2:72:-5.32453,0,-8.00102 0/1:11:5,6:5:180:6:216:-16.4514,0,-12.5793 0/0:49:49,0:49:1730:0:0:0,-14.7505,-153.661 0/0:62:62,0:62:2177:0:0:0,-18.6639,-192.462 0/1:30:22,8:22:784:8:288:-17.1271,0,-61.4623 0/1:22:12,10:12:428:10:354:-25.0744,0,-32.2184 0/1:15:7,8:7:252:8:288:-21.625,0,-18.1504 0/1:107:77,30:77:2687:30:1080:-65.076,0,-204.151 0/1:76:64,12:64:2291:12:432:-15.9827,0,-180.857 0/0:37:37,0:37:1328:0:0:0,-11.1381,-117.148 0/0:105:105,0:105:3737:0:0:0,-31.6081,-325.649 chr09 2909964 . TG CA,CG 22451.2 PASS AB=0.676898,0.318255;ABP=171.259,180.604;AC=27,15;AF=0.642857,0.357143;AN=42;AO=729,198;CIGAR=2X,1X1M;DP=931;DPB=931;DPRA=0,1.09982;EPP=11.3775,432.962;EPPR=0;GTI=2;LEN=2,1;MEANALT=1.90476,2.125;MQM=50.428,51.8182;MQMR=0;NS=21;NUMALT=2;ODDS=0.577658;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25499,6960;QR=0;RO=0;RPL=729,198;RPP=1586.01,432.962;RPPR=0;RPR=0,0;RUN=1,1;SAF=391,198;SAP=11.3775,432.962;SAR=338,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:41:0,31,10:0:0:31,10:1088,360:-115.914,-29.3799,-20.0479,-86.8869,0,-83.8766 1/2:21:0,17,4:0:0:17,4:610,140:-58.8008,-11.7288,-6.61129,-47.4199,0,-46.2158 1/2:19:0,13,6:0:0:13,6:463,207:-53.668,-17.0891,-13.1758,-36.9232,0,-35.117 1/2:47:0,24,23:0:0:24,23:828,817:-132.304,-65.7318,-58.5071,-66.9178,0,-59.9941 1/2:78:0,53,25:0:0:53,25:1858,891:-221.774,-72.6718,-56.7172,-149.455,0,-141.929 1/2:39:0,29,10:0:0:29,10:1026,351:-109.808,-28.8866,-20.1567,-81.2703,0,-78.26 1/2:50:0,33,17:0:0:33,17:1144,588:-138.247,-48.0738,-38.1398,-90.5159,0,-85.3984 1/2:59:0,32,26:0:0:32,26:1139,915:-165.634,-74.3633,-64.7303,-91.2625,0,-83.4357 1/1:49:0,49,0:0:0:49,0:1711,0:-149.957,-14.7505,0,-149.957,-14.7505,-149.957 1/1:5:0,5,0:0:0:5,0:167,0:-14.953,-1.50515,0,-14.953,-1.50515,-14.953 1/2:5:0,3,2:0:0:3,2:100,63:-13.288,-5.37713,-4.47404,-8.23014,0,-7.62808 1/2:11:0,5,6:0:0:5,6:180,201:-30.6314,-16.5864,-15.0812,-14.3855,0,-12.5793 1/1:51:0,51,0:0:0:51,0:1768,0:-156.946,-15.3525,0,-156.946,-15.3525,-156.946 1/1:64:0,63,0:0:0:63,0:2198,0:-193.916,-18.9649,0,-193.916,-18.9649,-193.916 1/2:30:0,20,8:0:0:20,8:718,275:-80.1784,-22.2208,-16.2002,-57.9472,0,-55.5389 1/2:22:0,12,10:0:0:12,10:430,360:-64.1025,-29.0473,-25.435,-35.41,0,-32.3997 1/2:16:0,8,8:0:0:8,8:274,284:-45.3356,-23.3787,-20.9705,-22.3028,0,-19.8945 1/2:104:0,74,30:0:0:74,30:2566,1053:-289.77,-85.8299,-63.5537,-204.287,0,-195.256 1/2:77:0,65,12:0:0:65,12:2270,419:-215.982,-34.0904,-14.5235,-182.237,0,-178.624 1/1:37:0,37,0:0:0:37,0:1298,0:-114.664,-11.1381,0,-114.664,-11.1381,-114.664 1/1:106:0,105,1:0:0:105,1:3663,36:-318.095,-31.6082,0,-315.157,-28.3109,-314.856 chr09 2952401 . T A 848.458 PASS AB=0.266361;ABP=828.963;AC=11;AF=0.261905;AN=42;AO=573;CIGAR=1X;DP=4399;DPB=4399;DPRA=2.30548;EPP=1238.59;EPPR=8228.73;GTI=8;LEN=1;MEANALT=1.14286;MQM=24.6248;MQMR=36.9867;NS=21;NUMALT=1;ODDS=4.0981;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19322;QR=136947;RO=3824;RPL=572;RPP=1238.59;RPPR=8228.73;RPR=1;RUN=1;SAF=573;SAP=1247.26;SAR=0;SRF=3824;SRP=8306.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:284:229,55:229:8203:55:1761:-33.5083,0,-559.703 0/0:591:522,69:522:18708:69:2338:0,-43.6618,-1300.76 0/1:108:67,41:67:2393:41:1411:-59.3995,0,-156.111 0/1:90:57,33:57:2052:33:1078:-42.4617,0,-135.986 0/1:357:226,130:226:8089:130:4440:-182.22,0,-526.296 0/1:300:250,50:250:8963:50:1716:-6.0183,0,-603.961 0/1:209:156,53:156:5583:53:1788:-37.6823,0,-390.958 0/1:49:28,21:28:993:21:714:-29.3638,0,-73.3341 0/1:204:165,39:165:5901:39:1290:-24.7335,0,-386.851 0/1:42:35,7:35:1256:7:245:-2.31686,0,-86.9624 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:18:18,0:18:648:0:0:0,-5.41854,-56.6823 0/0:56:56,0:56:1989:0:0:0,-16.8577,-161.727 0/0:141:141,0:141:5056:0:0:0,-42.4452,-416.61 0/0:240:240,0:240:8604:0:0:0,-72.2472,-693.909 0/0:271:271,0:271:9716:0:0:0,-81.5791,-756.915 0/0:1235:1196,39:1196:42793:39:1317:0,-285.379,-3115.85 0/1:55:39,16:39:1400:16:542:-17.6773,0,-108.132 0/1:44:24,19:24:864:19:646:-29.6638,0,-63.7618 0/0:47:46,1:46:1656:1:36:0,-11.7749,-140.808 0/0:51:51,0:51:1828:0:0:0,-15.3525,-151.289 chr09 2952409 . 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G A 13653.9 PASS AB=0.38682;ABP=340.693;AC=24;AF=0.571429;AN=42;AO=1415;CIGAR=1X;DP=4433;DPB=4433;DPRA=0;EPP=3075.64;EPPR=6552.17;GTI=6;LEN=1;MEANALT=1.04762;MQM=43.4148;MQMR=31.307;NS=21;NUMALT=1;ODDS=1.81936;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50049;QR=107074;RO=3016;RPL=1415;RPP=3075.64;RPPR=6431.13;RPR=0;RUN=1;SAF=1415;SAP=3075.64;SAR=0;SRF=3002;SRP=6431.13;SRR=14;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:294:173,121:173:6110:121:4295:-241.947,0,-369.869 0/1:583:470,113:470:16675:113:4006:-97.2229,0,-1091.41 0/1:114:49,65:49:1726:65:2274:-130.345,0,-94.2157 0/1:99:41,58:41:1468:58:2029:-117.531,0,-78.4778 0/1:369:161,208:161:5700:208:7334:-413.587,0,-316.767 0/1:297:225,72:225:8016:72:2538:-76.298,0,-525.932 0/1:213:95,118:95:3367:118:4197:-240.688,0,-193.416 1/1:58:1,57:1:32:57:2040:-147.669,-14.5606,0 0/1:206:143,63:143:5037:63:2227:-100.12,0,-317.798 0/1:40:25,15:25:896:15:536:-27.8055,0,-56.5764 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:19:4,15:4:144:15:531:-41.5413,0,-5.58222 0/1:56:33,23:33:1184:23:815:-56.7432,0,-71.9805 0/1:142:71,71:71:2526:71:2517:-183.999,0,-140.791 0/1:239:132,107:132:4706:107:3787:-261.764,0,-277.357 0/1:267:202,65:202:7179:65:2291:-124.164,0,-456.155 0/0:1226:1151,73:1151:40884:73:2589:0,-176.318,-2862.79 1/1:60:1,59:1:36:59:2089:-163.745,-15.0073,0 1/1:47:2,45:2:72:45:1588:-115.009,-8.48498,0 0/1:47:9,38:9:324:38:1348:-105.261,0,-10.7605 0/1:50:28,22:28:992:22:770:-54.5678,0,-61.6665 chr09 3062502 . T G 101663 PASS AB=0.492922;ABP=6.97557;AC=20;AF=0.47619;AN=42;AO=4492;CIGAR=1X;DP=9319;DPB=9319;DPRA=2.21189;EPP=9757.26;EPPR=10478.2;GTI=0;LEN=1;MEANALT=1.15;MQM=57.6716;MQMR=59.7434;NS=21;NUMALT=1;ODDS=8.50342;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=159526;QR=170592;RO=4824;RPL=2589;RPP=230.501;RPPR=9836.88;RPR=1903;RUN=1;SAF=2589;SAP=230.501;SAR=1903;SRF=4749;SRP=9836.88;SRR=75;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:593:384,208:384:13598:208:7430:-489.908,0,-1044.68 0/1:460:276,184:276:9782:184:6551:-450.39,0,-741.308 0/1:310:211,99:211:7454:99:3498:-221.576,0,-577.585 0/1:482:305,177:305:10747:177:6299:-421.547,0,-821.698 0/1:1461:705,756:705:24964:756:26827:-1971.63,0,-1805.5 0/1:536:220,316:220:7815:316:11265:-850.614,0,-541.78 0/1:739:282,457:282:9924:457:16170:-1228.87,0,-669.559 0/0:206:206,0:206:7296:0:0:0,-62.0122,-656.583 0/1:800:567,232:567:20130:232:8240:-499.787,0,-1566.22 0/1:160:133,27:133:4711:27:950:-37.6216,0,-375.978 0/1:52:47,5:47:1667:5:180:-0.898505,0,-134.557 0/1:7:5,2:5:180:2:72:-4.71982,0,-14.4449 0/1:488:345,143:345:12209:143:5079:-309.432,0,-951.757 0/1:427:147,280:147:5191:280:9861:-758.422,0,-338.765 0/1:532:138,394:138:4859:394:14006:-1099.59,0,-277.184 0/1:366:88,278:88:3135:278:9887:-779.28,0,-172.155 0/1:448:169,279:169:5983:279:9937:-759.127,0,-403.659 0/1:275:210,65:210:7278:65:2308:-125.078,0,-572.283 0/1:182:109,73:109:3872:73:2570:-176.404,0,-293.74 0/1:624:209,415:209:7402:415:14777:-1140,0,-478.198 0/1:171:68,102:68:2395:102:3619:-273.933,0,-163.622 chr09 3121373 . TGC CGC 7643.87 PASS AB=0.52497;ABP=7.4564;AC=16;AF=0.380952;AN=42;AO=448;CIGAR=1X2M;DP=1241;DPB=1241;DPRA=0.883249;EPP=975.83;EPPR=1631.8;GTI=2;LEN=1;MEANALT=1.44444;MQM=59.9933;MQMR=59.9608;NS=21;NUMALT=1;ODDS=0.412369;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16014;QR=27002;RO=766;RPL=448;RPP=975.83;RPPR=1640.4;RPR=0;RUN=1;SAF=0;SAP=975.83;SAR=448;SRF=1;SRP=1657.68;SRR=765;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:41,61:41:1441:61:2176:-165.042,0,-98.9203 0/1:43:23,20:23:803:20:720:-52.1845,0,-59.6442 0/1:47:20,25:20:700:25:883:-65.8818,0,-49.4178 0/1:38:15,23:15:530:23:824:-63.0442,0,-36.5926 0/1:124:59,64:59:2094:64:2304:-170.234,0,-151.342 0/1:45:17,27:17:580:27:964:-73.4718,0,-38.9152 0/1:62:16,46:16:554:46:1644:-129.585,0,-31.4974 0/1:73:34,39:34:1208:39:1396:-103.964,0,-87.0504 0/0:119:119,0:119:4206:0:0:0,-35.8226,-378.725 0/0:8:8,0:8:286:0:0:0,-2.40824,-26.0855 1/1:17:0,14:0:0:14:500:-44.9823,-4.21442,0 0/1:25:6,9:6:214:9:324:-24.6353,0,-14.7383 0/0:70:70,0:70:2463:0:0:0,-21.0721,-221.924 0/0:64:62,1:62:2195:1:36:0,-15.7264,-194.216 0/1:71:45,26:45:1579:26:936:-63.1863,0,-121.026 0/1:44:25,19:25:886:19:667:-47.1093,0,-66.8134 0/1:41:21,20:21:756:20:712:-52.0644,0,-56.025 0/1:68:24,38:24:830:38:1356:-103.319,0,-55.994 0/1:35:21,14:21:731:14:500:-34.8001,0,-55.5727 0/0:98:97,1:97:3418:1:36:0,-25.9027,-304.239 0/0:44:43,1:43:1528:1:36:0,-9.64704,-134.214 chr09 3135364 . T C 20916.6 PASS AB=0.510549;ABP=4.15559;AC=27;AF=0.642857;AN=42;AO=1078;CIGAR=1X;DP=1659;DPB=1659;DPRA=0;EPP=2343.86;EPPR=1264.64;GTI=0;LEN=1;MEANALT=1;MQM=59.9555;MQMR=59.9484;NS=21;NUMALT=1;ODDS=7.96301;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38249;QR=20842;RO=581;RPL=0;RPP=2343.86;RPPR=1264.64;RPR=1078;RUN=1;SAF=0;SAP=2343.86;SAR=1078;SRF=0;SRP=1264.64;SRR=581;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:36,22:36:1288:22:783:-53.3332,0,-98.7638 0/1:33:9,24:9:324:24:864:-68.1486,0,-19.5719 0/1:89:52,37:52:1868:37:1310:-91.4084,0,-141.608 0/1:28:18,10:18:648:10:351:-23.4978,0,-50.223 0/1:189:93,96:93:3336:96:3415:-250.671,0,-243.191 0/1:94:48,46:48:1720:46:1639:-119.501,0,-126.789 0/1:155:78,77:78:2804:77:2703:-196.852,0,-205.939 0/1:112:58,54:58:2075:54:1919:-139.271,0,-153.304 1/1:120:0,120:0:0:120:4286:-385.918,-36.1236,0 1/1:5:0,5:0:0:5:167:-15.3584,-1.50515,0 0/1:10:3,7:3:108:7:244:-19.2891,0,-7.06487 0/1:37:18,19:18:644:19:666:-49.1255,0,-47.1525 1/1:131:0,131:0:0:131:4654:-419.024,-39.4349,0 1/1:117:0,117:0:0:117:4148:-373.305,-35.2205,0 0/1:125:61,64:61:2184:64:2253:-165.403,0,-159.197 0/1:41:14,27:14:504:27:957:-74.1025,0,-33.3559 0/1:30:14,16:14:504:16:576:-43.1441,0,-36.6672 0/1:90:49,41:49:1755:41:1458:-104.422,0,-131.141 0/1:94:29,65:29:1044:65:2283:-177.432,0,-65.978 1/1:46:0,46:0:0:46:1644:-148.249,-13.8474,0 1/1:55:1,54:1:36:54:1929:-170.287,-12.9584,0 chr09 3164332 . CACA CACC,TACC 40619.5 PASS AB=0.513444,0.476312;ABP=5.46259,10.623;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1280,753;CIGAR=3M1X,1X2M1X;DP=2054;DPB=2054;DPRA=0,2.07868;EPP=2773.82,1638.13;EPPR=11.6962;GTI=0;LEN=1,4;MEANALT=2.47619,2.52632;MQM=59.9086,59.8088;MQMR=60;NS=21;NUMALT=2;ODDS=4.45678;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45296,25895;QR=107;RO=4;RPL=1,0;RPP=2773.82,1638.13;RPPR=11.6962;RPR=1279,753;RUN=1,1;SAF=1280,753;SAP=2782.49,1638.13;SAR=0,0;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:107:0,48,59:0:0:48,59:1695,2007:-301.174,-163.135,-148.686,-138.386,0,-120.625 1/2:125:0,81,44:0:0:81,44:2878,1537:-359.898,-125.376,-100.992,-234.873,0,-221.628 1/2:105:0,40,65:0:0:40,65:1409,2295:-301.958,-187.245,-175.204,-115.065,0,-95.4984 1/2:167:0,90,76:0:0:90,76:3161,2626:-469.988,-213.344,-186.252,-256.632,0,-233.754 1/2:152:0,76,70:0:0:76,70:2704,2402:-415.433,-195.054,-172.176,-220.417,0,-199.345 1/2:99:0,47,50:0:0:47,50:1668,1672:-271.141,-135.34,-121.191,-135.867,0,-120.815 1/2:218:0,127,91:0:0:127,91:4487,3134:-620.317,-254.894,-216.663,-365.771,0,-338.378 1/2:73:0,36,37:0:0:36,37:1272,1290:-208.855,-105.261,-94.4237,-103.945,0,-92.8072 1/1:132:0,129,3:0:0:129,3:4574,108:-411.469,-38.8329,0,-402.657,-29.6608,-401.754 1/1:19:0,19,0:0:0:19,0:684,0:-61.8903,-5.71957,0,-61.8903,-5.71957,-61.8903 1/2:5:0,4,1:0:0:4,1:140,35:-14.5882,-3.1976,-1.99348,-11.7405,0,-11.4394 1/2:29:0,14,15:0:0:14,15:500,516:-83.0202,-42.249,-38.0346,-41.1218,0,-36.6063 1/1:82:0,81,1:0:0:81,1:2870,35:-258.187,-24.3834,0,-255.339,-21.1858,-255.038 1/1:106:1,104,1:1:29:104,1:3707,36:-330.898,-29.0334,0,-328.262,-28.3348,-330.269 1/2:114:0,43,71:0:0:43,71:1524,2402:-319.221,-195.06,-182.116,-124.509,0,-103.136 1/2:105:0,46,59:0:0:46,59:1623,2059:-299.981,-167.821,-153.974,-132.511,0,-114.75 1/2:102:0,53,48:0:0:53,48:1904,1675:-291.636,-136.306,-120.351,-155.402,0,-140.952 1/2:84:1,43,38:1:29:43,38:1509,1271:-223.093,-100.578,-89.9417,-120.565,0,-111.433 1/2:77:1,54,20:1:28:54,20:1874,661:-203.287,-51.2416,-37.2025,-150.143,0,-146.34 1/1:73:0,68,4:0:0:68,4:2385,134:-213.948,-20.47,0,-203.098,-9.57518,-201.893 1/1:80:1,77,0:1:21:77,0:2728,0:-243.613,-21.6154,0,-243.914,-23.1793,-245.501 chr09 3431217 . C G 22735.6 PASS AB=0.518929;ABP=6.38079;AC=27;AF=0.642857;AN=42;AO=1131;CIGAR=1X;DP=1654;DPB=1654;DPRA=0;EPP=2441.6;EPPR=1136.52;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.5668;MQMR=59.9444;NS=21;NUMALT=1;ODDS=0.240492;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40402;QR=18695;RO=522;RPL=2;RPP=2441.6;RPPR=1136.52;RPR=1129;RUN=1;SAF=1131;SAP=2458.95;SAR=0;SRF=522;SRP=1136.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:27,63:27:960:63:2256:-175.794,0,-59.2639 0/1:64:24,40:24:856:40:1440:-110.314,0,-58.0952 0/1:64:31,33:31:1112:33:1176:-86.8766,0,-81.1254 0/1:151:63,88:63:2255:88:3145:-237.573,0,-157.757 0/1:237:122,115:122:4380:115:4090:-296.76,0,-322.959 0/1:77:36,41:36:1284:41:1476:-109.957,0,-92.6841 0/1:129:83,46:83:2976:46:1641:-109.144,0,-229.23 0/1:40:22,18:22:792:18:643:-46.1292,0,-59.5645 1/1:152:0,152:0:0:152:5387:-484.907,-45.7566,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:34:17,17:17:612:17:612:-45.1784,0,-45.1784 1/1:112:0,112:0:0:112:4016:-361.58,-33.7154,0 1/1:176:1,175:1:36:175:6239:-557.863,-49.383,0 0/1:16:14,2:14:504:2:72:-2.02024,0,-40.8816 0/1:59:23,36:23:816:36:1288:-98.4624,0,-56.0009 0/1:44:25,19:25:900:19:684:-48.645,0,-68.0757 0/1:31:15,16:15:540:16:576:-42.8431,0,-39.6046 0/1:41:16,25:16:564:25:896:-68.6181,0,-38.7481 1/1:80:1,79:1:36:79:2821:-250.465,-20.4841,0 1/1:39:0,39:0:0:39:1404:-126.551,-11.7402,0 chr09 3431232 . T C 8561.66 PASS AB=0.482662;ABP=5.79638;AC=15;AF=0.357143;AN=42;AO=517;CIGAR=1X;DP=1626;DPB=1626;DPRA=0.994893;EPP=1116.99;EPPR=2342.19;GTI=0;LEN=1;MEANALT=1;MQM=59.9439;MQMR=59.606;NS=21;NUMALT=1;ODDS=0.689753;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18496;QR=39671;RO=1109;RPL=1;RPP=1116.99;RPPR=2342.19;RPR=516;RUN=1;SAF=517;SAP=1125.66;SAR=0;SRF=1109;SRP=2411.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:63,26:63:2245:26:926:-56.8653,0,-175.463 0/1:63:40,23:40:1427:23:824:-55.5184,0,-109.444 0/1:64:33,31:33:1184:31:1104:-80.4047,0,-87.5908 0/1:147:86,61:86:3068:61:2196:-153.654,0,-231.85 0/1:232:109,123:109:3896:123:4383:-324.798,0,-280.874 0/1:76:41,35:41:1472:35:1252:-90.1068,0,-109.898 0/1:129:46,83:46:1640:83:2988:-230.296,0,-109.056 0/1:39:18,21:18:648:21:756:-56.6271,0,-46.8667 0/0:151:151,0:151:5403:0:0:0,-45.4555,-486.325 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:34:17,17:17:599:17:612:-45.1784,0,-44.0031 0/0:109:109,0:109:3903:0:0:0,-32.8123,-351.415 0/0:169:168,1:168:6003:1:36:0,-47.2758,-536.664 0/1:16:2,14:2:72:14:495:-40.0666,0,-2.02024 0/1:56:33,23:33:1184:23:812:-56.5432,0,-90.0102 0/1:43:19,24:19:684:24:864:-65.1383,0,-48.946 0/1:33:16,17:16:572:17:604:-44.7561,0,-41.8794 0/1:41:26,15:26:936:15:536:-36.2326,0,-72.2172 0/0:79:78,1:78:2795:1:36:0,-20.1831,-248.138 0/0:38:38,0:38:1364:0:0:0,-11.4391,-122.952 chr09 3431240 . T C 22723.8 PASS AB=0.521008;ABP=7.11603;AC=27;AF=0.642857;AN=42;AO=1122;CIGAR=1X;DP=1637;DPB=1637;DPRA=0;EPP=2413.41;EPPR=1121.32;GTI=0;LEN=1;MEANALT=1;MQM=59.5784;MQMR=60;NS=21;NUMALT=1;ODDS=0.0925005;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40202;QR=18480;RO=515;RPL=1119;RPP=2413.41;RPPR=1121.32;RPR=3;RUN=1;SAF=1122;SAP=2439.4;SAR=0;SRF=515;SRP=1121.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:27,63:27:964:63:2241:-174.846,0,-59.9841 0/1:63:23,40:23:828:40:1440:-110.615,0,-55.8792 0/1:64:31,33:31:1116:33:1170:-86.3362,0,-81.4858 0/1:150:63,87:63:2256:87:3106:-234.367,0,-158.148 0/1:231:119,112:119:4268:112:4012:-291.549,0,-314.76 0/1:75:35,40:35:1256:40:1437:-107.051,0,-90.768 0/1:129:82,47:82:2936:47:1684:-113.014,0,-225.641 0/1:39:21,18:21:756:18:644:-46.5188,0,-56.6271 1/1:149:0,149:0:0:149:5352:-481.727,-44.8535,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:34:17,17:17:612:17:608:-44.817,0,-45.1784 1/1:111:0,111:0:0:111:3992:-359.403,-33.4143,0 1/1:175:1,174:1:36:174:6235:-557.504,-49.082,0 0/1:16:14,2:14:504:2:72:-2.02024,0,-40.8816 0/1:57:22,35:22:788:35:1245:-95.1936,0,-54.0861 0/1:44:25,19:25:900:19:680:-48.2838,0,-68.0757 0/1:32:16,16:16:576:16:576:-42.542,0,-42.542 0/1:42:16,26:16:576:26:936:-71.9162,0,-39.5317 1/1:79:1,78:1:36:78:2792:-247.858,-20.1831,0 1/1:39:0,39:0:0:39:1404:-126.551,-11.7402,0 chr09 3431269 . A T,C 35282.2 PASS AB=0.516822,0.482243;ABP=5.64042,5.94077;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1115,517;CIGAR=1X,1X;DP=1634;DPB=1634;DPRA=0,0.9868;EPP=2424.2,1125.66;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=1.7619,2;MQM=59.6359,59.9671;MQMR=57;NS=21;NUMALT=2;ODDS=0.584309;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39817,18390;QR=72;RO=2;RPL=1094,511;RPP=2245.23,1074.15;RPPR=7.35324;RPR=21,6;RUN=1,1;SAF=1094,511;SAP=2245.23,1074.15;SAR=21,6;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,63,30:0:0:63,30:2255,1071:-271.504,-87.6707,-68.7058,-184.191,0,-175.16 1/2:64:0,41,23:0:0:41,23:1476,824:-187.677,-67.5596,-55.2174,-120.476,0,-113.552 1/2:64:0,34,30:0:0:34,30:1224,1055:-186.077,-86.2291,-75.9941,-100.204,0,-91.1727 1/2:149:0,86,63:0:0:86,63:3080,2221:-432.197,-181.188,-155.3,-251.364,0,-232.399 1/2:232:0,109,123:0:0:109,123:3885,4379:-673.758,-357.23,-324.417,-316.885,0,-279.858 1/2:76:0,42,34:0:0:42,34:1504,1204:-221.086,-98.4308,-85.7876,-123.011,0,-112.776 1/2:125:0,45,80:0:0:45,80:1604,2844:-362.865,-232.117,-218.571,-131.104,0,-107.021 1/2:38:0,17,21:0:0:17,21:612,752:-111.599,-61.6846,-56.5671,-50.2734,0,-43.9518 1/1:154:0,154,0:0:0:154,0:5496,0:-494.701,-46.3586,0,-494.701,-46.3586,-494.701 1/1:13:0,13,0:0:0:13,0:445,0:-40.3754,-3.91339,0,-40.3754,-3.91339,-40.3754 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:34:0,17,17:0:0:17,17:612,612:-100.232,-50.2959,-45.1784,-50.2959,0,-45.1784 1/1:112:0,112,0:0:0:112,0:4024,0:-362.29,-33.7154,0,-362.29,-33.7154,-362.29 1/1:171:0,170,1:0:0:170,1:6039,36:-543.112,-51.1751,0,-540.175,-47.8779,-539.874 1/2:16:0,2,14:0:0:2,14:72,492:-46.2738,-40.3979,-39.7959,-6.23466,0,-2.02024 1/2:58:0,36,22:0:0:36,22:1265,788:-167.58,-64.6221,-53.7851,-103.313,0,-96.6904 1/2:44:1,19,24:1:36:19,24:680,860:-122.351,-67.1999,-64.4178,-52.5123,0,-48.2252 1/2:31:0,14,17:0:0:14,17:500,612:-91.0594,-50.2959,-46.0815,-41.1218,0,-36.0042 1/2:41:0,25,16:0:0:25,16:892,568:-119.354,-46.6354,-39.1096,-73.0739,0,-68.2575 1/1:77:0,77,0:0:0:77,0:2756,0:-248.24,-23.1793,0,-248.24,-23.1793,-248.24 1/1:37:1,36,0:1:36:36,0:1288,0:-112.527,-7.54494,0,-112.828,-10.8371,-115.76 chr09 3431337 . T C 42200.9 PASS AB=0.591154;ABP=136.817;AC=27;AF=0.642857;AN=42;AO=2071;CIGAR=1X;DP=2830;DPB=2830;DPRA=0;EPP=4465.45;EPPR=1633.83;GTI=1;LEN=1;MEANALT=1;MQM=58.2921;MQMR=59.9302;NS=21;NUMALT=1;ODDS=8.89007;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74060;QR=26787;RO=759;RPL=2067;RPP=4465.45;RPPR=1633.83;RPR=4;RUN=1;SAF=0;SAP=4500.13;SAR=2071;SRF=0;SRP=1651.16;SRR=759;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:202:71,131:71:2525:131:4677:-359.456,0,-166.692 0/1:109:39,70:39:1368:70:2516:-193.192,0,-90.6062 0/1:157:83,74:83:2916:74:2656:-191.878,0,-215.417 0/1:139:66,73:66:2318:73:2597:-191.864,0,-167.035 0/1:294:105,189:105:3720:189:6754:-518.938,0,-246.502 0/1:162:63,99:63:2248:99:3556:-270.851,0,-153.811 0/1:162:77,85:77:2720:85:3047:-225.381,0,-195.909 0/1:111:55,56:55:1956:56:1993:-146.012,0,-142.901 1/1:308:1,307:1:36:307:10983:-984.248,-89.119,0 1/1:12:0,12:0:0:12:420:-38.1236,-3.61236,0 0/1:11:1,10:1:36:10:356:-29.0168,0,-0.286945 0/1:28:14,14:14:492:14:504:-37.2492,0,-36.1835 1/1:319:0,319:0:0:319:11437:-1027.61,-96.0286,0 1/1:148:0,148:0:0:148:5262:-472.792,-44.5524,0 0/1:196:89,107:89:3152:107:3831:-285.814,0,-224.906 0/1:64:28,36:28:992:36:1277:-95.9424,0,-70.3194 0/1:90:31,59:31:1073:59:2116:-163.565,0,-69.7832 0/1:27:18,9:18:595:9:324:-21.3698,0,-45.731 0/1:102:18,84:18:640:84:3008:-240.125,0,-27.2233 1/1:164:0,164:0:0:164:5861:-526.41,-49.3689,0 1/1:25:0,25:0:0:25:885:-79.8965,-7.52575,0 chr09 3431359 . 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G T 18332.1 PASS AB=0.454218;ABP=48.5418;AC=15;AF=0.357143;AN=42;AO=1141;CIGAR=1X;DP=3341;DPB=3341;DPRA=1.31822;EPP=2480.66;EPPR=4778.08;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9124;MQMR=59.9859;NS=21;NUMALT=1;ODDS=18.0926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40546;QR=78763;RO=2199;RPL=1141;RPP=2480.66;RPPR=4778.08;RPR=0;RUN=1;SAF=0;SAP=2480.66;SAR=1141;SRF=0;SRP=4778.08;SRR=2199;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:102,77:102:3656:77:2738:-192.766,0,-275.359 0/1:120:65,55:65:2324:55:1931:-137.937,0,-173.297 0/1:162:100,62:100:3596:62:2202:-149.675,0,-275.078 0/1:163:73,90:73:2628:90:3202:-239.325,0,-187.699 0/1:253:148,105:148:5292:105:3749:-261.449,0,-400.227 0/1:97:64,33:64:2284:33:1188:-78.0287,0,-176.622 0/1:274:144,130:144:5163:130:4668:-337.79,0,-382.327 0/1:349:174,175:174:6214:175:6146:-448.169,0,-454.296 0/0:275:274,1:274:9844:1:36:0,-79.185,-882.3 0/0:51:49,2:49:1729:2:72:0,-8.51581,-149.056 0/1:14:8,6:8:288:6:212:-15.2104,0,-22.053 0/1:47:22,25:22:788:25:881:-65.4575,0,-57.0964 0/0:90:90,0:90:3213:0:0:0,-27.0927,-289.391 0/0:209:209,0:209:7500:0:0:0,-62.9153,-675.039 0/1:384:194,190:194:6936:190:6805:-496.836,0,-508.712 0/1:70:47,23:47:1688:23:813:-52.3994,0,-131.135 0/1:117:69,48:69:2476:48:1698:-117.882,0,-187.873 0/1:143:56,87:56:2012:87:3065:-233.03,0,-138.306 0/1:129:99,30:99:3524:30:1068:-57.5537,0,-278.536 0/0:139:136,2:136:4884:2:72:0,-35.0652,-432.874 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.4 chr09 3781169 . TGCAAC TTC,TAA 20413.3 PASS AB=0.563158,0.436842;ABP=22.7593,22.7593;AC=26,16;AF=0.619048,0.380952;AN=42;AO=727,256;CIGAR=1M3D1X1M,1M3D1M1X;DP=984;DPB=492;DPRA=6.97857,0.567076;EPP=1555.72,541.671;EPPR=0;GTI=1;LEN=3,3;MEANALT=1.75,1.93333;MQM=54.1087,41.1797;MQMR=0;NS=21;NUMALT=2;ODDS=9.93402;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26007,8874;QR=0;RO=0;RPL=3,2;RPP=1555.72,541.671;RPPR=0;RPR=724,254;RUN=1,1;SAF=727,256;SAP=1581.67,558.907;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:34:0,18,16:0:0:18,16:648,553:-97.1186,-44.2805,-38.862,-53.1865,0,-48.37 1/2:46:0,21,25:0:0:21,25:752,888:-129.239,-68.3052,-61.9836,-61.28,0,-53.7542 1/2:38:0,29,9:0:0:29,9:1044,324:-110.664,-25.6708,-16.9409,-85.342,0,-82.6327 1/2:63:0,35,28:0:0:35,28:1259,975:-179.607,-77.2356,-66.6996,-102.719,0,-94.2899 1/2:55:0,30,25:0:0:30,25:1076,876:-156.535,-69.0517,-60.0208,-87.8306,0,-80.3048 1/2:40:0,21,19:0:0:21,19:756,642:-110.359,-49.0444,-42.7228,-61.6517,0,-55.9321 1/2:45:0,27,18:0:0:27,18:968,606:-125.637,-47.1955,-39.0676,-78.7776,0,-73.3591 1/2:71:0,45,26:0:0:45,26:1603,897:-200.899,-70.4245,-56.8782,-130.815,0,-122.989 1/1:64:0,64,0:0:0:64,0:2292,0:-206.208,-19.2659,0,-206.208,-19.2659,-206.208 1/1:4:0,4,0:0:0:4,0:144,0:-13.2947,-1.20412,0,-13.2947,-1.20412,-13.2947 1/2:7:0,2,5:0:0:2,5:72,174:-19.7148,-13.849,-13.247,-6.21747,0,-4.71232 2/2:7:0,0,7:0:0:0,7:0,244:-21.6925,-21.6925,-21.6925,-2.10721,-2.10721,0 1/1:135:0,135,0:0:0:135,0:4823,0:-432.834,-40.6391,0,-432.834,-40.6391,-432.834 1/1:66:0,66,0:0:0:66,0:2359,0:-211.966,-19.868,0,-211.966,-19.868,-211.966 1/2:60:0,36,24:0:0:36,24:1292,811:-168.637,-63.6183,-52.7812,-105.358,0,-98.133 1/2:37:0,24,13:0:0:24,13:854,454:-105.37,-36.3665,-29.1418,-69.3487,0,-65.4353 1/2:32:0,12,20:0:0:12,20:432,692:-90.8613,-55.7898,-52.1774,-35.4234,0,-29.4028 1/2:21:0,8,13:0:0:8,13:288,452:-59.4128,-35.942,-33.5337,-23.8219,0,-19.9085 1/2:21:0,13,8:0:0:13,8:459,286:-60.4889,-23.1377,-19.2243,-37.7021,0,-35.2939 1/1:100:0,100,0:0:0:100,0:3566,0:-320.429,-30.103,0,-320.429,-30.103,-320.429 1/1:38:0,37,0:0:0:37,0:1320,0:-117.931,-11.1381,0,-117.931,-11.1381,-117.931 chr09 3781191 . TCACAAAT TCATAAAC,CCATAAAC 19785 PASS AB=0.561739,0.426087;ABP=22.0475,30.2953;AC=26,16;AF=0.619048,0.380952;AN=42;AO=731,253;CIGAR=3M1X3M1X,1X2M1X3M1X;DP=991;DPB=991;DPRA=7.02857,0.692979;EPP=1590.36,552.393;EPPR=0;GTI=1;LEN=8,8;MEANALT=2.05,2.3125;MQM=54.1628,41.4229;MQMR=0;NS=21;NUMALT=2;ODDS=7.3038;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25650,8822;QR=0;RO=0;RPL=731,253;RPP=1590.36,552.393;RPPR=0;RPR=0,0;RUN=1,1;SAF=731,253;SAP=1590.36,552.393;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:36:0,19,17:0:0:19,17:646,590:-99.616,-47.2624,-41.5429,-52.6935,0,-47.576 1/2:45:0,21,24:0:0:21,24:738,854:-125.416,-65.7131,-59.3915,-60.0461,0,-52.8213 1/2:39:0,30,9:0:0:30,9:1063,309:-110.91,-24.4408,-15.4099,-86.8054,0,-84.0961 1/2:63:0,35,27:0:0:35,27:1241,951:-176.087,-75.375,-64.8389,-100.806,0,-92.6784 1/2:56:0,31,24:0:0:31,24:1083,831:-154.237,-66.3281,-56.9961,-88.0588,0,-80.8341 1/2:41:0,21,20:0:0:21,20:739,707:-113.81,-53.993,-47.6714,-60.1575,0,-54.1369 1/2:45:0,26,18:0:0:26,18:924,611:-122.229,-47.2771,-39.4503,-74.9915,0,-69.573 1/2:73:0,47,26:0:0:47,26:1629,905:-203.502,-71.2847,-57.1363,-132.557,0,-124.73 1/1:64:0,64,0:0:0:64,0:2237,0:-201.305,-19.2659,0,-201.305,-19.2659,-201.305 1/1:4:0,4,0:0:0:4,0:138,0:-12.7445,-1.20412,0,-12.7445,-1.20412,-12.7445 1/2:7:0,2,5:0:0:2,5:71,173:-19.5468,-13.77,-13.168,-6.12456,0,-4.61941 2/2:7:0,0,7:0:0:0,7:0,247:-21.9102,-21.9102,-21.9102,-2.10721,-2.10721,0 1/1:135:0,135,0:0:0:135,0:4753,0:-426.046,-40.6391,0,-426.046,-40.6391,-426.046 1/1:67:0,67,0:0:0:67,0:2336,0:-209.951,-20.169,0,-209.951,-20.169,-209.951 1/2:59:0,34,21:0:0:34,21:1203,742:-156.977,-59.1519,-48.9169,-97.8531,0,-91.5315 1/2:36:0,23,13:0:0:23,13:813,456:-102.674,-36.5884,-29.6647,-66.4323,0,-62.5189 1/2:32:0,12,20:0:0:12,20:419,675:-88.3833,-54.4035,-50.7912,-34.3224,0,-28.3018 1/2:22:0,9,13:0:0:9,13:320,455:-62.1827,-36.2039,-33.4946,-26.3271,0,-22.4137 1/2:21:0,13,8:0:0:13,8:448,281:-59.1118,-22.7434,-18.83,-36.7129,0,-34.3046 1/1:101:0,100,1:0:0:100,1:3519,35:-315.79,-30.103,0,-313.029,-27.0013,-312.728 1/1:38:0,38,0:0:0:38,0:1330,0:-119.085,-11.4391,0,-119.085,-11.4391,-119.085 chr09 3789163 . G A 25338.3 PASS AB=0.500383;ABP=3.01196;AC=27;AF=0.642857;AN=42;AO=1266;CIGAR=1X;DP=1921;DPB=1921;DPRA=0;EPP=1551;EPPR=336.154;GTI=0;LEN=1;MEANALT=1;MQM=36.8341;MQMR=59.5634;NS=21;NUMALT=1;ODDS=0.286345;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45320;QR=23180;RO=655;RPL=1108;RPP=1551;RPPR=336.154;RPR=158;RUN=1;SAF=1266;SAP=2752.09;SAR=0;SRF=655;SRP=1425.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:48,45:48:1703:45:1616:-79.5285,0,-125.502 0/1:72:49,23:49:1748:23:824:-31.3754,0,-135.862 0/1:69:32,37:32:1136:37:1332:-93.4983,0,-81.7775 0/1:105:61,44:61:2124:44:1580:-104.248,0,-159.809 0/1:174:90,84:90:3172:84:2994:-188.833,0,-232.969 0/1:41:18,23:18:635:23:824:-51.8214,0,-45.1058 0/1:124:65,59:65:2312:59:2120:-133.564,0,-170.976 0/1:80:44,36:44:1561:36:1292:-85.1193,0,-116.697 1/1:237:2,235:2:72:235:8428:-711.154,-64.5074,0 1/1:20:0,20:0:0:20:720:-60.9949,-6.0206,0 0/1:4:1,3:1:36:3:108:-8.03315,0,-2.39415 0/1:67:25,42:25:877:42:1499:-105.928,0,-59.0762 1/1:115:0,115:0:0:115:4100:-352.077,-34.6185,0 1/1:108:0,108:0:0:108:3880:-328.942,-32.5112,0 0/1:137:70,67:70:2500:67:2412:-151.621,0,-184.01 0/1:70:18,52:18:644:52:1864:-92.6351,0,-37.2176 0/1:87:46,41:46:1635:41:1464:-65.3783,0,-120.891 0/1:123:72,51:72:2529:51:1815:-116.994,0,-190.774 0/1:61:14,47:14:496:47:1667:-124.659,0,-26.6072 1/1:90:0,90:0:0:90:3224:-273.606,-27.0927,0 1/1:44:0,44:0:0:44:1557:-128.574,-13.2453,0 chr09 3789175 . G A 23165.9 PASS AB=0.496904;ABP=3.11787;AC=27;AF=0.642857;AN=42;AO=1246;CIGAR=1X;DP=1898;DPB=1898;DPRA=0;EPP=2104.08;EPPR=1054.92;GTI=1;LEN=1;MEANALT=1;MQM=36.7737;MQMR=59.5337;NS=21;NUMALT=1;ODDS=0.349378;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44497;QR=23059;RO=652;RPL=1172;RPP=2104.08;RPPR=1054.92;RPR=74;RUN=1;SAF=1246;SAP=2708.66;SAR=0;SRF=652;SRP=1418.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:50,41:50:1776:41:1476:-68.126,0,-132.673 0/1:73:50,23:50:1779:23:828:-31.0885,0,-138.349 0/1:67:31,36:31:1100:36:1288:-90.3695,0,-79.1413 0/1:104:59,45:59:2069:45:1609:-107.282,0,-155.151 0/1:170:89,81:89:3168:81:2881:-180.382,0,-234.128 0/1:39:18,21:18:644:21:756:-46.5917,0,-46.5219 0/1:121:65,56:65:2289:56:1995:-124.348,0,-169.81 0/1:79:44,35:44:1546:35:1256:-82.4079,0,-115.517 1/1:231:2,229:2:72:229:8156:-688.027,-62.7012,0 1/1:21:0,21:0:0:21:752:-63.8226,-6.32163,0 0/1:5:1,4:1:36:4:140:-10.4751,0,-2.09312 0/1:69:26,43:26:910:43:1537:-108.576,0,-61.4428 1/1:114:0,114:0:0:114:4056:-348.419,-34.3174,0 1/1:106:0,106:0:0:106:3796:-322.018,-31.9092,0 0/1:135:68,67:68:2411:67:2397:-152.598,0,-176.608 0/1:70:17,53:17:612:53:1904:-94.53,0,-34.3404 0/1:87:46,41:46:1639:41:1463:-64.4365,0,-121.568 0/1:122:72,50:72:2508:50:1786:-114.7,0,-187.818 0/1:60:14,46:14:500:46:1636:-122.307,0,-27.2702 1/1:90:0,90:0:0:90:3211:-272.664,-27.0927,0 1/1:44:0,44:0:0:44:1574:-129.192,-13.2453,0 chr09 3789223 . GCCC TCCT,GCCT 64968.8 PASS AB=0.521212,0.475991;ABP=11.3935,13.7502;AC=27,15;AF=0.642857,0.357143;AN=42;AO=2110,1023;CIGAR=1X2M1X,3M1X;DP=3140;DPB=3140;DPRA=0,0.946824;EPP=4567.46,2224.43;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.14286,2.35294;MQM=52.0597,59.6256;MQMR=0;NS=21;NUMALT=2;ODDS=8.95489;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74632,36667;QR=0;RO=0;RPL=2,0;RPP=4567.46,2224.43;RPPR=0;RPR=2108,1023;RUN=1,1;SAF=0,0;SAP=4584.82,2224.43;SAR=2110,1023;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:182:0,93,89:0:0:93,89:3280,3183:-525.741,-259.871,-231.875,-266.225,0,-239.433 1/2:83:0,33,50:0:0:33,50:1166,1796:-241.097,-146.81,-136.876,-94.6419,0,-79.5904 1/2:205:0,112,93:0:0:112,93:3944,3340:-591.51,-272.766,-239.051,-319.099,0,-291.103 1/2:159:0,75,84:0:0:75,84:2681,3008:-463.495,-245.652,-223.075,-218.2,0,-192.913 1/2:247:0,135,112:0:0:135,112:4751,4032:-713.939,-329.319,-288.68,-384.976,0,-351.26 1/2:89:0,43,46:0:0:43,46:1525,1652:-258.036,-134.92,-121.975,-123.471,0,-109.624 1/2:235:0,128,106:0:0:128,106:4487,3780:-671.307,-308.158,-269.626,-363.207,0,-331.298 1/2:192:0,104,86:0:0:104,86:3701,3084:-552.015,-251.6,-220.293,-300.473,0,-274.584 1/1:332:0,331,0:0:0:331,0:11750,0:-1052.26,-99.6409,0,-1052.26,-99.6409,-1052.26 1/1:35:0,35,0:0:0:35,0:1237,0:-111.36,-10.5361,0,-111.36,-10.5361,-111.36 1/2:22:0,16,6:0:0:16,6:561,216:-63.4878,-17.9843,-13.1679,-45.8605,0,-44.0543 1/2:46:0,24,22:0:0:24,22:857,784:-134.024,-64.2579,-57.0332,-70.1228,0,-63.5001 1/1:192:0,192,0:0:0:192,0:6793,0:-609.045,-57.7978,0,-609.045,-57.7978,-609.045 1/1:197:0,196,1:0:0:196,1:6928,36:-621.443,-59.0019,0,-618.505,-55.7046,-618.204 1/2:295:0,160,132:0:0:160,132:5675,4736:-846.153,-386.289,-338.125,-459.868,0,-420.132 1/2:88:0,47,41:0:0:47,41:1671,1472:-256.003,-120.415,-106.267,-135.944,0,-123.602 1/2:92:0,34,58:0:0:34,58:1181,2076:-265.259,-169.643,-159.408,-95.9666,0,-78.5069 1/2:139:0,67,72:0:0:67,72:2374,2584:-403.346,-211.004,-190.835,-192.697,0,-171.023 1/2:71:0,47,24:0:0:47,24:1669,856:-205.649,-70.1215,-55.9731,-135.883,0,-128.658 1/1:173:0,172,1:0:0:172,1:6067,32:-544.201,-51.7772,0,-541.623,-48.8789,-541.322 1/1:66:0,66,0:0:0:66,0:2334,0:-208.779,-19.868,0,-208.779,-19.868,-208.779 chr09 3828163 . A T 13722.3 PASS AB=0.368605;ABP=345.965;AC=19;AF=0.452381;AN=42;AO=855;CIGAR=1X;DP=2663;DPB=2663;DPRA=0;EPP=1859.62;EPPR=3929.03;GTI=2;LEN=1;MEANALT=1;MQM=54.5626;MQMR=59.161;NS=21;NUMALT=1;ODDS=14.5082;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30596;QR=64800;RO=1808;RPL=38;RPP=1544.22;RPPR=3249.09;RPR=817;RUN=1;SAF=38;SAP=1544.22;SAR=817;SRF=82;SRP=3249.09;SRR=1726;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:83,18:83:2980:18:644:-27.6659,0,-237.391 0/1:89:56,33:56:2008:33:1188:-80.4063,0,-153.029 0/1:88:42,46:42:1508:46:1641:-120.545,0,-109.481 0/1:64:43,21:43:1548:21:746:-47.902,0,-120.33 0/1:159:110,49:110:3948:49:1737:-108.191,0,-307.417 0/1:69:45,24:45:1612:24:845:-55.5759,0,-124.556 0/1:133:98,35:98:3507:35:1260:-73.4122,0,-275.616 0/1:164:86,78:86:3092:78:2792:-201.794,0,-229.033 0/1:206:88,118:88:3143:118:4236:-318.232,0,-221.02 0/1:19:9,10:9:324:10:360:-27.0141,0,-23.7838 0/0:179:178,1:178:6360:1:36:0,-50.2871,-568.892 0/0:197:186,11:186:6668:11:396:0,-23.3995,-564.286 0/1:160:75,85:75:2696:85:3039:-225.076,0,-194.665 0/1:152:53,99:53:1896:99:3545:-272.339,0,-125.019 0/1:77:61,16:61:2188:16:576:-28.9151,0,-173.78 0/1:52:46,6:46:1652:6:216:-3.94228,0,-133.038 0/1:71:40,31:40:1417:31:1097:-77.1513,0,-106.361 0/1:423:381,42:381:13649:42:1506:-8.13362,0,-1100.84 0/1:81:47,34:47:1692:34:1220:-84.5273,0,-128.166 0/1:117:46,71:46:1656:71:2548:-194.287,0,-114.002 0/1:62:35,27:35:1256:27:968:-68.7495,0,-94.6638 chr09 3828171 . ATA AA 9914.5 PASS AB=0.297398;ABP=770.275;AC=19;AF=0.452381;AN=42;AO=655;CIGAR=1M1D1M;DP=2536;DPB=2317.67;DPRA=0;EPP=444.681;EPPR=511;GTI=2;LEN=1;MEANALT=1.09524;MQM=59.2718;MQMR=57.571;NS=21;NUMALT=1;ODDS=2.1971;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23256;QR=66179;RO=1879;RPL=145;RPP=444.681;RPPR=511;RPR=510;RUN=1;SAF=0;SAP=1425.32;SAR=655;SRF=0;SRP=4083.21;SRR=1879;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:47,32:47:1665:32:1152:-80.1912,0,-126.304 0/1:48:35,13:35:1207:13:456:-26.9238,0,-94.4657 0/1:88:71,17:71:2482:17:608:-28.5437,0,-196.302 0/1:64:38,25:38:1333:25:875:-59.7069,0,-100.643 0/1:144:105,39:105:3698:39:1395:-82.4594,0,-289.223 0/1:65:46,19:46:1634:19:676:-41.5939,0,-127.762 0/1:126:96,30:96:3379:30:1064:-58.1419,0,-266.247 0/1:165:125,40:125:4450:40:1421:-78.4115,0,-350.633 0/1:198:118,80:118:4163:80:2852:-197.277,0,-314.244 0/1:19:13,6:13:446:6:212:-13.703,0,-34.741 0/0:183:180,3:180:6289:3:108:0,-45.0133,-556.038 0/0:201:189,12:189:6615:12:409:0,-23.3756,-558.236 0/1:155:85,70:85:3030:70:2497:-178.269,0,-225.699 0/1:149:100,49:100:3492:49:1741:-112.007,0,-268.705 0/1:75:49,26:49:1718:26:917:-60.2321,0,-132.255 0/1:38:12,26:12:428:26:924:-71.9924,0,-27.2764 0/1:48:36,12:36:1247:12:424:-24.047,0,-97.723 0/1:428:382,46:382:13507:46:1605:-15.8782,0,-1085.99 0/1:81:49,32:49:1740:32:1144:-78.8685,0,-131.717 0/1:119:73,45:73:2605:45:1604:-108.816,0,-198.864 0/1:63:30,33:30:1051:33:1172:-86.805,0,-75.9105 chr09 3828183 . CA CG,TG 51098.9 PASS AB=0.623562,0.373217;ABP=291.177,306.398;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1713,825;CIGAR=1M1X,2X;DP=2547;DPB=2547;DPRA=0,0;EPP=3714.06,1794.48;EPPR=5.18177;GTI=3;LEN=1,2;MEANALT=2.38095,2.38095;MQM=59.6509,54.4873;MQMR=60;NS=21;NUMALT=2;ODDS=6.26043;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60940,29043;QR=36;RO=1;RPL=1712,825;RPP=3714.06,1794.48;RPPR=5.18177;RPR=1,0;RUN=1,1;SAF=0,0;SAP=3722.74,1794.48;SAR=1713,825;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,71,10:0:0:71,10:2532,354:-235.53,-29.1429,-7.7698,-206.741,0,-203.731 1/2:48:0,33,15:0:0:33,15:1163,536:-138.733,-44.0462,-34.1122,-95.0421,0,-90.5267 1/2:88:0,42,46:0:0:42,46:1500,1609:-252.625,-130.359,-117.716,-122.618,0,-108.771 1/2:64:0,42,22:0:0:42,22:1508,786:-187.023,-64.0628,-51.4195,-123.317,0,-116.694 1/2:145:0,95,50:0:0:95,50:3360,1757:-416.412,-142.798,-114.2,-273.966,0,-258.914 1/2:67:0,44,23:0:0:44,23:1557,817:-193.725,-66.9073,-53.662,-127.172,0,-120.249 1/2:126:0,92,34:0:0:92,34:3233,1214:-362.313,-99.1707,-71.4759,-263.497,0,-253.262 1/2:167:0,86,81:0:0:86,81:3084,2824:-481.07,-229.629,-203.74,-251.794,0,-227.41 1/2:204:0,85,117:0:0:85,117:3025,4140:-582.583,-336.091,-310.503,-246.487,0,-211.266 1/2:19:0,9,10:0:0:9,10:320,358:-55.6167,-29.5423,-26.833,-26.4309,0,-23.4206 1/1:180:0,177,2:0:0:177,2:6304,72:-567.109,-53.2823,0,-561.236,-47.3828,-560.634 1/1:194:0,181,12:0:0:181,12:6450,421:-580.233,-54.4864,0,-546.052,-20.3137,-542.44 1/2:160:0,74,84:0:0:74,84:2648,2977:-457.921,-242.039,-219.763,-215.931,0,-190.644 1/2:151:0,51,100:0:0:51,100:1795,3510:-431.039,-285.001,-269.648,-146.389,0,-116.286 1/2:77:0,61,15:0:0:61,15:2152,516:-216.673,-41.8243,-23.4615,-174.835,0,-170.32 1/2:42:0,37,5:0:0:37,5:1316,178:-121.92,-14.7235,-3.58537,-107.55,0,-106.044 1/2:47:0,28,19:0:0:28,19:987,672:-135.143,-54.7807,-46.3518,-80.7142,0,-74.9946 1/2:422:1,376,45:1:36:376,45:13429,1585:-1218.25,-123.698,-13.4481,-1091.9,0,-1081.29 1/2:82:0,48,34:0:0:48,34:1708,1164:-233.703,-94.5117,-80.0623,-139.539,0,-129.304 1/2:118:0,45,72:0:0:45,72:1595,2544:-337.034,-207.116,-193.57,-129.912,0,-108.238 1/2:65:0,36,29:0:0:36,29:1274,1009:-186.135,-82.364,-71.5269,-104.121,0,-95.3913 chr09 4040517 . T G 16738.5 PASS AB=0.526752;ABP=12.7695;AC=15;AF=0.357143;AN=42;AO=832;CIGAR=1X;DP=2041;DPB=2041;DPRA=1.34416;EPP=1038.9;EPPR=1564.43;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9591;MQMR=59.9892;NS=21;NUMALT=1;ODDS=4.09293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29663;QR=43215;RO=1208;RPL=731;RPP=1038.9;RPPR=1564.43;RPR=101;RUN=1;SAF=832;SAP=1809.68;SAR=0;SRF=1208;SRP=2626.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:20,33:20:716:33:1166:-89.2923,0,-48.8131 0/1:129:51,78:51:1836:78:2791:-212.597,0,-126.688 0/1:82:40,42:40:1440:42:1504:-110.97,0,-105.213 0/1:185:89,96:89:3151:96:3412:-251.604,0,-228.098 0/1:288:153,135:153:5471:135:4803:-345.701,0,-405.821 0/1:47:16,31:16:568:31:1108:-85.8826,0,-37.3035 0/1:119:45,74:45:1616:74:2644:-202.384,0,-109.907 0/1:121:62,59:62:2220:59:2112:-153.924,0,-163.64 0/0:62:62,0:62:2216:0:0:0,-18.6639,-199.705 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:15:9,6:9:324:6:216:-15.2751,0,-24.9904 0/1:48:18,30:18:644:30:1076:-82.7034,0,-43.8412 0/0:91:91,0:91:3260:0:0:0,-27.3937,-293.621 0/0:155:155,0:155:5538:0:0:0,-46.6596,-498.545 0/1:84:46,38:46:1639:38:1352:-96.6938,0,-122.511 0/1:109:50,59:50:1792:59:2086:-155.16,0,-128.75 0/1:61:26,35:26:932:35:1247:-94.1712,0,-65.836 0/1:143:61,82:61:2192:82:2922:-220.166,0,-154.498 0/1:86:56,29:56:2012:29:1044:-68.3274,0,-155.406 0/0:86:81,5:81:2904:5:180:0,-9.33651,-245.043 0/0:64:64,0:64:2276:0:0:0,-19.2659,-205.1 chr09 4040566 . G T 22079.3 PASS AB=0.472165;ABP=12.8021;AC=27;AF=0.642857;AN=42;AO=1169;CIGAR=1X;DP=1943;DPB=1943;DPRA=0;EPP=2541.46;EPPR=1657.77;GTI=0;LEN=1;MEANALT=1;MQM=59.9427;MQMR=59.9742;NS=21;NUMALT=1;ODDS=7.12197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41521;QR=27569;RO=774;RPL=1169;RPP=2541.46;RPPR=1657.77;RPR=0;RUN=1;SAF=0;SAP=2541.46;SAR=1169;SRF=0;SRP=1683.73;SRR=774;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:45,46:45:1596:46:1644:-120.855,0,-116.537 0/1:64:38,26:38:1355:26:926:-64.3918,0,-102.984 0/1:116:60,56:60:2130:56:2004:-145.714,0,-157.048 0/1:64:36,28:36:1283:28:989:-70.0561,0,-96.5067 0/1:193:100,93:100:3545:93:3301:-239.211,0,-261.158 0/1:79:41,38:41:1472:38:1337:-96.8466,0,-108.995 0/1:163:84,79:84:2974:79:2785:-201.818,0,-218.815 0/1:106:70,36:70:2508:36:1247:-80.6166,0,-194.063 1/1:139:4,135:4:140:135:4810:-420.11,-28.8986,0 1/1:14:0,14:0:0:14:485:-43.977,-4.21442,0 0/1:5:2,3:2:72:3:104:-8.19766,0,-5.33157 0/1:54:39,15:39:1396:15:530:-31.7764,0,-109.683 1/1:71:1,70:1:32:70:2500:-222.054,-18.1738,0 1/1:105:0,105:0:0:105:3744:-337.125,-31.6082,0 0/1:176:89,87:89:3180:87:3104:-226.602,0,-233.443 0/1:63:32,31:32:1152:31:1089:-79.3524,0,-85.0253 0/1:64:28,36:28:990:36:1288:-96.9577,0,-70.1467 0/1:123:65,58:65:2312:58:2064:-149,0,-171.314 0/1:94:39,55:39:1396:55:1968:-148.728,0,-97.6423 1/1:109:1,108:1:36:108:3806:-339.139,-29.214,0 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 chr09 4324755 . A C 48020.8 PASS AB=0.470933;ABP=16.7699;AC=28;AF=0.666667;AN=42;AO=1867;CIGAR=1X;DP=2865;DPB=2865;DPRA=0;EPP=4057.15;EPPR=2163.63;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.7456;MQMR=59.9789;NS=21;NUMALT=1;ODDS=15.5705;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66477;QR=35347;RO=995;RPL=1053;RPP=69.4467;RPPR=18.0447;RPR=814;RUN=1;SAF=1053;SAP=69.4467;SAR=814;SRF=539;SRP=18.0447;SRR=456;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:124:71,53:71:2535:53:1885:-132.599,0,-191.073 0/1:97:44,53:44:1557:53:1900:-141.987,0,-111.22 0/1:170:86,84:86:3044:84:2990:-218.139,0,-223.014 0/1:195:103,91:103:3648:91:3264:-235.122,0,-269.766 0/1:183:100,83:100:3553:83:2950:-210.543,0,-264.89 0/1:64:42,22:42:1500:22:776:-50.8953,0,-116.029 1/1:134:0,134:0:0:134:4773:-429.604,-40.338,0 0/1:219:119,100:119:4211:100:3564:-255.01,0,-313.174 1/1:196:1,195:1:36:195:6953:-622.235,-55.4036,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:21:11,10:11:396:10:352:-25.6962,0,-29.6611 0/1:73:35,38:35:1233:38:1360:-100.725,0,-89.2969 1/1:110:0,110:0:0:110:3897:-350.916,-33.1133,0 1/1:175:0,175:0:0:175:6195:-557.566,-52.6803,0 0/1:255:138,116:138:4925:116:4160:-297.684,0,-366.579 0/1:53:36,17:36:1296:17:605:-38.826,0,-100.989 0/1:84:59,25:59:2095:25:896:-55.6738,0,-163.533 0/1:193:99,93:99:3507:93:3278:-237.088,0,-257.831 0/1:144:46,98:46:1631:98:3483:-270.315,0,-103.73 1/1:214:2,212:2:72:212:7564:-673.901,-57.5837,0 1/1:142:3,139:3:108:139:4948:-435.3,-32.6711,0 chr09 4332215 . T C 32321.9 PASS AB=0.594354;ABP=107.093;AC=28;AF=0.666667;AN=42;AO=1601;CIGAR=1X;DP=2154;DPB=2154;DPRA=0;EPP=3479.54;EPPR=1201.66;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9994;MQMR=60;NS=21;NUMALT=1;ODDS=20.6855;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57014;QR=19745;RO=552;RPL=0;RPP=3479.54;RPPR=1201.66;RPR=1601;RUN=1;SAF=0;SAP=3479.54;SAR=1601;SRF=0;SRP=1201.66;SRR=552;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:57,80:57:2040:80:2859:-215.947,0,-142.271 0/1:81:37,44:37:1320:44:1573:-117.477,0,-94.7185 0/1:99:32,67:32:1152:67:2394:-185.914,0,-74.1882 0/1:110:40,70:40:1432:70:2500:-192.139,0,-96.0643 0/1:204:65,139:65:2332:139:4931:-382.53,0,-148.729 0/1:108:57,51:57:2024:51:1806:-130.309,0,-149.922 1/1:138:4,134:4:144:134:4759:-415.153,-28.2285,0 0/1:93:38,55:38:1368:55:1963:-148.949,0,-95.425 1/1:173:0,173:0:0:173:6182:-556.478,-52.0782,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:16:9,7:9:320:7:248:-17.8477,0,-24.3259 0/1:33:16,17:16:576:17:612:-45.4794,0,-42.241 1/1:203:1,202:1:36:202:7198:-644.278,-57.5108,0 1/1:137:0,137:0:0:137:4885:-439.803,-41.2411,0 0/1:144:56,88:56:2000:88:3119:-237.587,0,-136.925 0/1:78:32,46:32:1129:46:1621:-122.697,0,-78.436 0/1:92:39,53:39:1404:53:1896:-143.223,0,-98.9645 0/1:65:38,27:38:1360:27:960:-67.1493,0,-103.134 0/1:85:29,56:29:1040:56:1991:-153.876,0,-68.3268 1/1:74:2,72:2:68:72:2567:-224.822,-15.8185,0 1/1:73:0,73:0:0:73:2590:-233.35,-21.9752,0 chr09 4332263 . T G 21893 PASS AB=0.4318;ABP=53.0663;AC=28;AF=0.666667;AN=42;AO=1122;CIGAR=1X;DP=1831;DPB=1831;DPRA=0;EPP=2439.4;EPPR=1538.24;GTI=0;LEN=1;MEANALT=1.09524;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.50493;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40134;QR=25338;RO=707;RPL=0;RPP=2439.4;RPPR=3.08708;RPR=1122;RUN=1;SAF=1122;SAP=2439.4;SAR=0;SRF=351;SRP=3.08708;SRR=356;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:136:77,59:77:2753:59:2124:-150.488,0,-207.07 0/1:80:27,53:27:972:53:1895:-146.746,0,-63.7155 0/1:70:45,25:45:1612:25:900:-60.2489,0,-124.298 0/1:86:46,40:46:1656:40:1432:-103.289,0,-123.44 0/1:219:148,70:148:5316:70:2512:-160.348,0,-412.588 0/1:117:59,58:59:2112:58:2045:-149.1,0,-155.128 1/1:92:3,89:3:108:89:3169:-275.359,-17.6196,0 0/1:85:42,43:42:1508:43:1540:-113.306,0,-110.427 1/1:166:0,166:0:0:166:5942:-534.888,-49.971,0 1/1:15:0,15:0:0:15:536:-48.5748,-4.51545,0 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:67:20,47:20:693:47:1674:-130.778,0,-42.5206 1/1:150:0,150:0:0:150:5379:-484.24,-45.1545,0 1/1:72:0,72:0:0:72:2580:-232.449,-21.6742,0 0/1:119:78,41:78:2804:41:1457:-95.6014,0,-216.777 0/1:56:36,19:36:1280:19:684:-44.9739,0,-98.5869 0/1:66:49,17:49:1760:17:612:-35.5455,0,-138.816 0/1:58:37,21:37:1328:21:748:-50.1856,0,-102.362 0/1:72:35,37:35:1256:37:1328:-98.1481,0,-91.6711 1/1:61:2,59:2:72:59:2120:-184.232,-11.5261,0 1/1:36:0,36:0:0:36:1277:-115.231,-10.8371,0 chr09 4332653 . T C 8009.24 PASS AB=0.49742;ABP=3.06632;AC=14;AF=0.333333;AN=42;AO=483;CIGAR=1X;DP=1283;DPB=1283;DPRA=1.47299;EPP=1051.83;EPPR=1738.02;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.8323;MQMR=59.3342;NS=21;NUMALT=1;ODDS=4.08458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17239;QR=28319;RO=799;RPL=0;RPP=1051.83;RPPR=1738.02;RPR=483;RUN=1;SAF=0;SAP=1051.83;SAR=483;SRF=0;SRP=1738.02;SRR=799;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:33,30:33:1180:30:1062:-76.9251,0,-86.1642 0/1:54:32,22:32:1137:22:777:-53.9947,0,-86.3813 0/1:105:53,52:53:1870:52:1867:-136.572,0,-136.877 0/1:72:36,36:36:1284:36:1292:-94.8647,0,-94.1443 0/1:159:73,86:73:2572:86:3066:-228.28,0,-183.848 0/1:47:27,20:27:968:20:684:-47.7281,0,-73.287 0/0:89:89,0:89:3177:0:0:0,-26.7917,-286.078 0/1:68:29,39:29:1006:39:1400:-105.829,0,-70.1993 0/0:50:50,0:50:1792:0:0:0,-15.0515,-158.897 0/0:8:8,0:8:269:0:0:0,-2.40824,-24.5361 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:12:6,6:6:212:6:216:-16.1782,0,-15.7827 0/0:26:26,0:26:917:0:0:0,-7.82678,-82.8442 0/0:73:73,0:73:2589:0:0:0,-21.9752,-232.511 0/1:173:82,90:82:2917:90:3236:-239.349,0,-210.619 0/1:51:35,16:35:1222:16:576:-36.8225,0,-94.927 0/1:71:35,36:35:1260:36:1280:-94.1219,0,-92.259 0/1:57:24,33:24:845:33:1171:-88.538,0,-59.2068 0/1:32:20,12:20:704:12:432:-29.5882,0,-53.9787 0/0:40:39,1:39:1366:1:36:0,-8.44292,-119.636 0/0:28:28,0:28:996:0:0:0,-8.42884,-89.9549 chr09 4332671 . A G 15117 PASS AB=0.501033;ABP=3.01927;AC=28;AF=0.666667;AN=42;AO=801;CIGAR=1X;DP=1285;DPB=1285;DPRA=0;EPP=1725.03;EPPR=1043.16;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.3308;MQMR=59.8778;NS=21;NUMALT=1;ODDS=4.15732;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28214;QR=17256;RO=483;RPL=2;RPP=1725.03;RPPR=1043.16;RPR=799;RUN=1;SAF=0;SAP=1742.36;SAR=801;SRF=0;SRP=1051.83;SRR=483;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:30,34:30:1076:34:1207:-88.6288,0,-77.8869 0/1:55:21,34:21:752:34:1207:-92.3786,0,-51.4496 0/1:105:52,53:52:1868:53:1868:-136.725,0,-136.661 0/1:72:36,36:36:1288:36:1268:-92.7036,0,-94.5045 0/1:158:84,73:84:3012:73:2561:-183.192,0,-223.803 0/1:46:20,26:20:720:26:921:-69.3574,0,-51.2814 1/1:89:0,89:0:0:89:3145:-283.202,-26.7917,0 0/1:67:38,29:38:1355:29:1040:-73.6989,0,-102.081 1/1:51:0,51:0:0:51:1779:-158.757,-15.3525,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:5:4,1:4:135:1:36:-2.09312,0,-10.9774 0/1:12:6,6:6:212:6:216:-16.1418,0,-15.8124 1/1:25:0,25:0:0:25:861:-77.8019,-7.52575,0 1/1:73:0,73:0:0:73:2581:-232.447,-21.9752,0 0/1:175:93,82:93:3323:82:2890:-207.607,0,-246.594 0/1:49:16,33:16:572:33:1173:-91.0897,0,-37.063 0/1:71:37,34:37:1300:34:1186:-85.4057,0,-95.9243 0/1:57:33,24:33:1179:24:856:-60.2009,0,-89.2585 0/1:32:12,20:12:432:20:701:-53.701,0,-29.5882 1/1:45:1,44:1:32:44:1533:-135.052,-10.347,0 1/1:26:0,26:0:0:26:897:-81.0414,-7.82678,0 chr09 4338098 . A G 14414.2 PASS AB=0.325128;ABP=261.986;AC=28;AF=0.666667;AN=42;AO=772;CIGAR=1X;DP=1431;DPB=1431;DPRA=0;EPP=1679.39;EPPR=1431.84;GTI=1;LEN=1;MEANALT=1.04762;MQM=60;MQMR=59.9559;NS=21;NUMALT=1;ODDS=4.16329;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27384;QR=23580;RO=658;RPL=0;RPP=1679.39;RPPR=4.60755;RPR=772;RUN=1;SAF=0;SAP=1679.39;SAR=772;SRF=318;SRP=4.60755;SRR=340;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:49,25:49:1756:25:891:-58.2326,0,-136.048 0/1:27:20,7:20:720:7:252:-14.9011,0,-57.001 0/1:80:58,22:58:2075:22:788:-47.1624,0,-162.937 0/1:88:65,23:65:2324:23:802:-46.0068,0,-182.927 0/1:182:116,66:116:4149:66:2335:-155.623,0,-318.804 0/1:57:34,23:34:1224:23:811:-56.1513,0,-93.3083 1/1:66:0,66:0:0:66:2354:-212.118,-19.868,0 0/1:144:91,53:91:3276:53:1868:-125.048,0,-251.71 1/1:79:0,79:0:0:79:2802:-252.42,-23.7814,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:25:18,7:18:644:7:248:-15.1384,0,-50.7648 1/1:81:0,80:0:0:80:2802:-252.06,-24.0824,0 1/1:75:0,75:0:0:75:2675:-240.995,-22.5773,0 0/1:90:71,19:71:2536:19:680:-34.4365,0,-201.399 0/1:35:20,15:20:712:15:536:-38.0388,0,-53.8246 0/1:19:12,7:12:428:7:244:-16.5799,0,-33.1392 0/1:75:60,15:60:2156:15:536:-25.9976,0,-171.728 0/1:74:41,33:41:1472:33:1167:-83.0602,0,-110.5 1/1:101:0,101:0:0:101:3604:-324.567,-30.404,0 1/1:50:0,50:0:0:50:1777:-160.211,-15.0515,0 chr09 4480820 . TTG GAA,GAG 50813.2 PASS AB=0.466945,0.528886;ABP=18.9452,15.1791;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1570,895;CIGAR=3X,2X1M;DP=2473;DPB=2473;DPRA=0,1.8439;EPP=3412.22,1946.48;EPPR=0;GTI=0;LEN=3,2;MEANALT=2.19048,2.33333;MQM=56.1096,56.1184;MQMR=0;NS=21;NUMALT=2;ODDS=4.11293;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55651,31767;QR=0;RO=0;RPL=0,0;RPP=3412.22,1946.48;RPPR=0;RPR=1570,895;RUN=1,1;SAF=1570,895;SAP=3412.22,1946.48;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:162:0,72,87:0:0:72,87:2539,3105:-457.623,-251.68,-230.006,-205.997,0,-179.807 1/2:121:0,51,69:0:0:51,69:1805,2420:-343.5,-196.674,-181.322,-146.858,0,-126.087 1/2:165:0,71,94:0:0:71,94:2515,3350:-477.351,-272.975,-251.602,-204.73,0,-176.433 1/2:148:0,81,67:0:0:81,67:2892,2355:-426.751,-191.246,-166.863,-235.858,0,-215.689 1/2:214:0,89,125:0:0:89,125:3118,4423:-611.786,-359.602,-332.81,-252.534,0,-214.906 1/2:70:0,31,38:0:0:31,38:1101,1355:-199.679,-110.151,-100.819,-89.5367,0,-78.0975 1/1:165:0,164,1:0:0:164,1:5790,36:-519.83,-49.3689,0,-516.893,-46.0717,-516.592 1/2:135:0,61,74:0:0:61,74:2153,2633:-389.277,-214.813,-196.45,-174.817,0,-152.541 1/1:214:0,213,1:0:0:213,1:7561,36:-677.988,-64.1194,0,-675.053,-60.8239,-674.752 1/1:8:0,8,0:0:0:8,0:288,0:-26.2549,-2.40824,0,-26.2549,-2.40824,-26.2549 1/2:8:0,1,7:0:0:1,7:36,244:-23.1193,-20.182,-19.881,-3.29553,0,-1.18832 1/2:25:0,12,13:0:0:12,13:432,466:-73.577,-38.3457,-34.7333,-35.5902,0,-31.6768 1/1:118:0,117,1:0:0:117,1:4167,36:-374.638,-35.2205,0,-371.702,-31.925,-371.401 1/1:146:0,146,0:0:0:146,0:5145,0:-462.548,-43.9504,0,-462.548,-43.9504,-462.548 1/2:209:0,112,96:0:0:112,96:3976,3387:-598.626,-275.343,-241.628,-323.277,0,-294.378 1/2:126:0,54,72:0:0:54,72:1923,2556:-364.566,-208.168,-191.912,-156.753,0,-135.079 1/2:119:0,53,66:0:0:53,66:1897,2368:-347.758,-193.275,-177.32,-154.84,0,-134.972 1/2:123:0,65,57:0:0:65,57:2311,2039:-353.978,-166.033,-146.466,-187.98,0,-170.821 1/2:54:0,31,23:0:0:31,23:1114,824:-158.103,-67.3969,-58.065,-91.0641,0,-84.1404 1/1:92:0,88,4:0:0:88,4:3132,134:-280.875,-26.4906,0,-270.03,-15.3096,-268.826 1/1:51:0,50,0:0:0:50,0:1756,0:-157.393,-15.0515,0,-157.393,-15.0515,-157.393 chr09 4480827 . C T 14885.1 PASS AB=0.527981;ABP=14.1899;AC=14;AF=0.333333;AN=42;AO=874;CIGAR=1X;DP=2432;DPB=2432;DPRA=1.32393;EPP=1900.88;EPPR=3381.82;GTI=0;LEN=1;MEANALT=1.11765;MQM=56.1327;MQMR=56.1947;NS=21;NUMALT=1;ODDS=4.98364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31272;QR=55547;RO=1556;RPL=0;RPP=1900.88;RPPR=3381.82;RPR=874;RUN=1;SAF=874;SAP=1900.88;SAR=0;SRF=1556;SRP=3381.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:72,85:72:2566:85:3031:-223.628,0,-182.919 0/1:117:49,68:49:1756:68:2426:-182.696,0,-122.981 0/1:163:72,91:72:2580:91:3251:-243.306,0,-182.947 0/1:142:78,64:78:2800:64:2273:-160.706,0,-209.196 0/1:206:86,120:86:3066:120:4303:-324.517,0,-212.468 0/1:69:30,39:30:1076:39:1381:-103.596,0,-76.1958 0/0:164:164,0:164:5832:0:0:0,-49.3689,-523.98 0/1:132:61,71:61:2180:71:2547:-189.61,0,-155.628 0/0:212:211,1:211:7478:1:36:0,-60.2218,-667.565 0/0:8:8,0:8:279:0:0:0,-2.40824,-25.4364 0/1:8:1,7:1:36:7:252:-20.6098,0,-1.18832 0/1:25:12,13:12:432:13:468:-34.9137,0,-31.6768 0/0:117:116,1:116:4147:1:36:0,-31.6239,-369.481 0/0:144:144,0:144:5134:0:0:0,-43.3483,-461.679 0/1:207:112,94:112:4015:94:3364:-240.039,0,-298.491 0/1:126:54,72:54:1927:72:2592:-195.103,0,-135.438 0/1:116:51,64:51:1832:64:2304:-172.422,0,-130.116 0/1:123:65,58:65:2332:58:2076:-149.816,0,-172.604 0/1:53:31,22:31:1099:22:788:-55.1286,0,-83.0919 0/0:92:88,4:88:3148:4:144:0,-14.3875,-269.341 0/0:51:51,0:51:1832:0:0:0,-15.3525,-164.582 chr09 4614403 . TTTTC ATTTT,TTTTT 11836.7 PASS AB=0.497159,0.5;ABP=3.03498,3.0103;AC=28,14;AF=0.666667,0.333333;AN=42;AO=397,177;CIGAR=1X3M1X,4M1X;DP=575;DPB=583.6;DPRA=0,0.877778;EPP=865.085,387.361;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.7619,2.06667;MQM=59.1234,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.59876;PAIRED=0,0;PAIREDR=0;PAO=16,16;PQA=441.5,441.5;PQR=0;PRO=0;QA=13966,6348;QR=0;RO=0;RPL=0,0;RPP=865.085,387.361;RPPR=0;RPR=397,177;RUN=1,1;SAF=397,177;SAP=865.085,387.361;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:28:0,10,17:0:0:10,17:333,608:-76.4564,-49.5178,-46.5075,-26.8693,0,-21.7518 1/2:13:0,6,7:0:0:6,7:215,252:-38.395,-20.8702,-19.064,-17.8375,0,-15.7303 1/2:9:0,6,3:0:0:6,3:208,108:-26.0695,-9.17208,-7.3659,-17.2528,0,-16.3497 1/2:33:0,14,19:0:0:14,19:497,676:-95.827,-55.3344,-51.12,-40.7387,0,-35.0192 1/2:47:0,24,23:0:0:24,23:831,820:-134.492,-66.9687,-59.744,-67.6498,0,-60.7261 1/2:39:0,18,21:0:0:18,21:641,756:-114.266,-62.0456,-56.6271,-52.5784,0,-46.2567 1/1:40:0,40,0:0:0:40,0:1407,0:-126.695,-12.0412,0,-126.695,-12.0412,-126.695 1/2:33:0,16,17:0:0:16,17:569,612:-96.6056,-50.2393,-45.4228,-46.6692,0,-41.5517 1/1:52:0,52,0:0:0:52,0:1853,0:-166.931,-15.6536,0,-166.931,-15.6536,-166.931 1/1:7:0,7,0:0:0:7,0:244,0:-22.2468,-2.10721,0,-22.2468,-2.10721,-22.2468 1/2:5:0,3,2:0:0:3,2:108,72:-15.0441,-6.23466,-5.33157,-9.16926,0,-8.5672 1/2:6:0,2,4:0:0:2,4:72,144:-17.9843,-12.1095,-11.5074,-6.23466,0,-5.03054 1/1:22:0,22,0:0:0:22,0:776,0:-70.1583,-6.62266,0,-70.1583,-6.62266,-70.1583 1/1:26:0,26,0:0:0:26,0:910,0:-82.0722,-7.82678,0,-82.0722,-7.82678,-82.0722 1/2:42:0,20,22:0:0:20,22:692,788:-120.714,-64.5072,-58.4866,-56.4468,0,-49.8241 1/2:12:0,7,5:0:0:7,5:238,180:-34.2283,-14.9506,-12.8434,-19.54,0,-18.0349 1/2:10:0,5,5:0:0:5,5:179,180:-29.6433,-15.0469,-13.5418,-14.9552,0,-13.4501 1/2:31:0,15,16:0:0:15,16:538,576:-91.0683,-47.1924,-42.677,-44.0751,0,-39.2586 1/2:44:0,29,15:0:0:29,15:1002,540:-125.707,-44.3088,-35.5789,-81.6423,0,-77.1268 1/1:43:0,42,1:0:0:42,1:1472,36:-132.413,-12.6433,0,-129.475,-9.34602,-129.174 1/1:33:0,33,0:0:0:33,0:1181,0:-106.442,-9.93399,0,-106.442,-9.93399,-106.442 chr09 4614430 . T G 21212.9 PASS AB=0.495062;ABP=3.18187;AC=28;AF=0.666667;AN=42;AO=838;CIGAR=1X;DP=1250;DPB=1250;DPRA=0;EPP=1822.7;EPPR=897.657;GTI=0;LEN=1;MEANALT=1;MQM=59.6014;MQMR=60;NS=21;NUMALT=1;ODDS=15.3536;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29441;QR=14752;RO=412;RPL=379;RPP=19.5943;RPPR=18.3793;RPR=459;RUN=1;SAF=379;SAP=19.5943;SAR=459;SRF=179;SRP=18.3793;SRR=233;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:25,17:25:900:17:567:-38.7005,0,-68.6778 0/1:25:16,9:16:576:9:315:-21.156,0,-44.6492 0/1:23:10,13:10:360:13:455:-34.3583,0,-25.8206 0/1:55:33,22:33:1151:22:792:-55.049,0,-87.3359 0/1:85:46,39:46:1656:39:1378:-98.7297,0,-123.741 0/1:62:35,27:35:1256:27:944:-66.5839,0,-94.6814 1/1:78:1,77:1:36:77:2739:-242.984,-19.8821,0 0/1:56:27,29:27:972:29:1010:-74.3494,0,-70.9402 1/1:93:0,93:0:0:93:3271:-294.609,-27.9958,0 1/1:21:0,21:0:0:21:730:-66.0185,-6.32163,0 0/1:6:3,3:3:108:3:108:-8.26617,0,-8.26899 0/1:15:10,5:10:360:5:176:-11.6696,0,-28.2289 1/1:44:0,44:0:0:44:1575:-142.034,-13.2453,0 1/1:57:0,57:0:0:57:2035:-183.283,-17.1587,0 0/1:140:67,73:67:2404:73:2548:-187.364,0,-174.472 0/1:20:12,8:12:432:8:279:-19.426,0,-33.2006 0/1:22:10,12:10:360:12:428:-32.2361,0,-26.1216 0/1:162:82,80:82:2929:80:2817:-205.004,0,-215.076 0/1:97:33,64:33:1180:64:2236:-172.3,0,-77.3081 1/1:65:2,63:2:72:63:2200:-191.419,-12.7302,0 1/1:82:0,82:0:0:82:2838:-255.601,-24.6845,0 chr09 5463129 . AACTT GACTC,GACTT 94073.6 PASS AB=0.430778,0.563874;ABP=143.102,122.293;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2542,1906;CIGAR=1X3M1X,1X4M;DP=4477;DPB=4476.8;DPRA=0,3.63492;EPP=5206.19,3893.78;EPPR=7.35324;GTI=1;LEN=5,1;MEANALT=3,3.21053;MQM=56.3194,59.5876;MQMR=60;NS=21;NUMALT=2;ODDS=13.585;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=89996,68171;QR=67;RO=2;RPL=2505,1877;RPP=5206.19,3893.78;RPPR=7.35324;RPR=37,29;RUN=1,1;SAF=0,0;SAP=5522.89,4141.84;SAR=2542,1906;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:164:0,79,85:0:0:79,85:2803,3026:-474.868,-246.949,-223.168,-228.273,0,-202.686 1/2:132:0,69,62:0:0:69,62:2444,2216:-378.137,-180.584,-159.812,-197.556,0,-178.892 1/2:90:0,28,62:0:0:28,62:989,2219:-261.469,-181.303,-172.874,-80.52,0,-61.8562 1/2:149:0,47,102:0:0:47,102:1667,3668:-435.034,-299.447,-285.298,-135.942,0,-105.237 1/2:243:0,105,138:0:0:105,138:3733,4929:-705.953,-402.19,-370.582,-304.118,0,-262.576 1/2:115:0,46,66:0:0:46,66:1631,2355:-324.733,-191.897,-178.05,-132.834,0,-112.966 1/1:231:0,226,3:0:0:226,3:7972,108:-716.152,-68.0328,0,-707.339,-59.199,-706.436 1/2:137:0,44,91:0:0:44,91:1545,3255:-390.969,-265.426,-252.18,-125.574,0,-98.1806 1/1:110:0,107,1:0:0:107,1:3767,36:-338.623,-32.2102,0,-335.685,-29.2707,-335.384 1/1:338:0,333,1:0:0:333,1:11817,36:-1060.49,-100.243,0,-1057.55,-97.3021,-1057.25 1/2:933:1,413,516:1:31:413,516:14601,18453:-2688.18,-1501.85,-1380.01,-1184.18,0,-1031.34 1/2:509:1,208,297:1:36:208,297:7348,10638:-1461.63,-864.291,-804.614,-594.698,0,-508.229 1/1:219:0,218,1:0:0:218,1:7773,36:-698.127,-65.6245,0,-695.19,-62.3273,-694.889 1/1:94:0,94,0:0:0:94,0:3342,0:-300.299,-28.2968,0,-300.299,-28.2968,-300.299 1/2:113:0,53,60:0:0:53,60:1876,2152:-328.239,-175.878,-159.924,-152.716,0,-134.654 1/2:54:0,24,28:0:0:24,28:852,1000:-150.881,-81.5255,-74.3008,-69.3554,0,-60.9266 1/2:128:0,44,84:0:0:44,84:1548,2996:-370.476,-244.56,-231.315,-126.268,0,-100.982 1/2:514:0,239,273:0:0:239,273:8450,9765:-1482.97,-795.969,-724.023,-687.054,0,-604.873 1/2:85:0,51,34:0:0:51,34:1833,1211:-247.82,-99.0384,-83.6859,-149.138,0,-138.903 1/1:87:0,82,2:0:0:82,2:2879,72:-258.624,-24.6845,0,-252.879,-18.9249,-252.276 1/1:32:0,32,0:0:0:32,0:1126,0:-101.558,-9.63296,0,-101.558,-9.63296,-101.558 chr09 5488210 . C G 33153.7 PASS AB=0.482364;ABP=11.282;AC=14;AF=0.333333;AN=42;AO=1483;CIGAR=1X;DP=4774;DPB=4774;DPRA=1.01361;EPP=3214.62;EPPR=7131.96;GTI=0;LEN=1;MEANALT=1.1875;MQM=59.7788;MQMR=59.9903;NS=21;NUMALT=1;ODDS=28.4428;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52514;QR=115728;RO=3287;RPL=793;RPP=18.5445;RPPR=61.2833;RPR=690;RUN=1;SAF=792;SAP=17.947;SAR=691;SRF=1791;SRP=60.5011;SRR=1496;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:291:173,117:173:6110:117:4144:-285.482,0,-462.334 0/1:190:86,104:86:3016:104:3685:-274.648,0,-214.477 0/1:171:91,80:91:3164:80:2850:-205.259,0,-233.508 0/1:287:157,130:157:5471:130:4611:-328.75,0,-406.134 0/1:493:224,269:224:7822:269:9526:-708.618,0,-555.615 0/1:173:85,88:85:3001:88:3150:-231.608,0,-218.242 0/0:342:341,1:341:12024:1:36:0,-99.354,-1078.43 0/1:161:82,79:82:2891:79:2799:-203.642,0,-211.96 0/0:440:440,0:440:15563:0:0:0,-132.453,-1400.39 0/0:59:59,0:59:2088:0:0:0,-17.7608,-188.188 0/1:16:9,7:9:294:7:252:-18.2125,0,-21.9591 0/1:66:33,33:33:1167:33:1175:-86.1844,0,-85.4684 0/0:292:291,0:291:10242:0:0:0,-87.5997,-921.359 0/0:228:228,0:228:8027:0:0:0,-68.6348,-722.464 0/1:346:187,159:187:6598:159:5573:-397.519,0,-489.75 0/1:213:95,117:95:3357:117:4164:-310.764,0,-238.17 0/1:228:117,111:117:4145:111:3944:-286.144,0,-304.599 0/1:236:112,124:112:3962:124:4367:-322.012,0,-285.729 0/1:191:132,59:132:4658:59:2071:-129.125,0,-361.892 0/0:245:239,5:239:8419:5:167:0,-58.4484,-742.355 0/0:106:106,0:106:3709:0:0:0,-31.9092,-334.015 chr09 5488219 . T C 11225.5 PASS AB=0.491441;ABP=3.90243;AC=14;AF=0.333333;AN=42;AO=690;CIGAR=1X;DP=2189;DPB=2189;DPRA=0.992051;EPP=1492.65;EPPR=3236.36;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.5391;MQMR=59.9846;NS=21;NUMALT=1;ODDS=7.78051;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24267;QR=53298;RO=1497;RPL=1;RPP=1492.65;RPPR=3236.36;RPR=689;RUN=1;SAF=0;SAP=1501.33;SAR=690;SRF=0;SRP=3253.7;SRR=1497;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:152:90,61:90:3232:61:2175:-150.322,0,-245.348 0/1:38:13,25:13:464:25:888:-68.7966,0,-30.6584 0/1:96:52,44:52:1852:44:1552:-111.071,0,-138.061 0/1:82:47,35:47:1671:35:1232:-86.4907,0,-125.992 0/1:210:94,116:94:3368:116:4084:-304.252,0,-240.12 0/1:85:45,39:45:1599:39:1356:-96.682,0,-118.554 0/0:158:157,1:157:5594:1:36:0,-43.9645,-499.985 0/1:88:38,50:38:1364:50:1760:-132.158,0,-96.5701 0/0:225:225,0:225:8008:0:0:0,-67.7317,-720.747 0/0:44:44,0:44:1563:0:0:0,-13.2453,-140.961 0/1:6:3,3:3:104:3:104:-7.89663,0,-7.89663 0/1:34:20,14:20:712:14:496:-34.7392,0,-54.1716 0/0:115:115,0:115:4087:0:0:0,-34.6184,-368.018 0/0:104:104,0:104:3687:0:0:0,-31.3071,-332.035 0/1:217:109,108:109:3868:108:3802:-277.04,0,-282.995 0/1:64:28,36:28:996:36:1276:-95.8771,0,-70.6886 0/1:92:42,50:42:1495:50:1761:-130.944,0,-107.149 0/1:146:72,74:72:2563:74:2573:-187.723,0,-186.97 0/1:92:58,34:58:2066:34:1172:-78.0464,0,-158.515 0/0:87:87,0:87:3099:0:0:0,-26.1896,-279.138 0/0:54:54,0:54:1906:0:0:0,-16.2556,-171.816 chr09 5488585 . C A 14403.8 PASS AB=0.430512;ABP=43.1474;AC=28;AF=0.666667;AN=42;AO=753;CIGAR=1X;DP=1302;DPB=1302;DPRA=0;EPP=1638.13;EPPR=1186.46;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.9894;MQMR=60;NS=21;NUMALT=1;ODDS=3.0452;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26638;QR=19364;RO=545;RPL=743;RPP=1552.42;RPPR=1059.76;RPR=10;RUN=1;SAF=743;SAP=1552.42;SAR=10;SRF=530;SRP=1059.76;SRR=15;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:38,22:38:1364:22:773:-51.8277,0,-104.999 0/1:46:26,20:26:921:20:671:-46.8524,0,-69.3578 0/1:71:46,25:46:1625:25:896:-59.5872,0,-125.164 0/1:49:29,20:29:1008:20:720:-50.3783,0,-76.2776 0/1:141:76,62:76:2720:62:2228:-158.874,0,-203.142 0/1:44:36,8:36:1279:8:284:-12.658,0,-102.167 1/1:81:2,79:2:72:79:2729:-239.01,-17.5467,0 0/1:97:64,33:64:2276:33:1173:-76.6756,0,-175.9 1/1:63:0,63:0:0:63:2216:-199.703,-18.9649,0 1/1:6:0,6:0:0:6:197:-18.0513,-1.80618,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:10:3,7:3:104:7:248:-19.6539,0,-6.69251 1/1:61:0,61:0:0:61:2176:-196.107,-18.3628,0 1/1:41:1,40:1:36:40:1435:-125.849,-8.74396,0 0/1:115:59,56:59:2098:56:1996:-145.296,0,-154.47 0/1:65:36,29:36:1288:29:1029:-73.3542,0,-96.6566 0/1:59:40,19:40:1419:19:661:-42.0508,0,-110.246 0/1:130:61,69:61:2158:69:2456:-182.161,0,-155.352 0/1:65:26,38:26:924:38:1356:-102.715,0,-63.8521 1/1:38:0,38:0:0:38:1341:-120.988,-11.4391,0 1/1:55:1,54:1:36:54:1909:-168.487,-12.9584,0 chr09 5488638 . A T,G 46347.6 PASS AB=0.473208,0.526096;ABP=11.9697,11.5103;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1429,756;CIGAR=1X,1X;DP=2186;DPB=2186;DPRA=0,0.959279;EPP=3062.77,1618.69;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.71429,2.07143;MQM=59.9489,59.9418;MQMR=0;NS=21;NUMALT=2;ODDS=12.9518;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51138,26820;QR=0;RO=0;RPL=1424,753;RPP=3062.77,1618.69;RPPR=0;RPR=5,3;RUN=1,1;SAF=0,0;SAP=3106.04,1644.64;SAR=1429,756;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:161:0,76,85:0:0:76,85:2724,3012:-467.688,-245.521,-222.643,-222.523,0,-196.936 1/2:86:0,50,36:0:0:50,36:1791,1280:-250.73,-104.666,-89.6147,-146.42,0,-135.583 1/2:147:0,64,83:0:0:64,83:2300,2940:-427.486,-239.848,-220.582,-187.995,0,-163.009 1/2:93:0,28,65:0:0:28,65:989,2289:-267.244,-186.704,-178.275,-80.8928,0,-61.3259 1/2:213:0,95,117:0:0:95,117:3377,4144:-612.712,-337.565,-308.967,-275.142,0,-239.922 1/2:154:0,66,88:0:0:66,88:2372,3134:-449.307,-255.795,-235.927,-193.87,0,-167.379 1/1:125:0,125,0:0:0:125,0:4471,0:-402.489,-37.6288,0,-402.489,-37.6288,-402.489 1/2:127:0,51,76:0:0:51,76:1832,2682:-368.199,-218.747,-203.394,-149.808,0,-126.93 1/1:148:0,148,0:0:0:148,0:5312,0:-478.21,-44.5524,0,-478.21,-44.5524,-478.21 1/1:21:0,21,0:0:0:21,0:752,0:-68.0063,-6.32163,0,-68.0063,-6.32163,-68.0063 1/2:10:0,7,3:0:0:7,3:248,108:-29.3709,-9.17208,-7.06487,-20.557,0,-19.6539 1/2:48:0,25,23:0:0:25,23:896,820:-140.276,-67.1988,-59.6731,-73.4346,0,-66.5109 1/1:194:0,194,0:0:0:194,0:6936,0:-624.304,-58.3998,0,-624.304,-58.3998,-624.304 1/1:74:0,74,0:0:0:74,0:2648,0:-238.564,-22.2762,0,-238.564,-22.2762,-238.564 1/2:151:0,84,67:0:0:84,67:2999,2381:-438.876,-194.377,-169.091,-244.855,0,-224.686 1/2:26:0,9,17:0:0:9,17:324,612:-76.7327,-50.2959,-47.5867,-26.7966,0,-21.6791 1/2:70:0,28,42:0:0:28,42:1004,1491:-203.731,-121.841,-113.412,-82.247,0,-69.6038 1/2:58:0,34,24:0:0:34,24:1218,855:-169.38,-70.0455,-59.8104,-99.6918,0,-92.467 1/2:93:0,63,30:0:0:63,30:2250,1072:-271.202,-87.7616,-68.7967,-183.798,0,-174.767 1/1:143:0,143,0:0:0:143,0:5111,0:-460.132,-43.0473,0,-460.132,-43.0473,-460.132 1/1:44:0,44,0:0:0:44,0:1584,0:-142.852,-13.2453,0,-142.852,-13.2453,-142.852 chr09 5516686 . TC CG,CC 42184.5 PASS AB=0.596542,0.399856;ABP=115.376,123.918;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1489,556;CIGAR=2X,1X1M;DP=2052;DPB=2052;DPRA=0,1.26491;EPP=3236.33,1210.35;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.95238,2.2;MQM=53.8529,59.6061;MQMR=0;NS=21;NUMALT=2;ODDS=6.0028;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52671,19894;QR=0;RO=0;RPL=0,0;RPP=3236.33,1210.35;RPPR=0;RPR=1489,556;RUN=1,1;SAF=1489,556;SAP=3236.33,1210.35;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:173:0,117,55:0:0:117,55:4140,1972:-496.799,-160.839,-125.618,-335.958,0,-319.401 1/2:75:0,42,33:0:0:42,33:1471,1184:-214.218,-96.931,-84.2878,-117.639,0,-107.705 1/2:85:0,57,28:0:0:57,28:2011,1008:-245.72,-82.5188,-65.3601,-163.559,0,-155.13 1/2:150:0,91,59:0:0:91,59:3205,2098:-430.923,-171.271,-143.877,-260.006,0,-242.245 1/2:237:0,153,81:0:0:153,81:5405,2874:-672.645,-234.136,-188.078,-438.503,0,-414.12 1/2:129:0,72,57:0:0:72,57:2542,2039:-371.485,-166.406,-144.732,-205.433,0,-188.274 1/1:144:0,144,0:0:0:144,0:5095,0:-453.612,-43.3483,0,-453.612,-43.3483,-453.612 1/2:87:0,54,32:0:0:54,32:1923,1140:-249.061,-92.9364,-76.6808,-156.14,0,-146.507 1/1:163:0,161,0:0:0:161,0:5721,0:-512.975,-48.4658,0,-512.975,-48.4658,-512.975 1/1:4:0,4,0:0:0:4,0:144,0:-13.2911,-1.20412,0,-13.2911,-1.20412,-13.2911 1/2:9:0,7,2:0:0:7,2:252,72:-26.7389,-6.23466,-4.12745,-20.8639,0,-20.2618 1/2:19:0,14,5:0:0:14,5:491,180:-54.6754,-15.0422,-10.8278,-39.9899,0,-38.4847 1/1:62:0,62,0:0:0:62,0:2193,0:-197.269,-18.6639,0,-197.269,-18.6639,-197.269 1/1:60:0,60,0:0:0:60,0:2113,0:-190.2,-18.0618,0,-190.2,-18.0618,-190.2 1/2:142:0,62,80:0:0:62,80:2224,2867:-414.146,-233.913,-215.249,-180.59,0,-156.507 1/2:81:0,50,31:0:0:50,31:1752,1112:-233.457,-91.0292,-75.9777,-142.783,0,-133.452 1/2:64:0,40,24:0:0:40,24:1427,864:-186.098,-70.8578,-58.8166,-115.598,0,-108.373 1/2:50:0,18,32:0:0:18,32:619,1152:-144.228,-94.3572,-88.9386,-50.2184,0,-40.5854 1/2:87:0,51,36:0:0:51,36:1753,1296:-248.047,-106.107,-90.7543,-142.293,0,-131.456 1/1:171:0,170,1:0:0:170,1:6038,36:-541.926,-51.1751,0,-538.989,-47.8779,-538.688 1/1:60:0,60,0:0:0:60,0:2152,0:-193.406,-18.0618,0,-193.406,-18.0618,-193.406 chr09 5807816 . AGAAA TGAAC,TGAAA 31476.7 PASS AB=0.498657,0.499552;ABP=3.0278,3.01224;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1037,558;CIGAR=1X3M1X,1X4M;DP=1598;DPB=1598;DPRA=0,1.16112;EPP=2254.83,1214.69;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.7619,2.07143;MQM=44.1389,59.9695;MQMR=0;NS=21;NUMALT=2;ODDS=22.7459;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35591,19992;QR=0;RO=0;RPL=0,0;RPP=2254.83,1214.69;RPPR=0;RPR=1037,558;RUN=1,1;SAF=1037,558;SAP=2254.83,1214.69;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:79:0,44,35:0:0:44,35:1472,1252:-219.925,-102.449,-89.2037,-117.822,0,-107.286 1/2:53:0,23,30:0:0:23,30:791,1080:-150.829,-88.4823,-81.5587,-62.6921,0,-53.6612 1/2:129:0,58,71:0:0:58,71:2012,2544:-368.866,-207.838,-190.378,-161.377,0,-140.004 1/2:48:0,29,19:0:0:29,19:1011,680:-136.265,-55.8096,-47.0797,-80.8068,0,-75.0872 1/2:134:0,84,48:0:0:84,48:2871,1720:-370.47,-140.276,-114.99,-230.185,0,-215.736 1/2:50:0,19,31:0:0:19,31:624,1116:-140.76,-91.4198,-85.7002,-49.6762,0,-40.3442 1/1:115:0,115,0:0:0:115,0:3971,0:-347.24,-34.6185,0,-347.24,-34.6185,-347.24 1/2:111:0,55,56:0:0:55,56:1886,2004:-308.807,-163.776,-147.219,-145.373,0,-128.516 1/1:84:0,83,0:0:0:83,0:2866,0:-256.098,-24.9855,0,-256.098,-24.9855,-256.098 1/1:30:0,30,0:0:0:30,0:1038,0:-92.069,-9.0309,0,-92.069,-9.0309,-92.069 1/2:15:0,9,6:0:0:9,6:316,216:-42.1729,-17.9843,-15.2751,-24.5374,0,-22.7312 1/2:46:0,25,21:0:0:25,21:859,752:-129.854,-61.6846,-54.1589,-68.5172,0,-62.1956 1/1:62:0,62,0:0:0:62,0:2159,0:-192.124,-18.6639,0,-192.124,-18.6639,-192.124 1/1:96:0,96,0:0:0:96,0:3254,0:-289.478,-28.8989,0,-289.478,-28.8989,-289.478 1/2:187:0,74,113:0:0:74,113:2543,4044:-533.17,-330.129,-307.853,-203.387,0,-169.37 1/2:27:0,15,12:0:0:15,12:536,428:-78.3322,-35.2464,-30.731,-43.4405,0,-39.8282 1/2:44:0,24,20:0:0:24,20:807,716:-123.721,-58.7471,-51.5224,-65.3214,0,-59.3008 1/2:132:0,52,80:0:0:52,80:1802,2868:-377.636,-234.246,-218.593,-143.737,0,-119.655 1/2:62:0,46,16:0:0:46,16:1557,572:-170.615,-46.9969,-33.1496,-123.969,0,-119.153 1/1:37:0,37,0:0:0:37,0:1280,0:-113.366,-11.1381,0,-113.366,-11.1381,-113.366 1/1:57:0,57,0:0:0:57,0:1936,0:-168.889,-17.1587,0,-168.889,-17.1587,-168.889 chr09 5807832 . TGT TT 18668 PASS AB=0.483755;ABP=5.55022;AC=28;AF=0.666667;AN=42;AO=999;CIGAR=1M1D1M;DP=1571;DPB=1238;DPRA=0;EPP=2172.31;EPPR=1238.58;GTI=0;LEN=1;MEANALT=1.09524;MQM=44.3504;MQMR=59.9701;NS=21;NUMALT=1;ODDS=20.605;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35409;QR=19932;RO=569;RPL=0;RPP=2172.31;RPPR=1238.58;RPR=999;RUN=1;SAF=999;SAP=2172.31;SAR=0;SRF=569;SRP=1238.58;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:36,42:36:1251:42:1504:-109.08,0,-89.4083 0/1:50:30,20:30:1043:20:712:-47.4395,0,-79.1253 0/1:128:73,54:73:2583:54:1914:-131.254,0,-194.128 0/1:50:20,30:20:697:30:1071:-79.7593,0,-47.9986 0/1:128:48,80:48:1663:80:2826:-212.878,0,-111.42 0/1:50:32,18:32:1142:18:648:-41.9988,0,-88.0374 1/1:104:0,104:0:0:104:3707:-322.88,-31.3071,0 0/1:107:56,51:56:1971:51:1790:-121.975,0,-145.452 1/1:81:0,81:0:0:81:2896:-258.757,-24.3834,0 1/1:30:0,30:0:0:30:1054:-93.3196,-9.0309,0 0/1:15:6,9:6:216:9:324:-23.3461,0,-15.2751 0/1:46:21,25:21:738:25:880:-64.1247,0,-52.8941 1/1:62:0,62:0:0:62:2201:-195.236,-18.6639,0 1/1:92:0,92:0:0:92:3267:-289.085,-27.6948,0 0/1:188:114,72:114:3970:72:2523:-167.386,0,-301.142 0/1:29:13,16:13:458:16:557:-41.113,0,-32.824 0/1:45:22,23:22:766:23:820:-60.0862,0,-55.7128 0/1:135:82,53:82:2879:53:1861:-123.773,0,-218.679 0/1:59:16,43:16:555:43:1515:-116.719,0,-32.5144 1/1:39:0,39:0:0:39:1389:-122.56,-11.7402,0 1/1:55:0,55:0:0:55:1950:-169.708,-16.5567,0 chr09 5807846 . A G 23480.6 PASS AB=0.488246;ABP=4.33753;AC=28;AF=0.666667;AN=42;AO=1000;CIGAR=1X;DP=1566;DPB=1566;DPRA=0;EPP=645.627;EPPR=40.6786;GTI=0;LEN=1;MEANALT=1.04762;MQM=44.357;MQMR=59.9699;NS=21;NUMALT=1;ODDS=21.6105;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35653;QR=20273;RO=565;RPL=228;RPP=645.627;RPPR=40.6786;RPR=772;RUN=1;SAF=1000;SAP=2174.48;SAR=0;SRF=565;SRP=1229.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:36,43:36:1292:43:1529:-111.384,0,-92.8024 0/1:51:29,22:29:1040:22:784:-53.5741,0,-78.5618 0/1:127:73,54:73:2624:54:1935:-133.801,0,-198.176 0/1:49:20,29:20:720:29:1028:-76.1029,0,-50.3783 0/1:131:48,82:48:1713:82:2940:-221.61,0,-114.964 0/1:51:32,19:32:1148:19:667:-43.5251,0,-88.2773 1/1:108:0,108:0:0:108:3867:-337.293,-32.5112,0 0/1:111:56,55:56:2008:55:1956:-132.889,0,-147.579 1/1:83:0,83:0:0:83:2953:-263.914,-24.9855,0 1/1:31:0,31:0:0:31:1099:-97.0959,-9.33193,0 0/1:15:6,9:6:216:9:305:-21.7936,0,-15.2751 0/1:42:21,21:21:752:21:752:-53.749,0,-55.363 1/1:58:0,58:0:0:58:2076:-184.516,-17.4597,0 1/1:88:0,88:0:0:88:3136:-278.297,-26.4906,0 0/1:188:115,73:115:4128:73:2620:-174.763,0,-315.107 0/1:30:14,16:14:500:16:576:-42.5094,0,-36.3053 0/1:43:21,22:21:756:22:792:-58.167,0,-55.4229 0/1:130:78,52:78:2804:52:1818:-121.838,0,-213.437 0/1:59:16,43:16:572:43:1544:-117.978,0,-34.0527 1/1:37:0,37:0:0:37:1317:-116.399,-11.1381,0 1/1:55:0,55:0:0:55:1959:-170.025,-16.5567,0 chr09 5884593 . TG GG,GA 49410.3 PASS AB=0.468233,0.529098;ABP=19.4279,16.7846;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1725,994;CIGAR=1X1M,2X;DP=2725;DPB=2725;DPRA=0,1.46529;EPP=3714.14,2161.45;EPPR=7.35324;GTI=1;LEN=1,2;MEANALT=1.95238,2.25;MQM=46.6348,30.6268;MQMR=60;NS=21;NUMALT=2;ODDS=1.25855;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60734,34956;QR=61;RO=2;RPL=1721,994;RPP=3714.14,2161.45;RPPR=7.35324;RPR=4,0;RUN=1,1;SAF=0,0;SAP=3748.8,2161.45;SAR=1725,994;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:113:0,60,53:0:0:60,53:2096,1834:-294.441,-125.337,-107.275,-169.424,0,-153.469 1/2:151:0,61,90:0:0:61,90:2134,3195:-386.447,-214.23,-195.867,-172.544,0,-145.451 1/2:122:0,55,67:0:0:55,67:1935,2370:-316.679,-160.258,-143.701,-156.748,0,-136.579 1/2:196:1,83,111:1:25:83,111:2963,3881:-501.829,-262.19,-239.153,-238.018,0,-206.551 1/2:305:0,158,147:0:0:158,147:5554,5155:-799.127,-350.375,-302.812,-449.075,0,-404.823 1/2:144:0,54,90:0:0:54,90:1897,3161:-368.235,-214.664,-198.409,-153.901,0,-126.808 1/1:187:0,185,1:0:0:185,1:6489,36:-578.185,-55.6906,0,-575.737,-53.2425,-575.436 1/2:120:1,62,57:1:36:62,57:2164,2008:-304.979,-132.426,-116.701,-169.877,0,-155.656 1/1:202:0,202,0:0:0:202,0:7044,0:-600.668,-60.8081,0,-600.668,-60.8081,-600.668 1/1:20:0,20,0:0:0:20,0:703,0:-63.2768,-6.0206,0,-63.2768,-6.0206,-63.2768 1/2:9:0,8,1:0:0:8,1:280,36:-25.3284,-2.75351,-0.345268,-22.8849,0,-22.5839 1/1:20:0,19,1:0:0:19,1:652,36:-58.409,-5.71957,0,-55.9627,-2.96606,-55.6617 1/1:108:0,108,0:0:0:108,0:3848,0:-344.051,-32.5112,0,-344.051,-32.5112,-344.051 1/1:104:0,104,0:0:0:104,0:3695,0:-330.029,-31.3071,0,-330.029,-31.3071,-330.029 1/2:291:0,136,154:0:0:136,154:4838,5381:-757.407,-365.752,-324.812,-391.624,0,-345.265 1/2:171:0,71,100:0:0:71,100:2486,3532:-395.989,-203.663,-182.29,-192.629,0,-162.526 1/2:157:0,69,87:0:0:69,87:2423,3071:-356.498,-170.621,-149.85,-185.917,0,-159.727 1/2:49:0,30,19:0:0:30,19:1059,684:-132.105,-46.8185,-37.7876,-85.609,0,-79.8894 1/2:45:0,30,15:0:0:30,15:1050,540:-120.842,-35.8827,-26.8518,-85.2729,0,-80.7574 1/1:166:0,165,1:0:0:165,1:5820,36:-519.262,-49.67,0,-516.814,-46.9164,-516.513 1/1:45:0,45,0:0:0:45,0:1604,0:-143.793,-13.5464,0,-143.793,-13.5464,-143.793 chr09 5986165 . G T 15438.6 PASS AB=0.34113;ABP=499.785;AC=2;AF=0.047619;AN=42;AO=813;CIGAR=1X;DP=11964;DPB=11964;DPRA=1.80091;EPP=18.0343;EPPR=23864.4;GTI=1;LEN=1;MEANALT=1.23077;MQM=59.909;MQMR=59.8257;NS=21;NUMALT=1;ODDS=18.6802;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28850;QR=396157;RO=11148;RPL=803;RPP=1682.63;RPPR=93.6099;RPR=10;RUN=1;SAF=361;SAP=25.1283;SAR=452;SRF=5273;SRP=73.6015;SRR=5875;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:231:231,0:231:8233:0:0:0,-69.5379,-740.929 0/0:127:127,0:127:4548:0:0:0,-38.2308,-409.478 0/0:346:342,3:342:12166:3:94:0,-95.4326,-1085.96 0/0:588:586,2:586:20847:2:72:0,-170.171,-1868.63 0/0:400:400,0:400:14237:0:0:0,-120.412,-1279.29 0/0:331:331,0:331:11720:0:0:0,-99.6409,-1054.62 0/0:600:598,2:598:21233:2:72:0,-173.781,-1903.43 0/0:928:911,16:911:32459:16:572:0,-227.488,-2867.82 0/0:1420:1416,4:1416:50272:4:135:0,-414.991,-4509.58 0/0:154:154,0:154:5464:0:0:0,-46.3586,-491.882 0/0:69:63,6:63:2260:6:204:0,-2.0777,-184.953 0/0:298:296,2:296:10508:2:68:0,-83.2492,-939.142 0/0:741:740,1:740:26322:1:36:0,-219.468,-2363.69 0/0:854:853,1:853:30230:1:36:0,-253.481,-2713.86 0/0:486:484,2:484:17268:2:72:0,-139.464,-1546.81 0/0:151:151,0:151:5384:0:0:0,-45.4555,-484.69 0/0:251:251,0:251:8891:0:0:0,-75.5585,-800.097 0/1:1451:964,487:964:34185:487:17271:-1117.15,0,-2638.56 0/1:815:528,286:528:18758:286:10182:-670.919,0,-1442.36 0/0:321:320,1:320:11349:1:36:0,-93.0323,-1017.45 0/0:1402:1402,0:1402:49823:0:0:0,-422.044,-4480.39 chr09 6107986 . ACACC ACACCACC,ACACAACC 16196 PASS AB=0.47993,0.511344;ABP=5.01503,3.65075;AC=28,14;AF=0.666667,0.333333;AN=42;AO=536,293;CIGAR=1M3I4M,2M3I3M;DP=838;DPB=1339.2;DPRA=0,1.08113;EPP=1158.25,639.252;EPPR=7.35324;GTI=0;LEN=3,3;MEANALT=2,2.35714;MQM=59.8358,59.8157;MQMR=60;NS=21;NUMALT=2;ODDS=2.16921;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18302,10111;QR=72;RO=2;RPL=1,0;RPP=1158.25,639.252;RPPR=7.35324;RPR=535,293;RUN=1,1;SAF=536,293;SAP=1166.92,639.252;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,36,33:0:0:36,33:1213,1117:-188.824,-90.5334,-79.6963,-98.2692,0,-88.3352 1/2:50:0,24,26:0:0:24,26:817,913:-140.926,-74.6572,-67.4325,-66.6139,0,-58.7871 1/2:43:0,15,28:0:0:15,28:509,973:-120.721,-79.4512,-74.9358,-41.6117,0,-33.1829 1/2:40:0,22,17:0:0:22,17:738,593:-108,-48.2361,-41.6134,-59.7666,0,-54.6491 1/2:85:0,40,44:0:0:40,44:1385,1514:-235.495,-122.94,-110.899,-112.541,0,-99.2958 1/2:42:0,20,22:0:0:20,22:692,768:-119.042,-62.8088,-56.7882,-56.5806,0,-49.9579 1/1:62:0,61,0:0:0:61,0:2100,0:-188.945,-18.3628,0,-188.945,-18.3628,-188.945 1/2:54:0,30,24:0:0:30,24:1028,829:-151.149,-67.6985,-58.6676,-83.7945,0,-76.5697 1/1:92:2,90,0:2:72:90,0:3071,0:-269.791,-20.858,0,-270.393,-27.0927,-276.268 1/1:4:0,4,0:0:0:4,0:136,0:-12.5755,-1.20412,0,-12.5755,-1.20412,-12.5755 1/2:4:0,1,3:0:0:1,3:36,108:-12.1095,-9.17208,-8.87105,-3.29724,0,-2.39415 1/2:6:0,5,1:0:0:5,1:159,36:-16.0636,-3.29724,-1.79209,-13.1192,0,-12.8181 1/1:40:0,40,0:0:0:40,0:1376,0:-124.127,-12.0412,0,-124.127,-12.0412,-124.127 1/1:30:0,29,0:0:0:29,0:982,0:-88.3248,-8.72987,0,-88.3248,-8.72987,-88.3248 1/2:65:0,22,42:0:0:22,42:740,1430:-176.078,-116.129,-109.506,-60.071,0,-47.4278 1/2:27:0,8,19:0:0:8,19:284,649:-76.1528,-53.0085,-50.6003,-23.4951,0,-17.7755 1/2:30:0,16,13:0:0:16,13:547,437:-79.9213,-35.5187,-30.7022,-44.5187,0,-40.6053 1/2:38:0,21,17:0:0:21,17:713,600:-107.023,-49.207,-42.8854,-58.163,0,-53.0455 1/2:19:0,15,4:0:0:15,4:498,144:-52.3737,-12.1095,-7.59405,-40.6182,0,-39.4141 1/1:24:0,24,0:0:0:24,0:823,0:-74.383,-7.22472,0,-74.383,-7.22472,-74.383 1/1:13:0,13,0:0:0:13,0:455,0:-41.282,-3.91339,0,-41.282,-3.91339,-41.282 chr09 6136656 . GTTAG ATTAC,GTTAC 28759.7 PASS AB=0.500354,0.495393;ABP=3.01184,3.27038;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1375,700;CIGAR=1X3M1X,4M1X;DP=2082;DPB=2082.2;DPRA=0,0.990317;EPP=2988.78,1523.04;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.95238,2.26667;MQM=25.4182,37.5114;MQMR=0;NS=21;NUMALT=2;ODDS=15.8257;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=48764,25045;QR=0;RO=0;RPL=0,0;RPP=2988.78,1523.04;RPPR=0;RPR=1375,700;RUN=1,1;SAF=1375,700;SAP=2988.78,1523.04;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:111:0,54,57:0:0:54,57:1936,2035:-261.772,-154.298,-138.042,-107.767,0,-90.6086 1/2:51:0,28,23:0:0:28,23:999,824:-112.825,-61.4661,-53.0373,-51.6462,0,-44.7225 1/2:53:0,26,27:0:0:26,27:917,968:-125.278,-73.6126,-65.7858,-51.9597,0,-43.8319 1/2:148:0,68,80:0:0:68,80:2406,2853:-350.418,-216.513,-196.043,-134.135,0,-110.053 1/2:220:0,117,103:0:0:117,103:4137,3672:-507.17,-276.032,-240.812,-231.432,0,-200.426 1/2:57:0,27,30:0:0:27,30:958,1069:-128.422,-79.4789,-71.3511,-49.2219,0,-40.191 1/1:151:0,151,0:0:0:151,0:5382,0:-321.827,-45.4555,0,-321.827,-45.4555,-321.827 1/2:149:0,74,73:0:0:74,73:2588,2596:-345.576,-198.678,-176.402,-146.957,0,-124.982 1/1:127:0,127,0:0:0:127,0:4491,0:-286.618,-38.2308,0,-286.618,-38.2308,-286.618 1/1:22:0,22,0:0:0:22,0:779,0:-51.3034,-6.62266,0,-51.3034,-6.62266,-51.3034 1/2:14:0,9,5:0:0:9,5:305,180:-29.911,-13.8871,-11.1779,-16.3219,0,-14.8167 1/2:32:0,17,15:0:0:17,15:607,540:-74.1531,-40.8044,-35.6869,-33.6437,0,-29.1282 1/1:67:0,67,0:0:0:67,0:2385,0:-152.863,-20.169,0,-152.863,-20.169,-152.863 1/1:97:0,96,0:0:0:96,0:3399,0:-218.272,-28.8989,0,-218.272,-28.8989,-218.272 1/2:195:0,98,94:0:0:98,94:3492,3376:-451.547,-257.283,-227.782,-194.367,0,-166.07 1/2:91:0,33,58:0:0:33,58:1152,2080:-220.607,-157.009,-147.075,-63.876,0,-46.4163 1/2:102:0,51,51:0:0:51,51:1813,1832:-238.932,-138.645,-123.292,-100.58,0,-85.2279 1/2:99:0,47,51:0:0:47,51:1678,1836:-232.788,-139.344,-125.196,-93.4802,0,-78.1277 1/2:89:0,57,32:0:0:57,32:2033,1148:-201.295,-87.4935,-70.3348,-114.108,0,-104.475 1/1:135:0,135,0:0:0:135,0:4776,0:-308.824,-40.6391,0,-308.824,-40.6391,-308.824 1/1:72:0,71,1:0:0:71,1:2531,36:-150.834,-21.3731,0,-148.122,-18.328,-147.821 chr09 6278130 . TA CA 17328.5 PASS AB=0.559572;ABP=26.036;AC=28;AF=0.666667;AN=42;AO=884;CIGAR=1X1M;DP=1218;DPB=1218;DPRA=0;EPP=1922.59;EPPR=717.425;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.7511;MQMR=59.9939;NS=21;NUMALT=1;ODDS=17.0229;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30970;QR=11664;RO=329;RPL=884;RPP=1922.59;RPPR=717.425;RPR=0;RUN=1;SAF=884;SAP=1922.59;SAR=0;SRF=329;SRP=717.425;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:57,41:57:2018:41:1443:-100.298,0,-152.031 0/1:60:20,37:20:707:37:1316:-101.224,0,-46.4366 0/1:52:23,29:23:817:29:1027:-77.0525,0,-58.1972 0/1:47:20,27:20:707:27:937:-70.4925,0,-49.8059 0/1:109:33,76:33:1168:76:2681:-208.688,0,-72.615 0/1:53:26,27:26:903:27:949:-69.7682,0,-65.6265 1/1:102:0,102:0:0:102:3514:-316.473,-30.7051,0 0/1:33:11,22:11:381:22:763:-59.0546,0,-24.6877 1/1:128:0,127:0:0:127:4452:-400.481,-38.2308,0 1/1:19:0,19:0:0:19:671:-60.7158,-5.71957,0 0/1:7:6,1:6:214:1:36:-1.49107,0,-17.5006 0/1:19:11,8:11:388:8:255:-17.5362,0,-29.5382 1/1:54:0,54:0:0:54:1896:-170.904,-16.2556,0 1/1:73:0,73:0:0:73:2570:-231.544,-21.9752,0 0/1:114:60,54:60:2152:54:1915:-138.267,0,-159.63 0/1:40:22,18:22:786:18:644:-46.2412,0,-59.0235 0/1:61:17,44:17:610:44:1564:-122.686,0,-36.87 0/1:35:12,23:12:419:23:784:-60.2754,0,-27.5063 0/1:18:7,11:7:250:11:381:-29.1959,0,-17.4281 1/1:70:3,67:3:108:67:2366:-203.114,-10.9969,0 1/1:25:1,24:1:36:24:806:-69.2495,-3.92748,0 chr09 6881328 . TGGTT TGTT 6171.22 PASS AB=0.265828;ABP=1063.74;AC=21;AF=0.5;AN=42;AO=592;CIGAR=1M1D3M;DP=2227;DPB=2108.4;DPRA=0;EPP=1288.52;EPPR=3540.34;GTI=5;LEN=1;MEANALT=1.2381;MQM=59.9257;MQMR=60;NS=21;NUMALT=1;ODDS=1.74524;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20759;QR=56067;RO=1629;RPL=0;RPP=1288.52;RPPR=3540.34;RPR=592;RUN=1;SAF=0;SAP=1288.52;SAR=592;SRF=0;SRP=3540.34;SRR=1629;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:92,20:92:3152:20:687:-28.0749,0,-249.837 0/1:115:95,20:95:3273:20:703:-28.9751,0,-260.181 0/1:131:106,25:106:3681:25:884:-40.4434,0,-292.063 0/1:183:145,38:145:4996:38:1335:-65.3606,0,-394.719 0/1:220:180,40:180:6244:40:1391:-58.9873,0,-495.85 0/1:110:80,30:80:2751:30:1034:-60.223,0,-214.724 0/1:164:94,68:94:3240:68:2395:-166.679,0,-242.703 0/1:94:73,21:73:2494:21:733:-37.9928,0,-196.418 0/1:204:120,83:120:4140:83:2941:-203.456,0,-311.326 0/1:7:4,3:4:117:3:104:-7.5956,0,-8.71299 0/1:5:4,1:4:143:1:36:-2.09312,0,-11.7163 0/1:34:30,4:30:1049:4:144:-3.0786,0,-84.4852 0/1:122:82,39:82:2768:39:1387:-88.3438,0,-212.582 0/1:111:60,51:60:2073:51:1751:-124.453,0,-153.427 0/1:96:86,10:86:2963:10:332:-1.30126,0,-238.009 0/1:127:94,32:94:3251:32:1136:-64.2594,0,-254.529 0/1:129:114,15:114:3884:15:539:-10.0133,0,-310.936 0/1:72:56,16:56:1918:16:564:-29.4161,0,-151.223 0/1:74:56,18:56:1929:18:625:-34.2963,0,-151.611 0/1:57:23,34:23:800:34:1216:-92.5879,0,-55.1596 0/1:59:35,24:35:1201:24:822:-56.5301,0,-90.6311 chr09 6881361 . C T,A 18865.2 PASS AB=0.479911,0.218126;ABP=10.8625,901.546;AC=21,3;AF=0.5,0.0714286;AN=42;AO=1075,284;CIGAR=1X,1X;DP=2240;DPB=2240;DPRA=0,0;EPP=2328.67,619.708;EPPR=1890.11;GTI=1;LEN=1,1;MEANALT=1.57143,2;MQM=59.9414,60;MQMR=60;NS=21;NUMALT=2;ODDS=3.10172;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38454,10177;QR=31372;RO=881;RPL=1074,284;RPP=2328.67,619.708;RPPR=1890.11;RPR=1,0;RUN=1,1;SAF=0,0;SAP=2337.34,619.708;SAR=1075,284;SRF=0;SRP=1916.08;SRR=881;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:45,68,0:45:1612:68,0:2408,0:-182.96,0,-111.354,-196.507,-131.824,-327.974 0/1:115:48,67,0:48:1705:67,0:2408,0:-182.358,0,-119.115,-196.807,-139.284,-335.735 0/1:131:64,67,0:64:2300:67,0:2399,0:-176.732,0,-167.826,-195.998,-187.995,-383.634 0/1:182:63,67,52:63:2249:67,52:2408,1855:-177.477,0,-163.181,-45.2239,-32.1304,-212.919 1/2:223:51,117,55:51:1828:117,55:4186,1980:-338.3,-12.4694,-126.338,-192.094,0,-324.627 0/1:111:33,62,16:33:1156:62,16:2210,576:-170.205,0,-75.3891,-133.14,-47.0511,-222.381 0/1:167:96,71,0:96:3428:71,0:2524,0:-177.139,0,-258.46,-206.038,-279.833,-485.514 1/2:93:27,39,27:27:968:39,27:1400,972:-106.432,-0.360543,-67.5708,-35.2495,0,-106.073 0/1:208:59,91,58:59:2100:91,58:3262,2084:-248.285,0,-143.758,-96.0345,-1.13872,-249.727 0/1:9:2,5,2:2:72:5,2:180,65:-14.11,0,-4.38715,-9.47594,-0.663688,-14.7487 0/1:5:4,1,0:4:144:1,0:36,0:-2.09312,0,-11.8085,-3.29724,-12.1095,-15.0469 0/1:34:11,16,7:11:396:16,7:576,252:-43.6873,0,-27.4951,-26.4368,-11.7497,-56.6411 0/1:121:78,41,2:78:2739:41,2:1472,61:-96.6461,0,-210.621,-115.243,-218.078,-337.554 1/2:111:26,52,33:26:928:52,33:1861,1188:-165.213,-21.2831,-81.2829,-76.1046,0,-141.825 0/1:94:56,38,0:56:1992:38,0:1360,0:-94.4038,0,-151.257,-111.261,-162.697,-273.601 0/1:128:44,84,0:44:1561:84,0:3008,0:-232.419,0,-102.248,-245.665,-127.534,-372.843 0/1:125:74,51,0:74:2615:51,0:1812,0:-125.732,0,-197.965,-148.008,-213.318,-360.971 0/1:73:20,36,17:20:712:36,17:1288,608:-99.0084,0,-47.1922,-55.452,-8.45154,-108.364 0/1:79:25,40,14:25:900:40,14:1436,500:-109.613,0,-61.3961,-76.3747,-32.6735,-145.596 0/1:58:20,37,1:20:720:37,1:1320,36:-101.583,0,-47.6102,-104.667,-55.8109,-163.115 0/1:60:35,25,0:35:1247:25,0:900,0:-63.2592,0,-94.4723,-73.7953,-101.998,-175.435 chr09 6961131 . G A 21739.9 PASS AB=0.46467;ABP=26.1791;AC=14;AF=0.333333;AN=42;AO=997;CIGAR=1X;DP=3208;DPB=3208;DPRA=1.09947;EPP=2167.97;EPPR=4804.14;GTI=0;LEN=1;MEANALT=1;MQM=59.998;MQMR=60;NS=21;NUMALT=1;ODDS=13.6789;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35032;QR=77738;RO=2211;RPL=497;RPP=3.0299;RPPR=85.0381;RPR=500;RUN=1;SAF=497;SAP=3.0299;SAR=500;SRF=1250;SRP=85.0381;SRR=961;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:216:104,112:104:3649:112:3925:-288.427,0,-263.597 0/1:61:44,17:44:1546:17:595:-35.5139,0,-121.067 0/1:200:79,121:79:2764:121:4215:-319.332,0,-188.794 0/1:172:86,86:86:3039:86:3052:-223.132,0,-221.965 0/1:292:161,131:161:5614:131:4637:-329.593,0,-417.49 0/1:47:22,25:22:784:25:883:-65.639,0,-56.7355 0/0:97:97,0:97:3412:0:0:0,-29.1999,-307.297 0/1:167:98,69:98:3470:69:2444:-169.944,0,-262.242 0/0:308:308,0:308:10823:0:0:0,-92.7172,-973.985 0/0:16:16,0:16:553:0:0:0,-4.81648,-50.094 0/1:11:7,4:7:243:4:144:-10.0023,0,-18.8962 0/1:38:20,18:20:712:18:644:-46.8515,0,-52.9675 0/0:266:263,3:263:9261:3:108:0,-69.9988,-823.397 0/0:230:230,0:230:8119:0:0:0,-69.2369,-730.734 0/1:256:135,121:135:4748:121:4290:-309.217,0,-350.416 0/1:146:78,68:78:2725:68:2381:-170.595,0,-201.542 0/1:132:77,55:77:2678:55:1928:-134.06,0,-201.527 0/1:194:89,105:89:3104:105:3667:-271.836,0,-221.188 0/1:205:144,61:144:5093:61:2083:-126.026,0,-396.808 0/0:95:94,1:94:3323:1:36:0,-24.9996,-295.693 0/0:59:59,0:59:2078:0:0:0,-17.7608,-187.29 chr09 7064529 . AGATC AT,ATATC 126500 PASS AB=0.419942,0.575691;ABP=232.485,208.134;AC=24,18;AF=0.571429,0.428571;AN=42;AO=2514,2396;CIGAR=1M3D1X,1M1X3M;DP=4929;DPB=3423.2;DPRA=0,0;EPP=5462.09,5205.86;EPPR=0;GTI=0;LEN=2,1;MEANALT=2.85714,2.85714;MQM=53.4785,59.6978;MQMR=0;NS=21;NUMALT=2;ODDS=41.1322;PAIRED=0,0;PAIREDR=0;PAO=4.83333,4.83333;PQA=157,157;PQR=0;PRO=0.333333;QA=89361,85276;QR=0;RO=0;RPL=866,1561;RPP=531.215,480.694;RPPR=0;RPR=1648,835;RUN=1,1;SAF=866,1561;SAP=531.215,480.694;SAR=1648,835;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:241:0,80,160:0:0:80,160:2840,5670:-691.866,-461.464,-437.381,-230.529,0,-182.365 1/2:243:0,71,172:0:0:71,172:2531,6122:-702.986,-498.5,-477.127,-204.781,0,-153.004 1/2:159:0,71,87:0:0:71,87:2519,3087:-455.706,-251.361,-229.988,-204.359,0,-178.169 1/2:299:0,129,168:0:0:129,168:4580,5967:-857.923,-486.202,-447.369,-371.757,0,-321.184 1/2:479:0,224,252:0:0:224,252:7991,8950:-1379.03,-729.213,-661.782,-649.846,0,-573.987 1/2:230:0,46,184:0:0:46,184:1632,6567:-667.66,-535.643,-521.796,-132.312,0,-76.922 1/2:364:0,172,192:0:0:172,192:6088,6833:-1047.24,-557.037,-505.26,-490.438,0,-432.64 1/2:253:0,55,198:0:0:55,198:1951,7083:-735.315,-577.81,-561.254,-157.799,0,-98.1949 1/1:418:0,413,4:0:0:413,4:14656,136:-1314.32,-124.325,0,-1303.28,-113.196,-1302.08 1/2:44:0,37,7:0:0:37,7:1310,248:-126.478,-20.557,-9.41887,-106.274,0,-104.167 1/2:40:0,15,25:0:0:15,25:506,900:-114.463,-73.7776,-69.2622,-41.0295,0,-33.5038 1/2:101:0,34,66:0:0:34,66:1212,2368:-291.144,-193.236,-183.001,-97.9912,0,-78.1232 1/1:191:0,179,12:0:0:179,12:6360,428:-570.459,-53.8844,0,-535.727,-18.7966,-532.114 1/1:198:0,191,7:0:0:191,7:6741,235:-604.781,-57.4967,0,-585.746,-38.126,-583.639 1/2:548:0,281,264:0:0:281,264:10062,9388:-1582.18,-764.851,-680.262,-817.364,0,-737.892 1/2:244:0,111,129:0:0:111,129:3965,4593:-696.91,-374.36,-340.946,-322.573,0,-283.74 1/2:270:0,121,148:0:0:121,148:4320,5246:-778.994,-427.325,-390.901,-351.734,0,-307.182 1/2:211:0,75,135:0:0:75,135:2666,4802:-607.368,-391.304,-368.726,-216.118,0,-175.479 1/2:139:0,86,53:0:0:86,53:3059,1904:-404.189,-155.683,-129.795,-248.864,0,-232.909 1/2:160:0,75,85:0:0:75,85:2673,3025:-463.137,-246.833,-224.255,-216.6,0,-191.013 1/2:97:0,48,48:0:0:48,48:1699,1724:-276.152,-140.576,-126.127,-135.511,0,-121.061 chr09 7064539 . C T 40945.9 PASS AB=0.560635;ABP=103.604;AC=14;AF=0.333333;AN=42;AO=1769;CIGAR=1X;DP=4241;DPB=4241;DPRA=2.68249;EPP=3844.34;EPPR=5370.89;GTI=1;LEN=1;MEANALT=1;MQM=59.5274;MQMR=53.5097;NS=21;NUMALT=1;ODDS=3.55793;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62655;QR=87005;RO=2472;RPL=925;RPP=11.064;RPPR=556.803;RPR=844;RUN=1;SAF=925;SAP=11.064;SAR=844;SRF=839;SRP=556.803;SRR=1633;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:238:80,158:80:2824:158:5553:-427.662,0,-181.59 0/1:198:72,126:72:2548:126:4492:-343.47,0,-168.152 0/1:147:69,78:69:2452:78:2776:-205.77,0,-175.854 0/1:281:125,156:125:4380:156:5498:-410.088,0,-308.283 0/1:470:225,245:225:7870:245:8626:-634.66,0,-565.04 0/1:156:43,113:43:1531:113:4036:-316.45,0,-90.204 0/0:172:171,1:171:6028:1:36:0,-48.1789,-533.239 0/1:184:55,129:55:1940:129:4605:-359.168,0,-118.051 0/0:399:398,1:398:13996:1:36:0,-116.923,-1252.07 0/0:37:37,0:37:1315:0:0:0,-11.1381,-118.054 0/1:36:15,21:15:517:21:748:-56.7906,0,-35.4087 0/1:86:35,51:35:1228:51:1836:-139.615,0,-84.048 0/0:178:177,1:177:6217:1:36:0,-50.1597,-554.282 0/0:184:184,0:184:6429:0:0:0,-55.3895,-577.133 0/1:533:273,260:273:9566:260:9197:-666.813,0,-697.566 0/1:236:109,127:109:3860:127:4508:-334.833,0,-276.184 0/1:263:121,142:121:4252:142:5025:-372.794,0,-303.15 0/1:186:76,110:76:2707:110:3906:-295.637,0,-186.119 0/1:136:86,50:86:3042:50:1741:-116.029,0,-232.261 0/0:76:76,0:76:2707:0:0:0,-22.8783,-242.025 0/0:45:45,0:45:1596:0:0:0,-13.5463,-142.416 chr09 7064549 . T C 13942.8 PASS AB=0.475028;ABP=12.5539;AC=14;AF=0.333333;AN=42;AO=837;CIGAR=1X;DP=2474;DPB=2474;DPRA=1.23736;EPP=1794.57;EPPR=3495;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.448;MQMR=50.3319;NS=21;NUMALT=1;ODDS=30.8262;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29843;QR=58542;RO=1636;RPL=834;RPP=1794.57;RPPR=3495;RPR=3;RUN=1;SAF=0;SAP=1820.53;SAR=837;SRF=0;SRP=3555.54;SRR=1636;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:51,57:51:1824:57:2036:-149.102,0,-130.628 0/1:134:71,63:71:2540:63:2248:-162.171,0,-186.662 0/1:69:37,32:37:1309:32:1148:-82.8424,0,-96.1457 0/1:138:69,68:69:2464:68:2408:-175.195,0,-179.299 0/1:203:111,92:111:3972:92:3273:-233.643,0,-294.812 0/1:66:43,23:43:1548:23:802:-52.6293,0,-118.781 0/0:173:173,0:173:6196:0:0:0,-52.0782,-551.671 0/1:123:55,68:55:1968:68:2432:-182.053,0,-138.894 0/0:176:176,0:176:6288:0:0:0,-52.9813,-561.151 0/0:38:38,0:38:1364:0:0:0,-11.4391,-121.948 0/1:32:15,17:15:536:17:608:-45.4191,0,-38.2921 0/1:71:35,36:35:1256:36:1292:-95.1935,0,-91.0541 0/0:79:79,0:79:2840:0:0:0,-23.7814,-254.53 0/0:122:122,0:122:4376:0:0:0,-36.7257,-392.347 0/1:317:160,157:160:5724:157:5589:-407.468,0,-417.855 0/1:134:63,71:63:2264:71:2548:-189.219,0,-163 0/1:131:80,51:80:2821:51:1811:-123.831,0,-213.996 0/1:153:75,78:75:2692:78:2784:-204.655,0,-194.709 0/1:83:59,24:59:2120:24:864:-53.0971,0,-165.26 0/0:76:76,0:76:2728:0:0:0,-22.8783,-243.855 0/0:48:48,0:48:1712:0:0:0,-14.4494,-151.603 chr09 7064558 . TGAAG CGAAT,CGAAG 51571.3 PASS AB=0.525756,0.467525;ABP=13.3011,19.3705;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1672,835;CIGAR=1X3M1X,1X4M;DP=2521;DPB=2521;DPRA=0,1.21497;EPP=3633.71,1807.51;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.33333,2.85714;MQM=50.3415,59.5186;MQMR=0;NS=21;NUMALT=2;ODDS=32.9666;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59109,29818;QR=0;RO=0;RPL=1672,834;RPP=3633.71,1807.51;RPPR=0;RPR=0,1;RUN=1,1;SAF=0,0;SAP=3633.71,1816.19;SAR=1672,835;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:110:0,51,58:0:0:51,58:1793,2047:-311.798,-166.586,-151.233,-145.369,0,-127.909 1/2:138:0,73,65:0:0:73,65:2601,2328:-400.26,-190.102,-168.127,-210.514,0,-190.947 1/2:70:0,38,31:0:0:38,31:1333,1108:-197.942,-90.4183,-78.9792,-107.604,0,-98.2718 1/2:138:0,71,67:0:0:71,67:2480,2404:-397.106,-196.417,-175.044,-201.042,0,-180.873 1/2:206:0,115,89:0:0:115,89:4076,3174:-589.257,-258.741,-224.122,-330.536,0,-303.745 1/2:68:0,46,22:0:0:46,22:1620,784:-195.232,-64.2609,-50.4135,-131.325,0,-124.703 1/1:177:0,177,0:0:0:177,0:6243,0:-556.273,-53.2823,0,-556.273,-53.2823,-556.273 1/2:123:0,55,67:0:0:55,67:1946,2392:-352.394,-195.025,-178.468,-157.426,0,-137.257 1/1:183:0,182,0:0:0:182,0:6443,0:-575.419,-54.7875,0,-575.419,-54.7875,-575.419 1/1:39:0,39,0:0:0:39,0:1369,0:-122.726,-11.7402,0,-122.726,-11.7402,-122.726 1/2:32:0,15,17:0:0:15,17:528,612:-92.8807,-50.2959,-45.7805,-42.9388,0,-37.8213 1/2:72:0,35,37:0:0:35,37:1239,1328:-208.717,-108.667,-98.131,-100.405,0,-89.2666 1/1:82:0,82,0:0:0:82,0:2889,0:-258.541,-24.6845,0,-258.541,-24.6845,-258.541 1/1:129:0,129,0:0:0:129,0:4539,0:-407.109,-38.8329,0,-407.109,-38.8329,-407.109 1/2:321:0,163,156:0:0:163,156:5774,5567:-922.125,-453.67,-404.602,-468.521,0,-421.56 1/2:136:0,64,72:0:0:64,72:2274,2568:-394.597,-209.682,-190.416,-185.27,0,-163.596 1/2:131:0,79,51:0:0:79,51:2788,1836:-376.356,-149.823,-126.041,-226.549,0,-211.196 1/2:157:0,76,79:0:0:76,79:2718,2810:-448.781,-228.933,-206.055,-219.844,0,-196.063 1/2:84:0,58,24:0:0:58,24:2075,860:-238.7,-70.1491,-52.6893,-168.561,0,-161.336 1/1:77:0,77,0:0:0:77,0:2714,0:-242.979,-23.1793,0,-242.979,-23.1793,-242.979 1/1:48:0,47,0:0:0:47,0:1667,0:-148.402,-14.1484,0,-148.402,-14.1484,-148.402 chr09 7142289 . CGGGGCAC TGCGGCAT,CGAGACAC 67291.9 PASS AB=0.521739,0.463594;ABP=10.8465,24.9878;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1769,891;CIGAR=1X1M1X4M1X,2M1X1M1X3M;DP=2704;DPB=2706;DPRA=0,1.26316;EPP=3835.66,1937.79;EPPR=0;GTI=0;LEN=8,8;MEANALT=3.42857,3.52632;MQM=59.9243,59.9899;MQMR=0;NS=21;NUMALT=2;ODDS=43.2056;PAIRED=0,0;PAIREDR=0;PAO=3.5,0.5;PQA=119.5,18;PQR=18;PRO=0.5;QA=61343,30546;QR=0;RO=0;RPL=1134,633;RPP=308.663,345.73;RPPR=0;RPR=635,258;RUN=1,1;SAF=1133,633;SAP=306.217,345.73;SAR=636,258;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,41,34:0:0:41,34:1378,1196:-209.025,-97.4025,-85.0603,-111.66,0,-101.425 1/2:37:0,22,15:0:0:22,15:766,498:-102.917,-40.6192,-33.9965,-62.6364,0,-58.121 1/2:41:0,25,16:0:0:25,16:887,545:-116.831,-44.5547,-37.029,-72.6227,0,-67.8062 1/2:68:0,31,37:0:0:31,37:1068,1281:-191.196,-104.448,-95.1166,-87.093,0,-75.9548 1/2:149:0,75,73:0:0:75,73:2553,2489:-409.103,-202.013,-179.436,-207.159,0,-185.184 1/2:64:0,38,25:0:0:38,25:1296,864:-175.064,-70.1887,-58.7495,-104.859,0,-97.3336 1/1:109:0,106,1:0:0:106,1:3664,36:-329.556,-31.9092,0,-326.619,-28.9968,-326.318 1/2:50:0,21,29:0:0:21,29:704,975:-136.331,-79.3222,-73.0006,-57.3442,0,-48.6143 1/1:135:0,133,0:0:0:133,0:4601,0:-413.976,-40.037,0,-413.976,-40.037,-413.976 1/1:243:0,240,2:0:0:240,2:8409,60:-756.538,-72.2472,0,-751.741,-67.4297,-751.139 1/2:232:0,132,90:0:0:132,90:4623,3024:-621.113,-244.959,-205.223,-376.153,0,-349.061 1/2:95:0,48,46:0:0:48,46:1679,1600:-266.674,-130.08,-115.63,-136.584,0,-122.737 1/1:84:0,80,1:0:0:80,1:2781,34:-250.176,-24.0824,0,-247.418,-21.3261,-247.117 1/1:73:0,69,0:0:0:69,0:2363,0:-212.595,-20.7711,0,-212.595,-20.7711,-212.595 1/2:83:0,38,43:0:0:38,43:1308,1496:-227.859,-121.63,-110.191,-106.22,0,-93.2757 1/2:70:0,32,38:0:0:32,38:1072,1309:-193.352,-106.549,-96.9157,-87.0278,0,-75.5886 1/2:68:0,39,29:0:0:39,29:1316,1001:-188.315,-81.6663,-69.9261,-106.99,0,-98.2601 1/2:768:0,383,374:0:0:383,374:13367,12844:-2130.18,-1042.96,-927.661,-1087.27,0,-974.684 1/2:107:0,71,36:0:0:71,36:2473,1230:-301.267,-100.16,-78.7873,-201.451,0,-190.614 1/1:61:0,59,1:0:0:59,1:2072,28:-186.434,-17.7608,0,-184.216,-15.577,-183.915 1/1:90:0,86,1:0:0:86,1:2963,36:-266.514,-25.8886,0,-263.577,-22.9621,-263.276 chr09 7904767 . A G 169658 PASS AB=0.528252;ABP=47.3034;AC=28;AF=0.666667;AN=42;AO=6760;CIGAR=1X;DP=9795;DPB=9795;DPRA=0;EPP=14682.2;EPPR=6580.4;GTI=0;LEN=1;MEANALT=1.28571;MQM=59.9809;MQMR=59.9894;NS=21;NUMALT=1;ODDS=39.8066;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=233867;QR=108223;RO=3029;RPL=3762;RPP=190.507;RPPR=12.1643;RPR=2998;RUN=1;SAF=3762;SAP=190.507;SAR=2998;SRF=1458;SRP=12.1643;SRR=1571;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:443:204,238:204:7307:238:8261:-610.103,0,-524.264 0/1:343:157,186:157:5624:186:6486:-480.584,0,-403.028 0/1:434:210,224:210:7524:224:7745:-566.454,0,-546.553 0/1:648:298,350:298:10673:350:11917:-877.374,0,-765.409 0/1:928:451,477:451:16139:477:16521:-1207.25,0,-1172.82 0/1:443:228,215:228:8122:215:7442:-536.482,0,-597.642 1/1:816:8,807:8:288:807:27801:-2475.12,-219.432,0 0/1:676:298,377:298:10619:377:13015:-967.794,0,-752.214 1/1:850:1,848:1:36:848:29520:-2652.4,-252.336,0 1/1:98:0,98:0:0:98:3442:-309.993,-29.5009,0 0/1:27:11,16:11:392:16:550:-41.6955,0,-27.4922 0/1:161:85,76:85:3013:76:2663:-191.45,0,-222.913 1/1:532:0,531:0:0:531:18295:-1645.84,-159.847,0 1/1:356:3,353:3:108:353:12378:-1103.79,-97.0915,0 0/1:857:449,408:449:16054:408:14165:-1016.67,0,-1186.56 0/1:405:163,242:163:5835:242:8337:-628.445,0,-403.345 0/1:416:175,241:175:6231:241:8310:-622.703,0,-435.658 0/1:324:170,154:170:6062:154:5293:-378.984,0,-448.151 0/1:284:113,171:113:4016:171:5951:-450.216,0,-276.137 1/1:527:3,523:3:108:523:18038:-1613.05,-148.514,0 1/1:227:2,225:2:72:225:7737:-689.552,-61.4971,0 chr09 7904774 . A G 66140.1 PASS AB=0.453813;ABP=124.966;AC=14;AF=0.333333;AN=42;AO=3004;CIGAR=1X;DP=10156;DPB=10156;DPRA=5.18505;EPP=6526.11;EPPR=15529;GTI=0;LEN=1;MEANALT=1.1;MQM=59.993;MQMR=59.9715;NS=21;NUMALT=1;ODDS=19.1009;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=106602;QR=254805;RO=7150;RPL=1411;RPP=26.9543;RPPR=71.2449;RPR=1593;RUN=1;SAF=1411;SAP=26.9543;SAR=1593;SRF=3812;SRP=71.2449;SRR=3338;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:470:263,207:263:9375:207:7386:-523.305,0,-702.232 0/1:357:198,159:198:7063:159:5647:-400.885,0,-528.26 0/1:448:238,210:238:8471:210:7510:-541.08,0,-627.534 0/1:670:368,302:368:13087:302:10722:-763.202,0,-975.948 0/1:955:517,438:517:18402:438:15523:-1109.27,0,-1368.29 0/1:444:223,221:223:7960:221:7842:-572.157,0,-582.769 0/0:843:836,7:836:29807:7:243:0,-231.561,-2659.54 0/1:707:411,296:411:14653:296:10489:-731.105,0,-1105.68 0/0:887:885,1:885:31583:1:36:0,-263.474,-2837.89 0/0:97:97,0:97:3447:0:0:0,-29.1999,-310.443 0/1:27:17,10:17:612:10:360:-24.6165,0,-47.2856 0/1:160:77,83:77:2768:83:2903:-213.34,0,-201.196 0/0:583:582,1:582:20802:1:36:0,-171.902,-1868.05 0/0:363:359,4:359:12796:4:144:0,-95.9603,-1138.11 0/1:869:426,442:426:15129:442:15742:-1154.83,0,-1099.69 0/1:415:253,162:253:9002:162:5732:-391.072,0,-685.235 0/1:432:257,175:257:9176:175:6206:-428.595,0,-695.763 0/1:328:157,171:157:5609:171:6042:-445.153,0,-406.193 0/1:300:189,111:189:6725:111:3899:-260.796,0,-515.019 0/0:556:553,3:553:19638:3:108:0,-157.298,-1756.68 0/0:245:244,1:244:8700:1:32:0,-70.553,-779.708 chr09 7939017 . C A 5480.39 PASS AB=0.38594;ABP=81.7721;AC=13;AF=0.309524;AN=42;AO=270;CIGAR=1X;DP=1146;DPB=1146;DPRA=1.028;EPP=589.308;EPPR=1896.54;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.717425;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9645;QR=30960;RO=876;RPL=142;RPP=4.58663;RPPR=3.02022;RPR=128;RUN=1;SAF=142;SAP=4.58663;SAR=128;SRF=438;SRP=3.0103;SRR=438;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:34:20,14:20:716:14:504:-35.4631,0,-54.5327 0/1:31:22,9:22:769:9:324:-20.1739,0,-60.1967 0/1:13:8,5:8:275:5:180:-12.6387,0,-21.1701 0/1:47:33,14:33:1184:14:496:-30.8259,0,-92.7199 0/1:66:42,24:42:1446:24:851:-57.0415,0,-110.56 0/1:58:29,29:29:1017:29:1036:-76.0942,0,-74.3801 0/0:59:59,0:59:2083:0:0:0,-17.7608,-187.737 0/1:45:26,19:26:898:19:680:-47.9828,0,-67.5834 0/0:95:95,0:95:3389:0:0:0,-28.5978,-305.224 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:21:8,13:8:262:13:455:-34.9603,0,-17.5779 0/0:36:36,0:36:1253:0:0:0,-10.8371,-113.07 0/0:74:73,1:73:2599:1:36:0,-18.6779,-230.56 0/1:51:35,16:35:1260:16:568:-36.0993,0,-98.353 0/1:17:14,3:14:504:3:108:-4.95766,0,-40.5806 0/1:26:13,13:13:464:13:468:-34.6329,0,-34.2707 0/1:154:85,69:85:3016:69:2472:-176.375,0,-225.311 0/1:134:93,41:93:3294:41:1467:-91.9873,0,-256.34 0/0:55:55,0:55:1940:0:0:0,-16.5566,-174.874 0/0:115:115,0:115:4051:0:0:0,-34.6184,-364.778 chr09 7940111 . ACT ACC 15393.2 PASS AB=0.454762;ABP=17.9418;AC=27;AF=0.642857;AN=42;AO=812;CIGAR=2M1X;DP=1286;DPB=1286;DPRA=12.81;EPP=1766.25;EPPR=1004.06;GTI=1;LEN=1;MEANALT=1.5;MQM=59.9926;MQMR=60;NS=21;NUMALT=1;ODDS=2.79843;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28360;QR=15975;RO=461;RPL=812;RPP=1766.25;RPPR=1004.06;RPR=0;RUN=1;SAF=812;SAP=1766.25;SAR=0;SRF=461;SRP=1004.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:46,50:46:1596:50:1757:-129.513,0,-115.028 0/1:44:31,13:31:1072:13:464:-28.8522,0,-83.5403 0/1:51:23,27:23:809:27:949:-70.4562,0,-57.8631 0/1:55:23,31:23:800:31:1086:-81.5098,0,-55.7793 0/1:140:74,65:74:2559:65:2300:-165.148,0,-188.446 0/1:43:36,7:36:1240:7:252:-10.0847,0,-98.9552 1/1:84:0,79:0:0:79:2771:-249.292,-23.7814,0 0/1:129:58,71:58:2064:71:2440:-181.016,0,-147.198 1/1:103:0,102:0:0:102:3596:-323.568,-30.7051,0 1/1:11:0,11:0:0:11:377:-34.2579,-3.31133,0 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7255 0/1:15:10,5:10:355:5:161:-10.2911,0,-27.7749 1/1:64:0,64:0:0:64:2239:-201.769,-19.2659,0 1/1:68:0,66:0:0:66:2312:-208.019,-19.868,0 0/1:59:27,32:27:920:32:1095:-81.0912,0,-65.3473 0/1:27:14,13:14:494:13:464:-33.9697,0,-36.665 0/1:34:24,9:24:823:9:307:-17.8031,0,-64.2333 0/1:109:71,38:71:2427:38:1298:-84.3004,0,-185.875 0/1:38:16,21:16:539:21:739:-55.411,0,-37.4063 1/1:75:2,73:2:72:73:2542:-222.194,-15.7405,0 1/1:36:1,35:1:34:35:1211:-105.891,-7.43817,0 chr09 7940493 . 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A T 10957.7 PASS AB=0.389037;ABP=203.966;AC=14;AF=0.333333;AN=42;AO=733;CIGAR=1X;DP=2997;DPB=2997;DPRA=0.946321;EPP=1594.7;EPPR=4914.88;GTI=1;LEN=1;MEANALT=1.125;MQM=56.0014;MQMR=59.9819;NS=21;NUMALT=1;ODDS=20.6463;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26208;QR=80910;RO=2262;RPL=1;RPP=1586.03;RPPR=4914.88;RPR=732;RUN=1;SAF=1;SAP=1586.03;SAR=732;SRF=0;SRP=4914.88;SRR=2262;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:218:103,115:103:3704:115:4111:-303.949,0,-267.936 0/1:172:120,52:120:4277:52:1868:-116.575,0,-333.331 0/1:135:82,53:82:2944:53:1892:-129.611,0,-224.526 0/1:124:75,48:75:2696:48:1706:-116.28,0,-205.586 0/1:279:118,160:118:4211:160:5730:-431.082,0,-295.123 0/1:152:111,41:111:3967:41:1472:-86.7927,0,-311.456 0/0:294:293,1:293:10489:1:36:0,-84.9045,-940.326 0/1:78:42,36:42:1512:36:1279:-91.8141,0,-112.894 0/0:300:300,0:300:10680:0:0:0,-90.309,-961.113 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:7:5,2:5:165:2:72:-4.7276,0,-13.0664 0/1:19:7,12:7:252:12:432:-33.4144,0,-17.3094 0/0:206:206,0:206:7366:0:0:0,-62.0122,-662.985 0/0:156:156,0:156:5592:0:0:0,-46.9607,-503.402 0/1:311:233,78:233:8347:78:2804:-158.384,0,-657.485 0/1:149:105,44:105:3772:44:1562:-95.8963,0,-294.824 0/1:70:37,33:37:1320:33:1175:-84.9466,0,-98.0298 0/1:93:53,40:53:1874:40:1440:-101.703,0,-140.942 0/1:72:55,17:55:1976:17:604:-32.8116,0,-156.44 0/0:70:70,0:70:2503:0:0:0,-21.0721,-225.522 0/0:80:79,1:79:2831:1:25:0,-21.5825,-252.528 chr09 8075197 . G A 4201.2 PASS AB=0.578067;ABP=31.4897;AC=13;AF=0.309524;AN=42;AO=311;CIGAR=1X;DP=757;DPB=757;DPRA=1.51177;EPP=678.338;EPPR=971.487;GTI=1;LEN=1;MEANALT=1;MQM=34.2669;MQMR=36.0067;NS=21;NUMALT=1;ODDS=1.2813;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11061;QR=15735;RO=446;RPL=0;RPP=678.338;RPPR=971.487;RPR=311;RUN=1;SAF=0;SAP=678.338;SAR=311;SRF=0;SRP=971.487;SRR=446;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:24,7:24:841:7:252:-11.4435,0,-60.6415 0/1:37:14,23:14:496:23:820:-51.9665,0,-30.3797 0/1:61:14,47:14:500:47:1664:-117.836,0,-23.8559 0/1:30:5,25:5:180:25:900:-64.5261,0,-6.14461 0/1:80:24,56:24:847:56:1999:-138.224,0,-46.4762 0/1:31:11,20:11:387:20:692:-44.4331,0,-23.4617 0/0:26:26,0:26:889:0:0:0,-7.82678,-75.2613 0/1:41:25,16:25:891:16:568:-34.2109,0,-59.9111 0/0:110:110,0:110:3899:0:0:0,-33.1133,-318.433 0/0:6:6,0:6:216:0:0:0,-1.80618,-18.4189 0/0:5:5,0:5:176:0:0:0,-1.50515,-15.3801 0/1:5:4,1:4:144:1:36:-1.39761,0,-10.7012 0/0:21:21,0:21:737:0:0:0,-6.32163,-60.7361 0/0:22:22,0:22:783:0:0:0,-6.62266,-63.8705 0/1:115:61,54:61:2158:54:1923:-121.162,0,-143.425 0/1:26:12,14:12:428:14:491:-28.9484,0,-26.6901 0/1:31:14,17:14:482:17:608:-40.4574,0,-30.5859 0/1:17:5,12:5:180:12:428:-28.8735,0,-9.39477 0/1:33:14,19:14:478:19:680:-45.1576,0,-30.34 0/0:19:19,0:19:680:0:0:0,-5.71957,-56.52 0/0:10:10,0:10:343:0:0:0,-3.0103,-29.3209 chr09 8075331 . T C 1.94566e-09 PASS AB=0.473262;ABP=5.33273;AC=14;AF=0.333333;AN=42;AO=557;CIGAR=1X;DP=2329;DPB=2329;DPRA=0;EPP=1212.52;EPPR=3844.34;GTI=10;LEN=1;MEANALT=1.09524;MQM=10.4291;MQMR=12.4878;NS=21;NUMALT=1;ODDS=21.5255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19784;QR=62811;RO=1769;RPL=0;RPP=1212.52;RPPR=3766.57;RPR=557;RUN=1;SAF=0;SAP=1212.52;SAR=557;SRF=9;SRP=3766.57;SRR=1760;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:18,10:18:640:10:343:-1.82903,0,-13.4437 0/1:49:21,28:21:748:28:1008:-10.5247,0,-8.01441 0/0:22:20,2:20:712:2:68:0,-4.72593,-23.621 0/1:24:16,8:16:572:8:271:-0.150257,0,-10.0593 0/0:57:56,1:56:2004:1:36:0,-16.1597,-60.9268 1/1:76:15,61:15:524:61:2156:-38.7075,-6.58909,0 0/1:83:32,51:32:1152:51:1820:-20.9641,0,-9.64778 1/1:54:12,42:12:417:42:1491:-23.8758,-2.00899,0 1/1:175:26,149:26:932:149:5271:-119.151,-22.9095,0 0/0:284:249,34:249:8854:34:1216:0,-54.6339,-245.776 0/0:465:434,31:434:15398:31:1108:0,-112.009,-449.91 0/0:140:126,14:126:4488:14:496:0,-29.4593,-125.232 0/0:66:55,11:55:1964:11:376:0,-9.613,-51.2147 0/0:109:104,5:104:3695:5:180:0,-28.125,-115.972 0/0:56:55,1:55:1949:1:36:0,-15.8587,-61.8747 0/1:84:56,28:56:2000:28:1004:-2.33,0,-37.7157 0/1:21:11,10:11:392:10:360:-3.58614,0,-7.38983 0/0:430:402,26:402:14211:26:928:0,-105.476,-423.127 0/0:21:18,3:18:640:3:108:0,-2.41041,-17.8647 0/1:52:25,27:25:883:27:968:-8.99131,0,-11.4155 0/1:33:18,15:18:636:15:540:-3.65267,0,-11.6598 chr09 8406315 . T C 14434.7 PASS AB=0.48494;ABP=5.62653;AC=14;AF=0.333333;AN=42;AO=647;CIGAR=1X;DP=2160;DPB=2160;DPRA=0.853303;EPP=1407.95;EPPR=3268.93;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.9876;MQMR=59.9808;NS=21;NUMALT=1;ODDS=4.95819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23008;QR=54111;RO=1512;RPL=328;RPP=3.28215;RPPR=5.08411;RPR=319;RUN=1;SAF=328;SAP=3.28215;SAR=319;SRF=775;SRP=5.08411;SRR=737;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:51,40:51:1832:40:1432:-101.784,0,-137.767 0/1:44:23,21:23:816:21:739:-53.5871,0,-60.5164 0/1:79:41,38:41:1463:38:1336:-96.7558,0,-108.184 0/1:142:68,74:68:2444:74:2636:-194.739,0,-177.468 0/1:173:91,81:91:3268:81:2874:-206.76,0,-242.203 0/1:107:45,62:45:1604:62:2224:-168.214,0,-112.44 0/0:166:166,0:166:5927:0:0:0,-49.971,-533.537 0/1:83:48,35:48:1702:35:1239:-86.8282,0,-128.479 0/0:170:170,0:170:6082:0:0:0,-51.1751,-547.457 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:12:9,3:9:320:3:108:-6.46281,0,-25.53 0/1:36:18,18:18:648:18:639:-47.0012,0,-47.8148 0/0:156:156,0:156:5588:0:0:0,-46.9607,-503.04 0/0:77:77,0:77:2750:0:0:0,-23.1793,-247.741 0/1:186:86,100:86:3092:100:3559:-264.528,0,-222.515 0/1:45:27,18:27:964:18:648:-45.1055,0,-73.5305 0/1:60:33,27:33:1188:27:972:-69.7361,0,-89.1668 0/1:127:60,67:60:2144:67:2360:-174.418,0,-154.997 0/1:143:83,60:83:2963:60:2134:-149.28,0,-223.856 0/0:168:166,2:166:5956:2:72:0,-43.7363,-529.309 0/0:85:84,1:84:3004:1:36:0,-21.9893,-266.99 chr09 8671643 . C T 11452.9 PASS AB=0.461629;ABP=24.8408;AC=14;AF=0.333333;AN=42;AO=793;CIGAR=1X;DP=2714;DPB=2714;DPRA=1.0611;EPP=1724.99;EPPR=4174.41;GTI=1;LEN=1;MEANALT=1;MQM=40.0668;MQMR=39.6408;NS=21;NUMALT=1;ODDS=10.2472;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28244;QR=68723;RO=1921;RPL=0;RPP=1724.99;RPPR=4174.41;RPR=793;RUN=1;SAF=793;SAP=1724.99;SAR=0;SRF=1921;SRP=4174.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:47,60:47:1692:60:2156:-151.332,0,-114.126 0/1:58:33,25:33:1169:25:900:-63.8613,0,-81.9353 0/1:157:82,75:82:2928:75:2684:-180.668,0,-205.819 0/1:130:56,74:56:2012:74:2626:-183.872,0,-130.354 0/1:249:125,124:125:4464:124:4402:-298.22,0,-310.543 0/1:59:41,18:41:1476:18:633:-39.1624,0,-107.463 0/0:264:259,5:259:9242:5:165:0,-64.2983,-766.603 0/1:162:82,80:82:2936:80:2859:-194.333,0,-205.899 0/0:304:304,0:304:10896:0:0:0,-91.5131,-935.831 0/0:14:14,0:14:500:0:0:0,-4.21442,-43.9035 0/1:7:6,1:6:216:1:36:-1.49107,0,-16.4434 0/1:31:19,12:19:676:12:432:-27.7843,0,-49.428 0/0:61:61,0:61:2184:0:0:0,-18.3628,-188.476 0/0:162:162,0:162:5777:0:0:0,-48.7669,-498.823 0/1:351:203,148:203:7244:148:5263:-340.944,0,-520.831 0/1:82:49,33:49:1752:33:1154:-73.5079,0,-126.541 0/1:81:51,30:51:1828:30:1076:-67.3607,0,-133.567 0/1:177:88,89:88:3155:89:3174:-215.912,0,-217.822 0/1:56:37,19:37:1332:19:684:-41.1701,0,-97.9611 0/0:141:141,0:141:5056:0:0:0,-42.4452,-437.07 0/0:61:61,0:61:2188:0:0:0,-18.3628,-185.565 chr09 8725332 . CAC TAG,TAA 12295.8 PASS AB=0.514368,0.482759;ABP=3.63429,3.90884;AC=29,13;AF=0.690476,0.309524;AN=42;AO=416,168;CIGAR=1X1M1X,1X1M1X;DP=585;DPB=585;DPRA=0,0.903603;EPP=906.343,367.818;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.66667,2.07692;MQM=59.3702,59.8571;MQMR=0;NS=21;NUMALT=2;ODDS=7.57026;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=14866,5990;QR=0;RO=0;RPL=416,168;RPP=906.343,367.818;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=906.343,367.818;SAR=416,168;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:17:0,8,9:0:0:8,9:288,319:-49.8378,-26.3421,-23.9339,-23.8529,0,-21.1436 1/2:18:0,9,9:0:0:9,9:324,324:-53.2157,-26.7966,-24.0873,-26.7788,0,-24.0695 1/2:35:0,12,23:0:0:12,23:432,826:-102.961,-67.7401,-64.1278,-35.5803,0,-28.6566 1/2:27:0,11,16:0:0:11,16:394,574:-79.2619,-47.1755,-43.8642,-32.4444,0,-27.6279 1/2:53:0,23,29:0:0:23,29:828,1024:-151.029,-83.4641,-76.5404,-67.6469,0,-58.917 1/2:12:0,7,5:0:0:7,5:252,180:-35.5911,-15.0469,-12.9397,-20.9039,0,-19.3988 1/1:48:0,48,0:0:0:48,0:1711,0:-154.235,-14.4494,0,-154.235,-14.4494,-154.235 1/2:26:0,12,14:0:0:12,14:421,501:-75.4702,-41.2123,-37.5999,-34.6118,0,-30.3973 1/1:69:0,69,0:0:0:69,0:2476,0:-223.005,-20.7711,0,-223.005,-20.7711,-223.005 1/1:6:0,6,0:0:0:6,0:208,0:-19.0548,-1.80618,0,-19.0548,-1.80618,-19.0548 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:13:0,6,7:0:0:6,7:206,247:-37.1877,-20.4657,-18.6595,-17.0696,0,-14.9624 1/1:25:0,25,0:0:0:25,0:892,0:-80.5707,-7.52575,0,-80.5707,-7.52575,-80.5707 1/1:20:0,20,0:0:0:20,0:715,0:-64.6492,-6.0206,0,-64.6492,-6.0206,-64.6492 1/2:51:0,33,18:0:0:33,18:1165,646:-147.814,-53.0346,-43.1006,-95.1363,0,-89.7177 1/2:12:0,5,7:0:0:5,7:180,252:-35.6088,-20.9217,-19.4166,-15.0469,0,-12.9397 1/2:25:0,16,9:0:0:16,9:568,312:-71.991,-25.7057,-20.8893,-46.6348,0,-43.9256 1/2:31:0,16,15:0:0:16,15:572,533:-90.4066,-43.7881,-38.9716,-46.9746,0,-42.4592 1/2:28:0,21,7:0:0:21,7:752,252:-81.8416,-20.9217,-14.6001,-61.2786,0,-59.1714 1/1:50:0,50,0:0:0:50,0:1798,0:-162.102,-15.0515,0,-162.102,-15.0515,-162.102 1/1:15:0,15,0:0:0:15,0:540,0:-48.9012,-4.51545,0,-48.9012,-4.51545,-48.9012 chr09 8734132 . A T 11360.4 PASS AB=0.483274;ABP=6.42438;AC=14;AF=0.333333;AN=42;AO=680;CIGAR=1X;DP=2129;DPB=2129;DPRA=1.14836;EPP=1479.61;EPPR=3123.42;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.5544;MQMR=59.9188;NS=21;NUMALT=1;ODDS=9.80513;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24368;QR=51375;RO=1441;RPL=680;RPP=1479.61;RPPR=3123.42;RPR=0;RUN=1;SAF=680;SAP=1479.61;SAR=0;SRF=1441;SRP=3132.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:60,38:60:2118:38:1355:-92.3818,0,-161.048 0/1:111:47,64:47:1684:64:2281:-172.105,0,-118.433 0/1:149:72,77:72:2592:77:2768:-204.48,0,-188.675 0/1:94:52,42:52:1849:42:1508:-107.62,0,-138.391 0/1:251:116,135:116:4111:135:4835:-359.555,0,-294.615 0/1:141:82,59:82:2880:59:2120:-148.599,0,-216.984 0/0:174:172,1:172:6118:1:36:0,-48.8393,-547.121 0/1:57:31,26:31:1097:26:936:-67.4008,0,-81.8793 0/0:171:171,0:171:6135:0:0:0,-51.4761,-552.247 0/0:18:17,0:17:612:0:0:0,-5.11751,-55.0867 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:15:6,9:6:201:9:324:-24.9904,0,-13.9016 0/0:71:71,0:71:2518:0:0:0,-21.3731,-226.712 0/0:123:123,0:123:4396:0:0:0,-37.0267,-395.794 0/1:103:59,44:59:2088:44:1580:-111.479,0,-157.182 0/1:69:29,40:29:1040:40:1432:-108.402,0,-73.1433 0/1:68:28,40:28:1004:40:1425:-108.075,0,-70.2058 0/1:134:63,71:63:2260:71:2544:-188.717,0,-163.325 0/1:103:72,31:72:2568:31:1116:-69.7394,0,-200.364 0/0:98:98,0:98:3520:0:0:0,-29.5009,-317.009 0/0:69:69,0:69:2476:0:0:0,-20.7711,-222.308 chr09 9132500 . 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T C 48541 PASS AB=0.487412;ABP=9.0785;AC=14;AF=0.333333;AN=42;AO=2154;CIGAR=1X;DP=6783;DPB=6783;DPRA=1.07975;EPP=4654.34;EPPR=10020;GTI=0;LEN=1;MEANALT=1.22222;MQM=58.8682;MQMR=59.9261;NS=21;NUMALT=1;ODDS=31.4302;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76272;QR=165153;RO=4625;RPL=1096;RPP=4.46601;RPPR=11.3154;RPR=1058;RUN=1;SAF=1093;SAP=4.04261;SAR=1061;SRF=2376;SRP=10.583;SRR=2249;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:294:152,142:152:5407:142:5053:-366.111,0,-398.253 0/1:331:169,162:169:6057:162:5771:-419.604,0,-445.58 0/1:295:143,152:143:5102:152:5365:-394.091,0,-370.52 0/1:439:220,219:220:7853:219:7750:-565.07,0,-574.646 0/1:647:320,326:320:11392:326:11563:-845.375,0,-830.216 0/1:433:212,220:212:7568:220:7824:-573.302,0,-550.753 0/0:555:555,0:555:19864:0:0:0,-167.072,-1787.06 0/1:326:176,150:176:6278:150:5329:-381.461,0,-466.978 0/0:733:731,2:731:26136:2:61:0,-214.864,-2345.71 0/0:28:28,0:28:995:0:0:0,-8.42884,-89.864 0/1:12:5,7:5:180:7:239:-18.2182,0,-12.9397 0/1:95:47,48:47:1679:48:1677:-122.594,0,-122.798 0/0:324:324,0:324:11567:0:0:0,-97.5337,-1040.9 0/0:311:310,1:310:11088:1:36:0,-90.022,-993.928 0/1:453:230,223:230:8220:223:7875:-572.035,0,-603.434 0/1:358:179,179:179:6392:179:6305:-459.135,0,-467.595 0/1:372:185,186:185:6612:186:6574:-479.413,0,-483.103 0/1:185:97,88:97:3458:88:3117:-224.578,0,-255.738 0/1:169:121,47:121:4285:47:1661:-98.8009,0,-334.894 0/0:295:294,1:294:10492:1:36:0,-85.2056,-940.159 0/0:128:127,1:127:4528:1:36:0,-34.9362,-404.087 chr09 9217614 . CGATG TGATG,TGATC 20193.6 PASS AB=0.613843,0.377049;ABP=64.8122,75.0961;AC=28,14;AF=0.666667,0.333333;AN=42;AO=773,207;CIGAR=1X4M,1X3M1X;DP=988;DPB=988.4;DPRA=0,0.625285;EPP=1681.56,452.505;EPPR=11.6962;GTI=1;LEN=1,5;MEANALT=1.85714,2.14286;MQM=59.5821,59.4106;MQMR=60;NS=21;NUMALT=2;ODDS=1.86179;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,68;PQR=0;PRO=0;QA=27343,7223;QR=134;RO=4;RPL=0,0;RPP=1681.56,452.505;RPPR=11.6962;RPR=773,207;RUN=1,1;SAF=0,0;SAP=1681.56,452.505;SAR=773,207;SRF=0;SRP=11.6962;SRR=4;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:21:0,13,8:0:0:13,8:449,286:-60.1487,-23.6773,-19.7639,-36.8241,0,-34.4159 1/2:48:0,23,25:0:0:23,25:816,864:-136.99,-70.5026,-63.5789,-66.838,0,-59.3123 1/2:62:1,35,26:1:26:35,26:1244,916:-173.637,-72.5934,-64.0928,-99.3996,0,-93.609 1/2:42:0,23,19:0:0:23,19:820,649:-119.536,-52.6894,-45.7657,-66.8728,0,-61.1532 1/2:41:0,24,17:0:0:24,17:841,586:-116.344,-47.9377,-40.713,-68.7532,0,-63.6357 1/2:37:0,27,10:0:0:27,10:968,355:-107.865,-29.1933,-21.0654,-79.0266,0,-76.0163 1/1:115:0,115,0:0:0:115,0:4094,0:-368.485,-34.6185,0,-368.485,-34.6185,-368.485 1/2:45:0,26,18:0:0:26,18:920,623:-125.543,-50.6025,-42.7757,-74.9308,0,-69.5122 1/1:122:0,122,0:0:0:122,0:4306,0:-387.707,-36.7257,0,-387.707,-36.7257,-387.707 1/1:19:0,19,0:0:0:19,0:666,0:-60.2618,-5.71957,0,-60.2618,-5.71957,-60.2618 1/2:8:0,5,3:0:0:5,3:180,108:-23.8025,-9.17208,-7.66693,-14.9897,0,-14.0866 1/2:7:0,1,6:0:0:1,6:36,207:-19.7429,-16.8039,-16.5029,-2.93742,0,-1.13124 1/1:41:0,41,0:0:0:41,0:1463,0:-131.59,-12.3422,0,-131.59,-12.3422,-131.59 1/1:60:0,59,0:0:0:59,0:2051,0:-184.609,-17.7608,0,-184.609,-17.7608,-184.609 1/2:72:0,45,27:0:0:45,27:1600,941:-207.253,-76.8733,-63.327,-130.731,0,-122.603 1/2:49:2,26,20:2:72:26,20:919,705:-125.778,-51.5367,-49.5857,-68.9831,0,-68.838 1/2:37:0,29,8:0:0:29,8:1023,286:-106.966,-23.6773,-14.9474,-83.6454,0,-81.2372 1/2:54:0,41,13:0:0:41,13:1448,455:-155.283,-37.365,-25.0228,-118.268,0,-114.355 1/2:26:0,19,7:0:0:19,7:675,242:-75.0048,-20.0099,-14.2904,-55.3429,0,-53.2357 1/1:36:0,35,0:0:0:35,0:1244,0:-111.922,-10.5361,0,-111.922,-10.5361,-111.922 1/1:46:1,45,0:1:36:45,0:1580,0:-138.885,-10.2491,0,-139.186,-13.5464,-142.124 chr09 9341407 . ACCACGC AC,ACAACGC 61422.8 PASS AB=0.518432,0.475968;ABP=9.33422,13.7603;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1952,1022;CIGAR=1M5D1M,2M1X4M;DP=2987;DPB=1591.43;DPRA=0,1.66356;EPP=4207.05,2085.46;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.28571,2.8;MQM=59.915,59.9785;MQMR=0;NS=21;NUMALT=2;ODDS=2.11635;PAIRED=0,0;PAIREDR=0;PAO=0,0.5;PQA=0,10.5;PQR=10.5;PRO=0.5;QA=67774,36473;QR=0;RO=0;RPL=4,21;RPP=4207.05,2043.6;RPPR=0;RPR=1948,1001;RUN=1,1;SAF=0,5;SAP=4241.72,2179.04;SAR=1952,1017;SRF=0;SRP=0;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:244:0,154,88:0:0:154,88:5376,3136:-692.93,-255.663,-209.304,-437.309,0,-410.819 1/2:139:0,71,68:0:0:71,68:2483,2416:-399.159,-197.165,-175.792,-202.288,0,-181.818 1/2:178:0,75,103:0:0:75,103:2591,3687:-511.532,-301.024,-278.447,-210.858,0,-179.852 1/2:207:0,116,91:0:0:116,91:3938,3272:-586.647,-267.305,-232.386,-319.693,0,-292.299 1/2:267:0,138,127:0:0:138,127:4796,4546:-760.622,-370.728,-329.186,-389.902,0,-351.671 1/2:102:0,53,49:0:0:53,49:1869,1745:-294.758,-142.582,-126.627,-152.53,0,-137.78 1/1:254:0,252,1:0:0:252,1:8682,36:-781.088,-75.8596,0,-778.15,-72.8552,-777.849 1/2:136:0,85,49:0:0:85,49:2923,1760:-380.99,-143.637,-118.05,-237.418,0,-222.667 1/1:153:0,153,0:0:0:153,0:5325,0:-479.371,-46.0576,0,-479.371,-46.0576,-479.371 1/1:37:0,37,0:0:0:37,0:1296,0:-116.938,-11.1381,0,-116.938,-11.1381,-116.938 1/1:11:0,10,1:0:0:10,1:352,32:-31.6954,-3.0103,0,-29.1199,-0.112017,-28.8189 1/2:52:0,20,32:0:0:20,32:707,1152:-151.934,-94.3563,-88.3357,-57.934,0,-48.301 1/1:89:0,89,0:0:0:89,0:3152,0:-283.905,-26.7917,0,-283.905,-26.7917,-283.905 1/1:153:0,153,0:0:0:153,0:5269,0:-474.304,-46.0576,0,-474.304,-46.0576,-474.304 1/2:209:0,101,106:0:0:101,106:3517,3783:-594.487,-308.498,-278.094,-286.079,0,-254.169 1/2:164:0,81,81:0:0:81,81:2780,2912:-463.327,-237.625,-213.241,-225.746,0,-201.363 1/2:167:0,73,92:0:0:73,92:2525,3271:-471.716,-266.613,-244.638,-205.151,0,-177.456 1/2:189:0,97,92:0:0:97,92:3374,3240:-538.451,-264.123,-234.923,-274.678,0,-246.983 1/2:89:0,47,42:0:0:47,42:1661,1485:-256.573,-121.299,-107.151,-135.627,0,-122.984 1/1:92:0,92,0:0:0:92,0:3218,0:-289.84,-27.6948,0,-289.84,-27.6948,-289.84 1/1:55:0,55,0:0:0:55,0:1940,0:-174.872,-16.5567,0,-174.872,-16.5567,-174.872 chr09 9341435 . A G 42222.1 PASS AB=0.539803;ABP=33.7799;AC=29;AF=0.690476;AN=42;AO=2138;CIGAR=1X;DP=3171;DPB=3171;DPRA=0;EPP=4645.62;EPPR=2237.46;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.7587;MQMR=59.966;NS=21;NUMALT=1;ODDS=3.6518;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76149;QR=36879;RO=1029;RPL=2138;RPP=4645.62;RPPR=2237.46;RPR=0;RUN=1;SAF=0;SAP=4645.62;SAR=2138;SRF=0;SRP=2237.46;SRR=1029;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:264:87,176:87:3128:176:6249:-482.914,0,-202.215 0/1:141:67,74:67:2392:74:2652:-196.479,0,-173.091 0/1:185:104,81:104:3721:81:2871:-202.935,0,-279.399 0/1:212:91,120:91:3264:120:4279:-321.412,0,-230.091 0/1:278:124,154:124:4460:154:5509:-412.074,0,-317.88 0/1:110:51,59:51:1832:59:2100:-156.154,0,-132.047 1/1:285:1,284:1:36:284:10123:-907.343,-82.1953,0 0/1:143:50,93:50:1796:93:3307:-254.764,0,-118.867 1/1:162:0,161:0:0:161:5708:-513.499,-48.4658,0 1/1:39:0,39:0:0:39:1396:-125.939,-11.7402,0 1/1:12:1,11:1:36:11:396:-32.3845,-0.0140851,0 0/1:54:30,24:30:1080:24:860:-61.4212,0,-81.2567 1/1:104:0,104:0:0:104:3712:-333.619,-31.3071,0 1/1:171:0,171:0:0:171:6072:-546.524,-51.4761,0 0/1:222:112,110:112:4001:110:3928:-286.426,0,-293.45 0/1:170:82,88:82:2929:88:3148:-230.656,0,-212.668 0/1:170:95,75:95:3392:75:2672:-189.383,0,-254.321 0/1:197:93,104:93:3340:104:3697:-273.63,0,-241.513 0/1:90:41,49:41:1472:49:1740:-129.792,0,-105.683 1/1:102:0,101:0:0:101:3616:-325.225,-30.404,0 1/1:60:0,60:0:0:60:2114:-190.505,-18.0618,0 chr09 9341441 . AGAA CGAG 16256.7 PASS AB=0.452116;ABP=47.7214;AC=13;AF=0.309524;AN=42;AO=1017;CIGAR=1X2M1X;DP=3199;DPB=3199.75;DPRA=1.57165;EPP=2211.4;EPPR=4730.31;GTI=0;LEN=4;MEANALT=1.26667;MQM=59.9784;MQMR=59.7836;NS=21;NUMALT=1;ODDS=5.88943;PAIRED=0;PAIREDR=0;PAO=3;PQA=104;PQR=0;PRO=0;QA=36040;QR=77140;RO=2177;RPL=1017;RPP=2211.4;RPPR=4730.31;RPR=0;RUN=1;SAF=0;SAP=2211.4;SAR=1017;SRF=0;SRP=4730.31;SRR=2177;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:264:177,87:177:6267:87:3087:-198.586,0,-484.636 0/1:143:77,66:77:2740:66:2328:-166.412,0,-203.473 0/1:185:82,102:82:2910:102:3647:-272.715,0,-206.402 0/1:213:122,91:122:4346:91:3206:-224.627,0,-327.197 0/1:280:156,123:156:5549:123:4355:-307.927,0,-415.1 0/1:109:60,49:60:2102:49:1754:-125.332,0,-156.633 0/0:293:292,1:292:10294:1:36:0,-84.6035,-922.783 0/1:144:93,50:93:3313:50:1780:-117.076,0,-254.969 0/0:163:162,0:162:5764:0:0:0,-48.7669,-518.407 0/0:40:40,0:40:1415:0:0:0,-12.0412,-127.647 0/0:12:11,1:11:395:1:36:0,-0.0140849,-32.2939 0/1:50:23,27:23:824:27:961:-71.3953,0,-59.0723 0/0:106:106,0:106:3748:0:0:0,-31.9092,-336.956 0/0:173:173,0:173:6095:0:0:0,-52.0782,-548.61 0/1:223:114,109:114:4043:109:3857:-280.199,0,-296.65 0/1:172:89,83:89:3168:83:2933:-212.427,0,-232.791 0/1:173:78,94:78:2766:94:3324:-247.243,0,-196.886 0/1:199:106,93:106:3767:93:3280:-235.515,0,-279.326 0/1:90:49,41:49:1704:41:1456:-104.244,0,-126.551 0/0:106:106,0:106:3757:0:0:0,-31.9092,-338.281 0/0:61:61,0:61:2173:0:0:0,-18.3628,-195.828 chr09 9874436 . G A 7253.76 PASS AB=0.426997;ABP=53.4208;AC=14;AF=0.333333;AN=42;AO=466;CIGAR=1X;DP=1632;DPB=1632;DPRA=1.03473;EPP=1014.92;EPPR=2534.95;GTI=0;LEN=1;MEANALT=1;MQM=59.9506;MQMR=60;NS=21;NUMALT=1;ODDS=17.4225;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16630;QR=41653;RO=1166;RPL=0;RPP=1014.92;RPPR=2534.95;RPR=466;RUN=1;SAF=466;SAP=1014.92;SAR=0;SRF=1166;SRP=2534.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:47,13:47:1662:13:468:-24.3955,0,-131.802 0/1:55:23,32:23:805:32:1129:-85.3597,0,-56.2109 0/1:64:35,29:35:1256:29:1032:-73.9276,0,-94.0794 0/1:56:33,23:33:1184:23:824:-57.6256,0,-90.0106 0/1:208:91,117:91:3249:117:4204:-315.921,0,-230.016 0/1:44:33,11:33:1180:11:396:-22.7374,0,-93.2627 0/0:106:106,0:106:3796:0:0:0,-31.9092,-341.838 0/1:89:53,36:53:1896:36:1288:-89.4273,0,-144.126 0/0:138:138,0:138:4964:0:0:0,-41.5421,-446.906 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:9:3,6:3:108:6:212:-16.7155,0,-7.3659 0/1:14:7,7:7:252:7:252:-18.8145,0,-18.8145 0/0:55:55,0:55:1945:0:0:0,-16.5566,-175.324 0/0:88:87,1:87:3108:1:21:0,-24.3907,-277.848 0/1:134:75,59:75:2700:59:2099:-148.841,0,-202.905 0/1:75:51,24:51:1820:24:848:-54.0624,0,-141.504 0/1:77:51,26:51:1809:26:928:-60.659,0,-139.91 0/1:102:42,60:42:1508:60:2141:-162.246,0,-105.31 0/1:102:80,22:80:2861:22:788:-40.5397,0,-227.021 0/0:89:89,0:89:3165:0:0:0,-26.7917,-285.074 0/0:58:58,0:58:2061:0:0:0,-17.4597,-185.759 chr09 10019647 . A C 4321.48 PASS AB=0.422131;ABP=28.712;AC=13;AF=0.309524;AN=42;AO=207;CIGAR=1X;DP=775;DPB=775;DPRA=1.20705;EPP=11.8326;EPPR=104.763;GTI=0;LEN=1;MEANALT=1;MQM=59.9324;MQMR=59.9012;NS=21;NUMALT=1;ODDS=8.33485;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7405;QR=20087;RO=567;RPL=0;RPP=452.505;RPPR=1234.24;RPR=207;RUN=1;SAF=118;SAP=11.8326;SAR=89;SRF=365;SRP=104.763;SRR=202;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:23,13:23:813:13:468:-31.6226,0,-62.6474 0/1:17:10,7:10:360:7:250:-17.7292,0,-27.6268 0/1:21:13,8:13:460:8:288:-19.9458,0,-35.4137 0/1:27:13,14:13:468:14:500:-37.2084,0,-34.3318 0/1:38:23,15:23:828:15:536:-37.1357,0,-63.405 0/1:17:13,4:13:468:4:144:-8.19611,0,-37.3421 0/0:52:51,0:51:1764:0:0:0,-15.3525,-158.676 0/1:30:13,17:13:468:17:612:-46.3825,0,-33.4287 0/0:60:59,1:59:2087:1:36:0,-14.4635,-184.437 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:7,3:7:237:3:108:-7.06487,0,-18.6488 0/0:29:29,0:29:1021:0:0:0,-8.72987,-92.1718 0/0:34:34,0:34:1201:0:0:0,-10.235,-108.394 0/1:54:21,33:21:747:33:1180:-90.2524,0,-51.2987 0/1:16:5,11:5:176:11:392:-30.8036,0,-11.3685 0/1:29:23,6:23:816:6:216:-11.0606,0,-65.0318 0/1:107:60,47:60:2139:47:1671:-118.462,0,-160.567 0/1:86:58,28:58:2056:28:1004:-64.784,0,-159.423 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/0:80:80,0:80:2826:0:0:0,-24.0824,-254.566 chr09 10019657 . TAGCCCG CAGCTCG,TAGCTCT 24541.8 PASS AB=0.574074,0.415825;ABP=31.3199,39.5671;AC=28,14;AF=0.666667,0.333333;AN=42;AO=686,248;CIGAR=1X3M1X2M,4M1X1M1X;DP=946;DPB=946.429;DPRA=0,0.904828;EPP=7.58115,4.72646;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.14286,2.4;MQM=59.9213,59.9435;MQMR=0;NS=21;NUMALT=2;ODDS=4.22944;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,33;PQR=0;PRO=0;QA=23900,8667;QR=0;RO=0;RPL=3,2;RPP=1466.7,524.304;RPPR=0;RPR=683,246;RUN=1,1;SAF=365,119;SAP=9.13854,3.88589;SAR=321,129;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:36:0,24,12:0:0:24,12:836,422:-102.683,-34.7024,-27.4777,-68.3312,0,-64.7188 1/2:23:0,12,11:0:0:12,11:425,394:-67.1088,-32.4902,-28.8778,-34.9747,0,-31.6634 1/2:21:0,13,8:0:0:13,8:462,288:-61.5045,-23.8592,-19.9458,-38.0034,0,-35.5952 1/2:28:0,12,15:0:0:12,15:424,505:-75.4812,-40.9422,-37.3298,-34.5711,0,-30.0556 1/2:38:0,23,15:0:0:23,15:804,527:-108.65,-43.2451,-36.3214,-65.7558,0,-61.2404 1/2:25:0,19,6:0:0:19,6:668,208:-71.6302,-17.2523,-11.5328,-54.7255,0,-52.9194 1/1:70:0,68,0:0:0:68,0:2371,0:-213.29,-20.47,0,-213.29,-20.47,-213.29 1/2:39:0,17,22:0:0:17,22:589,777:-111.496,-63.6289,-58.5114,-48.2165,0,-41.5938 1/1:62:0,60,1:0:0:60,1:2101,36:-189.008,-18.0618,0,-186.071,-15.0545,-185.77 1/1:9:0,9,0:0:0:9,0:314,0:-28.5964,-2.70927,0,-28.5964,-2.70927,-28.5964 1/2:5:0,4,1:0:0:4,1:139,36:-14.588,-3.29724,-2.09312,-11.6481,0,-11.3471 1/2:12:0,9,3:0:0:9,3:322,108:-35.4277,-9.17208,-6.46281,-26.6149,0,-25.7119 1/1:29:0,29,0:0:0:29,0:997,0:-90.034,-8.72987,0,-90.034,-8.72987,-90.034 1/1:35:0,35,0:0:0:35,0:1219,0:-110.012,-10.5361,0,-110.012,-10.5361,-110.012 1/2:54:0,21,33:0:0:21,33:747,1159:-155.561,-94.6809,-88.3593,-61.2337,0,-51.2997 1/2:18:0,6,12:0:0:6,12:197,418:-50.2506,-34.3402,-32.534,-16.2453,0,-12.6329 1/2:29:0,23,6:0:0:23,6:812,201:-82.7508,-16.6123,-9.68864,-66.4771,0,-64.6709 1/2:172:0,95,73:0:0:95,73:3245,2559:-471.563,-208.229,-179.631,-263.329,0,-241.353 1/2:94:0,63,30:0:0:63,30:2192,1029:-261.759,-83.523,-64.5581,-178.221,0,-169.19 1/1:41:0,40,0:0:0:40,0:1388,0:-124.915,-12.0412,0,-124.915,-12.0412,-124.915 1/1:106:0,104,0:0:0:104,0:3648,0:-328.153,-31.3071,0,-328.153,-31.3071,-328.153 chr09 10019669 . G A 17013.2 PASS AB=0.565517;ABP=24.6352;AC=28;AF=0.666667;AN=42;AO=662;CIGAR=1X;DP=917;DPB=917;DPRA=0;EPP=1440.53;EPPR=556.736;GTI=1;LEN=1;MEANALT=1;MQM=59.9154;MQMR=59.9451;NS=21;NUMALT=1;ODDS=3.07106;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23399;QR=9072;RO=255;RPL=349;RPP=7.2614;RPPR=4.92631;RPR=313;RUN=1;SAF=349;SAP=7.2614;SAR=313;SRF=120;SRP=4.92631;SRR=135;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:14,22:14:485:22:745:-56.5189,0,-33.1399 0/1:22:11,11:11:396:11:396:-29.3601,0,-29.3601 0/1:20:8,12:8:288:12:432:-33.2006,0,-20.2468 0/1:27:15,12:15:527:12:424:-30.3686,0,-39.6324 0/1:37:15,22:15:536:22:773:-58.7514,0,-37.4367 0/1:23:6,17:6:216:17:612:-48.4897,0,-12.8668 1/1:65:0,65:0:0:65:2274:-204.92,-19.567,0 0/1:38:22,16:22:780:16:561:-39.378,0,-59.0839 1/1:59:1,58:1:36:58:2060:-182.009,-14.1625,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 1/1:29:0,29:0:0:29:1019:-91.9915,-8.72987,0 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/1:54:33,21:33:1184:21:748:-51.3897,0,-90.6127 0/1:18:12,6:12:428:6:216:-14.372,0,-33.4403 0/1:30:6,24:6:201:24:845:-67.3362,0,-9.38614 0/1:170:78,92:78:2783:92:3259:-242.356,0,-199.534 0/1:89:28,61:28:996:61:2106:-163.012,0,-63.155 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 1/1:103:2,101:2:72:101:3589:-316.352,-24.1694,0 chr09 10503593 . A C 0 PASS AB=0.231405;ABP=912.875;AC=7;AF=0.166667;AN=42;AO=725;CIGAR=1X;DP=4043;DPB=4043;DPRA=0;EPP=1517.11;EPPR=6817.83;GTI=6;LEN=1;MEANALT=1.09524;MQM=16.7048;MQMR=29.4568;NS=21;NUMALT=1;ODDS=74.4772;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25664;QR=118623;RO=3312;RPL=7;RPP=1517.11;RPPR=6817.83;RPR=718;RUN=1;SAF=725;SAP=1577.33;SAR=0;SRF=3312;SRP=7194.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:271:233,38:233:8337:38:1334:0,-23.6334,-518.93 0/0:152:131,21:131:4684:21:748:0,-14.4701,-272.663 0/0:217:186,31:186:6680:31:1100:0,-18.7035,-405.207 0/0:134:116,18:116:4172:18:618:0,-12.7157,-271.437 0/0:351:296,55:296:10601:55:1952:0,-21.7449,-646.226 0/1:156:122,34:122:4365:34:1207:-5.26881,0,-240.312 0/1:278:207,66:207:7385:66:2339:-17.6369,0,-401.429 0/0:116:101,15:101:3620:15:527:0,-12.803,-208.494 0/1:345:270,75:270:9688:75:2647:-10.5942,0,-565.836 0/0:55:44,11:44:1576:11:392:0,-0.604504,-95.293 0/0:11:10,1:10:360:1:36:0,-1.61666,-21.0107 0/1:62:49,13:49:1749:13:456:-0.32732,0,-89.0004 0/1:260:204,56:204:7304:56:1979:-6.42571,0,-391.038 0/0:242:196,46:196:6993:46:1639:0,-3.28179,-381.496 0/0:344:300,44:300:10746:44:1555:0,-37.1491,-625.28 0/0:175:159,16:159:5700:16:550:0,-28.1858,-346.29 0/0:136:112,24:112:4004:24:851:0,-4.65344,-239.965 0/0:228:188,40:188:6748:40:1424:0,-11.4083,-410.124 0/0:159:129,29:129:4628:29:1031:0,-3.88471,-265 0/1:207:152,55:152:5439:55:1972:-15.8382,0,-279.89 0/1:144:107,37:107:3844:37:1307:-12.2074,0,-188.379 chr09 10604205 . TTGCTGCT TTGTTGCT,TTGCT 29416.8 PASS AB=0.543075,0.452563;ABP=17.7891,20.9338;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1007,416;CIGAR=3M1X4M,1M3D4M;DP=1433;DPB=1277;DPRA=0,0.748697;EPP=2189.68,906.343;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.09524,2.2;MQM=59.993,59.9952;MQMR=0;NS=21;NUMALT=2;ODDS=15.0974;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35773,14503;QR=0;RO=0;RPL=1007,416;RPP=2189.68,906.343;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2189.68,906.343;SAR=1007,416;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,30,30:0:0:30,30:1076,1049:-173.455,-85.6873,-76.6564,-88.122,0,-79.0911 1/2:58:0,28,30:0:0:28,30:1008,1046:-167.668,-85.415,-76.9861,-82.6075,0,-73.5766 1/2:64:0,33,31:0:0:33,31:1165,1116:-186.284,-91.4198,-81.4858,-95.221,0,-85.8891 1/2:52:0,30,21:0:0:30,21:1050,733:-145.034,-59.6078,-50.5769,-85.4159,0,-79.0942 1/2:170:0,102,68:0:0:102,68:3629,2397:-491.273,-195.517,-164.812,-296.11,0,-275.64 1/2:64:0,22,40:0:0:22,40:754,1382:-173.479,-112.272,-105.65,-61.1922,0,-49.151 1/1:101:0,98,0:0:0:98,0:3493,0:-314.278,-29.5009,0,-314.278,-29.5009,-314.278 1/2:37:0,17,20:0:0:17,20:582,672:-102.015,-54.7727,-49.6552,-47.5813,0,-41.5607 1/1:101:0,101,0:0:0:101,0:3605,0:-324.655,-30.404,0,-324.655,-30.404,-324.655 1/1:17:0,16,1:0:0:16,1:557,26:-50.1904,-4.81648,0,-48.1568,-2.51768,-47.8557 1/2:7:0,2,5:0:0:2,5:57,176:-19.1871,-14.6799,-14.0778,-4.81125,0,-3.3061 1/2:30:0,16,14:0:0:16,14:576,496:-87.7616,-40.7598,-35.9434,-47.3585,0,-43.1441 1/1:123:0,122,0:0:0:122,0:4335,0:-389.963,-36.7257,0,-389.963,-36.7257,-389.963 1/1:55:0,54,0:0:0:54,0:1921,0:-172.89,-16.2556,0,-172.89,-16.2556,-172.89 1/2:116:0,50,66:0:0:50,66:1792,2262:-330.126,-183.967,-168.915,-146.511,0,-126.643 1/2:46:0,34,12:0:0:34,12:1201,416:-131.97,-34.1593,-23.9243,-98.1586,0,-94.5463 1/2:53:0,33,20:0:0:33,20:1184,704:-154.244,-57.6639,-47.7299,-96.9343,0,-90.9137 1/2:84:0,42,42:0:0:42,42:1485,1460:-239.997,-119.048,-106.405,-121.299,0,-108.656 1/2:76:0,59,16:0:0:59,16:2094,568:-216.986,-46.3698,-28.6091,-170.705,0,-165.889 1/1:62:0,62,0:0:0:62,0:2216,0:-199.705,-18.6639,0,-199.705,-18.6639,-199.705 1/1:57:0,56,0:0:0:56,0:1993,0:-179.282,-16.8577,0,-179.282,-16.8577,-179.282 chr09 10674294 . A C 23924.1 PASS AB=0.484192;ABP=5.41324;AC=28;AF=0.666667;AN=42;AO=1235;CIGAR=1X;DP=1806;DPB=1806;DPRA=0;EPP=2676.1;EPPR=1234.25;GTI=0;LEN=1;MEANALT=1;MQM=41.4073;MQMR=59.9895;NS=21;NUMALT=1;ODDS=12.4142;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44303;QR=20480;RO=571;RPL=1;RPP=2676.1;RPPR=1234.25;RPR=1234;RUN=1;SAF=1235;SAP=2684.78;SAR=0;SRF=571;SRP=1242.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:61,36:61:2192:36:1292:-83.6443,0,-168.345 0/1:59:30,29:30:1080:29:1040:-72.4259,0,-79.7525 0/1:85:49,36:49:1748:36:1296:-85.9724,0,-132.017 0/1:84:45,39:45:1620:39:1392:-96.5395,0,-120.803 0/1:149:95,54:95:3396:54:1923:-122.39,0,-261.002 0/1:83:51,32:51:1836:32:1148:-74.5502,0,-140.535 1/1:101:0,101:0:0:101:3628:-313.521,-30.404,0 0/1:84:40,44:40:1428:44:1584:-113.709,0,-103.531 1/1:158:0,158:0:0:158:5660:-491.154,-47.5627,0 1/1:6:0,6:0:0:6:216:-19.3286,-1.80618,0 0/1:8:4,4:4:144:4:144:-10.4703,0,-10.9054 0/1:27:15,12:15:540:12:428:-29.3679,0,-40.8041 1/1:111:0,111:0:0:111:3992:-349.479,-33.4143,0 1/1:118:0,118:0:0:118:4228:-368.799,-35.5215,0 0/1:168:65,103:65:2324:103:3704:-270.961,0,-158.847 0/1:51:28,23:28:1008:23:828:-55.2564,0,-75.6838 0/1:71:40,31:40:1440:31:1112:-74.2111,0,-108.525 0/1:64:25,39:25:896:39:1404:-103.521,0,-61.6944 0/1:77:23,54:23:828:54:1932:-144.912,0,-51.6648 1/1:143:0,143:0:0:143:5128:-450.904,-43.0473,0 1/1:62:0,62:0:0:62:2224:-193.133,-18.6639,0 chr09 10793341 . A T 5757.96 PASS AB=0.457433;ABP=15.3962;AC=13;AF=0.309524;AN=42;AO=361;CIGAR=1X;DP=1143;DPB=1143;DPRA=1.44388;EPP=786.912;EPPR=1683.77;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.977;NS=21;NUMALT=1;ODDS=6.87809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12866;QR=27992;RO=782;RPL=0;RPP=786.912;RPPR=1683.77;RPR=361;RUN=1;SAF=361;SAP=786.912;SAR=0;SRF=782;SRP=1701.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:19,23:19:684:23:820:-61.4793,0,-49.2471 0/1:61:28,33:28:1000:33:1169:-87.1525,0,-71.9525 0/1:69:42,27:42:1512:27:949:-64.9517,0,-115.604 0/1:36:18,18:18:648:18:648:-47.8148,0,-47.8148 0/1:96:54,42:54:1936:42:1512:-107.476,0,-145.531 0/1:42:26,16:26:913:16:566:-38.6269,0,-69.8407 0/0:84:84,0:84:3004:0:0:0,-25.2865,-270.592 0/1:17:13,4:13:468:4:144:-8.19611,0,-37.3421 0/0:62:61,1:61:2192:1:36:0,-15.0656,-193.947 0/0:10:10,0:10:345:0:0:0,-3.0103,-31.3808 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:14:7,7:7:252:7:252:-18.8145,0,-18.8145 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.349 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.645 0/1:71:36,35:36:1292:35:1252:-91.6119,0,-95.2106 0/1:39:16,23:16:576:23:809:-61.3881,0,-40.4348 0/1:44:22,22:22:792:22:777:-57.005,0,-58.3604 0/1:117:56,61:56:1993:61:2192:-162.325,0,-144.422 0/1:139:90,49:90:3224:49:1740:-115.041,0,-248.539 0/0:41:41,0:41:1453:0:0:0,-12.3422,-131.064 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 chr09 11635761 . A C 16481.7 PASS AB=0.52506;ABP=7.58128;AC=28;AF=0.666667;AN=42;AO=838;CIGAR=1X;DP=1237;DPB=1237;DPRA=0;EPP=1822.7;EPPR=869.428;GTI=0;LEN=1;MEANALT=1;MQM=59.9642;MQMR=60;NS=21;NUMALT=1;ODDS=10.6052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29729;QR=14285;RO=399;RPL=838;RPP=1822.7;RPPR=869.428;RPR=0;RUN=1;SAF=838;SAP=1822.7;SAR=0;SRF=399;SRP=869.428;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:40,50:40:1432:50:1788:-134.11,0,-102.085 0/1:25:13,12:13:464:12:432:-31.6954,0,-34.5718 0/1:90:45,45:45:1608:45:1583:-115.664,0,-117.917 0/1:42:23,19:23:824:19:684:-49.2471,0,-61.8401 0/1:109:66,43:66:2368:43:1544:-106.441,0,-180.566 0/1:67:22,45:22:792:45:1616:-125.561,0,-51.4367 1/1:77:1,76:1:32:76:2713:-241.213,-19.98,0 0/1:89:36,53:36:1292:53:1891:-143.676,0,-89.7921 1/1:93:0,93:0:0:93:3307:-297.85,-27.9958,0 1/1:7:0,7:0:0:7:237:-21.6591,-2.10721,0 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:42:21,21:21:737:21:752:-55.363,0,-54.0074 1/1:56:0,56:0:0:56:1949:-175.682,-16.8577,0 1/1:88:0,88:0:0:88:3140:-282.826,-26.4906,0 0/1:49:23,26:23:824:26:903:-66.794,0,-59.7328 0/1:29:21,8:21:756:8:288:-17.5375,0,-59.6374 0/1:33:16,17:16:576:17:590:-43.4902,0,-42.241 0/1:118:54,64:54:1936:64:2252:-167.42,0,-138.995 0/1:48:14,34:14:500:34:1216:-95.2971,0,-30.8867 1/1:31:0,31:0:0:31:1080:-97.5058,-9.33193,0 1/1:47:0,47:0:0:47:1656:-149.325,-14.1484,0 chr09 11644459 . GGAA AGAA,AGAG 49661.3 PASS AB=0.515118,0.480484;ABP=6.62146,9.02811;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1528,877;CIGAR=1X3M,1X2M1X;DP=2414;DPB=2414;DPRA=0,1.82454;EPP=3321.02,1907.39;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.09524,2.375;MQM=59.9221,59.4481;MQMR=60;NS=21;NUMALT=2;ODDS=16.028;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54760,30983;QR=36;RO=1;RPL=0,0;RPP=3321.02,1907.39;RPPR=5.18177;RPR=1528,877;RUN=1,1;SAF=1528,877;SAP=3321.02,1907.39;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:1,40,52:1:36:40,52:1436,1835:-262.997,-146.157,-137.054,-114.199,0,-101.483 1/2:48:0,25,23:0:0:25,23:896,814:-139.736,-66.6574,-59.1317,-73.4346,0,-66.5109 1/2:38:0,25,13:0:0:25,13:892,461:-110.6,-37.91,-30.3843,-73.0449,0,-69.1315 1/2:49:0,24,23:0:0:24,23:864,803:-135.824,-65.3207,-58.0959,-70.5164,0,-63.5927 1/2:143:0,83,60:0:0:83,60:2973,2144:-416.865,-174.423,-149.438,-242.798,0,-224.737 1/2:46:0,26,20:0:0:26,20:932,701:-133.397,-57.3788,-49.552,-76.3721,0,-70.3515 1/1:74:0,74,0:0:0:74,0:2649,0:-238.647,-22.2762,0,-238.647,-22.2762,-238.647 1/2:72:0,45,26:0:0:45,26:1616,910:-205.771,-73.9986,-60.4522,-131.766,0,-123.939 1/1:130:0,130,0:0:0:130,0:4676,0:-420.999,-39.1339,0,-420.999,-39.1339,-420.999 1/1:199:0,198,1:0:0:198,1:7085,35:-637.334,-59.6039,0,-634.487,-56.4063,-634.186 1/2:323:0,174,146:0:0:174,146:6241,5142:-927.6,-418.557,-366.178,-509.051,0,-465.1 1/2:354:0,182,172:0:0:182,172:6520,6074:-1026.67,-494.931,-440.144,-532.091,0,-480.314 1/1:72:0,71,0:0:0:71,0:2556,0:-229.93,-21.3731,0,-229.93,-21.3731,-229.93 1/1:51:0,51,0:0:0:51,0:1813,0:-163.45,-15.3525,0,-163.45,-15.3525,-163.45 1/2:85:0,53,32:0:0:53,32:1877,1133:-245.537,-92.6381,-76.6836,-153.252,0,-143.619 1/2:55:0,30,25:0:0:30,25:1080,892:-161.198,-73.0739,-64.043,-88.4823,0,-80.9566 1/2:66:0,29,37:0:0:29,37:1040,1314:-192.249,-107.421,-98.6914,-85.1845,0,-74.0464 1/2:412:0,173,238:0:0:173,238:6202,8408:-1190.37,-684.527,-632.449,-505.834,0,-434.189 1/2:35:0,28,7:0:0:28,7:1008,251:-103.079,-20.8306,-12.4018,-82.6075,0,-80.5003 1/1:43:0,41,2:0:0:41,2:1468,66:-132.067,-12.3422,0,-126.733,-6.67634,-126.131 1/1:26:0,26,0:0:0:26,0:936,0:-84.5595,-7.82678,0,-84.5595,-7.82678,-84.5595 chr09 11644480 . A G 28863.8 PASS AB=0.516292;ABP=7.11414;AC=28;AF=0.666667;AN=42;AO=1496;CIGAR=1X;DP=2360;DPB=2360;DPRA=0;EPP=3242.85;EPPR=1868.32;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9445;MQMR=59.4287;NS=21;NUMALT=1;ODDS=14.4439;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53264;QR=30934;RO=863;RPL=1495;RPP=3242.85;RPPR=1868.32;RPR=1;RUN=1;SAF=1496;SAP=3251.53;SAR=0;SRF=863;SRP=1876.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:90:51,39:51:1828:39:1397:-98.9365,0,-137.385 0/1:46:22,24:22:792:24:818:-60.0826,0,-57.7583 0/1:37:12,25:12:432:25:887:-69.0077,0,-28.0831 0/1:48:24,24:24:847:24:860:-63.2724,0,-62.0969 0/1:137:59,77:59:2120:77:2732:-204.823,0,-148.329 0/1:46:20,26:20:716:26:924:-69.6303,0,-50.9075 1/1:72:0,72:0:0:72:2552:-229.929,-21.6742,0 0/1:71:25,46:25:896:46:1639:-126.4,0,-59.5301 1/1:129:0,129:0:0:129:4599:-414.074,-38.8329,0 1/1:195:1,194:1:36:194:6923:-619.401,-55.1026,0 0/1:315:142,173:142:5095:173:6185:-461.923,0,-363.61 0/1:352:171,181:171:6140:181:6450:-474.623,0,-446.501 1/1:70:0,70:0:0:70:2482:-223.633,-21.0721,0 1/1:49:0,49:0:0:49:1752:-157.964,-14.7505,0 0/1:83:32,51:32:1152:51:1815:-138.645,0,-78.9953 0/1:54:24,30:24:856:30:1076:-80.8972,0,-61.1055 0/1:62:36,26:36:1288:26:913:-63.8201,0,-97.5566 0/1:406:235,171:235:8416:171:6095:-426.434,0,-634.976 0/1:33:7,26:7:252:26:927:-73.8134,0,-13.095 1/1:41:2,39:2:68:39:1383:-118.303,-5.88452,0 1/1:24:0,24:0:0:24:855:-77.2702,-7.22472,0 chr09 11644489 . C T 14348.9 PASS AB=0.479778;ABP=9.42126;AC=14;AF=0.333333;AN=42;AO=869;CIGAR=1X;DP=2390;DPB=2390;DPRA=1.82143;EPP=1890.02;EPPR=3303.65;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.4246;MQMR=59.923;NS=21;NUMALT=1;ODDS=15.1375;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31024;QR=54181;RO=1520;RPL=869;RPP=1890.02;RPPR=3303.65;RPR=0;RUN=1;SAF=869;SAP=1890.02;SAR=0;SRF=1520;SRP=3303.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:43,52:43:1548:52:1864:-139.118,0,-111.015 0/1:47:24,23:24:841:23:824:-60.3349,0,-61.858 0/1:37:24,13:24:860:13:468:-31.3192,0,-66.5553 0/1:50:26,24:26:936:24:856:-62.3073,0,-69.508 0/1:142:82,60:82:2931:60:2143:-149.867,0,-221.26 0/1:45:26,19:26:932:19:676:-47.6152,0,-70.6525 0/0:73:73,0:73:2590:0:0:0,-21.9752,-233.349 0/1:72:46,26:46:1613:26:932:-62.3947,0,-123.718 0/0:131:131,0:131:4689:0:0:0,-39.4349,-422.169 0/0:194:193,1:193:6874:1:36:0,-54.8015,-614.993 0/1:320:175,145:175:6240:145:5187:-370.527,0,-465.349 0/1:353:180,172:180:6411:172:6156:-447.678,0,-470.871 0/0:70:70,0:70:2477:0:0:0,-21.0721,-223.183 0/0:50:50,0:50:1787:0:0:0,-15.0515,-161.112 0/1:85:53,32:53:1904:32:1133:-76.6834,0,-146.05 0/1:55:30,25:30:1058:25:885:-63.4099,0,-78.9729 0/1:63:28,35:28:1004:35:1229:-91.9437,0,-71.711 0/1:406:173,233:173:6184:233:8311:-625.556,0,-434.436 0/1:35:28,7:28:1000:7:252:-12.4929,0,-79.7793 0/0:41:39,2:39:1366:2:72:0,-5.50551,-116.38 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5595 chr09 11798397 . CACCAG CACCAC,TTCCAC 21225.5 PASS AB=0.581274,0.414824;ABP=47.1316,51.4689;AC=28,14;AF=0.666667,0.333333;AN=42;AO=740,320;CIGAR=5M1X,2X3M1X;DP=1064;DPB=1064;DPRA=0,1.26902;EPP=1609.9,697.881;EPPR=5.18177;GTI=0;LEN=1,6;MEANALT=1.85714,2.13333;MQM=59.3243,38.6094;MQMR=45;NS=21;NUMALT=2;ODDS=2.13544;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26482,11315;QR=26;RO=1;RPL=740,320;RPP=1609.9,697.881;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1609.9,697.881;SAR=740,320;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:61:0,37,24:0:0:37,24:1328,841:-172.835,-64.4952,-53.3571,-108.682,0,-101.457 1/2:37:0,16,21:0:0:16,21:568,735:-101.861,-55.5758,-50.7593,-46.6272,0,-40.3056 1/2:38:1,25,12:1:26:25,12:900,426:-104.858,-31.7928,-26.2945,-71.4231,0,-69.841 1/2:31:0,20,11:0:0:20,11:701,392:-87.6649,-30.6264,-24.6058,-57.3817,0,-54.0704 1/2:107:0,68,39:0:0:68,39:2414,1380:-303.285,-106.601,-86.1308,-197.027,0,-185.287 1/2:52:0,35,17:0:0:35,17:1256,605:-147.183,-44.7284,-34.1923,-102.79,0,-97.6721 1/1:75:0,75,0:0:0:75,0:2681,0:-241.491,-22.5773,0,-241.491,-22.5773,-241.491 1/2:80:0,42,38:0:0:42,38:1512,1358:-226.126,-102.754,-90.1112,-123.717,0,-112.278 1/1:61:0,61,0:0:0:61,0:2165,0:-195.097,-18.3628,0,-195.097,-18.3628,-195.097 1/1:7:0,7,0:0:0:7,0:252,0:-23.0266,-2.10721,0,-23.0266,-2.10721,-23.0266 1/2:5:0,3,2:0:0:3,2:104,71:-14.231,-5.77359,-4.8705,-8.79729,0,-8.19523 1/2:12:0,8,4:0:0:8,4:288,144:-35.0161,-11.5156,-9.10738,-23.8496,0,-22.6454 1/1:24:0,24,0:0:0:24,0:860,0:-77.714,-7.22472,0,-77.714,-7.22472,-77.714 1/1:40:0,39,1:0:0:39,1:1396,36:-125.547,-11.7402,0,-122.696,-8.5385,-122.394 1/2:108:0,55,52:0:0:55,52:1980,1840:-300.449,-138.967,-122.41,-161.468,0,-145.815 1/2:43:0,22,20:0:0:22,20:777,703:-114.477,-51.1909,-44.5682,-63.2627,0,-57.2421 1/2:42:0,22,20:0:0:22,20:792,708:-118.613,-53.9844,-47.3618,-64.9736,0,-58.953 1/2:96:0,53,43:0:0:53,43:1908,1514:-269.093,-113.442,-97.4871,-155.993,0,-143.048 1/2:57:0,41,16:0:0:41,16:1472,562:-160.854,-40.7943,-28.4521,-120.386,0,-115.57 1/1:43:0,43,0:0:0:43,0:1548,0:-139.603,-12.9443,0,-139.603,-12.9443,-139.603 1/1:45:0,44,0:0:0:44,0:1580,0:-142.101,-13.2453,0,-142.101,-13.2453,-142.101 chr09 11839828 . G A 30284.9 PASS AB=0.521429;ABP=13.0611;AC=14;AF=0.333333;AN=42;AO=1318;CIGAR=1X;DP=3638;DPB=3638;DPRA=0.897076;EPP=2865.01;EPPR=5038.65;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9294;MQMR=60;NS=21;NUMALT=1;ODDS=13.7396;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46911;QR=82702;RO=2319;RPL=642;RPP=4.91487;RPPR=27.8891;RPR=676;RUN=1;SAF=642;SAP=4.91487;SAR=676;SRF=1078;SRP=27.8891;SRR=1241;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:260:111,149:111:3972:149:5281:-397.158,0,-279.403 0/1:147:62,85:62:2220:85:3023:-228.047,0,-155.813 0/1:125:61,64:61:2166:64:2283:-168.103,0,-157.577 0/1:174:77,97:77:2749:97:3440:-257.034,0,-195.271 0/1:390:209,181:209:7440:181:6444:-462.487,0,-552.244 0/1:193:96,97:96:3448:97:3467:-254.143,0,-252.433 0/0:241:240,1:240:8497:1:36:0,-68.95,-761.136 0/1:158:68,90:68:2404:90:3226:-242.999,0,-169.053 0/0:229:229,0:229:8144:0:0:0,-68.9359,-732.977 0/0:36:35,1:35:1256:1:36:0,-7.2388,-109.747 0/1:21:9,12:9:320:12:417:-31.5386,0,-22.8207 0/1:53:26,27:26:927:27:972:-71.8433,0,-67.7928 0/0:183:183,0:183:6550:0:0:0,-55.0885,-589.581 0/0:179:177,1:177:6322:1:36:0,-50.3449,-565.474 0/1:364:153,211:153:5484:211:7506:-566.01,0,-384.111 0/1:121:50,71:50:1796:71:2548:-193.146,0,-125.498 0/1:156:69,87:69:2468:87:3093:-231.635,0,-175.413 0/1:175:98,77:98:3468:77:2729:-193.172,0,-259.652 0/1:183:117,66:117:4200:66:2338:-155.589,0,-323.091 0/0:158:158,0:158:5649:0:0:0,-47.5627,-508.529 0/0:92:91,1:91:3222:1:36:0,-24.0965,-286.603 chr09 11839855 . C T 11909.8 PASS AB=0.527481;ABP=11.6034;AC=14;AF=0.333333;AN=42;AO=693;CIGAR=1X;DP=1907;DPB=1907;DPRA=0.886569;EPP=1507.84;EPPR=2639.18;GTI=0;LEN=1;MEANALT=1;MQM=59.8932;MQMR=60;NS=21;NUMALT=1;ODDS=10.996;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24849;QR=43373;RO=1214;RPL=693;RPP=1507.84;RPPR=2639.18;RPR=0;RUN=1;SAF=0;SAP=1507.84;SAR=693;SRF=0;SRP=2639.18;SRR=1214;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:63,75:63:2248:75:2692:-200.982,0,-161.041 0/1:75:27,48:27:972:48:1705:-131.157,0,-65.2207 0/1:50:19,31:19:684:31:1116:-85.7002,0,-46.8388 0/1:102:42,60:42:1504:60:2156:-162.889,0,-104.95 0/1:195:100,95:100:3567:95:3412:-248.59,0,-262.537 0/1:135:67,68:67:2400:68:2444:-179.576,0,-175.618 0/0:164:164,0:164:5875:0:0:0,-49.3689,-528.859 0/1:86:36,50:36:1283:50:1796:-136.034,0,-89.884 0/0:104:104,0:104:3694:0:0:0,-31.3071,-332.664 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:15:7,8:7:252:8:288:-21.752,0,-18.5135 0/1:25:12,13:12:424:13:468:-34.9339,0,-30.9707 0/0:126:126,0:126:4484:0:0:0,-37.9298,-403.729 0/0:66:65,1:65:2320:1:36:0,-16.2697,-205.462 0/1:171:82,89:82:2940:89:3189:-235.755,0,-213.358 0/1:67:25,42:25:887:42:1508:-115.843,0,-59.9791 0/1:93:40,53:40:1432:53:1893:-142.65,0,-101.182 0/1:57:33,24:33:1184:24:864:-60.9239,0,-89.7096 0/1:101:66,35:66:2372:35:1246:-82.0302,0,-183.334 0/0:86:86,0:86:3080:0:0:0,-25.8886,-277.428 0/0:34:33,1:33:1163:1:36:0,-6.63674,-101.378 chr09 11956628 . C T 5557.96 PASS AB=0.486726;ABP=5.08569;AC=14;AF=0.333333;AN=42;AO=660;CIGAR=1X;DP=2015;DPB=2015;DPRA=1.02883;EPP=1401.65;EPPR=2867.7;GTI=0;LEN=1;MEANALT=1;MQM=26.9167;MQMR=39.5985;NS=21;NUMALT=1;ODDS=14.1746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23601;QR=48467;RO=1355;RPL=656;RPP=1401.65;RPPR=2867.7;RPR=4;RUN=1;SAF=0;SAP=1436.18;SAR=660;SRF=0;SRP=2945.36;SRR=1355;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:88,96:88:3164:96:3426:-177.441,0,-217.885 0/1:83:50,33:50:1781:33:1157:-42.4237,0,-121.448 0/1:89:43,46:43:1536:46:1656:-83.7378,0,-104.048 0/1:60:35,25:35:1256:25:896:-43.0729,0,-91.789 0/1:289:132,157:132:4714:157:5617:-290.742,0,-318.61 0/1:79:36,43:36:1292:43:1540:-66.2207,0,-84.8358 0/0:162:162,0:162:5785:0:0:0,-48.7669,-476.655 0/1:82:51,31:51:1824:31:1112:-45.5327,0,-127.549 0/0:189:189,0:189:6730:0:0:0,-56.8947,-586.962 0/0:25:25,0:25:900:0:0:0,-7.52575,-75.6572 0/1:12:2,10:2:72:10:360:-16.8392,0,-2.74532 0/1:51:25,26:25:892:26:936:-43.9308,0,-61.4038 0/0:91:91,0:91:3253:0:0:0,-27.3937,-280.754 0/0:90:90,0:90:3224:0:0:0,-27.0927,-280.295 0/1:187:105,82:105:3760:82:2921:-141.64,0,-265.393 0/1:61:33,28:33:1184:28:1008:-52.1854,0,-84.3103 0/1:81:36,45:36:1296:45:1604:-91.6621,0,-89.183 0/1:63:38,25:38:1360:25:900:-37.1497,0,-97.6179 0/1:35:22,13:22:788:13:468:-21.7511,0,-58.2849 0/0:65:65,0:65:2328:0:0:0,-19.5669,-197.606 0/0:37:37,0:37:1328:0:0:0,-11.1381,-109.435 chr09 11984510 . TCATGTA GCATCTC,TCATCCC,TCATCTC 56105.7 PASS AB=0.494886,0.290341,0.25;ABP=3.8098,1346.96,1538.24;AC=21,12,9;AF=0.5,0.285714,0.214286;AN=42;AO=1742,1022,707;CIGAR=1X3M1X1M1X,4M3X,4M1X1M1X;DP=3520;DPB=3520;DPRA=0,0,0;EPP=3759.7,2196.27,1529.57;EPPR=0;GTI=2;LEN=7,3,7;MEANALT=4.85714,4.85714,5.25;MQM=55.8852,58.8493,59.9194;MQMR=0;NS=21;NUMALT=3;ODDS=8.44751;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=61070,35866,24777;QR=0;RO=0;RPL=3,3,1;RPP=3759.7,2196.27,1529.57;RPPR=0;RPR=1739,1019,706;RUN=1,1,1;SAF=1742,1022,707;SAP=3785.72,2222.26,1538.24;SAR=0,0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:202:0,69,69,63:0:0:69,69,63:2428,2417,2201:-392.433,-195.158,-174.387,-197.275,0,-176.503,-213.396,-16.1203,-18.2381,-194.431 1/3:120:0,53,32,33:0:0:53,32,33:1886,1124,1168:-248.313,-95.1408,-79.1862,-156.883,-3.71164,-147.25,-153.173,0,-61.7439,-143.239 1/3:171:0,92,28,45:0:0:92,28,45:3230,983,1596:-392.783,-130.036,-102.341,-312.826,-50.0794,-304.398,-262.751,0,-182.794,-249.205 1/3:220:0,99,56,63:0:0:99,56,63:3463,1950,2199:-460.409,-178.863,-149.061,-302.053,-20.5066,-285.196,-281.548,0,-123.192,-262.583 1/2:160:0,92,34,32:0:0:92,34,32:3205,1206,1138:-358.69,-98.2013,-70.5065,-260.488,0,-250.253,-265.948,-5.45936,-167.746,-256.315 1/3:274:0,129,56,83:0:0:129,56,83:4466,1971,2899:-597.377,-235.812,-196.979,-437.007,-75.4413,-420.149,-361.564,0,-201.193,-336.579 1/2:288:0,168,116,1:0:0:168,116,1:5902,4056,36:-808.129,-329.527,-278.954,-478.627,0,-443.708,-805.191,-326.589,-475.69,-804.89 1/3:249:0,104,50,92:0:0:104,50,92:3632,1743,3148:-550.78,-255.504,-224.197,-409.043,-113.765,-393.992,-295.276,0,-153.539,-267.581 1/2:337:0,209,120,0:0:0:209,120,0:7364,4237,0:-942.695,-344.728,-281.812,-597.981,0,-561.857,-942.695,-344.728,-597.981,-942.695 1/2:10:0,7,3,0:0:0:7,3,0:242,108,0:-28.7447,-9.17208,-7.06487,-19.9278,0,-19.0247,-28.7447,-9.17208,-19.9278,-28.7447 1/2:14:0,8,4,1:0:0:8,4,1:287,140,27:-34.828,-11.4148,-9.00653,-23.4371,0,-22.233,-32.7054,-9.29958,-21.3172,-32.4044 1/3:35:0,17,3,15:0:0:17,3,15:603,105,534:-92.6082,-43.528,-38.4105,-84.0656,-34.9859,-83.1625,-49.0842,0,-40.5419,-44.5688 1/2:173:0,90,82,0:0:0:90,82,0:3176,2865,0:-489.966,-232.996,-205.903,-256.961,0,-232.276,-489.966,-232.996,-256.961,-489.966 1/2:84:0,48,35,0:0:0:48,35,0:1646,1220,0:-232.311,-99.1228,-84.6733,-133.177,0,-122.641,-232.311,-99.1228,-133.177,-232.311 1/3:337:0,138,89,102:0:0:138,89,102:4840,3113,3610:-686.765,-293.997,-252.455,-433.646,-40.8791,-406.855,-392.77,0,-139.651,-362.065 1/3:157:0,70,36,48:0:0:70,36,48:2461,1258,1668:-335.178,-135.584,-114.512,-233.556,-33.961,-222.719,-199.596,0,-97.9751,-185.147 1/3:247:0,107,67,72:0:0:107,67,72:3739,2371,2552:-511.824,-207.903,-175.693,-318.834,-14.9129,-298.665,-303.921,0,-110.929,-282.247 1/2:97:0,51,24,22:0:0:51,24,22:1797,831,769:-213.189,-67.4866,-52.1341,-145.701,0,-138.477,-150.633,-4.92926,-83.1461,-144.01 1/2:132:0,61,39,32:0:0:61,39,32:2161,1379,1124:-288.169,-112.228,-93.8653,-175.942,0,-164.202,-196.687,-20.7457,-84.4598,-187.054 1/2:125:0,70,51,3:0:0:70,51,3:2441,1812,108:-345.116,-147.581,-126.509,-197.532,0,-182.18,-336.303,-138.768,-188.719,-335.4 1/2:88:0,60,28,0:0:0:60,28,0:2101,977,0:-248.839,-79.7936,-61.7318,-169.394,0,-160.965,-248.839,-79.7936,-169.394,-248.839 chr09 11984530 . G T 14762.9 PASS AB=0.331857;ABP=834.748;AC=20;AF=0.47619;AN=42;AO=1125;CIGAR=1X;DP=3400;DPB=3400;DPRA=0;EPP=2445.92;EPPR=4938.77;GTI=3;LEN=1;MEANALT=1.09524;MQM=53.9707;MQMR=59.3445;NS=21;NUMALT=1;ODDS=2.51341;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40061;QR=80880;RO=2273;RPL=1125;RPP=2445.92;RPPR=4938.77;RPR=0;RUN=1;SAF=1125;SAP=2445.92;SAR=0;SRF=2273;SRP=4938.77;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:198:166,32:166:5911:32:1152:-43.9295,0,-471.17 0/1:117:97,20:97:3476:20:712:-28.6279,0,-277.754 0/1:165:121,43:121:4305:43:1544:-89.2467,0,-337.732 0/1:216:165,51:165:5860:51:1817:-98.2659,0,-462.371 0/1:156:111,45:111:3975:45:1608:-97.9257,0,-310.946 0/1:264:205,59:205:7234:59:2093:-108.316,0,-571.103 0/1:277:113,163:113:4016:163:5829:-439.055,0,-277.594 0/1:234:199,35:199:7087:35:1243:-41.5502,0,-567.398 0/1:328:122,206:122:4363:206:7313:-556.49,0,-293.741 0/1:10:3,7:3:108:7:243:-19.1283,0,-7.06487 0/0:13:12,1:12:428:1:36:0,-0.324161,-35.2519 0/1:35:24,11:24:856:11:396:-25.3957,0,-66.8251 0/1:165:77,88:77:2725:88:3130:-231.169,0,-195.783 0/1:81:35,46:35:1248:46:1622:-121.446,0,-88.1278 0/1:326:263,63:263:9380:63:2249:-103.733,0,-745.576 0/1:150:122,28:122:4331:28:999:-44.0197,0,-343.934 0/1:236:188,48:188:6719:48:1716:-83.4784,0,-533.54 0/1:92:74,18:74:2602:18:629:-28.6328,0,-206.695 0/1:130:92,38:92:3255:38:1360:-83.4532,0,-253.924 0/1:123:56,67:56:2008:67:2377:-175.778,0,-143.899 0/1:84:28,56:28:993:56:1993:-153.349,0,-64.3774 chr09 11984548 . CCAA TCAT,TCAA 64645.1 PASS AB=0.499257,0.49896;ABP=3.02642,3.0419;AC=21,21;AF=0.5,0.5;AN=42;AO=1681,1680;CIGAR=1X2M1X,1X3M;DP=3367;DPB=3372;DPRA=0,0;EPP=3653.26,3651.08;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.2381,2.2381;MQM=59.2838,55.9768;MQMR=60;NS=21;NUMALT=2;ODDS=31.3061;PAIRED=0,0;PAIREDR=0;PAO=10,10;PQA=351.5,351.5;PQR=0;PRO=0;QA=57749,59464;QR=36;RO=1;RPL=1681,1680;RPP=3653.26,3651.08;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1681,1680;SAP=3653.26,3651.08;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:194:0,127,67:0:0:127,67:4348,2363:-543.765,-192.429,-154.198,-351.685,0,-331.515 1/2:111:0,61,50:0:0:61,50:2136,1775:-318.216,-144.45,-126.087,-174.119,0,-159.067 1/2:164:0,73,91:0:0:73,91:2543,3235:-470.452,-263.713,-241.738,-207.031,0,-179.637 1/2:209:0,113,96:0:0:113,96:3863,3417:-592.015,-278.569,-244.552,-313.736,0,-284.837 1/2:150:0,60,90:0:0:60,90:2079,3194:-429.263,-260.331,-242.269,-169.164,0,-142.072 1/2:263:0,138,124:0:0:138,124:4722,4345:-735.613,-352.441,-310.899,-383.098,0,-345.771 1/2:278:1,115,161:1:36:115,161:3967,5718:-782.724,-461.004,-429.323,-319.023,0,-273.495 1/2:231:0,133,98:0:0:133,98:4503,3491:-649.272,-284.224,-244.187,-365.159,0,-335.658 1/2:329:0,123,204:0:0:123,204:4234,7228:-931.08,-587.547,-550.52,-343.612,0,-282.202 1/2:10:0,3,7:0:0:3,7:93,243:-27.4843,-20.0314,-19.1283,-7.77364,0,-5.66643 1/2:14:0,6,8:0:0:6,8:202,276:-39.1086,-22.7588,-20.9526,-16.6897,0,-14.2815 1/2:35:0,18,17:0:0:18,17:637,608:-101.768,-49.8837,-44.4651,-52.2402,0,-47.1227 1/2:166:0,78,88:0:0:78,88:2726,3125:-475.647,-253.925,-230.445,-222.073,0,-195.582 1/2:80:0,34,46:0:0:34,46:1128,1607:-221.802,-130.639,-120.404,-91.501,0,-77.6536 1/2:324:0,191,133:0:0:191,133:6586,4723:-918.912,-384.132,-326.635,-534.951,0,-494.914 1/2:151:0,80,70:0:0:80,70:2689,2449:-416.919,-199.201,-175.119,-217.701,0,-196.629 1/2:236:0,134,102:0:0:134,102:4577,3621:-666.299,-295.014,-254.676,-371.574,0,-340.869 1/2:94:0,45,49:0:0:45,49:1554,1716:-265.7,-139.493,-125.946,-126.554,0,-111.804 1/2:124:0,69,55:0:0:69,55:2375,1940:-350.903,-158.11,-137.339,-193.024,0,-176.467 1/2:119:0,53,66:0:0:53,66:1853,2337:-340.699,-190.024,-174.07,-150.909,0,-131.041 1/2:85:0,27,58:0:0:27,58:934,2053:-242.5,-166.613,-158.485,-76.2342,0,-58.7745 chr09 11984629 . GTTTCTTTTAA GTTTCTTTTGA,GTCTTTTGA 76238.1 PASS AB=0.762264,0.229434;ABP=1586.22,1688.04;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3219,610;CIGAR=9M1X1M,1M2D6M1X1M;DP=3863;DPB=3751.36;DPRA=0,1.30571;EPP=6992.98,1327.61;EPPR=0;GTI=5;LEN=1,9;MEANALT=3.04762,3.375;MQM=59.7353,32.0148;MQMR=0;NS=21;NUMALT=2;ODDS=2.52173;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=12,12;PQR=12;PRO=0.333333;QA=115223,19180;QR=0;RO=0;RPL=3219,610;RPP=6992.98,1327.61;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=6992.98,1327.61;SAR=3219,610;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:156:0,116,40:0:0:116,40:4141,1272:-430.292,-92.6884,-57.7689,-337.911,0,-325.87 1/2:144:0,101,43:0:0:101,43:3601,1258:-382.691,-89.0989,-58.6949,-293.883,0,-280.938 1/2:160:0,110,48:0:0:110,48:3932,1544:-432.607,-111.966,-78.8531,-320.596,0,-306.146 1/2:191:0,142,48:0:0:142,48:5096,1561:-529.095,-113.405,-70.6589,-415.663,0,-401.213 1/2:376:0,278,94:0:0:278,94:9944,2942:-1024.17,-213.353,-129.667,-810.846,0,-782.549 1/2:153:0,110,40:0:0:110,40:3952,1151:-403.56,-81.0997,-47.9864,-322.439,0,-310.397 1/1:334:0,331,1:0:0:331,1:11814,30:-1062.83,-99.6409,0,-1060.71,-97.5176,-1060.41 1/2:213:0,169,42:0:0:169,42:6053,1277:-584.798,-91.1435,-40.2694,-493.664,0,-481.021 1/1:351:0,351,0:0:0:351,0:12585,0:-1132.37,-105.662,0,-1132.37,-105.662,-1132.37 1/1:17:0,17,0:0:0:17,0:604,0:-54.6906,-5.11751,0,-54.6906,-5.11751,-54.6906 1/2:8:0,7,1:0:0:7,1:252,28:-22.8554,-2.19828,-0.0910743,-20.9208,0,-20.6198 1/2:39:0,28,10:0:0:28,10:1004,314:-104.624,-22.6885,-14.2596,-81.8872,0,-78.8769 1/1:133:0,131,1:0:0:131,1:4696,33:-422.464,-39.4349,0,-420.066,-37.0666,-419.765 1/1:156:0,154,0:0:0:154,0:5497,0:-494.256,-46.3586,0,-494.256,-46.3586,-494.256 1/2:247:0,192,53:0:0:192,53:6888,1682:-683.686,-121.959,-64.1615,-561.674,0,-545.719 1/2:212:0,176,32:0:0:176,32:6291,1095:-593.503,-80.8258,-27.8445,-512.667,0,-503.034 1/2:224:0,173,50:0:0:173,50:6184,1674:-627.598,-123.481,-71.4024,-504.094,0,-489.042 1/2:367:0,287,78:0:0:287,78:10271,2392:-1008.37,-170.918,-84.5227,-837.398,0,-813.918 1/2:160:0,131,29:0:0:131,29:4702,927:-450.991,-67.6747,-28.2398,-383.62,0,-374.891 1/1:103:0,101,0:0:0:101,0:3628,0:-326.355,-30.404,0,-326.355,-30.404,-326.355 1/1:119:0,114,0:0:0:114,0:4088,0:-367.709,-34.3174,0,-367.709,-34.3174,-367.709 chr09 11996624 . TCA TCG,CCG 31592.9 PASS AB=0.576404,0.420225;ABP=48.1379,52.2076;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1144,374;CIGAR=2M1X,1X1M1X;DP=1522;DPB=1522;DPRA=0,0.704114;EPP=2487.17,815.141;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.7619,2.14286;MQM=60,59.9251;MQMR=60;NS=21;NUMALT=2;ODDS=8.68608;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40590,13026;QR=36;RO=1;RPL=0,0;RPP=2487.17,815.141;RPPR=5.18177;RPR=1144,374;RUN=1,1;SAF=0,0;SAP=2487.17,815.141;SAR=1144,374;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:0,33,11:0:0:33,11:1175,383:-127.265,-31.4923,-21.5583,-96.123,0,-92.8116 1/2:91:0,51,38:0:0:51,38:1815,1339:-256.934,-109.01,-93.6575,-147.918,0,-136.479 1/2:60:0,32,28:0:0:32,28:1148,984:-174.086,-80.4435,-70.8106,-93.9969,0,-85.568 1/2:101:0,48,53:0:0:48,53:1724,1790:-286.067,-145.42,-130.97,-140.996,0,-125.041 1/2:137:0,105,32:0:0:105,32:3724,1133:-396.044,-92.6439,-61.0358,-303.754,0,-294.121 1/2:68:0,32,36:0:0:32,36:1131,1255:-194.515,-102.401,-92.7684,-92.4648,0,-81.6277 1/1:123:0,123,0:0:0:123,0:4319,0:-388.888,-37.0267,0,-388.888,-37.0267,-388.888 1/2:57:0,30,27:0:0:30,27:1080,951:-165.904,-77.7771,-68.7462,-88.4823,0,-80.3545 1/1:136:0,136,0:0:0:136,0:4807,0:-432.787,-40.9401,0,-432.787,-40.9401,-432.787 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:5:0,3,2:0:0:3,2:108,62:-14.1283,-5.28614,-4.38305,-9.17208,0,-8.57002 1/2:37:0,23,14:0:0:23,14:813,498:-107.152,-40.9409,-34.0173,-66.5654,0,-62.351 1/1:159:0,159,0:0:0:159,0:5619,0:-505.832,-47.8638,0,-505.832,-47.8638,-505.832 1/1:44:0,44,0:0:0:44,0:1567,0:-141.321,-13.2453,0,-141.321,-13.2453,-141.321 1/2:107:0,59,48:0:0:59,48:2112,1669:-308.27,-136.034,-118.273,-172.588,0,-158.139 1/2:41:0,20,21:0:0:20,21:711,748:-119.263,-61.3241,-55.3035,-58.295,0,-51.9734 1/2:56:0,29,27:0:0:29,27:1010,927:-157.741,-75.6094,-66.8795,-82.4772,0,-74.3494 1/2:39:0,19,20:0:0:19,20:676,689:-111.407,-56.3083,-50.5888,-55.4484,0,-49.4278 1/2:47:0,29,17:0:0:29,17:1036,598:-133.268,-48.7938,-40.0639,-84.5898,0,-79.4723 1/1:126:1,125,0:1:36:125,0:4459,0:-397.88,-34.3315,0,-398.181,-37.6288,-401.119 1/1:40:0,40,0:0:0:40,0:1412,0:-127.375,-12.0412,0,-127.375,-12.0412,-127.375 chr09 12002429 . TATAT TAAAAG,TAAAAT 37060.5 PASS AB=0.532804,0.462599;ABP=25.3775,32.0852;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2424,1109;CIGAR=1M1I1M1X1M1X,1M1I1M1X2M;DP=3551;DPB=4258.2;DPRA=0,1.24168;EPP=5223.32,2411.17;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.42857,2.5625;MQM=22.8222,30.073;MQMR=0;NS=21;NUMALT=2;ODDS=9.16306;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=85599,33196;QR=0;RO=0;RPL=5,0;RPP=5223.32,2411.17;RPPR=0;RPR=2419,1109;RUN=1,1;SAF=2424,1109;SAP=5266.66,2411.17;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:265:0,147,117:0:0:147,117:5230,3601:-518.856,-257.454,-213.202,-261.342,0,-226.121 1/2:150:0,76,73:0:0:76,73:2657,1948:-245.29,-133.479,-110.601,-111.673,0,-89.6977 1/2:150:0,90,58:0:0:90,58:3189,1785:-288.441,-127.606,-100.514,-160.825,0,-143.366 1/2:158:0,88,69:0:0:88,69:3094,2119:-309.214,-151.512,-125.022,-157.686,0,-136.915 1/2:450:0,209,238:0:0:209,238:7379,7266:-890.926,-519.423,-456.507,-371.478,0,-299.833 1/2:191:0,103,88:0:0:103,88:3635,2366:-313.849,-162.882,-131.876,-151.186,0,-124.696 1/1:296:0,295,1:0:0:295,1:10338,27:-525.817,-88.8039,0,-523.959,-86.7055,-523.658 1/2:235:0,126,109:0:0:126,109:4462,3143:-429.676,-221.135,-183.205,-208.781,0,-175.968 1/1:254:0,253,0:0:0:253,0:8982,0:-576.484,-76.1606,0,-576.484,-76.1606,-576.484 1/1:20:0,20,0:0:0:20,0:710,0:-39.2958,-6.0206,0,-39.2958,-6.0206,-39.2958 1/2:19:0,9,10:0:0:9,10:323,268:-32.0259,-18.6425,-15.9332,-13.6008,0,-10.5905 1/2:37:0,19,18:0:0:19,18:675,517:-67.7749,-36.5769,-30.8573,-31.4354,0,-26.0168 1/1:148:0,147,1:0:0:147,1:5177,31:-307.051,-44.2514,0,-304.833,-41.7533,-304.532 1/1:205:0,201,0:0:0:201,0:6991,0:-418.599,-60.507,0,-418.599,-60.507,-418.599 1/2:353:0,194,158:0:0:194,158:6902,4830:-689.009,-344.961,-286.561,-344.005,0,-296.442 1/2:131:0,66,64:0:0:66,64:2330,2024:-276.742,-146.37,-126.502,-130.423,0,-111.157 1/2:132:0,69,62:0:0:69,62:2466,2000:-281.974,-145.663,-124.892,-136.347,0,-117.683 1/2:52:0,26,26:0:0:26,26:931,746:-95.7929,-52.5755,-44.7487,-43.455,0,-35.6282 1/2:70:0,53,17:0:0:53,17:1876,525:-133.322,-37.8082,-21.8536,-95.7816,0,-90.6641 1/1:195:0,193,0:0:0:193,0:6823,0:-377.13,-58.0988,0,-377.13,-58.0988,-377.13 1/1:40:0,40,0:0:0:40,0:1429,0:-71.6099,-12.0412,0,-71.6099,-12.0412,-71.6099 chr09 12337398 . C T 16583.7 PASS AB=0.476263;ABP=6.20599;AC=28;AF=0.666667;AN=42;AO=806;CIGAR=1X;DP=1149;DPB=1149;DPRA=0;EPP=1735.89;EPPR=739.165;GTI=0;LEN=1;MEANALT=1;MQM=59.9752;MQMR=60;NS=21;NUMALT=1;ODDS=13.4726;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28797;QR=12278;RO=343;RPL=804;RPP=1735.89;RPPR=739.165;RPR=2;RUN=1;SAF=0;SAP=1753.22;SAR=806;SRF=0;SRP=747.825;SRR=343;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:38,23:38:1364:23:817:-55.4875,0,-104.698 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/1:69:44,25:44:1576:25:900:-60.5499,0,-121.36 0/1:76:43,33:43:1536:33:1165:-82.2767,0,-115.655 0/1:111:54,57:54:1935:57:2030:-149.554,0,-141.011 0/1:29:9,20:9:324:20:716:-56.0378,0,-20.776 1/1:45:0,45:0:0:45:1612:-145.37,-13.5464,0 0/1:80:42,38:42:1491:38:1364:-98.9783,0,-110.401 1/1:159:0,159:0:0:159:5697:-512.846,-47.8638,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:14:11,3:11:396:3:108:-5.86075,0,-31.7683 1/1:95:1,94:1:36:94:3369:-299.826,-24.9996,0 1/1:101:0,101:0:0:101:3594:-323.665,-30.404,0 0/1:66:32,34:32:1152:34:1216:-89.878,0,-84.1222 0/1:25:17,8:17:612:8:288:-18.7417,0,-47.8877 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/1:45:22,23:22:788:23:824:-60.937,0,-57.6984 0/1:48:13,35:13:456:35:1256:-98.8958,0,-26.9238 1/1:54:0,54:0:0:54:1928:-173.797,-16.2556,0 1/1:34:0,34:0:0:34:1193:-107.673,-10.235,0 chr09 12341178 . T C 29676.1 PASS AB=0.514706;ABP=5.94817;AC=28;AF=0.666667;AN=42;AO=1511;CIGAR=1X;DP=2271;DPB=2271;DPRA=0;EPP=3284.11;EPPR=1653.33;GTI=0;LEN=1;MEANALT=1;MQM=59.9821;MQMR=60;NS=21;NUMALT=1;ODDS=8.80882;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53587;QR=27044;RO=760;RPL=0;RPP=3284.11;RPPR=1653.33;RPR=1511;RUN=1;SAF=0;SAP=3284.11;SAR=1511;SRF=0;SRP=1653.33;SRR=760;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:248:133,115:133:4760:115:4068:-291.496,0,-353.902 0/1:89:45,44:45:1600:44:1576:-115.34,0,-117.499 0/1:134:59,75:59:2085:75:2633:-196.877,0,-147.581 0/1:100:44,56:44:1576:56:1985:-148.82,0,-112.029 0/1:299:135,164:135:4840:164:5829:-434.718,0,-345.745 0/1:75:40,35:40:1425:35:1251:-90.317,0,-105.968 1/1:179:0,179:0:0:179:6337:-570.428,-53.8844,0 0/1:106:62,44:62:2224:44:1572:-109.862,0,-168.515 1/1:185:0,185:0:0:185:6528:-587.61,-55.6906,0 1/1:31:0,31:0:0:31:1097:-99.038,-9.33193,0 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:28:13,15:13:452:15:523:-38.9696,0,-32.5823 1/1:78:0,78:0:0:78:2773:-249.81,-23.4803,0 1/1:126:0,126:0:0:126:4508:-405.887,-37.9298,0 0/1:166:84,82:84:2966:82:2936:-214.503,0,-217.201 0/1:70:27,43:27:956:43:1527:-116.65,0,-65.2836 0/1:110:60,50:60:2101:50:1770:-126.468,0,-156.243 0/1:99:47,52:47:1667:52:1852:-137.158,0,-120.515 0/1:34:6,28:6:212:28:981:-78.366,0,-9.18978 1/1:81:1,80:1:36:80:2805:-249.093,-20.7852,0 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 chr09 12971351 . C T 16391.1 PASS AB=0.512363;ABP=3.97672;AC=28;AF=0.666667;AN=42;AO=810;CIGAR=1X;DP=1171;DPB=1171;DPRA=0;EPP=1753.23;EPPR=780.397;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9074;MQMR=59.9832;NS=21;NUMALT=1;ODDS=11.9984;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29043;QR=12789;RO=358;RPL=1;RPP=1753.23;RPPR=780.397;RPR=809;RUN=1;SAF=810;SAP=1761.9;SAR=0;SRF=358;SRP=780.397;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:23,42:23:820:42:1500:-115.728,0,-54.5537 0/1:29:14,15:14:495:15:532:-39.4832,0,-36.1532 0/1:36:19,16:19:680:16:576:-41.2791,0,-50.6334 0/1:110:46,64:46:1652:64:2304:-174.507,0,-115.855 0/1:125:78,46:78:2783:46:1652:-111.428,0,-213.171 0/1:66:31,35:31:1112:35:1243:-92.1743,0,-80.5234 1/1:80:1,79:1:36:79:2832:-251.52,-20.4841,0 0/1:53:21,32:21:735:32:1143:-87.2241,0,-50.5168 1/1:96:0,96:0:0:96:3452:-310.891,-28.8989,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:29:15,14:15:540:14:504:-36.9682,0,-40.2067 1/1:56:0,55:0:0:55:1980:-178.115,-16.5567,0 1/1:79:1,78:1:32:78:2790:-248.141,-20.5821,0 0/1:62:38,24:38:1360:24:860:-59.058,0,-104.037 0/1:20:10,10:10:352:10:360:-26.7237,0,-25.9976 0/1:29:15,14:15:540:14:491:-35.7889,0,-40.2067 0/1:56:24,32:24:864:32:1152:-87.1325,0,-61.2249 0/1:38:14,24:14:500:24:864:-66.6434,0,-33.897 1/1:78:3,75:3:108:75:2684:-231.722,-13.4052,0 1/1:48:0,48:0:0:48:1728:-155.535,-14.4494,0 chr09 12971363 . T A 6176.81 PASS AB=0.484311;ABP=4.57743;AC=14;AF=0.333333;AN=42;AO=359;CIGAR=1X;DP=1173;DPB=1173;DPRA=0.982774;EPP=698.129;EPPR=1659.48;GTI=0;LEN=1;MEANALT=1;MQM=59.8357;MQMR=59.9447;NS=21;NUMALT=1;ODDS=12.0059;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12811;QR=29196;RO=814;RPL=10;RPP=698.129;RPPR=1659.48;RPR=349;RUN=1;SAF=359;SAP=782.569;SAR=0;SRF=814;SRP=1770.59;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:43,26:43:1540:26:918:-61.581,0,-118.122 0/1:29:15,14:15:531:14:504:-36.9682,0,-39.392 0/1:36:16,20:16:572:20:720:-54.2917,0,-40.9763 0/1:111:64,47:64:2296:47:1688:-118.793,0,-173.487 0/1:125:48,77:48:1720:77:2738:-209.031,0,-117.457 0/1:65:34,31:34:1220:31:1116:-81.1847,0,-90.5399 0/0:80:79,1:79:2836:1:36:0,-20.4841,-251.88 0/1:52:32,20:32:1148:20:705:-48.1192,0,-87.9763 0/0:95:95,0:95:3397:0:0:0,-28.5978,-305.943 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:29:14,15:14:504:15:536:-39.8449,0,-36.9682 0/0:56:56,0:56:2016:0:0:0,-16.8577,-181.713 0/0:78:78,0:78:2804:0:0:0,-23.4803,-252.599 0/1:61:24,37:24:860:37:1321:-100.829,0,-59.359 0/1:21:11,10:11:392:10:360:-26.4227,0,-29.2984 0/1:31:16,15:16:568:15:521:-37.8844,0,-42.1083 0/1:57:33,24:33:1184:24:864:-60.9239,0,-89.7096 0/1:37:23,14:23:828:14:500:-34.1981,0,-63.706 0/0:77:74,3:74:2656:3:104:0,-13.4765,-229.575 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.535 chr09 13324273 . T C 77208.6 PASS AB=0.463693;ABP=36.123;AC=27;AF=0.642857;AN=42;AO=2982;CIGAR=1X;DP=4550;DPB=4550;DPRA=28.3875;EPP=6478.34;EPPR=3381.87;GTI=1;LEN=1;MEANALT=1;MQM=59.995;MQMR=60;NS=21;NUMALT=1;ODDS=3.67563;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=106032;QR=56170;RO=1568;RPL=1488;RPP=3.03651;RPPR=17.4185;RPR=1494;RUN=1;SAF=1488;SAP=3.03651;SAR=1494;SRF=838;SRP=19.1634;SRR=730;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:238:138,100:138:4960:100:3580:-250.76,0,-374.902 0/1:160:69,91:69:2463:91:3237:-243.386,0,-173.759 0/1:188:87,101:87:3128:101:3538:-262.036,0,-225.152 0/1:234:138,96:138:4939:96:3409:-236.584,0,-374.218 0/1:495:272,223:272:9747:223:7933:-564.987,0,-728.166 0/1:234:126,108:126:4508:108:3841:-275.445,0,-335.448 1/1:347:1,346:1:36:346:12301:-1103.34,-100.859,0 0/1:261:150,111:150:5375:111:3974:-279.28,0,-405.312 1/1:393:1,392:1:36:392:13985:-1254.83,-114.707,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:75:47,28:47:1679:28:1008:-68.4591,0,-128.819 1/1:267:0,267:0:0:267:9521:-856.848,-80.375,0 1/1:223:2,221:2:68:221:7821:-697.467,-60.672,0 0/1:379:218,161:218:7817:161:5734:-402.088,0,-589.465 0/1:147:77,70:77:2751:70:2483:-179.472,0,-203.58 0/1:122:59,63:59:2116:63:2232:-164.416,0,-153.983 0/1:162:87,75:87:3112:75:2684:-193.038,0,-231.54 0/1:197:83,114:83:2967:114:4064:-306.643,0,-207.96 1/1:287:5,282:5:180:282:9968:-880.517,-69.8435,0 1/1:114:0,114:0:0:114:4035:-363.337,-34.3174,0 chr09 13325227 . A G 8616.1 PASS AB=0.408555;ABP=52.256;AC=28;AF=0.666667;AN=42;AO=479;CIGAR=1X;DP=881;DPB=881;DPRA=0;EPP=1025.85;EPPR=867.278;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9677;NS=21;NUMALT=1;ODDS=3.35094;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16856;QR=14122;RO=402;RPL=477;RPP=1025.85;RPPR=867.278;RPR=2;RUN=1;SAF=0;SAP=1043.15;SAR=479;SRF=0;SRP=875.942;SRR=402;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:40,22:40:1369:22:776:-51.4983,0,-104.841 0/1:36:23,13:23:824:13:460:-30.8983,0,-63.6462 0/1:59:38,21:38:1323:21:744:-49.5236,0,-101.58 0/1:42:29,13:29:1023:13:464:-29.4542,0,-79.7385 0/1:78:26,52:26:915:52:1835:-141.95,0,-59.1852 0/1:29:20,9:20:704:9:315:-19.9574,0,-54.9547 1/1:45:1,44:1:36:44:1542:-135.472,-9.94808,0 0/1:52:33,19:33:1167:19:668:-44.7921,0,-89.6828 1/1:34:0,34:0:0:34:1208:-109.026,-10.235,0 1/1:6:0,6:0:0:6:207:-18.9669,-1.80618,0 0/1:7:3,4:3:108:4:131:-10.0063,0,-7.96796 0/1:31:12,19:12:420:19:680:-52.1972,0,-28.8021 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 1/1:36:0,36:0:0:36:1275:-115.052,-10.8371,0 0/1:95:73,22:73:2571:22:763:-40.3907,0,-203.043 0/1:25:16,9:16:551:9:306:-20.3429,0,-42.3887 0/1:32:25,7:25:884:7:239:-12.2098,0,-70.2454 0/1:74:46,28:46:1619:28:1004:-68.3996,0,-123.722 0/1:56:17,39:17:608:39:1354:-105.299,0,-38.1943 1/1:42:0,42:0:0:42:1462:-131.873,-12.6433,0 1/1:24:0,24:0:0:24:851:-76.9101,-7.22472,0 chr09 13370933 . ATAG CTTC,CTAG 52049.6 PASS AB=0.458288,0.538968;ABP=30.5458,27.0419;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1558,985;CIGAR=1X1M2X,1X3M;DP=2555;DPB=2555;DPRA=0,1.10821;EPP=3386.16,2141.91;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.19048,2.3125;MQM=45.9615,59.9919;MQMR=0;NS=21;NUMALT=2;ODDS=2.04322;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55295,35251;QR=0;RO=0;RPL=0,0;RPP=3386.16,2141.91;RPPR=0;RPR=1558,985;RUN=1,1;SAF=1558,985;SAP=3386.16,2141.91;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:158:0,72,84:0:0:72,84:2553,2996:-449.302,-244.256,-222.582,-205.069,0,-179.782 1/2:116:0,63,53:0:0:63,53:2236,1893:-333.618,-154.691,-135.726,-179.281,0,-163.326 1/2:150:0,62,88:0:0:62,88:2227,3132:-434.547,-255.617,-236.953,-179.285,0,-152.795 1/2:165:0,77,88:0:0:77,88:2748,3152:-478.182,-257.414,-234.235,-221.122,0,-194.631 1/2:352:0,162,190:0:0:162,190:5755,6798:-1018.43,-554.695,-505.928,-464.09,0,-406.894 1/2:62:0,39,23:0:0:39,23:1394,824:-179.064,-67.5587,-55.8185,-111.861,0,-104.937 1/1:179:0,176,0:0:0:176,0:6284,0:-555.694,-52.9813,0,-555.694,-52.9813,-555.694 1/2:129:0,56,73:0:0:56,73:1989,2607:-372.245,-212.902,-196.044,-159.696,0,-137.721 1/1:154:0,150,0:0:0:150,0:5292,0:-471.58,-45.1545,0,-471.58,-45.1545,-471.58 1/1:15:0,15,0:0:0:15,0:528,0:-47.2154,-4.51545,0,-47.2154,-4.51545,-47.2154 1/2:7:0,2,5:0:0:2,5:72,180:-20.8492,-15.0469,-14.4449,-6.15931,0,-4.65416 1/2:45:0,19,26:0:0:19,26:680,932:-130.729,-76.3721,-70.6525,-54.7108,0,-46.884 1/1:59:0,57,2:0:0:57,2:2029,72:-180.637,-17.1587,0,-174.761,-10.924,-174.159 1/1:172:0,172,0:0:0:172,0:6053,0:-538.859,-51.7772,0,-538.859,-51.7772,-538.859 1/2:236:0,108,127:0:0:108,127:3850,4556:-680.574,-371.614,-339.102,-308.955,0,-270.724 1/2:157:0,78,78:0:0:78,78:2756,2793:-449.556,-227.768,-204.288,-221.782,0,-198.302 1/2:142:0,46,96:0:0:46,96:1627,3444:-412.534,-281.273,-267.426,-131.613,0,-102.714 1/2:70:0,31,38:0:0:31,38:1091,1368:-198.884,-111.627,-102.295,-87.2547,0,-75.8156 1/2:33:0,20,13:0:0:20,13:719,468:-96.2831,-38.5463,-32.5257,-58.0945,0,-54.1811 1/1:112:0,111,1:0:0:111,1:3943,36:-348.562,-33.4143,0,-345.624,-30.1171,-345.323 1/1:42:0,42,0:0:0:42,0:1469,0:-130.567,-12.6433,0,-130.567,-12.6433,-130.567 chr09 13387686 . C A,G 29890 PASS AB=0.545024,0.454976;ABP=17.871,17.871;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1043,384;CIGAR=1X,1X;DP=1427;DPB=1427;DPRA=0,0.723842;EPP=2267.86,836.856;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.66667,2;MQM=59.9827,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.80357;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36916,13671;QR=0;RO=0;RPL=1043,384;RPP=2267.86,836.856;RPPR=0;RPR=0,0;RUN=1,1;SAF=1043,384;SAP=2267.86,836.856;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,31,28:0:0:31,28:1110,1004:-172.768,-82.247,-72.9151,-90.8793,0,-82.4505 1/2:53:0,36,17:0:0:36,17:1268,612:-153.521,-50.2959,-39.4588,-103.583,0,-98.4654 1/2:70:0,37,33:0:0:37,33:1308,1167:-201.932,-95.4024,-84.2643,-106.883,0,-96.9494 1/2:64:0,28,36:0:0:28,36:996,1292:-186.916,-105.747,-97.3178,-81.526,0,-70.689 1/2:87:0,37,50:0:0:37,50:1316,1779:-252.588,-145.341,-134.203,-107.603,0,-92.5513 1/2:118:0,61,57:0:0:61,57:2173,2027:-342.661,-165.544,-147.181,-177.473,0,-160.314 1/1:163:0,163,0:0:0:163,0:5706,0:-513.668,-49.0679,0,-513.668,-49.0679,-513.668 1/2:71:0,44,27:0:0:44,27:1576,964:-207.478,-78.949,-65.7037,-128.886,0,-120.758 1/1:129:0,129,0:0:0:129,0:4587,0:-412.996,-38.8329,0,-412.996,-38.8329,-412.996 1/1:7:0,7,0:0:0:7,0:244,0:-22.2994,-2.10721,0,-22.2994,-2.10721,-22.2994 1/2:8:0,3,5:0:0:3,5:104,180:-23.4951,-15.0469,-14.1438,-8.79971,0,-7.29456 1/2:15:0,12,3:0:0:12,3:416,108:-42.9742,-9.17208,-5.55972,-34.1593,0,-33.2562 1/1:91:0,91,0:0:0:91,0:3224,0:-290.385,-27.3937,0,-290.385,-27.3937,-290.385 1/1:78:0,78,0:0:0:78,0:2748,0:-247.562,-23.4803,0,-247.562,-23.4803,-247.562 1/2:118:0,71,47:0:0:71,47:2514,1684:-342.482,-137.699,-116.325,-205.14,0,-190.992 1/2:56:0,33,23:0:0:33,23:1184,828:-164.495,-67.9204,-57.9864,-96.9343,0,-90.0106 1/2:31:0,19,12:0:0:19,12:676,419:-89.5272,-34.4303,-28.7107,-55.4484,0,-51.8361 1/2:46:0,19,27:0:0:19,27:676,935:-131.428,-76.3316,-70.612,-55.4484,0,-47.3206 1/2:48:0,29,19:0:0:29,19:1036,672:-139.556,-55.0873,-46.3574,-84.824,0,-79.1045 1/1:82:0,82,0:0:0:82,0:2885,0:-259.883,-24.6845,0,-259.883,-24.6845,-259.883 1/1:33:0,33,0:0:0:33,0:1169,0:-105.516,-9.93399,0,-105.516,-9.93399,-105.516 chr09 13732774 . A G 10752.2 PASS AB=0.52123;ABP=11.0317;AC=14;AF=0.333333;AN=42;AO=1070;CIGAR=1X;DP=2715;DPB=2715;DPRA=1.35161;EPP=2326.49;EPPR=3572.91;GTI=0;LEN=1;MEANALT=1.06667;MQM=28.9869;MQMR=59.4793;NS=21;NUMALT=1;ODDS=4.78263;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37652;QR=58456;RO=1644;RPL=0;RPP=2326.49;RPPR=3572.91;RPR=1070;RUN=1;SAF=0;SAP=2326.49;SAR=1070;SRF=0;SRP=3572.91;SRR=1644;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:213:113,100:113:4043:100:3519:-187.388,0,-299.609 0/1:170:77,93:77:2725:93:3264:-182.558,0,-194.148 0/1:195:108,86:108:3864:86:3008:-157.06,0,-288.574 0/1:89:38,51:38:1355:51:1816:-103.184,0,-95.4534 0/1:314:183,131:183:6481:131:4604:-234.862,0,-487.981 0/1:82:44,38:44:1564:38:1339:-71.1018,0,-116.026 0/0:204:204,0:204:7220:0:0:0,-61.4101,-649.499 0/1:137:73,64:73:2612:64:2251:-119.712,0,-194.031 0/0:139:139,0:139:4954:0:0:0,-41.8432,-445.851 0/0:46:44,2:44:1576:2:72:0,-8.48732,-136.771 0/1:21:6,15:6:216:15:527:-31.6172,0,-13.4689 0/1:55:11,44:11:392:44:1562:-94.7512,0,-19.0619 0/0:80:80,0:80:2831:0:0:0,-24.0824,-254.869 0/0:120:120,0:120:4275:0:0:0,-36.1236,-384.65 0/1:285:124,161:124:4410:161:5615:-316.8,0,-310.847 0/1:143:63,80:63:2241:80:2833:-158.944,0,-158.905 0/1:181:96,85:96:3421:85:3026:-160.657,0,-252.593 0/1:118:24,94:24:848:94:3311:-201.582,0,-41.0947 0/1:46:20,26:20:707:26:905:-51.2312,0,-50.051 0/0:54:54,0:54:1925:0:0:0,-16.2556,-173.525 0/0:23:23,0:23:796:0:0:0,-6.92369,-71.0961 chr09 13732834 . A G 18773.6 PASS AB=0.630647;ABP=170.391;AC=30;AF=0.714286;AN=42;AO=1764;CIGAR=1X;DP=2197;DPB=2197;DPRA=0;EPP=3833.49;EPPR=941.086;GTI=2;LEN=1;MEANALT=1.04762;MQM=24.6842;MQMR=47.7801;NS=21;NUMALT=1;ODDS=1.78749;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63090;QR=15446;RO=432;RPL=0;RPP=3833.49;RPPR=941.086;RPR=1764;RUN=1;SAF=1764;SAP=3833.49;SAR=0;SRF=432;SRP=941.086;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:34:16,18:16:572:18:644:-29.5848,0,-40.853 1/1:22:2,20:2:72:20:720:-37.5338,-0.1079,0 0/1:51:25,26:25:877:26:932:-40.7317,0,-63.258 0/1:52:17,35:17:604:35:1252:-62.8749,0,-37.7621 0/1:124:37,87:37:1328:87:3101:-150.038,0,-82.0008 0/1:36:11,25:11:392:25:892:-44.6624,0,-23.2222 1/1:90:0,90:0:0:90:3201:-198.321,-27.0927,0 0/1:102:65,37:65:2332:37:1332:-50.1948,0,-173.436 1/1:137:0,136:0:0:136:4850:-295.709,-40.9401,0 1/1:444:0,444:0:0:444:15921:-974.39,-133.657,0 0/1:225:24,201:24:845:201:7162:-369.776,0,-7.57152 1/1:176:13,163:13:456:163:5848:-317.6,-11.9846,0 1/1:70:0,70:0:0:70:2489:-154.106,-21.0721,0 1/1:72:0,72:0:0:72:2569:-157.942,-21.6742,0 0/1:103:44,59:44:1572:59:2109:-98.3631,0,-109.264 0/1:30:17,13:17:604:13:464:-20.0371,0,-45.5616 0/1:39:11,28:11:396:28:1000:-48.2652,0,-24.1741 0/1:296:142,154:142:5112:154:5524:-249.958,0,-363.891 0/1:37:8,29:8:284:29:1032:-52.7074,0,-14.6663 1/1:24:0,24:0:0:24:860:-51.3269,-7.22472,0 1/1:33:0,33:0:0:33:1188:-73.1742,-9.93399,0 chr09 13732843 . GTTA TTTG,GTTG 28643.3 PASS AB=0.628947,0.364912;ABP=167.654,183.707;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1784,433;CIGAR=1X2M1X,3M1X;DP=2227;DPB=2227;DPRA=0,0.761042;EPP=3876.92,943.258;EPPR=0;GTI=2;LEN=4,1;MEANALT=2.09524,2.42857;MQM=24.6811,47.843;MQMR=0;NS=21;NUMALT=2;ODDS=1.54533;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63084,15420;QR=0;RO=0;RPL=0,0;RPP=3876.92,943.258;RPPR=0;RPR=1784,433;RUN=1,1;SAF=1784,433;SAP=3876.92,943.258;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:34:0,17,16:0:0:17,16:605,576:-78.4389,-46.3748,-41.2573,-32.1146,0,-27.2981 1/1:22:0,20,2:0:0:20,2:707,72:-43.6022,-6.0206,0,-38.0233,-0.1079,-37.4212 1/2:56:0,31,25:0:0:31,25:1093,900:-129.848,-73.1271,-63.7952,-57.0247,0,-49.499 1/2:51:0,35,16:0:0:35,16:1246,561:-112.252,-44.7229,-34.1869,-67.8417,0,-63.0252 1/2:124:0,87,37:0:0:87,37:3062,1328:-268.829,-108.19,-82.0008,-160.961,0,-149.823 1/2:35:0,25,10:0:0:25,10:880,345:-75.2173,-27.6724,-20.1466,-47.8558,0,-44.8455 1/1:92:0,91,0:0:0:91,0:3230,0:-200.287,-27.3937,0,-200.287,-27.3937,-200.287 1/2:103:0,37,66:0:0:37,66:1312,2346:-255.628,-186.288,-175.15,-69.6191,0,-49.7511 1/1:139:0,138,0:0:0:138,0:4864,0:-300.396,-41.5421,0,-300.396,-41.5421,-300.396 1/1:449:0,448,0:0:0:448,0:15855,0:-979.688,-134.861,0,-979.688,-134.861,-979.688 1/2:228:0,204,24:0:0:204,24:7215,864:-451.539,-69.7382,-8.32807,-382.144,0,-374.919 1/1:182:0,167,15:0:0:167,15:5913,536:-366.027,-50.272,0,-322.768,-6.66845,-318.253 1/1:70:0,70,0:0:0:70,0:2467,0:-153.717,-21.0721,0,-153.717,-21.0721,-153.717 1/1:75:0,75,0:0:0:75,0:2650,0:-164.478,-22.5773,0,-164.478,-22.5773,-164.478 1/2:103:0,59,44:0:0:59,44:2112,1558:-237.905,-126.25,-108.489,-111.96,0,-98.7149 1/2:30:0,13,17:0:0:13,17:459,612:-74.9546,-50.1904,-46.277,-25.059,0,-19.9415 1/2:40:0,29,11:0:0:29,11:1031,396:-85.7189,-32.6029,-23.873,-53.4416,0,-50.1303 1/2:299:0,152,142:0:0:152,142:5354,5038:-692.603,-405.288,-359.531,-287.395,0,-244.649 1/2:37:0,28,8:0:0:28,8:988,288:-76.1878,-23.478,-15.0492,-52.7937,0,-50.3855 1/1:24:0,24,0:0:0:24,0:845,0:-51.1888,-7.22472,0,-51.1888,-7.22472,-51.1888 1/1:34:0,34,0:0:0:34,0:1196,0:-74.957,-10.235,0,-74.957,-10.235,-74.957 chr09 13739561 . C T 6757.32 PASS AB=0.379421;ABP=160.11;AC=14;AF=0.333333;AN=42;AO=476;CIGAR=1X;DP=1721;DPB=1721;DPRA=1.70222;EPP=1027.96;EPPR=2702.15;GTI=1;LEN=1;MEANALT=1.11765;MQM=53.5294;MQMR=59.5696;NS=21;NUMALT=1;ODDS=8.91259;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16785;QR=44419;RO=1243;RPL=1;RPP=1027.96;RPPR=2702.15;RPR=475;RUN=1;SAF=0;SAP=1036.63;SAR=476;SRF=0;SRP=2702.15;SRR=1243;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:51,38:51:1828:38:1360:-95.6031,0,-138 0/1:97:58,39:58:2084:39:1336:-90.976,0,-158.606 0/1:55:24,30:24:864:30:1067:-79.482,0,-61.465 0/1:64:34,29:34:1216:29:1044:-74.171,0,-90.2826 0/1:141:77,64:77:2732:64:2243:-159.342,0,-203.669 0/1:119:77,42:77:2759:42:1478:-95.8815,0,-212.72 0/0:140:138,2:138:4916:2:72:0,-35.3895,-435.592 0/1:142:105,37:105:3752:37:1328:-76.7831,0,-294.503 0/0:102:102,0:102:3632:0:0:0,-30.7051,-327.028 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9688 0/1:5:4,1:4:144:1:36:-1.88245,0,-11.8085 0/1:34:22,12:22:788:12:428:-28.445,0,-61.0094 0/0:70:69,1:69:2467:1:36:0,-17.4764,-218.681 0/0:58:57,1:57:1997:1:36:0,-13.8641,-176.361 0/1:231:144,87:144:5168:87:3064:-205.434,0,-395.476 0/1:23:15,8:15:536:8:284:-18.7347,0,-41.6383 0/1:93:49,44:49:1760:44:1538:-110.061,0,-130.645 0/1:100:71,29:71:2528:29:1024:-62.039,0,-197.648 0/1:51:39,12:39:1396:12:411:-21.9434,0,-110.496 0/0:66:66,0:66:2376:0:0:0,-19.868,-214.086 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5123 chr09 14057878 . C T 6900.01 PASS AB=0.578641;ABP=30.6744;AC=14;AF=0.333333;AN=42;AO=298;CIGAR=1X;DP=810;DPB=810;DPRA=0.872881;EPP=11.4339;EPPR=3.28173;GTI=0;LEN=1;MEANALT=1;MQM=59.9362;MQMR=60;NS=21;NUMALT=1;ODDS=4.26231;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10639;QR=18112;RO=512;RPL=0;RPP=650.109;RPPR=1106.14;RPR=298;RUN=1;SAF=166;SAP=11.4339;SAR=132;SRF=253;SRP=3.16298;SRR=259;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:34:12,22:12:416:22:759:-58.3866,0,-27.5366 0/1:35:17,18:17:603:18:644:-47.7545,0,-44.0635 0/1:10:4,6:4:140:6:211:-16.323,0,-9.93428 0/1:31:13,18:13:468:18:648:-49.32,0,-33.1277 0/1:48:21,27:21:744:27:968:-72.9879,0,-52.8349 0/1:26:7,19:7:244:19:684:-54.0635,0,-14.4726 0/0:52:52,0:52:1851:0:0:0,-15.6536,-166.869 0/1:47:19,28:19:676:28:1000:-76.167,0,-47.0196 0/0:48:48,0:48:1707:0:0:0,-14.4494,-153.915 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:4:2,2:2:59:2:72:-5.6326,0,-4.40002 0/1:20:10,10:10:348:10:360:-26.7237,0,-25.6345 0/0:59:59,0:59:2096:0:0:0,-17.7608,-188.91 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/1:25:10,15:10:356:15:525:-40.0523,0,-24.8555 0/1:24:8,16:8:288:16:564:-43.8656,0,-19.0427 0/1:15:7,8:7:248:8:288:-21.7516,0,-18.1487 0/1:109:36,73:36:1263:73:2628:-203.954,0,-81.1595 0/1:87:51,36:51:1793:36:1288:-90.034,0,-135.46 0/0:35:35,0:35:1243:0:0:0,-10.536,-112.174 0/0:68:68,0:68:2389:0:0:0,-20.47,-215.265 chr09 14534046 . T C 23230.1 PASS AB=0.549383;ABP=54.4822;AC=22;AF=0.52381;AN=42;AO=1339;CIGAR=1X;DP=2434;DPB=2434;DPRA=0;EPP=2910.61;EPPR=2380.77;GTI=1;LEN=1;MEANALT=1;MQM=55.9813;MQMR=59.9598;NS=21;NUMALT=1;ODDS=9.14307;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47728;QR=39170;RO=1095;RPL=0;RPP=2910.61;RPPR=2380.77;RPR=1339;RUN=1;SAF=0;SAP=2910.61;SAR=1339;SRF=0;SRP=2380.77;SRR=1095;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:39,72:39:1388:72:2567:-196.464,0,-91.8046 0/1:94:28,66:28:1004:66:2354:-183.301,0,-62.379 0/1:78:24,54:24:864:54:1936:-150.798,0,-54.6022 0/1:131:52,79:52:1860:79:2828:-214.136,0,-128.242 0/1:342:109,233:109:3885:233:8277:-639.989,0,-246.847 0/1:99:25,74:25:888:74:2633:-206.655,0,-50.4371 0/1:144:87,57:87:3105:57:2022:-138.901,0,-236.328 0/1:89:44,45:44:1584:45:1612:-118.317,0,-116.06 0/1:300:188,112:188:6732:112:3988:-268.798,0,-515.589 0/1:16:10,6:10:360:6:216:-14.974,0,-27.9278 1/1:4:0,4:0:0:4:135:-12.4814,-1.20412,0 0/1:27:10,17:10:360:17:604:-46.473,0,-24.6165 0/1:166:95,71:95:3396:71:2527:-177.703,0,-255.884 0/1:100:65,35:65:2320:35:1247:-82.4287,0,-178.955 0/1:135:66,69:66:2376:69:2476:-181.657,0,-173.458 0/1:135:40,95:40:1440:95:3389:-263.909,0,-89.2587 0/1:53:28,25:28:1004:25:900:-65.2183,0,-74.7213 0/1:135:45,90:45:1612:90:3202:-246.615,0,-104.731 0/1:78:22,56:22:788:56:1987:-155.393,0,-47.7645 0/1:111:74,37:74:2652:37:1320:-85.6861,0,-205.512 0/1:86:44,42:44:1552:42:1508:-110.054,0,-114.082 chr09 14534057 . G A 7742.99 PASS AB=0.360558;ABP=257.358;AC=14;AF=0.333333;AN=42;AO=544;CIGAR=1X;DP=2417;DPB=2417;DPRA=0.77046;EPP=1149.8;EPPR=3983.78;GTI=1;LEN=1;MEANALT=1;MQM=50.2684;MQMR=59.9002;NS=21;NUMALT=1;ODDS=9.9345;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19440;QR=66795;RO=1873;RPL=4;RPP=1149.8;RPPR=3983.78;RPR=540;RUN=1;SAF=0;SAP=1184.29;SAR=544;SRF=0;SRP=4070.18;SRR=1873;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:73,38:73:2604:38:1364:-87.2256,0,-201.192 0/1:88:49,39:49:1755:39:1404:-99.6066,0,-131.741 0/1:80:61,19:61:2169:19:680:-37.1931,0,-171.388 0/1:133:78,55:78:2750:55:1952:-134.695,0,-207.699 0/1:339:200,139:200:7134:139:4925:-339.486,0,-540.052 0/1:101:55,46:55:1976:46:1652:-118.012,0,-147.709 0/0:141:141,0:141:5018:0:0:0,-42.4452,-451.767 0/1:88:62,26:62:2202:26:932:-57.44,0,-171.954 0/0:290:290,0:290:10347:0:0:0,-87.2987,-931.144 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:4:3,1:3:108:1:36:-2.38511,0,-8.87105 0/1:27:18,9:18:640:9:324:-21.2813,0,-49.8015 0/0:170:170,0:170:6091:0:0:0,-51.1751,-548.279 0/0:97:97,0:97:3450:0:0:0,-29.1999,-310.664 0/1:131:98,33:98:3511:33:1180:-66.375,0,-276.764 0/1:133:74,59:74:2627:59:2116:-150.054,0,-196.641 0/1:53:34,19:34:1224:19:680:-45.4312,0,-94.5125 0/1:138:97,41:97:3437:41:1475:-90.2443,0,-267.99 0/1:80:61,19:61:2160:19:684:-37.5461,0,-170.579 0/0:111:111,0:111:3984:0:0:0,-33.4143,-358.746 0/0:85:84,1:84:2996:1:36:0,-21.9893,-266.266 chr09 14534087 . ATG ATA,GTA 51665.8 PASS AB=0.634051,0.365297;ABP=242.284,244.619;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1893,560;CIGAR=2M1X,1X1M1X;DP=2456;DPB=2456;DPRA=0,0.830444;EPP=4113.61,1219.03;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.7619,2.07143;MQM=59.9033,50.3089;MQMR=60;NS=21;NUMALT=2;ODDS=15.9559;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67798,19891;QR=36;RO=1;RPL=1893,560;RPP=4113.61,1219.03;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4113.61,1219.03;SAR=1893,560;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:112:0,71,41:0:0:71,41:2544,1468:-325.353,-117.872,-96.4988,-207.835,0,-195.493 1/2:94:0,50,44:0:0:50,44:1796,1562:-273.602,-127.09,-112.038,-146.869,0,-133.624 1/2:80:0,61,19:0:0:61,19:2184,675:-233.213,-55.1075,-36.7447,-178.46,0,-172.74 1/2:136:0,81,55:0:0:81,55:2900,1964:-395.494,-159.004,-134.621,-236.845,0,-220.289 1/2:347:0,206,141:0:0:206,141:7376,5010:-1008.24,-406.752,-344.74,-601.843,0,-559.398 1/2:103:0,54,49:0:0:54,49:1936,1735:-298.783,-140.879,-124.624,-158.259,0,-143.508 1/1:140:0,140,0:0:0:140,0:5028,0:-452.662,-42.1442,0,-452.662,-42.1442,-452.662 1/2:89:0,61,28:0:0:61,28:2184,975:-257.486,-79.3737,-61.0109,-178.463,0,-170.034 1/1:299:0,299,0:0:0:299,0:10736,0:-966.139,-90.008,0,-966.139,-90.008,-966.139 1/1:17:0,17,0:0:0:17,0:597,0:-54.0561,-5.11751,0,-54.0561,-5.11751,-54.0561 1/2:4:0,3,1:0:0:3,1:108,24:-11.0005,-2.09828,-1.19519,-9.17208,0,-8.87105 1/2:27:0,17,10:0:0:17,10:612,360:-79.5742,-29.6374,-24.5199,-50.2959,0,-47.2856 1/1:175:0,174,0:0:0:174,0:6232,0:-560.655,-52.3792,0,-560.655,-52.3792,-560.655 1/1:97:0,97,0:0:0:97,0:3432,0:-309.043,-29.1999,0,-309.043,-29.1999,-309.043 1/2:133:0,101,32:0:0:101,32:3636,1146:-389.781,-93.0985,-62.6945,-297.039,0,-287.406 1/2:138:0,76,61:0:0:76,61:2736,2165:-399.059,-175.812,-152.933,-223.293,0,-204.93 1/2:54:0,36,18:0:0:36,18:1288,636:-157.047,-52.0146,-41.1775,-105.387,0,-99.968 1/2:139:0,97,42:0:0:97,42:3472,1494:-404.068,-120.944,-91.7438,-283.478,0,-270.835 1/2:77:0,58,19:0:0:58,19:2047,677:-221.977,-55.294,-37.8342,-167.037,0,-161.317 1/1:109:1,108,0:1:36:108,0:3872,0:-345.075,-29.214,0,-345.376,-32.5112,-348.313 1/1:86:0,86,0:0:0:86,0:3082,0:-277.535,-25.8886,0,-277.535,-25.8886,-277.535 chr09 14775176 . A G 6487.8 PASS AB=0.451202;ABP=17.6332;AC=14;AF=0.333333;AN=42;AO=322;CIGAR=1X;DP=1082;DPB=1082;DPRA=1.81784;EPP=150.724;EPPR=243.301;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=13.8918;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11330;QR=26968;RO=760;RPL=0;RPP=702.224;RPPR=1653.33;RPR=322;RUN=1;SAF=235;SAP=150.724;SAR=87;SRF=525;SRP=243.301;SRR=235;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:33,21:33:1159:21:731:-49.8548,0,-88.3602 0/1:11:6,5:6:208:5:176:-12.8737,0,-15.7478 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:19:11,8:11:392:8:288:-20.5478,0,-29.9005 0/1:43:21,22:21:740:22:775:-57.1269,0,-53.9791 0/1:35:24,11:24:840:11:388:-24.7213,0,-65.3821 0/0:58:58,0:58:2060:0:0:0,-17.4597,-185.672 0/1:13:8,5:8:280:5:176:-12.2716,0,-21.6259 0/0:39:39,0:39:1373:0:0:0,-11.7402,-123.867 0/0:176:175,1:175:6207:1:36:0,-49.383,-555.128 0/1:50:23,27:23:813:27:946:-70.4019,0,-58.4376 0/1:27:17,10:17:608:10:356:-24.2534,0,-46.9242 0/0:18:17,1:17:586:1:27:0,-2.71876,-50.363 0/0:19:19,0:19:657:0:0:0,-5.71957,-59.4504 0/1:37:23,14:23:811:14:462:-30.7558,0,-62.1719 0/1:31:17,14:17:608:14:492:-35.2804,0,-45.7201 0/1:13:7,6:7:252:6:212:-15.5114,0,-19.1156 0/1:330:174,156:174:6231:156:5526:-398.127,0,-461.545 0/1:37:21,16:21:748:16:559:-39.4995,0,-56.5072 0/0:8:8,0:8:275:0:0:0,-2.40824,-25.0835 0/0:57:56,1:56:2012:1:36:0,-13.5604,-177.755 chr09 15045584 . ACATTGTT GCACTATT,GCACTATC 34440.4 PASS AB=0.495643,0.498911;ABP=3.16169,3.01976;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1194,462;CIGAR=1X2M1X1M1X2M,1X2M1X1M1X1M1X;DP=1666;DPB=1666;DPRA=20.775,0.619624;EPP=2578.41,1006.23;EPPR=0;GTI=1;LEN=8,8;MEANALT=2.15,2.28571;MQM=59.3593,47.4957;MQMR=0;NS=21;NUMALT=2;ODDS=8.25633;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41984,16294;QR=0;RO=0;RPL=2,0;RPP=2578.41,1006.23;RPPR=0;RPR=1192,462;RUN=1,1;SAF=1194,462;SAP=2595.75,1006.23;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:34:0,23,11:0:0:23,11:812,388:-97.6283,-31.5014,-24.5777,-66.4765,0,-63.1652 1/2:36:0,17,18:0:0:17,18:599,636:-99.8721,-51.1007,-45.9832,-48.7995,0,-43.3809 1/2:164:0,71,91:0:0:71,91:2525,3211:-465.034,-259.547,-238.174,-205.521,0,-178.128 1/2:113:0,50,62:0:0:50,62:1772,2165:-318.963,-174.62,-159.568,-144.383,0,-125.719 1/2:137:0,79,58:0:0:79,58:2770,2040:-390.253,-164.912,-141.13,-225.69,0,-208.231 1/2:57:0,31,26:0:0:31,26:1086,915:-160.659,-72.3021,-62.9702,-88.7024,0,-80.8756 1/1:119:0,117,0:0:0:117,0:4073,0:-365.762,-35.2205,0,-365.762,-35.2205,-365.762 1/2:71:0,30,41:0:0:30,41:1048,1439:-201.604,-116.353,-107.322,-85.5989,0,-73.2566 1/1:131:0,131,0:0:0:131,0:4600,0:-414.138,-39.4349,0,-414.138,-39.4349,-414.138 1/1:17:0,17,0:0:0:17,0:592,0:-53.5541,-5.11751,0,-53.5541,-5.11751,-53.5541 2/2:4:0,0,4:0:0:0,4:0,144:-12.6956,-12.6956,-12.6956,-1.20412,-1.20412,0 1/2:26:0,9,17:0:0:9,17:319,608:-74.9869,-49.1284,-46.4191,-26.2111,0,-21.0936 1/1:165:0,163,0:0:0:163,0:5749,0:-516.801,-49.0679,0,-516.801,-49.0679,-516.801 1/1:112:0,111,0:0:0:111,0:3876,0:-348.603,-33.4143,0,-348.603,-33.4143,-348.603 1/2:110:0,60,50:0:0:60,50:2120,1780:-316.846,-144.236,-126.174,-172.964,0,-157.912 1/2:22:0,8,13:0:0:8,13:279,463:-60.3156,-37.6247,-35.2165,-22.7479,0,-18.8345 1/2:30:0,13,17:0:0:13,17:463,597:-86.3392,-48.5982,-44.6849,-38.0939,0,-32.9764 1/2:64:0,26,38:0:0:26,38:922,1343:-183.418,-108.3,-100.474,-75.4697,0,-64.0306 1/2:54:0,38,16:0:0:38,16:1352,565:-155.985,-46.0681,-34.6289,-110.269,0,-105.452 1/1:159:0,159,0:0:0:159,0:5593,0:-503.34,-47.8638,0,-503.34,-47.8638,-503.34 1/1:41:0,41,0:0:0:41,0:1434,0:-129.339,-12.3422,0,-129.339,-12.3422,-129.339 chr09 15655403 . A C 14899.1 PASS AB=0.497564;ABP=3.10553;AC=14;AF=0.333333;AN=42;AO=919;CIGAR=1X;DP=3100;DPB=3100;DPRA=0.737031;EPP=1998.59;EPPR=4738.99;GTI=1;LEN=1;MEANALT=1;MQM=48.3014;MQMR=58.7955;NS=21;NUMALT=1;ODDS=10.4099;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32481;QR=77692;RO=2181;RPL=0;RPP=1998.59;RPPR=1896.34;RPR=919;RUN=1;SAF=0;SAP=1998.59;SAR=919;SRF=1780;SRP=1896.34;SRR=401;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:221:105,116:105:3737:116:4113:-301.334,0,-268.271 0/1:162:66,96:66:2356:96:3412:-256.519,0,-163.532 0/1:94:38,56:38:1368:56:1962:-146.87,0,-95.124 0/1:143:74,69:74:2643:69:2408:-172.558,0,-195.069 0/1:377:180,197:180:6411:197:6956:-503.72,0,-463.594 0/1:105:39,66:39:1377:66:2352:-179.218,0,-92.6185 0/0:213:213,0:213:7602:0:0:0,-64.1194,-683.784 0/1:42:14,28:14:504:28:981:-74.8792,0,-33.0515 0/0:460:460,0:460:16353:0:0:0,-138.474,-1469.08 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/1:8:7,1:7:252:1:36:-1.17481,0,-20.6207 0/1:21:14,7:14:481:7:248:-16.2534,0,-37.2934 0/0:214:214,0:214:7651:0:0:0,-64.4204,-688.625 0/0:141:141,0:141:5023:0:0:0,-42.4452,-452.208 0/1:170:57,113:57:2023:113:3994:-304.793,0,-131.167 0/1:159:103,56:103:3661:56:1991:-128.439,0,-281.648 0/1:186:129,57:129:4627:57:2004:-122.606,0,-360.267 0/1:84:50,34:50:1779:34:1208:-83.0414,0,-135.106 0/1:75:52,23:52:1840:23:816:-50.4207,0,-143.302 0/0:114:114,0:114:4062:0:0:0,-34.3174,-365.762 0/0:71:71,0:71:2510:0:0:0,-21.3731,-224.474 chr09 15655415 . G A 16003.7 PASS AB=0.51065;ABP=4.86033;AC=14;AF=0.333333;AN=42;AO=959;CIGAR=1X;DP=3110;DPB=3110;DPRA=0.762175;EPP=2085.45;EPPR=4673.85;GTI=1;LEN=1;MEANALT=1;MQM=48.2565;MQMR=58.7717;NS=21;NUMALT=1;ODDS=6.4281;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34137;QR=76283;RO=2151;RPL=2;RPP=2068.12;RPPR=1834.69;RPR=957;RUN=1;SAF=2;SAP=2068.12;SAR=957;SRF=1749;SRP=1834.69;SRR=402;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:217:101,116:101:3620:116:4127:-303.752,0,-258.95 0/1:166:64,102:64:2279:102:3623:-274.009,0,-155.401 0/1:97:39,58:39:1373:58:2062:-154.577,0,-94.6664 0/1:147:75,72:75:2667:72:2579:-186.412,0,-196.025 0/1:385:179,206:179:6334:206:7329:-533.065,0,-454.255 0/1:105:40,65:40:1415:65:2332:-177.4,0,-96.0384 0/0:209:209,0:209:7409:0:0:0,-62.9153,-666.765 0/1:43:12,31:12:428:31:1103:-84.4577,0,-25.9145 0/0:455:455,0:455:16015:0:0:0,-136.969,-1438.74 0/0:39:39,0:39:1384:0:0:0,-11.7402,-124.859 0/1:8:7,1:7:252:1:36:-1.17481,0,-20.6207 0/1:25:14,11:14:504:11:379:-26.7618,0,-38.1723 0/0:210:210,0:210:7475:0:0:0,-63.2163,-672.796 0/0:138:138,0:138:4924:0:0:0,-41.5421,-443.304 0/1:175:55,120:55:1968:120:4228:-323.302,0,-124.715 0/1:161:104,57:104:3687:57:2043:-132.825,0,-283.372 0/1:185:127,58:127:4501:58:2084:-130.268,0,-349.262 0/1:83:50,33:50:1780:33:1175:-80.2375,0,-135.497 0/1:81:52,29:52:1856:29:1037:-68.2971,0,-142.934 0/0:112:112,0:112:3955:0:0:0,-33.7154,-355.953 0/0:69:69,0:69:2457:0:0:0,-20.7711,-219.705 chr09 15655489 . C T 44348.2 PASS AB=0.585202;ABP=115.498;AC=28;AF=0.666667;AN=42;AO=2183;CIGAR=1X;DP=2927;DPB=2927;DPRA=0;EPP=4743.33;EPPR=1618.59;GTI=0;LEN=1;MEANALT=1;MQM=50.9904;MQMR=46.2782;NS=21;NUMALT=1;ODDS=22.8716;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78121;QR=26624;RO=744;RPL=0;RPP=4743.33;RPPR=1618.59;RPR=2183;RUN=1;SAF=2183;SAP=4743.33;SAR=0;SRF=744;SRP=1618.59;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:51,76:51:1836:76:2721:-205.17,0,-125.126 0/1:112:46,66:46:1647:66:2376:-178.988,0,-113.195 0/1:210:104,106:104:3716:106:3793:-276.672,0,-268.028 0/1:136:40,96:40:1436:96:3456:-269.229,0,-86.5087 0/1:136:55,81:55:1971:81:2908:-219.797,0,-134.525 0/1:162:83,79:83:2968:79:2801:-200.87,0,-215.349 1/1:257:1,256:1:36:256:9139:-813.973,-73.8061,0 0/1:196:75,121:75:2688:121:4312:-326.529,0,-179.515 1/1:310:1,309:1:36:309:11069:-989.742,-89.721,0 1/1:32:0,32:0:0:32:1152:-103.253,-9.63296,0 0/1:16:11,5:11:381:5:180:-11.6655,0,-29.4855 0/1:43:22,21:22:788:21:756:-55.1337,0,-56.7846 1/1:193:1,192:1:36:192:6829:-607.72,-54.532,0 1/1:146:0,146:0:0:146:5236:-467.722,-43.9504,0 0/1:200:71,129:71:2552:129:4624:-354.304,0,-166.68 0/1:117:52,65:52:1847:65:2308:-172.316,0,-130.393 0/1:112:45,67:45:1607:67:2412:-182.716,0,-110.102 0/1:126:59,67:59:2115:67:2396:-176.135,0,-148.934 0/1:91:26,65:26:928:65:2329:-181.847,0,-55.7223 1/1:133:1,132:1:36:132:4736:-419.213,-36.4784,0 1/1:72:0,72:0:0:72:2588:-231.166,-21.6742,0 chr09 15655491 . G T 10867 PASS AB=0.412969;ABP=118.669;AC=14;AF=0.333333;AN=42;AO=729;CIGAR=1X;DP=2892;DPB=2892;DPRA=0.995213;EPP=1586.01;EPPR=4699.91;GTI=0;LEN=1;MEANALT=1;MQM=46.2963;MQMR=51.0282;NS=21;NUMALT=1;ODDS=25.6747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26091;QR=77214;RO=2163;RPL=0;RPP=1586.01;RPPR=4699.91;RPR=729;RUN=1;SAF=729;SAP=1586.01;SAR=0;SRF=2163;SRP=4699.91;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:77,50:77:2706:50:1792:-121.239,0,-203.969 0/1:108:62,46:62:2220:46:1637:-113.429,0,-166.362 0/1:207:104,103:104:3709:103:3664:-264.325,0,-269.654 0/1:133:95,38:95:3381:38:1368:-81.4868,0,-263.612 0/1:132:79,53:79:2814:53:1891:-128.623,0,-212.565 0/1:160:79,81:79:2805:81:2892:-209.254,0,-201.799 0/0:255:254,1:254:9100:1:36:0,-73.204,-810.275 0/1:193:120,73:120:4274:73:2620:-174.355,0,-324.102 0/0:306:306,0:306:10940:0:0:0,-92.1152,-981.935 0/0:33:33,0:33:1172:0:0:0,-9.93399,-105.068 0/1:16:5,11:5:180:11:396:-30.8128,0,-11.6655 0/1:41:20,21:20:720:21:752:-54.4185,0,-52.511 0/0:194:193,1:193:6878:1:36:0,-54.833,-611.971 0/0:144:144,0:144:5149:0:0:0,-43.3483,-460.092 0/1:197:125,72:125:4484:72:2592:-171.136,0,-342.64 0/1:114:64,50:64:2288:50:1783:-125.58,0,-171.442 0/1:110:68,42:68:2425:42:1504:-101.744,0,-184.492 0/1:128:69,59:69:2455:59:2124:-149.17,0,-181.083 0/1:92:65,27:65:2321:27:968:-58.9752,0,-180.744 0/0:132:131,1:131:4677:1:36:0,-36.1773,-413.694 0/0:70:70,0:70:2516:0:0:0,-21.0721,-224.759 chr09 15668929 . AAC AAA,GAA 24305.7 PASS AB=0.513043,0.486957;ABP=3.86001,3.86001;AC=27,15;AF=0.642857,0.357143;AN=42;AO=629,283;CIGAR=2M1X,1X1M1X;DP=912;DPB=912;DPRA=0,0.557143;EPP=3.78706,11.3662;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.85714,2;MQM=59.9046,58.8163;MQMR=0;NS=21;NUMALT=2;ODDS=4.39191;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22405,9906;QR=0;RO=0;RPL=2,0;RPP=1351.55,617.537;RPPR=0;RPR=627,283;RUN=1,1;SAF=309,158;SAP=3.42802,11.3662;SAR=320,125;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:39:0,20,19:0:0:20,19:707,667:-112.217,-54.6355,-48.6149,-57.934,0,-52.2144 1/2:35:0,18,17:0:0:18,17:648,608:-102.666,-49.7959,-44.3773,-53.2286,0,-48.1111 1/2:8:0,3,5:0:0:3,5:108,171:-23.0393,-14.2203,-13.3172,-9.17208,0,-7.66693 1/2:31:0,20,11:0:0:20,11:712,383:-89.5172,-31.4818,-25.4612,-58.3861,0,-55.0747 1/2:52:0,25,27:0:0:25,27:900,952:-151.253,-77.814,-70.2883,-73.7953,0,-65.6675 1/2:41:0,20,21:0:0:20,21:684,726:-114.823,-59.3108,-53.2902,-55.8559,0,-49.5342 1/1:56:0,55,1:0:0:55,1:1946,36:-175.029,-16.5567,0,-172.092,-13.2594,-171.791 1/2:40:0,19,21:0:0:19,21:684,730:-115.441,-59.6237,-53.9041,-56.1708,0,-49.8491 1/1:60:0,60,0:0:0:60,0:2148,0:-193.587,-18.0618,0,-193.587,-18.0618,-193.587 1/2:8:0,7,1:0:0:7,1:252,36:-23.8509,-3.2882,-1.18099,-20.9217,0,-20.6207 1/2:4:0,1,3:0:0:1,3:36,103:-11.6252,-8.70167,-8.40064,-3.27774,0,-2.37465 1/2:10:0,7,3:0:0:7,3:252,90:-28.0978,-7.49397,-5.38676,-20.9217,0,-20.0187 1/1:56:0,56,0:0:0:56,0:2008,0:-180.993,-16.8577,0,-180.993,-16.8577,-180.993 1/1:36:0,35,1:0:0:35,1:1237,36:-111.273,-10.5361,0,-108.335,-7.23881,-108.034 1/2:50:0,22,28:0:0:22,28:792,974:-144.156,-79.5273,-72.9046,-64.983,0,-56.5542 1/2:29:0,17,12:0:0:17,12:608,432:-85.1845,-35.6088,-30.4913,-49.9345,0,-46.3222 1/2:10:0,3,7:0:0:3,7:108,248:-29.3712,-20.5572,-19.6541,-9.17208,0,-7.06487 1/2:102:0,33,69:0:0:33,69:1166,2411:-291.213,-196.253,-186.319,-95.3122,0,-74.5412 1/2:116:0,80,36:0:0:80,36:2840,1267:-334.895,-103.493,-79.4104,-231.755,0,-220.918 1/1:35:0,34,1:0:0:34,1:1216,36:-109.386,-10.235,0,-106.448,-6.93778,-106.147 1/1:94:0,94,0:0:0:94,0:3353,0:-301.878,-28.2968,0,-301.878,-28.2968,-301.878 chr09 15668962 . ACCC GCCG,GCCA 23512.9 PASS AB=0.506969,0.487805;ABP=3.25242,3.75178;AC=27,15;AF=0.642857,0.357143;AN=42;AO=619,283;CIGAR=1X2M1X,1X2M1X;DP=906;DPB=906;DPRA=0,0.555821;EPP=4.86605,11.3662;EPPR=0;GTI=1;LEN=4,4;MEANALT=2.04762,2.16667;MQM=59.9192,58.8657;MQMR=0;NS=21;NUMALT=2;ODDS=4.49073;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21599,9856;QR=0;RO=0;RPL=619,283;RPP=1347.15,617.537;RPPR=0;RPR=0,0;RUN=1,1;SAF=298,158;SAP=4.86605,11.3662;SAR=321,125;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:38:0,19,19:0:0:19,19:656,658:-107.118,-53.8226,-48.103,-53.6412,0,-47.9216 1/2:35:0,18,17:0:0:18,17:643,592:-100.868,-48.4432,-43.0246,-52.7775,0,-47.66 1/2:7:0,3,4:0:0:3,4:103,144:-20.4657,-12.1095,-11.2064,-8.70651,0,-7.50239 1/2:30:0,20,10:0:0:20,10:683,357:-84.876,-29.4612,-23.4406,-55.7664,0,-52.7561 1/2:52:0,25,27:0:0:25,27:869,955:-148.729,-78.0805,-70.5547,-70.9984,0,-62.8706 1/2:41:0,19,21:0:0:19,21:655,724:-112.094,-58.8862,-53.1666,-53.3048,0,-46.9831 1/1:52:0,51,1:0:0:51,1:1790,36:-161.018,-15.3525,0,-158.081,-12.0553,-157.78 1/2:40:0,18,22:0:0:18,22:630,744:-111.889,-60.6267,-55.2082,-51.6065,0,-44.9838 1/1:62:0,61,0:0:0:61,0:2128,0:-191.438,-18.3628,0,-191.438,-18.3628,-191.438 1/2:8:0,7,1:0:0:7,1:245,34:-23.0348,-3.09214,-0.984934,-20.2833,0,-19.9822 1/2:4:0,1,3:0:0:1,3:36,108:-12.0867,-9.16724,-8.86621,-3.27774,0,-2.37465 1/2:10:0,7,3:0:0:7,3:249,98:-28.5535,-8.24055,-6.13334,-20.6482,0,-19.7452 1/1:56:0,56,0:0:0:56,0:1961,0:-176.763,-16.8577,0,-176.763,-16.8577,-176.763 1/1:36:0,35,1:0:0:35,1:1230,36:-110.643,-10.5361,0,-107.706,-7.23881,-107.405 1/2:49:0,20,28:0:0:20,28:698,960:-134.683,-77.9077,-71.8871,-56.763,0,-48.3342 1/2:29:0,17,12:0:0:17,12:592,431:-83.6521,-35.5183,-30.4008,-48.4883,0,-44.8759 1/2:10:0,3,7:0:0:3,7:102,238:-27.9179,-19.6445,-18.7414,-8.61329,0,-6.50608 1/2:104:0,33,70:0:0:33,70:1132,2435:-289.479,-197.574,-187.64,-91.8897,0,-70.8176 1/2:117:0,81,36:0:0:81,36:2805,1270:-331.724,-103.764,-79.3802,-228.311,0,-217.474 1/1:35:0,34,1:0:0:34,1:1188,36:-106.862,-10.235,0,-103.925,-6.93778,-103.624 1/1:91:0,91,0:0:0:91,0:3204,0:-288.498,-27.3937,0,-288.498,-27.3937,-288.498 chr09 15704003 . T C 27329.1 PASS AB=0.505789;ABP=3.41254;AC=27;AF=0.642857;AN=42;AO=1393;CIGAR=1X;DP=2086;DPB=2086;DPRA=20.81;EPP=3027.87;EPPR=1505.67;GTI=1;LEN=1;MEANALT=1.05;MQM=59.5248;MQMR=59.5506;NS=21;NUMALT=1;ODDS=8.12867;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49321;QR=24784;RO=692;RPL=0;RPP=3027.87;RPPR=1505.67;RPR=1393;RUN=1;SAF=1393;SAP=3027.87;SAR=0;SRF=692;SRP=1505.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:52,44:52:1872:44:1567:-112.37,0,-139.86 0/1:79:39,40:39:1404:40:1432:-105.372,0,-102.87 0/1:131:63,67:63:2260:67:2375:-174.514,0,-164.103 0/1:108:50,58:50:1783:58:2068:-153.827,0,-128.2 0/1:211:113,98:113:4056:98:3473:-249.217,0,-301.608 0/1:88:44,44:44:1572:44:1572:-115.256,0,-114.817 1/1:183:0,183:0:0:183:6492:-584.249,-55.0885,0 0/1:143:68,75:68:2425:75:2673:-197.736,0,-175.446 1/1:216:0,216:0:0:216:7611:-684.879,-65.0225,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.0435 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 1/1:63:0,63:0:0:63:2220:-200.038,-18.9649,0 1/1:91:1,90:1:36:90:3139:-279.052,-23.7955,0 0/1:176:79,97:79:2813:97:3451:-257.821,0,-200.413 0/1:73:38,35:38:1368:35:1229:-88.8839,0,-101.446 0/1:82:39,43:39:1404:43:1517:-112.136,0,-101.975 0/1:98:58,40:58:2071:40:1425:-98.8153,0,-157.138 0/1:83:31,52:31:1116:52:1820:-138.838,0,-75.7387 1/1:89:4,85:4:140:85:3028:-259.792,-13.8471,0 1/1:52:0,52:0:0:52:1833:-165.224,-15.6536,0 chr09 15704010 . T C 11321 PASS AB=0.489439;ABP=4.34039;AC=15;AF=0.357143;AN=42;AO=681;CIGAR=1X;DP=2098;DPB=2098;DPRA=0.93631;EPP=1473.11;EPPR=3028.09;GTI=1;LEN=1;MEANALT=1;MQM=59.5316;MQMR=59.4919;NS=21;NUMALT=1;ODDS=9.69142;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24274;QR=50589;RO=1417;RPL=1;RPP=1473.11;RPPR=3028.09;RPR=680;RUN=1;SAF=681;SAP=1481.78;SAR=0;SRF=1417;SRP=3079.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:45,48:45:1612:48:1699:-125.2,0,-117.32 0/1:83:43,40:43:1527:40:1432:-104.176,0,-112.625 0/1:127:68,59:68:2429:59:2089:-149.996,0,-180.633 0/1:110:58,52:58:2056:52:1859:-134.43,0,-152.137 0/1:214:102,112:102:3641:112:3989:-294.683,0,-263.182 0/1:86:43,43:43:1525:43:1548:-113.481,0,-111.628 0/0:186:186,0:186:6648:0:0:0,-55.9916,-598.278 0/1:141:73,68:73:2611:68:2436:-177.039,0,-192.75 0/0:219:219,0:219:7830:0:0:0,-65.9256,-704.561 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 1/1:5:0,5:0:0:5:166:-15.2418,-1.50515,0 0/1:15:7,8:7:248:8:273:-20.3847,0,-18.1487 0/0:64:64,0:64:2273:0:0:0,-19.2659,-204.812 0/0:108:107,1:107:3797:1:36:0,-28.913,-337.739 0/1:176:98,78:98:3504:78:2795:-198.794,0,-262.565 0/1:71:33,38:33:1180:38:1364:-101.688,0,-85.0926 0/1:79:41,38:41:1472:38:1351:-98.1082,0,-108.988 0/1:95:39,56:39:1396:56:2004:-152.021,0,-97.103 0/1:83:51,32:51:1820:32:1125:-76.5193,0,-139.068 0/0:87:84,3:84:3008:3:108:0,-16.1144,-260.837 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.136 chr09 16105583 . T C 27933.2 PASS AB=0.56655;ABP=46.9417;AC=28;AF=0.666667;AN=42;AO=1361;CIGAR=1X;DP=1857;DPB=1857;DPRA=0;EPP=2932.38;EPPR=1047.65;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9956;MQMR=59.9919;NS=21;NUMALT=1;ODDS=3.34795;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48591;QR=17661;RO=493;RPL=1358;RPP=2932.38;RPPR=1047.65;RPR=3;RUN=1;SAF=0;SAP=2958.38;SAR=1361;SRF=0;SRP=1073.55;SRR=493;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:54,87:54:1936:87:3099:-236.692,0,-132.071 0/1:50:29,21:29:1040:21:748:-52.5938,0,-78.8629 0/1:78:37,41:37:1324:41:1476:-109.656,0,-95.9818 0/1:97:47,49:47:1679:49:1752:-128.705,0,-122.138 0/1:195:70,125:70:2501:125:4448:-341.788,0,-166.64 0/1:79:26,53:26:932:53:1885:-146.145,0,-60.4175 1/1:136:0,136:0:0:136:4862:-437.732,-40.9401,0 0/1:90:37,53:37:1328:53:1904:-144.545,0,-92.7295 1/1:212:0,212:0:0:212:7551:-679.632,-63.8184,0 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/1:35:15,20:15:536:20:720:-54.5927,0,-38.0388 1/1:109:0,109:0:0:109:3862:-347.773,-32.8123,0 1/1:99:0,99:0:0:99:3548:-319.528,-29.802,0 0/1:111:60,51:60:2156:51:1828:-131.387,0,-160.893 0/1:89:31,58:31:1116:58:2072:-159.959,0,-73.96 0/1:84:45,38:45:1616:38:1356:-96.9952,0,-120.385 0/1:42:23,19:23:813:19:676:-48.5247,0,-60.8458 0/1:41:16,25:16:576:25:900:-68.9788,0,-39.8304 1/1:103:0,102:0:0:102:3644:-327.845,-30.7051,0 1/1:39:0,39:0:0:39:1400:-126.299,-11.7402,0 chr09 16133226 . CT TC 12407.8 PASS AB=0.470661;ABP=15.115;AC=14;AF=0.333333;AN=42;AO=766;CIGAR=2X;DP=2489;DPB=2489.5;DPRA=1.14408;EPP=1666.36;EPPR=3722.75;GTI=0;LEN=2;MEANALT=1.125;MQM=54.2963;MQMR=59.9738;NS=21;NUMALT=1;ODDS=8.97682;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=27277;QR=60769;RO=1717;RPL=0;RPP=1666.36;RPPR=3731.43;RPR=766;RUN=1;SAF=766;SAP=1666.36;SAR=0;SRF=1716;SRP=3722.75;SRR=1;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:155:94,61:94:3299:61:2143:-145.825,0,-250.468 0/1:113:55,58:55:1949:58:2076:-152.552,0,-141.668 0/1:93:54,39:54:1917:39:1391:-97.1586,0,-144.811 0/1:177:72,105:72:2558:105:3733:-282.087,0,-177.187 0/1:264:130,134:130:4568:134:4778:-349.376,0,-331.814 0/1:147:81,66:81:2867:66:2344:-166.193,0,-213.164 0/0:188:188,0:188:6649:0:0:0,-56.5936,-598.49 0/1:131:57,74:57:2014:74:2660:-199.147,0,-142.096 0/0:171:170,0:170:5991:0:0:0,-51.1751,-538.939 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.0522 0/1:10:6,4:6:216:4:144:-10.2896,0,-16.7802 0/1:29:22,7:22:788:7:239:-13.0932,0,-62.5151 0/0:199:198,1:198:7040:1:36:0,-56.3104,-630.068 0/0:82:82,0:82:2910:0:0:0,-24.6845,-262.129 0/1:143:83,56:83:2953:56:2010:-138.787,0,-223.8 0/1:106:54,52:54:1908:52:1858:-135.351,0,-140.087 0/1:115:68,46:68:2397:46:1625:-111.72,0,-181.308 0/1:68:31,37:31:1101:37:1317:-98.2432,0,-78.9294 0/1:68:45,23:45:1591:23:815:-53.023,0,-123.009 0/0:137:134,3:134:4761:3:108:0,-31.1763,-418.583 0/0:76:76,0:76:2684:0:0:0,-22.8783,-241.802 chr09 16133253 . GCA GCT,ACT 61256.5 PASS AB=0.51861,0.480769;ABP=7.85974,8.18843;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1683,779;CIGAR=2M1X,1X1M1X;DP=2470;DPB=2470;DPRA=0,1.15494;EPP=435.551,1608.84;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2.04762,2.1875;MQM=59.962,54.3633;MQMR=60;NS=21;NUMALT=2;ODDS=9.22879;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60269,27568;QR=28;RO=1;RPL=1131,769;RPP=435.551,1608.84;RPPR=5.18177;RPR=552,10;RUN=1,1;SAF=1683,779;SAP=3657.6,1694.59;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:152:0,91,61:0:0:91,61:3256,2141:-439.427,-173.913,-146.519,-265.867,0,-247.504 1/2:112:0,53,59:0:0:53,59:1904,2088:-325.232,-169.905,-153.95,-155.683,0,-137.922 1/2:93:0,54,39:0:0:54,39:1931,1387:-270.514,-113.059,-96.8034,-157.81,0,-146.07 1/2:174:0,69,105:0:0:69,105:2484,3764:-509.198,-306.515,-285.744,-203.042,0,-171.433 1/2:267:0,130,137:0:0:130,137:4660,4821:-771.826,-391.859,-352.725,-380.321,0,-339.08 1/2:146:0,80,66:0:0:80,66:2822,2338:-420.073,-190.399,-166.317,-230.027,0,-210.159 1/1:187:0,185,0:0:0:185,0:6627,0:-596.206,-55.6906,0,-596.206,-55.6906,-596.206 1/2:133:0,57,76:0:0:57,76:2040,2670:-383.216,-216.857,-199.699,-166.713,0,-143.835 1/1:168:0,168,0:0:0:168,0:6027,0:-542.532,-50.573,0,-542.532,-50.573,-542.532 1/1:15:0,15,0:0:0:15,0:536,0:-48.5748,-4.51545,0,-48.5748,-4.51545,-48.5748 1/2:10:0,6,4:0:0:6,4:216,135:-28.9058,-11.2677,-9.46149,-17.9843,0,-16.7802 1/2:27:0,20,7:0:0:20,7:712,248:-78.5677,-20.536,-14.5154,-58.3861,0,-56.2788 1/1:194:0,192,1:0:0:192,1:6891,36:-619.895,-57.7978,0,-616.961,-54.8639,-616.66 1/1:79:0,77,0:0:0:77,0:2760,0:-248.276,-23.1793,0,-248.276,-23.1793,-248.276 1/2:141:0,81,60:0:0:81,60:2904,2130:-410.587,-173.731,-149.348,-237.212,0,-219.15 1/2:106:0,51,54:0:0:51,54:1828,1922:-305.506,-156.415,-141.062,-149.089,0,-132.833 1/2:113:0,67,46:0:0:67,46:2400,1619:-327.743,-132.011,-111.842,-196.087,0,-182.239 1/2:68:0,31,37:0:0:31,37:1108,1299:-196.303,-105.958,-96.6264,-90.6991,0,-79.561 1/2:70:0,46,24:0:0:46,24:1643,862:-204.432,-70.4793,-56.6319,-134.31,0,-127.086 1/1:138:1,133,3:1:28:133,3:4772,108:-426.793,-37.8287,0,-418.292,-31.1781,-419.607 1/1:77:0,77,0:0:0:77,0:2748,0:-247.562,-23.1793,0,-247.562,-23.1793,-247.562 chr09 16200925 . A T 12333 PASS AB=0.464901;ABP=20.3874;AC=14;AF=0.333333;AN=42;AO=755;CIGAR=1X;DP=2378;DPB=2378;DPRA=1.07692;EPP=1642.47;EPPR=3516.45;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.9656;MQMR=59.9975;NS=21;NUMALT=1;ODDS=9.2458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26917;QR=57880;RO=1618;RPL=0;RPP=1642.47;RPPR=3516.45;RPR=755;RUN=1;SAF=0;SAP=1642.47;SAR=755;SRF=0;SRP=3516.45;SRR=1618;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:66,75:66:2350:75:2656:-196.84,0,-169.313 0/1:103:49,54:49:1741:54:1906:-140.809,0,-125.966 0/1:113:61,52:61:2181:52:1864:-134.023,0,-162.538 0/1:177:81,96:81:2912:96:3415:-254.245,0,-209.032 0/1:210:125,85:125:4448:85:3020:-208.814,0,-337.275 0/1:66:31,35:31:1089:35:1256:-93.4773,0,-78.4491 0/0:169:169,0:169:6055:0:0:0,-50.8741,-545.052 0/1:95:58,35:58:2080:35:1241:-83.6372,0,-159.115 0/0:137:137,0:137:4890:0:0:0,-41.2411,-440.252 0/0:40:40,0:40:1427:0:0:0,-12.0412,-128.727 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:39:22,17:22:792:17:612:-43.6733,0,-59.8655 0/0:119:119,0:119:4264:0:0:0,-35.8226,-383.938 0/0:127:127,0:127:4560:0:0:0,-38.2308,-410.565 0/1:229:116,113:116:4157:113:4060:-296.65,0,-305.375 0/1:73:41,30:41:1476:30:1076:-75.42,0,-111.403 0/1:154:80,74:80:2860:74:2648:-192.208,0,-211.279 0/1:146:79,67:79:2802:67:2383:-170.777,0,-208.47 0/1:72:52,19:52:1864:19:672:-39.0742,0,-146.306 0/0:102:102,0:102:3664:0:0:0,-30.7051,-329.963 0/0:60:60,0:60:2160:0:0:0,-18.0618,-194.664 chr09 16227448 . GGAAGC TGAAGA,TGAAAA 40559.7 PASS AB=0.426866,0.569403;ABP=65.2635,59.0732;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1215,767;CIGAR=1X4M1X,1X3M2X;DP=1990;DPB=1990;DPRA=0,0.923832;EPP=2632.67,1668.53;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.09524,2.3125;MQM=59.9663,54.5724;MQMR=0;NS=21;NUMALT=2;ODDS=6.97048;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42851,26938;QR=0;RO=0;RPL=1,0;RPP=2632.67,1668.53;RPPR=0;RPR=1214,767;RUN=1,1;SAF=1215,767;SAP=2641.35,1668.53;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:0,27,55:0:0:27,55:968,1938:-236.656,-157.703,-149.575,-78.9883,0,-62.4316 1/2:60:0,26,34:0:0:26,34:916,1199:-172.13,-97.5517,-89.7249,-74.9297,0,-64.6947 1/2:149:0,48,100:0:0:48,100:1716,3536:-426.974,-287.053,-272.604,-139.926,0,-109.823 1/2:97:0,45,52:0:0:45,52:1596,1817:-277.954,-147.924,-134.377,-130.382,0,-114.728 1/2:210:0,107,103:0:0:107,103:3723,3644:-599.138,-296.423,-264.213,-303.066,0,-272.059 1/2:89:0,39,50:0:0:39,50:1389,1754:-255.919,-142.705,-130.965,-113.567,0,-98.5153 1/1:121:0,118,3:0:0:118,3:4182,108:-376.204,-35.5215,0,-367.416,-26.3748,-366.513 1/2:78:0,26,52:0:0:26,52:913,1823:-222.587,-148.28,-140.453,-74.6572,0,-59.0037 1/1:142:0,142,0:0:0:142,0:5046,0:-454.284,-42.7463,0,-454.284,-42.7463,-454.284 1/1:26:0,24,1:0:0:24,1:826,33:-74.3069,-7.22472,0,-71.6416,-4.57393,-71.3406 1/2:7:0,3,4:0:0:3,4:104,144:-20.5239,-12.076,-11.1729,-8.79971,0,-7.59559 1/2:31:0,8,23:0:0:8,23:288,815:-90.0718,-66.5707,-64.1625,-23.8592,0,-16.9355 1/1:52:0,52,0:0:0:52,0:1856,0:-167.32,-15.6536,0,-167.32,-15.6536,-167.32 1/1:123:0,122,0:0:0:122,0:4264,0:-383.578,-36.7257,0,-383.578,-36.7257,-383.578 1/2:181:0,70,108:0:0:70,108:2441,3731:-500.823,-302.3,-281.227,-198.542,0,-166.031 1/2:65:0,27,38:0:0:27,38:907,1316:-180.611,-107.146,-99.0182,-73.8052,0,-62.3661 1/2:76:0,31,45:0:0:31,45:1092,1590:-218.689,-129.784,-120.452,-89.2576,0,-75.7113 1/2:147:0,71,76:0:0:71,76:2536,2683:-425.009,-218.245,-196.872,-207.118,0,-184.24 1/2:67:0,44,23:0:0:44,23:1550,807:-192.169,-65.9802,-52.7349,-126.54,0,-119.616 1/1:129:0,128,0:0:0:128,0:4506,0:-405.428,-38.5318,0,-405.428,-38.5318,-405.428 1/1:57:0,57,0:0:0:57,0:2032,0:-183.153,-17.1587,0,-183.153,-17.1587,-183.153 chr09 16227467 . T C 12965.5 PASS AB=0.558845;ABP=43.6446;AC=14;AF=0.333333;AN=42;AO=759;CIGAR=1X;DP=2031;DPB=2031;DPRA=0.88956;EPP=1651.16;EPPR=2756.44;GTI=0;LEN=1;MEANALT=1;MQM=54.5837;MQMR=59.941;NS=21;NUMALT=1;ODDS=9.46993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26946;QR=45440;RO=1272;RPL=759;RPP=1651.16;RPPR=2756.44;RPR=0;RUN=1;SAF=759;SAP=1651.16;SAR=0;SRF=1272;SRP=2765.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:30,54:30:1071:54:1914:-147.128,0,-71.4151 0/1:60:27,33:27:960:33:1176:-87.649,0,-68.6545 0/1:153:53,100:53:1900:100:3583:-275.514,0,-125.218 0/1:98:48,50:48:1724:50:1787:-131.33,0,-125.942 0/1:212:110,102:110:3940:102:3599:-259.729,0,-290.974 0/1:91:41,50:41:1468:50:1783:-132.818,0,-105.022 0/0:125:122,3:122:4352:3:108:0,-27.5789,-381.804 0/1:77:27,50:27:963:50:1769:-135.839,0,-63.8066 0/0:144:144,0:144:5172:0:0:0,-43.3483,-465.616 0/0:27:26,1:26:923:1:36:0,-4.53464,-79.7936 0/1:6:2,4:2:72:4:144:-11.474,0,-5.03054 0/1:33:10,23:10:360:23:824:-64.3652,0,-22.8103 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.353 0/0:132:132,0:132:4686:0:0:0,-39.736,-421.843 0/1:180:70,110:70:2498:110:3895:-295.586,0,-170.886 0/1:68:30,38:30:1071:38:1331:-99.276,0,-76.2316 0/1:75:31,44:31:1116:44:1560:-118.056,0,-78.1744 0/1:147:73,74:73:2607:74:2617:-190.925,0,-190.591 0/1:67:44,23:44:1572:23:820:-53.9047,0,-121.6 0/0:136:136,0:136:4842:0:0:0,-40.9401,-435.616 0/0:60:60,0:60:2131:0:0:0,-18.0618,-192.058 chr09 16240789 . GCTATACT GCTGTACA,GCTGTACT 39771.4 PASS AB=0.46648,0.522346;ABP=16.9854,9.22144;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1192,755;CIGAR=3M1X3M1X,3M1X4M;DP=1973;DPB=1974;DPRA=12.2812,1.53904;EPP=2591.41,1642.47;EPPR=0;GTI=1;LEN=8,1;MEANALT=2.75,3;MQM=59.7181,59.9536;MQMR=0;NS=21;NUMALT=2;ODDS=3.73476;PAIRED=0,0;PAIREDR=0;PAO=1,0.666667;PQA=34,11.3333;PQR=11.3333;PRO=0.666667;QA=41926,26887;QR=0;RO=0;RPL=0,0;RPP=2591.41,1642.47;RPPR=0;RPR=1192,755;RUN=1,1;SAF=0,0;SAP=2591.41,1642.47;SAR=1192,755;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:91:0,46,45:0:0:46,45:1606,1612:-262.444,-131.824,-117.976,-130.974,0,-117.428 1/2:83:0,36,46:0:0:36,46:1276,1656:-239.191,-135.24,-124.403,-104.065,0,-90.2175 1/2:109:0,58,51:0:0:58,51:2024,1813:-312.715,-148.097,-130.637,-164.971,0,-149.618 1/2:106:0,39,67:0:0:39,67:1373,2393:-307.131,-195.386,-183.646,-112.099,0,-91.93 1/2:172:0,73,95:0:0:73,95:2578,3392:-486.536,-276.596,-254.621,-209.991,0,-181.393 1/2:45:0,22,23:0:0:22,23:781,824:-131.194,-67.5596,-60.937,-63.9908,0,-57.0671 1/1:109:0,105,1:0:0:105,1:3666,36:-329.788,-31.6082,0,-326.851,-28.6665,-326.55 1/2:141:0,46,94:0:0:46,94:1609,3364:-405.132,-274.32,-260.472,-130.804,0,-102.507 1/1:93:0,91,0:0:0:91,0:3220,0:-289.671,-27.3937,0,-289.671,-27.3937,-289.671 1/1:21:0,21,0:0:0:21,0:730,0:-65.8572,-6.32163,0,-65.8572,-6.32163,-65.8572 2/2:8:0,0,5:0:0:0,5:0,171:-15.3766,-15.3766,-15.3766,-1.50515,-1.50515,0 1/2:43:0,16,27:0:0:16,27:563,953:-123.777,-77.9555,-73.139,-46.1739,0,-38.0461 1/1:58:0,58,0:0:0:58,0:2025,0:-182.502,-17.4597,0,-182.502,-17.4597,-182.502 1/1:91:0,90,1:0:0:90,1:3172,27:-285.373,-27.0927,0,-283.246,-25.0252,-282.945 1/2:212:0,110,101:0:0:110,101:3873,3582:-607.239,-291.946,-258.832,-315.444,0,-285.04 1/2:88:0,39,47:0:0:39,47:1387,1665:-248.669,-135.637,-123.897,-113.036,0,-98.8878 1/2:93:0,34,55:0:0:34,55:1211,1948:-257.407,-158.701,-148.466,-98.7247,0,-82.168 1/2:178:0,99,77:0:0:99,77:3480,2744:-506.899,-223.664,-193.862,-283.229,0,-260.05 1/2:71:0,50,20:0:0:50,20:1771,707:-201.821,-57.5749,-42.5234,-144.241,0,-138.22 1/1:112:0,110,0:0:0:110,0:3882,0:-349.21,-33.1133,0,-349.21,-33.1133,-349.21 1/1:49:0,49,0:0:0:49,0:1699,0:-153.181,-14.7505,0,-153.181,-14.7505,-153.181 chr09 16325003 . ACTCA ACTCT,TCTCT 46487.3 PASS AB=0.47128,0.523875;ABP=13.3627,10.1649;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1475,761;CIGAR=4M1X,1X3M1X;DP=2246;DPB=2249;DPRA=0,0.936388;EPP=3205.93,1655.5;EPPR=7.35324;GTI=0;LEN=1,5;MEANALT=2.09524,2.375;MQM=59.9776,59.6347;MQMR=60;NS=21;NUMALT=2;ODDS=8.23946;PAIRED=0,0;PAIREDR=0;PAO=6.5,8.5;PQA=232,304;PQR=0;PRO=0;QA=52406,26859;QR=51;RO=2;RPL=1475,761;RPP=3205.93,1655.5;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=1475,761;SAP=3205.93,1655.5;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:90:0,44,46:0:0:44,46:1569,1639:-261.723,-133.826,-120.581,-128.137,0,-114.289 1/2:119:0,54,64:0:0:54,64:1909,2259:-339.119,-183.643,-167.388,-155.234,0,-135.968 1/2:170:0,76,94:0:0:76,94:2727,3326:-493.266,-270.829,-247.951,-222.375,0,-194.078 1/2:165:0,68,95:0:0:68,95:2440,3324:-469.398,-270.368,-249.898,-199.003,0,-170.405 1/2:112:0,43,69:0:0:43,69:1533,2470:-326.734,-201.774,-188.83,-125.317,0,-104.546 1/2:160:0,78,82:0:0:78,82:2776,2894:-462.235,-235.991,-212.51,-226.599,0,-201.915 1/1:190:0,190,0:0:0:190,0:6788,0:-610.93,-57.1957,0,-610.93,-57.1957,-610.93 1/2:110:0,52,58:0:0:52,58:1864,2037:-318.141,-166.11,-150.456,-152.386,0,-134.926 1/1:194:0,194,0:0:0:194,0:6881,0:-619.36,-58.3998,0,-619.36,-58.3998,-619.36 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/2:7:0,5,2:0:0:5,2:176,72:-20.557,-6.23466,-4.72951,-14.6799,0,-14.0778 1/2:43:0,22,21:0:0:22,21:788,739:-124.773,-60.5058,-53.8832,-64.6221,0,-58.3005 1/1:121:0,121,0:0:0:121,0:4293,0:-386.484,-36.4246,0,-386.484,-36.4246,-386.484 1/1:132:1,129,1:1:26:129,1:4481,30:-400.834,-36.8091,0,-398.737,-36.4293,-400.474 1/2:148:1,85,62:1:25:85,62:3004,2180:-419.943,-175.595,-151.955,-242.802,0,-226.086 1/2:106:0,54,49:0:0:54,49:1931,1731:-298.429,-140.973,-124.718,-157.46,0,-142.71 1/2:102:0,44,58:0:0:44,58:1584,2038:-295.479,-166.229,-152.984,-129.606,0,-112.146 1/2:52:0,24,28:0:0:24,28:843,990:-149.596,-80.9851,-73.7604,-68.9633,0,-60.5344 1/2:61:0,32,29:0:0:32,29:1140,1023:-176.571,-83.6495,-74.0165,-93.2762,0,-84.5464 1/1:107:0,104,3:0:0:104,3:3682,107:-331.225,-31.3071,0,-322.502,-22.228,-321.599 1/1:44:0,43,0:0:0:43,0:1529,0:-137.678,-12.9443,0,-137.678,-12.9443,-137.678 chr09 16325041 . AA GG,AG 45960 PASS AB=0.460733,0.53534;ABP=23.4744,19.5863;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1432,821;CIGAR=2X,1M1X;DP=2263;DPB=2263.5;DPRA=0,1.04777;EPP=3112.56,1785.79;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.2381,2.47059;MQM=59.963,59.9732;MQMR=60;NS=21;NUMALT=2;ODDS=11.5483;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=49234,29000;QR=36;RO=1;RPL=16,1;RPP=2975.14,1777.11;RPPR=5.18177;RPR=1416,820;RUN=1,1;SAF=16,1;SAP=2975.14,1777.11;SAR=1416,820;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:54:0,21,32:0:0:21,32:677,1128:-146.386,-91.8324,-85.5108,-54.5291,0,-44.8961 1/2:96:0,49,47:0:0:49,47:1698,1647:-272.312,-134.307,-119.557,-138.295,0,-124.147 1/2:135:1,64,70:1:36:64,70:2163,2492:-375.184,-200.164,-183.836,-172.37,0,-154.236 1/2:112:0,46,66:0:0:46,66:1596,2335:-320.27,-190.541,-176.693,-130.079,0,-110.211 1/2:176:0,85,90:0:0:85,90:2915,3196:-497.062,-260.41,-234.823,-236.641,0,-209.548 1/2:73:0,31,42:0:0:31,42:1077,1487:-209.035,-121.481,-112.149,-87.9051,0,-75.2618 1/1:151:0,150,0:0:0:150,0:5145,0:-462.846,-45.1545,0,-462.846,-45.1545,-462.846 1/2:93:0,38,55:0:0:38,55:1328,1911:-263.738,-155.707,-144.268,-108.38,0,-91.8232 1/1:190:0,190,0:0:0:190,0:6512,0:-586.174,-57.1957,0,-586.174,-57.1957,-586.174 1/1:19:0,19,0:0:0:19,0:664,0:-60.0835,-5.71957,0,-60.0835,-5.71957,-60.0835 1/2:12:0,8,4:0:0:8,4:286,144:-35.4277,-12.1095,-9.70126,-23.6772,0,-22.4731 1/2:32:0,17,15:0:0:17,15:570,504:-87.3256,-41.1628,-36.0453,-46.4984,0,-41.9829 1/1:108:0,106,1:0:0:106,1:3635,36:-327.05,-31.9092,0,-324.112,-28.9168,-323.811 1/1:119:0,116,1:0:0:116,1:4030,36:-362.637,-34.9195,0,-359.699,-31.9303,-359.398 1/2:199:0,74,124:0:0:74,124:2526,4374:-561.245,-356.278,-334.002,-205.08,0,-167.752 1/2:112:0,42,68:0:0:42,68:1467,2400:-314.81,-195.479,-182.836,-119.374,0,-98.9038 1/2:121:0,50,71:0:0:50,71:1744,2512:-346.798,-204.958,-189.906,-142.191,0,-120.818 1/2:235:0,132,103:0:0:132,103:4534,3667:-667.38,-299.229,-259.493,-368.501,0,-337.495 1/2:78:0,47,31:0:0:47,31:1621,1095:-221.203,-89.5272,-75.3788,-132.025,0,-122.693 1/1:93:0,92,1:0:0:92,1:3141,36:-282.558,-27.6948,0,-279.62,-24.3975,-279.319 1/1:55:0,55,0:0:0:55,0:1905,0:-171.655,-16.5567,0,-171.655,-16.5567,-171.655 chr09 16430813 . G T 13261.7 PASS AB=0.694336;ABP=338.918;AC=15;AF=0.357143;AN=42;AO=714;CIGAR=1X;DP=1336;DPB=1336;DPRA=1.43525;EPP=1476.25;EPPR=1351.49;GTI=2;LEN=1;MEANALT=1.05556;MQM=59.9748;MQMR=60;NS=21;NUMALT=1;ODDS=1.68234;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25461;QR=22174;RO=621;RPL=9;RPP=1476.25;RPPR=1351.49;RPR=705;RUN=1;SAF=714;SAP=1553.44;SAR=0;SRF=621;SRP=1351.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:20,64:20:720:64:2276:-179.816,0,-39.8423 0/1:66:25,41:25:892:41:1453:-111.196,0,-60.7317 0/1:51:15,36:15:540:36:1285:-100.6,0,-33.584 0/1:120:26,94:26:936:94:3319:-262.803,0,-48.4359 0/1:125:19,106:19:680:106:3802:-304.662,0,-23.9004 0/1:159:49,110:49:1741:110:3918:-304.95,0,-109.109 0/0:66:65,1:65:2316:1:36:0,-16.2697,-205.103 0/1:64:18,45:18:640:45:1616:-126.552,0,-38.7468 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:25:11,14:11:396:14:496:-37.4485,0,-28.457 0/0:56:55,1:55:1968:1:36:0,-13.2594,-173.797 0/0:51:50,1:50:1792:1:36:0,-11.7543,-157.964 0/1:110:34,76:34:1216:76:2713:-211.299,0,-76.6333 0/1:33:10,23:10:352:23:828:-64.9101,0,-22.0842 0/1:45:7,38:7:252:38:1359:-109.064,0,-9.48261 0/1:67:31,36:31:1096:36:1292:-96.4148,0,-78.7809 0/1:63:41,22:41:1449:22:780:-51.5581,0,-111.739 0/0:48:48,0:48:1712:0:0:0,-14.4494,-154.366 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.876 chr09 16491709 . ATTTTATTTTATTTTTCTG ATTTTTATTTTATTTTTCTG,ATTTATATTTTATTTTTTTTCTG 17188.6 PASS AB=0.554409,0.440901;ABP=30.4206,35.3502;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1642,475;CIGAR=1M1I18M,4M1I7M3I8M;DP=2129;DPB=2315.84;DPRA=0,0.942468;EPP=3568.57,1034.46;EPPR=0;GTI=4;LEN=1,23;MEANALT=2.19048,2.46154;MQM=24.3143,21.9916;MQMR=0;NS=21;NUMALT=2;ODDS=0.774337;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39840,10426;QR=0;RO=0;RPL=0,0;RPP=3568.57,1034.46;RPPR=0;RPR=1642,475;RUN=1,1;SAF=0,0;SAP=3568.57,1034.46;SAR=1642,475;SRF=0;SRP=0;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:175:0,82,93:0:0:82,93:1994,2044:-263.928,-131.158,-106.473,-132.972,0,-104.976 1/2:128:0,63,65:0:0:63,65:1518,1426:-192.388,-91.5185,-72.5536,-101.07,0,-81.5031 1/2:119:0,87,31:0:0:87,31:2106,681:-183.448,-43.4786,-17.289,-139.814,0,-130.482 1/2:132:0,75,57:0:0:75,57:1819,1252:-201.305,-80.4238,-57.8466,-121.081,0,-103.923 1/1:222:0,216,5:0:0:216,5:5247,110:-414.031,-65.0225,0,-406.985,-57.9717,-405.48 1/1:75:0,74,0:0:0:74,0:1782,0:-140.633,-22.2762,0,-140.633,-22.2762,-140.633 1/2:138:0,78,59:0:0:78,59:1907,1294:-210.014,-82.9278,-59.4475,-127.067,0,-109.306 1/2:101:0,58,43:0:0:58,43:1421,944:-155.465,-60.6939,-43.2341,-94.972,0,-82.0277 1/2:127:0,72,53:0:0:72,53:1754,1164:-191.292,-74.5486,-52.8744,-116.705,0,-100.751 1/2:26:0,13,13:0:0:13,13:316,285:-39.4886,-18.4628,-14.5494,-21.2271,0,-17.3137 1/1:12:0,12,0:0:0:12,0:293,0:-23.3416,-3.61236,0,-23.3416,-3.61236,-23.3416 1/2:4:0,3,1:0:0:3,1:74,22:-6.56541,-1.59931,-0.696222,-5.16278,0,-4.86175 1/2:65:0,28,37:0:0:28,37:673,811:-96.9164,-52.1906,-43.7617,-44.9276,0,-33.7895 1/1:121:0,121,0:0:0:121,0:2936,0:-232.096,-36.4246,0,-232.096,-36.4246,-232.096 1/1:209:0,206,0:0:0:206,0:5019,0:-396.864,-62.0122,0,-396.864,-62.0122,-396.864 1/1:95:0,94,0:0:0:94,0:2276,0:-179.577,-28.2968,0,-179.577,-28.2968,-179.577 1/1:198:0,197,0:0:0:197,0:4756,0:-375.042,-59.3029,0,-375.042,-59.3029,-375.042 1/2:36:0,21,14:0:0:21,14:512,305:-53.4522,-19.3593,-13.0377,-33.9612,0,-29.7468 1/2:15:0,11,4:0:0:11,4:268,88:-23.6808,-5.82715,-2.51582,-18.05,0,-16.8459 1/1:106:0,106,0:0:0:106,0:2561,0:-202.539,-31.9092,0,-202.539,-31.9092,-202.539 1/1:25:0,25,0:0:0:25,0:608,0:-48.1783,-7.52575,0,-48.1783,-7.52575,-48.1783 chr09 16647022 . G A 8620.55 PASS AB=0.490178;ABP=3.90611;AC=14;AF=0.333333;AN=42;AO=525;CIGAR=1X;DP=1590;DPB=1590;DPRA=1.17037;EPP=1143.03;EPPR=2313.46;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9848;MQMR=59.9944;NS=21;NUMALT=1;ODDS=28.3542;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18648;QR=37956;RO=1064;RPL=0;RPP=1143.03;RPPR=2313.46;RPR=525;RUN=1;SAF=525;SAP=1143.03;SAR=0;SRF=1064;SRP=2313.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:38,39:38:1349:39:1400:-103.12,0,-98.529 0/1:87:29,58:29:1044:58:2021:-155.968,0,-68.0852 0/1:50:22,28:22:788:28:996:-74.9034,0,-56.1933 0/1:57:23,34:23:820:34:1196:-90.7847,0,-56.9638 0/1:154:92,61:92:3285:61:2176:-149.728,0,-249.49 0/1:101:47,54:47:1688:54:1928:-143.393,0,-121.803 0/0:99:99,0:99:3522:0:0:0,-29.802,-317.188 0/1:68:35,33:35:1252:33:1169:-85.0452,0,-92.515 0/0:54:54,0:54:1905:0:0:0,-16.2556,-171.726 0/0:36:36,0:36:1266:0:0:0,-10.8371,-114.239 0/1:20:12,8:12:432:8:288:-20.2468,0,-33.2006 0/1:32:17,15:17:608:15:536:-38.9419,0,-45.4191 0/0:94:94,0:94:3360:0:0:0,-28.2968,-302.616 0/0:78:78,0:78:2784:0:0:0,-23.4803,-250.801 0/1:141:77,64:77:2740:64:2279:-162.925,0,-204.398 0/1:45:25,20:25:877:20:720:-51.5824,0,-65.6985 0/1:62:23,39:23:824:39:1389:-106.643,0,-55.8195 0/1:109:58,51:58:2075:51:1832:-132.349,0,-154.208 0/1:66:46,20:46:1652:20:682:-41.8261,0,-129.1 0/0:116:115,1:115:4101:1:36:0,-31.3212,-365.677 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 chr09 16647073 . A G 29619.1 PASS AB=0.496063;ABP=3.36936;AC=14;AF=0.333333;AN=42;AO=1327;CIGAR=1X;DP=3914;DPB=3914;DPRA=1.30753;EPP=2884.55;EPPR=5603.25;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=42.2785;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46981;QR=92495;RO=2587;RPL=511;RPP=155.234;RPPR=192.395;RPR=816;RUN=1;SAF=511;SAP=155.234;SAR=816;SRF=1054;SRP=195.598;SRR=1533;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:183:89,94:89:3196:94:3342:-245.909,0,-232.774 0/1:178:78,100:78:2787:100:3529:-264.237,0,-197.487 0/1:127:74,53:74:2637:53:1863:-129.715,0,-199.345 0/1:232:110,122:110:3912:122:4340:-320.937,0,-282.434 0/1:322:171,151:171:6123:151:5358:-385.423,0,-454.238 0/1:366:171,195:171:6139:195:6925:-513.141,0,-442.43 0/0:215:215,0:215:7683:0:0:0,-64.7214,-691.503 0/1:191:92,99:92:3304:99:3485:-256.366,0,-240.081 0/0:195:195,0:195:6962:0:0:0,-58.7008,-626.643 0/0:53:53,0:53:1900:0:0:0,-15.9546,-171.278 0/1:26:12,14:12:428:14:504:-37.8713,0,-31.032 0/1:92:45,47:45:1616:47:1671:-122.982,0,-118.035 0/0:230:229,1:229:8157:1:36:0,-65.6386,-730.548 0/0:194:194,0:194:6924:0:0:0,-58.3998,-623.227 0/1:317:156,161:156:5585:161:5721:-419.582,0,-407.344 0/1:148:76,72:76:2736:72:2546:-184.838,0,-201.929 0/1:158:68,90:68:2423:90:3164:-237.421,0,-170.763 0/1:191:106,85:106:3787:85:3009:-213.545,0,-283.532 0/1:136:96,40:96:3432:40:1389:-84.3621,0,-268.154 0/0:262:259,3:259:9261:3:99:0,-69.6333,-824.221 0/0:98:98,0:98:3503:0:0:0,-29.5009,-315.48 chr09 17032802 . GTG TTT,TTG 16571.2 PASS AB=0.470588,0.529412;ABP=6.45911,6.45911;AC=28,14;AF=0.666667,0.333333;AN=42;AO=538,243;CIGAR=1X1M1X,1X2M;DP=782;DPB=782;DPRA=0,0.710526;EPP=1162.59,522.028;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.71429,2;MQM=59.9721,60;MQMR=0;NS=21;NUMALT=2;ODDS=8.30933;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19147,8706;QR=0;RO=0;RPL=1,1;RPP=1162.59,522.028;RPPR=0;RPR=537,242;RUN=1,1;SAF=0,0;SAP=1171.26,530.678;SAR=538,243;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,13,42:0:0:13,42:466,1508:-161.377,-123.371,-119.458,-38.3638,0,-25.7205 1/2:7:0,3,4:0:0:3,4:108,144:-20.9217,-12.1095,-11.2064,-9.17208,0,-7.96796 1/2:29:0,21,8:0:0:21,8:756,288:-85.5449,-23.8592,-17.5375,-62.0456,0,-59.6374 1/2:13:0,7,6:0:0:7,6:250,216:-38.3653,-17.9843,-15.8771,-20.7395,0,-18.9333 1/2:82:0,46,36:0:0:46,36:1640,1296:-239.789,-106.107,-92.2595,-134.041,0,-123.204 1/2:37:0,16,21:0:0:16,21:576,752:-108.684,-61.6846,-56.8681,-47.3585,0,-41.0369 1/1:81:0,81,0:0:0:81,0:2858,0:-257.452,-24.3834,0,-257.452,-24.3834,-257.452 1/2:40:0,14,26:0:0:14,26:488,932:-116.055,-76.3721,-72.1577,-40.0349,0,-32.2081 1/1:92:0,92,0:0:0:92,0:3280,0:-295.42,-27.6948,0,-295.42,-27.6948,-295.42 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:6:0,2,4:0:0:2,4:72,144:-17.9843,-12.1095,-11.5074,-6.23466,0,-5.03054 1/2:12:0,5,7:0:0:5,7:178,252:-35.4277,-20.9217,-19.4166,-14.8635,0,-12.7563 1/1:58:0,57,0:0:0:57,0:2022,0:-181.912,-17.1587,0,-181.912,-17.1587,-181.912 1/1:32:0,32,0:0:0:32,0:1127,0:-101.737,-9.63296,0,-101.737,-9.63296,-101.737 1/2:78:0,37,41:0:0:37,41:1323,1446:-225.968,-118.09,-106.952,-108.234,0,-95.8914 1/2:32:0,16,16:0:0:16,16:574,576:-94.1771,-47.3585,-42.542,-47.1778,0,-42.3614 1/2:23:0,12,11:0:0:12,11:432,396:-67.9204,-32.6714,-29.0591,-35.6088,0,-32.2975 1/2:24:0,8,16:0:0:8,16:288,576:-70.8578,-47.3585,-44.9503,-23.8592,0,-19.0427 1/2:21:0,16,5:0:0:16,5:554,180:-60.0593,-15.0469,-10.2304,-45.369,0,-43.8638 1/1:30:0,30,0:0:0:30,0:1080,0:-97.5132,-9.0309,0,-97.5132,-9.0309,-97.5132 1/1:26:0,26,0:0:0:26,0:931,0:-84.1089,-7.82678,0,-84.1089,-7.82678,-84.1089 chr09 17076924 . AA CA,CG 52353.2 PASS AB=0.467525,0.531863;ABP=17.9605,17.4016;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1632,875;CIGAR=1X1M,2X;DP=2509;DPB=2509;DPRA=0,1.0453;EPP=3546.85,1903.05;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.90476,2.05882;MQM=59.9761,59.5897;MQMR=0;NS=21;NUMALT=2;ODDS=15.3722;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58346,30857;QR=0;RO=0;RPL=0,0;RPP=3546.85,1903.05;RPPR=0;RPR=1632,875;RUN=1,1;SAF=0,0;SAP=3546.85,1903.05;SAR=1632,875;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,56,70:0:0:56,70:2012,2477:-366.165,-202.026,-185.168,-164.495,0,-143.423 1/2:144:0,80,64:0:0:80,64:2865,2243:-416.484,-182.835,-158.752,-234.003,0,-214.737 1/2:98:0,54,44:0:0:54,44:1936,1536:-283.134,-125.282,-109.026,-158.205,0,-144.959 1/2:156:0,90,66:0:0:90,66:3228,2314:-451.83,-188.535,-161.443,-263.649,0,-243.781 1/2:243:0,83,159:0:0:83,159:2972,5609:-699.139,-456.768,-431.782,-242.476,0,-194.612 1/2:80:0,34,46:0:0:34,46:1211,1611:-230.132,-131.425,-121.19,-99.0605,0,-85.2131 1/1:221:0,220,1:0:0:220,1:7875,36:-708.415,-66.2266,0,-705.483,-62.9362,-705.182 1/2:115:0,41,74:0:0:41,74:1476,2604:-332.706,-212.269,-199.927,-120.794,0,-98.5177 1/1:174:0,173,0:0:0:173,0:6197,0:-557.573,-52.0782,0,-557.573,-52.0782,-557.573 1/1:19:0,19,0:0:0:19,0:665,0:-60.1728,-5.71957,0,-60.1728,-5.71957,-60.1728 1/2:10:0,4,6:0:0:4,6:140,216:-29.3709,-17.9843,-16.7802,-11.7405,0,-9.93428 1/2:56:0,40,16:0:0:40,16:1428,576:-163.776,-47.3585,-35.3173,-116.776,0,-111.96 1/1:139:0,139,0:0:0:139,0:5000,0:-450.145,-41.8432,0,-450.145,-41.8432,-450.145 1/1:129:0,129,0:0:0:129,0:4611,0:-415.154,-38.8329,0,-415.154,-38.8329,-415.154 1/2:210:0,86,124:0:0:86,124:3045,4380:-604.986,-356.951,-331.062,-248.389,0,-211.061 1/2:134:0,60,74:0:0:60,74:2137,2626:-388.455,-214.276,-196.214,-174.534,0,-152.258 1/2:87:0,43,44:0:0:43,44:1525,1554:-251.146,-126.903,-113.959,-124.597,0,-111.351 1/2:78:0,36,42:0:0:36,42:1292,1485:-226.69,-121.3,-110.463,-105.747,0,-93.1034 1/2:95:0,56,39:0:0:56,39:2012,1376:-275.881,-111.74,-94.8822,-164.495,0,-152.755 1/1:137:0,132,5:0:0:132,5:4702,178:-422.981,-39.736,0,-408.473,-24.8725,-406.968 1/1:58:0,57,1:0:0:57,1:2017,36:-181.442,-17.1587,0,-178.504,-13.8615,-178.203 chr09 17105065 . G A 38416 PASS AB=0.492794;ABP=3.824;AC=28;AF=0.666667;AN=42;AO=1866;CIGAR=1X;DP=2784;DPB=2784;DPRA=0;EPP=3849.2;EPPR=1882.93;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9389;MQMR=59.9684;NS=21;NUMALT=1;ODDS=20.7086;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66503;QR=32657;RO=917;RPL=24;RPP=3849.2;RPPR=1882.93;RPR=1842;RUN=1;SAF=1866;SAP=4054.98;SAR=0;SRF=917;SRP=1994.25;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:135:59,76:59:2120:76:2717:-204.119,0,-150.429 0/1:108:65,43:65:2321:43:1521:-104.67,0,-176.32 0/1:122:58,64:58:2088:64:2281:-168.825,0,-151.464 0/1:180:81,98:81:2889:98:3524:-263.272,0,-206.149 0/1:265:147,118:147:5201:118:4213:-299.577,0,-388.454 0/1:146:82,64:82:2906:64:2250:-158.779,0,-217.823 1/1:166:0,166:0:0:166:5945:-535.157,-49.971,0 0/1:105:60,45:60:2126:45:1620:-114.482,0,-159.997 1/1:269:0,269:0:0:269:9541:-858.643,-80.9771,0 1/1:19:0,19:0:0:19:668:-60.388,-5.71957,0 0/1:23:8,15:8:288:15:540:-42.0128,0,-19.3437 0/1:33:11,22:11:387:22:792:-61.6717,0,-25.2319 1/1:155:0,155:0:0:155:5485:-493.773,-46.6597,0 1/1:155:0,155:0:0:155:5532:-498.003,-46.6597,0 0/1:190:110,80:110:3921:80:2865:-200.89,0,-295.887 0/1:144:86,58:86:3084:58:2054:-141.78,0,-234.437 0/1:89:43,46:43:1499:46:1641:-121.185,0,-108.405 0/1:173:75,98:75:2679:98:3520:-264.93,0,-189.277 0/1:91:29,62:29:1044:62:2224:-173.022,0,-66.8811 1/1:152:3,149:3:104:149:5280:-465.615,-36.0538,0 1/1:64:0,64:0:0:64:2290:-206.351,-19.2659,0 chr09 17149225 . 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GACCA TATCG 6284.94 PASS AB=0.417197;ABP=59.109;AC=15;AF=0.357143;AN=42;AO=399;CIGAR=1X1M1X1M1X;DP=1521;DPB=1521;DPRA=0.827225;EPP=432.739;EPPR=615.968;GTI=1;LEN=5;MEANALT=1.14286;MQM=35.4511;MQMR=59.9883;NS=21;NUMALT=1;ODDS=16.9043;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14138;QR=38475;RO=1107;RPL=59;RPP=432.739;RPPR=620.362;RPR=340;RUN=1;SAF=399;SAP=869.428;SAR=0;SRF=1106;SRP=2398.15;SRR=1;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:35,13:35:1204:13:464:-23.007,0,-94.2126 0/1:65:47,18:47:1627:18:646:-36.6076,0,-127.15 0/1:71:31,40:31:1086:40:1428:-93.7965,0,-76.6757 0/1:128:74,54:74:2556:54:1887:-114.042,0,-191.761 0/1:149:82,66:82:2850:66:2321:-145,0,-211.966 0/1:53:30,23:30:1038:23:826:-55.7654,0,-77.7728 0/0:133:131,0:131:4555:0:0:0,-39.4349,-409.813 0/1:61:36,25:36:1241:25:870:-53.4454,0,-93.6273 0/0:124:119,0:119:4134:0:0:0,-35.8226,-371.896 0/0:7:7,0:7:236:0:0:0,-2.10721,-21.5698 1/1:6:0,6:0:0:6:216:-18.9714,-1.80618,0 0/1:25:12,13:12:414:13:460:-29.8175,0,-30.0633 0/0:122:119,0:119:4153:0:0:0,-35.8226,-373.657 0/0:76:75,0:75:2552:0:0:0,-22.5772,-229.574 0/1:81:44,36:44:1560:36:1277:-78.4524,0,-116.313 0/1:54:29,25:29:1013:25:897:-56.9643,0,-75.2077 0/1:79:53,26:53:1826:26:910:-51.6973,0,-140.838 0/1:70:33,37:33:1167:37:1325:-87.1542,0,-84.2651 0/1:58:41,17:41:1446:17:611:-32.4884,0,-112.976 0/0:56:55,0:55:1912:0:0:0,-16.5566,-171.999 0/0:55:54,0:54:1905:0:0:0,-16.2556,-171.368 chr09 17170118 . 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A C,T 61607 PASS AB=0.536547,0.463453;ABP=25.3903,25.3903;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2026,898;CIGAR=1X,1X;DP=2924;DPB=2924;DPRA=0,1.18326;EPP=4402.41,1952.99;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.80952,2;MQM=59.9408,59.9889;MQMR=0;NS=21;NUMALT=2;ODDS=7.26936;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72448,32154;QR=0;RO=0;RPL=0,0;RPP=4402.41,1952.99;RPPR=0;RPR=2026,898;RUN=1,1;SAF=2026,898;SAP=4402.41,1952.99;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:177:0,80,97:0:0:80,97:2853,3457:-514.707,-282.142,-258.059,-232.922,0,-203.722 1/2:265:0,123,142:0:0:123,142:4396,5066:-771.73,-413.337,-376.31,-358.75,0,-316.004 1/2:101:0,58,43:0:0:58,43:2080,1548:-296.32,-126.669,-109.209,-170.011,0,-157.066 1/2:235:0,106,129:0:0:106,129:3781,4615:-684.902,-376.68,-344.771,-308.579,0,-269.746 1/2:185:0,109,76:0:0:109,76:3912,2722:-541.446,-222.345,-189.532,-319.46,0,-296.582 1/2:119:0,50,69:0:0:50,69:1799,2474:-348.924,-202.142,-187.091,-147.141,0,-126.37 1/1:261:0,261,0:0:0:261,0:9318,0:-838.584,-78.5688,0,-838.584,-78.5688,-838.584 1/2:94:0,60,34:0:0:60,34:2152,1224:-275.758,-100.232,-82.1702,-175.885,0,-165.65 1/1:278:0,277,1:0:0:277,1:9925,36:-892.826,-83.3853,0,-889.888,-80.0881,-889.587 1/1:5:0,5,0:0:0:5,0:169,0:-15.5368,-1.50515,0,-15.5368,-1.50515,-15.5368 1/2:11:0,7,4:0:0:7,4:252,144:-32.6714,-12.1095,-10.0023,-20.9217,0,-19.7176 1/2:41:0,24,17:0:0:24,17:860,606:-119.764,-49.7536,-42.5288,-70.3671,0,-65.2496 1/1:99:0,99,0:0:0:99,0:3542,0:-318.988,-29.802,0,-318.988,-29.802,-318.988 1/1:97:0,96,1:0:0:96,1:3417,36:-307.384,-28.8989,0,-304.447,-25.6016,-304.146 1/2:166:0,101,65:0:0:101,65:3616,2330:-485.274,-190.39,-159.986,-295.242,0,-275.675 1/2:139:0,73,66:0:0:73,66:2601,2372:-405.874,-193.87,-171.895,-212.362,0,-192.494 1/2:203:0,122,81:0:0:122,81:4380,2900:-594.141,-236.852,-200.127,-357.647,0,-333.263 1/2:89:0,50,39:0:0:50,39:1792,1404:-260.881,-114.919,-99.8676,-146.321,0,-134.581 1/2:104:0,72,32:0:0:72,32:2580,1148:-304.408,-93.9965,-72.3223,-210.77,0,-201.137 1/1:135:0,133,2:0:0:133,2:4740,72:-426.398,-40.037,0,-420.524,-33.8023,-419.921 1/1:120:0,120,0:0:0:120,0:4283,0:-385.633,-36.1236,0,-385.633,-36.1236,-385.633 chr09 17188722 . G T 8959.7 PASS AB=0.292361;ABP=1081.52;AC=14;AF=0.333333;AN=42;AO=848;CIGAR=1X;DP=4709;DPB=4709;DPRA=1.09165;EPP=1844.42;EPPR=8382.72;GTI=2;LEN=1;MEANALT=1.11765;MQM=59.9953;MQMR=59.9484;NS=21;NUMALT=1;ODDS=2.78468;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29351;QR=136283;RO=3859;RPL=846;RPP=1827.09;RPPR=5.10412;RPR=2;RUN=1;SAF=846;SAP=1827.09;SAR=2;SRF=1960;SRP=5.10412;SRR=1899;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:268:178,90:178:6238:90:3116:-199.993,0,-480.673 0/1:342:204,138:204:7196:138:4792:-328.493,0,-544.75 0/1:210:171,39:171:6072:39:1313:-55.246,0,-483.369 0/1:264:149,115:149:5276:115:4003:-280.995,0,-395.505 0/1:327:257,70:257:9071:70:2444:-121.778,0,-717.699 0/1:171:105,66:105:3714:66:2278:-153.805,0,-282.986 0/0:439:439,0:439:15501:0:0:0,-132.152,-1394.82 0/1:165:131,34:131:4586:34:1189:-57.6444,0,-363.242 0/0:519:517,2:517:18318:2:66:0,-149.967,-1641.96 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3626 0/1:13:9,4:9:320:4:136:-8.66215,0,-25.229 0/1:53:34,18:34:1205:18:619:-40.076,0,-92.7988 0/0:197:197,0:197:7034:0:0:0,-59.3029,-633.094 0/0:281:279,2:279:9743:2:53:0,-79.5551,-871.802 0/1:287:230,57:230:8094:57:1950:-89.3763,0,-642.09 0/1:198:134,64:134:4720:64:2173:-136.229,0,-365.356 0/1:271:192,79:192:6867:79:2775:-168.415,0,-536.52 0/1:155:118,36:118:4137:36:1254:-66.4425,0,-325.608 0/1:156:124,32:124:4388:32:1118:-53.9644,0,-348.133 0/0:194:192,2:192:6779:2:72:0,-51.5631,-603.35 0/0:178:178,0:178:6268:0:0:0,-53.5833,-563.899 chr09 17188724 . 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T C 32928.1 PASS AB=0.501677;ABP=3.105;AC=14;AF=0.333333;AN=42;AO=1948;CIGAR=1X;DP=5137;DPB=5137;DPRA=1.9202;EPP=4224.36;EPPR=6919.15;GTI=0;LEN=1;MEANALT=1;MQM=59.9846;MQMR=59.7962;NS=21;NUMALT=1;ODDS=5.38491;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69466;QR=114255;RO=3189;RPL=1;RPP=4224.36;RPPR=6919.15;RPR=1947;RUN=1;SAF=1948;SAP=4233.04;SAR=0;SRF=3189;SRP=6927.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:203:114,89:114:4070:89:3167:-224.146,0,-305.312 0/1:113:56,57:56:2012:57:2040:-149.856,0,-147.335 0/1:89:60,29:60:2148:29:1032:-66.4018,0,-166.703 0/1:123:78,45:78:2800:45:1597:-106.992,0,-215.208 0/1:262:149,113:149:5341:113:4004:-281.681,0,-401.94 0/1:124:60,64:60:2152:64:2267:-166.965,0,-156.618 0/0:189:187,2:187:6710:2:72:0,-50.0579,-597.128 0/1:92:43,49:43:1525:49:1748:-129.909,0,-109.842 0/0:271:271,0:271:9684:0:0:0,-81.5791,-871.401 0/0:354:352,2:352:12592:2:72:0,-99.7279,-1126.17 0/1:782:386,396:386:13829:396:14129:-1035.78,0,-1008.93 0/1:1006:455,551:455:16321:551:19664:-1466.45,0,-1165.7 0/0:193:193,0:193:6907:0:0:0,-58.0988,-621.662 0/0:129:129,0:129:4632:0:0:0,-38.8329,-417.032 0/1:138:66,72:66:2368:72:2567:-189.738,0,-171.77 0/1:112:68,44:68:2440:44:1568:-107.696,0,-186.118 0/1:124:62,62:62:2224:62:2204:-161.298,0,-163.072 0/1:631:286,345:286:10263:345:12327:-919.322,0,-733.548 0/1:76:48,28:48:1724:28:1008:-68.1581,0,-132.137 0/0:96:96,0:96:3433:0:0:0,-28.8989,-309.175 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5123 chr09 17395210 . AAGAA GAGAG,GAGAA 106691 PASS AB=0.5,0.494136;ABP=3.0103,4.18185;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3236,1943;CIGAR=1X3M1X,1X4M;DP=5210;DPB=5210.2;DPRA=0,1.89963;EPP=7012.53,4213.5;EPPR=0;GTI=0;LEN=5,1;MEANALT=3,3.3125;MQM=59.793,59.9557;MQMR=0;NS=21;NUMALT=2;ODDS=8.2013;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=1;QA=114311,69557;QR=0;RO=0;RPL=3234,1942;RPP=7012.53,4213.5;RPPR=0;RPR=2,1;RUN=1,1;SAF=3236,1943;SAP=7029.9,4222.18;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:205:0,115,89:0:0:115,89:3989,3181:-583.662,-259.457,-224.839,-324.296,0,-297.505 1/2:114:0,57,57:0:0:57,57:2021,2052:-332.438,-167.793,-150.634,-165.003,0,-147.844 1/2:92:0,62,30:0:0:62,30:2187,1080:-266.545,-88.4823,-69.8185,-178.42,0,-169.389 1/2:128:0,81,46:0:0:81,46:2862,1643:-367.029,-133.951,-109.568,-233.074,0,-219.227 1/2:266:0,154,110:0:0:154,110:5428,3937:-762.954,-321.016,-274.657,-441.905,0,-408.792 1/2:126:0,61,65:0:0:61,65:2167,2321:-366.158,-189.581,-171.219,-176.933,0,-157.366 1/1:192:0,190,2:0:0:190,2:6730,68:-605.526,-57.1957,0,-600.01,-51.4934,-599.408 1/2:96:0,44,51:0:0:44,51:1541,1813:-273.115,-147.737,-134.492,-125.371,0,-110.018 1/1:278:0,273,0:0:0:273,0:9651,0:-868.168,-82.1812,0,-868.168,-82.1812,-868.168 1/1:360:0,356,3:0:0:356,3:12573,108:-1130.81,-107.167,0,-1122,-98.317,-1121.1 1/2:794:0,393,399:0:0:393,399:13924,14287:-2298.95,-1164.71,-1046.4,-1134.3,0,-1014.19 1/2:1013:0,460,545:0:0:460,545:16288,19516:-2918.31,-1591.54,-1453.06,-1326.79,0,-1162.72 1/1:198:0,197,0:0:0:197,0:6937,0:-623.988,-59.3029,0,-623.988,-59.3029,-623.988 1/1:133:0,133,0:0:0:133,0:4695,0:-422.695,-40.037,0,-422.695,-40.037,-422.695 1/2:140:0,67,72:0:0:67,72:2375,2564:-402.54,-209.063,-188.894,-193.56,0,-171.886 1/2:111:0,68,43:0:0:68,43:2399,1548:-321.987,-126.669,-106.199,-195.675,0,-182.731 1/2:122:0,61,60:0:0:61,60:2162,2133:-349.921,-173.815,-155.452,-176.101,0,-158.039 1/2:636:0,287,343:0:0:287,343:10146,12298:-1829.29,-1003.04,-916.649,-826.247,0,-722.994 1/2:79:0,51,28:0:0:51,28:1790,1008:-228.169,-82.6075,-67.255,-145.918,0,-137.489 1/1:96:0,95,0:0:0:95,0:3354,0:-301.714,-28.5979,0,-301.714,-28.5979,-301.714 1/1:31:0,31,0:0:0:31,0:1092,0:-98.5878,-9.33193,0,-98.5878,-9.33193,-98.5878 chr09 17395233 . GG AA,GA 105107 PASS AB=0.500517,0.498709;ABP=3.01927,3.06638;AC=28,14;AF=0.666667,0.333333;AN=42;AO=3197,1934;CIGAR=2X,1M1X;DP=5135;DPB=5136;DPRA=0,1.90086;EPP=6945.21,4202.64;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.95238,2.1875;MQM=59.7814,59.9628;MQMR=0;NS=21;NUMALT=2;ODDS=7.26591;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=112452,69245;QR=0;RO=0;RPL=3197,1934;RPP=6945.21,4202.64;RPPR=0;RPR=0,0;RUN=1,1;SAF=3197,1934;SAP=6945.21,4202.64;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:203:0,112,91:0:0:112,91:3900,3253:-582.612,-265.593,-231.878,-317.372,0,-289.978 1/2:114:0,57,57:0:0:57,57:2017,2043:-331.269,-166.983,-149.825,-164.642,0,-147.484 1/2:88:0,60,28:0:0:60,28:2120,1000:-254.442,-81.8865,-63.8247,-172.911,0,-164.482 1/2:126:0,80,46:0:0:80,46:2817,1652:-364.445,-135.121,-111.039,-229.68,0,-215.832 1/2:261:0,151,110:0:0:151,110:5287,3921:-750.119,-319.967,-274.511,-430.506,0,-397.393 1/2:123:0,60,62:0:0:60,62:2110,2215:-352.339,-180.59,-162.529,-171.743,0,-153.079 1/1:184:0,183,1:0:0:183,1:6445,36:-579.779,-55.0885,0,-576.841,-51.7912,-576.54 1/2:95:0,44,51:0:0:44,51:1544,1819:-274.286,-148.638,-135.393,-126.001,0,-110.649 1/1:277:0,277,0:0:0:277,0:9723,0:-874.917,-83.3853,0,-874.917,-83.3853,-874.917 1/1:354:0,352,2:0:0:352,2:12340,72:-1109.02,-105.963,0,-1103.15,-100.088,-1102.54 1/2:786:0,387,399:0:0:387,399:13690,14283:-2279.09,-1164.09,-1047.59,-1115.36,0,-995.248 1/2:1002:0,456,545:0:0:456,545:16008,19527:-2895.35,-1592.56,-1455.29,-1302.81,0,-1138.75 1/1:193:0,193,0:0:0:193,0:6820,0:-613.662,-58.0988,0,-613.662,-58.0988,-613.662 1/1:131:0,130,0:0:0:130,0:4545,0:-408.874,-39.1339,0,-408.874,-39.1339,-408.874 1/2:139:0,67,71:0:0:67,71:2353,2544:-398.966,-207.478,-187.309,-191.483,0,-170.11 1/2:111:0,67,44:0:0:67,44:2368,1580:-322.077,-129.246,-109.077,-193.188,0,-179.943 1/2:122:0,63,59:0:0:63,59:2216,2120:-353.666,-173.308,-154.343,-180.714,0,-162.953 1/2:626:0,285,341:0:0:285,341:10057,12217:-1815.56,-996.721,-910.928,-819.191,0,-716.54 1/2:76:0,49,27:0:0:49,27:1702,963:-217.215,-78.8581,-64.1077,-138.711,0,-130.583 1/1:93:0,93,0:0:0:93,0:3286,0:-295.953,-27.9958,0,-295.953,-27.9958,-295.953 1/1:31:0,31,0:0:0:31,0:1104,0:-99.6702,-9.33193,0,-99.6702,-9.33193,-99.6702 chr09 17419867 . CATTTCTG CGTTTCTG,CG 22796.3 PASS AB=0.569527,0.427515;ABP=31.3936,33.8606;AC=28,14;AF=0.666667,0.333333;AN=42;AO=824,289;CIGAR=1M1X6M,1M6D1M;DP=1122;DPB=905.25;DPRA=0,0.757848;EPP=1792.3,630.566;EPPR=0;GTI=0;LEN=1,6;MEANALT=2.09524,2.14286;MQM=59.9466,46.1211;MQMR=0;NS=21;NUMALT=2;ODDS=2.86154;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29255,9879;QR=0;RO=0;RPL=0,0;RPP=1792.3,630.566;RPPR=0;RPR=824,289;RUN=1,1;SAF=824,289;SAP=1792.3,630.566;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:42:0,30,12:0:0:30,12:1064,428:-121.221,-34.5316,-25.5007,-87.0408,0,-83.4284 1/2:24:0,16,8:0:0:16,8:567,271:-67.7626,-21.5553,-16.7388,-46.5442,0,-44.136 1/2:36:0,15,21:0:0:15,21:527,723:-101.364,-58.4661,-53.9506,-43.2447,0,-36.9231 1/2:90:0,49,41:0:0:49,41:1745,1395:-253.999,-111.76,-97.0094,-142.584,0,-130.242 1/2:131:0,66,64:0:0:66,64:2351,2197:-367.214,-175.581,-155.713,-191.663,0,-172.397 1/2:52:0,27,25:0:0:27,25:972,841:-147.295,-67.9712,-59.8434,-79.6701,0,-72.1443 1/1:99:0,97,0:0:0:97,0:3416,0:-307.332,-29.1999,0,-307.332,-29.1999,-307.332 1/2:29:0,13,16:0:0:13,16:459,557:-82.633,-45.2518,-41.3384,-37.7307,0,-32.9142 1/1:78:0,78,0:0:0:78,0:2796,0:-251.879,-23.4803,0,-251.879,-23.4803,-251.879 1/1:12:0,11,0:0:0:11,0:396,0:-35.6229,-3.31133,0,-35.6229,-3.31133,-35.6229 1/2:5:0,2,3:0:0:2,3:72,104:-14.6102,-8.72901,-8.12695,-6.23466,0,-5.33157 1/2:15:0,8,7:0:0:8,7:284,244:-43.17,-20.0249,-17.6167,-23.4951,0,-21.3879 1/1:72:0,71,0:0:0:71,0:2540,0:-228.649,-21.3731,0,-228.649,-21.3731,-228.649 1/1:56:0,55,0:0:0:55,0:1943,0:-174.93,-16.5567,0,-174.93,-16.5567,-174.93 1/2:60:0,44,16:0:0:44,16:1559,542:-170.907,-43.8925,-30.6472,-127.356,0,-122.539 1/2:32:0,21,11:0:0:21,11:744,388:-92.3355,-31.7245,-25.4028,-60.9627,0,-57.6514 1/2:33:0,24,9:0:0:24,9:856,312:-95.3257,-25.5371,-18.3124,-70.1364,0,-67.4271 1/2:66:0,30,35:0:0:30,35:1055,1179:-180.463,-94.5829,-85.552,-85.9688,0,-75.4328 1/2:61:0,40,21:0:0:40,21:1392,698:-169.553,-56.3563,-44.3151,-113.533,0,-107.211 1/1:66:0,66,0:0:0:66,0:2345,0:-211.307,-19.868,0,-211.307,-19.868,-211.307 1/1:63:0,61,0:0:0:61,0:2172,0:-195.392,-18.3628,0,-195.392,-18.3628,-195.392 chr09 17419943 . CTA CTC,TTC 27253.2 PASS AB=0.548565,0.448124;ABP=21.5709,24.1881;AC=27,15;AF=0.642857,0.357143;AN=42;AO=906,413;CIGAR=2M1X,1X1M1X;DP=1324;DPB=1323.67;DPRA=13.19,0.933735;EPP=1970.36,899.828;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.95,2.0625;MQM=59.9934,59.9903;MQMR=60;NS=21;NUMALT=2;ODDS=9.45966;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32328,14508;QR=28;RO=1;RPL=906,413;RPP=1970.36,899.828;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1970.36,899.828;SAR=906,413;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:80:1,38,41:1:28:38,41:1360,1463:-227.727,-117.125,-107.903,-108.761,0,-98.6354 1/2:63:0,42,21:0:0:42,21:1504,720:-181.458,-58.7946,-46.1513,-123.011,0,-116.69 1/2:67:0,37,30:0:0:37,30:1328,1062:-195.189,-86.8605,-75.7224,-108.684,0,-99.6532 1/2:46:0,29,17:0:0:29,17:1036,603:-133.951,-49.4828,-40.753,-84.824,0,-79.7065 1/2:179:0,109,70:0:0:109,70:3889,2458:-517.442,-200.404,-167.591,-317.391,0,-296.319 1/2:62:0,35,26:0:0:35,26:1248,904:-175.332,-73.5924,-63.0564,-101.836,0,-94.0091 1/1:93:0,92,0:0:0:92,0:3260,0:-293.34,-27.6948,0,-293.34,-27.6948,-293.34 1/2:43:0,12,31:0:0:12,31:432,1073:-122.797,-87.5442,-83.9319,-35.6088,0,-26.2769 1/1:58:0,57,1:0:0:57,1:2052,34:-184.611,-17.1587,0,-181.853,-14.0608,-181.552 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 2/2:5:0,0,5:0:0:0,5:0,176:-16.1852,-16.1852,-16.1852,-1.50515,-1.50515,0 1/2:27:0,7,20:0:0:7,20:252,710:-78.7683,-58.2051,-56.0979,-20.9217,0,-14.9011 1/1:112:0,112,0:0:0:112,0:4001,0:-360.278,-33.7154,0,-360.278,-33.7154,-360.278 1/1:62:0,62,0:0:0:62,0:2205,0:-198.714,-18.6639,0,-198.714,-18.6639,-198.714 1/2:95:0,55,39:0:0:55,39:1958,1371:-271.171,-111.586,-95.0297,-159.578,0,-147.838 1/2:21:0,11,10:0:0:11,10:396,344:-60.601,-28.281,-24.9697,-32.6714,0,-29.6611 1/2:42:0,16,26:0:0:16,26:570,922:-121.932,-75.4711,-70.6547,-46.8159,0,-38.9891 1/2:99:0,49,50:0:0:49,50:1756,1759:-286.757,-143.539,-128.788,-143.574,0,-128.522 1/2:82:0,57,25:0:0:57,25:2003,873:-234.392,-71.36,-54.2013,-163.382,0,-155.856 1/1:23:0,22,1:0:0:22,1:783,36:-70.4339,-6.62266,0,-67.4963,-3.32542,-67.1953 1/1:56:0,55,0:0:0:55,0:1971,0:-177.412,-16.5567,0,-177.412,-16.5567,-177.412 chr09 17470754 . A T 28713.4 PASS AB=0.470849;ABP=14.6575;AC=28;AF=0.666667;AN=42;AO=1462;CIGAR=1X;DP=2306;DPB=2306;DPRA=0;EPP=3177.7;EPPR=1827.06;GTI=0;LEN=1;MEANALT=1;MQM=59.9945;MQMR=59.9976;NS=21;NUMALT=1;ODDS=4.58588;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52362;QR=30172;RO=844;RPL=0;RPP=3177.7;RPPR=1835.73;RPR=1462;RUN=1;SAF=1462;SAP=3177.7;SAR=0;SRF=843;SRP=1827.06;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:223:126,97:126:4520:97:3467:-245.112,0,-339.837 0/1:78:31,47:31:1104:47:1681:-128.097,0,-76.1903 0/1:126:63,63:63:2264:63:2260:-165.733,0,-166.093 0/1:81:46,35:46:1648:35:1260:-89.3221,0,-124.225 0/1:277:138,139:138:4926:139:4980:-364.963,0,-360.103 0/1:133:70,63:70:2474:63:2256:-163.266,0,-182.874 1/1:173:0,173:0:0:173:6208:-558.807,-52.0782,0 0/1:146:83,63:83:2980:63:2260:-159.712,0,-224.481 1/1:195:1,194:1:36:194:6936:-620.707,-55.1026,0 1/1:18:1,17:1:36:17:612:-51.8152,-1.82027,0 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:16:13,3:13:468:3:108:-5.25869,0,-37.6432 1/1:67:2,65:2:72:65:2317:-201.952,-13.3323,0 1/1:110:0,110:0:0:110:3952:-355.87,-33.1133,0 0/1:178:94,84:94:3350:84:3009:-217.457,0,-248.131 0/1:66:45,21:45:1616:21:752:-48.1383,0,-125.862 0/1:85:47,38:47:1673:38:1364:-97.4732,0,-125.268 0/1:80:43,37:43:1544:37:1321:-95.1084,0,-115.171 0/1:83:33,50:33:1188:50:1783:-135.767,0,-82.2431 1/1:115:5,110:5:165:110:3936:-339.259,-19.4448,0 1/1:50:0,50:0:0:50:1792:-161.562,-15.0515,0 chr09 17501487 . G A 1.12671e-09 PASS AB=0.430727;ABP=33.396;AC=13;AF=0.309524;AN=42;AO=421;CIGAR=1X;DP=1165;DPB=1165;DPRA=0;EPP=917.2;EPPR=1590.46;GTI=12;LEN=1;MEANALT=1.04762;MQM=10.4109;MQMR=10.8452;NS=21;NUMALT=1;ODDS=22.7053;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14937;QR=26537;RO=743;RPL=0;RPP=917.2;RPPR=1590.46;RPR=421;RUN=1;SAF=421;SAP=917.2;SAR=0;SRF=743;SRP=1616.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:50,35:50:1792:35:1256:-6.07016,0,-21.2641 0/1:33:22,11:22:788:11:388:-1.04993,0,-11.839 0/0:54:41,13:41:1442:13:468:0,-4.46719,-29.0718 0/1:37:22,15:22:762:15:521:-2.60173,0,-9.76508 0/0:95:64,31:64:2285:31:1092:0,-0.0936771,-31.0824 0/0:64:53,11:53:1904:11:396:0,-8.27854,-41.7103 0/1:86:42,44:42:1508:44:1568:-17.6343,0,-15.8418 0/0:66:49,17:49:1756:17:604:0,-3.13115,-32.2725 0/1:115:58,57:58:2080:57:2028:-16.7231,0,-22.6621 0/1:5:3,2:3:108:2:72:-0.582451,0,-1.57132 0/1:6:3,3:3:108:3:104:-1.26851,0,-1.17721 0/0:12:9,3:9:324:3:108:0,-0.535895,-5.93318 0/1:90:56,34:56:1997:34:1193:-3.72536,0,-28.6191 0/1:47:25,22:25:896:22:784:-6,0,-10.771 0/0:83:61,22:61:2151:22:784:0,-4.83746,-37.0339 0/0:27:21,5:21:756:5:161:0,-3.35914,-14.6844 0/0:35:30,5:30:1068:5:165:0,-5.96725,-23.0407 0/1:85:58,27:58:2084:27:972:-1.04142,0,-32.3239 0/1:43:25,18:25:900:18:648:-3.52033,0,-11.7966 0/1:67:37,30:37:1324:30:1053:-9.29836,0,-16.6153 0/1:30:14,16:14:504:16:572:-6.71833,0,-5.28464 chr09 17502505 . A T 25579.2 PASS AB=0.531678;ABP=13.1909;AC=28;AF=0.666667;AN=42;AO=1268;CIGAR=1X;DP=1819;DPB=1819;DPRA=0;EPP=2756.44;EPPR=1199.49;GTI=0;LEN=1;MEANALT=1;MQM=59.5481;MQMR=54.0599;NS=21;NUMALT=1;ODDS=4.01682;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45385;QR=19631;RO=551;RPL=0;RPP=2756.44;RPPR=1199.49;RPR=1268;RUN=1;SAF=0;SAP=2756.44;SAR=1268;SRF=0;SRP=1199.49;SRR=551;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:46,80:46:1648:80:2872:-220.407,0,-110.106 0/1:71:24,47:24:852:47:1688:-130.787,0,-55.44 0/1:91:48,43:48:1707:43:1528:-110.397,0,-126.248 0/1:106:54,52:54:1906:52:1856:-135.403,0,-139.53 0/1:217:113,104:113:4022:104:3716:-269.276,0,-295.435 0/1:108:51,57:51:1809:57:2052:-152.407,0,-129.875 1/1:135:0,135:0:0:135:4827:-434.468,-40.6391,0 0/1:73:37,36:37:1324:36:1276:-93.1349,0,-96.4949 1/1:129:1,128:1:36:128:4581:-408.834,-35.2383,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.1729 0/1:17:4,13:4:144:13:468:-37.3421,0,-8.17723 1/1:133:1,132:1:36:132:4732:-422.142,-36.4413,0 1/1:107:0,107:0:0:107:3824:-344.294,-32.2102,0 0/1:157:63,94:63:2264:94:3368:-256.059,0,-156.261 0/1:64:26,38:26:911:38:1368:-103.726,0,-62.8164 0/1:73:42,31:42:1508:31:1108:-78.0525,0,-112.083 0/1:23:16,7:16:572:7:252:-16.1006,0,-44.8112 0/1:35:19,16:19:680:16:553:-39.5442,0,-50.724 1/1:113:2,111:2:68:111:3984:-352.303,-27.6235,0 1/1:29:0,29:0:0:29:1044:-94.2408,-8.72987,0 chr09 17502514 . CTGCT CTGCC,TTGCC 37554.7 PASS AB=0.517094,0.471795;ABP=5.97983,11.0949;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1240,556;CIGAR=4M1X,1X3M1X;DP=1815;DPB=1815;DPRA=0,1.31765;EPP=2686.96,1210.35;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.66667,2.88235;MQM=59.6565,54.2356;MQMR=0;NS=21;NUMALT=2;ODDS=5.28237;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44339,19637;QR=0;RO=0;RPL=1,0;RPP=2686.96,1210.35;RPPR=0;RPR=1239,556;RUN=1,1;SAF=0,0;SAP=2695.64,1210.35;SAR=1240,556;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,77,48:0:0:77,48:2746,1709:-362.272,-138.802,-115.623,-223.475,0,-209.025 1/2:70:0,44,25:0:0:44,25:1576,876:-199.616,-71.0848,-57.8395,-128.526,0,-121 1/2:90:0,41,45:0:0:41,45:1472,1599:-250.252,-130.216,-117.874,-120.051,0,-106.504 1/2:107:0,51,54:0:0:51,54:1828,1898:-303.382,-154.294,-138.941,-149.092,0,-132.837 1/2:216:0,101,115:0:0:101,115:3616,4051:-623.749,-328.867,-298.463,-295.237,0,-260.619 1/2:111:0,57,52:0:0:57,52:2040,1844:-315.971,-149.637,-132.479,-166.34,0,-150.686 1/1:135:0,134,0:0:0:134,0:4808,0:-432.468,-40.338,0,-432.468,-40.338,-432.468 1/2:76:0,36,40:0:0:36,40:1296,1414:-220.449,-114.731,-103.893,-106.074,0,-94.0326 1/1:130:0,128,1:0:0:128,1:4588,36:-412.703,-38.5318,0,-409.769,-35.5978,-409.468 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:6:0,2,4:0:0:2,4:72,144:-17.9512,-12.076,-11.474,-6.23466,0,-5.03054 1/2:17:0,13,4:0:0:13,4:468,144:-50.2774,-12.0906,-8.17723,-38.5463,0,-37.3421 1/1:129:0,128,1:0:0:128,1:4556,36:-409.744,-38.5318,0,-406.809,-35.2372,-406.508 1/1:106:0,104,0:0:0:104,0:3708,0:-333.549,-31.3071,0,-333.549,-31.3071,-333.549 1/2:157:0,93,64:0:0:93,64:3336,2256:-455.699,-183.606,-155.611,-272.447,0,-253.181 1/2:64:0,38,25:0:0:38,25:1351,876:-180.852,-71.1819,-59.7427,-109.674,0,-102.148 1/2:73:0,30,41:0:0:30,41:1072,1459:-205.12,-117.724,-108.693,-87.4287,0,-75.0865 1/2:23:0,7,16:0:0:7,16:252,566:-66.9424,-46.3831,-44.2759,-20.9171,0,-16.1006 1/2:34:0,15,19:0:0:15,19:522,663:-96.5938,-54.1499,-49.6345,-42.7918,0,-37.0723 1/1:111:0,107,2:0:0:107,2:3832,66:-344.709,-32.2102,0,-339.481,-26.9794,-338.879 1/1:29:0,29,0:0:0:29,0:1020,0:-92.0826,-8.72987,0,-92.0826,-8.72987,-92.0826 chr09 17502532 . A T 9084.31 PASS AB=0.472696;ABP=10.5993;AC=14;AF=0.333333;AN=42;AO=557;CIGAR=1X;DP=1824;DPB=1824;DPRA=1.29748;EPP=1212.52;EPPR=2736.92;GTI=0;LEN=1;MEANALT=1;MQM=54.1221;MQMR=59.5935;NS=21;NUMALT=1;ODDS=4.3828;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19976;QR=45368;RO=1267;RPL=557;RPP=1212.52;RPPR=2736.92;RPR=0;RUN=1;SAF=0;SAP=1212.52;SAR=557;SRF=0;SRP=2754.27;SRR=1267;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:79,49:79:2805:49:1748:-118.535,0,-213.778 0/1:71:46,25:46:1656:25:896:-59.3821,0,-127.937 0/1:91:44,47:44:1584:47:1692:-124.895,0,-115.365 0/1:107:52,55:52:1852:55:1968:-144.802,0,-134.745 0/1:217:103,114:103:3660:114:4076:-300.144,0,-264.276 0/1:110:57,53:57:2044:53:1900:-137.334,0,-151.086 0/0:136:136,0:136:4880:0:0:0,-40.9401,-439.238 0/1:74:36,38:36:1296:38:1368:-100.837,0,-94.6347 0/0:128:127,1:127:4552:1:36:0,-34.9373,-406.228 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:7:3,4:3:108:4:144:-11.1729,0,-7.96796 0/1:16:12,4:12:432:4:140:-8.11205,0,-34.4047 0/0:131:130,1:130:4652:1:36:0,-35.8392,-415.189 0/0:110:110,0:110:3940:0:0:0,-33.1133,-354.721 0/1:156:92,64:92:3304:64:2304:-160.157,0,-250.608 0/1:65:39,26:39:1404:26:936:-64.7006,0,-106.664 0/1:72:31,41:31:1112:41:1472:-109.149,0,-78.7032 0/1:23:7,16:7:252:16:576:-45.1594,0,-16.1006 0/1:35:17,18:17:612:18:648:-48.0735,0,-44.8636 0/0:113:112,1:112:4007:1:36:0,-30.4232,-357.174 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.2863 chr09 17503656 . A G 26859.6 PASS AB=0.471007;ABP=25.5487;AC=14;AF=0.333333;AN=42;AO=1462;CIGAR=1X;DP=4686;DPB=4686;DPRA=1.40476;EPP=3177.7;EPPR=6975.63;GTI=0;LEN=1;MEANALT=1.05556;MQM=42.4309;MQMR=22.5532;NS=21;NUMALT=1;ODDS=37.3349;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51959;QR=115257;RO=3223;RPL=630;RPP=63.6155;RPPR=16.0277;RPR=832;RUN=1;SAF=630;SAP=63.6155;SAR=832;SRF=1545;SRP=14.9281;SRR=1678;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:307:152,155:152:5437:155:5539:-340.482,0,-203.288 0/1:183:92,91:92:3300:91:3246:-191.265,0,-130.579 0/1:205:103,102:103:3679:102:3648:-228.941,0,-137.384 0/1:269:136,133:136:4833:133:4708:-290.542,0,-216.197 0/1:370:221,149:221:7896:149:5288:-304.7,0,-317.526 0/1:256:114,142:114:4092:142:5040:-310.525,0,-131.427 0/0:321:321,0:321:11464:0:0:0,-96.6306,-579.457 0/1:255:133,122:133:4764:122:4330:-264.781,0,-169.421 0/0:356:354,2:354:12683:2:68:0,-101.447,-758.673 0/0:48:48,0:48:1715:0:0:0,-14.4494,-63.2977 0/1:18:9,9:9:324:9:324:-21.963,0,-13.1213 0/1:58:27,31:27:960:31:1089:-73.6234,0,-29.2899 0/0:228:227,1:227:8128:1:36:0,-65.0366,-481.683 0/0:300:297,2:297:10588:2:72:0,-83.4349,-594.307 0/1:356:179,177:179:6400:177:6251:-395.656,0,-234.235 0/1:179:110,69:110:3931:69:2461:-131.734,0,-188.609 0/1:198:99,99:99:3543:99:3527:-217.34,0,-165.871 0/1:237:128,109:128:4592:109:3883:-261.517,0,-113.164 0/1:196:130,66:130:4660:66:2341:-130.886,0,-195.876 0/0:218:215,3:215:7673:3:108:0,-57.7255,-409.874 0/0:128:128,0:128:4595:0:0:0,-38.5318,-213.057 chr09 17503672 . G C 42760.9 PASS AB=0.526832;ABP=22.1215;AC=28;AF=0.666667;AN=42;AO=3186;CIGAR=1X;DP=4642;DPB=4642;DPRA=0;EPP=6895.29;EPPR=3158.16;GTI=0;LEN=1;MEANALT=1.14286;MQM=22.5574;MQMR=42.2808;NS=21;NUMALT=1;ODDS=37.1083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=112195;QR=51220;RO=1453;RPL=1517;RPP=18.7572;RPPR=70.8131;RPR=1669;RUN=1;SAF=1516;SAP=19.1743;SAR=1670;SRF=620;SRP=70.8131;SRR=833;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:301:154,147:154:5492:147:5147:-187.992,0,-339.877 0/1:186:94,92:94:3352:92:3165:-126.124,0,-198.171 0/1:203:101,102:101:3589:102:3636:-135.282,0,-224.585 0/1:266:132,134:132:4678:134:4729:-211.228,0,-286.29 0/1:370:152,217:152:5349:217:7584:-304.586,0,-308.254 0/1:259:142,117:142:4997:117:4132:-137.001,0,-306.914 1/1:320:0,320:0:0:320:11295:-574.979,-96.3296,0 0/1:250:120,130:120:4200:130:4564:-164.543,0,-253.897 1/1:352:2,350:2:72:350:12363:-746.419,-99.8642,0 1/1:48:0,48:0:0:48:1697:-63.5495,-14.4494,0 0/1:18:9,9:9:320:9:324:-13.1213,0,-21.5995 0/1:56:31,25:31:1081:25:877:-26.9527,0,-73.0752 1/1:229:1,228:1:21:228:8079:-482.87,-66.8359,0 1/1:297:3,294:3:108:294:10380:-590.507,-79.3307,0 0/1:351:173,178:173:6120:178:6267:-233.569,0,-388.147 0/1:182:71,111:71:2492:111:3918:-190.454,0,-133.205 0/1:191:97,94:97:3425:94:3317:-154.533,0,-213.793 0/1:232:108,124:108:3700:124:4337:-105.651,0,-247.995 0/1:191:60,130:60:2116:130:4546:-194.49,0,-114.892 1/1:215:3,212:3:108:212:7470:-402.19,-56.8224,0 1/1:125:0,124:0:0:124:4368:-208.291,-37.3277,0 chr09 17506859 . C T 20076.6 PASS AB=0.523882;ABP=16.0786;AC=14;AF=0.333333;AN=42;AO=1385;CIGAR=1X;DP=3829;DPB=3829;DPRA=1.07995;EPP=3010.5;EPPR=5266.69;GTI=0;LEN=1;MEANALT=1.35294;MQM=36.0477;MQMR=59.9709;NS=21;NUMALT=1;ODDS=7.11223;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49597;QR=86864;RO=2436;RPL=1385;RPP=3010.5;RPPR=5266.69;RPR=0;RUN=1;SAF=0;SAP=3010.5;SAR=1385;SRF=0;SRP=5292.72;SRR=2436;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:175:88,87:88:3148:87:3083:-200.653,0,-230.164 0/1:176:80,94:80:2863:94:3372:-228.735,0,-205.192 0/1:187:70,116:70:2501:116:4156:-285.126,0,-169.019 0/1:211:101,109:101:3573:109:3904:-259.307,0,-258.233 0/1:434:202,231:202:7211:231:8284:-549.021,0,-518.341 0/1:271:118,153:118:4200:153:5453:-374.941,0,-296.602 0/0:249:248,1:248:8855:1:36:0,-71.6103,-793.589 0/1:213:106,106:106:3775:106:3804:-248.422,0,-275.802 0/0:205:205,0:205:7344:0:0:0,-61.7111,-661.008 0/0:24:23,1:23:824:1:36:0,-3.9257,-71.1843 0/1:10:3,7:3:108:7:252:-17.925,0,-7.06487 0/1:42:13,29:13:453:29:1044:-70.5339,0,-28.4564 0/0:243:243,0:243:8665:0:0:0,-73.1503,-779.846 0/0:169:169,0:169:5998:0:0:0,-50.8741,-539.931 0/1:363:187,176:187:6663:176:6320:-405.748,0,-490.046 0/1:174:76,98:76:2697:98:3516:-236.407,0,-190.595 0/1:213:108,105:108:3855:105:3753:-244.377,0,-283.027 0/1:77:32,45:32:1143:45:1612:-110.185,0,-79.9994 0/1:92:66,26:66:2336:26:936:-49.7316,0,-182.803 0/0:233:231,1:231:8248:1:36:0,-66.8848,-739.017 0/0:68:67,0:67:2404:0:0:0,-20.169,-216.257 chr09 17517539 . CAACAGT TAATAGC,CAACAGC 48734.1 PASS AB=0.520571,0.475231;ABP=20.5206,28.397;AC=21,21;AF=0.5,0.5;AN=42;AO=2480,2264;CIGAR=1X2M1X2M1X,6M1X;DP=4764;DPB=4766.86;DPRA=0,0;EPP=5388.26,4919.22;EPPR=0;GTI=0;LEN=7,1;MEANALT=2.85714,2.85714;MQM=22.8633,28.5102;MQMR=0;NS=21;NUMALT=2;ODDS=36.1863;PAIRED=0,0;PAIREDR=0;PAO=6,2.5;PQA=175,88;PQR=88;PRO=2.5;QA=84469,80876;QR=0;RO=0;RPL=0,0;RPP=5388.26,4919.22;RPPR=0;RPR=2480,2264;RUN=1,1;SAF=0,0;SAP=5388.26,4919.22;SAR=2480,2264;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:260:0,139,121:0:0:139,121:4762,4329:-516.929,-266.507,-224.664,-250.679,0,-214.254 1/2:252:0,127,125:0:0:127,125:4319,4453:-446.507,-270.803,-232.572,-175.729,0,-138.101 1/2:178:0,75,102:0:0:75,102:2533,3645:-359.865,-225.657,-203.08,-134.328,0,-103.623 1/2:383:0,184,199:0:0:184,199:6256,7108:-773.013,-442.554,-387.164,-330.715,0,-270.81 1/2:433:0,246,186:0:0:246,186:8317,6663:-850.891,-411.823,-337.77,-439.021,0,-383.03 1/2:181:0,86,94:0:0:86,94:2918,3384:-327.813,-207.464,-181.575,-120.362,0,-92.0651 1/2:287:0,128,157:0:0:128,157:4296,5606:-519.571,-342.096,-303.565,-177.498,0,-130.236 1/2:219:0,116,103:0:0:116,103:3965,3689:-409.19,-227.629,-192.709,-181.806,0,-150.8 1/2:320:0,220,99:0:0:220,99:7458,3522:-610.31,-210.417,-144.19,-399.897,0,-370.095 1/2:24:0,9,15:0:0:9,15:308,540:-47.8656,-33.8513,-31.142,-14.2494,0,-9.73392 1/2:20:0,11,9:0:0:11,9:380,324:-34.8657,-20.2664,-16.9551,-14.835,0,-12.1258 1/2:83:0,48,35:0:0:48,35:1632,1252:-151.771,-76.8993,-62.4498,-75.1191,0,-64.5831 1/2:276:0,127,147:0:0:127,147:4360,5241:-550.539,-322.424,-284.193,-228.184,0,-183.933 1/2:195:0,107,87:0:0:107,87:3619,3102:-384.245,-191.18,-158.969,-193.059,0,-166.869 1/2:427:0,232,194:0:0:232,194:7858,6953:-850.645,-429.12,-359.281,-421.52,0,-363.12 1/2:199:0,123,75:0:0:123,75:4218,2685:-384.363,-161.279,-124.252,-223.038,0,-200.461 1/2:283:0,167,116:0:0:167,116:5741,4141:-554.089,-248.59,-198.318,-305.474,0,-270.555 1/2:156:0,75,80:0:0:75,80:2570,2843:-289.806,-173.026,-150.448,-116.755,0,-92.6724 1/2:167:0,84,81:0:0:84,81:2909,2912:-328.707,-176.731,-151.445,-151.973,0,-127.589 1/2:266:0,114,147:0:0:114,147:3915,5219:-503.646,-324.179,-289.861,-179.529,0,-135.277 1/2:155:0,62,92:0:0:62,92:2135,3265:-286.498,-198.656,-179.992,-87.8025,0,-60.1078 chr09 17517551 . G A 12921 PASS AB=0.516565;ABP=14.3048;AC=21;AF=0.5;AN=42;AO=2448;CIGAR=1X;DP=4739;DPB=4739;DPRA=0;EPP=5301.42;EPPR=4960.5;GTI=0;LEN=1;MEANALT=1;MQM=22.8272;MQMR=28.495;NS=21;NUMALT=1;ODDS=36.761;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87788;QR=81818;RO=2291;RPL=2;RPP=5301.42;RPPR=4960.5;RPR=2446;RUN=1;SAF=0;SAP=5318.77;SAR=2448;SRF=0;SRP=4977.85;SRR=2291;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:255:118,137:118:4214:137:4920:-213.652,0,-219.054 0/1:252:125,127:125:4468:127:4564:-139.185,0,-233.155 0/1:178:103,75:103:3672:75:2684:-103.905,0,-204.829 0/1:389:207,182:207:7386:182:6496:-269.132,0,-405.193 0/1:436:195,241:195:6962:241:8649:-375.807,0,-357.975 0/1:179:93,86:93:3323:86:3092:-93.0984,0,-177.623 0/1:284:157,127:157:5603:127:4545:-130.405,0,-304.189 0/1:216:104,112:104:3715:112:4004:-145.169,0,-195.474 0/1:314:98,216:98:3486:216:7743:-367.835,0,-144.097 0/1:24:15,9:15:540:9:322:-9.79109,0,-31.142 0/1:21:10,11:10:360:11:396:-11.8729,0,-19.0363 0/1:82:34,48:34:1207:48:1728:-65.3127,0,-59.9109 0/1:275:149,126:149:5322:126:4511:-182.574,0,-289.721 0/1:193:90,103:90:3236:103:3696:-161.117,0,-167.615 0/1:425:198,227:198:7096:227:8156:-358.115,0,-370.269 0/1:196:74,122:74:2643:122:4384:-201.477,0,-122.858 0/1:282:117,165:117:4187:165:5924:-268.83,0,-201.602 0/1:155:79,76:79:2808:76:2728:-94.6704,0,-148 0/1:167:83,84:83:2961:84:3024:-128.196,0,-155.056 0/1:264:150,114:150:5346:114:4075:-134.175,0,-296.427 0/1:152:92,60:92:3283:60:2147:-58.0452,0,-182.147 chr09 17602468 . T G 1650.29 PASS AB=0.49863;ABP=3.02815;AC=14;AF=0.333333;AN=42;AO=547;CIGAR=1X;DP=1928;DPB=1928;DPRA=0.78829;EPP=1190.81;EPPR=2881.44;GTI=3;LEN=1;MEANALT=1;MQM=20.6143;MQMR=20.651;NS=21;NUMALT=1;ODDS=1.08113;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19527;QR=49354;RO=1381;RPL=0;RPP=1190.81;RPPR=2881.44;RPR=547;RUN=1;SAF=547;SAP=1190.81;SAR=0;SRF=1381;SRP=3001.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:18,26:18:644:26:924:-35.5602,0,-20.1278 0/1:76:43,33:43:1531:33:1180:-30.5434,0,-48.2715 0/1:56:28,28:28:1004:28:1004:-35.739,0,-35.5691 0/1:160:85,75:85:3040:75:2684:-91.2292,0,-109.825 0/1:211:101,110:101:3624:110:3948:-142.595,0,-124.29 0/1:62:31,31:31:1103:31:1099:-31.4902,0,-34.759 0/0:146:146,0:146:5227:0:0:0,-43.9504,-240.686 0/1:41:21,20:21:756:20:712:-21.7829,0,-23.5968 0/0:179:179,0:179:6375:0:0:0,-53.8844,-363.549 0/0:12:12,0:12:428:0:0:0,-3.61236,-20.6063 0/1:8:3,5:3:108:5:172:-5.8225,0,-2.61294 0/1:24:15,9:15:540:9:320:-8.27441,0,-18.5 0/0:146:146,0:146:5240:0:0:0,-43.9504,-274.922 0/0:103:103,0:103:3676:0:0:0,-31.0061,-191.211 0/1:83:28,55:28:996:55:1968:-78.1918,0,-28.421 0/1:80:33,47:33:1163:47:1675:-72.0286,0,-42.134 0/1:85:46,39:46:1648:39:1377:-53.5104,0,-68.0545 0/1:66:32,34:32:1143:34:1216:-37.9132,0,-34.5703 0/1:99:65,34:65:2323:34:1212:-34.2033,0,-93.1949 0/0:184:183,1:183:6529:1:36:0,-53.498,-308.842 0/0:63:63,0:63:2256:0:0:0,-18.9649,-106.889 chr09 17602520 . A G 53393.4 PASS AB=0.519521;ABP=10.4708;AC=28;AF=0.666667;AN=42;AO=2759;CIGAR=1X;DP=3846;DPB=3846;DPRA=0;EPP=5950.75;EPPR=2354.72;GTI=1;LEN=1;MEANALT=1;MQM=37.1859;MQMR=39.632;NS=21;NUMALT=1;ODDS=11.1018;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=98114;QR=38939;RO=1087;RPL=1375;RPP=3.07405;RPPR=4.4666;RPR=1384;RUN=1;SAF=1380;SAP=3.01109;SAR=1379;SRF=558;SRP=4.69034;SRR=529;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:69,59:69:2480:59:2087:-124.066,0,-148.292 0/1:132:62,70:62:2232:70:2512:-117.994,0,-106.024 0/1:197:111,86:111:3960:86:3063:-177.4,0,-257.945 0/1:260:124,136:124:4428:136:4823:-240.268,0,-212.426 0/1:375:165,210:165:5911:210:7506:-421.14,0,-267.239 0/1:135:77,58:77:2751:58:2068:-99.0309,0,-157.103 1/1:319:0,319:0:0:319:11311:-789.004,-96.0286,0 0/1:182:70,112:70:2508:112:3954:-269.641,0,-138.689 1/1:295:0,295:0:0:295:10487:-729.264,-88.8039,0 1/1:23:1,22:1:36:22:779:-48.0895,-3.32542,0 0/1:11:5,6:5:176:6:212:-9.48352,0,-4.92858 0/1:57:22,35:22:788:35:1252:-72.9625,0,-38.9973 1/1:337:0,337:0:0:337:12020:-884.48,-101.447,0 1/1:239:0,239:0:0:239:8481:-621.429,-71.9462,0 0/1:157:88,69:88:3168:69:2441:-135.17,0,-161.521 0/1:149:84,65:84:3004:65:2327:-125.263,0,-170.748 0/1:151:71,80:71:2537:80:2876:-154.05,0,-137.042 0/1:155:80,75:80:2872:75:2665:-141.902,0,-161.019 0/1:165:55,110:55:1980:110:3890:-214.683,0,-83.8162 1/1:276:3,273:3:108:273:9725:-580.611,-74.6021,0 1/1:103:0,103:0:0:103:3635:-229.06,-31.0061,0 chr09 17754951 . A G 1537.22 PASS AB=0.221027;ABP=568.81;AC=8;AF=0.190476;AN=42;AO=199;CIGAR=1X;DP=1627;DPB=1627;DPRA=1.85679;EPP=435.133;EPPR=3103.87;GTI=2;LEN=1;MEANALT=1;MQM=51.6633;MQMR=59.9363;NS=21;NUMALT=1;ODDS=5.55923;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7026;QR=50704;RO=1428;RPL=0;RPP=435.133;RPPR=3103.87;RPR=199;RUN=1;SAF=0;SAP=435.133;SAR=199;SRF=0;SRP=3103.87;SRR=1428;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:76,25:76:2676:25:871:-47.0784,0,-210.681 0/1:84:75,9:75:2657:9:309:-2.78799,0,-214.089 0/1:94:76,18:76:2732:18:629:-28.5304,0,-217.825 0/0:63:63,0:63:2235:0:0:0,-18.9649,-201.414 0/0:159:155,4:155:5523:4:140:0,-35.0106,-484.345 0/0:64:64,0:64:2288:0:0:0,-19.2659,-205.244 0/0:86:84,2:84:2974:2:72:0,-19.069,-261.074 0/1:119:77,42:77:2718:42:1499:-98.5216,0,-209.042 0/1:195:151,44:151:5386:44:1572:-82.4294,0,-425.902 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/0:4:4,0:4:132:0:0:0,-1.20412,-12.2065 0/0:25:23,2:23:801:2:72:0,-0.698722,-65.5797 0/1:93:80,13:80:2833:13:456:-13.1554,0,-227.213 0/0:80:75,5:75:2634:5:176:0,-8.07321,-221.297 0/0:98:98,0:98:3468:0:0:0,-29.5009,-311.477 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/1:74:53,21:53:1873:21:734:-43.6877,0,-146.571 0/1:77:64,13:64:2266:13:460:-18.4849,0,-181.023 0/0:71:71,0:71:2524:0:0:0,-21.3731,-227.413 0/0:35:34,1:34:1220:1:36:0,-6.94682,-106.518 chr09 17754974 . A G 1510.16 PASS AB=0.218418;ABP=586.331;AC=8;AF=0.190476;AN=42;AO=200;CIGAR=1X;DP=1647;DPB=1647;DPRA=1.8627;EPP=437.305;EPPR=3123.44;GTI=2;LEN=1;MEANALT=1.07692;MQM=51.735;MQMR=59.9765;NS=21;NUMALT=1;ODDS=1.31282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7043;QR=51576;RO=1445;RPL=0;RPP=437.305;RPPR=3123.44;RPR=200;RUN=1;SAF=0;SAP=437.305;SAR=200;SRF=0;SRP=3140.79;SRR=1445;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:77,26:77:2756:26:911:-50.2309,0,-217.276 0/1:84:75,8:75:2683:8:284:-0.568569,0,-216.448 0/1:96:78,18:78:2796:18:643:-29.1497,0,-222.981 0/0:61:61,0:61:2192:0:0:0,-18.3628,-197.545 0/0:164:160,4:160:5697:4:135:0,-36.9298,-500.411 0/0:67:66,0:66:2376:0:0:0,-19.868,-212.84 0/0:93:89,4:89:3169:4:131:0,-15.8867,-273.325 0/1:120:79,41:79:2799:41:1446:-92.8282,0,-216.028 0/1:197:152,45:152:5452:45:1612:-85.4116,0,-431.504 0/0:16:16,0:16:567:0:0:0,-4.81648,-51.3607 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:25:23,2:23:820:2:72:0,-0.698722,-67.2955 0/1:94:81,13:81:2873:13:460:-13.2128,0,-230.51 0/0:74:70,4:70:2496:4:144:0,-9.14319,-211.76 0/0:98:98,0:98:3508:0:0:0,-29.5009,-315.93 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:57:57,0:57:2026:0:0:0,-17.1587,-182.611 0/1:75:54,21:54:1932:21:725:-42.6694,0,-151.579 0/1:78:65,13:65:2306:13:444:-16.7359,0,-184.32 0/0:73:73,0:73:2585:0:0:0,-21.9752,-232.898 0/0:35:34,1:34:1215:1:36:0,-6.94682,-106.067 chr09 17755003 . G A 1558.64 PASS AB=0.219114;ABP=590.988;AC=8;AF=0.190476;AN=42;AO=201;CIGAR=1X;DP=1674;DPB=1674;DPRA=1.88499;EPP=439.476;EPPR=3197.25;GTI=2;LEN=1;MEANALT=1.07692;MQM=51.7711;MQMR=59.9545;NS=21;NUMALT=1;ODDS=5.18806;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7136;QR=52735;RO=1471;RPL=201;RPP=439.476;RPPR=3197.25;RPR=0;RUN=1;SAF=0;SAP=439.476;SAR=201;SRF=0;SRP=3197.25;SRR=1471;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:77,26:77:2768:26:906:-49.6018,0,-218.355 0/1:85:76,9:76:2724:9:324:-3.84412,0,-219.816 0/1:98:79,19:79:2836:19:684:-32.1476,0,-225.977 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 0/0:167:163,4:163:5841:4:144:0,-37.139,-512.666 0/0:66:66,0:66:2352:0:0:0,-19.868,-211.002 0/0:93:91,2:91:3256:2:72:0,-21.1763,-286.431 0/1:123:81,42:81:2916:42:1466:-94.8386,0,-225.647 0/1:200:155,45:155:5560:45:1620:-85.2198,0,-440.186 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:27:25,2:25:881:2:68:0,-1.67689,-73.1549 0/1:94:81,13:81:2904:13:468:-13.9296,0,-233.299 0/0:81:76,4:76:2736:4:140:0,-11.5866,-233.626 0/0:100:100,0:100:3580:0:0:0,-30.103,-322.407 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/0:57:56,0:56:1989:0:0:0,-16.8577,-179.07 0/1:77:56,21:56:2012:21:744:-43.6678,0,-158.174 0/1:78:65,13:65:2336:13:464:-18.5432,0,-187.019 0/0:73:73,0:73:2620:0:0:0,-21.9752,-236.047 0/0:36:35,1:35:1252:1:36:0,-7.24785,-109.396 chr09 17790123 . G A 25974.9 PASS AB=0.83237;ABP=169.009;AC=39;AF=0.928571;AN=42;AO=1135;CIGAR=1X;DP=1189;DPB=1189;DPRA=0;EPP=2271.9;EPPR=4.45795;GTI=1;LEN=1;MEANALT=1;MQM=59.9568;MQMR=60;NS=21;NUMALT=1;ODDS=13.6987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40690;QR=1940;RO=54;RPL=23;RPP=2271.9;RPPR=111.745;RPR=1112;RUN=1;SAF=1135;SAP=2467.63;SAR=0;SRF=31;SRP=5.5839;SRR=23;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:45:4,41:4:144:41:1476:-119.823,-0.232733,0 1/1:61:2,59:2:72:59:2124:-184.592,-11.5261,0 1/1:65:3,62:3:104:62:2224:-190.721,-9.86414,0 1/1:47:2,45:2:72:45:1616:-138.893,-7.31169,0 1/1:94:1,93:1:36:93:3315:-294.971,-24.6985,0 1/1:27:2,25:2:72:25:900:-74.4843,-1.29109,0 1/1:106:0,106:0:0:106:3801:-342.278,-31.9092,0 0/1:50:5,45:5:180:45:1615:-130.159,0,-1.50056 1/1:54:0,54:0:0:54:1925:-173.527,-16.2556,0 1/1:25:0,25:0:0:25:896:-80.9604,-7.52575,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 1/1:71:0,71:0:0:71:2548:-229.57,-21.3731,0 1/1:159:0,159:0:0:159:5698:-512.937,-47.8638,0 1/1:65:5,60:5:180:60:2156:-177.754,-3.01489,0 1/1:39:3,36:3:108:36:1294:-106.688,-1.665,0 1/1:32:2,30:2:72:30:1075:-90.2261,-2.79624,0 0/1:63:14,49:14:504:49:1760:-139.719,0,-26.7332 0/1:60:10,50:10:360:50:1792:-143.501,0,-14.6825 1/1:28:0,28:0:0:28:993:-89.6825,-8.42884,0 1/1:70:1,69:1:36:69:2474:-219.315,-17.4738,0 chr09 17790150 . C T 41347.5 PASS AB=0.778711;ABP=243.886;AC=34;AF=0.809524;AN=42;AO=1550;CIGAR=1X;DP=1668;DPB=1668;DPRA=0;EPP=3368.79;EPPR=145.48;GTI=5;LEN=1;MEANALT=1.09524;MQM=59.9774;MQMR=60;NS=21;NUMALT=1;ODDS=10.432;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55281;QR=3756;RO=105;RPL=1114;RPP=647.005;RPPR=231.015;RPR=436;RUN=1;SAF=1114;SAP=647.005;SAR=436;SRF=94;SRP=145.48;SRR=11;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:12,41:12:428:41:1472:-116.822,0,-22.9042 1/1:60:5,55:5:180:55:1959:-160.033,-1.50974,0 1/1:66:6,60:6:216:60:2133:-172.446,-0.0774679,0 0/1:50:6,44:6:216:44:1555:-125.189,0,-4.73901 1/1:99:9,90:9:324:90:3205:-259.167,-0.296116,0 0/1:28:3,25:3:108:25:887:-71.7193,0,-1.64633 1/1:105:0,105:0:0:105:3755:-338.138,-31.6082,0 0/1:55:12,43:12:432:43:1536:-121.976,0,-22.6645 1/1:380:0,380:0:0:380:13580:-1221.94,-114.391,0 1/1:24:0,24:0:0:24:838:-75.7363,-7.22472,0 0/1:10:2,8:2:72:8:284:-22.8931,0,-3.82642 0/1:22:3,19:3:104:19:684:-55.2677,0,-3.08015 1/1:74:0,74:0:0:74:2640:-237.847,-22.2762,0 1/1:159:0,159:0:0:159:5668:-510.24,-47.8638,0 1/1:66:5,61:5:180:61:2168:-178.832,-3.31592,0 1/1:88:7,81:7:252:81:2899:-238.116,-3.46168,0 1/1:94:7,87:7:248:87:3108:-257.283,-5.63263,0 0/1:74:22,46:22:792:46:1652:-128.145,0,-50.781 0/1:65:6,52:6:204:52:1847:-148.709,0,-0.895062 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 1/1:68:0,68:0:0:68:2411:-217.244,-20.47,0 chr09 17831398 . TC TT,CT 38474.1 PASS AB=0.534802,0.465198;ABP=14.9505,14.9505;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1283,528;CIGAR=1M1X,2X;DP=1811;DPB=1811;DPRA=0,1.03323;EPP=2789.01,1149.55;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.61905,2;MQM=59.9914,59.9735;MQMR=0;NS=21;NUMALT=2;ODDS=11.3156;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46002,18903;QR=0;RO=0;RPL=1283,528;RPP=2789.01,1149.55;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2789.01,1149.55;SAR=1283,528;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:33:0,15,18:0:0:15,18:540,634:-96.0334,-51.9686,-47.4532,-44.4211,0,-39.0025 1/2:47:0,29,18:0:0:29,18:1036,638:-136.798,-52.3297,-43.5998,-84.824,0,-79.4055 1/2:88:0,41,47:0:0:41,47:1468,1679:-256.964,-137.248,-124.905,-120.074,0,-105.925 1/2:137:0,86,51:0:0:86,51:3092,1832:-402.068,-149.808,-123.92,-252.618,0,-237.266 1/2:113:0,66,47:0:0:66,47:2376,1690:-332.108,-138.239,-118.371,-194.229,0,-180.081 1/2:167:0,62,105:0:0:62,105:2228,3766:-489.292,-307.531,-288.867,-182.12,0,-150.512 1/1:132:0,132,0:0:0:132,0:4732,0:-426.033,-39.736,0,-426.033,-39.736,-426.033 1/2:118:0,65,53:0:0:65,53:2336,1896:-345.537,-154.963,-135.396,-190.932,0,-174.978 1/1:142:0,142,0:0:0:142,0:5064,0:-455.907,-42.7463,0,-455.907,-42.7463,-455.907 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:47:0,35,12:0:0:35,12:1252,424:-136.978,-34.8835,-24.3474,-102.449,0,-98.8367 1/1:123:0,123,0:0:0:123,0:4420,0:-397.97,-37.0267,0,-397.97,-37.0267,-397.97 1/1:120:0,120,0:0:0:120,0:4312,0:-388.252,-36.1236,0,-388.252,-36.1236,-388.252 1/2:120:0,55,65:0:0:55,65:1957,2330:-349.877,-190.386,-173.83,-159.847,0,-140.28 1/2:33:0,21,12:0:0:21,12:752,432:-96.9343,-35.6088,-29.2872,-61.6846,0,-58.0723 1/2:27:0,12,15:0:0:12,15:432,536:-79.3098,-44.0596,-40.4472,-35.6088,0,-31.0934 1/2:116:0,50,66:0:0:50,66:1785,2362:-338.492,-192.97,-177.919,-145.879,0,-126.011 1/2:89:0,70,19:0:0:70,19:2516,684:-261.43,-56.1708,-35.0987,-205.619,0,-199.9 1/1:93:0,93,0:0:0:93,0:3340,0:-300.816,-27.9958,0,-300.816,-27.9958,-300.816 1/1:52:0,52,0:0:0:52,0:1860,0:-167.68,-15.6536,0,-167.68,-15.6536,-167.68 chr09 17952734 . G C 4535.86 PASS AB=0.509434;ABP=3.42001;AC=15;AF=0.357143;AN=42;AO=272;CIGAR=1X;DP=882;DPB=882;DPRA=0.715951;EPP=559.418;EPPR=1316.77;GTI=1;LEN=1;MEANALT=1.0625;MQM=50.1912;MQMR=59.7734;NS=21;NUMALT=1;ODDS=1.2835;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9686;QR=21540;RO=609;RPL=4;RPP=559.418;RPPR=1316.77;RPR=268;RUN=1;SAF=0;SAP=593.651;SAR=272;SRF=0;SRP=1325.44;SRR=609;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:10,15:10:345:15:531:-40.4665,0,-23.8551 0/1:11:1,10:1:36:10:360:-29.2623,0,-0.286945 0/1:53:34,19:34:1220:19:680:-44.5999,0,-94.1522 0/1:59:23,36:23:816:36:1280:-96.5461,0,-56.0009 0/1:51:22,29:22:788:29:1023:-76.1027,0,-55.8923 0/1:37:19,18:19:680:18:640:-46.4943,0,-50.3911 0/0:45:45,0:45:1580:0:0:0,-13.5463,-142.418 0/1:46:32,14:32:1137:14:504:-31.6989,0,-88.7896 0/0:69:69,0:69:2455:0:0:0,-20.7711,-221.015 0/1:5:4,1:4:144:1:36:-2.08408,0,-11.8085 0/1:14:4,10:4:144:10:356:-27.989,0,-9.0992 0/1:33:16,17:16:568:17:608:-44.3135,0,-41.5179 0/0:102:102,0:102:3607:0:0:0,-30.7051,-324.678 0/0:28:28,0:28:992:0:0:0,-8.42884,-89.5806 0/1:74:25,48:25:861:48:1715:-131.817,0,-55.4665 0/1:8:4,4:4:144:4:144:-10.849,0,-10.9054 0/1:9:7,2:7:248:2:72:-4.10179,0,-19.9549 0/1:51:24,27:24:852:27:972:-72.2152,0,-61.6161 0/1:54:34,20:34:1184:20:693:-45.9455,0,-90.6063 0/0:84:82,2:82:2918:2:72:0,-18.467,-255.896 0/0:24:24,0:24:821:0:0:0,-7.22472,-74.2025 chr09 17952753 . G C 12369.4 PASS AB=0.480663;ABP=4.77387;AC=27;AF=0.642857;AN=42;AO=615;CIGAR=1X;DP=900;DPB=900;DPRA=0;EPP=1338.47;EPPR=619.708;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.7626;MQMR=50.1232;NS=21;NUMALT=1;ODDS=1.16222;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21979;QR=10138;RO=284;RPL=615;RPP=1338.47;RPPR=619.708;RPR=0;RUN=1;SAF=0;SAP=1338.47;SAR=615;SRF=0;SRP=619.708;SRR=284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:16,9:16:568:9:324:-21.9801,0,-43.7893 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.2623 0/1:54:20,34:20:716:34:1220:-93.8512,0,-47.2669 0/1:58:35,23:35:1252:23:824:-57.0236,0,-94.1273 0/1:56:34,22:34:1207:22:788:-54.3871,0,-90.9589 0/1:38:18,20:18:644:20:716:-53.3286,0,-46.544 1/1:45:0,45:0:0:45:1616:-145.66,-13.5464,0 0/1:49:16,33:16:572:33:1184:-92.1178,0,-36.9024 1/1:68:0,68:0:0:68:2430:-218.898,-20.47,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.78305 0/1:14:10,4:10:356:4:144:-9.0992,0,-27.9954 0/1:32:16,16:16:572:16:576:-42.542,0,-41.3838 1/1:104:0,104:0:0:104:3702:-333.249,-31.3071,0 1/1:28:0,28:0:0:28:989:-89.3187,-8.42884,0 0/1:74:50,24:50:1780:24:860:-55.4456,0,-137.711 0/1:8:4,4:4:140:4:144:-10.9054,0,-10.4884 0/1:10:2,8:2:72:8:288:-23.2489,0,-3.80076 0/1:56:31,25:31:1107:25:884:-62.9926,0,-82.6773 0/1:52:19,33:19:684:33:1188:-91.575,0,-45.7029 1/1:85:2,83:2:72:83:2980:-261.513,-18.768,0 1/1:27:0,26:0:0:26:906:-81.4941,-7.82678,0 chr09 17952755 . GGCC GGCT,AGCT 16518.1 PASS AB=0.448141,0.547945;ABP=14.947,13.2132;AC=27,15;AF=0.642857,0.357143;AN=42;AO=545,282;CIGAR=3M1X,1X2M1X;DP=832;DPB=832;DPRA=0,0.76188;EPP=1186.46,615.366;EPPR=0;GTI=0;LEN=1,4;MEANALT=2,2.125;MQM=59.855,50.0957;MQMR=0;NS=21;NUMALT=2;ODDS=0.155872;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18799,9882;QR=0;RO=0;RPL=545,282;RPP=1186.46,615.366;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1186.46,615.366;SAR=545,282;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:23:0,9,14:0:0:9,14:297,488:-63.9093,-39.9051,-37.1958,-24.3409,0,-20.1265 1/2:10:0,1,9:0:0:1,9:36,320:-29.2109,-26.2728,-25.9718,-3.29724,0,-0.587975 1/2:52:0,32,20:0:0:32,20:1123,706:-148.143,-56.7485,-47.1155,-91.7427,0,-85.7221 1/2:56:0,20,35:0:0:20,35:689,1224:-154.449,-98.4857,-92.4651,-55.9774,0,-45.4413 1/2:54:0,20,34:0:0:20,34:697,1156:-150.008,-93.322,-87.3014,-57.0301,0,-46.795 1/2:38:0,20,18:0:0:20,18:685,634:-107.284,-51.6837,-45.6631,-55.9469,0,-50.5283 1/1:43:0,43,0:0:0:43,0:1528,0:-137.743,-12.9443,0,-137.743,-12.9443,-137.743 1/2:42:0,26,16:0:0:26,16:883,556:-116.993,-45.3884,-37.5617,-71.9487,0,-67.1322 1/1:63:0,63,0:0:0:63,0:2133,0:-192.229,-18.9649,0,-192.229,-18.9649,-192.229 1/2:4:0,3,1:0:0:3,1:93,36:-10.7152,-3.2882,-2.38511,-7.77364,0,-7.47261 1/2:14:0,4,10:0:0:4,10:140,353:-40.3252,-28.9349,-27.7308,-11.7405,0,-8.73016 1/2:29:0,12,16:0:0:12,16:394,558:-76.6559,-44.8286,-41.2162,-31.828,0,-27.0115 1/1:90:0,88,0:0:0:88,0:2993,0:-269.297,-26.4906,0,-269.297,-26.4906,-269.297 1/1:24:0,23,0:0:0:23,0:788,0:-70.9183,-6.92369,0,-70.9183,-6.92369,-70.9183 1/2:72:0,22,50:0:0:22,50:784,1765:-207.501,-143.595,-136.972,-64.2613,0,-49.2098 1/2:7:0,3,4:0:0:3,4:108,137:-20.2408,-11.4205,-10.5174,-9.17208,0,-7.96796 1/2:8:0,6,2:0:0:6,2:216,72:-23.8345,-6.209,-4.40282,-17.9843,0,-17.3823 1/2:53:0,22,31:0:0:22,31:771,1093:-151.675,-88.9631,-82.3404,-63.0623,0,-53.7304 1/2:49:0,29,20:0:0:29,20:977,712:-137.026,-57.8665,-49.1366,-79.5055,0,-73.4849 1/1:79:0,77,2:0:0:77,2:2692,72:-242.082,-23.1793,0,-236.223,-16.9618,-235.621 1/1:22:0,22,0:0:0:22,0:772,0:-69.8013,-6.62266,0,-69.8013,-6.62266,-69.8013 chr09 17988467 . TT AC,TC 29634.6 PASS AB=0.531765,0.468235;ABP=10.4597,10.4597;AC=28,14;AF=0.666667,0.333333;AN=42;AO=941,401;CIGAR=2X,1M1X;DP=1342;DPB=1342;DPRA=0,0.981867;EPP=1737.62,797.352;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.7619,2;MQM=59.8257,59.6484;MQMR=0;NS=21;NUMALT=2;ODDS=0.641654;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33315,14312;QR=0;RO=0;RPL=37,9;RPP=1737.62,797.352;RPPR=0;RPR=904,392;RUN=1,1;SAF=941,401;SAP=2046.37,873.771;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,35,16:0:0:35,16:1216,557:-144.494,-45.6391,-35.103,-99.2026,0,-94.3861 1/2:20:0,18,2:0:0:18,2:648,72:-59.1082,-6.23466,-0.816122,-53.2333,0,-52.6313 1/2:71:0,35,36:0:0:35,36:1245,1292:-207.207,-105.747,-95.2106,-101.818,0,-90.9807 1/2:63:0,39,24:0:0:39,24:1355,836:-178.465,-68.3273,-56.5871,-110.486,0,-103.261 1/2:83:0,29,54:0:0:29,54:1010,1931:-239.838,-157.71,-148.98,-82.4785,0,-66.2229 1/2:44:0,27,17:0:0:27,17:963,608:-128.436,-49.9345,-41.8067,-78.8587,0,-73.7412 1/1:101:0,100,1:0:0:100,1:3542,36:-317.787,-30.103,0,-314.849,-26.8058,-314.548 1/2:107:0,38,69:0:0:38,69:1329,2459:-308.904,-200.789,-189.349,-108.467,0,-87.6962 1/1:104:0,104,0:0:0:104,0:3669,0:-330.384,-31.3071,0,-330.384,-31.3071,-330.384 1/1:14:0,14,0:0:0:14,0:493,0:-44.697,-4.21442,0,-44.697,-4.21442,-44.697 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/2:55:0,18,37:0:0:18,37:643,1326:-160.761,-108.337,-102.918,-52.7816,0,-41.6435 1/1:51:0,51,0:0:0:51,0:1832,0:-165.154,-15.3525,0,-165.154,-15.3525,-165.154 1/1:63:0,63,0:0:0:63,0:2211,0:-199.254,-18.9649,0,-199.254,-18.9649,-199.254 1/2:119:0,72,47:0:0:72,47:2552,1684:-345.581,-137.683,-116.008,-208.255,0,-194.107 1/2:4:0,3,1:0:0:3,1:106,36:-11.9251,-3.29724,-2.39415,-8.98601,0,-8.68498 1/2:15:0,8,7:0:0:8,7:288,247:-43.6486,-20.1428,-17.7346,-23.8592,0,-21.752 1/2:140:0,85,55:0:0:85,55:3020,1976:-407.633,-161.553,-135.966,-246.437,0,-229.881 1/2:73:0,44,29:0:0:44,29:1565,1036:-212.363,-84.824,-71.5787,-127.895,0,-119.165 1/1:67:0,65,2:0:0:65,2:2333,72:-209.87,-19.567,0,-203.995,-13.3323,-203.393 1/1:92:0,92,0:0:0:92,0:3259,0:-293.473,-27.6948,0,-293.473,-27.6948,-293.473 chr09 17988479 . A C 4824.81 PASS AB=0.30873;ABP=403.395;AC=12;AF=0.285714;AN=42;AO=394;CIGAR=1X;DP=2275;DPB=2275;DPRA=0.708404;EPP=858.57;EPPR=4083.21;GTI=3;LEN=1;MEANALT=1.13333;MQM=59.7183;MQMR=59.9202;NS=21;NUMALT=1;ODDS=6.5148;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13996;QR=65627;RO=1879;RPL=393;RPP=849.907;RPPR=4.26881;RPR=1;RUN=1;SAF=393;SAP=849.907;SAR=1;SRF=923;SRP=4.26881;SRR=956;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:97,16:97:3400:16:576:-18.1586,0,-272.202 0/0:42:40,2:40:1403:2:72:0,-5.80654,-119.73 0/1:90:55,35:55:1921:35:1256:-86.2526,0,-146.073 0/1:99:74,25:74:2606:25:878:-49.5269,0,-204.956 0/1:152:98,54:98:3383:54:1910:-126.348,0,-258.934 0/1:60:43,17:43:1507:17:612:-37.3516,0,-117.861 0/0:188:188,0:188:6501:0:0:0,-56.5936,-584.688 0/1:141:74,67:74:2607:67:2381:-172.097,0,-192.435 0/0:177:177,0:177:6181:0:0:0,-53.2823,-556.354 0/0:32:32,0:32:1097:0:0:0,-9.63296,-99.029 0/1:12:8,4:8:276:4:144:-9.70126,0,-21.5629 0/1:83:47,36:47:1637:36:1288:-91.0725,0,-122.631 0/0:129:129,0:129:4460:0:0:0,-38.8329,-401.345 0/0:140:140,0:140:4939:0:0:0,-42.1442,-444.665 0/1:177:130,47:130:4521:47:1662:-96.5676,0,-353.786 0/0:12:11,1:11:384:1:36:0,-0.0140849,-31.2964 0/1:26:20,5:20:687:5:180:-8.72445,0,-54.3307 0/1:190:135,54:135:4738:54:1917:-115.546,0,-369.326 0/1:117:88,29:88:3126:29:1012:-56.168,0,-246.346 0/0:140:138,2:138:4778:2:72:0,-35.3075,-423.35 0/0:155:155,0:155:5475:0:0:0,-46.6596,-492.827 chr09 17988488 . C T 4738.44 PASS AB=0.309904;ABP=395.984;AC=12;AF=0.285714;AN=42;AO=393;CIGAR=1X;DP=2268;DPB=2268;DPRA=0.707692;EPP=856.399;EPPR=4072.35;GTI=3;LEN=1;MEANALT=1;MQM=59.7277;MQMR=59.9498;NS=21;NUMALT=1;ODDS=1.98006;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13963;QR=65567;RO=1874;RPL=393;RPP=856.399;RPPR=15.0658;RPR=0;RUN=1;SAF=393;SAP=856.399;SAR=0;SRF=886;SRP=15.0658;SRR=988;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:95,16:95:3331:16:572:-18.3991,0,-266.593 0/0:41:39,2:39:1374:2:68:0,-5.88452,-117.499 0/1:91:55,36:55:1876:36:1249:-85.3134,0,-141.718 0/1:95:73,22:73:2586:22:788:-42.6422,0,-204.389 0/1:149:97,52:97:3418:52:1868:-123.541,0,-262.981 0/1:56:39,17:39:1392:17:600:-37.4715,0,-108.721 0/0:183:183,0:183:6392:0:0:0,-55.0885,-575.289 0/1:145:77,68:77:2667:68:2423:-174.672,0,-196.625 0/0:182:182,0:182:6376:0:0:0,-54.7875,-573.89 0/0:30:30,0:30:1071:0:0:0,-9.0309,-96.697 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 0/1:82:46,36:46:1604:36:1266:-89.5271,0,-119.959 0/0:132:132,0:132:4662:0:0:0,-39.736,-419.517 0/0:141:141,0:141:4891:0:0:0,-42.4452,-440.346 0/1:177:130,47:130:4584:47:1662:-96.5651,0,-359.448 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/1:28:21,7:21:743:7:252:-13.9642,0,-58.7645 0/1:189:134,55:134:4622:55:1959:-119.686,0,-359.255 0/1:117:89,28:89:3134:28:1004:-55.4554,0,-247.068 0/0:144:142,2:142:5012:2:72:0,-36.5116,-444.393 0/0:151:150,0:150:5148:0:0:0,-45.1545,-463.112 chr09 18041595 . G A 13648.9 PASS AB=0.444444;ABP=29.068;AC=28;AF=0.666667;AN=42;AO=736;CIGAR=1X;DP=1278;DPB=1278;DPRA=0;EPP=1601.21;EPPR=1175.61;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.9918;MQMR=60;NS=21;NUMALT=1;ODDS=4.91176;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26087;QR=19238;RO=540;RPL=0;RPP=1601.21;RPPR=1175.61;RPR=736;RUN=1;SAF=0;SAP=1601.21;SAR=736;SRF=0;SRP=1175.61;SRR=540;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:37,32:37:1328:32:1140:-82.1381,0,-99.0512 0/1:38:28,10:28:980:10:356:-20.9421,0,-77.071 0/1:81:37,44:37:1332:44:1576:-117.748,0,-95.799 0/1:52:31,21:31:1112:21:747:-51.9007,0,-84.7378 0/1:141:76,64:76:2706:64:2277:-162.834,0,-201.427 0/1:44:28,16:28:1004:16:572:-38.5681,0,-77.4305 1/1:84:0,84:0:0:84:2968:-267.352,-25.2865,0 0/1:92:49,43:49:1751:43:1505:-108.045,0,-130.179 1/1:59:0,58:0:0:58:2050:-184.519,-17.4597,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:26:13,13:13:438:13:464:-34.2707,0,-31.9154 1/1:42:0,42:0:0:42:1499:-135.204,-12.6433,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:146:85,61:85:3048:61:2134:-148.374,0,-230.599 0/1:57:34,23:34:1203:23:812:-56.2422,0,-91.4163 0/1:42:27,15:27:960:15:540:-36.2933,0,-74.073 0/1:119:75,44:75:2675:44:1539:-102.978,0,-205.173 0/1:57:17,40:17:597:40:1436:-112.379,0,-36.8974 1/1:47:1,46:1:32:46:1617:-142.615,-10.9491,0 1/1:51:0,51:0:0:51:1811:-163.271,-15.3525,0 chr09 18271224 . G T 96698 PASS AB=0.545825;ABP=56.7443;AC=28;AF=0.666667;AN=42;AO=3678;CIGAR=1X;DP=5024;DPB=5024;DPRA=0;EPP=7989.69;EPPR=2919.3;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9774;MQMR=59.9911;NS=21;NUMALT=1;ODDS=1.24033;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=130726;QR=47640;RO=1343;RPL=2112;RPP=179.016;RPPR=17.6027;RPR=1566;RUN=1;SAF=2112;SAP=179.016;SAR=1566;SRF=719;SRP=17.6027;SRR=624;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:209:109,100:109:3856:100:3565:-258.142,0,-284.322 0/1:206:102,104:102:3642:104:3709:-271.999,0,-265.972 0/1:192:88,104:88:3126:104:3677:-273.313,0,-223.769 0/1:346:144,202:144:5121:202:7204:-544.203,0,-356.878 0/1:391:183,208:183:6486:208:7391:-547.535,0,-466.125 0/1:324:149,174:149:5295:174:6184:-459.068,0,-379.094 1/1:395:2,393:2:72:393:13935:-1247.1,-112.07,0 0/1:177:99,78:99:3524:78:2769:-196.168,0,-264.086 1/1:487:1,486:1:36:486:17291:-1552.23,-143.003,0 1/1:49:0,49:0:0:49:1738:-156.703,-14.7505,0 0/1:11:6,5:6:212:5:180:-13.2407,0,-16.1135 0/1:89:37,52:37:1293:52:1856:-140.528,0,-89.8773 1/1:405:0,404:0:0:404:14346:-1290.54,-121.616,0 1/1:340:1,339:1:32:339:12089:-1084.66,-99.1509,0 0/1:303:156,147:156:5486:147:5251:-381.515,0,-402.661 0/1:187:70,117:70:2488:117:4138:-316.311,0,-167.879 0/1:161:69,92:69:2467:92:3251:-244.343,0,-173.818 0/1:176:78,98:78:2784:98:3460:-258.63,0,-197.82 0/1:174:47,127:47:1648:127:4514:-354.048,0,-96.2258 1/1:292:2,290:2:72:290:10279:-918.202,-81.064,0 1/1:110:0,109:0:0:109:3899:-350.744,-32.8123,0 chr09 18271241 . CTAGC CTAGT 31468.8 PASS AB=0.524981;ABP=10.2793;AC=28;AF=0.666667;AN=42;AO=1550;CIGAR=4M1X;DP=2203;DPB=2203;DPRA=0;EPP=3316.88;EPPR=1330;GTI=1;LEN=1;MEANALT=1.7619;MQM=59.9665;MQMR=59.9841;NS=21;NUMALT=1;ODDS=2.8816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54966;QR=22291;RO=627;RPL=1544;RPP=3316.88;RPPR=1330;RPR=6;RUN=1;SAF=0;SAP=3368.79;SAR=1550;SRF=0;SRP=1364.52;SRR=627;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:72,49:72:2550:49:1718:-118.117,0,-192.964 0/1:101:48,53:48:1723:53:1874:-138.531,0,-124.952 0/1:112:50,61:50:1785:61:2192:-163.614,0,-127.159 0/1:131:56,74:56:1977:74:2622:-196.708,0,-138.71 0/1:138:73,65:73:2604:65:2313:-166.887,0,-193.067 0/1:87:43,43:43:1532:43:1525:-111.342,0,-111.974 1/1:133:1,131:1:36:131:4625:-412.813,-36.4975,0 0/1:91:49,41:49:1735:41:1427:-101.413,0,-129.129 1/1:212:0,208:0:0:208:7396:-665.341,-62.6142,0 1/1:23:0,18:0:0:18:648:-58.2921,-5.41854,0 0/1:5:3,1:3:108:1:36:-2.04928,0,-8.53366 0/1:36:10,22:10:357:22:792:-61.6171,0,-22.4839 1/1:150:0,149:0:0:149:5308:-477.578,-44.8535,0 1/1:188:1,185:1:30:185:6573:-588.628,-53.3019,0 0/1:148:73,75:73:2597:75:2681:-196.98,0,-189.426 0/1:89:27,62:27:960:62:2190:-170.571,0,-59.9241 0/1:82:40,42:40:1420:42:1459:-106.914,0,-103.413 0/1:121:60,58:60:2135:58:2061:-149.878,0,-156.537 0/1:78:20,58:20:706:58:1993:-156.155,0,-40.3837 1/1:113:1,112:1:36:112:3994:-356.049,-30.4181,0 1/1:43:0,43:0:0:43:1539:-138.803,-12.9443,0 chr09 18311946 . AAATC GAATA,GAATC 28801.7 PASS AB=0.477578,0.520179;ABP=6.90532,6.16526;AC=28,14;AF=0.666667,0.333333;AN=42;AO=925,466;CIGAR=1X3M1X,1X4M;DP=1393;DPB=1393;DPRA=0,1.02143;EPP=2011.62,1014.92;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.80952,2.13333;MQM=59.8324,59.6738;MQMR=0;NS=21;NUMALT=2;ODDS=11.2951;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32521,16671;QR=0;RO=0;RPL=0,0;RPP=2011.62,1014.92;RPPR=0;RPR=925,466;RUN=1,1;SAF=925,466;SAP=2011.62,1014.92;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:63:0,40,23:0:0:40,23:1399,824:-181.359,-67.549,-55.5078,-114.165,0,-107.241 1/2:58:0,31,26:0:0:31,26:1097,936:-165.734,-76.3824,-67.0505,-89.3582,0,-81.5314 1/2:71:0,33,38:0:0:33,38:1158,1349:-204.482,-110.265,-100.331,-94.5701,0,-83.1309 1/2:87:0,40,47:0:0:40,47:1404,1692:-252.671,-138.409,-126.368,-114.617,0,-100.468 1/2:175:0,72,103:0:0:72,103:2528,3677:-505.773,-300.055,-278.381,-206.072,0,-175.066 1/2:58:0,35,23:0:0:35,23:1238,813:-167.161,-66.5616,-56.0255,-100.952,0,-94.0287 1/1:122:0,122,0:0:0:122,0:4289,0:-386.174,-36.7257,0,-386.174,-36.7257,-386.174 1/2:53:0,28,25:0:0:28,25:986,900:-154.007,-73.7953,-65.3664,-80.568,0,-73.0423 1/1:109:0,107,2:0:0:107,2:3783,72:-340.315,-32.2102,0,-334.44,-25.9755,-333.838 1/1:10:0,10,0:0:0:10,0:358,0:-32.5629,-3.0103,0,-32.5629,-3.0103,-32.5629 1/2:7:0,3,4:0:0:3,4:108,144:-20.9184,-12.1061,-11.203,-9.17208,0,-7.96796 1/2:31:0,15,16:0:0:15,16:517,576:-89.3408,-47.3539,-42.8384,-42.3388,0,-37.5223 1/1:102:0,102,0:0:0:102,0:3565,0:-320.96,-30.7051,0,-320.96,-30.7051,-320.96 1/1:71:0,71,0:0:0:71,0:2490,0:-224.356,-21.3731,0,-224.356,-21.3731,-224.356 1/2:103:0,44,59:0:0:44,59:1539,2116:-298.134,-172.93,-159.685,-125.557,0,-107.796 1/2:61:0,26,35:0:0:26,35:906,1252:-176.12,-102.444,-94.6176,-74.0274,0,-63.4913 1/2:77:0,45,32:0:0:45,32:1584,1136:-221.866,-92.9159,-79.3696,-129.304,0,-119.671 1/2:40:0,10,29:0:0:10,29:358,1044:-114.453,-85.258,-82.2477,-29.2659,0,-20.536 1/2:8:0,4,4:0:0:4,4:144,140:-23.4375,-11.682,-10.4779,-12.1095,0,-10.9054 1/1:71:0,71,0:0:0:71,0:2517,0:-226.784,-21.3731,0,-226.784,-21.3731,-226.784 1/1:16:0,16,0:0:0:16,0:553,0:-50.0912,-4.81648,0,-50.0912,-4.81648,-50.0912 chr09 18311998 . C A 6553.66 PASS AB=0.505063;ABP=3.18622;AC=14;AF=0.333333;AN=42;AO=400;CIGAR=1X;DP=1236;DPB=1236;DPRA=1.01257;EPP=871.599;EPPR=1814.02;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.625;MQMR=59.9293;NS=21;NUMALT=1;ODDS=6.17465;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14120;QR=27532;RO=834;RPL=400;RPP=871.599;RPPR=1814.02;RPR=0;RUN=1;SAF=400;SAP=871.599;SAR=0;SRF=834;SRP=1814.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:37,21:37:1219:21:744:-49.8139,0,-92.5421 0/1:56:31,25:31:1051:25:900:-64.4633,0,-78.0345 0/1:68:29,39:29:937:39:1362:-102.402,0,-64.1552 0/1:80:35,45:35:1155:45:1592:-119.479,0,-80.1639 0/1:164:62,102:62:1990:102:3598:-274.635,0,-129.993 0/1:55:32,23:32:1040:23:828:-58.1811,0,-77.333 0/0:104:104,0:104:3405:0:0:0,-31.3071,-306.664 0/1:50:26,24:26:855:24:840:-60.8667,0,-62.1455 0/0:96:95,1:95:3129:1:36:0,-25.3006,-278.24 0/0:8:8,0:8:262:0:0:0,-2.40824,-23.8996 0/1:6:3,3:3:99:3:108:-8.26553,0,-7.4304 0/1:31:15,16:15:460:16:551:-40.582,0,-32.3609 0/0:95:95,0:95:3168:0:0:0,-28.5978,-285.348 0/0:68:68,0:68:2309:0:0:0,-20.47,-208.066 0/1:98:38,58:38:1270:58:2046:-155.106,0,-85.3336 0/1:30:25,5:25:838:5:176:-7.15224,0,-66.6958 0/1:48:43,5:43:1423:5:176:-1.73558,0,-113.904 0/1:38:9,29:9:307:29:1019:-80.5775,0,-16.5211 0/1:8:4,4:4:135:4:144:-10.7724,0,-10.0743 0/0:62:62,0:62:2040:0:0:0,-18.6639,-183.863 0/0:13:13,0:13:440:0:0:0,-3.91339,-39.9216 chr09 18312003 . A G 6736.34 PASS AB=0.512133;ABP=4.01145;AC=13;AF=0.309524;AN=42;AO=405;CIGAR=1X;DP=1328;DPB=1328;DPRA=0.955102;EPP=882.457;EPPR=2007.28;GTI=0;LEN=1;MEANALT=1;MQM=59.6914;MQMR=59.8613;NS=21;NUMALT=1;ODDS=7.25114;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14459;QR=32960;RO=923;RPL=405;RPP=882.457;RPPR=2007.28;RPR=0;RUN=1;SAF=405;SAP=882.457;SAR=0;SRF=923;SRP=2007.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:41,22:41:1464:22:788:-52.2692,0,-113.091 0/1:57:32,25:32:1144:25:896:-63.8016,0,-86.1108 0/1:71:32,39:32:1140:39:1395:-104.471,0,-81.5003 0/1:87:40,47:40:1428:47:1680:-125.288,0,-102.628 0/1:173:71,102:71:2532:102:3625:-274.348,0,-175.997 0/1:57:35,22:35:1252:22:780:-53.3643,0,-95.2607 0/0:123:123,0:123:4384:0:0:0,-37.0267,-394.704 0/1:52:27,25:27:968:25:900:-65.6675,0,-71.7267 0/0:106:105,1:105:3752:1:32:0,-28.7099,-334.681 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/1:7:3,4:3:108:4:140:-10.8339,0,-7.96796 0/1:30:15,15:15:524:15:536:-39.5439,0,-38.4578 0/0:101:101,0:101:3612:0:0:0,-30.404,-325.286 0/0:71:71,0:71:2532:0:0:0,-21.3731,-228.132 0/1:106:45,61:45:1612:61:2179:-164.42,0,-113.461 0/1:33:27,6:27:972:6:212:-9.48613,0,-77.8635 0/0:47:44,3:44:1568:3:108:0,-4.07324,-131.336 0/1:39:10,29:10:360:29:1044:-82.53,0,-21.0041 0/1:8:4,4:4:144:4:144:-10.7724,0,-10.9054 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.851 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8111 chr09 18356902 . A C,G 18914.7 PASS AB=0.486239,0.513761;ABP=4.08608,4.08608;AC=28,14;AF=0.666667,0.333333;AN=42;AO=579,336;CIGAR=1X,1X;DP=915;DPB=915;DPRA=0,1.25287;EPP=1260.29,732.625;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.66667,2;MQM=56.0294,54.6518;MQMR=0;NS=21;NUMALT=2;ODDS=7.54295;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20678,11960;QR=0;RO=0;RPL=0,0;RPP=1260.29,732.625;RPPR=0;RPR=579,336;RUN=1,1;SAF=579,336;SAP=1260.29,732.625;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:64:0,33,31:0:0:33,31:1171,1112:-185.992,-90.9882,-81.0542,-95.36,0,-86.0281 1/2:46:0,18,28:0:0:18,28:640,993:-132.778,-80.9645,-75.546,-52.1663,0,-43.7375 1/2:31:0,12,19:0:0:12,19:428,669:-89.5256,-54.6856,-51.0732,-35.1942,0,-29.4746 1/2:36:0,12,24:0:0:12,24:432,864:-106.014,-70.7925,-67.1801,-35.5814,0,-28.3566 1/2:101:0,52,49:0:0:52,49:1864,1707:-290.683,-138.984,-123.33,-152.052,0,-137.302 1/2:43:0,18,25:0:0:18,25:648,896:-125.416,-73.2074,-67.7888,-52.5654,0,-45.0397 1/1:66:0,66,0:0:0:66,0:2368,0:-213.31,-19.868,0,-213.31,-19.868,-213.31 1/2:56:0,19,37:0:0:19,37:672,1332:-163.457,-108.817,-103.098,-54.9944,0,-43.8563 1/1:71:0,71,0:0:0:71,0:2552,0:-229.688,-21.3731,0,-229.688,-21.3731,-229.688 1/1:10:0,10,0:0:0:10,0:360,0:-32.5919,-3.0103,0,-32.5919,-3.0103,-32.5919 1/2:5:0,2,3:0:0:2,3:72,108:-15.0201,-9.14675,-8.54469,-6.23275,0,-5.32966 1/2:25:0,12,13:0:0:12,13:419,460:-71.8174,-37.7638,-34.1514,-34.4046,0,-30.4912 1/1:45:0,45,0:0:0:45,0:1600,0:-144.081,-13.5464,0,-144.081,-13.5464,-144.081 1/1:30:0,30,0:0:0:30,0:1076,0:-96.7472,-9.0309,0,-96.7472,-9.0309,-96.7472 1/2:73:0,22,51:0:0:22,51:792,1815:-212.717,-148.14,-141.518,-64.9345,0,-49.582 1/2:25:0,9,16:0:0:9,16:320,568:-72.6363,-46.6219,-43.9126,-26.369,0,-21.5526 1/2:32:0,20,12:0:0:20,12:715,428:-93.2518,-35.2017,-29.1811,-58.4061,0,-54.7938 1/2:53:0,39,14:0:0:39,14:1378,504:-153.162,-41.2895,-29.5493,-112.229,0,-108.014 1/2:64:0,50,14:0:0:50,14:1775,504:-185.898,-41.4507,-26.3992,-144.806,0,-140.592 1/1:12:0,12,0:0:0:12,0:432,0:-39.1339,-3.61236,0,-39.1339,-3.61236,-39.1339 1/1:27:0,27,0:0:0:27,0:964,0:-86.9386,-8.12781,0,-86.9386,-8.12781,-86.9386 chr09 18356943 . GT GA,AA 38797.1 PASS AB=0.470588,0.529412;ABP=10.8021,10.8021;AC=28,14;AF=0.666667,0.333333;AN=42;AO=916,549;CIGAR=1M1X,2X;DP=1468;DPB=1468;DPRA=0,1.20302;EPP=1974.75,1186.48;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.7619,2;MQM=57.5197,56.5556;MQMR=60;NS=21;NUMALT=2;ODDS=7.18281;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32642,19415;QR=23;RO=1;RPL=540,340;RPP=66.77,70.8876;RPPR=5.18177;RPR=376,209;RUN=1,1;SAF=538,339;SAP=63.6977,68.8308;SAR=378,210;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:96:0,44,52:0:0:44,52:1555,1843:-276.616,-150.423,-137.177,-126.546,0,-110.893 1/2:87:0,41,46:0:0:41,46:1460,1639:-251.383,-132.744,-120.401,-118.994,0,-105.146 1/2:39:0,17,22:0:0:17,22:612,786:-114.219,-64.3136,-59.1961,-50.2639,0,-43.6412 1/2:65:0,25,40:0:0:25,40:879,1425:-187.965,-116.439,-108.913,-71.8795,0,-59.8383 1/2:136:0,55,81:0:0:55,81:1948,2832:-388.974,-230.61,-214.053,-158.717,0,-134.333 1/2:79:0,35,44:0:0:35,44:1248,1543:-226.767,-125.695,-115.159,-101.425,0,-88.1792 1/1:85:0,84,0:0:0:84,0:2984,0:-268.357,-25.2865,0,-268.357,-25.2865,-268.357 1/2:77:0,33,44:0:0:33,44:1188,1574:-225.399,-128.488,-118.554,-97.2703,0,-84.025 1/1:90:0,89,0:0:0:89,0:3188,0:-286.617,-26.7917,0,-286.617,-26.7917,-286.617 1/1:13:0,13,0:0:0:13,0:464,0:-41.9851,-3.91339,0,-41.9851,-3.91339,-41.9851 1/2:6:0,2,4:0:0:2,4:72,139:-17.506,-11.6287,-11.0266,-6.23275,0,-5.02863 1/2:31:0,14,17:0:0:14,17:504,590:-89.2892,-48.2461,-44.0317,-41.3965,0,-36.279 1/1:74:1,73,0:1:23:73,0:2612,0:-232.82,-19.9763,0,-233.121,-21.9752,-234.888 1/1:51:0,51,0:0:0:51,0:1801,0:-162.087,-15.3525,0,-162.087,-15.3525,-162.087 1/2:111:0,38,73:0:0:38,73:1348,2582:-320.216,-210.44,-199,-110.131,0,-88.1557 1/2:45:0,17,28:0:0:17,28:604,997:-130.812,-81.6005,-76.483,-49.5666,0,-41.1378 1/2:43:0,21,22:0:0:21,22:756,770:-124.158,-62.9774,-56.6557,-61.5347,0,-54.912 1/2:101:0,62,39:0:0:62,39:2204,1391:-292.439,-113.545,-94.8813,-179.249,0,-167.509 1/2:121:0,84,37:0:0:84,37:2995,1304:-350.444,-106.483,-81.1962,-244.315,0,-233.177 1/1:34:0,34,0:0:0:34,0:1220,0:-110.02,-10.235,0,-110.02,-10.235,-110.02 1/1:84:0,84,0:0:0:84,0:3000,0:-270.012,-25.2865,0,-270.012,-25.2865,-270.012 chr09 18356952 . GAT AAA,AAT 38995.4 PASS AB=0.481268,0.518732;ABP=6.18303,6.18303;AC=28,14;AF=0.666667,0.333333;AN=42;AO=944,540;CIGAR=1X1M1X,1X2M;DP=1484;DPB=1485.33;DPRA=0,1.17494;EPP=80.8889,70.9693;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.66667,2;MQM=57.3803,56.5574;MQMR=0;NS=21;NUMALT=2;ODDS=10.9015;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=36,36;PQR=0;PRO=0;QA=33068,19278;QR=0;RO=0;RPL=941,540;RPP=2026.91,1175.61;RPPR=0;RPR=3,0;RUN=1,1;SAF=561,335;SAP=75.8926,70.9693;SAR=383,205;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:98:0,46,52:0:0:46,52:1628,1847:-282.846,-150.785,-136.937,-132.415,0,-116.762 1/2:87:0,43,44:0:0:43,44:1502,1576:-250.031,-128.218,-115.273,-122.165,0,-108.92 1/2:39:0,17,22:0:0:17,22:606,792:-114.219,-64.852,-59.7345,-49.7247,0,-43.102 1/2:64:0,26,38:0:0:26,38:886,1359:-182.956,-111.107,-103.28,-72.1959,0,-60.7567 1/2:136:0,54,82:0:0:54,82:1899,2910:-391.67,-237.319,-221.063,-154.704,0,-130.02 1/2:77:0,34,43:0:0:34,43:1181,1540:-221.276,-125.714,-115.479,-95.9134,0,-82.9691 1/1:85:0,85,0:0:0:85,0:2984,0:-268.722,-25.5876,0,-268.722,-25.5876,-268.722 1/2:82:0,38,44:0:0:38,44:1332,1571:-236.502,-128.211,-116.772,-108.644,0,-95.3987 1/1:95:0,95,0:0:0:95,0:3339,0:-300.494,-28.5979,0,-300.494,-28.5979,-300.494 1/1:16:0,16,0:0:0:16,0:573,0:-51.7804,-4.81648,0,-51.7804,-4.81648,-51.7804 1/2:6:0,2,4:0:0:2,4:72,144:-17.9576,-12.0844,-11.4823,-6.23275,0,-5.02863 1/2:31:0,14,17:0:0:14,17:498,608:-90.3704,-49.8711,-45.6567,-40.8551,0,-35.7376 1/1:76:0,76,0:0:0:76,0:2657,0:-239.2,-22.8783,0,-239.2,-22.8783,-239.2 1/1:53:0,53,0:0:0:53,0:1875,0:-168.59,-15.9546,0,-168.59,-15.9546,-168.59 1/2:111:0,39,72:0:0:39,72:1354,2567:-319.356,-209.344,-197.603,-110.305,0,-88.6305 1/2:47:0,19,28:0:0:19,28:651,1004:-135.008,-82.233,-76.5135,-53.1237,0,-44.6949 1/2:44:0,24,20:0:0:24,20:858,716:-128.174,-58.7259,-51.5012,-69.8046,0,-63.784 1/2:100:0,61,39:0:0:61,39:2138,1392:-287.218,-113.576,-95.2135,-173.937,0,-162.197 1/2:119:0,84,35:0:0:84,35:2923,1252:-339.912,-102.414,-77.1278,-237.852,0,-227.316 1/1:34:0,34,0:0:0:34,0:1194,0:-107.677,-10.235,0,-107.677,-10.235,-107.677 1/1:84:0,84,0:0:0:84,0:2918,0:-262.615,-25.2865,0,-262.615,-25.2865,-262.615 chr09 18369110 . CGTTA CGTTG,TGTTG 38838.5 PASS AB=0.503401,0.489796;ABP=3.14325,4.20683;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1238,651;CIGAR=4M1X,1X3M1X;DP=1902;DPB=1902;DPRA=0,1.3249;EPP=2691.29,1416.64;EPPR=9.52472;GTI=0;LEN=1,5;MEANALT=2.09524,2.375;MQM=59.9895,59.8618;MQMR=60;NS=21;NUMALT=2;ODDS=4.56485;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44081,22799;QR=102;RO=3;RPL=0,0;RPP=2691.29,1416.64;RPPR=9.52472;RPR=1238,651;RUN=1,1;SAF=0,0;SAP=2691.29,1416.64;SAR=1238,651;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,53,67:0:0:53,67:1885,2327:-343.136,-189.516,-173.561,-153.972,0,-133.803 1/2:95:0,42,53:0:0:42,53:1504,1858:-274.201,-151.545,-138.901,-123.011,0,-107.057 1/2:107:3,63,41:3:102:63,41:2243,1441:-290.937,-109.025,-98.3328,-174.555,0,-170.485 1/2:109:0,56,53:0:0:56,53:1995,1850:-313.434,-150.821,-133.963,-162.966,0,-147.011 1/2:201:0,97,103:0:0:97,103:3439,3615:-574.396,-294.225,-265.026,-280.212,0,-249.206 1/2:68:0,29,38:0:0:29,38:1040,1327:-192.857,-108.026,-99.2965,-84.9309,0,-73.4917 1/1:170:0,168,2:0:0:168,2:6009,72:-540.554,-50.573,0,-534.679,-44.3384,-534.077 1/2:95:0,54,38:0:0:54,38:1923,1329:-264.893,-108.153,-91.8978,-156.775,0,-145.336 1/1:150:0,147,0:0:0:147,0:5240,0:-471.394,-44.2514,0,-471.394,-44.2514,-471.394 1/1:12:0,12,0:0:0:12,0:416,0:-37.7693,-3.61236,0,-37.7693,-3.61236,-37.7693 1/2:5:0,4,1:0:0:4,1:135,36:-14.2203,-3.29724,-2.09312,-11.2784,0,-10.9774 1/2:24:0,10,14:0:0:10,14:356,485:-68.7836,-39.7645,-36.7542,-29.3709,0,-25.1565 1/1:46:0,44,1:0:0:44,1:1580,36:-142.132,-13.2453,0,-139.194,-10.3079,-138.893 1/1:105:0,105,0:0:0:105,0:3699,0:-333.112,-31.6082,0,-333.112,-31.6082,-333.112 1/2:165:0,77,87:0:0:77,87:2750,3065:-473.738,-249.531,-226.352,-224.202,0,-198.012 1/2:95:0,50,45:0:0:50,45:1796,1569:-274.469,-127.951,-112.9,-146.871,0,-133.324 1/2:84:0,41,43:0:0:41,43:1441,1500:-239.639,-122.347,-110.005,-117.642,0,-104.698 1/2:90:0,48,42:0:0:48,42:1701,1495:-260.771,-122.202,-107.752,-138.925,0,-126.281 1/2:65:0,42,23:0:0:42,23:1504,794:-187.509,-64.8531,-52.2098,-123.005,0,-116.081 1/1:60:0,60,0:0:0:60,0:2133,0:-192.236,-18.0618,0,-192.236,-18.0618,-192.236 1/1:36:0,36,0:0:0:36,0:1292,0:-116.584,-10.8371,0,-116.584,-10.8371,-116.584 chr09 18381432 . C T 12129.5 PASS AB=0.492547;ABP=3.72235;AC=14;AF=0.333333;AN=42;AO=731;CIGAR=1X;DP=2600;DPB=2600;DPRA=0.841619;EPP=1590.36;EPPR=4050.64;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.751;MQMR=59.9561;NS=21;NUMALT=1;ODDS=2.15331;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26141;QR=66899;RO=1868;RPL=0;RPP=1590.36;RPPR=4050.64;RPR=731;RUN=1;SAF=731;SAP=1590.36;SAR=0;SRF=1868;SRP=4059.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:74,63:74:2660:63:2260:-162.335,0,-198.404 0/1:110:62,48:62:2220:48:1709:-120.98,0,-166.951 0/1:34:16,18:16:576:18:648:-48.4169,0,-41.94 0/1:154:59,95:59:2112:95:3393:-259.221,0,-143.99 0/1:283:120,163:120:4308:163:5818:-438.437,0,-302.704 0/1:111:56,55:56:2012:55:1957:-142.915,0,-147.939 0/0:346:346,0:346:12378:0:0:0,-104.156,-1113.76 0/1:36:16,20:16:561:20:720:-54.2917,0,-39.98 0/0:158:158,0:158:5661:0:0:0,-47.5627,-509.607 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:9:5,4:5:180:4:144:-10.5926,0,-13.8428 0/1:43:17,26:17:608:26:936:-71.607,0,-42.1077 0/0:126:126,0:126:4536:0:0:0,-37.9298,-408.402 0/0:332:330,2:330:11800:2:72:0,-93.1052,-1054.87 0/1:123:67,56:67:2400:56:2004:-143.606,0,-179.23 0/1:120:59,61:59:2116:61:2173:-159.679,0,-154.585 0/1:117:58,58:58:2073:58:2079:-152.245,0,-151.689 0/1:106:64,42:64:2296:42:1508:-104.101,0,-174.992 0/1:93:75,18:75:2658:18:648:-30.6561,0,-211.468 0/0:88:86,2:86:3088:2:72:0,-19.6539,-271.311 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 chr09 18640363 . AAAG TAAG,TAAA 45948.1 PASS AB=0.508244,0.489606;ABP=3.83375,4.31941;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1529,686;CIGAR=1X3M,1X2M1X;DP=2220;DPB=2220;DPRA=0,0.763469;EPP=3323.19,1492.64;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.04762,2.23529;MQM=59.4722,53.7012;MQMR=0;NS=21;NUMALT=2;ODDS=14.8014;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54216,24147;QR=0;RO=0;RPL=1529,686;RPP=3323.19,1492.64;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3323.19,1492.64;SAR=1529,686;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,66,60:0:0:66,60:2356,2095:-362.422,-170.352,-150.484,-192.423,0,-174.361 1/2:108:0,47,60:0:0:47,60:1666,2123:-306.79,-171.343,-157.194,-135.527,0,-117.465 1/2:105:0,41,64:0:0:41,64:1441,2260:-300.69,-183.407,-171.065,-117.634,0,-98.3678 1/2:80:0,38,42:0:0:38,42:1332,1461:-226.937,-118.819,-107.379,-108.466,0,-95.8231 1/2:182:0,98,83:0:0:98,83:3492,2897:-519.49,-234.963,-205.462,-284.521,0,-259.536 1/2:142:0,63,79:0:0:63,79:2232,2802:-409.057,-227.517,-208.552,-181.894,0,-158.113 1/1:233:0,232,0:0:0:232,0:8186,0:-736.372,-69.839,0,-736.372,-69.839,-736.372 1/2:101:0,55,46:0:0:55,46:1960,1636:-293.164,-133.41,-116.853,-160.11,0,-146.262 1/1:169:0,169,0:0:0:169,0:6005,0:-540.457,-50.8741,0,-540.457,-50.8741,-540.457 1/1:51:0,51,0:0:0:51,0:1790,0:-161.309,-15.3525,0,-161.309,-15.3525,-161.309 1/2:10:0,5,5:0:0:5,5:180,179:-29.5982,-14.9096,-13.4045,-15.0469,0,-13.5418 1/2:39:0,17,22:0:0:17,22:599,767:-110.713,-62.2119,-57.0944,-48.85,0,-42.2274 1/1:70:0,70,0:0:0:70,0:2497,0:-224.965,-21.0721,0,-224.965,-21.0721,-224.965 1/1:132:0,131,1:0:0:131,1:4647,36:-418.011,-39.4349,0,-415.076,-36.1403,-414.775 1/2:174:0,90,84:0:0:90,84:3196,2961:-501.436,-241.021,-213.928,-260.768,0,-235.482 1/2:63:0,36,27:0:0:36,27:1276,960:-182.452,-78.5103,-67.6732,-104.297,0,-96.1691 1/2:78:0,43,34:0:0:43,34:1524,1186:-220.634,-96.4767,-83.5324,-124.213,0,-113.978 1/2:106:0,60,46:0:0:60,46:2140,1636:-306.888,-132.624,-114.563,-174.618,0,-160.771 1/2:81:0,50,31:0:0:50,31:1792,1077:-233.706,-87.5787,-72.5272,-146.478,0,-137.146 1/1:96:0,94,1:0:0:94,1:3301,35:-296.709,-28.2968,0,-293.865,-25.4331,-293.564 1/1:74:0,73,1:0:0:73,1:2604,36:-234.193,-21.9752,0,-231.264,-18.687,-230.963 chr09 18715153 . G C 31761.6 PASS AB=0.530812;ABP=14.7861;AC=28;AF=0.666667;AN=42;AO=1583;CIGAR=1X;DP=2258;DPB=2258;DPRA=0;EPP=3440.45;EPPR=1460.07;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9697;MQMR=59.9001;NS=21;NUMALT=1;ODDS=2.92066;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56240;QR=23982;RO=671;RPL=1583;RPP=3440.45;RPPR=1460.07;RPR=0;RUN=1;SAF=0;SAP=3440.45;SAR=1583;SRF=0;SRP=1460.07;SRR=671;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:39,41:39:1388:41:1438:-105.629,0,-101.108 0/1:92:50,42:50:1796:42:1482:-105.976,0,-134.228 0/1:107:60,47:60:2136:47:1688:-119.997,0,-160.297 0/1:74:36,38:36:1292:38:1349:-99.4321,0,-94.3066 0/1:171:81,90:81:2904:90:3205:-237.196,0,-210.063 0/1:140:69,71:69:2472:71:2525:-185.356,0,-180.59 1/1:156:0,156:0:0:156:5540:-498.714,-46.9607,0 0/1:127:62,64:62:2209:64:2289:-167.98,0,-160.783 1/1:203:0,203:0:0:203:7243:-651.779,-61.1091,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:8:3,5:3:108:5:176:-13.7768,0,-7.66693 0/1:35:14,21:14:504:21:744:-56.7483,0,-35.162 1/1:161:0,160:0:0:160:5699:-512.706,-48.1648,0 1/1:146:0,146:0:0:146:5146:-463.279,-43.9504,0 0/1:220:96,124:96:3436:124:4441:-333.632,0,-243.197 0/1:53:24,29:24:860:29:995:-73.8972,0,-61.7672 0/1:57:23,34:23:824:34:1194:-90.6018,0,-57.3246 0/1:176:85,91:85:3017:91:3245:-239.289,0,-218.779 0/1:88:27,61:27:964:61:2173:-169.344,0,-60.5853 1/1:87:0,85:0:0:85:2984:-268.449,-25.5876,0 1/1:67:2,65:2:72:65:2328:-202.943,-13.3323,0 chr09 18763723 . G T 20629.7 PASS AB=0.473247;ABP=16.4879;AC=28;AF=0.666667;AN=42;AO=2042;CIGAR=1X;DP=3185;DPB=3185;DPRA=0;EPP=4411.14;EPPR=2448.21;GTI=0;LEN=1;MEANALT=1.04762;MQM=25.2977;MQMR=27.2811;NS=21;NUMALT=1;ODDS=7.33694;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72757;QR=40822;RO=1142;RPL=3;RPP=4411.14;RPPR=2448.21;RPR=2039;RUN=1;SAF=0;SAP=4437.16;SAR=2042;SRF=0;SRP=2482.83;SRR=1142;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:320:156,163:156:5593:163:5789:-270.984,0,-280.127 0/1:149:69,80:69:2451:80:2830:-124.401,0,-112.12 0/1:164:78,86:78:2791:86:3066:-145.707,0,-141.28 0/1:181:112,69:112:3981:69:2472:-102.527,0,-215.57 0/1:327:194,133:194:6950:133:4742:-202.913,0,-372.421 0/1:127:49,78:49:1756:78:2792:-128.055,0,-74.0243 1/1:273:0,273:0:0:273:9612:-578.215,-82.1812,0 0/1:168:95,73:95:3395:73:2605:-104.611,0,-161.201 1/1:227:0,227:0:0:227:8100:-548.866,-68.3338,0 1/1:15:0,15:0:0:15:540:-32.4479,-4.51545,0 0/1:4:2,2:2:72:2:72:-3.30559,0,-3.65742 0/1:38:19,19:19:680:19:680:-29.3472,0,-31.281 1/1:118:0,118:0:0:118:4244:-270.018,-35.5215,0 1/1:178:0,178:0:0:178:6388:-404.183,-53.5833,0 0/1:187:90,97:90:3227:97:3488:-163.867,0,-163.123 0/1:134:80,54:80:2872:54:1925:-89.3838,0,-165.448 0/1:179:96,83:96:3401:83:2969:-147.417,0,-192.774 0/1:123:75,48:75:2681:48:1728:-65.4037,0,-129.139 0/1:67:26,41:26:936:41:1408:-71.4981,0,-43.8092 1/1:139:0,139:0:0:139:4935:-290.89,-41.8432,0 1/1:67:1,66:1:36:66:2372:-138.106,-17.6103,0 chr09 18810961 . A T 18684.8 PASS AB=0.453809;ABP=25.8794;AC=25;AF=0.595238;AN=42;AO=974;CIGAR=1X;DP=1724;DPB=1724;DPRA=1.11486;EPP=2100.69;EPPR=1614.29;GTI=0;LEN=1;MEANALT=1;MQM=59.9271;MQMR=60;NS=21;NUMALT=1;ODDS=11.6329;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34849;QR=26880;RO=750;RPL=972;RPP=2100.69;RPPR=1614.29;RPR=2;RUN=1;SAF=0;SAP=2118.02;SAR=974;SRF=0;SRP=1631.61;SRR=750;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:57,29:57:2052:29:1036:-67.6621,0,-159.063 0/1:85:40,45:40:1440:45:1620:-120.502,0,-104.31 0/1:61:22,39:22:792:39:1383:-106.406,0,-53.2428 1/1:80:0,80:0:0:80:2876:-259.076,-24.0824,0 0/1:154:94,60:94:3372:60:2142:-146.688,0,-257.337 0/1:63:36,27:36:1296:27:960:-67.7514,0,-97.979 0/1:160:91,69:91:3259:69:2472:-174.569,0,-245.365 0/0:74:74,0:74:2651:0:0:0,-22.2762,-238.835 0/1:240:125,115:125:4475:115:4124:-299.096,0,-330.672 0/1:13:7,6:7:248:6:216:-15.8315,0,-18.7508 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:31:18,13:18:639:13:468:-33.1277,0,-48.5063 1/1:103:0,103:0:0:103:3681:-331.492,-31.0061,0 1/1:114:0,114:0:0:114:4080:-367.385,-34.3174,0 0/1:85:48,37:48:1728:37:1324:-93.8745,0,-130.218 0/1:80:50,30:50:1792:30:1060:-71.6275,0,-137.48 0/1:64:43,21:43:1539:21:752:-48.7403,0,-119.536 0/1:51:25,26:25:896:26:936:-69.2069,0,-65.6078 0/1:54:16,38:16:572:38:1364:-106.805,0,-35.5578 1/1:73:1,72:1:21:72:2555:-227.722,-19.8752,0 1/1:46:1,45:1:36:45:1620:-142.492,-10.2491,0 chr09 18830491 . G T 10036 PASS AB=0.473235;ABP=11.0308;AC=13;AF=0.309524;AN=42;AO=611;CIGAR=1X;DP=2057;DPB=2057;DPRA=1.05598;EPP=1329.78;EPPR=3039.59;GTI=0;LEN=1;MEANALT=1;MQM=59.5172;MQMR=59.8624;NS=21;NUMALT=1;ODDS=17.8901;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21826;QR=51318;RO=1446;RPL=611;RPP=1329.78;RPPR=3039.59;RPR=0;RUN=1;SAF=0;SAP=1329.78;SAR=611;SRF=0;SRP=3142.96;SRR=1446;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:65,61:65:2295:61:2188:-159.234,0,-168.88 0/1:125:74,51:74:2607:51:1820:-126.066,0,-197.212 0/1:83:36,47:36:1292:47:1676:-126.107,0,-91.5983 0/1:106:62,44:62:2224:44:1565:-109.227,0,-168.508 0/1:153:71,82:71:2531:82:2920:-216.913,0,-181.984 0/1:65:36,29:36:1275:29:1036:-73.9706,0,-95.4853 0/0:107:106,1:106:3774:1:36:0,-28.6119,-336.245 0/1:130:76,54:76:2691:54:1925:-134.257,0,-203.293 0/0:207:207,0:207:7368:0:0:0,-62.3132,-662.066 0/0:14:14,0:14:485:0:0:0,-4.21442,-43.977 0/1:12:5,7:5:176:7:252:-19.4166,0,-12.5727 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.796 0/0:97:97,0:97:3396:0:0:0,-29.1999,-305.582 0/0:135:135,0:135:4797:0:0:0,-40.639,-431.871 0/1:141:78,63:78:2774:63:2260:-161.2,0,-207.456 0/1:60:31,29:31:1099:29:1040:-75.7653,0,-81.1577 0/1:56:23,33:23:820:33:1176:-89.2888,0,-57.2602 0/1:122:57,65:57:2018:65:2324:-172.552,0,-145.166 0/1:110:65,45:65:2302:45:1608:-111.892,0,-174.326 0/0:84:84,0:84:2967:0:0:0,-25.2865,-267.265 0/0:73:73,0:73:2599:0:0:0,-21.9752,-234.159 chr09 18905937 . CCT CTTCCAACG,CTTCCAACT 36747.5 PASS AB=0.520623,0.464591;ABP=7.75712,17.004;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1329,598;CIGAR=1M6I1M1X,1M6I2M;DP=1966;DPB=5853.67;DPRA=0,1.40504;EPP=2888.9,1301.55;EPPR=0;GTI=0;LEN=9,6;MEANALT=2.85714,3.21429;MQM=39.2092,46.1054;MQMR=0;NS=21;NUMALT=2;ODDS=17.5204;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46354,20589;QR=0;RO=0;RPL=0,0;RPP=2888.9,1301.55;RPPR=0;RPR=1329,598;RUN=1,1;SAF=0,0;SAP=2888.9,1301.55;SAR=1329,598;SRF=0;SRP=0;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:72:0,36,33:0:0:36,33:1211,1107:-180.952,-88.6379,-77.8008,-92.3224,0,-82.3884 1/2:76:0,40,33:0:0:40,33:1406,1108:-197.415,-88.8792,-76.838,-108.577,0,-98.643 1/2:78:0,42,36:0:0:42,36:1456,1267:-213.461,-102.382,-89.7387,-111.418,0,-100.581 1/2:75:0,37,38:0:0:37,38:1301,1306:-204.776,-104.753,-93.6146,-100.359,0,-88.9202 1/2:176:0,89,83:0:0:89,83:3108,2879:-471.341,-231.013,-204.221,-240.361,0,-215.376 1/2:105:0,53,51:0:0:53,51:1861,1795:-290.152,-144.354,-128.399,-145.793,0,-130.441 1/1:143:0,140,0:0:0:140,0:4905,0:-426.178,-42.1442,0,-426.178,-42.1442,-426.178 1/2:120:0,63,57:0:0:63,57:2213,1974:-330.8,-158.439,-139.474,-172.701,0,-155.542 1/1:165:0,159,1:0:0:159,1:5552,32:-475.979,-47.8638,0,-473.408,-45.2917,-473.107 1/1:19:0,18,0:0:0:18,0:628,0:-54.582,-5.41854,0,-54.582,-5.41854,-54.582 1/2:25:0,14,11:0:0:14,11:489,373:-68.3978,-30.2648,-26.0503,-38.4689,0,-35.1576 1/1:40:0,38,0:0:0:38,0:1329,0:-114.298,-11.4391,0,-114.298,-11.4391,-114.298 1/1:65:0,62,0:0:0:62,0:2171,0:-186.134,-18.6639,0,-186.134,-18.6639,-186.134 1/1:133:0,129,0:0:0:129,0:4489,0:-384.586,-38.8329,0,-384.586,-38.8329,-384.586 1/2:207:0,100,103:0:0:100,103:3521,3524:-553.545,-282.345,-252.242,-271.252,0,-240.246 1/2:86:0,46,38:0:0:46,38:1586,1323:-229.611,-107.051,-93.2033,-122.584,0,-111.144 1/2:62:0,33,29:0:0:33,29:1132,1008:-167.91,-81.5597,-71.6258,-86.6855,0,-77.9556 1/2:137:0,66,71:0:0:66,71:2307,2410:-370.862,-192.434,-172.566,-178.762,0,-157.389 1/2:66:0,50,14:0:0:50,14:1751,483:-173.587,-38.897,-23.8455,-134.676,0,-130.461 1/1:61:0,60,0:0:0:60,0:2059,0:-178.706,-18.0618,0,-178.706,-18.0618,-178.706 1/1:55:0,54,0:0:0:54,0:1879,0:-161.88,-16.2556,0,-161.88,-16.2556,-161.88 chr09 18927012 . T A 6042.17 PASS AB=0.522792;ABP=6.1778;AC=13;AF=0.309524;AN=42;AO=367;CIGAR=1X;DP=1192;DPB=1192;DPRA=0.881633;EPP=799.941;EPPR=1794.48;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9624;NS=21;NUMALT=1;ODDS=5.72736;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12932;QR=28788;RO=825;RPL=0;RPP=799.941;RPPR=1794.48;RPR=367;RUN=1;SAF=0;SAP=799.941;SAR=367;SRF=0;SRP=1794.48;SRR=825;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:30,34:30:1040:34:1212:-90.1204,0,-74.6434 0/1:24:13,11:13:443:11:388:-28.0326,0,-32.9708 0/1:81:37,44:37:1280:44:1546:-115.047,0,-91.1171 0/1:110:55,55:55:1904:55:1932:-141.044,0,-138.522 0/1:115:54,61:54:1864:61:2125:-156.897,0,-133.419 0/1:54:22,32:22:772:32:1121:-84.9401,0,-53.5457 0/0:94:94,0:94:3276:0:0:0,-28.2968,-295.068 0/1:82:43,39:43:1524:39:1383:-100.084,0,-112.141 0/0:76:76,0:76:2640:0:0:0,-22.8783,-237.849 0/0:8:8,0:8:276:0:0:0,-2.40824,-25.1752 0/1:4:2,2:2:64:2:64:-4.87457,0,-4.87457 0/0:24:24,0:24:844:0:0:0,-7.22472,-76.2789 0/0:94:94,0:94:3294:0:0:0,-28.2968,-296.681 0/0:68:68,0:68:2364:0:0:0,-20.47,-213.022 0/1:20:9,11:9:316:11:381:-28.6,0,-22.7583 0/1:34:19,15:19:672:15:536:-38.3398,0,-50.5718 0/1:40:13,27:13:460:27:964:-75.0356,0,-29.6942 0/1:41:21,20:21:743:20:708:-51.7034,0,-54.8511 0/1:33:17,16:17:612:16:572:-41.8794,0,-45.4794 0/0:91:91,0:91:3152:0:0:0,-27.3937,-283.908 0/0:35:35,0:35:1248:0:0:0,-10.536,-112.625 chr09 18927016 . C A 17582.4 PASS AB=0.483425;ABP=4.73788;AC=29;AF=0.690476;AN=42;AO=858;CIGAR=1X;DP=1235;DPB=1235;DPRA=0;EPP=1866.13;EPPR=817.312;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9639;MQMR=60;NS=21;NUMALT=1;ODDS=3.665;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30768;QR=13401;RO=375;RPL=0;RPP=1866.13;RPPR=817.312;RPR=858;RUN=1;SAF=0;SAP=1866.13;SAR=858;SRF=0;SRP=817.312;SRR=375;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:33,30:33:1188:30:1076:-78.188,0,-88.2637 0/1:26:11,15:11:396:15:540:-41.1098,0,-28.156 0/1:83:46,37:46:1652:37:1332:-95.1969,0,-123.983 0/1:118:56,62:56:2004:62:2205:-163.193,0,-145.112 0/1:121:65,56:65:2336:56:2012:-144.928,0,-174.075 0/1:56:32,24:32:1152:24:864:-61.2249,0,-87.1325 1/1:99:0,98:0:0:98:3524:-317.117,-29.5009,0 0/1:84:40,44:40:1432:44:1570:-116.173,0,-103.891 1/1:81:0,81:0:0:81:2899:-261.144,-24.3834,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:4:2,2:2:57:2:72:-5.6326,0,-4.20919 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 1/1:95:0,95:0:0:95:3416:-307.653,-28.5979,0 1/1:72:0,71:0:0:71:2548:-229.329,-21.3731,0 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 0/1:34:15,19:15:525:19:680:-51.2941,0,-37.343 0/1:41:26,15:26:912:15:536:-36.2326,0,-70.0509 0/1:42:22,20:22:779:20:707:-51.3113,0,-57.7888 0/1:32:15,17:15:536:17:612:-45.7805,0,-38.9419 1/1:95:0,95:0:0:95:3407:-306.843,-28.5979,0 1/1:34:1,33:1:36:33:1184:-103.27,-6.63675,0 chr09 18964386 . T C 9398.52 PASS AB=0.531936;ABP=11.8869;AC=13;AF=0.309524;AN=42;AO=536;CIGAR=1X;DP=1708;DPB=1708;DPRA=1.00216;EPP=1123.9;EPPR=2504.73;GTI=0;LEN=1;MEANALT=1;MQM=59.9925;MQMR=60;NS=21;NUMALT=1;ODDS=6.92328;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19185;QR=41862;RO=1172;RPL=5;RPP=1123.9;RPPR=2504.73;RPR=531;RUN=1;SAF=0;SAP=1166.92;SAR=536;SRF=0;SRP=2547.98;SRR=1172;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:40,36:40:1436:36:1288:-93.3453,0,-106.659 0/1:21:11,10:11:396:10:360:-26.4227,0,-29.6611 0/1:102:47,55:47:1677:55:1972:-147.047,0,-120.51 0/1:94:43,51:43:1544:51:1820:-135.784,0,-110.956 0/1:161:96,65:96:3444:65:2332:-161.674,0,-261.707 0/1:57:20,37:20:701:37:1324:-102.303,0,-46.253 0/0:120:120,0:120:4269:0:0:0,-36.1236,-384.389 0/1:128:43,85:43:1532:85:3060:-237.096,0,-99.6413 0/0:169:168,1:168:6020:1:36:0,-47.2758,-538.306 0/0:18:18,0:18:629:0:0:0,-5.41854,-56.9338 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:139:139,0:139:4953:0:0:0,-41.8432,-445.92 0/0:111:111,0:111:3938:0:0:0,-33.4143,-354.612 0/1:104:45,59:45:1608:59:2096:-157.603,0,-113.703 0/1:37:14,23:14:504:23:817:-62.7127,0,-34.56 0/1:43:20,23:20:716:23:824:-61.539,0,-51.8234 0/1:121:50,71:50:1792:71:2536:-192.067,0,-125.138 0/1:51:35,16:35:1256:16:576:-36.8225,0,-97.9928 0/0:76:75,1:75:2700:1:36:0,-19.28,-239.645 0/0:55:54,1:54:1923:1:36:0,-12.9584,-169.748 chr09 18964402 . T C 24129.6 PASS AB=0.46706;ABP=12.5951;AC=29;AF=0.690476;AN=42;AO=1188;CIGAR=1X;DP=1733;DPB=1733;DPRA=0;EPP=2582.72;EPPR=1182.12;GTI=0;LEN=1;MEANALT=1.09524;MQM=60;MQMR=59.9926;NS=21;NUMALT=1;ODDS=11.5775;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42364;QR=19418;RO=543;RPL=1188;RPP=2582.72;RPPR=1182.12;RPR=0;RUN=1;SAF=0;SAP=2582.72;SAR=1188;SRF=0;SRP=1182.12;SRR=543;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:36,39:36:1292:39:1389:-102.37,0,-93.6467 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/1:105:56,49:56:2001:49:1760:-127.076,0,-148.751 0/1:98:53,45:53:1885:45:1620:-116.589,0,-140.426 0/1:162:66,96:66:2357:96:3420:-259.246,0,-163.62 0/1:58:38,20:38:1364:20:720:-47.669,0,-105.601 1/1:123:0,123:0:0:123:4376:-394.013,-37.0267,0 0/1:130:86,44:86:3058:44:1554:-101.014,0,-236.313 1/1:171:1,170:1:36:170:6068:-542.622,-47.8779,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 1/1:18:0,18:0:0:18:633:-57.2951,-5.41854,0 1/1:146:0,146:0:0:146:5213:-469.306,-43.9504,0 1/1:112:0,112:0:0:112:3971:-357.579,-33.7154,0 0/1:103:58,45:58:2084:45:1590:-112.38,0,-156.824 0/1:37:23,14:23:813:14:504:-34.56,0,-62.351 0/1:44:24,20:24:864:20:716:-51.5224,0,-64.8372 0/1:122:71,51:71:2548:51:1832:-128.435,0,-192.845 0/1:54:17,37:17:612:37:1316:-102.486,0,-39.1578 1/1:74:1,72:1:36:72:2550:-226.15,-18.7367,0 1/1:55:0,55:0:0:55:1980:-178.474,-16.5567,0 chr09 18987313 . A G 93729.7 PASS AB=0.624153;ABP=318.974;AC=30;AF=0.714286;AN=42;AO=4391;CIGAR=1X;DP=5285;DPB=5285;DPRA=0;EPP=9537.95;EPPR=1944.31;GTI=1;LEN=1;MEANALT=1;MQM=59.6283;MQMR=59.934;NS=21;NUMALT=1;ODDS=60.8668;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=156776;QR=32057;RO=894;RPL=0;RPP=9537.95;RPPR=1944.31;RPR=4391;RUN=1;SAF=4391;SAP=9537.95;SAR=0;SRF=894;SRP=1944.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:96,81:96:3424:81:2904:-208.295,0,-254.466 0/1:129:56,73:56:2012:73:2624:-197.533,0,-142.52 0/1:181:75,106:75:2677:106:3735:-281.813,0,-186.683 0/1:161:72,89:72:2584:89:3177:-237.657,0,-184.343 0/1:284:132,152:132:4740:152:5383:-399.068,0,-341.264 0/1:63:31,32:31:1112:32:1152:-85.0089,0,-81.4265 1/1:123:1,122:1:36:122:4384:-391.066,-33.4284,0 0/1:250:92,158:92:3296:158:5624:-430.874,0,-221.601 1/1:52:1,51:1:36:51:1809:-159.464,-12.0553,0 1/1:998:2,996:2:72:996:35571:-3191.89,-293.591,0 1/1:233:0,233:0:0:233:8329:-749.556,-70.14,0 1/1:1109:2,1107:2:72:1107:39594:-3554.67,-327.006,0 1/1:97:0,97:0:0:97:3476:-313.033,-29.1999,0 1/1:153:0,153:0:0:153:5402:-486.29,-46.0576,0 0/1:268:153,115:153:5500:115:4109:-289.28,0,-414.448 0/1:84:42,42:42:1512:42:1485:-108.64,0,-111.088 0/1:106:53,53:53:1896:53:1892:-138.633,0,-139.009 0/1:576:54,522:54:1940:522:18664:-1505.2,0,-1.35323 0/1:81:31,50:31:1112:50:1766:-134.824,0,-76.0079 1/1:109:1,108:1:36:108:3876:-345.197,-29.214,0 1/1:51:0,51:0:0:51:1820:-163.983,-15.3525,0 chr09 19109110 . CAACG GGACG,TGACA 13268.5 PASS AB=0.504,0.482667;ABP=3.06242,3.98891;AC=29,13;AF=0.690476,0.309524;AN=42;AO=471,183;CIGAR=2X3M,2X2M1X;DP=662;DPB=662;DPRA=0,0.680816;EPP=1025.77,400.39;EPPR=0;GTI=0;LEN=2,5;MEANALT=2.09524,2.33333;MQM=59.518,54.3607;MQMR=0;NS=21;NUMALT=2;ODDS=2.56504;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=16535,6272;QR=0;RO=0;RPL=471,183;RPP=1025.77,400.39;RPPR=0;RPR=0,0;RUN=1,1;SAF=471,183;SAP=1025.77,400.39;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:53:0,30,22:0:0:30,22:1065,765:-148.997,-62.2198,-53.1889,-86.8438,0,-80.2211 1/2:20:0,10,10:0:0:10,10:347,337:-55.784,-27.5816,-24.5713,-28.5438,0,-25.5335 1/2:20:0,6,13:0:0:6,13:201,444:-52.3594,-36.085,-34.2788,-16.3397,0,-12.4263 1/2:19:0,6,13:0:0:6,13:216,445:-53.9571,-36.3266,-34.5204,-17.9843,0,-14.0709 1/2:38:0,21,16:0:0:21,16:745,563:-106.583,-45.8856,-39.564,-60.7838,0,-55.9673 1/2:21:0,11,10:0:0:11,10:396,336:-59.3826,-27.0638,-23.7525,-32.6632,0,-29.6529 1/1:68:0,66,0:0:0:66,0:2334,0:-209.992,-19.868,0,-209.992,-19.868,-209.992 1/2:12:0,3,9:0:0:3,9:108,323:-35.4776,-26.6649,-25.7618,-9.17208,0,-6.46281 1/1:110:0,110,0:0:0:110,0:3848,0:-346.472,-33.1133,0,-346.472,-33.1133,-346.472 1/1:4:0,4,0:0:0:4,0:144,0:-13.3089,-1.20412,0,-13.3089,-1.20412,-13.3089 1/2:4:0,2,2:0:0:2,2:72,66:-11.1665,-5.26614,-4.66408,-6.23466,0,-5.6326 1/1:8:0,8,0:0:0:8,0:288,0:-26.2127,-2.40824,0,-26.2127,-2.40824,-26.2127 1/1:21:0,20,0:0:0:20,0:698,0:-62.8005,-6.0206,0,-62.8005,-6.0206,-62.8005 1/1:34:0,34,0:0:0:34,0:1192,0:-107.577,-10.235,0,-107.577,-10.235,-107.577 1/2:78:0,34,44:0:0:34,44:1182,1488:-216.712,-120.609,-110.374,-96.4462,0,-83.2009 1/2:23:0,10,13:0:0:10,13:360,442:-65.3262,-35.9424,-32.9321,-29.734,0,-25.8206 1/2:33:0,21,12:0:0:21,12:733,411:-93.3072,-33.6831,-27.3614,-59.9688,0,-56.3564 1/2:28:0,14,12:0:0:14,12:477,410:-71.9181,-33.2248,-29.0104,-38.6868,0,-35.0744 1/2:26:0,21,5:0:0:21,5:756,175:-76.267,-14.5777,-8.25606,-62.0409,0,-60.5357 1/1:16:0,15,1:0:0:15,1:503,31:-45.2792,-4.51545,0,-42.8384,-1.76794,-42.5374 1/1:26:0,25,1:0:0:25,1:870,36:-78.2362,-7.52575,0,-75.3065,-4.23755,-75.0055 chr09 19110192 . TCAG TCAA,CCAA 32403.3 PASS AB=0.522865,0.474547;ABP=8.27317,9.53221;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1036,552;CIGAR=3M1X,1X2M1X;DP=1594;DPB=1594;DPRA=0,1.73876;EPP=2243.98,1192.99;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.95238,2.21429;MQM=59.8996,59.6449;MQMR=0;NS=21;NUMALT=2;ODDS=7.54807;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36777,19240;QR=0;RO=0;RPL=1,1;RPP=2243.98,1192.99;RPPR=0;RPR=1035,551;RUN=1,1;SAF=0,0;SAP=2252.66,1201.66;SAR=1036,552;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:27:0,11,16:0:0:11,16:388,573:-78.6769,-47.0857,-43.7743,-31.946,0,-27.1296 1/2:74:0,43,31:0:0:43,31:1531,1100:-214.745,-89.9703,-77.026,-125.13,0,-115.798 1/2:155:0,84,70:0:0:84,70:2997,2456:-444.168,-199.85,-174.563,-244.312,0,-223.24 1/2:43:0,19,24:0:0:19,24:676,852:-124.861,-69.7725,-64.053,-55.4438,0,-48.2191 1/2:102:0,51,50:0:0:51,50:1817,1747:-290.313,-142.208,-126.855,-148.21,0,-133.158 1/2:33:0,26,7:0:0:26,7:928,243:-95.6325,-19.9684,-12.1416,-76.0115,0,-73.9043 1/1:81:0,80,0:0:0:80,0:2815,0:-253.228,-24.0824,0,-253.228,-24.0824,-253.228 1/2:270:0,154,116:0:0:154,116:5469,3999:-770.748,-325.175,-278.816,-445.923,0,-411.003 1/1:79:0,77,2:0:0:77,2:2760,72:-248.285,-23.1793,0,-242.466,-17.0037,-241.864 1/1:23:0,22,0:0:0:22,0:792,0:-71.3796,-6.62266,0,-71.3796,-6.62266,-71.3796 1/2:6:0,2,4:0:0:2,4:72,142:-17.7933,-11.9167,-11.3147,-6.23466,0,-5.03054 1/1:45:0,45,0:0:0:45,0:1608,0:-145.01,-13.5464,0,-145.01,-13.5464,-145.01 1/1:66:0,66,0:0:0:66,0:2345,0:-211.308,-19.868,0,-211.308,-19.868,-211.308 1/1:61:0,60,0:0:0:60,0:2129,0:-191.644,-18.0618,0,-191.644,-18.0618,-191.644 1/2:58:0,38,20:0:0:38,20:1368,706:-169.471,-57.8441,-46.4049,-111.982,0,-105.961 1/2:34:0,5,29:0:0:5,29:180,1015:-97.6173,-82.9287,-81.4236,-15.0469,0,-6.31704 1/2:53:0,19,33:0:0:19,33:638,1114:-141.939,-90.2654,-84.5459,-51.651,0,-41.717 1/2:251:0,122,129:0:0:122,129:4286,4501:-715.258,-366.415,-329.689,-349.193,0,-310.36 1/2:53:0,32,21:0:0:32,21:1136,720:-151.363,-58.795,-49.162,-92.9159,0,-86.5943 1/1:23:0,23,0:0:0:23,0:824,0:-74.4833,-6.92369,0,-74.4833,-6.92369,-74.4833 1/1:57:0,57,0:0:0:57,0:2018,0:-181.884,-17.1587,0,-181.884,-17.1587,-181.884 chr09 19110228 . ATG GTT,ATT 32621.1 PASS AB=0.528912,0.468537;ABP=11.5485,13.1217;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1074,553;CIGAR=1X1M1X,2M1X;DP=1631;DPB=1631;DPRA=0,1.71133;EPP=2335.17,1186.53;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.90476,2.2;MQM=59.8855,59.6492;MQMR=0;NS=21;NUMALT=2;ODDS=9.85341;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36925,19734;QR=0;RO=0;RPL=1074,551;RPP=2335.17,1186.53;RPPR=0;RPR=0,2;RUN=1,1;SAF=0,0;SAP=2335.17,1203.83;SAR=1074,553;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:27:0,12,15:0:0:12,15:426,536:-78.7667,-44.057,-40.4446,-35.0656,0,-30.5501 1/2:74:0,44,30:0:0:44,30:1527,1080:-212.591,-88.4742,-75.2289,-124.471,0,-115.44 1/2:157:0,87,69:0:0:87,69:3007,2453:-443.966,-199.643,-173.453,-244.335,0,-223.563 1/2:43:0,19,24:0:0:19,24:658,856:-123.605,-70.134,-64.4145,-53.8214,0,-46.5967 1/2:104:0,53,50:0:0:53,50:1833,1770:-293.095,-144.239,-128.285,-148.924,0,-133.872 1/2:34:0,27,7:0:0:27,7:940,252:-96.978,-20.5463,-12.4185,-76.7845,0,-74.6773 1/1:85:0,84,0:0:0:84,0:2923,0:-263.037,-25.2865,0,-263.037,-25.2865,-263.037 1/2:274:0,157,116:0:0:157,116:5311,4127:-766.724,-336.314,-289.053,-430.398,0,-395.479 1/1:79:0,78,1:0:0:78,1:2697,36:-242.615,-23.4803,0,-239.677,-20.1831,-239.376 1/1:23:0,23,0:0:0:23,0:813,0:-73.4911,-6.92369,0,-73.4911,-6.92369,-73.4911 1/2:6:0,2,4:0:0:2,4:64,144:-17.244,-12.1011,-11.4991,-5.47604,0,-4.27192 1/1:47:0,47,0:0:0:47,0:1604,0:-144.643,-14.1484,0,-144.643,-14.1484,-144.643 1/1:68:0,68,0:0:0:68,0:2369,0:-213.469,-20.47,0,-213.469,-20.47,-213.469 1/1:67:0,66,1:0:0:66,1:2222,36:-199.88,-19.868,0,-196.943,-16.5707,-196.642 1/2:59:0,40,19:0:0:40,19:1389,684:-169.079,-56.1708,-44.1296,-113.264,0,-107.545 1/2:35:0,6,29:0:0:6,29:199,1025:-99.9214,-83.8271,-82.0209,-16.4296,0,-7.69971 1/2:51:0,18,33:0:0:18,33:626,1188:-148.168,-97.2937,-91.8752,-51.2261,0,-41.2922 1/2:259:0,127,132:0:0:127,132:4287,4736:-733.852,-386.415,-348.184,-347.785,0,-308.049 1/2:53:0,30,23:0:0:30,23:1057,811:-152.442,-66.3853,-57.3544,-86.4091,0,-79.4854 1/1:24:0,24,0:0:0:24,0:833,0:-75.2859,-7.22472,0,-75.2859,-7.22472,-75.2859 1/1:62:0,62,0:0:0:62,0:2140,0:-192.853,-18.6639,0,-192.853,-18.6639,-192.853 chr09 19110238 . G A 9044.54 PASS AB=0.471294;ABP=11.3631;AC=13;AF=0.309524;AN=42;AO=551;CIGAR=1X;DP=1610;DPB=1610;DPRA=1.69346;EPP=1199.49;EPPR=2302.6;GTI=0;LEN=1;MEANALT=1;MQM=59.6642;MQMR=59.9037;NS=21;NUMALT=1;ODDS=8.30757;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19728;QR=37848;RO=1059;RPL=551;RPP=1199.49;RPPR=2302.6;RPR=0;RUN=1;SAF=0;SAP=1199.49;SAR=551;SRF=0;SRP=2302.6;SRR=1059;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:12,15:12:432:15:540:-40.8064,0,-31.0934 0/1:74:43,31:43:1548:31:1112:-78.107,0,-117.329 0/1:157:86,71:86:3076:71:2548:-182.039,0,-229.805 0/1:43:19,24:19:680:24:864:-65.1359,0,-48.5803 0/1:103:53,50:53:1896:50:1785:-129.918,0,-139.542 0/1:34:27,7:27:960:7:252:-12.4185,0,-76.4813 0/0:84:84,0:84:2987:0:0:0,-25.2865,-269.057 0/1:269:155,114:155:5556:114:4077:-286.125,0,-419.175 0/0:76:75,1:75:2692:1:36:0,-19.28,-238.926 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/1:6:2,4:2:72:4:135:-10.668,0,-5.03054 0/0:47:47,0:47:1675:0:0:0,-14.1484,-151.036 0/0:68:68,0:68:2428:0:0:0,-20.47,-218.776 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 0/1:58:38,20:38:1368:20:720:-47.669,0,-105.961 0/1:34:5,29:5:180:29:1036:-83.3151,0,-6.31704 0/1:52:18,34:18:644:34:1212:-93.7321,0,-42.5808 0/1:257:127,130:127:4500:130:4668:-342.678,0,-327.802 0/1:53:32,21:32:1148:21:743:-51.2378,0,-87.6752 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 0/0:59:59,0:59:2098:0:0:0,-17.7608,-189.087 chr09 19147161 . AGCGAC GGCGAT,GGTGAT 50443.1 PASS AB=0.653381,0.34306;ABP=290.11,303.587;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1926,484;CIGAR=1X4M1X,1X1M1X2M1X;DP=2419;DPB=2420.5;DPRA=0,1.0485;EPP=4176.58,1028.11;EPPR=0;GTI=3;LEN=6,6;MEANALT=2.14286,2.4;MQM=43.4585,30.5661;MQMR=0;NS=21;NUMALT=2;ODDS=7.40972;PAIRED=0,0;PAIREDR=0;PAO=4.5,4.5;PQA=147,147;PQR=0;PRO=0;QA=61497,16856;QR=0;RO=0;RPL=862,3;RPP=49.0148,1028.11;RPPR=0;RPR=1064,481;RUN=1,1;SAF=861,0;SAP=49.9303,1054;SAR=1065,484;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:107:0,50,56:0:0:50,56:1668,1954:-261.438,-132.894,-117.842,-128.495,0,-111.637 1/2:90:0,69,20:0:0:69,20:2103,706:-199.452,-41.3236,-20.5525,-158.132,0,-152.111 1/2:74:0,54,20:0:0:54,20:1752,696:-181.614,-47.5499,-31.2943,-134.364,0,-128.343 1/2:134:0,100,33:0:0:100,33:3213,1151:-317.497,-77.2514,-47.1484,-240.133,0,-230.199 1/2:163:0,104,59:0:0:104,59:3405,2050:-399.211,-134.875,-103.568,-264.634,0,-246.873 1/2:91:0,62,28:0:0:62,28:1990,957:-212.717,-58.4866,-39.8227,-154.153,0,-145.725 1/1:226:0,226,0:0:0:226,0:6912,0:-588.214,-68.0328,0,-588.214,-68.0328,-588.214 1/2:91:0,69,22:0:0:69,22:2109,765:-205.309,-49.8283,-29.0572,-155.707,0,-149.084 1/1:196:0,194,1:0:0:194,1:6536,36:-565.573,-58.3998,0,-563.91,-56.7343,-563.609 1/1:31:0,31,0:0:0:31,0:967,0:-81.9488,-9.33193,0,-81.9488,-9.33193,-81.9488 1/2:13:0,7,6:0:0:7,6:208,212:-28.0477,-12.7851,-10.6779,-15.5327,0,-13.7265 1/1:65:0,65,0:0:0:65,0:1991,0:-167.484,-19.567,0,-167.484,-19.567,-167.484 1/1:115:0,114,0:0:0:114,0:3784,0:-328.76,-34.3174,0,-328.76,-34.3174,-328.76 1/1:146:0,145,0:0:0:145,0:4606,0:-388.495,-43.6494,0,-388.495,-43.6494,-388.495 1/2:216:0,123,92:0:0:123,92:3849,3237:-495.356,-212.906,-175.879,-282.53,0,-254.835 1/2:97:0,58,39:0:0:58,39:1924,1360:-240.669,-94.9567,-77.4969,-146.02,0,-134.279 1/2:102:0,59,43:0:0:59,43:1938,1470:-252.091,-103.03,-85.2694,-149.366,0,-136.422 1/2:139:0,89,50:0:0:89,50:2759,1743:-318.557,-113.309,-86.5169,-205.535,0,-190.483 1/2:88:0,74,14:0:0:74,14:2403,483:-218.783,-33.4401,-11.1639,-185.642,0,-181.428 1/1:150:0,149,1:0:0:149,1:4772,36:-409.803,-44.8535,0,-407.492,-42.2517,-407.191 1/1:85:0,84,0:0:0:84,0:2608,0:-225.407,-25.2865,0,-225.407,-25.2865,-225.407 chr09 19147175 . CCG TTT,CTT 23828.3 PASS AB=0.540875,0.459125;ABP=18.2767,18.2767;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1123,485;CIGAR=3X,1M2X;DP=1608;DPB=1608;DPRA=0,1.275;EPP=2441.57,1056.17;EPPR=0;GTI=0;LEN=3,2;MEANALT=1.71429,2;MQM=30.0232,30.5608;MQMR=0;NS=21;NUMALT=2;ODDS=11.221;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39655,17283;QR=0;RO=0;RPL=1123,485;RPP=2441.57,1056.17;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2441.57,1056.17;SAR=1123,485;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:0,27,56:0:0:27,56:961,2012:-200.443,-135.143,-127.015,-65.6023,0,-48.7446 1/2:64:0,43,21:0:0:43,21:1510,752:-134.179,-43.8658,-30.9215,-90.5777,0,-84.2561 1/2:50:0,30,20:0:0:30,20:1047,718:-119.605,-48.3667,-39.3358,-71.5377,0,-65.5171 1/2:106:0,73,33:0:0:73,33:2561,1141:-248.291,-76.4372,-54.462,-172.145,0,-162.211 1/2:101:0,42,59:0:0:42,59:1492,2107:-233.854,-136.142,-123.499,-98.0033,0,-80.2425 1/2:52:0,24,28:0:0:24,28:849,991:-110.484,-59.4728,-52.2481,-51.2807,0,-42.8519 1/1:131:0,131,0:0:0:131,0:4602,0:-314.963,-39.4349,0,-314.963,-39.4349,-314.963 1/2:75:0,53,22:0:0:53,22:1888,792:-170.15,-50.513,-34.5584,-119.924,0,-113.301 1/1:93:0,92,1:0:0:92,1:3226,36:-250.102,-27.6948,0,-248.439,-25.8126,-248.138 1/1:21:0,21,0:0:0:21,0:748,0:-53.9979,-6.32163,0,-53.9979,-6.32163,-53.9979 1/2:11:0,5,6:0:0:5,6:180,214:-23.2749,-12.7931,-11.288,-10.7477,0,-8.94154 1/1:44:0,44,0:0:0:44,0:1551,0:-111.528,-13.2453,0,-111.528,-13.2453,-111.528 1/1:47:0,47,0:0:0:47,0:1660,0:-124.991,-14.1484,0,-124.991,-14.1484,-124.991 1/1:104:0,104,0:0:0:104,0:3679,0:-270.025,-31.3071,0,-270.025,-31.3071,-270.025 1/2:199:0,107,92:0:0:107,92:3784,3296:-462.733,-214.578,-182.368,-248.447,0,-220.752 1/2:78:0,39,39:0:0:39,39:1378,1385:-192.371,-96.4901,-84.75,-96.1884,0,-84.4482 1/2:73:0,30,43:0:0:30,43:1071,1511:-176.118,-104.278,-95.2471,-72.1404,0,-59.1961 1/2:112:0,62,50:0:0:62,50:2201,1788:-254.22,-114.216,-95.5526,-140.289,0,-125.238 1/2:48:0,34,14:0:0:34,14:1203,504:-114.52,-34.1518,-23.9167,-80.6686,0,-76.4542 1/1:79:0,78,1:0:0:78,1:2744,36:-198.048,-23.4803,0,-195.736,-20.8786,-195.435 1/1:37:0,37,0:0:0:37,0:1320,0:-90.42,-11.1381,0,-90.42,-11.1381,-90.42 chr09 19180802 . C A 8482.62 PASS AB=0.474312;ABP=9.25777;AC=13;AF=0.309524;AN=42;AO=518;CIGAR=1X;DP=1674;DPB=1674;DPRA=1.03016;EPP=1110.53;EPPR=2459.22;GTI=0;LEN=1;MEANALT=1;MQM=55.3707;MQMR=56.1584;NS=21;NUMALT=1;ODDS=10.4116;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18443;QR=41037;RO=1155;RPL=2;RPP=1110.53;RPPR=2459.22;RPR=516;RUN=1;SAF=0;SAP=1127.83;SAR=518;SRF=0;SRP=2511.06;SRR=1155;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:106:45,61:45:1616:61:2187:-164.639,0,-113.527 0/1:60:35,25:35:1256:25:900:-62.8923,0,-95.1154 0/1:64:25,39:25:900:39:1375:-104.335,0,-61.8336 0/1:83:49,34:49:1714:34:1220:-84.8939,0,-129.146 0/1:134:64,70:64:2266:70:2484:-182.248,0,-163.094 0/1:103:70,33:70:2500:33:1172:-74.6847,0,-193.285 0/0:108:107,0:107:3790:0:0:0,-32.2102,-340.657 0/1:90:52,38:52:1842:38:1351:-93.0479,0,-138.17 0/0:118:118,0:118:4158:0:0:0,-35.5215,-373.582 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2549 0/1:14:7,7:7:248:7:248:-18.3654,0,-18.4439 0/0:37:36,1:36:1276:1:36:0,-7.6171,-111.499 0/0:138:138,0:138:4905:0:0:0,-41.5421,-439.888 0/0:50:50,0:50:1787:0:0:0,-15.0515,-160.962 0/1:147:65,82:65:2328:82:2931:-219.245,0,-165.052 0/1:38:19,19:19:668:19:675:-49.1286,0,-48.9871 0/1:54:26,28:26:932:28:995:-73.4894,0,-67.8651 0/1:115:58,57:58:2072:57:2031:-147.987,0,-151.711 0/1:82:58,24:58:2042:24:838:-50.9713,0,-159.215 0/0:79:79,0:79:2823:0:0:0,-23.7814,-254.123 0/0:46:46,0:46:1626:0:0:0,-13.8474,-145.876 chr09 19180809 . CGGA TGGC,CGGC 35033.5 PASS AB=0.520289,0.471596;ABP=6.97534,10.7818;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1171,523;CIGAR=1X2M1X,3M1X;DP=1708;DPB=1708;DPRA=0,1.13933;EPP=2476.79,1121.39;EPPR=7.35324;GTI=0;LEN=4,1;MEANALT=2.04762,2.46154;MQM=56.1178,55.4455;MQMR=60;NS=21;NUMALT=2;ODDS=10.5285;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40742,18701;QR=72;RO=2;RPL=1163,521;RPP=2476.79,1121.39;RPPR=7.35324;RPR=8,2;RUN=1,1;SAF=0,0;SAP=2545.8,1138.69;SAR=1171,523;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:109:0,46,62:0:0:46,62:1593,2220:-309.235,-180.196,-166.348,-129.039,0,-110.375 1/2:59:0,35,24:0:0:35,24:1226,845:-168.55,-68.9133,-58.3772,-99.9868,0,-92.7621 1/2:63:0,26,37:0:0:26,37:888,1320:-179.82,-107.888,-100.061,-72.2794,0,-61.1413 1/2:87:0,50,36:0:0:50,36:1728,1296:-245.352,-105.44,-90.388,-139.915,0,-129.078 1/2:138:0,68,70:0:0:68,70:2342,2492:-391.861,-202.598,-182.128,-189.612,0,-168.539 1/2:105:0,71,34:0:0:71,34:2444,1220:-297.87,-99.7726,-78.3995,-198.451,0,-188.216 1/1:112:0,110,0:0:0:110,0:3829,0:-344.18,-33.1133,0,-344.18,-33.1133,-344.18 1/2:97:0,52,44:0:0:52,44:1824,1560:-273.462,-125.696,-110.043,-147.834,0,-134.589 1/1:121:0,121,0:0:0:121,0:4198,0:-377.606,-36.4246,0,-377.606,-36.4246,-377.606 1/1:8:0,8,0:0:0:8,0:276,0:-25.1654,-2.40824,0,-25.1654,-2.40824,-25.1654 1/2:14:0,7,7:0:0:7,7:248,252:-41.0319,-20.8368,-18.7296,-20.5514,0,-18.4441 1/1:38:0,38,0:0:0:38,0:1304,0:-117.487,-11.4391,0,-117.487,-11.4391,-117.487 1/1:140:0,138,0:0:0:138,0:4833,0:-434.005,-41.5421,0,-434.005,-41.5421,-434.005 1/1:52:0,52,0:0:0:52,0:1847,0:-166.328,-15.6536,0,-166.328,-15.6536,-166.328 1/2:150:0,66,84:0:0:66,84:2341,3020:-435.971,-246.162,-226.294,-190.164,0,-164.878 1/2:38:0,19,19:0:0:19,19:671,680:-109.923,-55.3001,-49.5805,-54.9771,0,-49.2575 1/2:55:0,27,28:0:0:27,28:953,996:-158.864,-81.3368,-73.209,-77.881,0,-69.4521 1/2:114:1,53,55:1:36:53,55:1843,1980:-307.519,-158.184,-145.167,-146.698,0,-133.079 1/2:80:0,57,23:0:0:57,23:1963,820:-226.421,-67.1189,-49.9601,-159.655,0,-152.731 1/1:79:0,79,0:0:0:79,0:2752,0:-247.756,-23.7814,0,-247.756,-23.7814,-247.756 1/1:49:1,48,0:1:36:48,0:1639,0:-143.862,-11.1522,0,-144.163,-14.4494,-147.101 chr09 19275515 . CAGC TAGA,CAGA 40064.7 PASS AB=0.463981,0.533695;ABP=17.558,15.7414;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1238,693;CIGAR=1X2M1X,3M1X;DP=1936;DPB=1936.25;DPRA=0,1.02615;EPP=2691.29,1507.84;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.90476,2.13333;MQM=59.9701,59.9986;MQMR=0;NS=21;NUMALT=2;ODDS=7.77683;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=43709,24815;QR=0;RO=0;RPL=1238,693;RPP=2691.29,1507.84;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2691.29,1507.84;SAR=1238,693;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:173:0,80,93:0:0:80,93:2811,3325:-500.264,-271.471,-247.388,-229.148,0,-201.152 1/2:49:0,24,25:0:0:24,25:856,896:-143.214,-73.4346,-66.2099,-70.1367,0,-62.611 1/2:88:0,49,39:0:0:49,39:1726,1404:-255.436,-114.919,-100.169,-140.873,0,-129.133 1/2:113:0,54,59:0:0:54,59:1880,2101:-324.465,-171.597,-155.341,-153.22,0,-135.459 1/2:188:0,72,113:0:0:72,113:2484,4056:-532.657,-330.869,-309.195,-201.798,0,-167.782 1/2:86:0,42,44:0:0:42,44:1499,1584:-251.809,-129.606,-116.963,-122.561,0,-109.316 1/1:59:0,59,0:0:0:59,0:2090,0:-188.369,-17.7608,0,-188.369,-17.7608,-188.369 1/2:152:0,71,81:0:0:71,81:2486,2908:-439.837,-237.572,-216.198,-202.619,0,-178.236 1/1:177:0,175,0:0:0:175,0:6207,0:-558.335,-52.6803,0,-558.335,-52.6803,-558.335 1/1:17:0,17,0:0:0:17,0:611,0:-55.3232,-5.11751,0,-55.3232,-5.11751,-55.3232 1/2:12:0,2,10:0:0:2,10:66,356:-34.7026,-29.3709,-28.7689,-5.66589,0,-2.65559 1/2:36:0,10,26:0:0:10,26:359,936:-106.017,-76.7327,-73.7224,-29.6433,0,-21.8165 1/1:158:0,158,0:0:0:158,0:5639,0:-507.632,-47.5627,0,-507.632,-47.5627,-507.632 1/1:87:0,87,0:0:0:87,0:3057,0:-275.36,-26.1896,0,-275.36,-26.1896,-275.36 1/2:132:0,67,65:0:0:67,65:2360,2293:-379.198,-187.061,-166.892,-192.489,0,-172.923 1/2:54:0,21,33:0:0:21,33:733,1180:-156.191,-96.5736,-90.252,-59.9692,0,-50.0352 1/2:68:0,24,44:0:0:24,44:853,1584:-199.115,-129.606,-122.381,-69.8656,0,-56.6203 1/2:76:0,41,35:0:0:41,35:1473,1260:-223.334,-103.169,-90.8272,-120.524,0,-109.988 1/2:64:0,42,22:0:0:42,22:1486,788:-185.655,-64.6221,-51.9789,-121.39,0,-114.767 1/1:102:0,98,4:0:0:98,4:3439,144:-309.362,-29.5009,0,-297.612,-17.3914,-296.408 1/1:45:0,45,0:0:0:45,0:1594,0:-143.75,-13.5464,0,-143.75,-13.5464,-143.75 chr09 19370243 . G A 4637.3 PASS AB=0.468198;ABP=7.98243;AC=14;AF=0.333333;AN=42;AO=267;CIGAR=1X;DP=874;DPB=874;DPRA=0.917793;EPP=582.793;EPPR=1321.09;GTI=0;LEN=1;MEANALT=1;MQM=59.7303;MQMR=59.9077;NS=21;NUMALT=1;ODDS=1.96735;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9499;QR=21436;RO=607;RPL=254;RPP=475.375;RPPR=886.656;RPR=13;RUN=1;SAF=254;SAP=475.375;SAR=13;SRF=552;SRP=886.656;SRR=55;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:21,24:21:752:24:832:-61.5774,0,-54.4599 0/1:27:6,21:6:216:21:744:-59.1565,0,-11.6627 0/1:41:24,17:24:838:17:608:-42.7098,0,-63.3938 0/1:17:9,8:9:316:8:288:-21.1499,0,-23.6613 0/1:64:27,37:27:963:37:1315:-99.1575,0,-67.6216 0/1:26:13,13:13:456:13:464:-34.2707,0,-33.5465 0/0:47:46,1:46:1631:1:32:0,-10.9491,-143.879 0/1:68:41,27:41:1443:27:964:-66.5618,0,-109.695 0/0:91:91,0:91:3240:0:0:0,-27.3937,-291.822 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:8:6,2:6:212:2:72:-4.42848,0,-17.0166 0/0:39:38,1:38:1342:1:36:0,-8.14189,-117.48 0/0:71:71,0:71:2511:0:0:0,-21.3731,-226.235 0/1:33:18,15:18:648:15:532:-38.2791,0,-48.7179 0/1:36:17,19:17:608:19:672:-49.9698,0,-44.2149 0/1:16:9,7:9:296:7:248:-17.7909,0,-22.1421 0/1:119:72,47:72:2485:47:1684:-116.024,0,-188.078 0/1:61:35,26:35:1243:26:936:-66.1966,0,-93.811 0/0:25:25,0:25:876:0:0:0,-7.52575,-79.1543 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 chr09 19370264 . A G 5665.34 PASS AB=0.519697;ABP=5.23441;AC=14;AF=0.333333;AN=42;AO=344;CIGAR=1X;DP=969;DPB=969;DPRA=1.04627;EPP=732.726;EPPR=1360.18;GTI=0;LEN=1;MEANALT=1;MQM=59.8895;MQMR=60;NS=21;NUMALT=1;ODDS=4.57403;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12075;QR=22238;RO=625;RPL=2;RPP=732.726;RPPR=1360.18;RPR=342;RUN=1;SAF=0;SAP=749.997;SAR=344;SRF=0;SRP=1360.18;SRR=625;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:10,18:10:360:18:637:-49.2102,0,-24.3155 0/1:42:23,19:23:800:19:665:-47.5295,0,-59.6725 0/1:50:28,22:28:995:22:772:-54.7498,0,-74.8125 0/1:42:18,24:18:635:24:842:-63.4546,0,-44.8337 0/1:73:36,37:36:1277:37:1303:-95.5954,0,-93.2559 0/1:43:21,22:21:747:22:775:-57.1269,0,-54.61 0/0:76:76,0:76:2682:0:0:0,-22.8783,-241.623 0/1:61:18,43:18:648:43:1515:-118.279,0,-40.2891 0/0:77:77,0:77:2746:0:0:0,-23.1793,-247.381 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:19:6,13:6:216:13:464:-36.3779,0,-14.0709 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/0:41:40,1:40:1436:1:36:0,-8.74395,-125.939 0/1:66:39,27:39:1391:27:949:-65.8548,0,-105.62 0/1:33:16,17:16:572:17:578:-42.4034,0,-41.8794 0/1:17:8,9:8:288:9:311:-23.2062,0,-21.1499 0/1:113:53,60:53:1878:60:2107:-155.883,0,-135.281 0/1:64:36,28:36:1277:28:977:-68.9554,0,-95.9652 0/0:28:28,0:28:991:0:0:0,-8.42884,-89.5035 0/0:37:37,0:37:1323:0:0:0,-11.1381,-119.371 chr09 19448243 . T C 2861.05 PASS AB=0.419214;ABP=28.9731;AC=14;AF=0.333333;AN=42;AO=195;CIGAR=1X;DP=770;DPB=770;DPRA=1.84719;EPP=417.806;EPPR=1251.61;GTI=1;LEN=1;MEANALT=1;MQM=59.9949;MQMR=59.993;NS=21;NUMALT=1;ODDS=0.344206;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6915;QR=20610;RO=575;RPL=194;RPP=417.806;RPPR=1251.61;RPR=1;RUN=1;SAF=195;SAP=426.447;SAR=0;SRF=575;SRP=1251.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:27,18:27:959:18:639:-44.2919,0,-73.079 0/1:30:26,4:26:936:4:144:-4.28272,0,-75.5286 0/1:22:8,14:8:288:14:500:-38.7135,0,-19.6447 0/1:28:18,10:18:648:10:358:-24.134,0,-50.223 0/1:88:51,37:51:1828:37:1308:-91.5281,0,-138.31 0/1:25:19,6:19:671:6:216:-12.2648,0,-53.19 0/0:87:86,1:86:3080:1:36:0,-22.5913,-273.83 0/1:17:8,9:8:280:9:324:-24.3883,0,-20.4218 0/0:94:93,1:93:3340:1:36:0,-24.6985,-297.218 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:4:2,2:2:72:2:64:-4.87457,0,-5.6326 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.415 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/1:61:35,26:35:1256:26:913:-64.1212,0,-94.9825 0/1:43:23,20:23:828:20:716:-51.823,0,-61.8998 0/1:41:22,19:22:792:19:661:-47.4694,0,-59.2634 0/1:24:12,12:12:432:12:428:-31.6341,0,-31.9965 0/1:18:8,10:8:288:10:356:-26.9627,0,-20.8489 0/0:44:43,1:43:1544:1:36:0,-9.64704,-135.655 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 chr09 19448248 . T C 11148.1 PASS AB=0.582418;ABP=29.8554;AC=28;AF=0.666667;AN=42;AO=565;CIGAR=1X;DP=757;DPB=757;DPRA=0;EPP=1229.89;EPPR=411.292;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9948;NS=21;NUMALT=1;ODDS=2.25851;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19834;QR=6815;RO=192;RPL=565;RPP=1229.89;RPPR=411.292;RPR=0;RUN=1;SAF=565;SAP=1229.89;SAR=0;SRF=192;SRP=419.933;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:45:18,27:18:635:27:968:-73.891,0,-43.9306 0/1:31:4,27:4:144:27:968:-78.1054,0,-3.98169 0/1:20:14,6:14:491:6:208:-13.0385,0,-38.5005 0/1:26:9,17:9:324:17:612:-47.5867,0,-21.6791 0/1:86:35,51:35:1252:51:1812:-137.473,0,-87.0965 0/1:25:6,19:6:216:19:656:-51.8337,0,-12.2648 1/1:84:0,84:0:0:84:2906:-261.773,-25.2865,0 0/1:18:9,9:9:311:9:307:-22.5417,0,-22.9052 1/1:91:1,90:1:36:90:3156:-280.667,-23.7955,0 1/1:7:0,7:0:0:7:239:-21.8427,-2.10721,0 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 0/1:12:5,7:5:180:7:248:-19.0518,0,-12.9397 1/1:39:0,39:0:0:39:1366:-123.237,-11.7402,0 1/1:24:0,24:0:0:24:843:-76.188,-7.22472,0 0/1:61:26,35:26:921:35:1189:-88.9415,0,-64.8424 0/1:44:20,24:20:697:24:847:-63.3034,0,-49.8049 0/1:42:21,21:21:752:21:748:-55.002,0,-55.363 0/1:24:12,12:12:428:12:406:-29.6394,0,-31.6341 0/1:17:9,8:9:320:8:288:-21.1499,0,-24.0248 1/1:43:1,42:1:36:42:1503:-131.966,-9.34602,0 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 chr09 19466052 . A T 10017.9 PASS AB=0.557465;ABP=29.714;AC=14;AF=0.333333;AN=42;AO=519;CIGAR=1X;DP=1661;DPB=1661;DPRA=0.637671;EPP=58.3431;EPPR=2482.83;GTI=0;LEN=1;MEANALT=1;MQM=34.0482;MQMR=57.8748;NS=21;NUMALT=1;ODDS=2.58679;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18440;QR=40634;RO=1142;RPL=201;RPP=60.2845;RPPR=2482.83;RPR=318;RUN=1;SAF=1;SAP=1121.34;SAR=518;SRF=0;SRP=2482.83;SRR=1142;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:13,35:13:464:35:1252:-86.2262,0,-27.6029 0/1:47:6,41:6:208:41:1455:-99.4314,0,-4.89436 0/1:111:55,56:55:1960:56:1977:-123.84,0,-143.082 0/1:66:34,32:34:1206:32:1136:-69.4267,0,-88.9241 0/1:149:61,88:61:2180:88:3125:-209.72,0,-151.441 0/1:64:25,39:25:884:39:1392:-84.9513,0,-60.4837 0/0:64:64,0:64:2272:0:0:0,-19.2659,-204.44 0/1:50:29,21:29:1044:21:735:-41.8962,0,-79.1785 0/0:183:183,0:183:6514:0:0:0,-55.0885,-585.992 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.2523 0/1:12:9,3:9:324:3:104:-4.40801,0,-25.7593 0/1:19:13,6:13:468:6:212:-10.9379,0,-36.6513 0/0:177:177,0:177:6274:0:0:0,-53.2823,-564.479 0/0:102:102,0:102:3647:0:0:0,-30.7051,-327.944 0/1:120:53,67:53:1896:67:2371:-154.314,0,-134.791 0/1:38:13,25:13:464:25:900:-65.2628,0,-30.6182 0/1:58:14,44:14:504:44:1569:-115.525,0,-28.2098 0/1:85:43,42:43:1528:42:1500:-89.4182,0,-111.465 0/1:64:44,20:44:1541:20:712:-37.0451,0,-119.551 0/0:137:137,0:137:4873:0:0:0,-41.2411,-437.967 0/0:57:57,0:57:2027:0:0:0,-17.1587,-182.076 chr09 19466079 . C G 7288.4 PASS AB=0.556375;ABP=29.2075;AC=14;AF=0.333333;AN=42;AO=530;CIGAR=1X;DP=1692;DPB=1692;DPRA=0.585208;EPP=1136.58;EPPR=2476.5;GTI=1;LEN=1;MEANALT=1.125;MQM=34.1245;MQMR=57.8663;NS=21;NUMALT=1;ODDS=0.0395376;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18935;QR=41489;RO=1159;RPL=529;RPP=1145.22;RPPR=2476.5;RPR=1;RUN=1;SAF=1;SAP=1145.22;SAR=529;SRF=0;SRP=2519.75;SRR=1159;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:13,34:13:468:34:1216:-83.524,0,-28.2661 0/1:46:6,40:6:216:40:1436:-97.562,0,-5.92274 0/1:112:54,58:54:1931:58:2067:-129.407,0,-140.172 0/1:68:34,33:34:1201:33:1180:-72.2362,0,-87.8569 0/1:152:64,87:64:2288:87:3102:-207.509,0,-160.207 0/1:67:26,41:26:932:41:1456:-89.5798,0,-63.9209 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.054 0/1:53:30,23:30:1076:23:811:-46.5958,0,-81.1528 0/0:182:182,0:182:6506:0:0:0,-54.7875,-585.297 0/0:12:11,1:11:388:1:36:0,-0.0913514,-31.6756 0/1:12:9,3:9:324:3:108:-4.51538,0,-25.7593 0/1:20:14,6:14:491:6:216:-10.7794,0,-38.1836 0/0:180:179,0:179:6416:0:0:0,-53.8844,-576.896 0/0:105:105,0:105:3772:0:0:0,-31.6081,-338.933 0/1:126:54,72:54:1936:72:2584:-168.257,0,-136.584 0/1:40:14,26:14:504:26:932:-67.4686,0,-33.5998 0/1:57:13,44:13:468:44:1580:-116.753,0,-25.2724 0/1:85:43,42:43:1540:42:1504:-89.5584,0,-112.548 0/1:64:45,19:45:1612:19:671:-33.8878,0,-125.958 0/0:142:141,1:141:5044:1:36:0,-39.6917,-450.255 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.405 chr09 19530904 . ATA GTG,ATG 22277.2 PASS AB=0.329225,0.669014;ABP=146.893,143.942;AC=25,17;AF=0.595238,0.404762;AN=42;AO=508,464;CIGAR=1X1M1X,2M1X;DP=976;DPB=976;DPRA=6.05,0.979873;EPP=1088.81,286.219;EPPR=0;GTI=2;LEN=3,1;MEANALT=1.9,2.0625;MQM=53.8957,59.347;MQMR=0;NS=21;NUMALT=2;ODDS=1.87538;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17904,16459;QR=0;RO=0;RPL=506,463;RPP=1088.81,1001.91;RPPR=0;RPR=2,1;RUN=1,1;SAF=0,354;SAP=1106.12,281.633;SAR=508,110;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,6,31:0:0:6,31:214,1104:-107.766,-90.334,-88.5278,-17.7882,0,-8.45625 1/2:12:0,2,10:0:0:2,10:72,356:-35.2054,-29.3462,-28.7442,-6.21747,0,-3.20717 1/2:30:0,21,9:0:0:21,9:741,324:-87.0269,-26.7966,-20.475,-60.5879,0,-57.8786 1/2:29:0,10,19:0:0:10,19:355,676:-84.3477,-55.4484,-52.4381,-29.2542,0,-23.5347 1/2:39:0,18,21:0:0:18,21:635,752:-113.248,-61.6799,-56.2614,-51.9229,0,-45.6013 1/2:28:0,10,18:0:0:10,18:356,632:-80.3942,-51.7603,-48.75,-28.9852,0,-23.5667 1/1:29:0,29,0:0:0:29,0:1011,0:-90.8352,-8.72987,0,-90.8352,-8.72987,-90.8352 1/2:36:0,25,10:0:0:25,10:885,360:-100.794,-29.3744,-21.8486,-71.4959,0,-68.4856 1/1:95:0,94,0:0:0:94,0:3281,0:-294.722,-28.2968,0,-294.722,-28.2968,-294.722 1/2:7:0,6,1:0:0:6,1:214,36:-20.7057,-3.29553,-1.48935,-17.7693,0,-17.4683 2/2:78:0,5,73:0:0:5,73:180,2581:-232.074,-217.432,-215.927,-21.9752,-6.97557,0 1/2:72:0,15,57:0:0:15,57:538,2015:-208.141,-164.459,-159.944,-44.0377,0,-26.879 1/1:54:0,54,0:0:0:54,0:1921,0:-172.361,-16.2556,0,-172.361,-16.2556,-172.361 1/1:36:0,36,0:0:0:36,0:1253,0:-112.913,-10.8371,0,-112.913,-10.8371,-112.913 1/2:39:0,14,25:0:0:14,25:498,893:-113.63,-73.1586,-68.9442,-40.8264,0,-33.3007 2/2:8:0,0,8:0:0:0,8:0,272:-24.8051,-24.8051,-24.8051,-2.40824,-2.40824,0 1/2:10:0,1,9:0:0:1,9:36,313:-28.7223,-25.7846,-25.4835,-3.29624,0,-0.586969 1/2:173:0,28,145:0:0:28,145:993,5141:-499.049,-418.507,-410.079,-80.8948,0,-37.2455 1/2:56:0,31,25:0:0:31,25:1106,896:-163.358,-73.4346,-64.1027,-90.2806,0,-82.7549 1/1:86:0,81,3:0:0:81,3:2839,108:-254.14,-24.3834,0,-245.327,-15.547,-244.424 1/1:22:0,22,0:0:0:22,0:776,0:-69.2568,-6.62266,0,-69.2568,-6.62266,-69.2568 chr09 19533221 . A G 4520.27 PASS AB=0.444104;ABP=20.7312;AC=14;AF=0.333333;AN=42;AO=293;CIGAR=1X;DP=1042;DPB=1042;DPRA=0.791314;EPP=639.252;EPPR=1629.44;GTI=0;LEN=1;MEANALT=1;MQM=59.8976;MQMR=59.9466;NS=21;NUMALT=1;ODDS=2.84806;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10454;QR=26818;RO=749;RPL=293;RPP=639.252;RPPR=1629.44;RPR=0;RUN=1;SAF=293;SAP=639.252;SAR=0;SRF=749;SRP=1629.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:53,35:53:1904:35:1260:-87.1286,0,-145.145 0/1:18:14,4:14:500:4:144:-7.89508,0,-39.9176 0/1:50:26,24:26:936:24:837:-60.5941,0,-69.508 0/1:58:28,30:28:1008:30:1072:-79.3327,0,-73.5766 0/1:105:68,37:68:2425:37:1328:-88.2141,0,-186.894 0/1:47:22,25:22:780:25:896:-66.8119,0,-56.3746 0/0:91:91,0:91:3256:0:0:0,-27.3937,-293.261 0/1:64:34,30:34:1220:30:1049:-75.4512,0,-90.8409 0/0:101:101,0:101:3628:0:0:0,-30.404,-326.719 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:11:7,4:7:252:4:140:-9.63325,0,-19.7176 0/0:64:64,0:64:2277:0:0:0,-19.2659,-205.191 0/0:66:65,1:65:2324:1:36:0,-16.2697,-205.735 0/1:64:33,31:33:1180:31:1112:-81.1254,0,-87.2421 0/1:53:24,29:24:864:29:1040:-77.9598,0,-62.128 0/1:31:18,13:18:644:13:468:-33.1277,0,-48.9587 0/1:37:21,16:21:756:16:576:-41.0369,0,-57.2291 0/1:23:14,9:14:496:9:320:-22.2163,0,-38.0506 0/0:28:26,2:26:932:2:72:0,-1.59212,-77.3575 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 chr09 19533237 . T C 12907.9 PASS AB=0.541667;ABP=12.42;AC=28;AF=0.666667;AN=42;AO=696;CIGAR=1X;DP=985;DPB=985;DPRA=0;EPP=1514.36;EPPR=630.566;GTI=0;LEN=1;MEANALT=1;MQM=59.9483;MQMR=59.917;NS=21;NUMALT=1;ODDS=4.93444;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23693;QR=10310;RO=289;RPL=696;RPP=1514.36;RPPR=630.566;RPR=0;RUN=1;SAF=696;SAP=1514.36;SAR=0;SRF=289;SRP=630.566;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:34,50:34:1216:50:1676:-125.827,0,-84.46 0/1:17:4,13:4:144:13:459:-36.5266,0,-8.19611 0/1:45:22,23:22:792:23:774:-56.4229,0,-58.0593 0/1:55:28,27:28:984:27:941:-68.445,0,-72.314 0/1:99:36,63:36:1283:63:2199:-168.372,0,-85.9707 0/1:47:26,21:26:928:21:716:-50.6064,0,-69.6898 1/1:81:0,81:0:0:81:2751:-247.828,-24.3834,0 0/1:63:30,33:30:1067:33:1109:-81.1433,0,-77.3682 1/1:97:0,97:0:0:97:3277:-295.148,-29.1999,0 1/1:6:0,6:0:0:6:210:-19.242,-1.80618,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 1/1:59:0,59:0:0:59:1994:-179.727,-17.7608,0 1/1:62:1,61:1:36:61:2090:-184.763,-15.0656,0 0/1:62:32,30:32:1140:30:1024:-73.8011,0,-84.2453 0/1:51:29,22:29:1036:22:767:-53.9969,0,-78.1452 0/1:30:13,17:13:468:17:569:-42.4926,0,-33.4287 0/1:35:16,19:16:572:19:624:-45.9313,0,-41.2774 0/1:21:9,12:9:320:12:403:-30.2715,0,-22.8207 1/1:25:2,23:2:72:23:792:-64.7528,-0.689028,0 1/1:31:0,31:0:0:31:1030:-92.9999,-9.33193,0 chr09 19635345 . A G 16197.9 PASS AB=0.469412;ABP=9.91814;AC=28;AF=0.666667;AN=42;AO=840;CIGAR=1X;DP=1291;DPB=1291;DPRA=0;EPP=1827.05;EPPR=980.173;GTI=0;LEN=1;MEANALT=1.04762;MQM=56.5524;MQMR=38.4044;NS=21;NUMALT=1;ODDS=8.68375;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29506;QR=16060;RO=450;RPL=0;RPP=1827.05;RPPR=980.173;RPR=840;RUN=1;SAF=0;SAP=1827.05;SAR=840;SRF=0;SRP=980.173;SRR=450;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:52,32:52:1860:32:1125:-76.1649,0,-130.284 0/1:44:23,21:23:824:21:710:-50.9264,0,-52.0103 0/1:88:31,57:31:1104:57:2006:-153.881,0,-66.2246 0/1:89:47,42:47:1673:42:1483:-106.861,0,-116.591 0/1:118:79,39:79:2823:39:1384:-89.2685,0,-204.036 0/1:52:31,21:31:1092:21:715:-48.9764,0,-73.1617 1/1:62:0,62:0:0:62:2155:-193.828,-18.6639,0 0/1:89:43,45:43:1525:45:1584:-115.822,0,-100.205 1/1:112:0,112:0:0:112:3978:-356.558,-33.7154,0 1/1:13:0,13:0:0:13:464:-42.0966,-3.91339,0 0/1:5:2,3:2:72:3:108:-8.56358,0,-5.14998 0/1:13:4,9:4:144:9:311:-24.3955,0,-9.0466 1/1:91:0,91:0:0:91:3219:-289.182,-27.3937,0 1/1:68:0,68:0:0:68:2331:-209.887,-20.47,0 0/1:76:35,41:35:1252:41:1433:-106.142,0,-81.7698 0/1:50:32,18:32:1148:18:627:-41.6238,0,-83.5398 0/1:59:37,22:37:1332:22:780:-52.6729,0,-97.2585 0/1:48:20,28:20:707:28:1004:-76.1953,0,-44.567 0/1:35:14,21:14:504:21:731:-55.5299,0,-31.1904 1/1:58:0,58:0:0:58:2068:-185.889,-17.4597,0 1/1:37:0,37:0:0:37:1290:-116.344,-11.1381,0 chr09 19635353 . CGGGGGT TGGGGGT,TGAGGGC 26050.7 PASS AB=0.465596,0.519495;ABP=11.9751,5.889;AC=28,14;AF=0.666667,0.333333;AN=42;AO=856,453;CIGAR=1X6M,1X1M1X3M1X;DP=1327;DPB=1327.14;DPRA=0,0.958242;EPP=1861.79,986.687;EPPR=5.18177;GTI=0;LEN=1,7;MEANALT=2.47619,2.85714;MQM=56.7453,38.287;MQMR=60;NS=21;NUMALT=2;ODDS=7.80457;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=30519,15691;QR=30;RO=1;RPL=0,0;RPP=1861.79,986.687;RPPR=5.18177;RPR=856,453;RUN=1,1;SAF=0,0;SAP=1861.79,986.687;SAR=856,453;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:84:0,31,52:0:0:31,52:1116,1810:-227.16,-136.169,-126.837,-90.9995,0,-75.346 1/2:44:0,20,23:0:0:20,23:712,804:-114.909,-56.8959,-50.8753,-57.9974,0,-51.0737 1/2:90:0,57,32:0:0:57,32:2028,1115:-249.373,-84.5009,-67.3422,-164.956,0,-155.323 1/2:95:0,44,50:0:0:44,50:1576,1716:-260.888,-132.465,-119.22,-128.408,0,-113.357 1/2:122:0,43,79:0:0:43,79:1532,2752:-335.884,-211.072,-198.128,-125.159,0,-101.377 1/2:55:0,23,31:0:0:23,31:815,1099:-146.293,-79.9296,-73.0059,-66.4072,0,-57.0753 1/1:68:0,67,0:0:0:67,0:2400,0:-215.578,-20.169,0,-215.578,-20.169,-215.578 1/2:90:0,46,42:0:0:46,42:1652,1449:-243.808,-109.108,-95.2607,-134.757,0,-122.113 1/1:116:0,115,0:0:0:115,0:4091,0:-367.359,-34.6185,0,-367.359,-34.6185,-367.359 1/1:11:0,11,0:0:0:11,0:392,0:-35.6197,-3.31133,0,-35.6197,-3.31133,-35.6197 1/2:5:0,3,2:0:0:3,2:108,69:-14.6309,-5.81161,-4.90852,-9.16564,0,-8.56358 1/2:13:0,9,4:0:0:9,4:324,133:-37.2791,-10.8354,-8.1261,-26.7797,0,-25.5756 1/1:91:0,91,0:0:0:91,0:3247,0:-291.98,-27.3937,0,-291.98,-27.3937,-291.98 1/1:71:0,70,0:0:0:70,0:2462,0:-221.239,-21.0721,0,-221.239,-21.0721,-221.239 1/2:79:1,42,36:1:30:42,36:1486,1233:-211.62,-91.1562,-80.911,-118.402,0,-109.963 1/2:51:0,16,34:0:0:16,34:572,1168:-137.285,-90.6973,-85.8808,-46.6888,0,-36.4538 1/2:60:0,23,34:0:0:23,34:824,1180:-159.512,-92.4136,-85.4899,-67.1565,0,-56.9215 1/2:50:0,29,20:0:0:29,20:1031,690:-135.597,-51.5928,-42.8629,-84.018,0,-77.9974 1/2:34:0,20,14:0:0:20,14:716,473:-93.8519,-35.4872,-29.4666,-58.6958,0,-54.4814 1/1:59:0,57,0:0:0:57,0:2048,0:-183.709,-17.1587,0,-183.709,-17.1587,-183.709 1/1:39:0,39,0:0:0:39,0:1387,0:-125.065,-11.7402,0,-125.065,-11.7402,-125.065 chr09 19646357 . G A 3644.92 PASS AB=0.258635;ABP=633.001;AC=14;AF=0.333333;AN=42;AO=322;CIGAR=1X;DP=1923;DPB=1923;DPRA=0.918142;EPP=634.464;EPPR=160.725;GTI=4;LEN=1;MEANALT=1;MQM=60;MQMR=59.9294;NS=21;NUMALT=1;ODDS=1.67895;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11575;QR=57294;RO=1601;RPL=8;RPP=634.464;RPPR=160.725;RPR=314;RUN=1;SAF=322;SAP=702.224;SAR=0;SRF=1601;SRP=3479.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:69,28:69:2472:28:1008:-61.8364,0,-193.534 0/1:46:41,5:41:1472:5:180:-2.70469,0,-118.929 0/1:94:79,15:79:2828:15:540:-20.6397,0,-226.457 0/1:93:68,25:68:2427:25:900:-53.3252,0,-190.69 0/1:208:125,83:125:4461:83:2984:-206.177,0,-339.012 0/1:82:63,19:63:2251:19:684:-37.2059,0,-178.168 0/0:115:115,0:115:4098:0:0:0,-34.6184,-369.006 0/1:84:65,19:65:2319:19:684:-36.6038,0,-183.664 0/0:218:218,0:218:7801:0:0:0,-65.6245,-702.118 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:27:21,6:21:752:6:216:-11.6627,0,-59.8784 0/0:74:74,0:74:2641:0:0:0,-22.2762,-237.935 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.549 0/1:135:96,39:96:3440:39:1399:-85.57,0,-269.156 0/1:96:78,18:78:2804:18:648:-29.753,0,-223.605 0/1:95:66,29:66:2359:29:1040:-65.3165,0,-183.97 0/1:113:90,23:90:3232:23:828:-40.8277,0,-257.085 0/1:69:58,11:58:2065:11:392:-14.849,0,-165.344 0/0:83:83,0:83:2980:0:0:0,-24.9855,-268.432 0/0:84:84,0:84:3020:0:0:0,-25.2865,-272.03 chr09 19646363 . T G 19552.3 PASS AB=0.579086;ABP=106.393;AC=21;AF=0.5;AN=42;AO=1102;CIGAR=1X;DP=1903;DPB=1903;DPRA=0;EPP=2387.29;EPPR=1733.68;GTI=0;LEN=1;MEANALT=1;MQM=59.8947;MQMR=60;NS=21;NUMALT=1;ODDS=16.2735;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39367;QR=28716;RO=801;RPL=1101;RPP=2387.29;RPPR=1733.68;RPR=1;RUN=1;SAF=1102;SAP=2395.97;SAR=0;SRF=801;SRP=1742.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:40,54:40:1440:54:1938:-146.399,0,-101.601 0/1:46:19,27:19:684:27:972:-73.9505,0,-48.0429 0/1:93:25,68:25:900:68:2419:-189.966,0,-53.3252 0/1:93:31,62:31:1112:62:2220:-172.069,0,-72.3956 0/1:204:118,86:118:4224:86:3074:-215.459,0,-318.93 0/1:79:30,49:30:1080:49:1746:-133.641,0,-73.7319 0/1:118:63,55:63:2264:55:1972:-142.233,0,-168.501 0/1:81:40,41:40:1432:41:1472:-108.388,0,-104.794 0/1:218:74,144:74:2651:144:5172:-399.994,0,-173.211 0/1:19:8,11:8:288:11:392:-29.9005,0,-20.5478 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 0/1:26:7,19:7:252:19:684:-54.0635,0,-15.2022 0/1:74:31,43:31:1104:43:1529:-115.625,0,-77.3944 0/1:85:27,58:27:972:58:2049:-159.092,0,-62.2104 0/1:138:63,75:63:2255:75:2654:-197.537,0,-161.67 0/1:94:33,61:33:1184:61:2196:-169.513,0,-78.5715 0/1:95:44,51:44:1563:51:1798:-133.5,0,-112.363 0/1:106:47,59:47:1688:59:2105:-157.808,0,-120.298 0/1:67:31,36:31:1116:36:1283:-95.599,0,-80.5827 0/1:83:28,55:28:1004:55:1976:-153.129,0,-65.6904 0/1:84:40,44:40:1431:44:1576:-116.845,0,-103.8 chr09 19646377 . C T 13401.4 PASS AB=0.438578;ABP=65.697;AC=21;AF=0.5;AN=42;AO=839;CIGAR=1X;DP=1913;DPB=1913;DPRA=0;EPP=1824.88;EPPR=2333;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.8462;MQMR=59.9944;NS=21;NUMALT=1;ODDS=24.8487;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29948;QR=38001;RO=1073;RPL=839;RPP=1824.88;RPPR=2333;RPR=0;RUN=1;SAF=839;SAP=1824.88;SAR=0;SRF=1073;SRP=2333;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:63,33:63:2217:33:1176:-77.2489,0,-170.892 0/1:46:16,30:16:567:30:1076:-83.3055,0,-37.5133 0/1:94:52,41:52:1868:41:1449:-102.348,0,-140.039 0/1:91:47,44:47:1666:44:1580:-115.098,0,-122.832 0/1:207:123,84:123:4377:84:3012:-208.962,0,-331.791 0/1:82:47,35:47:1647:35:1256:-88.6608,0,-123.83 0/1:118:54,64:54:1923:64:2284:-170.3,0,-137.825 0/1:83:42,41:42:1480:41:1456:-106.24,0,-108.506 0/1:218:143,75:143:5051:75:2677:-175.549,0,-389.113 0/1:18:11,7:11:392:7:252:-17.6104,0,-30.2015 0/1:6:3,3:3:99:3:108:-8.26899,0,-7.4304 0/1:27:20,7:20:720:7:252:-14.9011,0,-57.001 0/1:72:40,32:40:1419:32:1139:-81.1442,0,-106.332 0/1:86:59,27:59:2071:27:951:-60.0157,0,-160.77 0/1:135:71,64:71:2544:64:2296:-166.065,0,-188.572 0/1:93:46,47:46:1619:47:1684:-123.756,0,-118.002 0/1:97:54,43:54:1927:43:1531:-108.882,0,-144.506 0/1:110:49,61:49:1735:61:2170:-162.452,0,-123.321 0/1:67:32,35:32:1132:35:1238:-91.5501,0,-82.0196 0/1:83:56,27:56:1977:27:965:-62.1811,0,-153.217 0/1:84:45,39:45:1570:39:1396:-100.653,0,-116.303 chr09 19646489 . A G,T 64994.9 PASS AB=0.543321,0.456378;ABP=57.1952,57.9504;AC=21,21;AF=0.5,0.5;AN=42;AO=1806,1517;CIGAR=1X,1X;DP=3324;DPB=3324;DPRA=0,0;EPP=3924.69,3297.13;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=2,2;MQM=59.8084,59.8095;MQMR=60;NS=21;NUMALT=2;ODDS=13.9509;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64120,52883;QR=36;RO=1;RPL=0,0;RPP=3924.69,3297.13;RPPR=5.18177;RPR=1806,1517;RUN=1,1;SAF=0,0;SAP=3924.69,3297.13;SAR=1806,1517;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:259:0,153,106:0:0:153,106:5378,3773:-745.593,-307.858,-261.801,-438.088,0,-406.179 1/2:143:0,83,60:0:0:83,60:2944,2082:-408.507,-169.56,-144.575,-239.297,0,-221.235 1/2:157:0,67,90:0:0:67,90:2378,3119:-447.018,-253.755,-233.586,-193.613,0,-166.521 1/2:217:0,111,106:0:0:111,106:3942,3659:-618.809,-297.61,-264.195,-321.549,0,-289.639 1/2:476:0,226,250:0:0:226,250:8039,8769:-1369.03,-713.916,-645.883,-655.464,0,-580.207 1/2:153:0,69,84:0:0:69,84:2445,2936:-438.371,-239.19,-218.419,-199.533,0,-174.246 1/2:189:0,117,72:0:0:117,72:4175,2490:-542.223,-201.859,-166.639,-340.712,0,-319.038 1/2:155:0,83,72:0:0:83,72:2959,2506:-445.314,-204.12,-179.135,-241.545,0,-219.871 1/2:227:0,139,88:0:0:139,88:4968,3057:-653.889,-248.816,-206.973,-405.424,0,-378.933 1/2:11:0,5,6:0:0:5,6:180,212:-32.3087,-17.6186,-16.1135,-15.0469,0,-13.2407 1/2:11:0,9,2:0:0:9,2:320,68:-31.9427,-5.85565,-3.14638,-26.4298,0,-25.8277 1/2:33:0,11,22:0:0:11,22:388,753:-93.0594,-61.4624,-58.1511,-31.946,0,-25.3234 1/2:133:0,83,50:0:0:83,50:2948,1741:-382.13,-141.913,-116.928,-240.567,0,-225.516 1/2:151:0,99,52:0:0:99,52:3492,1784:-429.528,-145.186,-115.384,-284.688,0,-269.034 1/2:266:0,144,122:0:0:144,122:5107,4276:-764.253,-348.3,-304.951,-416.306,0,-379.58 1/2:158:1,100,57:1:36:100,57:3549,1995:-448.201,-159.365,-132.2,-286.191,0,-271.97 1/2:195:0,102,93:0:0:102,93:3651,3225:-560.116,-262.444,-231.739,-298.024,0,-270.028 1/2:96:0,45,51:0:0:45,51:1587,1761:-272.633,-143.41,-129.864,-129.571,0,-114.219 1/2:81:0,38,43:0:0:38,43:1360,1523:-235.316,-124.416,-112.976,-111.257,0,-98.3126 1/2:112:0,69,43:0:0:69,43:2431,1455:-316.216,-118.287,-97.5157,-198.273,0,-185.329 1/2:101:0,53,48:0:0:53,48:1879,1699:-291.816,-138.736,-122.782,-153.434,0,-138.984 chr09 19646510 . G A 5778.14 PASS AB=0.238384;ABP=1474.37;AC=14;AF=0.333333;AN=42;AO=590;CIGAR=1X;DP=3411;DPB=3411;DPRA=1.32212;EPP=1266.87;EPPR=6107.03;GTI=4;LEN=1;MEANALT=1.14286;MQM=59.4458;MQMR=59.8599;NS=21;NUMALT=1;ODDS=4.98157;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21107;QR=100648;RO=2819;RPL=2;RPP=1266.87;RPPR=6107.03;RPR=588;RUN=1;SAF=0;SAP=1284.18;SAR=590;SRF=0;SRP=6124.39;SRR=2819;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:264:200,64:200:7118:64:2300:-127.778,0,-561.208 0/1:147:99,47:99:3552:47:1667:-105.036,0,-275.516 0/1:160:128,31:128:4569:31:1102:-51.2118,0,-363.103 0/1:225:165,60:165:5875:60:2135:-124.678,0,-461.12 0/1:494:383,111:383:13687:111:3969:-208.68,0,-1082.79 0/1:161:127,34:127:4523:34:1224:-62.0012,0,-358.774 0/0:194:194,0:194:6943:0:0:0,-58.3998,-624.339 0/1:164:130,34:130:4655:34:1224:-61.0853,0,-369.742 0/0:231:231,0:231:8273:0:0:0,-69.5379,-743.753 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:11:9,2:9:320:2:72:-3.52539,0,-25.8277 0/1:35:29,6:29:1021:6:207:-8.43084,0,-81.6642 0/0:135:135,0:135:4816:0:0:0,-40.639,-432.961 0/0:150:150,0:150:5362:0:0:0,-45.1545,-482.711 0/1:272:199,73:199:7097:73:2619:-153.919,0,-556.907 0/1:163:117,46:117:4188:46:1652:-99.873,0,-328.034 0/1:203:148,55:148:5276:55:1964:-115.866,0,-413.794 0/1:95:78,17:78:2792:17:612:-26.8156,0,-222.909 0/1:81:71,10:71:2547:10:360:-8.35623,0,-205.092 0/0:115:115,0:115:4086:0:0:0,-34.6184,-367.923 0/0:100:100,0:100:3552:0:0:0,-30.103,-319.877 chr09 19646534 . T G 7007.63 PASS AB=0.236609;ABP=1971.65;AC=20;AF=0.47619;AN=42;AO=785;CIGAR=1X;DP=3432;DPB=3432;DPRA=0;EPP=1707.62;EPPR=5746.55;GTI=8;LEN=1;MEANALT=1.09524;MQM=59.6688;MQMR=59.8412;NS=21;NUMALT=1;ODDS=2.48296;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28042;QR=94813;RO=2645;RPL=785;RPP=1707.62;RPPR=5746.55;RPR=0;RUN=1;SAF=0;SAP=1707.62;SAR=785;SRF=0;SRP=5746.55;SRR=2645;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:267:232,35:232:8306:35:1252:-32.6101,0,-667.141 0/1:148:119,29:119:4276:29:1044:-49.6978,0,-339.479 0/1:161:126,35:126:4513:35:1256:-64.8748,0,-357.595 0/1:225:191,34:191:6829:34:1216:-42.0054,0,-546.939 0/1:495:429,66:429:15367:66:2360:-63.6428,0,-1233.58 0/1:162:121,41:121:4352:41:1468:-83.6492,0,-343.086 0/1:196:121,75:121:4352:75:2672:-181.679,0,-332.851 0/0:165:153,12:153:5477:12:424:0,-11.1735,-454.546 0/1:230:140,90:140:5032:90:3207:-219.33,0,-383.787 0/1:11:5,6:5:180:6:216:-16.4792,0,-13.2407 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.4247 0/1:35:28,7:28:1004:7:244:-11.7634,0,-80.1398 0/1:136:82,53:82:2952:53:1898:-130.092,0,-224.914 0/1:155:101,54:101:3621:54:1905:-125.066,0,-279.433 0/1:274:226,48:226:8066:48:1716:-72.2421,0,-643.35 0/1:164:139,25:139:4988:25:900:-31.9521,0,-399.67 0/1:204:176,28:176:6301:28:996:-28.4797,0,-505.66 0/1:97:69,28:69:2484:28:1008:-61.8226,0,-194.605 0/1:80:52,28:52:1872:28:1004:-66.5896,0,-144.672 0/1:115:72,42:72:2573:42:1504:-100.972,0,-197.141 0/1:101:53,48:53:1908:48:1716:-124.315,0,-141.594 chr09 19647289 . C T 38885.6 PASS AB=0.555056;ABP=108.456;AC=21;AF=0.5;AN=42;AO=2223;CIGAR=1X;DP=4005;DPB=4005;DPRA=0;EPP=4830.19;EPPR=3872.57;GTI=0;LEN=1;MEANALT=1;MQM=54.5538;MQMR=55.4388;NS=21;NUMALT=1;ODDS=31.8948;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79460;QR=63786;RO=1782;RPL=0;RPP=4830.19;RPPR=3872.57;RPR=2223;RUN=1;SAF=2223;SAP=4830.19;SAR=0;SRF=1782;SRP=3872.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:121,40:121:4340:40:1436:-80.8471,0,-341.674 0/1:170:75,95:75:2692:95:3416:-255.812,0,-190.556 0/1:129:58,71:58:2065:71:2532:-188.948,0,-147.154 0/1:207:102,105:102:3645:105:3764:-275.458,0,-265.021 0/1:344:182,162:182:6516:162:5777:-415.226,0,-482.299 0/1:181:92,89:92:3273:89:3191:-232.19,0,-238.718 0/1:378:145,233:145:5166:233:8345:-635.563,0,-345.615 0/1:140:50,90:50:1780:90:3240:-248.917,0,-117.676 0/1:425:128,297:128:4604:297:10622:-825.856,0,-283.601 0/1:43:22,21:22:784:21:756:-55.2074,0,-57.6683 0/1:28:19,9:19:684:9:324:-20.935,0,-52.8237 0/1:32:9,23:9:324:23:828:-64.769,0,-19.8372 0/1:162:60,102:60:2144:102:3609:-274.916,0,-144.451 0/1:259:98,161:98:3505:161:5758:-438.964,0,-237.48 0/1:393:163,230:163:5844:230:8200:-616.711,0,-407.158 0/1:105:57,48:57:2048:48:1709:-122.203,0,-152.176 0/1:104:44,60:44:1576:60:2144:-161.448,0,-110.464 0/1:196:117,79:117:4188:79:2821:-194.059,0,-316.648 0/1:173:95,78:95:3420:78:2768:-195.053,0,-255.117 0/1:219:83,136:83:2956:136:4861:-370.282,0,-199.167 0/1:156:62,94:62:2232:94:3359:-254.613,0,-149.856 chr09 19647330 . CTTTGC TTTTGT,TTTTTT 10260.7 PASS AB=0.288923,0.176471;ABP=761.118,2290.46;AC=13,7;AF=0.309524,0.166667;AN=42;AO=570,450;CIGAR=1X4M1X,1X3M2X;DP=3280;DPB=3280;DPRA=0.853381,0;EPP=1240.75,980.173;EPPR=4893.17;GTI=4;LEN=6,6;MEANALT=2.125,2.05556;MQM=55.2263,49.1933;MQMR=42.8526;NS=21;NUMALT=2;ODDS=4.80858;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20006,15750;QR=79350;RO=2252;RPL=570,450;RPP=1240.75,980.173;RPPR=4858.48;RPR=0,0;RUN=1,1;SAF=570,450;SAP=1240.75,980.173;SAR=0,0;SRF=4;SRP=4858.48;SRR=2248;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:213:155,58,0:155:5480:58,0:2017,0:-117.162,0,-417.579,-163.822,-435.039,-598.515 0/1:152:84,47,20:84:2972:47,20:1667,710:-110.435,0,-222.4,-78.5161,-179.341,-309.043 0/1:73:43,30,0:43:1526:30,0:1064,0:-74.0158,0,-113.28,-86.9601,-122.311,-208.919 0/1:158:109,47,1:109:3823:47,1:1655,36:-101.371,0,-289.932,-131.331,-301.228,-435.088 0/1:166:86,77,2:86:3020:77,2:2692,56:-192.794,0,-215.817,-214.248,-234.562,-452.588 0/1:174:95,50,29:95:3352:50,29:1772,999:-115.085,0,-253.722,-63.0886,-188.177,-323.125 0/2:419:283,0,136:283:9982:0,136:0,4768:-297.883,-383.075,-1177.91,0,-795.182,-754.242 0/1:119:79,21,19:79:2768:21,19:731,669:-35.6169,0,-213.773,-5.53701,-166.233,-219.913 0/2:382:317,0,63:317:11186:0,63:0,2224:-83.144,-178.571,-1044.99,0,-866.492,-847.527 0/2:29:23,0,6:23:798:0,6:0,205:-10.0227,-16.9464,-80.1124,0,-63.5065,-61.7003 1/2:18:0,8,10:0:0:8,10:288,355:-52.1756,-28.6933,-26.2851,-23.8369,0,-20.8266 0/2:32:23,2,7:23:810:2,7:68,249:-13.3511,-14.7645,-79.2062,0,-59.5437,-62.9495 0/0:159:157,0,2:157:5520:0,2:0,64:0,-47.2617,-486.17,-41.7909,-481.019,-480.417 0/0:212:204,4,4:204:7172:4,4:135,138:0,-50.4753,-616.195,-50.3734,-606.363,-616.095 0/1:150:55,94,1:55:1952:94,1:3326,34:-254.031,0,-124.806,-267.833,-150.348,-420.628 0/1:134:94,31,9:94:3318:31,9:1073,324:-58.7977,0,-248.874,-60.8563,-231.969,-316.365 0/1:126:95,22,9:95:3347:22,9:753,309:-32.4307,0,-253.819,-36.1093,-235.522,-293.841 0/1:119:40,46,33:40:1409:46,33:1607,1134:-118.581,0,-97.9162,-39.5648,-20.7045,-141.39 0/1:107:74,31,0:74:2608:31,0:1086,0:-65.4572,0,-196.522,-87.7335,-205.854,-293.545 0/2:218:173,2,42:173:6104:2,42:72,1465:-66.1365,-112.345,-598.879,0,-481.267,-474.492 0/2:120:63,0,57:63:2203:0,57:0,2011:-141.273,-160.238,-336.142,0,-176.249,-159.09 chr09 19673699 . C T 6997.89 PASS AB=0.468852;ABP=10.7208;AC=14;AF=0.333333;AN=42;AO=437;CIGAR=1X;DP=1380;DPB=1380;DPRA=1.04882;EPP=951.944;EPPR=2050.71;GTI=0;LEN=1;MEANALT=1;MQM=59.4165;MQMR=59.9936;NS=21;NUMALT=1;ODDS=17.4937;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15636;QR=33744;RO=943;RPL=0;RPP=951.944;RPPR=2050.71;RPR=437;RUN=1;SAF=437;SAP=951.944;SAR=0;SRF=943;SRP=2050.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:32,31:32:1148:31:1103:-80.6107,0,-84.6649 0/1:48:29,19:29:1044:19:684:-47.4327,0,-79.8254 0/1:84:34,50:34:1208:50:1788:-135.909,0,-83.7396 0/1:46:26,20:26:928:20:712:-50.5523,0,-69.9909 0/1:109:53,56:53:1896:56:2008:-148.164,0,-138.106 0/1:36:26,10:26:936:10:360:-21.9072,0,-73.7224 0/0:99:99,0:99:3556:0:0:0,-29.802,-320.247 0/1:139:79,60:79:2836:60:2137:-150.735,0,-213.635 0/0:116:116,0:116:4137:0:0:0,-34.9195,-372.513 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:26:14,12:14:504:12:432:-31.1745,0,-37.8713 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/0:48:48,0:48:1716:0:0:0,-14.4494,-154.726 0/1:125:73,52:73:2607:52:1868:-130.76,0,-197.249 0/1:21:9,12:9:324:12:420:-31.8111,0,-23.1842 0/1:27:11,16:11:392:16:572:-43.6856,0,-27.4922 0/1:138:64,74:64:2288:74:2656:-197.724,0,-164.638 0/1:44:32,12:32:1136:12:428:-25.6116,0,-89.3036 0/0:84:76,8:76:2716:8:288:0,-0.449718,-219.847 0/0:50:50,0:50:1784:0:0:0,-15.0515,-160.843 chr09 19673753 . G A 19897.9 PASS AB=0.466667;ABP=21.3954;AC=14;AF=0.333333;AN=42;AO=900;CIGAR=1X;DP=2826;DPB=2826;DPRA=1.27594;EPP=1957.34;EPPR=4167.91;GTI=0;LEN=1;MEANALT=1;MQM=59.6411;MQMR=59.9777;NS=21;NUMALT=1;ODDS=20.8412;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32095;QR=68495;RO=1926;RPL=430;RPP=6.8707;RPPR=4.63834;RPR=470;RUN=1;SAF=430;SAP=6.8707;SAR=470;SRF=944;SRP=4.63834;SRR=982;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:144:72,72:72:2573:72:2564:-187.638,0,-188.461 0/1:121:64,57:64:2296:57:2048:-148.159,0,-170.476 0/1:131:55,76:55:1968:76:2723:-205.874,0,-137.96 0/1:159:75,84:75:2654:84:2987:-221.186,0,-191.238 0/1:292:155,137:155:5496:137:4900:-353.232,0,-406.867 0/1:80:50,30:50:1781:30:1080:-73.4227,0,-136.488 0/0:155:154,1:154:5465:1:36:0,-43.0614,-488.373 0/1:207:115,92:115:4117:92:3283:-233.346,0,-308.399 0/0:159:159,0:159:5635:0:0:0,-47.8638,-507.272 0/0:38:38,0:38:1341:0:0:0,-11.4391,-120.988 0/1:13:8,5:8:288:5:176:-12.2716,0,-22.354 0/1:60:33,27:33:1164:27:964:-68.7903,0,-87.0024 0/0:129:128,1:128:4574:1:36:0,-35.2346,-408.227 0/0:132:132,0:132:4711:0:0:0,-39.736,-424.081 0/1:235:147,88:147:5248:88:3120:-210.272,0,-401.717 0/1:68:31,37:31:1103:37:1317:-98.3317,0,-79.1098 0/1:81:32,49:32:1132:49:1740:-132.498,0,-77.8052 0/1:187:97,90:97:3435:90:3212:-232.981,0,-253.071 0/1:127:82,45:82:2918:45:1605:-106.5,0,-224.624 0/0:197:188,9:188:6665:9:304:0,-31.7813,-572.4 0/0:111:111,0:111:3931:0:0:0,-33.4143,-353.983 chr09 19723095 . GAT TAA,TAT 65191 PASS AB=0.496029,0.500305;ABP=3.23448,3.01163;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1709,825;CIGAR=1X1M1X,1X2M;DP=2542;DPB=2542;DPRA=0,1.2362;EPP=3602,1777.15;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.2381,2.33333;MQM=52.8286,57.3358;MQMR=0;NS=21;NUMALT=2;ODDS=27.7915;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59171,29041;QR=0;RO=0;RPL=595,338;RPP=345.263,61.4453;RPPR=0;RPR=1114,487;RUN=1,1;SAF=608,340;SAP=311.831,58.3499;SAR=1101,485;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,63,63:0:0:63,63:2167,2244:-357.553,-183.137,-164.172,-174.765,0,-155.8 1/2:97:0,35,62:0:0:35,62:1205,2216:-273.69,-180.617,-170.081,-93.4119,0,-74.7481 1/2:63:0,29,34:0:0:29,34:1010,1200:-179.483,-97.9754,-89.2455,-81.8566,0,-71.6216 1/2:107:0,54,53:0:0:54,53:1888,1859:-301.615,-151.311,-135.056,-150.65,0,-134.695 1/2:221:0,98,121:0:0:98,121:3398,4222:-615.481,-343.373,-313.872,-272.195,0,-235.771 1/2:97:0,37,60:0:0:37,60:1295,2123:-274.21,-172.869,-161.731,-101.685,0,-83.6235 1/1:210:0,207,3:0:0:207,3:7081,104:-630.273,-62.3132,0,-621.823,-53.5169,-620.92 1/2:102:0,55,46:0:0:55,46:1877,1646:-283.412,-134.146,-117.589,-149.254,0,-135.407 1/1:190:0,189,1:0:0:189,1:6604,36:-591.722,-56.8947,0,-588.784,-53.5974,-588.483 1/1:28:0,28,0:0:0:28,0:969,0:-86.9807,-8.42884,0,-86.9807,-8.42884,-86.9807 1/2:20:0,11,9:0:0:11,9:379,312:-55.3796,-25.6781,-22.3667,-30.042,0,-27.3327 1/2:63:0,20,43:0:0:20,43:698,1509:-177.915,-122.957,-116.937,-55.3005,0,-42.3562 1/1:121:0,120,0:0:0:120,0:4172,0:-370.23,-36.1236,0,-370.23,-36.1236,-370.23 1/1:153:0,152,0:0:0:152,0:5090,0:-453.538,-45.7566,0,-453.538,-45.7566,-453.538 1/2:216:0,110,105:0:0:110,105:3839,3668:-608.165,-298.339,-265.226,-309.952,0,-278.344 1/2:90:0,54,34:0:0:54,34:1897,1212:-251.654,-98.8187,-82.5631,-152.866,0,-142.631 1/2:87:0,46,41:0:0:46,41:1619,1453:-249.799,-118.71,-104.862,-131.441,0,-119.099 1/2:213:0,109,104:0:0:109,104:3833,3649:-601.528,-296.437,-263.625,-305.438,0,-274.131 1/2:135:0,91,44:0:0:91,44:3188,1526:-377.813,-123.691,-96.2971,-254.467,0,-241.222 1/1:89:0,88,1:0:0:88,1:3052,36:-267.389,-26.4906,0,-264.456,-23.1985,-264.155 1/1:114:0,113,1:0:0:113,1:3910,26:-341.124,-34.0164,0,-339.356,-32.0179,-339.055 chr09 19788612 . CTCG CTCT,TTCT 30769.5 PASS AB=0.52323,0.46792;ABP=7.24755,11.0909;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1035,428;CIGAR=3M1X,1X2M1X;DP=1472;DPB=1473;DPRA=0,0.885417;EPP=2241.81,932.4;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.09524,2.375;MQM=59.9981,59.9486;MQMR=60;NS=21;NUMALT=2;ODDS=9.59637;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=72,72;PQR=0;PRO=0;QA=36986,15164;QR=25;RO=1;RPL=1,0;RPP=2241.81,932.4;RPPR=5.18177;RPR=1034,428;RUN=1,1;SAF=1035,428;SAP=2250.48,932.4;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:105:0,51,54:0:0:51,54:1807,1918:-303.845,-156.642,-141.289,-147.558,0,-131.303 1/2:69:1,39,29:1:25:39,29:1398,1036:-196.345,-82.6249,-72.83,-112.18,0,-105.396 1/2:49:0,30,19:0:0:30,19:1080,674:-143.335,-55.2109,-46.18,-88.4242,0,-82.7046 1/2:62:0,26,35:0:0:26,35:932,1225:-175.767,-99.7481,-91.9213,-76.1181,0,-65.582 1/2:79:0,35,43:0:0:35,43:1256,1510:-225.5,-123.045,-112.508,-102.605,0,-89.6606 1/2:43:0,25,18:0:0:25,18:896,633:-124.959,-51.8782,-44.3525,-73.4346,0,-68.0161 1/1:98:0,97,1:0:0:97,1:3464,36:-311.613,-29.1999,0,-308.676,-25.9027,-308.375 1/2:102:0,54,48:0:0:54,48:1944,1697:-297.189,-138.566,-122.311,-158.979,0,-144.53 1/1:154:0,154,0:0:0:154,0:5507,0:-495.695,-46.3586,0,-495.695,-46.3586,-495.695 1/1:21:0,21,0:0:0:21,0:743,0:-67.1933,-6.32163,0,-67.1933,-6.32163,-67.1933 1/1:12:0,11,1:0:0:11,1:392,36:-35.2605,-3.31133,0,-32.3228,-0.0140851,-32.0218 1/2:20:0,11,9:0:0:11,9:396,321:-58.8375,-26.524,-23.2127,-32.6714,0,-29.9621 1/1:80:0,80,0:0:0:80,0:2872,0:-258.716,-24.0824,0,-258.716,-24.0824,-258.716 1/1:80:0,79,0:0:0:79,0:2795,0:-251.498,-23.7814,0,-251.498,-23.7814,-251.498 1/2:125:0,62,63:0:0:62,63:2228,2248:-365.381,-183.619,-164.955,-182.12,0,-163.155 1/2:57:0,31,25:0:0:31,25:1108,896:-163.416,-73.0749,-63.7429,-90.339,0,-82.8133 1/2:44:0,25,17:0:0:25,17:892,585:-120.258,-47.5318,-40.0061,-72.7513,0,-67.6338 1/2:76:0,39,37:0:0:39,37:1400,1327:-222.736,-108.536,-96.7958,-114.5,0,-103.362 1/2:73:0,45,26:0:0:45,26:1584,924:-204.238,-75.2911,-61.7447,-128.941,0,-121.114 1/1:74:0,71,3:0:0:71,3:2544,98:-228.883,-21.3731,0,-220.971,-13.1329,-220.067 1/1:49:0,49,0:0:0:49,0:1748,0:-157.604,-14.7505,0,-157.604,-14.7505,-157.604 chr09 19806061 . T C 87958.3 PASS AB=0.503697;ABP=3.4278;AC=28;AF=0.666667;AN=42;AO=3462;CIGAR=1X;DP=5224;DPB=5224;DPRA=0;EPP=7520.65;EPPR=3822.63;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9954;MQMR=59.9955;NS=21;NUMALT=1;ODDS=35.2812;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=121811;QR=62649;RO=1759;RPL=1718;RPP=3.43431;RPPR=26.8619;RPR=1744;RUN=1;SAF=1718;SAP=3.43431;SAR=1744;SRF=949;SRP=26.8619;SRR=810;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:300:163,137:163:5822:137:4848:-346.168,0,-433.784 0/1:316:146,170:146:5163:170:6012:-446.063,0,-369.687 0/1:212:98,114:98:3491:114:4028:-298.893,0,-250.583 0/1:306:133,173:133:4733:173:6100:-456.992,0,-334.012 0/1:499:255,244:255:9094:244:8578:-621.813,0,-668.225 0/1:180:78,102:78:2792:102:3603:-270.289,0,-197.335 1/1:336:1,335:1:36:335:11806:-1058.81,-97.5478,0 0/1:284:154,130:154:5471:130:4594:-328.134,0,-407.027 1/1:332:0,332:0:0:332:11679:-1050.99,-99.942,0 1/1:39:0,39:0:0:39:1370:-123.596,-11.7402,0 0/1:19:7,12:7:243:12:417:-32.142,0,-16.4879 0/1:71:32,39:32:1148:39:1378:-102.944,0,-82.2567 1/1:261:1,259:1:36:259:9159:-820.759,-74.9642,0 1/1:296:1,295:1:36:295:10428:-934.846,-85.5066,0 0/1:472:253,219:253:9037:219:7651:-546.547,0,-671.223 0/1:182:107,75:107:3824:75:2591:-178.648,0,-289.57 0/1:154:69,85:69:2464:85:2993:-223.242,0,-175.656 0/1:284:156,128:156:5534:128:4409:-311.491,0,-412.695 0/1:237:94,143:94:3333:143:4983:-377.282,0,-228.844 1/1:292:11,280:11:392:280:9910:-856.23,-52.3392,0 1/1:152:0,151:0:0:151:5274:-474.483,-45.4555,0 chr09 19809436 . C T 18158.4 PASS AB=0.47487;ABP=9.34031;AC=28;AF=0.666667;AN=42;AO=944;CIGAR=1X;DP=1551;DPB=1551;DPRA=0;EPP=2052.88;EPPR=1321.09;GTI=0;LEN=1;MEANALT=1;MQM=59.7744;MQMR=60;NS=21;NUMALT=1;ODDS=4.26851;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33774;QR=21672;RO=607;RPL=944;RPP=2052.88;RPPR=1321.09;RPR=0;RUN=1;SAF=0;SAP=2052.88;SAR=944;SRF=0;SRP=1321.09;SRR=607;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:46,49:46:1648:49:1764:-130.422,0,-120.011 0/1:87:49,38:49:1756:38:1368:-97.1787,0,-132.134 0/1:65:36,29:36:1292:29:1044:-74.7075,0,-97.0168 0/1:76:43,33:43:1548:33:1169:-82.637,0,-116.735 0/1:112:63,49:63:2221:49:1756:-124.608,0,-166.438 0/1:75:29,46:29:1017:46:1641:-125.396,0,-69.2626 1/1:73:0,73:0:0:73:2621:-236.118,-21.9752,0 0/1:87:52,35:52:1872:35:1241:-85.8029,0,-142.569 1/1:78:0,78:0:0:78:2788:-251.161,-23.4803,0 1/1:13:0,13:0:0:13:468:-42.4547,-3.91339,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:55:35,20:35:1256:20:716:-48.2095,0,-96.7886 1/1:54:0,54:0:0:54:1944:-175.234,-16.2556,0 1/1:77:0,77:0:0:77:2745:-247.258,-23.1793,0 0/1:183:105,78:105:3737:78:2794:-196.602,0,-281.442 0/1:76:57,19:57:2025:19:669:-37.6557,0,-159.643 0/1:65:17,48:17:612:48:1717:-135.2,0,-35.8465 0/1:98:41,57:41:1468:57:2040:-154.359,0,-102.915 0/1:75:30,45:30:1076:45:1616:-123.148,0,-74.5756 1/1:58:1,57:1:36:57:2021:-178.563,-13.8615,0 1/1:44:0,44:0:0:44:1580:-142.478,-13.2453,0 chr09 19852323 . GGT GTTAGT 3839.52 PASS AB=0.33832;ABP=200.319;AC=14;AF=0.333333;AN=42;AO=299;CIGAR=1M3I2M;DP=1496;DPB=1797;DPRA=0.838978;EPP=601.211;EPPR=2505.28;GTI=1;LEN=3;MEANALT=1.25;MQM=58.8027;MQMR=59.6737;NS=21;NUMALT=1;ODDS=3.9353;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10466;QR=41222;RO=1192;RPL=6;RPP=601.211;RPPR=2505.28;RPR=293;RUN=1;SAF=0;SAP=652.281;SAR=299;SRF=0;SRP=2591.41;SRR=1192;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:58,20:58:2008:20:692:-38.9603,0,-155.667 0/1:36:18,17:18:630:17:600:-43.4179,0,-45.6699 0/1:92:49,42:49:1702:42:1477:-105.442,0,-125.742 0/1:32:17,15:17:594:15:528:-38.2184,0,-43.6605 0/1:133:98,35:98:3385:35:1214:-69.316,0,-264.344 0/1:46:33,13:33:1162:13:452:-27.1427,0,-91.0394 0/0:122:121,0:121:4169:0:0:0,-36.4246,-375.041 0/1:51:32,19:32:1120:19:665:-44.8203,0,-85.7541 0/0:161:159,2:159:5479:2:63:0,-42.4827,-487.214 0/0:19:19,0:19:648:0:0:0,-5.71957,-58.638 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:25:11,13:11:394:13:453:-33.4934,0,-28.2171 0/0:81:81,0:81:2795:0:0:0,-24.3834,-251.746 0/0:73:73,0:73:2519:0:0:0,-21.9752,-226.955 0/1:113:77,36:77:2659:36:1279:-81.0267,0,-205.539 0/1:39:30,9:30:1065:9:312:-16.6752,0,-83.9308 0/1:42:28,14:28:965:14:500:-32.5648,0,-73.9674 0/1:120:74,46:74:2509:46:1606:-108.7,0,-189.936 0/1:58:44,14:44:1495:14:485:-26.5166,0,-117.377 0/0:111:111,0:111:3855:0:0:0,-33.4143,-347.148 0/0:60:56,3:56:1961:3:104:0,-8.43251,-167.075 chr09 19854179 . G A 14290.6 PASS AB=0.670611;ABP=131.196;AC=29;AF=0.690476;AN=42;AO=695;CIGAR=1X;DP=864;DPB=864;DPRA=0;EPP=1460.52;EPPR=361.355;GTI=3;LEN=1;MEANALT=1;MQM=59.764;MQMR=60;NS=21;NUMALT=1;ODDS=0.645098;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24543;QR=5804;RO=169;RPL=6;RPP=1460.52;RPPR=361.355;RPR=689;RUN=1;SAF=0;SAP=1512.18;SAR=695;SRF=0;SRP=369.989;SRR=169;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:6,24:6:208:24:847:-67.5178,0,-10.0282 0/1:44:7,37:7:239:37:1292:-103.143,0,-8.5974 0/1:48:21,27:21:735:27:968:-72.9879,0,-52.022 0/1:45:16,29:16:556:29:1029:-79.3764,0,-36.8208 0/1:55:20,35:20:691:35:1244:-95.708,0,-45.9537 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:62:1,61:1:36:61:2126:-187.116,-15.0656,0 0/1:59:27,32:27:930:32:1128:-84.0662,0,-66.2499 1/1:104:0,104:0:0:104:3693:-332.574,-31.3071,0 1/1:12:0,12:0:0:12:416:-37.7703,-3.61236,0 0/1:7:2,5:2:72:5:171:-13.6182,0,-4.72951 0/1:31:13,18:13:437:18:635:-48.145,0,-30.3192 1/1:62:0,62:0:0:62:2171:-195.654,-18.6639,0 1/1:40:0,40:0:0:40:1428:-128.815,-12.0412,0 0/1:79:23,56:23:792:56:1988:-155.413,0,-47.8128 0/1:28:6,22:6:216:22:779:-61.8232,0,-11.3617 0/1:20:4,16:4:140:16:576:-46.1544,0,-6.92398 0/1:38:18,20:18:591:20:703:-52.1544,0,-42.0584 0/1:23:4,19:4:125:19:672:-53.8827,0,-4.63493 1/1:52:0,52:0:0:52:1838:-165.698,-15.6536,0 1/1:17:1,16:1:36:16:551:-46.3148,-1.51924,0 chr09 19871223 . C G 14129 PASS AB=0.470166;ABP=17.0037;AC=14;AF=0.333333;AN=42;AO=857;CIGAR=1X;DP=2926;DPB=2926;DPRA=1.19141;EPP=1838;EPPR=4439.4;GTI=0;LEN=1;MEANALT=1.25;MQM=59.9767;MQMR=60;NS=21;NUMALT=1;ODDS=5.21624;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30586;QR=73492;RO=2059;RPL=854;RPP=1838;RPPR=4439.4;RPR=3;RUN=1;SAF=0;SAP=1863.96;SAR=857;SRF=0;SRP=4474.07;SRR=2059;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:69,59:69:2454:59:2116:-152.177,0,-182.582 0/1:85:38,47:38:1349:47:1675:-125.449,0,-96.1207 0/1:81:38,43:38:1349:43:1537:-114.239,0,-97.3248 0/1:299:170,128:170:6081:128:4565:-320.903,0,-457.324 0/1:427:224,200:224:7981:200:7084:-509.631,0,-590.319 0/1:78:39,39:39:1400:39:1400:-102.819,0,-102.819 0/0:252:249,0:249:8910:0:0:0,-74.9565,-801.52 0/1:92:38,53:38:1352:53:1896:-143.165,0,-94.2269 0/0:158:158,0:158:5653:0:0:0,-47.5627,-508.888 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:20:7,13:7:243:13:468:-36.439,0,-16.1869 0/0:245:244,1:244:8672:1:36:0,-70.1541,-776.874 0/0:107:107,0:107:3810:0:0:0,-32.2102,-343.096 0/1:137:80,57:80:2853:57:2035:-142.18,0,-215.765 0/1:76:30,46:30:1080:46:1635:-124.56,0,-74.635 0/1:77:38,39:38:1355:39:1400:-103.12,0,-99.0704 0/1:122:62,60:62:2228:60:2151:-157.131,0,-164.058 0/1:180:117,63:117:4170:63:2264:-149.837,0,-321.295 0/0:263:256,5:256:9144:5:180:0,-62.3766,-806.382 0/0:75:75,0:75:2688:0:0:0,-22.5772,-242.165 chr09 19878457 . T C 32369.9 PASS AB=0.506128;ABP=3.46276;AC=28;AF=0.666667;AN=42;AO=1292;CIGAR=1X;DP=1982;DPB=1982;DPRA=0;EPP=138.569;EPPR=29.7245;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9954;MQMR=59.9985;NS=21;NUMALT=1;ODDS=5.70314;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45486;QR=24487;RO=688;RPL=1287;RPP=2765.29;RPPR=1479.66;RPR=5;RUN=1;SAF=499;SAP=148.284;SAR=793;SRF=296;SRP=32.0979;SRR=392;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:62,53:62:2207:53:1849:-132.067,0,-164.276 0/1:60:31,29:31:1108:29:1025:-74.4989,0,-81.9692 0/1:50:28,22:28:1000:22:760:-53.6648,0,-75.2639 0/1:97:57,40:57:1999:40:1402:-97.2757,0,-150.981 0/1:241:128,112:128:4570:112:3940:-282.187,0,-338.859 0/1:45:26,19:26:932:19:684:-48.344,0,-70.6525 1/1:72:4,68:4:144:68:2414:-204.2,-8.36054,0 0/1:65:37,28:37:1308:28:980:-68.946,0,-98.4546 1/1:142:0,142:0:0:142:5036:-453.389,-42.7463,0 1/1:25:0,25:0:0:25:881:-79.6059,-7.52575,0 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:36:17,18:17:604:18:636:-46.6725,0,-43.795 1/1:134:0,134:0:0:134:4708:-423.882,-40.338,0 1/1:68:0,68:0:0:68:2394:-215.716,-20.47,0 0/1:167:83,84:83:2980:84:2987:-218.791,0,-218.16 0/1:81:41,40:41:1472:40:1414:-103.172,0,-108.392 0/1:81:43,38:43:1513:38:1320:-94.7133,0,-112.077 0/1:192:91,101:91:3233:101:3554:-262.272,0,-233.394 0/1:151:38,113:38:1345:113:3917:-307.273,0,-75.8926 1/1:103:1,102:1:36:102:3620:-322.41,-27.4078,0 1/1:51:0,51:0:0:51:1785:-160.928,-15.3525,0 chr09 19878679 . ACCAACGTTT CCCAATGTTT,CCCAGTGTTC 27926.4 PASS AB=0.531453,0.45987;ABP=10.9331,15.9072;AC=28,14;AF=0.666667,0.333333;AN=42;AO=920,425;CIGAR=1X4M1X4M,1X3M2X3M1X;DP=1358;DPB=1358;DPRA=0,1.22635;EPP=1992.09,908.596;EPPR=0;GTI=1;LEN=10,10;MEANALT=2.33333,2.66667;MQM=59.9891,59.4988;MQMR=0;NS=21;NUMALT=2;ODDS=1.47463;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32832,14822;QR=0;RO=0;RPL=1,2;RPP=1992.09,908.596;RPPR=0;RPR=919,423;RUN=1,1;SAF=0,0;SAP=2000.76,925.886;SAR=920,425;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:79:0,49,29:0:0:49,29:1752,1004:-224.517,-81.651,-66.9005,-142.972,0,-134.242 1/2:51:0,23,28:0:0:23,28:824,988:-148.006,-80.8018,-73.8781,-67.5596,0,-59.1308 1/2:46:0,27,17:0:0:27,17:960,591:-126.298,-48.0595,-39.9317,-78.2537,0,-73.1362 1/2:114:0,62,52:0:0:62,52:2208,1820:-328.395,-148.426,-129.762,-180.321,0,-164.668 1/2:137:0,86,50:0:0:86,50:3057,1741:-390.522,-141.403,-115.514,-249.11,0,-234.058 1/2:51:0,17,33:0:0:17,33:612,1126:-141.353,-91.4101,-86.2926,-50.0117,0,-40.0777 1/1:102:0,99,1:0:0:99,1:3540,33:-318.467,-29.802,0,-315.799,-27.1371,-315.498 1/2:77:0,46,30:0:0:46,30:1625,1065:-218.909,-86.5727,-72.7253,-132.359,0,-123.328 1/1:112:0,111,0:0:0:111,0:3972,0:-357.42,-33.4143,0,-357.42,-33.4143,-357.42 1/1:10:0,10,0:0:0:10,0:356,0:-32.3812,-3.0103,0,-32.3812,-3.0103,-32.3812 1/2:6:0,5,1:0:0:5,1:180,36:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459 1/2:6:0,3,3:0:0:3,3:108,105:-17.7101,-8.89288,-7.98979,-9.17208,0,-8.26899 1/1:36:0,36,0:0:0:36,0:1277,0:-115.231,-10.8371,0,-115.231,-10.8371,-115.231 1/1:87:0,86,0:0:0:86,0:3063,0:-275.668,-25.8886,0,-275.668,-25.8886,-275.668 1/2:86:0,47,38:0:0:47,38:1671,1328:-244.182,-108.007,-93.8581,-136.168,0,-124.729 1/2:56:0,26,29:0:0:26,29:936,1017:-159.101,-82.7235,-74.8967,-76.3729,0,-67.643 1/2:77:0,33,44:0:0:33,44:1180,1546:-222.403,-126.184,-116.25,-96.5741,0,-83.3287 1/2:90:0,40,50:0:0:40,50:1427,1725:-256.798,-140.464,-128.422,-116.686,0,-101.634 1/2:46:0,26,20:0:0:26,20:932,697:-133.051,-57.0317,-49.2049,-76.3721,0,-70.3515 1/1:57:0,56,0:0:0:56,0:2008,0:-180.712,-16.8577,0,-180.712,-16.8577,-180.712 1/1:32:0,32,0:0:0:32,0:1144,0:-103.27,-9.63296,0,-103.27,-9.63296,-103.27 chr09 20034979 . TAAATAAG TAAAATAAG 10028.6 PASS AB=0.467244;ABP=20.2234;AC=14;AF=0.333333;AN=42;AO=873;CIGAR=1M1I7M;DP=3037;DPB=3147.12;DPRA=1.00747;EPP=1898.71;EPPR=4667.33;GTI=1;LEN=1;MEANALT=1.88235;MQM=33.9588;MQMR=55.2467;NS=21;NUMALT=1;ODDS=6.5384;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28861;QR=75540;RO=2148;RPL=873;RPP=1898.71;RPPR=4667.33;RPR=0;RUN=1;SAF=873;SAP=1898.71;SAR=0;SRF=2148;SRP=4667.33;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:188:89,98:89:3133:98:3209:-208.308,0,-224.932 0/1:90:47,43:47:1640:43:1438:-92.6723,0,-120.417 0/1:136:77,57:77:2683:57:1857:-112.935,0,-200.897 0/1:92:32,60:32:1132:60:1975:-135.715,0,-74.3356 0/1:321:180,139:180:6354:139:4566:-281.26,0,-474.951 0/1:109:58,49:58:2046:49:1677:-106.573,0,-151.585 0/0:224:222,1:222:7782:1:35:0,-64.2646,-696.093 0/1:122:55,67:55:1949:67:2258:-150.863,0,-138.606 0/0:338:338,0:338:11870:0:0:0,-101.748,-1066.14 0/0:26:26,0:26:930:0:0:0,-7.82678,-83.9058 0/1:20:8,12:8:282:12:388:-26.8092,0,-19.6778 0/1:48:24,24:24:840:24:802:-52.6922,0,-61.3782 0/0:240:239,1:239:8391:1:34:0,-69.1481,-750.883 0/0:162:161,0:161:5608:0:0:0,-48.4658,-503.777 0/1:343:168,172:168:5926:172:5615:-361.503,0,-429.995 0/1:120:76,44:76:2678:44:1431:-82.5938,0,-204.823 0/1:87:47,40:47:1661:40:1334:-84.2196,0,-123.514 0/1:89:43,43:43:1521:43:1467:-95.8405,0,-110.382 0/1:82:66,15:66:2340:15:495:-16.2787,0,-185.506 0/0:151:143,8:143:5030:8:280:0,-22.1025,-428.18 0/0:49:49,0:49:1744:0:0:0,-14.7505,-157.014 chr09 20035055 . GACT TACT,TACG 62335.9 PASS AB=0.452762,0.545689;ABP=40.5531,38.1317;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1915,1061;CIGAR=1X3M,1X2M1X;DP=2982;DPB=2982;DPRA=0,0.879828;EPP=4161.38,2306.94;EPPR=0;GTI=0;LEN=1,4;MEANALT=2,2.2;MQM=59.9347,53.7399;MQMR=0;NS=21;NUMALT=2;ODDS=7.07941;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68462,37629;QR=0;RO=0;RPL=1915,1061;RPP=4161.38,2306.94;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4161.38,2306.94;SAR=1915,1061;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:213:0,100,113:0:0:100,113:3547,3995:-614.227,-325.248,-295.145,-289.332,0,-255.316 1/2:170:0,73,97:0:0:73,97:2624,3438:-487.206,-273.132,-251.157,-214.427,0,-185.227 1/2:168:0,73,95:0:0:73,95:2594,3332:-482.488,-271.115,-249.139,-211.726,0,-183.128 1/2:178:0,75,103:0:0:75,103:2673,3649:-515.046,-297.174,-274.597,-218.228,0,-187.222 1/2:340:0,153,187:0:0:153,187:5417,6633:-981.189,-539.948,-493.89,-441.595,0,-385.303 1/2:117:0,52,65:0:0:52,65:1864,2323:-341.504,-189.476,-173.822,-152.386,0,-132.819 1/1:261:0,260,0:0:0:260,0:9321,0:-838.463,-78.2678,0,-838.463,-78.2678,-838.463 1/2:134:0,52,82:0:0:52,82:1864,2891:-385.898,-233.867,-218.214,-152.386,0,-127.701 1/1:239:0,239,0:0:0:239,0:8543,0:-768.86,-71.9462,0,-768.86,-71.9462,-768.86 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/2:12:0,7,5:0:0:7,5:252,177:-35.317,-14.7513,-12.6441,-20.9217,0,-19.4166 1/2:33:0,17,16:0:0:17,16:612,573:-96.953,-47.0157,-41.8982,-50.2959,0,-45.4794 1/1:230:0,229,0:0:0:229,0:8215,0:-738.997,-68.9359,0,-738.997,-68.9359,-738.997 1/1:122:0,121,0:0:0:121,0:4332,0:-389.842,-36.4246,0,-389.842,-36.4246,-389.842 1/2:250:0,126,123:0:0:126,123:4509,4402:-726.247,-358.568,-320.639,-367.824,0,-330.797 1/2:128:0,53,75:0:0:53,75:1866,2672:-368.83,-216.922,-200.968,-152.261,0,-129.684 1/2:76:0,27,48:0:0:27,48:968,1712:-218.377,-139.424,-131.297,-79.0269,0,-64.5774 1/2:51:0,19,31:0:0:19,31:680,1106:-145.475,-90.0225,-84.3029,-55.4504,0,-46.1184 1/2:67:0,50,17:0:0:50,17:1796,596:-195.298,-48.7792,-33.7277,-146.871,0,-141.753 1/1:113:0,109,4:0:0:109,4:3909,130:-351.67,-32.8123,0,-341.19,-22.0066,-339.986 1/1:69:0,69,0:0:0:69,0:2480,0:-223.448,-20.7711,0,-223.448,-20.7711,-223.448 chr09 20078463 . ATC ATT,GTT 62392.2 PASS AB=0.531998,0.465559;ABP=21.2148,24.1002;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2124,956;CIGAR=2M1X,1X1M1X;DP=3088;DPB=3088;DPRA=0,3.05244;EPP=4615.22,2078.94;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.19048,2.35294;MQM=58.0009,41.1904;MQMR=0;NS=21;NUMALT=2;ODDS=17.6841;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=75537,33029;QR=0;RO=0;RPL=2124,956;RPP=4615.22,2078.94;RPPR=0;RPR=0,0;RUN=1,1;SAF=2124,956;SAP=4615.22,2078.94;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:71:0,41,30:0:0:41,30:1464,1036:-202.336,-82.97,-70.6278,-119.713,0,-110.682 1/2:31:0,20,11:0:0:20,11:712,378:-87.6517,-29.6662,-23.6456,-58.3244,0,-55.0131 1/2:56:0,35,21:0:0:35,21:1252,726:-159.57,-57.6064,-47.0704,-102.308,0,-95.9866 1/2:35:0,22,13:0:0:22,13:773,435:-96.9588,-34.5213,-27.8986,-62.7717,0,-58.8583 1/2:70:0,38,32:0:0:38,32:1360,1134:-200.006,-90.1246,-78.6854,-110.231,0,-100.598 1/2:30:0,20,10:0:0:20,10:716,327:-83.9348,-25.5686,-19.548,-58.6947,0,-55.6844 1/1:64:0,63,0:0:0:63,0:2244,0:-201.832,-18.9649,0,-201.832,-18.9649,-201.832 1/2:131:0,67,63:0:0:67,63:2400,2148:-364.465,-168.852,-148.683,-195.706,0,-176.741 1/1:64:0,63,0:0:0:63,0:2255,0:-202.831,-18.9649,0,-202.831,-18.9649,-202.831 1/1:693:0,692,1:0:0:692,1:24566,36:-2206.4,-208.313,0,-2203.55,-205.111,-2203.24 1/2:482:0,228,253:0:0:228,253:8109,8662:-1327.21,-668.29,-599.655,-658.993,0,-582.833 1/2:471:0,247,222:0:0:247,222:8794,7830:-1333.29,-617.67,-543.315,-715.722,0,-648.893 1/1:58:0,58,0:0:0:58,0:2060,0:-185.421,-17.4597,0,-185.421,-17.4597,-185.421 1/1:92:0,90,1:0:0:90,1:3210,36:-288.678,-27.0927,0,-285.744,-24.1549,-285.443 1/2:67:0,33,34:0:0:33,34:1180,1191:-191.767,-95.5436,-85.6096,-96.5741,0,-86.339 1/2:34:0,16,18:0:0:16,18:567,631:-96.6123,-50.4168,-45.6003,-46.5442,0,-41.1257 1/2:22:0,12,10:0:0:12,10:428,358:-64.0419,-29.1911,-25.5788,-35.2057,0,-32.1954 1/2:503:0,286,216:0:0:286,216:10191,7359:-1407.31,-578.006,-491.912,-829.44,0,-764.417 1/2:44:0,24,20:0:0:24,20:832,706:-124.41,-56.8437,-49.619,-67.9131,0,-61.8925 1/1:35:0,35,0:0:0:35,0:1217,0:-108.866,-10.5361,0,-108.866,-10.5361,-108.866 1/1:35:0,34,1:0:0:34,1:1207,36:-108.438,-10.235,0,-105.69,-7.14845,-105.389 chr09 20083562 . CTGAT CC,CA 29548 PASS AB=0.492701,0.507299;ABP=3.64431,3.64431;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1458,698;CIGAR=1M3D1X,1M3D1X;DP=2156;DPB=862.4;DPRA=0,1.7479;EPP=3169.02,1518.7;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.7619,2;MQM=28.2263,28.3983;MQMR=0;NS=21;NUMALT=2;ODDS=5.77366;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52273,25024;QR=0;RO=0;RPL=1458,698;RPP=3169.02,1518.7;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3169.02,1518.7;SAR=1458,698;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:180:0,79,101:0:0:79,101:2815,3632:-401.07,-225.01,-201.229,-176.341,0,-145.937 1/2:90:0,44,46:0:0:44,46:1584,1652:-172.932,-88.488,-75.2427,-84.6908,0,-70.8434 1/2:131:0,65,66:0:0:65,66:2320,2353:-291.227,-146.793,-127.226,-144.714,0,-124.846 1/2:98:0,44,54:0:0:44,54:1584,1936:-218.959,-120.644,-107.399,-98.596,0,-82.3404 1/2:292:0,134,158:0:0:134,158:4801,5660:-651.181,-352.203,-311.865,-299.259,0,-251.696 1/2:112:0,54,58:0:0:54,58:1936,2084:-215.072,-111.518,-95.2626,-103.8,0,-86.3405 1/1:172:0,172,0:0:0:172,0:6155,0:-381.675,-51.7772,0,-381.675,-51.7772,-381.675 1/2:55:0,29,26:0:0:29,26:1044,928:-113.789,-53.5527,-44.8228,-60.4993,0,-52.6725 1/1:220:0,219,1:0:0:219,1:7841,36:-579.742,-65.9256,0,-577.36,-63.2458,-577.059 1/1:7:0,7,0:0:0:7,0:244,0:-16.8272,-2.10721,0,-16.8272,-2.10721,-16.8272 1/1:5:0,5,0:0:0:5,0:180,0:-11.3478,-1.50515,0,-11.3478,-1.50515,-11.3478 1/2:17:0,7,10:0:0:7,10:252,360:-35.5063,-20.9266,-18.8194,-14.8438,0,-11.8335 1/1:106:0,106,0:0:0:106,0:3808,0:-267.292,-31.9092,0,-267.292,-31.9092,-267.292 1/1:127:0,126,1:0:0:126,1:4528,36:-318.018,-37.9298,0,-315.78,-35.4097,-315.479 1/2:169:0,97,72:0:0:97,72:3488,2592:-377.156,-160.784,-131.584,-216.653,0,-194.979 1/2:73:0,33,40:0:0:33,40:1184,1432:-172.469,-94.2823,-84.3483,-78.4826,0,-66.4414 1/2:89:0,46,43:0:0:46,43:1641,1540:-210.736,-102.466,-88.6188,-108.566,0,-95.6216 1/2:33:0,20,13:0:0:20,13:720,459:-68.7693,-27.1139,-21.0933,-41.9191,0,-38.0057 1/2:31:0,23,8:0:0:23,8:828,288:-69.5026,-18.0283,-11.1046,-51.7548,0,-49.3466 1/1:112:0,111,1:0:0:111,1:3988,36:-263.982,-33.4143,0,-261.899,-31.0668,-261.598 1/1:37:0,37,0:0:0:37,0:1332,0:-83.3598,-11.1381,0,-83.3598,-11.1381,-83.3598 chr09 20094295 . G A 2064.93 PASS AB=0.388889;ABP=47.4048;AC=14;AF=0.333333;AN=42;AO=162;CIGAR=1X;DP=749;DPB=749;DPRA=0.89697;EPP=354.789;EPPR=1277.66;GTI=2;LEN=1;MEANALT=1;MQM=59.6852;MQMR=59.8501;NS=21;NUMALT=1;ODDS=1.06201;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5611;QR=20606;RO=587;RPL=0;RPP=354.789;RPPR=1277.66;RPR=162;RUN=1;SAF=0;SAP=354.789;SAR=162;SRF=0;SRP=1277.66;SRR=587;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:35:24,11:24:830:11:371:-23.1778,0,-64.4788 0/1:7:4,3:4:140:3:104:-7.5956,0,-10.8374 0/1:42:22,20:22:788:20:691:-49.8671,0,-58.6015 0/1:36:22,14:22:758:14:479:-32.5983,0,-57.6914 0/1:51:32,19:32:1131:19:645:-43.0107,0,-86.7442 0/1:13:7,6:7:244:6:204:-14.78,0,-18.386 0/0:39:39,0:39:1388:0:0:0,-11.7402,-125.219 0/1:69:43,26:43:1517:26:923:-62.6157,0,-116.022 0/0:68:68,0:68:2391:0:0:0,-20.47,-215.44 0/0:8:8,0:8:264:0:0:0,-2.40824,-24.0625 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:15:7,8:7:248:8:284:-21.3174,0,-18.1487 0/0:43:43,0:43:1521:0:0:0,-12.9443,-137.181 0/0:49:49,0:49:1705:0:0:0,-14.7505,-153.733 0/1:33:20,13:20:701:13:451:-30.9849,0,-53.4777 0/1:10:8,2:8:284:2:72:-3.82642,0,-22.8931 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:52:30,22:30:1064:22:755:-52.5433,0,-80.4181 0/1:40:28,12:28:954:12:416:-25.7295,0,-74.1243 0/0:104:103,1:103:3618:1:36:0,-27.7088,-322.2 0/0:24:24,0:24:844:0:0:0,-7.22472,-76.2734 chr09 20109627 . T C 47301.8 PASS AB=0.523591;ABP=14.5876;AC=28;AF=0.666667;AN=42;AO=2424;CIGAR=1X;DP=3572;DPB=3572;DPRA=0;EPP=5266.66;EPPR=2491.52;GTI=0;LEN=1;MEANALT=1.09524;MQM=58.8899;MQMR=59.8264;NS=21;NUMALT=1;ODDS=12.2772;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85325;QR=40865;RO=1146;RPL=2424;RPP=5266.66;RPPR=2491.52;RPR=0;RUN=1;SAF=2424;SAP=5266.66;SAR=0;SRF=1146;SRP=2491.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:43,34:43:1540:34:1196:-84.696,0,-115.691 0/1:68:18,50:18:648:50:1756:-137.533,0,-38.1818 0/1:53:20,33:20:720:33:1156:-88.3799,0,-49.1742 0/1:104:38,66:38:1351:66:2346:-179.975,0,-90.5743 0/1:175:82,93:82:2916:93:3287:-243.233,0,-209.994 0/1:101:55,46:55:1963:46:1600:-113.711,0,-146.536 1/1:142:2,140:2:72:140:4962:-439.62,-35.9095,0 0/1:66:34,32:34:1224:32:1119:-81.1299,0,-90.5991 1/1:145:3,142:3:108:142:4965:-436.693,-33.5742,0 1/1:631:0,631:0:0:631:22228:-1999.27,-189.95,0 0/1:410:157,253:157:5623:253:8902:-676.798,0,-382.212 0/1:601:306,294:306:10904:294:10405:-755.177,0,-800.253 1/1:90:0,90:0:0:90:3126:-281.464,-27.0927,0 1/1:90:2,88:2:57:88:3079:-271.854,-21.6794,0 0/1:87:44,42:44:1576:42:1492:-108.324,0,-115.883 0/1:44:25,19:25:896:19:665:-46.8723,0,-67.715 0/1:72:31,41:31:1103:41:1458:-109.824,0,-76.9659 0/1:512:280,232:280:9948:232:8141:-578.415,0,-741.098 0/1:25:6,19:6:216:19:644:-50.7473,0,-12.2648 1/1:52:0,52:0:0:52:1849:-166.529,-15.6536,0 1/1:27:0,27:0:0:27:949:-85.6998,-8.12781,0 chr09 20130512 . TTCA TTCG,CTCG 117114 PASS AB=0.472784,0.523726;ABP=21.4489,17.0241;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2890,1518;CIGAR=3M1X,1X2M1X;DP=4423;DPB=4423.5;DPRA=0,1.72772;EPP=6278.57,3299.31;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.52381,2.63158;MQM=59.9907,59.9677;MQMR=0;NS=21;NUMALT=2;ODDS=33.7324;PAIRED=0,0;PAIREDR=0;PAO=0.5,1;PQA=0,32;PQR=0;PRO=0.5;QA=102618,53110;QR=0;RO=0;RPL=1662,841;RPP=144.536,41.4846;RPPR=0;RPR=1228,677;RUN=1,1;SAF=1662,841;SAP=144.536,41.4846;SAR=1228,677;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:272:0,126,145:0:0:126,145:4471,5049:-774.944,-410.664,-372.735,-364.381,0,-320.732 1/2:136:0,68,67:0:0:68,67:2396,2359:-387.109,-192.037,-171.567,-195.064,0,-174.895 1/2:182:0,85,96:0:0:85,96:3023,3368:-520.459,-274.098,-248.511,-246.374,0,-217.475 1/2:243:0,118,124:0:0:118,124:4212,4326:-695.218,-351.833,-316.311,-343.378,0,-306.051 1/2:342:0,129,211:0:0:129,211:4574,7383:-973.333,-600.692,-561.859,-372.668,0,-309.151 1/2:221:0,107,114:0:0:107,114:3792,3997:-634.522,-325.608,-293.397,-309.266,0,-274.949 1/1:320:0,318,1:0:0:318,1:11334,30:-1019.68,-95.7275,0,-1017.29,-93.2817,-1016.98 1/2:252:0,112,139:0:0:112,139:3949,4844:-715.515,-393.977,-360.262,-321.587,0,-279.744 1/1:388:0,385,2:0:0:385,2:13678,72:-1230.5,-115.897,0,-1224.63,-109.915,-1224.03 1/1:57:0,57,0:0:0:57,0:2019,0:-181.981,-17.1587,0,-181.981,-17.1587,-181.981 1/2:16:0,5,11:0:0:5,11:180,376:-45.548,-30.8553,-29.3501,-15.0469,0,-11.7356 1/2:74:0,38,35:0:0:38,35:1368,1234:-212.094,-100.469,-89.0296,-111.622,0,-101.086 1/1:231:0,227,2:0:0:227,2:8058,72:-724.941,-68.3338,0,-719.067,-62.4016,-718.465 1/1:197:0,196,0:0:0:196,0:6989,0:-628.825,-59.0019,0,-628.825,-59.0019,-628.825 1/2:399:0,191,206:0:0:191,206:6779,7188:-1136.95,-584.616,-527.12,-552.324,0,-490.311 1/2:190:0,87,103:0:0:87,103:3099,3591:-544.969,-292.373,-266.183,-252.948,0,-221.942 1/2:177:0,68,109:0:0:68,109:2410,3856:-510.758,-314.426,-293.956,-196.686,0,-163.874 1/2:179:0,86,93:0:0:86,93:3034,3264:-513.038,-265.989,-240.101,-247.401,0,-219.405 1/2:183:0,135,48:0:0:135,48:4775,1684:-526.314,-137.395,-96.7564,-389.27,0,-374.82 1/1:205:0,194,11:0:0:194,11:6891,387:-619.908,-58.3998,0,-588.404,-26.5442,-585.093 1/1:159:0,158,1:0:0:158,1:5587,30:-502.658,-47.5627,0,-500.259,-44.8642,-499.958 chr09 20174717 . A G 13354.6 PASS AB=0.470345;ABP=8.5483;AC=29;AF=0.690476;AN=42;AO=687;CIGAR=1X;DP=1072;DPB=1072;DPRA=0;EPP=1494.81;EPPR=839.027;GTI=0;LEN=1;MEANALT=1;MQM=59.9214;MQMR=59.9792;NS=21;NUMALT=1;ODDS=1.07268;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24372;QR=13775;RO=385;RPL=687;RPP=1494.81;RPPR=839.027;RPR=0;RUN=1;SAF=0;SAP=1494.81;SAR=687;SRF=0;SRP=839.027;SRR=385;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:69,39:69:2480:39:1388:-92.7077,0,-190.942 0/1:66:30,36:30:1076:36:1278:-95.4549,0,-77.2849 0/1:32:17,15:17:608:15:527:-38.1272,0,-45.4191 0/1:88:46,42:46:1648:42:1500:-108.804,0,-122.11 0/1:91:42,49:42:1500:49:1737:-129.22,0,-107.901 0/1:36:22,14:22:776:14:500:-34.4991,0,-59.3251 1/1:77:1,76:1:32:76:2680:-238.247,-19.98,0 0/1:52:35,17:35:1248:17:612:-39.7599,0,-96.9713 1/1:52:0,52:0:0:52:1856:-167.32,-15.6536,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:13:11,2:11:396:2:72:-2.92333,0,-32.0694 1/1:38:0,38:0:0:38:1340:-120.899,-11.4391,0 1/1:67:0,67:0:0:67:2396:-215.897,-20.169,0 0/1:44:22,22:22:788:22:784:-57.6386,0,-57.9995 0/1:23:16,7:16:572:7:248:-15.7405,0,-44.8897 0/1:42:19,23:19:684:23:801:-59.7641,0,-49.2471 0/1:78:41,37:41:1467:37:1307:-94.4504,0,-108.845 0/1:52:14,38:14:500:38:1330:-104.331,0,-29.6826 1/1:54:0,54:0:0:54:1915:-172.624,-16.2556,0 1/1:47:0,47:0:0:47:1669:-150.338,-14.1484,0 chr09 20179417 . CG CA,TA 16321 PASS AB=0.699164,0.300836;ABP=126.7,126.7;AC=31,11;AF=0.738095,0.261905;AN=42;AO=662,115;CIGAR=1M1X,2X;DP=777;DPB=777;DPRA=0,1.06024;EPP=1431.85,252.73;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.66667,2;MQM=59.9215,43.6783;MQMR=0;NS=21;NUMALT=2;ODDS=0.241885;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23635,3994;QR=0;RO=0;RPL=1,0;RPP=1431.85,252.73;RPPR=0;RPR=661,115;RUN=1,1;SAF=0,0;SAP=1440.53,252.73;SAR=662,115;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:39:0,25,14:0:0:25,14:881,483:-110.792,-39.0574,-31.5316,-72.08,0,-67.8655 1/2:17:0,12,5:0:0:12,5:432,178:-48.6696,-13.3952,-9.78287,-35.6088,0,-34.1037 1/2:21:0,14,7:0:0:14,7:496,252:-61.0085,-20.6033,-16.3889,-40.7598,0,-38.6526 1/2:34:0,22,12:0:0:22,12:784,423:-98.2182,-34.3078,-27.6852,-64.2613,0,-60.6489 1/2:104:0,78,26:0:0:78,26:2757,892:-294.399,-69.8451,-46.3648,-224.89,0,-217.063 1/2:28:0,20,8:0:0:20,8:716,261:-79.3484,-20.9319,-14.9113,-58.7471,0,-56.3389 1/1:15:0,15,0:0:0:15,0:536,0:-48.5748,-4.51545,0,-48.5748,-4.51545,-48.5748 1/2:14:0,10,4:0:0:10,4:356,136:-40.1303,-11.0986,-8.08827,-29.3709,0,-28.1668 1/1:52:0,52,0:0:0:52,0:1872,0:-168.759,-15.6536,0,-168.759,-15.6536,-168.759 1/1:55:0,55,0:0:0:55,0:1965,0:-176.982,-16.5567,0,-176.982,-16.5567,-176.982 1/1:80:0,79,1:0:0:79,1:2817,36:-253.417,-23.7814,0,-250.549,-20.5614,-250.248 1/1:76:0,71,5:0:0:71,5:2552,180:-229.575,-21.3731,0,-215.112,-6.55511,-213.607 1/1:42:0,42,0:0:0:42,0:1508,0:-136.012,-12.6433,0,-136.012,-12.6433,-136.012 1/1:30:0,30,0:0:0:30,0:1068,0:-96.4321,-9.0309,0,-96.4321,-9.0309,-96.4321 1/2:35:0,25,10:0:0:25,10:896,347:-101.245,-28.1578,-20.632,-73.4346,0,-70.4243 1/2:24:0,17,7:0:0:17,7:603,252:-69.6521,-20.524,-15.4065,-49.482,0,-47.3748 1/1:13:0,12,1:0:0:12,1:432,36:-38.8671,-3.61236,0,-35.9861,-0.377267,-35.6851 1/2:31:0,19,12:0:0:19,12:672,410:-87.8478,-33.1039,-27.3843,-55.0873,0,-51.4749 1/2:12:0,9,3:0:0:9,3:320,108:-35.1109,-9.03275,-6.32348,-26.4331,0,-25.53 1/1:41:0,41,0:0:0:41,0:1468,0:-132.416,-12.3422,0,-132.416,-12.3422,-132.416 1/1:14:0,14,0:0:0:14,0:504,0:-45.6899,-4.21442,0,-45.6899,-4.21442,-45.6899 chr09 20179438 . ATG ATTG 849.241 PASS AB=0.282913;ABP=149.144;AC=11;AF=0.261905;AN=42;AO=108;CIGAR=1M1I2M;DP=786;DPB=822;DPRA=1.01154;EPP=237.529;EPPR=1473.1;GTI=2;LEN=1;MEANALT=1.07143;MQM=43.8889;MQMR=59.904;NS=21;NUMALT=1;ODDS=0.114823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3801;QR=23808;RO=677;RPL=108;RPP=237.529;RPPR=1473.1;RPR=0;RUN=1;SAF=0;SAP=237.529;SAR=108;SRF=0;SRP=1473.1;SRR=677;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:25,12:25:875:12:413:-25.8876,0,-67.927 0/1:17:12,5:12:427:5:168:-9.56698,0,-33.6509 0/1:21:14,7:14:474:7:252:-16.3889,0,-36.6591 0/1:35:23,12:23:765:12:428:-27.8069,0,-58.6201 0/1:101:78,23:78:2761:23:800:-40.2784,0,-218.328 0/1:28:21,7:21:729:7:248:-13.7818,0,-57.5001 0/0:16:16,0:16:565:0:0:0,-4.81648,-51.1801 0/1:14:10,4:10:343:4:140:-8.31438,0,-26.986 0/0:53:53,0:53:1861:0:0:0,-15.9546,-167.754 0/0:60:60,0:60:2121:0:0:0,-18.0618,-191.075 0/0:80:79,1:79:2776:1:36:0,-20.5614,-246.561 0/0:76:71,5:71:2524:5:176:0,-6.89527,-211.429 0/0:43:43,0:43:1517:0:0:0,-12.9443,-136.819 0/0:31:31,0:31:1091:0:0:0,-9.33193,-98.4994 0/1:37:27,10:27:956:10:356:-20.8169,0,-75.217 0/1:25:18,7:18:641:7:248:-14.7738,0,-50.4942 0/0:13:12,1:12:432:1:36:0,-0.377267,-35.6851 0/1:30:19,11:19:684:11:392:-26.0681,0,-52.8594 0/1:12:8,3:8:281:3:108:-6.26593,0,-21.9601 0/0:42:42,0:42:1464:0:0:0,-12.6433,-132.052 0/0:15:15,0:15:521:0:0:0,-4.51545,-47.2131 chr09 20191221 . AAGC GAGA,GAGC 34136.1 PASS AB=0.533613,0.462185;ABP=14.6888,17.7909;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1110,551;CIGAR=1X2M1X,1X3M;DP=1668;DPB=1668;DPRA=0,1.84026;EPP=2413.34,1199.49;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.90476,2.30769;MQM=52.4459,59.4174;MQMR=0;NS=21;NUMALT=2;ODDS=0.329843;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39368,19599;QR=0;RO=0;RPL=1110,551;RPP=2413.34,1199.49;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2413.34,1199.49;SAR=1110,551;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,39,19:0:0:39,19:1385,670:-165.827,-54.5282,-42.7881,-111.292,0,-105.572 1/2:124:0,78,46:0:0:78,46:2779,1648:-359.187,-134.751,-111.27,-224.793,0,-210.945 1/2:80:0,38,42:0:0:38,42:1367,1504:-234.331,-122.975,-111.536,-111.714,0,-99.0709 1/2:55:0,29,26:0:0:29,26:1034,936:-160.854,-76.7235,-67.9936,-84.4887,0,-76.6619 1/2:163:0,81,82:0:0:81,82:2867,2905:-469.171,-236.893,-212.51,-232.631,0,-207.946 1/2:60:0,30,30:0:0:30,30:1049,1060:-171.51,-86.6804,-77.6495,-85.1797,0,-76.1488 1/1:63:0,63,0:0:0:63,0:2232,0:-200.138,-18.9649,0,-200.138,-18.9649,-200.138 1/2:146:0,69,76:0:0:69,76:2442,2691:-417.278,-219.275,-198.504,-198.106,0,-175.228 1/1:90:0,90,0:0:0:90,0:3205,0:-288.381,-27.0927,0,-288.381,-27.0927,-288.381 1/1:5:0,5,0:0:0:5,0:178,0:-16.124,-1.50515,0,-16.124,-1.50515,-16.124 1/1:6:0,5,0:0:0:5,0:179,0:-15.7587,-1.50515,0,-15.7587,-1.50515,-15.7587 1/1:26:0,26,0:0:0:26,0:921,0:-82.817,-7.82678,0,-82.817,-7.82678,-82.817 1/1:79:0,79,0:0:0:79,0:2800,0:-251.701,-23.7814,0,-251.701,-23.7814,-251.701 1/1:110:0,109,0:0:0:109,0:3843,0:-345.039,-32.8123,0,-345.039,-32.8123,-345.039 1/2:164:0,78,83:0:0:78,83:2788,2959:-467.764,-241.136,-217.655,-226.66,0,-201.675 1/2:120:0,71,49:0:0:71,49:2496,1748:-345.499,-142.581,-121.208,-203.272,0,-188.521 1/2:100:0,57,43:0:0:57,43:2016,1526:-288.398,-124.681,-107.522,-164.071,0,-151.127 1/2:79:0,41,38:0:0:41,38:1461,1344:-228.258,-109.816,-97.4736,-118.796,0,-107.357 1/2:40:0,24,16:0:0:24,16:853,572:-116.278,-46.9969,-39.7722,-69.6371,0,-64.8207 1/1:60:0,59,1:0:0:59,1:2093,36:-187.807,-17.7608,0,-184.87,-14.4635,-184.569 1/1:39:0,39,0:0:0:39,0:1380,0:-123.702,-11.7402,0,-123.702,-11.7402,-123.702 chr09 20220619 . CAA AAG,AAA 27428.2 PASS AB=0.51049,0.482517;ABP=3.8303,5.28807;AC=28,14;AF=0.666667,0.333333;AN=42;AO=958,415;CIGAR=1X1M1X,1X2M;DP=1382;DPB=1382;DPRA=0,0.801739;EPP=2083.28,904.171;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.04762,2.4;MQM=43.6639,59.6627;MQMR=0;NS=21;NUMALT=2;ODDS=2.58348;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33109,14839;QR=0;RO=0;RPL=0,0;RPP=2083.28,904.171;RPPR=0;RPR=958,415;RUN=1,1;SAF=0,0;SAP=2083.28,904.171;SAR=958,415;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,80,50:0:0:80,50:2757,1773:-364.533,-144.8,-120.717,-220.082,0,-205.03 1/2:46:0,10,35:0:0:10,35:343,1256:-129.904,-102.53,-99.52,-27.4413,0,-16.9053 1/2:66:0,31,35:0:0:31,35:1084,1256:-189.486,-102.809,-93.4773,-87.0273,0,-76.4913 1/2:33:0,12,21:0:0:12,21:418,752:-95.0852,-61.6846,-58.0723,-33.7488,0,-27.4272 1/2:143:0,80,61:0:0:80,61:2815,2187:-403.242,-178.434,-154.351,-224.867,0,-206.504 1/2:43:0,25,17:0:0:25,17:874,612:-120.044,-49.9275,-42.4017,-70.2185,0,-65.101 1/1:122:0,122,0:0:0:122,0:4173,0:-370.851,-36.7257,0,-370.851,-36.7257,-370.851 1/2:63:0,31,30:0:0:31,30:1080,1076:-174.407,-87.8764,-78.5445,-86.6333,0,-77.6024 1/1:175:0,173,0:0:0:173,0:5933,0:-523.25,-52.0782,0,-523.25,-52.0782,-523.25 1/1:13:0,13,0:0:0:13,0:458,0:-41.0275,-3.91339,0,-41.0275,-3.91339,-41.0275 1/2:5:0,3,2:0:0:3,2:108,72:-14.9096,-6.23466,-5.33157,-9.03275,0,-8.43069 1/2:25:0,11,14:0:0:11,14:384,504:-72.2741,-41.4551,-38.1438,-31.1703,0,-26.9558 1/1:56:0,56,0:0:0:56,0:1941,0:-171.041,-16.8577,0,-171.041,-16.8577,-171.041 1/1:65:0,65,0:0:0:65,0:2232,0:-196.816,-19.567,0,-196.816,-19.567,-196.816 1/2:113:0,56,57:0:0:56,57:1944,2036:-320.025,-166.333,-149.475,-154.04,0,-136.882 1/2:39:0,18,21:0:0:18,21:626,743:-110.65,-60.8717,-55.4532,-50.1249,0,-43.8032 1/2:66:0,34,32:0:0:34,32:1193,1140:-187.759,-93.2739,-83.0389,-94.834,0,-85.2011 1/2:48:0,21,27:0:0:21,27:712,972:-135.715,-79.421,-73.0994,-56.6378,0,-48.51 1/2:38:0,26,12:0:0:26,12:880,424:-105.115,-34.8841,-27.0573,-70.5777,0,-66.9653 1/1:64:0,62,1:0:0:62,1:2157,36:-190.294,-18.6639,0,-187.356,-15.6776,-187.055 1/1:29:0,29,0:0:0:29,0:997,0:-88.8842,-8.72987,0,-88.8842,-8.72987,-88.8842 chr09 20351667 . AA GA,GC 25955.1 PASS AB=0.585824,0.41076;ABP=77.9289,84.0112;AC=22,20;AF=0.52381,0.47619;AN=42;AO=788,646;CIGAR=1X1M,2X;DP=1438;DPB=1438;DPRA=0,3.94444;EPP=1714.13,1405.78;EPPR=0;GTI=6;LEN=1,2;MEANALT=2.14286,2.2;MQM=31.665,27.8684;MQMR=0;NS=21;NUMALT=2;ODDS=0.229471;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24533,22632;QR=0;RO=0;RPL=420,538;RPP=10.4616,624.535;RPPR=0;RPR=368,108;RUN=1,1;SAF=420,538;SAP=10.4616,624.535;SAR=368,108;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,67,25:0:0:67,25:2296,856:-222.785,-52.2253,-32.0563,-170.521,0,-162.995 1/1:83:0,76,7:0:0:76,7:2284,237:-185.694,-22.8783,0,-171.417,-8.34013,-169.31 1/2:53:0,45,8:0:0:45,8:1366,273:-115.29,-17.4423,-3.89598,-98.12,0,-95.7117 1/2:82:0,64,17:0:0:64,17:1900,602:-171.609,-36.4833,-17.2174,-135.162,0,-130.045 1/2:167:0,111,55:0:0:111,55:3518,1940:-372.194,-117.727,-84.3125,-254.439,0,-237.883 1/2:86:0,63,23:0:0:63,23:1943,768:-186.075,-46.4309,-27.466,-139.907,0,-132.983 1/2:53:0,8,45:0:0:8,45:240,1583:-113.675,-96.4489,-94.0407,-17.4987,0,-3.95234 1/2:84:0,68,16:0:0:68,16:2106,550:-186.196,-34.0509,-13.5808,-152.416,0,-147.6 2/2:166:0,8,158:0:0:8,158:240,5572:-382.658,-365.163,-362.755,-47.5627,-29.792,0 1/2:26:0,15,11:0:0:15,11:452,390:-55.9478,-23.6165,-19.1011,-32.6022,0,-29.2908 1/1:18:0,18,0:0:0:18,0:539,0:-43.9087,-5.41854,0,-43.9087,-5.41854,-43.9087 1/2:32:0,12,20:0:0:12,20:373,712:-70.1756,-43.3838,-39.7714,-27.07,0,-21.0494 1/2:55:0,8,47:0:0:8,47:226,1671:-117.229,-101.265,-98.8569,-16.222,0,-2.07358 1/2:41:0,4,37:0:0:4,37:143,1290:-91.1182,-79.8055,-78.6013,-11.6529,0,-0.514785 1/2:95:0,72,23:0:0:72,23:2242,804:-210.275,-48.7514,-27.0772,-161.795,0,-154.871 1/2:61:0,33,27:0:0:33,27:1061,940:-132.882,-55.8981,-45.9641,-77.0033,0,-68.8755 1/2:48:0,25,23:0:0:25,23:812,806:-107.33,-47.8348,-40.3091,-59.7748,0,-52.8511 1/2:58:0,47,11:0:0:47,11:1394,394:-122.952,-24.0203,-9.87193,-99.2041,0,-95.8928 1/2:67:0,33,34:0:0:33,34:1066,1180:-150.011,-72.4528,-62.5188,-77.8402,0,-67.6051 1/2:40:0,7,33:0:0:7,33:220,1166:-86.9243,-70.9418,-68.8346,-16.2668,0,-6.33277 1/2:30:0,4,26:0:0:4,26:112,898:-63.3023,-55.5115,-54.3074,-8.04334,0,-0.216563 chr09 20351708 . A C 11524.4 PASS AB=0.51956;ABP=5.72862;AC=26;AF=0.619048;AN=42;AO=661;CIGAR=1X;DP=1066;DPB=1066;DPRA=0;EPP=1438.35;EPPR=882.457;GTI=2;LEN=1;MEANALT=1;MQM=54.6732;MQMR=29.3778;NS=21;NUMALT=1;ODDS=6.14879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23519;QR=14512;RO=405;RPL=661;RPP=1438.35;RPPR=882.457;RPR=0;RUN=1;SAF=0;SAP=1438.35;SAR=661;SRF=0;SRP=882.457;SRR=405;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:34:3,31:3:108:31:1097:-91.3766,-2.57365,0 0/1:94:48,46:48:1720:46:1648:-120.312,0,-93.1076 0/1:41:22,19:22:788:19:676:-48.3961,0,-41.3727 0/1:77:51,26:51:1828:26:932:-61.0196,0,-101.866 0/1:102:51,51:51:1832:51:1813:-132.254,0,-91.1041 0/1:52:33,19:33:1184:19:661:-44.1581,0,-68.3454 0/1:56:11,45:11:396:45:1608:-128.152,0,-6.33483 0/1:60:33,27:33:1176:27:968:-69.3756,0,-66.4625 1/1:83:3,80:3:108:80:2876:-185.173,-16.6874,0 0/1:14:9,5:9:324:5:180:-12.3376,0,-19.7092 0/1:8:5,3:5:180:3:93:-6.26849,0,-10.4126 0/1:26:13,13:13:468:13:468:-34.6329,0,-30.6032 0/1:80:11,69:11:396:69:2438:-195.59,0,-7.85576 1/1:47:0,47:0:0:47:1673:-150.855,-14.1484,0 0/1:70:39,31:39:1396:31:1089:-77.2452,0,-73.6224 0/1:31:15,16:15:536:16:561:-28.4941,0,-27.6438 0/1:22:8,14:8:284:14:504:-27.8761,0,-12.3268 0/1:54:32,22:32:1148:22:788:-54.9892,0,-64.7412 0/1:31:12,19:12:424:19:676:-51.8361,0,-20.1776 1/1:45:3,42:3:108:42:1493:-127.552,-6.43575,0 1/1:39:3,36:3:108:36:1277:-107.737,-4.2463,0 chr09 20367938 . G C 18986.3 PASS AB=0.504726;ABP=3.21554;AC=30;AF=0.714286;AN=42;AO=968;CIGAR=1X;DP=1496;DPB=1496;DPRA=0;EPP=2105;EPPR=1143.03;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9628;MQMR=60;NS=21;NUMALT=1;ODDS=1.33626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34680;QR=18752;RO=525;RPL=0;RPP=2105;RPPR=1143.03;RPR=968;RUN=1;SAF=968;SAP=2105;SAR=0;SRF=525;SRP=1143.03;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:96:48,48:48:1728:48:1716:-125.827,0,-126.906 0/1:119:71,46:71:2552:46:1640:-112.328,0,-194.369 0/1:38:21,17:21:748:17:612:-43.9743,0,-56.2062 0/1:34:8,26:8:288:26:928:-73.5325,0,-16.0324 0/1:156:76,80:76:2701:80:2880:-212.475,0,-196.373 0/1:70:34,36:34:1197:36:1292:-95.5117,0,-86.9613 1/1:88:2,86:2:72:86:3096:-272.03,-19.6539,0 0/1:89:43,46:43:1548:46:1648:-121.817,0,-112.821 1/1:93:0,93:0:0:93:3328:-299.738,-27.9958,0 1/1:12:0,12:0:0:12:424:-38.4964,-3.61236,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 1/1:65:2,63:2:72:63:2260:-196.82,-12.7302,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 0/1:116:60,56:60:2133:56:2003:-145.624,0,-157.317 0/1:73:44,29:44:1564:29:1032:-71.2183,0,-119.076 0/1:62:23,38:23:828:38:1360:-103.978,0,-56.1215 0/1:147:74,73:74:2641:73:2611:-190.986,0,-193.684 0/1:58:19,39:19:680:39:1392:-108.119,0,-44.0694 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 1/1:81:0,81:0:0:81:2898:-261.052,-24.3834,0 chr09 20367990 . T C 17986.5 PASS AB=0.507843;ABP=3.5553;AC=30;AF=0.714286;AN=42;AO=940;CIGAR=1X;DP=1447;DPB=1447;DPRA=0;EPP=2044.19;EPPR=1103.95;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.90783;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33179;QR=17947;RO=507;RPL=940;RPP=2044.19;RPPR=1103.95;RPR=0;RUN=1;SAF=940;SAP=2044.19;SAR=0;SRF=507;SRP=1103.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:45,43:45:1608:43:1527:-111.232,0,-118.519 0/1:110:64,46:64:2235:46:1633:-114.143,0,-168.299 0/1:38:19,19:19:661:19:680:-50.09,0,-48.3725 0/1:32:8,24:8:288:24:841:-66.374,0,-16.6344 0/1:151:71,80:71:2510:80:2823:-208.853,0,-180.697 0/1:69:33,36:33:1160:36:1278:-94.5506,0,-83.9328 1/1:88:3,85:3:104:85:2974:-258.188,-16.7878,0 0/1:85:43,42:43:1532:42:1489:-108.716,0,-112.586 1/1:88:0,88:0:0:88:3093:-278.597,-26.4906,0 1/1:12:0,12:0:0:12:414:-37.5889,-3.61236,0 1/1:11:0,11:0:0:11:377:-34.2579,-3.31133,0 1/1:27:0,27:0:0:27:940:-84.9108,-8.12781,0 1/1:63:2,61:2:72:61:2176:-189.27,-12.1282,0 1/1:29:0,29:0:0:29:1022:-92.2909,-8.72987,0 0/1:112:58,54:58:2067:54:1919:-139.271,0,-152.585 0/1:71:42,29:42:1495:29:1017:-70.4667,0,-113.471 0/1:65:27,38:27:956:38:1336:-100.97,0,-66.7888 0/1:146:75,71:75:2655:71:2498:-181.121,0,-195.247 0/1:53:17,36:17:604:36:1280:-99.5486,0,-38.736 1/1:31:0,31:0:0:31:1089:-98.3173,-9.33193,0 1/1:78:0,78:0:0:78:2773:-249.812,-23.4803,0 chr09 20386299 . TGGAG CGGAA,TGGAA 35655.9 PASS AB=0.496255,0.497191;ABP=3.14043,3.0835;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1194,533;CIGAR=1X3M1X,4M1X;DP=1740;DPB=1740.2;DPRA=0,1.45506;EPP=2595.75,1160.41;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.28571,2.64286;MQM=59.9313,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.34555;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=41996,18769;QR=0;RO=0;RPL=0,0;RPP=2595.75,1160.41;RPPR=0;RPR=1194,533;RUN=1,1;SAF=1194,533;SAP=2595.75,1160.41;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,31,24:0:0:31,24:1095,856:-159.309,-70.1364,-60.8045,-89.5273,0,-82.3026 1/2:87:0,42,44:0:0:42,44:1481,1552:-247.062,-126.474,-113.831,-120.686,0,-107.441 1/2:44:0,21,22:0:0:21,22:737,772:-122.771,-62.8192,-56.4975,-59.9432,0,-53.3205 1/2:92:0,40,52:0:0:40,52:1415,1840:-265.48,-150.227,-138.186,-115.606,0,-99.9528 1/2:168:0,80,87:0:0:80,87:2792,3068:-476.939,-249.85,-225.768,-227.129,0,-200.94 1/2:91:0,50,40:0:0:50,40:1757,1425:-259.152,-116.145,-101.093,-143.002,0,-130.961 1/1:140:0,138,0:0:0:138,0:4795,0:-431.327,-41.5421,0,-431.327,-41.5421,-431.327 1/2:84:0,31,53:0:0:31,53:1096,1873:-242.157,-152.893,-143.561,-89.6181,0,-73.6635 1/1:142:0,140,0:0:0:140,0:4929,0:-443.474,-42.1442,0,-443.474,-42.1442,-443.474 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:14:0,14,0:0:0:14,0:498,0:-45.1557,-4.21442,0,-45.1557,-4.21442,-45.1557 1/1:28:0,28,0:0:0:28,0:986,0:-89.054,-8.42884,0,-89.054,-8.42884,-89.054 1/1:95:0,92,1:0:0:92,1:3272,36:-294.352,-27.6948,0,-291.415,-24.7524,-291.114 1/1:50:0,50,0:0:0:50,0:1754,0:-158.135,-15.0515,0,-158.135,-15.0515,-158.135 1/2:159:0,73,85:0:0:73,85:2562,2931:-446.628,-238.121,-216.146,-208.545,0,-182.957 1/2:78:0,38,40:0:0:38,40:1332,1408:-223.363,-114.976,-103.537,-108.738,0,-96.697 1/2:61:0,32,29:0:0:32,29:1141,1024:-176.754,-83.7427,-74.1098,-93.3655,0,-84.6357 1/2:75:0,36,38:0:0:36,38:1264,1348:-212.694,-109.821,-98.9843,-102.866,0,-91.4265 1/2:74:0,56,17:0:0:56,17:1948,600:-207.179,-48.7954,-31.9377,-158.319,0,-153.201 1/1:132:0,131,1:0:0:131,1:4635,36:-416.959,-39.4349,0,-414.021,-36.1377,-413.72 1/1:67:0,67,0:0:0:67,0:2363,0:-212.929,-20.169,0,-212.929,-20.169,-212.929 chr09 20422361 . CA CT,TT 25355.8 PASS AB=0.513285,0.486715;ABP=4.27961,4.27961;AC=30,12;AF=0.714286,0.285714;AN=42;AO=810,404;CIGAR=1M1X,2X;DP=1214;DPB=1214;DPRA=0,1.64165;EPP=1761.9,880.285;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.61905,2;MQM=59.9074,59.8465;MQMR=0;NS=21;NUMALT=2;ODDS=2.65226;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29010,14335;QR=0;RO=0;RPL=810,404;RPP=1761.9,880.285;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1761.9,880.285;SAR=810,404;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,50,37:0:0:50,37:1796,1307:-253.306,-106.791,-91.7397,-146.871,0,-135.733 1/2:58:0,31,27:0:0:31,27:1106,948:-167.67,-77.5061,-68.1742,-90.5179,0,-82.3901 1/2:19:0,8,11:0:0:8,11:288,394:-55.9903,-32.4902,-30.0819,-23.8592,0,-20.5478 1/2:47:0,28,19:0:0:28,19:1008,682:-138.193,-55.9444,-47.5156,-82.6075,0,-76.8879 1/2:164:0,89,75:0:0:89,75:3191,2661:-477.26,-217.154,-190.362,-260.463,0,-237.885 1/2:64:0,32,32:0:0:32,32:1152,1150:-188.175,-94.1771,-84.5442,-94.3572,0,-84.7242 1/1:70:0,70,0:0:0:70,0:2501,0:-225.341,-21.0721,0,-225.341,-21.0721,-225.341 1/2:22:0,8,14:0:0:8,14:273,496:-62.8992,-40.7593,-38.351,-22.4857,0,-18.2713 1/1:110:0,110,0:0:0:110,0:3937,0:-354.465,-33.1133,0,-354.465,-33.1133,-354.465 1/1:12:0,12,0:0:0:12,0:428,0:-38.8588,-3.61236,0,-38.8588,-3.61236,-38.8588 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:32:0,32,0:0:0:32,0:1140,0:-102.873,-9.63296,0,-102.873,-9.63296,-102.873 1/1:45:0,45,0:0:0:45,0:1620,0:-146.09,-13.5464,0,-146.09,-13.5464,-146.09 1/1:24:0,24,0:0:0:24,0:864,0:-78.0826,-7.22472,0,-78.0826,-7.22472,-78.0826 1/2:174:0,102,72:0:0:102,72:3657,2516:-503.288,-205.014,-174.309,-298.626,0,-276.952 1/2:62:0,25,37:0:0:25,37:896,1330:-181.936,-108.86,-101.334,-73.4346,0,-62.2965 1/2:84:0,24,60:0:0:24,60:864,2131:-244.471,-173.972,-166.748,-70.8574,0,-52.7956 1/2:17:0,8,9:0:0:8,9:288,324:-50.2959,-26.7966,-24.3883,-23.8592,0,-21.1499 1/2:30:0,20,10:0:0:20,10:716,360:-88.1216,-29.7336,-23.713,-58.7471,0,-55.7368 1/1:55:0,54,1:0:0:54,1:1932,36:-173.791,-16.2556,0,-170.853,-12.9584,-170.552 1/1:31:0,31,0:0:0:31,0:1101,0:-99.3984,-9.33193,0,-99.3984,-9.33193,-99.3984 chr09 20458575 . TGTTT GGATT,GGATC 49403.8 PASS AB=0.579409,0.409417;ABP=71.6396,92.311;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1796,515;CIGAR=1X1M1X2M,1X1M1X1M1X;DP=2331;DPB=2331;DPRA=0,1.30418;EPP=3588.22,1095.41;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.38095,2.85714;MQM=59.6893,59.4835;MQMR=0;NS=21;NUMALT=2;ODDS=25.1951;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62742,18005;QR=0;RO=0;RPL=1759,512;RPP=3588.22,1095.41;RPPR=0;RPR=37,3;RUN=1,1;SAF=0,0;SAP=3902.97,1121.32;SAR=1796,515;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:101:0,66,35:0:0:66,35:2256,1212:-281.872,-98.7904,-78.9225,-183.426,0,-172.89 1/2:76:0,48,28:0:0:48,28:1694,982:-218.153,-80.209,-65.7595,-138.296,0,-129.867 1/2:108:0,79,28:0:0:79,28:2784,954:-303.782,-77.1186,-53.3373,-226.647,0,-218.218 1/2:132:0,83,46:0:0:83,46:2874,1604:-363.841,-130.437,-105.451,-233.393,0,-219.546 1/2:189:0,97,88:0:0:97,88:3418,3091:-529.778,-251.588,-222.388,-278.209,0,-251.718 1/2:98:0,46,50:0:0:46,50:1620,1773:-276.315,-144.432,-130.585,-131.878,0,-116.826 1/1:199:0,197,0:0:0:197,0:6845,0:-615.753,-59.3029,0,-615.753,-59.3029,-615.753 1/2:129:0,77,52:0:0:77,52:2648,1801:-361.689,-146.702,-123.522,-215.333,0,-199.679 1/1:309:0,306,1:0:0:306,1:10703,36:-962.477,-92.1152,0,-959.54,-89.1711,-959.239 1/1:27:0,27,0:0:0:27,0:931,0:-84.0995,-8.12781,0,-84.0995,-8.12781,-84.0995 1/1:4:0,4,0:0:0:4,0:138,0:-12.7602,-1.20412,0,-12.7602,-1.20412,-12.7602 1/1:44:0,44,0:0:0:44,0:1533,0:-138.247,-13.2453,0,-138.247,-13.2453,-138.247 1/1:179:0,178,0:0:0:178,0:6246,0:-561.847,-53.5833,0,-561.847,-53.5833,-561.847 1/1:123:0,121,1:0:0:121,1:4227,36:-380.199,-36.4246,0,-377.264,-33.4895,-376.963 1/2:111:0,55,54:0:0:55,54:1923,1906:-311.666,-155.233,-138.676,-156.458,0,-140.202 1/2:65:0,43,22:0:0:43,22:1511,783:-187.095,-64.1141,-51.1698,-123.335,0,-116.713 1/2:93:0,49,44:0:0:49,44:1735,1532:-266.217,-124.915,-110.164,-141.653,0,-128.408 1/2:87:0,39,48:0:0:39,48:1360,1675:-247.169,-136.569,-124.828,-110.949,0,-96.4996 1/2:64:0,44,18:0:0:44,18:1555,620:-177.013,-50.3665,-37.1212,-126.658,0,-121.239 1/1:124:0,124,0:0:0:124,0:4328,0:-389.671,-37.3277,0,-389.671,-37.3277,-389.671 1/1:69:0,69,0:0:0:69,0:2413,0:-217.402,-20.7711,0,-217.402,-20.7711,-217.402 chr09 20458591 . G T 37741.5 PASS AB=0.58753;ABP=86.2605;AC=30;AF=0.714286;AN=42;AO=1806;CIGAR=1X;DP=2323;DPB=2323;DPRA=0;EPP=3924.69;EPPR=1112.65;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.665;MQMR=59.5068;NS=21;NUMALT=1;ODDS=25.454;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64578;QR=18420;RO=515;RPL=1806;RPP=3924.69;RPPR=1112.65;RPR=0;RUN=1;SAF=0;SAP=3924.69;SAR=1806;SRF=0;SRP=1121.32;SRR=515;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:34,66:34:1211:66:2353:-181.917,0,-79.1925 0/1:76:28,48:28:1004:48:1720:-132.204,0,-67.7363 0/1:108:28,80:28:992:80:2860:-225.099,0,-56.2563 0/1:132:46,86:46:1644:86:3065:-236.096,0,-108.508 0/1:189:87,101:87:3120:101:3582:-265.486,0,-224.05 0/1:98:52,46:52:1856:46:1652:-119.458,0,-137.791 1/1:198:0,198:0:0:198:7085:-637.61,-59.6039,0 0/1:129:52,77:52:1868:77:2756:-209.236,0,-129.549 1/1:309:1,308:1:36:308:11048:-989.858,-89.42,0 1/1:27:0,27:0:0:27:957:-86.4393,-8.12781,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:44:0,44:0:0:44:1580:-142.478,-13.2453,0 1/1:179:0,179:0:0:179:6401:-576.134,-53.8844,0 1/1:120:0,120:0:0:120:4284:-385.721,-36.1236,0 0/1:111:55,56:55:1972:56:2004:-147.212,0,-144.335 0/1:65:22,43:22:792:43:1529:-118.331,0,-51.9816 0/1:93:45,48:45:1585:48:1700:-125.282,0,-114.934 0/1:87:47,39:47:1692:39:1404:-100.404,0,-126.292 0/1:63:18,45:18:648:45:1620:-127.123,0,-39.6824 1/1:123:0,123:0:0:123:4386:-394.884,-37.0267,0 1/1:68:0,68:0:0:68:2448:-220.55,-20.47,0 chr09 20486284 . A G 21795.8 PASS AB=0.578285;ABP=117.246;AC=12;AF=0.285714;AN=42;AO=1243;CIGAR=1X;DP=3129;DPB=3129;DPRA=1.71287;EPP=2702.15;EPPR=4096.24;GTI=2;LEN=1;MEANALT=1.07143;MQM=59.9992;MQMR=59.966;NS=21;NUMALT=1;ODDS=5.77034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44319;QR=67438;RO=1885;RPL=0;RPP=2702.15;RPPR=4096.24;RPR=1243;RUN=1;SAF=1243;SAP=2702.15;SAR=0;SRF=1885;SRP=4096.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:73,127:73:2601:127:4522:-346.94,0,-174.131 0/1:105:40,64:40:1432:64:2266:-172.533,0,-97.5107 0/1:121:57,64:57:2033:64:2284:-169.397,0,-146.816 0/1:172:81,91:81:2916:91:3252:-241.124,0,-210.897 0/1:309:170,139:170:6108:139:4926:-350.474,0,-456.8 0/1:147:47,100:47:1684:100:3580:-278.156,0,-107.596 0/0:236:236,0:236:8414:0:0:0,-71.0431,-756.489 0/1:181:52,129:52:1864:129:4621:-361.565,0,-113.553 0/0:220:220,0:220:7859:0:0:0,-66.2266,-707.334 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.0003 0/0:118:118,0:118:4216:0:0:0,-35.5215,-379.621 0/0:132:131,1:131:4689:1:36:0,-36.1377,-418.57 0/1:166:73,93:73:2620:93:3317:-248.776,0,-186.076 0/1:188:91,97:91:3252:97:3457:-254.748,0,-236.308 0/1:94:42,52:42:1508:52:1845:-138.031,0,-107.718 0/1:383:116,267:116:4160:267:9533:-742.634,0,-259.288 0/1:80:62,18:62:2216:18:644:-34.2082,0,-175.622 0/0:144:143,1:143:5109:1:36:0,-39.75,-456.354 0/0:91:91,0:91:3245:0:0:0,-27.3937,-292.27 chr09 20486362 . C T 28844.6 PASS AB=0.477795;ABP=8.60359;AC=30;AF=0.714286;AN=42;AO=1451;CIGAR=1X;DP=2139;DPB=2139;DPRA=0;EPP=3153.82;EPPR=1496.98;GTI=0;LEN=1;MEANALT=1;MQM=59.8367;MQMR=59.9724;NS=21;NUMALT=1;ODDS=3.43754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51345;QR=24462;RO=688;RPL=1451;RPP=3153.82;RPPR=1496.98;RPR=0;RUN=1;SAF=0;SAP=3153.82;SAR=1451;SRF=0;SRP=1496.98;SRR=688;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:65,60:65:2320:60:2122:-153.612,0,-171.43 0/1:88:25,63:25:883:63:2248:-176.093,0,-53.2968 0/1:62:31,31:31:1112:31:1112:-81.7251,0,-81.7275 0/1:108:34,74:34:1212:74:2647:-205.964,0,-76.8751 0/1:196:120,76:120:4254:76:2684:-182.797,0,-324.04 0/1:138:73,65:73:2611:65:2300:-165.28,0,-193.695 1/1:136:0,136:0:0:136:4811:-433.143,-40.9401,0 0/1:132:91,41:91:3234:41:1441:-90.2487,0,-251.538 1/1:168:0,168:0:0:168:5933:-534.023,-50.573,0 1/1:22:1,21:1:36:21:740:-63.3251,-3.02439,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 1/1:43:0,43:0:0:43:1535:-138.442,-12.9443,0 1/1:222:0,222:0:0:222:7839:-705.247,-66.8287,0 1/1:86:0,86:0:0:86:3040:-273.832,-25.8886,0 0/1:150:103,47:103:3684:47:1692:-107.408,0,-286.608 0/1:62:34,28:34:1216:28:996:-71.291,0,-91.0814 0/1:64:28,36:28:996:36:1288:-96.9577,0,-70.689 0/1:77:44,33:44:1547:33:1168:-82.2479,0,-116.342 0/1:104:34,70:34:1177:70:2432:-187.829,0,-74.9249 1/1:93:4,89:4:144:89:3127:-268.336,-14.6822,0 1/1:54:1,53:1:36:53:1870:-164.979,-12.6573,0 chr09 20486379 . C T 11552.1 PASS AB=0.505193;ABP=3.32603;AC=12;AF=0.285714;AN=42;AO=686;CIGAR=1X;DP=2213;DPB=2213;DPRA=0.975333;EPP=1492.64;EPPR=3310.16;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.9577;MQMR=59.8477;NS=21;NUMALT=1;ODDS=6.65164;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24556;QR=54357;RO=1523;RPL=686;RPP=1492.64;RPPR=3310.16;RPR=0;RUN=1;SAF=0;SAP=1492.64;SAR=686;SRF=0;SRP=3310.16;SRR=1523;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:61,67:61:2184:67:2404:-177.713,0,-157.934 0/1:90:64,26:64:2296:26:932:-57.1062,0,-179.808 0/1:65:35,30:35:1252:30:1076:-77.5859,0,-93.4157 0/1:112:79,33:79:2832:33:1184:-73.153,0,-221.402 0/1:208:90,116:90:3187:116:4154:-311.671,0,-224.541 0/1:143:69,74:69:2476:74:2633:-194.169,0,-179.016 0/0:141:141,0:141:5044:0:0:0,-42.4452,-454.106 0/1:131:41,90:41:1464:90:3236:-252.018,0,-92.6211 0/0:170:170,0:170:6050:0:0:0,-51.1751,-544.604 0/0:22:21,1:21:756:1:36:0,-3.02438,-64.7689 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/0:235:235,0:235:8349:0:0:0,-70.742,-750.988 0/0:97:97,0:97:3446:0:0:0,-29.1999,-310.345 0/1:150:47,103:47:1673:103:3681:-286.336,0,-105.699 0/1:62:27,35:27:968:35:1256:-94.6801,0,-68.7735 0/1:67:38,29:38:1364:29:1024:-72.3036,0,-102.892 0/1:75:32,42:32:1136:42:1512:-113.739,0,-79.913 0/1:116:80,36:80:2864:36:1284:-80.9439,0,-223.077 0/0:93:89,4:89:3188:4:144:0,-14.6822,-273.813 0/0:54:54,0:54:1928:0:0:0,-16.2556,-173.797 chr09 20495670 . C A 49968.6 PASS AB=0.555395;ABP=39.8184;AC=30;AF=0.714286;AN=42;AO=1869;CIGAR=1X;DP=2486;DPB=2486;DPRA=0;EPP=7.62163;EPPR=3.51957;GTI=0;LEN=1;MEANALT=1.09524;MQM=56.7191;MQMR=59.9055;NS=21;NUMALT=1;ODDS=21.8251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66649;QR=21558;RO=614;RPL=1862;RPP=4000.92;RPPR=1327.62;RPR=7;RUN=1;SAF=896;SAP=9.89883;SAR=973;SRF=312;SRP=3.36396;SRR=302;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:47,53:47:1669:53:1891:-140.167,0,-120.165 0/1:75:41,34:41:1402:34:1224:-87.5362,0,-103.891 0/1:88:42,46:42:1466:46:1643:-121.515,0,-105.742 0/1:129:56,71:56:1976:71:2516:-187.84,0,-139.477 0/1:183:80,103:80:2820:103:3700:-277.223,0,-198.951 0/1:115:44,71:44:1552:71:2531:-192.583,0,-105.351 1/1:189:0,189:0:0:189:6748:-605.701,-56.8947,0 0/1:154:80,74:80:2842:74:2631:-189.793,0,-209.53 1/1:254:0,254:0:0:254:9061:-815.311,-76.4616,0 1/1:14:0,14:0:0:14:504:-45.6343,-4.21442,0 1/1:7:0,7:0:0:7:252:-23.0041,-2.10721,0 1/1:23:0,23:0:0:23:814:-73.514,-6.92369,0 1/1:202:1,200:1:36:200:7164:-640.07,-57.2686,0 1/1:120:0,120:0:0:120:4222:-379.223,-36.1236,0 0/1:192:64,128:64:2219:128:4548:-351.457,0,-142.173 0/1:66:26,40:26:919:40:1432:-109.258,0,-63.1582 0/1:61:26,35:26:915:35:1256:-94.9725,0,-64.3027 0/1:119:69,50:69:2424:50:1780:-124.282,0,-182.592 0/1:99:37,62:37:1282:62:2216:-169.817,0,-85.8771 1/1:193:1,192:1:36:192:6844:-609.649,-54.5005,0 1/1:103:0,103:0:0:103:3672:-329.816,-31.0061,0 chr09 20555409 . GAAAAAAT GAAACAT,GAAACAC 40478.4 PASS AB=0.460156,0.532813;ABP=20.6603,14.9805;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1319,685;CIGAR=1M1D3M1X2M,1M1D3M1X1M1X;DP=2023;DPB=1770.5;DPRA=0,1.25608;EPP=2867.18,1490.47;EPPR=0;GTI=1;LEN=7,7;MEANALT=2.2381,2.64286;MQM=57.301,43.019;MQMR=0;NS=21;NUMALT=2;ODDS=3.81006;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46311,23957;QR=0;RO=0;RPL=1319,685;RPP=2867.18,1490.47;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2867.18,1490.47;SAR=1319,685;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:67:0,37,30:0:0:37,30:1303,1049:-189.305,-83.3551,-72.217,-106.295,0,-97.2643 1/2:73:0,37,36:0:0:37,36:1290,1283:-207.356,-102.563,-91.4248,-105.142,0,-94.3048 1/2:63:0,25,38:0:0:25,38:890,1338:-177.66,-105.275,-97.7491,-72.7339,0,-61.2948 1/2:155:0,71,84:0:0:71,84:2487,2931:-433.566,-231.553,-210.18,-202.358,0,-177.071 1/2:230:0,72,156:0:0:72,156:2534,5443:-636.007,-430.262,-408.588,-205.796,0,-158.835 1/2:89:0,40,48:0:0:40,48:1404,1687:-247.162,-133.075,-121.033,-114.172,0,-99.7223 1/1:180:0,178,0:0:0:178,0:6188,0:-556.183,-53.5833,0,-556.183,-53.5833,-556.183 1/2:72:0,38,34:0:0:38,34:1348,1170:-203.326,-93.501,-82.0619,-110.17,0,-99.9353 1/1:143:0,143,0:0:0:143,0:5016,0:-451.328,-43.0473,0,-451.328,-43.0473,-451.328 1/1:12:0,12,0:0:0:12,0:425,0:-38.558,-3.61236,0,-38.558,-3.61236,-38.558 1/1:5:0,5,0:0:0:5,0:178,0:-16.3615,-1.50515,0,-16.3615,-1.50515,-16.3615 1/1:36:0,36,0:0:0:36,0:1249,0:-112.662,-10.8371,0,-112.662,-10.8371,-112.662 1/1:135:0,129,0:0:0:129,0:4551,0:-408.693,-38.8329,0,-408.693,-38.8329,-408.693 1/1:81:0,78,2:0:0:78,2:2742,63:-246.43,-23.4803,0,-241.433,-18.4408,-240.831 1/2:178:0,84,94:0:0:84,94:2962,3313:-503.627,-262.808,-237.521,-241.167,0,-212.87 1/2:71:0,39,31:0:0:39,31:1378,1080:-199.262,-87.0616,-75.3214,-112.311,0,-102.979 1/2:82:0,32,48:0:0:32,48:1128,1666:-226.069,-134.29,-124.657,-91.7695,0,-77.3201 1/2:110:0,52,57:0:0:52,57:1820,1984:-306.007,-158.107,-142.454,-147.891,0,-130.733 1/2:90:0,62,26:0:0:62,26:2192,914:-251.089,-72.8173,-54.1534,-178.327,0,-170.5 1/1:86:0,85,1:0:0:85,1:2981,36:-267.156,-25.5876,0,-264.264,-22.3401,-263.963 1/1:65:0,64,0:0:0:64,0:2245,0:-201.636,-19.2659,0,-201.636,-19.2659,-201.636 chr09 20563275 . TAAGT AAAGA,AAAGT 101916 PASS AB=0.5334,0.461564;ABP=31.8765,41.2359;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3510,1381;CIGAR=1X3M1X,1X4M;DP=4911;DPB=4913.2;DPRA=0,2.13517;EPP=7624.88,3001.81;EPPR=7.35324;GTI=0;LEN=5,1;MEANALT=2.61905,3.0625;MQM=59.6214,59.9399;MQMR=60;NS=21;NUMALT=2;ODDS=21.237;PAIRED=0,0;PAIREDR=0;PAO=4.5,4.5;PQA=126,126;PQR=0;PRO=0;QA=123339,49383;QR=50;RO=2;RPL=3510,1381;RPP=7624.88,3001.81;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=7624.88,3001.81;SAR=3510,1381;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:284:1,149,133:1:28:149,133:5231,4760:-811.427,-386.01,-343.375,-423.603,0,-385.784 1/2:141:0,67,74:0:0:67,74:2376,2644:-409.478,-215.931,-195.762,-193.903,0,-171.627 1/2:327:0,163,164:0:0:163,164:5748,5876:-946.961,-479.579,-430.511,-467.738,0,-418.369 1/2:207:0,97,109:0:0:97,109:3414,3887:-594.88,-316.983,-287.783,-278.029,0,-245.216 1/2:592:1,296,294:1:22:296,294:10378,10512:-1698.38,-855.559,-768.133,-841.542,0,-754.718 1/2:253:0,117,133:0:0:117,133:4143,4772:-726.511,-389.265,-354.045,-337.268,0,-297.231 1/1:380:0,377,1:0:0:377,1:13250,36:-1191.81,-113.488,0,-1188.87,-110.546,-1188.57 1/2:181:0,115,66:0:0:115,66:4063,2352:-522.803,-192.068,-157.45,-331.09,0,-311.222 1/1:428:0,428,0:0:0:428,0:15036,0:-1352.45,-128.841,0,-1352.45,-128.841,-1352.45 1/1:54:0,54,0:0:0:54,0:1885,0:-169.904,-16.2556,0,-169.904,-16.2556,-169.904 1/1:14:0,14,0:0:0:14,0:503,0:-45.5995,-4.21442,0,-45.5995,-4.21442,-45.5995 1/1:63:0,62,0:0:0:62,0:2186,0:-196.627,-18.6639,0,-196.627,-18.6639,-196.627 1/1:383:0,382,1:0:0:382,1:13447,23:-1209.45,-114.993,0,-1207.69,-113,-1207.38 1/1:270:0,267,2:0:0:267,2:9123,72:-820.656,-80.375,0,-814.781,-74.4403,-814.179 1/2:422:0,229,191:0:0:229,191:8088,6840:-1215.88,-557.813,-488.877,-658.067,0,-600.57 1/2:204:0,127,74:0:0:127,74:4497,2644:-581.867,-215.571,-177.34,-366.293,0,-344.016 1/2:172:0,98,74:0:0:98,74:3471,2644:-498.553,-215.812,-186.311,-282.979,0,-260.702 1/2:105:0,67,37:0:0:67,37:2344,1317:-297.909,-107.303,-87.1335,-190.572,0,-179.433 1/2:91:0,64,26:0:0:64,26:2263,932:-260.314,-76.0123,-56.7464,-184.298,0,-176.472 1/1:272:0,269,2:0:0:269,2:9514,72:-855.834,-80.9771,0,-849.959,-75.1022,-849.357 1/1:68:0,68,0:0:0:68,0:2379,0:-214.295,-20.47,0,-214.295,-20.47,-214.295 chr09 20569931 . C G 21535.7 PASS AB=0.448241;ABP=26.1632;AC=30;AF=0.714286;AN=42;AO=1093;CIGAR=1X;DP=1642;DPB=1642;DPRA=0;EPP=2376.43;EPPR=1186.46;GTI=0;LEN=1;MEANALT=1.14286;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.880338;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38418;QR=19328;RO=545;RPL=0;RPP=2376.43;RPPR=1186.46;RPR=1093;RUN=1;SAF=0;SAP=2376.43;SAR=1093;SRF=0;SRP=1186.46;SRR=545;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:56,51:56:1983:51:1797:-129.44,0,-146.174 0/1:35:15,20:15:532:20:700:-52.7855,0,-37.677 0/1:107:60,47:60:2140:47:1664:-117.837,0,-160.658 0/1:80:45,35:45:1604:35:1209:-85.0277,0,-120.568 0/1:133:94,39:94:3328:39:1363:-82.9279,0,-259.701 0/1:56:30,26:30:1080:26:912:-65.5363,0,-80.6556 1/1:100:0,100:0:0:100:3505:-315.66,-30.103,0 0/1:100:58,42:58:2055:42:1485:-103.838,0,-155.118 1/1:155:0,155:0:0:155:5474:-492.793,-46.6597,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:7:0,7:0:0:7:243:-22.2075,-2.10721,0 1/1:32:0,32:0:0:32:1128:-101.828,-9.63296,0 1/1:99:0,99:0:0:99:3483:-313.683,-29.802,0 1/1:130:0,130:0:0:130:4531:-407.96,-39.1339,0 0/1:109:50,58:50:1800:58:2033:-150.368,0,-129.411 0/1:52:32,19:32:1130:19:676:-45.4558,0,-86.2948 0/1:60:32,28:32:1130:28:987:-71.0812,0,-83.9451 0/1:96:52,44:52:1811:44:1558:-111.611,0,-134.369 0/1:58:21,37:21:735:37:1324:-102.002,0,-49.0117 1/1:63:0,63:0:0:63:2205:-198.712,-18.9649,0 1/1:53:0,53:0:0:53:1853:-167.046,-15.9546,0 chr09 20587522 . G A 108577 PASS AB=0.500394;ABP=3.01544;AC=30;AF=0.714286;AN=42;AO=4135;CIGAR=1X;DP=6043;DPB=6043;DPRA=0;EPP=8973.36;EPPR=4137.5;GTI=0;LEN=1;MEANALT=1;MQM=59.9688;MQMR=59.9979;NS=21;NUMALT=1;ODDS=15.6523;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=147901;QR=68039;RO=1908;RPL=2243;RPP=67.7086;RPPR=19.3988;RPR=1892;RUN=1;SAF=2242;SAP=66.9734;SAR=1893;SRF=1013;SRP=18.857;SRR=895;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:228:119,109:119:4247:109:3901:-282.648,0,-313.775 0/1:249:123,126:123:4408:126:4498:-330.032,0,-321.935 0/1:264:148,116:148:5290:116:4162:-295.29,0,-396.763 0/1:356:181,175:181:6394:175:6260:-456.326,0,-468.382 0/1:788:360,428:360:12812:428:15301:-1139.03,0,-915.687 0/1:306:159,147:159:5662:147:5262:-381.601,0,-417.584 1/1:494:0,494:0:0:494:17683:-1591.07,-148.709,0 0/1:207:104,103:104:3690:103:3696:-270.528,0,-269.988 1/1:429:1,428:1:36:428:15302:-1373.29,-125.544,0 1/1:66:1,65:1:36:65:2318:-205.281,-16.2697,0 1/1:36:0,36:0:0:36:1281:-115.588,-10.8371,0 1/1:100:0,100:0:0:100:3584:-322.767,-30.103,0 1/1:351:1,350:1:36:350:12520:-1123.03,-102.063,0 1/1:322:1,321:1:36:321:11480:-1029.47,-93.3334,0 0/1:529:264,265:264:9471:265:9505:-695.932,0,-693.101 0/1:243:148,95:148:5296:95:3391:-232.254,0,-403.622 0/1:197:99,98:99:3537:98:3505:-256.355,0,-259.235 0/1:269:136,133:136:4846:133:4775:-348.928,0,-355.318 0/1:167:59,108:59:2098:108:3843:-295.793,0,-138.816 1/1:294:4,290:4:144:290:10353:-918.355,-75.1892,0 1/1:148:0,148:0:0:148:5281:-475.379,-44.5524,0 chr09 20619976 . GATCGCA CACAGCT,GACCGCT 37740 PASS AB=0.514233,0.471074;ABP=4.92654,10.9245;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1382,517;CIGAR=1X1M2X2M1X,2M1X3M1X;DP=1918;DPB=1918;DPRA=0,0.918213;EPP=3003.99,1125.66;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.52381,3;MQM=40.5109,59.5977;MQMR=0;NS=21;NUMALT=2;ODDS=12.5461;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48651,18191;QR=0;RO=0;RPL=0,0;RPP=3003.99,1125.66;RPPR=0;RPR=1382,517;RUN=1,1;SAF=1382,517;SAP=3003.99,1125.66;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,56,52:0:0:56,52:1982,1808:-302.624,-147.34,-130.483,-155.628,0,-139.975 1/2:62:0,32,29:0:0:32,29:1109,1033:-168.051,-84.1729,-74.5399,-83.8605,0,-75.1307 1/2:106:0,53,49:0:0:53,49:1864,1724:-286.5,-140.358,-124.404,-146.161,0,-131.41 1/2:112:0,50,57:0:0:50,57:1732,2026:-302.343,-165.101,-150.05,-137.238,0,-120.079 1/2:199:0,92,106:0:0:92,106:3209,3741:-557.783,-304.653,-276.959,-253.188,0,-221.279 1/2:102:0,59,43:0:0:59,43:2108,1517:-284.462,-123.859,-106.099,-160.948,0,-148.004 1/1:187:0,186,0:0:0:186,0:6548,0:-553.656,-55.9916,0,-553.656,-55.9916,-553.656 1/2:74:0,50,23:0:0:50,23:1746,794:-198.664,-64.57,-49.5185,-134.152,0,-127.229 1/1:209:0,208,0:0:0:208,0:7339,0:-646.298,-62.6142,0,-646.298,-62.6142,-646.298 1/1:6:0,6,0:0:0:6,0:215,0:-18.9321,-1.80618,0,-18.9321,-1.80618,-18.9321 1/1:8:0,8,0:0:0:8,0:280,0:-22.279,-2.40824,0,-22.279,-2.40824,-22.279 1/1:20:0,20,0:0:0:20,0:712,0:-61.5982,-6.0206,0,-61.5982,-6.0206,-61.5982 1/1:152:0,152,0:0:0:152,0:5397,0:-468.742,-45.7566,0,-468.742,-45.7566,-468.742 1/1:107:0,105,2:0:0:105,2:3664,72:-317.137,-31.6082,0,-311.262,-25.3735,-310.659 1/2:81:0,37,44:0:0:37,44:1303,1569:-229.689,-128.247,-117.108,-101.788,0,-88.5431 1/2:47:0,26,21:0:0:26,21:917,746:-132.667,-61.1421,-53.3153,-71.8725,0,-65.5509 1/2:68:0,36,30:0:0:36,30:1248,1045:-184,-84.9874,-74.1503,-99.0524,0,-90.0215 1/2:69:0,34,35:0:0:34,35:1211,1196:-190.362,-97.3975,-87.1624,-93.3037,0,-82.7677 1/2:61:0,35,24:0:0:35,24:1245,848:-167.711,-69.0432,-58.5071,-98.6789,0,-91.4542 1/1:98:0,96,1:0:0:96,1:3370,36:-289.466,-28.8989,0,-286.529,-25.9543,-286.228 1/1:42:0,41,1:0:0:41,1:1452,36:-122.753,-12.3422,0,-119.815,-9.04499,-119.514 chr09 20626201 . CTAC TTAT,CTAT 28274.7 PASS AB=0.542563,0.45463;ABP=19.8316,22.1229;AC=28,14;AF=0.666667,0.333333;AN=42;AO=987,491;CIGAR=1X2M1X,3M1X;DP=1481;DPB=1481;DPRA=0,1.71756;EPP=2094.46,1026.22;EPPR=0;GTI=1;LEN=4,1;MEANALT=2,2.16667;MQM=45.54,32.4134;MQMR=0;NS=21;NUMALT=2;ODDS=3.69909;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34939,17542;QR=0;RO=0;RPL=981,486;RPP=2094.46,1026.22;RPPR=0;RPR=6,5;RUN=1,1;SAF=0,0;SAP=2146.25,1069.2;SAR=987,491;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,40,53:0:0:40,53:1403,1879:-241.232,-130.111,-118.07,-111.447,0,-95.4919 1/2:50:0,10,40:0:0:10,40:353,1421:-126.666,-98.4954,-95.4851,-28.5093,0,-16.4681 1/2:54:0,21,33:0:0:21,33:752,1173:-140.61,-80.0546,-73.733,-60.8894,0,-50.9554 1/2:40:0,20,20:0:0:20,20:708,720:-104.973,-49.7474,-43.7268,-55.5502,0,-49.5296 1/2:159:0,98,61:0:0:98,61:3470,2180:-427.97,-148.494,-118.993,-279.797,0,-261.434 1/2:61:0,31,30:0:0:31,30:1098,1080:-162.048,-73.6321,-64.3002,-88.7433,0,-79.7124 1/1:101:0,100,1:0:0:100,1:3546,36:-314.454,-30.103,0,-311.944,-27.2804,-311.643 1/2:31:0,16,15:0:0:16,15:572,540:-84.1084,-37.966,-33.1495,-46.4748,0,-41.9593 1/2:159:0,138,21:0:0:138,21:4891,756:-443.943,-52.8982,-11.3561,-391.361,0,-385.04 1/2:16:0,13,3:0:0:13,3:467,108:-45.4233,-7.8431,-3.92971,-37.9004,0,-36.9974 1/1:10:0,10,0:0:0:10,0:358,0:-32.0593,-3.0103,0,-32.0593,-3.0103,-32.0593 1/1:37:0,35,2:0:0:35,2:1231,72:-109.309,-10.5361,0,-104.29,-5.2032,-103.688 1/1:75:0,75,0:0:0:75,0:2676,0:-236.879,-22.5773,0,-236.879,-22.5773,-236.879 1/1:80:0,79,1:0:0:79,1:2790,36:-247.682,-23.7814,0,-245.301,-21.1016,-245 1/2:65:0,33,32:0:0:33,32:1185,1148:-173.213,-77.6978,-67.7638,-95.8438,0,-86.2108 1/2:95:0,36,58:0:0:36,58:1261,2079:-244.377,-142.86,-132.023,-101.549,0,-84.0895 1/2:80:0,49,30:0:0:49,30:1739,1080:-214.262,-75.0622,-60.3117,-139.226,0,-130.195 1/2:104:0,35,68:0:0:35,68:1235,2406:-263.685,-167.195,-156.658,-96.5237,0,-76.0537 1/2:62:0,40,22:0:0:40,22:1404,792:-167.491,-55.0267,-42.9855,-112.787,0,-106.164 1/1:63:0,62,1:0:0:62,1:2190,36:-194.618,-18.6639,0,-193.044,-16.8783,-192.743 1/1:46:0,46,0:0:0:46,0:1610,0:-143.553,-13.8474,0,-143.553,-13.8474,-143.553 chr09 20626226 . T C 5677.61 PASS AB=0.45412;ABP=22.5373;AC=14;AF=0.333333;AN=42;AO=490;CIGAR=1X;DP=1475;DPB=1475;DPRA=1.70992;EPP=1067.03;EPPR=2137.57;GTI=1;LEN=1;MEANALT=1.11111;MQM=32.4102;MQMR=45.5595;NS=21;NUMALT=1;ODDS=3.76141;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17419;QR=35172;RO=983;RPL=490;RPP=1067.03;RPPR=2137.57;RPR=0;RUN=1;SAF=0;SAP=1067.03;SAR=490;SRF=0;SRP=2137.57;SRR=983;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:39,52:39:1389:52:1845:-116.269,0,-94.2345 0/1:49:10,39:10:360:39:1393:-93.6415,0,-17.3762 0/1:54:21,33:21:756:33:1155:-73.903,0,-51.2876 0/1:40:20,20:20:720:20:705:-42.7765,0,-50.1549 0/1:159:98,61:98:3508:61:2154:-117.952,0,-264.702 0/1:61:31,30:31:1112:30:1076:-64.1399,0,-80.8921 0/0:101:100,1:100:3566:1:36:0,-27.2804,-312.28 0/1:30:15,15:15:532:15:536:-33.2897,0,-38.6853 0/1:159:138,20:138:4941:20:701:-7.56582,0,-388.567 0/1:16:13,3:13:468:3:108:-3.92971,0,-37.0807 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.2278 0/0:36:34,2:34:1220:2:72:0,-4.90217,-102.539 0/0:75:75,0:75:2688:0:0:0,-22.5772,-237.892 0/0:79:78,1:78:2774:1:36:0,-20.8006,-243.619 0/1:65:33,32:33:1188:32:1152:-67.924,0,-86.4595 0/1:95:37,58:37:1332:58:2054:-130.802,0,-89.7534 0/1:80:50,30:50:1796:30:1061:-59.2013,0,-135.37 0/1:105:36,69:36:1262:69:2475:-159.712,0,-78.2057 0/1:63:40,23:40:1440:23:824:-45.3354,0,-108.946 0/0:60:59,1:59:2108:1:36:0,-15.9752,-185.843 0/0:46:46,0:46:1652:0:0:0,-13.8474,-146.778 chr09 20637609 . GG GC,AC 19616.8 PASS AB=0.618147,0.379962;ABP=131.287,135.425;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1403,405;CIGAR=1M1X,2X;DP=1811;DPB=1811;DPRA=0,1.29663;EPP=3049.59,882.457;EPPR=5.18177;GTI=2;LEN=1,2;MEANALT=1.7619,2.14286;MQM=25.1162,23.684;MQMR=54;NS=21;NUMALT=2;ODDS=0.926006;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49746,13995;QR=34;RO=1;RPL=1403,405;RPP=3049.59,882.457;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1403,405;SAP=3049.59,882.457;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:84:0,60,24:0:0:60,24:2128,826:-156.934,-42.4645,-24.4027,-114.704,0,-107.479 1/2:66:0,42,24:0:0:42,24:1508,836:-126.548,-42.5055,-29.8622,-84.2814,0,-77.0566 1/2:131:0,80,51:0:0:80,51:2855,1784:-242.071,-90.9502,-66.8678,-151.357,0,-136.004 1/2:58:0,39,19:0:0:39,19:1391,650:-110.155,-34.2364,-22.4963,-76.1565,0,-70.4369 1/2:167:0,113,54:0:0:113,54:3993,1868:-311.021,-95.7777,-61.7613,-215.478,0,-199.222 1/2:76:0,40,35:0:0:40,35:1419,1171:-139.485,-61.2051,-49.1639,-78.1924,0,-67.6563 1/1:167:0,166,1:0:0:166,1:5900,36:-373.252,-49.971,0,-371.333,-47.8051,-371.032 1/2:59:0,34,24:0:0:34,24:1201,839:-107.128,-43.6477,-33.4126,-63.4804,0,-56.2557 1/1:148:0,148,0:0:0:148,0:5254,0:-325.39,-44.5524,0,-325.39,-44.5524,-325.39 1/1:17:0,17,0:0:0:17,0:595,0:-37.7482,-5.11751,0,-37.7482,-5.11751,-37.7482 1/1:30:0,30,0:0:0:30,0:1063,0:-68.4935,-9.0309,0,-68.4935,-9.0309,-68.4935 1/1:50:0,50,0:0:0:50,0:1794,0:-110.85,-15.0515,0,-110.85,-15.0515,-110.85 1/1:70:0,70,0:0:0:70,0:2457,0:-151.099,-21.0721,0,-151.099,-21.0721,-151.099 1/1:150:1,149,0:1:34:149,0:5268,0:-323.418,-41.7588,0,-323.719,-44.8535,-326.475 1/2:129:0,81,48:0:0:81,48:2875,1648:-237.276,-84.8051,-60.4217,-152.705,0,-138.255 1/2:38:0,19,19:0:0:19,19:680,669:-70.8641,-34.4342,-28.7146,-36.6698,0,-30.9503 1/2:48:0,31,17:0:0:31,17:1112,575:-89.6205,-30.1556,-20.8237,-59.7002,0,-54.5826 1/2:159:0,84,75:0:0:84,75:2956,2614:-288.136,-133.807,-108.521,-154.563,0,-131.986 1/2:43:0,31,12:0:0:31,12:1080,407:-80.4096,-21.7912,-12.4593,-58.8544,0,-55.242 1/1:82:0,80,2:0:0:80,2:2842,72:-174.53,-24.0824,0,-170.859,-20.1748,-170.257 1/1:39:0,39,0:0:0:39,0:1375,0:-90.3681,-11.7402,0,-90.3681,-11.7402,-90.3681 chr09 20653010 . CGT CGC,TGC 129534 PASS AB=0.543808,0.448946;ABP=53.6179,71.745;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3487,1379;CIGAR=2M1X,1X1M1X;DP=4894;DPB=4897.67;DPRA=0,4.801;EPP=7505.61,2936.98;EPPR=11.6962;GTI=0;LEN=1,3;MEANALT=2.85714,3.05263;MQM=59.9656,59.9601;MQMR=60;NS=21;NUMALT=2;ODDS=15.4908;PAIRED=0,0;PAIREDR=0;PAO=0,11;PQA=0,379;PQR=0;PRO=0;QA=123098,47798;QR=144;RO=4;RPL=1833,636;RPP=22.9633,21.0387;RPPR=11.6962;RPR=1654,743;RUN=1,1;SAF=1825,631;SAP=19.5557,24.566;SAR=1662,748;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:186:0,79,107:0:0:79,107:2821,3739:-534.14,-304.147,-280.366,-229.986,0,-197.776 1/2:172:0,141,30:0:0:141,30:4956,1042:-488.143,-84.7398,-42.2945,-403.432,0,-394.402 1/2:164:0,79,85:0:0:79,85:2779,2939:-465.36,-239.142,-215.361,-226.567,0,-200.979 1/2:269:0,119,148:0:0:119,148:4217,5110:-758.705,-415.167,-379.345,-343.554,0,-299.001 1/2:610:0,316,288:0:0:316,288:11128,9946:-1714.04,-808.094,-712.969,-905.974,0,-819.277 1/2:213:3,141,67:3:108:141,67:5003,2321:-586.528,-179.807,-146.174,-398.802,0,-387.445 1/1:297:1,294,1:1:36:294,1:10432,36:-935.208,-85.5654,0,-932.572,-85.5654,-935.208 1/2:158:0,82,75:0:0:82,75:2898,2611:-448.405,-212.384,-187.699,-236.09,0,-213.513 1/1:461:0,458,1:0:0:458,1:16146,36:-1452.53,-137.872,0,-1449.59,-134.909,-1449.29 1/1:46:0,42,4:0:0:42,4:1476,140:-132.782,-12.6433,0,-121.391,-0.902586,-120.187 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 1/1:87:0,87,0:0:0:87,0:3082,0:-277.606,-26.1896,0,-277.606,-26.1896,-277.606 1/1:355:0,351,2:0:0:351,2:12458,72:-1120.7,-105.662,0,-1114.83,-99.7492,-1114.23 1/1:207:0,205,2:0:0:205,2:7323,72:-658.757,-61.7112,0,-652.882,-55.4765,-652.28 1/2:388:0,189,198:0:0:189,198:6652,6865:-1099.64,-558.122,-501.227,-541.66,0,-482.056 1/2:185:0,110,75:0:0:110,75:3843,2594:-523.683,-211.133,-178.02,-312.896,0,-290.319 1/2:188:0,95,90:0:0:95,90:3374,3145:-530.789,-255.862,-227.264,-274.958,0,-247.865 1/2:329:0,183,144:0:0:183,144:6329,4981:-919.073,-404.795,-349.706,-514.313,0,-470.965 1/2:174:0,117,56:0:0:117,56:4135,1948:-495.092,-158.363,-123.143,-336.729,0,-319.871 1/1:250:0,245,5:0:0:245,5:8658,165:-778.874,-73.7524,0,-765.535,-60.0829,-764.03 1/1:137:0,136,1:0:0:136,1:4740,36:-426.404,-40.9401,0,-423.466,-37.6428,-423.165 chr09 20655211 . G A 16863.2 PASS AB=0.531947;ABP=8.9762;AC=30;AF=0.714286;AN=42;AO=828;CIGAR=1X;DP=1144;DPB=1144;DPRA=0;EPP=1800.99;EPPR=689.196;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9367;NS=21;NUMALT=1;ODDS=8.91996;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29478;QR=11159;RO=316;RPL=0;RPP=1800.99;RPPR=689.196;RPR=828;RUN=1;SAF=0;SAP=1800.99;SAR=828;SRF=0;SRP=689.196;SRR=316;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:17,20:17:608:20:698:-52.0025,0,-43.9139 0/1:19:9,10:9:324:10:360:-27.0247,0,-23.7863 0/1:57:24,33:24:856:33:1184:-89.7096,0,-60.2024 0/1:47:18,29:18:631:29:1026:-78.5042,0,-42.9673 0/1:77:40,37:40:1428:37:1322:-96.1028,0,-105.638 0/1:39:24,15:24:855:15:540:-37.1964,0,-65.53 1/1:70:0,70:0:0:70:2490:-224.352,-21.0721,0 0/1:71:45,26:45:1574:26:928:-62.4651,0,-120.573 1/1:122:0,122:0:0:122:4325:-389.426,-36.7257,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 1/1:70:0,70:0:0:70:2504:-225.613,-21.0721,0 1/1:80:1,79:1:36:79:2822:-250.62,-20.4841,0 0/1:116:62,54:62:2173:54:1909:-137.166,0,-160.914 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:23:10,13:10:360:13:468:-35.536,0,-25.8206 0/1:109:49,60:49:1711:60:2137:-159.785,0,-121.333 0/1:68:13,55:13:459:55:1955:-155.755,0,-21.174 1/1:57:0,57:0:0:57:2028:-182.793,-17.1587,0 1/1:44:0,44:0:0:44:1562:-140.87,-13.2453,0 chr09 20655247 . T A 5183.73 PASS AB=0.471976;ABP=7.63509;AC=13;AF=0.309524;AN=42;AO=320;CIGAR=1X;DP=1138;DPB=1138;DPRA=0.907023;EPP=697.881;EPPR=1779.27;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.95889;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11425;QR=28970;RO=818;RPL=320;RPP=697.881;RPPR=1779.27;RPR=0;RUN=1;SAF=0;SAP=697.881;SAR=320;SRF=0;SRP=1779.27;SRR=818;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:21,16:21:703:16:559:-39.4987,0,-52.4403 0/1:18:9,9:9:320:9:324:-24.0873,0,-23.7238 0/1:59:34,25:34:1197:25:896:-63.1996,0,-90.2726 0/1:45:27,18:27:956:18:648:-45.1055,0,-72.8094 0/1:77:35,42:35:1248:42:1485:-110.763,0,-89.4456 0/1:39:15,24:15:528:24:860:-65.9817,0,-36.1112 0/0:70:70,0:70:2480:0:0:0,-21.0721,-223.455 0/1:71:26,45:26:913:45:1607:-123.546,0,-61.1109 0/0:117:117,0:117:4145:0:0:0,-35.2205,-373.236 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:67:67,0:67:2381:0:0:0,-20.169,-214.546 0/0:80:80,0:80:2822:0:0:0,-24.0824,-254.218 0/1:113:52,61:52:1808:61:2192:-163.529,0,-128.977 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:23:13,10:13:449:10:360:-25.8206,0,-33.8138 0/1:112:61,51:61:2188:51:1810:-129.465,0,-163.47 0/1:69:55,14:55:1976:14:504:-24.927,0,-157.344 0/0:59:59,0:59:2104:0:0:0,-17.7608,-189.63 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.772 chr09 20663185 . TG CG,CA 36282.2 PASS AB=0.498642,0.500815;ABP=3.03979,3.02092;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1946,925;CIGAR=1X1M,2X;DP=2873;DPB=2873;DPRA=0,1.32961;EPP=4228.7,2011.62;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.71429,2.07692;MQM=28.7086,28.7243;MQMR=0;NS=21;NUMALT=2;ODDS=1.7017;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55782,32646;QR=0;RO=0;RPL=0,0;RPP=4228.7,2011.62;RPPR=0;RPR=1946,925;RUN=1,1;SAF=1946,925;SAP=4228.7,2011.62;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:125:0,66,59:0:0:66,59:1964,2079:-273.382,-134.367,-114.499,-139.293,0,-121.532 1/2:176:0,73,103:0:0:73,103:1826,3586:-317.571,-194.835,-172.86,-122.966,0,-91.9598 1/2:205:0,116,89:0:0:116,89:3459,3166:-449.611,-204.411,-169.492,-245.479,0,-218.688 1/2:212:0,96,116:0:0:96,116:2871,4117:-466.778,-263.284,-234.385,-203.77,0,-168.851 1/2:176:0,91,85:0:0:91,85:2692,2994:-383.245,-192.777,-165.383,-190.744,0,-165.156 1/2:156:0,77,79:0:0:77,79:1919,2801:-278.38,-149.674,-126.494,-128.937,0,-105.156 1/1:165:0,164,0:0:0:164,0:4086,0:-323.429,-49.3689,0,-323.429,-49.3689,-323.429 1/2:135:0,61,74:0:0:61,74:1641,2609:-265.55,-152.552,-134.189,-113.247,0,-90.9711 1/1:237:0,237,0:0:0:237,0:7428,0:-604.885,-71.3441,0,-604.885,-71.3441,-604.885 1/1:10:0,10,0:0:0:10,0:270,0:-21.8346,-3.0103,0,-21.8346,-3.0103,-21.8346 1/1:12:0,12,0:0:0:12,0:298,0:-23.795,-3.61236,0,-23.795,-3.61236,-23.795 1/1:38:0,38,0:0:0:38,0:1024,0:-82.1192,-11.4391,0,-82.1192,-11.4391,-82.1192 1/1:157:0,157,0:0:0:157,0:4689,0:-379.977,-47.2617,0,-379.977,-47.2617,-379.977 1/1:210:0,210,0:0:0:210,0:6238,0:-505.781,-63.2163,0,-505.781,-63.2163,-505.781 1/2:214:0,102,112:0:0:102,112:3051,3952:-471.233,-254.858,-224.153,-216.652,0,-182.937 1/2:139:0,75,64:0:0:75,64:2345,2268:-323.088,-154.928,-132.351,-168.453,0,-149.187 1/2:122:0,62,60:0:0:62,60:1952,2119:-283.723,-143.5,-124.836,-140.515,0,-122.453 1/2:92:0,48,43:0:0:48,43:1282,1516:-176.322,-88.3882,-73.9388,-87.9393,0,-74.995 1/2:89:0,51,38:0:0:51,38:1520,1331:-194.663,-87.0334,-71.6809,-107.909,0,-96.4696 1/1:123:0,120,3:0:0:120,3:3228,108:-258.032,-36.1236,0,-251.783,-29.6106,-250.88 1/1:80:0,80,0:0:0:80,0:1999,0:-158.619,-24.0824,0,-158.619,-24.0824,-158.619 chr09 20663206 . ACATAAC TCTTAAT,ACTTAAT 40571.3 PASS AB=0.496507,0.500269;ABP=3.20749,3.01147;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1968,935;CIGAR=1X1M1X3M1X,2M1X3M1X;DP=2913;DPB=2913;DPRA=0,1.55141;EPP=4276.47,1981.56;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.09524,2.35714;MQM=28.6926,28.7497;MQMR=0;NS=21;NUMALT=2;ODDS=1.72715;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69388,33089;QR=0;RO=0;RPL=1968,929;RPP=4276.47,1981.56;RPPR=0;RPR=0,6;RUN=1,1;SAF=1968,935;SAP=4276.47,2033.34;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:129:0,67,61:0:0:67,61:2377,2138:-291.038,-138.282,-118.113,-152.757,0,-134.394 1/2:176:0,73,103:0:0:73,103:2573,3641:-335.764,-196.272,-174.296,-139.738,0,-108.732 1/2:205:0,116,89:0:0:116,89:4084,3131:-468.28,-203.602,-168.682,-264.965,0,-238.174 1/2:214:0,98,116:0:0:98,116:3427,4130:-487.656,-264.524,-235.023,-223.418,0,-188.499 1/2:176:0,91,85:0:0:91,85:3212,3030:-400.318,-194.037,-166.644,-206.567,0,-180.979 1/2:156:0,77,79:0:0:77,79:2732,2794:-296.516,-149.644,-126.465,-147.117,0,-123.335 1/1:168:0,168,0:0:0:168,0:5881,0:-369.913,-50.573,0,-369.913,-50.573,-369.913 1/2:139:0,64,75:0:0:64,75:2271,2648:-287.821,-155.053,-135.787,-133.031,0,-110.454 1/1:242:0,240,0:0:0:240,0:8454,0:-643.764,-72.2472,0,-643.764,-72.2472,-643.764 1/1:10:0,10,0:0:0:10,0:349,0:-23.9327,-3.0103,0,-23.9327,-3.0103,-23.9327 1/1:12:0,12,0:0:0:12,0:425,0:-26.6573,-3.61236,0,-26.6573,-3.61236,-26.6573 1/1:40:0,40,0:0:0:40,0:1407,0:-94.9674,-12.0412,0,-94.9674,-12.0412,-94.9674 1/1:157:0,156,0:0:0:156,0:5533,0:-403.482,-46.9607,0,-403.482,-46.9607,-403.482 1/1:216:0,215,1:0:0:215,1:7517,31:-551.806,-64.7215,0,-549.341,-61.949,-549.04 1/2:217:0,102,113:0:0:102,113:3615,4012:-492.057,-258.811,-228.106,-233.243,0,-199.227 1/2:144:0,75,67:0:0:75,67:2651,2368:-341.512,-162.16,-139.583,-179.452,0,-159.283 1/2:123:0,62,61:0:0:62,61:2168,2168:-293.839,-147.225,-128.561,-146.913,0,-128.55 1/2:93:0,48,45:0:0:48,45:1697,1592:-191.511,-93.0534,-78.604,-98.7193,0,-85.173 1/2:89:0,51,37:0:0:51,37:1822,1299:-200.879,-84.096,-68.7434,-116.72,0,-105.582 1/1:126:0,123,3:0:0:123,3:4348,107:-291.098,-37.0267,0,-284.861,-30.5252,-283.958 1/1:81:0,80,0:0:0:80,0:2845,0:-176.186,-24.0824,0,-176.186,-24.0824,-176.186 chr09 20663394 . C A 17228.8 PASS AB=0.454088;ABP=17.566;AC=30;AF=0.714286;AN=42;AO=844;CIGAR=1X;DP=1279;DPB=1279;DPRA=0;EPP=1792.56;EPPR=925.966;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.4976;MQMR=59.9607;NS=21;NUMALT=1;ODDS=4.94941;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30235;QR=15476;RO=433;RPL=839;RPP=1792.56;RPPR=925.966;RPR=5;RUN=1;SAF=0;SAP=1835.73;SAR=844;SRF=0;SRP=943.258;SRR=433;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:45,35:45:1574:35:1256:-89.2274,0,-117.864 0/1:71:54,17:54:1929:17:612:-34.0321,0,-152.512 0/1:80:38,42:38:1368:42:1512:-112.16,0,-99.3384 0/1:42:24,18:24:864:18:648:-45.9886,0,-65.4393 0/1:95:46,49:46:1644:49:1760:-130.074,0,-119.651 0/1:38:19,19:19:684:19:680:-50.09,0,-50.4503 1/1:114:0,114:0:0:114:4070:-366.272,-34.3174,0 0/1:52:23,29:23:824:29:1040:-78.2599,0,-58.8298 1/1:91:0,91:0:0:91:3264:-293.976,-27.3937,0 1/1:29:0,29:0:0:29:1029:-92.9053,-8.72987,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:31:0,31:0:0:31:1107:-99.5022,-9.33193,0 1/1:58:1,57:1:36:57:2048:-180.989,-13.8615,0 1/1:89:0,89:0:0:89:3196:-287.846,-26.7917,0 0/1:133:69,64:69:2480:64:2296:-166.341,0,-183.416 0/1:65:34,30:34:1201:30:1067:-76.6582,0,-88.7232 0/1:58:38,20:38:1368:20:705:-46.2256,0,-105.961 0/1:33:18,14:18:648:14:504:-35.8406,0,-48.8011 0/1:48:24,24:24:856:24:849:-62.2737,0,-62.9117 1/1:29:0,29:0:0:29:1044:-94.2702,-8.72987,0 1/1:31:0,31:0:0:31:1116:-100.446,-9.33193,0 chr09 20663410 . T C 16812.9 PASS AB=0.450687;ABP=19.9294;AC=30;AF=0.714286;AN=42;AO=844;CIGAR=1X;DP=1285;DPB=1285;DPRA=0;EPP=1835.73;EPPR=960.63;GTI=0;LEN=1;MEANALT=1;MQM=59.5024;MQMR=59.8957;NS=21;NUMALT=1;ODDS=4.30907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30073;QR=15780;RO=441;RPL=844;RPP=1835.73;RPPR=960.63;RPR=0;RUN=1;SAF=0;SAP=1835.73;SAR=844;SRF=0;SRP=960.63;SRR=441;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:46,34:46:1607:34:1216:-85.6571,0,-120.831 0/1:73:57,16:57:2029:16:561:-28.8337,0,-160.905 0/1:79:37,42:37:1332:42:1500:-111.381,0,-96.401 0/1:45:26,19:26:936:19:672:-47.2405,0,-71.0131 0/1:98:47,51:47:1680:51:1798:-132.578,0,-121.9 0/1:39:20,19:20:720:19:680:-49.789,0,-53.3877 1/1:111:0,111:0:0:111:3977:-357.904,-33.4143,0 0/1:50:23,27:23:828:27:953:-71.0318,0,-59.7926 1/1:94:0,94:0:0:94:3357:-302.339,-28.2968,0 1/1:30:0,30:0:0:30:1053:-95.0169,-9.0309,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 1/1:31:0,31:0:0:31:1097:-98.6001,-9.33193,0 1/1:60:1,59:1:36:59:2079:-183.771,-14.4635,0 1/1:88:0,88:0:0:88:3164:-284.967,-26.4906,0 0/1:133:69,64:69:2480:64:2285:-165.839,0,-183.416 0/1:65:34,31:34:1220:31:1089:-78.7385,0,-90.4949 0/1:58:39,19:39:1404:19:680:-44.0308,0,-109.182 0/1:33:18,15:18:648:15:540:-38.9841,0,-48.7179 0/1:48:24,24:24:860:24:864:-63.6275,0,-63.2724 1/1:27:0,27:0:0:27:968:-87.4328,-8.12781,0 1/1:31:0,31:0:0:31:1112:-100.085,-9.33193,0 chr09 20732988 . GGGA AGGG,AGGA 140208 PASS AB=0.476402,0.519442;ABP=19.305,14.0713;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3531,1758;CIGAR=1X2M1X,1X3M;DP=5318;DPB=5329.75;DPRA=0,2.57772;EPP=7670.48,3820.46;EPPR=9.52472;GTI=1;LEN=4,1;MEANALT=2.7619,3.125;MQM=59.7123,59.843;MQMR=58.6667;NS=21;NUMALT=2;ODDS=1.82879;PAIRED=0,0;PAIREDR=0;PAO=11.5,11.5;PQA=399.5,399.5;PQR=178;PRO=19;QA=122894,62626;QR=82;RO=3;RPL=1748,892;RPP=3.76364,3.84529;RPPR=9.52472;RPR=1783,866;RUN=1,1;SAF=1748,892;SAP=3.76364,3.84529;SAR=1783,866;SRF=3;SRP=9.52472;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:347:0,159,184:0:0:159,184:5493,6562:-980.956,-534.714,-486.85,-446.304,0,-390.914 1/2:149:0,63,84:0:0:63,84:2225,3003:-425.921,-244.731,-225.766,-181.229,0,-155.942 1/2:245:0,113,131:0:0:113,131:3951,4664:-701.758,-380.335,-346.319,-321.621,0,-282.186 1/2:320:0,156,163:0:0:156,163:5478,5804:-918.943,-473.134,-426.173,-446.019,0,-396.951 1/2:509:0,218,289:0:0:218,289:7559,10260:-1449.99,-835.612,-769.987,-614.342,0,-527.344 1/2:199:0,102,97:0:0:102,97:3571,3449:-571.833,-281.293,-250.588,-290.769,0,-261.569 1/1:324:0,320,2:0:0:320,2:11057,72:-994.65,-96.3296,0,-988.775,-90.4298,-988.173 1/2:468:0,218,249:0:0:218,249:7594,8865:-1339.49,-722.403,-656.779,-617.282,0,-542.325 1/1:510:1,506,1:1:25:506,1:17567,36:-1578,-150.381,0,-1575.36,-149.37,-1577.01 1/1:33:0,32,0:0:0:32,0:1136,0:-102.189,-9.63296,0,-102.189,-9.63296,-102.189 1/1:23:0,23,0:0:0:23,0:812,0:-73.06,-6.92369,0,-73.06,-6.92369,-73.06 1/1:96:0,96,0:0:0:96,0:3385,0:-304.776,-28.8989,0,-304.776,-28.8989,-304.776 1/1:253:1,248,3:1:21:248,3:8658,108:-776.884,-73.0886,0,-768.373,-65.7502,-769.058 1/1:309:0,307,0:0:0:307,0:10550,0:-949.051,-92.4162,0,-949.051,-92.4162,-949.051 1/2:498:1,237,260:1:36:237,260:8322,9283:-1430.7,-753.779,-685.372,-674.277,0,-598.947 1/2:107:0,47,58:0:0:47,58:1642,2072:-302.543,-168.979,-154.831,-133.604,0,-116.145 1/2:132:0,71,61:0:0:71,61:2464,2171:-377.249,-177.291,-155.918,-200.309,0,-181.946 1/2:228:0,115,113:0:0:115,113:3944,4025:-648.551,-328.357,-293.738,-320.476,0,-286.46 1/2:167:0,106,61:0:0:106,61:3730,2180:-481.735,-178.101,-146.191,-303.99,0,-285.627 1/1:287:0,280,2:0:0:280,2:9727,72:-874.879,-84.2884,0,-869.004,-78.4062,-868.402 1/1:114:0,114,0:0:0:114,0:4029,0:-362.733,-34.3174,0,-362.733,-34.3174,-362.733 chr09 20751680 . C G 11533.4 PASS AB=0.514286;ABP=3.7548;AC=29;AF=0.690476;AN=42;AO=561;CIGAR=1X;DP=774;DPB=774;DPRA=6.4;EPP=1195.29;EPPR=454.718;GTI=1;LEN=1;MEANALT=1.05;MQM=59.5668;MQMR=59.9953;NS=21;NUMALT=1;ODDS=5.29586;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19945;QR=7566;RO=212;RPL=3;RPP=1195.29;RPPR=454.718;RPR=558;RUN=1;SAF=561;SAP=1221.21;SAR=0;SRF=212;SRP=463.362;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:16,28:16:576:28:1000:-77.0677,0,-38.9297 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:54:20,34:20:720:34:1224:-93.8926,0,-48.8732 0/1:44:23,21:23:815:21:748:-54.4,0,-60.4254 0/1:69:41,28:41:1451:28:996:-69.1712,0,-110.114 0/1:21:11,10:11:396:10:360:-26.4227,0,-29.6611 1/1:48:0,48:0:0:48:1685:-151.932,-14.4494,0 0/1:15:7,8:7:252:8:276:-20.6598,0,-18.5135 1/1:56:0,56:0:0:56:1978:-178.287,-16.8577,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:24:0,24:0:0:24:852:-77.0004,-7.22472,0 1/1:63:3,60:3:108:60:2140:-182.793,-8.88972,0 1/1:65:0,65:0:0:65:2324:-209.243,-19.567,0 0/1:48:26,22:26:932:22:781:-55.9663,0,-69.7494 0/1:11:7,3:7:252:3:108:-6.70504,0,-19.6588 0/1:16:4,12:4:144:12:424:-33.679,0,-8.49714 0/1:56:38,18:38:1348:18:644:-41.4283,0,-104.763 0/1:42:10,32:10:356:32:1131:-89.4395,0,-19.738 1/1:47:0,47:0:0:47:1663:-149.949,-14.1484,0 1/1:35:0,35:0:0:35:1251:-112.882,-10.5361,0 chr09 20800797 . C T 43427.3 PASS AB=0.495588;ABP=3.3744;AC=30;AF=0.714286;AN=42;AO=2209;CIGAR=1X;DP=3299;DPB=3299;DPRA=0;EPP=4799.79;EPPR=2367.74;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.938;MQMR=60;NS=21;NUMALT=1;ODDS=3.81545;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77975;QR=38979;RO=1089;RPL=0;RPP=4799.79;RPPR=2367.74;RPR=2209;RUN=1;SAF=2209;SAP=4799.79;SAR=0;SRF=1089;SRP=2367.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:175:65,110:65:2332:110:3895:-298.065,0,-157.459 0/1:130:82,48:82:2948:48:1695:-113.702,0,-226.419 0/1:216:100,116:100:3580:116:4088:-303.09,0,-257.385 0/1:176:77,99:77:2745:99:3497:-261.926,0,-194.31 0/1:287:169,118:169:6060:118:4184:-290.351,0,-459.106 0/1:205:91,113:91:3256:113:3993:-297.793,0,-231.491 1/1:304:1,303:1:36:303:10655:-954.957,-87.9148,0 0/1:233:110,123:110:3944:123:4334:-320.102,0,-285.011 1/1:340:0,340:0:0:340:11997:-1079.5,-102.35,0 1/1:19:0,19:0:0:19:672:-60.8068,-5.71957,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 1/1:26:0,26:0:0:26:928:-83.8383,-7.82678,0 1/1:133:0,133:0:0:133:4690:-422.267,-40.037,0 1/1:143:0,143:0:0:143:5099:-459.056,-43.0473,0 0/1:306:175,131:175:6222:131:4608:-322.72,0,-467.963 0/1:121:63,58:63:2256:58:2064:-149.606,0,-166.878 0/1:129:79,50:79:2840:50:1772:-120.93,0,-217.005 0/1:108:58,50:58:2076:50:1766:-125.933,0,-154.599 0/1:67:16,51:16:576:51:1813:-143.281,0,-32.006 1/1:121:3,118:3:108:118:4115:-360.466,-26.3495,0 1/1:52:0,52:0:0:52:1826:-164.62,-15.6536,0 chr09 20800827 . G A 44757 PASS AB=0.500232;ABP=3.01131;AC=30;AF=0.714286;AN=42;AO=2227;CIGAR=1X;DP=3311;DPB=3311;DPRA=0;EPP=4838.88;EPPR=2356.89;GTI=1;LEN=1;MEANALT=1;MQM=59.9632;MQMR=60;NS=21;NUMALT=1;ODDS=3.41811;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79673;QR=38811;RO=1084;RPL=2227;RPP=4838.88;RPPR=2356.89;RPR=0;RUN=1;SAF=2227;SAP=4838.88;SAR=0;SRF=1084;SRP=2356.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:180:68,112:68:2419:112:4016:-307.443,0,-163.781 0/1:131:82,49:82:2944:49:1749:-118.257,0,-225.758 0/1:213:98,115:98:3504:115:4132:-307.943,0,-251.451 0/1:177:77,100:77:2747:100:3576:-268.694,0,-194.19 0/1:283:164,119:164:5883:119:4257:-298.116,0,-444.387 0/1:209:93,116:93:3340:116:4127:-308.696,0,-237.901 1/1:309:1,308:1:36:308:11030:-988.991,-89.42,0 0/1:233:107,126:107:3809:126:4515:-336.377,0,-272.868 1/1:340:0,340:0:0:340:12181:-1096.13,-102.35,0 1/1:19:0,19:0:0:19:677:-61.2579,-5.71957,0 1/1:7:0,7:0:0:7:237:-21.6591,-2.10721,0 1/1:26:0,26:0:0:26:925:-83.5667,-7.82678,0 1/1:136:0,136:0:0:136:4872:-438.63,-40.9401,0 1/1:137:1,136:1:36:136:4864:-434.313,-37.6428,0 0/1:307:171,136:171:6136:136:4861:-345.169,0,-459.922 0/1:124:65,59:65:2332:59:2101:-152.03,0,-172.812 0/1:126:81,45:81:2901:45:1620:-108.16,0,-223.394 0/1:111:58,53:58:2076:53:1904:-137.446,0,-153.696 0/1:65:15,50:15:540:50:1792:-141.996,0,-29.3696 1/1:123:3,120:3:108:120:4265:-373.952,-26.9515,0 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 chr09 20800925 . AAA GAG,AAG 56866.3 PASS AB=0.500301,0.495485;ABP=3.01161,3.30445;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1889,830;CIGAR=1X1M1X,2M1X;DP=2732;DPB=2732;DPRA=0,1.12322;EPP=4044.35,1796.66;EPPR=9.52472;GTI=0;LEN=3,1;MEANALT=2.09524,2.38462;MQM=59.8851,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.38669;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66505,29490;QR=108;RO=3;RPL=1882,829;RPP=4044.35,1796.66;RPPR=9.52472;RPR=7,1;RUN=1,1;SAF=0,0;SAP=4104.92,1805.33;SAR=1889,830;SRF=0;SRP=9.52472;SRR=3;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:159:2,73,83:2:72:73,83:2570,2945:-442.694,-234.102,-218.002,-203.35,0,-184.24 1/2:107:0,55,52:0:0:55,52:1926,1868:-309.43,-152.746,-136.189,-157.039,0,-141.385 1/2:159:0,78,81:0:0:78,81:2765,2883:-460.579,-235.324,-211.843,-225.61,0,-201.227 1/2:154:0,86,68:0:0:86,68:3014,2415:-442.385,-197.136,-171.248,-245.602,0,-225.132 1/2:261:0,118,142:0:0:118,142:4117,5023:-743.906,-409.114,-373.593,-334.783,0,-292.036 1/2:104:0,54,49:0:0:54,49:1922,1726:-297.24,-140.592,-124.336,-156.72,0,-141.97 1/1:243:1,240,0:1:36:240,0:8477,0:-759.295,-69.2948,0,-759.596,-72.2472,-762.533 1/2:163:0,85,78:0:0:85,78:2984,2768:-468.732,-225.88,-200.292,-243.205,0,-219.725 1/1:287:0,286,0:0:0:286,0:10072,0:-906.158,-86.0946,0,-906.158,-86.0946,-906.158 1/1:15:0,15,0:0:0:15,0:536,0:-48.575,-4.51545,0,-48.575,-4.51545,-48.575 1/1:12:0,11,0:0:0:11,0:388,0:-34.8981,-3.31133,0,-34.8981,-3.31133,-34.8981 1/1:36:0,36,0:0:0:36,0:1281,0:-115.589,-10.8371,0,-115.589,-10.8371,-115.589 1/1:153:0,153,0:0:0:153,0:5380,0:-484.318,-46.0576,0,-484.318,-46.0576,-484.318 1/1:162:0,161,0:0:0:161,0:5623,0:-505.909,-48.4658,0,-505.909,-48.4658,-505.909 1/2:200:0,92,108:0:0:92,108:3255,3855:-579.759,-314.635,-286.94,-265.48,0,-232.968 1/2:114:0,57,55:0:0:57,55:2012,1963:-323.941,-160.1,-142.942,-163.906,0,-147.35 1/2:90:0,46,44:0:0:46,44:1618,1567:-259.783,-128.076,-114.228,-132.061,0,-118.815 1/2:68:0,34,34:0:0:34,34:1179,1203:-194.121,-98.34,-88.105,-96.1315,0,-85.8965 1/2:82:0,53,29:0:0:53,29:1888,1022:-237.452,-83.561,-67.6064,-154.245,0,-145.515 1/1:104:0,97,7:0:0:97,7:3410,252:-306.756,-29.1999,0,-286.193,-8.27816,-284.086 1/1:59:0,59,0:0:0:59,0:2088,0:-188.191,-17.7608,0,-188.191,-17.7608,-188.191 chr09 20800937 . T A 38026.6 PASS AB=0.496992;ABP=3.14095;AC=30;AF=0.714286;AN=42;AO=1877;CIGAR=1X;DP=2721;DPB=2721;DPRA=0;EPP=4078.86;EPPR=1835.73;GTI=0;LEN=1;MEANALT=1;MQM=59.8812;MQMR=60;NS=21;NUMALT=1;ODDS=7.63246;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67054;QR=30019;RO=844;RPL=1877;RPP=4078.86;RPPR=1835.73;RPR=0;RUN=1;SAF=0;SAP=4078.86;SAR=1877;SRF=0;SRP=1835.73;SRR=844;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:83,73:83:2920:73:2568:-184.348,0,-216.07 0/1:111:56,55:56:1993:55:1948:-142.123,0,-146.228 0/1:159:81,78:81:2867:78:2807:-205.004,0,-210.4 0/1:156:71,85:71:2533:85:3037:-226.598,0,-181.259 0/1:262:145,117:145:5134:117:4196:-298.895,0,-383.332 0/1:102:49,53:49:1733:53:1876:-138.412,0,-125.548 1/1:243:1,242:1:36:242:8627:-772.62,-69.552,0 0/1:163:78,85:78:2785:85:3046:-225.299,0,-201.821 1/1:285:0,285:0:0:285:10183:-916.39,-85.7936,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:36:0,36:0:0:36:1296:-116.939,-10.8371,0 1/1:154:0,154:0:0:154:5502:-495.264,-46.3586,0 1/1:156:0,156:0:0:156:5563:-500.782,-46.9607,0 0/1:202:109,93:109:3890:93:3332:-239.289,0,-289.483 0/1:114:57,57:57:2048:57:2022:-147.932,0,-150.274 0/1:92:46,46:46:1644:46:1656:-121.634,0,-120.554 0/1:63:32,31:32:1140:31:1116:-81.5965,0,-83.9443 0/1:82:29,53:29:1044:53:1908:-147.313,0,-69.5903 1/1:102:7,95:7:252:95:3383:-281.656,-7.6761,0 1/1:57:0,57:0:0:57:2052:-184.951,-17.1587,0 chr09 20844112 . TCATG ACATC,TCATC 15591.8 PASS AB=0.510067,0.487696;ABP=3.40379,3.5981;AC=29,13;AF=0.690476,0.309524;AN=42;AO=528,219;CIGAR=1X3M1X,4M1X;DP=750;DPB=750;DPRA=0,1.04959;EPP=1149.55,478.563;EPPR=0;GTI=1;LEN=5,1;MEANALT=1.80952,2.07143;MQM=59.7557,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.28996;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18664,7833;QR=0;RO=0;RPL=0,0;RPP=1149.55,478.563;RPPR=0;RPR=528,219;RUN=1,1;SAF=0,0;SAP=1149.55,478.563;SAR=528,219;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:45:0,27,17:0:0:27,17:960,600:-127.144,-48.9089,-40.781,-78.2857,0,-73.1682 1/2:10:0,6,4:0:0:6,4:205,144:-28.7339,-12.1095,-10.3033,-16.9769,0,-15.7728 1/2:38:0,13,25:0:0:13,25:467,900:-111.892,-73.7953,-69.8819,-38.4558,0,-30.9301 1/2:39:0,12,27:0:0:12,27:431,960:-113.749,-78.5885,-74.9761,-35.5183,0,-27.3905 1/2:61:0,41,20:0:0:41,20:1453,720:-177.468,-59.1082,-46.7659,-118.718,0,-112.698 1/2:13:0,8,5:0:0:8,5:286,180:-38.3653,-15.0469,-12.6387,-23.6772,0,-22.1721 1/2:47:0,24,23:0:0:24,23:826,824:-134.599,-67.5596,-60.3349,-67.3902,0,-60.4665 1/2:75:0,28,47:0:0:28,47:992,1677:-217.878,-137.067,-128.638,-81.1661,0,-67.0177 1/1:73:0,71,0:0:0:71,0:2532,0:-227.772,-21.3731,0,-227.772,-21.3731,-227.772 1/1:4:0,4,0:0:0:4,0:143,0:-13.2214,-1.20412,0,-13.2214,-1.20412,-13.2214 1/1:6:0,6,0:0:0:6,0:213,0:-19.5163,-1.80618,0,-19.5163,-1.80618,-19.5163 1/1:18:0,18,0:0:0:18,0:626,0:-56.6611,-5.41854,0,-56.6611,-5.41854,-56.6611 1/1:87:0,87,0:0:0:87,0:3058,0:-275.444,-26.1896,0,-275.444,-26.1896,-275.444 1/1:45:0,45,0:0:0:45,0:1586,0:-143.025,-13.5464,0,-143.025,-13.5464,-143.025 1/2:66:0,36,30:0:0:36,30:1285,1076:-192.878,-88.122,-77.2849,-105.114,0,-96.0833 1/2:12:0,8,4:0:0:8,4:282,144:-35.0652,-12.1095,-9.70126,-23.3131,0,-22.1089 1/2:17:0,15,2:0:0:15,2:526,72:-49.0295,-6.23466,-1.71921,-43.1536,0,-42.5516 1/2:8:0,3,5:0:0:3,5:108,180:-23.8545,-15.0469,-14.1438,-9.16732,0,-7.66217 1/2:16:0,7,9:0:0:7,9:245,320:-46.3641,-26.4331,-24.3259,-20.2833,0,-17.574 1/1:61:0,60,1:0:0:60,1:2117,36:-190.433,-18.0618,0,-187.496,-14.7646,-187.194 1/1:9:0,9,0:0:0:9,0:323,0:-29.4068,-2.70927,0,-29.4068,-2.70927,-29.4068 chr09 20844297 . G A 43519.6 PASS AB=0.51988;ABP=12.1621;AC=29;AF=0.690476;AN=42;AO=2248;CIGAR=1X;DP=3536;DPB=3536;DPRA=0;EPP=4884.48;EPPR=2747.92;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.9867;MQMR=59.9922;NS=21;NUMALT=1;ODDS=5.95286;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80242;QR=45860;RO=1284;RPL=2248;RPP=4884.48;RPPR=2747.92;RPR=0;RUN=1;SAF=0;SAP=4884.48;SAR=2248;SRF=0;SRP=2791.18;SRR=1284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:81,75:81:2899:75:2688:-195.204,0,-214.185 0/1:122:54,68:54:1932:68:2431:-182.319,0,-137.431 0/1:217:95,122:95:3400:122:4344:-325.811,0,-240.891 0/1:202:113,88:113:4043:88:3131:-221.298,0,-303.339 0/1:263:123,140:123:4398:140:5016:-372.415,0,-316.821 0/1:288:149,139:149:5326:139:4946:-358.593,0,-392.763 0/1:285:134,151:134:4754:151:5370:-397.626,0,-342.228 0/1:299:142,157:142:5079:157:5594:-413.576,0,-367.246 1/1:212:2,210:2:72:210:7533:-671.171,-56.9816,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 1/1:40:0,40:0:0:40:1428:-128.818,-12.0412,0 1/1:221:0,218:0:0:218:7794:-701.21,-65.6245,0 1/1:223:1,222:1:36:222:7924:-709.586,-63.5314,0 0/1:240:115,125:115:4115:125:4457:-329.054,0,-298.287 0/1:144:75,69:75:2684:69:2459:-178.214,0,-198.457 0/1:268:127,141:127:4522:141:5029:-372.08,0,-326.473 0/1:108:45,63:45:1600:63:2252:-170.427,0,-111.779 0/1:74:26,48:26:928:48:1724:-133.169,0,-61.562 1/1:110:2,108:2:72:108:3835:-338.509,-26.2766,0 1/1:40:0,40:0:0:40:1431:-129.087,-12.0412,0 chr09 20890623 . A C 6739.67 PASS AB=0.321267;ABP=432.264;AC=13;AF=0.309524;AN=42;AO=498;CIGAR=1X;DP=1938;DPB=1938;DPRA=2.6875;EPP=1049.94;EPPR=3052.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9478;MQMR=60;NS=21;NUMALT=1;ODDS=21.2017;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17733;QR=51535;RO=1440;RPL=4;RPP=1049.94;RPPR=3052.25;RPR=494;RUN=1;SAF=498;SAP=1084.4;SAR=0;SRF=1440;SRP=3129.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:103,54:103:3673:54:1940:-127.614,0,-283.511 0/1:117:92,25:92:3292:25:883:-44.5669,0,-261.279 0/1:82:51,31:51:1820:31:1112:-75.7069,0,-139.397 0/1:57:37,20:37:1324:20:712:-47.2479,0,-102.303 0/1:284:196,88:196:7020:88:3108:-194.265,0,-546.37 0/1:87:59,28:59:2093:28:980:-62.3211,0,-162.449 0/1:155:100,55:100:3581:55:1955:-129.565,0,-275.835 0/1:78:45,33:45:1612:33:1188:-83.7483,0,-121.89 0/0:102:102,0:102:3652:0:0:0,-30.7051,-328.884 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 0/1:171:117,54:117:4180:54:1935:-122.95,0,-324.907 0/1:93:72,21:72:2568:21:749:-39.7394,0,-203.375 0/1:72:45,27:45:1616:27:968:-65.7632,0,-124.056 0/1:114:75,39:75:2696:39:1379:-90.0894,0,-208.566 0/1:80:58,22:58:2084:22:788:-47.1624,0,-163.748 0/0:87:86,1:86:3080:1:36:0,-22.5913,-273.83 0/0:57:57,0:57:2052:0:0:0,-17.1587,-184.951 chr09 20891596 . CTACAA TCACAA,TCACAG 28111.5 PASS AB=0.797337,0.193787;ABP=522.121,553.575;AC=31,11;AF=0.738095,0.261905;AN=42;AO=989,136;CIGAR=2X4M,2X3M1X;DP=1133;DPB=1133;DPRA=0,1.14976;EPP=22.0003,42.9271;EPPR=0;GTI=3;LEN=2,6;MEANALT=2,2.46154;MQM=41.4439,52;MQMR=0;NS=21;NUMALT=2;ODDS=0.982158;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34821,4768;QR=0;RO=0;RPL=0,0;RPP=2150.6,298.331;RPPR=0;RPR=989,136;RUN=1,1;SAF=541,93;SAP=22.0003,42.9271;SAR=448,43;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:53:0,45,8:0:0:45,8:1570,280:-140.182,-23.0217,-9.47534,-117.504,0,-115.096 1/2:22:0,18,4:0:0:18,4:614,144:-58.6172,-12.076,-6.65749,-46.8932,0,-45.6891 1/1:20:0,19,1:0:0:19,1:678,36:-57.5319,-5.71957,0,-54.6071,-2.43755,-54.3061 1/2:46:0,39,7:0:0:39,7:1325,249:-119.863,-20.5588,-8.81864,-99.6522,0,-97.545 1/1:42:0,38,4:0:0:38,4:1341,136:-111.621,-11.4391,0,-100.633,-0.112819,-99.4284 1/2:43:0,36,7:0:0:36,7:1280,252:-119.491,-20.8639,-10.0268,-98.9824,0,-96.8752 1/2:68:0,55,12:0:0:55,12:1954,413:-184.434,-33.5516,-16.995,-150.986,0,-147.373 1/2:75:0,59,14:0:0:59,14:2064,488:-202.324,-39.6854,-21.9246,-162.689,0,-158.474 1/1:101:0,101,0:0:0:101,0:3592,0:-315.96,-30.404,0,-315.96,-30.404,-315.96 1/1:7:0,7,0:0:0:7,0:252,0:-22.6159,-2.10721,0,-22.6159,-2.10721,-22.6159 1/1:5:0,5,0:0:0:5,0:180,0:-15.7685,-1.50515,0,-15.7685,-1.50515,-15.7685 1/1:18:0,18,0:0:0:18,0:646,0:-57.134,-5.41854,0,-57.134,-5.41854,-57.134 1/1:59:0,59,0:0:0:59,0:2095,0:-178.614,-17.7608,0,-178.614,-17.7608,-178.614 1/1:46:0,46,0:0:0:46,0:1607,0:-136.21,-13.8474,0,-136.21,-13.8474,-136.21 1/2:46:0,39,7:0:0:39,7:1388,247:-123.951,-20.3734,-8.63328,-103.925,0,-101.818 1/2:30:0,23,6:0:0:23,6:803,209:-80.0024,-17.0567,-10.133,-63.0268,0,-61.2206 1/2:24:0,16,7:0:0:16,7:571,251:-65.148,-20.4394,-15.6229,-44.7032,0,-42.596 1/2:135:0,103,32:0:0:103,32:3618,1107:-373.14,-89.8008,-58.7947,-283.682,0,-274.049 1/2:134:0,106,27:0:0:106,27:3742,956:-370.615,-77.6402,-45.7311,-293.111,0,-284.983 1/1:41:0,40,0:0:0:40,0:1419,0:-124.099,-12.0412,0,-124.099,-12.0412,-124.099 1/1:118:0,117,0:0:0:117,0:4082,0:-350.488,-35.2205,0,-350.488,-35.2205,-350.488 chr09 20891610 . G A 5086.26 PASS AB=0.267375;ABP=489.965;AC=19;AF=0.452381;AN=42;AO=283;CIGAR=1X;DP=1124;DPB=1124;DPRA=0;EPP=78.2138;EPPR=373.893;GTI=5;LEN=1;MEANALT=1;MQM=51.1131;MQMR=39.9013;NS=21;NUMALT=1;ODDS=0.041115;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10132;QR=30046;RO=841;RPL=140;RPP=3.07936;RPPR=176.214;RPR=143;RUN=1;SAF=192;SAP=81.2831;SAR=91;SRF=442;SRP=7.78444;SRR=399;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:45,7:45:1593:7:252:-6.90158,0,-116.539 0/1:22:20,2:20:705:2:72:-0.196874,0,-51.7643 0/1:20:14,6:14:504:6:216:-13.6862,0,-36.1347 0/1:45:38,7:38:1364:7:248:-8.50935,0,-98.8405 0/0:42:39,3:39:1377:3:108:0,-2.87581,-105.116 0/1:43:36,7:36:1296:7:252:-9.84243,0,-98.1886 0/1:69:61,8:61:2161:8:288:-5.42466,0,-164.282 0/1:74:57,17:57:2052:17:608:-32.6964,0,-156.328 0/1:101:51,50:51:1824:50:1796:-130.939,0,-125.487 0/1:7:3,4:3:108:4:144:-11.1875,0,-7.56536 0/1:5:3,2:3:108:2:72:-5.12284,0,-7.98013 0/1:17:10,7:10:347:7:252:-17.8788,0,-25.3228 0/1:59:36,23:36:1268:23:828:-56.131,0,-87.5551 0/1:46:28,18:28:1000:18:644:-42.6408,0,-67.855 0/0:46:43,3:43:1540:3:108:0,-3.81484,-118.556 0/1:29:24,5:24:864:5:169:-6.7806,0,-66.3355 0/1:24:20,4:20:720:4:144:-5.99105,0,-55.9916 0/1:133:109,24:109:3901:24:856:-36.7174,0,-297.552 0/1:132:91,41:91:3276:41:1463:-91.6607,0,-242.27 0/1:41:26,15:26:923:15:532:-35.6813,0,-66.9564 0/1:117:87,30:87:3115:30:1080:-61.5646,0,-222.786 chr09 20891619 . AT TC,AC 26750.3 PASS AB=0.633036,0.366964;ABP=175.185,175.185;AC=21,21;AF=0.5,0.5;AN=42;AO=709,411;CIGAR=2X,1M1X;DP=1120;DPB=1120;DPRA=0,0;EPP=3.03786,108.049;EPPR=0;GTI=0;LEN=2,1;MEANALT=2,2;MQM=37.4965,51.3796;MQMR=0;NS=21;NUMALT=2;ODDS=16.9824;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25018,14627;QR=0;RO=0;RPL=709,411;RPP=1542.58,895.485;RPPR=0;RPR=0,0;RUN=1,1;SAF=353,276;SAP=3.03786,108.049;SAR=356,135;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,38,13:0:0:38,13:1351,462:-135.148,-37.6906,-26.2515,-97.8008,0,-93.8874 1/2:22:0,16,6:0:0:16,6:569,216:-59.2903,-17.9346,-13.1181,-41.7042,0,-39.898 1/2:20:0,13,7:0:0:13,7:450,252:-54.3491,-20.8243,-16.9109,-33.8698,0,-31.7626 1/2:45:0,31,14:0:0:31,14:1093,491:-118.793,-39.8451,-30.5132,-79.2855,0,-75.0711 1/2:42:0,35,7:0:0:35,7:1239,248:-111.811,-20.2082,-9.67212,-91.9476,0,-89.8404 1/2:42:0,29,13:0:0:29,13:1033,460:-116.26,-37.6407,-28.9108,-78.9657,0,-75.0523 1/2:69:0,48,21:0:0:48,21:1682,739:-188.068,-60.3297,-45.8802,-128.082,0,-121.761 1/2:74:0,44,30:0:0:44,30:1504,1067:-203.78,-87.1753,-73.9299,-116.949,0,-107.918 1/2:99:0,50,49:0:0:50,49:1796,1760:-282.135,-143.359,-128.307,-139.126,0,-124.376 1/2:7:0,3,4:0:0:3,4:108,144:-20.5087,-12.0906,-11.1875,-8.76948,0,-7.56536 1/2:5:0,3,2:0:0:3,2:108,68:-14.0012,-5.7553,-4.85221,-8.58219,0,-7.98013 1/2:18:0,10,8:0:0:10,8:356,288:-51.6194,-23.8219,-20.8116,-28.1493,0,-25.7411 1/2:58:0,36,22:0:0:36,22:1239,779:-155.184,-62.9036,-52.0665,-92.6175,0,-85.9949 1/2:45:0,28,17:0:0:28,17:982,595:-118.527,-47.086,-38.6572,-71.7712,0,-66.6537 1/2:45:0,36,9:0:0:36,9:1279,320:-120.638,-26.3017,-15.4646,-94.6839,0,-91.9747 1/2:30:0,19,11:0:0:19,11:680,396:-84.2666,-32.4943,-26.7748,-52.1224,0,-48.8111 1/2:24:0,13,11:0:0:13,11:468,392:-68.4935,-32.1829,-28.2695,-36.6605,0,-33.3492 1/2:133:0,78,55:0:0:78,55:2763,1955:-371.194,-158.555,-135.075,-212.986,0,-196.429 1/2:132:0,65,67:0:0:65,67:2308,2387:-370.019,-193.419,-173.852,-176.944,0,-156.775 1/2:41:0,26,15:0:0:26,15:925,540:-115.784,-44.226,-36.3992,-71.9096,0,-67.3941 1/2:118:0,88,30:0:0:88,30:3085,1068:-317.985,-86.6877,-60.197,-231.643,0,-222.612 chr09 20891633 . CGGA GGGT,GGGA 26102.6 PASS AB=0.632579,0.365611;ABP=171.715,176.353;AC=21,21;AF=0.5,0.5;AN=42;AO=699,404;CIGAR=1X2M1X,1X3M;DP=1105;DPB=1106.5;DPRA=0,0;EPP=3.38619,102.425;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.09524,2.09524;MQM=37.5207,51.5074;MQMR=0;NS=21;NUMALT=2;ODDS=16.3765;PAIRED=0,0;PAIREDR=0;PAO=3,3;PQA=52,52;PQR=0;PRO=0;QA=24465,14245;QR=0;RO=0;RPL=699,404;RPP=1520.87,880.285;RPPR=0;RPR=0,0;RUN=1,1;SAF=344,270;SAP=3.38619,102.425;SAR=355,134;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:52:0,38,14:0:0:38,14:1338,483:-136.106,-39.3446,-27.9054,-97.0975,0,-92.883 1/2:21:0,15,6:0:0:15,6:527,197:-54.4945,-16.1582,-11.6428,-38.6119,0,-36.8057 1/2:20:0,13,7:0:0:13,7:465,244:-54.6418,-20.1114,-16.198,-34.8711,0,-32.7639 1/2:46:0,31,15:0:0:31,15:1102,536:-122.495,-43.3593,-34.0274,-79.4763,0,-74.9608 1/2:40:0,34,6:0:0:34,6:1187,216:-105.459,-17.5901,-7.35508,-88.1681,0,-86.3619 1/2:43:0,29,14:0:0:29,14:1028,500:-119.2,-40.8289,-32.099,-78.7185,0,-74.5041 1/2:69:0,48,21:0:0:48,21:1686,731:-187.799,-59.5573,-45.1078,-128.584,0,-122.262 1/2:74:0,44,30:0:0:44,30:1512,1056:-203.842,-86.1947,-72.9494,-117.99,0,-108.96 1/2:99:0,51,48:0:0:51,48:1774,1712:-276.564,-139.355,-124.002,-137.554,0,-123.104 1/2:7:0,3,4:0:0:3,4:107,140:-20.0793,-11.7244,-10.8213,-8.70061,0,-7.49649 1/2:5:0,3,2:0:0:3,2:107,64:-13.6258,-5.42844,-4.52535,-8.52247,0,-7.92041 1/2:17:0,10,7:0:0:10,7:338,252:-47.2958,-20.8891,-17.8788,-26.7527,0,-24.6455 1/2:55:0,35,20:0:0:35,20:1219,711:-148.228,-57.3657,-46.8296,-91.1457,0,-85.1251 1/2:42:0,26,16:0:0:26,16:926,557:-111.885,-44.5777,-36.7509,-67.6402,0,-62.8238 1/2:45:0,35,10:0:0:35,10:1233,347:-119.393,-28.4332,-17.8971,-91.3002,0,-88.2899 1/2:30:0,18,11:0:0:18,11:630,392:-79.7794,-31.9041,-26.4856,-47.9194,0,-44.6081 1/2:23:0,13,10:0:0:13,10:458,360:-65.2848,-29.6922,-25.7788,-35.9425,0,-32.9322 1/2:132:0,79,53:0:0:79,53:2737,1862:-361.75,-150.895,-127.114,-211.196,0,-195.242 1/2:130:0,63,67:0:0:63,67:2238,2365:-363.142,-192.16,-173.195,-171.325,0,-151.156 1/2:39:0,25,14:0:0:25,14:873,500:-108.722,-40.9339,-33.4082,-68.1364,0,-63.922 1/2:116:0,86,29:0:0:86,29:2980,1020:-306.989,-82.6931,-56.8046,-224.425,0,-215.696 chr09 20956774 . C T 18406.3 PASS AB=0.538928;ABP=29.046;AC=13;AF=0.309524;AN=42;AO=1068;CIGAR=1X;DP=2694;DPB=2694;DPRA=1.71182;EPP=2322.14;EPPR=3522.97;GTI=2;LEN=1;MEANALT=1.07143;MQM=59.9391;MQMR=59.9809;NS=21;NUMALT=1;ODDS=6.16758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38160;QR=57743;RO=1625;RPL=0;RPP=2322.14;RPPR=3514.3;RPR=1068;RUN=1;SAF=0;SAP=2322.14;SAR=1068;SRF=1;SRP=3522.97;SRR=1624;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:191:71,120:71:2518:120:4278:-327.699,0,-169.375 0/1:92:38,54:38:1360:54:1936:-146.813,0,-95.0058 0/1:110:65,45:65:2310:45:1612:-112.257,0,-175.047 0/1:191:85,106:85:3032:106:3790:-283.801,0,-215.614 0/1:229:108,121:108:3841:121:4294:-317.629,0,-276.951 0/1:163:65,98:65:2310:98:3500:-266.142,0,-159.092 0/1:233:85,148:85:3028:148:5302:-407.164,0,-202.612 0/1:143:90,53:90:3228:53:1904:-128.59,0,-247.694 0/0:246:246,0:246:8713:0:0:0,-74.0534,-784.17 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/0:175:175,0:175:6247:0:0:0,-52.6802,-562.327 0/0:86:86,0:86:3049:0:0:0,-25.8886,-274.64 0/1:259:132,127:132:4691:127:4553:-331.968,0,-344.16 0/1:103:43,60:43:1513:60:2133:-161.231,0,-105.454 0/1:94:30,64:30:1072:64:2283:-177.435,0,-68.4956 0/1:105:57,48:57:1994:48:1715:-123.027,0,-148.12 0/1:65:43,22:43:1511:22:788:-51.6778,0,-116.713 0/0:107:104,2:104:3709:2:72:0,-25.4323,-327.174 0/0:56:56,0:56:1969:0:0:0,-16.8577,-177.481 chr09 20956795 . T C 18437.6 PASS AB=0.536672;ABP=26.1035;AC=13;AF=0.309524;AN=42;AO=1063;CIGAR=1X;DP=2703;DPB=2703;DPRA=1.70114;EPP=2302.61;EPPR=3529.57;GTI=2;LEN=1;MEANALT=1;MQM=59.9407;MQMR=59.9811;NS=21;NUMALT=1;ODDS=5.2771;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38069;QR=58818;RO=1640;RPL=1062;RPP=2302.61;RPPR=3529.57;RPR=1;RUN=1;SAF=0;SAP=2311.29;SAR=1063;SRF=0;SRP=3564.23;SRR=1640;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:190:74,116:74:2649:116:4148:-316.307,0,-181.459 0/1:92:39,53:39:1404:53:1892:-142.855,0,-98.9645 0/1:109:64,45:64:2289:45:1620:-113.278,0,-173.457 0/1:192:85,107:85:3056:107:3831:-287.188,0,-217.471 0/1:231:111,120:111:3984:120:4290:-316.51,0,-289.211 0/1:163:65,98:65:2332:98:3499:-266.053,0,-161.072 0/1:235:86,149:86:3088:149:5317:-407.909,0,-207.405 0/1:146:91,55:91:3272:55:1972:-133.804,0,-250.749 0/0:250:250,0:250:8973:0:0:0,-75.2575,-807.545 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/0:175:175,0:175:6262:0:0:0,-52.6802,-563.671 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.624 0/1:257:131,126:131:4665:126:4532:-330.68,0,-342.635 0/1:100:41,59:41:1472:59:2124:-161.323,0,-102.672 0/1:91:29,62:29:1040:62:2228:-173.39,0,-66.5206 0/1:104:57,47:57:2052:47:1680:-120.179,0,-153.64 0/1:67:43,24:43:1540:24:864:-57.9136,0,-118.724 0/0:112:110,2:110:3952:2:72:0,-26.8786,-349.033 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.993 chr09 20975082 . T C 36858.1 PASS AB=0.442551;ABP=68.6279;AC=29;AF=0.690476;AN=42;AO=1912;CIGAR=1X;DP=3191;DPB=3191;DPRA=0;EPP=4154.87;EPPR=2778.15;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.5518;MQMR=59.8545;NS=21;NUMALT=1;ODDS=5.29755;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68246;QR=45705;RO=1278;RPL=0;RPP=4154.87;RPPR=2769.47;RPR=1912;RUN=1;SAF=0;SAP=4154.87;SAR=1912;SRF=1;SRP=2769.47;SRR=1277;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:154:99,55:99:3552:55:1968:-130.96,0,-273.529 0/1:84:48,36:48:1720:36:1279:-90.1178,0,-129.799 0/1:189:99,90:99:3537:90:3219:-233.025,0,-261.643 0/1:275:167,108:167:5988:108:3864:-265.152,0,-456.197 0/1:363:208,155:208:7430:155:5524:-387.791,0,-559.442 0/1:198:130,68:130:4653:68:2424:-158.74,0,-359.326 0/1:223:111,112:111:3996:112:4004:-293.344,0,-292.698 0/1:174:101,73:101:3616:73:2611:-182.717,0,-273.266 1/1:219:0,219:0:0:219:7806:-702.236,-65.9256,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:15:0,15:0:0:15:540:-48.9365,-4.51545,0 1/1:27:0,27:0:0:27:972:-87.7933,-8.12781,0 1/1:234:1,233:1:36:233:8325:-745.294,-66.8427,0 1/1:159:0,159:0:0:159:5681:-511.255,-47.8638,0 0/1:205:118,87:118:4217:87:3068:-214.607,0,-316.519 0/1:105:52,53:52:1860:53:1908:-140.38,0,-136.071 0/1:134:74,59:74:2645:59:2105:-149.288,0,-197.528 0/1:73:35,38:35:1233:38:1340:-98.9129,0,-89.2106 0/1:112:33,79:33:1150:79:2819:-220.213,0,-70.0866 1/1:167:2,165:2:72:165:5903:-524.374,-43.4353,0 1/1:74:0,74:0:0:74:2638:-237.62,-22.2762,0 chr09 21175972 . C G 27422.9 PASS AB=0.457845;ABP=29.3731;AC=29;AF=0.690476;AN=42;AO=1440;CIGAR=1X;DP=2367;DPB=2367;DPRA=0;EPP=3129.93;EPPR=2009.45;GTI=2;LEN=1;MEANALT=1.14286;MQM=59.9903;MQMR=59.9978;NS=21;NUMALT=1;ODDS=1.64332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50936;QR=32852;RO=924;RPL=0;RPP=3129.93;RPPR=2009.45;RPR=1440;RUN=1;SAF=0;SAP=3129.93;SAR=1440;SRF=0;SRP=2009.45;SRR=924;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:96,55:96:3393:55:1946:-129.959,0,-260.129 0/1:75:42,33:42:1485:33:1171:-83.1194,0,-111.365 0/1:143:72,71:72:2564:71:2502:-182.383,0,-187.963 0/1:65:48,17:48:1720:17:599:-34.6574,0,-135.519 0/1:182:119,62:119:4241:62:2175:-141.317,0,-327.172 0/1:98:51,46:51:1824:46:1630:-117.428,0,-134.881 0/1:175:90,85:90:3189:85:2985:-216.202,0,-234.554 0/1:149:73,76:73:2601:76:2687:-197.22,0,-189.484 1/1:206:0,206:0:0:206:7345:-661.099,-62.0122,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:4:0,4:0:0:4:131:-12.1135,-1.20412,0 1/1:40:0,40:0:0:40:1401:-126.385,-12.0412,0 1/1:119:0,119:0:0:119:4225:-380.43,-35.8226,0 1/1:161:0,161:0:0:161:5637:-507.455,-48.4658,0 0/1:240:121,119:121:4298:119:4209:-306.743,0,-314.749 0/1:109:56,52:56:1985:52:1857:-134.684,0,-146.198 0/1:107:61,46:61:2192:46:1610:-112.974,0,-165.335 0/1:129:62,67:62:2176:67:2393:-176.793,0,-157.272 0/1:85:32,53:32:1148:53:1888:-144.61,0,-78.0423 1/1:64:1,63:1:36:63:2226:-197.003,-15.6676,0 1/1:55:0,55:0:0:55:1959:-176.585,-16.5567,0 chr09 21181648 . T C 20651.3 PASS AB=0.619198;ABP=120.004;AC=29;AF=0.690476;AN=42;AO=977;CIGAR=1X;DP=1338;DPB=1338;DPRA=0;EPP=2124.54;EPPR=784.74;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.999;MQMR=59.9972;NS=21;NUMALT=1;ODDS=2.4361;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34864;QR=12816;RO=360;RPL=28;RPP=1888.3;RPPR=784.74;RPR=949;RUN=1;SAF=28;SAP=1888.3;SAR=949;SRF=0;SRP=784.74;SRR=360;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:19,47:19:684:47:1675:-131.168,0,-42.0223 0/1:50:14,36:14:504:36:1296:-101.892,0,-30.6466 0/1:25:12,13:12:432:13:468:-34.9339,0,-31.6954 0/1:80:20,60:20:720:60:2130:-167.885,0,-41.0464 0/1:133:40,93:40:1436:93:3319:-258.891,0,-89.5007 0/1:54:13,41:13:468:41:1476:-116.881,0,-26.204 0/1:84:28,56:28:993:56:1974:-152.645,0,-64.396 0/1:46:6,40:6:216:40:1436:-115.69,0,-5.94313 1/1:97:0,97:0:0:97:3488:-314.13,-29.1999,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:75:0,75:0:0:75:2674:-240.904,-22.5773,0 1/1:57:0,57:0:0:57:2027:-182.702,-17.1587,0 0/1:71:11,60:11:384:60:2128:-170.413,0,-13.5215 0/1:46:9,36:9:290:36:1283:-101.867,0,-12.5097 0/1:67:17,50:17:593:50:1787:-140.943,0,-33.5257 0/1:201:168,33:168:5988:33:1167:-44.8294,0,-478.522 0/1:25:3,22:3:108:22:781:-63.0864,0,-2.54942 1/1:70:0,70:0:0:70:2504:-225.613,-21.0721,0 1/1:41:0,41:0:0:41:1455:-131.245,-12.3422,0 chr09 21181655 . T A 5377.04 PASS AB=0.38349;ABP=115.847;AC=13;AF=0.309524;AN=42;AO=367;CIGAR=1X;DP=1352;DPB=1352;DPRA=1.49094;EPP=799.941;EPPR=2131.06;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.9973;MQMR=59.999;NS=21;NUMALT=1;ODDS=2.74379;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13055;QR=35228;RO=984;RPL=0;RPP=799.941;RPPR=1911.66;RPR=367;RUN=1;SAF=0;SAP=799.941;SAR=367;SRF=26;SRP=1919.87;SRR=958;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:49,18:49:1760:18:648:-38.4829,0,-138.515 0/1:51:37,14:37:1328:14:500:-29.9836,0,-104.47 0/1:23:13,10:13:460:10:360:-25.8206,0,-34.8117 0/1:84:61,23:61:2188:23:819:-48.745,0,-171.899 0/1:133:92,41:92:3312:41:1459:-91.5683,0,-258.26 0/1:53:40,13:40:1436:13:468:-26.5051,0,-113.583 0/1:84:54,30:54:1940:30:1071:-71.4151,0,-149.59 0/1:49:41,8:41:1449:8:288:-11.5169,0,-115.953 0/0:97:97,0:97:3480:0:0:0,-29.1999,-313.411 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:22:22,0:22:784:0:0:0,-6.62266,-70.8839 0/0:76:76,0:76:2716:0:0:0,-22.8783,-244.684 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/1:73:60,13:60:2140:13:457:-19.4874,0,-170.893 0/1:46:37,9:37:1319:9:309:-14.2933,0,-105.164 0/1:67:50,17:50:1784:17:604:-34.521,0,-140.674 0/1:200:32,167:32:1152:167:5928:-473.366,0,-43.7253 0/1:27:23,4:23:816:4:144:-5.18581,0,-65.6339 0/0:69:69,0:69:2468:0:0:0,-20.7711,-222.374 0/0:43:43,0:43:1536:0:0:0,-12.9443,-138.533 chr09 21365550 . C T 8131.43 PASS AB=0.46736;ABP=12.7912;AC=12;AF=0.285714;AN=42;AO=496;CIGAR=1X;DP=1716;DPB=1716;DPRA=1.40667;EPP=1080.06;EPPR=2652.21;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.88172;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17781;QR=43746;RO=1220;RPL=0;RPP=1080.06;RPPR=2652.21;RPR=496;RUN=1;SAF=496;SAP=1080.06;SAR=0;SRF=1220;SRP=2652.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:42,39:42:1500:39:1404:-102.276,0,-110.911 0/1:50:30,20:30:1076:20:720:-50.0773,0,-82.1014 0/1:64:29,35:29:1044:35:1260:-94.4396,0,-75.0089 0/0:109:109,0:109:3912:0:0:0,-32.8123,-352.272 0/1:146:86,60:86:3076:60:2145:-149.365,0,-233.118 0/1:57:18,39:18:644:39:1400:-109.14,0,-41.1319 0/1:123:73,50:73:2620:50:1790:-124.356,0,-199.021 0/1:108:58,50:58:2080:50:1796:-129.411,0,-154.959 0/0:145:145,0:145:5180:0:0:0,-43.6493,-466.341 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:87:87,0:87:3120:0:0:0,-26.1896,-281.026 0/0:113:112,1:112:4016:1:36:0,-30.4181,-358.03 0/1:186:92,94:92:3304:94:3365:-247.073,0,-241.586 0/1:49:24,25:24:864:25:896:-66.2099,0,-63.3321 0/1:73:37,36:37:1323:36:1296:-94.9687,0,-97.3961 0/1:69:39,30:39:1404:30:1061:-75.0283,0,-105.888 0/1:51:35,16:35:1251:16:576:-36.8225,0,-97.5417 0/0:96:95,1:95:3416:1:36:0,-25.3006,-304.055 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.83 chr09 21382756 . C T 6919.2 PASS AB=0.503582;ABP=3.11921;AC=12;AF=0.285714;AN=42;AO=494;CIGAR=1X;DP=1459;DPB=1459;DPRA=1.79818;EPP=1075.72;EPPR=2098.48;GTI=0;LEN=1;MEANALT=1;MQM=36.3117;MQMR=50.3575;NS=21;NUMALT=1;ODDS=3.55579;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17618;QR=34578;RO=965;RPL=0;RPP=1075.72;RPPR=2098.48;RPR=494;RUN=1;SAF=494;SAP=1075.72;SAR=0;SRF=965;SRP=2098.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:41,48:41:1460:48:1713:-115.523,0,-104.276 0/1:38:22,16:22:784:16:572:-34.9756,0,-58.3141 0/1:79:31,48:31:1108:48:1728:-119.632,0,-75.8941 0/0:57:57,0:57:2040:0:0:0,-17.1587,-182.847 0/1:146:77,69:77:2760:69:2427:-155.625,0,-202.856 0/1:57:24,33:24:860:33:1173:-79.1185,0,-59.7203 0/1:114:55,59:55:1980:59:2103:-135.003,0,-142.783 0/1:62:34,28:34:1224:28:1008:-65.8164,0,-90.4043 0/0:110:108,2:108:3876:2:72:0,-26.6769,-340.372 0/0:21:21,0:21:752:0:0:0,-6.32163,-67.8298 0/0:11:11,0:11:381:0:0:0,-3.31133,-34.3935 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.0549 0/0:69:69,0:69:2480:0:0:0,-20.7711,-222.286 0/0:99:99,0:99:3552:0:0:0,-29.802,-318.317 0/1:125:66,59:66:2368:59:2116:-139.322,0,-174.37 0/1:62:31,31:31:1112:31:1116:-75.1394,0,-81.0811 0/1:45:20,25:20:712:25:896:-62.2375,0,-50.7025 0/1:84:35,49:35:1248:49:1737:-120.144,0,-86.625 0/1:76:49,27:49:1764:27:957:-57.6118,0,-135.517 0/0:52:52,0:52:1857:0:0:0,-15.6536,-166.666 0/0:38:38,0:38:1360:0:0:0,-11.4391,-121.358 chr09 21382772 . CCG CTA,ACA 28854.5 PASS AB=0.49445,0.503532;ABP=3.27543,3.11767;AC=30,12;AF=0.714286,0.285714;AN=42;AO=975,501;CIGAR=1M2X,1X1M1X;DP=1480;DPB=1480;DPRA=0,1.7877;EPP=2111.52,1090.92;EPPR=5.18177;GTI=0;LEN=2,3;MEANALT=1.7619,2.07692;MQM=50.2985,36.3034;MQMR=60;NS=21;NUMALT=2;ODDS=4.02766;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34234,17806;QR=36;RO=1;RPL=0,0;RPP=2120.2,1090.92;RPPR=5.18177;RPR=975,501;RUN=1,1;SAF=974,501;SAP=2111.52,1090.92;SAR=1,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:89:0,41,48:0:0:41,48:1415,1711:-242.436,-128.068,-115.725,-114.705,0,-100.256 1/2:39:0,23,16:0:0:23,16:804,553:-104.832,-40.4103,-33.4866,-64.7474,0,-59.9309 1/2:80:0,32,48:0:0:32,48:1103,1709:-217.933,-128.646,-119.013,-89.6253,0,-75.1759 1/1:59:0,59,0:0:0:59,0:2093,0:-187.881,-17.7608,0,-187.881,-17.7608,-187.881 1/2:148:0,78,70:0:0:78,70:2748,2495:-404.977,-182.661,-159.181,-222.651,0,-201.579 1/2:59:0,26,33:0:0:26,33:920,1172:-159.921,-86.0335,-78.2067,-74.225,0,-64.2911 1/2:117:1,54,62:1:36:54,62:1909,2198:-308.88,-154.977,-141.659,-151.242,0,-135.516 1/2:62:0,34,28:0:0:34,28:1212,998:-172.797,-75.3629,-65.1279,-97.7743,0,-89.3455 1/1:110:0,108,2:0:0:108,2:3788,72:-338.863,-32.5112,0,-333.367,-26.6769,-332.765 1/1:22:0,22,0:0:0:22,0:778,0:-70.1687,-6.62266,0,-70.1687,-6.62266,-70.1687 1/1:12:0,12,0:0:0:12,0:408,0:-36.8469,-3.61236,0,-36.8469,-3.61236,-36.8469 1/1:25:0,25,0:0:0:25,0:862,0:-77.7163,-7.52575,0,-77.7163,-7.52575,-77.7163 1/1:70:0,69,0:0:0:69,0:2402,0:-215.392,-20.7711,0,-215.392,-20.7711,-215.392 1/1:98:0,98,0:0:0:98,0:3464,0:-310.726,-29.5009,0,-310.726,-29.5009,-310.726 1/2:126:0,67,59:0:0:67,59:2355,2102:-348.585,-158.319,-138.15,-190.605,0,-172.845 1/2:62:0,31,31:0:0:31,31:1083,1106:-171.396,-83.7831,-74.4511,-87.9529,0,-78.621 1/2:45:0,20,25:0:0:20,25:703,878:-124.328,-67.2533,-61.2327,-57.4161,0,-49.8904 1/2:86:0,35,51:0:0:35,51:1218,1812:-234.696,-136.256,-125.72,-98.7794,0,-83.4269 1/2:78:0,49,28:0:0:49,28:1736,1000:-216.115,-75.245,-60.4945,-140.851,0,-132.422 1/1:53:0,53,0:0:0:53,0:1872,0:-167.898,-15.9546,0,-167.898,-15.9546,-167.898 1/1:40:0,39,0:0:0:39,0:1361,0:-121.429,-11.7402,0,-121.429,-11.7402,-121.429 chr09 21382853 . ATCC GTCT,GTCC 60235.7 PASS AB=0.453071,0.539397;ABP=36.0278,26.28;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1988,936;CIGAR=1X2M1X,1X3M;DP=2947;DPB=2947;DPRA=0,1.71154;EPP=4302.54,2035.51;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.66667,2.875;MQM=59.5699,59.9957;MQMR=0;NS=21;NUMALT=2;ODDS=1.01889;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68791,33417;QR=0;RO=0;RPL=2,1;RPP=4302.54,2026.83;RPPR=0;RPR=1986,935;RUN=1,1;SAF=0,1;SAP=4319.9,2026.83;SAR=1988,935;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:203:0,76,125:0:0:76,125:2641,4458:-578.145,-363.456,-340.578,-214.733,0,-177.104 1/2:143:0,81,61:0:0:81,61:2801,2188:-406.052,-178.463,-154.08,-227.582,0,-209.219 1/2:147:0,79,66:0:0:79,66:2734,2359:-414.55,-192.393,-168.612,-222.202,0,-202.334 1/1:225:0,224,1:0:0:224,1:7741,36:-696.336,-67.4307,0,-693.399,-64.1335,-693.098 1/2:225:0,100,124:0:0:100,124:3420,4422:-638.022,-360.465,-330.362,-277.546,0,-240.219 1/2:179:0,71,105:0:0:71,105:2475,3749:-507.023,-305.749,-284.376,-201.372,0,-169.764 1/2:165:0,62,101:0:0:62,101:2143,3598:-467.389,-293.297,-274.633,-174.116,0,-143.712 1/2:134:0,62,71:0:0:62,71:2126,2535:-379.261,-206.668,-188.004,-172.583,0,-151.21 1/1:219:0,217,1:0:0:217,1:7517,36:-676.223,-65.3235,0,-673.285,-62.3561,-672.984 1/1:8:0,8,0:0:0:8,0:273,0:-24.9015,-2.40824,0,-24.9015,-2.40824,-24.9015 1/1:18:0,18,0:0:0:18,0:618,0:-55.9306,-5.41854,0,-55.9306,-5.41854,-55.9306 1/1:26:0,26,0:0:0:26,0:904,0:-81.6509,-7.82678,0,-81.6509,-7.82678,-81.6509 1/1:369:0,363,0:0:0:363,0:12539,0:-1127.81,-109.274,0,-1127.81,-109.274,-1127.81 1/1:169:0,168,1:0:0:168,1:5801,36:-521.762,-50.573,0,-518.824,-47.2758,-518.523 1/2:207:0,97,109:0:0:97,109:3362,3904:-591.131,-318.381,-289.181,-272.741,0,-239.929 1/2:93:0,38,55:0:0:38,55:1326,1976:-269.405,-161.558,-150.119,-108.2,0,-91.6437 1/2:117:0,43,74:0:0:43,74:1489,2646:-337.114,-216.11,-203.166,-121.354,0,-99.0779 1/2:52:0,35,17:0:0:35,17:1231,593:-148.648,-48.5772,-38.0412,-100.421,0,-95.303 1/2:61:0,38,23:0:0:38,23:1338,809:-175.121,-66.2046,-54.7655,-109.269,0,-102.345 1/1:153:0,148,2:0:0:148,2:5132,72:-461.612,-44.5524,0,-455.737,-38.6695,-455.135 1/1:34:0,34,0:0:0:34,0:1180,0:-106.311,-10.235,0,-106.311,-10.235,-106.311 chr09 21382878 . T G 40194.3 PASS AB=0.4518;ABP=37.7589;AC=30;AF=0.714286;AN=42;AO=1975;CIGAR=1X;DP=2925;DPB=2925;DPRA=0;EPP=4291.67;EPPR=2063.74;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.5747;MQMR=59.98;NS=21;NUMALT=1;ODDS=0.382344;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70637;QR=33929;RO=949;RPL=1975;RPP=4291.67;RPPR=2063.74;RPR=0;RUN=1;SAF=0;SAP=4291.67;SAR=1975;SRF=0;SRP=2063.74;SRR=949;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:201:125,76:125:4492:76:2715:-184.062,0,-343.94 0/1:141:61,80:61:2166:80:2839:-213.297,0,-152.758 0/1:148:68,80:68:2429:80:2865:-213.517,0,-174.311 1/1:223:1,222:1:36:222:7939:-710.861,-63.5314,0 0/1:225:125,99:125:4472:99:3518:-249.021,0,-334.86 0/1:179:107,72:107:3814:72:2592:-179.528,0,-289.571 0/1:166:102,64:102:3664:64:2293:-156.62,0,-279.992 0/1:135:74,61:74:2645:61:2184:-156.187,0,-197.656 1/1:219:1,218:1:36:218:7793:-697.782,-62.3273,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 1/1:18:0,18:0:0:18:648:-58.6403,-5.41854,0 1/1:24:0,24:0:0:24:864:-78.0601,-7.22472,0 1/1:363:0,363:0:0:363:12986:-1168.4,-109.274,0 1/1:164:1,163:1:36:163:5852:-523.067,-45.7706,0 0/1:208:112,96:112:3986:96:3429:-246.024,0,-296.314 0/1:92:54,38:54:1925:38:1345:-93.6534,0,-145.83 0/1:117:76,41:76:2724:41:1476:-97.9138,0,-210.182 0/1:51:17,34:17:608:34:1208:-93.6671,0,-39.6995 0/1:59:22,37:22:788:37:1319:-101.241,0,-53.484 1/1:150:3,147:3:108:147:5264:-463.795,-35.1087,0 1/1:34:0,34:0:0:34:1224:-110.255,-10.235,0 chr09 21422215 . TGAA TGAG,AGAG 33821.7 PASS AB=0.517748,0.47858;ABP=5.24556,6.26618;AC=30,12;AF=0.714286,0.285714;AN=42;AO=878,395;CIGAR=3M1X,1X2M1X;DP=1278;DPB=1278;DPRA=0,1.92045;EPP=64.7513,39.0787;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.90476,2.21429;MQM=59.9408,59.9418;MQMR=0;NS=21;NUMALT=2;ODDS=5.22493;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31260,13892;QR=0;RO=0;RPL=878,395;RPP=1909.56,860.742;RPPR=0;RPR=0,0;RUN=1,1;SAF=518,238;SAP=64.7513,39.0787;SAR=360,157;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:41:0,18,23:0:0:18,23:648,800:-118.267,-65.3885,-59.97,-53.2333,0,-46.3097 1/2:38:0,17,21:0:0:17,21:600,731:-108.65,-59.7885,-54.671,-49.2117,0,-42.8901 1/2:37:0,15,22:0:0:15,22:536,781:-107.694,-63.9911,-59.4756,-44.0594,0,-37.4367 1/1:51:0,51,0:0:0:51,0:1805,0:-162.73,-15.3525,0,-162.73,-15.3525,-162.73 1/2:151:0,86,65:0:0:86,65:3075,2292:-437.709,-186.974,-161.086,-251.089,0,-231.522 1/2:30:0,17,13:0:0:17,13:612,450:-86.8599,-36.9159,-31.7984,-50.2959,0,-46.3825 1/2:64:0,27,37:0:0:27,37:959,1296:-183.946,-105.801,-97.6736,-78.4976,0,-67.3595 1/2:51:0,21,29:0:0:21,29:752,1022:-144.639,-83.3087,-76.987,-61.4297,0,-52.6999 1/1:66:0,65,0:0:0:65,0:2310,0:-207.898,-19.567,0,-207.898,-19.567,-207.898 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:23:0,23,0:0:0:23,0:820,0:-74.1225,-6.92369,0,-74.1225,-6.92369,-74.1225 1/1:52:0,51,0:0:0:51,0:1813,0:-163.091,-15.3525,0,-163.091,-15.3525,-163.091 1/1:54:0,54,0:0:0:54,0:1914,0:-172.536,-16.2556,0,-172.536,-16.2556,-172.536 1/2:63:0,28,35:0:0:28,35:995,1247:-183.079,-101.999,-93.5704,-81.4352,0,-70.8991 1/2:34:0,20,14:0:0:20,14:716,489:-98.5198,-40.1254,-34.1048,-58.7471,0,-54.5327 1/2:30:0,14,16:0:0:14,16:500,567:-87.3099,-46.5439,-42.3295,-41.1218,0,-36.3053 1/2:157:0,70,85:0:0:70,85:2499,2990:-447.124,-243.389,-222.317,-203.734,0,-178.147 1/2:121:0,90,31:0:0:90,31:3219,1091:-351.652,-89.1662,-62.0735,-262.839,0,-253.507 1/1:68:0,66,2:0:0:66,2:2332,71:-209.739,-19.868,0,-203.953,-13.728,-203.351 1/1:129:0,127,2:0:0:127,2:4507,65:-405.383,-38.2308,0,-400.138,-32.6598,-399.536 chr09 21436572 . A G 19567.6 PASS AB=0.466667;ABP=9.37995;AC=30;AF=0.714286;AN=42;AO=756;CIGAR=1X;DP=1112;DPB=1112;DPRA=0;EPP=24.254;EPPR=3.01642;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9987;MQMR=60;NS=21;NUMALT=1;ODDS=4.29065;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26736;QR=12700;RO=355;RPL=750;RPP=1592.94;RPPR=756.609;RPR=6;RUN=1;SAF=329;SAP=30.596;SAR=427;SRF=177;SRP=3.01642;SRR=178;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:23,25:23:820:25:892:-66.1502,0,-59.6731 0/1:46:26,20:26:928:20:720:-51.2814,0,-69.9909 0/1:16:10,6:10:360:6:216:-14.974,0,-27.9278 1/1:78:0,78:0:0:78:2768:-249.363,-23.4803,0 0/1:74:47,27:47:1688:27:949:-63.4469,0,-129.931 0/1:28:17,11:17:612:11:388:-26.8285,0,-46.9846 0/1:41:25,16:25:896:16:568:-39.1096,0,-68.6181 0/1:55:37,18:37:1319:18:637:-41.1006,0,-102.455 1/1:40:1,39:1:32:39:1400:-123.1,-8.84189,0 1/1:12:0,12:0:0:12:419:-38.0427,-3.61236,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 1/1:55:0,55:0:0:55:1922:-173.253,-16.5567,0 1/1:60:1,59:1:36:59:2089:-184.681,-14.4635,0 0/1:71:38,33:38:1353:33:1167:-83.9633,0,-100.695 0/1:38:21,17:21:744:17:608:-43.6129,0,-55.8452 0/1:33:13,20:13:468:20:708:-54.1116,0,-32.5257 0/1:112:57,54:57:2040:54:1905:-137.951,0,-150.098 0/1:98:37,61:37:1332:61:2148:-164.086,0,-90.6814 1/1:36:1,35:1:36:35:1252:-109.387,-7.23881,0 1/1:149:1,148:1:36:148:5188:-463.465,-41.2552,0 chr09 21490876 . C T 14343.6 PASS AB=0.504684;ABP=3.17303;AC=30;AF=0.714286;AN=42;AO=746;CIGAR=1X;DP=1170;DPB=1170;DPRA=0;EPP=1622.93;EPPR=923.715;GTI=1;LEN=1;MEANALT=1;MQM=59.992;MQMR=60;NS=21;NUMALT=1;ODDS=1.11829;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26528;QR=14914;RO=424;RPL=0;RPP=1622.93;RPPR=923.715;RPR=746;RUN=1;SAF=0;SAP=1622.93;SAR=746;SRF=0;SRP=923.715;SRR=424;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:44,56:44:1563:56:1983:-148.64,0,-110.858 0/1:25:15,10:15:540:10:356:-24.8555,0,-41.4108 0/1:34:19,15:19:676:15:540:-38.7015,0,-50.933 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 0/1:159:82,77:82:2885:77:2743:-199.249,0,-212.021 0/1:56:33,23:33:1172:23:806:-56.0002,0,-88.9298 0/1:97:44,53:44:1559:53:1908:-142.798,0,-111.401 0/1:56:27,29:27:950:29:1012:-74.5308,0,-68.9557 1/1:117:0,117:0:0:117:4141:-372.877,-35.2205,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 1/1:37:0,37:0:0:37:1311:-118.291,-11.1381,0 0/1:108:49,59:49:1700:59:2100:-156.757,0,-120.769 0/1:38:14,24:14:500:24:860:-66.2827,0,-33.897 0/1:20:9,11:9:324:11:392:-29.5995,0,-23.4853 0/1:104:64,40:64:2189:40:1404:-95.3466,0,-165.965 0/1:57:23,34:23:820:34:1208:-91.8668,0,-56.9638 1/1:46:1,45:1:36:45:1596:-140.332,-10.2491,0 1/1:35:0,35:0:0:35:1260:-113.705,-10.5361,0 chr09 21495582 . C T 18135.9 PASS AB=0.502787;ABP=3.07082;AC=30;AF=0.714286;AN=42;AO=910;CIGAR=1X;DP=1361;DPB=1361;DPRA=0;EPP=1961.72;EPPR=982.344;GTI=0;LEN=1;MEANALT=1;MQM=54.5582;MQMR=58.4257;NS=21;NUMALT=1;ODDS=1.21429;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32565;QR=16177;RO=451;RPL=910;RPP=1979.05;RPPR=982.344;RPR=0;RUN=1;SAF=2;SAP=1961.72;SAR=908;SRF=0;SRP=982.344;SRR=451;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:16,24:16:576:24:860:-65.6281,0,-40.1338 0/1:69:31,38:31:1112:38:1364:-101.904,0,-79.6096 0/1:42:20,22:20:720:22:792:-58.8267,0,-52.4855 1/1:84:0,84:0:0:84:2996:-268.231,-25.2865,0 0/1:193:109,84:109:3893:84:2997:-211.388,0,-292.447 0/1:102:54,48:54:1944:48:1724:-124.16,0,-144.52 0/1:98:49,49:49:1760:49:1756:-128.259,0,-129.183 0/1:48:23,25:23:824:25:896:-66.3912,0,-60.0339 1/1:90:0,90:0:0:90:3209:-287.98,-27.0927,0 1/1:12:0,12:0:0:12:428:-38.7618,-3.61236,0 1/1:5:0,5:0:0:5:180:-16.5105,-1.50515,0 1/1:10:0,10:0:0:10:356:-32.2719,-3.0103,0 1/1:100:0,100:0:0:100:3592:-322.947,-30.103,0 1/1:53:0,53:0:0:53:1882:-169.374,-15.9546,0 0/1:92:39,53:39:1388:53:1904:-143.759,0,-97.5242 0/1:83:44,39:44:1584:39:1385:-99.8731,0,-116.069 0/1:29:18,11:18:648:11:396:-27.2428,0,-49.386 0/1:43:28,15:28:1008:15:540:-35.9275,0,-78.0921 0/1:58:15,43:15:540:43:1540:-120.922,0,-31.4768 1/1:82:4,78:4:144:78:2796:-237.846,-11.3708,0 1/1:28:1,27:1:36:27:972:-83.8029,-4.84236,0 chr09 21495729 . TCAC AGAT,AAAT 27345.6 PASS AB=0.510081,0.483871;ABP=3.88589,5.25182;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1095,482;CIGAR=2X1M1X,2X1M1X;DP=1588;DPB=1588;DPRA=0,1.37707;EPP=2380.77,1049.66;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.14286,2.5;MQM=38.8493,27.3299;MQMR=0;NS=21;NUMALT=2;ODDS=4.07148;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38976,17133;QR=0;RO=0;RPL=0,0;RPP=2380.77,1049.66;RPPR=0;RPR=1095,482;RUN=1,1;SAF=0,0;SAP=2380.77,1049.66;SAR=1095,482;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,25,25:0:0:25,25:899,895:-122.666,-53.2825,-45.7568,-69.4656,0,-61.9399 1/2:70:0,43,26:0:0:43,26:1529,930:-165.315,-51.7987,-38.8544,-113.555,0,-105.728 1/2:99:0,39,60:0:0:39,60:1391,2116:-236.869,-128.452,-116.711,-108.731,0,-90.6696 1/1:117:0,114,0:0:0:114,0:4043,0:-348.124,-34.3174,0,-348.124,-34.3174,-348.124 1/2:90:0,46,44:0:0:46,44:1619,1552:-220.081,-94.5122,-80.6648,-125.873,0,-112.627 1/2:89:0,55,34:0:0:55,34:1965,1210:-211.715,-67.6808,-51.1242,-144.315,0,-134.08 1/2:95:0,54,41:0:0:54,41:1938,1467:-225.668,-82.2088,-65.9532,-143.747,0,-131.404 1/2:131:0,59,71:0:0:59,71:2111,2539:-302.163,-141.759,-123.998,-160.456,0,-139.083 1/1:112:0,112,0:0:0:112,0:3989,0:-348.813,-33.7154,0,-348.813,-33.7154,-348.813 1/1:4:0,4,0:0:0:4,0:143,0:-12.393,-1.20412,0,-12.393,-1.20412,-12.393 1/1:4:0,4,0:0:0:4,0:142,0:-11.4634,-1.20412,0,-11.4634,-1.20412,-11.4634 1/1:19:0,19,0:0:0:19,0:676,0:-57.7208,-5.71957,0,-57.7208,-5.71957,-57.7208 1/1:127:0,126,0:0:0:126,0:4471,0:-385.738,-37.9298,0,-385.738,-37.9298,-385.738 1/1:108:0,106,1:0:0:106,1:3762,36:-321.315,-31.9092,0,-319.154,-29.7588,-318.853 1/2:152:0,55,96:0:0:55,96:1950,3407:-356.926,-205.662,-189.106,-151.33,0,-122.431 1/2:62:0,38,24:0:0:38,24:1362,855:-162.425,-54.4841,-43.045,-108.25,0,-101.025 1/2:62:0,29,33:0:0:29,33:1017,1156:-152.514,-73.8315,-65.1017,-78.9923,0,-69.0583 1/2:43:0,32,11:0:0:32,11:1151,396:-110.14,-22.2757,-12.6428,-88.1409,0,-84.8296 1/2:48:0,31,15:0:0:31,15:1102,538:-117.326,-32.2253,-22.8934,-85.1095,0,-80.594 1/1:65:0,64,1:0:0:64,1:2277,36:-189.679,-19.2659,0,-187.679,-17.0082,-187.378 1/1:40:0,40,0:0:0:40,0:1439,0:-118.336,-12.0412,0,-118.336,-12.0412,-118.336 chr09 21513246 . T A,G 44949.7 PASS AB=0.481431,0.517893;ABP=7.44562,7.12891;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1430,771;CIGAR=1X,1X;DP=2203;DPB=2203;DPRA=0,1.6598;EPP=3108.22,1677.22;EPPR=7.35324;GTI=1;LEN=1,1;MEANALT=1.66667,2;MQM=59.9762,60;MQMR=60;NS=21;NUMALT=2;ODDS=2.69173;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50694,26711;QR=72;RO=2;RPL=0,0;RPP=3108.22,1677.22;RPPR=7.35324;RPR=1430,771;RUN=1,1;SAF=0,0;SAP=3108.22,1677.22;SAR=1430,771;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,24,27:0:0:24,27:851,949:-146.927,-77.595,-70.3702,-69.6847,0,-61.5569 1/2:50:0,18,32:0:0:18,32:633,1081:-139.484,-87.9544,-82.5359,-51.8765,0,-42.2436 1/2:144:0,63,81:0:0:63,81:2268,2846:-417.055,-231.994,-213.029,-185.417,0,-161.034 1/1:107:0,107,0:0:0:107,0:3805,0:-342.648,-32.2102,0,-342.648,-32.2102,-342.648 1/2:229:0,105,124:0:0:105,124:3707,4304:-652.083,-350.211,-318.603,-302.222,0,-264.894 1/2:83:0,45,38:0:0:45,38:1612,1284:-235.89,-104.414,-90.8674,-131.824,0,-120.385 1/2:157:0,83,74:0:0:83,74:2928,2588:-449.31,-210.891,-185.906,-238.77,0,-216.494 1/2:194:0,97,97:0:0:97,97:3401,3355:-549.722,-272.966,-243.766,-277.105,0,-247.905 1/1:202:1,201,0:1:36:201,0:7117,0:-636.996,-57.2098,0,-637.297,-60.507,-640.234 1/1:12:0,12,0:0:0:12,0:408,0:-37.0441,-3.61236,0,-37.0441,-3.61236,-37.0441 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 1/1:28:0,28,0:0:0:28,0:997,0:-90.0439,-8.42884,0,-90.0439,-8.42884,-90.0439 1/1:90:0,90,0:0:0:90,0:3166,0:-285.166,-27.0927,0,-285.166,-27.0927,-285.166 1/1:134:0,133,1:0:0:133,1:4697,36:-422.533,-40.037,0,-419.596,-36.7397,-419.295 1/2:168:0,76,92:0:0:76,92:2720,3211:-483.298,-261.523,-238.644,-222.129,0,-194.434 1/2:53:1,25,27:1:36:25,27:887,959:-147.167,-75.2003,-70.6122,-69.3251,0,-64.1349 1/2:62:0,24,38:0:0:24,38:856,1329:-178.251,-108.469,-101.244,-70.1364,0,-58.6972 1/2:229:0,109,120:0:0:109,120:3892,4074:-648.045,-330.731,-297.919,-317.663,0,-281.539 1/2:61:0,44,17:0:0:44,17:1551,595:-175.044,-48.7592,-35.5138,-126.636,0,-121.518 1/1:78:0,75,3:0:0:75,3:2675,100:-240.66,-22.5773,0,-232.567,-14.1499,-231.664 1/1:60:0,60,0:0:0:60,0:2131,0:-192.058,-18.0618,0,-192.058,-18.0618,-192.058 chr09 21513270 . T A 37472.5 PASS AB=0.479685;ABP=8.48025;AC=30;AF=0.714286;AN=42;AO=1462;CIGAR=1X;DP=2259;DPB=2259;DPRA=0;EPP=133.144;EPPR=4.9965;GTI=1;LEN=1;MEANALT=1;MQM=59.9808;MQMR=59.9749;NS=21;NUMALT=1;ODDS=3.42936;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52322;QR=28490;RO=797;RPL=879;RPP=133.144;RPPR=4.9965;RPR=583;RUN=1;SAF=0;SAP=3177.7;SAR=1462;SRF=0;SRP=1733.67;SRR=797;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:29,23:29:1010:23:815:-58.0172,0,-75.5535 0/1:51:32,19:32:1152:19:680:-46.1766,0,-88.6376 0/1:147:82,65:82:2944:65:2330:-165.708,0,-220.942 1/1:110:0,110:0:0:110:3944:-355.151,-33.1133,0 0/1:235:127,108:127:4520:108:3858:-276.673,0,-336.169 0/1:84:38,46:38:1364:46:1644:-122.962,0,-97.7742 0/1:159:75,84:75:2684:84:3006:-222.907,0,-193.941 0/1:202:99,103:99:3511:103:3691:-271.579,0,-255.389 1/1:203:0,203:0:0:203:7261:-653.542,-61.1091,0 1/1:12:0,12:0:0:12:423:-38.4051,-3.61236,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 1/1:89:0,89:0:0:89:3191:-287.41,-26.7917,0 1/1:139:1,138:1:36:138:4944:-441.511,-38.2449,0 0/1:177:98,79:98:3520:79:2832:-201.821,0,-263.726 0/1:55:30,25:30:1076:25:900:-64.7644,0,-80.5962 0/1:63:38,25:38:1349:25:896:-61.9955,0,-102.743 0/1:238:127,111:127:4568:111:3970:-285.845,0,-339.638 0/1:63:19,44:19:684:44:1567:-122.355,0,-42.9254 1/1:80:2,78:2:72:78:2796:-245.043,-17.2457,0 1/1:61:0,61:0:0:61:2178:-196.285,-18.3628,0 chr09 21573565 . ATA AGC,GGC 38500.2 PASS AB=0.478952,0.504369;ABP=7.85515,3.219;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1450,640;CIGAR=1M2X,3X;DP=2116;DPB=2116;DPRA=0,2.08049;EPP=3151.65,1392.75;EPPR=0;GTI=0;LEN=2,3;MEANALT=2.52381,3.07143;MQM=49.86,55.1922;MQMR=0;NS=21;NUMALT=2;ODDS=7.85879;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51226,22436;QR=0;RO=0;RPL=0,0;RPP=3151.65,1392.75;RPPR=0;RPR=1450,640;RUN=1,1;SAF=1450,640;SAP=3151.65,1392.75;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:45:0,21,23:0:0:21,23:751,797:-126.148,-64.9034,-58.5818,-61.3776,0,-54.4539 1/2:35:0,16,18:0:0:16,18:569,636:-98.1657,-51.7919,-46.9754,-46.5059,0,-41.0874 1/2:104:0,43,58:0:0:43,58:1522,2022:-284.914,-163.146,-150.202,-121.757,0,-104.297 1/1:96:0,93,0:0:0:93,0:3274,0:-292.262,-27.9958,0,-292.262,-27.9958,-292.262 1/2:220:0,89,125:0:0:89,125:3123,4411:-612.907,-359.31,-332.518,-253.733,0,-216.104 1/2:71:0,25,40:0:0:25,40:885,1430:-188.673,-116.586,-109.06,-72.0987,0,-60.0575 1/2:139:0,80,57:0:0:80,57:2808,2004:-391.345,-163.027,-138.945,-228.347,0,-211.189 1/2:74:0,34,39:0:0:34,39:1207,1371:-209.657,-111.538,-101.303,-98.1117,0,-86.3716 1/1:349:0,345,3:0:0:345,3:12199,108:-782.043,-103.855,0,-776.538,-98.359,-775.635 1/1:10:0,10,0:0:0:10,0:347,0:-31.5633,-3.0103,0,-31.5633,-3.0103,-31.5633 1/1:16:0,16,0:0:0:16,0:576,0:-52.175,-4.81648,0,-52.175,-4.81648,-52.175 1/1:39:0,39,0:0:0:39,0:1393,0:-125.669,-11.7402,0,-125.669,-11.7402,-125.669 1/1:106:0,106,0:0:0:106,0:3749,0:-337.607,-31.9092,0,-337.607,-31.9092,-337.607 1/1:84:0,84,0:0:0:84,0:2961,0:-265.61,-25.2865,0,-265.61,-25.2865,-265.61 1/2:232:0,104,128:0:0:104,128:3671,4456:-660.482,-362.649,-331.342,-298.183,0,-259.651 1/2:111:0,59,52:0:0:59,52:2090,1829:-209.976,-96.0464,-78.2857,-114.172,0,-98.5187 1/2:63:0,33,30:0:0:33,30:1157,1041:-125.393,-59.9687,-50.0347,-65.6783,0,-56.6474 1/2:111:0,61,49:0:0:61,49:2144,1694:-312.138,-137.626,-119.263,-174.501,0,-159.75 1/2:54:0,38,16:0:0:38,16:1338,565:-155.289,-46.3621,-34.9229,-109.28,0,-104.463 1/1:98:0,95,2:0:0:95,2:3354,72:-301.717,-28.5979,0,-295.842,-22.723,-295.24 1/1:59:0,59,0:0:0:59,0:2108,0:-189.944,-17.7608,0,-189.944,-17.7608,-189.944 chr09 21573646 . TG CA,CG 54143.3 PASS AB=0.518049,0.478784;ABP=7.47839,9.18366;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1837,763;CIGAR=2X,1X1M;DP=2609;DPB=2609;DPRA=0,2.28969;EPP=3992.01,1659.84;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.09524,2.33333;MQM=56.4861,59.7588;MQMR=60;NS=21;NUMALT=2;ODDS=11.9867;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64791,27222;QR=36;RO=1;RPL=0,0;RPP=3992.01,1659.84;RPPR=5.18177;RPR=1837,763;RUN=1,1;SAF=0,0;SAP=3992.01,1659.84;SAR=1837,763;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,77,87:0:0:77,87:2701,3067:-469.412,-249.693,-226.514,-219.711,0,-193.521 1/2:154:0,82,72:0:0:82,72:2935,2576:-448.373,-210.402,-185.717,-238.328,0,-216.654 1/2:132:0,69,63:0:0:69,63:2438,2243:-381.488,-183.164,-162.393,-198.678,0,-179.713 1/1:137:0,135,0:0:0:135,0:4711,0:-423.732,-40.6391,0,-423.732,-40.6391,-423.732 1/2:204:0,124,80:0:0:124,80:4364,2871:-589.587,-234.508,-197.18,-355.435,0,-331.353 1/2:97:0,42,54:0:0:42,54:1476,1944:-278.425,-158.51,-145.867,-119.91,0,-103.655 1/2:165:1,73,89:1:36:73,89:2534,3192:-461.734,-257.435,-238.397,-201.689,0,-177.835 1/2:143:0,86,57:0:0:86,57:3049,2011:-412.031,-163.83,-137.941,-248.554,0,-231.395 1/1:264:0,261,2:0:0:261,2:9228,72:-829.643,-78.5688,0,-823.768,-72.6939,-823.166 1/1:14:0,14,0:0:0:14,0:493,0:-44.6731,-4.21442,0,-44.6731,-4.21442,-44.6731 1/1:11:0,11,0:0:0:11,0:394,0:-35.7522,-3.31133,0,-35.7522,-3.31133,-35.7522 1/1:27:0,27,0:0:0:27,0:972,0:-87.7062,-8.12781,0,-87.7062,-8.12781,-87.7062 1/1:132:0,129,3:0:0:129,3:4583,104:-412.04,-38.8329,0,-403.587,-30.0332,-402.684 1/1:150:0,149,0:0:0:149,0:5255,0:-472.599,-44.8535,0,-472.599,-44.8535,-472.599 1/2:204:0,108,96:0:0:108,96:3820,3431:-590.551,-280.103,-247.591,-310.804,0,-281.905 1/2:85:0,33,52:0:0:33,52:1156,1868:-246.695,-152.744,-142.81,-94.3046,0,-78.651 1/2:80:0,34,46:0:0:34,46:1213,1637:-232.348,-133.5,-123.265,-99.2039,0,-85.3565 1/2:90:0,44,46:0:0:44,46:1515,1639:-256.876,-133.948,-120.703,-123.278,0,-109.431 1/2:60:0,46,14:0:0:46,14:1625,495:-172.895,-40.6663,-26.8189,-132.582,0,-128.368 1/1:246:0,244,2:0:0:244,2:8582,72:-771.43,-73.4513,0,-765.555,-67.2167,-764.953 1/1:49:0,49,0:0:0:49,0:1747,0:-157.218,-14.7505,0,-157.218,-14.7505,-157.218 chr09 21574455 . T C 35673.2 PASS AB=0.54371;ABP=34.1425;AC=30;AF=0.714286;AN=42;AO=1804;CIGAR=1X;DP=2668;DPB=2668;DPRA=0;EPP=3920.35;EPPR=1874.82;GTI=0;LEN=1;MEANALT=1.09524;MQM=54.4994;MQMR=59.7401;NS=21;NUMALT=1;ODDS=2.25054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64610;QR=30841;RO=862;RPL=0;RPP=3920.35;RPPR=1874.82;RPR=1804;RUN=1;SAF=1804;SAP=3920.35;SAR=0;SRF=862;SRP=1874.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:221:101,120:101:3624:120:4304:-320.468,0,-259.825 0/1:60:26,34:26:932:34:1220:-91.5006,0,-66.1207 0/1:181:90,91:90:3209:91:3255:-238.305,0,-234.537 1/1:127:1,126:1:36:126:4524:-403.407,-34.6325,0 0/1:235:109,126:109:3885:126:4526:-335.823,0,-279.099 0/1:132:73,59:73:2616:59:2108:-149.515,0,-195.923 0/1:200:90,110:90:3213:110:3911:-290.554,0,-229.177 0/1:305:122,182:122:4350:182:6512:-490.666,0,-299.783 1/1:197:1,196:1:36:196:7011:-626.767,-55.7046,0 1/1:39:2,36:2:72:36:1288:-108.772,-4.86235,0 1/1:10:0,10:0:0:10:360:-32.662,-3.0103,0 1/1:31:1,30:1:36:30:1072:-92.9362,-5.73366,0 1/1:90:0,90:0:0:90:3212:-288.757,-27.0927,0 1/1:122:1,121:1:36:121:4329:-385.566,-33.1274,0 0/1:165:76,89:76:2728:89:3191:-237.219,0,-195.868 0/1:82:40,42:40:1436:42:1511:-111.405,0,-104.853 0/1:84:53,31:53:1904:31:1108:-73.8678,0,-146.318 0/1:122:44,78:44:1580:78:2804:-215.042,0,-104.97 0/1:89:31,58:31:1112:58:2088:-161.043,0,-73.5997 1/1:117:1,116:1:36:116:4156:-369.202,-31.6222,0 1/1:59:0,59:0:0:59:2120:-190.201,-17.7608,0 chr09 21677661 . C T 88336.7 PASS AB=0.539961;ABP=45.7032;AC=30;AF=0.714286;AN=42;AO=3383;CIGAR=1X;DP=4807;DPB=4807;DPRA=0;EPP=7340.42;EPPR=3073.5;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.901;MQMR=59.9965;NS=21;NUMALT=1;ODDS=9.65093;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=120305;QR=50003;RO=1422;RPL=1740;RPP=9.04973;RPPR=22.1657;RPR=1643;RUN=1;SAF=1739;SAP=8.80325;SAR=1644;SRF=657;SRP=20.8219;SRR=765;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:248:116,132:116:4090:132:4690:-347.604,0,-293.633 0/1:121:60,61:60:2124:61:2171:-159.225,0,-155.004 0/1:185:86,99:86:3027:99:3548:-263.837,0,-216.968 1/1:292:0,292:0:0:292:10364:-932.615,-87.9008,0 0/1:629:287,341:287:10049:341:12094:-898.906,0,-714.955 0/1:75:42,33:42:1503:33:1180:-83.0732,0,-112.986 0/1:259:110,149:110:3891:149:5332:-401.346,0,-272.419 0/1:211:81,130:81:2854:130:4622:-352.628,0,-193.579 1/1:382:1,381:1:36:381:13562:-1216.44,-111.395,0 1/1:24:0,24:0:0:24:844:-76.2789,-7.22472,0 1/1:8:0,8:0:0:8:279:-25.4375,-2.40824,0 1/1:64:0,64:0:0:64:2285:-205.91,-19.2659,0 1/1:319:2,317:2:72:317:11272:-1007.49,-89.1918,0 1/1:268:0,268:0:0:268:9526:-857.067,-80.676,0 0/1:455:239,215:239:8411:215:7645:-551.19,0,-620.113 0/1:218:93,125:93:3292:125:4422:-332.529,0,-230.875 0/1:231:137,94:137:4789:94:3318:-229.3,0,-361.634 0/1:259:107,152:107:3754:152:5403:-408.424,0,-260.096 0/1:187:56,131:56:1931:131:4638:-361.292,0,-117.769 1/1:304:5,299:5:180:299:10686:-945.089,-74.9611,0 1/1:68:0,68:0:0:68:2424:-218.415,-20.47,0 chr09 21677679 . T C 13032 PASS AB=0.469835;ABP=15.9796;AC=12;AF=0.285714;AN=42;AO=778;CIGAR=1X;DP=2452;DPB=2452;DPRA=1.66991;EPP=1623.64;EPPR=3348.73;GTI=0;LEN=1;MEANALT=1;MQM=59.9756;MQMR=59.81;NS=21;NUMALT=1;ODDS=3.18063;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27793;QR=60101;RO=1674;RPL=772;RPP=1640.7;RPPR=3348.73;RPR=6;RUN=1;SAF=2;SAP=1675.09;SAR=776;SRF=0;SRP=3638.06;SRR=1674;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:75,58:75:2692:58:2084:-147.793,0,-201.55 0/1:121:62,59:62:2224:59:2103:-153.114,0,-163.993 0/1:95:51,44:51:1828:44:1576:-113.534,0,-136.2 0/0:106:106,0:106:3808:0:0:0,-31.9092,-342.843 0/1:282:146,136:146:5240:136:4830:-349.964,0,-386.845 0/1:76:33,43:33:1188:43:1548:-116.734,0,-83.4927 0/1:269:153,116:153:5500:116:4143:-292.069,0,-413.445 0/1:102:54,48:54:1940:48:1720:-124.38,0,-144.167 0/0:199:199,0:199:7133:0:0:0,-59.905,-641.991 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2544 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5548 0/0:151:149,2:149:5352:2:72:0,-38.6188,-474.929 0/0:149:149,0:149:5340:0:0:0,-44.8535,-480.641 0/1:206:89,117:89:3196:117:4173:-313.741,0,-225.828 0/1:81:49,32:49:1760:32:1152:-79.6067,0,-134.3 0/1:82:23,59:23:824:59:2096:-164.226,0,-49.7989 0/1:107:72,35:72:2592:35:1256:-81.1351,0,-201.188 0/1:87:63,24:63:2268:24:860:-51.5322,0,-178.188 0/0:95:90,5:90:3232:5:180:0,-12.0458,-274.543 0/0:68:68,0:68:2436:0:0:0,-20.47,-219.494 chr09 21729410 . T C 11408.7 PASS AB=0.451786;ABP=14.3175;AC=30;AF=0.714286;AN=42;AO=572;CIGAR=1X;DP=879;DPB=879;DPRA=0;EPP=1245.09;EPPR=667.481;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9773;MQMR=59.8824;NS=21;NUMALT=1;ODDS=0.268395;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20472;QR=10951;RO=306;RPL=0;RPP=1245.09;RPPR=667.481;RPR=572;RUN=1;SAF=572;SAP=1245.09;SAR=0;SRF=306;SRP=667.481;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:42,37:42:1493:37:1324:-95.321,0,-110.521 0/1:36:15,21:15:540:21:748:-56.8082,0,-38.0995 0/1:27:19,8:19:684:8:280:-17.4115,0,-53.7625 1/1:69:0,69:0:0:69:2476:-223.093,-20.7711,0 0/1:82:48,34:48:1728:34:1224:-85.7826,0,-131.121 0/1:51:27,24:27:968:24:852:-61.6479,0,-71.1454 0/1:49:29,20:29:1027:20:720:-50.3783,0,-77.9917 0/1:41:26,15:26:928:15:540:-36.5943,0,-71.496 1/1:55:0,55:0:0:55:1972:-177.726,-16.5567,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:56:0,56:0:0:56:2000:-180.274,-16.8577,0 1/1:39:0,39:0:0:39:1388:-125.219,-11.7402,0 0/1:52:38,14:38:1368:14:504:-30.0445,0,-107.767 0/1:32:17,15:17:612:15:536:-38.9419,0,-45.7805 0/1:18:11,7:11:392:7:252:-17.6104,0,-30.2015 0/1:36:16,20:16:563:20:720:-54.2917,0,-40.1621 0/1:56:18,38:18:648:38:1356:-105.483,0,-41.7942 1/1:35:0,35:0:0:35:1248:-112.625,-10.5361,0 1/1:43:0,43:0:0:43:1540:-138.893,-12.9443,0 chr09 21729467 . A G 9224.22 PASS AB=0.435233;ABP=52.2341;AC=12;AF=0.285714;AN=42;AO=595;CIGAR=1X;DP=2124;DPB=2124;DPRA=2.0083;EPP=1295.04;EPPR=3323.19;GTI=0;LEN=1;MEANALT=1;MQM=59.9311;MQMR=59.9915;NS=21;NUMALT=1;ODDS=11.5264;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21109;QR=54404;RO=1529;RPL=1;RPP=1286.37;RPPR=238.264;RPR=594;RUN=1;SAF=1;SAP=1286.37;SAR=594;SRF=561;SRP=238.264;SRR=968;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:102,65:102:3635:65:2302:-156.848,0,-277.084 0/1:84:55,29:55:1968:29:1025:-67.2742,0,-152.109 0/1:108:31,77:31:1112:77:2751:-215.32,0,-67.8801 0/0:137:136,1:136:4827:1:36:0,-37.6428,-430.988 0/1:195:92,103:92:3273:103:3649:-269.91,0,-236.089 0/1:89:58,31:58:2075:31:1116:-73.96,0,-160.228 0/1:129:73,56:73:2588:56:1970:-138.739,0,-194.335 0/1:103:58,45:58:2043:45:1579:-111.391,0,-153.133 0/0:170:169,1:169:6001:1:36:0,-47.5768,-536.57 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:30:30,0:30:1063:0:0:0,-9.0309,-95.9808 0/0:127:127,0:127:4532:0:0:0,-38.2308,-408.049 0/0:92:91,1:91:3226:1:36:0,-24.0965,-286.965 0/1:119:41,78:41:1454:78:2779:-214.528,0,-95.3319 0/1:58:37,21:37:1332:21:732:-48.7395,0,-102.723 0/1:62:46,16:46:1630:16:572:-33.1496,0,-128.323 0/1:121:76,45:76:2711:45:1594:-107.324,0,-207.809 0/1:116:94,22:94:3352:22:788:-36.3253,0,-266.976 0/0:88:84,4:84:2987:4:144:0,-13.177,-255.749 0/0:113:113,0:113:4019:0:0:0,-34.0164,-361.898 chr09 21730825 . T G,A 33674.2 PASS AB=0.495601,0.504399;ABP=3.18223,3.18223;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1084,518;CIGAR=1X,1X;DP=1602;DPB=1602;DPRA=0,1.43012;EPP=2348.21,1127.83;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.66667,2;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.58961;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38561,18533;QR=0;RO=0;RPL=1083,518;RPP=2348.21,1127.83;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=2356.89,1127.83;SAR=1084,518;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:120:0,66,54:0:0:66,54:2338,1940:-349.075,-158.621,-138.753,-190.811,0,-174.555 1/2:74:0,44,30:0:0:44,30:1570,1076:-216.111,-88.122,-74.8766,-128.346,0,-119.315 1/2:70:0,30,40:0:0:30,40:1059,1440:-204.09,-117.857,-108.826,-86.5895,0,-74.5483 1/1:108:0,108,0:0:0:108,0:3852,0:-346.877,-32.5112,0,-346.877,-32.5112,-346.877 1/2:121:0,64,57:0:0:64,57:2283,2044:-353.181,-167.073,-147.807,-186.465,0,-169.307 1/2:78:0,37,41:0:0:37,41:1307,1476:-227.229,-120.794,-109.656,-106.792,0,-94.4496 1/2:136:0,52,84:0:0:52,84:1852,2993:-395.265,-244.315,-228.661,-151.306,0,-126.02 1/2:73:0,34,39:0:0:34,39:1200,1392:-211.555,-113.839,-103.604,-98.0706,0,-86.3304 1/1:114:0,113,1:0:0:113,1:4023,36:-361.9,-34.0164,0,-358.963,-30.7191,-358.662 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/1:8:0,8,0:0:0:8,0:275,0:-25.0835,-2.40824,0,-25.0835,-2.40824,-25.0835 1/1:32:0,32,0:0:0:32,0:1144,0:-103.27,-9.63296,0,-103.27,-9.63296,-103.27 1/1:102:0,102,0:0:0:102,0:3626,0:-326.546,-30.7051,0,-326.546,-30.7051,-326.546 1/1:94:0,94,0:0:0:94,0:3360,0:-302.617,-28.2968,0,-302.617,-28.2968,-302.617 1/2:117:0,58,59:0:0:58,59:2066,2099:-339.812,-171.418,-153.959,-168.75,0,-150.989 1/2:63:0,31,32:0:0:31,32:1108,1152:-184.698,-94.3572,-85.0253,-90.6991,0,-81.0661 1/2:49:0,23,26:0:0:23,26:811,927:-141.953,-75.9206,-68.9969,-66.3863,0,-58.5595 1/2:57:0,25,32:0:0:25,32:896,1139:-166.263,-93.1854,-85.6597,-73.4346,0,-63.8016 1/2:65:0,43,22:0:0:43,22:1531,783:-188.953,-64.1703,-51.226,-125.138,0,-118.515 1/1:50:0,49,1:0:0:49,1:1730,36:-155.624,-14.7505,0,-152.686,-11.4532,-152.385 1/1:59:0,59,0:0:0:59,0:2098,0:-189.088,-17.7608,0,-189.088,-17.7608,-189.088 chr09 21750224 . G A 332.015 PASS AB=0.165563;ABP=589.797;AC=12;AF=0.285714;AN=42;AO=101;CIGAR=1X;DP=1131;DPB=1131;DPRA=1.0339;EPP=222.329;EPPR=2205.02;GTI=7;LEN=1;MEANALT=1;MQM=44.8515;MQMR=59.9816;NS=21;NUMALT=1;ODDS=2.85924;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3590;QR=36769;RO=1030;RPL=0;RPP=222.329;RPPR=2213.65;RPR=101;RUN=1;SAF=101;SAP=222.329;SAR=0;SRF=1029;SRP=2230.95;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:62,7:62:2191:7:244:-1.12219,0,-176.682 0/1:50:38,12:38:1356:12:425:-23.0071,0,-107.289 0/1:56:47,9:47:1684:9:324:-12.2401,0,-134.989 0/0:68:68,0:68:2421:0:0:0,-20.47,-218.145 0/1:77:64,13:64:2288:13:468:-18.6932,0,-183.002 0/1:53:48,5:48:1728:5:176:-0.0695339,0,-139.851 0/1:64:55,9:55:1963:9:320:-9.58003,0,-157.679 0/1:28:20,8:20:707:8:284:-17.1379,0,-55.5257 0/0:75:75,0:75:2683:0:0:0,-22.5772,-241.714 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:9:9,0:9:311:0:0:0,-2.70927,-28.3237 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/0:105:104,1:104:3710:1:36:0,-28.0596,-330.553 0/0:78:78,0:78:2783:0:0:0,-23.4803,-250.711 0/1:70:53,17:53:1904:17:612:-33.3917,0,-150.563 0/1:24:21,3:21:752:3:108:-2.67642,0,-60.7815 0/1:19:17,2:17:612:2:72:-0.999064,0,-49.6939 0/1:43:33,10:33:1176:10:341:-17.691,0,-93.2035 0/1:51:46,5:46:1640:5:180:-0.92849,0,-132.518 0/0:91:91,0:91:3240:0:0:0,-27.3937,-291.82 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 chr09 21750230 . 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G A 1608.09 PASS AB=0.174439;ABP=1069.09;AC=12;AF=0.285714;AN=42;AO=203;CIGAR=1X;DP=2195;DPB=2195;DPRA=1.00424;EPP=443.819;EPPR=4317.73;GTI=6;LEN=1;MEANALT=1.07692;MQM=47.5025;MQMR=59.9247;NS=21;NUMALT=1;ODDS=10.6492;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7241;QR=70428;RO=1991;RPL=97;RPP=3.87675;RPPR=8.20286;RPR=106;RUN=1;SAF=97;SAP=3.87675;SAR=106;SRF=1031;SRP=8.50824;SRR=960;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:69,10:69:2457:10:360:-8.63583,0,-197.602 0/1:101:80,21:80:2810:21:744:-36.0183,0,-222.735 0/1:86:75,11:75:2660:11:396:-9.65936,0,-213.752 0/0:160:160,0:160:5703:0:0:0,-48.1648,-513.39 0/1:142:119,22:119:4227:22:779:-27.0256,0,-337.807 0/1:84:75,9:75:2668:9:324:-3.822,0,-214.45 0/1:108:95,13:95:3366:13:468:-9.58598,0,-270.637 0/1:80:56,24:56:1967:24:852:-52.2502,0,-153.209 0/0:151:151,0:151:5355:0:0:0,-45.4555,-482.076 0/0:42:42,0:42:1491:0:0:0,-12.6433,-134.484 0/0:17:17,0:17:595:0:0:0,-5.11751,-53.8767 0/0:58:58,0:58:2053:0:0:0,-17.4597,-185.04 0/0:203:202,1:202:7155:1:36:0,-57.5606,-640.457 0/0:177:177,0:177:6202:0:0:0,-53.2823,-558.282 0/1:127:106,21:106:3775:21:743:-28.0557,0,-301.719 0/1:65:56,9:56:1989:9:324:-9.0109,0,-159.715 0/1:41:31,10:31:1107:10:351:-19.3557,0,-87.5979 0/1:140:101,39:101:3525:39:1400:-83.2869,0,-275.314 0/1:105:92,13:92:3263:13:464:-9.21079,0,-262.263 0/0:141:141,0:141:5004:0:0:0,-42.4452,-450.498 0/0:88:88,0:88:3056:0:0:0,-26.4906,-275.257 chr09 21750263 . C T 1985.49 PASS AB=0.178295;ABP=1046.68;AC=12;AF=0.285714;AN=42;AO=208;CIGAR=1X;DP=2191;DPB=2191;DPRA=1.01695;EPP=143.488;EPPR=749.077;GTI=5;LEN=1;MEANALT=1.07692;MQM=47.25;MQMR=59.8688;NS=21;NUMALT=1;ODDS=2.383;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7396;QR=69819;RO=1981;RPL=150;RPP=91.3725;RPPR=1680.3;RPR=58;RUN=1;SAF=104;SAP=3.0103;SAR=104;SRF=1031;SRP=10.2021;SRR=950;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:69,11:69:2425:11:392:-10.938,0,-194.409 0/1:99:79,20:79:2811:20:708:-33.3848,0,-223.428 0/1:86:76,10:76:2663:10:356:-6.09787,0,-213.999 0/0:156:156,0:156:5540:0:0:0,-46.9607,-498.728 0/1:145:120,25:120:4180:25:883:-35.4579,0,-332.737 0/1:83:73,10:73:2556:10:352:-6.62598,0,-204.675 0/1:106:94,12:94:3250:12:420:-5.91819,0,-258.081 0/1:81:55,26:55:1942:26:923:-58.1377,0,-150.642 0/0:151:151,0:151:5364:0:0:0,-45.4555,-482.894 0/0:42:42,0:42:1478:0:0:0,-12.6433,-133.313 0/0:15:15,0:15:521:0:0:0,-4.51545,-47.2163 0/0:57:57,0:57:1989:0:0:0,-17.1587,-179.28 0/0:204:203,1:203:7168:1:36:0,-57.8616,-641.359 0/0:181:181,0:181:6383:0:0:0,-54.4864,-574.482 0/1:128:106,20:106:3720:20:720:-25.9144,0,-296.719 0/1:66:56,10:56:2004:10:360:-11.8929,0,-160.766 0/1:42:32,10:32:1139:10:360:-19.8568,0,-90.1751 0/1:138:99,39:99:3491:39:1395:-83.382,0,-272.86 0/1:107:93,14:93:3332:14:491:-11.5679,0,-267.887 0/0:139:139,0:139:4881:0:0:0,-41.8432,-439.44 0/0:85:85,0:85:2982:0:0:0,-25.5875,-268.611 chr09 21750290 . AAGG CAGA,AAGA 22765.1 PASS AB=0.775176,0.222482;ABP=283.852,288.653;AC=33,9;AF=0.785714,0.214286;AN=42;AO=975,105;CIGAR=1X2M1X,3M1X;DP=1081;DPB=1081.75;DPRA=0,0.809135;EPP=2120.2,231.015;EPPR=0;GTI=4;LEN=4,1;MEANALT=1.61905,2.08333;MQM=59.7836,49.6381;MQMR=0;NS=21;NUMALT=2;ODDS=1.19062;PAIRED=0,0;PAIREDR=0;PAO=3,0;PQA=104,0;PQR=0;PRO=0;QA=34397,3768;QR=0;RO=0;RPL=975,105;RPP=2120.2,231.015;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2120.2,231.015;SAR=975,105;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:12:0,8,4:0:0:8,4:282,144:-34.9737,-12.0532,-9.64492,-23.2767,0,-22.0725 1/2:50:0,42,8:0:0:42,8:1493,288:-145.456,-23.7931,-11.1499,-122.021,0,-119.613 1/1:31:0,29,2:0:0:29,2:1030,72:-92.6479,-8.72987,0,-86.8002,-2.52414,-86.1981 1/1:95:0,95,0:0:0:95,0:3337,0:-300.55,-28.5979,0,-300.55,-28.5979,-300.55 1/2:66:0,55,10:0:0:55,10:1914,360:-184.866,-29.245,-12.6883,-155.618,0,-152.608 1/2:30:0,26,4:0:0:26,4:915,140:-85.2968,-11.626,-3.79924,-74.0177,0,-72.8136 1/1:41:0,38,3:0:0:38,3:1330,108:-119.634,-11.4391,0,-110.866,-2.31331,-109.963 1/2:51:0,36,15:0:0:36,15:1263,540:-146.747,-43.9834,-33.1464,-103.119,0,-98.6033 1/1:80:0,80,0:0:0:80,0:2823,0:-253.948,-24.0824,0,-253.948,-24.0824,-253.948 1/1:22:0,22,0:0:0:22,0:784,0:-70.8838,-6.62266,0,-70.8838,-6.62266,-70.8838 1/1:7:0,7,0:0:0:7,0:251,0:-22.9379,-2.10721,0,-22.9379,-2.10721,-22.9379 1/1:17:0,17,0:0:0:17,0:599,0:-54.2375,-5.11751,0,-54.2375,-5.11751,-54.2375 1/1:99:0,99,0:0:0:99,0:3516,0:-316.39,-29.802,0,-316.39,-29.802,-316.39 1/1:104:0,104,0:0:0:104,0:3653,0:-328.918,-31.3071,0,-328.918,-31.3071,-328.918 1/1:62:0,57,5:0:0:57,5:2004,180:-180.275,-17.1587,0,-165.656,-2.18183,-164.15 1/2:41:0,34,7:0:0:34,7:1208,252:-118.546,-20.1042,-9.86914,-98.7907,0,-96.6835 1/2:22:0,15,7:0:0:15,7:523,252:-63.3282,-20.8008,-16.2854,-42.8824,0,-40.7752 1/2:98:0,68,30:0:0:68,30:2429,1072:-285.351,-87.3114,-66.8414,-198.396,0,-189.365 1/2:57:0,47,10:0:0:47,10:1662,360:-163.949,-28.5798,-14.4314,-135.718,0,-132.708 1/1:48:0,48,0:0:0:48,0:1704,0:-153.285,-14.4494,0,-153.285,-14.4494,-153.285 1/1:48:0,48,0:0:0:48,0:1677,0:-150.89,-14.4494,0,-150.89,-14.4494,-150.89 chr09 21780575 . ACCC CCCG,CCCA 76887.9 PASS AB=0.503067,0.490798;ABP=3.14352,4.20927;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2149,802;CIGAR=1X2M1X,1X2M1X;DP=2982;DPB=2984.5;DPRA=0,1.11364;EPP=4669.5,1744.53;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.95238,3.21429;MQM=59.8981,59.8441;MQMR=0;NS=21;NUMALT=2;ODDS=18.3489;PAIRED=0,0;PAIREDR=0;PAO=4,4;PQA=105,105;PQR=0;PRO=0;QA=73454,27654;QR=0;RO=0;RPL=1094,385;RPP=4.54721,5.78285;RPPR=0;RPR=1055,417;RUN=1,1;SAF=1094,385;SAP=4.54721,5.78285;SAR=1055,417;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:96:0,53,43:0:0:53,43:1803,1497:-268.321,-122.075,-106.121,-146.59,0,-133.646 1/2:51:0,20,31:0:0:20,31:680,1069:-142.338,-87.1832,-81.1626,-55.4966,0,-46.1647 1/2:141:0,75,64:0:0:75,64:2578,2227:-390.224,-180.874,-158.297,-209.369,0,-190.103 1/1:163:0,160,0:0:0:160,0:5434,0:-488.911,-48.1648,0,-488.911,-48.1648,-488.911 1/2:255:0,130,125:0:0:130,125:4482,4338:-716.997,-352.915,-313.781,-364.369,0,-326.74 1/2:54:0,28,25:0:0:28,25:960,883:-149.524,-71.5966,-63.1678,-77.8024,0,-70.2766 1/2:155:0,84,71:0:0:84,71:2856,2462:-432.108,-200.459,-175.172,-231.993,0,-210.62 1/2:218:0,97,119:0:0:97,119:3297,4055:-596.365,-329.005,-299.805,-267.414,0,-231.591 1/1:239:0,237,0:0:0:237,0:8183,0:-736.203,-71.3441,0,-736.203,-71.3441,-736.203 1/1:33:0,33,0:0:0:33,0:1094,0:-98.7586,-9.93399,0,-98.7586,-9.93399,-98.7586 1/1:10:0,10,0:0:0:10,0:337,0:-30.6566,-3.0103,0,-30.6566,-3.0103,-30.6566 1/1:68:0,68,0:0:0:68,0:2370,0:-213.561,-20.47,0,-213.561,-20.47,-213.561 1/1:255:0,248,1:0:0:248,1:8542,36:-768.439,-74.6554,0,-765.502,-71.718,-765.201 1/1:173:0,170,1:0:0:170,1:5826,35:-524.074,-51.1751,0,-521.226,-48.3374,-520.925 1/2:200:0,100,99:0:0:100,99:3433,3410:-555.811,-277.069,-246.966,-278.838,0,-249.036 1/2:90:0,32,56:0:0:32,56:1084,1947:-246.198,-158.32,-148.687,-87.8943,0,-71.0366 1/2:43:0,20,22:0:0:20,22:688,743:-116.175,-60.2959,-54.2753,-55.9546,0,-49.332 1/2:197:0,106,91:0:0:106,91:3588,3098:-542.545,-251.652,-219.743,-291.232,0,-263.839 1/2:130:0,75,54:0:0:75,54:2524,1854:-355.038,-150.601,-128.024,-204.495,0,-188.24 1/1:303:0,295,0:0:0:295,0:10028,0:-902.188,-88.8039,0,-902.188,-88.8039,-902.188 1/1:108:0,108,0:0:0:108,0:3667,0:-330.244,-32.5112,0,-330.244,-32.5112,-330.244 chr09 21853590 . ATA GTT 39757.7 PASS AB=0.598089;ABP=151.682;AC=30;AF=0.714286;AN=42;AO=1995;CIGAR=1X1M1X;DP=2713;DPB=2713;DPRA=0;EPP=4335.1;EPPR=1557.78;GTI=0;LEN=3;MEANALT=1.09524;MQM=59.9634;MQMR=59.9595;NS=21;NUMALT=1;ODDS=6.14202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70370;QR=25301;RO=716;RPL=0;RPP=4335.1;RPPR=1557.78;RPR=1995;RUN=1;SAF=1995;SAP=4335.1;SAR=0;SRF=716;SRP=1557.78;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:74,94:74:2588:94:3331:-249.434,0,-182.594 0/1:111:47,64:47:1669:64:2273:-171.416,0,-117.083 0/1:116:39,77:39:1397:77:2717:-209.855,0,-91.1099 1/1:140:0,140:0:0:140:4906:-441.695,-42.1442,0 0/1:395:129,266:129:4554:266:9354:-722.914,0,-291.037 0/1:101:43,58:43:1538:58:2080:-157.067,0,-108.309 0/1:151:69,82:69:2426:82:2887:-214.611,0,-173.141 0/1:70:29,41:29:1037:41:1429:-107.829,0,-72.5719 1/1:196:0,195:0:0:195:6906:-621.178,-58.7009,0 1/1:24:0,24:0:0:24:853:-77.0794,-7.22472,0 1/1:8:0,8:0:0:8:286:-26.0855,-2.40824,0 1/1:59:0,59:0:0:59:2106:-189.81,-17.7608,0 1/1:134:0,134:0:0:134:4745:-427.205,-40.338,0 1/1:195:0,195:0:0:195:6855:-617.025,-58.7009,0 0/1:282:116,166:116:4083:166:5860:-442.621,0,-282.764 0/1:118:60,58:60:2120:58:2063:-150.419,0,-155.547 0/1:205:89,116:89:3138:116:4080:-305.677,0,-220.936 0/1:47:16,31:16:571:31:1094:-84.6201,0,-37.5745 0/1:15:4,11:4:144:11:388:-30.7413,0,-8.79817 1/1:147:1,146:1:36:146:5123:-457.618,-40.6531,0 1/1:31:0,30:0:0:30:1034:-93.0048,-9.0309,0 chr09 21853617 . C T 10614.1 PASS AB=0.397812;ABP=160.558;AC=12;AF=0.285714;AN=42;AO=692;CIGAR=1X;DP=2665;DPB=2665;DPRA=1.47645;EPP=1505.67;EPPR=4175.15;GTI=0;LEN=1;MEANALT=1;MQM=59.9899;MQMR=59.9625;NS=21;NUMALT=1;ODDS=4.84347;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24781;QR=70405;RO=1973;RPL=692;RPP=1505.67;RPPR=4175.15;RPR=0;RUN=1;SAF=692;SAP=1505.67;SAR=0;SRF=1973;SRP=4287.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:162:90,72:90:3201:72:2588:-184.402,0,-239.546 0/1:112:65,47:65:2323:47:1672:-117.051,0,-175.614 0/1:114:76,38:76:2732:38:1364:-88.7433,0,-211.805 0/0:140:140,0:140:5015:0:0:0,-42.1442,-451.496 0/1:383:261,122:261:9332:122:4368:-277.997,0,-724.531 0/1:99:58,41:58:2058:41:1468:-102.614,0,-155.688 0/1:144:79,65:79:2827:65:2327:-166.341,0,-211.32 0/1:69:40,29:40:1440:29:1040:-73.1433,0,-109.127 0/0:194:194,0:194:6932:0:0:0,-58.3998,-623.788 0/0:25:25,0:25:877:0:0:0,-7.52575,-79.2449 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 0/0:131:131,0:131:4700:0:0:0,-39.4349,-423.153 0/0:196:196,0:196:6907:0:0:0,-59.0019,-621.704 0/1:277:164,113:164:5863:113:4031:-279.591,0,-444.365 0/1:116:57,59:57:2040:59:2116:-155.789,0,-148.953 0/1:200:115,85:115:4091:85:3051:-214.612,0,-308.169 0/1:46:30,16:30:1072:16:576:-38.3276,0,-82.9451 0/1:15:11,4:11:396:4:144:-8.79817,0,-31.4673 0/0:144:143,1:143:5106:1:36:0,-39.75,-456.085 0/0:31:31,0:31:1089:0:0:0,-9.33193,-98.3173 chr09 21853717 . TGTAGTAC TGTAC 2964.92 PASS AB=0.409969;ABP=72.2169;AC=13;AF=0.309524;AN=42;AO=405;CIGAR=1M3D4M;DP=1673;DPB=1520.62;DPRA=0.879541;EPP=882.457;EPPR=2723.89;GTI=2;LEN=3;MEANALT=1.33333;MQM=29.9309;MQMR=59.5012;NS=21;NUMALT=1;ODDS=3.29838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12059;QR=44737;RO=1261;RPL=405;RPP=882.457;RPPR=2723.89;RPR=0;RUN=1;SAF=0;SAP=882.457;SAR=405;SRF=0;SRP=2741.24;SRR=1261;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:90,48:90:3188:48:1461:-77.6009,0,-245.586 0/1:72:34,36:34:1213:36:1092:-67.5707,0,-88.0531 0/1:59:39,20:39:1387:20:615:-32.4515,0,-107.323 0/0:107:107,0:107:3823:0:0:0,-32.2102,-344.265 0/1:214:125,89:125:4429:89:2701:-155.104,0,-334.326 0/1:47:22,25:22:786:25:758:-47.5767,0,-56.8877 0/1:142:81,61:81:2881:61:1811:-104.374,0,-216.664 0/1:28:17,11:17:598:11:330:-18.5634,0,-45.7159 0/0:268:267,0:267:9435:0:0:0,-80.375,-848.366 0/1:6:4,2:4:144:2:62:-3.51219,0,-11.5074 0/0:10:10,0:10:357:0:0:0,-3.0103,-32.4723 0/0:15:15,0:15:529:0:0:0,-4.51545,-47.8518 0/0:88:88,0:88:3118:0:0:0,-26.4906,-280.847 0/0:79:77,1:77:2713:1:27:0,-21.3792,-241.559 0/1:76:51,25:51:1815:25:752:-38.3055,0,-140.724 0/1:88:52,36:52:1839:36:1001:-54.3401,0,-139.267 0/1:88:41,44:41:1462:44:1232:-73.492,0,-105.939 0/1:11:7,4:7:247:4:124:-7.0455,0,-19.2332 0/1:14:12,2:12:431:2:62:-1.10395,0,-34.9163 0/0:88:87,1:87:3099:1:31:0,-23.6915,-276.244 0/0:35:35,0:35:1243:0:0:0,-10.536,-112.116 chr09 21858391 . GAAATAGTTACT CAAACAACTACA,CAAACAACTACT 84516.7 PASS AB=0.386541,0.603813;ABP=489.843,410.581;AC=21,21;AF=0.5,0.5;AN=42;AO=1683,2629;CIGAR=1X3M1X1M2X3M1X,1X3M1X1M2X4M;DP=4354;DPB=4354;DPRA=0,0;EPP=3648.92,3198.76;EPPR=5.18177;GTI=0;LEN=12,12;MEANALT=3.42857,3.42857;MQM=31.9079,58.0905;MQMR=60;NS=21;NUMALT=2;ODDS=5.25346;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59205,92126;QR=36;RO=1;RPL=1,331;RPP=3648.92,3198.76;RPPR=5.18177;RPR=1682,2298;RUN=1,1;SAF=0,0;SAP=3657.6,5711.81;SAR=1683,2629;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:235:0,65,167:0:0:65,167:2302,5831:-631.983,-474.154,-454.587,-157.856,0,-107.584 1/2:186:0,64,121:0:0:64,121:2264,4252:-500.976,-345.8,-326.534,-155.142,0,-118.718 1/2:212:0,71,141:0:0:71,141:2512,4917:-571.953,-399.856,-378.483,-172.415,0,-129.969 1/2:303:0,161,140:0:0:161,140:5638,4886:-783.465,-396.643,-348.177,-386.793,0,-344.649 1/2:468:0,131,326:0:0:131,326:4596,11301:-1233.31,-917.832,-878.397,-315.476,0,-217.34 1/2:76:0,23,53:0:0:23,53:813,1850:-206.506,-150.823,-143.899,-56.0002,0,-40.0456 1/2:221:0,86,134:0:0:86,134:3013,4701:-589.566,-382.423,-356.534,-207.105,0,-166.767 1/2:170:0,49,119:0:0:49,119:1741,4206:-460.641,-341.919,-327.169,-118.699,0,-82.8767 1/2:501:0,258,238:0:0:258,238:9097,8392:-1303.05,-679.652,-601.986,-623.393,0,-551.748 1/2:55:0,20,34:0:0:20,34:710,1177:-144.27,-95.6543,-89.6337,-48.6431,0,-38.408 1/2:29:0,19,10:0:0:19,10:681,340:-74.3203,-27.9181,-22.1986,-46.73,0,-43.7197 1/2:79:0,35,44:0:0:35,44:1244,1551:-211.674,-126.636,-116.1,-85.3623,0,-72.117 1/2:339:0,151,185:0:0:151,185:5333,6490:-891.449,-527.226,-481.77,-364.207,0,-308.517 1/2:301:0,122,178:0:0:122,178:4257,6219:-798.513,-505.208,-468.482,-293.271,0,-239.688 1/2:209:0,59,147:0:0:59,147:2101,5195:-566.006,-422.964,-405.204,-143.009,0,-98.758 1/2:161:0,44,114:0:0:44,114:1506,4030:-430.755,-326.549,-313.304,-104.177,0,-69.8601 1/2:180:0,34,146:0:0:34,146:1194,5142:-500.314,-418.304,-408.068,-82.3216,0,-38.3712 1/2:147:0,50,95:0:0:50,95:1759,3319:-390.754,-269.864,-254.812,-120.86,0,-92.2619 1/2:154:1,48,103:1:36:48,103:1682,3635:-408.114,-292.843,-281.331,-112.602,0,-84.5344 1/2:207:0,134,73:0:0:134,73:4688,2559:-530.662,-208.491,-168.153,-322.504,0,-300.529 1/2:121:0,59,61:0:0:59,61:2074,2133:-315.768,-173.401,-155.641,-142.401,0,-124.038 chr09 21858414 . C T 16565.9 PASS AB=0.38517;ABP=495.728;AC=21;AF=0.5;AN=42;AO=1657;CIGAR=1X;DP=4302;DPB=4302;DPRA=0;EPP=3601.14;EPPR=5569.81;GTI=0;LEN=1;MEANALT=1.09524;MQM=31.9077;MQMR=58.0212;NS=21;NUMALT=1;ODDS=3.12326;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59022;QR=94440;RO=2643;RPL=1657;RPP=3601.14;RPPR=5569.81;RPR=0;RUN=1;SAF=0;SAP=3601.14;SAR=1657;SRF=0;SRP=5742.21;SRR=2643;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:234:169,65:169:6036:65:2332:-108.275,0,-472.353 0/1:183:120,63:120:4282:63:2256:-117.852,0,-330.123 0/1:210:139,71:139:4984:71:2552:-131.931,0,-384.715 0/1:297:140,157:140:5001:157:5556:-336.348,0,-359.729 0/1:464:333,131:333:11895:131:4674:-217.396,0,-929.197 0/1:76:53,23:53:1881:23:820:-40.2377,0,-146.688 0/1:218:132,86:132:4716:86:3062:-168.909,0,-358.812 0/1:170:122,48:122:4376:48:1720:-80.2759,0,-341.609 0/1:501:245,255:245:8793:255:9096:-545.027,0,-636.293 0/1:54:34,20:34:1201:20:720:-39.0315,0,-92.0907 0/1:29:10,19:10:341:19:684:-43.8082,0,-22.2879 0/1:77:42,35:42:1497:35:1256:-73.1371,0,-111.843 0/1:333:185,148:185:6618:148:5264:-301.624,0,-494.546 0/1:292:176,116:176:6307:116:4119:-227.707,0,-478.172 0/1:206:149,57:149:5307:57:1999:-91.4535,0,-415.613 0/1:160:115,44:115:4105:44:1550:-70.5452,0,-319.446 0/1:179:145,34:145:5184:34:1194:-38.1067,0,-411.998 0/1:144:96,48:96:3433:48:1724:-88.1059,0,-265.555 0/1:151:104,47:104:3711:47:1684:-83.4892,0,-288.422 0/1:202:71,131:71:2544:131:4655:-295.954,0,-168.329 0/1:122:63,59:63:2228:59:2105:-124.608,0,-163.404 chr09 21869182 . 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C T 7617.36 PASS AB=0.501639;ABP=3.03166;AC=12;AF=0.285714;AN=42;AO=464;CIGAR=1X;DP=1473;DPB=1473;DPRA=1.24581;EPP=1010.57;EPPR=2181.01;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9811;NS=21;NUMALT=1;ODDS=3.46218;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16504;QR=35806;RO=1007;RPL=464;RPP=1010.57;RPPR=2181.01;RPR=0;RUN=1;SAF=464;SAP=1010.57;SAR=0;SRF=1007;SRP=2189.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:41,45:41:1450:45:1607:-119.031,0,-104.906 0/1:33:11,22:11:381:22:792:-61.6717,0,-24.6866 0/1:89:37,52:37:1307:52:1834:-138.548,0,-91.1391 0/0:91:90,1:90:3198:1:36:0,-23.7955,-284.445 0/1:196:112,84:112:3990:84:3000:-211.228,0,-300.289 0/1:82:34,48:34:1224:48:1707:-129.231,0,-85.7826 0/1:103:52,50:52:1842:50:1763:-127.888,0,-134.994 0/1:31:13,18:13:460:18:629:-47.6018,0,-32.4034 0/0:83:83,0:83:2984:0:0:0,-24.9855,-268.791 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:27:26,1:26:927:1:36:0,-4.52953,-80.1491 0/0:96:95,0:95:3391:0:0:0,-28.5978,-305.144 0/0:120:120,0:120:4294:0:0:0,-36.1236,-386.636 0/1:94:35,59:35:1223:59:2093:-160.341,0,-82.0733 0/1:44:21,23:21:748:23:828:-61.5988,0,-54.4 0/1:51:34,17:34:1216:17:612:-40.0609,0,-94.394 0/1:42:21,21:21:752:21:743:-54.5501,0,-55.363 0/1:64:44,20:44:1576:20:716:-45.5018,0,-122.866 0/0:82:79,3:79:2778:3:108:0,-14.6093,-240.185 0/0:41:41,0:41:1421:0:0:0,-12.3422,-128.075 chr09 21882916 . G C 7701.06 PASS AB=0.505459;ABP=3.24736;AC=12;AF=0.285714;AN=42;AO=468;CIGAR=1X;DP=1465;DPB=1465;DPRA=1.27429;EPP=1019.26;EPPR=2165.8;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.953;MQMR=59.9809;NS=21;NUMALT=1;ODDS=2.7691;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16641;QR=35537;RO=996;RPL=468;RPP=1019.26;RPPR=2165.8;RPR=0;RUN=1;SAF=468;SAP=1019.26;SAR=0;SRF=996;SRP=2165.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:41,47:41:1449:47:1680:-124.91,0,-104.213 0/1:32:11,21:11:396:21:741:-57.3786,0,-26.3498 0/1:89:38,51:38:1349:51:1823:-137.559,0,-94.9166 0/0:90:88,1:88:3135:1:32:0,-23.9322,-279.157 0/1:199:113,86:113:4023:86:3068:-216.442,0,-302.355 0/1:82:33,49:33:1160:49:1743:-132.469,0,-80.0195 0/1:100:51,49:51:1832:49:1734:-126.24,0,-135.058 0/1:31:12,19:12:428:19:667:-51.0227,0,-29.5269 0/0:81:81,0:81:2896:0:0:0,-24.3834,-260.876 0/0:13:13,0:13:459:0:0:0,-3.91339,-41.6441 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7255 0/0:28:27,1:27:968:1:36:0,-4.83056,-83.8391 0/0:94:94,0:94:3344:0:0:0,-28.2968,-301.176 0/0:118:118,0:118:4220:0:0:0,-35.5215,-379.978 0/1:93:35,58:35:1260:58:2072:-158.755,0,-85.7097 0/1:43:20,23:20:720:23:808:-60.0942,0,-52.1845 0/1:52:34,18:34:1224:18:648:-42.9983,0,-94.8135 0/1:43:21,22:21:748:22:773:-56.9452,0,-54.701 0/1:64:44,20:44:1584:20:708:-44.7797,0,-123.586 0/0:81:78,3:78:2775:3:108:0,-14.3083,-239.916 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.833 chr09 21889946 . GAACGATG CAATGATG,CAATGATA 21183.3 PASS AB=0.513742,0.479915;ABP=3.78615,4.6676;AC=30,12;AF=0.714286,0.285714;AN=42;AO=575,228;CIGAR=1X2M1X4M,1X2M1X3M1X;DP=806;DPB=806;DPRA=0,1.15604;EPP=49.5402,3.61984;EPPR=0;GTI=0;LEN=8,8;MEANALT=1.71429,2.15385;MQM=59.72,54.1447;MQMR=0;NS=21;NUMALT=2;ODDS=5.47798;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20189,8017;QR=0;RO=0;RPL=575,228;RPP=1251.61,498.106;RPPR=0;RPR=0,0;RUN=1,1;SAF=343,118;SAP=49.5402,3.61984;SAR=232,110;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:30:0,16,14:0:0:16,14:570,497:-87.212,-40.7511,-35.9346,-46.8159,0,-42.6015 1/2:29:0,16,13:0:0:16,13:561,451:-82.4858,-36.8321,-32.0157,-46.0013,0,-42.0879 1/2:15:0,5,10:0:0:5,10:179,346:-43.0501,-28.4487,-26.9435,-14.9552,0,-11.9449 1/1:43:0,43,0:0:0:43,0:1507,0:-135.916,-12.9443,0,-135.916,-12.9443,-135.916 1/2:50:0,27,23:0:0:27,23:958,808:-144.023,-65.9674,-57.8396,-78.4079,0,-71.4842 1/2:26:0,11,15:0:0:11,15:375,527:-73.5,-43.1142,-39.8029,-30.7303,0,-26.2149 1/2:58:0,24,34:0:0:24,34:841,1199:-164.163,-95.7328,-88.5081,-68.7785,0,-58.5435 1/2:32:0,18,14:0:0:18,14:618,489:-90.224,-40.0503,-34.6317,-50.5199,0,-46.3054 1/1:53:0,52,1:0:0:52,1:1814,36:-163.184,-15.6536,0,-160.274,-12.3878,-159.973 1/1:6:0,6,0:0:0:6,0:209,0:-19.1501,-1.80618,0,-19.1501,-1.80618,-19.1501 1/1:5:0,5,0:0:0:5,0:179,0:-16.4604,-1.50515,0,-16.4604,-1.50515,-16.4604 1/1:18:0,18,0:0:0:18,0:632,0:-57.1957,-5.41854,0,-57.1957,-5.41854,-57.1957 1/1:46:0,46,0:0:0:46,0:1637,0:-147.614,-13.8474,0,-147.614,-13.8474,-147.614 1/1:37:0,37,0:0:0:37,0:1289,0:-116.301,-11.1381,0,-116.301,-11.1381,-116.301 1/2:42:0,21,20:0:0:21,20:728,710:-116.951,-57.7849,-51.4633,-59.1576,0,-53.137 1/2:10:0,8,2:0:0:8,2:277,71:-28.5724,-6.12456,-3.71632,-22.8002,0,-22.1981 1/2:7:0,4,3:0:0:4,3:144,108:-20.8883,-9.13795,-7.93383,-12.1095,0,-11.2064 1/2:103:0,47,56:0:0:47,56:1639,1952:-291.062,-157.771,-143.623,-133.638,0,-116.78 1/2:71:0,46,23:0:0:46,23:1635,823:-200.248,-67.0136,-53.1662,-133.231,0,-126.307 1/1:30:0,30,0:0:0:30,0:1059,0:-95.6201,-9.0309,0,-95.6201,-9.0309,-95.6201 1/1:95:0,95,0:0:0:95,0:3338,0:-300.614,-28.5979,0,-300.614,-28.5979,-300.614 chr09 21902942 . ATTC GTTA,GTTC 59869.6 PASS AB=0.51243,0.485033;ABP=5.65551,6.84536;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1951,957;CIGAR=1X2M1X,1X3M;DP=2914;DPB=2914.25;DPRA=0,1.5556;EPP=4239.55,2081.11;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.90476,2.38462;MQM=59.1978,59.9572;MQMR=0;NS=21;NUMALT=2;ODDS=2.61549;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=68351,34277;QR=0;RO=0;RPL=0,0;RPP=4239.55,2081.11;RPPR=0;RPR=1951,957;RUN=1,1;SAF=1951,957;SAP=4239.55,2081.11;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:199:0,103,96:0:0:103,96:3624,3436:-575.449,-280.554,-249.548,-295.249,0,-266.35 1/2:76:0,43,33:0:0:43,33:1513,1188:-220.379,-97.2946,-84.3503,-123.441,0,-113.507 1/2:165:0,84,81:0:0:84,81:2976,2896:-478.885,-236.493,-211.206,-242.748,0,-218.365 1/1:194:0,194,0:0:0:194,0:6774,0:-609.567,-58.3998,0,-609.567,-58.3998,-609.567 1/2:291:0,145,145:0:0:145,145:5106,5189:-837.756,-423.133,-379.484,-414.657,0,-371.008 1/2:115:0,56,58:0:0:56,58:1980,2079:-330.422,-169.532,-152.674,-160.886,0,-143.426 1/2:260:0,122,136:0:0:122,136:4136,4863:-731.474,-396.643,-359.917,-334.938,0,-293.998 1/2:200:0,94,106:0:0:94,106:3260,3797:-574.429,-309.657,-281.36,-264.765,0,-232.855 1/1:189:0,188,0:0:0:188,0:6542,0:-588.079,-56.5936,0,-588.079,-56.5936,-588.079 1/1:27:0,27,0:0:0:27,0:960,0:-86.7103,-8.12781,0,-86.7103,-8.12781,-86.7103 1/1:15:0,15,0:0:0:15,0:527,0:-47.7605,-4.51545,0,-47.7605,-4.51545,-47.7605 1/1:26:0,26,0:0:0:26,0:934,0:-84.3793,-7.82678,0,-84.3793,-7.82678,-84.3793 1/1:117:0,117,0:0:0:117,0:4121,0:-370.846,-35.2205,0,-370.846,-35.2205,-370.846 1/1:209:0,209,0:0:0:209,0:7324,0:-659.038,-62.9153,0,-659.038,-62.9153,-659.038 1/2:250:0,115,134:0:0:115,134:4041,4816:-721.778,-392.915,-358.297,-328.878,0,-288.54 1/2:96:0,55,41:0:0:55,41:1945,1468:-278.449,-120.074,-103.517,-158.731,0,-146.389 1/2:130:0,76,54:0:0:76,54:2693,1940:-377.865,-158.621,-135.742,-219.602,0,-203.346 1/2:118:0,66,52:0:0:66,52:2327,1862:-341.193,-152.205,-132.337,-189.343,0,-173.689 1/2:71:0,51,20:0:0:51,20:1777,707:-202.342,-57.934,-42.5814,-144.76,0,-138.739 1/1:117:0,116,1:0:0:116,1:4067,36:-365.648,-34.9195,0,-362.711,-31.6222,-362.41 1/1:49:0,49,0:0:0:49,0:1724,0:-155.384,-14.7505,0,-155.384,-14.7505,-155.384 chr09 21903238 . C T 21568.2 PASS AB=0.500871;ABP=3.01787;AC=30;AF=0.714286;AN=42;AO=1100;CIGAR=1X;DP=1676;DPB=1676;DPRA=0;EPP=2391.63;EPPR=1253.78;GTI=1;LEN=1;MEANALT=1;MQM=53.2745;MQMR=59.6319;NS=21;NUMALT=1;ODDS=1.67013;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39216;QR=20593;RO=576;RPL=1;RPP=2382.95;RPPR=1253.78;RPR=1099;RUN=1;SAF=1;SAP=2382.95;SAR=1099;SRF=0;SRP=1253.78;SRR=576;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:99:51,48:51:1802:48:1724:-124.901,0,-132.631 0/1:45:22,23:22:769:23:824:-60.8619,0,-55.9823 0/1:69:37,32:37:1324:32:1144:-82.3152,0,-98.6756 1/1:46:0,46:0:0:46:1648:-148.286,-13.8474,0 0/1:202:115,87:115:4132:87:3120:-218.763,0,-311.226 0/1:68:36,32:36:1292:32:1148:-82.8461,0,-96.1104 0/1:103:48,55:48:1712:55:1968:-146.211,0,-123.356 0/1:107:52,55:52:1872:55:1972:-144.65,0,-136.527 1/1:205:1,204:1:36:204:7225:-645.246,-58.1129,0 1/1:15:1,14:1:36:14:498:-41.4622,-0.922277,0 1/1:11:0,11:0:0:11:396:-35.1653,-3.31133,0 1/1:23:0,23:0:0:23:824:-74.0068,-6.92369,0 1/1:65:0,65:0:0:65:2329:-208.21,-19.567,0 1/1:77:0,77:0:0:77:2718:-243.864,-23.1793,0 0/1:144:61,83:61:2183:83:2972:-223.429,0,-153.139 0/1:53:22,31:22:788:31:1100:-83.1351,0,-55.2902 0/1:63:40,23:40:1432:23:812:-54.3674,0,-110.206 0/1:134:62,72:62:2211:72:2584:-191.93,0,-158.903 0/1:61:27,34:27:968:34:1189:-88.7695,0,-69.0745 1/1:53:1,52:1:36:52:1845:-162.382,-12.3563,0 1/1:33:0,33:0:0:33:1176:-105.264,-9.93399,0 chr09 21922486 . G A 15041.3 PASS AB=0.48;ABP=9.52472;AC=12;AF=0.285714;AN=42;AO=904;CIGAR=1X;DP=2871;DPB=2871;DPRA=1.34987;EPP=1966.02;EPPR=4272.13;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9226;MQMR=59.9822;NS=21;NUMALT=1;ODDS=1.36808;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32387;QR=70169;RO=1966;RPL=0;RPP=1966.02;RPPR=4272.13;RPR=904;RUN=1;SAF=904;SAP=1966.02;SAR=0;SRF=1966;SRP=4272.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:167:84,83:84:3000:83:2969:-216.15,0,-219.96 0/1:151:58,92:58:2084:92:3281:-250.034,0,-142.355 0/1:131:77,54:77:2748:54:1925:-134.09,0,-208.128 0/0:116:116,0:116:4153:0:0:0,-34.9195,-373.951 0/1:266:132,134:132:4717:134:4792:-351.363,0,-344.614 0/1:102:56,46:56:1978:46:1648:-117.903,0,-147.586 0/1:241:132,109:132:4694:109:3924:-280.785,0,-350.072 0/1:110:52,58:52:1841:58:2084:-154.712,0,-132.855 0/0:229:229,0:229:8167:0:0:0,-68.9359,-735.038 0/0:30:30,0:30:1061:0:0:0,-9.0309,-95.7994 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:37:37,0:37:1317:0:0:0,-11.1381,-118.83 0/0:143:143,0:143:5109:0:0:0,-43.0473,-459.952 0/0:215:215,0:215:7697:0:0:0,-64.7214,-692.762 0/1:242:136,106:136:4831:106:3796:-268.989,0,-362.093 0/1:115:60,55:60:2152:55:1972:-143.136,0,-159.329 0/1:98:56,42:56:2008:42:1512:-106.874,0,-151.448 0/1:171:75,96:75:2673:96:3444:-258.696,0,-189.338 0/1:81:56,25:56:2012:25:896:-56.4905,0,-156.97 0/0:149:146,3:146:5221:3:108:0,-34.7783,-459.952 0/0:71:70,1:70:2490:1:36:0,-17.7749,-220.754 chr09 21959571 . G A 12337.1 PASS AB=0.457369;ABP=28.9304;AC=12;AF=0.285714;AN=42;AO=753;CIGAR=1X;DP=2570;DPB=2570;DPRA=1.16235;EPP=1638.13;EPPR=3948.58;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9598;NS=21;NUMALT=1;ODDS=6.85682;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26996;QR=64681;RO=1817;RPL=753;RPP=1638.13;RPPR=3948.58;RPR=0;RUN=1;SAF=0;SAP=1638.13;SAR=753;SRF=0;SRP=3948.58;SRR=1817;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:58,61:58:2056:61:2188:-161.363,0,-149.489 0/1:86:41,45:41:1468:45:1616:-119.841,0,-106.528 0/1:140:60,80:60:2125:80:2880:-217.291,0,-149.373 0/0:179:179,0:179:6404:0:0:0,-53.8844,-576.449 0/1:200:121,79:121:4288:79:2822:-194.013,0,-325.892 0/1:296:159,137:159:5660:137:4916:-353.485,0,-420.419 0/1:221:136,85:136:4840:85:3041:-207.39,0,-369.23 0/1:147:79,68:79:2816:68:2425:-174.253,0,-209.429 0/0:229:229,0:229:8164:0:0:0,-68.9359,-734.724 0/0:17:16,1:16:568:1:36:0,-1.51923,-47.8536 0/0:4:4,0:4:129:0:0:0,-1.20412,-11.9277 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/0:141:141,0:141:5021:0:0:0,-42.4452,-452.038 0/0:138:137,1:137:4860:1:36:0,-37.9439,-432.771 0/1:174:88,86:88:3140:86:3080:-225.049,0,-230.447 0/1:57:33,24:33:1188:24:864:-60.9239,0,-90.0683 0/1:98:53,45:53:1892:45:1620:-116.589,0,-141.057 0/1:56:31,25:31:1104:25:896:-64.1027,0,-82.813 0/1:48:32,16:32:1119:16:576:-37.7255,0,-86.5674 0/0:131:131,0:131:4664:0:0:0,-39.4349,-419.925 0/0:55:55,0:55:1959:0:0:0,-16.5566,-176.58 chr09 21999917 . C T 31505.6 PASS AB=0.49486;ABP=3.32279;AC=30;AF=0.714286;AN=42;AO=1542;CIGAR=1X;DP=2230;DPB=2230;DPRA=0;EPP=3351.42;EPPR=1492.64;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9903;MQMR=59.9942;NS=21;NUMALT=1;ODDS=3.42982;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55213;QR=24434;RO=686;RPL=1542;RPP=3351.42;RPPR=1492.64;RPR=0;RUN=1;SAF=0;SAP=3351.42;SAR=1542;SRF=0;SRP=1492.64;SRR=686;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:65,54:65:2317:54:1940:-139.054,0,-172.964 0/1:106:68,38:68:2444:38:1360:-90.7914,0,-188.305 0/1:144:64,80:64:2304:80:2865:-214.737,0,-164.272 1/1:155:0,155:0:0:155:5548:-499.442,-46.6597,0 0/1:110:61,49:61:2173:49:1749:-124.579,0,-162.721 0/1:114:61,52:61:2177:52:1864:-133.663,0,-161.818 0/1:89:32,57:32:1118:57:2048:-157.8,0,-74.1318 0/1:127:59,68:59:2097:68:2433:-180.993,0,-150.767 1/1:245:0,245:0:0:245:8804:-792.34,-73.7524,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 1/1:145:0,145:0:0:145:5208:-468.857,-43.6494,0 1/1:154:0,154:0:0:154:5462:-491.706,-46.3586,0 0/1:162:82,80:82:2909:80:2876:-210.309,0,-213.278 0/1:125:76,48:76:2694:48:1679:-113.703,0,-205.015 0/1:114:53,61:53:1896:61:2181:-162.237,0,-136.601 0/1:74:43,31:43:1532:31:1112:-78.1151,0,-115.897 0/1:78:22,56:22:773:56:2016:-158.233,0,-46.4091 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 chr09 22000731 . T C 42213.3 PASS AB=0.472823;ABP=12.8068;AC=30;AF=0.714286;AN=42;AO=1636;CIGAR=1X;DP=2443;DPB=2443;DPRA=0;EPP=3555.54;EPPR=1740.2;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9438;MQMR=60;NS=21;NUMALT=1;ODDS=0.717304;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57837;QR=28388;RO=804;RPL=849;RPP=8.11246;RPPR=9.23303;RPR=787;RUN=1;SAF=849;SAP=8.11246;SAR=787;SRF=427;SRP=9.76239;SRR=377;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:68,61:68:2395:61:2140:-154.031,0,-176.975 0/1:121:70,51:70:2482:51:1804:-126.215,0,-187.208 0/1:75:49,26:49:1756:26:928:-61.261,0,-135.747 1/1:135:0,135:0:0:135:4812:-433.236,-40.6391,0 0/1:200:111,89:111:3943:89:3155:-223.97,0,-294.858 0/1:96:53,43:53:1869:43:1527:-108.823,0,-139.588 0/1:198:114,84:114:4016:84:2985:-209.279,0,-302.029 0/1:141:76,65:76:2716:65:2314:-166.075,0,-202.239 1/1:190:1,189:1:36:189:6686:-598.22,-53.5974,0 1/1:13:0,13:0:0:13:452:-41.0097,-3.91339,0 1/1:10:0,10:0:0:10:352:-32.0176,-3.0103,0 1/1:34:0,34:0:0:34:1190:-107.402,-10.235,0 1/1:137:0,136:0:0:136:4784:-430.355,-40.9401,0 1/1:136:0,136:0:0:136:4799:-430.704,-40.9401,0 0/1:203:97,105:97:3442:105:3721:-273.922,0,-248.826 0/1:79:35,44:35:1223:44:1568:-117.63,0,-86.5915 0/1:69:40,29:40:1389:29:1044:-73.5037,0,-104.534 0/1:112:55,56:55:1889:56:1957:-142.776,0,-136.66 0/1:104:35,69:35:1232:69:2419:-186.658,0,-79.8769 1/1:143:0,143:0:0:143:5043:-454.017,-43.0473,0 1/1:118:0,118:0:0:118:4157:-374.309,-35.5215,0 chr09 22020241 . ATGAC GTGAT,GTGAC 31504.3 PASS AB=0.347619,0.64;ABP=214.781,181.766;AC=30,12;AF=0.714286,0.285714;AN=42;AO=853,673;CIGAR=1X3M1X,1X4M;DP=1541;DPB=1541;DPRA=0,1.41091;EPP=1855.28,1455.74;EPPR=0;GTI=4;LEN=5,1;MEANALT=2.14286,2.69231;MQM=59.9297,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.8094;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30200,23987;QR=0;RO=0;RPL=0,1;RPP=1855.28,1455.74;RPPR=0;RPR=853,672;RUN=1,1;SAF=853,673;SAP=1855.28,1464.41;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:62:0,9,50:0:0:9,50:324,1792:-172.699,-146.261,-143.552,-26.5241,0,-11.4726 1/2:76:0,15,59:0:0:15,59:532,2120:-216.29,-172.948,-168.432,-43.3384,0,-25.5776 1/2:69:0,12,56:0:0:12,56:421,1989:-196.326,-162.065,-158.453,-34.2531,0,-17.3955 1/1:28:0,28,0:0:0:28,0:995,0:-89.7953,-8.42884,0,-89.7953,-8.42884,-89.7953 1/2:99:0,30,69:0:0:30,69:1063,2461:-287.568,-200.972,-191.941,-86.951,0,-66.1799 1/2:76:0,28,47:0:0:28,47:986,1673:-216.712,-136.44,-128.011,-80.3572,0,-66.2088 1/2:82:0,22,59:0:0:22,59:776,2105:-234.929,-171.744,-165.122,-63.3216,0,-45.5608 1/2:60:0,9,48:0:0:9,48:324,1698:-164.756,-138.318,-135.609,-26.4567,0,-12.0073 1/1:32:0,32,0:0:0:32,0:1126,0:-101.647,-9.63296,0,-101.647,-9.63296,-101.647 1/1:95:0,94,0:0:0:94,0:3330,0:-299.649,-28.2968,0,-299.649,-28.2968,-299.649 1/1:88:0,88,0:0:0:88,0:3144,0:-283.176,-26.4906,0,-283.176,-26.4906,-283.176 1/1:156:0,155,0:0:0:155,0:5508,0:-495.485,-46.6597,0,-495.485,-46.6597,-495.485 1/1:31:0,31,0:0:0:31,0:1074,0:-96.9667,-9.33193,0,-96.9667,-9.33193,-96.9667 1/1:26:0,26,0:0:0:26,0:912,0:-82.3945,-7.82678,0,-82.3945,-7.82678,-82.3945 1/2:177:0,27,149:0:0:27,149:959,5322:-512.141,-433.997,-425.87,-78.2354,0,-33.3819 1/2:41:0,6,35:0:0:6,35:210,1237:-118.181,-101.096,-99.2901,-17.4355,0,-6.89947 1/2:28:0,6,22:0:0:6,22:212,792:-82.2472,-64.983,-63.1768,-17.6188,0,-10.9961 1/2:237:0,186,50:0:0:186,50:6558,1766:-677.757,-143.808,-87.8166,-533.942,0,-518.891 1/2:43:0,15,28:0:0:15,28:537,996:-125.318,-81.5255,-77.01,-44.15,0,-35.7211 1/1:23:0,22,1:0:0:22,1:780,36:-70.1637,-6.62266,0,-67.226,-3.32542,-66.925 1/1:12:0,12,0:0:0:12,0:429,0:-38.9497,-3.61236,0,-38.9497,-3.61236,-38.9497 chr09 22020251 . A G 17547.6 PASS AB=0.344262;ABP=221.475;AC=30;AF=0.714286;AN=42;AO=842;CIGAR=1X;DP=1523;DPB=1523;DPRA=0;EPP=1445.94;EPPR=992.287;GTI=4;LEN=1;MEANALT=1;MQM=59.9204;MQMR=60;NS=21;NUMALT=1;ODDS=1.1206;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30145;QR=24371;RO=681;RPL=795;RPP=1445.94;RPPR=992.287;RPR=47;RUN=1;SAF=842;SAP=1831.39;SAR=0;SRF=681;SRP=1481.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:53,9:53:1885:9:324:-10.842,0,-151.263 0/1:76:61,15:61:2184:15:540:-26.0583,0,-173.948 0/1:69:57,12:57:2029:12:432:-18.4501,0,-162.11 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 0/1:96:68,28:68:2432:28:1004:-61.777,0,-190.237 0/1:75:47,28:47:1684:28:995:-67.2405,0,-129.27 0/1:81:60,21:60:2152:21:756:-43.9838,0,-169.564 0/1:61:52,9:52:1868:9:309:-9.77788,0,-150.036 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 1/1:93:0,93:0:0:93:3330:-299.918,-27.9958,0 1/1:88:0,88:0:0:88:3147:-283.437,-26.4906,0 1/1:155:0,155:0:0:155:5568:-501.224,-46.6597,0 1/1:31:0,31:0:0:31:1104:-99.6706,-9.33193,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 0/1:175:148,27:148:5301:27:968:-34.7571,0,-424.542 0/1:39:34,5:34:1220:5:180:-4.8119,0,-98.3666 0/1:27:21,6:21:752:6:216:-11.6627,0,-59.8784 0/1:232:51,181:51:1824:181:6471:-512.611,0,-94.6021 0/1:44:28,16:28:1004:16:576:-38.9297,0,-77.4305 1/1:22:1,21:1:36:21:737:-63.0524,-3.02439,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 chr09 22072314 . A G 13583.1 PASS AB=0.421182;ABP=90.6394;AC=12;AF=0.285714;AN=42;AO=686;CIGAR=1X;DP=2589;DPB=2589;DPRA=1.31303;EPP=1492.64;EPPR=4133.15;GTI=0;LEN=1;MEANALT=1.07143;MQM=58.9417;MQMR=59.9422;NS=21;NUMALT=1;ODDS=17.8739;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24223;QR=67979;RO=1902;RPL=535;RPP=469.769;RPPR=1037.72;RPR=151;RUN=1;SAF=535;SAP=469.769;SAR=151;SRF=1427;SRP=1037.72;SRR=475;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:175:112,63:112:4012:63:2193:-144.872,0,-308.589 0/1:86:57,29:57:2019:29:1025:-66.6729,0,-156.094 0/1:119:70,49:70:2488:49:1732:-119.798,0,-188.351 0/0:233:233,0:233:8352:0:0:0,-70.14,-751.663 0/1:271:162,109:162:5796:109:3867:-266.493,0,-440.175 0/1:84:50,34:50:1800:34:1192:-82.2912,0,-136.996 0/1:156:86,69:86:3080:69:2427:-171.522,0,-230.409 0/1:93:51,42:51:1836:42:1449:-102.701,0,-137.395 0/0:224:224,0:224:8002:0:0:0,-67.4307,-720.202 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.521 0/0:8:8,0:8:276:0:0:0,-2.40824,-25.1752 0/0:26:26,0:26:920:0:0:0,-7.82678,-83.1171 0/0:155:154,1:154:5506:1:36:0,-43.0618,-492.018 0/0:147:147,0:147:5247:0:0:0,-44.2514,-472.368 0/1:206:114,92:114:4080:92:3274:-232.658,0,-305.184 0/1:116:55,61:55:1959:61:2150:-158.736,0,-141.665 0/1:108:56,52:56:2008:52:1854:-134.542,0,-148.482 0/1:97:52,45:52:1839:45:1600:-115.017,0,-136.484 0/1:113:74,39:74:2644:39:1388:-91.194,0,-204.191 0/0:96:95,1:95:3387:1:36:0,-25.3006,-301.448 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.591 chr09 22072319 . C T 17024.5 PASS AB=0.431567;ABP=76.7157;AC=12;AF=0.285714;AN=42;AO=784;CIGAR=1X;DP=3050;DPB=3050;DPRA=1.22316;EPP=1705.44;EPPR=4921.4;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.139;MQMR=59.9669;NS=21;NUMALT=1;ODDS=20.2565;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27948;QR=80385;RO=2265;RPL=417;RPP=9.93464;RPPR=4.32277;RPR=367;RUN=1;SAF=417;SAP=9.93464;SAR=367;SRF=1151;SRP=4.32277;SRR=1114;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:132,79:132:4655:79:2806:-189.192,0,-355.592 0/1:36:9,27:9:320:27:968:-76.6003,0,-18.3053 0/1:159:99,60:99:3495:60:2156:-145.898,0,-266.898 0/0:262:262,0:262:9311:0:0:0,-78.8699,-837.955 0/1:317:188,129:188:6656:129:4558:-314.763,0,-503.696 0/1:67:39,28:39:1396:28:1004:-70.5069,0,-105.77 0/1:81:31,50:31:1091:50:1784:-136.459,0,-74.1071 0/1:132:84,48:84:3008:48:1728:-116,0,-231.215 0/0:298:298,0:298:10605:0:0:0,-89.7069,-954.37 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.413 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.604 0/0:177:176,1:176:6244:1:36:0,-49.6845,-558.413 0/0:195:195,0:195:6895:0:0:0,-58.7008,-620.626 0/1:248:136,111:136:4819:111:3959:-281.564,0,-359.143 0/1:131:62,69:62:2202:69:2464:-182.44,0,-159.009 0/1:122:65,57:65:2310:57:2044:-147.393,0,-171.434 0/1:161:85,76:85:2976:76:2703:-195.003,0,-219.609 0/1:147:99,48:99:3536:48:1702:-109.204,0,-274.198 0/0:176:175,1:175:6256:1:36:0,-49.383,-559.538 0/0:35:35,0:35:1218:0:0:0,-10.536,-109.922 chr09 22072365 . 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A G 19550.8 PASS AB=0.413015;ABP=52.4985;AC=29;AF=0.690476;AN=42;AO=944;CIGAR=1X;DP=1438;DPB=1438;DPRA=0;EPP=2026.91;EPPR=1067.05;GTI=1;LEN=1;MEANALT=1;MQM=59.9809;MQMR=59.9575;NS=21;NUMALT=1;ODDS=5.2047;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33798;QR=17728;RO=494;RPL=941;RPP=2026.91;RPPR=1067.05;RPR=3;RUN=1;SAF=944;SAP=2052.88;SAR=0;SRF=494;SRP=1075.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:55,13:55:1976:13:468:-21.9896,0,-157.645 0/1:31:28,3:28:1004:3:108:-0.74324,0,-81.3439 0/1:76:39,37:39:1400:37:1328:-96.944,0,-103.421 1/1:60:0,60:0:0:60:2142:-193.046,-18.0618,0 0/1:131:95,36:95:3404:36:1292:-77.1488,0,-267.111 0/1:38:26,12:26:936:12:428:-27.4197,0,-73.1157 0/1:76:46,30:46:1652:30:1080:-74.635,0,-126.09 0/1:122:54,68:54:1944:68:2429:-182.138,0,-138.509 1/1:85:0,85:0:0:85:3029:-272.84,-25.5876,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 1/1:127:0,127:0:0:127:4568:-411.283,-38.2308,0 1/1:91:0,91:0:0:91:3247:-292.451,-27.3937,0 0/1:113:56,57:56:2012:57:2036:-149.495,0,-147.337 0/1:31:21,10:21:744:10:360:-23.4124,0,-57.9524 0/0:56:52,4:52:1864:4:140:0,-3.9131,-155.095 0/1:33:13,20:13:468:20:720:-55.1948,0,-32.5257 0/1:34:9,25:9:324:25:896:-70.7253,0,-19.2708 1/1:198:0,198:0:0:198:7089:-638.059,-59.6039,0 1/1:16:0,16:0:0:16:574:-51.9943,-4.81648,0 chr09 22375653 . A T 19542.3 PASS AB=0.421123;ABP=43.4322;AC=29;AF=0.690476;AN=42;AO=950;CIGAR=1X;DP=1437;DPB=1437;DPRA=0;EPP=2065.91;EPPR=1054;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.9895;MQMR=59.9566;NS=21;NUMALT=1;ODDS=6.2182;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34018;QR=17313;RO=484;RPL=950;RPP=2065.91;RPPR=1054;RPR=0;RUN=1;SAF=950;SAP=2065.91;SAR=0;SRF=484;SRP=1054;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:53,13:53:1900:13:460:-21.8674,0,-151.41 0/1:31:28,3:28:1008:3:108:-0.74324,0,-81.7044 0/1:77:39,38:39:1400:38:1360:-99.5213,0,-103.12 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 0/1:133:96,37:96:3444:37:1332:-80.1454,0,-270.107 0/1:38:25,13:25:888:13:468:-31.0205,0,-68.7953 0/1:74:44,30:44:1572:30:1080:-75.237,0,-119.495 0/1:123:53,70:53:1888:70:2516:-189.665,0,-133.171 1/1:84:1,83:1:32:83:2960:-263.432,-22.0872,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:37:0,37:0:0:37:1324:-119.462,-11.1381,0 1/1:128:0,126:0:0:126:4530:-407.525,-37.9298,0 1/1:92:0,92:0:0:92:3299:-297.128,-27.6948,0 0/1:111:54,57:54:1936:57:2035:-150.004,0,-141.102 0/1:29:18,10:18:640:10:360:-24.0555,0,-49.2449 0/0:54:51,3:51:1828:3:108:0,-6.18045,-154.726 0/1:32:13,19:13:468:19:680:-51.8962,0,-32.8267 0/1:34:9,25:9:309:25:896:-70.7253,0,-17.9057 1/1:200:0,200:0:0:200:7130:-641.758,-60.206,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 chr09 22375654 . C A 8514.72 PASS AB=0.575839;ABP=40.2285;AC=13;AF=0.309524;AN=42;AO=480;CIGAR=1X;DP=1440;DPB=1440;DPRA=0.9375;EPP=1045.32;EPPR=2063.77;GTI=1;LEN=1;MEANALT=1;MQM=59.9562;MQMR=59.9613;NS=21;NUMALT=1;ODDS=6.64338;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17071;QR=34143;RO=957;RPL=480;RPP=1045.32;RPPR=2063.77;RPR=0;RUN=1;SAF=480;SAP=1045.32;SAR=0;SRF=957;SRP=2081.11;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:14,54:14:504:54:1944:-154.766,0,-25.2104 0/1:29:3,26:3:108:26:932:-75.469,0,-1.3453 0/1:75:38,37:38:1368:37:1328:-97.245,0,-100.844 0/0:60:60,0:60:2143:0:0:0,-18.0618,-193.137 0/1:131:38,93:38:1364:93:3287:-256.611,0,-83.6258 0/1:39:13,26:13:455:26:917:-71.0998,0,-29.5418 0/1:74:30,44:30:1064:44:1580:-120.215,0,-73.7954 0/1:122:68,54:68:2403:54:1910:-135.448,0,-179.799 0/0:88:88,0:88:3156:0:0:0,-26.4906,-284.256 0/0:12:12,0:12:423:0:0:0,-3.61236,-38.4051 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:37:37,0:37:1311:0:0:0,-11.1381,-118.291 0/0:127:127,0:127:4519:0:0:0,-38.2308,-406.877 0/0:91:91,0:91:3251:0:0:0,-27.3937,-292.811 0/1:114:58,56:58:2067:56:2001:-146.045,0,-151.983 0/1:29:10,19:10:356:19:665:-51.4438,0,-23.6514 1/1:55:4,51:4:144:51:1806:-149.506,-3.24303,0 0/1:32:19,13:19:680:13:468:-32.8267,0,-51.8962 0/1:32:25,7:25:892:7:233:-11.6613,0,-70.9667 0/0:204:201,0:201:7188:0:0:0,-60.507,-646.609 0/0:17:17,0:17:603:0:0:0,-5.11751,-54.5995 chr09 22375664 . TGAAA TGAAT,CGAAT 30319.8 PASS AB=0.419571,0.576408;ABP=44.9261,40.8393;AC=29,13;AF=0.690476,0.309524;AN=42;AO=951,482;CIGAR=4M1X,1X3M1X;DP=1438;DPB=1438;DPRA=0,0.945755;EPP=2050.75,1049.66;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=1.7619,2.25;MQM=59.9674,59.9834;MQMR=60;NS=21;NUMALT=2;ODDS=6.28719;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34025,16705;QR=23;RO=1;RPL=949,482;RPP=2050.75,1049.66;RPPR=5.18177;RPR=2,0;RUN=1,1;SAF=951,482;SAP=2068.08,1049.66;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:62:0,14,48:0:0:14,48:500,1662:-176.166,-135.416,-131.202,-41.1041,0,-26.6546 1/2:31:0,3,28:0:0:3,28:108,970:-87.9951,-79.1816,-78.2785,-9.17208,0,-0.74324 1/2:75:0,38,37:0:0:38,37:1364,1267:-214.461,-103.189,-91.7502,-111.622,0,-100.483 1/1:61:0,61,0:0:0:61,0:2184,0:-196.826,-18.3628,0,-196.826,-18.3628,-196.826 1/2:132:0,38,93:0:0:38,93:1349,3244:-373.885,-263.969,-252.53,-110.046,0,-82.05 1/2:40:0,13,27:0:0:13,27:468,932:-114.25,-76.0586,-72.1452,-38.5463,0,-30.4184 1/2:75:0,29,46:0:0:29,46:1040,1614:-216.531,-131.702,-122.972,-85.1845,0,-71.3371 1/2:124:0,69,54:0:0:69,54:2476,1867:-353.781,-151.809,-131.038,-202.081,0,-185.825 1/1:87:1,86,0:1:23:86,0:3079,0:-275.029,-23.8897,0,-275.331,-25.8886,-277.098 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:37:0,37,0:0:0:37,0:1305,0:-117.749,-11.1381,0,-117.749,-11.1381,-117.749 1/1:124:0,124,0:0:0:124,0:4452,0:-400.849,-37.3277,0,-400.849,-37.3277,-400.849 1/1:91:0,91,0:0:0:91,0:3249,0:-292.63,-27.3937,0,-292.63,-27.3937,-292.63 1/2:113:0,57,56:0:0:57,56:2048,1949:-325.905,-158.828,-141.669,-167.431,0,-150.573 1/2:31:0,10,21:0:0:10,21:360,715:-87.7259,-58.3455,-55.3352,-29.734,0,-23.4124 2/2:56:0,4,52:0:0:4,52:144,1802:-162.101,-150.35,-149.146,-15.6536,-3.54406,0 1/2:32:0,19,12:0:0:19,12:680,418:-89.4971,-34.0374,-28.3178,-55.5067,0,-51.8944 1/2:31:0,23,8:0:0:23,8:828,265:-89.347,-21.7651,-14.8414,-67.9204,0,-65.5122 1/1:203:0,202,0:0:0:202,0:7203,0:-648.016,-60.8081,0,-648.016,-60.8081,-648.016 1/1:17:0,17,0:0:0:17,0:612,0:-55.4134,-5.11751,0,-55.4134,-5.11751,-55.4134 chr09 22375674 . T A 8518.87 PASS AB=0.564907;ABP=28.6622;AC=14;AF=0.333333;AN=42;AO=474;CIGAR=1X;DP=1412;DPB=1412;DPRA=0.938995;EPP=1032.29;EPPR=2022.52;GTI=0;LEN=1;MEANALT=1;MQM=59.9557;MQMR=59.967;NS=21;NUMALT=1;ODDS=6.40272;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16931;QR=33448;RO=938;RPL=474;RPP=1032.29;RPPR=2022.52;RPR=0;RUN=1;SAF=474;SAP=1032.29;SAR=0;SRF=938;SRP=2039.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:61:14,47:14:491:47:1675:-132.674,0,-26.1406 1/1:29:2,27:2:72:27:964:-80.2401,-1.89315,0 0/1:75:38,37:38:1333:37:1316:-96.1646,0,-97.6903 0/0:61:61,0:61:2171:0:0:0,-18.3628,-195.656 0/1:131:38,93:38:1351:93:3324:-259.915,0,-82.4547 0/1:38:12,26:12:432:26:928:-72.3945,0,-27.7821 0/1:73:27,46:27:964:46:1644:-126.273,0,-65.1016 0/1:121:68,53:68:2431:53:1900:-134.852,0,-182.62 0/0:86:86,0:86:3059:0:0:0,-25.8886,-275.532 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/0:126:126,0:126:4497:0:0:0,-37.9298,-404.898 0/0:90:90,0:90:3212:0:0:0,-27.0927,-289.304 0/1:113:57,56:57:2019:56:2008:-146.977,0,-147.964 0/1:29:10,19:10:360:19:672:-52.077,0,-24.0144 1/1:55:4,51:4:136:51:1820:-151.506,-3.98111,0 0/1:29:18,11:18:644:11:392:-26.8902,0,-49.5607 0/1:31:23,8:23:824:8:288:-16.9355,0,-65.1514 0/0:195:195,0:195:6980:0:0:0,-58.7008,-628.256 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 chr09 22382008 . 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G A 33895 PASS AB=0.56571;ABP=59.2296;AC=30;AF=0.714286;AN=42;AO=1682;CIGAR=1X;DP=2336;DPB=2336;DPRA=0;EPP=3655.43;EPPR=1410.14;GTI=0;LEN=1;MEANALT=1.09524;MQM=55.4114;MQMR=59.9709;NS=21;NUMALT=1;ODDS=15.2165;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59896;QR=23041;RO=652;RPL=0;RPP=3655.43;RPPR=1410.14;RPR=1682;RUN=1;SAF=0;SAP=3655.43;SAR=1682;SRF=0;SRP=1418.81;SRR=652;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:160:72,88:72:2541:88:3148:-234.976,0,-180.776 0/1:133:57,75:57:2001:75:2679:-200.261,0,-140.267 0/1:85:30,55:30:1064:55:1961:-151.049,0,-70.4841 1/1:170:0,169:0:0:169:6033:-542.251,-50.8741,0 0/1:268:124,144:124:4409:144:5101:-377.574,0,-316.307 0/1:165:64,101:64:2264:101:3620:-275.184,0,-154.351 0/1:138:64,74:64:2241:74:2579:-189.861,0,-160.363 0/1:58:34,24:34:1198:24:832:-57.4855,0,-90.6643 1/1:170:0,170:0:0:170:6090:-547.768,-51.1751,0 1/1:11:0,11:0:0:11:396:-35.8661,-3.31133,0 1/1:13:0,13:0:0:13:464:-41.9845,-3.91339,0 1/1:37:0,37:0:0:37:1324:-119.13,-11.1381,0 1/1:157:0,157:0:0:157:5608:-504.435,-47.2617,0 1/1:112:0,112:0:0:112:3964:-356.394,-33.7154,0 0/1:144:52,92:52:1823:92:3295:-252.561,0,-120.999 0/1:89:46,43:46:1639:43:1544:-112.442,0,-121.006 0/1:136:56,80:56:1961:80:2855:-215.957,0,-135.821 0/1:57:30,27:30:1072:27:940:-67.5891,0,-79.6337 0/1:66:21,45:21:756:45:1589:-123.229,0,-48.4992 1/1:117:2,115:2:72:115:4108:-361.922,-28.3838,0 1/1:50:0,50:0:0:50:1766:-158.842,-15.0515,0 chr09 22474013 . C T 42241 PASS AB=0.534014;ABP=17.7822;AC=30;AF=0.714286;AN=42;AO=1606;CIGAR=1X;DP=2295;DPB=2295;DPRA=0;EPP=39.3764;EPPR=16.3647;GTI=0;LEN=1;MEANALT=1.04762;MQM=58.8531;MQMR=59.9243;NS=21;NUMALT=1;ODDS=7.22594;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57467;QR=24469;RO=687;RPL=8;RPP=3421.25;RPPR=1460.27;RPR=1598;RUN=1;SAF=729;SAP=32.6267;SAR=877;SRF=311;SRP=16.3647;SRR=376;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:113:46,67:46:1629:67:2404:-182.554,0,-112.88 0/1:115:55,60:55:1960:60:2160:-159.952,0,-142.057 0/1:51:18,33:18:644:33:1176:-90.7952,0,-42.9381 1/1:128:0,128:0:0:128:4576:-411.79,-38.5318,0 0/1:202:104,98:104:3705:98:3493:-253.616,0,-272.844 0/1:103:51,52:51:1808:52:1857:-135.989,0,-131.995 0/1:174:87,85:87:3112:85:3039:-221.258,0,-228.166 0/1:97:40,57:40:1415:57:2044:-153.849,0,-98.4467 1/1:160:1,159:1:36:159:5657:-505.617,-44.5665,0 1/1:16:0,16:0:0:16:576:-52.1723,-4.81648,0 1/1:7:0,7:0:0:7:252:-23.0219,-2.10721,0 1/1:45:0,45:0:0:45:1586:-142.384,-13.5464,0 1/1:130:1,129:1:36:129:4620:-412.225,-35.5356,0 1/1:92:0,92:0:0:92:3300:-297.153,-27.6948,0 0/1:153:72,81:72:2567:81:2908:-215.843,0,-185.222 0/1:92:51,41:51:1801:41:1476:-105.188,0,-134.675 0/1:56:29,27:29:1036:27:968:-70.5751,0,-76.6962 0/1:166:81,85:81:2904:85:3048:-224.497,0,-211.552 0/1:148:49,99:49:1744:99:3556:-275.687,0,-112.647 1/1:115:2,113:2:72:113:4047:-356.963,-27.7817,0 1/1:132:0,132:0:0:132:4724:-424.728,-39.736,0 chr09 22474315 . 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T C 7587.27 PASS AB=0.486316;ABP=4.55547;AC=10;AF=0.238095;AN=42;AO=468;CIGAR=1X;DP=1901;DPB=1901;DPRA=1.84228;EPP=1019.26;EPPR=3112.56;GTI=0;LEN=1;MEANALT=1.07692;MQM=55.5256;MQMR=59.2039;NS=21;NUMALT=1;ODDS=8.16365;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16677;QR=51032;RO=1432;RPL=468;RPP=1019.26;RPPR=3112.56;RPR=0;RUN=1;SAF=0;SAP=1019.26;SAR=468;SRF=0;SRP=3112.56;SRR=1432;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:73,68:73:2616:68:2414:-174.967,0,-193.238 0/1:39:19,20:19:668:20:716:-52.7337,0,-48.7055 0/1:102:46,56:46:1618:56:2001:-149.572,0,-115.198 0/0:95:95,0:95:3367:0:0:0,-28.5978,-303.239 0/1:219:106,113:106:3733:113:4041:-297.37,0,-270.23 0/1:53:39,14:39:1404:14:504:-29.7218,0,-110.705 0/1:147:81,66:81:2900:66:2346:-166.402,0,-216.965 0/1:95:45,50:45:1597:50:1777:-131.152,0,-115.42 0/0:184:183,1:183:6511:1:36:0,-51.8868,-581.663 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5086 0/0:107:107,0:107:3818:0:0:0,-32.2102,-343.807 0/0:124:123,1:123:4350:1:36:0,-33.7312,-388.062 0/0:167:162,4:162:5812:4:144:0,-36.9036,-509.459 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.6433 0/1:40:12,28:12:428:28:974:-73.7177,0,-26.7907 0/1:56:30,26:30:1080:26:932:-67.1704,0,-80.6556 0/1:58:37,21:37:1324:21:756:-50.875,0,-101.999 0/0:124:124,0:124:4437:0:0:0,-37.3277,-399.498 0/0:74:74,0:74:2641:0:0:0,-22.2762,-237.934 chr09 23033411 . T C 31165.1 PASS AB=0.521197;ABP=6.14025;AC=32;AF=0.761905;AN=42;AO=1455;CIGAR=1X;DP=1840;DPB=1840;DPRA=0;EPP=3162.5;EPPR=828.192;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9615;MQMR=59.9688;NS=21;NUMALT=1;ODDS=6.32435;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52077;QR=13753;RO=384;RPL=0;RPP=3162.5;RPPR=828.192;RPR=1455;RUN=1;SAF=1455;SAP=3162.5;SAR=0;SRF=384;SRP=836.856;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:16,36:16:572:36:1292:-100.93,0,-36.1599 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/1:105:70,35:70:2501:35:1252:-81.3769,0,-193.733 1/1:94:0,94:0:0:94:3369:-302.799,-28.2968,0 0/1:127:58,69:58:2076:69:2476:-184.863,0,-148.88 0/1:149:68,80:68:2436:80:2876:-214.164,0,-174.583 0/1:119:67,52:67:2404:52:1868:-132.577,0,-180.794 0/1:87:47,40:47:1684:40:1428:-102.628,0,-125.648 1/1:220:1,219:1:36:219:7848:-702.72,-62.6283,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 1/1:144:0,144:0:0:144:5146:-463.282,-43.3483,0 1/1:126:0,126:0:0:126:4514:-406.426,-37.9298,0 1/1:198:0,198:0:0:198:7077:-636.987,-59.6039,0 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 0/1:10:3,7:3:108:7:248:-19.6539,0,-7.06487 0/1:69:33,36:33:1188:36:1277:-94.4611,0,-86.4575 0/1:76:20,56:20:712:56:1970:-154.695,0,-41.5284 1/1:140:0,140:0:0:140:5020:-451.923,-42.1442,0 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 chr09 23065532 . GACC AACC,AACA 17832.7 PASS AB=0.56305,0.43695;ABP=14.7846,14.7846;AC=32,10;AF=0.761905,0.238095;AN=42;AO=504,154;CIGAR=1X3M,1X2M1X;DP=658;DPB=658;DPRA=8.175,1.41319;EPP=6.38815,14.0651;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.45,1.9;MQM=59.998,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.89241;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17918,5389;QR=0;RO=0;RPL=2,2;RPP=1080.13,320.271;RPPR=0;RPR=502,152;RUN=1,1;SAF=240,93;SAP=5.49198,17.4492;SAR=264,61;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:20:0,9,11:0:0:9,11:320,396:-58.7471,-32.6714,-29.9621,-26.4331,0,-23.1218 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:13:0,7,6:0:0:7,6:248,202:-36.9161,-16.7038,-14.5966,-20.557,0,-18.7508 1/1:20:0,20,0:0:0:20,0:699,0:-63.2325,-6.0206,0,-63.2325,-6.0206,-63.2325 1/2:41:0,25,16:0:0:25,16:900,533:-116.92,-43.4682,-35.9425,-73.7953,0,-68.9788 1/2:15:0,8,7:0:0:8,7:284,252:-44.0594,-20.9217,-18.5135,-23.4951,0,-21.3879 1/2:38:0,20,18:0:0:20,18:716,629:-109.91,-51.5158,-45.4952,-58.7471,0,-53.3286 1/2:18:0,10,8:0:0:10,8:360,286:-53.0528,-23.6772,-20.6669,-29.734,0,-27.3258 1/1:63:0,63,0:0:0:63,0:2231,0:-201.053,-18.9649,0,-201.053,-18.9649,-201.053 1/1:6:0,6,0:0:0:6,0:207,0:-18.9669,-1.80618,0,-18.9669,-1.80618,-18.9669 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:27:0,27,0:0:0:27,0:960,0:-86.7163,-8.12781,0,-86.7163,-8.12781,-86.7163 1/1:34:0,34,0:0:0:34,0:1216,0:-109.747,-10.235,0,-109.747,-10.235,-109.747 1/1:25:0,24,1:0:0:24,1:856,36:-77.0014,-7.22472,0,-74.0639,-3.92748,-73.7628 1/1:13:0,13,0:0:0:13,0:464,0:-42.0975,-3.91339,0,-42.0975,-3.91339,-42.0975 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:97:0,45,52:0:0:45,52:1593,1814:-277.644,-147.884,-134.338,-130.112,0,-114.458 1/2:99:0,68,31:0:0:68,31:2409,1097:-285.947,-89.7072,-69.2371,-196.594,0,-187.262 1/1:16:0,16,0:0:0:16,0:572,0:-51.8134,-4.81648,0,-51.8134,-4.81648,-51.8134 1/1:97:0,97,0:0:0:97,0:3451,0:-310.803,-29.1999,0,-310.803,-29.1999,-310.803 chr09 23185289 . ATCA GTCG,ATCG 39891.8 PASS AB=0.502187,0.495188;ABP=3.05779,3.24018;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1336,570;CIGAR=1X2M1X,3M1X;DP=1914;DPB=1914;DPRA=0,1.36752;EPP=2809.34,1214.83;EPPR=5.18177;GTI=1;LEN=4,1;MEANALT=1.95238,2.30769;MQM=59.8975,59.993;MQMR=60;NS=21;NUMALT=2;ODDS=2.02389;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46509,20368;QR=36;RO=1;RPL=1325,567;RPP=2809.34,1214.83;RPPR=5.18177;RPR=11,3;RUN=1,1;SAF=0,0;SAP=2904.1,1240.75;SAR=1336,570;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:0,46,62:0:0:46,62:1603,2219:-311.639,-181.31,-167.463,-130.681,0,-112.017 1/2:97:0,50,46:0:0:50,46:1743,1635:-274.98,-133.231,-118.179,-141.741,0,-127.894 1/2:145:0,77,68:0:0:77,68:2682,2432:-416.759,-198.666,-175.486,-218.446,0,-197.976 1/1:59:0,57,2:0:0:57,2:1973,63:-177.527,-17.1587,0,-172.462,-11.7776,-171.86 1/2:199:0,97,100:0:0:97,100:3386,3584:-567.74,-292.333,-263.133,-275.43,0,-245.327 1/2:120:0,58,62:0:0:58,62:2022,2198:-343.862,-179.421,-161.961,-164.793,0,-146.129 1/2:143:0,60,83:0:0:60,83:2091,2972:-412.744,-242.727,-224.665,-170.369,0,-145.383 1/2:125:0,67,58:0:0:67,58:2324,2076:-358.546,-169.651,-149.482,-189.248,0,-171.789 1/1:121:0,121,0:0:0:121,0:4182,0:-376.272,-36.4246,0,-376.272,-36.4246,-376.272 1/1:17:0,17,0:0:0:17,0:588,0:-53.2432,-5.11751,0,-53.2432,-5.11751,-53.2432 1/1:10:0,10,0:0:0:10,0:352,0:-32.0176,-3.0103,0,-32.0176,-3.0103,-32.0176 1/1:52:0,50,1:0:0:50,1:1742,36:-156.702,-15.0515,0,-153.765,-12.1141,-153.464 1/1:117:0,117,0:0:0:117,0:4068,0:-366.315,-35.2205,0,-366.315,-35.2205,-366.315 1/1:73:0,72,0:0:0:72,0:2506,0:-225.503,-21.6742,0,-225.503,-21.6742,-225.503 1/1:149:0,148,0:0:0:148,0:5191,0:-467.093,-44.5524,0,-467.093,-44.5524,-467.093 1/1:66:0,65,1:0:0:65,1:2270,36:-204.204,-19.567,0,-201.266,-16.2697,-200.965 1/2:66:0,31,35:0:0:31,35:1040,1256:-187.012,-102.809,-93.4773,-84.5488,0,-74.0128 1/2:78:0,43,35:0:0:43,35:1505,1249:-224.622,-102.178,-89.2333,-122.798,0,-112.262 1/2:62:0,45,17:0:0:45,17:1572,612:-178.161,-50.2959,-36.7496,-128.222,0,-123.105 1/1:69:0,68,0:0:0:68,0:2380,0:-214.207,-20.47,0,-214.207,-20.47,-214.207 1/1:38:1,37,0:1:36:37,0:1289,0:-112.712,-7.84087,0,-113.013,-11.1381,-115.951 chr09 23191923 . T A 4246.49 PASS AB=0.511828;ABP=3.57535;AC=10;AF=0.238095;AN=42;AO=240;CIGAR=1X;DP=828;DPB=828;DPRA=1.45996;EPP=440.924;EPPR=1279.84;GTI=0;LEN=1;MEANALT=1;MQM=59.9875;MQMR=59.9218;NS=21;NUMALT=1;ODDS=1.33094;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8567;QR=21045;RO=588;RPL=0;RPP=524.164;RPPR=1279.84;RPR=240;RUN=1;SAF=230;SAP=440.924;SAR=10;SRF=588;SRP=1279.84;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:10,19:10:360:19:680:-52.7993,0,-24.0144 0/1:34:22,12:22:788:12:417:-27.6252,0,-61.0098 0/1:20:11,9:11:396:9:320:-23.1218,0,-29.9621 0/0:53:53,0:53:1900:0:0:0,-15.9546,-171.278 0/1:83:38,45:38:1368:45:1604:-119.663,0,-98.433 0/1:33:22,11:22:788:11:396:-26.0488,0,-61.3108 0/1:50:24,26:24:864:26:936:-69.508,0,-63.0311 0/1:37:16,21:16:572:21:739:-55.6943,0,-40.6753 0/0:45:44,1:44:1568:1:36:0,-9.94807,-137.184 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:45:45,0:45:1604:0:0:0,-13.5463,-144.65 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.01 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/1:39:10,29:10:360:29:1044:-82.5346,0,-21.0041 0/1:65:31,34:31:1107:34:1222:-90.7191,0,-80.3732 0/1:75:43,32:43:1540:32:1137:-80.0597,0,-116.316 0/0:37:36,1:36:1266:1:36:0,-7.53983,-110.64 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 chr09 23191946 . TTCT GTCC,GTCT 34055.5 PASS AB=0.528121,0.466392;ABP=8.01749,10.1622;AC=32,10;AF=0.761905,0.238095;AN=42;AO=952,344;CIGAR=1X2M1X,1X3M;DP=1305;DPB=1305;DPRA=0,1.73459;EPP=2061.58,741.336;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2,2.42857;MQM=59.8708,59.9913;MQMR=43;NS=21;NUMALT=2;ODDS=5.24527;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33152,12244;QR=28;RO=1;RPL=595,222;RPP=132.213,66.1345;RPPR=5.18177;RPR=357,122;RUN=1,1;SAF=596,223;SAP=134.394,68.6847;SAR=356,121;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:57:0,24,33:0:0:24,33:848,1180:-165.629,-96.5741,-89.3493,-69.4102,0,-59.4763 1/2:54:0,33,20:0:0:33,20:1151,712:-151.634,-58.0264,-48.0924,-93.6016,0,-87.581 1/2:28:0,16,12:0:0:16,12:571,428:-81.7965,-35.2464,-30.43,-46.9066,0,-43.2943 1/1:71:0,70,1:0:0:70,1:2441,36:-219.587,-21.0721,0,-216.649,-17.7749,-216.348 1/2:113:1,59,51:1:28:59,51:2066,1832:-315.13,-147.335,-131.779,-165.976,0,-152.829 1/2:53:0,32,21:0:0:32,21:1136,756:-154.603,-62.0456,-52.4126,-92.9155,0,-86.5939 1/2:81:0,44,37:0:0:44,37:1530,1317:-232.063,-107.694,-94.4485,-124.722,0,-113.583 1/2:54:0,24,30:0:0:24,30:845,1068:-156.192,-87.4012,-80.1764,-69.1443,0,-60.1134 1/1:71:0,66,1:0:0:66,1:2264,36:-203.595,-19.868,0,-200.657,-16.9251,-200.356 1/1:7:0,7,0:0:0:7,0:243,0:-22.2082,-2.10721,0,-22.2082,-2.10721,-22.2082 1/1:13:0,13,0:0:0:13,0:457,0:-41.4639,-3.91339,0,-41.4639,-3.91339,-41.4639 1/1:11:0,11,0:0:0:11,0:386,0:-35.0758,-3.31133,0,-35.0758,-3.31133,-35.0758 1/1:82:0,82,0:0:0:82,0:2877,0:-259.166,-24.6845,0,-259.166,-24.6845,-259.166 1/1:47:0,46,0:0:0:46,0:1568,0:-141.044,-13.8474,0,-141.044,-13.8474,-141.044 1/1:92:0,92,0:0:0:92,0:3216,0:-289.474,-27.6948,0,-289.474,-27.6948,-289.474 1/1:40:0,40,0:0:0:40,0:1396,0:-125.934,-12.0412,0,-125.934,-12.0412,-125.934 1/2:47:0,18,29:0:0:18,29:636,1021:-135.268,-83.4712,-78.0527,-52.1496,0,-43.4197 1/2:123:0,61,62:0:0:61,62:2103,2166:-347.364,-176.537,-158.174,-171.174,0,-152.51 1/2:119:0,74,45:0:0:74,45:2556,1620:-340.19,-132.544,-110.267,-208.001,0,-194.454 1/1:62:0,61,1:0:0:61,1:2121,36:-190.799,-18.3628,0,-187.861,-15.0656,-187.56 1/1:80:0,79,1:0:0:79,1:2741,36:-246.576,-23.7814,0,-243.638,-20.4841,-243.337 chr09 23197804 . T C 26633.6 PASS AB=0.552691;ABP=24.5205;AC=32;AF=0.761905;AN=42;AO=1280;CIGAR=1X;DP=1679;DPB=1679;DPRA=0;EPP=2782.49;EPPR=867.256;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9523;MQMR=60;NS=21;NUMALT=1;ODDS=3.06275;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45549;QR=14184;RO=398;RPL=1280;RPP=2782.49;RPPR=867.256;RPR=0;RUN=1;SAF=0;SAP=2782.49;SAR=1280;SRF=0;SRP=867.256;SRR=398;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:50,61:50:1770:61:2162:-161.429,0,-126.165 0/1:37:8,29:8:288:29:1014:-80.4294,0,-15.1293 0/1:73:37,36:37:1332:36:1292:-94.6086,0,-98.2072 1/1:78:0,78:0:0:78:2796:-251.88,-23.4803,0 0/1:149:87,62:87:3117:62:2228:-155.93,0,-235.901 0/1:61:16,45:16:553:45:1620:-127.727,0,-31.7312 0/1:130:66,63:66:2327:63:2265:-164.92,0,-170.493 0/1:89:39,50:39:1400:50:1790:-134.583,0,-99.5075 1/1:112:0,112:0:0:112:3927:-353.619,-33.7154,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:48:0,48:0:0:48:1724:-155.423,-14.4494,0 1/1:46:0,46:0:0:46:1603:-144.553,-13.8474,0 1/1:90:0,90:0:0:90:3164:-284.981,-27.0927,0 1/1:191:0,191:0:0:191:6861:-617.554,-57.4967,0 1/1:73:0,73:0:0:73:2597:-233.977,-21.9752,0 0/1:104:53,51:53:1900:51:1809:-131.004,0,-139.971 0/1:102:38,64:38:1353:64:2270:-173.854,0,-91.3633 0/1:36:4,32:4:144:32:1144:-92.4324,0,-2.47654 1/1:87:0,87:0:0:87:3089:-278.237,-26.1896,0 1/1:44:0,44:0:0:44:1546:-139.428,-13.2453,0 chr09 23227832 . C T 33229.9 PASS AB=0.489796;ABP=4.11819;AC=31;AF=0.738095;AN=42;AO=1611;CIGAR=1X;DP=2238;DPB=2238;DPRA=0;EPP=3501.25;EPPR=1362.35;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9994;MQMR=60;NS=21;NUMALT=1;ODDS=3.87485;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57406;QR=22467;RO=626;RPL=0;RPP=3501.25;RPPR=1362.35;RPR=1611;RUN=1;SAF=1611;SAP=3501.25;SAR=0;SRF=626;SRP=1362.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:61,47:61:2184:47:1680:-118.976,0,-164.315 0/1:86:48,38:48:1728:38:1353:-96.1798,0,-129.917 0/1:132:67,65:67:2412:65:2283:-165.992,0,-177.6 1/1:139:0,139:0:0:139:4964:-446.91,-41.8432,0 0/1:154:57,97:57:2035:97:3443:-263.724,0,-137.063 0/1:113:64,49:64:2292:49:1756:-124.308,0,-172.525 0/1:154:82,72:82:2944:72:2569:-185.1,0,-218.835 0/1:181:95,86:95:3412:86:3076:-222.582,0,-252.807 1/1:176:0,176:0:0:176:6283:-565.562,-52.9813,0 0/1:10:1,9:1:36:9:320:-26.1321,0,-0.587975 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:37:0,37:0:0:37:1320:-119.102,-11.1381,0 1/1:132:1,131:1:36:131:4661:-416.055,-36.1377,0 1/1:106:0,106:0:0:106:3774:-339.857,-31.9092,0 1/1:126:0,126:0:0:126:4472:-402.65,-37.9298,0 1/1:63:0,63:0:0:63:2256:-203.303,-18.9649,0 0/1:78:42,36:42:1512:36:1288:-92.7432,0,-112.894 0/1:129:79,50:79:2844:50:1800:-123.449,0,-217.364 0/1:80:28,51:28:996:51:1832:-141.02,0,-65.8138 1/1:174:1,173:1:36:173:6124:-547.663,-48.7809,0 1/1:56:0,56:0:0:56:2008:-180.993,-16.8577,0 chr09 23254062 . G A 7628.81 PASS AB=0.472574;ABP=9.20404;AC=10;AF=0.238095;AN=42;AO=448;CIGAR=1X;DP=1499;DPB=1499;DPRA=1.89256;EPP=915.979;EPPR=2207.72;GTI=0;LEN=1;MEANALT=1;MQM=59.9487;MQMR=59.9924;NS=21;NUMALT=1;ODDS=7.1058;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16049;QR=37561;RO=1051;RPL=7;RPP=915.979;RPPR=2207.72;RPR=441;RUN=1;SAF=448;SAP=975.83;SAR=0;SRF=1051;SRP=2285.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:24,25:24:856:25:900:-66.3426,0,-62.6106 0/1:41:18,23:18:648:23:816:-61.4195,0,-46.3097 0/1:81:49,32:49:1744:32:1144:-78.8861,0,-132.861 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 0/1:152:81,71:81:2891:71:2529:-182.104,0,-214.67 0/1:40:28,12:28:1004:12:428:-26.8176,0,-78.6347 0/1:124:64,60:64:2296:60:2160:-157.339,0,-169.573 0/1:56:35,21:35:1260:21:756:-51.5095,0,-96.8478 0/0:89:89,0:89:3180:0:0:0,-26.7917,-286.425 0/0:25:25,0:25:888:0:0:0,-7.52575,-80.239 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:90:90,0:90:3208:0:0:0,-27.0927,-288.944 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:97:97,0:97:3447:0:0:0,-29.1999,-310.442 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/1:14:10,4:10:360:4:144:-9.0992,0,-28.5299 0/1:282:124,158:124:4448:158:5664:-424.988,0,-315.599 0/1:109:67,42:67:2400:42:1508:-103.202,0,-183.445 0/0:54:54,0:54:1921:0:0:0,-16.2556,-173.165 0/0:72:72,0:72:2558:0:0:0,-21.6742,-230.467 chr09 23254089 . C T 20600.6 PASS AB=0.523504;ABP=7.50172;AC=32;AF=0.761905;AN=42;AO=1035;CIGAR=1X;DP=1482;DPB=1482;DPRA=0;EPP=2250.48;EPPR=973.658;GTI=0;LEN=1;MEANALT=1;MQM=59.9546;MQMR=59.9485;NS=21;NUMALT=1;ODDS=4.709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36651;QR=15822;RO=447;RPL=1035;RPP=2250.48;RPPR=973.658;RPR=0;RUN=1;SAF=1035;SAP=2250.48;SAR=0;SRF=447;SRP=973.658;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:24,23:24:851:23:816:-59.6133,0,-62.5331 0/1:42:24,18:24:851:18:640:-45.2861,0,-64.2662 0/1:76:30,46:30:1076:46:1636:-124.65,0,-74.2746 1/1:39:0,39:0:0:39:1395:-125.848,-11.7402,0 0/1:153:74,79:74:2608:79:2766:-203.121,0,-188.91 0/1:37:11,26:11:392:26:897:-69.9035,0,-24.4819 0/1:126:60,66:60:2097:66:2348:-173.65,0,-151.066 0/1:57:21,36:21:752:36:1288:-99.0649,0,-50.8475 1/1:89:0,89:0:0:89:3161:-284.715,-26.7917,0 1/1:25:0,25:0:0:25:887:-80.1481,-7.52575,0 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 1/1:88:0,88:0:0:88:3121:-281.117,-26.4906,0 1/1:20:0,20:0:0:20:708:-64.0456,-6.0206,0 1/1:96:0,96:0:0:96:3408:-305.915,-28.8989,0 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 0/1:13:4,9:4:140:9:316:-24.8655,0,-9.03119 0/1:281:157,124:157:5560:124:4388:-310.506,0,-415.939 0/1:104:41,63:41:1459:63:2224:-169.118,0,-100.298 1/1:56:0,56:0:0:56:1969:-177.475,-16.8577,0 1/1:72:1,71:1:36:71:2495:-221.205,-18.0759,0 chr09 23287901 . C T 29676.9 PASS AB=0.530663;ABP=9.53559;AC=32;AF=0.761905;AN=42;AO=1196;CIGAR=1X;DP=1572;DPB=1572;DPRA=0;EPP=1206.03;EPPR=198.535;GTI=0;LEN=1;MEANALT=1;MQM=59.5644;MQMR=59.9814;NS=21;NUMALT=1;ODDS=8.2698;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42787;QR=13414;RO=376;RPL=191;RPP=1206.03;RPPR=198.535;RPR=1005;RUN=1;SAF=1196;SAP=2600.09;SAR=0;SRF=376;SRP=819.484;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:27,39:27:972:39:1396:-106.071,0,-67.9299 0/1:38:20,18:20:720:18:648:-47.2127,0,-53.6881 0/1:84:43,41:43:1531:41:1472:-107.462,0,-112.796 1/1:98:0,98:0:0:98:3503:-315.218,-29.5009,0 0/1:129:56,73:56:2004:73:2616:-196.841,0,-141.801 0/1:41:20,21:20:720:21:739:-54.4891,0,-52.7865 0/1:116:46,70:46:1627:70:2509:-191.13,0,-111.799 0/1:106:43,63:43:1532:63:2259:-171.639,0,-106.264 1/1:137:0,137:0:0:137:4890:-440.192,-41.2411,0 1/1:5:0,5:0:0:5:180:-16.5412,-1.50515,0 1/1:7:0,7:0:0:7:244:-22.2688,-2.10721,0 1/1:37:0,37:0:0:37:1332:-120.15,-11.1381,0 1/1:114:0,114:0:0:114:4073:-366.525,-34.3174,0 1/1:84:0,84:0:0:84:3004:-270.585,-25.2865,0 1/1:134:0,134:0:0:134:4794:-431.559,-40.338,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 0/1:29:14,15:14:504:15:540:-40.2067,0,-36.9682 0/1:126:80,46:80:2841:46:1626:-108.663,0,-217.998 0/1:64:26,38:26:927:38:1359:-103.333,0,-64.4814 1/1:94:1,93:1:36:93:3335:-296.7,-24.6985,0 1/1:42:0,42:0:0:42:1512:-136.37,-12.6433,0 chr09 23287913 . C A,G 34025.3 PASS AB=0.539326,0.460674;ABP=13.7701,13.7701;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1213,370;CIGAR=1X,1X;DP=1583;DPB=1583;DPRA=0,1.17353;EPP=2637.01,806.455;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.52381,2;MQM=59.512,59.9811;MQMR=0;NS=21;NUMALT=2;ODDS=10.0745;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43422,13142;QR=0;RO=0;RPL=1213,370;RPP=2637.01,806.455;RPPR=0;RPR=0,0;RUN=1,1;SAF=1213,370;SAP=2637.01,806.455;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,38,28:0:0:38,28:1368,992:-192.791,-81.1656,-69.7264,-111.982,0,-103.553 1/2:39:0,19,20:0:0:19,20:684,716:-114.558,-58.7465,-53.0269,-56.1708,0,-50.1502 1/2:82:0,40,42:0:0:40,42:1436,1504:-240.122,-123.011,-110.97,-117.469,0,-104.826 1/1:102:0,102,0:0:0:102,0:3609,0:-324.764,-30.7051,0,-324.764,-30.7051,-324.764 1/2:131:0,75,56:0:0:75,56:2693,1998:-382.578,-163.235,-140.657,-219.701,0,-202.843 1/2:42:0,22,20:0:0:22,20:792,711:-122.916,-58.295,-51.6724,-64.9783,0,-58.9577 1/2:120:0,75,45:0:0:75,45:2669,1616:-349.655,-132.184,-109.606,-217.829,0,-204.283 1/2:103:0,61,42:0:0:61,42:2180,1489:-299.385,-121.659,-103.296,-178.081,0,-165.438 1/1:137:0,137,0:0:0:137,0:4901,0:-441.119,-41.2411,0,-441.119,-41.2411,-441.119 1/1:6:0,6,0:0:0:6,0:216,0:-19.7797,-1.80618,0,-19.7797,-1.80618,-19.7797 1/1:6:0,6,0:0:0:6,0:203,0:-18.5906,-1.80618,0,-18.5906,-1.80618,-18.5906 1/1:38:0,38,0:0:0:38,0:1368,0:-123.389,-11.4391,0,-123.389,-11.4391,-123.389 1/1:119:0,119,0:0:0:119,0:4277,0:-384.195,-35.8226,0,-384.195,-35.8226,-384.195 1/1:85:0,85,0:0:0:85,0:3040,0:-273.716,-25.5876,0,-273.716,-25.5876,-273.716 1/1:135:0,135,0:0:0:135,0:4835,0:-435.035,-40.6391,0,-435.035,-40.6391,-435.035 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 1/2:30:0,15,15:0:0:15,15:540,540:-88.4823,-44.4211,-39.9056,-44.4211,0,-39.9056 1/2:122:0,47,75:0:0:47,75:1684,2638:-352.388,-215.088,-200.939,-137.655,0,-115.078 1/2:66:0,40,26:0:0:40,26:1436,902:-190.8,-73.6661,-61.6249,-117.486,0,-109.659 1/1:91:0,90,1:0:0:90,1:3231,36:-290.587,-27.0927,0,-287.649,-23.7955,-287.348 1/1:42:0,42,0:0:0:42,0:1504,0:-135.65,-12.6433,0,-135.65,-12.6433,-135.65 chr09 23338217 . TGGA CGGG,TGGG 67036.8 PASS AB=0.470523,0.522803;ABP=16.5802,11.131;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2266,948;CIGAR=1X2M1X,3M1X;DP=3237;DPB=3237;DPRA=0,1.74169;EPP=4897.54,2035.59;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.47619,3.07143;MQM=46.8901,59.2321;MQMR=0;NS=21;NUMALT=2;ODDS=7.56065;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=79785,33917;QR=0;RO=0;RPL=3,3;RPP=4897.54,2035.59;RPPR=0;RPR=2263,945;RUN=1,1;SAF=2266,948;SAP=4923.57,2061.57;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:409:0,156,252:0:0:156,252:5531,9019:-1176.55,-735.067,-688.107,-441.471,0,-365.612 1/2:156:0,68,88:0:0:68,88:2394,3156:-451.222,-257.761,-237.291,-193.815,0,-167.325 1/2:117:0,55,60:0:0:55,60:1963,2148:-332.391,-175.142,-158.586,-157.244,0,-139.183 1/1:181:0,181,0:0:0:181,0:6315,0:-563.188,-54.4864,0,-563.188,-54.4864,-563.188 1/2:258:0,140,115:0:0:140,115:4879,4101:-725.877,-333.833,-291.688,-392.057,0,-357.438 1/2:186:0,82,101:0:0:82,101:2908,3594:-527.479,-292.923,-268.238,-234.585,0,-204.181 1/2:180:0,88,92:0:0:88,92:3134,3289:-521.664,-268.48,-241.99,-253.539,0,-225.844 1/2:202:0,93,107:0:0:93,107:3275,3838:-577.611,-313.075,-285.079,-264.599,0,-232.389 1/1:295:0,290,2:0:0:290,2:10233,72:-909.704,-87.2987,0,-903.831,-81.4188,-903.229 1/1:18:0,18,0:0:0:18,0:643,0:-57.799,-5.41854,0,-57.799,-5.41854,-57.799 1/1:5:0,5,0:0:0:5,0:179,0:-16.3041,-1.50515,0,-16.3041,-1.50515,-16.3041 1/1:48:0,46,2:0:0:46,2:1594,72:-142.173,-13.8474,0,-136.298,-7.61272,-135.696 1/1:229:0,223,2:0:0:223,2:7851,72:-699.268,-67.1297,0,-693.394,-61.2507,-692.792 1/1:194:0,194,0:0:0:194,0:6846,0:-610.502,-58.3998,0,-610.502,-58.3998,-610.502 1/1:160:0,158,0:0:0:158,0:5590,0:-497.131,-47.5627,0,-497.131,-47.5627,-497.131 1/1:77:0,76,0:0:0:76,0:2649,0:-234.572,-22.8783,0,-234.572,-22.8783,-234.572 1/2:92:0,46,45:0:0:46,45:1634,1620:-261.948,-132.146,-118.299,-129.797,0,-116.251 1/2:96:0,43,53:0:0:43,53:1486,1904:-275.418,-155.683,-142.739,-120.085,0,-104.13 1/2:102:0,75,27:0:0:75,27:2623,964:-290.144,-78.9374,-56.3602,-211.561,0,-203.433 1/1:145:0,142,2:0:0:142,2:5003,68:-444.364,-42.7463,0,-438.849,-37.243,-438.247 1/1:87:0,87,0:0:0:87,0:3055,0:-272.682,-26.1896,0,-272.682,-26.1896,-272.682 chr09 23343855 . A G 23349.7 PASS AB=0.509025;ABP=3.59824;AC=32;AF=0.761905;AN=42;AO=1124;CIGAR=1X;DP=1533;DPB=1533;DPRA=0;EPP=2443.75;EPPR=886.8;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.8407;MQMR=60;NS=21;NUMALT=1;ODDS=8.57445;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40186;QR=14574;RO=407;RPL=0;RPP=2443.75;RPPR=869.513;RPR=1124;RUN=1;SAF=1124;SAP=2443.75;SAR=0;SRF=405;SRP=869.513;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:80,57:80:2872:57:2041:-142.227,0,-217.475 0/1:36:19,17:19:684:17:608:-44.2082,0,-51.0532 0/1:64:42,21:42:1496:21:756:-49.0425,0,-115.61 1/1:63:0,63:0:0:63:2233:-201.225,-18.9649,0 0/1:86:35,51:35:1260:51:1809:-137.178,0,-87.8169 0/1:49:25,24:25:896:24:864:-63.3278,0,-66.2099 0/1:118:62,56:62:2224:56:1993:-144.117,0,-164.903 0/1:110:44,66:44:1546:66:2364:-179.905,0,-106.314 1/1:120:0,120:0:0:120:4274:-384.819,-36.1236,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:46:0,46:0:0:46:1656:-149.324,-13.8474,0 1/1:114:0,114:0:0:114:4085:-367.827,-34.3174,0 1/1:95:1,94:1:36:94:3354:-298.468,-24.9996,0 1/1:87:0,87:0:0:87:3109:-280.031,-26.1896,0 1/1:37:0,37:0:0:37:1332:-120.181,-11.1381,0 0/1:42:20,22:20:720:22:792:-58.9624,0,-52.4855 0/1:124:58,65:58:2084:65:2324:-172.029,0,-150.444 0/1:65:21,44:21:756:44:1580:-122.922,0,-48.8003 1/1:60:0,60:0:0:60:2132:-192.141,-18.0618,0 1/1:46:0,46:0:0:46:1656:-149.328,-13.8474,0 chr09 23343904 . TCCCACC CCCCTCT,TCCCTCT 31482.6 PASS AB=0.507822,0.487365;ABP=3.45191,4.16267;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1117,407;CIGAR=1X3M1X1M1X,4M1X1M1X;DP=1535;DPB=1536.14;DPRA=0,1.35852;EPP=2428.54,886.8;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.04762,2.5;MQM=59.8308,60;MQMR=0;NS=21;NUMALT=2;ODDS=8.44752;PAIRED=0,0;PAIREDR=0;PAO=4,0;PQA=108,0;PQR=0;PRO=0;QA=38888,14394;QR=0;RO=0;RPL=1117,407;RPP=2428.54,886.8;RPPR=0;RPR=0,0;RUN=1,1;SAF=1117,407;SAP=2428.54,886.8;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:136:0,57,78:0:0:57,78:1985,2780:-387.634,-226.711,-209.552,-161.022,0,-137.541 1/2:35:0,16,19:0:0:16,19:563,672:-100.913,-55.087,-50.2706,-46.179,0,-40.4594 1/2:67:0,23,44:0:0:23,44:805,1537:-190.871,-125.374,-118.451,-65.8461,0,-52.6008 1/1:63:0,61,1:0:0:61,1:2135,36:-192.127,-18.3628,0,-189.189,-15.3505,-188.888 1/2:88:0,52,34:0:0:52,34:1769,1205:-241.657,-98.191,-82.5374,-143.485,0,-133.25 1/2:49:0,25,24:0:0:25,24:873,837:-139.433,-68.4223,-60.8965,-71.3593,0,-64.1346 1/2:121:0,58,63:0:0:58,63:2023,2241:-347.519,-182.989,-165.529,-164.882,0,-145.917 1/2:107:0,63,43:0:0:63,43:2217,1524:-304.628,-124.149,-105.184,-180.472,0,-167.528 1/1:119:0,119,0:0:0:119,0:4166,0:-375.122,-35.8226,0,-375.122,-35.8226,-375.122 1/1:20:0,20,0:0:0:20,0:688,0:-62.2391,-6.0206,0,-62.2391,-6.0206,-62.2391 1/1:13:0,13,0:0:0:13,0:463,0:-42.0073,-3.91339,0,-42.0073,-3.91339,-42.0073 1/1:47:0,47,0:0:0:47,0:1639,0:-147.795,-14.1484,0,-147.795,-14.1484,-147.795 1/1:118:0,117,0:0:0:117,0:4062,0:-365.473,-35.2205,0,-365.473,-35.2205,-365.473 1/1:95:0,93,1:0:0:93,1:3233,34:-290.848,-27.9958,0,-288.09,-25.2428,-287.789 1/1:85:0,84,0:0:0:84,0:2952,0:-265.672,-25.2865,0,-265.672,-25.2865,-265.672 1/1:38:0,37,0:0:0:37,0:1300,0:-117.007,-11.1381,0,-117.007,-11.1381,-117.007 1/2:42:0,24,18:0:0:24,18:837,646:-121.121,-53.0528,-45.8281,-68.423,0,-63.0045 1/2:122:0,62,60:0:0:62,60:2122,2117:-344.614,-172.378,-153.714,-172.224,0,-154.162 1/2:64:0,42,22:0:0:42,22:1472,765:-182.327,-62.5471,-49.9038,-120.129,0,-113.506 1/1:59:0,57,0:0:0:57,0:1970,0:-177.215,-17.1587,0,-177.215,-17.1587,-177.215 1/1:47:0,47,0:0:0:47,0:1614,0:-145.548,-14.1484,0,-145.548,-14.1484,-145.548 chr09 23343981 . C T 8238.56 PASS AB=0.485409;ABP=4.91139;AC=10;AF=0.238095;AN=42;AO=504;CIGAR=1X;DP=2015;DPB=2015;DPRA=1.44784;EPP=1097.43;EPPR=3277.59;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9663;MQMR=59.9973;NS=21;NUMALT=1;ODDS=7.05008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17942;QR=53459;RO=1508;RPL=0;RPP=1097.43;RPPR=3277.59;RPR=504;RUN=1;SAF=0;SAP=1097.43;SAR=504;SRF=0;SRP=3277.59;SRR=1508;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:35,31:35:1228:31:1112:-80.2119,0,-90.642 0/1:59:27,32:27:955:32:1137:-84.8762,0,-68.5041 0/1:71:24,47:24:840:47:1672:-129.394,0,-54.5423 0/0:147:145,2:145:5166:2:72:0,-37.4147,-458.245 0/1:211:119,92:119:4255:92:3286:-232.44,0,-319.609 0/1:89:50,39:50:1777:39:1396:-99.0777,0,-133.419 0/1:206:95,111:95:3353:111:3958:-294.398,0,-239.974 0/1:101:49,51:49:1720:51:1783:-130.287,0,-124.62 0/0:210:210,0:210:7406:0:0:0,-63.2163,-666.593 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:6:6,0:6:208:0:0:0,-1.80618,-19.0591 0/0:38:38,0:38:1347:0:0:0,-11.4391,-121.529 0/0:121:121,0:121:4311:0:0:0,-36.4246,-388.168 0/0:96:96,0:96:3398:0:0:0,-28.8989,-306.037 0/0:132:130,2:130:4623:2:65:0,-33.5629,-410.06 0/0:36:36,0:36:1284:0:0:0,-10.8371,-115.863 0/1:74:39,35:39:1391:35:1242:-89.8066,0,-103.212 0/1:85:46,39:46:1622:39:1404:-101.072,0,-120.68 0/1:65:43,22:43:1523:22:779:-50.8651,0,-117.795 0/0:107:106,1:106:3773:1:36:0,-28.6119,-336.171 0/0:84:83,0:83:2923:0:0:0,-24.9855,-263.094 chr09 23346046 . TA GC,GA 29978.6 PASS AB=0.553802,0.444763;ABP=20.5347,21.4818;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1045,313;CIGAR=2X,1X1M;DP=1359;DPB=1359;DPRA=0,1.3301;EPP=2051.98,550.811;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.61905,2.08333;MQM=59.6201,59.9681;MQMR=0;NS=21;NUMALT=2;ODDS=8.97776;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36633,11133;QR=0;RO=0;RPL=1019,297;RPP=2051.98,550.811;RPPR=0;RPR=26,16;RUN=1,1;SAF=0,0;SAP=2272.2,682.681;SAR=1045,313;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,46,41:0:0:46,41:1614,1456:-250.326,-118.994,-105.146,-131.685,0,-119.343 1/2:38:0,22,16:0:0:22,16:783,564:-110.091,-46.2738,-39.6512,-64.1711,0,-59.3547 1/2:68:0,30,38:0:0:30,38:1065,1344:-196.555,-109.821,-100.79,-87.0881,0,-75.649 1/1:95:0,95,0:0:0:95,0:3340,0:-300.79,-28.5979,0,-300.79,-28.5979,-300.79 1/2:114:0,67,47:0:0:67,47:2341,1667:-326.574,-136.168,-115.999,-190.758,0,-176.609 1/2:90:0,49,41:0:0:49,41:1734,1472:-261.655,-120.434,-105.683,-141.578,0,-129.236 1/2:104:0,67,37:0:0:67,37:2350,1319:-299.093,-107.874,-87.7049,-191.573,0,-180.435 1/2:73:0,36,36:0:0:36,36:1193,1279:-200.784,-104.323,-93.4855,-96.5512,0,-85.7141 1/1:105:0,105,0:0:0:105,0:3711,0:-334.188,-31.6082,0,-334.188,-31.6082,-334.188 1/1:6:0,6,0:0:0:6,0:216,0:-19.7858,-1.80618,0,-19.7858,-1.80618,-19.7858 1/1:4:0,4,0:0:0:4,0:137,0:-12.6678,-1.20412,0,-12.6678,-1.20412,-12.6678 1/1:11:0,11,0:0:0:11,0:376,0:-34.1574,-3.31133,0,-34.1574,-3.31133,-34.1574 1/1:92:0,92,0:0:0:92,0:3230,0:-290.914,-27.6948,0,-290.914,-27.6948,-290.914 1/1:94:0,92,2:0:0:92,2:3196,72:-287.459,-27.6948,0,-281.584,-21.4601,-280.982 1/1:83:0,83,0:0:0:83,0:2883,0:-259.474,-24.9855,0,-259.474,-24.9855,-259.474 1/1:33:0,33,0:0:0:33,0:1159,0:-104.608,-9.93399,0,-104.608,-9.93399,-104.608 1/2:29:0,19,10:0:0:19,10:681,356:-84.912,-29.3686,-23.649,-55.9001,0,-52.8898 1/2:49:0,22,27:0:0:22,27:777,960:-141.845,-78.5866,-71.964,-63.6121,0,-55.4843 1/2:45:0,28,17:0:0:28,17:978,608:-129.481,-49.9345,-41.5057,-79.9011,0,-74.7836 1/1:78:0,77,1:0:0:77,1:2720,36:-244.006,-23.1793,0,-241.069,-19.8821,-240.768 1/1:61:0,61,0:0:0:61,0:2149,0:-193.637,-18.3628,0,-193.637,-18.3628,-193.637 chr09 23444499 . G A 14164.3 PASS AB=0.498491;ABP=3.04306;AC=11;AF=0.261905;AN=42;AO=831;CIGAR=1X;DP=2990;DPB=2990;DPRA=1.28348;EPP=1764.34;EPPR=4544.72;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.34682;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29659;QR=76847;RO=2159;RPL=826;RPP=1764.34;RPPR=4544.72;RPR=5;RUN=1;SAF=0;SAP=1807.5;SAR=831;SRF=0;SRP=4691.22;SRR=2159;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:87,95:87:3085:95:3376:-249.268,0,-223.091 0/1:106:56,50:56:1999:50:1796:-130.013,0,-148.274 0/1:206:88,118:88:3148:118:4209:-316.979,0,-221.533 0/0:179:179,0:179:6394:0:0:0,-53.8844,-575.549 0/1:265:126,139:126:4499:139:4983:-368.844,0,-325.306 0/1:155:80,75:80:2847:75:2688:-195.505,0,-209.809 0/1:243:117,126:117:4150:126:4509:-332.827,0,-300.536 0/1:167:82,85:82:2931:85:3024:-222.118,0,-213.752 0/0:256:255,1:255:9072:1:36:0,-73.4654,-812.861 0/1:24:21,3:21:737:3:108:-2.85045,0,-59.4259 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:46:46,0:46:1635:0:0:0,-13.8474,-147.438 0/0:142:142,0:142:5069:0:0:0,-42.7463,-456.354 0/0:195:195,0:195:6871:0:0:0,-58.7008,-618.471 0/0:230:230,0:230:8231:0:0:0,-69.2369,-740.801 0/0:114:114,0:114:4071:0:0:0,-34.3174,-366.577 0/1:147:74,73:74:2644:73:2577:-187.928,0,-193.956 0/1:101:61,40:61:2161:40:1440:-99.4937,0,-164.351 0/1:61:39,22:39:1396:22:769:-51.1658,0,-107.576 0/0:108:104,4:104:3659:4:144:0,-19.1976,-316.2 0/0:56:56,0:56:2000:0:0:0,-16.8577,-180.274 chr09 23463474 . AC TT,TC 3144.71 PASS AB=0.518519,0.475309;ABP=3.49285,3.86817;AC=33,9;AF=0.785714,0.214286;AN=42;AO=344,78;CIGAR=2X,1X1M;DP=423;DPB=423;DPRA=0,0.986547;EPP=749.997,172.385;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.52381,2.1;MQM=18.3459,30.6923;MQMR=0;NS=21;NUMALT=2;ODDS=1.92598;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=12121,2392;QR=0;RO=0;RPL=0,0;RPP=749.997,172.385;RPPR=0;RPR=344,78;RUN=1,1;SAF=0,0;SAP=749.997,172.385;SAR=344,78;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:36:0,21,14:0:0:21,14:739,435:-58.7504,-31.221,-24.8994,-27.5666,0,-23.3522 1/2:8:0,5,3:0:0:5,3:169,90:-13.5308,-6.65463,-5.14948,-7.11514,0,-6.21205 1/2:16:0,9,7:0:0:9,7:313,217:-27.5025,-15.8073,-13.098,-11.9308,0,-9.82358 1/1:23:0,23,0:0:0:23,0:806,0:-36.9791,-6.92369,0,-36.9791,-6.92369,-36.9791 1/1:26:0,26,0:0:0:26,0:931,0:-42.218,-7.82678,0,-42.218,-7.82678,-42.218 1/2:15:0,7,8:0:0:7,8:250,238:-26.8819,-17.1134,-15.0062,-9.9941,0,-7.58586 1/2:22:0,8,14:0:0:8,14:288,416:-40.8851,-29.7026,-27.2944,-11.3999,0,-7.18549 1/2:19:0,13,6:0:0:13,6:466,192:-32.1048,-14.1389,-10.2255,-18.2235,0,-16.4173 1/1:28:0,28,0:0:0:28,0:1006,0:-45.3664,-8.42884,0,-45.3664,-8.42884,-45.3664 1/1:15:0,15,0:0:0:15,0:521,0:-25.6275,-4.51545,0,-25.6275,-4.51545,-25.6275 1/1:10:0,10,0:0:0:10,0:358,0:-17.2085,-3.0103,0,-17.2085,-3.0103,-17.2085 1/1:19:0,19,0:0:0:19,0:680,0:-32.5254,-5.71957,0,-32.5254,-5.71957,-32.5254 1/1:17:0,17,0:0:0:17,0:601,0:-27.552,-5.11751,0,-27.552,-5.11751,-27.552 1/1:34:0,34,0:0:0:34,0:1183,0:-54.9182,-10.235,0,-54.9182,-10.235,-54.9182 1/1:38:0,37,1:0:0:37,1:1276,31:-59.2755,-11.1381,0,-57.0546,-8.64,-56.7536 1/1:16:0,16,0:0:0:16,0:563,0:-25.9345,-4.81648,0,-25.9345,-4.81648,-25.9345 1/2:24:0,10,14:0:0:10,14:349,434:-44.3577,-31.3347,-28.3244,-13.2438,0,-9.02937 1/2:16:0,8,8:0:0:8,8:286,250:-29.3678,-18.2081,-15.7999,-11.3955,0,-8.98721 1/2:6:0,3,3:0:0:3,3:108,89:-10.5377,-6.64401,-5.74092,-4.11809,0,-3.215 1/1:27:0,27,0:0:0:27,0:953,0:-46.0563,-8.12781,0,-46.0563,-8.12781,-46.0563 1/1:8:0,8,0:0:0:8,0:275,0:-13.7236,-2.40824,0,-13.7236,-2.40824,-13.7236 chr09 23466674 . A C 8291.56 PASS AB=0.44712;ABP=31.2581;AC=9;AF=0.214286;AN=42;AO=535;CIGAR=1X;DP=3222;DPB=3222;DPRA=1.59493;EPP=1164.75;EPPR=5831.24;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.985;MQMR=60;NS=21;NUMALT=1;ODDS=26.3994;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19140;QR=96188;RO=2684;RPL=0;RPP=1164.75;RPPR=5831.24;RPR=535;RUN=1;SAF=535;SAP=1164.75;SAR=0;SRF=2684;SRP=5831.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:49,45:49:1745:45:1606:-116.533,0,-129.035 0/1:87:47,40:47:1688:40:1424:-102.268,0,-126.017 0/1:143:73,70:73:2620:70:2512:-183.285,0,-193 0/0:177:177,0:177:6348:0:0:0,-53.2823,-571.409 0/0:462:455,5:455:16322:5:180:0,-122.282,-1452.09 0/1:74:44,30:44:1576:30:1076:-74.8766,0,-119.855 0/1:276:147,128:147:5272:128:4573:-328.584,0,-391.472 0/1:114:91,23:91:3249:23:820:-39.8051,0,-258.312 0/0:334:333,1:333:11952:1:36:0,-96.9457,-1071.93 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:65:64,1:64:2296:1:36:0,-15.9687,-203.303 0/0:242:241,1:241:8622:1:25:0,-70.3494,-773.472 0/0:206:206,0:206:7376:0:0:0,-62.0122,-663.887 0/0:145:145,0:145:5200:0:0:0,-43.6493,-468.138 0/0:154:154,0:154:5516:0:0:0,-46.3586,-496.565 0/1:134:71,63:71:2552:63:2260:-163.325,0,-189.592 0/1:143:58,85:58:2050:85:3052:-231.861,0,-141.721 0/1:98:62,36:62:2224:36:1288:-86.7226,0,-170.923 0/0:187:180,7:180:6452:7:252:0,-33.2636,-557.736 0/0:65:65,0:65:2340:0:0:0,-19.5669,-210.859 chr09 23475087 . G A 27047.6 PASS AB=0.580986;ABP=35.3683;AC=33;AF=0.785714;AN=42;AO=1004;CIGAR=1X;DP=1247;DPB=1247;DPRA=0;EPP=39.562;EPPR=3.44817;GTI=0;LEN=1;MEANALT=1;MQM=59.7002;MQMR=59.9671;NS=21;NUMALT=1;ODDS=12.5764;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35740;QR=8671;RO=243;RPL=1004;RPP=2183.17;RPPR=530.678;RPR=0;RUN=1;SAF=437;SAP=39.562;SAR=567;SRF=118;SRP=3.44817;SRR=125;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:32,36:32:1148:36:1288:-95.752,0,-83.1516 0/1:94:44,50:44:1568:50:1780:-131.996,0,-113.115 0/1:36:16,20:16:572:20:712:-53.5696,0,-40.9763 1/1:88:0,88:0:0:88:3108:-279.781,-26.4906,0 1/1:98:0,98:0:0:98:3465:-311.926,-29.5009,0 0/1:19:11,8:11:396:8:284:-20.1838,0,-30.2632 0/1:73:24,49:24:845:49:1760:-136.692,0,-54.3919 0/1:48:24,24:24:860:24:860:-63.2724,0,-63.2724 1/1:46:0,46:0:0:46:1648:-148.607,-13.8474,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:17:0,17:0:0:17:604:-54.6888,-5.11751,0 1/1:44:0,44:0:0:44:1547:-139.507,-13.2453,0 1/1:70:0,70:0:0:70:2485:-223.85,-21.0721,0 1/1:68:1,67:1:36:67:2396:-212.294,-16.8718,0 1/1:32:1,31:1:36:31:1112:-96.7922,-6.03469,0 0/1:38:22,16:22:792:16:576:-40.7349,0,-60.1665 0/1:89:31,58:31:1090:58:2053:-158.24,0,-71.6162 0/1:103:34,69:34:1220:69:2459:-190.558,0,-79.1007 1/1:47:2,45:2:72:45:1608:-138.147,-7.31169,0 1/1:152:1,151:1:36:151:5387:-481.33,-42.1583,0 chr09 23515765 . GT AG,GG 70556.8 PASS AB=0.723301,0.274757;ABP=449.111,456.903;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2888,285;CIGAR=2X,1M1X;DP=3175;DPB=3175;DPRA=0,1.0203;EPP=5956.96,613.225;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.61905,2.18182;MQM=54.8362,59.8105;MQMR=0;NS=21;NUMALT=2;ODDS=8.17343;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=102769,10160;QR=0;RO=0;RPL=2851,284;RPP=5956.96,613.225;RPPR=0;RPR=37,1;RUN=1,1;SAF=2888,285;SAP=6274.22,621.88;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:141:0,104,36:0:0:104,36:3688,1280:-404.429,-104.322,-73.015,-300.122,0,-289.285 1/2:130:0,88,41:0:0:88,41:3150,1476:-376.435,-120.533,-94.0426,-256.008,0,-243.665 1/2:89:0,57,32:0:0:57,32:2035,1152:-259.887,-94.3526,-77.1939,-165.893,0,-156.26 1/1:286:0,286,0:0:0:286,0:10211,0:-917.643,-86.0946,0,-917.643,-86.0946,-917.643 1/1:395:0,395,0:0:0:395,0:13935,0:-1251.12,-118.907,0,-1251.12,-118.907,-1251.12 1/2:108:0,82,26:0:0:82,26:2931,924:-313.843,-75.6427,-50.9582,-238.556,0,-230.729 1/2:178:0,138,40:0:0:138,40:4933,1415:-516.218,-115.601,-74.0591,-400.97,0,-388.929 1/2:115:0,73,42:0:0:73,42:2616,1493:-334.924,-122.019,-100.044,-213.261,0,-200.617 1/1:275:0,274,1:0:0:274,1:9778,36:-877.568,-82.4822,0,-874.631,-79.185,-874.33 1/1:15:0,15,0:0:0:15,0:538,0:-48.6591,-4.51545,0,-48.6591,-4.51545,-48.6591 1/1:12:0,12,0:0:0:12,0:427,0:-38.6751,-3.61236,0,-38.6751,-3.61236,-38.6751 1/1:46:0,46,0:0:0:46,0:1650,0:-148.567,-13.8474,0,-148.567,-13.8474,-148.567 1/1:374:0,373,1:0:0:373,1:13292,36:-1193.96,-112.284,0,-1191.03,-108.987,-1190.72 1/1:129:0,129,0:0:0:129,0:4592,0:-412.811,-38.8329,0,-412.811,-38.8329,-412.811 1/1:222:0,222,0:0:0:222,0:7888,0:-708.763,-66.8287,0,-708.763,-66.8287,-708.763 1/1:108:0,108,0:0:0:108,0:3836,0:-345.194,-32.5112,0,-345.194,-32.5112,-345.194 1/2:68:0,55,13:0:0:55,13:1967,464:-198.471,-38.1841,-21.6275,-160.644,0,-156.731 1/2:84:0,54,30:0:0:54,30:1928,1062:-243.683,-86.8591,-70.6035,-157.178,0,-148.148 1/2:117:0,94,23:0:0:94,23:3360,822:-340.536,-67.3695,-39.0727,-273.523,0,-266.599 1/1:191:0,191,0:0:0:191,0:6722,0:-603.51,-57.4967,0,-603.51,-57.4967,-603.51 1/1:92:0,92,0:0:0:92,0:3292,0:-294.198,-27.6948,0,-294.198,-27.6948,-294.198 chr09 23517917 . C T 31438.3 PASS AB=0.550279;ABP=18.7322;AC=33;AF=0.785714;AN=42;AO=1455;CIGAR=1X;DP=1784;DPB=1784;DPRA=0;EPP=3145.15;EPPR=706.594;GTI=0;LEN=1;MEANALT=1.04762;MQM=56.3835;MQMR=59.2043;NS=21;NUMALT=1;ODDS=19.6836;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52214;QR=11720;RO=328;RPL=2;RPP=3145.15;RPPR=706.594;RPR=1453;RUN=1;SAF=1455;SAP=3162.5;SAR=0;SRF=328;SRP=715.253;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:75:31,44:31:1108:44:1580:-119.736,0,-77.2154 0/1:58:23,35:23:824:35:1252:-95.4611,0,-57.0199 0/1:109:55,54:55:1963:54:1940:-141.843,0,-143.426 1/1:123:0,123:0:0:123:4416:-396.892,-37.0267,0 1/1:157:2,155:2:72:155:5549:-491.784,-40.425,0 0/1:55:20,35:20:720:35:1256:-96.7505,0,-48.5721 0/1:95:41,54:41:1450:54:1931:-145.453,0,-102.006 0/1:99:48,51:48:1728:51:1824:-133.903,0,-125.569 1/1:107:1,106:1:36:106:3800:-338.46,-28.6119,0 1/1:26:0,26:0:0:26:931:-83.7293,-7.82678,0 1/1:9:0,9:0:0:9:324:-29.5054,-2.70927,0 1/1:62:0,62:0:0:62:2228:-200.322,-18.6639,0 1/1:133:0,133:0:0:133:4780:-429.766,-40.037,0 1/1:103:0,103:0:0:103:3696:-331.689,-31.0061,0 1/1:108:1,107:1:36:107:3852:-342.445,-28.9282,0 1/1:53:0,53:0:0:53:1895:-170.772,-15.9546,0 0/1:57:28,29:28:995:29:1040:-76.7557,0,-72.689 0/1:108:58,50:58:2076:50:1800:-129.563,0,-154.562 0/1:60:18,42:18:644:42:1504:-117.43,0,-40.2095 1/1:115:1,113:1:32:113:4060:-361.002,-31.438,0 1/1:72:1,71:1:36:71:2556:-226.183,-18.0759,0 chr09 23517922 . CC TC,TT 41168.1 PASS AB=0.543933,0.453278;ABP=15.0306,16.6055;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1453,330;CIGAR=1X1M,2X;DP=1787;DPB=1787;DPRA=0,1.17565;EPP=3046.25,45.1237;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.7619,2.15385;MQM=56.3496,59.2455;MQMR=60;NS=21;NUMALT=2;ODDS=19.3059;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52075,11626;QR=36;RO=1;RPL=13,205;RPP=3046.25,45.1237;RPPR=5.18177;RPR=1440,125;RUN=1,1;SAF=1453,330;SAP=3158.16,719.596;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,45,32:0:0:45,32:1608,1113:-221.665,-90.6808,-77.1345,-131.335,0,-121.702 1/2:58:0,34,24:0:0:34,24:1224,849:-169.336,-69.496,-59.2609,-100.196,0,-92.9715 1/2:109:0,52,57:0:0:52,57:1860,2012:-315.239,-163.775,-148.121,-151.819,0,-134.66 1/1:122:0,122,0:0:0:122,0:4376,0:-393.383,-36.7257,0,-393.383,-36.7257,-393.383 1/1:158:0,156,2:0:0:156,2:5575,70:-500.47,-46.9607,0,-494.775,-40.9154,-494.173 1/2:56:0,35,21:0:0:35,21:1256,752:-163.968,-61.5542,-51.0181,-102.771,0,-96.4495 1/2:94:0,53,40:0:0:53,40:1900,1429:-271.435,-116.505,-100.551,-154.928,0,-142.887 1/2:99:0,52,47:0:0:52,47:1853,1677:-287.464,-137.062,-121.408,-150.758,0,-136.61 1/1:107:0,106,1:0:0:106,1:3805,36:-342.147,-31.9092,0,-339.21,-28.6119,-338.909 1/1:26:0,26,0:0:0:26,0:931,0:-83.7752,-7.82678,0,-83.7752,-7.82678,-83.7752 1/1:9:0,9,0:0:0:9,0:324,0:-29.5054,-2.70927,0,-29.5054,-2.70927,-29.5054 1/1:62:0,62,0:0:0:62,0:2223,0:-199.873,-18.6639,0,-199.873,-18.6639,-199.873 1/1:132:0,132,0:0:0:132,0:4752,0:-427.173,-39.736,0,-427.173,-39.736,-427.173 1/1:100:0,99,0:0:0:99,0:3545,0:-318.186,-29.802,0,-318.186,-29.802,-318.186 1/1:110:0,110,0:0:0:110,0:3956,0:-355.417,-33.1133,0,-355.417,-33.1133,-355.417 1/1:53:0,53,0:0:0:53,0:1904,0:-171.578,-15.9546,0,-171.578,-15.9546,-171.578 1/2:59:0,29,29:0:0:29,29:1036,1003:-165.947,-81.4748,-72.745,-84.4643,0,-75.7344 1/2:106:0,49,57:0:0:49,57:1764,1980:-305.042,-161.308,-146.557,-144.088,0,-126.929 1/2:59:0,41,18:0:0:41,18:1472,644:-172.759,-52.8447,-40.5025,-120.272,0,-114.853 1/1:118:1,116,1:1:36:116,1:4131,25:-367.264,-31.9271,0,-365.618,-33.0256,-368.254 1/1:73:0,72,1:0:0:72,1:2580,36:-231.651,-21.6742,0,-228.713,-18.3769,-228.412 chr09 23517929 . C T 33359.5 PASS AB=0.545202;ABP=15.7703;AC=33;AF=0.785714;AN=42;AO=1460;CIGAR=1X;DP=1793;DPB=1793;DPRA=0;EPP=2713.63;EPPR=647.885;GTI=0;LEN=1;MEANALT=1.04762;MQM=56.3952;MQMR=59.3193;NS=21;NUMALT=1;ODDS=19.416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52307;QR=11816;RO=332;RPL=1405;RPP=2713.63;RPPR=647.885;RPR=55;RUN=1;SAF=1460;SAP=3173.36;SAR=0;SRF=332;SRP=723.939;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:32,45:32:1148:45:1591:-120.122,0,-80.2122 0/1:58:23,34:23:816:34:1220:-92.6697,0,-56.3866 0/1:109:56,53:56:1977:53:1900:-138.248,0,-144.96 1/1:122:0,122:0:0:122:4347:-390.814,-36.7257,0 1/1:156:2,154:2:72:154:5530:-490.023,-40.124,0 0/1:56:21,35:21:752:35:1260:-96.8097,0,-50.958 0/1:95:41,54:41:1453:54:1936:-145.883,0,-102.466 0/1:98:47,51:47:1692:51:1823:-134.481,0,-123.06 1/1:107:1,106:1:36:106:3797:-338.276,-28.6119,0 1/1:27:0,27:0:0:27:972:-87.3962,-8.12781,0 1/1:9:0,9:0:0:9:324:-29.5054,-2.70927,0 1/1:62:0,62:0:0:62:2228:-200.322,-18.6639,0 1/1:133:0,133:0:0:133:4772:-429.034,-40.037,0 1/1:101:0,101:0:0:101:3620:-324.858,-30.404,0 1/1:109:1,108:1:36:108:3888:-345.748,-29.2292,0 1/1:56:0,56:0:0:56:2003:-180.49,-16.8577,0 0/1:59:30,29:30:1068:29:1040:-76.1536,0,-78.6549 0/1:107:58,49:58:2050:49:1760:-126.27,0,-152.541 0/1:60:18,42:18:644:42:1512:-118.147,0,-40.2012 1/1:119:1,118:1:36:118:4201:-373.312,-32.2243,0 1/1:73:1,72:1:36:72:2583:-228.524,-18.3769,0 chr09 23539097 . G A 4157.04 PASS AB=0.52521;ABP=5.63796;AC=9;AF=0.214286;AN=42;AO=255;CIGAR=1X;DP=1241;DPB=1241;DPRA=1.29439;EPP=556.736;EPPR=2141.91;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.5373;MQMR=59.8883;NS=21;NUMALT=1;ODDS=10.7274;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9060;QR=35122;RO=985;RPL=0;RPP=556.736;RPPR=2141.91;RPR=255;RUN=1;SAF=255;SAP=556.736;SAR=0;SRF=985;SRP=2141.91;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:48:26,22:26:906:22:761:-54.3289,0,-67.4015 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.9731 0/1:92:42,50:42:1500:50:1773:-131.974,0,-107.6 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.078 0/0:142:140,2:140:4969:2:72:0,-35.9095,-440.521 0/1:49:22,27:22:788:27:964:-72.326,0,-56.4934 0/1:72:27,45:27:972:45:1608:-122.931,0,-66.1237 0/1:49:31,18:31:1100:18:644:-43.5401,0,-84.5149 0/0:166:166,0:166:5956:0:0:0,-49.971,-536.016 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:75:75,0:75:2658:0:0:0,-22.5772,-239.46 0/0:111:107,3:107:3832:3:108:0,-23.398,-334.917 0/0:82:82,0:82:2902:0:0:0,-24.6845,-261.414 0/0:27:27,0:27:957:0:0:0,-8.12781,-86.4439 0/1:41:15,26:15:540:26:917:-70.4847,0,-36.5943 0/1:53:24,29:24:856:29:1044:-78.3202,0,-61.4065 0/1:56:33,23:33:1173:23:809:-56.2706,0,-88.9895 0/0:64:64,0:64:2281:0:0:0,-19.2659,-205.55 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.42 chr09 23539145 . C T 20646.8 PASS AB=0.481172;ABP=4.48218;AC=33;AF=0.785714;AN=42;AO=973;CIGAR=1X;DP=1227;DPB=1227;DPRA=0;EPP=2098.52;EPPR=554.564;GTI=0;LEN=1;MEANALT=1;MQM=59.888;MQMR=59.7402;NS=21;NUMALT=1;ODDS=10.5689;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34464;QR=9067;RO=254;RPL=971;RPP=2098.52;RPPR=554.564;RPR=2;RUN=1;SAF=973;SAP=2115.85;SAR=0;SRF=254;SRP=554.564;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:23,26:23:824:26:919:-68.2757,0,-59.7044 0/1:16:10,6:10:360:6:216:-14.9731,0,-27.9278 0/1:90:48,42:48:1716:42:1483:-106.671,0,-127.475 1/1:35:0,35:0:0:35:1233:-111.243,-10.5361,0 1/1:139:2,137:2:72:137:4856:-430.355,-35.0064,0 0/1:49:27,22:27:955:22:792:-56.8543,0,-71.5135 0/1:70:43,27:43:1524:27:942:-64.0201,0,-116.31 0/1:51:17,34:17:604:34:1214:-94.1691,0,-39.3381 1/1:161:0,161:0:0:161:5702:-513.245,-48.4658,0 1/1:7:0,7:0:0:7:234:-21.386,-2.10721,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:14:0,14:0:0:14:487:-44.1592,-4.21442,0 1/1:74:1,73:1:36:73:2570:-227.945,-18.6779,0 1/1:108:3,105:3:108:105:3720:-324.924,-22.4361,0 1/1:80:0,80:0:0:80:2853:-257.008,-24.0824,0 1/1:25:0,25:0:0:25:880:-79.5177,-7.52575,0 0/1:43:28,15:28:1004:15:531:-35.1776,0,-77.7244 0/1:54:29,25:29:1040:25:885:-63.7109,0,-77.6587 0/1:56:23,33:23:824:33:1180:-89.6451,0,-57.6256 1/1:61:0,61:0:0:61:2168:-195.387,-18.3628,0 1/1:39:0,39:0:0:39:1387:-125.127,-11.7402,0 chr09 23561121 . C T 18905.1 PASS AB=0.478723;ABP=4.85836;AC=33;AF=0.785714;AN=42;AO=820;CIGAR=1X;DP=1066;DPB=1066;DPRA=0;EPP=686.399;EPPR=535.021;GTI=0;LEN=1;MEANALT=1.04762;MQM=52.7598;MQMR=44.8612;NS=21;NUMALT=1;ODDS=4.89595;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29325;QR=8735;RO=245;RPL=156;RPP=686.399;RPPR=535.021;RPR=664;RUN=1;SAF=0;SAP=1783.62;SAR=820;SRF=0;SRP=535.021;SRR=245;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:32,27:32:1148:27:953:-67.1302,0,-84.8265 0/1:18:9,9:9:324:9:324:-24.0873,0,-22.9615 0/1:85:55,29:55:1976:29:1029:-67.3143,0,-149.675 1/1:33:0,33:0:0:33:1154:-104.161,-9.93399,0 1/1:97:1,96:1:36:96:3452:-307.324,-25.6331,0 0/1:38:28,10:28:989:10:360:-21.3052,0,-76.1375 0/1:61:34,27:34:1220:27:968:-69.0745,0,-88.9108 0/1:49:17,32:17:612:32:1152:-89.2397,0,-39.6228 1/1:125:0,125:0:0:125:4484:-250.747,-37.6288,0 1/1:9:0,9:0:0:9:309:-28.1407,-2.70927,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 1/1:88:0,88:0:0:88:3152:-283.905,-26.4906,0 1/1:64:0,64:0:0:64:2251:-202.849,-19.2659,0 1/1:34:0,34:0:0:34:1224:-108.084,-10.235,0 1/1:28:0,28:0:0:28:1004:-55.2118,-8.42884,0 0/1:11:7,4:7:233:4:144:-4.76633,0,-17.7432 0/1:82:46,36:46:1640:36:1296:-92.2591,0,-120.769 0/1:67:16,51:16:557:51:1821:-143.999,0,-29.8748 1/1:56:0,56:0:0:56:2016:-181.713,-16.8577,0 1/1:40:0,40:0:0:40:1440:-129.897,-12.0412,0 chr09 23601824 . ATCCG GTCCT,ATCCT 89918.3 PASS AB=0.523634,0.466544;ABP=10.9137,18.8478;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2635,795;CIGAR=1X3M1X,4M1X;DP=3462;DPB=3463.2;DPRA=0,2.49756;EPP=5724.84,1712;EPPR=0;GTI=0;LEN=5,1;MEANALT=3.04762,3.5625;MQM=50.1298,59.2478;MQMR=0;NS=21;NUMALT=2;ODDS=7.07363;PAIRED=0,0;PAIREDR=0;PAO=3,3;PQA=106,106;PQR=0;PRO=0;QA=90622,28169;QR=0;RO=0;RPL=1377,337;RPP=14.6802,43.0009;RPPR=0;RPR=1258,458;RUN=1,1;SAF=1377,337;SAP=14.6802,43.0009;SAR=1258,458;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:213:0,123,89:0:0:123,89:4217,3157:-597.464,-257.3,-220.273,-340.283,0,-313.491 1/2:119:0,64,55:0:0:64,55:2185,1928:-331.48,-157.164,-137.898,-174.66,0,-158.103 1/2:132:0,60,69:0:0:60,69:2089,2456:-369.276,-200.206,-182.145,-169.105,0,-148.334 1/1:185:0,183,1:0:0:183,1:6278,32:-561.705,-55.0885,0,-559.127,-52.5262,-558.826 1/1:380:0,358,14:0:0:358,14:12264,504:-1096.43,-107.769,0,-1055.3,-66.6145,-1051.09 1/2:145:0,62,77:0:0:62,77:2091,2706:-387.112,-219.836,-201.172,-167.301,0,-144.122 1/2:270:0,149,119:0:0:149,119:5081,4222:-752.305,-343.859,-299.006,-408.494,0,-372.671 1/2:229:0,121,107:0:0:121,107:4164,3808:-645.516,-309.509,-273.085,-336.145,0,-303.935 1/1:265:0,263,2:0:0:263,2:9118,72:-817.244,-79.1709,0,-811.369,-72.9663,-810.767 1/1:20:0,20,0:0:0:20,0:684,0:-61.0103,-6.0206,0,-61.0103,-6.0206,-61.0103 1/1:5:0,5,0:0:0:5,0:160,0:-14.6128,-1.50515,0,-14.6128,-1.50515,-14.6128 1/1:25:0,25,0:0:0:25,0:862,0:-76.8612,-7.52575,0,-76.8612,-7.52575,-76.8612 1/1:220:0,214,5:0:0:214,5:7385,180:-661.569,-64.4204,0,-646.881,-49.6499,-645.376 1/1:147:0,145,0:0:0:145,0:4912,0:-440.176,-43.6494,0,-440.176,-43.6494,-440.176 1/1:188:0,188,0:0:0:188,0:6563,0:-588.813,-56.5936,0,-588.813,-56.5936,-588.813 1/1:131:0,129,2:0:0:129,2:4463,72:-399.367,-38.8329,0,-393.492,-32.5982,-392.89 1/2:134:0,61,71:0:0:61,71:2059,2454:-365.404,-199.357,-180.994,-166.121,0,-144.748 1/2:231:0,105,126:0:0:105,126:3614,4506:-658.986,-367.446,-335.838,-291.889,0,-253.959 1/2:156:0,108,47:0:0:108,47:3715,1680:-437.43,-137.105,-104.594,-300.466,0,-286.317 1/1:149:0,135,10:0:0:135,10:4659,356:-415.727,-40.6391,0,-386.71,-11.5937,-383.7 1/1:118:0,117,1:0:0:117,1:4059,36:-362.136,-35.2205,0,-359.199,-31.9233,-358.898 chr09 23703641 . C T 45235.2 PASS AB=0.513699;ABP=4.20015;AC=32;AF=0.761905;AN=42;AO=1654;CIGAR=1X;DP=2153;DPB=2153;DPRA=0.72446;EPP=98.7179;EPPR=113.024;GTI=0;LEN=1;MEANALT=1;MQM=59.2461;MQMR=59.9599;NS=21;NUMALT=1;ODDS=17.9119;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58650;QR=17797;RO=499;RPL=1647;RPP=3534.08;RPPR=1069.27;RPR=7;RUN=1;SAF=685;SAP=108.9;SAR=969;SRF=168;SRP=118.629;SRR=331;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:85:51,34:51:1809:34:1216:-84.1064,0,-137.501 0/1:59:30,29:30:1076:29:1032:-75.4327,0,-79.3921 0/1:84:49,35:49:1741:35:1221:-84.8053,0,-131.686 1/1:89:0,89:0:0:89:3146:-283.351,-26.7917,0 1/1:193:2,191:2:72:191:6764:-601.814,-51.2621,0 0/1:78:36,42:36:1288:42:1486:-110.535,0,-92.7432 0/1:148:76,72:76:2711:72:2539:-184.2,0,-199.681 0/0:139:139,0:139:4944:0:0:0,-41.8432,-445.082 1/1:206:0,206:0:0:206:7321:-658.526,-62.0122,0 1/1:33:0,33:0:0:33:1176:-106.148,-9.93399,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:73:0,73:0:0:73:2573:-231.651,-21.9752,0 1/1:139:0,139:0:0:139:4899:-441.002,-41.8432,0 1/1:119:0,119:0:0:119:4191:-377.289,-35.8226,0 1/1:136:1,135:1:36:135:4819:-430.098,-37.3418,0 1/1:31:0,31:0:0:31:1093:-98.5565,-9.33193,0 0/1:28:15,13:15:532:13:456:-32.9372,0,-39.7842 0/1:158:65,93:65:2332:93:3312:-250.706,0,-162.575 0/1:90:33,57:33:1188:57:2044:-157.128,0,-80.1359 1/1:168:1,167:1:36:167:5951:-532.102,-46.9748,0 1/1:83:1,82:1:32:82:2911:-259.001,-21.7862,0 chr09 23724766 . AATGG GATGA,GATGG 46324.2 PASS AB=0.614667,0.376;ABP=88.6648,103.176;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1695,429;CIGAR=1X3M1X,1X4M;DP=2134;DPB=2134;DPRA=0.734559,0.920772;EPP=3597.31,900.152;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.1,2.5;MQM=59.4761,59.9114;MQMR=0;NS=21;NUMALT=2;ODDS=13.9018;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59846,15254;QR=0;RO=0;RPL=10,4;RPP=3597.31,900.152;RPPR=0;RPR=1685,425;RUN=1,1;SAF=1695,429;SAP=3683.66,934.572;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:121:0,58,61:0:0:58,61:2057,2171:-344.494,-176.985,-159.525,-167.558,0,-149.195 1/2:50:0,38,12:0:0:38,12:1336,432:-143.196,-35.6088,-24.1697,-107.944,0,-104.332 1/2:112:0,63,47:0:0:63,47:2213,1638:-312.806,-133.195,-114.23,-179.601,0,-165.452 1/1:106:0,105,1:0:0:105,1:3680,27:-331.122,-31.6082,0,-328.994,-29.2094,-328.693 1/1:206:0,203,3:0:0:203,3:7170,104:-644.981,-61.1091,0,-636.528,-52.3094,-635.625 1/2:83:0,53,30:0:0:53,30:1890,1067:-241.352,-87.3103,-71.3557,-154.398,0,-145.367 1/2:153:0,103,48:0:0:103,48:3658,1712:-437.636,-139.635,-108.628,-298.075,0,-283.626 2/2:136:0,0,135:0:0:0,135:0,4820:-433.659,-433.659,-433.659,-40.6391,-40.6391,0 1/1:178:0,177,0:0:0:177,0:6239,0:-561.255,-53.2823,0,-561.255,-53.2823,-561.255 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:5:0,4,1:0:0:4,1:143,36:-14.9552,-3.29724,-2.09312,-12.0173,0,-11.7163 1/1:19:0,19,0:0:0:19,0:676,0:-61.1598,-5.71957,0,-61.1598,-5.71957,-61.1598 1/1:139:0,139,0:0:0:139,0:4906,0:-441.666,-41.8432,0,-441.666,-41.8432,-441.666 1/1:108:0,108,0:0:0:108,0:3793,0:-341.423,-32.5112,0,-341.423,-32.5112,-341.423 1/1:197:0,196,0:0:0:196,0:6954,0:-624.495,-59.0019,0,-624.495,-59.0019,-624.495 1/1:106:0,106,0:0:0:106,0:3726,0:-335.48,-31.9092,0,-335.48,-31.9092,-335.48 1/2:62:0,36,26:0:0:36,26:1272,936:-180.226,-76.7327,-65.8956,-103.851,0,-96.0239 1/2:87:0,49,38:0:0:49,38:1742,1347:-251.894,-110.082,-95.3311,-142.167,0,-130.728 1/2:77:0,57,19:0:0:57,19:2015,680:-219.608,-55.5067,-38.348,-164.155,0,-158.436 1/1:112:0,105,7:0:0:105,7:3702,248:-332.693,-31.6082,0,-312.49,-11.0512,-310.383 1/1:73:0,72,1:0:0:72,1:2530,36:-227.576,-21.6742,0,-224.639,-18.3769,-224.338 chr09 23728432 . G C,A 61732.9 PASS AB=0.476962,0.523038;ABP=8.41304,8.41304;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2178,710;CIGAR=1X,1X;DP=2890;DPB=2890;DPRA=1.59205,1.45741;EPP=4732.48,1544.76;EPPR=7.35324;GTI=1;LEN=1,1;MEANALT=1.6,1.92308;MQM=59.9247,59.8423;MQMR=60;NS=21;NUMALT=2;ODDS=2.3972;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76633,25380;QR=68;RO=2;RPL=2178,710;RPP=4732.48,1544.76;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=2178,710;SAP=4732.48,1544.76;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:151:0,60,91:0:0:60,91:2105,3245:-436.178,-264.877,-246.815,-171.654,0,-144.26 1/2:145:0,63,82:0:0:63,82:2232,2932:-421.255,-239.43,-220.465,-182.18,0,-157.495 1/2:131:0,71,60:0:0:71,60:2489,2141:-375.925,-173.387,-152.014,-202.89,0,-184.829 1/1:168:1,167,0:1:36:167,0:5870,0:-524.82,-46.9748,0,-525.121,-50.272,-528.058 1/1:450:0,445,5:0:0:445,5:15541,180:-1397.48,-133.958,0,-1382.79,-118.911,-1381.28 1/2:140:0,64,76:0:0:64,76:2276,2728:-408.364,-222.884,-203.618,-185.837,0,-162.958 1/2:319:0,159,160:0:0:159,160:5660,5728:-928.331,-467.027,-419.163,-461.66,0,-413.495 2/2:88:0,0,88:0:0:0,88:0,3133:-282.173,-282.173,-282.173,-26.4906,-26.4906,0 1/1:212:0,212,0:0:0:212,0:7465,0:-671.901,-63.8184,0,-671.901,-63.8184,-671.901 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/1:22:0,22,0:0:0:22,0:767,0:-69.3457,-6.62266,0,-69.3457,-6.62266,-69.3457 1/1:134:0,134,0:0:0:134,0:4742,0:-426.938,-40.338,0,-426.938,-40.338,-426.938 1/1:149:0,149,0:0:0:149,0:5178,0:-466.169,-44.8535,0,-466.169,-44.8535,-466.169 1/1:174:0,171,3:0:0:171,3:5974,108:-537.414,-51.4761,0,-528.602,-42.3041,-527.699 1/1:148:1,146,1:1:32:146,1:5190,36:-463.995,-41.392,0,-461.359,-40.993,-463.636 1/2:93:0,51,42:0:0:51,42:1807,1508:-270.573,-123.371,-108.019,-147.558,0,-134.915 1/2:117:0,46,71:0:0:46,71:1627,2529:-339.003,-206.487,-192.64,-132.871,0,-111.498 1/2:71:0,41,30:0:0:41,30:1450,1076:-206.218,-88.122,-75.7797,-118.452,0,-109.421 1/1:114:0,114,0:0:0:114,0:4016,0:-361.63,-34.3174,0,-361.63,-34.3174,-361.63 1/1:51:0,51,0:0:0:51,0:1816,0:-163.405,-15.3525,0,-163.405,-15.3525,-163.405 chr09 23728456 . G C 14530.9 PASS AB=0.459095;ABP=21.3083;AC=11;AF=0.261905;AN=42;AO=810;CIGAR=1X;DP=3256;DPB=3256;DPRA=1.37991;EPP=1761.9;EPPR=5310.09;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.2037;MQMR=59.8801;NS=21;NUMALT=1;ODDS=5.29618;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28869;QR=86415;RO=2444;RPL=0;RPP=1761.9;RPPR=5310.09;RPR=810;RUN=1;SAF=0;SAP=1761.9;SAR=810;SRF=0;SRP=5310.09;SRR=2444;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:247:116,131:116:4110:131:4653:-344.493,0,-295.731 0/1:127:69,58:69:2458:58:2073:-148.377,0,-183.202 0/1:184:101,82:101:3596:82:2919:-207.478,0,-268.397 0/0:156:156,0:156:5480:0:0:0,-46.9607,-493.311 0/0:249:248,1:248:8774:1:36:0,-71.3582,-786.019 0/1:145:88,57:88:3083:57:2044:-140.373,0,-233.855 0/1:232:134,98:134:4733:98:3494:-244.718,0,-356.289 1/1:225:0,225:0:0:225:8019:-721.529,-67.7318,0 0/0:312:312,0:312:11048:0:0:0,-93.9214,-993.932 0/1:11:10,1:10:343:1:36:-0.2865,0,-27.8892 0/0:9:9,0:9:316:0:0:0,-2.70927,-28.7789 0/0:21:21,0:21:741:0:0:0,-6.32163,-67.0116 0/0:210:208,2:208:7357:2:72:0,-56.3796,-655.111 0/0:147:147,0:147:5123:0:0:0,-44.2514,-461.211 0/0:305:303,2:303:10797:2:72:0,-84.9774,-964.741 0/0:175:174,0:174:6125:0:0:0,-52.3792,-551.129 0/1:146:71,75:71:2497:75:2664:-196.033,0,-181.03 0/1:99:44,55:44:1568:55:1959:-146.172,0,-111.61 0/1:68:47,21:47:1673:21:756:-47.8696,0,-130.385 0/0:142:140,2:140:4971:2:72:0,-35.9095,-440.634 0/0:46:46,0:46:1622:0:0:0,-13.8474,-146.267 chr09 23739723 . 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G A 22486.8 PASS AB=0.614078;ABP=49.581;AC=32;AF=0.761905;AN=42;AO=1035;CIGAR=1X;DP=1219;DPB=1219;DPRA=2.48958;EPP=2250.48;EPPR=402.561;GTI=1;LEN=1;MEANALT=1;MQM=59.9894;MQMR=60;NS=21;NUMALT=1;ODDS=2.2084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37056;QR=6580;RO=184;RPL=1035;RPP=2250.48;RPPR=402.561;RPR=0;RUN=1;SAF=0;SAP=2250.48;SAR=1035;SRF=0;SRP=402.561;SRR=184;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:16,30:16:576:30:1065:-82.3109,0,-38.3276 0/1:27:16,11:16:568:11:396:-27.8549,0,-43.3241 0/1:36:8,28:8:288:28:1008:-80.1993,0,-15.4303 1/1:53:0,53:0:0:53:1881:-169.567,-15.9546,0 1/1:89:1,88:1:36:88:3156:-280.664,-23.1934,0 0/1:31:9,22:9:320:22:788:-61.9129,0,-19.8104 0/1:67:21,46:21:744:46:1648:-128.44,0,-47.1153 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.7218 1/1:112:0,112:0:0:112:4017:-361.718,-33.7154,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 1/1:51:0,51:0:0:51:1836:-165.521,-15.3525,0 1/1:104:0,104:0:0:104:3728:-335.721,-31.3071,0 1/1:75:0,75:0:0:75:2672:-240.723,-22.5773,0 1/1:112:0,112:0:0:112:4009:-360.998,-33.7154,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 0/1:34:13,21:13:464:21:752:-57.7712,0,-31.8625 0/1:105:58,47:58:2076:47:1692:-120.959,0,-155.502 0/1:66:18,48:18:648:48:1724:-135.577,0,-38.7839 1/1:83:0,83:0:0:83:2952:-265.911,-24.9855,0 1/1:64:0,64:0:0:64:2300:-207.261,-19.2659,0 chr09 23825573 . 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G A 73465.2 PASS AB=0.492958;ABP=3.68315;AC=32;AF=0.761905;AN=42;AO=3419;CIGAR=1X;DP=4398;DPB=4398;DPRA=1.25893;EPP=7427.27;EPPR=2124.54;GTI=0;LEN=1;MEANALT=1.1;MQM=55.3858;MQMR=54.8649;NS=21;NUMALT=1;ODDS=24.6356;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=122265;QR=34780;RO=977;RPL=0;RPP=7427.27;RPPR=2124.54;RPR=3419;RUN=1;SAF=0;SAP=7427.27;SAR=3419;SRF=0;SRP=2124.54;SRR=977;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:216:105,110:105:3702:110:3923:-286.634,0,-265.808 0/1:224:114,110:114:4080:110:3956:-285.681,0,-298.198 0/1:222:92,130:92:3272:130:4644:-350.125,0,-225.751 1/1:252:0,252:0:0:252:9016:-809.864,-75.8596,0 1/1:444:3,441:3:108:441:15764:-1402.32,-123.674,0 0/1:281:152,129:152:5423:129:4623:-331.266,0,-401.226 0/1:304:164,140:164:5859:140:4991:-356.123,0,-434.389 0/0:168:168,0:168:5986:0:0:0,-50.573,-536.728 1/1:417:0,417:0:0:417:14944:-1340.8,-125.53,0 1/1:16:1,15:1:36:15:536:-44.7632,-1.21992,0 1/1:11:0,11:0:0:11:387:-35.0614,-3.31133,0 1/1:80:0,80:0:0:80:2874:-258.213,-24.0824,0 1/1:219:1,218:1:36:218:7813:-698.171,-62.3299,0 1/1:232:0,232:0:0:232:8296:-745.333,-69.839,0 1/1:430:2,427:2:72:427:15263:-1363.48,-122.57,0 1/1:228:0,228:0:0:228:8171:-734.556,-68.6348,0 0/1:175:96,79:96:3416:79:2787:-196.873,0,-253.266 0/1:67:35,32:35:1219:32:1144:-81.4088,0,-89.4794 0/1:73:33,40:33:1175:40:1413:-105.107,0,-83.9459 1/1:286:11,275:11:396:275:9824:-842.752,-50.1629,0 1/1:53:0,53:0:0:53:1896:-170.74,-15.9546,0 chr09 23895565 . 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T A 1170.08 PASS AB=0.150437;ABP=4984.01;AC=9;AF=0.214286;AN=42;AO=718;CIGAR=1X;DP=10157;DPB=10157;DPRA=2.14208;EPP=1562.13;EPPR=20484.3;GTI=6;LEN=1;MEANALT=1.33333;MQM=59.3064;MQMR=50.707;NS=21;NUMALT=1;ODDS=7.14938;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25554;QR=337496;RO=9432;RPL=0;RPP=1562.13;RPPR=20484.3;RPR=718;RUN=1;SAF=718;SAP=1562.13;SAR=0;SRF=9432;SRP=20484.3;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:748:650,98:650:23246:98:3486:-88.7255,0,-1827.15 0/1:510:435,75:435:15497:75:2658:-85.8315,0,-1221.99 0/1:514:451,61:451:16162:61:2177:-41.7681,0,-1276.76 0/0:515:515,0:515:18422:0:0:0,-155.03,-1638.36 0/0:1410:1408,1:1408:50451:1:36:0,-420.916,-4475.35 0/1:569:480,88:480:17176:88:3107:-108.605,0,-1355.6 0/1:632:515,117:515:18425:117:4155:-182.792,0,-1451.54 0/1:421:349,72:349:12478:72:2584:-105.942,0,-982.091 0/0:1057:1055,2:1055:37816:2:72:0,-311.359,-3332.46 0/0:44:44,0:44:1580:0:0:0,-13.2453,-140.904 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.2423 0/0:52:52,0:52:1860:0:0:0,-15.6536,-166.463 0/0:388:387,0:387:13861:0:0:0,-116.499,-1235.21 0/0:313:313,0:313:11154:0:0:0,-94.2224,-992.568 0/0:784:783,0:783:28031:0:0:0,-235.706,-2486.57 0/0:384:384,0:384:13707:0:0:0,-115.596,-1214.35 0/1:383:328,55:328:11695:55:1952:-60.6286,0,-909.548 0/1:637:522,114:522:18671:114:4080:-175.448,0,-1464.57 0/1:279:253,26:253:9048:26:932:-0.210585,0,-719.669 0/0:363:354,9:354:12688:9:315:0,-80.8174,-1094.23 0/0:135:135,0:135:4844:0:0:0,-40.639,-430.332 chr09 23935300 . 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G C 1831.98 PASS AB=0.148016;ABP=6619;AC=10;AF=0.238095;AN=42;AO=923;CIGAR=1X;DP=10052;DPB=10052;DPRA=1.43766;EPP=1998.6;EPPR=19778.6;GTI=6;LEN=1;MEANALT=1.4;MQM=42.5937;MQMR=52.1803;NS=21;NUMALT=1;ODDS=21.4034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32696;QR=325021;RO=9119;RPL=922;RPP=1998.6;RPPR=19778.6;RPR=1;RUN=1;SAF=923;SAP=2007.28;SAR=0;SRF=9119;SRP=19804.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:748:655,91:655:23362:91:3207:-57.7736,0,-1844.67 0/1:510:451,59:451:16102:59:2101:-32.6732,0,-1280.18 0/1:510:433,75:433:15453:75:2651:-76.7894,0,-1222.52 0/0:504:504,0:504:17903:0:0:0,-151.719,-1593.02 0/1:1398:1201,197:1201:42773:197:6981:-192.039,0,-3387.85 0/1:565:476,89:476:16978:89:3139:-106.926,0,-1343.98 0/0:627:624,1:624:22197:1:36:0,-184.963,-1977.59 0/1:405:277,128:277:9865:128:4556:-277.992,0,-765.678 0/1:1055:901,154:901:32156:154:5467:-161.509,0,-2526.03 0/0:45:43,2:43:1548:2:72:0,-6.85643,-131.397 0/0:20:20,0:20:720:0:0:0,-6.0206,-64.481 0/1:50:43,7:43:1544:7:248:-7.15913,0,-123.576 0/0:384:383,1:383:13707:1:36:0,-112.075,-1218.15 0/0:306:303,1:303:10722:1:36:0,-88.3091,-951.02 0/0:779:779,0:779:27881:0:0:0,-234.502,-2473.6 0/0:381:381,0:381:13624:0:0:0,-114.692,-1207.62 0/0:374:373,0:373:13285:0:0:0,-112.284,-1169.11 0/1:633:552,81:552:19593:81:2842:-58.2049,0,-1555.67 0/1:274:244,29:244:8687:29:1040:-9.04295,0,-691.305 0/0:354:346,8:346:12310:8:284:0,-81.1844,-1063.88 0/0:130:130,0:130:4611:0:0:0,-39.1339,-409.673 chr09 23935329 . CT CC,TC 200319 PASS AB=0.84344,0.153634;ABP=6304.77,6412.62;AC=31,11;AF=0.738095,0.261905;AN=42;AO=9015,963;CIGAR=1M1X,2X;DP=10015;DPB=10015;DPRA=0,1.12927;EPP=19578.8,2094.14;EPPR=9.52472;GTI=7;LEN=1,2;MEANALT=2.7619,2.83333;MQM=52.0643,43.0145;MQMR=60;NS=21;NUMALT=2;ODDS=4.74219;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=314741,33520;QR=95;RO=3;RPL=9015,963;RPP=19578.8,2094.14;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=9015,963;SAP=19578.8,2094.14;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:742:0,645,96:0:0:645,96:22726,3326:-2085.93,-264.542,-70.3778,-1821.52,0,-1792.62 1/2:497:0,425,70:0:0:425,70:14805,2444:-1386.14,-195.898,-67.9603,-1190.25,0,-1169.18 1/2:513:0,435,78:0:0:435,78:15252,2679:-1438.01,-210.664,-79.7159,-1227.68,0,-1204.2 1/1:498:0,495,2:0:0:495,2:17201,70:-1531.33,-149.01,0,-1525.63,-143.308,-1525.03 1/2:1396:0,1196,198:0:0:1196,198:41819,6844:-3907.98,-541.528,-181.496,-3366.53,0,-3306.92 1/2:566:0,468,97:0:0:468,97:16157,3403:-1571.45,-271.137,-130.255,-1300.29,0,-1271.09 1/1:614:0,609,1:0:0:609,1:21203,36:-1893.62,-183.327,0,-1890.74,-180.442,-1890.44 1/2:406:0,273,131:0:0:273,131:9476,4626:-1135.84,-365.792,-283.61,-770.131,0,-730.696 1/2:1051:1,889,154:1:36:889,154:31134,5391:-2911.82,-423.759,-159.08,-2485.45,0,-2442.03 1/1:46:0,44,2:0:0:44,2:1549,72:-137.942,-13.2453,0,-132.206,-7.15746,-131.604 1/2:20:0,18,2:0:0:18,2:614,72:-55.4073,-6.23466,-0.816122,-49.5302,0,-48.9281 1/2:50:0,43,7:0:0:43,7:1535,241:-144.03,-19.4875,-6.54324,-124.882,0,-122.775 1/1:376:0,375,1:0:0:375,1:13144,36:-1170.75,-112.886,0,-1167.88,-109.666,-1167.58 1/1:309:0,303,1:0:0:303,1:10641,34:-947.176,-91.2121,0,-944.441,-88.4613,-944.14 1/1:781:1,777,0:1:34:777,0:27292,0:-2420.59,-231.138,0,-2420.89,-233.9,-2423.65 1/1:381:0,379,0:0:0:379,0:13294,0:-1178.16,-114.09,0,-1178.16,-114.09,-1178.16 1/1:380:1,376,3:1:25:376,3:13225,97:-1161.69,-111.257,0,-1154.18,-105.316,-1155.22 1/2:633:0,548,84:0:0:548,84:18987,2898:-1755.9,-227.858,-62.8938,-1528.11,0,-1502.82 1/2:277:0,248,28:0:0:248,28:8456,987:-757.649,-78.3588,-3.70339,-679.428,0,-670.999 1/1:353:0,344,8:0:0:344,8:11969,264:-1059.17,-103.554,0,-1038.24,-82.6438,-1035.83 1/1:126:0,125,0:0:0:125,0:4262,0:-379.373,-37.6288,0,-379.373,-37.6288,-379.373 chr09 23935338 . C A,T 14970.2 PASS AB=0.209426,0.0854589;ABP=7020.69,14866.5;AC=17,4;AF=0.404762,0.0952381;AN=42;AO=2004,851;CIGAR=1X,1X;DP=9978;DPB=9978;DPRA=0,0;EPP=4354.64,1850.93;EPPR=15468.2;GTI=7;LEN=1,1;MEANALT=2,2;MQM=40.8184,57.6216;MQMR=53.5459;NS=21;NUMALT=2;ODDS=5.24207;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=69919,29268;QR=250692;RO=7122;RPL=2004,851;RPP=4354.64,1850.93;RPPR=15468.2;RPR=0,0;RUN=1,1;SAF=2004,851;SAP=4354.64,1850.93;SAR=0,0;SRF=7122;SRP=15468.2;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:750:522,217,11:522:18406:217,11:7657,392:-441.722,0,-1421.41,-566.987,-1454.86,-2050.42 0/1:498:380,109,9:380:13432:109,9:3801,324:-187.171,0,-1053.09,-275.128,-1059.47,-1358.34 0/2:494:317,78,99:317:11254:78,99:2744,3334:-174.584,-54.8814,-935.9,0,-689.372,-874.695 0/1:490:368,99,23:368:12962:99,23:3380,801:-153.561,0,-1020.22,-199.222,-984.906,-1242.33 0/1:1394:1050,183,161:1050:36938:183,161:6388,5525:-184.537,0,-2919.53,-53.9355,-2527.94,-2980.09 0/1:564:407,80,77:407:14280:80,77:2844,2656:-101.746,0,-1126.44,-8.53137,-934.793,-1135.88 0/1:615:475,119,21:475:16655:119,21:4086,744:-180.07,0,-1313.76,-262.455,-1288.98,-1605.73 0/2:409:298,0,111:298:10503:0,111:0,3812:-219.399,-309.106,-1153.89,0,-845.126,-811.712 0/1:1034:728,201,105:728:25615:201,105:7000,3604:-324.948,0,-1995.43,-251.632,-1763.47,-2275.97 0/1:45:30,12,3:30:1072:12,3:428,108:-24.6378,0,-83.3711,-24.8562,-78.1735,-110.948 0/1:20:15,5,0:15:540:5,0:180,0:-10.0918,0,-42.6642,-14.6073,-44.1694,-58.4245 0/2:52:34,3,15:34:1216:3,15:100,516:-31.6766,-34.0177,-131.351,0,-90.3609,-93.7401 0/2:386:257,56,73:257:9106:56,73:1960,2508:-126.244,-50.953,-772.136,0,-585.391,-716.071 0/1:305:228,65,12:228:7902:65,12:2212,411:-105.31,0,-619.062,-140.589,-605.275,-775.614 0/1:780:542,230,7:542:19087:230,7:7999,252:-464.222,0,-1477.37,-606.824,-1526.05,-2151.34 0/1:380:267,112,1:267:9470:112,1:3897,36:-223.096,0,-734.608,-300.534,-765.386,-1068.58 0/1:372:213,152,7:213:7466:152,7:5331,252:-349.271,0,-556.89,-392.902,-582.16,-993.459 0/1:634:471,85,78:471:16474:85,78:2989,2673:-92.6269,0,-1302.74,-18.2686,-1112.19,-1323.12 0/1:273:203,46,24:203:7167:46,24:1626,843:-66.2519,0,-564.684,-58.8331,-510.007,-630.147 0/1:354:221,120,13:221:7795:120,13:4161,441:-260.32,0,-592.732,-291.099,-593.108,-916.04 0/1:129:96,32,1:96:3352:32,1:1136,36:-60.4989,0,-260.793,-86.4603,-267.489,-356.6 chr09 23935342 . T A 2277.3 PASS AB=0.145297;ABP=8449.33;AC=14;AF=0.333333;AN=42;AO=1141;CIGAR=1X;DP=10126;DPB=10126;DPRA=1.94848;EPP=2480.66;EPPR=19505;GTI=8;LEN=1;MEANALT=1.21053;MQM=59.7932;MQMR=50.1119;NS=21;NUMALT=1;ODDS=3.29853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40391;QR=320583;RO=8981;RPL=1141;RPP=2480.66;RPPR=19505;RPR=0;RUN=1;SAF=1141;SAP=2480.66;SAR=0;SRF=8981;SRP=19505;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:755:655,99:655:23350:99:3485:-86.5273,0,-1833.78 0/1:503:449,53:449:16014:53:1863:-16.47,0,-1271.97 0/0:519:514,5:514:18371:5:170:0,-141.19,-1613.23 0/1:513:423,90:423:15070:90:3175:-131.44,0,-1182.88 0/1:1406:1247,159:1247:44563:159:5634:-83.6664,0,-3527.67 0/0:573:566,7:566:20167:7:248:0,-149.826,-1771.93 0/1:624:503,121:503:17946:121:4295:-198.85,0,-1409.31 0/1:402:315,87:315:11254:87:3072:-155.69,0,-878.08 0/1:1058:933,124:933:33306:124:4411:-78.6367,0,-2615.07 0/0:45:41,4:41:1464:4:144:0,-0.232732,-117.088 0/1:19:17,2:17:608:2:72:-1.11715,0,-48.6693 0/1:52:39,13:39:1404:13:468:-26.8061,0,-109.726 0/0:387:387,0:387:13840:0:0:0,-116.499,-1233.56 0/1:313:230,83:230:8205:83:2932:-169.824,0,-632.154 0/1:784:667,117:667:23853:117:4164:-138.934,0,-1875.24 0/1:386:316,70:316:11309:70:2454:-104.915,0,-882.064 0/0:380:379,1:379:13526:1:36:0,-110.793,-1184.85 0/1:640:567,73:567:20217:73:2604:-41.9442,0,-1600.93 0/1:274:241,32:241:8601:32:1128:-19.295,0,-681.115 0/0:361:360,1:360:12797:1:36:0,-105.074,-1128.83 0/0:132:132,0:132:4718:0:0:0,-39.736,-419.141 chr09 23935346 . G A 34148.3 PASS AB=0.29909;ABP=3508.01;AC=21;AF=0.5;AN=42;AO=2990;CIGAR=1X;DP=9997;DPB=9997;DPRA=0;EPP=6495.71;EPPR=15209.8;GTI=5;LEN=1;MEANALT=1.19048;MQM=41.3385;MQMR=55.43;NS=21;NUMALT=1;ODDS=22.9552;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=106863;QR=247751;RO=7003;RPL=2990;RPP=6495.71;RPPR=15209.8;RPR=0;RUN=1;SAF=2990;SAP=6495.71;SAR=0;SRF=7003;SRP=15209.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:746:438,307:438:15419:307:10991:-731.849,0,-1157.23 0/1:498:330,168:330:11737:168:6008:-379.112,0,-900.916 0/1:507:348,159:348:12301:159:5680:-339.644,0,-949.346 0/1:500:400,100:400:14120:100:3576:-159.231,0,-1114.92 0/1:1390:1002,388:1002:35457:388:13841:-788.388,0,-2753.53 0/1:561:388,173:388:13730:173:6216:-376.188,0,-1060.92 0/1:604:479,125:479:16955:125:4467:-209.217,0,-1339.75 0/1:410:279,131:279:9872:131:4680:-285.431,0,-764.828 0/1:1051:682,368:682:24094:368:13134:-822.685,0,-1832.58 0/1:45:31,14:31:1080:14:504:-30.7316,0,-83.7408 0/1:21:16,5:16:564:5:180:-9.79079,0,-44.5595 0/1:51:41,10:41:1455:10:360:-16.5786,0,-115.533 0/1:388:329,59:329:11627:59:2111:-65.4361,0,-926.214 0/1:306:235,71:235:8220:71:2512:-127.033,0,-645.42 0/1:782:541,240:541:19204:240:8567:-508.267,0,-1487.39 0/1:382:266,116:266:9457:116:4156:-243.242,0,-732.886 0/1:374:220,153:220:7788:153:5468:-357.48,0,-582.017 0/1:629:461,168:461:16314:168:6016:-333.935,0,-1271.72 0/1:275:201,74:201:7155:74:2660:-149.153,0,-558.201 0/1:349:219,130:219:7759:130:4633:-298.509,0,-588.284 0/1:128:97,31:97:3443:31:1103:-57.8705,0,-269.378 chr09 23935378 . C A 55774.5 PASS AB=0.396745;ABP=549.201;AC=23;AF=0.547619;AN=42;AO=4308;CIGAR=1X;DP=8179;DPB=8179;DPRA=0;EPP=9357.71;EPPR=8402.27;GTI=11;LEN=1;MEANALT=1.14286;MQM=29.6209;MQMR=20.3397;NS=21;NUMALT=1;ODDS=14.0819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=153304;QR=138110;RO=3868;RPL=0;RPP=9357.71;RPPR=8402.27;RPR=4308;RUN=1;SAF=0;SAP=9357.71;SAR=4308;SRF=0;SRP=8402.27;SRR=3868;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:286:214,72:214:7629:72:2536:-93.1739,0,-335.718 0/1:235:174,61:174:6231:61:2144:-81.3441,0,-279.62 0/1:257:205,52:205:7326:52:1864:-57.2547,0,-261.788 0/1:258:162,96:162:5761:96:3409:-162.817,0,-110.004 0/1:587:329,258:329:11774:258:9193:-473.494,0,-224.4 0/1:413:293,120:293:10480:120:4287:-181.997,0,-443.951 0/1:454:348,106:348:12414:106:3768:-134.814,0,-511.813 0/0:145:143,1:143:5088:1:36:0,-40.2157,-419.296 0/1:578:257,321:257:9213:321:11479:-616.601,0,-131.879 1/1:410:22,388:22:792:388:13808:-934.545,-81.2296,0 1/1:819:37,782:37:1324:782:27883:-1949.46,-206.443,0 1/1:907:110,797:110:3918:797:28412:-1897.1,-153.689,0 0/1:318:137,181:137:4907:181:6448:-360.263,0,-66.5225 0/1:343:197,146:197:7027:146:5179:-260.729,0,-127.815 0/1:333:121,212:121:4333:212:7552:-428.781,0,-37.6813 0/1:332:125,207:125:4484:207:7333:-408.315,0,-46.6246 0/1:275:224,51:224:7942:51:1817:-43.3523,0,-322.574 0/1:660:370,289:370:13147:289:10209:-522.838,0,-760.571 0/1:200:130,69:130:4660:69:2432:-114.767,0,-131.058 0/1:248:182,66:182:6531:66:2347:-92.2576,0,-139.373 0/1:121:88,33:88:3129:33:1168:-48.1398,0,-63.3697 chr10 11547 . TAT AAT,AAC 52683.4 PASS AB=0.753483,0.244582;ABP=1445.14,1467.24;AC=23,19;AF=0.547619,0.452381;AN=42;AO=2044,633;CIGAR=1X2M,1X1M1X;DP=2682;DPB=2682;DPRA=0,1.86571;EPP=4441.5,1377.55;EPPR=7.35324;GTI=6;LEN=1,3;MEANALT=2.09524,2.15;MQM=54.454,44.1153;MQMR=60;NS=21;NUMALT=2;ODDS=5.48949;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=73040,22099;QR=72;RO=2;RPL=0,0;RPP=4441.5,1377.55;RPPR=7.35324;RPR=2044,633;RUN=1,1;SAF=2044,633;SAP=4441.5,1377.55;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:73:0,47,26:0:0:47,26:1688,904:-209.897,-72.5889,-58.4405,-137.656,0,-129.829 1/2:135:0,96,39:0:0:96,39:3427,1361:-386.829,-108.444,-79.5454,-278.73,0,-266.99 1/2:116:0,102,14:0:0:102,14:3607,498:-333.431,-40.2924,-9.58738,-293.49,0,-289.275 1/2:139:0,115,24:0:0:115,24:4128,847:-404.238,-68.0577,-33.4393,-336.529,0,-329.304 1/2:266:0,231,34:0:0:231,34:8265,1183:-767.486,-94.448,-24.9101,-673.032,0,-662.797 1/2:93:0,74,19:0:0:74,19:2645,666:-268.734,-53.5185,-31.2423,-215.562,0,-209.842 1/2:248:2,212,34:2:72:212,34:7604,1183:-706.218,-88.0044,-30.0619,-612.924,0,-608.564 1/1:70:0,70,0:0:0:70,0:2505,0:-225.53,-21.0721,0,-225.53,-21.0721,-225.53 1/2:223:0,171,52:0:0:171,52:6134,1839:-646.547,-147.387,-95.9112,-499.51,0,-483.856 1/2:41:0,36,5:0:0:36,5:1266,172:-117.113,-14.1603,-3.32321,-103.295,0,-101.79 1/2:7:0,4,3:0:0:4,3:144,103:-20.3426,-8.60168,-7.39756,-12.0889,0,-11.1858 1/1:28:0,27,1:0:0:27,1:968,36:-87.0281,-8.12781,0,-84.1265,-4.87022,-83.8255 1/2:115:0,98,17:0:0:98,17:3516,577:-332.726,-46.3049,-16.804,-286.758,0,-281.641 1/2:113:0,64,49:0:0:64,49:2277,1698:-320.771,-135.406,-116.14,-185.711,0,-170.96 1/2:240:0,177,62:0:0:177,62:6309,2182:-687.898,-174.463,-121.181,-513.479,0,-494.816 1/2:102:0,74,28:0:0:74,28:2632,973:-291.878,-77.6382,-55.362,-214.584,0,-206.155 1/2:142:0,111,31:0:0:111,31:3934,1071:-405.017,-85.8327,-52.4184,-319.527,0,-310.195 1/2:262:0,168,93:0:0:168,93:6004,3274:-749.479,-260.642,-210.069,-488.834,0,-460.839 1/2:94:0,52,42:0:0:52,42:1865,1451:-267.796,-116.168,-100.515,-151.975,0,-139.332 1/2:79:0,63,16:0:0:63,16:2254,571:-229.777,-46.362,-27.3972,-183.769,0,-178.953 1/2:96:0,52,44:0:0:52,44:1868,1510:-272.16,-120.54,-104.887,-151.966,0,-138.721 chr10 11575 . C G 38067.9 PASS AB=0.755229;ABP=1463.94;AC=22;AF=0.52381;AN=42;AO=2020;CIGAR=1X;DP=2652;DPB=2652;DPRA=0;EPP=4372.03;EPPR=1300.26;GTI=7;LEN=1;MEANALT=1.14286;MQM=54.4302;MQMR=44.283;NS=21;NUMALT=1;ODDS=1.67902;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72016;QR=22403;RO=629;RPL=2018;RPP=4372.03;RPPR=1300.26;RPR=2;RUN=1;SAF=2020;SAP=4389.38;SAR=0;SRF=629;SRP=1368.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:25,46:25:877:46:1621:-124.574,0,-56.6081 0/1:134:40,94:40:1407:94:3345:-259.568,0,-84.2092 0/1:115:15,100:15:540:100:3572:-286.272,0,-13.6095 0/1:137:24,113:24:847:113:4022:-320.43,0,-34.0243 0/1:261:34,226:34:1208:226:8075:-647.255,0,-28.5831 0/1:94:19,75:19:684:75:2687:-213.286,0,-32.3982 0/1:245:36,209:36:1284:209:7431:-593.81,0,-39.5329 1/1:70:0,70:0:0:70:2520:-226.89,-21.0721,0 0/1:222:52,170:52:1864:170:6054:-476.883,0,-98.2995 0/1:41:5,36:5:180:36:1270:-102.155,0,-4.02741 0/1:7:3,4:3:108:4:144:-11.1858,0,-7.81529 0/1:29:3,26:3:108:26:923:-74.6113,0,-1.30006 0/1:113:17,96:17:612:96:3414:-273.093,0,-19.7419 0/1:109:46,63:46:1644:63:2249:-169.467,0,-112.355 0/1:236:62,173:62:2215:173:6203:-486.262,0,-125.091 0/1:101:27,74:27:944:74:2656:-208.576,0,-52.6802 0/1:144:31,113:31:1095:113:4016:-317.088,0,-53.3054 0/1:258:92,166:92:3291:166:5914:-454.218,0,-212.823 0/1:93:41,51:41:1468:51:1810:-134.552,0,-102.273 0/1:81:16,65:16:568:65:2314:-183.718,0,-26.5358 0/1:91:41,50:41:1459:50:1776:-131.96,0,-101.551 chr10 11583 . C T 25408.6 PASS AB=0.566045;ABP=100.533;AC=20;AF=0.47619;AN=42;AO=1457;CIGAR=1X;DP=2643;DPB=2643;DPRA=1.86522;EPP=3166.85;EPPR=2576.21;GTI=3;LEN=1;MEANALT=1.05;MQM=53.547;MQMR=50.1848;NS=21;NUMALT=1;ODDS=0.551871;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51896;QR=41757;RO=1185;RPL=1457;RPP=3166.85;RPPR=2576.21;RPR=0;RUN=1;SAF=1457;SAP=3166.85;SAR=0;SRF=1185;SRP=2576.21;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:70:25,45:25:884:45:1599:-122.929,0,-57.5895 0/1:132:40,92:40:1428:92:3291:-255.175,0,-86.6286 0/1:115:14,101:14:492:101:3587:-287.624,0,-9.42839 0/1:137:25,112:25:896:112:4001:-318.511,0,-38.3452 0/1:262:112,149:112:3964:149:5315:-398.818,0,-276.064 0/1:91:19,72:19:680:72:2571:-203.807,0,-32.9807 0/1:238:33,205:33:1145:205:7306:-584.61,0,-29.7478 0/0:69:69,0:69:2442:0:0:0,-20.7711,-219.875 0/1:219:121,98:121:4315:98:3511:-249.77,0,-319.068 0/1:43:20,23:20:693:23:816:-60.717,0,-49.5474 0/1:7:3,4:3:104:4:144:-11.1858,0,-7.48471 0/1:29:18,11:18:648:11:396:-27.2158,0,-49.862 0/1:113:57,56:57:2011:56:2012:-147.036,0,-145.735 0/1:112:74,38:74:2577:38:1345:-87.2851,0,-195.599 0/1:235:127,108:127:4507:108:3852:-275.235,0,-331.807 0/1:102:58,44:58:2058:44:1552:-109.078,0,-152.78 0/1:140:83,57:83:2934:57:2036:-140.84,0,-218.938 0/1:259:170,89:170:5913:89:3152:-205.654,0,-449.505 0/1:94:56,38:56:1962:38:1326:-91.1435,0,-145.996 0/1:81:18,63:18:636:63:2220:-175.249,0,-32.6718 0/1:95:43,52:43:1468:52:1864:-138.652,0,-101.455 chr10 14188 . G A 21210.2 PASS AB=0.330367;ABP=705.093;AC=25;AF=0.595238;AN=42;AO=1344;CIGAR=1X;DP=3588;DPB=3588;DPRA=0.451117;EPP=2912.79;EPPR=4856.27;GTI=3;LEN=1;MEANALT=1.05;MQM=59.9896;MQMR=59.9866;NS=21;NUMALT=1;ODDS=6.21136;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48039;QR=79906;RO=2243;RPL=0;RPP=2921.47;RPPR=4864.94;RPR=1344;RUN=1;SAF=1343;SAP=2912.79;SAR=1;SRF=2242;SRP=4864.94;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:222:151,71:151:5367:71:2533:-161.391,0,-416.332 0/1:128:93,35:93:3324:35:1256:-74.8134,0,-260.847 1/1:111:2,109:2:72:109:3901:-344.445,-26.5776,0 0/1:223:154,69:154:5453:69:2461:-154.613,0,-423.766 0/1:373:255,117:255:9049:117:4189:-264.847,0,-701.888 1/1:82:0,82:0:0:82:2922:-263.212,-24.6845,0 0/1:430:263,167:263:9353:167:5957:-406.795,0,-712.291 0/0:358:358,0:358:12799:0:0:0,-107.769,-1151.72 0/1:309:214,95:214:7650:95:3369:-210.406,0,-595.515 0/1:25:18,7:18:618:7:252:-15.5032,0,-48.4125 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:42:20,22:20:720:22:788:-58.6015,0,-52.4855 0/1:84:45,39:45:1616:39:1377:-98.9402,0,-120.443 0/1:195:141,54:141:5018:54:1936:-115.816,0,-393.066 0/1:366:275,91:275:9770:91:3268:-184.163,0,-769.07 0/1:143:102,41:102:3653:41:1464:-89.0088,0,-285.925 1/1:94:2,92:2:72:92:3300:-290.377,-21.4601,0 0/1:146:97,49:97:3480:49:1745:-113.382,0,-269.46 0/1:112:50,62:50:1784:62:2232:-167.428,0,-127.127 1/1:80:1,79:1:36:79:2825:-250.889,-20.4841,0 1/1:54:0,54:0:0:54:1940:-174.876,-16.2556,0 chr10 14232 . CAGAAGAAGAAC CAGAAGAAC 7798.46 PASS AB=0.275849;ABP=1159.5;AC=14;AF=0.333333;AN=42;AO=735;CIGAR=1M3D8M;DP=3227;DPB=3086.33;DPRA=2.53585;EPP=1599.04;EPPR=5347.02;GTI=1;LEN=3;MEANALT=2.23529;MQM=59.9429;MQMR=60;NS=21;NUMALT=1;ODDS=8.20722;PAIRED=0;PAIREDR=0;PAO=230;PQA=8183.5;PQR=8291.5;PRO=233;QA=25704;QR=85818;RO=2469;RPL=0;RPP=1599.04;RPPR=2157.09;RPR=735;RUN=1;SAF=0;SAP=1599.04;SAR=735;SRF=450;SRP=2168.12;SRR=2019;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:205:139,65:139:4835:65:2265:-140.032,0,-371.221 0/1:153:130,23:130:4523:23:812:-26.4344,0,-360.36 0/0:139:137,2:137:4803:2:68:0,-35.4156,-425.952 0/1:145:111,33:111:3856:33:1134:-56.1116,0,-300.945 0/1:379:278,98:278:9641:98:3467:-198.007,0,-753.421 0/0:85:84,0:84:2956:0:0:0,-25.2865,-265.92 0/1:153:85,65:85:2943:65:2254:-156.916,0,-218.937 0/1:218:120,98:120:4124:98:3406:-241.016,0,-305.616 0/1:358:273,80:273:9469:80:2831:-147.774,0,-744.931 0/0:12:11,1:11:377:1:36:0,-0.0140849,-30.6068 0/1:15:6,9:6:203:9:309:-23.5718,0,-14.0359 0/1:59:38,21:38:1321:21:723:-47.6277,0,-101.429 0/0:152:150,1:150:5248:1:36:0,-42.2171,-468.877 0/1:197:153,42:153:5276:42:1488:-73.44,0,-414.169 0/1:372:275,96:275:9558:96:3360:-185.811,0,-743.379 0/1:109:87,21:87:3048:21:752:-33.44,0,-239.929 0/0:77:77,0:77:2693:0:0:0,-23.1793,-242.5 0/1:152:102,48:102:3550:48:1648:-103.062,0,-274.175 0/1:135:102,32:102:3551:32:1115:-59.3171,0,-278.457 0/0:70:70,0:70:2430:0:0:0,-21.0721,-218.959 0/0:42:41,0:41:1413:0:0:0,-12.3422,-127.136 chr10 14244 . C A 10987.2 PASS AB=0.328042;ABP=634.059;AC=15;AF=0.357143;AN=42;AO=812;CIGAR=1X;DP=2956;DPB=2956;DPRA=2.4539;EPP=1766.25;EPPR=4636.95;GTI=1;LEN=1;MEANALT=1.11111;MQM=59.9187;MQMR=60;NS=21;NUMALT=1;ODDS=7.15846;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29042;QR=76689;RO=2142;RPL=0;RPP=1766.25;RPPR=3563.21;RPR=812;RUN=1;SAF=0;SAP=1766.25;SAR=812;SRF=132;SRP=3578.42;SRR=2010;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:104,70:104:3736:70:2516:-174.312,0,-284.06 0/1:154:130,24:130:4645:24:860:-31.2569,0,-371.853 0/0:95:92,3:92:3312:3:108:0,-18.5227,-288.222 0/1:129:88,41:88:3138:41:1465:-93.3128,0,-243.812 0/1:328:223,105:223:7983:105:3753:-239.231,0,-619.754 0/0:85:83,2:83:2968:2:68:0,-19.1298,-260.896 0/1:160:85,74:85:3048:74:2648:-190.275,0,-226.326 0/1:220:116,104:116:4140:104:3704:-267.317,0,-306.556 0/1:365:274,91:274:9822:91:3268:-184.464,0,-774.045 0/1:11:10,1:10:360:1:36:-0.286945,0,-29.433 0/1:15:6,9:6:216:9:324:-24.9904,0,-15.2751 0/1:60:38,22:38:1337:22:783:-52.7311,0,-102.566 0/0:131:130,1:130:4659:1:36:0,-35.8367,-415.872 0/1:165:116,48:116:4172:48:1728:-106.223,0,-326.08 0/1:303:193,110:193:6891:110:3913:-261.149,0,-529.045 0/1:110:87,23:87:3120:23:828:-41.7308,0,-247.913 0/0:78:78,0:78:2804:0:0:0,-23.4803,-252.599 0/1:152:100,52:100:3583:52:1864:-122.283,0,-276.92 0/1:111:79,32:79:2832:32:1140:-69.4949,0,-221.704 0/0:68:68,0:68:2435:0:0:0,-20.47,-219.405 0/0:42:42,0:42:1488:0:0:0,-12.6433,-134.215 chr10 16994 . TC CA,TA 57259.7 PASS AB=0.336947,0.661247;ABP=514.281,503.014;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1183,1636;CIGAR=2X,1M1X;DP=2823;DPB=2823;DPRA=0,2.55561;EPP=2571.86,3555.54;EPPR=0;GTI=2;LEN=2,1;MEANALT=1.90476,2.11765;MQM=59.7642,59.2292;MQMR=0;NS=21;NUMALT=2;ODDS=3.37602;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41889,58616;QR=0;RO=0;RPL=1183,1636;RPP=2571.86,3555.54;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2571.86,3555.54;SAR=1183,1636;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:253:0,81,171:0:0:81,171:2887,6144:-734.98,-499.654,-475.271,-235.323,0,-183.847 1/2:207:0,64,143:0:0:64,143:2277,5121:-602.749,-417.197,-397.931,-185.908,0,-142.86 1/1:97:0,96,1:0:0:96,1:3376,36:-303.683,-28.8989,0,-300.746,-25.6016,-300.445 1/2:184:0,59,125:0:0:59,125:2069,4484:-534.059,-365.7,-347.939,-168.712,0,-131.084 1/2:157:0,61,96:0:0:61,96:2160,3436:-454.836,-278.895,-260.532,-176.296,0,-147.397 1/1:103:0,102,1:0:0:102,1:3650,36:-328.308,-30.7051,0,-325.371,-27.4078,-325.07 1/2:211:0,76,135:0:0:76,135:2665,4836:-611.203,-394.345,-371.467,-217.212,0,-176.573 2/2:171:0,1,170:0:0:1,170:36,6073:-545.621,-542.684,-542.383,-51.1751,-47.8779,0 1/2:179:0,42,137:0:0:42,137:1480,4908:-521.016,-400.521,-387.877,-120.849,0,-79.6082 1/2:26:0,6,20:0:0:6,20:204,708:-73.7786,-57.2339,-55.4277,-16.8868,0,-10.8662 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/2:66:0,41,22:0:0:41,22:1476,792:-185.057,-64.6232,-52.281,-120.434,0,-113.811 1/2:116:0,53,63:0:0:53,63:1862,2248:-335.144,-183.599,-167.644,-151.899,0,-132.934 1/2:75:0,22,53:0:0:22,53:768,1892:-216.878,-154.575,-147.953,-62.6535,0,-46.6989 1/2:293:0,75,218:0:0:75,218:2696,7826:-858.186,-638.238,-615.661,-220.307,0,-154.682 1/2:168:0,58,110:0:0:58,110:2036,3944:-487.59,-321.895,-304.435,-166.049,0,-132.936 1/1:76:0,76,0:0:0:76,0:2657,0:-239.374,-22.8783,0,-239.374,-22.8783,-239.374 1/2:164:0,42,122:0:0:42,122:1499,4380:-479.669,-357.546,-344.903,-122.48,0,-85.7542 1/2:115:0,66,49:0:0:66,49:2324,1752:-332.343,-143.159,-123.291,-189.539,0,-174.788 1/1:92:0,92,0:0:0:92,0:3269,0:-294.408,-27.6948,0,-294.408,-27.6948,-294.408 1/1:55:0,55,0:0:0:55,0:1958,0:-175.245,-16.5567,0,-175.245,-16.5567,-175.245 chr10 38430 . T C 12834.3 PASS AB=0.444782;ABP=29.1494;AC=27;AF=0.642857;AN=42;AO=688;CIGAR=1X;DP=1295;DPB=1295;DPRA=1.08596;EPP=1436.8;EPPR=1295.17;GTI=2;LEN=1;MEANALT=1;MQM=59.9273;MQMR=59.9654;NS=21;NUMALT=1;ODDS=0.312911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24510;QR=21633;RO=607;RPL=681;RPP=1436.8;RPPR=1295.17;RPR=7;RUN=1;SAF=0;SAP=1496.98;SAR=688;SRF=0;SRP=1321.09;SRR=607;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:113,59:113:4036:59:2099:-137.402,0,-311.607 0/1:31:20,11:20:716:11:375:-24.7459,0,-55.4358 1/1:39:1,38:1:36:38:1364:-119.462,-8.1419,0 0/1:48:34,14:34:1200:14:488:-29.8,0,-93.8538 0/1:151:77,74:77:2741:74:2639:-192.299,0,-201.476 1/1:56:0,56:0:0:56:1995:-179.823,-16.8577,0 0/1:87:53,34:53:1900:34:1211:-83.1026,0,-145.088 0/0:57:57,0:57:2028:0:0:0,-17.1587,-182.793 0/1:127:65,62:65:2332:62:2203:-160.304,0,-171.908 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:20:0,20:0:0:20:711:-64.3156,-6.0206,0 0/1:69:26,43:26:924:43:1544:-118.482,0,-62.7066 0/1:32:21,11:21:752:11:396:-26.3494,0,-58.3733 0/1:147:81,66:81:2872:66:2355:-167.957,0,-214.468 0/1:38:17,21:17:608:21:752:-56.5671,0,-43.6129 1/1:40:0,40:0:0:40:1423:-128.28,-12.0412,0 0/1:49:28,21:28:992:21:747:-52.8038,0,-74.8439 0/1:32:12,20:12:424:20:720:-55.4935,0,-28.8635 1/1:70:1,69:1:36:69:2456:-217.691,-17.4738,0 1/1:22:0,22:0:0:22:784:-70.8839,-6.62266,0 chr10 70136 . CTTCA CTTCG,GTTCG 49208.3 PASS AB=0.444642,0.549438;ABP=47.9684,38.866;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1340,1053;CIGAR=4M1X,1X3M1X;DP=2406;DPB=2406.2;DPRA=0.928049,3.05609;EPP=2904.1,2289.57;EPPR=11.6962;GTI=1;LEN=1,5;MEANALT=2.15,2.41176;MQM=59.8037,50.1434;MQMR=60;NS=21;NUMALT=2;ODDS=4.67232;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=47796,37037;QR=144;RO=4;RPL=1335,1052;RPP=2869.52,2280.89;RPPR=11.6962;RPR=5,1;RUN=1,1;SAF=1334,1052;SAP=2860.9,2280.89;SAR=6,1;SRF=4;SRP=11.6962;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:178:0,64,113:0:0:64,113:2270,3977:-505.841,-320.898,-301.632,-184.996,0,-150.98 1/2:100:0,50,50:0:0:50,50:1769,1762:-285.16,-141.346,-126.295,-144.163,0,-129.112 1/1:110:0,110,0:0:0:110,0:3918,0:-352.81,-33.1133,0,-352.81,-33.1133,-352.81 1/2:177:0,104,71:0:0:104,71:3722,2494:-504.819,-201.311,-170.004,-303.554,0,-282.181 1/2:232:0,91,140:0:0:91,140:3251,4921:-662.308,-397.552,-370.158,-264.771,0,-222.627 1/1:196:0,195,1:0:0:195,1:6950,36:-625.042,-58.7009,0,-622.127,-55.4284,-621.826 1/2:236:4,106,126:4:144:106,126:3773,4448:-649.445,-343.159,-323,-295.732,0,-269.552 2/2:123:0,0,122:0:0:0,122:0,4227:-375.465,-375.465,-375.465,-36.7257,-36.7257,0 1/2:167:0,79,88:0:0:79,88:2832,3060:-476.993,-246.01,-222.228,-231.335,0,-204.844 1/2:9:0,5,4:0:0:5,4:176,143:-26.2896,-11.9638,-10.4587,-14.6799,0,-13.4757 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/1:27:0,27,0:0:0:27,0:968,0:-87.4374,-8.12781,0,-87.4374,-8.12781,-87.4374 1/2:120:0,57,63:0:0:57,63:2048,2241:-349.506,-182.437,-165.278,-167.426,0,-148.462 1/2:153:0,71,81:0:0:71,81:2528,2852:-434.682,-228.643,-207.27,-206.032,0,-181.648 1/2:153:0,70,82:0:0:70,82:2503,2905:-438.334,-234.238,-213.166,-204.117,0,-179.433 1/2:93:0,17,76:0:0:17,76:603,2692:-268.261,-219.134,-214.016,-49.4821,0,-26.6039 1/1:93:0,92,1:0:0:92,1:3300,36:-296.851,-27.6948,0,-293.917,-24.4012,-293.616 1/2:30:0,19,11:0:0:19,11:680,393:-87.7023,-32.2541,-26.5345,-55.8047,0,-52.4934 1/2:41:0,18,23:0:0:18,23:643,814:-118.87,-66.4506,-61.0321,-52.7744,0,-45.8507 1/1:133:0,130,1:0:0:130,1:4630,36:-416.522,-39.1339,0,-413.598,-36.1673,-413.297 1/1:28:0,28,0:0:0:28,0:984,0:-88.8734,-8.42884,0,-88.8734,-8.42884,-88.8734 chr10 170656 . A G 11541 PASS AB=0.421864;ABP=75.2902;AC=15;AF=0.357143;AN=42;AO=690;CIGAR=1X;DP=1913;DPB=1913;DPRA=1.99875;EPP=1501.33;EPPR=2656.55;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9435;MQMR=59.9984;NS=21;NUMALT=1;ODDS=12.7823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24576;QR=43797;RO=1222;RPL=690;RPP=1501.33;RPPR=2656.55;RPR=0;RUN=1;SAF=690;SAP=1501.33;SAR=0;SRF=1222;SRP=2656.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:79,71:79:2836:71:2518:-181.713,0,-210.324 0/1:46:28,18:28:995:18:644:-44.4256,0,-76.0166 0/0:117:116,1:116:4160:1:36:0,-31.6222,-370.984 0/1:93:54,39:54:1932:39:1400:-98.3034,0,-146.161 0/1:158:105,53:105:3768:53:1885:-122.364,0,-291.756 0/0:81:81,0:81:2912:0:0:0,-24.3834,-262.315 0/1:151:80,70:80:2864:70:2497:-179.462,0,-212.483 1/1:114:0,114:0:0:114:4075:-366.936,-34.3174,0 0/1:177:95,82:95:3420:82:2920:-209.75,0,-254.73 0/1:24:18,6:18:644:6:216:-12.5658,0,-51.0659 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/1:50:27,23:27:968:23:820:-59.071,0,-72.3859 0/1:93:56,37:56:2008:37:1307:-89.9349,0,-152.998 0/1:149:82,67:82:2924:67:2396:-171.044,0,-218.542 0/1:86:54,32:54:1932:32:1144:-77.3809,0,-148.268 0/0:99:99,0:99:3534:0:0:0,-29.802,-318.269 0/1:150:84,66:84:3016:66:2322:-164.084,0,-226.516 0/1:36:25,11:25:900:11:396:-25.1457,0,-70.4839 0/0:59:59,0:59:2108:0:0:0,-17.7608,-189.989 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 chr10 170717 . TAACG TACG 14554 PASS AB=0.489265;ABP=4.54884;AC=15;AF=0.357143;AN=42;AO=861;CIGAR=1M1D3M;DP=2167;DPB=1994.2;DPRA=1.94479;EPP=1872.65;EPPR=2828.1;GTI=0;LEN=1;MEANALT=1.3125;MQM=59.6643;MQMR=59.9224;NS=21;NUMALT=1;ODDS=1.32655;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30289;QR=45487;RO=1301;RPL=0;RPP=1872.65;RPPR=2828.1;RPR=861;RUN=1;SAF=0;SAP=1872.65;SAR=861;SRF=0;SRP=2828.1;SRR=1301;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:59,50:59:2043:50:1781:-127.759,0,-151.327 0/1:93:41,52:41:1386:52:1842:-138.063,0,-97.0373 0/0:116:115,1:115:4044:1:36:0,-31.3212,-360.556 0/1:143:70,72:70:2454:72:2498:-181.951,0,-178.01 0/1:201:100,100:100:3534:100:3509:-255.508,0,-257.784 0/0:108:108,0:108:3789:0:0:0,-32.5112,-341.176 0/1:153:76,77:76:2660:77:2724:-199.33,0,-193.59 1/1:107:0,107:0:0:107:3750:-337.684,-32.2102,0 0/1:216:110,106:110:3846:106:3751:-272.747,0,-281.317 0/1:17:7,10:7:247:10:347:-26.4368,0,-17.4557 0/0:6:6,0:6:213:0:0:0,-1.80618,-19.5164 0/0:42:42,0:42:1492:0:0:0,-12.6433,-134.574 0/1:63:33,30:33:1139:30:1068:-77.4548,0,-83.8423 0/1:145:69,75:69:2446:75:2640:-194.226,0,-176.794 0/1:175:95,79:95:3264:79:2790:-198.552,0,-241.242 0/1:75:39,36:39:1359:36:1272:-92.1869,0,-100.028 0/0:107:106,1:106:3704:1:36:0,-28.621,-329.904 0/1:83:36,46:36:1256:46:1598:-119.05,0,-88.298 0/1:64:45,19:45:1587:19:647:-39.2739,0,-123.855 0/0:77:77,0:77:2687:0:0:0,-23.1793,-242.078 0/0:67:67,0:67:2337:0:0:0,-20.169,-210.588 chr10 170750 . GTT ATC,GTC 45421.2 PASS AB=0.491688,0.506394;ABP=3.94886,3.56566;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1291,908;CIGAR=1X1M1X,2M1X;DP=2202;DPB=2202;DPRA=0.907391,1.75882;EPP=2806.38,1974.71;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.85,2.13333;MQM=59.8854,59.6322;MQMR=0;NS=21;NUMALT=2;ODDS=2.14871;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45642,32463;QR=0;RO=0;RPL=1291,908;RPP=2806.38,1974.71;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2806.38,1974.71;SAR=1291,908;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:110:0,58,52:0:0:58,52:2049,1857:-318.621,-151.754,-134.294,-167.222,0,-151.568 1/2:93:0,39,54:0:0:39,54:1349,1944:-268.593,-158.98,-147.24,-109.964,0,-93.7083 1/1:115:0,114,1:0:0:114,1:4053,36:-364.599,-34.3174,0,-361.662,-31.0202,-361.361 1/2:150:0,70,80:0:0:70,80:2492,2857:-436.369,-233.266,-212.194,-203.46,0,-179.377 1/2:210:0,100,109:0:0:100,109:3523,3870:-602.196,-315.378,-285.275,-286.901,0,-254.088 1/1:108:0,108,0:0:0:108,0:3816,0:-343.511,-32.5112,0,-343.511,-32.5112,-343.511 1/2:154:0,76,78:0:0:76,78:2682,2785:-445.601,-227.37,-204.491,-218.586,0,-195.106 2/2:115:0,0,115:0:0:0,115:0,4097:-368.89,-368.89,-368.89,-34.6185,-34.6185,0 1/2:219:0,107,112:0:0:107,112:3777,4024:-636.16,-328.595,-296.385,-307.921,0,-274.206 1/2:17:0,7,10:0:0:7,10:250,360:-50.1061,-29.7247,-27.6175,-20.7395,0,-17.7292 1/1:6:0,6,0:0:0:6,0:213,0:-19.5163,-1.80618,0,-19.5163,-1.80618,-19.5163 1/1:43:0,43,0:0:0:43,0:1529,0:-137.903,-12.9443,0,-137.903,-12.9443,-137.903 1/2:66:0,33,33:0:0:33,33:1165,1188:-192.133,-97.2822,-87.3482,-95.2067,0,-85.2727 1/2:145:0,66,79:0:0:66,79:2357,2821:-422.08,-229.944,-210.076,-192.492,0,-168.711 1/2:176:0,95,80:0:0:95,80:3349,2857:-505.575,-232.905,-204.308,-272.665,0,-248.582 1/2:76:0,39,37:0:0:39,37:1384,1328:-221.422,-108.662,-96.9214,-113.117,0,-101.979 1/1:106:0,106,0:0:0:106,0:3761,0:-338.61,-31.9092,0,-338.61,-31.9092,-338.61 1/2:85:0,35,49:0:0:35,49:1244,1755:-244.631,-143.258,-132.722,-101.513,0,-86.763 1/2:63:0,44,19:0:0:44,19:1545,684:-181.902,-56.1646,-42.9192,-126.095,0,-120.375 1/1:78:0,78,0:0:0:78,0:2757,0:-248.371,-23.4803,0,-248.371,-23.4803,-248.371 1/1:67:0,67,0:0:0:67,0:2347,0:-211.488,-20.169,0,-211.488,-20.169,-211.488 chr10 171669 . C G 12678.5 PASS AB=0.554483;ABP=21.7029;AC=27;AF=0.642857;AN=42;AO=651;CIGAR=1X;DP=1025;DPB=1025;DPRA=0.975;EPP=1416.64;EPPR=806.478;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9947;NS=21;NUMALT=1;ODDS=5.06532;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23292;QR=13374;RO=374;RPL=651;RPP=1416.64;RPPR=797.862;RPR=0;RUN=1;SAF=0;SAP=1416.64;SAR=651;SRF=1;SRP=806.478;SRR=373;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:28,38:28:1000:38:1360:-102.833,0,-70.4474 0/1:50:28,22:28:1004:22:784:-55.8318,0,-75.6244 1/1:28:1,27:1:36:27:972:-84.1996,-4.83057,0 0/1:23:8,15:8:269:15:532:-41.2894,0,-17.6124 0/1:24:14,10:14:504:10:360:-25.5196,0,-38.4734 1/1:66:0,66:0:0:66:2372:-213.738,-19.868,0 0/1:95:38,57:38:1364:57:2052:-156.353,0,-94.4629 0/0:50:50,0:50:1780:0:0:0,-15.0515,-160.483 0/1:79:39,40:39:1381:40:1428:-105.036,0,-100.805 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 0/1:53:30,23:30:1072:23:828:-58.8895,0,-80.8379 0/1:44:22,22:22:788:22:779:-57.1867,0,-57.9995 0/1:66:23,43:23:828:43:1540:-119.025,0,-54.9761 0/1:34:20,14:20:720:14:504:-35.4631,0,-54.8928 1/1:44:0,44:0:0:44:1572:-141.772,-13.2453,0 0/1:121:57,64:57:2052:64:2287:-169.666,0,-148.527 0/1:64:12,52:12:432:52:1855:-147.963,0,-19.9553 1/1:27:0,27:0:0:27:960:-86.7163,-8.12781,0 1/1:60:0,60:0:0:60:2139:-192.777,-18.0618,0 chr10 172655 . T G 26478.7 PASS AB=0.539747;ABP=26.8315;AC=27;AF=0.642857;AN=42;AO=1388;CIGAR=1X;DP=2261;DPB=2261;DPRA=1.54225;EPP=3017.01;EPPR=1892.19;GTI=0;LEN=1;MEANALT=1.1;MQM=59.2277;MQMR=59.9575;NS=21;NUMALT=1;ODDS=4.02911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49485;QR=31099;RO=870;RPL=0;RPP=3017.01;RPPR=1892.19;RPR=1388;RUN=1;SAF=1388;SAP=3017.01;SAR=0;SRF=870;SRP=1892.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:44,35:44:1576:35:1245:-88.4625,0,-118.35 0/1:115:41,74:41:1468:74:2648:-203.852,0,-97.7976 1/1:122:0,121:0:0:121:4317:-388.188,-36.4246,0 0/1:150:71,79:71:2525:79:2796:-206.675,0,-182.346 0/1:279:135,144:135:4829:144:5122:-377.085,0,-350.776 1/1:101:0,101:0:0:101:3575:-321.615,-30.404,0 0/1:192:106,86:106:3775:86:3057:-217.363,0,-282.117 0/0:71:70,0:70:2508:0:0:0,-21.0721,-225.612 0/1:178:90,87:90:3220:87:3105:-226.031,0,-236.38 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:22:0,22:0:0:22:792:-71.5832,-6.62266,0 0/1:174:33,141:33:1188:141:5032:-400.355,0,-54.8494 0/1:105:50,55:50:1775:55:1968:-145.748,0,-128.317 0/1:152:82,70:82:2940:70:2485:-178.019,0,-219.077 0/1:91:48,43:48:1720:43:1528:-110.413,0,-127.692 1/1:79:0,79:0:0:79:2813:-253.376,-23.7814,0 0/1:151:79,72:79:2832:72:2575:-186.413,0,-209.663 0/1:62:17,45:17:599:45:1616:-126.955,0,-35.5742 1/1:76:2,74:2:72:74:2664:-233.166,-16.0416,0 1/1:48:0,48:0:0:48:1715:-154.558,-14.4494,0 chr10 172693 . G A 26276.7 PASS AB=0.542363;ABP=29.1353;AC=27;AF=0.642857;AN=42;AO=1360;CIGAR=1X;DP=2200;DPB=2200;DPRA=1.52143;EPP=2878.56;EPPR=1822.7;GTI=0;LEN=1;MEANALT=1.1;MQM=59.186;MQMR=59.9726;NS=21;NUMALT=1;ODDS=5.10215;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48305;QR=29642;RO=838;RPL=1351;RPP=2878.56;RPPR=1822.7;RPR=9;RUN=1;SAF=1360;SAP=2956.21;SAR=0;SRF=838;SRP=1822.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:80:43,37:43:1548:37:1318:-94.459,0,-115.531 0/1:116:41,75:41:1452:75:2660:-204.61,0,-96.0537 1/1:121:0,121:0:0:121:4301:-387,-36.4246,0 0/1:144:67,77:67:2392:77:2702:-200.043,0,-172.189 0/1:274:132,142:132:4662:142:5060:-372.996,0,-337.263 1/1:99:1,98:1:36:98:3481:-309.584,-26.2037,0 0/1:184:102,82:102:3576:82:2931:-208.469,0,-266.659 0/0:70:70,0:70:2453:0:0:0,-21.0721,-221.022 0/1:168:83,85:83:2955:85:3008:-220.373,0,-215.611 0/1:8:1,6:1:36:6:212:-16.9587,0,-1.13124 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:22:0,22:0:0:22:764:-69.0739,-6.62266,0 0/1:161:32,129:32:1139:129:4619:-367.136,0,-54.3526 0/1:100:46,53:46:1620:53:1875:-138.823,0,-115.7 0/1:146:81,65:81:2862:65:2312:-164.263,0,-213.865 0/1:89:47,42:47:1684:42:1504:-108.857,0,-125.055 1/1:78:0,78:0:0:78:2728:-245.673,-23.4803,0 0/1:148:74,74:74:2583:74:2636:-192.396,0,-188.167 0/1:58:16,42:16:572:42:1484:-116.293,0,-34.3537 1/1:78:2,76:2:72:76:2732:-239.282,-16.6436,0 1/1:50:0,50:0:0:50:1762:-158.797,-15.0515,0 chr10 172699 . CCACC GCACT,CCACT 42731.5 PASS AB=0.562802,0.427536;ABP=59.7413,78.5398;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1394,780;CIGAR=1X3M1X,4M1X;DP=2191;DPB=2191.4;DPRA=1.53768,2.26151;EPP=2926.71,1696.76;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.5,2.8125;MQM=59.2575,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.64232;PAIRED=0,0;PAIREDR=0;PAO=2,0.5;PQA=68,0;PQR=0;PRO=0.5;QA=47375,27118;QR=0;RO=0;RPL=1382,780;RPP=2926.71,1696.76;RPPR=0;RPR=12,0;RUN=1,1;SAF=1394,780;SAP=3030.04,1696.76;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:79:0,35,42:0:0:35,42:1194,1469:-216.336,-119.542,-109.006,-96.8222,0,-84.1789 1/2:113:0,76,37:0:0:76,37:2563,1284:-312.364,-104.72,-81.8415,-207.988,0,-196.85 1/1:121:0,120,1:0:0:120,1:4124,36:-370.896,-36.1236,0,-367.958,-32.8264,-367.657 1/2:141:0,76,62:0:0:76,62:2565,2163:-383.803,-175.929,-153.05,-207.876,0,-189.212 1/2:269:0,140,126:0:0:140,126:4784,4366:-743.057,-354.837,-312.693,-388.213,0,-350.284 1/1:104:0,104,0:0:0:104,0:3505,0:-315.464,-31.3071,0,-315.464,-31.3071,-315.464 1/2:178:0,86,90:0:0:86,90:2941,3098:-490.276,-251.723,-225.834,-238.663,0,-211.57 2/2:69:0,0,69:0:0:0,69:0,2394:-215.717,-215.717,-215.717,-20.7711,-20.7711,0 1/2:167:0,86,78:0:0:86,78:2891,2734:-456.772,-222.576,-196.687,-234.291,0,-210.811 1/2:8:0,6,2:0:0:6,2:207,68:-22.676,-5.85565,-4.04947,-17.1615,0,-16.5595 1/1:6:0,6,0:0:0:6,0:202,0:-18.5105,-1.80618,0,-18.5105,-1.80618,-18.5105 1/1:23:0,23,0:0:0:23,0:791,0:-71.5012,-6.92369,0,-71.5012,-6.92369,-71.5012 1/2:174:0,142,32:0:0:142,32:4808,1126:-481.582,-92.0137,-49.2674,-389.918,0,-380.285 1/2:92:0,56,36:0:0:56,36:1872,1211:-249.981,-98.4489,-81.5912,-151.867,0,-141.03 1/2:142:0,68,73:0:0:68,73:2313,2567:-396.653,-209.093,-188.623,-187.693,0,-165.718 1/2:89:0,46,43:0:0:46,43:1579,1518:-252.166,-123.965,-110.117,-128.549,0,-115.605 1/1:85:0,84,0:0:0:84,0:2837,0:-255.306,-25.2865,0,-255.306,-25.2865,-255.306 1/2:143:0,72,71:0:0:72,71:2421,2474:-397.375,-201.54,-179.865,-196.177,0,-174.804 1/2:61:0,43,16:0:0:43,16:1426,542:-159.317,-44.024,-31.0797,-115.369,0,-110.553 1/1:79:0,77,2:0:0:77,2:2694,68:-242.363,-23.1793,0,-236.847,-17.3237,-236.245 1/1:48:0,48,0:0:0:48,0:1658,0:-149.44,-14.4494,0,-149.44,-14.4494,-149.44 chr10 244938 . G T 23217.8 PASS AB=0.558195;ABP=40.1626;AC=27;AF=0.642857;AN=42;AO=1156;CIGAR=1X;DP=1776;DPB=1776;DPRA=1.40574;EPP=2444.23;EPPR=1332.01;GTI=0;LEN=1;MEANALT=1;MQM=59.9991;MQMR=60;NS=21;NUMALT=1;ODDS=13.5488;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41438;QR=22092;RO=620;RPL=1148;RPP=2444.23;RPPR=1332.01;RPR=8;RUN=1;SAF=0;SAP=2513.23;SAR=1156;SRF=0;SRP=1349.32;SRR=620;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:23,65:23:824:65:2336:-184.009,0,-47.9927 0/1:64:30,34:30:1067:34:1224:-91.2011,0,-77.0753 1/1:108:0,108:0:0:108:3861:-347.684,-32.5112,0 0/1:106:44,62:44:1576:62:2223:-168.424,0,-110.222 0/1:187:86,101:86:3066:101:3624:-270.071,0,-219.876 1/1:77:0,77:0:0:77:2768:-249.361,-23.1793,0 0/1:81:44,37:44:1576:37:1328:-95.4388,0,-117.748 0/0:61:61,0:61:2180:0:0:0,-18.3628,-196.466 0/1:157:67,90:67:2341:90:3223:-243.03,0,-163.685 0/1:19:14,5:14:496:5:172:-10.0978,0,-39.2547 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 0/1:143:72,71:72:2580:71:2536:-185.443,0,-189.402 0/1:135:49,86:49:1752:86:3073:-236.157,0,-117.325 0/1:97:42,55:42:1508:55:1972:-148.555,0,-106.815 0/1:52:20,32:20:716:32:1152:-88.3362,0,-49.1142 1/1:48:0,48:0:0:48:1728:-155.805,-14.4494,0 0/1:66:39,27:39:1374:27:972:-67.9299,0,-104.089 0/1:68:28,40:28:1000:40:1440:-109.428,0,-69.8453 1/1:125:1,124:1:36:124:4435:-395.722,-34.0305,0 1/1:62:0,62:0:0:62:2223:-200.333,-18.6639,0 chr10 244971 . G A 9484.38 PASS AB=0.526995;ABP=8.4033;AC=15;AF=0.357143;AN=42;AO=535;CIGAR=1X;DP=1146;DPB=1146;DPRA=2.37818;EPP=1164.75;EPPR=1329.78;GTI=1;LEN=1;MEANALT=1;MQM=59.3458;MQMR=59.9067;NS=21;NUMALT=1;ODDS=2.92483;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19154;QR=21816;RO=611;RPL=0;RPP=1164.75;RPPR=1329.78;RPR=535;RUN=1;SAF=535;SAP=1164.75;SAR=0;SRF=611;SRP=1329.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:31,25:31:1093:25:900:-64.4586,0,-81.82 0/1:21:15,6:15:528:6:216:-13.4689,0,-41.5297 0/0:62:62,0:62:2224:0:0:0,-18.6639,-200.424 0/1:37:10,27:10:360:27:964:-75.9364,0,-21.6062 0/1:131:55,76:55:1957:76:2701:-203.575,0,-136.969 0/0:30:30,0:30:1057:0:0:0,-9.0309,-95.439 0/1:88:46,42:46:1640:42:1500:-108.771,0,-121.398 1/1:85:0,85:0:0:85:3037:-273.011,-25.5876,0 0/1:113:53,60:53:1904:60:2152:-159.887,0,-137.62 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:22:22,0:22:780:0:0:0,-6.62266,-70.523 0/1:33:13,20:13:468:20:720:-55.1924,0,-32.5257 0/1:62:34,28:34:1224:28:1004:-72.0073,0,-91.8032 0/1:174:70,104:70:2480:104:3732:-283.696,0,-171.073 0/1:26:18,8:18:648:8:284:-18.0766,0,-50.8251 0/0:17:17,0:17:597:0:0:0,-5.11751,-54.0561 0/1:72:35,37:35:1260:37:1332:-98.3662,0,-92.0313 0/1:30:19,11:19:680:11:396:-26.9495,0,-52.4959 0/0:44:43,1:43:1548:1:36:0,-9.64704,-135.98 0/0:28:28,0:28:1008:0:0:0,-8.42884,-90.6075 chr10 263971 . C T 18372.8 PASS AB=0.446931;ABP=36.89;AC=27;AF=0.642857;AN=42;AO=993;CIGAR=1X;DP=1887;DPB=1887;DPRA=0.717073;EPP=2124.68;EPPR=1935.63;GTI=1;LEN=1;MEANALT=1;MQM=59.9597;MQMR=59.9933;NS=21;NUMALT=1;ODDS=5.75937;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35339;QR=31893;RO=894;RPL=989;RPP=2124.68;RPPR=1935.63;RPR=4;RUN=1;SAF=993;SAP=2159.28;SAR=0;SRF=894;SRP=1944.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:61,55:61:2175:55:1957:-141.484,0,-161.096 0/1:65:36,29:36:1265:29:1036:-73.987,0,-94.5836 1/1:75:0,75:0:0:75:2675:-240.995,-22.5773,0 0/1:68:37,31:37:1319:31:1100:-78.8402,0,-98.5411 0/1:154:96,58:96:3423:58:2076:-140.752,0,-261.926 1/1:52:1,51:1:36:51:1824:-160.825,-12.0553,0 0/1:100:45,55:45:1608:55:1947:-145.394,0,-114.907 0/0:123:123,0:123:4376:0:0:0,-37.0267,-394.017 0/1:201:124,77:124:4456:77:2748:-187.056,0,-340.702 0/1:20:10,10:10:352:10:356:-26.356,0,-25.9957 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:27:0,27:0:0:27:953:-86.0833,-8.12781,0 0/1:111:71,40:71:2548:40:1436:-96.1233,0,-196.156 0/1:117:71,46:71:2514:46:1623:-111.135,0,-191.292 0/1:127:58,69:58:2076:69:2459:-183.333,0,-148.88 0/1:65:38,27:38:1356:27:972:-68.231,0,-102.774 1/1:76:1,75:1:36:75:2642:-234.428,-19.28,0 0/1:137:84,53:84:2993:53:1883:-128.507,0,-228.36 0/1:104:35,69:35:1252:69:2448:-189.269,0,-81.678 1/1:79:0,79:0:0:79:2824:-254.395,-23.7814,0 1/1:63:3,60:3:108:60:2128:-181.713,-8.88972,0 chr10 264076 . T G 18571.1 PASS AB=0.615932;ABP=85.0784;AC=27;AF=0.642857;AN=42;AO=718;CIGAR=1X;DP=1033;DPB=1033;DPRA=1.09778;EPP=1211;EPPR=33.9555;GTI=1;LEN=1;MEANALT=1;MQM=56.9081;MQMR=59.9746;NS=21;NUMALT=1;ODDS=2.97806;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24965;QR=11254;RO=315;RPL=299;RPP=46.5607;RPPR=687.024;RPR=419;RUN=1;SAF=342;SAP=6.50643;SAR=376;SRF=124;SRP=33.9555;SRR=191;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:11,26:11:396:26:923:-72.1949,0,-24.8446 0/1:44:13,31:13:460:31:1056:-82.0001,0,-28.4901 1/1:26:0,26:0:0:26:930:-83.9806,-7.82678,0 0/1:50:21,29:21:748:29:997:-74.8442,0,-52.5938 0/1:76:35,41:35:1247:41:1426:-105.632,0,-89.6558 1/1:47:0,47:0:0:47:1614:-145.107,-14.1484,0 0/1:59:27,32:27:968:32:1100:-81.3932,0,-69.6684 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/1:53:27,26:27:964:26:900:-65.3457,0,-71.1222 0/1:5:1,4:1:36:4:144:-11.8037,0,-2.09312 1/1:7:0,7:0:0:7:248:-22.5571,-2.10721,0 1/1:17:0,17:0:0:17:608:-55.0068,-5.11751,0 0/1:39:14,25:14:504:25:865:-66.3891,0,-33.9579 0/1:62:32,30:32:1148:30:1042:-75.2328,0,-84.966 0/1:59:17,42:17:612:42:1465:-114.339,0,-37.6527 0/1:36:12,24:12:428:24:852:-66.1101,0,-28.0217 1/1:42:0,42:0:0:42:1496:-134.912,-12.6433,0 0/1:107:35,72:35:1244:72:2439:-187.232,0,-80.0545 0/1:76:25,51:25:887:51:1774:-136.967,0,-57.2698 1/1:51:0,51:0:0:51:1789:-161.12,-15.3525,0 1/1:95:0,95:0:0:95:3297:-296.475,-28.5979,0 chr10 264096 . C A 19436.8 PASS AB=0.634078;ABP=114.811;AC=27;AF=0.642857;AN=42;AO=746;CIGAR=1X;DP=1051;DPB=1051;DPRA=1.17209;EPP=8.64565;EPPR=20.1044;GTI=1;LEN=1;MEANALT=1;MQM=56.945;MQMR=60;NS=21;NUMALT=1;ODDS=4.74244;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26637;QR=10851;RO=305;RPL=739;RPP=1562.7;RPPR=648.052;RPR=7;RUN=1;SAF=344;SAP=12.8023;SAR=402;SRF=126;SRP=23.0092;SRR=179;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:35:9,26:9:324:26:921:-72.6163,0,-18.9698 0/1:44:12,32:12:432:32:1129:-88.5832,0,-25.9759 1/1:27:0,27:0:0:27:968:-87.3978,-8.12781,0 0/1:53:22,31:22:783:31:1116:-84.658,0,-54.8384 0/1:80:35,45:35:1252:45:1604:-120.113,0,-88.9027 1/1:46:0,46:0:0:46:1626:-146.187,-13.8474,0 0/1:58:25,33:25:887:33:1183:-89.1933,0,-62.6884 0/0:43:43,0:43:1523:0:0:0,-12.9443,-137.362 0/1:52:26,26:26:928:26:928:-68.1734,0,-68.1847 0/1:5:1,4:1:36:4:144:-11.8037,0,-2.09312 1/1:7:0,7:0:0:7:248:-22.5931,-2.10721,0 1/1:17:0,17:0:0:17:608:-55.0096,-5.11751,0 0/1:38:13,25:13:468:25:896:-69.4875,0,-31.0205 0/1:60:29,31:29:1025:31:1095:-80.6614,0,-74.4989 0/1:62:17,45:17:608:45:1612:-126.661,0,-36.3882 0/1:38:13,25:13:450:25:896:-69.5139,0,-29.3894 1/1:41:0,41:0:0:41:1476:-133.12,-12.3422,0 0/1:114:36,78:36:1275:78:2796:-217.14,0,-80.7349 0/1:77:24,53:24:860:53:1887:-146.854,0,-54.5425 1/1:54:0,54:0:0:54:1928:-173.625,-16.2556,0 1/1:100:0,100:0:0:100:3576:-321.286,-30.103,0 chr10 271375 . A T 12637 PASS AB=0.528041;ABP=12.3873;AC=15;AF=0.357143;AN=42;AO=749;CIGAR=1X;DP=1805;DPB=1805;DPRA=2.78674;EPP=1620.77;EPPR=2296.09;GTI=0;LEN=1;MEANALT=1;MQM=59.9039;MQMR=60;NS=21;NUMALT=1;ODDS=2.83875;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26446;QR=37663;RO=1056;RPL=749;RPP=1629.44;RPPR=2296.09;RPR=0;RUN=1;SAF=1;SAP=1620.77;SAR=748;SRF=0;SRP=2296.09;SRR=1056;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:53,51:53:1859:51:1764:-127.728,0,-136.277 0/1:61:27,34:27:968:34:1212:-91.0221,0,-69.0745 0/0:148:147,1:147:5238:1:21:0,-42.4525,-469.457 0/1:135:58,77:58:2076:77:2730:-205.074,0,-146.471 0/1:209:92,117:92:3270:117:4110:-307.166,0,-231.603 0/0:54:54,0:54:1928:0:0:0,-16.2556,-173.797 0/1:152:84,68:84:2977:68:2405:-170.948,0,-222.406 1/1:21:0,21:0:0:21:733:-66.2897,-6.32163,0 0/1:180:76,104:76:2720:104:3681:-276.818,0,-190.858 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/1:85:34,51:34:1224:51:1820:-138.494,0,-84.8795 0/1:122:65,57:65:2286:57:2048:-147.78,0,-169.274 0/1:125:65,60:65:2336:60:2126:-153.976,0,-172.87 0/1:76:32,44:32:1148:44:1539:-115.919,0,-80.7516 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/1:55:28,27:28:1004:27:948:-69.0752,0,-74.1192 0/1:49:24,25:24:864:25:892:-65.8492,0,-63.3321 0/0:81:79,2:79:2828:2:57:0,-18.9701,-249.346 0/0:44:44,0:44:1565:0:0:0,-13.2453,-141.14 chr10 382835 . G A 12619.1 PASS AB=0.54125;ABP=14.834;AC=27;AF=0.642857;AN=42;AO=665;CIGAR=1X;DP=1087;DPB=1087;DPRA=0.956481;EPP=1447.04;EPPR=919.372;GTI=0;LEN=1;MEANALT=1;MQM=59.8932;MQMR=60;NS=21;NUMALT=1;ODDS=4.20527;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23633;QR=14976;RO=422;RPL=665;RPP=1447.04;RPPR=919.372;RPR=0;RUN=1;SAF=665;SAP=1447.04;SAR=0;SRF=422;SRP=919.372;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:29,29:29:1022:29:1028:-75.3733,0,-74.8311 0/1:47:16,31:16:576:31:1108:-85.8264,0,-38.0266 1/1:57:1,56:1:36:56:1993:-176.044,-13.5604,0 0/1:37:20,17:20:712:17:608:-43.9139,0,-53.2685 0/1:123:54,69:54:1931:69:2472:-185.707,0,-137.039 1/1:42:0,42:0:0:42:1496:-134.926,-12.6433,0 0/1:98:52,46:52:1855:46:1648:-119.108,0,-137.728 0/0:54:54,0:54:1890:0:0:0,-16.2556,-170.375 0/1:87:38,49:38:1356:49:1734:-129.765,0,-96.1509 0/1:25:14,11:14:504:11:396:-28.457,0,-38.1723 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 0/1:64:27,37:27:964:37:1324:-100.196,0,-67.8109 0/1:29:13,16:13:468:16:576:-43.4451,0,-33.7298 0/1:115:51,64:51:1804:64:2265:-169.493,0,-128.021 0/1:45:22,23:22:771:23:790:-57.8661,0,-56.164 1/1:58:0,58:0:0:58:2060:-185.67,-17.4597,0 0/1:55:26,29:26:907:29:1024:-75.9159,0,-65.3877 0/1:17:5,12:5:180:12:432:-34.1037,0,-11.4346 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 1/1:25:0,25:0:0:25:859:-77.6227,-7.52575,0 chr10 387030 . A G 45910.3 PASS AB=0.506861;ABP=4.91732;AC=15;AF=0.357143;AN=42;AO=2617;CIGAR=1X;DP=6850;DPB=6850;DPRA=1.76939;EPP=5677.07;EPPR=9175.32;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.9893;MQMR=59.9986;NS=21;NUMALT=1;ODDS=25.7379;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93327;QR=148180;RO=4232;RPL=2616;RPP=5677.07;RPPR=9175.32;RPR=1;RUN=1;SAF=2617;SAP=5685.75;SAR=0;SRF=4232;SRP=9192.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:219:101,118:101:3525:118:4217:-313.784,0,-251.54 0/1:145:45,100:45:1541:100:3558:-276.78,0,-95.3268 0/0:152:151,1:151:5206:1:36:0,-42.1583,-465.096 0/1:103:62,41:62:2164:41:1455:-100.239,0,-164.022 0/1:271:97,174:97:3381:174:6202:-476.698,0,-222.933 0/0:62:62,0:62:2138:0:0:0,-18.6639,-192.686 0/1:163:76,87:76:2640:87:3107:-230.789,0,-188.781 1/1:250:1,249:1:36:249:8885:-796.035,-71.6592,0 0/1:204:108,95:108:3714:95:3403:-245.054,0,-273.041 0/1:1775:912,863:912:32104:863:30783:-2235.18,0,-2354.12 0/0:566:566,0:566:19762:0:0:0,-170.383,-1778.18 0/0:888:887,1:887:30970:1:36:0,-263.716,-2782.87 0/1:110:58,52:58:2040:52:1841:-132.847,0,-150.759 0/1:126:56,70:56:1954:70:2488:-186.243,0,-138.205 0/1:275:112,163:112:3943:163:5814:-440.589,0,-272.285 0/1:93:49,44:49:1709:44:1580:-114.496,0,-126.098 0/0:131:131,0:131:4577:0:0:0,-39.4349,-412.106 0/1:1123:581,542:581:20565:542:19314:-1399.76,0,-1512.32 0/1:57:42,15:42:1464:15:536:-31.4161,0,-114.893 0/0:92:90,2:90:3164:2:72:0,-20.858,-278.153 0/0:45:45,0:45:1583:0:0:0,-13.5463,-142.76 chr10 419545 . T A 10439.3 PASS AB=0.507227;ABP=3.35557;AC=17;AF=0.404762;AN=42;AO=451;CIGAR=1X;DP=946;DPB=946;DPRA=2.75333;EPP=6.01955;EPPR=125.354;GTI=0;LEN=1;MEANALT=1;MQM=59.5942;MQMR=59.404;NS=21;NUMALT=1;ODDS=0.38013;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15968;QR=17740;RO=495;RPL=0;RPP=982.344;RPPR=1077.89;RPR=451;RUN=1;SAF=213;SAP=6.01955;SAR=238;SRF=331;SRP=125.354;SRR=164;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:32:19,13:19:680:13:449:-31.0907,0,-51.8962 0/1:14:6,8:6:212:8:276:-20.9608,0,-15.208 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0952 0/1:43:15,28:15:540:28:993:-76.7245,0,-35.9359 0/1:101:41,60:41:1472:60:2144:-162.81,0,-102.369 0/1:12:10,2:10:356:2:72:-3.22436,0,-28.7689 0/1:48:23,25:23:824:25:877:-64.7876,0,-60.0142 1/1:59:0,59:0:0:59:2095:-188.81,-17.7608,0 0/1:81:47,34:47:1688:34:1204:-84.2778,0,-127.823 1/1:6:0,6:0:0:6:216:-19.6587,-1.80618,0 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.8748 0/1:31:16,15:16:568:15:540:-39.6046,0,-42.1166 0/1:43:22,21:22:792:21:736:-53.4184,0,-57.6219 0/1:70:39,31:39:1396:31:1077:-76.1642,0,-104.855 0/1:48:22,26:22:788:26:917:-68.3943,0,-56.7246 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9576 0/1:128:39,89:39:1400:89:3168:-246.757,0,-87.7461 0/1:110:76,34:76:2728:34:1204:-75.5318,0,-212.617 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6874 0/0:56:56,0:56:2008:0:0:0,-16.8577,-180.2 chr10 419551 . T G 11304.7 PASS AB=0.472258;ABP=8.19101;AC=25;AF=0.595238;AN=42;AO=488;CIGAR=1X;DP=969;DPB=969;DPRA=1.33136;EPP=105.817;EPPR=3.37597;GTI=1;LEN=1;MEANALT=1;MQM=59.3914;MQMR=59.5925;NS=21;NUMALT=1;ODDS=1.56322;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17311;QR=17181;RO=481;RPL=3;RPP=1036.79;RPPR=1030.19;RPR=485;RUN=1;SAF=323;SAP=114.094;SAR=165;SRF=238;SRP=3.12316;SRR=243;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:17,19:17:608:19:667:-49.5175,0,-44.2011 0/1:13:9,4:9:324:4:140:-9.03119,0,-25.5925 1/1:12:0,12:0:0:12:423:-38.4027,-3.61236,0 0/1:45:30,15:30:1076:15:536:-34.9721,0,-83.5928 0/1:98:57,41:57:2044:41:1468:-102.912,0,-154.717 0/1:12:2,10:2:72:10:360:-29.1319,0,-3.22436 0/1:52:29,23:29:1031:23:824:-58.8052,0,-77.448 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.482 0/1:84:37,47:37:1328:47:1661:-124.488,0,-94.5311 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.293 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:9:0,9:0:0:9:320:-29.1,-2.70927,0 0/1:30:15,15:15:532:15:512:-37.3698,0,-39.1822 0/1:46:25,21:25:892:21:728:-51.6694,0,-66.3591 0/1:69:32,37:32:1143:37:1313:-97.6759,0,-82.4076 0/1:46:25,21:25:887:21:748:-53.7276,0,-66.2998 1/1:27:0,27:0:0:27:955:-86.2621,-8.12781,0 0/1:132:94,38:94:3328:38:1360:-82.9434,0,-259.958 0/1:112:37,75:37:1332:75:2644:-204.45,0,-86.4463 1/1:14:0,14:0:0:14:504:-45.6874,-4.21442,0 1/1:57:1,56:1:36:56:2008:-176.601,-13.5604,0 chr10 429953 . A T 22096.3 PASS AB=0.543902;ABP=23.6022;AC=27;AF=0.642857;AN=42;AO=1106;CIGAR=1X;DP=1718;DPB=1718;DPRA=1.85889;EPP=2293.07;EPPR=1194.44;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.0531;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39567;QR=21275;RO=611;RPL=13;RPP=2293.07;RPPR=1219.27;RPR=1093;RUN=1;SAF=1106;SAP=2404.66;SAR=0;SRF=608;SRP=1303.85;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:57,57:57:1954:57:2016:-147.034,0,-141.448 0/1:99:35,64:35:1237:64:2299:-177.369,0,-81.8303 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 0/1:102:54,48:54:1891:48:1720:-124.38,0,-139.758 0/1:170:77,93:77:2696:93:3336:-249.282,0,-191.705 1/1:135:2,133:2:57:133:4764:-423.504,-35.2257,0 0/1:99:46,53:46:1592:53:1900:-141.476,0,-113.759 0/0:45:45,0:45:1537:0:0:0,-13.5463,-138.611 0/1:61:29,32:29:998:32:1152:-85.6273,0,-71.7629 0/1:13:9,4:9:316:4:144:-9.40023,0,-24.8655 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 0/1:101:42,59:42:1459:59:2107:-159.494,0,-101.194 0/1:49:32,17:32:1133:17:593:-38.9442,0,-87.5262 0/1:132:63,69:63:2199:69:2464:-182.279,0,-158.435 0/1:74:30,44:30:1076:44:1573:-119.584,0,-74.8766 1/1:74:4,70:4:144:70:2504:-212.299,-8.9626,0 0/1:117:56,61:56:2000:61:2187:-161.874,0,-145.053 0/1:98:30,68:30:986:68:2448:-191.073,0,-59.531 1/1:78:0,78:0:0:78:2777:-250.17,-23.4803,0 1/1:76:0,76:0:0:76:2719:-244.954,-22.8783,0 chr10 434535 . TCC GCC,GCT 33095.1 PASS AB=0.376799,0.619814;ABP=158.711,150.268;AC=27,15;AF=0.642857,0.357143;AN=42;AO=788,807;CIGAR=1X2M,1X1M1X;DP=1600;DPB=1600;DPRA=1.04589,2.03492;EPP=1619.92,1686.59;EPPR=7.35324;GTI=2;LEN=1,3;MEANALT=1.85,2.125;MQM=59.7437,59.8389;MQMR=60;NS=21;NUMALT=2;ODDS=3.48427;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27953,28309;QR=70;RO=2;RPL=777,799;RPP=1619.92,1686.59;RPPR=7.35324;RPR=11,8;RUN=1,1;SAF=0,0;SAP=1714.13,1755.39;SAR=788,807;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:97:1,40,56:1:36:40,56:1440,1943:-272.166,-154.965,-145.861,-114.559,0,-100.639 1/2:29:0,12,17:0:0:12,17:428,602:-84.2829,-49.3919,-45.7796,-35.2464,0,-30.1289 1/1:100:0,100,0:0:0:100,0:3550,0:-319.669,-30.103,0,-319.669,-30.103,-319.669 1/2:115:0,46,69:0:0:46,69:1630,2386:-326.576,-194.215,-180.368,-132.711,0,-111.94 1/2:139:0,37,102:0:0:37,102:1311,3533:-394.273,-287.472,-276.334,-107.153,0,-76.4477 1/1:70:0,69,1:0:0:69,1:2445,36:-219.912,-20.7711,0,-216.975,-17.4738,-216.674 1/2:104:1,39,64:1:34:39,64:1392,2252:-293.76,-180.577,-171.595,-110.741,0,-94.2326 2/2:73:0,0,72:0:0:0,72:0,2522:-226.835,-226.835,-226.835,-21.6742,-21.6742,0 1/2:140:0,16,124:0:0:16,124:566,4402:-405.105,-359.029,-354.212,-46.4298,0,-9.10208 1/2:17:0,9,8:0:0:9,8:324,286:-50.1153,-23.6772,-20.968,-26.7966,0,-24.3883 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:31:0,31,0:0:0:31,0:1097,0:-99.038,-9.33193,0,-99.038,-9.33193,-99.038 1/2:129:0,49,80:0:0:49,80:1743,2848:-374.523,-232.476,-217.726,-142.402,0,-118.32 1/2:71:0,30,41:0:0:30,41:1058,1441:-203.701,-117.553,-108.523,-86.4993,0,-74.1571 1/2:171:0,85,86:0:0:85,86:3031,3019:-493.13,-246.055,-220.467,-247.43,0,-221.541 1/2:26:0,8,16:0:0:8,16:272,563:-67.9058,-45.8464,-43.4382,-22.0817,0,-17.2652 1/1:27:0,27,0:0:0:27,0:946,0:-85.4529,-8.12781,0,-85.4529,-8.12781,-85.4529 1/2:76:0,33,43:0:0:33,43:1176,1507:-218.609,-122.976,-113.042,-95.9861,0,-83.0418 1/2:67:0,41,26:0:0:41,26:1440,907:-191.301,-74.0999,-61.7576,-117.551,0,-109.724 1/1:63:0,61,2:0:0:61,2:2184,62:-196.515,-18.3628,0,-191.54,-13.0767,-190.938 1/1:51:0,51,0:0:0:51,0:1776,0:-160.111,-15.3525,0,-160.111,-15.3525,-160.111 chr10 434560 . G A 14497 PASS AB=0.385677;ABP=134.582;AC=27;AF=0.642857;AN=42;AO=793;CIGAR=1X;DP=1579;DPB=1579;DPRA=1.06197;EPP=1724.99;EPPR=1709.79;GTI=2;LEN=1;MEANALT=1;MQM=59.71;MQMR=59.9046;NS=21;NUMALT=1;ODDS=4.70695;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28386;QR=28088;RO=786;RPL=793;RPP=1724.99;RPPR=1709.79;RPR=0;RUN=1;SAF=0;SAP=1724.99;SAR=793;SRF=0;SRP=1709.79;SRR=786;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:54,41:54:1928:41:1476:-104.538,0,-145.188 0/1:30:17,13:17:608:13:468:-33.4287,0,-46.0211 1/1:102:0,102:0:0:102:3634:-326.306,-30.7051,0 0/1:113:67,46:67:2384:46:1650:-113.667,0,-180.794 0/1:129:94,35:94:3356:35:1241:-73.1596,0,-263.425 1/1:71:1,70:1:36:70:2485:-220.095,-17.7749,0 0/1:99:63,36:63:2264:36:1292:-86.7818,0,-174.22 0/0:71:71,0:71:2552:0:0:0,-21.3731,-229.886 0/1:136:120,16:120:4281:16:576:-11.044,0,-344.527 0/1:17:8,9:8:280:9:320:-24.0248,0,-20.4218 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:127:78,49:78:2804:49:1744:-119.01,0,-214.368 0/1:71:40,31:40:1424:31:1104:-78.2975,0,-107.084 0/1:174:86,88:86:3076:88:3168:-232.953,0,-224.689 0/1:23:16,7:16:576:7:248:-15.7405,0,-45.2336 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 0/1:75:42,33:42:1491:33:1184:-84.0634,0,-111.907 0/1:70:27,43:27:960:43:1548:-118.533,0,-65.6318 1/1:62:2,60:2:68:60:2156:-187.849,-12.2062,0 1/1:53:0,53:0:0:53:1904:-171.632,-15.9546,0 chr10 440921 . T C 23989 PASS AB=0.483516;ABP=7.30552;AC=27;AF=0.642857;AN=42;AO=1327;CIGAR=1X;DP=2361;DPB=2361;DPRA=1.37229;EPP=2884.55;EPPR=2246.14;GTI=2;LEN=1;MEANALT=1.05;MQM=52.9555;MQMR=59.9477;NS=21;NUMALT=1;ODDS=1.91847;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46819;QR=36953;RO=1033;RPL=0;RPP=2884.55;RPPR=2246.14;RPR=1327;RUN=1;SAF=0;SAP=2884.55;SAR=1327;SRF=0;SRP=2246.14;SRR=1033;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:50,71:50:1785:71:2483:-186.627,0,-124.506 0/1:85:54,31:54:1940:31:1095:-73.0004,0,-149.289 1/1:76:1,75:1:36:75:2676:-237.09,-19.28,0 0/1:126:85,41:85:3028:41:1456:-93.0553,0,-234.816 0/1:363:142,220:142:5096:220:7756:-586.155,0,-349.45 1/1:90:6,84:6:216:84:2953:-244.904,-7.30219,0 0/1:232:132,100:132:4728:100:3528:-246.279,0,-355.613 0/0:83:83,0:83:2975:0:0:0,-24.9855,-267.982 0/1:271:149,122:149:5335:122:4322:-306.312,0,-398.703 0/1:4:3,1:3:108:1:36:-2.38905,0,-8.87105 1/1:10:0,10:0:0:10:352:-31.9457,-3.0103,0 1/1:31:0,31:0:0:31:1107:-99.0284,-9.33193,0 0/1:107:39,68:39:1377:68:2409:-184.104,0,-92.0165 0/1:105:53,52:53:1869:52:1800:-129.912,0,-136.879 0/1:184:106,78:106:3804:78:2792:-195.205,0,-287.167 0/1:92:43,49:43:1540:49:1743:-128.471,0,-111.198 1/1:100:0,100:0:0:100:3531:-317.037,-30.103,0 0/1:87:55,32:55:1968:32:1098:-72.8105,0,-151.205 0/1:43:28,15:28:1008:15:516:-33.7561,0,-77.9342 1/1:131:3,128:3:104:128:4494:-393.761,-29.7321,0 1/1:20:1,19:1:36:19:672:-57.0677,-2.42233,0 chr10 440947 . CA TG,CG 49270.2 PASS AB=0.491662,0.50511;ABP=4.13283,3.43198;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1376,1032;CIGAR=2X,1M1X;DP=2414;DPB=2414;DPRA=1.40422,2.58904;EPP=2990.96,2235.29;EPPR=5.18177;GTI=2;LEN=2,1;MEANALT=2.1,2.22222;MQM=52.9528,59.968;MQMR=60;NS=21;NUMALT=2;ODDS=0.0358722;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48975,36868;QR=31;RO=1;RPL=1376,1031;RPP=2990.96,2235.29;RPPR=5.18177;RPR=0,1;RUN=1,1;SAF=0,0;SAP=2990.96,2243.97;SAR=1376,1032;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:123:0,73,50:0:0:73,50:2608,1792:-358.312,-146.511,-124.536,-212.158,0,-197.106 1/2:87:0,33,54:0:0:33,54:1167,1931:-252.578,-157.81,-147.876,-95.1223,0,-78.8667 1/1:77:0,76,1:0:0:76,1:2732,36:-245.264,-22.8783,0,-242.326,-19.581,-242.025 1/2:131:0,43,87:0:0:43,87:1528,3099:-376.533,-252.586,-239.642,-123.941,0,-97.7515 1/2:372:0,228,143:0:0:228,143:8137,5128:-1079.13,-418.363,-349.728,-660.875,0,-617.827 1/1:93:0,87,6:0:0:87,6:3101,216:-277.603,-26.1896,0,-259.978,-8.20528,-258.172 1/2:235:0,105,130:0:0:105,130:3730,4642:-681.184,-378.784,-347.176,-302.755,0,-263.621 2/2:83:0,0,83:0:0:0,83:0,2970:-267.532,-267.532,-267.532,-24.9855,-24.9855,0 1/2:272:0,125,147:0:0:125,147:4427,5268:-789.496,-430.004,-392.375,-359.847,0,-315.596 1/2:4:0,2,2:0:0:2,2:72,72:-12.1048,-6.23466,-5.6326,-6.22982,0,-5.62776 1/1:10:0,10,0:0:0:10,0:358,0:-32.4836,-3.0103,0,-32.4836,-3.0103,-32.4836 1/1:34:0,34,0:0:0:34,0:1181,0:-105.966,-10.235,0,-105.966,-10.235,-105.966 1/2:109:0,70,39:0:0:70,39:2482,1376:-313.841,-112.397,-91.3252,-201.797,0,-190.057 1/2:109:0,56,53:0:0:56,53:1989,1895:-315.892,-154.873,-138.015,-161.375,0,-145.42 1/2:186:0,78,108:0:0:78,108:2791,3843:-540.218,-313.555,-290.074,-227.019,0,-194.508 1/2:96:0,51,43:0:0:51,43:1825,1536:-273.271,-125.282,-109.929,-148.038,0,-135.093 1/1:102:0,102,0:0:0:102,0:3618,0:-324.756,-30.7051,0,-324.756,-30.7051,-324.756 1/2:90:1,34,55:1:31:34,55:1219,1965:-256.73,-157.768,-150.021,-96.8219,0,-82.7524 1/2:45:0,16,28:0:0:16,28:563,995:-126.933,-81.1832,-76.3667,-45.8469,0,-37.4181 1/1:134:0,132,2:0:0:132,2:4693,68:-420.945,-39.736,0,-415.43,-33.8803,-414.828 1/1:22:0,21,1:0:0:21,1:754,36:-67.6488,-6.32163,0,-64.7112,-3.02439,-64.4102 chr10 440958 . T C 24877.1 PASS AB=0.483134;ABP=7.55173;AC=27;AF=0.642857;AN=42;AO=1347;CIGAR=1X;DP=2390;DPB=2390;DPRA=0;EPP=2927.98;EPPR=2267.86;GTI=2;LEN=1;MEANALT=1;MQM=53.0015;MQMR=59.9482;NS=21;NUMALT=1;ODDS=1.84014;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48064;QR=37415;RO=1043;RPL=1347;RPP=2927.98;RPPR=2267.86;RPR=0;RUN=1;SAF=0;SAP=2927.98;SAR=1347;SRF=0;SRP=2267.86;SRR=1043;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:124:51,73:51:1832:73:2608:-196.775,0,-127.833 0/1:86:54,32:54:1940:32:1144:-77.1027,0,-148.988 1/1:77:1,76:1:36:76:2724:-241.311,-19.581,0 0/1:130:88,42:88:3164:42:1500:-95.7563,0,-245.836 0/1:363:142,221:142:5096:221:7892:-598.33,0,-349.508 1/1:92:6,86:6:212:86:3071:-255.976,-8.26996,0 0/1:228:130,98:130:4672:98:3492:-244.895,0,-351.777 0/0:84:83,1:83:2988:1:36:0,-21.6882,-265.553 0/1:273:150,123:150:5367:123:4395:-312.036,0,-400.981 0/1:4:3,1:3:108:1:36:-2.38905,0,-8.87105 1/1:10:0,10:0:0:10:356:-32.3039,-3.0103,0 1/1:34:0,34:0:0:34:1196:-107.406,-10.235,0 0/1:109:39,70:39:1396:70:2495:-191.309,0,-93.1268 0/1:107:54,53:54:1944:53:1900:-137.881,0,-143.026 0/1:186:109,77:109:3897:77:2752:-191.007,0,-294.931 0/1:94:45,49:45:1616:49:1745:-128.184,0,-117.433 1/1:101:0,101:0:0:101:3594:-322.826,-30.404,0 0/1:89:56,33:56:2016:33:1184:-79.9036,0,-154.921 0/1:45:29,16:29:1023:16:572:-38.1828,0,-78.8116 1/1:132:2,130:2:72:130:4655:-411.008,-32.8992,0 1/1:22:1,21:1:36:21:717:-61.1103,-3.02439,0 chr10 440963 . T A 17738.4 PASS AB=0.508179;ABP=4.07591;AC=15;AF=0.357143;AN=42;AO=1023;CIGAR=1X;DP=2381;DPB=2381;DPRA=3.20173;EPP=2224.43;EPPR=2951.87;GTI=2;LEN=1;MEANALT=1;MQM=59.9472;MQMR=52.9978;NS=21;NUMALT=1;ODDS=0.217628;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36645;QR=48619;RO=1358;RPL=1023;RPP=2224.43;RPPR=2951.87;RPR=0;RUN=1;SAF=0;SAP=2224.43;SAR=1023;SRF=0;SRP=2951.87;SRR=1358;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:74,51:74:2656:51:1836:-127.892,0,-200.678 0/1:86:32,54:32:1136:54:1935:-148.537,0,-76.4121 0/0:77:76,1:76:2709:1:36:0,-19.581,-239.965 0/1:130:43,87:43:1536:87:3120:-241.879,0,-98.8047 0/1:368:227,141:227:8132:141:5046:-343.507,0,-618.283 0/0:92:86,6:86:3080:6:216:0,-7.90425,-256.414 0/1:232:103,129:103:3688:129:4612:-345.38,0,-260.843 1/1:82:0,82:0:0:82:2936:-264.474,-24.6845,0 0/1:270:123,147:123:4397:147:5264:-392.618,0,-313.181 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.38905 0/0:10:10,0:10:352:0:0:0,-3.0103,-31.9457 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.24 0/1:108:69,39:69:2472:39:1400:-93.7879,0,-189.455 0/1:104:54,50:54:1917:50:1780:-129.176,0,-140.467 0/1:180:77,103:77:2764:103:3700:-279.016,0,-193.889 0/1:94:49,45:49:1752:45:1616:-117.433,0,-128.661 0/0:99:99,0:99:3540:0:0:0,-29.802,-317.761 0/1:89:34,55:34:1224:55:1964:-150.244,0,-83.4949 0/1:44:16,28:16:572:28:1004:-77.2727,0,-38.4838 0/0:133:131,2:131:4716:2:72:0,-33.2003,-416.344 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.1941 chr10 441769 . G T 29679.2 PASS AB=0.574409;ABP=125.163;AC=15;AF=0.357143;AN=42;AO=1649;CIGAR=1X;DP=3343;DPB=3343;DPRA=2.68948;EPP=3583.77;EPPR=3655.47;GTI=2;LEN=1;MEANALT=1;MQM=59.9703;MQMR=59.9858;NS=21;NUMALT=1;ODDS=3.62884;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58844;QR=60455;RO=1694;RPL=0;RPP=3583.77;RPPR=3655.47;RPR=1649;RUN=1;SAF=1649;SAP=3583.77;SAR=0;SRF=1694;SRP=3681.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:93,84:93:3314:84:2977:-214.88,0,-245.193 0/1:230:96,134:96:3424:134:4795:-362.469,0,-239.135 0/0:121:120,1:120:4281:1:36:0,-32.8264,-381.869 0/1:206:70,136:70:2480:136:4863:-375.81,0,-161.435 0/1:344:136,208:136:4861:208:7396:-562.136,0,-334.088 0/0:89:89,0:89:3172:0:0:0,-26.7917,-285.703 0/1:334:178,156:178:6369:156:5574:-401.239,0,-472.754 1/1:187:0,187:0:0:187:6670:-600.372,-56.2926,0 0/1:293:120,173:120:4316:173:6178:-467.217,0,-300.395 0/1:21:9,12:9:324:12:424:-32.1748,0,-23.1842 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/1:210:77,133:77:2741:133:4739:-363.451,0,-183.715 0/1:137:32,105:32:1100:105:3768:-298.075,0,-58.0549 0/1:268:114,154:114:4058:154:5491:-413.64,0,-284.73 0/1:140:59,81:59:2112:81:2903:-219.361,0,-148.205 0/0:143:143,0:143:5124:0:0:0,-43.0473,-461.302 0/1:100:43,57:43:1536:57:2035:-153.319,0,-108.43 0/1:80:54,26:54:1940:26:923:-59.3044,0,-150.794 0/0:147:145,2:145:5147:2:72:0,-37.4147,-456.534 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 chr10 441842 . CTC TTT 39815.9 PASS AB=0.495197;ABP=3.57345;AC=27;AF=0.642857;AN=42;AO=2193;CIGAR=1X1M1X;DP=3897;DPB=3897;DPRA=0.638516;EPP=4765.05;EPPR=3696.68;GTI=2;LEN=3;MEANALT=1.05;MQM=43.7287;MQMR=58.4727;NS=21;NUMALT=1;ODDS=0.915103;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77868;QR=60361;RO=1701;RPL=0;RPP=4765.05;RPPR=3696.68;RPR=2193;RUN=1;SAF=0;SAP=4765.05;SAR=2193;SRF=0;SRP=3696.68;SRR=1701;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:277:107,170:107:3752:170:5987:-445.528,0,-254.034 0/1:198:116,82:116:4097:82:2902:-197.685,0,-308.922 1/1:144:0,144:0:0:144:5096:-448.964,-43.3483,0 0/1:246:105,141:105:3719:141:5006:-366.913,0,-260.517 0/1:350:159,191:159:5606:191:6802:-495.751,0,-399.079 1/1:200:1,199:1:36:199:7070:-621.638,-56.6077,0 0/1:241:144,97:144:5117:97:3443:-231.686,0,-387.699 0/0:283:282,0:282:10006:0:0:0,-84.8905,-899.781 0/1:366:202,162:202:7210:162:5769:-389.347,0,-538.064 0/1:22:15,7:15:536:7:244:-15.3956,0,-41.9524 1/1:8:0,8:0:0:8:288:-25.9042,-2.40824,0 1/1:43:0,43:0:0:43:1527:-134.582,-12.9443,0 0/1:213:107,106:107:3798:106:3781:-269.967,0,-277.713 0/1:230:103,127:103:3625:127:4511:-329.537,0,-256.907 0/1:381:207,174:207:7393:174:6167:-428.618,0,-550.612 0/1:162:90,72:90:3216:72:2581:-175.986,0,-240.174 1/1:179:1,178:1:36:178:6317:-542.782,-50.2898,0 0/1:74:43,31:43:1537:31:1112:-76.754,0,-116.343 0/1:51:19,32:19:677:32:1150:-85.678,0,-45.6233 1/1:184:0,184:0:0:184:6519:-576.379,-55.3895,0 1/1:45:0,45:0:0:45:1596:-141.45,-13.5464,0 chr10 441850 . T C 29484 PASS AB=0.495512;ABP=3.49761;AC=15;AF=0.357143;AN=42;AO=1655;CIGAR=1X;DP=3888;DPB=3888;DPRA=2.51308;EPP=3588.12;EPPR=4847.57;GTI=1;LEN=1;MEANALT=1.125;MQM=58.4284;MQMR=43.8404;NS=21;NUMALT=1;ODDS=0.117879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59112;QR=78512;RO=2231;RPL=1;RPP=3588.12;RPPR=4847.57;RPR=1654;RUN=1;SAF=0;SAP=3596.8;SAR=1655;SRF=0;SRP=4847.57;SRR=2231;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:269:167,101:167:5833:101:3624:-244.794,0,-434.477 0/1:195:81,114:81:2843:114:4064:-306.484,0,-193.544 0/0:146:146,0:146:5136:0:0:0,-43.9504,-451.432 0/1:241:140,101:140:4890:101:3600:-251.323,0,-358.294 0/1:351:196,155:196:6889:155:5534:-391.689,0,-503.663 0/0:211:210,1:210:7428:1:36:0,-59.9191,-653.688 0/1:233:93,140:93:3260:140:5008:-380.327,0,-218.241 1/1:274:0,273:0:0:273:9748:-876.571,-82.1812,0 0/1:364:165,199:165:5844:199:7137:-531.834,0,-398.131 0/1:20:6,14:6:212:14:504:-39.6775,0,-13.1573 0/0:8:8,0:8:280:0:0:0,-2.40824,-24.8417 0/0:45:45,0:45:1568:0:0:0,-13.5463,-138.402 0/1:213:109,104:109:3857:104:3720:-270.712,0,-276.789 0/1:225:127,98:127:4448:98:3493:-246.502,0,-326.114 0/1:382:178,204:178:6308:204:7263:-538.625,0,-440.837 0/1:162:73,89:73:2584:89:3168:-235.881,0,-176.306 0/0:188:187,1:187:6603:1:36:0,-52.9991,-567.123 0/1:78:36,42:36:1280:42:1497:-111.538,0,-90.5951 0/1:52:33,19:33:1155:19:680:-45.4967,0,-86.2589 0/0:182:182,0:182:6367:0:0:0,-54.7875,-564.411 0/0:49:49,0:49:1727:0:0:0,-14.7505,-152.637 chr10 441855 . T C 30098.3 PASS AB=0.496987;ABP=3.23276;AC=15;AF=0.357143;AN=42;AO=1683;CIGAR=1X;DP=3933;DPB=3933;DPRA=2.49358;EPP=3648.92;EPPR=4886.65;GTI=1;LEN=1;MEANALT=1;MQM=58.4326;MQMR=43.8626;NS=21;NUMALT=1;ODDS=4.55079;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60210;QR=80241;RO=2249;RPL=1;RPP=3648.92;RPPR=4886.65;RPR=1682;RUN=1;SAF=0;SAP=3657.6;SAR=1683;SRF=0;SRP=4886.65;SRR=2249;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:276:171,105:171:6087:105:3749:-254.35,0,-453.66 0/1:200:81,119:81:2833:119:4251:-321.752,0,-190.919 0/0:148:148,0:148:5293:0:0:0,-44.5524,-465.335 0/1:248:144,104:144:5142:104:3689:-257.177,0,-377.563 0/1:356:198,158:198:7112:158:5668:-402.133,0,-521.497 0/0:207:206,1:206:7347:1:36:0,-58.7149,-646.077 0/1:241:99,142:99:3556:142:5100:-386.164,0,-241.428 1/1:279:0,279:0:0:279:9978:-897.589,-83.9874,0 0/1:359:161,198:161:5757:198:7089:-529.032,0,-390.067 0/1:21:7,14:7:252:14:504:-39.3765,0,-16.3889 0/0:9:9,0:9:324:0:0:0,-2.70927,-28.7107 0/0:45:45,0:45:1597:0:0:0,-13.5463,-140.532 0/1:217:111,106:111:3958:106:3796:-276.308,0,-284.317 0/1:227:128,99:128:4532:99:3540:-250.151,0,-332.933 0/1:387:180,207:180:6415:207:7405:-549.888,0,-448.62 0/1:161:72,89:72:2569:89:3173:-236.254,0,-175.032 0/0:188:187,1:187:6656:1:36:0,-52.9991,-571.343 0/1:78:36,42:36:1288:42:1512:-112.89,0,-91.2722 0/1:50:31,19:31:1101:19:684:-46.4494,0,-81.6559 0/0:189:188,0:188:6730:0:0:0,-56.5936,-594.754 0/0:47:47,0:47:1692:0:0:0,-14.1484,-149.328 chr10 441878 . ATA GGT,AGT 78739.8 PASS AB=0.505579,0.490586;ABP=3.78561,5.21812;AC=27,15;AF=0.642857,0.357143;AN=42;AO=2298,1691;CIGAR=3X,1M2X;DP=4003;DPB=4002;DPRA=0.659752,2.51129;EPP=4993.05,3674.97;EPPR=0;GTI=1;LEN=3,2;MEANALT=2.35,2.625;MQM=43.8046,58.5423;MQMR=0;NS=21;NUMALT=2;ODDS=1.32643;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=78707,60392;QR=0;RO=0;RPL=2298,1691;RPP=4993.05,3674.97;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4993.05,3674.97;SAR=2298,1691;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:283:0,175,106:0:0:175,106:6037,3769:-788.041,-307.068,-254.387,-481.048,0,-449.139 1/2:203:0,86,117:0:0:86,117:2956,4177:-576.256,-340.109,-314.22,-236.493,0,-201.273 1/1:148:0,148,0:0:0:148,0:4995,0:-441.852,-44.5524,0,-441.852,-44.5524,-441.852 1/2:251:0,146,105:0:0:146,105:5040,3741:-705.226,-304.918,-260.968,-400.657,0,-369.049 1/2:365:0,205,157:0:0:205,157:6968,5594:-1011.47,-455.234,-393.523,-556.263,0,-509.001 1/1:213:0,211,1:0:0:211,1:7304,36:-647.551,-63.5173,0,-644.613,-60.5799,-644.312 1/2:244:0,101,141:0:0:101,141:3432,5026:-682.736,-409.321,-378.917,-273.4,0,-230.955 2/2:282:0,0,282:0:0:0,282:0,10095:-908.156,-908.156,-908.156,-84.8905,-84.8905,0 1/2:367:0,166,201:0:0:166,201:5658,7213:-1030.47,-587.74,-537.769,-443.075,0,-382.568 1/2:22:0,7,15:0:0:7,15:232,540:-62.9846,-44.4211,-42.3139,-18.9018,0,-14.3863 1/1:9:0,9,0:0:0:9,0:304,0:-27.3425,-2.70927,0,-27.3425,-2.70927,-27.3425 1/1:45:0,44,0:0:0:44,0:1492,0:-131.304,-13.2453,0,-131.304,-13.2453,-131.304 1/2:217:0,111,105:0:0:111,105:3818,3752:-611.074,-305.678,-272.264,-305.384,0,-273.776 1/2:231:0,130,100:0:0:130,100:4478,3582:-649.357,-292.112,-252.978,-357.315,0,-327.212 1/2:390:0,182,208:0:0:182,208:6226,7422:-1100.97,-605.264,-550.476,-496.053,0,-433.439 1/2:164:0,73,91:0:0:73,91:2507,3245:-460.947,-264.094,-242.119,-197.196,0,-169.803 1/1:197:0,195,1:0:0:195,1:6712,36:-583.183,-58.7009,0,-580.249,-55.7611,-579.948 1/2:79:0,36,43:0:0:36,43:1216,1533:-222.828,-125.313,-114.476,-97.8594,0,-84.9151 1/2:52:0,32,18:0:0:32,18:1068,631:-136.46,-51.341,-41.7081,-85.1239,0,-79.7054 1/1:192:0,192,0:0:0:192,0:6600,0:-585.604,-57.7978,0,-585.604,-57.7978,-585.604 1/1:49:0,49,0:0:0:49,0:1664,0:-147.519,-14.7505,0,-147.519,-14.7505,-147.519 chr10 453902 . A T 12335.3 PASS AB=0.49308;ABP=3.49118;AC=15;AF=0.357143;AN=42;AO=693;CIGAR=1X;DP=1561;DPB=1561;DPRA=3.85684;EPP=1473.3;EPPR=1842.5;GTI=1;LEN=1;MEANALT=1.0625;MQM=55.0924;MQMR=59.9885;NS=21;NUMALT=1;ODDS=1.73088;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24742;QR=30554;RO=867;RPL=2;RPP=1490.52;RPPR=1859.71;RPR=691;RUN=1;SAF=691;SAP=1490.52;SAR=2;SRF=865;SRP=1868.35;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:26,34:26:928:34:1220:-91.9635,0,-65.7765 0/1:82:36,46:36:1288:46:1639:-122.95,0,-91.531 0/0:100:99,1:99:3469:1:36:0,-26.5073,-308.831 0/1:100:48,52:48:1696:52:1855:-136.999,0,-122.823 0/1:95:39,56:39:1368:56:1999:-151.238,0,-94.8206 0/0:22:22,0:22:784:0:0:0,-6.62266,-70.8839 0/1:110:59,50:59:2077:50:1784:-126.444,0,-154.027 1/1:121:0,121:0:0:121:4332:-388.939,-36.4246,0 0/1:126:49,77:49:1694:77:2735:-208.335,0,-114.812 0/1:9:4,5:4:144:5:180:-13.824,0,-10.6043 0/0:6:6,0:6:197:0:0:0,-1.80618,-18.0513 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:54:27,27:27:936:27:960:-70.4012,0,-68.2974 0/1:128:64,64:64:2276:64:2278:-166.049,0,-166.571 0/1:186:104,82:104:3642:82:2925:-207.224,0,-271.997 0/1:35:9,26:9:320:26:927:-72.9725,0,-18.6063 0/0:31:31,0:31:1100:0:0:0,-9.33193,-99.3103 0/1:107:72,35:72:2542:35:1260:-81.2702,0,-196.819 0/1:64:48,16:48:1700:16:576:-32.7872,0,-134.02 0/0:67:66,1:66:2321:1:36:0,-16.5758,-205.557 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 chr10 453907 . G A 12202.8 PASS AB=0.496014;ABP=3.16609;AC=15;AF=0.357143;AN=42;AO=685;CIGAR=1X;DP=1534;DPB=1534;DPRA=3.82004;EPP=1404.88;EPPR=1769.25;GTI=1;LEN=1;MEANALT=1;MQM=55.0803;MQMR=59.9847;NS=21;NUMALT=1;ODDS=0.816754;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24159;QR=30215;RO=849;RPL=8;RPP=1421.79;RPPR=1786.29;RPR=677;RUN=1;SAF=683;SAP=1473.15;SAR=2;SRF=847;SRP=1829.26;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:26,34:26:919:34:1201:-90.254,0,-64.9644 0/1:80:35,45:35:1252:45:1608:-120.768,0,-88.8912 0/0:99:98,1:98:3508:1:36:0,-26.2063,-312.335 0/1:99:47,52:47:1680:52:1856:-137.392,0,-121.685 0/1:94:37,57:37:1332:57:2009:-151.769,0,-91.8856 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/1:107:61,46:61:2162:46:1629:-113.488,0,-162.633 1/1:123:0,123:0:0:123:4336:-389.332,-37.0267,0 0/1:121:48,73:48:1701:73:2597:-197.32,0,-116.949 0/1:9:4,5:4:144:5:165:-12.4501,0,-10.6043 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:54:27,27:27:964:27:938:-68.4153,0,-70.8212 0/1:121:60,61:60:2129:61:2102:-152.499,0,-155.452 0/1:188:102,86:102:3622:86:3043:-217.227,0,-269.591 0/1:31:7,24:7:252:24:841:-66.5676,0,-13.697 0/0:31:31,0:31:1089:0:0:0,-9.33193,-98.3173 0/1:106:73,33:73:2597:33:1150:-71.6935,0,-202.068 0/1:59:42,17:42:1497:17:612:-37.5285,0,-117.262 0/0:67:66,1:66:2334:1:36:0,-16.5758,-206.724 0/0:47:47,0:47:1669:0:0:0,-14.1484,-150.495 chr10 532287 . A G 20325 PASS AB=0.437113;ABP=86.3098;AC=14;AF=0.333333;AN=42;AO=1211;CIGAR=1X;DP=3553;DPB=3553;DPRA=1.86306;EPP=2632.66;EPPR=5084.26;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.4368;MQMR=59.4406;NS=21;NUMALT=1;ODDS=12.119;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43242;QR=83423;RO=2340;RPL=0;RPP=2632.66;RPPR=5084.26;RPR=1211;RUN=1;SAF=1211;SAP=2632.66;SAR=0;SRF=2340;SRP=5084.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:218:142,76:142:5013:76:2690:-176.624,0,-385.454 0/1:156:100,56:100:3547:56:1982:-131.682,0,-272.434 0/0:154:152,2:152:5403:2:72:0,-39.5219,-479.204 0/1:105:72,33:72:2565:33:1180:-74.8722,0,-199.439 0/1:339:175,164:175:6284:164:5892:-428.302,0,-463.117 0/0:160:160,0:160:5684:0:0:0,-48.1648,-511.315 0/1:311:174,137:174:6230:137:4890:-346.195,0,-467.016 1/1:146:0,146:0:0:146:5204:-467.249,-43.9504,0 0/1:335:170,164:170:6051:164:5849:-425.755,0,-443.929 0/1:30:18,12:18:633:12:432:-30.1903,0,-48.2642 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:96:96,0:96:3452:0:0:0,-28.8989,-310.616 0/0:183:183,0:183:6519:0:0:0,-55.0885,-586.783 0/1:179:91,88:91:3208:88:3152:-229.904,0,-235.043 0/1:411:211,199:211:7539:199:7107:-515.848,0,-554.543 0/1:109:62,47:62:2205:47:1668:-117.569,0,-164.903 0/0:100:100,0:100:3573:0:0:0,-30.103,-321.651 0/1:134:75,59:75:2696:59:2120:-150.669,0,-200.963 0/1:98:73,25:73:2609:25:896:-51.4547,0,-205.541 0/0:200:197,3:197:7012:3:108:0,-50.1308,-620.766 0/0:79:79,0:79:2840:0:0:0,-23.7814,-255.511 chr10 532313 . AGAA TAAG,TAAA 73096.7 PASS AB=0.559246,0.438294;ABP=77.3701,83.6735;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2347,1221;CIGAR=2X1M1X,2X2M;DP=3576;DPB=3577.75;DPRA=1.16633,1.70101;EPP=5082.1,2637.03;EPPR=0;GTI=0;LEN=4,2;MEANALT=2,2.25;MQM=59.4542,59.4341;MQMR=0;NS=21;NUMALT=2;ODDS=11.7526;PAIRED=0,0;PAIREDR=0;PAO=2,2.5;PQA=68,54;PQR=54;PRO=2.5;QA=82743,42624;QR=0;RO=0;RPL=2345,1219;RPP=5082.1,2637.03;RPPR=0;RPR=2,2;RUN=1,1;SAF=2347,1221;SAP=5099.46,2654.38;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:220:0,142,78:0:0:142,78:5024,2693:-628.246,-219.038,-176.292,-409.556,0,-386.076 1/2:157:0,100,57:0:0:100,57:3546,1989:-450.621,-161.766,-131.663,-288.866,0,-271.707 1/1:154:0,152,2:0:0:152,2:5346,72:-480.611,-45.7566,0,-474.736,-39.5219,-474.134 1/2:106:0,73,33:0:0:73,33:2540,1162:-301.337,-94.8605,-72.8853,-206.769,0,-196.835 1/2:347:0,175,168:0:0:175,168:6195,5822:-977.614,-473.173,-420.493,-504.454,0,-453.881 1/1:161:0,161,0:0:0:161,0:5691,0:-512.163,-48.4658,0,-512.163,-48.4658,-512.163 1/2:312:0,175,136:0:0:175,136:6177,4712:-885.482,-382.581,-329.901,-502.89,0,-461.95 2/2:147:0,0,146:0:0:0,146:0,5119:-460.042,-460.042,-460.042,-43.9504,-43.9504,0 1/2:337:0,171,166:0:0:171,166:6012,5828:-964.017,-474.655,-423.179,-489.713,0,-439.742 1/2:30:0,18,12:0:0:18,12:628,395:-83.3429,-32.2535,-26.8349,-51.4263,0,-47.8139 1/1:10:0,10,0:0:0:10,0:358,0:-32.5629,-3.0103,0,-32.5629,-3.0103,-32.5629 1/1:96:0,95,0:0:0:95,0:3375,0:-303.472,-28.5979,0,-303.472,-28.5979,-303.472 1/1:185:0,185,0:0:0:185,0:6509,0:-585.895,-55.6906,0,-585.895,-55.6906,-585.895 1/2:178:0,89,88:0:0:89,88:3113,3039:-500.125,-246.872,-220.08,-253.261,0,-226.77 1/2:409:0,210,199:0:0:210,199:7412,7040:-1177.18,-573.719,-510.503,-603.81,0,-543.905 1/2:110:0,63,47:0:0:63,47:2224,1629:-313.529,-132.738,-113.773,-181.14,0,-166.992 1/1:103:0,103,0:0:0:103,0:3588,0:-323.049,-31.0061,0,-323.049,-31.0061,-323.049 1/2:135:0,75,60:0:0:75,60:2658,2101:-387.067,-171.232,-148.655,-216.186,0,-198.125 1/2:98:0,73,25:0:0:73,25:2602,881:-284.164,-72.0767,-50.1015,-212.44,0,-204.915 1/1:200:0,197,3:0:0:197,3:6898,106:-620.308,-59.3029,0,-611.676,-50.3169,-610.772 1/1:81:0,80,1:0:0:80,1:2847,36:-255.781,-24.0824,0,-252.844,-20.7852,-252.543 chr10 532353 . A C,T 68677.4 PASS AB=0.54605,0.45395;ABP=42.4085,42.4085;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2161,1112;CIGAR=1X,1X;DP=3273;DPB=3273;DPRA=1.16222,1.5781;EPP=4643.59,2400.35;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.75,1.9375;MQM=59.186,59.3687;MQMR=0;NS=21;NUMALT=2;ODDS=17.3605;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77192,39115;QR=0;RO=0;RPL=2155,1111;RPP=4643.59,2409.01;RPPR=0;RPR=6,1;RUN=1,1;SAF=0,1;SAP=4695.56,2409.01;SAR=2161,1111;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:204:0,126,78:0:0:126,78:4499,2701:-586.231,-219.833,-181.904,-366.748,0,-343.268 1/2:190:0,111,79:0:0:111,79:3984,2767:-549.611,-225.48,-192.065,-324.484,0,-300.703 1/1:115:0,114,1:0:0:114,1:4071,36:-365.913,-34.3174,0,-362.976,-31.0202,-362.675 1/2:266:0,147,119:0:0:147,119:5254,4150:-766.066,-337.792,-293.54,-428.627,0,-392.804 1/2:263:0,148,115:0:0:148,115:5250,4097:-760.751,-334.226,-289.673,-426.881,0,-392.262 1/1:172:0,168,4:0:0:168,4:5990,144:-538.521,-50.573,0,-526.771,-38.4635,-525.567 1/2:189:0,84,105:0:0:84,105:3020,3707:-548.521,-302.17,-276.883,-246.708,0,-215.099 2/2:135:0,0,135:0:0:0,135:0,4744:-427.05,-427.05,-427.05,-40.6391,-40.6391,0 1/2:217:0,98,119:0:0:98,119:3512,4175:-625.713,-339.79,-310.289,-286.277,0,-250.455 1/2:51:0,28,23:0:0:28,23:1004,824:-149.351,-67.5587,-59.1299,-82.1501,0,-75.2265 1/1:17:0,17,0:0:0:17,0:608,0:-55.052,-5.11751,0,-55.052,-5.11751,-55.052 1/1:55:0,55,0:0:0:55,0:1967,0:-177.004,-16.5567,0,-177.004,-16.5567,-177.004 1/1:238:0,238,0:0:0:238,0:8531,0:-767.15,-71.6451,0,-767.15,-71.6451,-767.15 1/2:219:0,119,100:0:0:119,100:4197,3506:-626.657,-285.112,-249.289,-341.895,0,-311.792 1/2:189:0,103,86:0:0:103,86:3692,3052:-549.967,-248.989,-217.983,-301.334,0,-275.446 1/2:155:0,72,83:0:0:72,83:2583,2932:-449.073,-238.84,-217.166,-210.589,0,-185.603 1/1:148:0,148,0:0:0:148,0:5277,0:-474.989,-44.5524,0,-474.989,-44.5524,-474.989 1/2:98:0,56,42:0:0:56,42:1995,1488:-283.933,-121.322,-104.465,-162.966,0,-150.322 1/2:98:0,76,22:0:0:76,22:2706,756:-282.011,-61.6971,-38.8188,-220.66,0,-214.038 1/1:171:0,170,1:0:0:170,1:6089,36:-546.4,-51.1751,0,-543.463,-47.8779,-543.162 1/1:83:0,83,0:0:0:83,0:2963,0:-266.603,-24.9855,0,-266.603,-24.9855,-266.603 chr10 562609 . GGCG CGCA 3014.3 PASS AB=0.419183;ABP=34.9498;AC=14;AF=0.333333;AN=42;AO=250;CIGAR=1X2M1X;DP=865;DPB=865;DPRA=1.23291;EPP=545.878;EPPR=1334.12;GTI=1;LEN=4;MEANALT=1.07692;MQM=26.656;MQMR=47.4519;NS=21;NUMALT=1;ODDS=1.68815;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8807;QR=21373;RO=613;RPL=89;RPP=48.038;RPPR=4.2891;RPR=161;RUN=1;SAF=89;SAP=48.038;SAR=161;SRF=316;SRP=4.2891;SRR=297;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:14,17:14:484:17:594:-24.8088,0,-33.9856 0/1:24:15,9:15:519:9:323:-14.4825,0,-39.3239 0/0:24:24,0:24:836:0:0:0,-7.22472,-74.7588 0/1:40:20,20:20:696:20:712:-36.4599,0,-50.0201 0/1:51:29,22:29:1017:22:774:-34.7917,0,-74.9929 0/0:44:43,0:43:1503:0:0:0,-12.9443,-131.555 0/1:33:22,10:22:757:10:356:-14.0811,0,-57.2709 1/1:14:0,14:0:0:14:492:-34.7129,-4.21442,0 0/1:58:24,34:24:840:34:1199:-68.1958,0,-57.4311 0/1:5:4,1:4:135:1:33:-1.24947,0,-10.83 0/0:4:4,0:4:137:0:0:0,-1.20412,-12.3858 0/0:14:14,0:14:500:0:0:0,-4.21442,-44.7651 0/0:66:66,0:66:2311:0:0:0,-19.868,-204.962 0/1:42:22,20:22:769:20:705:-28.6695,0,-55.9216 0/1:66:31,35:31:1066:35:1232:-57.397,0,-75.1297 0/1:22:11,11:11:378:11:385:-19.8669,0,-27.3724 0/0:18:18,0:18:628:0:0:0,-5.41854,-55.8969 0/1:84:57,27:57:1993:27:946:-42.648,0,-152.43 0/1:107:77,30:77:2711:30:1056:-34.8937,0,-208.498 0/0:23:23,0:23:818:0:0:0,-6.92369,-72.1157 0/0:95:95,0:95:3275:0:0:0,-28.5978,-286.42 chr10 562744 . G A 21153 PASS AB=0.518677;ABP=8.68811;AC=14;AF=0.333333;AN=42;AO=1091;CIGAR=1X;DP=2938;DPB=2938;DPRA=1.03667;EPP=1887.33;EPPR=2895.12;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.0458;MQMR=59.8722;NS=21;NUMALT=1;ODDS=15.6562;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38982;QR=65921;RO=1846;RPL=1032;RPP=1887.33;RPPR=2895.12;RPR=59;RUN=1;SAF=0;SAP=2372.09;SAR=1091;SRF=0;SRP=4011.55;SRR=1846;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:49,37:49:1760:37:1324:-93.5327,0,-132.42 0/1:50:19,31:19:684:31:1097:-83.959,0,-46.8388 0/0:95:95,0:95:3377:0:0:0,-28.5978,-304.146 0/1:58:24,34:24:864:34:1216:-92.2424,0,-60.6224 0/1:95:44,51:44:1575:51:1800:-132.993,0,-113.441 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.028 0/1:116:47,69:47:1684:69:2468:-187.273,0,-116.91 1/1:114:0,114:0:0:114:4065:-365.69,-34.3174,0 0/1:128:55,73:55:1963:73:2611:-196.6,0,-138.409 0/1:374:203,171:203:7246:171:6112:-437.322,0,-539.6 0/0:297:297,0:297:10626:0:0:0,-89.4059,-956.224 0/0:256:256,0:256:9145:0:0:0,-77.0637,-823.006 0/0:86:82,3:82:2935:3:108:0,-15.8738,-254.306 0/1:64:29,35:29:1035:35:1237:-92.3503,0,-74.1971 0/1:208:86,122:86:3075:122:4344:-327.963,0,-214.364 0/1:57:31,26:31:1104:26:928:-66.6761,0,-82.5073 0/0:46:44,2:44:1542:2:72:0,-7.01161,-132.234 0/1:547:256,291:256:9146:291:10456:-775.678,0,-658.435 0/1:91:59,32:59:2099:32:1144:-75.5889,0,-161.653 0/0:56:56,0:56:1999:0:0:0,-16.8577,-180.183 0/0:52:52,0:52:1842:0:0:0,-15.6536,-166.059 chr10 620764 . A T 20444.2 PASS AB=0.503576;ABP=3.19665;AC=14;AF=0.333333;AN=42;AO=1083;CIGAR=1X;DP=2669;DPB=2669;DPRA=1.7131;EPP=2175.85;EPPR=3059;GTI=1;LEN=1;MEANALT=1;MQM=59.0563;MQMR=59.7465;NS=21;NUMALT=1;ODDS=9.5197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38631;QR=56287;RO=1586;RPL=21;RPP=2175.85;RPPR=3059;RPR=1062;RUN=1;SAF=1083;SAP=2354.71;SAR=0;SRF=1586;SRP=3446.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:61,59:61:2180:59:2116:-154.583,0,-160.343 0/1:120:66,54:66:2356:54:1921:-136.901,0,-176.159 0/0:151:150,1:150:5318:1:36:0,-41.8598,-475.161 0/1:147:66,81:66:2368:81:2878:-214.946,0,-168.948 0/1:270:133,137:133:4733:137:4912:-360.435,0,-343.577 0/0:165:165,0:165:5854:0:0:0,-49.6699,-526.934 0/1:181:87,94:87:3073:94:3338:-245.967,0,-222.283 1/1:237:0,237:0:0:237:8456:-759.29,-71.3441,0 0/1:240:129,111:129:4534:111:3984:-286.323,0,-335.848 0/1:20:8,12:8:280:12:424:-32.4306,0,-19.5187 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 0/0:147:147,0:147:5221:0:0:0,-44.2514,-469.375 0/1:165:75,90:75:2634:90:3150:-233.022,0,-187.265 0/1:170:92,78:92:3272:78:2788:-199.968,0,-243.525 0/1:95:38,57:38:1340:57:2044:-155.598,0,-92.2906 0/0:122:122,0:122:4311:0:0:0,-36.7257,-388.163 0/1:103:44,59:44:1572:59:2116:-159.475,0,-110.538 0/1:47:34,13:34:1216:13:468:-28.303,0,-95.5982 0/0:88:88,0:88:3121:0:0:0,-26.4906,-280.974 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 chr10 629732 . TG CG,CA 29549 PASS AB=0.497286,0.501629;ABP=3.06924,3.03152;AC=28,14;AF=0.666667,0.333333;AN=42;AO=835,578;CIGAR=1X1M,2X;DP=1414;DPB=1414;DPRA=0.58125,2.44922;EPP=1816.19,1258.12;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.8,2;MQM=59.9353,59.7042;MQMR=0;NS=21;NUMALT=2;ODDS=1.09028;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29925,20574;QR=0;RO=0;RPL=0,0;RPP=1816.19,1258.12;RPPR=0;RPR=835,578;RUN=1,1;SAF=835,578;SAP=1816.19,1258.12;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:46:0,26,20:0:0:26,20:936,694:-133.12,-56.7398,-48.913,-76.7327,0,-70.7121 1/2:43:0,22,21:0:0:22,21:787,752:-125.859,-61.6848,-55.0622,-64.532,0,-58.2104 1/1:114:0,113,1:0:0:113,1:4060,36:-365.224,-34.0164,0,-362.293,-30.726,-361.992 1/2:46:0,19,27:0:0:19,27:673,937:-131.33,-76.5053,-70.7857,-55.1755,0,-47.0477 1/2:115:0,68,47:0:0:68,47:2430,1690:-336.359,-138.232,-117.762,-198.486,0,-184.337 1/1:30:0,30,0:0:0:30,0:1076,0:-97.1529,-9.0309,0,-97.1529,-9.0309,-97.1529 1/2:75:0,49,26:0:0:49,26:1744,924:-217.719,-75.5807,-60.8302,-142.494,0,-134.667 2/2:112:0,0,112:0:0:0,112:0,3959:-356.391,-356.391,-356.391,-33.7154,-33.7154,0 1/2:134:0,63,71:0:0:63,71:2260,2544:-392.174,-207.836,-188.871,-184.696,0,-163.323 1/2:23:0,12,11:0:0:12,11:432,396:-67.9204,-32.6714,-29.0591,-35.6088,0,-32.2975 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/1:44:0,44,0:0:0:44,0:1584,0:-142.852,-13.2453,0,-142.852,-13.2453,-142.852 1/1:61:0,60,1:0:0:60,1:2156,36:-193.946,-18.0618,0,-191.009,-14.7646,-190.708 1/2:49:0,23,26:0:0:23,26:828,911:-142.024,-74.4592,-67.5355,-67.92,0,-60.0932 1/2:99:0,45,54:0:0:45,54:1614,1933:-289.357,-157.983,-144.437,-131.732,0,-115.476 1/2:49:0,18,31:0:0:18,31:640,1099:-142.043,-89.8869,-84.4684,-52.5108,0,-43.1788 1/1:39:0,39,0:0:0:39,0:1404,0:-126.659,-11.7402,0,-126.659,-11.7402,-126.659 1/2:183:0,72,110:0:0:72,110:2566,3943:-530.736,-321.578,-299.904,-209.156,0,-176.042 1/2:59:0,41,18:0:0:41,18:1476,648:-173.667,-53.2333,-40.8911,-120.794,0,-115.375 1/1:40:0,40,0:0:0:40,0:1436,0:-129.537,-12.0412,0,-129.537,-12.0412,-129.537 1/1:46:0,44,2:0:0:44,2:1575,72:-141.681,-13.2453,0,-135.806,-7.01066,-135.204 chr10 684907 . G T 14652.2 PASS AB=0.513878;ABP=5.11978;AC=14;AF=0.333333;AN=42;AO=820;CIGAR=1X;DP=1962;DPB=1962;DPRA=1.62798;EPP=1783.62;EPPR=2480.66;GTI=1;LEN=1;MEANALT=1.07143;MQM=56.2622;MQMR=59.9667;NS=21;NUMALT=1;ODDS=7.55818;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29149;QR=40815;RO=1141;RPL=0;RPP=1783.62;RPPR=2480.66;RPR=820;RUN=1;SAF=820;SAP=1783.62;SAR=0;SRF=1141;SRP=2480.66;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:76,135:76:2713:135:4808:-368.777,0,-180.895 0/1:62:34,28:34:1201:28:1004:-71.8232,0,-89.7298 0/0:99:99,0:99:3541:0:0:0,-29.802,-318.897 0/1:95:61,33:61:2180:33:1160:-75.904,0,-167.81 0/1:143:66,77:66:2364:77:2704:-200.095,0,-169.971 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/1:97:43,54:43:1532:54:1916:-142.743,0,-108.973 1/1:171:0,171:0:0:171:6057:-544.05,-51.4761,0 0/1:139:79,60:79:2817:60:2144:-151.14,0,-211.922 0/1:13:7,6:7:252:6:212:-15.4353,0,-19.1156 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1513 0/0:121:121,0:121:4317:0:0:0,-36.4246,-388.703 0/1:105:54,51:54:1925:51:1832:-133.281,0,-141.917 0/1:129:49,80:49:1764:80:2860:-218.46,0,-120.211 0/1:65:33,32:33:1184:32:1128:-82.1398,0,-87.3014 0/0:100:100,0:100:3600:0:0:0,-30.103,-324.204 0/1:159:77,82:77:2748:82:2932:-215.921,0,-199.67 0/1:43:33,10:33:1184:10:356:-19.4171,0,-93.924 0/0:69:68,1:68:2429:1:36:0,-17.1745,-215.267 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 chr10 684928 . ATT GTT,GTC 41614.8 PASS AB=0.477717,0.519156;ABP=8.52642,7.08669;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1131,838;CIGAR=1X2M,1X1M1X;DP=1977;DPB=1977;DPRA=0.514857,1.67731;EPP=2364.33,1770.96;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.9,2.35714;MQM=59.9664,56.2482;MQMR=60;NS=21;NUMALT=2;ODDS=9.16373;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40373,29452;QR=34;RO=1;RPL=11,6;RPP=2364.33,1770.96;RPPR=5.18177;RPR=1120,832;RUN=1,1;SAF=1131,838;SAP=2458.95,1822.7;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:216:0,77,138:0:0:77,138:2739,4795:-612.494,-389.273,-366.094,-223.312,0,-181.77 1/2:63:0,34,28:0:0:34,28:1211,988:-179.044,-80.3364,-70.1014,-98.7784,0,-90.3496 1/1:99:0,98,0:0:0:98,0:3477,0:-312.781,-29.5009,0,-312.781,-29.5009,-312.781 1/2:92:0,57,34:0:0:57,34:2048,1199:-264.657,-97.5775,-80.4188,-167.181,0,-156.946 1/2:145:0,66,79:0:0:66,79:2349,2793:-418.915,-227.47,-207.602,-191.8,0,-168.018 1/1:68:1,67,0:1:34:67,0:2408,0:-213.577,-17.0711,0,-213.878,-20.169,-216.636 1/2:99:0,43,55:0:0:43,55:1509,1949:-281.611,-158.807,-145.863,-122.9,0,-106.344 2/2:175:0,0,173:0:0:0,173:0,6073:-545.596,-545.596,-545.596,-52.0782,-52.0782,0 1/2:140:0,80,60:0:0:80,60:2856,2108:-404.578,-171.738,-147.655,-233.194,0,-215.132 1/2:13:0,7,6:0:0:7,6:252,208:-37.7451,-17.1752,-15.068,-20.9217,0,-19.1156 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:31:0,31,0:0:0:31,0:1111,0:-100.301,-9.33193,0,-100.301,-9.33193,-100.301 1/1:117:0,117,0:0:0:117,0:4156,0:-374.223,-35.2205,0,-374.223,-35.2205,-374.223 1/2:105:0,53,52:0:0:53,52:1893,1845:-304.746,-150.41,-134.455,-154.692,0,-139.038 1/2:133:0,49,84:0:0:49,84:1760,2924:-381.414,-237.835,-223.085,-143.933,0,-118.647 1/2:64:0,32,32:0:0:32,32:1148,1125:-185.396,-91.7541,-82.1211,-93.9969,0,-84.3639 1/1:101:0,101,0:0:0:101,0:3612,0:-325.285,-30.404,0,-325.285,-30.404,-325.285 1/2:165:0,80,85:0:0:80,85:2860,3021:-479.34,-246.146,-222.063,-233.55,0,-207.963 1/2:44:0,33,11:0:0:33,11:1180,388:-128.058,-31.8373,-21.9034,-96.5741,0,-93.2627 1/1:69:0,68,1:0:0:68,1:2436,36:-219.136,-20.47,0,-216.2,-17.1745,-215.899 1/1:32:0,32,0:0:0:32,0:1152,0:-103.99,-9.63296,0,-103.99,-9.63296,-103.99 chr10 707043 . AG GA,GG 20827 PASS AB=0.383193,0.613445;ABP=73.5229,69.523;AC=28,14;AF=0.666667,0.333333;AN=42;AO=558,450;CIGAR=2X,1X1M;DP=1010;DPB=1010;DPRA=0.565854,0.960181;EPP=1214.69,980.173;EPPR=0;GTI=2;LEN=2,1;MEANALT=1.85,2.0625;MQM=48.5376,59.4333;MQMR=0;NS=21;NUMALT=2;ODDS=0.0247305;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19719,16059;QR=0;RO=0;RPL=558,450;RPP=1214.69,980.173;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1214.69,980.173;SAR=558,450;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:31:0,9,22:0:0:9,22:324,784:-90.5867,-64.2613,-61.552,-26.6832,0,-20.0606 1/2:50:0,16,34:0:0:16,34:546,1216:-143.212,-99.4416,-94.6251,-44.1142,0,-33.8791 1/1:27:0,27,0:0:0:27,0:966,0:-86.8836,-8.12781,0,-86.8836,-8.12781,-86.8836 1/2:49:0,17,32:0:0:17,32:588,1148:-141.487,-93.9603,-88.8428,-47.8755,0,-38.2425 1/2:34:0,13,21:0:0:13,21:462,752:-99.1626,-61.6678,-57.7544,-37.8503,0,-31.5286 1/1:19:0,18,1:0:0:18,1:648,36:-57.6118,-5.41854,0,-54.6742,-2.1213,-54.3731 1/2:69:0,21,48:0:0:21,48:746,1712:-198.499,-139.879,-133.558,-58.9669,0,-44.5175 2/2:82:0,0,82:0:0:0,82:0,2920:-263.011,-263.011,-263.011,-24.6845,-24.6845,0 1/2:93:0,33,60:0:0:33,60:1143,2138:-267.205,-174.561,-164.627,-92.9932,0,-74.9314 1/2:4:0,2,2:0:0:2,2:72,72:-12.0635,-6.23466,-5.6326,-6.18746,0,-5.5854 1/1:5:0,5,0:0:0:5,0:180,0:-16.3696,-1.50515,0,-16.3696,-1.50515,-16.3696 1/1:27:0,27,0:0:0:27,0:957,0:-85.8703,-8.12781,0,-85.8703,-8.12781,-85.8703 1/1:110:0,110,0:0:0:110,0:3892,0:-347.636,-33.1133,0,-347.636,-33.1133,-347.636 1/2:67:0,25,41:0:0:25,41:872,1468:-189.833,-119.733,-112.207,-70.1103,0,-57.7681 1/2:47:0,18,28:0:0:18,28:633,1000:-132.663,-81.4764,-76.0579,-51.1795,0,-42.7507 1/2:12:0,2,10:0:0:2,10:61,358:-34.1427,-29.2797,-28.6777,-5.17554,0,-2.16524 1/1:24:0,23,1:0:0:23,1:806,36:-72.1422,-6.92369,0,-69.2043,-3.62645,-68.9032 1/2:85:0,39,46:0:0:39,46:1380,1635:-244.372,-133.299,-121.559,-111.425,0,-97.5779 1/2:54:0,33,21:0:0:33,21:1173,748:-156.429,-61.3221,-51.3881,-95.4622,0,-89.1405 1/1:79:0,79,0:0:0:79,0:2822,0:-252.415,-23.7814,0,-252.415,-23.7814,-252.415 1/1:42:0,41,1:0:0:41,1:1448,36:-128.516,-12.3422,0,-125.578,-9.04499,-125.277 chr10 707071 . C A,G 55374.3 PASS AB=0.550691,0.448157;ABP=41.7566,43.5378;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1661,1003;CIGAR=1X,1X;DP=2666;DPB=2666;DPRA=0,1.92708;EPP=3609.83,2181;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.85714,2.125;MQM=50.5629,50.329;MQMR=0;NS=21;NUMALT=2;ODDS=9.64008;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59447,35778;QR=0;RO=0;RPL=0,0;RPP=3609.83,2181;RPPR=0;RPR=1661,1003;RUN=1,1;SAF=1661,1003;SAP=3609.83,2181;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:143:0,86,56:0:0:86,56:3092,2012:-412.54,-161.658,-135.769,-250.878,0,-234.021 1/2:114:0,67,46:0:0:67,46:2373,1656:-323.975,-132.928,-112.759,-191.043,0,-177.196 1/1:169:0,163,6:0:0:163,6:5841,208:-523.791,-49.0679,0,-506.925,-31.8548,-505.118 1/2:137:0,89,48:0:0:89,48:3177,1705:-396.206,-138.255,-111.464,-258.305,0,-243.855 1/2:217:0,119,98:0:0:119,98:4268,3477:-628.214,-281.985,-246.162,-346.584,0,-317.083 1/1:101:0,101,0:0:0:101,0:3575,0:-317.89,-30.404,0,-317.89,-30.404,-317.89 1/2:190:0,96,94:0:0:96,94:3448,3325:-545.019,-267.904,-239.005,-277.468,0,-249.171 2/2:217:0,1,216:0:0:1,216:36,7693:-686.664,-683.744,-683.443,-65.0225,-61.7447,0 1/2:236:0,130,106:0:0:130,106:4676,3792:-688.382,-308.814,-269.68,-379.925,0,-348.016 1/2:16:0,11,5:0:0:11,5:382,180:-45.3458,-14.9572,-11.6458,-30.7411,0,-29.2359 1/1:21:0,21,0:0:0:21,0:752,0:-67.0244,-6.32163,0,-67.0244,-6.32163,-67.0244 1/1:38:0,38,0:0:0:38,0:1356,0:-121.157,-11.4391,0,-121.157,-11.4391,-121.157 1/1:81:0,81,0:0:0:81,0:2912,0:-261.12,-24.3834,0,-261.12,-24.3834,-261.12 1/2:172:0,77,95:0:0:77,95:2733,3408:-498.538,-277.038,-253.859,-221.855,0,-193.257 1/2:206:0,118,88:0:0:118,88:4229,3151:-599.834,-256.179,-220.658,-344.011,0,-317.52 1/2:121:0,58,63:0:0:58,63:2084,2251:-352.42,-183.043,-165.584,-169.733,0,-150.769 1/1:131:0,131,0:0:0:131,0:4681,0:-420.595,-39.4349,0,-420.595,-39.4349,-420.595 1/2:113:0,58,55:0:0:58,55:2079,1948:-325.729,-158.019,-140.559,-168.063,0,-151.507 1/2:71:0,47,24:0:0:47,24:1692,864:-208.328,-70.6615,-56.5131,-138.025,0,-130.801 1/1:111:0,110,1:0:0:110,1:3941,36:-351.868,-33.1133,0,-348.948,-29.8356,-348.647 1/1:61:0,59,2:0:0:59,2:2120,72:-188.387,-17.7608,0,-182.569,-11.5859,-181.967 chr10 779725 . T C 33621 PASS AB=0.523958;ABP=11.0219;AC=28;AF=0.666667;AN=42;AO=1675;CIGAR=1X;DP=2532;DPB=2532;DPRA=1.35667;EPP=3640.23;EPPR=1861.79;GTI=0;LEN=1;MEANALT=1.05;MQM=54.4836;MQMR=59.5818;NS=21;NUMALT=1;ODDS=13.6063;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60040;QR=30692;RO=856;RPL=0;RPP=3640.23;RPPR=1861.79;RPR=1675;RUN=1;SAF=1675;SAP=3640.23;SAR=0;SRF=856;SRP=1861.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:71,55:71:2548:55:1980:-140.16,0,-191.552 0/1:72:47,25:47:1692:25:892:-58.2863,0,-130.854 1/1:119:0,119:0:0:119:4264:-382.542,-35.8226,0 0/1:233:96,137:96:3452:137:4913:-371.636,0,-240.688 0/1:207:106,101:106:3797:101:3613:-262.019,0,-279.515 1/1:130:0,130:0:0:130:4656:-416.55,-39.1339,0 0/1:191:101,90:101:3632:90:3216:-229.883,0,-269.356 0/0:90:90,0:90:3232:0:0:0,-27.0927,-291.087 0/1:198:79,119:79:2832:119:4264:-323.818,0,-195.509 0/1:10:4,6:4:144:6:216:-16.7521,0,-10.2986 1/1:12:0,12:0:0:12:432:-38.0183,-3.61236,0 1/1:58:0,58:0:0:58:2065:-185.855,-17.4597,0 1/1:189:0,189:0:0:189:6777:-609.216,-56.8947,0 0/1:166:64,102:64:2304:102:3663:-278.145,0,-157.563 0/1:154:93,60:93:3317:60:2152:-146.882,0,-252.308 0/1:124:47,77:47:1688:77:2760:-211.122,0,-114.877 1/1:152:0,152:0:0:152:5468:-490.793,-45.7566,0 0/1:57:32,25:32:1133:25:885:-62.697,0,-84.9835 0/1:69:24,45:24:849:45:1616:-124.584,0,-55.9402 1/1:110:2,108:2:72:108:3876:-341.198,-26.2766,0 1/1:65:0,65:0:0:65:2332:-207.319,-19.567,0 chr10 784109 . GTA ATA,ATT 61167.8 PASS AB=0.462041,0.53645;ABP=27.9031,25.9641;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1697,1243;CIGAR=1X2M,1X1M1X;DP=2945;DPB=2945;DPRA=0.806105,1.65398;EPP=3688,2702.15;EPPR=7.35324;GTI=1;LEN=1,3;MEANALT=1.85,2.125;MQM=59.6924,54.5165;MQMR=60;NS=21;NUMALT=2;ODDS=11.9129;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60801,44059;QR=72;RO=2;RPL=0,0;RPP=3688,2702.15;RPPR=7.35324;RPR=1697,1243;RUN=1,1;SAF=0,0;SAP=3688,2702.15;SAR=1697,1243;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:178:0,53,125:0:0:53,125:1900,4403:-513.097,-358.218,-342.264,-155.235,0,-117.606 1/2:183:0,80,103:0:0:80,103:2863,3662:-530.7,-297.247,-273.165,-233.809,0,-202.803 1/1:180:0,180,0:0:0:180,0:6460,0:-581.462,-54.1854,0,-581.462,-54.1854,-581.462 1/2:112:0,42,70:0:0:42,70:1504,2452:-321.843,-199.187,-186.544,-123.01,0,-101.938 1/2:223:0,105,118:0:0:105,118:3772,4173:-647.087,-339.65,-308.042,-307.793,0,-272.271 1/1:142:0,139,3:0:0:139,3:4974,108:-447.389,-41.8432,0,-438.601,-32.6964,-437.698 1/2:173:0,94,79:0:0:94,79:3355,2803:-501.143,-227.662,-199.365,-273.836,0,-250.054 2/2:172:0,0,171:0:0:0,171:0,6089:-545.624,-545.624,-545.624,-51.4761,-51.4761,0 1/2:304:0,165,139:0:0:165,139:5916,4904:-881.693,-399.176,-349.506,-482.872,0,-441.029 1/2:23:0,11,12:0:0:11,12:388,430:-66.9649,-35.3738,-32.0625,-31.946,0,-28.3337 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:35:0,35,0:0:0:35,0:1251,0:-112.89,-10.5361,0,-112.89,-10.5361,-112.89 1/1:154:0,154,0:0:0:154,0:5528,0:-497.465,-46.3586,0,-497.465,-46.3586,-497.465 1/2:169:0,68,100:0:0:68,100:2431,3550:-485.093,-286.878,-266.408,-198.26,0,-168.157 1/2:264:0,121,142:0:0:121,142:4326,5066:-764.642,-412.28,-375.855,-352.369,0,-309.623 1/2:166:0,81,85:0:0:81,85:2897,3008:-481.034,-244.809,-220.426,-236.58,0,-210.992 1/1:102:0,101,1:0:0:101,1:3622,28:-325.903,-30.404,0,-323.685,-27.9054,-323.384 1/2:119:0,53,66:0:0:53,66:1904,2356:-347.147,-191.864,-175.909,-155.641,0,-135.773 1/2:75:1,46,28:1:36:46,28:1656,991:-212.384,-77.6533,-66.7436,-132.091,0,-126.599 1/1:72:0,71,1:0:0:71,1:2544,36:-228.847,-21.3731,0,-225.914,-18.081,-225.613 1/1:91:1,90,0:1:36:90,0:3222,0:-286.553,-23.7955,0,-286.854,-27.0927,-289.791 chr10 784142 . ATG CTT,CTA 60426 PASS AB=0.464873,0.529646;ABP=24.5205,18.3318;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1724,1239;CIGAR=1X1M1X,1X1M1X;DP=2976;DPB=2976.33;DPRA=0.815116,1.65241;EPP=3746.63,2693.46;EPPR=5.18177;GTI=1;LEN=3,3;MEANALT=2.1,2.46667;MQM=59.6206,54.527;MQMR=60;NS=21;NUMALT=2;ODDS=13.1255;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=61059,43153;QR=27;RO=1;RPL=1724,1239;RPP=3746.63,2693.46;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3746.63,2693.46;SAR=1724,1239;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:179:0,54,125:0:0:54,125:1936,4376:-513.41,-355.593,-339.338,-158.173,0,-120.544 1/2:185:0,81,104:0:0:81,104:2880,3616:-527.798,-293.109,-268.726,-235.04,0,-203.733 1/1:181:0,181,0:0:0:181,0:6424,0:-578.235,-54.4864,0,-578.235,-54.4864,-578.235 1/2:111:0,43,68:0:0:43,68:1535,2355:-315.268,-190.121,-177.177,-125.44,0,-104.97 1/2:227:0,109,118:0:0:109,118:3857,4129:-649.211,-335.282,-302.47,-314.28,0,-278.759 1/1:144:0,140,3:0:0:140,3:4981,100:-447.872,-42.1442,0,-439.797,-34.0887,-438.894 1/2:174:0,94,78:0:0:94,78:3289,2732:-488.89,-221.339,-193.042,-267.542,0,-244.061 2/2:172:0,0,172:0:0:0,172:0,5957:-534.089,-534.089,-534.089,-51.7772,-51.7772,0 1/2:305:0,162,139:0:0:162,139:5731,4883:-863.784,-396.991,-348.225,-466.786,0,-424.942 1/2:23:0,11,12:0:0:11,12:379,416:-64.8985,-34.1142,-30.8029,-31.1295,0,-27.5172 1/1:8:0,8,0:0:0:8,0:284,0:-25.9036,-2.40824,0,-25.9036,-2.40824,-25.9036 1/1:35:0,35,0:0:0:35,0:1248,0:-112.62,-10.5361,0,-112.62,-10.5361,-112.62 1/1:158:0,158,0:0:0:158,0:5589,0:-502.771,-47.5627,0,-502.771,-47.5627,-502.771 1/2:174:0,71,99:0:0:71,99:2448,3360:-469.868,-271.12,-249.747,-198.755,0,-168.953 1/2:264:0,122,142:0:0:122,142:4309,4994:-756.645,-406.182,-369.456,-350.815,0,-308.069 1/2:170:0,85,85:0:0:85,85:3027,2937:-485.524,-238.801,-213.214,-247.074,0,-221.486 1/1:105:0,105,0:0:0:105,0:3700,0:-333.205,-31.6082,0,-333.205,-31.6082,-333.205 1/2:121:0,55,65:0:0:55,65:1972,2280:-345.733,-184.931,-168.374,-160.797,0,-141.23 1/2:74:0,46,28:0:0:46,28:1642,990:-214.534,-80.76,-66.9127,-134.128,0,-125.699 1/1:73:0,72,1:0:0:72,1:2556,28:-230.006,-21.6742,0,-227.789,-19.1763,-227.488 1/1:93:1,92,0:1:27:92,0:3272,0:-291.953,-25.296,0,-292.254,-27.6948,-294.382 chr10 785363 . C T 22985.2 PASS AB=0.439687;ABP=71.6376;AC=14;AF=0.333333;AN=42;AO=1300;CIGAR=1X;DP=3396;DPB=3396;DPRA=1.80162;EPP=2825.92;EPPR=4552.24;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9838;MQMR=60;NS=21;NUMALT=1;ODDS=6.91058;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46361;QR=75010;RO=2095;RPL=0;RPP=2825.92;RPPR=4552.24;RPR=1300;RUN=1;SAF=1300;SAP=2825.92;SAR=0;SRF=2095;SRP=4552.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:210:121,89:121:4336:89:3181:-223.296,0,-327.199 0/1:84:54,30:54:1932:30:1080:-72.2267,0,-148.87 0/0:130:127,3:127:4544:3:108:0,-29.0587,-399.052 0/1:125:69,56:69:2461:56:2008:-143.365,0,-184.114 0/1:256:111,145:111:3984:145:5157:-387.209,0,-281.686 0/0:163:163,0:163:5841:0:0:0,-49.0679,-525.799 0/1:272:173,99:173:6181:99:3522:-235.308,0,-474.507 1/1:339:0,338:0:0:338:11989:-1078.51,-101.748,0 0/1:292:166,126:166:5964:126:4516:-318.707,0,-448.963 0/1:44:22,22:22:788:22:792:-58.3604,0,-57.9995 0/0:24:24,0:24:848:0:0:0,-7.22472,-76.6397 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/0:219:219,0:219:7828:0:0:0,-65.9256,-704.55 0/1:166:99,67:99:3532:67:2388:-165.207,0,-268.119 0/1:246:124,122:124:4456:122:4332:-315.983,0,-327.155 0/1:142:97,45:97:3476:45:1616:-102.984,0,-270.305 0/0:99:99,0:99:3552:0:0:0,-29.802,-319.888 0/1:214:98,116:98:3520:116:4164:-310.521,0,-252.588 0/1:121:83,38:83:2968:38:1364:-86.6361,0,-230.929 0/0:138:134,4:134:4792:4:144:0,-28.2285,-418.123 0/0:71:71,0:71:2539:0:0:0,-21.3731,-228.76 chr10 785380 . A C 23695.6 PASS AB=0.446567;ABP=57.544;AC=14;AF=0.333333;AN=42;AO=1328;CIGAR=1X;DP=3422;DPB=3422;DPRA=3.07819;EPP=2860.73;EPPR=4506.71;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.9834;MQMR=60;NS=21;NUMALT=1;ODDS=7.08336;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47477;QR=74074;RO=2090;RPL=2;RPP=2869.38;RPPR=4506.71;RPR=1326;RUN=1;SAF=1327;SAP=2878.05;SAR=1;SRF=2090;SRP=4541.39;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:210:122,88:122:4275:88:3152:-220.689,0,-321.708 0/1:84:53,31:53:1904:31:1106:-74.5641,0,-146.351 0/0:124:121,3:121:4262:3:108:0,-27.2525,-373.679 0/1:132:71,61:71:2522:61:2184:-157.09,0,-187.493 0/1:264:113,151:113:4030:151:5400:-406.658,0,-283.414 0/0:164:162,2:162:5744:2:72:0,-42.5322,-510.239 0/1:268:168,97:168:5938:97:3462:-231.659,0,-454.393 1/1:336:0,336:0:0:336:11997:-1079.58,-101.146,0 0/1:296:165,131:165:5913:131:4680:-332.254,0,-443.171 0/1:43:20,23:20:701:23:820:-61.1782,0,-50.4674 0/0:27:27,0:27:919:0:0:0,-8.12781,-83.0147 0/0:42:42,0:42:1512:0:0:0,-12.6433,-136.375 0/0:218:217,1:217:7716:1:36:0,-62.0263,-690.875 0/1:171:104,67:104:3672:67:2388:-163.701,0,-279.204 0/1:250:124,126:124:4404:126:4505:-330.353,0,-321.271 0/1:141:96,45:96:3384:45:1615:-103.195,0,-262.327 0/0:102:101,0:101:3574:0:0:0,-30.404,-321.505 0/1:220:97,123:97:3462:123:4416:-331.384,0,-245.563 0/1:120:81,39:81:2866:39:1392:-89.4554,0,-222.052 0/0:138:134,4:134:4726:4:144:0,-28.2285,-412.182 0/0:72:72,0:72:2550:0:0:0,-21.6742,-229.748 chr10 785430 . 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T C 1397.24 PASS AB=0.32716;ABP=87.0811;AC=13;AF=0.309524;AN=42;AO=114;CIGAR=1X;DP=586;DPB=586;DPRA=0.994505;EPP=250.558;EPPR=1002.05;GTI=2;LEN=1;MEANALT=1;MQM=58.7807;MQMR=59.8199;NS=21;NUMALT=1;ODDS=1.51154;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4065;QR=16728;RO=472;RPL=114;RPP=250.558;RPPR=1002.05;RPR=0;RUN=1;SAF=0;SAP=250.558;SAR=114;SRF=0;SRP=1027.95;SRR=472;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:29,9:29:1025:9:320:-17.669,0,-81.0931 0/1:11:9,2:9:324:2:72:-3.52539,0,-26.1945 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.634 0/1:13:10,3:10:360:3:108:-6.16178,0,-28.8309 0/1:64:50,14:50:1800:14:500:-26.027,0,-143.013 0/0:24:24,0:24:822:0:0:0,-7.22472,-74.2909 0/1:27:17,10:17:608:10:360:-24.6165,0,-46.9242 1/1:6:0,6:0:0:6:216:-19.7858,-1.80618,0 0/1:48:30,18:30:1076:18:648:-44.1452,0,-82.6726 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:13:13,0:13:456:0:0:0,-3.91339,-41.3732 0/0:42:42,0:42:1474:0:0:0,-12.6433,-132.922 0/0:32:30,2:30:1045:2:64:0,-3.55621,-88.2249 0/1:43:28,15:28:992:15:540:-35.9637,0,-76.6501 0/1:27:14,13:14:492:13:468:-34.3318,0,-36.4845 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/1:19:6,13:6:212:13:455:-35.546,0,-13.7052 0/1:29:22,7:22:776:7:242:-13.3257,0,-61.4089 0/0:63:63,0:63:2237:0:0:0,-18.9649,-201.592 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 chr10 899287 . AGTCA GGTCA 16703.6 PASS AB=0.507059;ABP=3.37817;AC=27;AF=0.642857;AN=42;AO=843;CIGAR=1X4M;DP=1338;DPB=1338.4;DPRA=1.87843;EPP=1816.23;EPPR=1051.85;GTI=1;LEN=1;MEANALT=1.21053;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.81852;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=30056;QR=17146;RO=487;RPL=841;RPP=1816.23;RPPR=1051.85;RPR=2;RUN=1;SAF=843;SAP=1833.56;SAR=0;SRF=487;SRP=1060.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:44,51:44:1564:51:1823:-135.753,0,-112.453 0/1:117:70,46:70:2483:46:1624:-111.167,0,-188.444 1/1:43:2,41:2:72:41:1468:-125.579,-6.10757,0 0/1:102:60,42:60:2092:42:1497:-104.317,0,-157.844 0/1:128:60,67:60:2106:67:2376:-175.445,0,-151.159 1/1:60:0,59:0:0:59:2097:-188.637,-17.7608,0 0/1:84:39,45:39:1349:45:1612:-120.084,0,-96.4191 0/0:67:67,0:67:2349:0:0:0,-20.169,-211.67 0/1:46:22,24:22:780:24:841:-62.159,0,-56.6756 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/0:4:0,0:0:0:0:0:0,0,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:101:0,101:0:0:101:3621:-326.095,-30.404,0 0/1:60:27,33:27:960:33:1188:-89.1668,0,-68.6544 0/1:42:27,15:27:959:15:540:-36.2933,0,-73.9827 0/1:59:27,32:27:954:32:1148:-85.8691,0,-68.414 1/1:57:0,57:0:0:57:2021:-182.16,-17.1587,0 0/1:32:17,14:17:598:14:504:-36.0063,0,-44.4573 0/1:85:23,62:23:808:62:2224:-174.837,0,-47.4523 1/1:68:2,66:2:72:66:2359:-205.731,-13.6333,0 1/1:70:0,70:0:0:70:2469:-222.462,-21.0721,0 chr10 899317 . TAAC AAAA,GAAA 53794.5 PASS AB=0.488225,0.511775;ABP=5.10694,5.10694;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1598,1001;CIGAR=1X2M1X,1X2M1X;DP=2600;DPB=2600.75;DPRA=1.14266,1.70526;EPP=3464.34,2176.65;EPPR=0;GTI=1;LEN=4,4;MEANALT=1.7,2;MQM=59.4049,59.5455;MQMR=0;NS=21;NUMALT=2;ODDS=0.584293;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=56525,35220;QR=0;RO=0;RPL=3,2;RPP=3447.01,2159.32;RPPR=0;RPR=1595,999;RUN=1,1;SAF=2,2;SAP=3455.67,2159.32;SAR=1596,999;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,84,81:0:0:84,81:2964,2839:-472.645,-231.319,-206.033,-241.677,0,-217.294 1/2:208:0,104,104:0:0:104,104:3693,3662:-599.161,-298.406,-267.099,-301.108,0,-269.801 1/1:104:0,103,1:0:0:103,1:3647,36:-328.053,-31.0061,0,-325.116,-27.7088,-324.815 1/2:123:0,48,75:0:0:48,75:1707,2628:-353.289,-214.179,-199.729,-139.464,0,-116.887 1/2:168:0,91,77:0:0:91,77:3205,2713:-481.895,-221.198,-193.804,-261.049,0,-237.87 1/1:139:0,139,0:0:0:139,0:4876,0:-438.27,-41.8432,0,-438.27,-41.8432,-438.27 1/2:195:0,101,94:0:0:101,94:3583,3316:-562.11,-270.274,-239.87,-292.19,0,-263.893 2/2:109:0,0,108:0:0:0,108:0,3825:-343.852,-343.852,-343.852,-32.5112,-32.5112,0 1/2:227:0,103,124:0:0:103,124:3626,4341:-648.679,-353.54,-322.534,-295.49,0,-258.163 1/2:18:0,6,12:0:0:6,12:197,414:-49.8872,-33.9774,-32.1712,-16.2435,0,-12.6312 1/1:10:0,10,0:0:0:10,0:359,0:-32.6536,-3.0103,0,-32.6536,-3.0103,-32.6536 1/1:50:0,50,0:0:0:50,0:1766,0:-159.172,-15.0515,0,-159.172,-15.0515,-159.172 1/1:152:0,151,1:0:0:151,1:5329,36:-479.202,-45.4555,0,-476.264,-42.1583,-475.963 1/2:150:0,77,73:0:0:77,73:2741,2590:-434.613,-211.223,-188.043,-223.627,0,-201.652 1/2:244:0,110,134:0:0:110,134:3922,4693:-701.454,-381.913,-348.799,-319.894,0,-279.556 1/2:120:0,46,74:0:0:46,74:1629,2605:-345.105,-212.418,-198.571,-133.04,0,-110.764 1/1:116:0,116,0:0:0:116,0:4128,0:-371.475,-34.9195,0,-371.475,-34.9195,-371.475 1/2:66:0,41,25:0:0:41,25:1449,880:-189.655,-71.6652,-59.323,-118.341,0,-110.815 1/2:57:0,39,18:0:0:39,18:1386,642:-165.62,-52.6842,-40.944,-113.292,0,-107.873 1/1:117:0,117,0:0:0:117,0:4116,0:-370.596,-35.2205,0,-370.596,-35.2205,-370.596 1/1:62:0,62,0:0:0:62,0:2202,0:-198.42,-18.6639,0,-198.42,-18.6639,-198.42 chr10 999857 . A G 19257.1 PASS AB=0.468022;ABP=20.9258;AC=14;AF=0.333333;AN=42;AO=1117;CIGAR=1X;DP=3035;DPB=3035;DPRA=2.00642;EPP=2428.54;EPPR=4165.72;GTI=1;LEN=1;MEANALT=1.0625;MQM=59.9517;MQMR=59.9917;NS=21;NUMALT=1;ODDS=0.245724;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39786;QR=68677;RO=1917;RPL=0;RPP=2428.54;RPPR=4165.72;RPR=1117;RUN=1;SAF=1117;SAP=2428.54;SAR=0;SRF=1917;SRP=4165.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:157:59,98:59:2101:98:3485:-266.594,0,-142.096 0/1:158:80,78:80:2864:78:2784:-203.239,0,-210.435 0/0:186:183,3:183:6572:3:108:0,-45.9164,-581.483 0/1:199:116,83:116:4168:83:2960:-206.724,0,-315.396 0/1:312:161,151:161:5769:151:5401:-392.298,0,-425.401 0/0:98:98,0:98:3524:0:0:0,-29.5009,-317.368 0/1:235:135,100:135:4844:100:3584:-252.025,0,-365.335 1/1:168:0,167:0:0:167:5932:-533.63,-50.272,0 0/1:272:158,114:158:5653:114:4080:-285.506,0,-427.008 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.637 0/0:204:204,0:204:7320:0:0:0,-61.4101,-658.848 0/1:159:64,95:64:2254:95:3365:-254.576,0,-155.257 0/1:234:123,111:123:4409:111:3953:-285.521,0,-326.539 0/1:129:67,62:67:2389:62:2191:-158.621,0,-176.433 0/0:109:108,1:108:3880:1:36:0,-29.214,-345.795 0/1:69:42,27:42:1512:27:960:-65.9452,0,-115.604 0/1:89:66,23:66:2349:23:807:-46.1575,0,-184.876 0/0:146:144,2:144:5176:2:68:0,-37.4927,-459.52 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 chr10 999893 . C T 50304.8 PASS AB=0.497586;ABP=3.19902;AC=14;AF=0.333333;AN=42;AO=2144;CIGAR=1X;DP=5353;DPB=5353;DPRA=1.71952;EPP=4658.65;EPPR=6962.58;GTI=1;LEN=1;MEANALT=1.11111;MQM=59.9678;MQMR=59.9891;NS=21;NUMALT=1;ODDS=18.9493;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76390;QR=113341;RO=3205;RPL=1129;RPP=16.1728;RPPR=239.657;RPR=1015;RUN=1;SAF=1129;SAP=16.1728;SAR=1015;SRF=1898;SRP=239.657;SRR=1307;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:246:96,150:96:3395:150:5358:-408.295,0,-231.712 0/1:322:165,157:165:5865:157:5597:-406.921,0,-431.033 0/0:242:237,5:237:8412:5:180:0,-56.2972,-740.535 0/1:317:172,145:172:6065:145:5173:-370.276,0,-450.533 0/1:573:272,298:272:9622:298:10630:-784.665,0,-693.997 0/0:142:141,1:141:5017:1:36:0,-39.148,-448.08 0/1:386:203,182:203:7164:182:6495:-468.38,0,-528.53 1/1:277:0,277:0:0:277:9859:-887.258,-83.3853,0 0/1:523:281,242:281:9983:242:8619:-618.267,0,-740.977 0/1:17:10,7:10:347:7:252:-17.9114,0,-26.4461 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/0:56:55,1:55:1935:1:32:0,-13.6584,-171.224 0/0:316:316,0:316:11110:0:0:0,-95.1255,-999.808 0/1:249:102,147:102:3529:147:5188:-391.947,0,-242.864 0/1:444:211,233:211:7496:233:8336:-616.59,0,-541.028 0/1:230:108,122:108:3824:122:4376:-324.776,0,-275.119 0/0:177:176,1:176:6242:1:36:0,-49.684,-558.281 0/1:230:112,118:112:3985:118:4173:-306.516,0,-289.602 0/1:191:137,54:137:4833:54:1906:-114.32,0,-377.632 0/0:258:254,4:254:9017:4:144:0,-64.3521,-798.204 0/0:148:148,0:148:5180:0:0:0,-44.5524,-466.335 chr10 999905 . C T 82068 PASS AB=0.511195;ABP=7.04571;AC=28;AF=0.666667;AN=42;AO=3243;CIGAR=1X;DP=5335;DPB=5335;DPRA=0.937963;EPP=7045.1;EPPR=4543.56;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9883;MQMR=59.9837;NS=21;NUMALT=1;ODDS=17.5582;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=115472;QR=73868;RO=2091;RPL=1860;RPP=155.361;RPPR=21.3801;RPR=1383;RUN=1;SAF=1860;SAP=155.361;SAR=1383;SRF=1112;SRP=21.3801;SRR=979;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:249:147,102:147:5173:102:3597:-248.978,0,-390.752 0/1:317:156,161:156:5514:161:5748:-422.007,0,-400.964 1/1:239:3,236:3:108:236:8419:-747.64,-61.871,0 0/1:317:142,175:142:5060:175:6242:-466.45,0,-360.113 0/1:564:291,273:291:10301:273:9712:-704.25,0,-757.239 1/1:149:0,149:0:0:149:5323:-479.205,-44.8535,0 0/1:394:184,210:184:6492:210:7458:-552.626,0,-465.761 0/0:270:270,0:270:9518:0:0:0,-81.2781,-856.583 0/1:513:230,283:230:8112:283:10079:-752.618,0,-575.675 0/1:17:7,10:7:252:10:349:-26.6272,0,-17.9114 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 1/1:59:0,59:0:0:59:2101:-189.358,-17.7608,0 1/1:313:1,312:1:36:312:11141:-998.983,-90.6241,0 0/1:242:140,102:140:4877:102:3576:-249.199,0,-366.239 0/1:442:228,214:228:8094:214:7637:-554.312,0,-595.425 0/1:231:121,110:121:4294:110:3925:-283.905,0,-317.099 1/1:182:1,181:1:36:181:6450:-576.989,-51.1892,0 0/1:235:116,119:116:4082:119:4211:-308.429,0,-296.827 0/1:186:50,136:50:1779:136:4838:-379.585,0,-104.401 1/1:260:4,256:4:140:256:9159:-811.338,-65.3232,0 1/1:149:0,148:0:0:148:5259:-473.16,-44.5524,0 chr10 1004808 . A G 24374 PASS AB=0.486486;ABP=5.59259;AC=28;AF=0.666667;AN=42;AO=1372;CIGAR=1X;DP=2321;DPB=2321;DPRA=0.986161;EPP=2982.27;EPPR=2061.57;GTI=1;LEN=1;MEANALT=1.05;MQM=39.1509;MQMR=56.2605;NS=21;NUMALT=1;ODDS=7.36419;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49144;QR=33847;RO=948;RPL=0;RPP=2982.27;RPPR=2061.57;RPR=1372;RUN=1;SAF=1372;SAP=2982.27;SAR=0;SRF=948;SRP=2061.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:228:137,91:137:4885:91:3258:-211.321,0,-369.985 0/1:101:40,61:40:1436:61:2153:-152.67,0,-99.119 1/1:139:0,139:0:0:139:4982:-427.285,-41.8432,0 0/1:88:42,46:42:1508:46:1648:-115.319,0,-108.684 0/1:290:177,113:177:6314:113:4017:-258.733,0,-478.368 1/1:66:0,65:0:0:65:2340:-196.426,-19.567,0 0/1:166:76,90:76:2701:90:3240:-224.176,0,-193.127 0/0:112:112,0:112:4020:0:0:0,-33.7154,-361.531 0/1:177:91,86:91:3268:86:3080:-214.706,0,-239.509 0/1:21:11,10:11:381:10:360:-24.1283,0,-28.0569 1/1:7:0,7:0:0:7:252:-21.7136,-2.10721,0 1/1:40:0,40:0:0:40:1434:-119.88,-12.0412,0 1/1:73:0,73:0:0:73:2604:-223.701,-21.9752,0 0/1:144:68,76:68:2394:76:2736:-191.673,0,-172.143 0/1:165:89,76:89:3184:76:2732:-186.383,0,-236.264 0/1:103:49,54:49:1752:54:1936:-137.462,0,-126.766 1/1:67:0,67:0:0:67:2407:-209.702,-20.169,0 0/1:71:34,37:34:1216:37:1327:-89.4079,0,-88.1972 0/1:74:22,52:22:788:52:1862:-136.281,0,-48.923 1/1:126:0,126:0:0:126:4508:-376.72,-37.9298,0 1/1:63:0,63:0:0:63:2268:-192.448,-18.9649,0 chr10 1004814 . T A 22671.7 PASS AB=0.475858;ABP=10.9788;AC=28;AF=0.666667;AN=42;AO=1308;CIGAR=1X;DP=2244;DPB=2244;DPRA=0.960811;EPP=2843.3;EPPR=2007.36;GTI=1;LEN=1;MEANALT=1.05;MQM=39.1453;MQMR=56.3326;NS=21;NUMALT=1;ODDS=8.79481;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46206;QR=33516;RO=935;RPL=0;RPP=2843.3;RPPR=2007.36;RPR=1308;RUN=1;SAF=1308;SAP=2843.3;SAR=0;SRF=935;SRP=2033.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:227:138,89:138:4936:89:3169:-203.605,0,-374.891 0/1:98:40,58:40:1440:58:2037:-144.19,0,-100.382 1/1:132:0,132:0:0:132:4628:-399.11,-39.736,0 0/1:87:43,44:43:1520:44:1568:-108.72,0,-110.061 0/1:280:174,106:174:6251:106:3711:-235.946,0,-477.411 1/1:65:0,65:0:0:65:2308:-194.563,-19.567,0 0/1:157:72,85:72:2580:85:3024:-209.299,0,-185.009 0/0:111:111,0:111:3965:0:0:0,-33.4143,-356.676 0/1:166:89,77:89:3192:77:2728:-187.661,0,-235.969 0/1:21:12,9:12:424:9:312:-20.3913,0,-32.0521 1/1:7:0,7:0:0:7:248:-21.4531,-2.10721,0 1/1:40:0,40:0:0:40:1409:-117.884,-12.0412,0 1/1:68:0,68:0:0:68:2412:-207.199,-20.47,0 0/1:139:66,73:66:2376:73:2589:-180.903,0,-171.949 0/1:161:88,73:88:3168:73:2550:-172.652,0,-236.151 0/1:98:48,50:48:1724:50:1768:-125.059,0,-125.754 1/1:67:0,67:0:0:67:2375:-205.944,-20.169,0 0/1:68:33,34:33:1188:34:1215:-80.9925,0,-86.6643 0/1:72:21,51:21:752:51:1800:-132.108,0,-46.2865 1/1:118:0,118:0:0:118:4158:-349.412,-35.5215,0 1/1:62:0,62:0:0:62:2197:-186.708,-18.6639,0 chr10 1004815 . A C 17045.2 PASS AB=0.510809;ABP=4.65332;AC=14;AF=0.333333;AN=42;AO=938;CIGAR=1X;DP=2317;DPB=2317;DPRA=1.81365;EPP=1903.25;EPPR=2928.39;GTI=1;LEN=1;MEANALT=1;MQM=56.2175;MQMR=39.1443;NS=21;NUMALT=1;ODDS=5.72654;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33414;QR=49334;RO=1379;RPL=16;RPP=1903.25;RPPR=2928.39;RPR=922;RUN=1;SAF=938;SAP=2039.85;SAR=0;SRF=1379;SRP=2997.47;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:228:93,135:93:3340:135:4764:-359.394,0,-217.663 0/1:99:61,38:61:2188:38:1364:-93.2441,0,-156.002 0/0:141:141,0:141:5018:0:0:0,-42.4452,-431.053 0/1:85:44,41:44:1565:41:1472:-106.432,0,-109.198 0/1:292:116,176:116:4151:176:6291:-476.477,0,-268.786 0/0:66:66,0:66:2357:0:0:0,-19.868,-198.36 0/1:164:90,74:90:3228:74:2622:-186.658,0,-223.976 1/1:111:0,111:0:0:111:3947:-355.092,-33.4143,0 0/1:177:85,92:85:3033:92:3283:-241.243,0,-210.596 0/1:20:9,11:9:324:11:392:-29.5844,0,-21.4178 0/0:8:8,0:8:288:0:0:0,-2.40824,-24.7623 0/0:40:40,0:40:1424:0:0:0,-12.0412,-119.138 0/0:74:74,0:74:2664:0:0:0,-22.2762,-228.291 0/1:144:77,67:77:2760:67:2396:-172.25,0,-194.167 0/1:165:76,89:76:2709:89:3172:-235.333,0,-184.676 0/1:101:54,47:54:1928:47:1675:-120.441,0,-137.466 0/0:68:68,0:68:2440:0:0:0,-20.47,-211.279 0/1:71:36,35:36:1296:35:1252:-91.4332,0,-86.6407 0/1:73:51,22:51:1836:22:784:-48.8612,0,-134.064 0/0:125:125,0:125:4464:0:0:0,-37.6287,-374.192 0/0:65:65,0:65:2321:0:0:0,-19.5669,-196.883 chr10 1004838 . TCCAC GCCAA,GCCAT 43829.5 PASS AB=0.484923,0.508923;ABP=6.21873,4.13412;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1370,941;CIGAR=1X3M1X,1X3M1X;DP=2325;DPB=2329;DPRA=0.969737,1.8262;EPP=2977.93,2046.37;EPPR=0;GTI=1;LEN=5,5;MEANALT=2.15,2.53846;MQM=39.0416,56.1732;MQMR=0;NS=21;NUMALT=2;ODDS=6.26082;PAIRED=0,0;PAIREDR=0;PAO=4,16;PQA=0,546;PQR=0;PRO=0;QA=47349,32443;QR=0;RO=0;RPL=1370,940;RPP=2977.93,2037.69;RPPR=0;RPR=0,1;RUN=1,1;SAF=1370,940;SAP=2977.93,2037.69;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:232:0,92,138:0:0:92,138:3181,4697:-626.904,-380.291,-352.596,-246.639,0,-205.097 1/2:101:0,58,39:0:0:58,39:1980,1353:-262.318,-110.048,-92.5881,-152.339,0,-140.599 1/1:142:0,140,0:0:0:140,0:4817,0:-417.055,-42.1442,0,-417.055,-42.1442,-417.055 1/2:88:0,46,42:0:0:46,42:1605,1461:-242.924,-118.273,-104.425,-124.714,0,-112.071 1/2:290:0,116,174:0:0:116,174:3987,6056:-800.279,-490.315,-455.396,-310.059,0,-257.68 1/1:66:0,66,0:0:0:66,0:2290,0:-193.957,-19.868,0,-193.957,-19.868,-193.957 1/2:163:0,88,75:0:0:88,75:3080,2545:-441.692,-206.404,-179.913,-235.477,0,-212.9 2/2:114:0,0,114:0:0:0,114:0,3886:-349.561,-349.561,-349.561,-34.3174,-34.3174,0 1/2:178:0,84,93:0:0:84,93:2895,3209:-487.01,-259.738,-234.452,-227.325,0,-199.329 1/2:22:0,10,12:0:0:10,12:341,396:-58.2438,-32.3248,-29.3145,-26.2442,0,-22.6319 1/1:8:0,8,0:0:0:8,0:281,0:-24.3396,-2.40824,0,-24.3396,-2.40824,-24.3396 1/1:39:0,39,0:0:0:39,0:1352,0:-114.131,-11.7402,0,-114.131,-11.7402,-114.131 1/1:74:0,73,0:0:0:73,0:2515,0:-217.497,-21.9752,0,-217.497,-21.9752,-217.497 1/2:140:0,77,63:0:0:77,63:2659,2180:-384.063,-176.944,-153.765,-207.167,0,-188.202 1/2:165:0,76,88:0:0:76,88:2638,3085:-456.485,-250.387,-227.509,-206.13,0,-179.639 1/2:104:0,53,49:0:0:53,49:1851,1714:-283.424,-137.5,-121.545,-145.951,0,-131.201 1/1:69:0,69,0:0:0:69,0:2395,0:-208.959,-20.7711,0,-208.959,-20.7711,-208.959 1/2:70:0,36,34:0:0:36,34:1254,1167:-189.163,-95.0566,-84.2195,-94.4405,0,-84.2055 1/2:72:0,52,20:0:0:52,20:1822,694:-196.586,-56.7208,-41.0672,-140.207,0,-134.187 1/1:124:0,123,0:0:0:123,0:4214,0:-355.181,-37.0267,0,-355.181,-37.0267,-355.181 1/1:64:0,64,0:0:0:64,0:2192,0:-187.936,-19.2659,0,-187.936,-19.2659,-187.936 chr10 1021414 . C T 12900.1 PASS AB=0.436554;ABP=33.0444;AC=28;AF=0.666667;AN=42;AO=686;CIGAR=1X;DP=1320;DPB=1320;DPRA=0.392953;EPP=1492.64;EPPR=1379.72;GTI=2;LEN=1;MEANALT=1;MQM=59.7915;MQMR=59.7019;NS=21;NUMALT=1;ODDS=1.75287;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24568;QR=22642;RO=634;RPL=0;RPP=1492.64;RPPR=1379.72;RPR=686;RUN=1;SAF=686;SAP=1492.64;SAR=0;SRF=634;SRP=1379.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:53,33:53:1876:33:1184:-80.9797,0,-143.226 0/1:47:19,28:19:684:28:1008:-76.8856,0,-47.7419 1/1:46:0,46:0:0:46:1648:-148.602,-13.8474,0 0/1:46:29,17:29:1036:17:608:-41.2046,0,-79.7065 0/1:152:92,60:92:3284:60:2156:-148.549,0,-250.001 1/1:54:0,54:0:0:54:1938:-174.64,-16.2556,0 0/1:102:48,54:48:1711:54:1919:-142.278,0,-123.568 0/0:149:149,0:149:5320:0:0:0,-44.8535,-478.873 0/1:113:63,50:63:2260:50:1792:-127.546,0,-169.557 0/1:21:12,9:12:432:9:324:-23.1842,0,-32.8996 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:14:0,14:0:0:14:496:-44.9743,-4.21442,0 1/1:69:0,69:0:0:69:2467:-222.272,-20.7711,0 0/1:75:49,26:49:1764:26:932:-61.6183,0,-136.462 0/1:88:51,37:51:1812:37:1328:-93.2867,0,-136.866 0/1:38:25,13:25:900:13:468:-31.0205,0,-69.8534 1/1:35:0,35:0:0:35:1260:-113.705,-10.5361,0 0/1:53:26,27:26:928:27:962:-70.4458,0,-67.8827 0/1:38:17,21:17:599:21:743:-55.7542,0,-42.799 1/1:54:1,53:1:36:53:1904:-168.039,-12.6573,0 1/1:32:0,32:0:0:32:1143:-102.808,-9.63296,0 chr10 1021436 . GTTTGTAT CTTTGTAC,CTTCGTAC 26562.5 PASS AB=0.427241,0.565774;ABP=42.5089,35.2891;AC=28,14;AF=0.666667,0.333333;AN=42;AO=664,635;CIGAR=1X6M1X,1X2M1X3M1X;DP=1315;DPB=1315;DPRA=0.38543,2.13;EPP=1436.2,1373.22;EPPR=0;GTI=2;LEN=8,8;MEANALT=2.2,2.64286;MQM=59.9066,59.7606;MQMR=0;NS=21;NUMALT=2;ODDS=3.34085;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23422,22369;QR=0;RO=0;RPL=663,634;RPP=1436.2,1373.22;RPPR=0;RPR=1,1;RUN=1,1;SAF=664,635;SAP=1444.87,1381.9;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:87:0,34,51:0:0:34,51:1197,1797:-243.79,-146.343,-136.108,-97.4816,0,-82.1291 1/2:47:0,27,20:0:0:27,20:936,699:-133.283,-57.2112,-49.0834,-76.4201,0,-70.3995 1/1:45:0,45,0:0:0:45,0:1572,0:-141.762,-13.5464,0,-141.762,-13.5464,-141.762 1/2:45:0,16,29:0:0:16,29:572,1030:-130.924,-84.2837,-79.4672,-46.9969,0,-38.2671 1/2:150:0,58,92:0:0:58,92:2050,3230:-430.172,-263.216,-245.757,-167.308,0,-139.613 1/1:50:0,49,0:0:0:49,0:1731,0:-155.842,-14.7505,0,-155.842,-14.7505,-155.842 1/2:102:0,53,48:0:0:53,48:1892,1700:-292.854,-138.622,-122.668,-154.372,0,-139.923 2/2:151:0,0,148:0:0:0,148:0,5189:-466.862,-466.862,-466.862,-44.5524,-44.5524,0 1/2:114:0,50,62:0:0:50,62:1766,2200:-322.98,-179.164,-164.113,-143.852,0,-125.188 1/2:21:0,9,12:0:0:9,12:324,422:-61.1436,-34.7032,-31.994,-26.7966,0,-23.1842 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:13:0,13,0:0:0:13,0:464,0:-42.0975,-3.91339,0,-42.0975,-3.91339,-42.0975 1/1:70:0,69,0:0:0:69,0:2435,0:-219.034,-20.7711,0,-219.034,-20.7711,-219.034 1/2:76:0,26,49:0:0:26,49:886,1732:-213.067,-141.198,-133.372,-71.9982,0,-57.2477 1/2:91:0,37,54:0:0:37,54:1307,1901:-261.533,-155.107,-143.969,-106.778,0,-90.5228 1/2:38:0,13,25:0:0:13,25:464,882:-109.973,-72.1443,-68.2309,-38.1841,0,-30.6584 1/1:36:0,35,0:0:0:35,0:1241,0:-111.71,-10.5361,0,-111.71,-10.5361,-111.71 1/2:50:0,24,26:0:0:24,26:823,913:-141.469,-74.6585,-67.4338,-67.1569,0,-59.3301 1/2:38:0,20,18:0:0:20,18:708,638:-110.001,-52.3305,-46.3099,-58.025,0,-52.6065 1/1:55:0,50,1:0:0:50,1:1784,36:-160.49,-15.0515,0,-157.553,-12.1121,-157.252 1/1:29:0,29,0:0:0:29,0:1018,0:-91.9313,-8.72987,0,-91.9313,-8.72987,-91.9313 chr10 1059869 . TTAGG AAAGA,TAAGA 24492.3 PASS AB=0.385169,0.613724;ABP=209.973,206.003;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1293,1425;CIGAR=2X2M1X,1M1X2M1X;DP=2720;DPB=2720;DPRA=0.727143,2.49362;EPP=2810.72,3097.36;EPPR=0;GTI=4;LEN=5,5;MEANALT=1.8,2.06667;MQM=22.8724,22.8695;MQMR=0;NS=21;NUMALT=2;ODDS=1.22003;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46027,50632;QR=0;RO=0;RPL=0,0;RPP=2810.72,3097.36;RPPR=0;RPR=1293,1425;RUN=1,1;SAF=1293,1425;SAP=2810.72,3097.36;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:222:0,61,161:0:0:61,161:2177,5706:-389.72,-282.933,-264.57,-107.015,0,-58.5495 1/2:105:0,34,71:0:0:34,71:1215,2486:-183.739,-124.129,-113.894,-59.8384,0,-38.4653 1/1:98:0,97,1:0:0:97,1:3451,36:-199.476,-29.1999,0,-197.726,-27.2221,-197.425 1/2:88:0,28,60:0:0:28,60:995,2143:-153.861,-105.112,-96.6835,-48.9754,0,-30.9136 1/2:331:0,141,190:0:0:141,190:5020,6753:-579.644,-333.28,-290.835,-246.592,0,-189.396 1/1:114:0,114,0:0:0:114,0:4061,0:-234.583,-34.3174,0,-234.583,-34.3174,-234.583 1/2:177:0,73,103:0:0:73,103:2609,3657:-309.24,-180.604,-158.629,-128.66,0,-97.6539 2/2:175:0,0,175:0:0:0,175:0,6236:-359.137,-359.137,-359.137,-52.6803,-52.6803,0 1/2:267:0,83,184:0:0:83,184:2952,6548:-444.564,-306.328,-281.343,-138.454,0,-83.0645 1/2:17:0,10,7:0:0:10,7:360,248:-29.9497,-12.45,-9.43969,-17.7274,0,-15.6202 1/1:9:0,9,0:0:0:9,0:319,0:-18.6576,-2.70927,0,-18.6576,-2.70927,-18.6576 1/1:29:0,29,0:0:0:29,0:1031,0:-59.4209,-8.72987,0,-59.4209,-8.72987,-59.4209 1/1:121:0,121,0:0:0:121,0:4329,0:-248.795,-36.4246,0,-248.795,-36.4246,-248.795 1/2:206:0,69,136:0:0:69,136:2451,4830:-358,-237.352,-216.581,-120.667,0,-79.7271 2/2:155:0,20,135:0:0:20,135:694,4785:-277.204,-242.427,-236.407,-40.6391,-5.63575,0 1/2:195:0,82,113:0:0:82,113:2918,4043:-326.992,-190.398,-165.713,-136.814,0,-102.797 1/1:51:0,51,0:0:0:51,0:1814,0:-100.303,-15.3525,0,-100.303,-15.3525,-100.303 1/2:108:0,64,44:0:0:64,44:2274,1576:-189.108,-77.3312,-58.0653,-112.005,0,-98.7595 1/2:91:0,51,40:0:0:51,40:1815,1405:-158.635,-69.7415,-54.3889,-89.1199,0,-77.0787 1/1:109:0,104,5:0:0:104,5:3704,180:-213.172,-31.3071,0,-204.422,-22.3295,-202.917 1/1:52:0,52,0:0:0:52,0:1838,0:-106.685,-15.6536,0,-106.685,-15.6536,-106.685 chr10 1059890 . TCGCACA CTGCAAG,CTGCACG 21392.7 PASS AB=0.617746,0.379464;ABP=218.805,229.154;AC=15,27;AF=0.357143,0.642857;AN=42;AO=1423,1254;CIGAR=2X3M2X,2X4M1X;DP=2683;DPB=2683;DPRA=2.59777,0.712216;EPP=3093.02,2726.04;EPPR=0;GTI=8;LEN=7,7;MEANALT=2.33333,2;MQM=22.8356,22.8748;MQMR=0;NS=21;NUMALT=2;ODDS=1.08551;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50073,28669;QR=0;RO=0;RPL=1423,1254;RPP=3093.02,2726.04;RPPR=0;RPR=0,0;RUN=1,1;SAF=1423,1254;SAP=3093.02,2726.04;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:221:0,159,60:0:0:159,60:5568,1382:-367.655,-90.0547,-42.1909,-277.541,0,-259.48 1/2:105:0,71,34:0:0:71,34:2499,782:-175.402,-51.2469,-29.8737,-124.364,0,-114.129 2/2:95:0,1,94:0:0:1,94:36,2166:-169.617,-167.867,-167.566,-28.2968,-26.319,0 1/2:87:0,60,27:0:0:60,27:2120,621:-145.412,-40.6736,-22.6118,-104.947,0,-96.8188 1/2:327:0,189,137:0:0:189,137:6633,3149:-534.906,-205.237,-148.342,-329.572,0,-288.331 2/2:110:0,0,110:0:0:0,110:0,2534:-198.645,-198.645,-198.645,-33.1133,-33.1133,0 1/2:176:0,104,72:0:0:104,72:3648,1666:-290.859,-109.109,-77.8018,-181.963,0,-160.288 1/1:176:0,176,0:0:0:176,0:6208,0:-360.683,-52.9813,0,-360.683,-52.9813,-360.683 1/2:266:0,184,82:0:0:184,82:6474,1808:-421.662,-116.111,-60.721,-305.75,0,-281.066 1/2:17:0,7,10:0:0:7,10:248,230:-27.4241,-15.1902,-13.083,-12.45,0,-9.43969 2/2:9:0,0,9:0:0:0,9:0,207:-16.4005,-16.4005,-16.4005,-2.70927,-2.70927,0 2/2:29:0,0,29:0:0:0,29:0,665:-52.2217,-52.2217,-52.2217,-8.72987,-8.72987,0 2/2:119:0,0,119:0:0:0,119:0,2746:-215.216,-215.216,-215.216,-35.8226,-35.8226,0 1/2:206:0,137,69:0:0:137,69:4814,1587:-342.498,-103.712,-62.4712,-238.995,0,-218.224 1/1:155:0,134,20:0:0:134,20:4734,460:-274.181,-40.338,0,-244.204,-10.4706,-238.183 1/2:191:0,112,78:0:0:112,78:3956,1721:-297.472,-110.255,-76.5393,-187.111,0,-163.631 2/2:45:0,0,45:0:0:0,45:0,990:-77.154,-77.154,-77.154,-13.5464,-13.5464,0 1/2:106:0,44,61:0:0:44,61:1559,1403:-168.334,-91.4407,-78.1953,-76.9087,0,-58.5459 1/2:90:0,40,50:0:0:40,50:1400,1148:-144.443,-74.9714,-62.9302,-69.686,0,-54.6345 2/2:107:0,5,102:0:0:5,102:176,2348:-183.76,-175.036,-173.531,-30.7051,-21.7551,0 2/2:46:0,0,46:0:0:0,46:0,1056:-82.9022,-82.9022,-82.9022,-13.8474,-13.8474,0 chr10 1059916 . AA GG,TG 23395.4 PASS AB=0.385795,0.611364;ABP=202.396,192.6;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1253,1384;CIGAR=2X,2X;DP=2643;DPB=2645.5;DPRA=0.731953,2.5044;EPP=2723.87,3008.33;EPPR=0;GTI=4;LEN=2,2;MEANALT=2,2.26667;MQM=22.8156,22.8114;MQMR=0;NS=21;NUMALT=2;ODDS=0.994283;PAIRED=0,0;PAIREDR=0;PAO=3,2;PQA=96,64;PQR=0;PRO=0;QA=43826,48647;QR=0;RO=0;RPL=1253,1384;RPP=2723.87,3008.33;RPPR=0;RPR=0,0;RUN=1,1;SAF=1253,1384;SAP=2723.87,3008.33;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:216:0,60,155:0:0:60,155:2058,5407:-372.764,-269.423,-251.361,-103.343,0,-56.6836 1/2:99:0,31,68:0:0:31,68:1042,2380:-170.794,-117.902,-108.57,-52.8745,0,-32.4045 1/1:92:0,91,1:0:0:91,1:3177,36:-185.101,-27.3937,0,-183.351,-25.6509,-183.05 1/2:88:0,28,60:0:0:28,60:991,2124:-153.491,-104.939,-96.5098,-48.7793,0,-30.7175 1/2:326:0,140,185:0:0:140,185:4893,6511:-565.964,-322.869,-280.725,-243.113,0,-187.422 1/1:109:0,109,0:0:0:109,0:3856,0:-222.915,-32.8123,0,-222.915,-32.8123,-222.915 1/2:162:0,67,95:0:0:67,95:2334,3343:-281.564,-165.326,-145.157,-116.464,0,-87.8662 2/2:169:0,0,169:0:0:0,169:0,5911:-344.3,-344.3,-344.3,-50.8741,-50.8741,0 1/2:264:0,82,182:0:0:82,182:2845,6398:-436.57,-301.494,-276.809,-135.051,0,-80.2639 1/2:17:0,10,7:0:0:10,7:340,252:-29.5386,-12.4775,-9.46723,-17.287,0,-15.1798 1/1:9:0,9,0:0:0:9,0:316,0:-18.6376,-2.70927,0,-18.6376,-2.70927,-18.6376 1/1:28:0,28,0:0:0:28,0:1002,0:-57.2794,-8.42884,0,-57.2794,-8.42884,-57.2794 1/1:118:0,117,0:0:0:117,0:4135,0:-238.746,-35.2205,0,-238.746,-35.2205,-238.746 1/2:202:0,68,134:0:0:68,134:2390,4719:-351.438,-233.175,-212.705,-118.489,0,-78.1511 2/2:153:0,20,133:0:0:20,133:702,4695:-272.232,-237.653,-231.632,-40.037,-5.23163,0 1/2:191:0,81,109:0:0:81,109:2837,3854:-315.721,-181.506,-157.123,-134.129,0,-101.316 1/1:51:0,51,0:0:0:51,0:1799,0:-100.064,-15.3525,0,-100.064,-15.3525,-100.064 1/2:105:0,62,43:0:0:62,43:2146,1516:-182.499,-75.1796,-56.5157,-107.546,0,-94.6019 1/2:90:0,50,38:0:0:50,38:1731,1321:-152.026,-65.6718,-50.6203,-86.3607,0,-74.9215 1/1:105:0,100,5:0:0:100,5:3517,180:-203.746,-30.103,0,-194.996,-21.1254,-193.491 1/1:49:0,49,0:0:0:49,0:1715,0:-100.201,-14.7505,0,-100.201,-14.7505,-100.201 chr10 1063932 . T A 17875.7 PASS AB=0.761021;ABP=258.07;AC=31;AF=0.738095;AN=42;AO=852;CIGAR=1X;DP=980;DPB=980;DPRA=4.03333;EPP=1853.1;EPPR=280.959;GTI=3;LEN=1;MEANALT=1;MQM=59.9261;MQMR=60;NS=21;NUMALT=1;ODDS=1.44468;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30507;QR=4581;RO=128;RPL=0;RPP=1853.1;RPPR=280.959;RPR=852;RUN=1;SAF=852;SAP=1853.1;SAR=0;SRF=128;SRP=280.959;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:6,60:6:216:60:2141:-173.165,-0.0774679,0 0/1:24:8,16:8:284:16:576:-44.9503,0,-18.6786 1/1:49:0,49:0:0:49:1764:-159.021,-14.7505,0 0/1:16:4,12:4:144:12:432:-34.4047,0,-8.49714 0/1:76:12,64:12:432:64:2304:-184.742,0,-16.3429 1/1:46:0,46:0:0:46:1644:-148.246,-13.8474,0 1/1:65:5,60:5:180:60:2160:-178.112,-3.01489,0 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:63:15,48:15:536:48:1713:-135.486,0,-29.6099 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 1/1:57:0,57:0:0:57:2014:-181.529,-17.1587,0 0/1:18:5,13:5:176:13:453:-35.6811,0,-10.7665 0/1:102:21,81:21:756:81:2916:-231.969,0,-37.6622 1/1:39:2,37:2:72:37:1332:-113.339,-4.90345,0 1/1:108:0,108:0:0:108:3865:-348.043,-32.5112,0 0/1:89:24,65:24:864:65:2316:-181.906,0,-51.2909 0/1:37:13,24:13:453:24:864:-66.9445,0,-29.9615 1/1:63:0,63:0:0:63:2253:-203.031,-18.9649,0 1/1:20:0,20:0:0:20:720:-65.1242,-6.0206,0 chr10 1064231 . GAATC AAATC,AAATG 65156.7 PASS AB=0.474071,0.521175;ABP=16.5234,12.0228;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1860,1284;CIGAR=1X4M,1X3M1X;DP=3158;DPB=3158;DPRA=0,2.0264;EPP=4007.28,2765.18;EPPR=7.35324;GTI=1;LEN=1,5;MEANALT=2.14286,2.57143;MQM=60,59.9081;MQMR=60;NS=21;NUMALT=2;ODDS=4.75217;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66592,45182;QR=72;RO=2;RPL=1856,1282;RPP=4007.28,2773.84;RPPR=7.35324;RPR=4,2;RUN=1,1;SAF=0,1;SAP=4041.95,2782.5;SAR=1860,1283;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:93:0,53,40:0:0:53,40:1904,1386:-268.325,-112.994,-97.0396,-155.683,0,-143.642 1/2:165:0,73,91:0:0:73,91:2608,3210:-474.058,-261.42,-239.444,-212.683,0,-185.289 1/1:87:0,87,0:0:0:87,0:3115,0:-280.576,-26.1896,0,-280.576,-26.1896,-280.576 1/2:305:0,132,173:0:0:132,173:4725,6059:-878.651,-493.333,-453.597,-385.673,0,-333.594 1/2:696:1,279,410:1:36:279,410:9998,14389:-1983.17,-1168.06,-1087.01,-812.515,0,-692.03 1/1:130:0,128,0:0:0:128,0:4565,0:-410.744,-38.5318,0,-410.744,-38.5318,-410.744 1/2:167:0,74,93:0:0:74,93:2644,3290:-483.886,-268.311,-246.035,-215.931,0,-187.935 2/2:79:0,2,76:0:0:2,76:72,2666:-239.853,-233.977,-233.375,-22.8783,-16.9502,0 1/2:233:0,131,102:0:0:131,102:4704,3601:-677.32,-293.592,-254.157,-384.083,0,-353.378 1/2:13:0,6,7:0:0:6,7:216,251:-38.4558,-20.8306,-19.0245,-17.9843,0,-15.8771 1/1:17:0,17,0:0:0:17,0:604,0:-54.6906,-5.11751,0,-54.6906,-5.11751,-54.6906 1/1:20:0,20,0:0:0:20,0:712,0:-64.4067,-6.0206,0,-64.4067,-6.0206,-64.4067 1/1:152:0,152,0:0:0:152,0:5426,0:-488.47,-45.7566,0,-488.47,-45.7566,-488.47 1/2:132:0,72,59:0:0:72,59:2564,2064:-377,-168.017,-146.343,-209.084,0,-191.323 1/2:203:0,108,95:0:0:108,95:3876,3369:-590.998,-274.832,-242.321,-316.523,0,-287.925 1/2:119:0,66,53:0:0:66,53:2368,1871:-345.869,-152.714,-132.846,-193.51,0,-177.555 1/1:136:0,136,0:0:0:136,0:4884,0:-439.711,-40.9401,0,-439.711,-40.9401,-439.711 1/2:87:0,40,46:0:0:40,46:1428,1635:-249.762,-133.34,-121.299,-116.525,0,-102.678 1/2:101:1,63,37:1:36:63,37:2251,1319:-287.806,-104.576,-88.5489,-180.59,0,-172.39 1/1:140:0,138,2:0:0:138,2:4948,72:-445.109,-41.5421,0,-439.234,-35.3075,-438.632 1/1:83:0,83,0:0:0:83,0:2980,0:-268.432,-24.9855,0,-268.432,-24.9855,-268.432 chr10 1073537 . A G 13120 PASS AB=0.419079;ABP=89.4635;AC=14;AF=0.333333;AN=42;AO=781;CIGAR=1X;DP=2273;DPB=2273;DPRA=1.68144;EPP=1698.93;EPPR=3238.5;GTI=0;LEN=1;MEANALT=1.07692;MQM=54.0346;MQMR=40.1302;NS=21;NUMALT=1;ODDS=10.5284;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27836;QR=53379;RO=1490;RPL=0;RPP=1698.93;RPPR=3238.5;RPR=781;RUN=1;SAF=781;SAP=1698.93;SAR=0;SRF=1490;SRP=3238.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:174:100,74:100:3596:74:2645:-185.363,0,-258.019 0/1:93:70,22:70:2512:22:788:-43.0888,0,-183.097 0/0:134:134,0:134:4777:0:0:0,-40.338,-416.645 0/1:91:52,39:52:1864:39:1347:-94.0157,0,-134.712 0/1:184:116,68:116:4160:68:2436:-163.069,0,-305.907 0/0:60:60,0:60:2156:0:0:0,-18.0618,-180.081 0/1:135:65,70:65:2336:70:2485:-181.974,0,-154.215 1/1:144:0,144:0:0:144:5172:-463.258,-43.3483,0 0/1:175:102,73:102:3652:73:2594:-180.606,0,-264.685 0/1:19:12,7:12:428:7:252:-17.1463,0,-30.6768 0/0:10:10,0:10:360:0:0:0,-3.0103,-30.8272 0/0:60:60,0:60:2125:0:0:0,-18.0618,-181.221 0/0:99:99,0:99:3556:0:0:0,-29.802,-309.114 0/1:99:53,46:53:1904:46:1644:-117.701,0,-134.688 0/1:266:133,133:133:4772:133:4748:-346.423,0,-334.643 0/1:59:33,26:33:1165:26:932:-66.3798,0,-83.4535 0/0:76:75,0:75:2680:0:0:0,-22.5772,-231.022 0/1:146:86,60:86:3088:60:2109:-145.426,0,-219.997 0/1:79:60,19:60:2160:19:684:-37.5411,0,-163.673 0/0:109:109,0:109:3900:0:0:0,-32.8123,-332.321 0/0:61:61,0:61:2188:0:0:0,-18.3628,-181.767 chr10 1073579 . GTTCC ATTCT,ATTCC 44869.1 PASS AB=0.575082,0.417705;ABP=77.6819,92.7185;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1484,784;CIGAR=1X3M1X,1X4M;DP=2283;DPB=2283.2;DPRA=0.726531,1.684;EPP=3225.48,1705.44;EPPR=7.35324;GTI=0;LEN=5,1;MEANALT=2.25,2.61538;MQM=40.0418,54.1186;MQMR=60;NS=21;NUMALT=2;ODDS=10.1033;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=52141,28098;QR=72;RO=2;RPL=1484,784;RPP=3225.48,1705.44;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=1484,784;SAP=3225.48,1705.44;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:173:0,98,73:0:0:98,73:3435,2624:-483.058,-213.712,-184.211,-269.477,0,-247.502 1/2:94:0,67,26:0:0:67,26:2354,916:-252.596,-74.2248,-54.0558,-178.463,0,-170.636 1/1:134:0,133,0:0:0:133,0:4723,0:-411.895,-40.037,0,-411.895,-40.037,-411.895 1/2:91:0,52,39:0:0:52,39:1808,1395:-255.177,-113.98,-98.3265,-141.544,0,-129.804 1/2:187:0,117,69:0:0:117,69:4114,2469:-523.705,-200.976,-165.756,-322.8,0,-302.029 1/1:60:0,60,0:0:0:60,0:2114,0:-177.591,-18.0618,0,-177.591,-18.0618,-177.591 1/2:134:0,65,68:0:0:65,68:2245,2440:-367.442,-197.77,-178.204,-169.685,0,-149.215 2/2:147:0,0,147:0:0:0,147:0,5272:-472.963,-472.963,-472.963,-44.2514,-44.2514,0 1/2:176:1,103,72:1:36:103,72:3637,2584:-491.886,-207.433,-179.364,-281.808,0,-263.071 1/2:18:0,11,7:0:0:11,7:387,252:-49.8071,-20.7071,-17.3958,-29.3963,0,-27.2891 1/1:10:0,10,0:0:0:10,0:356,0:-30.5896,-3.0103,0,-30.5896,-3.0103,-30.5896 1/1:60:0,60,0:0:0:60,0:2123,0:-181.145,-18.0618,0,-181.145,-18.0618,-181.145 1/1:99:0,98,0:0:0:98,0:3446,0:-300.664,-29.5009,0,-300.664,-29.5009,-300.664 1/2:101:0,54,47:0:0:54,47:1870,1686:-283.521,-137.226,-120.97,-146.642,0,-132.493 1/2:265:0,133,131:0:0:133,131:4740,4700:-754.978,-382.478,-342.441,-372.576,0,-333.141 1/2:61:0,33,28:0:0:33,28:1142,1004:-171.414,-82.1816,-72.2476,-89.5792,0,-81.1504 1/1:76:0,75,0:0:0:75,0:2603,0:-225.451,-22.5773,0,-225.451,-22.5773,-225.451 1/2:146:1,83,60:1:36:83,60:2904,2148:-395.646,-171.436,-149.388,-221.589,0,-206.465 1/2:79:0,61,17:0:0:61,17:2165,608:-219.542,-49.5427,-31.1799,-170.144,0,-165.027 1/1:111:0,111,0:0:0:111,0:3884,0:-333.504,-33.4143,0,-333.504,-33.4143,-333.504 1/1:61:0,60,0:0:0:60,0:2091,0:-175.505,-18.0618,0,-175.505,-18.0618,-175.505 chr10 1073590 . T G 26607 PASS AB=0.575737;ABP=77.3468;AC=28;AF=0.666667;AN=42;AO=1455;CIGAR=1X;DP=2235;DPB=2235;DPRA=0.710204;EPP=3162.5;EPPR=1692.42;GTI=0;LEN=1;MEANALT=1.1;MQM=40.0447;MQMR=54.0835;NS=21;NUMALT=1;ODDS=9.46256;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51642;QR=27743;RO=778;RPL=1455;RPP=3162.5;RPPR=1692.42;RPR=0;RUN=1;SAF=1455;SAP=3162.5;SAR=0;SRF=778;SRP=1692.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:169:72,97:72:2592:97:3463:-249.386,0,-182.022 0/1:94:27,67:27:955:67:2382:-171.153,0,-57.341 1/1:131:0,131:0:0:131:4692:-409.635,-39.4349,0 0/1:87:36,51:36:1287:51:1824:-131.567,0,-89.8335 0/1:183:68,115:68:2436:115:4044:-297.16,0,-163.372 1/1:59:0,59:0:0:59:2111:-176.212,-17.7608,0 0/1:130:67,63:67:2382:63:2219:-147.404,0,-174.423 0/0:147:147,0:147:5227:0:0:0,-44.2514,-468.44 0/1:171:71,100:71:2535:100:3541:-256.356,0,-176.538 0/1:17:7,10:7:252:10:349:-24.8648,0,-17.7484 1/1:10:0,10:0:0:10:356:-30.5679,-3.0103,0 1/1:57:0,57:0:0:57:2041:-173.736,-17.1587,0 1/1:98:0,98:0:0:98:3499:-304.713,-29.5009,0 0/1:98:46,51:46:1644:51:1807:-127.101,0,-117.78 0/1:265:133,132:133:4750:132:4732:-331.688,0,-346.802 0/1:56:25,31:25:896:31:1085:-77.4908,0,-64.0414 1/1:74:0,74:0:0:74:2639:-227.354,-22.2762,0 0/1:145:62,82:62:2188:82:2866:-202.608,0,-152.735 0/1:77:17,60:17:599:60:2131:-162.248,0,-30.8102 1/1:108:0,108:0:0:108:3810:-326.02,-32.5112,0 1/1:59:0,59:0:0:59:2051:-172.353,-17.7608,0 chr10 1121533 . A T 3732.3 PASS AB=0.324185;ABP=1098.71;AC=19;AF=0.452381;AN=42;AO=1368;CIGAR=1X;DP=4584;DPB=4584;DPRA=0;EPP=2964.91;EPPR=6982.12;GTI=8;LEN=1;MEANALT=1.04762;MQM=23.5702;MQMR=32.0949;NS=21;NUMALT=1;ODDS=1.05294;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48869;QR=114968;RO=3214;RPL=1367;RPP=2964.91;RPPR=6982.12;RPR=1;RUN=1;SAF=0;SAP=2973.58;SAR=1368;SRF=0;SRP=6982.12;SRR=3214;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:248:188,60:188:6731:60:2144:-50.3083,0,-380.703 0/1:167:118,49:118:4220:49:1752:-53.9341,0,-233.881 0/1:264:128,136:128:4571:136:4847:-202.307,0,-213.968 0/1:291:244,47:244:8735:47:1676:-8.9778,0,-516.554 0/1:422:333,87:333:11858:87:3112:-52.7169,0,-717.853 0/1:388:198,190:198:7104:190:6774:-270.917,0,-329.407 0/1:292:200,92:200:7163:92:3278:-100.33,0,-380.205 0/0:165:164,1:164:5884:1:36:0,-47.4868,-416.349 0/1:325:261,64:261:9356:64:2300:-33.335,0,-562.923 0/1:22:16,6:16:576:6:216:-5.9111,0,-38.7121 0/1:22:12,10:12:424:10:360:-14.9953,0,-20.8534 0/1:88:53,35:53:1886:35:1252:-45.1207,0,-95.1602 0/0:338:294,44:294:10519:44:1560:0,-11.9573,-588.45 0/1:259:199,60:199:7131:60:2150:-43.8142,0,-416.053 0/1:349:241,108:241:8631:108:3868:-119.559,0,-516.95 0/1:138:100,38:100:3592:38:1360:-41.3323,0,-191.977 0/1:226:122,104:122:4348:104:3723:-146.464,0,-216.321 0/1:109:58,51:58:2071:51:1812:-71.3282,0,-115.306 0/1:135:80,55:80:2838:55:1972:-71.6071,0,-165.033 0/1:216:145,71:145:5183:71:2525:-79.7379,0,-268.981 0/1:120:60,60:60:2147:60:2152:-89.036,0,-97.3101 chr10 1121548 . 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C T 21170.3 PASS AB=0.534779;ABP=14.6405;AC=28;AF=0.666667;AN=42;AO=1051;CIGAR=1X;DP=1630;DPB=1630;DPRA=1.24365;EPP=2224.83;EPPR=1234.37;GTI=0;LEN=1;MEANALT=1;MQM=59.96;MQMR=60;NS=21;NUMALT=1;ODDS=10.648;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37630;QR=20660;RO=579;RPL=1044;RPP=2224.83;RPPR=1234.37;RPR=7;RUN=1;SAF=0;SAP=2285.23;SAR=1051;SRF=0;SRP=1260.29;SRR=579;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:35,24:35:1251:24:856:-59.6003,0,-95.1335 0/1:84:43,41:43:1531:41:1468:-107.13,0,-112.796 1/1:107:0,107:0:0:107:3824:-344.355,-32.2102,0 0/1:41:16,25:16:572:25:900:-68.9788,0,-39.4712 0/1:199:96,103:96:3414:103:3672:-270.46,0,-247.57 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:80:21,59:21:743:59:2116:-166.626,0,-43.1109 0/0:63:63,0:63:2255:0:0:0,-18.9649,-203.212 0/1:94:47,47:47:1688:47:1676:-122.83,0,-123.91 0/1:11:6,5:6:212:5:180:-13.2407,0,-16.1135 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:35:0,35:0:0:35:1248:-112.624,-10.5361,0 1/1:68:0,68:0:0:68:2448:-220.574,-20.47,0 0/1:108:56,52:56:1990:52:1860:-135.168,0,-146.862 0/1:196:99,97:99:3547:97:3465:-253.06,0,-260.436 0/1:42:16,26:16:576:26:932:-71.5522,0,-39.5317 1/1:71:0,71:0:0:71:2544:-229.211,-21.3731,0 0/1:130:58,72:58:2061:72:2586:-193.855,0,-146.626 0/1:63:22,41:22:788:41:1467:-113.338,0,-52.2799 1/1:103:1,102:1:32:102:3652:-325.685,-27.8068,0 1/1:50:0,50:0:0:50:1800:-162.282,-15.0515,0 chr10 1191052 . 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G A 31940.9 PASS AB=0.583389;ABP=93.9106;AC=28;AF=0.666667;AN=42;AO=1600;CIGAR=1X;DP=2338;DPB=2338;DPRA=1.05283;EPP=3477.37;EPPR=1605.56;GTI=0;LEN=1;MEANALT=1;MQM=54.4725;MQMR=60;NS=21;NUMALT=1;ODDS=0.881362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57100;QR=26257;RO=738;RPL=0;RPP=3477.37;RPPR=1605.56;RPR=1600;RUN=1;SAF=0;SAP=3477.37;SAR=1600;SRF=0;SRP=1605.56;SRR=738;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:73,95:73:2612:95:3399:-254.814,0,-184.755 0/1:80:23,57:23:812:57:2044:-159.247,0,-49.3185 1/1:118:0,118:0:0:118:4229:-380.45,-35.5215,0 0/1:96:39,57:39:1396:57:2044:-155.042,0,-97.0402 0/1:246:121,125:121:4306:125:4477:-328.542,0,-313.665 1/1:105:1,104:1:36:104:3688:-326.756,-28.0099,0 0/1:168:66,102:66:2340:102:3655:-276.905,0,-160.285 0/0:106:106,0:106:3773:0:0:0,-31.9092,-339.769 0/1:246:96,150:96:3444:150:5376:-409.45,0,-236.119 0/1:16:3,13:3:108:13:468:-37.559,0,-5.25869 1/1:9:0,9:0:0:9:300:-27.2574,-2.70927,0 1/1:36:0,36:0:0:36:1280:-115.163,-10.8371,0 1/1:165:1,164:1:36:164:5842:-521.172,-46.0717,0 0/1:115:53,62:53:1883:62:2211:-164.262,0,-135.129 0/1:139:71,68:71:2548:68:2427:-176.102,0,-187.727 0/1:71:22,49:22:780:49:1741:-135.52,0,-49.1499 1/1:110:0,110:0:0:110:3930:-352.63,-33.1133,0 0/1:82:37,45:37:1266:45:1598:-118.762,0,-89.5513 0/1:78:23,55:23:809:55:1949:-151.903,0,-49.648 1/1:112:2,110:2:72:110:3903:-343.655,-26.8786,0 1/1:72:1,71:1:36:71:2539:-224.451,-18.0759,0 chr10 1191100 . 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A G 12215.6 PASS AB=0.485235;ABP=5.3828;AC=14;AF=0.333333;AN=42;AO=723;CIGAR=1X;DP=1947;DPB=1947;DPRA=1.69257;EPP=1555.66;EPPR=2519.39;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9585;MQMR=59.9689;NS=21;NUMALT=1;ODDS=1.38676;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25190;QR=43420;RO=1222;RPL=2;RPP=1555.66;RPPR=2519.39;RPR=721;RUN=1;SAF=0;SAP=1572.98;SAR=723;SRF=0;SRP=2656.55;SRR=1222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:65,58:65:2323:58:2008:-143.962,0,-172.303 0/1:85:46,39:46:1604:39:1383:-99.1805,0,-119.059 0/0:89:89,0:89:3179:0:0:0,-26.7917,-286.332 0/1:131:70,61:70:2497:61:2130:-152.508,0,-185.542 0/1:231:119,112:119:4208:112:3924:-283.818,0,-309.358 0/0:116:116,0:116:4126:0:0:0,-34.9195,-371.517 0/1:133:82,51:82:2931:51:1797:-121.973,0,-223.987 1/1:115:0,114:0:0:114:3961:-356.326,-34.3174,0 0/1:144:74,69:74:2604:69:2401:-172.938,0,-191.19 0/1:4:3,1:3:99:1:36:-2.39415,0,-8.03246 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/0:135:134,1:134:4756:1:36:0,-37.0408,-424.601 0/1:93:45,48:45:1604:48:1662:-121.864,0,-116.654 0/1:111:41,70:41:1467:70:2418:-184.459,0,-98.911 0/1:70:34,36:34:1208:36:1255:-92.1709,0,-87.9522 0/0:74:74,0:74:2608:0:0:0,-22.2762,-234.965 0/1:73:33,40:33:1180:40:1398:-104.14,0,-84.5329 0/1:55:32,23:32:1135:23:781:-54.0433,0,-85.9014 0/0:91:91,0:91:3240:0:0:0,-27.3937,-291.82 0/0:41:41,0:41:1463:0:0:0,-12.3422,-131.965 chr10 1276865 . G A 23853.5 PASS AB=0.504375;ABP=3.21933;AC=28;AF=0.666667;AN=42;AO=1201;CIGAR=1X;DP=1945;DPB=1945;DPRA=0.767227;EPP=2593.61;EPPR=1616.41;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9667;MQMR=59.9812;NS=21;NUMALT=1;ODDS=0.687822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42945;QR=26568;RO=743;RPL=2;RPP=2593.61;RPPR=1616.41;RPR=1199;RUN=1;SAF=0;SAP=2610.95;SAR=1201;SRF=0;SRP=1616.41;SRR=743;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:126:61,65:61:2161:65:2331:-172.119,0,-156.826 0/1:83:38,45:38:1356:45:1611:-120.294,0,-97.355 1/1:89:0,89:0:0:89:3171:-285.611,-26.7917,0 0/1:135:63,72:63:2244:72:2553:-189.376,0,-161.576 0/1:232:118,114:118:4227:114:4084:-297.904,0,-310.77 1/1:111:1,110:1:36:110:3956:-352.623,-29.8161,0 0/1:136:53,83:53:1887:83:2965:-226.137,0,-129.168 0/0:119:119,0:119:4257:0:0:0,-35.8226,-383.307 0/1:145:71,73:71:2544:73:2602:-190.711,0,-185.503 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 1/1:134:1,133:1:36:133:4775:-426.306,-36.7397,0 0/1:93:49,44:49:1756:44:1575:-114.045,0,-130.328 0/1:109:69,40:69:2480:40:1431:-96.2746,0,-190.641 0/1:66:35,31:35:1256:31:1100:-79.4416,0,-93.4764 1/1:71:0,71:0:0:71:2552:-229.93,-21.3731,0 0/1:75:41,34:41:1472:34:1200:-85.7265,0,-110.199 0/1:53:23,30:23:820:30:1052:-79.0331,0,-58.1679 1/1:89:0,89:0:0:89:3191:-287.412,-26.7917,0 1/1:41:0,41:0:0:41:1472:-132.776,-12.3422,0 chr10 1276871 . A C,T 41265.9 PASS AB=0.501592,0.497611;ABP=3.03796,3.07254;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1203,742;CIGAR=1X,1X;DP=1947;DPB=1947;DPRA=0,1.7226;EPP=2580.66,1588.29;EPPR=5.18177;GTI=1;LEN=1,1;MEANALT=1.71429,2.07143;MQM=59.9784,59.9353;MQMR=60;NS=21;NUMALT=2;ODDS=0.687822;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43075,26455;QR=36;RO=1;RPL=1199,739;RPP=2580.66,1588.29;RPPR=5.18177;RPR=4,3;RUN=1,1;SAF=0,0;SAP=2615.29,1614.24;SAR=1203,742;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:124:0,65,59:0:0:65,59:2332,2104:-362.083,-171.868,-152.301,-190.573,0,-172.812 1/2:83:0,45,38:0:0:45,38:1620,1368:-244.165,-111.982,-98.4353,-132.544,0,-121.104 1/1:88:0,88,0:0:0:88,0:3134,0:-282.285,-26.4906,0,-282.285,-26.4906,-282.285 1/2:131:0,69,62:0:0:69,62:2459,2198:-379.855,-179.417,-158.646,-200.793,0,-182.129 1/2:232:0,113,118:0:0:113,118:4053,4190:-672.128,-341.549,-307.532,-330.725,0,-295.203 1/1:111:1,110,0:1:36:110,0:3948,0:-351.912,-29.8161,0,-352.214,-33.1133,-355.151 1/2:136:0,83,53:0:0:83,53:2954,1904:-396.426,-155.683,-130.698,-241.101,0,-225.146 2/2:118:0,2,116:0:0:2,116:72,4116:-370.258,-364.383,-363.781,-34.9195,-28.6848,0 1/2:145:0,74,71:0:0:74,71:2649,2510:-420.793,-204.777,-182.501,-216.372,0,-194.999 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:29:0,29,0:0:0:29,0:1032,0:-93.1935,-8.72987,0,-93.1935,-8.72987,-93.1935 1/1:135:0,134,1:0:0:134,1:4789,36:-430.805,-40.338,0,-427.868,-37.0408,-427.567 1/2:95:0,45,50:0:0:45,50:1601,1792:-276.986,-146.511,-132.965,-130.832,0,-115.78 1/2:111:0,40,71:0:0:40,71:1440,2548:-325.694,-208.197,-196.156,-117.857,0,-96.4834 1/2:67:0,31,36:0:0:31,36:1112,1281:-195.45,-104.749,-95.4175,-91.0576,0,-80.2205 1/1:73:0,73,0:0:0:73,0:2616,0:-235.688,-21.9752,0,-235.688,-21.9752,-235.688 1/2:73:0,31,42:0:0:31,42:1116,1508:-214.432,-123.371,-114.039,-91.4198,0,-78.7765 1/2:55:0,31,24:0:0:31,24:1116,864:-161.918,-70.8578,-61.5259,-91.4198,0,-84.195 1/1:90:0,90,0:0:0:90,0:3236,0:-291.461,-27.0927,0,-291.461,-27.0927,-291.461 1/1:42:0,42,0:0:0:42,0:1508,0:-136.015,-12.6433,0,-136.015,-12.6433,-136.015 chr10 1290599 . CCC TCT 16226 PASS AB=0.43295;ABP=43.7774;AC=28;AF=0.666667;AN=42;AO=861;CIGAR=1X1M1X;DP=1510;DPB=1510;DPRA=1.29821;EPP=1872.65;EPPR=1405.78;GTI=2;LEN=3;MEANALT=1.15;MQM=59.4669;MQMR=59.9241;NS=21;NUMALT=1;ODDS=0.850008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30482;QR=22629;RO=646;RPL=0;RPP=1872.65;RPPR=1405.78;RPR=861;RUN=1;SAF=861;SAP=1872.65;SAR=0;SRF=646;SRP=1405.78;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:35,38:35:1205:38:1321:-97.1896,0,-86.7741 0/1:27:22,5:22:780:5:180:-8.42425,0,-62.3944 1/1:66:1,65:1:36:65:2316:-205.028,-16.2697,0 0/1:61:38,23:38:1315:23:813:-55.1279,0,-100.28 0/1:203:111,92:111:3916:92:3272:-233.52,0,-291.528 1/1:57:0,57:0:0:57:2009:-181.046,-17.1587,0 0/1:131:80,49:80:2831:49:1716:-115.472,0,-215.837 0/0:56:56,0:56:1940:0:0:0,-16.8577,-174.871 0/1:158:83,75:83:2878:75:2651:-191.167,0,-211.695 0/1:4:3,1:3:98:1:36:-2.39415,0,-7.93966 1/1:9:0,9:0:0:9:322:-29.2881,-2.70927,0 1/1:15:0,15:0:0:15:538:-48.7558,-4.51545,0 1/1:99:0,99:0:0:99:3526:-317.322,-29.802,0 0/1:107:66,40:66:2337:40:1420:-95.7878,0,-178.319 0/1:114:63,51:63:2215:51:1812:-129.019,0,-165.297 0/1:35:18,17:18:623:17:596:-43.4306,0,-45.4831 1/1:76:0,76:0:0:76:2696:-242.823,-22.8783,0 0/1:65:34,31:34:1205:31:1094:-79.1651,0,-89.1887 0/1:66:36,30:36:1250:30:1053:-75.1767,0,-92.9323 1/1:56:0,56:0:0:56:1992:-179.514,-16.8577,0 1/1:32:0,32:0:0:32:1119:-100.974,-9.63296,0 chr10 1318115 . A G 19166.5 PASS AB=0.524249;ABP=11.8567;AC=14;AF=0.333333;AN=42;AO=1073;CIGAR=1X;DP=2494;DPB=2494;DPRA=1.95839;EPP=2324.32;EPPR=3051.86;GTI=2;LEN=1;MEANALT=1.06667;MQM=59.986;MQMR=60;NS=21;NUMALT=1;ODDS=4.39879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38228;QR=50709;RO=1420;RPL=1072;RPP=2324.32;RPPR=3051.86;RPR=1;RUN=1;SAF=1073;SAP=2333;SAR=0;SRF=1420;SRP=3086.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:159:79,80:79:2824:80:2857:-209.502,0,-206.536 0/1:72:40,32:40:1436:32:1128:-80.1351,0,-107.864 0/0:106:106,0:106:3779:0:0:0,-31.9092,-340.31 0/1:63:26,37:26:924:37:1324:-100.497,0,-64.5128 0/1:275:116,159:116:4125:159:5664:-427.095,0,-288.652 0/0:116:115,1:115:4124:1:36:0,-31.3212,-367.745 0/1:156:68,88:68:2416:88:3139:-235.775,0,-170.736 1/1:163:0,163:0:0:163:5813:-523.285,-49.0679,0 0/1:214:103,111:103:3684:111:3949:-291.179,0,-267.343 0/1:11:6,5:6:216:5:180:-13.2407,0,-16.4792 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:130:130,0:130:4656:0:0:0,-39.1339,-419.202 0/1:108:61,47:61:2176:47:1684:-119.336,0,-163.595 0/1:284:115,169:115:4096:169:6010:-455.515,0,-283.335 0/1:74:33,40:33:1184:40:1405:-104.557,0,-84.6788 0/0:60:59,1:59:2108:1:36:0,-14.4635,-186.391 0/1:203:96,107:96:3456:107:3823:-283.158,0,-250.142 0/1:113:80,33:80:2860:33:1180:-72.4917,0,-223.621 0/0:115:115,0:115:4065:0:0:0,-34.6184,-366.04 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.755 chr10 1334177 . G C 21685.1 PASS AB=0.470894;ABP=10.089;AC=31;AF=0.738095;AN=42;AO=1077;CIGAR=1X;DP=1656;DPB=1656;DPRA=1.20455;EPP=2333.01;EPPR=1249.45;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9786;MQMR=60;NS=21;NUMALT=1;ODDS=0.402803;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38421;QR=20635;RO=578;RPL=1;RPP=2333.01;RPPR=1249.45;RPR=1076;RUN=1;SAF=1077;SAP=2341.69;SAR=0;SRF=578;SRP=1258.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:28,32:28:988:32:1143:-85.1169,0,-71.1721 0/1:70:34,36:34:1224:36:1277:-94.1599,0,-89.3949 1/1:74:0,74:0:0:74:2645:-238.296,-22.2762,0 0/1:96:55,41:55:1964:41:1468:-103.517,0,-148.136 0/1:225:126,99:126:4493:99:3560:-252.875,0,-336.807 1/1:63:1,62:1:36:62:2199:-194.576,-15.3666,0 0/1:100:53,47:53:1896:47:1684:-121.737,0,-140.815 0/0:66:66,0:66:2353:0:0:0,-19.868,-212.027 0/1:103:63,40:63:2256:40:1432:-98.1715,0,-172.297 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:36:0,36:0:0:36:1283:-115.773,-10.8371,0 1/1:75:0,75:0:0:75:2692:-242.524,-22.5773,0 0/1:76:42,34:42:1508:34:1224:-87.5888,0,-113.136 1/1:78:0,77:0:0:77:2746:-247.062,-23.1793,0 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 1/1:80:0,80:0:0:80:2860:-257.634,-24.0824,0 0/1:152:77,75:77:2737:75:2658:-193.708,0,-200.815 0/1:80:31,49:31:1112:49:1719:-130.911,0,-76.3089 1/1:81:2,79:2:68:79:2796:-245.422,-17.9257,0 1/1:56:0,56:0:0:56:1995:-179.823,-16.8577,0 chr10 1360037 . CC TA 54304.2 PASS AB=0.563394;ABP=73.7669;AC=30;AF=0.714286;AN=42;AO=2687;CIGAR=2X;DP=3738;DPB=3738;DPRA=1.14808;EPP=5716.79;EPPR=2205.41;GTI=0;LEN=2;MEANALT=1.25;MQM=59.8537;MQMR=59.979;NS=21;NUMALT=1;ODDS=14.2252;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93697;QR=36484;RO=1046;RPL=2673;RPP=5716.79;RPPR=2205.41;RPR=14;RUN=1;SAF=2687;SAP=5837.76;SAR=0;SRF=1046;SRP=2274.37;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:198:71,127:71:2454:127:4423:-338.615,0,-161.508 0/1:188:86,102:86:3033:102:3520:-260.419,0,-216.607 1/1:176:1,175:1:36:175:6098:-545.015,-49.383,0 0/1:363:179,184:179:6296:184:6474:-473.48,0,-457.466 0/1:347:141,205:141:4914:205:7117:-536.083,0,-337.9 1/1:237:5,232:5:178:232:8159:-717.969,-54.9755,0 0/1:220:107,112:107:3747:112:3891:-283.548,0,-271.257 0/0:156:156,0:156:5406:0:0:0,-46.9607,-486.668 0/1:273:117,156:117:4104:156:5425:-406.048,0,-287.364 0/1:26:6,20:6:216:20:712:-56.5803,0,-11.9637 1/1:15:0,15:0:0:15:525:-47.5791,-4.51545,0 1/1:51:0,51:0:0:51:1779:-160.391,-15.3525,0 1/1:230:0,229:0:0:229:8004:-720.078,-68.9359,0 0/1:229:101,128:101:3492:128:4408:-327.405,0,-245.554 1/1:199:1,198:1:34:198:6903:-617.854,-56.5061,0 1/1:167:0,167:0:0:167:5828:-524.635,-50.272,0 1/1:165:0,164:0:0:164:5739:-516.269,-49.3689,0 0/1:83:40,43:40:1370:43:1494:-109.764,0,-98.6057 0/1:100:35,65:35:1204:65:2259:-173.464,0,-78.5551 1/1:236:0,236:0:0:236:8203:-737.374,-71.0431,0 1/1:79:0,78:0:0:78:2736:-246.123,-23.4803,0 chr10 1360052 . T C 38754.7 PASS AB=0.42285;ABP=178.58;AC=12;AF=0.285714;AN=42;AO=1722;CIGAR=1X;DP=6473;DPB=6473;DPRA=1.61025;EPP=3742.29;EPPR=10315.3;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9768;MQMR=59.6614;NS=21;NUMALT=1;ODDS=45.5842;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61040;QR=169414;RO=4749;RPL=1020;RPP=130.529;RPPR=101.03;RPR=702;RUN=1;SAF=1020;SAP=130.529;SAR=702;SRF=2606;SRP=101.03;SRR=2143;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:320:191,129:191:6837:129:4592:-317.116,0,-519.016 0/1:248:164,84:164:5853:84:2960:-191.976,0,-452.191 0/0:320:319,1:319:11419:1:36:0,-92.7313,-1023.29 0/1:484:263,221:263:9420:221:7873:-562.902,0,-701.228 0/1:659:356,303:356:12773:303:10762:-770.096,0,-949.945 0/0:323:318,5:318:11337:5:172:0,-81.4147,-1004.36 0/1:339:233,106:233:8343:106:3738:-234.573,0,-648.087 1/1:277:0,277:0:0:277:9761:-878.437,-83.3853,0 0/1:497:262,233:262:9337:233:8288:-596.562,0,-690.733 0/1:67:44,23:44:1571:23:828:-54.6751,0,-121.498 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:91:91,0:91:3259:0:0:0,-27.3937,-293.387 0/0:366:366,0:366:13015:0:0:0,-110.177,-1171.01 0/1:388:209,179:209:7462:179:6342:-454.073,0,-554.534 0/0:508:506,2:506:18091:2:72:0,-146.087,-1620.18 0/0:277:277,0:277:9823:0:0:0,-83.3853,-883.997 0/0:361:360,1:360:12752:1:36:0,-105.074,-1143.62 0/1:210:112,98:112:3965:98:3474:-249.654,0,-293.67 0/1:184:124,60:124:4417:60:2106:-134.416,0,-342.294 0/0:382:382,0:382:13604:0:0:0,-114.993,-1222.72 0/0:145:145,0:145:5164:0:0:0,-43.6493,-464.869 chr10 1360073 . CT TG 44970 PASS AB=0.545677;ABP=32.5682;AC=30;AF=0.714286;AN=42;AO=2210;CIGAR=2X;DP=3088;DPB=3088;DPRA=1.1197;EPP=4801.96;EPPR=1898.71;GTI=0;LEN=2;MEANALT=1.15;MQM=59.2955;MQMR=59.9588;NS=21;NUMALT=1;ODDS=16.587;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77942;QR=30886;RO=873;RPL=0;RPP=4801.96;RPPR=1898.71;RPR=2210;RUN=1;SAF=0;SAP=4801.96;SAR=2210;SRF=0;SRP=1898.71;SRR=873;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:141:66,75:66:2321:75:2653:-196.523,0,-166.702 0/1:127:60,67:60:2122:67:2395:-177.54,0,-153.015 1/1:152:0,152:0:0:152:5342:-480.397,-45.7566,0 0/1:140:49,91:49:1728:91:3216:-246.789,0,-113.612 0/1:333:163,169:163:5770:169:5915:-432.047,0,-419.112 1/1:94:1,93:1:36:93:3280:-291.52,-24.6985,0 0/1:211:84,126:84:2949:126:4430:-335.262,0,-202.066 0/0:132:131,0:131:4665:0:0:0,-39.4349,-419.651 0/1:239:126,113:126:4464:113:3983:-286.556,0,-329.984 0/1:40:17,23:17:589:23:826:-62.6088,0,-41.2926 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:42:0,42:0:0:42:1486:-134.01,-12.6433,0 1/1:145:0,145:0:0:145:5127:-461.469,-43.6494,0 0/1:172:84,88:84:2966:88:3098:-227.041,0,-215.394 1/1:331:1,330:1:36:330:11668:-1046.03,-96.0427,0 1/1:117:0,117:0:0:117:4153:-373.674,-35.2205,0 1/1:208:1,207:1:36:207:7268:-650.352,-59.016,0 0/1:134:63,71:63:2244:71:2500:-184.756,0,-161.884 0/1:94:27,67:27:960:67:2317:-180.475,0,-58.4191 1/1:155:0,155:0:0:155:5520:-495.879,-46.6597,0 1/1:69:0,67:0:0:67:2333:-209.835,-20.169,0 chr10 1360110 . 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A G 1997.06 PASS AB=0.381232;ABP=44.7904;AC=12;AF=0.285714;AN=42;AO=139;CIGAR=1X;DP=663;DPB=663;DPRA=1.01656;EPP=304.845;EPPR=1140.86;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.7016;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4954;QR=18757;RO=524;RPL=0;RPP=304.845;RPPR=1140.86;RPR=139;RUN=1;SAF=139;SAP=304.845;SAR=0;SRF=524;SRP=1140.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:25,13:25:900:13:468:-31.0205,0,-69.8819 0/1:20:8,12:8:288:12:424:-32.4752,0,-20.2468 0/0:49:49,0:49:1764:0:0:0,-14.7505,-159.044 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:59:33,26:33:1173:26:921:-65.4444,0,-88.1148 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:48:29,19:29:1029:19:665:-45.7233,0,-78.4717 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:73:50,23:50:1800:23:828:-52.8689,0,-140.307 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:19:19,0:19:669:0:0:0,-5.71957,-60.5339 0/0:55:55,0:55:1976:0:0:0,-16.5566,-178.115 0/1:38:30,8:30:1080:8:284:-14.4642,0,-86.0741 0/0:66:66,0:66:2357:0:0:0,-19.868,-212.387 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/0:25:25,0:25:896:0:0:0,-7.52575,-80.9604 0/1:42:21,21:21:752:21:752:-55.363,0,-55.363 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 0/0:46:46,0:46:1633:0:0:0,-13.8474,-147.257 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 chr10 1425588 . T C 32204.5 PASS AB=0.470896;ABP=15.6498;AC=30;AF=0.714286;AN=42;AO=1914;CIGAR=1X;DP=3074;DPB=3074;DPRA=0.574797;EPP=4159.21;EPPR=2519.75;GTI=1;LEN=1;MEANALT=1.05;MQM=34.7445;MQMR=53.4582;NS=21;NUMALT=1;ODDS=6.96461;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68394;QR=41427;RO=1159;RPL=0;RPP=4159.21;RPPR=2519.75;RPR=1914;RUN=1;SAF=1914;SAP=4159.21;SAR=0;SRF=1159;SRP=2519.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:82,81:82:2927:81:2900:-181.15,0,-213.91 0/1:221:121,100:121:4310:100:3574:-221.073,0,-319.292 1/1:143:1,142:1:36:142:5044:-400.222,-39.4541,0 0/1:167:111,56:111:3988:56:2000:-110.075,0,-308.099 0/1:300:149,151:149:5322:151:5399:-335.38,0,-387.276 1/1:169:0,168:0:0:168:5977:-475.059,-50.573,0 0/1:212:121,91:121:4336:91:3247:-198.371,0,-325.668 0/0:246:246,0:246:8786:0:0:0,-74.0534,-787.805 0/1:274:136,138:136:4861:138:4947:-335.438,0,-354.252 0/1:30:17,13:17:612:13:468:-28.5831,0,-45.8786 1/1:7:0,7:0:0:7:252:-19.891,-2.10721,0 1/1:41:0,41:0:0:41:1468:-117.176,-12.3422,0 1/1:173:0,173:0:0:173:6188:-491.262,-52.0782,0 0/1:122:74,48:74:2629:48:1695:-100.108,0,-199.638 1/1:204:1,203:1:36:203:7254:-573.196,-57.8169,0 1/1:114:0,114:0:0:114:4088:-349.327,-34.3174,0 1/1:81:0,81:0:0:81:2888:-245.395,-24.3834,0 0/1:132:69,63:69:2472:63:2264:-140.455,0,-181.722 0/1:97:29,68:29:1044:68:2439:-162.601,0,-64.9234 1/1:108:2,106:2:68:106:3790:-294.731,-26.0779,0 1/1:70:0,70:0:0:70:2512:-204.559,-21.0721,0 chr10 1425593 . ACATTT GCCTTC,GCCTTT 66611.1 PASS AB=0.473235,0.52164;ABP=13.9369,10.1529;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1948,1168;CIGAR=1X1M1X2M1X,1X1M1X3M;DP=3131;DPB=3131;DPRA=0.5762,1.8506;EPP=1711.48,2478.85;EPPR=5.18177;GTI=1;LEN=6,6;MEANALT=2.15,2.64286;MQM=34.7546,53.4803;MQMR=60;NS=21;NUMALT=2;ODDS=10.1475;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68552,40875;QR=36;RO=1;RPL=355,1161;RPP=1711.48,2478.85;RPPR=5.18177;RPR=1593,7;RUN=1,1;SAF=1948,1168;SAP=4233.04,2539.29;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:165:0,82,82:0:0:82,82:2893,2894:-441.065,-235.028,-210.343,-206.049,0,-181.365 1/2:227:0,101,125:0:0:101,125:3493,4371:-607.001,-354.483,-324.079,-252.503,0,-214.875 1/1:144:0,143,1:0:0:143,1:5047,36:-404.406,-43.0473,0,-401.473,-39.7551,-401.172 1/2:169:0,58,111:0:0:58,111:2026,3855:-459.256,-313.097,-295.637,-146.483,0,-113.069 1/2:307:0,156,151:0:0:156,151:5454,5253:-812.32,-426.136,-379.176,-386.512,0,-341.056 1/1:171:0,169,0:0:0:169,0:5946,0:-475.579,-50.8741,0,-475.579,-50.8741,-475.579 1/2:216:1,95,118:1:36:95,118:3344,4105:-573.313,-330.24,-304.579,-240.461,0,-207.877 2/2:250:0,0,247:0:0:0,247:0,8644:-775.861,-775.861,-775.861,-74.3544,-74.3544,0 1/2:283:0,143,138:0:0:143,138:5022,4880:-778.858,-396.623,-353.576,-382.279,0,-340.737 1/2:31:0,14,17:0:0:14,17:503,586:-83.5141,-47.6125,-43.3981,-36.2308,0,-31.1133 1/1:7:0,7,0:0:0:7,0:250,0:-19.7996,-2.10721,0,-19.7996,-2.10721,-19.7996 1/1:42:0,42,0:0:0:42,0:1495,0:-119.552,-12.6433,0,-119.552,-12.6433,-119.552 1/1:176:0,176,0:0:0:176,0:6206,0:-494.964,-52.9813,0,-494.964,-52.9813,-494.964 1/2:123:0,47,75:0:0:47,75:1639,2628:-331.854,-213.432,-199.284,-118.394,0,-95.8163 1/1:204:0,202,1:0:0:202,1:7156,36:-571.13,-60.8081,0,-568.197,-57.8066,-567.896 1/1:115:0,115,0:0:0:115,0:4043,0:-346.985,-34.6185,0,-346.985,-34.6185,-346.985 1/1:83:0,83,0:0:0:83,0:2902,0:-247.593,-24.9855,0,-247.593,-24.9855,-247.593 1/2:133:0,64,69:0:0:64,69:2270,2429:-359.157,-196.871,-177.605,-162.618,0,-141.847 1/2:102:0,71,30:0:0:71,30:2519,1059:-262.879,-86.1312,-64.758,-176.768,0,-167.737 1/1:111:0,108,3:0:0:108,3:3809,99:-304.205,-32.5112,0,-296.483,-24.4696,-295.58 1/1:72:0,72,0:0:0:72,0:2535,0:-207.214,-21.6742,0,-207.214,-21.6742,-207.214 chr10 1425601 . A G 20817.2 PASS AB=0.523148;ABP=11.0528;AC=12;AF=0.285714;AN=42;AO=1153;CIGAR=1X;DP=3084;DPB=3084;DPRA=1.82229;EPP=2506.72;EPPR=4183.1;GTI=1;LEN=1;MEANALT=1.07143;MQM=53.431;MQMR=34.8103;NS=21;NUMALT=1;ODDS=7.90868;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41120;QR=69021;RO=1929;RPL=1153;RPP=2506.72;RPPR=4183.1;RPR=0;RUN=1;SAF=1153;SAP=2506.72;SAR=0;SRF=1929;SRP=4191.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:162:80,82:80:2859:82:2901:-212.159,0,-178.252 0/1:223:99,123:99:3524:123:4407:-327.385,0,-216.812 0/0:141:140,1:140:5011:1:36:0,-38.8521,-396.537 0/1:165:57,108:57:2048:108:3864:-297.509,0,-114.259 0/1:301:154,147:154:5489:147:5242:-379.937,0,-343.258 0/0:169:168,0:168:6001:0:0:0,-50.573,-477.296 0/1:210:94,116:94:3372:116:4142:-308.054,0,-210.778 1/1:245:0,245:0:0:245:8739:-783.664,-73.7524,0 0/1:282:143,139:143:5124:139:4962:-360.494,0,-347.626 0/1:31:14,17:14:496:17:608:-45.2189,0,-30.7881 0/0:7:7,0:7:252:0:0:0,-2.10721,-19.891 0/0:42:42,0:42:1512:0:0:0,-12.6433,-120.426 0/0:176:176,0:176:6304:0:0:0,-52.9813,-499.68 0/1:121:48,73:48:1728:73:2603:-197.755,0,-102.042 0/0:200:199,1:199:7136:1:36:0,-56.6128,-562.662 0/0:114:114,0:114:4080:0:0:0,-34.3174,-348.782 0/0:84:84,0:84:3012:0:0:0,-25.2865,-255.73 0/1:131:62,69:62:2228:69:2441:-179.262,0,-138.076 0/1:102:72,30:72:2567:30:1067:-65.4868,0,-171.857 0/0:106:104,2:104:3713:2:72:0,-25.1246,-288.024 0/0:72:72,0:72:2565:0:0:0,-21.6742,-208.281 chr10 1425801 . C T 39199.6 PASS AB=0.53204;ABP=13.5857;AC=30;AF=0.714286;AN=42;AO=1482;CIGAR=1X;DP=2114;DPB=2114;DPRA=0;EPP=3177.85;EPPR=1371.04;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.8171;MQMR=60;NS=21;NUMALT=1;ODDS=6.7112;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52895;QR=22293;RO=630;RPL=820;RPP=39.5883;RPPR=6.1124;RPR=662;RUN=1;SAF=815;SAP=35.1047;SAR=667;SRF=330;SRP=6.1124;SRR=300;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:121:63,58:63:2235:58:2084:-151.405,0,-164.989 0/1:96:47,49:47:1648:49:1748:-128.705,0,-119.706 1/1:75:1,74:1:36:74:2628:-233.136,-18.979,0 0/1:85:47,38:47:1665:38:1340:-95.3097,0,-124.548 0/1:159:67,91:67:2383:91:3245:-244.348,0,-166.805 1/1:94:1,93:1:36:93:3320:-295.42,-24.6985,0 0/1:152:64,87:64:2292:87:3062:-230.127,0,-160.864 0/0:72:71,1:71:2535:1:36:0,-18.0759,-224.803 0/1:182:100,82:100:3546:82:2940:-210.046,0,-264.563 0/1:13:5,8:5:176:8:284:-21.99,0,-12.2716 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:132:0,132:0:0:132:4700:-422.961,-39.736,0 0/1:127:64,63:64:2246:63:2254:-164.892,0,-164.17 1/1:160:0,160:0:0:160:5743:-516.897,-48.1648,0 1/1:77:0,77:0:0:77:2763:-248.42,-23.1793,0 1/1:59:0,59:0:0:59:2098:-187.983,-17.7608,0 0/1:119:47,72:47:1628:72:2580:-196.626,0,-110.98 0/1:132:49,83:49:1723:83:2934:-224.552,0,-115.616 1/1:94:4,90:4:144:90:3220:-276.681,-14.9832,0 1/1:143:0,143:0:0:143:5124:-460.829,-43.0473,0 chr10 1430696 . CTCCATTG TTCCATTA,TTCCCTTA 27157.7 PASS AB=0.514979,0.46505;ABP=4.37638,10.4478;AC=30,12;AF=0.714286,0.285714;AN=42;AO=951,402;CIGAR=1X6M1X,1X3M1X2M1X;DP=1370;DPB=1371;DPRA=0.851316,1.19117;EPP=2068.08,875.942;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.05,2.63636;MQM=48.6688,44.1816;MQMR=0;NS=21;NUMALT=2;ODDS=0.842808;PAIRED=0,0;PAIREDR=0;PAO=3.5,3.5;PQA=96.5,96.5;PQR=0;PRO=0;QA=32855,14043;QR=0;RO=0;RPL=951,402;RPP=2068.08,875.942;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2068.08,875.942;SAR=951,402;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:52:0,33,19:0:0:33,19:1086,677:-139.552,-52.9814,-43.0474,-86.9054,0,-81.1858 1/2:20:0,10,10:0:0:10,10:360,348:-57.2695,-28.0627,-25.0524,-29.5565,0,-26.5462 1/1:77:0,76,0:0:0:76,0:2614,0:-232.626,-22.8783,0,-232.626,-22.8783,-232.626 1/2:55:0,27,28:0:0:27,28:945,990:-154.049,-77.8487,-69.7209,-76.5448,0,-68.1159 1/2:128:0,64,63:0:0:64,63:2197,2203:-349.315,-173.982,-154.717,-175.431,0,-156.466 1/1:67:0,67,0:0:0:67,0:2200,0:-196.829,-20.169,0,-196.829,-20.169,-196.829 1/2:121:0,55,62:0:0:55,62:1901,2187:-325.762,-173.06,-156.503,-152.695,0,-134.031 2/2:76:0,0,76:0:0:0,76:0,2645:-232.841,-232.841,-232.841,-22.8783,-22.8783,0 1/2:134:0,79,51:0:0:79,51:2785,1777:-371.053,-144.35,-120.568,-226.703,0,-211.351 1/2:5:0,2,3:0:0:2,3:42,104:-11.7494,-8.62516,-8.0231,-3.38631,0,-2.48322 1/1:8:0,8,0:0:0:8,0:282,0:-25.0801,-2.40824,0,-25.0801,-2.40824,-25.0801 1/1:28:0,28,0:0:0:28,0:966,0:-86.7522,-8.42884,0,-86.7522,-8.42884,-86.7522 1/1:91:0,91,0:0:0:91,0:3133,0:-279.229,-27.3937,0,-279.229,-27.3937,-279.229 1/2:80:0,29,47:0:0:29,47:1004,1606:-206.034,-125.804,-117.074,-80.2105,0,-66.0621 1/1:112:0,111,0:0:0:111,0:3872,0:-345.206,-33.4143,0,-345.206,-33.4143,-345.206 1/1:10:0,10,0:0:0:10,0:332,0:-29.9264,-3.0103,0,-29.9264,-3.0103,-29.9264 1/1:18:0,17,0:0:0:17,0:567,0:-51.0678,-5.11751,0,-51.0678,-5.11751,-51.0678 1/2:59:0,34,25:0:0:34,25:1214,876:-168.047,-70.244,-60.009,-98.1511,0,-90.6254 1/2:47:0,28,18:0:0:28,18:968,630:-127.316,-49.5763,-41.1474,-77.7883,0,-72.3698 1/1:138:0,138,0:0:0:138,0:4861,0:-432.978,-41.5421,0,-432.978,-41.5421,-432.978 1/1:44:0,44,0:0:0:44,0:1526,0:-136.657,-13.2453,0,-136.657,-13.2453,-136.657 chr10 1432793 . A G 16.9291 PASS AB=0.524003;ABP=10.4115;AC=12;AF=0.285714;AN=42;AO=846;CIGAR=1X;DP=2621;DPB=2621;DPRA=1.37744;EPP=1840.08;EPPR=3855.2;GTI=10;LEN=1;MEANALT=1.08333;MQM=11.9527;MQMR=21.2165;NS=21;NUMALT=1;ODDS=3.87759;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29870;QR=63216;RO=1774;RPL=0;RPP=1840.08;RPPR=3855.2;RPR=846;RUN=1;SAF=0;SAP=1840.08;SAR=846;SRF=0;SRP=3855.2;SRR=1774;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:71:26,45:26:927:45:1594:-27.0771,0,-26.9551 0/1:145:81,64:81:2912:64:2253:-25.037,0,-133.608 0/0:112:112,0:112:3987:0:0:0,-33.7154,-211.895 0/1:147:62,84:62:2184:84:2974:-46.1929,0,-71.9369 0/1:313:155,158:155:5530:158:5593:-75.9322,0,-200.98 0/0:149:149,0:149:5327:0:0:0,-44.8535,-275.95 0/1:217:94,123:94:3337:123:4354:-66.4699,0,-111.348 1/1:70:0,70:0:0:70:2462:-75.5371,-21.0721,0 0/1:277:119,158:119:4264:158:5592:-86.2064,0,-108.284 0/1:19:13,6:13:464:6:216:-0.871538,0,-15.6585 0/0:10:10,0:10:347:0:0:0,-3.0103,-13.5439 0/0:29:29,0:29:1036:0:0:0,-8.72987,-54.8677 0/0:164:164,0:164:5864:0:0:0,-49.3689,-303.248 0/1:145:68,77:68:2396:77:2710:-39.1698,0,-82.5463 0/0:227:227,0:227:8078:0:0:0,-68.3338,-423.545 0/0:86:86,0:86:3051:0:0:0,-25.8886,-146.824 0/0:77:77,0:77:2755:0:0:0,-23.1793,-136.27 0/1:69:33,36:33:1175:36:1249:-17.6894,0,-42.5525 0/1:76:52,24:52:1864:24:837:-3.07772,0,-76.6867 0/0:148:147,1:147:5232:1:36:0,-43.3541,-276.3 0/0:70:70,0:70:2486:0:0:0,-21.0721,-136.14 chr10 1432950 . 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G A 9203.93 PASS AB=0.469534;ABP=5.2596;AC=30;AF=0.714286;AN=42;AO=442;CIGAR=1X;DP=649;DPB=649;DPRA=0.5;EPP=962.801;EPPR=452.505;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.8357;NS=21;NUMALT=1;ODDS=0.267629;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15766;QR=7372;RO=207;RPL=0;RPP=962.801;RPPR=452.505;RPR=442;RUN=1;SAF=0;SAP=962.801;SAR=442;SRF=0;SRP=452.505;SRR=207;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:17,13:17:612:13:464:-33.0666,0,-46.3825 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 0/1:29:12,17:12:432:17:612:-46.6836,0,-30.4913 0/1:36:15,21:15:531:21:741:-56.1745,0,-37.1253 1/1:22:0,22:0:0:22:773:-69.8895,-6.62266,0 0/1:22:11,11:11:378:11:396:-29.3601,0,-27.7265 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.068 0/1:34:24,10:24:855:10:360:-22.5093,0,-67.0352 0/1:6:5,1:5:176:1:36:-1.79209,0,-14.3788 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:69:0,69:0:0:69:2449:-220.665,-20.7711,0 0/1:45:26,19:26:928:19:680:-47.9828,0,-70.291 1/1:86:0,86:0:0:86:3059:-275.538,-25.8886,0 1/1:16:0,16:0:0:16:561:-50.818,-4.81648,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:36:17,19:17:584:19:684:-51.0532,0,-42.0437 0/1:33:15,18:15:540:18:648:-48.7179,0,-39.0025 1/1:49:0,49:0:0:49:1747:-157.514,-14.7505,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 chr10 1469720 . A C 3539.56 PASS AB=0.523466;ABP=4.33513;AC=12;AF=0.285714;AN=42;AO=198;CIGAR=1X;DP=639;DPB=639;DPRA=0.970874;EPP=432.962;EPPR=956.287;GTI=0;LEN=1;MEANALT=1;MQM=59.9596;MQMR=60;NS=21;NUMALT=1;ODDS=0.339198;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7047;QR=15665;RO=439;RPL=0;RPP=432.962;RPPR=956.287;RPR=198;RUN=1;SAF=0;SAP=432.962;SAR=198;SRF=0;SRP=956.287;SRR=439;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:13,16:13:468:16:573:-43.174,0,-33.7298 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:30:17,13:17:608:13:464:-33.0643,0,-46.0211 0/1:35:21,14:21:756:14:504:-35.162,0,-57.8312 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/1:22:11,11:11:392:11:380:-27.9088,0,-28.9974 1/1:53:0,53:0:0:53:1891:-170.468,-15.9546,0 0/1:33:10,23:10:360:23:819:-64.0976,0,-22.8103 0/1:6:1,5:1:36:5:170:-13.828,0,-1.79209 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:68:66,0:66:2355:0:0:0,-19.868,-211.902 0/1:46:20,26:20:703:26:927:-69.8976,0,-49.7461 0/0:86:86,0:86:3084:0:0:0,-25.8886,-277.788 0/0:16:16,0:16:568:0:0:0,-4.81648,-51.4519 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:35:19,16:19:671:16:563:-40.4631,0,-50.1797 0/1:33:18,15:18:644:15:540:-39.0025,0,-48.3566 0/0:49:49,0:49:1720:0:0:0,-14.7505,-155.082 0/0:17:17,0:17:604:0:0:0,-5.11751,-54.6906 chr10 1470655 . A C 16379.5 PASS AB=0.458522;ABP=22.8254;AC=12;AF=0.285714;AN=42;AO=729;CIGAR=1X;DP=2445;DPB=2445;DPRA=1.62066;EPP=1560.06;EPPR=3698.9;GTI=0;LEN=1;MEANALT=1.13333;MQM=56.0412;MQMR=59.9638;NS=21;NUMALT=1;ODDS=10.3919;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25703;QR=60608;RO=1714;RPL=336;RPP=12.6881;RPPR=20.0578;RPR=393;RUN=1;SAF=339;SAP=10.7579;SAR=390;SRF=918;SRP=21.8669;SRR=796;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:88,84:88:3113:84:2949:-213.575,0,-228.62 0/1:94:55,39:55:1956:39:1372:-93.3528,0,-148.011 0/0:78:74,4:74:2623:4:144:0,-10.1786,-223.017 0/1:128:68,60:68:2409:60:2143:-153.979,0,-178.534 0/1:221:126,95:126:4434:95:3368:-236.023,0,-332.705 0/0:109:105,3:105:3726:3:108:0,-22.9575,-325.623 0/1:122:58,64:58:2025:64:2258:-163.029,0,-145.793 1/1:112:0,112:0:0:112:3995:-356.217,-33.7154,0 0/1:160:79,80:79:2818:80:2811:-204.857,0,-205.635 0/1:10:6,4:6:203:4:144:-10.2939,0,-15.5905 0/0:10:10,0:10:341:0:0:0,-3.0103,-31.0178 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:165:165,0:165:5853:0:0:0,-49.6699,-526.886 0/1:133:67,66:67:2358:66:2322:-167.762,0,-172.439 0/0:188:187,1:187:6638:1:36:0,-52.9954,-593.904 0/0:80:80,0:80:2809:0:0:0,-24.0824,-253.049 0/0:122:122,0:122:4338:0:0:0,-36.7257,-390.596 0/1:130:65,65:65:2298:65:2266:-164.385,0,-167.938 0/1:156:105,51:105:3726:51:1751:-110.487,0,-288.582 0/0:148:147,1:147:5183:1:36:0,-40.9593,-462.893 0/0:83:83,0:83:2893:0:0:0,-24.9855,-260.603 chr10 1483302 . T C 39594.5 PASS AB=0.495902;ABP=3.22389;AC=30;AF=0.714286;AN=42;AO=1915;CIGAR=1X;DP=2771;DPB=2771;DPRA=1.1982;EPP=4118.06;EPPR=1850.94;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9943;MQMR=59.9579;NS=21;NUMALT=1;ODDS=6.18745;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68239;QR=30543;RO=855;RPL=1910;RPP=4118.06;RPPR=1859.62;RPR=5;RUN=1;SAF=0;SAP=4161.38;SAR=1915;SRF=1;SRP=1850.94;SRR=854;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:94,57:94:3368:57:2023:-136.887,0,-257.88 0/1:127:61,66:61:2188:66:2334:-172.086,0,-158.955 1/1:151:2,149:2:72:149:5323:-472.366,-38.6188,0 0/1:104:53,51:53:1888:51:1779:-129.08,0,-138.891 0/1:274:146,128:146:5228:128:4566:-328.621,0,-388.176 1/1:121:1,120:1:36:120:4278:-381.598,-32.8264,0 0/1:158:81,77:81:2881:77:2734:-198.739,0,-211.963 0/0:111:111,0:111:3964:0:0:0,-33.4143,-356.952 0/1:235:113,122:113:4036:122:4364:-322.191,0,-292.687 0/1:14:5,9:5:172:9:315:-24.4728,0,-11.6036 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:65:0,65:0:0:65:2310:-208.158,-19.567,0 1/1:151:0,151:0:0:151:5420:-487.928,-45.4555,0 0/1:149:80,69:80:2860:69:2448:-175.72,0,-211.681 1/1:254:1,252:1:36:252:9003:-806.648,-72.9221,0 1/1:127:1,126:1:36:126:4488:-400.489,-34.6325,0 1/1:146:0,146:0:0:146:5225:-470.386,-43.9504,0 0/1:153:70,83:70:2482:83:2939:-218.685,0,-177.573 0/1:99:35,64:35:1260:64:2281:-175.748,0,-83.9035 1/1:112:1,111:1:36:111:3963:-353.249,-30.1171,0 1/1:60:0,60:0:0:60:2122:-191.245,-18.0618,0 chr10 1483358 . CGTAT TGTAT,TGTAC 85479.8 PASS AB=0.53288,0.461073;ABP=15.4335,20.4231;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2278,803;CIGAR=1X4M,1X3M1X;DP=3094;DPB=3094.4;DPRA=0.809444,0.92976;EPP=1398.64,144.821;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.2,2.71429;MQM=59.9153,59.7808;MQMR=60;NS=21;NUMALT=2;ODDS=42.8789;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=81337,27911;QR=36;RO=1;RPL=155,76;RPP=3694.92,1149.05;RPPR=5.18177;RPR=2123,727;RUN=1,1;SAF=689,363;SAP=775.132,19.0435;SAR=1589,440;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:149:0,74,73:0:0:74,73:2651,2527:-421.239,-205.033,-182.757,-216.294,0,-194.319 1/2:58:0,32,26:0:0:32,26:1139,925:-168.302,-75.7417,-66.1087,-92.9157,0,-85.0889 1/1:69:0,67,2:0:0:67,2:2392,62:-215.226,-20.169,0,-210.251,-14.8826,-209.649 1/2:117:0,58,58:0:0:58,58:2050,2045:-333.592,-166.633,-149.173,-167.091,0,-149.631 1/2:155:0,78,77:0:0:78,77:2796,2686:-446.753,-218.806,-195.326,-228.301,0,-205.121 1/1:99:1,98,0:1:36:98,0:3512,0:-312.632,-26.2037,0,-312.933,-29.5009,-315.87 1/2:159:0,74,85:0:0:74,85:2644,2962:-456.806,-241.229,-218.952,-215.93,0,-190.343 2/2:180:0,0,179:0:0:0,179:0,6212:-558.917,-558.917,-558.917,-53.8844,-53.8844,0 1/2:201:0,107,93:0:0:107,93:3774,3247:-571.395,-264.096,-231.886,-307.289,0,-279.293 1/1:189:0,178,10:0:0:178,10:6338,344:-570.167,-53.5833,0,-542.231,-25.6611,-539.221 1/1:348:0,348,0:0:0:348,0:12414,0:-1117.08,-104.758,0,-1117.08,-104.758,-1117.08 1/1:280:0,280,0:0:0:280,0:10018,0:-901.543,-84.2884,0,-901.543,-84.2884,-901.543 1/1:150:0,149,0:0:0:149,0:5331,0:-479.457,-44.8535,0,-479.457,-44.8535,-479.457 1/2:161:0,94,66:0:0:94,66:3367,2239:-456.133,-181.531,-153.234,-274.628,0,-254.76 1/1:134:0,132,1:0:0:132,1:4731,35:-425.593,-39.736,0,-422.745,-36.8931,-422.444 1/1:60:0,60,0:0:0:60,0:2134,0:-192.313,-18.0618,0,-192.313,-18.0618,-192.313 1/1:49:0,49,0:0:0:49,0:1756,0:-158.324,-14.7505,0,-158.324,-14.7505,-158.324 1/2:163:0,74,87:0:0:74,87:2656,3010:-461.089,-244.659,-222.383,-216.5,0,-190.311 1/2:160:0,114,45:0:0:114,45:4070,1581:-460.49,-128.674,-94.3566,-331.809,0,-318.262 1/1:96:0,96,0:0:0:96,0:3415,0:-307.536,-28.8989,0,-307.536,-28.8989,-307.536 1/1:117:0,116,1:0:0:116,1:4149,36:-373.173,-34.9195,0,-370.236,-31.6222,-369.935 chr10 1483372 . GTT TTC,GTC 81704.8 PASS AB=0.555046,0.439602;ABP=37.4351,44.4542;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2324,761;CIGAR=1X1M1X,2M1X;DP=3098;DPB=3097.67;DPRA=0.84023,0.909463;EPP=5049.51,1655.5;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.25,2.5;MQM=59.9096,59.8909;MQMR=0;NS=21;NUMALT=2;ODDS=48.6479;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=81228,26849;QR=0;RO=0;RPL=700,339;RPP=800.752,22.6677;RPPR=0;RPR=1624,422;RUN=1,1;SAF=700,339;SAP=800.752,22.6677;SAR=1624,422;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:148:0,78,68:0:0:78,68:2737,2419:-419.946,-197.205,-173.725,-222.809,0,-202.339 1/2:58:0,33,25:0:0:33,25:1154,885:-166.248,-72.4408,-62.5068,-94.1595,0,-86.6337 1/1:68:0,67,1:0:0:67,1:2356,36:-211.939,-20.169,0,-209.002,-16.8718,-208.701 1/2:117:0,59,56:0:0:59,56:2041,2003:-329.22,-163.372,-145.611,-165.93,0,-149.073 1/2:148:0,79,69:0:0:79,69:2728,2430:-419.79,-198.175,-174.394,-221.964,0,-201.193 1/1:101:0,99,0:0:0:99,0:3493,0:-314.297,-29.802,0,-314.297,-29.802,-314.297 1/2:158:0,76,82:0:0:76,82:2672,2875:-451.796,-234.3,-211.421,-217.848,0,-193.163 2/2:174:0,0,173:0:0:0,173:0,6072:-546.201,-546.201,-546.201,-52.0782,-52.0782,0 1/2:199:0,112,86:0:0:112,86:3899,3069:-567.228,-250.19,-216.475,-317.031,0,-291.142 1/1:196:0,186,10:0:0:186,10:6467,360:-581.769,-55.9916,0,-552.394,-26.2576,-549.384 1/1:356:0,355,0:0:0:355,0:12399,0:-1115.4,-106.866,0,-1115.4,-106.866,-1115.4 1/1:282:0,281,0:0:0:281,0:9898,0:-890.414,-84.5894,0,-890.414,-84.5894,-890.414 1/1:152:0,151,0:0:0:151,0:5287,0:-475.643,-45.4555,0,-475.643,-45.4555,-475.643 1/2:164:0,98,65:0:0:98,65:3411,2261:-461.214,-183.855,-154.354,-277.437,0,-257.87 1/1:135:0,134,1:0:0:134,1:4724,36:-424.96,-40.338,0,-422.022,-37.0408,-421.721 1/1:60:0,60,0:0:0:60,0:2089,0:-188.262,-18.0618,0,-188.262,-18.0618,-188.262 1/1:50:0,50,0:0:0:50,0:1754,0:-158.143,-15.0515,0,-158.143,-15.0515,-158.143 1/2:156:0,75,80:0:0:75,80:2612,2805:-440.625,-228.269,-205.692,-212.365,0,-188.282 1/2:160:0,116,44:0:0:116,44:4050,1562:-457.044,-127.625,-92.7056,-329.772,0,-316.527 1/1:98:0,98,0:0:0:98,0:3390,0:-305.307,-29.5009,0,-305.307,-29.5009,-305.307 1/1:118:0,117,1:0:0:117,1:4067,36:-365.864,-35.2205,0,-362.926,-31.9233,-362.625 chr10 1483428 . TAGA CAGG,CAGA 39007.2 PASS AB=0.474786,0.523311;ABP=8.81398,7.97101;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1215,646;CIGAR=1X2M1X,1X3M;DP=1866;DPB=1866;DPRA=0.921875,1.7548;EPP=2641.35,1405.78;EPPR=0;GTI=2;LEN=4,1;MEANALT=1.7,2.1;MQM=47.3621,59.3576;MQMR=0;NS=21;NUMALT=2;ODDS=0.601815;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43166,23162;QR=0;RO=0;RPL=0,0;RPP=2641.35,1405.78;RPPR=0;RPR=1215,646;RUN=1,1;SAF=1215,646;SAP=2641.35,1405.78;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:75:0,34,41:0:0:34,41:1212,1459:-215.847,-118.957,-108.722,-97.2425,0,-84.9002 1/2:75:0,33,42:0:0:33,42:1145,1508:-215.527,-123.305,-113.371,-92.5723,0,-79.9291 1/1:108:0,106,0:0:0:106,0:3782,0:-333.222,-31.9092,0,-333.222,-31.9092,-333.222 1/2:114:0,54,60:0:0:54,60:1915,2152:-329.721,-175.828,-159.572,-154.247,0,-136.186 1/2:257:0,112,144:0:0:112,144:4000,5174:-743.476,-421.674,-387.959,-321.8,0,-278.452 1/1:125:0,125,0:0:0:125,0:4418,0:-392.983,-37.6288,0,-392.983,-37.6288,-392.983 1/2:141:0,73,68:0:0:73,68:2593,2448:-409.227,-200.022,-178.047,-209.561,0,-189.091 2/2:96:0,0,96:0:0:0,96:0,3444:-310.149,-310.149,-310.149,-28.8989,-28.8989,0 1/2:202:0,102,100:0:0:102,100:3614,3570:-582.27,-291.074,-260.369,-291.549,0,-261.446 1/1:5:0,5,0:0:0:5,0:180,0:-16.4378,-1.50515,0,-16.4378,-1.50515,-16.4378 1/1:10:0,10,0:0:0:10,0:360,0:-32.5668,-3.0103,0,-32.5668,-3.0103,-32.5668 1/1:22:0,22,0:0:0:22,0:775,0:-69.6238,-6.62266,0,-69.6238,-6.62266,-69.6238 1/1:102:0,102,0:0:0:102,0:3631,0:-322.884,-30.7051,0,-322.884,-30.7051,-322.884 1/2:93:0,47,46:0:0:47,46:1666,1656:-269.65,-135.424,-121.276,-134.581,0,-120.734 1/1:115:0,114,0:0:0:114,0:4059,0:-361.392,-34.3174,0,-361.392,-34.3174,-361.392 1/1:64:0,64,0:0:0:64,0:2274,0:-203.45,-19.2659,0,-203.45,-19.2659,-203.45 1/1:83:0,83,0:0:0:83,0:2937,0:-262.634,-24.9855,0,-262.634,-24.9855,-262.634 1/2:45:0,13,31:0:0:13,31:467,1103:-127.718,-89.895,-85.9816,-37.8429,0,-28.5109 1/2:49:0,31,18:0:0:31,18:1096,648:-141.006,-53.2149,-43.883,-88.1463,0,-82.7277 1/1:40:0,40,0:0:0:40,0:1435,0:-128.593,-12.0412,0,-128.593,-12.0412,-128.593 1/1:45:0,45,0:0:0:45,0:1607,0:-142.969,-13.5464,0,-142.969,-13.5464,-142.969 chr10 1517756 . G A 2360.13 PASS AB=0.184902;ABP=791.241;AC=12;AF=0.285714;AN=42;AO=206;CIGAR=1X;DP=1891;DPB=1891;DPRA=1.07764;EPP=84.6408;EPPR=29.3944;GTI=4;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9899;NS=21;NUMALT=1;ODDS=2.18171;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7349;QR=59740;RO=1683;RPL=204;RPP=433.13;RPPR=3562.68;RPR=2;RUN=1;SAF=61;SAP=77.3885;SAR=145;SRF=759;SRP=38.1371;SRR=924;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:108:89,19:89:3147:19:680:-29.0179,0,-250.918 0/1:38:30,8:30:1068:8:288:-14.8283,0,-84.9929 0/0:113:113,0:113:4018:0:0:0,-34.0164,-361.81 0/1:80:68,11:68:2412:11:392:-11.4792,0,-193.196 0/1:147:126,21:126:4438:21:752:-23.7548,0,-355.346 0/0:72:72,0:72:2571:0:0:0,-21.6742,-231.639 0/1:73:56,17:56:1995:17:608:-33.0768,0,-157.848 1/1:36:0,36:0:0:36:1277:-115.231,-10.8371,0 0/1:175:144,31:144:5118:31:1108:-47.3507,0,-408.085 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/0:12:12,0:12:415:0:0:0,-3.61236,-37.6803 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/0:165:164,1:164:5813:1:36:0,-46.0717,-519.69 0/1:94:79,15:79:2808:15:536:-20.278,0,-224.664 0/0:233:232,0:232:8263:0:0:0,-69.839,-743.326 0/0:86:86,0:86:3043:0:0:0,-25.8886,-274.102 0/0:108:108,0:108:3838:0:0:0,-32.5112,-345.618 0/1:37:23,14:23:820:14:504:-34.56,0,-62.9844 0/1:155:124,31:124:4400:31:1096:-52.2903,0,-349.515 0/0:63:63,0:63:2226:0:0:0,-18.9649,-200.604 0/0:61:61,0:61:2167:0:0:0,-18.3628,-195.296 chr10 1518872 . T A,G 22991.9 PASS AB=0.497207,0.502793;ABP=3.04669,3.04669;AC=31,11;AF=0.738095,0.261905;AN=42;AO=763,317;CIGAR=1X,1X;DP=1080;DPB=1080;DPRA=1.12391,1.44539;EPP=1659.84,691.367;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.5,1.90909;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.16709;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27245,11138;QR=0;RO=0;RPL=0,0;RPP=1659.84,691.367;RPPR=0;RPR=763,317;RUN=1,1;SAF=0,0;SAP=1659.84,691.367;SAR=763,317;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:42:0,24,18:0:0:24,18:858,620:-120.668,-50.7016,-43.4769,-70.3165,0,-64.898 1/2:37:0,12,25:0:0:12,25:428,872:-106.16,-71.2679,-67.6555,-35.2464,0,-27.7207 1/1:38:0,38,0:0:0:38,0:1356,0:-122.34,-11.4391,0,-122.34,-11.4391,-122.34 1/2:34:0,23,11:0:0:23,11:809,377:-96.8057,-30.9466,-24.0229,-66.2046,0,-62.8933 1/2:107:0,46,61:0:0:46,61:1641,2155:-309.63,-175.854,-162.007,-134.13,0,-115.767 1/1:62:0,62,0:0:0:62,0:2216,0:-199.705,-18.6639,0,-199.705,-18.6639,-199.705 1/2:58:0,26,32:0:0:26,32:920,1136:-167.851,-92.9154,-85.0886,-75.2903,0,-65.6573 2/2:46:0,0,46:0:0:0,46:0,1587:-143.114,-143.114,-143.114,-13.8474,-13.8474,0 1/2:71:0,39,32:0:0:39,32:1395,1136:-206.669,-92.9159,-81.1758,-114.109,0,-104.476 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/1:133:0,133,0:0:0:133,0:4767,0:-429.186,-40.037,0,-429.186,-40.037,-429.186 1/2:60:0,27,33:0:0:27,33:951,1175:-173.546,-96.123,-87.9952,-77.7765,0,-67.8425 1/1:93:0,93,0:0:0:93,0:3340,0:-300.816,-27.9958,0,-300.816,-27.9958,-300.816 1/1:23:0,23,0:0:0:23,0:824,0:-74.4833,-6.92369,0,-74.4833,-6.92369,-74.4833 1/1:23:0,23,0:0:0:23,0:824,0:-74.4833,-6.92369,0,-74.4833,-6.92369,-74.4833 1/2:70:0,38,32:0:0:38,32:1351,1116:-201.213,-91.1138,-79.6747,-110.45,0,-100.817 1/2:58:0,32,26:0:0:32,26:1148,928:-169.651,-76.0115,-66.3785,-93.9969,0,-86.1701 1/1:80:0,79,1:0:0:79,1:2801,36:-251.97,-23.7814,0,-249.033,-20.4841,-248.732 1/1:17:0,17,0:0:0:17,0:612,0:-55.4134,-5.11751,0,-55.4134,-5.11751,-55.4134 chr10 1590039 . T C 9798.61 PASS AB=0.473239;ABP=9.63482;AC=12;AF=0.285714;AN=42;AO=571;CIGAR=1X;DP=2033;DPB=2033;DPRA=1.07168;EPP=1242.92;EPPR=3177.7;GTI=0;LEN=1;MEANALT=1;MQM=59.725;MQMR=59.6792;NS=21;NUMALT=1;ODDS=11.0825;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20411;QR=52457;RO=1462;RPL=571;RPP=1242.92;RPPR=3177.7;RPR=0;RUN=1;SAF=0;SAP=1242.92;SAR=571;SRF=0;SRP=3177.7;SRR=1462;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:60,52:60:2156:52:1856:-133.6,0,-159.81 0/1:54:28,26:28:1000:26:936:-68.2915,0,-74.0499 0/0:74:74,0:74:2656:0:0:0,-22.2762,-239.286 0/1:66:28,38:28:1004:38:1364:-103.183,0,-70.8079 0/1:192:115,77:115:4132:77:2746:-189.577,0,-314.059 0/0:95:95,0:95:3412:0:0:0,-28.5978,-307.012 0/1:166:74,92:74:2656:92:3292:-246.51,0,-189.258 1/1:66:0,66:0:0:66:2368:-213.278,-19.868,0 0/1:217:118,99:118:4232:99:3538:-253.303,0,-315.178 0/1:30:14,16:14:504:16:568:-42.4151,0,-36.6639 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:127:127,0:127:4541:0:0:0,-38.2308,-408.763 0/1:73:40,33:40:1440:33:1180:-84.5329,0,-107.547 0/0:310:310,0:310:11116:0:0:0,-93.3193,-1000.14 0/0:84:84,0:84:3016:0:0:0,-25.2865,-271.255 0/0:65:64,1:64:2296:1:32:0,-16.3676,-203.697 0/1:109:58,51:58:2084:51:1815:-130.807,0,-155.014 0/1:46:26,20:26:932:20:716:-50.9188,0,-70.3499 0/0:93:93,0:93:3336:0:0:0,-27.9958,-300.075 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 chr10 1590054 . G A 30209.2 PASS AB=0.524034;ABP=8.33358;AC=30;AF=0.714286;AN=42;AO=1448;CIGAR=1X;DP=2021;DPB=2021;DPRA=1.45821;EPP=3147.3;EPPR=1247.26;GTI=0;LEN=1;MEANALT=1;MQM=59.7307;MQMR=59.6754;NS=21;NUMALT=1;ODDS=10.4478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51884;QR=20515;RO=573;RPL=1448;RPP=3147.3;RPPR=1247.26;RPR=0;RUN=1;SAF=0;SAP=3147.3;SAR=1448;SRF=0;SRP=1247.26;SRR=573;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:112:53,59:53:1900:59:2108:-156.269,0,-137.47 0/1:55:27,28:27:968:28:1008:-74.4678,0,-70.8683 1/1:74:0,74:0:0:74:2660:-239.645,-22.2762,0 0/1:65:38,27:38:1368:27:968:-67.8704,0,-103.851 0/1:189:78,111:78:2788:111:3984:-301.755,0,-194.234 1/1:95:0,95:0:0:95:3400:-305.935,-28.5979,0 0/1:164:89,75:89:3192:75:2681:-192.107,0,-238.116 0/0:67:67,0:67:2412:0:0:0,-20.169,-217.236 0/1:221:101,120:101:3612:120:4305:-320.541,0,-258.74 0/1:29:16,13:16:576:13:456:-32.6414,0,-43.4355 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:128:0,128:0:0:128:4573:-411.641,-38.5318,0 0/1:72:33,39:33:1176:39:1385:-102.897,0,-84.4736 1/1:304:0,304:0:0:304:10908:-981.543,-91.5131,0 1/1:84:0,84:0:0:84:3004:-270.176,-25.2865,0 1/1:64:1,63:1:36:63:2260:-200.06,-15.6676,0 0/1:110:52,58:52:1847:58:2076:-153.994,0,-133.385 0/1:44:18,26:18:640:26:936:-71.3126,0,-44.6824 1/1:90:0,90:0:0:90:3228:-290.631,-27.0927,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 chr10 1590085 . CATGTT TTTGTT,TGTGTT 78097.6 PASS AB=0.539641,0.454017;ABP=28.8338,37.7584;AC=29,13;AF=0.690476,0.309524;AN=42;AO=2512,1003;CIGAR=2X4M,2X4M;DP=3537;DPB=3536.83;DPRA=1.3878,1.43524;EPP=5234.25,694.125;EPPR=5.18177;GTI=1;LEN=2,2;MEANALT=2.6,2.66667;MQM=55.2217,45.7188;MQMR=60;NS=21;NUMALT=2;ODDS=14.7227;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=88253,35349;QR=36;RO=1;RPL=26,219;RPP=5234.25,694.125;RPPR=5.18177;RPR=2486,784;RUN=1,1;SAF=2512,1003;SAP=5457.75,2181;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:176:0,104,71:0:0:104,71:3666,2495:-495.8,-197.888,-166.581,-297.917,0,-276.543 1/2:170:0,92,77:0:0:92,77:3221,2743:-481.804,-220.112,-192.417,-261.756,0,-238.576 1/1:156:0,149,7:0:0:149,7:5268,252:-473.258,-44.8535,0,-452.864,-24.1026,-450.757 1/2:281:0,131,150:0:0:131,150:4645,5271:-796.152,-418.552,-379.117,-377.949,0,-332.794 1/2:303:0,178,124:0:0:178,124:6250,4371:-855.379,-347.512,-293.929,-507.854,0,-470.526 1/1:242:0,238,2:0:0:238,2:8399,72:-753.829,-71.6451,0,-748.026,-65.796,-747.424 1/2:231:1,119,110:1:36:119,110:4103,3837:-636.662,-304.272,-271.387,-329.782,0,-299.607 2/2:123:0,0,121:0:0:0,121:0,4264:-377.835,-377.835,-377.835,-36.4246,-36.4246,0 1/2:268:0,147,120:0:0:147,120:5145,4277:-760.39,-342.13,-297.879,-418.271,0,-382.147 1/2:28:0,11,13:0:0:11,13:383,468:-68.725,-37.6291,-34.3178,-31.1219,0,-27.2085 1/1:36:0,35,1:0:0:35,1:1236,36:-110.969,-10.5361,0,-108.033,-7.2414,-107.732 1/2:76:0,67,9:0:0:67,9:2381,300:-217.673,-24.0487,-3.87973,-193.954,0,-191.245 1/1:192:0,185,7:0:0:185,7:6484,252:-582.554,-55.6906,0,-562.088,-34.8662,-559.98 1/2:192:0,90,101:0:0:90,101:3068,3567:-532.634,-284.125,-257.033,-248.581,0,-218.177 1/1:263:0,261,1:0:0:261,1:9215,36:-827.878,-78.5688,0,-825.027,-75.6906,-824.726 1/1:173:0,170,0:0:0:170,0:5997,0:-538.965,-51.1751,0,-538.965,-51.1751,-538.965 1/1:127:0,127,0:0:0:127,0:4468,0:-401.846,-38.2308,0,-401.846,-38.2308,-401.846 1/2:110:0,42,67:0:0:42,67:1481,2318:-306.988,-186.737,-174.093,-120.24,0,-100.071 1/2:57:0,40,17:0:0:40,17:1405,610:-163.324,-49.1535,-37.1123,-114.522,0,-109.405 1/1:265:0,259,5:0:0:259,5:9045,180:-812.063,-77.9668,0,-797.605,-63.5018,-796.1 1/1:68:0,67,0:0:0:67,0:2393,0:-214.821,-20.169,0,-214.821,-20.169,-214.821 chr10 1590114 . GGA GGT,CGT 159641 PASS AB=0.589186,0.40455;ABP=212.555,243.026;AC=30,12;AF=0.714286,0.285714;AN=42;AO=4516,1449;CIGAR=2M1X,1X1M1X;DP=5998;DPB=6000.67;DPRA=0,1.61106;EPP=9809.38,3149.47;EPPR=13.8677;GTI=0;LEN=1,3;MEANALT=2.85714,3.26667;MQM=57.1838,51.6611;MQMR=59;NS=21;NUMALT=2;ODDS=68.8896;PAIRED=0,0;PAIREDR=0;PAO=1,6;PQA=0,212;PQR=0;PRO=1;QA=159571,50156;QR=134;RO=5;RPL=2552,672;RPP=169.258,19.5324;RPPR=6.91895;RPR=1964,777;RUN=1,1;SAF=2552,672;SAP=169.258,19.5324;SAR=1964,777;SRF=4;SRP=6.91895;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:386:0,218,163:0:0:218,163:7652,5550:-1066.77,-444.554,-378.93,-622.24,0,-573.172 1/2:231:0,130,101:0:0:130,101:4626,3512:-658.969,-282.432,-243.298,-376.527,0,-346.123 1/1:265:0,263,1:0:0:263,1:9296,36:-835.644,-79.1709,0,-832.793,-76.3243,-832.492 1/2:316:0,173,141:0:0:173,141:6176,4890:-888.587,-385.966,-333.887,-502.653,0,-460.208 1/2:522:1,298,219:1:28:298,219:10488,7638:-1464.6,-612.02,-524.531,-850.671,0,-786.963 1/1:349:0,347,1:0:0:347,1:12289,36:-1104.07,-104.457,0,-1101.2,-101.518,-1100.9 1/2:353:1,236,113:1:36:236,113:8338,3942:-990.044,-312.543,-244.438,-674.903,0,-643.824 2/2:222:0,8,214:0:0:8,214:284,7313:-652.247,-629.163,-626.755,-64.4204,-41.3418,0 1/2:565:0,305,258:0:0:305,258:10775,8999:-1603.32,-726.328,-634.513,-877.057,0,-799.392 1/2:55:0,32,23:0:0:32,23:1119,796:-154.753,-64.5305,-54.8975,-90.5673,0,-83.6436 1/1:41:0,41,0:0:0:41,0:1451,0:-130.674,-12.3422,0,-130.674,-12.3422,-130.674 1/1:123:0,123,0:0:0:123,0:4353,0:-390.446,-37.0267,0,-390.446,-37.0267,-390.446 1/1:352:0,349,0:0:0:349,0:12386,0:-1113.53,-105.059,0,-1113.53,-105.059,-1113.53 1/2:299:0,162,137:0:0:162,137:5664,4716:-836.869,-376.97,-328.203,-460.243,0,-419.002 1/1:540:0,535,3:0:0:535,3:18890,108:-1698.46,-161.051,0,-1689.82,-152.41,-1688.92 1/1:299:1,296,0:1:21:296,0:10494,0:-941.456,-87.5325,0,-941.757,-89.1049,-943.346 1/1:269:0,269,0:0:0:269,0:9440,0:-848.95,-80.9771,0,-848.95,-80.9771,-848.95 1/2:180:0,139,40:0:0:139,40:4934,1401:-514.339,-113.138,-71.295,-401.272,0,-389.23 1/2:126:0,94,32:0:0:94,32:3285,1111:-356.849,-89.7828,-61.486,-267.411,0,-257.778 1/1:396:2,390,3:2:49:390,3:13851,108:-1239.85,-113.619,0,-1231.85,-108.74,-1234.75 1/1:109:0,108,0:0:0:108,0:3780,0:-339.592,-32.5112,0,-339.592,-32.5112,-339.592 chr10 1590156 . T A 13034.7 PASS AB=0.416292;ABP=97.8935;AC=12;AF=0.285714;AN=42;AO=776;CIGAR=1X;DP=3006;DPB=3006;DPRA=1.5;EPP=1688.07;EPPR=4845.39;GTI=0;LEN=1;MEANALT=1;MQM=59.6211;MQMR=59.9399;NS=21;NUMALT=1;ODDS=24.1081;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27809;QR=79760;RO=2230;RPL=776;RPP=1688.07;RPPR=4845.39;RPR=0;RUN=1;SAF=0;SAP=1688.07;SAR=776;SRF=0;SRP=4845.39;SRR=2230;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:267:151,116:151:5409:116:4157:-293.856,0,-406.561 0/1:89:42,47:42:1466:47:1692:-125.731,0,-105.439 0/0:122:122,0:122:4369:0:0:0,-36.7257,-393.382 0/1:75:45,30:45:1616:30:1061:-73.222,0,-123.153 0/1:285:151,134:151:5375:134:4774:-343.976,0,-398.086 0/0:134:134,0:134:4801:0:0:0,-40.338,-432.243 0/1:158:110,48:110:3929:48:1724:-107.792,0,-306.239 1/1:128:2,126:2:72:126:4520:-400.094,-31.6951,0 0/1:329:180,149:180:6445:149:5364:-383.839,0,-481.039 0/1:38:23,15:23:828:15:540:-37.4974,0,-63.3259 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9804 0/0:49:49,0:49:1749:0:0:0,-14.7505,-157.683 0/0:178:178,0:178:6369:0:0:0,-53.5833,-573.268 0/1:136:73,63:73:2598:63:2253:-162.087,0,-193.125 0/0:317:316,1:316:11303:1:36:0,-91.8282,-1013.55 0/0:144:144,0:144:5164:0:0:0,-43.3483,-464.863 0/0:165:165,0:165:5909:0:0:0,-49.6699,-531.915 0/1:102:76,26:76:2728:26:932:-53.48,0,-215.056 0/1:80:59,21:59:2120:21:756:-44.2839,0,-166.986 0/0:151:151,0:151:5390:0:0:0,-45.4555,-485.216 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 chr10 1625229 . GT CC,CT 24255.2 PASS AB=0.487069,0.511494;ABP=4.02116,3.809;AC=30,12;AF=0.714286,0.285714;AN=42;AO=746,440;CIGAR=2X,1X1M;DP=1189;DPB=1189.5;DPRA=0.657738,1.79786;EPP=1622.93,958.458;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.65,2.16667;MQM=50.0912,59.3523;MQMR=0;NS=21;NUMALT=2;ODDS=1.3191;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=26005,15728;QR=0;RO=0;RPL=746,440;RPP=1622.93,958.458;RPPR=0;RPR=0,0;RUN=1,1;SAF=746,440;SAP=1622.93,958.458;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:73:0,41,32:0:0:41,32:1418,1137:-207.808,-92.995,-80.6528,-115.163,0,-105.53 1/2:50:0,24,26:0:0:24,26:847,924:-143.831,-75.65,-68.4252,-68.5331,0,-60.7063 1/1:33:0,33,0:0:0:33,0:1160,0:-103.962,-9.93399,0,-103.962,-9.93399,-103.962 1/2:83:0,41,41:0:0:41,41:1421,1464:-234.394,-119.414,-107.071,-115.078,0,-102.736 1/2:119:0,51,68:0:0:51,68:1776,2421:-341.231,-197.338,-181.986,-144.243,0,-123.773 1/1:18:0,18,0:0:0:18,0:631,0:-56.524,-5.41854,0,-56.524,-5.41854,-56.524 1/2:90:0,43,47:0:0:43,47:1535,1688:-261.733,-138.039,-125.095,-124.049,0,-109.901 2/2:84:0,0,83:0:0:0,83:0,2975:-267.662,-267.662,-267.662,-24.9855,-24.9855,0 1/2:96:0,34,62:0:0:34,62:1202,2220:-278.205,-181.308,-171.073,-97.2499,0,-78.586 1/2:11:0,10,1:0:0:10,1:343,36:-30.84,-3.29724,-0.286945,-27.9007,0,-27.5997 1/1:10:0,10,0:0:0:10,0:358,0:-32.3001,-3.0103,0,-32.3001,-3.0103,-32.3001 1/1:8:0,8,0:0:0:8,0:272,0:-24.6029,-2.40824,0,-24.6029,-2.40824,-24.6029 1/1:43:0,43,0:0:0:43,0:1499,0:-133.801,-12.9443,0,-133.801,-12.9443,-133.801 1/2:67:0,37,30:0:0:37,30:1274,1076:-189.777,-87.9626,-76.8244,-102.164,0,-93.1336 1/1:83:0,83,0:0:0:83,0:2898,0:-257.504,-24.9855,0,-257.504,-24.9855,-257.504 1/1:55:0,55,0:0:0:55,0:1869,0:-166.884,-16.5567,0,-166.884,-16.5567,-166.884 1/1:60:0,60,0:0:0:60,0:2070,0:-182.488,-18.0618,0,-182.488,-18.0618,-182.488 1/2:62:0,28,34:0:0:28,34:976,1215:-178.239,-99.4199,-90.9911,-79.1701,0,-68.935 1/2:45:0,30,15:0:0:30,15:1047,540:-128.687,-44.4211,-35.3902,-84.6212,0,-80.1057 1/1:59:0,57,1:0:0:57,1:1990,32:-178.364,-17.1587,0,-175.786,-14.5453,-175.485 1/1:40:0,40,0:0:0:40,0:1419,0:-126.41,-12.0412,0,-126.41,-12.0412,-126.41 chr10 1636252 . CGGTGGTGGGTTGA CGGTGGTGGTGGGTTGA 10690.9 PASS AB=0.453608;ABP=24.7698;AC=12;AF=0.285714;AN=42;AO=643;CIGAR=1M3I13M;DP=2111;DPB=2251.93;DPRA=1.38482;EPP=1399.27;EPPR=3114.73;GTI=1;LEN=3;MEANALT=2.92857;MQM=60;MQMR=59.9979;NS=21;NUMALT=1;ODDS=1.79128;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22509;QR=49981;RO=1433;RPL=0;RPP=1399.27;RPPR=3114.73;RPR=643;RUN=1;SAF=643;SAP=1399.27;SAR=0;SRF=1433;SRP=3114.73;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:21,19:21:735:19:669:-48.4927,0,-54.4317 0/1:105:43,58:43:1504:58:2041:-153.197,0,-104.89 0/0:91:91,0:91:3171:0:0:0,-27.3937,-285.62 0/1:179:95,82:95:3325:82:2885:-206.319,0,-245.906 0/1:213:107,102:107:3749:102:3574:-258.668,0,-274.414 0/0:69:69,0:69:2411:0:0:0,-20.7711,-217.248 0/1:142:79,61:79:2765:61:2153:-151.532,0,-206.592 1/1:112:0,110:0:0:110:3830:-344.536,-33.1133,0 0/1:113:51,56:51:1785:56:1984:-146.294,0,-128.392 0/1:14:2,12:2:70:12:424:-34.282,0,-2.43291 0/0:14:14,0:14:501:0:0:0,-4.21442,-45.4268 0/0:55:54,1:54:1890:1:36:0,-12.9584,-166.781 0/0:152:151,0:151:5299:0:0:0,-45.4555,-476.698 0/1:117:63,48:63:2187:48:1590:-109.603,0,-163.325 0/0:153:151,1:151:5260:1:36:0,-42.4432,-470.032 0/0:88:86,0:86:3000:0:0:0,-25.8886,-269.951 0/0:67:63,3:63:2177:3:108:0,-10.1526,-186.124 0/1:137:69,66:69:2411:66:2327:-168.692,0,-176.25 0/1:104:79,24:79:2736:24:852:-45.6347,0,-215.119 0/0:90:89,0:89:3052:0:0:0,-26.7917,-274.703 0/0:56:56,0:56:1953:0:0:0,-16.8577,-176.045 chr10 1641316 . C T 4449.82 PASS AB=0.448845;ABP=9.89738;AC=29;AF=0.690476;AN=42;AO=346;CIGAR=1X;DP=551;DPB=551;DPRA=1.91786;EPP=754.34;EPPR=445.991;GTI=0;LEN=1;MEANALT=1.05;MQM=29.0347;MQMR=40.5392;NS=21;NUMALT=1;ODDS=2.02382;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12288;QR=7296;RO=204;RPL=0;RPP=754.34;RPPR=445.991;RPR=346;RUN=1;SAF=0;SAP=754.34;SAR=346;SRF=0;SRP=445.991;SRR=204;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:25,29:25:896:29:1032:-59.8359,0,-62.4467 0/0:26:23,3:23:824:3:104:0,-0.473908,-62.808 1/1:25:1,24:1:32:24:856:-59.172,-4.36712,0 0/1:24:15,9:15:532:9:320:-16.3987,0,-39.7007 0/1:74:52,22:52:1868:22:776:-34.2163,0,-140.616 1/1:29:0,29:0:0:29:1028:-69.1486,-8.72987,0 0/1:48:23,25:23:824:25:880:-44.9386,0,-54.8423 0/0:14:14,0:14:496:0:0:0,-4.21442,-43.2945 0/1:33:12,21:12:428:21:752:-46.4547,0,-28.2196 0/1:11:4,7:4:144:7:248:-14.3663,0,-8.95994 1/1:4:0,4:0:0:4:144:-9.79982,-1.20412,0 1/1:17:0,17:0:0:17:608:-42.603,-5.11751,0 1/1:26:0,26:0:0:26:916:-66.7538,-7.82678,0 0/1:36:25,10:25:892:10:352:-15.3901,0,-66.9851 1/1:44:0,44:0:0:44:1568:-111.143,-13.2453,0 1/1:13:0,13:0:0:13:456:-34.2415,-3.91339,0 1/1:9:0,9:0:0:9:324:-25.3173,-2.70927,0 0/1:18:8,10:8:288:10:360:-19.4279,0,-19.7992 0/1:5:2,3:2:72:3:108:-6.62259,0,-5.14998 1/1:36:0,36:0:0:36:1276:-88.9857,-10.8371,0 1/1:5:0,5:0:0:5:180:-12.1836,-1.50515,0 chr10 1691281 . A G 10837.8 PASS AB=0.442462;ABP=35.2453;AC=12;AF=0.285714;AN=42;AO=619;CIGAR=1X;DP=2128;DPB=2128;DPRA=1.74949;EPP=1287.04;EPPR=3116.81;GTI=0;LEN=1;MEANALT=1;MQM=59.9386;MQMR=60;NS=21;NUMALT=1;ODDS=9.92721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22008;QR=53550;RO=1509;RPL=613;RPP=1295.54;RPPR=3116.81;RPR=6;RUN=1;SAF=618;SAP=1338.48;SAR=1;SRF=1509;SRP=3279.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:93,75:93:3296:75:2653:-188.444,0,-246.289 0/1:54:28,26:28:977:26:927:-67.4917,0,-71.9849 0/0:70:70,0:70:2466:0:0:0,-21.0721,-222.192 0/1:95:47,48:47:1675:48:1724:-126.848,0,-122.439 0/1:192:125,67:125:4445:67:2404:-158.816,0,-342.424 0/0:140:137,3:137:4852:3:108:0,-32.069,-426.762 0/1:174:97,77:97:3471:77:2712:-191.814,0,-260.222 1/1:117:0,117:0:0:117:4154:-374.043,-35.2205,0 0/1:175:101,74:101:3576:74:2637:-184.897,0,-269.371 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/0:179:178,1:178:6339:1:36:0,-50.2861,-567.007 0/1:140:82,58:82:2907:58:2071:-144.516,0,-219.723 0/0:221:221,0:221:7873:0:0:0,-66.5276,-708.6 0/0:33:33,0:33:1165:0:0:0,-9.93399,-105.155 0/0:63:62,1:62:2150:1:36:0,-15.3666,-190.167 0/1:73:28,45:28:1000:45:1574:-119.974,0,-68.3402 0/1:35:20,15:20:716:15:540:-38.4005,0,-54.2317 0/0:112:111,1:111:3957:1:36:0,-30.1171,-352.723 0/0:28:28,0:28:969:0:0:0,-8.42884,-87.5196 chr10 1691375 . A G 23366.1 PASS AB=0.509607;ABP=3.88644;AC=30;AF=0.714286;AN=42;AO=1262;CIGAR=1X;DP=1881;DPB=1881;DPRA=1.11111;EPP=2743.41;EPPR=1344.98;GTI=0;LEN=1;MEANALT=1.05;MQM=59.7306;MQMR=59.9434;NS=21;NUMALT=1;ODDS=6.16543;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42563;QR=22006;RO=618;RPL=0;RPP=2743.41;RPPR=1344.98;RPR=1262;RUN=1;SAF=0;SAP=2743.41;SAR=1262;SRF=0;SRP=1344.98;SRR=618;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:129:70,59:70:2480:59:1974:-139.095,0,-184.619 0/1:54:24,30:24:864:30:1015:-75.3975,0,-61.8269 1/1:88:0,88:0:0:88:2939:-264.74,-26.4906,0 0/1:164:73,91:73:2616:91:3046:-224.988,0,-186.318 0/1:211:108,103:108:3865:103:3519:-253.385,0,-284.515 1/1:81:0,81:0:0:81:2682:-241.616,-24.3834,0 0/1:127:67,60:67:2400:60:1977:-139.961,0,-178.026 0/0:81:81,0:81:2872:0:0:0,-24.3834,-258.701 0/1:117:52,65:52:1830:65:2227:-165.363,0,-129.759 0/1:10:6,4:6:216:4:136:-9.56524,0,-16.7802 1/1:14:0,14:0:0:14:488:-44.2491,-4.21442,0 1/1:22:0,22:0:0:22:754:-68.1758,-6.62266,0 1/1:136:0,136:0:0:136:4643:-418.016,-40.9401,0 0/1:141:62,78:62:2188:78:2597:-191.513,0,-154.719 1/1:138:0,138:0:0:138:4755:-428.021,-41.5421,0 1/1:51:0,51:0:0:51:1728:-155.775,-15.3525,0 1/1:62:0,62:0:0:62:2090:-188.347,-18.6639,0 0/1:87:49,38:49:1743:38:1256:-87.1376,0,-130.964 0/1:53:24,29:24:860:29:940:-68.943,0,-61.7672 1/1:83:2,81:2:72:81:2728:-238.918,-18.1488,0 1/1:32:0,32:0:0:32:1069:-96.5087,-9.63296,0 chr10 1691390 . A T,G 40482.5 PASS AB=0.531139,0.467972;ABP=12.4767,13.0253;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1341,605;CIGAR=1X,1X;DP=1947;DPB=1947;DPRA=1.21429,1.4625;EPP=2897.61,1282.24;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.55,1.91667;MQM=59.7069,59.9223;MQMR=60;NS=21;NUMALT=2;ODDS=9.88421;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46665,21547;QR=36;RO=1;RPL=2,4;RPP=2897.61,1282.24;RPPR=5.18177;RPR=1339,601;RUN=1,1;SAF=0,0;SAP=2914.95,1316.75;SAR=1341,605;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:130:0,60,70:0:0:60,70:2084,2500:-373.548,-204.181,-186.119,-169.719,0,-148.647 1/2:55:0,31,24:0:0:31,24:1070,864:-157.776,-70.8578,-61.5259,-87.2717,0,-80.047 1/1:93:0,93,0:0:0:93,0:3197,0:-287.935,-27.9958,0,-287.935,-27.9958,-287.935 1/2:172:1,98,73:1:36:98,73:3436,2594:-487.563,-208.279,-181.715,-276.641,0,-257.604 1/2:217:0,112,105:0:0:112,105:3951,3748:-627.59,-305.911,-272.196,-322.033,0,-290.425 1/1:86:0,86,0:0:0:86,0:2985,0:-268.871,-25.8886,0,-268.871,-25.8886,-268.871 1/2:133:0,68,65:0:0:68,65:2359,2318:-381.054,-189.313,-168.843,-192.093,0,-172.526 2/2:77:0,0,77:0:0:0,77:0,2724:-245.364,-245.364,-245.364,-23.1793,-23.1793,0 1/2:113:0,63,50:0:0:63,50:2161,1768:-319.745,-144.35,-125.385,-175.744,0,-160.693 1/2:11:0,5,6:0:0:5,6:176,216:-32.3087,-17.9843,-16.4792,-14.6799,0,-12.8737 1/1:14:0,14,0:0:0:14,0:504,0:-45.6947,-4.21442,0,-45.6947,-4.21442,-45.6947 1/1:26:0,26,0:0:0:26,0:886,0:-80.0479,-7.82678,0,-80.0479,-7.82678,-80.0479 1/1:146:0,146,0:0:0:146,0:5118,0:-460.722,-43.9504,0,-460.722,-43.9504,-460.722 1/2:148:0,86,62:0:0:86,62:2962,2212:-421.251,-180.681,-154.793,-240.921,0,-222.257 1/1:138:0,138,0:0:0:138,0:4837,0:-435.3,-41.5421,0,-435.3,-41.5421,-435.3 1/1:52:0,52,0:0:0:52,0:1815,0:-163.604,-15.6536,0,-163.604,-15.6536,-163.604 1/1:70:0,70,0:0:0:70,0:2423,0:-218.273,-21.0721,0,-218.273,-21.0721,-218.273 1/2:90:0,43,47:0:0:43,47:1516,1675:-260.32,-136.888,-123.944,-123.787,0,-109.638 1/2:55:0,31,24:0:0:31,24:1029,856:-153.363,-70.1364,-60.8045,-83.5721,0,-76.3473 1/1:86:0,84,2:0:0:84,2:2964,72:-266.624,-25.2865,0,-260.749,-19.0519,-260.147 1/1:35:0,35,0:0:0:35,0:1192,0:-107.574,-10.5361,0,-107.574,-10.5361,-107.574 chr10 1716848 . T C 25930.2 PASS AB=0.537217;ABP=14.1628;AC=30;AF=0.714286;AN=42;AO=1189;CIGAR=1X;DP=1684;DPB=1684;DPRA=1.24538;EPP=1760.57;EPPR=1077.89;GTI=0;LEN=1;MEANALT=1;MQM=42.074;MQMR=53.8061;NS=21;NUMALT=1;ODDS=1.66816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42393;QR=17720;RO=495;RPL=1085;RPP=1760.57;RPPR=1060.59;RPR=104;RUN=1;SAF=1189;SAP=2584.89;SAR=0;SRF=493;SRP=1060.59;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:54,44:54:1936:44:1563:-106.184,0,-144.382 0/1:67:29,38:29:1044:38:1364:-99.1598,0,-73.3223 1/1:92:0,92:0:0:92:3291:-286.188,-27.6948,0 0/1:87:45,42:45:1593:42:1508:-103.047,0,-116.993 0/1:124:66,58:66:2368:58:2056:-143.221,0,-174.482 1/1:50:0,50:0:0:50:1794:-150.761,-15.0515,0 0/1:119:50,69:50:1796:69:2429:-168.958,0,-124.884 0/0:65:65,0:65:2319:0:0:0,-19.5669,-208.249 0/1:164:71,93:71:2544:93:3340:-240.814,0,-178.959 0/1:8:1,7:1:36:7:252:-19.0438,0,-1.18493 1/1:6:0,6:0:0:6:216:-18.6318,-1.80618,0 1/1:29:0,29:0:0:29:1035:-89.1579,-8.72987,0 1/1:155:0,155:0:0:155:5532:-478.743,-46.6597,0 0/1:87:41,46:41:1460:46:1632:-117.148,0,-104.508 1/1:111:0,111:0:0:111:3944:-340.527,-33.4143,0 1/1:67:0,67:0:0:67:2393:-212.052,-20.169,0 1/1:72:0,72:0:0:72:2572:-227.339,-21.6742,0 0/1:80:42,38:42:1512:38:1345:-90.4044,0,-111.938 0/1:93:30,63:30:1076:63:2251:-167.302,0,-68.6947 1/1:65:0,65:0:0:65:2322:-197.848,-19.567,0 1/1:45:1,44:1:36:44:1554:-127.514,-10.3002,0 chr10 1763017 . A G 4471.36 PASS AB=0.478261;ABP=4.89854;AC=12;AF=0.285714;AN=42;AO=260;CIGAR=1X;DP=898;DPB=898;DPRA=1.14207;EPP=558.941;EPPR=1371.09;GTI=0;LEN=1;MEANALT=1;MQM=59.5846;MQMR=59.9702;NS=21;NUMALT=1;ODDS=7.26774;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9264;QR=22470;RO=638;RPL=0;RPP=567.593;RPPR=1388.41;RPR=260;RUN=1;SAF=259;SAP=558.941;SAR=1;SRF=636;SRP=1371.09;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:23,14:23:813:14:500:-34.1981,0,-62.351 0/1:25:16,9:16:561:9:324:-21.9764,0,-43.2914 0/0:40:40,0:40:1402:0:0:0,-12.0412,-126.473 0/1:24:6,18:6:216:18:648:-51.4272,0,-12.5658 0/1:73:39,34:39:1381:34:1220:-88.0595,0,-102.612 0/0:37:37,0:37:1256:0:0:0,-11.1381,-113.332 0/1:49:22,27:22:773:27:972:-73.0311,0,-55.139 1/1:40:0,40:0:0:40:1436:-129.524,-12.0412,0 0/1:60:31,29:31:1112:29:1018:-73.861,0,-82.3295 0/1:11:5,6:5:176:6:212:-16.1041,0,-12.8737 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:20:20,0:20:697:0:0:0,-6.0206,-63.046 0/0:74:74,0:74:2606:0:0:0,-22.2762,-234.787 0/1:58:36,22:36:1292:22:773:-52.4227,0,-99.124 0/0:116:116,0:116:4092:0:0:0,-34.9195,-368.464 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:17:17,0:17:578:0:0:0,-5.11751,-52.3374 0/1:65:31,34:31:1104:34:1208:-89.4591,0,-80.0991 0/1:58:31,27:31:1059:27:953:-68.6221,0,-78.1509 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.701 0/0:46:46,0:46:1628:0:0:0,-13.8474,-146.809 chr10 1771781 . G A 4964.18 PASS AB=0.302568;ABP=424.868;AC=12;AF=0.285714;AN=42;AO=400;CIGAR=1X;DP=2553;DPB=2553;DPRA=0.80292;EPP=871.599;EPPR=4678.19;GTI=3;LEN=1;MEANALT=1;MQM=54.3575;MQMR=48.7719;NS=21;NUMALT=1;ODDS=0.919171;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14327;QR=76895;RO=2153;RPL=0;RPP=871.599;RPPR=4678.19;RPR=400;RUN=1;SAF=400;SAP=871.599;SAR=0;SRF=2153;SRP=4678.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:71,33:71:2541:33:1184:-75.3033,0,-194.92 0/1:85:61,24:61:2163:24:856:-50.9534,0,-165.98 0/0:164:164,0:164:5872:0:0:0,-49.3689,-519.984 0/1:194:166,28:166:5913:28:1008:-32.4538,0,-469.122 0/1:228:173,55:173:6144:55:1972:-108.902,0,-479.535 0/0:88:88,0:88:3135:0:0:0,-26.4906,-277.431 0/1:125:77,48:77:2759:48:1705:-115.36,0,-206.307 1/1:22:0,22:0:0:22:777:-70.1387,-6.62266,0 0/1:87:67,20:67:2384:20:720:-38.9311,0,-187.174 0/1:25:19,6:19:684:6:216:-12.0446,0,-53.9239 0/0:20:20,0:20:716:0:0:0,-6.0206,-63.6722 0/0:54:54,0:54:1928:0:0:0,-16.2556,-172.645 0/0:173:173,0:173:6176:0:0:0,-52.0782,-551.776 0/1:90:73,17:73:2604:17:612:-28.2913,0,-205.37 0/0:239:239,0:239:8545:0:0:0,-71.9462,-763.92 0/0:197:197,0:197:7039:0:0:0,-59.3029,-626.749 0/0:159:159,0:159:5689:0:0:0,-47.8638,-509.093 0/1:222:109,113:109:3888:113:4053:-297.257,0,-278.74 0/1:86:53,33:53:1899:33:1188:-80.9876,0,-144.595 0/0:139:139,0:139:4992:0:0:0,-41.8432,-445.912 0/0:52:51,1:51:1824:1:36:0,-12.0643,-157.01 chr10 1771797 . G A 46302.4 PASS AB=0.701613;ABP=440.807;AC=30;AF=0.714286;AN=42;AO=2160;CIGAR=1X;DP=2556;DPB=2556;DPRA=5.75909;EPP=4427.99;EPPR=817.862;GTI=3;LEN=1;MEANALT=1.05;MQM=48.7102;MQMR=54.4101;NS=21;NUMALT=1;ODDS=8.35607;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77253;QR=14054;RO=395;RPL=2129;RPP=4427.99;RPPR=817.862;RPR=31;RUN=1;SAF=2160;SAP=4693.39;SAR=0;SRF=395;SRP=860.742;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:32,70:32:1118:70:2493:-191.355,0,-69.9806 0/1:84:23,61:23:824:61:2192:-168.712,0,-48.3836 1/1:166:0,166:0:0:166:5941:-526.901,-49.971,0 0/1:192:27,165:27:957:165:5936:-471.811,0,-28.4775 0/1:225:54,171:54:1925:171:6098:-476.22,0,-105.578 1/1:88:0,88:0:0:88:3126:-275.976,-26.4906,0 0/1:127:49,78:49:1715:78:2804:-209.688,0,-115.659 0/0:22:22,0:22:788:0:0:0,-6.62266,-70.9551 0/1:88:20,68:20:712:68:2440:-191.07,0,-37.9084 0/1:24:5,19:5:180:19:669:-52.8903,0,-9.11475 1/1:21:1,20:1:36:20:705:-59.0069,-2.7238,0 1/1:55:0,55:0:0:55:1980:-177.247,-16.5567,0 1/1:171:0,170:0:0:170:6085:-543.464,-51.1751,0 0/1:93:17,76:17:612:76:2720:-214.145,0,-27.3882 1/1:245:0,245:0:0:245:8762:-782.755,-73.7524,0 1/1:201:0,201:0:0:201:7204:-640.977,-60.507,0 1/1:158:0,158:0:0:158:5665:-506.944,-47.5627,0 0/1:219:110,109:110:3936:109:3911:-281.439,0,-287.716 0/1:86:33,53:33:1179:53:1866:-141.663,0,-80.2871 1/1:137:1,136:1:36:136:4847:-429.583,-37.6428,0 1/1:52:1,51:1:36:51:1809:-155.693,-12.0643,0 chr10 1771866 . C T 15620.1 PASS AB=0.726695;ABP=213.698;AC=31;AF=0.738095;AN=42;AO=744;CIGAR=1X;DP=888;DPB=888;DPRA=3.12143;EPP=1618.59;EPPR=307.077;GTI=4;LEN=1;MEANALT=1;MQM=59.8414;MQMR=59.7639;NS=21;NUMALT=1;ODDS=1.34809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26626;QR=5134;RO=144;RPL=0;RPP=1618.59;RPPR=307.077;RPR=744;RUN=1;SAF=0;SAP=1618.59;SAR=744;SRF=0;SRP=315.702;SRR=144;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:6,37:6:216:37:1302:-104.533,0,-6.84622 0/1:30:7,23:7:252:23:824:-65.4439,0,-13.9957 1/1:60:0,60:0:0:60:2143:-193.136,-18.0618,0 0/1:23:3,20:3:108:20:720:-58.2051,0,-3.15148 0/1:68:8,60:8:288:60:2160:-174.18,0,-5.79737 1/1:46:0,46:0:0:46:1637:-147.617,-13.8474,0 0/1:54:19,35:19:671:35:1252:-96.7295,0,-44.4425 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3334 0/1:77:14,63:14:504:63:2229:-177.692,0,-22.5188 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:15:0,15:0:0:15:532:-48.2131,-4.51545,0 1/1:51:0,51:0:0:51:1836:-165.516,-15.3525,0 0/1:30:10,20:10:360:20:716:-55.7368,0,-23.71 1/1:94:1,93:1:36:93:3336:-296.85,-24.6985,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 0/1:89:44,45:44:1563:45:1615:-118.843,0,-114.165 0/1:58:18,40:18:636:40:1436:-111.899,0,-40.1083 1/1:31:0,31:0:0:31:1116:-100.751,-9.33193,0 1/1:38:0,38:0:0:38:1360:-122.698,-11.4391,0 chr10 1771890 . CG TG,TA 19436.9 PASS AB=0.718427,0.277433;ABP=203.168,210.829;AC=31,11;AF=0.738095,0.261905;AN=42;AO=756,150;CIGAR=1X1M,2X;DP=908;DPB=908;DPRA=2.7875,1.34205;EPP=1644.64,328.731;EPPR=0;GTI=3;LEN=1,2;MEANALT=1.5,2;MQM=59.8571,59.5933;MQMR=0;NS=21;NUMALT=2;ODDS=0.491546;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27134,5328;QR=0;RO=0;RPL=756,150;RPP=1644.64,328.731;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1644.64,328.731;SAR=756,150;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,37,6:0:0:37,6:1328,216:-126.309,-17.9843,-6.84622,-108.684,0,-106.878 1/2:30:0,23,7:0:0:23,7:828,248:-88.1113,-20.5548,-13.6311,-67.9119,0,-65.8047 1/1:61:0,61,0:0:0:61,0:2192,0:-197.541,-18.3628,0,-197.541,-18.3628,-197.541 1/2:23:0,20,3:0:0:20,3:720,108:-67.9204,-9.17208,-3.15148,-59.1082,0,-58.2051 1/2:72:0,61,9:0:0:61,9:2192,322:-205.081,-26.2386,-7.87573,-178.929,0,-176.22 1/1:46:0,46,0:0:0:46,0:1643,0:-148.157,-13.8474,0,-148.157,-13.8474,-148.157 1/2:54:0,34,20:0:0:34,20:1209,712:-156.892,-58.3686,-48.1336,-98.8791,0,-92.8585 2/2:16:0,0,16:0:0:0,16:0,548:-49.6388,-49.6388,-49.6388,-4.81648,-4.81648,0 1/2:79:0,65,14:0:0:65,14:2332,502:-231.517,-41.3028,-21.7359,-190.573,0,-186.358 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:16:0,16,0:0:0:16,0:576,0:-52.175,-4.81648,0,-52.175,-4.81648,-52.175 1/1:52:0,52,0:0:0:52,0:1868,0:-168.395,-15.6536,0,-168.395,-15.6536,-168.395 1/2:31:0,20,11:0:0:20,11:720,388:-90.6959,-31.9429,-25.9223,-59.1082,0,-55.7968 1/1:96:0,96,0:0:0:96,0:3448,0:-310.512,-28.8989,0,-310.512,-28.8989,-310.512 1/1:22:0,22,0:0:0:22,0:788,0:-71.2448,-6.62266,0,-71.2448,-6.62266,-71.2448 1/1:32:0,32,0:0:0:32,0:1148,0:-103.63,-9.63296,0,-103.63,-9.63296,-103.63 1/2:92:0,46,46:0:0:46,46:1652,1647:-269.424,-134.667,-120.819,-135.116,0,-121.268 1/2:59:0,41,18:0:0:41,18:1472,637:-172.139,-52.2387,-39.8964,-120.255,0,-114.836 1/1:31:0,31,0:0:0:31,0:1116,0:-100.751,-9.33193,0,-100.751,-9.33193,-100.751 1/1:39:0,39,0:0:0:39,0:1398,0:-126.118,-11.7402,0,-126.118,-11.7402,-126.118 chr10 1774645 . TGTGAATG GGTGGATG,GGTGGATA 32906.8 PASS AB=0.528134,0.461994;ABP=9.97487,15.7197;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1105,510;CIGAR=1X3M1X3M,1X3M1X2M1X;DP=1630;DPB=1630;DPRA=1.9378,1.6146;EPP=2350.65,1110.46;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.25,2.66667;MQM=59.8824,59.8804;MQMR=0;NS=21;NUMALT=2;ODDS=2.91218;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38321,17725;QR=0;RO=0;RPL=1099,510;RPP=2350.65,1110.46;RPPR=0;RPR=6,0;RUN=1,1;SAF=0,0;SAP=2402.49,1110.46;SAR=1105,510;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:140:0,85,55:0:0:85,55:2942,1916:-395.238,-156.153,-130.566,-239.432,0,-222.875 1/2:110:0,38,71:0:0:38,71:1315,2473:-307.947,-201.091,-189.652,-106.843,0,-85.47 1/1:55:0,55,0:0:0:55,0:1907,0:-171.904,-16.5567,0,-171.904,-16.5567,-171.904 1/2:77:0,42,34:0:0:42,34:1451,1185:-214.307,-96.4199,-83.7767,-117.932,0,-107.697 1/2:166:0,96,66:0:0:96,66:3323,2293:-456.423,-186.376,-157.477,-270.077,0,-250.209 1/1:60:0,60,0:0:0:60,0:2093,0:-188.533,-18.0618,0,-188.533,-18.0618,-188.533 1/2:115:0,43,72:0:0:43,72:1472,2483:-321.536,-202.052,-189.108,-119.827,0,-98.1526 2/2:41:0,0,41:0:0:0,41:0,1424:-128.455,-128.455,-128.455,-12.3422,-12.3422,0 1/2:124:0,73,48:0:0:73,48:2546,1696:-345.224,-138.164,-116.189,-207.098,0,-192.649 1/2:13:0,3,10:0:0:3,10:103,346:-36.8263,-28.4636,-27.5605,-8.70651,0,-5.69621 1/1:6:0,5,0:0:0:5,0:164,0:-14.7289,-1.50515,0,-14.7289,-1.50515,-14.7289 1/1:14:0,14,0:0:0:14,0:488,0:-44.2507,-4.21442,0,-44.2507,-4.21442,-44.2507 1/1:88:0,87,0:0:0:87,0:3010,0:-270.774,-26.1896,0,-270.774,-26.1896,-270.774 1/2:85:0,41,44:0:0:41,44:1411,1505:-237.095,-122.495,-110.153,-114.943,0,-101.697 1/1:109:0,109,0:0:0:109,0:3778,0:-340.229,-32.8123,0,-340.229,-32.8123,-340.229 1/1:51:0,51,0:0:0:51,0:1754,0:-158.139,-15.3525,0,-158.139,-15.3525,-158.139 1/1:80:0,79,0:0:0:79,0:2752,0:-247.692,-23.7814,0,-247.692,-23.7814,-247.692 1/2:98:0,58,40:0:0:58,40:2033,1382:-278.059,-112.635,-95.1755,-165.771,0,-153.73 1/2:85:0,56,28:0:0:56,28:1973,986:-240.902,-80.2661,-63.4084,-160.629,0,-152.2 1/1:59:0,58,1:0:0:58,1:2003,36:-180.172,-17.4597,0,-177.234,-14.1625,-176.933 1/1:54:0,52,0:0:0:52,0:1803,0:-162.177,-15.6536,0,-162.177,-15.6536,-162.177 chr10 1787158 . CT GA,GT 31998.2 PASS AB=0.546498,0.450057;ABP=19.3674,21.8804;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1122,423;CIGAR=2X,1X1M;DP=1548;DPB=1548;DPRA=2.53,1.36091;EPP=2439.4,921.543;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=1.65,2.08333;MQM=59.9617,59.9905;MQMR=60;NS=21;NUMALT=2;ODDS=4.26012;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39103,15101;QR=23;RO=1;RPL=0,0;RPP=2439.4,921.543;RPPR=5.18177;RPR=1122,423;RUN=1,1;SAF=1122,423;SAP=2439.4,921.543;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:78:1,39,38:1:23:39,38:1355,1364:-219.474,-109.623,-99.6481,-108.506,0,-98.8331 1/2:32:0,9,23:0:0:9,23:311,828:-93.1851,-67.9204,-65.2112,-25.6142,0,-18.6905 1/1:92:0,92,0:0:0:92,0:3188,0:-287.143,-27.6948,0,-287.143,-27.6948,-287.143 1/2:53:0,23,30:0:0:23,30:805,1076:-153.61,-88.122,-81.1983,-65.8416,0,-56.8107 1/2:214:0,110,104:0:0:110,104:3873,3706:-617.731,-302.432,-269.319,-315.653,0,-284.346 1/1:78:0,78,0:0:0:78,0:2750,0:-247.743,-23.4803,0,-247.743,-23.4803,-247.743 1/2:147:0,97,49:0:0:97,49:3380,1756:-418.073,-143.214,-114.014,-274.855,0,-260.104 2/2:30:0,0,30:0:0:0,30:0,1065:-96.1598,-96.1598,-96.1598,-9.0309,-9.0309,0 1/2:165:0,95,70:0:0:95,70:3286,2504:-471.55,-204.54,-175.942,-267.363,0,-246.29 1/2:17:0,13,4:0:0:13,4:450,129:-47.3112,-10.7235,-6.81015,-36.9156,0,-35.7115 1/1:16:0,16,0:0:0:16,0:574,0:-51.9943,-4.81648,0,-51.9943,-4.81648,-51.9943 1/1:17:0,17,0:0:0:17,0:599,0:-54.2378,-5.11751,0,-54.2378,-5.11751,-54.2378 1/1:52:0,52,0:0:0:52,0:1839,0:-165.79,-15.6536,0,-165.79,-15.6536,-165.79 1/2:86:0,51,35:0:0:51,35:1676,1260:-238.583,-103.169,-87.8169,-135.761,0,-125.225 1/1:148:0,148,0:0:0:148,0:5205,0:-468.165,-44.5524,0,-468.165,-44.5524,-468.165 1/1:71:0,71,0:0:0:71,0:2484,0:-223.811,-21.3731,0,-223.811,-21.3731,-223.811 1/1:39:0,39,0:0:0:39,0:1328,0:-119.812,-11.7402,0,-119.812,-11.7402,-119.812 1/2:40:0,17,23:0:0:17,23:588,805:-113.621,-65.8438,-60.7263,-48.1247,0,-41.201 1/2:39:0,22,16:0:0:22,16:780,572:-110.181,-46.6373,-40.0146,-63.5404,0,-58.7239 1/1:97:0,96,1:0:0:96,1:3351,36:-301.447,-28.8989,0,-298.51,-25.6016,-298.209 1/1:37:0,37,0:0:0:37,0:1281,0:-115.586,-11.1381,0,-115.586,-11.1381,-115.586 chr10 1804124 . C T 27902.6 PASS AB=0.530387;ABP=11.7202;AC=30;AF=0.714286;AN=42;AO=1353;CIGAR=1X;DP=1941;DPB=1941;DPRA=1.22697;EPP=2941.01;EPPR=1275.49;GTI=0;LEN=1;MEANALT=1.1;MQM=59.8773;MQMR=51.8259;NS=21;NUMALT=1;ODDS=7.57291;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48446;QR=20944;RO=586;RPL=0;RPP=2941.01;RPPR=1275.49;RPR=1353;RUN=1;SAF=1353;SAP=2941.01;SAR=0;SRF=586;SRP=1275.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:180:89,90:89:3196:90:3212:-235.172,0,-231.971 0/1:97:58,39:58:2068:39:1392:-96.3402,0,-155.711 1/1:133:0,133:0:0:133:4775:-429.836,-40.037,0 0/1:113:43,70:43:1536:70:2503:-191.506,0,-103.94 0/1:191:83,108:83:2967:108:3880:-291.841,0,-209.159 1/1:85:0,85:0:0:85:3018:-271.847,-25.5876,0 0/1:96:42,54:42:1500:54:1940:-145.977,0,-105.284 0/0:76:76,0:76:2724:0:0:0,-22.8783,-244.588 0/1:207:109,98:109:3881:98:3512:-253.966,0,-286.092 0/1:16:8,8:8:284:8:288:-21.4509,0,-21.0258 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 1/1:77:1,76:1:36:76:2724:-241.81,-19.5861,0 0/1:116:47,69:47:1676:69:2476:-188.042,0,-115.236 1/1:151:0,151:0:0:151:5398:-485.949,-45.4555,0 1/1:71:0,71:0:0:71:2548:-229.57,-21.3731,0 1/1:124:0,123:0:0:123:4404:-396.173,-37.0267,0 0/1:46:21,25:21:752:25:900:-67.4736,0,-53.9162 0/1:24:9,15:9:324:15:540:-41.7118,0,-22.2321 1/1:78:0,78:0:0:78:2788:-250.534,-23.4803,0 1/1:32:0,32:0:0:32:1144:-103.27,-9.63296,0 chr10 1804125 . T C 9788.86 PASS AB=0.466421;ABP=13.6559;AC=12;AF=0.285714;AN=42;AO=584;CIGAR=1X;DP=1952;DPB=1952;DPRA=1.30907;EPP=1271.15;EPPR=2971.41;GTI=0;LEN=1;MEANALT=1;MQM=51.7397;MQMR=59.8691;NS=21;NUMALT=1;ODDS=8.20762;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20708;QR=48981;RO=1367;RPL=0;RPP=1271.15;RPPR=2971.41;RPR=584;RUN=1;SAF=584;SAP=1271.15;SAR=0;SRF=1367;SRP=2971.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:182:93,89:93:3311:89:3142:-226.641,0,-243.404 0/1:94:39,55:39:1396:55:1933:-144.965,0,-97.6034 0/0:134:134,0:134:4812:0:0:0,-40.338,-433.164 0/1:113:71,42:71:2548:42:1496:-100.415,0,-195.554 0/1:192:106,86:106:3808:86:3072:-218.331,0,-285.063 0/0:86:86,0:86:3083:0:0:0,-25.8886,-277.667 0/1:96:55,41:55:1968:41:1448:-100.76,0,-148.496 1/1:76:0,76:0:0:76:2696:-241.638,-22.8783,0 0/1:209:99,110:99:3560:110:3906:-287.76,0,-257.681 0/1:16:8,8:8:288:8:288:-21.3849,0,-21.4509 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/0:78:77,1:77:2751:1:36:0,-19.8872,-244.239 0/1:117:69,48:69:2468:48:1720:-118.244,0,-187.082 0/0:154:153,0:153:5476:0:0:0,-46.0576,-492.717 0/0:72:72,0:72:2576:0:0:0,-21.6742,-232.09 0/0:125:125,0:125:4484:0:0:0,-37.6287,-403.728 0/1:43:24,19:24:864:19:659:-46.4954,0,-65.1383 0/1:25:16,9:16:576:9:312:-20.8489,0,-44.6492 0/0:79:79,0:79:2828:0:0:0,-23.7814,-254.132 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 chr10 1804133 . AAATT TAATT,TAATA 41661.7 PASS AB=0.528558,0.469628;ABP=10.8241,11.8478;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1361,599;CIGAR=1X4M,1X3M1X;DP=1967;DPB=1967;DPRA=1.17937,1.34255;EPP=2880.73,1303.72;EPPR=3.73412;GTI=0;LEN=1,5;MEANALT=1.75,2;MQM=59.8788,51.7579;MQMR=59.6667;NS=21;NUMALT=2;ODDS=6.80357;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48830,20723;QR=99;RO=3;RPL=9,0;RPP=2880.73,1303.72;RPPR=3.73412;RPR=1352,599;RUN=1,1;SAF=1361,599;SAP=2958.38,1303.72;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:184:0,93,90:0:0:93,90:3344,3160:-528.455,-255.647,-227.651,-272.824,0,-245.732 1/2:97:0,39,58:0:0:39,58:1404,1996:-275.773,-161.246,-149.505,-114.88,0,-97.4205 1/1:134:1,132,0:1:36:132,0:4748,0:-423.866,-36.7535,0,-424.167,-39.736,-427.104 1/2:113:0,69,44:0:0:69,44:2480,1507:-324.622,-122.289,-101.518,-202.682,0,-189.437 1/2:197:0,111,86:0:0:111,86:3988,2979:-567.313,-242.026,-208.612,-325.638,0,-299.75 1/1:87:0,87,0:0:0:87,0:3128,0:-281.724,-26.1896,0,-281.724,-26.1896,-281.724 1/2:98:0,55,43:0:0:55,43:1968,1481:-280.33,-119.841,-103.284,-160.838,0,-147.894 2/2:80:0,0,80:0:0:0,80:0,2765:-247.958,-247.958,-247.958,-24.0824,-24.0824,0 1/2:211:0,99,112:0:0:99,112:3551,3840:-600.853,-311.212,-281.41,-289.992,0,-256.277 1/2:16:0,8,8:0:0:8,8:288,282:-46.76,-23.2565,-20.8483,-23.8592,0,-21.4509 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:21:0,21,0:0:0:21,0:756,0:-68.3672,-6.32163,0,-68.3672,-6.32163,-68.3672 1/1:79:0,78,1:0:0:78,1:2793,35:-251.259,-23.4803,0,-248.415,-20.2868,-248.114 1/2:115:1,67,47:1:32:67,47:2408,1623:-324.563,-128.521,-110.93,-193.795,0,-182.224 1/1:151:1,149,0:1:31:149,0:5310,0:-474.909,-42.3899,0,-475.21,-44.8535,-477.698 1/1:71:0,71,0:0:0:71,0:2542,0:-229.031,-21.3731,0,-229.031,-21.3731,-229.031 1/1:124:0,123,0:0:0:123,0:4416,0:-397.251,-37.0267,0,-397.251,-37.0267,-397.251 1/2:46:0,25,21:0:0:25,21:900,734:-133.285,-59.8432,-52.3175,-73.7953,0,-67.4736 1/2:26:0,17,9:0:0:17,9:608,321:-76.0568,-26.4788,-21.3613,-49.9345,0,-47.2252 1/1:76:0,76,0:0:0:76,0:2726,0:-245.312,-22.8783,0,-245.312,-22.8783,-245.312 1/1:33:0,33,0:0:0:33,0:1184,0:-106.868,-9.93399,0,-106.868,-9.93399,-106.868 chr10 1804150 . G C 9987.46 PASS AB=0.470534;ABP=11.2003;AC=12;AF=0.285714;AN=42;AO=591;CIGAR=1X;DP=1942;DPB=1942;DPRA=1.33668;EPP=1286.35;EPPR=2917.15;GTI=0;LEN=1;MEANALT=1.08333;MQM=51.7733;MQMR=59.9207;NS=21;NUMALT=1;ODDS=7.07099;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20997;QR=48346;RO=1350;RPL=591;RPP=1286.35;RPPR=2917.15;RPR=0;RUN=1;SAF=591;SAP=1286.35;SAR=0;SRF=1350;SRP=2934.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:183:94,89:94:3340:89:3167:-228.447,0,-245.713 0/1:95:37,58:37:1324:58:2071:-156.857,0,-90.8465 0/0:133:133,0:133:4772:0:0:0,-40.037,-429.574 0/1:112:70,42:70:2516:42:1504:-101.468,0,-192.976 0/1:191:107,84:107:3816:84:2975:-209.982,0,-286.142 0/0:83:83,0:83:2967:0:0:0,-24.9855,-267.258 0/1:95:52,43:52:1855:43:1512:-106.676,0,-138.631 1/1:79:0,79:0:0:79:2784:-250.109,-23.7814,0 0/1:210:99,111:99:3540:111:3971:-293.165,0,-255.589 0/1:15:7,8:7:252:8:279:-20.8732,0,-18.5135 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/0:79:78,1:78:2784:1:36:0,-20.1882,-247.205 0/1:114:66,47:66:2368:47:1679:-115.665,0,-178.948 0/0:149:149,0:149:5352:0:0:0,-44.8535,-481.81 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.809 0/0:123:123,0:123:4420:0:0:0,-37.0267,-397.97 0/1:45:25,20:25:892:20:699:-49.4848,0,-67.0533 0/1:26:17,9:17:612:9:320:-21.2693,0,-47.5867 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.403 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 chr10 1804231 . TTGTGTGTGTGTGTTTC TTGTGTGTGTGTTTC,TTGTGTGTGTGTGTGTGTTTC 30803 PASS AB=0.508565,0.395075;ABP=3.60548,92.3243;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1090,402;CIGAR=1M2D14M,1M4I16M;DP=1594;DPB=1568.94;DPRA=2.04737,1.48876;EPP=2361.24,875.942;EPPR=18.2106;GTI=2;LEN=2,4;MEANALT=3.35,4.66667;MQM=59.0697,44.1343;MQMR=60;NS=21;NUMALT=2;ODDS=1.86719;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38689,13923;QR=233;RO=7;RPL=1,0;RPP=2361.24,875.942;RPPR=18.2106;RPR=1089,402;RUN=1,1;SAF=0,0;SAP=2369.92,875.942;SAR=1090,402;SRF=0;SRP=18.2106;SRR=7;TYPE=del,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:124:2,58,48:2:69:58,48:2056,1685:-296.206,-129.4,-117.546,-161.814,0,-152.97 1/2:63:0,41,14:0:0:41,14:1459,487:-157.82,-38.9211,-26.5789,-118.895,0,-114.681 1/1:62:0,62,0:0:0:62,0:2212,0:-199.344,-18.6639,0,-199.344,-18.6639,-199.344 1/2:80:0,41,36:0:0:41,36:1464,1249:-218.758,-99.3957,-87.0534,-119.376,0,-108.539 1/2:238:3,106,114:3:96:106,114:3777,4010:-620.452,-313.491,-289.317,-300.136,0,-273.552 1/1:62:0,61,0:0:0:61,0:2171,0:-195.298,-18.3628,0,-195.298,-18.3628,-195.298 1/2:96:0,43,45:0:0:43,45:1522,1543:-247.182,-123.242,-110.298,-123.933,0,-110.387 2/2:38:0,0,32:0:0:0,32:0,1095:-96.0032,-96.0032,-96.0032,-9.63296,-9.63296,0 1/2:144:2,78,45:2:68:78,45:2760,1520:-339.992,-115.835,-97.8704,-219.237,0,-211.207 1/2:10:0,8,2:0:0:8,2:280,72:-28.8605,-6.08786,-3.67962,-23.1242,0,-22.5222 1/1:4:0,4,0:0:0:4,0:140,0:-12.9432,-1.20412,0,-12.9432,-1.20412,-12.9432 1/1:19:0,19,0:0:0:19,0:680,0:-61.511,-5.71957,0,-61.511,-5.71957,-61.511 1/1:100:0,100,0:0:0:100,0:3533,0:-317.817,-30.103,0,-317.817,-30.103,-317.817 1/2:98:0,46,44:0:0:46,44:1629,1507:-253.144,-120.607,-106.76,-132.546,0,-119.301 1/1:84:0,83,0:0:0:83,0:2924,0:-263.055,-24.9855,0,-263.055,-24.9855,-263.055 1/1:56:0,54,0:0:0:54,0:1900,0:-170.933,-16.2556,0,-170.933,-16.2556,-170.933 1/1:100:0,99,0:0:0:99,0:3534,0:-317.613,-29.802,0,-317.613,-29.802,-317.613 1/2:40:0,22,15:0:0:22,15:792,524:-106.143,-41.7681,-35.1454,-64.3906,0,-59.8751 1/2:41:0,32,6:0:0:32,6:1122,199:-107.17,-15.9137,-6.28075,-91.253,0,-89.4469 1/1:88:0,87,1:0:0:87,1:3097,32:-278.397,-26.1896,0,-275.849,-23.3238,-275.548 1/1:47:0,46,0:0:0:46,0:1637,0:-147.005,-13.8474,0,-147.005,-13.8474,-147.005 chr10 1832825 . G C 28069.1 PASS AB=0.542129;ABP=16.9154;AC=30;AF=0.714286;AN=42;AO=1338;CIGAR=1X;DP=1816;DPB=1816;DPRA=0;EPP=2873.8;EPPR=1023.68;GTI=0;LEN=1;MEANALT=1;MQM=59.9776;MQMR=60;NS=21;NUMALT=1;ODDS=15.997;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47689;QR=16994;RO=478;RPL=4;RPP=2873.8;RPPR=1023.68;RPR=1334;RUN=1;SAF=0;SAP=2908.44;SAR=1338;SRF=0;SRP=1040.97;SRR=478;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:110:53,57:53:1887:57:2021:-149.048,0,-136.994 0/1:45:32,13:32:1152:13:468:-28.9133,0,-90.4438 1/1:130:0,130:0:0:130:4641:-417.852,-39.1339,0 0/1:72:30,42:30:1047:42:1466:-110.555,0,-72.8651 0/1:142:50,92:50:1779:92:3278:-252.493,0,-117.646 1/1:71:0,71:0:0:71:2536:-228.491,-21.3731,0 0/1:96:46,50:46:1652:50:1800:-133.383,0,-120.07 0/0:63:62,1:62:2194:1:32:0,-15.7656,-194.526 0/1:170:73,97:73:2604:97:3460:-260.438,0,-183.434 0/1:17:6,11:6:216:11:396:-30.8652,0,-14.673 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 1/1:147:0,147:0:0:147:5240:-471.737,-44.2514,0 0/1:120:68,52:68:2419:52:1834:-129.107,0,-181.842 1/1:176:0,176:0:0:176:6287:-565.922,-52.9813,0 1/1:36:0,36:0:0:36:1284:-115.863,-10.8371,0 1/1:40:1,39:1:36:39:1389:-121.709,-8.44293,0 0/1:54:30,24:30:1053:24:843:-59.9324,0,-78.823 0/1:76:25,51:25:883:51:1816:-140.843,0,-56.9092 1/1:158:2,156:2:72:156:5562:-493.867,-40.726,0 1/1:46:0,46:0:0:46:1648:-148.609,-13.8474,0 chr10 1847940 . A G 70014.7 PASS AB=0.533058;ABP=21.3871;AC=30;AF=0.714286;AN=42;AO=2645;CIGAR=1X;DP=3742;DPB=3742;DPRA=0.989444;EPP=5746.55;EPPR=2380.77;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9709;MQMR=59.979;NS=21;NUMALT=1;ODDS=10.2062;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93820;QR=39138;RO=1095;RPL=1355;RPP=6.47891;RPPR=15.3867;RPR=1290;RUN=1;SAF=1355;SAP=6.47891;SAR=1290;SRF=508;SRP=15.3867;SRR=587;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:231:107,124:107:3840:124:4374:-324.297,0,-276.257 0/1:121:62,59:62:2224:59:2099:-152.754,0,-164 1/1:156:0,156:0:0:156:5558:-500.346,-46.9607,0 0/1:219:100,119:100:3592:119:4214:-313.502,0,-257.546 0/1:313:162,150:162:5796:150:5309:-383.662,0,-427.473 1/1:215:1,214:1:36:214:7652:-685.116,-61.1232,0 0/1:172:76,96:76:2708:96:3422:-256.417,0,-192.188 0/0:180:180,0:180:6419:0:0:0,-54.1854,-577.8 0/1:314:154,160:154:5507:160:5696:-418.236,0,-401.233 0/1:25:7,18:7:252:18:635:-49.9512,0,-15.5032 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:50:0,50:0:0:50:1750:-157.781,-15.0515,0 1/1:226:0,226:0:0:226:8027:-722.454,-68.0328,0 0/1:211:97,114:97:3453:114:4020:-298.47,0,-247.465 1/1:289:2,287:2:72:287:10184:-909.432,-80.1609,0 1/1:163:1,162:1:36:162:5734:-512.577,-45.4696,0 1/1:165:0,165:0:0:165:5863:-527.775,-49.67,0 0/1:126:70,55:70:2496:55:1960:-138.687,0,-186.876 0/1:204:67,137:67:2387:137:4859:-376.055,0,-153.677 1/1:269:8,261:8:284:261:9204:-802.435,-55.0737,0 1/1:87:1,86:1:36:86:3044:-270.403,-22.5913,0 chr10 1858673 . A G 38676.3 PASS AB=0.579491;ABP=72.0555;AC=30;AF=0.714286;AN=42;AO=1857;CIGAR=1X;DP=2512;DPB=2512;DPRA=0.996667;EPP=4000.77;EPPR=1392.87;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9914;MQMR=59.9969;NS=21;NUMALT=1;ODDS=21.5053;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65914;QR=23396;RO=652;RPL=1853;RPP=4000.77;RPPR=1392.87;RPR=4;RUN=1;SAF=0;SAP=4035.43;SAR=1857;SRF=0;SRP=1418.81;SRR=652;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:184:82,100:82:2940:100:3576:-266.92,0,-209.706 0/1:53:12,41:12:432:41:1456:-115.38,0,-23.2666 1/1:130:1,129:1:36:129:4561:-407.06,-35.5356,0 0/1:98:32,66:32:1152:66:2334:-180.818,0,-74.4892 0/1:217:87,130:87:3124:130:4599:-348.751,0,-216.062 1/1:111:0,111:0:0:111:3917:-352.725,-33.4143,0 0/1:107:47,60:47:1676:60:2128:-159.577,0,-118.917 0/0:120:120,0:120:4300:0:0:0,-36.1236,-387.177 0/1:186:99,87:99:3560:87:3091:-222.427,0,-264.614 0/1:28:16,12:16:572:12:432:-30.7924,0,-43.3846 1/1:26:0,26:0:0:26:932:-84.1989,-7.82678,0 1/1:42:1,41:1:36:41:1414:-123.953,-9.04499,0 1/1:179:0,179:0:0:179:6385:-574.742,-53.8844,0 0/1:133:52,81:52:1864:81:2852:-216.881,0,-128.002 1/1:288:0,287:0:0:287:10207:-918.206,-86.3956,0 1/1:42:0,42:0:0:42:1500:-135.295,-12.6433,0 1/1:98:0,98:0:0:98:3503:-315.48,-29.5009,0 0/1:150:59,91:59:2124:91:3239:-246.578,0,-146.274 0/1:102:41,61:41:1472:61:2175:-165.311,0,-102.071 1/1:149:0,149:0:0:149:5259:-473.448,-44.8535,0 1/1:69:3,66:3:108:66:2354:-202.043,-10.6959,0 chr10 1862231 . G C,T 23151.5 PASS AB=0.609223,0.390777;ABP=45.7019,45.7019;AC=30,12;AF=0.714286,0.285714;AN=42;AO=868,206;CIGAR=1X,1X;DP=1074;DPB=1074;DPRA=1.17045,1.01645;EPP=1887.85,450.334;EPPR=0;GTI=2;LEN=1,1;MEANALT=1.55,1.91667;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.0865;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30778,7370;QR=0;RO=0;RPL=868,206;RPP=1887.85,450.334;RPPR=0;RPR=0,0;RUN=1,1;SAF=868,206;SAP=1887.85,450.334;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:41:0,18,23:0:0:18,23:633,828:-119.442,-67.9204,-62.5019,-51.8765,0,-44.9528 1/2:10:0,7,3:0:0:7,3:252,108:-29.734,-9.17208,-7.06487,-20.9217,0,-20.0187 1/1:49:0,49,0:0:0:49,0:1741,0:-156.972,-14.7505,0,-156.972,-14.7505,-156.972 1/2:35:0,18,17:0:0:18,17:648,612:-103.169,-50.2959,-44.8774,-53.2333,0,-48.1158 1/2:76:0,45,31:0:0:45,31:1572,1112:-218.924,-91.0594,-77.5131,-128.219,0,-118.887 1/1:39:0,39,0:0:0:39,0:1368,0:-123.415,-11.7402,0,-123.415,-11.7402,-123.415 1/2:50:0,33,17:0:0:33,17:1167,608:-144.981,-49.9345,-40.0005,-95.4025,0,-90.285 2/2:44:0,0,44:0:0:0,44:0,1566:-141.231,-141.231,-141.231,-13.2453,-13.2453,0 1/2:58:0,24,34:0:0:24,34:860,1220:-170.011,-99.8718,-92.6471,-70.4971,0,-60.2621 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/1:162:0,161,1:0:0:161,1:5706,36:-513.3,-48.4658,0,-510.362,-45.1686,-510.061 1/1:146:0,146,0:0:0:146,0:5196,0:-467.778,-43.9504,0,-467.778,-43.9504,-467.778 1/1:56:0,56,0:0:0:56,0:1983,0:-178.742,-16.8577,0,-178.742,-16.8577,-178.742 1/2:47:0,30,17:0:0:30,17:1054,612:-136.078,-50.2959,-41.265,-86.1383,0,-81.0208 1/1:42:0,42,0:0:0:42,0:1499,0:-135.204,-12.6433,0,-135.204,-12.6433,-135.204 1/1:32:0,32,0:0:0:32,0:1144,0:-103.27,-9.63296,0,-103.27,-9.63296,-103.27 1/1:26:0,26,0:0:0:26,0:928,0:-83.8383,-7.82678,0,-83.8383,-7.82678,-83.8383 1/2:82:0,70,12:0:0:70,12:2447,424:-233.942,-34.8841,-13.812,-199.411,0,-195.798 1/2:8:0,2,6:0:0:2,6:72,208:-23.1305,-17.2523,-16.6503,-6.23466,0,-4.42848 1/1:49:0,49,0:0:0:49,0:1756,0:-158.324,-14.7505,0,-158.324,-14.7505,-158.324 1/1:17:0,17,0:0:0:17,0:608,0:-55.052,-5.11751,0,-55.052,-5.11751,-55.052 chr10 1862236 . A T 3230.92 PASS AB=0.389706;ABP=46.1204;AC=12;AF=0.285714;AN=42;AO=204;CIGAR=1X;DP=1058;DPB=1058;DPRA=1.02121;EPP=445.991;EPPR=1857.45;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.97031;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7261;QR=29936;RO=854;RPL=204;RPP=445.991;RPPR=1857.45;RPR=0;RUN=1;SAF=204;SAP=445.991;SAR=0;SRF=854;SRP=1857.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:18,23:18:636:23:824:-62.1411,0,-45.2258 0/1:11:8,3:8:284:3:108:-6.76384,0,-22.592 0/0:46:46,0:46:1636:0:0:0,-13.8474,-147.529 0/1:32:15,17:15:521:17:608:-45.4191,0,-37.5834 0/1:77:45,32:45:1579:32:1148:-80.4505,0,-119.22 0/0:38:38,0:38:1338:0:0:0,-11.4391,-120.718 0/1:48:32,16:32:1127:16:564:-36.6409,0,-87.288 1/1:44:0,44:0:0:44:1562:-140.871,-13.2453,0 0/1:56:24,32:24:856:32:1148:-86.7722,0,-60.5034 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/0:158:157,1:157:5460:1:36:0,-43.9645,-487.937 0/0:143:143,0:143:5001:0:0:0,-43.0473,-450.25 0/0:56:56,0:56:1973:0:0:0,-16.8577,-177.843 0/1:48:30,18:30:1049:18:648:-44.2024,0,-80.2687 0/0:42:42,0:42:1476:0:0:0,-12.6433,-133.134 0/0:32:32,0:32:1132:0:0:0,-9.63296,-102.189 0/0:27:27,0:27:956:0:0:0,-8.12781,-86.3557 0/1:80:69,11:69:2422:11:379:-10.3582,0,-194.154 0/1:10:4,6:4:140:6:200:-15.3168,0,-9.93428 0/0:48:48,0:48:1642:0:0:0,-14.4494,-148.061 0/0:16:16,0:16:568:0:0:0,-4.81648,-51.4519 chr10 1942055 . C T 10088.3 PASS AB=0.5;ABP=3.0103;AC=10;AF=0.238095;AN=42;AO=566;CIGAR=1X;DP=1849;DPB=1849;DPRA=2.04587;EPP=1232.06;EPPR=2775.99;GTI=1;LEN=1;MEANALT=1.16667;MQM=59.9753;MQMR=59.9891;NS=21;NUMALT=1;ODDS=1.91903;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20273;QR=45638;RO=1281;RPL=566;RPP=1232.06;RPPR=2775.99;RPR=0;RUN=1;SAF=566;SAP=1232.06;SAR=0;SRF=1281;SRP=2784.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:109,7:109:3863:7:252:0,-11.8905,-324.837 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/0:147:145,2:145:5141:2:72:0,-37.4147,-455.996 0/1:125:66,58:66:2355:58:2076:-149.502,0,-174.6 0/1:155:70,84:70:2492:84:3007:-224.142,0,-177.815 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/1:124:58,66:58:2060:66:2368:-176.05,0,-148.341 1/1:130:0,130:0:0:130:4668:-420.28,-39.1339,0 0/1:216:107,109:107:3840:109:3891:-285.324,0,-280.773 0/1:8:5,3:5:176:3:108:-7.66693,0,-13.7768 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:31:31,0:31:1090:0:0:0,-9.33193,-98.4079 0/0:119:119,0:119:4238:0:0:0,-35.8226,-381.594 0/1:123:60,63:60:2132:63:2259:-166.545,0,-155.119 0/0:154:154,0:154:5497:0:0:0,-46.3586,-494.85 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.659 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/1:62:34,28:34:1215:28:996:-71.291,0,-90.9919 0/1:39:24,15:24:851:15:540:-37.1964,0,-65.1693 0/0:108:107,1:107:3806:1:36:0,-28.913,-339.14 0/0:36:36,0:36:1274:0:0:0,-10.8371,-114.961 chr10 2013465 . G A 179.39 PASS AB=0.137803;ABP=1226.81;AC=9;AF=0.214286;AN=42;AO=181;CIGAR=1X;DP=2598;DPB=2598;DPRA=1.10372;EPP=396.047;EPPR=5251.46;GTI=6;LEN=1;MEANALT=1;MQM=59.3315;MQMR=59.9983;NS=21;NUMALT=1;ODDS=3.63083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6440;QR=86591;RO=2417;RPL=0;RPP=396.047;RPPR=331.853;RPR=181;RUN=1;SAF=181;SAP=396.047;SAR=0;SRF=1511;SRP=331.853;SRR=906;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:95:95,0:95:3408:0:0:0,-28.5978,-306.934 0/0:77:77,0:77:2734:0:0:0,-23.1793,-246.3 0/1:114:102,12:102:3637:12:428:-4.54139,0,-293.217 0/0:151:151,0:151:5404:0:0:0,-45.4555,-486.491 0/0:246:246,0:246:8817:0:0:0,-74.0534,-793.511 0/0:161:155,6:155:5572:6:216:0,-28.6753,-481.81 0/1:225:200,25:200:7172:25:877:-11.1734,0,-577.803 0/1:124:101,23:101:3624:23:813:-36.1091,0,-289.037 0/1:249:210,39:210:7524:39:1389:-50.3496,0,-602.244 0/1:14:11,3:11:396:3:108:-5.83138,0,-31.7683 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:30:20,10:20:720:10:360:-23.6995,0,-56.0979 0/0:133:133,0:133:4772:0:0:0,-40.037,-429.636 0/0:156:156,0:156:5581:0:0:0,-46.9607,-502.412 0/0:214:196,18:196:7021:18:648:0,-5.76854,-573.298 0/0:151:143,8:143:5132:8:273:0,-20.5553,-437.12 0/1:156:139,17:139:4980:17:608:-8.09134,0,-401.387 0/1:83:74,9:74:2633:9:324:-4.52037,0,-212.231 0/1:79:69,10:69:2480:10:360:-8.96057,0,-199.672 0/0:68:67,1:67:2404:1:36:0,-16.8718,-213.018 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 chr10 2013502 . ACAA ATAA,GTAG 37751.8 PASS AB=0.802353,0.197647;ABP=677.945,677.945;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1530,184;CIGAR=1M1X2M,2X1M1X;DP=1715;DPB=1715.25;DPRA=0,1.11475;EPP=3044.91,376.928;EPPR=0;GTI=4;LEN=1,4;MEANALT=1.66667,2;MQM=59.9922,59.3261;MQMR=0;NS=21;NUMALT=2;ODDS=7.76691;PAIRED=0,0;PAIREDR=0;PAO=0.5,0;PQA=0,0;PQR=0;PRO=0.5;QA=54754,6454;QR=0;RO=0;RPL=1497,181;RPP=3044.91,376.928;RPPR=0;RPR=33,3;RUN=1,1;SAF=1530,184;SAP=3325.36,402.561;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:0,50,0:0:0:50,0:1796,0:-161.922,-15.0515,0,-161.922,-15.0515,-161.922 1/1:59:0,59,0:0:0:59,0:2112,0:-190.349,-17.7608,0,-190.349,-17.7608,-190.349 1/2:75:0,62,13:0:0:62,13:2212,460:-218.149,-37.8217,-19.1578,-180.681,0,-176.768 1/1:98:0,97,0:0:0:97,0:3473,0:-312.42,-29.1999,0,-312.42,-29.1999,-312.42 1/1:202:0,202,0:0:0:202,0:7241,0:-651.74,-60.8081,0,-651.74,-60.8081,-651.74 1/1:87:0,81,6:0:0:81,6:2901,216:-260.964,-24.3834,0,-243.339,-6.3991,-241.533 1/2:152:0,127,25:0:0:127,25:4541,869:-441.14,-70.8641,-32.6333,-370.625,0,-363.099 1/2:65:0,41,24:0:0:41,24:1476,820:-187.293,-66.8468,-54.5046,-120.794,0,-113.569 1/2:159:0,120,39:0:0:120,39:4277,1397:-462.914,-114.289,-78.1652,-348.982,0,-337.242 1/2:12:0,9,3:0:0:9,3:324,101:-34.9457,-8.49067,-5.7814,-26.7966,0,-25.8935 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/2:20:0,11,9:0:0:11,9:393,311:-57.6498,-25.6009,-22.2896,-32.3995,0,-29.6902 1/1:94:0,94,0:0:0:94,0:3364,0:-302.975,-28.2968,0,-302.975,-28.2968,-302.975 1/1:61:0,61,0:0:0:61,0:2165,0:-195.115,-18.3628,0,-195.115,-18.3628,-195.115 1/2:139:0,121,18:0:0:121,18:4340,637:-406.235,-52.2398,-15.8152,-354.35,0,-348.931 1/1:127:0,118,9:0:0:118,9:4210,316:-378.705,-35.5215,0,-352.986,-9.45202,-350.277 1/2:137:0,119,18:0:0:119,18:4268,622:-399.012,-50.8844,-15.0619,-348.475,0,-343.056 1/2:51:0,42,9:0:0:42,9:1512,316:-149.448,-26.0693,-13.426,-123.731,0,-121.022 1/2:40:0,30,10:0:0:30,10:1080,353:-117.224,-29.0959,-20.065,-88.4823,0,-85.472 1/1:41:0,40,1:0:0:40,1:1432,36:-128.817,-12.0412,0,-125.88,-8.74396,-125.579 1/1:41:0,41,0:0:0:41,0:1461,0:-131.784,-12.3422,0,-131.784,-12.3422,-131.784 chr10 2013696 . T C 143.794 PASS AB=0.148718;ABP=1048.05;AC=11;AF=0.261905;AN=42;AO=150;CIGAR=1X;DP=1870;DPB=1870;DPRA=1.30256;EPP=328.731;EPPR=3694.64;GTI=7;LEN=1;MEANALT=1;MQM=59.9933;MQMR=59.85;NS=21;NUMALT=1;ODDS=1.1203;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5353;QR=61519;RO=1720;RPL=0;RPP=328.731;RPPR=3694.64;RPR=150;RUN=1;SAF=0;SAP=328.731;SAR=150;SRF=0;SRP=3737.94;SRR=1720;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:83:83,0:83:2950:0:0:0,-24.9855,-265.731 0/0:91:91,0:91:3264:0:0:0,-27.3937,-293.98 0/1:128:109,19:109:3912:19:672:-22.2736,0,-313.74 0/0:103:103,0:103:3685:0:0:0,-31.0061,-331.849 0/0:199:198,1:198:7044:1:36:0,-56.3067,-630.11 0/1:129:111,18:111:3984:18:640:-19.0964,0,-319.916 0/1:149:131,18:131:4693:18:644:-13.4371,0,-377.659 0/1:78:61,17:61:2196:17:612:-31.9331,0,-174.42 0/1:172:148,24:148:5293:24:860:-25.9447,0,-423.736 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:22:14,8:14:504:8:273:-18.2775,0,-39.0754 0/0:87:87,0:87:3116:0:0:0,-26.1896,-280.667 0/0:102:102,0:102:3630:0:0:0,-30.7051,-326.393 0/1:107:96,11:96:3448:11:396:-3.77254,0,-278.322 0/0:96:92,4:92:3270:4:144:0,-15.5857,-281.205 0/1:116:105,11:105:3753:11:396:-1.06327,0,-303.041 0/1:39:28,11:28:1008:11:396:-24.2426,0,-79.2393 0/1:29:24,5:24:849:5:180:-7.82219,0,-67.998 0/0:93:93,0:93:3340:0:0:0,-27.9958,-300.816 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 chr10 2013703 . G T,C 39964.8 PASS AB=0.850103,0.149897;ABP=1039.98,1039.98;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1712,151;CIGAR=1X,1X;DP=1863;DPB=1863;DPRA=0,1.01775;EPP=3685.91,330.903;EPPR=0;GTI=6;LEN=1,1;MEANALT=1.61905,2;MQM=59.8318,59.9007;MQMR=0;NS=21;NUMALT=2;ODDS=0.330887;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61165,5398;QR=0;RO=0;RPL=1708,151;RPP=3685.91,330.903;RPPR=0;RPR=4,0;RUN=1,1;SAF=0,0;SAP=3720.57,330.903;SAR=1712,151;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82,0:0:0:82,0:2914,0:-262.493,-24.6845,0,-262.493,-24.6845,-262.493 1/1:91:0,90,1:0:0:90,1:3201,36:-287.953,-27.0927,0,-285.016,-23.7955,-284.715 1/2:127:0,108,19:0:0:108,19:3872,684:-371.974,-56.1708,-23.6595,-316.163,0,-310.444 1/1:103:0,103,0:0:0:103,0:3700,0:-333.199,-31.0061,0,-333.199,-31.0061,-333.199 1/1:196:0,196,0:0:0:196,0:6972,0:-627.465,-59.0019,0,-627.465,-59.0019,-627.465 1/2:129:0,110,19:0:0:110,19:3948,684:-378.173,-56.1349,-23.0216,-322.397,0,-316.678 1/2:150:0,132,18:0:0:132,18:4720,648:-438.036,-53.2333,-13.4974,-385.162,0,-379.743 1/2:81:0,64,17:0:0:64,17:2274,612:-235.557,-50.2959,-31.03,-185.62,0,-180.502 1/2:174:0,150,24:0:0:150,24:5335,864:-505.436,-70.8578,-25.7033,-434.937,0,-427.713 1/2:6:0,3,3:0:0:3,3:108,104:-17.6186,-8.79971,-7.89662,-9.17208,0,-8.26899 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:21:0,13,8:0:0:13,8:468,284:-61.6846,-23.4951,-19.5817,-38.5463,0,-36.138 1/1:86:0,86,0:0:0:86,0:3084,0:-277.788,-25.8886,0,-277.788,-25.8886,-277.788 1/1:101:0,101,0:0:0:101,0:3624,0:-325.855,-30.404,0,-325.855,-30.404,-325.855 1/2:104:0,93,11:0:0:93,11:3321,381:-302.073,-31.3093,-3.31351,-271.111,0,-267.8 1/1:96:0,92,4:0:0:92,4:3270,144:-294.159,-27.6948,0,-282.409,-15.5857,-281.205 1/2:114:0,103,11:0:0:103,11:3693,381:-332.518,-31.3093,-0.303212,-301.556,0,-298.244 1/2:39:0,28,11:0:0:28,11:1004,396:-114.502,-32.6714,-24.2426,-82.1902,0,-78.8788 1/2:29:0,24,5:0:0:24,5:849,180:-84.1913,-15.0469,-7.82219,-69.5031,0,-67.998 1/1:94:0,94,0:0:0:94,0:3376,0:-304.055,-28.2968,0,-304.055,-28.2968,-304.055 1/1:35:0,35,0:0:0:35,0:1252,0:-112.985,-10.5361,0,-112.985,-10.5361,-112.985 chr10 2013708 . A G,T 39253.2 PASS AB=0.847418,0.151408;ABP=896.23,902.275;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1699,144;CIGAR=1X,1X;DP=1845;DPB=1845;DPRA=0,1.32877;EPP=3683.66,315.702;EPPR=5.18177;GTI=8;LEN=1,1;MEANALT=1.66667,2.07692;MQM=59.8676,59.8958;MQMR=60;NS=21;NUMALT=2;ODDS=3.61662;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60543,4899;QR=36;RO=1;RPL=1698,144;RPP=3683.66,315.702;RPPR=5.18177;RPR=1,0;RUN=1,1;SAF=0,0;SAP=3692.34,315.702;SAR=1699,144;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,83,0:0:0:83,0:2920,0:-263.035,-24.9855,0,-263.035,-24.9855,-263.035 1/1:90:0,90,0:0:0:90,0:3232,0:-291.101,-27.0927,0,-291.101,-27.0927,-291.101 1/2:127:0,109,18:0:0:109,18:3884,586:-364.241,-47.6294,-14.8172,-316.941,0,-311.523 1/1:104:0,104,0:0:0:104,0:3714,0:-334.46,-31.3071,0,-334.46,-31.3071,-334.46 1/1:200:0,199,1:0:0:199,1:7076,21:-636.606,-59.905,0,-635.018,-58.1061,-634.717 1/2:129:0,112,17:0:0:112,17:3981,588:-372.51,-48.0915,-14.3762,-324.765,0,-319.648 1/2:148:0,130,18:0:0:130,18:4650,598:-427.874,-48.7155,-9.58162,-379.494,0,-374.076 1/2:80:0,63,17:0:0:63,17:2251,577:-230.643,-47.1315,-28.1667,-183.855,0,-178.737 1/2:172:0,147,24:0:0:147,24:5246,832:-495.282,-67.7278,-23.4764,-427.658,0,-420.433 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:22:0,14,8:0:0:14,8:495,253:-61.0106,-20.6717,-16.4573,-40.6686,0,-38.2604 1/1:86:1,85,0:1:36:85,0:3023,0:-268.703,-22.2903,0,-269.004,-25.5876,-271.942 1/1:86:0,86,0:0:0:86,0:3048,0:-274.542,-25.8886,0,-274.542,-25.8886,-274.542 1/2:102:0,92,10:0:0:92,10:3308,344:-298.179,-28.2818,-0.587019,-270.243,0,-267.232 1/1:97:0,93,4:0:0:93,4:3312,140:-297.947,-27.9958,0,-286.557,-16.2557,-285.353 1/1:112:0,102,10:0:0:102,10:3615,356:-325.192,-30.7051,0,-296.177,-1.33411,-293.166 1/2:38:0,28,10:0:0:28,10:1004,356:-111.205,-29.3709,-20.9421,-82.1902,0,-79.1799 1/2:29:0,24,5:0:0:24,5:852,176:-84.1032,-14.6799,-7.45515,-69.7757,0,-68.2705 1/1:94:0,94,0:0:0:94,0:3365,0:-303.064,-28.2968,0,-303.064,-28.2968,-303.064 1/1:35:0,35,0:0:0:35,0:1243,0:-112.174,-10.5361,0,-112.174,-10.5361,-112.174 chr10 2013723 . GT AA 6876.43 PASS AB=0.478555;ABP=6.54936;AC=9;AF=0.214286;AN=42;AO=424;CIGAR=2X;DP=1884;DPB=1884;DPRA=1.1837;EPP=923.715;EPPR=3171.19;GTI=0;LEN=2;MEANALT=1.11111;MQM=59.4458;MQMR=59.9534;NS=21;NUMALT=1;ODDS=5.61746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15026;QR=51254;RO=1459;RPL=424;RPP=923.715;RPPR=3171.19;RPR=0;RUN=1;SAF=0;SAP=923.715;SAR=424;SRF=0;SRP=3171.19;SRR=1459;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:80,0:80:2790:0:0:0,-24.0824,-251.341 0/0:90:90,0:90:3176:0:0:0,-27.0927,-286.064 0/0:129:129,0:129:4536:0:0:0,-38.8329,-408.409 0/1:104:55,49:55:1941:49:1750:-126.474,0,-143.657 0/1:200:102,98:102:3613:98:3473:-252.479,0,-265.17 0/0:133:133,0:133:4632:0:0:0,-40.037,-417.014 0/1:151:78,73:78:2744:73:2607:-189.367,0,-201.746 0/1:79:17,62:17:584:62:2173:-172.043,0,-29.1007 0/1:175:104,70:104:3681:70:2482:-170.809,0,-277.899 0/1:6:5,1:5:170:1:36:-1.79209,0,-13.8278 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.425 0/0:22:22,0:22:774:0:0:0,-6.62266,-69.9807 0/0:87:87,0:87:3058:0:0:0,-26.1896,-275.449 0/1:103:55,48:55:1937:48:1687:-120.608,0,-143.599 0/0:107:107,0:107:3775:0:0:0,-32.2102,-339.949 0/0:98:98,0:98:3434:0:0:0,-29.5009,-309.272 0/0:117:117,0:117:4071:0:0:0,-35.2205,-366.569 0/1:39:26,13:26:936:13:460:-29.9375,0,-72.8193 0/1:29:19,10:19:665:10:358:-23.833,0,-51.4432 0/0:94:94,0:94:3289:0:0:0,-28.2968,-296.229 0/0:35:35,0:35:1236:0:0:0,-10.536,-111.543 chr10 2013731 . T A 124.728 PASS AB=0.149177;ABP=1042.11;AC=11;AF=0.261905;AN=42;AO=152;CIGAR=1X;DP=1861;DPB=1861;DPRA=1.03043;EPP=333.074;EPPR=3714.06;GTI=7;LEN=1;MEANALT=1;MQM=59.9934;MQMR=59.8432;NS=21;NUMALT=1;ODDS=2.73029;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5452;QR=61248;RO=1709;RPL=152;RPP=333.074;RPPR=3688.04;RPR=0;RUN=1;SAF=0;SAP=333.074;SAR=152;SRF=3;SRP=3688.04;SRR=1706;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:81:81,0:81:2897:0:0:0,-24.3834,-260.964 0/0:90:88,2:88:3164:2:72:0,-20.256,-278.147 0/1:127:109,18:109:3912:18:644:-20.0598,0,-314.041 0/0:102:102,0:102:3668:0:0:0,-30.7051,-330.322 0/0:194:194,0:194:6949:0:0:0,-58.3998,-625.298 0/1:130:112,18:112:4013:18:648:-19.518,0,-322.223 0/1:151:133,18:133:4784:18:644:-12.8351,0,-385.198 0/1:79:62,17:62:2224:17:612:-31.6321,0,-176.61 0/1:173:149,24:149:5348:24:864:-26.0044,0,-428.442 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:22:14,8:14:485:8:288:-19.6447,0,-37.3543 0/0:86:86,0:86:3069:0:0:0,-25.8886,-276.437 0/0:101:101,0:101:3624:0:0:0,-30.404,-325.855 0/1:103:92,11:92:3304:11:396:-4.97666,0,-266.572 0/0:97:93,4:93:3336:4:144:0,-15.8867,-287.144 0/1:115:102,13:102:3619:13:468:-7.8412,0,-291.294 0/1:38:28,10:28:1008:10:352:-20.5791,0,-79.5404 0/1:28:23,5:23:824:5:180:-8.12322,0,-66.0545 0/0:94:93,1:93:3328:1:36:0,-24.6985,-296.14 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 chr10 2018053 . CTTTTTCTTTTTGTTGTTGTTGTTGA CTCTCTCTTTTTGTCGTTGA,CTCTCTTTTTGTCGTCGTTGA 45777.3 PASS AB=0.466079,0.513656;ABP=14.3536,4.84888;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1675,759;CIGAR=2M1X1M1X5M6D4M1X5M,1M4D3M1X3M1D4M1X2M1X5M;DP=2497;DPB=1950.46;DPRA=0.663429,1.51095;EPP=3640.23,1651.16;EPPR=0;GTI=1;LEN=20,21;MEANALT=4.15,4.72727;MQM=40.4424,34.5441;MQMR=0;NS=21;NUMALT=2;ODDS=11.9378;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58032,25191;QR=0;RO=0;RPL=0,0;RPP=3640.23,1651.16;RPPR=0;RPR=1675,759;RUN=1,1;SAF=1675,759;SAP=3640.23,1651.16;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:0,103,0:0:0:103,0:3546,0:-309.221,-31.0061,0,-309.221,-31.0061,-309.221 1/1:151:0,143,1:0:0:143,1:4990,34:-437.456,-43.0473,0,-434.926,-40.5147,-434.625 1/1:128:0,125,0:0:0:125,0:4334,0:-377.175,-37.6288,0,-377.175,-37.6288,-377.175 1/2:140:0,57,82:0:0:57,82:2000,2612:-347.525,-190.229,-173.071,-157.268,0,-132.584 1/2:184:0,102,79:0:0:102,79:3537,2514:-459.176,-182.034,-151.329,-277.146,0,-253.365 1/1:65:0,63,0:0:0:63,0:2182,0:-191.438,-18.9649,0,-191.438,-18.9649,-191.438 1/2:220:0,98,118:0:0:98,118:3394,3931:-557.001,-288.621,-259.12,-268.377,0,-232.855 2/2:175:0,0,173:0:0:0,173:0,5888:-496.732,-496.732,-496.732,-52.0782,-52.0782,0 1/2:173:0,54,115:0:0:54,115:1845,3909:-436.341,-291.759,-275.503,-144.597,0,-109.979 1/2:30:0,13,17:0:0:13,17:455,578:-78.5703,-43.8692,-39.9558,-35.0259,0,-29.9084 1/1:6:0,6,0:0:0:6,0:195,0:-17.5749,-1.80618,0,-17.5749,-1.80618,-17.5749 1/1:50:0,49,0:0:0:49,0:1693,0:-144.479,-14.7505,0,-144.479,-14.7505,-144.479 1/1:89:0,88,0:0:0:88,0:3070,0:-266.348,-26.4906,0,-266.348,-26.4906,-266.348 1/2:201:0,104,91:0:0:104,91:3544,2904:-488.652,-210.938,-179.63,-277.769,0,-250.375 1/1:239:0,234,0:0:0:234,0:8126,0:-709.153,-70.441,0,-709.153,-70.441,-709.153 1/1:115:0,108,0:0:0:108,0:3720,0:-324.955,-32.5112,0,-324.955,-32.5112,-324.955 1/1:98:0,91,2:0:0:91,2:3198,64:-279.001,-27.3937,0,-274.172,-22.5698,-273.57 1/2:120:0,58,59:0:0:58,59:1967,2052:-305.296,-155.187,-137.728,-150.179,0,-132.418 1/2:67:0,43,22:0:0:43,22:1497,705:-168.415,-51.0619,-38.1176,-117.335,0,-110.713 1/1:81:0,81,0:0:0:81,0:2828,0:-240.23,-24.3834,0,-240.23,-24.3834,-240.23 1/1:58:0,55,0:0:0:55,0:1911,0:-167.09,-16.5567,0,-167.09,-16.5567,-167.09 chr10 2021574 . T C 19806.7 PASS AB=0.443548;ABP=27.0366;AC=32;AF=0.761905;AN=42;AO=1013;CIGAR=1X;DP=1624;DPB=1624;DPRA=0.610163;EPP=2194.03;EPPR=1327.61;GTI=2;LEN=1;MEANALT=1.05;MQM=59.8914;MQMR=59.9787;NS=21;NUMALT=1;ODDS=0.611941;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35542;QR=21657;RO=610;RPL=1012;RPP=2194.03;RPPR=1327.61;RPR=1;RUN=1;SAF=1013;SAP=2202.71;SAR=0;SRF=610;SRP=1327.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:2,62:2:63:62:2191:-191.473,-13.2828,0 1/1:24:0,24:0:0:24:842:-76.0971,-7.22472,0 1/1:58:0,58:0:0:58:2055:-184.994,-17.4597,0 0/1:126:60,66:60:2143:66:2321:-171.22,0,-155.207 0/1:201:120,81:120:4253:81:2823:-193.792,0,-322.442 1/1:45:0,45:0:0:45:1599:-144.199,-13.5464,0 0/1:115:59,56:59:2083:56:1955:-141.603,0,-153.119 0/0:123:123,0:123:4403:0:0:0,-37.0267,-396.414 0/1:178:112,66:112:3971:66:2316:-155.113,0,-303.998 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:23:0,23:0:0:23:827:-74.754,-6.92369,0 1/1:116:1,115:1:36:115:4058:-361.809,-31.3212,0 0/1:86:52,34:52:1846:34:1168:-79.5312,0,-140.53 1/1:124:0,124:0:0:124:4332:-389.998,-37.3277,0 1/1:42:0,42:0:0:42:1461:-131.779,-12.6433,0 1/1:30:0,30:0:0:30:1064:-96.0717,-9.0309,0 0/1:90:52,37:52:1837:37:1302:-90.4753,0,-138.605 0/1:59:20,39:20:707:39:1388:-107.458,0,-46.1938 1/1:55:2,53:2:63:53:1834:-159.354,-10.5735,0 1/1:48:0,48:0:0:48:1646:-148.421,-14.4494,0 chr10 2053423 . C A 36344.7 PASS AB=0.335132;ABP=396.817;AC=32;AF=0.761905;AN=42;AO=1877;CIGAR=1X;DP=3235;DPB=3235;DPRA=0.610204;EPP=4078.86;EPPR=2951.87;GTI=3;LEN=1;MEANALT=1;MQM=54.3021;MQMR=59.9507;NS=21;NUMALT=1;ODDS=3.3598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66019;QR=48162;RO=1358;RPL=0;RPP=4078.86;RPPR=11.7665;RPR=1877;RUN=1;SAF=0;SAP=4078.86;SAR=1877;SRF=716;SRP=11.7665;SRR=642;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:2,157:2:72:157:5513:-488.6,-41.027,0 1/1:167:0,167:0:0:167:5918:-530.917,-50.272,0 1/1:103:0,103:0:0:103:3612:-324.972,-31.0061,0 0/1:205:133,72:133:4700:72:2515:-164.474,0,-361.446 0/1:432:301,131:301:10646:131:4544:-277.609,0,-828.004 1/1:58:0,58:0:0:58:2063:-183.87,-17.4597,0 0/1:260:174,86:174:6191:86:3021:-192.193,0,-479.018 0/0:245:245,0:245:8715:0:0:0,-73.7523,-784.309 0/1:277:201,76:201:7110:76:2699:-159.595,0,-556.574 0/1:40:29,11:29:1036:11:383:-22.7179,0,-81.5127 1/1:6:0,6:0:0:6:216:-19.7408,-1.80618,0 1/1:35:0,35:0:0:35:1227:-110.44,-10.5361,0 1/1:114:0,114:0:0:114:3982:-357.905,-34.3174,0 0/1:222:155,67:155:5525:67:2387:-147.298,0,-430.548 1/1:270:1,269:1:36:269:9480:-847.475,-77.6798,0 1/1:110:0,110:0:0:110:3872:-348.396,-33.1133,0 1/1:135:1,134:1:36:134:4706:-419.318,-37.0408,0 0/1:147:85,62:85:3012:62:2179:-151.341,0,-227.059 0/1:85:31,54:31:1083:54:1902:-145.525,0,-72.1905 1/1:109:0,109:0:0:109:3825:-341.772,-32.8123,0 1/1:56:0,56:0:0:56:1975:-176.856,-16.8577,0 chr10 2053432 . AA AG 36591.5 PASS AB=0.330018;ABP=431.919;AC=32;AF=0.761905;AN=42;AO=1881;CIGAR=1M1X;DP=3286;DPB=3286;DPRA=0.6072;EPP=4087.55;EPPR=3043.07;GTI=3;LEN=1;MEANALT=1.25;MQM=54.2881;MQMR=59.9521;NS=21;NUMALT=1;ODDS=7.49851;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66580;QR=48769;RO=1400;RPL=0;RPP=4087.55;RPPR=7.53317;RPR=1881;RUN=1;SAF=0;SAP=4087.55;SAR=1881;SRF=727;SRP=7.53317;SRR=673;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:164:3,161:3:102:161:5709:-502.363,-39.852,0 1/1:166:2,164:2:64:164:5818:-515.84,-43.8929,0 1/1:103:0,103:0:0:103:3657:-328.938,-31.0061,0 0/1:208:135,72:135:4669:72:2555:-167.183,0,-357.712 0/1:447:312,135:312:10868:135:4814:-297.477,0,-843.471 1/1:57:0,57:0:0:57:1997:-179.22,-17.1587,0 0/1:272:184,88:184:6462:88:3099:-195.596,0,-499.792 0/0:250:250,0:250:8720:0:0:0,-75.2575,-784.769 0/1:284:208,76:208:7233:76:2686:-156.352,0,-565.539 0/1:40:30,10:30:1060:10:360:-20.6567,0,-83.6685 1/1:6:0,6:0:0:6:216:-19.7408,-1.80618,0 1/1:32:0,32:0:0:32:1131:-101.772,-9.63296,0 1/1:115:0,115:0:0:115:4065:-365.413,-34.6185,0 0/1:222:156,65:156:5409:65:2306:-140.483,0,-420.065 1/1:275:1,273:1:36:273:9708:-867.379,-79.239,0 1/1:108:0,108:0:0:108:3833:-344.896,-32.5112,0 1/1:137:1,135:1:36:135:4766:-424.796,-37.646,0 0/1:152:87,65:87:3073:65:2262:-157.273,0,-231.042 0/1:84:31,53:31:1037:53:1811:-137.606,0,-68.3425 1/1:106:0,106:0:0:106:3763:-336.37,-31.9092,0 1/1:58:0,57:0:0:57:2024:-180.843,-17.1587,0 chr10 2053446 . T G 40786.7 PASS AB=0.514706;ABP=5.05404;AC=32;AF=0.761905;AN=42;AO=1896;CIGAR=1X;DP=2566;DPB=2566;DPRA=0.866429;EPP=3973.79;EPPR=1406.25;GTI=0;LEN=1;MEANALT=1;MQM=54.2463;MQMR=59.9418;NS=21;NUMALT=1;ODDS=3.46595;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67582;QR=23975;RO=670;RPL=1879;RPP=3973.79;RPPR=1406.25;RPR=17;RUN=1;SAF=0;SAP=4120.12;SAR=1896;SRF=0;SRP=1457.9;SRR=670;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:1,161:1:36:161:5713:-508.46,-45.1686,0 1/1:166:0,166:0:0:166:5919:-531.003,-49.971,0 1/1:101:0,101:0:0:101:3615:-325.153,-30.404,0 0/1:129:57,72:57:2040:72:2564:-191.746,0,-145.039 0/1:281:149,132:149:5336:132:4698:-337.378,0,-395.777 1/1:58:0,58:0:0:58:2056:-183.91,-17.4597,0 0/1:165:78,87:78:2804:87:3092:-226.478,0,-202.929 0/0:140:140,0:140:4989:0:0:0,-42.1442,-449.112 0/1:142:65,77:65:2336:77:2760:-205.469,0,-167.751 0/1:27:17,10:17:608:10:352:-23.8495,0,-46.9242 1/1:6:0,6:0:0:6:216:-19.7408,-1.80618,0 1/1:36:0,36:0:0:36:1261:-113.457,-10.8371,0 1/1:118:0,118:0:0:118:4212:-378.645,-35.5215,0 0/1:147:81,66:81:2897:66:2368:-168.212,0,-216.711 1/1:277:1,276:1:21:276:9865:-882.958,-81.2854,0 1/1:108:0,108:0:0:108:3855:-346.893,-32.5112,0 1/1:137:0,137:0:0:137:4883:-438.641,-41.2411,0 0/1:123:62,61:62:2228:61:2148:-155.778,0,-163.757 0/1:74:19,55:19:680:55:1980:-155.788,0,-39.2529 1/1:110:0,110:0:0:110:3921:-350.206,-33.1133,0 1/1:59:0,59:0:0:59:2104:-187.999,-17.7608,0 chr10 2053461 . T G 11421.7 PASS AB=0.474265;ABP=9.26925;AC=10;AF=0.238095;AN=42;AO=648;CIGAR=1X;DP=2581;DPB=2581;DPRA=1.27185;EPP=1410.12;EPPR=4200.47;GTI=0;LEN=1;MEANALT=1;MQM=59.9336;MQMR=54.2245;NS=21;NUMALT=1;ODDS=6.64216;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23054;QR=69267;RO=1933;RPL=648;RPP=1410.12;RPPR=4200.47;RPR=0;RUN=1;SAF=0;SAP=1410.12;SAR=648;SRF=0;SRP=4200.47;SRR=1933;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:165:164,1:164:5884:1:36:0,-46.0717,-523.694 0/0:175:175,0:175:6254:0:0:0,-52.6802,-560.785 0/0:103:103,0:103:3685:0:0:0,-31.0061,-331.524 0/1:130:74,56:74:2641:56:2004:-141.5,0,-198.358 0/1:280:135,145:135:4833:145:5136:-378.098,0,-349.215 0/0:60:60,0:60:2137:0:0:0,-18.0618,-190.535 0/1:165:89,76:89:3192:76:2712:-194.654,0,-235.395 1/1:131:0,131:0:0:131:4668:-420.21,-39.4349,0 0/1:141:77,64:77:2749:64:2283:-163.284,0,-204.909 0/1:28:11,17:11:396:17:612:-46.9846,0,-27.5029 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7408 0/0:34:34,0:34:1220:0:0:0,-10.235,-109.764 0/0:119:119,0:119:4280:0:0:0,-35.8226,-384.59 0/1:147:67,80:67:2389:80:2835:-211.135,0,-170.675 0/0:278:278,0:278:9954:0:0:0,-83.6863,-892.723 0/0:113:113,0:113:4064:0:0:0,-34.0164,-365.602 0/0:140:140,0:140:5032:0:0:0,-42.1442,-452.007 0/1:124:64,60:64:2304:60:2135:-155.09,0,-169.263 0/1:73:55,18:55:1980:18:633:-35.3209,0,-156.089 0/0:110:110,0:110:3937:0:0:0,-33.1133,-350.711 0/0:59:59,0:59:2120:0:0:0,-17.7608,-187.888 chr10 2072053 . C G 17114.7 PASS AB=0.534005;ABP=6.99771;AC=32;AF=0.761905;AN=42;AO=641;CIGAR=1X;DP=863;DPB=863;DPRA=1.18286;EPP=3.77252;EPPR=15.8022;GTI=0;LEN=1;MEANALT=1.1;MQM=54.1186;MQMR=52.6818;NS=21;NUMALT=1;ODDS=5.02931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22817;QR=7804;RO=220;RPL=0;RPP=1394.92;RPPR=480.734;RPR=641;RUN=1;SAF=313;SAP=3.77252;SAR=328;SRF=92;SRP=15.8022;SRR=128;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,41:0:0:41:1461:-130.865,-12.3422,0 1/1:34:0,34:0:0:34:1220:-109.926,-10.235,0 1/1:19:0,19:0:0:19:680:-61.2423,-5.71957,0 0/1:40:20,20:20:716:20:705:-51.5015,0,-52.2283 0/1:75:33,42:33:1175:42:1512:-113.199,0,-82.6723 1/1:37:0,37:0:0:37:1309:-117.994,-11.1381,0 0/1:52:25,27:25:866:27:952:-69.938,0,-62.5393 0/0:35:35,0:35:1236:0:0:0,-10.536,-110.152 0/1:63:32,30:32:1136:30:1052:-75.8727,0,-83.3694 0/1:4:2,2:2:72:2:68:-5.21151,0,-5.57282 1/1:4:0,4:0:0:4:144:-13.2885,-1.20412,0 1/1:11:0,11:0:0:11:396:-35.7825,-3.31133,0 1/1:47:0,47:0:0:47:1684:-151.389,-14.1484,0 0/1:26:15,11:15:540:11:396:-28.013,0,-40.7936 1/1:70:0,70:0:0:70:2457:-220.079,-21.0721,0 1/1:30:0,30:0:0:30:1076:-97.0864,-9.0309,0 1/1:19:1,18:1:36:18:648:-54.9956,-2.125,0 0/1:77:32,45:32:1140:45:1604:-119.444,0,-78.5475 0/1:60:25,35:25:887:35:1241:-92.848,0,-61.6188 1/1:35:0,35:0:0:35:1251:-112.057,-10.5361,0 1/1:83:0,83:0:0:83:2961:-266.063,-24.9855,0 chr10 2072062 . C G 4970.91 PASS AB=0.474874;ABP=5.19268;AC=10;AF=0.238095;AN=42;AO=225;CIGAR=1X;DP=865;DPB=865;DPRA=1.20947;EPP=19.2336;EPPR=3.22813;GTI=0;LEN=1;MEANALT=1.2;MQM=52.52;MQMR=54.1975;NS=21;NUMALT=1;ODDS=4.45751;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7948;QR=22592;RO=638;RPL=0;RPP=491.592;RPPR=1388.41;RPR=225;RUN=1;SAF=92;SAP=19.2336;SAR=133;SRF=315;SRP=3.22813;SRR=323;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:42,0:42:1512:0:0:0,-12.6433,-135.756 0/0:35:35,0:35:1238:0:0:0,-10.536,-111.552 0/0:19:19,0:19:665:0:0:0,-5.71957,-59.9121 0/1:40:19,21:19:669:21:744:-54.8516,0,-48.3186 0/1:72:41,31:41:1438:31:1090:-75.9958,0,-107.57 0/0:37:37,0:37:1310:0:0:0,-11.1381,-118.092 0/1:55:27,28:27:936:28:996:-72.9389,0,-67.632 1/1:35:0,35:0:0:35:1214:-108.174,-10.5361,0 0/1:62:29,33:29:1036:33:1169:-86.7131,0,-74.7979 0/1:4:2,1:2:68:1:36:-2.30704,0,-5.1622 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2885 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.7825 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.355 0/1:29:12,17:12:432:17:612:-46.3653,0,-30.3484 0/0:70:70,0:70:2460:0:0:0,-21.0721,-220.382 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7587 0/0:20:18,1:18:648:1:36:0,-2.48154,-55.0544 0/1:76:44,32:44:1526:32:1123:-77.4641,0,-112.936 0/1:60:34,26:34:1207:26:928:-65.2419,0,-89.8748 0/0:36:36,0:36:1259:0:0:0,-10.8371,-112.841 0/0:81:81,0:81:2892:0:0:0,-24.3834,-259.946 chr10 2072098 . T C 16476.6 PASS AB=0.51928;ABP=4.26629;AC=32;AF=0.761905;AN=42;AO=624;CIGAR=1X;DP=846;DPB=846;DPRA=0;EPP=4.40227;EPPR=23.7078;GTI=0;LEN=1;MEANALT=1;MQM=54.0897;MQMR=52.6577;NS=21;NUMALT=1;ODDS=4.26721;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22057;QR=7849;RO=222;RPL=624;RPP=1358.01;RPPR=485.077;RPR=0;RUN=1;SAF=302;SAP=4.40227;SAR=322;SRF=88;SRP=23.7078;SRR=134;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,41:0:0:41:1464:-131.466,-12.3422,0 1/1:34:0,34:0:0:34:1204:-108.495,-10.235,0 1/1:18:0,18:0:0:18:640:-57.7444,-5.41854,0 0/1:39:19,20:19:668:20:693:-50.7362,0,-48.2297 0/1:72:31,41:31:1085:41:1459:-109.333,0,-75.5116 1/1:38:0,38:0:0:38:1338:-120.595,-11.4391,0 0/1:53:27,26:27:938:26:885:-63.6066,0,-68.3216 0/0:35:34,1:34:1216:1:36:0,-7.34843,-105.467 0/1:61:34,27:34:1201:27:940:-66.4557,0,-89.8721 0/1:4:2,2:2:72:2:72:-5.57282,0,-5.57282 1/1:4:0,4:0:0:4:144:-13.2885,-1.20412,0 1/1:11:0,11:0:0:11:396:-35.7825,-3.31133,0 1/1:46:0,46:0:0:46:1623:-145.883,-13.8474,0 0/1:28:17,11:17:593:11:392:-27.0938,0,-44.9766 1/1:68:0,68:0:0:68:2384:-213.451,-20.47,0 1/1:27:0,27:0:0:27:959:-86.5592,-8.12781,0 1/1:18:1,17:1:36:17:603:-50.9432,-1.82397,0 0/1:73:31,42:31:1112:42:1504:-111.816,0,-77.3031 0/1:59:26,33:26:928:33:1158:-85.7599,0,-65.5092 1/1:34:0,34:0:0:34:1216:-108.95,-10.235,0 1/1:83:0,83:0:0:83:2947:-264.448,-24.9855,0 chr10 2072100 . C G 4756.24 PASS AB=0.472727;ABP=5.49762;AC=10;AF=0.238095;AN=42;AO=216;CIGAR=1X;DP=839;DPB=839;DPRA=1.19007;EPP=28.1431;EPPR=6.1523;GTI=0;LEN=1;MEANALT=1;MQM=52.375;MQMR=54.0048;NS=21;NUMALT=1;ODDS=4.80732;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7656;QR=21846;RO=622;RPL=216;RPP=472.048;RPPR=1353.67;RPR=0;RUN=1;SAF=83;SAP=28.1431;SAR=133;SRF=296;SRP=6.1523;SRR=326;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:41,0:41:1438:0:0:0,-12.3422,-129.129 0/0:35:35,0:35:1230:0:0:0,-10.536,-110.822 0/0:18:18,0:18:632:0:0:0,-5.41854,-56.9376 0/1:38:20,18:20:699:18:640:-45.9878,0,-51.5969 0/1:69:39,30:39:1383:30:1065:-74.6533,0,-103.398 0/0:36:35,0:35:1203:0:0:0,-10.536,-108.181 0/1:53:26,27:26:881:27:941:-68.7577,0,-63.1169 1/1:33:0,33:0:0:33:1179:-104.949,-9.93399,0 0/1:59:27,32:27:952:32:1135:-84.5389,0,-68.2025 0/1:4:2,2:2:72:2:68:-5.21151,0,-5.57282 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2885 0/0:11:11,0:11:387:0:0:0,-3.31133,-34.9657 0/0:47:47,0:47:1642:0:0:0,-14.1484,-147.593 0/1:29:12,17:12:428:17:593:-44.6466,0,-29.986 0/0:66:66,0:66:2322:0:0:0,-19.868,-207.884 0/0:29:29,0:29:1029:0:0:0,-8.72987,-92.855 0/0:18:17,1:17:589:1:36:0,-1.82397,-49.677 0/1:75:44,31:44:1572:31:1099:-75.537,0,-117.183 0/1:58:33,25:33:1165:25:900:-63.2929,0,-86.6123 0/0:34:34,0:34:1196:0:0:0,-10.235,-106.943 0/0:82:82,0:82:2882:0:0:0,-24.6845,-258.798 chr10 2080232 . TCC TGTT,TCTT 77280.4 PASS AB=0.497653,0.500261;ABP=3.10205,3.01143;AC=32,10;AF=0.761905,0.238095;AN=42;AO=3089,1199;CIGAR=1M1I2X,2M1I1X;DP=4306;DPB=5738.33;DPRA=0.902655,1.27712;EPP=6650.03,2597.93;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.45,2.53333;MQM=32.8291,45.191;MQMR=0;NS=21;NUMALT=2;ODDS=20.4858;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=108186,41962;QR=0;RO=0;RPL=3082,1198;RPP=6650.03,2597.93;RPPR=0;RPR=7,1;RUN=1,1;SAF=3089,1199;SAP=6710.69,2606.61;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:187:0,185,1:0:0:185,1:6434,36:-513.856,-55.6906,0,-510.963,-52.7799,-510.662 1/1:177:0,177,0:0:0:177,0:6194,0:-454.962,-53.2823,0,-454.962,-53.2823,-454.962 1/1:185:0,185,0:0:0:185,0:6488,0:-518.195,-55.6906,0,-518.195,-55.6906,-518.195 1/2:410:0,215,195:0:0:215,195:7440,6783:-1073.87,-543.889,-479.168,-530.311,0,-471.61 1/2:284:0,136,147:0:0:136,147:4797,5143:-748.357,-410.724,-369.784,-337.693,0,-293.441 1/1:229:0,221,7:0:0:221,7:7768,252:-571.374,-66.5276,0,-551.581,-46.7401,-549.473 1/2:330:0,169,160:0:0:169,160:5897,5572:-826.232,-441.822,-390.948,-384.529,0,-336.364 2/2:226:0,0,226:0:0:0,226:0,7942:-700.003,-700.003,-700.003,-68.0328,-68.0328,0 1/2:312:0,150,162:0:0:150,162:5271,5697:-842.043,-460.036,-414.882,-382.339,0,-333.572 1/2:41:0,24,17:0:0:24,17:842,593:-105.366,-47.7472,-40.5225,-57.9441,0,-52.8265 1/1:48:0,47,0:0:0:47,0:1652,0:-121.91,-14.1484,0,-121.91,-14.1484,-121.91 1/1:85:0,85,0:0:0:85,0:2992,0:-227.516,-25.5876,0,-227.516,-25.5876,-227.516 1/1:158:0,157,1:0:0:157,1:5449,36:-432.231,-47.2617,0,-429.322,-43.9959,-429.021 1/2:263:0,107,155:0:0:107,155:3741,5397:-696.462,-432.01,-399.799,-264.585,0,-217.925 1/1:295:0,292,0:0:0:292,0:10305,0:-817.506,-87.9008,0,-817.506,-87.9008,-817.506 1/1:237:0,233,0:0:0:233,0:8189,0:-667.385,-70.14,0,-667.385,-70.14,-667.385 1/1:257:0,252,1:0:0:252,1:8831,36:-725.573,-75.8596,0,-722.653,-72.9176,-722.352 1/2:156:0,70,85:0:0:70,85:2469,3001:-406.554,-237.788,-216.716,-168.812,0,-143.225 1/2:121:0,83,38:0:0:83,38:2926,1343:-316.695,-107.917,-82.9312,-209.115,0,-197.676 1/1:238:0,236,2:0:0:236,2:8259,59:-634.476,-71.0431,0,-629.801,-66.0758,-629.199 1/1:67:0,65,2:0:0:65,2:2242,72:-166.697,-19.567,0,-160.959,-13.4791,-160.357 chr10 2080267 . TAAGAT TAGGAT 13468.8 PASS AB=0.413275;ABP=107.34;AC=9;AF=0.214286;AN=42;AO=821;CIGAR=2M1X3M;DP=3763;DPB=3763;DPRA=1.41015;EPP=1785.79;EPPR=6345.88;GTI=1;LEN=1;MEANALT=1.78571;MQM=58.9208;MQMR=58.5837;NS=21;NUMALT=1;ODDS=11.2131;PAIRED=0;PAIREDR=0;PAO=1.33333;PQA=48;PQR=48;PRO=1.33333;QA=28962;QR=102688;RO=2921;RPL=0;RPP=1785.79;RPPR=6345.88;RPR=821;RUN=1;SAF=0;SAP=1785.79;SAR=821;SRF=0;SRP=6345.88;SRR=2921;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:181:180,1:180:6279:1:36:0,-50.8882,-561.294 0/0:178:174,1:174:6079:1:36:0,-49.4408,-543.064 0/0:241:241,0:241:8462:0:0:0,-72.5482,-761.184 0/1:145:72,73:72:2484:73:2612:-191.566,0,-179.933 0/1:366:227,134:227:7983:134:4702:-313.712,0,-609.236 0/0:282:281,1:281:9931:1:36:0,-81.2932,-888.865 0/1:355:210,145:210:7387:145:5126:-354.084,0,-557.172 1/1:153:0,152:0:0:152:5361:-482.246,-45.7566,0 0/1:226:134,91:134:4705:91:3197:-219.581,0,-355.216 0/0:23:21,2:21:723:2:72:0,-0.0869673,-58.5493 0/0:23:19,0:19:669:0:0:0,-5.71957,-60.109 0/0:82:82,0:82:2880:0:0:0,-24.6845,-259.29 0/0:217:217,0:217:7674:0:0:0,-65.3235,-690.534 0/1:162:81,76:81:2854:76:2681:-193.852,0,-209.349 0/0:215:212,3:212:7473:3:108:0,-54.6756,-661.451 0/0:149:148,1:148:5208:1:36:0,-41.2552,-465.019 0/0:172:172,0:172:6056:0:0:0,-51.7772,-544.42 0/1:101:56,45:56:1931:45:1586:-112.606,0,-143.477 0/1:242:145,96:145:5124:96:3373:-230.798,0,-388.243 0/0:179:178,0:178:6264:0:0:0,-53.5833,-563.231 0/0:71:71,0:71:2522:0:0:0,-21.3731,-227.05 chr10 2080289 . AAG GAA,GAG 93943.8 PASS AB=0.577667,0.419214;ABP=86.9987,93.8803;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2931,833;CIGAR=1X1M1X,1X2M;DP=3775;DPB=3775;DPRA=1.18366,1.41043;EPP=3023.04,1114.58;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=2.1,2.5;MQM=58.4886,58.8595;MQMR=60;NS=21;NUMALT=2;ODDS=9.81775;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=103464,29772;QR=36;RO=1;RPL=456,90;RPP=3023.04,1114.58;RPPR=5.18177;RPR=2475,743;RUN=1,1;SAF=0,0;SAP=6367.6,1811.85;SAR=2931,833;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:182:0,181,1:0:0:181,1:6351,36:-570.92,-54.4864,0,-567.983,-51.1892,-567.682 1/1:178:0,176,1:0:0:176,1:6199,36:-556.991,-52.9813,0,-554.055,-50.0042,-553.754 1/1:242:0,241,0:0:0:241,0:8524,0:-766.297,-72.5482,0,-766.297,-72.5482,-766.297 1/2:147:0,72,74:0:0:72,74:2503,2660:-420.296,-217.002,-195.328,-203.409,0,-181.133 1/2:368:0,226,141:0:0:226,141:7989,5055:-1061.66,-411.29,-343.257,-650.476,0,-608.031 1/1:284:0,282,1:0:0:282,1:9972,36:-895.53,-84.8905,0,-892.594,-81.8789,-892.293 1/2:352:0,209,143:0:0:209,143:7367,5082:-1012.85,-413.927,-351.012,-599.274,0,-556.226 2/2:153:0,0,152:0:0:0,152:0,5415:-487.057,-487.057,-487.057,-45.7566,-45.7566,0 1/2:226:0,133,92:0:0:133,92:4701,3285:-650.175,-267.655,-227.618,-382.604,0,-354.909 1/1:23:0,21,2:0:0:21,2:744,72:-66.9218,-6.32163,0,-61.0465,-0.0869677,-60.4444 1/1:23:0,23,0:0:0:23,0:818,0:-73.0944,-6.92369,0,-73.0944,-6.92369,-73.0944 1/1:82:0,82,0:0:0:82,0:2862,0:-257.715,-24.6845,0,-257.715,-24.6845,-257.715 1/1:218:0,218,0:0:0:218,0:7735,0:-696.007,-65.6245,0,-696.007,-65.6245,-696.007 1/2:164:0,83,80:0:0:83,80:2928,2852:-470.568,-232.383,-207.398,-238.259,0,-214.176 1/1:215:0,212,3:0:0:212,3:7481,108:-671.783,-63.8184,0,-662.999,-54.6756,-662.096 1/1:149:0,148,1:0:0:148,1:5205,36:-468.015,-44.5524,0,-465.077,-41.2552,-464.776 1/1:172:0,172,0:0:0:172,0:6074,0:-546.093,-51.7772,0,-546.093,-51.7772,-546.093 1/2:101:0,56,45:0:0:56,45:1961,1620:-291.913,-132.498,-115.64,-159.77,0,-146.224 1/2:245:0,147,97:0:0:147,97:5221,3479:-708.853,-283.773,-239.521,-425.157,0,-395.957 1/1:179:0,179,0:0:0:179,0:6322,0:-568.722,-53.8844,0,-568.722,-53.8844,-568.722 1/1:72:1,70,0:1:36:70,0:2507,0:-222.051,-18.1346,0,-222.352,-21.0721,-225.289 chr10 2130380 . AAACAACCT AAACCT 34393.3 PASS AB=0.450226;ABP=31.544;AC=32;AF=0.761905;AN=42;AO=1820;CIGAR=1M3D5M;DP=2889;DPB=2278.44;DPRA=0.390396;EPP=3920.42;EPPR=2246.35;GTI=2;LEN=3;MEANALT=1.7;MQM=59.9989;MQMR=59.9858;NS=21;NUMALT=1;ODDS=5.67811;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61341;QR=36701;RO=1053;RPL=4;RPP=3920.42;RPPR=2246.35;RPR=1816;RUN=1;SAF=1820;SAP=3955.09;SAR=0;SRF=1053;SRP=2289.57;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:184:0,182:0:0:182:6125:-551.024,-54.7875,0 1/1:111:0,111:0:0:111:3769:-339.409,-33.4143,0 1/1:162:0,161:0:0:161:5506:-495.312,-48.4658,0 0/1:157:88,68:88:3050:68:2304:-160.438,0,-227.564 0/1:312:179,133:179:6282:133:4423:-304.322,0,-471.57 1/1:94:0,94:0:0:94:3115:-280.571,-28.2968,0 0/1:290:145,142:145:5130:142:4824:-347.583,0,-375.11 0/0:328:328,0:328:11310:0:0:0,-98.7378,-1017.85 0/1:234:131,102:131:4586:102:3422:-237.84,0,-342.568 0/1:36:20,16:20:684:16:530:-37.1759,0,-51.0426 1/1:9:0,9:0:0:9:301:-27.4137,-2.70927,0 1/1:33:0,33:0:0:33:1108:-100.015,-9.93399,0 1/1:66:0,66:0:0:66:2148:-193.572,-19.868,0 0/1:151:90,60:90:3147:60:1969:-131.958,0,-237.948 1/1:251:0,249:0:0:249:8581:-772.013,-74.9565,0 1/1:99:0,99:0:0:99:3315:-298.567,-29.802,0 1/1:70:3,66:3:108:66:2151:-183.766,-11.0557,0 0/1:97:49,44:49:1718:44:1525:-109.238,0,-126.604 0/1:49:17,32:17:585:32:1081:-82.8394,0,-38.224 1/1:113:3,110:3:101:110:3718:-325.403,-24.593,0 1/1:43:0,43:0:0:43:1426:-128.621,-12.9443,0 chr10 2149385 . T G 10298.4 PASS AB=0.420814;ABP=27.0832;AC=32;AF=0.761905;AN=42;AO=520;CIGAR=1X;DP=813;DPB=813;DPRA=1.22031;EPP=1132.18;EPPR=628.424;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8692;MQMR=59.5582;NS=21;NUMALT=1;ODDS=0.495086;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18589;QR=10441;RO=292;RPL=0;RPP=1132.18;RPPR=628.424;RPR=520;RUN=1;SAF=520;SAP=1132.18;SAR=0;SRF=292;SRP=637.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:1,70:1:36:70:2493:-221.01,-17.7749,0 1/1:21:0,21:0:0:21:748:-67.6407,-6.32163,0 1/1:20:0,20:0:0:20:720:-65.115,-6.0206,0 0/1:40:26,14:26:932:14:500:-33.295,0,-71.8872 0/1:140:88,52:88:3153:52:1845:-124.184,0,-241.804 1/1:30:1,29:1:36:29:1032:-89.5952,-5.43263,0 0/1:63:38,25:38:1340:25:900:-62.3515,0,-101.928 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/1:49:29,20:29:1040:20:716:-50.0139,0,-78.9736 0/1:25:11,14:11:396:14:485:-36.4512,0,-28.457 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 0/1:29:20,9:20:704:9:320:-20.3986,0,-54.8673 1/1:43:0,43:0:0:43:1548:-139.599,-12.9443,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:54:29,25:29:1044:25:887:-63.8925,0,-78.011 0/1:42:14,27:14:504:27:968:-74.7359,0,-32.9965 1/1:35:2,33:2:72:33:1188:-100.392,-3.69933,0 1/1:34:1,33:1:36:33:1179:-102.819,-6.63675,0 chr10 2149393 . T C 10223.4 PASS AB=0.42069;ABP=26.7767;AC=32;AF=0.761905;AN=42;AO=517;CIGAR=1X;DP=808;DPB=808;DPRA=1.17424;EPP=1125.66;EPPR=615.485;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8878;MQMR=59.5552;NS=21;NUMALT=1;ODDS=0.57074;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18401;QR=10343;RO=290;RPL=0;RPP=1125.66;RPPR=615.485;RPR=517;RUN=1;SAF=517;SAP=1125.66;SAR=0;SRF=290;SRP=632.737;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:1,70:1:36:70:2498:-221.46,-17.7749,0 1/1:22:0,22:0:0:22:788:-71.2402,-6.62266,0 1/1:20:0,20:0:0:20:711:-64.3019,-6.0206,0 0/1:40:26,14:26:936:14:504:-33.6569,0,-72.2478 0/1:137:86,51:86:3061:51:1820:-122.84,0,-234.446 1/1:31:1,30:1:36:30:1080:-93.915,-5.73366,0 0/1:62:37,25:37:1328:25:881:-60.9402,0,-101.151 0/0:33:33,0:33:1165:0:0:0,-9.93399,-105.155 0/1:49:29,20:29:1021:20:714:-49.8356,0,-77.4421 0/1:23:11,12:11:396:12:423:-31.4814,0,-29.0591 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:46:0,46:0:0:46:1611:-145.276,-13.8474,0 0/1:29:20,9:20:716:9:320:-20.3986,0,-55.8472 1/1:42:0,41:0:0:41:1472:-132.403,-12.3422,0 1/1:14:0,14:0:0:14:492:-44.6123,-4.21442,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:53:28,25:28:1004:25:892:-64.6451,0,-74.7131 0/1:42:15,27:15:536:27:972:-75.1546,0,-35.9269 1/1:35:2,33:2:72:33:1184:-100.032,-3.69933,0 1/1:33:1,32:1:36:32:1107:-96.3347,-6.33572,0 chr10 2149416 . A G 4680.38 PASS AB=0.571759;ABP=22.3324;AC=10;AF=0.238095;AN=42;AO=279;CIGAR=1X;DP=800;DPB=800;DPRA=2.28054;EPP=608.851;EPPR=1134.35;GTI=1;LEN=1;MEANALT=1;MQM=59.552;MQMR=59.881;NS=21;NUMALT=1;ODDS=1.65902;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9850;QR=18617;RO=521;RPL=279;RPP=608.851;RPPR=1134.35;RPR=0;RUN=1;SAF=279;SAP=608.851;SAR=0;SRF=521;SRP=1134.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:70,1:70:2491:1:36:0,-17.7749,-220.831 0/0:22:22,0:22:775:0:0:0,-6.62266,-70.0706 0/0:19:19,0:19:672:0:0:0,-5.71957,-60.793 0/1:38:14,24:14:504:24:856:-65.6514,0,-34.259 0/1:136:52,84:52:1860:84:2963:-225.93,0,-126.726 0/0:31:30,1:30:1072:1:36:0,-5.73365,-93.1942 0/1:60:24,36:24:856:36:1260:-95.6331,0,-59.2993 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 0/1:49:20,29:20:716:29:1012:-76.6243,0,-50.0139 0/1:25:14,11:14:500:11:392:-28.0943,0,-37.8104 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 0/1:29:9,20:9:324:20:695:-54.1117,0,-20.7621 0/0:43:43,0:43:1536:0:0:0,-12.9443,-138.519 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:53:25,28:25:900:28:992:-73.6316,0,-65.3664 0/1:42:27,15:27:972:15:536:-35.9269,0,-75.1546 0/0:35:33,2:33:1184:2:72:0,-3.69933,-100.032 0/0:34:33,1:33:1167:1:36:0,-6.63674,-101.738 chr10 2173181 . C G 9913.11 PASS AB=0.482582;ABP=5.58225;AC=10;AF=0.238095;AN=42;AO=567;CIGAR=1X;DP=2085;DPB=2085;DPRA=1.6374;EPP=1234.24;EPPR=3273.3;GTI=0;LEN=1;MEANALT=1;MQM=59.9929;MQMR=60;NS=21;NUMALT=1;ODDS=7.80614;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20305;QR=54124;RO=1518;RPL=0;RPP=1234.24;RPPR=3273.3;RPR=567;RUN=1;SAF=567;SAP=1234.24;SAR=0;SRF=1518;SRP=3299.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:130:127,3:127:4542:3:99:0,-29.8973,-399.709 0/0:62:62,0:62:2199:0:0:0,-18.6639,-198.175 0/0:90:90,0:90:3215:0:0:0,-27.0927,-289.572 0/1:125:62,63:62:2232:63:2259:-165.943,0,-163.515 0/1:229:118,111:118:4183:111:3982:-289.633,0,-307.72 0/0:100:100,0:100:3574:0:0:0,-30.103,-321.867 0/1:119:68,51:68:2414:51:1836:-129.698,0,-181.693 1/1:91:0,91:0:0:91:3268:-294.34,-27.3937,0 0/1:199:99,100:99:3556:100:3575:-262.052,0,-260.342 0/1:11:5,6:5:180:6:212:-16.1135,0,-13.2407 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:32:32,0:32:1140:0:0:0,-9.63296,-102.909 0/0:138:137,1:137:4876:1:36:0,-37.9439,-435.395 0/1:116:54,62:54:1920:62:2215:-164.695,0,-138.158 0/0:142:142,0:142:5066:0:0:0,-42.7463,-456.085 0/0:66:66,0:66:2330:0:0:0,-19.868,-209.96 0/0:101:101,0:101:3604:0:0:0,-30.404,-324.567 0/1:96:38,58:38:1355:58:2067:-157.401,0,-93.3508 0/1:81:61,20:61:2167:20:720:-40.7453,0,-170.913 0/0:95:94,1:94:3364:1:36:0,-24.9996,-299.378 0/0:47:47,0:47:1671:0:0:0,-14.1484,-150.677 chr10 2173211 . C A 9886.43 PASS AB=0.484694;ABP=5.00451;AC=10;AF=0.238095;AN=42;AO=567;CIGAR=1X;DP=2076;DPB=2076;DPRA=1.67523;EPP=1234.24;EPPR=3275.42;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.9929;MQMR=60;NS=21;NUMALT=1;ODDS=7.36159;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20276;QR=53439;RO=1507;RPL=567;RPP=1234.24;RPPR=3275.42;RPR=0;RUN=1;SAF=567;SAP=1234.24;SAR=0;SRF=1507;SRP=3275.42;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:127:125,2:125:4441:2:72:0,-31.3941,-393.023 0/0:63:63,0:63:2243:0:0:0,-18.9649,-202.133 0/0:86:86,0:86:3080:0:0:0,-25.8886,-277.428 0/1:126:62,64:62:2184:64:2281:-167.62,0,-158.895 0/1:233:120,112:120:4235:112:4001:-290.081,0,-311.131 0/0:101:101,0:101:3577:0:0:0,-30.404,-322.136 0/1:119:68,51:68:2440:51:1828:-128.978,0,-184.032 1/1:88:0,88:0:0:88:3149:-283.633,-26.4906,0 0/1:200:99,101:99:3520:101:3609:-264.809,0,-256.803 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:30:30,0:30:1067:0:0:0,-9.0309,-96.3412 0/0:136:136,0:136:4810:0:0:0,-40.9401,-433.055 0/1:112:50,61:50:1737:61:2184:-163.052,0,-122.836 0/0:145:144,1:144:5092:1:36:0,-40.0511,-454.827 0/0:62:62,0:62:2202:0:0:0,-18.6639,-198.444 0/0:102:102,0:102:3606:0:0:0,-30.7051,-324.746 0/1:94:35,59:35:1224:59:2112:-162.052,0,-82.1641 0/1:84:63,21:63:2248:21:752:-42.7197,0,-177.297 0/0:94:93,1:93:3315:1:36:0,-24.6985,-294.971 0/0:47:47,0:47:1666:0:0:0,-14.1484,-150.226 chr10 2173286 . G A 19708.9 PASS AB=0.477679;ABP=5.91852;AC=32;AF=0.761905;AN=42;AO=959;CIGAR=1X;DP=1381;DPB=1381;DPRA=0.922535;EPP=2085.45;EPPR=919.372;GTI=1;LEN=1;MEANALT=1;MQM=59.9979;MQMR=60;NS=21;NUMALT=1;ODDS=4.22257;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33978;QR=15012;RO=422;RPL=0;RPP=2085.45;RPPR=919.372;RPR=959;RUN=1;SAF=0;SAP=2085.45;SAR=959;SRF=0;SRP=919.372;SRR=422;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:0,109:0:0:109:3868:-348.317,-32.8123,0 1/1:49:0,49:0:0:49:1752:-157.964,-14.7505,0 1/1:79:0,79:0:0:79:2777:-250.171,-23.7814,0 0/1:45:21,24:21:727:24:849:-63.1815,0,-52.2031 0/1:188:110,78:110:3917:78:2759:-191.958,0,-296.13 1/1:31:0,31:0:0:31:1089:-98.3173,-9.33193,0 0/1:101:68,33:68:2403:33:1158:-74.121,0,-186.121 0/0:71:71,0:71:2526:0:0:0,-21.3731,-227.591 0/1:98:55,43:55:1980:43:1544:-109.751,0,-148.973 0/1:35:12,23:12:424:23:810:-62.683,0,-27.9604 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:12:0,12:0:0:12:424:-38.4964,-3.61236,0 1/1:70:0,70:0:0:70:2488:-224.172,-21.0721,0 0/1:65:28,37:28:1000:37:1328:-100.255,0,-70.7484 1/1:118:0,118:0:0:118:4196:-377.822,-35.5215,0 1/1:33:0,33:0:0:33:1175:-106.057,-9.93399,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 0/1:92:44,48:44:1571:48:1698:-125.41,0,-113.986 0/1:48:13,35:13:464:35:1241:-97.5431,0,-27.6481 1/1:78:0,78:0:0:78:2747:-247.473,-23.4803,0 1/1:33:0,33:0:0:33:1139:-102.812,-9.93399,0 chr10 2183764 . TCTT GCTT,GCTC 42504.6 PASS AB=0.520863,0.478177;ABP=10.8932,11.6347;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1544,1022;CIGAR=1X3M,1X2M1X;DP=2568;DPB=2570.5;DPRA=0,1.13889;EPP=3355.76,2222.26;EPPR=0;GTI=1;LEN=1,4;MEANALT=2,2.05;MQM=54.3815,25.8444;MQMR=0;NS=21;NUMALT=2;ODDS=7.17311;PAIRED=0,0;PAIREDR=0;PAO=1,8;PQA=0,268;PQR=0;PRO=1;QA=55199,36258;QR=0;RO=0;RPL=0,0;RPP=3355.76,2222.26;RPPR=0;RPR=1544,1022;RUN=1,1;SAF=1544,1022;SAP=3355.76,2222.26;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:66:0,54,12:0:0:54,12:1932,414:-180.527,-23.0565,-6.8009,-157.736,0,-154.123 1/1:56:0,55,1:0:0:55,1:1952,36:-174.582,-16.5567,0,-172.582,-14.299,-172.281 1/2:159:0,46,111:0:0:46,111:1652,3929:-349.171,-214.994,-201.147,-134.147,0,-100.732 1/2:176:0,113,63:0:0:113,63:4048,2247:-450.49,-120.682,-86.6658,-329.843,0,-310.878 1/1:159:0,140,19:0:0:140,19:5012,683:-449.965,-42.1442,0,-413.521,-5.4404,-407.801 1/2:149:0,92,57:0:0:92,57:3309,2012:-382.377,-114.672,-86.9771,-268,0,-250.842 1/2:167:0,101,66:0:0:101,66:3600,2345:-424.098,-131.904,-101.5,-292.488,0,-272.62 1/1:108:0,108,0:0:0:108,0:3845,0:-345.21,-32.5112,0,-345.21,-32.5112,-345.21 1/2:222:0,125,97:0:0:125,97:4469,3430:-549.85,-185.981,-148.352,-363.805,0,-334.605 1/2:14:0,8,6:0:0:8,6:284,216:-34.6556,-11.7618,-9.35356,-23.185,0,-21.3788 1/2:7:0,2,5:0:0:2,5:72,180:-16.1529,-10.2649,-9.66284,-6.21747,0,-4.71232 1/2:67:0,30,37:0:0:30,37:1076,1326:-159.81,-72.479,-63.4481,-87.6403,0,-76.5022 1/2:182:0,70,112:0:0:70,112:2504,3993:-422.196,-218.504,-197.432,-203.729,0,-170.013 1/2:127:0,88,39:0:0:88,39:3142,1366:-329.902,-74.5774,-48.0867,-255.603,0,-243.863 1/2:255:0,125,130:0:0:125,130:4468,4641:-615.634,-252.024,-214.395,-363.914,0,-324.78 1/1:67:0,63,4:0:0:63,4:2256,142:-202.472,-18.9649,0,-194.819,-11.0583,-193.615 1/1:93:0,92,1:0:0:92,1:3300,36:-296.009,-27.6948,0,-294.091,-25.5289,-293.79 1/2:87:0,61,26:0:0:61,26:2160,923:-226.01,-50.7705,-32.4076,-175.27,0,-167.443 1/2:132:0,75,57:0:0:75,57:2694,1986:-327.908,-108.777,-86.1993,-219.425,0,-202.266 1/2:187:0,60,127:0:0:60,127:2132,4505:-420.312,-246.93,-228.868,-173.446,0,-135.215 1/2:88:0,36,52:0:0:36,52:1292,1848:-209.783,-104.823,-93.9862,-105.276,0,-89.622 chr10 2183775 . T A 7263.03 PASS AB=0.481412;ABP=9.38779;AC=16;AF=0.380952;AN=42;AO=1050;CIGAR=1X;DP=2608;DPB=2608;DPRA=1.15741;EPP=2283.06;EPPR=3377.48;GTI=1;LEN=1;MEANALT=1.05;MQM=26.0676;MQMR=54.3906;NS=21;NUMALT=1;ODDS=4.12019;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37564;QR=55655;RO=1554;RPL=0;RPP=2283.06;RPPR=3377.48;RPR=1050;RUN=1;SAF=1050;SAP=2283.06;SAR=0;SRF=1554;SRP=3377.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:52,12:52:1857:12:432:-7.62335,0,-148.011 0/0:56:54,2:54:1932:2:72:0,-11.0085,-167.274 0/1:161:44,113:44:1580:113:4041:-206.167,0,-93.8048 0/1:178:113,65:113:4056:65:2325:-90.7035,0,-311.251 0/0:163:143,20:143:5148:20:720:0,-3.88509,-416.301 0/1:149:92,57:92:3285:57:2048:-87.5512,0,-248.548 0/1:168:102,66:102:3645:66:2357:-101.259,0,-276.211 0/0:108:108,0:108:3856:0:0:0,-32.5112,-345.475 0/1:226:124,102:124:4440:102:3630:-160.247,0,-331.083 0/1:13:7,6:7:252:6:216:-9.65459,0,-18.5904 0/1:7:2,5:2:72:5:180:-9.66284,0,-4.71232 0/1:70:33,37:33:1176:37:1313:-62.113,0,-84.5859 0/1:192:75,117:75:2684:117:4197:-208.444,0,-183.306 0/1:128:90,38:90:3232:38:1368:-46.083,0,-251.563 0/1:259:128,131:128:4581:131:4678:-215.511,0,-333.653 0/0:66:62,4:62:2232:4:144:0,-10.7404,-191.304 0/0:90:89,1:89:3200:1:36:0,-24.6258,-285.09 0/1:91:63,28:63:2240:28:1008:-36.3675,0,-173.517 0/1:139:78,61:78:2804:61:2173:-93.9463,0,-209.254 0/1:190:58,132:58:2060:132:4722:-242.1,0,-128.089 0/1:90:37,53:37:1323:53:1904:-96.2608,0,-91.7344 chr10 2183781 . A G 28501 PASS AB=0.518027;ABP=8.96022;AC=26;AF=0.619048;AN=42;AO=1546;CIGAR=1X;DP=2590;DPB=2590;DPRA=0;EPP=3360.11;EPPR=2265.68;GTI=1;LEN=1;MEANALT=1.09524;MQM=54.3907;MQMR=26.0393;NS=21;NUMALT=1;ODDS=5.7966;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55038;QR=37369;RO=1042;RPL=0;RPP=3360.11;RPPR=2265.68;RPR=1546;RUN=1;SAF=1546;SAP=3360.11;SAR=0;SRF=1042;SRP=2265.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:12,54:12:428:54:1932:-154.123,0,-6.97979 1/1:55:2,53:2:72:53:1866:-161.427,-10.7075,0 0/1:159:111,48:111:3972:48:1709:-105.556,0,-201.566 0/1:181:65,116:65:2336:116:4138:-317.726,0,-90.2796 1/1:162:20,142:20:720:142:5083:-411.1,-3.58406,0 0/1:147:57,90:57:2052:90:3228:-244.451,0,-88.2035 0/1:166:66,100:66:2361:100:3567:-270.036,0,-101.912 1/1:108:0,108:0:0:108:3819:-342.428,-32.5112,0 0/1:226:100,126:100:3580:126:4504:-336.439,0,-155.677 0/1:14:6,8:6:212:8:288:-21.5206,0,-9.31168 0/1:7:5,2:5:180:2:72:-4.71232,0,-9.66284 0/1:67:37,30:37:1332:30:1059:-75.089,0,-63.5784 0/1:188:116,72:116:4164:72:2550:-172.903,0,-207.427 0/1:129:39,89:39:1400:89:3160:-244.067,0,-47.9053 0/1:254:129,125:129:4628:125:4468:-325.037,0,-213.405 1/1:66:4,61:4:144:61:2171:-186.017,-10.7765,0 1/1:91:1,90:1:36:90:3226:-287.381,-24.9268,0 0/1:91:28,63:28:1004:63:2220:-171.481,0,-36.3262 0/1:136:60,76:60:2152:76:2654:-197.527,0,-93.0904 0/1:188:131,57:131:4704:57:2036:-126.666,0,-241.4 0/1:89:53,36:53:1892:36:1288:-88.9601,0,-96.4108 chr10 2184028 . C G 52337 PASS AB=0.730032;ABP=578.444;AC=32;AF=0.761905;AN=42;AO=2441;CIGAR=1X;DP=2862;DPB=2862;DPRA=1.71667;EPP=5277.55;EPPR=915.029;GTI=1;LEN=1;MEANALT=1.05;MQM=59.837;MQMR=59.9095;NS=21;NUMALT=1;ODDS=7.98022;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87186;QR=14964;RO=420;RPL=3;RPP=5277.55;RPPR=915.029;RPR=2438;RUN=1;SAF=0;SAP=5303.57;SAR=2441;SRF=0;SRP=915.029;SRR=420;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:126:1,125:1:36:125:4418:-394.139,-34.3315,0 1/1:35:0,35:0:0:35:1247:-112.531,-10.5361,0 1/1:266:0,266:0:0:266:9512:-855.883,-80.074,0 0/1:135:44,90:44:1553:90:3240:-251.075,0,-99.3589 0/1:178:41,137:41:1460:137:4907:-388.161,0,-78.1127 1/1:88:1,87:1:36:87:3113:-276.794,-22.8924,0 0/1:130:29,101:29:1044:101:3608:-285.791,0,-55.1409 0/0:81:81,0:81:2908:0:0:0,-24.3834,-261.955 0/1:317:106,211:106:3776:211:7515:-580.891,0,-244.605 0/1:21:7,14:7:248:14:504:-39.3765,0,-16.3426 1/1:17:0,17:0:0:17:603:-54.5995,-5.11751,0 1/1:55:0,55:0:0:55:1972:-177.753,-16.5567,0 1/1:246:0,246:0:0:246:8800:-791.972,-74.0534,0 0/1:172:35,137:35:1247:137:4869:-386.586,0,-60.756 1/1:183:0,183:0:0:183:6551:-589.639,-55.0885,0 1/1:63:0,63:0:0:63:2256:-203.272,-18.9649,0 1/1:67:0,67:0:0:67:2393:-215.607,-20.169,0 0/1:172:52,120:52:1845:120:4290:-334.487,0,-114.493 0/1:127:23,104:23:811:104:3718:-296.59,0,-35.0792 1/1:286:0,286:0:0:286:10227:-920.312,-86.0946,0 1/1:97:0,97:0:0:97:3443:-310.076,-29.1999,0 chr10 2185403 . T C,A 171769 PASS AB=0.733237,0.266038;ABP=1306.66,1314.77;AC=32,10;AF=0.761905,0.238095;AN=42;AO=6881,914;CIGAR=1X,1X;DP=7798;DPB=7798;DPRA=2.1908,0.813234;EPP=14573.8,1979.06;EPPR=5.18177;GTI=2;LEN=1,1;MEANALT=1.6,2;MQM=57.4868,57.4048;MQMR=60;NS=21;NUMALT=2;ODDS=21.7208;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=244852,32615;QR=21;RO=1;RPL=6838,913;RPP=14573.8,1979.06;RPPR=5.18177;RPR=43,1;RUN=1,1;SAF=0,0;SAP=14944.9,1987.74;SAR=6881,914;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:488:0,484,4:0:0:484,4:17281,140:-1552.69,-145.699,0,-1541.3,-133.961,-1540.1 1/1:483:0,483,0:0:0:483,0:17265,0:-1552.19,-145.397,0,-1552.19,-145.397,-1552.19 1/1:261:0,259,2:0:0:259,2:9192,72:-826.367,-77.9668,0,-820.494,-71.734,-819.892 1/2:379:0,266,113:0:0:266,113:9433,4045:-1096.99,-329.486,-249.412,-767.864,0,-733.847 1/2:705:0,487,217:0:0:487,217:17306,7748:-2038.08,-630.02,-483.419,-1408.05,0,-1342.73 1/1:407:0,407,0:0:0:407,0:14551,0:-1307.72,-122.519,0,-1307.72,-122.519,-1307.72 1/2:640:1,535,104:1:21:535,104:19055,3717:-1852.41,-301.183,-141.719,-1550.09,0,-1520.37 2/2:174:0,0,174:0:0:0,174:0,6218:-559.368,-559.368,-559.368,-52.3792,-52.3792,0 1/2:496:0,357,139:0:0:357,139:12726,4962:-1441.36,-404.448,-296.98,-1037.27,0,-995.426 1/2:40:0,32,8:0:0:32,8:1133,284:-115.657,-23.402,-13.7691,-92.6087,0,-90.2005 1/1:78:0,78,0:0:0:78,0:2759,0:-248.091,-23.4803,0,-248.091,-23.4803,-248.091 1/1:121:0,121,0:0:0:121,0:4333,0:-389.75,-36.4246,0,-389.75,-36.4246,-389.75 1/1:677:0,677,0:0:0:677,0:24115,0:-2167.61,-203.797,0,-2167.61,-203.797,-2167.61 1/2:294:0,190,104:0:0:190,104:6583,3665:-832.557,-298.541,-241.345,-534.366,0,-503.059 1/1:884:0,883,0:0:0:883,0:31414,0:-2823.26,-265.809,0,-2823.26,-265.809,-2823.26 1/1:537:0,537,0:0:0:537,0:19139,0:-1720.19,-161.653,0,-1720.19,-161.653,-1720.19 1/1:384:0,384,0:0:0:384,0:13673,0:-1229.56,-115.596,0,-1229.56,-115.596,-1229.56 1/2:106:0,75,31:0:0:75,31:2662,1116:-307.76,-91.2022,-68.625,-216.916,0,-207.584 1/2:99:0,81,18:0:0:81,18:2908,648:-289.914,-53.0457,-28.6622,-237.227,0,-231.808 1/1:428:0,428,0:0:0:428,0:15142,0:-1361.31,-128.841,0,-1361.31,-128.841,-1361.31 1/1:117:0,117,0:0:0:117,0:4182,0:-376.297,-35.2205,0,-376.297,-35.2205,-376.297 chr10 2189300 . T G 17745.1 PASS AB=0.400135;ABP=260.2;AC=20;AF=0.47619;AN=42;AO=1188;CIGAR=1X;DP=3075;DPB=3075;DPRA=1.40047;EPP=2582.72;EPPR=4098.41;GTI=0;LEN=1;MEANALT=1.05;MQM=59.5808;MQMR=59.9205;NS=21;NUMALT=1;ODDS=2.60039;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42102;QR=67272;RO=1886;RPL=1188;RPP=2582.72;RPPR=4063.74;RPR=0;RUN=1;SAF=1188;SAP=2582.72;SAR=0;SRF=1882;SRP=4063.74;SRR=4;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:71,90:71:2544:90:3198:-239.147,0,-180.745 0/1:207:116,91:116:4134:91:3228:-228.357,0,-309.931 0/1:157:98,59:98:3508:59:2097:-141.719,0,-268.669 0/1:185:122,63:122:4353:63:2231:-145.326,0,-336.254 0/1:291:191,99:191:6806:99:3502:-227.711,0,-524.956 0/1:71:42,29:42:1495:29:1028:-71.4599,0,-113.471 0/1:189:136,53:136:4833:53:1871:-111.756,0,-375.855 0/0:106:106,0:106:3767:0:0:0,-31.9092,-339.231 0/1:224:148,76:148:5284:76:2681:-174.084,0,-407.076 0/1:27:16,11:16:576:11:387:-27.0388,0,-44.0472 0/1:14:7,7:7:237:7:252:-18.7967,0,-17.4446 0/1:33:14,19:14:504:19:676:-51.2278,0,-35.7641 0/1:156:85,71:85:3039:71:2500:-178.287,0,-226.779 0/1:107:82,25:82:2940:25:888:-48.0288,0,-232.624 0/1:372:204,168:204:7295:168:5981:-425.889,0,-544.618 0/1:112:60,52:60:2131:52:1856:-133.564,0,-158.343 0/1:120:74,46:74:2649:46:1619:-109.843,0,-202.531 0/1:131:80,51:80:2860:51:1790:-121.919,0,-216.84 0/1:78:50,28:50:1788:28:1004:-67.1955,0,-137.722 0/1:236:138,98:138:4929:98:3478:-242.165,0,-372.717 0/1:98:46,52:46:1600:52:1835:-135.867,0,-114.783 chr10 2189355 . TCTTA GCTCA,GCTTG,GCTTA 58499.8 PASS AB=0.408964,0.466729,0.186229;ABP=235.879,34.0769,1853.54;AC=19,16,7;AF=0.452381,0.380952,0.166667;AN=42;AO=1323,1508,463;CIGAR=1X2M1X1M,1X3M1X,1X4M;DP=3295;DPB=3297.4;DPRA=2.69583,2.83421,0;EPP=2875.87,3277.59,1008.4;EPPR=0;GTI=1;LEN=5,5,1;MEANALT=2.6,2.63158,2.76923;MQM=59.8458,59.7401,59.8942;MQMR=0;NS=21;NUMALT=3;ODDS=3.52642;PAIRED=0,0,0;PAIREDR=0;PAO=1.33333,9.33333,1.33333;PQA=48,332,48;PQR=0;PRO=0;QA=46946,53185,16495;QR=0;RO=0;RPL=0,0,0;RPP=2875.87,3277.59,1008.4;RPPR=0;RPR=1323,1508,463;RUN=1,1,1;SAF=1323,1508,463;SAP=2875.87,3277.59,1008.4;SAR=0,0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:301:0,136,164,0:0:0:136,164,0:4822,5804,0:-865.612,-472.801,-431.861,-392.854,0,-343.486,-865.612,-472.801,-392.854,-865.612 1/2:191:0,112,79,0:0:0:112,79,0:3960,2765,0:-547.833,-225.31,-191.595,-322.874,0,-299.093,-547.833,-225.31,-322.874,-547.833 1/2:115:0,59,55,1:0:0:59,55,1:2103,1913,36:-326.956,-155.529,-137.769,-171.419,0,-154.862,-324.019,-152.592,-168.482,-323.718 1/3:151:0,58,41,52:0:0:58,41,52:2065,1431,1852:-319.219,-150.914,-133.455,-202.861,-34.5577,-190.519,-168.307,0,-51.9504,-152.654 1/3:317:0,102,79,136:0:0:102,79,136:3651,2778,4852:-693.233,-395.5,-364.795,-467.213,-169.48,-443.431,-297.736,0,-71.7164,-256.796 1/2:144:0,53,91,0:0:0:53,91,0:1890,3214,0:-416.125,-262.057,-246.103,-154.423,0,-127.029,-416.125,-262.057,-154.423,-416.125 1/3:177:0,70,48,59:0:0:70,48,59:2462,1709,2089:-370.569,-170.162,-149.089,-231.278,-30.8716,-216.829,-200.405,0,-61.1143,-182.645 3/3:60:0,0,0,60:0:0:0,0,60:0,0,2126:-191.605,-191.605,-191.605,-191.605,-191.605,-191.605,-18.0618,-18.0618,-18.0618,0 2/3:174:0,53,60,61:0:0:53,60,61:1891,2116,2180:-349.971,-195.818,-179.863,-177.746,-23.5942,-159.684,-172.224,-18.0696,0,-153.861 1/3:4:0,2,0,2:0:0:2,0,2:72,0,72:-12.1095,-6.23466,-5.6326,-12.1095,-6.23466,-12.1095,-6.23466,0,-6.23466,-5.6326 1/2:6:0,5,1,0:0:0:5,1,0:180,36,0:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459,-17.9843,-3.29724,-15.0469,-17.9843 1/2:29:0,10,19,0:0:0:10,19,0:359,676,0:-84.734,-55.4484,-52.4381,-29.6433,0,-23.9238,-84.734,-55.4484,-29.6433,-84.734 1/2:368:0,81,285,2:0:0:81,285,2:2872,10068,72:-1053.83,-819.862,-795.479,-233.97,0,-148.177,-1047.96,-813.987,-228.095,-1047.35 1/2:112:0,38,42,32:0:0:38,42,32:1327,1486,1144:-228.972,-121.035,-109.596,-107.934,0,-95.2912,-135.691,-27.7545,-14.6515,-126.058 1/2:329:0,176,151,2:0:0:176,151,2:6209,5341,72:-940.234,-434.695,-381.713,-505.533,0,-460.077,-934.359,-428.82,-499.658,-933.757 1/2:180:0,79,101,0:0:0:79,101,0:2817,3523,0:-516.436,-286.827,-263.045,-229.962,0,-199.558,-516.436,-286.827,-229.962,-516.436 1/2:126:0,57,69,0:0:0:57,69,0:2022,2444,0:-364.182,-199.443,-182.284,-165.094,0,-144.323,-364.182,-199.443,-165.094,-364.182 1/2:70:0,25,23,22:0:0:25,23,22:887,796,780:-136.664,-64.6659,-57.1402,-71.9955,0,-65.0719,-73.1169,-1.11686,-8.4501,-66.4943 1/2:140:0,51,56,33:0:0:51,56,33:1795,1995,1184:-308.648,-162.595,-147.243,-146.051,0,-129.193,-212.072,-66.0184,-49.4728,-202.138 1/2:207:0,110,96,1:0:0:110,96,1:3918,3385,36:-594.821,-275.482,-242.369,-319.334,0,-290.436,-591.884,-272.545,-316.397,-591.583 1/2:94:0,46,48,0:0:0:46,48,0:1644,1705,0:-273.33,-139.285,-125.438,-134.401,0,-119.952,-273.33,-139.285,-134.401,-273.33 chr10 2199562 . C T 6734.23 PASS AB=0.520528;ABP=5.50654;AC=10;AF=0.238095;AN=42;AO=398;CIGAR=1X;DP=1387;DPB=1387;DPRA=1.53626;EPP=867.256;EPPR=2141.92;GTI=1;LEN=1;MEANALT=1;MQM=59.794;MQMR=59.9353;NS=21;NUMALT=1;ODDS=0.00359203;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14043;QR=34926;RO=989;RPL=397;RPP=858.592;RPPR=2141.92;RPR=1;RUN=1;SAF=397;SAP=858.592;SAR=1;SRF=989;SRP=2150.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:61:61,0:61:2184:0:0:0,-18.3628,-196.826 0/0:58:58,0:58:2072:0:0:0,-17.4597,-186.751 0/0:48:47,1:47:1663:1:36:0,-10.8512,-146.358 0/1:64:32,32:32:1139:32:1126:-82.3647,0,-83.5521 0/1:142:54,88:54:1907:88:3105:-236.925,0,-129.161 0/0:49:49,0:49:1725:0:0:0,-14.7505,-155.533 0/1:86:41,45:41:1451:45:1573:-115.96,0,-104.997 1/1:40:0,40:0:0:40:1431:-129.087,-12.0412,0 0/1:120:56,64:56:1982:64:2269:-168.347,0,-142.53 0/1:16:6,10:6:192:10:356:-27.5648,0,-12.7769 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:8:8,0:8:275:0:0:0,-2.40824,-25.0835 0/0:106:105,1:105:3750:1:36:0,-28.3109,-334.101 0/1:62:35,27:35:1243:27:972:-69.134,0,-93.5038 0/0:112:112,0:112:3957:0:0:0,-33.7154,-356.322 0/0:55:55,0:55:1959:0:0:0,-16.5566,-176.585 0/0:56:55,1:55:1947:1:23:0,-14.5684,-173.205 0/1:110:52,58:52:1821:58:2045:-151.205,0,-131.053 0/1:82:51,31:51:1762:31:1071:-72.0104,0,-134.148 0/0:53:53,0:53:1879:0:0:0,-15.9546,-169.388 0/0:54:54,0:54:1838:0:0:0,-16.2556,-165.501 chr10 2208098 . T G 22950.6 PASS AB=0.531421;ABP=9.2874;AC=32;AF=0.761905;AN=42;AO=1122;CIGAR=1X;DP=1592;DPB=1592;DPRA=0;EPP=2439.4;EPPR=1012.76;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.6221;MQMR=59.8145;NS=21;NUMALT=1;ODDS=2.29386;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39608;QR=16666;RO=469;RPL=1122;RPP=2439.4;RPPR=1012.76;RPR=0;RUN=1;SAF=1122;SAP=2439.4;SAR=0;SRF=469;SRP=1021.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:95:3,92:3:99:92:3227:-281.408,-19.3613,0 1/1:49:0,49:0:0:49:1729:-155.565,-14.7505,0 1/1:58:0,58:0:0:58:2046:-184.382,-17.4597,0 0/1:111:58,52:58:2071:52:1856:-133.845,0,-153.181 0/1:151:68,83:68:2410:83:2912:-216.854,0,-171.694 1/1:47:0,47:0:0:47:1676:-151.089,-14.1484,0 0/1:98:57,41:57:2022:41:1441:-100.471,0,-152.742 0/0:122:121,1:121:4334:1:36:0,-33.1325,-386.627 0/1:127:53,74:53:1863:74:2621:-197.904,0,-129.487 0/1:15:2,13:2:72:13:464:-37.5821,0,-2.32127 1/1:5:0,5:0:0:5:176:-16.1846,-1.50515,0 1/1:13:0,13:0:0:13:468:-42.455,-3.91339,0 1/1:117:0,117:0:0:117:4130:-371.879,-35.2205,0 0/1:97:52,45:52:1828:45:1582:-112.834,0,-135.596 1/1:154:0,154:0:0:154:5429:-488.728,-46.3586,0 1/1:17:0,17:0:0:17:600:-54.3283,-5.11751,0 1/1:51:0,51:0:0:51:1804:-162.637,-15.3525,0 0/1:75:31,44:31:1103:44:1550:-117.194,0,-77.0018 0/1:58:21,37:21:756:37:1299:-99.6937,0,-50.9075 1/1:95:3,92:3:108:92:3261:-283.613,-18.5227,0 1/1:37:0,37:0:0:37:1301:-116.879,-11.1381,0 chr10 2208102 . C A 8059.55 PASS AB=0.460905;ABP=12.6881;AC=10;AF=0.238095;AN=42;AO=460;CIGAR=1X;DP=1589;DPB=1589;DPRA=1.624;EPP=993.221;EPPR=2454.6;GTI=1;LEN=1;MEANALT=1;MQM=59.7913;MQMR=59.6032;NS=21;NUMALT=1;ODDS=1.11851;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16397;QR=40067;RO=1129;RPL=459;RPP=993.221;RPPR=2454.6;RPR=1;RUN=1;SAF=460;SAP=1001.89;SAR=0;SRF=1129;SRP=2454.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:96:93,3:93:3315:3:108:0,-18.8237,-288.484 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.352 0/0:58:58,0:58:2004:0:0:0,-17.4597,-180.352 0/1:108:53,55:53:1887:55:1967:-144.784,0,-137.594 0/1:148:84,64:84:2970:64:2275:-160.453,0,-222.975 0/0:46:45,1:45:1608:1:36:0,-10.2491,-141.374 0/1:98:42,56:42:1500:56:2004:-151.124,0,-105.777 1/1:118:1,117:1:36:117:4169:-371.789,-31.9284,0 0/1:127:73,54:73:2596:54:1906:-132.806,0,-195.651 0/1:16:14,2:14:495:2:68:-1.64123,0,-40.0666 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5511 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.455 0/0:117:117,0:117:4158:0:0:0,-35.2205,-374.395 0/1:98:45,53:45:1587:53:1896:-141.414,0,-112.983 0/0:153:153,0:153:5434:0:0:0,-46.0576,-489.173 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.0511 0/0:52:52,0:52:1840:0:0:0,-15.6536,-165.875 0/1:77:45,32:45:1591:32:1148:-80.448,0,-120.273 0/1:57:37,20:37:1319:20:712:-47.2479,0,-101.795 0/0:98:95,3:95:3363:3:108:0,-19.4258,-292.786 0/0:38:38,0:38:1348:0:0:0,-11.4391,-121.005 chr10 2209219 . G A 7566.5 PASS AB=0.461039;ABP=13.1626;AC=10;AF=0.238095;AN=42;AO=437;CIGAR=1X;DP=1590;DPB=1590;DPRA=1.53404;EPP=951.944;EPPR=2504.55;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9657;MQMR=59.9844;NS=21;NUMALT=1;ODDS=0.665891;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15630;QR=41176;RO=1152;RPL=0;RPP=951.944;RPPR=2504.55;RPR=437;RUN=1;SAF=437;SAP=951.944;SAR=0;SRF=1152;SRP=2504.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:76,0:76:2717:0:0:0,-22.8783,-244.772 0/0:76:74,2:74:2656:2:72:0,-16.0416,-232.449 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/1:56:34,22:34:1215:22:784:-54.0262,0,-92.7981 0/1:165:103,61:103:3656:61:2161:-145.027,0,-279.516 0/0:61:61,0:61:2196:0:0:0,-18.3628,-197.905 0/1:116:69,47:69:2472:47:1692:-117.647,0,-187.814 1/1:80:0,80:0:0:80:2880:-259.436,-24.0824,0 0/1:215:105,110:105:3757:110:3924:-288.633,0,-273.607 0/1:10:5,5:5:176:5:176:-13.1747,0,-13.1747 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.282 0/1:61:28,33:28:1004:33:1173:-87.5098,0,-72.2763 0/0:124:124,0:124:4421:0:0:0,-37.3277,-398.062 0/0:94:94,0:94:3360:0:0:0,-28.2968,-302.617 0/0:73:73,0:73:2611:0:0:0,-21.9752,-235.237 0/1:112:55,57:55:1959:57:2048:-150.876,0,-142.869 0/1:35:15,20:15:536:20:720:-54.5927,0,-38.0388 0/0:49:49,0:49:1752:0:0:0,-14.7505,-157.964 0/0:45:45,0:45:1608:0:0:0,-13.5463,-145.01 chr10 2209256 . A T 24190.4 PASS AB=0.549223;ABP=19.257;AC=32;AF=0.761905;AN=42;AO=1166;CIGAR=1X;DP=1594;DPB=1594;DPRA=0.998684;EPP=2534.95;EPPR=932.4;GTI=0;LEN=1;MEANALT=1;MQM=59.9794;MQMR=59.9766;NS=21;NUMALT=1;ODDS=2.15879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41371;QR=15331;RO=428;RPL=1164;RPP=2517.61;RPPR=923.735;RPR=2;RUN=1;SAF=1164;SAP=2517.61;SAR=2;SRF=427;SRP=923.735;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:79:0,79:0:0:79:2808:-252.958,-23.7814,0 1/1:77:2,75:2:72:75:2676:-234.249,-16.3426,0 1/1:50:0,50:0:0:50:1766:-159.22,-15.0515,0 0/1:56:22,34:22:784:34:1206:-91.9865,0,-54.0262 0/1:169:60,109:60:2143:109:3873:-297.891,0,-142.263 1/1:62:0,62:0:0:62:2211:-199.254,-18.6639,0 0/1:113:44,69:44:1584:69:2432:-185.118,0,-108.835 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 0/1:215:109,106:109:3896:106:3771:-274.867,0,-286.113 0/1:9:4,5:4:144:5:161:-12.0973,0,-10.6043 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:74:1,73:1:36:73:2584:-229.21,-18.6779,0 0/1:61:32,29:32:1144:29:1005:-72.3862,0,-84.9067 1/1:129:1,128:1:32:128:4542:-405.755,-35.6397,0 1/1:93:0,93:0:0:93:3313:-298.388,-27.9958,0 1/1:73:0,73:0:0:73:2598:-234.068,-21.9752,0 0/1:113:57,56:57:2048:56:1984:-144.817,0,-150.575 0/1:36:20,16:20:720:16:570:-40.7957,0,-54.2917 1/1:50:0,50:0:0:50:1777:-160.211,-15.0515,0 1/1:45:0,45:0:0:45:1590:-143.389,-13.5464,0 chr10 2301849 . TTTA CTTG,CTCG 32046 PASS AB=0.549356,0.433476;ABP=17.8005,29.8788;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1269,377;CIGAR=1X2M1X,1X1M2X;DP=1663;DPB=1663;DPRA=1.12113,1.26494;EPP=2758.61,821.655;EPPR=0;GTI=0;LEN=4,4;MEANALT=2.15,2.58333;MQM=44.3885,31.5942;MQMR=0;NS=21;NUMALT=2;ODDS=7.42714;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44375,13080;QR=0;RO=0;RPL=0,0;RPP=2758.61,821.655;RPPR=0;RPR=1269,377;RUN=1,1;SAF=0,0;SAP=2758.61,821.655;SAR=1269,377;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:0,130,0:0:0:130,0:4546,0:-402.762,-39.1339,0,-402.762,-39.1339,-402.762 1/1:84:0,84,0:0:0:84,0:2937,0:-259.611,-25.2865,0,-259.611,-25.2865,-259.611 1/1:105:0,104,1:0:0:104,1:3637,36:-318.713,-31.3071,0,-316.266,-28.5536,-315.965 1/2:46:0,27,19:0:0:27,19:968,654:-121.714,-43.8909,-35.7631,-78.1384,0,-72.4188 1/2:138:0,65,67:0:0:65,67:2262,2323:-339.48,-158.502,-138.935,-180.987,0,-160.818 1/1:59:0,59,0:0:0:59,0:2023,0:-179.973,-17.7608,0,-179.973,-17.7608,-179.973 1/2:112:0,64,45:0:0:64,45:2260,1564:-292.513,-110.605,-91.339,-181.919,0,-168.373 2/2:71:0,0,71:0:0:0,71:0,2464:-188.261,-188.261,-188.261,-21.3731,-21.3731,0 1/2:147:0,84,63:0:0:84,63:2943,2206:-383.072,-148.627,-123.34,-234.761,0,-215.796 1/2:9:0,3,4:0:0:3,4:107,143:-17.4741,-8.859,-7.95591,-8.60898,0,-7.40486 1/1:6:0,6,0:0:0:6,0:212,0:-19.2358,-1.80618,0,-19.2358,-1.80618,-19.2358 1/1:19:0,19,0:0:0:19,0:665,0:-58.7834,-5.71957,0,-58.7834,-5.71957,-58.7834 1/1:107:0,107,0:0:0:107,0:3760,0:-332.105,-32.2102,0,-332.105,-32.2102,-332.105 1/2:89:0,42,46:0:0:42,46:1474,1544:-223.816,-106.55,-93.9066,-117.333,0,-103.485 1/1:119:0,118,1:0:0:118,1:4108,31:-360.947,-35.5215,0,-359.397,-33.7636,-359.096 1/1:56:0,56,0:0:0:56,0:1986,0:-174.359,-16.8577,0,-174.359,-16.8577,-174.359 1/1:69:0,68,0:0:0:68,0:2362,0:-206.568,-20.47,0,-206.568,-20.47,-206.568 1/2:99:0,53,46:0:0:53,46:1854,1617:-257.496,-110.096,-94.1409,-147.719,0,-133.872 1/2:59:0,46,13:0:0:46,13:1613,462:-159.488,-31.3113,-17.464,-128.485,0,-124.571 1/1:86:0,85,0:0:0:85,0:2915,0:-256.97,-25.5876,0,-256.97,-25.5876,-256.97 1/1:50:0,49,1:0:0:49,1:1743,36:-154.462,-14.7505,0,-151.953,-11.9279,-151.652 chr10 2306445 . AAG ATAC,ATAG 44435 PASS AB=0.544634,0.449348;ABP=20.2623,25.2281;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1623,489;CIGAR=1M1I1M1X,1M1I2M;DP=2121;DPB=2826.67;DPRA=3.485,1.14714;EPP=3484.01,1056.19;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.2,2.35294;MQM=56.2686,59.6074;MQMR=0;NS=21;NUMALT=2;ODDS=9.40881;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56838,17251;QR=0;RO=0;RPL=1618,488;RPP=3484.01,1056.19;RPPR=0;RPR=5,1;RUN=1,1;SAF=1623,489;SAP=3527.31,1064.86;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:0,89,1:0:0:89,1:3059,36:-274.484,-26.7917,0,-271.546,-23.4944,-271.245 1/1:111:0,111,0:0:0:111,0:3922,0:-352.938,-33.4143,0,-352.938,-33.4143,-352.938 1/1:64:0,63,1:0:0:63,1:2229,32:-200.098,-18.9649,0,-197.52,-16.0666,-197.219 1/2:102:0,62,39:0:0:62,39:2167,1384:-288.827,-112.811,-94.1469,-176.116,0,-164.376 1/2:293:0,144,148:0:0:144,148:5018,5246:-834.096,-427.2,-383.852,-406.967,0,-362.415 1/1:124:0,122,1:0:0:122,1:4237,36:-380.549,-36.7257,0,-377.612,-33.7844,-377.311 1/2:189:0,105,83:0:0:105,83:3634,2910:-531.809,-236.86,-205.252,-295.018,0,-270.032 2/2:30:0,0,30:0:0:0,30:0,1056:-95.3509,-95.3509,-95.3509,-9.0309,-9.0309,0 1/2:128:0,65,63:0:0:65,63:2297,2217:-367.868,-180.829,-161.262,-187.391,0,-168.426 1/2:13:0,8,5:0:0:8,5:283,180:-38.0938,-15.0469,-12.6387,-23.4043,0,-21.8991 1/2:5:0,4,1:0:0:4,1:144,21:-13.6648,-1.79892,-0.594796,-12.1058,0,-11.8047 1/1:27:0,27,0:0:0:27,0:943,0:-85.143,-8.12781,0,-85.143,-8.12781,-85.143 1/1:152:0,152,0:0:0:152,0:5392,0:-484.16,-45.7566,0,-484.16,-45.7566,-484.16 1/2:104:0,52,51:0:0:52,51:1832,1820:-297.396,-148.506,-132.853,-149.02,0,-133.667 1/1:114:0,113,1:0:0:113,1:3984,36:-357.148,-34.0164,0,-354.211,-30.7191,-353.91 1/1:71:0,70,0:0:0:70,0:2431,0:-218.663,-21.0721,0,-218.663,-21.0721,-218.663 1/1:109:0,107,2:0:0:107,2:3710,64:-333.372,-32.2102,0,-328.216,-26.7336,-327.614 1/2:73:0,38,33:0:0:38,33:1346,1161:-203.922,-94.4565,-83.0173,-109.459,0,-99.5251 1/2:90:0,65,25:0:0:65,25:2286,888:-258.493,-72.7066,-53.1396,-186.141,0,-178.615 1/1:147:0,143,3:0:0:143,3:5052,96:-454.263,-43.0473,0,-446.529,-35.3047,-445.626 1/1:85:0,83,2:0:0:83,2:2872,68:-256.51,-24.9855,0,-250.994,-19.1298,-250.392 chr10 2310425 . C T 36228.2 PASS AB=0.442534;ABP=34.7059;AC=32;AF=0.761905;AN=42;AO=1722;CIGAR=1X;DP=2456;DPB=2456;DPRA=1.02719;EPP=3742.29;EPPR=1596.87;GTI=1;LEN=1;MEANALT=1;MQM=59.9332;MQMR=60;NS=21;NUMALT=1;ODDS=5.83031;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61584;QR=26218;RO=734;RPL=1722;RPP=3742.29;RPPR=1596.87;RPR=0;RUN=1;SAF=0;SAP=3742.29;SAR=1722;SRF=0;SRP=1596.87;SRR=734;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,125:0:0:125:4443:-399.904,-37.6288,0 1/1:105:0,105:0:0:105:3767:-339.229,-31.6082,0 1/1:113:0,113:0:0:113:4034:-363.245,-34.0164,0 0/1:158:90,68:90:3216:68:2448:-173.012,0,-242.1 0/1:294:174,120:174:6206:120:4301:-298.762,0,-470.133 1/1:179:2,177:2:72:177:6302:-560.346,-47.0476,0 0/1:216:107,109:107:3821:109:3885:-284.816,0,-279.064 0/0:114:114,0:114:4058:0:0:0,-34.3174,-365.406 0/1:182:107,75:107:3821:75:2696:-188.088,0,-289.299 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:44:0,44:0:0:44:1580:-142.487,-13.2453,0 1/1:192:1,191:1:36:191:6823:-610.539,-54.1995,0 0/1:166:101,65:101:3624:65:2294:-156.748,0,-276.394 1/1:166:0,166:0:0:166:5960:-536.414,-49.971,0 1/1:91:0,91:0:0:91:3249:-292.63,-27.3937,0 1/1:121:0,121:0:0:121:4356:-392.212,-36.4246,0 0/1:41:20,21:20:716:21:756:-56.025,0,-52.4255 0/1:42:14,28:14:504:28:1008:-78.3931,0,-33.0548 1/1:63:1,62:1:36:62:2206:-195.205,-15.3666,0 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 chr10 2345870 . T C 15426.4 PASS AB=0.467128;ABP=11.1477;AC=11;AF=0.261905;AN=42;AO=812;CIGAR=1X;DP=2751;DPB=2751;DPRA=2.30143;EPP=1766.25;EPPR=4204.81;GTI=0;LEN=1;MEANALT=1;MQM=59.8941;MQMR=59.9649;NS=21;NUMALT=1;ODDS=5.67678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28765;QR=69498;RO=1939;RPL=0;RPP=1766.25;RPPR=4204.81;RPR=812;RUN=1;SAF=0;SAP=1766.25;SAR=812;SRF=0;SRP=4213.5;SRR=1939;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:55,0:55:1968:0:0:0,-16.5566,-177.395 0/0:102:102,0:102:3668:0:0:0,-30.7051,-330.322 0/0:77:77,0:77:2760:0:0:0,-23.1793,-248.151 0/1:61:26,35:26:932:35:1223:-92.01,0,-65.836 0/1:181:123,58:123:4390:58:2054:-130.643,0,-340.787 0/0:69:68,1:68:2440:1:36:0,-17.1728,-216.257 0/1:130:81,49:81:2916:49:1740:-117.739,0,-223.54 1/1:137:0,137:0:0:137:4895:-440.057,-41.2411,0 0/1:137:60,77:60:2152:77:2743:-205.802,0,-152.706 1/1:269:6,263:6:216:263:9365:-823.023,-61.1866,0 0/0:398:397,1:397:14213:1:36:0,-116.212,-1275.33 0/0:385:382,3:382:13708:3:104:0,-106.194,-1223.79 0/0:77:76,1:76:2728:1:36:0,-19.581,-242.164 0/1:66:44,22:44:1576:22:792:-51.7377,0,-121.636 0/0:100:100,0:100:3584:0:0:0,-30.103,-322.767 0/0:58:57,1:57:2040:1:36:0,-13.8615,-180.274 0/0:73:73,0:73:2607:0:0:0,-21.9752,-234.878 0/1:271:116,155:116:4152:155:5394:-404.022,0,-292.284 0/1:21:12,9:12:432:9:311:-22.0021,0,-32.8996 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.453 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 chr10 2453648 . 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CAATG TAATA,CAATA 39423.3 PASS AB=0.52231,0.467192;ABP=6.30455,10.1346;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1040,426;CIGAR=1X3M1X,4M1X;DP=1475;DPB=1475.2;DPRA=1.05075,1.71381;EPP=19.1794,18.9956;EPPR=5.18177;GTI=1;LEN=5,1;MEANALT=1.95,2.58333;MQM=59.9962,60;MQMR=60;NS=21;NUMALT=2;ODDS=1.74624;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=36335,15164;QR=36;RO=1;RPL=6,2;RPP=2209.53,910.767;RPPR=5.18177;RPR=1034,424;RUN=1,1;SAF=570,243;SAP=23.8898,21.3608;SAR=470,183;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,65,1:0:0:65,1:2262,36:-203.482,-19.567,0,-200.544,-16.2697,-200.243 1/1:47:0,47,0:0:0:47,0:1646,0:-148.428,-14.1484,0,-148.428,-14.1484,-148.428 1/1:28:0,28,0:0:0:28,0:969,0:-87.521,-8.42884,0,-87.521,-8.42884,-87.521 1/2:108:0,50,58:0:0:50,58:1741,2063:-310.053,-168.481,-153.43,-141.923,0,-124.463 1/2:112:0,61,48:0:0:61,48:2152,1714:-315.057,-139.823,-121.461,-175.315,0,-160.865 1/1:56:0,55,1:0:0:55,1:1911,36:-171.907,-16.5567,0,-168.969,-13.2594,-168.668 1/2:120:0,57,62:0:0:57,62:1991,2220:-343.042,-181.089,-163.931,-161.995,0,-143.331 2/2:67:0,0,67:0:0:0,67:0,2375:-214.009,-214.009,-214.009,-20.169,-20.169,0 1/2:117:0,52,65:0:0:52,65:1806,2305:-334.96,-188.143,-172.489,-147.168,0,-127.601 1/2:11:0,3,7:0:0:3,7:101,252:-28.7937,-20.6143,-19.7112,-8.21118,0,-6.10397 1/1:4:0,4,0:0:0:4,0:142,0:-13.1292,-1.20412,0,-13.1292,-1.20412,-13.1292 1/1:17:0,17,0:0:0:17,0:592,0:-53.6058,-5.11751,0,-53.6058,-5.11751,-53.6058 1/1:70:0,70,0:0:0:70,0:2449,0:-220.665,-21.0721,0,-220.665,-21.0721,-220.665 1/2:73:0,42,31:0:0:42,31:1445,1095:-206.878,-89.5272,-76.8839,-117.7,0,-108.368 1/1:97:0,97,0:0:0:97,0:3390,0:-305.322,-29.1999,0,-305.322,-29.1999,-305.322 1/1:51:0,51,0:0:0:51,0:1761,0:-158.772,-15.3525,0,-158.772,-15.3525,-158.772 1/1:55:0,55,0:0:0:55,0:1936,0:-174.516,-16.5567,0,-174.516,-16.5567,-174.516 1/2:101:1,52,48:1:36:52,48:1835,1708:-285.381,-136.259,-123.543,-146.48,0,-134.968 1/2:120:0,81,37:0:0:81,37:2865,1324:-341.339,-107.988,-83.6045,-233.372,0,-222.234 1/1:75:0,73,1:0:0:73,1:2536,36:-228.161,-21.9752,0,-225.224,-19.0128,-224.923 1/1:80:0,80,0:0:0:80,0:2805,0:-252.692,-24.0824,0,-252.692,-24.0824,-252.692 chr10 2512959 . 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CACA TACA,TACC 24190.4 PASS AB=0.459459,0.53668;ABP=14.1024,12.0902;AC=31,11;AF=0.738095,0.261905;AN=42;AO=931,457;CIGAR=1X3M,1X2M1X;DP=1394;DPB=1394;DPRA=1.83378,1.66455;EPP=1964.31,902.128;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.8,2.16667;MQM=42.4049,23.6083;MQMR=56;NS=21;NUMALT=2;ODDS=0.133951;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33236,16238;QR=36;RO=1;RPL=924,446;RPP=1964.31,902.128;RPPR=5.18177;RPR=7,11;RUN=1,1;SAF=0,0;SAP=2024.65,995.373;SAR=931,457;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,88,2:0:0:88,2:3134,72:-274.258,-26.4906,0,-270.761,-23.0188,-270.159 1/1:44:0,44,0:0:0:44,0:1584,0:-140.024,-13.2453,0,-140.024,-13.2453,-140.024 1/1:53:0,53,0:0:0:53,0:1908,0:-167.509,-15.9546,0,-167.509,-15.9546,-167.509 1/2:31:0,14,17:0:0:14,17:504,600:-69.9094,-29.8763,-25.6619,-40.328,0,-35.2105 1/2:155:0,75,80:0:0:75,80:2677,2840:-353.181,-141.351,-118.774,-212.12,0,-188.038 1/1:48:0,47,0:0:0:47,0:1685,0:-148.034,-14.1484,0,-148.034,-14.1484,-148.034 1/2:115:0,45,70:0:0:45,70:1605,2484:-251.476,-124.215,-110.669,-127.563,0,-106.49 2/2:37:0,0,37:0:0:0,37:0,1324:-78.5977,-78.5977,-78.5977,-11.1381,-11.1381,0 1/2:127:0,56,71:0:0:56,71:1981,2540:-279.424,-122.245,-105.387,-157.471,0,-136.098 1/2:13:0,5,7:0:0:5,7:176,251:-26.6589,-12.5946,-11.0894,-14.1245,0,-12.0173 1/1:9:0,9,0:0:0:9,0:324,0:-28.9136,-2.70927,0,-28.9136,-2.70927,-28.9136 1/1:41:0,40,0:0:0:40,0:1440,0:-126.901,-12.0412,0,-126.901,-12.0412,-126.901 1/1:56:0,55,1:0:0:55,1:1943,36:-169.736,-16.5567,0,-167.988,-14.5788,-167.687 1/2:93:0,34,59:0:0:34,59:1206,2066:-199.845,-104.475,-94.24,-95.6727,0,-77.9119 1/1:113:0,113,0:0:0:113,0:4024,0:-352.625,-34.0164,0,-352.625,-34.0164,-352.625 1/1:41:0,41,0:0:0:41,0:1469,0:-130.001,-12.3422,0,-130.001,-12.3422,-130.001 1/2:50:0,15,35:0:0:15,35:527,1254:-100.081,-58.6802,-54.1647,-41.7046,0,-31.1685 1/2:127:0,74,53:0:0:74,53:2660,1886:-305.241,-93.1447,-70.8684,-212.376,0,-196.422 1/2:66:1,39,25:1:36:39,25:1396,885:-152.178,-41.8571,-33.0565,-107.616,0,-103.026 1/1:32:0,32,0:0:0:32,0:1152,0:-101.757,-9.63296,0,-101.757,-9.63296,-101.757 1/1:52:0,52,0:0:0:52,0:1841,0:-161.871,-15.6536,0,-161.871,-15.6536,-161.871 chr10 2777154 . G A 15616.3 PASS AB=0.529608;ABP=12.1399;AC=12;AF=0.285714;AN=42;AO=850;CIGAR=1X;DP=2686;DPB=2686;DPRA=1.16195;EPP=1848.76;EPPR=3963.79;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9882;MQMR=59.9973;NS=21;NUMALT=1;ODDS=4.46699;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30287;QR=65269;RO=1832;RPL=0;RPP=1848.76;RPPR=3963.79;RPR=850;RUN=1;SAF=850;SAP=1848.76;SAR=0;SRF=1832;SRP=3981.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:218:216,2:216:7644:2:72:0,-58.7878,-681.156 0/0:122:122,0:122:4354:0:0:0,-36.7257,-392.031 0/0:118:118,0:118:4206:0:0:0,-35.5215,-378.719 0/1:93:53,40:53:1889:40:1415:-99.6493,0,-142.291 0/1:182:71,111:71:2521:111:3943:-300.272,0,-172.353 0/0:104:104,0:104:3713:0:0:0,-31.3071,-334.371 0/1:152:78,74:78:2796:74:2656:-193.529,0,-206.123 1/1:209:0,209:0:0:209:7435:-669.193,-62.9153,0 0/1:193:98,95:98:3505:95:3400:-248.116,0,-257.56 0/1:41:14,27:14:504:27:957:-74.1016,0,-33.3559 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:58:58,0:58:2073:0:0:0,-17.4597,-186.839 0/1:82:42,40:42:1485:40:1395:-101.156,0,-109.258 0/1:133:56,77:56:1978:77:2737:-206.533,0,-138.254 0/0:376:373,0:373:13321:0:0:0,-112.284,-1198.32 0/0:66:66,0:66:2331:0:0:0,-19.868,-210.045 0/1:74:37,37:37:1328:37:1324:-97.1859,0,-97.546 0/1:182:76,106:76:2728:106:3805:-287.859,0,-190.975 0/1:67:39,28:39:1381:28:1004:-70.5069,0,-104.418 0/0:130:125,4:125:4431:4:144:0,-25.8791,-385.647 0/0:76:76,0:76:2721:0:0:0,-22.8783,-245.131 chr10 2812377 . C T 4385.36 PASS AB=0.451866;ABP=13.2533;AC=12;AF=0.285714;AN=42;AO=264;CIGAR=1X;DP=857;DPB=857;DPRA=1.5212;EPP=576.279;EPPR=1264.77;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9983;NS=21;NUMALT=1;ODDS=6.19519;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9455;QR=21045;RO=593;RPL=0;RPP=576.279;RPPR=1264.77;RPR=264;RUN=1;SAF=264;SAP=576.279;SAR=0;SRF=593;SRP=1290.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:31,1:31:1099:1:36:0,-6.03468,-95.6212 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 0/0:20:20,0:20:704:0:0:0,-6.0206,-63.6845 0/1:51:30,21:30:1072:21:756:-53.0147,0,-81.4399 0/1:76:33,43:33:1176:43:1536:-115.655,0,-83.2695 0/0:29:29,0:29:1028:0:0:0,-8.72987,-92.833 0/1:75:36,39:36:1255:39:1400:-103.722,0,-90.6714 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/1:64:37,27:37:1320:27:964:-67.8109,0,-99.836 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:42:18,24:18:631:24:860:-65.0786,0,-44.4724 0/1:44:34,10:34:1195:10:351:-18.682,0,-94.6088 0/0:83:83,0:83:2951:0:0:0,-24.9855,-265.824 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:22:12,10:12:424:10:356:-25.7586,0,-31.8738 0/1:68:41,27:41:1455:27:972:-67.3279,0,-110.775 0/1:62:35,27:35:1244:27:968:-68.7735,0,-93.6008 0/0:48:48,0:48:1708:0:0:0,-14.4494,-154.006 0/0:36:36,0:36:1279:0:0:0,-10.8371,-115.412 chr10 2818561 . GGCACT AGCGCC,AGCACT 24098.2 PASS AB=0.506977,0.489922;ABP=3.283,3.57926;AC=30,12;AF=0.714286,0.285714;AN=42;AO=800,383;CIGAR=1X2M1X1M1X,1X5M;DP=1193;DPB=1193.33;DPRA=0.853788,1.77754;EPP=1740.19,834.684;EPPR=0;GTI=1;LEN=6,1;MEANALT=1.95,2.16667;MQM=53.2837,59.9661;MQMR=0;NS=21;NUMALT=2;ODDS=0.81827;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=1;QA=27517,13643;QR=0;RO=0;RPL=800,383;RPP=1740.19,834.684;RPPR=0;RPR=0,0;RUN=1,1;SAF=800,383;SAP=1740.19,834.684;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,41,0:0:0:41,0:1415,0:-127.045,-12.3422,0,-127.045,-12.3422,-127.045 1/1:83:0,81,0:0:0:81,0:2783,0:-249.724,-24.3834,0,-249.724,-24.3834,-249.724 1/1:77:0,77,0:0:0:77,0:2629,0:-236.551,-23.1793,0,-236.551,-23.1793,-236.551 1/2:59:0,29,30:0:0:29,30:993,1076:-168.598,-88.122,-79.3921,-80.8262,0,-71.7953 1/2:67:0,32,35:0:0:32,35:1111,1256:-193.014,-102.809,-93.1763,-90.5567,0,-80.0206 1/1:39:0,38,0:0:0:38,0:1311,0:-117.59,-11.4391,0,-117.59,-11.4391,-117.59 1/2:92:0,46,45:0:0:46,45:1601,1589:-257.869,-129.433,-115.586,-128.465,0,-114.919 2/2:66:0,0,66:0:0:0,66:0,2345:-211.309,-211.309,-211.309,-19.868,-19.868,0 1/2:102:0,46,55:0:0:46,55:1576,1968:-288.443,-160.612,-146.765,-127.952,0,-111.395 1/2:4:0,1,3:0:0:1,3:36,108:-12.0804,-9.17208,-8.87105,-3.26578,0,-2.36269 1/1:4:0,4,0:0:0:4,0:138,0:-12.7326,-1.20412,0,-12.7326,-1.20412,-12.7326 1/1:5:0,5,0:0:0:5,0:168,0:-15.3576,-1.50515,0,-15.3576,-1.50515,-15.3576 1/2:23:0,15,8:0:0:15,8:528,288:-66.7165,-23.8592,-19.3437,-43.2141,0,-40.8058 1/2:54:0,27,27:0:0:27,27:935,964:-154.033,-78.949,-70.8212,-75.4336,0,-67.3057 1/1:128:0,125,1:0:0:125,1:4313,36:-386.993,-37.6288,0,-384.055,-34.6882,-383.754 1/1:55:0,54,0:0:0:54,0:1890,0:-169.957,-16.2556,0,-169.957,-16.2556,-169.957 1/2:74:0,33,41:0:0:33,41:1140,1464:-212.247,-119.714,-109.78,-92.8839,0,-80.5417 1/2:121:0,63,58:0:0:63,58:2125,2060:-336.803,-168.183,-149.218,-168.963,0,-151.504 1/2:49:0,35,14:0:0:35,14:1186,489:-136.144,-40.1245,-29.5884,-96.3656,0,-92.1511 1/1:19:0,18,0:0:0:18,0:610,0:-54.5814,-5.41854,0,-54.5814,-5.41854,-54.5814 1/1:31:0,30,0:0:0:30,0:1029,0:-92.3242,-9.0309,0,-92.3242,-9.0309,-92.3242 chr10 2826207 . T C 6788.06 PASS AB=0.427681;ABP=39.4434;AC=12;AF=0.285714;AN=42;AO=412;CIGAR=1X;DP=1552;DPB=1552;DPRA=1.1582;EPP=897.657;EPPR=2467.64;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9223;MQMR=59.9991;NS=21;NUMALT=1;ODDS=5.28544;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14630;QR=40237;RO=1139;RPL=0;RPP=897.657;RPPR=2467.64;RPR=412;RUN=1;SAF=0;SAP=897.657;SAR=412;SRF=0;SRP=2476.32;SRR=1139;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:76,0:76:2688:0:0:0,-22.8783,-242.167 0/0:99:99,0:99:3528:0:0:0,-29.802,-317.731 0/0:66:66,0:66:2351:0:0:0,-19.868,-211.849 0/1:62:32,30:32:1136:30:1072:-78.1286,0,-83.885 0/1:94:62,32:62:2173:32:1121:-72.8999,0,-167.539 0/0:71:71,0:71:2507:0:0:0,-21.3731,-225.883 0/1:140:83,57:83:2914:57:2024:-140.017,0,-220.354 1/1:68:0,67:0:0:67:2400:-215.897,-20.169,0 0/1:177:100,77:100:3544:77:2699:-189.871,0,-265.89 0/1:18:14,4:14:481:4:144:-7.89508,0,-38.1965 0/0:21:21,0:21:735:0:0:0,-6.32163,-66.4714 0/0:35:35,0:35:1228:0:0:0,-10.536,-110.824 0/1:66:35,31:35:1240:31:1099:-79.3515,0,-92.0361 0/1:65:31,34:31:1096:34:1207:-89.3683,0,-79.383 0/0:93:93,0:93:3308:0:0:0,-27.9958,-297.94 0/0:72:70,2:70:2457:2:72:0,-14.8374,-214.548 0/1:70:44,26:44:1548:26:928:-62.7662,0,-118.54 0/1:63:27,36:27:951:36:1288:-97.2587,0,-66.9394 0/1:47:31,16:31:1078:16:576:-38.0266,0,-83.1784 0/0:112:112,0:112:3971:0:0:0,-33.7154,-357.584 0/0:37:37,0:37:1303:0:0:0,-11.1381,-117.571 chr10 2843375 . G C 10876.5 PASS AB=0.473148;ABP=9.77403;AC=12;AF=0.285714;AN=42;AO=627;CIGAR=1X;DP=2096;DPB=2096;DPRA=1.14911;EPP=1364.52;EPPR=3182.05;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.9932;NS=21;NUMALT=1;ODDS=14.6683;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22305;QR=52491;RO=1468;RPL=0;RPP=1364.52;RPPR=3182.05;RPR=627;RUN=1;SAF=627;SAP=1364.52;SAR=0;SRF=1468;SRP=3190.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:143:143,0:143:5121:0:0:0,-43.0473,-461.03 0/0:61:61,0:61:2179:0:0:0,-18.3628,-196.376 0/0:112:109,3:109:3897:3:108:0,-23.6402,-340.847 0/1:40:21,19:21:743:19:672:-48.7651,0,-55.1521 0/1:247:154,93:154:5484:93:3287:-221.698,0,-419.334 0/0:137:137,0:137:4895:0:0:0,-41.2411,-440.702 0/1:199:105,93:105:3776:93:3314:-238.551,0,-280.113 1/1:112:0,112:0:0:112:3998:-360.009,-33.7154,0 0/1:208:106,102:106:3788:102:3639:-265.101,0,-278.505 0/1:19:9,10:9:324:10:360:-27.0247,0,-23.7863 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:101:51,50:51:1812:50:1780:-130.079,0,-132.958 0/1:116:47,69:47:1684:69:2450:-185.835,0,-116.928 0/0:180:180,0:180:6427:0:0:0,-54.1854,-578.512 0/0:61:60,1:60:2152:1:36:0,-14.7646,-190.349 0/1:65:29,36:29:1021:36:1273:-95.304,0,-72.6333 0/1:40:15,25:15:532:25:888:-68.1978,0,-36.1719 0/1:45:31,14:31:1104:14:500:-31.7898,0,-86.1243 0/0:134:134,0:134:4816:0:0:0,-40.338,-433.593 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 chr10 2946444 . A G 16912.7 PASS AB=0.685149;ABP=153.375;AC=30;AF=0.714286;AN=42;AO=812;CIGAR=1X;DP=1008;DPB=1008;DPRA=1.57581;EPP=1757.57;EPPR=428.619;GTI=2;LEN=1;MEANALT=1;MQM=59.9729;MQMR=59.8418;NS=21;NUMALT=1;ODDS=2.39219;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28922;QR=7029;RO=196;RPL=1;RPP=1757.57;RPPR=428.619;RPR=811;RUN=1;SAF=812;SAP=1766.25;SAR=0;SRF=196;SRP=428.619;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:1,75:1:36:75:2700:-239.645,-19.28,0 1/1:53:0,53:0:0:53:1889:-170.286,-15.9546,0 1/1:45:0,45:0:0:45:1601:-144.378,-13.5464,0 0/1:52:28,24:28:1008:24:849:-61.0743,0,-75.3828 0/1:57:18,39:18:648:39:1396:-108.78,0,-41.4932 1/1:51:0,51:0:0:51:1811:-163.269,-15.3525,0 0/1:46:15,31:15:540:31:1112:-86.544,0,-35.0892 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/1:66:19,47:19:680:47:1669:-130.627,0,-41.6612 0/1:5:2,3:2:72:3:104:-8.19766,0,-5.33157 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 0/1:51:23,28:23:809:28:1008:-75.6838,0,-57.7712 0/1:43:15,28:15:540:28:1004:-77.72,0,-35.9922 1/1:105:3,102:3:108:102:3630:-316.828,-21.533,0 1/1:31:0,31:0:0:31:1074:-96.964,-9.33193,0 0/1:16:9,7:9:324:7:248:-17.8477,0,-24.6894 0/1:110:24,86:24:864:86:3073:-243.684,0,-44.6509 0/1:59:6,53:6:216:53:1889:-152.525,0,-2.02974 1/1:27:0,27:0:0:27:938:-84.7301,-8.12781,0 1/1:53:2,51:2:72:51:1815:-156.786,-9.11787,0 chr10 2946456 . G A 2928.98 PASS AB=0.322134;ABP=142.053;AC=12;AF=0.285714;AN=42;AO=197;CIGAR=1X;DP=1002;DPB=1002;DPRA=1.20354;EPP=396.752;EPPR=1623.18;GTI=2;LEN=1;MEANALT=1;MQM=59.9695;MQMR=59.9416;NS=21;NUMALT=1;ODDS=1.75161;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7035;QR=28819;RO=805;RPL=4;RPP=396.752;RPPR=1623.18;RPR=193;RUN=1;SAF=197;SAP=430.79;SAR=0;SRF=805;SRP=1751.05;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:75,1:75:2696:1:36:0,-19.28,-239.286 0/0:54:54,0:54:1919:0:0:0,-16.2556,-172.986 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 0/1:52:24,28:24:856:28:1004:-75.0223,0,-61.7075 0/1:57:39,18:39:1392:18:629:-39.7751,0,-108.42 0/0:52:52,0:52:1856:0:0:0,-15.6536,-167.32 0/1:45:28,17:28:989:17:604:-41.1443,0,-75.7757 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 0/1:66:47,19:47:1688:19:676:-41.3,0,-132.339 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:51:28,23:28:1008:23:828:-59.487,0,-75.6838 0/1:45:28,17:28:1008:17:605:-41.2342,0,-77.4616 0/0:102:102,0:102:3652:0:0:0,-30.7051,-328.884 0/0:30:30,0:30:1057:0:0:0,-9.0309,-95.439 0/1:17:7,10:7:252:10:360:-27.6268,0,-17.9114 0/1:108:85,23:85:3056:23:817:-41.3395,0,-242.44 0/1:60:54,6:54:1940:6:216:-1.72871,0,-156.814 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/0:50:48,2:48:1706:2:72:0,-8.21478,-146.979 chr10 2965490 . T C 26650.4 PASS AB=0.51819;ABP=6.2492;AC=30;AF=0.714286;AN=42;AO=1317;CIGAR=1X;DP=1963;DPB=1963;DPRA=0.941414;EPP=2862.84;EPPR=1394.94;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9704;MQMR=60;NS=21;NUMALT=1;ODDS=1.09687;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46913;QR=23062;RO=645;RPL=0;RPP=2862.84;RPPR=1394.94;RPR=1317;RUN=1;SAF=1317;SAP=2862.84;SAR=0;SRF=645;SRP=1403.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99:0:0:99:3524:-317.368,-29.802,0 1/1:70:0,70:0:0:70:2492:-224.534,-21.0721,0 1/1:83:1,82:1:36:82:2948:-261.955,-21.3872,0 0/1:100:47,53:47:1688:53:1884:-139.245,0,-122.104 0/1:198:84,114:84:3012:114:4057:-305.714,0,-211.707 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 0/1:120:61,59:61:2168:59:2099:-153.055,0,-159.263 0/0:99:99,0:99:3534:0:0:0,-29.802,-318.266 0/1:110:51,59:51:1809:59:2099:-156.066,0,-129.976 0/1:16:5,11:5:180:11:379:-29.6241,0,-11.7356 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:33:0,33:0:0:33:1175:-106.057,-9.93399,0 0/1:77:40,37:40:1432:37:1324:-96.2828,0,-105.998 0/1:125:68,57:68:2440:57:2011:-143.634,0,-182.226 1/1:196:0,195:0:0:195:6972:-627.295,-58.7009,0 1/1:92:0,92:0:0:92:3267:-294.252,-27.6948,0 0/1:141:67,74:67:2396:74:2629:-194.413,0,-173.452 0/1:186:97,89:97:3484:89:3180:-230.431,0,-257.779 0/1:54:23,31:23:811:31:1082:-81.4316,0,-57.0543 1/1:70:2,68:2:72:68:2423:-211.49,-14.2354,0 1/1:42:0,42:0:0:42:1496:-134.935,-12.6433,0 chr10 2965536 . G T 25950.1 PASS AB=0.517146;ABP=5.76539;AC=30;AF=0.714286;AN=42;AO=1282;CIGAR=1X;DP=1901;DPB=1901;DPRA=0.96117;EPP=2769.49;EPPR=1342.81;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9735;MQMR=60;NS=21;NUMALT=1;ODDS=2.15151;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45478;QR=21778;RO=617;RPL=1280;RPP=2769.49;RPPR=1342.81;RPR=2;RUN=1;SAF=1282;SAP=2786.84;SAR=0;SRF=617;SRP=1342.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99:0:0:99:3495:-314.762,-29.802,0 1/1:67:0,67:0:0:67:2383:-214.728,-20.169,0 1/1:83:1,82:1:32:82:2889:-257.045,-21.7862,0 0/1:96:45,51:45:1604:51:1790:-132.289,0,-115.751 0/1:187:79,108:79:2788:108:3832:-288.785,0,-194.868 1/1:45:0,45:0:0:45:1612:-145.37,-13.5464,0 0/1:115:59,56:59:2071:56:1981:-143.944,0,-152.04 0/0:94:94,0:94:3308:0:0:0,-28.2968,-297.941 0/1:103:48,54:48:1695:54:1912:-141.29,0,-121.771 0/1:15:6,9:6:216:9:324:-24.9904,0,-15.2751 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:33:0,33:0:0:33:1172:-105.787,-9.93399,0 0/1:73:37,36:37:1307:36:1292:-94.6086,0,-95.9555 0/1:121:64,57:64:2247:57:2014:-145.107,0,-166.067 1/1:195:0,195:0:0:195:6940:-624.666,-58.7009,0 1/1:90:0,89:0:0:89:3171:-285.254,-26.7917,0 0/1:136:63,73:63:2235:73:2578:-191.33,0,-160.474 0/1:181:97,84:97:3433:84:2986:-214.479,0,-254.698 0/1:52:22,30:22:770:30:1045:-78.704,0,-53.9658 1/1:67:2,65:2:72:65:2323:-202.493,-13.3323,0 1/1:42:0,42:0:0:42:1487:-134.124,-12.6433,0 chr10 2981382 . G C 6939.02 PASS AB=0.458128;ABP=15.3759;AC=12;AF=0.285714;AN=42;AO=419;CIGAR=1X;DP=1643;DPB=1643;DPRA=1.2364;EPP=912.857;EPPR=2658.72;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.21054;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14987;QR=43686;RO=1223;RPL=0;RPP=912.857;RPPR=2658.72;RPR=419;RUN=1;SAF=419;SAP=912.857;SAR=0;SRF=1223;SRP=2658.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:139:135,4:135:4844:4:144:0,-28.5296,-422.799 0/0:82:81,0:81:2889:0:0:0,-24.3834,-259.885 0/0:105:103,2:103:3681:2:72:0,-24.7714,-324.655 0/1:47:28,19:28:989:19:680:-47.3808,0,-75.1736 0/1:183:102,81:102:3653:81:2889:-205.157,0,-273.884 0/0:87:87,0:87:3087:0:0:0,-26.1896,-278.054 0/1:88:42,46:42:1504:46:1637:-121.126,0,-109.164 1/1:41:0,41:0:0:41:1472:-132.776,-12.3422,0 0/1:145:62,83:62:2228:83:2980:-224.783,0,-157.135 0/1:30:13,17:13:453:17:608:-46.0211,0,-32.0687 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/1:112:52,60:52:1868:60:2152:-160.232,0,-134.684 0/1:82:58,24:58:2072:24:849:-52.0434,0,-162.066 0/0:160:160,0:160:5676:0:0:0,-48.1648,-510.958 0/0:97:97,0:97:3469:0:0:0,-29.1999,-312.42 0/1:61:39,22:39:1400:22:788:-52.882,0,-107.936 0/1:42:25,17:25:896:17:608:-42.4088,0,-68.3171 0/1:22:19,3:19:680:3:108:-3.45251,0,-54.9065 0/0:59:59,0:59:2105:0:0:0,-17.7608,-189.717 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 chr10 3010007 . TT CA,TA 6604.81 PASS AB=0.512755,0.484694;ABP=3.56425,3.80798;AC=30,12;AF=0.714286,0.285714;AN=42;AO=596,213;CIGAR=2X,1M1X;DP=810;DPB=810;DPRA=2.08158,2.2551;EPP=1297.21,465.534;EPPR=0;GTI=5;LEN=2,1;MEANALT=1.7,2;MQM=16.1393,59.7418;MQMR=0;NS=21;NUMALT=2;ODDS=0.478921;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21132,7636;QR=0;RO=0;RPL=596,213;RPP=1297.21,465.534;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1297.21,465.534;SAR=596,213;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,67,2:0:0:67,2:2364,72:-92.7323,-20.169,0,-86.8515,-13.9343,-86.2495 1/1:18:0,18,0:0:0:18,0:646,0:-26.2612,-5.41854,0,-26.2612,-5.41854,-26.2612 1/1:20:0,20,0:0:0:20,0:710,0:-28.9385,-6.0206,0,-28.9385,-6.0206,-28.9385 1/2:18:0,13,5:0:0:13,5:460,176:-28.1159,-14.6799,-10.7665,-13.7317,0,-12.2265 1/2:90:0,47,42:0:0:47,42:1677,1504:-173.742,-122.866,-108.717,-50.9931,0,-38.3498 1/1:43:0,43,0:0:0:43,0:1504,0:-61.7785,-12.9443,0,-61.7785,-12.9443,-61.7785 1/2:75:0,35,40:0:0:35,40:1247,1440:-157.891,-117.843,-107.307,-40.3022,0,-28.261 2/2:19:0,0,19:0:0:0,19:0,680:-61.5292,-61.5292,-61.5292,-5.71957,-5.71957,0 1/2:67:0,31,36:0:0:31,36:1104,1292:-137.983,-105.674,-96.3423,-32.5548,0,-21.7177 1/2:5:0,2,3:0:0:2,3:57,108:-11.9153,-9.17208,-8.57002,-3.00089,0,-2.0978 1/1:5:0,5,0:0:0:5,0:164,0:-8.06161,-1.50515,0,-8.06161,-1.50515,-8.06161 1/1:18:0,18,0:0:0:18,0:648,0:-24.3958,-5.41854,0,-24.3958,-5.41854,-24.3958 1/2:31:0,24,7:0:0:24,7:860,252:-45.8589,-20.9217,-13.697,-25.2496,0,-23.1424 1/2:37:0,19,18:0:0:19,18:682,644:-72.6371,-52.8721,-47.1525,-20.0214,0,-14.6029 1/1:125:0,124,1:0:0:124,1:4405,36:-172.926,-37.3277,0,-169.987,-34.0305,-169.685 1/1:27:0,27,0:0:0:27,0:972,0:-36.5188,-8.12781,0,-36.5188,-8.12781,-36.5188 1/2:29:0,15,14:0:0:15,14:527,500:-56.6691,-41.1218,-36.6063,-15.8042,0,-11.5897 1/2:21:0,7,14:0:0:7,14:250,500:-50.2245,-41.1079,-39.0007,-9.35493,0,-5.14051 1/2:19:0,8,11:0:0:8,11:288,396:-42.8173,-32.6714,-30.2632,-10.399,0,-7.08766 1/1:58:0,57,1:0:0:57,1:1998,36:-80.0959,-17.1587,0,-77.155,-13.8615,-76.854 1/1:16:0,16,0:0:0:16,0:569,0:-25.4308,-4.81648,0,-25.4308,-4.81648,-25.4308 chr10 3073802 . 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T A 26788 PASS AB=0.421225;ABP=52.2747;AC=31;AF=0.738095;AN=42;AO=1307;CIGAR=1X;DP=2017;DPB=2017;DPRA=0.510278;EPP=2841.12;EPPR=1540.41;GTI=1;LEN=1;MEANALT=1.05;MQM=51.961;MQMR=59.4972;NS=21;NUMALT=1;ODDS=3.87285;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46485;QR=25210;RO=708;RPL=0;RPP=2841.12;RPPR=1540.41;RPR=1307;RUN=1;SAF=1307;SAP=2841.12;SAR=0;SRF=708;SRP=1540.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:126:0,126:0:0:126:4475:-401.633,-37.9298,0 1/1:107:0,107:0:0:107:3821:-340.676,-32.2102,0 1/1:120:1,119:1:36:119:4219:-375.455,-32.5253,0 0/1:70:41,29:41:1468:29:1036:-72.0794,0,-111.339 0/1:201:126,75:126:4488:75:2661:-178.526,0,-343.547 1/1:94:0,94:0:0:94:3353:-299.098,-28.2968,0 0/1:149:75,74:75:2680:74:2627:-189.572,0,-196.158 0/0:180:180,0:180:6425:0:0:0,-54.1854,-577.439 0/1:142:81,59:81:2861:59:2074:-143.988,0,-215.218 0/1:21:13,8:13:468:8:288:-19.8175,0,-36.138 1/1:5:0,5:0:0:5:180:-16.4623,-1.50515,0 1/1:19:0,19:0:0:19:680:-61.382,-5.71957,0 0/1:77:53,24:53:1877:24:845:-52.9542,0,-146.016 0/1:116:70,46:70:2484:46:1621:-110.819,0,-188.851 1/1:158:0,158:0:0:158:5601:-502.847,-47.5627,0 1/1:81:0,81:0:0:81:2900:-260.796,-24.3834,0 1/1:72:0,72:0:0:72:2580:-231.673,-21.6742,0 0/1:86:46,40:46:1640:40:1436:-102.884,0,-121.983 0/1:52:22,30:22:783:30:1076:-80.5079,0,-55.1157 1/1:87:0,87:0:0:87:3084:-276.779,-26.1896,0 1/1:54:0,54:0:0:54:1928:-172.323,-16.2556,0 chr10 3259139 . 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T C 26917.2 PASS AB=0.43486;ABP=106.835;AC=23;AF=0.547619;AN=42;AO=1566;CIGAR=1X;DP=3174;DPB=3174;DPRA=0;EPP=3394.86;EPPR=3297.82;GTI=1;LEN=1;MEANALT=1;MQM=59.9872;MQMR=59.9988;NS=21;NUMALT=1;ODDS=0.79136;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55596;QR=56770;RO=1608;RPL=1564;RPP=3386.19;RPPR=3460.08;RPR=2;RUN=1;SAF=1563;SAP=3377.53;SAR=3;SRF=1585;SRP=3297.82;SRR=23;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:54,64:54:1911:64:2284:-170.3,0,-136.745 0/1:63:50,13:50:1742:13:468:-23.4948,0,-138.095 0/1:136:119,17:119:4229:17:604:-13.7505,0,-339.851 0/1:89:75,14:75:2656:14:500:-18.5445,0,-212.493 0/1:266:226,40:226:8015:40:1419:-47.9327,0,-641.302 0/1:92:41,51:41:1468:51:1806:-135.126,0,-104.721 0/1:196:144,52:144:5084:52:1845:-107.326,0,-398.708 0/1:52:32,20:32:1125:20:708:-48.3915,0,-85.9025 0/1:209:165,44:165:5795:44:1547:-76.6049,0,-458.755 1/1:243:6,237:6:212:237:8422:-738.564,-53.7255,0 1/1:114:10,104:10:356:104:3692:-300.103,-1.93617,0 0/1:357:55,302:55:1952:302:10734:-858.505,0,-68.4882 0/1:153:100,53:100:3552:53:1892:-124.501,0,-273.831 0/1:237:175,62:175:6115:62:2167:-123.951,0,-479.113 0/1:184:80,104:80:2795:104:3716:-279.253,0,-196.399 0/1:39:18,21:18:636:21:744:-55.5436,0,-45.827 0/1:69:44,25:44:1542:25:886:-59.2874,0,-118.297 0/1:272:62,210:62:2220:210:7450:-588.536,0,-118.184 0/1:105:59,46:59:2091:46:1647:-116.91,0,-156.851 0/1:87:58,29:58:2030:29:1044:-68.0852,0,-156.78 0/1:93:35,58:35:1244:58:2021:-154.163,0,-84.2689 chr10 3358451 . C G 27097.3 PASS AB=0.530962;ABP=9.33017;AC=32;AF=0.761905;AN=42;AO=1036;CIGAR=1X;DP=1468;DPB=1468;DPRA=0.941892;EPP=262.715;EPPR=14.5915;GTI=1;LEN=1;MEANALT=1;MQM=59.5531;MQMR=59.9306;NS=21;NUMALT=1;ODDS=2.54041;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37018;QR=15450;RO=432;RPL=694;RPP=262.715;RPPR=14.5915;RPR=342;RUN=1;SAF=0;SAP=2252.66;SAR=1036;SRF=0;SRP=941.086;SRR=432;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91:0:0:91:3243:-291.639,-27.3937,0 1/1:86:1,85:1:36:85:3022:-268.579,-22.2903,0 1/1:63:0,63:0:0:63:2268:-204.376,-18.9649,0 0/1:57:34,23:34:1216:23:824:-57.3246,0,-92.5879 0/1:190:81,109:81:2891:109:3907:-294.535,0,-203.23 1/1:73:1,72:1:36:72:2572:-228.128,-18.3769,0 0/1:93:55,38:55:1972:38:1347:-93.5337,0,-149.561 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.645 0/1:131:54,77:54:1944:77:2760:-209.154,0,-135.801 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:112:63,49:63:2256:49:1740:-123.163,0,-169.588 0/1:22:12,10:12:432:10:351:-25.2978,0,-32.5985 1/1:93:0,93:0:0:93:3300:-297.204,-27.9958,0 1/1:89:0,89:0:0:89:3196:-287.818,-26.7917,0 1/1:62:0,62:0:0:62:2207:-198.876,-18.6639,0 0/1:87:40,47:40:1404:47:1677:-124.882,0,-100.465 0/1:67:17,50:17:603:50:1800:-142.101,0,-34.4305 1/1:29:0,29:0:0:29:1044:-94.2702,-8.72987,0 1/1:33:0,33:0:0:33:1188:-107.098,-9.93399,0 chr10 3373801 . C T 23498.3 PASS AB=0.58597;ABP=49.6805;AC=31;AF=0.738095;AN=42;AO=1118;CIGAR=1X;DP=1478;DPB=1478;DPRA=1.29364;EPP=2430.72;EPPR=782.569;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9123;MQMR=60;NS=21;NUMALT=1;ODDS=11.6911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40060;QR=12844;RO=359;RPL=0;RPP=2430.72;RPPR=782.569;RPR=1118;RUN=1;SAF=1118;SAP=2430.72;SAR=0;SRF=359;SRP=782.569;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:1,96:1:36:96:3421:-303.209,-25.6016,0 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 1/1:86:0,86:0:0:86:3084:-277.788,-25.8886,0 0/1:51:22,29:22:788:29:1040:-78.5618,0,-55.8923 0/1:133:53,79:53:1896:79:2820:-214.092,0,-130.969 1/1:63:3,60:3:108:60:2156:-184.232,-8.88972,0 0/1:90:38,52:38:1368:52:1868:-141.307,0,-96.3281 0/0:55:55,0:55:1964:0:0:0,-16.5566,-177.035 0/1:187:82,105:82:2948:105:3764:-282.664,0,-209.26 0/1:13:5,8:5:168:8:288:-22.354,0,-11.5375 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:35:0,35:0:0:35:1252:-112.985,-10.5361,0 0/1:94:31,63:31:1108:63:2243:-173.836,0,-71.7342 0/1:42:14,28:14:500:28:1008:-78.3927,0,-32.6929 1/1:95:0,95:0:0:95:3412:-307.293,-28.5979,0 1/1:37:0,37:0:0:37:1324:-119.331,-11.1381,0 1/1:31:0,31:0:0:31:1116:-100.748,-9.33193,0 0/1:56:37,19:37:1320:19:680:-44.6715,0,-102.244 0/1:61:18,43:18:640:43:1540:-120.53,0,-39.5665 1/1:159:0,159:0:0:159:5712:-514.194,-47.8638,0 1/1:42:0,42:0:0:42:1500:-135.295,-12.6433,0 chr10 3373862 . G A 49646.1 PASS AB=0.612825;ABP=139.228;AC=31;AF=0.738095;AN=42;AO=1849;CIGAR=1X;DP=2405;DPB=2405;DPRA=1.62014;EPP=4009.38;EPPR=1206.01;GTI=0;LEN=1;MEANALT=1.1;MQM=59.954;MQMR=60;NS=21;NUMALT=1;ODDS=19.2833;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65940;QR=19510;RO=554;RPL=998;RPP=28.388;RPPR=22.2165;RPR=851;RUN=1;SAF=997;SAP=27.7021;SAR=852;SRF=312;SRP=22.2165;SRR=242;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:3,143:3:99:143:5083:-446.866,-34.9743,0 1/1:79:0,79:0:0:79:2823:-254.309,-23.7814,0 1/1:144:1,143:1:36:143:5085:-454.198,-39.75,0 0/1:117:42,75:42:1466:75:2681:-206.292,0,-97.0124 0/1:224:81,143:81:2854:143:5071:-389.103,0,-189.666 1/1:90:2,88:2:59:88:3152:-278.301,-21.4886,0 0/1:153:73,80:73:2589:80:2840:-209.78,0,-187.201 0/0:72:72,0:72:2566:0:0:0,-21.6742,-231.189 0/1:249:100,149:100:3516:149:5309:-402.987,0,-241.697 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:43:0,43:0:0:43:1531:-138.082,-12.9443,0 0/1:146:49,96:49:1686:96:3439:-265.861,0,-108.16 0/1:112:26,86:26:907:86:3044:-240.473,0,-48.229 1/1:176:0,176:0:0:176:6303:-567.361,-52.9813,0 1/1:66:0,66:0:0:66:2346:-211.398,-19.868,0 1/1:63:0,63:0:0:63:2252:-202.942,-18.9649,0 0/1:112:68,44:68:2408:44:1584:-109.136,0,-183.26 0/1:109:31,78:31:1108:78:2788:-218.349,0,-67.2187 1/1:215:0,215:0:0:215:7682:-691.416,-64.7215,0 1/1:73:0,73:0:0:73:2607:-234.878,-21.9752,0 chr10 3407947 . G C 31787.1 PASS AB=0.473394;ABP=9.71198;AC=31;AF=0.738095;AN=42;AO=1537;CIGAR=1X;DP=2215;DPB=2215;DPRA=1.1538;EPP=3340.56;EPPR=1451.43;GTI=0;LEN=1;MEANALT=1.15;MQM=59.6968;MQMR=59.9956;NS=21;NUMALT=1;ODDS=1.97262;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54893;QR=23945;RO=675;RPL=0;RPP=3340.56;RPPR=1451.43;RPR=1537;RUN=1;SAF=1537;SAP=3340.56;SAR=0;SRF=675;SRP=1468.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:5,169:5:180:169:6035:-526.69,-35.8272,0 1/1:97:0,97:0:0:97:3464:-311.872,-29.1999,0 1/1:109:1,108:1:36:108:3832:-341.452,-29.214,0 0/1:163:78,85:78:2792:85:3000:-221.156,0,-202.453 0/1:168:111,57:111:3919:57:2039:-133.206,0,-302.33 1/1:86:2,84:2:72:84:3012:-264.416,-19.0519,0 0/1:144:82,62:82:2907:62:2214:-156.085,0,-218.518 0/0:92:92,0:92:3262:0:0:0,-27.6948,-293.798 0/1:215:122,93:122:4333:93:3323:-234.542,0,-325.426 0/1:11:8,3:8:288:3:108:-6.76384,0,-22.9561 1/1:10:0,10:0:0:10:360:-32.7361,-3.0103,0 1/1:47:0,46:0:0:46:1652:-148.741,-13.8474,0 0/1:127:60,66:60:2124:66:2360:-174.364,0,-153.137 0/1:163:73,90:73:2605:90:3215:-240.404,0,-185.629 1/1:146:0,146:0:0:146:5244:-472.058,-43.9504,0 1/1:112:0,112:0:0:112:4012:-361.175,-33.7154,0 1/1:136:1,135:1:36:135:4831:-431.326,-37.3418,0 0/1:45:22,23:22:759:23:828:-61.2932,0,-55.0786 0/1:54:17,37:17:600:37:1302:-101.217,0,-38.0736 1/1:73:1,72:1:32:72:2558:-227.261,-18.7759,0 1/1:43:0,42:0:0:42:1504:-135.278,-12.6433,0 chr10 3407988 . TTTTT ATTTA,ATTTT 45907.1 PASS AB=0.477901,0.520258;ABP=7.61718,6.88136;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1548,666;CIGAR=1X3M1X,1X4M;DP=2217;DPB=2218.8;DPRA=1.14194,1.53624;EPP=3364.45,1449.21;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.8,2.13333;MQM=59.7125,59.9955;MQMR=0;NS=21;NUMALT=2;ODDS=2.58363;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=72;PRO=3;QA=54007,23324;QR=0;RO=0;RPL=1548,666;RPP=3364.45,1449.21;RPPR=0;RPR=0,0;RUN=1,1;SAF=1548,666;SAP=3364.45,1449.21;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:175:0,172,3:0:0:172,3:5944,108:-534.725,-51.7772,0,-525.912,-42.6051,-525.009 1/1:98:0,98,0:0:0:98,0:3441,0:-309.83,-29.5009,0,-309.83,-29.5009,-309.83 1/1:109:0,108,1:0:0:108,1:3755,36:-337.706,-32.5112,0,-334.769,-29.214,-334.468 1/2:163:0,85,77:0:0:85,77:2955,2654:-456.02,-215.764,-190.177,-240.435,0,-217.256 1/2:169:0,59,110:0:0:59,110:2063,3845:-480.968,-313.137,-295.377,-168.18,0,-135.066 1/1:86:0,84,2:0:0:84,2:2966,68:-266.791,-25.2865,0,-261.275,-19.4309,-260.673 1/2:143:0,64,79:0:0:64,79:2222,2740:-403.121,-222.645,-203.379,-180.404,0,-156.623 2/2:93:0,0,92:0:0:0,92:0,3218:-289.595,-289.595,-289.595,-27.6948,-27.6948,0 1/2:213:0,90,122:0:0:90,122:3147,4283:-604.658,-348.648,-321.555,-256.08,0,-219.354 1/2:11:0,3,8:0:0:3,8:106,288:-32.4902,-23.8592,-22.9561,-8.98601,0,-6.57777 1/1:11:0,11,0:0:0:11,0:388,0:-35.2491,-3.31133,0,-35.2491,-3.31133,-35.2491 1/1:47:0,47,0:0:0:47,0:1652,0:-148.918,-14.1484,0,-148.918,-14.1484,-148.918 1/2:122:0,64,58:0:0:64,58:2267,2051:-352.072,-167.402,-148.136,-185.024,0,-167.564 1/2:166:0,92,74:0:0:92,74:3210,2609:-473.842,-212.782,-185.087,-261.411,0,-239.134 1/1:145:0,145,0:0:0:145,0:5051,0:-454.741,-43.6494,0,-454.741,-43.6494,-454.741 1/1:113:0,113,0:0:0:113,0:3919,0:-352.903,-34.0164,0,-352.903,-34.0164,-352.903 1/1:137:0,135,2:0:0:135,2:4711,68:-423.813,-40.6391,0,-418.297,-34.7834,-417.695 1/2:43:0,23,20:0:0:23,20:804,716:-123.725,-58.3301,-51.4064,-65.3334,0,-59.3128 1/2:56:0,39,17:0:0:39,17:1400,604:-163.769,-49.5731,-37.8329,-114.552,0,-109.435 1/1:73:0,72,1:0:0:72,1:2483,36:-223.354,-21.6742,0,-220.416,-18.3769,-220.115 1/1:44:0,44,0:0:0:44,0:1523,0:-137.345,-13.2453,0,-137.345,-13.2453,-137.345 chr10 3408001 . C T 24819.8 PASS AB=0.533428;ABP=9.8336;AC=31;AF=0.738095;AN=42;AO=1178;CIGAR=1X;DP=1597;DPB=1597;DPRA=0.827473;EPP=2561;EPPR=908.514;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8633;MQMR=59.8873;NS=21;NUMALT=1;ODDS=10.0662;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41929;QR=14891;RO=417;RPL=0;RPP=2561;RPPR=908.514;RPR=1178;RUN=1;SAF=0;SAP=2561;SAR=1178;SRF=0;SRP=908.514;SRR=417;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117:0:0:117:4146:-372.932,-35.2205,0 1/1:84:0,84:0:0:84:2987:-269.059,-25.2865,0 1/1:128:0,128:0:0:128:4561:-410.646,-38.5318,0 0/1:25:7,18:7:248:18:637:-50.1306,0,-15.1384 0/1:115:60,55:60:2140:55:1955:-141.607,0,-158.232 1/1:57:0,57:0:0:57:2040:-183.864,-17.1587,0 0/1:104:53,51:53:1896:51:1828:-133.48,0,-139.609 0/0:91:90,0:90:3201:0:0:0,-27.0927,-288.024 0/1:129:62,66:62:2215:66:2335:-171.664,0,-160.87 0/1:10:4,6:4:140:6:216:-16.7802,0,-9.93428 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:64:34,30:34:1224:30:1076:-77.8869,0,-91.1905 0/1:67:28,39:28:1004:39:1383:-104.599,0,-70.4844 1/1:151:0,151:0:0:151:5394:-485.585,-45.4555,0 1/1:88:0,88:0:0:88:3136:-282.466,-26.4906,0 1/1:79:0,79:0:0:79:2798:-252.058,-23.7814,0 0/1:127:53,74:53:1891:74:2628:-197.76,0,-132.237 0/1:62:26,36:26:932:36:1296:-98.2801,0,-65.535 1/1:25:0,25:0:0:25:884:-79.8726,-7.52575,0 1/1:46:0,46:0:0:46:1625:-146.537,-13.8474,0 chr10 3408017 . TAAAAAAGACTTTTAAC TAAAAAAGACTTTTTTAAC,TAAAAAAAGACTTTTTTAAC 32931.4 PASS AB=0.547865,0.441826;ABP=16.522,22.9693;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1147,389;CIGAR=10M2I7M,1M1I9M2I7M;DP=1557;DPB=1762.88;DPRA=0.834659,1.18478;EPP=2450.45,839.05;EPPR=0;GTI=0;LEN=2,20;MEANALT=2.45,2.54545;MQM=59.9547,59.9254;MQMR=0;NS=21;NUMALT=2;ODDS=3.70599;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40546,13583;QR=0;RO=0;RPL=5,1;RPP=2450.45,839.05;RPPR=0;RPR=1142,388;RUN=1,1;SAF=0,0;SAP=2493.69,847.713;SAR=1147,389;SRF=0;SRP=0;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:0,112,1:0:0:112,1:3914,21:-352.164,-33.7154,0,-350.577,-32.2014,-350.276 1/1:82:0,81,0:0:0:81,0:2851,0:-256.454,-24.3834,0,-256.454,-24.3834,-256.454 1/1:128:0,124,0:0:0:124,0:4414,0:-397.069,-37.3277,0,-397.069,-37.3277,-397.069 1/2:23:0,16,7:0:0:16,7:576,233:-66.2046,-19.1871,-14.3706,-47.3585,0,-45.2513 1/2:115:0,58,56:0:0:58,56:2005,1959:-322.308,-159.4,-141.941,-162.935,0,-146.077 1/1:57:0,57,0:0:0:57,0:2044,0:-184.224,-17.1587,0,-184.224,-17.1587,-184.224 1/2:100:0,52,46:0:0:52,46:1830,1596:-278.709,-129.735,-114.082,-148.983,0,-135.136 2/2:88:0,0,88:0:0:0,88:0,3086:-277.968,-277.968,-277.968,-26.4906,-26.4906,0 1/2:129:0,66,63:0:0:66,63:2342,2203:-370.385,-179.569,-159.701,-191.168,0,-172.203 1/2:11:0,7,3:0:0:7,3:252,93:-28.0483,-7.45622,-5.34901,-20.5968,0,-19.6937 1/1:8:0,7,0:0:0:7,0:252,0:-22.8002,-2.10721,0,-22.8002,-2.10721,-22.8002 1/1:20:0,20,0:0:0:20,0:716,0:-64.7677,-6.0206,0,-64.7677,-6.0206,-64.7677 1/2:59:0,27,32:0:0:27,32:957,1140:-171.237,-93.2762,-85.1484,-78.3161,0,-68.6831 1/2:65:0,38,25:0:0:38,25:1349,884:-181.963,-72.0453,-60.6062,-109.963,0,-102.437 1/1:149:0,146,0:0:0:146,0:5183,0:-466.261,-43.9504,0,-466.261,-43.9504,-466.261 1/1:86:0,85,0:0:0:85,0:2999,0:-269.779,-25.5876,0,-269.779,-25.5876,-269.779 1/1:79:0,79,0:0:0:79,0:2802,0:-252.417,-23.7814,0,-252.417,-23.7814,-252.417 1/2:116:0,71,45:0:0:71,45:2473,1580:-330.035,-128.942,-107.569,-201.443,0,-187.896 1/2:61:0,37,23:0:0:37,23:1317,788:-171.294,-63.9506,-52.8125,-107.332,0,-100.408 1/1:24:0,22,0:0:0:22,0:777,0:-69.9371,-6.62266,0,-69.9371,-6.62266,-69.9371 1/1:43:0,42,0:0:0:42,0:1493,0:-134.303,-12.6433,0,-134.303,-12.6433,-134.303 chr10 3414722 . A G 14202.1 PASS AB=0.534741;ABP=14.9295;AC=11;AF=0.261905;AN=42;AO=767;CIGAR=1X;DP=2340;DPB=2340;DPRA=2.25314;EPP=1608.28;EPPR=3281.18;GTI=1;LEN=1;MEANALT=1;MQM=59.9635;MQMR=59.9905;NS=21;NUMALT=1;ODDS=7.90074;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27299;QR=56379;RO=1573;RPL=760;RPP=1608.28;RPPR=3281.18;RPR=7;RUN=1;SAF=0;SAP=1668.53;SAR=767;SRF=0;SRP=3418.74;SRR=1573;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:160:159,1:159:5700:1:32:0,-44.9655,-509.918 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/0:142:142,0:142:5095:0:0:0,-42.7463,-458.691 0/1:85:35,50:35:1256:50:1788:-135.615,0,-87.7577 0/1:178:74,104:74:2660:104:3685:-278.231,0,-186.062 0/0:140:140,0:140:5012:0:0:0,-42.1442,-451.224 0/1:121:45,76:45:1620:76:2724:-208.978,0,-109.665 1/1:157:1,156:1:36:156:5575:-498.275,-43.6634,0 0/1:233:122,111:122:4376:111:3936:-284.291,0,-323.873 0/1:20:6,14:6:216:14:489:-38.3192,0,-13.7699 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 0/1:158:69,89:69:2471:89:3156:-236.702,0,-175.08 0/1:151:74,77:74:2632:77:2751:-202.376,0,-191.654 0/0:293:292,1:292:10471:1:36:0,-84.6035,-938.706 0/0:42:42,0:42:1499:0:0:0,-12.6433,-135.204 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/1:83:40,43:40:1436:43:1536:-113.548,0,-104.552 0/1:108:64,44:64:2295:44:1555:-107.73,0,-174.299 0/0:91:90,1:90:3212:1:36:0,-23.7955,-285.703 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 chr10 3433348 . T A 16215.1 PASS AB=0.467456;ABP=10.7839;AC=31;AF=0.738095;AN=42;AO=822;CIGAR=1X;DP=1382;DPB=1382;DPRA=0.583945;EPP=1779.29;EPPR=1219.03;GTI=2;LEN=1;MEANALT=1;MQM=59.6265;MQMR=59.9857;NS=21;NUMALT=1;ODDS=7.17611;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29433;QR=19813;RO=560;RPL=821;RPP=1779.29;RPPR=1219.03;RPR=1;RUN=1;SAF=0;SAP=1787.96;SAR=822;SRF=0;SRP=1219.03;SRR=560;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,31:0:0:31:1112:-100.389,-9.33193,0 1/1:24:0,24:0:0:24:860:-77.7137,-7.22472,0 1/1:93:0,93:0:0:93:3340:-300.796,-27.9958,0 0/1:71:48,23:48:1693:23:828:-53.3775,0,-131.281 0/1:168:120,48:120:4240:48:1711:-103.699,0,-331.21 1/1:45:0,45:0:0:45:1616:-145.452,-13.5464,0 0/1:109:49,60:49:1713:60:2152:-160.341,0,-121.641 0/0:109:109,0:109:3846:0:0:0,-32.8123,-346.338 0/1:70:37,33:37:1301:33:1184:-85.7962,0,-96.3172 0/1:10:4,6:4:144:6:201:-15.4067,0,-10.3033 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:5:0,5:0:0:5:180:-16.5381,-1.50515,0 0/1:115:62,53:62:2204:53:1900:-136.609,0,-164.005 0/1:54:24,30:24:852:30:1067:-80.081,0,-60.7448 1/1:52:0,52:0:0:52:1872:-168.749,-15.6536,0 1/1:24:0,24:0:0:24:860:-77.7209,-7.22472,0 1/1:36:0,36:0:0:36:1278:-115.317,-10.8371,0 0/1:151:75,76:75:2672:76:2724:-199.937,0,-195.271 0/1:97:31,66:31:1112:66:2368:-184.161,0,-71.1914 1/1:44:1,43:1:36:43:1535:-134.83,-9.64705,0 1/1:68:0,68:0:0:68:2429:-218.848,-20.47,0 chr10 3435129 . AGT GAA,AAT 27922.9 PASS AB=0.542526,0.456186;ABP=15.1996,15.9496;AC=31,11;AF=0.738095,0.261905;AN=42;AO=946,391;CIGAR=3X,1M1X1M;DP=1338;DPB=1338;DPRA=1.80833,1.74672;EPP=2057.22,852.056;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.55,2;MQM=59.6342,59.9949;MQMR=0;NS=21;NUMALT=2;ODDS=4.11508;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33283,13975;QR=0;RO=0;RPL=0,0;RPP=2057.22,852.056;RPPR=0;RPR=946,391;RUN=1,1;SAF=946,391;SAP=2057.22,852.056;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39,0:0:0:39,0:1358,0:-122.509,-11.7402,0,-122.509,-11.7402,-122.509 1/1:58:0,58,0:0:0:58,0:2036,0:-183.502,-17.4597,0,-183.502,-17.4597,-183.502 1/1:64:0,64,0:0:0:64,0:2252,0:-202.94,-19.2659,0,-202.94,-19.2659,-202.94 1/2:89:0,45,44:0:0:45,44:1578,1576:-257.093,-128.886,-115.34,-128.561,0,-115.316 1/2:121:0,51,70:0:0:51,70:1788,2504:-350.033,-204.541,-189.188,-145.846,0,-124.774 1/1:68:0,67,1:0:0:67,1:2394,36:-215.35,-20.169,0,-212.412,-16.8718,-212.111 1/2:114:0,77,37:0:0:77,37:2704,1324:-328.215,-108.324,-85.1447,-220.247,0,-209.109 2/2:36:0,0,36:0:0:0,36:0,1258:-113.518,-113.518,-113.518,-10.8371,-10.8371,0 1/2:126:0,78,48:0:0:78,48:2755,1724:-365.338,-140.996,-117.516,-224.699,0,-210.25 1/2:19:0,13,6:0:0:13,6:458,212:-54.9072,-17.6186,-13.7052,-37.6414,0,-35.8353 1/1:6:0,6,0:0:0:6,0:208,0:-19.0585,-1.80618,0,-19.0585,-1.80618,-19.0585 1/1:29:0,29,0:0:0:29,0:1034,0:-93.3732,-8.72987,0,-93.3732,-8.72987,-93.3732 1/2:95:0,36,59:0:0:36,59:1270,2105:-275.365,-171.956,-161.119,-103.763,0,-86.002 1/2:64:0,33,31:0:0:33,31:1169,1116:-186.646,-91.4198,-81.4858,-95.5831,0,-86.2511 1/1:40:0,40,0:0:0:40,0:1408,0:-127.008,-12.0412,0,-127.008,-12.0412,-127.008 1/1:29:0,29,0:0:0:29,0:1011,0:-91.2988,-8.72987,0,-91.2988,-8.72987,-91.2988 1/1:57:0,57,0:0:0:57,0:2017,0:-181.801,-17.1587,0,-181.801,-17.1587,-181.801 1/2:95:0,55,39:0:0:55,39:1933,1404:-271.829,-114.559,-98.0026,-157.266,0,-145.526 1/2:53:0,33,20:0:0:33,20:1143,716:-151.63,-58.7471,-48.8131,-93.2365,0,-87.2159 1/1:81:0,81,0:0:0:81,0:2833,0:-255.019,-24.3834,0,-255.019,-24.3834,-255.019 1/1:55:0,55,0:0:0:55,0:1934,0:-174.103,-16.5567,0,-174.103,-16.5567,-174.103 chr10 3435167 . GAG GG 5823.24 PASS AB=0.446358;ABP=21.8805;AC=11;AF=0.261905;AN=42;AO=369;CIGAR=1M1D1M;DP=1309;DPB=1186;DPRA=1.70629;EPP=804.284;EPPR=2035.51;GTI=0;LEN=1;MEANALT=1.27273;MQM=60;MQMR=59.7959;NS=21;NUMALT=1;ODDS=5.70144;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12924;QR=32972;RO=936;RPL=369;RPP=804.284;RPPR=2035.51;RPR=0;RUN=1;SAF=369;SAP=804.284;SAR=0;SRF=936;SRP=2035.51;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,0:38:1348:0:0:0,-11.4391,-121.38 0/0:57:57,0:57:1999:0:0:0,-17.1587,-180.175 0/0:64:64,0:64:2249:0:0:0,-19.2659,-202.666 0/1:82:43,38:43:1520:38:1331:-95.497,0,-112.497 0/1:119:51,68:51:1809:68:2411:-181.424,0,-127.267 0/0:68:66,1:66:2346:1:36:0,-16.9104,-207.82 0/1:111:76,35:76:2711:35:1235:-78.0391,0,-210.749 1/1:31:0,31:0:0:31:1064:-96.0644,-9.33193,0 0/1:125:78,47:78:2754:47:1684:-114.218,0,-210.464 0/1:18:13,5:13:454:5:165:-9.75506,0,-35.7732 0/0:6:6,0:6:207:0:0:0,-1.80618,-18.9669 0/0:28:28,0:28:998:0:0:0,-8.42884,-90.1352 0/1:93:35,57:35:1218:57:1994:-151.679,0,-81.8684 0/1:63:33,30:33:1143:30:1026:-73.6796,0,-84.2076 0/0:40:40,0:40:1404:0:0:0,-12.0412,-126.65 0/0:29:29,0:29:1002:0:0:0,-8.72987,-90.4868 0/0:57:57,0:57:2027:0:0:0,-17.1587,-182.701 0/1:91:54,37:54:1901:37:1295:-89.4566,0,-143.97 0/1:53:33,20:33:1169:20:683:-45.8336,0,-89.5603 0/0:81:81,0:81:2819:0:0:0,-24.3834,-253.95 0/0:54:54,0:54:1894:0:0:0,-16.2556,-170.727 chr10 3435669 . A G 9178.48 PASS AB=0.401055;ABP=99.6953;AC=11;AF=0.261905;AN=42;AO=569;CIGAR=1X;DP=1942;DPB=1942;DPRA=3.07283;EPP=1238.58;EPPR=2982.27;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.53457;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19977;QR=48812;RO=1372;RPL=0;RPP=1238.58;RPPR=2982.27;RPR=569;RUN=1;SAF=0;SAP=1238.58;SAR=569;SRF=0;SRP=2982.27;SRR=1372;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:22,0:22:758:0:0:0,-6.62266,-68.5367 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:140:140,0:140:4989:0:0:0,-42.1442,-449.159 0/1:111:69,42:69:2450:42:1464:-98.6371,0,-187.34 0/1:124:84,40:84:2997:40:1404:-89.3267,0,-232.633 0/0:59:59,0:59:2103:0:0:0,-17.7608,-189.539 0/1:249:145,104:145:5175:104:3657:-254.382,0,-390.935 1/1:111:0,111:0:0:111:3859:-347.509,-33.4143,0 0/1:187:115,72:115:4084:72:2543:-172.829,0,-311.454 0/1:15:11,4:11:387:4:144:-8.79817,0,-30.6505 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:48:48,0:48:1711:0:0:0,-14.4494,-154.275 0/1:148:75,73:75:2666:73:2576:-187.536,0,-195.633 0/1:147:94,53:94:3348:53:1861:-123.518,0,-257.284 0/0:169:168,1:168:5974:1:36:0,-47.2758,-534.169 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:27:27,0:27:956:0:0:0,-8.12781,-86.3557 0/1:122:62,59:62:2211:59:2081:-150.922,0,-162.617 0/1:34:25,9:25:900:9:320:-18.9073,0,-71.086 0/0:144:143,1:143:5075:1:32:0,-40.149,-453.697 0/0:27:27,0:27:944:0:0:0,-8.12781,-85.2741 chr10 3497609 . C T 37266.2 PASS AB=0.519814;ABP=7.3988;AC=31;AF=0.738095;AN=42;AO=1781;CIGAR=1X;DP=2490;DPB=2490;DPRA=1.33333;EPP=3861.72;EPPR=1540.41;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9893;MQMR=60;NS=21;NUMALT=1;ODDS=3.21883;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63733;QR=25137;RO=708;RPL=1;RPP=3861.72;RPPR=1540.41;RPR=1780;RUN=1;SAF=1781;SAP=3870.4;SAR=0;SRF=708;SRP=1540.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:161:0,161:0:0:161:5780:-520.313,-48.4658,0 1/1:85:0,85:0:0:85:3060:-275.628,-25.5876,0 1/1:145:0,145:0:0:145:5180:-466.341,-43.6494,0 0/1:103:51,52:51:1824:52:1864:-137.033,0,-133.435 0/1:257:134,123:134:4748:123:4396:-318.447,0,-350.119 1/1:78:1,77:1:36:77:2764:-245.403,-19.8821,0 0/1:209:94,115:94:3322:115:4128:-308.787,0,-236.285 0/0:90:90,0:90:3208:0:0:0,-27.0927,-288.944 0/1:204:117,87:117:4156:87:3115:-219.165,0,-312.814 0/1:19:15,4:15:536:4:144:-7.59405,0,-42.8552 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:35:0,35:0:0:35:1242:-112.083,-10.5361,0 0/1:176:85,90:85:3031:90:3212:-236.412,0,-220.129 0/1:93:42,51:42:1465:51:1828:-136.805,0,-104.147 1/1:226:0,226:0:0:226:8065:-725.869,-68.0328,0 1/1:110:0,110:0:0:110:3924:-353.354,-33.1133,0 1/1:109:0,109:0:0:109:3896:-350.835,-32.8123,0 0/1:128:56,72:56:1991:72:2573:-193.281,0,-140.932 0/1:98:23,75:23:820:75:2683:-212.213,0,-44.6216 1/1:92:0,92:0:0:92:3295:-296.768,-27.6948,0 1/1:67:0,67:0:0:67:2404:-216.616,-20.169,0 chr10 3497689 . C G,T 54809.1 PASS AB=0.553687,0.446313;ABP=41.7148,41.7148;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1825,778;CIGAR=1X,1X;DP=2603;DPB=2603;DPRA=0,1.83767;EPP=3965.95,1692.42;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=56.926,51.5437;MQMR=0;NS=21;NUMALT=2;ODDS=5.29839;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65138,27832;QR=0;RO=0;RPL=1825,778;RPP=3965.95,1692.42;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3965.95,1692.42;SAR=1825,778;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:160:0,156,4:0:0:156,4:5553,140:-498.704,-46.9607,0,-487.334,-35.2418,-486.13 1/1:104:0,104,0:0:0:104,0:3709,0:-333.03,-31.3071,0,-333.03,-31.3071,-333.03 1/1:123:0,123,0:0:0:123,0:4379,0:-393.983,-37.0267,0,-393.983,-37.0267,-393.983 1/2:171:0,89,82:0:0:89,82:3184,2913:-494.456,-236.453,-209.662,-258.357,0,-233.672 1/2:343:0,167,176:0:0:167,176:5966,6305:-995.734,-510.669,-460.397,-485.421,0,-432.439 1/1:120:0,118,2:0:0:118,2:4236,72:-379.584,-35.5215,0,-373.744,-29.3239,-373.142 1/2:205:0,101,104:0:0:101,104:3604,3720:-593.313,-300.227,-269.823,-293.441,0,-262.134 2/2:82:0,1,81:0:0:1,81:36,2908:-259.502,-256.575,-256.274,-24.3834,-21.098,0 1/2:290:0,160,130:0:0:160,130:5738,4657:-845.481,-378.656,-330.491,-467.183,0,-428.049 1/2:20:0,6,14:0:0:6,14:212,504:-57.9299,-40.6729,-38.8667,-17.6102,0,-13.3957 1/1:14:0,14,0:0:0:14,0:500,0:-45.2911,-4.21442,0,-45.2911,-4.21442,-45.2911 1/1:42:0,41,1:0:0:41,1:1459,36:-131.087,-12.3422,0,-128.151,-9.0467,-127.85 1/2:199:0,154,45:0:0:154,45:5480,1597:-575.464,-129.87,-83.5114,-445.948,0,-432.401 1/2:169:0,82,87:0:0:82,87:2915,3112:-489.23,-251.731,-227.047,-237.853,0,-211.664 1/1:80:0,80,0:0:0:80,0:2856,0:-256.935,-24.0824,0,-256.935,-24.0824,-256.935 1/1:84:0,84,0:0:0:84,0:2973,0:-266.818,-25.2865,0,-266.818,-25.2865,-266.818 1/1:65:0,65,0:0:0:65,0:2320,0:-208.712,-19.567,0,-208.712,-19.567,-208.712 1/2:50:0,22,28:0:0:22,28:788,1004:-145.973,-81.7416,-75.1189,-64.589,0,-56.1602 1/2:99:0,75,24:0:0:75,24:2666,864:-287.741,-70.5627,-47.9854,-217.536,0,-210.311 1/1:131:0,131,0:0:0:131,0:4700,0:-421.882,-39.4349,0,-421.882,-39.4349,-421.882 1/1:52:0,52,0:0:0:52,0:1864,0:-167.645,-15.6536,0,-167.645,-15.6536,-167.645 chr10 3497701 . CCA CCG,ACG 55051.1 PASS AB=0.554264,0.444444;ABP=42.6018,44.5096;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1834,777;CIGAR=2M1X,1X1M1X;DP=2614;DPB=2614;DPRA=1.5247,2.05472;EPP=3985.49,1690.24;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.7,2.16667;MQM=56.9422,51.4324;MQMR=0;NS=21;NUMALT=2;ODDS=5.62629;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65785,27478;QR=0;RO=0;RPL=1834,777;RPP=3985.49,1690.24;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3985.49,1690.24;SAR=1834,777;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:164:0,159,4:0:0:159,4:5704,144:-511.613,-47.8638,0,-499.888,-36.1388,-498.684 1/1:104:0,104,0:0:0:104,0:3721,0:-333.854,-31.3071,0,-333.854,-31.3071,-333.854 1/1:125:0,125,0:0:0:125,0:4492,0:-404.005,-37.6288,0,-404.005,-37.6288,-404.005 1/2:168:0,88,80:0:0:88,80:3148,2827:-485.151,-229.25,-202.759,-256.255,0,-232.173 1/2:341:0,167,173:0:0:167,173:5988,6105:-980.876,-493.976,-443.704,-486.894,0,-434.816 1/1:120:0,118,2:0:0:118,2:4236,72:-379.603,-35.5215,0,-373.763,-29.3239,-373.161 1/2:209:0,104,105:0:0:104,105:3712,3725:-602.357,-300.527,-269.22,-302.183,0,-270.575 2/2:83:0,0,83:0:0:0,83:0,2950:-263.674,-263.674,-263.674,-24.9855,-24.9855,0 1/2:294:0,160,134:0:0:160,134:5736,4757:-852.857,-386.608,-338.443,-466.605,0,-426.267 1/2:20:0,6,14:0:0:6,14:216,486:-56.9246,-39.3042,-37.498,-17.9749,0,-13.7605 1/1:14:0,14,0:0:0:14,0:504,0:-45.651,-4.21442,0,-45.651,-4.21442,-45.651 1/1:43:0,43,0:0:0:43,0:1536,0:-138.331,-12.9443,0,-138.331,-12.9443,-138.331 1/2:200:0,156,44:0:0:156,44:5608,1572:-584.297,-127.904,-80.9437,-456.749,0,-443.503 1/2:167:0,79,87:0:0:79,87:2840,3064:-479.062,-247.402,-223.621,-231.704,0,-205.514 1/1:79:0,79,0:0:0:79,0:2840,0:-255.493,-23.7814,0,-255.493,-23.7814,-255.493 1/1:83:0,83,0:0:0:83,0:2976,0:-267.061,-24.9855,0,-267.061,-24.9855,-267.061 1/1:68:0,68,0:0:0:68,0:2444,0:-219.837,-20.47,0,-219.837,-20.47,-219.837 1/2:51:0,23,28:0:0:23,28:828,980:-147.132,-79.6012,-72.6775,-67.8849,0,-59.456 1/2:98:0,75,23:0:0:75,23:2688,796:-283.92,-64.753,-42.1758,-219.514,0,-212.591 1/1:132:0,132,0:0:0:132,0:4744,0:-425.769,-39.736,0,-425.769,-39.736,-425.769 1/1:51:0,51,0:0:0:51,0:1824,0:-164.052,-15.3525,0,-164.052,-15.3525,-164.052 chr10 3520861 . C T 29847.5 PASS AB=0.466197;ABP=17.1035;AC=31;AF=0.738095;AN=42;AO=2230;CIGAR=1X;DP=3182;DPB=3182;DPRA=0.829006;EPP=4622.19;EPPR=2016.29;GTI=1;LEN=1;MEANALT=1.05;MQM=27.2489;MQMR=43.8044;NS=21;NUMALT=1;ODDS=6.32325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80011;QR=33967;RO=951;RPL=26;RPP=4622.19;RPPR=2016.29;RPR=2204;RUN=1;SAF=2230;SAP=4845.39;SAR=0;SRF=951;SRP=2068.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:329:2,327:2:72:327:11743:-772.517,-92.2967,0 1/1:178:0,178:0:0:178:6384:-433.471,-53.5833,0 1/1:146:0,146:0:0:146:5248:-345.568,-43.9504,0 0/1:198:116,81:116:4160:81:2908:-133.784,0,-309.38 0/1:255:140,115:140:4984:115:4114:-197.383,0,-363.082 1/1:163:3,160:3:108:160:5743:-381.549,-39.3219,0 0/1:195:90,105:90:3228:105:3763:-198.031,0,-219.54 0/0:181:181,0:181:6463:0:0:0,-54.4864,-567.218 0/1:246:132,114:132:4728:114:4096:-197.392,0,-345.962 0/1:24:19,5:19:676:5:180:-5.36181,0,-52.4798 1/1:19:0,19:0:0:19:684:-46.5737,-5.71957,0 1/1:47:0,47:0:0:47:1692:-116.005,-14.1484,0 0/1:152:84,68:84:3016:68:2423:-115.559,0,-221.825 0/1:228:116,112:116:4127:112:4009:-197.982,0,-295.177 1/1:226:0,226:0:0:226:8108:-538.76,-68.0328,0 1/1:157:2,155:2:72:155:5572:-361.902,-40.6208,0 1/1:88:0,88:0:0:88:3145:-208.377,-26.4906,0 0/1:55:33,22:33:1161:22:792:-37.3062,0,-86.0951 0/1:67:27,40:27:964:40:1440:-75.7617,0,-64.5788 1/1:170:6,164:6:208:164:5888:-382.773,-32.4757,0 1/1:58:0,58:0:0:58:2079:-142.035,-17.4597,0 chr10 3520897 . ACGTTTTGA CCGTTTGA 43832.3 PASS AB=0.4883;ABP=4.94109;AC=31;AF=0.738095;AN=42;AO=2185;CIGAR=1X2M1D5M;DP=3190;DPB=3238.78;DPRA=0.934568;EPP=4747.68;EPPR=2154.94;GTI=1;LEN=8;MEANALT=1.65;MQM=59.6572;MQMR=59.9909;NS=21;NUMALT=1;ODDS=2.35209;PAIRED=0;PAIREDR=0;PAO=2634;PQA=57430;PQR=36;PRO=1;QA=76402;QR=34859;RO=991;RPL=1;RPP=4739;RPPR=2154.94;RPR=2184;RUN=1;SAF=1;SAP=4739;SAR=2184;SRF=0;SRP=2154.94;SRR=991;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:337:1,334:1:36:334:11648:-1044.58,-97.6062,0 1/1:78:1,76:1:36:76:2663:-236.319,-19.9208,0 1/1:167:0,165:0:0:165:5778:-519.839,-49.67,0 0/1:157:77,79:77:2707:79:2733:-198.96,0,-196.637 0/1:389:225,164:225:7923:164:5717:-397.206,0,-595.773 1/1:120:0,120:0:0:120:4186:-376.907,-36.1236,0 0/1:216:96,119:96:3374:119:4194:-312.559,0,-238.801 0/0:162:161,0:161:5668:0:0:0,-48.4658,-510.044 0/1:232:102,130:102:3576:130:4610:-344.89,0,-251.911 0/1:24:9,15:9:321:15:532:-40.694,0,-21.7054 1/1:13:0,13:0:0:13:453:-41.1006,-3.91339,0 1/1:55:0,55:0:0:55:1899:-170.795,-16.5567,0 0/1:227:127,100:127:4461:100:3532:-249.492,0,-333.092 0/1:209:122,86:122:4311:86:3044:-211.277,0,-325.286 1/1:173:0,173:0:0:173:6071:-546.187,-52.0782,0 1/1:154:0,153:0:0:153:5330:-479.471,-46.0576,0 1/1:128:0,128:0:0:128:4468:-401.965,-38.5318,0 0/1:94:47,46:47:1643:46:1581:-114.283,0,-119.864 0/1:76:21,54:21:733:54:1875:-146.056,0,-43.4105 1/1:111:2,107:2:70:107:3718:-328.193,-26.5137,0 1/1:68:0,68:0:0:68:2370:-213.28,-20.47,0 chr10 3529235 . T C 6242.99 PASS AB=0.448418;ABP=19.8116;AC=11;AF=0.261905;AN=42;AO=377;CIGAR=1X;DP=1315;DPB=1315;DPRA=1.67288;EPP=821.655;EPPR=2022.52;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9733;NS=21;NUMALT=1;ODDS=7.84351;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13380;QR=33526;RO=938;RPL=0;RPP=821.655;RPPR=2022.52;RPR=377;RUN=1;SAF=377;SAP=821.655;SAR=0;SRF=938;SRP=2039.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:20:20,0:20:692:0:0:0,-6.0206,-62.5986 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/0:123:123,0:123:4400:0:0:0,-37.0267,-396.173 0/1:95:36,59:36:1277:59:2102:-160.85,0,-86.6333 0/1:81:53,28:53:1892:28:1004:-66.2924,0,-146.175 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/1:39:25,14:25:896:14:495:-33.1429,0,-69.2202 1/1:50:0,50:0:0:50:1737:-156.611,-15.0515,0 0/1:133:71,62:71:2544:62:2196:-157.866,0,-189.174 0/1:22:11,11:11:396:11:392:-28.9974,0,-29.3601 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:49:49,0:49:1748:0:0:0,-14.7505,-157.604 0/1:137:78,59:78:2788:59:2112:-149.108,0,-209.92 0/1:88:44,44:44:1567:44:1567:-114.83,0,-114.83 0/0:67:67,0:67:2403:0:0:0,-20.169,-216.526 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:67:37,30:37:1328:30:1076:-76.9838,0,-99.6532 0/1:65:46,19:46:1640:19:663:-40.4265,0,-128.322 0/0:112:112,0:112:3999:0:0:0,-33.7154,-359.783 0/0:75:74,1:74:2656:1:36:0,-18.979,-235.687 chr10 3557703 . CATTGAAATCG GACCGAGATCA,CACTGGGATCG 13061.7 PASS AB=0.496386,0.493976;ABP=3.05739,3.14111;AC=31,11;AF=0.738095,0.261905;AN=42;AO=584,290;CIGAR=1X1M2X2M1X3M1X,2M1X2M2X4M;DP=883;DPB=882.909;DPRA=0.488415,1.63001;EPP=1271.15,632.737;EPPR=0;GTI=1;LEN=11,11;MEANALT=2.05,2.38462;MQM=25.8219,59.5172;MQMR=0;NS=21;NUMALT=2;ODDS=3.67255;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=20525,10216;QR=0;RO=0;RPL=0,0;RPP=1271.15,632.737;RPPR=0;RPR=584,290;RUN=1,1;SAF=584,290;SAP=1271.15,632.737;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,41,0:0:0:41,0:1443,0:-96.2517,-12.3422,0,-96.2517,-12.3422,-96.2517 1/1:28:0,28,0:0:0:28,0:981,0:-58.1128,-8.42884,0,-58.1128,-8.42884,-58.1128 1/1:18:0,18,0:0:0:18,0:627,0:-42.5549,-5.41854,0,-42.5549,-5.41854,-42.5549 1/2:27:0,20,7:0:0:20,7:691,246:-61.1871,-20.3746,-14.354,-41.1403,0,-39.0331 1/2:42:0,23,19:0:0:23,19:808,669:-102.336,-54.8141,-47.8904,-47.8334,0,-42.1138 1/1:35:0,33,1:0:0:33,1:1155,36:-66.8572,-9.93399,0,-63.916,-6.97661,-63.615 1/2:65:0,34,30:0:0:34,30:1189,1056:-144.904,-85.9225,-75.6874,-58.9285,0,-49.8976 2/2:82:0,0,82:0:0:0,82:0,2867:-258.22,-258.22,-258.22,-24.6845,-24.6845,0 1/2:79:0,35,44:0:0:35,44:1239,1549:-202.964,-126.397,-115.861,-76.8771,0,-63.6318 1/2:11:0,3,8:0:0:3,8:108,286:-29.3084,-23.6659,-22.7628,-5.9171,0,-3.50886 1/1:7:0,7,0:0:0:7,0:242,0:-14.357,-2.10721,0,-14.357,-2.10721,-14.357 1/1:28:0,27,0:0:0:27,0:963,0:-59.8926,-8.12781,0,-59.8926,-8.12781,-59.8926 1/2:32:0,11,21:0:0:11,21:379,755:-84.0842,-61.5956,-58.2843,-22.4307,0,-16.1091 1/2:42:0,17,24:0:0:17,24:601,840:-103.506,-68.4345,-63.317,-35.1187,0,-27.894 1/1:65:0,63,1:0:0:63,1:2224,36:-149.455,-18.9649,0,-146.516,-16.0153,-146.215 1/1:32:0,31,0:0:0:31,0:1079,0:-76.5999,-9.33193,0,-76.5999,-9.33193,-76.5999 1/1:36:0,36,0:0:0:36,0:1259,0:-90.2815,-10.8371,0,-90.2815,-10.8371,-90.2815 1/2:64:0,28,36:0:0:28,36:995,1275:-157.586,-104.163,-95.7344,-53.7154,0,-42.8783 1/2:53:0,35,16:0:0:35,16:1230,565:-118.079,-46.0255,-35.4895,-72.0481,0,-67.2316 1/1:44:0,43,1:0:0:43,1:1512,36:-94.8637,-12.9443,0,-91.9237,-9.64705,-91.6226 1/1:51:0,51,0:0:0:51,0:1800,0:-104.285,-15.3525,0,-104.285,-15.3525,-104.285 chr10 3557724 . T A 31014.9 PASS AB=0.571737;ABP=44.4463;AC=31;AF=0.738095;AN=42;AO=1341;CIGAR=1X;DP=1847;DPB=1847;DPRA=0.846602;EPP=2727;EPPR=1099.6;GTI=0;LEN=1;MEANALT=1.05;MQM=45.3706;MQMR=59.6871;NS=21;NUMALT=1;ODDS=12.3478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47822;QR=18014;RO=505;RPL=560;RPP=82.0982;RPPR=28.5047;RPR=781;RUN=1;SAF=582;SAP=53.7411;SAR=759;SRF=291;SRP=28.5047;SRR=214;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:1,90:1:36:90:3221:-252.963,-24.0987,0 1/1:81:0,81:0:0:81:2889:-232.049,-24.3834,0 1/1:45:0,45:0:0:45:1616:-129.89,-13.5464,0 0/1:67:23,44:23:824:44:1560:-104.491,0,-54.3143 0/1:98:40,58:40:1417:58:2079:-140.986,0,-98.3221 1/1:70:1,69:1:36:69:2472:-182.767,-17.4738,0 0/1:137:49,88:49:1744:88:3155:-202.661,0,-115.952 0/0:103:103,0:103:3681:0:0:0,-31.0061,-331.426 0/1:143:70,73:70:2499:73:2592:-165.923,0,-181.958 0/1:17:10,7:10:356:7:243:-15.017,0,-27.246 1/1:13:0,13:0:0:13:459:-34.2769,-3.91339,0 1/1:45:0,45:0:0:45:1588:-114.861,-13.5464,0 0/1:75:42,33:42:1500:33:1180:-74.923,0,-112.717 0/1:81:30,51:30:1072:51:1828:-126.261,0,-72.4028 1/1:146:2,144:2:68:144:5157:-404.25,-37.4927,0 1/1:61:0,61:0:0:61:2175:-174.699,-18.3628,0 1/1:59:0,59:0:0:59:2100:-168.174,-17.7608,0 0/1:176:96,80:96:3421:80:2838:-175.769,0,-255.062 0/1:133:37,96:37:1324:96:3432:-241.219,0,-79.4127 1/1:88:1,87:1:36:87:3099:-234.788,-22.8924,0 1/1:117:0,117:0:0:117:4139:-316.936,-35.2205,0 chr10 3577505 . CTTTG GTTTG,GTTTA 42136.4 PASS AB=0.509922,0.488352;ABP=4.00142,4.37614;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1692,710;CIGAR=1X4M,1X3M1X;DP=2411;DPB=2411.2;DPRA=0,2.08691;EPP=3677.14,1544.76;EPPR=0;GTI=2;LEN=1,5;MEANALT=2.04762,2.35714;MQM=53.9905,21.2028;MQMR=0;NS=21;NUMALT=2;ODDS=2.36677;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=60453,25136;QR=0;RO=0;RPL=1692,710;RPP=3677.14,1544.76;RPPR=0;RPR=0,0;RUN=1,1;SAF=1692,710;SAP=3677.14,1544.76;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:170:0,167,3:0:0:167,3:5958,107:-535.352,-50.272,0,-530.627,-45.3358,-529.724 1/1:59:0,59,0:0:0:59,0:2075,0:-184.634,-17.7608,0,-184.634,-17.7608,-184.634 1/1:108:0,105,0:0:0:105,0:3753,0:-337.202,-31.6082,0,-337.202,-31.6082,-337.202 1/2:153:0,69,84:0:0:69,84:2464,2975:-333.121,-132.435,-111.664,-200.976,0,-175.689 1/2:315:0,176,138:0:0:176,138:6274,4883:-730.19,-219.178,-166.197,-511.016,0,-469.474 1/1:61:0,59,2:0:0:59,2:2101,70:-186.544,-17.7608,0,-183.402,-14.4056,-182.8 1/2:174:0,89,85:0:0:89,85:3175,3003:-389.666,-134.792,-108.001,-255.152,0,-229.565 2/2:138:0,1,136:0:0:1,136:36,4852:-254.315,-251.379,-251.078,-40.9401,-37.9295,0 1/2:100:0,57,43:0:0:57,43:2034,1528:-233.214,-67.8967,-50.738,-165.589,0,-152.645 1/2:16:0,9,7:0:0:9,7:320,252:-37.3874,-11.2469,-8.53766,-26.4132,0,-24.306 1/1:10:0,10,0:0:0:10,0:360,0:-32.3142,-3.0103,0,-32.3142,-3.0103,-32.3142 1/1:40:0,40,0:0:0:40,0:1423,0:-128.235,-12.0412,0,-128.235,-12.0412,-128.235 1/2:134:0,68,66:0:0:68,66:2432,2332:-302.136,-103.981,-83.5106,-198.437,0,-178.569 1/2:101:0,36,65:0:0:36,65:1296,2269:-211.249,-105.533,-94.6957,-106.023,0,-86.4564 1/1:278:0,276,1:0:0:276,1:9882,36:-888.254,-83.0843,0,-886.677,-81.5828,-886.376 1/1:106:0,105,0:0:0:105,0:3767,0:-338.07,-31.6082,0,-338.07,-31.6082,-338.07 1/1:139:0,136,2:0:0:136,2:4839,72:-434.904,-40.9401,0,-431.753,-37.8429,-431.151 1/2:110:0,43,66:0:0:43,66:1544,2327:-230.627,-104.74,-91.7956,-125.862,0,-105.994 1/2:56:0,44,12:0:0:44,12:1584,430:-149.643,-20.4115,-7.16621,-129.482,0,-125.87 1/1:77:0,77,0:0:0:77,0:2764,0:-248.758,-23.1793,0,-248.758,-23.1793,-248.758 1/1:66:0,66,0:0:0:66,0:2372,0:-210.778,-19.868,0,-210.778,-19.868,-210.778 chr10 3577516 . C T 3136.43 PASS AB=0.484822;ABP=5.31737;AC=11;AF=0.261905;AN=42;AO=701;CIGAR=1X;DP=2408;DPB=2408;DPRA=2.08925;EPP=1525.21;EPPR=3707.54;GTI=2;LEN=1;MEANALT=1.07143;MQM=21.1826;MQMR=53.9103;NS=21;NUMALT=1;ODDS=1.0645;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25154;QR=60874;RO=1706;RPL=701;RPP=1525.21;RPPR=3707.54;RPR=0;RUN=1;SAF=701;SAP=1525.21;SAR=0;SRF=1706;SRP=3707.54;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:167:164,3:164:5843:3:108:0,-44.4296,-519.391 0/0:57:57,0:57:2010:0:0:0,-17.1587,-178.872 0/0:109:109,0:109:3892:0:0:0,-32.8123,-349.435 0/1:153:70,83:70:2495:83:2980:-109.983,0,-178.479 0/1:309:174,135:174:6201:135:4827:-161.717,0,-464.501 0/0:63:61,2:61:2196:2:72:0,-15.0004,-191.267 0/1:175:90,85:90:3206:85:3051:-107.924,0,-231.975 1/1:135:1,134:1:36:134:4824:-247.454,-37.0434,0 0/1:99:56,42:56:2004:42:1508:-49.2273,0,-149.727 0/1:16:9,7:9:320:7:252:-8.53766,0,-24.306 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.3142 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.069 0/1:136:70,66:70:2499:66:2372:-83.1941,0,-183.662 0/1:100:35,65:35:1251:65:2332:-95.7602,0,-82.7081 0/0:284:283,1:283:10111:1:36:0,-83.4059,-907.07 0/0:103:103,0:103:3672:0:0:0,-31.0061,-329.838 0/0:141:139,2:139:4950:2:72:0,-38.4807,-440.962 0/1:109:45,64:45:1607:64:2292:-88.8076,0,-111.771 0/1:56:44,12:44:1580:12:428:-7.15466,0,-125.511 0/0:80:80,0:80:2837:0:0:0,-24.0824,-255.272 0/0:66:66,0:66:2372:0:0:0,-19.868,-210.778 chr10 3577635 . CCCG ACCA,CCCA 75716.8 PASS AB=0.532872,0.465398;ABP=19.2851,21.0433;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2651,932;CIGAR=1X2M1X,3M1X;DP=3599;DPB=3599.25;DPRA=1.475,1.4246;EPP=5759.58,2026.82;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.35,2.35714;MQM=59.7416,59.8981;MQMR=0;NS=21;NUMALT=2;ODDS=16.9364;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=93373,32968;QR=0;RO=0;RPL=2651,932;RPP=5759.58,2026.82;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5759.58,2026.82;SAR=2651,932;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:224:0,222,2:0:0:222,2:7792,72:-700.923,-66.8287,0,-695.049,-60.594,-694.446 1/1:171:0,167,0:0:0:167,0:5887,0:-529.528,-50.272,0,-529.528,-50.272,-529.528 1/1:203:0,203,0:0:0:203,0:7175,0:-645.122,-61.1091,0,-645.122,-61.1091,-645.122 1/2:157:0,101,56:0:0:101,56:3549,1977:-450.205,-161.345,-130.941,-289.212,0,-272.355 1/2:360:0,203,157:0:0:203,157:7102,5545:-1029.58,-451.797,-390.688,-578.13,0,-530.869 1/1:212:0,209,1:0:0:209,1:7372,36:-663.13,-62.9153,0,-660.193,-59.9679,-659.892 1/2:216:0,107,108:0:0:107,108:3767,3864:-621.746,-315.193,-282.983,-306.656,0,-274.144 2/2:118:0,0,118:0:0:0,118:0,4167:-375.205,-375.205,-375.205,-35.5215,-35.5215,0 1/2:342:0,201,140:0:0:201,140:7055,4944:-975.915,-401.83,-341.323,-574.077,0,-531.933 1/2:15:0,6,9:0:0:6,9:208,324:-43.6976,-26.7966,-24.9904,-17.2528,0,-14.5436 1/1:12:0,11,0:0:0:11,0:390,0:-35.0758,-3.31133,0,-35.0758,-3.31133,-35.0758 1/1:82:0,81,0:0:0:81,0:2885,0:-259.496,-24.3834,0,-259.496,-24.3834,-259.496 1/2:309:0,148,161:0:0:148,161:5192,5691:-886.365,-463.843,-419.29,-422.874,0,-374.408 1/2:217:0,100,117:0:0:100,117:3504,4130:-621.161,-336.305,-306.202,-284.847,0,-249.626 1/1:324:0,321,0:0:0:321,0:11400,0:-1025.53,-96.6306,0,-1025.53,-96.6306,-1025.53 1/1:102:0,101,0:0:0:101,0:3577,0:-321.567,-30.404,0,-321.567,-30.404,-321.567 1/1:135:0,134,1:0:0:134,1:4704,36:-423.14,-40.338,0,-420.202,-37.0408,-419.901 1/2:53:0,14,38:0:0:14,38:504,1341:-150.157,-109.032,-104.817,-41.1238,0,-29.6847 1/2:65:0,44,21:0:0:44,21:1537,733:-184.993,-59.968,-46.7227,-125.374,0,-119.052 1/1:241:0,237,3:0:0:237,3:8324,108:-748.538,-71.3441,0,-739.725,-62.5319,-738.822 1/1:41:0,41,0:0:0:41,0:1449,0:-130.705,-12.3422,0,-130.705,-12.3422,-130.705 chr10 3632364 . TG AA,TA 13461.3 PASS AB=0.822674,0.174419;ABP=314.112,319.742;AC=32,10;AF=0.761905,0.238095;AN=42;AO=819,78;CIGAR=2X,1M1X;DP=900;DPB=900;DPRA=2.7625,0.837378;EPP=1781.45,8.46682;EPPR=0;GTI=5;LEN=2,1;MEANALT=1.6,2;MQM=28.2808,59.7436;MQMR=0;NS=21;NUMALT=2;ODDS=2.99546;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28864,2804;QR=0;RO=0;RPL=819,78;RPP=1781.45,172.385;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,32;SAP=1781.45,8.46682;SAR=819,46;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,57,0:0:0:57,0:1985,0:-135.647,-17.1587,0,-135.647,-17.1587,-135.647 1/1:32:0,32,0:0:0:32,0:1144,0:-73.8655,-9.63296,0,-73.8655,-9.63296,-73.8655 1/1:69:0,69,0:0:0:69,0:2441,0:-167.16,-20.7711,0,-167.16,-20.7711,-167.16 1/1:29:0,27,2:0:0:27,2:944,72:-66.6026,-8.12781,0,-60.7218,-1.89315,-60.1198 1/2:53:0,46,7:0:0:46,7:1617,252:-121.763,-20.9217,-7.07437,-101.191,0,-99.0834 1/1:51:0,51,0:0:0:51,0:1781,0:-117.61,-15.3525,0,-117.61,-15.3525,-117.61 1/2:45:0,36,9:0:0:36,9:1253,324:-97.5823,-26.7966,-15.9595,-71.1241,0,-68.4148 2/2:16:0,0,16:0:0:0,16:0,572:-51.8134,-51.8134,-51.8134,-4.81648,-4.81648,0 1/2:69:0,62,7:0:0:62,7:2209,252:-169.273,-20.9217,-2.25789,-148.705,0,-146.598 1/2:5:0,4,1:0:0:4,1:144,36:-11.7422,-3.15346,-1.94934,-8.91983,0,-8.6188 1/1:6:0,6,0:0:0:6,0:208,0:-13.9164,-1.80618,0,-13.9164,-1.80618,-13.9164 1/1:31:0,31,0:0:0:31,0:1089,0:-75.7465,-9.33193,0,-75.7465,-9.33193,-75.7465 1/2:52:0,47,5:0:0:47,5:1640,180:-113.138,-15.0469,-0.898505,-98.4422,0,-96.9371 1/2:37:0,33,4:0:0:33,4:1153,144:-82.2128,-12.1095,-2.17551,-70.4534,0,-69.2492 1/1:139:0,138,0:0:0:138,0:4878,0:-326,-41.5421,0,-326,-41.5421,-326 1/1:19:0,19,0:0:0:19,0:669,0:-50.4305,-5.71957,0,-50.4305,-5.71957,-50.4305 1/1:27:0,27,0:0:0:27,0:948,0:-73.2723,-8.12781,0,-73.2723,-8.12781,-73.2723 1/2:46:0,25,20:0:0:25,20:889,720:-112.5,-58.8474,-51.3216,-53.7133,0,-47.6927 1/2:37:0,30,7:0:0:30,7:1069,252:-86.1914,-20.9217,-11.8908,-65.6135,0,-63.5063 1/1:50:0,50,0:0:0:50,0:1781,0:-122.478,-15.0515,0,-122.478,-15.0515,-122.478 1/1:29:0,29,0:0:0:29,0:1022,0:-66.4744,-8.72987,0,-66.4744,-8.72987,-66.4744 chr10 3637731 . A G 36795.2 PASS AB=0.506562;ABP=3.43776;AC=30;AF=0.714286;AN=42;AO=1793;CIGAR=1X;DP=2881;DPB=2881;DPRA=1.64471;EPP=3896.46;EPPR=2365.57;GTI=1;LEN=1;MEANALT=1;MQM=59.9755;MQMR=59.9311;NS=21;NUMALT=1;ODDS=4.72627;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63357;QR=38580;RO=1088;RPL=0;RPP=3896.46;RPPR=2365.57;RPR=1793;RUN=1;SAF=0;SAP=3896.46;SAR=1793;SRF=0;SRP=2365.57;SRR=1088;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:0,114:0:0:114:4011:-361.18,-34.3174,0 1/1:91:0,91:0:0:91:3205:-288.675,-27.3937,0 1/1:79:0,79:0:0:79:2824:-254.399,-23.7814,0 0/1:61:26,35:26:924:35:1240:-93.5416,0,-65.1148 0/1:189:111,78:111:3943:78:2787:-194.176,0,-298.167 1/1:121:0,121:0:0:121:4292:-386.459,-36.4246,0 0/1:109:49,60:49:1740:60:2122:-158.435,0,-124.072 0/0:85:85,0:85:3017:0:0:0,-25.5875,-271.761 0/1:176:76,100:76:2707:100:3512:-262.286,0,-190.893 0/0:441:436,5:436:15403:5:180:0,-116.202,-1368.95 1/1:316:2,314:2:72:314:11103:-992.337,-88.2888,0 1/1:91:0,91:0:0:91:3227:-290.654,-27.3937,0 0/1:89:53,36:53:1875:36:1253:-86.2765,0,-142.237 0/1:103:51,52:51:1809:52:1833:-134.243,0,-131.06 1/1:124:0,124:0:0:124:4390:-395.277,-37.3277,0 1/1:105:1,104:1:36:104:3689:-328.615,-28.0099,0 1/1:75:0,75:0:0:75:2629:-236.855,-22.5773,0 0/1:354:178,176:178:6334:176:6147:-446.776,0,-463.588 0/1:62:20,42:20:720:42:1496:-116.271,0,-46.4649 1/1:68:0,68:0:0:68:2422:-218.235,-20.47,0 1/1:28:0,28:0:0:28:995:-89.864,-8.42884,0 chr10 3637773 . C T 38464.5 PASS AB=0.510363;ABP=4.09041;AC=30;AF=0.714286;AN=42;AO=1813;CIGAR=1X;DP=2900;DPB=2900;DPRA=1.63605;EPP=3836.35;EPPR=2234.91;GTI=1;LEN=1;MEANALT=1;MQM=59.9917;MQMR=59.9678;NS=21;NUMALT=1;ODDS=1.88875;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64776;QR=38708;RO=1087;RPL=1801;RPP=3836.35;RPPR=2234.91;RPR=12;RUN=1;SAF=0;SAP=3939.89;SAR=1813;SRF=0;SRP=2363.4;SRR=1087;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,112:0:0:112:4001:-360.279,-33.7154,0 1/1:92:0,92:0:0:92:3280:-295.421,-27.6948,0 1/1:75:0,75:0:0:75:2654:-239.104,-22.5773,0 0/1:62:26,36:26:898:36:1281:-96.9274,0,-62.4659 0/1:186:106,80:106:3770:80:2861:-201.734,0,-283.506 1/1:119:0,119:0:0:119:4264:-383.938,-35.8226,0 0/1:113:51,62:51:1815:62:2216:-165.688,0,-129.614 0/0:86:86,0:86:3030:0:0:0,-25.8886,-272.93 0/1:172:73,99:73:2605:99:3548:-267.75,0,-182.92 0/0:436:431,5:431:15429:5:180:0,-114.697,-1371.76 1/1:316:2,314:2:72:314:11225:-1003.29,-88.2888,0 1/1:93:0,93:0:0:93:3324:-299.378,-27.9958,0 0/1:89:53,36:53:1888:36:1292:-89.7921,0,-143.407 0/1:105:50,55:50:1739:55:1972:-146.147,0,-125.05 1/1:130:0,130:0:0:130:4605:-414.617,-39.1339,0 1/1:107:1,106:1:36:106:3792:-337.88,-28.6119,0 1/1:77:0,77:0:0:77:2752:-247.922,-23.1793,0 0/1:367:185,182:185:6615:182:6517:-476.134,0,-484.952 0/1:64:23,41:23:811:41:1476:-113.87,0,-54.044 1/1:68:0,68:0:0:68:2428:-218.775,-20.47,0 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 chr10 3638037 . T C 53633 PASS AB=0.579122;ABP=84.7928;AC=31;AF=0.738095;AN=42;AO=2023;CIGAR=1X;DP=2768;DPB=2768;DPRA=1.24346;EPP=27.4847;EPPR=6.18444;GTI=0;LEN=1;MEANALT=1;MQM=54.7133;MQMR=53.5195;NS=21;NUMALT=1;ODDS=10.362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71924;QR=26518;RO=745;RPL=4;RPP=4361.22;RPPR=1603.43;RPR=2019;RUN=1;SAF=940;SAP=24.9601;SAR=1083;SRF=358;SRP=5.46159;SRR=387;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:0,139:0:0:139:4942:-444.49,-41.8432,0 1/1:145:1,144:1:36:144:5109:-454.823,-40.0907,0 1/1:66:1,65:1:36:65:2336:-206.287,-16.2697,0 0/1:158:60,98:60:2148:98:3478:-263.429,0,-144.599 0/1:197:79,118:79:2796:118:4195:-317.053,0,-191.593 1/1:130:0,130:0:0:130:4610:-414.003,-39.1339,0 0/1:189:93,96:93:3319:96:3410:-249.693,0,-237.536 0/0:107:107,0:107:3808:0:0:0,-32.2102,-341.2 0/1:165:72,93:72:2568:93:3279:-245.127,0,-181.129 0/1:12:9,3:9:324:3:108:-6.4518,0,-25.803 1/1:8:0,8:0:0:8:280:-25.4066,-2.40824,0 1/1:41:0,41:0:0:41:1468:-132.135,-12.3422,0 0/1:133:53,80:53:1896:80:2847:-215.38,0,-130.102 0/1:127:55,72:55:1945:72:2545:-190.385,0,-136.292 1/1:146:0,146:0:0:146:5177:-464.086,-43.9504,0 1/1:76:2,74:2:72:74:2634:-229.974,-16.0416,0 1/1:77:0,77:0:0:77:2747:-246.884,-23.1793,0 0/1:219:112,107:112:4004:107:3819:-277.653,0,-292.549 0/1:304:100,204:100:3530:204:7242:-557.607,0,-224.844 1/1:194:1,193:1:36:193:6867:-612.747,-54.8015,0 1/1:135:0,135:0:0:135:4831:-434.173,-40.6391,0 chr10 3638040 . C T 17231.8 PASS AB=0.424693;ABP=79.214;AC=11;AF=0.261905;AN=42;AO=767;CIGAR=1X;DP=2813;DPB=2813;DPRA=1.7176;EPP=20.6793;EPPR=35.5611;GTI=0;LEN=1;MEANALT=1.15385;MQM=53.2634;MQMR=54.7127;NS=21;NUMALT=1;ODDS=8.92956;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27306;QR=72721;RO=2043;RPL=4;RPP=1633.97;RPPR=4370.11;RPR=763;RUN=1;SAF=348;SAP=17.282;SAR=419;SRF=942;SRP=29.8811;SRR=1101;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:141:141,0:141:5013:0:0:0,-42.4452,-450.859 0/0:143:142,1:142:5075:1:36:0,-39.4887,-451.926 0/0:66:66,0:66:2368:0:0:0,-19.868,-212.815 0/1:165:101,62:101:3594:62:2184:-146.21,0,-271.981 0/1:202:118,84:118:4211:84:2977:-206.427,0,-316.939 0/0:128:128,0:128:4545:0:0:0,-38.5318,-408.147 0/1:196:102,94:102:3631:94:3351:-238.71,0,-267.459 1/1:107:0,107:0:0:107:3816:-341.785,-32.2102,0 0/1:168:93,75:93:3307:75:2664:-188.415,0,-246.696 0/1:13:3,10:3:108:10:351:-27.9287,0,-6.15077 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.6665 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.134 0/1:139:81,58:81:2886:58:2063:-143.264,0,-216.847 0/1:127:74,53:74:2615:53:1884:-130.896,0,-196.12 0/0:144:144,0:144:5168:0:0:0,-43.3483,-463.424 0/0:77:76,1:76:2692:1:36:0,-19.581,-238.416 0/0:77:77,0:77:2702:0:0:0,-23.1793,-242.849 0/1:222:109,113:109:3875:113:4032:-294.034,0,-281.785 0/1:315:207,108:207:7364:108:3876:-252.434,0,-565.272 0/0:197:195,1:195:6940:1:36:0,-55.7719,-619.231 0/0:137:137,0:137:4875:0:0:0,-41.2411,-438.089 chr10 3638067 . T A,C 78325.1 PASS AB=0.565305,0.433356;ABP=58.3152,60.6074;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1950,760;CIGAR=1X,1X;DP=2713;DPB=2713;DPRA=1.18318,1.73939;EPP=680.51,173.117;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=1.65,2;MQM=54.4385,53.2474;MQMR=60;NS=21;NUMALT=2;ODDS=6.48919;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68933,26744;QR=72;RO=2;RPL=1434,597;RPP=941.447,541.181;RPPR=7.35324;RPR=516,163;RUN=1,1;SAF=849,339;SAP=73.7268,22.2221;SAR=1101,421;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:134:0,134,0:0:0:134,0:4751,0:-427.134,-40.338,0,-427.134,-40.338,-427.134 1/1:138:0,137,1:0:0:137,1:4877,36:-437.131,-41.2411,0,-434.229,-37.9835,-433.928 1/1:66:0,66,0:0:0:66,0:2318,0:-208.329,-19.868,0,-208.329,-19.868,-208.329 1/2:160:0,99,61:0:0:99,61:3530,2165:-460.588,-175.287,-145.485,-285.653,0,-267.291 1/2:196:0,114,82:0:0:114,82:4037,2900:-562.41,-235.537,-201.219,-327.226,0,-302.541 1/1:120:0,120,0:0:0:120,0:4268,0:-383.121,-36.1236,0,-383.121,-36.1236,-383.121 1/2:188:0,97,91:0:0:97,91:3422,3177:-532.577,-254.416,-225.217,-278.508,0,-251.114 2/2:110:0,0,110:0:0:0,110:0,3841:-344.146,-344.146,-344.146,-33.1133,-33.1133,0 1/2:160:0,85,75:0:0:85,75:3032,2639:-460.969,-214.388,-188.801,-246.934,0,-224.357 1/2:12:0,3,9:0:0:3,9:108,324:-35.5079,-26.7061,-25.803,-9.16107,0,-6.4518 1/1:8:0,8,0:0:0:8,0:279,0:-25.368,-2.40824,0,-25.368,-2.40824,-25.368 1/1:40:0,40,0:0:0:40,0:1423,0:-128.087,-12.0412,0,-128.087,-12.0412,-128.087 1/2:135:0,78,57:0:0:78,57:2752,2025:-387.531,-164.52,-141.04,-223.363,0,-206.204 1/2:126:0,71,55:0:0:71,55:2462,1951:-357.44,-158.453,-137.079,-199.337,0,-182.78 1/1:136:0,136,0:0:0:136,0:4811,0:-431.892,-40.9401,0,-431.892,-40.9401,-431.892 1/1:74:0,73,1:0:0:73,1:2583,32:-231.884,-21.9752,0,-229.306,-19.0769,-229.005 1/1:75:0,75,0:0:0:75,0:2632,0:-236.551,-22.5773,0,-236.551,-22.5773,-236.551 1/2:215:1,103,110:1:36:103,110:3611,3844:-600.604,-307.396,-279.327,-290.604,0,-260.429 1/2:301:0,194,107:0:0:194,107:6842,3774:-860.388,-306.413,-248.013,-554.326,0,-522.116 1/1:189:0,188,1:0:0:188,1:6642,36:-595.856,-56.5936,0,-592.941,-53.3212,-592.64 1/1:130:1,129,0:1:36:129,0:4553,0:-405.343,-35.5356,0,-405.644,-38.8329,-408.582 chr10 3761886 . CTC ATA 15368.9 PASS AB=0.556541;ABP=40.5801;AC=11;AF=0.261905;AN=42;AO=875;CIGAR=1X1M1X;DP=2431;DPB=2431;DPRA=1.66163;EPP=1903.05;EPPR=3375.31;GTI=1;LEN=3;MEANALT=1.23077;MQM=50.0937;MQMR=59.9781;NS=21;NUMALT=1;ODDS=0.502216;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31160;QR=54717;RO=1553;RPL=0;RPP=1903.05;RPPR=3375.31;RPR=875;RUN=1;SAF=875;SAP=1903.05;SAR=0;SRF=1553;SRP=3375.31;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:92:91,1:91:3227:1:36:0,-24.1083,-287.067 0/0:105:103,1:103:3640:1:36:0,-28.0023,-324.291 0/0:107:104,3:104:3600:3:108:0,-22.1681,-314.166 0/1:213:88,125:88:3085:125:4459:-334.005,0,-213.758 0/1:255:102,153:102:3626:153:5440:-407.108,0,-249.785 0/0:109:109,0:109:3817:0:0:0,-32.8123,-343.642 0/1:165:54,111:54:1909:111:3938:-302.084,0,-122.416 1/1:117:0,117:0:0:117:4145:-370.972,-35.2205,0 0/1:221:101,120:101:3528:120:4274:-313.451,0,-251.2 0/1:13:5,8:5:176:8:286:-21.9825,0,-12.2718 0/0:7:7,0:7:244:0:0:0,-2.10721,-22.2989 0/0:45:45,0:45:1597:0:0:0,-13.5463,-144.02 0/1:194:77,115:77:2705:115:4106:-309.606,0,-185.538 0/1:147:72,75:72:2540:75:2683:-195.537,0,-184.6 0/0:165:165,0:165:5822:0:0:0,-49.6699,-524.1 0/0:47:47,0:47:1660:0:0:0,-14.1484,-149.687 0/0:103:103,0:103:3654:0:0:0,-31.0061,-329.065 0/1:84:57,27:57:2010:27:970:-61.9158,0,-155.887 0/1:61:42,19:42:1483:19:679:-42.8804,0,-115.4 0/0:121:121,0:121:4298:0:0:0,-36.4246,-386.998 0/0:60:60,0:60:2096:0:0:0,-18.0618,-188.908 chr10 3761916 . CCGACGAT CCGAT 12761 PASS AB=0.524073;ABP=9.38761;AC=11;AF=0.261905;AN=42;AO=768;CIGAR=1M3D4M;DP=2328;DPB=2037.75;DPRA=1.63187;EPP=1627.55;EPPR=3297.49;GTI=1;LEN=3;MEANALT=1.64286;MQM=50.4896;MQMR=59.9781;NS=21;NUMALT=1;ODDS=7.41737;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26421;QR=53903;RO=1549;RPL=763;RPP=1627.55;RPPR=3297.49;RPR=5;RUN=1;SAF=768;SAP=1670.7;SAR=0;SRF=1549;SRP=3366.62;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:93:92,1:92:3209:1:36:0,-24.4093,-285.452 0/0:107:106,1:106:3707:1:36:0,-28.621,-330.25 0/0:107:104,3:104:3577:3:104:0,-22.5338,-312.47 0/1:202:87,114:87:3023:114:3924:-290.556,0,-211.568 0/1:238:103,133:103:3618:133:4533:-334.237,0,-254.493 0/0:109:107,1:107:3720:1:36:0,-29.2728,-331.22 0/1:150:53,95:53:1839:95:3259:-247.072,0,-120.887 1/1:99:0,98:0:0:98:3406:-305.198,-29.5009,0 0/1:200:100,99:100:3481:99:3386:-243.083,0,-253.328 0/1:12:5,7:5:166:7:235:-17.7398,0,-11.6544 0/0:7:7,0:7:245:0:0:0,-2.10721,-22.3909 0/0:45:45,0:45:1585:0:0:0,-13.5463,-142.941 0/1:182:78,104:78:2735:104:3643:-271.72,0,-191.608 0/1:142:71,70:71:2470:70:2415:-173.905,0,-179.772 0/0:165:164,0:164:5708:0:0:0,-49.3689,-513.496 0/0:45:45,0:45:1553:0:0:0,-13.5463,-140.059 0/0:102:101,0:101:3555:0:0:0,-30.404,-319.805 0/1:81:57,24:57:1948:24:807:-48.4011,0,-151.212 0/1:60:42,18:42:1448:18:601:-36.2122,0,-112.55 0/0:121:121,0:121:4232:0:0:0,-36.4246,-381.072 0/0:61:61,0:61:2084:0:0:0,-18.3628,-187.83 chr10 3765849 . TT TC,CC 72551.7 PASS AB=0.488359,0.507567;ABP=5.03263,3.86473;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2467,1007;CIGAR=1M1X,2X;DP=3481;DPB=3481.5;DPRA=0,1.81449;EPP=5360.03,2181.01;EPPR=0;GTI=0;LEN=1,2;MEANALT=2,2.5;MQM=59.9501,59.4846;MQMR=0;NS=21;NUMALT=2;ODDS=2.7513;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=86933,34649;QR=0;RO=0;RPL=2467,1007;RPP=5360.03,2189.68;RPPR=0;RPR=0,0;RUN=1,1;SAF=2467,1006;SAP=5360.03,2181.01;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:212:0,211,1:0:0:211,1:7458,36:-670.864,-63.5173,0,-667.927,-60.2201,-667.626 1/1:152:0,152,0:0:0:152,0:5395,0:-485.684,-45.7566,0,-485.684,-45.7566,-485.684 1/1:133:0,133,0:0:0:133,0:4709,0:-423.966,-40.037,0,-423.966,-40.037,-423.966 1/2:222:0,103,118:0:0:103,118:3604,4073:-624.155,-330.94,-299.934,-293.311,0,-257.789 1/2:458:0,238,219:0:0:238,219:8401,7650:-1306.2,-622.095,-550.45,-684.1,0,-618.174 1/1:321:0,320,1:0:0:320,1:11323,34:-1018.62,-96.3296,0,-1015.86,-93.2317,-1015.56 1/2:319:0,146,171:0:0:146,171:5054,5821:-882.807,-472.089,-428.138,-410.756,0,-359.28 2/2:132:0,2,130:0:0:2,130:63,4490:-403.904,-398.838,-398.236,-39.1339,-33.7528,0 1/2:280:0,131,148:0:0:131,148:4663,5056:-790.329,-410.279,-370.844,-380.088,0,-335.536 1/2:24:0,10,14:0:0:10,14:356,469:-67.3337,-38.3098,-35.2995,-29.3709,0,-25.1565 1/1:9:0,9,0:0:0:9,0:316,0:-28.7783,-2.70927,0,-28.7783,-2.70927,-28.7783 1/1:29:0,29,0:0:0:29,0:1028,0:-92.833,-8.72987,0,-92.833,-8.72987,-92.833 1/2:195:0,102,92:0:0:102,92:3593,3203:-552.753,-260.231,-229.526,-292.64,0,-264.945 1/2:174:0,76,97:0:0:76,97:2665,3293:-483.897,-267.024,-244.146,-216.859,0,-187.659 1/1:250:0,250,0:0:0:250,0:8856,0:-796.399,-75.2575,0,-796.399,-75.2575,-796.399 1/1:146:0,146,0:0:0:146,0:5149,0:-463.553,-43.9504,0,-463.553,-43.9504,-463.553 1/1:178:0,176,2:0:0:176,2:6126,67:-551.11,-52.9813,0,-545.684,-47.2205,-545.082 1/2:16:0,11,5:0:0:11,5:384,167:-45.0977,-13.853,-10.5416,-31.5833,0,-30.0782 1/2:30:0,22,8:0:0:22,8:780,254:-84.3168,-20.7435,-14.1208,-63.9004,0,-61.4921 1/1:168:0,167,1:0:0:167,1:5870,36:-528.057,-50.272,0,-525.119,-46.9748,-524.818 1/1:33:0,33,0:0:0:33,0:1140,0:-102.902,-9.93399,0,-102.902,-9.93399,-102.902 chr10 3765925 . ATC ATT,CTT 54064 PASS AB=0.460768,0.538397;ABP=19.0263,18.352;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1750,767;CIGAR=2M1X,1X1M1X;DP=2519;DPB=2519;DPRA=1.0265,1.07832;EPP=3803.09,1668.53;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.75,2;MQM=59.6183,54.5854;MQMR=0;NS=21;NUMALT=2;ODDS=4.69145;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62704,27076;QR=0;RO=0;RPL=0,0;RPP=3803.09,1668.53;RPPR=0;RPR=1750,767;RUN=1,1;SAF=0,0;SAP=3803.09,1668.53;SAR=1750,767;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:45:0,44,1:0:0:44,1:1572,36:-140.635,-13.2453,0,-137.706,-9.95712,-137.405 1/1:123:0,122,0:0:0:122,0:4380,0:-393.666,-36.7257,0,-393.666,-36.7257,-393.666 1/1:182:0,181,1:0:0:181,1:6508,36:-585.345,-54.4864,0,-582.41,-51.1918,-582.109 1/2:123:0,60,63:0:0:60,63:2156,2217:-356.22,-180.359,-162.297,-176.216,0,-157.251 1/2:316:0,149,166:0:0:149,166:5320,5871:-911.064,-477.612,-432.758,-433.576,0,-383.605 1/1:124:0,124,0:0:0:124,0:4444,0:-400.035,-37.3277,0,-400.035,-37.3277,-400.035 1/2:186:0,104,82:0:0:104,82:3712,2889:-536.585,-234.096,-202.788,-302.843,0,-278.158 2/2:117:0,0,117:0:0:0,117:0,4124:-369.997,-369.997,-369.997,-35.2205,-35.2205,0 1/2:229:0,102,127:0:0:102,127:3662,4482:-663.8,-365.088,-334.382,-299.068,0,-260.837 1/2:12:0,3,9:0:0:3,9:108,313:-34.5757,-25.7602,-24.8572,-9.17208,0,-6.46281 1/2:10:0,9,1:0:0:9,1:324,36:-29.4857,-3.08657,-0.3773,-26.74,0,-26.4389 1/1:31:0,31,0:0:0:31,0:1108,0:-100.031,-9.33193,0,-100.031,-9.33193,-100.031 1/2:106:0,51,55:0:0:51,55:1828,1947:-307.695,-158.63,-143.278,-149.42,0,-132.864 1/2:150:0,49,101:0:0:49,101:1748,3570:-432.802,-290.305,-275.554,-142.852,0,-112.448 1/1:223:0,223,0:0:0:223,0:7977,0:-717.765,-67.1297,0,-717.765,-67.1297,-717.765 1/1:159:0,159,0:0:0:159,0:5693,0:-512.402,-47.8638,0,-512.402,-47.8638,-512.402 1/1:179:0,176,3:0:0:176,3:6312,108:-567.796,-52.9813,0,-559,-43.8253,-558.096 1/2:43:0,15,28:0:0:15,28:540,998:-125.357,-81.3021,-76.7867,-44.4129,0,-35.984 1/2:23:0,10,13:0:0:10,13:360,449:-66.1738,-36.7932,-33.7829,-29.734,0,-25.8206 1/1:107:0,107,0:0:0:107,0:3840,0:-345.763,-32.2102,0,-345.763,-32.2102,-345.763 1/1:31:0,31,0:0:0:31,0:1112,0:-100.374,-9.33193,0,-100.374,-9.33193,-100.374 chr10 3864271 . T A 40547.8 PASS AB=0.53986;ABP=22.7449;AC=31;AF=0.738095;AN=42;AO=1971;CIGAR=1X;DP=2686;DPB=2686;DPRA=2.48396;EPP=4282.98;EPPR=1549.1;GTI=0;LEN=1;MEANALT=1.1;MQM=59.7509;MQMR=59.4677;NS=21;NUMALT=1;ODDS=14.9071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69922;QR=25504;RO=712;RPL=0;RPP=4282.98;RPPR=1549.1;RPR=1971;RUN=1;SAF=0;SAP=4282.98;SAR=1971;SRF=0;SRP=1549.1;SRR=712;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,159:0:0:159:5693:-512.384,-47.8638,0 1/1:97:0,97:0:0:97:3432:-309.073,-29.1999,0 1/1:161:1,160:1:32:160:5678:-507.93,-45.2665,0 0/1:107:59,48:59:2120:48:1703:-121.343,0,-158.097 0/1:316:140,176:140:4997:176:6250:-467.371,0,-354.532 1/1:105:0,105:0:0:105:3751:-337.617,-31.6082,0 0/1:171:71,100:71:2543:100:3531:-266.508,0,-177.256 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.269 0/1:246:114,132:114:4085:132:4670:-346.408,0,-293.712 0/1:20:7,13:7:248:13:460:-35.2212,0,-16.6436 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:52:0,52:0:0:52:1868:-168.399,-15.6536,0 0/1:107:55,51:55:1980:51:1794:-129.472,0,-146.176 0/1:141:64,75:64:2292:75:2653:-196.794,0,-164.323 1/1:132:1,131:1:36:131:4648:-414.879,-36.1377,0 1/1:112:0,112:0:0:112:3988:-359.106,-33.7154,0 1/1:142:0,142:0:0:142:5056:-455.091,-42.7463,0 0/1:221:110,111:110:3952:111:3932:-287.448,0,-289.324 0/1:101:35,66:35:1243:66:2326:-179.174,0,-81.7555 1/1:141:1,140:1:36:140:4913:-438.711,-38.847,0 1/1:89:1,88:1:36:88:3108:-276.329,-23.1934,0 chr10 3864291 . ATAG ATAC,GTAC 57264.6 PASS AB=0.539792,0.457439;ABP=22.8842,25.7454;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1981,719;CIGAR=3M1X,1X2M1X;DP=2711;DPB=2711;DPRA=2.41455,1.54564;EPP=4304.7,1546.98;EPPR=11.6962;GTI=0;LEN=1,4;MEANALT=1.95,2.30769;MQM=59.7713,59.3825;MQMR=60;NS=21;NUMALT=2;ODDS=14.5389;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70717,25113;QR=132;RO=4;RPL=0,2;RPP=4304.7,1546.98;RPPR=11.6962;RPR=1981,717;RUN=1,1;SAF=0,0;SAP=4304.7,1564.3;SAR=1981,719;SRF=0;SRP=11.6962;SRR=4;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:161:0,161,0:0:0:161,0:5733,0:-515.967,-48.4658,0,-515.967,-48.4658,-515.967 1/1:96:1,95,0:1:30:95,0:3384,0:-301.76,-25.8993,0,-302.061,-28.5979,-304.459 1/1:163:0,160,1:0:0:160,1:5738,36:-516.231,-48.1648,0,-513.294,-45.1924,-512.992 1/2:108:0,49,58:0:0:49,58:1760,2022:-307.886,-164.309,-149.559,-143.571,0,-126.112 1/2:324:0,183,141:0:0:183,141:6541,4937:-935.045,-401.816,-346.728,-533.581,0,-491.136 1/1:106:0,105,0:0:0:105,0:3760,0:-338.209,-31.6082,0,-338.209,-31.6082,-338.209 1/2:172:0,101,71:0:0:101,71:3597,2465:-493.786,-200.612,-170.208,-293.524,0,-272.151 2/2:55:0,0,55:0:0:0,55:0,1914:-172.035,-172.035,-172.035,-16.5567,-16.5567,0 1/2:250:0,132,116:0:0:132,116:4703,4057:-713.425,-330.097,-290.361,-383.38,0,-348.46 1/2:18:0,11,7:0:0:11,7:383,245:-51.4258,-20.283,-16.9717,-31.4919,0,-29.3847 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/1:52:0,52,0:0:0:52,0:1864,0:-168.039,-15.6536,0,-168.039,-15.6536,-168.039 1/2:108:0,51,57:0:0:51,57:1824,1988:-310.578,-161.843,-146.49,-149.089,0,-131.93 1/2:142:0,76,66:0:0:76,66:2665,2299:-404.08,-187.29,-164.411,-217.14,0,-197.272 1/1:135:0,134,1:0:0:134,1:4799,30:-431.762,-40.338,0,-429.364,-37.6395,-429.063 1/1:112:0,111,0:0:0:111,0:3980,0:-358.026,-33.4143,0,-358.026,-33.4143,-358.026 1/1:143:1,142,0:1:30:142,0:5056,0:-452.09,-40.0477,0,-452.391,-42.7463,-454.789 1/2:221:0,110,111:0:0:110,111:3923,3885:-636.139,-316.418,-283.305,-320.074,0,-286.659 1/2:102:1,67,34:1:36:67,34:2395,1199:-289.63,-94.668,-77.4366,-192.32,0,-185.023 1/1:141:1,139,1:1:36:139,1:4972,36:-443.985,-38.9058,0,-441.349,-38.9058,-443.985 1/1:89:0,89,0:0:0:89,0:3172,0:-285.684,-26.7917,0,-285.684,-26.7917,-285.684 chr10 3865443 . TACCGCCA TACTGCCT,CACTGCCT 27260.6 PASS AB=0.536256,0.453626;ABP=9.78105,14.0874;AC=31,11;AF=0.738095,0.261905;AN=42;AO=923,346;CIGAR=3M1X3M1X,1X2M1X3M1X;DP=1280;DPB=1280;DPRA=0.826712,1.28267;EPP=1964.09,745.679;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.15,2.53846;MQM=59.9718,59.9653;MQMR=0;NS=21;NUMALT=2;ODDS=3.83755;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32720,12238;QR=0;RO=0;RPL=918,345;RPP=1964.09,745.679;RPPR=0;RPR=5,1;RUN=1,1;SAF=0,0;SAP=2007.28,754.34;SAR=923,346;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,87,0:0:0:87,0:3061,0:-275.4,-26.1896,0,-275.4,-26.1896,-275.4 1/1:50:0,50,0:0:0:50,0:1774,0:-159.943,-15.0515,0,-159.943,-15.0515,-159.943 1/1:42:0,40,1:0:0:40,1:1418,36:-127.558,-12.0412,0,-124.62,-9.10378,-124.319 1/2:85:0,42,43:0:0:42,43:1502,1503:-245.093,-122.615,-109.972,-122.831,0,-109.887 1/2:86:0,53,32:0:0:53,32:1880,1109:-243.297,-90.1224,-74.1679,-153.165,0,-143.532 1/1:80:0,77,2:0:0:77,2:2694,72:-242.343,-23.1793,0,-236.468,-17.3045,-235.866 1/2:87:0,48,39:0:0:48,39:1704,1378:-251.42,-112.578,-98.1285,-139.196,0,-127.456 2/2:73:0,0,73:0:0:0,73:0,2614:-235.507,-235.507,-235.507,-21.9752,-21.9752,0 1/2:96:0,54,40:0:0:54,40:1925,1417:-272.4,-115.482,-99.2264,-156.97,0,-144.928 1/2:4:0,1,2:0:0:1,2:36,72:-8.81973,-5.88148,-5.58045,-2.9424,0,-2.34034 1/1:6:0,6,0:0:0:6,0:215,0:-19.6992,-1.80618,0,-19.6992,-1.80618,-19.6992 1/1:16:0,16,0:0:0:16,0:573,0:-51.9039,-4.81648,0,-51.9039,-4.81648,-51.9039 1/2:129:0,57,71:0:0:57,71:2011,2533:-370.26,-206.509,-189.35,-163.765,0,-142.392 1/2:64:0,36,27:0:0:36,27:1288,954:-182.72,-77.688,-66.8509,-105.027,0,-96.8993 1/1:120:0,119,0:0:0:119,0:4232,0:-380.723,-35.8226,0,-380.723,-35.8226,-380.723 1/1:49:0,48,0:0:0:48,0:1701,0:-153.055,-14.4494,0,-153.055,-14.4494,-153.055 1/1:52:0,52,0:0:0:52,0:1863,0:-167.95,-15.6536,0,-167.95,-15.6536,-167.95 1/2:15:0,8,7:0:0:8,7:288,250:-44.2404,-20.7395,-18.3313,-23.8592,0,-21.752 1/2:27:0,19,8:0:0:19,8:672,264:-76.4244,-21.6738,-15.9542,-55.0875,0,-52.6793 1/1:77:0,76,1:0:0:76,1:2678,36:-240.882,-22.8783,0,-237.945,-19.581,-237.644 1/1:34:0,34,0:0:0:34,0:1205,0:-108.755,-10.235,0,-108.755,-10.235,-108.755 chr10 3898075 . T C 14801.8 PASS AB=0.55094;ABP=31.7704;AC=11;AF=0.261905;AN=42;AO=825;CIGAR=1X;DP=2502;DPB=2502;DPRA=1.19054;EPP=1794.48;EPPR=3640.23;GTI=1;LEN=1;MEANALT=1.14286;MQM=60;MQMR=59.9845;NS=21;NUMALT=1;ODDS=5.75627;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29478;QR=59772;RO=1675;RPL=0;RPP=1794.48;RPPR=3640.23;RPR=825;RUN=1;SAF=825;SAP=1794.48;SAR=0;SRF=1675;SRP=3640.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:143:141,2:141:5037:2:72:0,-36.2106,-446.639 0/0:85:82,3:82:2940:3:108:0,-15.5124,-254.759 0/0:138:138,0:138:4945:0:0:0,-41.5421,-445.178 0/1:99:51,47:51:1794:47:1680:-121.773,0,-132.025 0/1:236:102,134:102:3644:134:4800:-361.113,0,-257.122 0/0:68:68,0:68:2440:0:0:0,-20.47,-219.855 0/1:155:79,76:79:2813:76:2728:-199.103,0,-206.749 1/1:115:0,115:0:0:115:4097:-368.916,-34.6185,0 0/1:140:78,62:78:2775:62:2212:-157.201,0,-207.847 0/1:16:10,6:10:352:6:212:-14.6083,0,-27.2017 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:37:37,0:37:1316:0:0:0,-11.1381,-118.742 0/1:220:48,172:48:1716:172:6131:-485.666,0,-88.499 0/1:89:44,45:44:1568:45:1616:-118.938,0,-114.62 0/0:300:300,0:300:10661:0:0:0,-90.309,-959.402 0/0:79:78,1:78:2780:1:36:0,-20.1831,-246.841 0/0:64:62,1:62:2212:1:36:0,-15.7264,-195.747 0/1:208:108,100:108:3872:100:3562:-258.173,0,-286.06 0/1:113:52,61:52:1859:61:2188:-163.169,0,-133.572 0/0:127:127,0:127:4541:0:0:0,-38.2308,-408.855 0/0:59:59,0:59:2111:0:0:0,-17.7608,-190.258 chr10 3906372 . G A 72216.9 PASS AB=0.513722;ABP=6.82434;AC=31;AF=0.738095;AN=42;AO=2729;CIGAR=1X;DP=4132;DPB=4132;DPRA=0.729623;EPP=5911.6;EPPR=3049.59;GTI=2;LEN=1;MEANALT=1;MQM=59.9886;MQMR=60;NS=21;NUMALT=1;ODDS=1.22926;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=97693;QR=50066;RO=1403;RPL=1278;RPP=26.8249;RPPR=17.5729;RPR=1451;RUN=1;SAF=1276;SAP=27.9389;SAR=1453;SRF=653;SRP=17.5729;SRR=750;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:204:1,203:1:36:203:7217:-645.971,-57.8118,0 1/1:23:0,23:0:0:23:809:-73.1283,-6.92369,0 1/1:179:0,179:0:0:179:6396:-575.729,-53.8844,0 0/1:236:120,116:120:4287:116:4160:-303.539,0,-314.965 0/1:487:254,233:254:9050:233:8332:-603.284,0,-667.875 1/1:188:2,186:2:72:186:6661:-592.728,-49.7569,0 0/1:273:122,151:122:4353:151:5412:-405.028,0,-309.763 0/0:265:265,0:265:9496:0:0:0,-79.7729,-854.597 0/1:423:211,212:211:7489:212:7544:-551.663,0,-546.719 0/1:48:22,26:22:779:26:936:-70.11,0,-55.9826 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:117:0,117:0:0:117:4208:-378.899,-35.2205,0 0/1:275:138,137:138:4927:137:4924:-360.525,0,-360.798 0/1:235:119,116:119:4233:116:4147:-302.657,0,-310.406 1/1:358:0,358:0:0:358:12851:-1156.4,-107.769,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 0/1:165:82,83:82:2944:83:2974:-218.223,0,-215.523 0/1:190:66,124:66:2364:124:4464:-344.732,0,-155.823 1/1:316:1,315:1:36:315:11279:-1011.39,-91.5272,0 1/1:94:0,94:0:0:94:3371:-303.605,-28.2968,0 chr10 4001057 . C T 24473 PASS AB=0.4395;ABP=112.314;AC=21;AF=0.5;AN=42;AO=1511;CIGAR=1X;DP=3438;DPB=3438;DPRA=0;EPP=3275.42;EPPR=4167.91;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9854;MQMR=59.9834;NS=21;NUMALT=1;ODDS=17.2585;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54083;QR=68816;RO=1926;RPL=1;RPP=3275.42;RPPR=4167.91;RPR=1510;RUN=1;SAF=1511;SAP=3284.11;SAR=0;SRF=1926;SRP=4185.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:254:119,135:119:4268:135:4833:-358.661,0,-307.836 0/1:95:47,48:47:1683:48:1705:-125.136,0,-123.158 0/1:129:90,39:90:3194:39:1389:-86.4741,0,-248.849 0/1:202:109,93:109:3896:93:3325:-238.658,0,-290.027 0/1:530:263,267:263:9373:267:9523:-697.479,0,-683.862 0/1:102:49,53:49:1760:53:1904:-140.933,0,-127.971 0/1:233:119,114:119:4260:114:4100:-299.043,0,-313.439 0/1:150:93,57:93:3311:57:2052:-139.797,0,-253.055 0/1:290:173,117:173:6165:117:4193:-290.25,0,-467.652 0/1:27:17,10:17:608:10:360:-24.6165,0,-46.9242 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.8374 0/1:37:18,19:18:644:19:684:-50.7522,0,-47.1525 0/1:176:82,94:82:2944:94:3376:-251.074,0,-212.212 0/1:156:110,46:110:3913:46:1649:-101.738,0,-305.403 0/1:191:123,68:123:4408:68:2423:-160.827,0,-339.395 0/1:106:53,52:53:1888:52:1857:-135.44,0,-138.231 0/1:145:64,81:64:2288:81:2908:-218.306,0,-162.532 0/1:117:78,39:78:2792:39:1404:-91.4388,0,-216.3 0/1:137:87,50:87:3120:50:1796:-120.667,0,-239.785 0/1:260:171,89:171:6117:89:3174:-207.609,0,-472.361 0/1:94:57,37:57:2044:37:1320:-90.8051,0,-155.935 chr10 4001066 . T C 23995.1 PASS AB=0.439363;ABP=111.245;AC=21;AF=0.5;AN=42;AO=1489;CIGAR=1X;DP=3389;DPB=3389;DPRA=0;EPP=3227.65;EPPR=4063.89;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9852;MQMR=59.9821;NS=21;NUMALT=1;ODDS=17.4877;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53164;QR=67929;RO=1898;RPL=1;RPP=3227.65;RPPR=4063.89;RPR=1488;RUN=1;SAF=1489;SAP=3236.33;SAR=0;SRF=1898;SRP=4124.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:248:117,131:117:4183:131:4686:-347.245,0,-301.995 0/1:95:48,47:48:1720:47:1675:-122.439,0,-126.488 0/1:127:87,40:87:3116:40:1423:-90.1359,0,-242.436 0/1:197:105,92:105:3772:92:3292:-237.197,0,-280.375 0/1:520:258,261:258:9194:261:9335:-683.521,0,-670.836 0/1:100:47,53:47:1680:53:1904:-141.535,0,-121.376 0/1:233:118,115:118:4217:115:4085:-297.698,0,-309.569 0/1:149:92,57:92:3288:57:2028:-137.939,0,-251.287 0/1:286:167,119:167:5953:119:4240:-295.686,0,-449.781 0/1:27:17,10:17:612:10:360:-24.6165,0,-47.2856 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:37:18,19:18:639:19:680:-50.3911,0,-46.7001 0/1:173:81,91:81:2912:91:3264:-241.991,0,-210.326 0/1:154:109,45:109:3890:45:1591:-97.1201,0,-303.666 0/1:189:121,68:121:4352:68:2440:-162.96,0,-334.958 0/1:102:53,49:53:1891:49:1760:-127.979,0,-139.763 0/1:142:63,79:63:2264:79:2830:-212.193,0,-161.276 0/1:118:81,37:81:2912:37:1328:-84.3007,0,-226.793 0/1:134:85,49:85:3060:49:1725:-115.193,0,-235.29 0/1:259:171,88:171:6118:88:3127:-203.68,0,-472.75 0/1:92:56,36:56:2012:36:1283:-88.0779,0,-153.658 chr10 4001085 . A G 33689.9 PASS AB=0.559953;ABP=108.721;AC=21;AF=0.5;AN=42;AO=1896;CIGAR=1X;DP=3386;DPB=3386;DPRA=0;EPP=4120.12;EPPR=3234.16;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9736;MQMR=59.9892;NS=21;NUMALT=1;ODDS=11.89;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67557;QR=53157;RO=1488;RPL=1887;RPP=4042.32;RPPR=3234.16;RPR=9;RUN=1;SAF=1887;SAP=4042.32;SAR=9;SRF=1488;SRP=3234.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:246:129,117:129:4616:117:4168:-301.249,0,-341.551 0/1:98:47,51:47:1688:51:1824:-134.94,0,-122.706 0/1:126:38,88:38:1337:88:3143:-245.166,0,-82.6981 0/1:201:94,107:94:3356:107:3835:-284.838,0,-241.75 0/1:513:261,251:261:9336:251:8902:-646.656,0,-685.719 0/1:97:52,45:52:1849:45:1603:-115.358,0,-137.488 0/1:230:114,115:114:4076:115:4094:-299.349,0,-297.731 0/1:149:57,92:57:2036:92:3267:-249.398,0,-138.659 0/1:287:118,169:118:4194:169:6058:-458.926,0,-291.245 0/1:29:10,19:10:356:19:684:-53.1605,0,-23.6514 0/1:6:2,4:2:68:4:144:-11.5074,0,-4.65153 0/1:37:20,17:20:716:17:603:-43.4614,0,-53.6296 0/1:173:90,83:90:3220:83:2968:-215.275,0,-237.944 0/1:151:42,109:42:1504:109:3883:-304.179,0,-90.1991 0/1:192:69,123:69:2472:123:4416:-339.813,0,-164.936 0/1:106:52,54:52:1845:54:1917:-140.896,0,-134.419 0/1:142:81,61:81:2891:61:2168:-152.638,0,-217.68 0/1:117:37,80:37:1332:80:2828:-219.539,0,-84.9619 0/1:133:50,83:50:1796:83:2980:-228.395,0,-121.872 0/1:260:88,172:88:3145:172:6081:-469.127,0,-205.002 0/1:93:37,56:37:1324:56:1991:-151.468,0,-91.4663 chr10 4001155 . A G 10274.6 PASS AB=0.45341;ABP=22.637;AC=11;AF=0.261905;AN=42;AO=590;CIGAR=1X;DP=2099;DPB=2099;DPRA=1.31866;EPP=1284.18;EPPR=3277.59;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.0339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21129;QR=53919;RO=1508;RPL=590;RPP=1284.18;RPPR=3277.59;RPR=0;RUN=1;SAF=0;SAP=1284.18;SAR=590;SRF=0;SRP=3277.59;SRR=1508;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:92,2:92:3281:2:72:0,-21.4601,-288.672 0/0:77:77,0:77:2768:0:0:0,-23.1793,-249.361 0/0:98:98,0:98:3500:0:0:0,-29.5009,-315.211 0/1:145:91,54:91:3260:54:1936:-130.867,0,-249.971 0/1:220:107,113:107:3824:113:4040:-297.562,0,-278.131 0/0:89:87,2:87:3101:2:72:0,-19.9549,-272.48 0/1:139:78,61:78:2792:61:2188:-155.343,0,-209.677 1/1:114:0,114:0:0:114:4092:-368.465,-34.3174,0 0/1:138:68,70:68:2440:70:2497:-183.439,0,-178.313 0/1:22:10,12:10:360:12:428:-32.2361,0,-26.1216 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:126:72,54:72:2584:54:1944:-137.306,0,-194.879 0/1:114:64,49:64:2272:49:1744:-122.868,0,-170.367 0/0:207:207,0:207:7373:0:0:0,-62.3132,-663.621 0/0:78:78,0:78:2796:0:0:0,-23.4803,-251.88 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/1:69:31,38:31:1112:38:1364:-102.29,0,-79.6203 0/1:68:47,21:47:1672:21:752:-47.5362,0,-130.297 0/0:156:156,0:156:5592:0:0:0,-46.9607,-503.402 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 chr10 4001176 . G C 35809.4 PASS AB=0.545708;ABP=61.5701;AC=22;AF=0.52381;AN=42;AO=2011;CIGAR=1X;DP=3489;DPB=3489;DPRA=0;EPP=4361.16;EPPR=31.8066;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9817;NS=21;NUMALT=1;ODDS=5.18945;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71358;QR=52257;RO=1478;RPL=0;RPP=4369.84;RPPR=3212.45;RPR=2011;RUN=1;SAF=1;SAP=4361.16;SAR=2010;SRF=809;SRP=31.8066;SRR=669;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:67,101:67:2370:101:3598:-273.454,0,-162.913 0/1:130:92,38:92:3288:38:1339:-81.6753,0,-257.006 0/1:110:36,74:36:1272:74:2631:-203.924,0,-81.6696 0/1:104:55,49:55:1933:49:1748:-126.297,0,-142.938 0/1:240:144,96:144:5125:96:3409:-234.778,0,-389.146 0/1:116:80,36:80:2831:36:1284:-80.9439,0,-220.108 0/1:213:89,124:89:3139:124:4385:-330.708,0,-218.617 0/1:111:14,97:14:504:97:3484:-280.356,0,-12.2838 0/1:166:83,83:83:2941:83:2935:-214.412,0,-214.953 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 1/1:262:12,250:12:415:250:8837:-757.646,-41.1896,0 0/1:280:29,251:29:1008:251:8890:-715.806,0,-6.73967 0/1:159:99,60:99:3529:60:2132:-144.285,0,-269.955 0/1:124:49,75:49:1738:75:2675:-203.667,0,-119.375 0/1:229:115,114:115:4029:114:4050:-295.753,0,-293.864 0/1:118:66,52:66:2328:52:1855:-131.708,0,-174.257 0/1:102:42,60:42:1486:60:2128:-161.084,0,-103.328 0/1:410:90,320:90:3177:320:11303:-893.748,0,-162.727 0/1:160:117,43:117:4092:43:1536:-90.3683,0,-320.303 0/1:130:80,50:80:2841:50:1788:-122.069,0,-216.794 0/1:148:114,34:114:4031:34:1207:-64.3828,0,-318.428 chr10 4001237 . T C 23251.8 PASS AB=0.402955;ABP=163.588;AC=20;AF=0.47619;AN=42;AO=1309;CIGAR=1X;DP=2840;DPB=2840;DPRA=1.29424;EPP=2845.47;EPPR=3323.19;GTI=1;LEN=1;MEANALT=1.11111;MQM=59.9893;MQMR=60;NS=21;NUMALT=1;ODDS=13.526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46652;QR=54775;RO=1529;RPL=1309;RPP=2845.47;RPPR=3323.19;RPR=0;RUN=1;SAF=0;SAP=2845.47;SAR=1309;SRF=0;SRP=3323.19;SRR=1529;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:69,48:69:2468:48:1716:-119.505,0,-187.154 0/1:86:62,23:62:2220:23:809:-47.3257,0,-174.265 0/1:104:73,31:73:2624:31:1086:-66.7379,0,-205.1 0/1:83:56,27:56:2004:27:965:-62.1815,0,-155.648 0/1:150:95,55:95:3416:55:1961:-131.611,0,-262.498 0/1:70:52,18:52:1864:18:633:-36.223,0,-146.967 0/1:166:104,62:104:3740:62:2207:-148.923,0,-286.828 0/1:105:57,48:57:2029:48:1724:-123.837,0,-151.273 0/0:131:131,0:131:4689:0:0:0,-39.4349,-422.169 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 1/1:278:11,267:11:392:267:9505:-819.75,-48.0663,0 1/1:275:24,251:24:849:251:8962:-729.833,-6.05542,0 0/1:84:45,39:45:1605:39:1386:-99.7525,0,-119.452 0/1:105:75,30:75:2677:30:1067:-64.7337,0,-209.566 0/1:206:158,48:158:5676:48:1720:-93.0733,0,-448.944 0/1:97:68,29:68:2428:29:1025:-63.3608,0,-189.576 0/1:80:50,30:50:1792:30:1080:-73.4309,0,-137.48 0/1:400:110,289:110:3956:289:10302:-806.637,0,-235.759 0/1:101:90,11:90:3232:11:396:-5.57872,0,-260.697 0/0:91:91,0:91:3234:0:0:0,-27.3937,-291.28 0/0:102:102,0:102:3668:0:0:0,-30.7051,-330.322 chr10 4001285 . AACC GACA 7231.03 PASS AB=0.576978;ABP=38.7818;AC=22;AF=0.52381;AN=42;AO=422;CIGAR=1X2M1X;DP=716;DPB=716;DPRA=0;EPP=919.372;EPPR=637.08;GTI=1;LEN=4;MEANALT=1.09524;MQM=59.9668;MQMR=60;NS=21;NUMALT=1;ODDS=0.10044;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14850;QR=10164;RO=292;RPL=422;RPP=919.372;RPPR=637.08;RPR=0;RUN=1;SAF=422;SAP=919.372;SAR=0;SRF=292;SRP=637.08;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:18:9,9:9:309:9:309:-22.724,0,-22.7235 0/1:8:2,6:2:72:6:204:-16.2841,0,-4.42848 0/1:30:16,14:16:572:14:476:-34.1332,0,-42.7825 0/1:55:23,32:23:808:32:1130:-85.4519,0,-56.4828 0/1:41:13,28:13:444:28:983:-76.4289,0,-27.9431 0/1:38:12,26:12:424:26:929:-72.4897,0,-27.057 0/1:44:19,25:19:674:25:884:-66.6331,0,-47.7422 1/1:21:0,21:0:0:21:739:-66.8326,-6.32163,0 0/1:39:11,28:11:385:28:1005:-79.026,0,-23.2451 0/1:6:4,2:4:142:2:66:-4.46177,0,-11.3231 0/1:4:3,1:3:102:1:36:-2.39415,0,-8.31265 0/1:20:3,17:3:100:17:605:-48.7602,0,-3.30977 0/1:62:14,48:14:494:48:1676:-132.459,0,-26.1295 0/1:15:7,8:7:229:8:275:-20.5675,0,-16.4145 0/1:62:33,29:33:1136:29:1007:-72.276,0,-83.8782 0/1:14:10,4:10:343:4:137:-8.45322,0,-26.9856 0/1:13:9,4:9:310:4:133:-8.3842,0,-24.3204 0/1:54:13,40:13:444:40:1422:-111.963,0,-23.9723 0/1:58:30,28:30:1037:28:1000:-72.8562,0,-76.1792 0/1:60:33,26:33:1154:26:909:-64.0041,0,-86.045 0/1:54:28,26:28:985:26:925:-67.3121,0,-72.7083 chr10 4001411 . A G 8318.19 PASS AB=0.486139;ABP=4.69588;AC=21;AF=0.5;AN=42;AO=496;CIGAR=1X;DP=1020;DPB=1020;DPRA=10.15;EPP=1054.16;EPPR=1140.86;GTI=2;LEN=1;MEANALT=1;MQM=59.9819;MQMR=59.9656;NS=21;NUMALT=1;ODDS=17.1384;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17633;QR=18748;RO=524;RPL=493;RPP=1054.16;RPPR=1140.86;RPR=3;RUN=1;SAF=0;SAP=1080.06;SAR=496;SRF=0;SRP=1140.86;SRR=524;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:26,27:26:936:27:964:-71.1222,0,-68.6049 0/1:7:5,2:5:180:2:68:-4.3505,0,-14.4449 0/1:77:46,31:46:1644:31:1116:-77.5724,0,-125.069 0/1:48:23,25:23:819:25:888:-65.7896,0,-59.5798 0/1:62:31,31:31:1108:31:1112:-81.7275,0,-81.3671 0/1:34:15,19:15:540:19:662:-49.6674,0,-38.7015 0/1:71:27,44:27:972:44:1562:-119.496,0,-66.4166 0/1:63:50,13:50:1783:13:468:-23.4948,0,-141.785 0/1:95:46,49:46:1656:49:1735:-127.835,0,-120.731 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:13:3,10:3:104:10:356:-28.4679,0,-5.78942 0/1:68:37,31:37:1324:31:1103:-79.1104,0,-98.9921 0/1:38:24,14:24:864:14:500:-33.897,0,-66.6434 0/1:92:50,42:50:1770:42:1508:-108.319,0,-131.887 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:12:4,8:4:144:8:288:-22.655,0,-9.70126 0/1:92:37,55:37:1320:55:1951:-148.17,0,-91.4072 0/1:68:39,29:39:1388:29:1004:-70.198,0,-104.749 0/1:71:29,42:29:1044:42:1496:-113.561,0,-72.9017 0/1:41:23,18:23:828:18:636:-45.2258,0,-62.5019 chr10 4001414 . G A 8504.11 PASS AB=0.51066;ABP=3.9825;AC=21;AF=0.5;AN=42;AO=508;CIGAR=1X;DP=995;DPB=995;DPRA=9.9;EPP=1106.12;EPPR=1051.85;GTI=2;LEN=1;MEANALT=1;MQM=59.9724;MQMR=59.9979;NS=21;NUMALT=1;ODDS=17.4436;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18038;QR=17235;RO=487;RPL=508;RPP=1106.12;RPPR=1051.85;RPR=0;RUN=1;SAF=0;SAP=1106.12;SAR=508;SRF=0;SRP=1060.52;SRR=487;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:28,26:28:995:26:928:-67.5826,0,-73.6084 0/1:7:2,5:2:64:5:180:-14.4449,0,-3.97148 0/1:75:30,45:30:1068:45:1577:-119.641,0,-73.8548 0/1:43:24,19:24:847:19:676:-48.2237,0,-63.6044 0/1:60:30,30:30:1076:30:1072:-78.7307,0,-79.0911 0/1:36:20,16:20:716:16:568:-40.6148,0,-53.9306 0/1:69:41,28:41:1443:28:999:-69.4515,0,-109.394 0/1:60:13,47:13:464:47:1671:-132.614,0,-24.0357 0/1:91:45,46:45:1588:46:1644:-120.855,0,-115.817 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:14:10,4:10:343:4:144:-9.0992,0,-26.9861 0/1:65:30,35:30:1072:35:1244:-92.6977,0,-77.2255 0/1:36:13,23:13:464:23:815:-62.8337,0,-31.2604 0/1:91:41,50:41:1463:50:1771:-132.279,0,-104.571 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:12:8,4:8:288:4:136:-8.96318,0,-22.655 0/1:89:55,34:55:1952:34:1220:-83.3151,0,-149.164 0/1:68:31,37:31:1087:37:1293:-96.1987,0,-77.6684 0/1:71:43,28:43:1502:28:988:-67.8608,0,-114.099 0/1:39:17,22:17:591:22:788:-59.5046,0,-41.7751 chr10 4027562 . C T 22946.3 PASS AB=0.449192;ABP=22.4282;AC=31;AF=0.738095;AN=42;AO=1117;CIGAR=1X;DP=1705;DPB=1705;DPRA=0.769712;EPP=2428.54;EPPR=1279.84;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.28332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40046;QR=20973;RO=588;RPL=1117;RPP=2428.54;RPPR=1279.84;RPR=0;RUN=1;SAF=0;SAP=2428.54;SAR=1117;SRF=0;SRP=1279.84;SRR=588;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:137:1,136:1:36:136:4861:-434.044,-37.6428,0 1/1:59:0,59:0:0:59:2120:-191.068,-17.7608,0 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 0/1:93:42,51:42:1508:51:1817:-135.814,0,-108.019 0/1:197:123,74:123:4362:74:2651:-179.533,0,-333.452 1/1:105:4,101:4:140:101:3620:-313.061,-18.6636,0 0/1:147:84,63:84:2989:63:2249:-158.42,0,-224.99 0/0:104:104,0:104:3701:0:0:0,-31.3071,-333.292 0/1:123:74,49:74:2652:49:1764:-122.017,0,-201.899 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 0/1:69:40,29:40:1428:29:1044:-73.5037,0,-108.046 0/1:101:59,42:59:2109:42:1504:-105.25,0,-159.673 1/1:121:2,119:2:72:119:4268:-377.461,-29.5879,0 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 1/1:80:0,80:0:0:80:2880:-259.436,-24.0824,0 0/1:57:23,34:23:824:34:1224:-93.3083,0,-57.3246 0/1:65:26,39:26:936:39:1400:-106.732,0,-64.9925 1/1:56:0,56:0:0:56:2000:-180.274,-16.8577,0 1/1:43:0,43:0:0:43:1548:-139.613,-12.9443,0 chr10 4041326 . AAAAAA CCAAAT,CAAAAT 20294.7 PASS AB=0.405253,0.58349;ABP=44.5698,35.2809;AC=31,11;AF=0.738095,0.261905;AN=42;AO=563,345;CIGAR=2X3M1X,1X4M1X;DP=914;DPB=914;DPRA=1.33485,1.86987;EPP=1225.55,3.06695;EPPR=0;GTI=2;LEN=6,6;MEANALT=1.8,2.45455;MQM=49.9751,49.6725;MQMR=0;NS=21;NUMALT=2;ODDS=0.645886;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19512,12144;QR=0;RO=0;RPL=0,0;RPP=1225.55,752.168;RPPR=0;RPR=563,345;RUN=1,1;SAF=0,171;SAP=1225.55,3.06695;SAR=563,174;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,33,0:0:0:33,0:1152,0:-103.603,-9.93399,0,-103.603,-9.93399,-103.603 1/1:31:0,31,0:0:0:31,0:1087,0:-97.6405,-9.33193,0,-97.6405,-9.33193,-97.6405 1/1:21:0,21,0:0:0:21,0:738,0:-66.2757,-6.32163,0,-66.2757,-6.32163,-66.2757 1/2:46:0,32,14:0:0:32,14:1098,504:-130.132,-41.3378,-31.7049,-89.1478,0,-84.9334 1/2:74:0,34,39:0:0:34,39:1158,1383:-205.69,-112.111,-101.876,-93.6344,0,-81.8942 1/1:54:0,54,0:0:0:54,0:1889,0:-169.601,-16.2556,0,-169.601,-16.2556,-169.601 1/2:58:0,26,31:0:0:26,31:890,1093:-160.122,-88.1168,-80.29,-72.0107,0,-62.6787 2/2:33:0,0,33:0:0:0,33:0,1150:-102.446,-102.446,-102.446,-9.93399,-9.93399,0 1/2:46:0,12,34:0:0:12,34:419,1193:-130.156,-96.2483,-92.6359,-34.2554,0,-24.0204 1/2:8:0,1,7:0:0:1,7:36,252:-23.7282,-20.8013,-20.5003,-3.28545,0,-1.17824 1/1:6:0,6,0:0:0:6,0:215,0:-19.6511,-1.80618,0,-19.6511,-1.80618,-19.6511 1/1:6:0,6,0:0:0:6,0:212,0:-19.3691,-1.80618,0,-19.3691,-1.80618,-19.3691 1/2:47:0,26,21:0:0:26,21:890,748:-132.926,-61.0056,-53.1789,-72.2688,0,-65.9472 1/2:55:0,25,28:0:0:25,28:863,999:-150.827,-81.1407,-73.615,-69.7899,0,-61.361 1/1:48:0,48,0:0:0:48,0:1653,0:-148.175,-14.4494,0,-148.175,-14.4494,-148.175 1/1:28:0,28,0:0:0:28,0:967,0:-86.6948,-8.42884,0,-86.6948,-8.42884,-86.6948 1/1:29:0,29,0:0:0:29,0:1038,0:-92.5641,-8.72987,0,-92.5641,-8.72987,-92.5641 1/2:116:0,24,90:0:0:24,90:800,3136:-315.522,-251.179,-243.954,-64.3628,0,-37.2701 1/2:83:0,36,47:0:0:36,47:1246,1650:-234.279,-133.43,-122.593,-101.195,0,-87.0465 1/1:43:0,43,0:0:0:43,0:1520,0:-136.487,-12.9443,0,-136.487,-12.9443,-136.487 1/1:49:0,48,1:0:0:48,1:1641,36:-145.821,-14.4494,0,-142.883,-11.1522,-142.582 chr10 4041347 . T C 8118.81 PASS AB=0.595506;ABP=45.3174;AC=11;AF=0.261905;AN=42;AO=350;CIGAR=1X;DP=910;DPB=910;DPRA=1.80988;EPP=3.40737;EPPR=1219.03;GTI=2;LEN=1;MEANALT=1;MQM=49.5743;MQMR=49.95;NS=21;NUMALT=1;ODDS=0.0959639;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12421;QR=20065;RO=560;RPL=350;RPP=763.026;RPPR=1219.03;RPR=0;RUN=1;SAF=171;SAP=3.40737;SAR=179;SRF=0;SRP=1219.03;SRR=560;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.426 0/0:31:31,0:31:1108:0:0:0,-9.33193,-99.4797 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.2804 0/1:47:33,14:33:1188:14:504:-31.4038,0,-92.6044 0/1:74:34,40:34:1216:40:1415:-104.896,0,-87.0186 0/0:53:53,0:53:1908:0:0:0,-15.9546,-171.02 0/1:58:27,31:27:960:31:1108:-81.6367,0,-68.703 1/1:32:0,32:0:0:32:1148:-102.132,-9.63296,0 0/1:47:12,35:12:432:35:1244:-96.7765,0,-24.8601 0/1:8:1,7:1:36:7:248:-20.1622,0,-1.17824 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7408 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7257 0/1:46:24,22:24:860:22:773:-55.7543,0,-63.3394 0/1:53:25,28:25:892:28:1000:-73.4952,0,-63.9234 0/0:48:48,0:48:1720:0:0:0,-14.4494,-154.071 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.0691 0/0:29:29,0:29:1040:0:0:0,-8.72987,-92.6555 0/1:119:24,95:24:860:95:3342:-260.3,0,-41.3567 0/1:82:36,46:36:1284:46:1639:-121.63,0,-90.7118 0/0:43:43,0:43:1544:0:0:0,-12.9443,-138.551 0/0:48:48,0:48:1713:0:0:0,-14.4494,-152.476 chr10 4046978 . C A 3205.5 PASS AB=0.359073;ABP=92.3676;AC=11;AF=0.261905;AN=42;AO=214;CIGAR=1X;DP=1169;DPB=1169;DPRA=0.964045;EPP=467.705;EPPR=2076.77;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9958;NS=21;NUMALT=1;ODDS=6.18673;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7672;QR=34010;RO=955;RPL=0;RPP=467.705;RPPR=2076.77;RPR=214;RUN=1;SAF=214;SAP=467.705;SAR=0;SRF=955;SRP=2076.77;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:108:108,0:108:3868:0:0:0,-32.5112,-348.315 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/0:55:55,0:55:1964:0:0:0,-16.5566,-177.035 0/1:47:23,24:23:816:24:860:-63.5734,0,-59.6133 0/1:93:64,29:64:2284:29:1040:-65.9186,0,-177.826 0/0:70:70,0:70:2484:0:0:0,-21.0721,-223.814 0/1:68:45,23:45:1611:23:824:-54.0133,0,-124.809 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 0/1:120:82,38:82:2921:38:1360:-86.577,0,-227 0/1:8:7,1:7:252:1:36:-1.19004,0,-20.6207 0/0:9:9,0:9:311:0:0:0,-2.70927,-28.3237 0/0:30:30,0:30:1068:0:0:0,-9.0309,-96.4321 0/1:83:52,31:52:1852:31:1112:-75.4059,0,-141.974 0/1:58:44,14:44:1576:14:504:-28.2384,0,-124.672 0/0:107:107,0:107:3805:0:0:0,-32.2102,-342.646 0/0:44:44,0:44:1556:0:0:0,-13.2453,-140.332 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/1:19:8,11:8:284:11:388:-29.5378,0,-20.1838 0/1:22:7,15:7:252:15:540:-42.3139,0,-16.4063 0/0:96:96,0:96:3390:0:0:0,-28.8989,-305.315 0/0:14:14,0:14:492:0:0:0,-4.21442,-44.6123 chr10 4067143 . A G 26496.8 PASS AB=0.543454;ABP=32.0727;AC=11;AF=0.261905;AN=42;AO=1113;CIGAR=1X;DP=3338;DPB=3338;DPRA=1.63227;EPP=41.7983;EPPR=931.6;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.9847;MQMR=59.9915;NS=21;NUMALT=1;ODDS=6.20613;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39287;QR=79516;RO=2223;RPL=1076;RPP=2109.16;RPPR=4233.19;RPR=37;RUN=1;SAF=449;SAP=93.1957;SAR=664;SRF=553;SRP=1221.78;SRR=1670;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:135:133,2:133:4759:2:72:0,-33.8023,-421.63 0/0:122:122,0:122:4360:0:0:0,-36.7257,-392.575 0/0:150:146,3:146:5239:3:108:0,-35.1381,-461.57 0/1:148:55,93:55:1968:93:3269:-249.879,0,-132.843 0/1:352:146,206:146:5227:206:7196:-541.745,0,-364.605 0/0:140:138,2:138:4936:2:72:0,-35.3075,-437.554 0/1:227:125,102:125:4484:102:3616:-257.315,0,-335.394 1/1:139:1,138:1:36:138:4918:-439.174,-38.2449,0 0/1:300:138,162:138:4923:162:5702:-422.997,0,-352.907 0/1:39:22,17:22:792:17:595:-42.1365,0,-59.8655 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.516 0/1:185:93,92:93:3332:92:3270:-238.83,0,-244.407 0/1:222:82,140:82:2936:140:4933:-377.297,0,-197.646 0/0:160:160,0:160:5740:0:0:0,-48.1648,-516.715 0/0:144:144,0:144:5155:0:0:0,-43.3483,-464.09 0/0:157:156,0:156:5596:0:0:0,-46.9607,-503.397 0/1:206:98,108:98:3511:108:3837:-283.515,0,-254.187 0/1:93:50,43:50:1783:43:1528:-109.817,0,-132.756 0/0:205:202,3:202:7185:3:99:0,-52.4746,-637.473 0/0:140:138,2:138:4902:2:72:0,-35.3075,-434.495 chr10 4067160 . GAG AAT 34415.6 PASS AB=0.529766;ABP=13.2229;AC=31;AF=0.738095;AN=42;AO=1708;CIGAR=1X1M1X;DP=2426;DPB=2426;DPRA=0;EPP=3711.89;EPPR=1546.94;GTI=0;LEN=3;MEANALT=1.14286;MQM=59.9865;MQMR=59.979;NS=21;NUMALT=1;ODDS=3.30394;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60193;QR=25123;RO=715;RPL=1708;RPP=3711.89;RPPR=1546.94;RPR=0;RUN=1;SAF=0;SAP=3711.89;SAR=1708;SRF=0;SRP=1555.61;SRR=715;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:1,138:1:36:138:4849:-432.973,-38.2449,0 1/1:72:0,71:0:0:71:2532:-227.771,-21.3731,0 1/1:150:0,150:0:0:150:5287:-475.974,-45.1545,0 0/1:114:58,56:58:2039:56:1969:-143.164,0,-149.418 0/1:277:130,147:130:4573:147:5179:-382.871,0,-328.354 1/1:83:0,83:0:0:83:2937:-264.566,-24.9855,0 0/1:163:74,89:74:2587:89:3127:-232.589,0,-184.01 0/0:87:86,1:86:3054:1:36:0,-22.5913,-271.492 0/1:221:113,108:113:3976:108:3782:-274.053,0,-291.503 0/1:21:8,13:8:286:13:452:-34.6887,0,-19.7639 1/1:9:0,9:0:0:9:322:-29.3242,-2.70927,0 1/1:26:0,26:0:0:26:918:-82.9363,-7.82678,0 0/1:156:61,95:61:2150:95:3348:-254.575,0,-146.804 0/1:170:87,83:87:3007:83:2939:-213.569,0,-219.687 1/1:164:0,164:0:0:164:5769:-519.329,-49.3689,0 1/1:83:0,82:0:0:82:2885:-259.637,-24.6845,0 1/1:63:0,62:0:0:62:2175:-195.654,-18.6639,0 0/1:125:64,61:64:2269:61:2162:-157.218,0,-166.842 0/1:80:29,51:29:1010:51:1799:-138.109,0,-67.1266 1/1:125:2,123:2:64:123:4355:-386.052,-31.5506,0 1/1:98:2,96:2:72:96:3371:-296.77,-22.6642,0 chr10 4070074 . T C 10563.9 PASS AB=0.484848;ABP=5.18177;AC=11;AF=0.261905;AN=42;AO=613;CIGAR=1X;DP=2138;DPB=2138;DPRA=1.47967;EPP=1334.12;EPPR=3312.33;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9967;MQMR=59.9987;NS=21;NUMALT=1;ODDS=6.4396;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21954;QR=54652;RO=1524;RPL=0;RPP=1334.12;RPPR=3312.33;RPR=613;RUN=1;SAF=613;SAP=1334.12;SAR=0;SRF=1524;SRP=3312.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:148:143,5:143:5132:5:180:0,-28.0004,-445.468 0/0:66:66,0:66:2376:0:0:0,-19.868,-214.097 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.282 0/1:147:74,73:74:2664:73:2620:-191.796,0,-195.754 0/1:267:138,129:138:4940:129:4593:-333.161,0,-364.375 0/0:104:102,2:102:3660:2:72:0,-24.4704,-322.766 0/1:190:96,94:96:3424:94:3376:-246.859,0,-251.179 1/1:78:0,77:0:0:77:2760:-248.281,-23.1793,0 0/1:183:97,86:97:3484:86:3092:-223.418,0,-258.682 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/1:109:44,65:44:1580:65:2321:-176.336,0,-109.679 0/1:76:38,38:38:1360:38:1364:-100.182,0,-99.8223 0/0:155:155,0:155:5548:0:0:0,-46.6596,-499.445 0/0:91:90,1:90:3232:1:36:0,-23.7955,-287.502 0/0:117:117,0:117:4192:0:0:0,-35.2205,-377.461 0/1:57:31,26:31:1116:26:928:-66.6795,0,-83.593 0/1:51:37,14:37:1324:14:504:-30.3456,0,-104.11 0/0:137:137,0:137:4916:0:0:0,-41.2411,-442.59 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 chr10 4083251 . A G 9433.29 PASS AB=0.452683;ABP=22.9434;AC=11;AF=0.261905;AN=42;AO=549;CIGAR=1X;DP=1955;DPB=1955;DPRA=1.4356;EPP=1195.15;EPPR=3053.93;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.99;NS=21;NUMALT=1;ODDS=7.2155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19650;QR=50336;RO=1405;RPL=0;RPP=1195.15;RPPR=3053.93;RPR=549;RUN=1;SAF=549;SAP=1195.15;SAR=0;SRF=1405;SRP=3053.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:70,0:70:2504:0:0:0,-21.0721,-225.613 0/0:63:63,0:63:2245:0:0:0,-18.9649,-202.312 0/0:96:96,0:96:3432:0:0:0,-28.8989,-309.094 0/1:107:62,45:62:2216:45:1608:-112.8,0,-167.495 0/1:192:89,103:89:3177:103:3685:-274.053,0,-228.355 0/0:102:102,0:102:3664:0:0:0,-30.7051,-329.963 0/1:136:91,45:91:3272:45:1612:-104.43,0,-253.723 1/1:84:0,84:0:0:84:3020:-272.03,-25.2865,0 0/1:242:120,122:120:4304:122:4357:-319.454,0,-314.687 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:24:23,0:23:828:0:0:0,-6.92369,-74.4843 0/1:91:61,30:61:2177:30:1072:-69.3987,0,-168.801 0/1:88:45,43:45:1620:43:1544:-112.762,0,-119.599 0/0:193:193,0:193:6928:0:0:0,-58.0988,-623.584 0/0:86:86,0:86:3080:0:0:0,-25.8886,-277.428 0/0:65:65,0:65:2324:0:0:0,-19.5669,-209.42 0/1:115:60,55:60:2141:55:1960:-142.057,0,-158.337 0/1:50:31,19:31:1112:19:684:-46.8388,0,-85.3398 0/0:88:87,1:87:3120:1:36:0,-22.8924,-277.428 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 chr10 4126145 . A G 8950.61 PASS AB=0.487106;ABP=4.01826;AC=11;AF=0.261905;AN=42;AO=390;CIGAR=1X;DP=1335;DPB=1335;DPRA=1.49892;EPP=3.21074;EPPR=3.67438;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.78301;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13856;QR=33900;RO=945;RPL=390;RPP=849.885;RPPR=2055.05;RPR=0;RUN=1;SAF=198;SAP=3.21074;SAR=192;SRF=481;SRP=3.67438;SRR=464;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:84:83,1:83:2980:1:36:0,-21.6882,-264.834 0/0:80:80,0:80:2864:0:0:0,-24.0824,-257.997 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/1:57:17,40:17:608:40:1431:-111.928,0,-37.8933 0/1:107:63,44:63:2264:44:1558:-108.3,0,-171.812 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 0/1:78:40,38:40:1432:38:1356:-98.8601,0,-105.697 1/1:49:0,49:0:0:49:1752:-157.964,-14.7505,0 0/1:85:43,42:43:1536:42:1483:-108.176,0,-112.946 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/1:66:27,39:27:968:39:1386:-105.171,0,-67.5694 0/1:61:32,29:32:1144:29:1024:-74.1092,0,-84.9067 0/0:99:99,0:99:3560:0:0:0,-29.802,-320.607 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 0/1:120:59,61:59:2120:61:2154:-158.003,0,-154.945 0/1:120:75,45:75:2692:45:1604:-108.527,0,-206.401 0/0:36:36,0:36:1284:0:0:0,-10.8371,-115.863 0/0:107:107,0:107:3844:0:0:0,-32.2102,-346.155 chr10 4155415 . A T,G 109315 PASS AB=0.51208,0.487447;ABP=5.68581,5.89977;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3912,1121;CIGAR=1X,1X;DP=5036;DPB=5036;DPRA=2.98373,3.6754;EPP=8480.45,2437.23;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.9,2.05882;MQM=59.9622,59.8867;MQMR=60;NS=21;NUMALT=2;ODDS=32.8588;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=139936,39565;QR=36;RO=1;RPL=3910,1121;RPP=8480.45,2437.23;RPPR=5.18177;RPR=2,0;RUN=1,1;SAF=0,0;SAP=8497.81,2437.23;SAR=3912,1121;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:208:0,207,1:0:0:207,1:7404,32:-666.082,-62.3132,0,-663.504,-59.4149,-663.203 1/1:108:0,108,0:0:0:108,0:3872,0:-348.67,-32.5112,0,-348.67,-32.5112,-348.67 1/1:183:0,182,1:0:0:182,1:6479,32:-582.857,-54.7875,0,-580.278,-51.8892,-579.977 1/2:190:0,106,84:0:0:106,84:3795,2962:-551.012,-241.529,-209.619,-309.838,0,-284.552 1/2:205:0,110,95:0:0:110,95:3931,3365:-594.783,-274.273,-241.159,-320.866,0,-292.268 1/1:87:0,86,1:0:0:86,1:3075,36:-276.618,-25.8886,0,-273.681,-22.5913,-273.38 1/2:183:0,103,80:0:0:103,80:3704,2798:-530.15,-227.978,-196.972,-302.526,0,-278.444 2/2:83:0,0,83:0:0:0,83:0,2926:-263.576,-263.576,-263.576,-24.9855,-24.9855,0 1/2:218:0,108,109:0:0:108,109:3854,3828:-625.716,-311.526,-279.014,-314.184,0,-281.372 1/2:574:0,288,286:0:0:288,286:10302,10135:-1665.38,-825.957,-739.26,-839.775,0,-753.68 1/1:634:0,633,1:0:0:633,1:22616,36:-2034.46,-190.552,0,-2031.52,-187.255,-2031.22 1/1:1003:1,998,3:1:36:998,3:35726,108:-3210.59,-297.491,0,-3202.08,-291.616,-3204.11 1/2:172:0,90,82:0:0:90,82:3232,2919:-501.907,-238.256,-211.164,-264.008,0,-239.324 1/2:126:0,55,71:0:0:55,71:1968,2512:-365.439,-204.96,-188.403,-160.835,0,-139.462 1/1:336:0,335,1:0:0:335,1:11977,36:-1077.23,-100.845,0,-1074.3,-97.5478,-1074 1/1:78:0,78,0:0:0:78,0:2786,0:-250.98,-23.4803,0,-250.98,-23.4803,-250.98 1/1:88:0,87,1:0:0:87,1:3105,36:-279.316,-26.1896,0,-276.379,-22.8924,-276.078 1/2:387:0,189,198:0:0:189,198:6775,6983:-1121.5,-568.932,-512.037,-552.926,0,-493.322 1/2:56:0,32,24:0:0:32,24:1148,821:-160.623,-66.9753,-57.3423,-93.9969,0,-86.7722 1/1:80:0,80,0:0:0:80,0:2859,0:-257.547,-24.0824,0,-257.547,-24.0824,-257.547 1/1:37:0,37,0:0:0:37,0:1328,0:-119.822,-11.1381,0,-119.822,-11.1381,-119.822 chr10 4157035 . T C 8069.32 PASS AB=0.526099;ABP=7.31745;AC=11;AF=0.261905;AN=42;AO=457;CIGAR=1X;DP=1462;DPB=1462;DPRA=1.60061;EPP=995.373;EPPR=2183.17;GTI=1;LEN=1;MEANALT=1.07692;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.4657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16356;QR=35967;RO=1004;RPL=0;RPP=995.373;RPPR=2183.17;RPR=457;RUN=1;SAF=457;SAP=995.373;SAR=0;SRF=1004;SRP=2183.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:86:83,3:83:2980:3:108:0,-15.8134,-258.357 0/0:100:100,0:100:3592:0:0:0,-30.103,-323.486 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.349 0/1:99:47,52:47:1680:52:1856:-137.518,0,-121.685 0/1:133:60,73:60:2152:73:2620:-196.01,0,-153.91 0/0:93:92,1:92:3287:1:36:0,-24.3975,-292.451 0/1:95:55,40:55:1976:40:1427:-100.129,0,-149.517 1/1:68:0,68:0:0:68:2432:-219.136,-20.47,0 0/1:112:48,64:48:1708:64:2281:-171.834,0,-120.29 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/1:132:59,72:59:2115:72:2580:-192.812,0,-150.98 0/1:59:28,31:28:1000:31:1112:-82.6306,0,-72.5546 0/0:81:79,2:79:2797:2:72:0,-17.5467,-245.133 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:79:79,0:79:2836:0:0:0,-23.7814,-255.478 0/1:41:14,27:14:504:27:968:-75.0951,0,-33.3559 0/1:51:32,19:32:1152:19:684:-46.5378,0,-88.6376 0/0:51:51,0:51:1836:0:0:0,-15.3525,-165.521 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 chr10 4178810 . GTTTTTTCTTCCTTCTCCTCTG GTTTTTCATTTTTCTCCTCTG,GTTTTTTCTTTCTTCTCCTCTG 27013 PASS AB=0.492236,0.481366;ABP=3.34749,4.95249;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1029,359;CIGAR=1M1D6M1X1M2X10M,10M1X11M;DP=1421;DPB=1372.95;DPRA=1.4,0.976775;EPP=2237.46,765.294;EPPR=0;GTI=0;LEN=21,1;MEANALT=3,3.45455;MQM=41.2459,59.9889;MQMR=0;NS=21;NUMALT=2;ODDS=8.54845;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34264,12835;QR=0;RO=0;RPL=1029,357;RPP=2237.46,765.294;RPPR=0;RPR=0,2;RUN=1,1;SAF=0,0;SAP=2237.46,782.569;SAR=1029,359;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,79,0:0:0:79,0:2593,0:-226.075,-23.7814,0,-226.075,-23.7814,-226.075 1/1:43:0,41,1:0:0:41,1:1343,36:-118.099,-12.3422,0,-115.16,-9.33987,-114.859 1/1:44:0,43,0:0:0:43,0:1448,0:-126.539,-12.9443,0,-126.539,-12.9443,-126.539 1/2:56:0,22,30:0:0:22,30:743,1061:-144.477,-86.4627,-79.8401,-58.0454,0,-49.0145 1/2:84:0,44,40:0:0:44,40:1459,1417:-229.556,-115.784,-102.539,-114.11,0,-102.069 1/1:68:0,66,0:0:0:66,0:2269,0:-199.594,-19.868,0,-199.594,-19.868,-199.594 1/2:104:0,52,50:0:0:52,50:1745,1784:-283.011,-145.472,-129.819,-137.564,0,-122.513 2/2:49:0,0,48:0:0:0,48:0,1709:-153.734,-153.734,-153.734,-14.4494,-14.4494,0 1/2:137:0,61,74:0:0:61,74:2007,2656:-374.13,-216.694,-198.332,-157.459,0,-135.183 1/2:6:0,3,3:0:0:3,3:78,108:-15.0999,-9.17208,-8.26899,-6.23521,0,-5.33212 1/1:5:0,5,0:0:0:5,0:157,0:-14.1559,-1.50515,0,-14.1559,-1.50515,-14.1559 1/1:18:0,18,0:0:0:18,0:633,0:-55.9176,-5.41854,0,-55.9176,-5.41854,-55.9176 1/2:63:0,23,38:0:0:23,38:786,1368:-173.369,-111.622,-104.698,-61.7319,0,-50.2928 1/2:51:0,32,17:0:0:32,17:1097,608:-135.728,-49.6488,-40.0158,-86.1418,0,-81.0243 1/1:247:0,244,0:0:0:244,0:8060,0:-702.966,-73.4513,0,-702.966,-73.4513,-702.966 1/1:58:0,55,0:0:0:55,0:1879,0:-165.3,-16.5567,0,-165.3,-16.5567,-165.3 1/1:65:0,63,0:0:0:63,0:2055,0:-181.509,-18.9649,0,-181.509,-18.9649,-181.509 1/2:80:0,38,40:0:0:38,40:1283,1440:-218.491,-117.497,-106.058,-100.98,0,-88.9389 1/2:63:0,42,18:0:0:42,18:1366,648:-159.752,-52.8935,-40.2502,-106.867,0,-101.448 1/1:54:0,54,0:0:0:54,0:1775,0:-156.034,-16.2556,0,-156.034,-16.2556,-156.034 1/1:44:0,44,0:0:0:44,0:1488,0:-131.148,-13.2453,0,-131.148,-13.2453,-131.148 chr10 4190651 . G T 9561.8 PASS AB=0.445021;ABP=28.3201;AC=11;AF=0.261905;AN=42;AO=546;CIGAR=1X;DP=2001;DPB=2001;DPRA=1.46024;EPP=1179.96;EPPR=3127.85;GTI=0;LEN=1;MEANALT=1;MQM=59.9835;MQMR=59.9973;NS=21;NUMALT=1;ODDS=5.98627;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19548;QR=51992;RO=1455;RPL=1;RPP=1179.96;RPPR=3127.85;RPR=545;RUN=1;SAF=546;SAP=1188.63;SAR=0;SRF=1455;SRP=3162.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:100:100,0:100:3565:0:0:0,-30.103,-321.057 0/0:111:111,0:111:3961:0:0:0,-33.4143,-356.681 0/0:118:117,1:117:4204:1:36:0,-31.9233,-374.941 0/1:93:46,47:46:1652:47:1688:-124.211,0,-120.973 0/1:283:149,134:149:5322:134:4792:-346.245,0,-393.92 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/1:82:49,33:49:1756:33:1184:-82.1839,0,-133.64 1/1:116:1,115:1:36:115:4093:-364.956,-31.3212,0 0/1:32:12,20:12:432:20:720:-55.4958,0,-29.5882 0/1:13:9,4:9:320:4:144:-9.40023,0,-25.229 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:26:26,0:26:909:0:0:0,-7.82678,-82.1234 0/1:106:58,48:58:2084:48:1720:-123.176,0,-155.921 0/1:106:64,42:64:2272:42:1512:-104.465,0,-172.831 0/0:192:192,0:192:6873:0:0:0,-57.7978,-618.636 0/0:124:123,1:123:4386:1:36:0,-33.7294,-391.313 0/0:62:62,0:62:2201:0:0:0,-18.6639,-198.354 0/1:182:104,78:104:3721:78:2799:-197.36,0,-280.302 0/1:67:44,23:44:1584:23:824:-54.3143,0,-122.683 0/0:89:89,0:89:3175:0:0:0,-26.7917,-285.974 0/0:55:55,0:55:1963:0:0:0,-16.5566,-176.945 chr10 4190689 . G A 79766.4 PASS AB=0.630435;ABP=288.512;AC=31;AF=0.738095;AN=42;AO=2978;CIGAR=1X;DP=3855;DPB=3855;DPRA=0;EPP=6469.66;EPPR=1907.39;GTI=0;LEN=1;MEANALT=1;MQM=59.9584;MQMR=59.9966;NS=21;NUMALT=1;ODDS=6.11349;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=105815;QR=30929;RO=877;RPL=1458;RPP=5.81323;RPPR=82.3446;RPR=1520;RUN=1;SAF=1458;SAP=5.81323;SAR=1520;SRF=528;SRP=82.3446;SRR=349;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:198:4,194:4:144:194:6907:-608.386,-46.2903,0 1/1:185:1,184:1:21:184:6513:-583.928,-53.5906,0 1/1:225:2,223:2:72:223:7959:-709.496,-60.895,0 0/1:184:74,110:74:2582:110:3918:-297.424,0,-177.239 0/1:468:198,270:198:7003:270:9563:-719.75,0,-489.457 1/1:109:1,108:1:36:108:3856:-343.635,-29.214,0 0/1:229:81,148:81:2811:148:5225:-401.455,0,-184.291 0/0:156:153,3:153:5399:3:108:0,-36.8855,-475.972 0/1:231:86,145:86:3050:145:5082:-387.903,0,-205.192 0/1:15:5,10:5:167:10:356:-27.8658,0,-10.843 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:43:0,43:0:0:43:1539:-138.803,-12.9443,0 0/1:241:73,168:73:2595:168:5979:-465.668,0,-161.251 0/1:193:67,126:67:2373:126:4492:-346.349,0,-155.728 1/1:339:0,339:0:0:339:12066:-1085.79,-102.049,0 1/1:192:1,191:1:36:191:6809:-609.016,-54.1995,0 1/1:147:1,146:1:36:146:5215:-465.89,-40.6531,0 0/1:228:93,135:93:3292:135:4795:-363.073,0,-227.863 0/1:143:37,106:37:1312:106:3736:-293.395,0,-75.3344 1/1:197:0,197:0:0:197:7032:-632.944,-59.3029,0 1/1:125:0,125:0:0:125:4413:-397.342,-37.6288,0 chr10 4199148 . T C 5063.54 PASS AB=0.46932;ABP=7.94023;AC=10;AF=0.238095;AN=42;AO=312;CIGAR=1X;DP=1244;DPB=1244;DPRA=1.40623;EPP=680.51;EPPR=2026.82;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.69026;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11036;QR=32957;RO=932;RPL=0;RPP=680.51;RPPR=2026.82;RPR=312;RUN=1;SAF=0;SAP=680.51;SAR=312;SRF=0;SRP=2026.82;SRR=932;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:85:85,0:85:3024:0:0:0,-25.5875,-272.392 0/0:42:42,0:42:1471:0:0:0,-12.6433,-132.684 0/0:52:52,0:52:1837:0:0:0,-15.6536,-165.609 0/1:66:37,29:37:1324:29:1036:-73.6859,0,-99.5941 0/1:147:79,68:79:2778:68:2400:-172.004,0,-206.009 0/0:69:66,3:66:2327:3:108:0,-10.6959,-199.613 0/1:64:30,34:30:1064:34:1190:-88.1376,0,-76.8057 1/1:26:0,26:0:0:26:916:-82.7565,-7.82678,0 0/1:108:66,42:66:2339:42:1487:-101.613,0,-178.258 0/0:9:9,0:9:312:0:0:0,-2.70927,-28.4154 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:58:30,28:30:1068:28:989:-71.8623,0,-78.9723 0/1:72:30,42:30:1050:42:1500:-113.62,0,-73.1346 0/0:113:113,0:113:3992:0:0:0,-34.0164,-359.473 0/0:68:68,0:68:2420:0:0:0,-20.47,-218.057 0/0:68:68,0:68:2387:0:0:0,-20.47,-215.084 0/1:49:23,26:23:812:26:910:-67.4635,0,-58.6504 0/1:39:25,14:25:888:14:500:-33.596,0,-68.4989 0/0:51:51,0:51:1820:0:0:0,-15.3525,-164.081 0/0:49:49,0:49:1720:0:0:0,-14.7505,-155.082 chr10 4204979 . G C 16459.2 PASS AB=0.502447;ABP=3.04218;AC=30;AF=0.714286;AN=42;AO=806;CIGAR=1X;DP=1172;DPB=1172;DPRA=1.91717;EPP=1753.22;EPPR=795.598;GTI=0;LEN=1;MEANALT=1.05263;MQM=59.8896;MQMR=60;NS=21;NUMALT=1;ODDS=2.97763;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28607;QR=13016;RO=365;RPL=806;RPP=1753.22;RPPR=795.598;RPR=0;RUN=1;SAF=806;SAP=1753.22;SAR=0;SRF=365;SRP=795.598;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,80:0:0:80:2847:-256.463,-24.0824,0 1/1:34:0,34:0:0:34:1211:-109.296,-10.235,0 1/1:56:0,56:0:0:56:2016:-181.713,-16.8577,0 0/1:74:41,33:41:1472:33:1166:-82.9699,0,-110.5 0/1:122:58,64:58:2076:64:2254:-166.395,0,-150.385 1/1:67:0,67:0:0:67:2399:-216.166,-20.169,0 0/1:36:15,21:15:540:21:739:-55.9953,0,-38.0995 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.755 0/1:83:49,34:49:1747:34:1209:-84.13,0,-132.528 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 1/1:17:0,17:0:0:17:604:-54.6906,-5.11751,0 0/1:90:50,40:50:1759:40:1428:-101.725,0,-131.5 0/1:51:26,25:26:919:25:896:-65.6078,0,-67.6736 1/1:63:0,63:0:0:63:2243:-202.133,-18.9649,0 1/1:34:0,34:0:0:34:1204:-108.17,-10.235,0 1/1:47:0,47:0:0:47:1676:-151.048,-14.1484,0 0/1:80:36,43:36:1271:43:1512:-112.229,0,-90.5511 0/1:77:29,48:29:1044:48:1682:-128.483,0,-71.0955 1/1:42:0,42:0:0:42:1473:-132.861,-12.6433,0 1/1:54:0,54:0:0:54:1908:-171.995,-16.2556,0 chr10 4214942 . 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T C 38610.1 PASS AB=0.537613;ABP=15.2616;AC=32;AF=0.761905;AN=42;AO=1980;CIGAR=1X;DP=2563;DPB=2563;DPRA=1.02689;EPP=4293.84;EPPR=1264.64;GTI=0;LEN=1;MEANALT=1.1;MQM=38.046;MQMR=30.9208;NS=21;NUMALT=1;ODDS=4.24879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70696;QR=20763;RO=581;RPL=1979;RPP=4293.84;RPPR=1264.64;RPR=1;RUN=1;SAF=0;SAP=4302.53;SAR=1980;SRF=0;SRP=1264.64;SRR=581;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:246:0,246:0:0:246:8795:-753.706,-74.0534,0 1/1:176:0,176:0:0:176:6293:-511.271,-52.9813,0 1/1:155:0,154:0:0:154:5515:-472.619,-46.3586,0 1/1:114:0,114:0:0:114:4062:-345.703,-34.3174,0 0/1:223:98,125:98:3520:125:4460:-315.734,0,-197.696 1/1:107:1,106:1:36:106:3771:-303.382,-29.474,0 0/1:172:81,91:81:2908:91:3246:-212.305,0,-147.659 0/0:119:119,0:119:4259:0:0:0,-35.8226,-311.145 0/1:204:81,123:81:2878:123:4375:-310.753,0,-157.725 0/1:8:3,5:3:108:5:176:-12.1501,0,-5.7195 1/1:6:0,6:0:0:6:216:-18.1446,-1.80618,0 1/1:31:0,31:0:0:31:1112:-93.4149,-9.33193,0 0/1:87:61,26:61:2184:26:917:-53.2552,0,-142.013 0/1:115:45,70:45:1562:70:2504:-180.484,0,-83.3723 1/1:275:0,275:0:0:275:9812:-835.023,-82.7833,0 1/1:96:0,95:0:0:95:3389:-285.136,-28.5979,0 1/1:116:0,116:0:0:116:4152:-354.221,-34.9195,0 0/1:133:76,57:76:2732:57:2032:-129.052,0,-159.374 0/1:55:16,39:16:576:39:1381:-102.607,0,-26.8569 1/1:70:0,70:0:0:70:2520:-212.011,-21.0721,0 1/1:55:0,55:0:0:55:1968:-160.371,-16.5567,0 chr10 4322828 . AAGG AAAC,GAAC 48222.3 PASS AB=0.540918,0.45509;ABP=17.5821,20.5641;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2025,573;CIGAR=2M2X,1X1M2X;DP=2608;DPB=2607.25;DPRA=1.06453,0.980348;EPP=4400.24,1247.26;EPPR=0;GTI=0;LEN=2,4;MEANALT=1.8,2.3;MQM=38.038,30.534;MQMR=0;NS=21;NUMALT=2;ODDS=2.79914;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=70792,20092;QR=0;RO=0;RPL=2025,573;RPP=4400.24,1247.26;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4400.24,1247.26;SAR=2025,573;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:250:0,249,0:0:0:249,0:8773,0:-753.131,-74.9565,0,-753.131,-74.9565,-753.131 1/1:184:0,181,0:0:0:181,0:6358,0:-520.261,-54.4864,0,-520.261,-54.4864,-520.261 1/1:160:0,160,0:0:0:160,0:5603,0:-480.977,-48.1648,0,-480.977,-48.1648,-480.977 1/1:117:0,117,0:0:0:117,0:4089,0:-348.815,-35.2205,0,-348.815,-35.2205,-348.815 1/2:226:0,127,99:0:0:127,99:4447,3477:-578.26,-234.401,-196.17,-344.172,0,-314.37 1/1:110:0,109,1:0:0:109,1:3714,36:-304.051,-32.8123,0,-301.889,-30.3771,-301.588 1/2:173:0,91,81:0:0:91,81:3125,2856:-404.045,-173.696,-146.302,-230.401,0,-206.018 2/2:117:0,0,116:0:0:0,116:0,4047:-298.307,-298.307,-298.307,-34.9195,-34.9195,0 1/2:202:0,122,80:0:0:122,80:4262,2820:-518.088,-191.585,-154.86,-326.814,0,-302.731 1/2:7:0,4,3:0:0:4,3:144,108:-17.4857,-7.22465,-6.02053,-10.5633,0,-9.66018 1/1:6:0,6,0:0:0:6,0:214,0:-18.0425,-1.80618,0,-18.0425,-1.80618,-18.0425 1/1:31:0,31,0:0:0:31,0:1108,0:-93.2343,-9.33193,0,-93.2343,-9.33193,-93.2343 1/2:87:0,27,60:0:0:27,60:921,2121:-217.361,-145.824,-137.696,-71.8572,0,-53.7954 1/2:121:0,74,47:0:0:74,47:2575,1568:-305.971,-107.251,-84.9752,-199.024,0,-184.875 1/1:282:0,281,0:0:0:281,0:9861,0:-841.015,-84.5894,0,-841.015,-84.5894,-841.015 1/1:96:0,96,0:0:0:96,0:3350,0:-284.046,-28.8989,0,-284.046,-28.8989,-284.046 1/1:123:0,123,0:0:0:123,0:4284,0:-366.57,-37.0267,0,-366.57,-37.0267,-366.57 1/2:132:0,59,70:0:0:59,70:2094,2497:-317.337,-160.06,-142.299,-157.314,0,-136.242 1/2:54:0,38,16:0:0:38,16:1293,562:-138.934,-38.3806,-26.9414,-100.86,0,-96.0434 1/1:72:0,72,0:0:0:72,0:2536,0:-214.308,-21.6742,0,-214.308,-21.6742,-214.308 1/1:58:0,58,0:0:0:58,0:2041,0:-167.602,-17.4597,0,-167.602,-17.4597,-167.602 chr10 4322837 . G A 6806.03 PASS AB=0.466189;ABP=12.7018;AC=10;AF=0.238095;AN=42;AO=573;CIGAR=1X;DP=2537;DPB=2537;DPRA=0.990412;EPP=1247.26;EPPR=4265.61;GTI=0;LEN=1;MEANALT=1;MQM=30.5462;MQMR=38.0525;NS=21;NUMALT=1;ODDS=3.94132;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20541;QR=69676;RO=1963;RPL=573;RPP=1247.26;RPPR=4265.61;RPR=0;RUN=1;SAF=0;SAP=1247.26;SAR=573;SRF=0;SRP=4265.61;SRR=1963;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:245:245,0:245:8683:0:0:0,-73.7523,-744.745 0/0:179:179,0:179:6360:0:0:0,-53.8844,-517.283 0/0:155:155,0:155:5500:0:0:0,-46.6596,-470.713 0/0:111:111,0:111:3917:0:0:0,-33.4143,-334.844 0/1:223:126,97:126:4462:97:3472:-195.084,0,-315.954 0/0:109:108,1:108:3821:1:36:0,-30.0761,-307.815 0/1:167:86,81:86:3064:81:2904:-149.09,0,-200.386 1/1:117:0,117:0:0:117:4204:-305.131,-35.2205,0 0/1:197:117,80:117:4168:80:2868:-158.302,0,-295.459 0/1:8:5,3:5:180:3:108:-5.7195,0,-12.4121 0/0:6:6,0:6:216:0:0:0,-1.80618,-18.1446 0/0:29:29,0:29:1032:0:0:0,-8.72987,-86.8457 0/1:86:26,60:26:924:60:2156:-139.411,0,-54.0996 0/1:112:65,47:65:2276:47:1688:-92.5197,0,-161.933 0/0:270:269,0:269:9570:0:0:0,-80.9771,-816.34 0/0:94:94,0:94:3340:0:0:0,-28.2968,-282.857 0/0:118:118,0:118:4172:0:0:0,-35.5215,-357.189 0/1:128:57,71:57:2040:71:2529:-144.822,0,-131.071 0/1:55:39,16:39:1387:16:576:-26.8569,0,-103.014 0/0:71:71,0:71:2544:0:0:0,-21.3731,-213.886 0/0:57:57,0:57:2020:0:0:0,-17.1587,-165.538 chr10 4325384 . GATG GATT 39159.7 PASS AB=0.659176;ABP=179.29;AC=32;AF=0.761905;AN=42;AO=1878;CIGAR=3M1X;DP=2262;DPB=2262;DPRA=1.09242;EPP=4081.04;EPPR=810.798;GTI=1;LEN=1;MEANALT=1.45;MQM=42.2098;MQMR=56.3333;NS=21;NUMALT=1;ODDS=9.51704;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67361;QR=13166;RO=372;RPL=1878;RPP=4081.04;RPPR=810.798;RPR=0;RUN=1;SAF=0;SAP=4081.04;SAR=1878;SRF=0;SRP=810.798;SRR=372;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:171:0,171:0:0:171:6136:-532.45,-51.4761,0 1/1:216:0,216:0:0:216:7749:-678.797,-65.0225,0 1/1:130:0,130:0:0:130:4649:-407.533,-39.1339,0 1/1:116:0,115:0:0:115:4132:-359.23,-34.6185,0 0/1:140:32,107:32:1118:107:3852:-293.637,0,-58.6304 1/1:90:0,89:0:0:89:3200:-278.844,-26.7917,0 0/1:114:60,54:60:2146:54:1944:-136.251,0,-158.847 0/0:99:99,0:99:3510:0:0:0,-29.802,-315.89 0/1:113:51,62:51:1801:62:2220:-160.451,0,-128.177 0/1:8:3,5:3:107:5:180:-12.5576,0,-7.56947 1/1:5:0,5:0:0:5:176:-15.8708,-1.50515,0 1/1:77:0,73:0:0:73:2620:-229.079,-21.9752,0 0/1:86:16,70:16:568:70:2520:-193.674,0,-25.3756 0/1:130:44,85:44:1547:85:3037:-227.004,0,-100 1/1:138:2,136:2:72:136:4892:-421.508,-34.7103,0 1/1:109:0,109:0:0:109:3912:-343.717,-32.8123,0 1/1:116:0,114:0:0:114:4083:-357.074,-34.3174,0 0/1:137:48,89:48:1703:89:3200:-239.096,0,-112.226 0/1:73:17,56:17:594:56:2016:-154.241,0,-31.6871 1/1:109:0,107:0:0:107:3806:-333.903,-32.2102,0 1/1:85:0,85:0:0:85:3037:-266.127,-25.5876,0 chr10 4390708 . GAACTAA AACCTAA,AAGCTAA 27480.3 PASS AB=0.500942,0.491525;ABP=3.01439,3.34154;AC=32,10;AF=0.761905,0.238095;AN=42;AO=757,294;CIGAR=1X1M1X4M,1X1M1X4M;DP=1067;DPB=1067;DPRA=1.67097,1.45152;EPP=1629.49,624.17;EPPR=5.18177;GTI=0;LEN=7,7;MEANALT=2.1,2.3;MQM=53.5324,59.4898;MQMR=60;NS=21;NUMALT=2;ODDS=2.44766;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26054,10189;QR=36;RO=1;RPL=320,130;RPP=42.2775,11.5485;RPPR=5.18177;RPR=437,164;RUN=1,1;SAF=322,132;SAP=39.6385,9.65766;SAR=435,162;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,37,0:0:0:37,0:1248,0:-112.021,-11.1381,0,-112.021,-11.1381,-112.021 1/1:75:0,75,0:0:0:75,0:2603,0:-233.731,-22.5773,0,-233.731,-22.5773,-233.731 1/1:27:0,27,0:0:0:27,0:944,0:-85.1982,-8.12781,0,-85.1982,-8.12781,-85.1982 1/1:42:0,41,0:0:0:41,0:1396,0:-125.411,-12.3422,0,-125.411,-12.3422,-125.411 1/2:97:0,37,60:0:0:37,60:1266,2095:-273.32,-170.744,-159.605,-102.92,0,-84.8586 1/1:34:1,32,0:1:36:32,0:1097,0:-95.1847,-6.64806,0,-95.4857,-9.63296,-98.4238 1/2:72:0,31,40:0:0:31,40:1095,1355:-198.668,-109.905,-100.573,-88.8355,0,-76.7943 2/2:31:0,0,31:0:0:0,31:0,1084:-97.6286,-97.6286,-97.6286,-9.33193,-9.33193,0 1/2:46:0,23,22:0:0:23,22:789,758:-125.452,-61.7065,-54.7828,-63.8794,0,-57.2567 1/2:13:0,4,9:0:0:4,9:122,324:-36.4895,-26.7919,-25.5878,-10.0182,0,-7.30897 1/1:7:0,7,0:0:0:7,0:234,0:-21.3414,-2.10721,0,-21.3414,-2.10721,-21.3414 1/1:5:0,5,0:0:0:5,0:152,0:-13.9691,-1.50515,0,-13.9691,-1.50515,-13.9691 1/2:46:0,30,16:0:0:30,16:1060,551:-131.263,-45.0963,-36.0654,-86.5136,0,-81.6971 1/2:40:0,19,21:0:0:19,21:661,706:-111.143,-57.5138,-51.7943,-53.9709,0,-47.6492 1/1:45:0,43,2:0:0:43,2:1494,72:-134.307,-12.9443,0,-128.431,-6.70963,-127.829 1/1:33:0,31,0:0:0:31,0:1095,0:-98.5105,-9.33193,0,-98.5105,-9.33193,-98.5105 1/1:21:0,21,0:0:0:21,0:736,0:-66.4309,-6.32163,0,-66.4309,-6.32163,-66.4309 1/2:108:0,58,49:0:0:58,49:2002,1685:-298.519,-136.9,-119.44,-161.681,0,-146.931 1/2:109:0,64,44:0:0:64,44:2205,1559:-305.793,-127.116,-107.85,-178.794,0,-165.549 1/1:54:0,53,0:0:0:53,0:1812,0:-162.644,-15.9546,0,-162.644,-15.9546,-162.644 1/1:121:0,119,0:0:0:119,0:4043,0:-361.929,-35.8226,0,-361.929,-35.8226,-361.929 chr10 4390722 . GCA CCG,CCA 27825.9 PASS AB=0.508604,0.489484;ABP=3.34661,3.51269;AC=32,10;AF=0.761905,0.238095;AN=42;AO=766,287;CIGAR=1X1M1X,1X2M;DP=1055;DPB=1055;DPRA=1.76897,1.43384;EPP=1657.68,617.567;EPPR=5.18177;GTI=0;LEN=3,1;MEANALT=1.5,2;MQM=53.4164,59.5993;MQMR=60;NS=21;NUMALT=2;ODDS=3.40057;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26541,10111;QR=36;RO=1;RPL=328,131;RPP=37.3116,7.73912;RPPR=5.18177;RPR=438,156;RUN=1,1;SAF=327,130;SAP=38.5703,8.52599;SAR=439,157;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40,0:0:0:40,0:1365,0:-122.641,-12.0412,0,-122.641,-12.0412,-122.641 1/1:74:0,74,0:0:0:74,0:2611,0:-234.135,-22.2762,0,-234.135,-22.2762,-234.135 1/1:27:0,27,0:0:0:27,0:930,0:-83.9105,-8.12781,0,-83.9105,-8.12781,-83.9105 1/1:41:0,41,0:0:0:41,0:1423,0:-128.188,-12.3422,0,-128.188,-12.3422,-128.188 1/2:94:0,36,57:0:0:36,57:1244,2034:-266.849,-165.929,-155.092,-101.036,0,-83.8771 1/1:33:1,32,0:1:36:32,0:1121,0:-97.1075,-6.33572,0,-97.4085,-9.63296,-100.346 1/2:68:0,31,37:0:0:31,37:1048,1292:-189.979,-105.415,-96.0826,-84.9068,0,-73.7686 2/2:29:0,0,29:0:0:0,29:0,1032:-93.1843,-93.1843,-93.1843,-8.72987,-8.72987,0 1/2:47:0,24,23:0:0:24,23:818,820:-132.975,-67.1988,-59.9741,-66.1237,0,-59.2 1/2:13:0,4,9:0:0:4,9:121,324:-36.4165,-26.7919,-25.5878,-9.94382,0,-7.23455 1/1:7:0,7,0:0:0:7,0:252,0:-22.9711,-2.10721,0,-22.9711,-2.10721,-22.9711 1/1:5:0,5,0:0:0:5,0:162,0:-14.8882,-1.50515,0,-14.8882,-1.50515,-14.8882 1/2:45:0,29,16:0:0:29,16:1018,558:-128.428,-45.73,-37.0001,-83.0468,0,-78.2303 1/2:40:0,19,21:0:0:19,21:658,719:-112.054,-58.6999,-52.9803,-53.6981,0,-47.3765 1/1:45:0,43,2:0:0:43,2:1521,72:-136.731,-12.9443,0,-130.856,-6.70963,-130.254 1/1:33:0,33,0:0:0:33,0:1172,0:-105.214,-9.93399,0,-105.214,-9.93399,-105.214 1/1:21:0,21,0:0:0:21,0:721,0:-65.0793,-6.32163,0,-65.0793,-6.32163,-65.0793 1/2:106:0,58,48:0:0:58,48:1991,1688:-298.441,-137.749,-120.289,-161.039,0,-146.589 1/2:110:0,65,45:0:0:65,45:2214,1572:-307.257,-128.212,-108.645,-179.391,0,-165.844 1/1:55:0,55,0:0:0:55,0:1881,0:-169.063,-16.5567,0,-169.063,-16.5567,-169.063 1/1:122:0,122,0:0:0:122,0:4270,0:-381.603,-36.7257,0,-381.603,-36.7257,-381.603 chr10 4417030 . C G 7932.77 PASS AB=0.517367;ABP=4.44339;AC=25;AF=0.595238;AN=42;AO=433;CIGAR=1X;DP=765;DPB=765;DPRA=0.5875;EPP=934.592;EPPR=710.937;GTI=2;LEN=1;MEANALT=1.1;MQM=50.5889;MQMR=58.1121;NS=21;NUMALT=1;ODDS=0.984604;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15444;QR=11696;RO=330;RPL=432;RPP=934.592;RPPR=710.937;RPR=1;RUN=1;SAF=433;SAP=943.258;SAR=0;SRF=330;SRP=719.596;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:4,33:4:144:33:1188:-95.2157,0,-2.10404 0/1:15:4,11:4:131:11:392:-30.9391,0,-7.53858 0/1:37:5,32:5:172:32:1148:-91.786,0,-4.58988 0/1:34:7,27:7:248:27:952:-75.1404,0,-12.3585 0/1:31:20,11:20:702:11:392:-26.1023,0,-54.1706 1/1:19:0,19:0:0:19:676:-60.9492,-5.71957,0 0/1:33:18,15:18:631:15:532:-38.0939,0,-46.9316 0/0:60:60,0:60:2105:0:0:0,-18.0618,-189.618 0/1:64:47,17:47:1673:17:608:-35.5724,0,-131.491 0/1:19:16,3:16:576:3:108:-4.30447,0,-45.8725 0/1:10:5,4:5:180:4:144:-10.2112,0,-13.4103 0/1:47:23,24:23:824:24:852:-62.171,0,-60.1984 0/1:89:53,35:53:1887:35:1252:-85.6512,0,-142.41 0/1:47:24,23:24:847:23:824:-60.0078,0,-61.4011 1/1:62:3,59:3:108:59:2120:-179.993,-8.58869,0 1/1:16:0,16:0:0:16:576:-51.8204,-4.81648,0 0/1:14:2,12:2:72:12:419:-33.5992,0,-2.5489 0/1:42:24,18:24:856:18:640:-44.7832,0,-64.7148 0/1:28:10,18:10:360:18:636:-48.9272,0,-24.3155 1/1:38:3,35:3:108:35:1242:-101.581,-1.36397,0 1/1:23:2,21:2:72:21:743:-60.1107,-0.124642,0 chr10 4417139 . G A 9444.83 PASS AB=0.557377;ABP=15.2204;AC=24;AF=0.571429;AN=42;AO=381;CIGAR=1X;DP=622;DPB=622;DPRA=1.25877;EPP=14.5516;EPPR=5.61426;GTI=1;LEN=1;MEANALT=1;MQM=59.9003;MQMR=59.9834;NS=21;NUMALT=1;ODDS=1.11969;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13620;QR=8604;RO=241;RPL=213;RPP=14.5516;RPPR=5.61426;RPR=168;RUN=1;SAF=0;SAP=830.341;SAR=381;SRF=0;SRP=526.335;SRR=241;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.19003 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/1:37:4,33:4:144:33:1177:-95.0993,0,-2.17551 0/1:36:9,27:9:324:27:960:-75.8792,0,-18.6688 0/1:28:16,12:16:568:12:432:-30.7924,0,-43.023 0/1:21:6,15:6:216:15:540:-42.6149,0,-13.4689 0/1:35:22,13:22:792:13:464:-31.5615,0,-61.0696 0/0:21:21,0:21:738:0:0:0,-6.32163,-66.7414 0/1:60:30,30:30:1072:30:1071:-78.411,0,-78.7297 0/0:27:27,0:27:950:0:0:0,-8.12781,-85.8134 0/1:16:14,2:14:504:2:72:-2.02024,0,-40.8816 1/1:12:1,11:1:36:11:392:-32.0218,-0.0140851,0 0/1:40:22,18:22:788:18:648:-46.6107,0,-59.2036 0/1:48:21,27:21:752:27:947:-71.0919,0,-53.5568 1/1:24:1,23:1:36:23:828:-71.2458,-3.62645,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/1:47:30,17:30:1076:17:612:-41.265,0,-83.0044 0/1:31:9,22:9:320:22:792:-62.2737,0,-19.8104 1/1:72:1,71:1:36:71:2529:-224.262,-18.0759,0 1/1:28:1,27:1:36:27:972:-84.1996,-4.83057,0 chr10 4418924 . A G 6940.26 PASS AB=0.375786;ABP=88.244;AC=10;AF=0.238095;AN=42;AO=319;CIGAR=1X;DP=1427;DPB=1427;DPRA=1.29649;EPP=4.5419;EPPR=3.29251;GTI=0;LEN=1;MEANALT=1;MQM=59.6834;MQMR=58.7807;NS=21;NUMALT=1;ODDS=8.21066;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11296;QR=39440;RO=1108;RPL=316;RPP=669.897;RPPR=2297.41;RPR=3;RUN=1;SAF=149;SAP=6.01224;SAR=170;SRF=535;SRP=5.84027;SRR=573;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1603:0:0:0,-13.5463,-144.486 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.346 0/0:41:41,0:41:1460:0:0:0,-12.3422,-131.527 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.605 0/1:86:48,38:48:1708:38:1356:-96.4496,0,-128.005 0/0:52:51,1:51:1791:1:36:0,-12.0553,-157.468 0/1:60:41,19:41:1476:19:667:-42.2928,0,-115.039 1/1:84:5,79:5:180:79:2789:-234.771,-8.91031,0 0/1:106:80,26:80:2856:26:895:-48.9274,0,-225.16 0/1:39:31,8:31:1097:8:288:-14.5272,0,-85.6642 0/0:28:28,0:28:1004:0:0:0,-8.42884,-87.8357 0/0:23:23,0:23:824:0:0:0,-6.92369,-73.77 0/1:62:38,24:38:1334:24:849:-58.0616,0,-101.368 0/1:64:32,32:32:1144:32:1130:-82.7413,0,-83.8152 0/0:136:136,0:136:4841:0:0:0,-40.9401,-435.777 0/0:52:52,0:52:1864:0:0:0,-15.6536,-168.039 0/0:52:52,0:52:1849:0:0:0,-15.6536,-166.688 0/1:147:81,66:81:2864:66:2363:-168.677,0,-213.451 0/1:72:46,26:46:1623:26:923:-61.7126,0,-124.639 0/0:53:53,0:53:1884:0:0:0,-15.9546,-169.839 0/0:106:106,0:106:3766:0:0:0,-31.9092,-339.141 chr10 4418949 . A T 10852.4 PASS AB=0.523438;ABP=4.84248;AC=28;AF=0.666667;AN=42;AO=532;CIGAR=1X;DP=814;DPB=814;DPRA=0.585938;EPP=1140.93;EPPR=304.891;GTI=0;LEN=1;MEANALT=1;MQM=59.9492;MQMR=57.4965;NS=21;NUMALT=1;ODDS=9.1866;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19041;QR=10092;RO=282;RPL=530;RPP=1140.93;RPPR=185.63;RPR=2;RUN=1;SAF=0;SAP=1158.23;SAR=532;SRF=22;SRP=439.184;SRR=260;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:24:1,23:1:36:23:824:-70.8855,-3.62689,0 1/1:31:0,31:0:0:31:1071:-96.6917,-9.33193,0 0/1:31:11,20:11:396:20:720:-55.7968,0,-26.5989 1/1:39:3,36:3:104:36:1296:-107.244,-2.03993,0 0/1:43:20,23:20:720:23:824:-61.539,0,-52.1783 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 0/1:38:16,22:16:576:22:788:-59.8057,0,-40.5648 0/0:64:64,0:64:2300:0:0:0,-19.2659,-204.608 0/1:61:27,34:27:955:34:1224:-92.0996,0,-62.9772 0/0:28:27,1:27:972:1:36:0,-4.83056,-82.7812 0/1:10:5,5:5:180:5:176:-13.1747,0,-13.4336 0/1:11:8,3:8:273:3:108:-6.76384,0,-20.0845 0/1:23:13,10:13:460:10:360:-25.8206,0,-34.7657 0/1:34:22,12:22:784:12:432:-28.9838,0,-60.5503 1/1:88:0,88:0:0:88:3153:-283.948,-26.4906,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 1/1:33:2,31:2:72:31:1116:-93.915,-3.09727,0 0/1:92:40,52:40:1436:52:1872:-141.064,0,-100.56 0/1:41:21,20:21:756:20:720:-52.7865,0,-55.9345 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 1/1:51:2,49:2:72:49:1741:-150.136,-8.51581,0 chr10 4449052 . 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TTT CTG 20093.6 PASS AB=0.510578;ABP=3.69941;AC=31;AF=0.738095;AN=42;AO=1001;CIGAR=1X1M1X;DP=1448;DPB=1448;DPRA=12.0167;EPP=2176.65;EPPR=962.801;GTI=0;LEN=3;MEANALT=1.25;MQM=60;MQMR=59.9095;NS=21;NUMALT=1;ODDS=1.78418;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34996;QR=15165;RO=442;RPL=0;RPP=2176.65;RPPR=962.801;RPR=1001;RUN=1;SAF=0;SAP=2176.65;SAR=1001;SRF=0;SRP=962.801;SRR=442;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92:0:0:92:3226:-290.561,-27.6948,0 1/1:43:0,43:0:0:43:1474:-132.95,-12.9443,0 1/1:46:0,45:0:0:45:1611:-144.92,-13.5464,0 1/1:79:0,79:0:0:79:2764:-249.003,-23.7814,0 0/1:109:49,60:49:1709:60:2048:-151.773,0,-121.283 1/1:60:0,60:0:0:60:2129:-191.879,-18.0618,0 0/1:68:32,35:32:1073:35:1230:-90.4743,0,-76.1118 0/0:93:91,2:91:3135:2:72:0,-21.1591,-275.539 0/1:135:53,82:53:1801:82:2846:-215.74,0,-121.728 0/0:6:6,0:6:190:0:0:0,-1.80618,-17.4102 1/1:8:0,8:0:0:8:275:-25.0838,-2.40824,0 1/1:12:0,12:0:0:12:428:-38.859,-3.61236,0 0/1:80:55,25:55:1894:25:867:-54.2621,0,-146.653 0/1:79:30,49:30:1038:49:1680:-127.701,0,-69.9449 1/1:86:0,86:0:0:86:3042:-274.009,-25.8886,0 1/1:27:0,27:0:0:27:921:-83.1972,-8.12781,0 1/1:37:0,37:0:0:37:1320:-119.102,-11.1381,0 0/1:65:26,38:26:907:38:1339:-101.183,0,-62.3194 0/1:173:100,73:100:3418:73:2523:-175.243,0,-255.765 1/1:100:0,98:0:0:98:3424:-308.059,-29.5009,0 1/1:50:0,50:0:0:50:1777:-160.214,-15.0515,0 chr10 4536458 . T C 7565.16 PASS AB=0.486291;ABP=4.14147;AC=11;AF=0.261905;AN=42;AO=434;CIGAR=1X;DP=1417;DPB=1417;DPRA=1.81346;EPP=945.429;EPPR=2135.4;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9078;MQMR=60;NS=21;NUMALT=1;ODDS=1.94428;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15386;QR=34335;RO=982;RPL=434;RPP=945.429;RPPR=2135.4;RPR=0;RUN=1;SAF=0;SAP=945.429;SAR=434;SRF=0;SRP=2135.4;SRR=982;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:90,1:90:3156:1:36:0,-23.7955,-280.664 0/0:43:43,0:43:1498:0:0:0,-12.9443,-135.109 0/0:46:46,0:46:1629:0:0:0,-13.8474,-146.897 0/0:77:77,0:77:2695:0:0:0,-23.1793,-242.792 0/1:105:56,49:56:1936:49:1760:-127.076,0,-142.901 0/0:58:58,0:58:2057:0:0:0,-17.4597,-185.4 0/1:65:35,30:35:1218:30:1046:-74.6511,0,-90.3524 1/1:93:2,91:2:72:91:3214:-282.643,-21.1591,0 0/1:133:81,51:81:2809:51:1775:-119.971,0,-212.99 1/1:5:0,5:0:0:5:161:-14.8066,-1.50515,0 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:12:12,0:12:400:0:0:0,-3.61236,-36.3193 0/1:79:24,55:24:826:55:1953:-152.262,0,-50.8703 0/1:78:49,29:49:1724:29:1044:-70.7945,0,-131.962 0/0:83:83,0:83:2904:0:0:0,-24.9855,-261.592 0/0:24:24,0:24:806:0:0:0,-7.22472,-72.8452 0/0:36:36,0:36:1269:0:0:0,-10.8371,-114.511 0/1:63:39,24:39:1362:24:856:-58.3957,0,-103.909 0/1:170:71,99:71:2491:99:3541:-267.722,0,-173.265 0/0:99:99,0:99:3435:0:0:0,-29.802,-309.359 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 chr10 4566058 . A G 7478.66 PASS AB=0.444005;ABP=23.6808;AC=10;AF=0.238095;AN=42;AO=400;CIGAR=1X;DP=1732;DPB=1732;DPRA=1.08899;EPP=871.599;EPPR=2895.41;GTI=1;LEN=1;MEANALT=1;MQM=44.7125;MQMR=59.5758;NS=21;NUMALT=1;ODDS=1.25145;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14086;QR=47360;RO=1332;RPL=205;RPP=3.55317;RPPR=98.4834;RPR=195;RUN=1;SAF=205;SAP=3.55317;SAR=195;SRF=545;SRP=98.4834;SRR=787;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:119,4:119:4220:4:144:0,-26.2865,-369.227 0/0:62:61,1:61:2175:1:36:0,-15.0656,-192.378 0/0:55:54,1:54:1936:1:36:0,-12.9584,-170.906 0/0:106:106,0:106:3796:0:0:0,-31.9092,-341.826 0/1:138:88,50:88:3145:50:1745:-100.071,0,-241.722 0/0:38:36,2:36:1250:2:72:0,-5.59001,-106.949 0/1:102:54,48:54:1928:48:1709:-106.701,0,-142.383 1/1:54:0,54:0:0:54:1902:-141.563,-16.2556,0 0/1:92:40,52:40:1432:52:1843:-126.87,0,-101.48 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5488 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:44:44,0:44:1562:0:0:0,-13.2453,-140.835 0/1:94:48,46:48:1720:46:1612:-103.244,0,-126.786 0/1:55:30,25:30:1047:25:885:-53.9788,0,-77.9751 0/0:172:172,0:172:6102:0:0:0,-51.7772,-548.483 0/0:36:36,0:36:1283:0:0:0,-10.8371,-115.772 0/0:61:61,0:61:2160:0:0:0,-18.3628,-194.392 0/1:163:87,76:87:3111:76:2642:-174.377,0,-231.127 0/1:106:67,39:67:2384:39:1388:-79.6185,0,-182.897 0/0:122:122,0:122:4311:0:0:0,-36.7257,-387.771 0/0:96:95,1:95:3366:1:36:0,-25.3006,-299.411 chr10 4566697 . TTTTT CTTTA,TTTTA 27061.4 PASS AB=0.539792,0.456747;ABP=10.9598,12.4025;AC=32,10;AF=0.761905,0.238095;AN=42;AO=976,291;CIGAR=1X3M1X,4M1X;DP=1272;DPB=1272;DPRA=2.30556,1.18254;EPP=2122.37,626.253;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.65,2.2;MQM=59.7951,59.7698;MQMR=0;NS=21;NUMALT=2;ODDS=9.59124;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34495,10375;QR=0;RO=0;RPL=976,290;RPP=2122.37,626.253;RPPR=0;RPR=0,1;RUN=1,1;SAF=0,0;SAP=2122.37,634.909;SAR=976,291;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,31,0:0:0:31,0:1070,0:-96.607,-9.33193,0,-96.607,-9.33193,-96.607 1/1:171:0,169,0:0:0:169,0:5985,0:-538.447,-50.8741,0,-538.447,-50.8741,-538.447 1/1:24:0,24,0:0:0:24,0:843,0:-75.9603,-7.22472,0,-75.9603,-7.22472,-75.9603 1/1:87:0,87,0:0:0:87,0:3076,0:-276.91,-26.1896,0,-276.91,-26.1896,-276.91 1/2:120:0,65,55:0:0:65,55:2307,1961:-348.177,-160.208,-140.641,-188.325,0,-171.768 1/1:53:0,53,0:0:0:53,0:1886,0:-170.019,-15.9546,0,-170.019,-15.9546,-170.019 1/2:101:0,48,53:0:0:48,53:1699,1889:-292.723,-154.332,-139.882,-138.746,0,-122.791 2/2:27:0,0,26:0:0:0,26:0,936:-84.1996,-84.1996,-84.1996,-7.82678,-7.82678,0 1/2:102:0,49,53:0:0:49,53:1716,1889:-293.175,-154.332,-139.581,-139.196,0,-123.241 1/2:9:0,3,5:0:0:3,5:108,165:-21.9575,-13.1322,-12.2291,-8.85716,0,-7.35201 1/1:5:0,5,0:0:0:5,0:165,0:-15.1755,-1.50515,0,-15.1755,-1.50515,-15.1755 1/1:18:0,18,0:0:0:18,0:632,0:-57.2032,-5.41854,0,-57.2032,-5.41854,-57.2032 1/2:55:0,24,31:0:0:24,31:846,1104:-159.219,-90.3387,-83.114,-69.2342,0,-59.9023 1/2:38:0,22,16:0:0:22,16:767,572:-109.142,-46.7685,-40.1458,-62.7263,0,-57.9098 1/1:46:0,46,0:0:0:46,0:1625,0:-146.536,-13.8474,0,-146.536,-13.8474,-146.536 1/1:51:0,51,0:0:0:51,0:1778,0:-160.191,-15.3525,0,-160.191,-15.3525,-160.191 1/1:54:0,53,1:0:0:53,1:1865,36:-167.761,-15.9546,0,-164.828,-12.6624,-164.527 1/2:78:0,39,38:0:0:39,38:1395,1355:-224.203,-110.451,-98.7107,-113.749,0,-102.31 1/2:75:0,62,13:0:0:62,13:2213,468:-218.958,-38.5463,-19.8824,-180.771,0,-176.858 1/1:67:0,67,0:0:0:67,0:2406,0:-216.797,-20.169,0,-216.797,-20.169,-216.797 1/1:60:0,60,0:0:0:60,0:2113,0:-190.439,-18.0618,0,-190.439,-18.0618,-190.439 chr10 4568680 . G A 18024.6 PASS AB=0.444598;ABP=22.2588;AC=32;AF=0.761905;AN=42;AO=897;CIGAR=1X;DP=1416;DPB=1416;DPRA=0.582143;EPP=1950.82;EPPR=1125.66;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9889;MQMR=60;NS=21;NUMALT=1;ODDS=1.79242;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31962;QR=18398;RO=517;RPL=0;RPP=1950.82;RPPR=1125.66;RPR=897;RUN=1;SAF=0;SAP=1950.82;SAR=897;SRF=0;SRP=1125.66;SRR=517;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43:0:0:43:1538:-138.713,-12.9443,0 1/1:37:0,37:0:0:37:1316:-118.742,-11.1381,0 1/1:58:0,58:0:0:58:2076:-187.111,-17.4597,0 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 0/1:83:44,39:44:1562:39:1396:-100.954,0,-115.885 1/1:57:3,54:3:108:54:1916:-162.642,-7.08354,0 0/1:98:63,35:63:2256:35:1227:-81.2299,0,-173.802 0/0:112:111,0:111:3964:0:0:0,-33.4143,-356.59 0/1:184:104,80:104:3722:80:2849:-201.257,0,-279.79 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:41:0,41:0:0:41:1451:-130.885,-12.3422,0 0/1:153:85,68:85:3042:68:2416:-171.638,0,-227.951 0/1:60:38,22:38:1311:22:788:-53.183,0,-100.224 1/1:119:1,118:1:36:118:4198:-374.402,-32.2243,0 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 0/1:64:34,30:34:1192:30:1061:-76.5339,0,-88.3165 0/1:70:28,41:28:989:41:1470:-111.465,0,-68.1914 1/1:76:0,76:0:0:76:2703:-243.514,-22.8783,0 1/1:31:2,29:2:72:29:1033:-86.4457,-2.49521,0 chr10 4572393 . 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GG GA,TA 39869.3 PASS AB=0.602689,0.396088;ABP=77.9341,79.7286;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1459,381;CIGAR=1M1X,2X;DP=1842;DPB=1842;DPRA=1.56579,1.20648;EPP=3171.19,830.341;EPPR=7.35324;GTI=0;LEN=1,2;MEANALT=1.4,1.88889;MQM=59.9767,59.5906;MQMR=60;NS=21;NUMALT=2;ODDS=19.7184;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52246,13505;QR=72;RO=2;RPL=0,0;RPP=3171.19,830.341;RPPR=7.35324;RPR=1459,381;RUN=1,1;SAF=1459,381;SAP=3171.19,830.341;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:0,133,0:0:0:133,0:4776,0:-429.992,-40.037,0,-429.992,-40.037,-429.992 1/1:71:0,71,0:0:0:71,0:2552,0:-229.703,-21.3731,0,-229.703,-21.3731,-229.703 1/1:107:0,107,0:0:0:107,0:3837,0:-345.524,-32.2102,0,-345.524,-32.2102,-345.524 1/1:57:0,57,0:0:0:57,0:2035,0:-183.422,-17.1587,0,-183.422,-17.1587,-183.422 1/2:151:0,92,59:0:0:92,59:3297,2077:-438.034,-169.136,-141.441,-269.252,0,-251.491 1/1:73:1,72,0:1:36:72,0:2584,0:-229.211,-18.3769,0,-229.512,-21.6742,-232.449 1/2:113:0,71,42:0:0:71,42:2549,1492:-329.775,-121.844,-100.471,-208.287,0,-195.644 2/2:57:0,0,57:0:0:0,57:0,2019:-181.982,-181.982,-181.982,-17.1587,-17.1587,0 1/2:158:0,115,43:0:0:115,43:4098,1542:-460.086,-126.059,-91.4409,-334.384,0,-321.44 1/2:41:0,24,17:0:0:24,17:852,610:-119.534,-50.1153,-42.8906,-69.7757,0,-64.6582 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:66:0,66,0:0:0:66,0:2357,0:-212.387,-19.868,0,-212.387,-19.868,-212.387 1/2:64:0,38,26:0:0:38,26:1368,932:-187.995,-76.3723,-64.9332,-111.982,0,-104.155 1/2:70:0,34,36:0:0:34,36:1220,1282:-204.36,-104.846,-94.611,-99.8718,0,-89.0347 1/1:194:0,194,0:0:0:194,0:6930,0:-623.764,-58.3998,0,-623.764,-58.3998,-623.764 1/1:82:0,82,0:0:0:82,0:2952,0:-265.913,-24.6845,0,-265.913,-24.6845,-265.913 1/1:42:0,42,0:0:0:42,0:1512,0:-136.375,-12.6433,0,-136.375,-12.6433,-136.375 1/2:158:1,81,76:1:36:81,76:2897,2659:-449.023,-213.095,-191.649,-233.284,0,-213.343 1/2:63:0,38,25:0:0:38,25:1364,892:-184.338,-73.0744,-61.6352,-111.622,0,-104.096 1/1:68:0,68,0:0:0:68,0:2440,0:-219.855,-20.47,0,-219.855,-20.47,-219.855 1/1:64:0,64,0:0:0:64,0:2266,0:-204.199,-19.2659,0,-204.199,-19.2659,-204.199 chr10 4717781 . A G 11932.3 PASS AB=0.474974;ABP=8.33584;AC=10;AF=0.238095;AN=42;AO=660;CIGAR=1X;DP=2572;DPB=2572;DPRA=1.22719;EPP=1436.18;EPPR=4154.87;GTI=0;LEN=1;MEANALT=1;MQM=59.9894;MQMR=59.9948;NS=21;NUMALT=1;ODDS=4.71043;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23536;QR=68237;RO=1912;RPL=0;RPP=1436.18;RPPR=4154.87;RPR=660;RUN=1;SAF=660;SAP=1436.18;SAR=0;SRF=1912;SRP=4154.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:169:166,3:166:5902:3:108:0,-40.7989,-521.216 0/0:122:122,0:122:4364:0:0:0,-36.7257,-392.935 0/0:161:160,1:160:5697:1:36:0,-44.8676,-509.252 0/0:109:107,2:107:3828:2:72:0,-25.9755,-337.88 0/1:205:119,86:119:4261:86:3053:-213.288,0,-321.955 0/0:88:88,0:88:3103:0:0:0,-26.4906,-279.495 0/1:128:65,63:65:2336:63:2260:-165.131,0,-171.967 1/1:188:0,188:0:0:188:6684:-601.64,-56.5936,0 0/1:123:62,61:62:2216:61:2184:-159.799,0,-162.678 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/1:138:74,64:74:2648:64:2299:-165.629,0,-197.024 0/1:106:58,48:58:2050:48:1699:-121.285,0,-152.859 0/0:288:288,0:288:10286:0:0:0,-86.6966,-925.659 0/0:107:106,1:106:3804:1:36:0,-28.6119,-338.959 0/0:118:118,0:118:4173:0:0:0,-35.5215,-375.756 0/1:168:76,92:76:2724:92:3290:-245.741,0,-194.83 0/1:98:54,44:54:1917:44:1563:-111.46,0,-143.304 0/0:127:127,0:127:4548:0:0:0,-38.2308,-409.486 0/0:61:61,0:61:2188:0:0:0,-18.3628,-197.186 chr10 4718815 . TACCA TACCG 22824.7 PASS AB=0.491957;ABP=3.42946;AC=32;AF=0.761905;AN=42;AO=1094;CIGAR=4M1X;DP=1584;DPB=1584.4;DPRA=0.683333;EPP=2378.6;EPPR=1045.32;GTI=1;LEN=1;MEANALT=1.3;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.28974;PAIRED=0;PAIREDR=0;PAO=1;PQA=34;PQR=0;PRO=0;QA=39077;QR=16873;RO=480;RPL=0;RPP=2378.6;RPPR=1045.32;RPR=1094;RUN=1;SAF=1094;SAP=2378.6;SAR=0;SRF=480;SRP=1045.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:25:0,25:0:0:25:892:-80.5997,-7.52575,0 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 1/1:100:0,100:0:0:100:3584:-322.767,-30.103,0 1/1:72:0,72:0:0:72:2572:-231.671,-21.6742,0 0/1:144:72,70:72:2523:70:2512:-183.255,0,-184.246 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 0/1:138:61,76:61:2156:76:2724:-203.802,0,-152.706 0/0:108:106,0:106:3733:0:0:0,-31.9092,-335.816 0/1:136:76,60:76:2689:60:2140:-151.928,0,-201.317 0/1:12:8,4:8:280:4:144:-9.70126,0,-21.9266 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:11:0,11:0:0:11:383:-34.8024,-3.31133,0 0/1:41:23,15:23:812:15:540:-37.1403,0,-61.6055 0/1:96:56,40:56:1943:40:1366:-94.3337,0,-146.246 1/1:192:1,190:1:31:190:6800:-609.007,-54.6722,0 1/1:51:0,51:0:0:51:1824:-164.441,-15.3525,0 1/1:67:0,66:0:0:66:2345:-211.056,-19.868,0 0/1:141:68,73:68:2391:73:2607:-192.433,0,-173.003 0/1:38:9,29:9:315:29:1032:-81.6962,0,-17.1946 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 chr10 4719032 . TTTT CTTC 3691.83 PASS AB=0.423676;ABP=19.2524;AC=10;AF=0.238095;AN=42;AO=170;CIGAR=1X2M1X;DP=632;DPB=632;DPRA=1.65873;EPP=3.8278;EPPR=9.18185;GTI=0;LEN=4;MEANALT=1.2;MQM=59.1647;MQMR=59.9956;NS=21;NUMALT=1;ODDS=3.92131;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5985;QR=16066;RO=456;RPL=170;RPP=372.161;RPPR=967.315;RPR=0;RUN=1;SAF=81;SAP=3.8278;SAR=89;SRF=245;SRP=8.51517;SRR=211;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:25,1:25:898:1:30:0,-4.82721,-78.1413 0/0:11:11,0:11:389:0:0:0,-3.31133,-35.3479 0/0:8:8,0:8:269:0:0:0,-2.40824,-24.5367 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3148 0/1:35:19,16:19:663:16:560:-40.1918,0,-49.458 0/0:20:20,0:20:707:0:0:0,-6.0206,-63.9553 0/1:35:20,15:20:707:15:532:-37.63,0,-53.4183 1/1:33:0,33:0:0:33:1167:-105.332,-9.93399,0 0/1:34:16,16:16:576:16:575:-42.1152,0,-42.2356 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/0:4:4,0:4:131:0:0:0,-1.20412,-12.1138 0/0:5:5,0:5:179:0:0:0,-1.50515,-16.4604 0/1:40:28,12:28:979:12:427:-26.7114,0,-76.3811 0/1:29:17,12:17:590:12:415:-28.9504,0,-44.6949 0/0:31:31,0:31:1104:0:0:0,-9.33193,-99.671 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3365 0/0:8:8,0:8:286:0:0:0,-2.40824,-26.0856 0/1:71:37,34:37:1276:34:1166:-83.7996,0,-93.7648 0/1:70:43,26:43:1494:26:933:-63.1968,0,-113.658 0/0:29:29,0:29:1041:0:0:0,-8.72987,-94.0047 0/0:94:91,0:91:3205:0:0:0,-27.3937,-288.328 chr10 4797414 . TCGAC ATGAC,ATGAT 13139.6 PASS AB=0.679443,0.299652;ABP=83.2791,103.072;AC=32,10;AF=0.761905,0.238095;AN=42;AO=468,96;CIGAR=2X3M,2X2M1X;DP=570;DPB=570;DPRA=2.8,1.45055;EPP=15.5566,6.26751;EPPR=0;GTI=1;LEN=2,5;MEANALT=1.7,2.55556;MQM=37.7222,24.7396;MQMR=0;NS=21;NUMALT=2;ODDS=1.8317;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=16212,3367;QR=0;RO=0;RPL=467,96;RPP=1010.59,211.472;RPPR=0;RPR=1,0;RUN=1,1;SAF=259,54;SAP=14.61,6.26751;SAR=209,42;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:18:0,18,0:0:0:18,0:626,0:-53.6652,-5.41854,0,-53.6652,-5.41854,-53.6652 1/1:19:0,19,0:0:0:19,0:656,0:-56.0072,-5.71957,0,-56.0072,-5.71957,-56.0072 1/1:8:0,8,0:0:0:8,0:284,0:-24.4866,-2.40824,0,-24.4866,-2.40824,-24.4866 1/1:21:0,21,0:0:0:21,0:739,0:-62.788,-6.32163,0,-62.788,-6.32163,-62.788 1/2:30:0,22,8:0:0:22,8:765,286:-73.274,-15.1588,-8.53614,-58.3788,0,-55.9706 1/1:24:0,24,0:0:0:24,0:860,0:-73.1902,-7.22472,0,-73.1902,-7.22472,-73.1902 1/2:30:0,18,10:0:0:18,10:608,353:-65.4386,-19.068,-13.6495,-46.3551,0,-43.3448 2/2:10:0,0,10:0:0:0,10:0,353:-22.3632,-22.3632,-22.3632,-3.0103,-3.0103,0 1/2:36:0,26,10:0:0:26,10:894,347:-86.436,-18.076,-10.2492,-68.6177,0,-65.6074 1/2:10:0,5,5:0:0:5,5:173,174:-23.059,-9.76358,-8.25843,-13.5819,0,-12.0767 1/1:7:0,7,0:0:0:7,0:235,0:-20.2494,-2.10721,0,-20.2494,-2.10721,-20.2494 1/1:9:0,9,0:0:0:9,0:324,0:-27.7783,-2.70927,0,-27.7783,-2.70927,-27.7783 1/2:22:0,13,8:0:0:13,8:450,287:-49.7119,-15.3499,-11.4365,-34.3927,0,-31.9845 1/2:17:0,12,4:0:0:12,4:408,143:-38.6565,-7.6906,-4.07824,-31.0026,0,-29.7984 1/1:38:0,38,0:0:0:38,0:1284,0:-108.869,-11.4391,0,-108.869,-11.4391,-108.869 1/1:14:0,14,0:0:0:14,0:489,0:-41.7034,-4.21442,0,-41.7034,-4.21442,-41.7034 1/1:12:0,12,0:0:0:12,0:397,0:-34.1104,-3.61236,0,-34.1104,-3.61236,-34.1104 1/2:73:0,46,25:0:0:46,25:1584,859:-168.605,-46.9917,-33.1443,-121.652,0,-114.127 1/2:69:0,53,16:0:0:53,16:1837,565:-171.56,-30.6768,-14.7222,-141.147,0,-136.331 1/1:15:0,15,0:0:0:15,0:525,0:-45.013,-4.51545,0,-45.013,-4.51545,-45.013 1/1:88:0,88,0:0:0:88,0:3074,0:-262.842,-26.4906,0,-262.842,-26.4906,-262.842 chr10 4834441 . G A 34834.7 PASS AB=0.450085;ABP=28.5903;AC=32;AF=0.761905;AN=42;AO=1680;CIGAR=1X;DP=2536;DPB=2536;DPRA=0;EPP=3651.08;EPPR=1861.79;GTI=1;LEN=1;MEANALT=1;MQM=59.6821;MQMR=59.8376;NS=21;NUMALT=1;ODDS=17.4081;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59935;QR=30289;RO=856;RPL=0;RPP=3651.08;RPPR=1861.79;RPR=1680;RUN=1;SAF=1680;SAP=3651.08;SAR=0;SRF=856;SRP=1861.79;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:108:0,108:0:0:108:3810:-343.077,-32.5112,0 1/1:76:0,76:0:0:76:2713:-244.367,-22.8783,0 1/1:137:0,137:0:0:137:4924:-443.28,-41.2411,0 1/1:148:0,148:0:0:148:5301:-477.199,-44.5524,0 0/1:256:152,104:152:5335:104:3709:-256.848,0,-403.219 1/1:102:0,102:0:0:102:3629:-326.779,-30.7051,0 0/1:169:96,73:96:3395:73:2605:-183.803,0,-254.889 0/0:207:206,1:206:7321:1:36:0,-58.7149,-655.256 0/1:276:163,113:163:5765:113:4004:-277.413,0,-435.76 0/1:15:4,11:4:144:11:392:-31.1046,0,-8.79817 1/1:10:0,10:0:0:10:345:-31.3808,-3.0103,0 1/1:49:0,49:0:0:49:1764:-159.039,-14.7505,0 0/1:174:89,85:89:3196:85:3045:-221.894,0,-235.482 0/1:151:76,75:76:2648:75:2658:-194,0,-192.978 1/1:209:0,209:0:0:209:7459:-671.286,-62.9153,0 1/1:77:0,77:0:0:77:2730:-245.926,-23.1793,0 1/1:72:0,72:0:0:72:2573:-231.728,-21.6742,0 0/1:72:50,22:50:1773:22:788:-49.5706,0,-138.169 0/1:69:20,49:20:712:49:1764:-138.268,0,-43.6356 1/1:103:0,103:0:0:103:3678:-330.891,-31.0061,0 1/1:56:0,56:0:0:56:2008:-180.955,-16.8577,0 chr10 4834525 . TTATG CTATG,CTATT 41361.9 PASS AB=0.477376,0.5181;ABP=6.94057,5.52567;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1366,561;CIGAR=1X4M,1X3M1X;DP=1933;DPB=1933.4;DPRA=0.906931,1.43433;EPP=2969.24,1221.21;EPPR=7.35324;GTI=1;LEN=1,5;MEANALT=1.65,2.1;MQM=59.9597,59.6292;MQMR=60;NS=21;NUMALT=2;ODDS=5.65158;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=48689,19878;QR=72;RO=2;RPL=1366,561;RPP=2969.24,1221.21;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2969.24,1221.21;SAR=1366,561;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,60,0:0:0:60,0:2141,0:-192.948,-18.0618,0,-192.948,-18.0618,-192.948 1/1:76:0,75,0:0:0:75,0:2669,0:-240.095,-22.5773,0,-240.095,-22.5773,-240.095 1/1:46:0,46,0:0:0:46,0:1652,0:-148.968,-13.8474,0,-148.968,-13.8474,-148.968 1/1:116:0,116,0:0:0:116,0:4119,0:-370.832,-34.9195,0,-370.832,-34.9195,-370.832 1/2:166:0,75,90:0:0:75,90:2662,3181:-476.111,-259.218,-236.641,-217.05,0,-189.957 1/1:98:0,98,0:0:0:98,0:3524,0:-317.368,-29.5009,0,-317.368,-29.5009,-317.368 1/2:156:2,58,95:2:72:58,95:2054,3362:-434.604,-267.9,-256.315,-161.425,0,-138.703 2/2:101:0,0,101:0:0:0,101:0,3582:-322.161,-322.161,-322.161,-30.404,-30.404,0 1/2:156:0,81,75:0:0:81,75:2858,2642:-448.112,-215.392,-191.009,-233.013,0,-210.435 1/2:14:0,2,12:0:0:2,12:72,430:-41.3029,-35.4278,-34.8258,-6.23466,0,-2.6223 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 1/1:35:0,35,0:0:0:35,0:1260,0:-113.705,-10.5361,0,-113.705,-10.5361,-113.705 1/2:124:0,61,63:0:0:61,63:2177,2240:-360.366,-182.89,-164.527,-177.832,0,-158.867 1/2:105:0,57,48:0:0:57,48:2040,1710:-305.711,-139.355,-122.196,-166.713,0,-152.264 1/1:195:0,195,0:0:0:195,0:6981,0:-628.352,-58.7009,0,-628.352,-58.7009,-628.352 1/1:79:0,79,0:0:0:79,0:2806,0:-252.721,-23.7814,0,-252.721,-23.7814,-252.721 1/1:71:0,71,0:0:0:71,0:2525,0:-227.5,-21.3731,0,-227.5,-21.3731,-227.5 1/2:86:0,40,46:0:0:40,46:1440,1628:-250.44,-132.94,-120.899,-117.857,0,-104.009 1/2:77:0,48,29:0:0:48,29:1724,1031:-225.006,-84.3714,-69.9219,-140.991,0,-132.261 1/1:109:0,107,2:0:0:107,2:3802,72:-342.016,-32.2102,0,-336.141,-25.9755,-335.539 1/1:52:0,51,0:0:0:51,0:1791,0:-161.107,-15.3525,0,-161.107,-15.3525,-161.107 chr10 4847550 . G T 62494.6 PASS AB=0.504279;ABP=3.25189;AC=32;AF=0.761905;AN=42;AO=2336;CIGAR=1X;DP=3240;DPB=3240;DPRA=1.11547;EPP=5075.57;EPPR=1957.35;GTI=1;LEN=1;MEANALT=1;MQM=59.9473;MQMR=59.979;NS=21;NUMALT=1;ODDS=3.22096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83029;QR=32124;RO=904;RPL=1232;RPP=18.2404;RPPR=23.3414;RPR=1104;RUN=1;SAF=1232;SAP=18.2404;SAR=1104;SRF=405;SRP=24.235;SRR=499;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:225:4,221:4:135:221:7887:-697.375,-55.2492,0 1/1:94:0,94:0:0:94:3347:-301.448,-28.2968,0 1/1:135:0,135:0:0:135:4790:-431.256,-40.6391,0 1/1:168:0,168:0:0:168:5994:-539.559,-50.573,0 0/1:212:120,92:120:4269:92:3274:-231.032,0,-320.571 1/1:94:5,89:5:180:89:3155:-267.625,-11.7448,0 0/1:240:118,122:118:4191:122:4318:-316.545,0,-305.124 0/0:139:139,0:139:4940:0:0:0,-41.8432,-444.734 0/1:331:161,170:161:5721:170:6068:-446.583,0,-415.37 0/1:15:8,7:8:284:7:248:-18.1487,0,-21.3879 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:38:0,38:0:0:38:1338:-120.718,-11.4391,0 0/1:221:115,106:115:4088:106:3762:-272.254,0,-301.579 0/1:198:98,100:98:3459:100:3527:-258.034,0,-251.919 1/1:188:0,188:0:0:188:6681:-601.368,-56.5936,0 1/1:97:0,97:0:0:97:3470:-312.51,-29.1999,0 1/1:74:1,73:1:36:73:2616:-232.089,-18.6779,0 0/1:142:80,62:80:2859:62:2212:-156.599,0,-214.801 0/1:160:53,107:53:1890:107:3784:-292.593,0,-122.212 1/1:307:1,306:1:36:306:10869:-974.515,-88.8179,0 1/1:155:1,154:1:36:154:5437:-485.334,-43.0614,0 chr10 4849837 . C T 6233.05 PASS AB=0.518405;ABP=4.92866;AC=10;AF=0.238095;AN=42;AO=363;CIGAR=1X;DP=1238;DPB=1238;DPRA=1.70784;EPP=791.255;EPPR=1894.37;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.215439;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13002;QR=31219;RO=875;RPL=363;RPP=791.255;RPPR=1894.37;RPR=0;RUN=1;SAF=0;SAP=791.255;SAR=363;SRF=0;SRP=1903.05;SRR=875;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:72,0:72:2580:0:0:0,-21.6742,-232.449 0/0:58:58,0:58:2061:0:0:0,-17.4597,-185.759 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.637 0/1:169:69,100:69:2453:100:3569:-270.543,0,-170.149 0/0:70:70,0:70:2470:0:0:0,-21.0721,-222.552 0/1:93:44,49:44:1584:49:1756:-130.328,0,-114.856 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 0/1:207:94,113:94:3346:113:4045:-301.923,0,-239.042 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:72:40,32:40:1391:32:1152:-82.316,0,-103.807 0/1:38:19,19:19:684:19:684:-50.4512,0,-50.4512 0/0:44:44,0:44:1565:0:0:0,-13.2453,-141.14 0/0:75:75,0:75:2688:0:0:0,-22.5772,-242.165 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.73 0/1:37:25,12:25:900:12:432:-28.0831,0,-70.1829 0/1:29:19,10:19:676:10:360:-24.0144,0,-52.4381 0/0:77:76,1:76:2724:1:36:0,-19.581,-241.805 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 chr10 4896957 . A C 15491.3 PASS AB=0.47081;ABP=6.94022;AC=32;AF=0.761905;AN=42;AO=886;CIGAR=1X;DP=1251;DPB=1251;DPRA=0.762338;EPP=1892.35;EPPR=795.598;GTI=0;LEN=1;MEANALT=1;MQM=33.9571;MQMR=59.2767;NS=21;NUMALT=1;ODDS=2.33221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31690;QR=13062;RO=365;RPL=4;RPP=1892.35;RPPR=795.598;RPR=882;RUN=1;SAF=0;SAP=1926.93;SAR=886;SRF=0;SRP=795.598;SRR=365;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68:0:0:68:2432:-193.647,-20.47,0 1/1:68:0,68:0:0:68:2448:-195.383,-20.47,0 1/1:69:1,68:1:36:68:2436:-188.742,-17.2043,0 1/1:48:1,47:1:36:47:1684:-131.17,-10.8826,0 0/1:122:81,41:81:2887:41:1468:-78.6014,0,-223.341 1/1:51:0,51:0:0:51:1824:-147.954,-15.3525,0 0/1:89:39,50:39:1400:50:1796:-118.68,0,-98.7294 0/0:77:77,0:77:2759:0:0:0,-23.1793,-248.459 0/1:111:57,54:57:2040:54:1940:-120.46,0,-150.458 0/1:22:8,14:8:288:14:504:-34.4924,0,-19.6447 1/1:8:0,8:0:0:8:288:-22.8143,-2.40824,0 1/1:19:0,19:0:0:19:684:-55.8818,-5.71957,0 0/1:47:20,27:20:712:27:953:-62.4274,0,-50.0919 0/1:42:23,19:23:828:19:676:-41.6939,0,-62.1724 1/1:150:2,148:2:72:148:5276:-412.492,-38.3178,0 1/1:33:0,33:0:0:33:1180:-92.8159,-9.93399,0 1/1:58:1,57:1:32:57:2048:-158.965,-14.2733,0 0/1:60:33,27:33:1184:27:963:-59.7191,0,-88.7617 0/1:38:20,18:20:720:18:615:-36.5612,0,-53.6189 1/1:45:2,43:2:68:43:1539:-116.919,-7.08864,0 1/1:26:0,26:0:0:26:936:-75.3709,-7.82678,0 chr10 4896970 . C T 15587.8 PASS AB=0.478343;ABP=5.17359;AC=32;AF=0.761905;AN=42;AO=896;CIGAR=1X;DP=1254;DPB=1254;DPRA=0.775;EPP=1948.65;EPPR=778.226;GTI=0;LEN=1;MEANALT=1.05;MQM=33.9877;MQMR=59.3389;NS=21;NUMALT=1;ODDS=3.12625;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32086;QR=12751;RO=357;RPL=896;RPP=1948.65;RPPR=778.226;RPR=0;RUN=1;SAF=0;SAP=1948.65;SAR=896;SRF=0;SRP=778.226;SRR=357;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68:0:0:68:2435:-193.568,-20.47,0 1/1:68:0,68:0:0:68:2440:-194.982,-20.47,0 1/1:68:0,68:0:0:68:2426:-192.302,-20.47,0 1/1:48:0,48:0:0:48:1720:-137.948,-14.4494,0 0/1:120:79,41:79:2827:41:1476:-79.5644,0,-218.545 1/1:51:0,51:0:0:51:1821:-147.625,-15.3525,0 0/1:91:39,52:39:1391:52:1872:-124.122,0,-97.8659 0/0:76:76,0:76:2713:0:0:0,-22.8783,-244.32 0/1:109:55,54:55:1972:54:1940:-121.062,0,-144.943 0/1:20:6,14:6:216:14:504:-35.0945,0,-13.7699 1/1:8:0,8:0:0:8:284:-22.6113,-2.40824,0 1/1:19:0,19:0:0:19:672:-55.2775,-5.71957,0 0/1:50:21,29:21:728:29:1040:-67.3423,0,-50.6199 0/1:40:22,18:22:788:18:640:-39.3739,0,-59.1751 1/1:152:2,150:2:72:150:5380:-420.447,-38.9198,0 1/1:35:0,34:0:0:34:1205:-94.7046,-10.235,0 1/1:57:0,57:0:0:57:2048:-162.494,-17.1587,0 0/1:61:33,28:33:1184:28:1008:-62.7803,0,-88.4606 0/1:40:22,18:22:788:18:636:-37.2979,0,-59.1498 1/1:46:2,44:2:72:44:1575:-119.685,-7.01066,0 1/1:27:0,27:0:0:27:964:-78.069,-8.12781,0 chr10 4898462 . T C 21829.5 PASS AB=0.494891;ABP=3.16563;AC=32;AF=0.761905;AN=42;AO=1055;CIGAR=1X;DP=1492;DPB=1492;DPRA=0.778889;EPP=2285.24;EPPR=951.944;GTI=1;LEN=1;MEANALT=1;MQM=54.2815;MQMR=54.0092;NS=21;NUMALT=1;ODDS=1.8159;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37436;QR=15361;RO=437;RPL=1;RPP=2285.24;RPPR=951.944;RPR=1054;RUN=1;SAF=0;SAP=2293.91;SAR=1055;SRF=0;SRP=951.944;SRR=437;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:1,99:1:36:99:3529:-313.016,-26.5073,0 1/1:31:0,31:0:0:31:1076:-96.046,-9.33193,0 1/1:102:0,102:0:0:102:3637:-326.556,-30.7051,0 1/1:60:0,60:0:0:60:2111:-189.678,-18.0618,0 0/1:136:73,63:73:2560:63:2237:-160.473,0,-188.372 1/1:45:0,45:0:0:45:1605:-144.02,-13.5464,0 0/1:121:60,61:60:2113:61:2168:-156.882,0,-153.286 0/0:90:90,0:90:3156:0:0:0,-27.0927,-282.746 0/1:157:83,74:83:2936:74:2578:-184.32,0,-216.938 0/1:6:3,3:3:108:3:108:-7.68311,0,-8.23628 1/1:5:0,5:0:0:5:180:-16.5105,-1.50515,0 1/1:21:0,21:0:0:21:737:-66.4553,-6.32163,0 0/1:62:30,32:30:1055:32:1129:-82.6038,0,-76.3016 0/1:90:48,42:48:1688:42:1495:-107.558,0,-124.403 1/1:225:0,225:0:0:225:8022:-719.969,-67.7318,0 1/1:28:0,28:0:0:28:1000:-90.2844,-8.42884,0 1/1:38:0,38:0:0:38:1350:-121.574,-11.4391,0 0/1:79:39,40:39:1361:40:1398:-102.175,0,-98.6602 0/1:34:10,24:10:348:24:864:-67.7049,0,-21.4008 1/1:38:0,38:0:0:38:1360:-122.399,-11.4391,0 1/1:24:0,24:0:0:24:852:-76.2386,-7.22472,0 chr10 4898476 . T C 8784.3 PASS AB=0.539638;ABP=12.8227;AC=10;AF=0.238095;AN=42;AO=491;CIGAR=1X;DP=1522;DPB=1522;DPRA=1.68106;EPP=1069.2;EPPR=2241.8;GTI=1;LEN=1;MEANALT=1;MQM=54.1283;MQMR=54.2629;NS=21;NUMALT=1;ODDS=0.733479;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17460;QR=36760;RO=1031;RPL=0;RPP=1069.2;RPPR=2241.8;RPR=491;RUN=1;SAF=0;SAP=1069.2;SAR=491;SRF=0;SRP=2241.8;SRR=1031;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:99:98,1:98:3504:1:32:0,-26.6037,-311.074 0/0:30:30,0:30:1064:0:0:0,-9.0309,-94.8 0/0:99:99,0:99:3490:0:0:0,-29.802,-313.072 0/0:59:59,0:59:2108:0:0:0,-17.7608,-188.88 0/1:147:65,82:65:2317:82:2919:-217.067,0,-164.176 0/0:44:44,0:44:1568:0:0:0,-13.2453,-140.544 0/1:120:60,60:60:2148:60:2139:-155.889,0,-155.609 1/1:102:0,102:0:0:102:3637:-325.869,-30.7051,0 0/1:170:73,97:73:2628:97:3450:-259.288,0,-184.898 0/1:9:3,6:3:108:6:216:-17.0351,0,-6.78002 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9161 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.0594 0/1:63:32,31:32:1129:31:1104:-80.4055,0,-82.2572 0/1:98:42,56:42:1508:56:1972:-147.611,0,-106.316 0/0:218:218,0:218:7780:0:0:0,-65.6245,-697.855 0/0:28:28,0:28:988:0:0:0,-8.42884,-89.2068 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.386 0/1:77:34,43:34:1212:43:1523:-113.298,0,-85.8356 0/1:35:22,13:22:792:13:468:-31.8907,0,-60.9316 0/0:39:39,0:39:1388:0:0:0,-11.7402,-124.92 0/0:23:23,0:23:816:0:0:0,-6.92369,-73.0135 chr10 4903714 . 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TGGAAGAAGA TGGAGGAAAAAA,TGGAAGAAA,TGGAGGAAAAA 57177.7 PASS AB=0.668273,0.350954,0.0926076;ABP=615.421,265.813,3552.19;AC=23,9,10;AF=0.547619,0.214286,0.238095;AN=42;AO=1974,683,249;CIGAR=4M2I1M1X2M1X1M,8M1D1M,4M1X1M1I2M1X1M;DP=3043;DPB=3423.7;DPRA=0.692195,1.50096,1.47657;EPP=4289.5,1486.13,543.707;EPPR=5.18177;GTI=9;LEN=12,1,11;MEANALT=4.8,5,5.16667;MQM=59.1611,59.9546,59.3936;MQMR=60;NS=21;NUMALT=3;ODDS=0.622769;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=69663,24249,8722;QR=35;RO=1;RPL=1974,683,249;RPP=4289.5,1486.13,543.707;RPPR=5.18177;RPR=0,0,0;RUN=1,1,1;SAF=1974,683,249;SAP=4289.5,1486.13,543.707;SAR=0,0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:178:0,159,0,11:0:0:159,0,11:5578,0,389:-501.721,-47.8638,0,-501.721,-47.8638,-501.721,-470.049,-16.1839,-470.049,-466.737 1/3:157:0,126,0,21:0:0:126,0,21:4483,0,741:-425.309,-60.3227,-22.393,-425.309,-60.3227,-425.309,-364.99,0,-364.99,-358.668 1/3:147:0,124,0,14:0:0:124,0,14:4391,0,493:-397.752,-40.1449,-2.81716,-397.752,-40.1449,-397.752,-357.615,0,-357.615,-353.401 1/1:164:0,145,0,10:0:0:145,0,10:5103,0,359:-458.969,-43.6494,0,-458.969,-43.6494,-458.969,-429.684,-14.3559,-429.684,-426.673 1/2:293:0,148,110,20:0:0:148,110,20:5223,3912,691:-744.002,-318.819,-274.267,-425.193,0,-392.08,-687.903,-262.721,-369.095,-681.883 1/3:175:0,149,0,16:0:0:149,0,16:5243,0,559:-471.691,-45.4635,-0.610048,-471.691,-45.4635,-471.691,-426.225,0,-426.225,-421.408 1/2:261:1,135,106,11:1:35:135,106,11:4767,3750,384:-689.885,-302.596,-264.804,-384.748,0,-355.687,-658.952,-274.209,-356.362,-658.489 2/2:205:0,0,205,0:0:0:0,205,0:0,7270,0:-654.346,-654.346,-654.346,-61.7112,-61.7112,0,-654.346,-654.346,-61.7112,-654.346 1/2:240:0,108,113,15:0:0:108,113,15:3792,4040,498:-637.934,-329.433,-296.922,-308.515,0,-274.499,-597.692,-289.193,-268.274,-593.176 1/2:28:0,15,13,0:0:0:15,13,0:527,452,0:-79.9872,-37.0977,-32.5823,-43.2387,0,-39.3253,-79.9872,-37.0977,-43.2387,-79.9872 1/1:6:0,6,0,0:0:0:6,0,0:215,0,0:-19.6992,-1.80618,0,-19.6992,-1.80618,-19.6992,-19.6992,-1.80618,-19.6992,-19.6992 1/3:33:0,27,0,3:0:0:27,0,3:955,0,107:-86.479,-8.72095,-0.593144,-86.479,-8.72095,-86.479,-77.7562,0,-77.7562,-76.8531 1/2:133:0,64,60,8:0:0:64,60,8:2279,2137,283:-359.92,-174.18,-154.914,-185.742,0,-167.68,-336.87,-151.13,-162.692,-334.462 1/3:59:0,44,0,11:0:0:44,0,11:1563,0,364:-156.742,-29.3878,-16.1425,-156.742,-29.3878,-156.742,-127.347,0,-127.347,-124.036 1/3:271:0,221,3,30:0:0:221,3,30:7771,108,1054:-718.082,-85.7895,-19.2618,-709.27,-76.9765,-708.367,-632.297,0,-623.485,-623.266 1/3:196:0,160,0,21:0:0:160,0,21:5672,0,748:-522.917,-60.9622,-12.7974,-522.917,-60.9622,-522.917,-461.963,0,-461.963,-455.641 1/3:204:0,170,0,21:0:0:170,0,21:5982,0,747:-547.174,-60.8893,-9.7142,-547.174,-60.8893,-547.174,-486.296,0,-486.296,-479.974 1/2:97:0,27,59,7:0:0:27,59,7:957,2080,242:-247.299,-169.349,-161.221,-77.9524,0,-60.1916,-227.635,-149.685,-58.2894,-225.528 1/2:39:0,20,14,2:0:0:20,14,2:710,500,71:-98.6097,-40.7643,-34.7437,-57.8443,0,-53.6299,-92.8246,-34.9795,-52.0592,-92.2225 1/3:116:0,93,0,22:0:0:93,0,22:3300,0,780:-332.307,-63.5442,-35.5484,-332.307,-63.5442,-332.307,-268.767,0,-268.767,-262.144 1/3:41:0,33,0,6:0:0:33,0,6:1152,0,212:-110.865,-17.2593,-7.3253,-110.865,-17.2593,-110.865,-93.6004,0,-93.6004,-91.7942 chr10 5132982 . ATTCTCATG ATTCGCATT,ATCTCATT 19635.8 PASS AB=0.381526,0.610442;ABP=63.7243,55.771;AC=34,8;AF=0.809524,0.190476;AN=42;AO=621,368;CIGAR=4M1X3M1X,1M1D6M1X;DP=1000;DPB=959.111;DPRA=0.797458,2.21325;EPP=82.7394,802.112;EPPR=0;GTI=4;LEN=9,8;MEANALT=2,2.5;MQM=32.0821,26.4891;MQMR=0;NS=21;NUMALT=2;ODDS=1.16062;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21761,9717;QR=0;RO=0;RPL=615,182;RPP=1299.88,3.10471;RPPR=0;RPR=6,186;RUN=1,1;SAF=229,182;SAP=95.9151,3.10471;SAR=392,186;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,27,0:0:0:27,0:950,0:-72.8421,-8.12781,0,-72.8421,-8.12781,-72.8421 1/1:34:0,34,0:0:0:34,0:1191,0:-93.9951,-10.235,0,-93.9951,-10.235,-93.9951 1/1:7:0,7,0:0:0:7,0:239,0:-18.9365,-2.10721,0,-18.9365,-2.10721,-18.9365 1/1:26:0,25,0:0:0:25,0:875,0:-67.8993,-7.52575,0,-67.8993,-7.52575,-67.8993 1/2:96:0,40,54:0:0:40,54:1383,1480:-197.051,-102.371,-90.3294,-94.743,0,-78.4874 1/1:39:0,38,1:0:0:38,1:1344,25:-104.607,-11.4391,0,-102.93,-9.54051,-102.629 1/2:74:0,13,61:0:0:13,61:455,1523:-133.37,-102.439,-98.5251,-31.2154,0,-12.8526 2/2:59:0,0,59:0:0:0,59:0,1538:-122.835,-122.835,-122.835,-17.7608,-17.7608,0 1/2:67:0,20,47:0:0:20,47:713,1259:-135.113,-87.0854,-81.0648,-48.3096,0,-34.1612 1/1:53:0,48,3:0:0:48,3:1699,81:-131.068,-14.4494,0,-125.496,-8.88347,-124.593 1/1:84:0,83,0:0:0:83,0:2906,0:-229.874,-24.9855,0,-229.874,-24.9855,-229.874 1/1:5:0,4,0:0:0:4,0:138,0:-10.784,-1.20412,0,-10.784,-1.20412,-10.784 1/2:47:0,6,41:0:0:6,41:215,1117:-92.2202,-77.5518,-75.7456,-14.9655,0,-2.62324 1/1:34:0,33,0:0:0:33,0:1135,0:-88.598,-9.93399,0,-88.598,-9.93399,-88.598 1/1:27:0,27,0:0:0:27,0:941,0:-71.931,-8.12781,0,-71.931,-8.12781,-71.931 1/1:15:0,15,0:0:0:15,0:537,0:-41.4531,-4.51545,0,-41.4531,-4.51545,-41.4531 1/1:12:0,12,0:0:0:12,0:415,0:-32.6649,-3.61236,0,-32.6649,-3.61236,-32.6649 1/2:153:0,91,60:0:0:91,60:3209,1528:-320.3,-103.211,-75.8168,-217.092,0,-199.03 1/2:61:0,20,41:0:0:20,41:695,1138:-127.063,-79.396,-73.3754,-47.9483,0,-35.6061 1/1:19:0,18,1:0:0:18,1:640,28:-49.1705,-5.41854,0,-47.225,-3.22026,-46.9239 1/1:60:0,60,0:0:0:60,0:2081,0:-163.585,-18.0618,0,-163.585,-18.0618,-163.585 chr10 5149026 . 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TC CA 23028.2 PASS AB=0.323475;ABP=295.866;AC=32;AF=0.761905;AN=42;AO=1266;CIGAR=2X;DP=2349;DPB=2349;DPRA=0.346791;EPP=2674.48;EPPR=18.2146;GTI=4;LEN=2;MEANALT=1.1;MQM=40.4036;MQMR=59.9519;NS=21;NUMALT=1;ODDS=5.50429;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44558;QR=38103;RO=1081;RPL=1257;RPP=2674.48;RPPR=2324.39;RPR=9;RUN=1;SAF=0;SAP=2752.09;SAR=1266;SRF=581;SRP=16.1898;SRR=500;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117:0:0:117:4103:-355.967,-35.2205,0 1/1:69:1,68:1:36:68:2382:-197.327,-17.1728,0 1/1:86:0,86:0:0:86:3036:-265.632,-25.8886,0 1/1:94:0,94:0:0:94:3316:-286.714,-28.2968,0 0/1:296:207,88:207:7286:88:3100:-180.17,0,-566.636 1/1:61:2,59:2:72:59:2108:-171.466,-11.5261,0 0/1:132:44,88:44:1558:88:3136:-223.954,0,-100.765 0/0:296:296,0:296:10449:0:0:0,-89.1049,-940.341 0/1:293:226,67:226:7900:67:2356:-117.845,0,-622.834 0/0:46:42,4:42:1480:4:131:0,-2.14156,-121.718 1/1:4:0,4:0:0:4:131:-11.3734,-1.20412,0 1/1:30:0,30:0:0:30:1042:-88.9132,-9.0309,0 0/1:144:100,44:100:3524:44:1524:-88.7765,0,-274.022 1/1:104:1,103:1:36:103:3582:-310.075,-27.7088,0 1/1:119:0,119:0:0:119:4189:-364.405,-35.8226,0 1/1:57:0,57:0:0:57:2030:-177.825,-17.1587,0 1/1:68:4,63:4:144:63:2231:-183.777,-7.12692,0 0/1:140:104,36:104:3691:36:1261:-64.7608,0,-290.248 0/1:77:50,27:50:1783:27:957:-61.0281,0,-137.573 1/1:69:4,65:4:144:65:2321:-186.546,-7.45745,0 1/1:47:0,47:0:0:47:1622:-137.202,-14.1484,0 chr10 5276484 . 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T A 23788.2 PASS AB=0.55814;ABP=16.8976;AC=33;AF=0.785714;AN=42;AO=899;CIGAR=1X;DP=1146;DPB=1146;DPRA=1.63529;EPP=1955.16;EPPR=539.364;GTI=0;LEN=1;MEANALT=1;MQM=59.624;MQMR=55.1862;NS=21;NUMALT=1;ODDS=8.37574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32237;QR=8829;RO=247;RPL=246;RPP=403.124;RPPR=464.039;RPR=653;RUN=1;SAF=653;SAP=403.124;SAR=246;SRF=238;SRP=464.039;SRR=9;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:2,44:2:72:44:1580:-135.621,-7.0177,0 1/1:58:0,58:0:0:58:2076:-187.106,-17.4597,0 1/1:49:0,49:0:0:49:1752:-157.954,-14.7505,0 1/1:53:0,53:0:0:53:1904:-171.638,-15.9546,0 0/1:60:37,23:37:1324:23:828:-56.766,0,-101.286 1/1:69:1,68:1:36:68:2436:-215.89,-17.1745,0 0/1:71:44,27:44:1564:27:968:-66.0596,0,-119.437 0/0:34:34,0:34:1212:0:0:0,-10.235,-109.142 0/1:76:33,43:33:1173:43:1548:-116.545,0,-82.6888 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.75657 1/1:8:0,8:0:0:8:288:-25.9943,-2.40824,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 0/1:56:17,39:17:608:39:1396:-109.081,0,-38.1393 1/1:54:0,54:0:0:54:1917:-172.789,-16.2556,0 1/1:69:0,69:0:0:69:2472:-222.682,-20.7711,0 1/1:18:0,18:0:0:18:648:-58.6437,-5.41854,0 1/1:24:0,24:0:0:24:864:-78.0744,-7.22472,0 0/1:132:55,77:55:1976:77:2764:-209.236,0,-137.999 0/1:67:20,47:20:720:47:1688:-132.03,0,-44.8947 1/1:99:0,99:0:0:99:3548:-319.508,-29.802,0 1/1:66:1,65:1:36:65:2336:-206.838,-16.2697,0 chr10 5294945 . G A 46798.8 PASS AB=0.52518;ABP=8.36868;AC=33;AF=0.785714;AN=42;AO=2153;CIGAR=1X;DP=2690;DPB=2690;DPRA=1.92794;EPP=4678.19;EPPR=1169.09;GTI=0;LEN=1;MEANALT=1;MQM=59.8969;MQMR=60;NS=21;NUMALT=1;ODDS=11.4828;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77225;QR=19184;RO=537;RPL=0;RPP=4678.19;RPPR=1169.09;RPR=2153;RUN=1;SAF=2153;SAP=4678.19;SAR=0;SRF=537;SRP=1169.09;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:2,177:2:72:177:6352:-564.685,-47.0476,0 1/1:158:0,158:0:0:158:5672:-510.591,-47.5627,0 1/1:110:0,110:0:0:110:3944:-355.15,-33.1133,0 1/1:167:2,165:2:72:165:5905:-524.691,-43.4353,0 0/1:332:166,166:166:5884:166:5941:-434.845,0,-429.728 1/1:206:3,203:3:108:203:7263:-643.636,-51.937,0 0/1:111:52,59:52:1856:59:2116:-157.293,0,-133.905 0/0:68:68,0:68:2444:0:0:0,-20.47,-220.215 0/1:245:105,140:105:3760:140:5021:-378.28,0,-264.847 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:39:0,39:0:0:39:1404:-126.659,-11.7402,0 0/1:182:95,87:95:3408:87:3124:-226.507,0,-252.146 1/1:186:0,186:0:0:186:6684:-601.633,-55.9916,0 1/1:202:0,202:0:0:202:7251:-652.611,-60.8081,0 1/1:93:0,93:0:0:93:3340:-300.796,-27.9958,0 1/1:112:0,112:0:0:112:4016:-361.622,-33.7154,0 0/1:50:30,20:30:1076:20:720:-50.0773,0,-82.1014 0/1:44:10,34:10:360:34:1220:-96.8615,0,-19.499 1/1:140:0,140:0:0:140:5028:-452.664,-42.1442,0 1/1:52:0,52:0:0:52:1868:-168.391,-15.6536,0 chr10 5294993 . TAAGT TAAAGT 44423 PASS AB=0.521784;ABP=6.98382;AC=33;AF=0.785714;AN=42;AO=2089;CIGAR=1M1I4M;DP=2633;DPB=3052.6;DPRA=1.83071;EPP=4539.22;EPPR=1166.92;GTI=0;LEN=1;MEANALT=1.4;MQM=59.9177;MQMR=60;NS=21;NUMALT=1;ODDS=13.2968;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=73887;QR=18979;RO=536;RPL=2089;RPP=4539.22;RPPR=1166.92;RPR=0;RUN=1;SAF=2089;SAP=4539.22;SAR=0;SRF=536;SRP=1166.92;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:2,170:2:72:170:6029:-535.785,-44.9705,0 1/1:156:0,155:0:0:155:5490:-493.864,-46.6597,0 1/1:108:0,108:0:0:108:3835:-345.349,-32.5112,0 1/1:164:2,162:2:72:162:5687:-505.073,-42.5322,0 0/1:328:166,162:166:5862:162:5724:-416.535,0,-428.963 1/1:194:2,190:2:71:190:6732:-599.235,-51.3905,0 0/1:106:48,58:48:1710:58:2044:-152.32,0,-122.277 0/0:70:70,0:70:2487:0:0:0,-21.0721,-224.085 0/1:246:109,136:109:3837:136:4803:-358.423,0,-271.528 0/1:9:4,5:4:144:5:176:-13.4757,0,-10.6043 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:39:0,39:0:0:39:1392:-125.579,-11.7402,0 0/1:183:95,88:95:3361:88:3112:-225.132,0,-247.621 1/1:179:0,179:0:0:179:6333:-570.069,-53.8844,0 1/1:199:0,197:0:0:197:6984:-628.296,-59.3029,0 1/1:91:0,91:0:0:91:3206:-288.742,-27.3937,0 1/1:103:0,103:0:0:103:3634:-327.262,-31.0061,0 0/1:49:29,20:29:1040:20:708:-49.2951,0,-79.1642 0/1:43:9,34:9:323:34:1216:-96.8023,0,-16.4708 1/1:137:0,135:0:0:135:4762:-428.382,-40.6391,0 1/1:52:0,52:0:0:52:1844:-166.235,-15.6536,0 chr10 5295104 . A G 38450.5 PASS AB=0.495082;ABP=3.20253;AC=33;AF=0.785714;AN=42;AO=1802;CIGAR=1X;DP=2444;DPB=2444;DPRA=0.652299;EPP=3916;EPPR=1394.92;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9867;MQMR=59.9407;NS=21;NUMALT=1;ODDS=5.31008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=64239;QR=22864;RO=641;RPL=0;RPP=3916;RPPR=1394.92;RPR=1802;RUN=1;SAF=0;SAP=3916;SAR=1802;SRF=0;SRP=1394.92;SRR=641;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:0,158:0:0:158:5663:-509.787,-47.5627,0 1/1:110:0,110:0:0:110:3892:-350.473,-33.1133,0 1/1:139:2,137:2:72:137:4890:-433.413,-35.0064,0 1/1:99:0,99:0:0:99:3510:-316.108,-29.802,0 0/1:296:172,124:172:6115:124:4405:-307.52,0,-461.348 1/1:98:1,97:1:36:97:3414:-303.874,-25.9027,0 0/1:190:78,111:78:2793:111:3947:-298.164,0,-194.354 0/0:174:174,0:174:6172:0:0:0,-52.3792,-555.58 0/1:227:92,135:92:3304:135:4819:-365.53,0,-229.244 0/1:16:13,3:13:464:3:100:-4.51396,0,-37.281 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 0/1:55:34,21:34:1216:21:756:-51.8106,0,-92.8183 1/1:113:0,113:0:0:113:4048:-364.507,-34.0164,0 1/1:226:1,225:1:36:225:8043:-720.29,-64.4345,0 1/1:112:1,111:1:36:111:3962:-353.17,-30.1171,0 1/1:145:1,144:1:36:144:5134:-458.614,-40.0601,0 0/1:85:46,39:46:1656:39:1391:-99.9013,0,-123.741 0/1:46:26,20:26:928:20:716:-50.9203,0,-69.9909 1/1:68:0,68:0:0:68:2429:-218.865,-20.47,0 1/1:40:0,40:0:0:40:1440:-129.898,-12.0412,0 chr10 5296389 . AATT GATC,GATT 8399.58 PASS AB=0.491329,0.50289;ABP=3.12327,3.02285;AC=33,9;AF=0.785714,0.214286;AN=42;AO=293,104;CIGAR=1X2M1X,1X3M;DP=398;DPB=398.25;DPRA=1.12059,1.48438;EPP=639.252,228.843;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.4,2;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.0071;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=10337,3694;QR=0;RO=0;RPL=0,0;RPP=639.252,228.843;RPPR=0;RPR=293,104;RUN=1,1;SAF=293,104;SAP=639.252,228.843;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:12:0,12,0:0:0:12,0:422,0:-38.3153,-3.61236,0,-38.3153,-3.61236,-38.3153 1/1:18:0,18,0:0:0:18,0:635,0:-57.4767,-5.41854,0,-57.4767,-5.41854,-57.4767 1/1:12:0,12,0:0:0:12,0:415,0:-37.6804,-3.61236,0,-37.6804,-3.61236,-37.6804 1/1:16:0,16,0:0:0:16,0:559,0:-50.6381,-4.81648,0,-50.6381,-4.81648,-50.6381 1/2:29:0,12,17:0:0:12,17:430,608:-85.0044,-49.9345,-46.3222,-35.4278,0,-30.3103 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:20:0,12,8:0:0:12,8:431,284:-58.6569,-23.4951,-19.8828,-35.5183,0,-33.1101 2/2:17:0,0,17:0:0:0,17:0,608:-55.052,-55.052,-55.052,-5.11751,-5.11751,0 1/2:42:0,19,22:0:0:19,22:665,788:-118.423,-64.3209,-58.6013,-54.1531,0,-47.5305 1/2:5:0,1,4:0:0:1,4:29,129:-13.0257,-10.7235,-10.4225,-2.59863,0,-1.39451 1/1:5:0,5,0:0:0:5,0:179,0:-16.4604,-1.50515,0,-16.4604,-1.50515,-16.4604 1/1:5:0,5,0:0:0:5,0:179,0:-16.4604,-1.50515,0,-16.4604,-1.50515,-16.4604 1/2:20:0,10,10:0:0:10,10:335,356:-56.4882,-29.3709,-26.3606,-27.4626,0,-24.4523 1/1:12:0,12,0:0:0:12,0:427,0:-38.4088,-3.61236,0,-38.4088,-3.61236,-38.4088 1/1:65:0,65,0:0:0:65,0:2308,0:-207.98,-19.567,0,-207.98,-19.567,-207.98 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:26:0,26,0:0:0:26,0:914,0:-82.5751,-7.82678,0,-82.5751,-7.82678,-82.5751 1/2:42:0,20,22:0:0:20,22:703,777:-120.849,-63.6277,-57.6071,-57.5737,0,-50.951 1/2:15:0,11,4:0:0:11,4:387,144:-43.6072,-12.1095,-8.79817,-31.8553,0,-30.6512 1/1:16:0,16,0:0:0:16,0:563,0:-50.9992,-4.81648,0,-50.9992,-4.81648,-50.9992 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 chr10 5296397 . C A 5924.99 PASS AB=0.488372;ABP=3.2123;AC=33;AF=0.785714;AN=42;AO=287;CIGAR=1X;DP=392;DPB=392;DPRA=1.10294;EPP=626.223;EPPR=231.015;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.8571;NS=21;NUMALT=1;ODDS=2.33375;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10176;QR=3757;RO=105;RPL=0;RPP=626.223;RPPR=231.015;RPR=287;RUN=1;SAF=287;SAP=626.223;SAR=0;SRF=105;SRP=231.015;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:12:0,12:0:0:12:424:-38.4964,-3.61236,0 1/1:17:0,17:0:0:17:604:-54.6906,-5.11751,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:16:0,16:0:0:16:561:-50.8171,-4.81648,0 0/1:29:17,12:17:608:12:417:-29.1303,0,-46.3222 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:21:9,12:9:320:12:432:-32.8996,0,-22.8207 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:40:21,19:21:756:19:669:-48.4927,0,-56.281 0/1:5:4,1:4:129:1:36:-2.09312,0,-10.4225 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:19:10,9:10:360:9:309:-22.4211,0,-27.0247 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 1/1:63:0,63:0:0:63:2219:-199.97,-18.9649,0 1/1:7:0,7:0:0:7:237:-21.6591,-2.10721,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 0/1:42:22,20:22:792:20:708:-51.4023,0,-58.9624 0/1:16:5,11:5:180:11:396:-31.1663,0,-11.7356 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 chr10 5296426 . ACATC GCATA 1710.02 PASS AB=0.505682;ABP=3.05965;AC=9;AF=0.214286;AN=42;AO=106;CIGAR=1X3M1X;DP=405;DPB=405;DPRA=1.47936;EPP=233.186;EPPR=650.109;GTI=0;LEN=5;MEANALT=1.125;MQM=59.8585;MQMR=60;NS=21;NUMALT=1;ODDS=0.490567;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3731;QR=10392;RO=298;RPL=106;RPP=233.186;RPPR=650.109;RPR=0;RUN=1;SAF=106;SAP=233.186;SAR=0;SRF=298;SRP=650.109;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:14,0:14:474:0:0:0,-4.21442,-42.9812 0/0:18:18,0:18:633:0:0:0,-5.41854,-57.2972 0/0:12:12,0:12:426:0:0:0,-3.61236,-38.6776 0/0:16:16,0:16:554:0:0:0,-4.81648,-50.1857 0/1:30:13,17:13:461:17:601:-45.3891,0,-32.795 0/0:8:8,0:8:275:0:0:0,-2.40824,-25.084 0/1:21:12,8:12:417:8:283:-19.4327,0,-31.4817 1/1:17:0,17:0:0:17:596:-53.9684,-5.11751,0 0/1:42:19,23:19:662:23:799:-59.5653,0,-47.2602 0/1:5:1,4:1:27:4:140:-11.4394,0,-1.19463 0/0:5:5,0:5:179:0:0:0,-1.50515,-16.4604 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:20:10,10:10:337:10:355:-26.2702,0,-24.6342 0/0:13:13,0:13:440:0:0:0,-3.91339,-39.9235 0/0:65:65,0:65:2280:0:0:0,-19.5669,-205.462 0/0:8:8,0:8:287:0:0:0,-2.40824,-26.1765 0/0:26:26,0:26:925:0:0:0,-7.82678,-83.5679 0/1:42:20,22:20:687:22:780:-57.8806,0,-49.5058 0/1:16:11,5:11:385:5:177:-11.4605,0,-30.1686 0/0:16:16,0:16:556:0:0:0,-4.81648,-50.3667 0/0:6:6,0:6:207:0:0:0,-1.80618,-18.9677 chr10 5298768 . T C 13599.7 PASS AB=0.532934;ABP=6.15698;AC=34;AF=0.809524;AN=42;AO=648;CIGAR=1X;DP=862;DPB=862;DPRA=0.693103;EPP=1410.12;EPPR=467.705;GTI=0;LEN=1;MEANALT=1;MQM=59.9907;MQMR=60;NS=21;NUMALT=1;ODDS=0.929919;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22888;QR=7636;RO=214;RPL=648;RPP=1410.12;RPPR=467.705;RPR=0;RUN=1;SAF=648;SAP=1410.12;SAR=0;SRF=214;SRP=467.705;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:36:0,36:0:0:36:1268:-114.421,-10.8371,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 1/1:51:0,51:0:0:51:1804:-162.638,-15.3525,0 1/1:32:0,32:0:0:32:1129:-101.915,-9.63296,0 0/1:71:33,38:33:1180:38:1329:-98.5334,0,-85.1349 1/1:39:0,39:0:0:39:1378:-124.317,-11.7402,0 0/1:25:10,15:10:356:15:540:-41.4108,0,-24.8555 0/0:58:58,0:58:2065:0:0:0,-17.4597,-186.119 0/1:88:42,46:42:1504:46:1614:-119.056,0,-109.164 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 1/1:16:0,16:0:0:16:568:-51.4519,-4.81648,0 0/1:28:17,11:17:612:11:384:-26.4658,0,-46.9846 1/1:53:0,53:0:0:53:1846:-166.415,-15.9546,0 1/1:54:0,54:0:0:54:1909:-172.086,-16.2556,0 1/1:32:0,32:0:0:32:1139:-102.818,-9.63296,0 1/1:34:0,34:0:0:34:1205:-108.754,-10.235,0 0/1:66:37,29:37:1315:29:1000:-70.4392,0,-98.783 0/1:56:17,39:17:604:39:1392:-108.721,0,-37.8329 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 1/1:48:0,48:0:0:48:1691:-152.475,-14.4494,0 chr10 5318638 . A G 6678.65 PASS AB=0.528169;ABP=5.94638;AC=9;AF=0.214286;AN=42;AO=281;CIGAR=1X;DP=927;DPB=927;DPRA=2.1223;EPP=7.84009;EPPR=10.123;GTI=2;LEN=1;MEANALT=1;MQM=59.8577;MQMR=60;NS=21;NUMALT=1;ODDS=0.10111;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10054;QR=23029;RO=646;RPL=276;RPP=570.537;RPPR=1379.84;RPR=5;RUN=1;SAF=125;SAP=10.4366;SAR=156;SRF=343;SRP=8.38856;SRR=303;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:43:43,0:43:1531:0:0:0,-12.9443,-138.082 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/1:58:25,33:25:888:33:1184:-89.4062,0,-62.7793 0/0:31:30,1:30:1072:1:36:0,-5.73365,-93.1942 0/1:54:20,34:20:716:34:1212:-93.1274,0,-48.5121 1/1:53:0,53:0:0:53:1878:-169.297,-15.9546,0 0/1:64:29,35:29:1044:35:1256:-94.0794,0,-75.0089 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/0:23:23,0:23:812:0:0:0,-6.92369,-73.4009 0/1:69:33,36:33:1188:36:1292:-95.7843,0,-86.4575 0/0:41:40,1:40:1423:1:36:0,-8.74395,-124.768 0/0:42:42,0:42:1495:0:0:0,-12.6433,-134.844 0/0:29:29,0:29:1031:0:0:0,-8.72987,-93.1026 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:88:41,47:41:1468:47:1684:-125.341,0,-105.925 0/1:89:52,37:52:1842:37:1332:-93.3907,0,-139.267 0/0:27:27,0:27:953:0:0:0,-8.12781,-86.0833 0/0:98:97,1:97:3442:1:36:0,-25.9027,-306.396 chr10 5318644 . G A 6402.01 PASS AB=0.527316;ABP=5.73882;AC=9;AF=0.214286;AN=42;AO=273;CIGAR=1X;DP=915;DPB=915;DPRA=1.59839;EPP=9.69971;EPPR=9.55854;GTI=1;LEN=1;MEANALT=1;MQM=59.8755;MQMR=60;NS=21;NUMALT=1;ODDS=0.432852;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9732;QR=22833;RO=642;RPL=271;RPP=578.578;RPPR=1397.1;RPR=2;RUN=1;SAF=120;SAP=11.6723;SAR=153;SRF=343;SRP=9.55854;SRR=299;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:42,0:42:1481:0:0:0,-12.6433,-133.582 0/0:35:35,0:35:1233:0:0:0,-10.536,-111.272 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/0:50:50,0:50:1800:0:0:0,-15.0515,-162.282 0/1:56:23,33:23:824:33:1184:-90.0083,0,-57.6256 0/0:29:28,1:28:977:1:36:0,-5.13159,-84.6423 0/1:52:19,33:19:684:33:1173:-90.2138,0,-46.2368 1/1:49:0,49:0:0:49:1730:-155.981,-14.7505,0 0/1:65:29,36:29:1040:36:1281:-96.0243,0,-74.3474 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:23:23,0:23:816:0:0:0,-6.92369,-73.7617 0/1:69:34,35:34:1194:35:1260:-92.906,0,-86.9902 0/0:43:42,1:42:1508:1:36:0,-9.34601,-132.416 0/0:43:43,0:43:1508:0:0:0,-12.9443,-136.01 0/0:29:29,0:29:1031:0:0:0,-8.72987,-93.1026 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:84:39,45:39:1382:45:1612:-120.073,0,-99.3908 0/1:91:54,37:54:1932:37:1312:-90.9879,0,-146.763 0/0:27:27,0:27:947:0:0:0,-8.12781,-85.5438 0/0:95:95,0:95:3396:0:0:0,-28.5978,-305.855 chr10 5342375 . GTGT ATAG,GTAG 28130 PASS AB=0.481633,0.516327;ABP=4.44613,4.14478;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1042,334;CIGAR=1X1M2X,2M2X;DP=1379;DPB=1379;DPRA=0.811875,1.08279;EPP=2248.35,711.014;EPPR=0;GTI=0;LEN=4,2;MEANALT=1.55,2.11111;MQM=38.5835,53.3204;MQMR=0;NS=21;NUMALT=2;ODDS=4.86745;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36880,11851;QR=0;RO=0;RPL=0,1;RPP=2265.68,719.622;RPPR=0;RPR=1042,333;RUN=1,1;SAF=1040,333;SAP=2248.35,719.622;SAR=2,1;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,86,0:0:0:86,0:3053,0:-260.635,-25.8886,0,-260.635,-25.8886,-260.635 1/1:63:0,63,0:0:0:63,0:2231,0:-188.829,-18.9649,0,-188.829,-18.9649,-188.829 1/1:51:0,50,0:0:0:50,0:1763,0:-149.602,-15.0515,0,-149.602,-15.0515,-149.602 1/1:119:0,119,0:0:0:119,0:4192,0:-358.923,-35.8226,0,-358.923,-35.8226,-358.923 1/2:98:0,51,47:0:0:51,47:1817,1680:-276.039,-136.82,-121.467,-139.566,0,-125.418 1/1:48:0,46,1:0:0:46,1:1636,36:-136.899,-13.8474,0,-133.969,-10.8614,-133.668 1/2:111:0,52,59:0:0:52,59:1829,2103:-310.17,-171.032,-155.378,-139.48,0,-121.719 2/2:80:0,0,80:0:0:0,80:0,2824:-253.701,-253.701,-253.701,-24.0824,-24.0824,0 1/2:93:0,30,62:0:0:30,62:1073,2186:-259.12,-176.888,-167.857,-82.2952,0,-63.6313 1/2:5:0,2,3:0:0:2,3:66,97:-13.042,-8.00552,-7.40346,-5.35179,0,-4.4487 1/1:11:0,11,0:0:0:11,0:396,0:-33.5732,-3.31133,0,-33.5732,-3.31133,-33.5732 1/1:33:0,33,0:0:0:33,0:1174,0:-100.064,-9.93399,0,-100.064,-9.93399,-100.064 1/2:55:0,23,32:0:0:23,32:824,1142:-157.687,-93.3046,-86.3809,-64.7322,0,-55.0992 1/1:92:0,92,0:0:0:92,0:3234,0:-277.925,-27.6948,0,-277.925,-27.6948,-277.925 1/1:93:0,93,0:0:0:93,0:3286,0:-281.065,-27.9958,0,-281.065,-27.9958,-281.065 1/1:45:0,45,0:0:0:45,0:1608,0:-135.569,-13.5464,0,-135.569,-13.5464,-135.569 1/1:59:0,59,0:0:0:59,0:2088,0:-177.073,-17.7608,0,-177.073,-17.7608,-177.073 1/2:50:0,24,26:0:0:24,26:855,934:-141.172,-76.3054,-69.0806,-65.2117,0,-57.385 1/2:78:0,54,24:0:0:54,24:1906,849:-216.963,-69.4007,-53.1451,-147.911,0,-140.686 1/1:81:0,81,0:0:0:81,0:2867,0:-242.537,-24.3834,0,-242.537,-24.3834,-242.537 1/1:28:0,28,0:0:0:28,0:982,0:-82.2505,-8.42884,0,-82.2505,-8.42884,-82.2505 chr10 5366812 . T G 37816.6 PASS AB=0.485887;ABP=4.72646;AC=33;AF=0.785714;AN=42;AO=1740;CIGAR=1X;DP=2336;DPB=2336;DPRA=1.48684;EPP=3601.17;EPPR=1269.11;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9592;MQMR=59.9311;NS=21;NUMALT=1;ODDS=2.72538;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62184;QR=21349;RO=595;RPL=21;RPP=3601.17;RPPR=1269.11;RPR=1719;RUN=1;SAF=1740;SAP=3781.37;SAR=0;SRF=595;SRP=1295.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:135:1,134:1:36:134:4762:-425.139,-37.0408,0 1/1:107:0,107:0:0:107:3825:-344.445,-32.2102,0 1/1:107:1,106:1:36:106:3804:-338.959,-28.6119,0 1/1:179:1,177:1:36:177:6336:-566.73,-50.3449,0 0/1:300:181,119:181:6496:119:4279:-294.976,0,-493.769 1/1:121:2,119:2:72:119:4212:-371.062,-29.5879,0 0/1:156:67,89:67:2404:89:3192:-240.473,0,-169.656 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.122 0/1:163:91,72:91:3268:72:2580:-183.381,0,-245.272 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:19:0,19:0:0:19:672:-60.8063,-5.71957,0 0/1:189:102,87:102:3653:87:3105:-222.781,0,-272.077 1/1:106:1,105:1:36:105:3764:-335.361,-28.3109,0 1/1:151:1,150:1:36:150:5354:-478.393,-41.8573,0 1/1:86:2,84:2:72:84:2999:-263.297,-19.0519,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 0/1:85:40,45:40:1436:45:1612:-119.783,0,-103.95 0/1:95:28,67:28:1000:67:2412:-188.738,0,-61.7175 1/1:160:0,160:0:0:160:5703:-513.389,-48.1648,0 1/1:72:0,72:0:0:72:2565:-231.099,-21.6742,0 chr10 5366835 . GTTTTGGGG GTTTGGGG,GGTTTGGGG 76639.3 PASS AB=0.702022,0.288485;ABP=861.957,944.572;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2591,740;CIGAR=1M1D7M,1M1X7M;DP=3372;DPB=3085;DPRA=0,0;EPP=5629.3,1609.9;EPPR=7.35324;GTI=6;LEN=1,1;MEANALT=3.66667,3.66667;MQM=59.99,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.9844;PAIRED=0,0;PAIREDR=0;PAO=14.3333,15.3333;PQA=496.667,530.667;PQR=496.667;PRO=14.3333;QA=90185,26193;QR=61;RO=2;RPL=2158,1;RPP=2496.83,1601.23;RPPR=7.35324;RPR=433,739;RUN=1,1;SAF=2158,1;SAP=2496.83,1601.23;SAR=433,739;SRF=0;SRP=7.35324;SRR=2;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:182:0,161,20:0:0:161,20:5602,720:-514.132,-58.6478,-10.1819,-455.383,0,-449.362 1/2:172:0,102,68:0:0:102,68:3622,2417:-491.925,-196.801,-166.096,-294.967,0,-274.497 1/2:142:0,125,17:0:0:125,17:4362,612:-405.069,-50.2959,-12.6672,-355.131,0,-350.014 1/1:223:0,208,11:0:0:208,11:7248,396:-652.022,-62.6142,0,-619.71,-30.322,-616.398 1/1:367:0,341,18:0:0:341,18:11852,636:-1066.23,-102.651,0,-1014.43,-50.8443,-1009.01 1/2:162:0,112,50:0:0:112,50:3954,1772:-466.588,-144.605,-110.89,-322.233,0,-307.182 1/2:222:0,140,80:0:0:140,80:4925,2793:-627.935,-227.039,-184.895,-400.758,0,-376.676 1/2:148:0,68,79:0:0:68,79:2407,2828:-426.679,-230.618,-210.148,-196.057,0,-172.276 1/1:240:0,227,9:0:0:227,9:7846,324:-705.832,-68.3338,0,-679.395,-41.8971,-676.686 1/2:12:0,3,9:0:0:3,9:108,320:-35.198,-26.3861,-25.4831,-9.13687,0,-6.4276 1/2:16:0,4,12:0:0:4,12:144,417:-45.9511,-34.1994,-32.9953,-12.0699,0,-8.45753 1/2:60:0,17,42:0:0:17,42:590,1475:-167.895,-119.938,-114.82,-47.8478,0,-35.2045 1/2:227:0,199,26:0:0:199,26:6928,928:-638.88,-75.5478,-15.6428,-563.225,0,-555.398 1/2:150:0,132,16:0:0:132,16:4573,568:-417.948,-46.2938,-6.55789,-371.667,0,-366.851 1/2:210:0,187,20:0:0:187,20:6490,707:-585.11,-57.5597,-1.26708,-527.528,0,-521.508 1/1:119:0,114,3:0:0:114,3:3911,108:-351.844,-34.3174,0,-343.032,-25.4871,-342.128 1/2:50:1,43,5:1:35:43,5:1473,180:-131.102,-11.8443,-1.74636,-116.715,0,-118.057 1/2:181:1,79,100:1:26:79,100:2740,3550:-509.73,-287.322,-265.578,-220.773,0,-192.708 1/2:134:0,109,24:0:0:109,24:3701,836:-368.002,-67.8692,-35.057,-300.019,0,-292.794 1/2:236:0,154,80:0:0:154,80:5406,2801:-667.984,-228.014,-181.655,-440.087,0,-416.004 1/2:119:0,66,51:0:0:66,51:2303,1805:-334.12,-146.814,-126.947,-187.097,0,-171.745 chr10 5496918 . CTAA GTAA,GTAG 54409.4 PASS AB=0.490085,0.507082;ABP=3.91457,3.47166;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1859,655;CIGAR=1X3M,1X2M1X;DP=2522;DPB=2522;DPRA=1.10688,1.41933;EPP=4031.1,1425.32;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=1.9,2.21429;MQM=59.9855,59.9008;MQMR=60;NS=21;NUMALT=2;ODDS=2.50723;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66426,23242;QR=32;RO=1;RPL=1,0;RPP=4031.1,1425.32;RPPR=5.18177;RPR=1858,655;RUN=1,1;SAF=1859,655;SAP=4039.78,1425.32;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:199:0,196,0:0:0:196,0:7006,0:-630.29,-59.0019,0,-630.29,-59.0019,-630.29 1/1:106:0,105,1:0:0:105,1:3745,36:-336.889,-31.6082,0,-333.952,-28.3109,-333.651 1/1:94:1,93,0:1:32:93,0:3344,0:-297.977,-25.0975,0,-298.278,-27.9958,-300.856 1/1:76:0,74,2:0:0:74,2:2652,67:-238.593,-22.2762,0,-233.204,-16.5539,-232.602 1/2:295:0,140,154:0:0:140,154:4996,5449:-851.191,-443.905,-401.761,-407.361,0,-361.002 1/1:66:0,65,1:0:0:65,1:2332,36:-209.78,-19.567,0,-206.842,-16.2697,-206.541 1/2:186:0,82,104:0:0:82,104:2940,3710:-542.587,-302.795,-278.11,-240.149,0,-208.842 2/2:109:0,0,108:0:0:0,108:0,3857:-346.966,-346.966,-346.966,-32.5112,-32.5112,0 1/2:195:0,89,105:0:0:89,105:3185,3717:-562.599,-302.874,-276.082,-259.845,0,-228.237 1/2:34:0,19,15:0:0:19,15:680,533:-99.2418,-43.7885,-38.069,-55.8096,0,-51.2941 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:84:0,84,0:0:0:84,0:3024,0:-272.389,-25.2865,0,-272.389,-25.2865,-272.389 1/2:103:0,48,54:0:0:48,54:1709,1912:-295.14,-155.848,-141.399,-139.393,0,-123.137 1/1:118:0,117,1:0:0:117,1:4166,36:-374.761,-35.2205,0,-371.824,-31.9233,-371.523 1/1:233:0,232,1:0:0:232,1:8264,32:-743.448,-69.839,0,-740.87,-66.9407,-740.569 1/1:95:0,95,0:0:0:95,0:3367,0:-303.242,-28.5979,0,-303.242,-28.5979,-303.242 1/1:133:0,133,0:0:0:133,0:4730,0:-425.803,-40.037,0,-425.803,-40.037,-425.803 1/2:186:0,106,80:0:0:106,80:3785,2827:-539.134,-230.551,-198.641,-308.938,0,-284.856 1/2:60:0,35,25:0:0:35,25:1260,887:-175.43,-72.6175,-62.0814,-103.169,0,-95.6437 1/1:98:0,94,4:0:0:94,4:3384,143:-304.416,-28.2968,0,-292.757,-16.2795,-291.552 1/1:44:0,44,0:0:0:44,0:1569,0:-141.5,-13.2453,0,-141.5,-13.2453,-141.5 chr10 5519756 . G A 28771.9 PASS AB=0.563964;ABP=22.7335;AC=33;AF=0.785714;AN=42;AO=1357;CIGAR=1X;DP=1645;DPB=1645;DPRA=1.9561;EPP=2932.35;EPPR=626.223;GTI=1;LEN=1;MEANALT=1.05;MQM=48.2933;MQMR=48.0732;NS=21;NUMALT=1;ODDS=7.72117;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48071;QR=9844;RO=287;RPL=2;RPP=2932.35;RPPR=626.223;RPR=1355;RUN=1;SAF=0;SAP=2949.7;SAR=1357;SRF=0;SRP=626.223;SRR=287;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:1,89:1:32:89:3160:-279.107,-23.8995,0 1/1:65:2,63:2:68:63:2242:-192.718,-13.1092,0 1/1:65:0,65:0:0:65:2306:-206.047,-19.567,0 1/1:120:0,120:0:0:120:4228:-376.998,-36.1236,0 0/1:132:54,78:54:1855:78:2745:-205.354,0,-125.567 1/1:57:0,57:0:0:57:2025:-178.608,-17.1587,0 0/1:125:47,78:47:1633:78:2738:-204.246,0,-107.13 0/0:41:41,0:41:1425:0:0:0,-12.3422,-126.758 0/1:98:52,46:52:1794:46:1607:-114.756,0,-131.853 0/1:6:1,5:1:36:5:167:-13.3716,0,-1.76725 1/1:7:0,7:0:0:7:252:-22.7546,-2.10721,0 1/1:25:0,25:0:0:25:900:-80.4802,-7.52575,0 0/1:80:36,44:36:1247:44:1584:-116.373,0,-86.3925 1/1:168:0,168:0:0:168:5943:-528.794,-50.573,0 1/1:118:0,117:0:0:117:4160:-371.599,-35.2205,0 1/1:84:0,84:0:0:84:2982:-267.496,-25.2865,0 1/1:161:1,160:1:32:160:5671:-504.022,-45.2701,0 0/1:56:29,27:29:941:27:958:-67.7094,0,-67.2549 0/1:58:23,35:23:781:35:1245:-94.347,0,-52.878 1/1:50:0,50:0:0:50:1776:-157.702,-15.0515,0 1/1:39:0,39:0:0:39:1382:-123.17,-11.7402,0 chr10 5519763 . GTAAGCAGA ATAGGCTGA,ATAGGCTGG 33359.4 PASS AB=0.523649,0.459459;ABP=5.88603,11.4614;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1344,326;CIGAR=1X2M1X2M1X2M,1X2M1X2M1X1M1X;DP=1701;DPB=1701;DPRA=1.55472,1.23596;EPP=2921.47,710.91;EPPR=0;GTI=1;LEN=9,9;MEANALT=2.95,3.5;MQM=48.4234,47.6534;MQMR=0;NS=21;NUMALT=2;ODDS=2.62234;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45399,11028;QR=0;RO=0;RPL=0,0;RPP=2921.47,710.91;RPPR=0;RPR=1344,326;RUN=1,1;SAF=0,0;SAP=2921.47,710.91;SAR=1344,326;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:0,86,1:0:0:86,1:2870,36:-256.362,-25.8886,0,-253.438,-22.9526,-253.137 1/1:65:0,65,0:0:0:65,0:2226,0:-198.352,-19.567,0,-198.352,-19.567,-198.352 1/1:65:0,62,0:0:0:62,0:2136,0:-191.003,-18.6639,0,-191.003,-18.6639,-191.003 1/1:121:0,117,0:0:0:117,0:3929,0:-351.781,-35.2205,0,-351.781,-35.2205,-351.781 1/2:139:0,77,60:0:0:77,60:2602,2008:-370.429,-160.973,-137.794,-209.51,0,-191.448 1/1:57:0,57,0:0:0:57,0:1904,0:-169.191,-17.1587,0,-169.191,-17.1587,-169.191 1/2:132:0,76,52:0:0:76,52:2567,1770:-346.639,-141.468,-118.589,-205.214,0,-189.56 2/2:53:0,0,52:0:0:0,52:0,1737:-154.594,-154.594,-154.594,-15.6536,-15.6536,0 1/2:113:0,47,63:0:0:47,63:1563,2151:-299.872,-173.878,-159.729,-126.053,0,-107.088 1/2:6:0,5,1:0:0:5,1:161,36:-16.0744,-3.2724,-1.76725,-13.1529,0,-12.8519 1/1:7:0,7,0:0:0:7,0:237,0:-21.4744,-2.10721,0,-21.4744,-2.10721,-21.4744 1/1:26:0,25,0:0:0:25,0:850,0:-75.9271,-7.52575,0,-75.9271,-7.52575,-75.9271 1/2:82:0,42,39:0:0:42,39:1408,1324:-219.211,-106.733,-94.0897,-112.588,0,-100.848 1/1:167:0,165,0:0:0:165,0:5569,0:-497.901,-49.67,0,-497.901,-49.67,-497.901 1/1:118:0,116,0:0:0:116,0:4013,0:-359.02,-34.9195,0,-359.02,-34.9195,-359.02 1/1:85:0,84,0:0:0:84,0:2866,0:-256.958,-25.2865,0,-256.958,-25.2865,-256.958 1/1:165:0,162,1:0:0:162,1:5437,36:-487.053,-48.7669,0,-484.123,-45.8129,-483.822 1/2:60:0,27,33:0:0:27,33:923,1114:-162.985,-89.4,-81.2721,-73.9195,0,-63.9855 1/2:60:0,36,24:0:0:36,24:1208,816:-163.598,-66.2026,-55.3656,-97.7317,0,-90.5069 1/1:50:0,48,0:0:0:48,0:1601,0:-142.865,-14.4494,0,-142.865,-14.4494,-142.865 1/1:40:0,40,0:0:0:40,0:1329,0:-118.735,-12.0412,0,-118.735,-12.0412,-118.735 chr10 5625202 . T C 12263.2 PASS AB=0.545872;ABP=22.9321;AC=9;AF=0.214286;AN=42;AO=682;CIGAR=1X;DP=2221;DPB=2221;DPRA=1.64506;EPP=1466.63;EPPR=3299.45;GTI=1;LEN=1;MEANALT=1.1;MQM=60;MQMR=59.9779;NS=21;NUMALT=1;ODDS=9.67116;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24430;QR=54103;RO=1538;RPL=680;RPP=1466.63;RPPR=3299.45;RPR=2;RUN=1;SAF=0;SAP=1483.95;SAR=682;SRF=0;SRP=3342.73;SRR=1538;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:69:69,0:69:2442:0:0:0,-20.7711,-219.405 0/0:82:82,0:82:2885:0:0:0,-24.6845,-259.888 0/0:131:131,0:131:4598:0:0:0,-39.4349,-413.991 0/0:86:85,1:85:2976:1:36:0,-22.2903,-264.479 0/1:262:116,145:116:4070:145:5184:-387.77,0,-287.563 0/0:78:78,0:78:2753:0:0:0,-23.4803,-248.013 0/1:163:66,97:66:2295:97:3479:-264.252,0,-157.74 1/1:85:0,85:0:0:85:3048:-274.549,-25.5876,0 0/1:164:46,118:46:1629:118:4225:-331.061,0,-97.5279 0/1:26:11,15:11:388:15:540:-41.1098,0,-27.4306 0/0:17:17,0:17:585:0:0:0,-5.11751,-52.9719 0/0:33:33,0:33:1126:0:0:0,-9.93399,-101.64 0/1:137:58,79:58:2025:79:2830:-213.698,0,-141.281 0/0:94:94,0:94:3322:0:0:0,-28.2968,-299.198 0/0:118:118,0:118:4166:0:0:0,-35.5215,-375.125 0/0:70:69,1:69:2422:1:36:0,-17.4738,-214.636 0/0:93:93,0:93:3275:0:0:0,-27.9958,-294.969 0/1:223:121,102:121:4242:102:3656:-262.114,0,-314.835 0/1:115:76,39:76:2709:39:1396:-91.3206,0,-209.434 0/0:69:69,0:69:2437:0:0:0,-20.7711,-219.585 0/0:106:106,0:106:3758:0:0:0,-31.9092,-338.419 chr10 5635395 . TATCG TGTCG,TG 38114.6 PASS AB=0.509745,0.487256;ABP=3.56049,3.95116;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1318,435;CIGAR=1M1X3M,1M3D1M;DP=1766;DPB=1505.2;DPRA=0.767593,1.41958;EPP=2830.37,947.601;EPPR=7.35324;GTI=0;LEN=1,3;MEANALT=1.95,2.2;MQM=60,59.9356;MQMR=60;NS=21;NUMALT=2;ODDS=0.40914;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=10.6667,10.6667;PQR=10.6667;PRO=0.333333;QA=47125,15082;QR=61;RO=2;RPL=4,0;RPP=2830.37,947.601;RPPR=7.35324;RPR=1314,435;RUN=1,1;SAF=0,0;SAP=2865.01,947.601;SAR=1318,435;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:118:0,115,0:0:0:115,0:4123,0:-370.889,-34.6185,0,-370.889,-34.6185,-370.889 1/1:47:0,47,0:0:0:47,0:1688,0:-152.207,-14.1484,0,-152.207,-14.1484,-152.207 1/1:78:0,78,0:0:0:78,0:2796,0:-251.88,-23.4803,0,-251.88,-23.4803,-251.88 1/1:132:0,130,1:0:0:130,1:4630,36:-416.557,-39.1339,0,-413.619,-36.1416,-413.318 1/2:173:1,76,95:1:27:76,95:2720,3293:-487.064,-265.553,-244.802,-219.722,0,-193.251 1/1:81:1,78,0:1:34:78,0:2783,0:-247.298,-20.729,0,-247.6,-23.4803,-250.357 1/2:122:0,61,61:0:0:61,61:2179,2141:-352.253,-174.594,-156.231,-178.013,0,-159.65 2/2:108:0,0,108:0:0:0,108:0,3724:-335.331,-335.331,-335.331,-32.5112,-32.5112,0 1/2:105:0,59,46:0:0:59,46:2120,1564:-300.154,-127.195,-109.434,-173.308,0,-159.46 1/2:27:0,11,16:0:0:11,16:396,564:-78.5885,-46.2738,-42.9625,-32.6714,0,-27.8549 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:27:0,27,0:0:0:27,0:964,0:-87.0768,-8.12781,0,-87.0768,-8.12781,-87.0768 1/2:103:0,53,50:0:0:53,50:1908,1728:-296.439,-140.749,-124.794,-156.043,0,-140.991 1/1:88:0,86,1:0:0:86,1:3075,36:-276.682,-25.8886,0,-273.744,-22.8862,-273.443 1/1:147:0,146,0:0:0:146,0:5221,0:-469.776,-43.9504,0,-469.776,-43.9504,-469.776 1/1:65:0,65,0:0:0:65,0:2340,0:-210.859,-19.567,0,-210.859,-19.567,-210.859 1/1:53:0,52,0:0:0:52,0:1855,0:-166.977,-15.6536,0,-166.977,-15.6536,-166.977 1/2:82:0,42,40:0:0:42,40:1502,1396:-236.371,-113.893,-101.249,-122.831,0,-110.79 1/2:55:0,38,17:0:0:38,17:1355,600:-159.668,-49.2117,-37.7725,-110.811,0,-105.693 1/1:110:0,110,0:0:0:110,0:3939,0:-354.701,-33.1133,0,-354.701,-33.1133,-354.701 1/1:41:0,40,0:0:0:40,0:1387,0:-124.898,-12.0412,0,-124.898,-12.0412,-124.898 chr10 5728353 . CGGCCGCTGCCG CCGTGGCCGCTG,CCGTCGCCGCTG 31044.1 PASS AB=0.414815,0.566667;ABP=37.0461,23.8564;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1118,431;CIGAR=1M3I7M3D1M,1M1X1M1X3M1X2M1X1M;DP=1575;DPB=1573.67;DPRA=0.565234,1.19679;EPP=2430.72,938.915;EPPR=0;GTI=1;LEN=12,12;MEANALT=2.45,3.11111;MQM=51.6628,40.5661;MQMR=0;NS=21;NUMALT=2;ODDS=3.34967;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37912,14789;QR=0;RO=0;RPL=0,0;RPP=2430.72,938.915;RPPR=0;RPR=1118,431;RUN=1,1;SAF=0,0;SAP=2430.72,938.915;SAR=1118,431;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,66,0:0:0:66,0:2235,0:-200.577,-19.868,0,-200.577,-19.868,-200.577 1/1:63:0,62,0:0:0:62,0:2153,0:-192.786,-18.6639,0,-192.786,-18.6639,-192.786 1/1:90:0,88,0:0:0:88,0:2988,0:-268.042,-26.4906,0,-268.042,-26.4906,-268.042 1/1:124:0,124,0:0:0:124,0:4229,0:-379.483,-37.3277,0,-379.483,-37.3277,-379.483 1/2:53:0,23,27:0:0:23,27:805,945:-139.87,-74.6525,-67.7288,-65.2222,0,-57.0943 1/1:77:0,76,1:0:0:76,1:2566,32:-229.684,-22.8783,0,-227.109,-19.9836,-226.808 1/2:88:0,25,62:0:0:25,62:814,2108:-226.296,-160.918,-153.392,-65.3909,0,-46.727 2/2:128:0,0,124:0:0:0,124:0,4276:-371.473,-371.473,-371.473,-37.3277,-37.3277,0 1/2:176:0,77,99:0:0:77,99:2606,3399:-481.699,-270.896,-247.717,-211.14,0,-181.338 1/2:6:0,4,2:0:0:4,2:121,69:-15.3817,-5.73968,-4.53556,-9.9652,0,-9.36314 1/1:8:0,7,0:0:0:7,0:244,0:-21.8502,-2.10721,0,-21.8502,-2.10721,-21.8502 1/1:28:0,28,0:0:0:28,0:948,0:-84.969,-8.42884,0,-84.969,-8.42884,-84.969 1/2:90:0,43,44:0:0:43,44:1414,1516:-233.599,-119.749,-106.805,-113.902,0,-100.656 1/1:93:0,91,0:0:0:91,0:3134,0:-280.817,-27.3937,0,-280.817,-27.3937,-280.817 1/1:170:0,167,0:0:0:167,0:5699,0:-509.878,-50.272,0,-509.878,-50.272,-509.878 1/1:62:0,61,0:0:0:61,0:2077,0:-186.301,-18.3628,0,-186.301,-18.3628,-186.301 1/1:50:0,50,0:0:0:50,0:1667,0:-150.188,-15.0515,0,-150.188,-15.0515,-150.188 1/2:79:0,26,51:0:0:26,51:897,1726:-207.015,-134.366,-126.539,-72.7072,0,-57.3547 1/2:48:0,26,21:0:0:26,21:889,718:-128.828,-56.868,-49.0412,-71.976,0,-65.6544 1/1:40:0,39,0:0:0:39,0:1312,0:-117.706,-11.7402,0,-117.706,-11.7402,-117.706 1/1:35:0,35,0:0:0:35,0:1114,0:-100.084,-10.5361,0,-100.084,-10.5361,-100.084 chr10 5728402 . T G 7483.53 PASS AB=0.521079;ABP=5.29895;AC=9;AF=0.214286;AN=42;AO=434;CIGAR=1X;DP=1868;DPB=1868;DPRA=0.937101;EPP=945.429;EPPR=3110.39;GTI=0;LEN=1;MEANALT=1;MQM=40.5207;MQMR=51.2621;NS=21;NUMALT=1;ODDS=6.47288;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15540;QR=51261;RO=1431;RPL=434;RPP=945.429;RPPR=3110.39;RPR=0;RUN=1;SAF=0;SAP=945.429;SAR=434;SRF=0;SRP=3110.39;SRR=1431;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:85:85,0:85:3037:0:0:0,-25.5875,-272.508 0/0:83:83,0:83:2980:0:0:0,-24.9855,-266.588 0/0:109:109,0:109:3893:0:0:0,-32.8123,-348.902 0/0:163:160,0:160:5740:0:0:0,-48.1648,-512.24 0/1:58:29,29:29:1040:29:1044:-73.6703,0,-74.9718 0/0:94:94,0:94:3349:0:0:0,-28.2968,-298.25 0/1:91:28,63:28:1004:63:2252:-161.801,0,-62.6265 1/1:124:0,124:0:0:124:4456:-381.305,-37.3277,0 0/1:185:87,98:87:3120:98:3492:-251.766,0,-224.143 0/1:7:6,1:6:216:1:36:-1.34728,0,-17.3911 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.6876 0/0:34:34,0:34:1205:0:0:0,-10.235,-107.734 0/1:107:61,46:61:2192:46:1652:-110.101,0,-164.295 0/0:117:117,0:117:4196:0:0:0,-35.2205,-374.423 0/0:218:218,0:218:7821:0:0:0,-65.6245,-698.186 0/0:80:80,0:80:2868:0:0:0,-24.0824,-257.303 0/0:58:58,0:58:2068:0:0:0,-17.4597,-186.102 0/1:88:37,51:37:1332:51:1820:-129.166,0,-92.9081 0/1:57:36,21:36:1288:21:752:-49.0609,0,-98.2194 0/0:54:53,1:53:1900:1:36:0,-13.5194,-167.403 0/0:45:45,0:45:1616:0:0:0,-13.5463,-143.828 chr10 5792076 . A T 12304.1 PASS AB=0.461211;ABP=15.3076;AC=9;AF=0.214286;AN=42;AO=673;CIGAR=1X;DP=2416;DPB=2416;DPRA=1.37676;EPP=1464.41;EPPR=3787.89;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.01584;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24144;QR=60798;RO=1743;RPL=0;RPP=1464.41;RPPR=3787.89;RPR=673;RUN=1;SAF=673;SAP=1464.41;SAR=0;SRF=1743;SRP=3787.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:107:107,0:107:3747:0:0:0,-32.2102,-337.432 0/0:76:76,0:76:2604:0:0:0,-22.8783,-234.607 0/0:94:94,0:94:3240:0:0:0,-28.2968,-291.829 0/0:173:173,0:173:5994:0:0:0,-52.0782,-539.58 0/1:176:97,79:97:3361:79:2836:-202.497,0,-249.73 0/0:133:131,2:131:4641:2:72:0,-33.2003,-411.02 0/1:185:104,81:104:3641:81:2912:-206.624,0,-272.21 1/1:228:0,228:0:0:228:8188:-736.93,-68.6348,0 0/1:174:98,76:98:3401:76:2720:-192.664,0,-253.933 0/1:21:8,13:8:280:13:468:-36.138,0,-19.2177 0/0:15:15,0:15:501:0:0:0,-4.51545,-45.4077 0/0:23:23,0:23:809:0:0:0,-6.92369,-73.1283 0/1:213:107,106:107:3687:106:3796:-277.719,0,-267.921 0/0:160:160,0:160:5608:0:0:0,-48.1648,-504.857 0/0:145:145,0:145:5040:0:0:0,-43.6493,-453.756 0/0:59:59,0:59:2030:0:0:0,-17.7608,-182.97 0/0:97:96,1:96:3368:1:36:0,-25.6016,-299.744 0/1:94:42,52:42:1496:52:1860:-139.383,0,-106.638 0/1:78:51,27:51:1812:27:968:-63.957,0,-139.881 0/0:106:100,6:100:3506:6:216:0,-12.1187,-295.963 0/0:59:57,2:57:2032:2:72:0,-10.924,-176.316 chr10 5792195 . T C 43385.1 PASS AB=0.607018;ABP=88.0634;AC=33;AF=0.785714;AN=42;AO=1717;CIGAR=1X;DP=2136;DPB=2136;DPRA=1.39324;EPP=1707.71;EPPR=402.561;GTI=0;LEN=1;MEANALT=1.2;MQM=59.9843;MQMR=60;NS=21;NUMALT=1;ODDS=10.5123;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61318;QR=14812;RO=414;RPL=1439;RPP=1707.71;RPPR=402.561;RPR=278;RUN=1;SAF=0;SAP=3731.43;SAR=1717;SRF=0;SRP=902;SRR=414;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:1,76:1:36:76:2702:-239.755,-19.581,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 1/1:114:0,114:0:0:114:4060:-365.587,-34.3174,0 1/1:88:1,86:1:36:86:3029:-269.289,-22.9012,0 0/1:190:88,102:88:3152:102:3631:-269.799,0,-226.709 1/1:94:0,94:0:0:94:3360:-302.617,-28.2968,0 0/1:166:68,98:68:2424:98:3490:-264.341,0,-168.445 0/0:74:74,0:74:2648:0:0:0,-22.2762,-238.567 0/1:265:88,177:88:3152:177:6346:-491.455,0,-204.132 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:24:0,24:0:0:24:864:-78.0826,-7.22472,0 0/1:79:46,33:46:1648:33:1184:-83.0869,0,-124.827 1/1:157:0,155:0:0:155:5564:-500.522,-46.6597,0 1/1:268:1,267:1:36:267:9540:-854.957,-77.0778,0 1/1:65:0,65:0:0:65:2332:-210.14,-19.567,0 1/1:44:0,43:0:0:43:1532:-137.813,-12.9443,0 0/1:72:26,46:26:928:46:1644:-126.574,0,-62.1641 0/1:72:16,56:16:576:56:2012:-159.679,0,-30.5008 1/1:172:1,170:1:32:170:6068:-543.005,-48.6167,0 1/1:50:0,50:0:0:50:1772:-159.76,-15.0515,0 chr10 6067887 . CCAATCTGTGTCA TCAGTCTGTGTCG,CCAGTCGGCGTCG 15391.1 PASS AB=0.510386,0.468843;ABP=3.32603,5.8519;AC=33,9;AF=0.785714,0.214286;AN=42;AO=535,195;CIGAR=1X2M1X8M1X,3M1X2M1X1M1X3M1X;DP=743;DPB=743;DPRA=0,1.64262;EPP=1096.3,392.417;EPPR=0;GTI=0;LEN=13,13;MEANALT=2,2.7;MQM=59.6019,40.7077;MQMR=0;NS=21;NUMALT=2;ODDS=2.95698;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18759,6702;QR=0;RO=0;RPL=527,191;RPP=1096.3,392.417;RPPR=0;RPR=8,4;RUN=1,1;SAF=0,0;SAP=1164.75,426.447;SAR=535,195;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,47,0:0:0:47,0:1660,0:-149.676,-14.1484,0,-149.676,-14.1484,-149.676 1/1:23:0,23,0:0:0:23,0:813,0:-73.4905,-6.92369,0,-73.4905,-6.92369,-73.4905 1/1:38:0,37,1:0:0:37,1:1303,36:-117.22,-11.1381,0,-114.369,-7.93644,-114.068 1/1:34:0,34,0:0:0:34,0:1205,0:-108.753,-10.235,0,-108.753,-10.235,-108.753 1/2:88:0,37,49:0:0:37,49:1271,1679:-236.185,-133.066,-121.928,-103.166,0,-88.4152 1/1:32:0,31,0:0:0:31,0:1077,0:-96.9339,-9.33193,0,-96.9339,-9.33193,-96.9339 1/2:71:0,32,37:0:0:32,37:1122,1277:-188.966,-97.8038,-88.1708,-91.2123,0,-80.0742 2/2:38:0,1,35:0:0:1,35:36,1200:-103.737,-100.799,-100.498,-10.5361,-7.59846,0 1/2:91:0,49,40:0:0:49,40:1719,1365:-248.565,-108.673,-93.9228,-139.961,0,-127.92 1/2:4:0,2,2:0:0:2,2:72,72:-11.7433,-5.85855,-5.25649,-6.23466,0,-5.6326 1/1:6:0,6,0:0:0:6,0:216,0:-19.7858,-1.80618,0,-19.7858,-1.80618,-19.7858 1/1:9:0,9,0:0:0:9,0:318,0:-28.9604,-2.70927,0,-28.9604,-2.70927,-28.9604 1/2:32:0,16,16:0:0:16,16:570,554:-90.043,-43.5739,-38.7575,-46.814,0,-41.9975 1/1:36:0,35,0:0:0:35,0:1227,0:-110.371,-10.5361,0,-110.371,-10.5361,-110.371 1/1:46:0,45,0:0:0:45,0:1572,0:-141.526,-13.5464,0,-141.526,-13.5464,-141.526 1/1:18:0,17,0:0:0:17,0:589,0:-52.9754,-5.11751,0,-52.9754,-5.11751,-52.9754 1/1:18:0,18,0:0:0:18,0:627,0:-56.7488,-5.41854,0,-56.7488,-5.41854,-56.7488 1/2:25:0,18,6:0:0:18,6:625,206:-66.9336,-16.1076,-10.689,-50.8781,0,-49.0719 1/2:26:0,18,8:0:0:18,8:639,277:-74.2834,-22.208,-16.7895,-52.4181,0,-50.0098 1/1:32:0,31,1:0:0:31,1:1102,36:-99.1452,-9.33193,0,-96.3374,-6.17847,-96.0364 1/1:29:0,29,0:0:0:29,0:996,0:-89.9193,-8.72987,0,-89.9193,-8.72987,-89.9193 chr10 6067908 . GG GA,AA 15439.3 PASS AB=0.526946,0.473054;ABP=5.11676,5.11676;AC=33,9;AF=0.785714,0.214286;AN=42;AO=540,197;CIGAR=1M1X,2X;DP=740;DPB=740;DPRA=0,1.63154;EPP=1175.61,430.79;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.52381,2;MQM=59.5148,40.7107;MQMR=60;NS=21;NUMALT=2;ODDS=2.90011;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19256,6970;QR=36;RO=1;RPL=540,197;RPP=1175.61,430.79;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1175.61,430.79;SAR=540,197;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,45,0:0:0:45,0:1612,0:-145.001,-13.5464,0,-145.001,-13.5464,-145.001 1/1:23:0,23,0:0:0:23,0:824,0:-74.4824,-6.92369,0,-74.4824,-6.92369,-74.4824 1/1:38:0,37,1:0:0:37,1:1324,32:-119.145,-11.1381,0,-116.604,-8.28051,-116.303 1/1:34:0,34,0:0:0:34,0:1209,0:-109.112,-10.235,0,-109.112,-10.235,-109.112 1/2:87:0,38,49:0:0:38,49:1326,1744:-246.037,-138.193,-126.754,-108.192,0,-93.4412 1/1:32:0,32,0:0:0:32,0:1137,0:-102.562,-9.63296,0,-102.562,-9.63296,-102.562 1/2:71:0,34,37:0:0:34,37:1224,1317:-199.855,-100.199,-89.9641,-100.003,0,-88.8649 2/2:38:0,1,37:0:0:1,37:36,1291:-111.169,-108.231,-107.93,-11.1381,-7.84087,0 1/2:90:0,50,40:0:0:50,40:1777,1413:-257.401,-112.606,-97.5549,-145.145,0,-133.104 1/2:4:0,2,2:0:0:2,2:72,72:-11.7433,-5.85855,-5.25649,-6.23466,0,-5.6326 1/1:6:0,6,0:0:0:6,0:216,0:-19.7858,-1.80618,0,-19.7858,-1.80618,-19.7858 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:32:0,16,16:0:0:16,16:576,574:-92.238,-45.2343,-40.4178,-47.3562,0,-42.5397 1/1:36:0,36,0:0:0:36,0:1292,0:-116.581,-10.8371,0,-116.581,-10.8371,-116.581 1/1:46:0,46,0:0:0:46,0:1633,0:-147.186,-13.8474,0,-147.186,-13.8474,-147.186 1/1:18:0,18,0:0:0:18,0:633,0:-57.2917,-5.41854,0,-57.2917,-5.41854,-57.2917 1/1:18:0,18,0:0:0:18,0:640,0:-57.9246,-5.41854,0,-57.9246,-5.41854,-57.9246 1/2:25:0,18,7:0:0:18,7:648,252:-72.0431,-19.1543,-13.7358,-53.2287,0,-51.1215 1/2:25:0,18,7:0:0:18,7:648,239:-71.9545,-19.0624,-13.6438,-53.231,0,-51.1238 1/1:32:0,31,1:0:0:31,1:1101,36:-98.0309,-9.33193,0,-95.223,-6.17847,-94.922 1/1:29:1,28,0:1:36:28,0:1004,0:-87.0694,-5.1316,0,-87.3704,-8.42884,-90.3079 chr10 6211310 . C T 15456.1 PASS AB=0.528376;ABP=6.58409;AC=33;AF=0.785714;AN=42;AO=731;CIGAR=1X;DP=1000;DPB=1000;DPRA=1.73571;EPP=1504.69;EPPR=569.894;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.318448;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25898;QR=9615;RO=269;RPL=721;RPP=1504.69;RPPR=569.894;RPR=10;RUN=1;SAF=0;SAP=1590.36;SAR=731;SRF=0;SRP=587.136;SRR=269;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:16:0,16:0:0:16:564:-51.0903,-4.81648,0 1/1:37:0,37:0:0:37:1282:-115.677,-11.1381,0 1/1:34:0,34:0:0:34:1196:-107.945,-10.235,0 1/1:47:0,47:0:0:47:1680:-151.487,-14.1484,0 0/1:143:70,73:70:2496:73:2588:-190.123,0,-181.846 1/1:27:0,27:0:0:27:949:-85.7228,-8.12781,0 0/1:99:44,55:44:1576:55:1941:-145.162,0,-112.33 0/0:28:28,0:28:1004:0:0:0,-8.42884,-90.6759 0/1:72:26,46:26:927:46:1640:-126.215,0,-62.0732 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:30:0,30:0:0:30:1065:-96.1598,-9.0309,0 0/1:49:31,18:31:1104:18:632:-42.4563,0,-84.9202 1/1:37:0,37:0:0:37:1265:-114.146,-11.1381,0 1/1:95:0,95:0:0:95:3368:-303.339,-28.5979,0 1/1:50:0,50:0:0:50:1788:-161.203,-15.0515,0 1/1:25:0,25:0:0:25:892:-80.5997,-7.52575,0 0/1:93:52,41:52:1864:41:1472:-104.78,0,-140.044 0/1:48:16,32:16:572:32:1152:-89.5407,0,-37.364 1/1:35:0,35:0:0:35:1244:-112.265,-10.5361,0 1/1:23:0,23:0:0:23:820:-74.1225,-6.92369,0 chr10 6228409 . C A 7544.1 PASS AB=0.462932;ABP=10.2545;AC=9;AF=0.214286;AN=42;AO=336;CIGAR=1X;DP=1133;DPB=1133;DPRA=2.74955;EPP=5.59539;EPPR=31.3922;GTI=1;LEN=1;MEANALT=1.11111;MQM=59.7083;MQMR=59.9661;NS=21;NUMALT=1;ODDS=5.1327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11803;QR=28348;RO=796;RPL=2;RPP=715.357;RPPR=1679.78;RPR=334;RUN=1;SAF=180;SAP=6.73282;SAR=156;SRF=455;SRP=38.4631;SRR=341;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4067 0/0:36:36,0:36:1267:0:0:0,-10.8371,-114.332 0/0:29:29,0:29:1032:0:0:0,-8.72987,-93.1864 0/0:37:37,0:37:1311:0:0:0,-11.1381,-118.291 0/1:72:31,41:31:1116:41:1428:-107.142,0,-79.0775 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.966 0/1:51:25,26:25:892:26:901:-66.0497,0,-65.2472 1/1:54:0,54:0:0:54:1873:-168.833,-16.2556,0 0/1:72:39,33:39:1392:33:1184:-85.1942,0,-103.905 0/1:8:3,5:3:108:5:176:-13.7768,0,-7.66693 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:56:20,36:20:720:36:1246:-95.5674,0,-48.2711 0/0:42:42,0:42:1492:0:0:0,-12.6433,-134.575 0/0:54:54,0:54:1923:0:0:0,-16.2556,-173.342 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:21:21,0:21:735:0:0:0,-6.32163,-66.4714 0/1:206:109,97:109:3883:97:3457:-249.302,0,-287.653 0/1:142:98,43:98:3500:43:1502:-92.6467,0,-272.406 0/0:29:29,0:29:1035:0:0:0,-8.72987,-93.4585 0/0:102:101,1:101:3574:1:36:0,-27.1068,-318.269 chr10 6269214 . T A,G 60588.5 PASS AB=0.500509,0.499491;ABP=3.01251,3.01251;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2179,626;CIGAR=1X,1X;DP=2806;DPB=2806;DPRA=1.09065,1.16541;EPP=4734.65,1362.35;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.7,1.93333;MQM=59.9711,59.9681;MQMR=60;NS=21;NUMALT=2;ODDS=9.21958;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77317,21954;QR=21;RO=1;RPL=0,1;RPP=4734.65,1353.68;RPPR=5.18177;RPR=2179,625;RUN=1,1;SAF=0,1;SAP=4734.65,1353.68;SAR=2179,625;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:214:1,210,3:1:21:210,3:7483,108:-671.258,-61.6648,0,-662.747,-54.2917,-663.432 1/1:100:0,100,0:0:0:100,0:3564,0:-320.968,-30.103,0,-320.968,-30.103,-320.968 1/1:113:0,111,2:0:0:111,2:3916,72:-352.267,-33.4143,0,-346.392,-27.1797,-345.79 1/1:303:0,303,0:0:0:303,0:10743,0:-966.779,-91.2121,0,-966.779,-91.2121,-966.779 1/2:263:0,126,137:0:0:126,137:4473,4818:-756.988,-392.53,-354.6,-364.811,0,-323.57 1/1:153:0,152,1:0:0:152,1:5393,36:-485.143,-45.7566,0,-482.205,-42.4593,-481.904 1/2:188:0,77,111:0:0:77,111:2716,3833:-532.909,-311.754,-288.574,-221.505,0,-188.091 2/2:123:0,0,123:0:0:0,123:0,4341:-390.865,-390.865,-390.865,-37.0267,-37.0267,0 1/2:194:0,100,94:0:0:100,94:3559,3300:-558.983,-268.921,-238.818,-290.415,0,-262.118 1/2:16:0,4,12:0:0:4,12:135,428:-46.1827,-35.2464,-34.0423,-11.2784,0,-7.66603 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:46:0,46,0:0:0:46,0:1607,0:-144.914,-13.8474,0,-144.914,-13.8474,-144.914 1/2:146:0,76,70:0:0:76,70:2701,2460:-420.677,-200.58,-177.701,-220.451,0,-199.378 1/1:188:0,186,2:0:0:186,2:6597,72:-593.452,-55.9916,0,-587.577,-49.7569,-586.975 1/1:208:0,208,0:0:0:208,0:7444,0:-670.002,-62.6142,0,-670.002,-62.6142,-670.002 1/1:87:0,86,1:0:0:86,1:3035,36:-273.018,-25.8886,0,-270.081,-22.5913,-269.78 1/1:138:0,137,1:0:0:137,1:4889,36:-439.798,-41.2411,0,-436.861,-37.9439,-436.56 1/2:87:0,52,35:0:0:52,35:1819,1219:-247.46,-99.4748,-83.8213,-148.334,0,-137.798 1/2:89:0,57,32:0:0:57,32:2010,1123:-255.406,-91.7442,-74.5855,-164.014,0,-154.381 1/1:90:0,88,2:0:0:88,2:3123,72:-280.935,-26.4906,0,-275.06,-20.256,-274.458 1/1:54:0,54,0:0:0:54,0:1894,0:-170.735,-16.2556,0,-170.735,-16.2556,-170.735 chr10 6328570 . T C 36758 PASS AB=0.489068;ABP=3.91237;AC=33;AF=0.785714;AN=42;AO=1741;CIGAR=1X;DP=2328;DPB=2328;DPRA=0.831818;EPP=3783.54;EPPR=1277.66;GTI=0;LEN=1;MEANALT=1;MQM=59.9167;MQMR=59.9864;NS=21;NUMALT=1;ODDS=2.51788;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61722;QR=21043;RO=587;RPL=1741;RPP=3783.54;RPPR=1277.66;RPR=0;RUN=1;SAF=1741;SAP=3783.54;SAR=0;SRF=587;SRP=1277.66;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:0,113:0:0:113:4013:-361.358,-34.0164,0 1/1:99:0,99:0:0:99:3517:-316.721,-29.802,0 1/1:128:1,127:1:36:127:4511:-402.561,-34.9336,0 1/1:146:0,146:0:0:146:5197:-467.852,-43.9504,0 0/1:92:51,41:51:1836:41:1468:-104.72,0,-137.82 1/1:105:4,101:4:144:101:3575:-308.642,-18.2945,0 0/1:138:76,62:76:2724:62:2196:-156.361,0,-203.861 0/0:132:132,0:132:4740:0:0:0,-39.736,-426.757 0/1:188:86,102:86:3092:102:3625:-269.862,0,-221.913 0/1:45:23,22:23:824:22:775:-56.5248,0,-60.937 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:45:0,45:0:0:45:1616:-145.414,-13.5464,0 0/1:155:80,75:80:2864:75:2691:-195.774,0,-211.338 1/1:173:1,172:1:36:172:6031:-539.259,-48.4799,0 1/1:167:0,167:0:0:167:5942:-534.889,-50.272,0 1/1:62:0,62:0:0:62:2197:-197.995,-18.6639,0 1/1:103:4,99:4:144:99:3525:-304.147,-17.6925,0 0/1:138:81,57:81:2879:57:1994:-137.696,0,-217.803 0/1:113:47,66:47:1688:66:2303:-173.511,0,-118.19 1/1:110:1,109:1:36:109:3861:-344.087,-29.515,0 1/1:66:0,66:0:0:66:2325:-209.506,-19.868,0 chr10 6340284 . C G 7761.15 PASS AB=0.48267;ABP=5.0424;AC=9;AF=0.214286;AN=42;AO=450;CIGAR=1X;DP=2079;DPB=2079;DPRA=1.1053;EPP=980.173;EPPR=3525.14;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9778;MQMR=59.9453;NS=21;NUMALT=1;ODDS=14.0623;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16025;QR=58117;RO=1626;RPL=0;RPP=980.173;RPPR=3533.82;RPR=450;RUN=1;SAF=450;SAP=980.173;SAR=0;SRF=1625;SRP=3525.14;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:128:127,0:127:4556:0:0:0,-38.2308,-409.809 0/0:80:80,0:80:2860:0:0:0,-24.0824,-257.638 0/0:67:67,0:67:2395:0:0:0,-20.169,-215.806 0/0:178:178,0:178:6384:0:0:0,-53.5833,-574.648 0/1:176:104,72:104:3709:72:2565:-178.117,0,-281.023 0/0:87:86,1:86:3076:1:36:0,-22.5913,-273.47 0/1:172:81,91:81:2900:91:3252:-241.124,0,-209.451 1/1:70:0,70:0:0:70:2462:-221.827,-21.0721,0 0/1:144:60,84:60:2136:84:3008:-227.603,0,-149.16 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/1:113:62,51:62:2220:51:1813:-129.431,0,-166.046 0/0:160:160,0:160:5736:0:0:0,-48.1648,-516.325 0/0:150:149,0:149:5316:0:0:0,-44.8535,-478.214 0/0:77:77,0:77:2737:0:0:0,-23.1793,-246.516 0/0:85:85,0:85:3032:0:0:0,-25.5875,-273.111 0/1:84:42,42:42:1495:42:1485:-108.656,0,-109.557 0/1:81:49,32:49:1747:32:1152:-79.6067,0,-133.13 0/0:106:102,3:102:3627:3:108:0,-21.8629,-316.571 0/0:64:64,0:64:2283:0:0:0,-19.2659,-205.731 chr10 6340290 . T C 34113.7 PASS AB=0.524183;ABP=6.89624;AC=33;AF=0.785714;AN=42;AO=1600;CIGAR=1X;DP=2037;DPB=2037;DPRA=1.54141;EPP=3468.69;EPPR=943.258;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9544;MQMR=59.9908;NS=21;NUMALT=1;ODDS=14.4656;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56742;QR=15454;RO=433;RPL=0;RPP=3477.37;RPPR=943.258;RPR=1600;RUN=1;SAF=1599;SAP=3468.69;SAR=1;SRF=433;SRP=943.258;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:126:0,126:0:0:126:4451:-400.678,-37.9298,0 1/1:78:0,78:0:0:78:2788:-251.161,-23.4803,0 1/1:67:0,67:0:0:67:2388:-215.178,-20.169,0 1/1:169:1,167:1:36:167:5933:-530.484,-47.3346,0 0/1:173:71,102:71:2540:102:3619:-273.837,0,-176.773 1/1:81:1,80:1:36:80:2838:-252.06,-20.7852,0 0/1:168:85,83:85:3023:83:2916:-212.095,0,-221.728 0/0:64:64,0:64:2271:0:0:0,-19.2659,-204.652 0/1:140:80,60:80:2860:60:2138:-150.544,0,-215.494 0/1:9:4,5:4:144:5:176:-13.4757,0,-10.6043 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:36:0,36:0:0:36:1271:-114.692,-10.8371,0 0/1:111:50,61:50:1788:61:2179:-162.959,0,-127.786 1/1:161:0,161:0:0:161:5707:-513.751,-48.4658,0 1/1:149:0,148:0:0:148:5238:-471.199,-44.5524,0 1/1:77:0,77:0:0:77:2751:-247.776,-23.1793,0 1/1:84:0,84:0:0:84:2992:-269.513,-25.2865,0 0/1:83:42,41:42:1508:41:1464:-107.071,0,-111.029 0/1:81:32,49:32:1140:49:1734:-131.96,0,-78.5258 1/1:105:3,100:3:108:100:3523:-307.206,-21.2907,0 1/1:64:0,64:0:0:64:2244:-202.222,-19.2659,0 chr10 6340383 . AAGG AAGA,GAGA 41190.7 PASS AB=0.55858,0.439053;ABP=28.1968,30.2732;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1431,467;CIGAR=3M1X,1X2M1X;DP=1907;DPB=1907;DPRA=0.964362,1.31949;EPP=3101.71,991.198;EPPR=7.35324;GTI=0;LEN=1,4;MEANALT=1.8,2.1;MQM=59.9846,60;MQMR=60;NS=21;NUMALT=2;ODDS=5.36683;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51223,16492;QR=71;RO=2;RPL=1430,464;RPP=3101.71,991.198;RPPR=7.35324;RPR=1,3;RUN=1,1;SAF=0,0;SAP=3110.39,1017.09;SAR=1431,467;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:169:0,168,0:0:0:168,0:6040,0:-543.43,-50.573,0,-543.43,-50.573,-543.43 1/1:60:0,60,0:0:0:60,0:2147,0:-193.497,-18.0618,0,-193.497,-18.0618,-193.497 1/1:114:0,113,0:0:0:113,0:4045,0:-363.915,-34.0164,0,-363.915,-34.0164,-363.915 1/1:60:0,59,1:0:0:59,1:2112,36:-189.989,-17.7608,0,-187.052,-14.4635,-186.751 1/2:223:0,109,113:0:0:109,113:3884,3973:-639.975,-323.388,-290.575,-316.581,0,-282.565 1/1:65:1,64,0:1:36:64,0:2296,0:-203.303,-15.9687,0,-203.604,-19.2659,-206.541 1/2:96:0,56,39:0:0:56,39:1997,1369:-274.249,-111.465,-94.6073,-162.836,0,-151.096 2/2:94:0,0,94:0:0:0,94:0,3306:-297.759,-297.759,-297.759,-28.2968,-28.2968,0 1/2:184:0,126,58:0:0:126,58:4524,2072:-538.33,-169.291,-131.362,-369.396,0,-351.937 1/2:21:0,13,8:0:0:13,8:468,288:-62.0456,-23.8592,-19.9458,-38.5463,0,-36.138 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:45:0,45,0:0:0:45,0:1620,0:-146.09,-13.5464,0,-146.09,-13.5464,-146.09 1/2:115:0,60,55:0:0:60,55:2147,1934:-332.858,-157.778,-139.716,-175.435,0,-158.878 1/1:101:0,100,0:0:0:100,0:3579,0:-322.036,-30.103,0,-322.036,-30.103,-322.036 1/1:141:0,139,0:0:0:139,0:4984,0:-448.405,-41.8432,0,-448.405,-41.8432,-448.405 1/1:64:0,64,0:0:0:64,0:2282,0:-205.641,-19.2659,0,-205.641,-19.2659,-205.641 1/1:56:0,56,0:0:0:56,0:1989,0:-179.282,-16.8577,0,-179.282,-16.8577,-179.282 1/2:147:0,67,80:0:0:67,80:2390,2846:-427.128,-232.297,-212.128,-195.188,0,-171.105 1/2:59:0,41,18:0:0:41,18:1472,632:-171.868,-51.787,-39.4448,-120.434,0,-115.015 1/1:41:0,40,1:0:0:40,1:1416,36:-127.378,-12.0412,0,-124.44,-8.74396,-124.139 1/1:41:1,40,0:1:35:40,0:1435,0:-125.949,-8.8436,0,-126.25,-12.0412,-129.098 chr10 6371258 . ACTATCCG GCTTTCCA,GCCATCTG 84041.1 PASS AB=0.563681,0.426459;ABP=45.8777,60.1805;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2793,688;CIGAR=1X2M1X3M1X,1X1M1X3M1X1M;DP=3517;DPB=3518.5;DPRA=1.03549,1.33461;EPP=6067.93,1496.98;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.95,3.63636;MQM=42.0652,45.8997;MQMR=0;NS=21;NUMALT=2;ODDS=19.6679;PAIRED=0,0;PAIREDR=0;PAO=4,1;PQA=137,36;PQR=0;PRO=0;QA=97733,23324;QR=0;RO=0;RPL=1466,409;RPP=18.0318,56.3502;RPPR=0;RPR=1327,279;RUN=1,1;SAF=1466,409;SAP=18.0318,56.3502;SAR=1327,279;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:262:0,257,2:0:0:257,2:9003,69:-740.913,-77.3647,0,-735.58,-72.0212,-734.978 1/1:176:0,176,0:0:0:176,0:6145,0:-500.484,-52.9813,0,-500.484,-52.9813,-500.484 1/1:150:0,150,0:0:0:150,0:5248,0:-416.933,-45.1545,0,-416.933,-45.1545,-416.933 1/1:203:0,198,0:0:0:198,0:6957,0:-545.168,-59.6039,0,-545.168,-59.6039,-545.168 1/2:327:0,173,148:0:0:173,148:6031,4948:-812.724,-380.615,-328.537,-432.134,0,-387.581 1/1:104:0,101,0:0:0:101,0:3523,0:-288.089,-30.404,0,-288.089,-30.404,-288.089 1/2:196:0,116,78:0:0:116,78:3973,2664:-494.21,-206.234,-171.315,-287.939,0,-264.459 2/2:162:0,0,162:0:0:0,162:0,5512:-479.321,-479.321,-479.321,-48.7669,-48.7669,0 1/2:298:0,161,136:0:0:161,136:5651,4597:-779.261,-360.662,-312.196,-418.605,0,-377.665 1/2:7:0,2,5:0:0:2,5:69,174:-19.8045,-14.2045,-13.6024,-5.94368,0,-4.43853 1/1:4:0,4,0:0:0:4,0:137,0:-11.769,-1.20412,0,-11.769,-1.20412,-11.769 1/1:23:0,22,0:0:0:22,0:769,0:-59.6815,-6.62266,0,-59.6815,-6.62266,-59.6815 1/2:138:0,76,60:0:0:76,60:2655,2064:-369.388,-165.018,-142.139,-204.39,0,-186.328 1/1:206:0,201,3:0:0:201,3:7022,98:-540.791,-60.507,0,-533.644,-53.3365,-532.741 1/1:327:0,324,0:0:0:324,0:11454,0:-925.939,-97.5337,0,-925.939,-97.5337,-925.939 1/1:141:0,138,0:0:0:138,0:4831,0:-379.967,-41.5421,0,-379.967,-41.5421,-379.967 1/1:172:0,172,0:0:0:172,0:6026,0:-457.025,-51.7772,0,-457.025,-51.7772,-457.025 1/2:134:0,71,62:0:0:71,62:2439,2119:-337.681,-164.695,-143.322,-173.081,0,-154.418 1/2:117:0,87,30:0:0:87,30:3050,1010:-297.812,-78.5718,-52.3822,-219.561,0,-210.53 1/1:245:0,239,2:0:0:239,2:8385,69:-679.173,-71.9462,0,-673.842,-66.6193,-673.24 1/1:125:0,125,0:0:0:125,0:4365,0:-354.464,-37.6288,0,-354.464,-37.6288,-354.464 chr10 6390127 . A G 28239.3 PASS AB=0.533247;ABP=17.8826;AC=29;AF=0.690476;AN=42;AO=1427;CIGAR=1X;DP=2311;DPB=2311;DPRA=0.67673;EPP=3049.81;EPPR=1903.09;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9369;MQMR=59.9989;NS=21;NUMALT=1;ODDS=4.54143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50864;QR=31610;RO=883;RPL=1421;RPP=3049.81;RPPR=1903.09;RPR=6;RUN=1;SAF=0;SAP=3101.7;SAR=1427;SRF=0;SRP=1920.42;SRR=883;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:1,90:1:36:90:3207:-285.255,-24.1553,0 1/1:70:0,70:0:0:70:2486:-223.93,-21.0721,0 0/1:125:42,83:42:1512:83:2955:-228.555,0,-98.7459 0/1:146:45,101:45:1611:101:3596:-279.895,0,-101.329 0/1:250:148,102:148:5291:102:3638:-252.367,0,-401.068 0/1:213:71,142:71:2556:142:5060:-391.423,0,-166.17 0/1:69:30,39:30:1080:39:1372:-103.005,0,-76.7422 0/0:159:159,0:159:5683:0:0:0,-47.8638,-511.589 0/1:205:107,98:107:3831:98:3494:-252.946,0,-283.275 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 0/1:91:44,47:44:1567:47:1688:-124.813,0,-113.927 0/1:191:73,118:73:2596:118:4215:-322.034,0,-176.393 1/1:136:0,136:0:0:136:4829:-434.576,-40.9401,0 1/1:70:0,70:0:0:70:2512:-226.332,-21.0721,0 1/1:74:0,74:0:0:74:2633:-237.216,-22.2762,0 0/1:171:111,60:111:3979:60:2130:-140.491,0,-306.823 0/1:79:47,32:47:1688:32:1144:-79.4696,0,-128.426 1/1:72:0,72:0:0:72:2570:-231.549,-21.6742,0 1/1:52:0,52:0:0:52:1863:-167.949,-15.6536,0 chr10 6439267 . C T 14684.5 PASS AB=0.447964;ABP=34.197;AC=9;AF=0.214286;AN=42;AO=820;CIGAR=1X;DP=3228;DPB=3228;DPRA=1.97163;EPP=1774.94;EPPR=1883.33;GTI=1;LEN=1;MEANALT=1;MQM=59.9768;MQMR=59.6146;NS=21;NUMALT=1;ODDS=4.32339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29249;QR=85853;RO=2408;RPL=819;RPP=1774.94;RPPR=1883.33;RPR=1;RUN=1;SAF=820;SAP=1783.62;SAR=0;SRF=2408;SRP=5231.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:192:191,1:191:6816:1:36:0,-54.1995,-609.318 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/0:143:143,0:143:5112:0:0:0,-43.0473,-459.979 0/0:251:251,0:251:8914:0:0:0,-75.5585,-801.728 0/1:265:141,124:141:5031:124:4410:-317.299,0,-373.089 0/0:91:91,0:91:3245:0:0:0,-27.3937,-292.27 0/1:250:149,101:149:5316:101:3587:-247.78,0,-403.319 1/1:222:0,222:0:0:222:7946:-715.163,-66.8287,0 0/1:411:226,185:226:8026:185:6603:-470.592,0,-598.497 0/1:19:11,8:11:396:8:284:-20.1838,0,-30.2632 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:37:37,0:37:1320:0:0:0,-11.1381,-119.102 0/1:205:99,106:99:3523:106:3782:-278.865,0,-255.496 0/0:192:192,0:192:6843:0:0:0,-57.7978,-615.884 0/0:236:236,0:236:8424:0:0:0,-71.0431,-757.586 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 0/0:49:49,0:49:1740:0:0:0,-14.7505,-156.884 0/1:89:42,47:42:1512:47:1688:-125.415,0,-109.583 0/1:87:64,23:64:2271:23:805:-46.5779,0,-178.406 0/0:332:329,3:329:11744:3:108:0,-89.8668,-1046.61 0/0:53:53,0:53:1892:0:0:0,-15.9546,-170.558 chr10 6699808 . CCCAGCG ACCGGCC,CCCAGCA 30168.8 PASS AB=0.603534,0.302029;ABP=134.755,456.114;AC=22,15;AF=0.52381,0.357143;AN=42;AO=1022,416;CIGAR=1X2M1X2M1X,6M1X;DP=1613;DPB=1613.14;DPRA=0,0;EPP=599.847,7.10269;EPPR=3.22745;GTI=3;LEN=7,1;MEANALT=2.57143,2.68421;MQM=39.1204,59.9351;MQMR=60;NS=21;NUMALT=2;ODDS=8.38998;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=32;PRO=1;QA=35851,14913;QR=5634;RO=160;RPL=776,411;RPP=599.847,863.435;RPPR=333.291;RPR=246,5;RUN=1,1;SAF=0,217;SAP=2222.26,4.70154;SAR=1022,199;SRF=80;SRP=3.0103;SRR=80;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:38:0,19,18:0:0:19,18:657,648:-102.864,-52.883,-47.1634,-49.9754,0,-44.5568 1/2:32:0,8,23:0:0:8,23:286,828:-90.4066,-67.5606,-65.1524,-22.8402,0,-15.9166 1/2:34:0,29,5:0:0:29,5:1010,180:-90.925,-15.0469,-6.31704,-76.2327,0,-74.7275 1/2:97:0,69,27:0:0:69,27:2434,968:-260.188,-79.0317,-58.2606,-181.228,0,-173.1 0/1:137:23,95,17:23:816:95,17:3358,593:-241.523,0,-37.8908,-200.215,-18.2611,-261.586 1/2:86:2,57,26:2:71:57,26:2010,921:-230.615,-69.2563,-57.8829,-156.191,0,-154.149 0/1:152:19,119,14:19:669:119,14:4212,500:-333.689,0,-18.6394,-298.643,-13.6951,-348.893 0/1:74:40,33,0:40:1405:33,0:1137,0:-74.2309,0,-104.46,-86.2721,-114.394,-200.642 1/1:198:15,168,14:15:533:168,14:5871,504:-438.206,-7.13851,0,-401.595,-9.44386,-440.816 0/1:10:2,8,0:2:72:8,0:283,0:-20.3009,0,-3.82642,-20.903,-6.23466,-26.7859 1/2:6:0,5,1:0:0:5,1:180,36:-17.8949,-3.29724,-1.79209,-14.9572,0,-14.6561 1/2:18:0,10,8:0:0:10,8:351,288:-50.1656,-23.8592,-20.8489,-26.6512,0,-24.2429 0/1:81:21,44,16:21:723:44,16:1547,576:-109.609,0,-45.4689,-68.923,-11.7088,-122.835 1/2:103:0,80,20:0:0:80,20:2791,712:-266.471,-57.6787,-33.5963,-208.862,0,-202.841 1/2:108:0,67,40:0:0:67,40:2360,1440:-292.052,-117.584,-97.4153,-174.542,0,-162.501 1/2:28:0,12,16:0:0:12,16:410,576:-77.962,-47.3585,-43.7461,-30.9388,0,-26.1224 1/2:54:0,40,14:0:0:40,14:1405,504:-144.105,-41.4837,-29.4425,-102.97,0,-98.7557 1/2:80:22,28,29:22:773:28,29:941,1035:-85.4612,-21.4647,-75.9505,-7.68667,0,-61.8893 1/2:80:16,27,35:16:572:27,35:959,1256:-123.853,-55.8133,-94.3253,-26.2053,0,-62.3175 1/2:98:0,70,28:0:0:70,28:2439,1008:-262.105,-82.6075,-61.5354,-179.845,0,-171.417 1/2:99:0,34,65:0:0:34,65:1210,2340:-289.142,-191.292,-181.057,-98.2051,0,-78.6381 chr10 6699819 . C T 7491.03 PASS AB=0.309924;ABP=414.105;AC=18;AF=0.428571;AN=42;AO=420;CIGAR=1X;DP=1584;DPB=1584;DPRA=2.00533;EPP=7.06372;EPPR=1872.84;GTI=3;LEN=1;MEANALT=1.21053;MQM=59.9357;MQMR=42.0828;NS=21;NUMALT=1;ODDS=7.41143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15029;QR=41422;RO=1159;RPL=419;RPP=906.364;RPPR=2511.07;RPR=1;RUN=1;SAF=223;SAP=6.50534;SAR=197;SRF=79;SRP=1880.33;SRR=1080;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:19,17:19:676:17:612:-44.5764,0,-46.6021 0/1:32:8,24:8:288:24:860:-68.0889,0,-16.0945 0/1:31:26,5:26:932:5:175:-6.76122,0,-68.4782 0/1:95:67,27:67:2404:27:964:-58.5294,0,-171.499 0/1:135:117,18:117:4180:18:629:-16.2947,0,-310.038 0/1:86:59,27:59:2120:27:972:-61.9093,0,-162.957 0/1:151:137,14:137:4912:14:504:-0.242564,0,-392.622 0/0:69:69,0:69:2464:0:0:0,-20.7711,-216.089 0/0:195:179,14:179:6401:14:504:0,-12.711,-484.748 0/0:10:10,0:10:360:0:0:0,-3.0103,-30.1087 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.6561 0/1:17:10,7:10:356:7:252:-17.9114,0,-24.8726 0/1:78:62,16:62:2220:16:576:-28.6946,0,-166.591 0/1:101:79,21:79:2806:21:739:-36.0486,0,-202.693 0/1:108:66,41:66:2368:41:1476:-100.677,0,-163.097 0/1:28:12,16:12:417:16:576:-43.7461,0,-26.3824 0/1:51:38,13:38:1341:13:460:-26.3828,0,-93.8757 0/1:78:50,28:50:1788:28:999:-66.7442,0,-131.266 0/1:79:44,35:44:1568:35:1260:-89.9241,0,-111.959 0/1:96:68,28:68:2433:28:1000:-61.4165,0,-169.81 0/1:102:34,68:34:1208:68:2435:-188.7,0,-77.5185 chr10 6758832 . A T 31510.7 PASS AB=0.372277;ABP=146.121;AC=33;AF=0.785714;AN=42;AO=1534;CIGAR=1X;DP=2436;DPB=2436;DPRA=0.422093;EPP=3334.05;EPPR=1961.68;GTI=2;LEN=1;MEANALT=1;MQM=59.912;MQMR=59.9712;NS=21;NUMALT=1;ODDS=4.57352;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54722;QR=32281;RO=902;RPL=0;RPP=3334.05;RPPR=1961.68;RPR=1534;RUN=1;SAF=1534;SAP=3334.05;SAR=0;SRF=902;SRP=1961.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:3,106:3:108:106:3788:-331.023,-22.7371,0 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 1/1:98:0,98:0:0:98:3508:-315.93,-29.5009,0 1/1:95:0,95:0:0:95:3359:-302.523,-28.5979,0 0/1:117:76,41:76:2721:41:1453:-95.8378,0,-209.911 1/1:130:2,128:2:72:128:4529:-400.934,-32.2972,0 0/1:186:114,72:114:4096:72:2576:-176.098,0,-312.832 0/0:258:258,0:258:9219:0:0:0,-77.6657,-829.591 0/1:317:213,104:213:7626:104:3736:-240.641,0,-590.946 0/1:38:27,11:27:957:11:381:-23.1811,0,-75.0047 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 1/1:27:0,27:0:0:27:952:-85.9929,-8.12781,0 0/1:158:106,52:106:3793:52:1864:-120.477,0,-294 1/1:144:0,144:0:0:144:5115:-460.49,-43.3483,0 1/1:198:3,195:3:108:195:6962:-616.565,-49.5288,0 1/1:53:0,53:0:0:53:1889:-170.199,-15.9546,0 1/1:52:0,52:0:0:52:1872:-168.758,-15.6536,0 0/1:118:66,52:66:2357:52:1868:-132.877,0,-176.865 0/1:76:32,44:32:1152:44:1572:-118.893,0,-81.1119 1/1:144:2,142:2:72:142:5062:-448.798,-36.5116,0 1/1:48:0,48:0:0:48:1728:-155.805,-14.4494,0 chr10 6829779 . G A 7894.99 PASS AB=0.509091;ABP=3.52356;AC=9;AF=0.214286;AN=42;AO=444;CIGAR=1X;DP=1636;DPB=1636;DPRA=1.50694;EPP=967.144;EPPR=2591.41;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9681;NS=21;NUMALT=1;ODDS=2.44225;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15880;QR=42605;RO=1192;RPL=0;RPP=967.144;RPPR=2591.41;RPR=444;RUN=1;SAF=444;SAP=967.144;SAR=0;SRF=1192;SRP=2591.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:80,0:80:2860:0:0:0,-24.0824,-257.638 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.549 0/0:84:84,0:84:3004:0:0:0,-25.2865,-270.592 0/0:64:64,0:64:2284:0:0:0,-19.2659,-205.822 0/1:144:78,66:78:2784:66:2368:-170.03,0,-207.367 0/0:66:66,0:66:2345:0:0:0,-19.868,-211.308 0/1:103:46,57:46:1639:57:2048:-153.585,0,-116.792 1/1:79:0,79:0:0:79:2794:-251.699,-23.7814,0 0/1:173:75,98:75:2688:98:3494:-262.592,0,-190.086 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 0/1:79:44,35:44:1572:35:1256:-89.5639,0,-117.99 0/0:57:57,0:57:2032:0:0:0,-17.1587,-183.153 0/0:168:168,0:168:6009:0:0:0,-50.573,-540.914 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.847 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/1:97:39,58:39:1376:58:2088:-158.99,0,-94.9387 0/1:105:61,44:61:2188:44:1580:-110.883,0,-165.578 0/0:74:73,1:73:2612:1:36:0,-18.6779,-231.6 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 chr10 6829803 . C G 25776 PASS AB=0.495159;ABP=3.15747;AC=33;AF=0.785714;AN=42;AO=1211;CIGAR=1X;DP=1660;DPB=1660;DPRA=0.95;EPP=2615.32;EPPR=975.83;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9835;MQMR=60;NS=21;NUMALT=1;ODDS=2.27903;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43309;QR=16056;RO=448;RPL=1209;RPP=2615.32;RPPR=975.83;RPR=2;RUN=1;SAF=1211;SAP=2632.66;SAR=0;SRF=448;SRP=975.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2922:-263.212,-24.6845,0 1/1:91:0,91:0:0:91:3260:-293.621,-27.3937,0 1/1:85:0,85:0:0:85:3047:-274.459,-25.5876,0 1/1:64:0,64:0:0:64:2293:-206.63,-19.2659,0 0/1:145:65,80:65:2323:80:2865:-214.438,0,-165.68 1/1:65:0,65:0:0:65:2331:-210.049,-19.567,0 0/1:104:56,48:56:2016:48:1724:-124.138,0,-150.406 0/0:83:83,0:83:2964:0:0:0,-24.9855,-266.994 0/1:175:97,77:97:3484:77:2756:-195.543,0,-261.031 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:36:0,36:0:0:36:1280:-115.503,-10.8371,0 0/1:82:37,45:37:1328:45:1616:-121.046,0,-95.1378 1/1:57:0,57:0:0:57:2040:-183.871,-17.1587,0 1/1:169:0,169:0:0:169:6050:-544.6,-50.8741,0 1/1:48:0,48:0:0:48:1728:-155.805,-14.4494,0 1/1:35:0,35:0:0:35:1260:-113.705,-10.5361,0 0/1:97:58,39:58:2069:39:1392:-96.3791,0,-157.279 0/1:106:45,61:45:1620:61:2162:-162.934,0,-114.181 1/1:75:1,74:1:36:74:2624:-232.801,-18.979,0 1/1:40:0,40:0:0:40:1419:-128.005,-12.0412,0 chr10 6831772 . GTAT ATAT,ATAC 51440.5 PASS AB=0.494172,0.504662;ABP=3.26339,3.17227;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1867,512;CIGAR=1X3M,1X2M1X;DP=2384;DPB=2384;DPRA=1.53933,1.12049;EPP=4057.15,1114.8;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.7,2;MQM=59.4917,38.6738;MQMR=0;NS=21;NUMALT=2;ODDS=10.0939;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66925,18303;QR=0;RO=0;RPL=0,0;RPP=4057.15,1114.8;RPPR=0;RPR=1867,512;RUN=1,1;SAF=1867,512;SAP=4057.15,1114.8;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:164:0,161,3:0:0:161,3:5773,108:-518.815,-48.4658,0,-510.392,-39.6963,-509.489 1/1:84:0,84,0:0:0:84,0:3012,0:-271.257,-25.2865,0,-271.257,-25.2865,-271.257 1/1:84:0,84,0:0:0:84,0:3016,0:-271.666,-25.2865,0,-271.666,-25.2865,-271.666 1/1:182:0,181,0:0:0:181,0:6482,0:-582.792,-54.4864,0,-582.792,-54.4864,-582.792 1/2:231:0,110,120:0:0:110,120:3944,4269:-650.368,-328.703,-295.59,-321.717,0,-285.593 1/1:246:0,246,0:0:0:246,0:8844,0:-795.703,-74.0534,0,-795.703,-74.0534,-795.703 1/2:168:0,77,91:0:0:77,91:2753,3267:-465.279,-241.056,-217.876,-224.567,0,-197.173 2/2:75:0,0,75:0:0:0,75:0,2692:-226.274,-226.274,-226.274,-22.5773,-22.5773,0 1/2:195:0,93,102:0:0:93,102:3344,3640:-559.055,-286.229,-258.233,-273.178,0,-242.473 1/2:9:0,5,4:0:0:5,4:180,144:-26.0205,-11.33,-9.82485,-15.0386,0,-13.8345 1/1:5:0,5,0:0:0:5,0:180,0:-16.5437,-1.50515,0,-16.5437,-1.50515,-16.5437 1/1:45:0,45,0:0:0:45,0:1597,0:-143.999,-13.5464,0,-143.999,-13.5464,-143.999 1/2:115:0,53,62:0:0:53,62:1885,2219:-324.686,-171.082,-155.127,-153.952,0,-135.288 1/1:93:0,91,0:0:0:91,0:3260,0:-292.972,-27.3937,0,-292.972,-27.3937,-292.972 1/1:159:0,159,0:0:0:159,0:5678,0:-511.056,-47.8638,0,-511.056,-47.8638,-511.056 1/1:96:0,95,0:0:0:95,0:3408,0:-306.642,-28.5979,0,-306.642,-28.5979,-306.642 1/1:106:0,105,1:0:0:105,1:3776,36:-339.667,-31.6082,0,-336.816,-28.4065,-336.515 1/2:67:0,39,28:0:0:39,28:1404,1000:-191.235,-76.7237,-64.9835,-114.858,0,-106.429 1/2:73:0,47,26:0:0:47,26:1684,928:-209.284,-71.9411,-57.7927,-137.689,0,-129.863 1/1:123:0,123,0:0:0:123,0:4405,0:-396.593,-37.0267,0,-396.593,-37.0267,-396.593 1/1:64:0,64,0:0:0:64,0:2300,0:-207.089,-19.2659,0,-207.089,-19.2659,-207.089 chr10 6831794 . T A 8132.72 PASS AB=0.507602;ABP=3.43951;AC=9;AF=0.214286;AN=42;AO=515;CIGAR=1X;DP=2372;DPB=2372;DPRA=1.03358;EPP=1121.32;EPPR=3906.2;GTI=0;LEN=1;MEANALT=1;MQM=38.7767;MQMR=59.4895;NS=21;NUMALT=1;ODDS=9.68081;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18413;QR=66601;RO=1857;RPL=0;RPP=1121.32;RPPR=3906.2;RPR=515;RUN=1;SAF=515;SAP=1121.32;SAR=0;SRF=1857;SRP=4035.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:163:160,3:160:5740:3:108:0,-39.3953,-506.229 0/0:82:82,0:82:2929:0:0:0,-24.6845,-263.793 0/0:84:84,0:84:3020:0:0:0,-25.2865,-272.025 0/0:180:180,0:180:6440:0:0:0,-54.1854,-578.967 0/1:227:107,120:107:3832:120:4274:-297.057,0,-276.697 0/0:246:246,0:246:8819:0:0:0,-74.0534,-793.467 0/1:167:75,92:75:2696:92:3288:-220.814,0,-192.348 1/1:75:0,75:0:0:75:2692:-226.2,-22.5773,0 0/1:195:93,102:93:3348:102:3645:-258.551,0,-242.832 0/1:9:5,4:5:180:4:144:-9.82485,0,-13.8345 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5437 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.348 0/1:117:55,62:55:1971:62:2214:-154.723,0,-142.428 0/0:91:91,0:91:3267:0:0:0,-27.3937,-294.189 0/0:158:158,0:158:5667:0:0:0,-47.5627,-510.077 0/0:97:97,0:97:3472:0:0:0,-29.1999,-312.66 0/0:105:104,1:104:3725:1:36:0,-28.1054,-331.3 0/1:67:39,28:39:1404:28:1008:-65.4572,0,-106.429 0/1:73:47,26:47:1692:26:932:-58.4225,0,-130.582 0/0:122:122,0:122:4379:0:0:0,-36.7257,-394.237 0/0:64:62,2:62:2228:2:72:0,-12.4663,-193.841 chr10 6831869 . T C 41083.1 PASS AB=0.520277;ABP=6.62083;AC=33;AF=0.785714;AN=42;AO=1920;CIGAR=1X;DP=2509;DPB=2509;DPRA=1.19208;EPP=4146.22;EPPR=1279.84;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9797;MQMR=59.8776;NS=21;NUMALT=1;ODDS=3.61203;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68347;QR=20954;RO=588;RPL=0;RPP=4172.24;RPPR=1279.84;RPR=1920;RUN=1;SAF=3;SAP=4146.22;SAR=1917;SRF=0;SRP=1279.84;SRR=588;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:182:0,182:0:0:182:6462:-581.669,-54.7875,0 1/1:118:0,118:0:0:118:4215:-379.531,-35.5215,0 1/1:148:0,148:0:0:148:5284:-475.696,-44.5524,0 1/1:90:0,90:0:0:90:3215:-289.572,-27.0927,0 0/1:286:111,175:111:3961:175:6262:-477.579,0,-270.586 1/1:136:1,135:1:36:135:4794:-428.018,-37.3418,0 0/1:207:101,106:101:3601:106:3762:-276.466,0,-260.159 0/0:101:101,0:101:3599:0:0:0,-30.404,-324.117 0/1:211:119,92:119:4221:92:3265:-230.551,0,-316.555 0/1:23:14,9:14:504:9:324:-22.5822,0,-38.7744 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:53:0,53:0:0:53:1873:-168.847,-15.9546,0 0/1:142:70,72:70:2500:72:2557:-187.633,0,-182.507 1/1:160:0,160:0:0:160:5706:-513.66,-48.1648,0 1/1:134:0,134:0:0:134:4804:-432.504,-40.338,0 1/1:97:0,97:0:0:97:3471:-312.601,-29.1999,0 1/1:94:1,93:1:32:93:3305:-294.469,-25.0975,0 0/1:87:46,41:46:1644:41:1456:-105.146,0,-122.056 0/1:55:23,31:23:820:31:1087:-81.5232,0,-57.5068 1/1:112:1,111:1:36:111:3948:-351.914,-30.1171,0 1/1:68:0,68:0:0:68:2381:-214.537,-20.47,0 chr10 6831870 . G T 10354.7 PASS AB=0.47792;ABP=7.32554;AC=9;AF=0.214286;AN=42;AO=591;CIGAR=1X;DP=2525;DPB=2525;DPRA=1.25643;EPP=1286.35;EPPR=4174.45;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.8782;MQMR=59.9757;NS=21;NUMALT=1;ODDS=3.69598;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21127;QR=68999;RO=1933;RPL=0;RPP=1286.35;RPPR=4200.47;RPR=591;RUN=1;SAF=0;SAP=1286.35;SAR=591;SRF=3;SRP=4174.45;SRR=1930;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:181:181,0:181:6444:0:0:0,-54.4864,-580.049 0/0:119:119,0:119:4225:0:0:0,-35.8226,-380.432 0/0:149:149,0:149:5302:0:0:0,-44.8535,-477.315 0/0:90:90,0:90:3215:0:0:0,-27.0927,-289.572 0/1:290:178,112:178:6365:112:4008:-273.611,0,-485.63 0/0:137:136,1:136:4836:1:36:0,-37.6428,-431.797 0/1:208:107,101:107:3822:101:3604:-260.829,0,-281.562 1/1:101:0,101:0:0:101:3616:-325.646,-30.404,0 0/1:213:93,119:93:3331:119:4252:-318.681,0,-235.824 0/1:23:9,14:9:324:14:504:-38.7744,0,-22.5822 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:55:55,0:55:1972:0:0:0,-16.5566,-177.755 0/1:142:71,71:71:2537:71:2528:-185.026,0,-185.833 0/0:160:160,0:160:5715:0:0:0,-48.1648,-514.466 0/0:134:134,0:134:4812:0:0:0,-40.338,-433.223 0/0:98:98,0:98:3520:0:0:0,-29.5009,-317.009 0/0:94:93,1:93:3313:1:36:0,-24.6985,-294.789 0/1:87:40,47:40:1436:47:1683:-125.559,0,-103.348 0/1:56:33,23:33:1175:23:824:-57.6252,0,-89.1993 0/0:114:113,1:113:4027:1:36:0,-30.7191,-359.021 0/0:69:69,0:69:2448:0:0:0,-20.7711,-220.534 chr10 7399476 . TA AG,AA 49436.5 PASS AB=0.491135,0.507092;ABP=3.78033,3.50312;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2046,736;CIGAR=2X,1X1M;DP=2785;DPB=2786;DPRA=0.825786,1.47005;EPP=4428.49,1575.26;EPPR=5.18177;GTI=1;LEN=2,1;MEANALT=1.55,2.1;MQM=22.8025,47.8057;MQMR=60;NS=21;NUMALT=2;ODDS=7.20023;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=0;QA=72088,25631;QR=36;RO=1;RPL=1181,410;RPP=108.99,23.8281;RPPR=5.18177;RPR=865,326;RUN=1,1;SAF=1179,407;SAP=106.324,20.9604;SAR=867,329;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:161:0,159,1:0:0:159,1:5573,36:-319.265,-47.8638,0,-316.516,-45.0957,-316.215 1/1:111:0,111,0:0:0:111,0:3942,0:-269.972,-33.4143,0,-269.972,-33.4143,-269.972 1/1:117:0,117,0:0:0:117,0:4139,0:-195.515,-35.2205,0,-195.515,-35.2205,-195.515 1/1:148:0,148,0:0:0:148,0:5149,0:-257.763,-44.5524,0,-257.763,-44.5524,-257.763 1/2:192:0,89,103:0:0:89,103:3130,3662:-377.457,-285.686,-258.895,-92.008,0,-61.0019 1/1:134:0,134,0:0:0:134,0:4712,0:-247.015,-40.338,0,-247.015,-40.338,-247.015 1/2:201:1,107,93:1:36:107,93:3779,3077:-391.829,-231.973,-202.701,-157.121,0,-132.064 2/2:159:0,0,159:0:0:0,159:0,5499:-477.761,-477.761,-477.761,-47.8638,-47.8638,0 1/2:273:0,96,177:0:0:96,177:3418,6188:-692.317,-480.049,-451.15,-212.567,0,-159.285 1/2:18:0,11,7:0:0:11,7:396,238:-36.4154,-18.5476,-15.2363,-18.1485,0,-16.0413 1/1:6:0,6,0:0:0:6,0:208,0:-12.6842,-1.80618,0,-12.6842,-1.80618,-12.6842 1/1:51:0,51,0:0:0:51,0:1823,0:-100.976,-15.3525,0,-100.976,-15.3525,-100.976 1/2:166:0,86,80:0:0:86,80:3062,2877:-329.563,-226.452,-200.564,-103.371,0,-79.2885 1/1:154:0,154,0:0:0:154,0:5393,0:-291.197,-46.3586,0,-291.197,-46.3586,-291.197 1/1:249:0,249,0:0:0:249,0:8734,0:-517.467,-74.9565,0,-517.467,-74.9565,-517.467 1/1:58:0,58,0:0:0:58,0:1987,0:-142.467,-17.4597,0,-142.467,-17.4597,-142.467 1/1:45:0,45,0:0:0:45,0:1584,0:-115.885,-13.5464,0,-115.885,-13.5464,-115.885 1/2:128:0,68,59:0:0:68,59:2423,2018:-275.118,-157.86,-137.39,-117.249,0,-99.4884 1/2:150:0,97,53:0:0:97,53:3431,1901:-311.947,-149.442,-120.242,-162.807,0,-146.852 1/1:145:0,141,4:0:0:141,4:4961,135:-250.056,-42.4452,0,-239.921,-31.9985,-238.717 1/1:119:0,119,0:0:0:119,0:4244,0:-206.872,-35.8226,0,-206.872,-35.8226,-206.872 chr10 7440014 . C T 8289.66 PASS AB=0.296249;ABP=570.217;AC=8;AF=0.190476;AN=42;AO=588;CIGAR=1X;DP=4439;DPB=4439;DPRA=1.23743;EPP=1219.76;EPPR=7566.64;GTI=0;LEN=1;MEANALT=1;MQM=59.9167;MQMR=59.934;NS=21;NUMALT=1;ODDS=32.7678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20872;QR=137455;RO=3850;RPL=7;RPP=1219.76;RPPR=7566.64;RPR=581;RUN=1;SAF=588;SAP=1279.84;SAR=0;SRF=3850;SRP=8363.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:49,0:49:1734:0:0:0,-14.7505,-156.343 0/0:112:112,0:112:4011:0:0:0,-33.7154,-361.17 0/0:127:126,1:126:4494:1:36:0,-34.6376,-401.028 0/0:92:92,0:92:3292:0:0:0,-27.6948,-296.499 0/1:160:64,96:64:2283:96:3410:-258.948,0,-157.555 0/0:38:38,0:38:1355:0:0:0,-11.4391,-122.25 0/1:153:65,88:65:2320:88:3129:-235.778,0,-162.986 1/1:107:0,107:0:0:107:3791:-341.386,-32.2102,0 0/1:119:54,65:54:1913:65:2283:-169.588,0,-136.623 0/0:406:393,13:393:13994:13:468:0,-79.7585,-1216.76 0/0:599:599,0:599:21379:0:0:0,-180.317,-1923.5 0/0:729:728,0:728:26017:0:0:0,-219.15,-2340.43 0/1:65:22,43:22:792:43:1515:-117.073,0,-52.0387 0/0:137:136,1:136:4867:1:36:0,-37.6428,-434.582 0/0:134:134,0:134:4772:0:0:0,-40.338,-429.637 0/0:129:129,0:129:4596:0:0:0,-38.8329,-413.804 0/0:84:84,0:84:3008:0:0:0,-25.2865,-270.951 0/1:1021:868,153:868:31007:153:5463:-184.447,0,-2481.81 0/1:55:34,21:34:1220:21:741:-50.4549,0,-93.5502 0/0:69:69,0:69:2469:0:0:0,-20.7711,-222.462 0/0:54:54,0:54:1932:0:0:0,-16.2556,-174.087 chr10 7440038 . GGTT CGTC 79598.3 PASS AB=0.693774;ABP=516.355;AC=34;AF=0.809524;AN=42;AO=3822;CIGAR=1X2M1X;DP=4449;DPB=4450.25;DPRA=1.91858;EPP=8302.38;EPPR=1310.24;GTI=0;LEN=4;MEANALT=2.15;MQM=59.9325;MQMR=59.9402;NS=21;NUMALT=1;ODDS=39.7413;PAIRED=0;PAIREDR=0;PAO=8;PQA=288;PQR=0;PRO=1;QA=132848;QR=20614;RO=602;RPL=3822;RPP=8302.38;RPPR=1310.24;RPR=0;RUN=1;SAF=3822;SAP=8302.38;SAR=0;SRF=602;SRP=1310.24;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,48:0:0:48:1678:-151.306,-14.4494,0 1/1:113:0,112:0:0:112:3918:-352.451,-33.7154,0 1/1:128:0,127:0:0:127:4412:-396.901,-38.2308,0 1/1:95:0,95:0:0:95:3312:-298.301,-28.5979,0 0/1:159:95,64:95:3247:64:2216:-151.83,0,-244.591 1/1:40:0,39:0:0:39:1384:-124.597,-11.7402,0 0/1:157:92,65:92:3121:65:2266:-156.571,0,-233.503 0/0:113:113,0:113:3907:0:0:0,-34.0164,-351.831 0/1:122:67,54:67:2290:54:1881:-132.782,0,-169.085 1/1:410:13,392:13:451:392:13646:-1187.06,-81.3274,0 1/1:616:0,614:0:0:614:21311:-1917.16,-184.832,0 1/1:704:0,701:0:0:701:24486:-2202.84,-211.022,0 0/1:64:42,22:42:1473:22:781:-51.3477,0,-113.598 1/1:140:1,139:1:35:139:4778:-426.692,-38.6456,0 1/1:138:0,137:0:0:137:4731:-425.67,-41.2411,0 1/1:127:0,124:0:0:124:4337:-390.161,-37.3277,0 1/1:82:0,82:0:0:82:2866:-258.18,-24.6845,0 0/1:1015:156,854:156:5319:854:29520:-2351.51,0,-174.554 0/1:57:23,33:23:771:33:1143:-86.0242,0,-52.55 1/1:72:0,71:0:0:71:2482:-223.276,-21.3731,0 1/1:49:0,49:0:0:49:1700:-153.284,-14.7505,0 chr10 7638803 . T C 870.206 PASS AB=0.182081;ABP=610.521;AC=6;AF=0.142857;AN=42;AO=140;CIGAR=1X;DP=1600;DPB=1600;DPRA=2.25532;EPP=307.016;EPPR=3164.68;GTI=2;LEN=1;MEANALT=1;MQM=59.6571;MQMR=54.2932;NS=21;NUMALT=1;ODDS=21.0936;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5004;QR=52208;RO=1460;RPL=0;RPP=307.016;RPPR=3164.68;RPR=140;RUN=1;SAF=0;SAP=307.016;SAR=140;SRF=0;SRP=3173.36;SRR=1460;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:53,0:53:1900:0:0:0,-15.9546,-170.733 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.441 0/0:80:80,0:80:2872:0:0:0,-24.0824,-257.912 0/0:156:142,14:142:5091:14:500:0,-1.62686,-411.559 0/0:88:88,0:88:3152:0:0:0,-26.4906,-283.905 0/1:183:163,20:163:5828:20:712:-9.31817,0,-469.545 0/1:57:41,16:41:1472:16:564:-33.9316,0,-115.617 0/1:206:184,22:184:6550:22:788:-9.10074,0,-525.195 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:110:90,20:90:3208:20:712:-31.2915,0,-254.999 0/0:88:88,0:88:3140:0:0:0,-26.4906,-281.944 0/0:83:83,0:83:2976:0:0:0,-24.9855,-267.29 0/0:74:74,0:74:2651:0:0:0,-22.2762,-236.144 0/0:54:54,0:54:1936:0:0:0,-16.2556,-173.811 0/1:62:35,27:35:1239:27:972:-69.1294,0,-93.1498 0/1:74:53,21:53:1883:21:756:-46.0863,0,-146.95 0/0:72:72,0:72:2576:0:0:0,-21.6742,-232.085 0/0:42:42,0:42:1494:0:0:0,-12.6433,-134.745 chr10 7638813 . ACTAA ACGAG,TCCAA 35276.9 PASS AB=0.833333,0.163194;ABP=836.856,854.318;AC=35,7;AF=0.833333,0.166667;AN=42;AO=1483,141;CIGAR=2M1X1M1X,1X1M1X2M;DP=1632;DPB=1632;DPRA=0,2.25;EPP=3085.83,309.188;EPPR=0;GTI=3;LEN=5,5;MEANALT=1.71429,2.42857;MQM=54.2879,59.8014;MQMR=0;NS=21;NUMALT=2;ODDS=15.9388;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52452,4985;QR=0;RO=0;RPL=1467,141;RPP=3085.83,309.188;RPPR=0;RPR=16,0;RUN=1,1;SAF=0,0;SAP=3223.3,309.188;SAR=1483,141;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,55,0:0:0:55,0:1931,0:-173.305,-16.5567,0,-173.305,-16.5567,-173.305 1/1:44:0,44,0:0:0:44,0:1560,0:-140.69,-13.2453,0,-140.69,-13.2453,-140.69 1/1:52:0,52,0:0:0:52,0:1857,0:-166.921,-15.6536,0,-166.921,-15.6536,-166.921 1/1:80:0,80,0:0:0:80,0:2840,0:-255.077,-24.0824,0,-255.077,-24.0824,-255.077 1/2:160:0,142,16:0:0:142,16:5068,570:-458.289,-46.5126,-3.76632,-411.831,0,-407.014 1/1:90:0,90,0:0:0:90,0:3203,0:-288.495,-27.0927,0,-288.495,-27.0927,-288.495 1/2:187:0,166,21:0:0:166,21:5878,723:-537.886,-59.0649,-9.09395,-479.166,0,-472.844 1/2:57:0,41,16:0:0:41,16:1441,553:-162.574,-45.2782,-32.936,-117.643,0,-112.826 1/2:207:0,186,20:0:0:186,20:6564,720:-591.081,-58.8897,-2.89815,-532.334,0,-526.313 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:6:0,6,0:0:0:6,0:211,0:-19.3335,-1.80618,0,-19.3335,-1.80618,-19.3335 1/1:12:0,12,0:0:0:12,0:430,0:-39.0401,-3.61236,0,-39.0401,-3.61236,-39.0401 1/2:114:0,94,20:0:0:94,20:3323,702:-326.826,-57.4799,-29.1831,-269.697,0,-263.677 1/1:91:0,90,0:0:0:90,0:3146,0:-282.294,-27.0927,0,-282.294,-27.0927,-282.294 1/1:84:0,84,0:0:0:84,0:2985,0:-268.132,-25.2865,0,-268.132,-25.2865,-268.132 1/1:74:0,73,0:0:0:73,0:2581,0:-230.489,-21.9752,0,-230.489,-21.9752,-230.489 1/1:58:0,57,0:0:0:57,0:2002,0:-179.6,-17.1587,0,-179.6,-17.1587,-179.6 1/2:63:0,36,27:0:0:36,27:1245,963:-180.016,-78.8575,-68.0204,-101.511,0,-93.383 1/2:76:0,55,21:0:0:55,21:1949,754:-219.829,-61.8605,-45.3039,-158.326,0,-152.004 1/1:73:0,72,0:0:0:72,0:2530,0:-227.589,-21.6742,0,-227.589,-21.6742,-227.589 1/1:42:0,42,0:0:0:42,0:1492,0:-134.572,-12.6433,0,-134.572,-12.6433,-134.572 chr10 7638832 . C T 30747.6 PASS AB=0.83432;ABP=823.351;AC=35;AF=0.833333;AN=42;AO=1450;CIGAR=1X;DP=1590;DPB=1590;DPRA=0;EPP=3151.65;EPPR=307.016;GTI=3;LEN=1;MEANALT=1;MQM=54.2269;MQMR=59.6571;NS=21;NUMALT=1;ODDS=22.16;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51492;QR=5036;RO=140;RPL=1450;RPP=3151.65;RPPR=307.016;RPR=0;RUN=1;SAF=0;SAP=3151.65;SAR=1450;SRF=0;SRP=307.016;SRR=140;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,52:0:0:52:1860:-167.159,-15.6536,0 1/1:43:0,43:0:0:43:1529:-137.901,-12.9443,0 1/1:50:0,50:0:0:50:1788:-160.701,-15.0515,0 1/1:77:0,77:0:0:77:2729:-245.118,-23.1793,0 0/1:161:16,145:16:576:145:5160:-413.556,0,-3.7068 1/1:87:0,87:0:0:87:3072:-276.705,-26.1896,0 0/1:180:20,160:20:720:160:5687:-457.763,0,-10.9434 0/1:57:16,41:16:576:41:1468:-115.257,0,-35.0163 0/1:200:21,179:21:752:179:6324:-506.755,0,-7.66835 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:111:20,91:20:720:91:3252:-258.149,0,-31.7112 1/1:88:0,88:0:0:88:3074:-276.059,-26.4906,0 1/1:83:0,83:0:0:83:2969:-266.646,-24.9855,0 1/1:74:0,74:0:0:74:2634:-235.498,-22.2762,0 1/1:56:0,56:0:0:56:1944:-174.574,-16.8577,0 0/1:62:27,35:27:972:35:1256:-94.6814,0,-69.1294 0/1:74:20,54:20:720:54:1935:-151.596,0,-42.8479 1/1:72:0,72:0:0:72:2555:-230.198,-21.6742,0 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 chr10 7638833 . 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T G 29340.4 PASS AB=0.609236;ABP=61.3624;AC=33;AF=0.785714;AN=42;AO=1342;CIGAR=1X;DP=1615;DPB=1615;DPRA=1.70543;EPP=2813.83;EPPR=528.371;GTI=0;LEN=1;MEANALT=1;MQM=52.4329;MQMR=59.9524;NS=21;NUMALT=1;ODDS=16.0131;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47925;QR=9747;RO=273;RPL=7;RPP=2856.64;RPPR=587.168;RPR=1335;RUN=1;SAF=1337;SAP=2873.86;SAR=5;SRF=266;SRP=536.58;SRR=7;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:1,109:1:36:109:3858:-343.038,-29.515,0 1/1:98:0,98:0:0:98:3508:-312.018,-29.5009,0 1/1:97:0,97:0:0:97:3473:-311.874,-29.1999,0 1/1:113:1,112:1:36:112:4004:-356.156,-30.4181,0 0/1:114:63,51:63:2239:51:1822:-129.498,0,-167.456 1/1:80:0,80:0:0:80:2868:-256.786,-24.0824,0 0/1:122:63,59:63:2256:59:2104:-151.991,0,-166.577 0/0:46:46,0:46:1628:0:0:0,-13.8474,-146.809 0/1:126:33,93:33:1180:93:3336:-262.177,0,-68.5783 0/1:10:6,4:6:216:4:144:-9.99379,0,-16.7802 1/1:6:0,6:0:0:6:216:-19.6832,-1.80618,0 1/1:46:0,46:0:0:46:1641:-147.232,-13.8474,0 0/1:63:20,43:20:716:43:1544:-120.073,0,-45.8028 1/1:79:0,79:0:0:79:2817:-252.861,-23.7814,0 1/1:62:0,62:0:0:62:2228:-200.286,-18.6639,0 1/1:68:0,68:0:0:68:2439:-219.401,-20.47,0 1/1:86:0,86:0:0:86:3026:-271.918,-25.8886,0 0/1:53:19,34:19:684:34:1220:-92.4198,0,-45.9073 0/1:75:16,59:16:576:59:2120:-167.767,0,-29.5977 1/1:101:4,97:4:144:97:3443:-295.219,-17.0904,0 1/1:60:1,59:1:36:59:2114:-185.203,-14.4635,0 chr10 8547873 . C G,T 38098.5 PASS AB=0.663808,0.336192;ABP=138.889,138.889;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1198,247;CIGAR=1X,1X;DP=1445;DPB=1445;DPRA=1.45521,1.34259;EPP=2604.43,539.364;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.4,1.88889;MQM=59.9841,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.37806;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42691,8828;QR=0;RO=0;RPL=273,68;RPP=773.546,111.329;RPPR=0;RPR=925,179;RUN=1,1;SAF=273,68;SAP=773.546,111.329;SAR=925,179;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,33,0:0:0:33,0:1184,0:-106.868,-9.93399,0,-106.868,-9.93399,-106.868 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/1:96:0,96,0:0:0:96,0:3421,0:-308.103,-28.8989,0,-308.103,-28.8989,-308.103 1/1:85:0,85,0:0:0:85,0:3033,0:-273.197,-25.5876,0,-273.197,-25.5876,-273.197 1/2:70:0,33,37:0:0:33,37:1166,1324:-203.28,-108.324,-98.39,-95.3116,0,-84.1735 1/1:22:0,22,0:0:0:22,0:772,0:-69.7994,-6.62266,0,-69.7994,-6.62266,-69.7994 1/2:24:0,18,6:0:0:18,6:644,216:-70.4971,-17.9843,-12.5658,-52.8721,0,-51.0659 2/2:48:0,0,48:0:0:0,48:0,1713:-154.454,-154.454,-154.454,-14.4494,-14.4494,0 1/2:112:0,80,32:0:0:80,32:2865,1139:-326.832,-93.1854,-69.103,-234.003,0,-224.37 1/2:4:0,3,1:0:0:3,1:108,32:-11.7405,-2.89828,-1.99519,-9.17208,0,-8.87105 1/1:11:0,11,0:0:0:11,0:373,0:-33.8952,-3.31133,0,-33.8952,-3.31133,-33.8952 1/1:72:0,72,0:0:0:72,0:2580,0:-232.449,-21.6742,0,-232.449,-21.6742,-232.449 1/2:148:0,89,59:0:0:89,59:3169,2124:-431.951,-173.667,-146.876,-258.642,0,-240.881 1/1:94:0,91,3:0:0:91,3:3251,108:-292.445,-27.3937,0,-283.633,-18.2217,-282.73 1/1:114:0,114,0:0:0:114,0:4053,0:-364.955,-34.3174,0,-364.955,-34.3174,-364.955 1/1:13:0,13,0:0:0:13,0:464,0:-42.0975,-3.91339,0,-42.0975,-3.91339,-42.0975 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:110:0,76,34:0:0:76,34:2736,1216:-322.757,-99.5115,-76.6333,-223.604,0,-213.369 1/2:115:0,88,27:0:0:88,27:3143,956:-334.478,-78.2279,-51.7373,-256.605,0,-248.477 1/1:214:0,214,0:0:0:214,0:7612,0:-685.119,-64.4204,0,-685.119,-64.4204,-685.119 1/1:43:0,43,0:0:0:43,0:1505,0:-135.738,-12.9443,0,-135.738,-12.9443,-135.738 chr10 9423249 . CGGT CGGG,TGGG 43543.9 PASS AB=0.529271,0.461171;ABP=9.23934,13.9714;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1497,516;CIGAR=3M1X,1X2M1X;DP=2025;DPB=2025;DPRA=0.747244,1.40361;EPP=3227.7,1123.49;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.05,2.63636;MQM=59.9733,59.9264;MQMR=0;NS=21;NUMALT=2;ODDS=3.72675;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=53427,18035;QR=0;RO=0;RPL=3,0;RPP=3227.7,1123.49;RPPR=0;RPR=1494,516;RUN=1,1;SAF=1497,516;SAP=3253.7,1123.49;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:0,109,0:0:0:109,0:3889,0:-350.204,-32.8123,0,-350.204,-32.8123,-350.204 1/1:83:0,82,1:0:0:82,1:2944,34:-264.853,-24.6845,0,-262.096,-21.5866,-261.794 1/1:134:0,134,0:0:0:134,0:4796,0:-431.796,-40.338,0,-431.796,-40.338,-431.796 1/1:67:0,67,0:0:0:67,0:2400,0:-216.257,-20.169,0,-216.257,-20.169,-216.257 1/2:140:0,55,82:0:0:55,82:1945,2863:-391.285,-232.926,-216.369,-158.424,0,-133.739 1/1:134:0,134,0:0:0:134,0:4783,0:-430.626,-40.338,0,-430.626,-40.338,-430.626 1/2:183:0,118,65:0:0:118,65:4157,2265:-522.986,-184.544,-149.022,-338.792,0,-319.225 2/2:127:0,0,127:0:0:0,127:0,4400:-396.177,-396.177,-396.177,-38.2308,-38.2308,0 1/2:181:0,90,89:0:0:90,89:3232,3121:-517.619,-253.966,-226.873,-263.649,0,-236.857 1/2:20:0,10,10:0:0:10,10:360,343:-57.5733,-28.1906,-25.1803,-29.734,0,-26.7237 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/1:40:0,40,0:0:0:40,0:1408,0:-127.015,-12.0412,0,-127.015,-12.0412,-127.015 1/2:126:0,55,68:0:0:55,68:1965,2409:-356.494,-196.282,-179.726,-160.254,0,-139.784 1/1:121:0,120,0:0:0:120,0:4295,0:-386.426,-36.1236,0,-386.426,-36.1236,-386.426 1/1:92:0,91,1:0:0:91,1:3252,36:-292.542,-27.3937,0,-289.604,-24.0965,-289.303 1/1:56:0,56,0:0:0:56,0:2008,0:-180.993,-16.8577,0,-180.993,-16.8577,-180.993 1/1:68:0,68,0:0:0:68,0:2407,0:-216.884,-20.47,0,-216.884,-20.47,-216.884 1/2:70:0,33,37:0:0:33,37:1188,1291:-202.291,-105.351,-95.4172,-97.2946,0,-86.1565 1/2:117:0,82,35:0:0:82,35:2931,1238:-340.171,-101.186,-76.502,-239.34,0,-228.804 1/1:90:0,88,1:0:0:88,1:3152,35:-283.55,-26.4906,0,-280.703,-23.6479,-280.402 1/1:54:0,52,0:0:0:52,0:1847,0:-166.15,-15.6536,0,-166.15,-15.6536,-166.15 chr10 9423317 . GCCCCC CCCTCA,GCCTCA 51786.7 PASS AB=0.450331,0.540208;ABP=25.6598,17.8531;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1792,657;CIGAR=1X2M1X1M1X,3M1X1M1X;DP=2460;DPB=2460;DPRA=1.46852,1.38462;EPP=3885.61,1429.67;EPPR=0;GTI=1;LEN=6,6;MEANALT=1.9,2.54545;MQM=59.721,59.9239;MQMR=0;NS=21;NUMALT=2;ODDS=2.01777;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62895,23015;QR=0;RO=0;RPL=1792,657;RPP=3894.29,1429.67;RPPR=0;RPR=0,0;RUN=1,1;SAF=1,0;SAP=3885.61,1429.67;SAR=1791,657;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:0,89,0:0:0:89,0:3144,0:-282.868,-26.7917,0,-282.868,-26.7917,-282.868 1/1:91:0,91,0:0:0:91,0:3213,0:-289.385,-27.3937,0,-289.385,-27.3937,-289.385 1/1:112:0,111,1:0:0:111,1:3900,36:-350.826,-33.4143,0,-347.888,-30.1171,-347.587 1/1:194:0,194,0:0:0:194,0:6749,0:-607.414,-58.3998,0,-607.414,-58.3998,-607.414 1/2:230:0,98,131:0:0:98,131:3457,4589:-654.871,-373.382,-343.881,-281.482,0,-242.047 1/1:99:0,99,0:0:0:99,0:3486,0:-313.879,-29.802,0,-313.879,-29.802,-313.879 1/2:175:0,68,104:0:0:68,104:2379,3646:-490.242,-296.719,-276.249,-193.552,0,-162.244 2/2:81:0,0,81:0:0:0,81:0,2832:-255.119,-255.119,-255.119,-24.3834,-24.3834,0 1/2:191:0,96,95:0:0:96,95:3356,3338:-545.052,-272.041,-243.142,-273.361,0,-244.763 1/2:9:0,2,7:0:0:2,7:72,248:-26.4333,-20.5572,-19.9551,-6.23466,0,-4.12745 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/1:33:0,33,0:0:0:33,0:1168,0:-105.413,-9.93399,0,-105.413,-9.93399,-105.413 1/2:214:0,92,119:0:0:92,119:3213,4176:-600.92,-339.576,-311.881,-261.335,0,-225.512 1/1:149:0,149,0:0:0:149,0:5220,0:-469.778,-44.8535,0,-469.778,-44.8535,-469.778 1/1:156:0,156,0:0:0:156,0:5490,0:-494.236,-46.9607,0,-494.236,-46.9607,-494.236 1/1:97:0,97,0:0:0:97,0:3423,0:-308.29,-29.1999,0,-308.29,-29.1999,-308.29 1/1:58:0,58,0:0:0:58,0:2031,0:-182.991,-17.4597,0,-182.991,-17.4597,-182.991 1/2:124:0,46,75:0:0:46,75:1626,2622:-345.695,-213.337,-199.49,-132.394,0,-109.817 1/2:114:0,74,40:0:0:74,40:2591,1407:-325.688,-114.886,-92.6095,-211.153,0,-199.112 1/1:155:0,152,3:0:0:152,3:5321,85:-478.585,-45.7566,0,-471.84,-38.7272,-470.937 1/1:80:0,79,1:0:0:79,1:2772,36:-249.289,-23.7814,0,-246.351,-20.4841,-246.05 chr10 9430666 . C T 8957.1 PASS AB=0.489017;ABP=3.91654;AC=9;AF=0.214286;AN=42;AO=504;CIGAR=1X;DP=2024;DPB=2024;DPRA=1.46283;EPP=1097.43;EPPR=3277.64;GTI=1;LEN=1;MEANALT=1;MQM=53.4087;MQMR=59.623;NS=21;NUMALT=1;ODDS=0.328779;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18045;QR=53876;RO=1520;RPL=499;RPP=1054.43;RPPR=3251.74;RPR=5;RUN=1;SAF=499;SAP=1054.43;SAR=5;SRF=1517;SRP=3277.64;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:186:186,0:186:6625:0:0:0,-55.9916,-596.294 0/0:111:111,0:111:3936:0:0:0,-33.4143,-354.336 0/0:61:61,0:61:2166:0:0:0,-18.3628,-195.196 0/0:86:85,1:85:3017:1:36:0,-22.2929,-268.156 0/1:240:131,109:131:4640:109:3908:-279.234,0,-344.936 0/0:110:108,2:108:3837:2:72:0,-26.2938,-338.683 0/1:127:57,70:57:2017:70:2505:-186.867,0,-143.529 1/1:76:0,76:0:0:76:2711:-243.142,-22.8783,0 0/1:235:120,115:120:4275:115:4123:-299.217,0,-314.042 0/1:4:3,1:3:108:1:36:-2.38905,0,-8.86629 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:19:19,0:19:657:0:0:0,-5.71957,-59.4504 0/1:134:53,81:53:1878:81:2898:-218.976,0,-128.955 0/0:103:103,0:103:3636:0:0:0,-31.0061,-327.437 0/0:140:139,1:139:4926:1:36:0,-38.5485,-439.8 0/0:64:64,0:64:2265:0:0:0,-19.2659,-204.063 0/0:61:60,1:60:2147:1:36:0,-14.9752,-189.324 0/1:59:26,33:26:913:33:1180:-88.3549,0,-64.7232 0/1:66:52,14:52:1835:14:504:-25.7949,0,-145.557 0/0:101:101,0:101:3563:0:0:0,-30.404,-320.853 0/0:37:37,0:37:1291:0:0:0,-11.1381,-116.463 chr10 9497464 . C T 7054.83 PASS AB=0.479263;ABP=5.44195;AC=9;AF=0.214286;AN=42;AO=400;CIGAR=1X;DP=1755;DPB=1755;DPRA=1.17385;EPP=871.599;EPPR=2943.18;GTI=0;LEN=1;MEANALT=1.1;MQM=60;MQMR=59.9985;NS=21;NUMALT=1;ODDS=6.00304;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14287;QR=48249;RO=1354;RPL=0;RPP=871.599;RPPR=2943.18;RPR=400;RUN=1;SAF=0;SAP=871.599;SAR=400;SRF=0;SRP=2943.18;SRR=1354;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:73,0:73:2624:0:0:0,-21.9752,-236.407 0/0:62:62,0:62:2219:0:0:0,-18.6639,-199.974 0/0:43:43,0:43:1531:0:0:0,-12.9443,-138.082 0/0:134:134,0:134:4765:0:0:0,-40.338,-429.006 0/1:200:80,120:80:2850:120:4293:-326.34,0,-196.531 0/0:109:106,2:106:3776:2:72:0,-26.0343,-333.201 0/1:100:62,38:62:2200:38:1356:-92.2375,0,-168.16 1/1:85:0,85:0:0:85:3044:-274.189,-25.5876,0 0/1:88:51,37:51:1810:37:1320:-92.6113,0,-136.69 0/1:4:2,2:2:68:2:72:-5.6326,0,-5.25359 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:19:19,0:19:675:0:0:0,-5.71957,-61.077 0/1:122:68,54:68:2412:54:1920:-136.351,0,-180.609 0/0:53:53,0:53:1872:0:0:0,-15.9546,-168.756 0/0:133:133,0:133:4743:0:0:0,-40.037,-427.03 0/0:120:120,0:120:4288:0:0:0,-36.1236,-386.098 0/0:107:107,0:107:3814:0:0:0,-32.2102,-343.458 0/1:68:26,42:26:928:42:1503:-115.094,0,-63.3682 0/1:69:50,19:50:1775:19:671:-39.9447,0,-139.261 0/0:100:100,0:100:3575:0:0:0,-30.103,-321.957 0/0:61:60,1:60:2144:1:36:0,-14.7646,-189.629 chr10 9858681 . A G 3977.79 PASS AB=0.344262;ABP=92.9662;AC=9;AF=0.214286;AN=42;AO=236;CIGAR=1X;DP=986;DPB=986;DPRA=2.24886;EPP=515.478;EPPR=1629.44;GTI=0;LEN=1;MEANALT=1.11111;MQM=54.5212;MQMR=59.9439;NS=21;NUMALT=1;ODDS=3.76145;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8445;QR=26692;RO=749;RPL=0;RPP=515.478;RPPR=1629.44;RPR=236;RUN=1;SAF=236;SAP=515.478;SAR=0;SRF=749;SRP=1629.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/0:21:21,0:21:741:0:0:0,-6.32163,-67.0116 0/0:58:58,0:58:2054:0:0:0,-17.4597,-185.128 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 0/1:57:34,23:34:1220:23:820:-56.8451,0,-92.9481 0/0:85:85,0:85:3014:0:0:0,-25.5875,-271.489 0/1:112:67,45:67:2366:45:1620:-112.028,0,-179.48 1/1:88:0,88:0:0:88:3141:-281.826,-26.4906,0 0/1:89:66,22:66:2364:22:788:-44.3124,0,-184.717 0/1:4:2,2:2:72:2:72:-5.62291,0,-5.6326 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/1:29:16,13:16:576:13:468:-33.7011,0,-43.4451 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3803 0/0:20:20,0:20:705:0:0:0,-6.0206,-63.7728 0/1:76:51,25:51:1832:25:892:-57.387,0,-142.283 0/1:60:43,17:43:1529:17:608:-36.9459,0,-119.839 0/0:104:103,1:103:3647:1:36:0,-27.7139,-324.839 0/0:49:49,0:49:1764:0:0:0,-14.7505,-159.044 chr10 9859160 . C T 24977.1 PASS AB=0.533733;ABP=9.60285;AC=33;AF=0.785714;AN=42;AO=1178;CIGAR=1X;DP=1555;DPB=1555;DPRA=1.24583;EPP=2561;EPPR=821.655;GTI=0;LEN=1;MEANALT=1;MQM=59.9652;MQMR=60;NS=21;NUMALT=1;ODDS=6.0992;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42134;QR=13518;RO=377;RPL=0;RPP=2561;RPPR=821.655;RPR=1178;RUN=1;SAF=1178;SAP=2561;SAR=0;SRF=377;SRP=821.655;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:1,79:1:36:79:2821:-250.528,-20.4841,0 1/1:77:0,77:0:0:77:2764:-249.001,-23.1793,0 1/1:79:0,79:0:0:79:2832:-255.118,-23.7814,0 1/1:84:2,82:2:72:82:2932:-257.278,-18.4498,0 0/1:195:112,83:112:4015:83:2971:-208.921,0,-302.837 1/1:47:1,46:1:36:46:1629:-143.299,-10.5501,0 0/1:85:32,53:32:1152:53:1904:-146.042,0,-78.4026 0/0:60:60,0:60:2143:0:0:0,-18.0618,-193.137 0/1:107:45,62:45:1608:62:2198:-165.873,0,-112.8 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.974 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:47:0,47:0:0:47:1692:-152.567,-14.1484,0 0/1:60:23,37:23:828:37:1328:-101.76,0,-56.7823 1/1:110:1,109:1:36:109:3908:-348.314,-29.515,0 1/1:67:0,67:0:0:67:2412:-217.331,-20.169,0 1/1:65:1,64:1:36:64:2266:-200.601,-15.9687,0 1/1:33:0,33:0:0:33:1176:-106.148,-9.93399,0 0/1:130:72,58:72:2584:58:2084:-148.692,0,-193.675 0/1:74:21,53:21:756:53:1890:-148.101,0,-46.091 1/1:73:0,73:0:0:73:2611:-235.237,-21.9752,0 1/1:57:0,57:0:0:57:2032:-183.144,-17.1587,0 chr10 9859178 . CCCAT TCCAG,CCCAG 32509.8 PASS AB=0.537065,0.456884;ABP=10.8979,13.6837;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1182,367;CIGAR=1X3M1X,4M1X;DP=1562;DPB=1562.2;DPRA=1.25167,1.52068;EPP=2569.69,799.941;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.15,2.46154;MQM=59.9721,60;MQMR=0;NS=21;NUMALT=2;ODDS=7.27589;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=41200,13021;QR=0;RO=0;RPL=1182,367;RPP=2569.69,799.941;RPPR=0;RPR=0,0;RUN=1,1;SAF=1182,367;SAP=2569.69,799.941;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,78,1:0:0:78,1:2722,36:-244.862,-23.4803,0,-241.924,-20.5429,-241.623 1/1:79:0,76,0:0:0:76,0:2651,0:-238.509,-22.8783,0,-238.509,-22.8783,-238.509 1/1:81:0,80,0:0:0:80,0:2769,0:-249.096,-24.0824,0,-249.096,-24.0824,-249.096 1/1:85:0,83,2:0:0:83,2:2906,72:-261.42,-24.9855,0,-255.545,-18.7508,-254.943 1/2:188:0,83,104:0:0:83,104:2886,3700:-536.246,-301.604,-276.618,-234.703,0,-203.396 1/1:49:0,47,1:0:0:47,1:1651,36:-148.516,-14.1484,0,-145.579,-11.211,-145.278 1/2:87:0,53,33:0:0:53,33:1845,1184:-246.593,-96.5745,-80.6199,-150.013,0,-140.079 2/2:60:0,0,59:0:0:0,59:0,2116:-190.349,-190.349,-190.349,-17.7608,-17.7608,0 1/2:108:0,62,45:0:0:62,45:2159,1581:-304.235,-128.672,-110.008,-175.553,0,-162.006 1/2:16:0,10,6:0:0:10,6:345,216:-46.0022,-17.9843,-14.974,-28.3721,0,-26.5659 1/1:9:0,9,0:0:0:9,0:318,0:-28.9609,-2.70927,0,-28.9609,-2.70927,-28.9609 1/1:48:0,48,0:0:0:48,0:1667,0:-150.314,-14.4494,0,-150.314,-14.4494,-150.314 1/2:59:0,35,24:0:0:35,24:1236,836:-168.988,-68.33,-57.7939,-101.008,0,-93.7834 1/1:112:0,111,1:0:0:111,1:3866,36:-347.781,-33.4143,0,-344.844,-30.1171,-344.543 1/1:68:0,67,0:0:0:67,0:2348,0:-211.317,-20.169,0,-211.317,-20.169,-211.317 1/1:65:0,64,1:0:0:64,1:2231,36:-200.695,-19.2659,0,-197.758,-16.3285,-197.457 1/1:33:0,33,0:0:0:33,0:1137,0:-102.634,-9.93399,0,-102.634,-9.93399,-102.634 1/2:128:0,58,69:0:0:58,69:2027,2425:-362.264,-197.372,-179.912,-164.883,0,-144.112 1/2:75:0,54,21:0:0:54,21:1888,747:-214.82,-61.2327,-44.9771,-153.941,0,-147.62 1/1:73:0,73,0:0:0:73,0:2551,0:-229.84,-21.9752,0,-229.84,-21.9752,-229.84 1/1:59:0,58,0:0:0:58,0:1997,0:-179.779,-17.4597,0,-179.779,-17.4597,-179.779 chr10 10249450 . T C 9902.18 PASS AB=0.489685;ABP=3.86144;AC=9;AF=0.214286;AN=42;AO=560;CIGAR=1X;DP=2224;DPB=2224;DPRA=1.48878;EPP=1219.03;EPPR=3616.34;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.14546;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20048;QR=59580;RO=1664;RPL=0;RPP=1219.03;RPPR=3616.34;RPR=560;RUN=1;SAF=560;SAP=1219.03;SAR=0;SRF=1664;SRP=3616.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:87:87,0:87:3094:0:0:0,-26.1896,-278.685 0/0:112:112,0:112:4020:0:0:0,-33.7154,-361.988 0/0:98:98,0:98:3516:0:0:0,-29.5009,-316.649 0/0:162:162,0:162:5804:0:0:0,-48.7669,-522.473 0/1:241:114,127:114:4080:127:4556:-337.657,0,-294.838 0/0:150:149,1:149:5326:1:32:0,-41.9552,-476.272 0/1:180:100,80:100:3569:80:2859:-203.362,0,-267.231 1/1:106:1,105:1:36:105:3757:-334.732,-28.3109,0 0/1:202:101,101:101:3601:101:3612:-264.478,0,-263.488 0/1:18:15,3:15:536:3:108:-4.65663,0,-43.1563 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:26:26,0:26:928:0:0:0,-7.82678,-83.8383 0/1:122:49,73:49:1752:73:2616:-198.962,0,-121.238 0/0:84:84,0:84:3012:0:0:0,-25.2865,-271.311 0/0:149:149,0:149:5352:0:0:0,-44.8535,-481.81 0/0:97:97,0:97:3469:0:0:0,-29.1999,-312.42 0/0:84:84,0:84:3009:0:0:0,-25.2865,-271.039 0/1:86:44,42:44:1580:42:1500:-109.406,0,-116.603 0/1:72:47,25:47:1688:25:900:-59.6469,0,-130.533 0/0:102:99,3:99:3552:3:108:0,-20.6299,-309.813 0/0:39:39,0:39:1404:0:0:0,-11.7402,-126.659 chr10 10249467 . T C 35437.6 PASS AB=0.505933;ABP=3.29374;AC=33;AF=0.785714;AN=42;AO=1662;CIGAR=1X;DP=2231;DPB=2231;DPRA=0;EPP=3568.7;EPPR=1229.91;GTI=1;LEN=1;MEANALT=1;MQM=59.9892;MQMR=60;NS=21;NUMALT=1;ODDS=0.969688;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59141;QR=20375;RO=569;RPL=5;RPP=3568.7;RPPR=1229.91;RPR=1657;RUN=1;SAF=1662;SAP=3612;SAR=0;SRF=569;SRP=1238.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,86:0:0:86:3041:-273.921,-25.8886,0 1/1:112:0,112:0:0:112:3990:-359.291,-33.7154,0 1/1:97:0,97:0:0:97:3436:-309.457,-29.1999,0 1/1:164:0,164:0:0:164:5816:-523.557,-49.3689,0 0/1:238:127,111:127:4556:111:3925:-281.8,0,-338.56 1/1:150:0,150:0:0:150:5367:-483.162,-45.1545,0 0/1:180:81,99:81:2895:99:3509:-261.836,0,-206.6 0/0:109:108,1:108:3863:1:36:0,-29.214,-344.267 0/1:206:102,104:102:3663:104:3707:-271.821,0,-267.86 0/1:19:4,15:4:144:15:540:-43.217,0,-7.59405 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:26:0,26:0:0:26:924:-83.4777,-7.82678,0 0/1:124:75,49:75:2692:49:1748:-120.277,0,-205.196 1/1:85:0,85:0:0:85:3004:-270.59,-25.5876,0 1/1:148:0,148:0:0:148:5307:-477.763,-44.5524,0 1/1:94:0,94:0:0:94:3347:-301.448,-28.2968,0 1/1:84:0,84:0:0:84:2985:-268.864,-25.2865,0 0/1:88:44,44:44:1562:44:1560:-114.198,0,-114.38 0/1:72:25,47:25:892:47:1688:-130.533,0,-58.9255 1/1:103:3,100:3:108:100:3568:-311.254,-20.9309,0 1/1:39:0,39:0:0:39:1391:-125.488,-11.7402,0 chr10 10249501 . C T,A 99112.4 PASS AB=0.471374,0.52799;ABP=14.1992,13.7074;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2633,1009;CIGAR=1X,1X;DP=3643;DPB=3643;DPRA=0,1.41527;EPP=5720.5,2194.03;EPPR=0;GTI=1;LEN=1,1;MEANALT=1.66667,2.07692;MQM=58.3817,59.8454;MQMR=0;NS=21;NUMALT=2;ODDS=17.0588;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=92633,35968;QR=0;RO=0;RPL=1430,537;RPP=45.507,12.1029;RPPR=0;RPR=1203,472;RUN=1,1;SAF=1430,537;SAP=45.507,12.1029;SAR=1203,472;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:0,157,1:0:0:157,1:5517,36:-495.569,-47.2617,0,-492.631,-43.9645,-492.33 1/1:116:0,116,0:0:0:116,0:4076,0:-366.908,-34.9195,0,-366.908,-34.9195,-366.908 1/1:182:0,180,2:0:0:180,2:6273,72:-563.386,-54.1854,0,-557.511,-47.9507,-556.909 1/1:240:0,240,0:0:0:240,0:8422,0:-757.206,-72.2472,0,-757.206,-72.2472,-757.206 1/2:429:0,190,239:0:0:190,239:6700,8495:-1237.5,-692.268,-635.073,-545.582,0,-473.636 1/1:143:0,137,6:0:0:137,6:4853,216:-436.118,-41.2411,0,-418.493,-23.2568,-416.687 1/2:188:0,103,85:0:0:103,85:3618,3015:-539.951,-245.991,-214.985,-294.312,0,-268.725 2/2:167:0,1,166:0:0:1,166:36,5944:-534.705,-531.767,-531.466,-49.971,-46.6737,0 1/2:372:0,174,198:0:0:174,198:6085,7066:-1071.04,-576.121,-523.742,-495.269,0,-435.665 1/2:24:0,16,8:0:0:16,8:564,288:-69.7741,-23.8592,-19.0427,-46.2723,0,-43.864 1/1:6:0,6,0:0:0:6,0:216,0:-19.7887,-1.80618,0,-19.7887,-1.80618,-19.7887 1/1:37:0,37,0:0:0:37,0:1303,0:-117.552,-11.1381,0,-117.552,-11.1381,-117.552 1/2:205:0,81,123:0:0:81,123:2833,4395:-588.433,-358.329,-333.945,-230.097,0,-193.07 1/1:168:0,167,1:0:0:167,1:5855,27:-525.455,-50.272,0,-523.327,-47.8733,-523.026 1/1:269:0,269,0:0:0:269,0:9467,0:-851.546,-80.9771,0,-851.546,-80.9771,-851.546 1/1:181:0,181,0:0:0:181,0:6394,0:-575.372,-54.4864,0,-575.372,-54.4864,-575.372 1/1:183:0,183,0:0:0:183,0:6473,0:-582.386,-55.0885,0,-582.386,-55.0885,-582.386 1/2:218:0,94,124:0:0:94,124:3328,4419:-631.142,-360.547,-332.25,-270.95,0,-233.622 1/2:136:0,83,53:0:0:83,53:2937,1887:-393.289,-154.151,-129.165,-239.493,0,-223.538 1/1:149:0,146,3:0:0:146,3:5127,108:-461.083,-43.9504,0,-452.271,-34.7783,-451.368 1/1:72:0,72,0:0:0:72,0:2556,0:-229.117,-21.6742,0,-229.117,-21.6742,-229.117 chr10 10249528 . T C 27785.8 PASS AB=0.473091;ABP=8.0354;AC=33;AF=0.785714;AN=42;AO=1309;CIGAR=1X;DP=1796;DPB=1796;DPRA=1.49828;EPP=2828.12;EPPR=1058.35;GTI=1;LEN=1;MEANALT=1.05;MQM=56.7105;MQMR=59.6584;NS=21;NUMALT=1;ODDS=4.02124;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46800;QR=17102;RO=486;RPL=6;RPP=2793.59;RPPR=1015.36;RPR=1303;RUN=1;SAF=4;SAP=2810.83;SAR=1305;SRF=5;SRP=1015.36;SRR=481;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,76:0:0:76:2698:-242.385,-22.8783,0 1/1:71:0,71:0:0:71:2548:-229.385,-21.3731,0 1/1:84:2,82:2:72:82:2934:-256.72,-18.4498,0 1/1:87:0,86:0:0:86:3077:-276.712,-25.8886,0 0/1:200:107,93:107:3731:93:3298:-236.505,0,-275.471 1/1:58:5,53:5:180:53:1908:-154.861,-0.907675,0 0/1:131:61,70:61:2173:70:2499:-185.286,0,-156.398 0/0:58:58,0:58:2019:0:0:0,-17.4597,-181.974 0/1:171:92,79:92:3262:79:2832:-203.513,0,-241.948 0/1:14:6,8:6:216:8:288:-22.0514,0,-15.5761 1/1:5:0,5:0:0:5:180:-16.5502,-1.50515,0 1/1:30:0,30:0:0:30:1072:-96.7739,-9.0309,0 0/1:80:47,33:47:1664:33:1184:-82.4498,0,-125.96 1/1:92:0,92:0:0:92:3262:-291.929,-27.6948,0 1/1:128:0,128:0:0:128:4604:-414.051,-38.5318,0 1/1:88:0,88:0:0:88:3149:-283.412,-26.4906,0 1/1:100:0,100:0:0:100:3579:-321.91,-30.103,0 0/1:139:82,57:82:2883:57:2035:-141.164,0,-217.809 0/1:64:26,38:26:902:38:1368:-104.067,0,-62.2221 1/1:69:0,69:0:0:69:2461:-221.472,-20.7711,0 1/1:51:0,51:0:0:51:1824:-163.001,-15.3525,0 chr10 10328053 . 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AAAG GAAA,GAAG 18490.6 PASS AB=0.686525,0.30922;ABP=216.058,225.89;AC=26,16;AF=0.619048,0.380952;AN=42;AO=701,251;CIGAR=1X2M1X,1X3M;DP=955;DPB=955;DPRA=1.49032,1.07878;EPP=1525.21,548.05;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.95,2.11765;MQM=47.388,56.6335;MQMR=0;NS=21;NUMALT=2;ODDS=4.70271;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24219,8902;QR=0;RO=0;RPL=701,251;RPP=1525.21,548.05;RPPR=0;RPR=0,0;RUN=1,1;SAF=701,251;SAP=1525.21,548.05;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:29:0,21,7:0:0:21,7:731,252:-79.2265,-20.5492,-14.2276,-58.7675,0,-56.6603 1/1:35:0,34,1:0:0:34,1:1162,36:-104.026,-10.235,0,-101.091,-6.94148,-100.79 1/2:32:0,23,9:0:0:23,9:806,318:-90.978,-25.9774,-19.0537,-65.3498,0,-62.6405 1/1:69:0,69,0:0:0:69,0:2393,0:-213.887,-20.7711,0,-213.887,-20.7711,-213.887 1/2:98:0,80,18:0:0:80,18:2781,648:-277.458,-53.2333,-29.1509,-224.582,0,-219.163 1/2:57:0,36,20:0:0:36,20:1243,716:-157.365,-58.3039,-47.4668,-99.0544,0,-93.0338 1/2:98:0,72,25:0:0:72,25:2467,869:-268.607,-70.0216,-48.3474,-198.694,0,-191.168 2/2:31:0,0,31:0:0:0,31:0,1095:-98.4717,-98.4717,-98.4717,-9.33193,-9.33193,0 1/2:53:0,36,17:0:0:36,17:1242,604:-149.688,-49.5643,-38.7272,-100.474,0,-95.3568 1/2:6:0,4,2:0:0:4,2:130,72:-15.6348,-6.23141,-5.02729,-9.7418,0,-9.13974 1/1:5:0,5,0:0:0:5,0:178,0:-16.2854,-1.50515,0,-16.2854,-1.50515,-16.2854 1/1:13:0,12,1:0:0:12,1:402,28:-35.9875,-3.61236,0,-34.0455,-1.41408,-33.7445 1/2:46:0,28,18:0:0:28,18:955,648:-129.739,-53.1184,-44.6896,-76.9712,0,-71.5527 1/2:46:0,35,11:0:0:35,11:1177,396:-127.202,-32.6665,-22.1304,-94.8892,0,-91.5778 1/2:35:0,26,9:0:0:26,9:896,315:-96.8107,-25.9764,-18.1496,-71.1807,0,-68.4714 1/2:53:0,32,21:0:0:32,21:1110,743:-150.335,-60.593,-50.96,-90.0918,0,-83.7702 1/2:56:0,36,20:0:0:36,20:1253,712:-159.477,-58.3436,-47.5065,-101.486,0,-95.4653 1/2:52:0,27,25:0:0:27,25:950,880:-147.915,-71.898,-63.7702,-76.3656,0,-68.8398 1/2:44:0,28,16:0:0:28,16:1001,570:-127.406,-46.5422,-38.1133,-81.2176,0,-76.4011 1/1:53:0,53,0:0:0:53,0:1817,0:-161.807,-15.9546,0,-161.807,-15.9546,-161.807 1/1:44:0,44,0:0:0:44,0:1525,0:-136.341,-13.2453,0,-136.341,-13.2453,-136.341 chr10 10328073 . C T 12655.4 PASS AB=0.682284;ABP=200.131;AC=26;AF=0.619048;AN=42;AO=670;CIGAR=1X;DP=920;DPB=920;DPRA=1.43387;EPP=1457.9;EPPR=543.707;GTI=1;LEN=1;MEANALT=1;MQM=47.4388;MQMR=56.4819;NS=21;NUMALT=1;ODDS=4.86704;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23714;QR=8791;RO=249;RPL=670;RPP=1457.9;RPPR=543.707;RPR=0;RUN=1;SAF=670;SAP=1457.9;SAR=0;SRF=249;SRP=543.707;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:9,20:9:303:20:716:-54.899,0,-18.8176 1/1:31:1,30:1:36:30:1054:-91.089,-5.73736,0 0/1:32:9,23:9:316:23:797:-61.8326,0,-18.5122 1/1:66:0,66:0:0:66:2322:-207.107,-19.868,0 0/1:96:18,78:18:635:78:2764:-218.103,0,-28.5781 0/1:57:20,37:20:716:37:1301:-98.1644,0,-47.522 0/1:97:26,71:26:916:71:2527:-196.539,0,-49.9545 0/0:31:30,0:30:1060:0:0:0,-9.0309,-94.2695 0/1:51:17,34:17:600:34:1220:-93.8809,0,-38.9692 0/1:6:2,4:2:72:4:144:-10.392,0,-5.02729 1/1:5:0,5:0:0:5:176:-16.106,-1.50515,0 1/1:13:1,12:1:36:12:428:-35.5777,-1.17719,0 0/1:45:18,27:18:623:27:948:-71.3761,0,-42.7976 0/1:41:11,30:11:383:30:1063:-82.5847,0,-22.459 0/1:36:10,26:10:356:26:924:-70.3518,0,-21.5417 0/1:48:20,28:20:716:28:989:-74.4105,0,-50.3089 0/1:54:19,35:19:684:35:1240:-94.8225,0,-45.5924 0/1:49:24,25:24:839:25:896:-64.8486,0,-61.0146 0/1:42:14,28:14:500:28:995:-76.4663,0,-32.318 1/1:48:0,48:0:0:48:1691:-150.588,-14.4494,0 1/1:43:0,43:0:0:43:1519:-135.754,-12.9443,0 chr10 10361498 . CTA CTTA 18856.6 PASS AB=0.527301;ABP=7.16015;AC=33;AF=0.785714;AN=42;AO=910;CIGAR=1M1I2M;DP=1237;DPB=1540.33;DPRA=2.63913;EPP=1961.72;EPPR=697.908;GTI=1;LEN=1;MEANALT=1.15;MQM=59.8297;MQMR=60;NS=21;NUMALT=1;ODDS=0.786317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32301;QR=11513;RO=324;RPL=908;RPP=1961.72;RPPR=697.908;RPR=2;RUN=1;SAF=0;SAP=1979.05;SAR=910;SRF=0;SRP=706.567;SRR=324;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,75:0:0:75:2665:-240.095,-22.5773,0 1/1:44:0,44:0:0:44:1569:-141.483,-13.2453,0 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 1/1:90:0,90:0:0:90:3201:-288.313,-27.0927,0 0/1:194:91,103:91:3224:103:3662:-271.382,0,-231.983 1/1:39:0,39:0:0:39:1392:-125.168,-11.7402,0 0/1:142:76,63:76:2697:63:2248:-160.269,0,-200.771 0/0:23:23,0:23:826:0:0:0,-6.92369,-74.6638 0/1:129:54,75:54:1919:75:2665:-201.26,0,-134.153 0/1:4:3,1:3:108:1:36:-2.38905,0,-8.87105 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 1/1:20:0,20:0:0:20:710:-64.2213,-6.0206,0 0/1:80:32,48:32:1139:48:1671:-126.586,0,-78.7362 1/1:32:0,32:0:0:32:1102:-99.4706,-9.63296,0 1/1:60:0,60:0:0:60:2131:-192.058,-18.0618,0 1/1:62:1,61:1:36:61:2156:-190.702,-15.0656,0 1/1:40:0,40:0:0:40:1413:-127.465,-12.0412,0 0/1:53:33,20:33:1186:20:716:-48.8131,0,-91.094 0/1:39:11,28:11:378:28:996:-78.2147,0,-22.6094 1/1:43:0,43:0:0:43:1540:-138.893,-12.9443,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 chr10 10364364 . TG CA,CG 24269.6 PASS AB=0.681818,0.31016;ABP=110.399,120.084;AC=33,9;AF=0.785714,0.214286;AN=42;AO=971,149;CIGAR=2X,1X1M;DP=1123;DPB=1123;DPRA=0,1.1093;EPP=2094.17,317.932;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.57143,2.33333;MQM=54.0062,59.6174;MQMR=0;NS=21;NUMALT=2;ODDS=1.80378;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34480,5274;QR=0;RO=0;RPL=969,148;RPP=2094.17,317.932;RPPR=0;RPR=2,1;RUN=1,1;SAF=0,0;SAP=2111.51,326.56;SAR=971,149;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,53,0:0:0:53,0:1904,0:-170.629,-15.9546,0,-170.629,-15.9546,-170.629 1/1:12:0,12,0:0:0:12,0:430,0:-38.7501,-3.61236,0,-38.7501,-3.61236,-38.7501 1/1:104:0,102,2:0:0:102,2:3626,72:-324.608,-30.7051,0,-318.733,-24.4704,-318.131 1/1:101:0,101,0:0:0:101,0:3579,0:-321.335,-30.404,0,-321.335,-30.404,-321.335 1/2:57:0,42,15:0:0:42,15:1483,532:-163.854,-43.6929,-31.0497,-120.515,0,-116 1/1:55:0,55,0:0:0:55,0:1978,0:-177.095,-16.5567,0,-177.095,-16.5567,-177.095 1/2:56:0,37,19:0:0:37,19:1296,684:-160.771,-56.1708,-45.0326,-104.956,0,-99.2363 2/2:32:0,1,31:0:0:1,31:36,1070:-96.2292,-93.2995,-92.9985,-9.33193,-6.04373,0 1/2:61:0,40,21:0:0:40,21:1436,752:-178.705,-61.6805,-49.6393,-117.383,0,-111.061 1/2:6:0,3,3:0:0:3,3:108,108:-17.9703,-9.17208,-8.26899,-9.15779,0,-8.2547 1/1:4:0,4,0:0:0:4,0:144,0:-13.0936,-1.20412,0,-13.0936,-1.20412,-13.0936 1/1:30:0,30,0:0:0:30,0:1062,0:-95.3778,-9.0309,0,-95.3778,-9.0309,-95.3778 1/2:90:0,64,24:0:0:64,24:2273,852:-253.516,-69.4333,-50.1674,-184.097,0,-176.872 1/1:72:0,72,0:0:0:72,0:2545,0:-228.416,-21.6742,0,-228.416,-21.6742,-228.416 1/1:84:0,84,0:0:0:84,0:2972,0:-267.149,-25.2865,0,-267.149,-25.2865,-267.149 1/1:23:0,23,0:0:0:23,0:824,0:-74.4587,-6.92369,0,-74.4587,-6.92369,-74.4587 1/1:23:0,23,0:0:0:23,0:822,0:-74.2696,-6.92369,0,-74.2696,-6.92369,-74.2696 1/2:46:0,28,17:0:0:28,17:978,596:-127.479,-48.5947,-40.1659,-78.9767,0,-73.8592 1/2:58:0,41,17:0:0:41,17:1427,608:-165.855,-49.9298,-37.5876,-116.279,0,-111.162 1/1:113:0,113,0:0:0:113,0:4031,0:-361.985,-34.0164,0,-361.985,-34.0164,-361.985 1/1:43:0,43,0:0:0:43,0:1526,0:-136.487,-12.9443,0,-136.487,-12.9443,-136.487 chr10 10845852 . GGTAA GATAA,AGTAC 15933.6 PASS AB=0.770428,0.22179;ABP=166.259,175.79;AC=33,9;AF=0.785714,0.214286;AN=42;AO=650,83;CIGAR=1M1X3M,1X3M1X;DP=735;DPB=735;DPRA=1.42,1.09241;EPP=1414.47,183.243;EPPR=0;GTI=3;LEN=1,5;MEANALT=1.5,2.11111;MQM=59.9862,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.52319;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23150,2877;QR=0;RO=0;RPL=650,83;RPP=1414.47,183.243;RPPR=0;RPR=0,0;RUN=1,1;SAF=650,83;SAP=1414.47,183.243;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1924,0:-173.437,-16.2556,0,-173.437,-16.2556,-173.437 1/1:22:0,22,0:0:0:22,0:767,0:-69.3479,-6.62266,0,-69.3479,-6.62266,-69.3479 1/1:43:0,43,0:0:0:43,0:1540,0:-138.893,-12.9443,0,-138.893,-12.9443,-138.893 1/1:32:0,32,0:0:0:32,0:1143,0:-103.179,-9.63296,0,-103.179,-9.63296,-103.179 1/2:60:0,52,8:0:0:52,8:1834,275:-172.014,-22.6754,-7.02184,-149.683,0,-147.275 1/1:49:0,48,1:0:0:48,1:1666,30:-149.909,-14.4494,0,-147.511,-11.7509,-147.21 1/2:41:0,31,10:0:0:31,10:1104,356:-119.354,-29.3711,-20.0392,-90.3387,0,-87.3284 2/2:25:0,0,25:0:0:0,25:0,865:-78.1635,-78.1635,-78.1635,-7.52575,-7.52575,0 1/2:66:0,58,7:0:0:58,7:2076,238:-188.594,-19.2875,-1.82778,-169.291,0,-167.184 1/2:7:0,6,1:0:0:6,1:216,36:-20.9217,-3.29724,-1.49106,-17.9843,0,-17.6833 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:25:0,25,0:0:0:25,0:877,0:-79.2452,-7.52575,0,-79.2452,-7.52575,-79.2452 1/2:41:0,28,12:0:0:28,12:1000,410:-114.795,-33.2558,-24.827,-81.5268,0,-77.9144 1/1:37:0,37,0:0:0:37,0:1328,0:-119.822,-11.1381,0,-119.822,-11.1381,-119.822 1/1:66:0,66,0:0:0:66,0:2376,0:-214.097,-19.868,0,-214.097,-19.868,-214.097 1/1:40:0,40,0:0:0:40,0:1436,0:-129.538,-12.0412,0,-129.538,-12.0412,-129.538 1/1:26:0,26,0:0:0:26,0:936,0:-84.5595,-7.82678,0,-84.5595,-7.82678,-84.5595 1/2:24:0,15,9:0:0:15,9:532,308:-68.6931,-25.3422,-20.8268,-43.6976,0,-40.9884 1/2:18:0,8,10:0:0:8,10:284,359:-52.7818,-29.6433,-27.2351,-23.4951,0,-20.4848 1/1:46:0,46,0:0:0:46,0:1652,0:-148.968,-13.8474,0,-148.968,-13.8474,-148.968 1/1:8:0,8,0:0:0:8,0:279,0:-25.4475,-2.40824,0,-25.4475,-2.40824,-25.4475 chr10 10941965 . A G 8323.04 PASS AB=0.49635;ABP=3.1054;AC=10;AF=0.238095;AN=42;AO=480;CIGAR=1X;DP=1860;DPB=1860;DPRA=1.36209;EPP=1045.32;EPPR=2997.47;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9729;MQMR=60;NS=21;NUMALT=1;ODDS=7.88823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17035;QR=48316;RO=1379;RPL=480;RPP=1045.32;RPPR=2997.47;RPR=0;RUN=1;SAF=480;SAP=1045.32;SAR=0;SRF=1379;SRP=2997.47;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:136:135,1:135:4783:1:36:0,-37.3418,-427.033 0/0:60:60,0:60:2124:0:0:0,-18.0618,-191.429 0/0:54:54,0:54:1897:0:0:0,-16.2556,-171.006 0/0:170:170,0:170:5999:0:0:0,-51.1751,-540.021 0/1:219:93,126:93:3237:126:4474:-336.903,0,-225.629 0/0:107:107,0:107:3702:0:0:0,-32.2102,-333.383 0/1:105:53,52:53:1807:52:1852:-135.341,0,-131.298 1/1:71:0,71:0:0:71:2521:-227.141,-21.3731,0 0/1:119:73,45:73:2546:45:1611:-109.486,0,-193.598 0/1:11:6,5:6:197:5:180:-13.2407,0,-14.74 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/0:13:13,0:13:436:0:0:0,-3.91339,-39.5598 0/1:230:110,120:110:3852:120:4235:-312.092,0,-277.645 0/0:70:70,0:70:2425:0:0:0,-21.0721,-218.508 0/0:69:69,0:69:2426:0:0:0,-20.7711,-218.596 0/0:100:100,0:100:3507:0:0:0,-30.103,-315.841 0/0:75:75,0:75:2659:0:0:0,-22.5772,-239.557 0/1:56:22,34:22:757:34:1203:-91.7174,0,-51.5881 0/1:77:52,25:52:1835:25:887:-56.9688,0,-142.251 0/0:80:80,0:80:2836:0:0:0,-24.0824,-255.48 0/0:33:33,0:33:1147:0:0:0,-9.93399,-103.535 chr10 10954903 . CC TT,TC 40289.8 PASS AB=0.541735,0.456628;ABP=12.2542,12.9934;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1473,363;CIGAR=2X,1X1M;DP=1840;DPB=1840;DPRA=1.07195,1.14142;EPP=3106.76,782.593;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.6,2.1;MQM=59.869,59.989;MQMR=0;NS=21;NUMALT=2;ODDS=14.2564;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51843,12982;QR=0;RO=0;RPL=11,1;RPP=3106.76,782.593;RPPR=0;RPR=1462,362;RUN=1,1;SAF=1473,363;SAP=3201.59,791.255;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102,0:0:0:102,0:3618,0:-325.813,-30.7051,0,-325.813,-30.7051,-325.813 1/1:177:0,176,0:0:0:176,0:6247,0:-561.965,-52.9813,0,-561.965,-52.9813,-561.965 1/1:105:0,103,2:0:0:103,2:3665,72:-329.694,-31.0061,0,-323.819,-24.7714,-323.217 1/1:103:0,103,0:0:0:103,0:3608,0:-324.927,-31.0061,0,-324.927,-31.0061,-324.927 1/2:123:0,56,67:0:0:56,67:1978,2388:-356.089,-195.006,-178.149,-161.437,0,-141.268 1/1:113:0,112,0:0:0:112,0:3961,0:-356.437,-33.7154,0,-356.437,-33.7154,-356.437 1/2:175:0,100,75:0:0:100,75:3486,2676:-501.994,-218.509,-188.406,-283.839,0,-261.262 2/2:82:0,0,81:0:0:0,81:0,2912:-261.955,-261.955,-261.955,-24.3834,-24.3834,0 1/2:155:0,82,72:0:0:82,72:2885,2567:-444.193,-209.354,-184.67,-234.941,0,-213.267 1/2:15:0,8,7:0:0:8,7:288,252:-44.3926,-20.9217,-18.5135,-23.8305,0,-21.7232 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:41:0,41,0:0:0:41,0:1449,0:-130.7,-12.3422,0,-130.7,-12.3422,-130.7 1/2:93:0,56,37:0:0:56,37:1981,1323:-269.584,-108.234,-91.3762,-161.706,0,-150.568 1/1:90:0,90,0:0:0:90,0:3131,0:-281.904,-27.0927,0,-281.904,-27.0927,-281.904 1/1:105:0,105,0:0:0:105,0:3674,0:-330.859,-31.6082,0,-330.859,-31.6082,-330.859 1/1:80:0,80,0:0:0:80,0:2824,0:-254.398,-24.0824,0,-254.398,-24.0824,-254.398 1/1:139:0,138,1:0:0:138,1:4788,36:-430.723,-41.5421,0,-427.785,-38.2449,-427.484 1/2:28:0,16,12:0:0:16,12:547,432:-79.9902,-35.6088,-30.7924,-44.7334,0,-41.1211 1/2:22:0,13,9:0:0:13,9:455,324:-63.8091,-26.7966,-22.8832,-37.3683,0,-34.659 1/1:61:0,61,0:0:0:61,0:2155,0:-194.212,-18.3628,0,-194.212,-18.3628,-194.212 1/1:25:0,25,0:0:0:25,0:887,0:-80.1379,-7.52575,0,-80.1379,-7.52575,-80.1379 chr10 11790655 . GAC AAC,AAT 61239.7 PASS AB=0.522817,0.473214;ABP=7.56867,9.29206;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2196,592;CIGAR=1X2M,1X1M1X;DP=2796;DPB=2796;DPRA=1.16565,1.09078;EPP=4728.23,1262.6;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.6,2.25;MQM=60,59.9493;MQMR=60;NS=21;NUMALT=2;ODDS=12.0606;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=78449,20643;QR=36;RO=1;RPL=2191,589;RPP=4728.23,1262.6;RPPR=5.18177;RPR=5,3;RUN=1,1;SAF=0,0;SAP=4771.56,1288.52;SAR=2196,592;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:132:0,132,0:0:0:132,0:4711,0:-424.151,-39.736,0,-424.151,-39.736,-424.151 1/1:98:0,98,0:0:0:98,0:3488,0:-314.131,-29.5009,0,-314.131,-29.5009,-314.131 1/1:163:1,162,0:1:36:162,0:5750,0:-514.021,-45.4696,0,-514.322,-48.7669,-517.259 1/1:155:0,155,0:0:0:155,0:5533,0:-498.096,-46.6597,0,-498.096,-46.6597,-498.096 1/2:191:0,89,102:0:0:89,102:3192,3555:-549.768,-289.41,-262.618,-260.711,0,-230.006 1/1:238:0,238,0:0:0:238,0:8495,0:-764.552,-71.6451,0,-764.552,-71.6451,-764.552 1/2:188:0,89,99:0:0:89,99:3184,3447:-540.275,-280.636,-253.845,-259.991,0,-230.189 2/2:115:0,0,115:0:0:0,115:0,4019:-361.902,-361.902,-361.902,-34.6185,-34.6185,0 1/2:338:0,172,164:0:0:172,164:6164,5726:-968.576,-465.849,-414.072,-502.834,0,-453.465 1/2:22:0,17,5:0:0:17,5:608,180:-64.6221,-15.0469,-9.9294,-49.9345,0,-48.4294 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/1:64:0,64,0:0:0:64,0:2300,0:-207.261,-19.2659,0,-207.261,-19.2659,-207.261 1/2:108:0,53,53:0:0:53,53:1882,1854:-304.207,-150.856,-134.901,-153.377,0,-137.422 1/1:151:0,149,0:0:0:149,0:5316,0:-478.322,-44.8535,0,-478.322,-44.8535,-478.322 1/1:210:0,209,0:0:0:209,0:7496,0:-674.43,-62.9153,0,-674.43,-62.9153,-674.43 1/1:126:0,126,0:0:0:126,0:4510,0:-406.067,-37.9298,0,-406.067,-37.9298,-406.067 1/1:125:0,125,0:0:0:125,0:4476,0:-403.009,-37.6288,0,-403.009,-37.6288,-403.009 1/2:67:0,34,33:0:0:34,33:1220,1132:-191.769,-92.2475,-82.0125,-99.8718,0,-89.9378 1/2:94:0,73,21:0:0:73,21:2596,730:-271.261,-59.6973,-37.7221,-211.913,0,-205.591 1/1:146:0,146,0:0:0:146,0:5188,0:-467.061,-43.9504,0,-467.061,-43.9504,-467.061 1/1:59:0,59,0:0:0:59,0:2124,0:-191.428,-17.7608,0,-191.428,-17.7608,-191.428 chr10 12111769 . TATG AATA,TATA 23113.2 PASS AB=0.527241,0.467487;ABP=6.67776,8.23481;AC=32,10;AF=0.761905,0.238095;AN=42;AO=801,287;CIGAR=1X2M1X,3M1X;DP=1092;DPB=1092.5;DPRA=2.68,1.52271;EPP=1699.2,626.223;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.65,2.2;MQM=59.8864,59.9895;MQMR=0;NS=21;NUMALT=2;ODDS=2.48864;PAIRED=0,0;PAIREDR=0;PAO=2,0;PQA=72,0;PQR=0;PRO=0;QA=28249,10173;QR=0;RO=0;RPL=801,287;RPP=1742.36,626.223;RPPR=0;RPR=0,0;RUN=1,1;SAF=796,287;SAP=1699.2,626.223;SAR=5,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77,0:0:0:77,0:2729,0:-245.854,-23.1793,0,-245.854,-23.1793,-245.854 1/1:67:0,67,0:0:0:67,0:2378,0:-214.25,-20.169,0,-214.25,-20.169,-214.25 1/1:46:0,46,0:0:0:46,0:1631,0:-147.078,-13.8474,0,-147.078,-13.8474,-147.078 1/1:30:0,30,0:0:0:30,0:1066,0:-96.2515,-9.0309,0,-96.2515,-9.0309,-96.2515 1/2:104:0,49,55:0:0:49,55:1720,1952:-299.018,-159.037,-144.287,-139.973,0,-123.417 1/2:38:0,13,25:0:0:13,25:454,870:-108.016,-71.0863,-67.1729,-37.2785,0,-29.7528 1/2:125:0,75,49:0:0:75,49:2637,1712:-353.875,-139.252,-116.675,-214.614,0,-199.863 2/2:20:0,0,20:0:0:0,20:0,704:-63.6845,-63.6845,-63.6845,-6.0206,-6.0206,0 1/2:116:0,52,64:0:0:52,64:1791,2283:-331.93,-186.465,-170.812,-145.814,0,-126.548 1/2:4:0,1,3:0:0:1,3:36,108:-12.1095,-9.17208,-8.87105,-3.29724,0,-2.39415 1/1:9:0,9,0:0:0:9,0:317,0:-28.8696,-2.70927,0,-28.8696,-2.70927,-28.8696 1/1:7:0,7,0:0:0:7,0:250,0:-22.8468,-2.10721,0,-22.8468,-2.10721,-22.8468 1/2:37:0,25,12:0:0:25,12:881,432:-107.334,-35.6088,-28.0831,-72.0821,0,-68.4697 1/1:45:0,44,1:0:0:44,1:1544,36:-138.891,-13.2453,0,-135.953,-9.94808,-135.652 1/1:61:0,61,0:0:0:61,0:2149,0:-193.317,-18.3628,0,-193.317,-18.3628,-193.317 1/1:50:0,50,0:0:0:50,0:1772,0:-159.762,-15.0515,0,-159.762,-15.0515,-159.762 1/1:40:0,40,0:0:0:40,0:1406,0:-126.832,-12.0412,0,-126.832,-12.0412,-126.832 1/2:78:0,39,37:0:0:39,37:1390,1324:-221.274,-107.974,-96.2336,-113.307,0,-102.169 1/2:67:0,46,21:0:0:46,21:1629,752:-194.374,-61.6846,-47.8372,-133.046,0,-126.724 1/1:29:0,29,0:0:0:29,0:1039,0:-93.8244,-8.72987,0,-93.8244,-8.72987,-93.8244 1/1:42:0,41,0:0:0:41,0:1430,0:-128.619,-12.3422,0,-128.619,-12.3422,-128.619 chr10 12399366 . C A 13766.5 PASS AB=0.482061;ABP=6.04876;AC=10;AF=0.238095;AN=42;AO=618;CIGAR=1X;DP=2572;DPB=2572;DPRA=0.933246;EPP=367.326;EPPR=1299.23;GTI=0;LEN=1;MEANALT=1;MQM=59.8317;MQMR=59.9616;NS=21;NUMALT=1;ODDS=9.06783;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22188;QR=69857;RO=1954;RPL=470;RPP=367.326;RPPR=1299.23;RPR=148;RUN=1;SAF=618;SAP=1344.98;SAR=0;SRF=1954;SRP=4246.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:106:104,2:104:3724:2:72:0,-25.0725,-328.518 0/0:117:117,0:117:4200:0:0:0,-35.2205,-378.18 0/0:136:136,0:136:4844:0:0:0,-40.9401,-436.112 0/0:193:193,0:193:6872:0:0:0,-58.0988,-618.551 0/1:228:101,127:101:3628:127:4560:-341.839,0,-257.874 0/1:112:59,53:59:2112:53:1904:-137.922,0,-156.634 0/1:236:113,123:113:4024:123:4408:-325.845,0,-291.302 1/1:90:0,90:0:0:90:3228:-290.718,-27.0927,0 0/1:306:164,142:164:5841:142:5100:-366.895,0,-433.675 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/0:4:4,0:4:136:0:0:0,-1.20412,-12.5755 0/0:44:44,0:44:1561:0:0:0,-13.2453,-140.78 0/1:72:40,32:40:1436:32:1152:-82.3078,0,-107.864 0/0:118:118,0:118:4236:0:0:0,-35.5215,-381.418 0/0:265:265,0:265:9489:0:0:0,-79.7729,-853.966 0/0:128:128,0:128:4588:0:0:0,-38.5318,-413.084 0/0:141:141,0:141:5034:0:0:0,-42.4452,-453.205 0/1:68:46,22:46:1652:22:792:-51.1356,0,-128.498 0/1:53:33,20:33:1188:20:720:-49.1718,0,-91.274 0/0:102:101,1:101:3612:1:36:0,-27.1068,-321.688 0/0:41:40,1:40:1428:1:36:0,-8.74395,-125.219 chr10 12407210 . AAGAG TAGAA,TGGAA 57616 PASS AB=0.476556,0.521906;ABP=9.22094,8.43314;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1974,812;CIGAR=1X3M1X,2X2M1X;DP=2794;DPB=2794;DPRA=1.0676,1.9338;EPP=4289.5,1766.25;EPPR=5.18177;GTI=1;LEN=5,5;MEANALT=1.95,2.28571;MQM=59.7457,54.3805;MQMR=60;NS=21;NUMALT=2;ODDS=1.37935;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68568,28369;QR=36;RO=1;RPL=1974,812;RPP=4289.5,1766.25;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1974,812;SAP=4289.5,1766.25;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:152:0,150,1:0:0:150,1:5232,36:-470.463,-45.1545,0,-467.528,-42.2194,-467.227 1/1:130:0,129,1:0:0:129,1:4430,36:-398.498,-38.8329,0,-395.568,-35.5447,-395.267 1/1:134:0,131,3:0:0:131,3:4588,103:-412.663,-39.4349,0,-404.328,-30.7575,-403.425 1/1:127:0,127,0:0:0:127,0:4385,0:-394.815,-38.2308,0,-394.815,-38.2308,-394.815 1/2:303:0,120,182:0:0:120,182:4154,6379:-855.484,-517.957,-481.834,-337.564,0,-282.776 1/2:82:0,49,33:0:0:49,33:1691,1131:-228.777,-91.3956,-76.6452,-137.724,0,-127.79 1/2:238:1,105,132:1:36:105,132:3629,4625:-666.643,-372.082,-343.411,-291.912,0,-255.114 2/2:125:0,0,124:0:0:0,124:0,4320:-388.191,-388.191,-388.191,-37.3277,-37.3277,0 1/2:294:0,138,156:0:0:138,156:4776,5463:-832.283,-444.176,-402.634,-388.454,0,-341.494 1/2:29:0,21,8:0:0:21,8:741,283:-83.6764,-23.3659,-17.0443,-60.6634,0,-58.2552 1/1:14:0,14,0:0:0:14,0:491,0:-44.514,-4.21442,0,-44.514,-4.21442,-44.514 1/1:38:0,38,0:0:0:38,0:1340,0:-120.893,-11.4391,0,-120.893,-11.4391,-120.893 1/2:176:0,91,85:0:0:91,85:3185,2959:-499.618,-240.481,-213.087,-259.485,0,-233.898 1/1:130:0,129,0:0:0:129,0:4459,0:-401.125,-38.8329,0,-401.125,-38.8329,-401.125 1/1:278:0,275,2:0:0:275,2:9590,71:-862.714,-82.7833,0,-857.037,-77.0739,-856.435 1/1:100:0,97,2:0:0:97,2:3375,72:-303.611,-29.1999,0,-297.738,-23.3269,-297.136 1/1:98:0,98,0:0:0:98,0:3373,0:-303.716,-29.5009,0,-303.716,-29.5009,-303.716 1/2:103:0,44,59:0:0:44,59:1540,2054:-292.103,-166.851,-153.606,-125.601,0,-107.84 1/2:76:0,52,24:0:0:52,24:1826,837:-216.982,-68.3739,-52.7203,-148.957,0,-141.733 1/1:119:0,119,0:0:0:119,0:4118,0:-370.78,-35.8226,0,-370.78,-35.8226,-370.78 1/1:48:0,47,0:0:0:47,0:1645,0:-147.971,-14.1484,0,-147.971,-14.1484,-147.971 chr10 12487120 . TGTAT CGTAC 11338.3 PASS AB=0.430632;ABP=63.8652;AC=10;AF=0.238095;AN=42;AO=715;CIGAR=1X3M1X;DP=3007;DPB=3007;DPRA=1.73292;EPP=1555.61;EPPR=4953.97;GTI=1;LEN=5;MEANALT=1.30769;MQM=53.8252;MQMR=59.9715;NS=21;NUMALT=1;ODDS=11.565;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25074;QR=80802;RO=2280;RPL=0;RPP=1555.61;RPPR=4953.97;RPR=715;RUN=1;SAF=0;SAP=1555.61;SAR=715;SRF=0;SRP=4953.97;SRR=2280;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:183:182,1:182:6436:1:36:0,-51.4928,-575.649 0/0:77:76,0:76:2691:0:0:0,-22.8783,-242.075 0/0:65:63,2:63:2217:2:72:0,-12.7375,-192.965 0/0:254:252,2:252:8904:2:72:0,-69.6298,-794.528 0/1:324:183,137:183:6501:137:4762:-331.304,0,-488.518 0/1:130:81,49:81:2872:49:1712:-114.565,0,-219.585 0/1:358:195,163:195:6893:163:5722:-405.612,0,-512.678 1/1:83:1,82:1:36:82:2865:-253.251,-21.3872,0 0/1:292:169,123:169:6002:123:4336:-301.908,0,-452.391 0/1:10:7,3:7:241:3:108:-7.05058,0,-19.015 0/0:24:20,0:20:704:0:0:0,-6.0206,-63.3262 0/0:35:35,0:35:1237:0:0:0,-10.536,-111.634 0/1:175:94,80:94:3310:80:2818:-200.918,0,-245.38 0/0:177:176,0:176:6234:0:0:0,-52.9813,-560.805 0/0:178:177,1:177:6299:1:36:0,-49.9902,-563.414 0/0:107:107,0:107:3815:0:0:0,-32.2102,-343.55 0/0:107:106,0:106:3780:0:0:0,-31.9092,-340.101 0/1:84:35,49:35:1221:49:1720:-129.32,0,-84.9065 0/1:83:60,23:60:2136:23:815:-48.6343,0,-167.522 0/0:199:199,0:199:7061:0:0:0,-59.905,-635.56 0/0:62:62,0:62:2212:0:0:0,-18.6639,-199.346 chr10 12844209 . G A 5566.55 PASS AB=0.442688;ABP=17.4467;AC=10;AF=0.238095;AN=42;AO=316;CIGAR=1X;DP=1109;DPB=1109;DPRA=1.68932;EPP=689.196;EPPR=1711.96;GTI=0;LEN=1;MEANALT=1.18182;MQM=59.6487;MQMR=59.9898;NS=21;NUMALT=1;ODDS=1.3033;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11314;QR=28187;RO=787;RPL=316;RPP=689.196;RPPR=1711.96;RPR=0;RUN=1;SAF=0;SAP=689.196;SAR=316;SRF=0;SRP=1711.96;SRR=787;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1396:1:36:0,-8.44292,-122.341 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:72:71,0:71:2552:0:0:0,-21.3731,-229.607 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/1:88:48,39:48:1704:39:1400:-99.8902,0,-127.242 0/1:27:18,9:18:648:9:324:-21.378,0,-50.5241 0/1:56:28,27:28:1004:27:968:-70.5128,0,-73.7594 1/1:90:0,90:0:0:90:3217:-289.663,-27.0927,0 0/1:103:53,50:53:1885:50:1800:-131.273,0,-138.92 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/1:58:26,32:26:936:32:1148:-86.1701,0,-67.0997 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.399 0/0:87:85,0:85:3040:0:0:0,-25.5875,-273.47 0/0:35:34,0:34:1220:0:0:0,-10.235,-109.786 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:111:67,44:67:2404:44:1576:-108.68,0,-183.202 0/1:55:36,19:36:1283:19:665:-43.5979,0,-99.216 0/0:85:84,1:84:3011:1:36:0,-21.9893,-267.622 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 chr10 13033281 . C T 11052.9 PASS AB=0.477791;ABP=6.57902;AC=10;AF=0.238095;AN=42;AO=473;CIGAR=1X;DP=1626;DPB=1626;DPRA=1.68617;EPP=4.04324;EPPR=8.50684;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9965;NS=21;NUMALT=1;ODDS=1.20299;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16926;QR=41012;RO=1152;RPL=473;RPP=1030.12;RPPR=2504.55;RPR=0;RUN=1;SAF=244;SAP=4.04324;SAR=229;SRF=603;SRP=8.50684;SRR=549;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:89:88,0:88:3119:0:0:0,-26.4906,-280.576 0/0:58:58,0:58:2088:0:0:0,-17.4597,-188.19 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 0/0:47:47,0:47:1656:0:0:0,-14.1484,-149.325 0/1:159:78,81:78:2760:81:2916:-214.81,0,-200.775 0/1:103:50,53:50:1783:53:1890:-139.371,0,-129.746 0/1:85:38,47:38:1364:47:1668:-124.82,0,-97.4732 1/1:75:0,75:0:0:75:2684:-241.805,-22.5773,0 0/1:96:53,43:53:1896:43:1536:-109.634,0,-142.019 0/1:20:15,5:15:525:5:180:-10.5315,0,-41.5575 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:103:57,46:57:2025:46:1648:-117.602,0,-151.515 0/0:87:87,0:87:3079:0:0:0,-26.1896,-277.338 0/0:99:99,0:99:3544:0:0:0,-29.802,-319.169 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 0/1:141:55,86:55:1943:86:3076:-234.623,0,-132.7 0/1:126:89,37:89:3158:37:1328:-81.8925,0,-246.516 0/0:69:69,0:69:2449:0:0:0,-20.7711,-220.664 0/0:121:121,0:121:4319:0:0:0,-36.4246,-388.887 chr10 13229749 . CTTTTTTTTCCTTTTTGG TTTTCCTTTCCTTTTTGG,CTTTCTTTTTTGG,TTTTTTCCTTTCCTTTTTGG 24295.2 PASS AB=0.380952,0.447046,0.607059;ABP=142.605,24.8582,45.3208;AC=29,10,3;AF=0.690476,0.238095,0.0714286;AN=42;AO=1268,441,258;CIGAR=1X3M2X12M,1M5D4M1X7M,1X5M2I12M;DP=2031;DPB=1959.89;DPRA=2.42683,1.26164,1.73727;EPP=2756.44,960.63,563.25;EPPR=0;GTI=2;LEN=18,13,20;MEANALT=3.4,4,4;MQM=27.7508,35.4989,27;MQMR=0;NS=21;NUMALT=3;ODDS=9.18732;PAIRED=0,0,0;PAIREDR=0;PAO=141,0.5,141;PQA=5040,16,5040;PQR=16;PRO=0.5;QA=35160,14720,6901;QR=0;RO=0;RPL=0,0,0;RPP=2756.44,960.63,563.25;RPPR=0;RPR=1268,441,258;RUN=1,1,1;SAF=0,0,0;SAP=2756.44,960.63,563.25;SAR=1268,441,258;SRF=0;SRP=0;SRR=0;TYPE=complex,complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:0,129,0,0:0:0:129,0,0:3501,0,0:-280.17,-38.8329,0,-280.17,-38.8329,-280.17,-280.17,-38.8329,-280.17,-280.17 1/1:135:0,132,0,0:0:0:132,0,0:3939,0,0:-319.184,-39.736,0,-319.184,-39.736,-319.184,-319.184,-39.736,-319.184,-319.184 1/1:87:0,84,0,0:0:0:84,0,0:2269,0,0:-181.51,-25.2865,0,-181.51,-25.2865,-181.51,-181.51,-25.2865,-181.51,-181.51 1/1:99:0,97,1,0:0:0:97,1,0:2617,33,0:-209.27,-29.1999,0,-206.871,-26.8045,-206.57,-209.27,-29.1999,-206.871,-209.27 1/2:203:0,107,87,0:0:0:107,87,0:2899,2807,0:-404.157,-204.433,-172.223,-199.717,0,-173.528,-404.157,-204.433,-199.717,-404.157 1/2:86:0,41,38,0:0:0:41,38,0:1225,1232,0:-177.983,-91.0732,-78.731,-86.9376,0,-75.4984,-177.983,-91.0732,-86.9376,-177.983 1/2:172:0,79,88,0:0:0:79,88,0:2362,2946,0:-384.583,-217.103,-193.322,-167.464,0,-140.973,-384.583,-217.103,-167.464,-384.583 2/2:41:0,0,37,0:0:0:0,37,0:0,1277,0:-107.652,-107.652,-107.652,-11.1381,-11.1381,0,-107.652,-107.652,-11.1381,-107.652 2/3:188:0,21,86,77:0:0:21,86,77:576,2935,2044:-369.4,-329.572,-323.251,-140.542,-100.719,-114.653,-228.725,-188.916,0,-205.545 1/2:24:0,8,12,0:0:0:8,12,0:216,420,0:-46.4989,-31.6588,-29.2506,-14.8212,0,-11.2089,-46.4989,-31.6588,-14.8212,-46.4989 1/1:5:0,5,0,0:0:0:5,0,0:149,0,0:-12.3676,-1.50515,0,-12.3676,-1.50515,-12.3676,-12.3676,-1.50515,-12.3676,-12.3676 1/1:38:0,37,0,0:0:0:37,0,0:991,0,0:-79.087,-11.1381,0,-79.087,-11.1381,-79.087,-79.087,-11.1381,-79.087,-79.087 1/2:81:0,47,27,0:0:0:47,27,0:1269,890,0:-152.006,-64.695,-50.5465,-87.2864,0,-79.1585,-152.006,-64.695,-87.2864,-152.006 1/1:111:0,110,0,0:0:0:110,0,0:2986,0,0:-238.962,-33.1133,0,-238.962,-33.1133,-238.962,-238.962,-33.1133,-238.962,-238.962 1/1:113:0,111,0,0:0:0:111,0,0:3011,0,0:-240.974,-33.4143,0,-240.974,-33.4143,-240.974,-240.974,-33.4143,-240.974,-240.974 1/3:117:0,27,0,89:0:0:27,0,89:737,0,2395:-209.535,-158.653,-150.526,-209.535,-158.653,-209.535,-44.6364,0,-44.6364,-17.8447 1/3:120:0,27,0,92:0:0:27,0,92:744,0,2462:-211.425,-159.921,-151.793,-211.425,-159.921,-211.425,-41.9425,0,-41.9425,-14.2477 1/2:86:0,40,43,0:0:0:40,43,0:1087,1473,0:-185.794,-110.784,-98.7425,-74.988,0,-62.0437,-185.794,-110.784,-74.988,-185.794 1/2:57:0,35,20,0:0:0:35,20,0:946,639,0:-111.601,-46.4942,-35.9582,-65.1354,0,-59.1148,-111.601,-46.4942,-65.1354,-111.601 1/1:101:0,96,2,0:0:0:96,2,0:2591,68,0:-207.167,-28.8989,0,-202.035,-23.7518,-201.433,-207.167,-28.8989,-202.035,-207.167 1/1:36:0,35,0,0:0:0:35,0,0:1045,0,0:-84.5346,-10.5361,0,-84.5346,-10.5361,-84.5346,-84.5346,-10.5361,-84.5346,-84.5346 chr10 13229788 . CTTAA GTTAC,GTTAA 32274.1 PASS AB=0.467836,0.531189;ABP=12.2295,11.6793;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1622,597;CIGAR=1X3M1X,1X4M;DP=2225;DPB=2225;DPRA=2.26771,1.23363;EPP=3525.14,1299.38;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.8,2.09091;MQM=27.5432,34.8208;MQMR=0;NS=21;NUMALT=2;ODDS=1.22192;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57823,19929;QR=0;RO=0;RPL=1622,597;RPP=3525.14,1299.38;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3525.14,1299.38;SAR=1622,597;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:135:0,134,0:0:0:134,0:4783,0:-319.786,-40.338,0,-319.786,-40.338,-319.786 1/1:139:0,138,0:0:0:138,0:4907,0:-356.24,-41.5421,0,-356.24,-41.5421,-356.24 1/1:89:0,89,0:0:0:89,0:3183,0:-212.072,-26.7917,0,-212.072,-26.7917,-212.072 1/1:106:0,103,2:0:0:103,2:3674,66:-239.212,-31.0061,0,-234.415,-26.1864,-233.813 1/2:253:0,113,140:0:0:113,140:4038,4432:-550.167,-320.085,-286.069,-230.354,0,-188.21 1/2:96:0,45,51:0:0:45,51:1611,1732:-230.247,-127.675,-114.129,-102.87,0,-87.5175 1/2:190:0,80,110:0:0:80,110:2843,3694:-453.828,-270.302,-246.219,-183.822,0,-150.709 2/2:48:0,0,48:0:0:0,48:0,1680:-141.43,-141.43,-141.43,-14.4494,-14.4494,0 1/2:222:0,110,112:0:0:110,112:3909,3815:-520.177,-293.882,-260.768,-226.589,0,-192.873 1/2:26:0,8,18:0:0:8,18:274,630:-63.8343,-47.4864,-45.0782,-16.6283,0,-11.2097 1/1:5:0,5,0:0:0:5,0:178,0:-13.3084,-1.50515,0,-13.3084,-1.50515,-13.3084 1/1:39:0,39,0:0:0:39,0:1390,0:-93.8546,-11.7402,0,-93.8546,-11.7402,-93.8546 1/2:85:0,48,37:0:0:48,37:1717,1202:-186.727,-87.5991,-73.1497,-99.4097,0,-88.2716 1/1:115:0,115,0:0:0:115,0:4087,0:-273.191,-34.6185,0,-273.191,-34.6185,-273.191 1/1:116:0,115,0:0:0:115,0:4107,0:-276.124,-34.6185,0,-276.124,-34.6185,-276.124 1/1:136:0,136,0:0:0:136,0:4863,0:-319.978,-40.9401,0,-319.978,-40.9401,-319.978 1/1:133:0,133,0:0:0:133,0:4748,0:-315.744,-40.037,0,-315.744,-40.037,-315.744 1/2:91:0,40,51:0:0:40,51:1415,1782:-217.387,-134.059,-122.017,-83.6196,0,-68.2671 1/2:63:0,36,26:0:0:36,26:1278,825:-134.911,-59.8133,-48.9763,-75.2109,0,-67.3842 1/1:101:0,99,2:0:0:99,2:3523,71:-236.468,-29.802,0,-231.178,-24.1861,-230.576 1/1:37:0,36,0:0:0:36,0:1295,0:-94.5131,-10.8371,0,-94.5131,-10.8371,-94.5131 chr10 13288465 . A G 18012.8 PASS AB=0.74763;ABP=452.546;AC=11;AF=0.261905;AN=42;AO=831;CIGAR=1X;DP=1371;DPB=1371;DPRA=5.58239;EPP=1110.44;EPPR=10.1038;GTI=10;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.806112;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29624;QR=19232;RO=540;RPL=0;RPP=1807.5;RPPR=1175.61;RPR=831;RUN=1;SAF=741;SAP=1110.44;SAR=90;SRF=291;SRP=10.1038;SRR=249;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/0:25:25,0:25:892:0:0:0,-7.52575,-80.5997 0/0:8:8,0:8:280:0:0:0,-2.40824,-25.5393 0/0:17:17,0:17:585:0:0:0,-5.11751,-52.9719 0/1:53:27,26:27:964:26:936:-68.6049,0,-71.1222 0/1:28:13,15:13:468:15:536:-40.146,0,-34.0308 0/1:53:31,22:31:1084:22:792:-55.6511,0,-81.9115 1/1:51:0,51:0:0:51:1828:-164.801,-15.3525,0 0/1:46:22,24:22:788:24:864:-64.2352,0,-57.3974 1/1:155:8,147:8:288:147:5221:-443.763,-20.3922,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:23:8,15:8:275:15:536:-41.6511,0,-18.1598 0/0:40:39,1:39:1396:1:36:0,-8.44292,-122.341 0/0:31:31,0:31:1090:0:0:0,-9.33193,-98.4079 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:525:50,475:50:1787:475:16915:-1363.96,0,-3.07115 0/1:116:62,54:62:2205:54:1924:-138.517,0,-163.794 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/0:89:88,1:88:3138:1:36:0,-23.1934,-279.047 chr10 13288501 . A C 17520.2 PASS AB=0.74;ABP=428.271;AC=11;AF=0.261905;AN=42;AO=818;CIGAR=1X;DP=1381;DPB=1381;DPRA=4.1962;EPP=1083.55;EPPR=8.29049;GTI=9;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.602697;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28901;QR=20098;RO=563;RPL=815;RPP=1753.31;RPPR=1165.5;RPR=3;RUN=1;SAF=725;SAP=1063.33;SAR=93;SRF=293;SRP=5.05064;SRR=270;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:46,0:46:1620:0:0:0,-13.8474,-146.086 0/0:25:25,0:25:877:0:0:0,-7.52575,-79.2452 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:19:19,0:19:669:0:0:0,-5.71957,-60.5339 0/1:55:28,27:28:1004:27:964:-70.5202,0,-74.1192 0/1:28:13,15:13:468:15:531:-39.6931,0,-34.0308 0/1:53:33,20:33:1173:20:701:-47.4571,0,-89.921 1/1:52:0,52:0:0:52:1855:-167.229,-15.6536,0 0/1:47:24,23:24:864:23:807:-58.8008,0,-63.9342 1/1:146:9,137:9:324:137:4822:-404.633,-14.4445,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:24:9,15:9:320:15:531:-40.8972,0,-21.9176 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:527:53,474:53:1899:474:16756:-1349.07,0,-12.5444 0/1:116:61,55:61:2192:55:1934:-139.416,0,-162.626 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/0:94:94,0:94:3340:0:0:0,-28.2968,-300.817 chr10 13306083 . C A 41543.1 PASS AB=0.433278;ABP=49.9527;AC=32;AF=0.761905;AN=42;AO=1975;CIGAR=1X;DP=2828;DPB=2828;DPRA=0.844937;EPP=4291.67;EPPR=1844.43;GTI=1;LEN=1;MEANALT=1.05;MQM=57.8329;MQMR=59.9754;NS=21;NUMALT=1;ODDS=8.21853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70546;QR=30417;RO=852;RPL=0;RPP=4291.67;RPPR=1844.43;RPR=1975;RUN=1;SAF=1975;SAP=4291.67;SAR=0;SRF=852;SRP=1853.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:135:1,134:1:36:134:4775:-425.586,-37.0408,0 1/1:126:0,126:0:0:126:4493:-404.284,-37.9298,0 1/1:168:2,166:2:72:166:5948:-528.328,-43.7363,0 1/1:209:0,209:0:0:209:7453:-669.365,-62.9153,0 0/1:258:177,81:177:6300:81:2892:-182.631,0,-489.43 0/1:99:54,45:54:1936:45:1590:-113.539,0,-144.714 0/1:183:91,92:91:3260:92:3304:-242.384,0,-238.532 0/0:158:158,0:158:5672:0:0:0,-47.5627,-510.591 0/1:227:129,98:129:4612:98:3524:-248.558,0,-346.911 0/1:17:7,10:7:252:10:345:-26.224,0,-17.9114 1/1:10:0,10:0:0:10:360:-32.6522,-3.0103,0 1/1:53:0,53:0:0:53:1892:-170.496,-15.9546,0 0/1:204:132,72:132:4695:72:2569:-169.98,0,-361.303 1/1:242:1,241:1:36:241:8637:-773.026,-69.251,0 1/1:141:0,141:0:0:141:5056:-454.89,-42.4452,0 1/1:73:0,73:0:0:73:2596:-233.22,-21.9752,0 1/1:157:0,157:0:0:157:5613:-504.942,-47.2617,0 0/1:92:51,41:51:1816:41:1472:-104.878,0,-136.027 0/1:134:47,87:47:1658:87:3074:-236.457,0,-109.168 1/1:90:2,87:2:72:87:3093:-271.723,-20.329,0 1/1:52:0,52:0:0:52:1860:-167.353,-15.6536,0 chr10 13306121 . T C 37695.7 PASS AB=0.425021;ABP=59.9952;AC=32;AF=0.761905;AN=42;AO=1867;CIGAR=1X;DP=2702;DPB=2702;DPRA=0.816026;EPP=4057.15;EPPR=1816.19;GTI=1;LEN=1;MEANALT=1;MQM=57.8056;MQMR=59.9749;NS=21;NUMALT=1;ODDS=9.8365;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65096;QR=29648;RO=835;RPL=1867;RPP=4057.15;RPPR=1816.19;RPR=0;RUN=1;SAF=1867;SAP=4057.15;SAR=0;SRF=835;SRP=1816.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:2,128:2:72:128:4453:-393.407,-32.2972,0 1/1:122:0,122:0:0:122:4259:-383.239,-36.7257,0 1/1:158:2,156:2:72:156:5491:-487.283,-40.726,0 1/1:196:0,196:0:0:196:6807:-611.449,-59.0019,0 0/1:245:168,77:168:5951:77:2693:-168.644,0,-461.946 0/1:99:56,43:56:2000:43:1520:-107.246,0,-150.472 0/1:173:89,84:89:3166:84:2855:-205.05,0,-233.087 0/0:156:156,0:156:5550:0:0:0,-46.9607,-499.618 0/1:216:126,90:126:4487:90:3159:-219.056,0,-338.976 0/1:17:7,10:7:252:10:344:-26.1362,0,-17.9114 1/1:10:0,10:0:0:10:351:-31.8359,-3.0103,0 1/1:50:0,50:0:0:50:1764:-158.98,-15.0515,0 0/1:195:128,67:128:4524:67:2353:-153.218,0,-348.625 1/1:221:1,220:1:36:220:7694:-688.385,-62.9294,0 1/1:132:0,132:0:0:132:4611:-414.879,-39.736,0 1/1:74:0,74:0:0:74:2611:-234.562,-22.2762,0 1/1:146:0,146:0:0:146:5065:-455.431,-43.9504,0 0/1:92:52,40:52:1836:40:1375:-96.2321,0,-137.823 0/1:130:45,85:45:1594:85:2919:-223.743,0,-104.615 1/1:89:2,87:2:72:87:3053:-268.103,-19.9694,0 1/1:51:1,50:1:36:50:1719:-151.05,-11.7543,0 chr10 13309559 . AGCA GGCA,GGCG 18758 PASS AB=0.464191,0.533156;ABP=7.20925,6.61022;AC=32,10;AF=0.761905,0.238095;AN=42;AO=583,299;CIGAR=1X3M,1X2M1X;DP=885;DPB=885;DPRA=0.415789,1.83223;EPP=1268.98,652.281;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.55,2.1;MQM=59.9897,59.8997;MQMR=0;NS=21;NUMALT=2;ODDS=0.47846;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20799,10491;QR=0;RO=0;RPL=583,299;RPP=1268.98,652.281;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1268.98,652.281;SAR=583,299;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:29:0,29,0:0:0:29,0:1036,0:-93.5539,-8.72987,0,-93.5539,-8.72987,-93.5539 1/1:16:0,16,0:0:0:16,0:567,0:-51.3607,-4.81648,0,-51.3607,-4.81648,-51.3607 1/1:79:0,79,0:0:0:79,0:2828,0:-254.759,-23.7814,0,-254.759,-23.7814,-254.759 1/1:32:0,32,0:0:0:32,0:1126,0:-101.647,-9.63296,0,-101.647,-9.63296,-101.647 1/2:40:0,15,25:0:0:15,25:540,838:-112.256,-68.1855,-63.6701,-44.4211,0,-36.8953 1/2:27:0,9,18:0:0:9,18:324,642:-79.129,-52.6912,-49.9819,-26.7966,0,-21.378 1/2:31:0,19,12:0:0:19,12:680,421:-90.0687,-34.6125,-28.893,-55.8096,0,-52.1972 2/2:95:0,0,94:0:0:0,94:0,3324:-299.03,-299.03,-299.03,-28.2968,-28.2968,0 1/2:62:0,26,35:0:0:26,35:924,1222:-174.753,-99.454,-91.6272,-75.3585,0,-64.8224 1/2:4:0,2,2:0:0:2,2:72,65:-11.4633,-5.57097,-4.96891,-6.23466,0,-5.6326 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/1:38:0,38,0:0:0:38,0:1356,0:-122.34,-11.4391,0,-122.34,-11.4391,-122.34 1/2:90:0,47,43:0:0:47,43:1680,1523:-261.402,-124.418,-110.27,-137.339,0,-124.394 1/1:45:0,45,0:0:0:45,0:1612,0:-145.37,-13.5464,0,-145.37,-13.5464,-145.37 1/1:47:0,46,0:0:0:46,0:1648,0:-148.327,-13.8474,0,-148.327,-13.8474,-148.327 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:77:0,30,47:0:0:30,47:1072,1657:-222.674,-135.267,-126.237,-87.7616,0,-73.6131 1/2:46:0,27,19:0:0:27,19:959,658:-131.967,-53.8194,-45.6916,-78.4976,0,-72.778 1/1:81:0,77,4:0:0:77,4:2727,141:-245.318,-23.1793,0,-233.837,-11.3464,-232.633 1/1:28:0,28,0:0:0:28,0:1000,0:-90.3154,-8.42884,0,-90.3154,-8.42884,-90.3154 chr10 13504267 . TAG TAAA,TACA 24811.4 PASS AB=0.539884,0.45896;ABP=14.9622,15.6651;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1223,434;CIGAR=1M1I1M1X,2M1I1X;DP=1663;DPB=2215.33;DPRA=2.72167,1.73722;EPP=2658.72,945.429;EPPR=0;GTI=0;LEN=4,4;MEANALT=1.85,2.15385;MQM=29.7105,29.8157;MQMR=0;NS=21;NUMALT=2;ODDS=3.68253;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43290,15400;QR=0;RO=0;RPL=1223,434;RPP=2658.72,945.429;RPPR=0;RPR=0,0;RUN=1,1;SAF=1223,434;SAP=2658.72,945.429;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,77,1:0:0:77,1:2714,36:-197.945,-23.1793,0,-195.634,-20.867,-195.333 1/1:82:0,82,0:0:0:82,0:2921,0:-213.809,-24.6845,0,-213.809,-24.6845,-213.809 1/1:70:0,70,0:0:0:70,0:2477,0:-181.561,-21.0721,0,-181.561,-21.0721,-181.561 1/1:99:0,96,3:0:0:96,3:3409,108:-248.945,-28.8989,0,-242.01,-21.6742,-241.107 1/2:201:0,106,94:0:0:106,94:3747,3327:-456.869,-214.532,-182.623,-242.334,0,-214.037 1/2:92:0,47,45:0:0:47,45:1683,1620:-211.413,-103.64,-89.4915,-108.061,0,-94.5148 1/2:169:0,89,80:0:0:89,80:3155,2857:-389.415,-184.761,-157.969,-204.943,0,-180.861 2/2:30:0,0,30:0:0:0,30:0,1078:-78.7623,-78.7623,-78.7623,-9.0309,-9.0309,0 1/2:182:0,102,80:0:0:102,80:3611,2797:-403.973,-176.731,-146.026,-227.522,0,-203.439 1/2:8:0,3,5:0:0:3,5:106,180:-18.738,-11.8476,-10.9445,-7.17968,0,-5.67453 1/1:4:0,4,0:0:0:4,0:136,0:-10.4489,-1.20412,0,-10.4489,-1.20412,-10.4489 1/1:12:0,12,0:0:0:12,0:418,0:-30.6811,-3.61236,0,-30.6811,-3.61236,-30.6811 1/2:73:0,47,26:0:0:47,26:1663,925:-167.112,-59.9871,-45.8387,-107.413,0,-99.5859 1/1:81:0,79,2:0:0:79,2:2777,72:-203.441,-23.7814,0,-198.818,-18.8682,-198.216 1/1:84:0,82,0:0:0:82,0:2906,0:-212.077,-24.6845,0,-212.077,-24.6845,-212.077 1/1:71:0,71,0:0:0:71,0:2516,0:-177.366,-21.3731,0,-177.366,-21.3731,-177.366 1/1:66:0,66,0:0:0:66,0:2314,0:-165.495,-19.868,0,-165.495,-19.868,-165.495 1/2:84:0,43,41:0:0:43,41:1523,1444:-191.515,-94.0337,-81.0894,-97.7674,0,-85.4252 1/2:56:0,30,26:0:0:30,26:1068,920:-128.966,-59.9918,-50.9609,-69.2625,0,-61.4357 1/1:72:0,71,1:0:0:71,1:2496,36:-183.021,-21.3731,0,-180.709,-18.7714,-180.408 1/1:46:0,46,0:0:0:46,0:1650,0:-119.735,-13.8474,0,-119.735,-13.8474,-119.735 chr10 13976706 . ATC GTC,GTT 39665.8 PASS AB=0.472877,0.525943;ABP=8.42874,7.96781;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1327,524;CIGAR=1X2M,1X1M1X;DP=1858;DPB=1858;DPRA=1.17237,1.18869;EPP=2884.55,1140.86;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.75,2.1;MQM=59.9992,59.9103;MQMR=0;NS=21;NUMALT=2;ODDS=4.16825;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47383,18374;QR=0;RO=0;RPL=0,0;RPP=2884.55,1140.86;RPPR=0;RPR=1327,524;RUN=1,1;SAF=1327,524;SAP=2884.55,1140.86;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,56,0:0:0:56,0:1974,0:-177.931,-16.8577,0,-177.931,-16.8577,-177.931 1/1:30:0,30,0:0:0:30,0:1060,0:-95.7113,-9.0309,0,-95.7113,-9.0309,-95.7113 1/1:18:0,18,0:0:0:18,0:644,0:-58.2906,-5.41854,0,-58.2906,-5.41854,-58.2906 1/1:28:0,28,0:0:0:28,0:996,0:-89.9549,-8.42884,0,-89.9549,-8.42884,-89.9549 1/2:84:0,47,37:0:0:47,37:1673,1283:-240.984,-104.628,-90.4792,-136.707,0,-125.569 1/2:40:0,29,11:0:0:29,11:1010,393:-114.522,-32.3995,-23.6696,-82.4772,0,-79.1658 1/2:61:0,33,28:0:0:33,28:1184,1003:-178.733,-82.1568,-72.2228,-96.9343,0,-88.5055 2/2:76:0,0,76:0:0:0,76:0,2643:-238.115,-238.115,-238.115,-22.8783,-22.8783,0 1/2:55:0,31,24:0:0:31,24:1112,833:-158.766,-68.0586,-58.7266,-91.0594,0,-83.8347 1/2:192:0,103,89:0:0:103,89:3704,3132:-557.513,-255.314,-224.308,-302.554,0,-275.762 1/1:252:0,250,0:0:0:250,0:8926,0:-803.061,-75.2575,0,-803.061,-75.2575,-803.061 1/1:374:0,373,0:0:0:373,0:13369,0:-1202.64,-112.284,0,-1202.64,-112.284,-1202.64 1/2:32:0,12,20:0:0:12,20:432,712:-93.636,-58.3855,-54.7731,-35.6088,0,-29.5882 1/1:34:0,32,0:0:0:32,0:1148,0:-103.378,-9.63296,0,-103.378,-9.63296,-103.378 1/1:25:0,25,0:0:0:25,0:885,0:-79.9665,-7.52575,0,-79.9665,-7.52575,-79.9665 1/1:41:0,38,2:0:0:38,2:1353,72:-121.709,-11.4391,0,-115.834,-5.56431,-115.232 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/2:335:0,114,220:0:0:114,220:4061,7706:-957.992,-626.988,-592.671,-330.999,0,-264.772 1/2:49:0,32,17:0:0:32,17:1144,597:-142.223,-48.9392,-39.3062,-93.6366,0,-88.519 1/1:41:0,41,0:0:0:41,0:1453,0:-131.064,-12.3422,0,-131.064,-12.3422,-131.064 1/1:22:0,22,0:0:0:22,0:787,0:-71.1547,-6.62266,0,-71.1547,-6.62266,-71.1547 chr10 13976726 . G A 8991.56 PASS AB=0.524882;ABP=7.54878;AC=10;AF=0.238095;AN=42;AO=518;CIGAR=1X;DP=1856;DPB=1856;DPRA=1.17603;EPP=1119.16;EPPR=2856.56;GTI=0;LEN=1;MEANALT=1;MQM=59.9286;MQMR=59.991;NS=21;NUMALT=1;ODDS=5.18466;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18254;QR=47501;RO=1338;RPL=1;RPP=1119.16;RPPR=2865.17;RPR=517;RUN=1;SAF=518;SAP=1127.83;SAR=0;SRF=1337;SRP=2899.76;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:56:56,0:56:2004:0:0:0,-16.8577,-180.634 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:82:47,35:47:1680:35:1203:-83.8819,0,-126.803 0/1:40:29,11:29:1025:11:396:-23.9415,0,-80.5195 0/1:63:35,28:35:1241:28:1004:-71.711,0,-93.0276 1/1:72:0,72:0:0:72:2569:-231.458,-21.6742,0 0/1:54:30,24:30:1072:24:851:-60.6521,0,-80.5368 0/1:197:104,93:104:3711:93:3231:-231.704,0,-274.889 0/0:254:254,0:254:8909:0:0:0,-76.4616,-801.795 0/0:375:375,0:375:13294:0:0:0,-112.886,-1196.26 0/1:30:12,18:12:432:18:633:-48.2642,0,-30.1903 0/0:32:32,0:32:1133:0:0:0,-9.63296,-102.277 0/0:27:27,0:27:957:0:0:0,-8.12781,-86.4439 0/0:43:40,3:40:1398:3:108:0,-2.86912,-116.038 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:330:112,218:112:4013:218:7717:-595.216,0,-262.017 0/1:48:32,16:32:1148:16:542:-34.6483,0,-89.1804 0/0:42:42,0:42:1496:0:0:0,-12.6433,-134.935 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 chr10 14163129 . GA GT,TG 110241 PASS AB=0.725126,0.271922;ABP=1047.21,1074.76;AC=33,9;AF=0.785714,0.214286;AN=42;AO=4594,647;CIGAR=1M1X,2X;DP=5256;DPB=5256;DPRA=0,0.999891;EPP=9978.75,1407.95;EPPR=9.52472;GTI=2;LEN=1,2;MEANALT=2,2.27273;MQM=59.8711,59.5147;MQMR=60;NS=21;NUMALT=2;ODDS=8.99939;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=161214,22668;QR=106;RO=3;RPL=4594,647;RPP=9978.75,1407.95;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=9978.75,1407.95;SAR=4594,647;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:366:0,365,0:0:0:365,0:12651,0:-1138.01,-109.876,0,-1138.01,-109.876,-1138.01 1/1:300:0,300,0:0:0:300,0:10589,0:-952.864,-90.309,0,-952.864,-90.309,-952.864 1/1:318:0,317,0:0:0:317,0:11168,0:-1004.62,-95.4265,0,-1004.62,-95.4265,-1004.62 1/1:243:0,242,1:0:0:242,1:8500,36:-764.586,-72.8493,0,-761.648,-69.552,-761.347 1/2:560:0,418,142:0:0:418,142:14694,4988:-1602.01,-406.155,-280.325,-1196.21,0,-1153.46 1/2:255:0,180,75:0:0:180,75:6114,2607:-708.084,-212.251,-158.065,-496.179,0,-473.601 1/2:380:0,275,104:0:0:275,104:9667,3609:-1079.83,-293.277,-210.493,-786.542,0,-755.235 1/2:145:0,56,88:0:0:56,88:1954,3088:-410.218,-251.294,-234.436,-158.914,0,-132.424 1/2:396:1,295,97:1:36:295,97:10440,3433:-1126.58,-276.648,-190.782,-847.318,0,-821.056 1/2:69:0,52,17:0:0:52,17:1832,582:-196.736,-47.5809,-31.9274,-149.5,0,-144.383 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:101:0,100,0:0:0:100,0:3561,0:-320.281,-30.103,0,-320.281,-30.103,-320.281 1/2:190:0,136,54:0:0:136,54:4743,1873:-538.196,-152.455,-111.515,-386.089,0,-369.833 1/1:170:0,169,0:0:0:169,0:5749,0:-517.157,-50.8741,0,-517.157,-50.8741,-517.157 1/1:525:0,525,0:0:0:525,0:18475,0:-1662.34,-158.041,0,-1662.34,-158.041,-1662.34 1/1:231:0,230,0:0:0:230,0:8087,0:-727.477,-69.2369,0,-727.477,-69.2369,-727.477 1/1:138:0,137,1:0:0:137,1:4806,36:-432.334,-41.2411,0,-429.397,-37.9439,-429.096 1/2:217:0,174,43:0:0:174,43:6213,1533:-631.716,-125.309,-72.9294,-506.764,0,-493.82 1/2:160:1,134,25:1:36:134,25:4737,883:-454.359,-68.962,-31.5617,-382.754,0,-378.166 1/1:317:0,317,0:0:0:317,0:11124,0:-1001,-95.4265,0,-1001,-95.4265,-1001 1/1:167:1,164,0:1:34:164,0:5822,0:-520.683,-46.6109,0,-520.984,-49.3689,-523.742 chr10 14603772 . C T 4220.4 PASS AB=0.546632;ABP=10.301;AC=9;AF=0.214286;AN=42;AO=246;CIGAR=1X;DP=834;DPB=834;DPRA=1.62226;EPP=537.193;EPPR=1279.84;GTI=1;LEN=1;MEANALT=1;MQM=59.8659;MQMR=59.9201;NS=21;NUMALT=1;ODDS=2.14103;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8740;QR=21037;RO=588;RPL=246;RPP=537.193;RPPR=1279.84;RPR=0;RUN=1;SAF=0;SAP=537.193;SAR=246;SRF=0;SRP=1279.84;SRR=588;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:31,0:31:1104:0:0:0,-9.33193,-99.6706 0/0:54:53,1:53:1908:1:36:0,-12.6573,-168.399 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:54:54,0:54:1917:0:0:0,-16.2556,-172.805 0/1:67:29,38:29:1040:38:1337:-100.459,0,-73.7454 0/0:24:23,1:23:828:1:36:0,-3.62644,-71.2458 0/1:43:19,24:19:680:24:864:-65.1383,0,-48.5849 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/1:73:23,50:23:816:50:1796:-139.091,0,-50.3315 0/1:14:11,3:11:396:3:104:-5.48839,0,-31.7637 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:33:18,15:18:644:15:506:-35.9239,0,-48.3566 0/0:49:49,0:49:1752:0:0:0,-14.7505,-157.964 0/0:44:44,0:44:1576:0:0:0,-13.2453,-142.132 0/0:31:31,0:31:1116:0:0:0,-9.33193,-100.752 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/1:111:43,68:43:1544:68:2409:-183.651,0,-105.839 0/1:45:32,13:32:1140:13:468:-28.9133,0,-89.3629 0/0:18:18,0:18:636:0:0:0,-5.41854,-57.5676 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 chr10 14779121 . G A 6451.05 PASS AB=0.385177;ABP=112.717;AC=17;AF=0.404762;AN=42;AO=371;CIGAR=1X;DP=1062;DPB=1062;DPRA=1.30979;EPP=109.682;EPPR=1503.5;GTI=0;LEN=1;MEANALT=1;MQM=40.9515;MQMR=46.1563;NS=21;NUMALT=1;ODDS=3.84517;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13202;QR=24627;RO=691;RPL=0;RPP=808.627;RPPR=1503.5;RPR=371;RUN=1;SAF=253;SAP=109.682;SAR=118;SRF=691;SRP=1503.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:32:16,16:16:572:16:568:-35.7055,0,-41.4724 0/1:44:30,14:30:1050:14:504:-32.4528,0,-80.4672 0/1:29:17,12:17:597:12:428:-25.0896,0,-43.8025 0/1:55:29,26:29:1036:26:912:-58.0047,0,-76.497 0/1:80:47,33:47:1632:33:1168:-70.4248,0,-121.977 0/1:22:13,9:13:468:9:316:-22.1562,0,-35.0277 0/1:58:35,23:35:1233:23:812:-55.9412,0,-92.1459 0/1:49:23,26:23:820:26:936:-63.7407,0,-56.5477 0/1:90:49,41:49:1760:41:1468:-94.4219,0,-130.619 0/0:13:12,1:12:428:1:36:0,-0.567243,-33.9037 0/1:5:3,2:3:93:2:72:-5.33157,0,-6.96821 0/0:12:11,1:11:362:1:30:0,-0.757777,-28.3434 0/1:42:24,18:24:860:18:648:-39.087,0,-64.7038 0/1:39:24,15:24:860:15:536:-31.92,0,-65.646 0/1:58:40,18:40:1440:18:644:-34.8246,0,-111.741 0/1:51:30,21:30:1080:21:744:-48.2493,0,-81.4351 0/1:40:26,14:26:932:14:491:-29.6335,0,-71.3362 0/1:163:108,55:108:3884:55:1953:-115.751,0,-284.036 0/1:101:75,26:75:2696:26:936:-45.6257,0,-211.233 0/0:33:33,0:33:1184:0:0:0,-9.93399,-100.791 0/0:46:46,0:46:1640:0:0:0,-13.8474,-146.353 chr10 14779127 . A T 5065.57 PASS AB=0.314374;ABP=292.422;AC=12;AF=0.285714;AN=42;AO=309;CIGAR=1X;DP=1534;DPB=1534;DPRA=1.83716;EPP=154.866;EPPR=75.3998;GTI=0;LEN=1;MEANALT=1.0625;MQM=43.4854;MQMR=44.6266;NS=21;NUMALT=1;ODDS=15.1592;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11065;QR=43683;RO=1224;RPL=0;RPP=673.995;RPPR=2660.89;RPR=309;RUN=1;SAF=228;SAP=154.866;SAR=81;SRF=713;SRP=75.3998;SRR=511;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:72,2:72:2556:2:72:0,-15.9204,-215.506 0/0:51:51,0:51:1828:0:0:0,-15.3525,-159.458 0/1:43:23,20:23:807:20:720:-50.0184,0,-55.457 0/0:83:82,1:82:2935:1:36:0,-21.4828,-250.887 0/0:119:117,1:117:4200:1:36:0,-32.3534,-361.722 0/1:35:26,9:26:932:9:324:-18.3362,0,-66.25 0/1:70:57,13:57:2040:13:468:-20.4758,0,-154.815 0/1:115:88,27:88:3147:27:968:-50.1106,0,-226.444 0/1:114:89,25:89:3163:25:896:-45.9797,0,-238.308 0/1:16:7,9:7:248:9:324:-23.3458,0,-16.7855 0/0:5:5,0:5:180:0:0:0,-1.50515,-15.6949 0/1:31:16,15:16:572:15:540:-37.7343,0,-40.7546 0/0:68:68,0:68:2405:0:0:0,-20.47,-208.962 0/0:68:67,1:67:2384:1:32:0,-17.3114,-206.037 0/1:76:46,30:46:1640:30:1061:-71.8499,0,-117.979 0/1:62:43,19:43:1514:19:676:-41.9423,0,-113.649 0/1:48:32,16:32:1148:16:572:-36.8161,0,-85.531 0/1:205:126,79:126:4497:79:2836:-182.653,0,-320.244 0/1:152:110,42:110:3935:42:1504:-87.9232,0,-297.111 0/0:51:51,0:51:1828:0:0:0,-15.3525,-158.282 0/0:48:48,0:48:1724:0:0:0,-14.4494,-153.784 chr10 14779134 . CTCCT CGCCT,CCCT 41029.7 PASS AB=0.729589,0.26388;ABP=703.965,744.416;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1275,406;CIGAR=1M1X3M,1M1D3M;DP=1691;DPB=1609.8;DPRA=0,1.28536;EPP=10.6556,26.3082;EPPR=0;GTI=2;LEN=1,1;MEANALT=2.28571,2.42105;MQM=46.2761,39.3744;MQMR=0;NS=21;NUMALT=2;ODDS=4.24258;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45014,13597;QR=0;RO=0;RPL=2,0;RPP=2754.29,884.628;RPPR=0;RPR=1273,406;RUN=1,1;SAF=673,236;SAP=11.5957,26.3082;SAR=602,170;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:71:0,56,15:0:0:56,15:1963,504:-195.303,-37.088,-20.2303,-158.529,0,-154.014 1/2:84:0,63,20:0:0:63,20:2260,664:-233.51,-51.9385,-32.9736,-181.55,0,-175.53 1/2:41:0,31,10:0:0:31,10:1090,328:-111.404,-24.2409,-14.9089,-87.4738,0,-84.4635 1/2:78:0,54,23:0:0:54,23:1929,764:-212.595,-56.4672,-40.2116,-156.093,0,-149.169 1/2:115:0,87,28:0:0:87,28:3066,932:-317.038,-69.1452,-42.9556,-248.21,0,-239.782 1/2:71:0,53,18:0:0:53,18:1889,594:-196.57,-45.4072,-29.4526,-151.484,0,-146.066 1/2:123:0,91,32:0:0:91,32:3213,1071:-340.961,-83.9854,-56.5917,-257.306,0,-247.673 1/2:108:0,58,50:0:0:58,50:2054,1655:-285.685,-122.709,-105.249,-163.3,0,-148.249 1/2:135:0,95,39:0:0:95,39:3353,1282:-367.881,-97.739,-69.1411,-270.263,0,-258.523 1/2:17:0,15,2:0:0:15,2:532,69:-47.0049,-5.4259,-0.910454,-41.8991,0,-41.2971 1/2:9:0,4,2:0:0:4,2:144,72:-17.4191,-5.8875,-4.68338,-11.5405,0,-10.9384 1/1:32:0,30,2:0:0:30,2:1061,67:-93.023,-9.0309,0,-88.1392,-3.83973,-87.5372 1/2:67:0,49,18:0:0:49,18:1740,592:-184.675,-43.6985,-28.948,-141.292,0,-135.873 1/2:71:0,55,15:0:0:55,15:1936,512:-194.734,-37.924,-21.3673,-156.778,0,-152.262 1/2:73:0,58,15:0:0:58,15:2065,495:-204.096,-37.1422,-19.6825,-167.27,0,-162.755 1/2:65:0,41,23:0:0:41,23:1457,771:-177.737,-60.0205,-47.6783,-117.697,0,-110.773 1/2:52:0,41,10:0:0:41,10:1452,340:-143.664,-26.5185,-14.1763,-117.17,0,-114.16 1/2:201:0,140,60:0:0:140,60:4899,2059:-538.7,-155.699,-113.555,-383.037,0,-364.975 1/2:150:0,126,24:0:0:126,24:4393,826:-415.381,-61.5281,-23.5983,-354.174,0,-346.949 1/1:51:0,51,0:0:0:51,0:1806,0:-158.547,-15.3525,0,-158.547,-15.3525,-158.547 1/1:77:0,77,0:0:0:77,0:2712,0:-241.017,-23.1793,0,-241.017,-23.1793,-241.017 chr10 14779152 . A G 32439 PASS AB=0.707614;ABP=588.184;AC=24;AF=0.571429;AN=42;AO=1262;CIGAR=1X;DP=1720;DPB=1720;DPRA=0;EPP=447.051;EPPR=946.112;GTI=2;LEN=1;MEANALT=1;MQM=46.2369;MQMR=39.0873;NS=21;NUMALT=1;ODDS=14.0704;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44585;QR=16335;RO=458;RPL=1047;RPP=1194.09;RPPR=15.8305;RPR=215;RUN=1;SAF=670;SAP=13.4788;SAR=592;SRF=249;SRP=10.5962;SRR=209;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:16,53:16:572:53:1873:-145.711,0,-24.7083 0/1:81:22,59:22:784:59:2078:-160.388,0,-42.0319 0/1:44:13,31:13:468:31:1081:-82.3552,0,-22.9306 0/1:84:28,56:28:991:56:1996:-153.675,0,-55.0491 0/1:117:32,85:32:1140:85:2997:-233.064,0,-56.7974 0/1:76:23,53:23:816:53:1867:-142.71,0,-43.2063 0/1:122:34,88:34:1212:88:3113:-238.572,0,-65.0286 0/1:114:58,56:58:2079:56:1987:-140.458,0,-130.964 0/1:138:42,96:42:1512:96:3379:-259.233,0,-82.5635 0/1:17:3,14:3:104:14:500:-38.5607,0,-2.97568 0/1:8:2,6:2:72:6:201:-15.6943,0,-4.42848 1/1:32:1,31:1:36:31:1104:-93.8401,-6.50932,0 0/1:68:19,49:19:672:49:1723:-134.106,0,-33.4581 0/1:73:16,57:16:557:57:2016:-158.872,0,-23.435 0/1:76:19,57:19:680:57:2044:-159.836,0,-31.933 0/1:68:24,44:24:856:44:1580:-120.903,0,-51.459 0/1:56:14,42:14:496:42:1500:-116.518,0,-25.378 0/1:203:65,138:65:2320:138:4820:-356.045,0,-132.265 0/1:149:27,122:27:968:122:4310:-339.842,0,-33.1152 1/1:52:0,52:0:0:52:1851:-160.322,-15.6536,0 1/1:73:0,73:0:0:73:2565:-227.525,-21.9752,0 chr10 15774610 . ATC GTC,GTT 50368.4 PASS AB=0.238988,0.760075;ABP=634.404,629.878;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1244,1155;CIGAR=1X2M,1X1M1X;DP=2402;DPB=2402.67;DPRA=1.79769,1.8456;EPP=2704.32,2511.06;EPPR=5.18177;GTI=5;LEN=1,3;MEANALT=1.55,2;MQM=59.9662,59.51;MQMR=60;NS=21;NUMALT=2;ODDS=4.64103;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=44570,40559;QR=36;RO=1;RPL=1244,1155;RPP=2704.32,2511.06;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2704.32,2511.06;SAR=1244,1155;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,57,0:0:0:57,0:2048,0:-184.592,-17.1587,0,-184.592,-17.1587,-184.592 1/1:51:0,51,0:0:0:51,0:1836,0:-165.512,-15.3525,0,-165.512,-15.3525,-165.512 1/1:58:0,58,0:0:0:58,0:2084,0:-187.83,-17.4597,0,-187.83,-17.4597,-187.83 1/1:45:0,45,0:0:0:45,0:1616,0:-145.73,-13.5464,0,-145.73,-13.5464,-145.73 1/2:80:0,29,51:0:0:29,51:1040,1803:-231.998,-147.17,-138.441,-85.1845,0,-69.832 1/1:34:0,33,1:0:0:33,1:1180,36:-106.149,-9.93399,0,-103.22,-6.64579,-102.919 1/2:107:0,45,62:0:0:45,62:1608,2189:-309.701,-178.593,-165.047,-131.464,0,-112.8 2/2:65:0,0,65:0:0:0,65:0,2259:-203.539,-203.539,-203.539,-19.567,-19.567,0 1/2:81:0,38,43:0:0:38,43:1364,1532:-236.487,-125.228,-113.789,-111.617,0,-98.6727 2/2:290:0,13,277:0:0:13,277:464,9663:-868.886,-831.058,-827.145,-83.3853,-45.2012,0 1/1:139:1,138,0:1:36:138,0:4964,0:-443.306,-38.2449,0,-443.607,-41.5421,-446.544 1/1:239:0,238,0:0:0:238,0:8509,0:-765.39,-71.6451,0,-765.39,-71.6451,-765.39 1/2:31:0,16,15:0:0:16,15:576,515:-89.0586,-42.0533,-37.2368,-47.3021,0,-42.7866 1/1:58:0,58,0:0:0:58,0:2072,0:-186.751,-17.4597,0,-186.751,-17.4597,-186.751 1/1:98:0,98,0:0:0:98,0:3524,0:-317.368,-29.5009,0,-317.368,-29.5009,-317.368 1/1:46:0,46,0:0:0:46,0:1644,0:-148.249,-13.8474,0,-148.249,-13.8474,-148.249 1/1:52:0,52,0:0:0:52,0:1838,0:-165.697,-15.6536,0,-165.697,-15.6536,-165.697 1/2:705:0,86,618:0:0:86,618:3084,21738:-2020.54,-1769,-1743.11,-251.539,0,-65.5022 1/2:63:0,41,22:0:0:41,22:1472,788:-184.678,-64.6023,-52.2601,-120.434,0,-113.811 1/1:49:0,48,1:0:0:48,1:1703,36:-153.195,-14.4494,0,-150.258,-11.1522,-149.957 1/1:54:0,54,0:0:0:54,0:1944,0:-175.18,-16.2556,0,-175.18,-16.2556,-175.18 chr10 15809886 . T A 773.491 PASS AB=0.157828;ABP=808.44;AC=9;AF=0.214286;AN=42;AO=152;CIGAR=1X;DP=2140;DPB=2140;DPRA=1.09297;EPP=333.074;EPPR=4315.55;GTI=4;LEN=1;MEANALT=1.11111;MQM=60;MQMR=59.9204;NS=21;NUMALT=1;ODDS=6.45502;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5414;QR=71001;RO=1986;RPL=6;RPP=283.016;RPPR=2496.05;RPR=146;RUN=1;SAF=146;SAP=283.016;SAR=6;SRF=238;SRP=2496.05;SRR=1748;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:145:143,2:143:5098:2:72:0,-36.8126,-452.125 0/0:91:91,0:91:3260:0:0:0,-27.3937,-293.612 0/0:105:104,0:104:3732:0:0:0,-31.3071,-335.72 0/0:124:124,0:124:4433:0:0:0,-37.3277,-399.138 0/1:164:138,26:138:4925:26:932:-34.8299,0,-394.031 0/0:110:110,0:110:3925:0:0:0,-33.1133,-353.432 0/1:134:118,16:118:4248:16:576:-11.837,0,-342.158 1/1:27:2,25:2:72:25:877:-72.4085,-1.29109,0 0/1:152:128,24:128:4596:24:852:-31.2438,0,-368.04 0/1:15:7,8:7:248:8:288:-21.752,0,-18.1487 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/1:88:64,24:64:2285:24:860:-51.2312,0,-179.419 0/0:125:125,0:125:4496:0:0:0,-37.6287,-404.806 0/0:189:189,0:189:6757:0:0:0,-56.8947,-608.175 0/0:126:126,0:126:4528:0:0:0,-37.9298,-407.681 0/0:92:92,0:92:3274:0:0:0,-27.6948,-293.344 0/1:190:168,21:168:5919:21:741:-9.75742,0,-475.505 0/1:49:43,6:43:1540:6:216:-5.04004,0,-124.143 0/0:104:104,0:104:3728:0:0:0,-31.3071,-335.721 0/0:61:61,0:61:2181:0:0:0,-18.3628,-196.554 chr10 15953534 . A T 2528.34 PASS AB=0.37037;ABP=105.472;AC=17;AF=0.404762;AN=42;AO=260;CIGAR=1X;DP=764;DPB=764;DPRA=2.66414;EPP=567.593;EPPR=1097.43;GTI=3;LEN=1;MEANALT=1;MQM=37.4154;MQMR=41.7698;NS=21;NUMALT=1;ODDS=0.547452;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9322;QR=18093;RO=504;RPL=260;RPP=567.593;RPPR=1088.76;RPR=0;RUN=1;SAF=260;SAP=567.593;SAR=0;SRF=503;SRP=1088.76;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:20:20,0:20:720:0:0:0,-6.0206,-63.8041 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7528 0/1:26:18,8:18:640:8:288:-9.36533,0,-49.6064 0/1:29:16,13:16:576:13:462:-17.0274,0,-43.2533 0/1:24:14,10:14:504:10:356:-12.6198,0,-28.512 0/0:28:28,0:28:1008:0:0:0,-8.42884,-90.1198 0/1:42:26,16:26:936:16:576:-38.9567,0,-53.1534 0/1:38:29,9:29:1040:9:324:-17.7415,0,-61.7713 0/1:61:32,29:32:1152:29:1036:-38.5207,0,-72.4201 0/1:149:89,60:89:3196:60:2148:-146.652,0,-202.445 0/1:102:66,36:66:2372:36:1294:-84.0834,0,-180.34 0/1:54:32,22:32:1137:22:790:-54.3596,0,-85.0378 0/1:39:27,12:27:968:12:432:-12.0562,0,-56.5028 0/1:31:21,10:21:756:10:360:-10.5347,0,-58.5896 0/1:16:9,7:9:324:7:252:-9.15568,0,-24.5927 0/1:12:10,2:10:360:2:72:-0.352151,0,-29.0336 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.1036 0/1:55:39,16:39:1400:16:572:-33.4564,0,-79.7517 0/1:11:9,2:9:324:2:72:-0.836656,0,-19.6288 0/1:8:2,6:2:68:6:216:-17.1642,0,-4.03742 0/1:5:3,2:3:108:2:72:-5.25622,0,-8.23404 chr10 15953642 . C T 4828.5 PASS AB=0.458795;ABP=15.0001;AC=20;AF=0.47619;AN=42;AO=376;CIGAR=1X;DP=852;DPB=852;DPRA=0;EPP=819.484;EPPR=1036.63;GTI=1;LEN=1;MEANALT=1;MQM=43.9761;MQMR=50.8803;NS=21;NUMALT=1;ODDS=0.0995009;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13407;QR=16921;RO=476;RPL=1;RPP=810.821;RPPR=160.834;RPR=375;RUN=1;SAF=1;SAP=810.821;SAR=375;SRF=331;SRP=160.834;SRR=145;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:24:9,15:9:320:15:528:-32.5706,0,-21.2839 0/1:19:11,8:11:368:8:288:-15.3186,0,-24.8781 0/1:69:34,35:34:1204:35:1252:-70.819,0,-77.6068 0/1:63:40,23:40:1417:23:820:-40.7526,0,-101.293 0/1:58:19,39:19:680:39:1366:-103.78,0,-42.6081 0/1:14:6,8:6:212:8:288:-16.8238,0,-14.2326 0/1:48:9,39:9:324:39:1392:-101.957,0,-10.3041 0/1:34:8,26:8:288:26:932:-73.8909,0,-15.8686 0/1:74:40,34:40:1432:34:1212:-81.9847,0,-100.187 0/1:73:62,11:62:2208:11:387:-11.7647,0,-171.21 0/0:39:36,3:36:1266:3:108:0,-3.61243,-104.76 0/1:35:30,5:30:1072:5:167:-2.36223,0,-83.8844 0/1:85:37,48:37:1328:48:1720:-120.705,0,-91.6709 0/1:55:33,22:33:1180:22:792:-41.0577,0,-84.5224 0/1:16:6,10:6:216:10:360:-21.5987,0,-14.9669 0/1:14:6,8:6:207:8:288:-17.9452,0,-13.7547 0/1:15:11,4:11:388:4:140:-5.78655,0,-29.2563 0/1:56:37,19:37:1320:19:684:-44.403,0,-95.7435 0/1:17:9,8:9:315:8:288:-20.5129,0,-22.9192 0/1:33:24,9:24:852:9:324:-13.8687,0,-66.0582 0/1:11:9,2:9:324:2:71:-2.43516,0,-23.3283 chr10 15953663 . C T 2960.94 PASS AB=0.34273;ABP=147.809;AC=16;AF=0.380952;AN=42;AO=239;CIGAR=1X;DP=852;DPB=852;DPRA=1.654;EPP=521.992;EPPR=1331.95;GTI=2;LEN=1;MEANALT=1.05;MQM=53.7782;MQMR=45.7582;NS=21;NUMALT=1;ODDS=0.872768;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8453;QR=21684;RO=612;RPL=239;RPP=521.992;RPPR=665.182;RPR=0;RUN=1;SAF=239;SAP=521.992;SAR=0;SRF=90;SRP=665.182;SRR=522;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:25,0:25:896:0:0:0,-7.52575,-72.157 0/0:21:20,1:20:716:1:36:0,-2.7324,-53.4553 0/0:70:66,4:66:2307:4:144:0,-7.76808,-165.366 0/1:64:53,11:53:1885:11:396:-16.6909,0,-128.784 0/1:58:44,14:44:1572:14:487:-26.5024,0,-121.112 0/1:13:10,3:10:360:3:108:-6.13645,0,-23.4545 0/0:48:46,2:46:1631:2:72:0,-7.62991,-128.524 0/1:33:26,7:26:936:7:252:-12.9355,0,-74.6224 0/1:76:61,15:61:2165:15:521:-24.2642,0,-160.698 0/1:72:22,49:22:775:49:1734:-134.24,0,-43.6418 0/1:39:10,29:10:356:29:1027:-80.5919,0,-18.0547 0/1:33:27,6:27:934:6:216:-9.82846,0,-69.6631 0/1:85:61,24:61:2183:24:844:-50.5301,0,-160.584 0/1:56:43,13:43:1503:13:468:-25.5713,0,-100.659 0/1:16:13,3:13:453:3:108:-5.25142,0,-30.555 0/0:14:13,1:13:468:1:32:0,-1.01551,-34.1875 0/1:14:11,3:11:396:3:104:-5.48613,0,-27.3398 0/1:54:28,26:28:992:26:904:-65.1517,0,-66.8617 0/1:17:9,8:9:324:8:280:-20.4057,0,-23.1186 0/1:33:17,16:17:584:16:576:-42.167,0,-38.2698 0/1:11:7,4:7:248:4:144:-9.59733,0,-16.1793 chr10 16169736 . TCG CCA,TCA 24887.9 PASS AB=0.471572,0.526756;ABP=7.208,6.72867;AC=33,9;AF=0.785714,0.214286;AN=42;AO=977,394;CIGAR=1X1M1X,2M1X;DP=1372;DPB=1372;DPRA=0.889726,1.50343;EPP=2124.54,858.57;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.55,2;MQM=32.217,59.7741;MQMR=0;NS=21;NUMALT=2;ODDS=3.26333;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34764,14082;QR=0;RO=0;RPL=0,0;RPP=2124.54,858.57;RPPR=0;RPR=977,394;RUN=1,1;SAF=977,394;SAP=2124.54,858.57;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68,0:0:0:68,0:2427,0:-185.71,-20.47,0,-185.71,-20.47,-185.71 1/1:50:0,50,0:0:0:50,0:1787,0:-138.9,-15.0515,0,-138.9,-15.0515,-138.9 1/1:47:0,46,1:0:0:46,1:1640,36:-126.117,-13.8474,0,-123.179,-10.5501,-122.878 1/1:91:0,91,0:0:0:91,0:3197,0:-245.343,-27.3937,0,-245.343,-27.3937,-245.343 1/2:144:0,65,79:0:0:65,79:2319,2827:-388.384,-230.873,-211.306,-157.839,0,-134.057 1/1:78:0,75,3:0:0:75,3:2674,108:-210.247,-22.5773,0,-201.433,-13.4052,-200.53 1/2:115:0,50,65:0:0:50,65:1776,2317:-312.698,-188.738,-173.686,-124.289,0,-104.722 2/2:73:0,0,73:0:0:0,73:0,2605:-234.695,-234.695,-234.695,-21.9752,-21.9752,0 1/2:136:0,48,87:0:0:48,87:1720,3118:-369.655,-254.265,-239.815,-115.353,0,-89.1631 1/2:6:0,3,3:0:0:3,3:108,93:-15.1156,-7.77364,-6.87055,-7.64962,0,-6.74653 1/1:7:0,7,0:0:0:7,0:252,0:-20.2938,-2.10721,0,-20.2938,-2.10721,-20.2938 1/1:23:0,23,0:0:0:23,0:818,0:-63.3593,-6.92369,0,-63.3593,-6.92369,-63.3593 1/2:78:0,37,41:0:0:37,41:1323,1472:-210.214,-120.433,-109.295,-90.1105,0,-77.7683 1/1:48:0,48,0:0:0:48,0:1710,0:-129.172,-14.4494,0,-129.172,-14.4494,-129.172 1/1:90:0,90,0:0:0:90,0:3206,0:-246.393,-27.0927,0,-246.393,-27.0927,-246.393 1/1:50:0,50,0:0:0:50,0:1788,0:-137.821,-15.0515,0,-137.821,-15.0515,-137.821 1/1:40:0,40,0:0:0:40,0:1407,0:-107.867,-12.0412,0,-107.867,-12.0412,-107.867 1/2:71:0,46,25:0:0:46,25:1642,894:-186.901,-73.2531,-59.4057,-113.988,0,-106.462 1/2:48:0,33,15:0:0:33,15:1184,540:-123.365,-44.4211,-34.4871,-79.2847,0,-74.7692 1/1:59:0,57,2:0:0:57,2:2025,72:-155.404,-17.1587,0,-149.527,-10.924,-148.925 1/1:50:0,50,0:0:0:50,0:1761,0:-138.481,-15.0515,0,-138.481,-15.0515,-138.481 chr10 16169750 . C T 15759.7 PASS AB=0.47395;ABP=6.5175;AC=33;AF=0.785714;AN=42;AO=971;CIGAR=1X;DP=1364;DPB=1364;DPRA=0.884247;EPP=2111.51;EPPR=854.227;GTI=1;LEN=1;MEANALT=1.05;MQM=32.2472;MQMR=59.7781;NS=21;NUMALT=1;ODDS=3.23724;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34700;QR=14023;RO=392;RPL=0;RPP=2111.51;RPPR=854.227;RPR=971;RUN=1;SAF=971;SAP=2111.51;SAR=0;SRF=392;SRP=854.227;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2408:-183.688,-20.169,0 1/1:50:0,50:0:0:50:1779:-138.412,-15.0515,0 1/1:45:1,44:1:36:44:1576:-117.903,-9.94808,0 1/1:92:0,92:0:0:92:3280:-250.331,-27.6948,0 0/1:142:77,65:77:2764:65:2321:-134.971,0,-206.24 1/1:79:3,75:3:108:75:2666:-199.895,-13.7294,0 0/1:111:63,48:63:2235:48:1710:-100.59,0,-167.515 0/0:73:73,0:73:2616:0:0:0,-21.9752,-235.688 0/1:136:88,48:88:3160:48:1724:-89.5848,0,-243.575 0/1:6:3,3:3:108:3:108:-6.74653,0,-8.26899 1/1:7:0,7:0:0:7:244:-19.8405,-2.10721,0 1/1:23:0,23:0:0:23:828:-63.9288,-6.92369,0 0/1:77:41,36:41:1468:36:1288:-75.0436,0,-109.236 1/1:50:0,50:0:0:50:1773:-134.665,-15.0515,0 1/1:87:0,87:0:0:87:3112:-239.018,-26.1896,0 1/1:49:0,49:0:0:49:1752:-135.013,-14.7505,0 1/1:40:0,40:0:0:40:1428:-108.518,-12.0412,0 0/1:73:25,48:25:896:48:1720:-112.32,0,-58.9843 0/1:50:16,34:16:560:34:1224:-77.3005,0,-35.6771 1/1:58:2,56:2:72:56:1999:-146.877,-10.623,0 1/1:49:0,49:0:0:49:1760:-137.441,-14.7505,0 chr10 16169756 . T C 16105.5 PASS AB=0.465157;ABP=9.06318;AC=33;AF=0.785714;AN=42;AO=944;CIGAR=1X;DP=1326;DPB=1326;DPRA=0.925;EPP=1849.72;EPPR=741.431;GTI=1;LEN=1;MEANALT=1.15;MQM=32.2426;MQMR=59.7995;NS=21;NUMALT=1;ODDS=1.87291;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33333;QR=13570;RO=379;RPL=24;RPP=1849.72;RPPR=741.431;RPR=920;RUN=1;SAF=944;SAP=2052.88;SAR=0;SRF=379;SRP=825.998;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:0,65:0:0:65:2298:-176.748,-19.567,0 1/1:48:0,48:0:0:48:1679:-131.753,-14.4494,0 1/1:45:1,44:1:36:44:1554:-116.653,-9.94808,0 1/1:91:0,90:0:0:90:3194:-244.018,-27.0927,0 0/1:132:74,58:74:2660:58:2055:-118.298,0,-199.895 1/1:77:3,74:3:108:74:2610:-196.699,-13.1041,0 0/1:109:63,46:63:2251:46:1627:-95.6699,0,-169.984 0/0:68:68,0:68:2427:0:0:0,-20.47,-218.682 0/1:132:85,47:85:3048:47:1667:-87.1918,0,-234.705 0/1:4:1,2:1:36:2:72:-4.59508,0,-2.36254 1/1:7:0,7:0:0:7:252:-20.2938,-2.10721,0 1/1:21:0,21:0:0:21:721:-56.6427,-6.32163,0 0/1:75:40,35:40:1432:35:1231:-72.1314,0,-106.6 1/1:49:0,49:0:0:49:1733:-131.775,-14.7505,0 1/1:88:0,88:0:0:88:3078:-238.578,-26.4906,0 1/1:49:0,49:0:0:49:1756:-135.153,-14.7505,0 1/1:38:0,38:0:0:38:1356:-102.92,-11.4391,0 0/1:72:25,46:25:896:46:1627:-105.347,0,-59.2209 0/1:50:17,33:17:608:33:1150:-73.1167,0,-40.0001 1/1:58:2,56:2:68:56:1987:-146.773,-11.002,0 1/1:48:0,48:0:0:48:1686:-132.763,-14.4494,0 chr10 16171089 . A G 10767.6 PASS AB=0.450893;ABP=26.47;AC=10;AF=0.238095;AN=42;AO=626;CIGAR=1X;DP=2919;DPB=2919;DPRA=1.36726;EPP=1362.35;EPPR=4925.87;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.9888;MQMR=59.983;NS=21;NUMALT=1;ODDS=6.87193;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22250;QR=82178;RO=2291;RPL=0;RPP=1362.35;RPPR=4925.87;RPR=626;RUN=1;SAF=626;SAP=1362.35;SAR=0;SRF=2291;SRP=4977.85;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:179:179,0:179:6436:0:0:0,-53.8844,-579.323 0/0:80:80,0:80:2849:0:0:0,-24.0824,-256.647 0/0:232:232,0:232:8306:0:0:0,-69.839,-747.544 0/0:118:117,1:117:4196:1:36:0,-31.9233,-374.222 0/1:223:114,109:114:4096:109:3863:-280.734,0,-301.694 0/0:93:93,0:93:3333:0:0:0,-27.9958,-300.185 0/1:149:65,84:65:2325:84:2978:-223.397,0,-164.655 1/1:118:0,118:0:0:118:4209:-378.982,-35.5215,0 0/1:305:187,118:187:6686:118:4172:-283.845,0,-510 0/1:32:19,13:19:684:13:464:-32.4645,0,-52.2574 0/1:11:9,2:9:324:2:57:-2.10198,0,-26.1945 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/1:87:50,37:50:1800:37:1324:-93.2725,0,-136.093 0/0:123:123,0:123:4405:0:0:0,-37.0267,-396.62 0/0:415:412,1:412:14820:1:36:0,-121.087,-1328.74 0/0:114:113,1:113:4056:1:36:0,-30.7191,-361.628 0/0:75:75,0:75:2696:0:0:0,-22.5772,-242.884 0/1:210:108,102:108:3854:102:3643:-264.857,0,-283.837 0/1:103:63,40:63:2264:40:1432:-98.1715,0,-173.016 0/0:132:132,0:132:4736:0:0:0,-39.736,-426.397 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.645 chr10 16500735 . TACCCA GAACTG,TAACCG 12254.7 PASS AB=0.615987,0.374608;ABP=77.5619,90.1415;AC=22,20;AF=0.52381,0.47619;AN=42;AO=426,251;CIGAR=1X1M1X1M2X,2M1X2M1X;DP=683;DPB=683;DPRA=2.79583,2.07337;EPP=928.058,548.05;EPPR=0;GTI=3;LEN=6,6;MEANALT=2.15,2.21053;MQM=38.7887,51.2032;MQMR=0;NS=21;NUMALT=2;ODDS=4.29536;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=14868,8636;QR=0;RO=0;RPL=426,251;RPP=928.058,548.05;RPPR=0;RPR=0,0;RUN=1,1;SAF=426,251;SAP=928.058,548.05;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:33:0,20,13:0:0:20,13:715,435:-90.6571,-35.3714,-29.3508,-55.6216,0,-51.7082 1/2:16:0,12,4:0:0:12,4:423,136:-44.0871,-11.3475,-7.73516,-33.0781,0,-31.874 1/2:26:0,18,8:0:0:18,8:641,288:-73.3662,-23.7875,-18.3689,-49.9316,0,-47.5234 1/2:30:0,17,13:0:0:17,13:587,454:-82.6603,-37.1356,-32.0181,-45.8653,0,-41.9519 1/2:62:0,47,15:0:0:47,15:1605,505:-165.07,-41.1181,-26.9697,-124.285,0,-119.77 1/2:34:0,18,16:0:0:18,16:638,565:-95.3421,-45.9766,-40.5581,-49.7101,0,-44.8937 1/2:33:0,28,5:0:0:28,5:966,166:-88.5306,-13.7357,-5.30689,-75.126,0,-73.6209 2/2:12:0,0,12:0:0:0,12:0,403:-36.5229,-36.5229,-36.5229,-3.61236,-3.61236,0 1/2:71:0,23,47:0:0:23,47:799,1614:-192.209,-130.384,-123.46,-61.8184,0,-47.67 1/2:13:0,6,7:0:0:6,7:212,248:-36.8223,-20.4201,-18.6139,-16.7463,0,-14.6391 1/2:15:0,8,6:0:0:8,6:268,209:-37.7067,-16.9442,-14.536,-20.7433,0,-18.9371 1/2:10:0,7,3:0:0:7,3:241,108:-27.8072,-9.14675,-7.03954,-19.0107,0,-18.1076 1/2:43:0,25,15:0:0:25,15:876,531:-111.074,-43.176,-35.6502,-67.9245,0,-63.4091 1/2:41:0,36,5:0:0:36,5:1253,179:-111.361,-14.9153,-4.07824,-96.7995,0,-95.2944 1/2:44:0,33,11:0:0:33,11:1152,374:-119.853,-30.6003,-20.6663,-89.5902,0,-86.2788 1/2:33:0,21,12:0:0:21,12:730,406:-89.7201,-33.1818,-26.8601,-56.8741,0,-53.2618 1/2:19:0,15,4:0:0:15,4:522,140:-51.9462,-11.712,-7.19654,-40.5796,0,-39.3755 1/2:92:0,51,41:0:0:51,41:1808,1390:-252.312,-112.572,-97.2194,-140.077,0,-127.735 1/2:23:0,8,14:0:0:8,14:269,485:-60.0521,-39.3575,-36.9493,-20.7102,0,-16.4958 1/1:19:0,19,0:0:0:19,0:671,0:-57.7979,-5.71957,0,-57.7979,-5.71957,-57.7979 1/1:14:0,14,0:0:0:14,0:492,0:-42.0443,-4.21442,0,-42.0443,-4.21442,-42.0443 chr10 17032297 . C T 28180.7 PASS AB=0.508;ABP=3.42722;AC=32;AF=0.761905;AN=42;AO=1333;CIGAR=1X;DP=1787;DPB=1787;DPRA=1.11039;EPP=2897.58;EPPR=986.687;GTI=0;LEN=1;MEANALT=1.05;MQM=59.4464;MQMR=59.8852;NS=21;NUMALT=1;ODDS=4.19485;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47589;QR=16168;RO=453;RPL=1333;RPP=2897.58;RPPR=978.021;RPR=0;RUN=1;SAF=1333;SAP=2897.58;SAR=0;SRF=452;SRP=978.021;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:180:6,174:6:216:174:6207:-538.692,-34.3949,0 1/1:80:0,80:0:0:80:2836:-255.395,-24.0824,0 1/1:77:0,77:0:0:77:2759:-248.47,-23.1793,0 1/1:78:0,78:0:0:78:2780:-250.43,-23.4803,0 0/1:207:98,109:98:3495:109:3905:-289.271,0,-252.319 0/1:84:39,44:39:1389:44:1576:-116.716,0,-99.9617 0/1:125:54,71:54:1940:71:2543:-191.396,0,-137.247 0/0:77:77,0:77:2759:0:0:0,-23.1793,-248.551 0/1:144:84,60:84:3003:60:2131:-148.637,0,-227.077 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 1/1:6:0,6:0:0:6:216:-19.7726,-1.80618,0 1/1:17:0,17:0:0:17:608:-55.0428,-5.11751,0 0/1:78:38,40:38:1368:40:1423:-104.877,0,-99.9405 1/1:78:0,78:0:0:78:2764:-248.946,-23.4803,0 1/1:161:1,160:1:36:160:5736:-512.523,-44.8676,0 1/1:88:0,88:0:0:88:3156:-284.261,-26.4906,0 1/1:66:0,66:0:0:66:2340:-210.855,-19.868,0 0/1:53:36,17:36:1246:17:612:-39.4588,0,-96.4829 0/1:55:16,39:16:572:39:1387:-108.561,0,-35.2568 1/1:92:1,91:1:36:91:3246:-288.737,-24.0965,0 1/1:37:0,37:0:0:37:1328:-119.787,-11.1381,0 chr10 17402082 . C T 16125.5 PASS AB=0.539858;ABP=20.4935;AC=25;AF=0.595238;AN=42;AO=878;CIGAR=1X;DP=1463;DPB=1463;DPRA=0;EPP=1909.56;EPPR=1273.32;GTI=0;LEN=1;MEANALT=1;MQM=59.8815;MQMR=59.3863;NS=21;NUMALT=1;ODDS=3.2958;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31241;QR=20932;RO=585;RPL=0;RPP=1909.56;RPPR=1273.32;RPR=878;RUN=1;SAF=878;SAP=1909.56;SAR=0;SRF=585;SRP=1273.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:25,35:25:896:35:1241:-93.9277,0,-60.9032 0/1:77:37,40:37:1328:40:1432:-105.998,0,-96.6429 0/1:25:13,12:13:464:12:417:-30.3349,0,-34.5718 0/1:46:23,23:23:812:23:824:-60.6344,0,-59.5535 0/1:151:94,57:94:3349:57:2035:-137.963,0,-254.738 0/1:72:31,41:31:1103:41:1434:-107.669,0,-77.9056 0/1:135:45,90:45:1616:90:3204:-247.624,0,-104.498 0/1:77:57,20:57:2044:20:705:-40.5935,0,-161.052 0/1:118:28,90:28:1008:90:3224:-254.861,0,-55.5148 0/1:19:3,16:3:108:16:576:-46.4554,0,-4.3556 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 0/1:129:30,99:30:1080:99:3512:-277.371,0,-58.6804 1/1:55:1,54:1:36:54:1902:-167.856,-12.9584,0 0/1:81:42,39:42:1512:39:1400:-101.916,0,-109.646 0/1:28:15,13:15:536:13:460:-33.3065,0,-40.146 0/1:16:5,11:5:180:11:396:-31.1663,0,-11.7356 0/1:93:57,36:57:2040:36:1250:-84.7975,0,-154.665 0/1:133:75,58:75:2676:58:2076:-147.073,0,-198.884 1/1:62:1,61:1:36:61:2173:-192.236,-15.0656,0 1/1:54:0,54:0:0:54:1936:-174.516,-16.2556,0 chr10 17402092 . GC TT,GT 39897.1 PASS AB=0.507639,0.317425;ABP=4.03878,524.747;AC=24,12;AF=0.571429,0.285714;AN=42;AO=1289,576;CIGAR=2X,1M1X;DP=2293;DPB=2293.5;DPRA=0,1.59403;EPP=412.455,23.6544;EPPR=56.0432;GTI=0;LEN=2,1;MEANALT=1.85714,2.05882;MQM=59.8844,59.9635;MQMR=59.0986;NS=21;NUMALT=2;ODDS=0.627208;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=44516,20321;QR=14915;RO=426;RPL=0,1;RPP=2802.04,1245.11;RPPR=919.392;RPR=1289,575;RUN=1,1;SAF=891,326;SAP=412.455,24.7853;SAR=398,250;SRF=265;SRP=58.1433;SRR=161;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:108:3,56,49:3:97:56,49:1922,1734:-289.739,-134.603,-124.449,-149.398,0,-141.352 1/2:91:0,41,50:0:0:41,50:1440,1769:-261.633,-144.435,-132.093,-117.55,0,-102.499 1/2:42:1,22,19:1:36:22,19:764,663:-112.782,-50.9766,-47.292,-59.157,0,-56.3754 1/2:107:0,55,52:0:0:55,52:1885,1814:-300.9,-147.882,-131.326,-153.364,0,-137.71 0/1:259:87,97,75:87:3059:97,75:3355,2668:-246.424,0,-218.279,-55.1757,-30.0427,-280.082 1/2:104:1,42,61:1:36:42,61:1403,2158:-286.092,-172.826,-163.12,-110.612,0,-95.1869 0/1:179:88,90,1:88:3082:90,1:3138,36:-228.614,0,-223.067,-252.167,-247.222,-502.037 0/2:129:55,36,38:55:1895:36,38:1235,1335:-92.1064,-8.40118,-151.479,0,-53.6547,-142.481 0/1:200:47,153,0:47:1680:153,0:5355,0:-421.883,0,-91.2709,-436.031,-137.328,-573.004 0/1:27:5,22,0:5:178:22,0:775,0:-61.9433,0,-8.24084,-63.4484,-14.8635,-77.9568 1/2:10:0,4,6:0:0:4,6:133,216:-28.7344,-17.9843,-16.7802,-11.0935,0,-9.28729 1/1:37:0,37,0:0:0:37,0:1260,0:-113.693,-11.1381,0,-113.693,-11.1381,-113.693 0/1:204:50,153,1:50:1724:153,1:5340,20:-419.349,0,-94.0693,-432.902,-138.631,-572.644 1/1:64:0,63,1:0:0:63,1:2211,36:-198.894,-18.9649,0,-195.956,-15.6676,-195.655 1/2:141:1,76,64:1:25:76,64:2606,2275:-396.315,-185.06,-162.766,-211.219,0,-192.538 1/2:45:0,18,27:0:0:18,27:607,960:-127.771,-78.5885,-73.1699,-49.5267,0,-41.3988 1/2:35:1,21,13:1:36:21,13:732,453:-93.1174,-33.889,-30.5056,-56.5805,0,-55.6051 1/2:156:46,55,53:46:1609:55,53:1884,1828:-157.255,-18.1842,-131.94,-22.6025,0,-136.962 1/2:192:40,89,63:40:1422:89,63:2949,2248:-296.012,-69.5509,-156.475,-124.781,0,-219.54 1/1:105:1,104,0:1:36:104,0:3583,0:-319.078,-28.0099,0,-319.379,-31.3071,-322.317 1/1:58:0,55,3:0:0:55,3:1939,108:-174.424,-16.5567,0,-165.612,-7.38457,-164.709 chr10 17402127 . TGGCA TGCA 6423.4 PASS AB=0.27409;ABP=624.056;AC=8;AF=0.190476;AN=42;AO=388;CIGAR=1M1D3M;DP=2479;DPB=2401.4;DPRA=1.98018;EPP=48.3426;EPPR=151.176;GTI=0;LEN=1;MEANALT=1.41667;MQM=59.9768;MQMR=59.7772;NS=21;NUMALT=1;ODDS=2.57418;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13583;QR=72296;RO=2083;RPL=388;RPP=845.542;RPPR=4517.51;RPR=0;RUN=1;SAF=239;SAP=48.3426;SAR=149;SRF=1229;SRP=149.608;SRR=854;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:114:113,1:113:3930:1:36:0,-30.7191,-348.779 0/0:118:117,0:117:4091:0:0:0,-35.2205,-368.019 0/0:42:42,0:42:1461:0:0:0,-12.6433,-131.784 0/0:115:115,0:115:3978:0:0:0,-34.6184,-358.216 0/1:262:186,76:186:6408:76:2672:-161.853,0,-497.403 0/0:136:135,1:135:4653:1:36:0,-37.3418,-415.344 0/1:235:151,83:151:5251:83:2902:-190.664,0,-401.128 0/1:131:77,54:77:2695:54:1870:-129.14,0,-203.363 0/1:196:154,41:154:5383:41:1430:-69.935,0,-425.556 0/1:27:22,5:22:758:5:172:-7.69016,0,-60.4094 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3815 0/0:37:37,0:37:1291:0:0:0,-11.1381,-116.491 0/1:201:152,47:152:5270:47:1646:-88.1817,0,-414.158 0/0:66:66,0:66:2286:0:0:0,-19.868,-206.003 0/0:145:144,0:144:5012:0:0:0,-43.3483,-449.434 0/0:48:48,0:48:1694:0:0:0,-14.4494,-152.747 0/0:38:37,1:37:1290:1:36:0,-7.84086,-112.802 0/1:156:113,42:113:3909:42:1476:-86.1124,0,-304.334 0/1:193:156,36:156:5332:36:1271:-56.5347,0,-420.217 0/0:109:108,1:108:3759:1:36:0,-29.214,-334.918 0/0:100:100,0:100:3489:0:0:0,-30.103,-314.228 chr10 17403896 . A G 23728.7 PASS AB=0.378015;ABP=560.333;AC=22;AF=0.52381;AN=42;AO=1642;CIGAR=1X;DP=4325;DPB=4325;DPRA=0;EPP=3568.57;EPPR=5811.7;GTI=1;LEN=1;MEANALT=1.19048;MQM=55.19;MQMR=47.2172;NS=21;NUMALT=1;ODDS=1.4221;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58472;QR=95598;RO=2679;RPL=0;RPP=3568.57;RPPR=5811.7;RPR=1642;RUN=1;SAF=1642;SAP=3568.57;SAR=0;SRF=2679;SRP=5820.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:263:153,110:153:5492:110:3929:-272.002,0,-403.717 0/1:90:53,37:53:1904:37:1328:-91.7715,0,-140.232 0/1:118:44,74:44:1569:74:2656:-203.098,0,-103.898 0/1:240:151,89:151:5363:89:3151:-210.183,0,-406.646 0/1:565:394,171:394:14125:171:6060:-373.431,0,-1085.78 0/1:115:51,64:51:1820:64:2292:-168.39,0,-127.178 0/1:326:212,114:212:7517:114:4066:-264.4,0,-570.709 0/1:242:181,60:181:6458:60:2144:-118.502,0,-494.851 0/1:389:236,152:236:8401:152:5341:-361.17,0,-628.079 0/1:20:8,12:8:288:12:428:-31.1503,0,-19.3086 1/1:13:1,12:1:36:12:432:-35.0685,-0.392382,0 0/1:41:31,10:31:1101:10:345:-18.9683,0,-84.9002 0/1:285:158,127:158:5653:127:4490:-316.773,0,-418.088 0/1:190:111,79:111:3961:79:2818:-195.072,0,-296.728 0/1:258:184,73:184:6536:73:2600:-155.149,0,-503.71 0/1:106:67,39:67:2392:39:1389:-93.3305,0,-179.885 0/1:114:86,28:86:3043:28:1004:-56.0663,0,-237.063 0/1:197:124,73:124:4460:73:2608:-174.522,0,-336.356 0/1:172:108,63:108:3853:63:2264:-151.07,0,-291.647 0/1:462:259,203:259:9218:203:7259:-510.865,0,-676.814 0/1:119:67,52:67:2408:52:1868:-130.92,0,-178.721 chr10 17403911 . A T 8672.07 PASS AB=0.265316;ABP=1041.6;AC=12;AF=0.285714;AN=42;AO=582;CIGAR=1X;DP=4309;DPB=4309;DPRA=1.42883;EPP=113.39;EPPR=139.005;GTI=2;LEN=1;MEANALT=1.07143;MQM=44.4278;MQMR=51.1962;NS=21;NUMALT=1;ODDS=0.572118;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20753;QR=133568;RO=3725;RPL=205;RPP=113.39;RPPR=139.005;RPR=377;RUN=1;SAF=582;SAP=1266.81;SAR=0;SRF=3725;SRP=8091.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:261:172,89:172:6156:89:3181:-201.42,0,-471.264 0/1:91:61,30:61:2192:30:1080:-67.1834,0,-167.86 0/1:118:96,22:96:3433:22:791:-34.4916,0,-272.398 0/0:241:241,0:241:8656:0:0:0,-72.5482,-772.292 0/0:566:564,2:564:20232:2:63:0,-164.442,-1798.49 0/0:116:116,0:116:4164:0:0:0,-34.9195,-370.704 0/0:331:331,0:331:11861:0:0:0,-99.6409,-1055.04 0/1:238:112,126:112:4020:126:4487:-320.419,0,-286.018 0/1:384:298,86:298:10668:86:3070:-155.856,0,-836.106 0/1:20:18,2:18:648:2:72:-0.669316,0,-50.0969 0/0:13:13,0:13:468:0:0:0,-3.91339,-41.7583 0/1:41:29,12:29:1044:12:428:-25.784,0,-81.3871 0/1:286:243,43:243:8690:43:1531:-47.815,0,-690.632 0/0:188:188,0:188:6756:0:0:0,-56.5936,-603.75 0/1:259:183,76:183:6561:76:2710:-161.814,0,-507.575 0/1:105:72,33:72:2584:33:1180:-72.208,0,-200.375 0/0:111:111,0:111:3973:0:0:0,-33.4143,-354.801 0/1:196:159,37:159:5692:37:1311:-56.2944,0,-450.17 0/1:172:150,20:150:5358:20:705:-11.4261,0,-427.184 0/0:455:451,4:451:16204:4:144:0,-123.837,-1427.04 0/0:117:117,0:117:4208:0:0:0,-35.2205,-374.958 chr10 17403916 . G T 37413.5 PASS AB=0.524477;ABP=24.9087;AC=20;AF=0.47619;AN=42;AO=2208;CIGAR=1X;DP=4221;DPB=4221;DPRA=0;EPP=4754.29;EPPR=4337.34;GTI=1;LEN=1;MEANALT=1.04762;MQM=46.6698;MQMR=54.2232;NS=21;NUMALT=1;ODDS=31.8386;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78916;QR=71835;RO=2012;RPL=2203;RPP=4754.29;RPPR=4337.34;RPR=5;RUN=1;SAF=2208;SAP=4797.62;SAR=0;SRF=2012;SRP=4372.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:261:110,151:110:3927:151:5391:-396.684,0,-272.48 0/1:91:38,53:38:1359:53:1892:-139,0,-94.3067 0/1:114:70,44:70:2504:44:1571:-105.332,0,-190.638 0/1:236:89,147:89:3187:147:5272:-398.598,0,-214.614 0/1:546:273,273:273:9737:273:9740:-701.952,0,-706.183 0/1:113:61,52:61:2176:52:1842:-129.506,0,-160.57 0/1:324:164,160:164:5888:160:5739:-411.313,0,-428.212 0/1:237:111,126:111:3955:126:4484:-321.925,0,-280.729 0/1:375:206,168:206:7337:168:6031:-421.379,0,-543.119 0/1:19:11,8:11:392:8:284:-19.2562,0,-28.3977 0/0:13:12,1:12:428:1:36:0,-0.392381,-34.7061 0/1:42:11,31:11:392:31:1108:-85.2152,0,-22.877 0/1:284:191,93:191:6820:93:3301:-205.996,0,-525.305 0/1:190:82,108:82:2948:108:3854:-287.548,0,-206.745 0/1:250:70,180:70:2516:180:6447:-497.7,0,-149.936 0/1:107:40,67:40:1417:67:2396:-179.841,0,-95.5372 0/1:106:27,79:27:968:79:2840:-221.259,0,-55.2943 0/1:191:114,77:114:4038:77:2756:-186.401,0,-304.527 0/1:169:92,77:92:3284:77:2760:-194.912,0,-243.076 0/1:440:189,251:189:6759:251:8975:-663.836,0,-472.734 0/1:113:51,62:51:1803:62:2197:-162.107,0,-127.133 chr10 17403923 . CGGC CGGT,TGGT 119797 PASS AB=0.767192,0.228822;ABP=3114.04,3207.56;AC=23,19;AF=0.547619,0.452381;AN=42;AO=4000,1161;CIGAR=3M1X,1X2M1X;DP=5181;DPB=5183.5;DPRA=0,19.8769;EPP=8688.9,2515.41;EPPR=9.52472;GTI=8;LEN=1,4;MEANALT=2.71429,2.8;MQM=51.197,55.0362;MQMR=60;NS=21;NUMALT=2;ODDS=2.50955;PAIRED=0,0;PAIREDR=0;PAO=5,5;PQA=174,174;PQR=0;PRO=0;QA=141967,40570;QR=101;RO=3;RPL=3058,1160;RPP=2433.68,2515.41;RPPR=9.52472;RPR=942,1;RUN=1,1;SAF=3058,1161;SAP=2433.68,2524.09;SAR=942,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:321:0,265,55:0:0:265,55:9417,1948:-912.671,-157.016,-77.2432,-755.773,0,-739.217 1/2:91:0,76,15:0:0:76,15:2720,532:-260.125,-42.9228,-20.0445,-217.384,0,-212.869 1/2:273:0,241,32:0:0:241,32:8556,1110:-785.091,-90.3588,-17.8106,-695.079,0,-685.446 1/2:297:0,262,34:0:0:262,34:9297,1205:-849.735,-97.2765,-18.4067,-752.454,0,-742.219 1/2:652:0,567,83:0:0:567,83:20142,2875:-1861.42,-232.312,-61.6284,-1629.07,0,-1604.08 1/2:113:0,87,26:0:0:87,26:3128,906:-323.171,-73.4736,-47.284,-249.987,0,-242.16 1/2:326:2,209,115:2:65:209,115:7454,4020:-918.519,-318.739,-261.069,-595.13,0,-565.757 1/2:235:0,205,29:0:0:205,29:7272,1025:-663.083,-82.5047,-20.7935,-580.585,0,-571.855 1/2:547:0,394,151:0:0:394,151:13895,5288:-1548.72,-428.077,-309.471,-1120.64,0,-1075.19 1/2:20:0,8,12:0:0:8,12:284,408:-54.9199,-32.6909,-30.2826,-22.5675,0,-18.9551 1/1:13:0,13,0:0:0:13,0:468,0:-41.7028,-3.91339,0,-41.7028,-3.91339,-41.7028 1/2:42:0,31,11:0:0:31,11:1107,384:-119.532,-31.4418,-22.1099,-88.4378,0,-85.1265 1/2:369:0,241,126:0:0:241,126:8530,4407:-1047.08,-356.858,-284.31,-690.299,0,-652.37 1/2:275:1,192,81:1:36:192,81:6818,2812:-777.21,-224.646,-169.786,-549.965,0,-528.519 1/2:313:0,279,34:0:0:279,34:9845,1204:-891.251,-97.1871,-13.1997,-794.355,0,-784.12 1/2:155:0,138,16:0:0:138,16:4871,554:-439.647,-45.0832,-3.54105,-394.625,0,-389.808 1/1:151:0,138,13:0:0:138,13:4906,466:-438.672,-41.5421,0,-400.88,-3.39376,-396.966 1/2:185:0,150,33:0:0:150,33:5329,1131:-521.568,-91.2694,-46.1149,-430.308,0,-420.374 1/2:235:0,182,51:0:0:182,51:6406,1794:-663.534,-145.149,-90.3612,-518.43,0,-503.078 1/2:450:0,257,192:0:0:257,192:9198,6711:-1282.73,-543.006,-465.641,-739.814,0,-682.016 1/2:118:0,65,52:0:0:65,52:2324,1790:-331.319,-144.099,-124.532,-187.208,0,-171.555 chr10 17534724 . T A 474.013 PASS AB=0.438202;ABP=8.91475;AC=8;AF=0.190476;AN=42;AO=111;CIGAR=1X;DP=537;DPB=537;DPRA=1.30462;EPP=244.044;EPPR=919.392;GTI=0;LEN=1;MEANALT=1;MQM=22.1261;MQMR=58.1761;NS=21;NUMALT=1;ODDS=1.263;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3969;QR=15259;RO=426;RPL=111;RPP=244.044;RPPR=919.392;RPR=0;RUN=1;SAF=111;SAP=244.044;SAR=0;SRF=426;SRP=928.058;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.795 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6858 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.8229 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4119 0/1:37:20,17:20:716:17:612:-23.9564,0,-53.5486 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7055 0/1:15:4,11:4:126:11:396:-16.3504,0,-7.13393 1/1:34:1,33:1:32:33:1188:-60.2813,-7.03571,0 0/1:39:28,11:28:1008:11:388:-12.689,0,-79.2098 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9737 0/0:24:24,0:24:864:0:0:0,-7.22472,-77.9783 0/1:20:14,6:14:504:6:216:-6.51316,0,-39.6775 0/0:42:42,0:42:1485:0:0:0,-12.6433,-133.271 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8453 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.6844 0/1:42:20,22:20:720:22:792:-28.8798,0,-52.4501 0/1:25:14,11:14:504:11:377:-14.794,0,-38.1692 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.668 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.138 chr10 17572749 . C T 31998.7 PASS AB=0.427536;ABP=47.0692;AC=33;AF=0.785714;AN=42;AO=1520;CIGAR=1X;DP=2233;DPB=2233;DPRA=0;EPP=3286.3;EPPR=1546.93;GTI=2;LEN=1;MEANALT=1.09524;MQM=59.9757;MQMR=60;NS=21;NUMALT=1;ODDS=4.59579;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54453;QR=25406;RO=711;RPL=2;RPP=3286.3;RPPR=1538.25;RPR=1518;RUN=1;SAF=0;SAP=3303.65;SAR=1520;SRF=1;SRP=1538.25;SRR=710;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:0,147:0:0:147:5259:-473.446,-44.2514,0 1/1:49:0,49:0:0:49:1764:-159.044,-14.7505,0 1/1:118:0,118:0:0:118:4236:-381.418,-35.5215,0 1/1:130:0,130:0:0:130:4637:-417.489,-39.1339,0 0/1:178:120,58:120:4280:58:2088:-134.606,0,-331.793 1/1:115:1,114:1:36:114:4075:-363.337,-31.0202,0 0/1:205:107,98:107:3840:98:3524:-255.657,0,-284.084 0/0:157:155,1:155:5528:1:36:0,-43.7222,-494.047 0/1:178:115,63:115:4124:63:2255:-149.629,0,-317.76 0/1:36:28,8:28:1004:8:280:-14.7022,0,-79.8388 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 0/1:211:120,90:120:4278:90:3234:-227.704,0,-321.622 1/1:115:1,114:1:36:114:4069:-362.792,-31.0202,0 1/1:180:1,179:1:36:179:6440:-576.084,-50.5871,0 1/1:42:0,42:0:0:42:1508:-136.015,-12.6433,0 1/1:41:0,41:0:0:41:1472:-132.776,-12.3422,0 0/1:106:43,63:43:1548:63:2238:-169.774,0,-107.704 0/1:52:19,33:19:660:33:1171:-90.0431,0,-44.067 1/1:98:1,97:1:36:97:3484:-310.172,-25.9027,0 1/1:50:0,50:0:0:50:1783:-160.752,-15.0515,0 chr10 17644648 . GAG AAT,GAT 26723.6 PASS AB=0.560461,0.43762;ABP=19.5527,20.6196;AC=33,9;AF=0.785714,0.214286;AN=42;AO=719,294;CIGAR=1X1M1X,2M1X;DP=1017;DPB=1017;DPRA=0.744531,2.1347;EPP=1564.3,641.423;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.6,2;MQM=59.9597,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.4741;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24849,10366;QR=0;RO=0;RPL=399,158;RPP=21.8589,6.5851;RPPR=0;RPR=320,136;RUN=1,1;SAF=399,158;SAP=21.8589,6.5851;SAR=320,136;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,39,2:0:0:39,2:1339,72:-120.442,-11.7402,0,-114.566,-5.50551,-113.964 1/1:38:0,38,0:0:0:38,0:1317,0:-118.824,-11.4391,0,-118.824,-11.4391,-118.824 1/1:13:0,12,0:0:0:12,0:420,0:-37.7746,-3.61236,0,-37.7746,-3.61236,-37.7746 1/1:44:0,43,0:0:0:43,0:1471,0:-132.398,-12.9443,0,-132.398,-12.9443,-132.398 1/2:68:0,32,36:0:0:32,36:1138,1280:-197.405,-104.666,-95.0332,-93.0943,0,-82.2572 1/1:28:0,28,0:0:0:28,0:988,0:-89.234,-8.42884,0,-89.234,-8.42884,-89.234 1/2:76:0,38,38:0:0:38,38:1333,1301:-214.427,-105.944,-94.5048,-108.829,0,-97.3903 2/2:64:0,0,64:0:0:0,64:0,2269:-204.471,-204.471,-204.471,-19.2659,-19.2659,0 1/2:71:0,34,36:0:0:34,36:1146,1266:-195.902,-103.044,-92.8094,-92.8423,0,-82.0052 1/2:6:0,3,3:0:0:3,3:108,108:-17.9843,-9.17208,-8.26899,-9.17208,0,-8.26899 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:17:0,17,0:0:0:17,0:574,0:-51.9771,-5.11751,0,-51.9771,-5.11751,-51.9771 1/2:73:0,46,27:0:0:46,27:1589,957:-207.413,-78.3169,-64.4695,-129.447,0,-121.319 1/1:40:0,40,0:0:0:40,0:1389,0:-125.304,-12.0412,0,-125.304,-12.0412,-125.304 1/1:31:0,31,0:0:0:31,0:1073,0:-96.8621,-9.33193,0,-96.8621,-9.33193,-96.8621 1/1:28:0,28,0:0:0:28,0:960,0:-86.7065,-8.42884,0,-86.7065,-8.42884,-86.7065 1/1:16:0,16,0:0:0:16,0:546,0:-49.4609,-4.81648,0,-49.4609,-4.81648,-49.4609 1/2:124:0,75,49:0:0:75,49:2560,1729:-348.864,-141.142,-118.565,-208.07,0,-193.32 1/2:103:0,64,39:0:0:64,39:2221,1384:-293.652,-113.119,-93.8527,-180.886,0,-169.145 1/1:38:0,37,0:0:0:37,0:1306,0:-117.559,-11.1381,0,-117.559,-11.1381,-117.559 1/1:93:0,93,0:0:0:93,0:3191,0:-287.417,-27.9958,0,-287.417,-27.9958,-287.417 chr10 17721049 . A G 9257.66 PASS AB=0.535859;ABP=11.2642;AC=9;AF=0.214286;AN=42;AO=530;CIGAR=1X;DP=1446;DPB=1446;DPRA=2.75971;EPP=1153.89;EPPR=1992.08;GTI=2;LEN=1;MEANALT=1;MQM=59.5604;MQMR=59.9618;NS=21;NUMALT=1;ODDS=3.33529;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18755;QR=32469;RO=916;RPL=0;RPP=1153.89;RPPR=1992.08;RPR=530;RUN=1;SAF=0;SAP=1153.89;SAR=530;SRF=0;SRP=1992.08;SRR=916;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:61:59,2:59:2099:2:72:0,-11.5261,-182.342 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 0/0:68:67,1:67:2400:1:36:0,-16.8718,-212.659 0/0:47:47,0:47:1641:0:0:0,-14.1484,-147.915 0/1:136:59,77:59:2093:77:2746:-206.384,0,-147.698 0/0:46:45,1:45:1593:1:36:0,-10.2491,-140.06 0/1:74:33,41:33:1162:41:1411:-104.967,0,-82.6091 1/1:126:0,126:0:0:126:4412:-397.12,-37.9298,0 0/1:167:67,100:67:2386:100:3549:-269.345,0,-164.725 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/0:6:6,0:6:207:0:0:0,-1.80618,-18.9669 0/0:21:21,0:21:743:0:0:0,-6.32163,-67.1933 0/1:118:52,66:52:1828:66:2372:-177.984,0,-129.273 0/0:33:33,0:33:1150:0:0:0,-9.93399,-103.804 0/0:54:54,0:54:1944:0:0:0,-16.2556,-175.236 0/0:30:30,0:30:1072:0:0:0,-9.0309,-96.7925 0/0:37:37,0:37:1307:0:0:0,-11.1381,-117.931 0/1:132:58,74:58:2024:74:2622:-196.485,0,-142.691 0/1:104:68,36:68:2402:36:1283:-84.4224,0,-185.13 0/0:97:93,4:93:3306:4:144:0,-15.8863,-284.446 0/0:49:49,0:49:1752:0:0:0,-14.7505,-157.964 chr10 18811298 . CTTTTGGC CTTTTTGGC 8729.05 PASS AB=0.639626;ABP=111.553;AC=9;AF=0.214286;AN=42;AO=490;CIGAR=1M1I7M;DP=1236;DPB=1297.88;DPRA=1.89857;EPP=1067.03;EPPR=1590.36;GTI=6;LEN=1;MEANALT=1.75;MQM=60;MQMR=59.9973;NS=21;NUMALT=1;ODDS=0.175616;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17290;QR=25965;RO=731;RPL=490;RPP=1067.03;RPPR=1590.36;RPR=0;RUN=1;SAF=0;SAP=1067.03;SAR=490;SRF=0;SRP=1590.36;SRR=731;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1426:1:36:0,-8.74395,-125.039 0/0:11:11,0:11:393:0:0:0,-3.31133,-35.7108 0/0:44:44,0:44:1555:0:0:0,-13.2453,-140.242 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4837 0/1:105:29,73:29:1024:73:2530:-196.892,0,-61.4206 0/0:46:44,1:44:1569:1:36:0,-10.283,-137.928 0/1:126:25,100:25:883:100:3539:-280.728,0,-41.8 1/1:77:0,76:0:0:76:2683:-241.352,-22.8783,0 0/1:121:40,80:40:1420:80:2872:-222.233,0,-91.615 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:28:28,0:28:976:0:0:0,-8.42884,-88.1503 0/1:192:70,116:70:2485:116:4050:-308.391,0,-167.607 0/0:62:61,1:61:2159:1:36:0,-15.0656,-190.98 0/0:78:78,0:78:2781:0:0:0,-23.4803,-250.532 0/0:8:8,0:8:287:0:0:0,-2.40824,-26.1765 0/0:19:17,1:17:607:1:36:0,-2.18009,-51.3638 0/1:34:19,15:19:680:15:540:-38.7015,0,-51.2945 0/1:55:34,21:34:1200:21:752:-51.4496,0,-91.7491 0/0:135:135,0:135:4801:0:0:0,-40.639,-432.252 0/0:19:18,0:18:643:0:0:0,-5.41854,-57.8408 chr10 18811306 . C T 14055.5 PASS AB=0.338141;ABP=145.005;AC=33;AF=0.785714;AN=42;AO=712;CIGAR=1X;DP=1204;DPB=1204;DPRA=0.752667;EPP=1549.1;EPPR=1071.37;GTI=6;LEN=1;MEANALT=1;MQM=59.9972;MQMR=60;NS=21;NUMALT=1;ODDS=0.953652;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25378;QR=17561;RO=492;RPL=712;RPP=1549.1;RPPR=1071.37;RPR=0;RUN=1;SAF=0;SAP=1549.1;SAR=712;SRF=0;SRP=1071.37;SRR=492;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:1,39:1:32:39:1396:-122.74,-8.84189,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:43:0,43:0:0:43:1532:-138.173,-12.9443,0 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 0/1:101:75,26:75:2680:26:924:-53.0736,0,-211.041 1/1:45:1,44:1:36:44:1522:-133.668,-9.94808,0 0/1:125:100,25:100:3566:25:888:-42.6103,0,-283.516 0/0:75:75,0:75:2688:0:0:0,-22.5772,-242.165 0/1:117:81,36:81:2885:36:1296:-81.7234,0,-224.665 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 0/1:188:117,71:117:4185:71:2529:-171.266,0,-320.237 1/1:60:1,59:1:36:59:2097:-185.399,-14.4635,0 1/1:76:0,76:0:0:76:2728:-245.763,-22.8783,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:19:1,18:1:36:18:625:-52.9742,-2.1213,0 0/1:33:14,19:14:500:19:684:-51.9563,0,-35.4022 0/1:52:21,31:21:737:31:1112:-84.7378,0,-50.9971 1/1:131:0,131:0:0:131:4673:-420.731,-39.4349,0 1/1:18:0,18:0:0:18:644:-58.2906,-5.41854,0 chr10 18811514 . GCTT CCTT,CCTG 68878.9 PASS AB=0.557722,0.436817;ABP=40.1117,47.4628;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2444,757;CIGAR=1X3M,1X2M1X;DP=3221;DPB=3221;DPRA=0.780155,1.495;EPP=5310.09,1646.81;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=2.2,3.09091;MQM=59.9836,59.8983;MQMR=60;NS=21;NUMALT=2;ODDS=4.32597;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=87057,26296;QR=90;RO=3;RPL=0,0;RPP=5310.09,1646.81;RPPR=9.52472;RPR=2444,757;RUN=1,1;SAF=0,0;SAP=5310.09,1646.81;SAR=2444,757;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:110:0,106,2:0:0:106,2:3780,65:-340.081,-31.9092,0,-334.835,-26.6529,-334.233 1/1:112:0,112,0:0:0:112,0:3986,0:-358.931,-33.7154,0,-358.931,-33.7154,-358.931 1/1:238:1,234,2:1:29:234,2:8331,72:-746.844,-68.1498,0,-741.27,-64.5487,-742.976 1/1:209:0,207,0:0:0:207,0:7370,0:-663.029,-62.3132,0,-663.029,-62.3132,-663.029 1/2:513:1,279,229:1:25:279,229:9936,7956:-1454.45,-644.904,-562.865,-807.954,0,-740.966 1/1:103:0,103,0:0:0:103,0:3664,0:-329.963,-31.0061,0,-329.963,-31.0061,-329.963 1/2:162:0,98,63:0:0:98,63:3497,2176:-461.781,-176.692,-147.191,-285.079,0,-266.114 2/2:194:0,0,191:0:0:0,191:0,6638:-597.157,-597.157,-597.157,-57.4967,-57.4967,0 1/2:335:0,193,142:0:0:193,142:6874,4942:-962.475,-402.194,-344.095,-560.632,0,-517.886 1/2:20:0,10,10:0:0:10,10:347,345:-56.579,-28.3715,-25.3612,-28.5533,0,-25.543 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:29:0,29,0:0:0:29,0:1023,0:-92.3817,-8.72987,0,-92.3817,-8.72987,-92.3817 1/2:107:0,62,45:0:0:62,45:2209,1571:-308.189,-128.13,-109.467,-180.41,0,-166.864 1/1:191:0,191,0:0:0:191,0:6827,0:-614.501,-57.4967,0,-614.501,-57.4967,-614.501 1/1:265:0,264,0:0:0:264,0:9373,0:-843.198,-79.4719,0,-843.198,-79.4719,-843.198 1/1:179:0,175,2:0:0:175,2:6267,68:-563.773,-52.6803,0,-558.257,-47.1743,-557.655 1/1:173:0,173,0:0:0:173,0:6169,0:-555.309,-52.0782,0,-555.309,-52.0782,-555.309 1/2:64:0,23,41:0:0:23,41:820,1421:-182.687,-115.841,-108.917,-67.1988,0,-54.8566 1/2:81:0,50,30:0:0:50,30:1775,1042:-229.328,-84.6974,-69.6459,-144.621,0,-135.59 1/1:86:1,85,0:1:36:85,0:3030,0:-269.062,-22.2903,0,-269.363,-25.5876,-272.301 1/1:42:0,42,0:0:0:42,0:1491,0:-134.484,-12.6433,0,-134.484,-12.6433,-134.484 chr10 19049415 . G A 7142.84 PASS AB=0.483957;ABP=4.68245;AC=9;AF=0.214286;AN=42;AO=418;CIGAR=1X;DP=1681;DPB=1681;DPRA=1.43374;EPP=910.686;EPPR=2745.58;GTI=0;LEN=1;MEANALT=1;MQM=58.5024;MQMR=59.5843;NS=21;NUMALT=1;ODDS=3.8682;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14876;QR=44731;RO=1263;RPL=0;RPP=910.686;RPPR=2745.58;RPR=418;RUN=1;SAF=0;SAP=910.686;SAR=418;SRF=0;SRP=2745.58;SRR=1263;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:73:73,0:73:2599:0:0:0,-21.9752,-234.145 0/0:69:69,0:69:2459:0:0:0,-20.7711,-220.98 0/0:62:62,0:62:2169:0:0:0,-18.6639,-195.382 0/0:97:97,0:97:3448:0:0:0,-29.1999,-309.894 0/1:128:66,62:66:2315:62:2216:-161.105,0,-169.979 0/0:88:88,0:88:3112:0:0:0,-26.4906,-280.246 0/1:157:81,76:81:2877:76:2699:-195.846,0,-211.854 1/1:55:0,55:0:0:55:1959:-176.585,-16.5567,0 0/1:230:106,124:106:3742:124:4434:-329.773,0,-267.711 0/1:8:4,4:4:144:4:144:-10.8593,0,-10.9054 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:28:28,0:28:986:0:0:0,-8.42884,-89.0429 0/1:78:37,41:37:1311:41:1428:-104.607,0,-94.8012 0/0:72:72,0:72:2529:0:0:0,-21.6742,-227.855 0/0:128:128,0:128:4587:0:0:0,-38.5318,-412.829 0/0:71:71,0:71:2519:0:0:0,-21.3731,-226.951 0/0:74:74,0:74:2639:0:0:0,-22.2762,-237.738 0/1:102:60,42:60:2099:42:1496:-104.095,0,-158.47 0/1:45:32,13:32:1127:13:464:-28.4512,0,-88.1855 0/0:68:67,1:67:2382:1:36:0,-16.8718,-210.664 0/0:39:39,0:39:1363:0:0:0,-11.7402,-122.948 chr10 19234486 . C G 12955.9 PASS AB=0.537557;ABP=16.5481;AC=9;AF=0.214286;AN=42;AO=717;CIGAR=1X;DP=2928;DPB=2928;DPRA=1.1546;EPP=1542.63;EPPR=4762.94;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.5858;MQMR=59.9384;NS=21;NUMALT=1;ODDS=4.05087;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25542;QR=78790;RO=2208;RPL=715;RPP=1542.63;RPPR=4762.94;RPR=2;RUN=1;SAF=0;SAP=1559.96;SAR=717;SRF=0;SRP=4797.62;SRR=2208;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:144:144,0:144:5139:0:0:0,-43.3483,-462.653 0/0:245:244,0:244:8693:0:0:0,-73.4513,-781.959 0/0:102:102,0:102:3638:0:0:0,-30.7051,-327.622 0/0:208:207,0:207:7378:0:0:0,-62.3132,-663.58 0/1:278:126,152:126:4469:152:5423:-404.444,0,-318.696 0/0:142:141,1:141:5029:1:36:0,-39.148,-449.109 0/1:181:96,85:96:3444:85:3014:-216.972,0,-255.686 1/1:117:0,117:0:0:117:4173:-375.728,-35.2205,0 0/1:209:75,134:75:2676:134:4793:-368.491,0,-178.171 0/1:25:14,11:14:489:11:385:-27.4534,0,-36.8131 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:63:63,0:63:2251:0:0:0,-18.9649,-202.853 0/1:196:84,112:84:3000:112:3983:-299.629,0,-211.23 0/0:152:151,1:151:5395:1:36:0,-42.1583,-482.083 0/0:213:213,0:213:7602:0:0:0,-64.1194,-684.207 0/0:120:120,0:120:4291:0:0:0,-36.1236,-386.363 0/0:121:119,1:119:4251:1:36:0,-32.8852,-379.171 0/1:122:55,67:55:1972:67:2375:-177.253,0,-141.029 0/1:94:61,33:61:2183:33:1180:-78.2064,0,-168.438 0/0:138:135,3:135:4802:3:108:0,-31.467,-422.258 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 chr10 19276599 . TGAC CGAC,CGAT 36577.8 PASS AB=0.524899,0.471063;ABP=7.0113,8.41414;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1304,451;CIGAR=1X3M,1X2M1X;DP=1763;DPB=1763;DPRA=0,1.80157;EPP=3.6764,9.60175;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=2,2.42857;MQM=43.2009,38.3902;MQMR=33;NS=21;NUMALT=2;ODDS=0.789959;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40149,15769;QR=31;RO=1;RPL=0,0;RPP=2834.61,982.344;RPPR=5.18177;RPR=1304,451;RUN=1,1;SAF=662,244;SAP=3.6764,9.60175;SAR=642,207;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:0,112,2:0:0:112,2:3584,72:-312.383,-33.7154,0,-308.58,-29.666,-307.978 1/1:94:0,93,0:0:0:93,0:2829,0:-241.319,-27.9958,0,-241.319,-27.9958,-241.319 1/1:41:0,41,0:0:0:41,0:1265,0:-108.704,-12.3422,0,-108.704,-12.3422,-108.704 1/1:73:0,73,0:0:0:73,0:2261,0:-195.076,-21.9752,0,-195.076,-21.9752,-195.076 1/2:157:0,90,66:0:0:90,66:2746,2315:-335.174,-126.411,-99.3186,-208.673,0,-188.805 1/1:61:0,59,1:0:0:59,1:1892,34:-164.071,-17.7608,0,-163.119,-16.9057,-162.818 1/2:135:0,70,63:0:0:70,63:2132,2161:-275.256,-113.609,-92.5366,-161.711,0,-142.746 2/2:91:0,1,90:0:0:1,90:26,3161:-204.808,-203.039,-202.738,-27.0927,-25.0942,0 1/2:136:0,57,79:0:0:57,79:1759,2715:-285.979,-154.245,-137.086,-132.007,0,-108.226 1/2:5:0,1,4:0:0:1,4:36,137:-10.8082,-7.84775,-7.54672,-3.29724,0,-2.09312 1/1:4:0,4,0:0:0:4,0:114,0:-9.70956,-1.20412,0,-9.70956,-1.20412,-9.70956 1/1:21:0,21,0:0:0:21,0:663,0:-57.7928,-6.32163,0,-57.7928,-6.32163,-57.7928 1/2:111:0,66,45:0:0:66,45:2029,1591:-256.759,-102.303,-82.4352,-154.744,0,-141.198 1/1:100:0,97,2:0:0:97,2:2860,69:-241.962,-29.1999,0,-238.163,-25.4032,-237.561 1/1:106:0,104,1:0:0:104,1:3089,35:-262.517,-31.3071,0,-261.651,-30.4767,-261.35 1/1:63:0,62,1:0:0:62,1:1964,36:-168.719,-18.6639,0,-167.855,-17.667,-167.554 1/1:46:0,46,0:0:0:46,0:1400,0:-118.386,-13.8474,0,-118.386,-13.8474,-118.386 1/2:91:0,34,57:0:0:34,57:1097,2036:-196.931,-111.42,-101.185,-85.8002,0,-68.6415 1/2:108:0,72,36:0:0:72,36:2143,1263:-228.027,-68.1626,-46.4885,-160.12,0,-149.283 1/1:102:0,98,4:0:0:98,4:3029,144:-259.684,-29.5009,0,-247.932,-17.3914,-246.728 1/1:104:1,103,0:1:31:103,0:3231,0:-275.781,-28.4194,0,-276.083,-31.0061,-278.38 chr10 19430694 . C T 7719.92 PASS AB=0.549075;ABP=17.7164;AC=9;AF=0.214286;AN=42;AO=439;CIGAR=1X;DP=1498;DPB=1498;DPRA=1.50728;EPP=956.287;EPPR=2098.86;GTI=1;LEN=1;MEANALT=1;MQM=59.5626;MQMR=59.6346;NS=21;NUMALT=1;ODDS=5.90272;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15656;QR=37739;RO=1059;RPL=0;RPP=956.287;RPPR=2098.86;RPR=439;RUN=1;SAF=0;SAP=956.287;SAR=439;SRF=0;SRP=2302.6;SRR=1059;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:52,0:52:1855:0:0:0,-15.6536,-167.222 0/0:41:40,1:40:1432:1:36:0,-8.74395,-125.563 0/0:97:97,0:97:3480:0:0:0,-29.1999,-313.388 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.082 0/1:195:77,118:77:2764:118:4189:-318.427,0,-190.279 0/0:48:48,0:48:1715:0:0:0,-14.4494,-154.62 0/1:88:37,51:37:1320:51:1828:-138.294,0,-92.5859 1/1:51:0,51:0:0:51:1832:-165.144,-15.3525,0 0/1:137:68,69:68:2419:69:2461:-180.446,0,-176.687 0/1:17:8,9:8:284:9:324:-24.3837,0,-20.7858 0/0:7:7,0:7:237:0:0:0,-2.10721,-21.6591 0/0:37:37,0:37:1316:0:0:0,-11.1381,-118.604 0/1:66:31,35:31:1099:35:1256:-93.4773,0,-79.3505 0/0:81:81,0:81:2857:0:0:0,-24.3834,-257.271 0/0:107:107,0:107:3824:0:0:0,-32.2102,-344.306 0/0:34:34,0:34:1203:0:0:0,-10.235,-108.574 0/0:60:60,0:60:2120:0:0:0,-18.0618,-191.056 0/1:131:55,76:55:1963:76:2709:-204.593,0,-137.505 0/1:69:41,28:41:1468:28:985:-68.1881,0,-111.631 0/0:71:70,1:70:2493:1:36:0,-17.7749,-221.005 0/0:61:61,0:61:2170:0:0:0,-18.3628,-195.556 chr10 19430700 . AGTC GGTT,GGTC 32575.1 PASS AB=0.450843,0.54073;ABP=17.9544,13.2699;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1056,436;CIGAR=1X2M1X,1X3M;DP=1501;DPB=1501;DPRA=1.48163,1.52079;EPP=2108.98,856.638;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.9,2.5;MQM=59.6439,59.6032;MQMR=0;NS=21;NUMALT=2;ODDS=5.67895;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36868,15486;QR=0;RO=0;RPL=1034,425;RPP=2108.98,856.638;RPPR=0;RPR=22,11;RUN=1,1;SAF=0,0;SAP=2296.09,949.772;SAR=1056,436;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,53,0:0:0:53,0:1855,0:-167.218,-15.9546,0,-167.218,-15.9546,-167.218 1/1:37:0,36,1:0:0:36,1:1233,36:-110.899,-10.8371,0,-107.961,-7.53984,-107.66 1/1:97:0,97,0:0:0:97,0:3401,0:-306.291,-29.1999,0,-306.291,-29.1999,-306.291 1/1:49:0,49,0:0:0:49,0:1711,0:-154.272,-14.7505,0,-154.272,-14.7505,-154.272 1/2:196:0,77,115:0:0:77,115:2683,4107:-553.012,-334.833,-311.654,-218.186,0,-183.568 1/1:48:0,48,0:0:0:48,0:1660,0:-149.683,-14.4494,0,-149.683,-14.4494,-149.683 1/2:91:0,39,52:0:0:39,52:1370,1835:-261.25,-149.765,-138.025,-111.836,0,-96.1829 2/2:49:0,0,49:0:0:0,49:0,1743:-157.134,-157.134,-157.134,-14.7505,-14.7505,0 1/2:135:0,67,66:0:0:67,66:2339,2338:-380.696,-190.477,-170.308,-190.288,0,-170.42 1/2:19:0,9,10:0:0:9,10:314,360:-55.263,-29.7294,-27.0201,-25.8876,0,-22.8773 1/1:7:0,7,0:0:0:7,0:245,0:-22.3905,-2.10721,0,-22.3905,-2.10721,-22.3905 1/1:37:0,36,0:0:0:36,0:1269,0:-114.221,-10.8371,0,-114.221,-10.8371,-114.221 1/2:70:0,34,36:0:0:34,36:1156,1292:-199.501,-105.744,-95.5093,-94.1053,0,-83.2683 1/1:83:0,83,0:0:0:83,0:2916,0:-262.611,-24.9855,0,-262.611,-24.9855,-262.611 1/1:108:0,108,0:0:0:108,0:3781,0:-340.443,-32.5112,0,-340.443,-32.5112,-340.443 1/1:26:0,26,0:0:0:26,0:897,0:-81.0421,-7.82678,0,-81.0421,-7.82678,-81.0421 1/1:58:0,58,0:0:0:58,0:2018,0:-181.877,-17.4597,0,-181.877,-17.4597,-181.877 1/2:132:0,54,78:0:0:54,78:1883,2763:-378.542,-225.408,-209.152,-153.485,0,-130.004 1/2:69:0,41,28:0:0:41,28:1425,976:-195.562,-79.7185,-67.3763,-116.191,0,-107.763 1/1:73:0,72,1:0:0:72,1:2541,36:-228.549,-21.6742,0,-225.612,-18.3769,-225.311 1/1:64:0,62,0:0:0:62,0:2171,0:-195.343,-18.6639,0,-195.343,-18.6639,-195.343 chr10 19538302 . TA CT,CA 38143.4 PASS AB=0.505694,0.491718;ABP=3.55429,4.16123;AC=21,21;AF=0.5,0.5;AN=42;AO=977,950;CIGAR=2X,1X1M;DP=1932;DPB=1932;DPRA=0,0;EPP=2124.54,2065.91;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2.19048,2.19048;MQM=52.2508,59.6305;MQMR=60;NS=21;NUMALT=2;ODDS=26.2643;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34609,33921;QR=36;RO=1;RPL=0,0;RPP=2124.54,2065.91;RPPR=5.18177;RPR=977,950;RUN=1,1;SAF=977,950;SAP=2124.54,2065.91;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,26,30:0:0:26,30:888,1076:-159.755,-88.1096,-80.2828,-71.9939,0,-62.963 1/2:27:0,9,18:0:0:9,18:324,644:-79.2295,-52.8711,-50.1619,-26.7168,0,-21.2982 1/2:106:0,40,66:0:0:40,66:1436,2357:-309.029,-192.512,-180.471,-116.873,0,-97.0055 1/2:100:0,54,46:0:0:54,46:1909,1643:-289.364,-134.298,-118.043,-155.42,0,-141.573 1/2:153:1,73,79:1:36:73,79:2595,2811:-436.801,-226.145,-207.107,-208.014,0,-187.17 1/2:65:0,28,37:0:0:28,37:993,1324:-188.631,-108.314,-99.8854,-80.6709,0,-69.5328 1/2:142:0,79,63:0:0:79,63:2808,2252:-411.59,-183.946,-160.164,-228,0,-209.035 1/2:71:0,43,28:0:0:43,28:1535,1004:-207.045,-82.2406,-69.2963,-125.162,0,-116.733 1/2:145:0,78,67:0:0:78,67:2778,2396:-421.091,-195.59,-172.11,-225.857,0,-205.688 1/2:10:0,8,2:0:0:8,2:266,72:-27.5793,-6.23466,-3.82642,-21.6986,0,-21.0965 1/2:8:0,6,2:0:0:6,2:216,72:-23.804,-6.23466,-4.42848,-17.9289,0,-17.3269 1/2:34:0,22,12:0:0:22,12:788,432:-99.7598,-35.6088,-28.9862,-64.5099,0,-60.8976 1/2:160:0,102,58:0:0:102,58:3586,2070:-460.09,-168.819,-138.114,-291.625,0,-274.166 1/2:108:0,61,47:0:0:61,47:2163,1688:-313.463,-138.036,-119.673,-175.783,0,-161.635 1/2:88:0,30,58:0:0:30,58:1063,2080:-256.086,-170.004,-160.973,-86.4364,0,-68.9767 1/2:24:0,14,10:0:0:14,10:502,360:-70.5605,-29.734,-25.5196,-41.1853,0,-38.175 1/2:30:0,12,17:0:0:12,17:430,601:-83.9179,-48.9416,-45.3293,-34.9733,0,-29.8558 1/2:137:0,58,77:0:0:58,77:2037,2751:-388.763,-224.266,-206.807,-164.5,0,-141.321 1/2:113:0,56,56:0:0:56,56:1997,1982:-323.599,-161.43,-144.573,-162.165,0,-145.307 1/2:250:0,136,114:0:0:136,114:4828,4064:-723.304,-331.36,-290.42,-392.298,0,-357.981 1/2:105:0,42,63:0:0:42,63:1467,2242:-301.443,-183.026,-170.382,-118.768,0,-99.8028 chr10 19538352 . GACGAAGC GAAGCAAGC,GAAGGAAGC 29426 PASS AB=0.501618,0.489968;ABP=3.04544,4.36097;AC=22,20;AF=0.52381,0.47619;AN=42;AO=833,757;CIGAR=2M1X1M1I4M,1M1I1M1X5M;DP=1604;DPB=1828.88;DPRA=0,1.30932;EPP=1811.85,1646.81;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.47619,2.5;MQM=38.8475,53.9815;MQMR=0;NS=21;NUMALT=2;ODDS=4.00629;PAIRED=0,0;PAIREDR=0;PAO=65,65;PQA=48,48;PQR=48;PRO=65;QA=29028,26423;QR=0;RO=0;RPL=833,757;RPP=1811.85,1646.81;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1811.85,1646.81;SAR=833,757;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,45,32:0:0:45,32:1556,1112:-210.41,-90.3661,-76.8197,-120.383,0,-110.75 1/2:35:0,10,25:0:0:10,25:360,882:-100.141,-72.0632,-69.0529,-28.4256,0,-20.8998 1/2:68:0,25,43:0:0:25,43:885,1513:-191.707,-123.171,-115.645,-68.8789,0,-55.9346 1/2:122:0,71,51:0:0:71,51:2480,1804:-338.714,-147.007,-125.634,-192.051,0,-176.699 1/2:87:0,60,25:0:0:60,25:2101,877:-233.488,-71.3514,-53.2896,-162.211,0,-154.685 1/2:62:0,32,29:0:0:32,29:1119,1027:-170.641,-83.5798,-73.9469,-87.0479,0,-78.3181 1/2:80:0,52,27:0:0:52,27:1783,948:-215.543,-77.0901,-61.4366,-138.437,0,-130.309 1/1:59:0,58,0:0:0:58,0:1999,0:-171.588,-17.4597,0,-171.588,-17.4597,-171.588 1/2:135:0,74,61:0:0:74,61:2566,2145:-371.152,-174.502,-152.225,-196.888,0,-178.525 1/2:12:0,9,3:0:0:9,3:303,99:-31.7269,-8.32613,-5.61686,-23.7286,0,-22.8255 1/2:8:0,2,6:0:0:2,6:72,210:-23.0394,-17.4244,-16.8224,-5.96147,0,-4.15529 1/2:30:0,10,20:0:0:10,20:358,705:-85.2782,-57.6082,-54.5979,-28.0144,0,-21.9938 1/2:97:0,57,39:0:0:57,39:2013,1361:-265.644,-110.25,-93.0916,-155.512,0,-143.772 1/2:92:0,61,31:0:0:61,31:2077,1071:-247.456,-87.2509,-68.888,-160.544,0,-151.212 1/2:138:0,38,99:0:0:38,99:1335,3460:-384.153,-280.88,-269.441,-103.27,0,-73.4676 1/2:17:0,10,7:0:0:10,7:360,245:-47.718,-20.2461,-17.2358,-27.8169,0,-25.7096 1/2:60:0,18,42:0:0:18,42:625,1446:-165.281,-117.57,-112.151,-48.0441,0,-35.4008 1/2:80:0,52,27:0:0:52,27:1814,921:-214.288,-74.1375,-58.484,-140.094,0,-131.967 1/2:88:0,43,45:0:0:43,45:1507,1552:-242.777,-126.245,-113.301,-116.872,0,-103.326 1/2:161:0,60,100:0:0:60,100:2102,3459:-443.156,-280.518,-262.456,-162.634,0,-132.531 1/2:96:0,46,45:0:0:46,45:1613,1586:-254.71,-128.939,-115.092,-125.801,0,-112.255 chr10 19538365 . 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A T 6343.55 PASS AB=0.353497;ABP=397.488;AC=21;AF=0.5;AN=42;AO=748;CIGAR=1X;DP=2116;DPB=2116;DPRA=0;EPP=1627.27;EPPR=2971.41;GTI=3;LEN=1;MEANALT=1.04762;MQM=31.3743;MQMR=42.2056;NS=21;NUMALT=1;ODDS=6.49364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26551;QR=48639;RO=1367;RPL=747;RPP=1618.6;RPPR=2919.53;RPR=1;RUN=1;SAF=747;SAP=1618.6;SAR=1;SRF=1361;SRP=2919.53;SRR=6;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:78,41:78:2775:41:1452:-71.4074,0,-207.811 0/1:114:78,36:78:2752:36:1292:-62.3313,0,-169.376 0/1:65:38,27:38:1364:27:954:-50.1109,0,-98.8783 0/1:89:62,26:62:2216:26:919:-41.3863,0,-166.911 0/1:250:170,80:170:6080:80:2860:-135.008,0,-456.491 0/1:104:61,43:61:2188:43:1517:-83.4615,0,-123.324 0/1:145:77,68:77:2756:68:2415:-139.848,0,-143.338 0/1:49:24,25:24:852:25:892:-55.1236,0,-61.5999 0/1:132:97,35:97:3437:35:1221:-50.8727,0,-262.104 0/1:25:18,7:18:644:7:252:-12.4655,0,-48.9431 0/1:14:11,3:11:373:3:104:-4.00615,0,-21.2168 0/1:44:14,30:14:500:30:1076:-71.6738,0,-30.0032 0/1:96:58,38:58:2050:38:1343:-69.6007,0,-150.905 0/1:129:76,53:76:2720:53:1883:-99.9321,0,-196.002 0/1:228:156,72:156:5567:72:2546:-116.933,0,-413.072 0/1:78:48,30:48:1679:30:1072:-54.3953,0,-123.533 0/1:120:85,35:85:3025:35:1252:-55.4839,0,-228.543 0/1:101:73,28:73:2596:28:996:-48.0296,0,-195.435 0/1:72:45,27:45:1569:27:956:-48.0899,0,-115.453 0/1:88:53,35:53:1888:35:1252:-72.3245,0,-119.102 0/1:54:45,9:45:1608:9:297:-7.36793,0,-95.5562 chr10 20703491 . 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T A 8948.48 PASS AB=0.462963;ABP=6.8707;AC=32;AF=0.761905;AN=42;AO=439;CIGAR=1X;DP=658;DPB=658;DPRA=0.697727;EPP=956.287;EPPR=478.563;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.28862;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15664;QR=7868;RO=219;RPL=439;RPP=956.287;RPPR=478.563;RPR=0;RUN=1;SAF=0;SAP=956.287;SAR=439;SRF=0;SRP=478.563;SRR=219;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:37:1,36:1:36:36:1288:-112.625,-7.53984,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 1/1:25:0,25:0:0:25:881:-79.6059,-7.52575,0 0/1:68:39,29:39:1400:29:1036:-73.0839,0,-105.829 0/1:15:7,8:7:252:8:284:-21.3879,0,-18.5135 0/1:30:15,15:15:536:15:536:-39.5439,0,-39.5439 0/0:44:44,0:44:1580:0:0:0,-13.2453,-142.492 0/1:88:57,31:57:2048:31:1108:-73.5404,0,-158.101 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:6:0,6:0:0:6:208:-19.0591,-1.80618,0 0/1:44:21,23:21:756:23:824:-61.238,0,-55.1219 1/1:35:0,35:0:0:35:1243:-112.173,-10.5361,0 1/1:56:0,56:0:0:56:1989:-179.283,-16.8577,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:34:20,14:20:720:14:504:-35.4631,0,-54.8938 0/1:34:11,23:11:396:23:799:-61.9907,0,-25.7477 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 1/1:31:0,31:0:0:31:1116:-100.752,-9.33193,0 chr10 21119300 . TAAC CAAA,CAAC 35042.8 PASS AB=0.513287,0.485315;ABP=4.10667,4.34963;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1171,453;CIGAR=1X2M1X,1X3M;DP=1627;DPB=1627;DPRA=0.717453,1.52419;EPP=2537.13,986.687;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.55,2.1;MQM=59.9889,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.50087;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41634,16150;QR=0;RO=0;RPL=1,0;RPP=2537.13,986.687;RPPR=0;RPR=1170,453;RUN=1,1;SAF=1171,453;SAP=2545.8,986.687;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1933,0:-174.247,-16.2556,0,-174.247,-16.2556,-174.247 1/1:18:0,18,0:0:0:18,0:644,0:-58.2909,-5.41854,0,-58.2909,-5.41854,-58.2909 1/1:140:0,140,0:0:0:140,0:4990,0:-449.249,-42.1442,0,-449.249,-42.1442,-449.249 1/1:117:0,116,0:0:0:116,0:4112,0:-369.968,-34.9195,0,-369.968,-34.9195,-369.968 1/2:139:0,66,72:0:0:66,72:2349,2568:-400.835,-209.393,-189.525,-191.497,0,-169.823 1/2:55:0,29,26:0:0:29,26:1020,932:-159.398,-76.3721,-67.6422,-83.3813,0,-75.5545 1/2:91:0,53,38:0:0:53,38:1880,1350:-263.527,-110.36,-94.4051,-153.522,0,-142.083 2/2:106:0,0,105:0:0:0,105:0,3744:-336.799,-336.799,-336.799,-31.6082,-31.6082,0 1/2:178:0,90,88:0:0:90,88:3204,3141:-517.558,-256.424,-229.331,-261.49,0,-235 1/2:13:0,5,8:0:0:5,8:179,284:-38.0937,-23.4951,-21.99,-14.9552,0,-12.547 1/1:11:0,11,0:0:0:11,0:394,0:-35.8016,-3.31133,0,-35.8016,-3.31133,-35.8016 1/1:34:0,34,0:0:0:34,0:1201,0:-108.395,-10.235,0,-108.395,-10.235,-108.395 1/2:119:0,66,53:0:0:66,53:2344,1894:-345.777,-154.783,-134.915,-191.35,0,-175.395 1/1:113:0,113,0:0:0:113,0:4000,0:-360.193,-34.0164,0,-360.193,-34.0164,-360.193 1/1:88:0,88,0:0:0:88,0:3136,0:-282.466,-26.4906,0,-282.466,-26.4906,-282.466 1/1:40:0,40,0:0:0:40,0:1423,0:-128.367,-12.0412,0,-128.367,-12.0412,-128.367 1/1:31:0,31,0:0:0:31,0:1102,0:-99.4903,-9.33193,0,-99.4903,-9.33193,-99.4903 1/2:61:0,25,36:0:0:25,36:888,1283:-177.293,-104.936,-97.4098,-72.7125,0,-61.8754 1/2:59:0,33,26:0:0:33,26:1173,918:-170.697,-75.1085,-65.1745,-95.9429,0,-88.1161 1/1:124:0,123,1:0:0:123,1:4379,36:-393.928,-37.0267,0,-390.99,-33.7294,-390.689 1/1:36:0,36,0:0:0:36,0:1283,0:-115.773,-10.8371,0,-115.773,-10.8371,-115.773 chr10 21339598 . T C 12800.4 PASS AB=0.534826;ABP=15.715;AC=14;AF=0.333333;AN=42;AO=765;CIGAR=1X;DP=1860;DPB=1860;DPRA=1.60356;EPP=1664.19;EPPR=2380.77;GTI=1;LEN=1;MEANALT=1;MQM=42.2575;MQMR=59.4575;NS=21;NUMALT=1;ODDS=5.4397;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27202;QR=38677;RO=1095;RPL=765;RPP=1664.19;RPPR=2380.77;RPR=0;RUN=1;SAF=0;SAP=1664.19;SAR=765;SRF=0;SRP=2380.77;SRR=1095;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:28,37:28:989:37:1313:-95.8004,0,-69.7413 0/1:54:14,40:14:481:40:1428:-109.701,0,-27.3588 0/1:111:39,72:39:1376:72:2588:-193.581,0,-90.7234 0/0:130:130,0:130:4574:0:0:0,-39.1339,-411.757 0/0:161:154,7:154:5477:7:252:0,-26.0486,-470.631 0/0:57:55,2:55:1964:2:68:0,-10.8053,-170.676 0/1:110:46,64:46:1633:64:2235:-164.168,0,-114.14 1/1:109:0,109:0:0:109:3869:-340.347,-32.8123,0 0/1:95:41,54:41:1433:54:1932:-140.786,0,-100.493 0/1:20:11,9:11:396:9:320:-22.3051,0,-29.9606 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/0:27:27,0:27:933:0:0:0,-8.12781,-84.2791 0/1:151:74,77:74:2628:77:2741:-194.379,0,-191.056 0/1:102:59,43:59:2036:43:1529:-103.684,0,-152.454 0/1:235:97,138:97:3414:138:4909:-359.439,0,-236.613 0/1:52:29,23:29:1032:23:809:-55.6198,0,-77.5275 0/0:31:30,1:30:1068:1:36:0,-5.82923,-92.9121 0/1:123:63,60:63:2229:60:2137:-151.364,0,-162.745 0/1:88:60,28:60:2117:28:1000:-61.539,0,-164.166 0/0:76:76,0:76:2685:0:0:0,-22.8783,-241.684 0/0:58:57,1:57:2032:1:36:0,-13.9387,-179.625 chr10 21439042 . T C 5438.83 PASS AB=0.423438;ABP=35.596;AC=10;AF=0.238095;AN=42;AO=331;CIGAR=1X;DP=1615;DPB=1615;DPRA=1.0381;EPP=721.768;EPPR=2791.18;GTI=0;LEN=1;MEANALT=1;MQM=59.9124;MQMR=59.972;NS=21;NUMALT=1;ODDS=6.79554;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11766;QR=45987;RO=1284;RPL=0;RPP=721.768;RPPR=2791.18;RPR=331;RUN=1;SAF=0;SAP=721.768;SAR=331;SRF=0;SRP=2791.18;SRR=1284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2288:0:0:0,-19.2659,-206.181 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/0:55:54,1:54:1936:1:36:0,-12.9584,-170.918 0/0:224:224,0:224:8031:0:0:0,-67.4307,-722.808 0/1:136:66,70:66:2355:70:2451:-179.897,0,-171.268 0/1:95:53,42:53:1899:42:1493:-106.063,0,-142.588 0/1:96:54,42:54:1932:42:1504:-106.756,0,-145.228 1/1:58:0,58:0:0:58:2067:-186.298,-17.4597,0 0/1:99:60,39:60:2152:39:1391:-95.6845,0,-164.145 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:98:65,33:65:2332:33:1180:-77.0071,0,-180.639 0/0:96:96,0:96:3437:0:0:0,-28.8989,-309.537 0/0:166:166,0:166:5960:0:0:0,-49.971,-536.505 0/0:42:42,0:42:1500:0:0:0,-12.6433,-135.295 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.729 0/1:56:30,26:30:1071:26:924:-66.62,0,-79.8439 0/1:56:40,16:40:1418:16:576:-35.3173,0,-111.058 0/0:108:107,1:107:3836:1:36:0,-28.913,-341.838 0/0:65:65,0:65:2320:0:0:0,-19.5669,-209.06 chr10 21442300 . C G 39785.8 PASS AB=0.492477;ABP=3.50035;AC=32;AF=0.761905;AN=42;AO=1867;CIGAR=1X;DP=2506;DPB=2506;DPRA=0.913846;EPP=4057.15;EPPR=1388.41;GTI=0;LEN=1;MEANALT=1.05;MQM=59.8977;MQMR=59.9514;NS=21;NUMALT=1;ODDS=10.5425;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66544;QR=22681;RO=638;RPL=1867;RPP=4057.15;RPPR=1388.41;RPR=0;RUN=1;SAF=0;SAP=4057.15;SAR=1867;SRF=0;SRP=1388.41;SRR=638;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:167:0,167:0:0:167:5943:-534.932,-50.272,0 1/1:116:0,116:0:0:116:4107:-369.808,-34.9195,0 1/1:126:1,125:1:36:125:4492:-400.849,-34.3315,0 1/1:108:0,108:0:0:108:3851:-346.787,-32.5112,0 0/1:234:128,106:128:4554:106:3761:-268.176,0,-339.556 0/1:124:66,58:66:2368:58:2067:-148.956,0,-175.994 0/1:177:96,81:96:3381:81:2896:-207.585,0,-251.223 0/0:130:130,0:130:4593:0:0:0,-39.1339,-413.532 0/1:192:94,97:94:3371:97:3465:-254.204,0,-245.748 0/1:18:8,10:8:280:10:356:-26.9627,0,-20.1208 1/1:13:0,13:0:0:13:459:-41.6441,-3.91339,0 1/1:43:0,43:0:0:43:1525:-137.537,-12.9443,0 0/1:161:78,83:78:2766:83:2980:-219.93,0,-200.713 1/1:159:1,158:1:36:158:5636:-503.709,-44.2655,0 1/1:252:0,252:0:0:252:8947:-805.216,-75.8596,0 1/1:97:0,97:0:0:97:3488:-314.122,-29.1999,0 1/1:110:0,110:0:0:110:3929:-353.801,-33.1133,0 0/1:41:17,24:17:612:24:860:-65.3796,0,-43.0712 0/1:50:18,32:18:648:32:1136:-87.4951,0,-43.6004 1/1:139:1,138:1:36:138:4909:-438.28,-38.2449,0 1/1:49:0,49:0:0:49:1737:-156.612,-14.7505,0 chr10 21459317 . GAAAATATC GAAAAATATC 24152.9 PASS AB=0.52524;ABP=7.61424;AC=32;AF=0.761905;AN=42;AO=1233;CIGAR=1M1I8M;DP=1771;DPB=1908.44;DPRA=0.631154;EPP=2680.44;EPPR=1136.52;GTI=1;LEN=1;MEANALT=1.7;MQM=59.9959;MQMR=60;NS=21;NUMALT=1;ODDS=1.30278;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42314;QR=18269;RO=522;RPL=0;RPP=2680.44;RPPR=1136.52;RPR=1233;RUN=1;SAF=0;SAP=2680.44;SAR=1233;SRF=0;SRP=1136.52;SRR=522;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:0,103:0:0:103:3498:-314.73,-31.0061,0 1/1:88:0,87:0:0:87:2960:-266.28,-26.1896,0 1/1:46:0,46:0:0:46:1550:-139.783,-13.8474,0 1/1:97:3,93:3:103:93:3204:-278.977,-19.6447,0 0/1:188:89,99:89:3094:99:3429:-252.235,0,-222.101 0/1:127:61,65:61:2143:65:2256:-165.012,0,-154.851 0/1:133:70,61:70:2471:61:2063:-146.163,0,-182.872 0/0:130:129,0:129:4538:0:0:0,-38.8329,-408.239 0/1:148:62,84:62:2165:84:2874:-214.631,0,-150.847 0/1:6:3,3:3:96:3:104:-7.89663,0,-7.15131 1/1:9:0,9:0:0:9:312:-28.4154,-2.70927,0 1/1:17:0,17:0:0:17:566:-51.2532,-5.11751,0 0/1:105:53,52:53:1849:52:1781:-128.96,0,-135.083 1/1:85:0,84:0:0:84:2936:-264.206,-25.2865,0 1/1:104:0,103:0:0:103:3514:-316.154,-31.0061,0 1/1:67:0,66:0:0:66:2299:-206.85,-19.868,0 1/1:75:0,74:0:0:74:2517:-226.422,-22.2762,0 0/1:72:34,38:34:1177:38:1314:-96.8836,0,-84.5592 0/1:53:18,35:18:633:35:1203:-92.6172,0,-41.3428 1/1:77:0,76:0:0:76:2624:-236.07,-22.8783,0 1/1:39:0,38:0:0:38:1310:-117.877,-11.4391,0 chr10 21510954 . 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GG CA,GA 46279.9 PASS AB=0.496757,0.503243;ABP=3.08071,3.08071;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1632,518;CIGAR=2X,1M1X;DP=2153;DPB=2153;DPRA=0.784496,0.87194;EPP=3546.85,1127.83;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.6,1.9;MQM=59.5466,59.9884;MQMR=0;NS=21;NUMALT=2;ODDS=14.3282;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57366,18443;QR=0;RO=0;RPL=0,0;RPP=3546.85,1127.83;RPPR=0;RPR=1632,518;RUN=1,1;SAF=1632,518;SAP=3546.85,1127.83;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:0,133,0:0:0:133,0:4665,0:-419.911,-40.037,0,-419.911,-40.037,-419.911 1/1:122:0,122,0:0:0:122,0:4283,0:-385.231,-36.7257,0,-385.231,-36.7257,-385.231 1/1:87:0,87,0:0:0:87,0:3083,0:-277.693,-26.1896,0,-277.693,-26.1896,-277.693 1/1:138:0,138,0:0:0:138,0:4821,0:-433.961,-41.5421,0,-433.961,-41.5421,-433.961 1/2:142:0,65,77:0:0:65,77:2285,2733:-409.015,-223.033,-203.466,-186.335,0,-163.156 1/2:63:0,27,36:0:0:27,36:955,1283:-182.632,-104.936,-96.8077,-78.0506,0,-67.2135 1/2:106:0,45,61:0:0:45,61:1592,2180:-307.632,-178.103,-164.557,-129.883,0,-111.52 2/2:129:0,0,129:0:0:0,129:0,4613:-415.332,-415.332,-415.332,-38.8329,-38.8329,0 1/2:174:0,92,82:0:0:92,82:3227,2906:-499.68,-237.089,-209.394,-262.944,0,-238.259 1/2:22:0,13,9:0:0:13,9:466,324:-64.7577,-26.7966,-22.8832,-38.3201,0,-35.6109 1/1:13:0,13,0:0:0:13,0:466,0:-42.2787,-3.91339,0,-42.2787,-3.91339,-42.2787 1/1:40:0,40,0:0:0:40,0:1419,0:-127.892,-12.0412,0,-127.892,-12.0412,-127.892 1/2:55:0,19,36:0:0:19,36:682,1265:-158.945,-103.313,-97.5939,-55.9879,0,-45.1509 1/1:52:0,51,1:0:0:51,1:1751,36:-157.443,-15.3525,0,-154.505,-12.0553,-154.204 1/1:322:0,320,0:0:0:320,0:11260,0:-1011.68,-96.3296,0,-1011.68,-96.3296,-1011.68 1/1:72:0,71,0:0:0:71,0:2506,0:-225.431,-21.3731,0,-225.431,-21.3731,-225.431 1/1:99:0,99,0:0:0:99,0:3453,0:-310.98,-29.802,0,-310.98,-29.802,-310.98 1/2:138:0,73,65:0:0:73,65:2585,2315:-399.603,-189.042,-167.067,-210.916,0,-191.349 1/2:71:0,49,22:0:0:49,22:1702,788:-202.843,-64.6221,-49.8717,-138.575,0,-131.952 1/1:125:0,125,0:0:0:125,0:4407,0:-396.762,-37.6288,0,-396.762,-37.6288,-396.762 1/1:50:0,50,0:0:0:50,0:1758,0:-158.318,-15.0515,0,-158.318,-15.0515,-158.318 chr10 22807473 . G C 40057.4 PASS AB=0.498681;ABP=3.02176;AC=32;AF=0.761905;AN=42;AO=1608;CIGAR=1X;DP=2121;DPB=2121;DPRA=0;EPP=1578.14;EPPR=502.955;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.5914;MQMR=60;NS=21;NUMALT=1;ODDS=14.2016;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56540;QR=18069;RO=511;RPL=1344;RPP=1578.14;RPPR=502.955;RPR=264;RUN=1;SAF=1608;SAP=3494.74;SAR=0;SRF=511;SRP=1112.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:0,131:0:0:131:4628:-416.66,-39.4349,0 1/1:118:0,117:0:0:117:4078:-366.199,-35.2205,0 1/1:87:0,87:0:0:87:3075:-276.975,-26.1896,0 1/1:139:0,139:0:0:139:4902:-441.3,-41.8432,0 0/1:140:73,66:73:2573:66:2313:-166.22,0,-189.617 0/1:61:34,27:34:1207:27:960:-68.2671,0,-90.5724 0/1:104:59,45:59:2073:45:1596:-112.564,0,-155.532 0/0:132:131,1:131:4665:1:36:0,-36.1377,-416.414 0/1:174:85,89:85:3032:89:3156:-231.871,0,-220.732 0/1:20:7,13:7:252:13:436:-33.5348,0,-17.0084 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:37:0,37:0:0:37:1286:-116.033,-11.1381,0 0/1:56:36,20:36:1271:20:712:-47.548,0,-97.8344 1/1:51:1,50:1:36:50:1742:-153.431,-11.7543,0 1/1:315:0,315:0:0:315:11056:-994.869,-94.8245,0 1/1:70:0,70:0:0:70:2508:-225.971,-21.0721,0 1/1:97:0,97:0:0:97:3398:-306.019,-29.1999,0 0/1:136:65,71:65:2240:71:2482:-182.689,0,-160.919 0/1:67:20,47:20:720:47:1647:-128.213,0,-44.9598 1/1:122:0,122:0:0:122:4273:-384.742,-36.7257,0 1/1:51:0,51:0:0:51:1792:-161.385,-15.3525,0 chr10 22807516 . 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TGGGAT TGGAT 1.36692e-06 PASS AB=0.219219;ABP=231.041;AC=5;AF=0.119048;AN=42;AO=127;CIGAR=1M1D4M;DP=1824;DPB=1802.83;DPRA=1.25587;EPP=278.787;EPPR=3590.8;GTI=4;LEN=1;MEANALT=1.33333;MQM=28.0709;MQMR=12.9249;NS=21;NUMALT=1;ODDS=15.0123;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3559;QR=59642;RO=1692;RPL=0;RPP=278.787;RPPR=3590.8;RPR=127;RUN=1;SAF=127;SAP=278.787;SAR=0;SRF=1692;SRP=3677.14;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:125:124,0:124:4387:0:0:0,-37.3277,-145.788 0/0:80:80,0:80:2821:0:0:0,-24.0824,-80.2454 0/1:50:38,12:38:1337:12:352:-13.6434,0,-29.4452 0/0:120:120,0:120:4214:0:0:0,-36.1236,-146.001 0/0:245:239,4:239:8453:4:116:0,-63.8346,-270.679 0/0:89:85,4:85:3035:4:100:0,-18.6529,-75.2547 0/0:97:87,10:87:3068:10:250:0,-9.18303,-66.8689 0/1:135:111,23:111:3930:23:621:-9.42308,0,-75.1032 0/0:137:124,12:124:4367:12:372:0,-10.6418,-144.778 0/0:7:7,0:7:251:0:0:0,-2.10721,-8.22523 0/0:4:4,0:4:138:0:0:0,-1.20412,-5.80833 0/1:31:20,11:20:720:11:297:-14.6621,0,-14.1607 0/0:133:133,0:133:4669:0:0:0,-40.037,-154.922 0/0:110:110,0:110:3863:0:0:0,-33.1133,-128.766 0/0:108:95,13:95:3314:13:378:0,-1.74945,-82.5517 0/0:46:43,3:43:1497:3:93:0,-6.00978,-43.0809 0/0:87:79,8:79:2788:8:237:0,-6.75779,-74.2025 0/1:74:57,17:57:2003:17:456:-14.4032,0,-38.6623 0/1:43:33,10:33:1154:10:287:-10.4361,0,-25.4126 0/0:79:79,0:79:2782:0:0:0,-23.7814,-97.837 0/0:24:24,0:24:851:0:0:0,-7.22472,-23.8351 chr10 23061644 . TGAACA TGAA 15715.8 PASS AB=0.331029;ABP=1222.64;AC=18;AF=0.428571;AN=42;AO=1676;CIGAR=3M2D1M;DP=5674;DPB=5113;DPRA=3.00054;EPP=3642.4;EPPR=8556.45;GTI=1;LEN=2;MEANALT=2.85;MQM=35.5179;MQMR=59.4925;NS=21;NUMALT=1;ODDS=1.06004;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57746;QR=137688;RO=3947;RPL=0;RPP=3642.4;RPPR=8573.81;RPR=1676;RUN=1;SAF=1676;SAP=3642.4;SAR=0;SRF=3945;SRP=8556.45;SRR=2;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:230:143,83:143:4960:83:2823:-165.984,0,-378.142 0/1:169:113,56:113:3917:56:1867:-102.015,0,-301.848 0/1:188:113,72:113:3920:72:2457:-148.935,0,-296.942 0/1:357:221,133:221:7738:133:4575:-271.332,0,-589.503 0/1:441:291,149:291:10138:149:5172:-294.457,0,-779.363 0/1:154:110,43:110:3879:43:1457:-73.5826,0,-302.911 0/1:372:253,118:253:8877:118:4077:-221.303,0,-686.583 0/0:93:88,0:88:3067:0:0:0,-26.4906,-275.783 0/1:172:131,38:131:4548:38:1348:-59.3381,0,-358.283 0/0:324:308,15:308:10720:15:501:0,-55.6198,-922.663 0/1:248:193,53:193:6727:53:1815:-73.8282,0,-530.814 0/0:339:304,33:304:10623:33:1142:0,-6.88077,-860.907 0/1:191:123,68:123:4259:68:2299:-133.179,0,-325.749 0/1:287:173,113:173:6007:113:3821:-231.461,0,-454.245 0/1:507:285,218:285:9947:218:7552:-474.659,0,-743.33 0/1:208:120,87:120:4181:87:2994:-186.671,0,-313.819 0/1:193:119,67:119:4142:67:2356:-139.067,0,-316.675 0/1:683:562,113:562:19666:113:3960:-123.593,0,-1565.39 0/1:124:80,44:80:2801:44:1533:-87.6452,0,-214.988 0/1:256:142,111:142:4948:111:3868:-244.415,0,-368.993 0/1:138:75,62:75:2623:62:2129:-132.669,0,-194.782 chr10 23114020 . 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G T 28447.4 PASS AB=0.475679;ABP=18.3257;AC=10;AF=0.238095;AN=42;AO=1632;CIGAR=1X;DP=7677;DPB=7677;DPRA=3.2267;EPP=3546.85;EPPR=13112.2;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.7433;MQMR=59.7442;NS=21;NUMALT=1;ODDS=23.3565;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58474;QR=215336;RO=6037;RPL=0;RPP=3546.85;RPPR=13112.2;RPR=1632;RUN=1;SAF=1632;SAP=3546.85;SAR=0;SRF=6037;SRP=13112.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:245:243,2:243:8608:2:72:0,-66.9156,-767.836 0/0:131:130,1:130:4614:1:36:0,-35.8457,-411.808 0/0:165:163,0:163:5810:0:0:0,-49.0679,-522.512 0/0:155:155,0:155:5538:0:0:0,-46.6596,-498.493 0/1:250:129,121:129:4594:121:4339:-315.323,0,-338.341 0/1:63:33,30:33:1188:30:1076:-78.188,0,-88.2555 0/1:249:128,121:128:4592:121:4327:-314.312,0,-338.479 1/1:204:0,204:0:0:204:7314:-658.279,-61.4101,0 0/1:171:87,84:87:3082:84:3008:-219.475,0,-226.114 0/1:1128:589,539:589:20987:539:19340:-1400.45,0,-1548.59 0/0:1169:1167,2:1167:41641:2:72:0,-345.076,-3739.04 0/0:1573:1564,4:1564:55877:4:129:0,-460.802,-5014.89 0/1:113:60,53:60:2141:53:1904:-137.605,0,-158.931 0/0:170:170,0:170:6091:0:0:0,-51.1751,-548.202 0/0:344:343,1:343:12237:1:21:0,-101.454,-1099.02 0/0:168:168,0:168:5969:0:0:0,-50.573,-537.274 0/0:186:186,0:186:6583:0:0:0,-55.9916,-592.536 0/1:926:473,452:473:16921:452:16192:-1178.06,0,-1243.54 0/1:81:63,18:63:2244:18:644:-33.9072,0,-177.832 0/0:143:143,0:143:5090:0:0:0,-43.0473,-458.219 0/0:43:43,0:43:1529:0:0:0,-12.9443,-137.885 chr10 23223441 . T C 29.1578 PASS AB=0.381746;ABP=156.054;AC=20;AF=0.47619;AN=42;AO=481;CIGAR=1X;DP=1264;DPB=1264;DPRA=15.75;EPP=979.157;EPPR=36.6098;GTI=17;LEN=1;MEANALT=1.05;MQM=15.7526;MQMR=20.2928;NS=21;NUMALT=1;ODDS=1.39458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17158;QR=27805;RO=782;RPL=481;RPP=1047.49;RPPR=1701.1;RPR=0;RUN=1;SAF=8;SAP=979.157;SAR=473;SRF=336;SRP=36.6098;SRR=446;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:40,23:40:1419:23:813:-15.7087,0,-59.4172 0/1:38:14,24:14:504:24:860:-26.7478,0,-11.2682 0/1:16:8,8:8:288:8:288:-7.55464,0,-10.6774 0/1:64:35,29:35:1245:29:1006:-27.8604,0,-48.3652 0/1:138:71,66:71:2505:66:2364:-41.2094,0,-94.0165 0/1:58:32,26:32:1114:26:924:-18.5618,0,-35.6036 0/1:86:47,39:47:1680:39:1385:-22.9668,0,-43.8696 0/1:43:25,18:25:900:18:644:-3.33839,0,-30.7121 0/1:83:56,27:56:1988:27:968:-16.6294,0,-86.8544 0/1:15:9,6:9:324:6:216:-3.52989,0,-11.9737 0/0:4:4,0:4:136:0:0:0,-1.20412,-4.79663 0/1:11:5,6:5:176:6:212:-6.35073,0,-5.45455 0/1:81:57,24:57:2048:24:864:-3.76316,0,-82.0304 0/1:55:38,17:38:1333:17:608:-9.44457,0,-53.3349 0/1:66:44,22:44:1572:22:788:-14.2034,0,-63.8357 0/1:34:23,11:23:815:11:381:-7.99056,0,-38.0447 0/1:28:18,10:18:644:10:360:-6.9927,0,-30.8016 0/1:110:74,36:74:2633:36:1281:-15.1139,0,-93.1643 0/1:102:63,39:63:2256:39:1404:-23.0905,0,-91.2967 0/1:69:49,20:49:1726:20:720:-9.81088,0,-59.8458 0/1:100:70,30:70:2499:30:1072:-20.1647,0,-75.6858 chr10 23356727 . T G 26358.1 PASS AB=0.513135;ABP=4.72162;AC=32;AF=0.761905;AN=42;AO=1746;CIGAR=1X;DP=2370;DPB=2370;DPRA=1.77308;EPP=3794.4;EPPR=1340.69;GTI=0;LEN=1;MEANALT=1;MQM=30.4989;MQMR=42.4247;NS=21;NUMALT=1;ODDS=3.18322;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62371;QR=22323;RO=624;RPL=0;RPP=3794.4;RPPR=1340.69;RPR=1746;RUN=1;SAF=1746;SAP=3794.4;SAR=0;SRF=624;SRP=1358.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:0,151:0:0:151:5390:-393.878,-45.4555,0 1/1:93:1,92:1:36:92:3274:-236.882,-24.4748,0 1/1:132:0,132:0:0:132:4744:-342.284,-39.736,0 1/1:109:0,109:0:0:109:3920:-284.031,-32.8123,0 0/1:322:154,168:154:5521:168:5998:-338.776,0,-385.169 0/1:170:85,85:85:3010:85:3037:-170.587,0,-213.494 0/1:163:87,76:87:3128:76:2690:-148.515,0,-225.439 0/0:65:65,0:65:2309:0:0:0,-19.5669,-201.973 0/1:234:106,128:106:3804:128:4570:-279.038,0,-264.335 0/1:10:6,4:6:216:4:140:-7.62352,0,-16.3552 1/1:6:0,6:0:0:6:208:-15.7543,-1.80618,0 1/1:29:0,29:0:0:29:1029:-76.0969,-8.72987,0 0/1:141:72,69:72:2588:69:2480:-138.544,0,-179.774 1/1:77:0,77:0:0:77:2741:-200.117,-23.1793,0 1/1:163:0,163:0:0:163:5822:-423.825,-49.0679,0 1/1:94:1,93:1:36:93:3340:-247.707,-24.7607,0 1/1:127:0,127:0:0:127:4552:-344.702,-38.2308,0 0/1:48:29,19:29:1036:19:680:-35.4582,0,-74.6259 0/1:54:17,37:17:603:37:1328:-80.905,0,-35.2984 1/1:138:1,137:1:36:137:4863:-351.418,-38.0211,0 1/1:44:0,44:0:0:44:1565:-114.683,-13.2453,0 chr10 23545572 . TTGTAAGG TTGCAAGA,CTGCAAGA 24635.3 PASS AB=0.524074,0.464815;ABP=5.72866,8.81698;AC=32,10;AF=0.761905,0.238095;AN=42;AO=849,320;CIGAR=3M1X3M1X,1X2M1X3M1X;DP=1182;DPB=1182;DPRA=0.806522,1.4171;EPP=1777.76,697.881;EPPR=0;GTI=0;LEN=8,8;MEANALT=2,2.44444;MQM=59.49,40.0219;MQMR=0;NS=21;NUMALT=2;ODDS=6.85874;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29930,11223;QR=0;RO=0;RPL=8,0;RPP=1777.76,697.881;RPPR=0;RPR=841,320;RUN=1,1;SAF=849,320;SAP=1846.59,697.881;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,38,0:0:0:38,0:1328,0:-119.399,-11.4391,0,-119.399,-11.4391,-119.399 1/1:16:0,16,0:0:0:16,0:566,0:-51.2591,-4.81648,0,-51.2591,-4.81648,-51.2591 1/1:77:0,76,0:0:0:76,0:2693,0:-242.337,-22.8783,0,-242.337,-22.8783,-242.337 1/1:43:0,42,0:0:0:42,0:1487,0:-133.769,-12.6433,0,-133.769,-12.6433,-133.769 1/2:70:0,24,45:0:0:24,45:822,1572:-191.339,-124.611,-117.386,-66.7772,0,-53.2309 1/2:43:0,18,25:0:0:18,25:636,874:-116.606,-64.796,-59.3774,-52.1497,0,-44.624 1/2:97:0,65,31:0:0:65,31:2298,1072:-267.104,-79.95,-60.383,-187.127,0,-177.795 2/2:69:0,0,69:0:0:0,69:0,2429:-209.753,-209.753,-209.753,-20.7711,-20.7711,0 1/2:66:0,29,35:0:0:29,35:1013,1228:-179.256,-96.8497,-88.1199,-82.4405,0,-71.9044 1/2:7:0,5,2:0:0:5,2:180,69:-20.4454,-5.73968,-4.23453,-15.0469,0,-14.4449 1/1:11:0,11,0:0:0:11,0:389,0:-35.3481,-3.31133,0,-35.3481,-3.31133,-35.3481 1/1:30:0,30,0:0:0:30,0:1057,0:-95.4394,-9.0309,0,-95.4394,-9.0309,-95.4394 1/2:56:0,29,27:0:0:29,27:1001,943:-154.952,-73.6501,-64.9202,-81.6413,0,-73.5135 1/1:75:0,75,0:0:0:75,0:2649,0:-238.613,-22.5773,0,-238.613,-22.5773,-238.613 1/1:61:0,60,0:0:0:60,0:2122,0:-190.905,-18.0618,0,-190.905,-18.0618,-190.905 1/1:24:0,24,0:0:0:24,0:851,0:-76.9084,-7.22472,0,-76.9084,-7.22472,-76.9084 1/1:29:0,28,0:0:0:28,0:991,0:-89.2348,-8.42884,0,-89.2348,-8.42884,-89.2348 1/2:107:0,54,51:0:0:54,51:1904,1794:-294.718,-139.723,-123.468,-155.075,0,-139.723 1/2:94:0,59,35:0:0:59,35:2111,1242:-270.1,-97.9566,-80.1959,-172.492,0,-161.956 1/1:123:0,123,0:0:0:123,0:4321,0:-389.018,-37.0267,0,-389.018,-37.0267,-389.018 1/1:45:0,43,0:0:0:43,0:1511,0:-135.991,-12.9443,0,-135.991,-12.9443,-135.991 chr10 23545584 . GAGTG AAGCG,AAGCA 41787.6 PASS AB=0.63097,0.366136;ABP=105.962,110.563;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1337,323;CIGAR=1X2M1X1M,1X2M2X;DP=1664;DPB=1664.6;DPRA=1.1558,1.29581;EPP=2906.27,704.396;EPPR=0;GTI=1;LEN=5,5;MEANALT=1.65,2.1;MQM=59.5782,40.0031;MQMR=0;NS=21;NUMALT=2;ODDS=3.6136;PAIRED=0,0;PAIREDR=0;PAO=1.5,1;PQA=18,18;PQR=0;PRO=0.5;QA=46322,11392;QR=0;RO=0;RPL=854,323;RPP=226.558,704.396;RPPR=0;RPR=483,0;RUN=1,1;SAF=854,323;SAP=226.558,704.396;SAR=483,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:81:0,81,0:0:0:81,0:2757,0:-248.241,-24.3834,0,-248.241,-24.3834,-248.241 1/1:16:0,16,0:0:0:16,0:565,0:-51.1705,-4.81648,0,-51.1705,-4.81648,-51.1705 1/1:111:0,111,0:0:0:111,0:3856,0:-347.183,-33.4143,0,-347.183,-33.4143,-347.183 1/1:109:0,108,0:0:0:108,0:3769,0:-339.175,-32.5112,0,-339.175,-32.5112,-339.175 1/2:105:0,59,46:0:0:59,46:1993,1608:-288.696,-127.158,-109.397,-161.878,0,-148.03 1/2:43:0,18,25:0:0:18,25:647,882:-118.159,-65.3594,-59.9408,-53.1431,0,-45.6174 1/2:97:0,66,31:0:0:66,31:2304,1083:-268.432,-81.0507,-61.1827,-187.713,0,-178.381 2/2:69:0,0,69:0:0:0,69:0,2459:-211.745,-211.745,-211.745,-20.7711,-20.7711,0 1/2:90:0,55,35:0:0:55,35:1868,1236:-249.977,-98.4952,-81.9386,-151.825,0,-141.289 1/2:7:0,5,2:0:0:5,2:174,72:-20.1114,-5.96147,-4.45632,-14.4961,0,-13.894 1/1:11:0,11,0:0:0:11,0:395,0:-35.8922,-3.31133,0,-35.8922,-3.31133,-35.8922 1/1:30:0,30,0:0:0:30,0:1066,0:-96.2478,-9.0309,0,-96.2478,-9.0309,-96.2478 1/2:98:0,70,27:0:0:70,27:2391,947:-267.767,-73.7528,-52.6807,-194.098,0,-185.97 1/1:140:0,139,1:0:0:139,1:4811,31:-432.753,-41.8432,0,-430.265,-39.0456,-429.964 1/1:130:0,129,0:0:0:129,0:4461,0:-401.409,-38.8329,0,-401.409,-38.8329,-401.409 1/1:56:0,56,0:0:0:56,0:1908,0:-171.989,-16.8577,0,-171.989,-16.8577,-171.989 1/1:53:0,53,0:0:0:53,0:1821,0:-164.093,-15.9546,0,-164.093,-15.9546,-164.093 1/2:107:0,55,52:0:0:55,52:1937,1829:-299.902,-142.343,-125.787,-157.902,0,-142.249 1/2:144:0,108,35:0:0:108,35:3741,1245:-401.981,-97.9428,-65.4316,-304.13,0,-293.594 1/1:122:0,122,0:0:0:122,0:4283,0:-385.597,-36.7257,0,-385.597,-36.7257,-385.597 1/1:45:0,45,0:0:0:45,0:1575,0:-141.734,-13.5464,0,-141.734,-13.5464,-141.734 chr10 24069770 . GTTTCA GTTCA 15084.1 PASS AB=0.656943;ABP=186.359;AC=13;AF=0.309524;AN=42;AO=828;CIGAR=1M1D4M;DP=1396;DPB=1257.67;DPRA=4.80615;EPP=1792.31;EPPR=1227.72;GTI=8;LEN=1;MEANALT=1.2;MQM=59.4203;MQMR=51.6578;NS=21;NUMALT=1;ODDS=1.47971;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28862;QR=19745;RO=564;RPL=1;RPP=1792.31;RPPR=1227.72;RPR=827;RUN=1;SAF=0;SAP=1800.99;SAR=828;SRF=0;SRP=1227.72;SRR=564;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:14,0:14:491:0:0:0,-4.21442,-44.419 0/1:9:8,1:8:287:1:36:-0.889005,0,-23.374 0/0:6:6,0:6:204:0:0:0,-1.80618,-18.6693 0/0:7:7,0:7:243:0:0:0,-2.10721,-22.1463 0/1:98:20,78:20:713:78:2712:-214.787,0,-34.7586 0/1:36:11,25:11:379:25:790:-60.551,0,-23.5245 1/1:67:6,61:6:216:61:2151:-174.028,-0.429551,0 1/1:124:0,123:0:0:123:4250:-382.297,-37.0267,0 1/1:88:7,81:7:226:81:2810:-232.842,-6.19966,0 0/1:281:41,240:41:1449:240:8389:-669.795,0,-45.8332 0/0:49:49,0:49:1740:0:0:0,-14.7505,-156.54 0/0:103:103,0:103:3601:0:0:0,-31.0061,-323.331 0/1:24:6,18:6:211:18:636:-50.3247,0,-12.0525 0/0:11:11,0:11:385:0:0:0,-3.31133,-34.5712 0/0:26:24,0:24:818:0:0:0,-7.22472,-73.3813 0/0:5:5,0:5:173:0:0:0,-1.50515,-15.8673 0/0:11:11,0:11:394:0:0:0,-3.31133,-35.688 0/1:379:189,189:189:6626:189:6660:-484.846,0,-480.67 0/1:30:18,12:18:639:12:428:-29.8279,0,-48.3239 0/0:4:4,0:4:121:0:0:0,-1.20412,-11.1425 0/0:24:24,0:24:829:0:0:0,-7.22472,-74.7154 chr10 24069802 . A G 17444.2 PASS AB=0.682819;ABP=266.61;AC=13;AF=0.309524;AN=42;AO=910;CIGAR=1X;DP=1468;DPB=1468;DPRA=5.13475;EPP=1961.72;EPPR=1206.02;GTI=11;LEN=1;MEANALT=1;MQM=59.322;MQMR=51.6111;NS=21;NUMALT=1;ODDS=0.866541;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32467;QR=19952;RO=558;RPL=908;RPP=1961.72;RPPR=1206.02;RPR=2;RUN=1;SAF=0;SAP=1979.05;SAR=910;SRF=0;SRP=1214.69;SRR=558;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.5804 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.4632 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.388 0/0:7:7,0:7:252:0:0:0,-2.10721,-22.9464 0/1:105:20,85:20:716:85:3023:-240.647,0,-32.9155 0/1:39:11,28:11:381:28:1004:-78.8311,0,-22.7887 1/1:72:6,66:6:216:66:2360:-192.783,-1.9347,0 1/1:138:0,138:0:0:138:4911:-442.069,-41.5421,0 1/1:91:5,86:5:180:86:3055:-258.698,-10.9314,0 0/1:307:41,266:41:1472:266:9492:-761.445,0,-40.0464 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.516 0/0:102:102,0:102:3660:0:0:0,-30.7051,-328.522 0/1:28:6,22:6:216:22:788:-62.7797,0,-11.2968 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.1992 0/0:26:26,0:26:913:0:0:0,-7.82678,-82.2284 0/0:5:5,0:5:165:0:0:0,-1.50515,-15.1299 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.637 0/1:388:184,204:184:6577:204:7294:-539.429,0,-472.869 0/1:32:18,14:18:648:14:504:-36.0651,0,-48.5185 0/0:4:4,0:4:144:0:0:0,-1.20412,-12.8495 0/0:24:24,0:24:860:0:0:0,-7.22472,-77.4505 chr10 24098493 . A G,C 50635.3 PASS AB=0.510267,0.48768;ABP=3.90208,4.29446;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1673,667;CIGAR=1X,1X;DP=2345;DPB=2345;DPRA=0.567105,1.33493;EPP=3635.88,1451.38;EPPR=9.52472;GTI=1;LEN=1,1;MEANALT=1.6,2;MQM=59.6438,59.91;MQMR=60;NS=21;NUMALT=2;ODDS=2.63494;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59627,23757;QR=108;RO=3;RPL=1673,667;RPP=3635.88,1451.38;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3635.88,1451.38;SAR=1673,667;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:135:0,135,0:0:0:135,0:4820,0:-433.945,-40.6391,0,-433.945,-40.6391,-433.945 1/1:121:0,121,0:0:0:121,0:4297,0:-386.883,-36.4246,0,-386.883,-36.4246,-386.883 1/1:87:0,87,0:0:0:87,0:3108,0:-279.903,-26.1896,0,-279.903,-26.1896,-279.903 1/1:185:0,185,0:0:0:185,0:6608,0:-594.786,-55.6906,0,-594.786,-55.6906,-594.786 1/2:229:0,116,113:0:0:116,113:4133,3981:-660.48,-323.842,-288.923,-336.992,0,-302.975 1/2:87:0,33,54:0:0:33,54:1180,1932:-254.101,-157.901,-147.967,-96.5577,0,-80.3021 1/2:163:0,89,74:0:0:89,74:3158,2640:-472.382,-215.563,-188.771,-257.174,0,-234.898 2/2:190:0,0,190:0:0:0,190:0,6783:-610.544,-610.544,-610.544,-57.1957,-57.1957,0 1/2:229:1,115,112:1:36:115,112:4075,4004:-655.143,-323.524,-291.843,-328.979,0,-298.201 1/2:18:0,10,8:0:0:10,8:356,284:-52.5007,-23.4932,-20.4829,-29.3627,0,-26.9545 1/1:8:0,7,0:0:0:7,0:252,0:-22.6691,-2.10721,0,-22.6691,-2.10721,-22.6691 1/1:29:0,29,0:0:0:29,0:1016,0:-91.7499,-8.72987,0,-91.7499,-8.72987,-91.7499 1/2:120:0,58,62:0:0:58,62:2076,2224:-351.04,-181.76,-164.301,-169.638,0,-150.974 1/1:115:0,114,1:0:0:114,1:4068,36:-365.939,-34.3174,0,-363.001,-31.0202,-362.7 1/1:139:0,139,0:0:0:139,0:4952,0:-445.807,-41.8432,0,-445.807,-41.8432,-445.807 1/1:100:2,98,0:2:72:98,0:3497,0:-308.07,-23.2663,0,-308.672,-29.5009,-314.547 1/1:97:0,97,0:0:0:97,0:3448,0:-310.531,-29.1999,0,-310.531,-29.1999,-310.531 1/2:49:0,23,26:0:0:23,26:824,913:-141.855,-74.6579,-67.7342,-67.5517,0,-59.7249 1/2:79:0,53,26:0:0:53,26:1891,924:-229.802,-75.6509,-59.6963,-154.506,0,-146.68 1/1:116:0,115,1:0:0:115,1:4113,36:-369.801,-34.6185,0,-366.863,-31.3212,-366.562 1/1:49:0,49,0:0:0:49,0:1755,0:-158.225,-14.7505,0,-158.225,-14.7505,-158.225 chr10 24098499 . T C 34828.9 PASS AB=0.499485;ABP=3.01254;AC=32;AF=0.761905;AN=42;AO=1648;CIGAR=1X;DP=2324;DPB=2324;DPRA=0.57139;EPP=3581.6;EPPR=1468.75;GTI=1;LEN=1;MEANALT=1.05;MQM=59.6371;MQMR=59.9052;NS=21;NUMALT=1;ODDS=3.49799;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58775;QR=24169;RO=675;RPL=1648;RPP=3581.6;RPPR=1468.75;RPR=0;RUN=1;SAF=0;SAP=3581.6;SAR=1648;SRF=0;SRP=1468.75;SRR=675;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,136:0:0:136:4834:-435.204,-40.9401,0 1/1:121:0,120:0:0:120:4261:-383.299,-36.1236,0 1/1:85:1,84:1:36:84:2993:-265.962,-21.9919,0 1/1:179:0,179:0:0:179:6409:-576.877,-53.8844,0 0/1:235:120,115:120:4293:115:4054:-294.058,0,-315.433 0/1:84:52,32:52:1849:32:1125:-76.2613,0,-141.402 0/1:169:81,88:81:2912:88:3145:-231.397,0,-211.432 0/0:187:187,0:187:6709:0:0:0,-56.2926,-603.882 0/1:223:111,112:111:3969:112:3987:-291.85,0,-290.256 0/1:18:8,10:8:284:10:345:-25.954,0,-20.483 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 0/1:121:63,58:63:2264:58:2088:-151.744,0,-167.598 1/1:116:0,116:0:0:116:4161:-374.66,-34.9195,0 1/1:136:0,136:0:0:136:4853:-436.812,-40.9401,0 1/1:98:0,98:0:0:98:3494:-314.655,-29.5009,0 1/1:95:0,95:0:0:95:3412:-307.289,-28.5979,0 0/1:47:26,21:26:936:21:756:-54.2142,0,-70.4064 0/1:74:25,49:25:896:49:1752:-135.679,0,-58.6841 1/1:113:1,112:1:21:112:3982:-356.296,-31.9164,0 1/1:50:0,50:0:0:50:1796:-161.914,-15.0515,0 chr10 24104471 . CTTCC TTTCT,CTTCT 21106.6 PASS AB=0.594828,0.398707;ABP=39.2514,44.3619;AC=32,10;AF=0.761905,0.238095;AN=42;AO=770,233;CIGAR=1X3M1X,4M1X;DP=1008;DPB=1008;DPRA=1,1.37634;EPP=1675.04,508.963;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.65,2.22222;MQM=59.5779,59.8498;MQMR=0;NS=21;NUMALT=2;ODDS=8.48369;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26880,8360;QR=0;RO=0;RPL=0,0;RPP=1675.04,508.963;RPPR=0;RPR=770,233;RUN=1,1;SAF=770,233;SAP=1675.04,508.963;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,73,0:0:0:73,0:2565,0:-230.789,-21.9752,0,-230.789,-21.9752,-230.789 1/1:49:0,49,0:0:0:49,0:1712,0:-154.352,-14.7505,0,-154.352,-14.7505,-154.352 1/1:46:0,46,0:0:0:46,0:1592,0:-143.559,-13.8474,0,-143.559,-13.8474,-143.559 1/1:14:0,14,0:0:0:14,0:489,0:-44.3407,-4.21442,0,-44.3407,-4.21442,-44.3407 1/2:100:0,62,37:0:0:62,37:2168,1332:-284.346,-107.981,-89.317,-176.36,0,-165.222 1/2:57:0,38,19:0:0:38,19:1340,684:-165.263,-56.1708,-44.7316,-109.449,0,-103.73 1/2:87:0,41,46:0:0:41,46:1411,1648:-249.348,-134.761,-122.419,-114.937,0,-101.09 2/2:48:0,0,48:0:0:0,48:0,1724:-155.445,-155.445,-155.445,-14.4494,-14.4494,0 1/2:68:0,42,25:0:0:42,25:1462,900:-192.417,-73.5411,-60.8978,-118.976,0,-111.45 1/2:13:0,7,6:0:0:7,6:245,216:-37.9124,-17.9843,-15.8771,-20.2833,0,-18.4771 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:11:0,11,0:0:0:11,0:379,0:-34.4411,-3.31133,0,-34.4411,-3.31133,-34.4411 1/2:38:0,20,18:0:0:20,18:694,644:-109.278,-52.8721,-46.8515,-56.7585,0,-51.3399 1/1:43:0,43,0:0:0:43,0:1470,0:-132.582,-12.9443,0,-132.582,-12.9443,-132.582 1/1:79:0,79,0:0:0:79,0:2754,0:-248.072,-23.7814,0,-248.072,-23.7814,-248.072 1/1:33:0,33,0:0:0:33,0:1139,0:-102.812,-9.93399,0,-102.812,-9.93399,-102.812 1/1:51:0,51,0:0:0:51,0:1779,0:-159.833,-15.3525,0,-159.833,-15.3525,-159.833 1/2:48:0,24,23:0:0:24,23:853,816:-135.974,-66.4784,-59.2537,-69.491,0,-62.5674 1/2:53:0,42,11:0:0:42,11:1487,396:-153.784,-32.6714,-20.0282,-121.471,0,-118.16 1/1:53:0,53,0:0:0:53,0:1840,0:-165.673,-15.9546,0,-165.673,-15.9546,-165.673 1/1:38:0,37,0:0:0:37,0:1321,0:-118.829,-11.1381,0,-118.829,-11.1381,-118.829 chr10 24170312 . TGACT TGACC,CGACC 23376.1 PASS AB=0.491493,0.506616;ABP=3.34279,3.21144;AC=32,10;AF=0.761905,0.238095;AN=42;AO=796,310;CIGAR=4M1X,1X3M1X;DP=1114;DPB=1114;DPRA=1.27619,1.40209;EPP=1731.5,676.167;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.7,2;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.04972;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28269,10760;QR=0;RO=0;RPL=0,0;RPP=1731.5,676.167;RPPR=0;RPR=796,310;RUN=1,1;SAF=0,0;SAP=1731.5,676.167;SAR=796,310;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:84:0,84,0:0:0:84,0:3000,0:-270.232,-25.2865,0,-270.232,-25.2865,-270.232 1/1:56:0,56,0:0:0:56,0:1988,0:-179.194,-16.8577,0,-179.194,-16.8577,-179.194 1/1:37:0,36,0:0:0:36,0:1292,0:-116.243,-10.8371,0,-116.243,-10.8371,-116.243 1/1:52:0,50,0:0:0:50,0:1758,0:-158.143,-15.0515,0,-158.143,-15.0515,-158.143 1/2:103:0,49,54:0:0:49,54:1740,1882:-295.183,-153.401,-138.65,-142.134,0,-125.878 1/2:41:0,28,13:0:0:28,13:1000,463:-119.624,-38.0939,-29.6651,-81.8865,0,-77.9731 1/2:112:0,49,63:0:0:49,63:1764,2189:-322.249,-178.31,-163.56,-144.293,0,-125.328 2/2:42:0,0,42:0:0:0,42:0,1432:-129.169,-129.169,-129.169,-12.6433,-12.6433,0 1/2:116:0,44,71:0:0:44,71:1552,2451:-325.575,-199.201,-185.955,-126.452,0,-105.079 1/2:7:0,4,3:0:0:4,3:144,107:-20.8306,-9.07908,-7.87496,-12.1095,0,-11.2064 1/1:8:0,8,0:0:0:8,0:279,0:-25.4475,-2.40824,0,-25.4475,-2.40824,-25.4475 1/1:15:0,15,0:0:0:15,0:527,0:-47.7602,-4.51545,0,-47.7602,-4.51545,-47.7602 1/2:50:0,23,27:0:0:23,27:828,958:-145.971,-78.4083,-71.4846,-67.9204,0,-59.7926 1/1:41:0,41,0:0:0:41,0:1468,0:-132.416,-12.3422,0,-132.416,-12.3422,-132.416 1/1:69:0,66,0:0:0:66,0:2344,0:-210.87,-19.868,0,-210.87,-19.868,-210.87 1/1:63:0,62,0:0:0:62,0:2212,0:-198.985,-18.6639,0,-198.985,-18.6639,-198.985 1/1:36:0,36,0:0:0:36,0:1283,0:-115.773,-10.8371,0,-115.773,-10.8371,-115.773 1/2:52:0,27,25:0:0:27,25:943,860:-146.897,-70.1883,-62.0605,-77.0554,0,-69.5297 1/2:48:0,36,12:0:0:36,12:1254,418:-136.316,-34.3408,-23.5037,-102.324,0,-98.7112 1/1:44:0,44,0:0:0:44,0:1576,0:-142.132,-13.2453,0,-142.132,-13.2453,-142.132 1/1:38:0,38,0:0:0:38,0:1317,0:-118.827,-11.4391,0,-118.827,-11.4391,-118.827 chr10 24473140 . C A,G 85727.3 PASS AB=0.484277,0.515199;ABP=7.10742,6.83883;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2804,1192;CIGAR=1X,1X;DP=3999;DPB=3999;DPRA=0.920631,1.16645;EPP=6091.82,2582.73;EPPR=7.35324;GTI=1;LEN=1,1;MEANALT=1.6,2;MQM=59.9968,60;MQMR=60;NS=21;NUMALT=2;ODDS=8.76064;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=99963,42233;QR=72;RO=2;RPL=2804,1191;RPP=6091.82,2582.73;RPPR=7.35324;RPR=0,1;RUN=1,1;SAF=2804,1192;SAP=6091.82,2591.41;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:168:0,168,0:0:0:168,0:5965,0:-536.958,-50.573,0,-536.958,-50.573,-536.958 1/1:148:0,148,0:0:0:148,0:5286,0:-475.876,-44.5524,0,-475.876,-44.5524,-475.876 1/1:130:0,129,1:0:0:129,1:4608,36:-414.525,-38.8329,0,-411.587,-35.5356,-411.286 1/1:212:0,212,0:0:0:212,0:7551,0:-679.632,-63.8184,0,-679.632,-63.8184,-679.632 1/2:647:0,312,334:0:0:312,334:11109,11814:-1867.7,-962.268,-868.347,-905.467,0,-804.923 1/2:184:0,67,117:0:0:67,117:2371,4166:-533.024,-339.903,-319.734,-193.476,0,-158.255 1/2:365:0,179,186:0:0:179,186:6397,6583:-1058.14,-536.564,-482.679,-521.933,0,-465.941 2/2:206:0,0,206:0:0:0,206:0,7290:-656.155,-656.155,-656.155,-62.0122,-62.0122,0 1/2:289:0,141,148:0:0:141,148:5010,5253:-836.601,-428.353,-385.908,-408.603,0,-364.05 1/2:18:0,10,8:0:0:10,8:356,284:-52.5108,-23.4951,-20.4848,-29.3709,0,-26.9627 1/1:12:0,12,0:0:0:12,0:424,0:-38.4964,-3.61236,0,-38.4964,-3.61236,-38.4964 1/1:34:0,33,1:0:0:33,1:1165,36:-104.795,-9.93399,0,-101.858,-6.63675,-101.557 1/2:238:0,125,113:0:0:125,113:4454,3988:-688.142,-325.094,-287.465,-363.403,0,-329.386 1/1:171:1,170,0:1:36:170,0:6074,0:-543.165,-47.8779,0,-543.466,-51.1751,-546.403 1/1:213:0,213,0:0:0:213,0:7565,0:-680.892,-64.1194,0,-680.892,-64.1194,-680.892 1/1:237:0,237,0:0:0:237,0:8470,0:-762.302,-71.3441,0,-762.302,-71.3441,-762.302 1/1:353:1,352,0:1:36:352,0:12609,0:-1131.03,-102.665,0,-1131.34,-105.963,-1134.27 1/2:84:0,41,43:0:0:41,43:1468,1531:-244.855,-125.138,-112.796,-120.074,0,-107.13 1/2:83:0,49,34:0:0:49,34:1731,1216:-240.479,-99.5115,-84.7611,-141.324,0,-131.089 1/1:156:0,155,1:0:0:155,1:5528,36:-497.286,-46.6597,0,-494.348,-43.3624,-494.047 1/1:51:0,51,0:0:0:51,0:1822,0:-164.261,-15.3525,0,-164.261,-15.3525,-164.261 chr10 24525908 . C T 36388 PASS AB=0.544542;ABP=16.7448;AC=32;AF=0.761905;AN=42;AO=1635;CIGAR=1X;DP=2117;DPB=2117;DPRA=0.878509;EPP=3339.54;EPPR=1013.03;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=10.537;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58587;QR=17162;RO=481;RPL=0;RPP=3553.37;RPPR=1047.49;RPR=1635;RUN=1;SAF=1610;SAP=3339.54;SAR=25;SRF=477;SRP=1013.03;SRR=4;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,101:0:0:101:3620:-326.005,-30.404,0 1/1:101:0,101:0:0:101:3632:-327.084,-30.404,0 1/1:103:0,103:0:0:103:3704:-333.56,-31.0061,0 1/1:197:0,197:0:0:197:7073:-636.627,-59.3029,0 0/1:146:63,83:63:2252:83:2968:-223.403,0,-158.993 0/1:86:38,48:38:1364:48:1712:-128.477,0,-97.1721 0/1:135:65,70:65:2324:70:2516:-186.052,0,-168.781 0/0:114:114,0:114:4067:0:0:0,-34.3174,-366.217 0/1:158:71,87:71:2532:87:3116:-233.104,0,-180.569 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:33:0,33:0:0:33:1176:-106.148,-9.93399,0 0/1:116:71,44:71:2548:44:1570:-106.76,0,-194.74 1/1:134:2,132:2:72:132:4732:-419.201,-33.5013,0 1/1:158:1,157:1:36:157:5594:-499.983,-43.9645,0 1/1:66:0,66:0:0:66:2363:-212.928,-19.868,0 1/1:94:0,94:0:0:94:3364:-302.976,-28.2968,0 0/1:74:30,44:30:1072:44:1584:-120.575,0,-74.5162 0/1:77:21,56:21:715:56:1999:-157.004,0,-41.4873 1/1:154:2,152:2:72:152:5461:-484.779,-39.5219,0 1/1:61:0,61:0:0:61:2187:-197.095,-18.3628,0 chr10 24525993 . 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A G 10772.5 PASS AB=0.554497;ABP=27.3882;AC=10;AF=0.238095;AN=42;AO=611;CIGAR=1X;DP=1741;DPB=1741;DPRA=1.96907;EPP=1329.78;EPPR=2422.15;GTI=1;LEN=1;MEANALT=1;MQM=59.401;MQMR=43.1611;NS=21;NUMALT=1;ODDS=1.57714;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21758;QR=40540;RO=1130;RPL=0;RPP=1329.78;RPPR=2422.15;RPR=611;RUN=1;SAF=611;SAP=1329.78;SAR=0;SRF=1130;SRP=2456.77;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:65,0:65:2332:0:0:0,-19.5669,-205.41 0/0:42:42,0:42:1508:0:0:0,-12.6433,-129.495 0/0:112:112,0:112:4009:0:0:0,-33.7154,-352.924 0/0:73:73,0:73:2616:0:0:0,-21.9752,-229.957 0/1:227:106,121:106:3804:121:4271:-316.086,0,-266.908 0/1:84:24,60:24:864:60:2156:-169.02,0,-48.3141 0/1:123:51,72:51:1836:72:2565:-194.072,0,-121.466 1/1:84:0,84:0:0:84:2990:-268.362,-25.2865,0 0/1:221:86,135:86:3081:135:4841:-369.208,0,-205.765 0/1:13:6,7:6:216:7:244:-18.386,0,-15.3515 0/0:13:13,0:13:468:0:0:0,-3.91339,-40.763 0/0:56:56,0:56:2012:0:0:0,-16.8577,-176.58 0/1:125:69,56:69:2465:56:1970:-139.844,0,-179.438 0/0:72:72,0:72:2569:0:0:0,-21.6742,-226.977 0/0:83:83,0:83:2980:0:0:0,-24.9855,-262.659 0/0:21:21,0:21:756:0:0:0,-6.32163,-67.3139 0/0:60:60,0:60:2156:0:0:0,-18.0618,-191.467 0/1:87:39,48:39:1404:48:1713:-128.096,0,-96.7251 0/1:65:40,25:40:1440:25:900:-61.7541,0,-107.581 0/0:88:85,3:85:3052:3:108:0,-16.6508,-256.145 0/0:27:27,0:27:972:0:0:0,-8.12781,-83.8471 chr10 24831762 . 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C T 15463.3 PASS AB=0.523732;ABP=8.98807;AC=11;AF=0.261905;AN=42;AO=845;CIGAR=1X;DP=3414;DPB=3414;DPRA=1.19177;EPP=1837.9;EPPR=5581.52;GTI=0;LEN=1;MEANALT=1;MQM=54.8769;MQMR=59.4418;NS=21;NUMALT=1;ODDS=22.2497;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30133;QR=92109;RO=2569;RPL=0;RPP=1837.9;RPPR=5581.52;RPR=845;RUN=1;SAF=845;SAP=1837.9;SAR=0;SRF=2569;SRP=5581.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:221:221,0:221:7912:0:0:0,-66.5276,-709.986 0/0:211:211,0:211:7576:0:0:0,-63.5173,-681.249 0/1:254:125,129:125:4492:129:4606:-337.453,0,-327.294 0/0:224:223,1:223:8001:1:36:0,-63.835,-716.25 0/1:246:105,141:105:3764:141:4996:-375.145,0,-264.706 0/1:93:54,39:54:1936:39:1389:-96.939,0,-146.468 0/0:294:293,1:293:10521:1:36:0,-84.9136,-942.846 1/1:201:0,201:0:0:201:7197:-645.694,-60.507,0 0/1:294:124,170:124:4451:170:6048:-455.477,0,-312.004 0/1:23:13,10:13:464:10:360:-25.7742,0,-35.1692 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2178 0/1:54:25,29:25:896:29:1044:-77.8819,0,-64.6467 0/1:63:28,35:28:1008:35:1252:-93.5023,0,-72.0715 0/0:179:179,0:179:6408:0:0:0,-53.8844,-576.414 0/0:341:340,1:340:12182:1:36:0,-99.0555,-1092.46 0/0:165:165,0:165:5916:0:0:0,-49.6699,-532.496 0/0:154:154,0:154:5508:0:0:0,-46.3586,-495.805 0/1:142:74,68:74:2655:68:2425:-175.013,0,-196.364 0/1:53:34,19:34:1208:19:672:-44.4393,0,-92.6437 0/0:123:122,1:122:4376:1:36:0,-33.4335,-390.272 0/0:67:67,0:67:2403:0:0:0,-20.169,-216.471 chr11 5842 . 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C T 38134.9 PASS AB=0.444043;ABP=33.1444;AC=31;AF=0.738095;AN=42;AO=1769;CIGAR=1X;DP=2609;DPB=2609;DPRA=0.545662;EPP=3672.59;EPPR=1762.41;GTI=1;LEN=1;MEANALT=1.1;MQM=59.909;MQMR=59.9117;NS=21;NUMALT=1;ODDS=9.39422;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63178;QR=29838;RO=838;RPL=20;RPP=3672.59;RPPR=1762.41;RPR=1749;RUN=1;SAF=1769;SAP=3844.34;SAR=0;SRF=838;SRP=1822.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:162:2,160:2:72:160:5660:-502.676,-41.9301,0 1/1:141:0,141:0:0:141:5035:-453.296,-42.4452,0 0/1:136:85,50:85:3035:50:1796:-120.923,0,-232.252 1/1:70:0,70:0:0:70:2512:-226.331,-21.0721,0 0/1:238:125,113:125:4437:113:4005:-288.942,0,-327.85 0/1:88:58,30:58:2080:30:1068:-69.9414,0,-160.979 1/1:173:0,173:0:0:173:6180:-556.252,-52.0782,0 0/0:219:219,0:219:7810:0:0:0,-65.9256,-702.818 0/1:214:123,90:123:4336:90:3223:-225.812,0,-325.929 0/1:46:21,25:21:752:25:896:-66.3337,0,-54.1589 1/1:12:1,11:1:36:11:396:-32.3845,-0.0140851,0 0/1:55:40,15:40:1432:15:540:-32.3799,0,-112.621 0/1:85:46,39:46:1652:39:1383:-99.1805,0,-123.381 1/1:84:0,84:0:0:84:3008:-270.951,-25.2865,0 1/1:302:2,300:2:63:300:10719:-958.588,-84.9279,0 1/1:131:0,131:0:0:131:4686:-421.899,-39.4349,0 1/1:76:0,76:0:0:76:2722:-245.222,-22.8783,0 0/1:173:97,76:97:3466:76:2720:-192.965,0,-260.073 0/1:73:19,54:19:667:54:1940:-152.901,0,-38.3794 1/1:88:0,88:0:0:88:3141:-282.914,-26.4906,0 1/1:43:0,43:0:0:43:1548:-139.613,-12.9443,0 chr11 98517 . GTAAA GGAAG,TGAAG 117936 PASS AB=0.565243,0.432417;ABP=66.1965,70.8113;AC=31,11;AF=0.738095,0.261905;AN=42;AO=3465,968;CIGAR=1M1X2M1X,2X2M1X;DP=4448;DPB=4449;DPRA=0.956335,1.06643;EPP=7527.16,2105;EPPR=7.35324;GTI=1;LEN=5,5;MEANALT=2.4,2.64706;MQM=59.9469,59.8729;MQMR=60;NS=21;NUMALT=2;ODDS=27.1549;PAIRED=0,0;PAIREDR=0;PAO=2,1;PQA=65.5,31.5;PQR=34;PRO=2;QA=121251,33955;QR=72;RO=2;RPL=1795,853;RPP=12.8023,1224.79;RPPR=7.35324;RPR=1670,115;RUN=1,1;SAF=1795,853;SAP=12.8023,1224.79;SAR=1670,115;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:275:0,271,2:0:0:271,2:9471,72:-852.055,-81.5791,0,-846.18,-75.6569,-845.578 1/1:274:0,273,1:0:0:273,1:9557,36:-859.69,-82.1812,0,-856.753,-78.8839,-856.452 1/2:176:0,86,90:0:0:86,90:3018,3141:-501.419,-255.809,-229.92,-245.96,0,-218.868 1/1:228:0,227,1:0:0:227,1:7954,36:-715.545,-68.3338,0,-712.607,-65.0366,-712.306 1/2:299:0,170,128:0:0:170,128:5957,4467:-848.111,-363.439,-312.264,-484.786,0,-446.254 1/2:115:0,56,59:0:0:56,59:1982,2088:-331.811,-170.365,-153.507,-161.733,0,-143.972 1/1:347:0,346,0:0:0:346,0:12043,0:-1083.38,-104.156,0,-1083.38,-104.156,-1083.38 2/2:221:0,0,220:0:0:0,220:0,7748:-697.024,-697.024,-697.024,-66.2266,-66.2266,0 1/2:418:0,178,240:0:0:178,240:6247,8395:-1191.6,-683.199,-629.616,-508.753,0,-436.506 1/2:53:0,32,21:0:0:32,21:1125,752:-153.254,-61.6849,-52.0519,-91.9241,0,-85.6024 1/1:15:0,14,1:0:0:14,1:497,35:-44.7149,-4.21442,0,-41.8675,-1.01682,-41.5665 1/2:80:0,40,39:0:0:40,39:1418,1381:-228.04,-112.518,-100.477,-115.545,0,-103.805 1/2:168:0,121,45:0:0:121,45:4257,1580:-475.176,-128.636,-92.2113,-346.584,0,-333.038 1/1:164:0,164,0:0:0:164,0:5713,0:-514.263,-49.3689,0,-514.263,-49.3689,-514.263 1/1:426:2,420,2:2:72:420,2:14756,62:-1320.99,-120.541,0,-1316.62,-121.464,-1321.89 1/1:261:0,259,1:0:0:259,1:9052,36:-814.343,-77.9668,0,-811.405,-75.0094,-811.104 1/1:235:0,232,1:0:0:232,1:8066,29:-725.681,-69.839,0,-723.373,-67.5353,-723.072 1/2:217:0,119,98:0:0:119,98:4208,3434:-622.513,-279.779,-243.956,-343.085,0,-313.585 1/2:183:0,164,19:0:0:164,19:5719,663:-519.397,-54.2732,-4.90428,-465.472,0,-459.753 1/1:178:0,178,0:0:0:178,0:6172,0:-555.534,-53.5833,0,-555.534,-53.5833,-555.534 1/1:115:0,115,0:0:0:115,0:4039,0:-363.705,-34.6185,0,-363.705,-34.6185,-363.705 chr11 148481 . AAGAGG AAGGGAGAGA,AAGGGAGA 12935.4 PASS AB=0.370757,0.592689;ABP=58.5784,31.591;AC=30,12;AF=0.714286,0.285714;AN=42;AO=431,286;CIGAR=1M4I4M1X,2M2I3M1X;DP=742;DPB=1135.67;DPRA=0.739362,2.62681;EPP=938.915,624.051;EPPR=0;GTI=2;LEN=10,8;MEANALT=2.9,3.23529;MQM=49.3828,59.1678;MQMR=0;NS=21;NUMALT=2;ODDS=0.219996;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=50,50;PQR=0;PRO=1;QA=13805,9600;QR=0;RO=0;RPL=0,0;RPP=938.915,624.051;RPPR=0;RPR=431,286;RUN=1,1;SAF=0,0;SAP=938.915,624.051;SAR=431,286;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,19,2:0:0:19,2:614,68:-54.8171,-5.71957,0,-49.3058,-0.183685,-48.7038 1/1:24:0,24,0:0:0:24,0:791,0:-70.9758,-7.22472,0,-70.9758,-7.22472,-70.9758 1/2:40:0,11,29:0:0:11,29:347,987:-108.211,-80.3897,-77.0784,-28.1432,0,-19.4134 1/2:40:0,33,5:0:0:33,5:1093,170:-101.888,-13.8494,-3.91545,-88.0979,0,-86.5928 1/2:44:0,15,29:0:0:15,29:484,981:-118.716,-79.8083,-75.2928,-39.2351,0,-30.5052 1/2:30:0,6,20:0:0:6,20:195,671:-70.0472,-54.3781,-52.5719,-15.6848,0,-9.66418 1/1:33:0,31,2:0:0:31,2:986,63:-88.4021,-9.33193,0,-83.3358,-3.95055,-82.7337 2/2:47:0,0,47:0:0:0,47:0,1560:-140.632,-140.632,-140.632,-14.1484,-14.1484,0 1/2:108:0,36,69:0:0:36,69:1183,2308:-282.263,-186.94,-176.103,-95.3849,0,-74.6139 1/2:6:0,2,3:0:0:2,3:64,99:-13.1541,-8.01749,-7.41543,-5.14454,0,-4.24145 1/1:4:0,4,0:0:0:4,0:118,0:-10.8941,-1.20412,0,-10.8941,-1.20412,-10.8941 1/2:9:0,2,7:0:0:2,7:64,228:-23.8683,-18.7312,-18.1292,-5.45748,0,-3.35027 1/2:35:0,8,24:0:0:8,24:249,820:-86.4716,-66.5315,-64.1233,-19.9304,0,-12.7057 1/1:71:0,61,4:0:0:61,4:1939,126:-173.965,-18.3628,0,-163.84,-8.22846,-162.636 1/1:73:0,70,1:0:0:70,1:2220,35:-198.69,-21.0721,0,-195.841,-18.2104,-195.54 1/1:17:0,16,1:0:0:16,1:527,34:-47.2913,-4.81648,0,-44.5326,-1.7186,-44.2316 1/1:17:0,17,0:0:0:17,0:547,0:-49.4316,-5.11751,0,-49.4316,-5.11751,-49.4316 1/2:42:0,17,24:0:0:17,24:540,821:-109.851,-66.5742,-61.4567,-43.2651,0,-36.0404 1/2:29:0,12,17:0:0:12,17:391,558:-76.8885,-45.409,-41.7967,-31.8057,0,-26.6882 1/1:35:0,31,2:0:0:31,2:941,71:-84.2644,-9.33193,0,-78.4762,-3.50931,-77.8741 1/1:16:0,16,0:0:0:16,0:512,0:-46.1506,-4.81648,0,-46.1506,-4.81648,-46.1506 chr11 208831 . A G 7333.98 PASS AB=0.465991;ABP=9.9521;AC=11;AF=0.261905;AN=42;AO=418;CIGAR=1X;DP=1484;DPB=1484;DPRA=1.31111;EPP=910.686;EPPR=2315.63;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9641;MQMR=59.969;NS=21;NUMALT=1;ODDS=3.71187;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14904;QR=37540;RO=1065;RPL=418;RPP=910.686;RPPR=2315.63;RPR=0;RUN=1;SAF=0;SAP=910.686;SAR=418;SRF=0;SRP=2315.63;SRR=1065;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:84:83,1:83:2934:1:32:0,-22.0872,-260.824 0/0:41:41,0:41:1426:0:0:0,-12.3422,-128.632 0/1:66:34,32:34:1205:32:1125:-81.688,0,-88.8859 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.549 0/1:154:76,78:76:2698:78:2777:-203.811,0,-196.703 0/1:82:36,46:36:1277:46:1648:-123.924,0,-90.5466 0/0:127:127,0:127:4495:0:0:0,-38.2308,-404.715 1/1:94:0,94:0:0:94:3356:-302.212,-28.2968,0 0/1:153:77,76:77:2722:76:2698:-197.007,0,-199.164 0/1:8:3,5:3:78:5:180:-14.1438,0,-4.87005 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:19:11,8:11:392:8:288:-20.5478,0,-29.9005 0/1:74:37,36:37:1300:36:1292:-94.2488,0,-94.9655 0/0:58:58,0:58:2046:0:0:0,-17.4597,-184.408 0/0:120:120,0:120:4210:0:0:0,-36.1236,-379.078 0/0:41:41,0:41:1412:0:0:0,-12.3422,-127.368 0/0:43:43,0:43:1521:0:0:0,-12.9443,-137.181 0/1:71:48,23:48:1671:23:828:-53.471,0,-129.298 0/1:64:46,18:46:1633:18:644:-39.0247,0,-127.991 0/0:75:74,1:74:2591:1:36:0,-18.979,-229.838 0/0:21:21,0:21:737:0:0:0,-6.32163,-66.6506 chr11 228484 . A G 32859.7 PASS AB=0.4774;ABP=19.5975;AC=11;AF=0.261905;AN=42;AO=1936;CIGAR=1X;DP=6138;DPB=6138;DPRA=1.06645;EPP=4206.98;EPPR=9088.48;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9995;MQMR=59.9812;NS=21;NUMALT=1;ODDS=23.3107;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69081;QR=149252;RO=4200;RPL=0;RPP=4206.98;RPPR=9123.19;RPR=1936;RUN=1;SAF=1936;SAP=4206.98;SAR=0;SRF=4196;SRP=9088.48;SRR=4;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:117:116,1:116:4115:1:36:0,-31.6222,-366.932 0/0:134:133,1:133:4750:1:36:0,-36.7397,-424.057 0/1:90:47,43:47:1692:43:1540:-111.8,0,-125.474 0/0:157:155,2:155:5489:2:72:0,-40.425,-487.298 0/1:260:126,133:126:4505:133:4757:-349.96,0,-327.288 0/1:128:76,52:76:2698:52:1849:-128.156,0,-204.53 0/0:190:189,1:189:6720:1:32:0,-53.9964,-601.674 1/1:145:1,144:1:36:144:5130:-458.243,-40.0511,0 0/1:251:124,127:124:4437:127:4545:-333.656,0,-323.941 0/1:604:311,293:311:11001:293:10443:-757.969,0,-806.849 0/0:881:881,0:881:31146:0:0:0,-265.207,-2802.19 0/1:950:514,435:514:18299:435:15558:-1113.88,0,-1360.46 0/1:119:62,57:62:2228:57:2010:-145.347,0,-164.961 0/0:123:123,0:123:4371:0:0:0,-37.0267,-393.562 0/0:191:191,0:191:6811:0:0:0,-57.4967,-613.059 0/0:162:161,1:161:5743:1:36:0,-45.1686,-513.385 0/0:103:102,1:102:3596:1:36:0,-27.4078,-320.245 0/1:1224:610,614:610:21815:614:21885:-1600.62,0,-1594.32 0/1:113:82,31:82:2839:31:1116:-66.7353,0,-221.725 0/0:123:123,0:123:4386:0:0:0,-37.0267,-394.91 0/0:73:73,0:73:2575:0:0:0,-21.9752,-231.996 chr11 228527 . T C 163020 PASS AB=0.516973;ABP=15.2469;AC=31;AF=0.738095;AN=42;AO=6304;CIGAR=1X;DP=8982;DPB=8982;DPRA=0;EPP=13657.3;EPPR=5807.36;GTI=0;LEN=1;MEANALT=1.2381;MQM=59.8796;MQMR=59.982;NS=21;NUMALT=1;ODDS=69.039;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=222284;QR=95282;RO=2673;RPL=4107;RPP=1259.63;RPPR=1090.49;RPR=2197;RUN=1;SAF=4103;SAP=1249.13;SAR=2201;SRF=1915;SRP=1090.49;SRR=758;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:317:4,312:4:144:312:11008:-977.205,-82.0518,0 1/1:253:0,253:0:0:253:8933:-803.681,-76.1606,0 0/1:193:82,111:82:2912:111:3873:-290.663,0,-204.215 1/1:335:4,331:4:144:331:11603:-1030.82,-87.5314,0 0/1:536:265,270:265:9436:270:9501:-693.617,0,-687.781 0/1:289:153,136:153:5411:136:4803:-345.183,0,-400.122 1/1:374:2,372:2:72:372:13104:-1172.31,-105.748,0 0/0:302:300,2:300:10672:2:68:0,-84.4533,-953.932 0/1:512:254,258:254:9047:258:9119:-666.57,0,-660.083 0/1:601:297,302:297:10620:302:10746:-786.321,0,-775.108 1/1:865:1,864:1:36:864:30359:-2727.84,-256.793,0 0/1:943:442,501:442:15791:501:17759:-1314.07,0,-1137.01 0/1:325:167,157:167:5953:157:5540:-400.979,0,-438.105 1/1:239:0,239:0:0:239:8365:-752.852,-71.9462,0 1/1:447:1,446:1:36:446:15736:-1412.31,-130.962,0 1/1:300:1,299:1:36:299:10527:-943.759,-86.7107,0 1/1:218:0,218:0:0:218:7744:-696.839,-65.6245,0 0/1:1293:641,652:641:22864:652:23001:-1680.25,0,-1667.93 0/1:198:57,141:57:2036:141:4994:-390.006,0,-123.908 1/1:311:2,309:2:72:309:10892:-973.229,-86.7836,0 1/1:131:0,131:0:0:131:4609:-414.975,-39.4349,0 chr11 246081 . CGAGAAGTTA CAAGAAGATC,CAAGATC 43870.7 PASS AB=0.518519,0.47619;ABP=5.82517,7.66346;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1809,548;CIGAR=1M1X5M1X1M1X,1M3D3M1X1M1X;DP=2369;DPB=2204.4;DPRA=1.21011,1.06223;EPP=3862.02,1192.98;EPPR=0;GTI=0;LEN=10,7;MEANALT=2.1,2.38462;MQM=44.5141,23.9964;MQMR=0;NS=21;NUMALT=2;ODDS=6.68686;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63316,19483;QR=0;RO=0;RPL=1801,548;RPP=3862.02,1192.98;RPPR=0;RPR=8,0;RUN=1,1;SAF=1809,548;SAP=3931.2,1192.98;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:258:0,256,0:0:0:256,0:8982,0:-795.698,-77.0637,0,-795.698,-77.0637,-795.698 1/1:106:0,106,0:0:0:106,0:3717,0:-330.059,-31.9092,0,-330.059,-31.9092,-330.059 1/2:81:0,55,26:0:0:55,26:1930,926:-202.164,-47.872,-31.3154,-154.563,0,-146.737 1/1:77:0,77,0:0:0:77,0:2694,0:-239.074,-23.1793,0,-239.074,-23.1793,-239.074 1/2:237:0,130,103:0:0:130,103:4505,3646:-549.106,-188.37,-149.236,-360.736,0,-329.73 1/2:109:0,55,54:0:0:55,54:1932,1920:-254.215,-99.1511,-82.5945,-155.355,0,-139.099 1/1:143:0,142,0:0:0:142,0:5021,0:-444.962,-42.7463,0,-444.962,-42.7463,-444.962 2/2:94:0,0,94:0:0:0,94:0,3346:-200.733,-200.733,-200.733,-28.2968,-28.2968,0 1/2:255:0,120,135:0:0:120,135:4211,4798:-584.129,-247.261,-211.138,-337.163,0,-296.524 1/2:21:0,8,13:0:0:8,13:271,458:-45.7236,-24.014,-21.6058,-22.0068,0,-18.0934 1/1:6:0,6,0:0:0:6,0:207,0:-18.7328,-1.80618,0,-18.7328,-1.80618,-18.7328 1/2:18:0,8,10:0:0:8,10:284,360:-41.4224,-18.5888,-16.1806,-23.1334,0,-20.1231 1/2:132:0,59,73:0:0:59,73:2069,2614:-299.898,-134.093,-116.332,-166.102,0,-144.127 1/1:159:0,158,1:0:0:158,1:5514,32:-489.702,-47.5627,0,-487.901,-45.5274,-487.6 1/1:221:0,217,2:0:0:217,2:7614,72:-674.954,-65.3235,0,-671.284,-61.6746,-670.682 1/1:123:0,123,0:0:0:123,0:4306,0:-382.116,-37.0267,0,-382.116,-37.0267,-382.116 1/1:104:0,103,0:0:0:103,0:3552,0:-314.518,-31.0061,0,-314.518,-31.0061,-314.518 1/2:38:0,20,18:0:0:20,18:715,630:-90.4585,-33.101,-27.0804,-57.6485,0,-52.23 1/2:54:0,35,18:0:0:35,18:1225,645:-130.536,-33.0028,-22.4668,-97.556,0,-92.1374 1/1:81:0,79,1:0:0:79,1:2768,36:-245.166,-23.7814,0,-243.333,-22.0075,-243.032 1/1:52:0,52,0:0:0:52,0:1799,0:-158.833,-15.6536,0,-158.833,-15.6536,-158.833 chr11 279004 . CG AG,AC 14491 PASS AB=0.55832,0.44168;ABP=22.0065,22.0065;AC=30,12;AF=0.714286,0.285714;AN=42;AO=915,285;CIGAR=1X1M,2X;DP=1200;DPB=1200;DPRA=0,0.972705;EPP=1981.23,621.88;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.61905,2;MQM=27.1246,31.1509;MQMR=0;NS=21;NUMALT=2;ODDS=1.8276;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24755,10060;QR=0;RO=0;RPL=1,0;RPP=1981.23,621.88;RPPR=0;RPR=914,285;RUN=1,1;SAF=2,0;SAP=1972.57,621.88;SAR=913,285;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67,0:0:0:67,0:1803,0:-144.567,-20.169,0,-144.567,-20.169,-144.567 1/1:39:0,39,0:0:0:39,0:1071,0:-86.0829,-11.7402,0,-86.0829,-11.7402,-86.0829 1/2:86:0,47,39:0:0:47,39:1255,1371:-179.837,-93.7828,-79.6344,-86.3259,0,-74.5857 1/1:95:0,95,0:0:0:95,0:2562,0:-205.545,-28.5979,0,-205.545,-28.5979,-205.545 1/1:138:0,138,0:0:0:138,0:3731,0:-298.81,-41.5421,0,-298.81,-41.5421,-298.81 1/2:30:0,17,13:0:0:17,13:459,450:-58.8849,-27.3055,-22.188,-31.8333,0,-27.9199 1/2:108:0,69,39:0:0:69,39:1873,1370:-212.74,-83.4857,-62.7146,-129.515,0,-117.774 1/2:76:0,52,24:0:0:52,24:1412,842:-151.86,-54.5297,-38.8761,-97.6011,0,-90.3764 1/2:89:0,55,34:0:0:55,34:1492,1200:-188.283,-85.4408,-68.8842,-103.127,0,-92.8921 1/2:9:0,4,5:0:0:4,5:102,178:-18.8542,-11.8032,-10.5991,-7.30734,0,-5.80219 1/1:5:0,5,0:0:0:5,0:135,0:-11.0373,-1.50515,0,-11.0373,-1.50515,-11.0373 1/2:21:0,3,18:0:0:3,18:81,636:-47.4742,-41.9061,-41.003,-5.81524,0,-0.3967 1/1:39:0,39,0:0:0:39,0:1054,0:-84.5492,-11.7402,0,-84.5492,-11.7402,-84.5492 1/1:60:0,60,0:0:0:60,0:1622,0:-130.172,-18.0618,0,-130.172,-18.0618,-130.172 1/2:97:0,50,47:0:0:50,47:1354,1661:-207.937,-114.32,-99.2689,-93.8897,0,-79.7413 1/2:22:0,18,4:0:0:18,4:485,144:-44.0988,-10.8067,-5.38813,-33.6013,0,-32.3972 1/2:25:0,20,5:0:0:20,5:538,180:-50.3475,-13.4272,-7.40658,-37.2278,0,-35.7227 1/2:56:0,13,43:0:0:13,43:360,1542:-124.044,-99.0848,-95.1714,-25.2162,0,-12.2719 1/2:24:0,11,13:0:0:11,13:297,450:-50.5171,-30.0965,-26.7851,-20.6827,0,-16.7693 1/1:92:0,91,1:0:0:91,1:2472,36:-198.109,-27.3937,0,-195.797,-24.792,-195.496 1/1:22:0,22,0:0:0:22,0:597,0:-48.02,-6.62266,0,-48.02,-6.62266,-48.02 chr11 279024 . C A 11960.8 PASS AB=0.572086;ABP=32.4384;AC=30;AF=0.714286;AN=42;AO=939;CIGAR=1X;DP=1219;DPB=1219;DPRA=0;EPP=1990.24;EPPR=602.368;GTI=2;LEN=1;MEANALT=1;MQM=26.9521;MQMR=31.2321;NS=21;NUMALT=1;ODDS=1.75526;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33621;QR=9998;RO=280;RPL=934;RPP=1998.82;RPPR=602.368;RPR=5;RUN=1;SAF=1;SAP=2033.35;SAR=938;SRF=0;SRP=611.023;SRR=280;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,70:0:0:70:2516:-166.206,-21.0721,0 1/1:40:0,40:0:0:40:1436:-96.0939,-12.0412,0 0/1:88:40,48:40:1432:48:1716:-87.006,0,-82.3042 1/1:96:0,96:0:0:96:3398:-225.332,-28.8989,0 1/1:134:0,134:0:0:134:4801:-318.359,-40.338,0 0/1:29:12,17:12:432:17:612:-32.0586,0,-20.7723 0/1:106:36,70:36:1287:70:2512:-134.785,0,-56.5956 0/1:77:24,53:24:860:53:1900:-103.002,0,-39.329 0/1:91:34,57:34:1205:57:2052:-109.328,0,-68.3401 0/1:9:5,4:5:180:4:144:-7.09055,0,-10.6434 1/1:5:0,5:0:0:5:165:-11.5899,-1.50515,0 0/1:21:17,4:17:612:4:144:-2.7779,0,-39.4764 1/1:39:0,39:0:0:39:1404:-93.3098,-11.7402,0 1/1:64:0,64:0:0:64:2304:-153.363,-19.2659,0 0/1:98:47,51:47:1662:51:1809:-92.6453,0,-98.6017 0/1:23:4,19:4:144:19:684:-38.0421,0,-5.0871 0/1:28:5,23:5:176:23:828:-45.6368,0,-6.29879 0/1:57:43,14:43:1540:14:496:-16.9457,0,-94.8403 0/1:25:12,13:12:432:13:468:-23.0405,0,-24.939 1/1:96:1,95:1:36:95:3404:-222.578,-25.9961,0 1/1:23:0,23:0:0:23:828:-54.3177,-6.92369,0 chr11 279051 . A C 11383.4 PASS AB=0.564945;ABP=26.4207;AC=30;AF=0.714286;AN=42;AO=924;CIGAR=1X;DP=1204;DPB=1204;DPRA=0;EPP=2000.77;EPPR=611.023;GTI=2;LEN=1;MEANALT=1;MQM=26.7587;MQMR=30.8036;NS=21;NUMALT=1;ODDS=0.98779;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33030;QR=10016;RO=280;RPL=924;RPP=2009.45;RPPR=611.023;RPR=0;RUN=1;SAF=1;SAP=2000.77;SAR=923;SRF=0;SRP=611.023;SRR=280;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,70:0:0:70:2512:-166.145,-21.0721,0 1/1:38:0,38:0:0:38:1368:-90.1636,-11.4391,0 0/1:84:38,46:38:1360:46:1617:-82.6772,0,-78.3368 1/1:96:0,96:0:0:96:3421:-226.478,-28.8989,0 1/1:138:0,138:0:0:138:4934:-325.198,-41.5421,0 0/1:30:13,17:13:460:17:612:-31.7575,0,-22.8327 0/1:106:39,67:39:1388:67:2396:-125.517,0,-63.6232 0/1:73:22,51:22:784:51:1813:-97.6765,0,-34.5781 0/1:89:33,56:33:1184:56:2000:-106.874,0,-68.0304 0/1:9:5,4:5:180:4:144:-7.09055,0,-10.6434 1/1:5:0,5:0:0:5:176:-12.1213,-1.50515,0 0/1:20:16,4:16:576:4:144:-3.07893,0,-34.9131 1/1:39:0,39:0:0:39:1385:-92.6663,-11.7402,0 1/1:62:0,62:0:0:62:2220:-147.874,-18.6639,0 0/1:96:47,49:47:1676:49:1756:-88.0557,0,-100.458 0/1:22:4,18:4:144:18:640:-35.8802,0,-5.38813 0/1:28:5,23:5:180:23:828:-45.6368,0,-6.50349 0/1:56:43,13:43:1544:13:464:-14.3343,0,-95.2149 0/1:26:13,13:13:468:13:468:-22.7395,0,-26.7695 1/1:95:2,93:2:72:93:3344:-213.15,-23.2408,0 1/1:22:0,22:0:0:22:788:-51.2842,-6.62266,0 chr11 313495 . TG CA,TA 58772.2 PASS AB=0.485024,0.513043;ABP=5.02652,4.53977;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2052,614;CIGAR=2X,1M1X;DP=2672;DPB=2672;DPRA=1.66282,0.974614;EPP=4269.83,1284.69;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.95,2.14286;MQM=59.9376,59.9642;MQMR=0;NS=21;NUMALT=2;ODDS=6.3905;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72625,21789;QR=0;RO=0;RPL=22,6;RPP=4269.83,1284.69;RPPR=0;RPR=2030,608;RUN=1,1;SAF=2052,614;SAP=4458.87,1336.29;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:242:0,239,2:0:0:239,2:8468,72:-761.768,-71.9462,0,-755.893,-66.0713,-755.291 1/1:88:0,88,0:0:0:88,0:3100,0:-279.219,-26.4906,0,-279.219,-26.4906,-279.219 1/2:61:0,35,25:0:0:35,25:1240,888:-173.366,-72.3536,-61.8176,-101.007,0,-93.4816 1/1:153:0,152,0:0:0:152,0:5385,0:-484.425,-45.7566,0,-484.425,-45.7566,-484.425 1/2:318:0,146,171:0:0:146,171:5134,6066:-911.971,-494.312,-450.362,-417.751,0,-366.275 1/2:131:0,67,64:0:0:67,64:2391,2264:-379.675,-184.758,-164.589,-195.272,0,-176.006 1/1:171:0,170,0:0:0:170,0:5989,0:-538.839,-51.1751,0,-538.839,-51.1751,-538.839 2/2:78:0,0,78:0:0:0,78:0,2760:-248.644,-248.644,-248.644,-23.4803,-23.4803,0 1/2:149:0,45,104:0:0:45,104:1573,3712:-430.936,-302.976,-289.429,-128.312,0,-97.0047 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/1:6:0,6,0:0:0:6,0:214,0:-19.6078,-1.80618,0,-19.6078,-1.80618,-19.6078 1/2:26:0,18,8:0:0:18,8:648,276:-75.6509,-22.767,-17.3485,-53.2333,0,-50.8251 1/2:114:0,54,60:0:0:54,60:1936,2136:-332.264,-174.36,-158.105,-158.261,0,-140.199 1/1:135:0,134,1:0:0:134,1:4755,36:-427.745,-40.338,0,-424.808,-37.0408,-424.507 1/1:237:0,237,0:0:0:237,0:8418,0:-757.627,-71.3441,0,-757.627,-71.3441,-757.627 1/1:163:0,162,0:0:0:162,0:5784,0:-520.425,-48.7669,0,-520.425,-48.7669,-520.425 1/1:117:0,116,1:0:0:116,1:4085,36:-367.471,-34.9195,0,-364.533,-31.6222,-364.232 1/2:93:0,43,50:0:0:43,50:1513,1776:-268.235,-145.072,-132.127,-123.517,0,-108.465 1/2:139:0,91,48:0:0:91,48:3191,1695:-398.043,-138.386,-110.992,-260.009,0,-245.56 1/1:159:0,158,1:0:0:158,1:5603,36:-504.03,-47.5627,0,-501.093,-44.2655,-500.792 1/1:88:0,88,0:0:0:88,0:3090,0:-278.18,-26.4906,0,-278.18,-26.4906,-278.18 chr11 319892 . TT TC,CC 29542.3 PASS AB=0.491525,0.508475;ABP=3.37835,3.37835;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1043,351;CIGAR=1M1X,2X;DP=1395;DPB=1395;DPRA=1.345,0.931521;EPP=2267.86,765.197;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.55,1.90909;MQM=53.5312,51.4103;MQMR=0;NS=21;NUMALT=2;ODDS=9.38986;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37013,12314;QR=0;RO=0;RPL=0,0;RPP=2267.86,765.197;RPPR=0;RPR=1043,351;RUN=1,1;SAF=0,0;SAP=2267.86,765.197;SAR=1043,351;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,124,0:0:0:124,0:4358,0:-388.319,-37.3277,0,-388.319,-37.3277,-388.319 1/1:98:0,98,0:0:0:98,0:3481,0:-312.933,-29.5009,0,-312.933,-29.5009,-312.933 1/2:47:0,22,25:0:0:22,25:788,880:-132.052,-70.1388,-63.5162,-62.2585,0,-54.7328 1/1:32:0,32,0:0:0:32,0:1152,0:-103.846,-9.63296,0,-103.846,-9.63296,-103.846 1/2:184:0,105,79:0:0:105,79:3719,2791:-522.612,-226.879,-195.271,-296.083,0,-272.301 1/2:33:0,15,18:0:0:15,18:516,626:-93.0101,-51.1485,-46.633,-42.2068,0,-36.7883 1/1:59:0,59,0:0:0:59,0:2107,0:-189.711,-17.7608,0,-189.711,-17.7608,-189.711 2/2:50:0,0,50:0:0:0,50:0,1730:-155.606,-155.606,-155.606,-15.0515,-15.0515,0 1/2:42:0,23,19:0:0:23,19:816,673:-121.37,-54.9813,-48.0576,-66.742,0,-61.0225 1/2:18:0,9,9:0:0:9,9:316,324:-52.3974,-26.7129,-24.0036,-26.0392,0,-23.33 1/1:4:0,4,0:0:0:4,0:144,0:-13.2853,-1.20412,0,-13.2853,-1.20412,-13.2853 1/2:34:0,12,22:0:0:12,22:428,777:-98.2987,-63.4567,-59.8443,-35.1967,0,-28.574 1/2:71:0,30,41:0:0:30,41:1072,1434:-203.894,-116.635,-107.604,-87.6119,0,-75.2697 1/1:101:0,101,0:0:0:101,0:3582,0:-321.81,-30.404,0,-321.81,-30.404,-321.81 1/1:125:0,124,0:0:0:124,0:4396,0:-394.456,-37.3277,0,-394.456,-37.3277,-394.456 1/1:66:0,65,1:0:0:65,1:2328,36:-202.379,-19.567,0,-199.464,-16.2945,-199.163 1/1:63:0,63,0:0:0:63,0:2256,0:-202.783,-18.9649,0,-202.783,-18.9649,-202.783 1/2:114:0,46,68:0:0:46,68:1616,2376:-323.89,-193.139,-179.291,-131.1,0,-110.63 1/2:47:0,28,19:0:0:28,19:982,667:-133.931,-54.1456,-45.7167,-80.1343,0,-74.4148 1/1:38:0,38,0:0:0:38,0:1344,0:-121.071,-11.4391,0,-121.071,-11.4391,-121.071 1/1:45:0,45,0:0:0:45,0:1612,0:-145.152,-13.5464,0,-145.152,-13.5464,-145.152 chr11 354267 . CATT TATC,TATT 39373.2 PASS AB=0.402184,0.596906;ABP=94.3445,92.6532;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1593,755;CIGAR=1X2M1X,1X3M;DP=2350;DPB=2350;DPRA=0,1.28996;EPP=3462.17,1642.47;EPPR=5.18177;GTI=1;LEN=4,1;MEANALT=1.66667,2.07692;MQM=28.8914,59.6967;MQMR=60;NS=21;NUMALT=2;ODDS=3.83479;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=56510,27001;QR=30;RO=1;RPL=0,0;RPP=3462.17,1642.47;RPPR=5.18177;RPR=1593,755;RUN=1,1;SAF=1593,755;SAP=3462.17,1642.47;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117,0:0:0:117,0:4170,0:-303.097,-35.2205,0,-303.097,-35.2205,-303.097 1/1:120:0,120,0:0:0:120,0:4247,0:-274.189,-36.1236,0,-274.189,-36.1236,-274.189 1/2:104:0,52,52:0:0:52,52:1848,1865:-271.138,-152.203,-136.549,-119.258,0,-103.605 1/1:137:0,137,0:0:0:137,0:4826,0:-352.086,-41.2411,0,-352.086,-41.2411,-352.086 1/2:228:0,63,165:0:0:63,165:2246,5887:-624.787,-480.207,-461.242,-144.888,0,-95.2176 1/2:119:0,37,81:0:0:37,81:1326,2893:-310.533,-235.921,-224.783,-74.611,0,-50.2276 1/1:188:1,186,1:1:30:186,1:6611,36:-423.171,-53.6229,0,-420.534,-53.0242,-422.632 2/2:97:0,2,95:0:0:2,95:71,3397:-305.667,-301.359,-300.757,-28.5979,-24.0155,0 1/2:237:0,96,141:0:0:96,141:3391,5060:-639.121,-413.095,-384.197,-226.346,0,-183.901 1/2:41:0,13,28:0:0:13,28:448,1000:-109.191,-81.8489,-77.9355,-27.6374,0,-19.2086 1/1:4:0,4,0:0:0:4,0:143,0:-9.45789,-1.20412,0,-9.45789,-1.20412,-9.45789 1/2:49:0,37,12:0:0:37,12:1309,428:-114.244,-35.2464,-24.1083,-79.333,0,-75.7207 1/2:139:0,49,90:0:0:49,90:1750,3219:-374.681,-262.821,-248.07,-112.172,0,-85.0793 1/1:100:0,99,1:0:0:99,1:3502,36:-254.976,-29.802,0,-252.037,-26.5047,-251.736 1/1:148:0,148,0:0:0:148,0:5274,0:-383.476,-44.5524,0,-383.476,-44.5524,-383.476 1/1:84:0,84,0:0:0:84,0:3001,0:-225.826,-25.2865,0,-225.826,-25.2865,-225.826 1/1:112:0,112,0:0:0:112,0:3952,0:-299.152,-33.7154,0,-299.152,-33.7154,-299.152 1/2:127:0,62,65:0:0:62,65:2183,2320:-322.018,-189.48,-170.816,-132.851,0,-113.284 1/2:55:0,33,22:0:0:33,22:1179,788:-140.087,-64.5333,-54.5993,-75.8835,0,-69.2608 1/1:107:0,105,2:0:0:105,2:3708,72:-256.111,-31.6082,0,-250.234,-25.3735,-249.632 1/1:37:0,37,0:0:0:37,0:1325,0:-84.3996,-11.1381,0,-84.3996,-11.1381,-84.3996 chr11 354277 . ATCA TTCT,TTCA 38755.5 PASS AB=0.402394,0.588398;ABP=92.8765,76.7204;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1583,739;CIGAR=1X2M1X,1X3M;DP=2337;DPB=2337;DPRA=0,1.28192;EPP=3440.45,1607.73;EPPR=7.35324;GTI=1;LEN=4,1;MEANALT=2.14286,2.69231;MQM=28.8932,59.7835;MQMR=60;NS=21;NUMALT=2;ODDS=4.77849;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=55684,26415;QR=61;RO=2;RPL=0,0;RPP=3440.45,1607.73;RPPR=7.35324;RPR=1583,739;RUN=1,1;SAF=1583,739;SAP=3440.45,1607.73;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117,0:0:0:117,0:4113,0:-301.208,-35.2205,0,-301.208,-35.2205,-301.208 1/1:120:0,119,0:0:0:119,0:4171,0:-270.783,-35.8226,0,-270.783,-35.8226,-270.783 1/2:101:0,51,48:0:0:51,48:1787,1715:-255.848,-139.855,-124.502,-115.987,0,-101.537 1/1:136:0,135,0:0:0:135,0:4771,0:-347.735,-40.6391,0,-347.735,-40.6391,-347.735 1/2:227:0,63,164:0:0:63,164:2189,5863:-620.686,-478.27,-459.305,-142.721,0,-93.3521 1/2:119:1,37,80:1:25:37,80:1311,2855:-304.583,-230.853,-221.663,-72.0772,0,-49.9434 1/1:187:1,184,1:1:36:184,1:6531,36:-417.55,-52.4348,0,-414.913,-52.4348,-417.55 2/2:98:0,2,96:0:0:2,96:71,3422:-307.914,-303.606,-303.004,-28.8989,-24.3165,0 1/2:235:0,93,138:0:0:93,138:3292,4938:-624.42,-402.814,-374.818,-221.716,0,-180.174 1/2:38:0,13,24:0:0:13,24:460,860:-98.0728,-70.1619,-66.2485,-27.9138,0,-20.6891 1/1:4:0,4,0:0:0:4,0:144,0:-9.46721,-1.20412,0,-9.46721,-1.20412,-9.46721 1/2:48:0,37,11:0:0:37,11:1285,396:-111.235,-32.6714,-21.5333,-78.9029,0,-75.5916 1/2:139:0,49,90:0:0:49,90:1727,3215:-373.498,-262.465,-247.714,-111.344,0,-84.2509 1/1:101:0,100,1:0:0:100,1:3507,36:-256.647,-30.103,0,-253.708,-26.8058,-253.407 1/1:148:0,148,0:0:0:148,0:5246,0:-382.869,-44.5524,0,-382.869,-44.5524,-382.869 1/1:84:0,84,0:0:0:84,0:2918,0:-222.359,-25.2865,0,-222.359,-25.2865,-222.359 1/1:112:0,112,0:0:0:112,0:3948,0:-299.224,-33.7154,0,-299.224,-33.7154,-299.224 1/2:125:0,61,64:0:0:61,64:2121,2296:-317.163,-187.626,-169.263,-129.85,0,-110.584 1/2:54:0,33,20:0:0:33,20:1171,711:-133.401,-57.95,-48.016,-75.4396,0,-69.419 1/1:107:0,104,2:0:0:104,2:3622,72:-252.102,-31.3071,0,-246.225,-25.3738,-245.623 1/1:37:0,37,0:0:0:37,0:1299,0:-83.93,-11.1381,0,-83.93,-11.1381,-83.93 chr11 354291 . AT CC,AC 72728.7 PASS AB=0.322656,0.675597;ABP=472.06,462.863;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1899,1350;CIGAR=2X,1M1X;DP=3256;DPB=3300;DPRA=0,1.64493;EPP=4109.28,2917.15;EPPR=5.18177;GTI=2;LEN=2,1;MEANALT=1.95238,2.35714;MQM=33.9226,58.1585;MQMR=60;NS=21;NUMALT=2;ODDS=5.34208;PAIRED=0,0;PAIREDR=0;PAO=44,44;PQA=1570,1570;PQR=0;PRO=0;QA=66446,48100;QR=36;RO=1;RPL=1584,759;RPP=1844.43,48.4085;RPPR=5.18177;RPR=315,591;RUN=1,1;SAF=1586,761;SAP=1856.06,50.5961;SAR=313,589;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,157,1:0:0:157,1:5494,36:-426.174,-47.2617,0,-423.241,-44.286,-422.94 1/1:119:0,119,0:0:0:119,0:4162,0:-270.836,-35.8226,0,-270.836,-35.8226,-270.836 1/2:141:0,59,81:0:0:59,81:2081,2903:-375.546,-236.743,-218.982,-138.812,0,-114.429 1/1:182:0,181,0:0:0:181,0:6327,0:-489.073,-54.4864,0,-489.073,-54.4864,-489.073 1/2:457:0,98,359:0:0:98,359:3414,12758:-1280.12,-1038.37,-1008.87,-242.008,0,-133.938 1/2:120:0,38,82:0:0:38,82:1351,2948:-312.821,-236.8,-225.36,-72.3411,0,-47.6567 1/1:186:1,185,0:1:36:185,0:6528,0:-418.86,-52.3933,0,-419.161,-55.6906,-422.099 2/2:187:0,2,185:0:0:2,185:72,6617:-594.607,-590.285,-589.683,-55.6906,-51.3044,0 1/2:330:0,110,220:0:0:110,220:3861,7864:-906.359,-640.78,-607.667,-265.899,0,-199.672 1/2:44:0,15,29:0:0:15,29:512,1035:-117.093,-84.6946,-80.1792,-32.7005,0,-23.9706 1/1:4:0,4,0:0:0:4,0:133,0:-9.17861,-1.20412,0,-9.17861,-1.20412,-9.17861 1/2:70:0,44,26:0:0:44,26:1544,915:-173.981,-74.7114,-61.4661,-99.4818,0,-91.655 1/2:259:0,63,195:0:0:63,195:2206,6907:-712.009,-562.079,-543.114,-149.824,0,-91.1234 1/1:105:0,104,1:0:0:104,1:3678,27:-270.493,-31.3071,0,-268.364,-28.9084,-268.063 1/1:194:0,193,1:0:0:193,1:6787,36:-524.927,-58.0988,0,-521.99,-54.8015,-521.689 1/1:110:0,110,0:0:0:110,0:3861,0:-305.259,-33.1133,0,-305.259,-33.1133,-305.259 1/1:121:0,121,0:0:0:121,0:4207,0:-325.152,-36.4246,0,-325.152,-36.4246,-325.152 1/2:174:0,75,98:0:0:75,98:2574,3491:-450.554,-284.148,-261.57,-166.124,0,-136.623 1/2:122:0,52,70:0:0:52,70:1808,2491:-331.001,-202.78,-187.126,-128.491,0,-107.418 1/1:135:0,132,2:0:0:132,2:4549,72:-339.459,-39.736,0,-333.583,-33.8513,-332.981 1/1:37:0,37,0:0:0:37,0:1297,0:-83.8805,-11.1381,0,-83.8805,-11.1381,-83.8805 chr11 407625 . T A 25920.2 PASS AB=0.501282;ABP=3.02144;AC=31;AF=0.738095;AN=42;AO=1206;CIGAR=1X;DP=1790;DPB=1790;DPRA=0;EPP=2510.11;EPPR=1202.61;GTI=1;LEN=1;MEANALT=1;MQM=59.9992;MQMR=60;NS=21;NUMALT=1;ODDS=2.53741;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43240;QR=20864;RO=584;RPL=13;RPP=2510.11;RPPR=1202.61;RPR=1193;RUN=1;SAF=1206;SAP=2621.81;SAR=0;SRF=584;SRP=1271.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,86:0:0:86:3092:-278.506,-25.8886,0 1/1:42:0,42:0:0:42:1493:-134.663,-12.6433,0 0/1:71:31,40:31:1094:40:1432:-107.804,0,-77.3951 1/1:81:0,81:0:0:81:2916:-262.674,-24.3834,0 0/1:161:82,79:82:2940:79:2817:-205.302,0,-216.368 0/1:55:33,22:33:1184:22:792:-55.049,0,-90.3117 1/1:97:0,97:0:0:97:3480:-313.411,-29.1999,0 0/0:191:190,1:190:6803:1:36:0,-53.8985,-608.743 0/1:212:115,97:115:4112:97:3449:-246.804,0,-306.447 0/1:12:9,3:9:324:3:108:-6.46281,0,-25.8935 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:15:11,4:11:396:4:144:-8.79817,0,-31.4673 0/1:79:30,49:30:1065:49:1760:-134.903,0,-72.3784 1/1:63:0,63:0:0:63:2264:-204.022,-18.9649,0 1/1:234:0,234:0:0:234:8416:-757.438,-70.441,0 1/1:35:0,35:0:0:35:1260:-113.705,-10.5361,0 1/1:50:1,49:1:36:49:1749:-154.094,-11.4532,0 0/1:104:59,45:59:2091:45:1605:-113.431,0,-157.15 0/1:71:19,52:19:675:52:1872:-147.386,0,-39.7038 1/1:78:1,77:1:36:77:2766:-245.582,-19.8821,0 1/1:47:3,44:3:108:44:1573:-131.785,-4.07324,0 chr11 467804 . G A 36377.9 PASS AB=0.455056;ABP=21.7484;AC=31;AF=0.738095;AN=42;AO=1730;CIGAR=1X;DP=2489;DPB=2489;DPRA=0.66523;EPP=3759.66;EPPR=1651.16;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.33071;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61665;QR=26924;RO=759;RPL=0;RPP=3759.66;RPPR=1651.16;RPR=1730;RUN=1;SAF=0;SAP=3759.66;SAR=1730;SRF=0;SRP=1651.16;SRR=759;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:1,150:1:36:150:5364:-479.292,-41.8573,0 1/1:168:0,168:0:0:168:6024:-542.263,-50.573,0 0/1:170:89,81:89:3159:81:2885:-208.71,0,-233.359 1/1:86:0,86:0:0:86:3047:-274.457,-25.8886,0 0/1:245:148,97:148:5243:97:3445:-236.509,0,-398.258 0/1:53:27,26:27:964:26:936:-68.6049,0,-71.1222 1/1:163:0,163:0:0:163:5811:-523.103,-49.0679,0 0/0:174:174,0:174:6159:0:0:0,-52.3792,-554.412 0/1:274:147,127:147:5217:127:4513:-323.855,0,-387.187 0/1:32:7,25:7:252:25:891:-70.8758,0,-13.396 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:57:34,23:34:1205:23:828:-57.6854,0,-91.5952 0/1:78:56,22:56:1987:22:792:-48.1253,0,-155.623 1/1:120:0,120:0:0:120:4248:-382.499,-36.1236,0 1/1:193:0,193:0:0:193:6872:-618.549,-58.0988,0 1/1:51:0,51:0:0:51:1832:-165.161,-15.3525,0 1/1:96:0,96:0:0:96:3429:-308.822,-28.8989,0 0/1:121:55,66:55:1950:66:2359:-176.143,0,-139.35 0/1:38:19,19:19:680:19:675:-49.6378,0,-50.09 1/1:144:1,143:1:36:143:5059:-451.855,-39.75,0 1/1:68:1,67:1:36:67:2403:-212.928,-16.8718,0 chr11 479881 . A G 6933.62 PASS AB=0.42401;ABP=42.2826;AC=11;AF=0.261905;AN=42;AO=416;CIGAR=1X;DP=1807;DPB=1807;DPRA=1.20757;EPP=906.343;EPPR=3023.53;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9993;NS=21;NUMALT=1;ODDS=0.0733679;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14791;QR=49713;RO=1391;RPL=416;RPP=906.343;RPPR=3014.85;RPR=0;RUN=1;SAF=416;SAP=906.343;SAR=0;SRF=1390;SRP=3014.85;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:124:123,1:123:4380:1:36:0,-33.7294,-390.775 0/0:86:86,0:86:3080:0:0:0,-25.8886,-277.428 0/1:88:58,30:58:2088:30:1076:-70.6622,0,-161.699 0/0:88:88,0:88:3141:0:0:0,-26.4906,-282.914 0/1:185:97,88:97:3457:88:3133:-226.505,0,-255.651 0/1:112:72,40:72:2558:40:1393:-91.9494,0,-196.754 0/0:132:131,1:131:4700:1:36:0,-36.1377,-419.561 1/1:81:0,81:0:0:81:2880:-259.438,-24.3834,0 0/1:133:75,58:75:2688:58:2072:-146.714,0,-202.128 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:25:17,8:17:608:8:288:-18.7417,0,-47.5263 0/1:103:55,48:55:1967:48:1697:-122.008,0,-146.298 0/0:116:116,0:116:4143:0:0:0,-34.9195,-373.053 0/0:105:105,0:105:3753:0:0:0,-31.6081,-337.969 0/0:69:69,0:69:2464:0:0:0,-20.7711,-222.014 0/0:77:76,1:76:2712:1:36:0,-19.581,-240.726 0/1:48:18,30:18:640:30:1064:-81.6222,0,-43.4799 0/1:83:55,28:55:1972:28:1008:-66.0509,0,-152.769 0/0:73:73,0:73:2602:0:0:0,-21.9752,-234.428 0/0:62:62,0:62:2220:0:0:0,-18.6639,-200.064 chr11 522563 . GTTCC ATTCG,GTTCG 49050.2 PASS AB=0.548193,0.440763;ABP=23.103,33.3673;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1849,445;CIGAR=1X3M1X,4M1X;DP=2314;DPB=2313.8;DPRA=0,0.855715;EPP=4018.06,969.316;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.42857,2.625;MQM=59.9703,60;MQMR=60;NS=21;NUMALT=2;ODDS=23.595;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=65367,15896;QR=36;RO=1;RPL=1849,445;RPP=4018.06,969.316;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4018.06,969.316;SAR=1849,445;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:0,108,1:0:0:108,1:3817,36:-343.371,-32.5112,0,-340.434,-29.214,-340.133 1/1:131:0,130,1:0:0:130,1:4572,36:-411.292,-39.1339,0,-408.354,-35.8367,-408.053 1/2:107:0,49,58:0:0:49,58:1726,2063:-309,-168.481,-153.73,-140.873,0,-123.414 1/1:146:0,145,0:0:0:145,0:5173,0:-465.393,-43.6494,0,-465.393,-43.6494,-465.393 1/2:195:0,107,84:0:0:107,84:3778,2992:-551.521,-243.864,-211.654,-307.652,0,-282.366 1/2:78:0,39,39:0:0:39,39:1390,1404:-228.22,-114.919,-103.179,-113.658,0,-101.918 1/1:175:1,171,0:1:36:171,0:6043,0:-540.444,-48.5171,0,-540.745,-51.4761,-543.682 1/2:120:0,66,54:0:0:66,54:2309,1932:-345.749,-157.901,-138.033,-188.202,0,-171.946 1/2:146:0,76,69:0:0:76,69:2669,2463:-418.069,-200.842,-177.964,-217.27,0,-196.499 1/2:28:0,14,14:0:0:14,14:497,504:-81.9767,-41.4837,-37.2693,-40.8504,0,-36.636 1/1:6:0,6,0:0:0:6,0:211,0:-19.3333,-1.80618,0,-19.3333,-1.80618,-19.3333 1/2:31:0,15,15:0:0:15,15:526,540:-86.8612,-44.0613,-39.5458,-42.7957,0,-38.2803 1/2:155:0,105,47:0:0:105,47:3730,1684:-441.276,-137.339,-105.731,-303.935,0,-289.787 1/1:120:0,116,1:0:0:116,1:4092,32:-368.118,-34.9195,0,-365.54,-32.3491,-365.239 1/1:230:0,230,0:0:0:230,0:8121,0:-730.914,-69.2369,0,-730.914,-69.2369,-730.914 1/1:114:0,113,1:0:0:113,1:4021,36:-361.719,-34.0164,0,-358.782,-30.7191,-358.481 1/1:104:0,103,1:0:0:103,1:3629,36:-326.459,-31.0061,0,-323.522,-27.7088,-323.221 1/2:73:0,31,42:0:0:31,42:1113,1503:-213.712,-122.921,-113.589,-91.1498,0,-78.5065 1/2:63:0,44,17:0:0:44,17:1547,599:-174.754,-48.8286,-35.5833,-125.984,0,-120.867 1/1:121:0,120,1:0:0:120,1:4250,36:-382.324,-36.1236,0,-379.387,-32.8264,-379.086 1/1:62:0,61,0:0:0:61,0:2153,0:-193.678,-18.3628,0,-193.678,-18.3628,-193.678 chr11 538283 . C T 20314.2 PASS AB=0.603175;ABP=55.4358;AC=32;AF=0.761905;AN=42;AO=954;CIGAR=1X;DP=1182;DPB=1182;DPRA=0;EPP=2048.62;EPPR=495.935;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9937;MQMR=60;NS=21;NUMALT=1;ODDS=8.33625;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34083;QR=8060;RO=227;RPL=3;RPP=2048.62;RPPR=495.935;RPR=951;RUN=1;SAF=0;SAP=2074.59;SAR=954;SRF=0;SRP=495.935;SRR=227;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:55:1,54:1:36:54:1921:-169.567,-12.9584,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 0/1:60:24,36:24:860:36:1292:-98.522,0,-59.66 1/1:77:0,77:0:0:77:2760:-248.642,-23.1793,0 0/1:125:48,77:48:1712:77:2744:-209.574,0,-116.737 0/1:52:20,32:20:693:32:1133:-86.6231,0,-47.036 1/1:117:0,117:0:0:117:4169:-375.393,-35.2205,0 0/1:35:15,20:15:540:20:720:-54.5927,0,-38.4005 0/1:96:35,61:35:1242:61:2165:-166.216,0,-83.1842 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:24:7,17:7:252:17:612:-48.1887,0,-15.8042 0/1:64:26,38:26:908:38:1368:-104.155,0,-62.7666 1/1:67:0,67:0:0:67:2375:-214.007,-20.169,0 1/1:99:1,97:1:36:97:3480:-309.813,-26.2625,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 1/1:46:0,46:0:0:46:1648:-148.609,-13.8474,0 0/1:61:32,29:32:1133:29:1039:-75.4615,0,-83.9138 0/1:41:14,27:14:504:27:964:-74.7346,0,-33.3559 1/1:74:0,74:0:0:74:2645:-238.295,-22.2762,0 1/1:26:0,26:0:0:26:928:-83.8383,-7.82678,0 chr11 538454 . G A 8140.2 PASS AB=0.468126;ABP=12.285;AC=10;AF=0.238095;AN=42;AO=492;CIGAR=1X;DP=1860;DPB=1860;DPRA=1.42905;EPP=1062.71;EPPR=645.08;GTI=0;LEN=1;MEANALT=1;MQM=59.9126;MQMR=59.97;NS=21;NUMALT=1;ODDS=5.35187;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17619;QR=48636;RO=1368;RPL=1;RPP=1062.71;RPPR=645.08;RPR=491;RUN=1;SAF=0;SAP=1071.37;SAR=492;SRF=0;SRP=2973.58;SRR=1368;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:92:92,0:92:3274:0:0:0,-27.6948,-294.868 0/0:39:39,0:39:1388:0:0:0,-11.7402,-125.219 0/1:114:62,52:62:2191:52:1853:-132.73,0,-163.136 0/0:86:86,0:86:3026:0:0:0,-25.8886,-272.571 0/1:142:76,66:76:2699:66:2370:-170.81,0,-200.409 0/1:68:27,41:27:953:41:1471:-112.216,0,-65.6133 0/0:125:125,0:125:4464:0:0:0,-37.6287,-401.929 0/1:114:59,55:59:2108:55:1964:-142.716,0,-155.672 0/1:191:105,86:105:3764:86:3088:-220.646,0,-281.462 0/1:13:9,4:9:324:4:140:-9.03119,0,-25.5925 0/0:9:9,0:9:315:0:0:0,-2.70927,-28.6872 0/1:46:34,12:34:1220:12:428:-25.011,0,-96.2594 0/1:126:66,60:66:2343:60:2156:-156.372,0,-173.2 0/0:79:79,0:79:2795:0:0:0,-23.7814,-251.792 0/0:135:135,0:135:4820:0:0:0,-40.639,-433.954 0/0:55:55,0:55:1952:0:0:0,-16.5566,-175.956 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.349 0/1:162:77,85:77:2709:85:3033:-224.422,0,-195.285 0/1:75:44,31:44:1572:31:1116:-78.1744,0,-119.194 0/0:81:81,0:81:2894:0:0:0,-24.3834,-260.695 0/0:49:49,0:49:1713:0:0:0,-14.7505,-154.26 chr11 538654 . CGGTGAC TGCTGAC,CGCTGAT 26419.1 PASS AB=0.447653,0.545126;ABP=16.1959,12.8094;AC=32,10;AF=0.761905,0.238095;AN=42;AO=962,303;CIGAR=1X1M1X4M,2M1X3M1X;DP=1273;DPB=1273;DPRA=0,1.10706;EPP=2091.97,660.966;EPPR=0;GTI=0;LEN=7,7;MEANALT=1.90476,2.36364;MQM=57.0852,56.8977;MQMR=0;NS=21;NUMALT=2;ODDS=5.4387;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33586,10549;QR=0;RO=0;RPL=0,0;RPP=2091.97,660.966;RPPR=0;RPR=962,303;RUN=1,1;SAF=0,0;SAP=2091.97,660.966;SAR=962,303;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:0,73,0:0:0:73,0:2545,0:-228.634,-21.9752,0,-228.634,-21.9752,-228.634 1/1:41:0,41,0:0:0:41,0:1434,0:-129.329,-12.3422,0,-129.329,-12.3422,-129.329 1/2:80:0,31,49:0:0:31,49:1099,1716:-229.169,-139.691,-130.359,-89.8305,0,-75.0801 1/1:100:0,100,0:0:0:100,0:3483,0:-312.734,-30.103,0,-312.734,-30.103,-312.734 1/2:59:0,25,33:0:0:25,33:883,1160:-165.823,-93.9877,-86.4619,-71.9329,0,-61.9989 1/2:34:0,15,18:0:0:15,18:531,608:-92.4447,-49.2064,-44.6909,-43.2259,0,-37.8074 1/1:145:0,144,1:0:0:144,1:4974,28:-447.446,-43.3483,0,-445.228,-40.8498,-444.927 1/2:86:0,34,51:0:0:34,51:1208,1738:-239.465,-141.047,-130.812,-98.4844,0,-83.1319 1/2:113:0,35,77:0:0:35,77:1211,2709:-318.567,-220.261,-209.724,-98.2945,0,-75.1151 1/2:8:0,6,2:0:0:6,2:214,72:-23.6727,-6.23371,-4.42753,-17.7979,0,-17.1958 1/1:5:0,5,0:0:0:5,0:180,0:-16.4708,-1.50515,0,-16.4708,-1.50515,-16.4708 1/2:8:0,4,4:0:0:4,4:144,142:-23.675,-11.9237,-10.7196,-12.1086,0,-10.9044 1/2:53:0,25,28:0:0:25,28:892,985:-153.084,-80.3883,-72.8626,-73.0496,0,-64.6207 1/1:79:0,79,0:0:0:79,0:2720,0:-244.084,-23.7814,0,-244.084,-23.7814,-244.084 1/1:106:0,105,0:0:0:105,0:3709,0:-333.131,-31.6082,0,-333.131,-31.6082,-333.131 1/1:51:0,49,0:0:0:49,0:1719,0:-154.451,-14.7505,0,-154.451,-14.7505,-154.451 1/1:44:0,44,0:0:0:44,0:1557,0:-139.94,-13.2453,0,-139.94,-13.2453,-139.94 1/2:57:0,32,25:0:0:32,25:1124,867:-162.134,-70.7668,-61.1339,-91.7151,0,-84.1893 1/2:56:0,41,15:0:0:41,15:1374,524:-153.809,-42.7616,-30.4194,-111.392,0,-106.876 1/1:35:0,35,0:0:0:35,0:1247,0:-112.494,-10.5361,0,-112.494,-10.5361,-112.494 1/1:40:0,39,0:0:0:39,0:1338,0:-120.418,-11.7402,0,-120.418,-11.7402,-120.418 chr11 538835 . GC AA 4460.96 PASS AB=0.480274;ABP=4.98064;AC=10;AF=0.238095;AN=42;AO=281;CIGAR=2X;DP=1228;DPB=1228;DPRA=1.03241;EPP=613.194;EPPR=1742.58;GTI=0;LEN=2;MEANALT=1;MQM=59.3203;MQMR=59.9483;NS=21;NUMALT=1;ODDS=9.41884;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9921;QR=33664;RO=947;RPL=0;RPP=613.194;RPPR=2033.42;RPR=281;RUN=1;SAF=281;SAP=613.194;SAR=0;SRF=912;SRP=1766.62;SRR=35;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:76,0:76:2688:0:0:0,-22.8783,-242.093 0/0:53:53,0:53:1895:0:0:0,-15.9546,-170.826 0/1:60:29,31:29:1040:31:1103:-81.5177,0,-75.8528 0/0:52:52,0:52:1842:0:0:0,-15.6536,-166.058 0/1:70:37,33:37:1332:33:1168:-84.3258,0,-99.1103 0/1:39:17,22:17:599:22:750:-56.0717,0,-42.4976 0/0:87:87,0:87:3052:0:0:0,-26.1896,-274.907 0/1:47:23,24:23:828:24:862:-63.4131,0,-60.6957 0/1:111:50,61:50:1780:61:2151:-160.279,0,-127.068 0/1:21:7,14:7:243:14:472:-36.4789,0,-15.8867 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:47:21,26:21:751:26:919:-68.867,0,-53.7675 0/1:64:43,21:43:1531:21:754:-48.8925,0,-118.77 0/0:70:69,1:69:2411:1:36:0,-17.4738,-213.645 0/0:106:106,0:106:3781:0:0:0,-31.9092,-340.49 0/0:49:49,0:49:1755:0:0:0,-14.7505,-158.234 0/0:69:69,0:69:2467:0:0:0,-20.7711,-222.283 0/1:81:50,31:50:1781:31:1104:-75.2416,0,-136.189 0/1:43:26,17:26:934:17:602:-41.5652,0,-71.435 0/0:46:46,0:46:1630:0:0:0,-13.8474,-146.988 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 chr11 538844 . C G 5529.25 PASS AB=0.473592;ABP=6.45101;AC=10;AF=0.238095;AN=42;AO=270;CIGAR=1X;DP=1199;DPB=1199;DPRA=1.03041;EPP=214.077;EPPR=921.961;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.4296;MQMR=59.9752;NS=21;NUMALT=1;ODDS=9.80053;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9672;QR=33102;RO=926;RPL=216;RPP=214.077;RPPR=733.16;RPR=54;RUN=1;SAF=270;SAP=589.308;SAR=0;SRF=892;SRP=1729.32;SRR=34;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:75,0:75:2666:0:0:0,-22.5772,-240.028 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.637 0/1:58:29,29:29:1044:29:1040:-76.4546,0,-76.8151 0/0:50:50,0:50:1779:0:0:0,-15.0515,-160.392 0/1:70:37,33:37:1324:33:1188:-86.1281,0,-98.39 0/1:38:16,22:16:572:22:783:-59.341,0,-40.3743 0/0:86:85,0:85:3021:0:0:0,-25.5875,-271.761 0/1:47:23,24:23:828:24:860:-63.3921,0,-60.6957 0/1:106:50,56:50:1779:56:2012:-149.276,0,-128.483 0/1:21:7,13:7:252:13:468:-36.0792,0,-16.6485 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:46:21,25:21:756:25:877:-65.3872,0,-54.5198 0/1:63:42,21:42:1508:21:756:-49.3739,0,-117.05 0/0:69:68,1:68:2428:1:36:0,-17.1728,-215.178 0/0:100:100,0:100:3579:0:0:0,-30.103,-322.317 0/0:49:49,0:49:1755:0:0:0,-14.7505,-158.233 0/0:68:68,0:68:2444:0:0:0,-20.47,-220.215 0/1:76:47,29:47:1666:29:1044:-71.3737,0,-127.348 0/1:43:26,17:26:936:17:608:-42.1077,0,-71.6152 0/0:45:44,0:44:1584:0:0:0,-13.2453,-142.492 0/0:31:31,0:31:1097:0:0:0,-9.33193,-99.038 chr11 538852 . TGA CGA 20937.9 PASS AB=0.518966;ABP=4.82236;AC=32;AF=0.761905;AN=42;AO=936;CIGAR=1X2M;DP=1221;DPB=1221.33;DPRA=0;EPP=2035.51;EPPR=611.023;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9701;MQMR=59.3607;NS=21;NUMALT=1;ODDS=9.16491;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=0;PRO=0;QA=33417;QR=9825;RO=280;RPL=903;RPP=1758.98;RPPR=611.023;RPR=33;RUN=1;SAF=903;SAP=1758.98;SAR=33;SRF=280;SRP=611.023;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,75:0:0:75:2678:-240.904,-22.5773,0 1/1:52:0,52:0:0:52:1857:-167.407,-15.6536,0 0/1:60:31,29:31:1078:29:1036:-75.4921,0,-79.2653 1/1:51:0,51:0:0:51:1809:-163.09,-15.3525,0 0/1:70:33,37:33:1165:37:1328:-98.7501,0,-84.0557 0/1:38:22,16:22:778:16:576:-40.6794,0,-58.833 1/1:87:0,87:0:0:87:3089:-278.237,-26.1896,0 0/1:46:23,23:23:804:23:822:-60.4553,0,-58.6027 0/1:110:61,49:61:2106:49:1756:-125.211,0,-156.542 0/1:21:14,7:14:487:7:252:-16.7073,0,-37.837 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:47:26,21:26:920:21:741:-52.8632,0,-68.9614 0/1:64:21,43:21:756:43:1542:-119.537,0,-49.0728 1/1:70:1,69:1:36:69:2449:-217.066,-17.4738,0 1/1:106:0,106:0:0:106:3804:-342.557,-31.9092,0 1/1:48:0,48:0:0:48:1713:-154.454,-14.4494,0 1/1:67:0,66:0:0:66:2372:-213.457,-19.868,0 0/1:81:31,50:31:1088:50:1765:-134.747,0,-73.8199 0/1:43:17,26:17:607:26:936:-71.6152,0,-42.0176 1/1:47:0,44:0:0:44:1580:-142.132,-13.2453,0 1/1:32:0,32:0:0:32:1132:-102.189,-9.63296,0 chr11 543886 . CT TC,TT 29838 PASS AB=0.467316,0.528512;ABP=9.68176,8.08714;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1088,381;CIGAR=2X,1X1M;DP=1475;DPB=1477;DPRA=0,0.99561;EPP=2339.59,830.341;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.80952,2.36364;MQM=59.4421,59.8871;MQMR=0;NS=21;NUMALT=2;ODDS=8.52327;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=68,68;PQR=0;PRO=0;QA=36988,13319;QR=0;RO=0;RPL=1085,381;RPP=2339.59,830.341;RPPR=0;RPR=3,0;RUN=1,1;SAF=1088,381;SAP=2365.57,830.341;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,83,0:0:0:83,0:2822,0:-254.201,-24.9855,0,-254.201,-24.9855,-254.201 1/1:51:0,50,0:0:0:50,0:1739,0:-156.533,-15.0515,0,-156.533,-15.0515,-156.533 1/2:87:0,41,46:0:0:41,46:1417,1605:-245.692,-130.617,-118.275,-115.422,0,-101.575 1/1:49:0,49,0:0:0:49,0:1704,0:-153.584,-14.7505,0,-153.584,-14.7505,-153.584 1/2:90:0,29,60:0:0:29,60:953,2086:-246.612,-169.636,-160.906,-77.0004,0,-58.9386 1/2:63:0,33,29:0:0:33,29:1130,1006:-173.473,-81.7572,-71.8232,-91.7024,0,-82.9725 1/1:118:0,118,0:0:0:118,0:3983,0:-358.635,-35.5215,0,-358.635,-35.5215,-358.635 1/2:78:0,36,42:0:0:36,42:1226,1455:-218.045,-118.598,-107.761,-99.7907,0,-87.1474 1/2:145:0,72,72:0:0:72,72:2424,2519:-401.426,-205.036,-183.362,-196.482,0,-174.807 1/2:23:0,6,17:0:0:6,17:205,599:-65.7547,-49.1206,-47.3144,-16.9784,0,-11.8609 1/1:11:0,11,0:0:0:11,0:365,0:-33.1703,-3.31133,0,-33.1703,-3.31133,-33.1703 1/2:19:0,8,11:0:0:8,11:277,383:-53.9973,-31.4919,-29.0837,-22.8522,0,-19.5409 1/2:76:0,34,42:0:0:34,42:1141,1491:-214.183,-121.782,-111.547,-92.6871,0,-80.0438 1/1:107:0,107,0:0:0:107,0:3677,0:-331.107,-32.2102,0,-331.107,-32.2102,-331.107 1/1:145:0,145,0:0:0:145,0:4906,0:-441.461,-43.6494,0,-441.461,-43.6494,-441.461 1/1:59:0,59,0:0:0:59,0:2012,0:-181.342,-17.7608,0,-181.342,-17.7608,-181.342 1/1:49:0,49,0:0:0:49,0:1681,0:-151.381,-14.7505,0,-151.381,-14.7505,-151.381 1/2:71:0,32,39:0:0:32,39:1053,1375:-197.372,-112.308,-102.675,-85.4036,0,-73.6635 1/2:67:0,45,22:0:0:45,22:1528,764:-186.351,-62.4548,-48.9084,-124.241,0,-117.618 1/1:52:0,50,1:0:0:50,1:1708,36:-153.632,-15.0515,0,-150.694,-12.1141,-150.393 1/1:32:0,31,0:0:0:31,0:1037,0:-93.2635,-9.33193,0,-93.2635,-9.33193,-93.2635 chr11 578883 . C T 4993.1 PASS AB=0.44474;ABP=22.9294;AC=11;AF=0.261905;AN=42;AO=340;CIGAR=1X;DP=1335;DPB=1335;DPRA=1.13448;EPP=732.651;EPPR=2124.68;GTI=0;LEN=1;MEANALT=1.13333;MQM=60;MQMR=59.997;NS=21;NUMALT=1;ODDS=5.75388;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11735;QR=35236;RO=993;RPL=339;RPP=732.651;RPPR=2124.68;RPR=1;RUN=1;SAF=340;SAP=741.311;SAR=0;SRF=993;SRP=2159.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:94,0:94:3339:0:0:0,-28.2968,-300.729 0/0:46:46,0:46:1635:0:0:0,-13.8474,-147.438 0/1:44:26,18:26:906:18:624:-43.2389,0,-68.6081 0/1:41:27,14:27:963:14:469:-30.1871,0,-74.6437 0/1:129:64,65:64:2288:65:2251:-164.023,0,-167.349 0/1:52:23,29:23:824:29:998:-74.4747,0,-58.8298 0/0:55:52,2:52:1846:2:64:0,-10.4502,-160.361 0/1:63:29,34:29:1020:34:1159:-85.6475,0,-73.1473 0/1:185:101,84:101:3569:84:2900:-205.55,0,-265.729 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:18:8,10:8:288:10:341:-25.5992,0,-20.8489 0/1:73:45,28:45:1604:28:959:-64.6444,0,-122.675 0/0:53:51,2:51:1802:2:72:0,-9.11787,-155.624 0/0:93:93,0:93:3298:0:0:0,-27.9958,-297.04 0/0:51:51,0:51:1790:0:0:0,-15.3525,-161.381 0/0:65:64,1:64:2266:1:36:0,-15.9687,-200.604 0/1:93:58,35:58:2055:35:1226:-82.6465,0,-157.221 0/1:48:33,15:33:1184:15:528:-33.4019,0,-92.4189 0/0:63:61,1:61:2171:1:36:0,-15.4254,-192.058 0/0:58:58,0:58:2068:0:0:0,-17.4597,-186.391 chr11 587660 . G A 9255.84 PASS AB=0.336449;ABP=326.194;AC=10;AF=0.238095;AN=42;AO=468;CIGAR=1X;DP=2264;DPB=2264;DPRA=1.75269;EPP=22.0153;EPPR=54.318;GTI=0;LEN=1;MEANALT=1;MQM=59.8355;MQMR=55.9226;NS=21;NUMALT=1;ODDS=17.762;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16715;QR=63649;RO=1796;RPL=3;RPP=993.369;RPPR=3799.44;RPR=465;RUN=1;SAF=269;SAP=25.7458;SAR=199;SRF=1013;SRP=66.9696;SRR=783;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:83:83,0:83:2904:0:0:0,-24.9855,-261.592 0/0:63:63,0:63:2239:0:0:0,-18.9649,-201.773 0/1:45:22,23:22:780:23:820:-60.5624,0,-56.9767 0/1:82:42,40:42:1491:40:1436:-104.853,0,-109.799 0/1:220:149,71:149:5321:71:2537:-162.353,0,-406.659 0/1:108:75,33:75:2652:33:1181:-74.0865,0,-202.247 0/0:161:161,0:161:5657:0:0:0,-48.4658,-504.358 0/1:273:195,78:195:6850:78:2766:-166.99,0,-528.568 0/1:223:135,88:135:4739:88:3152:-216.775,0,-355.829 0/0:34:34,0:34:1216:0:0:0,-10.235,-106.993 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:18:8,10:8:284:10:360:-27.3258,0,-20.4848 0/1:151:97,54:97:3439:54:1924:-127.935,0,-261.464 0/0:81:81,0:81:2877:0:0:0,-24.3834,-259.166 0/0:180:180,0:180:6440:0:0:0,-54.1854,-579.67 0/0:53:53,0:53:1883:0:0:0,-15.9546,-169.748 0/0:32:32,0:32:1137:0:0:0,-9.63296,-102.637 0/1:116:79,37:79:2811:37:1331:-83.4546,0,-215.852 0/1:155:121,34:121:4322:34:1208:-62.3664,0,-341.365 0/0:86:86,0:86:3048:0:0:0,-25.8886,-273.359 0/0:96:96,0:96:3419:0:0:0,-28.8989,-307.925 chr11 587672 . CGTA AGTC 10003.4 PASS AB=0.360054;ABP=253.414;AC=9;AF=0.214286;AN=42;AO=530;CIGAR=1X2M1X;DP=2314;DPB=2314.25;DPRA=2.33096;EPP=1153.89;EPPR=3870.4;GTI=0;LEN=4;MEANALT=1.11111;MQM=45.9887;MQMR=59.9669;NS=21;NUMALT=1;ODDS=4.33441;PAIRED=0;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=18394;QR=61747;RO=1781;RPL=307;RPP=31.9196;RPPR=45.646;RPR=223;RUN=1;SAF=307;SAP=31.9196;SAR=223;SRF=984;SRP=45.646;SRR=797;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:86:86,0:86:2970:0:0:0,-25.8886,-267.534 0/0:64:64,0:64:2247:0:0:0,-19.2659,-202.494 0/0:47:47,0:47:1643:0:0:0,-14.1484,-148.14 0/0:85:84,0:84:2898:0:0:0,-25.2865,-260.697 0/1:227:142,85:142:4954:85:2954:-192.642,0,-377.684 0/1:108:64,44:64:2208:44:1525:-101.438,0,-166.47 0/1:165:103,62:103:3548:62:2150:-139.678,0,-269.505 0/1:277:151,126:151:5223:126:4349:-303.216,0,-386.832 0/1:232:169,63:169:5774:63:2213:-126.772,0,-449.951 0/1:36:7,29:7:241:29:1024:-78.7897,0,-11.1876 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:18:18,0:18:625:0:0:0,-5.41854,-56.574 0/1:154:111,43:111:3869:43:1474:-84.4749,0,-302.006 0/0:86:86,0:86:2964:0:0:0,-25.8886,-266.993 0/0:183:183,0:183:6427:0:0:0,-55.0885,-578.51 0/0:53:53,0:53:1861:0:0:0,-15.9546,-167.768 0/0:32:32,0:32:1109:0:0:0,-9.63296,-100.115 0/1:115:76,37:76:2628:37:1283:-79.1585,0,-202.392 0/1:158:117,41:117:4113:41:1422:-79.6445,0,-322.8 0/0:87:87,0:87:3025:0:0:0,-26.1896,-272.483 0/0:97:97,0:97:3276:0:0:0,-29.1999,-295.064 chr11 587688 . C G 10064.6 PASS AB=0.359331;ABP=249.82;AC=9;AF=0.214286;AN=42;AO=516;CIGAR=1X;DP=2257;DPB=2257;DPRA=2.33212;EPP=24.826;EPPR=54.4676;GTI=0;LEN=1;MEANALT=1.22222;MQM=46.1744;MQMR=59.9914;NS=21;NUMALT=1;ODDS=4.51704;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18276;QR=61396;RO=1739;RPL=516;RPP=1123.49;RPPR=3753.19;RPR=0;RUN=1;SAF=294;SAP=24.826;SAR=222;SRF=968;SRP=51.4707;SRR=771;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:86:86,0:86:3037:0:0:0,-25.8886,-273.558 0/0:63:63,0:63:2186:0:0:0,-18.9649,-197.001 0/0:46:46,0:46:1624:0:0:0,-13.8474,-146.446 0/0:81:81,0:81:2851:0:0:0,-24.3834,-256.828 0/1:223:139,84:139:4921:84:2974:-195.735,0,-375.913 0/1:104:62,42:62:2207:42:1476:-98.4843,0,-167.585 0/1:159:98,61:98:3460:61:2160:-142.866,0,-263.747 0/1:271:150,121:150:5315:121:4286:-299.108,0,-396.905 0/1:221:160,60:160:5662:60:2131:-123.736,0,-443.264 0/1:36:7,29:7:244:29:1023:-78.8824,0,-11.4623 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:149:106,42:106:3750:42:1499:-87.0222,0,-292.788 0/0:82:82,0:82:2857:0:0:0,-24.6845,-257.366 0/0:175:175,0:175:6213:0:0:0,-52.6802,-559.269 0/0:50:50,0:50:1775:0:0:0,-15.0515,-160.032 0/0:31:31,0:31:1108:0:0:0,-9.33193,-100.031 0/1:115:79,36:79:2782:36:1280:-78.5037,0,-216.001 0/1:158:117,41:117:4156:41:1447:-81.8833,0,-326.661 0/0:88:88,0:88:3091:0:0:0,-26.4906,-278.408 0/0:97:97,0:97:3365:0:0:0,-29.1999,-303.068 chr11 595661 . TAACGG TACGG 24286 PASS AB=0.571203;ABP=30.8409;AC=31;AF=0.738095;AN=42;AO=1158;CIGAR=1M1D4M;DP=1436;DPB=1241.5;DPRA=0;EPP=2517.58;EPPR=584.965;GTI=1;LEN=1;MEANALT=1.38095;MQM=59.8472;MQMR=60;NS=21;NUMALT=1;ODDS=2.79545;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41022;QR=9436;RO=268;RPL=0;RPP=2517.58;RPPR=584.965;RPR=1158;RUN=1;SAF=1158;SAP=2517.58;SAR=0;SRF=268;SRP=584.965;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,100:0:0:100:3561:-320.331,-30.103,0 1/1:80:0,80:0:0:80:2845:-256.287,-24.0824,0 0/1:42:25,17:25:863:17:608:-42.4088,0,-65.341 0/1:40:14,25:14:494:25:896:-68.86,0,-32.6931 0/1:126:62,64:62:2185:64:2292:-168.609,0,-158.988 0/1:63:15,48:15:523:48:1712:-135.401,0,-28.4342 1/1:122:0,121:0:0:121:4298:-386.37,-36.4246,0 0/1:55:27,25:27:949:25:900:-65.3191,0,-69.7239 0/1:97:45,51:45:1597:51:1817:-134.551,0,-114.762 0/1:20:4,16:4:143:16:576:-46.154,0,-7.20084 1/1:12:0,12:0:0:12:424:-38.4964,-3.61236,0 0/1:19:5,14:5:171:14:500:-39.6164,0,-10.0065 0/1:59:23,36:23:822:36:1288:-98.4619,0,-56.5425 1/1:69:0,68:0:0:68:2397:-215.626,-20.47,0 1/1:128:0,127:0:0:127:4446:-399.909,-38.2308,0 1/1:71:0,71:0:0:71:2502:-225.427,-21.3731,0 1/1:55:0,55:0:0:55:1938:-174.58,-16.5567,0 0/1:62:25,37:25:869:37:1316:-100.078,0,-59.861 0/1:49:21,28:21:748:28:974:-73.1606,0,-52.8953 1/1:123:1,121:1:36:121:4224:-376.785,-33.4423,0 1/1:43:1,42:1:36:42:1508:-132.416,-9.34602,0 chr11 595671 . C T 3866.72 PASS AB=0.407813;ABP=50.2534;AC=11;AF=0.261905;AN=42;AO=262;CIGAR=1X;DP=1462;DPB=1462;DPRA=0.820917;EPP=571.936;EPPR=2608.78;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.8233;NS=21;NUMALT=1;ODDS=0.763208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9362;QR=42931;RO=1200;RPL=0;RPP=571.936;RPPR=2608.78;RPR=262;RUN=1;SAF=262;SAP=571.936;SAR=0;SRF=1200;SRP=2608.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:105:105,0:105:3772:0:0:0,-31.6081,-339.671 0/0:84:84,0:84:3001:0:0:0,-25.2865,-270.32 0/1:41:17,24:17:612:24:845:-64.0249,0,-43.0712 0/1:38:24,14:24:864:14:504:-34.259,0,-66.643 0/1:130:68,62:68:2432:62:2220:-160.931,0,-179.999 0/1:63:48,15:48:1720:15:536:-29.6099,0,-136.121 0/0:126:126,0:126:4500:0:0:0,-37.9298,-404.799 0/1:55:30,25:30:1068:25:892:-64.043,0,-79.875 0/1:101:58,43:58:2084:43:1548:-109.209,0,-157.422 0/1:20:16,4:16:576:4:144:-7.29302,0,-46.154 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:20:15,5:15:536:5:165:-9.153,0,-42.5538 0/1:60:37,23:37:1320:23:828:-56.7823,0,-101.039 0/0:69:69,0:69:2452:0:0:0,-20.7711,-220.933 0/0:129:129,0:129:4616:0:0:0,-38.8329,-415.537 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.204 0/0:60:60,0:60:2144:0:0:0,-18.0618,-193.114 0/1:63:38,25:38:1355:25:888:-61.2741,0,-103.284 0/1:49:28,21:28:996:21:756:-53.6168,0,-75.1464 0/0:124:123,1:123:4408:1:36:0,-33.7294,-393.29 0/0:43:43,0:43:1539:0:0:0,-12.9443,-138.802 chr11 595695 . C A 25923.8 PASS AB=0.587057;ABP=45.7338;AC=31;AF=0.738095;AN=42;AO=1211;CIGAR=1X;DP=1481;DPB=1481;DPRA=0;EPP=2623.98;EPPR=580.654;GTI=1;LEN=1;MEANALT=1;MQM=59.8233;MQMR=59.9778;NS=21;NUMALT=1;ODDS=2.62216;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43374;QR=9669;RO=270;RPL=1210;RPP=2623.98;RPPR=580.654;RPR=1;RUN=1;SAF=1211;SAP=2632.66;SAR=0;SRF=270;SRP=589.308;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,104:0:0:104:3736:-336.432,-31.3071,0 1/1:86:0,86:0:0:86:3073:-276.797,-25.8886,0 0/1:42:25,17:25:900:17:608:-42.4088,0,-68.6778 0/1:40:15,25:15:536:25:900:-69.2794,0,-36.5336 0/1:128:61,67:61:2183:67:2400:-177.721,0,-158.203 0/1:65:15,50:15:540:50:1785:-141.364,0,-29.3696 1/1:124:0,124:0:0:124:4447:-399.773,-37.3277,0 0/1:57:27,30:27:972:30:1080:-80.3541,0,-70.6392 0/1:103:45,58:45:1611:58:2065:-155.11,0,-114.273 0/1:20:4,16:4:144:16:576:-46.154,0,-7.29302 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:19:5,14:5:176:14:504:-39.9781,0,-10.4654 0/1:61:24,37:24:856:37:1313:-100.105,0,-58.9964 1/1:74:0,74:0:0:74:2648:-238.564,-22.2762,0 1/1:130:0,130:0:0:130:4667:-420.091,-39.1339,0 1/1:72:0,72:0:0:72:2589:-233.252,-21.6742,0 1/1:60:0,60:0:0:60:2151:-193.743,-18.0618,0 0/1:64:26,38:26:923:38:1368:-104.155,0,-64.1208 0/1:50:21,29:21:756:29:1017:-76.7303,0,-53.3157 1/1:126:1,125:1:36:125:4482:-399.947,-34.3315,0 1/1:44:1,43:1:36:43:1533:-134.663,-9.64705,0 chr11 616111 . 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T A 46128.8 PASS AB=0.498248;ABP=3.05596;AC=31;AF=0.738095;AN=42;AO=2221;CIGAR=1X;DP=3080;DPB=3080;DPRA=0;EPP=4747.99;EPPR=1840.17;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9487;MQMR=59.965;NS=21;NUMALT=1;ODDS=5.59542;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78898;QR=30707;RO=858;RPL=9;RPP=4747.99;RPPR=1840.17;RPR=2212;RUN=1;SAF=2221;SAP=4825.85;SAR=0;SRF=858;SRP=1866.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:0,106:0:0:106:3763:-338.869,-31.9092,0 1/1:150:0,150:0:0:150:5281:-475.417,-45.1545,0 0/1:161:82,79:82:2921:79:2815:-205.122,0,-214.658 0/1:222:112,110:112:3999:110:3868:-281.485,0,-293.271 0/1:270:115,155:115:4102:155:5515:-415.196,0,-288.085 0/1:248:138,110:138:4929:110:3876:-274.148,0,-369.104 1/1:203:0,203:0:0:203:7217:-649.581,-61.1091,0 0/1:179:99,80:99:3548:80:2861:-203.837,0,-265.644 0/1:238:129,108:129:4624:108:3858:-275.857,0,-344.141 0/1:17:9,8:9:324:8:284:-20.7858,0,-24.3883 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:48:20,28:20:720:28:974:-73.5187,0,-50.6793 0/1:195:93,102:93:3344:102:3649:-269.912,0,-242.475 1/1:160:0,160:0:0:160:5691:-512.308,-48.1648,0 1/1:268:0,268:0:0:268:9547:-859.183,-80.676,0 1/1:118:0,118:0:0:118:4184:-376.671,-35.5215,0 1/1:143:0,143:0:0:143:5099:-459.05,-43.0473,0 0/1:70:43,27:43:1548:27:968:-66.3653,0,-118.541 0/1:64:18,46:18:648:46:1641:-128.711,0,-39.386 1/1:133:0,133:0:0:133:4732:-426.033,-40.037,0 1/1:80:0,80:0:0:80:2823:-254.306,-24.0824,0 chr11 771923 . C T 90195.7 PASS AB=0.515667;ABP=8.52172;AC=31;AF=0.738095;AN=42;AO=3441;CIGAR=1X;DP=4695;DPB=4695;DPRA=0;EPP=7475.05;EPPR=2721.69;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9599;MQMR=60;NS=21;NUMALT=1;ODDS=19.7213;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=121530;QR=44213;RO=1252;RPL=2112;RPP=389.905;RPPR=288.902;RPR=1329;RUN=1;SAF=2112;SAP=389.905;SAR=1329;SRF=829;SRP=288.902;SRR=423;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:157:0,157:0:0:157:5521:-497.021,-47.2617,0 1/1:234:0,234:0:0:234:8291:-746.158,-70.441,0 0/1:236:122,114:122:4354:114:4032:-292.027,0,-320.992 0/1:327:157,170:157:5515:170:6003:-441.943,0,-398.044 0/1:433:194,239:194:6898:239:8468:-631.778,0,-490.544 0/1:294:161,133:161:5653:133:4732:-336.601,0,-420.391 1/1:306:0,306:0:0:306:10772:-969.399,-92.1152,0 0/1:252:138,114:138:4863:114:4043:-287.422,0,-361.966 0/1:357:169,187:169:5995:187:6587:-485.49,0,-432.232 0/1:21:10,11:10:356:11:381:-28.299,0,-26.0596 1/1:19:0,19:0:0:19:675:-61.077,-5.71957,0 0/1:85:40,45:40:1389:45:1583:-117.172,0,-99.7171 0/1:274:124,150:124:4369:150:5316:-396.097,0,-310.905 1/1:242:0,242:0:0:242:8567:-771.031,-72.8493,0 1/1:372:1,371:1:36:371:13121:-1177.11,-108.385,0 1/1:244:0,244:0:0:244:8619:-775.692,-73.4513,0 1/1:224:0,224:0:0:224:7887:-709.868,-67.4307,0 0/1:173:102,71:102:3578:71:2509:-173.984,0,-270.152 0/1:133:34,99:34:1207:99:3466:-272.115,0,-68.8983 1/1:195:0,194:0:0:194:6823:-613.784,-58.3998,0 1/1:117:0,117:0:0:117:4134:-372.245,-35.2205,0 chr11 772974 . T C 6996.52 PASS AB=0.511628;ABP=3.96979;AC=11;AF=0.261905;AN=42;AO=418;CIGAR=1X;DP=1351;DPB=1351;DPRA=1.39088;EPP=910.686;EPPR=2028.99;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9914;NS=21;NUMALT=1;ODDS=5.80602;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14909;QR=33145;RO=933;RPL=0;RPP=910.686;RPPR=1977.21;RPR=418;RUN=1;SAF=0;SAP=910.686;SAR=418;SRF=6;SRP=1977.21;SRR=927;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:37:37,0:37:1305:0:0:0,-11.1381,-117.741 0/1:67:32,35:32:1148:35:1243:-92.0049,0,-83.4608 0/1:79:47,32:47:1668:32:1148:-79.8485,0,-126.626 0/1:112:62,50:62:2212:50:1780:-126.765,0,-165.63 0/1:71:28,43:28:992:43:1548:-118.24,0,-68.2213 0/0:65:65,0:65:2297:0:0:0,-19.5669,-206.99 0/1:58:27,31:27:904:31:1116:-83.292,0,-64.2009 0/1:121:36,85:36:1254:85:3021:-235.694,0,-76.7335 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/0:13:13,0:13:449:0:0:0,-3.91339,-40.7375 0/1:33:19,14:19:680:14:504:-35.7641,0,-51.5952 0/1:98:53,45:53:1900:45:1620:-116.589,0,-141.777 0/0:87:87,0:87:3105:0:0:0,-26.1896,-279.676 0/0:82:82,0:82:2932:0:0:0,-24.6845,-264.115 0/0:42:42,0:42:1512:0:0:0,-12.6433,-136.375 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/1:75:30,45:30:1060:45:1582:-120.091,0,-73.134 0/1:96:63,33:63:2210:33:1167:-76.4375,0,-170.263 0/0:103:103,0:103:3685:0:0:0,-31.0061,-331.851 0/0:39:39,0:39:1392:0:0:0,-11.7402,-125.579 chr11 772980 . G A 20672.3 PASS AB=0.508897;ABP=3.58987;AC=31;AF=0.738095;AN=42;AO=989;CIGAR=1X;DP=1403;DPB=1403;DPRA=0;EPP=2141.92;EPPR=902;GTI=0;LEN=1;MEANALT=1;MQM=59.9919;MQMR=60;NS=21;NUMALT=1;ODDS=7.9903;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35433;QR=14818;RO=414;RPL=8;RPP=2081.67;RPPR=902;RPR=981;RUN=1;SAF=7;SAP=2090.23;SAR=982;SRF=0;SRP=902;SRR=414;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,41:0:0:41:1470:-132.596,-12.3422,0 1/1:40:0,40:0:0:40:1421:-128.185,-12.0412,0 0/1:68:35,33:35:1245:33:1178:-85.8572,0,-91.8827 0/1:83:34,49:34:1209:49:1762:-133.878,0,-84.1286 0/1:115:49,66:49:1746:66:2372:-179.119,0,-122.804 0/1:74:43,31:43:1544:31:1103:-77.3036,0,-116.977 1/1:68:0,68:0:0:68:2436:-219.495,-20.47,0 0/1:59:31,28:31:1112:28:1004:-72.9151,0,-82.6306 0/1:123:83,40:83:2984:40:1436:-92.511,0,-231.765 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:33:13,20:13:468:20:720:-55.1948,0,-32.5257 0/1:104:45,59:45:1616:59:2105:-158.41,0,-114.423 1/1:88:0,88:0:0:88:3164:-284.984,-26.4906,0 1/1:83:0,83:0:0:83:2980:-268.432,-24.9855,0 1/1:44:0,44:0:0:44:1573:-141.861,-13.2453,0 1/1:29:0,29:0:0:29:1023:-92.3802,-8.72987,0 0/1:75:44,31:44:1580:31:1106:-77.2726,0,-119.914 0/1:102:32,70:32:1134:70:2512:-195.627,0,-71.6622 1/1:110:0,110:0:0:110:3956:-356.23,-33.1133,0 1/1:44:0,44:0:0:44:1572:-141.772,-13.2453,0 chr11 775673 . G A 20442.1 PASS AB=0.473797;ABP=8.58646;AC=31;AF=0.738095;AN=42;AO=1023;CIGAR=1X;DP=1516;DPB=1516;DPRA=0;EPP=2224.43;EPPR=1073.55;GTI=1;LEN=1;MEANALT=1;MQM=59.9922;MQMR=60;NS=21;NUMALT=1;ODDS=2.53377;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36337;QR=17567;RO=493;RPL=0;RPP=2224.43;RPPR=1073.55;RPR=1023;RUN=1;SAF=0;SAP=2224.43;SAR=1023;SRF=0;SRP=1073.55;SRR=493;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99:0:0:99:3514:-316.467,-29.802,0 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 0/1:99:55,44:55:1965:44:1563:-111.159,0,-147.321 0/1:60:33,27:33:1179:27:951:-67.8425,0,-88.3554 0/1:147:71,76:71:2524:76:2664:-195.75,0,-183.161 0/1:74:33,41:33:1165:41:1448:-108.34,0,-82.8788 1/1:71:0,71:0:0:71:2532:-228.132,-21.3731,0 0/1:120:59,61:59:2112:61:2192:-161.422,0,-154.225 0/1:160:84,76:84:3012:76:2732:-197.957,0,-223.146 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:28:16,12:16:576:12:432:-30.7924,0,-43.7461 0/1:101:60,41:60:2134:41:1457:-101.021,0,-161.923 1/1:114:1,113:1:36:113:4024:-358.751,-30.7191,0 1/1:129:0,129:0:0:129:4583:-412.636,-38.8329,0 1/1:18:0,18:0:0:18:633:-57.2951,-5.41854,0 1/1:16:0,16:0:0:16:552:-50.0029,-4.81648,0 0/1:90:58,32:58:2040:32:1140:-75.8165,0,-156.777 0/1:45:16,29:16:572:29:1019:-78.4749,0,-38.2671 1/1:58:0,58:0:0:58:2075:-187.02,-17.4597,0 1/1:33:0,33:0:0:33:1138:-102.721,-9.93399,0 chr11 948173 . CGAA TGAC,CGAC 45225 PASS AB=0.524574,0.467402;ABP=8.23969,12.2124;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1657,471;CIGAR=1X2M1X,3M1X;DP=2137;DPB=2138;DPRA=0,0.846064;EPP=3601.14,1025.77;EPPR=0;GTI=1;LEN=4,1;MEANALT=2,2.33333;MQM=59.9221,60;MQMR=0;NS=21;NUMALT=2;ODDS=4.11506;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=1;QA=58436,16852;QR=0;RO=0;RPL=0,0;RPP=3601.14,1025.77;RPPR=0;RPR=1657,471;RUN=1,1;SAF=1657,471;SAP=3601.14,1025.77;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67,0:0:0:67,0:2359,0:-212.569,-20.169,0,-212.569,-20.169,-212.569 1/1:114:0,114,0:0:0:114,0:4052,0:-364.87,-34.3174,0,-364.87,-34.3174,-364.87 1/2:40:0,18,22:0:0:18,22:637,792:-116.866,-64.983,-59.5645,-52.2395,0,-45.6168 1/2:136:0,70,65:0:0:70,65:2480,2315:-390.762,-188.736,-167.664,-202.075,0,-182.508 1/2:289:0,154,129:0:0:154,129:5438,4628:-820.303,-377.52,-331.161,-442.809,0,-403.976 1/2:111:0,65,45:0:0:65,45:2267,1612:-315.822,-131.464,-111.897,-184.352,0,-170.806 1/1:199:0,199,0:0:0:199,0:7047,0:-634.243,-59.905,0,-634.243,-59.905,-634.243 1/2:25:0,8,17:0:0:8,17:282,596:-71.8114,-48.8503,-46.442,-23.3128,0,-18.1953 1/2:159:0,73,86:0:0:73,86:2563,3073:-459.439,-250.849,-228.874,-208.885,0,-182.996 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/2:9:0,5,4:0:0:5,4:180,144:-26.7966,-12.1095,-10.6043,-15.0469,0,-13.8428 1/2:19:0,14,5:0:0:14,5:489,180:-54.8149,-15.0469,-10.8325,-40.125,0,-38.6199 1/1:155:0,154,1:0:0:154,1:5432,36:-488.805,-46.3586,0,-485.868,-43.2714,-485.567 1/2:62:0,36,26:0:0:36,26:1242,932:-177.261,-76.3721,-65.535,-101.242,0,-93.415 1/1:149:0,148,1:0:0:148,1:5240,36:-471.364,-44.5524,0,-468.427,-41.2552,-468.126 1/1:154:0,154,0:0:0:154,0:5427,0:-488.542,-46.3586,0,-488.542,-46.3586,-488.542 1/1:78:0,78,0:0:0:78,0:2717,0:-244.774,-23.4803,0,-244.774,-23.4803,-244.774 1/2:82:0,42,40:0:0:42,40:1478,1436:-237.811,-117.496,-104.853,-120.67,0,-108.629 1/2:60:0,34,26:0:0:34,26:1189,932:-173.096,-76.3721,-66.1371,-97.0786,0,-89.2518 1/1:150:0,147,3:0:0:147,3:5201,104:-467.879,-44.2514,0,-459.426,-35.4517,-458.522 1/1:74:0,73,0:0:0:73,0:2572,0:-231.371,-21.9752,0,-231.371,-21.9752,-231.371 chr11 948202 . C T 36397.6 PASS AB=0.522659;ABP=7.43853;AC=30;AF=0.714286;AN=42;AO=1655;CIGAR=1X;DP=2133;DPB=2133;DPRA=0;EPP=3299.22;EPPR=1032.31;GTI=1;LEN=1;MEANALT=1;MQM=59.9227;MQMR=60;NS=21;NUMALT=1;ODDS=5.58391;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59083;QR=17065;RO=478;RPL=1620;RPP=3299.22;RPPR=1032.31;RPR=35;RUN=1;SAF=1655;SAP=3596.8;SAR=0;SRF=478;SRP=1040.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66:0:0:66:2360:-212.658,-19.868,0 1/1:116:0,116:0:0:116:4156:-374.223,-34.9195,0 0/1:39:22,17:22:779:17:597:-42.317,0,-58.6919 0/1:137:67,70:67:2400:70:2499:-183.916,0,-175.016 0/1:293:138,155:138:4916:155:5529:-409.475,0,-354.389 0/1:108:43,65:43:1544:65:2321:-176.593,0,-106.742 1/1:196:0,196:0:0:196:7005:-630.456,-59.0019,0 0/1:25:17,8:17:603:8:288:-18.7417,0,-47.0738 0/1:158:85,73:85:3015:73:2616:-188.125,0,-224.017 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:18:5,13:5:180:13:464:-36.679,0,-11.1335 1/1:157:0,157:0:0:157:5610:-505.022,-47.2617,0 0/1:59:27,32:27:968:32:1139:-85.0576,0,-69.6766 1/1:146:1,145:1:36:145:5174:-462.178,-40.3521,0 1/1:156:0,156:0:0:156:5604:-504.451,-46.9607,0 1/1:75:0,75:0:0:75:2671:-240.635,-22.5773,0 0/1:83:39,44:39:1400:44:1542:-114.082,0,-101.314 0/1:59:26,33:26:936:33:1165:-87.3949,0,-66.7987 1/1:150:3,147:3:108:147:5236:-461.288,-35.0793,0 1/1:78:0,78:0:0:78:2783:-250.711,-23.4803,0 chr11 1230760 . CAAAA TACAG,TAAAA 66048 PASS AB=0.516049,0.480247;ABP=6.63478,8.50064;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2455,781;CIGAR=1X1M1X1M1X,1X4M;DP=3246;DPB=3246;DPRA=0,0.875424;EPP=5333.98,1698.93;EPPR=0;GTI=1;LEN=5,1;MEANALT=2.14286,2.42857;MQM=40.5752,59.4712;MQMR=0;NS=21;NUMALT=2;ODDS=1.62532;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=87161,27956;QR=0;RO=0;RPL=2455,781;RPP=5333.98,1698.93;RPPR=0;RPR=0,0;RUN=1,1;SAF=2455,781;SAP=5333.98,1698.93;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,118,0:0:0:118,0:4180,0:-364.387,-35.5215,0,-364.387,-35.5215,-364.387 1/1:124:0,124,0:0:0:124,0:4418,0:-370.323,-37.3277,0,-370.323,-37.3277,-370.323 1/2:153:0,63,89:0:0:63,89:2259,3181:-435.915,-259.466,-240.501,-176.558,0,-149.766 1/2:159:0,87,72:0:0:87,72:3096,2560:-451.407,-208.838,-182.648,-242.919,0,-221.245 1/2:341:0,176,165:0:0:176,165:6272,5920:-976.583,-482.991,-430.009,-493.944,0,-444.274 1/2:136:0,85,50:0:0:85,50:2999,1794:-373.606,-145.601,-120.013,-227.994,0,-212.943 1/1:277:0,275,2:0:0:275,2:9767,72:-821.244,-82.7833,0,-815.369,-76.5486,-814.767 1/2:136:0,56,79:0:0:56,79:1989,2840:-386.255,-231.731,-214.873,-154.558,0,-130.776 1/2:260:0,145,114:0:0:145,114:5151,4054:-737.899,-330.287,-286.638,-407.692,0,-373.375 1/2:28:0,17,11:0:0:17,11:604,387:-79.0237,-31.8494,-26.7319,-47.5221,0,-44.2108 1/2:5:0,2,3:0:0:2,3:66,108:-14.244,-9.17208,-8.57002,-5.40552,0,-4.50243 1/2:38:0,23,15:0:0:23,15:822,540:-108.564,-44.4211,-37.4974,-64.4959,0,-59.9804 1/1:169:0,168,1:0:0:168,1:5942,36:-517.671,-50.573,0,-514.735,-47.2784,-514.434 1/2:162:0,79,83:0:0:79,83:2804,2972:-463.594,-242.611,-218.83,-221.334,0,-196.348 1/1:433:0,431,0:0:0:431,0:15291,0:-1326.94,-129.744,0,-1326.94,-129.744,-1326.94 1/1:165:0,164,0:0:0:164,0:5804,0:-509.79,-49.3689,0,-509.79,-49.3689,-509.79 1/1:159:0,159,0:0:0:159,0:5662,0:-499.349,-47.8638,0,-499.349,-47.8638,-499.349 1/2:139:0,63,74:0:0:63,74:2243,2664:-390.449,-217.371,-198.406,-173.078,0,-150.802 1/2:63:0,40,23:0:0:40,23:1425,828:-180.008,-67.9204,-55.8792,-112.442,0,-105.518 1/1:125:0,125,0:0:0:125,0:4413,0:-378.398,-37.6288,0,-378.398,-37.6288,-378.398 1/1:55:0,55,0:0:0:55,0:1954,0:-165.289,-16.5567,0,-165.289,-16.5567,-165.289 chr11 1231592 . C T 10169.4 PASS AB=0.418103;ABP=97.6191;AC=21;AF=0.5;AN=42;AO=679;CIGAR=1X;DP=1624;DPB=1624;DPRA=0;EPP=1477.44;EPPR=2055.05;GTI=0;LEN=1;MEANALT=1;MQM=47.109;MQMR=59.9111;NS=21;NUMALT=1;ODDS=9.97305;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24126;QR=33394;RO=945;RPL=0;RPP=1477.44;RPPR=2055.05;RPR=679;RUN=1;SAF=0;SAP=1477.44;SAR=679;SRF=0;SRP=2055.05;SRR=945;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:56,44:56:1964:44:1570:-109.78,0,-146.922 0/1:80:44,36:44:1560:36:1280:-89.6186,0,-116.609 0/1:108:58,50:58:2048:50:1770:-125.973,0,-152.078 0/1:95:51,44:51:1816:44:1572:-111.738,0,-135.124 0/1:191:139,52:139:4949:52:1864:-109.309,0,-388.064 0/1:105:74,31:74:2628:31:1107:-66.6612,0,-205.122 0/1:144:52,92:52:1833:92:3259:-243.575,0,-121.9 0/1:62:39,23:39:1404:23:824:-55.1653,0,-107.991 0/1:164:121,43:121:4270:43:1544:-89.2762,0,-335.111 0/1:9:8,1:8:279:1:36:-0.857543,0,-22.7378 0/1:8:7,1:7:243:1:36:-1.14028,0,-19.7992 0/1:24:19,5:19:669:5:180:-9.21115,0,-53.3092 0/1:57:29,28:29:994:28:1004:-72.2724,0,-72.6063 0/1:89:55,34:55:1950:34:1220:-82.0871,0,-148.954 0/1:124:66,58:66:2317:58:2025:-141.507,0,-171.445 0/1:27:8,19:8:284:19:670:-52.3065,0,-17.7755 0/1:31:18,13:18:635:13:455:-31.8554,0,-48.1427 0/1:47:22,25:22:771:25:888:-64.9821,0,-55.5619 0/1:25:18,7:18:648:7:233:-13.673,0,-51.1261 0/1:93:36,57:36:1266:57:2013:-151.215,0,-86.2453 0/1:41:25,16:25:866:16:576:-38.5273,0,-65.9117 chr11 1231617 . A G 10193.1 PASS AB=0.411477;ABP=114.5;AC=21;AF=0.5;AN=42;AO=674;CIGAR=1X;DP=1638;DPB=1638;DPRA=0;EPP=1457.91;EPPR=2053.11;GTI=0;LEN=1;MEANALT=1;MQM=47.23;MQMR=59.8797;NS=21;NUMALT=1;ODDS=8.17101;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24125;QR=34499;RO=964;RPL=673;RPP=1457.91;RPPR=2053.11;RPR=1;RUN=1;SAF=0;SAP=1466.58;SAR=674;SRF=0;SRP=2096.31;SRR=964;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:55,45:55:1967:45:1612:-113.035,0,-147.185 0/1:77:44,33:44:1584:33:1180:-81.7885,0,-119.672 0/1:110:60,50:60:2152:50:1780:-126.262,0,-160.834 0/1:95:52,43:52:1853:43:1544:-109.216,0,-138.448 0/1:199:146,53:146:5244:53:1904:-110.617,0,-412.19 0/1:107:75,32:75:2688:32:1152:-69.4445,0,-208.497 0/1:143:51,92:51:1824:92:3300:-247.005,0,-121.394 0/1:62:38,24:38:1360:24:864:-58.7194,0,-104.037 0/1:166:123,43:123:4416:43:1540:-88.4535,0,-347.639 0/1:10:9,1:9:320:1:36:-0.556513,0,-26.1287 0/1:8:7,1:7:252:1:36:-1.14028,0,-20.6207 0/1:25:20,5:20:720:5:180:-8.91012,0,-57.603 0/1:55:28,27:28:1004:27:972:-69.8743,0,-74.1192 0/1:90:57,33:57:2018:33:1176:-77.9279,0,-154.727 0/1:124:67,57:67:2384:57:2018:-141.419,0,-177.474 0/1:30:10,20:10:360:20:716:-55.1956,0,-23.7134 0/1:33:20,13:20:701:13:460:-31.7045,0,-53.4754 0/1:45:21,24:21:756:24:859:-63.0336,0,-54.8209 0/1:25:18,7:18:648:7:252:-15.1443,0,-51.1261 0/1:92:37,55:37:1320:55:1968:-146.951,0,-91.4068 0/1:42:26,16:26:928:16:576:-38.2263,0,-71.195 chr11 1231630 . GTC GC 9164.76 PASS AB=0.392025;ABP=168.074;AC=21;AF=0.5;AN=42;AO=639;CIGAR=1M1D1M;DP=1630;DPB=1417;DPRA=0;EPP=1390.58;EPPR=2135.4;GTI=0;LEN=1;MEANALT=1.42857;MQM=47.2066;MQMR=59.9012;NS=21;NUMALT=1;ODDS=5.66592;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22660;QR=33929;RO=982;RPL=639;RPP=1390.58;RPPR=2135.4;RPR=0;RUN=1;SAF=0;SAP=1390.58;SAR=639;SRF=0;SRP=2135.4;SRR=982;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:57,44:57:1922:44:1542:-106.242,0,-142.562 0/1:80:45,35:45:1576:35:1252:-87.2589,0,-118.047 0/1:107:60,47:60:2104:47:1672:-117.484,0,-157.418 0/1:95:56,38:56:1870:38:1337:-91.048,0,-139.965 0/1:200:147,51:147:5149:51:1798:-101.001,0,-403.635 0/1:105:77,27:77:2646:27:960:-54.0236,0,-206.883 0/1:143:53,90:53:1798:90:3198:-238.282,0,-119.048 0/1:65:40,24:40:1408:24:849:-56.4498,0,-107.409 0/1:165:122,41:122:4286:41:1468:-82.7397,0,-336.575 0/1:10:9,1:9:320:1:36:-0.556513,0,-26.1289 0/1:8:7,1:7:250:1:36:-1.14028,0,-20.4384 0/1:23:20,3:20:705:3:108:-3.06339,0,-56.8511 0/1:56:30,26:30:1034:26:928:-66.0795,0,-76.5091 0/1:90:57,33:57:1981:33:1165:-76.7504,0,-151.425 0/1:117:68,49:68:2263:49:1722:-118.309,0,-168.706 0/1:29:10,19:10:342:19:680:-52.4508,0,-22.3804 0/1:33:20,13:20:698:13:460:-31.7045,0,-53.206 0/1:45:22,23:22:763:23:820:-59.6657,0,-55.4424 0/1:23:18,5:18:636:5:180:-9.28522,0,-50.644 0/1:93:39,53:39:1301:53:1873:-138.447,0,-89.4059 0/1:41:25,16:25:877:16:576:-38.5273,0,-66.9038 chr11 1231633 . A G 17572.1 PASS AB=0.59854;ABP=141.668;AC=21;AF=0.5;AN=42;AO=984;CIGAR=1X;DP=1644;DPB=1644;DPRA=0;EPP=2139.74;EPPR=1436.18;GTI=0;LEN=1;MEANALT=1;MQM=59.8567;MQMR=47.0621;NS=21;NUMALT=1;ODDS=6.57923;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35230;QR=23586;RO=660;RPL=984;RPP=2139.74;RPPR=1436.18;RPR=0;RUN=1;SAF=0;SAP=2139.74;SAR=984;SRF=0;SRP=1436.18;SRR=660;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:44,59:44:1561:59:2112:-159.324,0,-107.576 0/1:81:36,45:36:1288:45:1601:-119.996,0,-89.6784 0/1:107:49,58:49:1756:58:2088:-155.98,0,-124.992 0/1:96:40,56:40:1413:56:1996:-151.009,0,-97.5379 0/1:199:51,148:51:1802:148:5320:-419.026,0,-101.371 0/1:106:29,77:29:1040:77:2752:-215.2,0,-59.7434 0/1:143:91,52:91:3249:52:1857:-124.361,0,-242.16 0/1:65:24,41:24:849:41:1474:-113.385,0,-56.4891 0/1:165:42,123:42:1512:123:4400:-346.502,0,-86.0999 0/1:10:1,9:1:36:9:324:-26.4922,0,-0.556512 0/1:8:1,7:1:36:7:252:-20.6207,0,-1.14028 0/1:24:4,20:4:144:20:712:-57.1819,0,-5.97249 0/1:58:28,30:28:1008:30:1076:-79.6931,0,-72.1922 0/1:90:33,57:33:1184:57:2048:-157.429,0,-78.4361 0/1:120:52,68:52:1864:68:2448:-184.435,0,-127.841 0/1:30:20,10:20:720:10:354:-23.1686,0,-55.5517 0/1:33:13,20:13:464:20:716:-54.8314,0,-32.0617 0/1:46:24,22:24:856:22:792:-57.7583,0,-62.575 0/1:24:6,18:6:216:18:648:-51.4272,0,-12.206 0/1:94:56,38:56:2012:38:1328:-91.5203,0,-150.262 0/1:42:16,26:16:576:26:932:-71.5556,0,-38.2263 chr11 1326244 . ACG ACC,GCC 46504.7 PASS AB=0.476923,0.516599;ABP=8.72294,5.96596;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1561,642;CIGAR=2M1X,1X1M1X;DP=2217;DPB=2217.67;DPRA=0,0.912102;EPP=3392.68,1397.1;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=2.09524,2.42857;MQM=59.9833,59.9688;MQMR=60;NS=21;NUMALT=2;ODDS=30.1018;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=55643,22576;QR=34;RO=1;RPL=0,0;RPP=3392.68,1397.1;RPPR=5.18177;RPR=1561,642;RUN=1,1;SAF=1561,642;SAP=3392.68,1397.1;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,123,0:0:0:123,0:4380,0:-394.376,-37.0267,0,-394.376,-37.0267,-394.376 1/1:137:0,136,0:0:0:136,0:4839,0:-435.307,-40.9401,0,-435.307,-40.9401,-435.307 1/2:91:0,45,46:0:0:45,46:1602,1619:-262.66,-132.091,-118.545,-130.865,0,-117.017 1/2:95:0,41,54:0:0:41,54:1472,1869:-272.308,-152.227,-139.885,-120.434,0,-104.178 1/2:183:0,88,93:0:0:88,93:3128,3280:-522.048,-267.144,-240.653,-254.976,0,-226.98 1/2:114:0,42,71:0:0:42,71:1491,2493:-324.456,-202.968,-190.325,-121.559,0,-100.186 1/1:153:0,153,0:0:0:153,0:5435,0:-489.284,-46.0576,0,-489.284,-46.0576,-489.284 1/2:118:1,59,58:1:34:59,58:2096,2053:-334.977,-164.483,-149.48,-168.051,0,-153.349 1/2:198:0,110,84:0:0:110,84:3940,2945:-560.974,-239.649,-206.536,-321.328,0,-296.042 1/2:25:0,15,10:0:0:15,10:528,351:-71.9015,-28.9168,-24.4014,-43.3359,0,-40.3256 1/2:13:0,6,7:0:0:6,7:212,250:-38.0032,-20.7395,-18.9333,-17.6186,0,-15.5114 1/2:65:0,34,31:0:0:34,31:1212,1103:-189.044,-90.2482,-80.0132,-99.1513,0,-89.8194 1/1:96:0,96,0:0:0:96,0:3428,0:-308.734,-28.8989,0,-308.734,-28.8989,-308.734 1/2:149:0,55,94:0:0:55,94:1976,3303:-430.395,-269.193,-252.636,-161.558,0,-133.261 1/1:160:0,159,0:0:0:159,0:5663,0:-509.523,-47.8638,0,-509.523,-47.8638,-509.523 1/1:66:0,64,0:0:0:64,0:2286,0:-205.719,-19.2659,0,-205.719,-19.2659,-205.719 1/1:50:0,50,0:0:0:50,0:1780,0:-160.483,-15.0515,0,-160.483,-15.0515,-160.483 1/2:117:0,52,65:0:0:52,65:1860,2275:-337.111,-185.439,-169.785,-152.026,0,-132.459 1/2:67:0,42,25:0:0:42,25:1496,891:-194.917,-72.9842,-60.3409,-122.289,0,-114.763 1/1:128:0,125,1:0:0:125,1:4452,36:-400.493,-37.6288,0,-397.556,-34.6913,-397.255 1/1:69:0,66,3:0:0:66,3:2367,108:-212.738,-19.868,0,-203.925,-10.6959,-203.022 chr11 1326269 . T G 37636.9 PASS AB=0.477403;ABP=8.40776;AC=30;AF=0.714286;AN=42;AO=1564;CIGAR=1X;DP=2204;DPB=2204;DPRA=0;EPP=1719.84;EPPR=684.14;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9974;MQMR=59.9984;NS=21;NUMALT=1;ODDS=26.0149;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55667;QR=22795;RO=637;RPL=1338;RPP=1719.84;RPPR=684.14;RPR=226;RUN=1;SAF=1564;SAP=3399.19;SAR=0;SRF=637;SRP=1386.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:122:0,122:0:0:122:4336:-390.416,-36.7257,0 1/1:137:0,137:0:0:137:4891:-440.343,-41.2411,0 0/1:89:46,43:46:1636:43:1529:-111.111,0,-120.737 0/1:90:51,39:51:1828:39:1396:-98.8464,0,-137.708 0/1:179:93,86:93:3340:86:3072:-222.825,0,-246.932 0/1:115:73,42:73:2616:42:1512:-101.756,0,-201.069 1/1:161:0,161:0:0:161:5681:-511.412,-48.4658,0 0/1:118:57,61:57:2052:61:2176:-160.584,0,-149.43 0/1:195:83,110:83:2960:110:3931:-295.524,0,-208.176 0/1:24:9,15:9:324:15:540:-41.7118,0,-22.2811 0/1:14:6,8:6:216:8:276:-20.9608,0,-15.5761 0/1:63:31,31:31:1116:31:1116:-81.728,0,-81.728 1/1:94:1,93:1:36:93:3311:-294.611,-24.6985,0 0/1:144:93,51:93:3308:51:1828:-121.453,0,-254.589 1/1:162:0,162:0:0:162:5736:-516.362,-48.7669,0 1/1:64:0,64:0:0:64:2271:-204.652,-19.2659,0 1/1:52:0,52:0:0:52:1851:-166.869,-15.6536,0 0/1:119:66,53:66:2359:53:1883:-133.924,0,-176.745 0/1:67:25,42:25:896:42:1488:-114.043,0,-60.7913 1/1:126:1,125:1:36:125:4464:-398.333,-34.3315,0 1/1:69:2,67:2:72:67:2379:-207.53,-13.9343,0 chr11 1430676 . T C 24353.1 PASS AB=0.425061;ABP=42.7157;AC=30;AF=0.714286;AN=42;AO=1030;CIGAR=1X;DP=1502;DPB=1502;DPRA=0;EPP=1201.57;EPPR=448.927;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9854;MQMR=59.9936;NS=21;NUMALT=1;ODDS=17.0862;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36496;QR=16844;RO=471;RPL=892;RPP=1201.57;RPPR=448.927;RPR=138;RUN=1;SAF=1030;SAP=2239.63;SAR=0;SRF=471;SRP=1025.77;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,100:0:0:100:3535:-318.35,-30.103,0 1/1:100:0,100:0:0:100:3551:-319.8,-30.103,0 0/1:49:27,22:27:963:22:784:-56.1334,0,-72.2355 0/1:90:58,32:58:2071:32:1140:-75.8165,0,-159.567 0/1:157:82,75:82:2944:75:2684:-194.543,0,-217.932 0/1:106:65,41:65:2328:41:1446:-98.5234,0,-177.871 1/1:101:0,101:0:0:101:3589:-323.217,-30.404,0 0/1:69:42,27:42:1499:27:964:-66.3058,0,-114.433 0/1:102:74,28:74:2643:28:1000:-59.6103,0,-207.411 0/1:15:9,6:9:324:6:212:-14.9093,0,-24.9888 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:14:10,4:10:356:4:144:-9.0992,0,-28.1668 1/1:97:2,95:2:72:95:3377:-297.309,-22.3632,0 0/1:127:64,63:64:2276:63:2229:-162.642,0,-166.872 1/1:104:0,103:0:0:103:3650:-328.346,-31.0061,0 1/1:36:0,36:0:0:36:1279:-115.412,-10.8371,0 1/1:66:0,66:0:0:66:2309:-208.071,-19.868,0 0/1:43:22,21:22:792:21:729:-52.9844,0,-58.6614 0/1:35:12,23:12:432:23:780:-59.9755,0,-28.6851 1/1:43:1,42:1:36:42:1500:-131.696,-9.34602,0 1/1:41:0,41:0:0:41:1450:-130.795,-12.3422,0 chr11 1430688 . G A 8055.81 PASS AB=0.569325;ABP=37.0318;AC=12;AF=0.285714;AN=42;AO=467;CIGAR=1X;DP=1512;DPB=1512;DPRA=0.869565;EPP=1008.42;EPPR=2267.86;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9914;MQMR=59.9799;NS=21;NUMALT=1;ODDS=14.3838;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16568;QR=37285;RO=1043;RPL=466;RPP=1008.42;RPPR=2267.86;RPR=1;RUN=1;SAF=467;SAP=1017.09;SAR=0;SRF=1043;SRP=2267.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:101:101,0:101:3590:0:0:0,-30.404,-323.295 0/0:102:102,0:102:3663:0:0:0,-30.7051,-329.872 0/1:48:23,25:23:828:25:854:-62.7199,0,-60.3947 0/1:88:32,56:32:1148:56:2004:-154.142,0,-77.1392 0/1:160:78,82:78:2800:82:2925:-215.319,0,-204.075 0/1:105:40,65:40:1424:65:2309:-176.461,0,-96.8447 0/0:99:99,0:99:3533:0:0:0,-29.802,-318.178 0/1:71:29,42:29:1036:42:1489:-112.929,0,-72.1789 0/1:104:28,76:28:989:76:2701:-212.025,0,-58.0149 0/1:15:6,9:6:216:9:324:-24.9888,0,-15.2751 0/1:7:4,3:4:140:3:104:-7.5956,0,-10.8374 0/1:14:4,10:4:144:10:352:-27.8038,0,-9.0992 0/0:101:99,2:99:3548:2:72:0,-23.5673,-312.692 0/1:126:62,63:62:2212:63:2218:-161.894,0,-161.356 0/0:106:105,0:105:3757:0:0:0,-31.6081,-337.968 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 0/0:67:67,0:67:2389:0:0:0,-20.169,-215.266 0/1:43:21,22:21:756:22:792:-58.6614,0,-55.4229 0/1:34:23,11:23:820:11:392:-25.385,0,-63.8875 0/0:44:43,1:43:1540:1:32:0,-10.046,-135.694 0/0:40:40,0:40:1424:0:0:0,-12.0412,-128.457 chr11 1430806 . C A 15071.5 PASS AB=0.432394;ABP=31.1966;AC=30;AF=0.714286;AN=42;AO=752;CIGAR=1X;DP=1159;DPB=1159;DPRA=0;EPP=1610;EPPR=886.8;GTI=0;LEN=1;MEANALT=1;MQM=59.9987;MQMR=60;NS=21;NUMALT=1;ODDS=4.9987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26810;QR=14502;RO=407;RPL=3;RPP=1610;RPPR=886.8;RPR=749;RUN=1;SAF=0;SAP=1635.96;SAR=752;SRF=0;SRP=886.8;SRR=407;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2391:-215.447,-20.169,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 0/1:52:25,27:25:896:27:963:-71.3324,0,-65.3068 0/1:45:26,19:26:932:19:672:-47.2605,0,-70.6525 0/1:123:61,62:61:2161:62:2200:-161.236,0,-157.729 0/1:58:42,16:42:1508:16:572:-34.3537,0,-118.555 1/1:66:0,66:0:0:66:2364:-213.018,-19.868,0 0/1:56:31,25:31:1108:25:883:-62.9298,0,-83.1733 0/1:109:61,48:61:2192:48:1700:-120.471,0,-164.733 0/1:27:16,11:16:576:11:396:-27.8549,0,-44.0472 0/1:10:5,5:5:176:5:180:-13.5418,0,-13.1747 0/1:39:25,14:25:896:14:496:-33.2341,0,-69.2202 1/1:39:1,38:1:36:38:1361:-119.192,-8.1419,0 0/1:54:35,19:35:1239:19:680:-45.2735,0,-95.558 1/1:108:2,106:2:72:106:3795:-334.911,-25.6745,0 1/1:38:0,38:0:0:38:1340:-120.898,-11.4391,0 1/1:35:0,35:0:0:35:1246:-112.445,-10.5361,0 0/1:79:50,29:50:1757:29:1036:-69.7725,0,-134.63 0/1:58:26,32:26:917:32:1140:-85.4491,0,-65.3849 1/1:22:1,21:1:36:21:752:-64.408,-3.02439,0 1/1:33:0,33:0:0:33:1175:-106.057,-9.93399,0 chr11 1654126 . T C 11843 PASS AB=0.292726;ABP=428.796;AC=28;AF=0.666667;AN=42;AO=707;CIGAR=1X;DP=2026;DPB=2026;DPRA=0.282131;EPP=1520.92;EPPR=2823.92;GTI=7;LEN=1;MEANALT=1;MQM=59.8472;MQMR=59.9909;NS=21;NUMALT=1;ODDS=5.15679;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25201;QR=47314;RO=1319;RPL=705;RPP=1520.92;RPPR=2823.92;RPR=2;RUN=1;SAF=0;SAP=1538.24;SAR=707;SRF=0;SRP=2867.18;SRR=1319;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:0,49:0:0:49:1756:-158.31,-14.7505,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:97:46,51:46:1641:51:1794:-132.538,0,-118.777 0/1:54:33,21:33:1188:21:745:-51.1178,0,-90.973 0/1:110:73,37:73:2604:37:1324:-86.3488,0,-201.496 0/1:37:30,7:30:1072:7:248:-11.5261,0,-85.6543 1/1:70:2,68:2:72:68:2428:-211.939,-14.2354,0 0/1:78:51,27:51:1836:27:959:-63.1451,0,-142.04 0/1:67:25,42:25:881:42:1499:-115.035,0,-59.4369 0/0:305:305,0:305:10956:0:0:0,-91.8141,-985.927 0/0:202:199,3:199:7144:3:104:0,-51.1053,-633.312 0/1:147:121,26:121:4344:26:931:-39.8569,0,-346.882 1/1:49:0,49:0:0:49:1747:-157.457,-14.7505,0 0/1:102:63,39:63:2264:39:1396:-95.234,0,-173.317 1/1:62:0,62:0:0:62:2208:-198.713,-18.6639,0 1/1:16:0,16:0:0:16:568:-51.4519,-4.81648,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 0/1:394:351,43:351:12592:43:1540:-20.2873,0,-1014.49 0/1:55:14,41:14:504:41:1453:-114.437,0,-29.1414 1/1:60:3,57:3:108:57:2027:-172.626,-7.98663,0 1/1:45:3,42:3:108:42:1506:-125.756,-3.47118,0 chr11 1654140 . TGC AGT,AGC 42222.7 PASS AB=0.302102,0.69352;ABP=391.487,374.488;AC=28,14;AF=0.666667,0.333333;AN=42;AO=735,1301;CIGAR=1X1M1X,1X2M;DP=2042;DPB=2042.67;DPRA=0.286964,3.38148;EPP=1599.04,2828.1;EPPR=5.18177;GTI=7;LEN=3,1;MEANALT=1.95,2.2;MQM=59.834,59.9908;MQMR=60;NS=21;NUMALT=2;ODDS=1.75839;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=25902,46584;QR=36;RO=1;RPL=735,1301;RPP=1599.04,2828.1;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1599.04,2828.1;SAR=735,1301;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:0,50,0:0:0:50,0:1774,0:-159.934,-15.0515,0,-159.934,-15.0515,-159.934 1/1:12:0,12,0:0:0:12,0:412,0:-37.4077,-3.61236,0,-37.4077,-3.61236,-37.4077 1/2:97:0,51,46:0:0:51,46:1808,1639:-281.242,-133.951,-118.598,-147.647,0,-133.799 1/2:55:0,22,33:0:0:22,33:772,1188:-160.118,-97.2946,-90.6719,-63.1779,0,-53.244 1/2:110:0,37,72:0:0:37,72:1294,2561:-313.913,-208.646,-197.508,-105.201,0,-83.5271 1/2:39:0,9,30:0:0:9,30:305,1076:-112.847,-88.122,-85.4127,-25.0687,0,-16.0378 1/1:72:0,70,2:0:0:70,2:2482,72:-223.274,-21.0721,0,-217.399,-14.8374,-216.797 1/2:78:0,27,51:0:0:27,51:959,1828:-227.59,-149.448,-141.321,-78.4979,0,-63.1454 1/2:65:0,43,22:0:0:43,22:1516,788:-188.054,-64.6221,-51.6778,-123.788,0,-117.165 2/2:303:0,0,303:0:0:0,303:0,10856:-976.935,-976.935,-976.935,-91.2121,-91.2121,0 2/2:200:0,2,198:0:0:2,198:72,7084:-637.26,-631.385,-630.783,-59.6039,-53.3693,0 1/2:148:0,25,122:0:0:25,122:895,4368:-429.244,-356.258,-348.732,-73.0316,0,-36.306 1/1:52:0,52,0:0:0:52,0:1851,0:-166.814,-15.6536,0,-166.814,-15.6536,-166.814 1/2:104:0,42,62:0:0:42,62:1469,2220:-300.907,-181.401,-168.757,-119.859,0,-101.196 1/1:67:0,66,0:0:0:66,0:2332,0:-209.222,-19.868,0,-209.222,-19.868,-209.222 1/1:19:0,19,0:0:0:19,0:634,0:-57.3723,-5.71957,0,-57.3723,-5.71957,-57.3723 1/1:16:0,16,0:0:0:16,0:569,0:-51.5425,-4.81648,0,-51.5425,-4.81648,-51.5425 1/2:388:0,45,342:0:0:45,342:1598,12265:-1130.6,-1000.39,-986.843,-130.223,0,-27.2703 1/2:58:1,44,12:1:36:44,12:1557,423:-157.786,-31.5298,-21.2229,-123.646,0,-122.971 1/1:62:0,59,3:0:0:59,3:2042,108:-183.687,-17.7608,0,-174.874,-8.58869,-173.971 1/1:47:0,44,3:0:0:44,3:1561,108:-140.421,-13.2453,0,-131.609,-4.07324,-130.706 chr11 1654151 . T C 25025.5 PASS AB=0.694296;ABP=370.914;AC=14;AF=0.333333;AN=42;AO=1276;CIGAR=1X;DP=2011;DPB=2011;DPRA=3.1234;EPP=2773.81;EPPR=1594.7;GTI=6;LEN=1;MEANALT=1.15385;MQM=59.9953;MQMR=59.8663;NS=21;NUMALT=1;ODDS=4.8706;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45603;QR=26189;RO=733;RPL=1276;RPP=2773.81;RPPR=1594.7;RPR=0;RUN=1;SAF=0;SAP=2773.81;SAR=1276;SRF=0;SRP=1594.7;SRR=733;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:50,0:50:1780:0:0:0,-15.0515,-160.469 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:94:51,43:51:1820:43:1548:-111.316,0,-135.784 0/1:54:22,32:22:784:32:1148:-87.3742,0,-54.6283 0/1:105:36,69:36:1284:69:2461:-190.135,0,-84.2471 0/1:39:9,30:9:320:30:1068:-84.6919,0,-17.4022 0/0:71:71,0:71:2540:0:0:0,-21.3731,-228.851 0/1:76:26,50:26:936:50:1777:-137.334,0,-61.6812 0/1:65:41,24:41:1468:24:864:-58.5156,0,-112.849 1/1:299:0,299:0:0:299:10716:-964.345,-90.008,0 1/1:198:3,195:3:108:195:6981:-618.277,-49.5288,0 0/1:146:26,119:26:905:119:4234:-337.229,0,-37.7532 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/1:103:41,62:41:1468:62:2186:-165.997,0,-101.41 0/0:66:66,0:66:2360:0:0:0,-19.868,-211.957 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 0/0:16:16,0:16:564:0:0:0,-4.81648,-51.0903 0/1:382:44,337:44:1572:337:12044:-968.755,0,-26.7194 0/1:58:45,13:45:1616:13:468:-24.9999,0,-127.492 0/0:61:58,3:58:2076:3:108:0,-8.28766,-177.031 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.564 chr11 1711009 . 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G T 9192.94 PASS AB=0.567511;ABP=40.5392;AC=12;AF=0.285714;AN=42;AO=538;CIGAR=1X;DP=1402;DPB=1402;DPRA=1.56608;EPP=1171.26;EPPR=1058.76;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.6097;MQMR=59.9768;NS=21;NUMALT=1;ODDS=1.29539;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19120;QR=30624;RO=861;RPL=538;RPP=1171.26;RPPR=1058.76;RPR=0;RUN=1;SAF=538;SAP=1171.26;SAR=0;SRF=861;SRP=1872.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:47,0:47:1692:0:0:0,-14.1484,-152.567 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:118:44,74:44:1565:74:2622:-200.703,0,-105.618 0/1:76:31,45:31:1104:45:1604:-121.764,0,-76.7924 0/1:139:48,90:48:1711:90:3219:-247.995,0,-112.373 0/1:53:18,35:18:639:35:1225:-94.5699,0,-41.8837 0/0:67:67,0:67:2332:0:0:0,-20.169,-210.131 0/1:102:42,60:42:1487:60:2118:-160.167,0,-103.419 0/1:150:63,87:63:2188:87:3111:-235.048,0,-152.025 0/1:14:6,8:6:216:8:288:-22.0303,0,-15.5761 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/0:87:85,0:85:3052:0:0:0,-25.5875,-274.604 0/1:108:42,66:42:1475:66:2317:-176.251,0,-100.532 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/1:106:62,44:62:2196:44:1580:-109.955,0,-165.994 0/1:66:48,18:48:1720:18:640:-38.0531,0,-135.218 0/0:57:57,0:57:2039:0:0:0,-17.1587,-183.781 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 chr11 1815247 . 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TCTT CCTC,GCTT 22216.4 PASS AB=0.479167,0.514881;ABP=5.54368,4.30284;AC=30,12;AF=0.714286,0.285714;AN=42;AO=732,347;CIGAR=1X2M1X,1X3M;DP=1084;DPB=1084;DPRA=0,1.12179;EPP=1592.53,756.511;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.85714,2.30769;MQM=59.694,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.18408;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25568,12396;QR=0;RO=0;RPL=732,347;RPP=1592.53,756.511;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1592.53,756.511;SAR=732,347;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,75,0:0:0:75,0:2635,0:-237.375,-22.5773,0,-237.375,-22.5773,-237.375 1/1:5:0,5,0:0:0:5,0:179,0:-16.4604,-1.50515,0,-16.4604,-1.50515,-16.4604 1/2:41:0,12,29:0:0:12,29:420,1040:-119.354,-85.1845,-81.5721,-34.5216,0,-25.7917 1/2:30:0,18,12:0:0:18,12:642,428:-87.5677,-35.2464,-29.8279,-52.6778,0,-49.0654 1/2:210:0,106,102:0:0:106,102:3679,3631:-594.872,-295.931,-264.022,-298.933,0,-268.228 1/2:20:0,7,13:0:0:7,13:251,464:-58.6569,-38.1841,-36.0769,-20.8306,0,-16.9173 1/1:94:0,94,0:0:0:94,0:3248,0:-292.526,-28.2968,0,-292.526,-28.2968,-292.526 1/2:61:0,31,29:0:0:31,29:1091,1036:-173.277,-84.4648,-75.1329,-88.8081,0,-80.0783 1/2:141:0,65,76:0:0:65,76:2293,2724:-409.232,-222.525,-202.958,-187.062,0,-164.184 1/2:7:0,4,3:0:0:4,3:133,108:-19.9182,-9.17208,-7.96796,-11.0942,0,-10.1911 1/2:7:0,6,1:0:0:6,1:214,36:-20.7395,-3.29724,-1.49106,-17.8016,0,-17.5006 1/2:10:0,2,8:0:0:2,8:71,273:-28.2798,-22.4919,-21.8899,-6.14,0,-3.73176 1/1:66:0,65,0:0:0:65,0:2284,0:-205.489,-19.567,0,-205.489,-19.567,-205.489 1/2:70:0,32,38:0:0:32,38:1126,1360:-202.914,-111.261,-101.628,-92.0066,0,-80.5675 1/1:72:0,72,0:0:0:72,0:2496,0:-224.885,-21.6742,0,-224.885,-21.6742,-224.885 1/1:23:0,23,0:0:0:23,0:813,0:-73.4902,-6.92369,0,-73.4902,-6.92369,-73.4902 1/1:28:0,27,1:0:0:27,1:946,36:-85.092,-8.12781,0,-82.1542,-4.83057,-81.8532 1/2:41:0,17,24:0:0:17,24:590,864:-118.809,-70.8578,-65.7403,-48.3029,0,-41.0782 1/2:34:0,22,11:0:0:22,11:760,396:-94.0498,-32.3116,-25.6889,-61.7337,0,-58.4224 1/1:25:0,25,0:0:0:25,0:864,0:-78.0654,-7.52575,0,-78.0654,-7.52575,-78.0654 1/1:24:0,24,0:0:0:24,0:833,0:-75.2856,-7.22472,0,-75.2856,-7.22472,-75.2856 chr11 2019997 . A T 1717.96 PASS AB=0.40264;ABP=27.9571;AC=11;AF=0.261905;AN=42;AO=124;CIGAR=1X;DP=568;DPB=568;DPRA=1.09804;EPP=272.273;EPPR=967.144;GTI=1;LEN=1;MEANALT=1;MQM=59.6371;MQMR=59.9887;NS=21;NUMALT=1;ODDS=2.44098;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4381;QR=15901;RO=444;RPL=0;RPP=272.273;RPPR=967.144;RPR=124;RUN=1;SAF=0;SAP=272.273;SAR=124;SRF=0;SRP=967.144;SRR=444;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:18:18,0:18:633:0:0:0,-5.41854,-57.2951 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:24:15,9:15:540:9:320:-21.9153,0,-41.7118 0/1:20:10,10:10:351:10:360:-26.7191,0,-25.9061 0/1:67:41,26:41:1476:26:922:-63.1131,0,-112.967 0/1:51:36,15:36:1283:15:540:-33.584,0,-100.42 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.681 0/1:14:4,10:4:144:10:356:-28.1622,0,-9.0992 0/1:42:19,23:19:675:23:809:-60.485,0,-48.4337 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/1:15:13,2:13:468:2:72:-2.31775,0,-37.9442 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 0/1:43:28,15:28:1004:15:521:-34.272,0,-77.7316 0/0:42:42,0:42:1499:0:0:0,-12.6433,-135.204 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:6:3,3:3:108:3:89:-6.49818,0,-8.26899 0/1:13:6,7:6:216:7:248:-18.7508,0,-15.8771 0/0:49:48,1:48:1728:1:36:0,-11.1522,-152.207 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 chr11 2020039 . G A 2.01905 PASS AB=0.135802;ABP=189.65;AC=6;AF=0.142857;AN=42;AO=30;CIGAR=1X;DP=586;DPB=586;DPRA=1.21515;EPP=68.1545;EPPR=1210.35;GTI=5;LEN=1;MEANALT=1;MQM=59.8333;MQMR=59.9137;NS=21;NUMALT=1;ODDS=0.524499;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1076;QR=19890;RO=556;RPL=30;RPP=68.1545;RPPR=1210.35;RPR=0;RUN=1;SAF=0;SAP=68.1545;SAR=30;SRF=0;SRP=1210.35;SRR=556;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:18:17,1:17:612:1:36:0,-1.82026,-51.8152 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/0:26:26,0:26:913:0:0:0,-7.82678,-82.4801 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0016 0/0:71:69,2:69:2468:2:72:0,-14.5364,-215.527 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 0/1:51:45,6:45:1616:6:212:-4.07091,0,-130.377 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5702 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/1:12:8,4:8:288:4:144:-9.70126,0,-22.655 0/0:16:15,1:15:540:1:36:0,-1.2182,-45.3349 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:32:29,3:29:1036:3:108:-0.44221,0,-83.921 0/0:45:44,1:44:1580:1:36:0,-9.94807,-138.889 0/0:42:41,1:41:1472:1:36:0,-9.04498,-129.178 0/0:19:18,1:18:648:1:36:0,-2.12129,-55.0536 0/0:16:15,1:15:510:1:36:0,-1.2182,-42.6213 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:49:43,6:43:1539:6:216:-5.04004,0,-124.052 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 chr11 2028526 . C T 47256.6 PASS AB=0.523519;ABP=10.8751;AC=29;AF=0.690476;AN=42;AO=2341;CIGAR=1X;DP=3134;DPB=3134;DPRA=39.125;EPP=5086.43;EPPR=1724.99;GTI=1;LEN=1;MEANALT=1;MQM=59.9906;MQMR=60;NS=21;NUMALT=1;ODDS=8.62614;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81962;QR=28206;RO=793;RPL=2341;RPP=5086.43;RPPR=1724.99;RPR=0;RUN=1;SAF=0;SAP=5086.43;SAR=2341;SRF=0;SRP=1724.99;SRR=793;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,136:0:0:136:4801:-432.252,-40.9401,0 1/1:95:1,94:1:36:94:3267:-290.655,-24.9996,0 0/1:108:57,51:57:2002:51:1755:-125.716,0,-147.939 0/1:268:121,147:121:4283:147:5166:-384.412,0,-304.971 0/1:381:167,214:167:5951:214:7516:-561.802,0,-421.003 0/1:164:93,71:93:3325:71:2505:-176.33,0,-250.097 1/1:263:0,263:0:0:263:9130:-821.698,-79.1709,0 0/1:160:84,76:84:2997:76:2654:-190.941,0,-221.796 0/1:144:71,73:71:2499:73:2568:-188.024,0,-181.811 0/1:16:9,7:9:320:7:252:-18.2125,0,-24.3259 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:36:26,10:26:928:10:352:-21.1811,0,-73.0012 1/1:240:0,240:0:0:240:8467:-762.044,-72.2472,0 0/1:186:82,104:82:2932:104:3654:-273.075,0,-208.123 1/1:298:1,297:1:36:297:10307:-923.972,-86.1087,0 1/1:109:0,109:0:0:109:3790:-341.304,-32.8123,0 1/1:169:2,167:2:72:167:5856:-520.322,-44.0373,0 0/1:86:42,44:42:1493:44:1553:-114.171,0,-108.774 0/1:88:28,60:28:1008:60:2137:-166.106,0,-64.5457 1/1:119:5,114:5:180:114:3960:-340.044,-19.2705,0 1/1:64:0,64:0:0:64:2272:-204.743,-19.2659,0 chr11 2028819 . ACCCG ACCCA 16864.3 PASS AB=0.467448;ABP=10.0789;AC=30;AF=0.714286;AN=42;AO=867;CIGAR=4M1X;DP=1289;DPB=1289;DPRA=0;EPP=1885.68;EPPR=867.256;GTI=0;LEN=1;MEANALT=1.85714;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.14107;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30196;QR=12769;RO=398;RPL=867;RPP=1885.68;RPPR=867.256;RPR=0;RUN=1;SAF=867;SAP=1885.68;SAR=0;SRF=398;SRP=867.256;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:0,47:0:0:47:1641:-147.674,-14.1484,0 1/1:38:0,35:0:0:35:1218:-109.655,-10.5361,0 0/1:72:43,28:43:1382:28:996:-68.2221,0,-102.936 0/1:63:35,27:35:1118:27:928:-64.8253,0,-81.9087 0/1:147:70,75:70:2233:75:2599:-190.197,0,-157.274 0/1:55:27,27:27:873:27:947:-69.0153,0,-62.3419 1/1:87:0,86:0:0:86:3005:-270.433,-25.8886,0 0/1:64:34,28:34:1087:28:978:-69.3501,0,-79.1442 0/1:53:30,23:30:998:23:808:-57.0855,0,-74.1676 0/1:11:7,4:7:231:4:135:-9.17118,0,-17.8026 0/1:7:6,1:6:190:1:36:-1.49107,0,-15.3055 0/1:19:8,11:8:270:11:388:-29.5378,0,-18.9095 1/1:66:0,64:0:0:64:2219:-199.682,-19.2659,0 0/1:64:35,28:35:1108:28:988:-70.0634,0,-80.8435 1/1:105:1,102:1:27:102:3552:-317.177,-28.5829,0 1/1:25:0,24:0:0:24:855:-76.9584,-7.22472,0 1/1:37:0,36:0:0:36:1259:-113.31,-10.8371,0 0/1:140:79,60:79:2524:60:2071:-144.535,0,-185.297 0/1:73:23,47:23:728:47:1606:-123.437,0,-44.4349 1/1:80:0,80:0:0:80:2805:-252.692,-24.0824,0 1/1:34:0,34:0:0:34:1162:-104.882,-10.235,0 chr11 2170684 . G T 9079.7 PASS AB=0.48976;ABP=4.03319;AC=12;AF=0.285714;AN=42;AO=554;CIGAR=1X;DP=1924;DPB=1924;DPRA=1.11681;EPP=1197.34;EPPR=2971.41;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.935;MQMR=59.9927;NS=21;NUMALT=1;ODDS=9.14079;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19622;QR=48576;RO=1367;RPL=554;RPP=1206.01;RPPR=2971.41;RPR=0;RUN=1;SAF=553;SAP=1197.34;SAR=1;SRF=1367;SRP=2971.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:156:155,0:155:5493:0:0:0,-46.6596,-494.139 0/0:50:50,0:50:1788:0:0:0,-15.0515,-161.203 0/1:88:42,46:42:1495:46:1632:-120.678,0,-108.353 0/1:76:49,27:49:1726:27:960:-63.838,0,-132.74 0/1:210:105,104:105:3711:104:3718:-271.545,0,-270.918 0/1:71:32,39:32:1139:39:1392:-104.206,0,-81.4453 0/0:150:150,0:150:5343:0:0:0,-45.1545,-481.003 0/1:147:77,70:77:2727:70:2441:-175.679,0,-201.42 0/1:199:83,116:83:2969:116:4113:-310.447,0,-207.536 0/1:15:7,8:7:252:8:284:-21.3879,0,-18.5135 0/1:6:3,3:3:108:3:90:-6.5918,0,-8.26899 0/1:37:24,13:24:864:13:468:-31.3215,0,-66.9445 0/0:136:134,1:134:4762:1:36:0,-37.4006,-425.139 0/1:131:74,57:74:2607:57:2028:-143.355,0,-195.44 0/0:106:106,0:106:3765:0:0:0,-31.9092,-339.05 0/0:53:53,0:53:1896:0:0:0,-15.9546,-170.918 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.63 0/1:74:38,36:38:1318:36:1292:-94.3075,0,-96.6392 0/1:69:38,31:38:1364:31:1069:-75.7442,0,-102.29 0/0:70:67,3:67:2390:3:99:0,-11.8355,-206.12 0/0:48:48,0:48:1711:0:0:0,-14.4494,-154.275 chr11 2173039 . T C 3272.76 PASS AB=0.339066;ABP=186.129;AC=12;AF=0.285714;AN=42;AO=277;CIGAR=1X;DP=1674;DPB=1674;DPRA=0.823378;EPP=604.508;EPPR=3036.56;GTI=1;LEN=1;MEANALT=1;MQM=42.231;MQMR=56.4309;NS=21;NUMALT=1;ODDS=3.13457;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9818;QR=49708;RO=1397;RPL=0;RPP=604.508;RPPR=3036.56;RPR=277;RUN=1;SAF=0;SAP=604.508;SAR=277;SRF=0;SRP=3036.56;SRR=1397;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:75,0:75:2665:0:0:0,-22.5772,-239.829 0/0:72:72,0:72:2576:0:0:0,-21.6742,-231.347 0/1:85:61,24:61:2192:24:864:-50.4376,0,-171.819 0/1:85:60,25:60:2091:25:876:-51.0387,0,-162.55 0/1:179:112,67:112:3995:67:2383:-154.304,0,-303.4 0/1:95:63,32:63:2207:32:1144:-72.2045,0,-169.983 0/0:182:182,0:182:6464:0:0:0,-54.7875,-581.098 0/1:68:44,24:44:1565:24:833:-52.8005,0,-120.47 0/1:109:66,43:66:2360:43:1530:-102.508,0,-179.695 0/1:7:5,2:5:180:2:54:-2.29714,0,-14.3928 0/1:14:8,6:8:288:6:212:-14.8265,0,-22.0466 0/1:17:10,7:10:356:7:252:-17.4169,0,-27.2491 0/0:144:143,1:143:5071:1:36:0,-39.8456,-451.781 0/1:75:56,19:56:2004:19:671:-36.4956,0,-157.767 0/0:112:112,0:112:4016:0:0:0,-33.7154,-361.213 0/0:86:86,0:86:3058:0:0:0,-25.8886,-275.261 0/0:49:49,0:49:1728:0:0:0,-14.7505,-155.146 0/1:44:30,14:30:1076:14:495:-30.717,0,-83.8662 0/1:36:23,13:23:820:13:468:-30.4948,0,-63.2351 0/0:99:99,0:99:3528:0:0:0,-29.802,-316.758 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.175 chr11 2177657 . TG GC,GA 20755.6 PASS AB=0.514463,0.481405;ABP=3.88966,4.46393;AC=30,12;AF=0.714286,0.285714;AN=42;AO=553,234;CIGAR=2X,2X;DP=790;DPB=790;DPRA=0,1.1589;EPP=13.2237,11.3621;EPPR=0;GTI=0;LEN=2,2;MEANALT=1.7619,2.15385;MQM=53.8391,59.5043;MQMR=0;NS=21;NUMALT=2;ODDS=8.17204;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19457,8156;QR=0;RO=0;RPL=1,1;RPP=1195.16,502.486;RPPR=0;RPR=552,233;RUN=1,1;SAF=303,133;SAP=14.0404,12.5128;SAR=250,101;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,31,1:0:0:31,1:1114,36:-100.125,-9.33193,0,-97.1877,-6.03469,-96.8867 1/1:14:0,13,0:0:0:13,0:451,0:-40.3176,-3.91339,0,-40.3176,-3.91339,-40.3176 1/2:15:0,10,5:0:0:10,5:356,178:-43.8128,-14.8635,-11.8532,-29.3049,0,-27.7998 1/2:32:0,19,13:0:0:19,13:666,457:-91.6981,-37.5469,-31.8273,-54.5021,0,-50.5887 1/2:48:0,26,22:0:0:26,22:930,773:-138.956,-63.2335,-55.4067,-76.0762,0,-69.4535 1/2:37:0,11,25:0:0:11,25:396,889:-104.473,-72.4316,-69.1202,-32.0381,0,-24.5123 1/1:37:0,37,0:0:0:37,0:1306,0:-117.524,-11.1381,0,-117.524,-11.1381,-117.524 1/2:24:0,7,17:0:0:7,17:247,612:-70.2523,-50.2959,-48.1887,-20.3094,0,-15.1919 1/2:53:0,24,29:0:0:24,29:845,992:-149.571,-80.7955,-73.5708,-69.1225,0,-60.3926 1/2:4:0,2,2:0:0:2,2:72,72:-12.1001,-6.23466,-5.6326,-6.22497,0,-5.62291 1/2:4:0,1,3:0:0:1,3:36,108:-12.1011,-9.17208,-8.87105,-3.2882,0,-2.38511 1/2:8:0,6,2:0:0:6,2:200,72:-22.3812,-6.23466,-4.42848,-16.4996,0,-15.8976 1/1:33:0,33,0:0:0:33,0:1186,0:-106.708,-9.93399,0,-106.708,-9.93399,-106.708 1/2:36:0,11,25:0:0:11,25:396,856:-102.029,-69.8222,-66.5109,-32.5609,0,-25.0352 1/1:35:0,35,0:0:0:35,0:1200,0:-108.115,-10.5361,0,-108.115,-10.5361,-108.115 1/1:18:0,18,0:0:0:18,0:643,0:-57.8373,-5.41854,0,-57.8373,-5.41854,-57.8373 1/1:14:0,14,0:0:0:14,0:496,0:-44.9523,-4.21442,0,-44.9523,-4.21442,-44.9523 1/2:120:0,55,64:0:0:55,64:1899,2181:-330.58,-176.91,-160.353,-153.653,0,-134.387 1/2:103:0,77,26:0:0:77,26:2704,930:-295.456,-76.1921,-53.0128,-219.619,0,-211.793 1/1:35:0,35,0:0:0:35,0:1238,0:-111.426,-10.5361,0,-111.426,-10.5361,-111.426 1/1:88:0,88,0:0:0:88,0:3076,0:-275.992,-26.4906,0,-275.992,-26.4906,-275.992 chr11 2197450 . A C 8395.21 PASS AB=0.529039;ABP=9.94663;AC=13;AF=0.309524;AN=42;AO=505;CIGAR=1X;DP=1700;DPB=1700;DPRA=0.95227;EPP=1099.6;EPPR=2589.23;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.9545;MQMR=60;NS=21;NUMALT=1;ODDS=4.34749;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17761;QR=42336;RO=1191;RPL=505;RPP=1099.6;RPPR=2589.23;RPR=0;RUN=1;SAF=505;SAP=1099.6;SAR=0;SRF=1191;SRP=2589.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:98:98,0:98:3508:0:0:0,-29.5009,-315.93 0/0:44:44,0:44:1546:0:0:0,-13.2453,-139.428 0/1:80:32,48:32:1114:48:1690:-128.301,0,-76.4808 0/1:94:42,52:42:1504:52:1859:-139.292,0,-107.358 0/1:146:71,75:71:2528:75:2663:-195.966,0,-183.822 0/1:118:56,62:56:1969:62:2137:-157.071,0,-141.962 0/0:79:79,0:79:2804:0:0:0,-23.7814,-252.601 0/1:94:38,56:38:1360:56:1963:-148.646,0,-94.4038 0/1:148:70,76:70:2508:76:2657:-195.065,0,-181.662 0/1:5:1,4:1:36:4:129:-10.4225,0,-2.09312 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:27:18,9:18:635:9:324:-21.378,0,-49.3492 0/0:90:89,0:89:3165:0:0:0,-26.7917,-284.715 0/1:84:38,46:38:1348:46:1644:-122.735,0,-96.3337 0/0:122:122,0:122:4340:0:0:0,-36.7257,-390.778 0/0:111:111,0:111:3938:0:0:0,-33.4143,-354.612 0/0:99:98,0:98:3489:0:0:0,-29.5009,-313.861 0/1:118:57,61:57:2044:61:2123:-155.812,0,-148.71 0/1:33:21,12:21:733:12:428:-28.9248,0,-56.3557 0/0:82:82,0:82:2919:0:0:0,-24.6845,-262.945 0/0:24:24,0:24:848:0:0:0,-7.22472,-76.6397 chr11 2197567 . G A 8917.65 PASS AB=0.521912;ABP=7.19752;AC=13;AF=0.309524;AN=42;AO=531;CIGAR=1X;DP=1970;DPB=1970;DPRA=0.911175;EPP=1156.06;EPPR=3125.59;GTI=2;LEN=1;MEANALT=1;MQM=59.9529;MQMR=59.9854;NS=21;NUMALT=1;ODDS=1.06767;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18865;QR=51057;RO=1438;RPL=0;RPP=1156.06;RPPR=3125.59;RPR=531;RUN=1;SAF=0;SAP=1156.06;SAR=531;SRF=0;SRP=3125.59;SRR=1438;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:160:159,1:159:5686:1:32:0,-44.9655,-508.659 0/0:108:108,0:108:3840:0:0:0,-32.5112,-345.796 0/1:72:32,40:32:1139:40:1436:-107.864,0,-81.1442 0/1:123:59,64:59:2103:64:2279:-168.344,0,-152.512 0/1:218:92,126:92:3266:126:4478:-337.561,0,-228.537 0/1:189:96,93:96:3432:93:3295:-239.874,0,-252.199 0/0:139:138,0:138:4878:0:0:0,-41.5421,-438.816 0/1:87:54,33:54:1919:33:1179:-80.2276,0,-146.797 0/1:124:47,77:47:1676:77:2753:-210.678,0,-113.799 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/1:12:5,7:5:180:7:248:-19.0518,0,-12.9397 0/0:114:114,0:114:4061:0:0:0,-34.3174,-365.607 0/1:87:48,39:48:1609:39:1342:-94.8821,0,-118.901 0/0:121:121,0:121:4290:0:0:0,-36.4246,-386.278 0/0:71:71,0:71:2526:0:0:0,-21.3731,-227.591 0/0:104:102,2:102:3619:2:72:0,-24.4704,-319.078 0/1:47:21,26:21:739:26:927:-69.599,0,-52.684 0/1:40:22,18:22:792:18:644:-46.2494,0,-59.5645 0/0:104:104,0:104:3703:0:0:0,-31.3071,-333.473 0/0:41:41,0:41:1459:0:0:0,-12.3422,-131.605 chr11 2278465 . A G 8434.13 PASS AB=0.584541;ABP=54.4123;AC=12;AF=0.285714;AN=42;AO=487;CIGAR=1X;DP=1312;DPB=1312;DPRA=1.59544;EPP=1060.52;EPPR=1790.13;GTI=2;LEN=1;MEANALT=1.06667;MQM=59.9877;MQMR=55.7351;NS=21;NUMALT=1;ODDS=2.91178;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17358;QR=28429;RO=823;RPL=0;RPP=1060.52;RPPR=1790.13;RPR=487;RUN=1;SAF=487;SAP=1060.52;SAR=0;SRF=823;SRP=1790.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:70,1:70:2427:1:32:0,-18.1738,-213.767 0/0:50:50,0:50:1695:0:0:0,-15.0515,-152.423 0/1:70:39,31:39:1318:31:1101:-78.3263,0,-97.6437 0/1:84:29,55:29:1009:55:1957:-151.117,0,-65.7219 0/1:176:68,108:68:2358:108:3850:-293.713,0,-158.912 0/1:85:28,57:28:972:57:2025:-156.933,0,-62.0664 0/0:72:72,0:72:2462:0:0:0,-21.6742,-221.464 0/1:63:29,34:29:1012:34:1216:-90.7813,0,-72.3008 0/1:148:58,88:58:2013:88:3133:-237.885,0,-137.014 0/1:14:6,8:6:208:8:284:-21.6889,0,-14.8294 0/1:5:1,4:1:32:4:144:-11.8085,0,-1.69313 0/1:12:3,9:3:93:9:324:-25.8935,0,-5.05734 0/0:80:79,1:79:2727:1:32:0,-20.8831,-242.066 0/1:92:49,43:49:1720:43:1536:-110.837,0,-126.953 0/0:70:69,1:69:2375:1:36:0,-17.4738,-210.062 0/0:30:30,0:30:1049:0:0:0,-9.0309,-94.7063 0/0:26:26,0:26:877:0:0:0,-7.82678,-78.9826 0/1:47:16,31:16:560:31:1112:-86.2429,0,-36.5347 0/1:32:16,16:16:564:16:576:-42.542,0,-41.3777 0/0:55:55,0:55:1890:0:0:0,-16.5566,-170.214 0/0:30:30,0:30:1068:0:0:0,-9.0309,-95.9859 chr11 2278492 . CAACT CACC 14871.7 PASS AB=0.417736;ABP=53.3849;AC=30;AF=0.714286;AN=42;AO=860;CIGAR=1M1D2M1X;DP=1364;DPB=1191.4;DPRA=0;EPP=1870.48;EPPR=1086.58;GTI=1;LEN=4;MEANALT=1.2381;MQM=55.7058;MQMR=59.99;NS=21;NUMALT=1;ODDS=0.04904;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28400;QR=17386;RO=499;RPL=860;RPP=1870.48;RPPR=1086.58;RPR=0;RUN=1;SAF=860;SAP=1870.48;SAR=0;SRF=499;SRP=1086.58;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:1,70:1:34:70:2205:-194.398,-17.9742,0 1/1:53:0,53:0:0:53:1714:-154.211,-15.9546,0 0/1:72:32,40:32:1117:40:1355:-100.342,0,-79.1622 0/1:86:55,30:55:1907:30:989:-63.323,0,-145.978 0/1:183:113,69:113:3951:69:2334:-154.933,0,-300.79 0/1:86:58,27:58:2002:27:885:-54.0397,0,-154.584 1/1:75:0,75:0:0:75:2527:-227.441,-22.5773,0 0/1:64:33,31:33:1138:31:1029:-73.4735,0,-83.4575 0/1:153:91,62:91:3204:62:2041:-137.846,0,-242.529 0/1:14:8,6:8:281:6:175:-11.8166,0,-21.416 0/1:5:4,1:4:134:1:36:-2.09053,0,-10.8856 0/1:12:9,3:9:308:3:105:-6.17495,0,-24.4386 1/1:85:1,84:1:31:84:2775:-246.405,-22.4881,0 0/1:101:45,56:45:1560:56:1838:-134.712,0,-110.285 1/1:76:1,74:1:36:74:2477:-219.37,-19.3349,0 1/1:31:0,31:0:0:31:1029:-92.8992,-9.33193,0 1/1:27:0,27:0:0:27:884:-79.7775,-8.12781,0 0/1:49:32,17:32:1115:17:581:-37.8156,0,-85.9057 0/1:32:16,16:16:568:16:511:-36.6167,0,-41.8188 1/1:58:0,57:0:0:57:1883:-169.156,-17.1587,0 1/1:31:0,31:0:0:31:1027:-92.3009,-9.33193,0 chr11 2278522 . C T 15587.4 PASS AB=0.413709;ABP=55.8512;AC=30;AF=0.714286;AN=42;AO=812;CIGAR=1X;DP=1295;DPB=1295;DPRA=0;EPP=1766.25;EPPR=1051.83;GTI=0;LEN=1;MEANALT=1;MQM=55.7968;MQMR=59.9979;NS=21;NUMALT=1;ODDS=3.54747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28630;QR=16916;RO=483;RPL=812;RPP=1766.25;RPPR=1051.83;RPR=0;RUN=1;SAF=812;SAP=1766.25;SAR=0;SRF=483;SRP=1051.83;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:1,67:1:36:67:2344:-205.808,-16.8718,0 1/1:50:0,50:0:0:50:1765:-158.552,-15.0515,0 0/1:71:32,39:32:1122:39:1388:-103.593,0,-79.9132 0/1:82:55,27:55:1948:27:956:-61.5625,0,-150.912 0/1:178:108,70:108:3800:70:2463:-167.547,0,-288.616 0/1:78:55,23:55:1938:23:811:-49.7447,0,-151.215 1/1:73:0,73:0:0:73:2562:-230.463,-21.9752,0 0/1:62:32,30:32:1126:30:1056:-76.4957,0,-82.9826 0/1:150:89,61:89:3144:61:2134:-147.045,0,-238.029 0/1:12:8,4:8:275:4:131:-8.49245,0,-21.4711 0/1:5:3,2:3:108:2:72:-5.32911,0,-8.57002 0/1:12:9,3:9:312:3:100:-5.71185,0,-24.803 1/1:80:1,79:1:32:79:2800:-248.535,-20.8831,0 0/1:89:41,48:41:1387:48:1675:-124.101,0,-98.3274 1/1:69:2,67:2:68:67:2375:-207.264,-14.3134,0 1/1:29:0,29:0:0:29:1031:-93.0919,-8.72987,0 1/1:26:0,26:0:0:26:916:-82.6501,-7.82678,0 0/1:49:32,17:32:1114:17:595:-39.0761,0,-85.8127 0/1:29:15,14:15:506:14:504:-36.878,0,-37.128 1/1:53:0,53:0:0:53:1884:-169.475,-15.9546,0 1/1:30:0,30:0:0:30:1068:-96.3549,-9.0309,0 chr11 2278613 . G C 8861.61 PASS AB=0.312155;ABP=224.908;AC=30;AF=0.714286;AN=42;AO=497;CIGAR=1X;DP=996;DPB=996;DPRA=0;EPP=1082.23;EPPR=1084.4;GTI=5;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.02989;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17673;QR=17665;RO=498;RPL=0;RPP=1082.23;RPPR=1084.4;RPR=497;RUN=1;SAF=0;SAP=1082.23;SAR=497;SRF=0;SRP=1084.4;SRR=498;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:17:0,17:0:0:17:589:-53.3333,-5.11751,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:66:52,14:52:1837:14:500:-25.4682,0,-145.741 0/1:46:37,8:37:1315:8:288:-12.3612,0,-104.745 0/1:125:91,34:91:3219:34:1212:-71.7576,0,-252.303 0/1:38:21,17:21:752:17:608:-43.6129,0,-56.5671 1/1:63:0,63:0:0:63:2231:-201.054,-18.9649,0 0/1:92:61,31:61:2164:31:1096:-71.2552,0,-167.33 0/1:118:98,20:98:3472:20:697:-27.5291,0,-277.171 0/1:8:7,1:7:248:1:36:-1.19004,0,-20.256 0/1:6:5,1:5:171:1:36:-1.79209,0,-13.9193 0/1:24:12,12:12:428:12:432:-31.9965,0,-31.6341 1/1:37:0,37:0:0:37:1323:-119.371,-11.1381,0 0/1:50:36,14:36:1288:14:487:-29.1077,0,-101.172 1/1:61:0,61:0:0:61:2188:-197.186,-18.3628,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 0/1:109:64,45:64:2284:45:1607:-112.107,0,-173.01 0/1:42:13,29:13:451:29:1027:-80.0989,0,-28.2766 1/1:12:1,11:1:36:11:388:-31.6591,-0.0140851,0 1/1:21:0,21:0:0:21:748:-67.6453,-6.32163,0 chr11 2311591 . GT GC 4890.5 PASS AB=0.567944;ABP=14.5183;AC=30;AF=0.714286;AN=42;AO=481;CIGAR=1M1X;DP=609;DPB=609;DPRA=0;EPP=1038.82;EPPR=272.273;GTI=2;LEN=1;MEANALT=1.09524;MQM=24.0146;MQMR=25.8145;NS=21;NUMALT=1;ODDS=0.419329;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17094;QR=4332;RO=124;RPL=1;RPP=1038.82;RPPR=272.273;RPR=480;RUN=1;SAF=481;SAP=1047.49;SAR=0;SRF=124;SRP=272.273;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32:0:0:32:1135:-69.1561,-9.63296,0 1/1:22:0,21:0:0:21:752:-45.9396,-6.32163,0 0/1:21:14,7:14:500:7:248:-8.74841,0,-25.9652 0/1:27:14,13:14:493:13:451:-19.6767,0,-23.8309 0/1:63:26,37:26:921:37:1298:-56.9608,0,-40.6748 0/1:27:12,15:12:408:15:540:-24.1522,0,-18.8031 1/1:49:0,49:0:0:49:1744:-104.154,-14.7505,0 0/1:30:11,19:11:385:19:684:-31,0,-16.1042 0/1:35:6,29:6:210:29:1028:-50.9979,0,-3.29535 0/1:5:2,3:2:72:3:108:-5.14073,0,-3.35639 0/1:5:4,1:4:142:1:36:-0.86838,0,-7.85638 0/1:12:5,7:5:169:7:252:-11.5782,0,-7.87065 1/1:29:0,29:0:0:29:1032:-60.2318,-8.72987,0 0/1:34:16,18:16:541:18:640:-27.5876,0,-25.6692 1/1:113:0,113:0:0:113:4008:-239.552,-34.0164,0 1/1:13:0,13:0:0:13:460:-27.7683,-3.91339,0 1/1:22:0,19:0:0:19:680:-40.2089,-5.71957,0 0/1:16:10,6:10:347:6:216:-8.06342,0,-18.0019 0/1:12:4,8:4:144:8:288:-13.5407,0,-5.85485 1/1:32:0,32:0:0:32:1134:-69.1223,-9.63296,0 1/1:10:0,10:0:0:10:360:-21.5991,-3.0103,0 chr11 2313021 . C A 35844 PASS AB=0.483146;ABP=6.52369;AC=30;AF=0.714286;AN=42;AO=1753;CIGAR=1X;DP=2497;DPB=2497;DPRA=0;EPP=3809.6;EPPR=1614.24;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.899;MQMR=59.9474;NS=21;NUMALT=1;ODDS=12.4706;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62554;QR=26553;RO=742;RPL=0;RPP=3809.6;RPPR=1614.24;RPR=1753;RUN=1;SAF=1753;SAP=3809.6;SAR=0;SRF=742;SRP=1614.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,121:0:0:121:4333:-390.088,-36.4246,0 1/1:81:0,80:0:0:80:2868:-257.992,-24.0824,0 0/1:164:103,61:103:3688:61:2169:-146.106,0,-282.747 0/1:128:50,78:50:1792:78:2777:-211.586,0,-123.031 0/1:273:166,106:166:5913:106:3788:-258.684,0,-450.04 0/1:126:60,66:60:2152:66:2372:-175.794,0,-156.017 1/1:137:1,136:1:36:136:4828:-431.075,-37.6428,0 0/1:125:66,59:66:2360:59:2086:-150.36,0,-175.03 0/1:247:122,125:122:4388:125:4450:-326.297,0,-320.737 0/1:13:8,5:8:288:5:180:-12.6387,0,-22.354 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:25:18,7:18:640:7:252:-15.5032,0,-50.3954 1/1:241:3,238:3:108:238:8505:-755.302,-62.4731,0 0/1:125:59,66:59:2104:66:2346:-173.767,0,-151.944 1/1:202:0,202:0:0:202:7254:-652.91,-60.8081,0 1/1:55:0,55:0:0:55:1957:-176.404,-16.5567,0 1/1:52:0,52:0:0:52:1823:-164.345,-15.6536,0 0/1:116:56,60:56:2008:60:2160:-159.747,0,-146.074 0/1:78:25,53:25:896:53:1900:-147.753,0,-57.48 1/1:131:3,128:3:108:128:4541:-398.78,-29.3598,0 1/1:53:0,53:0:0:53:1893:-170.646,-15.9546,0 chr11 2313037 . GAAAT AAAAT,AAAAA 62797.3 PASS AB=0.478291,0.518207;ABP=8.85564,7.12211;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1745,748;CIGAR=1X4M,1X3M1X;DP=2500;DPB=2500;DPRA=0,1.3762;EPP=1611.73,775.962;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.04762,2.4;MQM=59.8986,59.9345;MQMR=0;NS=21;NUMALT=2;ODDS=13.8026;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62572,26657;QR=0;RO=0;RPL=304,116;RPP=1611.73,775.962;RPPR=0;RPR=1441,632;RUN=1,1;SAF=1745,748;SAP=3792.23,1627.27;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,119,0:0:0:119,0:4265,0:-383.97,-35.8226,0,-383.97,-35.8226,-383.97 1/1:81:0,81,0:0:0:81,0:2912,0:-262.296,-24.3834,0,-262.296,-24.3834,-262.296 1/2:164:0,60,104:0:0:60,104:2160,3715:-479.487,-303.241,-285.18,-176.605,0,-145.298 1/2:129:0,78,51:0:0:78,51:2766,1812:-373.284,-148.008,-124.528,-225.63,0,-210.278 1/2:272:0,104,165:0:0:104,165:3740,5884:-784.625,-479.683,-448.376,-304.979,0,-255.309 1/2:128:0,66,62:0:0:66,62:2372,2190:-372.212,-178.699,-158.831,-193.87,0,-175.206 1/1:136:0,135,1:0:0:135,1:4848,36:-436.112,-40.6391,0,-433.175,-37.3418,-432.874 1/2:125:0,58,66:0:0:58,66:2084,2364:-362.864,-192.869,-175.41,-170.071,0,-150.203 1/2:248:0,125,123:0:0:125,123:4490,4399:-725.325,-359.057,-321.428,-366.627,0,-329.6 1/2:13:0,5,8:0:0:5,8:176,287:-38.0937,-23.7682,-22.2631,-14.6799,0,-12.2716 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:25:0,7,18:0:0:7,18:248,642:-72.891,-52.6888,-50.5816,-20.557,0,-15.1384 1/1:242:0,237,4:0:0:237,4:8496,140:-764.212,-71.3441,0,-752.821,-59.9613,-751.617 1/2:125:0,65,60:0:0:65,60:2332,2120:-363.205,-172.988,-153.421,-190.573,0,-172.511 1/1:201:0,201,0:0:0:201,0:7205,0:-648.501,-60.507,0,-648.501,-60.507,-648.501 1/1:56:0,56,0:0:0:56,0:2000,0:-180.274,-16.8577,0,-180.274,-16.8577,-180.274 1/1:52:0,51,0:0:0:51,0:1836,0:-165.161,-15.3525,0,-165.161,-15.3525,-165.161 1/2:117:0,60,56:0:0:60,56:2160,1995:-338.853,-162.606,-144.544,-176.245,0,-159.387 1/2:78:0,53,25:0:0:53,25:1889,893:-227.094,-73.1642,-57.2096,-154.287,0,-146.761 1/1:131:0,128,3:0:0:128,3:4600,108:-413.79,-38.5318,0,-404.978,-29.3598,-404.074 1/1:54:0,54,0:0:0:54,0:1921,0:-173.165,-16.2556,0,-173.165,-16.2556,-173.165 chr11 2357265 . C A 11467.9 PASS AB=0.510927;ABP=4.38649;AC=11;AF=0.261905;AN=42;AO=684;CIGAR=1X;DP=2479;DPB=2479;DPRA=1.77561;EPP=1488.3;EPPR=3894.29;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9211;MQMR=59.966;NS=21;NUMALT=1;ODDS=7.19064;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24358;QR=63831;RO=1792;RPL=0;RPP=1488.3;RPPR=3894.29;RPR=684;RUN=1;SAF=0;SAP=1488.3;SAR=684;SRF=0;SRP=3894.29;SRR=1792;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:199:198,1:198:7056:1:21:0,-57.805,-632.997 0/0:129:129,0:129:4624:0:0:0,-38.8329,-416.323 0/1:103:49,54:49:1752:54:1923:-142.34,0,-126.958 0/1:141:63,78:63:2221:78:2772:-207.272,0,-157.708 0/1:287:156,131:156:5565:131:4658:-332.985,0,-414.579 0/1:153:61,92:61:2145:92:3284:-249.721,0,-147.256 0/0:192:191,1:191:6821:1:27:0,-55.0988,-611.262 0/1:143:74,69:74:2637:69:2484:-180.765,0,-194.528 0/1:215:98,117:98:3504:117:4175:-311.21,0,-250.832 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:34:11,23:11:396:23:828:-64.5806,0,-25.7477 0/1:156:84,72:84:3020:72:2565:-184.138,0,-225.069 0/0:115:115,0:115:4045:0:0:0,-34.6184,-364.237 0/0:182:180,1:180:6452:1:36:0,-51.248,-577.155 0/0:91:91,0:91:3236:0:0:0,-27.3937,-291.461 0/0:98:97,1:97:3444:1:36:0,-25.9027,-306.574 0/1:38:24,14:24:847:14:487:-32.7201,0,-65.1096 0/1:51:26,23:26:928:23:810:-57.8814,0,-68.7282 0/0:110:108,2:108:3831:2:72:0,-26.2766,-338.144 0/0:29:29,0:29:1019:0:0:0,-8.72987,-92.0213 chr11 2374151 . TGCG AGCG,GGCA 15037.2 PASS AB=0.541796,0.455108;ABP=7.91124,8.6642;AC=31,11;AF=0.738095,0.261905;AN=42;AO=427,147;CIGAR=1X3M,1X2M1X;DP=580;DPB=580;DPRA=0,1.14255;EPP=43.2919,7.27939;EPPR=3.73412;GTI=0;LEN=1,4;MEANALT=1.61905,2.09091;MQM=60,59.7143;MQMR=60;NS=21;NUMALT=2;ODDS=2.87247;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=15047,5032;QR=89;RO=3;RPL=0,0;RPP=930.229,322.217;RPPR=9.52472;RPR=427,147;RUN=1,1;SAF=258,82;SAP=43.2919,7.27939;SAR=169,65;SRF=1;SRP=3.73412;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:17:0,17,0:0:0:17,0:608,0:-55.052,-5.11751,0,-55.052,-5.11751,-55.052 1/1:21:0,21,0:0:0:21,0:734,0:-66.3804,-6.32163,0,-66.3804,-6.32163,-66.3804 1/2:16:0,10,6:0:0:10,6:356,200:-45.5502,-16.521,-13.5107,-29.3709,0,-27.5648 1/2:26:0,10,16:0:0:10,16:360,558:-75.1099,-45.7314,-42.7211,-29.734,0,-24.9175 1/2:30:0,17,13:0:0:17,13:603,451:-86.1391,-37.0072,-31.8897,-49.482,0,-45.5686 1/2:31:0,16,15:0:0:16,15:567,524:-89.1665,-42.9739,-38.1574,-46.5442,0,-42.0288 1/1:32:1,31,0:1:36:31,0:1079,0:-93.8167,-6.03469,0,-94.1177,-9.33193,-97.0555 1/2:14:0,6,8:0:0:6,8:216,281:-40.8502,-23.2219,-21.4157,-17.9843,0,-15.5761 1/2:35:0,17,18:0:0:17,18:597,626:-99.8272,-51.238,-46.1204,-48.9386,0,-43.5201 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:8:0,4,4:0:0:4,4:144,144:-23.8592,-12.1095,-10.9054,-12.1095,0,-10.9054 1/2:36:0,22,13:0:0:22,13:784,434:-99.0256,-35.1079,-28.4853,-63.9016,0,-59.9882 1/1:23:0,23,0:0:0:23,0:820,0:-74.1225,-6.92369,0,-74.1225,-6.92369,-74.1225 1/1:36:1,33,0:1:24:33,0:1172,0:-103.308,-8.11506,0,-103.609,-9.93399,-105.465 1/1:10:0,10,0:0:0:10,0:352,0:-32.0182,-3.0103,0,-32.0182,-3.0103,-32.0182 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/2:60:0,30,30:0:0:30,30:1053,1003:-167.212,-81.5065,-72.4756,-86.0477,0,-77.0168 1/2:63:0,40,23:0:0:40,23:1384,775:-175.609,-63.1363,-51.0951,-112.813,0,-105.89 1/1:40:0,40,0:0:0:40,0:1380,0:-124.491,-12.0412,0,-124.491,-12.0412,-124.491 1/1:68:1,67,0:1:29:67,0:2374,0:-211.018,-17.5704,0,-211.319,-20.169,-213.627 chr11 2521106 . CGGGAAT CGGAAT 18240 PASS AB=0.500448;ABP=3.01419;AC=11;AF=0.261905;AN=42;AO=1119;CIGAR=1M1D5M;DP=4314;DPB=4153.29;DPRA=1.31395;EPP=2424.21;EPPR=6886.58;GTI=0;LEN=1;MEANALT=2.30769;MQM=59.8257;MQMR=59.5855;NS=21;NUMALT=1;ODDS=12.8777;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39138;QR=109114;RO=3170;RPL=1118;RPP=2424.21;RPPR=6886.58;RPR=1;RUN=1;SAF=1119;SAP=2432.89;SAR=0;SRF=3170;SRP=6886.58;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:261:261,0:261:8877:0:0:0,-78.5688,-798.16 0/0:195:193,0:193:6693:0:0:0,-58.0988,-602.048 0/1:196:79,116:79:2777:116:4084:-308.687,0,-191.104 0/1:359:178,179:178:6108:179:6230:-452.869,0,-442.004 0/1:334:171,161:171:5863:161:5527:-397.262,0,-427.326 0/1:261:100,161:100:3392:161:5670:-431.789,0,-226.901 0/0:234:233,0:233:8110:0:0:0,-70.14,-729.582 0/1:200:89,110:89:3058:110:3897:-290.661,0,-215.189 0/1:373:198,173:198:6885:173:6072:-434.607,0,-507.74 0/1:12:6,6:6:207:6:216:-16.1782,0,-15.355 0/0:5:5,0:5:179:0:0:0,-1.50515,-16.4595 0/1:66:32,33:32:1130:33:1165:-85.2286,0,-82.0798 0/1:259:133,125:133:4646:125:4375:-315.96,0,-340.38 0/0:233:231,0:231:8004:0:0:0,-69.5379,-720.023 0/0:404:402,1:402:13751:1:36:0,-118.077,-1233.59 0/0:151:150,0:150:5253:0:0:0,-45.1545,-472.545 0/0:195:194,0:194:6798:0:0:0,-58.3998,-611.533 0/1:68:43,23:43:1467:23:796:-51.6926,0,-112.092 0/1:102:73,29:73:2525:29:1002:-59.7836,0,-196.787 0/0:304:298,2:298:9884:2:68:0,-84.1944,-882.708 0/0:102:101,0:101:3507:0:0:0,-30.404,-315.442 chr11 2521118 . A G 124888 PASS AB=0.488338;ABP=7.06203;AC=31;AF=0.738095;AN=42;AO=4764;CIGAR=1X;DP=6530;DPB=6530;DPRA=0;EPP=10347.9;EPPR=3831.32;GTI=0;LEN=1;MEANALT=1.09524;MQM=58.488;MQMR=59.755;NS=21;NUMALT=1;ODDS=11.7109;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=168923;QR=63024;RO=1763;RPL=3088;RPP=911.776;RPPR=574.221;RPR=1676;RUN=1;SAF=3088;SAP=911.776;SAR=1676;SRF=1222;SRP=574.221;SRR=541;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:485:0,485:0:0:485:17194:-1544.68,-146,0 1/1:266:1,265:1:36:265:9319:-834.697,-76.4757,0 0/1:283:158,125:158:5648:125:4471:-317.139,0,-423.244 0/1:478:245,232:245:8759:232:8216:-595.056,0,-643.771 0/1:583:308,275:308:10987:275:9795:-705.304,0,-812.824 0/1:320:195,125:195:6956:125:4428:-302.292,0,-529.666 1/1:336:1,333:1:36:333:11823:-1060.14,-97.3056,0 0/1:354:174,180:174:6232:180:6428:-471.906,0,-454.387 0/1:530:269,261:269:9655:261:9259:-673.504,0,-709.314 0/1:36:11,25:11:396:25:873:-67.9524,0,-25.1457 1/1:8:0,8:0:0:8:288:-26.2637,-2.40824,0 0/1:103:60,43:60:2148:43:1527:-106.698,0,-162.571 0/1:347:177,170:177:6325:170:6008:-436.265,0,-464.564 1/1:289:0,289:0:0:289:10203:-917.842,-86.9977,0 1/1:647:1,646:1:36:646:22931:-2057.3,-191.168,0 1/1:218:1,217:1:36:217:7727:-691.677,-62.0263,0 1/1:320:0,320:0:0:320:11375:-1022.14,-96.3296,0 0/1:212:97,115:97:3471:115:4083:-303.566,0,-248.399 0/1:184:60,124:60:2123:124:4423:-342.499,0,-135.949 1/1:376:3,373:3:108:373:13134:-1170.03,-103.112,0 1/1:155:2,153:2:72:153:5418:-480.61,-39.8229,0 chr11 2521124 . G A 118703 PASS AB=0.482666;ABP=11.7429;AC=31;AF=0.738095;AN=42;AO=4582;CIGAR=1X;DP=6320;DPB=6320;DPRA=0;EPP=9952.7;EPPR=3774.86;GTI=0;LEN=1;MEANALT=1.04762;MQM=58.4823;MQMR=59.7634;NS=21;NUMALT=1;ODDS=7.83142;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=160525;QR=61222;RO=1737;RPL=2889;RPP=680.904;RPPR=529.565;RPR=1693;RUN=1;SAF=2889;SAP=680.904;SAR=1693;SRF=1193;SRP=529.565;SRR=544;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:468:0,468:0:0:468:16437:-1477.46,-140.882,0 1/1:259:1,258:1:36:258:9016:-807.638,-74.3685,0 0/1:276:153,123:153:5449:123:4286:-302.61,0,-407.45 0/1:454:234,220:234:8280:220:7689:-555.04,0,-607.936 0/1:568:307,261:307:10691:261:9143:-651.194,0,-791.011 0/1:309:197,112:197:6930:112:3903:-258.416,0,-530.68 1/1:327:1,326:1:36:326:11415:-1023.48,-94.8385,0 0/1:359:180,179:180:6370:179:6326:-461.236,0,-465.288 0/1:520:268,252:268:9438:252:8845:-639.311,0,-692.793 0/1:37:11,26:11:396:26:932:-72.9646,0,-24.8446 1/1:8:0,8:0:0:8:275:-25.0782,-2.40824,0 0/1:99:56,42:56:1988:42:1475:-103.166,0,-149.33 0/1:335:171,164:171:6022:164:5683:-410.659,0,-440.981 1/1:279:0,279:0:0:279:9674:-870.278,-83.9874,0 1/1:618:1,617:1:27:617:21679:-1945.45,-183.337,0 1/1:218:1,217:1:36:217:7628:-682.786,-62.0263,0 1/1:320:0,320:0:0:320:11266:-1012.85,-96.3296,0 0/1:211:96,115:96:3415:115:4042:-300.145,0,-244.04 0/1:178:57,121:57:2013:121:4285:-331.893,0,-127.858 1/1:321:2,319:2:59:319:11056:-988.021,-91.0265,0 1/1:156:1,155:1:36:155:5470:-488.389,-43.3624,0 chr11 2521143 . C A 33263.7 PASS AB=0.522085;ABP=7.80595;AC=31;AF=0.738095;AN=42;AO=1655;CIGAR=1X;DP=2199;DPB=2199;DPRA=0;EPP=3596.8;EPPR=1166.98;GTI=0;LEN=1;MEANALT=1;MQM=56.4502;MQMR=59.5625;NS=21;NUMALT=1;ODDS=8.11692;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57670;QR=19480;RO=544;RPL=0;RPP=3596.8;RPPR=1158.38;RPR=1655;RUN=1;SAF=0;SAP=3596.8;SAR=1655;SRF=1;SRP=1175.62;SRR=543;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:230:0,230:0:0:230:8085:-726.692,-69.2369,0 1/1:79:0,79:0:0:79:2720:-244.828,-23.7814,0 0/1:81:34,47:34:1224:47:1652:-124.453,0,-86.0836 0/1:102:41,61:41:1468:61:2123:-160.422,0,-101.711 0/1:239:133,106:133:4737:106:3716:-262.326,0,-353.576 0/1:60:33,27:33:1188:27:956:-68.2734,0,-89.1586 1/1:103:2,101:2:72:101:3488:-307.239,-24.193,0 0/1:151:59,92:59:2120:92:3194:-242.12,0,-145.561 0/1:143:78,65:78:2800:65:2249:-159.508,0,-209.147 0/1:23:5,18:5:180:18:636:-50.5515,0,-9.62837 1/1:5:0,5:0:0:5:171:-15.7211,-1.50515,0 0/1:35:25,10:25:896:10:339:-20.2907,0,-70.4197 0/1:79:37,42:37:1328:42:1484:-109.992,0,-95.9546 1/1:67:0,67:0:0:67:2357:-212.056,-20.169,0 1/1:257:0,257:0:0:257:8913:-800.852,-77.3647,0 1/1:67:0,67:0:0:67:2367:-213.113,-20.169,0 1/1:130:0,130:0:0:130:4537:-407.268,-39.1339,0 0/1:142:69,73:69:2463:73:2527:-184.728,0,-179.165 0/1:77:27,50:27:968:50:1730:-132.51,0,-63.8869 1/1:71:0,71:0:0:71:2441:-219.569,-21.3731,0 1/1:58:1,57:1:36:57:1985:-175.185,-13.8615,0 chr11 2521158 . GGG AGG,AGA 48403.9 PASS AB=0.525554,0.474446;ABP=9.66899,9.66899;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1705,558;CIGAR=1X2M,1X1M1X;DP=2264;DPB=2264;DPRA=0,0.926209;EPP=3696.69,1214.69;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.57143,2;MQM=56.4405,59.5036;MQMR=60;NS=21;NUMALT=2;ODDS=6.19198;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60947,19712;QR=36;RO=1;RPL=1704,558;RPP=3696.69,1214.69;RPPR=5.18177;RPR=1,0;RUN=1,1;SAF=0,0;SAP=3705.37,1214.69;SAR=1705,558;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:229:0,229,0:0:0:229,0:8209,0:-737.516,-68.9359,0,-737.516,-68.9359,-737.516 1/1:81:0,81,0:0:0:81,0:2891,0:-260.212,-24.3834,0,-260.212,-24.3834,-260.212 1/2:84:0,49,35:0:0:49,35:1764,1249:-245.916,-102.178,-87.4278,-144.095,0,-133.559 1/2:106:0,64,42:0:0:64,42:2275,1484:-306.318,-121.21,-101.944,-185.462,0,-172.819 1/2:248:0,111,137:0:0:111,137:3970,4816:-714.68,-391.448,-358.033,-323.586,0,-282.345 1/2:61:0,28,33:0:0:28,33:1008,1170:-177.892,-95.6648,-87.236,-82.5844,0,-72.6504 1/1:109:0,109,0:0:0:109,0:3916,0:-352.37,-32.8123,0,-352.37,-32.8123,-352.37 1/2:157:0,96,61:0:0:96,61:3444,2165:-457.492,-176.711,-147.812,-281.138,0,-262.775 1/2:145:0,66,79:0:0:66,79:2351,2798:-419.712,-228.277,-208.409,-191.79,0,-168.009 1/2:25:0,20,5:0:0:20,5:716,178:-73.1592,-14.8635,-8.8429,-58.6518,0,-57.1467 1/1:5:0,5,0:0:0:5,0:180,0:-16.5477,-1.50515,0,-16.5477,-1.50515,-16.5477 1/2:35:0,9,26:0:0:9,26:324,904:-100.267,-73.8404,-71.1311,-26.7832,0,-18.9564 1/2:82:0,44,38:0:0:44,38:1563,1357:-238.045,-110.776,-97.5305,-127.624,0,-116.185 1/1:67:0,67,0:0:0:67,0:2395,0:-215.49,-20.169,0,-215.49,-20.169,-215.49 1/1:260:0,260,0:0:0:260,0:9281,0:-834.076,-78.2678,0,-834.076,-78.2678,-834.076 1/1:72:0,72,0:0:0:72,0:2567,0:-231.097,-21.6742,0,-231.097,-21.6742,-231.097 1/1:131:0,131,0:0:0:131,0:4647,0:-417.819,-39.4349,0,-417.819,-39.4349,-417.819 1/2:150:0,78,72:0:0:78,72:2777,2557:-434.478,-208.685,-185.204,-226.149,0,-204.474 1/2:81:0,52,29:0:0:52,29:1872,1006:-234.156,-81.7479,-66.0943,-152.759,0,-144.029 1/1:77:1,75,1:1:36:75,1:2674,28:-236.836,-19.5999,0,-234.919,-20.3985,-237.556 1/1:59:0,59,0:0:0:59,0:2123,0:-191.177,-17.7608,0,-191.177,-17.7608,-191.177 chr11 2521171 . T C 8864.35 PASS AB=0.466094;ABP=14.6431;AC=11;AF=0.261905;AN=42;AO=544;CIGAR=1X;DP=2276;DPB=2276;DPRA=0.90087;EPP=1184.29;EPPR=3764;GTI=0;LEN=1;MEANALT=1;MQM=59.5184;MQMR=56.4076;NS=21;NUMALT=1;ODDS=4.57917;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19430;QR=62123;RO=1732;RPL=544;RPP=1184.29;RPPR=3764;RPR=0;RUN=1;SAF=0;SAP=1184.29;SAR=544;SRF=0;SRP=3764;SRR=1732;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:238:238,0:238:8556:0:0:0,-71.6451,-768.441 0/0:82:82,0:82:2948:0:0:0,-24.6845,-265.258 0/1:83:48,35:48:1728:35:1256:-88.3598,0,-130.624 0/1:106:64,42:64:2300:42:1496:-103.025,0,-175.06 0/1:246:112,134:112:4016:134:4764:-354.666,0,-287 0/1:61:28,33:28:1008:33:1188:-88.8576,0,-72.6504 0/0:113:113,0:113:4064:0:0:0,-34.0164,-365.68 0/1:156:97,59:97:3480:59:2108:-142.988,0,-266.314 0/1:145:68,77:68:2444:77:2750:-204.088,0,-176.336 0/1:25:20,5:20:720:5:180:-9.02631,0,-57.5068 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5477 0/1:36:10,26:10:360:26:921:-72.3616,0,-21.8923 0/1:80:43,37:43:1536:37:1328:-95.5238,0,-114.36 0/0:69:69,0:69:2472:0:0:0,-20.7711,-222.36 0/0:263:263,0:263:9417:0:0:0,-79.1709,-845.93 0/0:70:70,0:70:2493:0:0:0,-21.0721,-224.441 0/0:135:135,0:135:4825:0:0:0,-40.639,-432.712 0/1:150:81,69:81:2896:69:2476:-177.926,0,-214.489 0/1:77:51,26:51:1832:26:927:-60.1969,0,-141.638 0/0:77:76,1:76:2728:1:36:0,-19.581,-241.549 0/0:59:59,0:59:2120:0:0:0,-17.7608,-190.894 chr11 2524149 . TAAATAAG TATAAG 5401.01 PASS AB=0.273347;ABP=853.48;AC=11;AF=0.261905;AN=42;AO=527;CIGAR=1M2D5M;DP=3897;DPB=3764.5;DPRA=1.20175;EPP=1147.38;EPPR=7292.64;GTI=2;LEN=2;MEANALT=1.85714;MQM=59.9564;MQMR=60;NS=21;NUMALT=1;ODDS=1.70746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18572;QR=117742;RO=3357;RPL=524;RPP=1121.47;RPPR=246.076;RPR=3;RUN=1;SAF=524;SAP=1121.47;SAR=3;SRF=1372;SRP=246.076;SRR=1985;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:280:279,0:279:9808:0:0:0,-83.9874,-882.335 0/0:193:193,0:193:6782:0:0:0,-58.0988,-610.47 0/1:153:105,48:105:3681:48:1693:-106.597,0,-285.443 0/1:217:170,46:170:5911:46:1632:-81.7866,0,-466.742 0/1:204:171,32:171:5946:32:1127:-40.2571,0,-473.802 0/1:201:138,62:138:4829:62:2196:-137.34,0,-374.214 0/0:260:260,0:260:9092:0:0:0,-78.2678,-818.291 0/1:131:88,42:88:3092:42:1496:-95.4409,0,-239.018 0/1:361:260,100:260:9137:100:3517:-208.013,0,-713.601 0/1:41:14,27:14:491:27:941:-72.6595,0,-32.1796 0/0:21:21,0:21:729:0:0:0,-6.32163,-65.9303 0/1:48:33,15:33:1161:15:513:-32.0434,0,-90.3483 0/1:240:169,69:169:5940:69:2420:-146.128,0,-462.798 0/0:304:301,1:301:10524:1:36:0,-87.6726,-943.517 0/0:354:350,2:350:12262:2:72:0,-99.4407,-1096.67 0/0:160:160,0:160:5630:0:0:0,-48.1648,-506.835 0/0:101:101,0:101:3584:0:0:0,-30.404,-322.772 0/1:163:105,57:105:3697:57:1997:-130.876,0,-283.811 0/1:147:124,23:124:4371:23:828:-30.5927,0,-349.321 0/0:188:185,3:185:6489:3:104:0,-46.8908,-574.412 0/0:130:130,0:130:4586:0:0:0,-39.1339,-412.913 chr11 2581909 . T C 10947.3 PASS AB=0.421098;ABP=66.0612;AC=12;AF=0.285714;AN=42;AO=657;CIGAR=1X;DP=2678;DPB=2678;DPRA=1.06061;EPP=1429.67;EPPR=4389.38;GTI=2;LEN=1;MEANALT=1;MQM=59.761;MQMR=59.449;NS=21;NUMALT=1;ODDS=5.0129;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23231;QR=71668;RO=2020;RPL=2;RPP=1412.35;RPPR=4132.68;RPR=655;RUN=1;SAF=2;SAP=1412.35;SAR=655;SRF=30;SRP=4132.68;SRR=1990;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:254:254,0:254:9015:0:0:0,-76.4616,-810.76 0/0:114:113,1:113:4031:1:36:0,-30.7191,-359.336 0/1:71:54,17:54:1928:17:603:-33.0835,0,-152.382 0/1:61:46,15:46:1631:15:532:-29.8503,0,-128.634 0/1:240:157,83:157:5575:83:2947:-193.214,0,-429.497 0/1:99:44,55:44:1580:55:1951:-146.058,0,-112.637 0/0:259:258,1:258:9142:1:36:0,-74.5123,-818.479 0/1:118:101,17:101:3601:17:608:-19.5303,0,-288.666 0/1:120:96,24:96:3403:24:860:-41.5982,0,-270.351 0/1:137:13,124:13:468:124:4371:-352.312,0,-1.21853 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7149 1/1:177:14,163:14:504:163:5783:-474.883,-7.58422,0 0/1:63:46,17:46:1640:17:599:-35.2732,0,-128.924 0/0:117:116,0:116:4086:0:0:0,-34.9195,-367.7 0/0:233:233,0:233:8254:0:0:0,-70.14,-742.047 0/0:81:81,0:81:2867:0:0:0,-24.3834,-258.248 0/0:98:98,0:98:3477:0:0:0,-29.5009,-312.413 0/1:184:60,124:60:2127:124:4333:-334.75,0,-136.298 0/1:73:58,15:58:2015:15:536:-26.5637,0,-159.323 0/0:104:103,1:103:3671:1:36:0,-27.7088,-326.846 0/0:65:65,0:65:2293:0:0:0,-19.5669,-206.486 chr11 2581960 . T C 30167.4 PASS AB=0.555241;ABP=31.0795;AC=28;AF=0.666667;AN=42;AO=1467;CIGAR=1X;DP=2142;DPB=2142;DPRA=6.25;EPP=3188.56;EPPR=1468.75;GTI=2;LEN=1;MEANALT=1;MQM=59.4397;MQMR=59.7867;NS=21;NUMALT=1;ODDS=1.07445;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52354;QR=24077;RO=675;RPL=1467;RPP=3188.56;RPPR=1468.75;RPR=0;RUN=1;SAF=0;SAP=3188.56;SAR=1467;SRF=0;SRP=1468.75;SRR=675;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:153:0,153:0:0:153:5468:-492.015,-46.0576,0 1/1:31:0,31:0:0:31:1097:-99.038,-9.33193,0 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.2706 0/0:16:15,1:15:525:1:32:0,-1.61865,-44.3802 0/1:240:85,155:85:3014:155:5507:-423.352,0,-199.24 0/1:100:56,44:56:2012:44:1576:-111.986,0,-151.245 1/1:107:0,107:0:0:107:3840:-345.732,-32.2102,0 0/1:125:20,105:20:712:105:3715:-296.689,0,-26.7775 0/1:120:24,96:24:856:96:3425:-272.331,0,-41.2375 0/1:142:128,14:128:4589:14:504:-2.95183,0,-370.331 1/1:10:0,10:0:0:10:356:-32.3518,-3.0103,0 0/0:186:171,15:171:6084:15:532:0,-7.77849,-499.431 0/1:69:17,52:17:608:52:1868:-147.535,0,-34.281 1/1:124:0,124:0:0:124:4418:-397.707,-37.3277,0 1/1:120:0,120:0:0:120:4270:-384.371,-36.1236,0 1/1:48:0,48:0:0:48:1690:-152.369,-14.4494,0 1/1:99:0,99:0:0:99:3552:-319.75,-29.802,0 0/1:187:125,62:125:4457:62:2224:-144.121,0,-344.996 0/1:76:16,60:16:572:60:2156:-171.106,0,-28.8992 1/1:107:1,106:1:36:106:3800:-338.445,-28.6119,0 1/1:65:0,65:0:0:65:2324:-209.085,-19.567,0 chr11 2607665 . T G,C 31000.8 PASS AB=0.496865,0.503135;ABP=3.06476,3.06476;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1111,328;CIGAR=1X,1X;DP=1440;DPB=1440;DPRA=0,0.851758;EPP=2415.52,715.253;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.66667,2;MQM=59.9127,59.9695;MQMR=0;NS=21;NUMALT=2;ODDS=15.2307;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39692,11694;QR=0;RO=0;RPL=0,0;RPP=2415.52,715.253;RPPR=0;RPR=1111,328;RUN=1,1;SAF=1111,328;SAP=2415.52,715.253;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:0,138,0:0:0:138,0:4923,0:-442.861,-41.5421,0,-442.861,-41.5421,-442.861 1/1:52:0,52,0:0:0:52,0:1868,0:-168.377,-15.6536,0,-168.377,-15.6536,-168.377 1/2:52:0,32,20:0:0:32,20:1144,712:-151.666,-58.3861,-48.7531,-93.6366,0,-87.616 1/2:27:0,12,15:0:0:12,15:424,527:-77.7765,-43.2447,-39.6324,-34.8841,0,-30.3686 1/2:115:0,65,50:0:0:65,50:2336,1784:-336.361,-145.791,-126.224,-190.928,0,-175.876 1/2:49:0,22,27:0:0:22,27:792,964:-143.574,-78.949,-72.3264,-64.983,0,-56.8552 1/1:94:0,94,0:0:0:94,0:3359,0:-302.521,-28.2968,0,-302.521,-28.2968,-302.521 1/2:61:0,37,24:0:0:37,24:1324,860:-178.463,-70.4971,-59.359,-108.324,0,-101.099 1/2:113:0,41,72:0:0:41,72:1472,2576:-330.491,-210.415,-198.073,-120.434,0,-98.7597 1/2:15:0,5,10:0:0:5,10:180,360:-44.4211,-29.734,-28.2289,-15.0469,0,-12.0366 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/2:35:0,19,16:0:0:19,16:672,568:-101.368,-46.6354,-40.9158,-55.0873,0,-50.2708 1/2:49:0,19,30:0:0:19,30:676,1072:-142.853,-87.7616,-82.042,-55.448,0,-46.4171 1/1:48:0,48,0:0:0:48,0:1708,0:-154.006,-14.4494,0,-154.006,-14.4494,-154.006 1/1:148:0,148,0:0:0:148,0:5301,0:-477.215,-44.5524,0,-477.215,-44.5524,-477.215 1/1:71:0,71,0:0:0:71,0:2526,0:-227.362,-21.3731,0,-227.362,-21.3731,-227.362 1/1:125:0,121,4:0:0:121,4:4312,140:-387.909,-36.4246,0,-376.518,-24.6842,-375.314 1/2:60:0,30,30:0:0:30,30:1072,1076:-175.526,-88.122,-79.0911,-87.7616,0,-78.7307 1/2:62:0,35,27:0:0:35,27:1251,947:-179.418,-77.4142,-66.8781,-102.358,0,-94.2298 1/1:73:0,70,3:0:0:70,3:2508,108:-225.608,-21.0721,0,-216.796,-11.9,-215.892 1/1:46:0,46,0:0:0:46,0:1632,0:-147.169,-13.8474,0,-147.169,-13.8474,-147.169 chr11 2607678 . 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C G 20428.5 PASS AB=0.557143;ABP=22.8638;AC=31;AF=0.738095;AN=42;AO=975;CIGAR=1X;DP=1286;DPB=1286;DPRA=0;EPP=2094.22;EPPR=671.824;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.999;MQMR=59.9773;NS=21;NUMALT=1;ODDS=10.3558;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34795;QR=11031;RO=308;RPL=3;RPP=2094.22;RPPR=671.824;RPR=972;RUN=1;SAF=975;SAP=2120.2;SAR=0;SRF=308;SRP=671.824;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:0,73:0:0:73:2605:-234.697,-21.9752,0 1/1:37:0,37:0:0:37:1328:-119.822,-11.1381,0 0/1:106:51,55:51:1836:55:1961:-144.854,0,-133.611 0/1:43:21,21:21:752:21:756:-55.3641,0,-55.0033 0/1:122:45,76:45:1620:76:2732:-209.338,0,-109.299 0/1:40:24,16:24:836:16:576:-40.1338,0,-63.5135 1/1:85:0,85:0:0:85:3021:-272.119,-25.5876,0 0/1:43:23,20:23:828:20:716:-51.8234,0,-61.8998 0/1:86:40,46:40:1436:46:1637:-121.728,0,-103.649 0/1:19:5,14:5:180:14:504:-39.9785,0,-10.8325 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:28:10,18:10:351:18:635:-49.0481,0,-23.4978 0/1:133:47,86:47:1688:86:3083:-237.66,0,-112.17 1/1:84:0,83:0:0:83:2956:-265.915,-24.9855,0 1/1:97:0,97:0:0:97:3469:-312.42,-29.1999,0 1/1:36:0,36:0:0:36:1281:-115.591,-10.8371,0 1/1:62:0,62:0:0:62:2208:-198.983,-18.6639,0 0/1:60:33,27:33:1180:27:964:-69.015,0,-88.4462 0/1:20:9,11:9:324:11:377:-28.2373,0,-23.4853 1/1:92:0,92:0:0:92:3281:-295.51,-27.6948,0 1/1:16:0,16:0:0:16:561:-50.8171,-4.81648,0 chr11 2941370 . AGGC GGGC,GGAT 38210.8 PASS AB=0.511785,0.482604;ABP=4.08507,5.35237;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1276,432;CIGAR=1X3M,1X1M2X;DP=1719;DPB=1719;DPRA=0,1.17757;EPP=2324.62,767.55;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=1.95238,2.30769;MQM=59.9906,59.6713;MQMR=60;NS=21;NUMALT=2;ODDS=13.2362;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44982,14970;QR=101;RO=3;RPL=54,21;RPP=2324.62,767.55;RPPR=9.52472;RPR=1222,411;RUN=1,1;SAF=0,0;SAP=2773.81,941.086;SAR=1276,432;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:132:0,131,1:0:0:131,1:4648,36:-418.121,-39.4349,0,-415.183,-36.1377,-414.882 1/1:62:0,62,0:0:0:62,0:2193,0:-197.634,-18.6639,0,-197.634,-18.6639,-197.634 1/2:113:0,57,56:0:0:57,56:2013,1967:-324.375,-160.444,-143.286,-164.283,0,-147.425 1/2:84:1,43,40:1:35:43,40:1525,1395:-234.552,-110.608,-100.511,-121.399,0,-112.206 1/2:216:0,112,102:0:0:112,102:3988,3517:-610.651,-285.604,-251.888,-325.091,0,-294.386 1/2:59:0,26,32:0:0:26,32:889,1090:-160.595,-88.4449,-80.6181,-72.1891,0,-62.5561 1/1:97:2,92,0:2:66:92,0:3206,0:-282.509,-22.3471,0,-283.111,-27.6948,-288.447 1/2:58:0,29,29:0:0:29,29:1004,1020:-164.966,-83.3774,-74.6476,-81.9378,0,-73.2079 1/2:156:0,82,74:0:0:82,74:2905,2562:-445.201,-208.55,-183.865,-237.001,0,-214.725 1/2:14:0,6,8:0:0:6,8:216,285:-41.2124,-23.5863,-21.7801,-17.9843,0,-15.5761 1/1:9:0,9,0:0:0:9,0:305,0:-27.7772,-2.70927,0,-27.7772,-2.70927,-27.7772 1/2:22:0,14,8:0:0:14,8:495,285:-63.8998,-23.5863,-19.3719,-40.6686,0,-38.2604 1/1:106:0,105,1:0:0:105,1:3702,36:-333.021,-31.6082,0,-330.084,-28.3109,-329.783 1/2:73:0,39,33:0:0:39,33:1388,1145:-206.184,-93.0562,-81.316,-113.119,0,-103.185 1/1:113:0,113,0:0:0:113,0:3991,0:-359.379,-34.0164,0,-359.379,-34.0164,-359.379 1/1:73:0,73,0:0:0:73,0:2557,0:-230.381,-21.9752,0,-230.381,-21.9752,-230.381 1/1:88:0,88,0:0:0:88,0:3055,0:-275.178,-26.4906,0,-275.178,-26.4906,-275.178 1/2:48:0,21,27:0:0:21,27:743,920:-135.506,-74.9825,-68.6609,-60.8717,0,-52.7439 1/2:48:0,27,21:0:0:27,21:951,712:-135.504,-58.0725,-49.9447,-77.7765,0,-71.4549 1/1:86:0,85,0:0:0:85,0:3014,0:-271.132,-25.5876,0,-271.132,-25.5876,-271.132 1/1:62:0,62,0:0:0:62,0:2194,0:-197.725,-18.6639,0,-197.725,-18.6639,-197.725 chr11 2962141 . A G 47547.1 PASS AB=0.536377;ABP=19.1244;AC=31;AF=0.738095;AN=42;AO=2258;CIGAR=1X;DP=2917;DPB=2917;DPRA=0;EPP=4897.51;EPPR=1427.5;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9969;MQMR=60;NS=21;NUMALT=1;ODDS=1.49657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80477;QR=23487;RO=656;RPL=1;RPP=4897.51;RPPR=1427.5;RPR=2257;RUN=1;SAF=2258;SAP=4906.2;SAR=0;SRF=656;SRP=1427.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:218:0,218:0:0:218:7753:-697.801,-65.6245,0 1/1:173:0,173:0:0:173:6155:-554.048,-52.0782,0 0/1:111:68,43:68:2440:43:1533:-104.847,0,-186.441 0/1:161:81,80:81:2908:80:2838:-207.19,0,-213.489 0/1:246:103,143:103:3688:143:5083:-383.56,0,-258.069 0/1:127:58,69:58:2076:69:2452:-182.702,0,-148.88 1/1:215:1,213:1:36:213:7641:-684.124,-61.182,0 0/1:196:89,107:89:3185:107:3848:-287.512,0,-227.87 0/1:242:120,122:120:4293:122:4293:-313.696,0,-313.696 0/1:17:4,13:4:144:13:468:-37.3421,0,-8.19611 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:40:16,24:16:576:24:864:-66.0414,0,-40.1338 1/1:191:0,191:0:0:191:6817:-613.599,-57.4967,0 0/1:125:54,71:54:1925:71:2533:-190.592,0,-135.896 1/1:177:0,176:0:0:176:6229:-560.346,-52.9813,0 1/1:172:0,172:0:0:172:6161:-554.586,-51.7772,0 1/1:166:0,165:0:0:165:5867:-527.78,-49.67,0 0/1:70:30,40:30:1076:40:1436:-108.466,0,-76.0808 0/1:67:27,40:27:968:40:1425:-108.376,0,-67.2684 1/1:128:5,123:5:172:123:4397:-380.083,-22.7139,0 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 chr11 2962177 . 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T A 34493.8 PASS AB=0.509132;ABP=3.96218;AC=31;AF=0.738095;AN=42;AO=1680;CIGAR=1X;DP=2335;DPB=2335;DPRA=0;EPP=3642.4;EPPR=1418.81;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9893;MQMR=60;NS=21;NUMALT=1;ODDS=7.94987;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59919;QR=23372;RO=652;RPL=1;RPP=3642.4;RPPR=1418.81;RPR=1679;RUN=1;SAF=1680;SAP=3651.08;SAR=0;SRF=652;SRP=1418.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2940:-264.834,-24.6845,0 1/1:53:0,52:0:0:52:1856:-166.96,-15.6536,0 0/1:151:76,75:76:2724:75:2677:-195.718,0,-199.948 0/1:139:72,67:72:2588:67:2378:-172.432,0,-191.325 0/1:313:144,169:144:5152:169:6034:-448.94,0,-369.599 0/1:124:80,44:80:2880:44:1579:-105.074,0,-222.108 1/1:166:0,166:0:0:166:5921:-533,-49.971,0 0/1:75:48,27:48:1708:27:964:-64.4996,0,-131.429 0/1:132:61,71:61:2192:71:2534:-188.574,0,-157.809 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:43:14,29:14:496:29:1017:-78.8955,0,-32.03 1/1:168:0,168:0:0:168:5956:-536.146,-50.573,0 0/1:149:67,82:67:2404:82:2932:-219.261,0,-171.763 1/1:219:0,219:0:0:219:7794:-701.456,-65.9256,0 1/1:49:0,49:0:0:49:1756:-158.324,-14.7505,0 1/1:68:1,67:1:36:67:2393:-212.027,-16.8718,0 0/1:81:41,39:41:1468:39:1389:-100.865,0,-107.974 0/1:97:33,63:33:1184:63:2260:-174.404,0,-77.6096 1/1:149:5,144:5:180:144:5137:-445.918,-28.3014,0 1/1:58:3,55:3:108:55:1970:-167.5,-7.38457,0 chr11 3178508 . C T 10735.3 PASS AB=0.364444;ABP=290.301;AC=11;AF=0.261905;AN=42;AO=661;CIGAR=1X;DP=4209;DPB=4209;DPRA=0.720435;EPP=1438.35;EPPR=7703.05;GTI=0;LEN=1;MEANALT=1.07692;MQM=58.6687;MQMR=49.1368;NS=21;NUMALT=1;ODDS=14.9569;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23621;QR=125301;RO=3546;RPL=598;RPP=943.297;RPPR=75.476;RPR=63;RUN=1;SAF=598;SAP=943.297;SAR=63;SRF=1945;SRP=75.476;SRR=1601;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:294:294,0:294:10444:0:0:0,-88.5028,-924.004 0/0:267:266,1:266:9452:1:36:0,-76.7767,-786.811 0/1:131:74,57:74:2632:57:2043:-144.704,0,-190.952 0/1:182:128,54:128:4521:54:1936:-119.729,0,-336.141 0/1:333:246,87:246:8717:87:3117:-180.512,0,-654.287 0/1:139:89,50:89:3121:50:1775:-118.189,0,-217.094 0/0:325:324,0:324:11358:0:0:0,-97.5337,-968.449 0/1:147:89,58:89:3137:58:2076:-140.65,0,-231.323 0/1:415:204,211:204:7175:211:7538:-551.058,0,-511.153 0/1:33:17,16:17:589:16:576:-42.241,0,-41.3111 0/0:19:19,0:19:667:0:0:0,-5.71957,-58.5482 0/1:48:29,19:29:1007:19:680:-47.0797,0,-74.4204 0/0:283:283,0:283:10001:0:0:0,-85.1915,-861.661 0/1:166:109,56:109:3729:56:2000:-130.243,0,-277.191 0/0:354:354,0:354:12549:0:0:0,-106.565,-1088.4 0/0:296:296,0:296:10495:0:0:0,-89.1049,-919.865 0/0:263:263,0:263:9372:0:0:0,-79.1709,-817.382 0/1:80:59,21:59:2070:21:736:-42.4781,0,-152.154 0/1:126:99,27:99:3473:27:964:-49.147,0,-262.806 0/0:203:199,4:199:7092:4:144:0,-47.7955,-587.747 0/0:105:105,0:105:3700:0:0:0,-31.6081,-309.874 chr11 3178513 . C T 26882.8 PASS AB=0.502779;ABP=3.1672;AC=11;AF=0.261905;AN=42;AO=1185;CIGAR=1X;DP=4816;DPB=4816;DPRA=0.916239;EPP=2576.21;EPPR=7883.28;GTI=0;LEN=1;MEANALT=1.07692;MQM=53.8861;MQMR=49.2508;NS=21;NUMALT=1;ODDS=33.7979;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42380;QR=129319;RO=3629;RPL=599;RPP=3.31999;RPPR=96.3704;RPR=586;RUN=1;SAF=599;SAP=3.31999;SAR=586;SRF=2012;SRP=96.3704;SRR=1617;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:307:307,0:307:10959:0:0:0,-92.4162,-968.387 0/0:272:271,0:271:9583:0:0:0,-81.5791,-800.869 0/1:173:74,99:74:2625:99:3556:-266.901,0,-177.519 0/1:269:132,137:132:4705:137:4906:-358.372,0,-326.571 0/1:492:250,242:250:8926:242:8648:-626.374,0,-622.631 0/1:193:90,103:90:3216:103:3691:-273.093,0,-208.315 0/0:329:328,1:328:11654:1:36:0,-95.4601,-990.68 0/1:195:97,98:97:3471:98:3501:-254.899,0,-244.316 0/1:417:206,211:206:7325:211:7540:-551.438,0,-522.66 0/1:43:17,26:17:608:26:936:-70.6708,0,-39.7158 0/0:21:21,0:21:741:0:0:0,-6.32163,-64.8644 0/1:59:28,31:28:1008:31:1099:-81.1835,0,-71.3666 0/0:290:290,0:290:10341:0:0:0,-87.2987,-888.81 0/1:228:107,120:107:3780:120:4283:-314.812,0,-262.876 0/0:363:363,0:363:12907:0:0:0,-109.274,-1120.94 0/0:302:302,0:302:10822:0:0:0,-90.9111,-946.914 0/0:272:272,0:272:9710:0:0:0,-81.8802,-845.297 0/1:126:62,64:62:2193:64:2284:-166.841,0,-148.096 0/1:144:99,45:99:3539:45:1612:-101.632,0,-262.872 0/0:213:205,8:205:7347:8:288:0,-37.9426,-597.561 0/0:108:108,0:108:3859:0:0:0,-32.5112,-324.037 chr11 3178531 . A C 30059.2 PASS AB=0.460405;ABP=17.7987;AC=31;AF=0.738095;AN=42;AO=1621;CIGAR=1X;DP=2212;DPB=2212;DPRA=0;EPP=3376.86;EPPR=1284.18;GTI=0;LEN=1;MEANALT=1.04762;MQM=35.9784;MQMR=47.7254;NS=21;NUMALT=1;ODDS=7.5962;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57691;QR=21036;RO=590;RPL=19;RPP=3359.87;RPPR=1266.87;RPR=1602;RUN=1;SAF=2;SAP=3505.62;SAR=1619;SRF=2;SRP=1266.87;SRR=588;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71:0:0:71:2520:-210.455,-21.3731,0 1/1:151:0,151:0:0:151:5363:-422.016,-45.4555,0 0/1:69:41,28:41:1476:28:973:-60.704,0,-111.098 0/1:154:85,69:85:3009:69:2460:-158.995,0,-221.948 0/1:281:154,127:154:5483:127:4524:-291.965,0,-405.073 0/1:101:53,48:53:1887:48:1724:-102.23,0,-138.766 1/1:121:1,120:1:36:120:4270:-326.913,-32.8459,0 0/1:71:43,27:43:1535:27:964:-55.9145,0,-115.739 0/1:117:61,56:61:2192:56:1991:-134.938,0,-160.122 0/1:20:11,9:11:396:9:316:-20.1925,0,-29.0123 1/1:4:0,4:0:0:4:144:-11.5575,-1.20412,0 0/1:19:12,7:12:413:7:252:-15.0558,0,-31.5425 1/1:171:0,171:0:0:171:6077:-505.661,-51.4761,0 0/1:101:62,39:62:2209:39:1400:-86.2588,0,-166.824 1/1:174:0,174:0:0:174:6190:-517.817,-52.3792,0 1/1:136:0,136:0:0:136:4853:-411.48,-40.9401,0 1/1:128:0,128:0:0:128:4575:-383.197,-38.5318,0 0/1:84:45,39:45:1608:39:1378:-88.0888,0,-118.691 0/1:69:18,51:18:648:51:1802:-130.662,0,-37.4759 1/1:113:4,109:4:144:109:3894:-300.837,-20.7947,0 1/1:57:0,57:0:0:57:2021:-159.275,-17.1587,0 chr11 3178552 . CTTTATGCTCCT TTTT,TTTTATACTCCT 42780.9 PASS AB=0.466055,0.53211;ABP=13.9195,12.772;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1636,585;CIGAR=1X2M8D1M,1X5M1X5M;DP=2223;DPB=1132.42;DPRA=0,0.91653;EPP=3555.54,1273.32;EPPR=0;GTI=0;LEN=4,12;MEANALT=1.71429,2.15385;MQM=35.6901,47.6786;MQMR=0;NS=21;NUMALT=2;ODDS=9.21625;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=0,0;PQR=0;PRO=0;QA=58305,20890;QR=0;RO=0;RPL=1636,585;RPP=3555.54,1273.32;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3555.54,1273.32;SAR=1636,585;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69,0:0:0:69,0:2455,0:-205.16,-20.7711,0,-205.16,-20.7711,-205.16 1/1:150:0,150,0:0:0:150,0:5312,0:-417.072,-45.1545,0,-417.072,-45.1545,-417.072 1/2:69:0,29,40:0:0:29,40:1040,1438:-193.23,-116.532,-107.802,-77.0373,0,-64.9961 1/2:157:0,71,85:0:0:71,85:2543,3002:-432.908,-242.532,-221.159,-190.357,0,-164.77 1/2:290:0,134,156:0:0:134,156:4778,5561:-806.682,-449.941,-409.603,-357.081,0,-310.121 1/2:100:0,49,50:0:0:49,50:1743,1792:-264.611,-145.282,-130.531,-119.3,0,-104.249 1/1:124:0,123,1:0:0:123,1:4382,36:-338.633,-37.0267,0,-335.713,-33.749,-335.412 1/2:69:0,26,43:0:0:26,43:926,1546:-190.779,-124.896,-117.069,-66.2129,0,-53.2686 1/2:116:0,57,59:0:0:57,59:2021,2120:-325.928,-171.651,-154.492,-154.622,0,-136.862 1/2:20:0,9,11:0:0:9,11:310,392:-54.3786,-31.5605,-28.8512,-23.1485,0,-19.8372 1/1:5:0,5,0:0:0:5,0:180,0:-14.3687,-1.50515,0,-14.3687,-1.50515,-14.3687 1/2:19:0,7,12:0:0:7,12:250,428:-53.2288,-34.9866,-32.8794,-18.5768,0,-14.9644 1/1:173:0,173,0:0:0:173,0:6159,0:-511.852,-52.0782,0,-511.852,-52.0782,-511.852 1/2:101:0,39,62:0:0:39,62:1386,2212:-282.845,-178.83,-167.089,-104.354,0,-85.6905 1/1:173:0,173,0:0:0:173,0:6191,0:-516.378,-52.0782,0,-516.378,-52.0782,-516.378 1/1:139:0,139,0:0:0:139,0:4976,0:-420.915,-41.8432,0,-420.915,-41.8432,-420.915 1/1:130:0,130,0:0:0:130,0:4651,0:-388.216,-39.1339,0,-388.216,-39.1339,-388.216 1/2:82:0,38,44:0:0:38,44:1364,1571:-226.868,-127.482,-116.043,-99.7236,0,-86.4783 1/2:67:0,49,18:0:0:49,18:1738,648:-182.562,-52.8284,-38.078,-130.083,0,-124.665 1/1:116:0,112,4:0:0:112,4:3971,144:-321.068,-33.7154,0,-309.407,-21.6978,-308.203 1/1:54:0,54,0:0:0:54,0:1929,0:-150.462,-16.2556,0,-150.462,-16.2556,-150.462 chr11 3187292 . C T 12471.3 PASS AB=0.546012;ABP=26.9897;AC=11;AF=0.261905;AN=42;AO=715;CIGAR=1X;DP=2210;DPB=2210;DPRA=1.43281;EPP=1512.49;EPPR=3188.85;GTI=1;LEN=1;MEANALT=1;MQM=59.8727;MQMR=60;NS=21;NUMALT=1;ODDS=3.42688;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25467;QR=53150;RO=1495;RPL=5;RPP=1512.49;RPPR=3188.85;RPR=710;RUN=1;SAF=715;SAP=1555.61;SAR=0;SRF=1495;SRP=3249.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:58,0:58:2072:0:0:0,-17.4597,-186.751 0/0:90:90,0:90:3189:0:0:0,-27.0927,-287.234 0/1:88:31,57:31:1108:57:2044:-157.741,0,-73.5404 0/1:206:85,121:85:3036:121:4317:-326.69,0,-211.458 0/1:250:111,139:111:3943:139:4970:-372.161,0,-279.807 0/1:100:45,55:45:1612:55:1976:-148.012,0,-115.267 0/0:164:164,0:164:5821:0:0:0,-49.3689,-524.007 0/1:83:45,38:45:1608:38:1364:-98.0752,0,-120.025 0/1:154:61,93:61:2180:93:3282:-248.752,0,-150.108 0/1:6:2,4:2:68:4:144:-11.5074,0,-4.65153 0/0:10:10,0:10:347:0:0:0,-3.0103,-31.5636 0/1:29:13,16:13:464:16:567:-42.6309,0,-33.3676 0/0:142:142,0:142:5051:0:0:0,-42.7463,-454.739 0/1:96:45,51:45:1603:51:1799:-133.289,0,-115.661 0/0:146:145,1:145:5183:1:36:0,-40.3521,-463.012 0/0:57:57,0:57:2020:0:0:0,-17.1587,-182.073 0/0:65:65,0:65:2293:0:0:0,-19.5669,-206.63 0/1:216:111,105:111:3946:105:3724:-269.715,0,-290.311 0/1:76:43,33:43:1522:33:1176:-83.2695,0,-114.393 0/0:96:94,2:94:3326:2:68:0,-22.4412,-293.102 0/0:78:78,0:78:2758:0:0:0,-23.4803,-248.463 chr11 3187343 . C T 7115.61 PASS AB=0.574661;ABP=35.1108;AC=11;AF=0.261905;AN=42;AO=384;CIGAR=1X;DP=1121;DPB=1121;DPRA=1.43945;EPP=711.657;EPPR=1345.45;GTI=1;LEN=1;MEANALT=1;MQM=59.9036;MQMR=59.9607;NS=21;NUMALT=1;ODDS=3.63969;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13702;QR=26232;RO=737;RPL=369;RPP=711.657;RPPR=1361.41;RPR=15;RUN=1;SAF=0;SAP=836.856;SAR=384;SRF=2;SRP=1586.06;SRR=735;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:83:82,1:82:2914:1:36:0,-21.3872,-258.894 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/1:35:15,20:15:532:20:720:-54.5927,0,-37.677 0/1:52:25,27:25:881:27:964:-71.4233,0,-63.9523 0/1:157:66,91:66:2353:91:3232:-243.792,0,-164.766 0/1:37:22,15:22:788:15:540:-37.7984,0,-60.1067 0/0:87:87,0:87:3086:0:0:0,-26.1896,-277.962 0/1:53:25,28:25:888:28:1000:-74.3608,0,-64.2844 0/1:74:30,44:30:1076:44:1576:-119.855,0,-74.8766 0/1:15:3,12:3:108:12:420:-33.6167,0,-5.55972 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:28:9,19:9:320:19:665:-51.7439,0,-20.7135 0/0:35:35,0:35:1248:0:0:0,-10.536,-112.614 0/1:52:16,36:16:561:36:1281:-99.9377,0,-35.1636 0/0:78:78,0:78:2777:0:0:0,-23.4803,-250.17 0/0:21:21,0:21:756:0:0:0,-6.32163,-68.3672 0/0:29:29,0:29:1014:0:0:0,-8.72987,-91.5675 0/1:107:36,71:36:1277:71:2548:-197.359,0,-82.9985 0/1:53:35,18:35:1256:18:648:-42.6973,0,-97.3907 0/0:58:57,1:57:2025:1:36:0,-13.8615,-178.923 0/0:28:27,1:27:972:1:36:0,-4.83056,-84.1992 chr11 3211502 . A G 8760.3 PASS AB=0.478578;ABP=7.38294;AC=11;AF=0.261905;AN=42;AO=526;CIGAR=1X;DP=1915;DPB=1915;DPRA=1.17785;EPP=1127.9;EPPR=2973.74;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.943;MQMR=59.9986;NS=21;NUMALT=1;ODDS=10.0575;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18772;QR=49697;RO=1388;RPL=524;RPP=1127.9;RPPR=2973.74;RPR=2;RUN=1;SAF=0;SAP=1145.2;SAR=526;SRF=0;SRP=3017.01;SRR=1388;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:71,0:71:2544:0:0:0,-21.3731,-229.211 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/1:149:76,73:76:2736:73:2597:-189.097,0,-201.628 0/1:84:39,45:39:1396:45:1611:-119.994,0,-100.653 0/1:101:32,69:32:1152:69:2449:-190.259,0,-73.5861 0/1:66:33,33:33:1184:33:1168:-85.5571,0,-87.0003 0/0:102:102,0:102:3634:0:0:0,-30.7051,-327.265 0/1:145:77,68:77:2756:68:2448:-176.925,0,-204.633 0/1:229:120,109:120:4299:109:3897:-281.988,0,-318.15 0/1:37:31,6:31:1112:6:216:-8.6524,0,-89.2532 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/1:55:35,19:35:1256:19:684:-45.205,0,-96.7299 0/0:127:127,0:127:4533:0:0:0,-38.2308,-408.136 0/1:116:56,60:56:2016:60:2126:-156.688,0,-146.793 0/0:150:150,0:150:5375:0:0:0,-45.1545,-483.88 0/0:64:64,0:64:2283:0:0:0,-19.2659,-205.731 0/0:80:80,0:80:2856:0:0:0,-24.0824,-257.278 0/1:72:40,32:40:1431:32:1148:-81.9557,0,-107.413 0/1:43:32,11:32:1143:11:392:-22.6758,0,-90.2344 0/0:73:72,1:72:2584:1:36:0,-18.3769,-229.211 0/0:57:57,0:57:2035:0:0:0,-17.1587,-183.421 chr11 3234804 . AAG GAG,GAA 28079.2 PASS AB=0.58363,0.41637;ABP=37.1511,37.1511;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1067,234;CIGAR=1X2M,1X1M1X;DP=1302;DPB=1302;DPRA=0,0.835405;EPP=2319.97,511.135;EPPR=0;GTI=0;LEN=1,3;MEANALT=1.52381,2;MQM=59.9784,59.9274;MQMR=0;NS=21;NUMALT=2;ODDS=4.23281;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38103,8231;QR=0;RO=0;RPL=1067,234;RPP=2319.97,511.135;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2319.97,511.135;SAR=1067,234;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91,0:0:0:91,0:3241,0:-291.912,-27.3937,0,-291.912,-27.3937,-291.912 1/1:65:0,65,0:0:0:65,0:2316,0:-208.701,-19.567,0,-208.701,-19.567,-208.701 1/2:31:0,20,11:0:0:20,11:714,365:-88.0845,-29.8588,-23.8382,-58.5663,0,-55.255 1/2:50:0,26,24:0:0:26,24:924,844:-144.351,-69.0537,-61.227,-75.6503,0,-68.4256 1/2:101:0,71,30:0:0:71,30:2548,1031:-291.913,-84.0638,-62.6907,-208.197,0,-199.166 1/2:40:0,19,21:0:0:19,21:680,749:-116.867,-61.4142,-55.6946,-55.8096,0,-49.488 1/1:72:0,72,0:0:0:72,0:2560,0:-230.651,-21.6742,0,-230.651,-21.6742,-230.651 1/2:74:0,36,38:0:0:36,38:1284,1326:-212.87,-108.196,-97.3593,-105.026,0,-93.5872 1/2:58:0,39,19:0:0:39,19:1404,678:-170.191,-55.6293,-43.8892,-114.919,0,-109.2 1/2:11:0,7,4:0:0:7,4:252,142:-32.4902,-11.9251,-9.81788,-20.9217,0,-19.7176 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:30:0,19,11:0:0:19,11:684,391:-88.032,-32.2182,-26.4987,-56.1708,0,-52.8594 1/1:56:0,56,0:0:0:56,0:1999,0:-180.182,-16.8577,0,-180.182,-16.8577,-180.182 1/1:118:0,118,0:0:0:118,0:4228,0:-380.7,-35.5215,0,-380.7,-35.5215,-380.7 1/1:165:0,164,0:0:0:164,0:5841,0:-525.444,-49.3689,0,-525.444,-49.3689,-525.444 1/1:24:0,24,0:0:0:24,0:852,0:-77.0004,-7.22472,0,-77.0004,-7.22472,-77.0004 1/1:37:0,37,0:0:0:37,0:1324,0:-119.462,-11.1381,0,-119.462,-11.1381,-119.462 1/2:90:0,44,46:0:0:44,46:1576,1630:-261.672,-133.142,-119.896,-128.886,0,-115.039 1/2:77:0,47,30:0:0:47,30:1688,1075:-225.732,-88.032,-73.8836,-138.059,0,-129.028 1/1:54:0,54,0:0:0:54,0:1920,0:-172.97,-16.2556,0,-172.97,-16.2556,-172.97 1/1:53:0,53,0:0:0:53,0:1888,0:-170.198,-15.9546,0,-170.198,-15.9546,-170.198 chr11 3280022 . GAGA AAGC,GAGC 52337.2 PASS AB=0.638817,0.349614;ABP=133.232,155.84;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1718,275;CIGAR=1X2M1X,3M1X;DP=2006;DPB=2006.25;DPRA=0,0.896061;EPP=3724.92,600.165;EPPR=9.52472;GTI=2;LEN=4,1;MEANALT=2.04762,2.58333;MQM=58.2939,59.9564;MQMR=57.6667;NS=21;NUMALT=2;ODDS=13.8596;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=59660,9695;QR=98;RO=3;RPL=946,264;RPP=41.2778,508.442;RPPR=9.52472;RPR=772,11;RUN=1,1;SAF=947,264;SAP=42.1625,508.442;SAR=771,11;SRF=0;SRP=9.52472;SRR=3;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:140:0,138,1:0:0:138,1:4744,36:-426.647,-41.5421,0,-423.709,-38.5492,-423.408 1/1:92:0,91,0:0:0:91,0:3191,0:-286.277,-27.3937,0,-286.277,-27.3937,-286.277 1/2:57:0,35,22:0:0:35,22:1227,788:-164.445,-64.6221,-54.0861,-100.178,0,-93.5553 1/2:73:0,43,30:0:0:43,30:1477,1053:-205.944,-86.0471,-73.1029,-120.245,0,-111.214 1/2:98:1,48,46:1:36:48,46:1631,1622:-260.975,-129.13,-117.618,-129.224,0,-118.315 1/2:58:0,31,27:0:0:31,27:1079,951:-165.457,-77.7765,-68.4446,-88.0304,0,-79.9026 1/1:127:0,127,0:0:0:127,0:4423,0:-397.899,-38.2308,0,-397.899,-38.2308,-397.899 1/2:90:0,52,38:0:0:52,38:1811,1324:-254.398,-108.017,-92.3639,-146.728,0,-135.289 1/2:115:0,57,58:0:0:57,58:1991,2050:-329.199,-167.311,-150.152,-162.239,0,-144.78 1/2:9:0,8,1:0:0:8,1:282,36:-26.244,-3.29724,-0.889005,-23.3058,0,-23.0047 1/1:4:0,4,0:0:0:4,0:143,0:-13.2196,-1.20412,0,-13.2196,-1.20412,-13.2196 1/2:18:0,10,8:0:0:10,8:341,279:-50.6996,-23.0393,-20.029,-28.0055,0,-25.5972 1/1:110:0,109,0:0:0:109,0:3813,0:-343.011,-32.8123,0,-343.011,-32.8123,-343.011 1/1:91:0,91,0:0:0:91,0:3158,0:-284.39,-27.3937,0,-284.39,-27.3937,-284.39 1/1:179:0,179,0:0:0:179,0:6252,0:-562.521,-53.8844,0,-562.521,-53.8844,-562.521 1/1:87:0,87,0:0:0:87,0:3000,0:-269.926,-26.1896,0,-269.926,-26.1896,-269.926 1/1:87:0,86,0:0:0:86,0:3015,0:-271.189,-25.8886,0,-271.189,-25.8886,-271.189 1/2:133:2,104,26:2:62:104,26:3651,924:-366.587,-70.3756,-44.0412,-291.892,0,-289.04 1/2:127:0,109,16:0:0:109,16:3801,560:-354.46,-45.5802,-12.7679,-308.897,0,-304.081 1/1:174:0,172,2:0:0:172,2:5869,72:-527.632,-51.7772,0,-521.757,-45.5425,-521.155 1/1:137:0,137,0:0:0:137,0:4761,0:-428.132,-41.2411,0,-428.132,-41.2411,-428.132 chr11 3315772 . C T 7982 PASS AB=0.56821;ABP=35.2997;AC=10;AF=0.238095;AN=42;AO=455;CIGAR=1X;DP=1534;DPB=1534;DPRA=1.11199;EPP=991.03;EPPR=2337.34;GTI=0;LEN=1;MEANALT=1.09091;MQM=60;MQMR=59.9721;NS=21;NUMALT=1;ODDS=1.05758;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16356;QR=38238;RO=1075;RPL=455;RPP=991.03;RPPR=2337.34;RPR=0;RUN=1;SAF=0;SAP=991.03;SAR=455;SRF=0;SRP=2337.34;SRR=1075;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:78,0:78:2789:0:0:0,-23.4803,-251.249 0/0:49:49,0:49:1752:0:0:0,-14.7505,-157.964 0/1:93:35,58:35:1222:58:2088:-160.194,0,-82.2837 0/1:66:38,28:38:1341:28:1000:-70.4474,0,-101.12 0/1:148:62,86:62:2232:86:3096:-234.314,0,-156.591 0/1:28:11,17:11:392:17:612:-46.9846,0,-27.1912 0/0:76:76,0:76:2712:0:0:0,-22.8783,-244.324 0/1:72:24,45:24:864:45:1616:-124.612,0,-56.9635 0/1:87:26,61:26:902:61:2192:-171.356,0,-55.3007 0/1:32:8,24:8:288:24:864:-68.4496,0,-16.6344 0/0:11:11,0:11:377:0:0:0,-3.31133,-34.2579 0/1:19:6,13:6:216:13:464:-36.3779,0,-14.0709 0/0:81:81,0:81:2908:0:0:0,-24.3834,-261.955 0/0:78:78,0:78:2758:0:0:0,-23.4803,-248.46 0/0:202:202,0:202:7176:0:0:0,-60.8081,-645.896 0/0:24:24,0:24:834:0:0:0,-7.22472,-75.3731 0/0:45:44,1:44:1553:1:36:0,-9.94807,-136.461 0/1:169:75,94:75:2673:94:3380:-253.54,0,-189.94 0/1:85:57,28:57:2044:28:1008:-65.4488,0,-158.017 0/0:41:40,0:40:1440:0:0:0,-12.0412,-129.538 0/0:50:50,0:50:1765:0:0:0,-15.0515,-159.131 chr11 3362411 . A G 31354.3 PASS AB=0.463214;ABP=40.2339;AC=11;AF=0.261905;AN=42;AO=1474;CIGAR=1X;DP=5945;DPB=5945;DPRA=0.956498;EPP=3203.76;EPPR=9692.13;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.943;MQMR=59.9915;NS=21;NUMALT=1;ODDS=81.1084;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52004;QR=159454;RO=4470;RPL=443;RPP=512.355;RPPR=1018.75;RPR=1031;RUN=1;SAF=443;SAP=512.355;SAR=1031;SRF=1510;SRP=1024.38;SRR=2960;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:320:318,2:318:11330:2:72:0,-89.4929,-1012.75 0/0:186:185,1:185:6600:1:36:0,-52.3933,-589.856 0/1:112:56,56:56:2004:56:1970:-143.859,0,-146.918 0/1:206:102,104:102:3643:104:3677:-269.123,0,-266.062 0/1:456:228,227:228:8054:227:8018:-584.002,0,-587.559 0/1:206:112,94:112:3988:94:3303:-235.477,0,-297.097 0/0:352:352,0:352:12572:0:0:0,-105.963,-1131.31 0/1:138:66,72:66:2364:72:2552:-188.386,0,-171.476 0/1:368:198,170:198:7074:170:6014:-430.589,0,-525.942 0/1:727:406,321:406:14528:321:11331:-800.061,0,-1088.42 0/0:768:768,0:768:27461:0:0:0,-231.191,-2470.69 0/1:327:165,162:165:5932:162:5721:-416.576,0,-435.548 0/0:352:351,1:351:12485:1:36:0,-102.364,-1119.89 0/1:229:145,84:145:5178:84:2967:-198.315,0,-397.224 0/0:288:287,1:287:10222:1:36:0,-83.0984,-916.316 0/0:131:131,0:131:4678:0:0:0,-39.4349,-421.181 0/0:127:127,0:127:4532:0:0:0,-38.2308,-408.049 0/1:304:154,150:154:5510:150:5274:-383.287,0,-404.512 0/1:94:67,27:67:2379:27:934:-56.0744,0,-186.071 0/0:168:166,2:166:5869:2:63:0,-44.5899,-522.345 0/0:86:86,0:86:3051:0:0:0,-25.8886,-274.821 chr11 3368981 . T C 4.62877e-13 PASS AB=0.52106;ABP=16.8211;AC=20;AF=0.47619;AN=42;AO=1872;CIGAR=1X;DP=3599;DPB=3599;DPRA=0;EPP=4068.01;EPPR=3748.8;GTI=19;LEN=1;MEANALT=1.09524;MQM=11.1255;MQMR=45.3977;NS=21;NUMALT=1;ODDS=43.0044;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66982;QR=61623;RO=1725;RPL=0;RPP=4068.01;RPPR=3748.8;RPR=1872;RUN=1;SAF=1872;SAP=4068.01;SAR=0;SRF=1725;SRP=3748.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:63,115:63:2268:115:4132:-61.0146,0,-147.643 0/1:145:88,57:88:3160:57:2040:-12.9998,0,-237.059 0/1:179:91,88:91:3257:88:3150:-33.1329,0,-234.257 0/1:180:81,98:81:2900:98:3520:-44.7431,0,-203.639 0/1:356:163,193:163:5818:193:6877:-84.6175,0,-409.617 0/1:182:95,87:95:3367:87:3124:-32.0685,0,-244.448 0/1:217:98,119:98:3512:119:4259:-54.1166,0,-247.461 0/1:237:120,117:120:4289:117:4173:-47.3375,0,-310.599 0/1:326:158,168:158:5648:168:6017:-67.4552,0,-402.908 0/0:14:10,4:10:348:4:144:0,-0.149091,-27.332 0/1:7:4,3:4:144:3:108:-0.969255,0,-11.0734 0/1:50:24,26:24:860:26:928:-11.0351,0,-61.7239 0/1:263:106,157:106:3770:157:5597:-77.3882,0,-253.445 0/1:125:51,74:51:1794:74:2656:-35.7432,0,-122.002 0/1:342:167,175:167:5963:175:6280:-69.9309,0,-425.658 0/1:134:65,69:65:2340:69:2458:-27.9657,0,-167.519 0/1:152:76,76:76:2708:76:2719:-30.6644,0,-194.809 0/1:179:89,90:89:3181:90:3208:-36.5256,0,-229.291 0/1:132:68,64:68:2440:64:2300:-23.8392,0,-177.136 0/1:106:61,45:61:2192:45:1612:-12.9658,0,-163.325 0/1:94:47,47:47:1664:47:1680:-18.5542,0,-120.12 chr11 3369062 . A G 26137 PASS AB=0.496955;ABP=3.4202;AC=21;AF=0.5;AN=42;AO=2530;CIGAR=1X;DP=5091;DPB=5091;DPRA=0;EPP=5350.17;EPPR=5355.47;GTI=0;LEN=1;MEANALT=1.04762;MQM=29.0391;MQMR=27.7605;NS=21;NUMALT=1;ODDS=34.6839;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=90317;QR=91416;RO=2560;RPL=2515;RPP=5367.32;RPPR=5398.17;RPR=15;RUN=1;SAF=2;SAP=5479.48;SAR=2528;SRF=5;SRP=5518.64;SRR=2555;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:312:151,161:151:5360:161:5776:-313.851,0,-264.767 0/1:207:102,105:102:3648:105:3764:-203.625,0,-182.11 0/1:187:96,91:96:3436:91:3243:-174.827,0,-173.83 0/1:295:164,131:164:5837:131:4679:-242.74,0,-314.474 0/1:476:274,201:274:9756:201:7156:-362.33,0,-505.945 0/1:288:125,163:125:4476:163:5816:-324.16,0,-218.365 0/1:403:200,203:200:7160:203:7262:-389.269,0,-360.959 0/1:261:131,130:131:4677:130:4648:-250.617,0,-244.263 0/1:400:186,214:186:6661:214:7655:-405.194,0,-330.789 0/1:30:22,8:22:792:8:284:-11.4742,0,-43.5935 0/1:27:11,16:11:392:16:576:-32.7779,0,-19.0537 0/1:76:41,35:41:1434:35:1251:-65.9671,0,-77.1498 0/1:243:124,119:124:4452:119:4272:-229.704,0,-219.896 0/1:249:125,124:125:4419:124:4402:-236.991,0,-231.82 0/1:554:230,324:230:8256:324:11535:-652.294,0,-385.317 0/1:241:149,92:149:5343:92:3300:-153.577,0,-281.613 0/1:226:116,110:116:4144:110:3912:-203.514,0,-209.639 0/1:129:69,60:69:2455:60:2144:-112.841,0,-130.173 0/1:145:71,74:71:2540:74:2639:-141.854,0,-127.5 0/1:254:137,117:137:4899:117:4162:-219.346,0,-251.488 0/1:88:36,52:36:1279:52:1841:-104.251,0,-58.7134 chr11 3369074 . TGAA CGAG,TGAG 17836.5 PASS AB=0.413287,0.144034;ABP=341.188,3609.69;AC=16,5;AF=0.380952,0.119048;AN=42;AO=2140,472;CIGAR=1X2M1X,3M1X;DP=5178;DPB=5178.75;DPRA=0,0;EPP=4649.96,1027.95;EPPR=5553.29;GTI=0;LEN=4,1;MEANALT=2.19048,2.33333;MQM=27.5626,28.947;MQMR=28.9253;NS=21;NUMALT=2;ODDS=8.16686;PAIRED=0,0;PAIREDR=0;PAO=3,0;PQA=104,0;PQR=0;PRO=0;QA=75156,16833;QR=90018;RO=2556;RPL=2140,472;RPP=4649.96,1027.95;RPPR=5553.29;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4649.96,1027.95;SAR=2140,472;SRF=0;SRP=5553.29;SRR=2556;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:318:161,154,2:161:5703:154,2:5402,72:-270.153,0,-309.299,-314.296,-351.335,-669.369 0/1:208:106,101,0:106:3767:101,0:3580,0:-177.955,0,-203.239,-209.864,-233.643,-443.594 0/1:192:92,99,1:92:3229:99,1:3491,36:-178.875,0,-173.84,-204.332,-201.404,-407.682 0/2:299:134,71,93:134:4710:71,93:2460,3321:-165.219,-59.8587,-333.592,0,-149.418,-267.122 0/1:488:204,278,6:204:7180:278,6:9764,216:-512.638,0,-365.512,-560.62,-435.771,-1008.02 0/2:297:167,59,71:167:5829:59,71:2072,2529:-106.257,-35.9053,-384.606,0,-245.848,-345.102 0/1:411:209,202,0:209:7340:202,0:7127,0:-361.424,0,-397.214,-424.339,-458.022,-882.089 0/2:263:130,56,76:130:4580:56,76:1939,2720:-130.899,-55.2675,-326.644,0,-173.481,-265.371 0/1:412:219,116,76:219:7700:116,76:4050,2712:-174.841,0,-433.929,-76.4616,-304.547,-522.439 0/1:31:8,18,5:8:281:18,5:618,180:-33.6771,0,-12.3098,-24.8901,-6.53768,-41.1219 0/1:27:16,7,4:16:574:7,4:235,144:-8.23002,0,-33.6668,-4.07976,-26.8222,-38.6783 0/2:77:35,15,27:35:1238:15,27:525,939:-48.4907,-28.0577,-101.203,0,-46.7016,-69.5425 0/1:249:123,126,0:123:4357:126,0:4469,0:-222.009,0,-235.532,-259.036,-273.461,-532.226 0/2:251:125,63,62:125:4358:63,62:2165,2208:-101.297,-9.52165,-264.549,0,-144.597,-255.342 0/1:562:322,237,0:322:11380:237,0:8370,0:-396.72,0,-641.647,-493.652,-712.991,-1206.66 0/1:241:92,148,0:92:3243:148,0:5197,0:-277.011,0,-152.114,-304.705,-196.666,-501.369 0/1:230:109,121,0:109:3852:121,0:4257,0:-217.336,0,-199.659,-250.148,-236.083,-486.282 0/1:133:61,42,30:61:2130:42,30:1458,1076:-67.3643,0,-121.322,-18.823,-67.0686,-143.77 0/1:144:73,55,16:73:2550:55,16:1949,572:-91.3856,0,-142.095,-77.7189,-123.013,-231.566 0/1:259:119,139,1:119:4224:139,1:4865,36:-250.248,0,-222.348,-283.833,-261.954,-547.734 0/1:86:51,33,2:51:1793:33,2:1163,72:-51.7476,0,-102.32,-62.6229,-107.778,-174.29 chr11 3369116 . GAAAAAAGT GAGAAAAAAAAGT,GAGAAAAAAAGT 67054.5 PASS AB=0.450062,0.525593;ABP=37.7105,12.1245;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2300,860;CIGAR=1M4I8M,1M3I8M;DP=3233;DPB=4559.89;DPRA=0,1.84391;EPP=4731.76,1784.63;EPPR=16.0391;GTI=0;LEN=4,3;MEANALT=4.14286,4.44444;MQM=57.8226,59.8744;MQMR=60;NS=21;NUMALT=2;ODDS=9.578;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=80190,30114;QR=210;RO=6;RPL=31,9;RPP=4731.76,1793.12;RPPR=16.0391;RPR=2269,851;RUN=1,1;SAF=2300,859;SAP=4997.4,1861.8;SAR=0,1;SRF=6;SRP=16.0391;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:209:0,199,4:0:0:199,4:6911,140:-620.508,-59.905,0,-609.117,-48.5108,-607.913 1/1:192:0,185,6:0:0:185,6:6428,197:-577.338,-55.6906,0,-561.421,-39.7973,-559.615 1/2:96:0,50,42:0:0:50,42:1757,1481:-263.532,-120.59,-105.539,-142.945,0,-130.301 1/2:208:1,97,107:1:35:97,107:3359,3754:-575.167,-302.572,-276.22,-270.05,0,-240.687 1/2:326:0,140,179:0:0:140,179:4926,6247:-908.698,-508.125,-465.981,-400.622,0,-346.738 1/2:171:1,67,98:1:31:67,98:2354,3427:-467.206,-276.078,-258.397,-188.948,0,-161.935 1/1:313:2,299,3:2:72:299,3:10403,108:-928.002,-84.1323,0,-919.792,-81.1943,-924.764 1/2:177:0,88,83:0:0:88,83:3093,2925:-489.602,-238.176,-211.685,-251.452,0,-226.466 1/2:261:2,107,149:2:72:107,149:3739,5229:-722.82,-419.667,-393.332,-297.87,0,-258.892 1/2:10:0,3,7:0:0:3,7:104,244:-28.6448,-20.1922,-19.2891,-8.79971,0,-6.6925 1/1:8:0,7,0:0:0:7,0:252,0:-22.7287,-2.10721,0,-22.7287,-2.10721,-22.7287 1/2:33:0,15,18:0:0:15,18:532,606:-92.7872,-49.4359,-44.9204,-43.6976,0,-38.2791 1/1:197:0,193,2:0:0:193,2:6686,72:-600.781,-58.0988,0,-594.906,-52.2236,-594.304 1/2:184:0,85,95:0:0:85,95:2956,3331:-510.916,-271.06,-245.473,-239.858,0,-211.26 1/1:184:0,183,0:0:0:183,0:6354,0:-571.021,-55.0885,0,-571.021,-55.0885,-571.021 1/1:203:0,196,1:0:0:196,1:6847,36:-615.662,-59.0019,0,-612.724,-56.0594,-612.423 1/1:165:0,161,1:0:0:161,1:5610,36:-504.062,-48.4658,0,-501.125,-45.5123,-500.824 1/2:65:0,32,30:0:0:32,30:1140,1056:-178.846,-85.97,-76.337,-92.8825,0,-83.8516 1/2:71:0,37,34:0:0:37,34:1293,1189:-202.022,-97.0718,-85.9337,-105.299,0,-95.064 1/1:84:0,82,1:0:0:82,1:2865,36:-257.706,-24.6845,0,-254.769,-21.7268,-254.468 1/1:76:0,74,0:0:0:74,0:2581,0:-231.746,-22.2762,0,-231.746,-22.2762,-231.746 chr11 3369154 . GGTTTA TGGTTA,GGGTTG 66567.7 PASS AB=0.545113,0.442356;ABP=31.2231,49.0738;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2519,713;CIGAR=1X1M1X3M,2M1X2M1X;DP=3268;DPB=3624.17;DPRA=0,1.06814;EPP=5472.95,1533.95;EPPR=5.18177;GTI=0;LEN=6,6;MEANALT=3.19048,3.64286;MQM=59.9651,59.9832;MQMR=60;NS=21;NUMALT=2;ODDS=29.2857;PAIRED=0,0;PAIREDR=0;PAO=1507,315;PQA=53237,2794;PQR=2794;PRO=315;QA=88031,24052;QR=36;RO=1;RPL=0,3;RPP=5472.95,1525.32;RPPR=5.18177;RPR=2519,710;RUN=1,1;SAF=0,1;SAP=5472.95,1542.6;SAR=2519,712;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:311:0,304,3:0:0:304,3:10581,107:-951.854,-91.5131,0,-943.131,-82.7905,-942.228 1/1:180:0,178,0:0:0:178,0:6217,0:-559.316,-53.5833,0,-559.316,-53.5833,-559.316 1/2:130:0,59,70:0:0:59,70:2081,2387:-363.11,-193.664,-175.903,-169.442,0,-148.369 1/2:110:0,66,43:0:0:66,43:2338,1461:-308.951,-118.492,-98.6242,-190.458,0,-177.514 1/2:293:0,165,123:0:0:165,123:5789,4151:-807.527,-336.415,-286.745,-471.108,0,-434.082 1/2:105:0,61,43:0:0:61,43:2134,1405:-287.061,-113.433,-95.0703,-173.605,0,-160.66 1/1:173:0,172,0:0:0:172,0:6101,0:-548.911,-51.7772,0,-548.911,-51.7772,-548.911 1/2:165:0,91,70:0:0:91,70:3164,2331:-445.932,-188.678,-161.284,-257.29,0,-236.218 1/2:168:0,86,80:0:0:86,80:2987,2701:-461.634,-218.886,-192.998,-242.73,0,-218.648 1/2:71:0,49,21:0:0:49,21:1697,680:-192.754,-54.8252,-40.0748,-137.901,0,-131.58 1/1:8:0,8,0:0:0:8,0:273,0:-24.9016,-2.40824,0,-24.9016,-2.40824,-24.9016 1/2:103:0,51,52:0:0:51,52:1780,1764:-288.17,-143.387,-128.034,-145.128,0,-129.474 1/1:144:0,143,0:0:0:143,0:4988,0:-448.725,-43.0473,0,-448.725,-43.0473,-448.725 1/2:155:0,71,83:0:0:71,83:2465,2817:-428.335,-228.442,-207.069,-199.889,0,-174.904 1/1:326:0,320,0:0:0:320,0:11228,0:-1010.07,-96.3296,0,-1010.07,-96.3296,-1010.07 1/1:147:0,147,0:0:0:147,0:5108,0:-459.526,-44.2514,0,-459.526,-44.2514,-459.526 1/1:191:0,189,1:0:0:189,1:6627,36:-596.173,-56.8947,0,-593.235,-53.9572,-592.934 1/2:224:1,122,99:1:36:122,99:4246,3377:-616.077,-271.122,-237.334,-342.371,0,-315.507 1/2:72:0,49,22:0:0:49,22:1704,728:-197.412,-58.867,-44.1165,-138.54,0,-131.917 1/1:128:0,125,3:0:0:125,3:4342,107:-390.607,-37.6288,0,-381.884,-28.5497,-380.981 1/1:64:0,63,0:0:0:63,0:2181,0:-196.312,-18.9649,0,-196.312,-18.9649,-196.312 chr11 3370831 . CGCTTTTAC CGCTATTAG,GGCTATTAG 34156.4 PASS AB=0.518363,0.473242;ABP=5.80154,8.93685;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1280,452;CIGAR=4M1X3M1X,1X3M1X3M1X;DP=1743;DPB=1743;DPRA=0,0.972332;EPP=2782.49,984.516;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.09524,2.66667;MQM=40.3984,40.9535;MQMR=0;NS=21;NUMALT=2;ODDS=14.3127;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45111,15848;QR=0;RO=0;RPL=0,0;RPP=2782.49,984.516;RPPR=0;RPR=1280,452;RUN=1,1;SAF=0,0;SAP=2782.49,984.516;SAR=1280,452;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:0,94,0:0:0:94,0:3308,0:-286.744,-28.2968,0,-286.744,-28.2968,-286.744 1/1:22:0,22,0:0:0:22,0:776,0:-66.2789,-6.62266,0,-66.2789,-6.62266,-66.2789 1/2:93:0,36,57:0:0:36,57:1274,2003:-259.071,-158.412,-147.575,-101.002,0,-83.843 1/2:100:0,41,56:0:0:41,56:1471,1960:-266.65,-151.613,-139.271,-115.107,0,-98.2492 1/2:160:0,98,61:0:0:98,61:3462,2125:-439.122,-166.222,-136.721,-272.948,0,-254.585 1/2:57:0,21,36:0:0:21,36:722,1260:-152.059,-96.8137,-90.4921,-55.5727,0,-44.7356 1/1:122:0,121,0:0:0:121,0:4290,0:-363.815,-36.4246,0,-363.815,-36.4246,-363.815 1/2:104:0,66,36:0:0:66,36:2323,1238:-277.39,-95.959,-76.091,-181.444,0,-170.607 1/2:201:0,114,87:0:0:114,87:4019,3081:-562.85,-246.431,-212.114,-316.764,0,-290.575 1/2:8:0,3,5:0:0:3,5:106,178:-22.4143,-14.1882,-13.2851,-8.56539,0,-7.06024 1/1:13:0,13,0:0:0:13,0:450,0:-38.2065,-3.91339,0,-38.2065,-3.91339,-38.2065 1/2:28:0,11,17:0:0:11,17:382,601:-76.9633,-47.26,-43.9487,-30.0394,0,-24.9219 1/1:145:0,144,0:0:0:144,0:5080,0:-442.872,-43.3483,0,-442.872,-43.3483,-442.872 1/2:70:0,38,30:0:0:38,30:1335,1034:-186.685,-81.7563,-70.3172,-104.969,0,-95.938 1/1:139:0,139,0:0:0:139,0:4862,0:-425.288,-41.8432,0,-425.288,-41.8432,-425.288 1/1:23:0,22,0:0:0:22,0:766,0:-66.0016,-6.62266,0,-66.0016,-6.62266,-66.0016 1/1:31:0,30,1:0:0:30,1:1045,32:-90.111,-9.0309,0,-87.5565,-6.15849,-87.2554 1/2:69:0,34,35:0:0:34,35:1214,1230:-187.989,-95.7392,-85.5042,-92.5856,0,-82.0496 1/2:63:0,32,31:0:0:32,31:1122,1106:-175.152,-87.0592,-77.4262,-88.4342,0,-79.1022 1/1:156:0,156,0:0:0:156,0:5529,0:-477.007,-46.9607,0,-477.007,-46.9607,-477.007 1/1:45:0,45,0:0:0:45,0:1575,0:-134.983,-13.5464,0,-134.983,-13.5464,-134.983 chr11 3370866 . A G 24476.5 PASS AB=0.51966;ABP=6.16943;AC=31;AF=0.738095;AN=42;AO=1269;CIGAR=1X;DP=1721;DPB=1721;DPRA=0;EPP=2758.61;EPPR=984.516;GTI=0;LEN=1;MEANALT=1;MQM=40.357;MQMR=41.0774;NS=21;NUMALT=1;ODDS=14.5582;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45113;QR=16199;RO=452;RPL=1269;RPP=2758.61;RPPR=984.516;RPR=0;RUN=1;SAF=0;SAP=2758.61;SAR=1269;SRF=0;SRP=984.516;SRR=452;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92:0:0:92:3276:-282.998,-27.6948,0 1/1:20:0,20:0:0:20:707:-60.4897,-6.0206,0 0/1:93:57,36:57:2048:36:1279:-83.5747,0,-150.943 0/1:99:55,44:55:1980:44:1572:-104.929,0,-139.633 0/1:155:59,96:59:2111:96:3408:-250.18,0,-135.817 0/1:54:35,19:35:1256:19:680:-41.7532,0,-90.5521 1/1:123:0,123:0:0:123:4379:-370.3,-37.0267,0 0/1:104:39,65:39:1395:65:2315:-169.172,0,-87.9892 0/1:199:88,111:88:3156:111:3972:-286.503,0,-218.994 0/1:7:5,2:5:176:2:72:-4.39278,0,-13.429 1/1:14:0,14:0:0:14:500:-41.8124,-4.21442,0 0/1:28:17,11:17:593:11:396:-25.8444,0,-43.2198 1/1:144:0,144:0:0:144:5144:-446.165,-43.3483,0 0/1:67:29,38:29:1040:38:1364:-98.8763,0,-70.6276 1/1:134:0,134:0:0:134:4733:-413.201,-40.338,0 1/1:24:0,24:0:0:24:838:-71.398,-7.22472,0 1/1:30:0,30:0:0:30:1053:-91.3879,-9.0309,0 0/1:72:37,35:37:1328:35:1252:-83.6492,0,-92.7648 0/1:63:31,32:31:1116:32:1119:-78.6102,0,-78.164 1/1:154:0,154:0:0:154:5465:-471.42,-46.3586,0 1/1:45:0,45:0:0:45:1589:-135.768,-13.5464,0 chr11 3393550 . C T 6307.71 PASS AB=0.488806;ABP=3.88537;AC=11;AF=0.261905;AN=42;AO=394;CIGAR=1X;DP=1464;DPB=1464;DPRA=0.992857;EPP=858.57;EPPR=2324.31;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.9112;MQMR=60;NS=21;NUMALT=1;ODDS=6.2024;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13851;QR=38110;RO=1069;RPL=394;RPP=858.57;RPPR=2324.31;RPR=0;RUN=1;SAF=0;SAP=858.57;SAR=394;SRF=0;SRP=2324.31;SRR=1069;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:103,0:103:3693:0:0:0,-31.0061,-332.57 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 0/1:52:26,25:26:927:25:861:-62.0908,0,-68.0351 0/1:75:39,36:39:1389:36:1252:-90.4044,0,-102.73 0/1:168:96,72:96:3425:72:2515:-176.029,0,-257.89 0/1:49:18,31:18:648:31:1104:-84.9202,0,-43.9014 0/0:104:104,0:104:3713:0:0:0,-31.3071,-334.371 0/1:102:58,44:58:2084:44:1542:-108.258,0,-157.125 0/1:109:47,62:47:1661:62:2208:-166.173,0,-116.963 0/1:12:9,3:9:320:3:108:-6.46281,0,-25.53 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:32:18,14:18:648:14:492:-34.9794,0,-49.0189 0/0:105:105,0:105:3741:0:0:0,-31.6081,-336.89 0/1:97:41,56:41:1476:56:1957:-147.204,0,-103.936 0/0:86:86,0:86:3035:0:0:0,-25.8886,-273.377 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:30:29,1:29:1010:1:36:0,-5.43262,-87.6088 0/1:56:23,33:23:805:33:1176:-89.2901,0,-55.9098 0/1:52:35,17:35:1245:17:600:-38.6756,0,-96.6992 0/0:105:105,0:105:3730:0:0:0,-31.6081,-335.9 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 chr11 3408176 . G A 26498.9 PASS AB=0.473735;ABP=9.16985;AC=31;AF=0.738095;AN=42;AO=1253;CIGAR=1X;DP=1796;DPB=1796;DPRA=0;EPP=2527.76;EPPR=1086.34;GTI=0;LEN=1;MEANALT=1.04762;MQM=54.5235;MQMR=59.6292;NS=21;NUMALT=1;ODDS=2.13063;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44686;QR=19330;RO=542;RPL=1230;RPP=2527.76;RPPR=1086.34;RPR=23;RUN=1;SAF=1253;SAP=2723.87;SAR=0;SRF=542;SRP=1179.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:48:0,48:0:0:48:1697:-152.777,-14.4494,0 1/1:50:0,50:0:0:50:1774:-159.442,-15.0515,0 0/1:105:51,54:51:1823:54:1901:-139.623,0,-132.733 0/1:115:72,43:72:2579:43:1531:-103.312,0,-197.711 0/1:209:105,104:105:3760:104:3716:-270.563,0,-275.615 0/1:61:37,24:37:1328:24:856:-58.3004,0,-101.459 1/1:98:0,98:0:0:98:3503:-314.041,-29.5009,0 0/1:94:39,55:39:1383:55:1968:-148.73,0,-96.4457 0/1:148:79,69:79:2832:69:2476:-178.46,0,-210.552 0/1:15:12,3:12:428:3:108:-5.54543,0,-34.3434 1/1:8:0,8:0:0:8:288:-26.1813,-2.40824,0 0/1:12:7,5:7:252:5:180:-12.9162,0,-19.4096 1/1:112:0,111:0:0:111:3967:-356.548,-33.4143,0 0/1:119:62,57:62:2212:57:2040:-147.741,0,-163.508 1/1:111:0,111:0:0:111:3956:-355.852,-33.4143,0 1/1:66:0,66:0:0:66:2363:-212.849,-19.868,0 1/1:93:0,93:0:0:93:3285:-295.691,-27.9958,0 0/1:96:54,42:54:1897:42:1496:-105.523,0,-142.067 0/1:54:23,31:23:800:31:1112:-84.0622,0,-56.0539 1/1:103:1,102:1:36:102:3649:-324.126,-27.4078,0 1/1:79:0,79:0:0:79:2820:-252.594,-23.7814,0 chr11 3409802 . C G 10401.2 PASS AB=0.506483;ABP=3.46078;AC=11;AF=0.261905;AN=42;AO=632;CIGAR=1X;DP=2577;DPB=2577;DPRA=0.913879;EPP=1375.38;EPPR=4224.35;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.9984;MQMR=59.9938;NS=21;NUMALT=1;ODDS=16.0931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22395;QR=69451;RO=1944;RPL=632;RPP=1375.38;RPPR=4224.35;RPR=0;RUN=1;SAF=0;SAP=1375.38;SAR=632;SRF=0;SRP=4224.35;SRR=1944;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:157:150,6:150:5353:6:216:0,-27.4016,-462.133 0/0:171:171,0:171:6125:0:0:0,-51.4761,-551.348 0/1:107:33,74:33:1173:74:2653:-206.806,0,-73.6653 0/1:123:48,75:48:1720:75:2639:-200.727,0,-118.059 0/1:267:147,120:147:5272:120:4280:-305.005,0,-394.24 0/1:114:48,66:48:1713:66:2352:-177.622,0,-120.136 0/0:211:211,0:211:7524:0:0:0,-63.5173,-677.203 0/1:107:65,42:65:2332:42:1508:-103.804,0,-177.929 0/1:207:111,96:111:3961:96:3411:-244.893,0,-294.367 0/1:19:8,11:8:288:11:392:-29.9005,0,-20.5478 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:37:19,18:19:684:18:640:-46.7912,0,-50.7522 0/0:79:79,0:79:2832:0:0:0,-23.7814,-255.096 0/1:145:76,69:76:2720:69:2332:-166.486,0,-201.394 0/0:253:253,0:253:9037:0:0:0,-76.1606,-813.309 0/0:102:102,0:102:3630:0:0:0,-30.7051,-326.903 0/0:184:184,0:184:6554:0:0:0,-55.3895,-589.943 0/1:67:30,37:30:1072:37:1324:-99.2931,0,-76.6234 0/1:41:24,17:24:860:17:612:-43.0712,0,-65.3796 0/0:149:148,1:148:5300:1:36:0,-41.2552,-473.536 0/0:31:31,0:31:1085:0:0:0,-9.33193,-97.957 chr11 3414198 . T C 11748.8 PASS AB=0.479692;ABP=8.12573;AC=11;AF=0.261905;AN=42;AO=685;CIGAR=1X;DP=2430;DPB=2430;DPRA=1.29559;EPP=1371.35;EPPR=3686.54;GTI=0;LEN=1;MEANALT=1.09091;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=16.7911;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24256;QR=60974;RO=1744;RPL=14;RPP=1371.35;RPPR=3720.89;RPR=671;RUN=1;SAF=685;SAP=1490.47;SAR=0;SRF=1740;SRP=3755.39;SRR=4;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:119:119,0:119:4185:0:0:0,-35.8226,-376.838 0/0:50:50,0:50:1730:0:0:0,-15.0515,-155.983 0/1:144:81,63:81:2835:63:2218:-156.533,0,-212.044 0/1:103:47,56:47:1627:56:2004:-149.627,0,-115.711 0/1:327:157,170:157:5503:170:6041:-445.361,0,-396.971 0/1:145:87,58:87:3087:58:2072:-143.101,0,-234.41 0/0:164:164,0:164:5710:0:0:0,-49.3689,-514.037 0/1:103:42,61:42:1483:61:2170:-164.56,0,-102.758 0/1:222:113,109:113:3948:109:3868:-281.487,0,-288.693 0/1:26:19,7:19:668:7:248:-14.8374,0,-52.6189 0/0:24:24,0:24:840:0:0:0,-7.22472,-75.9182 0/1:26:11,15:11:384:15:540:-41.1098,0,-27.0679 0/0:169:169,0:169:5890:0:0:0,-50.8741,-530.23 0/1:134:78,56:78:2664:56:1867:-127.967,0,-199.673 0/0:208:208,0:208:7345:0:0:0,-62.6142,-661.111 0/0:99:99,0:99:3421:0:0:0,-29.802,-308.11 0/0:46:46,0:46:1620:0:0:0,-13.8474,-146.089 0/1:103:42,60:42:1449:60:2152:-162.882,0,-99.6376 0/1:95:65,30:65:2285:30:1076:-68.555,0,-177.313 0/0:62:62,0:62:2167:0:0:0,-18.6639,-195.298 0/0:61:61,0:61:2133:0:0:0,-18.3628,-192.237 chr11 3453483 . T C 54097.7 PASS AB=0.595918;ABP=335.848;AC=21;AF=0.5;AN=42;AO=2482;CIGAR=1X;DP=4165;DPB=4165;DPRA=0;EPP=5392.6;EPPR=3653.26;GTI=0;LEN=1;MEANALT=1.09524;MQM=43.8783;MQMR=54.3153;NS=21;NUMALT=1;ODDS=6.85712;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=87932;QR=59673;RO=1681;RPL=623;RPP=1339.57;RPPR=3653.26;RPR=1859;RUN=1;SAF=623;SAP=1339.57;SAR=1859;SRF=1681;SRP=3653.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:264:64,200:64:2262:200:7109:-544.995,0,-123.237 0/1:143:83,60:83:2975:60:2139:-144.859,0,-221.048 0/1:239:121,118:121:4280:118:4183:-299.517,0,-313.047 0/1:242:103,139:103:3624:139:4932:-363.806,0,-252.905 0/1:401:166,235:166:5905:235:8347:-618.301,0,-409.343 0/1:183:102,81:102:3633:81:2873:-198.914,0,-270.929 0/1:312:149,162:149:5312:162:5744:-412.174,0,-379.716 0/1:222:101,121:101:3581:121:4291:-312.035,0,-254.528 0/1:348:155,193:155:5468:193:6838:-496.953,0,-386.723 0/1:35:13,21:13:460:21:752:-55.6718,0,-31.1363 0/1:29:7,22:7:252:22:776:-60.4002,0,-14.2957 0/1:65:36,29:36:1274:29:1027:-71.7736,0,-95.2319 0/1:300:96,204:96:3431:204:7282:-548.94,0,-217.224 0/1:249:114,135:114:3980:135:4782:-346.884,0,-282.966 0/1:235:45,190:45:1608:190:6749:-523.819,0,-72.5757 0/1:75:16,59:16:568:59:2069:-158.397,0,-28.4587 0/1:129:33,96:33:1179:96:3363:-255.81,0,-66.9487 0/1:179:100,79:100:3566:79:2799:-192.762,0,-267.018 0/1:133:48,85:48:1724:85:2964:-222.243,0,-115.069 0/1:252:66,186:66:2340:186:6579:-500.157,0,-134.315 0/1:130:63,67:63:2251:67:2334:-166.571,0,-162.326 chr11 3453486 . T C 12453.8 PASS AB=0.30239;ABP=1223.38;AC=20;AF=0.47619;AN=42;AO=1088;CIGAR=1X;DP=3621;DPB=3621;DPRA=7.82174;EPP=2365.57;EPPR=5499.01;GTI=2;LEN=1;MEANALT=1.1;MQM=52.5809;MQMR=43.8526;NS=21;NUMALT=1;ODDS=13.9514;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38105;QR=90245;RO=2531;RPL=1088;RPP=2365.57;RPPR=1428.51;RPR=0;RUN=1;SAF=1088;SAP=2365.57;SAR=0;SRF=621;SRP=1428.51;SRR=1910;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:256:202,54:202:7190:54:1836:-87.5805,0,-554.017 0/1:115:62,53:62:2216:53:1877:-131.053,0,-158.796 0/1:192:121,71:121:4300:71:2473:-164.691,0,-323.862 0/1:210:143,67:143:5098:67:2302:-143.642,0,-387.531 0/1:341:240,101:240:8506:101:3541:-214.79,0,-648.617 0/1:127:81,46:81:2896:46:1566:-102.268,0,-217.904 0/1:243:170,73:170:6095:73:2567:-154.37,0,-462.338 0/1:197:126,71:126:4505:71:2516:-167.12,0,-337.67 0/1:291:203,88:203:7255:88:3058:-187.138,0,-550.974 0/1:28:21,7:21:748:7:248:-14.1739,0,-56.8883 0/0:23:23,0:23:813:0:0:0,-6.92369,-72.3377 0/1:49:28,21:28:996:21:756:-53.4497,0,-73.8189 0/1:295:204,90:204:7272:90:3203:-198.576,0,-549.229 0/1:199:135,64:135:4836:64:2235:-141.242,0,-365.78 0/1:239:194,45:194:6887:45:1571:-68.0855,0,-533.831 0/1:72:57,15:57:2030:15:532:-26.1367,0,-155.136 0/1:125:93,32:93:3307:32:1106:-61.6255,0,-251.562 0/1:150:82,68:82:2928:68:2420:-172.685,0,-212.22 0/1:122:85,37:85:3027:37:1312:-81.3516,0,-230.623 0/1:253:190,62:190:6788:62:2179:-119.661,0,-517.31 0/1:94:71,23:71:2552:23:807:-43.4931,0,-195.959 chr11 3492315 . GCAAAAAACATAT ACCAAAAAAACATAT,ACAAAAAAACATAT 35439.7 PASS AB=0.46875,0.514648;ABP=11.6962,4.91882;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1199,536;CIGAR=1X1M2I11M,1X1M1I11M;DP=1770;DPB=2001.08;DPRA=12.5929,0.988784;EPP=2606.61,1166.92;EPPR=0;GTI=1;LEN=15,14;MEANALT=3.15,3.23077;MQM=47.588,46.6866;MQMR=0;NS=21;NUMALT=2;ODDS=0.218018;PAIRED=0,0;PAIREDR=0;PAO=0.666667,0.666667;PQA=22.3333,22.3333;PQR=22.3333;PRO=0.666667;QA=42191,19048;QR=0;RO=0;RPL=0,0;RPP=2606.61,1166.92;RPPR=0;RPR=1199,536;RUN=1,1;SAF=1199,536;SAP=2606.61,1166.92;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,85,0:0:0:85,0:2996,0:-265.919,-25.5876,0,-265.919,-25.5876,-265.919 1/1:62:0,60,0:0:0:60,0:2090,0:-185.622,-18.0618,0,-185.622,-18.0618,-185.622 1/2:99:0,62,35:0:0:62,35:2188,1241:-275.793,-100.651,-81.9867,-175.134,0,-164.598 1/2:122:0,53,68:0:0:53,68:1838,2429:-343.269,-196.575,-180.62,-146.682,0,-126.212 1/2:175:0,80,91:0:0:80,91:2824,3218:-486.794,-260.331,-236.249,-226.532,0,-199.138 1/2:121:0,55,66:0:0:55,66:1913,2348:-338.013,-183.291,-166.734,-155.015,0,-135.147 1/1:154:0,149,0:0:0:149,0:5287,0:-472.64,-44.8535,0,-472.64,-44.8535,-472.64 1/2:115:0,47,66:0:0:47,66:1650,2331:-313.434,-181.239,-167.091,-132.242,0,-112.374 1/2:179:0,80,98:0:0:80,98:2800,3499:-511.355,-283.888,-259.806,-227.477,0,-197.976 2/2:7:0,0,7:0:0:0,7:0,252:-22.1087,-22.1087,-22.1087,-2.10721,-2.10721,0 1/2:5:0,3,1:0:0:3,1:108,36:-11.6124,-2.83135,-1.92826,-8.80391,0,-8.50288 1/2:16:0,5,11:0:0:5,11:179,392:-45.0486,-30.6621,-29.157,-14.7353,0,-11.424 1/1:75:0,74,0:0:0:74,0:2571,0:-228.078,-22.2762,0,-228.078,-22.2762,-228.078 1/2:124:0,58,61:0:0:58,61:2038,2174:-338.404,-175.815,-158.355,-162.656,0,-144.293 1/1:113:0,110,0:0:0:110,0:3905,0:-345.725,-33.1133,0,-345.725,-33.1133,-345.725 1/1:64:0,63,0:0:0:63,0:2213,0:-198.473,-18.9649,0,-198.473,-18.9649,-198.473 1/1:91:0,90,0:0:0:90,0:3189,0:-286.404,-27.0927,0,-286.404,-27.0927,-286.404 1/2:37:0,15,21:0:0:15,21:531,738:-99.8402,-57.2781,-52.7627,-42.5095,0,-36.1879 1/2:31:0,22,9:0:0:22,9:771,318:-87.5672,-25.9261,-19.3035,-61.989,0,-59.2798 1/1:60:0,56,2:0:0:56,2:1975,72:-175.193,-16.8577,0,-169.577,-11.2465,-168.975 1/1:33:0,32,0:0:0:32,0:1125,0:-100.396,-9.63296,0,-100.396,-9.63296,-100.396 chr11 3492451 . C T 35586.7 PASS AB=0.509608;ABP=4.05347;AC=30;AF=0.714286;AN=42;AO=1691;CIGAR=1X;DP=2336;DPB=2336;DPRA=0;EPP=3571.48;EPPR=1386.29;GTI=0;LEN=1;MEANALT=1;MQM=59.8344;MQMR=59.9659;NS=21;NUMALT=1;ODDS=4.1478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60594;QR=23065;RO=645;RPL=1679;RPP=3571.48;RPPR=1386.29;RPR=12;RUN=1;SAF=0;SAP=3674.97;SAR=1691;SRF=0;SRP=1403.61;SRR=645;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:1,118:1:36:118:4222:-376.53,-32.2243,0 1/1:99:0,99:0:0:99:3552:-319.888,-29.802,0 0/1:139:71,68:71:2548:68:2444:-178.371,0,-187.727 0/1:122:55,67:55:1972:67:2404:-179.891,0,-141.029 0/1:240:121,119:121:4332:119:4276:-312.736,0,-317.738 0/1:55:32,23:32:1130:23:828:-58.2875,0,-85.4503 1/1:164:1,163:1:36:163:5844:-522.377,-45.7706,0 0/1:181:86,95:86:3084:95:3396:-251.323,0,-223.301 0/1:179:93,86:93:3313:86:3064:-222.104,0,-244.503 0/1:21:9,12:9:320:12:432:-32.8664,0,-22.8207 0/1:7:2,5:2:72:5:172:-13.7108,0,-4.72951 0/1:29:6,23:6:216:23:824:-65.7534,0,-11.0606 1/1:121:0,121:0:0:121:4309:-387.979,-36.4246,0 0/1:117:57,60:57:2035:60:2160:-159.446,0,-148.201 1/1:186:1,185:1:36:185:6628:-591.537,-52.3933,0 1/1:107:2,105:2:72:105:3772:-332.835,-25.3735,0 1/1:127:1,126:1:36:126:4515:-402.398,-34.6325,0 0/1:151:83,68:83:2963:68:2448:-175.118,0,-221.448 0/1:60:23,37:23:828:37:1324:-101.4,0,-56.7823 1/1:65:1,64:1:36:64:2296:-203.303,-15.9687,0 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 chr11 3563633 . A G 10718.2 PASS AB=0.525926;ABP=4.58663;AC=30;AF=0.714286;AN=42;AO=444;CIGAR=1X;DP=576;DPB=576;DPRA=0;EPP=222.818;EPPR=111.766;GTI=0;LEN=1;MEANALT=1.04762;MQM=40.0743;MQMR=42.542;NS=21;NUMALT=1;ODDS=1.47386;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15799;QR=4688;RO=131;RPL=328;RPP=222.818;RPPR=111.766;RPR=116;RUN=1;SAF=0;SAP=967.144;SAR=444;SRF=0;SRP=287.473;SRR=131;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:2,63:2:72:63:2247:-183.832,-13.4818,0 1/1:34:0,34:0:0:34:1215:-106.979,-10.235,0 0/1:12:7,5:7:252:5:180:-12.1362,0,-18.8049 0/1:7:2,5:2:72:5:176:-13.363,0,-4.54792 0/1:61:22,39:22:792:39:1396:-100.016,0,-51.3989 0/1:39:20,19:20:716:19:670:-47.853,0,-51.7574 1/1:43:0,43:0:0:43:1522:-134.731,-12.9443,0 0/1:23:11,12:11:388:12:432:-30.7303,0,-26.9992 0/1:47:23,24:23:820:24:860:-59.8981,0,-56.8968 0/1:7:4,3:4:140:3:108:-7.56536,0,-10.5929 0/1:6:3,3:3:108:3:104:-7.75646,0,-8.18089 0/1:15:9,6:9:324:6:216:-14.4842,0,-24.3568 1/1:17:0,17:0:0:17:603:-51.4981,-5.11751,0 0/1:27:13,14:13:464:14:496:-35.2469,0,-32.9084 1/1:56:0,55:0:0:55:1939:-166.177,-16.5567,0 1/1:21:0,21:0:0:21:756:-65.1927,-6.32163,0 1/1:45:0,45:0:0:45:1587:-136.05,-13.5464,0 0/1:16:7,9:7:252:9:324:-23.4779,0,-17.718 0/1:10:7,3:7:252:3:108:-6.57578,0,-19.407 1/1:15:0,15:0:0:15:540:-45.8284,-4.51545,0 1/1:10:1,9:1:36:9:320:-25.685,-0.0295481,0 chr11 3570315 . G T 2430.11 PASS AB=0.501684;ABP=3.02492;AC=12;AF=0.285714;AN=42;AO=300;CIGAR=1X;DP=1191;DPB=1191;DPRA=0.777897;EPP=654.452;EPPR=1937.79;GTI=1;LEN=1;MEANALT=1;MQM=31.2867;MQMR=49.1313;NS=21;NUMALT=1;ODDS=6.04815;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10776;QR=31667;RO=891;RPL=300;RPP=654.452;RPPR=1937.79;RPR=0;RUN=1;SAF=0;SAP=654.452;SAR=300;SRF=0;SRP=1937.79;SRR=891;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:97:97,0:97:3447:0:0:0,-29.1999,-297.791 0/0:67:67,0:67:2388:0:0:0,-20.169,-215.178 0/1:32:16,16:16:576:16:576:-24.6017,0,-40.3965 0/1:78:33,45:33:1176:45:1608:-69.1309,0,-78.5406 0/1:129:63,66:63:2231:66:2376:-98.114,0,-151.863 0/1:64:34,30:34:1196:30:1076:-77.7514,0,-88.6794 0/0:68:68,0:68:2432:0:0:0,-20.47,-219.136 0/1:25:15,10:15:540:10:356:-14.5517,0,-39.5857 0/1:83:43,40:43:1523:40:1440:-104.732,0,-112.377 0/1:11:9,2:9:320:2:68:-0.989902,0,-24.7254 0/1:4:2,2:2:64:2:72:-5.62291,0,-4.87457 0/1:26:10,16:10:360:16:576:-26.4079,0,-23.8708 0/0:54:54,0:54:1915:0:0:0,-16.2556,-165.631 0/1:51:25,26:25:879:26:936:-39.3757,0,-60.6083 0/0:87:86,1:86:3060:1:36:0,-23.9107,-263.157 0/0:53:53,0:53:1888:0:0:0,-15.9546,-170.198 0/0:87:87,0:87:3112:0:0:0,-26.1896,-280.307 0/1:64:31,33:31:1104:33:1188:-52.2048,0,-76.7271 0/1:27:15,12:15:510:12:432:-16.7118,0,-36.5808 0/0:44:43,1:43:1544:1:36:0,-10.9665,-130.871 0/0:40:40,0:40:1402:0:0:0,-12.0412,-126.476 chr11 3597010 . TTGGAT GTGGCAT,GTGGCAC 63518.4 PASS AB=0.515476,0.473214;ABP=6.50534,13.4799;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2245,800;CIGAR=1X3M1I2M,1X3M1I1M1X;DP=3084;DPB=3597.67;DPRA=0,1.0445;EPP=4817.35,1697.03;EPPR=0;GTI=0;LEN=7,7;MEANALT=3.28571,3.66667;MQM=59.9746,59.6938;MQMR=0;NS=21;NUMALT=2;ODDS=5.58975;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=78538,27825;QR=0;RO=0;RPL=7,5;RPP=4817.35,1697.03;RPPR=0;RPR=2238,795;RUN=1,1;SAF=2245,800;SAP=4877.97,1740.19;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:255:0,253,0:0:0:253,0:8829,0:-794.365,-76.1606,0,-794.365,-76.1606,-794.365 1/1:94:0,91,0:0:0:91,0:3214,0:-289.183,-27.3937,0,-289.183,-27.3937,-289.183 1/2:176:0,94,82:0:0:94,82:3238,2855:-495.507,-232.507,-204.21,-263.347,0,-238.663 1/2:113:0,61,52:0:0:61,52:2118,1784:-317.365,-145.185,-126.822,-172.525,0,-156.871 1/2:325:0,165,157:0:0:165,157:5766,5454:-912.428,-443.382,-393.712,-469.083,0,-421.821 1/2:124:0,81,42:0:0:81,42:2858,1478:-352.998,-120.311,-95.928,-232.679,0,-220.036 1/1:178:0,177,0:0:0:177,0:6144,0:-552.763,-53.2823,0,-552.763,-53.2823,-552.763 1/2:157:0,80,72:0:0:80,72:2776,2495:-428.492,-202.836,-178.753,-225.716,0,-204.042 1/2:234:0,138,94:0:0:138,94:4846,3266:-659.81,-265.4,-223.858,-394.424,0,-366.127 1/2:53:0,32,21:0:0:32,21:1133,738:-152.713,-60.4213,-50.7884,-92.6439,0,-86.3222 1/2:11:0,5,4:0:0:5,4:180,131:-25.2611,-10.5634,-9.05827,-14.6907,0,-13.4866 1/2:29:0,9,19:0:0:9,19:316,678:-80.9854,-55.2696,-52.5603,-25.7096,0,-19.99 1/1:142:0,142,0:0:0:142,0:4966,0:-447.096,-42.7463,0,-447.096,-42.7463,-447.096 1/2:167:0,74,92:0:0:74,92:2562,3162:-465.073,-256.862,-234.586,-208.334,0,-180.639 1/1:290:0,285,1:0:0:285,1:10058,36:-904.828,-85.7936,0,-901.891,-82.8516,-901.59 1/1:109:0,109,0:0:0:109,0:3828,0:-344.72,-32.8123,0,-344.72,-32.8123,-344.72 1/1:126:0,119,3:0:0:119,3:4166,102:-374.808,-35.8226,0,-366.534,-27.5327,-365.631 1/2:188:0,73,111:0:0:73,111:2545,3884:-522.968,-315.992,-294.016,-206.977,0,-173.563 1/2:103:0,54,49:0:0:54,49:1901,1726:-295.259,-140.501,-124.245,-155.11,0,-140.36 1/1:134:0,129,1:0:0:129,1:4515,36:-406.163,-38.8329,0,-403.226,-35.8955,-402.925 1/1:76:0,74,0:0:0:74,0:2579,0:-232.033,-22.2762,0,-232.033,-22.2762,-232.033 chr11 3608285 . G A 8374.71 PASS AB=0.485465;ABP=4.90403;AC=12;AF=0.285714;AN=42;AO=506;CIGAR=1X;DP=1931;DPB=1931;DPRA=0.876694;EPP=1101.78;EPPR=2923.91;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9747;NS=21;NUMALT=1;ODDS=20.4236;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18160;QR=51020;RO=1424;RPL=506;RPP=1101.78;RPPR=2923.91;RPR=0;RUN=1;SAF=0;SAP=1101.78;SAR=506;SRF=0;SRP=3095.19;SRR=1424;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:91,0:91:3267:0:0:0,-27.3937,-294.249 0/0:89:89,0:89:3187:0:0:0,-26.7917,-287.053 0/1:84:39,45:39:1404:45:1620:-120.803,0,-101.373 0/1:140:65,75:65:2327:75:2688:-200.02,0,-167.545 0/1:122:53,68:53:1892:68:2436:-182.859,0,-133.893 0/1:146:70,76:70:2516:76:2728:-201.812,0,-182.741 0/0:167:167,0:167:5970:0:0:0,-50.272,-537.406 0/1:105:54,51:54:1932:51:1832:-133.553,0,-142.548 0/1:96:55,41:55:1972:41:1468:-103.517,0,-148.856 0/1:20:8,12:8:288:12:432:-33.2006,0,-20.2468 0/1:8:2,6:2:68:6:216:-17.3823,0,-4.04947 0/1:61:38,23:38:1364:23:828:-56.4813,0,-104.698 0/0:147:147,0:147:5275:0:0:0,-44.2514,-474.884 0/1:101:66,35:66:2351:35:1256:-82.9413,0,-181.217 0/0:164:163,1:163:5848:1:36:0,-45.7706,-522.832 0/0:46:45,1:45:1616:1:36:0,-10.2491,-142.132 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/1:99:47,52:47:1688:52:1864:-138.237,0,-122.405 0/1:50:33,17:33:1180:17:612:-40.3619,0,-91.4565 0/0:84:81,3:81:2908:3:108:0,-15.2113,-251.88 0/0:62:62,0:62:2207:0:0:0,-18.6639,-198.895 chr11 3645397 . G A 5836.48 PASS AB=0.521021;ABP=5.56651;AC=12;AF=0.285714;AN=42;AO=348;CIGAR=1X;DP=1289;DPB=1289;DPRA=0.806176;EPP=758.683;EPPR=2046.37;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.71548;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12413;QR=33644;RO=941;RPL=348;RPP=758.683;RPPR=2046.37;RPR=0;RUN=1;SAF=0;SAP=758.683;SAR=348;SRF=0;SRP=2046.37;SRR=941;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:89:89,0:89:3188:0:0:0,-26.7917,-287.144 0/0:60:60,0:60:2137:0:0:0,-18.0618,-192.596 0/1:47:17,30:17:608:30:1076:-83.0044,0,-40.9036 0/1:41:19,22:19:680:22:788:-58.9026,0,-49.1869 0/1:95:43,52:43:1548:52:1853:-138.45,0,-111.015 0/1:45:22,23:22:792:23:813:-59.9428,0,-58.0593 0/0:88:88,0:88:3141:0:0:0,-26.4906,-282.914 0/1:65:24,41:24:845:41:1468:-112.849,0,-56.8001 0/1:123:59,64:59:2116:64:2277:-168.164,0,-153.682 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/1:28:15,13:15:536:13:468:-34.0308,0,-40.146 0/0:68:68,0:68:2424:0:0:0,-20.47,-218.416 0/1:87:30,57:30:1072:57:2026:-156.423,0,-70.6028 0/0:100:100,0:100:3553:0:0:0,-30.103,-319.976 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 0/0:72:72,0:72:2576:0:0:0,-21.6742,-232.09 0/1:69:45,24:45:1612:24:856:-56.59,0,-124.599 0/1:50:35,15:35:1252:15:540:-33.885,0,-97.9336 0/0:65:64,1:64:2304:1:36:0,-15.9687,-204.022 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 chr11 3645409 . T A 5813.83 PASS AB=0.521936;ABP=5.7731;AC=12;AF=0.285714;AN=42;AO=350;CIGAR=1X;DP=1278;DPB=1278;DPRA=0.723516;EPP=763.026;EPPR=2018.14;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.94995;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12494;QR=33169;RO=928;RPL=350;RPP=763.026;RPPR=2000.8;RPR=0;RUN=1;SAF=0;SAP=763.026;SAR=350;SRF=2;SRP=2000.8;SRR=926;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:89:89,0:89:3169:0:0:0,-26.7917,-285.434 0/0:58:56,2:56:2008:2:72:0,-10.623,-174.157 0/1:48:17,31:17:608:31:1108:-85.5816,0,-40.6026 0/1:41:19,22:19:684:22:784:-58.5417,0,-49.5481 0/1:93:42,51:42:1504:51:1828:-136.805,0,-107.659 0/1:44:22,22:22:792:22:792:-58.3604,0,-58.3604 0/0:85:85,0:85:3021:0:0:0,-25.5875,-272.12 0/1:63:23,40:23:813:40:1428:-109.853,0,-54.5242 0/1:123:60,63:60:2137:63:2226:-163.574,0,-155.57 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:27:15,12:15:540:12:432:-31.0934,0,-40.8087 0/0:67:67,0:67:2404:0:0:0,-20.169,-216.616 0/1:89:30,59:30:1064:59:2104:-162.838,0,-69.28 0/0:100:100,0:100:3573:0:0:0,-30.103,-321.776 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.015 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 0/1:68:43,25:43:1544:25:892:-60.1296,0,-118.783 0/1:49:35,14:35:1252:14:504:-30.9476,0,-98.2346 0/0:66:64,2:64:2284:2:72:0,-13.0313,-198.985 0/0:38:37,1:37:1320:1:36:0,-7.84086,-115.504 chr11 3722265 . A C 11390.3 PASS AB=0.445759;ABP=15.9663;AC=30;AF=0.714286;AN=42;AO=577;CIGAR=1X;DP=862;DPB=862;DPRA=0;EPP=1247.28;EPPR=604.63;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.21156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20364;QR=10223;RO=285;RPL=576;RPP=1247.28;RPPR=604.63;RPR=1;RUN=1;SAF=577;SAP=1255.95;SAR=0;SRF=285;SRP=621.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:1,56:1:36:56:1983:-175.143,-13.5604,0 1/1:9:0,9:0:0:9:320:-29.1424,-2.70927,0 0/1:73:43,30:43:1544:30:1072:-74.8173,0,-117.278 0/1:31:20,11:20:720:11:392:-26.2881,0,-55.7968 0/1:56:30,26:30:1072:26:919:-66.1685,0,-79.9348 0/1:31:19,12:19:680:12:428:-29.5269,0,-52.1972 1/1:54:1,53:1:36:53:1904:-168.039,-12.6573,0 0/1:29:9,20:9:320:20:716:-56.0378,0,-20.4125 0/1:83:47,36:47:1688:36:1292:-91.5983,0,-127.221 0/1:11:7,4:7:252:4:140:-9.63325,0,-19.7176 0/1:8:5,3:5:180:3:104:-7.29457,0,-14.1438 0/1:26:13,13:13:468:13:464:-34.2707,0,-34.6329 1/1:69:1,68:1:36:68:2376:-210.497,-17.1728,0 0/1:67:36,31:36:1296:31:1088:-78.0575,0,-96.7749 1/1:66:0,66:0:0:66:2314:-208.516,-19.868,0 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 1/1:8:0,8:0:0:8:264:-24.0803,-2.40824,0 0/1:55:35,20:35:1247:20:686:-45.4991,0,-95.9774 0/1:37:17,20:17:612:20:712:-53.2685,0,-44.2753 1/1:60:1,59:1:36:59:2079:-183.779,-14.4635,0 1/1:22:0,22:0:0:22:759:-68.6277,-6.62266,0 chr11 3729688 . T C 10859.5 PASS AB=0.469314;ABP=14.338;AC=12;AF=0.285714;AN=42;AO=655;CIGAR=1X;DP=2455;DPB=2455;DPRA=0.983099;EPP=1382.23;EPPR=3731.38;GTI=0;LEN=1;MEANALT=1;MQM=59.8947;MQMR=59.9783;NS=21;NUMALT=1;ODDS=12.9661;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23318;QR=64381;RO=1800;RPL=5;RPP=1382.23;RPPR=3731.38;RPR=650;RUN=1;SAF=0;SAP=1425.32;SAR=655;SRF=0;SRP=3911.66;SRR=1800;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:149:149,0:149:5337:0:0:0,-44.8535,-480.461 0/0:96:96,0:96:3421:0:0:0,-28.8989,-308.103 0/1:128:57,71:57:2044:71:2533:-189.677,0,-145.7 0/1:96:50,46:50:1796:46:1640:-118.99,0,-133.023 0/1:271:125,146:125:4480:146:5215:-387.91,0,-321.761 0/1:136:75,61:75:2692:61:2184:-155.883,0,-201.583 0/0:147:146,1:146:5216:1:36:0,-40.6531,-465.979 0/1:119:61,58:61:2180:58:2072:-150.883,0,-160.644 0/1:247:146,101:146:5228:101:3582:-248.215,0,-396.303 0/1:16:5,11:5:176:11:396:-31.1663,0,-11.3685 0/1:14:9,5:9:324:5:180:-12.3236,0,-25.2914 0/1:42:24,18:24:845:18:635:-44.8337,0,-63.7238 0/0:121:121,0:121:4328:0:0:0,-36.4246,-389.696 0/1:124:68,56:68:2412:56:1986:-141.684,0,-180.007 0/0:207:207,0:207:7405:0:0:0,-62.3132,-666.467 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/0:98:97,1:97:3476:1:36:0,-25.9027,-309.435 0/1:86:47,39:47:1692:39:1384:-98.9634,0,-126.678 0/1:106:68,38:68:2435:38:1346:-89.5295,0,-187.495 0/0:115:112,3:112:3997:3:93:0,-25.9417,-351.242 0/0:60:60,0:60:2133:0:0:0,-18.0618,-192.236 chr11 3729715 . 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A G 16375.9 PASS AB=0.486855;ABP=6.09307;AC=12;AF=0.285714;AN=42;AO=1002;CIGAR=1X;DP=3564;DPB=3564;DPRA=1.03864;EPP=2178.83;EPPR=5561.98;GTI=0;LEN=1;MEANALT=1.07692;MQM=60;MQMR=59.975;NS=21;NUMALT=1;ODDS=9.62458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35365;QR=90486;RO=2560;RPL=0;RPP=2178.83;RPPR=5553.3;RPR=1002;RUN=1;SAF=0;SAP=2178.83;SAR=1002;SRF=1;SRP=5553.3;SRR=2559;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:139:139,0:139:4917:0:0:0,-41.8432,-442.683 0/0:124:124,0:124:4385:0:0:0,-37.3277,-394.827 0/1:189:75,113:75:2696:113:4023:-305.305,0,-185.844 0/1:201:107,94:107:3767:94:3323:-238.781,0,-278.72 0/1:400:190,210:190:6718:210:7403:-545.91,0,-484.28 0/1:188:104,84:104:3681:84:2988:-212.56,0,-274.901 0/0:194:194,0:194:6834:0:0:0,-58.3998,-615.136 0/1:194:81,113:81:2886:113:3976:-299.632,0,-201.576 0/1:365:195,170:195:6947:170:6009:-431.042,0,-515.418 0/1:16:7,9:7:252:9:320:-24.3259,0,-18.2125 0/1:11:8,3:8:284:3:108:-6.76384,0,-22.592 0/1:38:22,16:22:784:16:567:-39.9222,0,-59.4448 0/0:190:190,0:190:6735:0:0:0,-57.1957,-606.227 0/1:213:128,85:128:4522:85:2932:-199.995,0,-343.026 0/0:285:284,0:284:9948:0:0:0,-85.4925,-894.917 0/0:167:167,0:167:5933:0:0:0,-50.272,-534.081 0/0:166:166,0:166:5876:0:0:0,-49.971,-528.956 0/1:131:64,67:64:2218:67:2365:-173.673,0,-160.448 0/1:108:72,36:72:2550:36:1279:-82.9012,0,-197.239 0/0:184:182,2:182:6390:2:72:0,-48.5528,-568.355 0/0:61:61,0:61:2163:0:0:0,-18.3628,-194.937 chr11 3903388 . C T 26571.2 PASS AB=0.473705;ABP=17.97;AC=12;AF=0.285714;AN=42;AO=1185;CIGAR=1X;DP=4697;DPB=4697;DPRA=0.837823;EPP=2567.53;EPPR=7614.02;GTI=0;LEN=1;MEANALT=1.125;MQM=59.9738;MQMR=59.9946;NS=21;NUMALT=1;ODDS=31.3039;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42243;QR=123922;RO=3509;RPL=599;RPP=3.31999;RPPR=21.5312;RPR=586;RUN=1;SAF=598;SAP=3.23203;SAR=587;SRF=1667;SRP=21.962;SRR=1842;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:221:221,0:221:7729:0:0:0,-66.5276,-695.651 0/0:192:192,0:192:6830:0:0:0,-57.7978,-614.772 0/1:202:94,108:94:3315:108:3850:-285.885,0,-237.759 0/1:253:130,123:130:4632:123:4424:-322.169,0,-340.882 0/1:461:217,244:217:7696:244:8687:-643.048,0,-553.901 0/1:232:109,122:109:3848:122:4314:-318.537,0,-276.618 0/0:343:342,1:342:12029:1:36:0,-99.655,-1078.87 0/1:253:132,121:132:4640:121:4316:-312.455,0,-341.604 0/1:403:219,184:219:7732:184:6549:-468.162,0,-574.602 0/1:23:13,10:13:451:10:360:-25.8206,0,-33.9961 0/1:12:4,8:4:140:8:284:-22.291,0,-9.33222 0/1:58:40,18:40:1421:18:648:-41.1921,0,-110.726 0/0:368:367,0:367:12940:0:0:0,-110.478,-1164.07 0/1:223:116,107:116:4102:107:3813:-276.236,0,-302.234 0/0:368:368,0:368:12990:0:0:0,-110.779,-1168.92 0/0:222:220,1:220:7836:1:36:0,-63.2193,-701.742 0/0:127:127,0:127:4527:0:0:0,-38.2308,-407.599 0/1:169:94,75:94:3310:75:2666:-189.309,0,-247.245 0/1:202:142,60:142:5048:60:2156:-133.499,0,-393.659 0/0:241:239,2:239:8397:2:68:0,-66.0905,-749.285 0/0:124:123,1:123:4309:1:36:0,-33.7294,-384.384 chr11 3936127 . A G 7603.66 PASS AB=0.48377;ABP=5.19542;AC=12;AF=0.285714;AN=42;AO=466;CIGAR=1X;DP=1661;DPB=1661;DPRA=1.39084;EPP=1014.92;EPPR=2578.41;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9598;NS=21;NUMALT=1;ODDS=12.6707;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16605;QR=42508;RO=1194;RPL=0;RPP=1014.92;RPPR=2578.41;RPR=466;RUN=1;SAF=466;SAP=1014.92;SAR=0;SRF=1194;SRP=2595.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:73,1:73:2585:1:36:0,-18.6779,-228.111 0/0:36:36,0:36:1280:0:0:0,-10.8371,-115.503 0/1:96:60,36:60:2152:36:1288:-87.3247,0,-165.048 0/1:87:49,38:49:1752:38:1356:-96.1509,0,-131.775 0/1:145:59,86:59:2112:86:3068:-232.7,0,-146.7 0/1:53:32,21:32:1137:21:756:-52.4126,0,-86.6824 0/0:89:89,0:89:3155:0:0:0,-26.7917,-284.177 0/1:68:29,39:29:1032:39:1396:-105.469,0,-72.7234 0/1:203:114,89:114:4052:89:3149:-222.526,0,-303.761 0/1:12:4,8:4:136:8:288:-22.655,0,-8.96318 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:19:7,12:7:252:12:428:-33.1392,0,-17.3094 0/0:138:137,1:137:4893:1:36:0,-37.9439,-436.923 0/1:117:54,62:54:1897:62:2212:-164.066,0,-135.727 0/0:149:149,0:149:5302:0:0:0,-44.8535,-477.297 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3154 0/1:71:34,37:34:1212:37:1324:-98.089,0,-88.0132 0/1:78:49,29:49:1739:29:1016:-68.2695,0,-133.313 0/0:123:121,2:121:4312:2:72:0,-30.19,-381.422 0/0:42:42,0:42:1500:0:0:0,-12.6433,-135.295 chr11 4006373 . C A 8401.25 PASS AB=0.429001;ABP=61.2877;AC=12;AF=0.285714;AN=42;AO=581;CIGAR=1X;DP=2536;DPB=2536;DPRA=1.28691;EPP=1264.64;EPPR=4246.07;GTI=2;LEN=1;MEANALT=1.05882;MQM=41.0069;MQMR=54.0931;NS=21;NUMALT=1;ODDS=4.76794;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20843;QR=69295;RO=1954;RPL=581;RPP=1264.64;RPPR=4237.39;RPR=0;RUN=1;SAF=581;SAP=1264.64;SAR=0;SRF=1953;SRP=4237.39;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:142:138,4:138:4909:4:144:0,-29.7863,-428.441 0/0:119:119,0:119:4229:0:0:0,-35.8226,-378.449 0/1:123:75,48:75:2635:48:1720:-112.339,0,-199.142 0/1:136:62,74:62:2192:74:2664:-192.355,0,-155.651 0/1:180:104,76:104:3715:76:2724:-184.071,0,-279.283 0/1:147:90,57:90:3177:57:2048:-128.927,0,-240.354 0/0:196:195,1:195:6908:1:36:0,-55.5783,-615.361 0/1:174:101,73:101:3593:73:2615:-170.007,0,-270.327 0/1:193:85,108:85:3022:108:3876:-282.596,0,-213.79 0/1:8:6,2:6:216:2:72:-4.15529,0,-17.3542 0/1:6:5,1:5:180:1:36:-1.58142,0,-14.7043 0/1:34:14,20:14:500:20:712:-51.6044,0,-34.9105 0/0:176:175,1:175:6246:1:36:0,-49.4786,-558.129 0/1:135:76,59:76:2703:59:2120:-143.695,0,-202.441 0/0:192:189,2:189:6732:2:72:0,-51.338,-597.443 0/0:99:99,0:99:3481:0:0:0,-29.802,-313.197 0/0:78:78,0:78:2757:0:0:0,-23.4803,-248.113 0/1:122:96,26:96:3383:26:932:-43.0753,0,-267.093 0/1:73:46,27:46:1630:27:964:-62.6134,0,-124.768 0/0:107:105,2:105:3710:2:72:0,-25.6467,-326.81 0/0:96:96,0:96:3377:0:0:0,-28.8989,-302.77 chr11 4075156 . T G 7205.58 PASS AB=0.525245;ABP=10.9043;AC=21;AF=0.5;AN=42;AO=749;CIGAR=1X;DP=1426;DPB=1426;DPRA=0;EPP=1629.44;EPPR=1473.1;GTI=0;LEN=1;MEANALT=1;MQM=28.1589;MQMR=59.387;NS=21;NUMALT=1;ODDS=28.5948;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26792;QR=24264;RO=677;RPL=0;RPP=1629.44;RPPR=1473.1;RPR=749;RUN=1;SAF=749;SAP=1629.44;SAR=0;SRF=677;SRP=1473.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:91:47,44:47:1684:44:1580:-81.1599,0,-124.453 0/1:57:24,33:24:864:33:1180:-64.0958,0,-60.9239 0/1:29:17,12:17:612:12:413:-20.3715,0,-46.6836 0/1:108:47,61:47:1688:61:2165:-116.671,0,-118.332 0/1:95:42,53:42:1500:53:1900:-102.046,0,-104.342 0/1:76:43,33:43:1540:33:1188:-58.6605,0,-115.909 0/1:76:36,40:36:1288:40:1432:-76.4845,0,-93.2058 0/1:49:23,26:23:828:26:936:-49.5503,0,-59.9873 0/1:112:65,47:65:2324:47:1676:-82.0054,0,-175.606 0/1:7:5,2:5:180:2:72:-3.09157,0,-14.4449 0/1:11:6,5:6:216:5:180:-9.2752,0,-16.4792 0/1:13:6,7:6:212:7:248:-13.5237,0,-15.5114 0/1:65:28,37:28:1000:37:1328:-71.7486,0,-70.7484 0/1:64:28,36:28:1000:36:1292:-69.587,0,-70.9098 0/1:71:33,38:33:1184:38:1360:-73.0989,0,-85.4254 0/1:60:29,31:29:1040:31:1112:-58.9659,0,-75.7828 0/1:37:17,20:17:608:20:690:-37.1641,0,-43.9139 0/1:96:39,57:39:1392:57:2048:-111.709,0,-96.574 0/1:114:50,64:50:1796:64:2292:-124.349,0,-126.774 0/1:62:30,32:30:1076:32:1152:-60.4124,0,-76.2311 0/1:133:62,71:62:2232:71:2548:-134.854,0,-161.107 chr11 4075183 . CAA TAC 5101.28 PASS AB=0.366893;ABP=320.953;AC=21;AF=0.5;AN=42;AO=758;CIGAR=1X1M1X;DP=2066;DPB=2066;DPRA=0;EPP=1648.99;EPPR=7.8736;GTI=3;LEN=3;MEANALT=1.2381;MQM=28.1504;MQMR=52.8195;NS=21;NUMALT=1;ODDS=2.06429;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26675;QR=45585;RO=1302;RPL=758;RPP=1648.99;RPPR=2804.27;RPR=0;RUN=1;SAF=758;SAP=1648.99;SAR=0;SRF=681;SRP=9.01437;SRR=621;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:118:75,43:75:2613:43:1503:-69.2666,0,-198.806 0/1:64:30,34:30:1056:34:1185:-63.7367,0,-75.904 0/1:47:35,12:35:1226:12:423:-15.413,0,-95.8601 0/1:120:55,63:55:1960:63:2205:-117.84,0,-140.464 0/1:168:114,54:114:3980:54:1920:-82.2451,0,-302.804 0/1:95:61,34:61:2088:34:1214:-55.2528,0,-159.021 0/1:120:80,39:80:2840:39:1336:-58.2868,0,-215.776 0/1:71:45,26:45:1566:26:891:-41.7619,0,-119.033 0/1:154:107,47:107:3740:47:1645:-68.3433,0,-288.569 0/1:9:7,2:7:231:2:72:-2.48951,0,-18.3298 0/1:15:10,5:10:339:5:178:-8.04036,0,-26.2035 0/1:14:7,7:7:250:7:242:-13.0502,0,-18.6323 0/1:85:47,38:47:1668:38:1347:-67.7886,0,-124.033 0/1:97:61,36:61:2135:36:1251:-58.3121,0,-161.813 0/1:115:76,39:76:2693:39:1375:-61.7418,0,-205.286 0/1:78:47,31:47:1651:31:1100:-53.4734,0,-124.631 0/1:56:36,20:36:1256:20:710:-32.6926,0,-95.6818 0/1:192:133,57:133:4598:57:2016:-82.3731,0,-353.48 0/1:180:116,64:116:4073:64:2265:-103.699,0,-309.897 0/1:80:45,34:45:1583:34:1205:-59.7392,0,-118.336 0/1:188:115,73:115:4039:73:2592:-122.64,0,-305.337 chr11 4075198 . CTC ATT 5125.05 PASS AB=0.368062;ABP=313.575;AC=21;AF=0.5;AN=42;AO=756;CIGAR=1X1M1X;DP=2054;DPB=2054.67;DPRA=0;EPP=1635.97;EPPR=10.7579;GTI=3;LEN=3;MEANALT=1.04762;MQM=28.0542;MQMR=52.8164;NS=21;NUMALT=1;ODDS=2.20551;PAIRED=0;PAIREDR=0;PAO=2;PQA=63;PQR=0;PRO=0;QA=26481;QR=45338;RO=1296;RPL=756;RPP=1644.64;RPPR=2748.18;RPR=0;RUN=1;SAF=755;SAP=1635.97;SAR=1;SRF=674;SRP=7.5409;SRR=622;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:75,44:75:2617:44:1562:-72.4027,0,-198.623 0/1:64:30,34:30:1041:34:1169:-63.3543,0,-74.5772 0/1:47:35,12:35:1225:12:415:-15.1979,0,-95.6936 0/1:120:56,64:56:1964:64:2219:-120.174,0,-140.505 0/1:165:111,54:111:3888:54:1911:-83.0175,0,-297.296 0/1:95:61,34:61:2126:34:1208:-55.0691,0,-162.374 0/1:119:77,40:77:2720:40:1409:-63.1895,0,-208.008 0/1:69:43,26:43:1483:26:888:-42.0355,0,-112.311 0/1:154:107,47:107:3788:47:1634:-68.0701,0,-292.873 0/1:9:7,2:7:242:2:72:-2.48951,0,-19.3343 0/1:15:10,5:10:345:5:172:-7.85314,0,-26.7349 0/1:14:7,7:7:223:7:242:-13.0502,0,-16.1675 0/1:85:47,38:47:1599:38:1316:-66.9673,0,-117.869 0/1:97:61,36:61:2144:36:1267:-59.0609,0,-162.565 0/1:114:76,38:76:2696:38:1330:-58.6071,0,-205.817 0/1:78:48,30:48:1682:30:1059:-50.1347,0,-127.422 0/1:55:36,19:36:1258:19:669:-29.827,0,-95.7765 0/1:192:135,57:135:4715:57:2010:-82.0514,0,-363.268 0/1:179:117,62:117:4117:62:2182:-97.6401,0,-313.384 0/1:80:46,34:46:1605:34:1216:-59.9488,0,-117.837 0/1:184:111,73:111:3860:73:2531:-122.345,0,-290.513 chr11 4114040 . T A 20728.3 PASS AB=0.452656;ABP=19.8706;AC=28;AF=0.666667;AN=42;AO=1019;CIGAR=1X;DP=1668;DPB=1668;DPRA=0;EPP=2207.06;EPPR=492.007;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9872;MQMR=59.5772;NS=21;NUMALT=1;ODDS=4.57241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36512;QR=23175;RO=648;RPL=1;RPP=2207.06;RPPR=1358.49;RPR=1018;RUN=1;SAF=1019;SAP=2215.74;SAR=0;SRF=521;SRP=523.212;SRR=127;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:1,129:1:36:129:4616:-412.004,-35.5356,0 1/1:48:0,48:0:0:48:1728:-155.805,-14.4494,0 0/1:35:7,28:7:252:28:989:-78.786,0,-12.4929 0/1:42:15,27:15:536:27:949:-73.0795,0,-35.9251 0/1:145:29,116:29:1036:116:4164:-331.292,0,-49.9 0/1:64:26,37:26:936:37:1320:-99.7787,0,-65.2366 1/1:69:0,69:0:0:69:2476:-223.093,-20.7711,0 0/1:34:15,19:15:540:19:684:-51.6553,0,-38.7015 0/1:101:32,69:32:1140:69:2468:-191.97,0,-72.4962 0/0:106:102,4:102:3652:4:144:0,-18.5956,-315.392 0/0:74:71,3:71:2526:3:108:0,-12.201,-217.474 0/1:27:22,5:22:779:5:180:-8.42425,0,-62.2879 1/1:62:0,62:0:0:62:2232:-201.144,-18.6639,0 0/1:36:16,20:16:567:20:720:-54.2917,0,-40.5213 1/1:152:1,151:1:36:151:5420:-484.327,-42.1583,0 1/1:54:0,54:0:0:54:1926:-173.612,-16.2556,0 1/1:26:0,26:0:0:26:936:-84.5595,-7.82678,0 0/1:321:282,39:282:10107:39:1396:-29.3085,0,-812.094 0/1:61:29,32:29:1032:32:1148:-85.267,0,-74.8306 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 chr11 4114047 . C T 14830.9 PASS AB=0.545349;ABP=18.3722;AC=14;AF=0.333333;AN=42;AO=644;CIGAR=1X;DP=1666;DPB=1666;DPRA=1.92857;EPP=469.621;EPPR=2209.23;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.5885;MQMR=59.9873;NS=21;NUMALT=1;ODDS=5.51132;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23010;QR=36531;RO=1020;RPL=6;RPP=1349.81;RPPR=2209.23;RPR=638;RUN=1;SAF=514;SAP=500.21;SAR=130;SRF=1020;SRP=2217.91;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:131:129,1:129:4609:1:36:0,-35.8955,-411.373 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.324 0/1:35:28,7:28:1004:7:252:-12.4929,0,-80.1398 0/1:44:27,17:27:972:17:604:-41.436,0,-74.5526 0/1:142:114,27:114:4082:27:968:-44.6278,0,-324.76 0/1:65:37,28:37:1319:28:1000:-70.7308,0,-99.4442 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.453 0/1:35:19,16:19:684:16:568:-40.9158,0,-51.3543 0/1:99:68,31:68:2417:31:1108:-70.2201,0,-187.983 1/1:103:4,99:4:144:99:3522:-303.847,-17.6925,0 1/1:77:3,74:3:108:74:2644:-228.074,-13.1041,0 0/1:26:5,21:5:180:21:747:-59.7112,0,-8.72528 0/0:64:64,0:64:2287:0:0:0,-19.2659,-206.091 0/1:36:20,16:20:720:16:568:-40.6124,0,-54.2917 0/0:152:151,1:151:5415:1:36:0,-42.1583,-483.878 0/0:54:54,0:54:1931:0:0:0,-16.2556,-174.061 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/1:319:40,279:40:1427:279:9985:-801.858,0,-32.6982 0/1:59:32,27:32:1152:27:972:-70.0371,0,-86.2294 0/0:45:45,0:45:1620:0:0:0,-13.5463,-146.09 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 chr11 4114053 . 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G C 2824.07 PASS AB=0.309353;ABP=222.423;AC=12;AF=0.285714;AN=42;AO=216;CIGAR=1X;DP=1546;DPB=1546;DPRA=0.804592;EPP=321.533;EPPR=2743.13;GTI=3;LEN=1;MEANALT=1.07692;MQM=50.7685;MQMR=14.8713;NS=21;NUMALT=1;ODDS=1.82211;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7606;QR=47456;RO=1329;RPL=197;RPP=321.533;RPPR=2751.6;RPR=19;RUN=1;SAF=216;SAP=472.048;SAR=0;SRF=1328;SRP=2880.22;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:144:144,0:144:5145:0:0:0,-43.3483,-204.041 0/0:121:121,0:121:4348:0:0:0,-36.4246,-116.937 0/1:29:21,8:21:743:8:280:-16.7533,0,-22.9007 0/1:57:27,30:27:957:30:1072:-79.3872,0,-22.9695 0/1:177:129,48:129:4598:48:1698:-99.4085,0,-129.741 0/1:54:40,14:40:1421:14:479:-26.8324,0,-28.4936 0/0:67:67,0:67:2396:0:0:0,-20.169,-75.1854 0/1:85:52,32:52:1840:32:1126:-75.7481,0,-36.4697 0/1:72:55,17:55:1959:17:597:-32.3303,0,-56.3077 0/1:6:3,3:3:108:3:108:-8.22636,0,-1.54929 0/1:6:2,4:2:72:4:132:-10.3356,0,-0.658886 0/1:25:20,5:20:720:5:176:-8.5976,0,-14.165 0/0:75:75,0:75:2675:0:0:0,-22.5772,-107.291 0/1:52:43,9:43:1524:9:312:-12.7107,0,-47.3339 0/0:181:180,1:180:6440:1:36:0,-50.8972,-249.555 0/0:115:115,0:115:4108:0:0:0,-34.6184,-159.218 0/0:64:64,0:64:2287:0:0:0,-19.2659,-85.6089 0/1:52:31,21:31:1108:21:743:-49.7559,0,-19.0359 0/1:80:56,24:56:1999:24:847:-51.0639,0,-53.907 0/0:30:30,0:30:1072:0:0:0,-9.0309,-32.4718 0/0:54:54,0:54:1936:0:0:0,-16.2556,-52.3221 chr11 4134592 . C T 2760.29 PASS AB=0.679356;ABP=193.849;AC=30;AF=0.714286;AN=42;AO=1310;CIGAR=1X;DP=1532;DPB=1532;DPRA=0;EPP=2830.29;EPPR=482.906;GTI=6;LEN=1;MEANALT=1.04762;MQM=14.8382;MQMR=50.2308;NS=21;NUMALT=1;ODDS=2.05211;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46635;QR=7735;RO=221;RPL=1309;RPP=2838.96;RPPR=482.906;RPR=1;RUN=1;SAF=1309;SAP=2838.96;SAR=1;SRF=221;SRP=482.906;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:142:0,142:0:0:142:5034:-201.514,-42.7463,0 1/1:123:0,123:0:0:123:4375:-119.357,-37.0267,0 0/1:30:9,21:9:320:21:756:-22.6244,0,-20.0422 0/1:55:30,25:30:1058:25:896:-20.2841,0,-77.9701 0/1:176:48,128:48:1677:128:4550:-126.498,0,-97.8882 0/1:52:14,38:14:504:38:1340:-27.6409,0,-29.6284 1/1:71:0,71:0:0:71:2525:-81.0916,-21.3731,0 0/1:85:35,50:35:1215:50:1783:-32.6461,0,-82.8694 0/1:72:19,53:19:675:53:1896:-50.4724,0,-38.0083 0/1:6:3,3:3:108:3:108:-1.54929,0,-8.22636 0/1:5:3,2:3:108:2:72:-0.959916,0,-8.48192 0/1:26:5,21:5:161:21:743:-16.1154,0,-6.93166 1/1:75:0,75:0:0:75:2641:-106.958,-22.5773,0 0/1:46:8,37:8:280:37:1323:-39.3689,0,-11.6364 1/1:177:2,175:2:68:175:6236:-235.941,-47.4147,0 1/1:116:1,115:1:36:115:4117:-154.845,-31.9387,0 1/1:60:0,60:0:0:60:2145:-80.8091,-18.0618,0 0/1:51:22,29:22:756:29:1036:-17.1801,0,-51.2501 0/1:79:22,57:22:769:57:2042:-56.9643,0,-44.3951 1/1:29:0,29:0:0:29:1027:-31.207,-8.72987,0 1/1:56:0,56:0:0:56:1990:-54.3731,-16.8577,0 chr11 4134602 . C T 6702.62 PASS AB=0.412214;ABP=55.6229;AC=12;AF=0.285714;AN=42;AO=325;CIGAR=1X;DP=1625;DPB=1625;DPRA=0.895189;EPP=708.739;EPPR=2812.9;GTI=6;LEN=1;MEANALT=1;MQM=47.3846;MQMR=14.8413;NS=21;NUMALT=1;ODDS=2.26483;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11543;QR=45264;RO=1298;RPL=217;RPP=82.3926;RPPR=2821.58;RPR=108;RUN=1;SAF=217;SAP=82.3926;SAR=108;SRF=1297;SRP=2812.9;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:146,0:146:5034:0:0:0,-43.9504,-205.038 0/0:115:115,0:115:4017:0:0:0,-34.6184,-111.056 0/1:30:20,10:20:705:10:356:-23.273,0,-21.1957 0/1:56:25,31:25:888:31:1099:-82.1175,0,-20.5552 0/1:171:122,49:122:4282:49:1751:-106.028,0,-116.957 0/1:54:40,14:40:1373:14:488:-27.6463,0,-25.9044 0/0:69:69,0:69:2410:0:0:0,-20.7711,-78.3321 0/1:83:49,34:49:1720:34:1179:-80.9387,0,-31.8495 0/1:175:51,124:51:1783:124:4444:-331.641,0,-19.8378 0/1:7:3,4:3:99:4:144:-11.1501,0,-1.23794 0/1:4:2,2:2:72:2:72:-5.57282,0,-1.26095 0/1:25:20,5:20:698:5:180:-8.94134,0,-15.5056 0/0:74:74,0:74:2615:0:0:0,-22.2762,-105.754 0/1:52:43,9:43:1447:9:324:-13.7864,0,-46.4297 0/0:177:176,1:176:6139:1:36:0,-49.6931,-240.104 0/0:113:113,0:113:3981:0:0:0,-34.0164,-156.627 0/0:62:60,0:60:2089:0:0:0,-18.0618,-79.6698 0/1:49:30,19:30:1064:19:662:-43.843,0,-19.8817 0/1:80:57,23:57:1975:23:808:-47.5957,0,-57.0319 0/0:27:27,0:27:947:0:0:0,-8.12781,-29.0416 0/0:56:56,0:56:1926:0:0:0,-16.8577,-54.3018 chr11 4182951 . CAAAAGT CAAAGT 12712.6 PASS AB=0.460912;ABP=11.1586;AC=28;AF=0.666667;AN=42;AO=650;CIGAR=1M1D5M;DP=1008;DPB=915;DPRA=3.55;EPP=1345.84;EPPR=683.333;GTI=3;LEN=1;MEANALT=1.65;MQM=48.28;MQMR=58.8018;NS=21;NUMALT=1;ODDS=1.39569;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22800;QR=11650;RO=333;RPL=642;RPP=1345.84;RPPR=683.333;RPR=8;RUN=1;SAF=650;SAP=1414.47;SAR=0;SRF=333;SRP=726.111;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:1,46:1:36:46:1627:-142.329,-10.5518,0 1/1:42:0,42:0:0:42:1486:-132.378,-12.6433,0 0/1:37:25,11:25:863:11:362:-21.2006,0,-66.8478 0/1:47:27,20:27:952:20:685:-47.2796,0,-71.4433 0/1:134:85,48:85:2984:48:1691:-110.69,0,-228.452 0/1:42:31,10:31:1087:10:352:-18.7599,0,-85.4522 0/1:44:6,36:6:205:36:1276:-100.959,0,-5.87149 0/1:46:18,28:18:640:28:980:-74.0981,0,-44.0709 0/1:102:42,53:42:1485:53:1845:-136.395,0,-105.025 0/1:19:12,5:12:428:5:172:-10.3443,0,-33.4578 0/0:14:14,0:14:482:0:0:0,-4.21442,-43.4622 0/1:6:5,1:5:176:1:32:-1.38305,0,-14.3741 1/1:86:0,84:0:0:84:2936:-262.612,-25.2865,0 0/1:77:34,40:34:1175:40:1414:-103.933,0,-83.4038 1/1:45:1,43:1:32:43:1532:-134.233,-10.3385,0 1/1:24:1,21:1:36:21:752:-64.2309,-3.35799,0 1/1:14:0,12:0:0:12:428:-38.3185,-3.61236,0 0/1:33:17,16:17:598:16:572:-41.5192,0,-44.2145 0/1:27:12,15:12:399:15:508:-37.7237,0,-28.1018 1/1:87:2,84:2:72:84:2910:-252.411,-19.3387,0 1/1:35:0,35:0:0:35:1240:-110.408,-10.5361,0 chr11 4183018 . C G 6701.17 PASS AB=0.582451;ABP=42.041;AC=12;AF=0.285714;AN=42;AO=388;CIGAR=1X;DP=1143;DPB=1143;DPRA=1.17896;EPP=845.542;EPPR=1640.3;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.8196;MQMR=59.9801;NS=21;NUMALT=1;ODDS=6.6085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13845;QR=26884;RO=754;RPL=388;RPP=845.542;RPPR=1640.3;RPR=0;RUN=1;SAF=0;SAP=845.542;SAR=388;SRF=0;SRP=1640.3;SRR=754;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:41,0:41:1468:0:0:0,-12.3422,-132.416 0/0:34:34,0:34:1212:0:0:0,-10.235,-109.386 0/1:50:18,31:18:648:31:1100:-84.1634,0,-43.5416 0/1:59:25,34:25:900:34:1220:-92.346,0,-63.5579 0/1:137:46,91:46:1625:91:3260:-252.379,0,-105.296 0/1:37:10,27:10:360:27:964:-75.868,0,-21.6062 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 0/1:52:15,37:15:525:37:1313:-102.816,0,-31.9245 0/1:117:36,81:36:1284:81:2885:-224.597,0,-80.6429 0/1:21:18,3:18:648:3:108:-3.75354,0,-52.3303 0/1:8:7,1:7:248:1:36:-1.19004,0,-20.256 0/1:30:22,8:22:792:8:288:-17.2365,0,-62.5748 0/0:90:87,3:87:3078:3:108:0,-17.0175,-267.171 0/1:88:39,49:39:1362:49:1735:-129.939,0,-96.3837 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/0:24:24,0:24:837:0:0:0,-7.22472,-75.6456 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/1:25:12,13:12:432:13:468:-34.9339,0,-31.6954 0/1:37:27,10:27:964:10:360:-21.6062,0,-75.9387 0/0:121:121,0:121:4329:0:0:0,-36.4246,-389.784 0/0:38:38,0:38:1368:0:0:0,-11.4391,-123.421 chr11 4197452 . G A 3342.11 PASS AB=0.503667;ABP=3.05808;AC=12;AF=0.285714;AN=42;AO=207;CIGAR=1X;DP=662;DPB=662;DPRA=1.16359;EPP=452.505;EPPR=991.03;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=7.33238;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7365;QR=16171;RO=455;RPL=0;RPP=452.505;RPPR=991.03;RPR=207;RUN=1;SAF=0;SAP=452.505;SAR=207;SRF=0;SRP=991.03;SRR=455;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/0:27:27,0:27:963:0:0:0,-8.12781,-86.9859 0/1:49:20,29:20:711:29:1040:-79.1639,0,-49.5652 0/1:33:17,16:17:608:16:576:-42.241,0,-45.118 0/1:42:22,20:22:783:20:697:-50.4074,0,-58.1497 0/1:22:12,10:12:432:10:356:-25.7586,0,-32.5985 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/1:47:22,25:22:772:25:887:-65.9997,0,-55.6529 0/1:39:19,20:19:663:20:720:-53.3886,0,-48.2533 0/1:6:2,4:2:72:4:129:-10.1215,0,-5.03054 0/1:5:3,2:3:108:2:68:-4.95256,0,-8.57002 0/1:18:7,11:7:243:11:381:-29.2021,0,-16.7889 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.378 0/1:45:20,25:20:712:25:900:-67.7747,0,-50.8603 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:48:29,19:29:984:19:675:-46.6275,0,-74.413 0/1:55:30,25:30:1064:25:900:-64.7644,0,-79.515 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/0:24:23,1:23:820:1:36:0,-3.62644,-70.5242 chr11 4215155 . A T 23330.8 PASS AB=0.492253;ABP=3.4477;AC=30;AF=0.714286;AN=42;AO=1146;CIGAR=1X;DP=1577;DPB=1577;DPRA=0;EPP=2491.52;EPPR=938.915;GTI=0;LEN=1;MEANALT=1;MQM=59.9616;MQMR=60;NS=21;NUMALT=1;ODDS=4.27461;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40536;QR=15418;RO=431;RPL=1146;RPP=2491.52;RPPR=938.915;RPR=0;RUN=1;SAF=0;SAP=2491.52;SAR=1146;SRF=0;SRP=938.915;SRR=431;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:94:2,92:2:72:92:3206:-281.922,-21.4601,0 1/1:82:0,82:0:0:82:2901:-261.326,-24.6845,0 0/1:77:43,34:43:1535:34:1171:-82.5085,0,-115.263 0/1:124:68,56:68:2440:56:2008:-143.666,0,-182.527 0/1:113:35,78:35:1230:78:2741:-212.881,0,-76.9835 0/1:43:20,23:20:720:23:813:-60.5448,0,-52.1845 1/1:102:0,102:0:0:102:3621:-326.096,-30.7051,0 0/1:84:58,26:58:2080:26:928:-58.5517,0,-162.184 0/1:99:59,40:59:2116:40:1398:-96.3111,0,-160.907 0/1:11:6,5:6:216:5:176:-12.8737,0,-16.4792 0/1:6:2,4:2:72:4:129:-10.1215,0,-5.03054 0/1:28:19,9:19:684:9:316:-20.35,0,-53.4615 1/1:43:0,43:0:0:43:1540:-138.893,-12.9443,0 0/1:105:49,56:49:1756:56:1963:-145.332,0,-126.716 1/1:101:0,101:0:0:101:3589:-323.217,-30.404,0 1/1:86:0,86:0:0:86:3068:-276.35,-25.8886,0 1/1:89:2,87:2:72:87:3081:-270.309,-19.9549,0 0/1:84:40,44:40:1417:44:1557:-115.133,0,-102.539 0/1:65:27,38:27:972:38:1345:-101.781,0,-68.231 1/1:66:1,65:1:36:65:2305:-204.111,-16.2697,0 1/1:75:0,75:0:0:75:2680:-241.445,-22.5773,0 chr11 4232129 . A C 28468.6 PASS AB=0.502463;ABP=3.06378;AC=30;AF=0.714286;AN=42;AO=1366;CIGAR=1X;DP=1872;DPB=1872;DPRA=0;EPP=2969.24;EPPR=1101.78;GTI=1;LEN=1;MEANALT=1;MQM=59.702;MQMR=59.8063;NS=21;NUMALT=1;ODDS=0.748116;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48936;QR=18107;RO=506;RPL=0;RPP=2969.24;RPPR=1101.78;RPR=1366;RUN=1;SAF=1366;SAP=2969.24;SAR=0;SRF=506;SRP=1101.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:0,147:0:0:147:5237:-471.035,-44.2514,0 1/1:70:0,70:0:0:70:2497:-224.968,-21.0721,0 0/1:75:40,35:40:1432:35:1260:-91.1282,0,-106.598 0/1:79:44,35:44:1580:35:1256:-89.5639,0,-118.71 0/1:217:109,108:109:3897:108:3865:-282.466,0,-285.506 0/1:93:49,44:49:1756:44:1580:-114.488,0,-130.321 1/1:122:0,122:0:0:122:4376:-393.848,-36.7257,0 0/1:68:35,33:35:1241:33:1188:-86.7539,0,-91.3911 0/1:186:97,89:97:3469:89:3192:-231.495,0,-256.424 0/1:23:6,17:6:216:17:612:-48.4851,0,-12.8668 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.0779 0/1:32:19,13:19:680:13:468:-32.8221,0,-51.8962 1/1:58:0,58:0:0:58:2088:-188.187,-17.4597,0 0/1:90:54,36:54:1936:36:1292:-89.4804,0,-147.421 1/1:127:0,127:0:0:127:4545:-409.208,-38.2308,0 1/1:108:0,108:0:0:108:3848:-346.502,-32.5112,0 1/1:114:0,114:0:0:114:4084:-367.735,-34.3174,0 0/1:54:19,35:19:676:35:1252:-96.7286,0,-44.9078 0/1:93:32,61:32:1152:61:2196:-169.816,0,-75.9944 1/1:57:1,56:1:36:56:2012:-177.747,-13.5604,0 1/1:54:0,54:0:0:54:1944:-175.217,-16.2556,0 chr11 4232165 . A G 8175.22 PASS AB=0.49049;ABP=3.79499;AC=12;AF=0.285714;AN=42;AO=491;CIGAR=1X;DP=1854;DPB=1854;DPRA=0.810769;EPP=1069.2;EPPR=2960.56;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.8004;MQMR=59.7313;NS=21;NUMALT=1;ODDS=1.90218;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17563;QR=48849;RO=1362;RPL=491;RPP=1069.2;RPPR=2951.88;RPR=0;RUN=1;SAF=491;SAP=1069.2;SAR=0;SRF=1361;SRP=2951.88;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:145:145,0:145:5196:0:0:0,-43.6493,-467.016 0/0:70:70,0:70:2516:0:0:0,-21.0721,-226.678 0/1:73:34,39:34:1224:39:1404:-104.682,0,-88.4919 0/1:75:35,39:35:1244:39:1396:-103.303,0,-89.6287 0/1:211:106,105:106:3804:105:3748:-273.909,0,-278.991 0/1:94:45,49:45:1607:49:1756:-130.02,0,-116.614 0/0:122:122,0:122:4380:0:0:0,-36.7257,-394.322 0/1:67:33,34:33:1180:34:1224:-90.1667,0,-86.3372 0/1:185:89,96:89:3192:96:3440:-254.118,0,-231.795 0/1:23:17,6:17:608:6:216:-12.8668,0,-48.1237 0/1:5:4,1:4:144:1:36:-2.0779,0,-11.8085 0/1:30:13,17:13:468:17:608:-46.0211,0,-33.4241 0/0:60:60,0:60:2145:0:0:0,-18.0618,-193.313 0/1:89:36,53:36:1273:53:1889:-143.492,0,-88.0686 0/0:126:126,0:126:4528:0:0:0,-37.9298,-407.676 0/0:109:109,0:109:3916:0:0:0,-32.8123,-352.618 0/0:114:114,0:114:4100:0:0:0,-34.3174,-369.173 0/1:54:35,19:35:1260:19:675:-44.8167,0,-97.4483 0/1:93:61,32:61:2188:32:1135:-74.4623,0,-169.094 0/0:55:54,1:54:1936:1:36:0,-12.9584,-170.91 0/0:54:54,0:54:1940:0:0:0,-16.2556,-174.857 chr11 4248659 . A G 30686.1 PASS AB=0.461221;ABP=56.7354;AC=12;AF=0.285714;AN=42;AO=1898;CIGAR=1X;DP=4834;DPB=4834;DPRA=4.44375;EPP=4115.78;EPPR=6371.94;GTI=2;LEN=1;MEANALT=1.23077;MQM=59.6554;MQMR=59.9605;NS=21;NUMALT=1;ODDS=6.59113;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67557;QR=105088;RO=2933;RPL=1897;RPP=4115.78;RPPR=6371.94;RPR=1;RUN=1;SAF=1898;SAP=4124.46;SAR=0;SRF=2933;SRP=6371.94;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:71,0:71:2556:0:0:0,-21.3731,-230.29 0/0:54:54,0:54:1918:0:0:0,-16.2556,-172.896 0/1:129:57,72:57:2037:72:2560:-191.769,0,-144.767 0/1:74:41,33:41:1472:33:1188:-84.95,0,-110.499 0/1:163:93,69:93:3317:69:2459:-172.433,0,-249.394 0/1:39:28,11:28:1008:11:392:-23.8799,0,-79.2962 0/0:133:132,1:132:4728:1:36:0,-36.4387,-422.08 0/1:139:73,66:73:2616:66:2336:-168.654,0,-193.842 0/1:160:93,66:93:3344:66:2363:-164.701,0,-252.952 0/1:759:392,367:392:14035:367:13116:-951.168,0,-1034.42 0/1:642:359,283:359:12852:283:10058:-711.562,0,-963.218 0/1:672:335,337:335:12017:337:12039:-880.974,0,-879.084 0/0:40:40,0:40:1432:0:0:0,-12.0412,-129.178 0/1:119:79,40:79:2836:40:1440:-94.0552,0,-219.549 0/0:168:168,0:168:5994:0:0:0,-50.573,-539.564 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.662 0/0:82:82,0:82:2948:0:0:0,-24.6845,-265.551 0/1:1166:629,536:629:22554:536:18990:-1356.94,0,-1678.22 0/1:51:34,17:34:1212:17:580:-37.1636,0,-94.0338 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.418 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 chr11 4278083 . CCAA TGAA,TCAG 48532.7 PASS AB=0.695652,0.299911;ABP=377.731,394.918;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2188,342;CIGAR=2X2M,1X2M1X;DP=2540;DPB=2540;DPRA=0,0.675926;EPP=4745.51,745.654;EPPR=7.35324;GTI=2;LEN=2,4;MEANALT=2.04762,2.42857;MQM=37.1495,52.4123;MQMR=60;NS=21;NUMALT=2;ODDS=8.64852;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76573,12214;QR=71;RO=2;RPL=1,0;RPP=4745.51,745.654;RPPR=7.35324;RPR=2187,342;RUN=1,1;SAF=2188,342;SAP=4754.19,745.654;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:190:0,187,2:0:0:187,2:6568,72:-550.48,-56.2926,0,-544.621,-50.3347,-544.019 1/1:151:0,151,0:0:0:151,0:5219,0:-441.743,-45.4555,0,-441.743,-45.4555,-441.743 1/2:109:0,70,39:0:0:70,39:2457,1388:-297.093,-113.002,-91.9296,-184.435,0,-172.695 1/2:140:0,97,43:0:0:97,43:3377,1529:-377.937,-123.919,-94.7192,-254.362,0,-241.417 1/2:224:0,166,56:0:0:166,56:5791,1994:-598.243,-162.073,-112.102,-436.243,0,-419.385 1/2:69:0,48,21:0:0:48,21:1699,752:-191.105,-61.5193,-47.0699,-129.935,0,-123.614 1/1:229:2,227,0:2:71:227,0:8012,0:-672.952,-62.1938,0,-673.554,-68.3338,-679.34 1/2:91:0,55,36:0:0:55,36:1952,1292:-254.126,-105.581,-89.0247,-148.893,0,-138.056 1/2:198:0,146,51:0:0:146,51:5104,1829:-537.762,-148.888,-104.937,-388.973,0,-373.62 1/2:10:0,6,3:0:0:6,3:216,108:-25.3551,-8.8669,-7.06072,-16.5474,0,-15.6443 1/2:7:0,1,6:0:0:1,6:36,215:-20.5901,-17.8449,-17.5439,-3.08657,0,-1.28039 1/2:49:0,29,20:0:0:29,20:1021,717:-136.034,-58.4771,-49.7472,-77.9032,0,-71.8826 1/1:92:0,92,0:0:0:92,0:3206,0:-269.374,-27.6948,0,-269.374,-27.6948,-269.374 1/2:122:0,93,29:0:0:93,29:3222,1036:-326.43,-84.4178,-56.422,-242.36,0,-233.63 1/1:205:0,204,0:0:0:204,0:7129,0:-595.737,-61.4101,0,-595.737,-61.4101,-595.737 1/1:157:0,157,0:0:0:157,0:5457,0:-463.032,-47.2617,0,-463.032,-47.2617,-463.032 1/1:167:0,167,0:0:0:167,0:5865,0:-497.982,-50.272,0,-497.982,-50.272,-497.982 1/2:54:0,33,20:0:0:33,20:1169,711:-146.922,-57.8474,-47.9134,-89.195,0,-83.1744 1/2:54:0,40,14:0:0:40,14:1398,500:-145.707,-41.0118,-28.9706,-105.043,0,-100.829 1/1:143:0,141,2:0:0:141,2:4927,71:-418.126,-42.4452,0,-412.349,-36.3139,-411.747 1/1:79:0,78,0:0:0:78,0:2748,0:-232.952,-23.4803,0,-232.952,-23.4803,-232.952 chr11 4278097 . GTCC ATCA,GTCA 48633 PASS AB=0.7,0.293805;ABP=395.613,420.31;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2188,340;CIGAR=1X2M1X,3M1X;DP=2543;DPB=2543;DPRA=0,0.719562;EPP=4754.19,741.311;EPPR=7.35324;GTI=2;LEN=4,1;MEANALT=2.2381,2.4375;MQM=37.1179,52.5588;MQMR=60;NS=21;NUMALT=2;ODDS=9.98252;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=77356,12183;QR=71;RO=2;RPL=2188,340;RPP=4754.19,741.311;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=2188,340;SAP=4754.19,741.311;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:191:0,187,2:0:0:187,2:6626,72:-552.236,-56.2926,0,-546.377,-50.4107,-545.775 1/1:151:0,150,0:0:0:150,0:5281,0:-441.674,-45.1545,0,-441.674,-45.1545,-441.674 1/2:110:0,71,39:0:0:71,39:2522,1390:-300.239,-113.31,-91.937,-187.274,0,-175.534 1/2:141:0,98,42:0:0:98,42:3462,1508:-379.696,-122.095,-92.5939,-257.609,0,-244.966 1/2:224:0,168,55:0:0:168,55:5931,1971:-604.364,-160.216,-109.643,-444.248,0,-427.691 1/2:69:0,48,21:0:0:48,21:1692,747:-190.061,-61.0679,-46.6185,-129.34,0,-123.019 1/1:230:2,224,3:2:71:224,3:7945,108:-664.562,-61.6357,0,-656.376,-58.6192,-661.258 1/2:89:0,55,34:0:0:55,34:1962,1224:-249.639,-100.072,-83.5152,-149.918,0,-139.683 1/2:200:0,146,51:0:0:146,51:5162,1836:-542.428,-149.485,-105.534,-393.038,0,-377.686 1/2:10:0,7,3:0:0:7,3:251,108:-27.7271,-9.15779,-7.05058,-18.9194,0,-18.0163 1/2:6:0,1,5:0:0:1,5:36,180:-17.7497,-15.0053,-14.7043,-3.08657,0,-1.58142 1/2:49:0,28,19:0:0:28,19:987,684:-131.115,-55.8345,-47.4056,-75.3814,0,-69.6618 1/1:92:0,91,0:0:0:91,0:3180,0:-266.145,-27.3937,0,-266.145,-27.3937,-266.145 1/2:123:0,94,29:0:0:94,29:3271,1031:-327.496,-84.0354,-55.7386,-243.807,0,-235.077 1/1:205:0,205,0:0:0:205,0:7291,0:-603.208,-61.7112,0,-603.208,-61.7112,-603.208 1/1:157:0,157,0:0:0:157,0:5492,0:-464.281,-47.2617,0,-464.281,-47.2617,-464.281 1/1:165:0,164,0:0:0:164,0:5823,0:-492.729,-49.3689,0,-492.729,-49.3689,-492.729 1/2:55:0,35,20:0:0:35,20:1246,712:-152.317,-58.1665,-47.6304,-94.4974,0,-88.4768 1/2:54:0,40,14:0:0:40,14:1419,504:-146.345,-41.3688,-29.3276,-105.326,0,-101.112 1/1:143:0,141,2:0:0:141,2:5002,72:-423.047,-42.4452,0,-417.181,-36.2203,-416.579 1/1:79:0,78,1:0:0:78,1:2775,36:-233.279,-23.4803,0,-230.341,-20.1831,-230.04 chr11 4311821 . GAAAGAAT GAGAAGACT,GAAAAGACT 61254.9 PASS AB=0.519679,0.46988;ABP=7.19802,12.8212;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1747,589;CIGAR=2M1I4M1X1M,1M1I5M1X1M;DP=2362;DPB=2656.12;DPRA=0,0.97625;EPP=3796.57,1282.01;EPPR=0;GTI=0;LEN=9,9;MEANALT=2.71429,3.28571;MQM=57.3984,58.8098;MQMR=0;NS=21;NUMALT=2;ODDS=4.15339;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=12,12;PQR=12;PRO=0.333333;QA=60856,20516;QR=0;RO=0;RPL=1090,392;RPP=236.054,143.197;RPPR=0;RPR=657,197;RUN=1,1;SAF=1090,392;SAP=236.054,143.197;SAR=657,197;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,86,1:0:0:86,1:3026,36:-271.845,-25.8886,0,-268.907,-22.9511,-268.606 1/1:44:0,44,0:0:0:44,0:1521,0:-136.924,-13.2453,0,-136.924,-13.2453,-136.924 1/2:139:0,76,63:0:0:76,63:2697,2193:-398.011,-178.349,-155.471,-220.013,0,-201.048 1/2:121:0,48,71:0:0:48,71:1675,2458:-335.852,-199.647,-185.197,-136.231,0,-114.858 1/2:166:0,91,73:0:0:91,73:3151,2535:-461.592,-206.049,-178.655,-255.557,0,-233.582 1/2:60:0,41,17:0:0:41,17:1393,578:-159.64,-46.7655,-34.4233,-112.899,0,-107.782 1/1:124:0,122,0:0:0:122,0:4269,0:-383.479,-36.7257,0,-383.479,-36.7257,-383.479 1/2:146:0,72,74:0:0:72,74:2496,2607:-415.133,-212.489,-190.815,-202.992,0,-180.716 1/2:178:0,98,78:0:0:98,78:3425,2712:-498.892,-220.382,-190.881,-278.499,0,-255.019 1/2:20:0,4,16:0:0:4,16:144,567:-58.2836,-46.5422,-45.3381,-12.0999,0,-7.28341 1/2:8:0,5,3:0:0:5,3:172,104:-22.7591,-8.79746,-7.29231,-14.3071,0,-13.404 1/2:52:0,25,27:0:0:25,27:888,938:-148.849,-76.5116,-68.9858,-72.6884,0,-64.5606 1/1:221:0,220,0:0:0:220,0:7661,0:-688.902,-66.2266,0,-688.902,-66.2266,-688.902 1/2:107:0,49,57:0:0:49,57:1693,1963:-296.877,-159.365,-144.615,-137.498,0,-120.339 1/1:179:0,179,0:0:0:179,0:6272,0:-563.672,-53.8844,0,-563.672,-53.8844,-563.672 1/1:56:0,56,0:0:0:56,0:1941,0:-174.895,-16.8577,0,-174.895,-16.8577,-174.895 1/1:65:0,65,0:0:0:65,0:2265,0:-203.838,-19.567,0,-203.838,-19.567,-203.838 1/2:139:0,70,66:0:0:70,66:2410,2334:-385.674,-190.083,-169.011,-195.625,0,-175.757 1/2:109:0,68,40:0:0:68,40:2378,1383:-305.606,-112.361,-91.8914,-193.27,0,-181.229 1/1:226:0,218,3:0:0:218,3:7549,108:-678.551,-65.6245,0,-669.74,-56.8099,-668.837 1/1:111:0,110,0:0:0:110,0:3830,0:-344.045,-33.1133,0,-344.045,-33.1133,-344.045 chr11 4552228 . C T 16151.4 PASS AB=0.503158;ABP=3.17487;AC=12;AF=0.285714;AN=42;AO=961;CIGAR=1X;DP=3706;DPB=3706;DPRA=0.828315;EPP=2089.8;EPPR=5961.53;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.2768;MQMR=59.9249;NS=21;NUMALT=1;ODDS=14.0638;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34334;QR=98234;RO=2744;RPL=0;RPP=2089.8;RPPR=5961.53;RPR=961;RUN=1;SAF=961;SAP=2089.8;SAR=0;SRF=2744;SRP=5961.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:280:280,0:280:10008:0:0:0,-84.2884,-900.659 0/0:245:245,0:245:8771:0:0:0,-73.7523,-789.203 0/1:122:60,62:60:2140:62:2224:-163.619,0,-156.142 0/1:288:157,131:157:5620:131:4689:-334.505,0,-419.22 0/1:303:133,170:133:4756:170:6084:-456.243,0,-336.844 0/1:261:124,137:124:4440:137:4901:-362.23,0,-321.199 0/0:221:218,2:218:7807:2:72:0,-59.6498,-695.849 0/1:232:98,134:98:3507:134:4758:-358.31,0,-246.001 0/1:258:133,125:133:4760:125:4468:-323.872,0,-350.891 0/1:14:8,6:8:288:6:216:-15.5533,0,-22.053 0/1:29:16,13:16:572:13:468:-33.7298,0,-43.0836 0/1:44:29,15:29:1036:15:536:-34.8992,0,-80.2379 0/0:214:214,0:214:7652:0:0:0,-64.4204,-688.522 0/1:192:102,90:102:3668:90:3194:-229.827,0,-272.255 0/0:265:265,0:265:9485:0:0:0,-79.7729,-853.607 0/0:154:154,0:154:5524:0:0:0,-46.3586,-497.282 0/0:166:166,0:166:5948:0:0:0,-49.971,-535.427 0/1:72:32,40:32:1152:40:1432:-107.495,0,-82.316 0/1:85:52,33:52:1872:33:1184:-81.2524,0,-143.172 0/0:190:187,3:187:6680:3:108:0,-47.1205,-591.202 0/0:71:71,0:71:2548:0:0:0,-21.3731,-229.57 chr11 4552277 . AAC AAG,GAG 159517 PASS AB=0.481238,0.515635;ABP=12.788,9.8004;AC=30,12;AF=0.714286,0.285714;AN=42;AO=4291,1659;CIGAR=2M1X,1X1M1X;DP=5973;DPB=5973.33;DPRA=0,1.06964;EPP=9312.11,3596.8;EPPR=16.0391;GTI=0;LEN=1,3;MEANALT=2.57143,2.64706;MQM=59.8208,57.2435;MQMR=60;NS=21;NUMALT=2;ODDS=85.3429;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=152181,57675;QR=172;RO=6;RPL=2619,966;RPP=456.843,100.562;RPPR=16.0391;RPR=1672,693;RUN=1,1;SAF=2618,965;SAP=454.928,99.1375;SAR=1673,694;SRF=6;SRP=16.0391;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:395:1,393,0:1:36:393,0:13933,0:-1250.2,-115.302,0,-1250.5,-118.305,-1253.44 1/1:323:1,321,1:1:36:321,1:11415,36:-1023.57,-93.6932,0,-1020.94,-93.6932,-1023.57 1/2:227:0,92,135:0:0:92,135:3262,4702:-647.952,-382.199,-354.505,-266.104,0,-225.465 1/2:390:0,216,173:0:0:216,173:7599,6032:-1108.62,-490.043,-425.02,-618.565,0,-566.486 1/2:570:0,238,331:0:0:238,331:8407,11553:-1622.98,-938.436,-866.791,-684.682,0,-585.041 1/2:367:0,160,207:0:0:160,207:5670,7238:-1049.84,-587.936,-539.771,-462.254,0,-399.941 1/1:424:1,419,2:1:27:419,2:14835,72:-1331.53,-124.016,0,-1325.96,-120.232,-1327.48 1/2:347:0,152,194:0:0:152,194:5432,6734:-989.713,-546.835,-501.079,-442.871,0,-384.471 1/2:412:0,211,199:0:0:211,199:7493,6915:-1171.99,-561.589,-498.072,-610.491,0,-550.586 1/2:57:0,23,34:0:0:23,34:828,1215:-166.655,-99.0929,-92.1693,-67.9204,0,-57.6854 1/2:40:0,22,18:0:0:22,18:784,616:-113.994,-50.08,-43.4574,-64.2613,0,-58.8427 1/2:74:0,42,31:0:0:42,31:1471,1076:-206.477,-86.9453,-74.302,-119.635,0,-110.303 1/1:299:0,297,0:0:0:297,0:10515,0:-945.69,-89.4059,0,-945.69,-89.4059,-945.69 1/2:311:1,153,157:1:20:153,157:5441,5337:-874.103,-431.125,-386.566,-441.928,0,-396.164 1/1:438:0,436,1:0:0:436,1:15499,36:-1394.22,-131.249,0,-1391.29,-128.312,-1390.99 1/1:229:0,228,0:0:0:228,0:8077,0:-726.581,-68.6348,0,-726.581,-68.6348,-726.581 1/1:230:0,229,1:0:0:229,1:8117,36:-729.917,-68.9359,0,-726.979,-65.6386,-726.678 1/2:223:0,110,111:0:0:110,111:3907,3848:-630.442,-312.122,-279.009,-318.358,0,-284.943 1/2:180:0,120,59:0:0:120,59:4289,2065:-517.706,-167.999,-131.876,-349.781,0,-332.02 1/1:283:2,276,5:2:53:276,5:9787,164:-875.658,-78.9344,0,-863.052,-69.8318,-865.714 1/1:154:0,153,0:0:0:153,0:5420,0:-487.576,-46.0576,0,-487.576,-46.0576,-487.576 chr11 4591623 . C T 12158.1 PASS AB=0.437685;ABP=60.1137;AC=12;AF=0.285714;AN=42;AO=748;CIGAR=1X;DP=3157;DPB=3157;DPRA=1.43054;EPP=1550.04;EPPR=4925.82;GTI=0;LEN=1;MEANALT=1.1875;MQM=54.6738;MQMR=54.2965;NS=21;NUMALT=1;ODDS=4.62394;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26763;QR=85681;RO=2405;RPL=739;RPP=1550.04;RPPR=4925.82;RPR=9;RUN=1;SAF=0;SAP=1627.27;SAR=748;SRF=0;SRP=5225.4;SRR=2405;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:166:165,1:165:5868:1:36:0,-46.3753,-523.968 0/0:77:77,0:77:2768:0:0:0,-23.1793,-247.746 0/1:119:67,52:67:2370:52:1864:-131.899,0,-176.735 0/1:236:130,106:130:4613:106:3783:-269.138,0,-342.692 0/1:382:211,170:211:7506:170:6082:-431.076,0,-558.599 0/1:211:105,106:105:3744:106:3781:-275.611,0,-272.613 0/0:218:217,1:217:7751:1:36:0,-62.2009,-690.4 0/1:99:55,44:55:1964:44:1570:-110.602,0,-146.778 0/1:263:129,134:129:4619:134:4804:-352.883,0,-335.701 0/1:15:6,9:6:212:9:315:-23.5001,0,-14.8518 0/1:16:8,8:8:288:8:288:-21.3849,0,-21.2426 0/1:38:25,13:25:896:13:468:-30.9567,0,-69.3921 0/0:317:314,3:314:11146:3:108:0,-85.3586,-990.737 0/1:165:95,68:95:3396:68:2444:-170.487,0,-255.726 0/0:297:297,0:297:10636:0:0:0,-89.4059,-953.16 0/0:86:86,0:86:3067:0:0:0,-25.8886,-276.067 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.514 0/1:44:30,14:30:1056:14:500:-32.0181,0,-81.956 0/1:105:88,17:88:3098:17:612:-23.6977,0,-246.05 0/0:197:195,2:195:6954:2:72:0,-52.4759,-614.47 0/0:61:60,0:60:2113:0:0:0,-18.0618,-189.34 chr11 4652526 . CC TC,TG 33629.8 PASS AB=0.534169,0.465831;ABP=11.9138,11.9138;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1167,414;CIGAR=1X1M,2X;DP=1581;DPB=1581;DPRA=0,1.33988;EPP=2528.44,902;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.7619,2;MQM=56.8877,56.9348;MQMR=0;NS=21;NUMALT=2;ODDS=19.6804;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41816,14658;QR=0;RO=0;RPL=1,0;RPP=2528.44,902;RPPR=0;RPR=1166,414;RUN=1,1;SAF=0,0;SAP=2537.12,902;SAR=1167,414;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:178:0,176,2:0:0:176,2:6288,72:-564.915,-52.9813,0,-559.043,-46.7499,-558.441 1/1:80:0,80,0:0:0:80,0:2880,0:-259.095,-24.0824,0,-259.095,-24.0824,-259.095 1/2:27:0,7,20:0:0:7,20:252,715:-79.1793,-58.6275,-56.5203,-20.9108,0,-14.8902 1/2:103:0,59,44:0:0:59,44:2120,1523:-296.857,-123.988,-106.227,-173.22,0,-159.975 1/2:156:0,89,67:0:0:89,67:3186,2368:-452.592,-193.062,-166.27,-259.886,0,-239.717 1/2:89:0,48,41:0:0:48,41:1724,1458:-259.695,-119.096,-104.646,-140.956,0,-128.614 1/1:78:0,78,0:0:0:78,0:2792,0:-251.422,-23.4803,0,-251.422,-23.4803,-251.422 1/2:117:0,57,60:0:0:57,60:2036,2132:-339.702,-173.82,-156.662,-166.237,0,-148.176 1/2:124:0,60,64:0:0:60,64:2141,2257:-357.679,-183.923,-165.862,-174.109,0,-154.843 1/2:14:0,6,8:0:0:6,8:216,288:-41.4709,-23.8518,-22.0456,-17.9788,0,-15.5706 1/2:12:0,4,8:0:0:4,8:144,288:-35.5979,-23.8518,-22.6477,-12.1058,0,-9.69754 1/2:24:0,15,9:0:0:15,9:536,324:-70.4758,-26.7883,-22.2729,-44.0462,0,-41.337 1/1:117:0,116,1:0:0:116,1:4152,36:-373.257,-34.9195,0,-370.321,-31.6239,-370.02 1/2:126:0,72,54:0:0:72,54:2574,1903:-364.831,-155.217,-133.543,-209.968,0,-193.712 1/1:85:0,84,1:0:0:84,1:3016,36:-271.131,-25.2865,0,-268.195,-21.991,-267.894 1/1:49:0,49,0:0:0:49,0:1764,0:-158.867,-14.7505,0,-158.867,-14.7505,-158.867 1/1:46:0,46,0:0:0:46,0:1656,0:-149.155,-13.8474,0,-149.155,-13.8474,-149.155 1/2:53:0,30,23:0:0:30,23:1080,826:-155.817,-67.7195,-58.6886,-88.4569,0,-81.5332 1/2:33:0,22,11:0:0:22,11:792,396:-97.1883,-32.6543,-26.0317,-64.8935,0,-61.5822 1/1:46:0,46,0:0:0:46,0:1643,0:-148.111,-13.8474,0,-148.111,-13.8474,-148.111 1/1:24:0,23,1:0:0:23,1:824,36:-74.1033,-6.92369,0,-71.1667,-3.62745,-70.8657 chr11 4652550 . T C 23774.9 PASS AB=0.531429;ABP=10.5174;AC=30;AF=0.714286;AN=42;AO=1163;CIGAR=1X;DP=1578;DPB=1578;DPRA=0;EPP=2528.43;EPPR=893.335;GTI=0;LEN=1;MEANALT=1.04762;MQM=56.9123;MQMR=56.9106;NS=21;NUMALT=1;ODDS=19.5424;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41365;QR=14833;RO=414;RPL=1163;RPP=2528.43;RPPR=893.335;RPR=0;RUN=1;SAF=0;SAP=2528.43;SAR=1163;SRF=0;SRP=902;SRR=414;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:180:2,178:2:72:178:6328:-562.262,-47.3519,0 1/1:80:0,80:0:0:80:2861:-257.428,-24.0824,0 0/1:27:20,7:20:720:7:252:-14.8902,0,-56.9706 0/1:103:44,59:44:1572:59:2074:-155.841,0,-110.169 0/1:156:66,90:66:2368:90:3202:-241.203,0,-166.271 0/1:88:40,48:40:1436:48:1728:-129.275,0,-102.97 1/1:76:0,76:0:0:76:2664:-239.947,-22.8783,0 0/1:114:59,55:59:2116:55:1957:-141.985,0,-156.101 0/1:125:65,60:65:2328:60:2141:-154.835,0,-171.87 0/1:14:8,6:8:284:6:216:-15.5706,0,-21.6821 0/1:12:8,4:8:288:4:144:-9.69754,0,-22.6477 0/1:25:10,15:10:356:15:521:-39.6783,0,-24.8478 1/1:116:1,115:1:36:115:4093:-364.739,-31.3229,0 0/1:126:54,71:54:1929:71:2529:-189.597,0,-135.82 1/1:83:1,82:1:36:82:2929:-260.072,-21.3889,0 1/1:50:0,50:0:0:50:1781:-160.393,-15.0515,0 1/1:48:0,48:0:0:48:1722:-154.87,-14.4494,0 0/1:53:23,30:23:828:30:1065:-80.1806,0,-58.8686 0/1:32:12,20:12:428:20:701:-53.7494,0,-29.2097 1/1:46:0,46:0:0:46:1637:-147.522,-13.8474,0 1/1:24:1,23:1:36:23:820:-70.5054,-3.62745,0 chr11 4674470 . G A 53297 PASS AB=0.546142;ABP=27.4583;AC=30;AF=0.714286;AN=42;AO=2229;CIGAR=1X;DP=2845;DPB=2845;DPRA=17.7312;EPP=3191.03;EPPR=861.18;GTI=1;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.45389;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79798;QR=21990;RO=615;RPL=210;RPP=3191.03;RPPR=861.18;RPR=2019;RUN=1;SAF=2229;SAP=4843.22;SAR=0;SRF=615;SRP=1338.47;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:185:0,185:0:0:185:6589:-593.091,-55.6906,0 1/1:95:1,94:1:36:94:3376:-300.456,-24.9996,0 1/1:158:2,155:2:72:155:5530:-490.988,-40.7848,0 0/1:138:73,65:73:2607:65:2332:-168.597,0,-193.336 0/1:245:105,140:105:3764:140:5004:-376.755,0,-265.207 0/1:140:73,67:73:2601:67:2401:-174.201,0,-192.193 1/1:165:0,165:0:0:165:5917:-532.636,-49.67,0 0/1:189:86,103:86:3075:103:3689:-275.316,0,-220.083 0/1:299:134,165:134:4796:165:5920:-442.899,0,-341.788 0/1:12:6,6:6:212:6:216:-16.1782,0,-15.8124 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:25:6,19:6:212:19:684:-54.3646,0,-11.899 1/1:191:0,191:0:0:191:6832:-614.948,-57.4967,0 0/1:98:51,47:51:1832:47:1692:-123.066,0,-135.66 1/1:283:1,282:1:36:282:10074:-902.996,-81.5932,0 1/1:114:0,114:0:0:114:4061:-365.674,-34.3174,0 1/1:118:0,118:0:0:118:4244:-382.137,-35.5215,0 0/1:80:35,45:35:1248:45:1603:-120.476,0,-88.5425 0/1:96:31,65:31:1112:65:2334:-181.42,0,-71.4925 1/1:136:3,133:3:99:133:4784:-421.477,-31.7035,0 1/1:70:0,70:0:0:70:2516:-226.692,-21.0721,0 chr11 4814634 . AAGTG GAGCG,GCGCG 41076.8 PASS AB=0.55599,0.429688;ABP=23.922,35.9895;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1354,334;CIGAR=1X2M1X1M,2X1M1X1M;DP=1712;DPB=1712;DPRA=0,0.980458;EPP=2943.18,728.282;EPPR=0;GTI=1;LEN=5,5;MEANALT=2.38095,2.91667;MQM=56.3449,36.5778;MQMR=0;NS=21;NUMALT=2;ODDS=5.70465;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43972,11092;QR=0;RO=0;RPL=621,116;RPP=23.1277,70.651;RPPR=0;RPR=733,218;RUN=1,1;SAF=621,116;SAP=23.1277,70.651;SAR=733,218;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,99,2:0:0:99,2:3237,72:-290.859,-29.802,0,-285.298,-24.2,-284.696 1/1:71:0,68,0:0:0:68,0:2104,0:-188.901,-20.47,0,-188.901,-20.47,-188.901 1/1:35:0,32,0:0:0:32,0:1078,0:-97.019,-9.63296,0,-97.019,-9.63296,-97.019 1/2:109:0,63,45:0:0:63,45:2007,1497:-274.51,-113.107,-94.1421,-161.495,0,-147.949 1/2:162:0,96,66:0:0:96,66:3081,2249:-420.069,-171.883,-142.984,-248.507,0,-228.639 1/2:43:0,30,11:0:0:30,11:987,345:-105.673,-25.9673,-16.9364,-79.6937,0,-76.3823 1/1:133:0,131,0:0:0:131,0:4358,0:-391.21,-39.4349,0,-391.21,-39.4349,-391.21 1/2:57:0,28,27:0:0:28,27:873,869:-135.791,-65.736,-57.3072,-70.0823,0,-61.9545 1/2:111:0,36,73:0:0:36,73:1202,2451:-283.239,-186.032,-175.195,-97.2904,0,-75.3152 1/2:4:0,3,1:0:0:3,1:105,36:-11.5882,-3.04512,-2.14203,-8.88144,0,-8.58041 1/1:4:0,4,0:0:0:4,0:141,0:-13.0136,-1.20412,0,-13.0136,-1.20412,-13.0136 1/2:12:0,7,5:0:0:7,5:230,162:-30.6686,-12.3632,-10.256,-18.6162,0,-17.111 1/1:140:0,139,0:0:0:139,0:4494,0:-403.893,-41.8432,0,-403.893,-41.8432,-403.893 1/2:84:0,44,40:0:0:44,40:1456,1335:-219.584,-102.094,-88.8489,-117.813,0,-105.772 1/1:170:0,170,0:0:0:170,0:5691,0:-511.892,-51.1751,0,-511.892,-51.1751,-511.892 1/1:69:0,69,0:0:0:69,0:2211,0:-199.176,-20.7711,0,-199.176,-20.7711,-199.176 1/1:67:0,66,0:0:0:66,0:2138,0:-191.89,-19.868,0,-191.89,-19.868,-191.89 1/2:71:0,49,20:0:0:49,20:1597,643:-177.483,-48.668,-33.9175,-128.889,0,-122.868 1/2:115:0,71,42:0:0:71,42:2242,1385:-285.158,-105.216,-83.8427,-179.917,0,-167.274 1/1:99:0,96,2:0:0:96,2:3049,48:-273.763,-28.8989,0,-270.332,-25.4628,-269.73 1/1:53:0,53,0:0:0:53,0:1691,0:-152.033,-15.9546,0,-152.033,-15.9546,-152.033 chr11 4814646 . GC GG,AG 45076.9 PASS AB=0.572917,0.424479;ABP=38.4777,41.0563;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1367,331;CIGAR=1M1X,2X;DP=1700;DPB=1700;DPRA=0,0.90264;EPP=15.0336,57.3365;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.7619,2.14286;MQM=56.2933,36.7704;MQMR=0;NS=21;NUMALT=2;ODDS=6.47047;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47766,10974;QR=0;RO=0;RPL=1325,329;RPP=2617.81,704.501;RPPR=0;RPR=42,2;RUN=1,1;SAF=598,118;SAP=49.4595,62.2174;SAR=769,213;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,95,2:0:0:95,2:3312,70:-297.669,-28.5979,0,-292.237,-22.8308,-291.635 1/1:75:0,74,1:0:0:74,1:2540,36:-227.64,-22.2762,0,-224.739,-19.0186,-224.438 1/1:34:0,34,0:0:0:34,0:1191,0:-107.398,-10.235,0,-107.398,-10.235,-107.398 1/2:111:0,65,46:0:0:65,46:2254,1538:-297.222,-114.403,-94.8357,-183.144,0,-169.297 1/2:160:0,97,63:0:0:97,63:3358,2129:-435.002,-162.498,-133.298,-272.834,0,-253.87 1/2:48:0,36,10:0:0:36,10:1280,307:-127.122,-22.9164,-12.0793,-104.206,0,-101.195 1/1:129:0,129,0:0:0:129,0:4561,0:-409.536,-38.8329,0,-409.536,-38.8329,-409.536 1/2:55:0,29,26:0:0:29,26:1007,841:-145.37,-63.73,-55.0002,-81.964,0,-74.1373 1/2:114:0,40,74:0:0:40,74:1401,2467:-300.085,-186.536,-174.494,-113.885,0,-91.6092 1/2:4:0,3,1:0:0:3,1:108,36:-11.8621,-3.04512,-2.14203,-9.15779,0,-8.85676 1/1:4:0,4,0:0:0:4,0:144,0:-13.2885,-1.20412,0,-13.2885,-1.20412,-13.2885 1/2:12:0,7,5:0:0:7,5:241,161:-30.8749,-11.787,-9.67983,-19.3964,0,-17.8913 1/1:138:0,138,0:0:0:138,0:4806,0:-431.463,-41.5421,0,-431.463,-41.5421,-431.463 1/2:84:0,45,39:0:0:45,39:1583,1306:-228.739,-99.9598,-86.4135,-129.113,0,-117.372 1/1:169:0,169,0:0:0:169,0:5963,0:-536.26,-50.8741,0,-536.26,-50.8741,-536.26 1/1:68:0,68,0:0:0:68,0:2402,0:-216.039,-20.47,0,-216.039,-20.47,-216.039 1/1:64:0,64,0:0:0:64,0:2251,0:-201.604,-19.2659,0,-201.604,-19.2659,-201.604 1/2:71:0,49,22:0:0:49,22:1704,673:-189.732,-51.3052,-36.5547,-138.735,0,-132.112 1/2:109:0,69,40:0:0:69,40:2353,1354:-292.935,-102.296,-81.5248,-190.965,0,-178.924 1/1:103:0,102,1:0:0:102,1:3568,36:-319.345,-30.7051,0,-317.427,-28.5392,-317.126 1/1:51:0,50,1:0:0:50,1:1739,20:-156.141,-15.0515,0,-154.646,-13.3528,-154.345 chr11 4821864 . GAATG GAAATG 3261.35 PASS AB=0.438134;ABP=19.3999;AC=10;AF=0.238095;AN=42;AO=218;CIGAR=1M1I4M;DP=976;DPB=1020;DPRA=1.07143;EPP=476.391;EPPR=1640.3;GTI=0;LEN=1;MEANALT=1.27273;MQM=57.0826;MQMR=59.8037;NS=21;NUMALT=1;ODDS=14.9364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7680;QR=26494;RO=754;RPL=0;RPP=476.391;RPPR=1640.3;RPR=218;RUN=1;SAF=0;SAP=476.391;SAR=218;SRF=0;SRP=1640.3;SRR=754;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:32,2:32:1117:2:68:0,-4.13049,-94.3722 0/0:43:42,0:42:1491:0:0:0,-12.6433,-134.124 0/0:75:75,0:75:2627:0:0:0,-22.5772,-235.735 0/1:55:25,30:25:876:30:1063:-79.395,0,-62.5996 0/1:29:22,7:22:777:7:252:-14.2703,0,-61.5227 0/1:32:21,11:21:740:11:388:-25.6086,0,-57.2901 0/0:37:37,0:37:1295:0:0:0,-11.1381,-116.85 0/1:47:23,24:23:810:24:844:-62.1302,0,-59.072 0/1:94:53,39:53:1878:39:1391:-97.2312,0,-141.395 0/0:13:13,0:13:443:0:0:0,-3.91339,-40.1863 0/1:11:4,7:4:135:7:248:-19.347,0,-9.17118 0/1:48:28,20:28:982:20:688:-47.6731,0,-74.2426 0/0:108:108,0:108:3829:0:0:0,-32.5112,-344.801 0/1:67:34,33:34:1166:33:1180:-86.3106,0,-84.9129 0/0:52:52,0:52:1827:0:0:0,-15.6536,-164.71 0/0:18:18,0:18:631:0:0:0,-5.41854,-57.1156 0/0:21:21,0:21:744:0:0:0,-6.32163,-67.2844 0/1:65:37,28:37:1298:28:969:-67.317,0,-97.5549 0/1:45:28,17:28:970:17:589:-39.6902,0,-74.0635 0/0:35:35,0:35:1238:0:0:0,-10.536,-111.72 0/0:46:46,0:46:1620:0:0:0,-13.8474,-146.086 chr11 4827417 . C T 6592.86 PASS AB=0.519178;ABP=5.3424;AC=11;AF=0.261905;AN=42;AO=384;CIGAR=1X;DP=1571;DPB=1571;DPRA=0.900178;EPP=802.474;EPPR=2492.25;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9036;MQMR=59.9806;NS=21;NUMALT=1;ODDS=9.40845;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13731;QR=42362;RO=1186;RPL=380;RPP=802.474;RPPR=2492.25;RPR=4;RUN=1;SAF=0;SAP=836.856;SAR=384;SRF=0;SRP=2578.38;SRR=1186;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:61,3:61:2165:3:108:0,-9.19075,-185.02 0/0:54:54,0:54:1944:0:0:0,-16.2556,-175.236 0/0:95:95,0:95:3407:0:0:0,-28.5978,-306.843 0/1:88:50,38:50:1784:38:1356:-95.8452,0,-134.352 0/1:118:54,64:54:1932:64:2292:-171.019,0,-138.635 0/1:71:26,45:26:928:45:1616:-124.357,0,-62.4651 0/0:119:119,0:119:4225:0:0:0,-35.8226,-380.424 0/1:88:46,42:46:1652:42:1506:-109.344,0,-122.478 0/1:135:57,78:57:2039:78:2800:-211.599,0,-143.142 0/1:14:11,3:11:396:3:108:-5.86075,0,-31.7683 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/0:156:155,1:155:5520:1:36:0,-43.3624,-493.331 0/1:98:47,51:47:1688:51:1824:-134.94,0,-122.706 0/0:105:105,0:105:3751:0:0:0,-31.6081,-337.79 0/0:60:59,1:59:2112:1:36:0,-14.4635,-186.751 0/0:70:70,0:70:2503:0:0:0,-21.0721,-225.522 0/1:53:19,33:19:684:33:1153:-88.0461,0,-45.8769 0/1:47:31,16:31:1112:16:572:-37.665,0,-86.2429 0/0:84:84,0:84:2989:0:0:0,-25.2865,-269.241 0/0:34:34,0:34:1207:0:0:0,-10.235,-108.935 chr11 4830956 . A G 23178 PASS AB=0.498123;ABP=3.03476;AC=31;AF=0.738095;AN=42;AO=1126;CIGAR=1X;DP=1533;DPB=1533;DPRA=0;EPP=2448.09;EPPR=878.135;GTI=0;LEN=1;MEANALT=1;MQM=59.9964;MQMR=60;NS=21;NUMALT=1;ODDS=20.1043;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40098;QR=14213;RO=407;RPL=0;RPP=2448.09;RPPR=886.8;RPR=1126;RUN=1;SAF=1126;SAP=2448.09;SAR=0;SRF=406;SRP=878.135;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:1,108:1:36:108:3876:-345.436,-29.214,0 1/1:42:0,42:0:0:42:1504:-135.655,-12.6433,0 1/1:35:0,35:0:0:35:1233:-111.272,-10.5361,0 0/1:34:23,11:23:805:11:392:-25.385,0,-62.5325 0/1:145:67,78:67:2277:78:2774:-206.251,0,-161.53 0/1:69:39,30:39:1359:30:1076:-76.3818,0,-101.831 1/1:116:0,116:0:0:116:4123:-371.252,-34.9195,0 0/1:71:32,39:32:1121:39:1377:-102.854,0,-79.8226 0/1:144:70,74:70:2444:74:2637:-194.227,0,-176.862 0/1:23:12,11:12:402:11:396:-29.0591,0,-29.5755 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:22:13,9:13:453:9:305:-21.1546,0,-34.477 1/1:53:0,53:0:0:53:1870:-168.575,-15.9546,0 0/1:80:57,23:57:2029:23:828:-50.7617,0,-158.798 1/1:187:3,184:3:108:184:6547:-579.236,-46.2174,0 1/1:37:0,37:0:0:37:1324:-119.462,-11.1381,0 1/1:30:0,30:0:0:30:1068:-96.4321,-9.0309,0 0/1:139:66,73:66:2330:73:2605:-192.854,0,-168.114 0/1:64:17,47:17:597:47:1688:-132.941,0,-34.7902 1/1:50:1,49:1:36:49:1752:-154.366,-11.4532,0 1/1:75:1,74:1:36:74:2615:-231.995,-18.979,0 chr11 4830962 . T G 6695.44 PASS AB=0.502506;ABP=3.05384;AC=11;AF=0.261905;AN=42;AO=406;CIGAR=1X;DP=1520;DPB=1520;DPRA=1.34713;EPP=875.964;EPPR=2415.52;GTI=0;LEN=1;MEANALT=1.13333;MQM=60;MQMR=59.9964;NS=21;NUMALT=1;ODDS=19.6231;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14484;QR=39743;RO=1111;RPL=0;RPP=884.628;RPPR=2415.52;RPR=406;RUN=1;SAF=405;SAP=875.964;SAR=1;SRF=1111;SRP=2415.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:105:104,1:104:3724:1:36:0,-28.0099,-331.763 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.136 0/0:34:34,0:34:1224:0:0:0,-10.235,-110.467 0/1:34:10,24:10:356:24:844:-66.0439,0,-22.1462 0/1:143:79,64:79:2840:64:2277:-162.143,0,-212.79 0/1:70:28,41:28:996:41:1468:-111.285,0,-68.8241 0/0:116:116,0:116:4148:0:0:0,-34.9195,-373.504 0/1:72:39,33:39:1379:33:1180:-84.8339,0,-102.734 0/1:143:74,68:74:2652:68:2416:-174.67,0,-195.899 0/1:23:10,13:10:360:13:468:-35.536,0,-25.8206 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:22:9,13:9:305:13:464:-35.4748,0,-21.1546 0/0:53:52,0:52:1868:0:0:0,-15.6536,-168.039 0/1:80:23,57:23:812:57:2039:-159.7,0,-49.3185 0/0:184:182,2:182:6536:2:72:0,-48.5528,-581.481 0/0:36:35,1:35:1260:1:36:0,-7.2388,-110.107 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/1:139:73,66:73:2590:66:2360:-170.816,0,-191.506 0/1:64:47,17:47:1679:17:608:-35.7861,0,-132.13 0/0:49:48,1:48:1716:1:36:0,-11.1522,-151.127 0/0:75:75,0:75:2670:0:0:0,-22.5772,-240.545 chr11 4832672 . G A 21639.4 PASS AB=0.47041;ABP=8.02215;AC=31;AF=0.738095;AN=42;AO=1033;CIGAR=1X;DP=1391;DPB=1391;DPRA=0;EPP=2237.46;EPPR=771.736;GTI=0;LEN=1;MEANALT=1;MQM=59.9342;MQMR=59.8855;NS=21;NUMALT=1;ODDS=3.82689;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36936;QR=12843;RO=358;RPL=1;RPP=2237.46;RPPR=771.736;RPR=1032;RUN=1;SAF=1033;SAP=2246.14;SAR=0;SRF=358;SRP=780.397;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:6,71:6:212:71:2544:-209.772,-3.75451,0 1/1:62:1,61:1:36:61:2166:-191.607,-15.0656,0 1/1:63:0,63:0:0:63:2260:-203.663,-18.9649,0 0/1:115:80,35:80:2876:35:1256:-78.7268,0,-224.358 0/1:90:47,43:47:1680:43:1521:-110.088,0,-124.394 0/1:84:52,32:52:1872:32:1148:-78.3433,0,-143.472 1/1:87:0,87:0:0:87:3132:-282.105,-26.1896,0 0/1:51:27,24:27:968:24:864:-62.73,0,-72.0848 0/1:63:38,25:38:1364:25:896:-61.9955,0,-104.078 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:16:8,8:8:288:8:288:-21.4509,0,-21.4509 1/1:70:0,70:0:0:70:2507:-225.846,-21.0721,0 0/1:76:38,38:38:1355:38:1348:-98.7399,0,-99.3714 1/1:75:1,74:1:36:74:2656:-235.687,-18.979,0 1/1:121:0,121:0:0:121:4319:-388.882,-36.4246,0 1/1:49:0,49:0:0:49:1733:-156.25,-14.7505,0 0/1:70:26,44:26:936:44:1580:-121.419,0,-63.4874 0/1:81:28,53:28:1004:53:1904:-147.254,0,-66.2924 1/1:70:0,70:0:0:70:2492:-224.521,-21.0721,0 1/1:58:1,57:1:36:57:2034:-179.734,-13.8615,0 chr11 4868528 . CCC TCT,CCT 155483 PASS AB=0.525195,0.47374;ABP=18.5481,19.8889;AC=31,11;AF=0.738095,0.261905;AN=42;AO=4471,1360;CIGAR=1X1M1X,2M1X;DP=5837;DPB=5837.67;DPRA=0,1.25353;EPP=9711.66,2956.21;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.14286,2.33333;MQM=52.1572,56.8765;MQMR=0;NS=21;NUMALT=2;ODDS=23.4833;PAIRED=0,0;PAIREDR=0;PAO=1.5,0.5;PQA=54,18;PQR=0;PRO=0;QA=155852,48134;QR=0;RO=0;RPL=2336,624;RPP=22.6322,23.0389;RPPR=0;RPR=2135,736;RUN=1,1;SAF=2336,624;SAP=22.6322,23.0389;SAR=2135,736;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:484:0,479,4:0:0:479,4:16594,144:-1480.95,-144.193,0,-1469.22,-132.398,-1468.01 1/1:211:0,210,1:0:0:210,1:7371,36:-659.494,-63.2163,0,-656.565,-59.9281,-656.264 1/1:231:0,229,1:0:0:229,1:8047,36:-719.769,-68.9359,0,-716.834,-65.926,-716.533 1/2:291:0,156,135:0:0:156,135:5485,4792:-833.625,-389.964,-343.004,-444.013,0,-403.374 1/2:528:0,277,251:0:0:277,251:9695,8887:-1508.22,-723.777,-640.392,-784.789,0,-709.231 1/2:205:0,97,108:0:0:97,108:3410,3809:-586.072,-309.702,-280.502,-276.721,0,-244.21 1/1:467:0,464,3:0:0:464,3:16163,104:-1445.82,-139.678,0,-1437.38,-131.246,-1436.47 1/2:583:0,312,269:0:0:312,269:10816,9547:-1650.03,-776.651,-682.729,-873.436,0,-792.458 1/2:466:0,230,236:0:0:230,236:7973,8316:-1319.46,-676.647,-607.41,-643.159,0,-572.116 1/2:21:0,11,10:0:0:11,10:379,347:-59.2479,-28.5367,-25.2253,-31.0565,0,-28.0462 1/2:9:0,2,7:0:0:2,7:69,248:-25.9187,-20.4926,-19.8905,-5.76522,0,-3.65801 1/2:65:0,32,33:0:0:32,33:1095,1173:-183.283,-95.7555,-86.1225,-87.8736,0,-77.9396 1/1:390:0,390,0:0:0:390,0:13644,0:-1221.64,-117.402,0,-1221.64,-117.402,-1221.64 1/2:354:0,189,165:0:0:189,165:6482,5853:-998.966,-476.571,-419.676,-522.743,0,-473.073 1/1:416:0,411,4:0:0:411,4:14404,144:-1288.9,-123.723,0,-1277.16,-111.916,-1275.95 1/1:162:0,162,0:0:0:162,0:5693,0:-509.81,-48.7669,0,-509.81,-48.7669,-509.81 1/1:128:0,127,1:0:0:127,1:4396,36:-392.778,-38.2308,0,-389.841,-34.9336,-389.54 1/2:140:0,59,80:0:0:59,80:2096,2824:-399.363,-229.608,-211.847,-169.895,0,-145.812 1/2:156:0,115,41:0:0:115,41:4045,1450:-444.661,-118.294,-83.6754,-326.719,0,-314.377 1/1:397:0,386,11:0:0:386,11:13360,388:-1194.2,-116.198,0,-1162.62,-84.272,-1159.31 1/1:133:0,133,0:0:0:133,0:4635,0:-414.528,-40.037,0,-414.528,-40.037,-414.528 chr11 5031617 . C T 7091.14 PASS AB=0.50748;ABP=3.4326;AC=11;AF=0.261905;AN=42;AO=447;CIGAR=1X;DP=1817;DPB=1817;DPRA=0.902006;EPP=973.658;EPPR=2977.93;GTI=0;LEN=1;MEANALT=1;MQM=55.5481;MQMR=59.8949;NS=21;NUMALT=1;ODDS=16.5143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15629;QR=48934;RO=1370;RPL=0;RPP=973.658;RPPR=2977.93;RPR=447;RUN=1;SAF=0;SAP=973.658;SAR=447;SRF=0;SRP=2977.93;SRR=1370;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:153:151,2:151:5354:2:72:0,-39.2959,-475.194 0/0:94:94,0:94:3341:0:0:0,-28.2968,-300.901 0/0:68:67,1:67:2412:1:36:0,-16.949,-213.815 0/1:50:20,30:20:716:30:1052:-79.8864,0,-49.7162 0/1:169:77,92:77:2772:92:3205:-237.337,0,-198.846 0/1:94:38,56:38:1349:56:1973:-149.076,0,-93.3738 0/0:149:149,0:149:5332:0:0:0,-44.8535,-479.997 0/1:69:40,29:40:1432:29:1028:-71.9346,0,-108.403 0/1:169:100,69:100:3588:69:2402:-165.42,0,-272.252 0/1:22:5,17:5:180:17:608:-48.3714,0,-9.9294 0/1:13:7,6:7:252:6:200:-14.3916,0,-19.1146 0/1:28:10,18:10:360:18:621:-47.7312,0,-24.3155 0/0:63:63,0:63:2232:0:0:0,-18.9649,-201.124 0/1:94:45,49:45:1604:49:1697:-124.581,0,-116.345 0/0:183:183,0:183:6564:0:0:0,-55.0885,-590.793 0/0:51:51,0:51:1821:0:0:0,-15.3525,-164.169 0/0:76:76,0:76:2720:0:0:0,-22.8783,-245.043 0/1:96:43,53:43:1519:53:1843:-136.46,0,-108.103 0/1:65:43,22:43:1525:22:788:-51.6447,0,-117.973 0/0:79:76,3:76:2709:3:104:0,-14.0869,-234.358 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.988 chr11 5031624 . TATGT TGATGT,TAATGT 45866.3 PASS AB=0.49061,0.502347;ABP=3.66276,3.05108;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1339,432;CIGAR=1M1I4M,1M1I4M;DP=1791;DPB=2147.6;DPRA=0,0.934761;EPP=703.021,449.389;EPPR=13.8677;GTI=0;LEN=1,1;MEANALT=2.14286,2.53846;MQM=59.9164,55.7477;MQMR=60;NS=21;NUMALT=2;ODDS=30.6751;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47699,15219;QR=141;RO=5;RPL=998,365;RPP=703.021,449.389;RPPR=13.8677;RPR=341,67;RUN=1,1;SAF=0,0;SAP=2910.61,941.086;SAR=1339,432;SRF=0;SRP=13.8677;SRR=5;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:0,149,1:0:0:149,1:5324,32:-478.968,-44.8535,0,-476.391,-42.2454,-476.09 1/1:94:0,94,0:0:0:94,0:3343,0:-301.085,-28.2968,0,-301.085,-28.2968,-301.085 1/1:63:0,61,0:0:0:61,0:2167,0:-194.94,-18.3628,0,-194.94,-18.3628,-194.94 1/2:47:0,19,28:0:0:19,28:684,980:-135.851,-80.0364,-74.3168,-56.1708,0,-47.7419 1/2:167:0,77,90:0:0:77,90:2756,3148:-480.796,-256.092,-232.912,-225.058,0,-197.965 1/2:93:0,37,55:0:0:37,55:1332,1953:-267.495,-158.81,-147.672,-108.7,0,-92.143 1/1:155:0,154,0:0:0:154,0:5447,0:-489.987,-46.3586,0,-489.987,-46.3586,-489.987 1/2:70:0,39,31:0:0:39,31:1383,1108:-203.223,-90.5525,-78.8124,-113.026,0,-103.694 1/2:169:1,100,66:1:25:100,66:3568,2345:-479.718,-189.148,-160.993,-288.982,0,-271.061 1/2:22:0,5,17:0:0:5,17:180,600:-63.8466,-49.1578,-47.6526,-15.0469,0,-9.9294 1/2:12:0,6,6:0:0:6,6:198,197:-32.2255,-16.2173,-14.4111,-16.337,0,-14.5308 1/2:27:0,10,17:0:0:10,17:360,600:-78.5375,-49.1606,-46.1503,-29.734,0,-24.6165 1/1:63:0,63,0:0:0:63,0:2244,0:-202.206,-18.9649,0,-202.206,-18.9649,-202.206 1/2:88:0,42,46:0:0:42,46:1479,1617:-252.244,-131.835,-119.192,-120.76,0,-106.913 1/1:181:1,180,0:1:33:180,0:6419,0:-574.499,-51.1873,0,-574.8,-54.1854,-577.468 1/1:50:0,50,0:0:0:50,0:1788,0:-161.203,-15.0515,0,-161.203,-15.0515,-161.203 1/1:72:1,71,0:1:29:71,0:2523,0:-224.422,-18.7745,0,-224.723,-21.3731,-227.031 1/2:93:0,42,50:0:0:42,50:1488,1762:-264.14,-142.922,-130.279,-121.223,0,-106.171 1/2:64:0,41,22:0:0:41,22:1472,769:-182.596,-62.5159,-50.1737,-120.073,0,-113.451 1/1:77:2,67,3:2:54:67,3:2400,108:-211.056,-15.9297,0,-202.856,-11.3592,-206.207 1/1:33:0,32,0:0:0:32,0:1144,0:-102.909,-9.63296,0,-102.909,-9.63296,-102.909 chr11 5042861 . CTTTTCCAA CTTTTCAA,CTTTCCAA 18328.8 PASS AB=0.679426,0.320574;ABP=119.896,119.896;AC=32,10;AF=0.761905,0.238095;AN=42;AO=769,135;CIGAR=5M1D3M,1M1D7M;DP=906;DPB=805.333;DPRA=0,1.15;EPP=1672.87,296.159;EPPR=0;GTI=3;LEN=1,1;MEANALT=1.57143,2.09091;MQM=59.9948,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.92811;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26279,4718;QR=0;RO=0;RPL=0,0;RPP=1672.87,296.159;RPPR=0;RPR=769,135;RUN=1,1;SAF=0,0;SAP=1672.87,296.159;SAR=769,135;SRF=0;SRP=0;SRR=0;TYPE=del,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59,0:0:0:59,0:2010,0:-181.168,-17.7608,0,-181.168,-17.7608,-181.168 1/1:15:0,15,0:0:0:15,0:515,0:-46.675,-4.51545,0,-46.675,-4.51545,-46.675 1/1:52:0,52,0:0:0:52,0:1794,0:-161.738,-15.6536,0,-161.738,-15.6536,-161.738 1/2:37:0,24,13:0:0:24,13:822,455:-104.09,-37.3686,-30.1438,-67.0687,0,-63.1553 1/2:69:0,44,25:0:0:44,25:1465,861:-188.826,-70.2768,-57.0315,-118.889,0,-111.364 1/2:9:0,6,3:0:0:6,3:203,108:-25.6145,-9.17208,-7.3659,-16.795,0,-15.8919 1/1:23:0,23,0:0:0:23,0:781,0:-70.6012,-6.92369,0,-70.6012,-6.92369,-70.6012 1/2:52:0,34,18:0:0:34,18:1180,628:-147.348,-51.4269,-41.1919,-96.2694,0,-90.8508 1/2:123:0,78,45:0:0:78,45:2645,1562:-341.795,-127.32,-103.84,-214.819,0,-201.272 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/1:4:0,4,0:0:0:4,0:140,0:-12.9446,-1.20412,0,-12.9446,-1.20412,-12.9446 1/2:25:0,21,4:0:0:21,4:728,144:-71.2706,-12.1095,-5.78787,-59.5188,0,-58.3147 1/1:45:0,45,0:0:0:45,0:1532,0:-138.168,-13.5464,0,-138.168,-13.5464,-138.168 1/2:40:0,29,11:0:0:29,11:951,392:-109.119,-32.3087,-23.5789,-77.1582,0,-73.8468 1/1:125:0,125,0:0:0:125,0:4269,0:-384.398,-37.6288,0,-384.398,-37.6288,-384.398 1/1:37:0,37,0:0:0:37,0:1281,0:-115.588,-11.1381,0,-115.588,-11.1381,-115.588 1/1:33:0,33,0:0:0:33,0:1132,0:-102.182,-9.93399,0,-102.182,-9.93399,-102.182 1/2:41:0,29,12:0:0:29,12:1004,424:-116.473,-34.8841,-26.1542,-81.9405,0,-78.3282 1/2:18:0,16,2:0:0:16,2:564,72:-52.1495,-6.23466,-1.41818,-46.2738,0,-45.6718 1/1:88:0,85,1:0:0:85,1:2911,36:-261.875,-25.5876,0,-258.938,-22.6485,-258.637 1/1:7:0,7,0:0:0:7,0:244,0:-22.2994,-2.10721,0,-22.2994,-2.10721,-22.2994 chr11 5042893 . A G 25341.6 PASS AB=0.538593;ABP=10.5527;AC=32;AF=0.761905;AN=42;AO=942;CIGAR=1X;DP=1217;DPB=1217;DPRA=0;EPP=79.3668;EPPR=12.826;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9915;MQMR=59.9742;NS=21;NUMALT=1;ODDS=1.81893;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33676;QR=9725;RO=271;RPL=380;RPP=79.3668;RPPR=12.826;RPR=562;RUN=1;SAF=0;SAP=2048.54;SAR=942;SRF=0;SRP=591.479;SRR=271;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:0,64:0:0:64:2284:-205.822,-19.2659,0 1/1:37:0,37:0:0:37:1332:-120.182,-11.1381,0 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 0/1:52:27,25:27:972:25:892:-64.9461,0,-72.1443 0/1:102:53,49:53:1900:49:1756:-127.619,0,-140.567 0/1:41:20,21:20:720:21:741:-54.6694,0,-52.7865 1/1:86:0,86:0:0:86:3080:-277.427,-25.8886,0 0/1:78:43,35:43:1544:35:1260:-90.2251,0,-115.773 0/1:134:52,82:52:1872:82:2918:-222.517,0,-128.421 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:34:13,21:13:468:21:756:-58.1322,0,-32.2246 1/1:48:0,47:0:0:47:1669:-150.136,-14.1484,0 0/1:56:27,29:27:953:29:1022:-75.4332,0,-69.2256 1/1:139:1,137:1:36:137:4886:-436.294,-38.3037,0 1/1:40:0,40:0:0:40:1432:-129.178,-12.0412,0 1/1:37:0,36:0:0:36:1296:-116.584,-10.8371,0 0/1:56:25,31:25:900:31:1100:-82.4526,0,-64.4633 0/1:26:8,18:8:288:18:644:-50.4638,0,-18.4406 1/1:97:1,95:1:36:95:3412:-303.695,-25.6604,0 1/1:23:0,23:0:0:23:828:-74.8441,-6.92369,0 chr11 5306534 . C T 13430 PASS AB=0.612975;ABP=52.5655;AC=31;AF=0.738095;AN=42;AO=678;CIGAR=1X;DP=855;DPB=855;DPRA=0;EPP=1423.61;EPPR=378.724;GTI=1;LEN=1;MEANALT=1;MQM=40.2286;MQMR=54.1243;NS=21;NUMALT=1;ODDS=6.10823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24189;QR=6331;RO=177;RPL=672;RPP=1423.61;RPPR=378.724;RPR=6;RUN=1;SAF=0;SAP=1475.27;SAR=678;SRF=0;SRP=387.361;SRR=177;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:23:0,23:0:0:23:828:-71.6403,-6.92369,0 1/1:19:0,19:0:0:19:676:-57.6468,-5.71957,0 1/1:101:0,101:0:0:101:3600:-310.738,-30.404,0 0/1:49:27,22:27:963:22:792:-54.5479,0,-72.0788 0/1:48:11,37:11:396:37:1320:-100.455,0,-21.3383 0/1:36:12,24:12:428:24:852:-61.3523,0,-27.928 1/1:54:0,54:0:0:54:1898:-161.337,-16.2556,0 0/1:83:41,42:41:1460:42:1492:-103.992,0,-106.407 0/1:38:14,24:14:504:24:860:-64.8325,0,-34.2447 0/1:9:6,3:6:216:3:108:-6.04383,0,-17.0122 0/1:7:1,6:1:36:6:211:-15.8244,0,-1.48202 0/1:18:8,10:8:284:10:356:-25.7276,0,-20.4504 1/1:55:0,55:0:0:55:1964:-171.718,-16.5567,0 0/1:48:14,34:14:500:34:1220:-91.6893,0,-30.8124 1/1:22:0,22:0:0:22:788:-68.5817,-6.62266,0 1/1:7:0,7:0:0:7:252:-22.5283,-2.10721,0 1/1:8:0,8:0:0:8:288:-25.3438,-2.40824,0 0/1:55:24,31:24:864:31:1104:-78.8374,0,-61.3344 0/1:56:15,41:15:540:41:1460:-110.48,0,-31.9455 1/1:84:4,80:4:140:80:2868:-233.385,-12.3762,0 1/1:35:0,35:0:0:35:1252:-106.135,-10.5361,0 chr11 5307626 . G C 6869.91 PASS AB=0.448459;ABP=24.7227;AC=11;AF=0.261905;AN=42;AO=423;CIGAR=1X;DP=1854;DPB=1854;DPRA=0.905357;EPP=895.67;EPPR=3030.43;GTI=1;LEN=1;MEANALT=1.33333;MQM=60;MQMR=59.9839;NS=21;NUMALT=1;ODDS=0.267939;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15089;QR=50643;RO=1426;RPL=420;RPP=895.67;RPPR=3030.43;RPR=3;RUN=1;SAF=0;SAP=921.543;SAR=423;SRF=0;SRP=3099.53;SRR=1426;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:134:134,0:134:4786:0:0:0,-40.338,-430.896 0/0:57:56,0:56:1987:0:0:0,-16.8577,-178.842 0/0:72:72,0:72:2533:0:0:0,-21.6742,-228.221 0/1:91:55,35:55:1963:35:1256:-85.8928,0,-149.492 0/1:184:84,99:84:2954:99:3527:-262.34,0,-210.791 0/1:62:41,20:41:1452:20:720:-46.4061,0,-112.253 0/0:136:136,0:136:4852:0:0:0,-40.9401,-436.836 0/1:70:38,31:38:1348:31:1104:-78.5399,0,-100.489 0/1:139:74,65:74:2617:65:2314:-166.676,0,-193.934 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:5:3,2:3:104:2:68:-4.95256,0,-8.19766 0/1:20:13,7:13:459:7:252:-17.0084,0,-35.6235 0/0:97:97,0:97:3468:0:0:0,-29.1999,-312.332 0/1:110:55,55:55:1943:55:1953:-142.931,0,-142.032 0/0:122:122,0:122:4315:0:0:0,-36.7257,-388.531 0/0:73:72,1:72:2567:1:36:0,-18.3769,-227.681 0/0:34:34,0:34:1198:0:0:0,-10.235,-108.124 0/1:118:57,61:57:2023:61:2171:-160.135,0,-146.821 0/1:133:92,41:92:3287:41:1472:-92.7391,0,-256.012 0/0:110:110,0:110:3896:0:0:0,-33.1133,-350.835 0/0:78:78,0:78:2783:0:0:0,-23.4803,-250.641 chr11 5307632 . G A 30108.6 PASS AB=0.540484;ABP=16.5483;AC=31;AF=0.738095;AN=42;AO=1424;CIGAR=1X;DP=1863;DPB=1863;DPRA=0;EPP=3077.84;EPPR=938.994;GTI=0;LEN=1;MEANALT=1;MQM=59.9944;MQMR=60;NS=21;NUMALT=1;ODDS=2.03181;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51016;QR=15685;RO=439;RPL=1422;RPP=3077.84;RPPR=938.994;RPR=2;RUN=1;SAF=0;SAP=3095.19;SAR=1424;SRF=0;SRP=956.287;SRR=439;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:131:0,131:0:0:131:4672:-420.641,-39.4349,0 1/1:57:0,57:0:0:57:2029:-182.881,-17.1587,0 1/1:74:0,74:0:0:74:2664:-240.005,-22.2762,0 0/1:91:38,53:38:1351:53:1908:-144.604,0,-94.4959 0/1:188:106,82:106:3804:82:2906:-205.179,0,-285.963 0/1:64:22,42:22:792:42:1504:-116.389,0,-52.3398 1/1:138:0,138:0:0:138:4948:-445.469,-41.5421,0 0/1:71:33,38:33:1184:38:1360:-101.327,0,-85.4952 0/1:139:65,74:65:2300:74:2648:-196.723,0,-165.416 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:20:7,13:7:252:13:468:-36.439,0,-17.0084 1/1:97:0,97:0:0:97:3484:-313.77,-29.1999,0 0/1:110:56,54:56:2008:54:1936:-141.403,0,-147.88 1/1:120:0,120:0:0:120:4316:-388.614,-36.1236,0 1/1:72:1,71:1:36:71:2552:-226.332,-18.0759,0 1/1:35:0,35:0:0:35:1256:-113.345,-10.5361,0 0/1:120:62,58:62:2206:58:2077:-151.077,0,-162.68 0/1:134:40,94:40:1428:94:3367:-262.907,0,-88.4795 1/1:111:0,111:0:0:111:3969:-357.4,-33.4143,0 1/1:77:1,76:1:36:76:2736:-242.884,-19.581,0 chr11 5340664 . ACAG GCAA,GCAG 12453.3 PASS AB=0.599455,0.39782;ABP=34.541,36.2924;AC=31,11;AF=0.738095,0.261905;AN=42;AO=490,146;CIGAR=1X2M1X,1X3M;DP=637;DPB=637.75;DPRA=0,1.23569;EPP=1049.73,302.911;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=1.52381,2;MQM=42.0939,54.0411;MQMR=60;NS=21;NUMALT=2;ODDS=9.32763;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=52,52;PQR=0;PRO=0;QA=16790,5065;QR=36;RO=1;RPL=490,146;RPP=1067.03,320.045;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=488,144;SAP=1049.73,302.911;SAR=2,2;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:38:0,38,0:0:0:38,0:1308,0:-114.708,-11.4391,0,-114.708,-11.4391,-114.708 1/1:30:0,30,0:0:0:30,0:1036,0:-91.6573,-9.0309,0,-91.6573,-9.0309,-91.6573 1/1:11:0,11,0:0:0:11,0:368,0:-32.4314,-3.31133,0,-32.4314,-3.31133,-32.4314 1/2:58:0,33,25:0:0:33,25:1162,875:-163.571,-71.3825,-61.4485,-92.535,0,-85.0092 1/2:38:0,19,19:0:0:19,19:657,647:-104.781,-52.7325,-47.013,-52.3322,0,-46.6127 1/2:47:0,29,18:0:0:29,18:1014,632:-131.202,-51.5731,-42.8432,-79.9185,0,-74.5 1/1:26:0,26,0:0:0:26,0:872,0:-76.5826,-7.82678,0,-76.5826,-7.82678,-76.5826 1/2:28:0,16,12:0:0:16,12:534,411:-76.0128,-33.6517,-28.8352,-42.6969,0,-39.0845 1/2:37:0,24,13:0:0:24,13:831,460:-104.005,-37.8004,-30.5757,-66.5535,0,-62.6401 1/2:5:0,1,4:0:0:1,4:35,140:-14.511,-11.7206,-11.4196,-3.1351,0,-1.93098 1/2:4:0,1,3:0:0:1,3:30,108:-11.5128,-9.14098,-8.83995,-2.68546,0,-1.78237 1/2:13:0,9,4:0:0:9,4:301,144:-35.4229,-12.0776,-9.36834,-23.6929,0,-22.4887 1/1:36:0,36,0:0:0:36,0:1227,0:-107.58,-10.8371,0,-107.58,-10.8371,-107.58 1/2:36:0,28,8:0:0:28,8:972,268:-97.6335,-21.8111,-13.3822,-76.1547,0,-73.7465 1/1:28:0,28,0:0:0:28,0:940,0:-82.584,-8.42884,0,-82.584,-8.42884,-82.584 1/1:25:0,25,0:0:0:25,0:874,0:-77.2105,-7.52575,0,-77.2105,-7.52575,-77.2105 1/1:18:0,18,0:0:0:18,0:608,0:-54.1995,-5.41854,0,-54.1995,-5.41854,-54.1995 1/2:40:0,17,23:0:0:17,23:544,797:-107.477,-64.8749,-59.7574,-42.928,0,-36.0044 1/2:61:1,43,17:1:36:43,17:1491,583:-161.414,-44.3308,-34.3249,-114.428,0,-112.249 1/1:25:0,25,0:0:0:25,0:862,0:-75.6268,-7.52575,0,-75.6268,-7.52575,-75.6268 1/1:33:0,33,0:0:0:33,0:1124,0:-99.7491,-9.93399,0,-99.7491,-9.93399,-99.7491 chr11 5631023 . AGCATTTAAATAG AGCATTTAAAATAT,AAAATAT,AGCAATTAAAATAT 100368 PASS AB=0.60781,0.378758,0.176101;ABP=181.399,194.148,582.561;AC=31,10,1;AF=0.738095,0.238095,0.0238095;AN=42;AO=3337,571,112;CIGAR=7M1I5M1X,1M6D5M1X,3M1I3M1X5M1X;DP=4046;DPB=4049.77;DPRA=0,0.784232,1.39535;EPP=7249.21,1242.92,246.215;EPPR=0;GTI=3;LEN=14,7,14;MEANALT=2.7619,3.18182,6;MQM=55.0003,59.5657,58.9911;MQMR=0;NS=21;NUMALT=3;ODDS=4.45693;PAIRED=0,0,0;PAIREDR=0;PAO=0.833333,0.333333,0.833333;PQA=19,12,19;PQR=0;PRO=0;QA=114739,18976,3871;QR=0;RO=0;RPL=1297,0,0;RPP=362.243,1242.92,246.215;RPPR=0;RPR=2040,571,112;RUN=1,1,1;SAF=1297,0,0;SAP=362.243,1242.92,246.215;SAR=2040,571,112;SRF=0;SRP=0;SRR=0;TYPE=complex,complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:225:0,225,0,0:0:0:225,0,0:7748,0,0:-695.781,-67.7318,0,-695.781,-67.7318,-695.781,-695.781,-67.7318,-695.781,-695.781 1/1:174:0,172,0,0:0:0:172,0,0:5812,0,0:-515.606,-51.7772,0,-515.606,-51.7772,-515.606,-515.606,-51.7772,-515.606,-515.606 1/1:161:0,161,0,0:0:0:161,0,0:5563,0,0:-499.541,-48.4658,0,-499.541,-48.4658,-499.541,-499.541,-48.4658,-499.541,-499.541 1/2:327:0,168,158,0:0:0:168,158,0:5841,5335,0:-906.443,-432.206,-381.633,-474.262,0,-426.7,-906.443,-432.206,-474.262,-906.443 1/2:366:0,226,135,2:0:0:226,135,2:7909,4552,67:-1010.24,-368.81,-300.778,-641.44,0,-600.801,-1005.17,-363.741,-636.371,-1004.57 1/2:164:0,85,79,0:0:0:85,79,0:2890,2588,0:-440.371,-209.378,-183.79,-231.324,0,-207.543,-440.371,-209.378,-231.324,-440.371 1/1:278:0,277,0,0:0:0:277,0,0:9340,0,0:-827.116,-83.3853,0,-827.116,-83.3853,-827.116,-827.116,-83.3853,-827.116,-827.116 1/2:162:0,114,47,0:0:0:114,47,0:3900,1536,0:-439.576,-124.01,-89.6927,-315.535,0,-301.386,-439.576,-124.01,-315.535,-439.576 1/3:270:0,156,0,110:0:0:156,0,110:5383,0,3804:-745.802,-309.09,-262.129,-745.802,-309.09,-745.802,-436.761,0,-436.761,-403.647 1/2:39:0,29,10,0:0:0:29,10,0:986,336,0:-107.29,-27.5557,-18.8258,-80.0715,0,-77.0612,-107.29,-27.5557,-80.0715,-107.29 1/2:23:0,15,8,0:0:0:15,8,0:524,253,0:-63.0737,-20.6714,-16.156,-42.7293,0,-40.321,-63.0737,-20.6714,-42.7293,-63.0737 1/2:31:0,16,15,0:0:0:16,15,0:559,466,0:-83.0803,-37.6964,-32.8799,-45.7127,0,-41.1972,-83.0803,-37.6964,-45.7127,-83.0803 1/1:251:0,251,0,0:0:0:251,0,0:8653,0,0:-776.965,-75.5585,0,-776.965,-75.5585,-776.965,-776.965,-75.5585,-776.965,-776.965 1/2:174:0,110,63,0:0:0:110,63,0:3757,2071,0:-471.628,-167.347,-134.233,-304.318,0,-285.353,-471.628,-167.347,-304.318,-471.628 1/1:355:0,353,0,0:0:0:353,0,0:12129,0,0:-1088.19,-106.264,0,-1088.19,-106.264,-1088.19,-1088.19,-106.264,-1088.19,-1088.19 1/1:164:0,164,0,0:0:0:164,0,0:5640,0,0:-506.978,-49.3689,0,-506.978,-49.3689,-506.978,-506.978,-49.3689,-506.978,-506.978 1/1:186:0,185,0,0:0:0:185,0,0:6386,0,0:-573.658,-55.6906,0,-573.658,-55.6906,-573.658,-573.658,-55.6906,-573.658,-573.658 1/2:90:0,58,30,0:0:0:58,30,0:1972,992,0:-239.402,-80.1802,-62.7205,-159.216,0,-150.185,-239.402,-80.1802,-159.216,-239.402 1/2:121:0,97,22,0:0:0:97,22,0:3352,715,0:-329.382,-57.6845,-28.4845,-271.68,0,-265.058,-329.382,-57.6845,-271.68,-329.382 1/1:351:0,343,4,0:0:0:343,4,0:11809,132,0:-1059.91,-103.253,0,-1049.23,-92.5433,-1048.03,-1059.91,-103.253,-1049.23,-1059.91 1/1:134:0,132,0,0:0:0:132,0,0:4586,0,0:-404.852,-39.736,0,-404.852,-39.736,-404.852,-404.852,-39.736,-404.852,-404.852 chr11 5642290 . C T 13954.3 PASS AB=0.514706;ABP=5.94817;AC=11;AF=0.261905;AN=42;AO=812;CIGAR=1X;DP=3200;DPB=3200;DPRA=0.79403;EPP=1748.92;EPPR=5059.02;GTI=0;LEN=1;MEANALT=1;MQM=59.6429;MQMR=59.6993;NS=21;NUMALT=1;ODDS=0.329641;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29134;QR=85427;RO=2388;RPL=810;RPP=1748.92;RPPR=5059.02;RPR=2;RUN=1;SAF=0;SAP=1766.25;SAR=812;SRF=0;SRP=5188.49;SRR=2388;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:212:212,0:212:7604:0:0:0,-63.8184,-684.144 0/0:181:181,0:181:6504:0:0:0,-54.4864,-585.249 0/0:109:108,1:108:3864:1:36:0,-29.214,-344.351 0/1:258:141,117:141:5036:117:4196:-300.139,0,-375.702 0/1:311:141,170:141:5039:170:6092:-454.742,0,-360.011 0/1:244:116,128:116:4132:128:4587:-339.452,0,-298.548 0/0:241:241,0:241:8604:0:0:0,-72.5482,-774.246 0/1:156:78,78:78:2792:78:2804:-205.637,0,-204.551 0/1:235:105,130:105:3731:130:4676:-350.217,0,-265.199 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7443 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:42:17,25:17:612:25:900:-68.6731,0,-42.7702 0/0:210:209,1:209:7473:1:36:0,-59.618,-668.977 0/1:155:63,92:63:2260:92:3297:-249.667,0,-156.998 0/0:225:225,0:225:8064:0:0:0,-67.7317,-725.697 0/0:147:147,0:147:5259:0:0:0,-44.2514,-473.398 0/0:105:102,3:102:3644:3:108:0,-21.533,-317.341 0/1:43:21,22:21:748:22:792:-58.6522,0,-54.6918 0/1:104:68,36:68:2440:36:1286:-84.6469,0,-188.538 0/0:140:138,2:138:4929:2:72:0,-35.3075,-436.895 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.363 chr11 5642301 . T C 49936.4 PASS AB=0.483132;ABP=6.89296;AC=31;AF=0.738095;AN=42;AO=2391;CIGAR=1X;DP=3211;DPB=3211;DPRA=0;EPP=5195;EPPR=1777.1;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.6654;MQMR=59.645;NS=21;NUMALT=1;ODDS=0.702281;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85120;QR=29239;RO=817;RPL=2391;RPP=5195;RPPR=1777.1;RPR=0;RUN=1;SAF=0;SAP=5195;SAR=2391;SRF=0;SRP=1777.1;SRR=817;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:216:0,216:0:0:216:7668:-689.743,-65.0225,0 1/1:184:0,184:0:0:184:6522:-586.97,-55.3895,0 1/1:108:1,107:1:36:107:3810:-339.495,-28.913,0 0/1:258:118,140:118:4236:140:4948:-367.793,0,-303.733 0/1:311:171,140:171:6083:140:4980:-354.696,0,-453.931 0/1:246:127,118:127:4553:118:4233:-306.964,0,-335.738 1/1:243:0,243:0:0:243:8648:-778.163,-73.1503,0 0/1:156:80,76:80:2876:76:2716:-197.714,0,-212.111 0/1:235:131,104:131:4693:104:3698:-262.275,0,-351.747 0/1:6:1,5:1:36:5:180:-14.7443,0,-1.79209 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:42:25,17:25:900:17:612:-42.7702,0,-68.6731 1/1:207:1,206:1:36:206:7370:-659.671,-58.7149,0 0/1:159:94,65:94:3346:65:2309:-160.201,0,-252.871 1/1:226:0,226:0:0:226:8075:-726.731,-68.0328,0 1/1:148:0,148:0:0:148:5232:-471.013,-44.5524,0 1/1:103:3,99:3:108:99:3537:-307.474,-20.8773,0 0/1:43:21,22:21:756:22:781:-57.6536,0,-55.4137 0/1:105:36,68:36:1292:68:2420:-186.381,0,-84.8259 1/1:141:2,139:2:72:139:4949:-438.688,-35.6085,0 1/1:64:0,64:0:0:64:2288:-206.165,-19.2659,0 chr11 5668347 . TTC TTG,CTG 37816.8 PASS AB=0.334305,0.663751;ABP=248.395,242.672;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1120,689;CIGAR=2M1X,1X1M1X;DP=1815;DPB=1815;DPRA=0,1.37941;EPP=2435.06,1499.15;EPPR=0;GTI=2;LEN=1,3;MEANALT=2,2.26667;MQM=59.917,58.8882;MQMR=0;NS=21;NUMALT=2;ODDS=3.66321;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39851,24306;QR=0;RO=0;RPL=0,0;RPP=2435.06,1499.15;RPPR=0;RPR=1120,689;RUN=1,1;SAF=0,0;SAP=2435.06,1499.15;SAR=1120,689;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,65,1:0:0:65,1:2288,36:-205.818,-19.567,0,-202.88,-16.2697,-202.579 1/1:32:0,32,0:0:0:32,0:1140,0:-102.909,-9.63296,0,-102.909,-9.63296,-102.909 1/1:43:0,43,0:0:0:43,0:1527,0:-137.722,-12.9443,0,-137.722,-12.9443,-137.722 1/2:173:0,54,119:0:0:54,119:1903,4191:-496.454,-341.518,-325.262,-155.289,0,-119.466 1/2:191:0,66,124:0:0:66,124:2356,4344:-544.933,-352.969,-333.101,-191.962,0,-154.634 1/2:151:0,46,104:0:0:46,104:1634,3673:-432.051,-298.906,-285.059,-133.285,0,-101.978 1/1:106:0,105,0:0:0:105,0:3748,0:-337.176,-31.6082,0,-337.176,-31.6082,-337.176 1/2:115:0,42,73:0:0:42,73:1495,2618:-335.684,-213.842,-201.199,-122.199,0,-100.224 1/2:175:0,51,124:0:0:51,124:1820,4377:-504.896,-356.523,-341.17,-148.729,0,-111.401 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/2:5:0,3,2:0:0:3,2:108,68:-14.6781,-5.85382,-4.95073,-9.17208,0,-8.57002 1/2:26:0,9,17:0:0:9,17:320,591:-74.4161,-48.3355,-45.6262,-26.4331,0,-21.3156 1/1:116:0,115,0:0:0:115,0:4128,0:-371.363,-34.6185,0,-371.363,-34.6185,-371.363 1/2:106:0,33,73:0:0:33,73:1180,2556:-304.472,-208.253,-198.319,-96.5741,0,-74.5989 1/1:85:0,82,2:0:0:82,2:2909,63:-261.748,-24.6845,0,-256.683,-19.575,-256.081 1/1:48:0,48,0:0:0:48,0:1711,0:-154.274,-14.4494,0,-154.274,-14.4494,-154.274 1/1:51:0,50,1:0:0:50,1:1781,36:-160.211,-15.0515,0,-157.274,-11.7543,-156.973 1/2:39:0,14,25:0:0:14,25:504,898:-114.678,-73.5535,-69.3391,-41.4837,0,-33.9579 1/2:43:0,25,18:0:0:25,18:877,641:-123.935,-52.569,-45.0432,-71.7194,0,-66.3009 1/1:176:0,173,2:0:0:173,2:6141,70:-552.306,-52.0782,0,-546.61,-46.3562,-546.008 1/1:63:0,63,0:0:0:63,0:2245,0:-202.306,-18.9649,0,-202.306,-18.9649,-202.306 chr11 5741412 . A G 27020.5 PASS AB=0.510773;ABP=3.80568;AC=31;AF=0.738095;AN=42;AO=1290;CIGAR=1X;DP=1681;DPB=1681;DPRA=0;EPP=2752.34;EPPR=845.542;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9798;MQMR=60;NS=21;NUMALT=1;ODDS=1.95651;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45596;QR=13874;RO=388;RPL=6;RPP=2752.34;RPPR=836.878;RPR=1284;RUN=1;SAF=0;SAP=2804.21;SAR=1290;SRF=1;SRP=836.878;SRR=387;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:2192:-197.545,-18.6639,0 1/1:79:0,79:0:0:79:2807:-252.87,-23.7814,0 1/1:61:0,61:0:0:61:2145:-193.316,-18.3628,0 0/1:106:48,58:48:1720:58:2042:-152.14,0,-123.176 0/1:167:72,95:72:2575:95:3374:-253.605,0,-181.727 0/1:60:33,26:33:1175:26:920:-64.9967,0,-87.9365 1/1:125:0,125:0:0:125:4407:-396.806,-37.6288,0 0/1:49:30,18:30:1072:18:648:-43.9846,0,-82.1283 0/1:104:62,42:62:2232:42:1488:-102.907,0,-169.836 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/1:4:2,2:2:72:2:63:-4.77903,0,-5.6326 0/1:22:14,8:14:500:8:288:-19.6447,0,-38.7135 1/1:77:0,77:0:0:77:2693:-242.613,-23.1793,0 0/1:87:43,44:43:1521:44:1564:-114.862,0,-110.991 1/1:108:1,107:1:36:107:3791:-337.79,-28.913,0 1/1:102:0,101:0:0:101:3560:-320.288,-30.404,0 1/1:145:1,144:1:36:144:5135:-458.694,-40.0511,0 0/1:106:42,64:42:1503:64:2270:-172.652,0,-103.655 0/1:75:30,45:30:1076:45:1567:-118.741,0,-74.5756 1/1:83:2,81:2:68:81:2892:-254.059,-18.5278,0 1/1:50:0,50:0:0:50:1714:-154.533,-15.0515,0 chr11 5835530 . G A 69636.1 PASS AB=0.567968;ABP=84.1856;AC=28;AF=0.666667;AN=42;AO=3298;CIGAR=1X;DP=4361;DPB=4361;DPRA=1.16816;EPP=7164.53;EPPR=2311.29;GTI=2;LEN=1;MEANALT=1;MQM=30.9533;MQMR=32.9445;NS=21;NUMALT=1;ODDS=1.34109;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=117484;QR=37169;RO=1063;RPL=1761;RPP=36.0472;RPPR=29.0945;RPR=1537;RUN=1;SAF=1761;SAP=36.0472;SAR=1537;SRF=588;SRP=29.0945;SRR=475;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:226:81,145:81:2849:145:5154:-319.701,0,-156.313 0/1:185:74,111:74:2588:111:3955:-224.4,0,-137.246 0/1:207:92,115:92:3248:115:4094:-251.463,0,-195.379 1/1:307:0,307:0:0:307:10870:-781.975,-92.4162,0 1/1:511:3,508:3:108:508:18085:-1316.48,-144.87,0 1/1:291:0,291:0:0:291:10373:-755.532,-87.5997,0 0/1:301:153,148:153:5315:148:5251:-282.886,0,-312.219 0/0:179:179,0:179:6309:0:0:0,-53.8844,-485.824 0/1:327:134,193:134:4679:193:6888:-428.786,0,-264.662 0/1:11:6,5:6:207:5:172:-9.41985,0,-12.6459 0/1:7:6,1:6:216:1:36:-0.873542,0,-14.3871 0/1:53:25,28:25:864:28:1000:-58.6468,0,-52.0112 0/1:159:71,88:71:2489:88:3120:-177.542,0,-151.188 0/1:226:102,124:102:3556:124:4425:-273.598,0,-218.549 1/1:346:1,345:1:36:345:12359:-942.18,-100.769,0 1/1:149:4,145:4:144:145:5169:-362.541,-32.3194,0 1/1:235:0,235:0:0:235:8368:-604.135,-70.7421,0 0/1:148:62,86:62:2160:86:3052:-181.131,0,-125.509 0/1:173:68,105:68:2329:105:3739:-228.416,0,-130.572 1/1:187:2,185:2:72:185:6627:-485.445,-50.4785,0 1/1:133:0,133:0:0:133:4747:-333.347,-40.037,0 chr11 6319333 . CTTCA TTTCG,TTTCA 44470.8 PASS AB=0.54113,0.454906;ABP=17.8361,20.8319;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1622,464;CIGAR=1X3M1X,1X4M;DP=2094;DPB=2094.2;DPRA=0,0.834127;EPP=3525.14,1010.57;EPPR=0;GTI=1;LEN=5,1;MEANALT=2,2.38462;MQM=60,59.9828;MQMR=0;NS=21;NUMALT=2;ODDS=2.74395;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=32,0;PQR=0;PRO=0;QA=57435,16626;QR=0;RO=0;RPL=0,0;RPP=3525.14,1010.57;RPPR=0;RPR=1622,464;RUN=1,1;SAF=1622,464;SAP=3525.14,1010.57;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:130:0,127,2:0:0:127,2:4494,72:-404.276,-38.2308,0,-398.401,-32.3493,-397.799 1/1:78:0,78,0:0:0:78,0:2768,0:-249.362,-23.4803,0,-249.362,-23.4803,-249.362 1/1:138:0,137,0:0:0:137,0:4840,0:-435.401,-41.2411,0,-435.401,-41.2411,-435.401 1/2:76:0,40,36:0:0:40,36:1405,1288:-219.737,-105.387,-93.3453,-114.705,0,-103.868 1/2:181:0,110,70:0:0:110,70:3901,2516:-523.073,-205.26,-172.146,-317.811,0,-296.739 1/2:74:0,38,35:0:0:38,35:1361,1252:-213.083,-102.089,-90.6501,-110.992,0,-100.456 1/1:131:0,130,0:0:0:130,0:4600,0:-413.918,-39.1339,0,-413.918,-39.1339,-413.918 1/2:94:0,49,45:0:0:49,45:1731,1612:-272.79,-131.824,-117.073,-141.322,0,-127.776 1/2:213:0,109,104:0:0:109,104:3865,3710:-617.664,-302.784,-269.971,-315.236,0,-283.929 1/2:19:0,9,10:0:0:9,10:323,360:-56.0806,-29.734,-27.0247,-26.7058,0,-23.6955 1/2:6:0,4,2:0:0:4,2:142,72:-17.8016,-6.23466,-5.03054,-11.9251,0,-11.323 1/2:37:0,24,13:0:0:24,13:860,468:-108.684,-38.5463,-31.3215,-70.4974,0,-66.584 1/1:132:0,132,0:0:0:132,0:4689,0:-422.173,-39.736,0,-422.173,-39.736,-422.173 1/2:98:0,45,53:0:0:45,53:1602,1900:-285.89,-155.323,-141.777,-130.924,0,-114.969 1/1:204:0,203,0:0:0:203,0:7195,0:-647.284,-61.1091,0,-647.284,-61.1091,-647.284 1/1:83:0,83,0:0:0:83,0:2918,0:-262.858,-24.9855,0,-262.858,-24.9855,-262.858 1/1:65:0,65,0:0:0:65,0:2307,0:-207.89,-19.567,0,-207.89,-19.567,-207.89 1/2:137:0,71,65:0:0:71,65:2496,2332:-393.378,-190.213,-168.84,-203.161,0,-183.594 1/2:74:0,47,26:0:0:47,26:1668,936:-212.274,-76.3729,-62.2244,-135.9,0,-128.073 1/1:66:0,63,3:0:0:63,3:2220,108:-199.715,-18.9649,0,-190.902,-10.1197,-189.999 1/1:58:0,58,0:0:0:58,0:2050,0:-184.772,-17.4597,0,-184.772,-17.4597,-184.772 chr11 6319575 . T A 11760.5 PASS AB=0.479527;ABP=7.01142;AC=11;AF=0.261905;AN=42;AO=529;CIGAR=1X;DP=2205;DPB=2205;DPRA=0.915408;EPP=31.2887;EPPR=111.973;GTI=0;LEN=1;MEANALT=1;MQM=59.9301;MQMR=60;NS=21;NUMALT=1;ODDS=22.6418;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18848;QR=59600;RO=1676;RPL=529;RPP=1151.72;RPPR=3625.05;RPR=0;RUN=1;SAF=306;SAP=31.2887;SAR=223;SRF=981;SRP=108.987;SRR=695;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:129:129,0:129:4586:0:0:0,-38.8329,-412.907 0/0:109:109,0:109:3870:0:0:0,-32.8123,-348.497 0/0:52:52,0:52:1845:0:0:0,-15.6536,-166.328 0/1:98:47,51:47:1668:51:1788:-131.696,0,-120.906 0/1:154:62,92:62:2212:92:3282:-249.24,0,-152.986 0/1:162:100,62:100:3567:62:2224:-151.657,0,-272.471 0/0:178:178,0:178:6295:0:0:0,-53.5833,-566.65 0/1:115:67,48:67:2374:48:1720:-120.467,0,-179.299 0/1:165:78,87:78:2780:87:3083:-228.027,0,-200.772 0/1:33:13,20:13:468:20:716:-54.8337,0,-32.5257 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:33:15,18:15:528:18:648:-48.7179,0,-37.9174 0/0:144:144,0:144:5146:0:0:0,-43.3483,-463.281 0/1:99:57,42:57:1997:42:1504:-105.853,0,-150.2 0/0:132:132,0:132:4695:0:0:0,-39.736,-422.71 0/0:66:66,0:66:2356:0:0:0,-19.868,-212.299 0/0:67:67,0:67:2369:0:0:0,-20.169,-213.467 0/1:105:44,61:44:1571:61:2169:-163.852,0,-110.073 0/1:126:85,41:85:3056:41:1476:-95.2064,0,-237.339 0/0:113:111,2:111:3936:2:58:0,-28.5081,-348.925 0/0:116:116,0:116:4137:0:0:0,-34.9195,-372.513 chr11 6901327 . G A 10655.3 PASS AB=0.458969;ABP=18.3349;AC=11;AF=0.261905;AN=42;AO=484;CIGAR=1X;DP=2077;DPB=2077;DPRA=1.05697;EPP=27.5784;EPPR=6.15293;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9975;NS=21;NUMALT=1;ODDS=0.446803;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17339;QR=56946;RO=1592;RPL=206;RPP=26.2684;RPPR=6.15293;RPR=278;RUN=1;SAF=483;SAP=1045.34;SAR=1;SRF=1592;SRP=3459.99;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:163:162,1:162:5807:1:36:0,-45.4696,-519.141 0/0:75:75,0:75:2700:0:0:0,-22.5772,-243.243 0/0:97:97,0:97:3488:0:0:0,-29.1999,-314.13 0/1:117:74,43:74:2622:43:1527:-102.502,0,-201.007 0/1:237:134,103:134:4796:103:3708:-262.576,0,-360.452 0/1:102:47,55:47:1684:55:1976:-147.41,0,-121.142 0/0:121:120,0:120:4300:0:0:0,-36.1236,-386.817 0/1:74:42,32:42:1504:32:1148:-81.3536,0,-113.378 0/1:169:78,91:78:2784:91:3260:-242.746,0,-199.927 0/1:15:7,8:7:252:8:288:-21.752,0,-18.5135 0/1:11:9,2:9:320:2:72:-3.52539,0,-25.831 0/1:41:18,23:18:648:23:824:-62.1411,0,-46.3097 0/0:113:112,1:112:4007:1:36:0,-30.4181,-357.221 0/1:149:83,66:83:2967:66:2348:-166.726,0,-222.409 0/0:184:184,0:184:6591:0:0:0,-55.3895,-593.269 0/0:78:78,0:78:2792:0:0:0,-23.4803,-251.52 0/0:86:85,1:85:3024:1:36:0,-22.2903,-268.794 0/1:83:44,39:44:1566:39:1400:-101.314,0,-116.245 0/1:50:31,19:31:1095:19:680:-46.4777,0,-83.8076 0/0:66:66,0:66:2351:0:0:0,-19.868,-211.849 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.609 chr11 6913151 . AGCC GGCT,AGCT 29387.4 PASS AB=0.363171,0.634271;ABP=130.178,125.468;AC=32,10;AF=0.761905,0.238095;AN=42;AO=898,500;CIGAR=1X2M1X,3M1X;DP=1405;DPB=1405;DPRA=0,1.51421;EPP=1952.99,1088.75;EPPR=0;GTI=3;LEN=4,1;MEANALT=1.90476,2.30769;MQM=59.951,59.964;MQMR=0;NS=21;NUMALT=2;ODDS=3.10444;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31723,17957;QR=0;RO=0;RPL=898,500;RPP=1952.99,1088.75;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1952.99,1088.75;SAR=898,500;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:61:0,60,1:0:0:60,1:2121,36:-190.798,-18.0618,0,-187.861,-14.7646,-187.56 1/1:23:0,22,1:0:0:22,1:766,36:-68.9002,-6.62266,0,-65.9623,-3.32542,-65.6613 1/1:70:0,70,0:0:0:70,0:2474,0:-222.896,-21.0721,0,-222.896,-21.0721,-222.896 1/2:135:0,48,87:0:0:48,87:1691,3124:-392.866,-255.196,-240.747,-138.024,0,-111.834 1/2:158:0,44,114:0:0:44,114:1557,4100:-461.687,-334.866,-321.621,-127.177,0,-92.8591 1/2:71:0,19,52:0:0:19,52:673,1857:-206.577,-151.754,-146.035,-55.1774,0,-39.5238 1/1:71:0,71,0:0:0:71,0:2515,0:-226.603,-21.3731,0,-226.603,-21.3731,-226.603 1/2:150:0,65,84:0:0:65,84:2293,3020:-433.023,-246.313,-226.747,-186.705,0,-161.419 1/2:94:0,39,55:0:0:39,55:1372,1976:-273.242,-161.558,-149.818,-112.039,0,-95.482 1/2:10:0,1,9:0:0:1,9:36,324:-29.734,-26.7966,-26.4956,-3.29724,0,-0.587975 1/1:6:0,6,0:0:0:6,0:215,0:-19.6992,-1.80618,0,-19.6992,-1.80618,-19.6992 1/2:7:0,2,5:0:0:2,5:71,176:-20.4659,-14.6799,-14.0778,-6.14,0,-4.63485 1/1:48:0,48,0:0:0:48,0:1702,0:-153.466,-14.4494,0,-153.466,-14.4494,-153.466 1/2:114:0,42,71:0:0:42,71:1469,2552:-327.745,-208.256,-195.613,-119.54,0,-98.1673 1/1:127:0,126,0:0:0:126,0:4489,0:-403.817,-37.9298,0,-403.817,-37.9298,-403.817 1/1:27:0,27,0:0:0:27,0:934,0:-84.3705,-8.12781,0,-84.3705,-8.12781,-84.3705 1/1:36:0,36,0:0:0:36,0:1276,0:-115.143,-10.8371,0,-115.143,-10.8371,-115.143 1/2:25:0,12,13:0:0:12,13:417,468:-72.4423,-38.5463,-34.9339,-34.2494,0,-30.336 1/2:18:0,12,6:0:0:12,6:426,216:-52.6919,-17.9843,-14.372,-35.0657,0,-33.2595 1/1:133:0,128,2:0:0:128,2:4532,72:-407.705,-38.5318,0,-401.83,-32.6464,-401.228 1/1:21:0,20,0:0:0:20,0:694,0:-62.4681,-6.0206,0,-62.4681,-6.0206,-62.4681 chr11 6925598 . A G 34854.3 PASS AB=0.537363;ABP=14.0442;AC=31;AF=0.738095;AN=42;AO=1251;CIGAR=1X;DP=1675;DPB=1675;DPRA=0;EPP=1034.83;EPPR=370.85;GTI=0;LEN=1;MEANALT=1;MQM=59.9568;MQMR=59.9858;NS=21;NUMALT=1;ODDS=23.5968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44429;QR=15170;RO=424;RPL=978;RPP=865.741;RPPR=224.582;RPR=273;RUN=1;SAF=742;SAP=97.2446;SAR=509;SRF=238;SRP=16.8586;SRR=186;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:2190:-197.365,-18.6639,0 1/1:66:0,66:0:0:66:2331:-210.05,-19.868,0 1/1:27:0,27:0:0:27:968:-87.4374,-8.12781,0 0/1:87:39,48:39:1400:48:1699:-127.006,0,-100.11 0/1:155:70,85:70:2508:85:3002:-223.322,0,-179.313 0/1:92:44,48:44:1580:48:1716:-127.031,0,-114.797 1/1:127:0,127:0:0:127:4511:-406.159,-38.2308,0 0/1:57:26,31:26:928:31:1112:-83.2326,0,-66.6795 0/1:86:48,38:48:1705:38:1346:-95.5501,0,-127.845 0/1:18:11,7:11:396:7:252:-17.6104,0,-30.5642 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:34:13,21:13:453:21:756:-58.1322,0,-30.8646 1/1:103:0,103:0:0:103:3675:-330.951,-31.0061,0 0/1:50:26,24:26:932:24:843:-61.1365,0,-69.1474 1/1:114:0,114:0:0:114:4063:-365.855,-34.3174,0 1/1:49:0,49:0:0:49:1752:-157.963,-14.7505,0 1/1:24:0,24:0:0:24:851:-76.9101,-7.22472,0 0/1:199:100,99:100:3580:99:3502:-255.485,0,-262.502 0/1:124:39,85:39:1400:85:3044:-236.862,0,-88.9669 1/1:77:0,77:0:0:77:2747:-247.472,-23.1793,0 1/1:116:3,113:3:108:113:3961:-346.605,-24.8443,0 chr11 7132754 . CGTGGTGTCG TGTAGTGGCA,TGTGGTGGCG 29544.6 PASS AB=0.706383,0.281915;ABP=350.779,391.334;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1245,286;CIGAR=1X2M1X3M1X1M1X,1X6M1X2M;DP=1551;DPB=1551.1;DPRA=0,3.44615;EPP=2706.49,624.051;EPPR=0;GTI=0;LEN=10,10;MEANALT=2.42857,3;MQM=44.6056,59.9895;MQMR=0;NS=21;NUMALT=2;ODDS=14.1614;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=36;PRO=1;QA=42509,10134;QR=0;RO=0;RPL=0,0;RPP=2706.49,624.051;RPPR=0;RPR=1245,286;RUN=1,1;SAF=1245,286;SAP=2706.49,624.051;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:26:0,23,2:0:0:23,2:777,72:-69.3311,-6.92369,0,-63.4545,-1.04886,-62.8524 1/1:21:0,20,0:0:0:20,0:693,0:-61.1227,-6.0206,0,-61.1227,-6.0206,-61.1227 1/1:28:0,27,0:0:0:27,0:916,0:-81.8959,-8.12781,0,-81.8959,-8.12781,-81.8959 1/2:35:0,17,18:0:0:17,18:587,616:-97.3514,-50.3403,-45.2228,-47.3524,0,-41.9339 1/2:63:0,31,32:0:0:31,32:1045,1124:-175.743,-91.835,-82.5031,-84.2502,0,-74.6172 1/2:20:0,11,7:0:0:11,7:364,237:-47.9366,-19.241,-15.9296,-28.7168,0,-26.6096 1/1:32:0,31,0:0:0:31,0:1049,0:-92.5554,-9.33193,0,-92.5554,-9.33193,-92.5554 1/2:49:0,14,35:0:0:14,35:460,1252:-138.051,-102.447,-98.2331,-35.9316,0,-25.3956 1/2:39:0,21,18:0:0:21,18:736,644:-112.206,-52.7584,-46.4367,-59.6897,0,-54.2712 1/1:188:0,176,9:0:0:176,9:5967,305:-527.574,-52.9813,0,-502.844,-28.2509,-500.135 1/1:107:0,97,9:0:0:97,9:3332,324:-294.235,-29.1999,0,-267.796,-2.69344,-265.087 1/2:136:0,111,25:0:0:111,25:3845,880:-378.958,-71.99,-38.5757,-307.318,0,-299.792 1/1:55:0,54,1:0:0:54,1:1869,36:-166.673,-16.2556,0,-163.735,-12.9584,-163.434 1/2:41:0,22,17:0:0:22,17:749,608:-109.499,-49.5751,-42.9524,-59.9139,0,-54.7964 1/1:46:0,46,0:0:0:46,0:1585,0:-141.893,-13.8474,0,-141.893,-13.8474,-141.893 1/1:19:0,19,0:0:0:19,0:667,0:-60.0792,-5.71957,0,-60.0792,-5.71957,-60.0792 1/1:13:0,12,0:0:0:12,0:408,0:-36.4787,-3.61236,0,-36.4787,-3.61236,-36.4787 1/2:505:0,403,95:0:0:403,95:13721,3392:-1371.29,-276.581,-155.266,-1094.75,0,-1066.15 1/2:52:0,34,18:0:0:34,18:1173,644:-147.309,-52.8721,-42.637,-94.789,0,-89.3704 1/1:26:0,26,0:0:0:26,0:886,0:-79.1763,-7.82678,0,-79.1763,-7.82678,-79.1763 1/1:50:0,50,0:0:0:50,0:1680,0:-148.257,-15.0515,0,-148.257,-15.0515,-148.257 chr11 7132777 . C A 42439 PASS AB=0.622746;ABP=191.721;AC=32;AF=0.761905;AN=42;AO=1717;CIGAR=1X;DP=2285;DPB=2285;DPRA=0;EPP=3731.43;EPPR=1234.24;GTI=0;LEN=1;MEANALT=1.04762;MQM=48.8946;MQMR=59.9753;NS=21;NUMALT=1;ODDS=1.01639;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61044;QR=19964;RO=567;RPL=1218;RPP=656.806;RPPR=8.83536;RPR=499;RUN=1;SAF=1218;SAP=656.806;SAR=499;SRF=303;SRP=8.83536;SRR=264;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:4,62:4:144:62:2208:-184.643,-6.55436,0 1/1:42:0,42:0:0:42:1508:-134.593,-12.6433,0 1/1:35:1,34:1:36:34:1216:-105.062,-6.93778,0 0/1:94:60,34:60:2136:34:1176:-76.7575,0,-164.207 0/1:127:76,51:76:2656:51:1815:-124.557,0,-201.054 0/1:65:36,29:36:1262:29:1036:-72.662,0,-94.314 1/1:79:0,79:0:0:79:2810:-249.989,-23.7814,0 0/1:75:51,24:51:1776:24:845:-51.0401,0,-137.542 0/1:110:62,48:62:2192:48:1710:-120.409,0,-164.43 1/1:186:10,176:10:360:176:6253:-517.208,-23.2473,0 0/1:105:11,94:11:392:94:3337:-261.131,0,-4.01191 0/1:134:27,107:27:963:107:3823:-297.891,0,-46.6479 1/1:96:2,94:2:63:94:3359:-294.746,-22.9157,0 0/1:71:42,29:42:1474:29:1035:-71.0277,0,-111.577 1/1:89:0,89:0:0:89:3151:-282.128,-26.7917,0 1/1:48:1,47:1:36:47:1679:-147.481,-10.8512,0 1/1:28:0,28:0:0:28:978:-87.7315,-8.42884,0 0/1:558:141,416:141:4938:416:14800:-1139.75,0,-276.548 0/1:103:37,66:37:1324:66:2353:-179.762,0,-88.456 1/1:71:3,68:3:104:68:2411:-205.978,-11.6703,0 1/1:103:3,100:3:108:100:3541:-304.58,-20.9309,0 chr11 7205175 . G A 24938.7 PASS AB=0.525778;ABP=14.8774;AC=11;AF=0.261905;AN=42;AO=1096;CIGAR=1X;DP=4084;DPB=4084;DPRA=1.19467;EPP=2382.94;EPPR=6454.5;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9644;MQMR=59.9823;NS=21;NUMALT=1;ODDS=26.6624;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38957;QR=105816;RO=2987;RPL=551;RPP=3.08163;RPPR=45.9374;RPR=545;RUN=1;SAF=551;SAP=3.08163;SAR=545;SRF=1619;SRP=48.8104;SRR=1368;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:244:242,2:242:8587:2:72:0,-66.6146,-765.995 0/0:135:134,1:134:4776:1:36:0,-37.0408,-426.398 0/0:127:125,2:125:4438:2:72:0,-31.3941,-392.755 0/1:222:125,97:125:4435:97:3465:-245.233,0,-332.493 0/1:406:195,211:195:6903:211:7434:-546.891,0,-499.124 0/1:243:92,151:92:3286:151:5375:-410.732,0,-222.808 0/0:258:256,2:256:9068:2:72:0,-70.829,-809.266 0/1:196:83,113:83:2953:113:4043:-305.055,0,-206.996 0/1:345:169,176:169:5978:176:6303:-463.506,0,-434.274 0/1:32:17,15:17:608:15:540:-39.3036,0,-45.4191 0/1:23:5,18:5:167:18:644:-51.3669,0,-8.43472 0/1:66:25,41:25:879:41:1457:-111.556,0,-59.5588 0/0:209:209,0:209:7382:0:0:0,-62.9153,-664.435 0/1:185:79,105:79:2756:105:3698:-277.243,0,-192.534 0/0:406:404,2:404:14344:2:72:0,-115.381,-1283.89 0/0:173:171,2:171:6040:2:72:0,-45.2415,-536.872 0/0:171:171,0:171:6098:0:0:0,-51.4761,-548.817 0/1:177:87,90:87:3073:90:3198:-234.76,0,-223.517 0/1:161:97,64:97:3422:64:2268:-155.915,0,-259.726 0/0:185:181,4:181:6409:4:136:0,-43.115,-564.33 0/0:120:120,0:120:4214:0:0:0,-36.1236,-378.953 chr11 7247894 . 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T C 8834.81 PASS AB=0.445161;ABP=35.4003;AC=11;AF=0.261905;AN=42;AO=560;CIGAR=1X;DP=2672;DPB=2672;DPRA=1.24243;EPP=1193.12;EPPR=4243.97;GTI=1;LEN=1;MEANALT=1.125;MQM=59.9821;MQMR=59.9972;NS=21;NUMALT=1;ODDS=3.69907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19877;QR=75613;RO=2110;RPL=3;RPP=1193.12;RPPR=4243.97;RPR=557;RUN=1;SAF=560;SAP=1219.03;SAR=0;SRF=2110;SRP=4584.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:241:240,1:240:8616:1:36:0,-68.95,-771.829 0/0:165:163,1:163:5864:1:36:0,-46.1005,-524.299 0/0:100:100,0:100:3579:0:0:0,-30.103,-322.317 0/1:91:41,50:41:1464:50:1780:-133.089,0,-104.662 0/1:367:199,168:199:7127:168:5961:-426.122,0,-531.009 0/1:81:54,27:54:1940:27:956:-61.9717,0,-150.493 0/0:154:151,3:151:5412:3:100:0,-37.0282,-477.879 0/1:76:40,36:40:1436:36:1270:-91.723,0,-106.659 0/1:222:126,96:126:4495:96:3421:-241.276,0,-337.891 0/1:31:11,20:11:396:20:716:-55.4358,0,-26.6508 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:37:18,19:18:640:19:684:-50.7522,0,-46.7912 0/0:111:111,0:111:3956:0:0:0,-33.4143,-356.23 0/1:117:66,50:66:2363:50:1741:-121.836,0,-177.796 0/0:279:277,2:277:9934:2:72:0,-77.1506,-887.159 0/0:157:157,0:157:5632:0:0:0,-47.2617,-506.999 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/1:107:52,55:52:1850:55:1965:-144.915,0,-134.568 0/1:105:77,28:77:2768:28:995:-58.2565,0,-217.753 0/0:111:111,0:111:3992:0:0:0,-33.4143,-359.468 0/0:56:55,1:55:1965:1:36:0,-13.2594,-173.525 chr11 7390577 . T C 24130.9 PASS AB=0.387653;ABP=397.247;AC=11;AF=0.261905;AN=42;AO=1400;CIGAR=1X;DP=5279;DPB=5279;DPRA=2.344;EPP=3043.07;EPPR=8410.95;GTI=0;LEN=1;MEANALT=1.125;MQM=59.4886;MQMR=59.548;NS=21;NUMALT=1;ODDS=33.3258;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50042;QR=138336;RO=3876;RPL=91;RPP=2304.03;RPPR=5862.38;RPR=1309;RUN=1;SAF=91;SAP=2304.03;SAR=1309;SRF=322;SRP=5855.13;SRR=3554;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:161:161,0:161:5756:0:0:0,-48.4658,-518.095 0/0:83:83,0:83:2963:0:0:0,-24.9855,-266.511 0/0:186:185,0:185:6601:0:0:0,-55.6905,-593.711 0/1:210:152,58:152:5441:58:2084:-124.607,0,-426.517 0/1:253:165,88:165:5862:88:3164:-208.529,0,-451.118 0/1:116:66,50:66:2364:50:1784:-125.854,0,-177.994 0/0:215:213,1:213:7617:1:36:0,-61.182,-681.761 0/1:108:66,42:66:2360:42:1499:-102.69,0,-180.136 0/1:422:244,178:244:8705:178:6338:-443.441,0,-656.311 0/1:465:345,120:345:12238:120:4301:-247.216,0,-960.593 0/1:406:243,163:243:8677:163:5829:-402.196,0,-658.551 0/1:571:353,218:353:12615:218:7795:-529.267,0,-963.177 0/0:249:248,1:248:8840:1:36:0,-71.3582,-791.936 0/1:120:80,40:80:2853:40:1429:-92.7472,0,-220.862 0/0:155:153,1:153:5461:1:36:0,-43.1248,-487.859 0/0:272:271,1:271:9662:1:36:0,-78.2845,-865.91 0/0:171:169,2:169:6052:2:72:0,-44.6443,-537.912 0/1:838:429,409:429:15316:409:14603:-1060.99,0,-1125.16 0/1:87:59,28:59:2104:28:1000:-64.1165,0,-163.435 0/0:155:155,0:155:5553:0:0:0,-46.6596,-499.784 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 chr11 7390589 . G A 71128.4 PASS AB=0.613274;ABP=380.823;AC=31;AF=0.738095;AN=42;AO=3544;CIGAR=1X;DP=4860;DPB=4860;DPRA=0;EPP=7664;EPPR=2841.13;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.4845;MQMR=59.4836;NS=21;NUMALT=1;ODDS=30.7027;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=125983;QR=46712;RO=1311;RPL=3;RPP=7672.67;RPPR=2841.13;RPR=3541;RUN=1;SAF=1;SAP=7690.03;SAR=3543;SRF=0;SRP=2849.81;SRR=1311;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:161:0,161:0:0:161:5751:-517.655,-48.4658,0 1/1:83:0,83:0:0:83:2980:-267.86,-24.9855,0 1/1:189:0,188:0:0:188:6705:-603.114,-56.5936,0 0/1:208:59,149:59:2120:149:5271:-411.849,0,-128.447 0/1:246:88,157:88:3160:157:5586:-428.781,0,-210.428 0/1:117:50,67:50:1783:67:2371:-178.342,0,-125.462 1/1:210:2,208:2:72:208:7358:-655.272,-56.3796,0 0/1:112:45,67:45:1603:67:2390:-181.308,0,-110.826 0/1:214:86,128:86:3059:128:4555:-345.682,0,-211.102 0/1:469:119,350:119:4258:350:12450:-978.551,0,-242.153 0/1:413:166,247:166:5889:247:8787:-666.3,0,-405.515 0/1:569:217,352:217:7756:352:12493:-952.794,0,-526.159 1/1:256:2,254:2:72:254:9005:-803.473,-70.227,0 0/1:120:41,79:41:1476:79:2826:-218.434,0,-96.9682 1/1:149:0,149:0:0:149:5293:-476.335,-44.8535,0 1/1:121:0,121:0:0:121:4291:-386.36,-36.4246,0 1/1:111:0,111:0:0:111:3953:-355.92,-33.4143,0 0/1:836:408,425:408:14465:425:15098:-1106.3,0,-1049.79 0/1:86:28,58:28:999:58:2072:-160.86,0,-64.3307 1/1:153:0,153:0:0:153:5441:-489.714,-46.0576,0 1/1:37:0,37:0:0:37:1307:-117.931,-11.1381,0 chr11 7390610 . C G 71945.2 PASS AB=0.612203;ABP=375.788;AC=31;AF=0.738095;AN=42;AO=3558;CIGAR=1X;DP=4885;DPB=4885;DPRA=0;EPP=7685.74;EPPR=2878.04;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.4902;MQMR=59.4955;NS=21;NUMALT=1;ODDS=30.1176;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=127047;QR=47355;RO=1324;RPL=3554;RPP=7694.4;RPPR=2878.04;RPR=4;RUN=1;SAF=1;SAP=7720.43;SAR=3557;SRF=0;SRP=2878.04;SRR=1324;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:159:0,159:0:0:159:5682:-511.457,-47.8638,0 1/1:84:0,84:0:0:84:2996:-269.301,-25.2865,0 1/1:188:0,188:0:0:188:6689:-601.979,-56.5936,0 0/1:211:59,152:59:2105:152:5399:-422.448,0,-126.193 0/1:253:89,163:89:3204:163:5771:-443.225,0,-212.058 0/1:117:50,67:50:1800:67:2385:-179.619,0,-126.992 1/1:214:2,212:2:72:212:7551:-672.614,-57.5837,0 0/1:114:46,68:46:1629:68:2432:-184.474,0,-112.562 0/1:216:90,126:90:3236:126:4512:-341.127,0,-226.363 0/1:465:119,346:119:4269:346:12356:-971.465,0,-244.345 0/1:411:167,244:167:5925:244:8747:-663.367,0,-409.512 0/1:575:221,354:221:7918:354:12672:-967.057,0,-538.917 1/1:253:2,251:2:68:251:8963:-800.126,-69.7029,0 0/1:121:40,81:40:1425:81:2912:-225.869,0,-92.081 1/1:152:0,152:0:0:152:5452:-490.635,-45.7566,0 1/1:123:0,123:0:0:123:4385:-394.186,-37.0267,0 1/1:110:0,110:0:0:110:3922:-353.134,-33.1133,0 0/1:840:410,428:410:14690:428:15283:-1121.41,0,-1068.59 0/1:86:28,58:28:993:58:2080:-161.577,0,-63.7847 1/1:156:1,155:1:21:155:5542:-496.729,-44.8607,0 1/1:37:0,37:0:0:37:1316:-118.742,-11.1381,0 chr11 7390613 . C T 20108.3 PASS AB=0.386631;ABP=382.123;AC=11;AF=0.261905;AN=42;AO=1317;CIGAR=1X;DP=4866;DPB=4866;DPRA=2.36122;EPP=2862.84;EPPR=7687.85;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.4708;MQMR=59.5123;NS=21;NUMALT=1;ODDS=30.1478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47230;QR=126558;RO=3543;RPL=1317;RPP=2862.84;RPPR=7696.54;RPR=0;RUN=1;SAF=0;SAP=2862.84;SAR=1317;SRF=1;SRP=7687.85;SRR=3542;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:161:161,0:161:5746:0:0:0,-48.4658,-517.19 0/0:81:81,0:81:2870:0:0:0,-24.3834,-258.315 0/0:189:189,0:189:6765:0:0:0,-56.8947,-608.819 0/1:212:152,59:152:5425:59:2105:-125.834,0,-424.425 0/1:246:156,87:156:5577:87:3122:-207.419,0,-428.519 0/1:116:66,50:66:2330:50:1781:-125.586,0,-174.955 0/0:212:210,2:210:7514:2:72:0,-56.9816,-669.287 0/1:115:69,46:69:2468:46:1648:-113.983,0,-187.408 0/1:218:129,89:129:4604:89:3191:-221.713,0,-348.8 0/1:464:345,119:345:12308:119:4249:-242.876,0,-967.331 0/1:406:240,166:240:8580:166:5951:-413.192,0,-649.863 0/1:570:355,215:355:12729:215:7720:-522.822,0,-973.373 0/0:252:250,2:250:8902:2:72:0,-69.0228,-794.097 0/1:122:81,41:81:2904:41:1476:-96.3661,0,-224.847 0/0:152:152,0:152:5464:0:0:0,-45.7566,-491.715 0/0:125:123,0:123:4362:0:0:0,-37.0267,-391.773 0/0:109:109,0:109:3897:0:0:0,-32.8123,-350.898 0/1:840:427,413:427:15244:413:14843:-1082.06,0,-1117.95 0/1:87:59,28:59:2112:28:1000:-64.1165,0,-164.159 0/0:152:152,0:152:5433:0:0:0,-45.7566,-489.042 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 chr11 7391052 . T C 51445.1 PASS AB=0.499587;ABP=3.01209;AC=31;AF=0.738095;AN=42;AO=1897;CIGAR=1X;DP=2507;DPB=2507;DPRA=0;EPP=16.1158;EPPR=167.832;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9568;MQMR=60;NS=21;NUMALT=1;ODDS=23.5612;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67906;QR=21726;RO=609;RPL=895;RPP=16.1158;RPPR=167.832;RPR=1002;RUN=1;SAF=0;SAP=4122.29;SAR=1897;SRF=0;SRP=1325.44;SRR=609;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,150:0:0:150:5379:-483.97,-45.1545,0 1/1:129:0,129:0:0:129:4612:-415.242,-38.8329,0 1/1:106:0,106:0:0:106:3769:-339.037,-31.9092,0 0/1:183:106,77:106:3797:77:2768:-194.272,0,-286.837 0/1:239:94,145:94:3365:145:5186:-394.931,0,-231.118 0/1:83:48,35:48:1679:35:1256:-88.3598,0,-126.405 1/1:150:0,149:0:0:149:5330:-479.471,-44.8535,0 0/1:101:47,54:47:1650:54:1932:-143.753,0,-118.38 0/1:241:128,113:128:4589:113:4014:-288.898,0,-340.624 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:52:30,22:30:1072:22:792:-55.9521,0,-81.1389 1/1:136:0,136:0:0:136:4873:-438.72,-40.9401,0 0/1:104:63,41:63:2256:41:1471:-101.379,0,-171.996 1/1:200:0,200:0:0:200:7164:-644.814,-60.206,0 1/1:105:3,102:3:108:102:3660:-319.528,-21.533,0 1/1:81:0,81:0:0:81:2908:-261.955,-24.3834,0 0/1:83:48,35:48:1713:35:1260:-88.72,0,-129.468 0/1:101:31,70:31:1101:70:2520:-196.647,0,-68.9943 1/1:164:0,164:0:0:164:5852:-526.791,-49.3689,0 1/1:75:0,75:0:0:75:2692:-242.524,-22.5773,0 chr11 7482940 . CTC GTT,CTT 40029.5 PASS AB=0.507346,0.486778;ABP=3.48883,4.56074;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1411,507;CIGAR=1X1M1X,2M1X;DP=1928;DPB=1928;DPRA=0,1.1424;EPP=3066.96,1103.95;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.04762,2.4;MQM=58.1878,59.8619;MQMR=0;NS=21;NUMALT=2;ODDS=13.172;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49531,18122;QR=0;RO=0;RPL=0,0;RPP=3066.96,1103.95;RPPR=0;RPR=1411,507;RUN=1,1;SAF=1411,507;SAP=3066.96,1103.95;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:0,104,7:0:0:104,7:3647,252:-327.3,-31.3071,0,-306.737,-10.3854,-304.63 1/1:79:0,79,0:0:0:79,0:2784,0:-250.508,-23.7814,0,-250.508,-23.7814,-250.508 1/1:75:0,75,0:0:0:75,0:2657,0:-238.818,-22.5773,0,-238.818,-22.5773,-238.818 1/2:102:0,53,49:0:0:53,49:1856,1760:-294.749,-143.933,-127.979,-151.17,0,-136.419 1/2:182:0,88,93:0:0:88,93:3084,3332:-521.963,-271.821,-245.33,-250.214,0,-222.218 1/2:128:0,54,73:0:0:54,73:1907,2616:-367.807,-213.371,-197.116,-154.449,0,-132.474 1/1:135:0,134,1:0:0:134,1:4722,36:-423.846,-40.338,0,-420.908,-37.0408,-420.607 1/2:128:0,78,50:0:0:78,50:2750,1778:-369.03,-145.245,-121.765,-224.139,0,-209.087 1/2:169:0,81,86:0:0:81,86:2840,3067:-481.023,-250.008,-225.625,-231.008,0,-205.12 1/2:22:0,12,10:0:0:12,10:422,360:-64.0794,-29.734,-26.1216,-34.7015,0,-31.6912 1/2:4:0,1,3:0:0:1,3:36,108:-12.1086,-9.17208,-8.87105,-3.29624,0,-2.39315 1/2:27:0,11,15:0:0:11,15:394,536:-75.8199,-43.7753,-40.464,-32.1141,0,-27.5986 1/1:116:0,116,0:0:0:116,0:4072,0:-365.738,-34.9195,0,-365.738,-34.9195,-365.738 1/2:92:0,37,55:0:0:37,55:1310,1949:-265.618,-159.099,-147.961,-106.873,0,-90.3164 1/1:128:0,128,0:0:0:128,0:4520,0:-406.899,-38.5318,0,-406.899,-38.5318,-406.899 1/1:43:0,43,0:0:0:43,0:1482,0:-133.55,-12.9443,0,-133.55,-12.9443,-133.55 1/1:59:0,56,0:0:0:56,0:1937,0:-174.194,-16.8577,0,-174.194,-16.8577,-174.194 1/2:108:0,62,45:0:0:62,45:2159,1612:-306.986,-131.551,-112.888,-175.536,0,-161.99 1/2:59:0,41,18:0:0:41,18:1423,644:-168.252,-52.8702,-40.528,-115.736,0,-110.317 1/1:113:0,112,1:0:0:112,1:3908,36:-351.136,-33.7154,0,-348.198,-30.4181,-347.897 1/1:48:0,46,1:0:0:46,1:1621,36:-145.404,-13.8474,0,-142.467,-10.8709,-142.166 chr11 7611270 . G A 25772.3 PASS AB=0.53137;ABP=9.68598;AC=31;AF=0.738095;AN=42;AO=991;CIGAR=1X;DP=1362;DPB=1362;DPRA=0;EPP=2128.96;EPPR=804.284;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.8537;MQMR=59.8455;NS=21;NUMALT=1;ODDS=4.74961;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34856;QR=13022;RO=369;RPL=444;RPP=26.2567;RPPR=3.06326;RPR=547;RUN=1;SAF=441;SAP=29.0439;SAR=550;SRF=186;SRP=3.06326;SRR=183;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:2,57:2:72:57:1993:-172.797,-10.924,0 1/1:29:0,29:0:0:29:1009:-91.1187,-8.72987,0 1/1:89:0,89:0:0:89:3133:-282.182,-26.7917,0 0/1:69:25,43:25:875:43:1501:-114.549,0,-58.2366 0/1:133:67,66:67:2370:66:2349:-171.575,0,-173.519 0/1:29:9,20:9:316:20:711:-55.5858,0,-20.049 1/1:43:0,43:0:0:43:1527:-137.722,-12.9443,0 0/1:101:49,52:49:1715:52:1853:-136.645,0,-124.186 0/1:113:44,69:44:1567:69:2443:-186.106,0,-107.304 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:22:13,9:13:468:9:324:-22.8832,0,-35.837 1/1:147:1,146:1:36:146:5124:-457.579,-40.6531,0 0/1:117:68,49:68:2386:49:1717:-119.574,0,-179.396 1/1:105:0,105:0:0:105:3669:-330.412,-31.6082,0 1/1:21:0,21:0:0:21:729:-65.9287,-6.32163,0 1/1:19:1,18:1:36:18:636:-53.9698,-2.1213,0 0/1:90:51,39:51:1789:39:1369:-96.4138,0,-134.198 0/1:96:33,63:33:1176:63:2193:-168.732,0,-77.2489 1/1:45:0,44:0:0:44:1548:-139.025,-13.2453,0 1/1:24:0,24:0:0:24:848:-76.6315,-7.22472,0 chr11 7664854 . G C 12975 PASS AB=0.562121;ABP=47.2557;AC=11;AF=0.261905;AN=42;AO=753;CIGAR=1X;DP=2518;DPB=2518;DPRA=0.940243;EPP=1638.13;EPPR=3835.66;GTI=0;LEN=1;MEANALT=1;MQM=59.8035;MQMR=59.9649;NS=21;NUMALT=1;ODDS=6.1327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26889;QR=63300;RO=1765;RPL=753;RPP=1638.13;RPPR=3835.66;RPR=0;RUN=1;SAF=0;SAP=1638.13;SAR=753;SRF=0;SRP=3835.66;SRR=1765;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:125:124,1:124:4448:1:36:0,-34.0305,-396.891 0/0:118:118,0:118:4220:0:0:0,-35.5215,-379.981 0/0:84:82,2:82:2944:2:72:0,-18.4498,-258.357 0/1:226:103,123:103:3696:123:4388:-326.927,0,-264.809 0/1:260:94,166:94:3360:166:5913:-453.97,0,-224.309 0/1:141:53,88:53:1896:88:3156:-241.811,0,-128.473 0/0:165:164,1:164:5880:1:36:0,-46.0717,-525.711 0/1:122:50,72:50:1784:72:2554:-193.376,0,-124.117 0/1:164:86,78:86:3096:78:2792:-202.151,0,-229.497 0/1:28:9,19:9:324:19:684:-53.4615,0,-21.077 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:39:13,26:13:460:26:917:-71.1044,0,-29.9952 0/0:136:136,0:136:4872:0:0:0,-40.9401,-438.63 0/1:158:77,81:77:2768:81:2912:-214.747,0,-201.798 0/0:158:158,0:158:5672:0:0:0,-47.5627,-510.595 0/0:105:104,1:104:3728:1:36:0,-28.0099,-332.122 0/0:111:108,3:108:3864:3:108:0,-23.3392,-337.841 0/1:104:50,54:50:1800:54:1921:-141.858,0,-130.975 0/1:70:41,29:41:1476:29:1040:-72.8399,0,-112.064 0/0:104:101,3:101:3636:3:108:0,-21.2319,-317.363 0/0:92:92,0:92:3304:0:0:0,-27.6948,-297.578 chr11 7683757 . 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T C 18310.4 PASS AB=0.563071;ABP=21.9104;AC=31;AF=0.738095;AN=42;AO=701;CIGAR=1X;DP=941;DPB=941;DPRA=0;EPP=1525.21;EPPR=515.514;GTI=1;LEN=1;MEANALT=1;MQM=59.9786;MQMR=59.925;NS=21;NUMALT=1;ODDS=0.934353;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24719;QR=8527;RO=240;RPL=348;RPP=3.08774;RPPR=7.38944;RPR=353;RUN=1;SAF=348;SAP=3.08774;SAR=353;SRF=132;SRP=8.22183;SRR=108;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 1/1:41:0,41:0:0:41:1451:-130.885,-12.3422,0 1/1:29:0,29:0:0:29:1023:-92.3817,-8.72987,0 0/1:41:25,16:25:900:16:568:-39.1096,0,-68.9788 0/1:73:39,34:39:1400:34:1200:-86.3285,0,-104.324 0/1:23:9,14:9:324:14:500:-38.4123,0,-22.5822 1/1:51:1,50:1:36:50:1779:-156.794,-11.7543,0 0/1:34:17,17:17:608:17:608:-44.817,0,-44.817 0/1:69:31,38:31:1100:38:1364:-102.29,0,-78.4529 0/1:12:4,8:4:144:8:280:-21.9269,0,-9.70126 0/1:4:1,3:1:32:3:108:-8.87105,0,-1.99519 0/1:9:1,8:1:36:8:284:-23.1941,0,-0.889005 1/1:50:0,50:0:0:50:1749:-157.692,-15.0515,0 0/1:39:22,17:22:784:17:608:-43.3119,0,-59.1437 1/1:50:0,50:0:0:50:1753:-158.052,-15.0515,0 1/1:30:0,30:0:0:30:1068:-96.4321,-9.0309,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:144:65,79:65:2271:79:2756:-204.928,0,-161.297 0/1:99:25,74:25:892:74:2588:-203.365,0,-50.7977 1/1:19:0,19:0:0:19:658:-59.5413,-5.71957,0 1/1:77:0,77:0:0:77:2690:-242.337,-23.1793,0 chr11 8299089 . C T 4938.61 PASS AB=0.431985;ABP=24.8687;AC=11;AF=0.261905;AN=42;AO=236;CIGAR=1X;DP=938;DPB=938;DPRA=1.30102;EPP=7.46366;EPPR=3.05993;GTI=1;LEN=1;MEANALT=1.16667;MQM=60;MQMR=59.9871;NS=21;NUMALT=1;ODDS=1.27158;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8329;QR=24710;RO=700;RPL=236;RPP=515.478;RPPR=1523.04;RPR=0;RUN=1;SAF=129;SAP=7.46366;SAR=107;SRF=348;SRP=3.05993;SRR=352;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:28,0:28:987:0:0:0,-8.42884,-89.143 0/0:43:43,0:43:1526:0:0:0,-12.9443,-137.632 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 0/1:42:16,26:16:559:26:906:-69.2099,0,-37.9943 0/1:69:32,37:32:1120:37:1316:-97.9707,0,-80.3338 0/1:23:14,9:14:504:9:320:-22.2187,0,-38.774 0/0:50:50,0:50:1752:0:0:0,-15.0515,-157.961 0/1:33:17,16:17:608:16:572:-41.8794,0,-45.118 0/1:68:38,30:38:1364:30:1066:-75.7819,0,-102.591 0/1:12:8,4:8:284:4:140:-9.33222,0,-22.291 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.5581 0/0:51:50,1:50:1784:1:36:0,-11.7543,-157.244 0/1:38:17,20:17:604:20:711:-52.8179,0,-43.1929 0/0:50:50,0:50:1765:0:0:0,-15.0515,-159.131 0/0:30:30,0:30:1049:0:0:0,-9.0309,-94.7182 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/1:142:78,63:78:2728:63:2195:-155.007,0,-202.957 0/1:103:75,28:75:2628:28:995:-58.8579,0,-205.758 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 0/0:76:76,0:76:2652:0:0:0,-22.8783,-238.923 chr11 8299129 . CTGAG TTGAA,CTGAA 54788.8 PASS AB=0.479485,0.51247;ABP=7.55415,4.68913;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1993,647;CIGAR=1X3M1X,4M1X;DP=2660;DPB=2660.2;DPRA=0,1.4449;EPP=4330.75,1407.95;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.57143,3;MQM=58.8796,59.4219;MQMR=0;NS=21;NUMALT=2;ODDS=27.1588;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=68922,23159;QR=0;RO=0;RPL=0,0;RPP=4330.75,1407.95;RPPR=0;RPR=1993,647;RUN=1,1;SAF=1993,647;SAP=4330.75,1407.95;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:0,154,2:0:0:154,2:5334,72:-478.88,-46.3586,0,-473.005,-40.451,-472.403 1/1:140:0,140,0:0:0:140,0:4831,0:-434.323,-42.1442,0,-434.323,-42.1442,-434.323 1/1:66:0,66,0:0:0:66,0:2307,0:-207.85,-19.868,0,-207.85,-19.868,-207.85 1/2:150:0,71,78:0:0:71,78:2421,2785:-423.386,-227.138,-205.765,-196.347,0,-172.867 1/2:273:0,126,145:0:0:126,145:4384,5188:-779.25,-422.968,-385.039,-356.342,0,-312.693 1/2:142:0,77,63:0:0:77,63:2654,2234:-396.072,-181.205,-158.025,-214.924,0,-195.959 1/1:146:0,144,1:0:0:144,1:4998,36:-448.285,-43.3483,0,-445.348,-40.4109,-445.047 1/2:113:0,69,43:0:0:69,43:2377,1542:-318.652,-125.63,-104.859,-193.104,0,-180.16 1/2:238:0,105,132:0:0:105,132:3657,4736:-683.449,-386.274,-354.666,-297.207,0,-257.471 1/2:14:0,4,10:0:0:4,10:135,360:-40.6672,-29.734,-28.5299,-11.2769,0,-8.26662 1/2:17:0,6,10:0:0:6,10:203,360:-45.4645,-29.0131,-27.2069,-16.5029,0,-13.4926 1/2:29:0,18,10:0:0:18,10:629,360:-80.5897,-29.4295,-24.011,-51.2109,0,-48.2006 1/1:310:0,308,1:0:0:308,1:10613,36:-953.881,-92.7172,0,-950.943,-89.7036,-950.642 1/2:118:0,57,61:0:0:57,61:1960,2178:-336.683,-177.91,-160.751,-159.123,0,-140.76 1/1:207:0,205,1:0:0:205,1:7153,36:-643.055,-61.7112,0,-640.118,-58.75,-639.817 1/1:110:0,110,0:0:0:110,0:3853,0:-346.787,-33.1133,0,-346.787,-33.1133,-346.787 1/1:113:0,113,0:0:0:113,0:3892,0:-350.408,-34.0164,0,-350.408,-34.0164,-350.408 1/2:73:0,28,45:0:0:28,45:971,1620:-211.316,-132.395,-123.967,-79.2718,0,-65.7255 1/2:76:0,35,40:0:0:35,40:1152,1436:-209.886,-117.186,-106.649,-92.732,0,-80.6908 1/1:123:0,114,5:0:0:114,5:3969,180:-356.715,-34.3174,0,-342.028,-19.6377,-340.523 1/1:44:0,43,0:0:0:43,0:1429,0:-128.41,-12.9443,0,-128.41,-12.9443,-128.41 chr11 8299146 . G A 9989.38 PASS AB=0.51458;ABP=5.16315;AC=11;AF=0.261905;AN=42;AO=609;CIGAR=1X;DP=2515;DPB=2515;DPRA=1.12959;EPP=1282.36;EPPR=3782.9;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.202;MQMR=59.0598;NS=21;NUMALT=1;ODDS=24.7434;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21279;QR=67577;RO=1905;RPL=5;RPP=1282.36;RPPR=3782.9;RPR=604;RUN=1;SAF=609;SAP=1325.44;SAR=0;SRF=1905;SRP=4139.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:147:146,1:146:5194:1:32:0,-41.0521,-462.036 0/0:135:135,0:135:4784:0:0:0,-40.639,-429.62 0/0:62:62,0:62:2204:0:0:0,-18.6639,-198.556 0/1:138:64,74:64:2267:74:2575:-190.149,0,-162.462 0/1:249:115,134:115:4057:134:4683:-346.516,0,-290.19 0/1:135:74,60:74:2644:60:2061:-145.012,0,-196.917 0/0:142:141,1:141:5014:1:36:0,-39.148,-447.172 0/1:108:68,40:68:2384:40:1403:-93.8247,0,-182.014 0/1:225:100,125:100:3562:125:4403:-328.275,0,-252.995 0/1:12:3,9:3:104:9:308:-24.4389,0,-6.09045 0/1:16:6,10:6:212:10:336:-25.5281,0,-14.6 0/1:29:19,10:19:672:10:360:-23.9783,0,-52.0435 0/0:292:291,1:291:10286:1:36:0,-84.3025,-919.61 0/1:107:51,56:51:1800:56:1982:-146.435,0,-129.612 0/0:196:196,0:196:6945:0:0:0,-59.0019,-624.152 0/0:104:103,1:103:3688:1:36:0,-27.7098,-328.294 0/0:112:112,0:112:3979:0:0:0,-33.7154,-358.138 0/1:74:29,45:29:1027:45:1568:-119.043,0,-70.466 0/1:73:36,37:36:1275:37:1288:-94.2456,0,-92.5478 0/0:119:114,5:114:4076:5:172:0,-20.005,-350.942 0/0:40:40,0:40:1403:0:0:0,-12.0412,-126.026 chr11 9552271 . C T 4979.03 PASS AB=0.439863;ABP=21.2925;AC=11;AF=0.261905;AN=42;AO=257;CIGAR=1X;DP=1082;DPB=1082;DPRA=1.06544;EPP=261.77;EPPR=1157.91;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.7121;MQMR=59.9745;NS=21;NUMALT=1;ODDS=10.2272;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9158;QR=29353;RO=824;RPL=3;RPP=535.325;RPPR=1740.57;RPR=254;RUN=1;SAF=219;SAP=279.818;SAR=38;SRF=749;SRP=1200.16;SRR=75;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1843:1:36:0,-12.3563,-162.551 0/0:39:39,0:39:1392:0:0:0,-11.7402,-125.579 0/0:32:32,0:32:1139:0:0:0,-9.63296,-102.79 0/1:54:31,23:31:1095:23:828:-58.5885,0,-82.6035 0/1:99:55,44:55:1968:44:1569:-111.698,0,-147.593 0/1:32:16,16:16:572:16:572:-42.1805,0,-42.1805 0/0:100:100,0:100:3563:0:0:0,-30.103,-320.879 0/1:44:26,18:26:932:18:648:-45.4066,0,-70.9535 0/1:155:81,73:81:2870:73:2584:-185.605,0,-211.816 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:5:2,3:2:68:3:108:-8.57002,0,-4.95256 0/1:9:5,4:5:180:4:140:-10.2353,0,-13.8428 0/0:51:51,0:51:1811:0:0:0,-15.3525,-163.271 0/1:46:21,25:21:738:25:873:-65.0361,0,-52.894 0/0:63:63,0:63:2243:0:0:0,-18.9649,-202.133 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.224 0/1:66:39,27:39:1400:27:972:-67.9299,0,-106.431 0/1:64:46,18:46:1648:18:648:-39.386,0,-129.343 0/0:35:35,0:35:1235:0:0:0,-10.536,-111.453 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 chr11 9552315 . G A 16623.1 PASS AB=0.537893;ABP=9.75752;AC=31;AF=0.738095;AN=42;AO=793;CIGAR=1X;DP=1045;DPB=1045;DPRA=0;EPP=1716.31;EPPR=550.221;GTI=0;LEN=1;MEANALT=1;MQM=59.6255;MQMR=59.0198;NS=21;NUMALT=1;ODDS=2.61822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28387;QR=9024;RO=252;RPL=792;RPP=1716.31;RPPR=550.221;RPR=1;RUN=1;SAF=0;SAP=1724.99;SAR=793;SRF=0;SRP=550.221;SRR=252;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:95:1,94:1:36:94:3369:-299.809,-24.9996,0 1/1:34:0,34:0:0:34:1207:-108.913,-10.235,0 1/1:54:0,54:0:0:54:1928:-173.764,-16.2556,0 0/1:60:32,28:32:1152:28:1008:-72.9638,0,-85.8853 0/1:78:34,44:34:1212:44:1580:-119.011,0,-85.8464 0/1:32:12,20:12:432:20:720:-55.4733,0,-29.5773 1/1:63:0,63:0:0:63:2268:-204.347,-18.9649,0 0/1:77:37,40:37:1324:40:1440:-106.701,0,-96.2288 0/1:75:41,34:41:1472:34:1216:-87.167,0,-109.691 0/1:6:2,4:2:68:4:144:-11.5074,0,-4.65153 0/1:6:4,2:4:144:2:72:-4.79102,0,-11.5037 0/1:16:6,10:6:216:10:356:-27.5648,0,-14.9736 1/1:43:0,43:0:0:43:1535:-138.438,-12.9443,0 0/1:64:30,34:30:1068:34:1212:-90.1145,0,-77.1377 1/1:91:0,91:0:0:91:3238:-291.626,-27.3937,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 0/1:74:35,39:35:1252:39:1387:-102.852,0,-90.6379 0/1:53:17,36:17:612:36:1292:-100.623,0,-39.4294 1/1:43:1,42:1:36:42:1503:-131.965,-9.34602,0 1/1:40:0,40:0:0:40:1440:-129.284,-12.0412,0 chr11 9552319 . CT CG,TG 22139.6 PASS AB=0.53578,0.46422;ABP=9.0705,9.0705;AC=31,11;AF=0.738095,0.261905;AN=42;AO=794,255;CIGAR=1M1X,2X;DP=1051;DPB=1051;DPRA=0,1.16635;EPP=1718.48,556.736;EPPR=7.35324;GTI=0;LEN=1,2;MEANALT=1.61905,2;MQM=59.6574,58.9216;MQMR=60;NS=21;NUMALT=2;ODDS=2.63772;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28191,8965;QR=64;RO=2;RPL=793,255;RPP=1718.48,556.736;RPPR=7.35324;RPR=1,0;RUN=1,1;SAF=0,0;SAP=1727.16,556.736;SAR=794,255;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,97,1:0:0:97,1:3444,36:-309.798,-29.1999,0,-306.861,-25.9027,-306.56 1/1:33:0,33,0:0:0:33,0:1159,0:-104.609,-9.93399,0,-104.609,-9.93399,-104.609 1/1:55:0,55,0:0:0:55,0:1948,0:-175.563,-16.5567,0,-175.563,-16.5567,-175.563 1/2:59:0,27,32:0:0:27,32:960,1133:-170.827,-92.6027,-84.4749,-78.5792,0,-68.9463 1/2:78:0,44,34:0:0:44,34:1563,1182:-223.804,-96.4389,-83.1936,-127.716,0,-117.481 1/2:33:0,21,12:0:0:21,12:752,430:-96.7213,-35.4171,-29.0955,-61.6622,0,-58.0498 1/1:61:0,61,0:0:0:61,0:2163,0:-194.927,-18.3628,0,-194.927,-18.3628,-194.927 1/2:79:0,41,38:0:0:41,38:1456,1316:-225.822,-107.195,-94.8529,-118.977,0,-107.538 1/2:74:0,33,41:0:0:33,41:1176,1463:-214.972,-119.117,-109.183,-96.2105,0,-83.8683 1/2:6:0,4,2:0:0:4,2:144,67:-17.5271,-5.76078,-4.55666,-12.1095,0,-11.5074 1/2:6:0,2,4:0:0:2,4:70,144:-17.6372,-12.1058,-11.5037,-5.87874,0,-4.67462 1/2:16:0,10,6:0:0:10,6:360,216:-47.3581,-17.9839,-14.9736,-29.734,0,-27.9278 1/1:43:0,43,0:0:0:43,0:1536,0:-138.528,-12.9443,0,-138.528,-12.9443,-138.528 1/2:64:0,34,30:0:0:34,30:1196,1048:-182.923,-85.5685,-75.3335,-97.7044,0,-88.6735 1/1:91:0,91,0:0:0:91,0:3244,0:-292.17,-27.3937,0,-292.17,-27.3937,-292.17 1/1:11:0,11,0:0:0:11,0:396,0:-35.9827,-3.31133,0,-35.9827,-3.31133,-35.9827 1/1:28:1,27,0:1:36:27,0:960,0:-83.118,-4.83057,0,-83.419,-8.12781,-86.3566 1/2:77:0,40,37:0:0:40,37:1395,1287:-218.388,-104.931,-92.8903,-113.805,0,-102.667 1/2:53:0,36,17:0:0:36,17:1286,607:-154.658,-49.8146,-38.9776,-105.2,0,-100.083 1/1:45:0,44,1:0:0:44,1:1571,36:-141.321,-13.2453,0,-138.383,-9.94808,-138.082 1/1:41:1,40,0:1:28:40,0:1412,0:-124.335,-9.5425,0,-124.636,-12.0412,-126.853 chr11 9581677 . G A 3221.24 PASS AB=0.43112;ABP=44.5911;AC=11;AF=0.261905;AN=42;AO=436;CIGAR=1X;DP=1847;DPB=1847;DPRA=1.11943;EPP=949.772;EPPR=3062.61;GTI=4;LEN=1;MEANALT=1.08333;MQM=26.3624;MQMR=17.3563;NS=21;NUMALT=1;ODDS=0.624081;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15627;QR=50355;RO=1409;RPL=436;RPP=949.772;RPPR=3062.61;RPR=0;RUN=1;SAF=0;SAP=949.772;SAR=436;SRF=0;SRP=3062.61;SRR=1409;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:108:107,0:107:3824:0:0:0,-32.2102,-180.842 0/0:57:57,0:57:2031:0:0:0,-17.1587,-61.2214 0/0:111:111,0:111:3979:0:0:0,-33.4143,-187.035 0/1:157:80,76:80:2864:76:2732:-124.378,0,-88.6788 0/1:242:136,106:136:4871:106:3791:-164.418,0,-156.903 0/1:103:62,41:62:2219:41:1472:-70.0762,0,-37.2155 0/0:97:96,1:96:3443:1:36:0,-26.6412,-100.463 0/1:59:37,22:37:1320:22:788:-39.9002,0,-29.6025 0/1:191:133,58:133:4748:58:2088:-71.0858,0,-200.779 0/1:5:3,2:3:99:2:72:-4.0101,0,-2.30157 0/1:11:4,7:4:144:7:252:-14.0381,0,-1.12269 0/1:14:6,8:6:216:8:288:-17.0469,0,-3.38 0/0:82:82,0:82:2920:0:0:0,-24.6845,-139.867 0/1:88:45,43:45:1612:43:1528:-69.7769,0,-50.371 0/0:111:111,0:111:3960:0:0:0,-33.4143,-186.734 0/0:65:65,0:65:2316:0:0:0,-19.5669,-127.2 0/0:33:33,0:33:1184:0:0:0,-9.93399,-64.4221 0/1:68:27,41:27:972:41:1468:-86.7879,0,-13.626 0/1:71:40,31:40:1402:31:1112:-48.9934,0,-46.9324 0/0:121:121,0:121:4327:0:0:0,-36.4246,-150.673 0/0:53:53,0:53:1904:0:0:0,-15.9546,-56.921 chr11 9621933 . 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T G 73435 PASS AB=0.503661;ABP=3.2329;AC=31;AF=0.738095;AN=42;AO=2854;CIGAR=1X;DP=3818;DPB=3818;DPRA=0;EPP=1633.74;EPPR=1100.74;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9975;MQMR=59.999;NS=21;NUMALT=1;ODDS=35.4416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=101969;QR=34369;RO=961;RPL=695;RPP=1633.74;RPPR=1100.74;RPR=2159;RUN=1;SAF=2854;SAP=6200.39;SAR=0;SRF=961;SRP=2089.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:171:3,167:3:108:167:5992:-529.309,-41.4598,0 1/1:176:0,176:0:0:176:6285:-565.743,-52.9813,0 1/1:142:0,142:0:0:142:5071:-456.534,-42.7463,0 0/1:222:99,121:99:3540:121:4318:-322.229,0,-252.242 0/1:469:255,214:255:9129:214:7663:-548.522,0,-680.399 0/1:229:106,123:106:3788:123:4396:-326.878,0,-272.183 1/1:287:1,286:1:32:286:10228:-917.248,-83.1963,0 0/1:163:81,82:81:2900:82:2923:-214.236,0,-212.168 0/1:394:192,202:192:6855:202:7208:-530.169,0,-498.416 0/1:19:9,10:9:324:10:356:-26.6617,0,-23.7863 0/1:15:11,4:11:396:4:144:-8.79817,0,-31.4673 0/1:50:31,19:31:1116:19:669:-45.4824,0,-85.7002 1/1:169:0,169:0:0:169:6021:-541.995,-50.8741,0 0/1:195:98,97:98:3512:97:3468:-253.632,0,-257.589 1/1:325:2,323:2:72:323:11561:-1033.52,-90.998,0 1/1:199:0,199:0:0:199:7108:-639.778,-59.905,0 1/1:193:1,192:1:36:192:6858:-613.69,-54.5005,0 0/1:99:49,50:49:1737:50:1772:-129.958,0,-126.811 0/1:57:16,41:16:576:41:1472:-115.617,0,-35.0163 1/1:180:7,173:7:248:173:6163:-532.105,-31.5212,0 1/1:64:0,64:0:0:64:2293:-206.63,-19.2659,0 chr11 10272063 . G A 16450.6 PASS AB=0.509158;ABP=4.40227;AC=11;AF=0.261905;AN=42;AO=985;CIGAR=1X;DP=3792;DPB=3792;DPRA=1.09291;EPP=2141.91;EPPR=6096.16;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.9827;MQMR=59.9975;NS=21;NUMALT=1;ODDS=25.1932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35046;QR=99928;RO=2806;RPL=985;RPP=2141.91;RPPR=6096.16;RPR=0;RUN=1;SAF=985;SAP=2141.91;SAR=0;SRF=2806;SRP=6096.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:170:166,3:166:5916:3:108:0,-41.0464,-522.511 0/0:178:178,0:178:6247:0:0:0,-53.5833,-562.33 0/0:136:136,0:136:4838:0:0:0,-40.9401,-435.573 0/1:214:117,97:117:4187:97:3453:-246.562,0,-312.591 0/1:470:212,258:212:7516:258:9184:-685.052,0,-535 0/1:231:119,112:119:4272:112:4007:-291.226,0,-315.119 0/0:278:278,0:278:9895:0:0:0,-83.6863,-890.497 0/1:161:80,81:80:2857:81:2891:-211.96,0,-208.9 0/1:399:199,200:199:7094:200:7118:-520.572,0,-518.407 0/1:19:10,9:10:360:9:320:-23.4228,0,-27.0247 0/1:16:4,12:4:144:12:432:-34.4047,0,-8.49714 0/1:49:17,32:17:608:32:1144:-88.519,0,-40.3016 0/0:164:164,0:164:5839:0:0:0,-49.3689,-525.623 0/1:187:89,98:89:3188:98:3441:-253.612,0,-230.851 0/0:324:322,2:322:11473:2:72:0,-90.697,-1025.61 0/0:195:195,0:195:6961:0:0:0,-58.7008,-626.556 0/0:193:192,1:192:6845:1:32:0,-54.8995,-612.922 0/1:103:50,53:50:1783:53:1891:-139.461,0,-129.746 0/1:62:41,21:41:1468:21:737:-47.9868,0,-113.752 0/0:178:172,6:172:6123:6:216:0,-33.7928,-531.381 0/0:65:65,0:65:2314:0:0:0,-19.5669,-208.519 chr11 10272071 . T A 59331.1 PASS AB=0.499215;ABP=3.02053;AC=31;AF=0.738095;AN=42;AO=2834;CIGAR=1X;DP=3805;DPB=3805;DPRA=0;EPP=6156.96;EPPR=2109.34;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9979;MQMR=60;NS=21;NUMALT=1;ODDS=27.5624;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=101305;QR=34322;RO=970;RPL=2834;RPP=6156.96;RPPR=2109.34;RPR=0;RUN=1;SAF=2834;SAP=6156.96;SAR=0;SRF=970;SRP=2109.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:171:3,168:3:108:168:6001:-530.119,-41.401,0 1/1:175:0,175:0:0:175:6253:-562.864,-52.6803,0 1/1:140:0,140:0:0:140:5020:-451.945,-42.1442,0 0/1:216:95,121:95:3387:121:4305:-322.605,0,-240.023 0/1:471:253,218:253:8990:218:7763:-556.92,0,-667.3 0/1:231:109,122:109:3855:122:4372:-324.116,0,-277.609 1/1:282:0,282:0:0:282:10084:-907.493,-84.8905,0 0/1:162:80,82:80:2851:82:2944:-216.427,0,-208.061 0/1:398:200,197:200:7052:197:7042:-514.061,0,-514.969 0/1:19:9,10:9:311:10:356:-26.6617,0,-22.6042 0/1:16:12,4:12:419:4:144:-8.49714,0,-33.2262 0/1:48:31,17:31:1108:17:612:-40.964,0,-85.5816 1/1:173:0,173:0:0:173:6192:-557.378,-52.0782,0 0/1:190:98,92:98:3421:92:3269:-237.232,0,-250.914 1/1:324:2,322:2:72:322:11492:-1027.32,-90.697,0 1/1:194:1,193:1:36:193:6914:-618.726,-54.8015,0 1/1:192:1,191:1:36:191:6852:-613.149,-54.1995,0 0/1:100:50,50:50:1762:50:1796:-131.819,0,-128.759 0/1:60:19,41:19:671:41:1472:-114.714,0,-42.654 1/1:180:7,173:7:243:173:6180:-534.092,-31.9779,0 1/1:63:0,63:0:0:63:2242:-202.042,-18.9649,0 chr11 10325917 . G T 14366 PASS AB=0.503175;ABP=3.06545;AC=31;AF=0.738095;AN=42;AO=995;CIGAR=1X;DP=1311;DPB=1311;DPRA=0;EPP=2137.65;EPPR=680.537;GTI=0;LEN=1;MEANALT=1;MQM=29.3327;MQMR=42.9146;NS=21;NUMALT=1;ODDS=16.8713;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35566;QR=11303;RO=316;RPL=3;RPP=2137.65;RPPR=680.537;RPR=992;RUN=1;SAF=0;SAP=2163.63;SAR=995;SRF=0;SRP=689.196;SRR=316;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92:0:0:92:3300:-236.849,-27.6948,0 1/1:59:0,59:0:0:59:2101:-142.546,-17.7608,0 1/1:78:1,77:1:36:77:2749:-195.583,-19.9442,0 0/1:54:27,27:27:953:27:942:-52.7366,0,-68.2465 0/1:173:86,87:86:3065:87:3113:-172.778,0,-216.938 0/1:36:25,11:25:896:11:396:-16.6021,0,-67.9859 1/1:69:0,69:0:0:69:2476:-170.829,-20.7711,0 0/1:24:12,12:12:428:12:428:-22.5258,0,-30.4861 0/1:83:37,46:37:1317:46:1652:-99.8434,0,-92.5839 0/1:30:8,22:8:288:22:792:-44.0694,0,-16.3983 0/1:10:6,4:6:216:4:144:-7.11365,0,-16.2545 0/1:45:20,25:20:720:25:900:-46.779,0,-48.8982 1/1:43:0,43:0:0:43:1544:-112.743,-12.9443,0 0/1:59:32,27:32:1152:27:968:-50.8945,0,-83.7108 1/1:125:0,125:0:0:125:4462:-324.565,-37.6288,0 1/1:42:0,42:0:0:42:1500:-112.882,-12.6433,0 1/1:55:0,55:0:0:55:1938:-146.901,-16.5567,0 0/1:59:36,23:36:1296:23:820:-39.0047,0,-94.9798 0/1:57:24,33:24:864:33:1188:-68.5916,0,-58.6007 1/1:80:2,78:2:72:78:2789:-182.583,-17.3622,0 1/1:38:0,38:0:0:38:1364:-89.0757,-11.4391,0 chr11 11013040 . GAATC AAATA 50106 PASS AB=0.529614;ABP=14.0711;AC=31;AF=0.738095;AN=42;AO=2365;CIGAR=1X3M1X;DP=3065;DPB=3065;DPRA=0;EPP=4898.22;EPPR=1202;GTI=1;LEN=5;MEANALT=1.66667;MQM=59.8744;MQMR=60;NS=21;NUMALT=1;ODDS=6.71625;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=83214;QR=24010;RO=685;RPL=2337;RPP=4898.22;RPPR=1209.81;RPR=28;RUN=1;SAF=0;SAP=5138.54;SAR=2365;SRF=1;SRP=1481.8;SRR=684;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:178:2,176:2:72:176:6167:-548.249,-46.7466,0 1/1:153:0,152:0:0:152:5395:-485.432,-45.7566,0 1/1:134:0,133:0:0:133:4714:-424.037,-40.037,0 0/1:152:79,72:79:2756:72:2537:-182.767,0,-202.467 0/1:394:192,200:192:6760:200:7011:-512.729,0,-490.147 0/1:200:69,129:69:2449:129:4532:-348.088,0,-160.702 1/1:253:0,251:0:0:251:8767:-788.386,-75.5585,0 0/1:141:64,77:64:2237:77:2729:-203.409,0,-159.148 0/1:185:81,103:81:2859:103:3626:-270.937,0,-201.947 0/1:23:5,18:5:174:18:628:-49.9214,0,-9.07779 0/1:9:1,8:1:36:8:287:-23.4672,0,-0.889005 0/1:49:24,25:24:850:25:865:-63.4132,0,-62.0699 1/1:159:0,157:0:0:157:5551:-499.405,-47.2617,0 0/1:161:83,78:83:2845:78:2714:-196.041,0,-207.831 1/1:243:0,241:0:0:241:8459:-761.031,-72.5482,0 1/1:145:0,145:0:0:145:5115:-460.482,-43.6494,0 1/1:123:0,122:0:0:122:4313:-388.06,-36.7257,0 0/1:86:54,32:54:1899:32:1124:-75.5726,0,-145.298 0/1:52:25,27:25:863:27:959:-70.9721,0,-62.3287 1/1:185:6,179:6:210:179:6336:-551.088,-36.4489,0 1/1:40:0,40:0:0:40:1385:-124.929,-12.0412,0 chr11 11190637 . T G 8825.46 PASS AB=0.47191;ABP=10.3299;AC=12;AF=0.285714;AN=42;AO=512;CIGAR=1X;DP=1776;DPB=1776;DPRA=1.25606;EPP=980.173;EPPR=2593.63;GTI=1;LEN=1;MEANALT=1;MQM=46.4238;MQMR=57.1337;NS=21;NUMALT=1;ODDS=4.56004;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18235;QR=45355;RO=1264;RPL=16;RPP=980.173;RPPR=2593.63;RPR=496;RUN=1;SAF=0;SAP=1114.8;SAR=512;SRF=0;SRP=2747.75;SRR=1264;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:56:55,1:55:1976:1:36:0,-13.2909,-174.435 0/0:73:73,0:73:2624:0:0:0,-21.9752,-236.028 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.82 0/1:204:99,105:99:3552:105:3708:-267.032,0,-258.211 0/1:223:85,138:85:3044:138:4939:-371.88,0,-206.984 0/1:40:19,21:19:680:21:746:-53.7575,0,-49.4117 0/0:169:169,0:169:6052:0:0:0,-50.8741,-543.198 0/1:84:29,55:29:1040:55:1956:-148.705,0,-68.584 0/1:138:55,83:55:1972:83:2960:-223.006,0,-136.08 1/1:6:0,6:0:0:6:216:-19.5336,-1.80618,0 0/1:6:4,2:4:144:2:72:-4.88374,0,-11.3023 0/1:164:147,17:147:5268:17:612:-5.27822,0,-424.511 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.32 0/1:75:29,46:29:1044:46:1639:-123.438,0,-71.6394 0/0:66:66,0:66:2376:0:0:0,-19.868,-213.946 0/0:64:64,0:64:2300:0:0:0,-19.2659,-206.823 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.442 0/1:87:69,18:69:2476:18:635:-30.5261,0,-196.597 0/1:47:28,19:28:1008:19:680:-46.8233,0,-76.8721 0/0:62:61,1:61:2192:1:36:0,-15.1153,-193.888 0/0:32:32,0:32:1139:0:0:0,-9.63296,-102.716 chr11 11190643 . C T 26246.9 PASS AB=0.533085;ABP=13.212;AC=30;AF=0.714286;AN=42;AO=1276;CIGAR=1X;DP=1784;DPB=1784;DPRA=17.79;EPP=2773.81;EPPR=1106.12;GTI=1;LEN=1;MEANALT=1;MQM=57.1371;MQMR=46.4902;NS=21;NUMALT=1;ODDS=3.10467;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45724;QR=18130;RO=508;RPL=1276;RPP=2773.81;RPPR=1106.12;RPR=0;RUN=1;SAF=0;SAP=2773.81;SAR=1276;SRF=0;SRP=1106.12;SRR=508;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:55:1,54:1:36:54:1925:-169.83,-12.9898,0 1/1:73:0,73:0:0:73:2612:-234.963,-21.9752,0 1/1:45:0,45:0:0:45:1620:-145.947,-13.5464,0 0/1:208:107,101:107:3808:101:3618:-262.952,0,-275.167 0/1:228:139,89:139:4955:89:3204:-219.823,0,-371.854 0/1:38:21,17:21:752:17:608:-43.5462,0,-54.7601 1/1:172:0,172:0:0:172:6169:-553.644,-51.7772,0 0/1:82:52,30:52:1868:30:1080:-72.7824,0,-141.461 0/1:138:82,56:82:2918:56:2012:-139.678,0,-219.408 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.34 0/1:6:2,4:2:72:4:144:-11.3023,0,-4.88374 0/1:166:17,149:17:612:149:5324:-428.944,0,-4.67616 1/1:70:0,70:0:0:70:2516:-226.558,-21.0721,0 0/1:73:44,29:44:1565:29:1025:-70.528,0,-117.825 1/1:67:0,67:0:0:67:2393:-215.474,-20.169,0 1/1:65:0,65:0:0:65:2336:-210.062,-19.567,0 1/1:65:0,65:0:0:65:2340:-210.802,-19.567,0 0/1:87:18,69:18:644:69:2472:-196.293,0,-31.3006 0/1:47:19,28:19:684:28:1008:-76.8721,0,-47.1676 1/1:62:1,61:1:36:61:2166:-191.563,-15.1153,0 1/1:32:0,32:0:0:32:1152:-103.878,-9.63296,0 chr11 11190655 . ACTTAG GTTTAG,GTTTAA 36279.8 PASS AB=0.531221,0.465051;ABP=12.0949,14.3938;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1271,507;CIGAR=2X4M,2X3M1X;DP=1788;DPB=1788;DPRA=14.85,1.23699;EPP=2762.95,1103.95;EPPR=0;GTI=1;LEN=2,6;MEANALT=2.1,2.23077;MQM=57.188,46.142;MQMR=0;NS=21;NUMALT=2;ODDS=3.86125;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44331,17774;QR=0;RO=0;RPL=1271,507;RPP=2762.95,1103.95;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2762.95,1103.95;SAR=1271,507;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,53,1:0:0:53,1:1861,36:-167.319,-15.9546,0,-164.409,-12.6888,-164.108 1/1:75:0,75,0:0:0:75,0:2642,0:-237.657,-22.5773,0,-237.657,-22.5773,-237.657 1/1:47:0,46,0:0:0:46,0:1609,0:-144.644,-13.8474,0,-144.644,-13.8474,-144.644 1/2:203:0,100,103:0:0:100,103:3480,3588:-570.376,-287.619,-257.516,-283.102,0,-252.096 1/2:227:0,88,136:0:0:88,136:3016,4752:-626.607,-381.846,-355.355,-244.757,0,-203.817 1/2:39:0,18,21:0:0:18,21:614,739:-108.381,-58.6201,-53.2015,-50.1025,0,-43.7809 1/1:172:0,170,0:0:0:170,0:5913,0:-531.196,-51.1751,0,-531.196,-51.1751,-531.196 1/2:84:0,30,54:0:0:30,54:1047,1909:-238.741,-153.624,-144.593,-85.4665,0,-69.2109 1/2:141:0,57,84:0:0:57,84:1980,2966:-400.905,-240.032,-222.873,-161.222,0,-135.936 2/2:6:0,0,6:0:0:0,6:0,205:-18.5875,-18.5875,-18.5875,-1.80618,-1.80618,0 1/2:6:0,4,2:0:0:4,2:144,71:-17.5616,-6.00722,-4.8031,-11.9043,0,-11.3023 1/2:166:0,149,17:0:0:149,17:5236,598:-474.222,-48.37,-3.51654,-426.2,0,-421.082 1/1:70:0,69,0:0:0:69,0:2446,0:-219.922,-20.7711,0,-219.922,-20.7711,-219.922 1/2:73:0,28,45:0:0:28,45:972,1575:-205.972,-126.977,-118.548,-79.3415,0,-65.7952 1/1:66:0,65,0:0:0:65,0:2302,0:-207.106,-19.567,0,-207.106,-19.567,-207.106 1/1:67:0,66,0:0:0:66,0:2253,0:-202.389,-19.868,0,-202.389,-19.868,-202.389 1/1:65:0,65,0:0:0:65,0:2251,0:-202.793,-19.567,0,-202.793,-19.567,-202.793 1/2:87:0,68,18:0:0:68,18:2342,628:-240.384,-50.3634,-29.8934,-190.011,0,-184.592 1/2:47:0,28,19:0:0:28,19:981,672:-134.373,-54.563,-46.1341,-80.1602,0,-74.4406 1/1:61:0,60,1:0:0:60,1:2115,35:-190.177,-18.0618,0,-187.365,-14.9042,-187.064 1/1:32:0,32,0:0:0:32,0:1127,0:-101.636,-9.63296,0,-101.636,-9.63296,-101.636 chr11 11355232 . ATCAG CTTAG,CTTAT 71962.3 PASS AB=0.461441,0.534766;ABP=23.4403,19.6189;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2566,857;CIGAR=1X1M1X2M,1X1M1X1M1X;DP=3438;DPB=3438;DPRA=0,1.06667;EPP=5566.33,1863.96;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.38095,2.5;MQM=58.9404,43.804;MQMR=0;NS=21;NUMALT=2;ODDS=16.8471;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=90377,30317;QR=0;RO=0;RPL=2565,857;RPP=5566.33,1863.96;RPPR=0;RPR=1,0;RUN=1,1;SAF=2566,857;SAP=5575.01,1863.96;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:285:0,284,1:0:0:284,1:9995,35:-898.795,-85.4925,0,-895.984,-82.3349,-895.683 1/1:151:0,151,0:0:0:151,0:5325,0:-478.945,-45.4555,0,-478.945,-45.4555,-478.945 1/1:174:0,172,2:0:0:172,2:6110,70:-549.548,-51.7772,0,-543.926,-45.8097,-543.324 1/2:128:0,56,72:0:0:56,72:1949,2524:-360.788,-202.346,-185.489,-158.788,0,-137.114 1/2:372:0,161,210:0:0:161,210:5697,7439:-1058.28,-594.513,-546.047,-463.911,0,-400.695 1/2:235:0,114,120:0:0:114,120:4003,4258:-658.462,-332.97,-298.653,-325.578,0,-289.454 1/1:219:0,216,1:0:0:216,1:7578,36:-680.971,-65.0225,0,-678.14,-62.1922,-677.839 1/2:161:0,92,69:0:0:92,69:3219,2448:-455.951,-194.393,-166.698,-261.905,0,-241.134 1/2:248:0,110,137:0:0:110,137:3870,4840:-703.857,-388.845,-355.731,-315.092,0,-273.851 1/2:26:0,11,15:0:0:11,15:394,540:-75.3843,-43.2493,-39.938,-32.4902,0,-27.9747 1/2:14:0,8,6:0:0:8,6:285,208:-39.8271,-16.7236,-14.3154,-23.4478,0,-21.6416 1/2:53:0,17,35:0:0:17,35:610,1238:-148.314,-98.5535,-93.436,-49.8056,0,-39.2696 1/1:204:0,201,2:0:0:201,2:7091,72:-637.625,-60.507,0,-631.84,-54.7251,-631.238 1/2:203:0,90,113:0:0:90,113:3145,3996:-574.139,-318.428,-291.336,-256.058,0,-222.042 1/1:338:0,337,0:0:0:337,0:11935,0:-1073.19,-101.447,0,-1073.19,-101.447,-1073.19 1/1:108:0,107,0:0:0:107,0:3773,0:-339.382,-32.2102,0,-339.382,-32.2102,-339.382 1/1:135:0,132,0:0:0:132,0:4594,0:-413.276,-39.736,0,-413.276,-39.736,-413.276 1/2:71:0,30,39:0:0:30,39:1059,1362:-193.787,-107.851,-98.8201,-86.0026,0,-74.2625 1/2:71:0,41,30:0:0:41,30:1437,1072:-203.113,-86.2563,-73.914,-117.208,0,-108.177 1/1:195:0,190,5:0:0:190,5:6699,179:-602.227,-57.1957,0,-587.964,-42.5823,-586.459 1/1:47:0,46,0:0:0:46,0:1609,0:-144.545,-13.8474,0,-144.545,-13.8474,-144.545 chr11 11355290 . G A 13380.4 PASS AB=0.518912;ABP=7.69186;AC=10;AF=0.238095;AN=42;AO=831;CIGAR=1X;DP=4034;DPB=4034;DPRA=1.07948;EPP=1807.5;EPPR=6936.53;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.9567;MQMR=59.9922;NS=21;NUMALT=1;ODDS=24.3401;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29760;QR=114445;RO=3201;RPL=0;RPP=1807.5;RPPR=6936.53;RPR=831;RUN=1;SAF=0;SAP=1807.5;SAR=831;SRF=0;SRP=6953.89;SRR=3201;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:174:168,6:168:6013:6:216:0,-32.5887,-521.483 0/0:185:185,0:185:6609:0:0:0,-55.6905,-594.887 0/0:160:158,2:158:5651:2:72:0,-41.3281,-501.873 0/1:231:97,134:97:3468:134:4795:-362.156,0,-242.794 0/1:335:171,163:171:6057:163:5835:-424.343,0,-444.33 0/1:87:41,46:41:1463:46:1652:-122.777,0,-105.776 0/0:179:179,0:179:6388:0:0:0,-53.8844,-575.009 0/1:292:122,170:122:4362:170:6086:-459.94,0,-304.853 0/1:177:104,73:104:3719:73:2624:-183.125,0,-281.629 0/1:18:8,10:8:288:10:360:-27.3258,0,-20.8489 0/1:23:8,15:8:284:15:527:-40.8365,0,-18.9797 0/0:796:759,37:759:27182:37:1314:0,-121.059,-2326.8 0/0:92:92,0:92:3287:0:0:0,-27.6948,-296.049 0/1:171:76,95:76:2720:95:3416:-256.177,0,-193.567 0/0:251:251,0:251:9011:0:0:0,-75.5585,-810.964 0/0:271:271,0:271:9686:0:0:0,-81.5791,-871.689 0/0:220:219,0:219:7843:0:0:0,-65.9256,-705.537 0/1:91:47,44:47:1669:44:1580:-115.098,0,-123.102 0/1:82:50,32:50:1768:32:1148:-78.9454,0,-134.716 0/0:120:116,4:116:4149:4:135:0,-23.6411,-361.109 0/0:79:79,0:79:2828:0:0:0,-23.7814,-254.759 chr11 11357131 . A G 35121.6 PASS AB=0.513469;ABP=4.94069;AC=31;AF=0.738095;AN=42;AO=1703;CIGAR=1X;DP=2304;DPB=2304;DPRA=0;EPP=3701.03;EPPR=1297.22;GTI=0;LEN=1;MEANALT=1.04762;MQM=51.2137;MQMR=48.8883;NS=21;NUMALT=1;ODDS=9.05458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60882;QR=21461;RO=600;RPL=0;RPP=3701.03;RPPR=1297.22;RPR=1703;RUN=1;SAF=1703;SAP=3701.03;SAR=0;SRF=600;SRP=1305.89;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,76:0:0:76:2724:-244.167,-22.8783,0 1/1:142:0,142:0:0:142:5073:-453.511,-42.7463,0 1/1:95:1,94:1:36:94:3367:-299.071,-25.0114,0 0/1:142:64,78:64:2296:78:2804:-207.73,0,-163.239 0/1:224:91,133:91:3238:133:4749:-359.019,0,-222.79 0/1:134:57,77:57:2048:77:2749:-205.745,0,-142.485 1/1:201:0,201:0:0:201:7202:-643.104,-60.507,0 0/1:99:55,44:55:1953:44:1571:-109.016,0,-141.51 0/1:261:130,131:130:4642:131:4706:-342.552,0,-338.208 0/1:11:5,6:5:180:6:216:-16.2055,0,-12.5786 0/1:11:3,8:3:108:8:288:-22.8137,0,-6.67574 0/1:42:23,19:23:828:19:684:-48.0645,0,-60.4971 1/1:97:0,97:0:0:97:3484:-312.894,-29.1999,0 0/1:126:79,47:79:2828:47:1662:-111.555,0,-214.787 1/1:94:1,93:1:36:93:3316:-293.509,-24.7103,0 1/1:97:1,96:1:36:96:3420:-303.81,-25.6067,0 1/1:107:0,107:0:0:107:3801:-341.704,-32.2102,0 0/1:102:58,44:58:2080:44:1580:-109.367,0,-152.497 0/1:73:31,42:31:1116:42:1486:-111.632,0,-78.3869 1/1:112:1,111:1:36:111:3960:-346.986,-30.1944,0 1/1:57:0,57:0:0:57:2040:-182.901,-17.1587,0 chr11 11357142 . AGCA TGCA,TGCT 49190.1 PASS AB=0.511647,0.481928;ABP=4.47713,6.54221;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1707,604;CIGAR=1X3M,1X2M1X;DP=2324;DPB=2324;DPRA=0,0.961054;EPP=3666.41,1280.07;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=2.09524,2.33333;MQM=51.2425,48.9139;MQMR=55.6667;NS=21;NUMALT=2;ODDS=7.45715;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60987,21340;QR=72;RO=3;RPL=5,4;RPP=3666.41,1280.07;RPPR=9.52472;RPR=1702,600;RUN=1,1;SAF=1707,604;SAP=3709.71,1314.58;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,77,0:0:0:77,0:2764,0:-247.856,-23.1793,0,-247.856,-23.1793,-247.856 1/1:141:0,140,0:0:0:140,0:5014,0:-448.403,-42.1442,0,-448.403,-42.1442,-448.403 1/1:93:0,92,1:0:0:92,1:3275,36:-294.126,-27.6948,0,-291.199,-24.4093,-290.898 1/2:142:0,78,63:0:0:78,63:2760,2240:-405.607,-181.775,-158.294,-223.906,0,-204.941 1/2:228:1,133,93:1:25:133,93:4758,3296:-651.785,-265.158,-227.069,-385.028,0,-358.981 1/2:136:0,77,59:0:0:77,59:2756,2079:-391.012,-167.918,-144.738,-223.446,0,-205.685 1/1:202:0,202,0:0:0:202,0:7233,0:-646.193,-60.8081,0,-646.193,-60.8081,-646.193 1/2:104:0,47,57:0:0:47,57:1666,2007:-292.545,-159.302,-145.154,-133.589,0,-116.431 1/2:264:0,133,131:0:0:133,131:4747,4646:-763.759,-377.733,-337.696,-386.381,0,-346.946 1/2:11:0,6,5:0:0:6,5:216,172:-31.1723,-13.8044,-11.9983,-17.7107,0,-16.2055 1/2:11:0,8,3:0:0:8,3:288,99:-31.6518,-8.27093,-5.86269,-23.7168,0,-22.8137 1/2:43:0,20,23:0:0:20,23:718,814:-122.562,-65.111,-59.0904,-57.8008,0,-50.8771 1/1:99:0,98,0:0:0:98,0:3503,0:-314.408,-29.5009,0,-314.408,-29.5009,-314.408 1/2:126:1,46,76:1:25:46,76:1632,2675:-346.966,-214.679,-202.779,-130.681,0,-109.749 1/1:91:0,90,1:0:0:90,1:3212,36:-287.701,-27.0927,0,-284.774,-23.8072,-284.473 1/1:99:0,98,1:0:0:98,1:3507,36:-314.965,-29.5009,0,-312.032,-26.2088,-311.731 1/1:104:1,103,0:1:22:103,0:3665,0:-327.45,-29.1085,0,-327.751,-31.0061,-329.427 1/2:106:0,46,59:0:0:46,59:1638,2064:-295.293,-163.987,-150.14,-131.361,0,-113.6 1/2:74:0,43,31:0:0:43,31:1544,1104:-215.555,-89.9736,-77.0294,-125.938,0,-116.606 1/1:113:0,111,1:0:0:111,1:3975,36:-352.244,-33.4143,0,-349.376,-30.4915,-349.075 1/1:59:0,59,0:0:0:59,0:2116,0:-189.692,-17.7608,0,-189.692,-17.7608,-189.692 chr11 11357304 . CTA TCA,TCT 67991 PASS AB=0.510166,0.489217;ABP=4.46731,4.64927;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2416,803;CIGAR=2X1M,3X;DP=3224;DPB=3224;DPRA=0,1.10452;EPP=5205.95,1720.74;EPPR=0;GTI=0;LEN=2,3;MEANALT=2,2.125;MQM=59.6974,40.9875;MQMR=0;NS=21;NUMALT=2;ODDS=22.1995;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=85754,28371;QR=0;RO=0;RPL=7,3;RPP=5188.66,1720.74;RPPR=0;RPR=2409,800;RUN=1,1;SAF=2,0;SAP=5231.93,1746.7;SAR=2414,803;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:245:0,244,1:0:0:244,1:8669,36:-779.754,-73.4513,0,-776.903,-70.2497,-776.602 1/1:163:0,162,1:0:0:162,1:5790,36:-520.755,-48.7669,0,-518.007,-45.6803,-517.706 1/1:75:0,75,0:0:0:75,0:2641,0:-237.911,-22.5773,0,-237.911,-22.5773,-237.911 1/2:145:0,78,67:0:0:78,67:2740,2338:-406.594,-183.591,-160.11,-223.347,0,-203.178 1/2:436:0,244,191:0:0:244,191:8669,6691:-1231.4,-525.007,-451.555,-706.378,0,-648.882 1/2:200:0,94,106:0:0:94,106:3356,3767:-560.185,-286.779,-258.482,-273.753,0,-241.843 1/1:253:0,252,0:0:0:252,0:8926,0:-802.764,-75.8596,0,-802.764,-75.8596,-802.764 1/2:123:0,64,59:0:0:64,59:2276,2073:-345.937,-160.455,-141.189,-185.826,0,-168.066 1/2:344:0,162,182:0:0:162,182:5754,6468:-983.873,-515.038,-466.271,-469.187,0,-414.399 1/2:15:0,4,11:0:0:4,11:144,381:-41.7541,-29.9973,-28.7932,-12.1095,0,-8.79817 1/2:12:0,5,7:0:0:5,7:180,245:-33.8072,-19.1166,-17.6115,-15.0386,0,-12.9314 1/2:36:0,20,16:0:0:20,16:706,576:-102.769,-45.2736,-39.253,-57.8442,0,-53.0277 1/1:160:0,158,0:0:0:158,0:5604,0:-504.166,-47.5627,0,-504.166,-47.5627,-504.166 1/2:119:0,59,60:0:0:59,60:2086,2138:-338.968,-169.077,-151.316,-170.24,0,-152.179 1/1:242:0,239,3:0:0:239,3:8488,108:-763.532,-71.9462,0,-754.726,-62.7814,-753.823 1/1:143:0,143,0:0:0:143,0:5089,0:-458.145,-43.0473,0,-458.145,-43.0473,-458.145 1/1:131:0,128,2:0:0:128,2:4540,72:-408.408,-38.5318,0,-402.645,-32.773,-402.043 1/2:107:0,43,64:0:0:43,64:1525,2281:-299.8,-175.573,-162.629,-124.575,0,-105.309 1/2:86:0,55,31:0:0:55,31:1967,1091:-246.095,-85.6978,-69.1411,-160.743,0,-151.411 1/1:109:0,107,2:0:0:107,2:3778,70:-339.625,-32.2102,0,-334.145,-26.3929,-333.543 1/1:80:0,80,0:0:0:80,0:2826,0:-254.325,-24.0824,0,-254.325,-24.0824,-254.325 chr11 11357340 . A G 12141.9 PASS AB=0.487484;ABP=5.18449;AC=11;AF=0.261905;AN=42;AO=785;CIGAR=1X;DP=3178;DPB=3178;DPRA=0.949469;EPP=1707.62;EPPR=5197.17;GTI=0;LEN=1;MEANALT=1.06667;MQM=40.9019;MQMR=59.7245;NS=21;NUMALT=1;ODDS=21.9791;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28134;QR=85733;RO=2392;RPL=785;RPP=1707.62;RPPR=5197.17;RPR=0;RUN=1;SAF=0;SAP=1707.62;SAR=785;SRF=0;SRP=5197.17;SRR=2392;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:242:241,1:241:8609:1:36:0,-69.3466,-771.196 0/0:161:160,1:160:5744:1:36:0,-45.0782,-513.653 0/0:75:75,0:75:2700:0:0:0,-22.5772,-243.08 0/1:143:77,66:77:2760:66:2360:-161.475,0,-205.578 0/1:433:244,189:244:8740:189:6767:-456.221,0,-656.187 0/1:197:91,106:91:3264:106:3804:-261.906,0,-234.661 0/0:251:251,0:251:9001:0:0:0,-75.5585,-809.8 0/1:122:63,59:63:2260:59:2124:-145.29,0,-166.937 0/1:334:158,176:158:5676:176:6311:-456.445,0,-410.41 0/1:15:4,11:4:144:11:396:-30.0295,0,-8.79817 0/1:12:5,7:5:180:7:248:-17.8078,0,-12.9314 0/1:36:20,16:20:720:16:572:-38.9645,0,-54.2917 0/0:158:158,0:158:5688:0:0:0,-47.5627,-512.017 0/1:116:59,57:59:2105:57:2040:-144.138,0,-154.763 0/0:240:240,0:240:8561:0:0:0,-72.2472,-770.471 0/0:142:142,0:142:5076:0:0:0,-42.7463,-456.976 0/0:126:123,2:123:4401:2:72:0,-31.2678,-389.535 0/1:104:43,61:43:1544:61:2180:-154.732,0,-107.913 0/1:86:55,31:55:1980:31:1116:-70.5178,0,-152.581 0/0:109:107,2:107:3848:2:72:0,-26.2487,-339.596 0/0:76:76,0:76:2732:0:0:0,-22.8783,-246.098 chr11 11357367 . TTT CTC 23720.1 PASS AB=0.437046;ABP=31.4445;AC=31;AF=0.738095;AN=42;AO=1156;CIGAR=1X1M1X;DP=1628;DPB=1628;DPRA=0;EPP=2504.55;EPPR=1008.42;GTI=0;LEN=3;MEANALT=1.2381;MQM=59.8841;MQMR=60;NS=21;NUMALT=1;ODDS=11.9752;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40928;QR=16439;RO=467;RPL=1;RPP=2504.55;RPPR=1008.42;RPR=1155;RUN=1;SAF=1156;SAP=2513.23;SAR=0;SRF=467;SRP=1017.09;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,111:0:0:111:3925:-353.079,-33.4143,0 1/1:83:0,82:0:0:82:2867:-258.035,-24.6845,0 1/1:55:0,54:0:0:54:1921:-172.805,-16.2556,0 0/1:120:67,53:67:2346:53:1881:-133.444,0,-175.274 0/1:229:137,91:137:4823:91:3235:-222.468,0,-365.324 0/1:88:51,37:51:1797:37:1312:-91.6862,0,-135.52 1/1:145:2,143:2:72:143:5090:-451.402,-36.8126,0 0/1:72:48,24:48:1701:24:850:-55.1456,0,-131.702 0/1:122:59,63:59:2076:63:2245:-165.588,0,-150.384 0/1:20:7,13:7:252:13:451:-34.8995,0,-17.0084 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:25:6,19:6:216:19:640:-50.3863,0,-12.2648 1/1:78:0,78:0:0:78:2771:-249.617,-23.4803,0 0/1:60:29,31:29:995:31:1104:-81.609,0,-71.7938 1/1:65:0,65:0:0:65:2298:-207.079,-19.567,0 1/1:82:0,82:0:0:82:2861:-257.727,-24.6845,0 1/1:98:0,98:0:0:98:3498:-315.032,-29.5009,0 0/1:61:45,16:45:1592:16:572:-33.4508,0,-125.206 0/1:21:9,11:9:320:11:382:-28.3698,0,-22.7985 1/1:67:2,65:2:69:65:2312:-201.771,-13.6165,0 1/1:17:0,17:0:0:17:605:-54.7812,-5.11751,0 chr11 11357550 . TTTG CTTA,CTTG 38647.7 PASS AB=0.409966,0.585504;ABP=65.1813,59.0825;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1288,526;CIGAR=1X2M1X,1X3M;DP=1820;DPB=1820;DPRA=0,0.95316;EPP=2782.52,1145.2;EPPR=0;GTI=0;LEN=4,1;MEANALT=2,2.26667;MQM=58.9511,59.8783;MQMR=0;NS=21;NUMALT=2;ODDS=8.33928;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45622,18803;QR=0;RO=0;RPL=1286,526;RPP=2782.52,1145.2;RPPR=0;RPR=2,0;RUN=1,1;SAF=0,0;SAP=2799.87,1145.2;SAR=1288,526;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:0,62,2:0:0:62,2:2212,72:-198.579,-18.6639,0,-192.704,-12.4292,-192.102 1/1:88:0,88,0:0:0:88,0:3143,0:-283.095,-26.4906,0,-283.095,-26.4906,-283.095 1/1:93:0,92,1:0:0:92,1:3267,36:-293.695,-27.6948,0,-290.758,-24.3975,-290.457 1/2:89:0,28,60:0:0:28,60:993,2134:-254.799,-173.913,-165.484,-80.8909,0,-62.8291 1/2:173:0,64,108:0:0:64,108:2273,3837:-497.505,-312.651,-293.385,-184.849,0,-152.337 1/2:140:0,66,73:0:0:66,73:2350,2620:-405.173,-213.821,-193.953,-191.457,0,-169.482 1/1:123:0,119,4:0:0:119,4:4198,144:-377.406,-35.8226,0,-365.656,-23.7131,-364.452 1/2:106:0,28,78:0:0:28,78:1004,2796:-310.247,-228.391,-219.963,-82.2141,0,-58.7337 1/2:176:0,78,97:0:0:78,97:2749,3476:-507.072,-283.265,-259.785,-223.802,0,-194.603 1/2:7:0,2,5:0:0:2,5:61,176:-19.5527,-14.6799,-14.0778,-5.19117,0,-3.68602 1/2:10:0,3,7:0:0:3,7:108,252:-29.734,-20.9217,-20.0187,-9.17208,0,-7.06487 1/2:11:0,7,4:0:0:7,4:252,144:-32.6714,-12.1095,-10.0023,-20.9217,0,-19.7176 1/1:90:0,90,0:0:0:90,0:3171,0:-285.371,-27.0927,0,-285.371,-27.0927,-285.371 1/2:98:0,42,56:0:0:42,56:1477,2012:-284.364,-164.439,-151.795,-120.28,0,-103.422 1/1:108:0,107,0:0:0:107,0:3782,0:-339.979,-32.2102,0,-339.979,-32.2102,-339.979 1/1:163:0,163,0:0:0:163,0:5792,0:-521.276,-49.0679,0,-521.276,-49.0679,-521.276 1/1:119:0,117,2:0:0:117,2:4129,72:-371.381,-35.2205,0,-365.506,-28.9858,-364.904 1/2:48:0,24,24:0:0:24,24:839,852:-137.909,-69.7757,-62.5509,-68.4857,0,-61.261 1/2:25:0,20,5:0:0:20,5:712,180:-73.0522,-15.0465,-9.0259,-58.3647,0,-56.8596 1/1:53:0,52,0:0:0:52,0:1841,0:-165.659,-15.6536,0,-165.659,-15.6536,-165.659 1/1:36:0,36,0:0:0:36,0:1269,0:-114.464,-10.8371,0,-114.464,-10.8371,-114.464 chr11 11769671 . T A 39483 PASS AB=0.593487;ABP=75.2802;AC=33;AF=0.785714;AN=42;AO=1831;CIGAR=1X;DP=2226;DPB=2226;DPRA=0;EPP=3901.19;EPPR=823.917;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.8569;MQMR=59.9819;NS=21;NUMALT=1;ODDS=21.6771;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65303;QR=13796;RO=386;RPL=1822;RPP=3901.19;RPPR=823.917;RPR=9;RUN=1;SAF=0;SAP=3978.98;SAR=1831;SRF=0;SRP=841.199;SRR=386;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:148:3,143:3:108:143:5080:-447.258,-34.235,0 1/1:105:0,105:0:0:105:3760:-338.6,-31.6082,0 1/1:152:1,151:1:36:151:5375:-479.81,-42.1583,0 0/1:77:37,40:37:1319:40:1414:-104.377,0,-95.8319 0/1:205:83,122:83:2964:122:4370:-331.76,0,-205.283 0/1:87:33,49:33:1179:49:1756:-133.291,0,-81.3837 1/1:210:0,210:0:0:210:7495:-674.584,-63.2163,0 0/1:79:33,46:33:1188:46:1638:-123.926,0,-83.4472 0/1:183:86,97:86:3067:97:3450:-255.622,0,-221.17 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:43:27,16:27:963:16:567:-38.4164,0,-74.0416 1/1:75:0,75:0:0:75:2685:-241.894,-22.5773,0 0/1:105:31,73:31:1112:73:2571:-199.928,0,-68.8129 1/1:223:2,221:2:68:221:7914:-705.752,-60.672,0 1/1:111:0,111:0:0:111:3980:-358.39,-33.4143,0 1/1:94:0,94:0:0:94:3372:-303.695,-28.2968,0 0/1:96:34,61:34:1216:61:2148:-164.232,0,-80.8277 0/1:77:16,61:16:576:61:2154:-170.945,0,-28.9957 1/1:81:0,81:0:0:81:2887:-260.064,-24.3834,0 1/1:61:0,61:0:0:61:2187:-197.095,-18.3628,0 chr11 11769698 . G C 5565.29 PASS AB=0.394231;ABP=93.9616;AC=9;AF=0.214286;AN=42;AO=374;CIGAR=1X;DP=2213;DPB=2213;DPRA=1.44834;EPP=797.862;EPPR=3996.35;GTI=0;LEN=1;MEANALT=1;MQM=59.9813;MQMR=59.8755;NS=21;NUMALT=1;ODDS=21.9556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13318;QR=65954;RO=1839;RPL=372;RPP=797.862;RPPR=3996.35;RPR=2;RUN=1;SAF=0;SAP=815.141;SAR=374;SRF=0;SRP=3996.35;SRR=1839;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:147:144,3:144:5156:3:108:0,-34.1762,-454.091 0/0:105:105,0:105:3768:0:0:0,-31.6081,-339.318 0/0:152:151,1:151:5408:1:36:0,-42.1583,-482.351 0/1:75:40,35:40:1436:35:1252:-90.4078,0,-106.96 0/1:204:123,81:123:4420:81:2882:-198.207,0,-336.553 0/1:86:54,32:54:1932:32:1148:-77.7413,0,-148.268 0/0:210:210,0:210:7548:0:0:0,-63.2163,-679.166 0/1:76:44,32:44:1576:32:1127:-78.8592,0,-119.253 0/1:180:97,83:97:3472:83:2947:-211.279,0,-258.505 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:42:15,27:15:540:27:968:-74.7941,0,-36.2933 0/0:75:75,0:75:2692:0:0:0,-22.5772,-242.524 0/1:100:69,31:69:2480:31:1105:-69.6561,0,-193.259 0/0:223:222,1:222:7960:1:36:0,-63.5314,-712.74 0/0:111:111,0:111:3992:0:0:0,-33.4143,-359.468 0/0:93:93,0:93:3340:0:0:0,-27.9958,-300.816 0/1:96:64,32:64:2296:32:1133:-73.3786,0,-177.206 0/1:77:61,16:61:2175:16:576:-28.9957,0,-172.837 0/0:84:84,0:84:3012:0:0:0,-25.2865,-271.309 0/0:63:63,0:63:2255:0:0:0,-18.9649,-203.212 chr11 12198178 . G T 32565.4 PASS AB=0.530049;ABP=10.9709;AC=31;AF=0.738095;AN=42;AO=1529;CIGAR=1X;DP=2008;DPB=2008;DPRA=0;EPP=3236.9;EPPR=997.999;GTI=1;LEN=1;MEANALT=1.04762;MQM=53.7305;MQMR=56.9833;NS=21;NUMALT=1;ODDS=5.68563;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54699;QR=17057;RO=478;RPL=1519;RPP=3236.9;RPPR=997.999;RPR=10;RUN=1;SAF=0;SAP=3323.19;SAR=1529;SRF=0;SRP=1040.97;SRR=478;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99:0:0:99:3545:-318.235,-29.802,0 1/1:119:0,119:0:0:119:4276:-383.657,-35.8226,0 1/1:135:0,135:0:0:135:4818:-432.423,-40.6391,0 0/1:78:38,40:38:1364:40:1422:-104.526,0,-99.5423 0/1:235:106,129:106:3759:129:4583:-340.814,0,-266.031 0/1:99:43,56:43:1536:56:1994:-149.289,0,-108.552 1/1:192:0,191:0:0:191:6853:-614.24,-57.4967,0 0/1:101:55,46:55:1972:46:1633:-116.254,0,-146.918 0/1:149:72,77:72:2584:77:2730:-200.55,0,-187.771 0/1:32:18,14:18:648:14:495:-35.1637,0,-48.9698 0/1:9:1,8:1:36:8:288:-23.4921,0,-0.879958 0/1:25:8,17:8:260:17:612:-47.803,0,-16.1252 1/1:107:0,107:0:0:107:3821:-342.787,-32.2102,0 0/1:133:57,76:57:2031:76:2732:-205.531,0,-142.73 1/1:64:0,64:0:0:64:2304:-207.297,-19.2659,0 1/1:97:1,96:1:36:96:3452:-306.823,-25.6016,0 1/1:102:0,102:0:0:102:3662:-328.279,-30.7051,0 0/1:93:55,38:55:1967:38:1355:-93.6863,0,-147.902 0/1:61:24,37:24:864:37:1328:-101.372,0,-59.6151 1/1:42:0,42:0:0:42:1512:-135.951,-12.6433,0 1/1:36:0,36:0:0:36:1284:-115.397,-10.8371,0 chr11 12198201 . GACC GACT,AACT 42617.6 PASS AB=0.531281,0.462761;ABP=11.569,15.1399;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1524,466;CIGAR=3M1X,1X2M1X;DP=1998;DPB=1998;DPRA=0,0.923768;EPP=3312.33,1014.92;EPPR=11.6962;GTI=1;LEN=1,4;MEANALT=1.66667,2.18182;MQM=53.729,57.073;MQMR=60;NS=21;NUMALT=2;ODDS=6.80626;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54635,16525;QR=140;RO=4;RPL=1524,466;RPP=3312.33,1014.92;RPPR=11.6962;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3312.33,1014.92;SAR=1524,466;SRF=0;SRP=11.6962;SRR=4;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,100,0:0:0:100,0:3600,0:-323.175,-30.103,0,-323.175,-30.103,-323.175 1/1:119:0,119,0:0:0:119,0:4242,0:-380.636,-35.8226,0,-380.636,-35.8226,-380.636 1/1:134:0,133,0:0:0:133,0:4784,0:-429.095,-40.037,0,-429.095,-40.037,-429.095 1/2:78:0,40,38:0:0:40,38:1436,1357:-227.794,-110.955,-98.914,-117.196,0,-105.757 1/2:231:1,127,100:1:32:127,100:4541,3550:-654.434,-286.59,-250.937,-365.616,0,-338.091 1/2:99:0,56,43:0:0:56,43:1993,1548:-287.945,-126.477,-109.62,-161.824,0,-148.88 1/1:191:0,191,0:0:0:191,0:6856,0:-614.699,-57.4967,0,-614.699,-57.4967,-614.699 1/2:100:0,45,55:0:0:45,55:1620,1937:-288.592,-157.628,-144.082,-131.318,0,-114.761 1/2:150:2,76,72:2:72:76,72:2709,2548:-421.077,-201.487,-184.484,-214.311,0,-198.512 1/2:31:0,14,17:0:0:14,17:504,595:-89.6453,-48.7137,-44.4993,-41.2859,0,-36.1684 1/2:9:0,8,1:0:0:8,1:288,35:-26.6333,-3.19039,-0.782153,-23.7931,0,-23.4921 1/2:23:0,17,6:0:0:17,6:604,208:-66.387,-17.2414,-12.1239,-49.494,0,-47.6878 1/1:105:0,105,0:0:0:105,0:3768,0:-336.976,-31.6082,0,-336.976,-31.6082,-336.976 1/2:132:0,76,56:0:0:76,56:2736,1983:-384.466,-161.774,-138.896,-223.048,0,-206.19 1/1:64:0,64,0:0:0:64,0:2296,0:-206.581,-19.2659,0,-206.581,-19.2659,-206.581 1/1:96:1,95,0:1:36:95,0:3416,0:-303.594,-25.3006,0,-303.895,-28.5979,-306.832 1/1:103:0,103,0:0:0:103,0:3689,0:-330.21,-31.0061,0,-330.21,-31.0061,-330.21 1/2:92:0,38,54:0:0:38,54:1368,1916:-267.013,-155.962,-144.522,-111.407,0,-95.1517 1/2:62:0,38,24:0:0:38,24:1349,848:-179.139,-69.3108,-57.8716,-110.182,0,-102.957 1/1:43:0,43,0:0:0:43,0:1548,0:-139.12,-12.9443,0,-139.12,-12.9443,-139.12 1/1:36:0,36,0:0:0:36,0:1288,0:-115.659,-10.8371,0,-115.659,-10.8371,-115.659 chr11 12418532 . ACCTC ACT,ACTT 24459 PASS AB=0.53882,0.450311;ABP=11.4399,16.8214;AC=31,11;AF=0.738095,0.261905;AN=42;AO=903,292;CIGAR=2M2D1X,1M1D2M1X;DP=1207;DPB=784;DPRA=0,1.11265;EPP=1963.85,637.08;EPPR=0;GTI=0;LEN=3,4;MEANALT=2.09524,2.5;MQM=45.4884,51.2842;MQMR=0;NS=21;NUMALT=2;ODDS=3.89718;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31944,10073;QR=0;RO=0;RPL=903,292;RPP=1963.85,637.08;RPPR=0;RPR=0,0;RUN=1,1;SAF=903,292;SAP=1963.85,637.08;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,69,0:0:0:69,0:2449,0:-216.757,-20.7711,0,-216.757,-20.7711,-216.757 1/1:33:0,33,0:0:0:33,0:1180,0:-105.532,-9.93399,0,-105.532,-9.93399,-105.532 1/1:61:0,61,0:0:0:61,0:2154,0:-191.808,-18.3628,0,-191.808,-18.3628,-191.808 1/2:30:0,13,16:0:0:13,16:460,541:-80.6738,-43.6193,-39.706,-37.1281,0,-32.3116 1/2:152:0,77,72:0:0:77,72:2744,2467:-418.893,-199.656,-176.477,-219.274,0,-197.6 1/2:36:0,19,17:0:0:19,17:680,601:-102.454,-48.9153,-43.1957,-53.8879,0,-48.7704 1/1:57:0,55,0:0:0:55,0:1964,0:-174.645,-16.5567,0,-174.645,-16.5567,-174.645 1/2:61:0,23,37:0:0:23,37:776,1270:-165.026,-102.892,-95.9685,-62.1119,0,-50.9738 1/2:135:0,77,58:0:0:77,58:2736,2001:-380.899,-162.241,-139.062,-219.004,0,-201.544 1/2:11:0,8,3:0:0:8,3:288,100:-31.6294,-8.39843,-5.99019,-23.5697,0,-22.6666 1/2:10:0,2,8:0:0:2,8:72,272:-28.135,-22.3132,-21.7111,-6.17488,0,-3.76664 1/2:29:0,12,17:0:0:12,17:428,597:-82.9797,-48.6174,-45.0051,-34.7128,0,-29.5953 1/1:64:0,64,0:0:0:64,0:2296,0:-204.381,-19.2659,0,-204.381,-19.2659,-204.381 1/2:46:0,29,17:0:0:29,17:1000,598:-128.922,-48.7746,-40.0447,-80.4937,0,-75.3762 1/1:126:0,124,0:0:0:124,0:4347,0:-386.224,-37.3277,0,-386.224,-37.3277,-386.224 1/1:23:0,23,0:0:0:23,0:815,0:-72.3749,-6.92369,0,-72.3749,-6.92369,-72.3749 1/1:21:0,21,0:0:0:21,0:733,0:-64.9937,-6.32163,0,-64.9937,-6.32163,-64.9937 1/2:75:0,48,26:0:0:48,26:1686,899:-207.947,-72.9127,-58.4633,-135.106,0,-127.279 1/2:59:0,39,19:0:0:39,19:1396,657:-165.061,-53.2586,-41.5185,-111.829,0,-106.109 1/1:77:0,75,2:0:0:75,2:2670,70:-237.347,-22.5773,0,-231.662,-16.5426,-231.06 1/1:31:0,31,0:0:0:31,0:1070,0:-95.7499,-9.33193,0,-95.7499,-9.33193,-95.7499 chr11 13001664 . TTGT TT 420.096 PASS AB=0.286624;ABP=65.0978;AC=10;AF=0.238095;AN=42;AO=45;CIGAR=1M2D1M;DP=346;DPB=323.5;DPRA=0.913757;EPP=100.727;EPPR=3.07523;GTI=3;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.268308;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1595;QR=10648;RO=301;RPL=0;RPP=100.727;RPPR=3.07523;RPR=45;RUN=1;SAF=45;SAP=100.727;SAR=0;SRF=301;SRP=656.623;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:21,0:21:746:0:0:0,-6.32163,-67.4644 0/0:17:17,0:17:603:0:0:0,-5.11751,-54.5998 0/0:5:5,0:5:179:0:0:0,-1.50515,-16.4604 0/1:4:3,1:3:102:1:36:-2.39415,0,-8.31261 0/1:34:29,5:29:1031:5:180:-6.31705,0,-82.8684 0/1:9:5,4:5:180:4:135:-9.77324,0,-13.8428 0/0:25:25,0:25:885:0:0:0,-7.52575,-79.9678 0/1:7:5,2:5:170:2:72:-4.72951,0,-13.5272 0/1:32:17,15:17:593:15:536:-38.9419,0,-44.0631 0/0:8:8,0:8:286:0:0:0,-2.40824,-26.0856 0/1:5:4,1:4:144:1:32:-1.69416,0,-11.8085 0/1:7:2,5:2:72:5:176:-14.0778,0,-4.72951 0/0:18:18,0:18:610:0:0:0,-5.41854,-55.2162 0/1:12:8,4:8:286:4:144:-9.70126,0,-22.4732 0/0:19:19,0:19:670:0:0:0,-5.71957,-60.6254 0/0:13:13,0:13:461:0:0:0,-3.91339,-41.8258 0/0:11:11,0:11:390:0:0:0,-3.31133,-35.4389 0/1:32:26,6:26:925:6:216:-10.1576,0,-73.9354 0/1:15:13,2:13:466:2:68:-1.94226,0,-37.7632 0/0:34:34,0:34:1211:0:0:0,-10.235,-109.297 0/0:18:18,0:18:638:0:0:0,-5.41854,-57.7486 chr11 13013072 . 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TGAG TG 8487.09 PASS AB=0.478545;ABP=7.29653;AC=12;AF=0.285714;AN=42;AO=521;CIGAR=1M2D1M;DP=2209;DPB=1948.5;DPRA=1.04443;EPP=1134.35;EPPR=3612.13;GTI=1;LEN=2;MEANALT=1.07692;MQM=58.2802;MQMR=59.9982;NS=21;NUMALT=1;ODDS=13.1836;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18545;QR=59899;RO=1682;RPL=521;RPP=1134.35;RPPR=3612.13;RPR=0;RUN=1;SAF=0;SAP=1134.35;SAR=521;SRF=0;SRP=3655.43;SRR=1682;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:142:142,0:142:5032:0:0:0,-42.7463,-453.031 0/0:107:106,0:106:3780:0:0:0,-31.9092,-340.041 0/0:46:46,0:46:1645:0:0:0,-13.8474,-148.339 0/1:202:110,92:110:3909:92:3300:-236.269,0,-291.198 0/1:234:125,109:125:4431:109:3880:-278.804,0,-328.523 0/1:101:50,51:50:1783:51:1811:-132.255,0,-130.349 0/0:201:198,2:198:7006:2:68:0,-54.1058,-624.149 0/1:70:27,43:27:957:43:1531:-116.863,0,-65.3736 0/1:174:83,91:83:2945:91:3248:-240.01,0,-212.905 1/1:5:0,5:0:0:5:180:-16.5474,-1.50515,0 0/1:10:5,5:5:179:5:176:-13.0787,0,-13.4501 0/1:22:11,11:11:396:11:392:-28.985,0,-29.3601 0/0:101:101,0:101:3599:0:0:0,-30.404,-324.118 0/1:89:44,45:44:1578:45:1579:-115.56,0,-115.52 0/0:159:158,0:158:5635:0:0:0,-47.5627,-506.914 0/0:124:124,0:124:4428:0:0:0,-37.3277,-398.693 0/0:52:49,0:49:1755:0:0:0,-14.7505,-157.875 0/1:73:34,39:34:1220:39:1384:-102.708,0,-88.1318 0/1:97:70,27:70:2500:27:960:-57.4999,0,-196.053 0/0:112:111,1:111:3968:1:36:0,-30.1181,-353.714 0/0:88:88,0:88:3153:0:0:0,-26.4906,-283.995 chr11 14517918 . C T 108332 PASS AB=0.48951;ABP=13.7164;AC=11;AF=0.261905;AN=42;AO=5493;CIGAR=1X;DP=14242;DPB=14242;DPRA=2.92369;EPP=11922.2;EPPR=18999.1;GTI=2;LEN=1;MEANALT=1.06667;MQM=59.9716;MQMR=59.9904;NS=21;NUMALT=1;ODDS=22.2195;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=195894;QR=311986;RO=8748;RPL=648;RPP=6966.43;RPPR=5435.09;RPR=4845;RUN=1;SAF=649;SAP=6959.8;SAR=4844;SRF=2035;SRP=5435.09;SRR=6713;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:417:415,2:415:14806:2:72:0,-118.693,-1325.44 0/0:172:172,0:172:6175:0:0:0,-51.7772,-555.845 0/0:273:273,0:273:9745:0:0:0,-82.1812,-877 0/1:527:262,265:262:9340:265:9473:-693.887,0,-681.928 0/1:706:363,343:363:13000:343:12249:-889.239,0,-957.207 0/1:110:70,40:70:2507:40:1440:-96.7844,0,-192.768 0/0:205:205,0:205:7303:0:0:0,-61.7111,-657.32 0/1:262:143,119:143:5119:119:4241:-302.971,0,-381.982 0/1:739:386,353:386:13661:353:12598:-911.186,0,-1006.82 0/1:1706:835,871:835:29836:871:31020:-2277.27,0,-2170.78 0/1:2534:1242,1292:1242:44285:1292:46041:-3379.31,0,-3221.29 0/1:1547:786,761:786:28095:761:27081:-1970.82,0,-2062.02 0/0:352:350,2:350:12452:2:72:0,-99.1258,-1113.68 0/1:470:235,235:235:8376:235:8378:-612.508,0,-612.367 0/0:613:613,0:613:21863:0:0:0,-184.531,-1967.12 0/0:391:388,2:388:13837:2:72:0,-110.825,-1238.33 0/0:388:388,0:388:13736:0:0:0,-116.8,-1236.03 0/1:2453:1289,1164:1289:45958:1164:41581:-3002.47,0,-3396.23 0/1:147:107,40:107:3796:40:1432:-84.9262,0,-297.59 0/0:167:163,4:163:5840:4:144:0,-36.9584,-512.398 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 chr11 14596798 . T A 7712.7 PASS AB=0.466667;ABP=12.8543;AC=11;AF=0.261905;AN=42;AO=482;CIGAR=1X;DP=1917;DPB=1917;DPRA=1.14974;EPP=1049.66;EPPR=3114.73;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9917;MQMR=60;NS=21;NUMALT=1;ODDS=0.00818603;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17143;QR=50884;RO=1433;RPL=482;RPP=1049.66;RPPR=3114.73;RPR=0;RUN=1;SAF=482;SAP=1049.66;SAR=0;SRF=1433;SRP=3114.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2272:0:0:0,-19.2659,-204.74 0/0:58:58,0:58:2076:0:0:0,-17.4597,-187.111 0/0:70:70,0:70:2504:0:0:0,-21.0721,-225.613 0/1:163:91,72:91:3230:72:2559:-181.493,0,-241.852 0/1:195:85,110:85:3011:110:3918:-294.113,0,-212.519 0/1:77:43,34:43:1536:34:1214:-86.3869,0,-115.354 0/0:153:153,0:153:5393:0:0:0,-46.0576,-485.504 0/1:93:47,46:47:1675:46:1627:-118.722,0,-123.041 0/1:163:92,71:92:3259:71:2538:-179.603,0,-244.462 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:19:8,11:8:284:11:388:-29.5378,0,-20.1838 0/0:115:113,1:113:3996:1:36:0,-31.079,-356.231 0/1:102:51,51:51:1814:51:1808:-132.294,0,-132.835 0/0:120:120,0:120:4268:0:0:0,-36.1236,-384.299 0/0:66:66,0:66:2355:0:0:0,-19.868,-212.208 0/0:85:82,2:82:2932:2:68:0,-19.182,-257.65 0/1:137:76,61:76:2654:61:2176:-154.865,0,-197.865 0/1:61:45,16:45:1591:16:559:-32.2748,0,-125.117 0/0:116:113,3:113:4039:3:108:0,-24.8443,-353.623 0/0:50:50,0:50:1779:0:0:0,-15.0515,-160.392 chr11 14723608 . C T 6131.58 PASS AB=0.349684;ABP=251.08;AC=11;AF=0.261905;AN=42;AO=448;CIGAR=1X;DP=2624;DPB=2624;DPRA=0.845077;EPP=975.83;EPPR=4710.78;GTI=2;LEN=1;MEANALT=1;MQM=59.7545;MQMR=59.8387;NS=21;NUMALT=1;ODDS=15.31;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15997;QR=77537;RO=2176;RPL=0;RPP=975.83;RPPR=101.401;RPR=448;RUN=1;SAF=0;SAP=975.83;SAR=448;SRF=933;SRP=98.9103;SRR=1243;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:131:131,0:131:4674:0:0:0,-39.4349,-420.767 0/0:180:180,0:180:6420:0:0:0,-54.1854,-577.676 0/0:107:107,0:107:3819:0:0:0,-32.2102,-343.871 0/1:91:65,26:65:2315:26:936:-57.1657,0,-181.214 0/1:207:126,81:126:4490:81:2892:-198.189,0,-341.946 0/1:99:62,37:62:2228:37:1299:-87.4052,0,-170.974 0/0:177:177,0:177:6281:0:0:0,-53.2823,-565.232 0/1:178:101,77:101:3592:77:2747:-193.75,0,-269.906 0/1:207:133,74:133:4727:74:2638:-175.339,0,-363.27 0/1:15:12,3:12:432:3:108:-5.55972,0,-34.7057 0/1:14:11,3:11:392:3:108:-5.86075,0,-31.3754 0/1:56:39,17:39:1383:17:600:-37.4669,0,-107.884 0/0:167:166,1:166:5917:1:36:0,-46.6737,-529.021 0/1:138:97,41:97:3455:41:1472:-91.2293,0,-269.618 0/0:155:154,1:154:5468:1:36:0,-43.0614,-488.642 0/0:159:159,0:159:5668:0:0:0,-47.8638,-510.239 0/0:79:76,3:76:2715:3:108:0,-13.7062,-234.518 0/1:143:82,61:82:2927:61:2189:-154.223,0,-220.616 0/1:116:94,22:94:3347:22:792:-36.6862,0,-266.521 0/0:89:89,0:89:3175:0:0:0,-26.7917,-285.97 0/0:116:115,1:115:4112:1:36:0,-31.3212,-366.648 chr11 14889214 . GCATC ACATC,ACATT 43749.2 PASS AB=0.527559,0.466817;ABP=8.87499,11.513;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1633,415;CIGAR=1X4M,1X3M1X;DP=2059;DPB=2068.4;DPRA=0,0.835812;EPP=3540.34,904.171;EPPR=0;GTI=0;LEN=1,5;MEANALT=2,2.5;MQM=59.5517,54.3663;MQMR=0;NS=21;NUMALT=2;ODDS=15.6715;PAIRED=0,0;PAIREDR=0;PAO=23.5,23.5;PQA=835.5,835.5;PQR=0;PRO=0;QA=58304,14038;QR=0;RO=0;RPL=1632,415;RPP=3540.34,904.171;RPPR=0;RPR=1,0;RUN=1,1;SAF=1633,415;SAP=3549.02,904.171;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,92,0:0:0:92,0:3295,0:-296.225,-27.6948,0,-296.225,-27.6948,-296.225 1/1:104:0,104,0:0:0:104,0:3674,0:-330.445,-31.3071,0,-330.445,-31.3071,-330.445 1/1:174:0,174,0:0:0:174,0:6230,0:-560.562,-52.3792,0,-560.562,-52.3792,-560.562 1/2:98:0,57,40:0:0:57,40:2048,1364:-277.492,-110.417,-93.2581,-167.024,0,-154.983 1/2:187:0,90,96:0:0:90,96:3223,3218:-522.988,-260.26,-233.167,-262.537,0,-233.638 1/2:94:0,52,42:0:0:52,42:1856,1448:-268.331,-117.051,-101.397,-151.513,0,-138.87 1/1:190:0,189,0:0:0:189,0:6763,0:-607.75,-56.8947,0,-607.75,-56.8947,-607.75 1/2:64:0,30,33:0:0:30,33:1053,1129:-177.191,-91.4932,-82.4623,-85.7418,0,-75.8078 1/2:168:0,92,75:0:0:92,75:3308,2538:-475.13,-205.332,-177.637,-269.589,0,-247.012 1/2:15:0,8,7:0:0:8,7:288,235:-42.8237,-19.3109,-16.9027,-23.8592,0,-21.752 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:33:0,14,19:0:0:14,19:500,647:-93.1589,-52.3869,-48.1724,-41.1208,0,-35.4013 1/1:136:0,135,0:0:0:135,0:4821,0:-433.466,-40.6391,0,-433.466,-40.6391,-433.466 1/2:101:0,59,41:0:0:59,41:2101,1384:-282.922,-111.761,-93.9999,-171.03,0,-158.688 1/1:131:0,128,0:0:0:128,0:4575,0:-411.33,-38.5318,0,-411.33,-38.5318,-411.33 1/1:73:0,73,0:0:0:73,0:2608,0:-234.82,-21.9752,0,-234.82,-21.9752,-234.82 1/1:114:0,114,0:0:0:114,0:4066,0:-366.121,-34.3174,0,-366.121,-34.3174,-366.121 1/2:69:0,27,42:0:0:27,42:968,1403:-191.654,-112.701,-104.573,-79.1857,0,-66.5425 1/2:60:0,40,20:0:0:40,20:1419,672:-170.296,-54.6792,-42.638,-115.902,0,-109.881 1/1:94:0,94,0:0:0:94,0:3341,0:-300.571,-28.2968,0,-300.571,-28.2968,-300.571 1/1:54:0,54,0:0:0:54,0:1915,0:-172.554,-16.2556,0,-172.554,-16.2556,-172.554 chr11 15406841 . ACAATA GCAATTA,GCAATT 29652.5 PASS AB=0.469873,0.525492;ABP=16.6179,12.753;AC=21,21;AF=0.5,0.5;AN=42;AO=811,907;CIGAR=1X3M1I2M,1X4M1X;DP=1726;DPB=1862.83;DPRA=0,0;EPP=1764.07,1972.54;EPPR=0;GTI=0;LEN=7,6;MEANALT=2.38095,2.38095;MQM=33.106,59.9636;MQMR=0;NS=21;NUMALT=2;ODDS=31.9852;PAIRED=0,0;PAIREDR=0;PAO=3,3.5;PQA=88,124;PQR=0;PRO=0.5;QA=26322,31844;QR=0;RO=0;RPL=3,906;RPP=1738.11,1963.86;RPPR=0;RPR=808,1;RUN=1,1;SAF=3,906;SAP=1738.11,1963.86;SAR=808,1;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,27,23:0:0:27,23:858,798:-127.391,-64.9407,-56.8129,-62.7709,0,-55.8472 1/2:24:0,14,10:0:0:14,10:466,360:-63.9915,-29.734,-25.5196,-34.5948,0,-31.5845 1/2:96:0,62,31:0:0:62,31:2003,1075:-233.625,-87.4248,-68.7609,-146.23,0,-136.898 1/2:119:0,34,84:0:0:34,84:1080,2957:-319.134,-240.867,-230.632,-78.3614,0,-53.0749 1/2:127:0,30,97:0:0:30,97:943,3409:-346.275,-277.827,-268.796,-68.7497,0,-39.5498 1/2:54:0,21,33:0:0:21,33:681,1157:-144.162,-94.5002,-88.1786,-49.9786,0,-40.0447 1/2:80:0,50,30:0:0:50,30:1648,1048:-206.097,-85.5992,-70.5477,-120.829,0,-111.798 1/2:78:0,38,40:0:0:38,40:1227,1386:-201.962,-112.991,-101.552,-89.2904,0,-77.2492 1/2:154:0,54,100:0:0:54,100:1809,3524:-420.99,-287.269,-271.013,-134.046,0,-103.943 1/2:7:0,5,2:0:0:5,2:151,72:-16.9851,-6.23466,-4.72951,-11.0856,0,-10.4836 1/2:9:0,5,4:0:0:5,4:169,135:-23.6556,-11.2784,-9.77324,-12.7019,0,-11.4978 1/2:32:0,16,16:0:0:16,16:528,554:-84.0699,-45.3684,-40.5519,-39.0257,0,-34.2093 1/2:154:0,70,84:0:0:70,84:2254,2927:-402.356,-238.318,-217.246,-164.297,0,-139.011 1/2:73:0,26,47:0:0:26,47:830,1676:-196.811,-136.92,-129.093,-60.1468,0,-45.9984 1/2:160:0,115,45:0:0:115,45:3758,1592:-403.462,-129.965,-95.3466,-273.776,0,-260.229 1/2:37:0,12,25:0:0:12,25:412,883:-102.73,-72.2617,-68.6493,-30.796,0,-23.2703 1/2:48:0,18,30:0:0:18,30:608,1051:-130.609,-85.8687,-80.4502,-45.0649,0,-36.034 1/2:67:0,36,30:0:0:36,30:1122,1060:-167.933,-86.3655,-75.5284,-81.5761,0,-72.5452 1/2:65:0,17,47:0:0:17,47:558,1656:-175.455,-134.859,-129.741,-40.5907,0,-26.4423 1/2:228:0,128,98:0:0:128,98:4126,3416:-578.534,-277.874,-239.342,-300.702,0,-271.201 1/2:64:0,33,31:0:0:33,31:1091,1108:-170.988,-90.6991,-80.7651,-80.6206,0,-71.2887 chr11 15406850 . A T 9934.26 PASS AB=0.460415;ABP=27.2501;AC=21;AF=0.5;AN=42;AO=820;CIGAR=1X;DP=1781;DPB=1781;DPRA=0;EPP=1783.62;EPPR=2087.62;GTI=0;LEN=1;MEANALT=1.04762;MQM=33.1146;MQMR=59.9521;NS=21;NUMALT=1;ODDS=31.9408;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29330;QR=34255;RO=960;RPL=0;RPP=1783.62;RPPR=2070.29;RPR=820;RUN=1;SAF=0;SAP=1783.62;SAR=820;SRF=958;SRP=2070.29;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:25,27:25:888:27:964:-59.2753,0,-63.8062 0/1:25:11,14:11:392:14:500:-32.7707,0,-28.0943 0/1:94:31,63:31:1112:63:2250:-147.014,0,-72.0661 0/1:123:89,34:89:3176:34:1216:-56.4099,0,-249.038 0/1:130:101,29:101:3589:29:1044:-41.6806,0,-284.081 0/1:57:36,21:36:1292:21:756:-41.9903,0,-99.4251 0/1:85:33,52:33:1184:52:1872:-122.283,0,-81.2808 0/1:79:40,39:40:1436:39:1396:-83.4428,0,-105.756 0/1:161:108,53:108:3845:53:1863:-99.4685,0,-297.78 0/1:7:2,5:2:72:5:180:-11.3074,0,-4.72951 0/1:9:4,5:4:144:5:180:-11.9538,0,-10.6043 0/1:30:15,15:15:536:15:540:-33.4506,0,-39.5439 0/1:158:87,71:87:3116:71:2537:-149.32,0,-233.104 0/1:77:49,28:49:1739:28:1008:-51.8249,0,-133.614 0/1:159:46,113:46:1633:113:4052:-269.594,0,-99.393 0/1:38:27,11:27:949:11:396:-21.0224,0,-74.2836 0/1:49:31,18:31:1112:18:648:-37.1993,0,-85.6409 0/1:71:35,36:35:1244:36:1286:-77.6867,0,-90.8915 0/1:67:51,16:51:1828:16:576:-25.1237,0,-144.632 0/1:244:106,137:106:3788:137:4882:-309.702,0,-267.668 0/1:66:33,33:33:1180:33:1184:-74.9427,0,-86.6401 chr11 15406879 . A G 4507.49 PASS AB=0.477966;ABP=5.49829;AC=12;AF=0.285714;AN=42;AO=283;CIGAR=1X;DP=1099;DPB=1099;DPRA=1.19292;EPP=617.537;EPPR=1774.93;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=33.2512;NS=21;NUMALT=1;ODDS=4.70899;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9994;QR=28942;RO=816;RPL=0;RPP=617.537;RPPR=1774.93;RPR=283;RUN=1;SAF=0;SAP=617.537;SAR=283;SRF=0;SRP=1774.93;SRR=816;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:27,3:27:964:3:108:-1.04427,0,-65.5478 0/0:13:13,0:13:468:0:0:0,-3.91339,-37.5559 0/0:64:64,0:64:2260:0:0:0,-19.2659,-177.426 0/1:61:34,27:34:1195:27:944:-66.9085,0,-74.4066 0/1:66:29,37:29:1028:37:1312:-98.5137,0,-59.4268 0/1:42:20,22:20:716:22:775:-57.4279,0,-43.9894 0/0:51:51,0:51:1812:0:0:0,-15.3525,-143.719 0/1:66:41,25:41:1448:25:881:-59.7379,0,-92.0941 0/1:122:52,70:52:1852:70:2476:-186.367,0,-110.622 0/1:7:5,2:5:180:2:72:-4.72951,0,-11.3074 0/1:6:4,2:4:144:2:72:-5.03054,0,-9.98803 0/1:30:16,14:16:568:14:504:-36.6672,0,-36.3419 0/0:70:70,0:70:2491:0:0:0,-21.0721,-195.059 0/1:59:28,31:28:996:31:1087:-80.3776,0,-56.2427 0/0:115:115,0:115:4066:0:0:0,-34.6184,-320.21 0/0:12:12,0:12:424:0:0:0,-3.61236,-34.9789 0/0:18:18,0:18:640:0:0:0,-5.41854,-51.5468 0/1:70:36,34:36:1268:34:1195:-86.7819,0,-77.3807 0/1:31:16,15:16:563:15:532:-38.8812,0,-35.3281 0/0:135:134,1:134:4759:1:36:0,-37.0408,-372.312 0/0:31:31,0:31:1100:0:0:0,-9.33193,-88.531 chr11 15810999 . 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T C 6110.88 PASS AB=0.474723;ABP=7.51122;AC=11;AF=0.261905;AN=42;AO=394;CIGAR=1X;DP=1777;DPB=1777;DPRA=0.825517;EPP=858.57;EPPR=3006.16;GTI=0;LEN=1;MEANALT=1;MQM=59.6599;MQMR=59.9234;NS=21;NUMALT=1;ODDS=11.4627;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13903;QR=48804;RO=1383;RPL=0;RPP=858.57;RPPR=3006.16;RPR=394;RUN=1;SAF=0;SAP=858.57;SAR=394;SRF=0;SRP=3006.16;SRR=1383;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:110:107,3:107:3793:3:108:0,-23.0381,-331.477 0/0:81:80,1:80:2816:1:36:0,-20.7852,-250.081 0/0:80:79,1:79:2794:1:36:0,-20.4841,-248.103 0/1:93:51,42:51:1790:42:1495:-106.846,0,-133.385 0/1:150:71,79:71:2488:79:2781:-205.341,0,-179.018 0/1:88:46,42:46:1631:42:1483:-107.265,0,-120.587 0/0:179:179,0:179:6296:0:0:0,-53.8844,-566.252 0/1:68:43,25:43:1523:25:880:-59.0222,0,-116.892 0/1:121:62,59:62:2195:59:2081:-151.132,0,-161.391 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:13:5,8:5:180:8:288:-22.3531,0,-12.6387 0/1:24:10,14:10:356:14:500:-38.063,0,-25.1565 0/0:99:99,0:99:3498:0:0:0,-29.802,-315.029 0/1:79:41,38:41:1413:38:1340:-97.1126,0,-103.682 0/0:110:110,0:110:3907:0:0:0,-33.1133,-351.826 0/0:58:58,0:58:2059:0:0:0,-17.4597,-185.58 0/0:80:80,0:80:2864:0:0:0,-24.0824,-257.997 0/1:107:57,50:57:2003:50:1752:-125.741,0,-148.329 0/1:58:35,23:35:1208:23:803:-55.1217,0,-91.5603 0/0:115:111,4:111:3942:4:140:0,-21.6739,-342.003 0/0:54:54,0:54:1868:0:0:0,-16.2556,-168.127 chr11 17482209 . G A 9601.65 PASS AB=0.665848;ABP=197.482;AC=11;AF=0.261905;AN=42;AO=545;CIGAR=1X;DP=1272;DPB=1272;DPRA=1.50021;EPP=1186.46;EPPR=1581.67;GTI=2;LEN=1;MEANALT=1;MQM=51.1523;MQMR=59.7923;NS=21;NUMALT=1;ODDS=0.323118;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19470;QR=26028;RO=727;RPL=545;RPP=1186.46;RPPR=1581.67;RPR=0;RUN=1;SAF=0;SAP=1186.46;SAR=545;SRF=0;SRP=1581.67;SRR=727;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:22,2:22:788:2:72:0,-0.405186,-64.4253 0/0:24:24,0:24:864:0:0:0,-7.22472,-78.0826 0/0:55:55,0:55:1953:0:0:0,-16.5566,-176.036 0/1:130:45,85:45:1596:85:3032:-233.168,0,-104.727 0/1:124:34,90:34:1220:90:3206:-250.74,0,-72.7791 0/1:277:80,197:80:2863:197:7049:-548.073,0,-174.481 0/0:64:63,1:63:2260:1:36:0,-15.6794,-200.076 0/1:39:17,22:17:608:22:788:-59.2155,0,-43.3119 0/1:105:38,67:38:1360:67:2404:-184.286,0,-91.0712 0/1:6:2,4:2:72:4:144:-11.4422,0,-5.03054 0/1:5:4,1:4:140:1:36:-2.08408,0,-11.4055 0/1:31:13,18:13:468:18:644:-48.5417,0,-33.1265 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/1:69:20,49:20:716:49:1743:-135.965,0,-43.9966 0/0:64:64,0:64:2304:0:0:0,-19.2659,-207.62 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/1:10:6,4:6:212:4:144:-10.247,0,-16.4005 0/1:18:13,5:13:464:5:172:-10.3678,0,-36.6708 0/0:137:137,0:137:4908:0:0:0,-41.2411,-441.834 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 chr11 17642506 . GCACT ACACA,ACACT 101553 PASS AB=0.506098,0.490022;ABP=3.59289,4.57029;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2855,897;CIGAR=1X3M1X,1X4M;DP=3765;DPB=3765.2;DPRA=0,0.789888;EPP=6202.56,1950.82;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.47619,2.55556;MQM=59.9327,59.9699;MQMR=0;NS=21;NUMALT=2;ODDS=10.4935;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=100230,31944;QR=0;RO=0;RPL=1403,449;RPP=4.83647,3.01272;RPPR=0;RPR=1452,448;RUN=1,1;SAF=1403,449;SAP=4.83647,3.01272;SAR=1452,448;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:211:0,209,2:0:0:209,2:7307,68:-657.36,-62.9153,0,-651.844,-57.0596,-651.242 1/1:181:0,181,0:0:0:181,0:6385,0:-574.75,-54.4864,0,-574.75,-54.4864,-574.75 1/1:182:0,179,3:0:0:179,3:6285,108:-565.395,-53.8844,0,-556.582,-44.7123,-555.679 1/2:287:0,143,143:0:0:143,143:5010,5111:-824.381,-416.726,-373.679,-407.649,0,-364.601 1/2:368:0,187,180:0:0:187,180:6564,6408:-1056.54,-522.374,-466.082,-534.265,0,-480.08 1/2:162:0,81,80:0:0:81,80:2832,2839:-460.995,-231.036,-206.653,-229.951,0,-205.869 1/1:172:0,170,2:0:0:170,2:5982,72:-538.108,-51.1751,0,-532.233,-44.9705,-531.631 1/2:180:0,80,99:0:0:80,99:2842,3526:-519.03,-287.447,-263.365,-231.638,0,-201.836 1/2:235:0,107,127:0:0:107,127:3754,4539:-675.607,-370.106,-337.896,-305.515,0,-267.284 1/2:22:0,9,13:0:0:9,13:316,468:-64.2612,-38.5463,-35.837,-26.0695,0,-22.1561 1/2:11:0,7,4:0:0:7,4:246,140:-31.765,-11.7405,-9.63325,-20.3749,0,-19.1707 1/2:53:0,31,22:0:0:31,22:1061,788:-150.733,-64.6221,-55.2902,-86.4622,0,-79.8395 1/1:239:0,234,3:0:0:234,3:8241,104:-741.219,-70.441,0,-732.766,-61.9808,-731.863 1/2:187:0,87,100:0:0:87,100:3041,3518:-534.107,-286.729,-260.539,-247.729,0,-217.626 1/1:359:0,356,0:0:0:356,0:12541,0:-1128.16,-107.167,0,-1128.16,-107.167,-1128.16 1/1:151:0,149,1:0:0:149,1:5246,36:-471.96,-44.8535,0,-469.023,-41.8811,-468.722 1/1:162:0,161,1:0:0:161,1:5611,36:-504.756,-48.4658,0,-501.818,-45.1686,-501.517 1/2:166:0,94,70:0:0:94,70:3283,2499:-470.771,-203.73,-175.434,-267.034,0,-245.962 1/2:133:0,87,46:0:0:87,46:3064,1648:-384.208,-134.761,-108.572,-249.802,0,-235.955 1/1:188:0,187,1:0:0:187,1:6534,36:-587.795,-56.2926,0,-584.858,-52.9954,-584.557 1/1:116:0,116,0:0:0:116,0:4085,0:-367.817,-34.9195,0,-367.817,-34.9195,-367.817 chr11 17642670 . A G 30054.2 PASS AB=0.469388;ABP=10.1895;AC=30;AF=0.714286;AN=42;AO=1146;CIGAR=1X;DP=1625;DPB=1625;DPRA=16.2;EPP=175.826;EPPR=78.766;GTI=0;LEN=1;MEANALT=1.1;MQM=59.8691;MQMR=59.8428;NS=21;NUMALT=1;ODDS=0.291043;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40941;QR=17028;RO=477;RPL=724;RPP=175.826;RPPR=78.766;RPR=422;RUN=1;SAF=0;SAP=2491.52;SAR=1146;SRF=0;SRP=1038.8;SRR=477;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:1,89:1:36:89:3166:-281.565,-23.4944,0 1/1:36:0,35:0:0:35:1260:-113.346,-10.5361,0 1/1:103:0,103:0:0:103:3681:-331.492,-31.0061,0 0/1:110:70,40:70:2500:40:1432:-96.0643,0,-192.139 0/1:145:79,66:79:2790:66:2340:-167.208,0,-206.67 0/1:69:48,21:48:1713:21:756:-47.5962,0,-133.674 1/1:104:1,103:1:36:103:3676:-326.66,-27.7088,0 0/1:114:49,65:49:1760:65:2323:-175.012,0,-124.366 0/1:142:75,67:75:2692:67:2408:-174.23,0,-199.777 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:36:22,14:22:784:14:496:-34.1372,0,-60.0468 1/1:74:2,72:2:72:72:2579:-225.52,-15.4395,0 0/1:86:45,41:45:1620:41:1463:-106.077,0,-119.711 1/1:118:0,117:0:0:117:4166:-374.763,-35.2205,0 1/1:47:0,47:0:0:47:1679:-150.924,-14.1484,0 1/1:39:0,39:0:0:39:1396:-125.939,-11.7402,0 0/1:69:34,35:34:1212:35:1256:-92.5742,0,-88.6153 0/1:104:43,61:43:1525:61:2174:-164.605,0,-106.234 1/1:61:0,61:0:0:61:2196:-197.897,-18.3628,0 1/1:66:0,66:0:0:66:2350:-211.747,-19.868,0 chr11 17642685 . CACGCCT TATGCCT,TATGCCA 34471.1 PASS AB=0.461709,0.531632;ABP=14.4846,10.8406;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1154,486;CIGAR=1X1M1X4M,1X1M1X3M1X;DP=1654;DPB=1654;DPRA=16.49,1.1275;EPP=2508.89,1058.35;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.2,2.38462;MQM=59.9116,59.9136;MQMR=0;NS=21;NUMALT=2;ODDS=0.98585;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41003,17024;QR=0;RO=0;RPL=1154,486;RPP=2508.89,1058.35;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2508.89,1058.35;SAR=1154,486;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:90:0,88,1:0:0:88,1:3135,36:-282.017,-26.4906,0,-279.079,-23.5532,-278.778 1/1:36:0,36,0:0:0:36,0:1279,0:-115.413,-10.8371,0,-115.413,-10.8371,-115.413 1/1:105:0,105,0:0:0:105,0:3718,0:-334.822,-31.6082,0,-334.822,-31.6082,-334.822 1/2:112:0,39,72:0:0:39,72:1396,2498:-316.886,-203.04,-191.3,-113.84,0,-92.1654 1/2:148:0,67,80:0:0:67,80:2396,2802:-423.466,-228.091,-207.922,-195.48,0,-171.398 1/2:71:0,21,50:0:0:21,50:728,1764:-203.151,-143.983,-137.661,-59.5163,0,-44.4648 1/1:108:0,105,0:0:0:105,0:3748,0:-337.259,-31.6082,0,-337.259,-31.6082,-337.259 1/2:114:0,65,49:0:0:65,49:2311,1707:-327.494,-139.163,-119.597,-188.682,0,-173.932 1/2:145:0,69,76:0:0:69,76:2453,2677:-418.198,-218.297,-197.526,-200.254,0,-177.376 2/2:5:0,0,5:0:0:0,5:0,180:-16.5521,-16.5521,-16.5521,-1.50515,-1.50515,0 1/2:8:0,4,4:0:0:4,4:144,133:-22.8576,-11.0942,-9.89011,-12.1095,0,-10.9054 1/2:39:0,15,24:0:0:15,24:520,838:-110.777,-68.5129,-63.9974,-42.6115,0,-35.3868 1/1:74:0,73,1:0:0:73,1:2599,36:-233.795,-21.9752,0,-230.857,-18.6779,-230.556 1/2:88:0,41,45:0:0:41,45:1436,1578:-245.168,-128.34,-115.998,-116.912,0,-103.365 1/1:119:0,119,0:0:0:119,0:4210,0:-379.083,-35.8226,0,-379.083,-35.8226,-379.083 1/1:49:0,49,0:0:0:49,0:1744,0:-156.771,-14.7505,0,-156.771,-14.7505,-156.771 1/1:39:0,38,0:0:0:38,0:1354,0:-121.8,-11.4391,0,-121.8,-11.4391,-121.8 1/2:70:0,35,35:0:0:35,35:1243,1220:-200.852,-99.5668,-89.0307,-101.637,0,-91.1012 1/2:106:0,60,44:0:0:60,44:2139,1555:-301.058,-126.695,-108.633,-174.415,0,-161.169 1/1:62:0,62,0:0:0:62,0:2199,0:-198.166,-18.6639,0,-198.166,-18.6639,-198.166 1/1:66:0,63,0:0:0:63,0:2251,0:-202.51,-18.9649,0,-202.51,-18.9649,-202.51 chr11 18004970 . A T 16107.3 PASS AB=0.719745;ABP=134.709;AC=32;AF=0.761905;AN=42;AO=748;CIGAR=1X;DP=836;DPB=836;DPRA=0;EPP=1627.27;EPPR=55.2243;GTI=1;LEN=1;MEANALT=1;MQM=59.7848;MQMR=52.7273;NS=21;NUMALT=1;ODDS=2.84231;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26765;QR=3072;RO=88;RPL=748;RPP=1627.27;RPPR=55.2243;RPR=0;RUN=1;SAF=748;SAP=1627.27;SAR=0;SRF=88;SRP=194.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:126:0,126:0:0:126:4503:-405.392,-37.9298,0 1/1:46:0,46:0:0:46:1656:-149.328,-13.8474,0 1/1:29:0,29:0:0:29:1038:-93.7255,-8.72987,0 0/1:32:12,20:12:432:20:712:-54.7737,0,-29.3571 0/1:76:22,54:22:788:54:1935:-151.492,0,-48.0274 0/1:59:11,48:11:358:48:1705:-135.973,0,-14.6051 1/1:64:0,64:0:0:64:2282:-205.627,-19.2659,0 0/1:24:5,19:5:180:19:680:-54.3044,0,-9.29607 0/1:58:11,47:11:369:47:1674:-133.484,0,-15.8558 0/1:6:3,3:3:104:3:108:-8.26899,0,-7.88479 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.5792 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 0/1:24:12,12:12:409:12:432:-31.9965,0,-29.8771 1/1:38:0,38:0:0:38:1356:-122.34,-11.4391,0 1/1:43:0,43:0:0:43:1540:-138.893,-12.9443,0 1/1:65:0,65:0:0:65:2332:-210.112,-19.567,0 0/1:10:2,8:2:72:8:288:-23.2432,0,-3.80923 0/1:16:6,10:6:216:10:360:-27.9278,0,-14.7599 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 chr11 18032062 . ATAT GCAA,ACAA 35892.1 PASS AB=0.40929,0.588957;ABP=84.5576,81.4364;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1163,678;CIGAR=2X1M1X,1M1X1M1X;DP=1844;DPB=1844;DPRA=0,1.90731;EPP=2519.75,1475.27;EPPR=0;GTI=1;LEN=4,4;MEANALT=1.80952,2.14286;MQM=37.9501,52.2463;MQMR=0;NS=21;NUMALT=2;ODDS=3.89951;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41155,23877;QR=0;RO=0;RPL=1,0;RPP=2519.75,1475.27;RPPR=0;RPR=1162,678;RUN=1,1;SAF=0,0;SAP=2528.43,1475.27;SAR=1163,678;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:0,82,3:0:0:82,3:2936,108:-248.891,-24.6845,0,-240.092,-15.5267,-239.188 1/1:42:0,42,0:0:0:42,0:1476,0:-125.876,-12.6433,0,-125.876,-12.6433,-125.876 1/1:76:0,75,1:0:0:75,1:2675,36:-225.645,-22.5773,0,-222.712,-19.2851,-222.411 1/2:140:0,56,83:0:0:56,83:1997,2924:-389.91,-237.689,-220.831,-152.225,0,-127.239 1/2:401:0,124,277:0:0:124,277:4403,9709:-1124.61,-787.902,-750.574,-337.05,0,-253.665 1/2:83:0,42,40:0:0:42,40:1488,1431:-228.91,-115.049,-102.406,-113.848,0,-101.807 1/1:82:0,82,0:0:0:82,0:2882,0:-244.997,-24.6845,0,-244.997,-24.6845,-244.997 1/2:100:0,35,65:0:0:35,65:1215,2292:-279.787,-186.668,-176.132,-93.4556,0,-73.8886 1/2:124:0,67,57:0:0:67,57:2356,2031:-343.141,-162.982,-142.813,-180.501,0,-163.343 1/2:9:0,2,7:0:0:2,7:71,252:-26.3218,-20.8891,-20.287,-5.77359,0,-3.66638 1/2:10:0,6,4:0:0:6,4:208,144:-27.9204,-11.9931,-10.1869,-16.2728,0,-15.0687 1/2:24:0,7,17:0:0:7,17:250,604:-68.529,-49.4192,-47.3119,-19.4517,0,-14.3342 1/1:159:0,157,2:0:0:157,2:5577,72:-473.461,-47.2617,0,-467.595,-41.0367,-466.993 1/2:138:0,52,86:0:0:52,86:1839,3005:-384.43,-243.727,-228.074,-141.042,0,-115.153 1/1:100:0,100,0:0:0:100,0:3538,0:-301.099,-30.103,0,-301.099,-30.103,-301.099 1/1:34:0,34,0:0:0:34,0:1204,0:-102.631,-10.235,0,-102.631,-10.235,-102.631 1/1:32:0,32,0:0:0:32,0:1134,0:-96.6247,-9.63296,0,-96.6247,-9.63296,-96.6247 1/2:49:0,30,19:0:0:30,19:1061,674:-135.778,-54.7634,-45.7325,-81.3596,0,-75.64 1/2:63:0,46,17:0:0:46,17:1626,595:-172.766,-48.6885,-34.8411,-124.423,0,-119.305 1/1:60:0,60,0:0:0:60,0:2085,0:-178.208,-18.0618,0,-178.208,-18.0618,-178.208 1/1:33:0,32,0:0:0:32,0:1134,0:-96.461,-9.63296,0,-96.461,-9.63296,-96.461 chr11 18235054 . 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A T 18457.2 PASS AB=0.492091;ABP=3.31942;AC=31;AF=0.738095;AN=42;AO=874;CIGAR=1X;DP=1164;DPB=1164;DPRA=0;EPP=1892.2;EPPR=632.737;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=11.2899;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31287;QR=10249;RO=290;RPL=1;RPP=1892.2;RPPR=632.737;RPR=873;RUN=1;SAF=874;SAP=1900.88;SAR=0;SRF=290;SRP=632.737;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32:0:0:32:1133:-102.277,-9.63296,0 1/1:28:0,28:0:0:28:1004:-90.6759,-8.42884,0 1/1:65:0,65:0:0:65:2325:-209.508,-19.567,0 0/1:45:23,22:23:813:22:792:-58.0593,0,-59.9428 0/1:118:59,59:59:2085:59:2124:-155.907,0,-152.397 0/1:43:26,17:26:917:17:608:-42.1077,0,-69.9003 1/1:76:1,75:1:36:75:2675:-237.396,-19.28,0 0/1:68:34,34:34:1201:34:1220:-89.6368,0,-87.9236 0/1:146:66,80:66:2342:80:2866:-214.227,0,-167.086 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:23:13,10:13:468:10:360:-25.8206,0,-35.536 1/1:137:0,137:0:0:137:4901:-441.24,-41.2411,0 0/1:44:29,15:29:1017:15:540:-35.6912,0,-78.5945 1/1:79:0,79:0:0:79:2821:-254.128,-23.7814,0 1/1:39:0,39:0:0:39:1400:-126.299,-11.7402,0 1/1:37:0,37:0:0:37:1317:-118.83,-11.1381,0 0/1:36:16,20:16:557:20:720:-54.2917,0,-39.6185 0/1:36:15,21:15:525:21:756:-57.5301,0,-36.741 1/1:85:0,85:0:0:85:3045:-274.278,-25.5876,0 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 chr11 18240399 . T A 4716.32 PASS AB=0.506195;ABP=3.19862;AC=11;AF=0.261905;AN=42;AO=286;CIGAR=1X;DP=1159;DPB=1159;DPRA=0.864708;EPP=624.051;EPPR=1896.53;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.79931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10172;QR=31265;RO=872;RPL=286;RPP=624.051;RPPR=1896.53;RPR=0;RUN=1;SAF=286;SAP=624.051;SAR=0;SRF=872;SRP=1896.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:32,0:32:1144:0:0:0,-9.63296,-103.27 0/0:28:27,0:27:968:0:0:0,-8.12781,-87.0776 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 0/1:44:22,22:22:792:22:788:-57.9995,0,-58.3604 0/1:115:58,57:58:2084:57:2044:-149.613,0,-153.212 0/1:43:17,26:17:597:26:906:-68.9067,0,-41.1118 0/0:75:75,0:75:2692:0:0:0,-22.5772,-242.524 0/1:68:34,34:34:1224:34:1195:-87.384,0,-89.997 0/1:147:81,66:81:2884:66:2354:-167.865,0,-215.543 0/1:4:1,3:1:36:3:102:-8.31226,0,-2.39415 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:23:10,13:10:360:13:468:-35.536,0,-25.8206 0/0:136:136,0:136:4872:0:0:0,-40.9401,-438.633 0/1:43:15,28:15:540:28:998:-77.1906,0,-35.9922 0/0:80:80,0:80:2876:0:0:0,-24.0824,-259.076 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 0/1:36:20,16:20:720:16:576:-41.3379,0,-54.2917 0/1:36:20,16:20:716:16:561:-39.98,0,-53.9306 0/0:87:87,0:87:3132:0:0:0,-26.1896,-282.105 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 chr11 18243695 . C T 44321.4 PASS AB=0.523962;ABP=9.25415;AC=31;AF=0.738095;AN=42;AO=2107;CIGAR=1X;DP=2708;DPB=2708;DPRA=0;EPP=4552.28;EPPR=1308.07;GTI=0;LEN=1;MEANALT=1;MQM=59.9616;MQMR=59.9651;NS=21;NUMALT=1;ODDS=25.2772;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74730;QR=21348;RO=601;RPL=2;RPP=4560.95;RPPR=1308.07;RPR=2105;RUN=1;SAF=1;SAP=4569.62;SAR=2106;SRF=0;SRP=1308.07;SRR=601;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:120:0,120:0:0:120:4255:-383.133,-36.1236,0 1/1:111:0,111:0:0:111:3959:-356.502,-33.4143,0 1/1:77:0,77:0:0:77:2728:-245.765,-23.1793,0 0/1:158:83,75:83:2972:75:2649:-191.007,0,-220.15 0/1:210:80,130:80:2816:130:4622:-352.93,0,-190.437 0/1:183:87,96:87:3065:96:3405:-251.576,0,-220.989 1/1:192:0,192:0:0:192:6798:-611.897,-57.7978,0 0/1:108:51,57:51:1824:57:2032:-150.641,0,-131.93 0/1:187:87,100:87:3113:100:3522:-260.898,0,-224.102 0/1:17:9,8:9:324:8:284:-20.7858,0,-24.3883 0/1:21:18,3:18:644:3:104:-3.38118,0,-51.969 0/1:26:18,8:18:627:8:288:-18.4406,0,-48.9276 1/1:275:2,273:2:72:273:9695:-865.667,-75.9465,0 0/1:122:61,61:61:2164:61:2144:-156.5,0,-158.299 1/1:181:0,181:0:0:181:6422:-578.075,-54.4864,0 1/1:134:0,134:0:0:134:4776:-429.998,-40.338,0 1/1:177:1,176:1:36:176:6236:-557.715,-49.684,0 0/1:85:46,39:46:1611:39:1374:-98.369,0,-119.688 0/1:135:56,79:56:2008:79:2805:-212.044,0,-140.354 1/1:150:2,148:2:72:148:5268:-467.423,-38.3178,0 1/1:39:0,39:0:0:39:1364:-123.055,-11.7402,0 chr11 18334962 . T G,A 54006.7 PASS AB=0.511129,0.488046;ABP=4.31533,4.51583;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1895,595;CIGAR=1X,1X;DP=2493;DPB=2493;DPRA=0,1.05946;EPP=4091.93,1260.53;EPPR=9.52472;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=59.991,59.9966;MQMR=60;NS=21;NUMALT=2;ODDS=0.446041;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67779,21210;QR=108;RO=3;RPL=3,4;RPP=4091.93,1260.53;RPPR=9.52472;RPR=1892,591;RUN=1,1;SAF=1895,595;SAP=4117.95,1295.04;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:0,104,1:0:0:104,1:3717,36:-334.369,-31.3071,0,-331.432,-28.0099,-331.131 1/1:96:0,96,0:0:0:96,0:3425,0:-308.463,-28.8989,0,-308.463,-28.8989,-308.463 1/1:92:0,92,0:0:0:92,0:3312,0:-298.297,-27.6948,0,-298.297,-27.6948,-298.297 1/2:141:0,82,59:0:0:82,59:2944,2116:-413.098,-172.948,-148.264,-240.509,0,-222.748 1/2:195:0,89,106:0:0:89,106:3153,3780:-565.339,-308.491,-281.699,-257.203,0,-225.294 1/2:118:0,61,57:0:0:61,57:2192,2028:-344.459,-165.634,-147.271,-179.183,0,-162.024 1/1:144:1,143,0:1:36:143,0:5107,0:-456.176,-39.75,0,-456.477,-43.0473,-459.414 1/2:145:0,55,90:0:0:55,90:1976,3213:-423.498,-262.299,-245.742,-161.558,0,-134.465 1/2:239:0,115,124:0:0:115,124:4116,4404:-694.856,-359.206,-324.587,-336.006,0,-298.679 1/2:7:0,5,2:0:0:5,2:180,72:-20.9217,-6.23466,-4.72951,-15.0469,0,-14.4449 1/2:20:0,6,14:0:0:6,14:216,500:-58.7471,-41.1218,-39.3156,-17.9843,0,-13.7699 1/2:35:1,20,14:1:36:20,14:720,504:-96.6337,-38.1864,-35.1032,-55.8109,0,-54.5339 1/1:208:0,208,0:0:0:208,0:7427,0:-668.444,-62.6142,0,-668.444,-62.6142,-668.444 1/2:165:0,99,66:0:0:99,66:3549,2352:-481.528,-192.07,-162.268,-289.814,0,-269.946 1/1:186:1,185,0:1:36:185,0:6631,0:-593.269,-52.3933,0,-593.57,-55.6906,-596.508 1/1:82:0,82,0:0:0:82,0:2905,0:-261.683,-24.6845,0,-261.683,-24.6845,-261.683 1/1:55:0,55,0:0:0:55,0:1976,0:-178.115,-16.5567,0,-178.115,-16.5567,-178.115 1/2:54:0,28,26:0:0:28,26:1004,928:-157.901,-76.0115,-67.5826,-82.247,0,-74.4202 1/2:94:0,60,34:0:0:60,34:2141,1205:-273.059,-98.5197,-80.4579,-174.894,0,-164.659 1/1:259:0,257,2:0:0:257,2:9189,72:-826.621,-77.3647,0,-820.746,-71.13,-820.144 1/1:53:0,53,0:0:0:53,0:1899,0:-171.188,-15.9546,0,-171.188,-15.9546,-171.188 chr11 18335010 . C T 25648.5 PASS AB=0.592593;ABP=63.329;AC=31;AF=0.738095;AN=42;AO=1226;CIGAR=1X;DP=1558;DPB=1558;DPRA=0;EPP=2665.24;EPPR=723.939;GTI=1;LEN=1;MEANALT=1;MQM=59.956;MQMR=59.9819;NS=21;NUMALT=1;ODDS=6.49648;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43741;QR=11854;RO=332;RPL=0;RPP=2665.24;RPPR=723.939;RPR=1226;RUN=1;SAF=0;SAP=2665.24;SAR=1226;SRF=0;SRP=723.939;SRR=332;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,83:0:0:83:2951:-265.823,-24.9855,0 1/1:35:0,35:0:0:35:1245:-112.353,-10.5361,0 1/1:62:1,61:1:36:61:2184:-192.599,-15.0656,0 0/1:85:31,54:31:1108:54:1917:-147.216,0,-74.4434 0/1:129:38,91:38:1364:91:3264:-255.147,0,-84.2278 0/1:39:17,22:17:608:22:792:-59.8655,0,-43.3119 1/1:102:0,102:0:0:102:3634:-327.254,-30.7051,0 0/1:71:34,37:34:1211:37:1302:-96.1042,0,-87.9224 0/1:116:43,73:43:1540:73:2593:-198.698,0,-103.974 0/1:19:9,10:9:324:10:341:-25.2982,0,-23.7863 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:25:9,16:9:324:16:576:-44.6492,0,-21.9801 1/1:64:0,64:0:0:64:2304:-207.612,-19.2659,0 0/1:98:28,70:28:1008:70:2501:-195.84,0,-61.5354 1/1:130:0,130:0:0:130:4653:-418.93,-39.1339,0 1/1:37:0,37:0:0:37:1324:-119.462,-11.1381,0 1/1:68:0,68:0:0:68:2425:-218.504,-20.47,0 0/1:154:95,59:95:3359:59:2116:-144.35,0,-256.164 0/1:70:25,45:25:900:45:1601:-123.306,0,-60.2489 1/1:98:1,97:1:36:97:3441:-306.303,-25.9027,0 1/1:69:0,69:0:0:69:2469:-222.461,-20.7711,0 chr11 18520138 . CG TA,TG 30347.5 PASS AB=0.505348,0.491979;ABP=3.19609,3.42834;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1076,379;CIGAR=2X,1X1M;DP=1458;DPB=1458;DPRA=18.175,1.26942;EPP=2339.51,825.998;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.8,2.07143;MQM=58.0809,59.9024;MQMR=0;NS=21;NUMALT=2;ODDS=2.39003;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37767,13475;QR=0;RO=0;RPL=1076,379;RPP=2339.51,825.998;RPPR=0;RPR=0,0;RUN=1,1;SAF=1076,379;SAP=2339.51,825.998;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:47:0,47,0:0:0:47,0:1669,0:-150.483,-14.1484,0,-150.483,-14.1484,-150.483 1/1:12:0,12,0:0:0:12,0:428,0:-38.7433,-3.61236,0,-38.7433,-3.61236,-38.7433 1/1:61:0,61,0:0:0:61,0:2122,0:-191.044,-18.3628,0,-191.044,-18.3628,-191.044 1/2:82:0,53,29:0:0:53,29:1821,1032:-232.142,-84.463,-68.5085,-148.03,0,-139.3 1/2:123:0,70,53:0:0:70,53:2489,1904:-356.825,-155.683,-134.611,-201.498,0,-185.543 1/2:33:0,18,15:0:0:18,15:629,536:-94.9824,-44.0594,-38.6408,-51.276,0,-46.7605 1/1:120:0,119,1:0:0:119,1:4200,36:-376.972,-35.8226,0,-374.035,-32.5253,-373.734 1/2:49:0,24,25:0:0:24,25:839,870:-139.21,-70.9986,-63.7739,-68.5597,0,-61.0339 1/2:194:0,84,108:0:0:84,108:2974,3837:-554.95,-312.71,-287.424,-242.288,0,-209.777 1/1:6:0,6,0:0:0:6,0:201,0:-18.2809,-1.80618,0,-18.2809,-1.80618,-18.2809 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:16:0,9,7:0:0:9,7:316,252:-46.6274,-20.9217,-18.2125,-26.0615,0,-23.9543 1/1:135:0,134,0:0:0:134,0:4725,0:-424.875,-40.338,0,-424.875,-40.338,-424.875 1/2:82:0,39,43:0:0:39,43:1339,1515:-232.412,-123.697,-111.957,-109.062,0,-96.1181 1/1:125:0,125,0:0:0:125,0:4378,0:-393.685,-37.6288,0,-393.685,-37.6288,-393.685 1/1:26:0,26,0:0:0:26,0:908,0:-82.025,-7.82678,0,-82.025,-7.82678,-82.025 1/1:20:0,19,1:0:0:19,1:671,36:-60.3289,-5.71957,0,-57.3911,-2.42233,-57.0901 1/2:102:0,38,64:0:0:38,64:1340,2277:-294.87,-185.923,-174.484,-109.301,0,-90.0347 1/2:67:0,43,24:0:0:43,24:1525,856:-194.333,-70.1364,-57.1921,-124.553,0,-117.328 1/1:110:0,106,4:0:0:106,4:3685,144:-330.262,-31.9092,0,-318.512,-19.7997,-317.308 1/1:44:0,43,1:0:0:43,1:1508,36:-135.423,-12.9443,0,-132.485,-9.64705,-132.184 chr11 19237145 . C T 60205.3 PASS AB=0.521925;ABP=10.8183;AC=31;AF=0.738095;AN=42;AO=2855;CIGAR=1X;DP=3753;DPB=3753;DPRA=0;EPP=6185.2;EPPR=1905.46;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.8497;MQMR=59.9085;NS=21;NUMALT=1;ODDS=25.1398;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102021;QR=31814;RO=896;RPL=2;RPP=6185.2;RPPR=1905.46;RPR=2853;RUN=1;SAF=2855;SAP=6202.56;SAR=0;SRF=896;SRP=1948.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:202:1,201:1:36:201:7175:-641.896,-57.2098,0 1/1:199:0,199:0:0:199:7103:-639.298,-59.905,0 1/1:155:0,155:0:0:155:5538:-498.044,-46.6597,0 0/1:320:156,163:156:5507:163:5811:-426.812,0,-399.529 0/1:532:239,293:239:8486:293:10469:-781.919,0,-603.596 0/1:147:79,68:79:2823:68:2431:-174.794,0,-210.057 1/1:329:0,329:0:0:329:11768:-1057.94,-99.0389,0 0/1:160:94,66:94:3329:66:2360:-164.494,0,-251.664 0/1:296:154,142:154:5470:142:5069:-367.247,0,-403.194 0/1:22:9,13:9:320:13:455:-34.6593,0,-22.5197 0/1:24:11,13:11:381:13:447:-33.333,0,-27.3959 0/1:49:28,21:28:999:21:752:-53.2558,0,-75.3666 1/1:179:1,178:1:36:178:6362:-568.971,-50.2861,0 0/1:146:46,100:46:1640:100:3575:-277.978,0,-103.938 1/1:292:0,291:0:0:291:10411:-936.671,-87.5997,0 1/1:153:0,153:0:0:153:5478:-492.81,-46.0576,0 1/1:169:0,169:0:0:169:6040:-543.696,-50.8741,0 0/1:84:44,40:44:1567:40:1436:-104.251,0,-115.988 0/1:90:33,57:33:1184:57:2048:-157.498,0,-79.7756 1/1:156:1,155:1:36:155:5533:-494.498,-43.3624,0 1/1:49:0,49:0:0:49:1760:-158.684,-14.7505,0 chr11 19349824 . GACTATGA AACAATGG,GACAATGA 49919.7 PASS AB=0.51018,0.486228;ABP=3.76186,4.386;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1891,413;CIGAR=1X2M1X3M1X,3M1X4M;DP=2312;DPB=2312;DPRA=0,0.815973;EPP=4109.26,899.828;EPPR=0;GTI=1;LEN=8,1;MEANALT=2,2.30769;MQM=59.6029,59.9927;MQMR=0;NS=21;NUMALT=2;ODDS=3.93275;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=67038,14813;QR=0;RO=0;RPL=0,0;RPP=4109.26,899.828;RPPR=0;RPR=1891,413;RUN=1,1;SAF=1891,413;SAP=4109.26,899.828;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:152:0,151,0:0:0:151,0:5360,0:-482.133,-45.4555,0,-482.133,-45.4555,-482.133 1/1:122:0,122,0:0:0:122,0:4354,0:-392.002,-36.7257,0,-392.002,-36.7257,-392.002 1/1:103:0,103,0:0:0:103,0:3685,0:-331.578,-31.0061,0,-331.578,-31.0061,-331.578 1/2:79:0,43,36:0:0:43,36:1533,1292:-230.694,-105.747,-92.8024,-125.305,0,-114.467 1/1:265:0,263,1:0:0:263,1:9266,36:-833.509,-79.1709,0,-830.572,-76.2333,-830.271 1/2:154:0,77,76:0:0:77,76:2697,2732:-442.255,-222.886,-199.707,-219.366,0,-196.487 1/1:202:0,200,0:0:0:200,0:7101,0:-638.826,-60.206,0,-638.826,-60.206,-638.826 1/2:92:0,47,45:0:0:47,45:1673,1620:-268.881,-132.544,-118.395,-136.696,0,-123.149 1/2:261:0,120,140:0:0:120,140:4276,5008:-756.943,-408.423,-372.3,-348.576,0,-306.432 1/2:20:0,13,7:0:0:13,7:468,252:-59.0868,-20.9217,-17.0084,-38.5248,0,-36.4176 1/2:5:0,2,3:0:0:2,3:72,108:-15.0469,-9.17208,-8.57002,-6.23466,0,-5.33157 1/2:23:0,12,11:0:0:12,11:432,381:-66.5548,-31.3093,-27.6969,-35.5981,0,-32.2868 1/1:99:0,99,0:0:0:99,0:3512,0:-316.276,-29.802,0,-316.276,-29.802,-316.276 1/2:97:0,46,51:0:0:46,51:1639,1836:-283.748,-150.167,-136.319,-133.94,0,-118.587 1/1:127:0,126,0:0:0:126,0:4437,0:-398.989,-37.9298,0,-398.989,-37.9298,-398.989 1/1:70:0,70,0:0:0:70,0:2494,0:-224.707,-21.0721,0,-224.707,-21.0721,-224.707 1/1:119:0,119,0:0:0:119,0:4186,0:-376.693,-35.8226,0,-376.693,-35.8226,-376.693 1/2:52:0,27,24:0:0:27,24:951,864:-147.977,-70.5555,-62.4277,-77.4747,0,-70.25 1/2:52:0,39,13:0:0:39,13:1382,468:-151.115,-38.5463,-26.8061,-112.927,0,-109.014 1/1:154:0,150,4:0:0:150,4:5326,144:-479.023,-45.1545,0,-467.273,-33.045,-466.069 1/1:64:0,62,2:0:0:62,2:2194,72:-197.317,-18.6639,0,-191.442,-12.4292,-190.84 chr11 19354109 . TAGT CAGC,TAGC 13701.6 PASS AB=0.50974,0.470779;ABP=3.26411,5.29458;AC=32,10;AF=0.761905,0.238095;AN=42;AO=508,147;CIGAR=1X2M1X,3M1X;DP=663;DPB=663;DPRA=0,1.07812;EPP=1106.12,322.217;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=1.85714,2.41667;MQM=50.6063,58.8776;MQMR=29;NS=21;NUMALT=2;ODDS=9.62201;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17608,5124;QR=30;RO=1;RPL=496,146;RPP=1004.35,313.59;RPPR=5.18177;RPR=12,1;RUN=1,1;SAF=496,146;SAP=1004.35,313.59;SAR=12,1;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:36:0,36,0:0:0:36,0:1255,0:-112.119,-10.8371,0,-112.119,-10.8371,-112.119 1/1:17:0,17,0:0:0:17,0:600,0:-51.8767,-5.11751,0,-51.8767,-5.11751,-51.8767 1/1:29:0,29,0:0:0:29,0:997,0:-88.7156,-8.72987,0,-88.7156,-8.72987,-88.7156 1/2:24:0,14,10:0:0:14,10:487,352:-66.7602,-27.1825,-22.968,-39.916,0,-36.9057 1/1:40:0,40,0:0:0:40,0:1376,0:-123.526,-12.0412,0,-123.526,-12.0412,-123.526 1/2:13:0,8,5:0:0:8,5:281,180:-36.4814,-15.035,-12.6267,-21.7952,0,-20.2901 1/1:51:0,50,1:0:0:50,1:1753,36:-152.552,-15.0515,0,-149.616,-11.7569,-149.315 1/2:37:1,16,19:1:30:16,19:563,676:-98.5513,-53.1142,-50.3743,-43.7533,0,-40.11 1/2:32:0,14,18:0:0:14,18:441,644:-87.6606,-52.7605,-48.5461,-35.231,0,-29.8124 1/2:6:0,2,4:0:0:2,4:62,140:-16.6865,-11.7405,-11.1384,-5.26864,0,-4.06452 1/2:5:0,2,3:0:0:2,3:72,104:-14.4578,-8.7939,-8.19184,-6.01126,0,-5.10817 1/2:14:0,8,6:0:0:8,6:277,203:-39.2376,-16.795,-14.3868,-22.7837,0,-20.9776 1/1:32:0,32,0:0:0:32,0:1108,0:-98.485,-9.63296,0,-98.485,-9.63296,-98.485 1/2:40:0,19,21:0:0:19,21:658,752:-115.113,-61.6823,-55.9627,-53.7823,0,-47.4607 1/1:57:0,56,0:0:0:56,0:1939,0:-174.13,-16.8577,0,-174.13,-16.8577,-174.13 1/1:21:0,21,0:0:0:21,0:745,0:-67.0533,-6.32163,0,-67.0533,-6.32163,-67.0533 1/1:16:0,16,0:0:0:16,0:558,0:-49.5043,-4.81648,0,-49.5043,-4.81648,-49.5043 1/2:85:0,43,39:0:0:43,39:1496,1328:-228.76,-107.767,-94.8225,-121.044,0,-109.304 1/2:52:0,31,20:0:0:31,20:1083,673:-141.65,-54.4544,-45.1225,-87.2364,0,-81.2158 1/1:32:0,30,1:0:0:30,1:1023,36:-90.796,-9.0309,0,-87.8579,-6.09323,-87.5569 1/1:24:0,24,0:0:0:24,0:834,0:-70.6805,-7.22472,0,-70.6805,-7.22472,-70.6805 chr11 19354480 . G A 14907.6 PASS AB=0.527143;ABP=7.48974;AC=32;AF=0.761905;AN=42;AO=1686;CIGAR=1X;DP=2027;DPB=2027;DPRA=0;EPP=3664.11;EPPR=743.482;GTI=2;LEN=1;MEANALT=1;MQM=21.7266;MQMR=35.3842;NS=21;NUMALT=1;ODDS=6.79045;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60406;QR=12199;RO=341;RPL=0;RPP=3664.11;RPPR=743.482;RPR=1686;RUN=1;SAF=1686;SAP=3664.11;SAR=0;SRF=341;SRP=743.482;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:2,83:2:68:83:2969:-153.84,-19.5517,0 1/1:114:0,114:0:0:114:4077:-224.685,-34.3174,0 1/1:101:3,98:3:108:98:3508:-178.471,-21.1668,0 0/1:124:77,47:77:2730:47:1688:-54.5569,0,-187.405 1/1:260:4,256:4:144:256:9174:-490.064,-66.0614,0 0/1:46:25,21:25:900:21:756:-27.4577,0,-61.6851 1/1:165:1,164:1:36:164:5892:-316.764,-46.3238,0 0/1:55:26,29:26:936:29:1040:-40.6192,0,-59.3159 0/1:265:99,166:99:3545:166:5949:-232.108,0,-205.536 0/1:9:2,7:2:72:7:252:-11.1746,0,-3.55888 0/1:4:2,2:2:68:2:72:-2.94387,0,-4.90142 0/1:36:19,17:19:680:17:612:-22.7834,0,-45.1387 1/1:130:0,130:0:0:130:4634:-252.865,-39.1339,0 0/1:108:64,44:64:2300:44:1576:-53.7662,0,-155.439 1/1:174:0,174:0:0:174:6244:-340.342,-52.3792,0 1/1:100:0,100:0:0:100:3581:-188.636,-30.103,0 1/1:87:0,87:0:0:87:3094:-164.731,-26.1896,0 0/1:15:6,9:6:216:9:324:-13.3864,0,-13.7156 0/1:38:11,27:11:396:27:972:-40.5895,0,-21.5304 1/1:80:0,80:0:0:80:2876:-156.619,-24.0824,0 1/1:31:0,31:0:0:31:1116:-60.4185,-9.33193,0 chr11 19354596 . CTCCGCTTTATC TTCTGCTATC,TTCTGCTTTGTC 44001 PASS AB=0.50463,0.483796;ABP=3.17115,4.98071;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1822,431;CIGAR=1X2M1X2M2D4M,1X2M1X5M1X2M;DP=2268;DPB=1963;DPRA=0,0.823473;EPP=3959.43,938.915;EPPR=0;GTI=1;LEN=10,12;MEANALT=2.2381,2.84615;MQM=40.1943,34.9698;MQMR=0;NS=21;NUMALT=2;ODDS=3.78723;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63657,14545;QR=0;RO=0;RPL=0,0;RPP=3959.43,938.915;RPPR=0;RPR=1822,431;RUN=1,1;SAF=0,0;SAP=3959.43,938.915;SAR=1822,431;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:144:0,139,3:0:0:139,3:4865,106:-420.757,-41.8432,0,-412.853,-33.9445,-411.95 1/1:94:0,94,0:0:0:94,0:3276,0:-285.825,-28.2968,0,-285.825,-28.2968,-285.825 1/1:104:0,104,0:0:0:104,0:3645,0:-315.489,-31.3071,0,-315.489,-31.3071,-315.489 1/2:122:0,54,66:0:0:54,66:1872,2278:-315.529,-169.503,-153.247,-146.038,0,-126.17 1/1:167:0,161,5:0:0:161,5:5573,180:-482.497,-48.4658,0,-469.157,-35.1383,-467.652 1/2:114:0,57,57:0:0:57,57:1996,1790:-286.404,-129.272,-112.113,-157.444,0,-140.285 1/1:245:0,244,0:0:0:244,0:8491,0:-740.888,-73.4513,0,-740.888,-73.4513,-740.888 1/2:126:0,56,70:0:0:56,70:1932,2307:-319.498,-168.8,-151.942,-151.017,0,-129.944 1/2:230:0,141,85:0:0:141,85:4923,2945:-612.699,-224.47,-182.025,-388.295,0,-362.707 1/2:13:0,5,8:0:0:5,8:175,265:-33.4389,-19.742,-18.2369,-14.0213,0,-11.6131 1/2:4:0,1,3:0:0:1,3:36,96:-10.0605,-7.21441,-6.91338,-3.17967,0,-2.27658 1/2:15:0,10,5:0:0:10,5:345,168:-39.6178,-12.648,-9.63773,-27.2858,0,-25.7807 1/1:121:0,121,0:0:0:121,0:4215,0:-365.096,-36.4246,0,-365.096,-36.4246,-365.096 1/2:141:0,54,84:0:0:54,84:1901,2902:-364.423,-216.048,-199.792,-148.423,0,-123.136 1/1:185:0,184,0:0:0:184,0:6437,0:-556.159,-55.3895,0,-556.159,-55.3895,-556.159 1/1:79:0,79,0:0:0:79,0:2763,0:-241.412,-23.7814,0,-241.412,-23.7814,-241.412 1/1:98:0,98,0:0:0:98,0:3452,0:-302.777,-29.5009,0,-302.777,-29.5009,-302.777 1/2:53:0,25,27:0:0:25,27:885,889:-134.153,-65.3192,-57.7935,-68.8447,0,-60.7169 1/2:46:0,33,13:0:0:33,13:1160,451:-124.064,-33.7265,-23.7925,-90.6617,0,-86.7483 1/1:123:0,118,5:0:0:118,5:4169,168:-360.429,-35.5215,0,-348.09,-22.8735,-346.585 1/1:44:0,44,0:0:0:44,0:1546,0:-134.986,-13.2453,0,-134.986,-13.2453,-134.986 chr11 19354612 . TGTTTC CGTCTC,CGTCTA 43749.4 PASS AB=0.501157,0.487269;ABP=3.02035,4.22673;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1824,436;CIGAR=1X2M1X2M,1X2M1X1M1X;DP=2278;DPB=2278;DPRA=0,0.806887;EPP=3963.78,949.772;EPPR=0;GTI=1;LEN=6,6;MEANALT=2.57143,2.86667;MQM=40.3542,34.867;MQMR=0;NS=21;NUMALT=2;ODDS=3.34729;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63069,15184;QR=0;RO=0;RPL=0,0;RPP=3963.78,949.772;RPPR=0;RPR=1824,436;RUN=1,1;SAF=0,0;SAP=3963.78,949.772;SAR=1824,436;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:145:0,140,3:0:0:140,3:4848,102:-419.403,-42.1442,0,-411.72,-34.4547,-410.817 1/1:93:0,93,0:0:0:93,0:3262,0:-284.323,-27.9958,0,-284.323,-27.9958,-284.323 1/1:105:0,103,0:0:0:103,0:3533,0:-306.602,-31.0061,0,-306.602,-31.0061,-306.602 1/2:121:0,54,66:0:0:54,66:1856,2307:-314.629,-169.882,-153.627,-144.716,0,-124.848 1/1:168:0,163,5:0:0:163,5:5547,178:-481.178,-49.0679,0,-467.933,-35.4948,-466.428 1/2:115:0,58,57:0:0:58,57:2005,1978:-293.807,-136.062,-118.602,-158.061,0,-140.903 1/1:245:0,245,0:0:0:245,0:8391,0:-733.066,-73.7524,0,-733.066,-73.7524,-733.066 1/2:126:0,55,70:0:0:55,70:1900,2446:-323.043,-174.423,-157.866,-148.652,0,-127.58 1/2:230:0,141,85:0:0:141,85:4807,2969:-603.977,-225.474,-183.029,-378.541,0,-352.953 1/2:13:0,5,8:0:0:5,8:168,279:-33.514,-20.3373,-18.8321,-13.4973,0,-11.089 1/2:4:0,1,3:0:0:1,3:36,107:-10.4633,-7.62079,-7.31976,-3.17967,0,-2.27658 1/2:15:0,10,5:0:0:10,5:350,175:-40.3259,-12.9358,-9.92552,-27.7119,0,-26.2067 1/1:121:0,120,1:0:0:120,1:4166,36:-360.723,-36.1236,0,-358.412,-33.5219,-358.111 1/2:140:0,51,87:0:0:51,87:1782,3011:-363.091,-223.862,-208.509,-139.215,0,-113.025 1/1:187:0,186,0:0:0:186,0:6434,0:-556.998,-55.9916,0,-556.998,-55.9916,-556.998 1/1:81:0,80,0:0:0:80,0:2764,0:-241.485,-24.0824,0,-241.485,-24.0824,-241.485 1/1:100:0,99,1:0:0:99,1:3449,31:-302.694,-29.802,0,-300.524,-27.3567,-300.223 1/2:54:0,25,28:0:0:25,28:889,972:-139.648,-70.2656,-62.7399,-69.3898,0,-60.961 1/2:46:0,33,12:0:0:33,12:1151,419:-120.615,-31.0158,-21.0818,-89.6231,0,-86.0107 1/1:125:0,119,5:0:0:119,5:4206,174:-363.347,-35.8226,0,-350.763,-23.2106,-349.258 1/1:44:0,43,0:0:0:43,0:1525,0:-132.867,-12.9443,0,-132.867,-12.9443,-132.867 chr11 19354679 . C A 56595.7 PASS AB=0.565854;ABP=80.23;AC=13;AF=0.309524;AN=42;AO=2471;CIGAR=1X;DP=5737;DPB=5737;DPRA=1.82121;EPP=2439.19;EPPR=4.02188;GTI=0;LEN=1;MEANALT=1;MQM=52.6212;MQMR=59.7418;NS=21;NUMALT=1;ODDS=27.7268;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=88197;QR=116095;RO=3265;RPL=0;RPP=5368.72;RPPR=7058.17;RPR=2471;RUN=1;SAF=2068;SAP=2439.19;SAR=403;SRF=1617;SRP=3.64944;SRR=1648;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:215:211,4:211:7491:4:136:0,-52.1544,-661.483 0/0:185:184,0:184:6550:0:0:0,-55.3895,-588.302 0/0:195:194,1:194:6851:1:36:0,-55.1077,-612.933 0/1:228:121,107:121:4284:107:3836:-276.31,0,-316.973 0/0:264:257,7:257:9140:7:248:0,-56.8077,-799.82 0/1:221:126,95:126:4492:95:3385:-237.322,0,-337.836 0/0:172:171,1:171:6076:1:36:0,-48.1789,-543.198 0/1:256:132,124:132:4670:124:4399:-316.983,0,-343.364 0/1:436:198,238:198:7014:238:8519:-633.345,0,-499.588 1/1:452:14,438:14:504:438:15652:-1356.08,-90.3675,0 1/1:225:9,216:9:324:216:7683:-656.351,-38.2259,0 1/1:668:33,635:33:1184:635:22687:-1924.51,-94.2216,0 0/0:252:251,1:251:8986:1:36:0,-72.2703,-804.921 0/1:301:135,166:135:4794:166:5898:-438.328,0,-340.999 0/0:408:405,3:405:14401:3:108:0,-112.745,-1285.57 0/0:153:153,0:153:5459:0:0:0,-46.0576,-491.427 0/0:143:142,1:142:5063:1:27:0,-40.5234,-452.575 0/1:455:68,387:68:2428:387:13835:-1102.41,0,-81.8073 0/1:153:110,43:110:3932:43:1532:-91.542,0,-307.992 0/0:212:208,4:208:7362:4:144:0,-50.5047,-648.899 0/0:143:143,0:143:5090:0:0:0,-43.0473,-458.21 chr11 19354736 . A G 6604.08 PASS AB=0.478002;ABP=6.54507;AC=10;AF=0.238095;AN=42;AO=418;CIGAR=1X;DP=2116;DPB=2116;DPRA=1.36333;EPP=910.686;EPPR=3690.17;GTI=0;LEN=1;MEANALT=1;MQM=59.4665;MQMR=59.8881;NS=21;NUMALT=1;ODDS=20.6494;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14989;QR=60726;RO=1698;RPL=418;RPP=910.686;RPPR=3690.17;RPR=0;RUN=1;SAF=0;SAP=910.686;SAR=418;SRF=0;SRP=3690.17;SRR=1698;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:112:111,1:111:3976:1:36:0,-30.1171,-354.427 0/0:89:89,0:89:3192:0:0:0,-26.7917,-286.602 0/0:103:103,0:103:3704:0:0:0,-31.0061,-333.56 0/1:80:46,34:46:1633:34:1220:-86.0205,0,-123.174 0/0:229:222,7:222:7923:7:244:0,-46.6364,-689.445 0/1:118:60,58:60:2148:58:2088:-152.63,0,-158.066 0/0:95:94,1:94:3368:1:36:0,-24.9996,-299.738 0/1:90:52,38:52:1868:38:1364:-95.9634,0,-141.302 0/1:217:106,111:106:3796:111:3990:-293.372,0,-276.025 0/1:15:7,8:7:252:8:288:-21.752,0,-18.5135 0/1:11:3,8:3:108:8:288:-22.9561,0,-6.76384 0/1:49:21,28:21:748:28:1008:-76.2859,0,-52.8902 0/0:104:104,0:104:3709:0:0:0,-31.3071,-334.011 0/1:129:65,64:65:2320:64:2291:-167.431,0,-170.141 0/0:239:236,3:236:8415:3:108:0,-61.871,-747.278 0/0:61:61,0:61:2180:0:0:0,-18.3628,-196.464 0/0:52:52,0:52:1864:0:0:0,-15.6536,-168.039 0/1:62:24,38:24:860:38:1352:-103.313,0,-59.058 0/1:70:55,15:55:1976:15:532:-27.1125,0,-157.043 0/0:120:116,4:116:4130:4:144:0,-22.81,-358.569 0/0:71:71,0:71:2556:0:0:0,-21.3731,-230.29 chr11 19358724 . 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C T 22298.8 PASS AB=0.427835;ABP=29.3366;AC=32;AF=0.761905;AN=42;AO=1050;CIGAR=1X;DP=1389;DPB=1389;DPRA=0;EPP=2283.06;EPPR=739.139;GTI=0;LEN=1;MEANALT=1;MQM=59.9724;MQMR=59.9764;NS=21;NUMALT=1;ODDS=15.4224;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37545;QR=12097;RO=339;RPL=0;RPP=2283.06;RPPR=739.139;RPR=1050;RUN=1;SAF=1050;SAP=2283.06;SAR=0;SRF=339;SRP=739.139;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:0,64:0:0:64:2300:-207.261,-19.2659,0 1/1:64:0,64:0:0:64:2296:-206.901,-19.2659,0 1/1:44:0,44:0:0:44:1584:-142.852,-13.2453,0 0/1:85:44,41:44:1580:41:1449:-105.116,0,-116.904 1/1:95:2,93:2:72:93:3326:-292.718,-21.7611,0 0/1:41:27,14:27:968:14:500:-32.9939,0,-75.0951 1/1:76:1,75:1:36:75:2692:-238.82,-19.28,0 0/1:69:49,20:49:1764:20:712:-43.6356,0,-138.273 0/1:91:52,39:52:1849:39:1400:-98.9055,0,-139.294 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.13 0/1:22:13,9:13:453:9:324:-22.8832,0,-34.477 1/1:60:0,60:0:0:60:2140:-192.868,-18.0618,0 0/1:69:37,32:37:1332:32:1133:-81.5056,0,-99.4113 1/1:124:0,124:0:0:124:4440:-399.77,-37.3277,0 1/1:50:0,50:0:0:50:1792:-161.562,-15.0515,0 1/1:89:0,89:0:0:89:3172:-285.704,-26.7917,0 0/1:139:83,56:83:2967:56:2003:-138.7,0,-225.419 0/1:50:17,33:17:591:33:1179:-91.3657,0,-38.4638 1/1:76:2,74:2:72:74:2637:-230.739,-16.0416,0 1/1:65:1,64:1:21:64:2286:-203.902,-17.467,0 chr11 19374788 . C T 5792.26 PASS AB=0.558059;ABP=19.9041;AC=10;AF=0.238095;AN=42;AO=327;CIGAR=1X;DP=1380;DPB=1380;DPRA=0.885542;EPP=670.316;EPPR=2195.02;GTI=0;LEN=1;MEANALT=1;MQM=59.9755;MQMR=59.9725;NS=21;NUMALT=1;ODDS=19.8733;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11706;QR=37609;RO=1053;RPL=5;RPP=670.316;RPPR=2195.02;RPR=322;RUN=1;SAF=327;SAP=713.082;SAR=0;SRF=1053;SRP=2289.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:63,0:63:2252:0:0:0,-18.9649,-202.943 0/0:65:65,0:65:2316:0:0:0,-19.5669,-208.701 0/0:43:43,0:43:1548:0:0:0,-12.9443,-139.613 0/1:85:41,44:41:1464:44:1580:-116.904,0,-106.469 0/0:94:92,2:92:3288:2:72:0,-21.4601,-289.298 0/1:42:15,27:15:536:27:972:-75.1546,0,-35.9316 0/0:75:74,1:74:2643:1:36:0,-18.979,-234.503 0/1:67:20,47:20:707:47:1679:-131.227,0,-43.7856 0/1:88:38,50:38:1360:50:1796:-135.432,0,-96.21 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:7:3,4:3:108:4:138:-10.6505,0,-7.96796 0/1:23:9,14:9:309:14:504:-38.7744,0,-21.217 0/0:60:59,1:59:2108:1:36:0,-14.4635,-186.391 0/1:72:34,38:34:1224:38:1349:-100.035,0,-88.7929 0/0:123:123,0:123:4404:0:0:0,-37.0267,-396.533 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 0/0:88:88,0:88:3135:0:0:0,-26.4906,-282.376 0/1:135:59,76:59:2076:76:2716:-204.044,0,-146.469 0/1:49:33,16:33:1180:16:576:-37.4245,0,-91.7576 0/0:76:75,1:75:2683:1:36:0,-19.28,-238.116 0/0:66:66,0:66:2364:0:0:0,-19.868,-213.018 chr11 19374798 . G A 22163 PASS AB=0.429054;ABP=28.8919;AC=32;AF=0.761905;AN=42;AO=1050;CIGAR=1X;DP=1395;DPB=1395;DPRA=0;EPP=2283.06;EPPR=743.508;GTI=0;LEN=1;MEANALT=1;MQM=59.9724;MQMR=59.9768;NS=21;NUMALT=1;ODDS=16.8573;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37470;QR=12364;RO=345;RPL=1050;RPP=2283.06;RPPR=743.508;RPR=0;RUN=1;SAF=1050;SAP=2283.06;SAR=0;SRF=345;SRP=752.168;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:0,64:0:0:64:2289:-206.27,-19.2659,0 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 1/1:44:0,44:0:0:44:1572:-141.772,-13.2453,0 0/1:83:44,39:44:1569:39:1385:-99.9614,0,-116.514 1/1:96:2,94:2:68:94:3365:-296.593,-22.4412,0 0/1:42:27,15:27:972:15:540:-36.2933,0,-75.1546 1/1:76:1,75:1:36:75:2681:-237.931,-19.28,0 0/1:68:49,19:49:1756:19:680:-41.0591,0,-137.854 0/1:93:54,39:54:1944:39:1376:-96.1429,0,-147.24 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/1:7:4,3:4:140:3:108:-7.96796,0,-10.834 0/1:23:14,9:14:504:9:294:-19.8519,0,-38.7744 1/1:59:1,58:1:36:58:2084:-184.232,-14.1625,0 0/1:73:39,34:39:1396:34:1216:-87.7714,0,-103.964 1/1:122:0,122:0:0:122:4338:-390.595,-36.7257,0 1/1:50:1,49:1:36:49:1760:-155.086,-11.4532,0 1/1:86:0,86:0:0:86:3080:-277.428,-25.8886,0 0/1:142:82,60:82:2935:60:2152:-151.201,0,-221.637 0/1:51:18,33:18:648:33:1143:-87.817,0,-43.2994 1/1:77:2,75:2:72:75:2681:-234.697,-16.3426,0 1/1:65:0,65:0:0:65:2326:-209.6,-19.567,0 chr11 19374799 . G T 5825 PASS AB=0.568259;ABP=26.726;AC=10;AF=0.238095;AN=42;AO=338;CIGAR=1X;DP=1389;DPB=1389;DPRA=0.900202;EPP=728.308;EPPR=2285.23;GTI=0;LEN=1;MEANALT=1;MQM=59.9763;MQMR=59.9724;NS=21;NUMALT=1;ODDS=17.1866;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12059;QR=37495;RO=1051;RPL=337;RPP=728.308;RPPR=2285.23;RPR=1;RUN=1;SAF=338;SAP=736.968;SAR=0;SRF=1051;SRP=2285.23;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2280:0:0:0,-19.2659,-205.46 0/0:65:65,0:65:2325:0:0:0,-19.5669,-209.508 0/0:44:44,0:44:1584:0:0:0,-13.2453,-142.852 0/1:85:40,45:40:1428:45:1620:-120.502,0,-103.23 0/0:96:94,2:94:3350:2:72:0,-22.0622,-294.864 0/1:42:15,27:15:540:27:962:-74.253,0,-36.2933 0/0:75:74,1:74:2660:1:36:0,-18.979,-235.941 0/1:69:20,49:20:705:49:1760:-137.913,0,-43.0017 0/1:90:38,52:38:1349:52:1857:-140.315,0,-94.6156 0/1:10:3,7:3:108:7:248:-19.6539,0,-7.06487 0/1:7:3,4:3:108:4:144:-11.198,0,-7.96796 0/1:23:9,14:9:320:14:504:-38.7744,0,-22.2187 0/0:60:59,1:59:2094:1:36:0,-14.4635,-185.128 0/1:72:32,40:32:1144:40:1432:-107.503,0,-81.5954 0/0:122:122,0:122:4363:0:0:0,-36.7257,-392.844 0/0:50:50,0:50:1785:0:0:0,-15.0515,-160.931 0/0:86:86,0:86:3058:0:0:0,-25.8886,-275.447 0/1:138:60,78:60:2129:78:2744:-205.661,0,-150.335 0/1:50:33,17:33:1180:17:608:-40.0005,0,-91.4565 0/0:76:75,1:75:2688:1:36:0,-19.28,-238.566 0/0:65:65,0:65:2297:0:0:0,-19.5669,-206.988 chr11 19583292 . C T 4817.9 PASS AB=0.477093;ABP=5.89531;AC=10;AF=0.238095;AN=42;AO=305;CIGAR=1X;DP=1376;DPB=1376;DPRA=0.909164;EPP=665.309;EPPR=2328.66;GTI=0;LEN=1;MEANALT=1;MQM=59.9475;MQMR=59.9767;NS=21;NUMALT=1;ODDS=7.44446;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10776;QR=38286;RO=1071;RPL=0;RPP=665.309;RPPR=2328.66;RPR=305;RUN=1;SAF=305;SAP=665.309;SAR=0;SRF=1071;SRP=2328.66;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:92:92,0:92:3288:0:0:0,-27.6948,-296.138 0/0:68:67,1:67:2366:1:36:0,-16.8718,-209.591 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.801 0/1:51:26,25:26:932:25:892:-65.2472,0,-68.8463 0/0:103:103,0:103:3692:0:0:0,-31.0061,-332.482 0/1:72:46,26:46:1644:26:924:-61.8035,0,-126.574 0/0:74:74,0:74:2651:0:0:0,-22.2762,-238.835 0/1:46:20,26:20:720:26:924:-69.6303,0,-51.2814 0/1:177:68,109:68:2432:109:3804:-289.229,0,-165.853 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:7:4,3:4:144:3:104:-7.5956,0,-11.2064 0/0:91:91,0:91:3256:0:0:0,-27.3937,-293.261 0/1:65:31,34:31:1104:34:1200:-88.7387,0,-80.1037 0/0:68:68,0:68:2432:0:0:0,-20.47,-219.136 0/0:40:40,0:40:1405:0:0:0,-12.0412,-126.745 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:115:70,45:70:2504:45:1612:-110.752,0,-190.994 0/1:90:63,27:63:2252:27:956:-59.263,0,-175.851 0/0:53:51,2:51:1832:2:72:0,-9.11787,-158.324 0/0:69:69,0:69:2480:0:0:0,-20.7711,-223.453 chr11 19583304 . C G 22224.9 PASS AB=0.514914;ABP=4.24091;AC=32;AF=0.761905;AN=42;AO=1055;CIGAR=1X;DP=1367;DPB=1367;DPRA=0;EPP=2293.91;EPPR=678.338;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9763;MQMR=59.9486;NS=21;NUMALT=1;ODDS=9.34521;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37630;QR=11094;RO=311;RPL=0;RPP=2293.91;RPPR=678.338;RPR=1055;RUN=1;SAF=1055;SAP=2293.91;SAR=0;SRF=311;SRP=678.338;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:92:0,92:0:0:92:3281:-295.507,-27.6948,0 1/1:67:1,66:1:36:66:2359:-208.899,-16.5707,0 1/1:49:0,49:0:0:49:1717:-154.812,-14.7505,0 0/1:52:26,26:26:919:26:936:-68.9059,0,-67.3726 1/1:101:0,101:0:0:101:3611:-325.196,-30.404,0 0/1:69:25,44:25:892:44:1564:-120.281,0,-59.8286 1/1:73:0,73:0:0:73:2603:-234.518,-21.9752,0 0/1:46:26,20:26:932:20:712:-50.5593,0,-70.3515 0/1:181:112,69:112:4016:69:2464:-167.528,0,-307.086 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 1/1:90:0,90:0:0:90:3228:-290.742,-27.0927,0 0/1:65:35,30:35:1252:30:1072:-77.2255,0,-93.4181 1/1:64:0,64:0:0:64:2262:-203.842,-19.2659,0 1/1:39:0,39:0:0:39:1400:-126.299,-11.7402,0 1/1:34:0,34:0:0:34:1208:-109.026,-10.235,0 0/1:116:47,69:47:1668:69:2459:-186.645,0,-115.488 0/1:90:26,63:26:915:63:2235:-174.302,0,-55.5528 1/1:53:2,51:2:72:51:1828:-157.964,-9.11787,0 1/1:68:0,68:0:0:68:2439:-219.764,-20.47,0 chr11 19590591 . GGTT TGTT,TGTC 31256.1 PASS AB=0.474398,0.521084;ABP=6.79075,5.57421;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1126,348;CIGAR=1X3M,1X2M1X;DP=1479;DPB=1479.75;DPRA=0,1.15266;EPP=2448.09,758.683;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.80952,2.25;MQM=59.984,59.8506;MQMR=0;NS=21;NUMALT=2;ODDS=1.16179;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=1;QA=40174,11768;QR=0;RO=0;RPL=1126,348;RPP=2448.09,758.683;RPPR=0;RPR=0,0;RUN=1,1;SAF=1126,348;SAP=2448.09,758.683;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:0,49,0:0:0:49,0:1756,0:-158.324,-14.7505,0,-158.324,-14.7505,-158.324 1/1:22:0,22,0:0:0:22,0:792,0:-71.6057,-6.62266,0,-71.6057,-6.62266,-71.6057 1/1:90:0,89,0:0:0:89,0:3159,0:-284.174,-26.7917,0,-284.174,-26.7917,-284.174 1/2:91:0,40,51:0:0:40,51:1436,1706:-255.616,-138.468,-126.426,-117.496,0,-102.144 1/1:116:0,115,1:0:0:115,1:4119,35:-370.544,-34.6185,0,-367.696,-31.4209,-367.395 1/2:53:0,23,30:0:0:23,30:824,1028:-151,-83.7914,-76.8677,-67.5596,0,-58.5287 1/1:96:0,96,0:0:0:96,0:3395,0:-305.765,-28.8989,0,-305.765,-28.8989,-305.765 1/2:62:0,23,39:0:0:23,39:820,1321:-174.293,-107.444,-100.521,-67.1988,0,-55.4587 1/2:163:0,66,96:0:0:66,96:2347,3223:-452.302,-261.046,-241.178,-191.244,0,-162.345 1/2:6:0,5,1:0:0:5,1:176,36:-17.6186,-3.29724,-1.79209,-14.6799,0,-14.3788 1/2:4:0,2,2:0:0:2,2:68,71:-11.6483,-6.14,-5.53794,-5.85565,0,-5.25359 1/2:21:0,5,16:0:0:5,16:171,513:-55.5435,-41.66,-40.1548,-14.2203,0,-9.40382 1/1:107:0,106,0:0:0:106,0:3764,0:-338.659,-31.9092,0,-338.659,-31.9092,-338.659 1/2:65:0,31,33:0:0:31,33:1116,1166:-186.098,-95.0335,-85.7016,-91.1663,0,-81.2324 1/1:128:0,128,0:0:0:128,0:4588,0:-413.084,-38.5318,0,-413.084,-38.5318,-413.084 1/1:32:0,32,0:0:0:32,0:1148,0:-103.63,-9.63296,0,-103.63,-9.63296,-103.63 1/1:11:0,11,0:0:0:11,0:396,0:-35.8976,-3.31133,0,-35.8976,-3.31133,-35.8976 1/2:134:0,70,63:0:0:70,63:2468,2112:-372.066,-171.108,-150.036,-201.029,0,-182.065 1/2:65:0,50,15:0:0:50,15:1787,522:-188.497,-42.7931,-27.7416,-146.054,0,-141.539 1/1:116:0,115,1:0:0:115,1:4120,35:-370.634,-34.6185,0,-367.787,-31.4209,-367.486 1/1:48:0,48,0:0:0:48,0:1724,0:-155.445,-14.4494,0,-155.445,-14.4494,-155.445 chr11 19591038 . G A 22960.5 PASS AB=0.537162;ABP=10.1116;AC=33;AF=0.785714;AN=42;AO=1103;CIGAR=1X;DP=1380;DPB=1380;DPRA=0;EPP=2398.14;EPPR=602.337;GTI=0;LEN=1;MEANALT=1.04762;MQM=55.0462;MQMR=54.7319;NS=21;NUMALT=1;ODDS=11.6192;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38840;QR=9647;RO=276;RPL=0;RPP=2398.14;RPPR=602.337;RPR=1103;RUN=1;SAF=0;SAP=2398.14;SAR=1103;SRF=0;SRP=602.337;SRR=276;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102:0:0:102:3566:-320.172,-30.7051,0 1/1:45:0,45:0:0:45:1595:-143.309,-13.5464,0 1/1:62:0,62:0:0:62:2207:-198.504,-18.6639,0 0/1:144:64,79:64:2255:79:2729:-202.136,0,-159.522 1/1:75:3,72:3:108:72:2572:-221.212,-12.5093,0 0/1:50:23,27:23:805:27:921:-67.772,0,-57.5249 1/1:35:0,35:0:0:35:1235:-111.032,-10.5361,0 0/1:66:38,28:38:1304:28:972:-67.7117,0,-97.2568 0/1:128:56,72:56:1962:72:2530:-189.032,0,-138.109 1/1:7:0,7:0:0:7:252:-23.0087,-2.10721,0 0/1:9:4,5:4:140:5:180:-13.7804,0,-10.2068 0/1:16:7,9:7:244:9:324:-24.663,0,-17.4559 1/1:112:0,112:0:0:112:3960:-356.171,-33.7154,0 0/1:81:46,35:46:1608:35:1232:-86.6597,0,-119.97 1/1:84:0,84:0:0:84:2928:-263.413,-25.2865,0 1/1:80:0,80:0:0:80:2834:-255.064,-24.0824,0 1/1:73:0,73:0:0:73:2604:-234.484,-21.9752,0 0/1:28:12,16:12:416:16:555:-41.7914,0,-29.2428 0/1:70:23,47:23:805:47:1667:-128.927,0,-51.6465 1/1:65:0,65:0:0:65:2307:-207.548,-19.567,0 1/1:48:0,48:0:0:48:1670:-149.934,-14.4494,0 chr11 19591062 . 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T C 76076.6 PASS AB=0.51094;ABP=4.62563;AC=32;AF=0.761905;AN=42;AO=2835;CIGAR=1X;DP=3611;DPB=3611;DPRA=0;EPP=242.356;EPPR=6.64625;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9764;MQMR=59.9897;NS=21;NUMALT=1;ODDS=36.7872;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=100279;QR=27520;RO=774;RPL=6;RPP=6107.13;RPPR=1666.4;RPR=2829;RUN=1;SAF=1703;SAP=252.742;SAR=1132;SRF=407;SRP=7.49913;SRR=367;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:169:1,168:1:36:168:5946:-531.653,-47.2758,0 1/1:163:1,161:1:36:161:5683:-507.994,-45.5284,0 1/1:118:1,116:1:36:116:4081:-363.878,-31.9821,0 0/1:183:84,99:84:2987:99:3529:-262.73,0,-213.974 1/1:365:3,362:3:108:362:12800:-1141.68,-99.8008,0 0/1:177:95,82:95:3368:82:2897:-207.684,0,-250.054 1/1:274:0,274:0:0:274:9731:-875.745,-82.4822,0 0/1:227:120,107:120:4280:107:3802:-274.045,0,-317.046 0/1:266:114,152:114:4059:152:5400:-406.059,0,-285.417 0/1:26:13,13:13:459:13:460:-33.9086,0,-33.8173 0/1:22:9,13:9:324:13:468:-35.837,0,-22.8832 0/1:58:25,33:25:883:33:1188:-89.7689,0,-62.3277 1/1:172:0,172:0:0:172:6109:-549.915,-51.7772,0 0/1:192:105,87:105:3718:87:3070:-218.73,0,-277.026 1/1:313:2,311:2:72:311:10949:-978.482,-87.3857,0 1/1:107:0,107:0:0:107:3753:-337.975,-32.2102,0 1/1:116:3,113:3:108:113:3975:-347.844,-24.8443,0 0/1:267:142,125:142:5050:125:4375:-313.553,0,-374.273 0/1:136:53,83:53:1892:83:2964:-226.054,0,-129.618 1/1:156:2,154:2:68:154:5438:-483.094,-40.503,0 1/1:104:1,103:1:36:103:3661:-326.096,-27.7088,0 chr11 19867309 . 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A T 52199.1 PASS AB=0.564957;ABP=45.8904;AC=32;AF=0.761905;AN=42;AO=2433;CIGAR=1X;DP=2951;DPB=2951;DPRA=0;EPP=5277.52;EPPR=1108.36;GTI=1;LEN=1;MEANALT=1.04762;MQM=54.4612;MQMR=59.9188;NS=21;NUMALT=1;ODDS=11.7243;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=86960;QR=18523;RO=517;RPL=1;RPP=5277.52;RPPR=1108.36;RPR=2432;RUN=1;SAF=2433;SAP=5286.2;SAR=0;SRF=517;SRP=1125.66;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:182:0,181:0:0:181:6485:-582.469,-54.4864,0 1/1:168:2,166:2:57:166:5917:-524.354,-45.1597,0 1/1:199:0,199:0:0:199:7072:-635.314,-59.905,0 0/1:132:68,64:68:2440:64:2285:-165.966,0,-179.989 1/1:209:2,207:2:72:207:7373:-655.372,-56.0785,0 0/1:138:54,84:54:1940:84:3012:-228.798,0,-133.144 1/1:194:0,194:0:0:194:6921:-619.877,-58.3998,0 0/1:218:116,102:116:4145:102:3643:-261.858,0,-307.608 0/1:268:119,149:119:4272:149:5348:-399.575,0,-303.981 0/1:25:10,15:10:360:15:536:-40.8613,0,-25.2186 0/1:5:2,3:2:72:3:108:-8.54469,0,-5.33157 0/1:57:25,32:25:896:32:1152:-86.4983,0,-63.8016 1/1:220:0,220:0:0:220:7873:-706.806,-66.2266,0 0/1:149:51,98:51:1821:98:3512:-270.959,0,-119.316 1/1:196:0,196:0:0:196:7011:-628.469,-59.0019,0 1/1:144:0,144:0:0:144:5119:-460.107,-43.3483,0 1/1:129:0,129:0:0:129:4624:-414.928,-38.8329,0 0/1:129:53,76:53:1908:76:2728:-206.546,0,-133.165 0/1:49:11,38:11:396:38:1353:-107.225,0,-21.2323 1/1:65:4,61:4:144:61:2192:-183.832,-6.25333,0 1/1:75:0,75:0:0:75:2696:-241.877,-22.5773,0 chr11 19867355 . TC GA,GC 62469.9 PASS AB=0.582245,0.417755;ABP=70.5187,70.5187;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2455,487;CIGAR=2X,1X1M;DP=2944;DPB=2944;DPRA=0,0.729599;EPP=5333.98,1060.52;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.66667,2;MQM=54.4367,59.9138;MQMR=0;NS=21;NUMALT=2;ODDS=4.4426;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=86323,17153;QR=0;RO=0;RPL=2455,487;RPP=5333.98,1060.52;RPPR=0;RPR=0,0;RUN=1,1;SAF=2455,487;SAP=5333.98,1060.52;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:184:0,184,0:0:0:184,0:6442,0:-579.179,-55.3895,0,-579.179,-55.3895,-579.179 1/1:169:0,168,1:0:0:168,1:5904,36:-528.785,-50.573,0,-525.848,-47.2758,-525.547 1/1:196:0,196,0:0:0:196,0:6873,0:-617.759,-59.0019,0,-617.759,-59.0019,-617.759 1/2:129:0,64,65:0:0:64,65:2257,2296:-370.904,-187.327,-168.061,-183.93,0,-164.363 1/1:211:0,209,2:0:0:209,2:7404,72:-664.556,-62.9153,0,-658.681,-56.6806,-658.079 1/2:136:0,86,50:0:0:86,50:3016,1777:-389.731,-145.103,-119.215,-244.981,0,-229.929 1/1:195:0,193,0:0:0:193,0:6822,0:-611.188,-58.0988,0,-611.188,-58.0988,-611.188 1/2:217:0,105,112:0:0:105,112:3734,3905:-621.627,-317.93,-286.322,-304.049,0,-270.333 1/2:261:0,151,110:0:0:151,110:5274,3900:-745.995,-318.082,-272.626,-428.265,0,-395.152 1/2:23:0,14,9:0:0:14,9:493,311:-65.568,-25.6145,-21.4,-40.3009,0,-37.5916 1/2:5:0,3,2:0:0:3,2:103,68:-14.2017,-5.85565,-4.95256,-8.68693,0,-8.08487 1/2:55:0,31,24:0:0:31,24:1099,845:-158.525,-69.1424,-59.8104,-89.7353,0,-82.5105 1/1:222:0,222,0:0:0:222,0:7822,0:-702.206,-66.8287,0,-702.206,-66.8287,-702.206 1/2:146:0,97,49:0:0:97,49:3406,1730:-418.063,-141.234,-112.034,-277.181,0,-262.431 1/1:197:0,197,0:0:0:197,0:6906,0:-619.457,-59.3029,0,-619.457,-59.3029,-619.457 1/1:144:0,144,0:0:0:144,0:5074,0:-456.1,-43.3483,0,-456.1,-43.3483,-456.1 1/1:132:0,132,0:0:0:132,0:4649,0:-417.875,-39.736,0,-417.875,-39.736,-417.875 1/2:125:0,77,48:0:0:77,48:2703,1685:-357.116,-137.485,-114.306,-219.981,0,-205.532 1/2:52:0,41,11:0:0:41,11:1415,388:-146.804,-31.946,-19.6038,-115.209,0,-111.897 1/1:68:0,64,4:0:0:64,4:2256,140:-202.558,-19.2659,0,-191.168,-7.52546,-189.964 1/1:77:0,77,0:0:0:77,0:2671,0:-239.687,-23.1793,0,-239.687,-23.1793,-239.687 chr11 19867361 . T C 51504.8 PASS AB=0.568576;ABP=50.0664;AC=32;AF=0.761905;AN=42;AO=2415;CIGAR=1X;DP=2920;DPB=2920;DPRA=0;EPP=5247.12;EPPR=1090.92;GTI=1;LEN=1;MEANALT=1.14286;MQM=54.4766;MQMR=59.9162;NS=21;NUMALT=1;ODDS=9.23011;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85926;QR=17941;RO=501;RPL=2414;RPP=5238.43;RPPR=1090.92;RPR=1;RUN=1;SAF=2414;SAP=5238.43;SAR=1;SRF=501;SRP=1090.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:180:0,180:0:0:180:6358:-571.666,-54.1854,0 1/1:164:1,163:1:36:163:5800:-515.974,-45.7706,0 1/1:196:0,196:0:0:196:6934:-623.139,-59.0019,0 0/1:131:67,64:67:2404:64:2292:-166.899,0,-177.052 1/1:209:2,207:2:72:207:7361:-654.166,-56.0785,0 0/1:138:53,84:53:1892:84:2990:-226.928,0,-128.914 1/1:192:0,192:0:0:192:6840:-612.74,-57.7978,0 0/1:213:112,101:112:4003:101:3606:-260.029,0,-296.34 0/1:263:114,147:114:4096:147:5252:-392.936,0,-289.969 0/1:24:10,14:10:352:14:491:-37.1126,0,-24.7935 0/1:5:2,3:2:72:3:104:-8.17738,0,-5.33157 0/1:56:24,32:24:864:32:1148:-86.4418,0,-61.2249 1/1:218:0,218:0:0:218:7770:-697.507,-65.6245,0 0/1:143:50,93:50:1791:93:3336:-257.07,0,-118.424 1/1:192:0,191:0:0:191:6776:-607.275,-57.4967,0 1/1:145:0,145:0:0:145:5172:-464.658,-43.6494,0 1/1:128:0,128:0:0:128:4547:-408.374,-38.5318,0 0/1:128:51,77:51:1819:77:2741:-208.004,0,-125.459 0/1:51:11,40:11:396:40:1428:-113.365,0,-20.6302 1/1:68:4,64:4:144:64:2288:-192.456,-7.15642,0 1/1:76:0,76:0:0:76:2692:-241.559,-22.8783,0 chr11 20007859 . A T 6610.13 PASS AB=0.382107;ABP=147.395;AC=10;AF=0.238095;AN=42;AO=460;CIGAR=1X;DP=2776;DPB=2776;DPRA=0.818963;EPP=1001.89;EPPR=5032.14;GTI=1;LEN=1;MEANALT=1;MQM=54.363;MQMR=59.6174;NS=21;NUMALT=1;ODDS=4.44228;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16435;QR=82769;RO=2316;RPL=0;RPP=1001.89;RPPR=5032.14;RPR=460;RUN=1;SAF=460;SAP=1001.89;SAR=0;SRF=2316;SRP=5032.14;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:86:86,0:86:3088:0:0:0,-25.8886,-278.132 0/0:131:131,0:131:4696:0:0:0,-39.4349,-422.691 0/0:185:185,0:185:6629:0:0:0,-55.6905,-596.656 0/1:183:123,60:123:4416:60:2140:-137.5,0,-342.478 0/0:240:240,0:240:8589:0:0:0,-72.2472,-772.332 0/1:110:77,33:77:2729:33:1184:-73.4903,0,-212.434 0/0:151:150,1:150:5342:1:36:0,-41.8663,-477.29 0/1:135:80,55:80:2853:55:1972:-136.341,0,-216.342 0/1:210:140,70:140:4998:70:2508:-162.54,0,-386.745 0/1:19:12,7:12:428:7:252:-17.2767,0,-33.133 0/1:18:12,6:12:428:6:212:-13.9615,0,-33.432 0/1:59:21,38:21:752:38:1360:-104.589,0,-50.2409 0/0:105:105,0:105:3768:0:0:0,-31.6081,-339.309 0/1:169:94,75:94:3361:75:2662:-188.674,0,-251.809 0/0:222:222,0:222:7922:0:0:0,-66.8287,-712.938 0/0:145:145,0:145:5170:0:0:0,-43.6493,-465.242 0/0:120:119,1:119:4215:1:36:0,-32.5263,-375.804 0/1:207:114,93:114:4077:93:3336:-237.058,0,-304.792 0/1:86:66,20:66:2356:20:701:-37.3876,0,-186.39 0/0:118:117,1:117:4200:1:36:0,-31.9284,-374.5 0/0:77:77,0:77:2752:0:0:0,-23.1793,-247.696 chr11 20161096 . T C 8312.84 PASS AB=0.512974;ABP=4.47529;AC=32;AF=0.761905;AN=42;AO=2169;CIGAR=1X;DP=2672;DPB=2672;DPRA=0;EPP=4712.93;EPPR=1093.09;GTI=0;LEN=1;MEANALT=1.04762;MQM=16.1558;MQMR=26.0478;NS=21;NUMALT=1;ODDS=4.74682;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76919;QR=17888;RO=502;RPL=0;RPP=4712.93;RPPR=1093.09;RPR=2169;RUN=1;SAF=0;SAP=4712.93;SAR=2169;SRF=0;SRP=1093.09;SRR=502;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,119:0:0:119:4215:-170.233,-35.8226,0 1/1:94:0,94:0:0:94:3319:-142.899,-28.2968,0 1/1:180:1,179:1:36:179:6385:-254.549,-51.6267,0 0/1:139:76,63:76:2716:63:2232:-49.0976,0,-133.432 1/1:286:4,282:4:144:282:10031:-395.109,-76.6274,0 0/1:168:85,83:85:3016:83:2940:-74.6681,0,-149.949 1/1:197:3,194:3:108:194:6871:-281.964,-49.4441,0 0/1:115:49,65:49:1748:65:2302:-59.7472,0,-78.0793 0/1:197:86,111:86:3041:111:3936:-99.8301,0,-129.622 0/1:27:20,7:20:712:7:243:-2.05946,0,-37.8958 0/1:20:14,6:14:500:6:183:-2.46196,0,-27.3064 0/1:45:24,21:24:864:21:735:-16.9076,0,-41.7246 1/1:151:2,149:2:72:149:5293:-208.35,-40.594,0 0/1:93:38,55:38:1348:55:1951:-50.5633,0,-59.5079 1/1:225:0,225:0:0:225:7951:-323.067,-67.7318,0 1/1:108:0,108:0:0:108:3842:-155.09,-32.5112,0 1/1:130:0,130:0:0:130:4631:-186.249,-39.1339,0 0/1:141:73,68:73:2620:68:2387:-55.5397,0,-124.354 0/1:57:22,35:22:783:35:1227:-33.4756,0,-33.8487 1/1:142:5,137:5:180:137:4893:-184.723,-30.0639,0 1/1:38:0,38:0:0:38:1352:-57.7327,-11.4391,0 chr11 20161724 . C T 82895.4 PASS AB=0.519417;ABP=8.40736;AC=32;AF=0.761905;AN=42;AO=3071;CIGAR=1X;DP=3874;DPB=3874;DPRA=0;EPP=6671.6;EPPR=1746.7;GTI=0;LEN=1;MEANALT=1;MQM=59.9951;MQMR=60;NS=21;NUMALT=1;ODDS=38.6475;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=109526;QR=28363;RO=803;RPL=1136;RPP=454.417;RPPR=89.6556;RPR=1935;RUN=1;SAF=1136;SAP=454.417;SAR=1935;SRF=312;SRP=89.6556;SRR=491;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:1,173:1:36:173:6138:-548.923,-48.7809,0 1/1:177:0,177:0:0:177:6318:-568.712,-53.2823,0 1/1:160:1,159:1:36:159:5670:-506.822,-44.5665,0 0/1:219:118,101:118:4187:101:3599:-258.189,0,-311.087 1/1:457:4,453:4:140:453:16191:-1443.92,-124.626,0 0/1:185:94,91:94:3348:91:3211:-233.521,0,-245.845 1/1:379:1,378:1:36:378:13507:-1211.82,-110.492,0 0/1:162:88,74:88:3112:74:2643:-189.349,0,-231.54 0/1:420:188,232:188:6634:232:8291:-619.767,0,-470.713 0/1:15:12,3:12:432:3:108:-5.55972,0,-34.7057 0/1:15:11,4:11:396:4:144:-8.79817,0,-31.4673 0/1:58:21,37:21:752:37:1305:-100.291,0,-50.5465 1/1:202:0,202:0:0:202:7213:-649.207,-60.8081,0 0/1:235:119,116:119:4147:116:4142:-302.221,0,-302.672 1/1:152:0,152:0:0:152:5436:-489.368,-45.7566,0 1/1:144:1,143:1:36:143:5116:-456.985,-39.75,0 1/1:133:0,133:0:0:133:4734:-426.218,-40.037,0 0/1:179:90,89:90:3182:89:3175:-232.09,0,-232.721 0/1:160:51,109:51:1790:109:3897:-302.758,0,-113.216 1/1:154:3,151:3:99:151:5375:-474.646,-37.122,0 1/1:94:0,94:0:0:94:3313:-298.391,-28.2968,0 chr11 20177033 . TA TC,AC 21766.6 PASS AB=0.5,0.493878;ABP=3.0103,3.16984;AC=32,10;AF=0.761905,0.238095;AN=42;AO=784,245;CIGAR=1M1X,2X;DP=1032;DPB=1032;DPRA=0,1.0542;EPP=1705.44,535.021;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.71429,2.25;MQM=59.4796,51.1755;MQMR=0;NS=21;NUMALT=2;ODDS=8.14744;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27939,8496;QR=0;RO=0;RPL=784,245;RPP=1705.44,535.021;RPPR=0;RPR=0,0;RUN=1,1;SAF=784,245;SAP=1705.44,535.021;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:28:0,28,0:0:0:28,0:980,0:-88.504,-8.42884,0,-88.504,-8.42884,-88.504 1/1:38:0,38,0:0:0:38,0:1360,0:-122.683,-11.4391,0,-122.683,-11.4391,-122.683 1/1:59:0,59,0:0:0:59,0:2107,0:-189.886,-17.7608,0,-189.886,-17.7608,-189.886 1/2:78:0,40,37:0:0:40,37:1420,1291:-220.149,-104.448,-92.4063,-115.825,0,-104.687 1/1:84:0,82,2:0:0:82,2:2920,72:-262.66,-24.6845,0,-256.798,-18.4628,-256.196 1/2:42:0,16,26:0:0:16,26:567,910:-119.562,-73.386,-68.5695,-46.5266,0,-38.6998 1/1:61:0,61,0:0:0:61,0:2175,0:-195.375,-18.3628,0,-195.375,-18.3628,-195.375 1/2:39:0,21,18:0:0:21,18:732,629:-110.826,-51.3096,-44.9879,-59.8646,0,-54.4461 1/2:82:0,30,52:0:0:30,52:1076,1774:-231.694,-143.931,-134.9,-88.1153,0,-72.4617 1/2:7:0,4,3:0:0:4,3:144,97:-19.8659,-8.10525,-6.90113,-12.0986,0,-11.1955 1/2:9:0,3,6:0:0:3,6:108,209:-26.0723,-17.2557,-16.3526,-9.17208,0,-7.3659 1/2:20:0,10,10:0:0:10,10:360,358:-58.8098,-29.4447,-26.4344,-29.7233,0,-26.713 1/1:69:0,69,0:0:0:69,0:2453,0:-221.016,-20.7711,0,-221.016,-20.7711,-221.016 1/2:94:0,45,48:0:0:45,48:1601,1657:-264.233,-133.777,-120.231,-130.552,0,-116.103 1/1:48:0,48,0:0:0:48,0:1724,0:-155.402,-14.4494,0,-155.402,-14.4494,-155.402 1/1:33:0,33,0:0:0:33,0:1172,0:-105.671,-9.93399,0,-105.671,-9.93399,-105.671 1/1:29:0,28,1:0:0:28,1:1008,36:-90.6769,-8.42884,0,-87.7428,-5.1353,-87.4418 1/2:64:0,33,30:0:0:33,30:1180,1050:-180.11,-83.8985,-73.9645,-96.2032,0,-87.1723 1/2:55:0,43,12:0:0:43,12:1525,413:-157.658,-33.4039,-20.4596,-124.597,0,-120.984 1/1:51:0,51,0:0:0:51,0:1828,0:-164.765,-15.3525,0,-164.765,-15.3525,-164.765 1/1:42:0,42,0:0:0:42,0:1499,0:-135.133,-12.6433,0,-135.133,-12.6433,-135.133 chr11 20250005 . A G 29571.6 PASS AB=0.48532;ABP=4.09416;AC=32;AF=0.761905;AN=42;AO=1111;CIGAR=1X;DP=1413;DPB=1413;DPRA=0;EPP=274.941;EPPR=18.9465;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9928;MQMR=60;NS=21;NUMALT=1;ODDS=15.364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39445;QR=10802;RO=301;RPL=742;RPP=274.941;RPPR=18.9465;RPR=369;RUN=1;SAF=0;SAP=2415.52;SAR=1111;SRF=0;SRP=656.623;SRR=301;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99:0:0:99:3525:-317.459,-29.802,0 1/1:27:0,27:0:0:27:950:-85.8134,-8.12781,0 1/1:96:1,95:1:36:95:3400:-302.617,-25.3006,0 0/1:68:32,36:32:1152:36:1283:-95.3026,0,-83.5201 1/1:137:2,135:2:72:135:4801:-425.41,-34.4044,0 0/1:40:20,20:20:720:20:711:-52.2744,0,-53.0876 1/1:87:0,87:0:0:87:3052:-274.909,-26.1896,0 0/1:79:43,36:43:1544:36:1288:-92.4422,0,-115.472 0/1:154:81,73:81:2916:73:2596:-187.531,0,-216.315 0/1:8:4,4:4:144:4:144:-10.9054,0,-10.9054 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:11:4,7:4:140:7:252:-19.7176,0,-9.63325 1/1:85:0,85:0:0:85:3035:-273.38,-25.5876,0 0/1:52:35,17:35:1256:17:608:-39.3985,0,-97.6917 1/1:92:0,92:0:0:92:3260:-293.622,-27.6948,0 1/1:29:0,29:0:0:29:1044:-94.2748,-8.72987,0 1/1:51:0,51:0:0:51:1799:-162.191,-15.3525,0 0/1:88:49,38:49:1742:38:1295:-90.4467,0,-130.67 0/1:74:25,49:25:900:49:1756:-136.048,0,-59.0448 1/1:82:1,81:1:36:81:2884:-256.199,-21.0862,0 1/1:49:0,49:0:0:49:1726:-155.623,-14.7505,0 chr11 20276387 . GCCCC ACCCC,ACCCT 33985.2 PASS AB=0.524229,0.471366;ABP=6.48274,7.86024;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1298,324;CIGAR=1X4M,1X3M1X;DP=1632;DPB=1632.2;DPRA=0,0.879827;EPP=2804.24,706.567;EPPR=9.52472;GTI=1;LEN=1,5;MEANALT=1.90476,2.41667;MQM=59.8513,60;MQMR=60;NS=21;NUMALT=2;ODDS=1.30173;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=45096,11424;QR=106;RO=3;RPL=1296,324;RPP=2804.24,706.567;RPPR=9.52472;RPR=2,0;RUN=1,1;SAF=0,0;SAP=2821.58,706.567;SAR=1298,324;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42,0:0:0:42,0:1434,0:-129.281,-12.6433,0,-129.281,-12.6433,-129.281 1/1:80:0,80,0:0:0:80,0:2792,0:-251.43,-24.0824,0,-251.43,-24.0824,-251.43 1/1:100:0,98,0:0:0:98,0:3428,0:-308.437,-29.5009,0,-308.437,-29.5009,-308.437 1/2:110:0,57,53:0:0:57,53:1976,1881:-314.21,-153.613,-136.455,-160.948,0,-144.993 1/1:130:1,126,2:1:34:126,2:4412,71:-393.841,-35.161,0,-388.357,-32.0972,-390.512 1/2:36:0,21,14:0:0:21,14:733,497:-100.092,-40.4909,-34.1693,-59.5944,0,-55.38 1/1:98:0,98,0:0:0:98,0:3410,0:-307.098,-29.5009,0,-307.098,-29.5009,-307.098 1/2:115:0,52,63:0:0:52,63:1775,2200:-323.323,-179.299,-163.646,-144.369,0,-125.404 1/2:66:0,32,34:0:0:32,34:1125,1203:-189.911,-98.34,-88.707,-91.9231,0,-81.688 1/2:7:0,2,5:0:0:2,5:68,179:-20.4659,-14.9552,-14.3532,-5.85565,0,-4.3505 1/2:13:0,9,3:0:0:9,3:320,105:-34.6153,-8.53555,-5.82628,-26.0737,0,-25.1706 1/2:32:0,18,14:0:0:18,14:620,494:-90.9315,-40.5789,-35.1604,-50.7016,0,-46.4872 1/1:70:0,68,1:0:0:68,1:2353,31:-211.688,-20.47,0,-209.2,-18.0065,-208.899 1/2:95:0,61,34:0:0:61,34:2076,1202:-266.583,-98.2507,-79.8879,-168.68,0,-158.445 1/1:167:1,166,0:1:36:166,0:5785,0:-517.169,-46.6737,0,-517.47,-49.971,-520.407 1/1:107:1,106,0:1:36:106,0:3723,0:-331.674,-28.6119,0,-331.975,-31.9092,-334.912 1/1:65:0,65,0:0:0:65,0:2259,0:-203.567,-19.567,0,-203.567,-19.567,-203.567 1/2:165:0,80,85:0:0:80,85:2774,3000:-470.112,-244.646,-220.564,-225.816,0,-200.228 1/2:42:0,25,16:0:0:25,16:865,561:-116.069,-45.7751,-38.2494,-70.4126,0,-65.5961 1/1:43:0,43,0:0:0:43,0:1475,0:-133.037,-12.9443,0,-133.037,-12.9443,-133.037 1/1:49:0,49,0:0:0:49,0:1693,0:-152.643,-14.7505,0,-152.643,-14.7505,-152.643 chr11 20354126 . A C 34974.8 PASS AB=0.49497;ABP=3.22876;AC=31;AF=0.738095;AN=42;AO=1654;CIGAR=1X;DP=2161;DPB=2161;DPRA=0;EPP=3594.63;EPPR=1082.3;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9958;MQMR=60;NS=21;NUMALT=1;ODDS=27.5711;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59103;QR=18126;RO=505;RPL=0;RPP=3594.63;RPPR=1082.3;RPR=1654;RUN=1;SAF=1654;SAP=3594.63;SAR=0;SRF=505;SRP=1099.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:1,99:1:36:99:3540:-315.211,-26.5047,0 1/1:104:0,104:0:0:104:3720:-335.002,-31.3071,0 1/1:73:0,73:0:0:73:2574:-231.907,-21.9752,0 0/1:105:45,60:45:1616:60:2140:-161.26,0,-114.122 0/1:185:107,77:107:3848:77:2764:-193.252,0,-290.765 0/1:78:35,43:35:1256:43:1532:-114.691,0,-89.8649 1/1:124:0,124:0:0:124:4448:-400.49,-37.3277,0 0/1:100:44,56:44:1550:56:2000:-150.171,0,-109.685 0/1:112:76,36:76:2732:36:1296:-83.2277,0,-212.407 0/1:27:15,12:15:540:12:432:-31.0934,0,-40.8087 0/1:12:8,4:8:284:4:144:-9.70126,0,-22.291 0/1:39:14,25:14:504:25:896:-69.2202,0,-33.9579 1/1:73:0,73:0:0:73:2620:-236.047,-21.9752,0 0/1:109:49,59:49:1764:59:2112:-157.478,0,-126.173 1/1:222:0,222:0:0:222:7932:-713.906,-66.8287,0 1/1:93:0,93:0:0:93:3319:-298.928,-27.9958,0 1/1:175:0,175:0:0:175:6248:-562.417,-52.6803,0 0/1:153:82,71:82:2952:71:2534:-182.253,0,-219.855 0/1:74:25,49:25:900:49:1748:-135.328,0,-59.0448 1/1:116:3,113:3:108:113:4032:-352.994,-24.8443,0 1/1:87:1,86:1:36:86:3072:-273.11,-22.5913,0 chr11 20405324 . 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A T,G 11988.9 PASS AB=0.457746,0.542254;ABP=7.41441,7.41441;AC=31,11;AF=0.738095,0.261905;AN=42;AO=402,155;CIGAR=1X,1X;DP=557;DPB=557;DPRA=0,0.97624;EPP=875.942,305.742;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.57143,2;MQM=52.6244,59.5677;MQMR=0;NS=21;NUMALT=2;ODDS=5.62359;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=14359,5554;QR=0;RO=0;RPL=402,151;RPP=875.942,305.742;RPPR=0;RPR=0,4;RUN=1,1;SAF=402,155;SAP=875.942,339.589;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,30,1:0:0:30,1:1076,36:-96.6235,-9.0309,0,-93.686,-5.73366,-93.385 1/1:11:0,11,0:0:0:11,0:396,0:-35.9142,-3.31133,0,-35.9142,-3.31133,-35.9142 1/1:24:0,24,0:0:0:24,0:852,0:-76.6801,-7.22472,0,-76.6801,-7.22472,-76.6801 1/2:36:0,17,19:0:0:17,19:599,684:-104.811,-56.1423,-51.0248,-49.0244,0,-43.3048 1/2:74:0,29,45:0:0:29,45:1036,1612:-215.902,-131.795,-123.065,-84.4633,0,-70.917 1/2:21:0,5,16:0:0:5,16:171,576:-61.2071,-47.3585,-45.8534,-14.1943,0,-9.3778 1/1:45:0,45,0:0:0:45,0:1616,0:-145.279,-13.5464,0,-145.279,-13.5464,-145.279 1/2:23:0,12,11:0:0:12,11:432,396:-67.6608,-32.6705,-29.0581,-35.349,0,-32.0377 1/2:39:0,22,17:0:0:22,17:788,612:-114.298,-50.2674,-43.6448,-64.3893,0,-59.2718 1/2:4:0,1,3:0:0:1,3:36,108:-12.1032,-9.17208,-8.87105,-3.29039,0,-2.3873 1/2:6:0,3,3:0:0:3,3:108,104:-17.5998,-8.79971,-7.89662,-9.15289,0,-8.2498 1/2:9:0,3,6:0:0:3,6:104,216:-26.4181,-17.9843,-17.0812,-8.78436,0,-6.97818 1/1:22:0,22,0:0:0:22,0:792,0:-71.4709,-6.62266,0,-71.4709,-6.62266,-71.4709 1/2:35:0,17,18:0:0:17,18:604,642:-101.619,-52.6838,-47.5663,-49.2904,0,-43.8718 1/1:58:0,58,0:0:0:58,0:2084,0:-187.108,-17.4597,0,-187.108,-17.4597,-187.108 1/1:16:0,16,0:0:0:16,0:553,0:-50.0081,-4.81648,0,-50.0081,-4.81648,-50.0081 1/1:24:0,24,0:0:0:24,0:864,0:-77.7496,-7.22472,0,-77.7496,-7.22472,-77.7496 1/2:22:0,9,13:0:0:9,13:324,460:-64.1832,-37.7934,-35.0842,-26.7466,0,-22.8332 1/2:15:0,12,3:0:0:12,3:428,108:-43.9947,-9.17208,-5.55972,-35.1817,0,-34.2786 1/1:29:0,29,0:0:0:29,0:1032,0:-92.6179,-8.72987,0,-92.6179,-8.72987,-92.6179 1/1:13:0,13,0:0:0:13,0:464,0:-41.7132,-3.91339,0,-41.7132,-3.91339,-41.7132 chr11 20519590 . 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T G 5554.97 PASS AB=0.502959;ABP=3.07454;AC=11;AF=0.261905;AN=42;AO=425;CIGAR=1X;DP=1725;DPB=1725;DPRA=0.872934;EPP=925.886;EPPR=2823.75;GTI=0;LEN=1;MEANALT=1.09091;MQM=34.5153;MQMR=36.8345;NS=21;NUMALT=1;ODDS=2.50746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14931;QR=46310;RO=1299;RPL=425;RPP=925.886;RPPR=2823.75;RPR=0;RUN=1;SAF=425;SAP=925.886;SAR=0;SRF=1299;SRP=2823.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:87:87,0:87:3119:0:0:0,-26.1896,-260.853 0/0:59:59,0:59:2107:0:0:0,-17.7608,-178.83 0/0:95:95,0:95:3392:0:0:0,-28.5978,-284.606 0/1:70:23,47:23:824:47:1645:-113.617,0,-48.2877 0/1:192:93,98:93:3303:98:3448:-222.844,0,-217.455 0/1:87:50,37:50:1796:37:1320:-80.0801,0,-125.841 0/0:147:147,0:147:5204:0:0:0,-44.2514,-436.818 0/1:107:49,58:49:1756:58:2025:-134.078,0,-114.775 0/1:211:107,104:107:3819:104:3638:-228.221,0,-254.124 0/1:6:4,2:4:135:2:72:-4.36152,0,-9.93866 0/1:5:2,3:2:72:3:104:-7.37643,0,-4.93129 0/1:24:11,13:11:392:13:445:-29.2346,0,-23.2248 0/0:84:84,0:84:2997:0:0:0,-25.2865,-250.404 0/1:100:57,43:57:2040:43:1514:-93.3613,0,-140.728 0/0:155:155,0:155:5510:0:0:0,-46.6596,-457.917 0/0:101:101,0:101:3624:0:0:0,-30.404,-300.678 0/0:74:74,0:74:2631:0:0:0,-22.2762,-216.962 0/1:21:11,10:11:392:10:360:-23.1069,0,-26.8129 0/1:22:12,10:12:432:10:360:-22.2083,0,-29.888 0/0:52:52,0:52:1838:0:0:0,-15.6536,-153.207 0/0:26:26,0:26:927:0:0:0,-7.82678,-78.5907 chr11 20661170 . TCGGCAC TGGCAA,TGGAAA 48252.9 PASS AB=0.41569,0.576195;ABP=71.4812,58.934;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1639,647;CIGAR=1M1D4M1X,1M1D2M1X1M1X;DP=2300;DPB=1971.57;DPRA=0,0.952905;EPP=3553.37,1399.28;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.42857,2.8125;MQM=59.8731,57.408;MQMR=0;NS=21;NUMALT=2;ODDS=13.0042;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57738,22783;QR=0;RO=0;RPL=2,0;RPP=3544.7,1407.95;RPPR=0;RPR=1637,647;RUN=1,1;SAF=1638,646;SAP=3553.37,1399.28;SAR=1,1;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:118:0,115,2:0:0:115,2:4050,72:-364.34,-34.6185,0,-358.736,-29.0171,-358.134 1/1:127:0,127,0:0:0:127,0:4446,0:-400.305,-38.2308,0,-400.305,-38.2308,-400.305 1/1:103:0,102,0:0:0:102,0:3592,0:-322.854,-30.7051,0,-322.854,-30.7051,-322.854 1/2:104:0,31,72:0:0:31,72:1070,2531:-292.499,-205.574,-196.242,-86.9124,0,-65.2383 1/2:126:0,68,56:0:0:68,56:2409,1971:-355.78,-159.537,-139.067,-196.274,0,-179.416 1/2:109:0,35,74:0:0:35,74:1229,2634:-315.006,-214.986,-204.45,-100.372,0,-78.0963 1/1:185:0,181,2:0:0:181,2:6394,71:-575.223,-54.4864,0,-569.438,-48.6751,-568.836 1/2:127:0,41,86:0:0:41,86:1434,3015:-362.163,-245.504,-233.162,-117.009,0,-91.12 1/2:279:0,116,160:0:0:116,160:4105,5655:-794.205,-459.849,-424.93,-334.384,0,-286.219 1/2:13:0,4,9:0:0:4,9:129,309:-35.8255,-25.4308,-24.2266,-10.7235,0,-8.01427 1/2:5:0,2,3:0:0:2,3:72,105:-14.7719,-8.89307,-8.29101,-6.23466,0,-5.33157 1/2:37:0,19,18:0:0:19,18:672,643:-107.495,-52.7636,-47.0441,-55.0869,0,-49.6683 1/1:88:0,88,0:0:0:88,0:3096,0:-278.845,-26.4906,0,-278.845,-26.4906,-278.845 1/2:188:0,77,108:0:0:77,108:2686,3787:-526.229,-307.832,-284.653,-218.438,0,-185.927 1/1:201:0,201,0:0:0:201,0:7055,0:-635.015,-60.507,0,-635.015,-60.507,-635.015 1/1:106:0,104,2:0:0:104,2:3690,53:-332.035,-31.3071,0,-327.87,-26.8753,-327.268 1/1:95:0,94,1:0:0:94,1:3364,36:-302.613,-28.2968,0,-299.678,-25.0013,-299.377 1/2:57:0,35,22:0:0:35,22:1240,781:-164.986,-63.9829,-53.4469,-101.357,0,-94.7347 1/2:64:0,33,31:0:0:33,31:1180,1089:-185.11,-88.8909,-78.9569,-96.5731,0,-87.2412 1/1:119:0,117,1:0:0:117,1:4100,31:-368.843,-35.2205,0,-366.355,-32.757,-366.054 1/1:49:0,49,0:0:0:49,0:1725,0:-155.533,-14.7505,0,-155.533,-14.7505,-155.533 chr11 20943517 . A G 29634.3 PASS AB=0.603275;ABP=76.5669;AC=32;AF=0.761905;AN=42;AO=1392;CIGAR=1X;DP=1713;DPB=1713;DPRA=0;EPP=3025.7;EPPR=695.71;GTI=1;LEN=1;MEANALT=1.09524;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.66137;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49829;QR=11448;RO=319;RPL=1392;RPP=3025.7;RPPR=695.71;RPR=0;RUN=1;SAF=0;SAP=3025.7;SAR=1392;SRF=0;SRP=695.71;SRR=319;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:170:1,169:1:36:169:6047:-540.735,-47.5768,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 1/1:68:0,67:0:0:67:2404:-216.257,-20.169,0 0/1:82:35,47:35:1256:47:1684:-127.163,0,-88.6608 0/1:138:50,88:50:1796:88:3152:-242.363,0,-120.38 0/1:75:40,35:40:1436:35:1256:-90.768,0,-106.96 1/1:111:0,111:0:0:111:3945:-355.243,-33.4143,0 0/1:70:31,39:31:1116:39:1400:-105.227,0,-79.6796 0/1:228:74,154:74:2660:154:5520:-428.29,0,-171.01 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:4:1,3:1:36:3:100:-8.12632,0,-2.39415 0/1:18:6,12:6:216:12:428:-33.4403,0,-14.372 1/1:145:0,145:0:0:145:5204:-468.497,-43.6494,0 0/1:108:49,59:49:1748:59:2116:-158.198,0,-125.093 1/1:138:0,138:0:0:138:4940:-444.75,-41.5421,0 1/1:46:0,46:0:0:46:1648:-148.609,-13.8474,0 1/1:41:0,41:0:0:41:1476:-133.136,-12.3422,0 0/1:39:21,18:21:752:18:639:-46.0981,0,-56.2661 0/1:32:8,24:8:288:24:848:-67.0067,0,-16.6344 1/1:147:3,143:3:108:143:5127:-451.495,-34.235,0 1/1:32:0,32:0:0:32:1143:-103.179,-9.63296,0 chr11 20993612 . A C 38438.5 PASS AB=0.510256;ABP=4.07933;AC=31;AF=0.738095;AN=42;AO=1815;CIGAR=1X;DP=2390;DPB=2390;DPRA=0;EPP=3944.23;EPPR=1247.26;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.881;MQMR=59.5026;NS=21;NUMALT=1;ODDS=5.63947;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65019;QR=20566;RO=573;RPL=0;RPP=3944.23;RPPR=1247.26;RPR=1815;RUN=1;SAF=1815;SAP=3944.23;SAR=0;SRF=573;SRP=1247.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:175:0,174:0:0:174:6232:-560.555,-52.3792,0 1/1:93:0,93:0:0:93:3332:-300.094,-27.9958,0 1/1:70:0,70:0:0:70:2516:-226.692,-21.0721,0 0/1:86:35,51:35:1260:51:1832:-139.27,0,-87.8169 0/1:297:149,148:149:5340:148:5304:-388.069,0,-391.048 0/1:94:56,38:56:2016:38:1364:-94.7639,0,-153.37 1/1:175:0,175:0:0:175:6256:-563.106,-52.6803,0 0/1:49:30,19:30:1065:19:680:-46.7765,0,-81.2788 0/1:219:115,104:115:4121:104:3736:-270.486,0,-304.922 0/1:23:14,9:14:504:9:320:-22.2187,0,-38.7744 0/1:16:4,12:4:144:12:432:-34.4047,0,-8.49714 0/1:22:10,12:10:360:12:424:-31.8722,0,-26.1183 1/1:135:0,134:0:0:134:4804:-432.108,-40.338,0 0/1:136:64,72:64:2300:72:2580:-191.509,0,-166.3 1/1:214:0,214:0:0:214:7675:-690.772,-64.4204,0 1/1:92:0,92:0:0:92:3287:-295.821,-27.6948,0 1/1:145:0,145:0:0:145:5188:-467.058,-43.6494,0 0/1:125:61,64:61:2196:64:2288:-168.551,0,-159.838 0/1:103:35,68:35:1260:68:2426:-187.589,0,-82.6994 1/1:45:0,45:0:0:45:1620:-146.087,-13.5464,0 1/1:76:0,76:0:0:76:2723:-245.292,-22.8783,0 chr11 20993615 . AT TC 9527.2 PASS AB=0.487764;ABP=4.5514;AC=11;AF=0.261905;AN=42;AO=578;CIGAR=2X;DP=2427;DPB=2427;DPRA=0.867369;EPP=1258.12;EPPR=4015.89;GTI=0;LEN=2;MEANALT=1.09091;MQM=59.5536;MQMR=59.8658;NS=21;NUMALT=1;ODDS=5.09666;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20560;QR=65461;RO=1848;RPL=0;RPP=1258.12;RPPR=4015.89;RPR=578;RUN=1;SAF=578;SAP=1258.12;SAR=0;SRF=1848;SRP=4015.89;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:182:182,0:182:6438:0:0:0,-54.7875,-579.45 0/0:94:94,0:94:3262:0:0:0,-28.2968,-293.8 0/0:72:72,0:72:2537:0:0:0,-21.6742,-228.579 0/1:88:52,36:52:1838:36:1281:-89.1017,0,-139.178 0/1:300:150,150:150:5308:150:5348:-390.753,0,-387.53 0/1:94:38,56:38:1364:56:1988:-150.85,0,-94.7641 0/0:178:178,0:178:6315:0:0:0,-53.5833,-568.428 0/1:51:20,31:20:694:31:1101:-83.025,0,-47.4247 0/1:220:105,115:105:3701:115:4121:-304.622,0,-267.049 0/1:23:9,14:9:320:14:502:-38.5935,0,-22.2189 0/1:16:12,4:12:430:4:144:-8.49714,0,-34.2236 0/1:22:12,10:12:432:10:360:-26.1183,0,-32.597 0/0:139:139,0:139:4937:0:0:0,-41.8432,-444.434 0/1:140:75,64:75:2640:64:2236:-159.389,0,-195.75 0/0:214:214,0:214:7638:0:0:0,-64.4204,-687.444 0/0:93:93,0:93:3297:0:0:0,-27.9958,-296.719 0/0:149:149,0:149:5294:0:0:0,-44.8535,-476.595 0/1:127:65,62:65:2292:62:2187:-158.851,0,-168.306 0/1:104:68,36:68:2434:36:1292:-85.2769,0,-188.008 0/0:45:45,0:45:1578:0:0:0,-13.5463,-142.305 0/0:76:76,0:76:2712:0:0:0,-22.8783,-244.31 chr11 20993618 . AA GT 38524.1 PASS AB=0.510961;ABP=4.248;AC=31;AF=0.738095;AN=42;AO=1840;CIGAR=2X;DP=2425;DPB=2425;DPRA=0;EPP=3998.52;EPPR=1262.46;GTI=0;LEN=2;MEANALT=1.19048;MQM=59.8668;MQMR=59.5086;NS=21;NUMALT=1;ODDS=5.5175;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65427;QR=20646;RO=580;RPL=0;RPP=3998.52;RPPR=1262.46;RPR=1840;RUN=1;SAF=1840;SAP=3998.52;SAR=0;SRF=580;SRP=1262.46;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:182:0,180:0:0:180:6386:-574.46,-54.1854,0 1/1:94:0,93:0:0:93:3296:-296.604,-27.9958,0 1/1:72:0,72:0:0:72:2561:-230.738,-21.6742,0 0/1:88:36,52:36:1288:52:1858:-140.95,0,-89.7324 0/1:300:150,150:150:5305:150:5309:-387.62,0,-386.881 0/1:94:56,38:56:1981:38:1344:-92.9611,0,-150.22 1/1:177:0,177:0:0:177:6278:-565.095,-53.2823,0 0/1:51:31,20:31:1094:20:716:-49.4123,0,-82.9867 0/1:220:115,105:115:4130:105:3733:-269.94,0,-305.432 0/1:23:14,9:14:504:9:324:-22.5822,0,-38.7744 0/1:16:4,12:4:144:12:432:-34.4047,0,-8.49714 0/1:22:10,12:10:360:12:430:-32.4159,0,-26.1183 1/1:139:0,139:0:0:139:4932:-444.023,-41.8432,0 0/1:140:65,75:65:2327:75:2672:-198.58,0,-167.524 1/1:214:0,214:0:0:214:7598:-683.845,-64.4204,0 1/1:92:0,92:0:0:92:3296:-296.431,-27.6948,0 1/1:148:0,147:0:0:147:5254:-472.675,-44.2514,0 0/1:129:63,66:63:2234:66:2339:-171.933,0,-162.051 0/1:103:36,67:36:1279:67:2399:-185.16,0,-84.4055 1/1:45:0,44:0:0:44:1557:-140.057,-13.2453,0 1/1:76:0,76:0:0:76:2713:-244.392,-22.8783,0 chr11 20993620 . TGC TAGC 9170.44 PASS AB=0.476471;ABP=8.73277;AC=11;AF=0.261905;AN=42;AO=567;CIGAR=1M1I2M;DP=2445;DPB=2634;DPRA=0.862007;EPP=1234.24;EPPR=4074.52;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.5097;MQMR=59.8773;NS=21;NUMALT=1;ODDS=2.44466;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20068;QR=66237;RO=1875;RPL=0;RPP=1234.24;RPPR=4074.52;RPR=567;RUN=1;SAF=567;SAP=1234.24;SAR=0;SRF=1875;SRP=4074.52;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:185:185,0:185:6464:0:0:0,-55.6905,-581.849 0/0:94:93,0:93:3299:0:0:0,-27.9958,-296.826 0/0:73:73,0:73:2595:0:0:0,-21.9752,-233.798 0/1:90:55,35:55:1919:35:1237:-84.5396,0,-145.86 0/1:305:154,150:154:5418:150:5301:-385.177,0,-395.916 0/1:97:41,56:41:1452:56:1978:-149.045,0,-101.775 0/0:180:180,0:180:6346:0:0:0,-54.1854,-571.22 0/1:49:20,29:20:698:29:1029:-78.0401,0,-48.3876 0/1:219:106,113:106:3775:113:4026:-296.485,0,-274.021 0/1:22:9,13:9:324:13:464:-35.4748,0,-22.8832 0/1:16:12,4:12:430:4:140:-8.1281,0,-34.2236 0/1:22:12,10:12:413:10:341:-24.3938,0,-30.8744 0/0:142:141,0:141:4992:0:0:0,-42.4452,-449.072 0/1:136:75,61:75:2654:61:2146:-152.444,0,-198.167 0/0:216:216,0:216:7677:0:0:0,-65.0225,-690.957 0/0:94:94,0:94:3345:0:0:0,-28.2968,-300.949 0/0:150:150,0:150:5308:0:0:0,-45.1545,-477.858 0/1:127:67,60:67:2330:60:2114:-152.261,0,-171.724 0/1:107:71,36:71:2531:36:1292:-84.3736,0,-195.83 0/0:45:45,0:45:1576:0:0:0,-13.5463,-142.127 0/0:76:76,0:76:2691:0:0:0,-22.8783,-242.423 chr11 20996651 . C T 25674.9 PASS AB=0.530962;ABP=9.33017;AC=31;AF=0.738095;AN=42;AO=1233;CIGAR=1X;DP=1592;DPB=1592;DPRA=0;EPP=2680.44;EPPR=782.569;GTI=0;LEN=1;MEANALT=1;MQM=52.4436;MQMR=58.7604;NS=21;NUMALT=1;ODDS=4.50802;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43953;QR=12762;RO=359;RPL=1233;RPP=2680.44;RPPR=782.569;RPR=0;RUN=1;SAF=1233;SAP=2680.44;SAR=0;SRF=359;SRP=782.569;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:2,87:2:72:87:3070:-267.87,-19.9549,0 1/1:84:0,84:0:0:84:3004:-269.906,-25.2865,0 1/1:74:0,74:0:0:74:2656:-238.841,-22.2762,0 0/1:77:29,48:29:1044:48:1699:-128.512,0,-71.0671 0/1:178:91,87:91:3215:87:3120:-226.318,0,-235.728 0/1:48:21,27:21:748:27:960:-71.8925,0,-53.0108 1/1:107:1,106:1:36:106:3780:-335.932,-28.6129,0 0/1:80:39,41:39:1404:41:1468:-107.903,0,-102.04 0/1:151:82,69:82:2913:69:2463:-174.461,0,-216.78 0/1:7:3,4:3:108:4:144:-11.1875,0,-7.96796 0/1:4:3,1:3:108:1:36:-2.27658,0,-8.86823 0/1:18:7,11:7:248:11:392:-30.0285,0,-17.2363 1/1:41:0,41:0:0:41:1467:-131.24,-12.3422,0 0/1:54:18,36:18:636:36:1279:-98.4953,0,-41.2839 1/1:174:0,174:0:0:174:6211:-554.041,-52.3792,0 1/1:60:0,60:0:0:60:2140:-191.152,-18.0618,0 1/1:91:0,91:0:0:91:3252:-290.577,-27.3937,0 0/1:90:42,48:42:1483:48:1703:-125.841,0,-106.622 0/1:52:21,31:21:747:31:1074:-80.6168,0,-51.8723 1/1:66:0,66:0:0:66:2351:-211.072,-19.868,0 1/1:47:0,47:0:0:47:1684:-151.484,-14.1484,0 chr11 21000377 . 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G A 10468.5 PASS AB=0.588632;ABP=73.8363;AC=11;AF=0.261905;AN=42;AO=611;CIGAR=1X;DP=1258;DPB=1258;DPRA=4.28926;EPP=1329.78;EPPR=1405.78;GTI=5;LEN=1;MEANALT=1.09091;MQM=59.6072;MQMR=59.9303;NS=21;NUMALT=1;ODDS=0.404229;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21837;QR=23130;RO=646;RPL=611;RPP=1329.78;RPPR=1405.78;RPR=0;RUN=1;SAF=0;SAP=1329.78;SAR=611;SRF=0;SRP=1405.78;SRR=646;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:17:17,0:17:604:0:0:0,-5.11751,-54.6906 0/1:47:17,30:17:597:30:1068:-82.2804,0,-39.9077 0/1:50:18,32:18:644:32:1148:-88.576,0,-43.2391 0/1:38:12,26:12:432:26:921:-71.7617,0,-27.7821 0/0:55:55,0:55:1961:0:0:0,-16.5566,-176.763 0/1:58:20,38:20:711:38:1349:-104.239,0,-46.8559 0/1:73:31,41:31:1112:41:1468:-110.379,0,-78.3483 0/1:97:28,69:28:1008:69:2480:-194.219,0,-61.8364 0/1:154:45,109:45:1616:109:3878:-302.802,0,-99.3632 0/1:145:67,78:67:2408:78:2808:-209.305,0,-173.327 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9365 0/1:38:17,21:17:608:21:752:-56.5411,0,-43.6129 0/0:30:30,0:30:1053:0:0:0,-9.0309,-95.0782 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/1:301:143,158:143:5136:158:5650:-417.546,0,-371.64 0/1:37:28,9:28:1004:9:315:-17.5473,0,-79.5368 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 chr11 21380106 . C G,A 25120.6 PASS AB=0.415039,0.583984;ABP=67.2129,65.7455;AC=31,11;AF=0.738095,0.261905;AN=42;AO=644,599;CIGAR=1X,1X;DP=1244;DPB=1244;DPRA=0,4.16053;EPP=1401.44,1303.72;EPPR=0;GTI=4;LEN=1,1;MEANALT=1.61905,2.08333;MQM=59.9612,59.6628;MQMR=0;NS=21;NUMALT=2;ODDS=0.359292;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23070,21324;QR=0;RO=0;RPL=644,599;RPP=1401.44,1303.72;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1401.44,1303.72;SAR=644,599;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:13:0,13,0:0:0:13,0:468,0:-42.4596,-3.91339,0,-42.4596,-3.91339,-42.4596 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 1/1:17:0,17,0:0:0:17,0:612,0:-55.4134,-5.11751,0,-55.4134,-5.11751,-55.4134 1/2:47:0,17,30:0:0:17,30:608,1076:-137.695,-88.1187,-83.0012,-49.9345,0,-40.9036 1/2:47:0,17,30:0:0:17,30:608,1068:-136.979,-87.4012,-82.2837,-49.9345,0,-40.9036 1/2:35:0,11,24:0:0:11,24:396,864:-103.169,-70.8569,-67.5456,-32.6714,0,-25.4467 1/1:54:0,54,0:0:0:54,0:1936,0:-174.516,-16.2556,0,-174.516,-16.2556,-174.516 1/2:56:0,20,36:0:0:20,36:716,1288:-163.767,-105.377,-99.3566,-58.7471,0,-47.91 1/2:73:0,31,42:0:0:31,42:1108,1489:-211.988,-121.654,-112.322,-90.69,0,-78.0467 1/2:94:0,28,66:0:0:28,66:1008,2357:-274.736,-192.488,-184.059,-82.6075,0,-62.7395 1/2:149:0,45,104:0:0:45,104:1605,3682:-431.055,-300.226,-286.68,-131.184,0,-99.8774 1/2:149:0,70,79:0:0:70,79:2500,2817:-433.806,-229.982,-208.91,-204.181,0,-180.399 1/1:15:0,15,0:0:0:15,0:540,0:-48.9365,-4.51545,0,-48.9365,-4.51545,-48.9365 1/2:38:0,17,21:0:0:17,21:612,752:-111.596,-61.6586,-56.5411,-50.2959,0,-43.9743 1/1:30:0,29,1:0:0:29,1:1021,36:-91.8403,-8.72987,0,-88.9026,-5.43263,-88.6016 1/1:33:0,33,0:0:0:33,0:1184,0:-106.868,-9.93399,0,-106.868,-9.93399,-106.868 1/1:12:0,12,0:0:0:12,0:428,0:-38.8588,-3.61236,0,-38.8588,-3.61236,-38.8588 1/2:299:0,141,157:0:0:141,157:5060,5571:-866.753,-454.011,-411.566,-412.89,0,-365.628 1/2:37:0,28,9:0:0:28,9:1004,324:-108.668,-26.7827,-18.3539,-82.2447,0,-79.5354 1/1:10:0,10,0:0:0:10,0:360,0:-32.7443,-3.0103,0,-32.7443,-3.0103,-32.7443 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 chr11 21443519 . G A 23764.5 PASS AB=0.559398;ABP=23.3895;AC=32;AF=0.761905;AN=42;AO=1133;CIGAR=1X;DP=1434;DPB=1434;DPRA=0;EPP=2463.29;EPPR=639.367;GTI=1;LEN=1;MEANALT=1;MQM=59.8288;MQMR=59.9535;NS=21;NUMALT=1;ODDS=3.79636;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40348;QR=10622;RO=301;RPL=1133;RPP=2463.29;RPPR=639.367;RPR=0;RUN=1;SAF=1133;SAP=2463.29;SAR=0;SRF=301;SRP=656.623;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:83:0,83:0:0:83:2949:-265.622,-24.9855,0 1/1:42:0,42:0:0:42:1500:-135.295,-12.6433,0 1/1:86:0,86:0:0:86:3088:-278.074,-25.8886,0 0/1:115:54,61:54:1923:61:2192:-162.927,0,-138.728 0/1:183:92,91:92:3267:91:3227:-235.501,0,-239.159 0/1:77:31,46:31:1040:46:1643:-124.978,0,-70.7199 1/1:105:0,105:0:0:105:3739:-336.072,-31.6082,0 0/1:17:9,8:9:320:8:275:-19.966,0,-24.0248 0/1:90:32,58:32:1139:58:2064:-158.936,0,-75.7243 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:20:9,11:9:324:11:392:-29.5995,0,-23.4853 1/1:101:1,100:1:36:100:3556:-316.649,-26.8058,0 0/1:62:25,37:25:896:37:1301:-98.7254,0,-62.2965 1/1:66:0,66:0:0:66:2346:-211.398,-19.868,0 1/1:79:0,79:0:0:79:2814:-253.497,-23.7814,0 1/1:90:0,90:0:0:90:3221:-290.106,-27.0927,0 0/1:54:26,28:26:902:28:996:-73.6357,0,-65.2372 0/1:42:14,28:14:500:28:986:-76.4089,0,-32.6929 1/1:77:5,72:5:167:72:2572:-216.369,-7.8209,0 1/1:36:2,34:2:72:34:1199:-101.376,-4.00036,0 chr11 21649575 . C T 4236.41 PASS AB=0.41369;ABP=46.4914;AC=10;AF=0.238095;AN=42;AO=280;CIGAR=1X;DP=1375;DPB=1375;DPRA=1.16682;EPP=611.023;EPPR=2378.6;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.8857;MQMR=59.9881;NS=21;NUMALT=1;ODDS=6.69885;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10001;QR=39059;RO=1094;RPL=0;RPP=611.023;RPPR=2378.6;RPR=280;RUN=1;SAF=280;SAP=611.023;SAR=0;SRF=1094;SRP=2378.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:59:59,0:59:2107:0:0:0,-17.7608,-189.896 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.182 0/0:104:103,1:103:3661:1:36:0,-27.7088,-326.096 0/1:58:40,18:40:1416:18:644:-40.8309,0,-110.278 0/1:84:51,33:51:1801:33:1184:-81.5818,0,-137.083 0/1:60:21,39:21:752:39:1396:-107.877,0,-49.9445 0/0:119:119,0:119:4255:0:0:0,-35.8226,-383.125 0/1:85:53,32:53:1892:32:1140:-77.3217,0,-144.971 0/1:133:77,55:77:2756:55:1960:-136.58,0,-208.186 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:12:6,6:6:212:6:212:-15.8032,0,-15.8124 0/0:114:114,0:114:4080:0:0:0,-34.3174,-367.386 0/1:91:54,37:54:1936:37:1328:-92.4285,0,-147.123 0/0:99:99,0:99:3540:0:0:0,-29.802,-318.809 0/0:36:36,0:36:1284:0:0:0,-10.8371,-115.863 0/0:35:35,0:35:1256:0:0:0,-10.536,-113.345 0/1:71:39,32:39:1388:32:1133:-80.8923,0,-103.846 0/1:73:50,23:50:1775:23:824:-52.5081,0,-138.057 0/0:61:60,1:60:2144:1:36:0,-14.7646,-189.629 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 chr11 21649611 . TCTT TCTA,CCTA 29068 PASS AB=0.579495,0.419019;ABP=39.9511,41.345;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1081,284;CIGAR=3M1X,1X2M1X;DP=1370;DPB=1370;DPRA=0,1.18139;EPP=2350.37,619.708;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.7619,2.08333;MQM=59.9917,59.8873;MQMR=0;NS=21;NUMALT=2;ODDS=5.74275;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38569,9897;QR=0;RO=0;RPL=1081,284;RPP=2350.37,619.708;RPPR=0;RPR=0,0;RUN=1,1;SAF=1081,284;SAP=2350.37,619.708;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,56,0:0:0:56,0:1993,0:-179.375,-16.8577,0,-179.375,-16.8577,-179.375 1/1:37:0,37,0:0:0:37,0:1328,0:-119.822,-11.1381,0,-119.822,-11.1381,-119.822 1/1:103:0,102,1:0:0:102,1:3633,36:-326.816,-30.7051,0,-323.879,-27.4078,-323.577 1/2:57:0,39,18:0:0:39,18:1392,625:-164.644,-51.1551,-39.4149,-113.839,0,-108.42 1/2:86:0,51,35:0:0:51,35:1828,1213:-248.029,-98.9328,-83.5803,-149.447,0,-138.911 1/2:60:0,21,39:0:0:21,39:756,1377:-174.176,-112.488,-106.166,-62.0456,0,-50.3054 1/1:116:0,115,0:0:0:115,0:4100,0:-368.826,-34.6185,0,-368.826,-34.6185,-368.826 1/2:85:0,53,32:0:0:53,32:1904,1114:-246.265,-90.934,-74.9794,-155.683,0,-146.05 1/2:134:0,79,55:0:0:79,55:2832,1928:-388.223,-157.24,-133.459,-231.337,0,-214.78 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:5:0,2,3:0:0:2,3:72,100:-14.3128,-8.42735,-7.82529,-6.23466,0,-5.33157 1/2:12:0,6,6:0:0:6,6:204,198:-32.8884,-16.336,-14.5299,-16.8872,0,-15.081 1/1:113:0,113,0:0:0:113,0:4014,0:-361.449,-34.0164,0,-361.449,-34.0164,-361.449 1/2:91:0,52,39:0:0:52,39:1830,1358:-259.752,-110.777,-95.1239,-149.324,0,-137.584 1/1:96:0,96,0:0:0:96,0:3425,0:-308.463,-28.8989,0,-308.463,-28.8989,-308.463 1/1:36:0,36,0:0:0:36,0:1273,0:-114.872,-10.8371,0,-114.872,-10.8371,-114.872 1/1:35:0,35,0:0:0:35,0:1249,0:-112.715,-10.5361,0,-112.715,-10.5361,-112.715 1/2:70:0,38,32:0:0:38,32:1360,1115:-201.927,-91.0183,-79.5791,-111.261,0,-101.628 1/2:73:0,49,23:0:0:49,23:1764,797:-208.705,-64.763,-50.0126,-143.933,0,-137.01 1/1:62:0,61,1:0:0:61,1:2180,36:-196.106,-18.3628,0,-193.169,-15.0656,-192.868 1/1:34:0,34,0:0:0:34,0:1216,0:-109.747,-10.235,0,-109.747,-10.235,-109.747 chr11 21762377 . ATTTCA ATTCCA,ATTCA 57226.9 PASS AB=0.474026,0.521104;ABP=10.2297,7.77626;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2032,651;CIGAR=3M1X2M,1M1D4M;DP=2696;DPB=2586.83;DPRA=0,0.943255;EPP=4415.44,1416.64;EPPR=0;GTI=0;LEN=1,1;MEANALT=2.28571,2.57143;MQM=59.9877,59.1582;MQMR=0;NS=21;NUMALT=2;ODDS=4.09377;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72312,22763;QR=0;RO=0;RPL=2032,651;RPP=4415.44,1416.64;RPPR=0;RPR=0,0;RUN=1,1;SAF=2032,651;SAP=4415.44,1416.64;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:221:0,216,3:0:0:216,3:7663,104:-689.4,-65.0225,0,-680.947,-56.5084,-680.043 1/1:80:0,79,0:0:0:79,0:2817,0:-253.517,-23.7814,0,-253.517,-23.7814,-253.517 1/1:112:0,112,0:0:0:112,0:4011,0:-361.178,-33.7154,0,-361.178,-33.7154,-361.178 1/2:216:0,110,106:0:0:110,106:3889,3705:-617.745,-301.008,-267.894,-317.088,0,-285.179 1/2:209:0,77,131:0:0:77,131:2739,4552:-593.115,-369.894,-346.715,-223.216,0,-183.781 1/2:178:0,91,86:0:0:91,86:3216,3003:-506.075,-244.156,-216.763,-262.018,0,-236.13 1/1:200:0,200,0:0:0:200,0:7121,0:-640.952,-60.206,0,-640.952,-60.206,-640.952 1/2:108:0,41,67:0:0:41,67:1451,2324:-307.386,-189.194,-176.852,-118.543,0,-98.3739 1/2:259:0,113,144:0:0:113,144:4031,5045:-739.028,-410.419,-376.402,-328.603,0,-285.255 1/2:6:0,3,3:0:0:3,3:108,95:-16.795,-7.96112,-7.05803,-9.17208,0,-8.26899 1/2:4:0,1,3:0:0:1,3:36,104:-11.7405,-8.79971,-8.49868,-3.29724,0,-2.39415 1/2:25:0,9,16:0:0:9,16:324,572:-73.3777,-46.9399,-44.2307,-26.7966,0,-21.9801 1/1:122:0,121,0:0:0:121,0:4318,0:-388.436,-36.4246,0,-388.436,-36.4246,-388.436 1/2:92:0,56,34:0:0:56,34:2008,1208:-262.25,-98.4694,-81.6118,-163.815,0,-153.58 1/1:258:0,256,0:0:0:256,0:9109,0:-819.501,-77.0637,0,-819.501,-77.0637,-819.501 1/1:92:0,91,0:0:0:91,0:3251,0:-292.452,-27.3937,0,-292.452,-27.3937,-292.452 1/1:127:0,126,1:0:0:126,1:4478,36:-402.832,-37.9298,0,-399.894,-34.6325,-399.593 1/2:54:0,30,24:0:0:30,24:1046,852:-154.808,-69.7449,-60.714,-85.415,0,-78.1903 1/2:81:0,53,28:0:0:53,28:1875,987:-233.372,-80.6505,-64.6959,-153.074,0,-144.645 1/1:182:0,177,5:0:0:177,5:6322,176:-568.718,-53.2823,0,-554.39,-38.6024,-552.885 1/1:70:0,70,0:0:0:70,0:2499,0:-225.162,-21.0721,0,-225.162,-21.0721,-225.162 chr11 21762387 . GGT AGA 11316.5 PASS AB=0.525371;ABP=10.1723;AC=11;AF=0.261905;AN=42;AO=682;CIGAR=1X1M1X;DP=2777;DPB=2777;DPRA=0.953927;EPP=1483.95;EPPR=4537.04;GTI=0;LEN=3;MEANALT=1.21429;MQM=59.0352;MQMR=59.965;NS=21;NUMALT=1;ODDS=9.39949;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24150;QR=73086;RO=2088;RPL=682;RPP=1483.95;RPPR=4537.04;RPR=0;RUN=1;SAF=682;SAP=1483.95;SAR=0;SRF=2088;SRP=4537.04;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:225:221,3:221:7718:3:108:0,-57.6855,-684.599 0/0:83:81,0:81:2862:0:0:0,-24.3834,-257.457 0/0:112:112,0:112:3939:0:0:0,-33.7154,-354.704 0/1:225:116,109:116:4004:109:3840:-276.524,0,-292.818 0/1:215:79,136:79:2774:136:4811:-368.177,0,-185.179 0/1:187:93,94:93:3230:94:3338:-243.871,0,-234.632 0/0:209:209,0:209:7319:0:0:0,-62.9153,-658.769 0/1:114:41,73:41:1465:73:2579:-197.979,0,-97.8289 0/1:266:119,145:119:4183:145:5159:-384.561,0,-296.862 0/1:7:3,4:3:108:4:129:-9.82045,0,-7.96796 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:25:9,16:9:304:16:569:-43.9595,0,-20.161 0/0:124:123,0:123:4275:0:0:0,-37.0267,-384.551 0/1:98:60,38:60:2105:38:1343:-91.6505,0,-160.215 0/0:265:264,0:264:9259:0:0:0,-79.4719,-832.932 0/0:93:93,0:93:3225:0:0:0,-27.9958,-290.453 0/0:132:131,1:131:4588:1:36:0,-36.1377,-409.492 0/1:56:30,26:30:1066:26:914:-65.7018,0,-79.3947 0/1:84:55,29:55:1904:29:1036:-68.2041,0,-146.347 0/0:184:179,5:179:6281:5:180:0,-38.8375,-548.84 0/0:69:69,0:69:2441:0:0:0,-20.7711,-219.946 chr11 21762395 . T C 42119.8 PASS AB=0.4712;ABP=12.0158;AC=31;AF=0.738095;AN=42;AO=2033;CIGAR=1X;DP=2706;DPB=2706;DPRA=0;EPP=4417.61;EPPR=1460.07;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9823;MQMR=59.0924;NS=21;NUMALT=1;ODDS=9.8904;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71856;QR=23915;RO=671;RPL=2033;RPP=4417.61;RPPR=1460.07;RPR=0;RUN=1;SAF=2033;SAP=4417.61;SAR=0;SRF=671;SRP=1460.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:218:4,214:4:144:214:7544:-665.689,-52.3109,0 1/1:81:0,81:0:0:81:2870:-258.538,-24.3834,0 1/1:109:0,109:0:0:109:3877:-349.125,-32.8123,0 0/1:215:104,111:104:3702:111:3947:-290.699,0,-266.923 0/1:208:130,77:130:4619:77:2711:-181.56,0,-352.855 0/1:183:94,89:94:3335:89:3115:-225.487,0,-244.956 1/1:207:0,207:0:0:207:7264:-653.816,-62.3132,0 0/1:113:72,41:72:2576:41:1463:-97.9497,0,-197.902 0/1:262:145,117:145:5181:117:4126:-292.657,0,-387.453 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:25:16,9:16:572:9:306:-20.3429,0,-44.2307 1/1:124:0,123:0:0:123:4350:-391.295,-37.0267,0 0/1:94:38,56:38:1355:56:1985:-150.626,0,-93.9337 1/1:253:0,253:0:0:253:8924:-803.15,-76.1606,0 1/1:91:0,91:0:0:91:3254:-293.081,-27.3937,0 1/1:125:1,124:1:36:124:4387:-391.405,-34.0305,0 0/1:56:26,30:26:923:30:1058:-78.6719,0,-66.4983 0/1:83:28,55:28:1004:55:1945:-150.34,0,-65.6435 1/1:180:5,175:5:180:175:6204:-541.908,-37.6333,0 1/1:68:1,67:1:36:67:2382:-211.039,-16.8718,0 chr11 21762441 . A T 34073.2 PASS AB=0.501955;ABP=3.05274;AC=31;AF=0.738095;AN=42;AO=1650;CIGAR=1X;DP=2294;DPB=2294;DPRA=0;EPP=3585.94;EPPR=1401.44;GTI=0;LEN=1;MEANALT=1;MQM=59.8321;MQMR=59.9224;NS=21;NUMALT=1;ODDS=29.9715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59039;QR=23045;RO=644;RPL=0;RPP=3585.94;RPPR=1401.44;RPR=1650;RUN=1;SAF=0;SAP=3585.94;SAR=1650;SRF=0;SRP=1401.44;SRR=644;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:4,107:4:144:107:3828:-331.387,-20.1007,0 1/1:80:1,79:1:36:79:2836:-251.871,-20.4841,0 1/1:112:0,112:0:0:112:4003:-360.42,-33.7154,0 0/1:109:68,41:68:2448:41:1476:-100.319,0,-187.752 0/1:255:99,156:99:3552:156:5592:-426.617,0,-243.122 0/1:104:74,30:74:2630:30:1076:-65.8457,0,-205.636 1/1:176:0,176:0:0:176:6300:-567.089,-52.9813,0 0/1:101:57,44:57:2043:44:1568:-111.002,0,-153.737 0/1:207:115,92:115:4123:92:3288:-233.824,0,-308.93 0/1:26:8,18:8:288:18:648:-50.8251,0,-18.4372 0/1:20:13,7:13:464:7:252:-17.0084,0,-36.0769 0/1:63:36,27:36:1296:27:960:-67.7514,0,-97.979 1/1:126:0,126:0:0:126:4493:-404.536,-37.9298,0 0/1:153:56,97:56:1999:97:3488:-268.07,0,-134.125 1/1:107:1,106:1:36:106:3790:-337.561,-28.6119,0 1/1:78:0,78:0:0:78:2800:-252.233,-23.4803,0 1/1:83:0,83:0:0:83:2980:-268.429,-24.9855,0 0/1:166:90,76:90:3213:76:2711:-194.26,0,-239.42 0/1:75:21,54:21:752:54:1940:-152.287,0,-45.429 1/1:87:1,86:1:21:86:3054:-272.975,-24.0897,0 1/1:55:0,55:0:0:55:1956:-176.314,-16.5567,0 chr11 21899232 . TACCA TACCG,CACCG 24868.4 PASS AB=0.555391,0.435746;ABP=21.0524,27.2878;AC=31,11;AF=0.738095,0.261905;AN=42;AO=873,296;CIGAR=4M1X,1X3M1X;DP=1177;DPB=1177;DPRA=0,1.24717;EPP=1795.91,637.11;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.95238,2.58333;MQM=60,59.8851;MQMR=0;NS=21;NUMALT=2;ODDS=1.40323;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31173,9977;QR=0;RO=0;RPL=0,1;RPP=1898.71,637.11;RPPR=0;RPR=873,295;RUN=1,1;SAF=861,296;SAP=1795.91,645.766;SAR=12,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:14:0,14,0:0:0:14,0:496,0:-44.9743,-4.21442,0,-44.9743,-4.21442,-44.9743 1/1:56:0,56,0:0:0:56,0:1995,0:-179.823,-16.8577,0,-179.823,-16.8577,-179.823 1/2:41:0,19,21:0:0:19,21:676,725:-114.113,-59.0131,-53.2935,-55.2127,0,-48.891 1/2:117:0,69,47:0:0:69,47:2455,1581:-328.155,-128.066,-107.295,-200.074,0,-185.925 1/2:16:0,13,3:0:0:13,3:468,98:-46.4544,-8.24095,-4.32756,-38.5463,0,-37.6432 1/1:140:0,139,0:0:0:139,0:4959,0:-446.23,-41.8432,0,-446.23,-41.8432,-446.23 1/2:32:0,23,9:0:0:23,9:820,290:-90.5707,-23.7037,-16.78,-67.1988,0,-64.4896 1/2:110:0,46,62:0:0:46,62:1648,2082:-303.097,-168.685,-154.837,-134.458,0,-115.794 1/2:16:0,6,10:0:0:6,10:216,325:-44.1939,-26.5563,-24.7501,-17.9843,0,-14.974 1/2:11:0,4,7:0:0:4,7:144,239:-31.4925,-19.7361,-18.532,-12.1095,0,-10.0023 1/2:33:0,22,11:0:0:22,11:788,357:-93.4193,-29.1328,-22.5101,-64.6221,0,-61.3108 1/1:58:0,56,1:0:0:56,1:2012,36:-181.046,-16.8577,0,-178.109,-13.8653,-177.808 1/2:63:0,33,30:0:0:33,30:1180,1043:-181.369,-85.1476,-75.2136,-96.5741,0,-87.5432 1/1:72:0,72,0:0:0:72,0:2571,0:-231.639,-21.6742,0,-231.639,-21.6742,-231.639 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:17:0,17,0:0:0:17,0:604,0:-54.6906,-5.11751,0,-54.6906,-5.11751,-54.6906 1/2:141:0,67,74:0:0:67,74:2396,2488:-397.272,-201.891,-181.722,-195.728,0,-173.452 1/2:97:0,74,21:0:0:74,21:2645,713:-273.48,-57.8067,-35.5304,-215.659,0,-209.337 1/1:75:0,75,0:0:0:75,0:2675,0:-240.995,-22.5773,0,-240.995,-22.5773,-240.995 1/1:55:0,55,0:0:0:55,0:1957,0:-176.404,-16.5567,0,-176.404,-16.5567,-176.404 chr11 21899284 . C G 25319.4 PASS AB=0.530187;ABP=10.2207;AC=29;AF=0.690476;AN=42;AO=1262;CIGAR=1X;DP=1713;DPB=1713;DPRA=14.225;EPP=2743.41;EPPR=971.506;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9778;MQMR=60;NS=21;NUMALT=1;ODDS=5.34276;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44221;QR=15952;RO=450;RPL=0;RPP=2743.41;RPPR=980.173;RPR=1262;RUN=1;SAF=0;SAP=2743.41;SAR=1262;SRF=1;SRP=971.506;SRR=449;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:0,73:0:0:73:2553:-230.022,-21.9752,0 1/1:38:0,38:0:0:38:1360:-122.701,-11.4391,0 1/1:141:3,138:3:108:138:4834:-425.145,-32.3701,0 0/1:91:50,41:50:1772:41:1439:-102.411,0,-132.367 0/1:163:72,90:72:2529:90:3175:-236.885,0,-178.775 0/1:76:30,46:30:1076:46:1624:-123.57,0,-74.2746 1/1:99:0,99:0:0:99:3444:-310.174,-29.802,0 0/1:67:30,37:30:1061:37:1290:-96.2304,0,-75.6304 0/1:184:101,83:101:3585:83:2901:-205.938,0,-267.468 0/0:12:11,1:11:392:1:36:0,-0.0140849,-32.0218 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:39:12,27:12:423:27:946:-73.7112,0,-26.6649 1/1:71:0,71:0:0:71:2484:-223.814,-21.3731,0 0/1:110:54,56:54:1895:56:1947:-142.39,0,-137.711 1/1:128:1,127:1:36:127:4441:-396.267,-34.9336,0 1/1:29:0,29:0:0:29:1022:-92.2917,-8.72987,0 1/1:42:0,42:0:0:42:1471:-132.683,-12.6433,0 0/1:138:66,72:66:2359:72:2528:-186.229,0,-171.026 0/1:43:12,31:12:428:31:1074:-84.0222,0,-25.9145 1/1:111:2,109:2:72:109:3824:-337.528,-26.5776,0 1/1:52:0,52:0:0:52:1828:-164.798,-15.6536,0 chr11 21899305 . A T 7382.4 PASS AB=0.470206;ABP=10.127;AC=13;AF=0.309524;AN=42;AO=456;CIGAR=1X;DP=1733;DPB=1733;DPRA=1.65012;EPP=984.535;EPPR=2775.98;GTI=2;LEN=1;MEANALT=1;MQM=59.9452;MQMR=59.9655;NS=21;NUMALT=1;ODDS=6.00568;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16183;QR=45552;RO=1277;RPL=0;RPP=993.202;RPPR=2775.98;RPR=456;RUN=1;SAF=1;SAP=984.535;SAR=455;SRF=0;SRP=2775.98;SRR=1277;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2643:0:0:0,-22.2762,-238.116 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.537 0/0:148:145,3:145:5191:3:99:0,-35.3159,-458.091 0/1:90:41,49:41:1460:49:1718:-127.811,0,-104.603 0/1:165:88,77:88:3137:77:2740:-197.133,0,-232.883 0/1:79:47,32:47:1684:32:1148:-79.8485,0,-128.066 0/0:95:95,0:95:3388:0:0:0,-28.5978,-305.134 0/1:66:37,29:37:1315:29:1024:-72.6041,0,-98.783 0/1:188:83,105:83:2945:105:3734:-279.667,0,-208.69 1/1:12:1,11:1:36:11:392:-32.0218,-0.0140851,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 0/1:39:27,12:27:968:12:432:-27.481,0,-75.6956 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.764 0/1:113:58,55:58:2072:55:1964:-143.019,0,-152.716 0/0:129:128,1:128:4575:1:36:0,-35.2346,-408.317 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/0:41:41,0:41:1472:0:0:0,-12.3422,-132.776 0/1:138:75,63:75:2643:63:2224:-158.881,0,-196.571 0/1:45:33,12:33:1167:12:424:-24.9501,0,-91.7901 0/0:113:111,2:111:3936:2:72:0,-27.1797,-347.593 0/0:51:51,0:51:1820:0:0:0,-15.3525,-164.081 chr11 21899319 . C G 26209.8 PASS AB=0.526544;ABP=8.65895;AC=29;AF=0.690476;AN=42;AO=1258;CIGAR=1X;DP=1720;DPB=1720;DPRA=14.2833;EPP=2674.26;EPPR=986.763;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9642;MQMR=59.9458;NS=21;NUMALT=1;ODDS=4.34149;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44810;QR=16483;RO=461;RPL=1251;RPP=2674.26;RPPR=995.392;RPR=7;RUN=1;SAF=0;SAP=2734.72;SAR=1258;SRF=1;SRP=995.392;SRR=460;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74:0:0:74:2609:-235.056,-22.2762,0 1/1:38:0,38:0:0:38:1352:-121.98,-11.4391,0 1/1:139:3,136:3:78:136:4849:-429.287,-34.5649,0 0/1:91:50,41:50:1792:41:1456:-103.942,0,-134.169 0/1:168:77,91:77:2756:91:3235:-240.798,0,-197.481 0/1:75:30,45:30:1080:45:1616:-123.153,0,-74.936 1/1:98:0,98:0:0:98:3491:-314.398,-29.5009,0 0/1:71:31,40:31:1108:40:1412:-106.003,0,-78.6579 0/1:188:105,83:105:3749:83:2958:-209.86,0,-281.015 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:39:12,27:12:432:27:955:-74.5245,0,-27.481 1/1:72:1,71:1:36:71:2535:-224.794,-18.0759,0 0/1:112:55,57:55:1972:57:2025:-148.806,0,-144.039 1/1:129:1,127:1:36:127:4531:-404.359,-35.2934,0 1/1:30:0,30:0:0:30:1061:-95.7994,-9.0309,0 1/1:42:0,42:0:0:42:1508:-136.015,-12.6433,0 0/1:136:65,71:65:2328:71:2548:-188.63,0,-168.84 0/1:43:12,31:12:432:31:1100:-86.366,0,-26.2769 1/1:105:2,103:2:72:103:3697:-326.094,-24.7714,0 1/1:52:0,52:0:0:52:1836:-165.518,-15.6536,0 chr11 21899432 . G T 7193.48 PASS AB=0.507879;ABP=3.45512;AC=10;AF=0.238095;AN=42;AO=420;CIGAR=1X;DP=1665;DPB=1665;DPRA=1.1064;EPP=880.616;EPPR=2611.79;GTI=0;LEN=1;MEANALT=1;MQM=59.9857;MQMR=60;NS=21;NUMALT=1;ODDS=4.93869;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14951;QR=44507;RO=1245;RPL=3;RPP=889.157;RPPR=2611.79;RPR=417;RUN=1;SAF=419;SAP=906.364;SAR=1;SRF=1245;SRP=2706.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:39,0:39:1392:0:0:0,-11.7402,-125.579 0/0:73:73,0:73:2628:0:0:0,-21.9752,-236.766 0/0:89:88,1:88:3145:1:36:0,-23.1934,-279.676 0/1:81:36,45:36:1292:45:1608:-120.627,0,-92.2003 0/1:76:34,42:34:1209:42:1503:-112.686,0,-86.2359 0/1:119:48,71:48:1697:71:2530:-192.129,0,-117.192 0/0:223:223,0:223:7969:0:0:0,-67.1297,-717.233 0/1:85:53,32:53:1896:32:1140:-77.3217,0,-145.331 0/1:186:88,98:88:3130:98:3519:-260.927,0,-225.932 0/1:8:1,7:1:36:7:244:-19.8912,0,-1.19003 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:13:5,8:5:180:8:284:-21.99,0,-12.6387 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.516 0/1:88:51,37:51:1805:37:1273:-88.3736,0,-136.239 0/0:149:149,0:149:5344:0:0:0,-44.8535,-481.092 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 0/0:55:55,0:55:1961:0:0:0,-16.5566,-176.763 0/1:86:42,44:42:1508:44:1562:-114.982,0,-110.126 0/1:83:48,35:48:1716:35:1252:-87.9996,0,-129.74 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/0:70:70,0:70:2495:0:0:0,-21.0721,-224.803 chr11 22066454 . TTATCCTT CTCTC,CTCTCCTT 19880.2 PASS AB=0.284006,0.70852;ABP=274.107,255.67;AC=31,11;AF=0.738095,0.261905;AN=42;AO=461,480;CIGAR=1X1M3D2M1X,1X1M1X5M;DP=946;DPB=773.125;DPRA=0,3.02308;EPP=995.392,238.181;EPPR=0;GTI=7;LEN=8,8;MEANALT=1.85714,2.38462;MQM=36.321,59.4521;MQMR=0;NS=21;NUMALT=2;ODDS=2.92225;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=16232,16725;QR=0;RO=0;RPL=1,126;RPP=995.392,238.181;RPPR=0;RPR=460,354;RUN=1,1;SAF=461,480;SAP=1004.06,1045.32;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:23:0,22,1:0:0:22,1:782,28:-66.1526,-6.62266,0,-63.9362,-4.12396,-63.6352 1/1:6:0,6,0:0:0:6,0:214,0:-17.4507,-1.80618,0,-17.4507,-1.80618,-17.4507 1/1:46:0,46,0:0:0:46,0:1622,0:-136.92,-13.8474,0,-136.92,-13.8474,-136.92 1/2:48:0,6,42:0:0:6,42:207,1433:-131.546,-116.562,-114.756,-15.2983,0,-2.655 1/2:173:0,24,149:0:0:24,149:853,5237:-491.07,-426.517,-419.292,-64.888,0,-20.0346 1/2:37:0,7,30:0:0:7,30:250,1054:-103.918,-86.1295,-84.0223,-18.1108,0,-9.07986 1/1:21:0,21,0:0:0:21,0:726,0:-58.2147,-6.32163,0,-58.2147,-6.32163,-58.2147 1/2:79:0,42,37:0:0:42,37:1491,1302:-216.961,-106.337,-93.6942,-110.963,0,-99.8253 1/2:131:0,33,96:0:0:33,96:1170,3341:-362.218,-271.671,-261.737,-90.58,0,-61.6812 1/2:9:0,4,5:0:0:4,5:143,180:-25.6578,-15.0469,-13.8428,-10.9534,0,-9.44822 1/2:4:0,2,2:0:0:2,2:72,72:-11.3498,-6.23466,-5.6326,-5.45443,0,-4.85237 1/2:31:0,12,19:0:0:12,19:431,654:-85.4234,-53.4595,-49.8472,-32.299,0,-26.5794 1/1:25:0,25,0:0:0:25,0:893,0:-75.9301,-7.52575,0,-75.9301,-7.52575,-75.9301 1/2:78:0,20,55:0:0:20,55:704,1906:-206.755,-154.67,-148.649,-52.0979,0,-35.5412 1/1:34:0,34,0:0:0:34,0:1210,0:-100.39,-10.235,0,-100.39,-10.235,-100.39 1/1:5:0,5,0:0:0:5,0:169,0:-15.0374,-1.50515,0,-15.0374,-1.50515,-15.0374 1/1:6:0,6,0:0:0:6,0:203,0:-16.6781,-1.80618,0,-16.6781,-1.80618,-16.6781 1/2:41:0,15,26:0:0:15,26:530,888:-111.137,-72.4011,-67.8857,-39.0635,0,-31.2367 1/2:38:0,25,13:0:0:25,13:880,455:-104.375,-37.3464,-29.8206,-67.3723,0,-63.459 1/1:94:0,89,5:0:0:89,5:3090,175:-254.748,-26.7917,0,-240.508,-12.2034,-239.003 1/1:17:0,17,0:0:0:17,0:592,0:-46.2255,-5.11751,0,-46.2255,-5.11751,-46.2255 chr11 22075366 . GT GC,AC 62626.5 PASS AB=0.552652,0.444972;ABP=33.4229,36.2288;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2348,570;CIGAR=1M1X,2X;DP=2925;DPB=2925;DPRA=0,1.03032;EPP=5101.63,1240.75;EPPR=9.52472;GTI=1;LEN=1,2;MEANALT=1.85714,2.13333;MQM=59.4689,53.3088;MQMR=60;NS=21;NUMALT=2;ODDS=14.587;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=83830,19950;QR=106;RO=3;RPL=0,0;RPP=5101.63,1240.75;RPPR=9.52472;RPR=2348,570;RUN=1,1;SAF=2348,570;SAP=5101.63,1240.75;SAR=0,0;SRF=3;SRP=9.52472;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:167:0,165,2:0:0:165,2:5883,72:-529.19,-49.67,0,-523.406,-43.5309,-522.804 1/1:134:0,133,0:0:0:133,0:4752,0:-427.354,-40.037,0,-427.354,-40.037,-427.354 1/1:170:0,169,1:0:0:169,1:6040,34:-543.279,-50.8741,0,-540.522,-47.7778,-540.221 1/2:228:0,104,124:0:0:104,124:3726,4334:-653.432,-350.367,-319.06,-303.418,0,-266.09 1/2:228:0,126,102:0:0:126,102:4524,3549:-656.46,-287.457,-249.527,-369.354,0,-338.649 1/2:161:1,87,73:1:36:87,73:3088,2599:-457.782,-206.563,-183.311,-248.576,0,-229.539 1/1:275:0,272,2:0:0:272,2:9711,72:-873.462,-81.8802,0,-867.603,-76.0216,-867.001 1/2:112:0,60,52:0:0:60,52:2144,1815:-321.677,-146.908,-128.846,-175.121,0,-159.467 1/2:161:0,95,66:0:0:95,66:3400,2338:-467.271,-190.067,-161.469,-277.559,0,-257.691 1/2:9:0,2,7:0:0:2,7:72,241:-25.6412,-19.7623,-19.1603,-6.23466,0,-4.12745 1/2:6:0,5,1:0:0:5,1:180,36:-17.9704,-3.28202,-1.77687,-15.0469,0,-14.7459 1/2:35:0,11,24:0:0:11,24:396,833:-100.152,-67.8356,-64.5242,-32.6714,0,-25.4467 1/1:232:0,227,3:0:0:227,3:8102,100:-728.654,-68.3338,0,-720.863,-60.529,-719.96 1/2:138:1,94,43:1:34:94,43:3352,1507:-392.53,-119.648,-94.1087,-270.437,0,-260.25 1/1:214:0,214,0:0:0:214,0:7677,0:-690.627,-64.4204,0,-690.627,-64.4204,-690.627 1/1:117:0,117,0:0:0:117,0:4196,0:-377.725,-35.2205,0,-377.725,-35.2205,-377.725 1/1:93:0,93,0:0:0:93,0:3323,0:-299.011,-27.9958,0,-299.011,-27.9958,-299.011 1/2:88:1,42,45:1:36:42,45:1500,1564:-245.174,-123.213,-113.507,-119.316,0,-108.708 1/2:97:0,72,25:0:0:72,25:2488,856:-271.878,-69.7683,-48.0941,-202.453,0,-194.927 1/1:180:0,180,0:0:0:180,0:6423,0:-577.794,-54.1854,0,-577.794,-54.1854,-577.794 1/1:80:0,80,0:0:0:80,0:2853,0:-256.931,-24.0824,0,-256.931,-24.0824,-256.931 chr11 22089423 . CAGAAG TAGGAT,TAGGAG 61167.9 PASS AB=0.499063,0.494066;ABP=3.02251,3.49993;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2191,795;CIGAR=1X2M1X1M1X,1X2M1X2M;DP=3011;DPB=3011;DPRA=0,0.888838;EPP=4760.71,1729.33;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.80952,2.85714;MQM=59.5509,59.7384;MQMR=0;NS=21;NUMALT=2;ODDS=3.8077;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76039,27538;QR=0;RO=0;RPL=0,0;RPP=4760.71,1729.33;RPPR=0;RPR=2191,795;RUN=1,1;SAF=0,0;SAP=4760.71,1729.33;SAR=2191,795;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,55,1:0:0:55,1:1899,35:-170.833,-16.5567,0,-167.986,-13.3591,-167.685 1/1:119:0,118,0:0:0:118,0:4095,0:-368.47,-35.5215,0,-368.47,-35.5215,-368.47 1/1:91:0,89,0:0:0:89,0:3107,0:-279.554,-26.7917,0,-279.554,-26.7917,-279.554 1/2:248:0,129,119:0:0:129,119:4452,4097:-694.711,-333.088,-294.255,-361.968,0,-326.146 1/2:389:0,200,185:0:0:200,185:6933,6396:-1083.25,-519.795,-459.589,-563.546,0,-507.856 1/2:77:0,36,41:0:0:36,41:1239,1457:-219.685,-119.082,-108.245,-100.952,0,-88.6098 1/1:223:0,222,0:0:0:222,0:7722,0:-694.475,-66.8287,0,-694.475,-66.8287,-694.475 1/2:101:0,52,49:0:0:52,49:1796,1717:-285.947,-140.064,-124.41,-146.231,0,-131.48 1/2:246:0,109,137:0:0:109,137:3769,4781:-695.447,-389.205,-356.392,-306.589,0,-265.348 1/2:6:0,4,2:0:0:4,2:127,71:-16.3339,-6.14,-4.93588,-10.5362,0,-9.93418 1/2:8:0,7,1:0:0:7,1:237,36:-22.4932,-3.29724,-1.19003,-19.5531,0,-19.2521 1/2:24:0,10,14:0:0:10,14:342,495:-68.3311,-40.6649,-37.6546,-28.0123,0,-23.7979 1/1:150:0,148,0:0:0:148,0:5153,0:-463.538,-44.5524,0,-463.538,-44.5524,-463.538 1/2:172:0,77,94:0:0:77,94:2700,3245:-483.228,-263.546,-240.367,-219.68,0,-191.383 1/1:268:0,266,0:0:0:266,0:9288,0:-835.592,-80.074,0,-835.592,-80.074,-835.592 1/1:122:0,120,0:0:0:120,0:4140,0:-372.389,-36.1236,0,-372.389,-36.1236,-372.389 1/1:111:0,109,0:0:0:109,0:3768,0:-338.937,-32.8123,0,-338.937,-32.8123,-338.937 1/2:220:0,104,111:0:0:104,111:3590,3811:-601.08,-309.442,-278.135,-291.655,0,-258.241 1/2:110:0,71,38:0:0:71,38:2476,1295:-306.477,-105.136,-83.7633,-201.417,0,-189.978 1/1:169:0,165,2:0:0:165,2:5765,66:-518.608,-49.67,0,-513.272,-44.3437,-512.67 1/1:101:0,100,1:0:0:100,1:3441,36:-309.329,-30.103,0,-306.392,-26.8058,-306.091 chr11 22089461 . A C 13442.4 PASS AB=0.502525;ABP=3.09804;AC=11;AF=0.261905;AN=42;AO=799;CIGAR=1X;DP=2976;DPB=2976;DPRA=0.948565;EPP=1738.02;EPPR=4725.96;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.6308;MQMR=59.5572;NS=21;NUMALT=1;ODDS=4.78223;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28520;QR=77931;RO=2175;RPL=799;RPP=1738.02;RPPR=4725.96;RPR=0;RUN=1;SAF=0;SAP=1738.02;SAR=799;SRF=0;SRP=4725.96;SRR=2175;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:56:55,1:55:1952:1:36:0,-13.2594,-172.347 0/0:119:119,0:119:4249:0:0:0,-35.8226,-382.529 0/0:89:89,0:89:3184:0:0:0,-26.7917,-286.684 0/1:248:126,122:126:4520:122:4354:-316.988,0,-332.156 0/1:385:199,186:199:7136:186:6623:-479.741,0,-526.208 0/1:77:37,40:37:1332:40:1440:-106.71,0,-96.9704 0/0:221:221,0:221:7936:0:0:0,-66.5276,-713.965 0/1:101:52,49:52:1859:49:1760:-128.28,0,-137.12 0/1:246:108,136:108:3865:136:4843:-362.205,0,-274.117 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.56526 0/1:8:7,1:7:252:1:36:-1.19004,0,-20.6207 0/1:24:10,14:10:356:14:504:-38.4687,0,-25.0686 0/0:149:149,0:149:5332:0:0:0,-44.8535,-479.98 0/1:170:75,95:75:2692:95:3400:-254.879,0,-191.324 0/0:265:265,0:265:9516:0:0:0,-79.7729,-856.319 0/0:119:119,0:119:4253:0:0:0,-35.8226,-382.412 0/0:109:109,0:109:3889:0:0:0,-32.8123,-350.16 0/1:214:101,113:101:3619:113:4037:-299.042,0,-261.461 0/1:106:68,38:68:2444:38:1343:-89.2552,0,-188.294 0/0:165:163,2:163:5845:2:72:0,-42.8332,-519.27 0/0:100:100,0:100:3592:0:0:0,-30.103,-322.827 chr11 22577935 . C A 1152.83 PASS AB=0.380952;ABP=49.5419;AC=10;AF=0.238095;AN=42;AO=145;CIGAR=1X;DP=655;DPB=655;DPRA=1.56167;EPP=309.248;EPPR=1093.16;GTI=2;LEN=1;MEANALT=1;MQM=29.4;MQMR=59.4098;NS=21;NUMALT=1;ODDS=1.26197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5200;QR=18218;RO=510;RPL=1;RPP=309.248;RPPR=1101.79;RPR=144;RUN=1;SAF=145;SAP=317.874;SAR=0;SRF=509;SRP=1101.79;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:15:15,0:15:540:0:0:0,-4.51545,-48.9236 0/0:21:21,0:21:752:0:0:0,-6.32163,-67.9609 0/0:47:47,0:47:1673:0:0:0,-14.1484,-150.846 0/1:36:23,13:23:824:13:464:-21.635,0,-63.6439 0/1:44:21,23:21:744:23:820:-46.2395,0,-53.9478 0/1:18:6,12:6:216:12:432:-24.1488,0,-14.372 0/0:42:42,0:42:1500:0:0:0,-12.6433,-135.286 0/1:72:55,17:55:1972:17:608:-20.178,0,-156.003 0/1:65:31,34:31:1116:34:1224:-73.6768,0,-81.1829 0/1:8:7,1:7:252:1:36:-0.327962,0,-20.6078 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:20:12,8:12:432:8:284:-12.6273,0,-33.1913 0/0:34:34,0:34:1203:0:0:0,-10.235,-108.513 0/1:34:17,17:17:608:17:612:-34.4676,0,-44.8146 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.457 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7896 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:59:44,15:44:1567:15:540:-19.0369,0,-123.545 0/1:22:18,4:18:640:4:144:-3.7144,0,-51.3043 0/0:36:35,1:35:1252:1:36:0,-8.10088,-109.34 0/0:23:23,0:23:811:0:0:0,-6.92369,-73.3094 chr11 22577956 . CA CG,TG 12481.9 PASS AB=0.606557,0.387978;ABP=39.1066,42.9037;AC=32,10;AF=0.761905,0.238095;AN=42;AO=491,143;CIGAR=1M1X,2X;DP=636;DPB=636;DPRA=0,1.56177;EPP=1060.54,313.531;EPPR=0;GTI=2;LEN=1,2;MEANALT=1.61905,2.18182;MQM=59.4501,29.2448;MQMR=0;NS=21;NUMALT=2;ODDS=2.40397;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17505,5023;QR=0;RO=0;RPL=491,143;RPP=1069.2,313.531;RPPR=0;RPR=0,0;RUN=1,1;SAF=490,143;SAP=1060.54,313.531;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:15:0,15,0:0:0:15,0:536,0:-48.5619,-4.51545,0,-48.5619,-4.51545,-48.5619 1/1:21:0,21,0:0:0:21,0:729,0:-65.8825,-6.32163,0,-65.8825,-6.32163,-65.8825 1/1:45:0,45,0:0:0:45,0:1600,0:-144.286,-13.5464,0,-144.286,-13.5464,-144.286 1/2:35:0,22,13:0:0:22,13:792,466:-93.2435,-28.5695,-21.9468,-64.9807,0,-61.0673 1/2:42:0,18,23:0:0:18,23:644,796:-103.922,-51.4657,-46.0471,-52.4237,0,-45.5 1/2:17:0,6,11:0:0:6,11:216,371:-40.1488,-22.4883,-20.6821,-17.9843,0,-14.673 1/1:40:0,40,0:0:0:40,0:1436,0:-129.529,-12.0412,0,-129.529,-12.0412,-129.529 1/2:69:0,52,16:0:0:52,16:1844,567:-184.41,-34.1652,-18.5116,-150.262,0,-145.445 1/2:64:0,29,35:0:0:29,35:1036,1235:-168.815,-84.3232,-75.5934,-84.8228,0,-74.2867 1/2:8:0,7,1:0:0:7,1:252,36:-23.0596,-2.43517,-0.327962,-20.9088,0,-20.6078 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:20:0,12,8:0:0:12,8:432,275:-51.1136,-15.8076,-12.1953,-35.5996,0,-33.1913 1/1:32:0,32,0:0:0:32,0:1134,0:-102.358,-9.63296,0,-102.358,-9.63296,-102.358 1/2:33:0,16,17:0:0:16,17:576,610:-86.5716,-39.5414,-34.7249,-47.3562,0,-42.2386 1/1:38:0,38,0:0:0:38,0:1364,0:-123.054,-11.4391,0,-123.054,-11.4391,-123.054 1/1:6:0,6,0:0:0:6,0:216,0:-19.7896,-1.80618,0,-19.7896,-1.80618,-19.7896 1/1:12:0,12,0:0:0:12,0:424,0:-38.4964,-3.61236,0,-38.4964,-3.61236,-38.4964 1/2:57:0,42,15:0:0:42,15:1499,523:-154.059,-31.8043,-19.1611,-122.545,0,-118.03 1/2:21:0,18,3:0:0:18,3:648,108:-60.1554,-7.22465,-1.80611,-53.231,0,-52.3279 1/1:36:0,35,1:0:0:35,1:1239,36:-110.702,-10.5361,0,-108.542,-8.10088,-108.241 1/1:21:0,21,0:0:0:21,0:744,0:-67.2843,-6.32163,0,-67.2843,-6.32163,-67.2843 chr11 22577963 . GCCTAC GCCTCA,TCCTCA 12653 PASS AB=0.607895,0.381579;ABP=41.4339,49.2969;AC=32,10;AF=0.761905,0.238095;AN=42;AO=505,146;CIGAR=4M2X,1X3M2X;DP=659;DPB=659;DPRA=0,1.5563;EPP=1090.94,320.045;EPPR=0;GTI=2;LEN=2,6;MEANALT=1.90476,2.36364;MQM=59.4277,29.2123;MQMR=0;NS=21;NUMALT=2;ODDS=1.21964;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=17844,5101;QR=0;RO=0;RPL=505,146;RPP=1099.6,320.045;RPPR=0;RPR=0,0;RUN=1,1;SAF=504,146;SAP=1090.94,320.045;SAR=1,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:15:0,15,0:0:0:15,0:534,0:-48.3844,-4.51545,0,-48.3844,-4.51545,-48.3844 1/1:21:0,20,0:0:0:20,0:718,0:-64.5426,-6.0206,0,-64.5426,-6.0206,-64.5426 1/1:47:0,47,0:0:0:47,0:1646,0:-148.42,-14.1484,0,-148.42,-14.1484,-148.42 1/2:37:0,23,14:0:0:23,14:828,468:-97.4829,-29.8678,-22.9441,-67.9181,0,-63.7037 1/2:44:0,21,23:0:0:21,23:723,803:-110.913,-52.1871,-45.8655,-59.041,0,-52.1174 1/2:17:0,6,11:0:0:6,11:216,386:-40.5251,-22.866,-21.0598,-17.9843,0,-14.673 1/1:42:0,42,0:0:0:42,0:1485,0:-133.936,-12.6433,0,-133.936,-12.6433,-133.936 1/2:72:0,55,17:0:0:55,17:1940,606:-194.652,-36.6748,-20.1182,-158.267,0,-153.15 1/2:66:0,28,35:0:0:28,35:1004,1212:-164.843,-82.9302,-74.5014,-81.8876,0,-71.3516 1/2:9:0,8,1:0:0:8,1:279,36:-25.1818,-2.43517,-0.0269321,-23.0286,0,-22.7275 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:20:0,12,8:0:0:12,8:432,275:-51.4133,-16.1099,-12.4975,-35.5996,0,-33.1913 1/1:34:0,34,0:0:0:34,0:1204,0:-108.532,-10.235,0,-108.532,-10.235,-108.532 1/2:34:0,17,17:0:0:17,17:594,603:-87.7282,-39.3812,-34.2637,-48.6661,0,-43.5486 1/1:39:0,37,0:0:0:37,0:1307,0:-117.589,-11.1381,0,-117.589,-11.1381,-117.589 1/1:6:0,6,0:0:0:6,0:212,0:-19.4244,-1.80618,0,-19.4244,-1.80618,-19.4244 1/1:13:0,12,0:0:0:12,0:430,0:-38.7671,-3.61236,0,-38.7671,-3.61236,-38.7671 1/2:59:0,44,15:0:0:44,15:1533,534:-156.919,-32.2061,-18.9608,-125.003,0,-120.488 1/2:22:0,17,4:0:0:17,4:608,143:-58.4072,-8.78189,-3.66438,-49.5753,0,-48.3712 1/1:36:0,35,1:0:0:35,1:1221,35:-109.65,-10.5361,0,-107.505,-8.11598,-107.204 1/1:22:0,22,0:0:0:22,0:786,0:-71.0617,-6.62266,0,-71.0617,-6.62266,-71.0617 chr11 22814600 . G A 23241.1 PASS AB=0.592409;ABP=47.9591;AC=31;AF=0.738095;AN=42;AO=1147;CIGAR=1X;DP=1398;DPB=1398;DPRA=0;EPP=2485.01;EPPR=543.707;GTI=2;LEN=1;MEANALT=1.09524;MQM=41.5257;MQMR=27.245;NS=21;NUMALT=1;ODDS=1.04508;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41003;QR=8923;RO=249;RPL=1;RPP=2485.01;RPPR=543.707;RPR=1146;RUN=1;SAF=1147;SAP=2493.69;SAR=0;SRF=249;SRP=543.707;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,57:0:0:57:2029:-176.327,-17.1587,0 1/1:65:0,65:0:0:65:2302:-195.413,-19.567,0 1/1:65:0,65:0:0:65:2327:-203.821,-19.567,0 0/1:36:12,24:12:428:24:860:-63.9859,0,-16.8508 0/1:109:52,57:52:1868:57:2040:-145.933,0,-88.3677 0/1:44:20,24:20:720:24:864:-60.2761,0,-35.5538 1/1:151:2,148:2:72:148:5297:-446.232,-40.4387,0 0/1:42:16,25:16:564:25:892:-65.1056,0,-23.8699 0/1:146:65,81:65:2332:81:2892:-212.214,0,-116.488 0/1:17:7,10:7:252:10:360:-25.9046,0,-11.3404 0/1:11:6,5:6:216:5:176:-12.1589,0,-11.256 0/1:8:5,3:5:180:3:108:-7.33771,0,-9.36181 1/1:97:0,97:0:0:97:3472:-305.482,-29.1999,0 0/1:54:21,33:21:756:33:1159:-86.4191,0,-32.3598 1/1:154:1,153:1:36:153:5468:-476.301,-43.7999,0 1/1:52:0,52:0:0:52:1861:-164.966,-15.6536,0 1/1:46:0,46:0:0:46:1652:-145.099,-13.8474,0 0/1:74:28,46:28:999:46:1656:-121.207,0,-42.0093 0/1:65:14,51:14:500:51:1824:-139.859,0,-13.8918 1/1:67:0,67:0:0:67:2400:-208.419,-20.169,0 1/1:38:0,38:0:0:38:1364:-115.528,-11.4391,0 chr11 22814603 . TAAG TAAC,TAC 27425.1 PASS AB=0.591503,0.406863;ABP=47.5184,49.1222;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1156,252;CIGAR=3M1X,1M1D1M1X;DP=1413;DPB=1350;DPRA=0,1.14839;EPP=2461.39,516.029;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.85714,2.23077;MQM=41.5372,27.0556;MQMR=0;NS=21;NUMALT=2;ODDS=1.5391;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41290,8999;QR=0;RO=0;RPL=6,4;RPP=2461.39,516.029;RPPR=0;RPR=1150,248;RUN=1,1;SAF=1156,252;SAP=2513.23,550.221;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59,0:0:0:59,0:2096,0:-183.5,-17.7608,0,-183.5,-17.7608,-183.5 1/1:64:0,63,0:0:0:63,0:2228,0:-189.956,-18.9649,0,-189.956,-18.9649,-189.956 1/1:67:0,67,0:0:0:67,0:2389,0:-209.204,-20.169,0,-209.204,-20.169,-209.204 1/2:36:0,24,12:0:0:24,12:842,419:-89.9008,-23.8055,-16.5808,-66.376,0,-62.7636 1/2:113:0,61,52:0:0:61,52:2192,1863:-276.895,-105.236,-86.8735,-171.957,0,-156.304 1/2:44:0,24,20:0:0:24,20:855,716:-108.345,-42.5732,-35.3485,-66.0714,0,-60.0508 1/1:153:0,149,2:0:0:149,2:5341,72:-454.913,-44.8535,0,-450.749,-40.679,-450.146 1/2:42:0,26,16:0:0:26,16:932,574:-105.128,-31.85,-24.0232,-73.5661,0,-68.7496 1/2:146:0,81,65:0:0:81,65:2893,2306:-370.075,-138.859,-114.476,-231.522,0,-211.955 1/2:16:0,9,7:0:0:9,7:319,252:-39.1676,-14.3507,-11.6414,-25.11,0,-23.0028 1/2:11:0,5,6:0:0:5,6:176,216:-26.4223,-12.7611,-11.256,-13.9651,0,-12.1589 1/2:8:0,3,5:0:0:3,5:108,180:-18.7943,-10.2649,-9.36181,-8.84286,0,-7.33771 1/1:97:0,97,0:0:0:97,0:3484,0:-305.933,-29.1999,0,-305.933,-29.1999,-305.933 1/2:54:0,34,20:0:0:34,20:1220,720:-136.258,-40.292,-30.057,-96.2558,0,-90.2352 1/1:155:0,154,1:0:0:154,1:5516,36:-482.799,-46.3586,0,-480.797,-44.1009,-480.496 1/1:52:0,51,0:0:0:51,0:1816,0:-160.82,-15.3525,0,-160.82,-15.3525,-160.82 1/1:46:0,46,0:0:0:46,0:1648,0:-144.964,-13.8474,0,-144.964,-13.8474,-144.964 1/2:77:0,46,31:0:0:46,31:1603,1105:-187.172,-61.772,-47.9246,-125.687,0,-116.355 1/2:65:0,49,15:0:0:49,15:1760,540:-170.02,-31.0237,-16.2732,-138.996,0,-134.48 1/1:69:0,69,0:0:0:69,0:2472,0:-214.684,-20.7711,0,-214.684,-20.7711,-214.684 1/1:39:0,39,0:0:0:39,0:1400,0:-118.609,-11.7402,0,-118.609,-11.7402,-118.609 chr11 22814636 . CC CT,AT 26829.2 PASS AB=0.595082,0.404918;ABP=50.9108,50.9108;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1154,251;CIGAR=1M1X,2X;DP=1405;DPB=1405;DPRA=0,1.19277;EPP=2508.89,548.05;EPPR=0;GTI=2;LEN=1,2;MEANALT=1.66667,2;MQM=41.4428,26.5976;MQMR=0;NS=21;NUMALT=2;ODDS=1.19541;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41157,8934;QR=0;RO=0;RPL=1154,251;RPP=2508.89,548.05;RPPR=0;RPR=0,0;RUN=1,1;SAF=1154,251;SAP=2508.89,548.05;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,57,0:0:0:57,0:2037,0:-177.597,-17.1587,0,-177.597,-17.1587,-177.597 1/1:64:0,64,0:0:0:64,0:2267,0:-192.636,-19.2659,0,-192.636,-19.2659,-192.636 1/1:66:0,66,0:0:0:66,0:2368,0:-207.276,-19.868,0,-207.276,-19.868,-207.276 1/2:37:0,25,12:0:0:25,12:883,428:-92.8024,-24.0686,-16.5428,-69.0152,0,-65.4029 1/2:112:0,62,50:0:0:62,50:2201,1798:-272.998,-99.9872,-81.3233,-173.305,0,-158.254 1/2:43:0,24,19:0:0:24,19:841,684:-104.741,-39.8363,-32.6116,-65.1997,0,-59.4802 1/1:155:0,153,2:0:0:153,2:5477,72:-465.519,-46.0576,0,-461.355,-41.6273,-460.753 1/2:42:0,26,16:0:0:26,16:924,574:-104.364,-31.85,-24.0232,-72.8015,0,-67.985 1/2:145:0,79,66:0:0:79,66:2832,2327:-368.022,-141.151,-117.369,-227.18,0,-207.312 1/2:17:0,10,7:0:0:10,7:341,252:-40.7775,-14.3507,-11.3404,-26.7126,0,-24.6054 1/2:11:0,5,6:0:0:5,6:180,205:-26.3697,-12.4307,-10.9255,-14.2434,0,-12.4372 1/2:8:0,3,5:0:0:3,5:108,178:-18.7738,-10.2442,-9.34116,-8.84286,0,-7.33771 1/1:97:0,97,0:0:0:97,0:3469,0:-305.137,-29.1999,0,-305.137,-29.1999,-305.137 1/2:54:0,33,21:0:0:33,21:1188,754:-135.591,-42.2735,-32.3395,-93.6089,0,-87.2873 1/1:156:0,155,1:0:0:155,1:5516,36:-483.58,-46.6597,0,-481.579,-44.402,-481.278 1/1:49:0,49,0:0:0:49,0:1755,0:-155.69,-14.7505,0,-155.69,-14.7505,-155.69 1/1:45:0,45,0:0:0:45,0:1620,0:-142.622,-13.5464,0,-142.622,-13.5464,-142.622 1/2:76:0,45,31:0:0:45,31:1585,1088:-185.385,-61.4294,-47.883,-124.243,0,-114.912 1/2:65:0,51,14:0:0:51,14:1816,502:-171.477,-28.3378,-12.9853,-143.414,0,-139.2 1/1:69:0,68,1:0:0:68,1:2436,36:-211.561,-20.47,0,-209.051,-17.6474,-208.75 1/1:37:0,37,0:0:0:37,0:1313,0:-111.245,-11.1381,0,-111.245,-11.1381,-111.245 chr11 22862277 . ATCGA CTCGA,CTCA 38513.1 PASS AB=0.478211,0.520642;ABP=6.60618,6.23763;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1340,462;CIGAR=1X4M,1X2M1D1M;DP=1806;DPB=1713.6;DPRA=0,1.04192;EPP=2912.78,1006.23;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.90476,2.2;MQM=59.994,58.4416;MQMR=0;NS=21;NUMALT=2;ODDS=4.76259;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47885,16298;QR=0;RO=0;RPL=0,0;RPP=2912.78,1006.23;RPPR=0;RPR=1340,462;RUN=1,1;SAF=1340,462;SAP=2912.78,1006.23;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:122:0,120,2:0:0:120,2:4281,72:-385.108,-36.1236,0,-379.235,-29.8908,-378.633 1/1:60:0,60,0:0:0:60,0:2152,0:-193.947,-18.0618,0,-193.947,-18.0618,-193.947 1/1:76:0,76,0:0:0:76,0:2712,0:-244.324,-22.8783,0,-244.324,-22.8783,-244.324 1/2:104:0,44,60:0:0:44,60:1576,2120:-301.481,-172.95,-159.705,-128.886,0,-110.824 1/2:236:0,108,128:0:0:108,128:3861,4535:-684.266,-369.447,-336.936,-315.174,0,-276.642 1/2:70:0,38,32:0:0:38,32:1352,1134:-202.922,-92.7352,-81.296,-110.541,0,-100.908 1/1:122:0,119,2:0:0:119,2:4246,72:-381.96,-35.8226,0,-376.085,-29.9477,-375.483 1/2:37:0,23,14:0:0:23,14:816,484:-106.158,-39.6686,-32.7449,-66.838,0,-62.6236 1/2:213:0,88,125:0:0:88,125:3140,4407:-615.008,-359.027,-332.536,-256.336,0,-218.707 1/2:7:0,5,2:0:0:5,2:180,72:-20.9209,-6.23382,-4.72867,-15.0469,0,-14.4449 1/2:6:0,4,2:0:0:4,2:144,72:-17.976,-6.23466,-5.03054,-12.1011,0,-11.4991 1/2:17:0,10,7:0:0:10,7:360,249:-49.9932,-20.6163,-17.606,-29.734,0,-27.6268 1/1:104:0,103,0:0:0:103,0:3692,0:-332.172,-31.0061,0,-332.172,-31.0061,-332.172 1/2:78:0,35,43:0:0:35,43:1240,1490:-222.432,-121.414,-110.878,-101.368,0,-88.4241 1/1:113:0,111,2:0:0:111,2:3973,72:-357.399,-33.4143,0,-351.526,-27.1816,-350.924 1/1:120:0,120,0:0:0:120,0:4279,0:-385.289,-36.1236,0,-385.289,-36.1236,-385.289 1/1:87:0,87,0:0:0:87,0:3120,0:-281.026,-26.1896,0,-281.026,-26.1896,-281.026 1/2:51:0,25,25:0:0:25,25:900,883:-145.332,-71.8937,-64.3679,-73.4354,0,-65.9097 1/2:53:0,37,16:0:0:37,16:1328,564:-154.52,-46.1896,-35.0515,-108.684,0,-103.868 1/1:76:0,73,2:0:0:73,2:2601,72:-233.979,-21.9752,0,-228.161,-16.1588,-227.559 1/1:54:0,54,0:0:0:54,0:1932,0:-174.157,-16.2556,0,-174.157,-16.2556,-174.157 chr11 23148702 . TTCC CTCA,CTCC 38343.1 PASS AB=0.53908,0.454023;ABP=14.5516,18.9843;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1390,406;CIGAR=1X2M1X,1X3M;DP=1809;DPB=1808.75;DPRA=18.04,0.937523;EPP=2766.4,808.188;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.3,2.46667;MQM=48.3417,43.633;MQMR=0;NS=21;NUMALT=2;ODDS=2.1773;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48645,14356;QR=0;RO=0;RPL=1360,397;RPP=2766.4,808.188;RPPR=0;RPR=30,9;RUN=1,1;SAF=1390,406;SAP=3021.36,884.628;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:134:0,131,3:0:0:131,3:4566,97:-407.24,-39.4349,0,-399.738,-31.62,-398.834 1/1:65:0,64,0:0:0:64,0:2224,0:-198.477,-19.2659,0,-198.477,-19.2659,-198.477 1/1:119:0,117,1:0:0:117,1:4127,36:-366.682,-35.2205,0,-363.789,-32.2753,-363.488 1/2:66:0,41,25:0:0:41,25:1422,879:-183.997,-70.6912,-58.349,-113.65,0,-106.124 1/2:268:0,146,121:0:0:146,121:5082,4285:-748.96,-342.729,-298.779,-406.287,0,-369.862 1/2:115:0,61,54:0:0:61,54:2148,1927:-324.608,-151.602,-133.239,-173.353,0,-157.097 1/1:121:0,121,0:0:0:121,0:4253,0:-378.247,-36.4246,0,-378.247,-36.4246,-378.247 1/2:32:0,16,15:0:0:16,15:549,529:-83.8749,-39.6832,-34.8667,-44.2948,0,-39.7793 1/2:209:0,108,99:0:0:108,99:3779,3494:-588.125,-281.775,-249.263,-306.453,0,-276.651 2/2:5:0,0,4:0:0:0,4:0,144:-12.1299,-12.1299,-12.1299,-1.20412,-1.20412,0 1/2:7:0,4,3:0:0:4,3:143,104:-20.0845,-8.47955,-7.27543,-11.9488,0,-11.0457 1/2:7:0,2,5:0:0:2,5:70,180:-19.5693,-13.8871,-13.2851,-6.02695,0,-4.5218 1/1:84:0,83,0:0:0:83,0:2922,0:-259.765,-24.9855,0,-259.765,-24.9855,-259.765 1/2:72:0,45,25:0:0:45,25:1576,878:-196.125,-69.7837,-56.2373,-126.428,0,-118.902 1/1:153:0,152,0:0:0:152,0:5311,0:-470.455,-45.7566,0,-470.455,-45.7566,-470.455 1/1:73:0,73,0:0:0:73,0:2580,0:-231.54,-21.9752,0,-231.54,-21.9752,-231.54 1/1:51:0,50,1:0:0:50,1:1762,36:-158.167,-15.0515,0,-155.258,-11.7857,-154.957 1/2:54:0,24,30:0:0:24,30:850,1055:-149.349,-80.3323,-73.1075,-69.3594,0,-60.3285 1/2:40:0,22,18:0:0:22,18:772,640:-113.425,-51.3345,-44.7119,-62.4378,0,-57.0192 1/1:89:0,87,2:0:0:87,2:3010,72:-269.309,-26.1896,0,-263.889,-20.434,-263.287 1/1:45:0,43,0:0:0:43,0:1499,0:-133.777,-12.9443,0,-133.777,-12.9443,-133.777 chr11 23148717 . ATTATT ATATT 5378.41 PASS AB=0.441667;ABP=27.8375;AC=12;AF=0.285714;AN=42;AO=384;CIGAR=1M1D4M;DP=1773;DPB=1708.67;DPRA=0.923134;EPP=836.856;EPPR=2997.47;GTI=2;LEN=1;MEANALT=1.4;MQM=43.6823;MQMR=48.4569;NS=21;NUMALT=1;ODDS=4.18234;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13334;QR=47822;RO=1379;RPL=384;RPP=836.856;RPPR=2997.47;RPR=0;RUN=1;SAF=384;SAP=836.856;SAR=0;SRF=1379;SRP=2997.47;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:134:130,3:130:4501:3:100:0,-31.2498,-392.708 0/0:66:66,0:66:2283:0:0:0,-19.868,-203.541 0/0:120:118,2:118:4111:2:68:0,-29.7518,-359.459 0/1:63:41,22:41:1414:22:764:-49.1448,0,-106.382 0/1:259:145,114:145:4979:114:3931:-270.964,0,-364.455 0/1:109:59,49:59:2072:49:1718:-117.407,0,-152.871 0/0:119:119,0:119:4123:0:0:0,-35.8226,-366.971 0/1:31:16,14:16:544:14:487:-32.1372,0,-39.0341 0/1:205:105,98:105:3661:98:3419:-243.649,0,-267.325 1/1:5:0,5:0:0:5:170:-14.4294,-1.50515,0 0/1:6:4,2:4:144:2:68:-4.46546,0,-11.4353 0/1:8:2,6:2:58:6:208:-15.509,0,-3.0884 0/0:83:82,0:82:2853:0:0:0,-24.6845,-254.022 0/1:68:45,22:45:1573:22:754:-46.67,0,-119.923 0/0:151:150,0:150:5212:0:0:0,-45.1545,-462.247 0/0:72:72,0:72:2519:0:0:0,-21.6742,-226.158 0/0:51:50,1:50:1746:1:36:0,-11.7857,-153.47 0/1:52:24,28:24:842:28:984:-68.003,0,-60.2198 0/1:39:22,16:22:778:16:559:-38.111,0,-57.8684 0/0:87:85,2:85:2884:2:68:0,-20.0841,-252.722 0/0:45:44,0:44:1525:0:0:0,-13.2453,-136.415 chr11 23165366 . C T 23365.5 PASS AB=0.492733;ABP=3.32592;AC=31;AF=0.738095;AN=42;AO=1120;CIGAR=1X;DP=1471;DPB=1471;DPRA=0;EPP=2435.06;EPPR=765.197;GTI=0;LEN=1;MEANALT=1;MQM=59.8705;MQMR=59.9402;NS=21;NUMALT=1;ODDS=8.63877;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39720;QR=12496;RO=351;RPL=0;RPP=2435.06;RPPR=765.197;RPR=1120;RUN=1;SAF=0;SAP=2435.06;SAR=1120;SRF=0;SRP=765.197;SRR=351;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:1,53:1:36:53:1876:-165.148,-12.6573,0 1/1:30:0,30:0:0:30:1067:-96.3378,-9.0309,0 1/1:74:0,74:0:0:74:2624:-236.401,-22.2762,0 0/1:69:41,28:41:1453:28:987:-68.372,0,-110.135 0/1:137:75,62:75:2648:62:2198:-156.82,0,-197.325 0/1:35:17,18:17:599:18:648:-48.1158,0,-43.702 1/1:104:0,104:0:0:104:3688:-332.114,-31.3071,0 0/1:48:29,19:29:1028:19:684:-47.4409,0,-78.3836 0/1:139:74,65:74:2656:65:2304:-165.778,0,-197.443 0/1:10:4,6:4:144:6:212:-16.4145,0,-10.3033 0/1:5:3,2:3:108:2:72:-4.99706,0,-8.57002 0/1:18:8,10:8:284:10:360:-27.3258,0,-20.4848 1/1:155:0,155:0:0:155:5475:-492.882,-46.6597,0 0/1:46:26,20:26:928:20:707:-50.1072,0,-69.9909 1/1:104:1,103:1:32:103:3666:-326.946,-28.1078,0 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 1/1:30:0,30:0:0:30:1054:-95.1692,-9.0309,0 0/1:75:32,43:32:1152:43:1486:-111.453,0,-81.4129 0/1:106:40,66:40:1428:66:2347:-179.551,0,-96.9084 1/1:156:0,156:0:0:156:5541:-498.772,-46.9607,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 chr11 23497157 . 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TAA TG,TGA 33086.9 PASS AB=0.469645,0.528064;ABP=9.99732,8.98247;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1098,461;CIGAR=1M1D1X,1M1X1M;DP=1562;DPB=1196;DPRA=0,1.15187;EPP=2387.29,995.392;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.66667,2.18182;MQM=57.1913,59.9436;MQMR=0;NS=21;NUMALT=2;ODDS=10.2474;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=39156,16343;QR=0;RO=0;RPL=1098,460;RPP=2387.29,995.392;RPPR=0;RPR=0,1;RUN=1,1;SAF=0,0;SAP=2387.29,1004.06;SAR=1098,461;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,58,0:0:0:58,0:2059,0:-185.448,-17.4597,0,-185.448,-17.4597,-185.448 1/1:48:0,48,0:0:0:48,0:1702,0:-153.374,-14.4494,0,-153.374,-14.4494,-153.374 1/1:87:0,87,0:0:0:87,0:3115,0:-280.316,-26.1896,0,-280.316,-26.1896,-280.316 1/2:92:0,38,54:0:0:38,54:1339,1940:-267.513,-158.621,-147.181,-109.248,0,-92.9921 1/2:153:0,62,90:0:0:62,90:2211,3158:-437.235,-257.057,-238.394,-180.27,0,-153.177 1/2:34:0,15,19:0:0:15,19:536,671:-98.6872,-54.9962,-50.4808,-44.0462,0,-38.3267 1/1:97:0,96,0:0:0:96,0:3431,0:-308.265,-28.8989,0,-308.265,-28.8989,-308.265 1/2:52:0,18,34:0:0:18,34:644,1216:-151.941,-99.5111,-94.0926,-52.7872,0,-42.5521 1/2:142:0,83,59:0:0:83,59:2943,2095:-410.597,-171.059,-146.073,-239.893,0,-222.132 1/2:17:0,4,13:0:0:4,13:144,468:-50.2232,-38.5463,-37.3421,-12.0352,0,-8.12184 1/2:9:0,4,4:0:0:4,4:144,144:-23.5933,-11.8375,-10.6334,-11.8338,0,-10.6297 1/2:72:0,29,43:0:0:29,43:1032,1524:-208.454,-124.509,-115.779,-84.3,0,-71.3557 1/1:112:0,112,0:0:0:112,0:3993,0:-358.8,-33.7154,0,-358.8,-33.7154,-358.8 1/2:80:0,45,35:0:0:45,35:1616,1210:-230.287,-98.6654,-85.119,-131.972,0,-121.436 1/1:97:0,97,0:0:0:97,0:3463,0:-310.732,-29.1999,0,-310.732,-29.1999,-310.732 1/1:17:0,17,0:0:0:17,0:604,0:-54.6071,-5.11751,0,-54.6071,-5.11751,-54.6071 1/1:30:0,30,0:0:0:30,0:1072,0:-96.6937,-9.0309,0,-96.6937,-9.0309,-96.6937 1/2:163:0,75,88:0:0:75,88:2696,3129:-475.147,-255.334,-232.757,-220.17,0,-193.68 1/2:59:0,37,22:0:0:37,22:1328,788:-172.766,-64.6221,-53.484,-108.502,0,-101.88 1/1:85:0,85,0:0:0:85,0:3012,0:-270.768,-25.5876,0,-270.768,-25.5876,-270.768 1/1:58:0,58,0:0:0:58,0:2072,0:-186.527,-17.4597,0,-186.527,-17.4597,-186.527 chr11 24297399 . G A 2937.74 PASS AB=0.326843;ABP=190.261;AC=11;AF=0.261905;AN=42;AO=236;CIGAR=1X;DP=1444;DPB=1444;DPRA=0.913594;EPP=515.478;EPPR=2626.15;GTI=0;LEN=1;MEANALT=1;MQM=59.9661;MQMR=59.9843;NS=21;NUMALT=1;ODDS=12.7076;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8426;QR=43075;RO=1208;RPL=236;RPP=515.478;RPPR=2626.15;RPR=0;RUN=1;SAF=0;SAP=515.478;SAR=236;SRF=0;SRP=2626.15;SRR=1208;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:82:82,0:82:2912:0:0:0,-24.6845,-262.317 0/0:66:66,0:66:2344:0:0:0,-19.868,-211.217 0/0:69:69,0:69:2460:0:0:0,-20.7711,-221.655 0/1:45:29,16:29:1032:16:576:-38.6286,0,-79.6471 0/1:132:79,53:79:2805:53:1908:-132.262,0,-212.953 0/1:67:53,14:53:1896:14:492:-24.4433,0,-150.749 0/0:82:82,0:82:2924:0:0:0,-24.6845,-263.377 0/1:43:27,16:27:964:16:572:-38.8691,0,-74.1325 0/1:99:61,38:61:2184:38:1356:-92.5385,0,-167.024 0/1:20:12,8:12:432:8:279:-19.4269,0,-33.2006 0/1:16:7,9:7:248:9:311:-23.506,0,-17.8477 0/1:60:47,13:47:1668:13:468:-24.3978,0,-132.346 0/0:76:76,0:76:2728:0:0:0,-22.8783,-245.763 0/1:102:81,21:81:2888:21:752:-37.3012,0,-229.452 0/0:129:129,0:129:4620:0:0:0,-38.8329,-415.961 0/0:61:61,0:61:2176:0:0:0,-18.3628,-196.107 0/0:60:60,0:60:2119:0:0:0,-18.0618,-190.979 0/1:76:42,34:42:1496:34:1216:-86.8683,0,-112.056 0/1:59:46,13:46:1647:13:460:-23.9746,0,-130.757 0/0:74:73,1:73:2608:1:36:0,-18.6779,-231.37 0/0:26:26,0:26:924:0:0:0,-7.82678,-83.4777 chr11 24570241 . AGT TGT 16744.9 PASS AB=0.526163;ABP=7.10075;AC=30;AF=0.714286;AN=42;AO=806;CIGAR=1X2M;DP=1151;DPB=1151;DPRA=11.46;EPP=1753.22;EPPR=730.454;GTI=1;LEN=1;MEANALT=1.35;MQM=59.6476;MQMR=58.5224;NS=21;NUMALT=1;ODDS=1.26408;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28476;QR=11357;RO=335;RPL=17;RPP=1608.67;RPPR=730.454;RPR=789;RUN=1;SAF=17;SAP=1608.67;SAR=789;SRF=0;SRP=730.454;SRR=335;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,21:0:0:21:739:-66.483,-6.32163,0 1/1:17:0,17:0:0:17:604:-54.6814,-5.11751,0 1/1:62:6,52:6:201:52:1858:-158.816,-9.17233,0 0/1:65:32,33:32:1101:33:1157:-84.5817,0,-79.825 0/1:108:49,59:49:1652:59:2100:-156.758,0,-114.821 0/1:44:30,14:30:1011:14:477:-30.0076,0,-78.0479 1/1:47:0,47:0:0:47:1661:-149.762,-14.1484,0 0/1:61:31,29:31:1038:29:1024:-74.0514,0,-75.2981 0/1:157:80,76:80:2726:76:2706:-196.58,0,-197.954 0/1:8:6,2:6:195:2:72:-4.42848,0,-15.4578 0/0:5:5,0:5:172:0:0:0,-1.50515,-15.8174 0/1:19:10,9:10:348:9:320:-23.4181,0,-25.9324 1/1:84:1,83:1:36:83:2940:-261.186,-21.6882,0 0/1:62:39,23:39:1326:23:794:-53.0943,0,-100.965 1/1:73:0,73:0:0:73:2577:-232.069,-21.9752,0 1/1:33:0,33:0:0:33:1141:-102.99,-9.93399,0 1/1:19:1,18:1:36:18:640:-56.2461,-4.12378,0 0/1:110:25,83:25:869:83:2934:-231.359,0,-45.6343 0/1:54:20,34:20:646:34:1208:-92.7705,0,-41.0794 1/1:52:0,51:0:0:51:1800:-162.018,-15.3525,0 1/1:49:0,49:0:0:49:1724:-155.254,-14.7505,0 chr11 24570250 . C T 5127.68 PASS AB=0.452857;ABP=16.5231;AC=12;AF=0.285714;AN=42;AO=322;CIGAR=1X;DP=1189;DPB=1189;DPRA=1.52487;EPP=702.224;EPPR=1883.51;GTI=1;LEN=1;MEANALT=1;MQM=59.4969;MQMR=59.1986;NS=21;NUMALT=1;ODDS=4.44668;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11486;QR=30599;RO=866;RPL=0;RPP=702.224;RPPR=1738.74;RPR=322;RUN=1;SAF=0;SAP=702.224;SAR=322;SRF=17;SRP=1738.74;SRR=849;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:24,0:24:855:0:0:0,-7.22472,-77.2611 0/0:20:20,0:20:686:0:0:0,-6.0206,-60.5987 0/0:62:62,0:62:2223:0:0:0,-18.6639,-190.076 0/1:67:33,34:33:1163:34:1212:-89.1386,0,-84.7704 0/1:113:65,48:65:2277:48:1713:-120.392,0,-169.367 0/1:40:13,27:13:464:27:972:-75.7563,0,-30.0563 0/0:46:46,0:46:1618:0:0:0,-13.8474,-145.901 0/1:65:33,32:33:1163:32:1132:-82.615,0,-85.4092 0/1:160:84,76:84:2974:76:2720:-196.45,0,-219.716 0/1:8:2,6:2:72:6:216:-17.3799,0,-4.42848 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:19:9,10:9:324:10:360:-27.022,0,-23.7816 0/0:93:92,1:92:3261:1:36:0,-24.3975,-290.061 0/1:62:23,39:23:820:39:1375:-105.379,0,-55.4515 0/0:74:73,0:73:2589:0:0:0,-21.9752,-232.825 0/0:36:36,0:36:1276:0:0:0,-10.8371,-115.141 0/0:19:19,0:19:650:0:0:0,-5.71957,-56.9187 0/1:111:85,26:85:2976:26:922:-49.8557,0,-234.635 0/1:55:36,19:36:1264:19:684:-45.3337,0,-95.6953 0/0:57:57,0:57:2029:0:0:0,-17.1587,-182.878 0/0:54:54,0:54:1915:0:0:0,-16.2556,-172.437 chr11 24647927 . CA CG,TG 29188.3 PASS AB=0.480485,0.51817;ABP=5.46818,5.14086;AC=31,11;AF=0.738095,0.261905;AN=42;AO=983,386;CIGAR=1M1X,2X;DP=1374;DPB=1374;DPRA=0,1.02672;EPP=2137.57,841.199;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.7619,2.08333;MQM=59.9878,59.9793;MQMR=0;NS=21;NUMALT=2;ODDS=10.1271;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35160,13689;QR=0;RO=0;RPL=0,0;RPP=2137.57,841.199;RPPR=0;RPR=983,386;RUN=1,1;SAF=983,386;SAP=2137.57,841.199;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,53,0:0:0:53,0:1889,0:-170.288,-15.9546,0,-170.288,-15.9546,-170.288 1/1:58:0,58,0:0:0:58,0:2065,0:-186.119,-17.4597,0,-186.119,-17.4597,-186.119 1/1:35:0,33,0:0:0:33,0:1184,0:-106.509,-9.93399,0,-106.509,-9.93399,-106.509 1/2:96:0,56,40:0:0:56,40:2008,1425:-280.283,-116.505,-99.6471,-164.136,0,-152.094 1/2:122:0,51,71:0:0:51,71:1793,2518:-351.443,-205.498,-190.146,-146.298,0,-124.925 1/2:68:0,28,40:0:0:28,40:1004,1390:-195.243,-113.35,-104.921,-82.247,0,-70.2058 1/1:104:0,104,0:0:0:104,0:3728,0:-335.721,-31.3071,0,-335.721,-31.3071,-335.721 1/2:72:0,35,37:0:0:35,37:1260,1308:-209.694,-106.881,-96.3452,-103.169,0,-92.0313 1/2:115:0,46,69:0:0:46,69:1652,2447:-334.476,-199.712,-185.865,-135.121,0,-114.35 1/2:17:0,6,11:0:0:6,11:216,384:-49.2111,-31.5828,-29.7766,-17.9843,0,-14.673 1/2:10:0,2,8:0:0:2,8:72,275:-28.553,-22.6749,-22.0729,-6.23466,0,-3.82642 1/2:19:0,10,9:0:0:10,9:360,324:-56.1708,-26.7966,-23.7863,-29.734,0,-27.0247 1/1:59:0,58,0:0:0:58,0:2068,0:-186.031,-17.4597,0,-186.031,-17.4597,-186.031 1/2:85:0,43,42:0:0:43,42:1536,1508:-248.58,-123.372,-110.427,-125.566,0,-112.923 1/1:80:0,79,0:0:0:79,0:2836,0:-255.118,-23.7814,0,-255.118,-23.7814,-255.118 1/1:58:0,58,0:0:0:58,0:2080,0:-187.47,-17.4597,0,-187.47,-17.4597,-187.47 1/1:51:0,50,1:0:0:50,1:1788,36:-160.843,-15.0515,0,-157.905,-11.7543,-157.604 1/2:76:0,43,33:0:0:43,33:1544,1184:-222.884,-96.9343,-83.99,-126.309,0,-116.375 1/2:63:0,37,25:0:0:37,25:1324,890:-180.629,-72.6583,-61.5202,-108.091,0,-100.565 1/1:43:0,43,0:0:0:43,0:1528,0:-137.813,-12.9443,0,-137.813,-12.9443,-137.813 1/1:90:0,90,0:0:0:90,0:3225,0:-290.472,-27.0927,0,-290.472,-27.0927,-290.472 chr11 24647958 . C T 52421.3 PASS AB=0.543873;ABP=25.1127;AC=31;AF=0.738095;AN=42;AO=1945;CIGAR=1X;DP=2554;DPB=2554;DPRA=0;EPP=4217.84;EPPR=1273.84;GTI=0;LEN=1;MEANALT=1;MQM=59.9846;MQMR=59.9704;NS=21;NUMALT=1;ODDS=34.4574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69608;QR=21737;RO=609;RPL=972;RPP=3.01142;RPPR=86.4783;RPR=973;RUN=1;SAF=973;SAP=3.01142;SAR=972;SRF=387;SRP=100.085;SRR=222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:0,128:0:0:128:4589:-413.086,-38.5318,0 1/1:107:0,107:0:0:107:3844:-346.155,-32.2102,0 1/1:86:0,86:0:0:86:3080:-277.428,-25.8886,0 0/1:137:57,80:57:2035:80:2880:-218.195,0,-142.18 0/1:268:124,144:124:4435:144:5159:-383.774,0,-318.631 0/1:121:61,60:61:2166:60:2141:-156.531,0,-158.773 1/1:189:1,188:1:36:188:6723:-601.547,-53.2964,0 0/1:90:47,43:47:1680:43:1548:-112.52,0,-124.394 0/1:200:99,101:99:3547:101:3620:-265.799,0,-259.232 0/1:24:15,9:15:528:9:324:-22.2811,0,-40.6266 0/1:16:8,8:8:288:8:288:-21.4509,0,-21.4509 0/1:37:16,21:16:576:21:733:-55.1516,0,-41.0369 1/1:113:1,112:1:36:112:4005:-357.04,-30.4181,0 0/1:129:64,65:64:2273:65:2330:-171.104,0,-165.998 1/1:151:1,150:1:36:150:5333:-476.505,-41.8573,0 1/1:123:1,122:1:36:122:4368:-389.696,-33.4284,0 1/1:94:1,93:1:36:93:3327:-296.049,-24.6985,0 0/1:164:65,99:65:2323:99:3534:-268.9,0,-159.961 0/1:136:47,89:47:1670:89:3191:-246.472,0,-109.646 1/1:98:1,97:1:36:97:3466:-308.553,-25.9027,0 1/1:143:0,143:0:0:143:5125:-461.39,-43.0473,0 chr11 24730517 . T C 10587.7 PASS AB=0.4375;ABP=46.9826;AC=8;AF=0.190476;AN=42;AO=621;CIGAR=1X;DP=4278;DPB=4278;DPRA=2.17041;EPP=1342.82;EPPR=7898.54;GTI=0;LEN=1;MEANALT=1.07143;MQM=59.8615;MQMR=59.9138;NS=21;NUMALT=1;ODDS=62.8266;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22109;QR=130696;RO=3656;RPL=554;RPP=832.327;RPPR=5903.94;RPR=67;RUN=1;SAF=555;SAP=839.153;SAR=66;SRF=3409;SRP=5941.44;SRR=247;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:181:178,3:178:6361:3:104:0,-44.7836,-562.871 0/0:104:102,2:102:3639:2:72:0,-24.4704,-320.878 0/0:120:120,0:120:4266:0:0:0,-36.1236,-384.12 0/1:69:41,28:41:1472:28:998:-69.3642,0,-112.005 0/1:201:101,100:101:3612:100:3528:-257.181,0,-264.766 0/1:94:48,46:48:1728:46:1648:-120.306,0,-127.508 0/0:101:101,0:101:3611:0:0:0,-30.404,-324.875 0/1:135:54,81:54:1936:81:2873:-218.168,0,-133.877 0/1:370:188,181:188:6723:181:6478:-471.813,0,-493.851 0/0:663:637,26:637:22788:26:928:0,-115.745,-1964.57 0/0:678:674,4:674:24087:4:140:0,-191.154,-2154.21 0/0:478:461,17:461:16533:17:608:0,-88.8403,-1432.35 0/0:105:105,0:105:3763:0:0:0,-31.6081,-338.868 0/1:109:56,53:56:2008:53:1885:-137.114,0,-148.176 0/0:124:124,0:124:4464:0:0:0,-37.3277,-401.927 0/0:170:170,0:170:6082:0:0:0,-51.1751,-547.463 0/0:147:147,0:147:5230:0:0:0,-44.2514,-470.834 0/1:254:200,54:200:7084:54:1918:-96.421,0,-561.161 0/1:64:40,24:40:1423:24:857:-58.1686,0,-109.101 0/0:77:75,2:75:2683:2:72:0,-16.3426,-234.864 0/0:34:34,0:34:1203:0:0:0,-10.235,-108.575 chr11 24780752 . GACCC GACCT,AACCT 44731.4 PASS AB=0.447993,0.546533;ABP=28.7589,23.6234;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1537,603;CIGAR=4M1X,1X3M1X;DP=2154;DPB=2155.6;DPRA=0,0.887493;EPP=3340.56,1312.41;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.28571,2.46154;MQM=59.7573,58.8988;MQMR=0;NS=21;NUMALT=2;ODDS=13.135;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=52,52;PQR=68;PRO=3;QA=54754,20437;QR=0;RO=0;RPL=0,0;RPP=3340.56,1312.41;RPPR=0;RPR=1537,603;RUN=1,1;SAF=1537,603;SAP=3340.56,1312.41;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:93:0,90,3:0:0:90,3:3236,104:-291.111,-27.0927,0,-282.658,-18.2928,-281.755 1/1:116:0,115,0:0:0:115,0:4083,0:-367.234,-34.6185,0,-367.234,-34.6185,-367.234 1/1:109:0,109,0:0:0:109,0:3864,0:-347.818,-32.8123,0,-347.818,-32.8123,-347.818 1/2:139:0,66,73:0:0:66,73:2364,2471:-393.459,-200.658,-180.79,-193.15,0,-171.175 1/2:204:0,79,123:0:0:79,123:2824,4194:-570.057,-339.793,-316.011,-230.325,0,-193.299 1/2:109:0,38,70:0:0:38,70:1334,2282:-292.551,-184.012,-172.573,-108.608,0,-87.536 1/1:120:0,118,0:0:0:118,0:4197,0:-377.554,-35.5215,0,-377.554,-35.5215,-377.554 1/2:95:0,45,50:0:0:45,50:1585,1723:-269.335,-140.291,-126.745,-129.392,0,-114.34 1/2:121:0,53,68:0:0:53,68:1892,2330:-342.277,-188.023,-172.069,-154.204,0,-133.734 1/2:14:0,7,7:0:0:7,7:248,241:-40.1267,-19.9189,-17.8117,-20.557,0,-18.4498 1/2:5:0,2,3:0:0:2,3:72,103:-14.588,-8.70651,-8.10445,-6.23466,0,-5.33157 1/2:39:0,20,19:0:0:20,19:716,639:-110.507,-52.1075,-46.0869,-58.7467,0,-53.0271 1/1:113:0,112,0:0:0:112,0:3997,0:-358.972,-33.7154,0,-358.972,-33.7154,-358.972 1/2:98:0,41,55:0:0:41,55:1437,1842:-265.998,-149.144,-136.802,-116.974,0,-100.417 1/1:163:0,161,0:0:0:161,0:5756,0:-517.486,-48.4658,0,-517.486,-48.4658,-517.486 1/1:56:0,55,0:0:0:55,0:1952,0:-175.579,-16.5567,0,-175.579,-16.5567,-175.579 1/1:91:0,91,0:0:0:91,0:3252,0:-292.469,-27.3937,0,-292.469,-27.3937,-292.469 1/2:170:0,79,90:0:0:79,90:2831,3092:-480.734,-249.838,-226.057,-230.887,0,-203.794 1/2:102:0,61,41:0:0:61,41:2170,1383:-289.206,-112.411,-94.0484,-177.139,0,-164.797 1/1:83:0,82,1:0:0:82,1:2899,33:-260.767,-24.6845,0,-258.099,-21.6864,-257.798 1/1:114:0,113,0:0:0:113,0:4045,0:-363.941,-34.0164,0,-363.941,-34.0164,-363.941 chr11 25038011 . TA GA 13708.3 PASS AB=0.520833;ABP=4.6389;AC=31;AF=0.738095;AN=42;AO=654;CIGAR=1X1M;DP=865;DPB=865;DPRA=0;EPP=1423.15;EPPR=454.677;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.23107;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23409;QR=7356;RO=208;RPL=654;RPP=1423.15;RPPR=454.677;RPR=0;RUN=1;SAF=0;SAP=1423.15;SAR=654;SRF=0;SRP=454.677;SRR=208;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,52:0:0:52:1864:-168.039,-15.6536,0 1/1:15:0,15:0:0:15:535:-48.4843,-4.51545,0 1/1:19:0,19:0:0:19:676:-61.168,-5.71957,0 0/1:26:10,16:10:356:16:576:-44.3482,0,-24.5547 0/1:121:47,74:47:1655:74:2648:-202.142,0,-112.811 0/1:53:34,19:34:1195:19:683:-45.8455,0,-91.8986 1/1:85:0,85:0:0:85:3048:-274.549,-25.5876,0 0/1:13:7,6:7:252:6:216:-15.8771,0,-19.1156 0/1:83:43,40:43:1526:40:1432:-104.192,0,-112.647 0/1:8:2,6:2:62:6:212:-17.0166,0,-3.48047 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:11:10,1:10:355:1:36:-0.286945,0,-28.979 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/1:50:26,24:26:911:24:860:-62.6703,0,-67.2528 1/1:46:0,46:0:0:46:1652:-148.968,-13.8474,0 1/1:58:0,55:0:0:55:1960:-176.316,-16.5567,0 1/1:67:0,67:0:0:67:2392:-215.537,-20.169,0 0/1:35:21,14:21:756:14:504:-35.162,0,-57.8312 0/1:28:5,23:5:180:23:811:-64.8811,0,-8.12322 1/1:19:1,18:1:36:18:644:-54.6923,-2.1213,0 1/1:39:0,39:0:0:39:1404:-126.659,-11.7402,0 chr11 25116991 . ATGA AC,ACCA 34378.2 PASS AB=0.475485,0.521095;ABP=7.58847,6.39998;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1203,469;CIGAR=1M2D1X,1M2X1M;DP=1675;DPB=1073.5;DPRA=11.9143,1.31795;EPP=2615.29,1021.43;EPPR=0;GTI=1;LEN=2,2;MEANALT=1.85,2.13333;MQM=43.7889,58.1876;MQMR=0;NS=21;NUMALT=2;ODDS=0.974784;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43027,16396;QR=0;RO=0;RPL=1203,469;RPP=2615.29,1021.43;RPPR=0;RPR=0,0;RUN=1,1;SAF=1203,469;SAP=2615.29,1021.43;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,75,1:0:0:75,1:2696,36:-238.162,-22.5773,0,-235.224,-19.28,-234.923 1/1:77:0,77,0:0:0:77,0:2747,0:-238.892,-23.1793,0,-238.892,-23.1793,-238.892 1/1:81:0,79,2:0:0:79,2:2831,70:-249.937,-23.7814,0,-244.242,-17.7361,-243.64 1/2:90:0,42,48:0:0:42,48:1500,1694:-256.298,-138.073,-125.429,-118.574,0,-104.125 1/2:193:0,75,117:0:0:75,117:2671,4073:-542.176,-330.28,-307.703,-211.992,0,-176.772 1/2:91:0,58,33:0:0:58,33:2067,1144:-255.433,-92.672,-75.2123,-163.106,0,-153.172 1/1:111:0,110,1:0:0:110,1:3948,36:-344.441,-33.1133,0,-341.504,-29.8161,-341.203 1/2:67:0,33,34:0:0:33,34:1180,1184:-187.957,-96.192,-86.258,-92.1094,0,-81.8744 1/2:171:0,80,90:0:0:80,90:2876,3147:-486.125,-256.071,-231.989,-230.154,0,-203.061 2/2:7:0,0,7:0:0:0,7:0,234:-21.2538,-21.2538,-21.2538,-2.10721,-2.10721,0 1/2:4:0,2,2:0:0:2,2:72,72:-10.9989,-6.21613,-5.61407,-5.11259,0,-4.51053 1/2:41:0,20,21:0:0:20,21:712,732:-116.965,-59.776,-53.7554,-57.5383,0,-51.2167 1/1:85:0,85,0:0:0:85,0:3052,0:-266.261,-25.5876,0,-266.261,-25.5876,-266.261 1/2:105:0,46,59:0:0:46,59:1652,2078:-300.219,-168.992,-155.144,-131.578,0,-113.818 1/1:133:0,132,1:0:0:132,1:4707,36:-410.416,-39.736,0,-407.478,-36.4387,-407.177 1/1:55:0,55,0:0:0:55,0:1962,0:-173.16,-16.5567,0,-173.16,-16.5567,-173.16 1/1:54:0,54,0:0:0:54,0:1944,0:-171.46,-16.2556,0,-171.46,-16.2556,-171.46 1/2:62:0,30,32:0:0:30,32:1050,1133:-174.665,-92.5046,-83.4737,-82.5056,0,-72.8727 1/2:53:0,31,21:0:0:31,21:1116,727:-146.632,-59.1449,-49.813,-87.5508,0,-81.2292 1/1:81:0,81,0:0:0:81,0:2895,0:-253.979,-24.3834,0,-253.979,-24.3834,-253.979 1/1:38:0,38,0:0:0:38,0:1349,0:-119.07,-11.4391,0,-119.07,-11.4391,-119.07 chr11 25117110 . ATTGC ATTTGC 26677 PASS AB=0.586592;ABP=49.6424;AC=30;AF=0.714286;AN=42;AO=1139;CIGAR=1M1I4M;DP=1451;DPB=1679.8;DPRA=14.46;EPP=1489.47;EPPR=652.394;GTI=1;LEN=1;MEANALT=1.2;MQM=55.4504;MQMR=58.5309;NS=21;NUMALT=1;ODDS=12.5841;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40222;QR=10846;RO=307;RPL=1011;RPP=1489.47;RPPR=652.394;RPR=128;RUN=1;SAF=0;SAP=2476.32;SAR=1139;SRF=0;SRP=669.652;SRR=307;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,69:0:0:69:2456:-219.232,-20.7711,0 1/1:43:0,43:0:0:43:1515:-135.641,-12.9443,0 1/1:74:0,74:0:0:74:2617:-233.781,-22.2762,0 0/1:89:34,55:34:1213:55:1944:-146.752,0,-82.6721 0/1:157:73,84:73:2556:84:2967:-218.616,0,-183.005 0/1:83:32,51:32:1134:51:1824:-139.136,0,-76.5927 1/1:127:1,126:1:36:126:4423:-394.436,-34.633,0 0/1:92:39,53:39:1388:53:1876:-141.369,0,-97.5095 0/1:127:53,74:53:1884:74:2617:-196.96,0,-130.011 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7438 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.55 0/1:18:7,11:7:242:11:381:-29.1939,0,-16.6961 1/1:79:0,79:0:0:79:2770:-247.254,-23.7814,0 0/1:84:34,50:34:1213:50:1769:-133.458,0,-82.2801 1/1:132:0,132:0:0:132:4659:-415.871,-39.736,0 1/1:45:0,45:0:0:45:1599:-143.256,-13.5464,0 1/1:60:0,59:0:0:59:2071:-185.917,-17.7608,0 0/1:29:10,19:10:347:19:680:-52.7911,0,-22.8307 0/1:31:9,22:9:293:22:788:-61.2827,0,-17.3532 1/1:60:5,54:5:180:54:1890:-153.825,-1.57057,0 1/1:39:0,38:0:0:38:1340:-120.452,-11.4391,0 chr11 25323637 . GAAAA AAAAA,AAAAG 20121.4 PASS AB=0.51497,0.481038;ABP=3.98551,4.57497;AC=31,11;AF=0.738095,0.261905;AN=42;AO=715,243;CIGAR=1X4M,1X3M1X;DP=962;DPB=962;DPRA=0,1.06167;EPP=1555.61,530.678;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.80952,2.15385;MQM=59.6531,59.6173;MQMR=0;NS=21;NUMALT=2;ODDS=7.34847;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=25412,8447;QR=0;RO=0;RPL=0,0;RPP=1555.61,530.678;RPPR=0;RPR=715,243;RUN=1,1;SAF=0,0;SAP=1555.61,530.678;SAR=715,243;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,68,1:0:0:68,1:2422,36:-217.788,-20.47,0,-214.851,-17.1728,-214.55 1/1:27:0,27,0:0:0:27,0:972,0:-87.797,-8.12781,0,-87.797,-8.12781,-87.797 1/1:39:0,38,1:0:0:38,1:1360,35:-122.257,-11.4391,0,-119.41,-8.24154,-119.109 1/2:62:0,26,36:0:0:26,36:911,1261:-177.08,-102.952,-95.1256,-74.4782,0,-63.6411 1/2:120:0,63,56:0:0:63,56:2212,1952:-338.529,-158.6,-139.635,-180.055,0,-163.198 1/2:50:0,23,27:0:0:23,27:807,931:-141.641,-75.9714,-69.0477,-66.0173,0,-57.8895 1/1:64:0,64,0:0:0:64,0:2292,0:-206.53,-19.2659,0,-206.53,-19.2659,-206.53 1/2:44:0,25,19:0:0:25,19:866,652:-123.652,-53.268,-45.7423,-70.7281,0,-65.0086 1/2:56:0,33,23:0:0:33,23:1176,787:-160.075,-64.2181,-54.2841,-96.2049,0,-89.2812 1/2:6:0,3,3:0:0:3,3:108,98:-17.0686,-8.23972,-7.33663,-9.17208,0,-8.26899 1/2:7:0,3,4:0:0:3,4:108,141:-20.64,-11.8328,-10.9297,-9.16364,0,-7.95952 1/2:10:0,7,3:0:0:7,3:252,107:-29.6433,-9.07908,-6.97187,-20.9217,0,-20.0187 1/1:68:0,67,0:0:0:67,0:2396,0:-215.597,-20.169,0,-215.597,-20.169,-215.597 1/2:43:0,20,23:0:0:20,23:701,804:-122.791,-65.752,-59.7314,-57.3888,0,-50.4651 1/1:60:0,60,0:0:0:60,0:2144,0:-193.221,-18.0618,0,-193.221,-18.0618,-193.221 1/1:36:0,36,0:0:0:36,0:1292,0:-116.548,-10.8371,0,-116.548,-10.8371,-116.548 1/1:31:0,30,0:0:0:30,0:1055,0:-94.9974,-9.0309,0,-94.9974,-9.0309,-94.9974 1/2:69:0,35,33:0:0:35,33:1248,1158:-195.958,-94.2278,-83.6917,-101.725,0,-91.791 1/2:34:0,20,14:0:0:20,14:708,485:-97.4387,-39.7631,-33.7425,-58.025,0,-53.8106 1/1:35:0,35,0:0:0:35,0:1243,0:-112.169,-10.5361,0,-112.169,-10.5361,-112.169 1/1:32:0,32,0:0:0:32,0:1139,0:-102.802,-9.63296,0,-102.802,-9.63296,-102.802 chr11 25323642 . TTAA GTAT 14573 PASS AB=0.514793;ABP=3.97397;AC=31;AF=0.738095;AN=42;AO=724;CIGAR=1X2M1X;DP=975;DPB=975;DPRA=0;EPP=1575.16;EPPR=532.85;GTI=0;LEN=4;MEANALT=1.28571;MQM=59.6354;MQMR=59.668;NS=21;NUMALT=1;ODDS=7.39097;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25354;QR=8505;RO=244;RPL=0;RPP=1575.16;RPPR=532.85;RPR=724;RUN=1;SAF=0;SAP=1575.16;SAR=724;SRF=0;SRP=532.85;SRR=244;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:1,66:1:36:66:2308:-204.377,-16.9306,0 1/1:28:0,28:0:0:28:976:-88.1506,-8.42884,0 1/1:39:1,37:1:36:37:1281:-111.991,-8.19591,0 0/1:62:36,25:36:1252:25:882:-60.9753,0,-94.2572 0/1:123:58,65:58:2022:65:2269:-167.35,0,-144.991 0/1:49:27,22:27:927:22:771:-54.9575,0,-68.9882 1/1:66:0,66:0:0:66:2305:-207.702,-19.868,0 0/1:44:18,25:18:630:25:860:-64.5164,0,-43.8276 0/1:57:23,33:23:800:33:1167:-88.1329,0,-55.1177 0/1:6:3,3:3:102:3:108:-8.26899,0,-7.70899 0/1:7:4,3:4:141:3:106:-7.77344,0,-10.9297 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 1/1:71:0,71:0:0:71:2479:-223.354,-21.3731,0 0/1:44:22,21:22:769:21:746:-54.1584,0,-56.2259 1/1:60:0,60:0:0:60:2099:-189.172,-18.0618,0 1/1:37:0,37:0:0:37:1303:-117.563,-11.1381,0 1/1:31:0,31:0:0:31:1092:-98.537,-9.33193,0 0/1:70:34,36:34:1205:36:1262:-92.8058,0,-87.675 0/1:35:14,21:14:477:21:720:-54.58,0,-32.7167 1/1:35:0,35:0:0:35:1230:-110.998,-10.5361,0 1/1:32:0,32:0:0:32:1138:-102.718,-9.63296,0 chr11 25323680 . C T 3923.91 PASS AB=0.482;ABP=4.41741;AC=11;AF=0.261905;AN=42;AO=243;CIGAR=1X;DP=963;DPB=963;DPRA=1.04927;EPP=530.678;EPPR=1564.3;GTI=0;LEN=1;MEANALT=1.07692;MQM=59.5679;MQMR=59.7079;NS=21;NUMALT=1;ODDS=7.44816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8685;QR=25607;RO=719;RPL=243;RPP=530.678;RPPR=1564.3;RPR=0;RUN=1;SAF=0;SAP=530.678;SAR=243;SRF=0;SRP=1564.3;SRR=719;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:65,1:65:2321:1:21:0,-18.0217,-207.003 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0354 0/0:40:39,1:39:1385:1:36:0,-8.44292,-121.255 0/1:62:26,36:26:932:36:1296:-98.2777,0,-65.535 0/1:120:62,58:62:2163:58:2080:-150.713,0,-158.8 0/1:49:23,26:23:820:26:921:-68.4524,0,-59.3639 0/0:66:66,0:66:2323:0:0:0,-19.868,-209.309 0/1:42:24,18:24:852:18:648:-45.8784,0,-64.3571 0/1:57:34,23:34:1224:23:813:-56.3285,0,-93.2995 0/1:6:3,3:3:108:3:108:-8.26423,0,-8.26899 0/1:7:3,4:3:93:4:144:-11.2064,0,-6.56108 0/1:10:7,3:7:244:3:108:-7.06487,0,-19.2891 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.321 0/1:44:21,23:21:737:23:824:-61.2357,0,-53.403 0/0:59:59,0:59:2124:0:0:0,-17.7608,-191.422 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.426 0/0:29:29,0:29:1025:0:0:0,-8.72987,-92.5139 0/1:69:36,33:36:1296:33:1188:-86.4483,0,-96.1683 0/1:34:20,14:20:716:14:498:-34.9194,0,-54.5327 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.98 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.618 chr11 25326971 . T A 39945.4 PASS AB=0.483296;ABP=6.27476;AC=31;AF=0.738095;AN=42;AO=1911;CIGAR=1X;DP=2615;DPB=2615;DPRA=0;EPP=4152.69;EPPR=1529.56;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9069;MQMR=59.9872;NS=21;NUMALT=1;ODDS=16.2281;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=68425;QR=25151;RO=703;RPL=1911;RPP=4152.69;RPPR=1529.56;RPR=0;RUN=1;SAF=0;SAP=4152.69;SAR=1911;SRF=0;SRP=1529.56;SRR=703;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,136:0:0:136:4868:-438.186,-40.9401,0 1/1:113:0,113:0:0:113:4056:-364.742,-34.0164,0 1/1:85:0,85:0:0:85:3044:-274.19,-25.5876,0 0/1:213:99,114:99:3549:114:4084:-303.356,0,-255.497 0/1:287:141,146:141:5040:146:5210:-382.637,0,-367.351 0/1:167:87,80:87:3116:80:2857:-207.094,0,-230.395 1/1:173:0,173:0:0:173:6192:-557.378,-52.0782,0 0/1:129:85,44:85:3052:44:1565:-102.307,0,-236.071 0/1:212:98,114:98:3508:114:4088:-304.287,0,-252.112 0/1:15:5,10:5:180:10:360:-28.2255,0,-12.0366 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:45:28,17:28:1004:17:612:-41.8671,0,-77.1295 1/1:103:0,103:0:0:103:3688:-332.123,-31.0061,0 0/1:71:44,27:44:1576:27:968:-66.0642,0,-120.758 1/1:186:0,186:0:0:186:6680:-601.183,-55.9916,0 1/1:148:0,148:0:0:148:5305:-477.582,-44.5524,0 1/1:82:2,80:2:72:80:2864:-251.16,-17.8477,0 0/1:108:60,48:60:2126:48:1712:-121.854,0,-159.092 0/1:94:45,49:45:1608:49:1756:-130.027,0,-116.713 1/1:167:5,161:5:180:161:5768:-502.566,-33.7787,0 1/1:75:0,75:0:0:75:2676:-241.086,-22.5773,0 chr11 25460745 . G A 7385.17 PASS AB=0.447139;ABP=28.0338;AC=10;AF=0.238095;AN=42;AO=462;CIGAR=1X;DP=2450;DPB=2450;DPRA=0.817477;EPP=1006.23;EPPR=4315.55;GTI=1;LEN=1;MEANALT=1.18182;MQM=59.9978;MQMR=59.648;NS=21;NUMALT=1;ODDS=1.94708;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16472;QR=70918;RO=1986;RPL=462;RPP=1006.23;RPPR=4315.55;RPR=0;RUN=1;SAF=462;SAP=1006.23;SAR=0;SRF=1986;SRP=4315.55;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:106:106,0:106:3770:0:0:0,-31.9092,-337.459 0/0:98:98,0:98:3487:0:0:0,-29.5009,-314.04 0/0:90:90,0:90:3209:0:0:0,-27.0927,-288.012 0/1:165:91,74:91:3272:74:2636:-187.817,0,-236.873 0/0:299:299,0:299:10684:0:0:0,-90.008,-960.45 0/1:146:67,78:67:2372:78:2773:-205.801,0,-169.727 0/0:125:125,0:125:4443:0:0:0,-37.6287,-400.041 0/1:112:44,68:44:1584:68:2425:-184.789,0,-109.136 0/1:212:118,94:118:4221:94:3368:-239.517,0,-315.395 0/1:18:14,4:14:489:4:144:-7.89508,0,-38.9204 0/1:31:28,3:28:1004:3:108:-0.74324,0,-81.3439 0/1:82:53,29:53:1908:29:1025:-67.8762,0,-147.313 0/0:197:197,0:197:7015:0:0:0,-59.3029,-631.412 0/1:176:93,83:93:3336:83:2949:-212.662,0,-245.753 0/0:196:196,0:196:7006:0:0:0,-59.0019,-627.544 0/0:52:52,0:52:1855:0:0:0,-15.6536,-166.373 0/0:87:87,0:87:3115:0:0:0,-26.1896,-279.72 0/1:40:23,17:23:820:17:612:-43.3722,0,-62.0813 0/1:49:38,11:38:1359:11:396:-21.2323,0,-107.859 0/0:129:127,1:127:4548:1:36:0,-35.2934,-405.888 0/0:40:40,0:40:1421:0:0:0,-12.0412,-128.185 chr11 25460764 . C T 7529.1 PASS AB=0.454898;ABP=21.2267;AC=10;AF=0.238095;AN=42;AO=470;CIGAR=1X;DP=2404;DPB=2404;DPRA=0.83648;EPP=1023.6;EPPR=4198.29;GTI=1;LEN=1;MEANALT=1.09091;MQM=59.9936;MQMR=59.6589;NS=21;NUMALT=1;ODDS=4.08843;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16695;QR=67826;RO=1932;RPL=470;RPP=1023.6;RPPR=4198.29;RPR=0;RUN=1;SAF=470;SAP=1023.6;SAR=0;SRF=1932;SRP=4198.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:101:101,0:101:3587:0:0:0,-30.404,-320.997 0/0:98:98,0:98:3475:0:0:0,-29.5009,-312.964 0/0:85:85,0:85:2931:0:0:0,-25.5875,-263.004 0/1:166:91,74:91:3170:74:2614:-185.478,0,-228.306 0/0:294:294,0:294:10362:0:0:0,-88.5028,-930.483 0/1:149:68,81:68:2360:81:2895:-215.932,0,-167.803 0/0:123:123,0:123:4208:0:0:0,-37.0267,-378.906 0/1:112:45,67:45:1571:67:2400:-182.541,0,-107.962 0/1:207:110,97:110:3852:97:3414:-245.158,0,-283.71 0/1:17:13,4:13:468:4:140:-7.82707,0,-37.3421 0/1:35:31,4:31:1082:4:129:-1.39161,0,-87.1512 0/1:81:52,29:52:1830:29:1040:-69.5309,0,-140.596 0/0:192:191,0:191:6752:0:0:0,-57.4967,-607.397 0/1:171:88,83:88:3075:83:2972:-216.237,0,-225.505 0/0:187:187,0:187:6610:0:0:0,-56.2926,-591.93 0/0:50:50,0:50:1754:0:0:0,-15.0515,-157.286 0/0:85:85,0:85:3002:0:0:0,-25.5875,-269.555 0/1:41:24,17:24:841:17:608:-42.7098,0,-63.6641 0/1:52:39,13:39:1379:13:451:-25.2663,0,-108.754 0/0:121:120,1:120:4209:1:32:0,-33.2253,-375.793 0/0:37:37,0:37:1308:0:0:0,-11.1381,-118.022 chr11 25461012 . G A 1886.09 PASS AB=0.299625;ABP=189.236;AC=15;AF=0.357143;AN=42;AO=177;CIGAR=1X;DP=763;DPB=763;DPRA=0;EPP=387.361;EPPR=1240.99;GTI=4;LEN=1;MEANALT=1;MQM=59.9944;MQMR=60;NS=21;NUMALT=1;ODDS=2.12891;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6337;QR=20898;RO=586;RPL=177;RPP=387.361;RPPR=1240.99;RPR=0;RUN=1;SAF=177;SAP=387.361;SAR=0;SRF=586;SRP=1275.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:36,3:36:1274:3:108:0,-1.665,-104.886 0/1:28:25,3:25:900:3:108:-1.64633,0,-72.8922 0/1:47:39,8:39:1404:8:284:-11.7549,0,-112.511 0/1:61:39,22:39:1404:22:788:-52.882,0,-108.296 0/0:82:75,7:75:2679:7:252:0,-1.6555,-218.326 0/1:38:29,9:29:1023:9:324:-18.0667,0,-80.9426 0/1:63:48,15:48:1703:15:540:-29.9716,0,-134.59 0/1:26:22,4:22:768:4:140:-5.1178,0,-61.6136 0/1:35:30,5:30:1065:5:180:-6.01602,0,-85.6237 0/1:29:3,26:3:108:26:917:-74.1143,0,-1.3453 0/1:10:4,6:4:144:6:216:-16.7802,0,-10.3033 0/1:9:5,4:5:176:4:144:-10.6043,0,-13.4757 0/1:68:45,23:45:1593:23:828:-54.3741,0,-123.188 0/1:42:30,12:30:1080:12:432:-26.5779,0,-84.87 0/0:26:24,2:24:856:2:72:0,-0.990057,-70.5244 0/0:20:19,1:19:669:1:36:0,-2.42232,-56.9357 0/1:36:26,10:26:936:10:360:-21.9072,0,-73.7224 0/1:18:9,9:9:316:9:320:-23.7238,0,-23.3603 0/1:24:20,4:20:716:4:144:-6.0889,0,-57.543 0/0:34:32,2:32:1152:2:72:0,-3.3983,-97.1534 0/0:28:26,2:26:932:2:72:0,-1.59212,-77.3621 chr11 25461017 . T C 10996.9 PASS AB=0.70305;ABP=226.114;AC=26;AF=0.619048;AN=42;AO=577;CIGAR=1X;DP=772;DPB=772;DPRA=0;EPP=1255.95;EPPR=426.447;GTI=3;LEN=1;MEANALT=1;MQM=60;MQMR=59.9949;NS=21;NUMALT=1;ODDS=2.21219;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20552;QR=7012;RO=195;RPL=577;RPP=1255.95;RPPR=426.447;RPR=0;RUN=1;SAF=577;SAP=1255.95;SAR=0;SRF=195;SRP=426.447;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:3,37:3:108:37:1319:-108.936,-1.96603,0 0/1:28:6,22:6:216:22:780:-62.0942,0,-11.3617 0/1:48:8,40:8:288:40:1432:-114.728,0,-11.818 0/1:59:25,34:25:900:34:1216:-91.9858,0,-63.5602 0/1:87:8,79:8:288:79:2831:-228.838,0,-0.0777969 0/1:38:10,28:10:360:28:976:-76.7105,0,-21.3052 0/1:63:16,47:16:576:47:1688:-133.242,0,-33.2101 0/1:26:5,21:5:180:21:747:-59.7275,0,-8.72528 0/1:35:5,30:5:180:30:1076:-86.6168,0,-6.01601 0/1:29:26,3:26:936:3:108:-1.3453,0,-75.8292 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:69:26,43:26:932:43:1540:-118.122,0,-63.4278 0/1:44:14,30:14:504:30:1051:-81.6521,0,-32.4528 1/1:27:2,25:2:72:25:873:-72.0478,-1.29109,0 1/1:20:1,19:1:32:19:669:-57.3346,-2.82129,0 0/1:37:9,28:9:324:28:995:-78.7259,0,-18.3677 0/1:18:11,7:11:396:7:252:-17.6104,0,-30.5642 0/1:24:4,20:4:144:20:703:-56.3688,0,-6.0889 1/1:34:2,32:2:72:32:1152:-97.1534,-3.3983,0 1/1:28:2,26:2:72:26:928:-77.0015,-1.59212,0 chr11 25461224 . CAAT TAAC,CAAC 15577.8 PASS AB=0.289246,0.70581;ABP=315.125,300.652;AC=22,20;AF=0.52381,0.47619;AN=42;AO=261,573;CIGAR=1X2M1X,3M1X;DP=838;DPB=838;DPRA=0,0;EPP=569.765,1247.26;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.19048,2.19048;MQM=43.8736,59.9965;MQMR=0;NS=21;NUMALT=2;ODDS=5.64928;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=9132,20479;QR=0;RO=0;RPL=261,573;RPP=569.765,1247.26;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=569.765,1247.26;SAR=261,573;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:56:0,15,40:0:0:15,40:508,1423:-155.351,-116.073,-111.557,-39.3554,0,-27.3142 1/2:27:0,4,23:0:0:4,23:138,824:-76.7217,-67.5596,-66.3555,-9.46068,0,-2.53699 1/2:43:0,7,36:0:0:7,36:247,1292:-124.261,-105.747,-103.639,-18.8466,0,-8.00957 1/2:24:0,6,18:0:0:6,18:206,648:-67.9087,-53.2333,-51.4272,-14.9944,0,-9.5759 1/2:73:0,12,61:0:0:12,61:428,2192:-213.358,-179.183,-175.57,-34.5267,0,-16.1639 1/2:24:0,6,18:0:0:6,18:201,648:-69.0223,-53.2333,-51.4272,-16.1234,0,-10.7049 1/2:61:0,28,32:0:0:28,32:985,1144:-170.775,-93.4027,-84.9739,-77.4853,0,-67.8524 1/2:28:0,13,15:0:0:13,15:452,540:-75.3986,-44.4211,-40.5077,-31.3044,0,-26.789 1/2:51:0,30,21:0:0:30,21:1044,756:-139.426,-62.0456,-53.0147,-77.724,0,-71.4024 1/1:29:0,27,2:0:0:27,2:952,72:-83.1795,-8.12781,0,-77.3035,-1.89315,-76.7014 1/2:17:0,13,4:0:0:13,4:451,144:-47.1561,-12.1086,-8.19518,-35.4011,0,-34.1969 1/2:20:0,10,10:0:0:10,10:352,356:-55.5244,-29.3709,-26.3606,-26.4935,0,-23.4832 1/2:43:0,21,22:0:0:21,22:728,773:-119.447,-63.2668,-56.9452,-56.5207,0,-49.898 1/2:45:0,12,33:0:0:12,33:430,1161:-128.221,-94.8607,-91.2484,-33.7055,0,-23.7715 1/2:80:0,18,61:0:0:18,61:645,2177:-218.838,-177.55,-172.132,-41.3112,0,-22.9483 1/2:35:0,6,29:0:0:6,29:205,1040:-97.4192,-85.1845,-83.3783,-12.5119,0,-3.78202 1/2:35:0,8,27:0:0:8,27:274,968:-101.167,-79.3096,-76.9013,-22.1998,0,-14.0719 1/2:34:0,5,28:0:0:5,28:173,1004:-95.0949,-81.9011,-80.396,-13.1827,0,-4.7539 1/2:33:0,6,27:0:0:6,27:215,964:-95.5699,-78.949,-77.1428,-16.965,0,-8.83719 1/2:44:0,7,37:0:0:7,37:246,1309:-125.92,-106.971,-104.864,-19.2861,0,-8.14803 1/2:36:0,7,29:0:0:7,29:252,1044:-99.9771,-85.5449,-83.4377,-14.7138,0,-5.98395 chr11 25522971 . T C 37544 PASS AB=0.528628;ABP=8.35657;AC=31;AF=0.738095;AN=42;AO=1407;CIGAR=1X;DP=1777;DPB=1777;DPRA=22.1625;EPP=101.798;EPPR=31.0276;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9723;MQMR=60;NS=21;NUMALT=1;ODDS=14.2332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49667;QR=13036;RO=369;RPL=1404;RPP=3032.27;RPPR=804.284;RPR=3;RUN=1;SAF=574;SAP=106.539;SAR=833;SRF=150;SRP=31.0276;SRR=219;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:116:2,114:2:72:114:4021:-355.243,-28.0828,0 1/1:80:0,80:0:0:80:2828:-254.759,-24.0824,0 1/1:60:0,60:0:0:60:2117:-190.785,-18.0618,0 0/1:71:35,36:35:1214:36:1253:-91.6967,0,-88.186 1/1:139:1,138:1:36:138:4910:-438.455,-38.2449,0 0/1:61:27,34:27:941:34:1207:-90.5724,0,-66.6389 1/1:127:0,127:0:0:127:4444:-400.134,-38.2308,0 0/1:95:52,43:52:1841:43:1511:-107.682,0,-137.371 0/1:126:57,69:57:2024:69:2449:-182.734,0,-144.503 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:8:4,4:4:140:4:136:-10.1673,0,-10.5363 0/1:28:14,14:14:496:14:504:-37.2693,0,-36.5454 1/1:83:2,81:2:72:81:2860:-250.798,-18.1488,0 0/1:94:44,50:44:1559:50:1760:-130.386,0,-112.304 1/1:146:1,145:1:36:145:5128:-458.066,-40.3521,0 1/1:61:0,61:0:0:61:2175:-196.016,-18.3628,0 1/1:45:0,45:0:0:45:1599:-143.829,-13.5464,0 0/1:139:72,67:72:2517:67:2366:-171.355,0,-184.937 0/1:129:49,80:49:1764:80:2812:-214.487,0,-120.211 1/1:44:2,42:2:72:42:1468:-125.576,-6.4086,0 1/1:121:3,117:3:108:117:4119:-360.832,-26.3711,0 chr11 25536980 . G A 45556.4 PASS AB=0.548964;ABP=25.1258;AC=32;AF=0.761905;AN=42;AO=2143;CIGAR=1X;DP=2632;DPB=2632;DPRA=0;EPP=4656.48;EPPR=1064.86;GTI=1;LEN=1;MEANALT=1;MQM=59.9519;MQMR=59.9243;NS=21;NUMALT=1;ODDS=0.634707;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76214;QR=17207;RO=489;RPL=0;RPP=4656.48;RPPR=1064.86;RPR=2143;RUN=1;SAF=0;SAP=4656.48;SAR=2143;SRF=0;SRP=1064.86;SRR=489;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:185:1,184:1:36:184:6515:-582.838,-52.0923,0 1/1:116:0,116:0:0:116:4117:-370.715,-34.9195,0 1/1:138:1,137:1:36:137:4870:-434.855,-37.9439,0 0/1:156:75,81:75:2644:81:2879:-212.38,0,-191.245 1/1:288:6,282:6:216:282:10016:-881.584,-66.9061,0 0/1:162:85,77:85:2943:77:2748:-198.796,0,-216.336 1/1:125:0,125:0:0:125:4460:-401.291,-37.6288,0 0/1:150:76,74:76:2705:74:2617:-190.62,0,-198.53 0/1:218:96,122:96:3384:122:4374:-328.208,0,-239.066 0/1:14:7,7:7:239:7:252:-18.8099,0,-17.6283 0/1:16:5,11:5:180:11:396:-31.1663,0,-11.7356 0/1:46:13,33:13:464:33:1179:-92.5698,0,-28.2501 1/1:131:1,130:1:36:130:4638:-413.982,-35.8367,0 0/1:155:68,87:68:2399:87:3049:-227.98,0,-169.503 1/1:248:0,248:0:0:248:8831:-794.763,-74.6554,0 1/1:65:0,65:0:0:65:2299:-207.169,-19.567,0 1/1:107:0,107:0:0:107:3795:-341.748,-32.2102,0 0/1:81:35,46:35:1221:46:1629:-122.513,0,-85.8068 0/1:64:19,45:19:668:45:1610:-125.924,0,-41.1797 1/1:127:1,126:1:36:126:4523:-403.637,-34.6325,0 1/1:40:0,40:0:0:40:1417:-127.825,-12.0412,0 chr11 25536995 . ACCA GCCA,GCCG 55398.9 PASS AB=0.542293,0.452068;ABP=19.5412,24.2434;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2118,491;CIGAR=1X3M,1X2M1X;DP=2624;DPB=2624;DPRA=0,1.07003;EPP=4602.19,1060.54;EPPR=9.52472;GTI=0;LEN=1,4;MEANALT=2.28571,2.6;MQM=59.95,59.9308;MQMR=60;NS=21;NUMALT=2;ODDS=0.0901089;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=74655,17186;QR=100;RO=3;RPL=0,1;RPP=4602.19,1060.54;RPPR=9.52472;RPR=2118,490;RUN=1,1;SAF=0,0;SAP=4602.19,1069.2;SAR=2118,491;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:188:0,187,1:0:0:187,1:6616,36:-595.164,-56.2926,0,-592.226,-52.9954,-591.925 1/1:112:0,111,1:0:0:111,1:3900,36:-350.836,-33.4143,0,-347.899,-30.1171,-347.598 1/1:134:0,134,0:0:0:134,0:4731,0:-425.953,-40.338,0,-425.953,-40.338,-425.953 1/2:158:0,82,75:0:0:82,75:2881,2639:-449.367,-214.93,-190.246,-234.537,0,-211.959 1/1:283:2,274,6:2:64:274,6:9688,209:-865.696,-77.3327,0,-849.302,-65.4761,-852.652 1/2:163:0,75,87:0:0:75,87:2667,3016:-462.571,-245.223,-222.646,-217.437,0,-191.248 1/1:125:0,124,0:0:0:124,0:4334,0:-389.92,-37.3277,0,-389.92,-37.3277,-389.92 1/2:152:0,76,75:0:0:76,75:2695,2630:-433.628,-214.071,-191.193,-219.608,0,-197.031 1/2:218:0,121,96:0:0:121,96:4305,3330:-621.504,-270.652,-234.228,-350.843,0,-321.944 1/2:15:0,6,8:0:0:6,8:212,277:-39.8511,-22.5795,-20.7733,-17.3368,0,-14.9286 1/2:16:0,11,5:0:0:11,5:380,179:-45.822,-14.9552,-11.6439,-31.2206,0,-29.7155 1/2:45:0,31,14:0:0:31,14:1099,502:-130.833,-41.3029,-31.971,-89.8875,0,-85.6731 1/1:133:1,131,1:1:36:131,1:4626,36:-412.906,-36.4975,0,-410.27,-36.4975,-412.906 1/2:152:0,84,67:0:0:84,67:2976,2380:-436.469,-194.037,-168.75,-242.534,0,-222.365 1/1:245:0,244,0:0:0:244,0:8595,0:-773.286,-73.4513,0,-773.286,-73.4513,-773.286 1/1:67:0,66,0:0:0:66,0:2329,0:-209.508,-19.868,0,-209.508,-19.868,-209.508 1/1:105:0,105,0:0:0:105,0:3685,0:-331.852,-31.6082,0,-331.852,-31.6082,-331.852 1/2:81:0,46,35:0:0:46,35:1603,1212:-229.209,-98.845,-84.9976,-130.711,0,-120.175 1/2:64:0,45,19:0:0:45,19:1562,668:-181.696,-54.7262,-41.1799,-127.32,0,-121.6 1/1:130:0,127,1:0:0:127,1:4454,36:-400.7,-38.2308,0,-397.763,-35.2801,-397.462 1/1:38:0,38,0:0:0:38,0:1317,0:-118.826,-11.4391,0,-118.826,-11.4391,-118.826 chr11 25689566 . G A 4689.38 PASS AB=0.490694;ABP=3.45488;AC=10;AF=0.238095;AN=42;AO=293;CIGAR=1X;DP=1701;DPB=1701;DPRA=0.60605;EPP=630.595;EPPR=3032.27;GTI=1;LEN=1;MEANALT=1;MQM=59.901;MQMR=59.71;NS=21;NUMALT=1;ODDS=1.13659;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10414;QR=50258;RO=1407;RPL=1;RPP=630.595;RPPR=3032.27;RPR=292;RUN=1;SAF=293;SAP=639.252;SAR=0;SRF=1407;SRP=3058.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:103:102,0:102:3648:0:0:0,-30.7051,-328.057 0/0:97:97,0:97:3483:0:0:0,-29.1999,-313.635 0/0:92:92,0:92:3308:0:0:0,-27.6948,-297.911 0/1:113:64,49:64:2300:49:1730:-121.967,0,-173.171 0/0:236:236,0:236:8410:0:0:0,-71.0431,-756.783 0/1:91:50,41:50:1800:41:1460:-104.302,0,-134.888 0/0:120:119,1:119:4241:1:36:0,-32.5253,-378.251 0/1:39:20,19:20:712:19:672:-49.0551,0,-52.6609 0/1:131:68,63:68:2406:63:2256:-163.868,0,-177.334 0/1:10:5,5:5:180:5:176:-13.1747,0,-13.5414 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:25:9,16:9:324:16:568:-43.9261,0,-21.9658 0/0:78:78,0:78:2796:0:0:0,-23.4803,-251.875 0/1:115:52,63:52:1856:63:2224:-165.796,0,-132.681 0/0:117:117,0:117:4139:0:0:0,-35.2205,-372.627 0/0:55:54,1:54:1917:1:36:0,-12.9584,-169.205 0/0:108:108,0:108:3869:0:0:0,-32.5112,-348.382 0/1:35:13,22:13:464:22:788:-60.7087,0,-31.5615 0/1:27:18,9:18:648:9:324:-21.378,0,-50.4887 0/0:78:77,1:77:2753:1:36:0,-19.8821,-244.384 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1882 chr11 25689590 . AGG AA 30118.4 PASS AB=0.499148;ABP=3.014;AC=32;AF=0.761905;AN=42;AO=1386;CIGAR=1M1D1X;DP=1685;DPB=1219.33;DPRA=0;EPP=3012.67;EPPR=621.88;GTI=1;LEN=2;MEANALT=1.38095;MQM=59.6833;MQMR=59.9544;NS=21;NUMALT=1;ODDS=1.32159;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=49666;QR=10071;RO=285;RPL=1386;RPP=3012.67;RPPR=621.88;RPR=0;RUN=1;SAF=1386;SAP=3012.67;SAR=0;SRF=285;SRP=621.88;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:101:0,101:0:0:101:3628:-326.652,-30.404,0 1/1:95:0,95:0:0:95:3397:-305.898,-28.5979,0 1/1:89:0,89:0:0:89:3188:-287.039,-26.7917,0 0/1:113:49,63:49:1699:63:2264:-169.874,0,-119.118 1/1:235:0,235:0:0:235:8402:-756.061,-70.7421,0 0/1:88:38,47:38:1345:47:1692:-126.66,0,-95.4429 1/1:120:1,119:1:36:119:4253:-379.315,-32.5253,0 0/1:40:20,20:20:708:20:720:-53.0738,0,-51.9994 0/1:130:61,66:61:2168:66:2376:-175.523,0,-156.836 0/1:10:5,5:5:180:5:180:-13.5414,0,-13.5418 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:24:15,8:15:540:8:288:-18.9696,0,-41.653 1/1:77:0,77:0:0:77:2764:-248.996,-23.1793,0 0/1:114:61,50:61:2150:50:1796:-128.187,0,-160.053 1/1:117:0,116:0:0:116:4163:-374.415,-34.9195,0 1/1:54:1,53:1:36:53:1885:-166.259,-12.6573,0 1/1:109:0,108:0:0:108:3861:-347.306,-32.5112,0 0/1:35:21,13:21:754:13:468:-31.9204,0,-57.6492 0/1:28:9,19:9:311:19:669:-52.0698,0,-19.8951 1/1:76:1,75:1:36:75:2700:-239.572,-19.28,0 1/1:25:0,25:0:0:25:900:-81.3104,-7.52575,0 chr11 25692625 . CTTGTGA CTTTGTGA,TTTGTGA 171072 PASS AB=0.433002,0.560794;ABP=34.4347,28.8848;AC=37,5;AF=0.880952,0.119048;AN=42;AO=6094,510;CIGAR=1M1I6M,1X6M;DP=6647;DPB=7523.14;DPRA=0,2.7906;EPP=4797.15,903.958;EPPR=3.0103;GTI=1;LEN=1,1;MEANALT=3.42857,3.55;MQM=59.9171,59.6137;MQMR=60;NS=21;NUMALT=2;ODDS=71.923;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=211851,18005;QR=70;RO=2;RPL=78,1;RPP=12567.1,1101.79;RPPR=7.35324;RPR=6016,509;RUN=1,1;SAF=4959,26;SAP=5213.61,896.141;SAR=1135,484;SRF=1;SRP=3.0103;SRR=1;TYPE=ins,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:237:0,235,2:0:0:235,2:8231,58:-740.534,-70.7421,0,-735.955,-65.8748,-735.353 1/2:196:0,73,123:0:0:73,123:2530,4393:-564.102,-358.516,-336.54,-205.937,0,-168.911 1/1:107:0,105,1:0:0:105,1:3656,25:-328.946,-31.6082,0,-327.01,-29.7269,-326.709 1/1:187:0,183,4:0:0:183,4:6464,144:-581.495,-55.0885,0,-569.745,-42.979,-568.541 1/1:295:0,290,4:0:0:290,4:10170,132:-914.938,-87.2987,0,-904.266,-76.5467,-903.062 1/2:110:0,27,83:0:0:27,83:929,2959:-316.993,-241.558,-233.43,-75.7817,0,-50.7962 1/2:295:0,131,162:0:0:131,162:4534,5816:-842.881,-474.429,-434.994,-368.448,0,-319.682 1/1:106:0,100,6:0:0:100,6:3465,212:-311.717,-30.103,0,-294.451,-12.4844,-292.645 1/1:210:0,209,1:0:0:209,1:7328,25:-659.333,-62.9153,0,-657.384,-60.7164,-657.083 1/1:1071:0,1058,10:0:0:1058,10:36518,271:-3284.98,-318.49,0,-3263.73,-297.29,-3260.72 1/1:754:0,735,11:0:0:735,11:25392,373:-2284.34,-221.257,0,-2254.14,-191.035,-2250.83 1/1:694:0,683,4:0:0:683,4:23792,120:-2140.41,-205.603,0,-2130.81,-196.018,-2129.61 1/1:195:0,192,2:0:0:192,2:6782,64:-610.122,-57.7978,0,-604.966,-52.6677,-604.364 1/1:129:0,127,1:0:0:127,1:4429,36:-398.448,-38.2308,0,-395.51,-35.2734,-395.209 1/1:209:0,204,2:0:0:204,2:7147,72:-642.784,-61.4101,0,-636.909,-55.5353,-636.307 1/1:144:0,142,1:0:0:142,1:5008,25:-450.637,-42.7463,0,-448.689,-40.7823,-448.388 1/1:117:0,117,0:0:0:117,0:4037,0:-363.524,-35.2205,0,-363.524,-35.2205,-363.524 1/1:1220:1,1201,8:1:34:1201,8:41655,232:-3743.91,-358.777,0,-3725.75,-343.088,-3726.1 1/1:166:1,164,1:1:36:164,1:5743,32:-513.421,-46.4116,0,-511.144,-46.8105,-513.78 1/2:78:0,67,8:0:0:67,8:2303,284:-210.144,-23.156,-2.98698,-187.003,0,-184.594 1/2:127:0,51,76:0:0:51,76:1738,2732:-364.241,-223.244,-207.891,-141.345,0,-118.467 chr11 25692642 . C G 123542 PASS AB=0.516018;ABP=14.6975;AC=32;AF=0.761905;AN=42;AO=4971;CIGAR=1X;DP=7533;DPB=7533;DPRA=0;EPP=10797.4;EPPR=5548.95;GTI=1;LEN=1;MEANALT=1.2381;MQM=59.8729;MQMR=59.8336;NS=21;NUMALT=1;ODDS=10.9366;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=176367;QR=90863;RO=2554;RPL=3357;RPP=1330.12;RPPR=3065.86;RPR=1614;RUN=1;SAF=3357;SAP=1330.12;SAR=1614;SRF=2226;SRP=3065.86;SRR=328;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:258:2,256:2:72:256:9000:-803.15,-70.829,0 1/1:207:3,202:3:108:202:7150:-633.449,-51.9838,0 1/1:118:2,116:2:72:116:4126:-364.689,-28.6848,0 0/1:199:92,107:92:3267:107:3790:-281.393,0,-234.347 1/1:317:1,316:1:36:316:11134:-998.354,-91.8282,0 0/1:111:64,47:64:2288:47:1644:-114.825,0,-172.766 1/1:310:1,308:1:36:308:10876:-975.147,-89.7798,0 0/1:169:99,70:99:3506:70:2472:-171.858,0,-264.876 0/1:225:101,124:101:3596:124:4374:-326.101,0,-256.114 0/1:1210:638,572:638:22684:572:20399:-1470.92,0,-1674.81 0/1:834:338,496:338:12047:496:17683:-1338.78,0,-832.891 0/1:789:404,385:404:14374:385:13751:-998.77,0,-1055.9 1/1:206:1,204:1:36:204:7231:-647.245,-58.4727,0 0/1:145:64,81:64:2283:81:2864:-214.348,0,-162.077 1/1:221:3,218:3:108:218:7702:-682.987,-56.4525,0 1/1:147:1,146:1:36:146:5189:-463.547,-40.6531,0 1/1:122:1,121:1:36:121:4280:-381.782,-33.1274,0 0/1:1383:678,701:678:24112:701:24934:-1827.71,0,-1753.76 0/1:179:56,123:56:1986:123:4374:-339.951,0,-125.129 1/1:250:3,247:3:108:247:8755:-777.823,-65.1823,0 1/1:133:2,131:2:72:131:4639:-410.838,-33.2003,0 chr11 25692647 . A G 48531.6 PASS AB=0.475916;ABP=29.2634;AC=10;AF=0.238095;AN=42;AO=2502;CIGAR=1X;DP=7539;DPB=7539;DPRA=0;EPP=5436.03;EPPR=10936.4;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.8485;MQMR=59.8544;NS=21;NUMALT=1;ODDS=3.1415;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=88703;QR=180192;RO=5035;RPL=2163;RPP=2890.47;RPPR=1274.45;RPR=339;RUN=1;SAF=2163;SAP=2890.47;SAR=339;SRF=3376;SRP=1274.45;SRR=1659;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:262:260,2:260:9318:2:72:0,-72.0331,-831.254 0/0:206:203,3:203:7263:3:108:0,-51.937,-643.602 0/0:119:117,2:117:4196:2:72:0,-28.9858,-370.854 0/1:203:110,93:110:3931:93:3309:-236.919,0,-292.873 0/0:321:320,1:320:11458:1:36:0,-93.0323,-1027.47 0/1:111:47,63:47:1679:63:2217:-166.318,0,-117.913 0/0:317:316,1:316:11311:1:36:0,-91.8282,-1013.21 0/1:167:69,98:69:2476:98:3491:-264.13,0,-172.821 0/1:227:127,100:127:4560:100:3538:-250.295,0,-342.216 0/1:1200:576,624:576:20573:624:22195:-1635.56,0,-1489.48 0/1:826:490,336:490:17537:336:11905:-822.319,0,-1327.8 0/1:785:394,391:394:14122:391:13875:-1012.22,0,-1033.72 0/0:210:209,1:209:7473:1:36:0,-59.618,-669.006 0/1:142:77,64:77:2751:64:2287:-163.281,0,-205.027 0/0:222:219,3:219:7837:3:108:0,-56.7535,-695.281 0/0:150:149,1:149:5333:1:36:0,-41.5562,-476.458 0/0:126:124,2:124:4452:2:63:0,-31.9466,-394.549 0/1:1372:717,655:717:25627:655:23130:-1667.99,0,-1891.81 0/1:178:122,56:122:4365:56:1973:-124.26,0,-339.439 0/0:260:256,4:256:9150:4:144:0,-64.9542,-810.051 0/0:135:133,2:133:4780:2:72:0,-33.8023,-423.518 chr11 25708335 . ATAATAGA GTATTAGG,GTAATAGG 67992.5 PASS AB=0.469771,0.525327;ABP=12.7252,9.82986;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2394,655;CIGAR=1X2M1X3M1X,1X6M1X;DP=3064;DPB=4089.88;DPRA=0,0.988451;EPP=5201.52,1425.32;EPPR=5.18177;GTI=1;LEN=8,8;MEANALT=2.42857,2.75;MQM=59.6491,59.7603;MQMR=60;NS=21;NUMALT=2;ODDS=5.14858;PAIRED=0,0;PAIREDR=0;PAO=2214,325;PQA=77006,11223;PQR=0;PRO=2;QA=84295,22991;QR=36;RO=1;RPL=0,172;RPP=5201.52,323.662;RPPR=5.18177;RPR=2394,483;RUN=1,1;SAF=0,172;SAP=5201.52,323.662;SAR=2394,483;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:0,127,1:0:0:127,1:4460,32:-401.214,-38.2308,0,-398.639,-35.6559,-398.338 1/1:97:0,96,0:0:0:96,0:3378,0:-303.921,-28.8989,0,-303.921,-28.8989,-303.921 1/1:130:0,130,0:0:0:130,0:4595,0:-413.331,-39.1339,0,-413.331,-39.1339,-413.331 1/2:139:0,67,71:0:0:67,71:2360,2489:-394.629,-202.502,-182.333,-192.115,0,-170.742 1/1:324:0,319,4:0:0:319,4:11188,144:-1006.4,-96.0286,0,-994.656,-84.2869,-993.452 1/2:142:0,73,68:0:0:73,68:2566,2410:-401.603,-192.87,-170.895,-205.369,0,-184.899 1/1:222:0,222,0:0:0:222,0:7849,0:-706.317,-66.8287,0,-706.317,-66.8287,-706.317 1/2:92:0,45,46:0:0:45,46:1575,1635:-261.323,-133.196,-119.65,-128.122,0,-114.275 1/2:434:0,148,285:0:0:148,285:5219,9936:-1232.95,-808.012,-763.46,-424.898,0,-339.104 1/2:24:0,13,11:0:0:13,11:465,388:-69.4274,-31.5218,-27.6084,-37.8491,0,-34.5378 1/2:5:0,4,1:0:0:4,1:144,36:-14.9025,-3.29724,-2.09312,-11.9741,0,-11.6731 1/2:42:0,15,27:0:0:15,27:537,959:-121.903,-78.1151,-73.5996,-43.7766,0,-35.6488 1/1:169:0,168,0:0:0:168,0:5916,0:-532.144,-50.573,0,-532.144,-50.573,-532.144 1/2:125:0,82,43:0:0:82,43:2866,1528:-357.147,-124.502,-99.818,-232.638,0,-219.694 1/1:307:0,303,1:0:0:303,1:10713,36:-963.587,-91.2121,0,-960.65,-88.2746,-960.349 1/1:127:0,125,1:0:0:125,1:4366,36:-392.715,-37.6288,0,-389.777,-34.6883,-389.476 1/1:118:0,118,0:0:0:118,0:4147,0:-373.105,-35.5215,0,-373.105,-35.5215,-373.105 1/2:122:0,70,51:0:0:70,51:2472,1761:-344.297,-143.014,-121.942,-201.257,0,-185.905 1/2:99:0,58,40:0:0:58,40:2048,1421:-282.536,-115.766,-98.3064,-166.764,0,-154.723 1/1:145:0,141,4:0:0:141,4:4941,144:-444.376,-42.4452,0,-432.626,-30.6953,-431.422 1/1:73:1,70,1:1:36:70,1:2490,36:-220.725,-18.1446,0,-218.097,-18.1532,-220.733 chr11 25708352 . G A 7882.59 PASS AB=0.464522;ABP=14.5661;AC=10;AF=0.238095;AN=42;AO=501;CIGAR=1X;DP=2857;DPB=2857;DPRA=0.954028;EPP=1090.92;EPPR=5097.3;GTI=1;LEN=1;MEANALT=1.06667;MQM=59.5928;MQMR=59.6716;NS=21;NUMALT=1;ODDS=20.3465;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17824;QR=83518;RO=2354;RPL=0;RPP=1090.92;RPPR=5097.3;RPR=501;RUN=1;SAF=0;SAP=1090.92;SAR=501;SRF=0;SRP=5114.66;SRR=2354;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:121,2:121:4272:2:72:0,-30.201,-377.82 0/0:94:94,0:94:3339:0:0:0,-28.2968,-300.701 0/0:127:127,0:127:4526:0:0:0,-38.2308,-407.479 0/1:142:65,77:65:2318:77:2740:-204.045,0,-166.129 0/0:315:313,2:313:11122:2:72:0,-87.9963,-993.951 0/1:140:70,70:70:2504:70:2509:-183.875,0,-183.24 0/0:219:219,0:219:7752:0:0:0,-65.9256,-697.698 0/1:94:46,48:46:1627:48:1697:-124.689,0,-118.406 0/1:264:149,115:149:5276:115:4093:-289.071,0,-395.444 0/1:23:12,11:12:432:11:391:-28.603,0,-32.2975 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/1:45:16,29:16:564:29:1031:-79.5517,0,-37.544 0/0:167:166,0:166:5913:0:0:0,-49.971,-531.818 0/1:123:78,45:78:2752:45:1594:-106.722,0,-210.89 0/0:304:302,1:302:10724:1:36:0,-87.9735,-961.293 0/0:125:125,0:125:4425:0:0:0,-37.6287,-397.704 0/0:112:112,0:112:3976:0:0:0,-33.7154,-358.024 0/1:120:67,53:67:2343:53:1873:-132.706,0,-174.993 0/1:101:59,42:59:2092:42:1500:-104.878,0,-158.141 0/0:142:138,4:138:4911:4:144:0,-29.4326,-428.675 0/0:72:71,1:71:2510:1:36:0,-18.0849,-222.543 chr11 25914227 . TGA TGG,GGG 29532.6 PASS AB=0.502924,0.497076;ABP=3.0484,3.0484;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1139,261;CIGAR=2M1X,1X1M1X;DP=1401;DPB=1401.33;DPRA=0,1.21034;EPP=2476.32,569.765;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.7619,2.06667;MQM=59.6155,46.5479;MQMR=0;NS=21;NUMALT=2;ODDS=7.93937;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=40039,8984;QR=0;RO=0;RPL=0,0;RPP=2476.32,569.765;RPPR=0;RPR=1139,261;RUN=1,1;SAF=0,0;SAP=2476.32,569.765;SAR=1139,261;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,58,1:0:0:58,1:2033,36:-182.864,-17.4597,0,-179.955,-14.194,-179.654 1/1:82:0,82,0:0:0:82,0:2876,0:-259.011,-24.6845,0,-259.011,-24.6845,-259.011 1/1:54:0,53,1:0:0:53,1:1854,27:-166.863,-15.9546,0,-164.739,-13.5599,-164.438 1/2:51:0,21,30:0:0:21,30:737,1003:-140.181,-80.2026,-73.8809,-60.3208,0,-51.2899 1/1:184:0,181,2:0:0:181,2:6402,72:-575.934,-54.4864,0,-570.116,-48.5969,-569.514 1/2:58:0,29,29:0:0:29,29:1031,996:-164.043,-80.0259,-71.2961,-84.3646,0,-75.6347 1/1:119:0,118,1:0:0:118,1:4164,36:-374.482,-35.5215,0,-371.562,-32.2438,-371.261 1/2:48:0,33,15:0:0:33,15:1171,528:-138.346,-42.9462,-33.0122,-95.6951,0,-91.1797 1/2:138:0,62,76:0:0:62,76:2174,2624:-387.448,-210.908,-192.244,-176.887,0,-154.008 1/2:5:0,4,1:0:0:4,1:129,36:-13.6456,-3.2724,-2.06828,-10.7235,0,-10.4225 1/2:7:0,2,5:0:0:2,5:72,176:-20.481,-14.6034,-14.0013,-6.23466,0,-4.72951 1/2:12:0,3,9:0:0:3,9:108,319:-34.9722,-26.158,-25.2549,-9.17208,0,-6.46281 1/1:97:0,97,0:0:0:97,0:3425,0:-308.447,-29.1999,0,-308.447,-29.1999,-308.447 1/2:48:0,23,25:0:0:23,25:778,841:-130.542,-67.4734,-60.5497,-63.4042,0,-55.8784 1/1:124:0,123,1:0:0:123,1:4304,36:-387.17,-37.0267,0,-384.232,-33.7294,-383.931 1/1:28:0,28,0:0:0:28,0:985,0:-88.9615,-8.42884,0,-88.9615,-8.42884,-88.9615 1/1:32:0,32,0:0:0:32,0:1099,0:-99.2107,-9.63296,0,-99.2107,-9.63296,-99.2107 1/2:73:0,33,40:0:0:33,40:1133,1392:-203.929,-111.945,-102.011,-92.3272,0,-80.286 1/2:73:0,48,25:0:0:48,25:1692,862:-206.361,-68.6111,-54.1616,-138.092,0,-130.566 1/1:73:0,73,0:0:0:73,0:2603,0:-234.255,-21.9752,0,-234.255,-21.9752,-234.255 1/1:36:0,36,0:0:0:36,0:1269,0:-114.498,-10.8371,0,-114.498,-10.8371,-114.498 chr11 25914269 . TAAA CAGA,CAGG 30594.5 PASS AB=0.490672,0.503731;ABP=3.41543,3.07512;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1171,277;CIGAR=1X1M1X1M,1X1M2X;DP=1456;DPB=1456;DPRA=0,0.994867;EPP=2545.8,604.508;EPPR=0;GTI=1;LEN=4,4;MEANALT=2,2.35714;MQM=59.5346,46.426;MQMR=0;NS=21;NUMALT=2;ODDS=7.36765;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41168,9634;QR=0;RO=0;RPL=1171,277;RPP=2545.8,604.508;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2545.8,604.508;SAR=1171,277;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:0,62,2:0:0:62,2:2172,65:-195.392,-18.6639,0,-190.177,-13.4588,-189.575 1/1:84:0,84,0:0:0:84,0:2944,0:-265.121,-25.2865,0,-265.121,-25.2865,-265.121 1/1:56:0,53,2:0:0:53,2:1872,72:-168.394,-15.9546,0,-162.576,-10.1385,-161.974 1/2:53:0,21,32:0:0:21,32:748,1134:-151.296,-90.3331,-84.0115,-61.3149,0,-51.682 1/1:190:0,188,2:0:0:188,2:6598,72:-593.458,-56.5936,0,-587.639,-50.4188,-587.037 1/2:59:0,29,30:0:0:29,30:1013,1015:-163.977,-81.576,-72.8461,-82.7424,0,-73.7115 1/1:122:0,121,1:0:0:121,1:4246,36:-381.904,-36.4246,0,-378.984,-33.1469,-378.683 1/2:51:0,35,16:0:0:35,16:1224,565:-145.548,-45.9819,-35.4458,-99.9159,0,-95.0994 1/2:145:0,65,80:0:0:65,80:2247,2787:-406.681,-224.135,-204.568,-182.89,0,-158.808 1/2:5:0,4,1:0:0:4,1:144,36:-15.0241,-3.2724,-2.06828,-12.1095,0,-11.8085 1/2:7:0,2,5:0:0:2,5:72,178:-20.6575,-14.7811,-14.179,-6.23466,0,-4.72951 1/2:13:0,3,10:0:0:3,10:100,348:-36.4783,-28.3875,-27.4844,-8.42677,0,-5.41647 1/1:98:0,96,0:0:0:96,0:3410,0:-306.752,-28.8989,0,-306.752,-28.8989,-306.752 1/2:51:0,23,27:0:0:23,27:811,922:-139.832,-73.7895,-66.8658,-66.1286,0,-58.0008 1/1:131:0,130,0:0:0:130,0:4597,0:-413.663,-39.1339,0,-413.663,-39.1339,-413.663 1/1:29:0,29,0:0:0:29,0:1028,0:-92.8319,-8.72987,0,-92.8319,-8.72987,-92.8319 1/1:33:0,33,0:0:0:33,0:1154,0:-104.164,-9.93399,0,-104.164,-9.93399,-104.164 1/2:78:0,33,43:0:0:33,43:1170,1500:-214.896,-119.588,-109.654,-95.2979,0,-82.3537 1/2:74:0,48,26:0:0:48,26:1675,904:-208.397,-72.1645,-57.7151,-136.576,0,-128.749 1/1:74:0,74,0:0:0:74,0:2602,0:-234.403,-22.2762,0,-234.403,-22.2762,-234.403 1/1:38:0,38,0:0:0:38,0:1341,0:-120.969,-11.4391,0,-120.969,-11.4391,-120.969 chr11 25917190 . C G 44238.1 PASS AB=0.47957;ABP=6.38192;AC=32;AF=0.761905;AN=42;AO=2079;CIGAR=1X;DP=2573;DPB=2573;DPRA=0;EPP=4517.5;EPPR=1075.72;GTI=1;LEN=1;MEANALT=1;MQM=52.0952;MQMR=60;NS=21;NUMALT=1;ODDS=3.36604;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73963;QR=17658;RO=494;RPL=0;RPP=4517.5;RPPR=1075.72;RPR=2079;RUN=1;SAF=2079;SAP=4517.5;SAR=0;SRF=494;SRP=1075.72;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:1,104:1:36:104:3744:-331.215,-28.0099,0 1/1:115:0,115:0:0:115:4056:-365.149,-34.6185,0 1/1:91:2,89:2:72:89:3185:-278.418,-20.557,0 0/1:131:71,60:71:2540:60:2111:-149.504,0,-189.416 1/1:332:2,330:2:72:330:11716:-1042.05,-93.1052,0 0/1:101:53,48:53:1900:48:1694:-122.321,0,-140.874 1/1:238:0,238:0:0:238:8446:-759.571,-71.6451,0 0/1:62:22,40:22:792:40:1405:-107.217,0,-52.9418 0/1:220:143,77:143:5127:77:2730:-177.399,0,-395.344 0/1:16:4,12:4:144:12:432:-34.1908,0,-8.49714 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:53:32,21:32:1135:21:741:-50.5464,0,-86.5035 1/1:184:0,184:0:0:184:6563:-586.904,-55.3895,0 0/1:113:65,48:65:2313:48:1720:-120.083,0,-174.413 1/1:144:0,144:0:0:144:5115:-457.588,-43.3483,0 1/1:101:0,101:0:0:101:3590:-321.121,-30.404,0 1/1:127:1,126:1:36:126:4492:-398.47,-34.6325,0 0/1:134:59,75:59:2099:75:2676:-198.943,0,-148.841 0/1:94:33,61:33:1176:61:2196:-168.545,0,-77.8509 1/1:112:4,108:4:144:108:3831:-329.867,-20.4017,0 1/1:94:0,94:0:0:94:3376:-303.772,-28.2968,0 chr11 25917243 . ATAAAATAAAAT GTAACATAAAG,ATAACATAAAG 45135.7 PASS AB=0.452459,0.537705;ABP=20.973,14.3091;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2131,500;CIGAR=1X3M1X2M1D3M1X,4M1X2M1D3M1X;DP=2660;DPB=2451.25;DPRA=0,0.684608;EPP=4630.42,1088.75;EPPR=0;GTI=0;LEN=12,11;MEANALT=3,3.2;MQM=31.1065,45.744;MQMR=0;NS=21;NUMALT=2;ODDS=6.31083;PAIRED=0,0;PAIREDR=0;PAO=0,74;PQA=0,54;PQR=54;PRO=74;QA=74738,17498;QR=0;RO=0;RPL=0,0;RPP=4630.42,1088.75;RPPR=0;RPR=2131,500;RUN=1,1;SAF=0,0;SAP=4630.42,1088.75;SAR=2131,500;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:186:0,181,1:0:0:181,1:6365,36:-487.047,-54.4864,0,-484.138,-51.5525,-483.837 1/1:141:0,136,0:0:0:136,0:4796,0:-363.303,-40.9401,0,-363.303,-40.9401,-363.303 1/1:104:0,101,1:0:0:101,1:3584,36:-269.965,-30.404,0,-267.056,-27.4735,-266.755 1/2:149:0,61,87:0:0:61,87:2117,3054:-385.651,-245.137,-226.774,-140.483,0,-114.293 1/1:265:0,265,0:0:0:265,0:9279,0:-705.028,-79.773,0,-705.028,-79.773,-705.028 1/2:75:0,42,32:0:0:42,32:1478,1128:-187.84,-89.314,-76.6708,-98.5287,0,-88.8957 1/1:210:0,205,2:0:0:205,2:7191,69:-550.989,-61.7112,0,-545.489,-56.1735,-544.887 1/2:148:0,58,90:0:0:58,90:2045,3111:-380.997,-248.817,-231.357,-132.488,0,-105.395 1/2:202:0,68,131:0:0:68,131:2399,4566:-528.766,-367.754,-347.284,-161.005,0,-121.571 1/2:13:0,6,6:0:0:6,6:216,207:-30.9801,-16.7022,-14.896,-14.3547,0,-12.5486 1/2:12:0,4,8:0:0:4,8:141,281:-32.4134,-22.7229,-21.5188,-10.0072,0,-7.59901 1/2:42:0,22,20:0:0:22,20:770,704:-106.885,-56.8456,-50.223,-50.3579,0,-44.3373 1/1:111:0,108,2:0:0:108,2:3791,71:-290.541,-32.5112,0,-284.87,-26.7595,-284.268 1/2:76:0,25,51:0:0:25,51:837,1821:-202.742,-146.99,-139.464,-55.9997,0,-40.6472 1/1:292:0,289,0:0:0:289,0:10185,0:-763.694,-86.9977,0,-763.694,-86.9977,-763.694 1/1:127:0,126,0:0:0:126,0:4451,0:-338.622,-37.9298,0,-338.622,-37.9298,-338.622 1/1:87:0,87,0:0:0:87,0:3043,0:-226.686,-26.1896,0,-226.686,-26.1896,-226.686 1/2:102:0,58,42:0:0:58,42:2041,1473:-250.881,-118.139,-100.68,-132.826,0,-120.182 1/2:96:0,70,25:0:0:70,25:2408,869:-230.073,-67.9812,-46.9091,-162.141,0,-154.615 1/1:153:0,150,2:0:0:150,2:5219,72:-391.95,-45.1545,0,-386.163,-39.2776,-385.561 1/1:69:0,69,0:0:0:69,0:2382,0:-183.455,-20.7711,0,-183.455,-20.7711,-183.455 chr11 25993942 . AAC GAC 26484 PASS AB=0.464809;ABP=10.3462;AC=33;AF=0.785714;AN=42;AO=1256;CIGAR=1X2M;DP=1627;DPB=1627;DPRA=0;EPP=2730.38;EPPR=791.278;GTI=1;LEN=1;MEANALT=1.09524;MQM=50.5939;MQMR=60;NS=21;NUMALT=1;ODDS=6.25692;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44741;QR=12996;RO=367;RPL=0;RPP=2730.38;RPPR=791.278;RPR=1256;RUN=1;SAF=1256;SAP=2730.38;SAR=0;SRF=367;SRP=799.941;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71:0:0:71:2523:-226.103,-21.3731,0 1/1:9:0,9:0:0:9:324:-29.4846,-2.70927,0 1/1:112:0,112:0:0:112:3960:-354.348,-33.7154,0 0/1:103:65,38:65:2277:38:1346:-89.7865,0,-174.183 1/1:135:0,135:0:0:135:4840:-433.089,-40.6391,0 0/1:71:45,26:45:1608:26:932:-62.5466,0,-123.637 1/1:124:1,123:1:36:123:4397:-391.338,-33.7294,0 0/1:64:25,39:25:879:39:1400:-106.536,0,-60.1604 0/1:172:87,85:87:3083:85:3024:-218.661,0,-225.921 1/1:5:0,5:0:0:5:180:-16.4978,-1.50515,0 0/1:5:2,3:2:72:3:108:-8.56275,0,-5.33157 0/1:19:11,8:11:391:8:284:-20.1041,0,-29.8097 1/1:151:0,151:0:0:151:5390:-482.123,-45.4555,0 0/1:142:79,63:79:2788:63:2233:-157.173,0,-208.415 1/1:137:0,136:0:0:136:4848:-434.055,-40.9401,0 1/1:25:1,24:1:36:24:852:-73.0279,-3.92748,0 1/1:27:0,24:0:0:24:843:-75.4795,-7.22472,0 0/1:52:36,16:36:1288:16:572:-35.8982,0,-100.569 0/1:54:15,39:15:538:39:1361:-105.439,0,-32.5002 1/1:105:0,105:0:0:105:3748:-335.339,-31.6082,0 1/1:44:0,44:0:0:44:1576:-142.006,-13.2453,0 chr11 25993954 . CCAA TCAG,TCAA 40710.5 PASS AB=0.476122,0.51809;ABP=6.43249,4.97437;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1290,360;CIGAR=1X2M1X,1X3M;DP=1656;DPB=1656.25;DPRA=0,0.942637;EPP=1080.33,767.465;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.71429,2.27273;MQM=50.5388,60;MQMR=0;NS=21;NUMALT=2;ODDS=8.04068;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=45527,12875;QR=0;RO=0;RPL=245,2;RPP=1080.33,767.465;RPPR=0;RPR=1045,358;RUN=1,1;SAF=1290,360;SAP=2804.21,784.74;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74,0:0:0:74,0:2606,0:-233.662,-22.2762,0,-233.662,-22.2762,-233.662 1/1:9:0,9,0:0:0:9,0:317,0:-28.8505,-2.70927,0,-28.8505,-2.70927,-28.8505 1/1:115:0,115,0:0:0:115,0:4082,0:-365.251,-34.6185,0,-365.251,-34.6185,-365.251 1/2:103:0,39,63:0:0:39,63:1366,2245:-293.707,-183.022,-171.281,-110.711,0,-91.7459 1/1:140:0,140,0:0:0:140,0:4918,0:-440.51,-42.1442,0,-440.51,-42.1442,-440.51 1/2:72:0,28,44:0:0:28,44:975,1576:-207.895,-128.886,-120.457,-79.3601,0,-66.1147 1/1:127:0,126,1:0:0:126,1:4425,36:-397.12,-37.9298,0,-394.183,-34.6325,-393.882 1/2:66:0,41,25:0:0:41,25:1434,900:-190.062,-73.7953,-61.453,-116.622,0,-109.097 1/2:173:0,85,85:0:0:85,85:3009,3048:-491.858,-248.602,-223.014,-243.252,0,-217.664 1/1:5:0,5,0:0:0:5,0:180,0:-16.4978,-1.50515,0,-16.4978,-1.50515,-16.4978 1/2:6:0,4,2:0:0:4,2:138,72:-17.4278,-6.23466,-5.03054,-11.5479,0,-10.9458 1/2:19:0,8,11:0:0:8,11:275,396:-54.9274,-32.6714,-30.2632,-22.6059,0,-19.2945 1/1:152:0,152,0:0:0:152,0:5394,0:-482.564,-45.7566,0,-482.564,-45.7566,-482.564 1/2:141:0,64,77:0:0:64,77:2264,2743:-407.196,-223.933,-204.667,-183.617,0,-160.438 1/1:141:0,141,0:0:0:141,0:5005,0:-448.334,-42.4452,0,-448.334,-42.4452,-448.334 1/1:25:0,23,1:0:0:23,1:809,36:-72.4049,-6.92369,0,-69.4671,-3.98627,-69.1661 1/1:27:0,27,0:0:0:27,0:956,0:-85.1609,-8.12781,0,-85.1609,-8.12781,-85.1609 1/2:54:0,18,36:0:0:18,36:625,1283:-155.343,-104.936,-99.517,-50.7557,0,-39.9186 1/2:57:0,42,15:0:0:42,15:1483,540:-164.032,-44.4211,-31.7778,-119.968,0,-115.452 1/1:106:0,105,0:0:0:105,0:3699,0:-330.641,-31.6082,0,-330.641,-31.6082,-330.641 1/1:44:0,44,0:0:0:44,0:1567,0:-141.2,-13.2453,0,-141.2,-13.2453,-141.2 chr11 25993964 . A T 6092.63 PASS AB=0.525622;ABP=6.90496;AC=9;AF=0.214286;AN=42;AO=361;CIGAR=1X;DP=1633;DPB=1633;DPRA=0.944274;EPP=786.912;EPPR=2765.12;GTI=0;LEN=1;MEANALT=1;MQM=59.9363;MQMR=50.559;NS=21;NUMALT=1;ODDS=7.38143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12885;QR=45502;RO=1272;RPL=361;RPP=786.912;RPPR=2765.12;RPR=0;RUN=1;SAF=361;SAP=786.912;SAR=0;SRF=1272;SRP=2765.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2664:0:0:0,-22.2762,-238.568 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.4846 0/0:114:114,0:114:4084:0:0:0,-34.3174,-365.285 0/1:101:39,62:39:1392:62:2205:-168.309,0,-94.1953 0/0:140:140,0:140:5016:0:0:0,-42.1442,-448.55 0/1:73:28,45:28:1000:45:1603:-122.584,0,-68.0579 0/0:126:125,1:125:4465:1:36:0,-34.3315,-397.301 0/1:63:40,23:40:1436:23:824:-55.5184,0,-110.065 0/1:174:88,86:88:3160:86:3059:-223.161,0,-230.195 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.4978 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.4978 0/1:19:8,11:8:284:11:387:-29.4464,0,-20.1041 0/0:149:149,0:149:5320:0:0:0,-44.8535,-475.893 0/1:139:61,78:61:2188:78:2791:-209.587,0,-154.013 0/0:137:137,0:137:4877:0:0:0,-41.2411,-436.894 0/0:23:22,1:22:792:1:36:0,-3.32541,-67.6368 0/0:27:27,0:27:972:0:0:0,-8.12781,-86.5635 0/1:53:17,36:17:608:36:1296:-100.989,0,-38.6772 0/1:55:39,16:39:1381:16:576:-35.3898,0,-107.101 0/0:102:102,0:102:3656:0:0:0,-30.7051,-326.954 0/0:44:44,0:44:1559:0:0:0,-13.2453,-140.48 chr11 25993966 . T A 26721.8 PASS AB=0.467742;ABP=9.17448;AC=33;AF=0.785714;AN=42;AO=1263;CIGAR=1X;DP=1632;DPB=1632;DPRA=0;EPP=2745.58;EPPR=791.255;GTI=0;LEN=1;MEANALT=1.09524;MQM=50.5804;MQMR=60;NS=21;NUMALT=1;ODDS=6.99912;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45116;QR=13036;RO=363;RPL=1263;RPP=2745.58;RPPR=791.255;RPR=0;RUN=1;SAF=1263;SAP=2745.58;SAR=0;SRF=363;SRP=791.255;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,68:0:0:68:2401:-214.897,-20.47,0 1/1:8:0,8:0:0:8:284:-25.8858,-2.40824,0 1/1:115:0,115:0:0:115:4098:-366.427,-34.6185,0 0/1:102:63,39:63:2260:39:1404:-94.9531,0,-172.958 1/1:137:0,137:0:0:137:4916:-439.892,-41.2411,0 0/1:72:45,27:45:1620:27:953:-64.13,0,-124.416 1/1:127:1,126:1:36:126:4477:-398.392,-34.6325,0 0/1:64:25,39:25:900:39:1396:-106.19,0,-62.0551 0/1:172:86,83:86:3084:83:2972:-214.543,0,-226.556 1/1:5:0,5:0:0:5:180:-16.4978,-1.50515,0 0/1:5:2,3:2:72:3:108:-8.56275,0,-5.33157 0/1:19:11,8:11:396:8:288:-20.4618,0,-30.2632 1/1:148:0,148:0:0:148:5312:-475.36,-44.5524,0 0/1:140:78,62:78:2800:62:2228:-157.302,0,-210.095 1/1:140:0,140:0:0:140:5007:-448.512,-42.1442,0 1/1:25:1,24:1:36:24:849:-72.7409,-3.92748,0 1/1:25:0,25:0:0:25:885:-78.784,-7.52575,0 0/1:53:35,18:35:1256:18:640:-41.4926,0,-97.3907 0/1:55:15,40:15:540:40:1436:-111.809,0,-32.3799 1/1:105:1,104:1:36:104:3717:-328.814,-28.0099,0 1/1:44:0,44:0:0:44:1565:-141.015,-13.2453,0 chr11 25994035 . CAAAAC GAATAC,GAATAA 38396 PASS AB=0.523969,0.463768;ABP=7.48639,13.2382;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1385,424;CIGAR=1X2M1X2M,1X2M1X1M1X;DP=1825;DPB=1825;DPRA=0,1.35577;EPP=3010.5,923.715;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.28571,3.08333;MQM=59.9523,59.6038;MQMR=0;NS=21;NUMALT=2;ODDS=11.6282;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49156,15011;QR=0;RO=0;RPL=1385,424;RPP=3010.5,923.715;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3010.5,923.715;SAR=1385,424;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,131,3:0:0:131,3:4659,107:-419.145,-39.4349,0,-410.422,-30.6724,-409.519 1/1:19:0,19,0:0:0:19,0:671,0:-60.7159,-5.71957,0,-60.7159,-5.71957,-60.7159 1/1:137:0,137,0:0:0:137,0:4831,0:-434.931,-41.2411,0,-434.931,-41.2411,-434.931 1/2:98:0,46,52:0:0:46,52:1636,1843:-283.821,-150.494,-136.646,-133.682,0,-118.028 1/1:142:0,136,5:0:0:136,5:4842,179:-435.579,-40.9401,0,-420.981,-26.3443,-419.476 1/2:73:0,41,31:0:0:41,31:1465,1096:-208.737,-89.2869,-76.9447,-119.483,0,-110.151 1/1:65:0,64,0:0:0:64,0:2251,0:-202.561,-19.2659,0,-202.561,-19.2659,-202.561 1/2:147:0,81,65:0:0:81,65:2842,2294:-417.815,-186.55,-162.167,-231.374,0,-211.807 1/2:198:0,92,105:0:0:92,105:3277,3715:-569.748,-302.646,-274.951,-267.156,0,-235.548 1/2:15:0,6,9:0:0:6,9:205,315:-42.6122,-25.9786,-24.1724,-16.9785,0,-14.2692 1/2:6:0,2,4:0:0:2,4:72,142:-17.8016,-11.9251,-11.323,-6.23466,0,-5.03054 1/2:28:0,21,6:0:0:21,6:751,215:-78.818,-17.5762,-11.2545,-61.2825,0,-59.4763 1/1:149:0,149,0:0:0:149,0:5308,0:-477.855,-44.8535,0,-477.855,-44.8535,-477.855 1/2:130:0,69,55:0:0:69,55:2451,1945:-358.198,-158.475,-137.704,-199.783,0,-183.227 1/1:115:0,114,0:0:0:114,0:4065,0:-365.678,-34.3174,0,-365.678,-34.3174,-365.678 1/1:33:0,33,0:0:0:33,0:1178,0:-106.328,-9.93399,0,-106.328,-9.93399,-106.328 1/1:25:0,25,0:0:0:25,0:890,0:-80.4191,-7.52575,0,-80.4191,-7.52575,-80.4191 1/2:138:0,72,65:0:0:72,65:2557,2304:-396.01,-187.657,-165.983,-208.398,0,-188.831 1/2:64:0,40,24:0:0:40,24:1407,856:-184.664,-70.1344,-58.0932,-114.885,0,-107.66 1/1:61:0,61,0:0:0:61,0:2161,0:-194.75,-18.3628,0,-194.75,-18.3628,-194.75 1/1:46:0,46,0:0:0:46,0:1637,0:-147.618,-13.8474,0,-147.618,-13.8474,-147.618 chr11 26013455 . 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T G 15297.2 PASS AB=0.397695;ABP=34.5561;AC=32;AF=0.761905;AN=42;AO=711;CIGAR=1X;DP=923;DPB=923;DPRA=0;EPP=1546.93;EPPR=463.362;GTI=0;LEN=1;MEANALT=1;MQM=59.827;MQMR=59.9623;NS=21;NUMALT=1;ODDS=16.686;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25512;QR=7608;RO=212;RPL=711;RPP=1546.93;RPPR=463.362;RPR=0;RUN=1;SAF=0;SAP=1546.93;SAR=711;SRF=0;SRP=463.362;SRR=212;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:64:2,62:2:72:62:2228:-193.805,-12.4292,0 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 1/1:61:0,61:0:0:61:2192:-196.918,-18.3628,0 0/1:47:32,15:32:1144:15:536:-34.4264,0,-89.1211 1/1:114:0,114:0:0:114:4088:-368.019,-34.3174,0 0/1:35:20,15:20:716:15:540:-38.4005,0,-54.2235 1/1:76:1,75:1:36:75:2692:-238.926,-19.28,0 0/1:20:14,6:14:504:6:216:-13.7699,0,-39.6775 0/1:82:53,29:53:1904:29:1040:-69.229,0,-146.953 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/1:20:12,8:12:432:8:288:-20.2468,0,-33.2006 1/1:43:0,43:0:0:43:1544:-139.253,-12.9443,0 0/1:60:28,32:28:1008:32:1148:-85.5322,0,-72.9746 1/1:65:0,65:0:0:65:2336:-210.499,-19.567,0 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 1/1:25:0,25:0:0:25:892:-80.5997,-7.52575,0 0/1:35:21,14:21:748:14:500:-34.8001,0,-57.1092 0/1:26:17,9:17:612:9:324:-21.6791,0,-47.5867 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 1/1:34:0,34:0:0:34:1216:-109.722,-10.235,0 chr11 26015110 . A G 6594.1 PASS AB=0.510417;ABP=3.73412;AC=10;AF=0.238095;AN=42;AO=402;CIGAR=1X;DP=1934;DPB=1934;DPRA=1.15654;EPP=875.942;EPPR=3321.03;GTI=0;LEN=1;MEANALT=1;MQM=59.995;MQMR=59.8969;NS=21;NUMALT=1;ODDS=7.18112;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14383;QR=54870;RO=1532;RPL=402;RPP=875.942;RPPR=3269.18;RPR=0;RUN=1;SAF=402;SAP=875.942;SAR=0;SRF=1526;SRP=3277.79;SRR=6;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:76:72,4:72:2580:4:144:0,-9.56466,-219.049 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.72 0/0:104:103,1:103:3688:1:36:0,-27.7088,-328.524 0/1:127:50,77:50:1779:77:2751:-209.601,0,-122.161 0/0:212:211,1:211:7550:1:36:0,-60.2201,-675.68 0/1:68:23,45:23:824:45:1607:-124.449,0,-54.0133 0/0:135:134,1:134:4804:1:36:0,-37.0408,-428.917 0/1:68:45,23:45:1596:23:819:-53.5615,0,-123.46 0/1:209:115,94:115:4116:94:3359:-239.61,0,-307.71 0/1:13:3,10:3:108:10:356:-28.4679,0,-6.16178 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 0/1:22:9,13:9:324:13:468:-35.837,0,-22.8832 0/0:176:176,0:176:6324:0:0:0,-52.9813,-569.249 0/1:117:51,66:51:1832:66:2368:-178.157,0,-129.94 0/0:183:183,0:183:6572:0:0:0,-55.0885,-591.559 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.279 0/1:66:31,35:31:1112:35:1260:-93.8375,0,-80.5234 0/1:68:43,25:43:1532:25:891:-60.0387,0,-117.703 0/0:142:139,3:139:4965:3:108:0,-32.6711,-436.496 0/0:46:46,0:46:1640:0:0:0,-13.8474,-147.889 chr11 26046343 . G T 18884.6 PASS AB=0.538889;ABP=14.8328;AC=32;AF=0.761905;AN=42;AO=1372;CIGAR=1X;DP=1799;DPB=1799;DPRA=0;EPP=2982.27;EPPR=906.425;GTI=0;LEN=1;MEANALT=1.09524;MQM=28.5853;MQMR=33.4646;NS=21;NUMALT=1;ODDS=21.1206;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49165;QR=15202;RO=424;RPL=0;RPP=2982.27;RPPR=915.049;RPR=1372;RUN=1;SAF=1372;SAP=2982.27;SAR=0;SRF=423;SRP=915.049;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:1,49:1:36:49:1760:-117.927,-11.8053,0 1/1:113:0,113:0:0:113:4025:-286.495,-34.0164,0 1/1:130:1,129:1:36:129:4640:-317.388,-36.855,0 0/1:65:33,32:33:1176:32:1139:-59.6339,0,-73.2636 1/1:107:3,102:3:108:102:3664:-244.367,-22.8129,0 0/1:44:17,27:17:603:27:960:-55.8041,0,-33.3138 1/1:93:0,93:0:0:93:3344:-236.54,-27.9958,0 0/1:101:47,54:47:1688:54:1921:-105.771,0,-98.658 0/1:74:47,27:47:1692:27:968:-44.4134,0,-118.882 0/1:29:17,12:17:612:12:432:-22.0199,0,-39.533 0/1:14:8,6:8:288:6:216:-11.3764,0,-17.1117 0/1:64:33,31:33:1188:31:1116:-59.7244,0,-72.0575 1/1:65:0,65:0:0:65:2336:-160.497,-19.567,0 0/1:89:44,45:44:1580:45:1608:-84.2929,0,-99.262 1/1:99:1,97:1:36:97:3465:-237.216,-27.1216,0 1/1:53:2,51:2:72:51:1820:-120.785,-10.5209,0 1/1:73:0,73:0:0:73:2612:-180.051,-21.9752,0 0/1:325:141,184:141:5051:184:6612:-371.102,0,-296.604 0/1:95:28,67:28:1000:67:2404:-137.191,0,-53.1756 1/1:63:1,62:1:36:62:2219:-154.345,-15.8413,0 1/1:53:0,53:0:0:53:1904:-135.106,-15.9546,0 chr11 26046348 . GACAT CACAT,CACAC 24048.7 PASS AB=0.532669,0.467331;ABP=11.3812,11.3812;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1360,431;CIGAR=1X4M,1X3M1X;DP=1794;DPB=1794;DPRA=0,1.12132;EPP=2956.21,921.624;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=1.80952,2.0625;MQM=28.5728,33.4478;MQMR=40;NS=21;NUMALT=2;ODDS=19.6501;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38791,15062;QR=36;RO=1;RPL=0,1;RPP=2956.21,930.249;RPPR=5.18177;RPR=1360,430;RUN=1,1;SAF=1360,430;SAP=2956.21,930.249;SAR=0,1;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:51:0,50,1:0:0:50,1:1405,36:-112.847,-15.0515,0,-110.225,-12.1064,-109.924 1/1:111:0,111,0:0:0:111,0:3217,0:-259.958,-33.4143,0,-259.958,-33.4143,-259.958 1/1:132:0,131,1:0:0:131,1:3692,34:-296.895,-39.4349,0,-295.156,-37.469,-294.855 1/2:63:0,30,33:0:0:30,33:846,1136:-140.195,-81.2306,-72.1997,-59.2421,0,-49.3081 1/1:106:0,103,3:0:0:103,3:2904,108:-233.657,-31.0061,0,-225.794,-22.8199,-224.89 1/2:43:0,26,17:0:0:26,17:757,593:-94.474,-41.1199,-33.2931,-53.639,0,-48.5215 1/1:90:0,90,0:0:0:90,0:2610,0:-210.878,-27.0927,0,-210.878,-27.0927,-210.878 1/2:103:0,56,47:0:0:56,47:1621,1651:-227.286,-113.433,-96.5749,-114.135,0,-99.9866 1/2:76:0,28,48:0:0:28,48:784,1682:-181.32,-126.794,-118.365,-54.8038,0,-40.3544 1/2:29:0,12,17:0:0:12,17:348,603:-67.1651,-42.7266,-39.1143,-24.7194,0,-19.6019 1/2:15:0,7,8:0:0:7,8:201,266:-32.3577,-18.1682,-16.061,-14.459,0,-12.0508 1/2:65:0,32,33:0:0:32,33:916,1141:-143.809,-79.3111,-69.6781,-64.7759,0,-54.8419 1/1:64:0,64,0:0:0:64,0:1795,0:-144.481,-19.2659,0,-144.481,-19.2659,-144.481 1/2:90:0,42,48:0:0:42,48:1171,1669:-201.361,-119.766,-107.123,-81.8725,0,-67.423 1/1:98:0,95,1:0:0:95,1:2681,27:-215.628,-28.5979,0,-213.77,-26.7427,-213.469 1/1:51:1,48,2:1:36:48,2:1343,72:-104.759,-11.6216,0,-100.513,-9.94343,-102.721 1/1:73:0,73,0:0:0:73,0:2042,0:-164.509,-21.9752,0,-164.509,-21.9752,-164.509 1/2:321:0,179,142:0:0:179,142:5205,5008:-717.339,-350.837,-296.952,-366.789,0,-324.043 1/2:98:0,69,29:0:0:69,29:1941,1000:-209.225,-74.0251,-53.254,-135.497,0,-126.767 1/1:62:0,61,1:0:0:61,1:1772,36:-142.917,-18.3628,0,-140.406,-15.5402,-140.105 1/1:53:0,53,0:0:0:53,0:1540,0:-124.594,-15.9546,0,-124.594,-15.9546,-124.594 chr11 26046386 . T C 18857.5 PASS AB=0.543722;ABP=17.8211;AC=32;AF=0.761905;AN=42;AO=1378;CIGAR=1X;DP=1794;DPB=1794;DPRA=0;EPP=2995.3;EPPR=897.678;GTI=0;LEN=1;MEANALT=1;MQM=28.5595;MQMR=33.4976;NS=21;NUMALT=1;ODDS=20.2023;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48912;QR=14802;RO=416;RPL=1378;RPP=2995.3;RPPR=906.343;RPR=0;RUN=1;SAF=1378;SAP=2995.3;SAR=0;SRF=415;SRP=897.678;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:50:1,49:1:36:49:1730:-117.221,-11.8053,0 1/1:114:0,114:0:0:114:4068:-289.555,-34.3174,0 1/1:133:1,132:1:36:132:4668:-322.572,-37.7581,0 0/1:62:30,32:30:1044:32:1140:-60.6514,0,-65.0621 1/1:109:4,105:4:144:105:3707:-246.411,-20.8015,0 0/1:41:16,25:16:572:25:892:-51.5696,0,-31.8077 1/1:91:0,91:0:0:91:3248:-230.715,-27.3937,0 0/1:100:44,56:44:1563:56:1978:-110.993,0,-90.3671 0/1:75:48,27:48:1715:27:952:-43.8176,0,-120.47 0/1:28:16,12:16:572:12:432:-22.3209,0,-36.8621 0/1:14:8,6:8:288:6:204:-11.0339,0,-17.1117 0/1:64:33,31:33:1180:31:1103:-59.3355,0,-71.7371 1/1:65:0,65:0:0:65:2305:-159.531,-19.567,0 0/1:90:45,45:45:1611:45:1600:-83.859,0,-101.615 1/1:98:0,98:0:0:98:3456:-240.794,-29.5009,0 1/1:52:2,50:2:72:50:1766:-117.8,-10.2199,0 1/1:74:0,74:0:0:74:2652:-182.437,-22.2762,0 0/1:320:138,182:138:4921:182:6453:-364.847,0,-288.15 0/1:98:29,69:29:1012:69:2463:-140.879,0,-53.5924 1/1:63:1,62:1:36:62:2207:-154.081,-15.8413,0 1/1:53:0,53:0:0:53:1888:-134.739,-15.9546,0 chr11 26046402 . CAGGTCG GACGTCA,GAGGTCA 37143.5 PASS AB=0.502907,0.489826;ABP=3.0608,3.62892;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1479,341;CIGAR=1X1M1X3M1X,1X5M1X;DP=1828;DPB=1828.14;DPRA=0,0.974528;EPP=3214.62,743.482;EPPR=0;GTI=1;LEN=7,7;MEANALT=1.95238,2.41667;MQM=59.9405,59.9824;MQMR=0;NS=21;NUMALT=2;ODDS=9.02619;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=50550,11561;QR=0;RO=0;RPL=0,0;RPP=3214.62,743.482;RPPR=0;RPR=1479,341;RUN=1,1;SAF=0,0;SAP=3214.62,743.482;SAR=1479,341;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:151:0,151,0:0:0:151,0:5118,0:-460.782,-45.4555,0,-460.782,-45.4555,-460.782 1/1:51:0,50,0:0:0:50,0:1712,0:-154.104,-15.0515,0,-154.104,-15.0515,-154.104 1/1:59:0,59,0:0:0:59,0:2031,0:-183.067,-17.7608,0,-183.067,-17.7608,-183.067 1/2:66:0,37,29:0:0:37,29:1289,976:-184.246,-79.4147,-68.2766,-105.173,0,-96.4434 1/1:212:0,210,2:0:0:210,2:7181,72:-646.002,-63.2163,0,-640.127,-57.0117,-639.525 1/2:89:0,44,45:0:0:44,45:1492,1554:-247.585,-126.603,-113.358,-121.324,0,-107.778 1/1:176:0,175,0:0:0:175,0:5960,0:-536.231,-52.6803,0,-536.231,-52.6803,-536.231 1/2:83:0,38,44:0:0:38,44:1271,1456:-220.702,-117.788,-106.348,-102.955,0,-89.7099 1/2:158:0,69,86:0:0:69,86:2354,2910:-426.893,-235.912,-215.141,-190.977,0,-165.089 1/2:4:0,3,1:0:0:3,1:101,36:-11.4638,-3.29724,-2.39415,-8.52052,0,-8.21949 1/2:5:0,1,4:0:0:1,4:33,144:-14.7717,-12.1095,-11.8085,-2.9981,0,-1.79398 1/2:37:0,16,21:0:0:16,21:555,712:-103.19,-58.073,-53.2566,-45.4607,0,-39.139 1/1:127:0,127,0:0:0:127,0:4365,0:-393.043,-38.2308,0,-393.043,-38.2308,-393.043 1/2:63:0,32,30:0:0:32,30:1105,1018:-172.456,-82.6725,-73.0395,-89.9015,0,-80.8706 1/1:133:0,131,2:0:0:131,2:4435,68:-399.009,-39.4349,0,-393.493,-33.5793,-392.891 1/1:61:0,61,0:0:0:61,0:2068,0:-186.391,-18.3628,0,-186.391,-18.3628,-186.391 1/1:46:0,45,0:0:0:45,0:1545,0:-139.029,-13.5464,0,-139.029,-13.5464,-139.029 1/2:83:0,41,42:0:0:41,42:1404,1408:-228.34,-114.365,-102.023,-114.313,0,-101.67 1/2:100:0,65,35:0:0:65,35:2245,1207:-280.797,-98.3932,-78.8263,-182.749,0,-172.213 1/1:51:0,51,0:0:0:51,0:1764,0:-159.043,-15.3525,0,-159.043,-15.3525,-159.043 1/1:73:0,73,0:0:0:73,0:2522,0:-227.238,-21.9752,0,-227.238,-21.9752,-227.238 chr11 26110396 . CAGC TGGC,TGGT 34913.8 PASS AB=0.491049,0.505115;ABP=3.55456,3.18802;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1258,405;CIGAR=2X2M,2X1M1X;DP=1674;DPB=1674.25;DPRA=20.875,0.837061;EPP=2691.47,865.171;EPPR=7.35324;GTI=1;LEN=2,4;MEANALT=2.1,2;MQM=59.969,59.9556;MQMR=60;NS=21;NUMALT=2;ODDS=10.5134;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=43990,14084;QR=72;RO=2;RPL=1257,403;RPP=2726.04,865.171;RPPR=7.35324;RPR=1,2;RUN=1,1;SAF=1254,405;SAP=2700.09,882.457;SAR=4,0;SRF=2;SRP=7.35324;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:98:0,97,0:0:0:97,0:3378,0:-303.894,-29.1999,0,-303.894,-29.1999,-303.894 1/1:51:0,51,0:0:0:51,0:1811,0:-163.268,-15.3525,0,-163.268,-15.3525,-163.268 1/1:100:0,98,0:0:0:98,0:3420,0:-307.707,-29.5009,0,-307.707,-29.5009,-307.707 1/2:102:0,53,49:0:0:53,49:1845,1723:-290.625,-140.603,-124.649,-150.371,0,-135.621 1/1:177:0,175,2:0:0:175,2:6167,60:-554.831,-52.6803,0,-550.035,-47.5841,-549.433 1/2:85:2,38,44:2:72:38,44:1332,1514:-224.855,-117.067,-111.503,-102.504,0,-95.1341 1/1:149:0,148,0:0:0:148,0:5185,0:-466.563,-44.5524,0,-466.563,-44.5524,-466.563 1/2:88:0,40,48:0:0:40,48:1412,1674:-251.479,-136.495,-124.454,-115.335,0,-100.885 1/2:210:0,100,110:0:0:100,110:3442,3822:-590.612,-311.068,-280.965,-279.89,0,-246.776 1/2:8:0,3,5:0:0:3,5:108,172:-23.131,-14.3128,-13.4097,-9.17208,0,-7.66693 2/2:4:0,0,4:0:0:0,4:0,141:-13.037,-13.037,-13.037,-1.20412,-1.20412,0 1/2:16:0,9,7:0:0:9,7:317,241:-45.7313,-19.9185,-17.2092,-26.1605,0,-24.0533 1/2:57:0,33,24:0:0:33,24:1158,844:-163.292,-69.0536,-59.1196,-94.5897,0,-87.365 1/2:131:0,63,68:0:0:63,68:2170,2378:-369.999,-193.748,-174.783,-176.538,0,-156.068 1/1:115:0,114,0:0:0:114,0:3993,0:-359.196,-34.3174,0,-359.196,-34.3174,-359.196 1/1:46:0,44,0:0:0:44,0:1547,0:-139.159,-13.2453,0,-139.159,-13.2453,-139.159 1/1:67:0,66,0:0:0:66,0:2289,0:-205.908,-19.868,0,-205.908,-19.868,-205.908 1/2:41:0,19,22:0:0:19,22:680,747:-116.381,-60.9207,-55.2011,-55.8098,0,-49.1871 1/2:44:0,26,18:0:0:26,18:919,629:-126.365,-51.5164,-43.6897,-75.1993,0,-69.7808 1/1:56:0,53,3:0:0:53,3:1840,103:-165.531,-15.9546,0,-157.168,-7.24808,-156.265 1/1:29:0,28,1:0:0:28,1:977,36:-87.8821,-8.42884,0,-84.9443,-5.1316,-84.6432 chr11 26112025 . T C,A 49426.5 PASS AB=0.472393,0.526585;ABP=9.48475,9.01404;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1758,524;CIGAR=1X,1X;DP=2283;DPB=2283;DPRA=0,1.15548;EPP=3820.46,1140.86;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.80952,2.0625;MQM=55.6911,59.8435;MQMR=0;NS=21;NUMALT=2;ODDS=10.2466;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62850,18821;QR=0;RO=0;RPL=0,0;RPP=3820.46,1140.86;RPPR=0;RPR=1758,524;RUN=1,1;SAF=1758,524;SAP=3820.46,1140.86;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:0,176,3:0:0:176,3:6302,108:-565.847,-52.9813,0,-557.034,-43.8092,-556.131 1/1:119:0,119,0:0:0:119,0:4252,0:-381.772,-35.8226,0,-381.772,-35.8226,-381.772 1/1:94:0,94,0:0:0:94,0:3360,0:-302.475,-28.2968,0,-302.475,-28.2968,-302.475 1/2:160:0,72,87:0:0:72,87:2565,3105:-461.298,-253.077,-231.402,-208.217,0,-182.027 1/1:243:0,242,1:0:0:242,1:8652,36:-776.508,-72.8493,0,-773.57,-69.552,-773.269 1/2:64:0,29,35:0:0:29,35:1036,1260:-187.467,-103.166,-94.4362,-84.6588,0,-74.1228 1/1:168:0,166,2:0:0:166,2:5940,72:-533.479,-49.971,0,-527.604,-43.7363,-527.002 1/2:98:0,51,47:0:0:51,47:1797,1692:-284.462,-138.414,-123.062,-146.404,0,-132.255 1/2:189:0,88,101:0:0:88,101:3159,3632:-552.429,-296.649,-270.158,-256.139,0,-225.734 1/2:20:0,14,6:0:0:14,6:500,216:-58.6829,-17.9843,-13.7699,-41.0574,0,-39.2512 1/2:16:0,5,11:0:0:5,11:180,392:-46.9801,-32.3087,-30.8036,-15.0299,0,-11.7185 1/2:32:0,4,28:0:0:4,28:144,1004:-93.9907,-82.247,-81.0429,-12.1032,0,-3.67433 1/2:110:0,53,57:0:0:53,57:1904,2052:-323.034,-167.791,-151.836,-155.602,0,-138.443 1/2:137:0,67,70:0:0:67,70:2396,2520:-401.159,-205.933,-185.764,-195.585,0,-174.513 1/1:122:0,122,0:0:0:122,0:4372,0:-393.218,-36.7257,0,-393.218,-36.7257,-393.218 1/1:109:0,109,0:0:0:109,0:3915,0:-351.921,-32.8123,0,-351.921,-32.8123,-351.921 1/1:160:0,158,2:0:0:158,2:5637,72:-506.16,-47.5627,0,-500.288,-41.3305,-499.686 1/2:103:0,50,53:0:0:50,53:1783,1908:-301.297,-156.043,-140.991,-145.612,0,-129.657 1/2:49:0,29,20:0:0:29,20:1032,716:-142.647,-58.7471,-50.0172,-84.2563,0,-78.2357 1/1:69:0,68,1:0:0:68,1:2424,36:-217.54,-20.47,0,-214.603,-17.1728,-214.302 1/1:42:0,42,0:0:0:42,0:1500,0:-135.091,-12.6433,0,-135.091,-12.6433,-135.091 chr11 26112051 . T C 36590.2 PASS AB=0.474112;ABP=8.74431;AC=31;AF=0.738095;AN=42;AO=1740;CIGAR=1X;DP=2267;DPB=2267;DPRA=0;EPP=3772.69;EPPR=1136.54;GTI=0;LEN=1;MEANALT=1.04762;MQM=55.7201;MQMR=59.8004;NS=21;NUMALT=1;ODDS=11.0525;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61857;QR=18860;RO=526;RPL=1;RPP=3772.69;RPPR=1136.54;RPR=1739;RUN=1;SAF=1740;SAP=3781.37;SAR=0;SRF=526;SRP=1145.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:173:3,170:3:108:170:6051:-533.794,-42.003,0 1/1:120:0,120:0:0:120:4269:-383.421,-36.1236,0 1/1:94:0,94:0:0:94:3342:-300.863,-28.2968,0 0/1:160:87,73:87:3100:73:2579:-183.835,0,-231.036 1/1:226:1,225:1:36:225:8001:-715.863,-64.4345,0 0/1:66:35,31:35:1252:31:1099:-79.1842,0,-93.1124 1/1:168:2,166:2:72:166:5922:-525.476,-43.7363,0 0/1:100:49,51:49:1764:51:1816:-133.365,0,-128.937 0/1:190:100,90:100:3584:90:3182:-227.506,0,-265.541 0/1:20:6,14:6:216:14:500:-39.2512,0,-13.7699 0/1:17:12,5:12:428:5:180:-11.4175,0,-33.7404 0/1:32:28,4:28:1008:4:144:-3.67433,0,-81.4034 0/1:111:57,54:57:2048:54:1944:-141.74,0,-151.176 0/1:135:70,65:70:2508:65:2292:-165.766,0,-185.287 1/1:122:0,121:0:0:121:4303:-386.727,-36.4246,0 1/1:109:0,109:0:0:109:3888:-349.567,-32.8123,0 1/1:162:1,161:1:36:161:5740:-512.172,-45.1686,0 0/1:105:54,51:54:1944:51:1806:-131.091,0,-143.498 0/1:49:20,29:20:720:29:1013:-76.524,0,-50.3783 1/1:65:1,64:1:36:64:2270:-200.429,-15.9687,0 1/1:43:0,43:0:0:43:1516:-136.593,-12.9443,0 chr11 26126520 . A C 24398.9 PASS AB=0.45614;ABP=15.3915;AC=31;AF=0.738095;AN=42;AO=1155;CIGAR=1X;DP=1568;DPB=1568;DPRA=0;EPP=2450.63;EPPR=837.889;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9879;MQMR=59.9903;NS=21;NUMALT=1;ODDS=12.3621;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41210;QR=14779;RO=412;RPL=1148;RPP=2450.63;RPPR=837.889;RPR=7;RUN=1;SAF=0;SAP=2511.06;SAR=1155;SRF=0;SRP=897.657;SRR=412;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99:0:0:99:3544:-319.169,-29.802,0 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 1/1:62:0,62:0:0:62:2211:-199.254,-18.6639,0 0/1:116:78,38:78:2800:38:1351:-86.9701,0,-217.32 1/1:130:1,129:1:36:129:4588:-409.487,-35.5356,0 0/1:89:47,42:47:1692:42:1500:-108.503,0,-125.775 1/1:122:2,120:2:68:120:4255:-376.672,-30.268,0 0/1:58:24,34:24:860:34:1220:-92.6471,0,-60.2621 0/1:112:57,55:57:2052:55:1948:-141.879,0,-151.236 0/1:17:8,9:8:288:9:324:-24.3883,0,-21.1499 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:24:13,11:13:468:11:396:-28.758,0,-35.2349 0/1:123:70,53:70:2512:53:1896:-133.889,0,-189.305 0/1:118:65,53:65:2320:53:1878:-133.774,0,-173.537 1/1:121:1,120:1:36:120:4304:-383.938,-32.8264,0 1/1:69:1,68:1:36:68:2440:-216.257,-17.1728,0 1/1:72:1,71:1:36:71:2535:-224.803,-18.0759,0 0/1:49:25,23:25:891:23:800:-57.507,0,-65.6996 0/1:30:11,19:11:396:19:684:-52.8594,0,-26.9518 1/1:71:4,67:4:144:67:2400:-202.943,-8.05951,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 chr11 26126604 . A C 5363.2 PASS AB=0.638211;ABP=84.6435;AC=12;AF=0.285714;AN=42;AO=327;CIGAR=1X;DP=840;DPB=840;DPRA=1.42661;EPP=713.082;EPPR=1065.47;GTI=0;LEN=1;MEANALT=1;MQM=59.8593;MQMR=59.9669;NS=21;NUMALT=1;ODDS=0.328004;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11382;QR=18253;RO=513;RPL=327;RPP=713.082;RPPR=1065.47;RPR=0;RUN=1;SAF=327;SAP=713.082;SAR=0;SRF=513;SRP=1116.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:42,0:42:1496:0:0:0,-12.6433,-134.865 0/0:29:29,0:29:1027:0:0:0,-8.72987,-92.7422 0/0:49:49,0:49:1752:0:0:0,-14.7505,-157.964 0/1:60:14,46:14:496:46:1598:-126.043,0,-26.9125 0/0:63:59,4:59:2103:4:144:0,-5.65127,-176.225 0/1:51:15,36:15:532:36:1258:-98.1646,0,-32.8606 0/0:24:22,2:22:788:2:72:0,-0.387997,-64.4081 0/1:85:19,66:19:684:66:2294:-181.132,0,-36.3028 0/1:67:23,44:23:813:44:1496:-114.748,0,-53.3201 0/1:13:4,9:4:144:9:309:-24.2273,0,-9.40023 1/1:5:0,5:0:0:5:162:-14.8988,-1.50515,0 0/1:13:8,5:8:273:5:176:-12.2716,0,-20.9868 0/1:71:32,39:32:1148:39:1358:-101.14,0,-82.2567 0/1:57:14,43:14:487:43:1515:-119.48,0,-27.0005 0/0:39:39,0:39:1396:0:0:0,-11.7402,-125.939 0/0:17:17,0:17:600:0:0:0,-5.11751,-54.3292 0/0:19:19,0:19:655:0:0:0,-5.71957,-59.2711 0/1:37:24,13:24:852:13:464:-30.9594,0,-65.8623 0/1:38:25,13:25:887:13:464:-30.6584,0,-68.709 0/0:38:36,2:36:1292:2:72:0,-4.60242,-109.747 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 chr11 26169391 . T C 27823.5 PASS AB=0.421359;ABP=58.3386;AC=31;AF=0.738095;AN=42;AO=1352;CIGAR=1X;DP=1956;DPB=1956;DPRA=0;EPP=2895.57;EPPR=1295.09;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.679;MQMR=59.99;NS=21;NUMALT=1;ODDS=18.0643;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48051;QR=21542;RO=603;RPL=5;RPP=2895.57;RPPR=1295.09;RPR=1347;RUN=1;SAF=1352;SAP=2938.84;SAR=0;SRF=603;SRP=1312.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:3,97:3:108:97:3446:-300.221,-20.0278,0 1/1:73:1,72:1:36:72:2563:-227.321,-18.3769,0 1/1:133:1,132:1:36:132:4688:-418.409,-36.4387,0 0/1:75:43,32:43:1535:32:1136:-79.9631,0,-115.865 1/1:199:2,197:2:72:197:6994:-622.615,-53.0682,0 0/1:77:51,26:51:1824:26:932:-61.0196,0,-141.262 1/1:84:0,84:0:0:84:2976:-268.009,-25.2865,0 0/1:142:89,53:89:3175:53:1892:-127.802,0,-243.224 0/1:197:125,71:125:4446:71:2526:-168.274,0,-341.1 0/1:21:15,6:15:531:6:216:-13.4673,0,-41.8003 0/1:19:11,8:11:396:8:284:-20.1829,0,-30.2632 0/1:63:26,37:26:927:37:1320:-100.136,0,-64.7825 0/1:129:80,49:80:2868:49:1756:-119.478,0,-219.524 0/1:120:68,52:68:2440:52:1834:-129.2,0,-183.731 1/1:153:0,153:0:0:153:5428:-488.611,-46.0576,0 1/1:40:0,40:0:0:40:1428:-128.811,-12.0412,0 1/1:42:0,42:0:0:42:1498:-135.11,-12.6433,0 0/1:107:60,47:60:2148:47:1680:-119.277,0,-161.377 0/1:80:27,53:27:964:53:1904:-147.493,0,-62.9944 1/1:58:1,57:1:36:57:1986:-175.406,-13.8615,0 1/1:44:0,44:0:0:44:1564:-141.02,-13.2453,0 chr11 26169406 . G A 26612 PASS AB=0.414441;ABP=67.2932;AC=31;AF=0.738095;AN=42;AO=1312;CIGAR=1X;DP=1913;DPB=1913;DPRA=0;EPP=2851.98;EPPR=1308.07;GTI=0;LEN=1;MEANALT=1;MQM=59.6463;MQMR=60;NS=21;NUMALT=1;ODDS=15.1223;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46580;QR=21477;RO=601;RPL=1312;RPP=2851.98;RPPR=1308.07;RPR=0;RUN=1;SAF=1312;SAP=2851.98;SAR=0;SRF=601;SRP=1308.07;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:4,96:4:144:96:3410:-293.748,-16.7894,0 1/1:72:1,71:1:36:71:2536:-224.893,-18.0759,0 1/1:126:1,125:1:36:125:4409:-393.313,-34.3315,0 0/1:72:43,29:43:1544:29:1040:-72.2189,0,-117.579 1/1:200:2,198:2:72:198:7049:-627.53,-53.3693,0 0/1:75:51,24:51:1820:24:852:-54.4231,0,-141.504 1/1:82:0,82:0:0:82:2896:-260.812,-24.6845,0 0/1:139:90,49:90:3215:49:1714:-112.582,0,-247.729 0/1:194:123,71:123:4416:71:2502:-166.92,0,-339.211 0/1:21:15,6:15:540:6:207:-12.6451,0,-42.6149 0/1:17:10,7:10:360:7:252:-17.9105,0,-27.6268 0/1:64:27,37:27:968:37:1316:-99.4743,0,-68.1714 0/1:129:83,46:83:2952:46:1613:-106.612,0,-227.079 0/1:114:64,50:64:2277:50:1744:-122.911,0,-170.873 1/1:143:0,143:0:0:143:5112:-460.177,-43.0473,0 1/1:39:0,39:0:0:39:1391:-125.482,-11.7402,0 1/1:40:0,40:0:0:40:1436:-129.532,-12.0412,0 0/1:106:58,48:58:2057:48:1728:-123.896,0,-153.49 0/1:80:28,52:28:1004:52:1868:-144.234,0,-66.5935 1/1:57:1,56:1:36:56:1996:-176.306,-13.5604,0 1/1:43:0,43:0:0:43:1509:-136.066,-12.9443,0 chr11 26169424 . AACTC GACTT,GACTC 39626.7 PASS AB=0.42955,0.568493;ABP=47.0687,44.655;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1351,590;CIGAR=1X3M1X,1X4M;DP=1946;DPB=1947.6;DPRA=0,1.38617;EPP=2936.67,1284.18;EPPR=0;GTI=0;LEN=5,1;MEANALT=2,2.1875;MQM=59.6432,59.9898;MQMR=0;NS=21;NUMALT=2;ODDS=17.5414;PAIRED=0,0;PAIREDR=0;PAO=3,3;PQA=108,108;PQR=0;PRO=2;QA=46427,20958;QR=0;RO=0;RPL=1351,590;RPP=2936.67,1284.18;RPPR=0;RPR=0,0;RUN=1,1;SAF=1351,590;SAP=2936.67,1284.18;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:103:0,99,4:0:0:99,4:3391,144:-304.992,-29.802,0,-293.242,-17.6925,-292.038 1/1:72:0,71,1:0:0:71,1:2442,36:-219.676,-21.3731,0,-216.738,-18.0759,-216.437 1/1:132:0,130,1:0:0:130,1:4485,36:-403.496,-39.1339,0,-400.558,-36.1665,-400.257 1/2:74:0,31,43:0:0:31,43:1076,1535:-212.948,-125.498,-116.166,-87.8005,0,-74.8562 1/1:203:0,201,2:0:0:201,2:6898,72:-620.42,-60.507,0,-614.545,-54.2724,-613.943 1/2:76:0,26,50:0:0:26,50:897,1792:-219.378,-146.511,-138.684,-73.2162,0,-58.1647 1/1:83:0,83,0:0:0:83,0:2832,0:-255.104,-24.9855,0,-255.104,-24.9855,-255.104 1/2:139:0,54,85:0:0:54,85:1859,3019:-396.719,-246.235,-229.979,-150.715,0,-125.127 1/2:196:0,73,122:0:0:73,122:2527,4322:-557.534,-352.273,-330.298,-205.449,0,-168.723 1/2:20:0,6,14:0:0:6,14:205,504:-58.1141,-41.4837,-39.6775,-16.9774,0,-12.763 1/2:18:0,8,10:0:0:8,10:274,356:-51.6067,-29.3709,-26.9627,-22.5841,0,-19.5738 1/2:64:0,38,26:0:0:38,26:1327,918:-183.045,-75.1085,-63.6693,-108.288,0,-100.461 1/2:131:0,51,80:0:0:51,80:1725,2838:-371.339,-231.517,-216.164,-140.108,0,-116.025 1/2:116:0,52,64:0:0:52,64:1757,2270:-327.632,-185.231,-169.577,-142.678,0,-123.412 1/1:152:0,152,0:0:0:152,0:5280,0:-475.307,-45.7566,0,-475.307,-45.7566,-475.307 1/1:39:0,39,0:0:0:39,0:1344,0:-121.194,-11.7402,0,-121.194,-11.7402,-121.194 1/1:42:0,40,0:0:0:40,0:1394,0:-125.434,-12.0412,0,-125.434,-12.0412,-125.434 1/2:106:0,46,59:0:0:46,59:1567,2085:-297.002,-169.877,-156.029,-127.19,0,-109.429 1/2:82:0,54,28:0:0:54,28:1866,995:-232.997,-81.4352,-65.1796,-151.913,0,-143.485 1/1:56:0,55,1:0:0:55,1:1857,36:-167.04,-16.5567,0,-164.102,-13.2594,-163.801 1/1:42:0,42,0:0:0:42,0:1424,0:-128.437,-12.6433,0,-128.437,-12.6433,-128.437 chr11 26252658 . A G 9295.39 PASS AB=0.44487;ABP=37.4878;AC=11;AF=0.261905;AN=42;AO=586;CIGAR=1X;DP=2656;DPB=2656;DPRA=0.916481;EPP=1275.49;EPPR=4471.94;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.985;NS=21;NUMALT=1;ODDS=9.40237;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20899;QR=74310;RO=2070;RPL=0;RPP=1275.49;RPPR=4471.94;RPR=586;RUN=1;SAF=586;SAP=1275.49;SAR=0;SRF=2070;SRP=4497.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:184:183,1:183:6557:1:36:0,-51.7912,-586.597 0/0:112:112,0:112:4024:0:0:0,-33.7154,-362.347 0/0:172:172,0:172:6176:0:0:0,-51.7772,-555.936 0/1:165:99,66:99:3552:66:2342:-161.368,0,-270.218 0/0:125:124,1:124:4456:1:36:0,-34.0305,-397.61 0/1:113:59,54:59:2124:54:1936:-140.5,0,-157.412 0/0:170:170,0:170:6100:0:0:0,-51.1751,-549.099 0/1:195:113,82:113:4056:82:2916:-203.976,0,-306.525 0/1:246:133,113:133:4772:113:4031:-288.926,0,-355.582 0/1:33:11,22:11:396:22:780:-60.589,0,-26.0488 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:98:45,53:45:1620:53:1882:-140.156,0,-116.589 0/1:174:82,92:82:2944:92:3292:-244.12,0,-212.814 0/1:141:84,57:84:3024:57:2036:-141.067,0,-229.944 0/0:207:207,0:207:7432:0:0:0,-62.3132,-668.922 0/0:66:66,0:66:2364:0:0:0,-19.868,-213.018 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.349 0/1:71:44,27:44:1580:27:972:-66.4248,0,-121.118 0/1:66:52,14:52:1872:14:496:-25.1063,0,-148.891 0/0:177:175,2:175:6273:2:72:0,-46.4456,-557.813 0/0:57:56,1:56:2012:1:36:0,-13.5604,-177.755 chr11 26263211 . C T 2674.5 PASS AB=0.451087;ABP=18.305;AC=11;AF=0.261905;AN=42;AO=335;CIGAR=1X;DP=1849;DPB=1849;DPRA=0.865583;EPP=730.454;EPPR=3286.28;GTI=2;LEN=1;MEANALT=1.14286;MQM=28.0299;MQMR=29.037;NS=21;NUMALT=1;ODDS=2.25629;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11897;QR=53901;RO=1512;RPL=0;RPP=730.454;RPPR=3286.28;RPR=335;RUN=1;SAF=0;SAP=730.454;SAR=335;SRF=0;SRP=3286.28;SRR=1512;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:123,0:123:4393:0:0:0,-37.0267,-311.354 0/0:87:87,0:87:3108:0:0:0,-26.1896,-226.951 0/0:78:78,0:78:2787:0:0:0,-23.4803,-197.522 0/1:63:38,25:38:1360:25:896:-42.3861,0,-77.6225 0/0:190:189,1:189:6669:1:36:0,-54.4595,-472.453 0/1:144:87,56:87:3108:56:1991:-97.2685,0,-183.587 0/0:152:151,1:151:5374:1:36:0,-42.9355,-390.601 0/1:80:46,34:46:1652:34:1205:-60.5177,0,-93.1961 0/1:175:111,63:111:3950:63:2222:-99.2668,0,-219.365 0/1:21:9,12:9:324:12:428:-24.4139,0,-16.8112 0/1:7:4,3:4:144:3:104:-5.70097,0,-8.63302 0/1:29:21,8:21:747:8:288:-11.864,0,-44.5692 0/1:116:45,71:45:1605:71:2516:-138.335,0,-78.3586 0/1:45:22,23:22:779:23:812:-40.1335,0,-41.8834 0/0:217:217,0:217:7756:0:0:0,-65.3235,-548.847 0/0:60:60,0:60:2156:0:0:0,-18.0618,-147.789 0/0:99:99,0:99:3517:0:0:0,-29.802,-242.919 0/1:33:11,22:11:396:22:787:-44.9543,0,-18.2768 0/1:23:8,15:8:288:15:540:-30.2887,0,-13.9463 0/0:94:93,1:93:3328:1:36:0,-25.4757,-233.139 0/0:13:13,0:13:460:0:0:0,-3.91339,-34.0438 chr11 26263223 . CCG GCA,CCA 27724.1 PASS AB=0.540721,0.455274;ABP=13.7981,16.0246;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1542,345;CIGAR=1X1M1X,2M1X;DP=1890;DPB=1890;DPRA=0,0.859712;EPP=3351.42,752.168;EPPR=0;GTI=2;LEN=3,1;MEANALT=1.80952,2.21429;MQM=29.0227,28.0841;MQMR=0;NS=21;NUMALT=2;ODDS=2.28138;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54430,12350;QR=0;RO=0;RPL=0,0;RPP=3351.42,752.168;RPPR=0;RPR=1542,345;RUN=1,1;SAF=0,0;SAP=3351.42,752.168;SAR=1542,345;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,125,0:0:0:125,0:4423,0:-315.328,-37.6288,0,-315.328,-37.6288,-315.328 1/1:89:0,89,0:0:0:89,0:3162,0:-231.366,-26.7917,0,-231.366,-26.7917,-231.366 1/1:81:0,81,0:0:0:81,0:2873,0:-204.208,-24.3834,0,-204.208,-24.3834,-204.208 1/2:64:0,38,25:0:0:38,25:1329,885:-136.7,-52.9978,-41.5586,-83.7193,0,-76.1935 1/1:193:0,192,1:0:0:192,1:6695,36:-479.111,-57.7978,0,-476.95,-55.3626,-476.649 1/2:149:0,88,60:0:0:88,60:3141,2144:-334.818,-132.221,-105.73,-202.59,0,-184.528 1/1:155:0,153,2:0:0:153,2:5407,72:-396.17,-46.0576,0,-391.064,-40.6347,-390.462 1/2:81:0,46,35:0:0:46,35:1646,1242:-179.508,-76.4843,-62.6369,-103.302,0,-92.7663 1/2:176:0,111,65:0:0:111,65:3933,2340:-376.906,-138.627,-105.212,-238.55,0,-218.983 1/2:20:0,9,11:0:0:9,11:324,396:-45.1149,-24.9737,-22.2645,-20.4236,0,-17.1123 1/2:7:0,4,3:0:0:4,3:144,108:-16.2464,-6.99594,-5.79182,-9.53611,0,-8.63302 1/2:29:0,21,8:0:0:21,8:742,288:-64.8251,-18.1857,-11.864,-46.9211,0,-44.5128 1/2:119:0,46,73:0:0:46,73:1616,2624:-258.237,-157.296,-143.449,-101.216,0,-79.2407 1/2:48:0,23,25:0:0:23,25:803,896:-101.464,-51.1809,-44.2572,-50.5519,0,-43.0261 1/1:221:0,221,0:0:0:221,0:7793,0:-555.838,-66.5276,0,-555.838,-66.5276,-555.838 1/1:63:0,63,0:0:0:63,0:2229,0:-154.204,-18.9649,0,-154.204,-18.9649,-154.204 1/1:103:0,103,0:0:0:103,0:3643,0:-252.461,-31.0061,0,-252.461,-31.0061,-252.461 1/2:33:0,11,21:0:0:11,21:384,752:-70.4579,-46.1154,-42.8041,-24.3842,0,-18.0625 1/2:23:0,8,15:0:0:8,15:279,531:-50.378,-32.4342,-30.026,-18.2226,0,-13.7071 1/1:98:0,97,1:0:0:97,1:3399,36:-243.203,-29.1999,0,-240.965,-26.6799,-240.664 1/1:13:0,13,0:0:0:13,0:465,0:-34.1809,-3.91339,0,-34.1809,-3.91339,-34.1809 chr11 26263230 . G A,C 28416.1 PASS AB=0.543011,0.456989;ABP=14.9651,14.9651;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1527,343;CIGAR=1X,1X;DP=1870;DPB=1870;DPRA=0,0.86099;EPP=3206.89,747.825;EPPR=0;GTI=2;LEN=1,1;MEANALT=1.66667,2;MQM=29.0327,28.0787;MQMR=0;NS=21;NUMALT=2;ODDS=5.23051;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54723,12285;QR=0;RO=0;RPL=13,0;RPP=3206.89,747.825;RPPR=0;RPR=1514,343;RUN=1,1;SAF=0,0;SAP=3318.85,747.825;SAR=1527,343;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,124,0:0:0:124,0:4456,0:-314.877,-37.3277,0,-314.877,-37.3277,-314.877 1/1:89:0,89,0:0:0:89,0:3192,0:-232.487,-26.7917,0,-232.487,-26.7917,-232.487 1/1:80:0,80,0:0:0:80,0:2867,0:-202.775,-24.0824,0,-202.775,-24.0824,-202.775 1/2:63:0,39,24:0:0:39,24:1387,860:-138.474,-51.6636,-39.9235,-87.0855,0,-79.8607 1/1:190:0,189,1:0:0:189,1:6779,36:-478.432,-56.8947,0,-476.27,-54.4595,-475.969 1/2:149:0,88,61:0:0:88,61:3159,2188:-337.925,-134.924,-108.434,-203.284,0,-184.921 1/1:154:0,153,1:0:0:153,1:5495,36:-399.592,-46.0576,0,-397.354,-43.5375,-397.053 1/2:79:0,46,33:0:0:46,33:1634,1180:-176.193,-73.6852,-59.8379,-102.789,0,-92.8547 1/2:176:0,111,65:0:0:111,65:3972,2336:-378.094,-138.621,-105.207,-239.744,0,-220.177 1/2:21:0,9,12:0:0:9,12:320,432:-47.2648,-27.2116,-24.5024,-20.3349,0,-16.7226 1/2:7:0,4,3:0:0:4,3:144,108:-16.2464,-6.99594,-5.79182,-9.53611,0,-8.63302 1/2:28:0,21,7:0:0:21,7:756,252:-62.9445,-15.9477,-9.62608,-47.2789,0,-45.1717 1/2:120:0,45,75:0:0:45,75:1611,2673:-260.674,-160.812,-147.266,-100.139,0,-77.5617 1/2:47:0,23,24:0:0:23,24:824,856:-100.086,-49.0097,-42.086,-51.3465,0,-44.1218 1/1:217:0,217,0:0:0:217,0:7792,0:-550.102,-65.3235,0,-550.102,-65.3235,-550.102 1/1:62:0,62,0:0:0:62,0:2220,0:-152.567,-18.6639,0,-152.567,-18.6639,-152.567 1/1:102:0,102,0:0:0:102,0:3656,0:-251.24,-30.7051,0,-251.24,-30.7051,-251.24 1/2:33:0,11,22:0:0:11,22:396,788:-72.8871,-48.2676,-44.9563,-24.8995,0,-18.2768 1/2:21:0,7,14:0:0:7,14:252,504:-46.4775,-30.5353,-28.4281,-16.2243,0,-12.0099 1/1:95:0,94,1:0:0:94,1:3343,36:-237.145,-28.2968,0,-234.907,-25.7768,-234.606 1/1:13:0,13,0:0:0:13,0:468,0:-34.2526,-3.91339,0,-34.2526,-3.91339,-34.2526 chr11 26263236 . T C 2941.54 PASS AB=0.47067;ABP=8.36013;AC=11;AF=0.261905;AN=42;AO=340;CIGAR=1X;DP=1777;DPB=1777;DPRA=0.877519;EPP=732.651;EPPR=3123.42;GTI=1;LEN=1;MEANALT=1;MQM=28.1647;MQMR=29.0376;NS=21;NUMALT=1;ODDS=1.58049;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12171;QR=49874;RO=1437;RPL=339;RPP=732.651;RPPR=3123.42;RPR=1;RUN=1;SAF=0;SAP=741.311;SAR=340;SRF=0;SRP=3123.42;SRR=1437;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:116:116,0:116:4004:0:0:0,-34.9195,-287.933 0/0:85:85,0:85:2957:0:0:0,-25.5875,-217.849 0/0:73:73,0:73:2562:0:0:0,-21.9752,-183.224 0/1:61:37,24:37:1237:24:864:-40.5992,0,-71.8811 0/0:182:181,1:181:6306:1:36:0,-52.0513,-447.991 0/1:144:83,61:83:2821:61:2188:-109.892,0,-165.95 0/0:144:143,1:143:4967:1:36:0,-40.5272,-364.171 0/1:77:43,34:43:1517:34:1207:-62.0149,0,-85.4372 0/1:168:104,64:104:3616:64:2288:-105.43,0,-201.924 0/1:19:7,12:7:248:12:432:-25.1044,0,-12.2464 0/1:7:4,3:4:140:3:108:-5.79182,0,-8.52661 0/1:27:19,8:19:672:8:288:-12.4661,0,-40.1304 0/1:117:44,73:44:1526:73:2616:-143.838,0,-74.1959 0/1:43:21,22:21:748:22:784:-40.771,0,-40.1597 0/0:208:208,0:208:7302:0:0:0,-62.6142,-521.52 0/0:58:58,0:58:1976:0:0:0,-17.4597,-138.925 0/0:93:93,0:93:3147:0:0:0,-27.9958,-221.549 0/1:31:9,22:9:320:22:788:-45.5584,0,-13.7123 0/1:22:8,14:8:280:14:500:-28.0531,0,-14.0697 0/0:90:89,1:89:3100:1:36:0,-24.2716,-219.613 0/0:12:12,0:12:428:0:0:0,-3.61236,-31.5356 chr11 26263248 . GAAAAATATC GAAAATATC 18809.6 PASS AB=0.530997;ABP=9.2028;AC=31;AF=0.738095;AN=42;AO=1484;CIGAR=1M1D8M;DP=1835;DPB=1686.6;DPRA=0;EPP=3225.48;EPPR=765.197;GTI=1;LEN=1;MEANALT=1;MQM=29.0539;MQMR=28.0342;NS=21;NUMALT=1;ODDS=0.369823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42988;QR=12462;RO=351;RPL=1484;RPP=3225.48;RPPR=765.197;RPR=0;RUN=1;SAF=0;SAP=3225.48;SAR=1484;SRF=0;SRP=765.197;SRR=351;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:120:0,120:0:0:120:3463:-279.874,-36.1236,0 1/1:84:0,84:0:0:84:2518:-204.261,-25.2865,0 1/1:76:0,76:0:0:76:2204:-178.048,-22.8783,0 0/1:64:25,39:25:887:39:1105:-70.6034,0,-41.9653 1/1:179:1,178:1:36:178:5147:-413.025,-51.1482,0 0/1:149:61,88:61:2168:88:2631:-168.606,0,-107.89 1/1:151:1,150:1:36:150:4497:-361.994,-42.6344,0 0/1:79:35,44:35:1247:44:1270:-79.1014,0,-63.3945 0/1:177:67,110:67:2370:110:3073:-193.969,0,-109.224 0/1:21:12,9:12:429:9:261:-14.9922,0,-24.4525 0/1:7:3,4:3:108:4:120:-7.87978,0,-5.79182 0/1:28:8,20:8:284:20:580:-38.6175,0,-12.0877 0/1:116:75,41:75:2666:41:1172:-60.1468,0,-148.724 0/1:47:25,22:25:874:22:634:-37.2151,0,-44.3838 1/1:215:0,215:0:0:215:6230:-502.843,-64.7215,0 1/1:61:0,61:0:0:61:1709:-137.552,-18.3628,0 1/1:102:0,102:0:0:102:2850:-229.347,-30.7051,0 0/1:33:22,11:22:790:11:319:-16.0584,0,-45.0112 0/1:21:15,6:15:531:6:178:-8.34073,0,-30.7249 1/1:92:1,91:1:36:91:2637:-210.217,-24.8737,0 1/1:13:0,13:0:0:13:390:-31.8504,-3.91339,0 chr11 26276606 . T C 12414.3 PASS AB=0.525194;ABP=8.69989;AC=11;AF=0.261905;AN=42;AO=547;CIGAR=1X;DP=2196;DPB=2196;DPRA=0.735096;EPP=1190.81;EPPR=3555.59;GTI=0;LEN=1;MEANALT=1;MQM=59.989;MQMR=59.9927;NS=21;NUMALT=1;ODDS=14.9368;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19479;QR=58849;RO=1648;RPL=243;RPP=17.7819;RPPR=3555.59;RPR=304;RUN=1;SAF=243;SAP=17.7819;SAR=304;SRF=1648;SRP=3581.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:112:111,1:111:3970:1:36:0,-30.1171,-353.891 0/0:77:77,0:77:2764:0:0:0,-23.1793,-249.001 0/0:72:71,1:71:2517:1:36:0,-18.0759,-223.183 0/1:135:69,66:69:2416:66:2349:-171.029,0,-177.052 0/0:217:216,0:216:7707:0:0:0,-65.0225,-693.443 0/1:72:48,24:48:1711:24:860:-56.0477,0,-132.601 0/0:170:170,0:170:6074:0:0:0,-51.1751,-546.762 0/1:111:27,84:27:955:84:2988:-235.736,0,-52.8505 0/1:214:107,107:107:3848:107:3801:-277.868,0,-282.094 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:17:7,10:7:252:10:356:-27.2637,0,-17.9114 0/1:134:71,63:71:2547:63:2259:-163.235,0,-189.142 0/1:101:27,74:27:972:74:2632:-206.72,0,-57.3939 0/0:179:179,0:179:6387:0:0:0,-53.8844,-574.921 0/0:111:111,0:111:3971:0:0:0,-33.4143,-357.58 0/0:73:73,0:73:2620:0:0:0,-21.9752,-236.047 0/1:146:80,66:80:2851:66:2351:-167.898,0,-212.869 0/1:88:52,36:52:1851:36:1279:-88.9218,0,-140.379 0/0:91:88,3:88:3145:3:104:0,-17.6909,-273.571 0/0:62:62,0:62:2219:0:0:0,-18.6639,-199.974 chr11 26276617 . T G 34401.2 PASS AB=0.482091;ABP=5.88808;AC=31;AF=0.738095;AN=42;AO=1646;CIGAR=1X;DP=2187;DPB=2187;DPRA=0;EPP=3577.25;EPPR=1175.61;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=59.9889;NS=21;NUMALT=1;ODDS=15.4737;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58525;QR=19185;RO=540;RPL=1646;RPP=3577.25;RPPR=26.237;RPR=0;RUN=1;SAF=1646;SAP=3577.25;SAR=0;SRF=232;SRP=26.237;SRR=308;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:1,111:1:36:111:3942:-351.373,-30.1171,0 1/1:76:0,76:0:0:76:2722:-245.223,-22.8783,0 1/1:73:1,71:1:36:71:2528:-224.237,-18.3708,0 0/1:136:65,71:65:2324:71:2509:-185.122,0,-168.48 1/1:217:0,217:0:0:217:7710:-693.936,-65.3235,0 0/1:72:23,49:23:816:49:1737:-134.938,0,-52.0876 1/1:167:0,167:0:0:167:5953:-535.879,-50.272,0 0/1:116:88,28:88:3137:28:1004:-55.7564,0,-247.635 0/1:214:104,110:104:3714:110:3944:-290.731,0,-270.041 0/1:7:6,1:6:212:1:36:-1.49107,0,-17.3176 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:18:11,7:11:381:7:252:-17.6104,0,-29.2021 0/1:132:62,70:62:2201:70:2447:-180.744,0,-158.618 0/1:100:72,28:72:2548:28:982:-58.5887,0,-199.462 1/1:179:0,179:0:0:179:6360:-572.493,-53.8844,0 1/1:108:0,108:0:0:108:3849:-346.606,-32.5112,0 1/1:74:0,74:0:0:74:2641:-237.935,-22.2762,0 0/1:142:64,78:64:2256:78:2768:-206.615,0,-160.555 0/1:89:34,55:34:1204:55:1949:-148.892,0,-81.8742 1/1:88:3,85:3:104:85:3008:-261.248,-16.7878,0 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 chr11 26500929 . T C 8862.52 PASS AB=0.459072;ABP=20.252;AC=11;AF=0.261905;AN=42;AO=556;CIGAR=1X;DP=2616;DPB=2616;DPRA=1.07545;EPP=1201.68;EPPR=4450.22;GTI=0;LEN=1;MEANALT=1;MQM=59.7446;MQMR=59.9631;NS=21;NUMALT=1;ODDS=2.44156;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19905;QR=73552;RO=2060;RPL=555;RPP=1201.68;RPPR=4450.22;RPR=1;RUN=1;SAF=0;SAP=1210.35;SAR=556;SRF=0;SRP=4476.24;SRR=2060;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:89:87,2:87:3108:2:72:0,-19.9549,-273.104 0/0:97:97,0:97:3457:0:0:0,-29.1999,-311.342 0/0:154:151,3:151:5412:3:104:0,-36.6558,-477.507 0/1:167:95,72:95:3393:72:2584:-182.525,0,-255.309 0/0:355:351,4:351:12557:4:140:0,-93.9211,-1117.01 0/1:91:53,38:53:1896:38:1352:-94.5752,0,-143.524 0/0:213:213,0:213:7606:0:0:0,-64.1194,-684.49 0/1:96:50,46:50:1784:46:1648:-119.71,0,-131.944 0/1:271:136,135:136:4853:135:4828:-353.085,0,-355.344 0/1:31:21,10:21:741:10:360:-23.4077,0,-57.6797 0/1:5:1,4:1:36:4:140:-11.4394,0,-2.09312 0/1:33:15,18:15:536:18:632:-47.1402,0,-38.6408 0/1:168:94,74:94:3342:74:2664:-189.422,0,-250.421 0/1:138:84,54:84:3008:54:1934:-132.792,0,-229.409 0/0:132:132,0:132:4706:0:0:0,-39.736,-423.698 0/0:91:91,0:91:3210:0:0:0,-27.3937,-289.121 0/0:102:101,1:101:3594:1:36:0,-27.1068,-320.063 0/1:111:52,59:52:1856:59:2124:-157.987,0,-133.905 0/1:74:40,34:40:1432:34:1215:-87.3772,0,-106.901 0/0:142:140,2:140:5028:2:72:0,-35.9095,-445.828 0/0:56:56,0:56:1997:0:0:0,-16.8577,-179.994 chr11 26619181 . C G 16153.5 PASS AB=0.608469;ABP=159.878;AC=11;AF=0.261905;AN=42;AO=936;CIGAR=1X;DP=2030;DPB=2030;DPRA=2.74276;EPP=2035.51;EPPR=2378.6;GTI=3;LEN=1;MEANALT=1;MQM=58.7714;MQMR=59.841;NS=21;NUMALT=1;ODDS=1.58109;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33393;QR=39069;RO=1094;RPL=936;RPP=2035.51;RPPR=2378.6;RPR=0;RUN=1;SAF=0;SAP=2035.51;SAR=936;SRF=0;SRP=2378.6;SRR=1094;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:46,0:46:1644:0:0:0,-13.8474,-148.249 0/0:40:39,1:39:1400:1:32:0,-8.84229,-123.1 0/0:59:59,0:59:2097:0:0:0,-17.7608,-188.998 0/1:53:18,35:18:640:35:1256:-97.3907,0,-41.9747 0/0:110:110,0:110:3936:0:0:0,-33.1133,-354.423 0/1:47:15,32:15:540:32:1144:-89.0931,0,-34.7881 0/0:83:82,1:82:2925:1:36:0,-21.3882,-259.722 0/1:32:11,21:11:388:21:748:-57.9673,0,-25.6244 0/1:118:50,68:50:1788:68:2432:-183.587,0,-125.681 0/1:260:94,166:94:3361:166:5896:-451.402,0,-224.426 0/1:274:85,189:85:3021:189:6748:-523.659,0,-189.146 0/1:270:113,157:113:4037:157:5608:-423.034,0,-280.96 0/1:61:18,43:18:648:43:1536:-120.139,0,-40.2809 0/1:82:37,45:37:1324:45:1612:-120.629,0,-94.7639 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/0:19:19,0:19:676:0:0:0,-5.71957,-61.168 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 0/1:310:143,167:143:5124:167:5957:-442.664,0,-367.937 0/1:28:17,11:17:595:11:388:-26.8285,0,-45.4478 0/0:34:34,0:34:1208:0:0:0,-10.235,-109.026 0/0:31:31,0:31:1101:0:0:0,-9.33193,-99.3984 chr11 26623312 . C T 20653.4 PASS AB=0.420337;ABP=173.229;AC=20;AF=0.47619;AN=42;AO=1298;CIGAR=1X;DP=3185;DPB=3185;DPRA=1.59175;EPP=2812.9;EPPR=4020.61;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9777;MQMR=59.9958;NS=21;NUMALT=1;ODDS=19.1091;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46557;QR=67253;RO=1886;RPL=1297;RPP=2812.9;RPPR=4020.61;RPR=1;RUN=1;SAF=1298;SAP=2821.58;SAR=0;SRF=1886;SRP=4098.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:195:141,54:141:5023:54:1936:-115.816,0,-393.518 0/1:134:87,46:87:3096:46:1647:-108.116,0,-238.472 0/1:114:80,34:80:2853:34:1220:-75.7894,0,-222.689 0/1:74:54,20:54:1923:20:717:-42.5818,0,-151.07 0/1:372:199,173:199:7099:173:6216:-447.547,0,-526.986 0/1:209:105,104:105:3750:104:3725:-272.536,0,-274.784 0/1:224:99,125:99:3517:125:4466:-334.678,0,-249.309 0/0:97:97,0:97:3458:0:0:0,-29.1999,-311.432 0/1:350:232,118:232:8231:118:4218:-274.439,0,-635.442 0/1:28:18,10:18:635:10:352:-23.5894,0,-49.0481 0/1:8:7,1:7:244:1:36:-1.19004,0,-19.8912 0/1:32:22,10:22:788:10:360:-23.1113,0,-61.6118 0/1:139:108,31:108:3855:31:1116:-58.9085,0,-305.303 0/1:212:71,141:71:2522:141:5068:-392.444,0,-163.413 0/1:300:175,125:175:6267:125:4488:-313.779,0,-473.814 0/1:114:54,60:54:1936:60:2156:-159.976,0,-140.199 0/1:117:72,45:72:2572:45:1612:-110.15,0,-196.509 0/1:108:79,29:79:2840:29:1040:-61.4031,0,-223.326 0/1:101:68,33:68:2440:33:1188:-76.8246,0,-189.451 0/1:183:82,101:82:2916:101:3628:-271.627,0,-207.585 0/1:74:36,38:36:1288:38:1368:-101.145,0,-93.9474 chr11 26623319 . G C 19429.2 PASS AB=0.417876;ABP=180.627;AC=20;AF=0.47619;AN=42;AO=1267;CIGAR=1X;DP=3126;DPB=3126;DPRA=1.61277;EPP=2745.59;EPPR=1413.54;GTI=1;LEN=1;MEANALT=1.15;MQM=59.989;MQMR=59.9957;NS=21;NUMALT=1;ODDS=20.6958;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44694;QR=65981;RO=1856;RPL=1266;RPP=2745.59;RPPR=1413.54;RPR=1;RUN=1;SAF=1267;SAP=2754.27;SAR=0;SRF=1856;SRP=4033.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:193:141,52:141:4998:52:1815:-105.532,0,-391.873 0/1:134:87,47:87:3116:47:1671:-110.337,0,-240.329 0/1:119:84,35:84:2995:35:1244:-76.4421,0,-233.959 0/1:70:50,19:50:1762:19:666:-39.1336,0,-137.731 0/1:368:197,170:197:6989:170:5982:-427.658,0,-518.243 0/1:204:103,101:103:3675:101:3573:-260.369,0,-269.544 0/1:219:98,120:98:3461:120:4217:-313.729,0,-245.72 0/0:94:94,0:94:3343:0:0:0,-28.2968,-301.088 0/1:335:222,113:222:7933:113:4002:-259.527,0,-613.141 0/1:28:18,10:18:640:10:356:-23.9524,0,-49.5005 0/1:8:7,1:7:252:1:27:-0.291543,0,-20.6207 0/1:32:21,11:21:752:11:396:-26.3498,0,-58.3733 0/1:135:105,30:105:3712:30:1072:-56.1534,0,-293.644 0/1:208:70,138:70:2465:138:4880:-376.742,0,-159.49 0/1:294:172,122:172:6137:122:4306:-299.219,0,-463.928 0/1:114:55,59:55:1956:59:2081:-153.242,0,-141.998 0/1:112:71,41:71:2510:41:1455:-97.5299,0,-192.437 0/1:105:77,28:77:2750:28:972:-56.181,0,-216.133 0/1:99:67,32:67:2382:32:1126:-71.8446,0,-184.835 0/1:182:83,99:83:2933:99:3509:-261.226,0,-209.418 0/1:73:34,39:34:1220:39:1344:-99.28,0,-88.1316 chr11 26653343 . GTACC GTATA,ATATA 33372.6 PASS AB=0.532838,0.462206;ABP=10.5687,13.0228;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1377,377;CIGAR=3M2X,1X2M2X;DP=1759;DPB=1759.2;DPRA=0,0.783145;EPP=2993.13,795.805;EPPR=0;GTI=2;LEN=2,5;MEANALT=1.85714,2.30769;MQM=47.2578,25.382;MQMR=0;NS=21;NUMALT=2;ODDS=1.72961;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=48501,13183;QR=0;RO=0;RPL=1,374;RPP=2984.45,795.805;RPPR=0;RPR=1376,3;RUN=1,1;SAF=1,377;SAP=2984.45,821.655;SAR=1376,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:0,105,0:0:0:105,0:3698,0:-329.852,-31.6082,0,-329.852,-31.6082,-329.852 1/1:93:0,93,0:0:0:93,0:3302,0:-295.387,-27.9958,0,-295.387,-27.9958,-295.387 1/1:47:0,47,0:0:0:47,0:1669,0:-148.01,-14.1484,0,-148.01,-14.1484,-148.01 1/2:103:0,64,39:0:0:64,39:2229,1374:-253.907,-74.4673,-55.2014,-179.723,0,-167.982 1/1:144:0,144,0:0:0:144,0:5078,0:-451.267,-43.3483,0,-451.267,-43.3483,-451.267 1/2:90:0,45,45:0:0:45,45:1597,1572:-219.475,-90.3234,-76.7771,-129.455,0,-115.909 1/1:126:0,126,0:0:0:126,0:4430,0:-396.492,-37.9298,0,-396.492,-37.9298,-396.492 1/2:111:0,54,55:0:0:54,55:1919,1913:-259.587,-104.858,-88.6026,-154.733,0,-138.176 1/2:131:0,58,73:0:0:58,73:2025,2546:-308.295,-145.35,-127.89,-163.25,0,-141.275 1/2:19:0,14,5:0:0:14,5:496,179:-48.5602,-9.8351,-5.62068,-38.9963,0,-37.4911 1/2:6:0,4,2:0:0:4,2:131,63:-14.3348,-4.12508,-2.92096,-10.4809,0,-9.87881 1/2:13:0,10,3:0:0:10,3:336,105:-33.0913,-5.97958,-2.96928,-27.3778,0,-26.4747 1/2:109:0,54,55:0:0:54,55:1918,1902:-257.862,-104.542,-88.286,-153.618,0,-137.061 1/2:77:0,35,42:0:0:35,42:1248,1470:-180.728,-80.4622,-69.9262,-100.512,0,-87.8686 1/1:88:0,87,0:0:0:87,0:3079,0:-274.543,-26.1896,0,-274.543,-26.1896,-274.543 1/1:120:0,120,0:0:0:120,0:4223,0:-375.614,-36.1236,0,-375.614,-36.1236,-375.614 1/1:68:0,66,2:0:0:66,2:2279,71:-203.122,-19.868,0,-199.13,-15.6181,-198.528 1/2:78:0,40,37:0:0:40,37:1404,1316:-183.424,-71.3056,-59.2644,-112.115,0,-100.977 1/2:70:0,52,17:0:0:52,17:1838,601:-180.908,-32.5061,-16.8525,-148.323,0,-143.205 1/1:110:0,108,2:0:0:108,2:3799,71:-339.418,-32.5112,0,-335.589,-28.4339,-334.987 1/1:51:0,51,0:0:0:51,0:1803,0:-161.422,-15.3525,0,-161.422,-15.3525,-161.422 chr11 26653378 . AGA AGG,GGG 59894.8 PASS AB=0.34609,0.650582;ABP=250.327,239.748;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1390,2000;CIGAR=2M1X,1X1M1X;DP=3403;DPB=3532.67;DPRA=0,2.24912;EPP=2758.1,4030.52;EPPR=0;GTI=4;LEN=1,3;MEANALT=2.09524,2.5;MQM=47.6014,28.1375;MQMR=0;NS=21;NUMALT=2;ODDS=9.48799;PAIRED=0,0;PAIREDR=0;PAO=0,389;PQA=0,8489;PQR=0;PRO=0;QA=49620,70345;QR=0;RO=0;RPL=1360,37;RPP=2766.4,4030.52;RPPR=0;RPR=30,1963;RUN=1,1;SAF=1,0;SAP=3012.68,4345.96;SAR=1389,2000;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:111:0,111,0:0:0:111,0:3952,0:-352.351,-33.4143,0,-352.351,-33.4143,-352.351 1/1:95:0,95,0:0:0:95,0:3392,0:-303.472,-28.5979,0,-303.472,-28.5979,-303.472 1/1:48:0,46,0:0:0:46,0:1635,0:-145.144,-13.8474,0,-145.144,-13.8474,-145.144 1/2:153:0,67,86:0:0:67,86:2396,3006:-377.296,-184.164,-163.995,-193.194,0,-167.306 1/1:140:0,138,0:0:0:138,0:4900,0:-436.278,-41.5421,0,-436.278,-41.5421,-436.278 1/2:77:0,46,31:0:0:46,31:1656,1094:-200.901,-66.8026,-52.9552,-134.404,0,-125.072 1/1:133:0,133,0:0:0:133,0:4729,0:-423.094,-40.037,0,-423.094,-40.037,-423.094 1/2:109:0,57,52:0:0:57,52:2008,1811:-272.311,-110.936,-93.7771,-161.397,0,-145.743 1/2:145:0,59,86:0:0:59,86:2103,3019:-352.515,-183.982,-166.221,-168.604,0,-142.715 2/2:316:0,11,303:0:0:11,303:396,10630:-740.343,-708.269,-704.958,-91.2121,-59.0831,0 2/2:533:0,2,529:0:0:2,529:72,18650:-1299.08,-1293.24,-1292.64,-159.245,-153.339,0 2/2:396:0,11,385:0:0:11,385:392,13564:-941.653,-909.905,-906.594,-115.897,-84.0664,0 1/2:118:0,55,63:0:0:55,63:1963,2190:-292.082,-134.382,-117.826,-157.735,0,-138.77 1/2:86:0,36,49:0:0:36,49:1292,1743:-209.272,-105.48,-94.6427,-103.825,0,-89.0744 1/1:86:0,86,0:0:0:86,0:3069,0:-273.854,-25.8886,0,-273.854,-25.8886,-273.854 1/1:122:0,122,0:0:0:122,0:4358,0:-387.533,-36.7257,0,-387.533,-36.7257,-387.533 1/1:67:0,66,0:0:0:66,0:2372,0:-211.036,-19.868,0,-211.036,-19.868,-211.036 1/2:437:0,42,393:0:0:42,393:1508,13827:-967.196,-845.567,-832.923,-121.683,0,-3.37851 1/2:77:0,54,22:0:0:54,22:1935,775:-204.463,-48.0528,-31.7972,-156.469,0,-149.846 1/1:105:0,104,1:0:0:104,1:3728,36:-332.926,-31.3071,0,-330.766,-29.1366,-330.465 1/1:49:0,49,0:0:0:49,0:1764,0:-157.885,-14.7505,0,-157.885,-14.7505,-157.885 chr11 26653387 . C T 25450.7 PASS AB=0.65;ABP=237.529;AC=14;AF=0.333333;AN=42;AO=1996;CIGAR=1X;DP=3416;DPB=3416;DPRA=1.95763;EPP=4337.27;EPPR=3086.5;GTI=4;LEN=1;MEANALT=1;MQM=28.1373;MQMR=47.6282;NS=21;NUMALT=1;ODDS=11.2147;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71075;QR=50727;RO=1420;RPL=1996;RPP=4337.27;RPPR=3086.5;RPR=0;RUN=1;SAF=0;SAP=4337.27;SAR=1996;SRF=0;SRP=3086.5;SRR=1420;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:111:111,0:111:3953:0:0:0,-33.4143,-352.376 0/0:98:98,0:98:3501:0:0:0,-29.5009,-313.079 0/0:49:48,1:48:1728:1:36:0,-12.0143,-149.52 0/1:154:68,86:68:2399:86:3062:-164.789,0,-167.098 0/0:147:147,0:147:5204:0:0:0,-44.2514,-462.363 0/1:75:45,30:45:1620:30:1080:-51.6505,0,-122.442 0/0:131:131,0:131:4636:0:0:0,-39.4349,-414.709 0/1:111:58,53:58:2075:53:1893:-97.4394,0,-150.934 0/1:144:58,86:58:2084:86:3054:-167.039,0,-142.361 1/1:312:12,300:12:428:300:10663:-696.617,-55.3151,0 1/1:534:3,531:3:108:531:18897:-1294.17,-150.729,0 1/1:394:11,383:11:396:383:13621:-902.061,-82.8402,0 0/1:120:57,63:57:2044:63:2230:-117.934,0,-144.958 0/1:85:36,49:36:1288:49:1760:-95.2,0,-88.9994 0/0:88:88,0:88:3153:0:0:0,-26.4906,-281.248 0/0:123:123,0:123:4394:0:0:0,-37.0267,-390.706 0/0:67:67,0:67:2404:0:0:0,-20.169,-214.115 0/1:435:45,390:45:1616:390:13934:-828.239,0,-13.4656 0/1:76:53,23:53:1904:23:809:-34.1486,0,-147.301 0/0:110:109,1:109:3920:1:36:0,-30.3771,-347.601 0/0:52:52,0:52:1872:0:0:0,-15.6536,-167.573 chr11 26701634 . A G 8568.28 PASS AB=0.490909;ABP=3.20771;AC=31;AF=0.738095;AN=42;AO=332;CIGAR=1X;DP=474;DPB=474;DPRA=0;EPP=36.9167;EPPR=25.092;GTI=0;LEN=1;MEANALT=1;MQM=58.9217;MQMR=60;NS=21;NUMALT=1;ODDS=6.82277;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11830;QR=5076;RO=142;RPL=330;RPP=706.672;RPPR=294.232;RPR=2;RUN=1;SAF=128;SAP=40.7887;SAR=204;SRF=50;SRP=29.9855;SRR=92;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:18:0,18:0:0:18:648:-58.6234,-5.41854,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:20:14,6:14:500:6:216:-13.7699,0,-39.3156 1/1:30:1,29:1:36:29:1032:-89.5552,-5.43263,0 0/1:20:11,9:11:396:9:324:-23.4853,0,-29.9621 1/1:20:0,20:0:0:20:705:-63.7713,-6.0206,0 0/1:34:18,16:18:636:16:555:-39.9963,0,-47.333 0/1:29:16,13:16:576:13:468:-33.643,0,-43.4451 0/1:6:3,3:3:108:3:104:-7.87746,0,-8.26899 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:13:5,8:5:180:8:280:-21.6142,0,-12.6387 0/1:24:18,6:18:636:6:216:-12.5658,0,-50.3433 1/1:21:0,21:0:0:21:748:-67.6168,-6.32163,0 1/1:10:0,10:0:0:10:351:-31.2022,-3.0103,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:70:34,36:34:1216:36:1288:-95.0947,0,-88.6745 0/1:42:13,29:13:468:29:1039:-80.9913,0,-29.8164 1/1:24:1,23:1:36:23:828:-70.899,-3.62645,0 1/1:50:0,50:0:0:50:1772:-159.681,-15.0515,0 chr11 26701643 . C T 8718.04 PASS AB=0.494624;ABP=3.08035;AC=31;AF=0.738095;AN=42;AO=336;CIGAR=1X;DP=478;DPB=478;DPRA=0;EPP=40.3389;EPPR=29.9855;GTI=0;LEN=1;MEANALT=1;MQM=58.9702;MQMR=60;NS=21;NUMALT=1;ODDS=6.86691;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12047;QR=5092;RO=142;RPL=336;RPP=732.625;RPPR=311.359;RPR=0;RUN=1;SAF=130;SAP=40.3389;SAR=206;SRF=50;SRP=29.9855;SRR=92;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:17:0,17:0:0:17:612:-55.3849,-5.11751,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:20:14,6:14:504:6:216:-13.7699,0,-39.6775 1/1:32:1,31:1:36:31:1103:-95.9247,-6.03469,0 0/1:21:12,9:12:432:9:324:-23.1842,0,-32.8996 1/1:20:0,20:0:0:20:720:-65.1003,-6.0206,0 0/1:34:18,16:18:648:16:572:-41.5168,0,-48.4169 0/1:28:15,13:15:540:13:468:-33.9441,0,-40.5077 0/1:6:3,3:3:108:3:108:-8.22255,0,-8.26899 0/1:8:3,5:3:108:5:180:-14.1438,0,-7.66693 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:13:5,8:5:180:8:288:-22.3253,0,-12.6387 0/1:25:18,7:18:636:7:252:-15.5032,0,-50.0423 1/1:21:0,21:0:0:21:756:-68.3388,-6.32163,0 1/1:10:0,10:0:0:10:360:-32.019,-3.0103,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:73:35,38:35:1252:38:1364:-101.028,0,-91.0099 0/1:42:13,29:13:468:29:1036:-80.5089,0,-29.8164 1/1:25:0,25:0:0:25:896:-80.6136,-7.52575,0 1/1:48:0,48:0:0:48:1716:-154.694,-14.4494,0 chr11 26701796 . G A 12132.2 PASS AB=0.514706;ABP=4.03217;AC=30;AF=0.714286;AN=42;AO=604;CIGAR=1X;DP=874;DPB=874;DPRA=10.875;EPP=1314.58;EPPR=587.136;GTI=1;LEN=1;MEANALT=1.05;MQM=54.8609;MQMR=59.5911;NS=21;NUMALT=1;ODDS=0.554363;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21643;QR=9613;RO=269;RPL=604;RPP=1314.58;RPPR=587.136;RPR=0;RUN=1;SAF=0;SAP=1314.58;SAR=604;SRF=0;SRP=587.136;SRR=269;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:39:0,39:0:0:39:1400:-125.865,-11.7402,0 1/1:7:0,7:0:0:7:252:-22.9711,-2.10721,0 1/1:36:0,36:0:0:36:1292:-116.416,-10.8371,0 0/1:32:16,15:16:572:15:540:-39.2357,0,-42.0706 1/1:38:1,37:1:36:37:1324:-115.78,-7.84087,0 0/1:23:13,10:13:468:10:360:-25.7383,0,-35.4658 1/1:43:0,43:0:0:43:1544:-138.63,-12.9443,0 0/1:31:14,17:14:504:17:604:-45.2821,0,-36.3662 0/1:223:102,121:102:3643:121:4323:-321.588,0,-260.901 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:8:4,4:4:144:4:144:-10.8662,0,-10.9035 0/1:11:5,6:5:176:6:216:-16.433,0,-12.8737 0/1:57:31,26:31:1103:26:928:-66.4901,0,-82.4174 0/1:60:28,32:28:1000:32:1144:-85.0402,0,-72.2536 1/1:55:0,55:0:0:55:1980:-178.248,-16.5567,0 1/1:24:0,24:0:0:24:860:-77.6453,-7.22472,0 1/1:7:0,7:0:0:7:252:-23.0225,-2.10721,0 0/1:51:31,20:31:1107:20:716:-49.3256,0,-84.5784 0/1:48:19,29:19:680:29:1040:-79.3983,0,-47.0797 1/1:39:0,39:0:0:39:1396:-125.45,-11.7402,0 1/1:38:1,37:1:36:37:1328:-114.969,-7.84087,0 chr11 26825886 . A G 10189.8 PASS AB=0.497826;ABP=3.04806;AC=11;AF=0.261905;AN=42;AO=458;CIGAR=1X;DP=1989;DPB=1989;DPRA=0.782379;EPP=988.878;EPPR=3325.36;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.6856;MQMR=59.8732;NS=21;NUMALT=1;ODDS=25.1025;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16177;QR=54735;RO=1530;RPL=198;RPP=21.2355;RPPR=108.013;RPR=260;RUN=1;SAF=197;SAP=22.4303;SAR=261;SRF=629;SRP=108.013;SRR=901;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:134:134,0:134:4795:0:0:0,-40.338,-431.699 0/0:102:102,0:102:3656:0:0:0,-30.7051,-329.244 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 0/1:75:34,41:34:1224:41:1436:-106.956,0,-87.8852 0/0:139:139,0:139:4972:0:0:0,-41.8432,-447.467 0/1:69:36,33:36:1292:33:1176:-85.3685,0,-95.8127 0/0:128:128,0:128:4588:0:0:0,-38.5318,-412.825 0/1:127:70,57:70:2512:57:2035:-145.191,0,-188.088 0/1:126:47,79:47:1692:79:2794:-213.708,0,-114.637 0/1:25:12,13:12:423:13:468:-34.9339,0,-30.8793 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/1:47:24,23:24:856:23:820:-59.9723,0,-63.2127 0/1:108:48,59:48:1711:59:2050:-152.134,0,-121.705 0/1:81:38,43:38:1332:43:1509:-111.588,0,-95.7652 0/0:117:117,0:117:4183:0:0:0,-35.2205,-376.522 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 0/0:78:78,0:78:2800:0:0:0,-23.4803,-252.222 0/1:136:70,66:70:2487:66:2333:-169.27,0,-183.143 0/1:117:80,37:80:2872:37:1308:-82.7951,0,-223.492 0/0:102:102,0:102:3641:0:0:0,-30.7051,-327.894 0/0:127:127,0:127:4527:0:0:0,-38.2308,-407.388 chr11 26829083 . A C 20817 PASS AB=0.410526;ABP=42.6454;AC=31;AF=0.738095;AN=42;AO=992;CIGAR=1X;DP=1339;DPB=1339;DPRA=0;EPP=2139.77;EPPR=756.511;GTI=0;LEN=1;MEANALT=1;MQM=54.2863;MQMR=59.3804;NS=21;NUMALT=1;ODDS=0.634966;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35435;QR=12452;RO=347;RPL=990;RPP=2139.77;RPPR=756.511;RPR=2;RUN=1;SAF=992;SAP=2157.11;SAR=0;SRF=347;SRP=756.511;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:1,66:1:36:66:2349:-206.893,-16.5707,0 1/1:64:0,64:0:0:64:2288:-205.492,-19.2659,0 1/1:67:1,66:1:36:66:2368:-209.428,-16.5707,0 0/1:91:48,43:48:1708:43:1548:-111.934,0,-124.727 1/1:108:7,101:7:252:101:3612:-301.773,-9.48228,0 0/1:26:12,14:12:432:14:488:-35.8291,0,-31.3944 1/1:121:0,121:0:0:121:4294:-384.126,-36.4246,0 0/1:96:57,39:57:2048:39:1383:-95.6722,0,-155.675 0/1:92:58,34:58:2088:34:1224:-82.7105,0,-160.449 0/1:12:5,7:5:180:7:252:-19.3839,0,-12.9397 0/1:5:1,4:1:36:4:144:-11.775,0,-2.09312 0/1:24:14,10:14:504:10:360:-25.4732,0,-38.4687 0/1:41:28,13:28:1004:13:468:-30.0868,0,-78.3318 0/1:92:58,34:58:2080:34:1198:-80.1749,0,-159.675 1/1:133:0,133:0:0:133:4765:-426.342,-40.037,0 1/1:48:0,48:0:0:48:1720:-154.915,-14.4494,0 1/1:79:1,78:1:36:78:2791:-246.929,-20.1831,0 0/1:56:39,17:39:1400:17:599:-37.1794,0,-109.437 0/1:35:16,19:16:576:19:684:-51.3096,0,-41.6389 1/1:61:1,60:1:36:60:2156:-190.445,-14.796,0 1/1:21:0,21:0:0:21:744:-67.0062,-6.32163,0 chr11 26829195 . TAT TAAT,TCAT 26736.8 PASS AB=0.362845,0.635704;ABP=115.59,113.22;AC=31,11;AF=0.738095,0.261905;AN=42;AO=873,444;CIGAR=1M1I2M,1M1I2M;DP=1321;DPB=1761.33;DPRA=0,1.18312;EPP=1890.03,967.144;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.7619,2.07692;MQM=59.9542,59.9865;MQMR=0;NS=21;NUMALT=2;ODDS=4.87099;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29841,15721;QR=0;RO=0;RPL=872,444;RPP=1890.03,967.144;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=1898.71,967.144;SAR=873,444;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,51,0:0:0:51,0:1755,0:-158.013,-15.3525,0,-158.013,-15.3525,-158.013 1/1:45:0,45,0:0:0:45,0:1560,0:-140.691,-13.5464,0,-140.691,-13.5464,-140.691 1/1:44:0,43,0:0:0:43,0:1466,0:-131.958,-12.9443,0,-131.958,-12.9443,-131.958 1/2:84:0,32,52:0:0:32,52:1094,1830:-238.106,-149.323,-139.69,-89.1286,0,-73.4751 1/1:136:0,131,5:0:0:131,5:4439,180:-399.334,-39.4349,0,-384.646,-24.388,-383.141 1/2:107:0,46,61:0:0:46,61:1581,2181:-306.572,-178.191,-164.344,-128.73,0,-110.367 1/1:80:0,80,0:0:0:80,0:2749,0:-247.656,-24.0824,0,-247.656,-24.0824,-247.656 1/2:63:0,21,42:0:0:21,42:710,1489:-179.206,-121.659,-115.338,-57.8905,0,-45.2472 1/2:197:0,76,121:0:0:76,121:2587,4301:-560.695,-350.841,-327.963,-210.2,0,-173.775 1/2:7:0,3,4:0:0:3,4:108,129:-19.5518,-10.7235,-9.82045,-9.17208,0,-7.96796 1/2:5:0,2,3:0:0:2,3:72,104:-14.6799,-8.79971,-8.19765,-6.23466,0,-5.33157 1/2:20:0,6,14:0:0:6,14:201,496:-57.0301,-40.7598,-38.9537,-16.6109,0,-12.3964 1/2:70:0,20,50:0:0:20,50:662,1769:-197.971,-144.44,-138.419,-53.8688,0,-38.8173 1/2:83:0,25,57:0:0:25,57:872,1998:-233.494,-162.572,-155.046,-70.9112,0,-53.7525 1/1:75:0,75,0:0:0:75,0:2528,0:-227.77,-22.5773,0,-227.77,-22.5773,-227.77 1/1:55:0,55,0:0:0:55,0:1868,0:-168.392,-16.5567,0,-168.392,-16.5567,-168.392 1/1:83:0,83,0:0:0:83,0:2862,0:-257.821,-24.9855,0,-257.821,-24.9855,-257.821 1/2:30:0,7,23:0:0:7,23:244,816:-86.6804,-66.838,-64.7308,-20.1922,0,-13.2685 1/2:23:0,12,11:0:0:12,11:424,392:-66.838,-32.3087,-28.6964,-34.8841,0,-31.5727 1/1:44:0,43,1:0:0:43,1:1459,36:-130.971,-12.9443,0,-128.033,-9.64705,-127.732 1/1:17:0,17,0:0:0:17,0:600,0:-54.3268,-5.11751,0,-54.3268,-5.11751,-54.3268 chr11 26841361 . CTG CTA,ATA 44368.4 PASS AB=0.52125,0.4775;ABP=6.14808,6.52809;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1678,405;CIGAR=2M1X,1X1M1X;DP=2085;DPB=2085;DPRA=0,0.867867;EPP=3646.74,882.457;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.85714,2.0625;MQM=59.9696,59.4099;MQMR=0;NS=21;NUMALT=2;ODDS=2.93949;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=59629,13878;QR=0;RO=0;RPL=0,0;RPP=3646.74,882.457;RPPR=0;RPR=1678,405;RUN=1,1;SAF=1678,405;SAP=3646.74,882.457;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:184:0,183,1:0:0:183,1:6544,28:-588.763,-55.0885,0,-586.545,-52.5898,-586.244 1/1:128:0,127,1:0:0:127,1:4494,36:-404.258,-38.2308,0,-401.321,-34.9336,-401.02 1/1:92:0,91,1:0:0:91,1:3197,36:-287.61,-27.3937,0,-284.802,-24.2403,-284.501 1/2:71:0,33,38:0:0:33,38:1180,1312:-202.928,-106.706,-96.7715,-96.5741,0,-85.1349 1/1:206:0,199,7:0:0:199,7:7036,238:-632.972,-59.905,0,-613.668,-40.2605,-611.561 1/2:73:0,33,40:0:0:33,40:1184,1387:-209.439,-113.085,-103.151,-96.7066,0,-84.6654 1/1:137:0,137,0:0:0:137,0:4853,0:-436.921,-41.2411,0,-436.921,-41.2411,-436.921 1/2:116:0,65,51:0:0:65,51:2328,1765:-333.593,-143.731,-124.164,-190.213,0,-174.86 1/2:210:0,108,101:0:0:108,101:3844,3441:-592.428,-279.129,-246.618,-313.287,0,-282.883 1/2:28:0,20,8:0:0:20,8:712,273:-80.5341,-22.4933,-16.4727,-58.3861,0,-55.9778 1/2:11:0,6,5:0:0:6,5:216,180:-32.6714,-15.0469,-13.2407,-17.9843,0,-16.4792 2/2:13:0,1,12:0:0:1,12:36,399:-35.8169,-32.8773,-32.5763,-3.61236,-0.315115,0 1/2:77:0,38,39:0:0:38,39:1360,1351:-220.982,-110.072,-98.633,-111.261,0,-99.5213 1/2:118:0,64,54:0:0:64,54:2272,1805:-331.563,-146.429,-127.163,-185.477,0,-169.221 1/1:180:0,180,0:0:0:180,0:6368,0:-573.216,-54.1854,0,-573.216,-54.1854,-573.216 1/1:118:0,118,0:0:0:118,0:4212,0:-379.261,-35.5215,0,-379.261,-35.5215,-379.261 1/1:88:0,87,0:0:0:87,0:3104,0:-279.228,-26.1896,0,-279.228,-26.1896,-279.228 1/2:69:0,34,35:0:0:34,35:1209,1224:-198.451,-99.9246,-89.6896,-98.8791,0,-88.3431 1/2:27:0,16,11:0:0:16,11:568,374:-76.9659,-30.6765,-25.86,-46.6354,0,-43.3241 1/1:110:0,109,1:0:0:109,1:3876,29:-348.747,-32.8123,0,-346.439,-30.2136,-346.138 1/1:29:0,29,0:0:0:29,0:1036,0:-93.5539,-8.72987,0,-93.5539,-8.72987,-93.5539 chr11 26875783 . G A 52864.8 PASS AB=0.494409;ABP=3.35024;AC=32;AF=0.761905;AN=42;AO=2459;CIGAR=1X;DP=3102;DPB=3102;DPRA=0;EPP=5342.66;EPPR=1397.1;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9593;MQMR=60;NS=21;NUMALT=1;ODDS=15.2512;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=88091;QR=22895;RO=642;RPL=2459;RPP=5342.66;RPPR=1397.1;RPR=0;RUN=1;SAF=0;SAP=5342.66;SAR=2459;SRF=0;SRP=1397.1;SRR=642;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:189:2,187:2:72:187:6672:-593.493,-50.0579,0 1/1:177:0,177:0:0:177:6352:-571.768,-53.2823,0 1/1:223:1,222:1:36:222:7973:-713.986,-63.5314,0 0/1:175:90,85:90:3204:85:3048:-221.869,0,-235.904 1/1:421:2,419:2:72:419:15028:-1345.4,-119.897,0 0/1:138:87,51:87:3083:51:1836:-123.978,0,-236.158 1/1:255:1,254:1:32:254:9068:-812.343,-73.5633,0 0/1:77:37,40:37:1320:40:1440:-106.718,0,-95.9226 0/1:318:154,163:154:5496:163:5848:-430.793,0,-399.131 0/1:25:8,17:8:288:17:612:-47.8877,0,-18.7417 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:43:19,24:19:680:24:860:-64.7775,0,-48.5849 0/1:136:66,70:66:2364:70:2510:-185.183,0,-172.078 0/1:229:128,101:128:4564:101:3628:-257.788,0,-341.992 1/1:185:0,185:0:0:185:6586:-592.818,-55.6906,0 1/1:92:0,92:0:0:92:3281:-295.509,-27.6948,0 1/1:138:1,137:1:36:137:4913:-438.72,-37.9439,0 0/1:55:25,30:25:892:30:1080:-80.9566,0,-64.043 0/1:56:18,38:18:648:38:1356:-105.483,0,-41.7942 1/1:125:3,122:3:108:122:4380:-384.289,-27.5536,0 1/1:41:0,41:0:0:41:1476:-133.135,-12.3422,0 chr11 26899170 . T C 3125.65 PASS AB=0.442827;ABP=16.6666;AC=11;AF=0.261905;AN=42;AO=213;CIGAR=1X;DP=1172;DPB=1172;DPRA=0.632811;EPP=465.534;EPPR=2050.85;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9802;NS=21;NUMALT=1;ODDS=0.903708;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7486;QR=34302;RO=959;RPL=213;RPP=465.534;RPPR=2050.85;RPR=0;RUN=1;SAF=213;SAP=465.534;SAR=0;SRF=959;SRP=2085.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:88:88,0:88:3148:0:0:0,-26.4906,-283.546 0/0:67:67,0:67:2388:0:0:0,-20.169,-215.178 0/0:46:46,0:46:1637:0:0:0,-13.8474,-147.617 0/1:48:26,22:26:928:22:780:-56.0736,0,-69.3888 0/0:118:118,0:118:4219:0:0:0,-35.5215,-379.89 0/1:16:10,6:10:360:6:216:-14.974,0,-27.9278 0/0:61:61,0:61:2196:0:0:0,-18.3628,-197.905 0/1:26:13,13:13:468:13:464:-34.2707,0,-34.6329 0/1:28:12,16:12:432:16:563:-42.5703,0,-30.7924 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:14:7,7:7:252:7:243:-17.9931,0,-18.8145 0/1:44:31,13:31:1112:13:459:-28.3988,0,-87.146 0/1:57:24,33:24:848:33:1149:-86.555,0,-59.4809 0/0:95:95,0:95:3399:0:0:0,-28.5978,-306.038 0/0:68:68,0:68:2435:0:0:0,-20.47,-219.405 0/0:94:94,0:94:3372:0:0:0,-28.2968,-303.695 0/1:60:22,38:22:792:38:1319:-100.944,0,-53.5439 0/1:177:119,58:119:4232:58:2041:-130.676,0,-327.778 0/0:27:27,0:27:968:0:0:0,-8.12781,-87.4374 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 chr11 26900654 . ATTCA TTTCA,TTTCG 214611 PASS AB=0.498254,0.497736;ABP=3.21506,3.35438;AC=31,11;AF=0.738095,0.261905;AN=42;AO=6501,3860;CIGAR=1X4M,1X3M1X;DP=10403;DPB=10403.6;DPRA=0,3.95049;EPP=14033,8315.55;EPPR=5.18177;GTI=1;LEN=1,5;MEANALT=3.57143,3.73684;MQM=59.9866,59.8534;MQMR=60;NS=21;NUMALT=2;ODDS=8.06235;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=0;QA=232694,136020;QR=26;RO=1;RPL=6491,3852;RPP=14033,8315.55;RPPR=5.18177;RPR=10,8;RUN=1,1;SAF=6501,3860;SAP=14119.8,8384.89;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:356:1,351,1:1:26:351,1:12513,36:-1123.11,-103.639,0,-1120.48,-102.715,-1122.21 1/1:212:0,211,0:0:0:211,0:7564,0:-680.548,-63.5173,0,-680.548,-63.5173,-680.548 1/1:257:0,255,2:0:0:255,2:9156,72:-823.649,-76.7627,0,-817.774,-70.528,-817.172 1/2:244:0,131,113:0:0:131,113:4696,3953:-704.89,-321.88,-282.445,-383.304,0,-349.288 1/1:494:0,491,2:0:0:491,2:17545,71:-1578.31,-147.806,0,-1572.52,-142.024,-1571.92 1/2:264:0,135,128:0:0:135,128:4848,4549:-766.24,-370.763,-330.124,-395.553,0,-357.021 1/1:303:0,302,1:0:0:302,1:10781,36:-969.825,-90.9111,0,-966.887,-87.6138,-966.586 1/2:329:0,178,150:0:0:178,150:6388,5248:-948.022,-426.953,-373.369,-521.064,0,-475.909 1/2:368:0,198,170:0:0:198,170:7066,6003:-1065.19,-489.147,-429.543,-576.336,0,-525.161 1/2:1838:0,892,940:0:0:892,940:31917,33083:-5295.56,-2693.18,-2424.67,-2602.44,0,-2319.47 1/2:1689:0,835,845:0:0:835,845:29930,29797:-4866.55,-2425.48,-2174.12,-2441.1,0,-2186.73 1/2:1651:0,816,830:0:0:816,830:29213,29349:-4772.67,-2390.37,-2144.73,-2382.37,0,-2132.51 1/2:203:0,92,108:0:0:92,108:3291,3799:-577.637,-309.277,-281.582,-268.396,0,-235.885 1/2:258:0,131,127:0:0:131,127:4696,4462:-746.518,-363.508,-324.074,-383.365,0,-345.134 1/1:357:0,355,1:0:0:355,1:12721,34:-1144.36,-106.866,0,-1141.6,-104.118,-1141.3 1/1:228:0,226,1:0:0:226,1:8067,36:-725.686,-68.0328,0,-722.749,-65.0954,-722.448 1/1:249:0,247,1:0:0:247,1:8855,36:-796.603,-74.3544,0,-793.665,-71.3872,-793.364 1/2:819:0,394,419:0:0:394,419:14086,14706:-2344.9,-1196.35,-1077.75,-1148.63,0,-1022.49 1/2:68:0,50,18:0:0:50,18:1785,642:-198.214,-52.6917,-37.6402,-145.879,0,-140.461 1/1:158:0,154,3:0:0:154,3:5536,108:-498.024,-46.3586,0,-489.212,-37.479,-488.309 1/1:58:0,57,0:0:0:57,0:2040,0:-183.55,-17.1587,0,-183.55,-17.1587,-183.55 chr11 26900668 . G T 63428.8 PASS AB=0.497177;ABP=3.53742;AC=11;AF=0.261905;AN=42;AO=3799;CIGAR=1X;DP=10273;DPB=10273;DPRA=3.34187;EPP=8252.43;EPPR=14045.9;GTI=1;LEN=1;MEANALT=1.27778;MQM=59.8579;MQMR=59.987;NS=21;NUMALT=1;ODDS=13.8837;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=135654;QR=230996;RO=6467;RPL=3799;RPP=8252.43;RPPR=14045.9;RPR=0;RUN=1;SAF=3799;SAP=8252.43;SAR=0;SRF=6467;SRP=14045.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:353:350,1:350:12516:1:36:0,-102.423,-1122.45 0/0:205:205,0:205:7318:0:0:0,-61.7111,-658.672 0/0:258:256,2:256:9171:2:72:0,-70.829,-818.524 0/1:241:130,110:130:4631:110:3912:-279.665,0,-344.345 0/0:488:485,3:485:17303:3:108:0,-136.827,-1546.83 0/1:259:138,121:138:4922:121:4342:-312.985,0,-365.165 0/0:301:300,1:300:10709:1:36:0,-87.0117,-960.119 0/1:325:177,148:177:6343:148:5297:-379.028,0,-473.125 0/1:359:193,166:193:6912:166:5947:-427.267,0,-514.074 0/1:1806:887,919:887:31702:919:32871:-2413.31,0,-2308.35 0/1:1669:832,837:832:29729:837:29821:-2180.41,0,-2172.29 0/1:1639:813,825:813:29045:825:29494:-2159.42,0,-2119.74 0/1:197:91,106:91:3260:106:3761:-279.358,0,-234.318 0/1:254:131,123:131:4636:123:4363:-316.325,0,-340.942 0/0:359:358,1:358:12801:1:36:0,-104.471,-1148.31 0/0:225:225,0:225:8055:0:0:0,-67.7317,-724.968 0/0:248:247,1:247:8806:1:36:0,-71.0572,-788.93 0/1:802:385,414:385:13750:414:14774:-1087.32,0,-996.291 0/1:66:48,18:48:1720:18:640:-38.0608,0,-135.218 0/0:161:158,3:158:5622:3:108:0,-38.3907,-496.026 0/0:58:58,0:58:2045:0:0:0,-17.4597,-184.317 chr11 26921054 . C T 4668.84 PASS AB=0.519784;ABP=4.90057;AC=11;AF=0.261905;AN=42;AO=292;CIGAR=1X;DP=1047;DPB=1047;DPRA=1.16993;EPP=637.08;EPPR=1620.8;GTI=0;LEN=1;MEANALT=1.08333;MQM=47.1096;MQMR=59.1049;NS=21;NUMALT=1;ODDS=11.1283;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10331;QR=26733;RO=753;RPL=0;RPP=637.08;RPPR=1620.8;RPR=292;RUN=1;SAF=292;SAP=637.08;SAR=0;SRF=753;SRP=1638.13;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:55,0:55:1963:0:0:0,-16.5566,-176.866 0/0:20:19,0:19:680:0:0:0,-5.71957,-61.2741 0/0:63:63,0:63:2236:0:0:0,-18.9649,-201.504 0/1:41:23,18:23:816:18:640:-45.2407,0,-61.4017 0/0:82:79,3:79:2798:3:108:0,-14.6541,-241.958 0/1:46:25,21:25:887:21:743:-52.4699,0,-66.1731 0/0:79:79,0:79:2794:0:0:0,-23.7814,-251.513 0/1:98:33,65:33:1180:65:2286:-173.947,0,-76.8935 0/1:106:53,53:53:1880:53:1896:-137.109,0,-137.479 0/1:13:6,7:6:212:7:252:-18.9142,0,-15.4826 0/1:7:4,3:4:144:3:108:-7.82863,0,-11.2055 0/1:14:7,7:7:244:7:245:-17.8706,0,-18.085 0/1:60:25,35:25:888:35:1219:-91.3344,0,-62.1499 0/1:53:30,22:30:1080:22:777:-53.6886,0,-81.4579 0/0:71:71,0:71:2543:0:0:0,-21.3731,-228.98 0/0:13:13,0:13:451:0:0:0,-3.91339,-40.9183 0/0:17:17,0:17:600:0:0:0,-5.11751,-54.3259 0/1:64:31,33:31:1103:33:1175:-85.4783,0,-80.3068 0/1:54:29,25:29:1027:25:882:-62.9278,0,-76.3875 0/0:60:60,0:60:2103:0:0:0,-18.0618,-188.938 0/0:31:31,0:31:1104:0:0:0,-9.33193,-99.5595 chr11 26921055 . G A 15619 PASS AB=0.472272;ABP=6.74337;AC=31;AF=0.738095;AN=42;AO=754;CIGAR=1X;DP=1053;DPB=1053;DPRA=0;EPP=1614.35;EPPR=652.281;GTI=0;LEN=1;MEANALT=1;MQM=59.0013;MQMR=47.214;NS=21;NUMALT=1;ODDS=9.9459;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26884;QR=10682;RO=299;RPL=3;RPP=1614.35;RPPR=652.281;RPR=751;RUN=1;SAF=754;SAP=1640.3;SAR=0;SRF=299;SRP=652.281;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,53:0:0:53:1890:-170.308,-15.9546,0 1/1:19:0,19:0:0:19:669:-60.5218,-5.71957,0 1/1:64:0,64:0:0:64:2300:-206.991,-19.2659,0 0/1:38:17,21:17:612:21:752:-56.5491,0,-43.6244 1/1:85:4,81:4:144:81:2883:-246.4,-12.3364,0 0/1:46:22,24:22:788:24:843:-62.2423,0,-56.4428 1/1:78:0,78:0:0:78:2775:-249.856,-23.4803,0 0/1:99:65,34:65:2311:34:1216:-79.8478,0,-175.672 0/1:108:56,52:56:1988:52:1868:-135.837,0,-144.85 0/1:13:7,6:7:252:6:216:-15.8483,0,-18.9142 0/1:7:3,4:3:108:4:144:-11.2055,0,-7.82863 0/1:14:7,7:7:252:7:252:-18.8145,0,-18.208 0/1:60:35,25:35:1252:25:896:-62.8727,0,-94.0167 0/1:54:23,31:23:824:31:1116:-84.4346,0,-57.3774 1/1:75:0,75:0:0:75:2674:-240.72,-22.5773,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 1/1:17:0,17:0:0:17:608:-55.0438,-5.11751,0 0/1:66:34,32:34:1224:32:1152:-84.1147,0,-89.2165 0/1:54:26,28:26:927:28:977:-71.9218,0,-66.7264 1/1:61:0,61:0:0:61:2162:-194.336,-18.3628,0 1/1:30:0,30:0:0:30:1063:-95.8828,-9.0309,0 chr11 26921083 . CTTCCG CTCCG,CTCCA 19417.9 PASS AB=0.449091,0.541818;ABP=15.3916,11.3645;AC=31,11;AF=0.738095,0.261905;AN=42;AO=687,303;CIGAR=1M1D4M,1M1D3M1X;DP=1000;DPB=835.167;DPRA=0,1.26072;EPP=1494.81,660.966;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.04762,2.41667;MQM=59.2707,47.165;MQMR=0;NS=21;NUMALT=2;ODDS=8.18109;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=46.6667,46.6667;PQR=46.6667;PRO=2;QA=23238,10532;QR=0;RO=0;RPL=687,303;RPP=1494.81,660.966;RPPR=0;RPR=0,0;RUN=1,1;SAF=687,303;SAP=1494.81,660.966;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:0,48,0:0:0:48,0:1638,0:-147.393,-14.4494,0,-147.393,-14.4494,-147.393 1/1:17:0,16,0:0:0:16,0:563,0:-50.7445,-4.81648,0,-50.7445,-4.81648,-50.7445 1/1:61:0,61,0:0:0:61,0:2062,0:-185.845,-18.3628,0,-185.845,-18.3628,-185.845 1/2:39:0,21,18:0:0:21,18:715,629:-109.177,-51.1963,-44.8747,-58.3244,0,-52.9058 1/1:77:0,72,5:0:0:72,5:2439,177:-219.376,-21.6742,0,-205.018,-6.96461,-203.513 1/2:45:0,23,22:0:0:23,22:770,762:-123.704,-61.4487,-54.525,-62.5933,0,-55.9706 1/1:72:0,71,0:0:0:71,0:2432,0:-218.704,-21.3731,0,-218.704,-21.3731,-218.704 1/2:97:0,30,65:0:0:30,65:1019,2249:-262.999,-180.391,-171.36,-82.6561,0,-63.0891 1/2:103:0,46,56:0:0:46,56:1574,1949:-284.358,-156.629,-142.781,-127.717,0,-110.859 1/2:13:0,6,7:0:0:6,7:212,246:-37.4405,-20.2015,-18.3953,-17.5898,0,-15.4826 1/2:7:0,4,3:0:0:4,3:140,108:-20.4196,-9.03275,-7.82863,-11.7395,0,-10.8364 1/2:13:0,6,7:0:0:6,7:208,245:-36.7195,-19.8113,-18.0051,-17.2529,0,-15.1457 1/2:61:0,24,37:0:0:24,37:787,1274:-166.816,-103.246,-96.0215,-63.9038,0,-52.7656 1/2:53:0,29,23:0:0:29,23:976,797:-143.136,-64.1068,-55.377,-79.0113,0,-72.0876 1/1:66:0,65,0:0:0:65,0:2179,0:-195.975,-19.567,0,-195.975,-19.567,-195.975 1/1:13:0,13,0:0:0:13,0:430,0:-39.0138,-3.91339,0,-39.0138,-3.91339,-39.0138 1/1:13:0,13,0:0:0:13,0:425,0:-38.5157,-3.91339,0,-38.5157,-3.91339,-38.5157 1/2:65:0,30,34:0:0:30,34:990,1184:-175.11,-95.078,-86.0471,-80.0295,0,-69.7945 1/2:54:0,28,26:0:0:28,26:929,912:-149.07,-73.9768,-65.548,-75.4336,0,-67.6068 1/1:54:0,53,0:0:0:53,0:1805,0:-161.933,-15.9546,0,-161.933,-15.9546,-161.933 1/1:28:0,28,0:0:0:28,0:945,0:-85.3098,-8.42884,0,-85.3098,-8.42884,-85.3098 chr11 26921501 . ACCG ACCA,GCCA 30421.1 PASS AB=0.45961,0.538997;ABP=13.1842,12.4946;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1036,401;CIGAR=3M1X,1X2M1X;DP=1444;DPB=1444;DPRA=0,1.42308;EPP=2252.66,873.771;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.95238,2.125;MQM=59.1274,49.3092;MQMR=60;NS=21;NUMALT=2;ODDS=7.80124;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37112,14194;QR=30;RO=1;RPL=0,0;RPP=2252.66,873.771;RPPR=5.18177;RPR=1036,401;RUN=1,1;SAF=1036,401;SAP=2252.66,873.771;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,76,4:0:0:76,4:2724,143:-244.888,-22.8783,0,-233.28,-10.9144,-232.076 1/1:61:0,61,0:0:0:61,0:2165,0:-194.634,-18.3628,0,-194.634,-18.3628,-194.634 1/1:46:0,46,0:0:0:46,0:1652,0:-148.94,-13.8474,0,-148.94,-13.8474,-148.94 1/2:91:1,50,40:1:30:50,40:1792,1409:-256.739,-111.467,-98.8128,-143.227,0,-133.583 1/1:155:0,150,5:0:0:150,5:5373,169:-483.128,-45.1545,0,-469.486,-31.1753,-467.981 1/2:80:0,38,42:0:0:38,42:1364,1491:-232.022,-120.867,-109.428,-111.511,0,-98.8676 1/1:114:0,112,2:0:0:112,2:4016,72:-359.803,-33.7154,0,-353.963,-27.5178,-353.361 1/2:72:0,32,40:0:0:32,40:1152,1416:-208.488,-114.487,-104.854,-94.3572,0,-82.316 1/2:124:0,39,85:0:0:39,85:1396,2995:-357.219,-243.383,-231.643,-114.192,0,-88.6043 1/2:14:0,6,8:0:0:6,8:212,279:-40.1565,-22.8882,-21.0821,-17.6186,0,-15.2104 1/2:7:0,5,2:0:0:5,2:180,72:-20.8861,-6.1976,-4.69245,-15.0469,0,-14.4449 1/2:20:0,7,13:0:0:7,13:252,453:-57.5003,-36.9443,-34.8371,-20.911,0,-16.9976 1/2:90:0,38,52:0:0:38,52:1368,1853:-262.102,-150.506,-139.067,-111.953,0,-96.2993 1/2:58:0,24,34:0:0:24,34:864,1207:-168.234,-97.79,-90.5652,-70.8005,0,-60.5655 1/1:74:0,72,0:0:0:72,0:2580,0:-231.929,-21.6742,0,-231.929,-21.6742,-231.929 1/1:39:0,38,0:0:0:38,0:1360,0:-122.403,-11.4391,0,-122.403,-11.4391,-122.403 1/1:40:0,40,0:0:0:40,0:1425,0:-128.51,-12.0412,0,-128.51,-12.0412,-128.51 1/2:98:0,51,47:0:0:51,47:1836,1679:-285.654,-135.952,-120.6,-150.059,0,-135.911 1/2:64:0,40,24:0:0:40,24:1432,848:-185.482,-68.7983,-56.7571,-117.036,0,-109.812 1/1:68:0,63,2:0:0:63,2:2245,72:-201.513,-18.9649,0,-195.682,-13.1059,-195.08 1/1:49:0,48,1:0:0:48,1:1724,36:-154.952,-14.4494,0,-152.032,-11.1717,-151.731 chr11 26969842 . AGAAAAA AAGAAA,AAGAAAG 49361.8 PASS AB=0.347471,0.639478;ABP=250.757,210.175;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1381,794;CIGAR=1M1D1M1X3M,1M2X3M1X;DP=2223;DPB=2025.71;DPRA=0,1.8398;EPP=3001.81,1727.16;EPPR=42.0968;GTI=2;LEN=6,7;MEANALT=2.71429,3.06667;MQM=59.6966,55.5592;MQMR=59.2778;NS=21;NUMALT=2;ODDS=1.20192;PAIRED=0,0;PAIREDR=0;PAO=0.333333,0.333333;PQA=10.6667,10.6667;PQR=10.6667;PRO=0.333333;QA=48762,27795;QR=604;RO=18;RPL=1379,401;RPP=2984.47,3.18533;RPPR=33.8935;RPR=2,393;RUN=1,1;SAF=1379,401;SAP=2984.47,3.18533;SAR=2,393;SRF=17;SRP=33.8935;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:128:2,116,2:2:72:116,2:4107,70:-362.977,-29.0443,0,-357.884,-29.2257,-363.157 1/1:26:1,24,0:1:36:24,0:862,0:-74.2974,-4.2873,0,-74.5984,-7.22472,-77.5358 1/1:95:0,95,0:0:0:95,0:3384,0:-304.718,-28.5979,0,-304.718,-28.5979,-304.718 1/2:162:0,24,138:0:0:24,138:845,4827:-460.994,-392.201,-384.977,-69.1437,0,-27.6015 1/1:178:0,175,1:0:0:175,1:6152,36:-553.326,-52.6803,0,-550.389,-49.7428,-550.088 1/2:53:0,24,29:0:0:24,29:834,1021:-151.266,-83.4724,-76.2477,-68.1428,0,-59.413 1/1:140:4,132,0:4:136:132,0:4689,0:-409.483,-28.6955,0,-410.687,-39.736,-421.718 1/2:37:0,20,14:0:0:20,14:701,490:-96.9225,-39.8811,-33.8605,-57.0544,0,-52.84 1/2:298:3,100,194:3:98:100,194:3557,6797:-831.926,-543.139,-520.95,-281.794,0,-231.308 1/2:17:0,11,6:0:0:11,6:383,209:-48.4879,-17.3444,-14.0331,-31.4916,0,-29.6854 1/2:6:0,1,5:0:0:1,5:36,173:-17.3446,-14.4049,-14.1038,-3.29724,0,-1.79209 1/2:36:1,23,12:1:33:23,12:814,417:-97.0637,-31.2505,-26.9937,-63.4654,0,-62.5203 1/2:251:0,72,178:0:0:72,178:2474,6258:-709.03,-508.153,-486.479,-200.863,0,-147.28 1/2:183:1,57,123:1:36:57,123:2010,4248:-504.06,-340.698,-326.477,-160.716,0,-126.626 1/1:106:0,104,1:0:0:104,1:3657,35:-328.978,-31.3071,0,-326.131,-28.4644,-325.83 1/1:43:1,41,0:1:31:41,0:1449,0:-127.568,-9.87869,0,-127.869,-12.3422,-130.356 1/1:18:1,17,0:1:32:17,0:612,0:-52.1773,-2.23205,0,-52.4783,-5.11751,-55.0426 1/2:74:0,38,34:0:0:38,34:1352,1203:-208.168,-97.9832,-86.5441,-110.199,0,-99.9637 1/2:109:1,56,51:1:36:56,51:1973,1800:-303.543,-143.346,-129.426,-157.553,0,-145.138 1/1:188:2,178,6:2:62:178,6:6300,211:-560.947,-48.6151,0,-544.374,-36.3976,-547.544 1/1:75:1,73,0:1:32:73,0:2571,0:-228.38,-19.4168,0,-228.681,-21.9752,-231.259 chr11 27076241 . G T,C 28062.3 PASS AB=0.480344,0.519656;ABP=5.74198,5.74198;AC=31,11;AF=0.738095,0.261905;AN=42;AO=900,427;CIGAR=1X,1X;DP=1327;DPB=1327;DPRA=0,1.26622;EPP=1948.66,930.229;EPPR=0;GTI=0;LEN=1,1;MEANALT=1.61905,2;MQM=59.9767,59.993;MQMR=0;NS=21;NUMALT=2;ODDS=0.863841;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32248,15215;QR=0;RO=0;RPL=899,427;RPP=1948.66,930.229;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=1957.34,930.229;SAR=900,427;SRF=0;SRP=0;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,50,3:0:0:50,3:1796,108:-161.563,-15.0515,0,-152.75,-5.87942,-151.847 1/1:33:0,33,0:0:0:33,0:1176,0:-106.148,-9.93399,0,-106.148,-9.93399,-106.148 1/1:91:0,91,0:0:0:91,0:3264,0:-293.98,-27.3937,0,-293.98,-27.3937,-293.98 1/2:75:0,38,37:0:0:38,37:1364,1332:-220.307,-109.044,-97.6051,-111.622,0,-100.483 1/1:56:0,56,0:0:0:56,0:2012,0:-181.353,-16.8577,0,-181.353,-16.8577,-181.353 1/2:39:0,15,24:0:0:15,24:540,856:-114.199,-70.1364,-65.6209,-44.4211,0,-37.1964 1/1:111:0,111,0:0:0:111,0:3977,0:-358.119,-33.4143,0,-358.119,-33.4143,-358.119 1/2:81:0,48,33:0:0:48,33:1724,1180:-237.212,-96.5741,-82.1246,-140.996,0,-131.062 1/2:198:0,88,110:0:0:88,110:3141,3916:-575.557,-319.519,-293.029,-256.394,0,-223.28 1/2:9:0,4,5:0:0:4,5:144,180:-26.7966,-15.0469,-13.8428,-12.1095,0,-10.6043 1/2:7:0,1,6:0:0:1,6:36,216:-20.9217,-17.9843,-17.6833,-3.29724,0,-1.49106 1/2:42:0,14,28:0:0:14,28:496,992:-121.571,-81.1656,-76.9511,-40.7598,0,-32.331 1/2:105:0,39,66:0:0:39,66:1385,2320:-302.043,-189.19,-177.45,-113.207,0,-93.3387 1/2:136:0,73,63:0:0:73,63:2605,2264:-397.419,-185.056,-163.081,-212.722,0,-193.757 1/1:51:0,51,0:0:0:51,0:1828,0:-164.801,-15.3525,0,-164.801,-15.3525,-164.801 1/1:38:0,38,0:0:0:38,0:1368,0:-123.421,-11.4391,0,-123.421,-11.4391,-123.421 1/1:30:0,30,0:0:0:30,0:1080,0:-97.5132,-9.0309,0,-97.5132,-9.0309,-97.5132 1/2:67:0,28,39:0:0:28,39:1000,1383:-194.559,-113.028,-104.599,-81.8865,0,-70.1464 1/2:55:0,43,12:0:0:43,12:1548,432:-161.918,-35.6088,-22.6645,-126.669,0,-123.056 1/1:26:0,25,1:0:0:25,1:900,36:-80.9612,-7.52575,0,-78.0238,-4.22851,-77.7227 1/1:24:0,24,0:0:0:24,0:864,0:-78.0826,-7.22472,0,-78.0826,-7.22472,-78.0826 chr11 27093942 . GA AG,GG 13955 PASS AB=0.629108,0.370892;ABP=33.8493,33.8493;AC=32,10;AF=0.761905,0.238095;AN=42;AO=563,79;CIGAR=2X,1M1X;DP=642;DPB=642;DPRA=0,0.546154;EPP=1225.55,174.557;EPPR=0;GTI=3;LEN=2,1;MEANALT=1.47619,2;MQM=59.0568,60;MQMR=0;NS=21;NUMALT=2;ODDS=3.88212;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=19980,2836;QR=0;RO=0;RPL=0,0;RPP=1225.55,174.557;RPPR=0;RPR=563,79;RUN=1,1;SAF=563,79;SAP=1225.55,174.557;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,87,0:0:0:87,0:3090,0:-278.262,-26.1896,0,-278.262,-26.1896,-278.262 1/1:32:0,32,0:0:0:32,0:1129,0:-101.863,-9.63296,0,-101.863,-9.63296,-101.863 1/1:41:0,41,0:0:0:41,0:1476,0:-133.118,-12.3422,0,-133.118,-12.3422,-133.118 1/2:21:0,15,6:0:0:15,6:533,216:-61.3915,-17.9843,-13.4689,-43.7656,0,-41.9594 1/1:31:0,31,0:0:0:31,0:1087,0:-97.8841,-9.33193,0,-97.8841,-9.33193,-97.8841 1/1:20:0,20,0:0:0:20,0:700,0:-63.3187,-6.0206,0,-63.3187,-6.0206,-63.3187 1/1:24:0,24,0:0:0:24,0:852,0:-77,-7.22472,0,-77,-7.22472,-77 1/2:36:0,12,24:0:0:12,24:430,856:-105.189,-70.1364,-66.524,-35.41,0,-28.1853 1/2:29:0,25,4:0:0:25,4:892,144:-84.6657,-12.1095,-4.58375,-72.9155,0,-71.7114 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/2:13:0,4,9:0:0:4,9:136,324:-37.4477,-26.7966,-25.5925,-10.99,0,-8.2807 1/2:13:0,3,10:0:0:3,10:107,360:-38.4417,-29.734,-28.8309,-9.06454,0,-6.05424 1/2:20:0,18,2:0:0:18,2:640,72:-58.363,-6.23466,-0.816122,-52.4877,0,-51.8857 1/2:41:0,28,13:0:0:28,13:1000,468:-120.021,-38.5463,-30.1174,-81.8333,0,-77.9199 1/1:55:0,55,0:0:0:55,0:1945,0:-175.198,-16.5567,0,-175.198,-16.5567,-175.198 1/1:32:0,32,0:0:0:32,0:1144,0:-103.256,-9.63296,0,-103.256,-9.63296,-103.256 1/1:46:0,46,0:0:0:46,0:1617,0:-145.7,-13.8474,0,-145.7,-13.8474,-145.7 1/2:25:0,20,5:0:0:20,5:704,180:-72.3499,-15.0469,-9.02631,-57.6613,0,-56.1561 1/2:10:0,8,2:0:0:8,2:286,72:-29.5526,-6.23466,-3.82642,-23.6772,0,-23.0752 1/1:37:0,37,0:0:0:37,0:1314,0:-118.529,-11.1381,0,-118.529,-11.1381,-118.529 1/1:24:0,24,0:0:0:24,0:862,0:-77.7723,-7.22472,0,-77.7723,-7.22472,-77.7723 chr11 27093949 . C T 11936.3 PASS AB=0.623188;ABP=30.2953;AC=32;AF=0.761905;AN=42;AO=551;CIGAR=1X;DP=629;DPB=629;DPRA=0;EPP=1199.49;EPPR=172.385;GTI=3;LEN=1;MEANALT=1;MQM=59.1107;MQMR=60;NS=21;NUMALT=1;ODDS=3.68136;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19639;QR=2774;RO=78;RPL=0;RPP=1199.49;RPPR=172.385;RPR=551;RUN=1;SAF=551;SAP=1199.49;SAR=0;SRF=78;SRP=172.385;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:85:0,85:0:0:85:3036:-273.398,-25.5876,0 1/1:31:0,31:0:0:31:1108:-99.9779,-9.33193,0 1/1:41:0,41:0:0:41:1476:-133.118,-12.3422,0 0/1:21:6,15:6:216:15:536:-42.2235,0,-13.4689 1/1:30:0,30:0:0:30:1060:-95.6383,-9.0309,0 1/1:19:0,19:0:0:19:676:-61.1598,-5.71957,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 0/1:35:23,12:23:810:12:428:-28.305,0,-62.683 0/1:28:4,24:4:144:24:849:-68.2847,0,-4.88478 0/1:5:4,1:4:136:1:36:-2.09312,0,-11.0704 0/1:13:9,4:9:324:4:136:-8.01796,0,-25.5925 0/1:13:10,3:10:356:3:108:-6.14357,0,-28.4679 0/1:20:2,18:2:72:18:631:-51.0726,0,-0.816122 0/1:38:13,25:13:464:25:896:-69.4763,0,-30.6584 1/1:55:0,55:0:0:55:1933:-174.112,-16.5567,0 1/1:30:0,30:0:0:30:1076:-97.1529,-9.0309,0 1/1:46:0,46:0:0:46:1639:-147.704,-13.8474,0 0/1:24:5,19:5:180:19:684:-54.6641,0,-9.32734 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 1/1:37:0,37:0:0:37:1323:-119.337,-11.1381,0 1/1:24:0,24:0:0:24:860:-77.5918,-7.22472,0 chr11 27105282 . T C 40065.5 PASS AB=0.53719;ABP=16.093;AC=31;AF=0.738095;AN=42;AO=1891;CIGAR=1X;DP=2410;DPB=2410;DPRA=0;EPP=4083.25;EPPR=1112.7;GTI=1;LEN=1;MEANALT=1;MQM=59.9683;MQMR=59.9807;NS=21;NUMALT=1;ODDS=2.06678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67572;QR=18590;RO=519;RPL=3;RPP=4083.25;RPPR=1121.34;RPR=1888;RUN=1;SAF=1891;SAP=4109.26;SAR=0;SRF=518;SRP=1121.34;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,124:0:0:124:4456:-401.209,-37.3277,0 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 1/1:274:0,274:0:0:274:9779:-880.041,-82.4822,0 0/1:74:34,40:34:1215:40:1424:-106.181,0,-87.3795 1/1:211:10,201:10:360:201:7196:-614.948,-30.773,0 0/1:123:52,71:52:1868:71:2540:-191.824,0,-131.373 1/1:94:1,93:1:36:93:3317:-295.149,-24.6985,0 0/1:142:70,72:70:2485:72:2574:-188.892,0,-181.156 0/1:170:87,83:87:3109:83:2960:-215.459,0,-228.86 0/1:33:21,12:21:756:12:428:-28.9248,0,-58.4332 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:45:24,21:24:864:21:756:-54.8209,0,-64.5362 0/1:133:65,68:65:2332:68:2387:-175.04,0,-170.103 0/1:148:70,78:70:2505:78:2800:-207.687,0,-181.134 1/1:248:0,248:0:0:248:8845:-796.038,-74.6554,0 1/1:40:0,40:0:0:40:1432:-129.178,-12.0412,0 1/1:88:1,87:1:36:87:3115:-276.974,-22.8924,0 0/1:151:60,91:60:2160:91:3268:-248.884,0,-149.211 0/1:63:18,45:18:648:45:1620:-127.125,0,-39.687 1/1:112:3,109:3:108:109:3889:-340.127,-23.6402,0 1/1:75:0,75:0:0:75:2670:-240.546,-22.5773,0 chr11 27105400 . AATGT TATGT,TATGGT 40915.4 PASS AB=0.494658,0.5;ABP=3.24229,3.0103;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1466,471;CIGAR=1X4M,1X2M1I2M;DP=1947;DPB=2041.8;DPRA=0,0.847648;EPP=3186.39,1025.77;EPPR=0;GTI=0;LEN=1,6;MEANALT=2.04762,2.5;MQM=60,59.8301;MQMR=0;NS=21;NUMALT=2;ODDS=15.1714;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51643,16642;QR=0;RO=0;RPL=1466,471;RPP=3186.39,1025.77;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3186.39,1025.77;SAR=1466,471;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:117:0,117,0:0:0:117,0:4118,0:-370.808,-35.2205,0,-370.808,-35.2205,-370.808 1/1:43:0,43,0:0:0:43,0:1524,0:-137.453,-12.9443,0,-137.453,-12.9443,-137.453 1/1:97:0,93,3:0:0:93,3:3253,107:-292.638,-27.9958,0,-283.916,-19.2757,-283.013 1/2:191:0,98,92:0:0:98,92:3464,3230:-544.761,-262.638,-233.137,-282.155,0,-254.46 1/1:221:0,219,0:0:0:219,0:7732,0:-695.605,-65.9256,0,-695.605,-65.9256,-695.605 1/2:89:0,48,41:0:0:48,41:1685,1463:-256.755,-119.624,-105.175,-137.485,0,-125.143 1/1:135:0,134,0:0:0:134,0:4712,0:-423.885,-40.338,0,-423.885,-40.338,-423.885 1/2:43:0,23,20:0:0:23,20:824,704:-124.869,-57.6637,-50.74,-67.5596,0,-61.539 1/2:282:0,122,157:0:0:122,157:4303,5577:-804.882,-454.509,-417.784,-350.437,0,-303.175 1/2:8:0,3,5:0:0:3,5:104,179:-23.4042,-14.9552,-14.0522,-8.79971,0,-7.29456 1/2:6:0,1,5:0:0:1,5:32,178:-17.4359,-14.8636,-14.5625,-2.89828,0,-1.39313 1/2:27:0,16,11:0:0:16,11:564,394:-78.4084,-32.4902,-27.6738,-46.2738,0,-42.9625 1/2:121:0,51,69:0:0:51,69:1782,2432:-342.942,-197.987,-182.634,-144.966,0,-124.195 1/2:65:0,27,38:0:0:27,38:952,1316:-184.816,-107.299,-99.1708,-77.8674,0,-66.4282 1/1:103:0,103,0:0:0:103,0:3618,0:-325.828,-31.0061,0,-325.828,-31.0061,-325.828 1/1:65:0,65,0:0:0:65,0:2287,0:-206.09,-19.567,0,-206.09,-19.567,-206.09 1/1:66:0,66,0:0:0:66,0:2356,0:-212.299,-19.868,0,-212.299,-19.868,-212.299 1/2:49:0,32,17:0:0:32,17:1144,596:-142.128,-48.8442,-39.2113,-93.6366,0,-88.519 1/2:55:0,42,13:0:0:42,13:1492,466:-159.894,-38.3202,-25.6769,-121.931,0,-118.018 1/1:127:0,126,0:0:0:126,0:4380,0:-394.03,-37.9298,0,-394.03,-37.9298,-394.03 1/1:37:0,37,0:0:0:37,0:1317,0:-118.83,-11.1381,0,-118.83,-11.1381,-118.83 chr11 27145672 . GGTT AGTT,AGTC 30127.2 PASS AB=0.501992,0.486056;ABP=3.0276,3.85813;AC=31,11;AF=0.738095,0.261905;AN=42;AO=890,245;CIGAR=1X3M,1X2M1X;DP=1146;DPB=1146.25;DPRA=0,0.945266;EPP=288.386,215.948;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=1.90476,2.41667;MQM=60,60;MQMR=60;NS=21;NUMALT=2;ODDS=11.2848;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=31789,8610;QR=36;RO=1;RPL=616,200;RPP=288.386,215.948;RPPR=5.18177;RPR=274,45;RUN=1,1;SAF=0,0;SAP=1935.62,535.021;SAR=890,245;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54,0:0:0:54,0:1916,0:-172.715,-16.2556,0,-172.715,-16.2556,-172.715 1/1:33:0,33,0:0:0:33,0:1180,0:-106.508,-9.93399,0,-106.508,-9.93399,-106.508 1/1:74:0,74,0:0:0:74,0:2637,0:-237.577,-22.2762,0,-237.577,-22.2762,-237.577 1/2:68:0,35,33:0:0:35,33:1260,1155:-197.136,-94.3217,-83.7857,-103.169,0,-93.2354 1/1:83:0,83,0:0:0:83,0:2976,0:-268.072,-24.9855,0,-268.072,-24.9855,-268.072 1/2:39:0,24,15:0:0:24,15:860,519:-112.668,-42.5216,-35.2969,-70.4971,0,-65.9817 1/1:109:0,109,0:0:0:109,0:3883,0:-349.664,-32.8123,0,-349.664,-32.8123,-349.664 1/2:52:0,26,26:0:0:26,26:936,891:-149.054,-72.6729,-64.8461,-76.7327,0,-68.9059 1/2:123:0,62,57:0:0:62,57:2216,1999:-343.35,-162.665,-144.001,-180.68,0,-163.521 1/2:8:0,4,4:0:0:4,4:144,144:-23.8592,-12.1095,-10.9054,-12.1095,0,-10.9054 1/2:6:0,3,3:0:0:3,3:99,108:-17.1607,-9.17208,-8.26899,-8.33349,0,-7.4304 1/2:20:0,12,8:0:0:12,8:428,287:-58.6569,-23.7682,-20.1559,-35.2464,0,-32.8382 1/2:31:0,12,19:0:0:12,19:432,675:-90.609,-55.3582,-51.7458,-35.6088,0,-29.8893 1/2:64:0,30,34:0:0:30,34:1064,1196:-184.397,-97.7096,-88.6787,-87.0408,0,-76.8057 1/1:137:0,134,1:0:0:134,1:4767,35:-428.832,-40.338,0,-425.984,-37.4936,-425.683 1/1:29:0,29,0:0:0:29,0:1044,0:-94.2748,-8.72987,0,-94.2748,-8.72987,-94.2748 1/1:46:1,45,0:1:36:45,0:1620,0:-142.492,-10.2491,0,-142.793,-13.5464,-145.73 1/2:51:0,16,33:0:0:16,33:560,1174:-141.232,-95.674,-90.8576,-45.5518,0,-35.6178 1/2:40:0,28,12:0:0:28,12:1004,427:-117.046,-35.1559,-26.7271,-82.247,0,-78.6347 1/1:51:0,49,0:0:0:49,0:1764,0:-158.794,-14.7505,0,-158.794,-14.7505,-158.794 1/1:28:0,28,0:0:0:28,0:999,0:-90.2245,-8.42884,0,-90.2245,-8.42884,-90.2245 chr11 27292993 . T C 56172 PASS AB=0.747604;ABP=503.039;AC=32;AF=0.761905;AN=42;AO=2656;CIGAR=1X;DP=3086;DPB=3086;DPRA=0;EPP=5770.44;EPPR=936.743;GTI=6;LEN=1;MEANALT=1;MQM=48.8343;MQMR=23.3535;NS=21;NUMALT=1;ODDS=2.96176;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=95141;QR=15382;RO=430;RPL=0;RPP=5770.44;RPPR=936.743;RPR=2656;RUN=1;SAF=2656;SAP=5770.44;SAR=0;SRF=430;SRP=936.743;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:15,64:15:536:64:2296:-181.226,0,-9.32287 1/1:72:7,65:7:252:65:2328:-193.481,-6.48357,0 0/1:172:27,145:27:972:145:5196:-410.285,0,-4.4588 1/1:176:25,151:25:881:151:5416:-430.638,-2.08335,0 1/1:438:52,386:52:1864:386:13836:-1125.72,-21.7161,0 1/1:116:5,111:5:180:111:3968:-344.545,-24.6706,0 1/1:196:23,173:23:813:173:6192:-505.525,-12.0299,0 0/1:179:29,150:29:1044:150:5384:-426.906,0,-6.69448 1/1:255:20,235:20:716:235:8395:-711.229,-37.1787,0 0/1:6:2,4:2:72:4:144:-11.4353,0,-2.6136 0/1:6:1,5:1:36:5:180:-14.6561,0,-0.56735 0/1:41:7,34:7:252:34:1224:-97.1942,0,-1.60084 1/1:204:20,184:20:720:184:6571:-549.3,-23.231,0 1/1:145:16,129:16:561:129:4632:-383.448,-12.8608,0 1/1:191:11,180:11:396:180:6441:-552.319,-34.6378,0 1/1:219:1,218:1:36:218:7804:-692.926,-63.552,0 1/1:135:13,122:13:464:122:4380:-364.155,-13.7318,0 0/1:118:47,71:47:1680:71:2556:-191.335,0,-64.664 0/1:94:33,61:33:1184:61:2183:-167.013,0,-38.2016 0/1:154:45,109:45:1616:109:3924:-303.407,0,-46.0214 0/1:90:31,59:31:1107:59:2091:-159.961,0,-37.482 chr11 27292996 . G C 208.644 PASS AB=0.247368;ABP=529.65;AC=10;AF=0.238095;AN=42;AO=418;CIGAR=1X;DP=3093;DPB=3093;DPRA=0;EPP=910.686;EPPR=5807.36;GTI=6;LEN=1;MEANALT=1.04762;MQM=23.4187;MQMR=48.7059;NS=21;NUMALT=1;ODDS=1.7914;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14916;QR=95592;RO=2673;RPL=0;RPP=910.686;RPPR=5807.36;RPR=418;RUN=1;SAF=418;SAP=910.686;SAR=0;SRF=2673;SRP=5807.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:65,14:65:2321:14:500:-6.58142,0,-183.412 0/0:72:65,7:65:2336:7:248:0,-6.51756,-194.207 0/1:176:150,26:150:5365:26:927:-1.15012,0,-424.184 0/0:175:154,21:154:5498:21:756:0,-8.89555,-441.217 0/0:435:386,49:386:13788:49:1760:0,-26.4701,-1122.78 0/0:115:112,3:112:3993:3:108:0,-27.9726,-347.551 0/0:199:176,23:176:6296:23:820:0,-12.658,-514.627 0/1:181:151,30:151:5405:30:1076:-8.19522,0,-428.193 0/0:251:231,20:231:8273:20:712:0,-35.9966,-700.009 0/1:6:4,2:4:144:2:63:-2.496,0,-11.4353 0/1:6:5,1:5:180:1:36:-0.56735,0,-14.6561 0/1:42:36,6:36:1296:6:216:-0.237605,0,-101.186 0/0:203:183,20:183:6523:20:720:0,-22.93,-545.487 0/0:146:131,15:131:4674:15:528:0,-13.8289,-385.992 0/0:189:178,11:178:6351:11:392:0,-34.0695,-544.448 0/0:221:217,2:217:7784:2:68:0,-62.6821,-691.819 0/0:137:125,12:125:4488:12:432:0,-15.3696,-373.056 0/1:121:74,47:74:2641:47:1684:-63.8656,0,-196.964 0/1:93:60,33:60:2147:33:1171:-38.2864,0,-164.098 0/1:155:110,45:110:3933:45:1600:-45.5862,0,-303.948 0/1:91:60,31:60:2156:31:1099:-37.3729,0,-163.442 chr11 27301873 . A G 28072.1 PASS AB=0.734694;ABP=354.656;AC=30;AF=0.714286;AN=42;AO=1340;CIGAR=1X;DP=1535;DPB=1535;DPRA=0;EPP=2878.14;EPPR=424.276;GTI=3;LEN=1;MEANALT=1.04762;MQM=59.9873;MQMR=59.9175;NS=21;NUMALT=1;ODDS=0.420968;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47297;QR=6908;RO=194;RPL=1336;RPP=2878.14;RPPR=424.276;RPR=4;RUN=1;SAF=1340;SAP=2912.78;SAR=0;SRF=194;SRP=424.276;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,91:0:0:91:3239:-291.732,-27.3937,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 1/1:83:0,83:0:0:83:2946:-265.375,-24.9855,0 0/1:40:9,31:9:311:31:1108:-87.9898,0,-16.2825 1/1:236:0,236:0:0:236:8299:-746.933,-71.0431,0 0/1:46:15,31:15:532:31:1090:-84.5572,0,-34.3657 0/1:46:9,37:9:324:37:1295:-103.003,0,-15.6585 0/1:78:15,63:15:536:63:2230:-177.483,0,-25.0945 0/1:101:30,71:30:1072:71:2533:-197.816,0,-66.3323 0/1:8:2,6:2:72:6:212:-17.0166,0,-4.42848 0/1:6:1,5:1:36:5:180:-14.7459,0,-1.79209 0/1:35:13,22:13:468:22:779:-59.896,0,-31.9236 0/1:163:52,111:52:1856:111:3923:-304.199,0,-118.252 0/1:72:20,52:20:701:52:1791:-139.795,0,-41.7376 1/1:138:0,138:0:0:138:4828:-434.68,-41.5421,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 1/1:31:0,31:0:0:31:1108:-100.031,-9.33193,0 0/1:81:18,62:18:640:62:2202:-174.091,0,-33.5724 0/1:59:10,49:10:360:49:1722:-137.502,0,-14.9835 1/1:130:0,130:0:0:130:4592:-413.449,-39.1339,0 1/1:56:0,56:0:0:56:1968:-177.393,-16.8577,0 chr11 27315103 . TTGATG ACGATA,ACGATG 33000 PASS AB=0.400402,0.591549;ABP=88.6546,75.3723;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1101,592;CIGAR=2X3M1X,2X4M;DP=1709;DPB=1709;DPRA=0,1.28392;EPP=2393.8,1288.52;EPPR=0;GTI=1;LEN=6,2;MEANALT=2.38095,2.78571;MQM=40.6158,31.098;MQMR=0;NS=21;NUMALT=2;ODDS=0.955154;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38552,18015;QR=0;RO=0;RPL=0,251;RPP=2393.8,32.7213;RPPR=0;RPR=1101,341;RUN=1,1;SAF=0,251;SAP=2393.8,32.7213;SAR=1101,341;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88,0:0:0:88,0:3080,0:-267.682,-26.4906,0,-267.682,-26.4906,-267.682 1/1:68:0,66,0:0:0:66,0:2308,0:-195.419,-19.868,0,-195.419,-19.868,-195.419 1/1:82:0,82,0:0:0:82,0:2880,0:-248.151,-24.6845,0,-248.151,-24.6845,-248.151 1/2:100:0,30,70:0:0:30,70:1042,2167:-239.127,-156.794,-147.763,-82.654,0,-61.5819 1/1:85:0,80,2:0:0:80,2:2799,58:-243.262,-24.0824,0,-238.988,-19.8344,-238.386 1/2:77:0,22,53:0:0:22,53:782,1470:-162.5,-102.655,-96.0322,-59.8545,0,-43.8999 1/2:121:0,48,73:0:0:48,73:1682,2082:-275.631,-146.691,-132.241,-129.243,0,-107.267 1/2:104:0,34,70:0:0:34,70:1173,2055:-236.971,-145.639,-135.404,-91.6416,0,-70.5695 1/2:132:0,72,59:0:0:72,59:2516,2068:-353.488,-153.163,-131.488,-200.444,0,-182.683 1/2:13:0,4,9:0:0:4,9:142,239:-27.9189,-16.7877,-15.5836,-11.441,0,-8.73172 1/2:6:0,1,5:0:0:1,5:36,137:-12.7882,-10.0257,-9.72471,-3.08657,0,-1.58142 1/2:34:0,7,26:0:0:7,26:249,789:-75.6615,-56.2021,-54.0949,-19.4309,0,-11.6041 1/2:114:0,54,59:0:0:54,59:1881,1907:-287.229,-138.86,-122.604,-148.329,0,-130.568 1/2:109:0,42,66:0:0:42,66:1483,2028:-263.334,-145.777,-133.134,-117.611,0,-97.7431 1/1:151:0,149,2:0:0:149,2:5224,72:-455.693,-44.8535,0,-449.822,-38.6237,-449.22 1/1:45:0,45,0:0:0:45,0:1565,0:-138.301,-13.5464,0,-138.301,-13.5464,-138.301 1/1:55:0,53,0:0:0:53,0:1871,0:-164.023,-15.9546,0,-164.023,-15.9546,-164.023 1/2:114:0,48,65:0:0:48,65:1658,1939:-266.84,-137.951,-123.502,-128.953,0,-109.386 1/2:70:0,36,33:0:0:36,33:1260,1004:-171.681,-72.6203,-61.7832,-99.0345,0,-89.1005 1/1:85:0,85,0:0:0:85,0:2971,0:-256.484,-25.5876,0,-256.484,-25.5876,-256.484 1/1:56:0,55,0:0:0:55,0:1950,0:-163.902,-16.5567,0,-163.902,-16.5567,-163.902 chr11 27315114 . G A 21068.4 PASS AB=0.406989;ABP=76.124;AC=30;AF=0.714286;AN=42;AO=1101;CIGAR=1X;DP=1682;DPB=1682;DPRA=0;EPP=2367.81;EPPR=1264.64;GTI=1;LEN=1;MEANALT=1;MQM=40.8302;MQMR=31.2272;NS=21;NUMALT=1;ODDS=0.075761;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39421;QR=20519;RO=581;RPL=3;RPP=2367.81;RPPR=33.9603;RPR=1098;RUN=1;SAF=0;SAP=2393.8;SAR=1101;SRF=245;SRP=33.9603;SRR=336;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:1,88:1:36:88:3153:-270.498,-23.8109,0 1/1:67:0,67:0:0:67:2404:-203.374,-20.169,0 1/1:82:0,82:0:0:82:2931:-251.853,-24.6845,0 0/1:99:69,30:69:2441:30:1071:-64.1586,0,-157.143 1/1:82:1,81:1:36:81:2908:-248.923,-21.5608,0 0/1:75:53,22:53:1875:22:792:-44.836,0,-107.39 0/1:116:69,47:69:2431:47:1684:-108.113,0,-138.341 0/1:103:71,32:71:2486:32:1129:-66.9842,0,-148.763 0/1:131:60,71:60:2144:71:2543:-185.515,0,-135.167 0/1:12:8,4:8:284:4:144:-9.16926,0,-15.3266 0/1:6:5,1:5:176:1:36:-1.58142,0,-11.1564 0/1:31:23,8:23:828:8:280:-15.3606,0,-51.9175 0/1:113:59,54:59:2083:54:1936:-135.316,0,-129.655 0/1:106:63,43:63:2213:43:1543:-103.202,0,-135.546 1/1:148:0,148:0:0:148:5283:-459.748,-44.5524,0 1/1:45:1,44:1:36:44:1580:-136.297,-10.4227,0 1/1:54:0,54:0:0:54:1927:-169.086,-16.2556,0 0/1:112:65,47:65:2297:47:1688:-111.504,0,-136.073 0/1:69:32,37:32:1121:37:1332:-94.8972,0,-64.1702 1/1:84:0,84:0:0:84:3024:-260.869,-25.2865,0 1/1:58:1,57:1:32:57:2033:-166.865,-14.2604,0 chr11 27325387 . C A 30400.2 PASS AB=0.534524;ABP=11.7065;AC=30;AF=0.714286;AN=42;AO=1447;CIGAR=1X;DP=1842;DPB=1842;DPRA=0;EPP=3145.13;EPPR=858.57;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.7077;MQMR=59.797;NS=21;NUMALT=1;ODDS=6.30188;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51511;QR=14073;RO=394;RPL=0;RPP=3145.13;RPPR=858.57;RPR=1447;RUN=1;SAF=1447;SAP=3145.13;SAR=0;SRF=394;SRP=858.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:190:0,190:0:0:190:6714:-604.298,-57.1957,0 1/1:72:0,72:0:0:72:2572:-231.699,-21.6742,0 1/1:60:0,60:0:0:60:2133:-192.232,-18.0618,0 0/1:71:32,39:32:1152:39:1392:-104.19,0,-82.6147 1/1:251:1,250:1:36:250:8906:-797.872,-71.9603,0 0/1:72:34,38:34:1216:38:1364:-101.376,0,-88.0691 0/1:174:91,83:91:3256:83:2961:-214.284,0,-240.862 0/1:70:33,37:33:1184:37:1313:-97.3481,0,-85.787 0/1:122:49,72:49:1752:72:2580:-195.665,0,-121.179 0/1:12:6,6:6:212:6:216:-16.1554,0,-15.8124 0/1:8:5,3:5:176:3:108:-7.66693,0,-13.7734 0/1:19:8,11:8:284:11:392:-29.8958,0,-20.1838 0/1:82:37,45:37:1305:45:1608:-120.314,0,-93.0649 0/1:61:34,27:34:1208:27:949:-67.3553,0,-90.6539 1/1:118:0,118:0:0:118:4178:-376.195,-35.5215,0 1/1:78:0,78:0:0:78:2804:-252.588,-23.4803,0 1/1:82:0,82:0:0:82:2929:-263.794,-24.6845,0 0/1:77:39,38:39:1396:38:1353:-98.8809,0,-102.755 0/1:72:22,50:22:788:50:1780:-138.809,0,-49.5706 1/1:82:3,79:3:108:79:2813:-243.209,-14.6093,0 1/1:69:0,69:0:0:69:2446:-220.383,-20.7711,0 chr11 27325434 . GCTACA GCA,GCC 35903.7 PASS AB=0.513447,0.48533;ABP=4.29513,4.53936;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1324,401;CIGAR=1M3D2M,1M3D1M1X;DP=1729;DPB=864.5;DPRA=0,0.794162;EPP=2878.04,873.771;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.7619,2.07143;MQM=59.7847,59.7531;MQMR=0;NS=21;NUMALT=2;ODDS=6.93847;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46269,14011;QR=0;RO=0;RPL=1324,401;RPP=2878.04,873.771;RPPR=0;RPR=0,0;RUN=1,1;SAF=1324,401;SAP=2878.04,873.771;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:172:0,171,1:0:0:171,1:5988,36:-538.657,-51.4761,0,-535.722,-48.1815,-535.421 1/1:69:0,69,0:0:0:69,0:2402,0:-216.432,-20.7711,0,-216.432,-20.7711,-216.432 1/1:53:0,53,0:0:0:53,0:1851,0:-166.862,-15.9546,0,-166.862,-15.9546,-166.862 1/2:65:0,32,33:0:0:32,33:1106,1150:-183.716,-93.8672,-84.2343,-90.1958,0,-80.2618 1/1:229:0,226,0:0:0:226,0:7881,0:-708.949,-68.0328,0,-708.949,-68.0328,-708.949 1/2:70:0,35,35:0:0:35,35:1235,1236:-201.558,-101.006,-90.4696,-100.905,0,-90.3689 1/2:171:0,75,95:0:0:75,95:2601,3364:-485.358,-274.001,-251.424,-211.348,0,-182.75 1/2:71:0,37,34:0:0:37,34:1268,1206:-201.518,-98.5986,-87.4605,-103.268,0,-93.0334 1/2:117:0,69,48:0:0:69,48:2456,1674:-336.666,-136.493,-115.722,-200.524,0,-186.075 1/2:12:0,6,6:0:0:6,6:207,205:-33.7724,-16.9775,-15.1713,-17.1379,0,-15.3318 1/2:8:0,3,5:0:0:3,5:108,159:-21.9454,-13.1175,-12.2144,-9.17208,0,-7.66693 1/2:17:0,10,7:0:0:10,7:352,250:-49.3879,-20.7395,-17.7292,-29.0032,0,-26.896 1/2:79:0,42,37:0:0:42,37:1419,1292:-220.447,-105.439,-92.7962,-115.351,0,-104.213 1/2:60:0,26,34:0:0:26,34:900,1160:-167.595,-94.4544,-86.6276,-73.4844,0,-63.2494 1/1:106:0,106,0:0:0:106,0:3783,0:-340.664,-31.9092,0,-340.664,-31.9092,-340.664 1/1:73:0,73,0:0:0:73,0:2547,0:-229.477,-21.9752,0,-229.477,-21.9752,-229.477 1/1:74:0,74,0:0:0:74,0:2617,0:-235.774,-22.2762,0,-235.774,-22.2762,-235.774 1/2:77:0,38,39:0:0:38,39:1293,1350:-214.927,-110.051,-98.6116,-105.219,0,-93.4789 1/2:71:0,47,24:0:0:47,24:1651,828:-201.992,-67.6104,-53.4619,-134.729,0,-127.504 1/1:71:0,68,3:0:0:68,3:2376,101:-213.756,-20.47,0,-205.573,-11.95,-204.67 1/1:64:0,64,0:0:0:64,0:2228,0:-200.781,-19.2659,0,-200.781,-19.2659,-200.781 chr11 27325511 . GCG GCA,ACA 38265.3 PASS AB=0.594329,0.405671;ABP=73.8827,73.8827;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1420,377;CIGAR=2M1X,1X1M1X;DP=1800;DPB=1800;DPRA=0,1.009;EPP=3086.5,821.655;EPPR=0;GTI=1;LEN=1,3;MEANALT=1.85714,2.13333;MQM=59.9676,59.87;MQMR=0;NS=21;NUMALT=2;ODDS=2.51746;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50813,13234;QR=0;RO=0;RPL=0,0;RPP=3086.5,821.655;RPPR=0;RPR=1420,377;RUN=1,1;SAF=0,0;SAP=3086.5,821.655;SAR=1420,377;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:125:0,124,1:0:0:124,1:4451,36:-400.396,-37.3277,0,-397.459,-34.0305,-397.158 1/1:77:0,77,0:0:0:77,0:2751,0:-247.828,-23.1793,0,-247.828,-23.1793,-247.828 1/1:137:0,137,0:0:0:137,0:4898,0:-440.972,-41.2411,0,-440.972,-41.2411,-440.972 1/2:83:0,56,27:0:0:56,27:2012,951:-241.918,-77.7774,-60.9197,-164.495,0,-156.368 1/1:125:0,123,1:0:0:123,1:4416,31:-397.347,-37.0267,0,-394.859,-34.4882,-394.558 1/2:56:0,31,25:0:0:31,25:1103,881:-161.974,-72.0814,-62.7494,-90.2464,0,-82.7206 1/2:113:0,61,52:0:0:61,52:2188,1824:-327.254,-148.785,-130.422,-178.823,0,-163.169 1/2:95:0,60,35:0:0:60,35:2148,1221:-274.825,-99.6532,-81.5914,-175.524,0,-164.988 1/2:154:0,83,71:0:0:83,71:2967,2482:-444.178,-202.254,-177.268,-242.277,0,-220.904 1/2:10:0,5,5:0:0:5,5:180,177:-29.461,-14.7709,-13.2658,-15.0469,0,-13.5418 1/2:4:0,1,3:0:0:1,3:36,105:-11.8328,-8.89288,-8.59185,-3.29724,0,-2.39415 1/2:23:0,17,6:0:0:17,6:612,216:-67.9204,-17.9843,-12.8668,-50.2959,0,-48.4897 1/2:79:0,46,33:0:0:46,33:1643,1169:-229.534,-95.5783,-81.731,-134.31,0,-124.377 1/2:177:0,115,62:0:0:115,62:4100,2162:-510.371,-176.158,-141.54,-334.564,0,-315.9 1/1:130:0,129,0:0:0:129,0:4619,0:-415.622,-38.8329,0,-415.622,-38.8329,-415.622 1/1:65:0,65,0:0:0:65,0:2332,0:-210.14,-19.567,0,-210.14,-19.567,-210.14 1/1:122:0,118,3:0:0:118,3:4232,108:-380.712,-35.5215,0,-371.9,-26.5969,-370.997 1/2:66:0,37,29:0:0:37,29:1316,1019:-190.542,-83.2911,-72.153,-107.604,0,-98.8738 1/2:57:0,33,24:0:0:33,24:1171,852:-165.179,-69.7706,-59.8366,-95.7627,0,-88.538 1/1:63:0,63,0:0:0:63,0:2234,0:-201.323,-18.9649,0,-201.323,-18.9649,-201.323 1/1:39:0,39,0:0:0:39,0:1404,0:-126.659,-11.7402,0,-126.659,-11.7402,-126.659 chr11 27331121 . TTTAT ATTAA,TTTAA 41039.5 PASS AB=0.544658,0.454466;ABP=22.7931,23.5765;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1475,525;CIGAR=1X3M1X,4M1X;DP=2003;DPB=2003.6;DPRA=0,1.19746;EPP=3205.93,1143.03;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.80952,2.14286;MQM=44.5166,58.5543;MQMR=0;NS=21;NUMALT=2;ODDS=5.65933;PAIRED=0,0;PAIREDR=0;PAO=1,0.5;PQA=36,18;PQR=18;PRO=0.5;QA=51954,18784;QR=0;RO=0;RPL=1475,525;RPP=3205.93,1143.03;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3205.93,1143.03;SAR=1475,525;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:0,157,0:0:0:157,0:5496,0:-486.909,-47.2617,0,-486.909,-47.2617,-486.909 1/1:60:0,60,0:0:0:60,0:2115,0:-187.037,-18.0618,0,-187.037,-18.0618,-187.037 1/1:54:0,54,0:0:0:54,0:1911,0:-170.051,-16.2556,0,-170.051,-16.2556,-170.051 1/2:129:0,66,63:0:0:66,63:2318,2264:-369.664,-184.467,-164.599,-185.549,0,-166.584 1/1:182:0,177,4:0:0:177,4:6197,144:-548.085,-53.2823,0,-536.372,-41.5022,-535.168 1/2:105:0,52,53:0:0:52,53:1848,1885:-302.737,-153.972,-138.318,-149.118,0,-133.164 1/2:123:0,80,43:0:0:80,43:2811,1535:-351.087,-125.426,-101.344,-226.013,0,-213.069 1/2:55:0,27,28:0:0:27,28:961,1004:-159.394,-82.2021,-74.0743,-77.5461,0,-69.1173 1/2:258:0,121,137:0:0:121,137:4242,4895:-737.083,-398.486,-362.061,-338.947,0,-297.706 1/2:13:0,9,4:0:0:9,4:320,144:-37.8116,-12.1095,-9.40023,-26.0592,0,-24.8551 1/2:8:0,5,3:0:0:5,3:169,108:-22.7329,-9.17208,-7.66693,-13.9114,0,-13.0083 1/2:56:0,27,29:0:0:27,29:968,1044:-162.438,-85.5449,-77.4171,-77.2473,0,-68.5174 1/2:144:0,79,65:0:0:79,65:2785,2321:-411.976,-189.551,-165.77,-222.776,0,-203.21 1/2:124:0,70,54:0:0:70,54:2455,1940:-354.31,-158.556,-137.484,-196.106,0,-179.851 1/1:144:0,144,0:0:0:144,0:5088,0:-449.421,-43.3483,0,-449.421,-43.3483,-449.421 1/1:50:0,50,0:0:0:50,0:1764,0:-155.816,-15.0515,0,-155.816,-15.0515,-155.816 1/1:72:0,72,0:0:0:72,0:2537,0:-222.752,-21.6742,0,-222.752,-21.6742,-222.752 1/2:57:0,37,19:0:0:37,19:1319,680:-161.459,-55.4689,-44.3308,-106.053,0,-100.333 1/2:70:0,49,21:0:0:49,21:1725,748:-198.721,-61.2715,-46.521,-137.802,0,-131.48 1/1:89:0,87,2:0:0:87,2:3081,72:-272.77,-26.1896,0,-266.895,-20.3549,-266.293 1/1:52:0,52,0:0:0:52,0:1844,0:-163.762,-15.6536,0,-163.762,-15.6536,-163.762 chr11 27374006 . TCCTTTTTAAC TCATTTTAAC,TTCTTTTAAC 44155.4 PASS AB=0.506885,0.487952;ABP=3.4887,4.47539;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1753,579;CIGAR=1M1D1M1X7M,1M1X1M1D7M;DP=2344;DPB=2130.91;DPRA=0,0.725559;EPP=3766.3,1260.29;EPPR=0;GTI=1;LEN=10,10;MEANALT=2.38095,2.47059;MQM=37.3976,36.6684;MQMR=0;NS=21;NUMALT=2;ODDS=8.12778;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=61246,20103;QR=0;RO=0;RPL=5,2;RPP=3766.3,1242.98;RPPR=0;RPR=1748,577;RUN=1,1;SAF=0,2;SAP=3809.6,1242.98;SAR=1753,577;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,75,3:0:0:75,3:2615,108:-223.534,-22.5773,0,-215.193,-13.8943,-214.29 1/1:120:0,119,0:0:0:119,0:4115,0:-338.735,-35.8226,0,-338.735,-35.8226,-338.735 1/1:101:0,97,4:0:0:97,4:3456,142:-295.469,-29.1999,0,-284.476,-17.8689,-283.272 1/2:117:0,68,49:0:0:68,49:2419,1724:-318.762,-132.617,-112.147,-186.48,0,-171.729 1/1:250:0,249,1:0:0:249,1:8739,36:-747.43,-74.9565,0,-744.65,-71.8339,-744.349 1/2:116:0,55,60:0:0:55,60:1915,2024:-289.354,-148.41,-131.853,-141.026,0,-122.965 1/2:233:0,102,130:0:0:102,130:3439,4402:-576.2,-323.534,-292.829,-252.745,0,-213.611 1/2:80:0,46,34:0:0:46,34:1585,1196:-208.62,-90.3791,-76.5317,-118.565,0,-108.33 1/2:104:0,59,45:0:0:59,45:2085,1599:-284.588,-123.913,-106.152,-161.013,0,-147.467 1/2:22:0,11,11:0:0:11,11:393,375:-58.3248,-28.8165,-25.5052,-29.8346,0,-26.5233 1/2:4:0,3,1:0:0:3,1:105,35:-10.6323,-2.89801,-1.99492,-8.05422,0,-7.75319 1/2:25:0,12,13:0:0:12,13:388,448:-62.6304,-33.8115,-30.1992,-29.1285,0,-25.2151 1/2:158:0,66,91:0:0:66,91:2301,3216:-423.754,-247.243,-227.375,-176.527,0,-149.133 1/2:99:0,40,58:0:0:40,58:1383,2035:-262.789,-156.538,-144.497,-106.3,0,-88.8403 1/1:242:0,241,0:0:0:241,0:8498,0:-726.412,-72.5482,0,-726.412,-72.5482,-726.412 1/1:134:0,134,0:0:0:134,0:4696,0:-402.331,-40.338,0,-402.331,-40.338,-402.331 1/1:77:0,75,1:0:0:75,1:2647,36:-226.566,-22.5773,0,-223.786,-19.7436,-223.485 1/2:115:0,62,53:0:0:62,53:2158,1832:-299.041,-137.495,-118.831,-161.867,0,-145.913 1/2:89:0,65,22:0:0:65,22:2290,787:-237.479,-60.4988,-40.9319,-176.988,0,-170.365 1/1:102:0,98,3:0:0:98,3:3450,108:-288.839,-29.5009,0,-280.708,-21.3134,-279.805 1/1:78:0,76,0:0:0:76,0:2569,0:-211.28,-22.8783,0,-211.28,-22.8783,-211.28 chr11 27430908 . ATCG GTCG,GTCA 10906.5 PASS AB=0.460674,0.530899;ABP=7.79242,5.96253;AC=30,12;AF=0.714286,0.285714;AN=42;AO=355,189;CIGAR=1X3M,1X2M1X;DP=549;DPB=549;DPRA=0,1.38342;EPP=773.883,413.419;EPPR=0;GTI=0;LEN=1,4;MEANALT=1.7619,2.16667;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.9699;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=12546,6393;QR=0;RO=0;RPL=0,0;RPP=773.883,413.419;RPPR=0;RPR=355,189;RUN=1,1;SAF=0,0;SAP=773.883,413.419;SAR=355,189;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:17:0,17,0:0:0:17,0:593,0:-53.6947,-5.11751,0,-53.6947,-5.11751,-53.6947 1/1:5:0,5,0:0:0:5,0:176,0:-16.185,-1.50515,0,-16.185,-1.50515,-16.185 1/1:41:0,40,0:0:0:40,0:1406,0:-126.632,-12.0412,0,-126.632,-12.0412,-126.632 1/2:24:0,7,17:0:0:7,17:252,567:-66.7967,-46.2271,-44.1199,-20.9217,0,-15.8042 1/1:19:0,19,0:0:0:19,0:680,0:-61.5292,-5.71957,0,-61.5292,-5.71957,-61.5292 1/2:24:0,13,10:0:0:13,10:459,333:-64.4361,-27.0424,-23.129,-37.4919,0,-34.4816 1/2:41:0,22,17:0:0:22,17:784,577:-110.688,-46.7752,-40.1525,-63.9017,0,-58.7842 1/2:35:0,15,20:0:0:15,20:536,689:-100.016,-56.3081,-51.7927,-44.0594,0,-38.0388 1/2:38:0,17,21:0:0:17,21:597,706:-106.124,-57.5301,-52.4126,-48.9386,0,-42.617 1/2:6:0,1,5:0:0:1,5:36,172:-17.2523,-14.3123,-14.0112,-3.29724,0,-1.79209 1/2:9:0,6,3:0:0:6,3:216,102:-26.2511,-8.61329,-6.80711,-17.9843,0,-17.0812 1/2:17:0,6,11:0:0:6,11:212,381:-48.579,-31.3111,-29.5049,-17.6186,0,-14.3073 1/2:35:0,20,15:0:0:20,15:708,498:-98.3035,-40.6198,-34.5992,-58.025,0,-53.5095 1/2:42:0,20,22:0:0:20,22:707,741:-117.967,-60.3781,-54.3575,-57.934,0,-51.3113 1/1:23:0,23,0:0:0:23,0:820,0:-74.1225,-6.92369,0,-74.1225,-6.92369,-74.1225 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/1:13:0,13,0:0:0:13,0:449,0:-40.7375,-3.91339,0,-40.7375,-3.91339,-40.7375 1/2:60:0,20,40:0:0:20,40:687,1367:-167.065,-111.282,-105.261,-56.1259,0,-44.0847 1/2:25:0,17,8:0:0:17,8:612,260:-71.2687,-21.3089,-16.1914,-50.2959,0,-47.8877 1/1:32:0,32,0:0:0:32,0:1148,0:-103.63,-9.63296,0,-103.63,-9.63296,-103.63 1/1:35:0,34,0:0:0:34,0:1180,0:-106.142,-10.235,0,-106.142,-10.235,-106.142 chr11 27431741 . ACC CCA,CCC 37735.6 PASS AB=0.551932,0.442029;ABP=22.4067,27.1797;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1475,389;CIGAR=1X1M1X,1X2M;DP=1879;DPB=1879;DPRA=8.49091,0.701641;EPP=3205.93,847.713;EPPR=5.18177;GTI=1;LEN=3,1;MEANALT=2.05,2.1875;MQM=59.8075,59.7635;MQMR=60;NS=21;NUMALT=2;ODDS=11.7469;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50220,13913;QR=36;RO=1;RPL=0,0;RPP=3205.93,847.713;RPPR=5.18177;RPR=1475,389;RUN=1,1;SAF=1475,389;SAP=3205.93,847.713;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:0,99,5:0:0:99,5:3370,180:-303.163,-29.802,0,-288.475,-15.1149,-286.97 1/1:112:0,108,0:0:0:108,0:3566,0:-320.806,-32.5112,0,-320.806,-32.5112,-320.806 1/1:79:0,79,0:0:0:79,0:2737,0:-246.571,-23.7814,0,-246.571,-23.7814,-246.571 1/2:122:0,64,58:0:0:64,58:2150,2084:-344.408,-170.366,-151.1,-174.391,0,-156.931 1/1:158:0,153,5:0:0:153,5:5141,180:-462.384,-46.0576,0,-447.696,-31.0107,-446.191 1/2:47:0,20,26:0:0:20,26:674,936:-131.125,-76.5171,-70.4965,-54.7364,0,-46.9097 1/2:126:0,66,58:0:0:66,58:2266,2055:-351.379,-167.392,-147.524,-184.015,0,-166.555 1/2:78:0,45,33:0:0:45,33:1550,1178:-222.014,-96.1217,-82.5753,-126.243,0,-116.309 1/2:82:0,46,36:0:0:46,36:1591,1288:-234.648,-105.378,-91.5302,-129.623,0,-118.786 1/2:15:0,8,7:0:0:8,7:284,252:-44.0596,-20.9217,-18.5135,-23.4953,0,-21.3881 2/2:11:0,0,11:0:0:0,11:0,392:-35.6201,-35.6201,-35.6201,-3.31133,-3.31133,0 1/2:43:0,16,26:0:0:16,26:530,924:-118.15,-75.2912,-70.4747,-42.8408,0,-35.014 1/2:68:0,38,30:0:0:38,30:1320,1076:-195.426,-88.122,-76.6828,-107.658,0,-98.6269 1/2:98:0,53,45:0:0:53,45:1820,1608:-279.228,-131.455,-115.5,-148.124,0,-134.578 1/1:159:0,159,0:0:0:159,0:5537,0:-498.359,-47.8638,0,-498.359,-47.8638,-498.359 1/1:114:0,113,0:0:0:113,0:3784,0:-340.555,-34.0164,0,-340.555,-34.0164,-340.555 1/1:115:0,115,0:0:0:115,0:3970,0:-357.488,-34.6185,0,-357.488,-34.6185,-357.488 1/2:92:0,58,34:0:0:58,34:2001,1220:-262.259,-99.8672,-82.4074,-162.745,0,-152.51 1/2:57:1,43,13:1:36:43,13:1448,468:-152.257,-35.249,-25.2421,-114.366,0,-113.39 1/1:123:0,122,1:0:0:122,1:4104,36:-368.86,-36.7257,0,-365.923,-33.4284,-365.622 1/1:71:0,70,1:0:0:70,1:2377,36:-213.813,-21.0721,0,-210.875,-17.7749,-210.574 chr11 27431751 . C T 30209.2 PASS AB=0.54012;ABP=14.6842;AC=29;AF=0.690476;AN=42;AO=1443;CIGAR=1X;DP=1851;DPB=1851;DPRA=9.205;EPP=3136.44;EPPR=888.971;GTI=1;LEN=1;MEANALT=1;MQM=59.8468;MQMR=59.7745;NS=21;NUMALT=1;ODDS=8.16901;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51533;QR=14574;RO=408;RPL=0;RPP=3136.44;RPPR=888.971;RPR=1443;RUN=1;SAF=1443;SAP=3136.44;SAR=0;SRF=408;SRP=888.971;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:108:6,102:6:212:102:3635:-307.931,-13.0864,0 1/1:113:0,113:0:0:113:4060:-365.577,-34.0164,0 1/1:79:0,79:0:0:79:2836:-255.475,-23.7814,0 0/1:127:64,63:64:2292:63:2229:-162.536,0,-168.307 1/1:147:5,142:5:176:142:5078:-440.87,-28.0664,0 0/1:49:29,20:29:1036:20:720:-50.3774,0,-78.8034 0/1:123:57,66:57:2036:66:2346:-174.371,0,-146.328 0/1:80:34,46:34:1212:46:1633:-123.174,0,-84.9316 0/1:85:40,45:40:1420:45:1604:-119.054,0,-102.497 0/1:14:6,8:6:212:8:288:-22.053,0,-15.2104 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:43:27,16:27:972:16:572:-38.8691,0,-74.8536 0/1:70:32,38:32:1148:38:1360:-101.628,0,-82.5577 0/1:96:47,49:47:1688:49:1752:-129.065,0,-123.299 1/1:153:0,153:0:0:153:5480:-493.327,-46.0576,0 1/1:111:0,111:0:0:111:3956:-356.233,-33.4143,0 1/1:112:0,112:0:0:112:4016:-361.617,-33.7154,0 0/1:93:34,59:34:1202:59:2107:-161.796,0,-80.4838 0/1:55:14,41:14:500:41:1472:-116.219,0,-28.7795 1/1:115:2,113:2:72:113:4002:-353.16,-27.7817,0 1/1:68:1,67:1:36:67:2387:-211.476,-16.8718,0 chr11 27495668 . C T 7897.37 PASS AB=0.449909;ABP=26.94;AC=12;AF=0.285714;AN=42;AO=502;CIGAR=1X;DP=2014;DPB=2014;DPRA=1.25761;EPP=1093.09;EPPR=3273.25;GTI=0;LEN=1;MEANALT=1.06667;MQM=54.4442;MQMR=59.6881;NS=21;NUMALT=1;ODDS=13.1137;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17965;QR=53757;RO=1510;RPL=0;RPP=1093.09;RPPR=3273.25;RPR=502;RUN=1;SAF=502;SAP=1093.09;SAR=0;SRF=1510;SRP=3281.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:132,0:132:4704:0:0:0,-39.736,-423.143 0/0:43:43,0:43:1523:0:0:0,-12.9443,-137.348 0/0:92:92,0:92:3283:0:0:0,-27.6948,-295.677 0/1:120:64,56:64:2292:56:2012:-144.837,0,-170.408 0/0:252:249,2:249:8875:2:72:0,-69.0598,-791.883 0/1:63:27,36:27:960:36:1296:-97.503,0,-67.7304 0/1:113:70,43:70:2500:43:1540:-104.356,0,-191.212 0/1:93:54,39:54:1936:39:1404:-98.4768,0,-146.516 0/1:247:131,116:131:4658:116:4164:-300.094,0,-345.004 0/1:24:17,7:17:608:7:252:-15.7716,0,-47.3772 0/1:15:6,9:6:212:9:305:-22.9548,0,-14.9093 0/1:40:18,22:18:644:22:792:-59.4629,0,-46.2494 0/1:147:69,78:69:2459:78:2778:-205.337,0,-177.313 0/1:111:67,44:67:2371:44:1576:-107.982,0,-180.229 0/0:121:121,0:121:4319:0:0:0,-36.4246,-388.867 0/0:56:56,0:56:1987:0:0:0,-16.8577,-179.101 0/0:49:48,1:48:1708:1:36:0,-11.1532,-150.289 0/1:48:24,24:24:848:24:855:-62.5648,0,-62.1594 0/1:77:57,20:57:2020:20:703:-39.7982,0,-158.892 0/0:129:124,5:124:4394:5:180:0,-22.3079,-379.087 0/0:41:41,0:41:1456:0:0:0,-12.3422,-131.325 chr11 27500206 . T C 5019.08 PASS AB=0.491189;ABP=3.31641;AC=13;AF=0.309524;AN=42;AO=231;CIGAR=1X;DP=755;DPB=755;DPRA=1.34146;EPP=12.044;EPPR=22.1723;GTI=1;LEN=1;MEANALT=1;MQM=59.974;MQMR=59.9981;NS=21;NUMALT=1;ODDS=3.98702;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8229;QR=18487;RO=524;RPL=0;RPP=504.62;RPPR=1140.86;RPR=231;RUN=1;SAF=131;SAP=12.044;SAR=100;SRF=296;SRP=22.1723;SRR=228;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:34:32,2:32:1125:2:72:0,-3.3983,-94.7193 0/0:27:27,0:27:919:0:0:0,-8.12781,-83.0147 0/0:10:10,0:10:345:0:0:0,-3.0103,-31.3808 0/1:28:15,13:15:540:13:468:-34.0308,0,-40.5077 0/0:58:56,2:56:1961:2:57:0,-12.0464,-171.348 0/1:13:5,8:5:172:8:288:-22.354,0,-11.9046 0/1:34:18,16:18:640:16:572:-41.5784,0,-47.6943 0/1:22:8,14:8:273:14:496:-38.3516,0,-18.2775 0/1:26:12,14:12:432:14:500:-37.5094,0,-31.3944 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:12:4,8:4:144:8:284:-22.291,0,-9.70126 0/1:35:19,16:19:661:16:557:-39.9195,0,-49.2756 0/1:27:16,11:16:557:11:392:-27.4922,0,-42.3278 0/0:33:33,0:33:1167:0:0:0,-9.93399,-105.336 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6453 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:81:43,38:43:1544:38:1351:-97.5062,0,-114.87 0/1:168:86,82:86:3033:82:2944:-214.619,0,-222.626 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/0:75:75,0:75:2650:0:0:0,-22.5772,-238.747 chr11 27500218 . T G 13911.8 PASS AB=0.536264;ABP=8.20752;AC=29;AF=0.690476;AN=42;AO=544;CIGAR=1X;DP=767;DPB=767;DPRA=9.5375;EPP=7.09778;EPPR=18.6606;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9982;MQMR=59.973;NS=21;NUMALT=1;ODDS=5.62557;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19217;QR=7853;RO=222;RPL=1;RPP=1175.62;RPPR=485.077;RPR=543;RUN=1;SAF=289;SAP=7.62468;SAR=255;SRF=131;SRP=18.6606;SRR=91;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:1,31:1:36:31:1093:-95.0802,-6.03469,0 1/1:30:0,30:0:0:30:1080:-97.5132,-9.0309,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:30:13,17:13:464:17:599:-45.2072,0,-33.0666 1/1:59:3,56:3:108:56:1992:-169.479,-7.6856,0 0/1:14:9,5:9:311:5:180:-12.3376,0,-24.1093 0/1:33:15,18:15:528:18:635:-47.543,0,-37.9174 0/1:25:14,11:14:488:11:388:-27.7316,0,-36.7247 0/1:25:13,12:13:464:12:428:-31.3331,0,-34.5718 0/1:8:3,5:3:108:5:168:-13.0427,0,-7.66693 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:12:7,5:7:248:5:180:-12.9397,0,-19.0518 0/1:35:16,19:16:564:19:669:-49.9979,0,-40.5543 0/1:30:11,19:11:392:19:672:-51.7759,0,-26.5892 1/1:35:0,35:0:0:35:1222:-110.279,-10.5361,0 1/1:21:0,20:0:0:20:701:-63.0524,-6.0206,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:79:36,43:36:1279:43:1504:-111.869,0,-91.6311 0/1:164:74,90:74:2615:90:3189:-237.863,0,-186.228 1/1:30:0,30:0:0:30:1067:-96.3412,-9.0309,0 1/1:77:3,74:3:108:74:2586:-222.911,-13.1041,0 chr11 27519125 . G A 27656.2 PASS AB=0.505108;ABP=3.20995;AC=29;AF=0.690476;AN=42;AO=1248;CIGAR=1X;DP=1693;DPB=1693;DPRA=12.0429;EPP=2713.01;EPPR=969.316;GTI=1;LEN=1;MEANALT=1;MQM=52.1771;MQMR=59.982;NS=21;NUMALT=1;ODDS=3.69843;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44278;QR=15445;RO=445;RPL=62;RPP=2201.24;RPPR=969.316;RPR=1186;RUN=1;SAF=62;SAP=2201.24;SAR=1186;SRF=0;SRP=969.316;SRR=445;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,76:0:0:76:2697:-242.011,-22.8783,0 1/1:56:0,56:0:0:56:1999:-179.709,-16.8577,0 1/1:121:1,120:1:36:120:4238:-376.49,-32.8264,0 0/1:182:106,76:106:3654:76:2681:-185.823,0,-274.278 1/1:161:0,161:0:0:161:5714:-511.832,-48.4658,0 0/1:37:18,19:18:625:19:676:-49.9477,0,-45.4344 0/1:67:39,28:39:1348:28:1004:-70.3757,0,-101.446 0/1:105:48,57:48:1692:57:2024:-150.287,0,-120.955 0/1:49:18,31:18:631:31:1103:-83.5626,0,-42.3652 0/1:12:3,9:3:108:9:324:-25.8402,0,-6.46281 0/0:7:7,0:7:244:0:0:0,-2.10721,-22.2994 0/1:37:22,15:22:775:15:536:-37.2259,0,-58.9331 0/1:89:35,54:35:1202:54:1904:-144.295,0,-81.6784 0/1:100:52,48:52:1734:48:1698:-122.341,0,-126.232 1/1:72:0,72:0:0:72:2542:-228.278,-21.6742,0 1/1:59:0,59:0:0:59:2063:-184.966,-17.7608,0 1/1:76:0,76:0:0:76:2687:-241.015,-22.8783,0 0/1:158:77,81:77:2716:81:2896:-212.519,0,-197.12 0/1:45:18,27:18:644:27:972:-73.9347,0,-44.7442 1/1:131:1,130:1:36:130:4657:-414.369,-35.8367,0 1/1:53:0,53:0:0:53:1863:-167.455,-15.9546,0 chr11 27519152 . ATG GTA,ATA 36818 PASS AB=0.507726,0.490066;ABP=3.48007,3.78685;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1222,454;CIGAR=1X1M1X,2M1X;DP=1680;DPB=1680;DPRA=11.95,1.06725;EPP=2402.37,862.875;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.9,2.13333;MQM=52.0368,59.9493;MQMR=0;NS=21;NUMALT=2;ODDS=5.36453;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42976,16284;QR=0;RO=0;RPL=1192,439;RPP=2402.37,862.875;RPPR=0;RPR=30,15;RUN=1,1;SAF=0,0;SAP=2656.55,988.859;SAR=1222,454;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71,0:0:0:71,0:2500,0:-224.359,-21.3731,0,-224.359,-21.3731,-224.359 1/1:41:0,41,0:0:0:41,0:1445,0:-129.996,-12.3422,0,-129.996,-12.3422,-129.996 1/1:123:0,122,1:0:0:122,1:4323,36:-387.03,-36.7257,0,-384.092,-33.4284,-383.791 1/2:189:0,80,107:0:0:80,107:2803,3836:-540.457,-312.938,-288.855,-227.594,0,-195.383 1/1:165:0,164,0:0:0:164,0:5726,0:-513.048,-49.3689,0,-513.048,-49.3689,-513.048 1/2:36:0,19,17:0:0:19,17:660,612:-103.872,-50.2959,-44.5764,-53.9298,0,-48.8123 1/2:70:0,29,41:0:0:29,41:1040,1468:-204.771,-120.074,-111.344,-85.0554,0,-72.7132 1/2:109:0,58,51:0:0:58,51:2028,1832:-314.313,-149.808,-132.349,-164.859,0,-149.507 1/2:47:0,30,17:0:0:30,17:1058,612:-136.018,-50.2959,-41.265,-86.0789,0,-80.9614 1/2:12:0,9,3:0:0:9,3:319,108:-35.1049,-9.17208,-6.46281,-26.2911,0,-25.388 2/2:7:0,0,7:0:0:0,7:0,252:-23.029,-23.029,-23.029,-2.10721,-2.10721,0 1/2:41:0,18,23:0:0:18,23:640,828:-119.854,-67.9204,-62.5019,-52.2903,0,-45.3666 1/2:89:0,56,33:0:0:56,33:1942,1172:-253.162,-95.8453,-78.9877,-157.668,0,-147.734 1/2:107:0,48,59:0:0:48,59:1673,2116:-308.348,-172.946,-158.496,-135.754,0,-117.993 1/1:73:0,73,0:0:0:73,0:2575,0:-231.191,-21.9752,0,-231.191,-21.9752,-231.191 1/1:46:0,46,0:0:0:46,0:1617,0:-144.572,-13.8474,0,-144.572,-13.8474,-144.572 1/1:62:0,62,0:0:0:62,0:2200,0:-196.863,-18.6639,0,-196.863,-18.6639,-196.863 1/2:160:0,85,75:0:0:85,75:2988,2696:-462.843,-220.307,-194.719,-242.891,0,-220.314 1/2:46:0,28,18:0:0:28,18:994,644:-133.559,-52.8721,-44.4432,-81.0429,0,-75.6244 1/1:134:0,133,1:0:0:133,1:4688,36:-419.72,-40.037,0,-416.782,-36.7397,-416.481 1/1:52:0,50,1:0:0:50,1:1757,36:-157.753,-15.0515,0,-154.816,-12.0728,-154.515 chr11 27548223 . C T 9469.6 PASS AB=0.429972;ABP=63.8359;AC=12;AF=0.285714;AN=42;AO=626;CIGAR=1X;DP=2767;DPB=2767;DPRA=1.32226;EPP=1362.35;EPPR=4641.28;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.9665;MQMR=59.9893;NS=21;NUMALT=1;ODDS=4.21669;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22199;QR=76087;RO=2140;RPL=0;RPP=1362.35;RPPR=4641.28;RPR=626;RUN=1;SAF=0;SAP=1362.35;SAR=626;SRF=0;SRP=4649.96;SRR=2140;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:219:217,2:217:7726:2:72:0,-59.0888,-688.527 0/0:94:94,0:94:3350:0:0:0,-28.2968,-301.717 0/0:148:147,1:147:5255:1:36:0,-40.9542,-469.489 0/1:142:83,59:83:2947:59:2100:-146.523,0,-222.719 0/0:338:336,2:336:11967:2:68:0,-95.2904,-1070.4 0/1:146:77,69:77:2746:69:2452:-176.985,0,-203.431 0/1:190:95,95:95:3351:95:3388:-247.933,0,-244.612 0/1:103:43,60:43:1528:60:2111:-159.253,0,-106.807 0/1:287:168,119:168:5971:119:4229:-294.396,0,-451.103 0/1:22:15,7:15:531:7:248:-16.0415,0,-41.4992 0/1:13:5,8:5:172:8:284:-21.99,0,-11.9046 0/1:21:11,10:11:396:10:360:-26.4227,0,-29.6611 0/1:159:101,58:101:3606:58:2084:-139.962,0,-276.882 0/1:131:81,49:81:2874:49:1721:-115.679,0,-219.404 0/0:142:142,0:142:5045:0:0:0,-42.7463,-454.198 0/0:110:110,0:110:3919:0:0:0,-33.1133,-352.904 0/0:95:89,6:89:3159:6:208:0,-9.53877,-265.477 0/1:118:68,50:68:2394:50:1730:-120.457,0,-180.196 0/1:96:66,30:66:2328:30:1072:-67.8936,0,-180.88 0/0:121:120,1:120:4250:1:36:0,-32.8264,-379.082 0/0:72:72,0:72:2572:0:0:0,-21.6742,-231.73 chr11 27548334 . GCTG CCTA,GCTA 51479.2 PASS AB=0.436026,0.556112;ABP=52.7431,41.2695;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1679,786;CIGAR=1X2M1X,3M1X;DP=2481;DPB=2481;DPRA=0,1.18784;EPP=3640.23,1709.79;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.33333,2.6;MQM=59.9649,60;MQMR=0;NS=21;NUMALT=2;ODDS=0.872857;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58893,28071;QR=0;RO=0;RPL=0,0;RPP=3648.91,1709.79;RPPR=0;RPR=1679,786;RUN=1,1;SAF=1,0;SAP=3640.23,1709.79;SAR=1678,786;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,99,0:0:0:99,0:3487,0:-313.685,-29.802,0,-313.685,-29.802,-313.685 1/1:87:0,86,0:0:0:86,0:3045,0:-274.02,-25.8886,0,-274.02,-25.8886,-274.02 1/1:100:0,99,1:0:0:99,1:3481,36:-313.145,-29.802,0,-310.207,-26.5047,-309.906 1/2:175:0,67,107:0:0:67,107:2374,3808:-503.742,-310.347,-290.178,-193.39,0,-161.18 1/1:261:0,258,2:0:0:258,2:8982,72:-807.752,-77.6657,0,-801.877,-71.7909,-801.275 1/2:110:0,44,64:0:0:44,64:1550,2282:-312.26,-186.068,-172.823,-126.238,0,-106.972 1/2:201:0,87,112:0:0:87,112:3054,3978:-572.685,-324.135,-297.945,-248.543,0,-214.828 1/2:57:0,18,37:0:0:18,37:640,1328:-160.479,-108.324,-102.906,-52.1513,0,-41.0132 1/2:291:0,129,158:0:0:129,158:4515,5628:-826.054,-458.718,-419.885,-367.33,0,-319.767 1/2:10:0,2,8:0:0:2,8:66,288:-29.1892,-23.8592,-23.2571,-5.66589,0,-3.25765 1/2:9:0,1,8:0:0:1,8:32,288:-26.4331,-23.8592,-23.5581,-2.89828,0,-0.490043 1/2:28:0,16,12:0:0:16,12:554,432:-80.6236,-35.6088,-30.7924,-45.3687,0,-41.7564 1/2:170:0,68,102:0:0:68,102:2376,3668:-492.891,-299.617,-279.147,-193.628,0,-162.923 1/2:141:0,55,86:0:0:55,86:1903,3088:-406.893,-252.259,-235.702,-154.986,0,-129.097 1/1:182:0,182,0:0:0:182,0:6441,0:-579.784,-54.7875,0,-579.784,-54.7875,-579.784 1/1:105:0,105,0:0:0:105,0:3678,0:-331.226,-31.6082,0,-331.226,-31.6082,-331.226 1/1:73:0,72,0:0:0:72,0:2512,0:-225.971,-21.6742,0,-225.971,-21.6742,-225.971 1/2:112:0,54,58:0:0:54,58:1901,2063:-323.238,-168.481,-152.225,-155.111,0,-137.651 1/2:95:0,69,26:0:0:69,26:2421,932:-273.39,-76.3721,-55.601,-197.374,0,-189.548 1/1:96:0,91,5:0:0:91,5:3190,180:-286.965,-27.3937,0,-272.278,-12.3468,-270.773 1/1:78:0,77,0:0:0:77,0:2691,0:-242.212,-23.1793,0,-242.212,-23.1793,-242.212 chr11 27562288 . AAC GAT,GGT 41667 PASS AB=0.508787,0.486819;ABP=3.77356,4.72763;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1538,558;CIGAR=1X1M1X,3X;DP=2101;DPB=2101;DPRA=0,1.25433;EPP=3342.73,1214.69;EPPR=0;GTI=1;LEN=3,3;MEANALT=1.95238,2.33333;MQM=42.5709,38.4982;MQMR=0;NS=21;NUMALT=2;ODDS=5.328;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54253,19481;QR=0;RO=0;RPL=1538,558;RPP=3342.73,1214.69;RPPR=0;RPR=0,0;RUN=1,1;SAF=1538,558;SAP=3342.73,1214.69;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,32,0:0:0:32,0:1126,0:-98.7696,-9.63296,0,-98.7696,-9.63296,-98.7696 1/1:149:0,148,1:0:0:148,1:5249,36:-463.383,-44.5524,0,-460.635,-41.4659,-460.334 1/1:158:0,156,2:0:0:156,2:5512,64:-485.06,-46.9607,0,-480.561,-42.1766,-479.959 1/2:55:0,37,18:0:0:37,18:1301,635:-152.622,-49.4557,-38.3175,-103.505,0,-98.0866 1/1:104:0,104,0:0:0:104,0:3658,0:-320.984,-31.3071,0,-320.984,-31.3071,-320.984 1/2:80:0,28,51:0:0:28,51:996,1764:-210.557,-132.994,-124.565,-77.6849,0,-62.3324 1/2:164:0,79,85:0:0:79,85:2790,2975:-447.391,-225.262,-201.481,-222.466,0,-196.878 1/2:110:0,60,49:0:0:60,49:2120,1721:-298.556,-130.986,-112.924,-167.562,0,-152.812 1/2:187:0,94,93:0:0:94,93:3294,3283:-515.534,-255.733,-227.436,-260.141,0,-232.145 1/2:20:0,10,10:0:0:10,10:345,345:-54.0913,-26.686,-23.6757,-27.7374,0,-24.7271 1/2:9:0,8,1:0:0:8,1:279,36:-25.382,-3.08657,-0.67833,-22.6347,0,-22.3337 1/2:32:0,16,16:0:0:16,16:555,572:-89.0007,-44.9985,-40.1821,-44.3435,0,-39.527 1/2:120:0,45,75:0:0:45,75:1585,2654:-329.857,-204.072,-190.526,-126.126,0,-103.548 1/2:119:0,70,47:0:0:70,47:2470,1629:-322.503,-125.926,-104.854,-196.564,0,-182.416 1/1:109:0,109,0:0:0:109,0:3855,0:-339.684,-32.8123,0,-339.684,-32.8123,-339.684 1/1:148:0,147,1:0:0:147,1:5150,36:-448.065,-44.2514,0,-445.257,-41.0979,-444.956 1/1:106:0,106,0:0:0:106,0:3766,0:-329.893,-31.9092,0,-329.893,-31.9092,-329.893 1/2:178:0,92,85:0:0:92,85:3240,2898:-479.681,-223.793,-196.098,-255.864,0,-230.276 1/2:64:0,40,24:0:0:40,24:1428,833:-177.211,-64.0703,-52.0291,-113.476,0,-106.251 1/1:78:0,78,0:0:0:78,0:2763,0:-241.236,-23.4803,0,-241.236,-23.4803,-241.236 1/1:79:0,79,0:0:0:79,0:2771,0:-245.092,-23.7814,0,-245.092,-23.7814,-245.092 chr11 27562305 . ATT TTC,TTT 41087.9 PASS AB=0.505809,0.492404;ABP=3.33825,3.57112;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1515,554;CIGAR=1X1M1X,1X2M;DP=2072;DPB=2076.33;DPRA=0,1.25429;EPP=3292.79,1206.01;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.85714,2.13333;MQM=42.4792,38.5866;MQMR=0;NS=21;NUMALT=2;ODDS=4.84194;PAIRED=0,0;PAIREDR=0;PAO=6.5,6.5;PQA=121.5,121.5;PQR=0;PRO=0;QA=53040,19659;QR=0;RO=0;RPL=1515,554;RPP=3292.79,1206.01;RPPR=0;RPR=0,0;RUN=1,1;SAF=1515,554;SAP=3292.79,1206.01;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:32:0,31,0:0:0:31,0:1079,0:-94.5783,-9.33193,0,-94.5783,-9.33193,-94.5783 1/1:146:0,145,1:0:0:145,1:5102,36:-450.612,-43.6494,0,-447.865,-40.5628,-447.564 1/1:158:0,157,1:0:0:157,1:5536,36:-486.961,-47.2617,0,-484.181,-44.1391,-483.88 1/2:52:0,35,17:0:0:35,17:1221,612:-144.253,-47.5358,-36.9997,-97.0591,0,-91.9416 1/1:102:0,102,0:0:0:102,0:3544,0:-311.552,-30.7051,0,-311.552,-30.7051,-311.552 1/2:79:0,28,51:0:0:28,51:992,1791:-213.106,-135.986,-127.557,-77.399,0,-62.0465 1/2:159:0,73,85:0:0:73,85:2521,3010:-428.889,-228.284,-206.308,-200.545,0,-174.957 1/2:108:0,58,50:0:0:58,50:2017,1765:-295.269,-136.029,-118.569,-159.576,0,-144.525 1/2:186:0,94,92:0:0:94,92:3247,3290:-512.25,-256.312,-228.015,-256.218,0,-228.524 1/2:19:0,9,10:0:0:9,10:302,350:-51.3778,-27.3944,-24.6851,-24.2648,0,-21.2545 1/2:9:0,8,1:0:0:8,1:282,36:-25.6665,-3.08657,-0.67833,-22.9196,0,-22.6185 1/2:32:0,16,16:0:0:16,16:557,576:-89.0812,-45.2736,-40.4572,-44.1492,0,-39.3327 1/2:118:0,43,75:0:0:43,75:1522,2658:-325.797,-205.108,-192.163,-120.973,0,-98.3954 1/2:118:0,70,48:0:0:70,48:2460,1711:-328.461,-132.632,-111.56,-196.171,0,-181.721 1/1:106:0,106,0:0:0:106,0:3713,0:-327.393,-31.9092,0,-327.393,-31.9092,-327.393 1/1:148:0,147,1:0:0:147,1:5163,36:-448.806,-44.2514,0,-445.998,-41.0979,-445.697 1/1:107:0,107,0:0:0:107,0:3749,0:-328.33,-32.2102,0,-328.33,-32.2102,-328.33 1/2:176:0,93,82:0:0:93,82:3243,2897:-480.838,-224.763,-196.767,-256.209,0,-231.524 1/2:63:0,39,24:0:0:39,24:1392,855:-176.389,-66.1414,-54.4012,-110.59,0,-103.365 1/1:76:0,76,0:0:0:76,0:2665,0:-232.534,-22.8783,0,-232.534,-22.8783,-232.534 1/1:78:0,78,0:0:0:78,0:2733,0:-241.047,-23.4803,0,-241.047,-23.4803,-241.047 chr11 27655121 . CTCAC ATCGT,ATCAT 32685.1 PASS AB=0.444568,0.549889;ABP=27.0843,22.5102;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1092,505;CIGAR=1X2M2X,1X3M1X;DP=1609;DPB=1609.2;DPRA=0,1.26305;EPP=2374.26,1099.6;EPPR=0;GTI=0;LEN=5,5;MEANALT=2.19048,2.66667;MQM=51.7225,47.5069;MQMR=0;NS=21;NUMALT=2;ODDS=7.20762;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=38354,17758;QR=0;RO=0;RPL=1092,505;RPP=2374.26,1099.6;RPPR=0;RPR=0,0;RUN=1,1;SAF=1092,505;SAP=2374.26,1099.6;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,86,1:0:0:86,1:2992,32:-268.092,-25.8886,0,-265.526,-23.3374,-265.225 1/1:72:0,72,0:0:0:72,0:2526,0:-225.986,-21.6742,0,-225.986,-21.6742,-225.986 1/1:55:0,55,0:0:0:55,0:1934,0:-173.545,-16.5567,0,-173.545,-16.5567,-173.545 1/2:164:0,67,96:0:0:67,96:2364,3358:-462.214,-270.369,-250.2,-191.837,0,-162.938 1/1:166:0,155,5:0:0:155,5:5424,175:-485.791,-46.6597,0,-471.675,-32.5408,-470.17 1/2:58:0,24,32:0:0:24,32:853,1147:-162.193,-93.051,-85.8262,-69.1653,0,-59.5323 1/2:143:0,61,81:0:0:61,81:2121,2847:-401.806,-230.526,-212.163,-171.365,0,-146.982 1/2:73:0,30,42:0:0:30,42:1068,1483:-205.872,-119.326,-110.295,-86.539,0,-73.8957 1/2:144:0,77,67:0:0:77,67:2716,2346:-408.441,-188.812,-165.633,-219.977,0,-199.808 1/2:9:0,4,5:0:0:4,5:144,170:-25.4006,-14.0388,-12.8347,-11.7058,0,-10.2006 1/2:5:0,1,4:0:0:1,4:36,142:-14.7907,-11.8602,-11.5592,-3.2882,0,-2.08408 1/2:33:0,15,18:0:0:15,18:515,617:-91.5706,-49.8129,-45.2974,-42.0987,0,-36.6802 1/2:95:0,40,55:0:0:40,55:1397,1954:-270.205,-156.992,-144.951,-113.504,0,-96.9469 1/2:61:0,25,36:0:0:25,36:870,1263:-172.14,-101.523,-93.9971,-70.9633,0,-60.1262 1/1:101:0,101,0:0:0:101,0:3529,0:-316.071,-30.404,0,-316.071,-30.404,-316.071 1/1:49:0,49,0:0:0:49,0:1751,0:-157.193,-14.7505,0,-157.193,-14.7505,-157.193 1/1:67:0,67,0:0:0:67,0:2338,0:-209.477,-20.169,0,-209.477,-20.169,-209.477 1/2:80:0,35,45:0:0:35,45:1244,1597:-230.139,-129.265,-118.729,-101.227,0,-87.6803 1/2:37:0,22,15:0:0:22,15:786,524:-106.497,-42.5578,-35.9351,-64.2895,0,-59.774 1/1:66:0,63,3:0:0:63,3:2231,103:-200.193,-18.9649,0,-191.882,-10.3122,-190.979 1/1:43:0,43,0:0:0:43,0:1515,0:-136.059,-12.9443,0,-136.059,-12.9443,-136.059 chr11 27655136 . CTAAG TTAAA,TTAAAA 32748.9 PASS AB=0.449552,0.547085;ABP=22.7288,20.1873;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1093,497;CIGAR=1X3M1X,1X1M1I2M1X;DP=1599;DPB=1698.6;DPRA=0,1.24845;EPP=2376.43,1082.23;EPPR=0;GTI=0;LEN=5,6;MEANALT=2.09524,2.26667;MQM=51.7155,47.336;MQMR=0;NS=21;NUMALT=2;ODDS=7.87653;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38536,17581;QR=0;RO=0;RPL=1093,497;RPP=2376.43,1082.23;RPPR=0;RPR=0,0;RUN=1,1;SAF=1093,497;SAP=2376.43,1082.23;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,85,1:0:0:85,1:2981,35:-267.069,-25.5876,0,-264.244,-22.7188,-263.943 1/1:72:0,69,0:0:0:69,0:2423,0:-216.519,-20.7711,0,-216.519,-20.7711,-216.519 1/1:56:0,56,0:0:0:56,0:1978,0:-177.329,-16.8577,0,-177.329,-16.8577,-177.329 1/2:160:0,67,93:0:0:67,93:2359,3293:-457.018,-265.723,-245.554,-191.646,0,-163.65 1/1:166:0,161,5:0:0:161,5:5658,177:-505.594,-48.4658,0,-491.302,-33.8225,-489.797 1/2:58:0,26,32:0:0:26,32:920,1133:-166.528,-92.1439,-84.3172,-74.7359,0,-65.1029 1/2:142:0,60,81:0:0:60,81:2110,2877:-403.229,-232.881,-214.82,-170.395,0,-146.011 1/2:71:0,30,41:0:0:30,41:1061,1450:-203.075,-117.137,-108.106,-86.2894,0,-73.9471 1/2:144:0,77,67:0:0:77,67:2719,2363:-410.189,-190.397,-167.217,-220.142,0,-199.973 1/2:9:0,4,5:0:0:4,5:144,172:-25.5771,-14.2171,-13.013,-11.7058,0,-10.2006 1/2:5:0,1,4:0:0:1,4:36,143:-14.8787,-11.9488,-11.6478,-3.2882,0,-2.08408 1/2:33:0,15,18:0:0:15,18:511,634:-92.6994,-51.3056,-46.7901,-41.7375,0,-36.3189 1/2:93:0,39,52:0:0:39,52:1372,1839:-258.664,-147.386,-135.646,-111.343,0,-95.6894 1/2:60:0,25,35:0:0:25,35:886,1233:-171.243,-99.2028,-91.6771,-72.3914,0,-61.8553 1/1:101:0,100,0:0:0:100,0:3517,0:-314.329,-30.103,0,-314.329,-30.103,-314.329 1/1:49:0,49,0:0:0:49,0:1750,0:-157.104,-14.7505,0,-157.104,-14.7505,-157.104 1/1:67:0,66,0:0:0:66,0:2318,0:-207.542,-19.868,0,-207.542,-19.868,-207.542 1/2:80:0,35,45:0:0:35,45:1253,1593:-230.679,-129,-118.464,-102.033,0,-88.4862 1/2:37:0,22,15:0:0:22,15:786,533:-107.28,-43.3433,-36.7207,-64.2899,0,-59.7745 1/1:66:0,63,3:0:0:63,3:2229,106:-200.017,-18.9649,0,-191.443,-10.0401,-190.54 1/1:43:0,43,0:0:0:43,0:1525,0:-136.862,-12.9443,0,-136.862,-12.9443,-136.862 chr11 27701207 . G A 22180.8 PASS AB=0.510283;ABP=3.72482;AC=30;AF=0.714286;AN=42;AO=1073;CIGAR=1X;DP=1458;DPB=1458;DPRA=0;EPP=2324.32;EPPR=828.192;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.8863;MQMR=59.974;NS=21;NUMALT=1;ODDS=1.26487;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38196;QR=13672;RO=384;RPL=1;RPP=2324.32;RPPR=828.192;RPR=1072;RUN=1;SAF=1073;SAP=2333;SAR=0;SRF=384;SRP=836.856;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:89:1,88:1:36:88:3152:-280.293,-23.1934,0 1/1:36:0,36:0:0:36:1292:-116.584,-10.8371,0 1/1:84:0,84:0:0:84:2981:-268.516,-25.2865,0 0/1:54:19,35:19:680:35:1230:-94.7443,0,-45.2735 1/1:122:1,121:1:32:121:4317:-385.496,-33.5263,0 0/1:59:19,40:19:684:40:1408:-109.254,0,-44.1296 0/1:109:57,52:57:2025:52:1853:-134.236,0,-149.709 0/1:83:35,48:35:1256:48:1705:-128.75,0,-88.3598 0/1:107:53,54:53:1896:54:1928:-141.586,0,-138.708 0/1:15:7,8:7:248:8:284:-21.3879,0,-18.1487 0/1:7:2,5:2:68:5:180:-14.4449,0,-4.3505 0/1:29:15,14:15:536:14:500:-36.6063,0,-39.8449 0/1:64:43,21:43:1532:21:740:-47.6574,0,-118.907 0/1:78:55,23:55:1961:23:804:-49.1966,0,-153.281 1/1:146:1,144:1:36:144:5117:-457.134,-40.336,0 1/1:66:0,66:0:0:66:2365:-213.107,-19.868,0 1/1:40:0,40:0:0:40:1432:-129.174,-12.0412,0 0/1:102:49,53:49:1731:53:1896:-140.21,0,-125.364 0/1:71:27,44:27:951:44:1572:-120.398,0,-64.5312 1/1:57:0,57:0:0:57:2024:-182.431,-17.1587,0 1/1:40:0,40:0:0:40:1416:-127.734,-12.0412,0 chr11 27701299 . GATTG CATTT,CATTG 47016.7 PASS AB=0.605556,0.390741;ABP=107.531,114.994;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1792,433;CIGAR=1X3M1X,1X4M;DP=2229;DPB=2229;DPRA=0,0.984637;EPP=3894.29,943.258;EPPR=5.18177;GTI=2;LEN=5,1;MEANALT=1.85714,2.125;MQM=56.4113,59.9446;MQMR=60;NS=21;NUMALT=2;ODDS=4.74441;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63495,15447;QR=22;RO=1;RPL=1792,433;RPP=3894.29,943.258;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3894.29,943.258;SAR=1792,433;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:0,87,4:0:0:87,4:3100,144:-277.731,-26.1896,0,-265.981,-14.0801,-264.777 1/1:100:0,100,0:0:0:100,0:3561,0:-320.358,-30.103,0,-320.358,-30.103,-320.358 1/1:108:0,108,0:0:0:108,0:3842,0:-345.774,-32.5112,0,-345.774,-32.5112,-345.774 1/2:152:0,96,56:0:0:96,56:3408,2000:-440.712,-163.388,-134.489,-277.68,0,-260.822 1/1:252:0,247,5:0:0:247,5:8735,180:-784.914,-74.3544,0,-770.227,-59.3075,-768.722 1/2:91:0,62,29:0:0:62,29:2198,1025:-262.847,-83.8308,-65.167,-179.37,0,-170.64 1/2:116:0,74,42:0:0:74,42:2596,1512:-334.781,-123.731,-101.455,-211.406,0,-198.763 1/2:62:0,43,19:0:0:43,19:1522,684:-180.065,-56.1708,-43.2265,-124.252,0,-118.533 1/2:166:0,94,70:0:0:94,70:3322,2501:-473.509,-203.909,-175.612,-269.596,0,-248.524 1/2:11:0,7,4:0:0:7,4:246,140:-31.7587,-11.7405,-9.63325,-20.3686,0,-19.1645 1/2:6:0,3,3:0:0:3,3:102,104:-17.0677,-8.79971,-7.89662,-8.61117,0,-7.70808 1/2:38:0,26,11:0:0:26,11:924,396:-107.671,-32.3949,-24.5681,-75.3568,0,-72.0455 1/2:156:1,77,78:1:22:77,78:2745,2773:-447.784,-224.431,-202.929,-222.111,0,-200.308 1/2:134:0,96,38:0:0:96,38:3400,1340:-386.213,-109.456,-80.557,-277.11,0,-265.671 1/1:161:0,161,0:0:0:161,0:5727,0:-514.9,-48.4658,0,-514.9,-48.4658,-514.9 1/1:118:0,118,0:0:0:118,0:4187,0:-375.554,-35.5215,0,-375.554,-35.5215,-375.554 1/1:148:0,147,1:0:0:147,1:5191,36:-465.404,-44.2514,0,-462.466,-40.9542,-462.165 1/2:94:0,37,57:0:0:37,57:1302,2044:-272.763,-167.073,-155.935,-106.043,0,-88.8846 1/2:54:0,39,15:0:0:39,15:1341,532:-152.513,-43.6976,-31.9575,-109.167,0,-104.651 1/1:121:0,120,1:0:0:120,1:4265,36:-383.361,-36.1236,0,-380.423,-32.8264,-380.122 1/1:50:0,50,0:0:0:50,0:1781,0:-160.354,-15.0515,0,-160.354,-15.0515,-160.354 chr11 27701897 . G A 17172.5 PASS AB=0.566308;ABP=34.9753;AC=30;AF=0.714286;AN=42;AO=847;CIGAR=1X;DP=1211;DPB=1211;DPRA=0;EPP=1807.67;EPPR=793.426;GTI=0;LEN=1;MEANALT=1;MQM=59.8737;MQMR=59.9038;NS=21;NUMALT=1;ODDS=10.5741;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30283;QR=12946;RO=364;RPL=5;RPP=1799.07;RPPR=793.426;RPR=842;RUN=1;SAF=1;SAP=1833.57;SAR=846;SRF=0;SRP=793.426;SRR=364;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:42:0,42:0:0:42:1495:-134.837,-12.6433,0 1/1:28:0,28:0:0:28:1000:-89.9443,-8.42884,0 1/1:53:0,53:0:0:53:1904:-171.638,-15.9546,0 0/1:43:19,24:19:672:24:864:-65.1383,0,-47.8625 1/1:83:1,82:1:36:82:2933:-260.604,-21.3872,0 0/1:21:13,8:13:468:8:288:-19.9458,0,-36.138 0/1:29:12,17:12:432:17:589:-44.6034,0,-30.4913 0/1:28:11,17:11:396:17:612:-46.9846,0,-27.5539 0/1:39:14,25:14:504:25:896:-69.2202,0,-33.9579 0/1:120:46,74:46:1635:74:2651:-202.711,0,-111.313 0/1:174:71,103:71:2535:103:3656:-276.675,0,-175.65 0/1:119:55,64:55:1957:64:2304:-171.798,0,-140.581 0/1:22:7,15:7:252:15:540:-42.3139,0,-16.4063 0/1:32:17,15:17:600:15:540:-39.3036,0,-44.6962 1/1:54:0,54:0:0:54:1932:-174.146,-16.2556,0 1/1:33:0,33:0:0:33:1176:-106.148,-9.93399,0 1/1:29:0,29:0:0:29:1035:-93.445,-8.72987,0 0/1:191:92,99:92:3243:99:3533:-260.663,0,-234.595 0/1:19:6,13:6:216:13:468:-36.7401,0,-14.0709 1/1:40:0,40:0:0:40:1436:-129.538,-12.0412,0 1/1:12:0,12:0:0:12:431:-39.1307,-3.61236,0 chr11 27712165 . G C 23239.5 PASS AB=0.496807;ABP=3.07963;AC=30;AF=0.714286;AN=42;AO=1140;CIGAR=1X;DP=1538;DPB=1538;DPRA=0;EPP=2478.49;EPPR=867.256;GTI=0;LEN=1;MEANALT=1;MQM=46.9596;MQMR=60;NS=21;NUMALT=1;ODDS=3.1807;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40666;QR=14174;RO=398;RPL=0;RPP=2478.49;RPPR=867.256;RPR=1140;RUN=1;SAF=1140;SAP=2478.49;SAR=0;SRF=398;SRP=867.256;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,58:0:0:58:2060:-183.876,-17.4597,0 1/1:73:0,73:0:0:73:2599:-228.439,-21.9752,0 1/1:72:0,72:0:0:72:2583:-230.492,-21.6742,0 0/1:84:47,37:47:1669:37:1320:-93.0373,0,-125.209 1/1:215:0,215:0:0:215:7616:-677.693,-64.7215,0 0/1:88:46,42:46:1652:42:1500:-105.313,0,-122.478 0/1:60:30,30:30:1080:30:1072:-76.7176,0,-79.4515 0/1:94:43,51:43:1514:51:1813:-133.863,0,-108.252 0/1:174:91,83:91:3268:83:2976:-213.2,0,-241.96 0/1:4:2,2:2:72:2:72:-5.59554,0,-5.6326 0/1:4:2,2:2:72:2:72:-5.4858,0,-5.6326 0/1:26:13,13:13:468:13:468:-34.4027,0,-34.6329 0/1:78:47,31:47:1680:31:1103:-74.5197,0,-128.007 0/1:63:35,28:35:1214:28:1004:-69.9928,0,-90.5942 1/1:94:0,94:0:0:94:3364:-299.663,-28.2968,0 1/1:66:1,65:1:36:65:2317:-203.79,-16.2697,0 1/1:57:0,57:0:0:57:2040:-182.038,-17.1587,0 0/1:70:26,44:26:924:44:1576:-119.549,0,-62.4056 0/1:38:12,26:12:417:26:923:-71.3968,0,-26.4211 1/1:91:3,88:3:108:88:3152:-271.695,-17.3186,0 1/1:29:0,29:0:0:29:1036:-90.3064,-8.72987,0 chr11 27712172 . ATTGT AC 23775.9 PASS AB=0.498741;ABP=3.02124;AC=30;AF=0.714286;AN=42;AO=1161;CIGAR=1M3D1X;DP=1563;DPB=866.4;DPRA=0;EPP=2524.09;EPPR=865.107;GTI=0;LEN=2;MEANALT=1.04762;MQM=46.9664;MQMR=60;NS=21;NUMALT=1;ODDS=2.12476;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41498;QR=14072;RO=401;RPL=0;RPP=2524.09;RPPR=873.771;RPR=1161;RUN=1;SAF=1161;SAP=2524.09;SAR=0;SRF=400;SRP=865.107;SRR=1;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,60:0:0:60:2123:-189.713,-18.0618,0 1/1:73:0,73:0:0:73:2588:-227.69,-21.9752,0 1/1:73:0,73:0:0:73:2624:-234.156,-21.9752,0 0/1:85:48,37:48:1673:37:1311:-91.9428,0,-125.267 1/1:220:0,220:0:0:220:7846:-698.391,-66.2266,0 0/1:89:45,44:45:1599:44:1572:-111.39,0,-117.409 0/1:62:30,31:30:1047:31:1095:-78.1937,0,-75.8553 0/1:94:42,52:42:1462:52:1859:-137.973,0,-103.575 0/1:175:92,83:92:3260:83:2988:-213.811,0,-240.943 0/1:4:2,2:2:69:2:72:-5.59554,0,-5.34842 0/1:4:2,2:2:71:2:72:-5.4858,0,-5.53794 0/1:26:13,13:13:466:13:468:-34.4027,0,-34.452 0/1:80:48,32:48:1695:32:1152:-78.308,0,-128.754 0/1:63:35,28:35:1201:28:989:-69.6003,0,-89.4256 1/1:97:0,97:0:0:97:3472:-309.311,-29.1999,0 1/1:66:1,65:1:36:65:2336:-205.273,-16.2697,0 1/1:57:0,57:0:0:57:2035:-182.054,-17.1587,0 0/1:73:28,45:28:959:45:1616:-122.216,0,-64.6442 0/1:39:12,27:12:432:27:968:-74.8087,0,-27.481 1/1:95:3,92:3:102:92:3308:-285.844,-19.0815,0 1/1:28:0,28:0:0:28:1004:-87.7036,-8.42884,0 chr11 27748289 . A G 2798.29 PASS AB=0.475177;ABP=4.51955;AC=11;AF=0.261905;AN=42;AO=137;CIGAR=1X;DP=518;DPB=518;DPRA=1.46212;EPP=22.4268;EPPR=3.06159;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.0964;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4842;QR=13516;RO=381;RPL=0;RPP=300.502;RPPR=830.341;RPR=137;RUN=1;SAF=86;SAP=22.4268;SAR=51;SRF=192;SRP=3.06159;SRR=189;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:41,0:41:1445:0:0:0,-12.3422,-130.344 0/0:29:29,0:29:998:0:0:0,-8.72987,-90.1257 0/0:9:9,0:9:311:0:0:0,-2.70927,-28.3237 0/1:15:9,6:9:320:6:212:-14.9093,0,-24.6269 0/0:30:29,1:29:1040:1:27:0,-6.33112,-91.2146 0/1:21:7,14:7:248:14:504:-39.3765,0,-16.3426 0/1:20:14,6:14:492:6:212:-13.4042,0,-38.5917 0/1:29:14,15:14:489:15:540:-40.2067,0,-35.609 0/1:21:12,9:12:428:9:316:-22.4572,0,-32.5372 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:26:12,14:12:424:14:504:-37.8713,0,-30.6696 0/1:31:18,13:18:629:13:446:-31.1345,0,-47.6018 0/0:16:16,0:16:568:0:0:0,-4.81648,-51.4519 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.052 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:47:21,26:21:752:26:910:-68.0657,0,-53.8578 0/1:59:36,23:36:1292:23:811:-55.5492,0,-98.823 0/0:13:12,1:12:428:1:36:0,-0.315115,-35.2605 0/0:61:60,1:60:2152:1:36:0,-14.7646,-190.349 chr11 27749137 . A C 25061.1 PASS AB=0.463087;ABP=13.5908;AC=30;AF=0.714286;AN=42;AO=1222;CIGAR=1X;DP=1711;DPB=1711;DPRA=0;EPP=2656.55;EPPR=1064.86;GTI=0;LEN=1;MEANALT=1;MQM=59.9509;MQMR=59.9755;NS=21;NUMALT=1;ODDS=5.70806;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43508;QR=17523;RO=489;RPL=0;RPP=2656.55;RPPR=1064.86;RPR=1222;RUN=1;SAF=0;SAP=2656.55;SAR=1222;SRF=0;SRP=1064.86;SRR=489;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:88:0,88:0:0:88:3149:-283.633,-26.4906,0 1/1:96:1,95:1:36:95:3377:-300.548,-25.3006,0 1/1:73:3,70:3:108:70:2499:-215.087,-11.9,0 0/1:107:49,58:49:1756:58:2067:-154.09,0,-126.114 1/1:215:4,211:4:144:211:7455:-657.598,-51.4078,0 0/1:75:46,29:46:1656:29:1040:-71.3371,0,-126.751 0/1:142:91,51:91:3251:51:1828:-122.047,0,-250.065 0/1:20:9,11:9:320:11:387:-29.1453,0,-23.1218 0/1:140:70,70:70:2512:70:2502:-183.287,0,-184.165 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:11:7,4:7:252:4:140:-9.63325,0,-19.7176 0/1:24:16,8:16:572:8:284:-18.6786,0,-44.5887 0/1:125:74,51:74:2656:51:1823:-126.722,0,-201.657 0/1:88:52,36:52:1860:36:1252:-86.4886,0,-141.189 1/1:28:0,28:0:0:28:991:-89.5035,-8.42884,0 1/1:114:0,114:0:0:114:4096:-368.824,-34.3174,0 1/1:72:0,72:0:0:72:2561:-230.737,-21.6742,0 0/1:84:39,45:39:1400:45:1608:-119.724,0,-101.013 0/1:71:25,46:25:892:46:1630:-125.614,0,-59.2266 1/1:76:0,76:0:0:76:2695:-242.687,-22.8783,0 1/1:55:1,54:1:36:54:1944:-171.638,-12.9584,0 chr11 27845714 . C T 47608.7 PASS AB=0.708117;ABP=438.662;AC=30;AF=0.714286;AN=42;AO=2230;CIGAR=1X;DP=2569;DPB=2569;DPRA=0;EPP=4828.04;EPPR=739.139;GTI=4;LEN=1;MEANALT=1;MQM=59.9789;MQMR=60;NS=21;NUMALT=1;ODDS=2.76643;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79603;QR=12144;RO=339;RPL=2;RPP=4828.04;RPPR=739.139;RPR=2228;RUN=1;SAF=0;SAP=4845.39;SAR=2230;SRF=0;SRP=739.139;SRR=339;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:174:1,173:1:36:173:6171:-551.89,-48.7809,0 1/1:101:0,101:0:0:101:3605:-324.655,-30.404,0 1/1:180:0,180:0:0:180:6386:-574.832,-54.1854,0 0/1:87:25,62:25:881:62:2199:-171.986,0,-53.4163 1/1:304:0,304:0:0:304:10827:-974.332,-91.5131,0 0/1:53:8,45:8:288:45:1612:-129.415,0,-10.3128 0/1:166:40,126:40:1432:126:4515:-356.546,0,-79.2066 0/1:180:47,133:47:1688:133:4780:-376.161,0,-98.0215 0/1:191:46,145:46:1652:145:5171:-408.035,0,-91.4717 0/1:12:2,10:2:72:10:360:-29.1319,0,-3.22436 0/1:8:4,4:4:140:4:144:-10.9054,0,-10.5363 0/1:44:10,34:10:360:34:1211:-96.0502,0,-19.499 0/1:75:27,48:27:972:48:1716:-132.148,0,-65.2207 0/1:127:27,100:27:972:100:3572:-283.371,0,-49.5671 1/1:275:0,275:0:0:275:9814:-883.206,-82.7833,0 1/1:92:0,92:0:0:92:3268:-294.339,-27.6948,0 1/1:122:0,122:0:0:122:4359:-392.484,-36.7257,0 0/1:159:77,82:77:2751:82:2952:-218.049,0,-199.968 0/1:56:25,31:25:900:31:1112:-83.5337,0,-64.4633 1/1:92:0,92:0:0:92:3292:-296.499,-27.6948,0 1/1:71:0,71:0:0:71:2537:-228.58,-21.3731,0 chr11 27851883 . G T 27553.6 PASS AB=0.465228;ABP=16.1485;AC=31;AF=0.738095;AN=42;AO=1434;CIGAR=1X;DP=2111;DPB=2111;DPRA=0;EPP=3090.9;EPPR=1451.43;GTI=1;LEN=1;MEANALT=1.09524;MQM=40.8257;MQMR=59.8;NS=21;NUMALT=1;ODDS=3.07187;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51430;QR=24104;RO=675;RPL=0;RPP=3116.9;RPPR=1468.75;RPR=1434;RUN=1;SAF=1431;SAP=3090.9;SAR=3;SRF=673;SRP=1451.43;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,71:0:0:71:2556:-221.761,-21.3731,0 1/1:37:0,37:0:0:37:1332:-109.708,-11.1381,0 1/1:89:0,89:0:0:89:3204:-278.829,-26.7917,0 0/1:182:94,88:94:3326:88:3160:-220.503,0,-244.765 1/1:199:3,195:3:108:195:6989:-600.414,-49.8814,0 0/1:105:64,41:64:2281:41:1476:-92.985,0,-173.928 0/1:135:86,49:86:3054:49:1760:-106.903,0,-234.44 0/1:128:79,49:79:2840:49:1745:-111.116,0,-217.3 0/1:170:90,80:90:3217:80:2863:-200.151,0,-238.573 1/1:8:0,8:0:0:8:288:-25.2178,-2.40824,0 0/1:14:6,8:6:216:8:288:-20.5151,0,-15.5669 0/1:47:29,18:29:1044:18:648:-41.9181,0,-80.1264 0/1:152:77,75:77:2738:75:2678:-187.783,0,-200.874 0/1:139:73,66:73:2628:66:2356:-163.399,0,-194.815 1/1:182:0,182:0:0:182:6536:-569.22,-54.7875,0 1/1:56:0,56:0:0:56:2012:-174.498,-16.8577,0 1/1:54:0,54:0:0:54:1915:-167.492,-16.2556,0 0/1:73:32,41:32:1144:41:1476:-104.328,0,-81.2897 0/1:106:39,67:39:1400:67:2404:-177.104,0,-94.378 1/1:122:3,118:3:108:118:4232:-353.553,-26.5965,0 1/1:42:0,42:0:0:42:1512:-124.842,-12.6433,0 chr11 27851923 . ATGC TTGT,TTGC 42758.9 PASS AB=0.465339,0.532271;ABP=16.1066,14.3625;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1438,677;CIGAR=1X2M1X,1X3M;DP=2123;DPB=2123;DPRA=0,1.78179;EPP=3099.58,1455.78;EPPR=0;GTI=1;LEN=4,1;MEANALT=2,2.46154;MQM=40.7656,59.7622;MQMR=0;NS=21;NUMALT=2;ODDS=2.8537;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50748,24225;QR=0;RO=0;RPL=1438,677;RPP=3125.59,1473.1;RPPR=0;RPR=0,0;RUN=1,1;SAF=1435,675;SAP=3099.58,1455.78;SAR=3,2;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,72,0:0:0:72,0:2559,0:-222.657,-21.6742,0,-222.657,-21.6742,-222.657 1/1:36:0,36,0:0:0:36,0:1289,0:-106.331,-10.8371,0,-106.331,-10.8371,-106.331 1/1:90:0,90,0:0:0:90,0:3147,0:-275.165,-27.0927,0,-275.165,-27.0927,-275.165 1/2:184:0,90,94:0:0:90,94:3176,3361:-523.322,-274.401,-247.308,-249.27,0,-220.974 1/1:200:0,195,3:0:0:195,3:6923,108:-605.432,-58.7009,0,-596.619,-49.867,-595.716 1/2:106:0,41,65:0:0:41,65:1461,2324:-300.654,-189.77,-177.428,-111.228,0,-91.6606 1/2:133:0,48,84:0:0:48,84:1698,3001:-373.467,-244.778,-230.328,-128.773,0,-103.487 1/2:129:0,48,81:0:0:48,81:1682,2904:-366.839,-237.201,-222.752,-129.98,0,-105.597 1/2:170:0,80,90:0:0:80,90:2812,3236:-487.827,-264.365,-240.283,-223.813,0,-196.721 1/1:8:0,8,0:0:0:8,0:284,0:-24.9273,-2.40824,0,-24.9273,-2.40824,-24.9273 1/2:15:0,8,7:0:0:8,7:281,252:-42.3952,-20.9126,-18.5043,-21.8294,0,-19.7222 1/2:48:0,19,29:0:0:19,29:675,1044:-138.057,-85.5449,-79.8254,-52.8602,0,-44.1304 1/2:152:0,76,76:0:0:76,76:2665,2708:-430.982,-221.078,-198.2,-210.252,0,-187.374 1/2:137:0,66,71:0:0:66,71:2333,2539:-390.554,-207.353,-187.485,-183.551,0,-162.178 1/1:183:0,183,0:0:0:183,0:6453,0:-562.919,-55.0885,0,-562.919,-55.0885,-562.919 1/1:56:0,56,0:0:0:56,0:1980,0:-172.196,-16.8577,0,-172.196,-16.8577,-172.196 1/1:55:0,55,0:0:0:55,0:1898,0:-166.716,-16.5567,0,-166.716,-16.5567,-166.716 1/2:75:0,42,33:0:0:42,33:1483,1176:-210.531,-96.2119,-83.5687,-114.666,0,-104.732 1/2:106:0,66,38:0:0:66,38:2357,1360:-295.774,-110.939,-91.0706,-184.866,0,-173.427 1/1:123:0,116,6:0:0:116,6:4087,212:-351.97,-34.9195,0,-334.715,-17.597,-332.909 1/1:43:0,43,0:0:0:43,0:1505,0:-125.502,-12.9443,0,-125.502,-12.9443,-125.502 chr11 27882752 . CAC TAA,TAC 29939.6 PASS AB=0.485356,0.512552;ABP=4.79109,4.31863;AC=30,12;AF=0.714286,0.285714;AN=42;AO=952,495;CIGAR=1X1M1X,1X2M;DP=1450;DPB=1450;DPRA=0,1.5863;EPP=2061.58,1069.22;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.85714,2.13333;MQM=59.9569,59.9919;MQMR=0;NS=21;NUMALT=2;ODDS=7.07196;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33502,17713;QR=0;RO=0;RPL=0,1;RPP=2070.25,1069.22;RPPR=0;RPR=952,494;RUN=1,1;SAF=1,0;SAP=2061.58,1077.89;SAR=951,495;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,78,0:0:0:78,0:2732,0:-246.123,-23.4803,0,-246.123,-23.4803,-246.123 1/1:19:0,19,0:0:0:19,0:677,0:-61.2583,-5.71957,0,-61.2583,-5.71957,-61.2583 1/1:107:0,106,0:0:0:106,0:3711,0:-333.977,-31.9092,0,-333.977,-31.9092,-333.977 1/2:63:0,36,27:0:0:36,27:1252,964:-180.739,-78.949,-68.1119,-102.143,0,-94.0154 1/1:90:0,88,2:0:0:88,2:3084,72:-277.43,-26.4906,0,-271.555,-20.256,-270.952 1/2:63:0,34,29:0:0:34,29:1212,1040:-183.979,-85.1845,-74.9495,-99.1515,0,-90.4216 1/2:67:0,36,31:0:0:36,31:1272,1116:-195.009,-91.4198,-80.5827,-103.946,0,-94.6142 1/2:102:0,48,53:0:0:48,53:1691,1896:-292.272,-154.603,-140.153,-137.664,0,-121.71 1/2:157:0,55,101:0:0:55,101:1951,3616:-453.945,-294.991,-278.434,-159.057,0,-128.653 1/2:28:0,5,23:0:0:5,23:172,824:-81.5254,-67.5596,-66.0545,-14.3122,0,-7.38847 1/2:4:0,2,2:0:0:2,2:64,72:-11.3708,-6.23466,-5.6326,-5.47604,0,-4.87398 1/2:25:0,14,11:0:0:14,11:503,392:-73.3409,-32.3087,-28.0943,-41.3896,0,-38.0783 1/2:145:0,89,56:0:0:89,56:3135,2000:-418.329,-163.416,-136.624,-255.268,0,-238.41 1/2:121:0,67,54:0:0:67,54:2348,1932:-348.955,-157.901,-137.732,-191.409,0,-175.153 1/1:74:0,73,1:0:0:73,1:2601,36:-233.98,-21.9752,0,-231.042,-18.6779,-230.741 1/1:25:0,25,0:0:0:25,0:880,0:-79.5164,-7.52575,0,-79.5164,-7.52575,-79.5164 1/1:25:0,25,0:0:0:25,0:866,0:-78.2536,-7.52575,0,-78.2536,-7.52575,-78.2536 1/2:137:0,51,86:0:0:51,86:1793,3069:-396.492,-250.549,-235.196,-146.296,0,-120.407 1/2:44:0,27,17:0:0:27,17:965,612:-128.977,-50.2959,-42.1681,-79.0394,0,-73.9219 1/1:38:0,36,2:0:0:36,2:1259,72:-113.252,-10.8371,0,-107.376,-4.60242,-106.774 1/1:38:0,38,0:0:0:38,0:1334,0:-120.358,-11.4391,0,-120.358,-11.4391,-120.358 chr11 27903741 . T C 114878 PASS AB=0.55284;ABP=76.4445;AC=30;AF=0.714286;AN=42;AO=4340;CIGAR=1X;DP=5706;DPB=5706;DPRA=0;EPP=9427.2;EPPR=2967.07;GTI=0;LEN=1;MEANALT=1.04762;MQM=54.3138;MQMR=59.7912;NS=21;NUMALT=1;ODDS=31.8104;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=153832;QR=48805;RO=1365;RPL=2050;RPP=31.8298;RPPR=8.54795;RPR=2290;RUN=1;SAF=2050;SAP=31.8298;SAR=2290;SRF=712;SRP=8.54795;SRR=653;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:392:5,387:5:180:387:13641:-1204.91,-101.452,0 1/1:203:1,202:1:36:202:7144:-636.225,-57.5108,0 1/1:294:1,293:1:36:293:10421:-929.412,-84.9045,0 0/1:299:134,165:134:4792:165:5842:-431.749,0,-341.314 1/1:644:0,644:0:0:644:22826:-2045.02,-193.863,0 0/1:261:114,147:114:4053:147:5206:-388.754,0,-286.039 0/1:386:203,183:203:7237:183:6491:-466.95,0,-535.101 0/1:205:88,117:88:3156:117:4128:-308.575,0,-222.326 0/1:661:278,382:278:9972:382:13548:-1016.24,0,-698.165 0/1:60:34,26:34:1209:26:936:-66.1885,0,-91.0523 0/1:21:11,10:11:387:10:343:-24.8663,0,-28.8443 0/1:90:37,53:37:1323:53:1896:-143.318,0,-92.2786 0/1:330:141,189:141:5051:189:6743:-504.147,0,-354.94 0/1:343:140,203:140:5010:203:7185:-540.227,0,-347.565 1/1:376:1,375:1:36:375:13337:-1193.16,-109.589,0 1/1:233:0,233:0:0:233:8257:-738.398,-70.14,0 1/1:176:0,176:0:0:176:6245:-559.209,-52.9813,0 0/1:180:99,81:99:3523:81:2889:-205.595,0,-263.086 0/1:192:74,118:74:2664:118:4171:-316.271,0,-182.207 1/1:252:4,248:4:140:248:8751:-772.105,-62.915,0 1/1:108:0,108:0:0:108:3832:-343.755,-32.5112,0 chr11 28006350 . GATCAAC AATCAAC,AATTAAT 46714 PASS AB=0.486915,0.511499;ABP=4.88558,4.45852;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1775,657;CIGAR=1X6M,1X2M1X2M1X;DP=2435;DPB=2435;DPRA=0,1.07102;EPP=3857.37,1429.67;EPPR=0;GTI=0;LEN=1,7;MEANALT=1.90476,2.1875;MQM=59.8873,27.4977;MQMR=0;NS=21;NUMALT=2;ODDS=1.11685;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=63562,23323;QR=0;RO=0;RPL=0,0;RPP=3857.37,1429.67;RPPR=0;RPR=1775,657;RUN=1,1;SAF=1775,657;SAP=3857.37,1429.67;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:140:0,140,0:0:0:140,0:4994,0:-449.595,-42.1442,0,-449.595,-42.1442,-449.595 1/1:132:0,131,1:0:0:131,1:4689,36:-421.611,-39.4349,0,-419.61,-37.1773,-419.309 1/1:98:0,98,0:0:0:98,0:3512,0:-316.282,-29.5009,0,-316.282,-29.5009,-316.282 1/2:160:0,69,90:0:0:69,90:2476,3198:-389.744,-187.748,-166.977,-202.07,0,-174.978 1/1:269:0,263,5:0:0:263,5:9428,180:-848.196,-79.1709,0,-837.784,-68.7866,-836.279 1/2:95:0,45,50:0:0:45,50:1620,1784:-233.418,-101.186,-87.6394,-132.544,0,-117.492 1/2:211:0,122,89:0:0:122,89:4380,3151:-536.176,-178.84,-142.114,-357.636,0,-330.844 1/2:56:0,18,38:0:0:18,38:648,1348:-128.751,-75.8434,-70.4249,-53.2333,0,-41.7942 1/2:289:0,134,154:0:0:134,154:4812,5477:-732.049,-339.475,-299.137,-392.585,0,-346.227 1/2:17:0,12,5:0:0:12,5:417,174:-44.6254,-10.6665,-7.05412,-34.2479,0,-32.7427 1/2:7:0,2,5:0:0:2,5:72,180:-16.1694,-10.2649,-9.66284,-6.23466,0,-4.72951 1/2:31:0,11,20:0:0:11,20:396,714:-72.0354,-39.6857,-36.3744,-32.6714,0,-26.6508 1/2:121:0,46,75:0:0:46,75:1652,2655:-291.026,-156.239,-142.392,-135.11,0,-112.533 1/2:113:0,59,54:0:0:59,54:2109,1906:-284.651,-112.644,-94.883,-172.316,0,-156.061 1/1:156:0,156,0:0:0:156,0:5585,0:-502.739,-46.9607,0,-502.739,-46.9607,-502.739 1/1:108:0,107,1:0:0:107,1:3825,36:-344.152,-32.2102,0,-341.915,-29.6902,-341.614 1/1:95:0,95,0:0:0:95,0:3389,0:-305.224,-28.5979,0,-305.224,-28.5979,-305.224 1/2:85:0,47,38:0:0:47,38:1673,1353:-209.282,-72.8809,-58.7325,-136.696,0,-125.257 1/2:76:0,49,27:0:0:49,27:1756,954:-200.171,-56.8965,-42.146,-143.574,0,-135.446 1/1:115:0,110,5:0:0:110,5:3937,177:-354.23,-33.1133,0,-344.666,-23.2988,-343.161 1/1:61:0,61,0:0:0:61,0:2192,0:-197.535,-18.3628,0,-197.535,-18.3628,-197.535 chr11 28007021 . A G 21511.3 PASS AB=0.413926;ABP=69.5489;AC=30;AF=0.714286;AN=42;AO=1087;CIGAR=1X;DP=1701;DPB=1701;DPRA=0;EPP=2363.4;EPPR=1336.29;GTI=0;LEN=1;MEANALT=1;MQM=59.9678;MQMR=59.9984;NS=21;NUMALT=1;ODDS=2.38696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38747;QR=21999;RO=614;RPL=0;RPP=2363.4;RPPR=1336.29;RPR=1087;RUN=1;SAF=1087;SAP=2363.4;SAR=0;SRF=614;SRP=1336.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77:0:0:77:2719:-244.95,-23.1793,0 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 1/1:90:0,90:0:0:90:3228:-290.74,-27.0927,0 0/1:50:39,11:39:1396:11:396:-20.9312,0,-110.888 1/1:106:6,100:6:216:100:3535:-298.567,-12.1191,0 0/1:84:43,41:43:1525:41:1476:-107.85,0,-112.255 0/1:108:72,36:72:2588:36:1281:-83.08,0,-200.657 0/1:129:90,39:90:3236:39:1400:-87.4663,0,-252.628 0/1:146:83,63:83:2980:63:2241:-158.003,0,-224.481 0/1:14:9,5:9:320:5:176:-11.9706,0,-24.9279 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:14:8,6:8:288:6:210:-15.0273,0,-22.053 0/1:131:66,65:66:2372:65:2313:-168.994,0,-174.303 0/1:129:85,44:85:3026:44:1557:-101.587,0,-233.735 1/1:154:0,154:0:0:154:5487:-493.955,-46.3586,0 1/1:45:0,45:0:0:45:1619:-146,-13.5464,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 0/1:162:86,76:86:3084:76:2697:-193.429,0,-229.021 0/1:60:20,40:20:716:40:1432:-111.116,0,-46.7059 1/1:67:2,65:2:72:65:2312:-201.504,-13.3323,0 1/1:66:0,66:0:0:66:2372:-213.738,-19.868,0 chr11 28007074 . C T 9625.02 PASS AB=0.571574;ABP=46.8388;AC=12;AF=0.285714;AN=42;AO=570;CIGAR=1X;DP=1629;DPB=1629;DPRA=1.21113;EPP=1240.75;EPPR=2302.6;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9698;NS=21;NUMALT=1;ODDS=0.105564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20127;QR=37120;RO=1059;RPL=570;RPP=1240.75;RPPR=2302.6;RPR=0;RUN=1;SAF=570;SAP=1240.75;SAR=0;SRF=1059;SRP=2302.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:75,0:75:2650:0:0:0,-22.5772,-238.747 0/0:33:33,0:33:1176:0:0:0,-9.93399,-106.148 0/0:84:84,0:84:2952:0:0:0,-25.2865,-265.912 0/1:50:14,36:14:491:36:1258:-98.4693,0,-29.4696 0/0:105:100,5:100:3449:5:167:0,-16.2497,-295.263 0/1:78:37,41:37:1289:41:1459:-108.125,0,-92.8283 0/1:99:30,69:30:1034:69:2444:-190.414,0,-63.5627 0/1:123:40,83:40:1364:83:2926:-226.547,0,-86.0243 0/1:136:61,75:61:2156:75:2673:-199.874,0,-153.365 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:6:1,5:1:36:5:162:-13.0927,0,-1.79209 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:128:65,63:65:2317:63:2233:-162.701,0,-170.257 0/1:122:44,78:44:1534:78:2758:-211.737,0,-101.622 0/0:143:143,0:143:5042:0:0:0,-43.0473,-453.931 0/0:45:45,0:45:1576:0:0:0,-13.5463,-142.128 0/0:29:29,0:29:1027:0:0:0,-8.72987,-92.7422 0/1:154:78,76:78:2726:76:2681:-195.177,0,-198.996 0/1:63:41,22:41:1451:22:754:-49.2109,0,-111.92 0/0:63:61,2:61:2110:2:72:0,-12.1282,-183.327 0/0:67:67,0:67:2344:0:0:0,-20.169,-211.219 chr11 28035289 . GCCCCCTT GCCACCTT 24864.8 PASS AB=0.494647;ABP=3.24279;AC=29;AF=0.690476;AN=42;AO=1255;CIGAR=3M1X4M;DP=1781;DPB=1781;DPRA=0;EPP=2710.86;EPPR=1032.92;GTI=2;LEN=1;MEANALT=1.7619;MQM=46.8821;MQMR=59.4177;NS=21;NUMALT=1;ODDS=0.745068;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44044;QR=17458;RO=498;RPL=2;RPP=2710.86;RPPR=1032.92;RPR=1253;RUN=1;SAF=1255;SAP=2728.21;SAR=0;SRF=498;SRP=1084.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:65:2,62:2:72:62:2165:-186.905,-12.7857,0 1/1:35:0,35:0:0:35:1234:-108.648,-10.5361,0 1/1:66:2,63:2:67:63:2186:-189.22,-13.5018,0 0/1:92:41,51:41:1432:51:1804:-133.719,0,-101.48 1/1:161:0,160:0:0:160:5651:-503.172,-48.1648,0 0/1:74:39,34:39:1355:34:1192:-83.0222,0,-100.01 0/1:154:89,64:89:3115:64:2252:-151.94,0,-234.166 0/1:79:35,44:35:1222:44:1524:-112.071,0,-86.4738 0/1:130:74,54:74:2611:54:1900:-131.682,0,-196.318 0/1:19:9,10:9:309:10:356:-26.3221,0,-22.386 0/0:35:32,3:32:1114:3:100:0,-1.33837,-91.3367 0/1:51:27,24:27:953:24:833:-59.1147,0,-70.7055 0/1:90:42,48:42:1480:48:1696:-124.403,0,-106.372 0/1:74:34,40:34:1186:40:1408:-103.792,0,-84.7619 1/1:283:0,277:0:0:277:9767:-872.146,-83.3853,0 1/1:48:0,48:0:0:48:1639:-146.715,-14.4494,0 1/1:58:0,49:0:0:49:1728:-154.576,-14.7505,0 0/1:108:51,55:51:1800:55:1913:-138.215,0,-130.044 0/1:63:21,38:21:742:38:1343:-102.167,0,-48.9936 1/1:61:0,61:0:0:61:2126:-189.441,-18.3628,0 1/1:35:0,35:0:0:35:1227:-108.305,-10.5361,0 chr11 28035467 . CTAAAGATAATTA CGTGATTG,CATGATTG 63579.7 PASS AB=0.479375,0.5175;ABP=8.92213,7.26639;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2201,833;CIGAR=1M5D1X1M1X3M1X,1M5D2M1X3M1X;DP=3045;DPB=1873.92;DPRA=0,1.02209;EPP=4782.42,1811.85;EPPR=0;GTI=0;LEN=8,8;MEANALT=2.2381,2.4375;MQM=51.3644,58.6603;MQMR=0;NS=21;NUMALT=2;ODDS=19.9051;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=77737,29491;QR=0;RO=0;RPL=0,0;RPP=4782.42,1811.85;RPPR=0;RPR=2201,833;RUN=1,1;SAF=2201,833;SAP=4782.42,1811.85;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:0,178,0:0:0:178,0:6290,0:-563.115,-53.5833,0,-563.115,-53.5833,-563.115 1/1:179:0,178,0:0:0:178,0:6283,0:-559.462,-53.5833,0,-559.462,-53.5833,-559.462 1/1:113:0,112,0:0:0:112,0:3954,0:-354.075,-33.7154,0,-354.075,-33.7154,-354.075 1/2:189:0,74,115:0:0:74,115:2610,4081:-543.982,-332.766,-310.489,-211.569,0,-176.95 1/1:217:0,216,1:0:0:216,1:7615,36:-682.794,-65.0225,0,-679.857,-61.7252,-679.556 1/2:195:0,97,98:0:0:97,98:3414,3445:-554.399,-279.632,-250.432,-275.116,0,-245.615 1/2:219:0,110,108:0:0:110,108:3886,3789:-620.713,-307.429,-274.316,-313.343,0,-280.832 1/2:122:0,71,50:0:0:71,50:2516,1773:-348.365,-144.11,-122.737,-204.259,0,-189.207 1/2:233:0,115,117:0:0:115,117:4077,4120:-666.424,-335.153,-300.535,-331.332,0,-296.112 1/2:28:0,10,18:0:0:10,18:345,646:-80.8926,-52.9663,-49.956,-28.2753,0,-22.8567 1/2:10:0,2,8:0:0:2,8:72,282:-29.0775,-23.264,-22.662,-6.16886,0,-3.76062 1/2:69:0,34,34:0:0:34,34:1213,1219:-197.784,-99.4225,-89.1875,-98.3584,0,-88.1234 1/2:222:0,106,116:0:0:106,116:3744,4134:-639.902,-336.388,-304.479,-303.868,0,-268.948 1/2:131:0,50,80:0:0:50,80:1768,2848:-375.714,-232.004,-216.953,-143.704,0,-119.622 1/1:253:0,250,1:0:0:250,1:8845,35:-793.002,-75.2575,0,-790.154,-72.4131,-789.853 1/1:146:0,146,0:0:0:146,0:5155,0:-463.255,-43.9504,0,-463.255,-43.9504,-463.255 1/1:109:0,107,1:0:0:107,1:3750,34:-336.657,-32.2102,0,-333.899,-29.4067,-333.598 1/2:107:0,47,60:0:0:47,60:1666,2118:-307.897,-172.677,-158.528,-135.573,0,-117.511 1/2:75:0,51,24:0:0:51,24:1804,859:-216.823,-70.4061,-55.0536,-146.773,0,-139.548 1/1:153:0,151,2:0:0:151,2:5341,72:-477.536,-45.4555,0,-471.661,-39.251,-471.059 1/1:96:0,96,0:0:0:96,0:3389,0:-302.063,-28.8989,0,-302.063,-28.8989,-302.063 chr11 28076945 . C T 10125.2 PASS AB=0.466468;ABP=16.1168;AC=12;AF=0.285714;AN=42;AO=637;CIGAR=1X;DP=2283;DPB=2283;DPRA=1.30895;EPP=1386.24;EPPR=3577.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9969;MQMR=60;NS=21;NUMALT=1;ODDS=15.292;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22604;QR=58821;RO=1646;RPL=637;RPP=1386.24;RPPR=3577.25;RPR=0;RUN=1;SAF=0;SAP=1386.24;SAR=637;SRF=0;SRP=3577.25;SRR=1646;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:93:93,0:93:3328:0:0:0,-27.9958,-299.738 0/0:104:103,1:103:3689:1:36:0,-27.7088,-328.612 0/0:86:86,0:86:3088:0:0:0,-25.8886,-278.147 0/1:205:131,74:131:4674:74:2633:-175.505,0,-359.108 0/0:229:224,5:224:7944:5:180:0,-52.3838,-698.435 0/1:207:77,130:77:2760:130:4557:-347.984,0,-186.328 0/1:163:84,79:84:3004:79:2840:-206.77,0,-221.524 0/1:100:57,43:57:2036:43:1521:-107.078,0,-153.409 0/1:116:61,55:61:2184:55:1942:-140.133,0,-161.906 0/1:10:5,5:5:180:5:165:-12.1633,0,-13.5418 0/1:26:18,8:18:644:8:284:-18.0766,0,-50.4638 0/1:59:31,28:31:1116:28:978:-70.567,0,-82.9909 0/1:141:82,59:82:2944:59:2104:-147.184,0,-222.748 0/1:173:87,86:87:3093:86:3076:-224.99,0,-226.519 0/0:111:111,0:111:3992:0:0:0,-33.4143,-359.468 0/0:65:64,1:64:2288:1:36:0,-15.9687,-202.583 0/0:95:95,0:95:3378:0:0:0,-28.5978,-304.234 0/1:80:38,42:38:1364:42:1504:-111.572,0,-98.9783 0/1:62:45,17:45:1591:17:604:-36.0267,0,-124.816 0/0:103:99,4:99:3548:4:144:0,-17.6925,-306.215 0/0:55:55,0:55:1976:0:0:0,-16.5566,-178.115 chr11 28083682 . GTTAT ATTAA,ATTAT 25363.6 PASS AB=0.393983,0.606017;ABP=71.1535,71.1535;AC=30,12;AF=0.714286,0.285714;AN=42;AO=819,425;CIGAR=1X3M1X,1X4M;DP=1248;DPB=1248;DPRA=0,0.886667;EPP=1781.45,925.886;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.85714,2.07143;MQM=54.4945,59.4871;MQMR=0;NS=21;NUMALT=2;ODDS=10.5486;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28289,15054;QR=0;RO=0;RPL=0,0;RPP=1781.45,925.886;RPPR=0;RPR=819,425;RUN=1,1;SAF=819,425;SAP=1781.45,925.886;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:60:0,59,0:0:0:59,0:2036,0:-181.992,-17.7608,0,-181.992,-17.7608,-181.992 1/1:52:0,52,0:0:0:52,0:1814,0:-163.159,-15.6536,0,-163.159,-15.6536,-163.159 1/1:75:0,75,0:0:0:75,0:2627,0:-236.173,-22.5773,0,-236.173,-22.5773,-236.173 1/2:78:0,25,53:0:0:25,53:849,1864:-220.875,-152.072,-144.546,-69.1464,0,-53.1918 1/1:38:0,36,1:0:0:36,1:1245,36:-111.698,-10.8371,0,-108.76,-7.85369,-108.459 1/2:70:0,21,49:0:0:21,49:720,1748:-201.135,-142.815,-136.493,-58.6668,0,-43.9163 1/2:82:0,28,54:0:0:28,54:969,1889:-232.371,-153.989,-145.56,-78.7284,0,-62.4727 1/2:44:0,19,25:0:0:19,25:652,892:-125.906,-73.054,-67.3344,-53.2006,0,-45.6748 1/2:137:0,58,79:0:0:58,79:2007,2804:-391.861,-228.809,-211.349,-163.402,0,-139.621 1/2:4:0,3,1:0:0:3,1:108,36:-12.0953,-3.29724,-2.39415,-9.15779,0,-8.85676 1/2:9:0,3,6:0:0:3,6:106,214:-26.0815,-17.469,-16.5659,-8.96418,0,-7.158 1/2:22:0,12,10:0:0:12,10:411,356:-62.58,-29.3709,-25.7586,-33.5581,0,-30.5478 1/2:73:0,19,54:0:0:19,54:662,1916:-210.225,-156.431,-150.711,-54.1441,0,-37.8885 1/2:111:0,49,62:0:0:49,62:1674,2199:-315.194,-179.507,-164.756,-136.034,0,-117.37 1/1:88:0,87,0:0:0:87,0:2971,0:-266.697,-26.1896,0,-266.697,-26.1896,-266.697 1/1:75:0,74,0:0:0:74,0:2585,0:-232.11,-22.2762,0,-232.11,-22.2762,-232.11 1/1:65:0,65,0:0:0:65,0:2235,0:-201.189,-19.567,0,-201.189,-19.567,-201.189 1/2:34:0,15,19:0:0:15,19:524,668:-97.1875,-54.7236,-50.2082,-42.8134,0,-37.0939 1/2:34:0,23,11:0:0:23,11:792,396:-96.9262,-32.6607,-25.737,-64.6201,0,-61.3088 1/1:62:0,61,1:0:0:61,1:2102,36:-188.139,-18.3628,0,-185.201,-15.0656,-184.9 1/1:35:0,35,0:0:0:35,0:1200,0:-108.08,-10.5361,0,-108.08,-10.5361,-108.08 chr11 28083858 . A C 18315.6 PASS AB=0.402597;ABP=66.4624;AC=30;AF=0.714286;AN=42;AO=907;CIGAR=1X;DP=1372;DPB=1372;DPRA=0;EPP=1972.54;EPPR=1012.74;GTI=0;LEN=1;MEANALT=1;MQM=59.8942;MQMR=59.9871;NS=21;NUMALT=1;ODDS=19.0499;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32368;QR=16692;RO=465;RPL=907;RPP=1972.54;RPPR=1012.74;RPR=0;RUN=1;SAF=0;SAP=1972.54;SAR=907;SRF=0;SRP=1012.74;SRR=465;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:73:1,72:1:36:72:2554:-226.495,-18.3769,0 1/1:50:0,50:0:0:50:1796:-161.922,-15.0515,0 1/1:40:1,39:1:32:39:1385:-121.725,-8.84189,0 0/1:22:10,12:10:360:12:417:-31.2376,0,-26.1216 1/1:102:1,101:1:36:101:3624:-322.766,-27.1068,0 0/1:67:44,23:44:1584:23:809:-52.9511,0,-122.683 0/1:156:119,37:119:4268:37:1332:-73.2217,0,-337.337 0/1:60:28,32:28:1008:32:1114:-82.5014,0,-72.9746 0/1:112:69,43:69:2476:43:1532:-104.458,0,-189.378 0/1:27:17,10:17:612:10:359:-24.5258,0,-47.2856 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:45:27,18:27:968:18:633:-43.7487,0,-73.891 0/1:39:19,20:19:680:20:720:-53.3886,0,-49.789 0/1:73:44,29:44:1580:29:1044:-72.2996,0,-120.516 1/1:118:0,118:0:0:118:4199:-378.089,-35.5215,0 1/1:41:0,41:0:0:41:1457:-131.416,-12.3422,0 1/1:82:1,81:1:36:81:2912:-258.707,-21.0862,0 0/1:118:65,53:65:2336:53:1885:-134.253,0,-174.973 0/1:41:13,28:13:464:28:1008:-78.6941,0,-29.7553 1/1:54:0,54:0:0:54:1940:-174.876,-16.2556,0 1/1:42:1,41:1:36:41:1468:-128.818,-9.04499,0 chr11 28083865 . A G 8168.31 PASS AB=0.594072;ABP=62.6586;AC=12;AF=0.285714;AN=42;AO=466;CIGAR=1X;DP=1382;DPB=1382;DPRA=0.932097;EPP=1014.92;EPPR=1992.08;GTI=0;LEN=1;MEANALT=1;MQM=59.9871;MQMR=59.8723;NS=21;NUMALT=1;ODDS=19.0444;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16696;QR=32680;RO=916;RPL=466;RPP=1014.92;RPPR=1992.08;RPR=0;RUN=1;SAF=0;SAP=1014.92;SAR=466;SRF=0;SRP=1992.08;SRR=916;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:73,1:73:2586:1:36:0,-18.6779,-229.231 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/0:41:40,1:40:1417:1:36:0,-8.74395,-124.205 0/1:24:14,10:14:504:10:356:-25.1565,0,-38.4282 0/0:101:99,2:99:3536:2:72:0,-23.5673,-311.613 0/1:67:23,44:23:828:44:1580:-122.323,0,-54.6669 0/1:152:36,116:36:1284:116:4155:-328.376,0,-70.1069 0/1:61:33,28:33:1161:28:1008:-72.6735,0,-86.4319 0/1:112:44,68:44:1568:68:2440:-186.14,0,-107.696 0/1:27:10,17:10:360:17:612:-47.2856,0,-24.6165 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:45:18,27:18:648:27:953:-72.537,0,-45.1055 0/1:40:21,19:21:756:19:680:-49.488,0,-56.326 0/1:75:28,47:28:1000:47:1688:-129.63,0,-67.7381 0/0:120:120,0:120:4293:0:0:0,-36.1236,-386.546 0/0:42:42,0:42:1508:0:0:0,-12.6433,-136.006 0/0:83:83,0:83:2961:0:0:0,-24.9855,-266.712 0/1:121:54,67:54:1914:67:2400:-179.828,0,-135.918 0/1:42:29,13:29:1012:13:464:-29.4542,0,-78.7453 0/0:54:54,0:54:1932:0:0:0,-16.2556,-174.157 0/0:43:42,1:42:1504:1:36:0,-9.34601,-132.056 chr11 28125053 . A T 24604.7 PASS AB=0.532363;ABP=21.1415;AC=12;AF=0.285714;AN=42;AO=1081;CIGAR=1X;DP=3418;DPB=3418;DPRA=1.35651;EPP=2350.37;EPPR=5077.74;GTI=0;LEN=1;MEANALT=1;MQM=59.9778;MQMR=60;NS=21;NUMALT=1;ODDS=32.5999;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38626;QR=83639;RO=2337;RPL=613;RPP=45.2445;RPPR=53.4541;RPR=468;RUN=1;SAF=468;SAP=45.2445;SAR=613;SRF=1285;SRP=53.4541;SRR=1052;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:184:182,2:182:6528:2:72:0,-48.5528,-580.765 0/0:108:107,1:107:3840:1:36:0,-28.913,-342.197 0/0:171:164,7:164:5888:7:252:0,-28.4472,-506.999 0/1:165:64,101:64:2280:101:3610:-275.436,0,-155.792 0/0:247:239,8:239:8560:8:288:0,-48.087,-744.13 0/1:189:77,112:77:2760:112:3997:-303.024,0,-191.747 0/1:234:107,127:107:3821:127:4544:-338.686,0,-273.645 0/1:296:139,157:139:4942:157:5587:-413.846,0,-355.825 0/1:308:133,175:133:4772:175:6258:-470.325,0,-336.919 0/1:24:12,12:12:432:12:432:-31.9965,0,-31.9965 0/1:12:8,4:8:284:4:144:-9.70126,0,-22.291 0/1:54:24,30:24:864:30:1076:-80.8972,0,-61.8269 0/1:194:89,105:89:3176:105:3749:-279.209,0,-227.665 0/1:229:109,120:109:3893:120:4300:-318.241,0,-281.627 0/0:261:260,1:260:9301:1:36:0,-74.9706,-833.457 0/0:128:128,0:128:4588:0:0:0,-38.5318,-413.084 0/0:105:105,0:105:3768:0:0:0,-31.6081,-339.318 0/1:174:89,85:89:3169:85:3025:-220.101,0,-233.055 0/1:114:81,33:81:2908:33:1184:-72.5509,0,-227.638 0/0:141:141,0:141:5048:0:0:0,-42.4452,-454.465 0/0:80:79,1:79:2817:1:36:0,-20.4841,-250.17 chr11 28229138 . TGGCCA AGACCG,AGGCCG 56418.1 PASS AB=0.510721,0.48473;ABP=4.54684,6.12712;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1984,756;CIGAR=1X1M1X2M1X,1X4M1X;DP=2753;DPB=2753.17;DPRA=0,0.765888;EPP=4311.21,1644.64;EPPR=0;GTI=0;LEN=6,6;MEANALT=2.33333,2.47059;MQM=59.9607,59.9802;MQMR=0;NS=21;NUMALT=2;ODDS=23.1788;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=68894,26893;QR=0;RO=0;RPL=0,0;RPP=4311.21,1644.64;RPPR=0;RPR=1984,756;RUN=1,1;SAF=1984,756;SAP=4311.21,1644.64;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:233:0,229,0:0:0:229,0:7938,0:-714.12,-68.9359,0,-714.12,-68.9359,-714.12 1/1:125:0,125,0:0:0:125,0:4324,0:-389.293,-37.6288,0,-389.293,-37.6288,-389.293 1/1:124:0,119,4:0:0:119,4:4140,144:-372.436,-35.8226,0,-360.686,-24.025,-359.482 1/2:137:0,76,61:0:0:76,61:2636,2180:-392.365,-178.103,-155.225,-214.614,0,-196.251 1/1:219:0,218,0:0:0:218,0:7579,0:-681.869,-65.6245,0,-681.869,-65.6245,-681.869 1/2:135:0,75,60:0:0:75,60:2609,2144:-387.253,-175.166,-152.589,-212.44,0,-194.378 1/2:188:0,97,91:0:0:97,91:3378,3247:-539.739,-265.058,-235.858,-275.034,0,-247.64 1/2:113:0,56,57:0:0:56,57:1927,2036:-322.851,-166.354,-149.496,-156.848,0,-139.689 1/2:332:0,156,172:0:0:156,172:5452,6084:-939.061,-495.546,-448.585,-443.524,0,-391.746 1/2:35:0,15,20:0:0:15,20:526,720:-101.908,-59.1082,-54.5927,-43.1547,0,-37.1341 1/2:10:0,4,6:0:0:4,6:134,216:-28.8156,-17.9735,-16.7694,-11.1869,0,-9.3807 1/2:47:0,21,25:0:0:21,25:732,892:-132.242,-72.7142,-66.3926,-59.5206,0,-51.9948 1/2:178:0,96,80:0:0:96,80:3306,2824:-498.473,-229.952,-201.053,-268.51,0,-244.428 1/2:179:0,103,76:0:0:103,76:3537,2712:-508.64,-221.446,-190.44,-287.545,0,-264.667 1/1:141:0,140,1:0:0:140,1:4888,36:-439.693,-42.1442,0,-436.756,-38.847,-436.455 1/1:114:0,113,1:0:0:113,1:3964,36:-356.6,-34.0164,0,-353.663,-30.7191,-353.362 1/1:70:0,70,0:0:0:70,0:2439,0:-219.768,-21.0721,0,-219.768,-21.0721,-219.768 1/2:92:0,44,48:0:0:44,48:1528,1701:-263.139,-138.925,-125.679,-124.565,0,-110.115 1/2:93:0,43,50:0:0:43,50:1472,1781:-264.998,-145.519,-132.575,-119.827,0,-104.776 1/1:131:0,129,2:0:0:129,2:4453,68:-400.617,-38.8329,0,-395.101,-32.9772,-394.499 1/1:57:0,55,2:0:0:55,2:1932,72:-173.799,-16.5567,0,-167.924,-10.322,-167.322 chr11 28235346 . A G 9531.36 PASS AB=0.492228;ABP=3.21282;AC=30;AF=0.714286;AN=42;AO=471;CIGAR=1X;DP=671;DPB=671;DPRA=0;EPP=1025.77;EPPR=437.305;GTI=0;LEN=1;MEANALT=1;MQM=59.9915;MQMR=60;NS=21;NUMALT=1;ODDS=7.62134;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16863;QR=7164;RO=200;RPL=471;RPP=1025.77;RPPR=437.305;RPR=0;RUN=1;SAF=0;SAP=1025.77;SAR=471;SRF=0;SRP=437.305;SRR=200;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:26:0,26:0:0:26:928:-83.8383,-7.82678,0 0/1:34:12,22:12:432:22:792:-61.3702,0,-28.9862 1/1:50:1,49:1:36:49:1740:-153.286,-11.4532,0 0/1:44:21,23:21:752:23:824:-61.238,0,-54.7609 0/1:34:14,20:14:504:20:712:-54.1716,0,-35.4631 0/1:22:13,9:13:464:9:320:-22.5197,0,-35.4748 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:11:5,6:5:176:6:216:-16.4792,0,-12.8737 0/1:44:33,11:33:1172:11:396:-22.7374,0,-92.5422 0/1:25:17,8:17:612:8:284:-18.3776,0,-47.8877 1/1:41:0,41:0:0:41:1464:-132.056,-12.3422,0 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:14:0,14:0:0:14:500:-45.3362,-4.21442,0 0/1:105:51,54:51:1832:54:1936:-142.908,0,-133.553 0/1:45:17,28:17:608:28:1008:-77.49,0,-41.5057 1/1:37:3,34:3:108:34:1224:-100.392,-1.06294,0 1/1:56:0,56:0:0:56:2003:-180.543,-16.8577,0 chr11 28275039 . CT CC,TC 33567.3 PASS AB=0.47412,0.520704;ABP=8.63005,6.60694;AC=29,13;AF=0.690476,0.309524;AN=42;AO=1097,514;CIGAR=1M1X,2X;DP=1618;DPB=1618;DPRA=10.0625,1.06937;EPP=2385.12,1119.15;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.85,2.15385;MQM=59.9216,59.2977;MQMR=60;NS=21;NUMALT=2;ODDS=2.0921;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38742,18282;QR=36;RO=1;RPL=0,0;RPP=2385.12,1119.15;RPPR=5.18177;RPR=1097,514;RUN=1,1;SAF=1097,514;SAP=2385.12,1119.15;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66,0:0:0:66,0:2344,0:-211.219,-19.868,0,-211.219,-19.868,-211.219 1/1:70:0,70,0:0:0:70,0:2465,0:-222.103,-21.0721,0,-222.103,-21.0721,-222.103 1/1:95:0,95,0:0:0:95,0:3334,0:-300.282,-28.5979,0,-300.282,-28.5979,-300.282 1/2:131:0,59,70:0:0:59,70:2078,2475:-370.73,-201.553,-183.792,-169.208,0,-148.136 1/1:118:0,117,0:0:0:117,0:4176,0:-375.664,-35.2205,0,-375.664,-35.2205,-375.664 1/2:123:0,65,58:0:0:65,58:2320,2066:-357.828,-168.69,-149.124,-189.494,0,-172.034 1/2:97:0,46,51:0:0:46,51:1639,1817:-281.996,-148.401,-134.554,-133.951,0,-118.599 1/2:116:0,53,63:0:0:53,63:1882,2252:-337.268,-183.921,-167.966,-153.703,0,-134.738 1/2:133:0,58,75:0:0:58,75:2039,2684:-384.813,-218.844,-201.384,-166.323,0,-143.746 2/2:8:0,0,8:0:0:0,8:0,288:-26.2674,-26.2674,-26.2674,-2.40824,-2.40824,0 1/2:4:0,2,2:0:0:2,2:72,72:-12.0804,-6.20477,-5.60271,-6.23466,0,-5.6326 1/2:15:0,9,6:0:0:9,6:324,214:-44.2403,-17.8016,-15.0923,-26.7966,0,-24.9904 1/2:122:0,50,71:0:0:50,71:1738,2533:-347.125,-206.454,-191.403,-140.662,0,-119.289 1/2:130:0,67,63:0:0:67,63:2367,2223:-373.701,-181.252,-161.083,-192.802,0,-173.837 1/1:112:0,112,0:0:0:112,0:3938,0:-354.58,-33.7154,0,-354.58,-33.7154,-354.58 1/1:36:0,36,0:0:0:36,0:1275,0:-115.052,-10.8371,0,-115.052,-10.8371,-115.052 1/1:56:0,55,0:0:0:55,0:1956,0:-175.959,-16.5567,0,-175.959,-16.5567,-175.959 1/2:59:1,29,28:1:36:29,28:1023,991:-160.8,-77.8003,-72.0081,-80.4061,0,-74.915 1/2:36:0,20,16:0:0:20,16:690,559:-101.747,-45.6951,-39.6745,-56.3987,0,-51.5822 1/1:53:0,50,3:0:0:50,3:1750,108:-157.423,-15.0515,0,-148.61,-5.87942,-147.707 1/1:38:0,38,0:0:0:38,0:1332,0:-120.178,-11.4391,0,-120.178,-11.4391,-120.178 chr11 28296421 . A T 6130.58 PASS AB=0.507143;ABP=3.13438;AC=31;AF=0.738095;AN=42;AO=306;CIGAR=1X;DP=445;DPB=445;DPRA=0;EPP=667.481;EPPR=304.845;GTI=0;LEN=1;MEANALT=1;MQM=59.9575;MQMR=60;NS=21;NUMALT=1;ODDS=3.33741;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10988;QR=4939;RO=139;RPL=0;RPP=667.481;RPPR=304.845;RPR=306;RUN=1;SAF=306;SAP=667.481;SAR=0;SRF=139;SRP=304.845;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 0/1:21:14,7:14:500:7:248:-16.3426,0,-39.0145 1/1:18:1,17:1:36:17:608:-51.4537,-1.82027,0 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:36:16,20:16:561:20:720:-54.2917,0,-39.98 0/1:19:13,6:13:453:6:216:-14.0709,0,-35.3801 0/1:41:20,21:20:701:21:756:-56.025,0,-51.0695 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/1:42:22,20:22:784:20:720:-52.4851,0,-58.2407 0/1:10:5,5:5:180:5:180:-13.5408,0,-13.5418 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:45:19,26:19:684:26:932:-70.647,0,-48.344 0/1:39:15,24:15:536:24:860:-65.9817,0,-36.8346 1/1:39:0,39:0:0:39:1400:-126.299,-11.7402,0 1/1:16:0,16:0:0:16:572:-51.8134,-4.81648,0 chr11 28296450 . T C 5943.57 PASS AB=0.509025;ABP=3.20628;AC=31;AF=0.738095;AN=42;AO=307;CIGAR=1X;DP=444;DPB=444;DPRA=0;EPP=669.652;EPPR=300.502;GTI=0;LEN=1;MEANALT=1;MQM=59.9577;MQMR=60;NS=21;NUMALT=1;ODDS=3.12738;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10780;QR=4912;RO=137;RPL=307;RPP=669.652;RPPR=300.502;RPR=0;RUN=1;SAF=307;SAP=669.652;SAR=0;SRF=137;SRP=300.502;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:13:0,13:0:0:13:450:-40.8285,-3.91339,0 1/1:16:0,16:0:0:16:551:-49.9145,-4.81648,0 1/1:20:0,20:0:0:20:705:-63.7728,-6.0206,0 0/1:20:13,7:13:468:7:243:-16.1869,0,-36.439 1/1:17:1,16:1:36:16:547:-45.9547,-1.51924,0 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:38:18,20:18:644:20:712:-52.9675,0,-46.8515 0/1:18:12,6:12:428:6:201:-12.9985,0,-33.4403 0/1:39:19,20:19:676:20:705:-52.0326,0,-49.4278 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:1,4:1:36:4:129:-10.4225,0,-2.09312 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/1:41:21,20:21:752:20:697:-50.708,0,-55.664 0/1:10:5,5:5:180:5:180:-13.5408,0,-13.5418 1/1:30:0,30:0:0:30:1055:-95.26,-9.0309,0 1/1:5:0,5:0:0:5:176:-16.185,-1.50515,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:46:19,27:19:684:27:964:-73.2157,0,-48.0429 0/1:38:15,23:15:540:23:809:-61.6892,0,-37.4974 1/1:38:0,38:0:0:38:1347:-121.529,-11.4391,0 1/1:17:0,17:0:0:17:589:-53.3333,-5.11751,0 chr11 28489728 . C T 35668.6 PASS AB=0.591837;ABP=53.2644;AC=34;AF=0.809524;AN=42;AO=1537;CIGAR=1X;DP=1821;DPB=1821;DPRA=0;EPP=3.52032;EPPR=619.708;GTI=0;LEN=1;MEANALT=1;MQM=43.1093;MQMR=60;NS=21;NUMALT=1;ODDS=18.3241;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55032;QR=10068;RO=284;RPL=7;RPP=3280.04;RPPR=619.708;RPR=1530;RUN=1;SAF=766;SAP=3.04562;SAR=771;SRF=0;SRP=619.708;SRR=284;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74:0:0:74:2644:-217.962,-22.2762,0 1/1:50:0,50:0:0:50:1800:-140.86,-15.0515,0 1/1:53:0,53:0:0:53:1882:-157.059,-15.9546,0 0/1:83:31,52:31:1103:52:1864:-112.616,0,-74.5943 1/1:174:3,171:3:104:171:6116:-451.407,-42.6764,0 0/1:90:44,46:44:1549:46:1648:-87.4338,0,-112.607 0/1:124:60,64:60:2139:64:2304:-141.829,0,-155.45 0/1:99:41,58:41:1421:58:2071:-134.828,0,-98.3789 1/1:113:0,113:0:0:113:4034:-305.364,-34.0164,0 1/1:11:0,11:0:0:11:388:-30.9723,-3.31133,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:32:11,21:11:384:21:748:-52.8942,0,-25.2617 0/1:107:52,55:52:1868:55:1976:-116.705,0,-136.189 1/1:92:0,92:0:0:92:3300:-279.776,-27.6948,0 1/1:178:0,178:0:0:178:6369:-511.941,-53.5833,0 1/1:57:0,57:0:0:57:2052:-156.206,-17.1587,0 1/1:46:0,46:0:0:46:1643:-120.617,-13.8474,0 0/1:90:28,62:28:1000:62:2232:-147.104,0,-63.2227 0/1:61:13,48:13:464:48:1717:-121.724,0,-23.7347 1/1:177:1,176:1:36:176:6292:-452.911,-49.684,0 1/1:106:0,106:0:0:106:3808:-276.105,-31.9092,0 chr11 28490699 . T G 4734.61 PASS AB=0.509025;ABP=3.40226;AC=9;AF=0.214286;AN=42;AO=284;CIGAR=1X;DP=1234;DPB=1234;DPRA=1.28625;EPP=611.053;EPPR=1988.48;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.58571;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10116;QR=33824;RO=950;RPL=283;RPP=611.053;RPPR=2005.56;RPR=1;RUN=1;SAF=0;SAP=619.708;SAR=284;SRF=2;SRP=2048.57;SRR=948;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/0:27:27,0:27:956:0:0:0,-8.12781,-86.3557 0/0:31:31,0:31:1104:0:0:0,-9.33193,-99.6706 0/1:80:42,38:42:1489:38:1360:-98.6182,0,-110.22 0/0:56:55,1:55:1949:1:36:0,-13.2594,-172.086 0/1:51:24,27:24:864:27:972:-72.4454,0,-62.73 0/1:96:50,46:50:1784:46:1640:-118.99,0,-131.944 0/1:84:39,45:39:1392:45:1584:-117.561,0,-100.292 0/0:94:94,0:94:3322:0:0:0,-28.2968,-299.198 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:35:15,20:15:540:20:708:-53.5095,0,-38.4005 0/1:70:33,37:33:1172:37:1320:-98.0298,0,-84.7154 0/0:70:70,0:70:2485:0:0:0,-21.0721,-223.902 0/0:113:112,1:112:3980:1:36:0,-30.4181,-354.795 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/0:38:38,0:38:1349:0:0:0,-11.4391,-121.708 0/1:67:28,39:28:1008:39:1392:-105.41,0,-70.8673 0/1:66:38,28:38:1360:28:996:-70.0869,0,-102.833 0/0:84:84,0:84:2974:0:0:0,-25.2865,-267.891 0/0:66:66,0:66:2368:0:0:0,-19.868,-213.378 chr11 28495435 . GAC AAT,GAT 30106.8 PASS AB=0.473846,0.523077;ABP=6.87218,6.01695;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1071,344;CIGAR=1X1M1X,2M1X;DP=1418;DPB=1418;DPRA=0,0.97989;EPP=2328.66,749.997;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.7619,2.23077;MQM=51.4155,59.8866;MQMR=0;NS=21;NUMALT=2;ODDS=1.85852;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38005,12277;QR=0;RO=0;RPL=1071,344;RPP=2328.66,749.997;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2328.66,749.997;SAR=1071,344;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:27:0,27,0:0:0:27,0:939,0:-84.638,-8.12781,0,-84.638,-8.12781,-84.638 1/1:103:0,101,1:0:0:101,1:3617,36:-323.55,-30.404,0,-320.613,-27.4656,-320.312 1/1:91:0,91,0:0:0:91,0:3243,0:-291.043,-27.3937,0,-291.043,-27.3937,-291.043 1/2:101:0,38,62:0:0:38,62:1349,2209:-289.128,-180.036,-168.597,-109.086,0,-90.4225 1/1:57:0,56,1:0:0:56,1:1985,36:-178.208,-16.8577,0,-175.27,-13.5604,-174.969 1/2:49:0,28,21:0:0:28,21:1001,756:-143.174,-62.0456,-53.6168,-81.4859,0,-75.1643 1/2:137:0,65,71:0:0:65,71:2291,2540:-392.019,-207.171,-187.604,-184.929,0,-163.556 1/2:93:0,47,46:0:0:47,46:1674,1627:-268.776,-132.871,-118.722,-136.259,0,-122.412 1/1:101:0,101,0:0:0:101,0:3586,0:-322.12,-30.404,0,-322.12,-30.404,-322.12 1/1:12:0,11,1:0:0:11,1:384,36:-34.4241,-3.31133,0,-31.4857,-0.0140851,-31.1846 1/2:4:0,2,2:0:0:2,2:72,72:-12.0734,-6.23466,-5.6326,-6.1976,0,-5.59554 1/2:24:0,14,10:0:0:14,10:477,360:-68.2944,-29.734,-25.5196,-38.9118,0,-35.9015 1/2:84:0,25,59:0:0:25,59:885,2097:-242.51,-171.192,-163.667,-71.6699,0,-53.9091 1/1:77:0,77,0:0:0:77,0:2738,0:-244.893,-23.1793,0,-244.893,-23.1793,-244.893 1/1:93:0,93,0:0:0:93,0:3321,0:-297.249,-27.9958,0,-297.249,-27.9958,-297.249 1/1:53:0,53,0:0:0:53,0:1885,0:-168.798,-15.9546,0,-168.798,-15.9546,-168.798 1/1:41:0,41,0:0:0:41,0:1449,0:-130.336,-12.3422,0,-130.336,-12.3422,-130.336 1/2:108:0,50,58:0:0:50,58:1774,2080:-312.837,-170.011,-154.959,-143.181,0,-125.721 1/2:50:0,39,11:0:0:39,11:1367,392:-143.119,-32.3087,-20.5686,-111.165,0,-107.854 1/1:64:0,64,0:0:0:64,0:2264,0:-203.23,-19.2659,0,-203.23,-19.2659,-203.23 1/1:49:0,48,1:0:0:48,1:1704,36:-152.173,-14.4494,0,-149.236,-11.1522,-148.935 chr11 28567430 . A G 29469.7 PASS AB=0.461864;ABP=11.9538;AC=34;AF=0.809524;AN=42;AO=1381;CIGAR=1X;DP=1769;DPB=1769;DPRA=0;EPP=3001.81;EPPR=843.37;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9942;MQMR=60;NS=21;NUMALT=1;ODDS=3.96816;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49299;QR=13884;RO=387;RPL=0;RPP=3001.81;RPPR=843.37;RPR=1381;RUN=1;SAF=1381;SAP=3001.81;SAR=0;SRF=387;SRP=843.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:116:0,116:0:0:116:4166:-375.121,-34.9195,0 1/1:59:0,59:0:0:59:2108:-189.989,-17.7608,0 1/1:110:1,109:1:36:109:3916:-349.033,-29.515,0 0/1:101:56,44:56:2004:44:1557:-109.957,0,-150.171 1/1:146:3,143:3:108:143:5121:-450.955,-33.8752,0 0/1:113:58,55:58:2088:55:1980:-144.458,0,-154.173 0/1:152:72,80:72:2564:80:2847:-210.703,0,-185.254 0/1:82:54,28:54:1944:28:991:-64.8182,0,-150.552 1/1:140:1,139:1:36:139:4926:-439.891,-38.5459,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:16:10,6:10:360:6:216:-14.974,0,-27.9278 0/1:121:73,48:73:2624:48:1712:-117.941,0,-199.982 1/1:118:0,118:0:0:118:4170:-375.484,-35.5215,0 1/1:99:0,99:0:0:99:3540:-318.809,-29.802,0 1/1:44:0,44:0:0:44:1584:-142.852,-13.2453,0 1/1:59:0,59:0:0:59:2106:-189.808,-17.7608,0 0/1:54:31,23:31:1112:23:828:-58.5885,0,-84.1357 0/1:69:26,43:26:936:43:1539:-118.031,0,-63.7884 1/1:106:1,105:1:36:105:3732:-332.485,-28.3109,0 1/1:47:1,46:1:36:46:1652:-145.37,-10.5501,0 chr11 28567460 . G A 6590.07 PASS AB=0.534362;ABP=10.3226;AC=8;AF=0.190476;AN=42;AO=389;CIGAR=1X;DP=1794;DPB=1794;DPRA=1.71481;EPP=839.05;EPPR=3036.58;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9972;NS=21;NUMALT=1;ODDS=4.56685;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13858;QR=50215;RO=1405;RPL=387;RPP=830.431;RPPR=2925.03;RPR=2;RUN=1;SAF=388;SAP=839.05;SAR=1;SRF=1392;SRP=2942.06;SRR=13;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:118:118,0:118:4212:0:0:0,-35.5215,-379.262 0/0:64:64,0:64:2291:0:0:0,-19.2659,-206.451 0/0:110:109,1:109:3896:1:36:0,-29.515,-347.234 0/1:100:44,56:44:1575:56:1981:-148.46,0,-111.938 0/0:152:149,3:149:5321:3:108:0,-35.6814,-468.948 0/1:114:56,58:56:1999:58:2063:-151.624,0,-145.866 0/1:148:79,69:79:2821:69:2452:-176.383,0,-209.575 0/1:85:30,55:30:1076:55:1972:-152.167,0,-71.5653 0/0:141:140,1:140:5005:1:32:0,-39.2459,-447.397 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:17:6,11:6:216:11:388:-30.1399,0,-14.673 0/1:122:49,73:49:1756:73:2607:-198.153,0,-121.598 0/0:120:119,1:119:4201:1:32:0,-32.9243,-375.071 0/0:101:101,0:101:3617:0:0:0,-30.404,-325.731 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/0:62:62,0:62:2213:0:0:0,-18.6639,-199.433 0/1:55:23,32:23:828:32:1152:-87.4335,0,-58.2875 0/1:72:45,27:45:1620:27:963:-65.3118,0,-124.416 0/0:107:106,1:106:3796:1:36:0,-28.6119,-338.24 0/0:46:45,1:45:1620:1:36:0,-10.2491,-142.492 chr11 28570506 . A G 5022.45 PASS AB=0.453623;ABP=15.9007;AC=10;AF=0.238095;AN=42;AO=317;CIGAR=1X;DP=1829;DPB=1829;DPRA=1.09776;EPP=691.367;EPPR=3284.11;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.7823;MQMR=59.9848;NS=21;NUMALT=1;ODDS=15.1769;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11376;QR=53742;RO=1511;RPL=317;RPP=691.367;RPPR=3284.11;RPR=0;RUN=1;SAF=0;SAP=691.367;SAR=317;SRF=0;SRP=3284.11;SRR=1511;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:150:149,1:149:5266:1:36:0,-41.5562,-470.475 0/0:60:60,0:60:2148:0:0:0,-18.0618,-193.578 0/0:65:65,0:65:2321:0:0:0,-19.5669,-209.148 0/1:57:37,20:37:1324:20:720:-47.9701,0,-102.303 0/0:201:199,2:199:7012:2:72:0,-53.6703,-624.306 0/1:86:49,37:49:1756:37:1332:-94.2856,0,-132.435 0/1:134:60,73:60:2130:73:2620:-195.774,0,-151.715 0/1:97:43,54:43:1518:54:1936:-145.316,0,-107.709 0/0:228:228,0:228:8139:0:0:0,-68.6348,-732.523 0/1:16:14,2:14:504:2:72:-2.02024,0,-40.8816 0/1:12:4,8:4:144:8:288:-22.655,0,-9.70126 0/1:23:9,14:9:324:14:504:-38.7744,0,-22.5822 0/1:72:51,21:51:1806:21:748:-45.9639,0,-141.144 0/0:63:63,0:63:2260:0:0:0,-18.9649,-203.663 0/0:131:130,1:130:4642:1:36:0,-35.8367,-414.342 0/0:44:44,0:44:1546:0:0:0,-13.2453,-139.428 0/0:58:58,0:58:2084:0:0:0,-17.4597,-187.83 0/1:113:59,54:59:2097:54:1936:-140.467,0,-154.982 0/1:80:50,30:50:1796:30:1076:-73.0691,0,-137.84 0/0:86:86,0:86:3051:0:0:0,-25.8886,-274.816 0/0:53:53,0:53:1874:0:0:0,-15.9546,-168.935 chr11 28570632 . G A 3344.85 PASS AB=0.45339;ABP=11.917;AC=9;AF=0.214286;AN=42;AO=220;CIGAR=1X;DP=995;DPB=995;DPRA=1.39163;EPP=480.734;EPPR=1681.56;GTI=0;LEN=1;MEANALT=1.14286;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=8.03775;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7809;QR=27582;RO=773;RPL=220;RPP=480.734;RPPR=1681.56;RPR=0;RUN=1;SAF=220;SAP=480.734;SAR=0;SRF=773;SRP=1681.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 0/1:41:19,22:19:676:22:769:-57.1864,0,-48.8258 0/0:86:84,1:84:2999:1:36:0,-22.3491,-266.543 0/1:16:8,8:8:284:8:288:-21.4509,0,-21.0869 0/1:60:26,33:26:928:33:1156:-86.2242,0,-65.7178 0/1:58:36,22:36:1274:22:788:-53.7851,0,-97.5017 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/0:18:17,1:17:608:1:36:0,-1.82026,-51.4537 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:35:22,13:22:792:13:464:-31.5615,0,-61.0696 0/1:81:33,48:33:1180:48:1696:-128.542,0,-82.1246 0/0:59:59,0:59:2089:0:0:0,-17.7608,-188.278 0/0:80:79,1:79:2786:1:36:0,-20.4841,-247.381 0/0:16:16,0:16:576:0:0:0,-4.81648,-52.175 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 0/1:110:68,42:68:2418:42:1504:-102.541,0,-184.762 0/1:67:43,24:43:1540:24:856:-57.1921,0,-118.724 0/0:37:35,2:35:1252:2:72:0,-4.30139,-106.148 0/0:39:38,1:38:1364:1:36:0,-8.14189,-119.462 chr11 28582421 . G A 26067.9 PASS AB=0.543155;ABP=13.8806;AC=32;AF=0.761905;AN=42;AO=1184;CIGAR=1X;DP=1496;DPB=1496;DPRA=18.65;EPP=2411.65;EPPR=641.871;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9679;MQMR=60;NS=21;NUMALT=1;ODDS=7.27554;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42318;QR=11050;RO=310;RPL=19;RPP=2411.65;RPPR=641.871;RPR=1165;RUN=1;SAF=1184;SAP=2574.03;SAR=0;SRF=310;SRP=676.167;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,40:0:0:40:1432:-128.964,-12.0412,0 1/1:64:0,64:0:0:64:2285:-205.91,-19.2659,0 1/1:42:0,42:0:0:42:1474:-132.951,-12.6433,0 0/1:86:33,52:33:1188:52:1857:-141.461,0,-81.2812 1/1:163:0,163:0:0:163:5819:-523.814,-49.0679,0 0/1:70:30,40:30:1072:40:1410:-106.015,0,-75.7204 0/1:107:64,43:64:2253:43:1513:-104.25,0,-170.819 0/1:78:22,56:22:788:56:1996:-156.434,0,-47.7645 1/1:68:0,68:0:0:68:2440:-219.855,-20.47,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:10:5,5:5:180:5:180:-13.5418,0,-13.5418 0/1:100:54,46:54:1913:46:1648:-118.506,0,-142.342 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 1/1:153:0,153:0:0:153:5488:-494.043,-46.0576,0 1/1:55:0,55:0:0:55:1976:-178.115,-16.5567,0 1/1:38:0,38:0:0:38:1352:-121.98,-11.4391,0 0/1:118:60,58:60:2144:58:2088:-152.668,0,-157.706 0/1:103:38,65:38:1368:65:2332:-179.133,0,-92.4147 1/1:82:0,82:0:0:82:2944:-265.193,-24.6845,0 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 chr11 28585881 . C T 15706.6 PASS AB=0.500891;ABP=3.01417;AC=33;AF=0.785714;AN=42;AO=1076;CIGAR=1X;DP=1361;DPB=1361;DPRA=0;EPP=2339.51;EPPR=619.708;GTI=0;LEN=1;MEANALT=1.04762;MQM=29.1626;MQMR=50.257;NS=21;NUMALT=1;ODDS=5.25572;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38593;QR=10168;RO=284;RPL=0;RPP=2339.51;RPPR=619.708;RPR=1076;RUN=1;SAF=1076;SAP=2339.51;SAR=0;SRF=284;SRP=619.708;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77:0:0:77:2748:-200.052,-23.1793,0 1/1:52:0,52:0:0:52:1864:-119.569,-15.6536,0 1/1:45:1,44:1:36:44:1572:-111.187,-9.95493,0 0/1:56:24,32:24:856:32:1152:-65.2571,0,-60.1401 1/1:60:1,59:1:36:59:2120:-150.281,-14.4704,0 0/1:76:35,41:35:1252:41:1472:-71.4093,0,-89.3485 0/1:97:57,39:57:2044:39:1400:-60.6942,0,-153.436 0/1:73:35,38:35:1256:38:1349:-70.8013,0,-90.9447 1/1:108:1,107:1:36:107:3840:-283.24,-28.9167,0 1/1:27:0,27:0:0:27:972:-66.4425,-8.12781,0 0/1:6:2,4:2:72:4:144:-7.66103,0,-4.98334 0/1:24:15,9:15:536:9:324:-15.0504,0,-41.1961 0/1:84:39,45:39:1400:45:1620:-92.1149,0,-100.775 1/1:96:0,96:0:0:96:3448:-250.105,-28.8989,0 1/1:125:0,125:0:0:125:4484:-325.837,-37.6288,0 1/1:32:0,32:0:0:32:1148:-87.9987,-9.63296,0 1/1:55:0,55:0:0:55:1964:-149.079,-16.5567,0 0/1:67:44,23:44:1576:23:828:-36.744,0,-121.378 0/1:78:28,50:28:996:50:1800:-106.744,0,-66.2497 1/1:79:2,77:2:72:77:2764:-182.611,-16.9671,0 1/1:44:0,44:0:0:44:1580:-101.53,-13.2453,0 chr11 28585888 . TTCC ATTT,ATCT 22302.7 PASS AB=0.500873,0.497382;ABP=3.01409,3.04441;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1086,290;CIGAR=1X1M2X,1X2M1X;DP=1378;DPB=1378;DPRA=0,1.04087;EPP=2361.23,632.737;EPPR=0;GTI=0;LEN=4,4;MEANALT=1.71429,2.15385;MQM=29.128,50.2724;MQMR=0;NS=21;NUMALT=2;ODDS=4.95159;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38621,10268;QR=0;RO=0;RPL=0,0;RPP=2361.23,632.737;RPPR=0;RPR=1086,290;RUN=1,1;SAF=1086,290;SAP=2361.23,632.737;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:77:0,77,0:0:0:77,0:2753,0:-200.175,-23.1793,0,-200.175,-23.1793,-200.175 1/1:54:0,54,0:0:0:54,0:1922,0:-123.743,-16.2556,0,-123.743,-16.2556,-123.743 1/1:45:0,43,1:0:0:43,1:1531,36:-111.756,-12.9443,0,-108.823,-9.97861,-108.522 1/2:58:0,33,25:0:0:33,25:1169,866:-144.265,-70.5106,-60.5766,-74.0719,0,-66.5462 1/1:60:0,59,1:0:0:59,1:2094,36:-152.793,-17.7608,0,-149.86,-14.4704,-149.559 1/2:76:0,41,35:0:0:41,35:1467,1254:-183.429,-101.864,-89.5216,-81.8746,0,-71.3385 1/2:100:0,41,59:0:0:41,59:1463,2091:-250.629,-169.076,-156.733,-81.8472,0,-64.0864 1/2:73:0,38,35:0:0:38,35:1348,1255:-183.542,-102.299,-90.8595,-81.5592,0,-71.0232 1/1:108:0,107,1:0:0:107,1:3783,36:-285.061,-32.2102,0,-282.126,-28.9167,-281.825 1/1:27:0,27,0:0:0:27,0:940,0:-65.5378,-8.12781,0,-65.5378,-8.12781,-65.5378 1/2:7:0,5,2:0:0:5,2:175,72:-15.9069,-6.18746,-4.68231,-10.0465,0,-9.44441 1/2:24:0,9,15:0:0:9,15:318,539:-63.3404,-44.1725,-41.4633,-19.4712,0,-14.9557 1/2:88:0,47,41:0:0:47,41:1673,1436:-224.354,-116.965,-102.816,-107.71,0,-95.3673 1/1:96:0,96,0:0:0:96,0:3429,0:-249.553,-28.8989,0,-249.553,-28.8989,-249.553 1/1:126:0,126,0:0:0:126,0:4491,0:-327.611,-37.9298,0,-327.611,-37.9298,-327.611 1/1:33:0,33,0:0:0:33,0:1180,0:-89.6998,-9.93399,0,-89.6998,-9.93399,-89.6998 1/1:55:0,55,0:0:0:55,0:1950,0:-148.374,-16.5567,0,-148.374,-16.5567,-148.374 1/2:68:0,24,44:0:0:24,44:849,1576:-179.825,-128.288,-121.063,-51.8387,0,-38.5934 1/2:79:0,49,29:0:0:49,29:1730,999:-192.618,-81.0296,-66.2792,-111.619,0,-102.889 1/1:80:0,78,2:0:0:78,2:2786,72:-191.313,-23.4803,0,-185.457,-17.2681,-184.855 1/1:44:0,44,0:0:0:44,0:1570,0:-101.375,-13.2453,0,-101.375,-13.2453,-101.375 chr11 28585909 . GA AG,AA 70487.4 PASS AB=0.521057,0.478943;ABP=7.67421,7.67421;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2234,586;CIGAR=2X,1X1M;DP=2822;DPB=2822;DPRA=0,1.19548;EPP=4681.92,1266.82;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.71429,2;MQM=44.1656,55.1246;MQMR=0;NS=21;NUMALT=2;ODDS=35.1867;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=79054,20924;QR=0;RO=0;RPL=1084,288;RPP=7.24438,3.38086;RPPR=0;RPR=1150,298;RUN=1,1;SAF=1104,289;SAP=3.66738,3.24746;SAR=1130,297;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,124,0:0:0:124,0:4371,0:-345.274,-37.3277,0,-345.274,-37.3277,-345.274 1/1:139:0,139,0:0:0:139,0:4929,0:-393.063,-41.8432,0,-393.063,-41.8432,-393.063 1/1:65:0,64,1:0:0:64,1:2283,36:-178.404,-19.2659,0,-175.472,-15.9755,-175.171 1/2:143:0,80,63:0:0:80,63:2842,2243:-391.662,-182.843,-158.76,-209.16,0,-190.195 1/1:232:0,231,1:0:0:231,1:8157,36:-696.763,-69.5379,0,-693.831,-66.2475,-693.53 1/2:144:0,76,68:0:0:76,68:2697,2424:-378.499,-197.175,-174.297,-181.653,0,-161.183 1/2:199:0,98,101:0:0:98,101:3475,3601:-536.333,-292.198,-262.697,-244.467,0,-214.063 1/2:103:0,56,47:0:0:56,47:2003,1684:-271.335,-137.28,-120.422,-134.385,0,-120.237 1/1:165:0,164,1:0:0:164,1:5777,36:-462.123,-49.3689,0,-459.189,-46.0754,-458.888 1/1:36:0,36,0:0:0:36,0:1292,0:-95.3225,-10.8371,0,-95.3225,-10.8371,-95.3225 1/2:13:0,6,7:0:0:6,7:216,252:-33.2423,-20.8763,-19.0701,-12.6735,0,-10.5663 1/2:55:0,26,29:0:0:26,29:922,1037:-153.278,-84.754,-76.9272,-68.8647,0,-60.1349 1/2:207:0,104,103:0:0:104,103:3658,3683:-569.23,-300.418,-269.111,-269.15,0,-238.144 1/1:152:0,152,0:0:0:152,0:5381,0:-425.544,-45.7566,0,-425.544,-45.7566,-425.544 1/1:193:0,193,0:0:0:193,0:6817,0:-535.808,-58.0988,0,-535.808,-58.0988,-535.808 1/1:71:0,71,0:0:0:71,0:2492,0:-207.701,-21.3731,0,-207.701,-21.3731,-207.701 1/1:101:0,101,0:0:0:101,0:3561,0:-292.813,-30.404,0,-292.813,-30.404,-292.813 1/2:155:0,65,90:0:0:65,90:2306,3209:-430.783,-261.294,-241.727,-169.826,0,-142.733 1/2:192:0,120,72:0:0:120,72:4275,2575:-527.23,-210.037,-173.914,-317.538,0,-295.864 1/1:190:0,187,3:0:0:187,3:6609,108:-534.79,-56.2926,0,-525.998,-47.1425,-525.095 1/1:143:0,141,0:0:0:141,0:4991,0:-409.264,-42.4452,0,-409.264,-42.4452,-409.264 chr11 28590280 . CGCT TGCG,CGCG 52699.2 PASS AB=0.514199,0.481744;ABP=4.73691,5.86449;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1950,484;CIGAR=1X2M1X,3M1X;DP=2449;DPB=2449;DPRA=0,0.82956;EPP=4125.22,1028.11;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=2.19048,2.23077;MQM=59.9067,60;MQMR=60;NS=21;NUMALT=2;ODDS=16.3528;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68621,17209;QR=36;RO=1;RPL=13,3;RPP=4125.22,1028.11;RPPR=5.18177;RPR=1937,481;RUN=1,1;SAF=1950,484;SAP=4237.38,1054;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:153:0,153,0:0:0:153,0:5358,0:-482.359,-46.0576,0,-482.359,-46.0576,-482.359 1/1:113:0,112,0:0:0:112,0:3912,0:-351.905,-33.7154,0,-351.905,-33.7154,-351.905 1/1:80:0,79,1:0:0:79,1:2790,36:-250.974,-23.7814,0,-248.036,-20.4841,-247.735 1/2:112:0,46,64:0:0:46,64:1608,2268:-315.563,-184.755,-170.908,-130.8,0,-111.534 1/1:222:0,218,4:0:0:218,4:7659,144:-688.994,-65.6245,0,-677.245,-53.515,-676.04 1/2:82:0,50,32:0:0:50,32:1783,1134:-238.08,-92.7343,-77.6828,-145.701,0,-136.068 1/2:120:0,54,66:0:0:54,66:1861,2347:-342.771,-191.621,-175.365,-151.499,0,-131.631 1/2:135:0,79,55:0:0:79,55:2759,1976:-385.58,-161.198,-137.417,-224.377,0,-207.821 1/1:225:0,224,0:0:0:224,0:7924,0:-712.639,-67.4307,0,-712.639,-67.4307,-712.639 1/1:17:0,17,0:0:0:17,0:567,0:-51.3422,-5.11751,0,-51.3422,-5.11751,-51.3422 1/2:8:0,3,5:0:0:3,5:107,176:-23.4042,-14.6799,-13.7768,-9.07908,0,-7.57393 1/2:48:0,20,28:0:0:20,28:702,1004:-139.376,-82.247,-76.2264,-57.4828,0,-49.0539 1/2:232:0,114,118:0:0:114,118:3991,4211:-668.364,-343.65,-309.333,-325.067,0,-289.545 1/1:100:0,98,0:0:0:98,0:3469,0:-312.152,-29.5009,0,-312.152,-29.5009,-312.152 1/1:175:0,172,0:0:0:172,0:6093,0:-548.115,-51.7772,0,-548.115,-51.7772,-548.115 1/1:74:0,74,0:0:0:74,0:2606,0:-234.788,-22.2762,0,-234.788,-22.2762,-234.788 1/1:70:0,68,1:0:0:68,1:2385,36:-214.594,-20.47,0,-211.657,-17.485,-211.356 1/2:168:1,86,81:1:36:86,81:3030,2856:-475.987,-229.597,-206.646,-243.746,0,-222.3 1/2:81:0,55,26:0:0:55,26:1949,913:-233.434,-74.6572,-58.1006,-159.128,0,-151.302 1/1:186:0,183,0:0:0:183,0:6461,0:-581.262,-55.0885,0,-581.262,-55.0885,-581.262 1/1:48:0,45,3:0:0:45,3:1607,108:-144.537,-13.5464,0,-135.725,-4.37427,-134.822 chr11 28593683 . C T 26610.9 PASS AB=0.751918;ABP=218.541;AC=34;AF=0.809524;AN=42;AO=1183;CIGAR=1X;DP=1282;DPB=1282;DPRA=0;EPP=2434.77;EPPR=12.6832;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.9881;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42271;QR=3502;RO=99;RPL=1167;RPP=2434.77;RPPR=200.965;RPR=16;RUN=1;SAF=0;SAP=2571.86;SAR=1183;SRF=37;SRP=16.7191;SRR=62;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:72:0,72:0:0:72:2576:-232.09,-21.6742,0 1/1:65:0,65:0:0:65:2328:-209.78,-19.567,0 1/1:53:0,53:0:0:53:1881:-169.567,-15.9546,0 1/1:60:1,59:1:36:59:2112:-186.751,-14.4635,0 1/1:150:0,150:0:0:150:5333:-480.106,-45.1545,0 0/1:37:6,31:6:216:31:1112:-89.2532,0,-8.6524 0/1:60:11,49:11:384:49:1756:-140.262,0,-16.8329 0/1:64:11,53:11:396:53:1900:-152.012,0,-16.7168 1/1:128:0,128:0:0:128:4564:-410.928,-38.5318,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:23:3,20:3:91:20:716:-57.844,0,-1.56816 0/1:56:13,43:13:464:43:1540:-122.035,0,-25.2398 1/1:88:1,87:1:36:87:3112:-276.709,-22.8924,0 1/1:68:0,68:0:0:68:2417:-217.785,-20.47,0 1/1:58:0,58:0:0:58:2076:-187.111,-17.4597,0 1/1:45:0,45:0:0:45:1608:-145.01,-13.5464,0 0/1:66:34,32:34:1203:32:1152:-84.1222,0,-88.7071 0/1:80:18,62:18:640:62:2228:-176.701,0,-33.8469 1/1:46:0,46:0:0:46:1648:-148.609,-13.8474,0 1/1:52:0,52:0:0:52:1852:-166.96,-15.6536,0 chr11 28665096 . G A 7183.13 PASS AB=0.502358;ABP=3.05127;AC=9;AF=0.214286;AN=42;AO=430;CIGAR=1X;DP=2305;DPB=2305;DPRA=0.845894;EPP=936.743;EPPR=4070.18;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9957;NS=21;NUMALT=1;ODDS=7.00434;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15386;QR=67149;RO=1873;RPL=430;RPP=936.743;RPPR=4070.18;RPR=0;RUN=1;SAF=0;SAP=936.743;SAR=430;SRF=0;SRP=4070.18;SRR=1873;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:154:150,4:150:5384:4:144:0,-33.045,-471.376 0/0:88:88,0:88:3144:0:0:0,-26.4906,-283.183 0/0:222:222,0:222:7968:0:0:0,-66.8287,-717.14 0/1:88:50,38:50:1796:38:1368:-96.9302,0,-135.432 0/0:152:151,0:151:5416:0:0:0,-45.4555,-487.209 0/1:73:44,29:44:1572:29:1036:-71.5787,0,-119.796 0/1:130:60,70:60:2148:70:2485:-184.768,0,-154.454 0/1:154:70,84:70:2508:84:3012:-224.952,0,-179.614 0/0:192:192,0:192:6879:0:0:0,-57.7978,-619.177 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:43:27,16:27:960:16:576:-39.2307,0,-73.772 0/1:146:57,89:57:2048:89:3181:-242.562,0,-140.641 0/0:126:126,0:126:4520:0:0:0,-37.9298,-406.967 0/0:191:191,0:191:6860:0:0:0,-57.4967,-617.466 0/0:82:82,0:82:2948:0:0:0,-24.6845,-265.553 0/0:82:82,0:82:2940:0:0:0,-24.6845,-264.834 0/1:113:49,64:49:1756:64:2292:-172.525,0,-124.308 0/1:94:59,35:59:2111:35:1256:-85.0485,0,-161.961 0/0:83:82,0:82:2940:0:0:0,-24.6845,-264.474 0/0:63:63,0:63:2243:0:0:0,-18.9649,-202.133 chr11 28686487 . AGA TGG,TGA 25579.7 PASS AB=0.514412,0.481153;ABP=3.824,4.40178;AC=33,9;AF=0.785714,0.214286;AN=42;AO=972,221;CIGAR=1X1M1X,1X2M;DP=1199;DPB=1199;DPRA=0,1.3842;EPP=2113.68,482.906;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.90476,2.30769;MQM=59.8868,60;MQMR=0;NS=21;NUMALT=2;ODDS=2.79502;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34230,7937;QR=0;RO=0;RPL=972,221;RPP=2113.68,482.906;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2113.68,482.906;SAR=972,221;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:31:0,30,0:0:0:30,0:1065,0:-95.8888,-9.0309,0,-95.8888,-9.0309,-95.8888 1/1:20:0,20,0:0:0:20,0:708,0:-64.0452,-6.0206,0,-64.0452,-6.0206,-64.0452 1/1:81:0,80,1:0:0:80,1:2839,36:-255.39,-24.0824,0,-252.453,-20.7852,-252.152 1/2:51:0,22,28:0:0:22,28:763,1004:-143.9,-81.8872,-75.2646,-62.0057,0,-53.5769 1/1:98:0,97,1:0:0:97,1:3438,36:-309.276,-29.1999,0,-306.338,-25.9027,-306.037 1/2:42:0,20,22:0:0:20,22:701,792:-121.889,-64.983,-58.9624,-57.2606,0,-50.6379 1/2:43:0,19,24:0:0:19,24:670,860:-125.003,-70.4971,-64.7775,-54.8608,0,-47.6361 1/2:52:0,31,21:0:0:31,21:1087,748:-149.776,-61.3237,-51.9917,-88.8064,0,-82.4848 1/1:124:0,124,0:0:0:124,0:4382,0:-394.441,-37.3277,0,-394.441,-37.3277,-394.441 1/1:13:0,13,0:0:0:13,0:466,0:-42.2787,-3.91339,0,-42.2787,-3.91339,-42.2787 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:18:0,9,9:0:0:9,9:310,324:-51.9684,-26.7966,-24.0873,-25.5239,0,-22.8146 1/2:111:0,60,50:0:0:60,50:2091,1797:-316.637,-146.601,-128.539,-170.031,0,-154.979 1/1:90:0,88,1:0:0:88,1:3106,36:-279.408,-26.4906,0,-276.471,-23.5532,-276.17 1/1:107:0,107,0:0:0:107,0:3746,0:-337.344,-32.2102,0,-337.344,-32.2102,-337.344 1/1:33:0,33,0:0:0:33,0:1170,0:-105.608,-9.93399,0,-105.608,-9.93399,-105.608 1/1:13:0,13,0:0:0:13,0:452,0:-41.01,-3.91339,0,-41.01,-3.91339,-41.01 1/2:60:0,25,35:0:0:25,35:870,1260:-173.905,-103.169,-95.6437,-71.0886,0,-60.5526 1/2:70:0,44,26:0:0:44,26:1562,936:-204,-76.7327,-63.4874,-127.626,0,-119.799 1/1:110:0,108,1:0:0:108,1:3781,36:-340.131,-32.5112,0,-337.194,-29.5738,-336.893 1/1:28:0,27,0:0:0:27,0:951,0:-85.6883,-8.12781,0,-85.6883,-8.12781,-85.6883 chr11 28695231 . C G 6541.21 PASS AB=0.519391;ABP=5.36824;AC=9;AF=0.214286;AN=42;AO=383;CIGAR=1X;DP=1751;DPB=1751;DPRA=1.26186;EPP=800.304;EPPR=2838.21;GTI=0;LEN=1;MEANALT=1.15385;MQM=59.9478;MQMR=59.9971;NS=21;NUMALT=1;ODDS=9.80886;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13690;QR=48730;RO=1365;RPL=379;RPP=800.304;RPPR=2838.21;RPR=4;RUN=1;SAF=0;SAP=834.684;SAR=383;SRF=0;SRP=2967.07;SRR=1365;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:120:119,0:119:4252:0:0:0,-35.8226,-382.5 0/0:68:68,0:68:2436:0:0:0,-20.47,-219.495 0/0:74:74,0:74:2660:0:0:0,-22.2762,-239.645 0/1:53:27,26:27:964:26:928:-67.8837,0,-71.1222 0/0:174:171,2:171:6095:2:72:0,-45.5014,-541.864 0/1:63:34,28:34:1220:28:1004:-71.7969,0,-91.2287 0/1:78:40,38:40:1423:38:1343:-97.689,0,-104.886 0/1:136:43,93:43:1529:93:3311:-257.269,0,-96.961 0/0:136:136,0:136:4850:0:0:0,-40.9401,-436.655 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:11:8,3:8:279:3:108:-6.76384,0,-22.1362 0/1:37:15,22:15:540:22:788:-60.1067,0,-37.7984 0/1:123:50,73:50:1788:73:2620:-198.891,0,-124.176 0/0:85:84,1:84:2957:1:36:0,-21.9893,-262.767 0/0:120:119,1:119:4253:1:36:0,-32.5253,-379.349 0/0:62:62,0:62:2223:0:0:0,-18.6639,-200.333 0/0:56:56,0:56:2004:0:0:0,-16.8577,-180.634 0/1:155:89,66:89:3185:66:2368:-166.718,0,-240.212 0/1:66:40,26:40:1425:26:932:-64.3309,0,-108.678 0/0:76:72,4:72:2580:4:144:0,-9.56466,-219.133 0/0:45:45,0:45:1603:0:0:0,-13.5463,-144.559 chr11 28705924 . T A 27081.4 PASS AB=0.611732;ABP=119.469;AC=33;AF=0.785714;AN=42;AO=1330;CIGAR=1X;DP=1756;DPB=1756;DPRA=0;EPP=2891.07;EPPR=923.715;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9895;MQMR=59.8726;NS=21;NUMALT=1;ODDS=7.31952;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47389;QR=15212;RO=424;RPL=0;RPP=2891.07;RPPR=923.715;RPR=1330;RUN=1;SAF=0;SAP=2891.07;SAR=1330;SRF=0;SRP=923.715;SRR=424;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:3,50:3:108:50:1796:-151.847,-5.87942,0 1/1:58:0,58:0:0:58:2076:-187.111,-17.4597,0 0/1:141:50,91:50:1792:91:3240:-249.375,0,-119.095 0/1:116:32,84:32:1152:84:3001:-235.401,0,-69.0707 0/1:276:152,124:152:5460:124:4438:-316.506,0,-408.283 0/1:163:72,91:72:2588:91:3252:-243.834,0,-184.101 1/1:120:3,117:3:108:117:4164:-364.867,-26.0484,0 0/1:84:30,54:30:1072:54:1928:-148.51,0,-71.5059 1/1:112:0,111:0:0:111:3988:-358.749,-33.4143,0 1/1:11:0,11:0:0:11:374:-33.9864,-3.31133,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:67:0,67:0:0:67:2369:-213.465,-20.169,0 0/1:92:28,63:28:1004:63:2250:-175.008,0,-62.9224 1/1:58:0,58:0:0:58:2063:-185.941,-17.4597,0 1/1:39:0,39:0:0:39:1383:-124.768,-11.7402,0 1/1:40:0,40:0:0:40:1406:-126.834,-12.0412,0 0/1:114:30,84:30:1068:84:2955:-231.864,0,-62.1146 0/1:83:19,64:19:680:64:2291:-181.465,0,-36.5437 1/1:59:2,57:2:72:57:2026:-175.775,-10.924,0 1/1:51:0,51:0:0:51:1813:-163.45,-15.3525,0 chr11 28705947 . GG GA,AA 37712.8 PASS AB=0.617701,0.37865;ABP=134.892,143.197;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1358,423;CIGAR=1M1X,2X;DP=1790;DPB=1790;DPRA=0,2.18122;EPP=2943.19,904.253;EPPR=7.35324;GTI=0;LEN=1,2;MEANALT=1.90476,2.41667;MQM=59.9985,59.9622;MQMR=60;NS=21;NUMALT=2;ODDS=8.28648;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48618,15052;QR=72;RO=2;RPL=1357,421;RPP=2943.19,904.253;RPPR=7.35324;RPR=1,2;RUN=1,1;SAF=0,0;SAP=2951.87,921.543;SAR=1358,423;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:55:0,51,3:0:0:51,3:1832,108:-164.82,-15.3525,0,-156.007,-6.48039,-155.104 1/1:59:0,59,0:0:0:59,0:2105,0:-189.719,-17.7608,0,-189.719,-17.7608,-189.719 1/2:140:0,91,49:0:0:91,49:3272,1750:-409.981,-143.033,-115.64,-267.305,0,-252.555 1/2:118:0,85,33:0:0:85,33:3045,1181:-344.996,-96.6641,-71.0766,-248.69,0,-238.756 1/2:284:0,131,151:0:0:131,151:4688,5367:-819.706,-437.418,-397.983,-382.358,0,-336.902 1/2:169:0,95,74:0:0:95,74:3407,2640:-493.458,-215.57,-186.972,-278.245,0,-255.969 1/1:121:0,118,3:0:0:118,3:4197,108:-377.55,-35.5215,0,-368.737,-26.3495,-367.834 1/2:85:0,56,29:0:0:56,29:2012,1006:-246.262,-82.1173,-65.2596,-164.495,0,-155.766 1/1:111:0,111,0:0:0:111,0:3971,0:-357.58,-33.4143,0,-357.58,-33.4143,-357.58 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 1/2:5:0,2,3:0:0:2,3:72,108:-15.0469,-9.17208,-8.57002,-6.23466,0,-5.33157 1/1:14:0,13,0:0:0:13,0:468,0:-42.2389,-3.91339,0,-42.2389,-3.91339,-42.2389 1/1:68:0,68,0:0:0:68,0:2428,0:-218.775,-20.47,0,-218.775,-20.47,-218.775 1/2:94:0,66,28:0:0:66,28:2372,1006:-275.938,-82.4274,-62.5594,-193.87,0,-185.441 1/1:59:0,59,0:0:0:59,0:2109,0:-190.077,-17.7608,0,-190.077,-17.7608,-190.077 1/1:42:2,39,0:2:72:39,0:1404,0:-119.869,-5.76545,0,-120.471,-11.7402,-126.346 1/1:41:0,41,0:0:0:41,0:1472,0:-132.776,-12.3422,0,-132.776,-12.3422,-132.776 1/2:116:0,85,29:0:0:85,29:3035,1022:-330.768,-83.3237,-57.7361,-247.559,0,-238.829 1/2:85:0,66,19:0:0:66,19:2368,684:-249.321,-56.1708,-36.3028,-193.51,0,-187.79 1/1:60:0,58,2:0:0:58,2:2073,72:-186.479,-17.4597,0,-180.604,-11.2251,-180.002 1/1:53:0,53,0:0:0:53,0:1896,0:-170.918,-15.9546,0,-170.918,-15.9546,-170.918 chr11 28705965 . C T 6160.77 PASS AB=0.381951;ABP=135.795;AC=9;AF=0.214286;AN=42;AO=427;CIGAR=1X;DP=1785;DPB=1785;DPRA=2.19879;EPP=930.229;EPPR=2949.7;GTI=0;LEN=1;MEANALT=1;MQM=59.8735;MQMR=59.9897;NS=21;NUMALT=1;ODDS=7.83427;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15170;QR=48438;RO=1357;RPL=427;RPP=930.229;RPPR=2949.7;RPR=0;RUN=1;SAF=0;SAP=930.229;SAR=427;SRF=0;SRP=2949.7;SRR=1357;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:54:51,3:51:1820:3:108:0,-6.18045,-154.006 0/0:58:58,0:58:2069:0:0:0,-17.4597,-186.479 0/1:145:95,50:95:3397:50:1749:-114.033,0,-262.294 0/1:117:84,33:84:2993:33:1180:-71.2875,0,-234.38 0/1:279:128,151:128:4585:151:5363:-398.749,0,-328.825 0/1:171:96,75:96:3429:75:2680:-189.969,0,-257.346 0/0:120:117,3:117:4166:3:104:0,-26.4208,-365.418 0/1:86:56,30:56:2000:30:1072:-70.9039,0,-154.385 0/0:109:108,0:108:3849:0:0:0,-32.5112,-346.246 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:5:2,3:2:57:3:108:-8.57002,0,-3.90816 0/0:14:14,0:14:489:0:0:0,-4.21442,-44.3389 0/0:69:69,0:69:2446:0:0:0,-20.7711,-220.383 0/1:95:67,28:67:2377:28:985:-60.3637,0,-185.589 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/0:41:41,0:41:1460:0:0:0,-12.3422,-131.696 0/1:116:86,30:86:3080:30:1065:-61.2403,0,-242.508 0/1:83:64,19:64:2304:19:684:-36.9048,0,-182.635 0/0:60:58,2:58:2069:2:72:0,-11.2251,-179.642 0/0:53:53,0:53:1904:0:0:0,-15.9546,-171.638 chr11 28705978 . GGGTG TGGTG,TGGTA 25617.4 PASS AB=0.516975,0.479938;ABP=4.6322,5.2756;AC=33,9;AF=0.785714,0.214286;AN=42;AO=891,314;CIGAR=1X4M,1X3M1X;DP=1211;DPB=1211;DPRA=0,1.65797;EPP=1937.79,684.853;EPPR=0;GTI=0;LEN=1,5;MEANALT=1.7619,2.3;MQM=59.9293,59.7834;MQMR=0;NS=21;NUMALT=2;ODDS=0.714729;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31922,11049;QR=0;RO=0;RPL=0,0;RPP=1937.79,684.853;RPPR=0;RPR=891,314;RUN=1,1;SAF=891,314;SAP=1937.79,684.853;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82,0:0:0:82,0:2940,0:-264.834,-24.6845,0,-264.834,-24.6845,-264.834 1/1:33:0,32,0:0:0:32,0:1152,0:-103.679,-9.63296,0,-103.679,-9.63296,-103.679 1/2:90:0,49,41:0:0:49,41:1752,1452:-261.484,-118.634,-103.883,-143.205,0,-130.863 1/2:54:0,23,31:0:0:23,31:815,1098:-155.918,-89.796,-82.8723,-66.4754,0,-57.1435 1/2:184:0,99,85:0:0:99,85:3548,3015:-535.095,-245.724,-215.922,-289.726,0,-264.139 1/2:43:0,22,21:0:0:22,21:792,740:-125.221,-60.6019,-53.9793,-64.9748,0,-58.6532 1/1:39:0,38,0:0:0:38,0:1364,0:-122.701,-11.4391,0,-122.701,-11.4391,-122.701 1/2:58:0,23,35:0:0:23,35:828,1237:-168.661,-101.098,-94.1741,-67.9204,0,-57.3844 1/1:71:0,71,0:0:0:71,0:2544,0:-229.211,-21.3731,0,-229.211,-21.3731,-229.211 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:11:0,5,6:0:0:5,6:180,204:-31.2264,-16.5636,-15.0584,-15.0104,0,-13.2042 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/1:50:0,50,0:0:0:50,0:1796,0:-161.922,-15.0515,0,-161.922,-15.0515,-161.922 1/2:97:0,62,33:0:0:62,33:2216,1158:-274.974,-94.2848,-75.621,-180.734,0,-170.8 1/1:103:0,103,0:0:0:103,0:3692,0:-332.482,-31.0061,0,-332.482,-31.0061,-332.482 1/1:31:0,31,0:0:0:31,0:1112,0:-100.391,-9.33193,0,-100.391,-9.33193,-100.391 1/1:34:0,34,0:0:0:34,0:1212,0:-109.386,-10.235,0,-109.386,-10.235,-109.386 1/2:76:0,27,49:0:0:27,49:959,1713:-217.848,-139.704,-131.576,-78.4976,0,-63.7471 1/2:35:0,25,10:0:0:25,10:896,324:-99.5649,-26.464,-18.9382,-73.4346,0,-70.4243 1/1:80:0,76,3:0:0:76,3:2724,108:-245.06,-22.8783,0,-236.248,-14.0136,-235.344 1/1:27:0,26,0:0:0:26,0:932,0:-83.9449,-7.82678,0,-83.9449,-7.82678,-83.9449 chr11 28705988 . CCC CCG 17860.6 PASS AB=0.5;ABP=3.0103;AC=33;AF=0.785714;AN=42;AO=866;CIGAR=2M1X;DP=1201;DPB=1201;DPRA=0;EPP=1883.51;EPPR=682.681;GTI=0;LEN=1;MEANALT=1.42857;MQM=59.9815;MQMR=59.7955;NS=21;NUMALT=1;ODDS=1.43709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30917;QR=10937;RO=313;RPL=0;RPP=1883.51;RPPR=682.681;RPR=866;RUN=1;SAF=866;SAP=1883.51;SAR=0;SRF=313;SRP=682.681;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,77:0:0:77:2752:-247.63,-23.1793,0 1/1:35:0,35:0:0:35:1248:-112.625,-10.5361,0 0/1:89:40,49:40:1397:49:1748:-130.809,0,-99.2351 0/1:53:29,23:29:1009:23:810:-57.351,0,-75.253 0/1:185:85,100:85:3015:100:3566:-265.458,0,-215.402 0/1:43:21,21:21:741:21:748:-54.6391,0,-54.0104 1/1:40:0,38:0:0:38:1355:-121.89,-11.4391,0 0/1:58:35,22:35:1230:22:784:-53.3655,0,-93.4853 1/1:68:0,66:0:0:66:2364:-212.712,-19.868,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/1:10:6,4:6:201:4:144:-10.3033,0,-14.9094 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 1/1:47:0,47:0:0:47:1676:-151.127,-14.1484,0 0/1:98:33,65:33:1144:65:2320:-179.56,0,-73.762 1/1:102:0,102:0:0:102:3637:-327.535,-30.7051,0 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 1/1:32:0,32:0:0:32:1131:-102.097,-9.63296,0 0/1:77:50,23:50:1756:23:824:-52.1528,0,-135.994 0/1:35:11,17:11:336:17:608:-46.264,0,-21.7709 1/1:79:3,75:3:108:75:2690:-232.269,-13.765,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 chr11 28706014 . C T 4432.66 PASS AB=0.377029;ABP=108.22;AC=8;AF=0.190476;AN=42;AO=312;CIGAR=1X;DP=1590;DPB=1590;DPRA=1.70738;EPP=680.51;EPPR=451.91;GTI=0;LEN=1;MEANALT=1;MQM=59.8782;MQMR=59.9765;NS=21;NUMALT=1;ODDS=12.853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11127;QR=45540;RO=1278;RPL=312;RPP=680.51;RPPR=451.91;RPR=0;RUN=1;SAF=312;SAP=680.51;SAR=0;SRF=1278;SRP=2778.15;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:80,0:80:2839:0:0:0,-24.0824,-255.747 0/0:35:35,0:35:1241:0:0:0,-10.536,-111.993 0/1:92:51,41:51:1816:41:1476:-105.441,0,-136.018 0/1:82:51,31:51:1815:31:1108:-75.3433,0,-138.946 0/1:184:101,83:101:3620:83:2963:-211.514,0,-270.616 0/1:68:46,22:46:1644:22:784:-50.4139,0,-127.775 0/0:70:70,0:70:2503:0:0:0,-21.0721,-225.522 0/1:81:46,35:46:1643:35:1254:-88.7819,0,-123.774 0/0:71:71,0:71:2531:0:0:0,-21.3731,-228.041 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:86:80,6:80:2808:6:205:0,-7.6034,-234.668 0/0:81:81,0:81:2900:0:0:0,-24.3834,-261.236 0/0:80:80,0:80:2837:0:0:0,-24.0824,-255.566 0/1:95:64,31:64:2254:31:1105:-71.1617,0,-174.522 0/0:103:103,0:103:3666:0:0:0,-31.0061,-330.142 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:34:34,0:34:1215:0:0:0,-10.235,-109.656 0/1:154:105,49:105:3763:49:1732:-109.803,0,-292.51 0/1:45:35,10:35:1252:10:356:-18.8349,0,-99.4387 0/0:80:76,4:76:2713:4:144:0,-10.7688,-231.099 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 chr11 28736725 . CA AG,TG 56005.5 PASS AB=0.56682,0.430876;ABP=36.6731,39.0347;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2276,383;CIGAR=2X,2X;DP=2663;DPB=2663;DPRA=0,1.42413;EPP=4893.3,834.684;EPPR=0;GTI=1;LEN=2,2;MEANALT=1.85714,2.21429;MQM=59.3695,59.3264;MQMR=0;NS=21;NUMALT=2;ODDS=20.9923;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=78722,13256;QR=0;RO=0;RPL=6,0;RPP=4893.3,834.684;RPPR=0;RPR=2270,383;RUN=1,1;SAF=0,0;SAP=4945.28,834.684;SAR=2276,383;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:149:0,149,0:0:0:149,0:5144,0:-462.468,-44.8535,0,-462.468,-44.8535,-462.468 1/1:73:0,72,0:0:0:72,0:2512,0:-226.073,-21.6742,0,-226.073,-21.6742,-226.073 1/1:184:0,183,1:0:0:183,1:6381,36:-573.903,-55.0885,0,-570.965,-51.7912,-570.664 1/2:120:0,59,61:0:0:59,61:2025,2147:-339.348,-174.942,-157.181,-164.753,0,-146.391 1/1:249:0,246,3:0:0:246,3:8523,106:-766.488,-74.0534,0,-757.855,-65.0674,-756.952 1/2:124:0,78,46:0:0:78,46:2681,1575:-345.859,-128.18,-104.7,-218.021,0,-204.174 1/2:191:0,117,74:0:0:117,74:4013,2551:-533.109,-207.537,-172.317,-325.915,0,-303.639 1/2:90:0,37,52:0:0:37,52:1274,1796:-249.26,-145.855,-134.716,-103.516,0,-87.8624 1/1:321:0,319,2:0:0:319,2:11098,59:-998.099,-96.0286,0,-993.393,-91.027,-992.791 1/1:24:0,24,0:0:0:24,0:791,0:-71.482,-7.22472,0,-71.482,-7.22472,-71.482 1/2:8:0,6,2:0:0:6,2:214,67:-23.2221,-5.76078,-3.9546,-17.8016,0,-17.1995 1/2:42:0,17,25:0:0:17,25:594,861:-118.573,-70.2567,-65.1392,-48.6638,0,-41.138 1/2:88:0,48,40:0:0:48,40:1684,1413:-252.236,-115.424,-100.975,-137.164,0,-125.123 1/1:216:0,214,1:0:0:214,1:7311,25:-656.06,-64.4204,0,-654.119,-62.5345,-653.818 1/1:205:0,205,0:0:0:205,0:7181,0:-646.271,-61.7112,0,-646.271,-61.7112,-646.271 1/1:105:0,105,0:0:0:105,0:3696,0:-332.619,-31.6082,0,-332.619,-31.6082,-332.619 1/1:78:0,78,0:0:0:78,0:2638,0:-237.564,-23.4803,0,-237.564,-23.4803,-237.564 1/2:111:0,61,49:0:0:61,49:2094,1654:-304.017,-134.008,-115.645,-169.989,0,-155.239 1/2:94:0,69,25:0:0:69,25:2373,896:-266.028,-73.4286,-52.6576,-192.954,0,-185.428 1/1:133:0,131,2:0:0:131,2:4517,70:-405.986,-39.4349,0,-400.291,-33.3897,-399.689 1/1:58:0,58,0:0:0:58,0:1978,0:-178.053,-17.4597,0,-178.053,-17.4597,-178.053 chr11 28752340 . CTGTT ATGTA,ATGTT 50688.5 PASS AB=0.511848,0.475118;ABP=4.03943,7.54878;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2037,408;CIGAR=1X3M1X,1X4M;DP=2462;DPB=2475.4;DPRA=0,1.02077;EPP=4426.3,888.971;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.2381,2.61538;MQM=54.109,59.2059;MQMR=60;NS=21;NUMALT=2;ODDS=25.7894;PAIRED=0,0;PAIREDR=0;PAO=51,9;PQA=1684,61;PQR=0;PRO=7;QA=69957,14456;QR=36;RO=1;RPL=2037,408;RPP=4426.3,888.971;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=2037,408;SAP=4426.3,888.971;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,150,0:0:0:150,0:5126,0:-459.938,-45.1545,0,-459.938,-45.1545,-459.938 1/1:80:0,79,1:0:0:79,1:2728,36:-243.376,-23.7814,0,-240.438,-20.4841,-240.137 1/1:82:0,81,0:0:0:81,0:2739,0:-246.006,-24.3834,0,-246.006,-24.3834,-246.006 1/2:110:0,50,55:0:0:50,55:1720,1956:-298.237,-159.274,-144.223,-138.977,0,-122.421 1/1:368:0,365,2:0:0:365,2:12590,72:-1129.16,-109.876,0,-1123.28,-103.984,-1122.68 1/2:99:0,54,45:0:0:54,45:1893,1604:-282.867,-131.018,-114.762,-152.201,0,-138.655 1/2:158:0,78,79:0:0:78,79:2685,2790:-442.803,-226.798,-203.317,-215.97,0,-192.189 1/2:52:0,24,26:0:0:24,26:823,909:-140.593,-74.0123,-66.7876,-66.6796,0,-58.8529 1/1:239:0,238,0:0:0:238,0:8197,0:-736.312,-71.6451,0,-736.312,-71.6451,-736.312 1/1:20:0,20,0:0:0:20,0:695,0:-62.6426,-6.0206,0,-62.6426,-6.0206,-62.6426 1/2:18:0,8,10:0:0:8,10:281,352:-51.6985,-29.0079,-26.5997,-23.0406,0,-20.0303 1/2:28:0,9,19:0:0:9,19:316,680:-81.137,-55.4558,-52.7465,-25.6806,0,-19.961 1/2:205:0,112,91:0:0:112,91:3794,3227:-569.395,-262.671,-228.956,-306.76,0,-279.366 1/1:120:0,119,0:0:0:119,0:3954,0:-354.331,-35.8226,0,-354.331,-35.8226,-354.331 1/1:149:0,148,0:0:0:148,0:5133,0:-461.294,-44.5524,0,-461.294,-44.5524,-461.294 1/1:81:0,81,0:0:0:81,0:2785,0:-249.805,-24.3834,0,-249.805,-24.3834,-249.805 1/1:85:0,84,0:0:0:84,0:2849,0:-255.876,-25.2865,0,-255.876,-25.2865,-255.876 1/2:75:0,37,38:0:0:37,38:1300,1352:-215.663,-110.195,-99.0564,-105.483,0,-94.0442 1/2:99:1,60,38:1:36:60,38:2084,1334:-274.39,-105.472,-90.3476,-166.3,0,-157.799 1/1:188:0,185,3:0:0:185,3:6369,108:-569.842,-55.6906,0,-561.029,-46.8573,-560.126 1/1:56:0,55,1:0:0:55,1:1896,36:-169.135,-16.5567,0,-166.206,-13.6173,-165.905 chr11 28752368 . T G 8247.71 PASS AB=0.509569;ABP=4.00772;AC=9;AF=0.214286;AN=42;AO=646;CIGAR=1X;DP=2943;DPB=2943;DPRA=1.28797;EPP=1405.78;EPPR=4982.2;GTI=0;LEN=1;MEANALT=1;MQM=33.9706;MQMR=40.1998;NS=21;NUMALT=1;ODDS=17.0461;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22697;QR=82122;RO=2297;RPL=0;RPP=1405.78;RPPR=4982.2;RPR=646;RUN=1;SAF=0;SAP=1405.78;SAR=646;SRF=0;SRP=4990.88;SRR=2297;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:95:94,1:94:3372:1:36:0,-25.2988,-286.783 0/0:103:103,0:103:3666:0:0:0,-31.0061,-319.617 0/0:147:146,1:146:5228:1:36:0,-40.9524,-445.789 0/1:339:156,183:156:5575:183:6435:-426.359,0,-378.624 0/0:330:329,1:329:11761:1:36:0,-96.873,-1008.25 0/1:90:33,57:33:1188:57:2021:-126.779,0,-75.3202 0/1:172:87,85:87:3095:85:2993:-178.937,0,-217.405 0/1:137:75,62:75:2660:62:2193:-130.382,0,-189.522 0/0:196:196,0:196:6983:0:0:0,-59.0019,-597.943 0/0:16:16,0:16:576:0:0:0,-4.81648,-50.4701 0/1:11:4,7:4:144:7:233:-14.432,0,-9.64866 0/1:29:19,10:19:684:10:352:-19.9136,0,-50.6414 0/1:173:69,104:69:2472:104:3657:-247.137,0,-162.493 0/0:121:120,1:120:4296:1:32:0,-33.3701,-365.383 0/0:185:185,0:185:6627:0:0:0,-55.6905,-573.381 0/0:126:126,0:126:4504:0:0:0,-37.9298,-384.535 0/0:125:125,0:125:4467:0:0:0,-37.6287,-379.607 0/1:195:100,95:100:3592:95:3317:-204.071,0,-250.273 0/1:108:72,36:72:2563:36:1248:-70.4768,0,-188.015 0/0:173:170,3:170:6089:3:108:0,-43.1528,-513.599 0/0:72:72,0:72:2580:0:0:0,-21.6742,-224.926 chr11 28758962 . TG TA,GA 51453.7 PASS AB=0.457303,0.538202;ABP=17.1029,14.2922;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1872,483;CIGAR=1M1X,2X;DP=2360;DPB=2360;DPRA=0,1.06283;EPP=4041.99,1051.83;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.71429,2.27273;MQM=59.9231,58.8592;MQMR=60;NS=21;NUMALT=2;ODDS=20.1326;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66990,16891;QR=36;RO=1;RPL=3,0;RPP=4041.99,1051.83;RPPR=5.18177;RPR=1869,483;RUN=1,1;SAF=1872,483;SAP=4068.01,1051.83;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:208:0,208,0:0:0:208,0:7402,0:-666.214,-62.6142,0,-666.214,-62.6142,-666.214 1/1:51:0,51,0:0:0:51,0:1822,0:-164.261,-15.3525,0,-164.261,-15.3525,-164.261 1/1:73:0,73,0:0:0:73,0:2613,0:-235.416,-21.9752,0,-235.416,-21.9752,-235.416 1/2:124:0,58,66:0:0:58,66:2061,2276:-352.975,-185.026,-167.566,-168.3,0,-148.432 1/1:296:0,295,1:0:0:295,1:10581,28:-951.916,-88.8039,0,-949.697,-86.3052,-949.396 1/2:95:0,38,56:0:0:38,56:1368,1966:-271.514,-159.888,-148.449,-111.622,0,-94.7642 1/2:174:0,67,105:0:0:67,105:2408,3694:-496.971,-300.52,-280.351,-196.447,0,-164.839 1/2:89:0,38,51:0:0:38,51:1364,1745:-253.078,-141.808,-130.369,-111.622,0,-96.269 1/1:191:0,190,0:0:0:190,0:6800,0:-610.687,-57.1957,0,-610.687,-57.1957,-610.687 1/1:15:0,15,0:0:0:15,0:540,0:-48.9332,-4.51545,0,-48.9332,-4.51545,-48.9332 1/2:10:0,4,6:0:0:4,6:144,216:-29.734,-17.9843,-16.7802,-12.1095,0,-10.3033 1/2:42:0,18,24:0:0:18,24:648,813:-119.128,-66.245,-60.8265,-53.2333,0,-46.0086 1/2:159:0,78,81:0:0:78,81:2804,2848:-460.63,-231.866,-208.386,-229.119,0,-204.735 1/1:96:0,96,0:0:0:96,0:3404,0:-306.552,-28.8989,0,-306.552,-28.8989,-306.552 1/1:184:0,184,0:0:0:184,0:6570,0:-591.38,-55.3895,0,-591.38,-55.3895,-591.38 1/1:83:0,83,0:0:0:83,0:2969,0:-267.437,-24.9855,0,-267.437,-24.9855,-267.437 1/1:119:0,119,0:0:0:119,0:4266,0:-384.095,-35.8226,0,-384.095,-35.8226,-384.095 1/2:97:1,46,50:1:36:46,50:1656,1767:-275.372,-140.598,-129.688,-132.134,0,-120.02 1/2:100:0,60,40:0:0:60,40:2156,1430:-292.755,-116.868,-98.8059,-176.245,0,-164.204 1/1:86:0,83,3:0:0:83,3:2980,108:-268.072,-24.9855,0,-259.26,-15.8134,-258.357 1/1:68:0,68,0:0:0:68,0:2434,0:-219.316,-20.47,0,-219.316,-20.47,-219.316 chr11 28759038 . A T 24952.3 PASS AB=0.46;ABP=12.7385;AC=33;AF=0.785714;AN=42;AO=1215;CIGAR=1X;DP=1598;DPB=1598;DPRA=0;EPP=2641.35;EPPR=832.513;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9679;MQMR=59.9843;NS=21;NUMALT=1;ODDS=12.0572;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42540;QR=13495;RO=382;RPL=0;RPP=2641.35;RPPR=832.513;RPR=1215;RUN=1;SAF=0;SAP=2641.35;SAR=1215;SRF=0;SRP=832.513;SRR=382;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:72:0,72:0:0:72:2502:-225.433,-21.6742,0 1/1:30:0,30:0:0:30:1056:-95.3486,-9.0309,0 1/1:124:0,124:0:0:124:4288:-386.103,-37.3277,0 0/1:62:32,30:32:1127:30:1064:-77.4078,0,-83.0736 1/1:105:2,103:2:72:103:3618:-318.988,-24.7714,0 0/1:90:55,35:55:1951:35:1228:-83.7311,0,-148.773 0/1:130:69,60:69:2459:60:2112:-150.729,0,-182.372 0/1:135:74,61:74:2630:61:2086:-147.367,0,-196.307 1/1:185:1,184:1:36:184:6484:-580.058,-52.0923,0 1/1:19:0,19:0:0:19:672:-60.8068,-5.71957,0 0/1:5:3,2:3:100:2:72:-5.33157,0,-7.82529 0/1:48:23,25:23:813:25:883:-65.338,0,-59.0397 0/1:94:56,38:56:1966:38:1337:-92.3311,0,-148.915 1/1:140:1,139:1:36:139:4895:-437.109,-38.5459,0 1/1:57:0,57:0:0:57:2000:-180.274,-17.1587,0 1/1:29:0,29:0:0:29:997:-90.0369,-8.72987,0 1/1:49:0,49:0:0:49:1724:-155.442,-14.7505,0 0/1:82:39,43:39:1349:43:1515:-111.958,0,-97.0214 0/1:54:26,28:26:920:28:959:-70.364,0,-66.8614 1/1:42:1,41:1:36:41:1428:-125.215,-9.04499,0 1/1:46:0,46:0:0:46:1620:-146.089,-13.8474,0 chr11 28759068 . G A 32623.4 PASS AB=0.492208;ABP=3.41639;AC=33;AF=0.785714;AN=42;AO=1411;CIGAR=1X;DP=1807;DPB=1807;DPRA=0;EPP=2335.09;EPPR=659.475;GTI=0;LEN=1;MEANALT=1;MQM=59.9667;MQMR=59.9848;NS=21;NUMALT=1;ODDS=14.7914;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50054;QR=14051;RO=396;RPL=1321;RPP=2335.09;RPPR=659.475;RPR=90;RUN=1;SAF=0;SAP=3066.96;SAR=1411;SRF=0;SRP=862.913;SRR=396;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:0,97:0:0:97:3468:-312.331,-29.1999,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:149:0,149:0:0:149:5307:-477.767,-44.8535,0 0/1:72:37,35:37:1306:35:1235:-89.7776,0,-96.1658 1/1:121:2,119:2:72:119:4245:-375.393,-29.5879,0 0/1:101:59,42:59:2091:42:1504:-105.251,0,-158.056 0/1:129:68,61:68:2375:61:2127:-152.842,0,-175.174 0/1:148:75,73:75:2671:73:2607:-190.325,0,-196.081 1/1:193:1,192:1:36:192:6810:-609.378,-54.5005,0 1/1:24:0,24:0:0:24:849:-76.7287,-7.22472,0 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:51:24,27:24:860:27:959:-71.2729,0,-62.3693 0/1:106:54,52:54:1924:52:1826:-132.71,0,-141.528 1/1:152:1,151:1:36:151:5314:-474.804,-42.1583,0 1/1:84:0,84:0:0:84:2979:-268.344,-25.2865,0 1/1:34:0,34:0:0:34:1208:-109.026,-10.235,0 1/1:55:0,55:0:0:55:1936:-174.517,-16.5567,0 0/1:91:44,47:44:1580:47:1668:-123.012,0,-115.098 0/1:67:27,40:27:956:40:1424:-108.288,0,-66.1867 1/1:45:1,44:1:36:44:1567:-137.723,-9.94808,0 1/1:52:0,52:0:0:52:1837:-165.609,-15.6536,0 chr11 28775461 . 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C A 12599.6 PASS AB=0.450758;ABP=8.57059;AC=34;AF=0.809524;AN=42;AO=581;CIGAR=1X;DP=726;DPB=726;DPRA=0;EPP=1264.64;EPPR=317.874;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.68536;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20692;QR=5145;RO=145;RPL=2;RPP=1247.32;RPPR=317.874;RPR=579;RUN=1;SAF=2;SAP=1247.32;SAR=579;SRF=0;SRP=317.874;SRR=145;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40:0:0:40:1416:-127.735,-12.0412,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 1/1:32:0,32:0:0:32:1124:-101.465,-9.63296,0 0/1:37:17,20:17:612:20:712:-53.2685,0,-44.2753 1/1:71:0,71:0:0:71:2529:-227.861,-21.3731,0 0/1:38:22,16:22:788:16:557:-39.0164,0,-59.8057 0/1:57:35,22:35:1221:22:788:-54.0861,0,-93.0328 0/1:26:17,9:17:612:9:324:-21.6791,0,-47.5867 1/1:66:0,66:0:0:66:2360:-212.659,-19.868,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:14:10,4:10:360:4:144:-9.0992,0,-28.5299 0/1:45:19,26:19:672:26:932:-70.6525,0,-47.2605 1/1:20:0,20:0:0:20:720:-65.1288,-6.0206,0 1/1:52:0,52:0:0:52:1868:-168.399,-15.6536,0 1/1:47:0,47:0:0:47:1692:-152.567,-14.1484,0 1/1:39:0,39:0:0:39:1379:-124.407,-11.7402,0 0/1:29:16,13:16:560:13:435:-30.7386,0,-41.9989 0/1:18:9,9:9:320:9:324:-24.0873,0,-23.7238 1/1:28:0,28:0:0:28:993:-89.6839,-8.42884,0 1/1:28:0,28:0:0:28:995:-89.864,-8.42884,0 chr11 28813792 . C T 3561.08 PASS AB=0.408403;ABP=46.3704;AC=9;AF=0.214286;AN=42;AO=244;CIGAR=1X;DP=1815;DPB=1815;DPRA=0.705154;EPP=532.85;EPPR=3410.05;GTI=1;LEN=1;MEANALT=1.1;MQM=59.8115;MQMR=59.9547;NS=21;NUMALT=1;ODDS=1.05712;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8709;QR=55892;RO=1569;RPL=244;RPP=532.85;RPPR=3410.05;RPR=0;RUN=1;SAF=244;SAP=532.85;SAR=0;SRF=1569;SRP=3410.05;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:115:115,0:115:4115:0:0:0,-34.6184,-370.534 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.898 0/0:137:137,0:137:4897:0:0:0,-41.2411,-440.874 0/1:99:56,43:56:1977:43:1535:-108.632,0,-148.398 0/0:143:143,0:143:5084:0:0:0,-43.0473,-457.692 0/1:96:51,45:51:1824:45:1620:-117.189,0,-135.497 0/1:88:50,37:50:1754:37:1316:-92.1925,0,-131.593 0/1:64:54,10:54:1923:10:345:-12.1149,0,-154.076 0/0:252:251,0:251:8919:0:0:0,-75.5585,-802.336 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0957 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0366 0/1:32:25,7:25:870:7:252:-13.396,0,-68.9791 0/1:98:49,49:49:1764:49:1752:-128.463,0,-129.532 0/0:110:110,0:110:3909:0:0:0,-33.1133,-351.984 0/0:188:188,0:188:6689:0:0:0,-56.5936,-602.087 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.5132 0/1:45:25,20:25:891:20:705:-50.2126,0,-66.9624 0/1:58:36,22:36:1288:22:788:-53.7804,0,-98.7638 0/0:114:113,1:113:4028:1:36:0,-30.7191,-359.109 0/0:42:42,0:42:1504:0:0:0,-12.6433,-135.655 chr11 28813846 . CTGTG TTGTC 2639.67 PASS AB=0.348276;ABP=118.982;AC=8;AF=0.190476;AN=42;AO=203;CIGAR=1X3M1X;DP=1581;DPB=1581;DPRA=0.833162;EPP=443.819;EPPR=2958.41;GTI=0;LEN=5;MEANALT=1.44444;MQM=53.4483;MQMR=59.9927;NS=21;NUMALT=1;ODDS=0.644633;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7194;QR=48575;RO=1369;RPL=0;RPP=443.819;RPPR=2958.41;RPR=203;RUN=1;SAF=0;SAP=443.819;SAR=203;SRF=0;SRP=2975.76;SRR=1369;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:117:117,0:117:4096:0:0:0,-35.2205,-368.832 0/0:55:55,0:55:1973:0:0:0,-16.5566,-177.845 0/0:86:86,0:86:3043:0:0:0,-25.8886,-274.102 0/1:59:45,13:45:1598:13:461:-23.7949,0,-126.291 0/0:149:148,0:148:5221:0:0:0,-44.5524,-469.675 0/1:62:39,22:39:1375:22:790:-52.4778,0,-105.326 0/1:93:68,25:68:2425:25:889:-51.8896,0,-190.51 0/1:63:19,43:19:664:43:1512:-117.162,0,-41.0604 0/0:174:172,0:172:6112:0:0:0,-51.7772,-549.854 0/0:20:20,0:20:718:0:0:0,-6.0206,-64.9484 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:34:25,9:25:884:9:314:-18.3264,0,-69.6417 0/1:100:61,39:61:2163:39:1386:-94.8383,0,-164.834 0/0:129:128,0:128:4528:0:0:0,-38.5318,-407.482 0/0:91:91,0:91:3235:0:0:0,-27.3937,-291.374 0/0:65:65,0:65:2331:0:0:0,-19.5669,-210.05 0/0:28:27,1:27:967:1:36:0,-4.83157,-83.7501 0/1:109:68,41:68:2430:41:1447:-97.4724,0,-186.139 0/1:60:48,10:48:1716:10:359:-14.7997,0,-136.907 0/0:23:23,0:23:817:0:0:0,-6.92369,-73.8519 0/0:59:59,0:59:2099:0:0:0,-17.7608,-189.18 chr11 28813857 . A G 2733.31 PASS AB=0.355634;ABP=105.834;AC=8;AF=0.190476;AN=42;AO=205;CIGAR=1X;DP=1541;DPB=1541;DPRA=1.32166;EPP=448.162;EPPR=2904.1;GTI=0;LEN=1;MEANALT=1;MQM=53.6439;MQMR=59.9835;NS=21;NUMALT=1;ODDS=8.77704;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7315;QR=47719;RO=1336;RPL=205;RPP=448.162;RPPR=2904.1;RPR=0;RUN=1;SAF=0;SAP=448.162;SAR=205;SRF=0;SRP=2904.1;SRR=1336;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:109:109,0:109:3889:0:0:0,-32.8123,-350.204 0/0:55:55,0:55:1957:0:0:0,-16.5566,-176.404 0/0:82:82,0:82:2920:0:0:0,-24.6845,-263.033 0/1:57:44,13:44:1572:13:459:-24.2904,0,-124.613 0/0:146:145,1:145:5176:1:36:0,-40.3521,-462.381 0/1:62:40,22:40:1420:22:784:-52.0019,0,-109.434 0/1:90:66,24:66:2364:24:864:-50.7659,0,-185.926 0/1:61:18,43:18:640:43:1525:-118.974,0,-39.5665 0/0:171:170,1:170:6074:1:32:0,-48.2768,-543.56 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:34:25,9:25:896:9:324:-19.229,0,-70.7253 0/1:98:59,39:59:2116:39:1392:-95.9672,0,-161.208 0/0:124:124,0:124:4411:0:0:0,-37.3277,-397.146 0/0:90:90,0:90:3221:0:0:0,-27.0927,-290.11 0/0:66:66,0:66:2361:0:0:0,-19.868,-212.747 0/0:28:27,1:27:972:1:36:0,-4.83157,-84.2006 0/1:109:68,41:68:2431:41:1467:-99.2569,0,-186.228 0/1:57:46,11:46:1631:11:396:-18.789,0,-129.919 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/0:55:55,0:55:1980:0:0:0,-16.5566,-178.474 chr11 28813867 . TG CG,CA 33654.2 PASS AB=0.641844,0.358156;ABP=101.574,101.574;AC=34,8;AF=0.809524,0.190476;AN=42;AO=1338,203;CIGAR=1X1M,2X;DP=1543;DPB=1543.5;DPRA=0,0.827731;EPP=2908.44,443.819;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.47619,2;MQM=59.9836,53.4877;MQMR=60;NS=21;NUMALT=2;ODDS=8.59391;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=47814,7213;QR=36;RO=1;RPL=1338,203;RPP=2908.44,443.819;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2908.44,443.819;SAR=1338,203;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:0,113,0:0:0:113,0:4032,0:-363.07,-34.0164,0,-363.07,-34.0164,-363.07 1/1:54:0,54,0:0:0:54,0:1944,0:-175.236,-16.2556,0,-175.236,-16.2556,-175.236 1/1:83:0,82,0:0:0:82,0:2944,0:-264.834,-24.6845,0,-264.834,-24.6845,-264.834 1/2:57:0,44,13:0:0:44,13:1576,466:-166.685,-38.1557,-24.9104,-128.886,0,-124.973 1/1:144:0,144,0:0:0:144,0:5156,0:-464.179,-43.3483,0,-464.179,-43.3483,-464.179 1/2:62:0,40,22:0:0:40,22:1430,775:-179.844,-63.2409,-51.1997,-116.956,0,-110.334 1/2:87:0,63,24:0:0:63,24:2245,853:-252.524,-69.5337,-50.5688,-183.288,0,-176.063 1/2:62:0,19,43:0:0:19,43:680,1535:-180.742,-125.289,-119.57,-55.8096,0,-42.8653 1/1:173:1,172,0:1:36:172,0:6153,0:-550.268,-48.4799,0,-550.569,-51.7772,-553.507 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 1/1:5:0,5,0:0:0:5,0:165,0:-15.1736,-1.50515,0,-15.1736,-1.50515,-15.1736 1/2:34:0,25,9:0:0:25,9:892,324:-99.4701,-26.7547,-19.229,-73.0739,0,-70.3647 1/2:98:0,59,39:0:0:59,39:2109,1387:-285.237,-113.276,-95.5155,-172.316,0,-160.576 1/1:127:0,127,0:0:0:127,0:4506,0:-405.703,-38.2308,0,-405.703,-38.2308,-405.703 1/1:88:0,88,0:0:0:88,0:3164,0:-284.984,-26.4906,0,-284.984,-26.4906,-284.984 1/1:66:0,66,0:0:0:66,0:2368,0:-213.378,-19.868,0,-213.378,-19.868,-213.378 1/1:27:0,26,1:0:0:26,1:936,36:-84.1997,-7.82678,0,-81.2632,-4.53054,-80.9622 1/2:108:0,67,41:0:0:67,41:2400,1445:-313.486,-117.757,-97.5877,-196.083,0,-183.741 1/2:56:0,45,11:0:0:45,11:1593,392:-162.031,-32.2747,-18.7284,-130.112,0,-126.801 1/1:23:0,23,0:0:0:23,0:805,0:-72.7675,-6.92369,0,-72.7675,-6.92369,-72.7675 1/1:58:0,58,0:0:0:58,0:2068,0:-186.391,-17.4597,0,-186.391,-17.4597,-186.391 chr11 28818132 . ATTTCC ATTCCC,ATTCG 34663.6 PASS AB=0.514493,0.482609;ABP=4.26912,4.82301;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1293,342;CIGAR=3M1X2M,1M1D3M1X;DP=1647;DPB=1589.83;DPRA=0,1.09641;EPP=2656.55,694.453;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.09524,2.41667;MQM=57.7077,32.4532;MQMR=0;NS=21;NUMALT=2;ODDS=10.3215;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=46024,12039;QR=0;RO=0;RPL=1274,335;RPP=2648.12,686.097;RPPR=0;RPR=19,7;RUN=1,1;SAF=1292,341;SAP=2802.04,736.993;SAR=1,1;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,112,7:0:0:112,7:3990,247:-358.527,-33.7154,0,-340.147,-15.2999,-338.04 1/1:51:0,50,0:0:0:50,0:1761,0:-158.346,-15.0515,0,-158.346,-15.0515,-158.346 1/1:70:0,70,0:0:0:70,0:2491,0:-224.341,-21.0721,0,-224.341,-21.0721,-224.341 1/2:98:0,52,44:0:0:52,44:1868,1552:-264.06,-111.712,-96.0586,-152.457,0,-139.212 1/1:155:0,152,1:0:0:152,1:5405,33:-485.778,-45.7566,0,-484.214,-44.2054,-483.913 1/2:52:0,25,27:0:0:25,27:896,944:-136.513,-63.6168,-56.0911,-73.2232,0,-65.0954 1/2:130:0,54,76:0:0:54,76:1906,2646:-330.5,-175.626,-159.37,-155.2,0,-132.322 1/2:75:0,39,36:0:0:39,36:1404,1287:-201.25,-86.8341,-75.094,-114.744,0,-103.907 1/1:140:0,139,0:0:0:139,0:4944,0:-444.737,-41.8432,0,-444.737,-41.8432,-444.737 1/1:12:0,11,1:0:0:11,1:396,36:-35.6493,-3.31133,0,-33.143,-0.488722,-32.842 1/2:12:0,5,7:0:0:5,7:176,252:-31.7075,-17.3745,-15.8693,-14.6649,0,-12.5577 1/2:78:0,31,47:0:0:31,47:1104,1658:-204.214,-114.32,-104.988,-90.2282,0,-76.0798 1/2:86:0,50,36:0:0:50,36:1772,1283:-237.571,-93.2126,-78.1611,-144.693,0,-133.856 1/1:90:0,89,0:0:0:89,0:3145,0:-282.837,-26.7917,0,-282.837,-26.7917,-282.837 1/1:88:0,87,0:0:0:87,0:3107,0:-279.424,-26.1896,0,-279.424,-26.1896,-279.424 1/1:36:0,36,0:0:0:36,0:1288,0:-116.177,-10.8371,0,-116.177,-10.8371,-116.177 1/1:47:0,47,0:0:0:47,0:1669,0:-150.335,-14.1484,0,-150.335,-14.1484,-150.335 1/2:75:0,39,36:0:0:39,36:1395,1244:-199.345,-85.6355,-73.8954,-114.035,0,-103.198 1/2:84:0,60,24:0:0:60,24:2128,857:-235.215,-61.8602,-43.7984,-173.684,0,-166.459 1/1:91:0,90,0:0:0:90,0:3207,0:-288.134,-27.0927,0,-288.134,-27.0927,-288.134 1/1:56:0,55,0:0:0:55,0:1972,0:-177.023,-16.5567,0,-177.023,-16.5567,-177.023 chr11 28818213 . T C 38145.9 PASS AB=0.509603;ABP=3.63588;AC=33;AF=0.785714;AN=42;AO=1766;CIGAR=1X;DP=2153;DPB=2153;DPRA=0;EPP=3837.83;EPPR=841.199;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9649;MQMR=60;NS=21;NUMALT=1;ODDS=1.65884;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62971;QR=13758;RO=386;RPL=1766;RPP=3837.83;RPPR=841.199;RPR=0;RUN=1;SAF=0;SAP=3837.83;SAR=1766;SRF=0;SRP=841.199;SRR=386;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:208:0,208:0:0:208:7381:-664.337,-62.6142,0 1/1:80:0,80:0:0:80:2860:-257.637,-24.0824,0 1/1:119:2,117:2:72:117:4178:-369.366,-28.9858,0 0/1:133:58,75:58:2084:75:2688:-202.128,0,-147.793 1/1:215:0,215:0:0:215:7662:-689.611,-64.7215,0 0/1:110:50,60:50:1773:60:2137:-159.483,0,-126.738 0/1:66:34,32:34:1216:32:1152:-84.1222,0,-89.8786 0/1:140:85,55:85:3000:55:1964:-134.891,0,-228.083 1/1:70:0,70:0:0:70:2496:-224.893,-21.0721,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 0/1:19:4,15:4:140:15:536:-42.8552,0,-7.22501 0/1:67:35,32:35:1256:32:1148:-83.4546,0,-93.1763 0/1:69:41,28:41:1457:28:1000:-69.4381,0,-110.653 1/1:140:0,140:0:0:140:4960:-446.55,-42.1442,0 1/1:151:0,150:0:0:150:5362:-482.349,-45.1545,0 1/1:69:0,69:0:0:69:2461:-221.743,-20.7711,0 1/1:80:0,80:0:0:80:2870:-258.536,-24.0824,0 0/1:97:50,47:50:1792:47:1682:-122.467,0,-132.363 0/1:80:26,54:26:932:54:1899:-147.1,0,-60.1165 1/1:136:1,135:1:36:135:4830:-431.254,-37.3418,0 1/1:60:0,60:0:0:60:2129:-191.863,-18.0618,0 chr11 28944004 . G A 28727.6 PASS AB=0.664547;ABP=298.862;AC=11;AF=0.261905;AN=42;AO=1488;CIGAR=1X;DP=3169;DPB=3169;DPRA=2.93443;EPP=3234.16;EPPR=3309.75;GTI=4;LEN=1;MEANALT=1.125;MQM=59.9906;MQMR=59.9964;NS=21;NUMALT=1;ODDS=6.65978;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53043;QR=59459;RO=1679;RPL=0;RPP=3234.16;RPPR=3309.75;RPR=1488;RUN=1;SAF=0;SAP=3234.16;SAR=1488;SRF=0;SRP=3648.91;SRR=1679;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:114:113,1:113:4011:1:36:0,-30.7191,-357.581 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 0/0:92:91,1:91:3205:1:36:0,-24.0965,-285.074 0/1:149:73,76:73:2595:76:2719:-200.099,0,-188.945 0/0:211:209,1:209:7377:1:36:0,-59.9778,-660.382 0/1:72:31,41:31:1070:41:1467:-110.651,0,-74.9295 0/1:126:56,70:56:1956:70:2516:-188.762,0,-138.381 0/1:136:58,78:58:2059:78:2792:-210.58,0,-144.641 0/0:197:196,1:196:6958:1:36:0,-55.7046,-622.691 0/0:29:28,1:28:1004:1:36:0,-5.13159,-87.0776 1/1:392:12,380:12:417:380:13605:-1186.37,-80.1435,0 1/1:286:21,265:21:756:265:9466:-783.523,-17.7274,0 0/1:114:50,64:50:1796:64:2290:-172.043,0,-127.605 0/0:90:90,0:90:3182:0:0:0,-27.0927,-286.603 0/0:155:154,1:154:5489:1:36:0,-43.0614,-490.539 0/0:72:72,0:72:2575:0:0:0,-21.6742,-231.999 0/0:44:44,0:44:1547:0:0:0,-13.2453,-139.518 0/1:535:65,469:65:2287:469:16572:-1330.05,0,-44.9799 0/1:126:88,38:88:3105:38:1364:-85.1309,0,-241.749 0/0:130:129,1:129:4535:1:36:0,-35.5356,-404.722 0/0:59:59,0:59:2099:0:0:0,-17.7608,-189.179 chr11 28945393 . C T 100845 PASS AB=0.537048;ABP=23.1225;AC=33;AF=0.785714;AN=42;AO=3678;CIGAR=1X;DP=4467;DPB=4467;DPRA=0;EPP=7989.69;EPPR=1714.13;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.7703;MQMR=59.7957;NS=21;NUMALT=1;ODDS=2.39384;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=130899;QR=28000;RO=788;RPL=1593;RPP=145.924;RPPR=75.3303;RPR=2085;RUN=1;SAF=1593;SAP=145.924;SAR=2085;SRF=313;SRP=75.3303;SRR=475;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:204:0,204:0:0:204:7271:-654.334,-61.4101,0 1/1:164:0,164:0:0:164:5838:-525.52,-49.3689,0 1/1:273:1,272:1:36:272:9640:-863.913,-78.5829,0 0/1:251:132,119:132:4690:119:4233:-305.564,0,-346.206 1/1:444:1,443:1:36:443:15732:-1411.35,-130.059,0 0/1:151:61,90:61:2170:90:3220:-244.45,0,-150.109 0/1:323:159,164:159:5610:164:5871:-431.249,0,-407.765 0/1:316:152,164:152:5434:164:5808:-427.694,0,-394.041 1/1:317:0,317:0:0:317:11258:-1013.01,-95.4265,0 1/1:12:0,12:0:0:12:428:-38.8588,-3.61236,0 0/1:9:4,5:4:144:5:176:-13.4757,0,-10.6043 0/1:52:30,22:30:1080:22:784:-55.2304,0,-81.8551 0/1:245:92,153:92:3257:153:5488:-420.271,0,-219.598 1/1:261:0,261:0:0:261:9295:-836.392,-78.5688,0 1/1:444:2,442:2:72:442:15762:-1411.41,-126.824,0 1/1:148:0,148:0:0:148:5271:-474.517,-44.5524,0 1/1:166:0,166:0:0:166:5929:-533.71,-49.971,0 0/1:190:99,91:99:3525:91:3228:-233.527,0,-260.263 0/1:150:51,98:51:1806:98:3468:-267.116,0,-117.516 1/1:241:4,237:4:140:237:8408:-743.745,-59.6037,0 1/1:106:0,106:0:0:106:3791:-341.375,-31.9092,0 chr11 28962287 . C T 36624.9 PASS AB=0.488485;ABP=3.96048;AC=33;AF=0.785714;AN=42;AO=1697;CIGAR=1X;DP=2123;DPB=2123;DPRA=0;EPP=3688;EPPR=928.058;GTI=0;LEN=1;MEANALT=1;MQM=59.3789;MQMR=59.8404;NS=21;NUMALT=1;ODDS=3.67439;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60786;QR=15195;RO=426;RPL=0;RPP=3688;RPPR=928.058;RPR=1697;RUN=1;SAF=1697;SAP=3688;SAR=0;SRF=426;SRP=928.058;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:99:0,99:0:0:99:3556:-319.595,-29.802,0 1/1:119:0,119:0:0:119:4268:-384.073,-35.8226,0 1/1:87:0,87:0:0:87:3118:-280.744,-26.1896,0 0/1:157:87,70:87:3108:70:2501:-177.417,0,-232.676 1/1:144:2,142:2:72:142:5080:-449.386,-36.5116,0 0/1:134:77,57:77:2755:57:2039:-143.236,0,-207.851 0/1:111:50,61:50:1775:61:2196:-164.417,0,-126.614 0/1:92:42,50:42:1512:50:1792:-133.715,0,-108.677 1/1:185:0,185:0:0:185:6632:-596.941,-55.6906,0 1/1:27:0,27:0:0:27:968:-87.418,-8.12781,0 0/1:11:3,8:3:99:8:288:-22.8656,0,-5.92525 0/1:26:17,9:17:608:9:324:-21.3536,0,-47.2252 0/1:158:91,67:91:3256:67:2396:-168.296,0,-245.694 1/1:138:2,136:2:72:136:4888:-432.898,-34.7054,0 1/1:187:0,187:0:0:187:6691:-602.149,-56.2926,0 1/1:92:0,92:0:0:92:3296:-296.855,-27.6948,0 1/1:86:0,86:0:0:86:3074:-276.858,-25.8886,0 0/1:67:33,34:33:1176:34:1212:-89.0034,0,-85.9749 0/1:69:22,47:22:762:47:1679:-130.609,0,-48.1242 1/1:86:0,86:0:0:86:3075:-276.54,-25.8886,0 1/1:48:0,48:0:0:48:1713:-154.193,-14.4494,0 chr11 28962337 . C A 6092.6 PASS AB=0.501299;ABP=3.02158;AC=9;AF=0.214286;AN=42;AO=389;CIGAR=1X;DP=2032;DPB=2032;DPRA=0.968219;EPP=847.713;EPPR=3570.74;GTI=0;LEN=1;MEANALT=1;MQM=59.8123;MQMR=59.5307;NS=21;NUMALT=1;ODDS=4.50139;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13498;QR=56607;RO=1643;RPL=389;RPP=847.713;RPPR=3570.74;RPR=0;RUN=1;SAF=389;SAP=847.713;SAR=0;SRF=1643;SRP=3570.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:96:96,0:96:3368:0:0:0,-28.8989,-303.321 0/0:115:115,0:115:3969:0:0:0,-34.6184,-357.204 0/0:85:85,0:85:2886:0:0:0,-25.5875,-259.935 0/1:153:70,83:70:2360:83:2916:-216.611,0,-166.221 0/0:144:142,2:142:4937:2:72:0,-36.5116,-437.533 0/1:124:53,71:53:1810:71:2444:-182.884,0,-125.649 0/1:103:56,47:56:1922:47:1623:-115.335,0,-142.235 0/1:88:51,37:51:1757:37:1296:-90.4478,0,-131.688 0/0:179:179,0:179:6160:0:0:0,-53.8844,-554.502 0/0:27:27,0:27:933:0:0:0,-8.12781,-84.2603 0/1:9:6,3:6:212:3:108:-7.3659,0,-16.7155 0/1:24:8,16:8:271:16:560:-43.504,0,-17.4928 0/1:147:65,82:65:2247:82:2820:-209.785,0,-158.199 0/0:134:133,1:133:4660:1:36:0,-36.7397,-415.955 0/0:183:183,0:183:6270:0:0:0,-55.0885,-564.293 0/0:94:94,0:94:3220:0:0:0,-28.2968,-290.019 0/0:83:83,0:83:2850:0:0:0,-24.9855,-256.676 0/1:57:30,27:30:1039:27:946:-68.2911,0,-76.5953 0/1:65:45,20:45:1561:20:677:-41.6772,0,-121.201 0/0:79:79,0:79:2689:0:0:0,-23.7814,-242.247 0/0:43:43,0:43:1486:0:0:0,-12.9443,-133.384 chr11 28981776 . GTTAGA ATTAAG,GTTAAA 64091.1 PASS AB=0.546541,0.450897;ABP=25.0421,27.5344;AC=33,9;AF=0.785714,0.214286;AN=42;AO=2487,536;CIGAR=1X3M2X,4M1X1M;DP=3037;DPB=3036.83;DPRA=0,1.16624;EPP=5403.46,1166.92;EPPR=0;GTI=0;LEN=6,1;MEANALT=2.2381,2.53846;MQM=54.4503,59.9757;MQMR=0;NS=21;NUMALT=2;ODDS=18.4965;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=86960,19223;QR=0;RO=0;RPL=2487,536;RPP=5403.46,1166.92;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=5403.46,1166.92;SAR=2487,536;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:0,130,0:0:0:130,0:4509,0:-405.008,-39.1339,0,-405.008,-39.1339,-405.008 1/1:45:0,44,0:0:0:44,0:1554,0:-138.874,-13.2453,0,-138.874,-13.2453,-138.874 1/1:203:0,203,0:0:0:203,0:7135,0:-641.16,-61.1091,0,-641.16,-61.1091,-641.16 1/2:224:0,128,96:0:0:128,96:4444,3440:-639.592,-280.914,-242.382,-359.03,0,-330.131 1/1:304:0,300,4:0:0:300,4:10392,140:-932.678,-90.309,0,-921.287,-78.5685,-920.083 1/2:120:0,62,57:0:0:62,57:2187,2048:-344.628,-167.073,-148.409,-177.551,0,-160.392 1/2:185:0,103,82:0:0:103,82:3615,2947:-533.622,-240.779,-209.772,-293.199,0,-268.514 1/2:125:0,77,48:0:0:77,48:2708,1720:-360.145,-140.636,-117.457,-219.864,0,-205.415 1/1:361:0,359,0:0:0:359,0:12611,0:-1131.92,-108.07,0,-1131.92,-108.07,-1131.92 1/1:32:0,32,0:0:0:32,0:1124,0:-100.84,-9.63296,0,-100.84,-9.63296,-100.84 1/2:10:0,2,8:0:0:2,8:71,288:-29.6285,-23.8592,-23.2571,-6.12456,0,-3.71632 1/2:86:0,51,34:0:0:51,34:1798,1224:-245.59,-99.8713,-84.5188,-145.715,0,-135.48 1/2:313:0,151,162:0:0:151,162:5284,5804:-902.634,-473.706,-428.251,-429.281,0,-380.514 1/1:210:0,206,2:0:0:206,2:7183,72:-645.325,-62.0122,0,-639.45,-56.124,-638.848 1/1:211:0,210,0:0:0:210,0:7384,0:-661.604,-63.2163,0,-661.604,-63.2163,-661.604 1/1:30:0,30,0:0:0:30,0:1028,0:-92.7975,-9.0309,0,-92.7975,-9.0309,-92.7975 1/1:36:0,35,1:0:0:35,1:1209,36:-108.643,-10.5361,0,-105.705,-7.23881,-105.404 1/2:60:0,30,29:0:0:30,29:1047,1036:-169.369,-84.5634,-75.5325,-84.9034,0,-76.1735 1/2:48:0,36,12:0:0:36,12:1268,432:-138.392,-35.6088,-24.7718,-103.14,0,-99.528 1/1:267:0,264,1:0:0:264,1:9224,36:-826.039,-79.4719,0,-823.102,-76.5129,-822.8 1/1:34:0,34,0:0:0:34,0:1185,0:-106.267,-10.235,0,-106.267,-10.235,-106.267 chr11 28989668 . CTTTTTTTCTTGTGTA CTTTTTTTTCTTGTGTA 11169.7 PASS AB=0.462121;ABP=7.94546;AC=32;AF=0.761905;AN=42;AO=567;CIGAR=1M1I15M;DP=796;DPB=832;DPRA=0;EPP=1234.24;EPPR=465.534;GTI=1;LEN=1;MEANALT=1.61905;MQM=48.7937;MQMR=60;NS=21;NUMALT=1;ODDS=0.459083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19989;QR=7531;RO=213;RPL=0;RPP=1234.24;RPPR=465.534;RPR=567;RUN=1;SAF=0;SAP=1234.24;SAR=567;SRF=0;SRP=465.534;SRR=213;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:19:2,17:2:72:17:593:-47.2789,0,-1.11715 1/1:13:0,13:0:0:13:464:-42.0571,-3.91339,0 1/1:45:3,42:3:103:42:1504:-123.873,-3.93655,0 0/1:103:47,53:47:1651:53:1865:-135.18,0,-118.418 1/1:52:2,48:2:69:48:1690:-142.876,-8.84938,0 0/1:30:16,11:16:576:11:392:-27.0548,0,-43.6877 0/1:69:50,17:50:1746:17:612:-34.9293,0,-136.969 0/1:34:17,17:17:607:17:608:-44.0772,0,-44.7269 1/1:55:1,54:1:36:54:1874:-165.276,-12.9584,0 1/1:6:0,6:0:0:6:201:-18.1875,-1.80618,0 0/1:5:2,3:2:72:3:108:-8.5672,0,-5.33157 0/1:22:5,17:5:178:17:608:-47.6895,0,-9.74599 0/1:49:31,18:31:1101:18:629:-41.4015,0,-84.6504 1/1:50:0,49:0:0:49:1722:-152.869,-14.7505,0 1/1:54:1,51:1:36:51:1818:-157.618,-12.4135,0 1/1:31:0,30:0:0:30:1046:-94.0802,-9.0309,0 1/1:28:0,28:0:0:28:980:-88.4652,-8.42884,0 0/1:29:17,12:17:603:12:419:-28.5966,0,-45.8711 0/1:36:18,18:18:645:18:634:-45.5506,0,-47.544 1/1:45:1,44:1:36:44:1551:-133.95,-9.94808,0 1/1:21:0,19:0:0:19:671:-59.9417,-5.71957,0 chr11 28989696 . CTT GTC,GTT 17141.9 PASS AB=0.476309,0.523691;ABP=4.96517,4.96517;AC=32,10;AF=0.761905,0.238095;AN=42;AO=612,214;CIGAR=1X1M1X,1X2M;DP=827;DPB=827;DPRA=0,1.09043;EPP=1331.95,467.705;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.57143,2;MQM=48.8824,60;MQMR=0;NS=21;NUMALT=2;ODDS=1.93287;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=21493,7669;QR=0;RO=0;RPL=612,214;RPP=1331.95,467.705;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1331.95,467.705;SAR=612,214;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:20:0,18,2:0:0:18,2:621,72:-56.0406,-6.23466,-0.816122,-50.1639,0,-49.5618 1/1:13:0,13,0:0:0:13,0:466,0:-42.1979,-3.91339,0,-42.1979,-3.91339,-42.1979 1/1:50:0,46,4:0:0:46,4:1600,140:-141.873,-13.8474,0,-130.482,-2.10692,-129.278 1/2:104:0,55,49:0:0:55,49:1935,1754:-298.364,-143.393,-126.837,-155.323,0,-140.572 1/1:54:0,54,0:0:0:54,0:1899,0:-166.947,-16.2556,0,-166.947,-16.2556,-166.947 1/2:31:0,12,19:0:0:12,19:432,684:-91.3302,-56.1708,-52.5584,-35.5188,0,-29.7992 1/2:69:0,18,51:0:0:18,51:636,1823:-200.763,-148.998,-143.579,-52.1196,0,-36.7671 1/2:35:0,18,17:0:0:18,17:634,612:-101.209,-50.2959,-44.8774,-51.2669,0,-46.1494 1/1:59:0,59,0:0:0:59,0:2059,0:-185.524,-17.7608,0,-185.524,-17.7608,-185.524 1/1:6:0,6,0:0:0:6,0:212,0:-19.1837,-1.80618,0,-19.1837,-1.80618,-19.1837 1/2:5:0,3,2:0:0:3,2:108,72:-15.0441,-6.23466,-5.33157,-9.16926,0,-8.5672 1/2:23:0,19,4:0:0:19,4:674,144:-66.2239,-12.1095,-6.38993,-54.4726,0,-53.2684 1/2:49:0,18,31:0:0:18,31:624,1108:-140.759,-90.6991,-85.2805,-50.4076,0,-41.0757 1/1:54:0,54,0:0:0:54,0:1897,0:-168.921,-16.2556,0,-168.921,-16.2556,-168.921 1/1:60:0,59,0:0:0:59,0:2067,0:-183.138,-17.7608,0,-183.138,-17.7608,-183.138 1/1:31:0,31,0:0:0:31,0:1095,0:-98.7358,-9.33193,0,-98.7358,-9.33193,-98.7358 1/1:28:0,28,0:0:0:28,0:998,0:-90.0897,-8.42884,0,-90.0897,-8.42884,-90.0897 1/2:29:0,12,17:0:0:12,17:428,612:-84.1642,-50.2959,-46.6836,-34.2207,0,-29.1031 1/2:36:0,18,18:0:0:18,18:630,648:-103.616,-53.2333,-47.8148,-50.7348,0,-45.3162 1/1:46:0,46,0:0:0:46,0:1614,0:-142.713,-13.8474,0,-142.713,-13.8474,-142.713 1/1:25:0,25,0:0:0:25,0:864,0:-76.5528,-7.52575,0,-76.5528,-7.52575,-76.5528 chr11 28989715 . TT CT 12286.6 PASS AB=0.476309;ABP=4.96517;AC=32;AF=0.761905;AN=42;AO=608;CIGAR=1X1M;DP=825;DPB=825;DPRA=0;EPP=1323.27;EPPR=467.705;GTI=1;LEN=1;MEANALT=1.04762;MQM=48.8832;MQMR=60;NS=21;NUMALT=1;ODDS=1.81955;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21560;QR=7661;RO=214;RPL=608;RPP=1323.27;RPPR=467.705;RPR=0;RUN=1;SAF=0;SAP=1323.27;SAR=608;SRF=0;SRP=467.705;SRR=214;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:20:2,18:2:72:18:648:-51.8571,0,-0.816122 1/1:13:0,13:0:0:13:468:-42.3786,-3.91339,0 1/1:50:4,43:4:140:43:1539:-123.833,-1.54647,0 0/1:104:49,55:49:1758:55:1975:-143.978,0,-127.197 1/1:54:0,54:0:0:54:1890:-167.035,-16.2556,0 0/1:31:19,12:19:682:12:432:-29.7992,0,-52.3779 0/1:69:51,18:51:1815:18:618:-35.138,0,-142.859 0/1:35:17,18:17:612:18:648:-47.3416,0,-44.8774 1/1:59:0,59:0:0:59:2101:-189.276,-17.7608,0 1/1:6:0,6:0:0:6:216:-19.5168,-1.80618,0 0/1:5:2,3:2:72:3:108:-8.5672,0,-5.33157 0/1:23:4,19:4:144:19:654:-51.5301,0,-6.38993 0/1:49:31,18:31:1114:18:644:-42.7366,0,-85.8212 1/1:53:0,53:0:0:53:1900:-168.989,-15.9546,0 1/1:60:0,60:0:0:60:2107:-186.67,-18.0618,0 1/1:31:0,31:0:0:31:1101:-99.2713,-9.33193,0 1/1:28:0,28:0:0:28:993:-89.6375,-8.42884,0 0/1:29:17,12:17:604:12:427:-29.2683,0,-45.9602 0/1:36:18,18:18:648:18:643:-46.3251,0,-47.8148 1/1:46:0,46:0:0:46:1627:-144.314,-13.8474,0 1/1:24:0,24:0:0:24:821:-73.6079,-7.22472,0 chr11 29012281 . GGAG TGAT,GGAT 26510.4 PASS AB=0.407692,0.589941;ABP=128.087,121.755;AC=21,21;AF=0.5,0.5;AN=42;AO=689,997;CIGAR=1X2M1X,3M1X;DP=1690;DPB=1690;DPRA=0,0;EPP=1499.15,2167.97;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.14286,2.14286;MQM=24.9608,50.1073;MQMR=0;NS=21;NUMALT=2;ODDS=7.64909;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24348,35687;QR=0;RO=0;RPL=0,0;RPP=1499.15,2167.97;RPPR=0;RPR=689,997;RUN=1,1;SAF=689,997;SAP=1499.15,2167.97;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:147:0,56,91:0:0:56,91:1987,3260:-371.133,-263.964,-247.106,-107.457,0,-80.0629 1/2:39:0,30,9:0:0:30,9:1051,324:-83.3525,-26.2111,-17.1802,-57.4694,0,-54.7601 1/2:62:0,29,33:0:0:29,33:1039,1184:-151.657,-95.5375,-86.8076,-56.4171,0,-46.4831 1/2:41:0,12,29:0:0:12,29:420,1035:-107.169,-84.3251,-80.7127,-23.1208,0,-14.391 1/2:270:0,116,154:0:0:116,154:4070,5508:-662.129,-445.976,-411.057,-216.442,0,-170.083 1/2:50:0,12,38:0:0:12,38:432,1364:-133.996,-110.993,-107.38,-23.2769,0,-11.8378 1/2:104:0,30,74:0:0:30,74:1061,2642:-273.2,-214.834,-205.803,-58.6462,0,-36.37 1/2:48:0,15,33:0:0:15,33:529,1173:-124.081,-95.4798,-90.9643,-28.881,0,-18.947 1/2:102:0,32,67:0:0:32,67:1148,2389:-255.653,-193.605,-183.972,-62.0624,0,-41.8934 1/2:7:0,3,4:0:0:3,4:104,144:-17.7054,-12.0373,-11.1342,-5.9616,0,-4.75748 1/2:6:0,3,3:0:0:3,3:95,108:-14.8367,-9.14108,-8.23799,-5.99826,0,-5.09517 1/2:15:0,3,12:0:0:3,12:104,432:-41.15,-35.4562,-34.5531,-5.9616,0,-2.34924 1/2:94:0,50,44:0:0:50,44:1766,1576:-220.345,-128.446,-113.395,-92.1999,0,-78.9546 1/2:58:0,28,30:0:0:28,30:984,1080:-140.111,-87.9328,-79.5039,-52.4752,0,-43.4443 1/2:76:0,21,55:0:0:21,55:726,1976:-200.113,-160.226,-153.904,-40.1629,0,-23.6062 1/2:105:0,57,47:0:0:57,47:2005,1672:-244.479,-134.417,-117.258,-110.122,0,-95.9736 1/2:67:0,19,48:0:0:19,48:670,1720:-176.065,-139.802,-134.082,-36.5409,0,-22.0914 1/2:83:0,31,52:0:0:31,52:1086,1860:-210.119,-151.297,-141.965,-59.1083,0,-43.4547 1/2:124:0,58,66:0:0:58,66:2084,2360:-302.947,-192.151,-174.691,-111.094,0,-91.2258 1/2:96:0,42,54:0:0:42,54:1483,1936:-238.362,-157.342,-144.698,-81.316,0,-65.0603 1/2:96:0,42,54:0:0:42,54:1504,1944:-238.428,-157.979,-145.336,-80.744,0,-64.4883 chr11 29012326 . A T 18263.9 PASS AB=0.373519;ABP=472.113;AC=20;AF=0.47619;AN=42;AO=1261;CIGAR=1X;DP=3384;DPB=3384;DPRA=21.1;EPP=2741.24;EPPR=4608.7;GTI=0;LEN=1;MEANALT=1.1;MQM=57.5749;MQMR=52.3621;NS=21;NUMALT=1;ODDS=5.12132;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44955;QR=75346;RO=2121;RPL=2;RPP=2723.89;RPPR=1091.27;RPR=1259;RUN=1;SAF=2;SAP=2723.89;SAR=1259;SRF=545;SRP=1091.27;SRR=1576;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:112,54:112:3998:54:1932:-122.558,0,-258.913 0/1:144:93,51:93:3309:51:1828:-117.289,0,-254.645 0/1:239:120,119:120:4249:119:4260:-311.543,0,-283.918 0/1:206:142,63:142:5061:63:2251:-140.77,0,-381.25 0/1:438:298,140:298:10603:140:4992:-315.831,0,-710.332 0/1:112:76,36:76:2686:36:1276:-78.9144,0,-208.27 0/1:131:98,33:98:3490:33:1184:-64.98,0,-274.843 0/1:190:138,52:138:4905:52:1849:-109.492,0,-371.46 0/1:207:65,142:65:2315:142:5080:-395.031,0,-145.277 0/1:25:15,10:15:532:10:360:-25.1316,0,-38.6358 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:49:24,25:24:841:25:896:-66.1235,0,-59.0186 0/1:340:263,77:263:9365:77:2760:-146.205,0,-690.64 0/1:127:75,52:75:2676:52:1864:-129.809,0,-176.313 0/1:168:72,96:72:2549:96:3395:-255.195,0,-158.945 0/1:78:39,38:39:1400:38:1356:-98.7647,0,-100.704 0/1:75:34,41:34:1224:41:1472:-110.199,0,-86.7995 0/1:200:161,39:161:5670:39:1387:-64.7872,0,-421.282 0/1:158:128,30:128:4544:30:1046:-46.8857,0,-308.838 0/1:222:114,108:114:4029:108:3852:-278.668,0,-261.929 0/1:101:46,55:46:1612:55:1915:-137.347,0,-114.927 chr11 29306089 . T C 7309.82 PASS AB=0.44386;ABP=18.6144;AC=10;AF=0.238095;AN=42;AO=322;CIGAR=1X;DP=1450;DPB=1450;DPRA=1.23861;EPP=3.68467;EPPR=4.31395;GTI=0;LEN=1;MEANALT=1.07143;MQM=60;MQMR=59.9991;NS=21;NUMALT=1;ODDS=12.7556;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11528;QR=40203;RO=1126;RPL=0;RPP=702.224;RPPR=2387.66;RPR=322;RUN=1;SAF=166;SAP=3.68467;SAR=156;SRF=583;SRP=6.09587;SRR=543;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:63,0:63:2239:0:0:0,-18.9649,-201.773 0/0:53:53,0:53:1900:0:0:0,-15.9546,-171.278 0/0:28:27,1:27:959:1:36:0,-4.83056,-83.0271 0/1:66:35,31:35:1256:31:1103:-79.7118,0,-93.4773 0/0:130:128,2:128:4567:2:72:0,-32.2972,-404.36 0/1:45:25,20:25:900:20:713:-50.9502,0,-67.7747 0/1:96:66,30:66:2321:30:1080:-68.6144,0,-180.25 1/1:65:0,63:0:0:63:2252:-202.583,-18.9649,0 0/0:97:96,1:96:3428:1:36:0,-25.6016,-305.136 0/0:14:14,0:14:495:0:0:0,-4.21442,-44.883 0/1:6:3,3:3:104:3:108:-8.26899,0,-7.89663 0/1:23:8,15:8:288:15:536:-41.6511,0,-19.3437 0/1:62:25,37:25:900:37:1324:-100.798,0,-62.6572 0/0:67:66,1:66:2351:1:36:0,-16.5707,-208.25 0/0:95:95,0:95:3384:0:0:0,-28.5978,-304.777 0/0:44:44,0:44:1572:0:0:0,-13.2453,-141.772 0/0:41:41,0:41:1476:0:0:0,-12.3422,-133.136 0/1:155:72,83:72:2563:83:2980:-221.772,0,-184.26 0/1:117:83,34:83:2968:34:1216:-74.5261,0,-232.133 0/0:76:75,1:75:2692:1:36:0,-19.28,-238.926 0/0:107:107,0:107:3840:0:0:0,-32.2102,-345.795 chr11 29319954 . A G 7413.29 PASS AB=0.482456;ABP=4.83891;AC=10;AF=0.238095;AN=42;AO=419;CIGAR=1X;DP=1895;DPB=1895;DPRA=0.918598;EPP=912.857;EPPR=3205.93;GTI=0;LEN=1;MEANALT=1;MQM=59.5346;MQMR=59.8339;NS=21;NUMALT=1;ODDS=8.07365;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14935;QR=52288;RO=1475;RPL=0;RPP=912.857;RPPR=3205.93;RPR=419;RUN=1;SAF=419;SAP=912.857;SAR=0;SRF=1475;SRP=3205.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:166:166,0:166:5913:0:0:0,-49.971,-532.259 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.79 0/0:95:95,0:95:3322:0:0:0,-28.5978,-299.2 0/1:112:62,50:62:2224:50:1773:-125.508,0,-166.708 0/0:122:122,0:122:4330:0:0:0,-36.7257,-389.842 0/1:155:68,87:68:2421:87:3108:-233.13,0,-171.48 0/1:148:55,93:55:1953:93:3325:-254.754,0,-131.479 1/1:89:0,89:0:0:89:3164:-284.79,-26.7917,0 0/0:123:123,0:123:4355:0:0:0,-37.0267,-392.124 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:7:4,3:4:129:3:108:-7.96702,0,-9.82045 0/1:46:36,10:36:1258:10:360:-18.8743,0,-99.6705 0/1:143:84,59:84:2997:59:2116:-147.605,0,-226.913 0/0:142:141,0:141:4978:0:0:0,-42.4452,-447.776 0/0:134:134,0:134:4689:0:0:0,-40.338,-422.137 0/0:93:93,0:93:3278:0:0:0,-27.9958,-294.288 0/0:68:68,0:68:2424:0:0:0,-20.47,-218.404 0/1:42:21,21:21:756:21:729:-53.2854,0,-55.5939 0/1:31:24,7:24:864:7:252:-13.697,0,-68.7506 0/0:61:61,0:61:2165:0:0:0,-18.3628,-195.106 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.699 chr11 29354710 . ATTTTTTTTTTTACATA ATTTTTTTTTTTTTACATA,ATCTTTTTTTTTTTACATA,ATTTTTTTTTTTTACATA 13280.8 PASS AB=0.41649,0.396166,0.116101;ABP=60.3133,61.6331,1171.75;AC=21,10,10;AF=0.5,0.238095,0.238095;AN=42;AO=408,350,107;CIGAR=1M2I16M,1M2I16M,1M1I16M;DP=1093;DPB=1202;DPRA=0.412067,8.0107,0.850184;EPP=871.684,763.026,235.358;EPPR=44.2683;GTI=9;LEN=2,2,1;MEANALT=6,7.36364,6.29412;MQM=43.598,59.1029,50.0093;MQMR=59.5789;NS=21;NUMALT=3;ODDS=0.947868;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=12935,11274,3523;QR=667;RO=19;RPL=2,0,0;RPP=871.684,763.026,235.358;RPPR=44.2683;RPR=406,350,107;RUN=1,1,1;SAF=0,0,0;SAP=888.971,763.026,235.358;SAR=408,350,107;SRF=0;SRP=44.2683;SRR=19;TYPE=ins,ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/3:34:2,21,0,4:2:71:21,0,4:680,0,140:-58.7271,-5.58411,-5.0491,-59.3292,-11.3707,-65.116,-47.9564,0,-53.7436,-52.5395 1/3:12:0,6,0,1:0:0:6,0,1:171,0,36:-16.0684,-2.92361,-1.11743,-16.0684,-2.92361,-16.0684,-13.1477,0,-13.1477,-12.8467 1/3:65:4,35,0,17:4:139:35,0,17:1099,0,555:-118.934,-33.2762,-34.0445,-120.138,-44.5805,-131.441,-75.5519,0,-86.856,-81.7385 1/2:87:0,20,43,6:0:0:20,43,6:608,1376,193:-158.036,-110.829,-104.809,-47.2026,0,-34.2583,-142.533,-95.3261,-31.6976,-140.726 1/3:76:1,47,1,15:1:35:47,1,15:1430,21,494:-147.83,-36.7584,-25.4525,-146.543,-38.0157,-149.084,-108.537,0,-109.792,-106.864 1/2:52:1,10,31,3:1:36:10,31,3:325,967,106:-100.206,-74.7019,-74.6301,-22.8612,0,-16.4685,-92.4342,-69.5678,-17.7277,-94.4695 1/2:93:0,12,59,6:0:0:12,59,6:394,1886,182:-182.696,-151.89,-148.277,-30.803,0,-13.0422,-168.254,-137.448,-16.3652,-166.448 2/2:123:0,0,102,0:0:0:0,102,0:0,3315,0:-298.212,-298.212,-298.212,-30.7051,-30.7051,0,-298.212,-298.212,-30.7051,-298.212 1/3:79:2,52,0,13:2:72:52,0,13:1670,0,439:-161.531,-29.3355,-19.5589,-162.133,-35.2125,-168.009,-126.92,0,-132.796,-128.882 1/1:5:0,5,0,0:0:0:5,0,0:176,0,0:-15.5673,-1.50515,0,-15.5673,-1.50515,-15.5673,-15.5673,-1.50515,-15.5673,-15.5673 0/2:7:1,0,4,0:1:33:0,4,0:0,140,0:-11.1046,-11.4056,-14.072,0,-2.66906,-1.46494,-11.4056,-14.072,-2.66906,-14.072 1/2:33:0,8,15,0:0:0:8,15,0:284,498,0:-62.8507,-40.29,-37.8818,-22.5653,0,-18.0499,-62.8507,-40.29,-22.5653,-62.8507 1/2:118:1,26,58,6:1:35:26,58,6:815,1836,201:-208.283,-144.851,-139.873,-60.8814,0,-46.2701,-192.342,-131.458,-47.4869,-193.384 1/3:53:0,32,0,9:0:0:32,0,9:995,0,309:-102.572,-24.9747,-15.3417,-102.572,-24.9747,-102.572,-77.5966,0,-77.5966,-74.8874 1/3:60:1,42,0,8:1:35:42,0,8:1369,0,273:-127.077,-19.2587,-9.46367,-127.378,-22.1069,-130.226,-105.268,0,-108.117,-105.708 1/1:12:0,9,0,1:0:0:9,0,1:301,0,21:-27.0368,-2.70927,0,-27.0368,-2.70927,-27.0368,-25.4621,-1.14697,-25.4621,-25.1611 1/3:7:0,4,0,2:0:0:4,0,2:117,0,68:-14.4907,-5.49823,-4.29411,-14.4907,-5.49823,-14.4907,-8.96806,0,-8.96806,-8.366 1/2:50:1,10,24,1:1:36:10,24,1:283,790,36:-82.8109,-60.8571,-60.7849,-19.3025,0,-15.0169,-80.1843,-60.8678,-19.3132,-82.8215 1/2:43:1,18,11,3:1:35:18,11,3:600,383,92:-75.4866,-28.2866,-25.7163,-44.6558,0,-44.1929,-68.4742,-23.8237,-40.1911,-70.4193 1/3:67:3,45,2,7:3:104:45,2,7:1443,62,206:-120.989,-7.65701,-2.57073,-116.917,-11.1411,-124.77,-105.771,0,-109.251,-112.119 1/3:17:1,6,0,5:1:36:6,0,5:175,0,172:-23.9478,-10.8471,-11.983,-24.2488,-13.7892,-27.1899,-10.463,0,-13.4071,-11.9019 chr11 29354729 . TC CT,TT 40626 PASS AB=0.360449,0.636746;ABP=123.617,118.817;AC=32,10;AF=0.761905,0.238095;AN=42;AO=994,648;CIGAR=2X,1M1X;DP=1646;DPB=1646;DPRA=0.383158,2.02416;EPP=584.668,840.77;EPPR=0;GTI=3;LEN=2,1;MEANALT=1.75,2.16667;MQM=45.7445,58.5772;MQMR=0;NS=21;NUMALT=2;ODDS=1.09229;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35154,23164;QR=0;RO=0;RPL=755,574;RPP=584.668,840.77;RPPR=0;RPR=239,74;RUN=1,1;SAF=0,0;SAP=2161.45,1410.12;SAR=994,648;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:58:0,58,0:0:0:58,0:2054,0:-177.702,-17.4597,0,-177.702,-17.4597,-177.702 1/1:17:0,17,0:0:0:17,0:590,0:-51.2691,-5.11751,0,-51.2691,-5.11751,-51.2691 1/1:93:0,92,0:0:0:92,0:3271,0:-287.517,-27.6948,0,-287.517,-27.6948,-287.517 1/2:123:0,45,78:0:0:45,78:1580,2793:-351.483,-227.791,-214.245,-124.037,0,-100.557 1/1:103:0,101,1:0:0:101,1:3576,36:-304.109,-30.404,0,-301.171,-27.3929,-300.87 1/2:81:0,24,57:0:0:24,57:856,2033:-233.069,-165.566,-158.341,-67.8524,0,-50.6937 1/2:137:0,41,96:0:0:41,96:1464,3392:-390.123,-276.235,-263.893,-114.233,0,-85.3342 2/2:190:0,0,190:0:0:0,190:0,6786:-610.202,-610.202,-610.202,-57.1957,-57.1957,0 1/1:120:0,120,0:0:0:120,0:4265,0:-376.822,-36.1236,0,-376.822,-36.1236,-376.822 1/1:6:0,6,0:0:0:6,0:214,0:-18.9361,-1.80618,0,-18.9361,-1.80618,-18.9361 1/2:14:0,3,11:0:0:3,11:97,396:-39.9094,-32.5559,-31.6528,-7.67096,0,-4.35963 1/2:53:0,21,32:0:0:21,32:754,1148:-152.628,-93.875,-87.5534,-59.103,0,-49.4701 1/2:172:0,68,102:0:0:68,102:2390,3668:-484.347,-299.04,-278.57,-185.303,0,-154.598 1/1:83:0,82,1:0:0:82,1:2870,36:-249.155,-24.6845,0,-246.217,-21.3872,-245.916 1/1:90:0,90,0:0:0:90,0:3141,0:-275.089,-27.0927,0,-275.089,-27.0927,-275.089 1/1:22:0,22,0:0:0:22,0:792,0:-69.9095,-6.62266,0,-69.9095,-6.62266,-69.9095 1/1:9:0,9,0:0:0:9,0:322,0:-28.5145,-2.70927,0,-28.5145,-2.70927,-28.5145 1/2:75:0,18,57:0:0:18,57:644,2048:-218.903,-167.326,-161.908,-51.9308,0,-34.7721 1/2:58:0,37,21:0:0:37,21:1317,756:-165.637,-62.0432,-50.9051,-103.948,0,-97.6269 1/1:112:0,110,2:0:0:110,2:3895,72:-340.031,-33.1133,0,-334.164,-26.8872,-333.562 1/1:30:0,30,0:0:0:30,0:1062,0:-88.6996,-9.0309,0,-88.6996,-9.0309,-88.6996 chr11 29402229 . C G 10970.1 PASS AB=0.507968;ABP=3.56398;AC=10;AF=0.238095;AN=42;AO=624;CIGAR=1X;DP=3120;DPB=3120;DPRA=1.19935;EPP=1358.01;EPPR=5423.01;GTI=1;LEN=1;MEANALT=1;MQM=59.8526;MQMR=59.9479;NS=21;NUMALT=1;ODDS=1.56096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22270;QR=89280;RO=2496;RPL=0;RPP=1358.01;RPPR=5423.01;RPR=624;RUN=1;SAF=624;SAP=1358.01;SAR=0;SRF=2496;SRP=5423.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:155:155,0:155:5560:0:0:0,-46.6596,-500.513 0/0:99:99,0:99:3544:0:0:0,-29.802,-318.978 0/0:271:269,2:269:9624:2:72:0,-74.7424,-859.275 0/1:242:120,122:120:4303:122:4365:-320.162,0,-314.596 0/0:320:317,3:317:11310:3:108:0,-86.2544,-1007.71 0/1:114:49,65:49:1756:65:2300:-172.916,0,-123.998 0/1:201:94,107:94:3364:107:3795:-281.041,0,-242.461 1/1:106:0,106:0:0:106:3789:-341.207,-31.9092,0 0/0:292:292,0:292:10446:0:0:0,-87.9008,-940.036 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:45:26,19:26:928:19:668:-46.8993,0,-70.2919 0/1:183:91,92:91:3256:92:3308:-242.847,0,-238.173 0/0:220:219,1:219:7820:1:36:0,-62.6283,-700.171 0/0:145:145,0:145:5204:0:0:0,-43.6493,-468.495 0/0:134:134,0:134:4785:0:0:0,-40.338,-430.806 0/0:131:130,1:130:4643:1:36:0,-35.8367,-414.435 0/1:130:56,74:56:2000:74:2660:-200.467,0,-141.14 0/1:83:55,28:55:1968:28:989:-64.3342,0,-152.41 0/0:150:149,1:149:5335:1:36:0,-41.5562,-476.55 0/0:65:65,0:65:2318:0:0:0,-19.5669,-208.879 chr11 29402327 . C A 51116 PASS AB=0.501012;ABP=3.01909;AC=32;AF=0.761905;AN=42;AO=2352;CIGAR=1X;DP=2971;DPB=2971;DPRA=1.2646;EPP=5101.63;EPPR=1342.81;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9392;MQMR=59.9935;NS=21;NUMALT=1;ODDS=8.40836;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84145;QR=22117;RO=617;RPL=2351;RPP=5101.63;RPPR=1342.81;RPR=1;RUN=1;SAF=0;SAP=5110.31;SAR=2352;SRF=0;SRP=1342.81;SRR=617;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:180:0,178:0:0:178:6380:-573.928,-53.5833,0 1/1:76:0,76:0:0:76:2728:-245.699,-22.8783,0 1/1:161:0,161:0:0:161:5780:-520.313,-48.4658,0 0/1:167:83,84:83:2976:84:3016:-221.398,0,-217.8 1/1:357:9,348:9:320:348:12429:-1089.3,-78.3254,0 0/1:123:60,63:60:2160:63:2235:-164.385,0,-157.64 0/1:266:138,128:138:4948:128:4536:-328.33,0,-365.395 0/0:113:113,0:113:4056:0:0:0,-34.0164,-365.224 1/1:271:1,270:1:36:270:9678:-867.367,-77.9809,0 1/1:28:0,28:0:0:28:1004:-90.671,-8.42884,0 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:41:20,21:20:720:21:756:-56.0168,0,-52.7865 0/1:199:100,99:100:3584:99:3556:-260.3,0,-262.862 1/1:215:0,215:0:0:215:7684:-691.586,-64.7215,0 1/1:178:0,178:0:0:178:6353:-571.834,-53.5833,0 1/1:100:0,100:0:0:100:3587:-323.036,-30.103,0 1/1:84:0,84:0:0:84:3000:-270.232,-25.2865,0 0/1:94:59,35:59:2101:35:1237:-83.3248,0,-161.061 0/1:86:28,58:28:1000:58:2065:-160.227,0,-64.4268 1/1:154:1,153:1:36:153:5493:-490.897,-42.7603,0 1/1:66:0,66:0:0:66:2376:-214.097,-19.868,0 chr11 29402334 . A G 49845.3 PASS AB=0.495918;ABP=3.15211;AC=32;AF=0.761905;AN=42;AO=2318;CIGAR=1X;DP=2932;DPB=2932;DPRA=1.30741;EPP=5036.48;EPPR=1334.12;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9482;MQMR=59.9967;NS=21;NUMALT=1;ODDS=9.00169;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82434;QR=21983;RO=613;RPL=2318;RPP=5036.48;RPPR=1334.12;RPR=0;RUN=1;SAF=0;SAP=5036.48;SAR=2318;SRF=0;SRP=1334.12;SRR=613;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:0,178:0:0:178:6319:-568.448,-53.5833,0 1/1:75:0,75:0:0:75:2667:-240.258,-22.5773,0 1/1:161:0,161:0:0:161:5725:-515.366,-48.4658,0 0/1:161:81,80:81:2912:80:2852:-208.453,0,-213.849 1/1:345:9,336:9:320:336:11995:-1050.26,-74.713,0 0/1:118:60,58:60:2152:58:2067:-150.779,0,-158.426 0/1:268:139,129:139:4988:129:4557:-329.625,0,-368.391 0/0:108:108,0:108:3868:0:0:0,-32.5112,-348.314 1/1:262:1,261:1:36:261:9304:-833.734,-75.2716,0 1/1:29:0,29:0:0:29:1044:-94.2617,-8.72987,0 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:41:20,21:20:716:21:752:-55.6607,0,-52.4255 0/1:196:100,96:100:3584:96:3410:-248.072,0,-263.765 1/1:217:0,217:0:0:217:7710:-693.928,-65.3235,0 1/1:173:0,173:0:0:173:6153:-553.865,-52.0782,0 1/1:101:0,101:0:0:101:3603:-324.477,-30.404,0 1/1:81:0,81:0:0:81:2865:-258.089,-24.3834,0 0/1:97:60,37:60:2147:37:1306:-88.6294,0,-164.297 0/1:87:29,58:29:1044:58:2039:-157.575,0,-68.0852 1/1:154:1,153:1:36:153:5439:-486.044,-42.7603,0 1/1:67:0,67:0:0:67:2375:-214.008,-20.169,0 chr11 29404011 . A G 51010.5 PASS AB=0.544542;ABP=16.7448;AC=32;AF=0.761905;AN=42;AO=1973;CIGAR=1X;DP=2495;DPB=2495;DPRA=0;EPP=1522.52;EPPR=151.892;GTI=1;LEN=1;MEANALT=1.04762;MQM=50.3396;MQMR=59.929;NS=21;NUMALT=1;ODDS=1.38698;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70470;QR=18624;RO=521;RPL=1574;RPP=1522.52;RPPR=151.892;RPR=399;RUN=1;SAF=0;SAP=4287.33;SAR=1973;SRF=0;SRP=1134.35;SRR=521;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:114:2,112:2:72:112:3987:-348.785,-27.4807,0 1/1:76:0,76:0:0:76:2715:-243.35,-22.8783,0 1/1:126:1,125:1:36:125:4476:-397.044,-34.3315,0 0/1:158:64,94:64:2296:94:3337:-250.591,0,-159.303 1/1:277:1,276:1:36:276:9861:-878.294,-79.787,0 0/1:103:52,51:52:1843:51:1820:-132.7,0,-135.143 0/1:167:73,94:73:2595:94:3356:-250.369,0,-183.527 0/0:153:152,1:152:5456:1:36:0,-42.4593,-487.341 1/1:225:1,224:1:36:224:8024:-715.543,-64.1335,0 1/1:8:0,8:0:0:8:288:-26.1813,-2.40824,0 0/1:5:2,3:2:63:3:100:-7.80773,0,-4.478 0/1:15:8,7:8:288:7:252:-18.438,0,-21.752 0/1:185:97,88:97:3472:88:3156:-226.859,0,-257.001 1/1:129:0,129:0:0:129:4572:-408.522,-38.8329,0 1/1:208:0,208:0:0:208:7421:-662.767,-62.6142,0 1/1:104:0,104:0:0:104:3719:-333.386,-31.3071,0 1/1:74:0,74:0:0:74:2647:-237.798,-22.2762,0 0/1:92:47,45:47:1684:45:1612:-116.461,0,-124.152 0/1:72:20,52:20:711:52:1864:-145.487,0,-42.6415 1/1:149:1,148:1:36:148:5287:-469.123,-41.2552,0 1/1:55:0,54:0:0:54:1940:-173.88,-16.2556,0 chr11 29404026 . GGATTAA AGATTTAA,AGATTAA 54264.5 PASS AB=0.53598,0.456576;ABP=12.0734,16.2116;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1966,531;CIGAR=1X2M1I4M,1X6M;DP=2519;DPB=2802.57;DPRA=0.752229,1.40545;EPP=4272.13,1156.06;EPPR=5.18177;GTI=0;LEN=8,1;MEANALT=2.4,2.64286;MQM=50.3998,59.9247;MQMR=60;NS=21;NUMALT=2;ODDS=0.268795;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=69761,19055;QR=32;RO=1;RPL=1966,531;RPP=4272.13,1156.06;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4272.13,1156.06;SAR=1966,531;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:115:0,112,2:0:0:112,2:3974,72:-354.322,-33.7154,0,-348.447,-27.806,-347.845 1/1:76:0,76,0:0:0:76,0:2709,0:-242.914,-22.8783,0,-242.914,-22.8783,-242.914 1/1:126:0,125,1:0:0:125,1:4434,36:-396.483,-37.6288,0,-393.546,-34.3315,-393.245 1/2:159:0,94,64:0:0:94,64:3309,2296:-454.476,-187.241,-158.944,-267.196,0,-247.93 1/1:275:0,272,1:0:0:272,1:9670,36:-865.115,-81.8802,0,-862.178,-78.9302,-861.877 1/2:101:0,48,53:0:0:48,53:1698,1908:-293.98,-156.043,-141.594,-138.293,0,-122.339 1/2:172:0,95,77:0:0:95,77:3361,2744:-496.029,-224.011,-195.414,-272.372,0,-249.193 2/2:157:0,0,157:0:0:0,157:0,5640:-507.491,-507.491,-507.491,-47.2617,-47.2617,0 1/1:228:0,227,1:0:0:227,1:8054,36:-721.869,-68.3338,0,-718.931,-65.0366,-718.63 1/1:8:0,8,0:0:0:8,0:288,0:-26.1813,-2.40824,0,-26.1813,-2.40824,-26.1813 1/2:5:0,3,2:0:0:3,2:107,72:-14.9274,-6.23466,-5.33157,-9.05085,0,-8.44879 1/2:15:0,7,8:0:0:7,8:252,288:-44.3462,-23.8592,-21.752,-20.8463,0,-18.438 1/2:190:0,89,98:0:0:89,98:3166,3524:-544.035,-287.54,-260.749,-256.523,0,-227.022 1/1:133:0,131,0:0:0:131,0:4629,0:-413.327,-39.4349,0,-413.327,-39.4349,-413.327 1/1:209:0,207,0:0:0:207,0:7350,0:-657.414,-62.3132,0,-657.414,-62.3132,-657.414 1/1:105:0,105,0:0:0:105,0:3727,0:-334.127,-31.6082,0,-334.127,-31.6082,-334.127 1/1:74:0,73,0:0:0:73,0:2583,0:-231.793,-21.9752,0,-231.793,-21.9752,-231.793 1/2:94:0,46,48:0:0:46,48:1622,1719:-271.595,-140.545,-126.698,-131.404,0,-116.954 1/2:70:0,50,18:0:0:50,18:1791,648:-198.238,-52.904,-37.8525,-145.363,0,-139.945 1/1:151:0,143,1:0:0:143,1:5083,36:-455.394,-43.0473,0,-452.457,-40.1053,-452.156 1/1:56:1,55,0:1:32:55,0:1954,0:-172.417,-13.6584,0,-172.718,-16.5567,-175.296 chr11 29432501 . G T 50418.3 PASS AB=0.478905;ABP=6.39998;AC=31;AF=0.738095;AN=42;AO=2306;CIGAR=1X;DP=2968;DPB=2968;DPRA=1.46469;EPP=5010.43;EPPR=1438.35;GTI=1;LEN=1;MEANALT=1.05263;MQM=59.8374;MQMR=59.9682;NS=21;NUMALT=1;ODDS=8.09247;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82447;QR=23564;RO=661;RPL=0;RPP=5010.43;RPPR=1438.35;RPR=2306;RUN=1;SAF=2306;SAP=5010.43;SAR=0;SRF=661;SRP=1438.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:208:0,208:0:0:208:7438:-669.433,-62.6142,0 1/1:131:0,131:0:0:131:4688:-422.045,-39.4349,0 1/1:188:0,188:0:0:188:6721:-604.859,-56.5936,0 0/1:164:94,70:94:3312:70:2500:-175.874,0,-248.926 1/1:326:0,326:0:0:326:11636:-1047.09,-98.1358,0 0/1:155:88,67:88:3155:67:2372:-167.063,0,-237.514 0/1:224:101,123:101:3605:123:4385:-327.376,0,-257.224 0/0:194:194,0:194:6938:0:0:0,-58.3998,-624.483 1/1:190:0,190:0:0:190:6824:-614.221,-57.1957,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:28:15,13:15:532:13:464:-33.6687,0,-39.7842 0/1:208:113,95:113:4033:95:3392:-242.873,0,-300.498 1/1:174:2,172:2:72:172:6160:-547.655,-45.5425,0 1/1:217:0,217:0:0:217:7777:-699.864,-65.3235,0 1/1:121:0,120:0:0:120:4304:-387.316,-36.1236,0 1/1:147:1,146:1:36:146:5232:-467.407,-40.6531,0 0/1:55:30,25:30:1065:25:891:-63.9475,0,-79.5985 0/1:43:16,27:16:564:27:961:-73.8584,0,-38.146 1/1:123:2,121:2:72:121:4290:-379.425,-30.19,0 1/1:60:0,60:0:0:60:2160:-194.667,-18.0618,0 chr11 29432515 . G A 49367.5 PASS AB=0.477117;ABP=6.98554;AC=31;AF=0.738095;AN=42;AO=2307;CIGAR=1X;DP=2972;DPB=2972;DPRA=1.43583;EPP=5012.6;EPPR=1395.39;GTI=1;LEN=1;MEANALT=1;MQM=59.8288;MQMR=59.991;NS=21;NUMALT=1;ODDS=7.74298;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=81275;QR=23781;RO=665;RPL=0;RPP=5012.6;RPPR=1395.39;RPR=2307;RUN=1;SAF=2307;SAP=5012.6;SAR=0;SRF=665;SRP=1447.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:211:0,211:0:0:211:7502:-675.201,-63.5173,0 1/1:132:0,132:0:0:132:4611:-415.13,-39.736,0 1/1:185:0,185:0:0:185:6476:-582.822,-55.6906,0 0/1:165:94,71:94:3361:71:2524:-177.733,0,-253.035 1/1:325:0,325:0:0:325:11501:-1034.94,-97.8348,0 0/1:154:90,64:90:3236:64:2245:-155.91,0,-245.102 0/1:223:101,122:101:3609:122:4312:-321.121,0,-257.885 0/0:198:198,0:198:7082:0:0:0,-59.6039,-637.437 1/1:190:0,190:0:0:190:6713:-604.25,-57.1957,0 1/1:7:0,7:0:0:7:248:-22.6642,-2.10721,0 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:28:15,13:15:540:13:468:-34.0308,0,-40.5077 0/1:206:112,94:112:3992:94:3348:-239.517,0,-297.457 1/1:172:2,170:2:72:170:5990:-532.371,-44.9404,0 1/1:216:0,216:0:0:216:7534:-678.019,-65.0225,0 1/1:124:0,124:0:0:124:4344:-391.129,-37.3277,0 1/1:148:1,147:1:36:147:5181:-462.833,-40.9542,0 0/1:55:30,25:30:1061:25:884:-63.3171,0,-79.2381 0/1:43:15,28:15:540:28:984:-75.9258,0,-35.9922 1/1:127:2,125:2:72:125:4377:-387.265,-31.3941,0 1/1:58:0,58:0:0:58:2033:-183.241,-17.4597,0 chr11 29432548 . GAA AAT 11782.9 PASS AB=0.514253;ABP=4.55781;AC=11;AF=0.261905;AN=42;AO=659;CIGAR=1X1M1X;DP=3011;DPB=3011;DPRA=0.781017;EPP=1434.01;EPPR=5088.6;GTI=1;LEN=3;MEANALT=1.33333;MQM=59.9681;MQMR=59.8595;NS=21;NUMALT=1;ODDS=9.42605;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22979;QR=80334;RO=2342;RPL=659;RPP=1434.01;RPPR=5088.6;RPR=0;RUN=1;SAF=659;SAP=1434.01;SAR=0;SRF=2342;SRP=5088.6;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:213:213,0:213:7360:0:0:0,-64.1194,-662.457 0/0:134:133,0:133:4585:0:0:0,-40.037,-412.505 0/0:189:188,0:188:6505:0:0:0,-56.5936,-585.271 0/1:165:71,93:71:2399:93:3262:-244.076,0,-166.439 0/0:332:330,0:330:11279:0:0:0,-99.3399,-1014.67 0/1:152:65,86:65:2245:86:3021:-226.467,0,-156.649 0/1:225:124,101:124:4275:101:3502:-247.664,0,-317.2 1/1:198:0,198:0:0:198:6874:-618.748,-59.6039,0 0/0:193:193,0:193:6644:0:0:0,-58.0988,-598.064 0/0:7:7,0:7:239:0:0:0,-2.10721,-21.8431 1/1:5:0,5:0:0:5:170:-15.634,-1.50515,0 0/1:28:13,15:13:433:15:530:-39.6039,0,-30.8603 0/1:210:95,113:95:3247:113:3952:-292.914,0,-229.531 0/0:175:173,2:173:5984:2:72:0,-45.8435,-531.848 0/0:220:219,0:219:7485:0:0:0,-65.9256,-673.322 0/0:126:125,0:125:4267:0:0:0,-37.6287,-383.975 0/0:151:150,1:150:5120:1:36:0,-41.8573,-457.36 0/1:54:26,28:26:868:28:979:-72.1616,0,-62.1655 0/1:43:28,15:28:938:15:517:-33.9118,0,-71.7778 0/0:130:128,2:128:4366:2:64:0,-33.0558,-387.041 0/0:61:61,0:61:2095:0:0:0,-18.3628,-188.819 chr11 29432552 . G T 50667.6 PASS AB=0.482599;ABP=5.2775;AC=31;AF=0.738095;AN=42;AO=2315;CIGAR=1X;DP=2967;DPB=2967;DPRA=1.45632;EPP=5029.97;EPPR=1416.64;GTI=1;LEN=1;MEANALT=1.05263;MQM=59.8484;MQMR=59.9677;NS=21;NUMALT=1;ODDS=9.33131;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82770;QR=23278;RO=651;RPL=2315;RPP=5029.97;RPPR=1416.64;RPR=0;RUN=1;SAF=2315;SAP=5029.97;SAR=0;SRF=651;SRP=1416.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:211:0,211:0:0:211:7537:-678.345,-63.5173,0 1/1:132:0,132:0:0:132:4706:-423.66,-39.736,0 1/1:186:0,186:0:0:186:6658:-599.261,-55.9916,0 0/1:161:91,70:91:3264:70:2504:-177.137,0,-245.514 1/1:327:0,327:0:0:327:11704:-1053.19,-98.4368,0 0/1:148:84,64:84:3012:64:2284:-161.259,0,-226.758 0/1:220:100,120:100:3576:120:4308:-321.652,0,-255.821 0/0:195:195,0:195:6980:0:0:0,-58.7008,-628.262 1/1:190:0,190:0:0:190:6793:-611.437,-57.1957,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/0:5:5,0:5:172:0:0:0,-1.50515,-15.818 0/1:28:15,13:15:536:13:468:-34.0308,0,-40.146 0/1:208:112,96:112:3978:96:3425:-245.843,0,-295.551 1/1:173:2,171:2:72:171:6133:-545.224,-45.2415,0 1/1:217:0,216:0:0:216:7738:-695.994,-65.0225,0 1/1:124:0,124:0:0:124:4424:-398.323,-37.3277,0 1/1:149:1,148:1:36:148:5257:-469.667,-41.2552,0 0/1:54:29,25:29:1040:25:887:-63.8879,0,-77.6569 0/1:43:15,28:15:540:28:1004:-77.7269,0,-35.9922 1/1:129:2,127:2:72:127:4536:-401.553,-31.9961,0 1/1:60:0,60:0:0:60:2152:-193.947,-18.0618,0 chr11 29469104 . A T 5825.24 PASS AB=0.493363;ABP=3.18325;AC=10;AF=0.238095;AN=42;AO=326;CIGAR=1X;DP=1298;DPB=1298;DPRA=1.01476;EPP=710.91;EPPR=2113.68;GTI=0;LEN=1;MEANALT=1;MQM=59.9632;MQMR=59.964;NS=21;NUMALT=1;ODDS=8.49383;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11648;QR=34641;RO=972;RPL=0;RPP=710.91;RPPR=2096.35;RPR=326;RUN=1;SAF=326;SAP=710.91;SAR=0;SRF=970;SRP=2096.35;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2292:0:0:0,-19.2659,-206.541 0/0:82:81,1:81:2885:1:32:0,-21.4851,-256.686 0/0:62:61,1:61:2173:1:36:0,-15.0656,-192.236 0/1:64:23,41:23:801:41:1464:-112.79,0,-53.1408 0/0:97:97,0:97:3465:0:0:0,-29.1999,-312.061 0/1:60:40,20:40:1417:20:708:-45.9838,0,-108.825 0/1:100:40,60:40:1420:60:2132:-162.046,0,-97.9944 1/1:101:3,98:3:108:98:3516:-306.574,-20.3289,0 0/0:104:104,0:104:3713:0:0:0,-31.3071,-334.371 0/0:8:8,0:8:273:0:0:0,-2.40824,-24.9002 0/1:14:7,7:7:252:7:252:-18.8145,0,-18.8145 0/1:31:22,9:22:762:9:324:-20.1739,0,-59.5631 0/1:72:37,35:37:1316:35:1256:-91.6711,0,-97.0676 0/0:86:85,1:85:3020:1:36:0,-22.2903,-268.434 0/0:82:82,0:82:2944:0:0:0,-24.6845,-265.193 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 0/0:46:46,0:46:1652:0:0:0,-13.8474,-148.968 0/1:62:26,36:26:928:36:1284:-97.1771,0,-65.1744 0/1:49:34,15:34:1204:15:536:-33.8243,0,-93.915 0/0:25:23,2:23:824:2:72:0,-0.689027,-67.6466 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 chr11 29469114 . G A 5845.07 PASS AB=0.480088;ABP=4.56684;AC=10;AF=0.238095;AN=42;AO=324;CIGAR=1X;DP=1293;DPB=1293;DPRA=1.00845;EPP=706.567;EPPR=2105;GTI=0;LEN=1;MEANALT=1.09091;MQM=59.9506;MQMR=59.999;NS=21;NUMALT=1;ODDS=8.46208;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11517;QR=34555;RO=968;RPL=0;RPP=706.567;RPPR=2105;RPR=324;RUN=1;SAF=324;SAP=706.567;SAR=0;SRF=968;SRP=2105;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:63,1:63:2252:1:32:0,-16.0666,-199.744 0/0:82:82,0:82:2936:0:0:0,-24.6845,-264.474 0/0:60:58,2:58:2080:2:72:0,-11.2251,-180.634 0/1:60:23,37:23:824:37:1332:-102.121,0,-56.4215 0/0:97:97,0:97:3476:0:0:0,-29.1999,-313.051 0/1:62:41,21:41:1464:21:752:-49.3424,0,-113.392 0/1:99:42,57:42:1508:57:2032:-153.351,0,-106.213 1/1:104:0,104:0:0:104:3663:-329.871,-31.3071,0 0/0:103:103,0:103:3673:0:0:0,-31.0061,-330.773 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:16:9,7:9:324:7:252:-18.2125,0,-24.6894 0/1:33:24,9:24:852:9:309:-18.2067,0,-67.0664 0/1:73:39,34:39:1400:34:1209:-87.1389,0,-104.324 0/0:80:80,0:80:2837:0:0:0,-24.0824,-255.568 0/0:84:84,0:84:2997:0:0:0,-25.2865,-269.961 0/0:39:39,0:39:1362:0:0:0,-11.7402,-122.874 0/0:44:44,0:44:1564:0:0:0,-13.2453,-141.052 0/1:61:22,38:22:792:38:1360:-104.257,0,-53.184 0/1:48:34,14:34:1198:14:504:-31.2487,0,-93.6741 0/0:26:26,0:26:932:0:0:0,-7.82678,-84.1989 0/0:50:50,0:50:1796:0:0:0,-15.0515,-161.922 chr11 29500019 . C T 26765.7 PASS AB=0.494253;ABP=3.18502;AC=32;AF=0.761905;AN=42;AO=1247;CIGAR=1X;DP=1734;DPB=1734;DPRA=0.451156;EPP=2710.84;EPPR=1058.35;GTI=0;LEN=1;MEANALT=1.05;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.22922;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44622;QR=17340;RO=486;RPL=0;RPP=2710.84;RPPR=1058.35;RPR=1247;RUN=1;SAF=1247;SAP=2710.84;SAR=0;SRF=486;SRP=1058.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:87:0,87:0:0:87:3124:-281.386,-26.1896,0 1/1:64:0,64:0:0:64:2299:-207.171,-19.2659,0 1/1:92:0,92:0:0:92:3302:-297.398,-27.6948,0 0/1:68:35,33:35:1248:33:1173:-85.4055,0,-92.1548 1/1:225:3,221:3:108:221:7884:-699.549,-57.603,0 0/1:69:30,39:30:1068:39:1404:-105.888,0,-75.661 0/1:130:73,57:73:2620:57:2033:-144.107,0,-196.913 0/0:173:173,0:173:6175:0:0:0,-52.0782,-555.85 1/1:108:0,108:0:0:108:3852:-346.875,-32.5112,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:11:5,6:5:180:6:212:-16.1135,0,-13.2407 0/1:25:11,14:11:396:14:500:-37.8104,0,-28.457 0/1:118:68,50:68:2424:50:1787:-125.59,0,-182.895 1/1:86:0,86:0:0:86:3076:-277.069,-25.8886,0 1/1:58:0,58:0:0:58:2075:-187.02,-17.4597,0 1/1:32:0,32:0:0:32:1152:-103.99,-9.63296,0 1/1:42:0,42:0:0:42:1512:-136.375,-12.6433,0 0/1:117:64,53:64:2278:53:1900:-136.057,0,-170.06 0/1:71:22,49:22:771:49:1739:-135.421,0,-48.3372 1/1:89:1,88:1:36:88:3151:-280.216,-23.1934,0 1/1:55:1,54:1:36:54:1943:-171.548,-12.9584,0 chr11 29591137 . T A 30012.3 PASS AB=0.520938;ABP=5.28362;AC=32;AF=0.761905;AN=42;AO=1390;CIGAR=1X;DP=1747;DPB=1747;DPRA=1.33651;EPP=3021.36;EPPR=778.226;GTI=0;LEN=1;MEANALT=1;MQM=59.9827;MQMR=60;NS=21;NUMALT=1;ODDS=4.13862;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49701;QR=12765;RO=357;RPL=0;RPP=3021.36;RPPR=778.226;RPR=1390;RUN=1;SAF=1390;SAP=3021.36;SAR=0;SRF=357;SRP=778.226;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,104:0:0:104:3736:-336.439,-31.3071,0 1/1:43:0,43:0:0:43:1533:-138.261,-12.9443,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 0/1:64:38,26:38:1352:26:932:-64.9329,0,-102.714 1/1:174:3,171:3:108:171:6091:-538.215,-42.3041,0 0/1:68:44,24:44:1580:24:856:-56.8911,0,-122.022 0/1:114:55,59:55:1968:59:2109:-155.76,0,-143.078 0/0:63:63,0:63:2248:0:0:0,-18.9649,-202.584 1/1:154:0,154:0:0:154:5525:-497.372,-46.3586,0 1/1:27:0,27:0:0:27:972:-87.7979,-8.12781,0 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/1:35:18,17:18:648:17:612:-44.8774,0,-48.1158 0/1:58:28,30:28:1008:30:1080:-80.0535,0,-73.5766 1/1:65:0,65:0:0:65:2306:-207.798,-19.567,0 1/1:167:0,167:0:0:167:5987:-538.933,-50.272,0 1/1:81:0,81:0:0:81:2900:-260.966,-24.3834,0 1/1:80:0,80:0:0:80:2819:-253.946,-24.0824,0 0/1:118:55,63:55:1976:63:2249:-167.15,0,-142.593 0/1:135:45,90:45:1593:90:3236:-250.822,0,-103.019 1/1:93:5,88:5:180:88:3149:-267.081,-11.4437,0 1/1:58:0,58:0:0:58:2069:-186.479,-17.4597,0 chr11 29591945 . G A 2928.53 PASS AB=0.302281;ABP=181.616;AC=7;AF=0.166667;AN=42;AO=214;CIGAR=1X;DP=1962;DPB=1962;DPRA=1.40854;EPP=467.705;EPPR=2926.24;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=59.9914;NS=21;NUMALT=1;ODDS=10.4527;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7473;QR=61547;RO=1748;RPL=0;RPP=467.705;RPPR=250.116;RPR=214;RUN=1;SAF=0;SAP=467.705;SAR=214;SRF=758;SRP=69.8738;SRR=990;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:118:118,0:118:4126:0:0:0,-35.5215,-371.528 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/0:87:87,0:87:3073:0:0:0,-26.1896,-276.797 0/1:121:63,58:63:2174:58:2028:-146.366,0,-159.497 0/0:246:241,5:241:8409:5:171:0,-58.3279,-741.106 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1529 1/1:49:0,49:0:0:49:1732:-156.165,-14.7505,0 0/0:190:190,0:190:6702:0:0:0,-57.1957,-603.263 0/0:26:26,0:26:924:0:0:0,-7.82678,-83.4777 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:18:11,7:11:388:7:240:-16.5161,0,-29.8388 0/1:124:65,59:65:2264:59:2047:-147.172,0,-166.692 0/0:90:89,1:89:3158:1:36:0,-23.4944,-280.847 0/0:204:204,0:204:7131:0:0:0,-61.4101,-641.858 0/0:56:56,0:56:1977:0:0:0,-16.8577,-178.203 0/0:59:59,0:59:2079:0:0:0,-17.7608,-187.38 0/1:138:120,18:120:4262:18:628:-15.3033,0,-342.219 0/1:125:108,17:108:3787:17:591:-15.8865,0,-303.38 0/0:185:185,0:185:6580:0:0:0,-55.6905,-592.287 0/0:49:49,0:49:1745:0:0:0,-14.7505,-157.332 chr11 29592127 . C A 12062.6 PASS AB=0.549407;ABP=8.37461;AC=32;AF=0.761905;AN=42;AO=447;CIGAR=1X;DP=586;DPB=586;DPRA=1.28182;EPP=4.10332;EPPR=34.6451;GTI=0;LEN=1;MEANALT=1;MQM=54.6152;MQMR=60;NS=21;NUMALT=1;ODDS=6.79354;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15927;QR=4899;RO=139;RPL=6;RPP=922.243;RPPR=296.222;RPR=441;RUN=1;SAF=237;SAP=6.55169;SAR=210;SRF=48;SRP=31.8956;SRR=91;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:23:1,22:1:36:22:788:-67.594,-3.32542,0 1/1:21:0,21:0:0:21:752:-67.6189,-6.32163,0 1/1:17:0,17:0:0:17:599:-54.197,-5.11751,0 0/1:24:11,13:11:396:13:464:-34.839,0,-28.758 1/1:38:0,38:0:0:38:1346:-121.087,-11.4391,0 0/1:13:6,7:6:216:7:237:-17.7104,0,-15.8771 0/1:31:14,17:14:467:17:612:-45.9809,0,-33.0149 0/0:22:22,0:22:779:0:0:0,-6.62266,-70.4321 1/1:43:0,43:0:0:43:1535:-138.391,-12.9443,0 1/1:9:0,9:0:0:9:305:-26.7162,-2.70927,0 0/1:4:3,1:3:108:1:36:-2.39045,0,-8.87105 0/1:9:4,5:4:144:5:180:-13.8193,0,-10.6043 0/1:27:13,14:13:464:14:491:-36.3622,0,-33.9697 1/1:23:1,22:1:36:22:792:-67.786,-3.32542,0 1/1:27:0,27:0:0:27:955:-86.1117,-8.12781,0 1/1:22:0,22:0:0:22:788:-71.17,-6.62266,0 1/1:12:0,12:0:0:12:432:-39.2102,-3.61236,0 0/1:95:46,49:46:1636:49:1751:-128.743,0,-118.931 0/1:50:17,33:17:581:33:1176:-90.7413,0,-37.559 1/1:17:0,17:0:0:17:608:-54.8373,-5.11751,0 1/1:59:1,58:1:36:58:2080:-183.193,-14.1625,0 chr11 29592134 . A C 11651 PASS AB=0.542857;ABP=6.91895;AC=32;AF=0.761905;AN=42;AO=439;CIGAR=1X;DP=577;DPB=577;DPRA=1.20435;EPP=956.287;EPPR=302.673;GTI=0;LEN=1;MEANALT=1;MQM=54.7198;MQMR=60;NS=21;NUMALT=1;ODDS=6.57904;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15552;QR=4922;RO=138;RPL=235;RPP=7.7638;RPPR=36.3062;RPR=204;RUN=1;SAF=235;SAP=7.7638;SAR=204;SRF=46;SRP=36.3062;SRR=92;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:23:1,22:1:36:22:784:-67.2345,-3.32542,0 1/1:20:0,20:0:0:20:703:-63.277,-6.0206,0 1/1:17:0,17:0:0:17:603:-54.5571,-5.11751,0 0/1:24:11,13:11:392:13:460:-34.4797,0,-28.3953 1/1:38:0,38:0:0:38:1356:-121.997,-11.4391,0 0/1:13:7,6:7:252:6:216:-15.8421,0,-19.1156 0/1:30:13,17:13:460:17:608:-45.9225,0,-32.7045 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 1/1:44:0,44:0:0:44:1572:-141.661,-13.2453,0 1/1:7:0,7:0:0:7:229:-20.9067,-2.10721,0 0/1:4:3,1:3:108:1:36:-2.39045,0,-8.87105 0/1:9:4,5:4:140:5:161:-12.0812,0,-10.2353 0/1:27:13,14:13:468:14:500:-37.1746,0,-34.3318 1/1:23:1,22:1:36:22:784:-67.0671,-3.32542,0 1/1:26:0,26:0:0:26:919:-82.9439,-7.82678,0 1/1:22:0,22:0:0:22:792:-71.5303,-6.62266,0 1/1:12:0,12:0:0:12:428:-38.8484,-3.61236,0 0/1:90:45,45:45:1607:45:1571:-114.13,0,-117.827 0/1:48:16,32:16:563:32:1148:-88.825,0,-36.5497 1/1:18:0,18:0:0:18:636:-57.3622,-5.41854,0 1/1:59:1,58:1:36:58:2046:-180.152,-14.1625,0 chr11 29592155 . CCCG ACCA 11630.6 PASS AB=0.53937;ABP=6.42994;AC=32;AF=0.761905;AN=42;AO=443;CIGAR=1X2M1X;DP=587;DPB=590;DPRA=1.22609;EPP=5.17197;EPPR=35.8306;GTI=0;LEN=4;MEANALT=1.2;MQM=54.5553;MQMR=60;NS=21;NUMALT=1;ODDS=6.56058;PAIRED=0;PAIREDR=0;PAO=4;PQA=118;PQR=136;PRO=4;QA=15587;QR=4916;RO=140;RPL=443;RPP=964.973;RPPR=307.016;RPR=0;RUN=1;SAF=232;SAP=5.17197;SAR=211;SRF=47;SRP=35.8306;SRR=93;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:23:1,22:1:36:22:766:-65.6158,-3.32542,0 1/1:22:0,22:0:0:22:768:-69.0683,-6.62266,0 1/1:16:0,16:0:0:16:567:-51.3219,-4.81648,0 0/1:24:10,14:10:359:14:499:-37.9864,0,-25.4289 1/1:37:0,37:0:0:37:1291:-115.804,-11.1381,0 0/1:14:6,7:6:215:7:246:-18.2087,0,-15.4604 0/1:32:15,17:15:511:17:604:-44.9628,0,-36.6791 0/0:23:23,0:23:799:0:0:0,-6.92369,-72.2266 1/1:45:0,44:0:0:44:1562:-140.55,-13.2453,0 1/1:9:0,9:0:0:9:307:-26.8956,-2.70927,0 0/1:4:3,1:3:107:1:36:-2.39045,0,-8.77805 0/1:9:4,5:4:129:5:179:-13.7286,0,-9.21871 0/1:26:13,13:13:457:13:461:-33.7112,0,-33.382 1/1:22:1,21:1:36:21:735:-62.6766,-3.37424,0 1/1:26:0,26:0:0:26:923:-83.3045,-7.82678,0 1/1:22:0,22:0:0:22:779:-70.37,-6.62266,0 1/1:12:0,12:0:0:12:431:-39.1199,-3.61236,0 0/1:95:46,49:46:1630:49:1740:-127.795,0,-118.391 0/1:50:17,31:17:601:31:1062:-80.9095,0,-39.6426 1/1:17:0,17:0:0:17:595:-53.3173,-5.11751,0 1/1:59:1,58:1:36:58:2036:-179.313,-14.1625,0 chr11 29637186 . TCCT CCCT 4624.19 PASS AB=0.582173;ABP=24.0657;AC=10;AF=0.238095;AN=42;AO=255;CIGAR=1X3M;DP=1035;DPB=1035;DPRA=1.08522;EPP=556.736;EPPR=1683.73;GTI=0;LEN=1;MEANALT=1.3;MQM=60;MQMR=59.9638;NS=21;NUMALT=1;ODDS=3.95417;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9110;QR=26636;RO=774;RPL=0;RPP=556.736;RPPR=1683.73;RPR=255;RUN=1;SAF=255;SAP=556.736;SAR=0;SRF=774;SRP=1683.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:25,0:25:880:0:0:0,-7.52575,-79.5184 0/0:34:34,0:34:1171:0:0:0,-10.235,-105.693 0/0:49:49,0:49:1704:0:0:0,-14.7505,-153.643 0/1:62:36,25:36:1263:25:887:-61.4257,0,-95.2496 0/0:107:106,1:106:3659:1:36:0,-28.6119,-325.923 0/1:18:12,5:12:412:5:169:-10.1428,0,-32.0154 0/1:98:32,66:32:1101:66:2363:-183.427,0,-69.8937 1/1:48:0,45:0:0:45:1608:-144.653,-13.5464,0 0/0:78:78,0:78:2674:0:0:0,-23.4803,-240.908 0/0:13:13,0:13:447:0:0:0,-3.91339,-40.5576 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:20:8,12:8:267:12:424:-32.4758,0,-18.3342 0/1:49:13,36:13:450:36:1296:-102.193,0,-26.0798 0/0:52:51,0:51:1713:0:0:0,-15.3525,-153.997 0/0:111:111,0:111:3852:0:0:0,-33.4143,-346.886 0/0:38:38,0:38:1309:0:0:0,-11.4391,-118.107 0/0:57:57,0:57:1929:0:0:0,-17.1587,-173.883 0/1:68:23,45:23:786:45:1607:-124.449,0,-50.5847 0/1:39:23,16:23:792:16:576:-40.4348,0,-59.8549 0/0:31:31,0:31:1061:0:0:0,-9.33193,-95.7948 0/0:33:33,0:33:1130:0:0:0,-9.93399,-102.002 chr11 29890883 . AA GC 31001.4 PASS AB=0.583643;ABP=35.7035;AC=33;AF=0.785714;AN=42;AO=1446;CIGAR=2X;DP=1776;DPB=1776.5;DPRA=0.915217;EPP=3142.96;EPPR=717.425;GTI=0;LEN=2;MEANALT=1;MQM=59.5277;MQMR=59.9088;NS=21;NUMALT=1;ODDS=17.4736;PAIRED=0;PAIREDR=0;PAO=1;PQA=32;PQR=0;PRO=0;QA=51313;QR=11547;RO=329;RPL=1446;RPP=3142.96;RPPR=717.425;RPR=0;RUN=1;SAF=0;SAP=3142.96;SAR=1446;SRF=0;SRP=717.425;SRR=329;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:102:0,102:0:0:102:3593:-322.965,-30.7051,0 1/1:112:0,112:0:0:112:3950:-355.3,-33.7154,0 1/1:78:1,77:1:36:77:2743:-243.533,-20.2219,0 0/1:62:29,33:29:1014:33:1158:-85.7899,0,-72.2769 1/1:157:9,148:9:302:148:5275:-447.249,-19.7574,0 0/1:75:21,54:21:728:54:1938:-152.119,0,-43.2607 0/1:91:42,49:42:1504:49:1756:-130.773,0,-108.261 0/0:92:91,0:91:3186:0:0:0,-27.3937,-286.602 1/1:79:0,79:0:0:79:2817:-253.762,-23.7814,0 1/1:22:0,22:0:0:22:770:-69.3849,-6.62266,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:63:26,37:26:932:37:1330:-101.033,0,-65.234 0/1:67:36,31:36:1235:31:1099:-79.038,0,-91.2763 1/1:104:0,104:0:0:104:3649:-328.555,-31.3071,0 1/1:139:0,139:0:0:139:4951:-445.697,-41.8432,0 1/1:72:0,72:0:0:72:2554:-230.09,-21.6742,0 1/1:96:0,96:0:0:96:3386:-304.704,-28.8989,0 0/1:111:48,63:48:1713:63:2216:-166.273,0,-121.041 0/1:69:22,47:22:753:47:1674:-130.174,0,-47.3124 1/1:128:4,124:4:144:124:4427:-385.271,-25.2182,0 1/1:52:0,52:0:0:52:1847:-166.08,-15.6536,0 chr11 29920114 . AACC GACT 10643.6 PASS AB=0.472765;ABP=9.27923;AC=10;AF=0.238095;AN=42;AO=610;CIGAR=1X2M1X;DP=2618;DPB=2618;DPRA=1.54713;EPP=1327.61;EPPR=4296.12;GTI=0;LEN=4;MEANALT=1.53846;MQM=59.6164;MQMR=59.9564;NS=21;NUMALT=1;ODDS=17.3125;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21649;QR=70543;RO=1997;RPL=0;RPP=1327.61;RPPR=4296.12;RPR=610;RUN=1;SAF=0;SAP=1327.61;SAR=610;SRF=0;SRP=4339.44;SRR=1997;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:174:174,0:174:6153:0:0:0,-52.3792,-552.857 0/0:85:84,1:84:2981:1:36:0,-21.9893,-264.926 0/0:88:88,0:88:3111:0:0:0,-26.4906,-280.216 0/1:215:119,95:119:4210:95:3327:-234.827,0,-313.285 0/0:322:315,7:315:11114:7:249:0,-74.1761,-977.412 0/1:186:86,100:86:3057:100:3560:-264.602,0,-219.368 0/1:188:100,88:100:3522:88:3115:-223.841,0,-260.597 1/1:140:0,140:0:0:140:4987:-448.947,-42.1442,0 0/0:212:209,1:209:7418:1:36:0,-59.9778,-664.044 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:11:4,7:4:144:7:252:-19.7176,0,-10.0023 0/1:36:13,21:13:460:21:746:-56.8651,0,-31.141 0/1:204:116,87:116:4079:87:3094:-217.328,0,-305.959 0/0:143:142,0:142:5001:0:0:0,-42.7463,-449.882 0/0:141:140,1:140:4960:1:36:0,-38.847,-442.954 0/0:80:79,0:79:2785:0:0:0,-23.7814,-250.531 0/0:116:116,0:116:4101:0:0:0,-34.9195,-369.28 0/1:52:24,27:24:833:27:960:-71.0038,0,-59.5744 0/1:81:45,35:45:1593:35:1251:-88.5501,0,-119.324 0/0:90:89,0:89:3125:0:0:0,-26.7917,-281.117 0/0:42:42,0:42:1464:0:0:0,-12.6433,-132.053 chr11 29920810 . T C 5656.01 PASS AB=0.39485;ABP=70.1396;AC=10;AF=0.238095;AN=42;AO=347;CIGAR=1X;DP=1836;DPB=1836;DPRA=1.29289;EPP=756.511;EPPR=3227.65;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=10.5529;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12426;QR=53428;RO=1489;RPL=0;RPP=756.511;RPPR=3236.33;RPR=347;RUN=1;SAF=347;SAP=756.511;SAR=0;SRF=1488;SRP=3227.65;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:38,0:38:1364:0:0:0,-11.4391,-123.061 0/0:116:116,0:116:4172:0:0:0,-34.9195,-375.66 0/0:48:48,0:48:1724:0:0:0,-14.4494,-155.445 0/1:73:50,23:50:1792:23:824:-52.5081,0,-139.587 0/0:222:221,1:221:7924:1:36:0,-63.2304,-709.584 0/1:82:48,34:48:1724:34:1220:-85.4223,0,-130.761 0/1:188:95,93:95:3408:93:3326:-242.964,0,-250.34 1/1:71:1,70:1:36:70:2508:-222.374,-17.7749,0 0/0:158:158,0:158:5672:0:0:0,-47.5627,-510.597 0/0:17:17,0:17:604:0:0:0,-5.11751,-54.6906 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:84:43,41:43:1548:41:1468:-107.13,0,-114.327 0/1:88:59,29:59:2104:29:1040:-67.4237,0,-163.139 0/0:87:87,0:87:3124:0:0:0,-26.1896,-281.386 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:99:99,0:99:3556:0:0:0,-29.802,-320.247 0/0:91:91,0:91:3260:0:0:0,-27.3937,-293.621 0/1:91:53,38:53:1908:38:1356:-94.9468,0,-144.604 0/1:86:69,17:69:2476:17:612:-29.5249,0,-197.205 0/0:103:103,0:103:3696:0:0:0,-31.0061,-332.842 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.516 chr11 29921206 . A G 33975.8 PASS AB=0.545008;ABP=13.761;AC=33;AF=0.785714;AN=42;AO=1571;CIGAR=1X;DP=1985;DPB=1985;DPRA=0.731496;EPP=3414.39;EPPR=899.828;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9828;MQMR=60;NS=21;NUMALT=1;ODDS=12.5308;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55744;QR=14729;RO=413;RPL=1568;RPP=3388.39;RPPR=891.164;RPR=3;RUN=1;SAF=1568;SAP=3388.39;SAR=3;SRF=412;SRP=891.164;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:1,123:1:36:123:4411:-393.563,-33.7294,0 1/1:70:1,69:1:36:69:2480:-219.855,-17.4738,0 1/1:162:0,162:0:0:162:5756:-518.158,-48.7669,0 0/1:97:45,52:45:1616:52:1825:-135.316,0,-116.53 1/1:167:2,164:2:72:164:5817:-516.856,-43.3942,0 0/1:63:39,24:39:1389:24:864:-59.1177,0,-106.342 0/1:160:67,93:67:2378:93:3313:-250.223,0,-166.11 0/0:127:127,0:127:4518:0:0:0,-38.2308,-406.787 1/1:142:1,141:1:36:141:4973:-444.12,-39.148,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 1/1:6:0,6:0:0:6:212:-19.4248,-1.80618,0 0/1:51:25,26:25:896:26:936:-69.2069,0,-65.6078 0/1:65:29,36:29:1036:36:1280:-95.9363,0,-73.987 1/1:203:1,202:1:36:202:7119:-637.162,-57.5108,0 1/1:134:0,134:0:0:134:4755:-428.11,-40.338,0 1/1:47:0,47:0:0:47:1650:-148.784,-14.1484,0 1/1:66:0,66:0:0:66:2344:-211.217,-19.868,0 0/1:108:51,57:51:1836:57:2004:-148.12,0,-133.009 0/1:67:22,45:22:772:45:1578:-122.141,0,-49.6323 1/1:71:0,71:0:0:71:2544:-229.211,-21.3731,0 1/1:45:2,43:2:72:43:1527:-130.886,-6.70963,0 chr11 29921320 . A G 4217.82 PASS AB=0.442105;ABP=14.0734;AC=10;AF=0.238095;AN=42;AO=242;CIGAR=1X;DP=1370;DPB=1370;DPRA=0.660844;EPP=528.507;EPPR=2452.43;GTI=1;LEN=1;MEANALT=1;MQM=59.9835;MQMR=59.9867;NS=21;NUMALT=1;ODDS=2.71335;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8627;QR=40117;RO=1128;RPL=0;RPP=528.507;RPPR=2452.43;RPR=242;RUN=1;SAF=242;SAP=528.507;SAR=0;SRF=1128;SRP=2452.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:131:131,0:131:4649:0:0:0,-39.4349,-418.575 0/0:38:38,0:38:1360:0:0:0,-11.4391,-122.701 0/0:87:87,0:87:3081:0:0:0,-26.1896,-277.516 0/1:47:32,15:32:1148:15:540:-34.7881,0,-89.4814 0/0:128:128,0:128:4553:0:0:0,-38.5318,-409.919 0/1:66:44,22:44:1544:22:788:-51.3768,0,-119.381 0/1:80:47,33:47:1684:33:1169:-81.4337,0,-127.765 1/1:74:0,74:0:0:74:2652:-238.925,-22.2762,0 0/0:121:121,0:121:4291:0:0:0,-36.4246,-386.366 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:4:2,2:2:68:2:72:-5.6326,0,-5.25359 0/1:21:10,11:10:360:11:381:-28.299,0,-26.4227 0/1:78:37,41:37:1324:41:1470:-109.116,0,-95.9818 0/0:77:77,0:77:2673:0:0:0,-23.1793,-240.811 0/0:137:137,0:137:4878:0:0:0,-41.2411,-439.172 0/0:55:55,0:55:1968:0:0:0,-16.5566,-177.395 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/1:49:19,30:19:684:30:1080:-82.7628,0,-47.1399 0/1:35:21,14:21:756:14:475:-32.5374,0,-57.8312 0/0:59:59,0:59:2116:0:0:0,-17.7608,-190.709 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 chr11 29921338 . C T 5506.63 PASS AB=0.443005;ABP=13.9014;AC=10;AF=0.238095;AN=42;AO=245;CIGAR=1X;DP=1394;DPB=1394;DPRA=0.804845;EPP=76.4061;EPPR=1142.04;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9869;NS=21;NUMALT=1;ODDS=1.52869;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8712;QR=40879;RO=1148;RPL=77;RPP=76.4061;RPPR=1142.04;RPR=168;RUN=1;SAF=245;SAP=535.021;SAR=0;SRF=1148;SRP=2495.86;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:133,0:133:4725:0:0:0,-40.037,-425.411 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 0/0:87:87,0:87:3104:0:0:0,-26.1896,-279.588 0/1:47:32,15:32:1144:15:530:-33.8836,0,-89.1211 0/0:130:129,1:129:4577:1:36:0,-35.5356,-408.455 0/1:70:46,24:46:1644:24:856:-56.289,0,-127.177 0/1:81:48,33:48:1724:33:1160:-80.3205,0,-131.062 1/1:73:0,73:0:0:73:2614:-235.508,-21.9752,0 0/0:124:124,0:124:4419:0:0:0,-37.3277,-397.883 0/0:17:17,0:17:587:0:0:0,-5.11751,-53.1539 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:21:10,11:10:360:11:390:-29.1168,0,-26.4227 0/1:79:38,41:38:1368:41:1458:-107.734,0,-99.6395 0/0:77:77,0:77:2704:0:0:0,-23.1793,-243.605 0/0:141:141,0:141:5024:0:0:0,-42.4452,-452.307 0/0:53:53,0:53:1895:0:0:0,-15.9546,-170.827 0/0:50:49,0:49:1748:0:0:0,-14.7505,-157.382 0/1:50:19,31:19:680:31:1096:-83.8965,0,-46.4777 0/1:34:20,14:20:712:14:500:-35.1012,0,-54.1716 0/0:61:61,0:61:2184:0:0:0,-18.3628,-196.826 0/0:21:21,0:21:744:0:0:0,-6.32163,-67.2843 chr11 29921684 . T C 35946.4 PASS AB=0.538147;ABP=12.2879;AC=32;AF=0.761905;AN=42;AO=1668;CIGAR=1X;DP=2186;DPB=2186;DPRA=0.585465;EPP=3616.35;EPPR=1114.82;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9934;MQMR=59.9942;NS=21;NUMALT=1;ODDS=0.307219;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59366;QR=18420;RO=516;RPL=1667;RPP=3616.35;RPPR=1114.82;RPR=1;RUN=1;SAF=0;SAP=3625.03;SAR=1668;SRF=0;SRP=1123.49;SRR=516;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:106:2,104:2:72:104:3713:-327.532,-25.0725,0 1/1:83:1,81:1:36:81:2893:-257.006,-21.446,0 1/1:134:0,134:0:0:134:4797:-431.884,-40.338,0 0/1:106:38,68:38:1349:68:2391:-183.534,0,-89.7991 1/1:183:0,183:0:0:183:6527:-587.511,-55.0885,0 0/1:138:75,63:75:2677:63:2230:-159.419,0,-199.632 0/1:140:76,64:76:2732:64:2240:-159.713,0,-203.978 0/0:172:172,0:172:6105:0:0:0,-51.7772,-549.548 1/1:201:0,201:0:0:201:7169:-645.264,-60.507,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:9:1,8:1:36:8:288:-23.5581,0,-0.889005 0/1:32:20,12:20:705:12:428:-29.2258,0,-54.1398 0/1:124:49,75:49:1764:75:2669:-203.127,0,-121.716 1/1:128:1,126:1:36:126:4444:-396.532,-34.9924,0 1/1:101:0,101:0:0:101:3590:-323.306,-30.404,0 1/1:75:0,75:0:0:75:2666:-240.183,-22.5773,0 1/1:91:0,91:0:0:91:3242:-291.999,-27.3937,0 0/1:110:56,54:56:2008:54:1905:-138.61,0,-147.878 0/1:75:24,51:24:864:51:1825:-141.953,0,-55.5053 1/1:115:0,115:0:0:115:4117:-370.713,-34.6185,0 1/1:53:1,52:1:36:52:1872:-165.161,-12.3563,0 chr11 30166277 . ATAGA GTAGG,ATAGG 38890.1 PASS AB=0.598891,0.391867;ABP=48.9644,57.9554;AC=33,9;AF=0.785714,0.214286;AN=42;AO=1142,266;CIGAR=1X3M1X,4M1X;DP=1417;DPB=1417;DPRA=1.23818,1.17966;EPP=3.01791,3.14091;EPPR=7.35324;GTI=0;LEN=5,1;MEANALT=1.65,2.5;MQM=59.852,59.7143;MQMR=60;NS=21;NUMALT=2;ODDS=12.5885;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40154,9461;QR=66;RO=2;RPL=12,4;RPP=2379.7,546.401;RPPR=7.35324;RPR=1130,262;RUN=1,1;SAF=582,137;SAP=3.93061,3.53276;SAR=560,129;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,70,0:0:0:70,0:2471,0:-222.644,-21.0721,0,-222.644,-21.0721,-222.644 1/1:62:0,61,0:0:0:61,0:2138,0:-192.326,-18.3628,0,-192.326,-18.3628,-192.326 1/1:40:0,40,0:0:0:40,0:1412,0:-127.378,-12.0412,0,-127.378,-12.0412,-127.378 1/2:61:0,49,12:0:0:49,12:1726,432:-176.116,-35.6065,-20.856,-140.868,0,-137.256 1/1:92:0,92,0:0:0:92,0:3216,0:-289.157,-27.6948,0,-289.157,-27.6948,-289.157 1/2:84:0,52,31:0:0:52,31:1837,1106:-239.747,-90.1455,-74.492,-149.597,0,-140.265 1/2:95:1,52,41:1:30:52,41:1814,1445:-262.491,-115.259,-102.002,-145.156,0,-135.211 2/2:55:0,0,54:0:0:0,54:0,1908:-171.624,-171.624,-171.624,-16.2556,-16.2556,0 1/1:127:0,127,0:0:0:127,0:4435,0:-399.328,-38.2308,0,-399.328,-38.2308,-399.328 1/1:8:0,8,0:0:0:8,0:287,0:-26.1765,-2.40824,0,-26.1765,-2.40824,-26.1765 1/1:4:0,4,0:0:0:4,0:134,0:-12.3909,-1.20412,0,-12.3909,-1.20412,-12.3909 1/2:30:0,15,15:0:0:15,15:532,532:-87.0412,-43.6976,-39.1822,-43.6981,0,-39.1826 1/2:81:0,40,40:0:0:40,40:1404,1431:-230.933,-116.682,-104.64,-114.247,0,-102.205 1/1:66:0,66,0:0:0:66,0:2273,0:-204.83,-19.868,0,-204.83,-19.868,-204.83 1/1:88:0,87,0:0:0:87,0:3078,0:-276.89,-26.1896,0,-276.89,-26.1896,-276.89 1/1:30:0,30,0:0:0:30,0:1060,0:-95.7111,-9.0309,0,-95.7111,-9.0309,-95.7111 1/1:34:0,34,0:0:0:34,0:1212,0:-109.386,-10.235,0,-109.386,-10.235,-109.386 1/2:86:0,43,42:0:0:43,42:1523,1495:-246,-121.934,-108.989,-124.158,0,-111.514 1/2:104:0,73,31:0:0:73,31:2574,1112:-300.607,-91.0512,-69.0761,-209.912,0,-200.58 1/1:66:0,66,0:0:0:66,0:2327,0:-209.559,-19.868,0,-209.559,-19.868,-209.559 1/1:134:1,133,0:1:36:133,0:4701,0:-419.632,-36.7397,0,-419.933,-40.037,-422.871 chr11 30172280 . A T 45543.3 PASS AB=0.503185;ABP=3.07946;AC=32;AF=0.761905;AN=42;AO=2088;CIGAR=1X;DP=2596;DPB=2596;DPRA=1.13;EPP=4537.04;EPPR=1106.12;GTI=0;LEN=1;MEANALT=1;MQM=59.9732;MQMR=60;NS=21;NUMALT=1;ODDS=17.9733;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=74648;QR=18185;RO=508;RPL=2088;RPP=4537.04;RPPR=1106.12;RPR=0;RUN=1;SAF=0;SAP=4537.04;SAR=2088;SRF=0;SRP=1106.12;SRR=508;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:145:0,145:0:0:145:5176:-465.979,-43.6494,0 1/1:136:0,136:0:0:136:4853:-436.921,-40.9401,0 1/1:132:2,130:2:72:130:4657:-412.453,-32.8992,0 0/1:133:75,58:75:2692:58:2080:-147.433,0,-202.487 1/1:215:3,212:3:108:212:7558:-670.155,-54.6463,0 0/1:117:48,69:48:1724:69:2472:-187.513,0,-120.225 0/1:151:97,54:97:3463:54:1936:-129.056,0,-266.427 0/0:110:110,0:110:3952:0:0:0,-33.1133,-355.87 1/1:169:1,168:1:36:168:6001:-536.597,-47.2758,0 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 0/1:18:8,10:8:288:10:356:-26.9627,0,-20.8489 0/1:48:23,25:23:824:25:900:-66.8716,0,-60.0339 0/1:122:60,62:60:2140:62:2213:-162.707,0,-156.142 1/1:141:0,141:0:0:141:5026:-452.485,-42.4452,0 1/1:298:0,298:0:0:298:10646:-958.05,-89.7069,0 1/1:130:0,130:0:0:130:4657:-419.29,-39.1339,0 1/1:90:0,90:0:0:90:3224:-290.382,-27.0927,0 0/1:120:58,62:58:2070:62:2220:-163.94,0,-150.446 0/1:76:21,55:21:744:55:1967:-154.426,0,-44.406 1/1:145:2,143:2:72:143:5136:-455.498,-36.8126,0 1/1:72:0,72:0:0:72:2570:-231.55,-21.6742,0 chr11 30181525 . CTC CTTC,CTTA 156221 PASS AB=0.496305,0.499261;ABP=3.41147,3.02635;AC=32,10;AF=0.761905,0.238095;AN=42;AO=5581,2050;CIGAR=1M1I2M,1M1I1M1X;DP=7653;DPB=10199.7;DPRA=1.05274,3.26995;EPP=12104.6,4454.53;EPPR=16.0391;GTI=0;LEN=1,4;MEANALT=2.4,2.85714;MQM=42.0387,42.1107;MQMR=43.1667;NS=21;NUMALT=2;ODDS=21.2672;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=197014,72332;QR=216;RO=6;RPL=2,0;RPP=12104.6,4454.53;RPPR=16.0391;RPR=5579,2050;RUN=1,1;SAF=5581,2050;SAP=12122,4454.53;SAR=0,0;SRF=6;SRP=16.0391;SRR=0;TYPE=ins,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:148:0,148,0:0:0:148,0:5272,0:-461.583,-44.5524,0,-461.583,-44.5524,-461.583 1/1:106:0,105,1:0:0:105,1:3732,36:-327.041,-31.6082,0,-324.173,-28.3882,-323.872 1/1:125:0,122,3:0:0:122,3:4302,108:-376.429,-36.7257,0,-367.875,-27.8212,-366.972 1/2:107:0,57,49:0:0:57,49:2029,1725:-296.853,-136.358,-119.2,-160.489,0,-145.739 1/1:200:0,199,1:0:0:199,1:7039,28:-616.078,-59.905,0,-614.487,-58.1028,-614.186 1/2:81:0,40,41:0:0:40,41:1401,1456:-225.65,-114.745,-102.704,-111.247,0,-98.9046 1/2:134:1,50,83:1:36:50,83:1780,2925:-365.799,-224.244,-212.13,-138.903,0,-116.855 2/2:347:0,0,347:0:0:0,347:0,12200:-1064.41,-1064.41,-1064.41,-104.457,-104.457,0 1/1:270:0,270,0:0:0:270,0:9493,0:-825.195,-81.2781,0,-825.195,-81.2781,-825.195 1/1:2360:1,2350,7:1:36:2350,7:82949,247:-7279.47,-705.111,0,-7260.95,-688.543,-7261.16 1/2:1092:0,607,484:0:0:607,484:21440,17062:-3046.11,-1345.31,-1162.58,-1700.8,0,-1555.1 1/2:686:0,352,331:0:0:352,331:12449,11744:-1911.4,-926.074,-820.111,-985.426,0,-885.785 1/2:86:0,43,43:0:0:43,43:1482,1528:-237.328,-121.228,-108.284,-116.439,0,-103.495 1/1:164:0,164,0:0:0:164,0:5766,0:-505.505,-49.3689,0,-505.505,-49.3689,-505.505 1/1:217:2,215,0:2:72:215,0:7487,0:-646.194,-58.6684,0,-646.796,-64.7215,-652.499 1/1:76:0,76,0:0:0:76,0:2665,0:-231.922,-22.8783,0,-231.922,-22.8783,-231.922 1/1:117:0,115,2:0:0:115,2:4055,72:-352.673,-34.6185,0,-347.01,-28.6072,-346.408 1/2:1124:1,490,626:1:36:490,626:17376,22091:-3113.8,-1738.35,-1593.71,-1372.93,0,-1187.35 1/2:73:1,40,32:1:36:40,32:1409,1110:-195.153,-84.0719,-74.8825,-108.519,0,-101.738 1/1:88:0,87,0:0:0:87,0:3064,0:-268.837,-26.1896,0,-268.837,-26.1896,-268.837 1/1:52:0,51,0:0:0:51,0:1824,0:-160.818,-15.3525,0,-160.818,-15.3525,-160.818 chr11 30181535 . AAGCTTC CAACTGTC,AAACTGTC 159545 PASS AB=0.50403,0.48532;ABP=3.50035,9.51347;AC=32,10;AF=0.761905,0.238095;AN=42;AO=5863,2045;CIGAR=1X1M1X2M1I2M,2M1X2M1I2M;DP=7987;DPB=9124.14;DPRA=1.10419,2.74675;EPP=12734.4,4443.67;EPPR=5.18177;GTI=0;LEN=8,8;MEANALT=4.3,5.42857;MQM=41.9812,42.2054;MQMR=60;NS=21;NUMALT=2;ODDS=28.12;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=204038,71514;QR=36;RO=1;RPL=5863,2045;RPP=12734.4,4443.67;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=5863,2045;SAP=12734.4,4443.67;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:156:0,156,0:0:0:156,0:5436,0:-477.088,-46.9607,0,-477.088,-46.9607,-477.088 1/1:113:0,111,1:0:0:111,1:3877,36:-341.092,-33.4143,0,-338.224,-30.4998,-337.923 1/1:133:0,129,3:0:0:129,3:4533,108:-397.151,-38.8329,0,-388.597,-30.2053,-387.693 1/2:108:0,56,49:0:0:56,49:1980,1742:-294.301,-137.716,-120.858,-156.609,0,-141.859 1/1:218:0,217,0:0:0:217,0:7572,0:-663.43,-65.3235,0,-663.43,-65.3235,-663.43 1/2:83:0,42,40:0:0:42,40:1463,1394:-225.964,-110.045,-97.4015,-115.907,0,-103.866 1/2:135:1,51,81:1:36:51,81:1793,2819:-362.297,-220.255,-207.84,-139.491,0,-118.045 2/2:346:0,0,343:0:0:0,343:0,11960:-1049.79,-1049.79,-1049.79,-103.253,-103.253,0 1/1:279:0,278,0:0:0:278,0:9759,0:-848.788,-83.6863,0,-848.788,-83.6863,-848.788 1/1:2509:0,2470,9:0:0:2470,9:85870,302:-7548.86,-743.544,0,-7525.04,-719.724,-7522.34 1/2:1129:0,632,482:0:0:632,482:21950,16952:-3085.79,-1344.83,-1154.58,-1741.02,0,-1595.93 1/2:700:0,364,330:0:0:364,330:12730,11553:-1924.42,-915.514,-805.939,-1008.96,0,-909.624 1/2:88:0,45,43:0:0:45,43:1551,1533:-243.285,-121.624,-108.078,-122.002,0,-109.057 1/1:178:0,177,0:0:0:177,0:6137,0:-538.178,-53.2823,0,-538.178,-53.2823,-538.178 1/1:227:0,226,0:0:0:226,0:7858,0:-685.875,-68.0328,0,-685.875,-68.0328,-685.875 1/1:80:0,77,0:0:0:77,0:2700,0:-235.117,-23.1793,0,-235.117,-23.1793,-235.117 1/1:129:0,127,2:0:0:127,2:4369,72:-380.843,-38.2308,0,-375.18,-32.2195,-374.578 1/2:1156:0,518,630:0:0:518,630:17935,21949:-3156.62,-1737.52,-1581.58,-1419.14,0,-1229.49 1/2:75:0,43,31:0:0:43,31:1470,1064:-200.195,-84.0555,-71.1112,-116.212,0,-106.88 1/1:92:0,92,0:0:0:92,0:3217,0:-282.39,-27.6948,0,-282.39,-27.6948,-282.39 1/1:53:0,52,1:0:0:52,1:1838,30:-162.21,-15.6536,0,-160.083,-13.2554,-159.782 chr11 30246365 . A G 19073.6 PASS AB=0.5;ABP=3.0103;AC=32;AF=0.761905;AN=42;AO=881;CIGAR=1X;DP=1099;DPB=1099;DPRA=1.47639;EPP=1916.08;EPPR=474.22;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9035;MQMR=59.9539;NS=21;NUMALT=1;ODDS=5.91893;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31490;QR=7777;RO=217;RPL=0;RPP=1916.08;RPPR=474.22;RPR=881;RUN=1;SAF=881;SAP=1916.08;SAR=0;SRF=217;SRP=474.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:134:3,131:3:108:131:4684:-411.642,-30.2629,0 1/1:53:0,53:0:0:53:1888:-170.198,-15.9546,0 1/1:59:0,59:0:0:59:2120:-191.068,-17.7608,0 0/1:44:29,15:29:1044:15:536:-35.3286,0,-81.0295 1/1:82:0,82:0:0:82:2910:-261.597,-24.6845,0 0/1:51:35,15:35:1260:15:521:-31.8058,0,-98.2942 0/1:65:35,30:35:1252:30:1076:-77.5859,0,-93.4126 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 1/1:109:0,109:0:0:109:3904:-351.55,-32.8123,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:22:12,10:12:432:10:356:-25.7586,0,-32.5985 0/1:69:21,48:21:741:48:1716:-133.955,0,-46.2405 1/1:61:1,60:1:36:60:2141:-189.353,-14.7646,0 1/1:58:0,58:0:0:58:2076:-187.111,-17.4597,0 1/1:49:0,49:0:0:49:1754:-158.144,-14.7505,0 1/1:28:0,28:0:0:28:1008:-91.0364,-8.42884,0 0/1:55:28,27:28:1000:27:972:-71.2413,0,-73.7587 0/1:43:16,27:16:576:27:960:-73.772,0,-39.2307 1/1:32:0,32:0:0:32:1149:-103.72,-9.63296,0 1/1:33:0,33:0:0:33:1179:-106.417,-9.93399,0 chr11 30255556 . ACA GCA,GCG 89045.4 PASS AB=0.837743,0.157264;ABP=1987.59,2046.7;AC=32,10;AF=0.761905,0.238095;AN=42;AO=3937,329;CIGAR=1X2M,1X1M1X;DP=4280;DPB=4280.33;DPRA=17.7833,1.07607;EPP=8552.1,717.425;EPPR=13.8677;GTI=8;LEN=1,3;MEANALT=1.9,2.45455;MQM=42.5867,59.2644;MQMR=57;NS=21;NUMALT=2;ODDS=24.0167;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=140293,11705;QR=178;RO=5;RPL=0,0;RPP=8552.1,717.425;RPPR=13.8677;RPR=3937,329;RUN=1,1;SAF=3937,329;SAP=8552.1,717.425;SAR=0,0;SRF=5;SRP=13.8677;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:163:0,163,0:0:0:163,0:5816,0:-508.681,-49.0679,0,-508.681,-49.0679,-508.681 1/1:89:1,88,0:1:36:88,0:3135,0:-272.544,-23.1944,0,-272.845,-26.4906,-275.782 1/1:148:0,148,0:0:0:148,0:5280,0:-462.958,-44.5524,0,-462.958,-44.5524,-462.958 1/2:82:1,71,10:1:34:71,10:2525,360:-226.011,-26.6378,-8.01932,-196.936,0,-196.682 1/1:275:0,275,0:0:0:275,0:9806,0:-858.084,-82.7833,0,-858.084,-82.7833,-858.084 1/2:82:0,73,8:0:0:73,8:2606,281:-229.75,-22.8697,-0.894498,-206.879,0,-204.471 1/2:107:0,90,16:0:0:90,16:3192,547:-297.671,-44.4543,-17.3616,-253.279,0,-248.463 2/2:12:0,0,12:0:0:0,12:0,424:-38.4958,-38.4958,-38.4958,-3.61236,-3.61236,0 1/1:229:0,228,0:0:0:228,0:8157,0:-719.744,-68.6348,0,-719.744,-68.6348,-719.744 1/1:693:0,693,0:0:0:693,0:24664,0:-2167.81,-208.614,0,-2167.81,-208.614,-2167.81 1/2:540:1,475,64:1:36:475,64:16861,2275:-1521.74,-182.377,-42.3247,-1336.73,0,-1320.4 1/2:604:0,494,107:0:0:494,107:17602,3828:-1710.49,-312.146,-163.437,-1398.43,0,-1366.22 1/2:70:1,59,9:1:36:59,9:2112,313:-189.719,-22.5354,-7.71156,-164.571,0,-164.797 1/1:118:0,118,0:0:0:118,0:4220,0:-369.96,-35.5215,0,-369.96,-35.5215,-369.96 1/1:193:0,192,1:0:0:192,1:6852,28:-600.074,-57.7978,0,-597.901,-55.3502,-597.6 1/1:86:0,85,0:0:0:85,0:3025,0:-266.73,-25.5876,0,-266.73,-25.5876,-266.73 1/1:112:0,110,1:0:0:110,1:3932,36:-346.199,-33.1133,0,-343.262,-30.1728,-342.961 1/2:480:1,386,93:1:36:386,93:13764,3333:-1362.18,-268.415,-155.154,-1091.13,0,-1066.07 1/2:38:0,30,8:0:0:30,8:1064,280:-106.928,-23.1305,-14.0996,-84.1463,0,-81.7381 1/1:118:0,118,0:0:0:118,0:4215,0:-371.187,-35.5215,0,-371.187,-35.5215,-371.187 1/1:41:0,41,0:0:0:41,0:1465,0:-128.925,-12.3422,0,-128.925,-12.3422,-128.925 chr11 30255566 . T A 83404.8 PASS AB=0.844041;ABP=2099.31;AC=32;AF=0.761905;AN=42;AO=4031;CIGAR=1X;DP=4364;DPB=4364;DPRA=18.1333;EPP=8756.22;EPPR=723.939;GTI=8;LEN=1;MEANALT=1.05;MQM=42.6162;MQMR=59.3253;NS=21;NUMALT=1;ODDS=16.4924;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=143887;QR=11904;RO=332;RPL=0;RPP=8756.22;RPPR=723.939;RPR=4031;RUN=1;SAF=4031;SAP=8756.22;SAR=0;SRF=332;SRP=723.939;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:168:0,168:0:0:168:5957:-520.018,-50.573,0 1/1:90:0,90:0:0:90:3220:-283.376,-27.0927,0 1/1:149:0,148:0:0:148:5229:-458.028,-44.5524,0 0/1:85:10,75:10:356:75:2683:-209.603,0,-6.7937 1/1:281:1,280:1:36:280:9954:-865.948,-80.9912,0 0/1:81:8,73:8:288:73:2593:-202.813,0,-1.88398 0/1:108:17,91:17:604:91:3245:-250.43,0,-22.1712 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 1/1:235:0,235:0:0:235:8316:-733.872,-70.7421,0 1/1:710:0,710:0:0:710:25442:-2228.41,-213.731,0 0/1:555:64,491:64:2300:491:17562:-1374.24,0,-40.1172 0/1:610:107,503:107:3836:503:17986:-1391.91,0,-161.695 0/1:72:10,62:10:360:62:2209:-172.423,0,-11.0678 1/1:118:0,118:0:0:118:4206:-368.326,-35.5215,0 1/1:200:0,200:0:0:200:7114:-622.134,-60.206,0 1/1:87:0,87:0:0:87:3093:-272.009,-26.1896,0 1/1:112:1,111:1:36:111:3957:-344.709,-30.1171,0 0/1:486:92,394:92:3304:394:14152:-1095.33,0,-150.94 0/1:42:10,32:10:356:32:1148:-87.2617,0,-19.738 1/1:122:0,122:0:0:122:4353:-383.251,-36.7257,0 1/1:41:0,41:0:0:41:1468:-128.832,-12.3422,0 chr11 30255581 . GGGTTG AAGTTG,GAGCTA 92284.4 PASS AB=0.836089,0.156615;ABP=2020.2,2108.73;AC=32,10;AF=0.761905,0.238095;AN=42;AO=4029,336;CIGAR=2X4M,1M1X1M1X1M1X;DP=4390;DPB=4389.83;DPRA=18.2417,1.16519;EPP=8339.92,723.965;EPPR=0;GTI=8;LEN=2,6;MEANALT=2.7,3.36364;MQM=42.6376,59.3601;MQMR=0;NS=21;NUMALT=2;ODDS=13.5953;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=142243,11823;QR=0;RO=0;RPL=48,1;RPP=8339.92,723.965;RPPR=0;RPR=3981,335;RUN=1,1;SAF=4029,336;SAP=8751.87,732.625;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:168:0,168,0:0:0:168,0:5913,0:-517.85,-50.573,0,-517.85,-50.573,-517.85 1/1:91:0,90,0:0:0:90,0:3147,0:-277.658,-27.0927,0,-277.658,-27.0927,-277.658 1/1:149:0,149,0:0:0:149,0:5217,0:-458.217,-44.8535,0,-458.217,-44.8535,-458.217 1/2:85:0,75,10:0:0:75,10:2636,345:-237.049,-28.3722,-5.79497,-209.021,0,-206.011 1/1:284:0,281,1:0:0:281,1:9783,36:-858.083,-84.5894,0,-855.146,-81.6186,-854.845 1/2:82:0,73,8:0:0:73,8:2573,288:-228.063,-23.5793,-1.60407,-204.562,0,-202.153 1/2:108:0,89,17:0:0:89,17:3047,583:-288.996,-47.3909,-20.5992,-241.663,0,-236.546 2/2:12:0,0,12:0:0:0,12:0,417:-37.8615,-37.8615,-37.8615,-3.61236,-3.61236,0 1/1:238:0,237,0:0:0:237,0:8369,0:-739.834,-71.3441,0,-739.834,-71.3441,-739.834 1/1:712:0,710,0:0:0:710,0:25176,0:-2213.55,-213.731,0,-2213.55,-213.731,-2213.55 1/2:562:0,494,64:0:0:494,64:17550,2258:-1579.38,-183.845,-35.1366,-1395.57,0,-1376.3 1/2:614:0,503,107:0:0:503,107:17728,3782:-1715.67,-307.979,-156.561,-1407.73,0,-1375.52 1/2:73:0,61,12:0:0:61,12:2173,421:-206.851,-34.6091,-16.2462,-172.592,0,-168.98 1/1:117:0,116,0:0:0:116,0:4116,0:-361.184,-34.9195,0,-361.184,-34.9195,-361.184 1/1:199:0,198,0:0:0:198,0:7003,0:-613.622,-59.6039,0,-613.622,-59.6039,-613.622 1/1:87:0,85,0:0:0:85,0:3010,0:-265.666,-25.5876,0,-265.666,-25.5876,-265.666 1/1:114:0,113,1:0:0:113,1:3977,34:-350.728,-34.0164,0,-347.97,-30.9185,-347.669 1/2:489:0,392,94:0:0:392,94:13939,3313:-1377.58,-269.443,-151.439,-1108.16,0,-1079.86 1/2:43:0,32,10:0:0:32,10:1124,346:-116.79,-28.1847,-18.5517,-88.6727,0,-85.6624 1/1:123:0,123,0:0:0:123,0:4340,0:-382.819,-37.0267,0,-382.819,-37.0267,-382.819 1/1:40:0,40,0:0:0:40,0:1422,0:-125.433,-12.0412,0,-125.433,-12.0412,-125.433 chr11 30255611 . TGAGT CGAGC 79940.2 PASS AB=0.837771;ABP=2012.69;AC=32;AF=0.761905;AN=42;AO=3987;CIGAR=1X3M1X;DP=4338;DPB=4339.4;DPRA=18.025;EPP=8660.67;EPPR=728.282;GTI=8;LEN=5;MEANALT=1.65;MQM=42.5528;MQMR=59.4521;NS=21;NUMALT=1;ODDS=17.8205;PAIRED=0;PAIREDR=0;PAO=7;PQA=231;PQR=0;PRO=0;QA=139016;QR=11750;RO=334;RPL=3987;RPP=8660.67;RPPR=728.282;RPR=0;RUN=1;SAF=3987;SAP=8660.67;SAR=0;SRF=334;SRP=728.282;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:167:0,167:0:0:167:5832:-509.776,-50.272,0 1/1:88:0,87:0:0:87:3019:-266.052,-26.1896,0 1/1:145:0,145:0:0:145:5075:-445.78,-43.6494,0 0/1:82:10,71:10:338:71:2485:-193.547,0,-6.14124 1/1:278:1,277:1:36:277:9581:-835.217,-80.4467,0 0/1:81:8,73:8:282:73:2564:-201.048,0,-1.33766 0/1:106:16,90:16:542:90:3149:-243.529,0,-17.1895 0/0:12:12,0:12:427:0:0:0,-3.61236,-38.7685 1/1:236:0,235:0:0:235:8246:-728.363,-70.7421,0 1/1:707:0,705:0:0:705:24587:-2159.66,-212.226,0 0/1:553:65,487:65:2299:487:16916:-1322.24,0,-40.6349 0/1:608:108,496:108:3841:496:17355:-1342.84,0,-163.604 0/1:73:12,61:12:405:61:2105:-163.555,0,-14.7977 1/1:118:0,116:0:0:116:4075:-356.886,-34.9195,0 1/1:196:0,196:0:0:196:6825:-598.244,-59.0019,0 1/1:87:0,86:0:0:86:3020:-265.785,-25.8886,0 1/1:113:1,111:1:30:111:3910:-341.678,-31.0398,0 0/1:482:91,388:91:3202:388:13478:-1042.15,0,-143.663 0/1:43:10,33:10:348:33:1127:-85.3834,0,-18.7101 1/1:122:0,122:0:0:122:4235:-373.821,-36.7257,0 1/1:41:0,41:0:0:41:1432:-125.973,-12.3422,0 chr11 30256791 . A C 6717.9 PASS AB=0.468048;ABP=8.14458;AC=10;AF=0.238095;AN=42;AO=403;CIGAR=1X;DP=2143;DPB=2143;DPRA=0.903549;EPP=878.114;EPPR=3779.2;GTI=1;LEN=1;MEANALT=1.08333;MQM=40.0397;MQMR=59.64;NS=21;NUMALT=1;ODDS=1.02236;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14464;QR=62299;RO=1739;RPL=0;RPP=878.114;RPPR=3779.2;RPR=403;RUN=1;SAF=403;SAP=878.114;SAR=0;SRF=1739;SRP=3779.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:85:85,0:85:3048:0:0:0,-25.5875,-274.509 0/0:64:64,0:64:2289:0:0:0,-19.2659,-206.244 0/0:115:114,1:114:4072:1:36:0,-31.1157,-363.003 0/1:138:65,73:65:2336:73:2624:-187.413,0,-168.957 0/0:240:238,2:238:8544:2:72:0,-65.5921,-761.983 0/1:69:49,20:49:1752:20:720:-40.7175,0,-137.185 0/1:101:52,49:52:1868:49:1760:-118.483,0,-137.781 1/1:128:0,127:0:0:127:4548:-390.312,-38.2308,0 0/0:279:279,0:279:9969:0:0:0,-83.9874,-896.171 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:4:1,3:1:36:3:108:-8.28116,0,-2.39415 0/1:22:8,14:8:288:14:504:-37.2494,0,-19.6447 0/1:117:61,56:61:2180:56:2008:-138.851,0,-161.242 0/0:193:193,0:193:6932:0:0:0,-58.0988,-623.918 0/0:187:187,0:187:6700:0:0:0,-56.2926,-602.345 0/0:45:45,0:45:1616:0:0:0,-13.5463,-145.728 0/0:76:76,0:76:2716:0:0:0,-22.8783,-244.677 0/1:55:31,24:31:1116:24:860:-57.1513,0,-84.1935 0/1:73:41,32:41:1476:32:1152:-78.684,0,-111.149 0/0:109:107,2:107:3817:2:72:0,-26.2487,-337.145 0/0:32:32,0:32:1148:0:0:0,-9.63296,-103.597 chr11 30256849 . T A 16538 PASS AB=0.465056;ABP=15.3028;AC=10;AF=0.238095;AN=42;AO=878;CIGAR=1X;DP=4470;DPB=4470;DPRA=1.7699;EPP=1909.56;EPPR=7499.72;GTI=1;LEN=1;MEANALT=1.06667;MQM=32.7938;MQMR=59.6199;NS=21;NUMALT=1;ODDS=3.12624;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30916;QR=128086;RO=3591;RPL=406;RPP=13.7836;RPPR=8.01781;RPR=472;RUN=1;SAF=406;SAP=13.7836;SAR=472;SRF=1717;SRP=17.9155;SRR=1874;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:216:214,2:214:7618:2:72:0,-59.8237,-680.423 0/0:130:130,0:130:4656:0:0:0,-39.1339,-419.12 0/0:250:249,1:249:8871:1:32:0,-72.0989,-794.943 0/1:240:128,112:128:4557:112:3954:-247.687,0,-338.041 0/0:459:455,3:455:16213:3:108:0,-129.13,-1449.27 0/1:125:84,41:84:3001:41:1460:-72.9304,0,-231.416 0/1:228:111,117:111:3967:117:4113:-232.301,0,-288.35 1/1:327:0,327:0:0:327:11518:-845.563,-98.4368,0 0/0:553:552,1:552:19676:1:32:0,-163.271,-1766.94 0/0:12:12,0:12:428:0:0:0,-3.61236,-38.8588 0/1:9:5,4:5:180:4:144:-9.05812,0,-13.8248 0/1:52:17,35:17:603:35:1235:-75.8199,0,-38.9459 0/1:227:118,109:118:4232:109:3816:-228.372,0,-312.714 0/0:369:369,0:369:13140:0:0:0,-111.08,-1181.38 0/0:428:425,3:425:15159:3:108:0,-119.662,-1353.08 0/0:100:100,0:100:3564:0:0:0,-30.103,-320.9 0/0:134:134,0:134:4790:0:0:0,-40.338,-431.095 0/1:127:61,66:61:2175:66:2321:-130.059,0,-157.779 0/1:151:96,55:96:3431:55:1931:-107.026,0,-263.527 0/0:254:252,2:252:9001:2:72:0,-69.8981,-803.22 0/0:79:79,0:79:2824:0:0:0,-23.7814,-254.357 chr11 30371203 . A G 46425.8 PASS AB=0.50519;ABP=3.21317;AC=32;AF=0.761905;AN=42;AO=2149;CIGAR=1X;DP=2718;DPB=2718;DPRA=0.995385;EPP=4669.5;EPPR=1221.27;GTI=0;LEN=1;MEANALT=1;MQM=59.9502;MQMR=59.9578;NS=21;NUMALT=1;ODDS=12.3048;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76582;QR=20363;RO=569;RPL=2149;RPP=4669.5;RPPR=1221.27;RPR=0;RUN=1;SAF=2149;SAP=4669.5;SAR=0;SRF=569;SRP=1238.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:179:1,178:1:36:178:6339:-567.014,-50.2979,0 1/1:245:1,244:1:36:244:8745:-783.435,-70.1541,0 1/1:71:1,70:1:36:70:2504:-222.014,-17.7749,0 0/1:209:116,93:116:4129:93:3321:-236.192,0,-308.877 1/1:351:2,349:2:72:349:12438:-1112.4,-98.8248,0 0/1:76:36,40:36:1296:40:1425:-105.667,0,-94.0657 0/1:153:83,70:83:2965:70:2480:-177.395,0,-221.023 0/0:130:130,0:130:4668:0:0:0,-39.1339,-420.28 1/1:108:2,106:2:72:106:3780:-333.56,-25.6745,0 1/1:27:0,27:0:0:27:964:-87.0768,-8.12781,0 0/1:7:5,2:5:176:2:72:-4.72951,0,-14.0778 0/1:28:14,14:14:504:14:504:-37.2693,0,-37.2407 0/1:128:62,66:62:2220:66:2347:-172.952,0,-161.533 1/1:61:0,61:0:0:61:2151:-193.855,-18.3628,0 1/1:212:2,210:2:72:210:7478:-666.221,-56.9816,0 1/1:85:0,85:0:0:85:3010:-271.13,-25.5876,0 1/1:203:0,203:0:0:203:7276:-654.883,-61.1091,0 0/1:171:82,89:82:2944:89:3134:-230.808,0,-213.717 0/1:95:31,64:31:1116:64:2268:-175.783,0,-72.1538 1/1:96:1,95:1:21:95:3391:-303.305,-26.7989,0 1/1:83:0,83:0:0:83:2955:-266.183,-24.9855,0 chr11 30371225 . A C 9528.44 PASS AB=0.486998;ABP=4.25261;AC=10;AF=0.238095;AN=42;AO=544;CIGAR=1X;DP=2684;DPB=2684;DPRA=1.04628;EPP=1184.29;EPPR=4649.96;GTI=0;LEN=1;MEANALT=1;MQM=59.9963;MQMR=59.9271;NS=21;NUMALT=1;ODDS=10.6145;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19273;QR=75700;RO=2140;RPL=544;RPP=1184.29;RPPR=4649.96;RPR=0;RUN=1;SAF=544;SAP=1184.29;SAR=0;SRF=2140;SRP=4649.96;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:181:181,0:181:6388:0:0:0,-54.4864,-574.922 0/0:245:245,0:245:8700:0:0:0,-73.7523,-782.994 0/0:70:69,1:69:2448:1:36:0,-17.4738,-216.978 0/1:204:94,110:94:3338:110:3889:-288.797,0,-239.219 0/0:345:343,2:343:12153:2:72:0,-97.0186,-1086.7 0/1:72:38,34:38:1348:34:1212:-87.7122,0,-99.9461 0/1:148:66,82:66:2336:82:2936:-219.921,0,-165.94 1/1:128:1,127:1:36:127:4465:-398.426,-34.9336,0 0/0:106:106,0:106:3739:0:0:0,-31.9092,-336.71 0/0:27:27,0:27:951:0:0:0,-8.12781,-85.9043 0/1:7:2,5:2:72:5:176:-14.0778,0,-4.72951 0/1:26:13,13:13:460:13:468:-34.6329,0,-33.9086 0/1:126:66,60:66:2356:60:2140:-154.938,0,-174.365 0/0:64:64,0:64:2276:0:0:0,-19.2659,-205.103 0/0:210:209,1:209:7356:1:36:0,-59.618,-658.501 0/0:82:82,0:82:2870:0:0:0,-24.6845,-258.54 0/0:206:206,0:206:7253:0:0:0,-62.0122,-652.825 0/1:168:90,78:90:3169:78:2753:-197.439,0,-234.857 0/1:95:65,30:65:2311:30:1054:-66.5713,0,-179.653 0/0:91:90,1:90:3188:1:36:0,-23.7955,-283.544 0/0:83:83,0:83:2952:0:0:0,-24.9855,-265.828 chr11 30389704 . 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G A 9967.52 PASS AB=0.50464;ABP=3.17152;AC=10;AF=0.238095;AN=42;AO=562;CIGAR=1X;DP=2313;DPB=2313;DPRA=1.11733;EPP=1197.46;EPPR=3667.4;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.9609;MQMR=59.9513;NS=21;NUMALT=1;ODDS=12.8759;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19776;QR=62522;RO=1747;RPL=3;RPP=1197.46;RPPR=3667.4;RPR=559;RUN=1;SAF=562;SAP=1223.38;SAR=0;SRF=1747;SRP=3796.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:73,0:73:2609:0:0:0,-21.9752,-234.834 0/0:122:122,0:122:4377:0:0:0,-36.7257,-394.093 0/0:110:109,0:109:3920:0:0:0,-32.8123,-352.629 0/1:165:77,88:77:2764:88:3092:-228.834,0,-199.331 0/0:220:218,2:218:7800:2:72:0,-59.3899,-695.175 0/1:104:44,60:44:1580:60:2118:-159.578,0,-111.181 0/1:196:100,96:100:3569:96:3403:-247.48,0,-262.411 1/1:121:0,121:0:0:121:4290:-386.278,-36.4246,0 0/0:158:158,0:158:5652:0:0:0,-47.5627,-508.801 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:9:3,6:3:108:6:201:-15.7078,0,-7.3659 0/1:45:23,21:23:824:21:737:-53.1889,0,-61.0218 0/1:128:66,62:66:2376:62:2149:-155.141,0,-175.566 0/0:132:132,0:132:4706:0:0:0,-39.736,-423.7 0/0:152:152,0:152:5426:0:0:0,-45.7566,-488.468 0/0:100:97,3:97:3476:3:108:0,-20.0278,-302.847 0/0:105:105,0:105:3772:0:0:0,-31.6081,-339.678 0/1:123:58,65:58:2073:65:2284:-168.788,0,-149.812 0/1:92:54,37:54:1940:37:1286:-88.2835,0,-147.123 0/0:81:80,1:80:2830:1:36:0,-20.7852,-251.339 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.59 chr11 30440867 . G T 36898.2 PASS AB=0.483198;ABP=5.12642;AC=32;AF=0.761905;AN=42;AO=1710;CIGAR=1X;DP=2290;DPB=2290;DPRA=0.85873;EPP=3681.57;EPPR=1212.9;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9632;MQMR=59.974;NS=21;NUMALT=1;ODDS=10.2715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61128;QR=20676;RO=577;RPL=1706;RPP=3681.57;RPPR=1212.9;RPR=4;RUN=1;SAF=1710;SAP=3716.23;SAR=0;SRF=577;SRP=1255.95;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:74:0,74:0:0:74:2627:-236.676,-22.2762,0 1/1:122:0,122:0:0:122:4335:-390.319,-36.7257,0 1/1:107:0,106:0:0:106:3789:-340.847,-31.9092,0 0/1:167:92,74:92:3308:74:2649:-188.324,0,-247.607 1/1:213:2,211:2:72:211:7560:-673.597,-57.2827,0 0/1:108:64,44:64:2296:44:1574:-109.437,0,-174.39 0/1:192:94,98:94:3344:98:3500:-257.41,0,-243.37 0/0:126:126,0:126:4516:0:0:0,-37.9298,-406.607 1/1:155:0,155:0:0:155:5556:-500.162,-46.6597,0 1/1:11:0,11:0:0:11:384:-34.8947,-3.31133,0 0/1:9:6,3:6:216:3:108:-7.3659,0,-17.0812 0/1:44:22,22:22:792:22:788:-57.9995,0,-58.3604 0/1:126:61,65:61:2188:65:2313:-170.501,0,-159.255 1/1:128:0,128:0:0:128:4580:-412.365,-38.5318,0 1/1:151:0,151:0:0:151:5428:-488.647,-45.4555,0 1/1:96:3,92:3:108:92:3308:-287.862,-18.8825,0 1/1:104:0,104:0:0:104:3706:-333.743,-31.3071,0 0/1:122:66,56:66:2364:56:2000:-143.548,0,-176.288 0/1:95:40,55:40:1436:55:1963:-148.347,0,-100.94 1/1:78:1,77:1:36:77:2756:-244.684,-19.8821,0 1/1:62:0,62:0:0:62:2204:-198.594,-18.6639,0 chr11 30471911 . C T 24709.6 PASS AB=0.580247;ABP=39.2551;AC=31;AF=0.738095;AN=42;AO=1163;CIGAR=1X;DP=1487;DPB=1487;DPRA=1.40784;EPP=2528.43;EPPR=706.567;GTI=1;LEN=1;MEANALT=1;MQM=59.9673;MQMR=60;NS=21;NUMALT=1;ODDS=1.30827;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41453;QR=11543;RO=324;RPL=1;RPP=2519.75;RPPR=706.567;RPR=1162;RUN=1;SAF=1;SAP=2519.75;SAR=1162;SRF=0;SRP=706.567;SRR=324;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:46:0,46:0:0:46:1621:-146.176,-13.8474,0 1/1:34:0,34:0:0:34:1224:-110.467,-10.235,0 1/1:75:0,75:0:0:75:2658:-239.464,-22.5773,0 0/1:74:22,52:22:780:52:1855:-144.953,0,-48.2468 0/1:145:87,58:87:3108:58:2051:-141.212,0,-236.298 0/1:31:16,15:16:568:15:540:-39.6046,0,-42.1199 0/1:87:36,51:36:1288:51:1828:-138.611,0,-90.034 0/0:51:51,0:51:1819:0:0:0,-15.3525,-163.991 1/1:177:1,176:1:36:176:6253:-559.135,-49.684,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:6:2,4:2:72:4:144:-11.5074,0,-5.03054 0/1:14:5,9:5:161:9:315:-24.4728,0,-10.5921 0/1:56:19,37:19:680:37:1328:-102.965,0,-44.6715 1/1:67:0,67:0:0:67:2407:-216.886,-20.169,0 1/1:112:0,112:0:0:112:3991:-359.38,-33.7154,0 1/1:61:0,61:0:0:61:2188:-197.186,-18.3628,0 1/1:81:0,81:0:0:81:2908:-261.955,-24.3834,0 0/1:139:53,86:53:1883:86:3069:-234.595,0,-127.905 0/1:96:32,64:32:1148:64:2261:-174.853,0,-74.731 1/1:67:0,67:0:0:67:2368:-213.377,-20.169,0 1/1:58:0,58:0:0:58:2084:-187.83,-17.4597,0 chr11 30471959 . A G 5372.03 PASS AB=0.417683;ABP=41.6201;AC=11;AF=0.261905;AN=42;AO=327;CIGAR=1X;DP=1496;DPB=1496;DPRA=1.30951;EPP=713.082;EPPR=2532.78;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9641;NS=21;NUMALT=1;ODDS=1.91242;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11690;QR=41842;RO=1169;RPL=327;RPP=713.082;RPPR=2532.78;RPR=0;RUN=1;SAF=0;SAP=713.082;SAR=327;SRF=0;SRP=2541.46;SRR=1169;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/0:74:74,0:74:2652:0:0:0,-22.2762,-238.926 0/1:73:51,22:51:1832:22:775:-48.096,0,-143.186 0/1:145:61,84:61:2169:84:3016:-228.021,0,-151.826 0/1:31:16,15:16:576:15:540:-39.6046,0,-42.8431 0/1:92:52,40:52:1856:40:1427:-101.032,0,-139.625 1/1:52:0,52:0:0:52:1848:-166.6,-15.6536,0 0/0:175:174,1:174:6217:1:36:0,-49.082,-555.524 0/0:10:10,0:10:352:0:0:0,-3.0103,-32.0182 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:14:9,5:9:324:5:176:-11.9706,0,-25.2914 0/1:59:40,19:40:1436:19:676:-43.4072,0,-111.777 0/0:68:68,0:68:2427:0:0:0,-20.47,-218.683 0/0:112:112,0:112:4012:0:0:0,-33.7154,-361.269 0/0:64:64,0:64:2289:0:0:0,-19.2659,-206.27 0/0:80:80,0:80:2868:0:0:0,-24.0824,-258.357 0/1:137:85,52:85:3041:52:1872:-127.518,0,-232.677 0/1:98:63,35:63:2247:35:1252:-83.4841,0,-172.992 0/0:68:68,0:68:2444:0:0:0,-20.47,-220.215 0/0:57:57,0:57:2048:0:0:0,-17.1587,-184.592 chr11 30538126 . ACAGC GCAAC,AC 24809.5 PASS AB=0.750789,0.245268;ABP=695.717,717.671;AC=22,20;AF=0.52381,0.47619;AN=42;AO=986,314;CIGAR=1X2M1X1M,1M3D1M;DP=1305;DPB=1147.4;DPRA=0,0;EPP=2144.08,684.853;EPPR=0;GTI=7;LEN=5,3;MEANALT=2.09524,2.09524;MQM=59.3935,59.879;MQMR=0;NS=21;NUMALT=2;ODDS=2.08266;PAIRED=0,0;PAIREDR=0;PAO=154,0;PQA=5540,0;PQR=0;PRO=0;QA=34713,10732;QR=0;RO=0;RPL=0,0;RPP=2144.08,684.853;RPPR=0;RPR=986,314;RUN=1,1;SAF=986,314;SAP=2144.08,684.853;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:58:0,47,11:0:0:47,11:1649,392:-165.828,-31.9504,-17.802,-133.874,0,-130.563 1/2:31:0,23,8:0:0:23,8:815,273:-88.8765,-22.4919,-15.5683,-66.729,0,-64.3207 1/2:59:0,37,22:0:0:37,22:1320,765:-169.776,-62.1879,-51.0498,-107.582,0,-100.959 1/2:49:0,29,20:0:0:29,20:1040,689:-140.784,-55.9525,-47.2227,-84.8252,0,-78.8046 1/2:127:0,92,35:0:0:92,35:3224,1233:-362.62,-100.378,-72.6829,-262.237,0,-251.701 1/2:45:0,37,8:0:0:37,8:1304,258:-126.921,-20.7724,-9.63427,-106.124,0,-103.715 1/2:86:0,58,28:0:0:58,28:2042,985:-246.098,-80.1739,-62.7141,-165.917,0,-157.488 1/2:79:0,58,21:0:0:58,21:2042,725:-225.465,-59.2284,-41.7687,-166.583,0,-160.262 1/2:136:0,111,21:0:0:111,21:3947,714:-379.554,-57.9018,-24.4875,-321.645,0,-315.323 1/2:18:0,13,5:0:0:13,5:445,135:-47.0739,-10.9115,-6.99814,-36.4523,0,-34.9472 1/2:10:0,7,3:0:0:7,3:244,104:-28.6445,-8.79971,-6.6925,-20.1919,0,-19.2888 1/1:37:0,34,3:0:0:34,3:1191,104:-107.127,-10.235,0,-98.6739,-1.78848,-97.7708 1/2:71:0,62,8:0:0:62,8:2193,280:-201.349,-22.7779,-4.11402,-178.568,0,-176.16 1/2:53:0,37,16:0:0:37,16:1307,572:-153.074,-46.6374,-35.4993,-106.433,0,-101.616 1/2:122:0,102,20:0:0:102,20:3620,644:-346.458,-51.8928,-21.1877,-294.545,0,-288.524 1/2:47:0,32,15:0:0:32,15:1126,498:-131.93,-40.265,-30.632,-91.6494,0,-87.1339 1/2:24:0,15,9:0:0:15,9:514,294:-65.445,-23.7148,-19.1993,-41.7115,0,-39.0022 1/2:90:0,56,34:0:0:56,34:1973,1171:-255.707,-95.0888,-78.2311,-160.608,0,-150.373 1/2:96:0,79,17:0:0:79,17:2745,551:-267.451,-44.4294,-20.648,-223.001,0,-217.883 1/2:29:0,23,6:0:0:23,6:811,216:-83.6478,-17.6245,-10.7008,-66.023,0,-64.2168 1/2:38:0,34,4:0:0:34,4:1161,129:-104.332,-10.3938,-0.158827,-93.9327,0,-92.7286 chr11 30554162 . C T 8147.09 PASS AB=0.310924;ABP=113.865;AC=28;AF=0.666667;AN=42;AO=448;CIGAR=1X;DP=1190;DPB=1190;DPRA=0.382142;EPP=975.83;EPPR=1614.24;GTI=7;LEN=1;MEANALT=1;MQM=59.9554;MQMR=59.9973;NS=21;NUMALT=1;ODDS=1.30716;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15482;QR=26507;RO=742;RPL=448;RPP=975.83;RPPR=1614.24;RPR=0;RUN=1;SAF=0;SAP=975.83;SAR=448;SRF=0;SRP=1614.24;SRR=742;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:30:0,30:0:0:30:1008:-91.0158,-9.0309,0 1/1:9:0,9:0:0:9:290:-26.4121,-2.70927,0 1/1:62:0,62:0:0:62:2159:-194.573,-18.6639,0 0/1:11:9,2:9:305:2:72:-3.52539,0,-24.4659 0/1:71:44,27:44:1572:27:938:-63.3561,0,-120.398 0/1:17:9,8:9:324:8:288:-21.1499,0,-24.3883 0/1:37:24,13:24:860:13:468:-31.3215,0,-66.5837 0/0:33:33,0:33:1180:0:0:0,-9.93399,-106.508 1/1:56:1,55:1:36:55:1889:-166.681,-13.2594,0 0/1:9:3,6:3:108:6:208:-16.3498,0,-7.3659 0/0:239:238,1:238:8499:1:36:0,-68.3479,-761.309 0/0:224:224,0:224:8029:0:0:0,-67.4307,-722.626 0/1:40:26,14:26:913:14:466:-30.2147,0,-70.4428 1/1:34:0,34:0:0:34:1170:-105.6,-10.235,0 1/1:58:0,58:0:0:58:2038:-183.689,-17.4597,0 1/1:4:0,4:0:0:4:129:-11.9277,-1.20412,0 1/1:14:0,14:0:0:14:492:-44.611,-4.21442,0 0/1:140:120,20:120:4289:20:689:-20.1843,0,-344.042 0/1:32:11,21:11:392:21:729:-56.2957,0,-25.9871 1/1:48:0,48:0:0:48:1701:-153.372,-14.4494,0 1/1:22:0,22:0:0:22:712:-64.38,-6.62266,0 chr11 30557035 . G A 40154.3 PASS AB=0.56103;ABP=31.9009;AC=31;AF=0.738095;AN=42;AO=1485;CIGAR=1X;DP=1960;DPB=1960;DPRA=1.19051;EPP=3.18723;EPPR=7.98869;GTI=0;LEN=1;MEANALT=1;MQM=59.8835;MQMR=59.9832;NS=21;NUMALT=1;ODDS=1.22907;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52937;QR=16772;RO=475;RPL=1485;RPP=3227.65;RPPR=1034.46;RPR=0;RUN=1;SAF=748;SAP=3.18723;SAR=737;SRF=254;SRP=7.98869;SRR=221;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:0,113:0:0:113:4017:-361.712,-34.0164,0 1/1:97:0,97:0:0:97:3448:-310.53,-29.1999,0 1/1:72:0,72:0:0:72:2586:-232.975,-21.6742,0 0/1:78:38,40:38:1315:40:1436:-106.057,0,-95.1655 0/1:119:63,56:63:2222:56:2008:-145.171,0,-164.421 0/1:84:37,47:37:1324:47:1671:-125.303,0,-94.1756 0/1:103:34,69:34:1198:69:2454:-190.108,0,-77.1179 0/0:79:79,0:79:2769:0:0:0,-23.7814,-249.45 1/1:132:0,132:0:0:132:4748:-427.438,-39.736,0 1/1:19:0,19:0:0:19:671:-60.7158,-5.71957,0 0/1:10:2,8:2:68:8:279:-22.4372,0,-3.44741 0/1:16:10,6:10:356:6:216:-14.974,0,-27.5648 0/1:115:65,50:65:2323:50:1780:-125.735,0,-174.71 1/1:75:1,74:1:36:74:2635:-233.799,-18.979,0 1/1:130:1,129:1:36:129:4600:-410.566,-35.5356,0 1/1:59:0,59:0:0:59:2096:-188.882,-17.7608,0 1/1:52:0,52:0:0:52:1841:-165.94,-15.6536,0 0/1:162:80,82:80:2810:82:2908:-213.183,0,-204.372 0/1:206:63,143:63:2243:143:5096:-396.758,0,-140.121 1/1:110:2,108:2:72:108:3844:-339.292,-26.2766,0 1/1:129:0,129:0:0:129:4603:-414.435,-38.8329,0 chr11 30625452 . CAG CAA,CAAT 30410 PASS AB=0.425096,0.571063;ABP=41.0708,37.2673;AC=30,12;AF=0.714286,0.285714;AN=42;AO=876,570;CIGAR=2M1X,1M1I1M1X;DP=1451;DPB=1641.67;DPRA=0,1.80458;EPP=1905.22,1240.75;EPPR=0;GTI=1;LEN=1,4;MEANALT=1.80952,2.25;MQM=60,59.9211;MQMR=0;NS=21;NUMALT=2;ODDS=3.09203;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31151,20184;QR=0;RO=0;RPL=0,0;RPP=1905.22,1240.75;RPPR=0;RPR=876,570;RUN=1,1;SAF=876,570;SAP=1905.22,1240.75;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:43:0,43,0:0:0:43,0:1514,0:-136.549,-12.9443,0,-136.549,-12.9443,-136.549 1/1:39:0,38,0:0:0:38,0:1353,0:-121.855,-11.4391,0,-121.855,-11.4391,-121.855 1/2:128:0,62,65:0:0:62,65:2224,2286:-367.48,-186.075,-167.411,-181.4,0,-161.834 1/2:134:0,49,85:0:0:49,85:1760,2992:-387.502,-243.925,-229.174,-143.933,0,-118.346 1/2:106:0,26,80:0:0:26,80:902,2849:-305.88,-232.566,-224.739,-73.6636,0,-49.5812 1/2:31:0,9,22:0:0:9,22:324,780:-90.3386,-63.9003,-61.191,-26.7966,0,-20.1739 1/2:114:0,41,73:0:0:41,73:1454,2595:-330.281,-211.824,-199.481,-118.812,0,-96.8368 2/2:123:0,1,122:0:0:1,122:36,4309:-387.605,-384.668,-384.367,-36.7257,-33.4284,0 1/1:104:0,103,0:0:0:103,0:3696,0:-332.482,-31.0061,0,-332.482,-31.0061,-332.482 1/1:8:0,8,0:0:0:8,0:284,0:-25.9034,-2.40824,0,-25.9034,-2.40824,-25.9034 1/2:19:0,13,5:0:0:13,5:449,180:-51.2032,-14.7287,-10.8153,-36.5116,0,-35.0065 1/2:21:0,6,15:0:0:6,15:201,524:-59.2453,-42.9734,-41.1673,-16.6109,0,-12.0954 1/2:91:0,42,49:0:0:42,49:1507,1747:-265.688,-142.764,-130.121,-123.281,0,-108.531 1/1:95:0,95,0:0:0:95,0:3352,0:-301.893,-28.5979,0,-301.893,-28.5979,-301.893 1/1:51:0,51,0:0:0:51,0:1824,0:-164.441,-15.3525,0,-164.441,-15.3525,-164.441 1/1:24:0,24,0:0:0:24,0:860,0:-77.7218,-7.22472,0,-77.7218,-7.22472,-77.7218 1/1:17:0,17,0:0:0:17,0:593,0:-53.6947,-5.11751,0,-53.6947,-5.11751,-53.6947 1/2:53:0,32,20:0:0:32,20:1137,718:-151.293,-58.644,-49.0111,-92.7218,0,-86.7012 1/2:84:0,52,32:0:0:52,32:1857,1134:-244.128,-92.7289,-77.0754,-151.754,0,-142.121 1/1:121:0,119,2:0:0:119,2:4208,70:-378.549,-35.8226,0,-372.853,-29.7773,-372.251 1/1:45:0,45,0:0:0:45,0:1616,0:-145.73,-13.5464,0,-145.73,-13.5464,-145.73 chr11 30626898 . A G 42662.8 PASS AB=0.671456;ABP=269.586;AC=32;AF=0.761905;AN=42;AO=2009;CIGAR=1X;DP=2388;DPB=2388;DPRA=5.37727;EPP=4365.5;EPPR=819.484;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9871;MQMR=59.9973;NS=21;NUMALT=1;ODDS=14.6014;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=71754;QR=13353;RO=376;RPL=0;RPP=4365.5;RPPR=819.484;RPR=2009;RUN=1;SAF=2009;SAP=4365.5;SAR=0;SRF=376;SRP=819.484;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:30:0,30:0:0:30:1061:-95.7994,-9.0309,0 1/1:78:1,77:1:36:77:2768:-245.762,-19.8821,0 0/1:35:17,18:17:612:18:638:-47.2124,0,-44.8774 0/1:92:42,50:42:1508:50:1800:-134.587,0,-108.32 0/1:177:102,75:102:3648:75:2677:-187.891,0,-275.242 0/1:23:16,7:16:572:7:248:-15.7405,0,-44.8897 0/1:69:27,42:27:960:42:1485:-113.171,0,-65.9452 0/0:22:22,0:22:780:0:0:0,-6.62266,-70.523 1/1:120:0,120:0:0:120:4273:-384.693,-36.1236,0 1/1:336:0,335:0:0:335:11975:-1077.28,-100.845,0 1/1:330:1,329:1:36:329:11674:-1046.93,-95.7416,0 1/1:119:9,110:9:316:110:3925:-324.65,-7.04371,0 0/1:70:26,44:26:902:44:1568:-120.337,0,-60.4182 1/1:66:0,66:0:0:66:2372:-213.738,-19.868,0 1/1:81:0,81:0:0:81:2908:-261.955,-24.3834,0 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 1/1:25:0,25:0:0:25:900:-81.321,-7.52575,0 0/1:497:75,420:75:2642:420:15030:-1203.05,0,-88.6557 0/1:81:36,45:36:1269:45:1612:-120.987,0,-90.1273 1/1:38:1,37:1:36:37:1328:-116.224,-7.84087,0 1/1:35:1,34:1:36:34:1220:-106.509,-6.93778,0 chr11 30626905 . C T 4983.94 PASS AB=0.325864;ABP=285.097;AC=10;AF=0.238095;AN=42;AO=382;CIGAR=1X;DP=2433;DPB=2433;DPRA=1.40691;EPP=832.513;EPPR=4452.36;GTI=1;LEN=1;MEANALT=1.08333;MQM=59.9974;MQMR=59.9854;NS=21;NUMALT=1;ODDS=14.9894;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13603;QR=73325;RO=2049;RPL=0;RPP=832.513;RPPR=4452.36;RPR=382;RUN=1;SAF=382;SAP=832.513;SAR=0;SRF=2049;SRP=4452.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:29,0:29:1040:0:0:0,-8.72987,-93.9144 0/0:78:78,0:78:2787:0:0:0,-23.4803,-251.068 0/1:36:19,17:19:684:17:608:-44.2149,0,-51.0532 0/1:94:50,44:50:1785:44:1554:-111.851,0,-132.634 0/1:182:77,103:77:2756:103:3665:-275.509,0,-193.737 0/1:24:7,17:7:252:17:612:-48.1887,0,-15.8042 0/1:71:43,28:43:1532:28:989:-67.9489,0,-116.8 1/1:22:0,22:0:0:22:781:-70.6121,-6.62266,0 0/0:120:120,0:120:4268:0:0:0,-36.1236,-384.245 0/0:338:338,0:338:12071:0:0:0,-101.748,-1086.24 0/0:339:338,1:338:12112:1:36:0,-98.4509,-1086.33 0/0:118:109,9:109:3920:9:324:0,-6.01568,-323.472 0/1:73:45,28:45:1608:28:985:-66.9863,0,-123.035 0/0:69:69,0:69:2484:0:0:0,-20.7711,-223.813 0/0:83:83,0:83:2984:0:0:0,-24.9855,-268.791 0/0:65:65,0:65:2332:0:0:0,-19.5669,-210.14 0/0:25:25,0:25:900:0:0:0,-7.52575,-81.321 0/1:510:435,75:435:15551:75:2685:-88.3698,0,-1245.77 0/1:81:44,37:44:1580:37:1328:-95.4388,0,-118.108 0/0:37:36,1:36:1296:1:36:0,-7.53983,-113.346 0/0:39:39,0:39:1383:0:0:0,-11.7402,-124.768 chr11 30626965 . CC CT,AT 37094.3 PASS AB=0.511331,0.488669;ABP=3.79769,3.79769;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1226,452;CIGAR=1M1X,2X;DP=1681;DPB=1681;DPRA=0.79899,0.809494;EPP=2378.11,883.052;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.65,2;MQM=59.9649,59.9889;MQMR=60;NS=21;NUMALT=2;ODDS=6.5436;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=43390,15495;QR=36;RO=1;RPL=1192,440;RPP=2378.11,883.052;RPPR=5.18177;RPR=34,12;RUN=1,1;SAF=0,0;SAP=2665.24,984.516;SAR=1226,452;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:138:1,129,8:1:36:129,8:4553,284:-406.344,-35.8949,0,-383.504,-15.6968,-384.033 1/1:71:0,71,0:0:0:71,0:2533,0:-228.22,-21.3731,0,-228.22,-21.3731,-228.22 1/2:103:0,59,44:0:0:59,44:2112,1541:-297.968,-125.733,-107.972,-172.588,0,-159.343 1/2:47:0,16,31:0:0:16,31:572,1062:-133.196,-86.551,-81.7345,-46.9969,0,-37.665 1/2:86:0,62,24:0:0:62,24:2192,819:-245.334,-66.7961,-48.1323,-178.883,0,-171.658 1/2:112:0,70,42:0:0:70,42:2484,1412:-317.122,-114.722,-93.6503,-202.742,0,-190.099 1/2:106:0,45,61:0:0:45,61:1581,2084:-298.149,-169.463,-155.916,-129.033,0,-110.67 2/2:99:0,0,98:0:0:0,98:0,3355:-301.915,-301.915,-301.915,-29.5009,-29.5009,0 1/1:178:0,178,0:0:0:178,0:6274,0:-564.764,-53.5833,0,-564.764,-53.5833,-564.764 1/1:12:0,11,1:0:0:11,1:377,28:-33.9736,-3.31133,0,-31.7601,-0.812634,-31.4591 1/2:14:0,9,5:0:0:9,5:324,170:-40.5784,-14.1288,-11.4196,-26.7966,0,-25.2914 1/2:39:0,6,33:0:0:6,33:193,1134:-107.981,-92.4266,-90.6204,-15.8794,0,-5.94544 1/2:75:0,52,23:0:0:52,23:1829,800:-214.278,-65.3923,-49.7388,-149.234,0,-142.311 1/1:133:0,133,0:0:0:133,0:4661,0:-419.657,-40.037,0,-419.657,-40.037,-419.657 1/1:194:0,193,0:0:0:193,0:6854,0:-616.504,-58.0988,0,-616.504,-58.0988,-616.504 1/1:41:0,41,0:0:0:41,0:1468,0:-132.416,-12.3422,0,-132.416,-12.3422,-132.416 1/1:42:0,42,0:0:0:42,0:1487,0:-134.124,-12.6433,0,-134.124,-12.6433,-134.124 1/2:70:0,19,51:0:0:19,51:672,1751:-197.248,-142.511,-136.792,-55.0873,0,-39.7347 1/2:54:0,23,31:0:0:23,31:820,1055:-152.769,-85.9201,-78.9964,-67.1988,0,-57.8669 1/1:32:0,32,0:0:0:32,0:1148,0:-103.63,-9.63296,0,-103.63,-9.63296,-103.63 1/1:35:0,35,0:0:0:35,0:1256,0:-113.345,-10.5361,0,-113.345,-10.5361,-113.345 chr11 30636568 . T C 11985.5 PASS AB=0.513514;ABP=5.29915;AC=12;AF=0.285714;AN=42;AO=820;CIGAR=1X;DP=2730;DPB=2730;DPRA=1.09091;EPP=1757.66;EPPR=4122.33;GTI=0;LEN=1;MEANALT=1;MQM=35.3902;MQMR=56.725;NS=21;NUMALT=1;ODDS=8.70657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29249;QR=68267;RO=1909;RPL=817;RPP=1757.66;RPPR=4122.33;RPR=3;RUN=1;SAF=820;SAP=1783.62;SAR=0;SRF=1909;SRP=4148.35;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:118:117,1:117:4196:1:36:0,-32.1754,-367.42 0/0:150:150,0:150:5352:0:0:0,-45.1545,-476.954 0/1:98:42,56:42:1508:56:1997:-136.926,0,-105.956 0/1:248:135,113:135:4826:113:4011:-260.101,0,-358.117 0/1:383:166,217:166:5939:217:7732:-526.988,0,-415.553 0/1:154:76,78:76:2732:78:2783:-166.422,0,-197.951 0/1:141:70,71:70:2492:71:2510:-150.544,0,-175.126 1/1:76:0,76:0:0:76:2720:-216.461,-22.8783,0 0/0:234:234,0:234:8350:0:0:0,-70.441,-749.896 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7082 0/1:9:6,3:6:216:3:108:-5.84344,0,-16.9739 0/1:22:18,4:18:620:4:144:-5.17155,0,-49.4975 0/1:265:125,140:125:4479:140:5028:-338.197,0,-321.168 0/0:112:112,0:112:3996:0:0:0,-33.7154,-356.704 0/0:107:106,1:106:3812:1:36:0,-28.8641,-338.699 0/0:110:110,0:110:3956:0:0:0,-33.1133,-355.876 0/0:128:127,1:127:4560:1:36:0,-34.9387,-405.698 0/1:47:18,29:18:648:29:1036:-68.926,0,-44.4858 0/1:76:46,30:46:1643:30:1072:-67.2523,0,-125.28 0/0:197:196,0:196:6994:0:0:0,-59.0019,-626.112 0/0:45:45,0:45:1588:0:0:0,-13.5463,-141.273 chr11 30641746 . CTCGCTGC GTCACTGT,CTCACTGC 47998.8 PASS AB=0.473888,0.51354;ABP=9.1341,4.65675;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1544,707;CIGAR=1X2M1X3M1X,3M1X4M;DP=2278;DPB=2278.12;DPRA=0.600857,1.04653;EPP=3355.76,1538.24;EPPR=5.18177;GTI=0;LEN=8,1;MEANALT=2.65,2.91667;MQM=59.706,59.9915;MQMR=60;NS=21;NUMALT=2;ODDS=7.29561;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=54518,25192;QR=36;RO=1;RPL=0,0;RPP=3355.76,1538.24;RPPR=5.18177;RPR=1544,707;RUN=1,1;SAF=1544,707;SAP=3355.76,1538.24;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:124:0,122,0:0:0:122,0:4300,0:-386.805,-36.7257,0,-386.805,-36.7257,-386.805 1/1:91:0,91,0:0:0:91,0:3230,0:-290.9,-27.3937,0,-290.9,-27.3937,-290.9 1/2:106:0,47,58:0:0:47,58:1678,2080:-306.52,-169.719,-155.571,-136.866,0,-119.406 1/2:75:1,29,45:1:36:29,45:1014,1604:-209.991,-127.807,-122.014,-79.5406,0,-68.932 1/2:236:0,123,106:0:0:123,106:4331,3784:-661.005,-308.52,-271.494,-352.513,0,-320.604 1/2:90:0,42,48:0:0:42,48:1495,1720:-262.47,-140.636,-127.993,-122.191,0,-107.741 1/2:125:0,58,67:0:0:58,67:2047,2400:-362.768,-196.088,-178.628,-167.036,0,-146.867 2/2:175:0,0,173:0:0:0,173:0,6131:-551.587,-551.587,-551.587,-52.0782,-52.0782,0 1/1:165:0,163,0:0:0:163,0:5743,0:-516.683,-49.0679,0,-516.683,-49.0679,-516.683 1/1:12:0,12,0:0:0:12,0:426,0:-38.6758,-3.61236,0,-38.6758,-3.61236,-38.6758 1/2:8:0,5,3:0:0:5,3:178,108:-23.6772,-9.17208,-7.66693,-14.8635,0,-13.9604 1/2:59:0,26,32:0:0:26,32:903,1128:-165.245,-91.9422,-84.1154,-73.3966,0,-63.7637 1/2:143:0,52,90:0:0:52,90:1854,3193:-411.272,-260.141,-244.488,-151.127,0,-124.034 1/1:141:0,140,0:0:0:140,0:4917,0:-442.405,-42.1442,0,-442.405,-42.1442,-442.405 1/1:201:0,198,0:0:0:198,0:6974,0:-627.336,-59.6039,0,-627.336,-59.6039,-627.336 1/1:77:0,76,0:0:0:76,0:2701,0:-242.973,-22.8783,0,-242.973,-22.8783,-242.973 1/1:77:0,75,0:0:0:75,0:2642,0:-237.684,-22.5773,0,-237.684,-22.5773,-237.684 1/2:94:0,44,49:0:0:44,49:1547,1756:-269.131,-143.214,-129.968,-125.912,0,-111.162 1/2:98:0,64,33:0:0:64,33:2249,1184:-279.642,-96.594,-77.3281,-183.064,0,-173.13 1/1:118:0,115,3:0:0:115,3:4092,104:-368.118,-34.6185,0,-359.665,-26.1752,-358.762 1/1:63:0,62,0:0:0:62,0:2197,0:-197.781,-18.6639,0,-197.781,-18.6639,-197.781 chr11 30650747 . G T 8052.91 PASS AB=0.541732;ABP=12.6161;AC=12;AF=0.285714;AN=42;AO=442;CIGAR=1X;DP=1443;DPB=1443;DPRA=0.904817;EPP=962.801;EPPR=2176.65;GTI=0;LEN=1;MEANALT=1;MQM=59.8733;MQMR=60;NS=21;NUMALT=1;ODDS=7.24576;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15771;QR=35736;RO=1001;RPL=0;RPP=962.801;RPPR=2176.65;RPR=442;RUN=1;SAF=0;SAP=962.801;SAR=442;SRF=0;SRP=2176.65;SRR=1001;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:82:82,0:82:2930:0:0:0,-24.6845,-263.933 0/0:34:34,0:34:1206:0:0:0,-10.235,-108.844 0/1:61:28,33:28:1004:33:1188:-88.8481,0,-72.313 0/1:47:18,29:18:648:29:1040:-79.6961,0,-44.5035 0/1:149:55,94:55:1963:94:3331:-255.138,0,-132.091 0/1:58:25,33:25:900:33:1173:-88.4158,0,-63.8613 0/1:62:23,39:23:819:39:1389:-106.643,0,-55.3677 1/1:96:0,96:0:0:96:3429:-308.814,-28.8989,0 0/0:150:150,0:150:5343:0:0:0,-45.1545,-481.003 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/1:28:10,18:10:360:18:633:-48.8662,0,-24.3155 0/1:73:41,32:41:1459:32:1148:-81.6491,0,-109.63 0/0:77:77,0:77:2760:0:0:0,-23.1793,-248.642 0/0:147:147,0:147:5264:0:0:0,-44.2514,-473.896 0/0:52:52,0:52:1872:0:0:0,-15.6536,-168.759 0/0:54:54,0:54:1926:0:0:0,-16.2556,-173.615 0/1:71:40,31:40:1405:31:1112:-79.0182,0,-105.372 0/1:74:45,29:45:1608:29:1040:-71.6381,0,-122.734 0/0:58:56,2:56:1991:2:72:0,-10.623,-172.627 0/0:50:50,0:50:1774:0:0:0,-15.0515,-159.942 chr11 30650766 . C T 8183.49 PASS AB=0.544444;ABP=13.8194;AC=12;AF=0.285714;AN=42;AO=440;CIGAR=1X;DP=1425;DPB=1425;DPRA=0.90955;EPP=932.578;EPPR=2090.11;GTI=0;LEN=1;MEANALT=1;MQM=59.8318;MQMR=60;NS=21;NUMALT=1;ODDS=6.86342;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15723;QR=35192;RO=985;RPL=437;RPP=932.578;RPPR=2090.11;RPR=3;RUN=1;SAF=0;SAP=958.458;SAR=440;SRF=0;SRP=2141.91;SRR=985;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:81:81,0:81:2904:0:0:0,-24.3834,-261.595 0/0:33:33,0:33:1170:0:0:0,-9.93399,-105.606 0/1:62:29,33:29:1040:33:1176:-87.4663,0,-75.2505 0/1:46:18,28:18:648:28:993:-75.7653,0,-44.8045 0/1:145:52,93:52:1868:93:3308:-254.287,0,-124.75 0/1:58:25,33:25:891:33:1188:-89.7689,0,-63.049 0/1:60:22,38:22:792:38:1356:-104.278,0,-53.5439 1/1:95:0,95:0:0:95:3420:-308.004,-28.5979,0 0/0:148:148,0:148:5278:0:0:0,-44.5524,-475.157 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:12:6,6:6:216:6:212:-15.8124,0,-16.1782 0/1:27:9,18:9:324:18:625:-48.4447,0,-21.378 0/1:75:41,34:41:1460:34:1217:-87.1699,0,-109.119 0/0:76:76,0:76:2718:0:0:0,-22.8783,-244.862 0/0:147:147,0:147:5250:0:0:0,-44.2514,-472.637 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.161 0/0:52:52,0:52:1860:0:0:0,-15.6536,-167.68 0/1:72:41,31:41:1455:31:1116:-79.0775,0,-109.571 0/1:73:44,29:44:1576:29:1040:-71.9392,0,-120.156 0/0:56:54,2:54:1917:2:72:0,-10.021,-165.969 0/0:48:48,0:48:1705:0:0:0,-14.4494,-153.734 chr11 30651648 . TAATATAAAATG TAAATATAAAATG 54889.7 PASS AB=0.479348;ABP=9.37818;AC=31;AF=0.738095;AN=42;AO=2172;CIGAR=1M1I11M;DP=3235;DPB=3417.58;DPRA=1.00719;EPP=4676.12;EPPR=2248.31;GTI=2;LEN=1;MEANALT=2;MQM=59.9553;MQMR=54.5783;NS=21;NUMALT=1;ODDS=3.14359;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=17;PQR=17;PRO=0.5;QA=74300;QR=34119;RO=1034;RPL=1044;RPP=10.0646;RPPR=4.21994;RPR=1128;RUN=1;SAF=1049;SAP=8.48497;SAR=1123;SRF=505;SRP=4.21994;SRR=529;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:121:0,119:0:0:119:4095:-368.533,-35.8226,0 1/1:180:0,178:0:0:178:6053:-544.555,-53.5833,0 0/1:141:74,67:74:2395:67:2269:-162.026,0,-173.027 0/1:237:129,105:129:4203:105:3626:-255.787,0,-306.805 0/1:426:228,194:228:7418:194:6603:-466.972,0,-539.48 0/1:175:85,88:85:2895:88:3034:-220.893,0,-207.713 0/1:284:133,148:133:4523:148:5034:-368.367,0,-321.438 0/0:153:150,0:150:4906:0:0:0,-45.1545,-439.905 1/1:169:0,168:0:0:168:5812:-522.833,-50.573,0 1/1:36:2,34:2:59:34:1174:-100.367,-5.24126,0 1/1:5:0,5:0:0:5:168:-15.4509,-1.50515,0 0/1:31:26,4:26:875:4:131:-2.81817,0,-69.6446 0/1:221:116,104:116:3838:104:3525:-250.885,0,-278.322 1/1:159:0,159:0:0:159:5364:-482.925,-47.8638,0 1/1:267:0,266:0:0:266:9071:-816.061,-80.074,0 1/1:91:0,90:0:0:90:3090:-278.014,-27.0927,0 1/1:40:0,40:0:0:40:1385:-124.945,-12.0412,0 0/1:89:43,45:43:1408:45:1538:-111.945,0,-100.04 0/1:115:43,69:43:1450:69:2438:-185.696,0,-96.725 1/1:194:5,188:5:149:188:6402:-562.62,-44.6558,0 1/1:101:0,101:0:0:101:3488:-314.127,-30.404,0 chr11 30651660 . GTTTTTTTTCGA GTTTTTTTTTTTTCGA,GTTTTTTTTTTTCGA 11357.1 PASS AB=0.34051,0.0883853;ABP=392.976,2600.42;AC=10,2;AF=0.238095,0.047619;AN=42;AO=606,158;CIGAR=1M4I11M,1M3I11M;DP=3639;DPB=4037.83;DPRA=0.889578,0.937848;EPP=1318.92,346.103;EPPR=5928.96;GTI=1;LEN=4,3;MEANALT=6.15385,6.41667;MQM=51.7294,55.5633;MQMR=59.9667;NS=21;NUMALT=2;ODDS=26.3321;PAIRED=0,0;PAIREDR=0;PAO=43,43;PQA=1479.75,1479.75;PQR=1479.75;PRO=43;QA=20227,5311;QR=95167;RO=2729;RPL=218,60;RPP=106.567,22.8559;RPPR=264.263;RPR=388,98;RUN=1,1;SAF=218,60;SAP=106.567,22.8559;SAR=388,98;SRF=1078;SRP=264.263;SRR=1651;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:129:126,1,0:126:4374:1,0:22,0:0,-36.4947,-391.754,-37.9298,-392.055,-393.542 0/0:202:197,0,0:197:6890:0,0:0,0:0,-59.3029,-619.84,-59.3029,-619.84,-619.84 0/1:132:70,55,3:70:2466:55,3:1878,93:-130.611,0,-184.178,-144.221,-193.273,-344.091 0/1:218:115,67,24:115:4019:67,24:2278,809:-149.511,0,-306.766,-118.592,-261.397,-438.309 0/1:374:202,117,32:202:7040:117,32:3900,1048:-253.418,0,-537.295,-229.896,-488.185,-792.795 0/1:191:97,67,13:97:3380:67,13:2257,464:-151.367,0,-254.686,-142.816,-237.106,-413.775 0/1:298:168,91,24:168:5863:91,24:3140,832:-201.675,0,-449.457,-184.87,-409.472,-654.52 1/2:128:0,90,24:0:0:90,24:2915,787:-297.304,-63.4458,-36.3531,-233.834,0,-226.609 0/0:379:372,0,0:372:13043:0,0:0,0:0,-111.983,-1173.35,-111.983,-1173.35,-1173.35 0/0:40:38,1,1:38:1314:1,1:36,36:0,-8.52507,-114.986,-8.50533,-112.354,-114.968 0/0:5:5,0,0:5:180:0,0:0,0:0,-1.50515,-16.5521,-1.50515,-16.5521,-16.5521 1/2:24:4,12,5:4:141:12,5:402,165:-32.9778,-1.76655,-9.62622,-20.9218,0,-30.8957 0/1:206:114,58,17:114:3987:58,17:1906,579:-119.181,0,-306.896,-106.57,-277.429,-425.823 0/0:196:194,0,0:194:6692:0,0:0,0:0,-58.3998,-601.999,-58.3998,-601.999,-601.999 0/0:295:291,0,0:291:10224:0,0:0,0:0,-87.5997,-919.761,-87.5997,-919.761,-919.761 0/0:179:174,0,0:174:6059:0,0:0,0:0,-52.3792,-545.076,-52.3792,-545.076,-545.076 0/0:119:118,0,0:118:4079:0,0:0,0:0,-35.5215,-366.99,-35.5215,-366.99,-366.99 0/1:87:49,24,7:49:1703:24,7:771,233:-47.1546,0,-131.233,-43.055,-119.61,-179.417 0/1:107:75,20,7:75:2590:20,7:629,229:-27.9176,0,-204.407,-32.0022,-191.936,-240.34 0/0:217:209,3,1:209:7272:3,1:93,36:0,-55.5088,-645.915,-59.978,-643.885,-651.001 0/0:113:111,0,0:111:3851:0,0:0,0:0,-33.4143,-346.556,-33.4143,-346.556,-346.556 chr11 30651678 . T C 19611.3 PASS AB=0.461727;ABP=23.7876;AC=11;AF=0.261905;AN=42;AO=902;CIGAR=1X;DP=3561;DPB=3561;DPRA=1.20405;EPP=1400.85;EPPR=68.415;GTI=0;LEN=1;MEANALT=1;MQM=50.7417;MQMR=59.9353;NS=21;NUMALT=1;ODDS=16.1722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31264;QR=94615;RO=2659;RPL=256;RPP=369.175;RPPR=2788.94;RPR=646;RUN=1;SAF=186;SAP=679.248;SAR=716;SRF=1065;SRP=231.542;SRR=1594;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:120,3:120:4218:3:97:0,-28.3172,-371.09 0/0:190:190,0:190:6775:0:0:0,-57.1957,-609.787 0/1:132:72,60:72:2576:60:2068:-145.465,0,-192.351 0/1:220:114,106:114:4088:106:3650:-260.524,0,-301.879 0/1:385:201,184:201:7154:184:6404:-455.898,0,-527.868 0/1:191:89,102:89:3176:102:3589:-261.72,0,-228.566 0/1:300:167,133:167:5958:133:4550:-313.328,0,-446.019 1/1:135:0,135:0:0:135:4710:-419.844,-40.6391,0 0/0:367:366,1:366:13028:1:36:0,-106.88,-1168.73 0/0:36:34,2:34:1204:2:72:0,-4.0288,-101.858 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:19:3,16:3:108:16:562:-44.8991,0,-4.3556 0/1:197:112,85:112:3987:85:2898:-199.101,0,-299.719 0/0:182:182,0:182:6444:0:0:0,-54.7875,-579.327 0/0:288:288,0:288:10273:0:0:0,-86.6966,-924.499 0/0:169:167,2:167:5927:2:72:0,-44.0373,-526.705 0/0:113:113,0:113:4000:0:0:0,-34.0164,-360.192 0/1:91:51,40:51:1802:40:1398:-97.1694,0,-135.067 0/1:98:70,28:70:2496:28:982:-58.631,0,-195.379 0/0:210:205,5:205:7300:5:176:0,-47.091,-640.869 0/0:110:110,0:110:3921:0:0:0,-33.1133,-353.083 chr11 30671973 . TGAT CGAC 9175.12 PASS AB=0.51135;ABP=3.94686;AC=12;AF=0.285714;AN=42;AO=541;CIGAR=1X2M1X;DP=1658;DPB=1658;DPRA=1.21983;EPP=1177.78;EPPR=2422.03;GTI=0;LEN=4;MEANALT=1.09091;MQM=44.6266;MQMR=59.8025;NS=21;NUMALT=1;ODDS=0.283675;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18977;QR=39447;RO=1114;RPL=0;RPP=1177.78;RPPR=2422.03;RPR=541;RUN=1;SAF=541;SAP=1177.78;SAR=0;SRF=1114;SRP=2422.03;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:69:69,0:69:2428:0:0:0,-20.7711,-218.736 0/0:101:101,0:101:3596:0:0:0,-30.404,-323.84 0/1:90:34,56:34:1197:56:1982:-147.93,0,-80.941 0/1:125:69,56:69:2451:56:1984:-137.991,0,-183.217 0/1:143:67,76:67:2371:76:2689:-195.703,0,-170.578 0/1:44:22,22:22:788:22:772:-54.9619,0,-57.9963 0/1:139:66,72:66:2335:72:2488:-179.429,0,-168.516 1/1:113:0,113:0:0:113:3965:-351.404,-34.0164,0 0/0:103:103,0:103:3615:0:0:0,-31.0061,-325.506 0/0:10:10,0:10:349:0:0:0,-3.0103,-31.7455 0/1:7:2,5:2:71:5:180:-14.2624,0,-4.63485 0/1:33:17,16:17:608:16:545:-38.8477,0,-45.118 0/1:97:39,58:39:1380:58:2028:-150.758,0,-95.2982 0/0:117:116,0:116:4128:0:0:0,-34.9195,-371.325 0/0:40:40,0:40:1414:0:0:0,-12.0412,-127.557 0/0:67:67,0:67:2368:0:0:0,-20.169,-213.302 0/0:68:68,0:68:2401:0:0:0,-20.47,-216.342 0/1:77:37,40:37:1317:40:1392:-99.575,0,-95.6517 0/1:82:55,27:55:1960:27:952:-59.5917,0,-151.989 0/0:48:47,0:47:1665:0:0:0,-14.1484,-149.605 0/0:85:85,0:85:3005:0:0:0,-25.5875,-270.672 chr11 30672052 . C T 30669.5 PASS AB=0.491961;ABP=3.53397;AC=30;AF=0.714286;AN=42;AO=1418;CIGAR=1X;DP=2023;DPB=2023;DPRA=0.772358;EPP=2919.34;EPPR=1239.5;GTI=0;LEN=1;MEANALT=1.1;MQM=59.7334;MQMR=59.9451;NS=21;NUMALT=1;ODDS=15.1344;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50819;QR=21480;RO=601;RPL=1399;RPP=2919.34;RPPR=1239.5;RPR=19;RUN=1;SAF=0;SAP=3082.16;SAR=1418;SRF=0;SRP=1308.07;SRR=601;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,150:0:0:150:5357:-481.967,-45.1545,0 1/1:92:0,92:0:0:92:3304:-297.55,-27.6948,0 0/1:142:97,45:97:3446:45:1612:-102.621,0,-267.603 0/1:82:46,36:46:1648:36:1296:-92.2595,0,-123.924 0/1:138:42,96:42:1504:96:3448:-268.984,0,-94.1078 0/1:95:55,39:55:1957:39:1404:-97.9865,0,-147.747 0/1:97:49,48:49:1764:48:1720:-125.877,0,-129.844 0/0:123:123,0:123:4388:0:0:0,-37.0267,-395.092 1/1:190:1,186:1:36:186:6638:-593.891,-53.0542,0 1/1:17:0,17:0:0:17:612:-55.4042,-5.11751,0 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:25:13,12:13:468:12:432:-31.6954,0,-34.9339 0/1:141:76,65:76:2709:65:2336:-167.737,0,-201.594 1/1:82:1,81:1:36:81:2904:-257.98,-21.0862,0 1/1:145:0,145:0:0:145:5177:-465.959,-43.6494,0 1/1:69:0,69:0:0:69:2469:-222.46,-20.7711,0 1/1:58:0,58:0:0:58:2080:-187.469,-17.4597,0 0/1:105:58,47:58:2084:47:1688:-120.594,0,-156.222 0/1:101:34,67:34:1224:67:2412:-186.928,0,-80.063 1/1:92:3,89:3:108:89:3198:-277.839,-17.649,0 1/1:72:0,72:0:0:72:2588:-233.144,-21.6742,0 chr11 30691961 . C T 9057.13 PASS AB=0.474429;ABP=8.22987;AC=12;AF=0.285714;AN=42;AO=521;CIGAR=1X;DP=1847;DPB=1847;DPRA=1.22977;EPP=1134.35;EPPR=2865.04;GTI=0;LEN=1;MEANALT=1;MQM=59.9443;MQMR=59.9698;NS=21;NUMALT=1;ODDS=9.32461;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18624;QR=47413;RO=1326;RPL=0;RPP=1134.35;RPPR=2865.04;RPR=521;RUN=1;SAF=0;SAP=1134.35;SAR=521;SRF=0;SRP=2882.38;SRR=1326;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:63:63,0:63:2251:0:0:0,-18.9649,-202.481 0/0:80:80,0:80:2872:0:0:0,-24.0824,-258.716 0/1:78:40,38:40:1436:38:1368:-99.9381,0,-106.057 0/1:91:43,48:43:1540:48:1709:-126.7,0,-111.499 0/1:127:65,62:65:2290:62:2216:-161.473,0,-168.128 0/1:65:30,35:30:1063:35:1256:-93.7783,0,-76.4139 0/1:113:58,55:58:2067:55:1967:-143.285,0,-152.284 1/1:83:0,83:0:0:83:2971:-267.622,-24.9855,0 0/0:152:152,0:152:5426:0:0:0,-45.7566,-488.47 0/0:15:14,1:14:504:1:36:0,-0.917175,-42.0998 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:33:20,13:20:716:13:468:-32.5257,0,-54.8337 0/1:122:55,67:55:1968:67:2373:-177.101,0,-140.669 0/0:77:77,0:77:2756:0:0:0,-23.1793,-248.282 0/0:214:213,1:213:7640:1:36:0,-60.8221,-684.034 0/0:52:52,0:52:1864:0:0:0,-15.6536,-168.039 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/1:118:56,62:56:2003:62:2228:-165.253,0,-145.021 0/1:165:114,51:114:4073:51:1816:-114.05,0,-317.083 0/0:79:79,0:79:2821:0:0:0,-23.7814,-254.128 0/0:65:65,0:65:2323:0:0:0,-19.5669,-209.33 chr11 30745855 . TA TC 10089.5 PASS AB=0.49095;ABP=3.32472;AC=30;AF=0.714286;AN=42;AO=514;CIGAR=1M1X;DP=862;DPB=862;DPRA=0.318376;EPP=1119.15;EPPR=752.168;GTI=2;LEN=1;MEANALT=1.05;MQM=59.9591;MQMR=59.9884;NS=21;NUMALT=1;ODDS=0.964883;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18181;QR=12207;RO=345;RPL=514;RPP=1119.15;RPPR=752.168;RPR=0;RUN=1;SAF=514;SAP=1119.15;SAR=0;SRF=345;SRP=752.168;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:44:0,44:0:0:44:1558:-140.51,-13.2453,0 1/1:5:0,5:0:0:5:156:-14.347,-1.50515,0 0/1:32:17,15:17:597:15:540:-39.3036,0,-44.4242 0/1:46:14,32:14:502:32:1137:-88.7896,0,-31.6699 0/1:95:50,45:50:1789:45:1573:-113.26,0,-132.692 0/1:16:7,9:7:247:9:324:-24.6894,0,-17.7564 0/1:50:41,9:41:1423:9:320:-14.0909,0,-113.311 0/0:117:117,0:117:4128:0:0:0,-35.2205,-371.705 1/1:67:0,67:0:0:67:2374:-213.915,-20.169,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:17:11,6:11:392:6:216:-14.673,0,-30.5028 0/1:69:38,31:38:1343:31:1088:-77.4554,0,-100.399 1/1:33:2,31:2:72:31:1103:-92.7407,-3.09727,0 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 1/1:16:1,15:1:36:15:540:-45.3383,-1.21821,0 0/1:60:22,38:22:786:38:1368:-105.359,0,-53.0029 0/1:53:22,31:22:784:31:1065:-80.1866,0,-54.9297 1/1:37:0,34:0:0:34:1182:-106.359,-10.235,0 1/1:39:0,39:0:0:39:1381:-124.587,-11.7402,0 chr11 30811284 . TG CT,CG 53608.3 PASS AB=0.690683,0.306832;ABP=257.245,263.913;AC=32,10;AF=0.761905,0.238095;AN=42;AO=2132,344;CIGAR=2X,1X1M;DP=2480;DPB=2480;DPRA=0,1.66783;EPP=4623.91,749.997;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.85714,2.14286;MQM=59.9475,60;MQMR=0;NS=21;NUMALT=2;ODDS=17.2931;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=75460,12271;QR=0;RO=0;RPL=2131,344;RPP=4623.91,749.997;RPPR=0;RPR=1,0;RUN=1,1;SAF=2132,344;SAP=4632.59,749.997;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:108:0,107,1:0:0:107,1:3811,36:-342.824,-32.2102,0,-339.886,-28.913,-339.585 1/1:46:0,46,0:0:0:46,0:1617,0:-145.815,-13.8474,0,-145.815,-13.8474,-145.815 1/2:61:0,25,36:0:0:25,36:900,1284:-178.463,-105.026,-97.5006,-73.7953,0,-62.9582 1/2:67:0,38,29:0:0:38,29:1342,1040:-194.467,-85.1845,-73.7454,-109.639,0,-100.909 1/2:112:0,75,36:0:0:75,36:2620,1288:-318.141,-105.027,-82.4495,-213.109,0,-202.272 1/2:40:0,27,13:0:0:27,13:938,464:-114.432,-38.1841,-30.0563,-76.6018,0,-72.6884 1/2:106:0,54,52:0:0:54,52:1907,1831:-304.712,-149.415,-133.159,-155.65,0,-139.996 2/2:88:0,1,87:0:0:1,87:36,3105:-279.316,-276.379,-276.078,-26.1896,-22.8924,0 1/1:179:0,178,0:0:0:178,0:6288,0:-565.648,-53.5833,0,-565.648,-53.5833,-565.648 1/1:327:0,325,2:0:0:325,2:11452,72:-1030.21,-97.8348,0,-1024.33,-91.6001,-1023.73 1/1:376:0,374,2:0:0:374,2:13297,72:-1196.12,-112.585,0,-1190.24,-106.351,-1189.64 1/1:157:0,153,4:0:0:153,4:5418,144:-487.361,-46.0576,0,-475.611,-33.9481,-474.407 1/2:89:0,64,25:0:0:64,25:2257,900:-257.56,-73.7953,-54.5293,-184.123,0,-176.597 1/1:96:0,96,0:0:0:96,0:3387,0:-305.044,-28.8989,0,-305.044,-28.8989,-305.044 1/1:53:0,52,0:0:0:52,0:1834,0:-164.978,-15.6536,0,-164.978,-15.6536,-164.978 1/1:103:0,103,0:0:0:103,0:3672,0:-330.683,-31.0061,0,-330.683,-31.0061,-330.683 1/1:47:0,46,1:0:0:46,1:1628,36:-146.447,-13.8474,0,-143.51,-10.5501,-143.209 1/2:273:0,240,32:0:0:240,32:8516,1135:-786.416,-92.572,-20.3248,-693.945,0,-684.312 1/2:57:0,33,24:0:0:33,24:1175,864:-166.622,-70.8578,-60.9239,-96.1227,0,-88.898 1/1:57:0,57,0:0:0:57,0:2024,0:-182.412,-17.1587,0,-182.412,-17.1587,-182.412 1/1:38:0,38,0:0:0:38,0:1341,0:-120.988,-11.4391,0,-120.988,-11.4391,-120.988 chr11 30811297 . 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T C 4897.99 PASS AB=0.310692;ABP=250.479;AC=10;AF=0.238095;AN=42;AO=347;CIGAR=1X;DP=2448;DPB=2448;DPRA=2.14338;EPP=756.511;EPPR=4563.1;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9429;NS=21;NUMALT=1;ODDS=20.4304;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12242;QR=74987;RO=2100;RPL=347;RPP=756.511;RPPR=4563.1;RPR=0;RUN=1;SAF=347;SAP=756.511;SAR=0;SRF=2100;SRP=4563.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:108:107,1:107:3831:1:36:0,-28.913,-341.384 0/0:44:44,0:44:1562:0:0:0,-13.2453,-140.87 0/1:60:25,35:25:891:35:1238:-93.6611,0,-62.447 0/1:65:38,27:38:1353:27:951:-66.3374,0,-102.501 0/1:111:72,39:72:2571:39:1363:-89.5505,0,-198.225 0/1:38:25,13:25:900:13:468:-31.0205,0,-69.8819 0/1:106:53,53:53:1895:53:1860:-135.768,0,-138.918 1/1:89:0,89:0:0:89:3135:-282.375,-26.7917,0 0/0:174:173,1:173:6157:1:36:0,-48.7809,-550.628 0/0:322:320,2:320:11415:2:68:0,-90.4739,-1020.77 0/0:372:370,2:370:13250:2:72:0,-105.146,-1185.25 0/0:156:152,4:152:5430:4:140:0,-34.0161,-475.852 0/1:87:63,24:63:2247:24:844:-50.0874,0,-176.301 0/0:94:94,0:94:3356:0:0:0,-28.2968,-302.255 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.399 0/0:101:100,0:100:3576:0:0:0,-30.103,-321.8 0/0:47:46,1:46:1619:1:36:0,-10.5501,-142.397 0/1:271:239,32:239:8539:32:1135:-20.8789,0,-686.924 0/1:57:33,24:33:1180:24:860:-60.5631,0,-89.3493 0/0:56:56,0:56:1991:0:0:0,-16.8577,-179.435 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 chr11 30816067 . T C,A 13488.4 PASS AB=0.386161,0.611607;ABP=53.4389,51.4807;AC=30,12;AF=0.714286,0.285714;AN=42;AO=361,290;CIGAR=1X,1X;DP=652;DPB=652;DPRA=1.9875,2.24371;EPP=786.912,624.081;EPPR=5.18177;GTI=3;LEN=1,1;MEANALT=1.5,1.90909;MQM=59.8421,59.7793;MQMR=60;NS=21;NUMALT=2;ODDS=0.984016;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=12914,10359;QR=36;RO=1;RPL=361,289;RPP=786.912,624.081;RPPR=5.18177;RPR=0,1;RUN=1,1;SAF=0,0;SAP=786.912,632.737;SAR=361,290;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:29:0,29,0:0:0:29,0:1044,0:-94.2701,-8.72987,0,-94.2701,-8.72987,-94.2701 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:5:0,1,4:0:0:1,4:32,144:-14.6799,-12.1095,-11.8085,-2.89828,0,-1.69416 1/2:19:1,7,11:1:36:7,11:252,396:-49.6351,-29.3742,-30.2044,-17.6245,0,-17.2506 1/2:39:0,13,26:0:0:13,26:464,936:-114.554,-76.728,-72.8146,-38.1841,0,-30.3573 1/2:18:0,8,10:0:0:8,10:283,356:-52.4203,-29.3709,-26.9627,-23.404,0,-20.3937 1/2:23:0,9,14:0:0:9,14:315,500:-66.7471,-41.1218,-38.4125,-25.978,0,-21.7635 2/2:16:0,0,16:0:0:0,16:0,572:-51.8134,-51.8134,-51.8134,-4.81648,-4.81648,0 1/1:15:0,15,0:0:0:15,0:536,0:-48.5748,-4.51545,0,-48.5748,-4.51545,-48.5748 1/1:41:0,41,0:0:0:41,0:1468,0:-132.345,-12.3422,0,-132.345,-12.3422,-132.345 1/2:85:0,26,59:0:0:26,59:936,2124:-249.934,-173.561,-165.735,-76.7327,0,-58.9719 1/2:63:0,28,35:0:0:28,35:1000,1231:-182.082,-100.55,-92.1215,-81.8865,0,-71.3505 1/2:16:0,3,13:0:0:3,13:108,468:-47.3585,-38.5463,-37.6432,-9.17208,0,-5.25869 1/1:9:0,9,0:0:0:9,0:324,0:-29.5035,-2.70927,0,-29.5035,-2.70927,-29.5035 1/1:24:0,24,0:0:0:24,0:845,0:-76.3671,-7.22472,0,-76.3671,-7.22472,-76.3671 1/1:23:0,23,0:0:0:23,0:828,0:-74.8433,-6.92369,0,-74.8433,-6.92369,-74.8433 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:168:0,71,97:0:0:71,97:2544,3461:-489.949,-282.487,-261.114,-207.819,0,-178.619 1/2:12:0,7,5:0:0:7,5:252,171:-34.7927,-14.2203,-12.1131,-20.9217,0,-19.4166 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:25:0,25,0:0:0:25,0:891,0:-80.5088,-7.52575,0,-80.5088,-7.52575,-80.5088 chr11 30823479 . 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T G 11566.3 PASS AB=0.499353;ABP=3.01311;AC=13;AF=0.309524;AN=42;AO=505;CIGAR=1X;DP=1618;DPB=1618;DPRA=0.792332;EPP=1099.6;EPPR=2413.34;GTI=1;LEN=1;MEANALT=1.14286;MQM=56.5109;MQMR=58.8874;NS=21;NUMALT=1;ODDS=2.12435;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17816;QR=39006;RO=1110;RPL=165;RPP=134.696;RPPR=143.518;RPR=340;RUN=1;SAF=165;SAP=134.696;SAR=340;SRF=421;SRP=143.518;SRR=689;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2267:0:0:0,-19.2659,-203.299 0/0:70:70,0:70:2492:0:0:0,-21.0721,-224.479 0/1:39:18,21:18:636:21:747:-55.7666,0,-45.8269 0/1:70:33,37:33:1148:37:1269:-92.9358,0,-82.551 0/1:109:44,65:44:1540:65:2275:-171.804,0,-105.969 0/1:60:30,30:30:1049:30:1054:-76.0932,0,-76.524 0/1:143:74,68:74:2604:68:2439:-176.271,0,-191.428 1/1:116:0,116:0:0:116:4131:-371.354,-34.9195,0 0/0:121:120,0:120:4239:0:0:0,-36.1236,-381.258 0/1:21:18,2:18:599:2:72:-0.457951,0,-47.8209 0/1:11:4,7:4:144:7:252:-19.6965,0,-9.9995 0/1:45:24,21:24:847:21:752:-54.4114,0,-62.9586 0/1:53:15,38:15:521:38:1324:-101.815,0,-31.1883 0/0:76:76,0:76:2613:0:0:0,-22.8783,-234.61 0/0:127:127,0:127:4500:0:0:0,-38.2308,-404.73 0/0:60:60,0:60:2105:0:0:0,-18.0618,-189.345 0/0:65:64,1:64:2260:1:36:0,-16.0001,-199.604 0/1:132:68,64:68:2417:64:2234:-161.253,0,-177.819 0/1:90:57,33:57:1984:33:1159:-77.4995,0,-151.735 0/0:38:36,2:36:1238:2:72:0,-4.60973,-104.849 0/0:108:108,0:108:3803:0:0:0,-32.5112,-342.171 chr11 30877880 . 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C T 3938 PASS AB=0.280922;ABP=400.713;AC=10;AF=0.238095;AN=42;AO=318;CIGAR=1X;DP=2236;DPB=2236;DPRA=2.45038;EPP=693.539;EPPR=4163.55;GTI=2;LEN=1;MEANALT=1.16667;MQM=59.8899;MQMR=59.9864;NS=21;NUMALT=1;ODDS=0.243941;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11385;QR=68361;RO=1916;RPL=318;RPP=693.539;RPPR=4163.55;RPR=0;RUN=1;SAF=0;SAP=693.539;SAR=318;SRF=0;SRP=4163.55;SRR=1916;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:64,0:64:2277:0:0:0,-19.2659,-205.19 0/0:60:60,0:60:2156:0:0:0,-18.0618,-194.307 0/1:73:31,42:31:1116:42:1504:-113.676,0,-78.7765 0/1:55:31,24:31:1104:24:864:-61.5259,0,-83.114 0/1:114:72,41:72:2573:41:1453:-96.6181,0,-197.442 0/1:58:41,17:41:1453:17:612:-37.9528,0,-113.604 0/1:108:59,49:59:2105:49:1760:-126.168,0,-157.206 1/1:42:0,42:0:0:42:1500:-135.294,-12.6433,0 0/0:101:101,0:101:3620:0:0:0,-30.404,-326.005 0/0:302:300,1:300:10673:1:36:0,-87.3716,-956.88 0/0:193:191,2:191:6773:2:72:0,-51.2621,-602.805 0/0:221:216,5:216:7694:5:176:0,-50.3426,-676.306 0/1:71:39,32:39:1400:32:1148:-82.2567,0,-104.926 0/0:43:43,0:43:1540:0:0:0,-12.9443,-138.893 0/0:95:95,0:95:3416:0:0:0,-28.5978,-307.653 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 0/0:46:46,0:46:1614:0:0:0,-13.8474,-145.545 0/1:439:384,55:384:13726:55:1972:-45.6027,0,-1102.96 0/1:36:28,8:28:993:8:288:-15.4303,0,-78.8454 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/0:19:19,0:19:680:0:0:0,-5.71957,-61.5292 chr11 30928937 . A C 10478.4 PASS AB=0.507788;ABP=3.51765;AC=12;AF=0.285714;AN=42;AO=590;CIGAR=1X;DP=2018;DPB=2018;DPRA=1.06733;EPP=1284.18;EPPR=3101.7;GTI=1;LEN=1;MEANALT=1.07692;MQM=53.9492;MQMR=59.7484;NS=21;NUMALT=1;ODDS=0.038455;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21105;QR=50939;RO=1427;RPL=0;RPP=1284.18;RPPR=3101.7;RPR=590;RUN=1;SAF=590;SAP=1284.18;SAR=0;SRF=1427;SRP=3101.7;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:93:92,1:92:3255:1:36:0,-24.4001,-288.706 0/0:66:66,0:66:2376:0:0:0,-19.868,-214.019 0/1:87:47,40:47:1673:40:1440:-103.352,0,-124.659 0/1:124:56,68:56:2004:68:2417:-180.036,0,-143.141 0/1:213:106,106:106:3808:106:3796:-277.245,0,-278.722 0/1:62:38,24:38:1353:24:856:-57.8876,0,-103.388 0/1:170:67,103:67:2404:103:3696:-279.945,0,-165.44 1/1:99:0,99:0:0:99:3532:-317.13,-29.802,0 0/0:201:201,0:201:7212:0:0:0,-60.507,-649.121 0/1:11:10,1:10:356:1:36:-0.281843,0,-29.0613 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:28:10,18:10:360:18:644:-49.6522,0,-24.3155 0/1:133:52,81:52:1864:81:2904:-221.034,0,-127.992 0/0:125:124,1:124:4406:1:36:0,-34.2826,-393.361 0/0:186:186,0:186:6631:0:0:0,-55.9916,-596.767 0/0:77:77,0:77:2737:0:0:0,-23.1793,-246.572 0/0:90:90,0:90:3205:0:0:0,-27.0927,-288.67 0/1:68:38,30:38:1356:30:1068:-75.7733,0,-101.861 0/1:67:49,18:49:1730:18:644:-37.9704,0,-135.798 0/0:71:71,0:71:2525:0:0:0,-21.3731,-227.491 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.237 chr11 30929058 . GT TC 27107.2 PASS AB=0.514231;ABP=4.8645;AC=31;AF=0.738095;AN=42;AO=1375;CIGAR=2X;DP=2045;DPB=2045;DPRA=0;EPP=2988.78;EPPR=1444.87;GTI=1;LEN=2;MEANALT=1.2381;MQM=59.9833;MQMR=60;NS=21;NUMALT=1;ODDS=0.0421121;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47746;QR=22539;RO=664;RPL=0;RPP=2988.78;RPPR=1444.87;RPR=1375;RUN=1;SAF=0;SAP=2988.78;SAR=1375;SRF=0;SRP=1444.87;SRR=664;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:70:0,70:0:0:70:2460:-221.653,-21.0721,0 1/1:83:0,83:0:0:83:2845:-256.286,-24.9855,0 0/1:136:56,78:56:1926:78:2716:-203.986,0,-132.916 0/1:129:51,78:51:1726:78:2716:-205.853,0,-116.786 0/1:185:117,67:117:3984:67:2337:-154.858,0,-303.028 0/1:89:26,63:26:895:63:2179:-169.58,0,-54.0711 0/1:200:97,103:97:3267:103:3561:-260.493,0,-234.048 0/0:154:153,1:153:5167:1:25:0,-43.8588,-462.691 1/1:119:2,116:2:72:116:4036:-356.597,-29.0446,0 1/1:4:0,4:0:0:4:142:-13.1292,-1.20412,0 1/1:5:0,5:0:0:5:165:-15.1747,-1.50515,0 0/1:28:14,14:14:465:14:498:-36.7267,0,-33.7369 0/1:90:48,42:48:1628:42:1477:-106.13,0,-119.709 1/1:116:0,116:0:0:116:4019:-361.886,-34.9195,0 1/1:147:0,147:0:0:147:5081:-457.444,-44.2514,0 1/1:68:0,68:0:0:68:2356:-212.294,-20.47,0 1/1:76:0,76:0:0:76:2683:-241.714,-22.8783,0 0/1:126:72,54:72:2434:54:1858:-129.566,0,-181.387 0/1:71:28,43:28:975:43:1465:-110.764,0,-66.689 1/1:97:0,95:0:0:95:3318:-298.481,-28.5979,0 1/1:52:0,52:0:0:52:1809:-163.089,-15.6536,0 chr11 30939635 . TAAAATC TAAATC 29213.6 PASS AB=0.512605;ABP=4.48836;AC=31;AF=0.738095;AN=42;AO=1684;CIGAR=1M1D5M;DP=2313;DPB=2071.86;DPRA=1.1301;EPP=3659.77;EPPR=1342.86;GTI=0;LEN=1;MEANALT=1.2;MQM=35.1758;MQMR=59.7936;NS=21;NUMALT=1;ODDS=10.4678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57803;QR=22003;RO=625;RPL=1684;RPP=3659.77;RPPR=1342.86;RPR=0;RUN=1;SAF=0;SAP=3659.77;SAR=1684;SRF=0;SRP=1360.18;SRR=625;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:129:1,127:1:36:127:4385:-359.216,-35.2386,0 1/1:84:0,84:0:0:84:2660:-217.423,-25.2865,0 0/1:144:83,61:83:2922:61:2148:-134.564,0,-219.864 0/1:142:82,59:82:2918:59:2095:-130.693,0,-220.154 0/1:154:71,83:71:2494:83:2899:-194.209,0,-178.343 0/1:119:49,70:49:1723:70:2220:-145.534,0,-119.531 0/1:132:44,88:44:1538:88:2787:-188.156,0,-98.9682 0/0:98:98,0:98:3421:0:0:0,-29.5009,-308.095 1/1:271:1,270:1:36:270:9567:-805.615,-77.9809,0 1/1:9:0,9:0:0:9:304:-25.2301,-2.70927,0 1/1:15:0,15:0:0:15:469:-38.6735,-4.51545,0 0/1:36:23,13:23:806:13:430:-24.8036,0,-62.0195 0/1:196:100,96:100:3550:96:3403:-222.714,0,-260.705 1/1:186:0,185:0:0:185:6449:-533.298,-55.6906,0 1/1:120:0,120:0:0:120:4217:-349.444,-36.1236,0 1/1:73:0,73:0:0:73:2516:-213.153,-21.9752,0 1/1:83:0,82:0:0:82:2913:-246.497,-24.6845,0 0/1:69:37,32:37:1291:32:1060:-66.6656,0,-95.6919 0/1:79:32,47:32:1124:47:1673:-114.524,0,-77.6848 1/1:109:2,107:2:72:107:3609:-290.338,-25.9755,0 1/1:65:2,63:2:72:63:1999:-156.645,-12.7474,0 chr11 30939642 . AGTCGT TGTTGA,TGTTGT 45283.4 PASS AB=0.528986,0.467391;ABP=11.0668,13.2068;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1772,618;CIGAR=1X2M1X1M1X,1X2M1X2M;DP=2399;DPB=2399;DPRA=1.17398,1.53305;EPP=3850.86,1344.98;EPPR=0;GTI=0;LEN=6,6;MEANALT=1.95,2.35714;MQM=35.1112,59.822;MQMR=0;NS=21;NUMALT=2;ODDS=13.9624;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62258,21865;QR=0;RO=0;RPL=1772,618;RPP=3850.86,1344.98;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3850.86,1344.98;SAR=1772,618;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:135:0,134,1:0:0:134,1:4663,36:-382.006,-40.338,0,-379.069,-37.0408,-378.768 1/1:85:0,84,0:0:0:84,0:2960,0:-227.897,-25.2865,0,-227.897,-25.2865,-227.897 1/2:150:0,66,83:0:0:66,83:2337,2945:-412.094,-239.927,-220.059,-172.145,0,-147.159 1/2:145:0,64,81:0:0:64,81:2236,2897:-402.132,-236.58,-217.314,-165.889,0,-141.505 1/2:161:0,90,69:0:0:90,69:3113,2422:-427.998,-197.101,-170.008,-230.875,0,-210.104 1/2:120:0,71,49:0:0:71,49:2514,1731:-312.728,-141.322,-119.949,-171.739,0,-156.988 1/2:136:0,92,43:0:0:92,43:3199,1515:-343.036,-123.398,-95.703,-219.673,0,-206.729 2/2:98:0,0,96:0:0:0,96:0,3359:-302.206,-302.206,-302.206,-28.8989,-28.8989,0 1/1:289:0,288,1:0:0:288,1:10138,36:-854.699,-86.6966,0,-851.761,-83.3994,-851.46 1/1:9:0,9,0:0:0:9,0:318,0:-25.7486,-2.70927,0,-25.7486,-2.70927,-25.7486 1/1:15:0,15,0:0:0:15,0:540,0:-41.5417,-4.51545,0,-41.5417,-4.51545,-41.5417 1/2:39:0,16,23:0:0:16,23:546,809:-105.416,-66.1997,-61.3833,-39.5407,0,-32.617 1/2:202:0,103,99:0:0:103,99:3642,3525:-557.802,-287.655,-256.649,-270.488,0,-240.686 1/1:192:0,192,0:0:0:192,0:6750,0:-552.802,-57.7978,0,-552.802,-57.7978,-552.802 1/1:126:0,125,0:0:0:125,0:4384,0:-363.277,-37.6288,0,-363.277,-37.6288,-363.277 1/1:77:0,77,0:0:0:77,0:2710,0:-227.048,-23.1793,0,-227.048,-23.1793,-227.048 1/1:86:0,86,0:0:0:86,0:3039,0:-256.912,-25.8886,0,-256.912,-25.8886,-256.912 1/2:69:0,32,37:0:0:32,37:1133,1324:-188.686,-108.293,-98.6596,-80.727,0,-69.5889 1/2:82:0,50,32:0:0:50,32:1762,1122:-221.531,-91.6486,-76.5971,-130.222,0,-120.589 1/1:113:0,110,2:0:0:110,2:3888,72:-312.342,-33.1133,0,-306.467,-27.2083,-305.865 1/1:70:0,68,2:0:0:68,2:2386,72:-183.99,-20.47,0,-178.13,-14.2526,-177.528 chr11 30971827 . T C 13889.6 PASS AB=0.57438;ABP=26.2684;AC=31;AF=0.738095;AN=42;AO=677;CIGAR=1X;DP=906;DPB=906;DPRA=2.10714;EPP=1473.1;EPPR=498.106;GTI=0;LEN=1;MEANALT=1.05;MQM=54.2097;MQMR=28.636;NS=21;NUMALT=1;ODDS=3.30301;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24124;QR=8147;RO=228;RPL=0;RPP=1473.1;RPPR=498.106;RPR=677;RUN=1;SAF=677;SAP=1473.1;SAR=0;SRF=228;SRP=498.106;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35:0:0:35:1243:-110.397,-10.5361,0 1/1:27:0,27:0:0:27:972:-87.5716,-8.12781,0 0/1:33:12,21:12:432:21:740:-56.4702,0,-21.5548 0/1:54:21,33:21:756:33:1167:-89.0039,0,-38.8969 0/1:83:30,53:30:1067:53:1888:-144.832,0,-52.4959 0/1:29:8,21:8:288:21:748:-58.7533,0,-9.94869 0/1:73:39,34:39:1384:34:1210:-86.838,0,-67.6891 0/0:21:21,0:21:756:0:0:0,-6.32163,-51.8272 1/1:39:0,39:0:0:39:1404:-126.454,-11.7402,0 1/1:7:0,7:0:0:7:252:-22.7427,-2.10721,0 1/1:4:0,4:0:0:4:144:-13.2801,-1.20412,0 0/1:14:5,9:5:180:9:316:-24.4725,0,-8.37211 0/1:76:40,36:40:1421:36:1268:-91.3502,0,-80.7364 1/1:50:1,49:1:36:49:1760:-155.581,-12.1487,0 1/1:45:0,45:0:0:45:1612:-144.125,-13.5464,0 1/1:29:0,29:0:0:29:1024:-92.311,-8.72987,0 1/1:53:0,53:0:0:53:1884:-169.739,-15.9546,0 0/1:43:20,23:20:711:23:818:-60.8618,0,-36.3188 0/1:79:31,48:31:1116:48:1707:-129.667,0,-56.5582 1/1:32:0,32:0:0:32:1144:-102.997,-9.63296,0 1/1:80:0,79:0:0:79:2823:-252.399,-23.7814,0 chr11 30971835 . GTACTTCTGT ATACTTATGG,ATACCTATGG 17056.8 PASS AB=0.564315,0.431535;ABP=20.328,22.6346;AC=31,11;AF=0.738095,0.261905;AN=42;AO=663,230;CIGAR=1X5M1X2M1X,1X3M1X1M1X2M1X;DP=903;DPB=903;DPRA=2.1,1.45664;EPP=1434.02,502.449;EPPR=0;GTI=0;LEN=10,10;MEANALT=1.95,2.09091;MQM=54.5264,28.6043;MQMR=0;NS=21;NUMALT=2;ODDS=3.64732;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23345,8104;QR=0;RO=0;RPL=1,0;RPP=1434.02,502.449;RPPR=0;RPR=662,230;RUN=1,1;SAF=663,230;SAP=1442.7,502.449;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,31,0:0:0:31,0:1068,0:-95.9545,-9.33193,0,-95.9545,-9.33193,-95.9545 1/1:26:0,26,0:0:0:26,0:877,0:-79.0539,-7.82678,0,-79.0539,-7.82678,-79.0539 1/2:32:0,18,12:0:0:18,12:626,430:-78.4365,-27.5462,-22.1277,-50.9025,0,-47.2901 1/2:55:0,34,21:0:0:34,21:1212,737:-147.146,-48.3891,-38.154,-99.0712,0,-92.7495 1/2:83:0,52,31:0:0:52,31:1832,1089:-219.285,-70.4525,-54.7989,-149.142,0,-139.81 1/2:28:0,20,8:0:0:20,8:718,270:-74.4064,-15.9206,-9.89997,-58.7674,0,-56.3592 1/2:73:0,34,39:0:0:34,39:1208,1389:-176.052,-78.0172,-67.7822,-98.3421,0,-86.6019 2/2:21:0,0,21:0:0:0,21:0,745:-51.6786,-51.6786,-51.6786,-6.32163,-6.32163,0 1/1:38:0,38,0:0:0:38,0:1332,0:-119.979,-11.4391,0,-119.979,-11.4391,-119.979 1/1:7:0,6,0:0:0:6,0:216,0:-19.2882,-1.80618,0,-19.2882,-1.80618,-19.2882 1/1:4:0,4,0:0:0:4,0:144,0:-13.2801,-1.20412,0,-13.2801,-1.20412,-13.2801 1/2:15:0,9,6:0:0:9,6:318,212:-38.4692,-12.6813,-9.97204,-26.0864,0,-24.2802 1/2:76:0,36,40:0:0:36,40:1274,1408:-195.31,-91.7054,-80.8683,-103.927,0,-91.8858 1/1:53:0,52,1:0:0:52,1:1845,35:-165.843,-15.6536,0,-163.552,-13.0738,-163.251 1/1:45:0,43,0:0:0:43,0:1513,0:-136.04,-12.9443,0,-136.04,-12.9443,-136.04 1/1:30:0,29,0:0:0:29,0:1002,0:-90.0409,-8.72987,0,-90.0409,-8.72987,-90.0409 1/1:54:0,54,0:0:0:54,0:1892,0:-170.456,-16.2556,0,-170.456,-16.2556,-170.456 1/2:42:0,22,20:0:0:22,20:784,705:-107.098,-43.2452,-36.6225,-64.1653,0,-58.1447 1/2:78:0,47,31:0:0:47,31:1655,1084:-204.731,-70.1807,-56.0323,-134.861,0,-125.529 1/1:32:0,30,0:0:0:30,0:1051,0:-94.4218,-9.0309,0,-94.4218,-9.0309,-94.4218 1/1:78:0,78,0:0:0:78,0:2778,0:-248.939,-23.4803,0,-248.939,-23.4803,-248.939 chr11 30971851 . GTC TTT 1996.47 PASS AB=0.42623;ABP=26.0777;AC=11;AF=0.261905;AN=42;AO=230;CIGAR=1X1M1X;DP=920;DPB=920;DPRA=1.42712;EPP=502.449;EPPR=1501.33;GTI=0;LEN=3;MEANALT=1;MQM=28.6043;MQMR=54.2246;NS=21;NUMALT=1;ODDS=2.08992;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8189;QR=24171;RO=690;RPL=230;RPP=502.449;RPPR=1501.33;RPR=0;RUN=1;SAF=230;SAP=502.449;SAR=0;SRF=690;SRP=1501.33;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:34:34,0:34:1175:0:0:0,-10.235,-105.016 0/0:29:29,0:29:1006:0:0:0,-8.72987,-90.6419 0/1:33:21,12:21:720:12:432:-21.5548,0,-54.8613 0/1:55:34,21:34:1193:21:744:-38.2237,0,-91.0385 0/1:84:53,31:53:1836:31:1112:-55.0528,0,-139.934 0/1:30:22,8:22:771:8:280:-9.49187,0,-60.5126 0/1:73:34,39:34:1197:39:1399:-67.87,0,-85.6741 1/1:21:0,21:0:0:21:737:-51.1203,-6.32163,0 0/0:39:39,0:39:1351:0:0:0,-11.7402,-121.706 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.4652 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.2801 0/1:15:9,6:9:322:6:214:-10.0179,0,-24.6839 0/1:76:36,40:36:1253:40:1406:-80.512,0,-90.0184 0/0:53:52,1:52:1847:1:36:0,-13.0518,-163.405 0/0:45:45,0:45:1586:0:0:0,-13.5463,-142.062 0/0:31:31,0:31:1077:0:0:0,-9.33193,-97.1151 0/0:55:55,0:55:1939:0:0:0,-16.5566,-174.685 0/1:43:23,20:23:800:20:713:-36.4704,0,-59.2687 0/1:79:48,31:48:1695:31:1116:-56.5582,0,-128.679 0/0:32:32,0:32:1126:0:0:0,-9.63296,-101.385 0/0:82:82,0:82:2885:0:0:0,-24.6845,-258.344 chr11 30972443 . T C 16958 PASS AB=0.448605;ABP=34.2591;AC=11;AF=0.261905;AN=42;AO=750;CIGAR=1X;DP=2889;DPB=2889;DPRA=1.41129;EPP=1631.61;EPPR=4639.11;GTI=0;LEN=1;MEANALT=1;MQM=59.9867;MQMR=60;NS=21;NUMALT=1;ODDS=17.4574;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26407;QR=76569;RO=2139;RPL=393;RPP=6.7626;RPPR=4.11583;RPR=357;RUN=1;SAF=393;SAP=6.7626;SAR=357;SRF=1052;SRP=4.2539;SRR=1087;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:156:155,1:155:5564:1:32:0,-43.7614,-497.683 0/0:134:134,0:134:4800:0:0:0,-40.338,-432.156 0/1:99:59,40:59:2105:40:1414:-97.7538,0,-159.915 0/1:116:61,55:61:2176:55:1939:-139.864,0,-161.187 0/1:197:120,77:120:4273:77:2705:-184.376,0,-325.443 0/1:151:81,70:81:2903:70:2491:-178.988,0,-216.049 0/1:190:107,83:107:3827:83:2969:-210.245,0,-287.431 1/1:131:0,131:0:0:131:4555:-410.121,-39.4349,0 0/0:211:208,3:208:7463:3:108:0,-53.4422,-661.636 0/0:45:45,0:45:1612:0:0:0,-13.5463,-145.37 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:42:19,23:19:684:23:809:-60.4861,0,-49.2471 0/1:189:107,82:107:3821:82:2901:-204.431,0,-287.191 0/0:127:125,2:125:4464:2:72:0,-31.3941,-395.095 0/0:208:208,0:208:7435:0:0:0,-62.6142,-669.196 0/0:111:110,1:110:3938:1:36:0,-29.8161,-351.012 0/0:83:83,0:83:2984:0:0:0,-24.9855,-268.791 0/1:224:97,127:97:3472:127:4451:-333.336,0,-245.261 0/1:154:100,54:100:3557:54:1889:-123.925,0,-273.98 0/0:153:152,1:152:5455:1:36:0,-42.4593,-487.478 0/0:155:155,0:155:5568:0:0:0,-46.6596,-501.241 chr11 30973360 . T C 62779 PASS AB=0.502655;ABP=3.11407;AC=31;AF=0.738095;AN=42;AO=2814;CIGAR=1X;DP=3864;DPB=3864;DPRA=0.906436;EPP=6113.53;EPPR=2280.88;GTI=0;LEN=1;MEANALT=1.05;MQM=44.7615;MQMR=51.8742;NS=21;NUMALT=1;ODDS=11.8398;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99012;QR=37311;RO=1049;RPL=1184;RPP=156.507;RPPR=139.734;RPR=1630;RUN=1;SAF=1184;SAP=156.507;SAR=1630;SRF=396;SRP=139.734;SRR=653;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:258:0,258:0:0:258:9095:-741.817,-77.6657,0 1/1:169:0,169:0:0:169:5932:-443.04,-50.8741,0 0/1:122:63,59:63:2236:59:2047:-134.181,0,-159.843 0/1:161:84,77:84:2988:77:2729:-160.142,0,-212.15 0/1:370:185,185:185:6604:185:6476:-421.443,0,-474.688 0/1:168:89,79:89:3175:79:2775:-153.588,0,-222.827 0/1:239:139,100:139:4950:100:3468:-199.148,0,-364.858 0/0:202:202,0:202:7175:0:0:0,-60.8081,-631.669 1/1:370:0,369:0:0:369:13017:-958.411,-111.08,0 1/1:33:0,33:0:0:33:1130:-87.2653,-9.93399,0 1/1:11:0,11:0:0:11:388:-35.2491,-3.31133,0 0/1:32:21,11:21:748:11:392:-24.2512,0,-57.1435 0/1:269:129,140:129:4600:140:4963:-321.802,0,-326.054 1/1:161:0,161:0:0:161:5635:-455.079,-48.4658,0 1/1:366:0,366:0:0:366:12977:-1049.61,-110.177,0 1/1:151:1,150:1:36:150:5269:-392.686,-41.8573,0 1/1:130:1,129:1:36:129:4556:-326.084,-35.8349,0 0/1:159:71,88:71:2520:88:3090:-189.388,0,-174.143 0/1:175:62,113:62:2175:113:3975:-257.565,0,-140.168 1/1:182:1,181:1:32:181:6395:-508.363,-51.5881,0 1/1:136:1,135:1:36:135:4703:-320.213,-37.6411,0 chr11 30973552 . T C 17272.9 PASS AB=0.730546;ABP=400.506;AC=12;AF=0.285714;AN=42;AO=893;CIGAR=1X;DP=1580;DPB=1580;DPRA=4.75648;EPP=1942.14;EPPR=1492.64;GTI=9;LEN=1;MEANALT=1.07692;MQM=59.9888;MQMR=60;NS=21;NUMALT=1;ODDS=6.48379;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31650;QR=24412;RO=686;RPL=1;RPP=1933.46;RPPR=1492.64;RPR=892;RUN=1;SAF=1;SAP=1933.46;SAR=892;SRF=0;SRP=1492.64;SRR=686;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:26,2:26:898:2:72:0,-1.59212,-74.2955 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/1:143:42,100:42:1500:100:3533:-275.114,0,-92.2275 0/1:109:25,84:25:892:84:2959:-233.729,0,-47.7874 0/1:179:17,162:17:603:162:5768:-465.354,0,-0.715136 1/1:72:5,67:5:180:67:2343:-194.575,-5.1221,0 0/1:134:15,119:15:540:119:4217:-339.372,0,-8.59852 1/1:191:0,191:0:0:191:6773:-609.647,-57.4967,0 0/0:81:80,1:80:2848:1:32:0,-21.1841,-253.36 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:20:9,11:9:324:11:387:-29.1453,0,-23.4853 0/1:170:72,98:72:2580:98:3499:-263.944,0,-181.274 0/0:71:71,0:71:2532:0:0:0,-21.3731,-228.132 0/0:50:50,0:50:1792:0:0:0,-15.0515,-161.562 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:51:24,27:24:856:27:955:-70.9123,0,-62.0086 0/1:55:27,28:27:960:28:1004:-74.1192,0,-70.1596 0/0:166:163,3:163:5787:3:108:0,-39.8958,-510.872 0/0:26:26,0:26:904:0:0:0,-7.82678,-81.6719 chr11 30979825 . G T 13105.6 PASS AB=0.621622;ABP=121.854;AC=11;AF=0.261905;AN=42;AO=704;CIGAR=1X;DP=1733;DPB=1733;DPRA=1.77025;EPP=1531.73;EPPR=2226.61;GTI=3;LEN=1;MEANALT=1;MQM=59.7045;MQMR=59.9874;NS=21;NUMALT=1;ODDS=1.69513;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25178;QR=36749;RO=1028;RPL=0;RPP=1531.73;RPPR=2226.61;RPR=704;RUN=1;SAF=704;SAP=1531.73;SAR=0;SRF=1028;SRP=2235.28;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:25,0:25:885:0:0:0,-7.52575,-79.6069 0/0:60:60,0:60:2152:0:0:0,-18.0618,-193.947 0/1:118:56,62:56:2016:62:2213:-163.909,0,-146.189 0/1:141:52,89:52:1853:89:3176:-243.529,0,-124.603 0/1:153:51,102:51:1824:102:3655:-282.918,0,-118.384 0/1:113:35,78:35:1260:78:2795:-217.757,0,-79.6891 0/1:150:60,90:60:2120:90:3217:-244.562,0,-145.912 1/1:128:0,128:0:0:128:4560:-410.506,-38.5318,0 0/0:118:118,0:118:4228:0:0:0,-35.5215,-380.7 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3052 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:35:18,17:18:644:17:612:-44.8774,0,-47.7545 0/1:153:38,115:38:1349:115:4126:-325.415,0,-75.6507 0/0:55:55,0:55:1949:0:0:0,-16.5566,-175.684 0/0:143:143,0:143:5117:0:0:0,-43.0473,-460.671 0/0:80:80,0:80:2864:0:0:0,-24.0824,-257.997 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.232 0/1:33:22,11:22:784:11:392:-25.6861,0,-60.9499 0/1:29:18,11:18:644:11:396:-27.2529,0,-49.5607 0/0:92:91,1:91:3268:1:36:0,-24.0965,-290.741 0/0:41:41,0:41:1464:0:0:0,-12.3422,-132.056 chr11 31004562 . AAA GAT,GAA 57056.1 PASS AB=0.487578,0.51087;ABP=4.73669,4.33207;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1898,790;CIGAR=1X1M1X,1X2M;DP=2695;DPB=2695;DPRA=1.00273,1.34266;EPP=4124.46,1718.47;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.95,2.23077;MQM=59.9536,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.03337;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66968,28051;QR=0;RO=0;RPL=0,0;RPP=4124.46,1718.47;RPPR=0;RPR=1898,790;RUN=1,1;SAF=0,0;SAP=4124.46,1718.47;SAR=1898,790;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:150:0,150,0:0:0:150,0:5267,0:-474.172,-45.1545,0,-474.172,-45.1545,-474.172 1/1:113:0,111,0:0:0:111,0:3932,0:-353.784,-33.4143,0,-353.784,-33.4143,-353.784 1/2:104:0,52,52:0:0:52,52:1845,1855:-301.897,-151.575,-135.922,-150.677,0,-135.024 1/2:205:0,91,113:0:0:91,113:3217,4018:-589.587,-327.581,-300.187,-262.148,0,-228.131 1/2:240:0,111,129:0:0:111,129:3952,4562:-694.018,-371.914,-338.499,-322.459,0,-283.627 1/2:171:0,102,69:0:0:102,69:3623,2447:-494.93,-199.714,-169.009,-295.57,0,-274.799 1/2:245:0,117,127:0:0:117,127:4120,4487:-700.827,-365.412,-330.191,-335.408,0,-297.178 2/2:128:0,0,128:0:0:0,128:0,4555:-410.119,-410.119,-410.119,-38.5318,-38.5318,0 1/1:235:0,235,0:0:0:235,0:8278,0:-745.043,-70.7421,0,-745.043,-70.7421,-745.043 1/1:16:0,16,0:0:0:16,0:574,0:-51.9943,-4.81648,0,-51.9943,-4.81648,-51.9943 1/1:12:0,12,0:0:0:12,0:427,0:-38.7684,-3.61236,0,-38.7684,-3.61236,-38.7684 1/2:38:0,24,14:0:0:24,14:849,489:-109.278,-40.1245,-32.8998,-69.5045,0,-65.2901 1/2:185:0,81,104:0:0:81,104:2862,3728:-537.469,-304.413,-280.03,-233.411,0,-202.104 1/1:162:0,161,0:0:0:161,0:5601,0:-503.855,-48.4658,0,-503.855,-48.4658,-503.855 1/1:183:0,181,1:0:0:181,1:6388,36:-574.658,-54.4864,0,-571.72,-51.549,-571.419 1/1:128:0,125,2:0:0:125,2:4436,72:-399.052,-37.6288,0,-393.177,-31.7539,-392.575 1/1:121:0,120,1:0:0:120,1:4234,36:-380.876,-36.1236,0,-377.938,-32.8264,-377.637 1/2:49:0,20,29:0:0:20,29:688,1018:-139.072,-83.2006,-77.18,-56.2182,0,-47.4884 1/2:51:0,30,21:0:0:30,21:1040,748:-145.847,-61.3237,-52.2928,-84.8751,0,-78.5534 1/1:105:0,105,0:0:0:105,0:3730,0:-335.903,-31.6082,0,-335.903,-31.6082,-335.903 1/1:54:0,54,0:0:0:54,0:1905,0:-171.727,-16.2556,0,-171.727,-16.2556,-171.727 chr11 31004725 . TGTG TGTA,CGTA 34455.6 PASS AB=0.474215,0.5213;ABP=8.16146,6.52555;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1099,565;CIGAR=3M1X,1X2M1X;DP=1673;DPB=1673;DPRA=0.778218,1.89701;EPP=2389.46,1229.89;EPPR=7.35324;GTI=2;LEN=1,4;MEANALT=1.75,2.45455;MQM=59.8963,59.0708;MQMR=60;NS=21;NUMALT=2;ODDS=0.0503349;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38794,19515;QR=59;RO=2;RPL=0,0;RPP=2389.46,1229.89;RPPR=7.35324;RPR=1099,565;RUN=1,1;SAF=0,0;SAP=2389.46,1229.89;SAR=1099,565;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:75:0,75,0:0:0:75,0:2640,0:-237.847,-22.5773,0,-237.847,-22.5773,-237.847 1/1:51:0,51,0:0:0:51,0:1808,0:-163.002,-15.3525,0,-163.002,-15.3525,-163.002 1/2:89:0,35,54:0:0:35,54:1225,1862:-251.24,-151.585,-141.049,-100.003,0,-83.7473 1/2:138:0,66,71:0:0:66,71:2319,2451:-387.862,-199.13,-179.262,-188.842,0,-167.469 1/2:167:0,74,93:0:0:74,93:2651,3234:-479.4,-263.194,-240.918,-216.559,0,-188.563 1/2:88:0,34,52:0:0:34,52:1205,1796:-244.059,-145.891,-135.656,-98.1877,0,-82.5341 1/2:144:1,67,76:1:23:67,76:2349,2644:-403.743,-213.264,-194.863,-189.129,0,-168.018 2/2:101:0,0,99:0:0:0,99:0,3440:-309.44,-309.44,-309.44,-29.802,-29.802,0 1/1:138:0,136,1:0:0:136,1:4802,33:-432.057,-40.9401,0,-429.389,-38.2219,-429.088 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:17:0,10,7:0:0:10,7:317,234:-44.7791,-19.2798,-16.2695,-25.8264,0,-23.7191 1/2:96:0,48,48:0:0:48,48:1708,1655:-273.471,-134.264,-119.815,-139.556,0,-125.107 1/1:84:0,84,0:0:0:84,0:2989,0:-269.241,-25.2865,0,-269.241,-25.2865,-269.241 1/1:86:0,86,0:0:0:86,0:3063,0:-275.899,-25.8886,0,-275.899,-25.8886,-275.899 1/1:74:0,74,0:0:0:74,0:2623,0:-236.318,-22.2762,0,-236.318,-22.2762,-236.318 1/1:55:1,54,0:1:36:54,0:1923,0:-169.748,-12.9584,0,-170.049,-16.2556,-172.987 1/2:85:0,45,40:0:0:45,40:1565,1378:-239.446,-112.2,-98.6534,-127.592,0,-115.551 1/2:68:0,44,24:0:0:44,24:1529,788:-188.312,-63.9928,-50.7475,-124.654,0,-117.43 1/1:56:0,55,0:0:0:55,0:1946,0:-174.865,-16.5567,0,-174.865,-16.5567,-174.865 1/1:48:0,48,0:0:0:48,0:1664,0:-150.041,-14.4494,0,-150.041,-14.4494,-150.041 chr11 31028956 . A G 44764.5 PASS AB=0.56102;ABP=38.5212;AC=31;AF=0.738095;AN=42;AO=1692;CIGAR=1X;DP=2296;DPB=2296;DPRA=0.89876;EPP=366.237;EPPR=3.14016;GTI=0;LEN=1;MEANALT=1.1;MQM=59.7305;MQMR=59.9136;NS=21;NUMALT=1;ODDS=14.9819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=60118;QR=21497;RO=602;RPL=1112;RPP=366.237;RPPR=3.14016;RPR=580;RUN=1;SAF=0;SAP=3677.14;SAR=1692;SRF=0;SRP=1310.24;SRR=602;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:177:0,177:0:0:177:6322:-568.872,-53.2823,0 1/1:113:0,113:0:0:113:3982:-358.537,-34.0164,0 0/1:82:39,43:39:1383:43:1548:-114.911,0,-100.068 0/1:137:62,75:62:2232:75:2663:-198.657,0,-159.898 0/1:224:89,134:89:3177:134:4750:-360.064,0,-218.663 0/1:138:69,69:69:2452:69:2427:-177.133,0,-179.391 0/1:156:69,87:69:2472:87:3103:-232.512,0,-174.996 0/0:121:121,0:121:4319:0:0:0,-36.4246,-388.887 1/1:188:0,188:0:0:188:6714:-604.268,-56.5936,0 1/1:13:0,13:0:0:13:459:-41.642,-3.91339,0 1/1:14:0,14:0:0:14:496:-44.971,-4.21442,0 0/1:24:7,17:7:252:17:589:-45.9979,0,-15.8042 0/1:182:93,89:93:3328:89:3158:-229.654,0,-244.951 1/1:88:0,88:0:0:88:3123:-281.283,-26.4906,0 1/1:136:0,135:0:0:135:4795:-431.335,-40.6391,0 1/1:87:0,87:0:0:87:3103:-279.43,-26.1896,0 1/1:63:0,63:0:0:63:2238:-201.682,-18.9649,0 0/1:53:25,28:25:891:28:991:-73.5471,0,-64.5542 0/1:102:28,74:28:991:74:2647:-207.768,0,-58.7985 1/1:128:0,128:0:0:128:4536:-408.408,-38.5318,0 1/1:70:0,70:0:0:70:2474:-222.895,-21.0721,0 chr11 31028989 . A T 39955.4 PASS AB=0.559772;ABP=79.0685;AC=11;AF=0.261905;AN=42;AO=1659;CIGAR=1X;DP=4898;DPB=4898;DPRA=1.13601;EPP=3605.48;EPPR=7036.41;GTI=2;LEN=1;MEANALT=1;MQM=59.9705;MQMR=59.8268;NS=21;NUMALT=1;ODDS=7.52578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59351;QR=115994;RO=3239;RPL=612;RPP=250.688;RPPR=10.4016;RPR=1047;RUN=1;SAF=1047;SAP=250.688;SAR=612;SRF=1567;SRP=10.4016;SRR=1672;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:286:284,2:284:10165:2:72:0,-79.2579,-907.913 0/0:216:216,0:216:7733:0:0:0,-65.0225,-695.917 0/1:144:72,72:72:2588:72:2561:-187.377,0,-189.82 0/1:297:129,168:129:4624:168:6002:-450.872,0,-326.892 0/1:395:235,160:235:8424:160:5724:-396.335,0,-639.092 0/1:224:124,100:124:4432:100:3573:-254.345,0,-331.613 0/1:332:163,169:163:5836:169:6064:-445.919,0,-425.386 1/1:285:2,283:2:72:283:10164:-907.847,-78.9568,0 0/0:467:467,0:467:16694:0:0:0,-140.581,-1502.05 0/0:30:29,1:29:1040:1:36:0,-5.43262,-90.3115 0/0:24:24,0:24:856:0:0:0,-7.22472,-77.3529 0/1:271:30,241:30:1076:241:8624:-694.577,0,-15.5186 0/1:294:138,156:138:4948:156:5553:-411.371,0,-356.946 0/0:218:218,0:218:7824:0:0:0,-65.6245,-703.201 0/0:238:238,0:238:8521:0:0:0,-71.6451,-766.873 0/0:162:162,0:162:5812:0:0:0,-48.7669,-522.567 0/0:156:156,0:156:5604:0:0:0,-46.9607,-504.479 0/1:329:75,254:75:2657:254:9070:-717.241,0,-140.332 0/1:165:113,52:113:4052:52:1872:-119.089,0,-315.194 0/0:240:240,0:240:8592:0:0:0,-72.2472,-773.276 0/0:125:124,1:124:4444:1:36:0,-34.0305,-396.516 chr11 31028992 . G A 31793.3 PASS AB=0.411658;ABP=77.4416;AC=30;AF=0.714286;AN=42;AO=1558;CIGAR=1X;DP=2600;DPB=2600;DPRA=0;EPP=3386.16;EPPR=2265.68;GTI=2;LEN=1;MEANALT=1;MQM=59.957;MQMR=60;NS=21;NUMALT=1;ODDS=13.701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55461;QR=37257;RO=1042;RPL=0;RPP=3386.16;RPPR=2265.68;RPR=1558;RUN=1;SAF=1558;SAP=3386.16;SAR=0;SRF=1042;SRP=2265.68;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:2,107:2:68:107:3813:-336.909,-26.3546,0 1/1:112:0,112:0:0:112:3977:-358.117,-33.7154,0 0/1:62:31,31:31:1097:31:1108:-81.3671,0,-80.3742 0/1:161:108,53:108:3868:53:1904:-123.172,0,-299.849 0/1:168:68,100:68:2429:100:3576:-271.475,0,-168.291 0/1:93:35,58:35:1260:58:2053:-157.044,0,-85.7097 0/1:176:97,79:97:3453:79:2783:-197.726,0,-258.001 0/0:166:165,1:165:5905:1:36:0,-46.3727,-527.959 1/1:275:0,275:0:0:275:9832:-884.826,-82.7833,0 1/1:16:1,15:1:36:15:540:-45.3383,-1.21821,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/0:241:228,13:228:8149:13:453:0,-31.4486,-692.325 0/1:106:57,49:57:2040:49:1756:-126.415,0,-151.963 1/1:129:0,129:0:0:129:4552:-409.656,-38.8329,0 1/1:101:0,101:0:0:101:3605:-324.655,-30.404,0 1/1:80:0,80:0:0:80:2868:-257.501,-24.0824,0 1/1:95:0,95:0:0:95:3369:-303.427,-28.5979,0 0/1:271:226,45:226:8088:45:1593:-62.0792,0,-646.359 0/1:61:24,37:24:864:37:1328:-101.459,0,-59.7197 1/1:113:0,113:0:0:113:3987:-359.018,-34.0164,0 1/1:55:0,55:0:0:55:1972:-177.755,-16.5567,0 chr11 31029024 . T C 35409.2 PASS AB=0.52753;ABP=15.5643;AC=12;AF=0.285714;AN=42;AO=1491;CIGAR=1X;DP=4450;DPB=4450;DPRA=1.82706;EPP=3197.39;EPPR=6339.66;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.9946;MQMR=59.9872;NS=21;NUMALT=1;ODDS=9.3216;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53174;QR=105920;RO=2958;RPL=1045;RPP=525.563;RPPR=19.5276;RPR=446;RUN=1;SAF=1050;SAP=543.156;SAR=441;SRF=1564;SRP=24.2258;SRR=1394;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:221:218,3:218:7805:3:104:0,-56.8248,-692.775 0/0:206:206,0:206:7365:0:0:0,-62.0122,-662.897 0/1:96:57,39:57:2037:39:1396:-97.0402,0,-154.701 0/1:247:105,142:105:3776:142:5062:-381.371,0,-265.683 0/1:366:208,158:208:7460:158:5636:-397.178,0,-561.263 0/1:181:111,70:111:3954:70:2507:-171.395,0,-301.563 0/1:345:155,190:155:5564:190:6763:-504.887,0,-397.027 1/1:240:1,239:1:21:239:8517:-764.43,-70.1473,0 0/0:422:421,1:421:15074:1:36:0,-123.436,-1352.78 0/0:36:35,1:35:1241:1:36:0,-7.2388,-108.394 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 1/1:258:22,236:22:792:236:8416:-685.84,-6.06007,0 0/1:195:102,93:102:3649:93:3313:-239.687,0,-269.912 0/0:203:202,1:202:7229:1:36:0,-57.5108,-646.976 0/0:291:290,1:290:10420:1:36:0,-84.0015,-934.115 0/0:155:155,0:155:5552:0:0:0,-46.6596,-499.804 0/0:163:161,1:161:5746:1:36:0,-45.4735,-513.71 0/1:346:82,264:82:2944:264:9412:-742.888,0,-161.037 0/1:131:81,50:81:2871:50:1796:-122.487,0,-219.188 0/0:213:212,1:212:7616:1:36:0,-60.5211,-681.875 0/0:124:123,1:123:4408:1:36:0,-33.7294,-393.294 chr11 31048005 . G A 4586.5 PASS AB=0.296948;ABP=308.128;AC=11;AF=0.261905;AN=42;AO=335;CIGAR=1X;DP=2192;DPB=2192;DPRA=0.993372;EPP=730.454;EPPR=4033.26;GTI=0;LEN=1;MEANALT=1;MQM=59.9761;MQMR=59.9768;NS=21;NUMALT=1;ODDS=18.931;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11972;QR=66213;RO=1856;RPL=335;RPP=730.454;RPPR=4033.26;RPR=0;RUN=1;SAF=335;SAP=730.454;SAR=0;SRF=1856;SRP=4033.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:216:214,2:214:7649:2:72:0,-58.1858,-681.609 0/0:105:105,0:105:3740:0:0:0,-31.6081,-336.802 0/1:72:48,24:48:1713:24:864:-56.4084,0,-132.78 0/1:111:88,23:88:3136:23:828:-41.4298,0,-249.05 0/1:191:133,58:133:4742:58:2060:-128.173,0,-369.438 0/1:107:85,22:85:3028:22:761:-36.5937,0,-240.541 0/1:102:70,32:70:2520:32:1148:-72.9248,0,-196.346 1/1:78:0,78:0:0:78:2808:-252.959,-23.4803,0 0/0:206:205,0:205:7360:0:0:0,-61.7111,-662.235 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:29:16,13:16:572:13:468:-33.7298,0,-43.0836 0/1:118:89,29:89:3169:29:1044:-58.7533,0,-249.912 0/0:84:84,0:84:2997:0:0:0,-25.2865,-269.961 0/0:152:152,0:152:5400:0:0:0,-45.7566,-485.858 0/0:116:116,0:116:4118:0:0:0,-34.9195,-370.804 0/0:191:191,0:191:6806:0:0:0,-57.4967,-612.612 0/1:69:34,35:34:1204:35:1241:-91.2214,0,-87.8948 0/1:53:36,17:36:1284:17:612:-39.4588,0,-99.9088 0/0:103:101,2:101:3592:2:66:0,-24.7381,-317.221 0/0:67:67,0:67:2391:0:0:0,-20.169,-215.447 chr11 31048097 . CGTCA AGTCG,AGTGG 37984.1 PASS AB=0.651926,0.343795;ABP=143.549,151.578;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1467,320;CIGAR=1X3M1X,1X2M2X;DP=1792;DPB=1792;DPRA=1.11364,0.72046;EPP=3188.56,697.881;EPPR=0;GTI=1;LEN=5,5;MEANALT=1.8,2.16667;MQM=59.6108,59.6938;MQMR=0;NS=21;NUMALT=2;ODDS=10.1445;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51623,11222;QR=0;RO=0;RPL=0,0;RPP=3188.56,697.881;RPPR=0;RPR=1467,320;RUN=1,1;SAF=0,0;SAP=3188.56,697.881;SAR=1467,320;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:0,147,0:0:0:147,0:5119,0:-460.759,-44.2514,0,-460.759,-44.2514,-460.759 1/1:105:0,105,0:0:0:105,0:3709,0:-333.915,-31.6082,0,-333.915,-31.6082,-333.915 1/2:101:0,55,46:0:0:55,46:1967,1629:-293.416,-133.045,-116.488,-160.727,0,-146.88 1/2:56:0,31,25:0:0:31,25:1083,880:-160.07,-71.9911,-62.6592,-88.4291,0,-80.9034 1/2:159:0,118,40:0:0:118,40:4151,1407:-452.448,-114.572,-79.0503,-337.918,0,-325.877 1/2:63:0,41,22:0:0:41,22:1447,751:-179.119,-61.2814,-48.9392,-118.182,0,-111.56 1/2:126:0,79,45:0:0:79,45:2790,1574:-355.181,-128.065,-104.283,-227.136,0,-213.59 2/2:77:0,0,77:0:0:0,77:0,2685:-241.894,-241.894,-241.894,-23.1793,-23.1793,0 1/1:135:0,135,0:0:0:135,0:4755,0:-428.052,-40.6391,0,-428.052,-40.6391,-428.052 1/1:30:0,29,1:0:0:29,1:1018,36:-91.5717,-8.72987,0,-88.634,-5.43263,-88.333 1/1:15:0,15,0:0:0:15,0:518,0:-46.9458,-4.51545,0,-46.9458,-4.51545,-46.9458 1/2:51:0,31,20:0:0:31,20:1096,715:-147.915,-58.6526,-49.3207,-89.6177,0,-83.5971 1/2:32:0,26,6:0:0:26,6:902,198:-89.658,-16.3382,-8.51144,-73.6529,0,-71.8467 1/1:111:0,111,0:0:0:111,0:3904,0:-351.523,-33.4143,0,-351.523,-33.4143,-351.523 1/1:203:0,202,0:0:0:202,0:7119,0:-640.378,-60.8081,0,-640.378,-60.8081,-640.378 1/1:70:0,69,1:0:0:69,1:2433,36:-218.858,-20.7711,0,-215.928,-17.4829,-215.627 1/1:106:0,106,0:0:0:106,0:3742,0:-336.95,-31.9092,0,-336.95,-31.9092,-336.95 1/2:72:0,45,27:0:0:45,27:1573,952:-205.747,-77.8299,-64.2835,-128.268,0,-120.141 1/2:41:0,31,10:0:0:31,10:1104,359:-119.62,-29.641,-20.309,-90.3367,0,-87.3264 1/1:54:0,53,0:0:0:53,0:1862,0:-167.559,-15.9546,0,-167.559,-15.9546,-167.559 1/1:38:0,38,0:0:0:38,0:1331,0:-120.09,-11.4391,0,-120.09,-11.4391,-120.09 chr11 31048120 . CTTG ATTC,ATTG 38356.3 PASS AB=0.654286,0.344286;ABP=147.742,150.435;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1469,317;CIGAR=1X2M1X,1X3M;DP=1789;DPB=1789;DPRA=1.14267,0.743718;EPP=3192.9,691.367;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.65,2;MQM=59.5848,59.6625;MQMR=0;NS=21;NUMALT=2;ODDS=11.5639;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51931,11285;QR=0;RO=0;RPL=1469,317;RPP=3192.9,691.367;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3192.9,691.367;SAR=1469,317;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:0,147,0:0:0:147,0:5142,0:-462.688,-44.2514,0,-462.688,-44.2514,-462.688 1/1:105:0,105,0:0:0:105,0:3754,0:-337.978,-31.6082,0,-337.978,-31.6082,-337.978 1/2:100:0,55,45:0:0:55,45:1955,1607:-290.667,-131.366,-114.809,-159.657,0,-146.111 1/2:56:0,31,25:0:0:31,25:1105,896:-163.487,-73.4346,-64.1027,-90.4099,0,-82.8841 1/2:159:0,117,41:0:0:117,41:4096,1453:-451.578,-118.348,-83.1273,-333.223,0,-320.881 1/2:63:0,41,22:0:0:41,22:1433,788:-181.188,-64.6221,-52.2799,-116.921,0,-110.298 1/2:127:0,81,46:0:0:81,46:2867,1629:-366.406,-133.018,-108.635,-233.742,0,-219.895 2/2:75:0,0,75:0:0:0,75:0,2644:-238.201,-238.201,-238.201,-22.5773,-22.5773,0 1/1:135:0,133,0:0:0:133,0:4704,0:-423.158,-40.037,0,-423.158,-40.037,-423.158 1/1:30:0,29,1:0:0:29,1:1025,36:-92.2029,-8.72987,0,-89.2652,-5.43263,-88.9642 1/1:15:0,15,0:0:0:15,0:524,0:-47.4889,-4.51545,0,-47.4889,-4.51545,-47.4889 1/2:51:0,31,20:0:0:31,20:1096,720:-148.364,-59.1036,-49.7716,-89.6179,0,-83.5973 1/2:31:0,26,5:0:0:26,5:923,180:-90.2382,-15.0469,-7.22013,-75.5503,0,-74.0452 1/1:111:0,111,0:0:0:111,0:3931,0:-353.933,-33.4143,0,-353.933,-33.4143,-353.933 1/1:203:0,203,0:0:0:203,0:7181,0:-646.309,-61.1091,0,-646.309,-61.1091,-646.309 1/1:70:0,70,0:0:0:70,0:2489,0:-224.248,-21.0721,0,-224.248,-21.0721,-224.248 1/1:106:0,106,0:0:0:106,0:3767,0:-339.184,-31.9092,0,-339.184,-31.9092,-339.184 1/2:72:0,45,27:0:0:45,27:1598,972:-209.794,-79.6335,-66.0871,-130.519,0,-122.391 1/2:41:0,31,10:0:0:31,10:1082,360:-117.727,-29.7316,-20.3997,-88.3522,0,-85.3419 1/1:54:0,54,0:0:0:54,0:1922,0:-173.239,-16.2556,0,-173.239,-16.2556,-173.239 1/1:38:0,38,0:0:0:38,0:1337,0:-120.627,-11.4391,0,-120.627,-11.4391,-120.627 chr11 31048139 . A T 57117.3 PASS AB=0.632634;ABP=163.144;AC=31;AF=0.738095;AN=42;AO=2125;CIGAR=1X;DP=2629;DPB=2629;DPRA=1.145;EPP=4617.39;EPPR=1097.43;GTI=0;LEN=1;MEANALT=1;MQM=59.7125;MQMR=59.7163;NS=21;NUMALT=1;ODDS=41.2627;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76163;QR=18036;RO=504;RPL=1444;RPP=597.911;RPPR=75.8236;RPR=681;RUN=1;SAF=681;SAP=597.911;SAR=1444;SRF=187;SRP=75.8236;SRR=317;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:234:1,233:1:36:233:8352:-747.848,-66.8427,0 1/1:141:1,140:1:36:140:5012:-447.435,-38.847,0 0/1:124:52,72:52:1868:72:2580:-195.043,0,-131.067 0/1:85:32,53:32:1140:53:1908:-146.395,0,-77.3217 0/1:272:94,178:94:3364:178:6392:-493.463,0,-220.716 0/1:90:26,64:26:932:64:2296:-179.803,0,-57.1062 0/1:195:76,119:76:2724:119:4264:-325.088,0,-186.68 0/0:110:110,0:110:3928:0:0:0,-33.1133,-353.705 1/1:273:1,272:1:32:272:9733:-872.878,-79.2821,0 1/1:32:1,31:1:36:31:1112:-96.7931,-6.03469,0 1/1:17:0,17:0:0:17:604:-54.6902,-5.11751,0 0/1:53:22,31:22:784:31:1108:-84.0764,0,-54.9247 0/1:71:24,47:24:856:47:1688:-130.82,0,-55.988 1/1:155:2,153:2:72:153:5492:-487.515,-39.8229,0 1/1:233:1,232:1:36:232:8308:-744.073,-66.5417,0 1/1:116:0,116:0:0:116:4172:-375.635,-34.9195,0 1/1:117:1,116:1:36:116:4145:-369.59,-31.6222,0 0/1:92:38,54:38:1364:54:1936:-146.777,0,-95.3343 0/1:66:21,45:21:756:45:1616:-125.862,0,-48.4945 1/1:81:1,80:1:36:80:2872:-255.118,-20.7852,0 1/1:72:0,72:0:0:72:2573:-231.808,-21.6742,0 chr11 31050837 . C T 9755.88 PASS AB=0.478664;ABP=7.27267;AC=11;AF=0.261905;AN=42;AO=571;CIGAR=1X;DP=1981;DPB=1981;DPRA=1.39386;EPP=1234.25;EPPR=3062.61;GTI=0;LEN=1;MEANALT=1;MQM=59.2259;MQMR=59.829;NS=21;NUMALT=1;ODDS=4.41488;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20400;QR=50190;RO=1409;RPL=1;RPP=1234.25;RPPR=3062.61;RPR=570;RUN=1;SAF=571;SAP=1242.92;SAR=0;SRF=1409;SRP=3062.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:142:142,0:142:5037:0:0:0,-42.7463,-453.374 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 0/1:101:43,58:43:1532:58:2080:-156.836,0,-107.713 0/1:129:74,55:74:2635:55:1956:-137.434,0,-198.564 0/1:254:123,131:123:4355:131:4670:-343.574,0,-315.63 0/1:154:95,59:95:3387:59:2095:-141.738,0,-258.687 0/1:187:93,94:93:3327:94:3364:-246.449,0,-243.319 1/1:53:0,53:0:0:53:1883:-169.734,-15.9546,0 0/0:144:144,0:144:5140:0:0:0,-43.3483,-462.116 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:26:13,13:13:464:13:468:-34.6282,0,-34.2707 0/1:87:33,54:33:1184:54:1940:-148.507,0,-80.6787 0/0:113:113,0:113:4012:0:0:0,-34.0164,-361.186 0/0:105:104,0:104:3711:0:0:0,-31.3071,-333.489 0/0:65:65,0:65:2324:0:0:0,-19.5669,-209.42 0/0:102:102,0:102:3621:0:0:0,-30.7051,-326.096 0/1:56:30,26:30:1055:26:936:-67.6926,0,-78.4023 0/1:84:58,26:58:2059:26:936:-59.2659,0,-160.285 0/0:68:66,2:66:2368:2:72:0,-13.6333,-206.541 0/0:47:47,0:47:1679:0:0:0,-14.1484,-151.383 chr11 31050939 . C T 10386.5 PASS AB=0.44;ABP=39.7516;AC=11;AF=0.261905;AN=42;AO=613;CIGAR=1X;DP=2522;DPB=2522;DPRA=1.19048;EPP=1334.12;EPPR=4148.35;GTI=0;LEN=1;MEANALT=1;MQM=59.9706;MQMR=60;NS=21;NUMALT=1;ODDS=18.4546;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21858;QR=68041;RO=1909;RPL=613;RPP=1334.12;RPPR=4148.35;RPR=0;RUN=1;SAF=0;SAP=1334.12;SAR=613;SRF=0;SRP=4148.35;SRR=1909;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:93:93,0:93:3310:0:0:0,-27.9958,-298.116 0/0:139:139,0:139:4950:0:0:0,-41.8432,-445.649 0/1:111:51,60:51:1817:60:2122:-157.831,0,-130.395 0/1:107:60,47:60:2133:47:1653:-116.845,0,-160.026 0/1:253:160,93:160:5717:93:3334:-224.116,0,-438.486 0/1:102:66,36:66:2368:36:1296:-86.2389,0,-182.673 0/1:189:109,80:109:3874:80:2826:-197.684,0,-291.959 1/1:95:0,95:0:0:95:3397:-305.943,-28.5979,0 0/0:206:206,0:206:7312:0:0:0,-62.0122,-658.131 0/0:29:29,0:29:1025:0:0:0,-8.72987,-92.5607 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:42:16,26:16:557:26:921:-70.5619,0,-37.8123 0/1:140:69,71:69:2472:71:2537:-186.433,0,-180.59 0/0:136:136,0:136:4865:0:0:0,-40.9401,-438.002 0/0:138:138,0:138:4907:0:0:0,-41.5421,-441.779 0/0:127:127,0:127:4544:0:0:0,-38.2308,-409.127 0/0:147:147,0:147:5238:0:0:0,-44.2514,-471.557 0/1:158:75,83:75:2681:83:2984:-221.229,0,-193.971 0/1:73:52,21:52:1857:21:752:-46.0311,0,-145.433 0/0:160:159,1:159:5681:1:36:0,-44.5665,-507.81 0/0:68:68,0:68:2413:0:0:0,-20.47,-217.425 chr11 31062923 . C T 8014.55 PASS AB=0.493294;ABP=3.27243;AC=11;AF=0.261905;AN=42;AO=445;CIGAR=1X;DP=1299;DPB=1299;DPRA=2.11544;EPP=969.316;EPPR=1857.45;GTI=1;LEN=1;MEANALT=1;MQM=59.982;MQMR=60;NS=21;NUMALT=1;ODDS=1.32895;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15940;QR=30291;RO=854;RPL=445;RPP=969.316;RPPR=1857.45;RPR=0;RUN=1;SAF=445;SAP=969.316;SAR=0;SRF=854;SRP=1857.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:46,1:46:1627:1:36:0,-10.5501,-143.12 0/0:33:33,0:33:1156:0:0:0,-9.93399,-104.344 0/1:109:39,70:39:1377:70:2493:-191.809,0,-91.4144 0/1:95:38,57:38:1360:57:2048:-155.994,0,-94.1027 0/1:62:32,30:32:1140:30:1080:-78.8412,0,-84.2453 0/1:17:6,11:6:212:11:396:-30.8652,0,-14.3073 0/1:53:28,25:28:972:25:891:-64.5542,0,-71.8346 1/1:112:0,112:0:0:112:4024:-362.347,-33.7154,0 0/0:105:105,0:105:3749:0:0:0,-31.6081,-337.609 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:37:21,16:21:741:16:576:-41.0369,0,-55.8735 0/1:172:98,74:98:3485:74:2646:-186.61,0,-262.084 0/0:78:78,0:78:2792:0:0:0,-23.4803,-251.52 0/0:52:52,0:52:1842:0:0:0,-15.6536,-166.059 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:62:26,36:26:919:36:1282:-97.0186,0,-64.3623 0/1:64:52,12:52:1851:12:432:-19.9553,0,-147.603 0/0:129:128,1:128:4505:1:36:0,-35.2346,-402.021 0/0:32:32,0:32:1131:0:0:0,-9.63296,-102.098 chr11 31064130 . ACCGGCA ATCAGGCA,ACCAGGCA 40626.5 PASS AB=0.465081,0.53185;ABP=16.8107,14.4909;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2062,795;CIGAR=1M1I1M1X4M,3M1I4M;DP=2874;DPB=3284.14;DPRA=1.43144,0.876792;EPP=4480.59,1729.33;EPPR=0;GTI=0;LEN=8,1;MEANALT=2.4,2.33333;MQM=32.0242,26.8629;MQMR=0;NS=21;NUMALT=2;ODDS=12.8115;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65481,21322;QR=0;RO=0;RPL=2062,795;RPP=4480.59,1729.33;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4480.59,1729.33;SAR=2062,795;SRF=0;SRP=0;SRR=0;TYPE=complex,ins GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,122,0:0:0:122,0:4061,0:-333.283,-36.7257,0,-333.283,-36.7257,-333.283 1/1:164:0,164,0:0:0:164,0:3924,0:-309.068,-49.3689,0,-309.068,-49.3689,-309.068 1/2:124:0,54,70:0:0:54,70:1791,2078:-277.93,-147.265,-131.01,-130.951,0,-109.879 1/2:196:0,76,118:0:0:76,118:2504,3477:-428.743,-245.926,-223.047,-182.848,0,-147.327 1/2:310:0,165,143:0:0:165,143:5457,4210:-695.978,-297.492,-247.822,-398.513,0,-355.466 1/2:161:0,62,99:0:0:62,99:1486,2382:-256.414,-158.087,-139.423,-98.5371,0,-68.7351 1/2:226:0,97,129:0:0:97,129:2326,3094:-358.924,-204.988,-175.788,-154.146,0,-115.313 2/2:97:0,0,97:0:0:0,97:0,2322:-182.986,-182.986,-182.986,-29.1999,-29.1999,0 1/1:210:0,208,0:0:0:208,0:7349,0:-607.513,-62.6142,0,-607.513,-62.6142,-607.513 1/1:27:0,23,3:0:0:23,3:686,72:-55.5735,-6.92369,0,-50.8131,-2.13479,-49.91 1/1:26:0,26,0:0:0:26,0:624,0:-49.3461,-7.82678,0,-49.3461,-7.82678,-49.3461 1/2:53:0,31,22:0:0:31,22:966,524:-104.202,-34.8032,-25.4712,-69.638,0,-63.0154 1/2:123:0,58,65:0:0:58,65:1950,1934:-280.19,-137.389,-119.929,-143.09,0,-123.523 1/1:132:0,130,0:0:0:130,0:4343,0:-356.982,-39.1339,0,-356.982,-39.1339,-356.982 1/1:254:0,249,0:0:0:249,0:8340,0:-685.152,-74.9565,0,-685.152,-74.9565,-685.152 1/1:170:0,168,0:0:0:168,0:5809,0:-480.754,-50.573,0,-480.754,-50.573,-480.754 1/1:196:0,196,0:0:0:196,0:6881,0:-569.194,-59.0019,0,-569.194,-59.0019,-569.194 1/2:80:0,42,38:0:0:42,38:1308,911:-154.352,-60.6077,-47.9644,-93.9885,0,-82.5494 1/2:30:0,21,9:0:0:21,9:698,270:-70.3708,-19.4241,-13.1024,-51.2265,0,-48.5173 1/1:122:0,120,2:0:0:120,2:3778,48:-307.883,-36.1236,0,-304.707,-32.736,-304.105 1/1:50:0,50,0:0:0:50,0:1200,0:-94.7026,-15.0515,0,-94.7026,-15.0515,-94.7026 chr11 31064140 . ATT GTT,GTG 42834.5 PASS AB=0.453254,0.546746;ABP=28.3875,28.3875;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2059,838;CIGAR=1X2M,1X1M1X;DP=2900;DPB=2900;DPRA=1.38564,0.906512;EPP=4474.07,1822.7;EPPR=5.18177;GTI=0;LEN=1,3;MEANALT=1.65,2;MQM=31.9738,26.8687;MQMR=49;NS=21;NUMALT=2;ODDS=6.73098;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=65666,29746;QR=36;RO=1;RPL=2059,838;RPP=4474.07,1822.7;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4474.07,1822.7;SAR=2059,838;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:123:0,123,0:0:0:123,0:4108,0:-336.794,-37.0267,0,-336.794,-37.0267,-336.794 1/1:160:0,160,0:0:0:160,0:3828,0:-301.508,-48.1648,0,-301.508,-48.1648,-301.508 1/2:126:0,53,73:0:0:53,73:1767,2576:-294.138,-165.407,-149.452,-129.026,0,-107.051 1/2:204:0,77,127:0:0:77,127:2557,4523:-473.984,-287.798,-264.619,-186.482,0,-148.251 1/2:318:0,165,153:0:0:165,153:5495,5478:-747.189,-346.412,-296.742,-401.071,0,-355.014 1/2:163:0,62,101:0:0:62,101:1486,3586:-283.774,-185.457,-166.793,-98.5371,0,-68.133 1/2:233:0,97,136:0:0:97,136:2326,4796:-402.311,-248.386,-219.186,-154.146,0,-113.206 2/2:101:0,0,101:0:0:0,101:0,3592:-214.87,-214.87,-214.87,-30.404,-30.404,0 1/1:209:1,208,0:1:36:208,0:7377,0:-604.842,-59.3365,0,-605.143,-62.6142,-608.063 1/1:26:0,22,3:0:0:22,3:665,108:-53.9385,-6.62266,0,-48.4366,-1.07426,-47.5335 1/1:26:0,26,0:0:0:26,0:624,0:-49.3461,-7.82678,0,-49.3461,-7.82678,-49.3461 1/2:53:0,31,22:0:0:31,22:970,784:-109.82,-40.2158,-30.8838,-69.8588,0,-63.2362 1/2:125:0,58,67:0:0:58,67:1966,2398:-297.947,-154.006,-136.547,-144.24,0,-124.071 1/1:129:0,129,0:0:0:129,0:4289,0:-351.963,-38.8329,0,-351.963,-38.8329,-351.963 1/1:251:0,251,0:0:0:251,0:8400,0:-689.259,-75.5585,0,-689.259,-75.5585,-689.259 1/1:170:0,170,0:0:0:170,0:5921,0:-488.385,-51.1751,0,-488.385,-51.1751,-488.385 1/1:195:0,194,0:0:0:194,0:6894,0:-568.383,-58.3998,0,-568.383,-58.3998,-568.383 1/2:83:0,42,41:0:0:42,41:1308,1428:-168.726,-74.9957,-62.3524,-93.9885,0,-81.6463 1/2:32:0,21,11:0:0:21,11:699,373:-75.9067,-24.9117,-18.5901,-51.2844,0,-47.9731 1/1:123:0,120,3:0:0:120,3:3786,104:-308.298,-36.1236,0,-302.827,-30.4155,-301.924 1/1:50:0,50,0:0:0:50,0:1200,0:-94.7026,-15.0515,0,-94.7026,-15.0515,-94.7026 chr11 31068269 . TTCATCG ATCGTCA,ATCGTCG 50182.6 PASS AB=0.526957,0.465217;ABP=10.2687,15.095;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1781,680;CIGAR=1X2M1X2M1X,1X2M1X3M;DP=2481;DPB=2481;DPRA=0.817483,1.12576;EPP=3870.4,1479.61;EPPR=5.18177;GTI=0;LEN=7,7;MEANALT=2.35,2.66667;MQM=41.1123,53.2206;MQMR=60;NS=21;NUMALT=2;ODDS=3.16609;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=62924,23975;QR=36;RO=1;RPL=1781,680;RPP=3870.4,1479.61;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3870.4,1479.61;SAR=1781,680;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:63:0,62,0:0:0:62,0:2176,0:-190.04,-18.6639,0,-190.04,-18.6639,-190.04 1/1:88:0,83,1:0:0:83,1:2924,36:-246.216,-24.9855,0,-243.286,-22.0408,-242.985 1/2:144:0,84,59:0:0:84,59:2966,2104:-403.92,-171.362,-146.075,-232.695,0,-214.934 1/2:122:0,72,49:0:0:72,49:2562,1723:-341.362,-139.754,-118.08,-201.681,0,-186.931 1/2:262:0,151,110:0:0:151,110:5319,3884:-733.06,-315.023,-269.567,-418.042,0,-384.929 1/2:93:0,39,53:0:0:39,53:1362,1856:-252.92,-150.457,-138.717,-102.495,0,-86.5404 1/2:151:1,71,78:1:36:71,78:2494,2754:-409.317,-219.637,-201.202,-187.025,0,-166.482 2/2:143:0,0,143:0:0:0,143:0,5008:-448.98,-448.98,-448.98,-43.0473,-43.0473,0 1/1:290:0,288,0:0:0:288,0:10193,0:-895.488,-86.6966,0,-895.488,-86.6966,-895.488 1/1:16:0,16,0:0:0:16,0:567,0:-49.1833,-4.81648,0,-49.1833,-4.81648,-49.1833 1/1:5:0,5,0:0:0:5,0:179,0:-14.7615,-1.50515,0,-14.7615,-1.50515,-14.7615 1/2:25:0,4,21:0:0:4,21:144,749:-72.4883,-61.2579,-60.0537,-11.5775,0,-5.25587 1/2:160:0,84,76:0:0:84,76:2955,2692:-451.395,-219.194,-193.908,-232.548,0,-209.67 1/1:112:0,110,0:0:0:110,0:3841,0:-333.158,-33.1133,0,-333.158,-33.1133,-333.158 1/1:241:0,241,0:0:0:241,0:8559,0:-747.455,-72.5482,0,-747.455,-72.5482,-747.455 1/1:112:0,111,0:0:0:111,0:3938,0:-345.262,-33.4143,0,-345.262,-33.4143,-345.262 1/1:107:0,107,0:0:0:107,0:3793,0:-334.899,-32.2102,0,-334.899,-32.2102,-334.899 1/2:136:0,64,69:0:0:64,69:2267,2421:-369.994,-195.865,-176.599,-174.151,0,-153.38 1/2:57:0,37,20:0:0:37,20:1298,712:-159.956,-58.1695,-47.0314,-102.136,0,-96.1156 1/1:108:0,107,1:0:0:107,1:3788,36:-324.308,-32.2102,0,-321.375,-28.9181,-321.074 1/1:46:0,45,0:0:0:45,0:1599,0:-134.921,-13.5464,0,-134.921,-13.5464,-134.921 chr11 31112119 . GAGG AAGA,GAGA 32905.8 PASS AB=0.483683,0.497669;ABP=4.99449,3.05079;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1220,500;CIGAR=1X2M1X,3M1X;DP=1746;DPB=1746.75;DPRA=1.19714,1.07402;EPP=2652.21,1088.75;EPPR=31.2394;GTI=0;LEN=4,1;MEANALT=2.2,2.69231;MQM=59.9877,59.988;MQMR=60;NS=21;NUMALT=2;ODDS=5.17557;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=34,34;PQR=0;PRO=1;QA=40036,17179;QR=399;RO=13;RPL=0,0;RPP=2652.21,1088.75;RPPR=31.2394;RPR=1220,500;RUN=1,1;SAF=0,0;SAP=2652.21,1088.75;SAR=1220,500;SRF=0;SRP=31.2394;SRR=13;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,111,0:0:0:111,0:3640,0:-327.58,-33.4143,0,-327.58,-33.4143,-327.58 1/1:46:3,41,1:3:89:41,1:1289,36:-107.984,-5.23838,0,-105.949,-9.38934,-112.753 1/2:125:1,54,70:1:31:54,70:1774,2360:-331.829,-188.786,-175.019,-140.877,0,-122.293 1/2:70:0,29,40:0:0:29,40:944,1322:-183.213,-107.012,-98.2824,-76.3129,0,-64.2717 1/2:204:1,97,103:1:30:97,103:3269,3551:-550.721,-286.122,-259.32,-262.564,0,-233.956 1/2:70:0,31,38:0:0:31,38:981,1297:-184.206,-105.285,-95.9529,-78.9475,0,-67.5084 1/2:128:4,72,50:4:125:72,50:2365,1723:-319.874,-129.989,-118.356,-181.115,0,-176.106 2/2:70:0,0,70:0:0:0,70:0,2449:-220.663,-220.663,-220.663,-21.0721,-21.0721,0 1/1:116:0,116,0:0:0:116,0:3854,0:-347.071,-34.9195,0,-347.071,-34.9195,-347.071 1/1:8:0,8,0:0:0:8,0:265,0:-24.1716,-2.40824,0,-24.1716,-2.40824,-24.1716 1/1:9:0,9,0:0:0:9,0:289,0:-26.3234,-2.70927,0,-26.3234,-2.70927,-26.3234 1/2:94:0,48,45:0:0:48,45:1585,1571:-256,-127.858,-113.409,-128.209,0,-114.663 1/2:77:0,38,38:0:0:38,38:1244,1280:-204.172,-103.693,-92.2538,-100.452,0,-89.0131 1/1:96:0,96,0:0:0:96,0:3100,0:-279.237,-28.8989,0,-279.237,-28.8989,-279.237 1/1:192:1,191,0:1:27:191,0:6392,0:-572.708,-55.098,0,-573.009,-57.4967,-575.138 1/1:67:0,65,1:0:0:65,1:2114,36:-190.218,-19.567,0,-187.28,-16.5746,-186.979 1/1:73:0,72,0:0:0:72,0:2360,0:-212.403,-21.6742,0,-212.403,-21.6742,-212.403 1/2:45:1,17,27:1:33:17,27:551,960:-119.735,-75.5904,-73.1401,-41.7834,0,-36.3241 1/2:45:0,29,16:0:0:29,16:963,558:-123.628,-45.73,-37.0001,-78.241,0,-73.4245 1/1:69:2,66,1:2:64:66,1:2122,36:-185.151,-14.7382,0,-182.815,-16.9173,-187.67 1/1:30:0,30,0:0:0:30,0:935,0:-84.4382,-9.0309,0,-84.4382,-9.0309,-84.4382 chr11 31144132 . A T 7083.59 PASS AB=0.481638;ABP=5.08363;AC=11;AF=0.261905;AN=42;AO=413;CIGAR=1X;DP=1511;DPB=1511;DPRA=1.61982;EPP=899.828;EPPR=2387.29;GTI=0;LEN=1;MEANALT=1;MQM=53.7046;MQMR=59.6995;NS=21;NUMALT=1;ODDS=7.35891;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14706;QR=39269;RO=1098;RPL=0;RPP=899.828;RPPR=2387.29;RPR=413;RUN=1;SAF=0;SAP=899.828;SAR=413;SRF=0;SRP=2387.29;SRR=1098;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:91:90,1:90:3204:1:36:0,-23.798,-284.967 0/0:39:39,0:39:1391:0:0:0,-11.7402,-125.454 0/1:88:50,38:50:1775:38:1334:-93.7821,0,-133.539 0/1:51:28,23:28:1000:23:828:-59.3535,0,-74.8694 0/1:157:82,75:82:2936:75:2692:-194.669,0,-217.162 0/1:42:18,24:18:644:24:864:-64.8672,0,-45.6473 0/1:107:58,49:58:2067:49:1746:-124.36,0,-154.054 1/1:69:0,69:0:0:69:2442:-219.167,-20.7711,0 0/0:150:150,0:150:5380:0:0:0,-45.1545,-484.283 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:30:11,19:11:396:19:684:-52.255,0,-26.9472 0/1:103:54,49:54:1923:49:1728:-124.685,0,-142.334 0/0:87:87,0:87:3106:0:0:0,-26.1896,-279.755 0/0:156:155,1:155:5547:1:36:0,-43.365,-495.671 0/0:38:38,0:38:1356:0:0:0,-11.4391,-122.34 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.682 0/1:88:42,46:42:1508:46:1647:-121.507,0,-109.519 0/1:42:24,18:24:864:18:633:-44.5668,0,-65.437 0/0:71:70,1:70:2516:1:36:0,-17.78,-223.071 0/0:36:36,0:36:1288:0:0:0,-10.8371,-116.215 chr11 31192480 . G A 8907.86 PASS AB=0.430733;ABP=38.808;AC=11;AF=0.261905;AN=42;AO=495;CIGAR=1X;DP=1863;DPB=1863;DPRA=1.34169;EPP=1026.41;EPPR=2739.36;GTI=0;LEN=1;MEANALT=1.08333;MQM=53.6909;MQMR=59.522;NS=21;NUMALT=1;ODDS=14.4698;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17735;QR=48744;RO=1366;RPL=6;RPP=1026.41;RPPR=2739.36;RPR=489;RUN=1;SAF=495;SAP=1077.89;SAR=0;SRF=1366;SRP=2969.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:104:103,1:103:3654:1:36:0,-27.9195,-325.438 0/0:103:103,0:103:3665:0:0:0,-31.0061,-329.973 0/1:89:56,33:56:2004:33:1188:-80.2905,0,-153.828 0/1:79:27,52:27:968:52:1872:-144.562,0,-63.4889 0/1:183:139,43:139:4975:43:1521:-80.8425,0,-392.644 0/1:78:39,39:39:1389:39:1400:-102.486,0,-101.809 0/1:111:64,47:64:2268:47:1688:-118.56,0,-170.802 1/1:123:0,123:0:0:123:4405:-395.761,-37.0267,0 0/0:185:185,0:185:6589:0:0:0,-55.6905,-593.061 0/0:22:22,0:22:777:0:0:0,-6.62266,-70.2504 0/0:14:14,0:14:485:0:0:0,-4.21442,-43.9593 0/1:22:8,14:8:280:14:504:-38.9927,0,-18.912 0/1:138:67,71:67:2408:71:2529:-185.964,0,-175.366 0/0:109:108,1:108:3855:1:36:0,-29.2191,-343.491 0/0:110:110,0:110:3935:0:0:0,-33.1133,-354.265 0/0:37:36,0:36:1296:0:0:0,-10.8371,-116.604 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.252 0/1:100:57,43:57:2044:43:1548:-109.317,0,-154.12 0/1:59:31,28:31:1112:28:1008:-73.1465,0,-82.6195 0/0:96:96,0:96:3425:0:0:0,-28.8989,-308.086 0/0:34:34,0:34:1215:0:0:0,-10.235,-109.621 chr11 31192525 . G A 45070.2 PASS AB=0.704444;ABP=329.754;AC=32;AF=0.761905;AN=42;AO=2869;CIGAR=1X;DP=3311;DPB=3311;DPRA=1.06858;EPP=6232.96;EPPR=936.92;GTI=1;LEN=1;MEANALT=1;MQM=30.0997;MQMR=38.8982;NS=21;NUMALT=1;ODDS=7.57626;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=102687;QR=15686;RO=442;RPL=2869;RPP=6232.96;RPPR=945.508;RPR=0;RUN=1;SAF=0;SAP=6232.96;SAR=2869;SRF=1;SRP=954.135;SRR=441;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:91:1,90:1:36:90:3216:-242.597,-24.0061,0 1/1:89:0,89:0:0:89:3174:-217.075,-26.7917,0 0/1:97:59,38:59:2091:38:1364:-74.2348,0,-151.503 0/1:47:17,30:17:608:30:1072:-68.0982,0,-39.1534 0/1:112:32,80:32:1148:80:2863:-184.448,0,-65.4379 0/1:49:22,27:22:784:27:972:-51.7695,0,-49.6203 0/1:74:18,56:18:636:56:2004:-114.582,0,-30.0534 0/0:148:148,0:148:5228:0:0:0,-44.5524,-445.665 1/1:172:0,172:0:0:172:6156:-489.976,-51.7772,0 1/1:478:0,478:0:0:478:17135:-1240.26,-143.892,0 1/1:555:1,554:1:32:554:19840:-1352.1,-163.923,0 1/1:415:26,389:26:927:389:13925:-927.646,-46.2459,0 0/1:118:52,66:52:1864:66:2367:-145.099,0,-124.968 1/1:147:0,147:0:0:147:5244:-401.699,-44.2514,0 1/1:109:0,109:0:0:109:3899:-297.979,-32.8123,0 1/1:50:0,50:0:0:50:1784:-142.136,-15.0515,0 1/1:46:0,46:0:0:46:1656:-129.62,-13.8474,0 0/1:335:39,296:39:1383:296:10583:-667.488,0,-13.4482 0/1:68:27,41:27:949:41:1472:-91.1597,0,-62.5554 1/1:71:0,71:0:0:71:2543:-185.346,-21.3731,0 1/1:40:0,40:0:0:40:1418:-97.6743,-12.0412,0 chr11 31259269 . GTTTTTTTTTTCACC GTTTTTTTTTCACC 190.452 PASS AB=0.183333;ABP=577.871;AC=17;AF=0.404762;AN=42;AO=139;CIGAR=1M1D13M;DP=941;DPB=930;DPRA=0;EPP=304.845;EPPR=1577.34;GTI=11;LEN=1;MEANALT=2.95238;MQM=44.4532;MQMR=59.0905;NS=21;NUMALT=1;ODDS=0.182668;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4414;QR=25601;RO=729;RPL=139;RPP=304.845;RPPR=1577.34;RPR=0;RUN=1;SAF=0;SAP=304.845;SAR=139;SRF=0;SRP=1586.01;SRR=729;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:88:82,3:82:2868:3:108:0,-15.8456,-247.825 0/1:45:38,7:38:1337:7:243:-8.3865,0,-107.072 0/1:26:16,10:16:556:10:261:-13.6082,0,-42.5408 0/1:68:53,10:53:1870:10:308:-7.01622,0,-149.321 0/1:39:31,5:31:1085:5:175:-4.47621,0,-86.6633 0/0:19:14,2:14:489:2:54:0,-0.545091,-39.7131 0/1:53:40,10:40:1424:10:323:-13.4696,0,-111.268 0/1:6:4,2:4:142:2:58:-3.13238,0,-11.3203 0/0:96:76,8:76:2660:8:247:0,-4.46697,-217.854 0/1:28:15,8:15:527:8:252:-14.9259,0,-40.4881 0/1:12:6,1:6:212:1:36:-1.00876,0,-16.8991 0/1:13:8,3:8:284:3:108:-6.42796,0,-22.253 0/1:42:27,10:27:948:10:288:-12.0333,0,-72.6195 0/0:78:68,5:68:2376:5:133:0,-11.1448,-201.661 0/1:85:71,9:71:2503:9:293:-1.98995,0,-201.094 0/1:53:39,10:39:1360:10:340:-15.5503,0,-107.589 0/1:63:51,10:51:1778:10:322:-9.51197,0,-141.646 0/1:32:18,7:18:642:7:252:-15.0593,0,-48.8323 0/1:20:16,4:16:568:4:134:-5.81462,0,-45.4318 0/1:48:36,11:36:1264:11:368:-17.7555,0,-99.5562 0/1:27:20,4:20:708:4:111:-2.16695,0,-54.9798 chr11 31271086 . A G 6764.26 PASS AB=0.43;ABP=37.059;AC=11;AF=0.261905;AN=42;AO=430;CIGAR=1X;DP=1601;DPB=1601;DPRA=1.28616;EPP=936.743;EPPR=2543.63;GTI=0;LEN=1;MEANALT=1.09091;MQM=40.3837;MQMR=55.2462;NS=21;NUMALT=1;ODDS=8.75971;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15371;QR=41926;RO=1170;RPL=0;RPP=936.743;RPPR=2543.63;RPR=430;RUN=1;SAF=430;SAP=936.743;SAR=0;SRF=1170;SRP=2543.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:94:94,0:94:3357:0:0:0,-28.2968,-301.443 0/0:75:75,0:75:2696:0:0:0,-22.5772,-242.413 0/1:48:26,22:26:921:22:788:-54.6144,0,-68.4449 0/1:52:26,26:26:932:26:928:-64.0828,0,-68.4596 0/1:135:72,63:72:2588:63:2241:-154.488,0,-192.059 0/1:105:51,54:51:1828:54:1944:-136.286,0,-132.792 0/1:130:82,48:82:2952:48:1720:-107.461,0,-226.197 1/1:86:0,85:0:0:85:3029:-260.39,-25.5876,0 0/0:106:106,0:106:3793:0:0:0,-31.9092,-341.422 0/0:14:14,0:14:489:0:0:0,-4.21442,-44.278 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.0052 0/1:27:10,17:10:360:17:604:-43.8439,0,-24.5701 0/1:75:48,27:48:1720:27:953:-61.1219,0,-132.035 0/0:52:52,0:52:1857:0:0:0,-15.6536,-167.239 0/0:100:100,0:100:3596:0:0:0,-30.103,-323.557 0/0:46:46,0:46:1648:0:0:0,-13.8474,-148.522 0/0:97:97,0:97:3465:0:0:0,-29.1999,-311.777 0/1:112:63,49:63:2264:49:1760:-118.804,0,-169.872 0/1:116:78,38:78:2800:38:1368:-83.2631,0,-215.983 0/0:72:72,0:72:2584:0:0:0,-21.6742,-232.319 0/0:52:51,1:51:1824:1:36:0,-12.1729,-160.677 chr11 31316171 . G A 7160.3 PASS AB=0.47043;ABP=8.6608;AC=11;AF=0.261905;AN=42;AO=416;CIGAR=1X;DP=1564;DPB=1564;DPRA=1.36733;EPP=906.343;EPPR=2493.69;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=13.4696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14865;QR=41059;RO=1147;RPL=416;RPP=906.343;RPPR=2493.69;RPR=0;RUN=1;SAF=0;SAP=906.343;SAR=416;SRF=0;SRP=2493.69;SRR=1147;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:111:111,0:111:3988:0:0:0,-33.4143,-359.109 0/0:43:43,0:43:1548:0:0:0,-12.9443,-139.613 0/1:62:39,23:39:1400:23:824:-55.8195,0,-107.635 0/1:48:30,18:30:1067:18:644:-43.8412,0,-81.8918 0/1:141:77,64:77:2732:64:2277:-162.745,0,-203.679 0/1:83:31,52:31:1108:52:1863:-142.963,0,-75.0455 0/1:116:47,69:47:1684:69:2480:-188.534,0,-116.928 1/1:64:0,64:0:0:64:2277:-205.191,-19.2659,0 0/0:158:157,1:157:5636:1:36:0,-43.9645,-503.761 0/0:22:22,0:22:792:0:0:0,-6.62266,-71.6057 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:48:26,22:26:932:22:788:-56.7954,0,-69.7494 0/1:56:25,31:25:892:31:1109:-83.2635,0,-63.742 0/0:59:59,0:59:2108:0:0:0,-17.7608,-189.989 0/0:125:125,0:125:4480:0:0:0,-37.6287,-403.369 0/0:69:69,0:69:2472:0:0:0,-20.7711,-222.734 0/0:79:78,0:78:2792:0:0:0,-23.4803,-251.161 0/1:107:60,47:60:2156:47:1684:-119.637,0,-162.097 0/1:83:59,24:59:2098:24:847:-51.5632,0,-164.103 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:44:43,1:43:1526:1:36:0,-9.64704,-134.033 chr11 31317783 . G A 11836.4 PASS AB=0.470745;ABP=11.3959;AC=11;AF=0.261905;AN=42;AO=676;CIGAR=1X;DP=2776;DPB=2776;DPRA=1.46045;EPP=1470.93;EPPR=4541.4;GTI=0;LEN=1;MEANALT=1.07143;MQM=53.6746;MQMR=59.9714;NS=21;NUMALT=1;ODDS=8.198;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24197;QR=74992;RO=2098;RPL=676;RPP=1470.93;RPPR=4541.4;RPR=0;RUN=1;SAF=0;SAP=1470.93;SAR=676;SRF=0;SRP=4558.76;SRR=2098;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:176:171,3:171:6108:3:108:0,-42.7397,-539.82 0/0:167:165,2:165:5877:2:72:0,-43.4353,-522.206 0/1:63:37,26:37:1320:26:928:-64.7064,0,-100.137 0/1:163:95,68:95:3408:68:2427:-169.449,0,-257.866 0/1:235:124,111:124:4444:111:3984:-287.406,0,-329.388 0/1:126:52,74:52:1855:74:2640:-198.605,0,-129.299 0/1:233:110,123:110:3901:123:4416:-325.756,0,-281.143 1/1:137:0,137:0:0:137:4899:-439.91,-41.2411,0 0/0:314:313,1:313:11215:1:36:0,-90.9251,-1005.63 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/1:12:8,4:8:288:4:144:-9.67873,0,-22.655 0/1:133:85,48:85:3043:48:1716:-114.485,0,-234.062 0/0:187:187,0:187:6668:0:0:0,-56.2926,-600.092 0/0:242:242,0:242:8638:0:0:0,-72.8493,-777.409 0/0:81:81,0:81:2912:0:0:0,-24.3834,-262.315 0/0:88:88,0:88:3156:0:0:0,-26.4906,-284.262 0/1:84:40,44:40:1440:44:1567:-115.558,0,-104.611 0/1:79:46,33:46:1656:33:1188:-83.202,0,-125.547 0/0:146:144,2:144:5141:2:72:0,-37.1233,-455.814 0/0:90:90,0:90:3202:0:0:0,-27.0927,-288.401 chr11 31317790 . TGAA AGAA,AGAT 59241 PASS AB=0.524648,0.471831;ABP=9.00479,10.8398;AC=31,11;AF=0.738095,0.261905;AN=42;AO=2052,682;CIGAR=1X3M,1X2M1X;DP=2748;DPB=2748;DPRA=0.938489,1.1155;EPP=4458.87,1483.95;EPPR=7.35324;GTI=0;LEN=1,4;MEANALT=2.15,2.30769;MQM=59.9747,53.6848;MQMR=60;NS=21;NUMALT=2;ODDS=6.63815;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=73426,24145;QR=69;RO=2;RPL=2052,682;RPP=4458.87,1483.95;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4458.87,1483.95;SAR=2052,682;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:168:0,164,3:0:0:164,3:5872,107:-528.26,-49.3689,0,-519.612,-40.6422,-518.708 1/1:162:0,161,0:0:0:161,0:5746,0:-516.917,-48.4658,0,-516.917,-48.4658,-516.917 1/2:63:0,37,26:0:0:37,26:1319,923:-182.809,-75.2911,-64.153,-107.873,0,-100.046 1/2:166:0,97,69:0:0:97,69:3472,2459:-483.768,-200.633,-171.433,-283.492,0,-262.721 1/2:238:0,126,112:0:0:126,112:4524,3963:-691.618,-322.58,-284.65,-369.394,0,-335.679 1/2:127:0,52,75:0:0:52,75:1852,2660:-366.743,-215.791,-200.137,-151.306,0,-128.729 1/2:230:0,107,123:0:0:107,123:3832,4357:-666.441,-353.93,-321.72,-312.866,0,-275.84 2/2:139:0,0,139:0:0:0,139:0,4928:-442.627,-442.627,-442.627,-41.8432,-41.8432,0 1/1:305:0,303,0:0:0:303,0:10860,0:-976.993,-91.2121,0,-976.993,-91.2121,-976.993 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/1:11:0,11,0:0:0:11,0:392,0:-35.6201,-3.31133,0,-35.6201,-3.31133,-35.6201 1/2:12:0,8,4:0:0:8,4:288,127:-34.0562,-10.5284,-8.12012,-23.8592,0,-22.655 1/2:132:0,83,48:0:0:83,48:2976,1688:-380.023,-137.29,-112.305,-242.736,0,-228.287 1/1:182:0,181,1:0:0:181,1:6470,36:-581.921,-54.4864,0,-578.984,-51.1892,-578.683 1/1:238:0,237,0:0:0:237,0:8492,0:-763.916,-71.3441,0,-763.916,-71.3441,-763.916 1/1:76:0,76,0:0:0:76,0:2713,0:-244.412,-22.8783,0,-244.412,-22.8783,-244.412 1/1:88:0,87,0:0:0:87,0:3112,0:-279.947,-26.1896,0,-279.947,-26.1896,-279.947 1/2:87:1,38,47:1:33:38,47:1355,1642:-240.596,-130.439,-121.668,-107.798,0,-96.3167 1/2:81:0,48,32:0:0:48,32:1720,1151:-233.953,-93.6748,-79.2254,-140.286,0,-130.653 1/1:146:0,142,3:0:0:142,3:5051,104:-454.367,-42.7463,0,-445.922,-34.3114,-445.019 1/1:88:1,85,0:1:36:85,0:3056,0:-271.699,-22.6352,0,-272,-25.5876,-274.937 chr11 31317832 . TCAGA ACGGC,ACAGC 30603.5 PASS AB=0.515885,0.481089;ABP=4.45904,5.06351;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1158,378;CIGAR=1X1M1X1M1X,1X3M1X;DP=1546;DPB=1546;DPRA=1.26017,0.860417;EPP=2517.58,815.164;EPPR=0;GTI=0;LEN=5,5;MEANALT=1.95,2.16667;MQM=38.9076,59.9815;MQMR=0;NS=21;NUMALT=2;ODDS=12.2847;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40584,13305;QR=0;RO=0;RPL=0,1;RPP=2517.58,815.164;RPPR=0;RPR=1158,377;RUN=1,1;SAF=1158,378;SAP=2517.58,823.827;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:105:0,105,0:0:0:105,0:3669,0:-316.752,-31.6082,0,-316.752,-31.6082,-316.752 1/1:90:0,88,0:0:0:88,0:3066,0:-250.614,-26.4906,0,-250.614,-26.4906,-250.614 1/2:118:0,76,41:0:0:76,41:2679,1455:-324.86,-118.611,-95.7332,-206.305,0,-193.962 1/2:96:0,48,47:0:0:48,47:1667,1650:-262.143,-134.375,-119.925,-127.846,0,-113.698 1/2:129:0,77,52:0:0:77,52:2700,1845:-358.873,-150.677,-127.497,-208.543,0,-192.889 1/2:70:0,26,44:0:0:26,44:920,1531:-190.754,-124.835,-117.008,-66.2463,0,-53.001 1/2:65:0,31,34:0:0:31,34:1091,1193:-178.745,-97.4389,-88.107,-81.6432,0,-71.4082 2/2:59:0,0,58:0:0:0,58:0,2050:-184.411,-184.411,-184.411,-17.4597,-17.4597,0 1/1:65:0,63,0:0:0:63,0:2197,0:-191.737,-18.9649,0,-191.737,-18.9649,-191.737 1/1:13:0,13,0:0:0:13,0:455,0:-38.6504,-3.91339,0,-38.6504,-3.91339,-38.6504 1/1:6:0,6,0:0:0:6,0:210,0:-16.8261,-1.80618,0,-16.8261,-1.80618,-16.8261 1/2:20:0,12,8:0:0:12,8:422,288:-56.1969,-23.8592,-20.2468,-32.6868,0,-30.2786 1/2:77:0,20,57:0:0:20,57:704,2014:-219.372,-164.374,-158.353,-55.3416,0,-38.1828 1/1:147:0,146,0:0:0:146,0:5103,0:-440.168,-43.9504,0,-440.168,-43.9504,-440.168 1/1:109:0,109,0:0:0:109,0:3877,0:-333.537,-32.8123,0,-333.537,-32.8123,-333.537 1/1:53:0,52,0:0:0:52,0:1824,0:-157.052,-15.6536,0,-157.052,-15.6536,-157.052 1/1:132:0,131,0:0:0:131,0:4626,0:-406.02,-39.4349,0,-406.02,-39.4349,-406.02 1/2:57:0,32,25:0:0:32,25:1110,873:-154.321,-71.3605,-61.7275,-83.2973,0,-75.7715 1/2:29:0,19,10:0:0:19,10:667,335:-78.917,-27.4632,-21.7436,-51.7886,0,-48.7783 1/1:66:0,65,1:0:0:65,1:2246,36:-189.91,-19.567,0,-186.972,-16.2697,-186.671 1/1:40:0,39,1:0:0:39,1:1351,35:-111.584,-11.7402,0,-108.736,-8.54257,-108.435 chr11 31317842 . C A 22919.5 PASS AB=0.517504;ABP=4.75872;AC=31;AF=0.738095;AN=42;AO=1158;CIGAR=1X;DP=1537;DPB=1537;DPRA=1.25254;EPP=2457.14;EPPR=817.335;GTI=0;LEN=1;MEANALT=1;MQM=38.8661;MQMR=59.9894;NS=21;NUMALT=1;ODDS=12.2847;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41530;QR=13530;RO=379;RPL=7;RPP=2457.14;RPPR=817.335;RPR=1151;RUN=1;SAF=1158;SAP=2517.58;SAR=0;SRF=379;SRP=825.998;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,104:0:0:104:3740:-321.278,-31.3071,0 1/1:89:0,89:0:0:89:3192:-257.831,-26.7917,0 0/1:117:40,77:40:1427:77:2768:-200.33,0,-93.5063 0/1:95:47,48:47:1676:48:1724:-116.987,0,-122.527 0/1:128:52,76:52:1864:76:2717:-194.52,0,-129.508 0/1:70:45,25:45:1608:25:885:-49.7792,0,-123.938 0/1:65:34,31:34:1203:31:1097:-71.4898,0,-89.0081 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.349 1/1:65:0,65:0:0:65:2332:-200.189,-19.567,0 1/1:13:0,13:0:0:13:468:-39.1409,-3.91339,0 1/1:6:0,6:0:0:6:209:-17.0652,-1.80618,0 0/1:20:8,12:8:288:12:432:-30.9042,0,-20.2468 0/1:76:56,20:56:1997:20:720:-39.5875,0,-157.124 1/1:148:1,147:1:36:147:5288:-449.407,-40.9542,0 1/1:109:0,109:0:0:109:3912:-335.635,-32.8123,0 1/1:51:0,51:0:0:51:1836:-157.717,-15.3525,0 1/1:131:0,131:0:0:131:4670:-409.407,-39.4349,0 0/1:57:25,32:25:896:32:1152:-78.7377,0,-63.8016 0/1:29:10,19:10:351:19:684:-49.8964,0,-23.1968 1/1:65:1,64:1:36:64:2300:-188.959,-15.9687,0 1/1:40:1,39:1:36:39:1404:-111.592,-8.44293,0 chr11 31317852 . CG TT,TG 30837.2 PASS AB=0.520611,0.479389;ABP=5.4271,5.4271;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1161,373;CIGAR=2X,1X1M;DP=1536;DPB=1536;DPRA=1.29737,1.13235;EPP=2524.09,795.691;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.65,1.91667;MQM=38.8605,59.9732;MQMR=0;NS=21;NUMALT=2;ODDS=12.8181;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40837,13358;QR=0;RO=0;RPL=1161,371;RPP=2524.09,795.691;RPPR=0;RPR=0,2;RUN=1,1;SAF=1161,373;SAP=2524.09,812.97;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,103,0:0:0:103,0:3666,0:-315.112,-31.0061,0,-315.112,-31.0061,-315.112 1/1:90:0,90,0:0:0:90,0:3141,0:-256.225,-27.0927,0,-256.225,-27.0927,-256.225 1/2:118:0,77,41:0:0:77,41:2730,1476:-330.328,-120.794,-97.6146,-209.885,0,-197.543 1/2:95:0,48,47:0:0:48,47:1647,1680:-263.58,-137.335,-122.885,-126.586,0,-112.438 1/2:128:0,76,52:0:0:76,52:2649,1868:-356.784,-152.746,-129.867,-204.387,0,-188.733 1/2:71:0,26,45:0:0:26,45:907,1616:-197.073,-132.184,-124.357,-65.2182,0,-51.6718 1/2:64:0,31,33:0:0:31,33:1097,1167:-176.93,-95.4021,-86.0702,-81.8671,0,-71.9331 2/2:57:0,0,57:0:0:0,57:0,2048:-184.592,-184.592,-184.592,-17.1587,-17.1587,0 1/1:65:0,65,0:0:0:65,0:2315,0:-199.055,-19.567,0,-199.055,-19.567,-199.055 1/1:13:0,13,0:0:0:13,0:450,0:-37.8625,-3.91339,0,-37.8625,-3.91339,-37.8625 1/1:6:0,6,0:0:0:6,0:216,0:-17.1218,-1.80618,0,-17.1218,-1.80618,-17.1218 1/2:20:0,12,8:0:0:12,8:432,288:-56.8202,-23.8592,-20.2468,-33.3125,0,-30.9042 1/2:75:0,20,55:0:0:20,55:706,1967:-215.856,-160.748,-154.727,-55.4526,0,-38.8959 1/1:147:0,146,1:0:0:146,1:5125,36:-440.014,-43.9504,0,-437.076,-40.6531,-436.775 1/1:109:0,109,0:0:0:109,0:3841,0:-330.447,-32.8123,0,-330.447,-32.8123,-330.447 1/1:53:0,53,0:0:0:53,0:1850,0:-159.183,-15.9546,0,-159.183,-15.9546,-159.183 1/1:132:0,132,0:0:0:132,0:4665,0:-409.303,-39.736,0,-409.303,-39.736,-409.303 1/2:56:0,32,24:0:0:32,24:1093,852:-151.727,-69.7757,-60.1427,-82.2909,0,-75.0662 1/2:28:0,19,9:0:0:19,9:669,324:-78.4304,-26.7966,-21.077,-51.9858,0,-49.2765 1/1:65:0,64,1:0:0:64,1:2243,36:-187.555,-19.2659,0,-184.617,-15.9687,-184.316 1/1:40:0,39,0:0:0:39,0:1395,0:-114.674,-11.7402,0,-114.674,-11.7402,-114.674 chr11 31338272 . A G 64035.4 PASS AB=0.520085;ABP=7.98219;AC=31;AF=0.738095;AN=42;AO=2379;CIGAR=1X;DP=3209;DPB=3209;DPRA=1.09607;EPP=9.29835;EPPR=11.5413;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9828;MQMR=60;NS=21;NUMALT=1;ODDS=21.3126;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=84089;QR=29609;RO=827;RPL=2371;RPP=5099.69;RPPR=1764.24;RPR=8;RUN=1;SAF=1223;SAP=7.10771;SAR=1156;SRF=438;SRP=9.31466;SRR=389;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:173:2,170:2:72:170:5997:-532.974,-45.3003,0 1/1:137:0,137:0:0:137:4872:-438.634,-41.2411,0 0/1:91:52,39:52:1868:39:1355:-94.8513,0,-141.006 0/1:173:81,92:81:2900:92:3277:-243.071,0,-209.158 0/1:273:132,141:132:4694:141:4989:-366.982,0,-340.441 0/1:142:64,77:64:2304:77:2735:-203.588,0,-164.815 0/1:228:113,115:113:4052:115:4052:-296.236,0,-296.232 0/0:140:140,0:140:5001:0:0:0,-42.1442,-450.237 1/1:255:0,255:0:0:255:8997:-809.717,-76.7627,0 1/1:47:0,47:0:0:47:1642:-148.064,-14.1484,0 1/1:17:0,17:0:0:17:608:-55.052,-5.11751,0 0/1:52:25,27:25:900:27:946:-69.7993,0,-65.6675 0/1:106:57,49:57:2044:49:1736:-124.615,0,-152.323 1/1:174:0,174:0:0:174:6153:-553.872,-52.3792,0 1/1:284:1,283:1:36:283:10056:-901.384,-81.8942,0 1/1:104:0,104:0:0:104:3661:-329.697,-31.3071,0 1/1:106:1,105:1:36:105:3719:-331.314,-28.3109,0 0/1:196:103,93:103:3699:93:3275:-235.971,0,-274.109 0/1:158:53,105:53:1895:105:3739:-289.149,0,-123.265 1/1:187:0,187:0:0:187:6609:-594.896,-56.2926,0 1/1:166:3,162:3:108:162:5671:-500.479,-39.8497,0 chr11 31338285 . C T 24919.4 PASS AB=0.540214;ABP=13.4893;AC=31;AF=0.738095;AN=42;AO=1198;CIGAR=1X;DP=1594;DPB=1594;DPRA=1.48269;EPP=2604.43;EPPR=854.249;GTI=0;LEN=1;MEANALT=1;MQM=59.9875;MQMR=60;NS=21;NUMALT=1;ODDS=13.3294;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42402;QR=14076;RO=396;RPL=1198;RPP=2604.43;RPPR=854.249;RPR=0;RUN=1;SAF=0;SAP=2604.43;SAR=1198;SRF=0;SRP=862.913;SRR=396;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66:0:0:66:2270:-204.554,-19.868,0 1/1:60:0,60:0:0:60:2148:-193.587,-18.0618,0 0/1:60:29,31:29:1040:31:1086:-79.9832,0,-75.8526 0/1:58:28,30:28:1004:30:1074:-79.513,0,-73.2161 0/1:123:47,76:47:1643:76:2690:-205.316,0,-111.125 0/1:64:30,34:30:1080:34:1201:-89.1277,0,-78.2473 0/1:111:50,61:50:1731:61:2188:-163.771,0,-122.654 0/0:52:52,0:52:1849:0:0:0,-15.6536,-166.688 1/1:141:0,141:0:0:141:5000:-450.145,-42.4452,0 1/1:46:0,46:0:0:46:1609:-145.094,-13.8474,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:40:21,19:21:756:19:665:-48.1316,0,-56.326 0/1:52:29,23:29:1044:23:794:-56.1197,0,-78.6212 1/1:92:0,92:0:0:92:3266:-294.152,-27.6948,0 1/1:106:0,106:0:0:106:3762:-338.776,-31.9092,0 1/1:51:0,51:0:0:51:1781:-160.564,-15.3525,0 1/1:44:1,43:1:32:43:1514:-133.35,-10.046,0 0/1:153:78,75:78:2800:75:2681:-195.476,0,-206.182 0/1:85:31,54:31:1097:54:1940:-149.289,0,-73.4505 1/1:74:0,74:0:0:74:2611:-235.234,-22.2762,0 1/1:108:0,108:0:0:108:3834:-345.256,-32.5112,0 chr11 31372804 . A T 6075.76 PASS AB=0.456491;ABP=14.5368;AC=11;AF=0.261905;AN=42;AO=367;CIGAR=1X;DP=1284;DPB=1284;DPRA=2.42198;EPP=799.941;EPPR=1994.25;GTI=0;LEN=1;MEANALT=1;MQM=59.9673;MQMR=59.9989;NS=21;NUMALT=1;ODDS=10.4197;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13138;QR=32710;RO=917;RPL=0;RPP=799.941;RPPR=1976.92;RPR=367;RUN=1;SAF=367;SAP=799.941;SAR=0;SRF=915;SRP=1976.92;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1076:1:36:0,-5.73365,-93.5546 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/1:12:6,6:6:212:6:216:-16.1782,0,-15.8124 0/1:40:18,22:18:648:22:792:-59.5645,0,-46.6107 0/1:38:13,25:13:468:25:892:-69.1605,0,-31.0205 0/1:37:16,21:16:553:21:756:-57.2291,0,-38.9559 0/1:41:12,29:12:428:29:1040:-81.5721,0,-26.5166 1/1:43:1,42:1:36:42:1504:-132.047,-9.34602,0 0/0:54:54,0:54:1932:0:0:0,-16.2556,-174.156 0/0:176:175,1:175:6201:1:36:0,-49.383,-554.587 0/0:98:97,1:97:3426:1:36:0,-25.9027,-304.956 0/1:256:144,112:144:5130:112:4010:-284.025,0,-384.777 0/1:32:14,18:14:504:18:644:-48.6576,0,-36.0651 0/0:26:25,1:25:896:1:36:0,-4.2285,-77.3621 0/0:52:52,0:52:1868:0:0:0,-15.6536,-168.399 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:207:130,77:130:4668:77:2748:-185.25,0,-357.967 0/1:38:28,10:28:1008:10:356:-20.9421,0,-79.5972 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.391 0/0:27:26,1:26:932:1:36:0,-4.52953,-80.6006 chr11 31396569 . GCCGG GCCGC,CCCGC 32218.7 PASS AB=0.577508,0.416413;ABP=37.3446,42.9416;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1160,338;CIGAR=4M1X,1X3M1X;DP=1507;DPB=1507;DPRA=1.10923,0.838358;EPP=2521.92,736.968;EPPR=0;GTI=1;LEN=1,5;MEANALT=1.85,2.36364;MQM=59.9207,58.8787;MQMR=0;NS=21;NUMALT=2;ODDS=5.04238;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=41345,11896;QR=0;RO=0;RPL=1160,338;RPP=2521.92,736.968;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2521.92,736.968;SAR=1160,338;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:0,113,0:0:0:113,0:4013,0:-361.356,-34.0164,0,-361.356,-34.0164,-361.356 1/1:53:0,52,0:0:0:52,0:1853,0:-166.688,-15.6536,0,-166.688,-15.6536,-166.688 1/2:48:0,33,15:0:0:33,15:1173,528:-138.911,-43.3218,-33.3878,-95.9416,0,-91.4261 1/2:33:0,16,17:0:0:16,17:576,602:-96.3855,-49.384,-44.5675,-47.3585,0,-42.241 1/2:142:0,69,72:0:0:69,72:2454,2552:-407.856,-207.871,-187.1,-199.981,0,-178.306 1/2:54:0,33,20:0:0:33,20:1184,710:-154.486,-57.906,-47.972,-96.6521,0,-90.6315 1/2:80:0,49,31:0:0:49,31:1726,1089:-229.495,-88.9759,-74.2254,-140.87,0,-131.538 2/2:65:0,0,64:0:0:0,64:0,2255:-202.829,-202.829,-202.829,-19.2659,-19.2659,0 1/1:161:0,160,0:0:0:160,0:5684,0:-511.302,-48.1648,0,-511.302,-48.1648,-511.302 1/1:12:0,12,0:0:0:12,0:432,0:-39.2166,-3.61236,0,-39.2166,-3.61236,-39.2166 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:21:0,16,5:0:0:16,5:557,176:-59.9618,-14.6783,-9.86179,-45.6345,0,-44.1293 1/2:119:0,67,52:0:0:67,52:2389,1849:-345.746,-151.012,-130.843,-195.09,0,-179.437 1/1:99:0,99,0:0:0:99,0:3510,0:-316.105,-29.802,0,-316.105,-29.802,-316.105 1/1:134:0,134,0:0:0:134,0:4801,0:-432.243,-40.338,0,-432.243,-40.338,-432.243 1/1:34:0,34,0:0:0:34,0:1220,0:-110.107,-10.235,0,-110.107,-10.235,-110.107 1/2:16:0,14,2:0:0:14,2:489,66:-45.4576,-5.66536,-1.45094,-40.1245,0,-39.5224 1/2:61:0,25,35:0:0:25,35:896,1212:-171.6,-98.5228,-90.997,-73.1279,0,-62.5919 1/2:84:0,58,25:0:0:58,25:2080,857:-239.211,-69.5486,-52.0888,-169.651,0,-162.125 1/1:91:0,91,0:0:0:91,0:3260,0:-293.614,-27.3937,0,-293.614,-27.3937,-293.614 1/1:80:0,78,0:0:0:78,0:2796,0:-251.55,-23.4803,0,-251.55,-23.4803,-251.55 chr11 31474773 . GG AC 27891.8 PASS AB=0.604043;ABP=82.0844;AC=31;AF=0.738095;AN=42;AO=1337;CIGAR=2X;DP=1732;DPB=1732;DPRA=1.4431;EPP=2863;EPPR=834.773;GTI=0;LEN=2;MEANALT=1.2;MQM=59.3111;MQMR=60;NS=21;NUMALT=1;ODDS=19.7085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47184;QR=13825;RO=391;RPL=5;RPP=2863;RPPR=834.773;RPR=1332;RUN=1;SAF=1337;SAP=2906.27;SAR=0;SRF=391;SRP=852.056;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,104:0:0:104:3626:-326.23,-31.3071,0 1/1:63:0,63:0:0:63:2237:-201.54,-18.9649,0 0/1:72:42,30:42:1497:30:1044:-72.5345,0,-113.349 0/1:143:73,70:73:2582:70:2483:-180.64,0,-189.58 0/1:210:45,164:45:1591:164:5772:-456.218,0,-80.2045 0/1:84:33,51:33:1172:51:1798:-136.773,0,-80.4987 0/1:105:40,65:40:1405:65:2299:-175.383,0,-95.1352 0/0:58:58,0:58:2020:0:0:0,-17.4597,-182.068 1/1:148:0,148:0:0:148:5240:-470.003,-44.5524,0 1/1:10:0,10:0:0:10:358:-32.5629,-3.0103,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:21:12,9:12:430:9:324:-23.1842,0,-32.7185 0/1:82:41,41:41:1466:41:1443:-105.28,0,-107.552 1/1:39:0,38:0:0:38:1312:-118.072,-11.4391,0 1/1:160:0,160:0:0:160:5660:-509.415,-48.1648,0 1/1:62:0,62:0:0:62:2210:-199.145,-18.6639,0 1/1:102:0,102:0:0:102:3593:-323.52,-30.7051,0 0/1:75:34,41:34:1200:41:1454:-108.508,0,-85.7262 0/1:49:12,37:12:428:37:1315:-103.87,0,-24.1085 1/1:85:1,82:1:34:82:2907:-258.369,-21.9331,0 1/1:50:0,50:0:0:50:1749:-157.657,-15.0515,0 chr11 31474895 . G T 6583.07 PASS AB=0.424165;ABP=41.8735;AC=11;AF=0.261905;AN=42;AO=394;CIGAR=1X;DP=1626;DPB=1626;DPRA=1.18138;EPP=858.57;EPPR=2678.26;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9821;NS=21;NUMALT=1;ODDS=13.1449;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14072;QR=43544;RO=1232;RPL=0;RPP=858.57;RPPR=2678.26;RPR=394;RUN=1;SAF=0;SAP=858.57;SAR=394;SRF=0;SRP=2678.26;SRR=1232;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:109:109,0:109:3880:0:0:0,-32.8123,-349.397 0/0:50:50,0:50:1768:0:0:0,-15.0515,-159.403 0/1:77:46,31:46:1622:31:1104:-76.4913,0,-123.088 0/1:86:49,37:49:1713:37:1324:-93.5735,0,-128.564 0/1:155:90,65:90:3140:65:2320:-162.401,0,-236.17 0/1:93:57,36:57:2024:36:1296:-88.9481,0,-154.437 0/1:134:79,55:79:2812:55:1972:-137.417,0,-212.983 1/1:64:0,64:0:0:64:2283:-205.731,-19.2659,0 0/0:112:112,0:112:3982:0:0:0,-33.7154,-358.572 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:36:18,18:18:631:18:644:-47.4535,0,-46.2786 0/1:80:45,35:45:1599:35:1241:-87.9101,0,-120.117 0/0:121:121,0:121:4302:0:0:0,-36.4246,-387.359 0/0:133:133,0:133:4712:0:0:0,-40.037,-424.242 0/0:44:44,0:44:1555:0:0:0,-13.2453,-140.241 0/0:48:48,0:48:1711:0:0:0,-14.4494,-154.275 0/1:73:31,42:31:1093:42:1500:-113.319,0,-76.7025 0/1:44:33,11:33:1148:11:388:-22.012,0,-90.3778 0/0:104:104,0:104:3620:0:0:0,-31.3071,-326.01 0/0:49:49,0:49:1732:0:0:0,-14.7505,-156.078 chr11 31474901 . T C 6414.11 PASS AB=0.421053;ABP=45.1826;AC=11;AF=0.261905;AN=42;AO=393;CIGAR=1X;DP=1639;DPB=1639;DPRA=1.1678;EPP=856.399;EPPR=2708.66;GTI=0;LEN=1;MEANALT=1;MQM=59.9822;MQMR=59.9679;NS=21;NUMALT=1;ODDS=14.3841;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13880;QR=44402;RO=1246;RPL=0;RPP=856.399;RPPR=2708.66;RPR=393;RUN=1;SAF=0;SAP=856.399;SAR=393;SRF=0;SRP=2708.66;SRR=1246;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:112:112,0:112:4024:0:0:0,-33.7154,-362.347 0/0:52:52,0:52:1864:0:0:0,-15.6536,-168.039 0/1:75:44,31:44:1575:31:1091:-75.9153,0,-119.464 0/1:85:48,37:48:1728:37:1284:-90.2701,0,-130.218 0/1:156:93,63:93:3284:63:2234:-154.362,0,-248.783 0/1:96:60,36:60:2140:36:1272:-85.884,0,-163.969 0/1:137:79,58:79:2828:58:2051:-143.62,0,-213.518 1/1:65:0,65:0:0:65:2306:-207.8,-19.567,0 0/0:114:114,0:114:4070:0:0:0,-34.3174,-366.486 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/0:8:8,0:8:275:0:0:0,-2.40824,-25.0835 0/1:36:18,18:18:644:18:631:-46.2786,0,-47.4535 0/1:80:46,34:46:1634:34:1200:-84.2232,0,-123.265 0/0:124:124,0:124:4416:0:0:0,-37.3277,-397.612 0/0:133:133,0:133:4738:0:0:0,-40.037,-426.58 0/0:45:45,0:45:1591:0:0:0,-13.5463,-143.48 0/0:46:46,0:46:1639:0:0:0,-13.8474,-147.798 0/1:69:30,39:30:1076:39:1383:-103.997,0,-76.3818 0/1:45:33,12:33:1158:12:428:-25.3125,0,-90.9787 0/0:107:107,0:107:3804:0:0:0,-32.2102,-342.558 0/0:47:47,0:47:1662:0:0:0,-14.1484,-149.779 chr11 31489433 . G C 6964.97 PASS AB=0.423575;ABP=42.1756;AC=11;AF=0.261905;AN=42;AO=405;CIGAR=1X;DP=1724;DPB=1724;DPRA=1.13963;EPP=856.592;EPPR=2823.86;GTI=0;LEN=1;MEANALT=1.18182;MQM=59.5012;MQMR=59.9856;NS=21;NUMALT=1;ODDS=14.3032;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14470;QR=46757;RO=1315;RPL=402;RPP=856.592;RPPR=2823.86;RPR=3;RUN=1;SAF=0;SAP=882.457;SAR=405;SRF=0;SRP=2858.5;SRR=1315;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:95:95,0:95:3346:0:0:0,-28.5978,-301.355 0/0:89:89,0:89:3180:0:0:0,-26.7917,-286.424 0/1:90:50,40:50:1776:40:1432:-102.079,0,-133.03 0/1:77:41,36:41:1459:36:1281:-92.4038,0,-108.426 0/1:111:60,50:60:2129:50:1788:-127.748,0,-158.443 0/1:48:32,16:32:1125:16:576:-37.7232,0,-87.1066 0/1:113:71,41:71:2532:41:1476:-99.0486,0,-194.057 1/1:77:0,77:0:0:77:2764:-248.973,-23.1793,0 0/0:110:109,1:109:3852:1:36:0,-29.515,-343.28 0/0:27:27,0:27:964:0:0:0,-8.12781,-87.0768 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:36:23,13:23:786:13:453:-29.9863,0,-60.2128 0/1:18:6,12:6:201:12:432:-33.8027,0,-12.9985 0/0:89:89,0:89:3183:0:0:0,-26.7917,-286.693 0/0:156:155,0:155:5531:0:0:0,-46.6596,-497.597 0/0:89:88,0:88:3140:0:0:0,-26.4906,-282.605 0/0:84:84,0:84:2983:0:0:0,-25.2865,-268.686 0/1:235:129,106:129:4590:106:3768:-268.512,0,-342.524 0/1:44:31,13:31:1104:13:464:-28.8498,0,-86.4253 0/0:72:72,0:72:2576:0:0:0,-21.6742,-232.09 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.068 chr11 31489438 . GGC TGT,TAT 37429.6 PASS AB=0.569811,0.427673;ABP=36.664,39.1332;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1347,420;CIGAR=1X1M1X,3X;DP=1772;DPB=1772;DPRA=1.07152,1.14041;EPP=2927.98,915.029;EPPR=0;GTI=0;LEN=3,3;MEANALT=1.75,2.18182;MQM=59.9762,59.3881;MQMR=0;NS=21;NUMALT=2;ODDS=14.7405;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47327,14890;QR=0;RO=0;RPL=1347,420;RPP=2927.98,915.029;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2927.98,915.029;SAR=1347,420;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:96:0,96,0:0:0:96,0:3347,0:-301.448,-28.8989,0,-301.448,-28.8989,-301.448 1/1:93:0,93,0:0:0:93,0:3267,0:-294.251,-27.9958,0,-294.251,-27.9958,-294.251 1/2:91:0,51,40:0:0:51,40:1793,1412:-261.273,-115.327,-99.9746,-146.298,0,-134.257 1/2:80:0,42,38:0:0:42,38:1472,1345:-229.68,-109.903,-97.2595,-120.13,0,-108.691 1/2:114:0,61,52:0:0:61,52:2135,1847:-324.234,-150.532,-132.169,-173.743,0,-158.09 1/2:49:0,33,16:0:0:33,16:1157,574:-141.321,-47.1763,-37.2424,-94.5006,0,-89.6841 1/2:117:0,72,45:0:0:72,45:2540,1591:-336.649,-129.825,-108.151,-207.177,0,-193.631 2/2:79:0,0,79:0:0:0,79:0,2809:-253.023,-253.023,-253.023,-23.7814,-23.7814,0 1/1:112:0,110,1:0:0:110,1:3890,36:-349.937,-33.1133,0,-347,-30.1759,-346.699 1/1:29:0,29,0:0:0:29,0:1009,0:-91.1186,-8.72987,0,-91.1186,-8.72987,-91.1186 1/1:6:0,6,0:0:0:6,0:214,0:-19.6078,-1.80618,0,-19.6078,-1.80618,-19.6078 1/2:36:0,23,13:0:0:23,13:806,448:-101.383,-35.7897,-28.866,-65.9345,0,-62.0211 1/2:19:0,6,13:0:0:6,13:212,461:-55.1778,-37.9125,-36.1063,-17.6188,0,-13.7054 1/1:91:0,90,0:0:0:90,0:3142,0:-282.798,-27.0927,0,-282.798,-27.0927,-282.798 1/1:161:0,161,0:0:0:161,0:5631,0:-506.918,-48.4658,0,-506.918,-48.4658,-506.918 1/1:93:0,92,0:0:0:92,0:3228,0:-290.381,-27.6948,0,-290.381,-27.6948,-290.381 1/1:84:0,84,0:0:0:84,0:2966,0:-267.163,-25.2865,0,-267.163,-25.2865,-267.163 1/2:244:0,133,110:0:0:133,110:4714,3909:-702.284,-318.252,-278.215,-384.047,0,-350.933 1/2:45:0,32,13:0:0:32,13:1135,458:-130.111,-37.6381,-28.0051,-92.8257,0,-88.9123 1/1:73:0,73,0:0:0:73,0:2552,0:-229.93,-21.9752,0,-229.93,-21.9752,-229.93 1/1:60:0,60,0:0:0:60,0:2117,0:-190.798,-18.0618,0,-190.798,-18.0618,-190.798 chr11 31496860 . CTTC TTTT,CTTT 145301 PASS AB=0.534536,0.462011;ABP=30.0079,35.6774;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3881,1503;CIGAR=1X2M1X,3M1X;DP=5398;DPB=5401.25;DPRA=0.87116,1.63123;EPP=8430.49,3266.73;EPPR=7.35324;GTI=0;LEN=4,1;MEANALT=2.15,2.6;MQM=56.6022,59.7538;MQMR=60;NS=21;NUMALT=2;ODDS=10.2478;PAIRED=0,0;PAIREDR=0;PAO=9,2;PQA=228,52;PQR=0;PRO=0;QA=135601,53447;QR=72;RO=2;RPL=2002,785;RPP=11.4752,9.49582;RPPR=7.35324;RPR=1879,718;RUN=1,1;SAF=2002,785;SAP=11.4752,9.49582;SAR=1879,718;SRF=2;SRP=7.35324;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:314:0,312,1:0:0:312,1:10903,36:-979.857,-93.9214,0,-976.919,-90.9472,-976.618 1/1:213:0,209,3:0:0:209,3:7301,108:-655.717,-62.9153,0,-646.904,-54.0764,-646.001 1/2:235:0,117,118:0:0:117,118:4076,4205:-673.54,-343.092,-307.871,-330.799,0,-295.278 1/2:329:0,201,128:0:0:201,128:7036,4569:-944.156,-372.479,-311.972,-571.672,0,-533.14 1/2:571:0,300,269:0:0:300,269:10447,9550:-1626.57,-778.099,-687.79,-848.503,0,-767.526 1/2:234:2,120,112:2:72:120,112:4170,4001:-657.695,-320.27,-290.021,-332.144,0,-304.304 1/2:416:0,193,220:0:0:193,220:6753,7826:-1186.02,-637.672,-579.573,-548.348,0,-482.122 2/2:293:0,0,291:0:0:0,291:0,10322:-928.396,-928.396,-928.396,-87.5997,-87.5997,0 1/1:476:0,474,2:0:0:474,2:16585,68:-1490.67,-142.688,0,-1485.16,-136.833,-1484.56 1/2:55:0,48,7:0:0:48,7:1697,252:-158.979,-20.9217,-6.47231,-138.416,0,-136.309 1/1:17:0,17,0:0:0:17,0:590,0:-52.3281,-5.11751,0,-52.3281,-5.11751,-52.3281 1/2:69:0,38,31:0:0:38,31:1319,1095:-196.471,-89.5272,-78.088,-107.294,0,-97.9619 1/2:341:0,179,162:0:0:179,162:6300,5753:-981.608,-468.997,-415.113,-512.845,0,-464.078 1/1:270:0,269,0:0:0:269,0:9370,0:-841.123,-80.9771,0,-841.123,-80.9771,-841.123 1/1:433:0,431,2:0:0:431,2:15133,72:-1360.22,-129.744,0,-1354.34,-123.779,-1353.74 1/1:295:0,295,0:0:0:295,0:10351,0:-930.709,-88.8039,0,-930.709,-88.8039,-930.709 1/1:170:0,170,0:0:0:170,0:5852,0:-526.396,-51.1751,0,-526.396,-51.1751,-526.396 1/2:161:0,81,79:0:0:81,79:2788,2805:-454.512,-228.522,-204.138,-225.98,0,-202.199 1/2:195:0,116,78:0:0:116,78:4027,2785:-553.896,-226.837,-191.917,-327.111,0,-303.631 1/1:180:0,180,0:0:0:180,0:6292,0:-565.588,-54.1854,0,-565.588,-54.1854,-565.588 1/1:131:0,131,0:0:0:131,0:4611,0:-414.515,-39.4349,0,-414.515,-39.4349,-414.515 chr11 31499814 . GGCG AGCA 13031.1 PASS AB=0.447578;ABP=36.022;AC=11;AF=0.261905;AN=42;AO=775;CIGAR=1X2M1X;DP=3120;DPB=3120;DPRA=1.20489;EPP=1685.9;EPPR=5077.74;GTI=0;LEN=4;MEANALT=1.41667;MQM=59.7574;MQMR=59.9902;NS=21;NUMALT=1;ODDS=16.4874;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27171;QR=82018;RO=2337;RPL=775;RPP=1685.9;RPPR=5077.74;RPR=0;RUN=1;SAF=0;SAP=1685.9;SAR=775;SRF=0;SRP=5077.74;SRR=2337;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/0:202:201,1:201:6982:1:36:0,-57.2098,-624.868 0/0:121:121,0:121:4245:0:0:0,-36.4246,-382.226 0/1:149:86,63:86:3036:63:2174:-151.044,0,-228.618 0/1:245:127,117:127:4482:117:4100:-295.376,0,-329.743 0/1:234:126,107:126:4439:107:3721:-264.625,0,-329.336 0/1:167:92,75:92:3248:75:2653:-188.745,0,-242.267 0/1:183:98,84:98:3449:84:2956:-211.105,0,-255.479 1/1:153:0,153:0:0:153:5351:-481.71,-46.0576,0 0/0:281:280,0:280:9847:0:0:0,-84.2884,-885.983 0/0:33:33,0:33:1156:0:0:0,-9.93399,-104.346 0/0:6:6,0:6:213:0:0:0,-1.80618,-19.5164 0/1:43:31,12:31:1098:12:420:-25.1878,0,-86.1857 0/1:249:136,113:136:4799:113:4005:-285.682,0,-357.114 0/0:213:212,0:212:7396:0:0:0,-63.8184,-665.497 0/0:280:280,0:280:9821:0:0:0,-84.2884,-883.857 0/0:95:95,0:95:3341:0:0:0,-28.5978,-300.909 0/0:99:99,0:99:3467:0:0:0,-29.802,-312.244 0/1:57:22,34:22:773:34:1185:-89.7342,0,-52.6732 0/1:56:42,14:42:1452:14:498:-28.2981,0,-114.115 0/0:185:182,2:182:6391:2:72:0,-48.9126,-568.457 0/0:69:68,0:68:2383:0:0:0,-20.47,-214.368 chr11 31540177 . ATTGTA ATGTA 10360.1 PASS AB=0.444672;ABP=15.9857;AC=31;AF=0.738095;AN=42;AO=541;CIGAR=1M1D4M;DP=875;DPB=784.5;DPRA=0.717544;EPP=1177.78;EPPR=723.939;GTI=1;LEN=1;MEANALT=1.1;MQM=52.0795;MQMR=59.506;NS=21;NUMALT=1;ODDS=2.00212;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19026;QR=11448;RO=332;RPL=541;RPP=1177.78;RPPR=723.939;RPR=0;RUN=1;SAF=541;SAP=1177.78;SAR=0;SRF=332;SRP=723.939;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:29:0,29:0:0:29:1023:-91.8721,-8.72987,0 1/1:20:1,19:1:36:19:680:-57.7844,-2.42233,0 0/1:47:28,19:28:974:19:650:-44.5488,0,-73.8232 0/1:28:13,15:13:454:15:540:-40.3643,0,-32.764 0/1:91:47,44:47:1613:44:1563:-112.883,0,-118.061 0/1:76:39,37:39:1370:37:1298:-94.0776,0,-100.697 0/1:52:36,16:36:1241:16:563:-35.154,0,-96.3312 0/0:57:57,0:57:1967:0:0:0,-17.1587,-177.274 1/1:49:1,47:1:35:47:1658:-145.653,-11.3052,0 1/1:10:0,10:0:0:10:352:-31.5052,-3.0103,0 1/1:6:0,6:0:0:6:216:-19.5082,-1.80618,0 0/1:18:12,6:12:406:6:216:-14.3343,0,-31.439 0/1:58:37,21:37:1261:21:744:-49.6674,0,-96.3164 1/1:19:0,19:0:0:19:660:-59.5296,-5.71957,0 1/1:79:0,79:0:0:79:2750:-247.167,-23.7814,0 1/1:17:0,17:0:0:17:595:-53.4833,-5.11751,0 1/1:24:0,23:0:0:23:811:-72.5988,-6.92369,0 0/1:78:43,35:43:1473:35:1239:-88.1304,0,-109.36 0/1:40:16,24:16:547:24:848:-64.2989,0,-37.512 1/1:44:2,42:2:71:42:1473:-125.766,-6.50326,0 1/1:33:0,33:0:0:33:1147:-103.314,-9.93399,0 chr11 31540443 . A G 14453.1 PASS AB=0.481694;ABP=7.06486;AC=11;AF=0.261905;AN=42;AO=830;CIGAR=1X;DP=2680;DPB=2680;DPRA=1.95351;EPP=1805.33;EPPR=4009.38;GTI=1;LEN=1;MEANALT=1.07692;MQM=59.894;MQMR=60;NS=21;NUMALT=1;ODDS=1.44008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29416;QR=66111;RO=1849;RPL=0;RPP=1805.33;RPPR=4009.38;RPR=830;RUN=1;SAF=0;SAP=1805.33;SAR=830;SRF=0;SRP=4018.06;SRR=1849;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:120:119,1:119:4258:1:32:0,-32.9247,-380.199 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 0/1:208:109,99:109:3907:99:3523:-254.61,0,-289.208 0/1:265:150,115:150:5367:115:4068:-286.49,0,-403.389 0/1:254:120,134:120:4265:134:4740:-350.252,0,-307.565 0/1:114:71,43:71:2556:43:1527:-103.405,0,-195.972 0/1:170:82,88:82:2952:88:3119:-229.761,0,-214.737 1/1:155:0,155:0:0:155:5469:-492.346,-46.6597,0 0/0:234:234,0:234:8339:0:0:0,-70.441,-750.519 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:41:21,20:21:739:20:698:-50.7989,0,-54.4901 0/1:230:103,126:103:3679:126:4504:-336.076,0,-262.017 0/0:183:183,0:183:6517:0:0:0,-55.0885,-586.616 0/0:181:179,2:179:6414:2:72:0,-47.6497,-570.509 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.801 0/0:49:49,0:49:1756:0:0:0,-14.7505,-158.324 0/1:53:30,23:30:1071:23:813:-57.5345,0,-80.747 0/1:58:35,23:35:1241:23:815:-56.211,0,-94.5328 0/0:189:188,1:188:6730:1:36:0,-53.2964,-602.175 0/0:39:39,0:39:1400:0:0:0,-11.7402,-126.299 chr11 31540453 . C A 15030.5 PASS AB=0.483963;ABP=6.14446;AC=11;AF=0.261905;AN=42;AO=839;CIGAR=1X;DP=2715;DPB=2715;DPRA=2.73986;EPP=1798.91;EPPR=3926.03;GTI=1;LEN=1;MEANALT=1.07143;MQM=59.8951;MQMR=60;NS=21;NUMALT=1;ODDS=1.2622;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30077;QR=66995;RO=1874;RPL=836;RPP=1798.91;RPPR=3926.03;RPR=3;RUN=1;SAF=0;SAP=1824.88;SAR=839;SRF=0;SRP=4072.35;SRR=1874;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:119:118,1:118:4191:1:36:0,-32.2253,-373.774 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 0/1:210:109,101:109:3908:101:3628:-263.451,0,-288.697 0/1:268:150,118:150:5363:118:4225:-299.705,0,-402.126 0/1:252:119,133:119:4248:133:4776:-354.085,0,-306.638 0/1:114:70,44:70:2489:44:1576:-107.814,0,-189.945 0/1:172:83,89:83:2980:89:3200:-236.443,0,-216.655 1/1:155:1,154:1:36:154:5516:-492.967,-43.0614,0 0/0:238:236,2:236:8447:2:61:0,-65.8519,-754.439 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:42:22,20:22:780:20:711:-51.673,0,-57.8798 0/1:231:104,126:104:3732:126:4516:-336.94,0,-266.483 0/0:191:191,0:191:6833:0:0:0,-57.4967,-615.039 0/0:181:179,2:179:6409:2:72:0,-47.6497,-570.059 0/0:53:53,0:53:1884:0:0:0,-15.9546,-169.839 0/0:49:48,0:48:1705:0:0:0,-14.4494,-153.374 0/1:55:31,24:31:1096:24:860:-61.1652,0,-82.3933 0/1:59:35,24:35:1260:24:864:-60.3218,0,-95.9447 0/0:200:199,1:199:7114:1:36:0,-56.6077,-636.72 0/0:40:40,0:40:1436:0:0:0,-12.0412,-129.538 chr11 31560881 . T C 4222.55 PASS AB=0.482838;ABP=4.12833;AC=11;AF=0.261905;AN=42;AO=247;CIGAR=1X;DP=839;DPB=839;DPRA=1.42158;EPP=539.364;EPPR=1279.85;GTI=0;LEN=1;MEANALT=1;MQM=59.9312;MQMR=59.978;NS=21;NUMALT=1;ODDS=2.63473;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8833;QR=21229;RO=592;RPL=0;RPP=539.364;RPPR=1279.85;RPR=247;RUN=1;SAF=247;SAP=539.364;SAR=0;SRF=592;SRP=1288.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:51,0:51:1817:0:0:0,-15.3525,-163.809 0/0:48:48,0:48:1728:0:0:0,-14.4494,-155.805 0/1:38:12,26:12:428:26:932:-72.6899,0,-27.4197 0/1:48:31,17:31:1116:17:604:-40.2412,0,-86.3023 0/1:89:58,31:58:2065:31:1112:-73.5997,0,-159.328 0/1:51:24,27:24:860:27:972:-72.4454,0,-62.3693 0/1:79:42,37:42:1512:37:1324:-95.6807,0,-112.593 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 0/0:13:13,0:13:456:0:0:0,-3.91339,-41.3661 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:10:2,8:2:72:8:288:-23.2571,0,-3.82642 0/1:43:18,25:18:648:25:896:-68.0161,0,-45.7076 0/0:36:36,0:36:1292:0:0:0,-10.8371,-116.584 0/0:61:61,0:61:2196:0:0:0,-18.3628,-197.905 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/0:47:47,0:47:1679:0:0:0,-14.1484,-151.396 0/1:55:25,30:25:900:30:1065:-79.6031,0,-64.7644 0/1:24:14,10:14:504:10:352:-24.7935,0,-38.4734 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/0:29:29,0:29:1044:0:0:0,-8.72987,-94.2748 chr11 31560898 . 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A T 3571.21 PASS AB=0.326348;ABP=765.466;AC=18;AF=0.428571;AN=42;AO=1020;CIGAR=1X;DP=3539;DPB=3539;DPRA=0;EPP=2217.91;EPPR=5470.78;GTI=9;LEN=1;MEANALT=1.04762;MQM=23.0686;MQMR=23.4067;NS=21;NUMALT=1;ODDS=3.41263;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36538;QR=89738;RO=2518;RPL=0;RPP=2217.91;RPPR=5470.78;RPR=1020;RUN=1;SAF=0;SAP=2217.91;SAR=1020;SRF=0;SRP=5470.78;SRR=2518;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:76,96:76:2699:96:3452:-151.285,0,-118.475 0/1:91:50,41:50:1792:41:1469:-32.5526,0,-47.9663 0/1:128:103,24:103:3661:24:860:-12.6804,0,-191.199 0/0:184:165,19:165:5875:19:671:0,-17.3888,-331.606 0/1:479:408,71:408:14595:71:2527:-9.85411,0,-760.135 0/0:203:179,24:179:6390:24:854:0,-27.6595,-241.369 0/1:319:238,81:238:8504:81:2880:-17.9881,0,-259.121 0/1:74:41,33:41:1468:33:1184:-42.0543,0,-61.2845 0/1:283:154,129:154:5509:129:4640:-218.594,0,-294.754 0/1:9:4,5:4:144:5:180:-8.63514,0,-5.00118 0/1:9:6,3:6:216:3:108:-1.75893,0,-6.24859 0/1:23:13,10:13:459:10:360:-12.1374,0,-20.1275 0/1:210:108,102:108:3819:102:3652:-150.987,0,-176.435 0/0:241:214,27:214:7653:27:972:0,-14.0442,-419.954 0/1:275:152,123:152:5386:123:4412:-180.796,0,-252.403 0/1:124:73,51:73:2574:51:1832:-83.1079,0,-139.016 0/1:128:87,41:87:3089:41:1476:-59.2175,0,-173.895 0/1:88:71,17:71:2544:17:608:-6.9323,0,-113.032 0/1:108:78,30:78:2740:30:1076:-31.4339,0,-140.452 0/1:267:207,60:207:7396:60:2137:-34.7905,0,-326.142 0/1:124:91,33:91:3225:33:1188:-10.4198,0,-97.621 chr11 31633736 . T A 4018.84 PASS AB=0.384439;ABP=408.524;AC=20;AF=0.47619;AN=42;AO=1344;CIGAR=1X;DP=3571;DPB=3571;DPRA=2.33067;EPP=2921.47;EPPR=4836.71;GTI=8;LEN=1;MEANALT=1.05;MQM=22.3266;MQMR=23.819;NS=21;NUMALT=1;ODDS=1.97645;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48006;QR=79158;RO=2226;RPL=0;RPP=2921.47;RPPR=4836.71;RPR=1344;RUN=1;SAF=0;SAP=2921.47;SAR=1344;SRF=0;SRP=4836.71;SRR=2226;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:171:135,36:135:4787:36:1283:-23.3264,0,-243.368 0/1:87:54,33:54:1936:33:1172:-20.9865,0,-54.2022 0/1:125:77,48:77:2748:48:1711:-63.5566,0,-137.097 0/1:186:102,84:102:3625:84:3000:-124.293,0,-174.306 0/1:490:282,207:282:10063:207:7386:-288.304,0,-497.155 0/1:207:114,93:114:4048:93:3336:-78.8069,0,-112.671 0/1:325:170,155:170:6029:155:5507:-125.486,0,-157.367 0/0:75:75,0:75:2672:0:0:0,-22.5772,-148.225 0/1:282:196,86:196:6973:86:3092:-119.092,0,-391.8 0/1:9:6,3:6:216:3:108:-2.85535,0,-10.7698 0/1:9:4,5:4:144:5:180:-4.63135,0,-3.37782 0/1:24:19,5:19:680:5:180:-2.81777,0,-30.0795 0/1:217:152,65:152:5401:65:2327:-72.497,0,-263.563 0/1:245:158,87:158:5624:87:3111:-110.567,0,-285.133 0/1:275:180,95:180:6372:95:3404:-120.269,0,-313.159 0/1:123:75,48:75:2619:48:1715:-76.6262,0,-142.859 0/1:128:80,48:80:2856:48:1711:-75.7056,0,-157.962 0/1:89:63,26:63:2252:26:924:-23.0794,0,-99.4692 0/1:110:73,37:73:2624:37:1324:-43.3935,0,-131.474 0/1:271:134,137:134:4753:137:4892:-178.59,0,-183.907 0/1:123:77,46:77:2736:46:1643:-27.2134,0,-80.253 chr11 31633741 . T A 3459.16 PASS AB=0.319932;ABP=836.647;AC=18;AF=0.428571;AN=42;AO=1019;CIGAR=1X;DP=3598;DPB=3598;DPRA=0;EPP=2215.74;EPPR=5601.07;GTI=9;LEN=1;MEANALT=1.04762;MQM=23.0314;MQMR=23.3774;NS=21;NUMALT=1;ODDS=1.07213;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36401;QR=92357;RO=2578;RPL=0;RPP=2215.74;RPPR=5601.07;RPR=1019;RUN=1;SAF=0;SAP=2215.74;SAR=1019;SRF=0;SRP=5601.07;SRR=2578;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:171:75,96:75:2688:96:3443:-151.44,0,-115.54 0/1:90:49,41:49:1760:41:1453:-32.7506,0,-47.1089 0/1:130:106,24:106:3800:24:864:-12.0274,0,-197.776 0/0:186:167,19:167:5983:19:670:0,-18.0772,-336.28 0/1:493:422,71:422:15138:71:2537:-6.04256,0,-786.495 0/0:207:182,25:182:6519:25:885:0,-27.3585,-245.825 0/1:329:248,81:248:8896:81:2877:-14.9429,0,-271.289 0/1:75:42,33:42:1500:33:1179:-41.1529,0,-62.1682 0/1:281:154,127:154:5508:127:4551:-214.102,0,-294.519 0/1:9:4,5:4:144:5:180:-8.63514,0,-5.00118 0/1:9:6,3:6:216:3:108:-1.75893,0,-6.24859 0/1:24:13,11:13:468:11:388:-12.9724,0,-19.9189 0/1:214:113,101:113:4064:101:3632:-147.939,0,-187.309 0/0:245:217,28:217:7788:28:988:0,-13.2802,-425.386 0/1:279:156,123:156:5592:123:4396:-179.148,0,-261.224 0/1:125:73,51:73:2616:51:1828:-82.8043,0,-140.315 0/1:130:90,40:90:3224:40:1429:-55.9114,0,-181.745 0/1:90:73,17:73:2586:17:612:-6.35224,0,-117.142 0/1:110:80,30:80:2859:30:1080:-30.8654,0,-143.756 0/1:275:215,60:215:7693:60:2122:-32.4302,0,-335.988 0/1:126:93,33:93:3315:33:1179:-9.80509,0,-100.159 chr11 31633748 . T C 4481.44 PASS AB=0.383523;ABP=417.811;AC=20;AF=0.47619;AN=42;AO=1350;CIGAR=1X;DP=3596;DPB=3596;DPRA=2.31579;EPP=2788.7;EPPR=4553.49;GTI=5;LEN=1;MEANALT=1.05;MQM=22.4237;MQMR=23.8227;NS=21;NUMALT=1;ODDS=0.177014;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48262;QR=80354;RO=2245;RPL=1333;RPP=2788.7;RPPR=4553.49;RPR=17;RUN=1;SAF=0;SAP=2934.5;SAR=1350;SRF=0;SRP=4877.97;SRR=2245;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:133,37:133:4768:37:1307:-25.6402,0,-239.661 0/1:90:56,34:56:2004:34:1220:-23.3448,0,-56.3444 0/1:128:78,50:78:2804:50:1788:-67.0272,0,-138.607 0/1:189:105,84:105:3753:84:3016:-123.663,0,-180.267 0/1:491:285,206:285:10194:206:7392:-287.367,0,-502.931 0/1:206:113,93:113:4052:93:3306:-78.4461,0,-111.961 0/1:328:172,156:172:6157:156:5572:-125.676,0,-159.451 0/0:76:76,0:76:2728:0:0:0,-22.8783,-150.307 0/1:283:197,86:197:7050:86:3086:-119.054,0,-394.377 0/1:9:6,3:6:216:3:108:-2.85535,0,-10.7698 0/1:9:4,5:4:144:5:180:-4.63135,0,-3.37782 0/1:24:19,5:19:680:5:180:-2.81777,0,-30.0795 0/1:217:153,64:153:5465:64:2283:-71.2294,0,-266.594 0/1:244:158,86:158:5645:86:3077:-108.691,0,-285.271 0/1:281:183,98:183:6519:98:3471:-124.935,0,-317.922 0/1:125:76,49:76:2736:49:1756:-78.5717,0,-146.8 0/1:130:81,49:81:2912:49:1760:-77.7732,0,-160.32 0/1:89:64,25:64:2300:25:878:-20.1537,0,-101.706 0/1:109:73,36:73:2609:36:1296:-42.7442,0,-131.166 0/1:274:137,137:137:4882:137:4913:-178.533,0,-189.38 0/1:124:76,47:76:2736:47:1673:-28.484,0,-78.9013 chr11 31635620 . C A 10285.1 PASS AB=0.450596;ABP=27.899;AC=11;AF=0.261905;AN=42;AO=611;CIGAR=1X;DP=2435;DPB=2435;DPRA=1.18664;EPP=1329.78;EPPR=3952.92;GTI=0;LEN=1;MEANALT=1;MQM=59.9984;MQMR=60;NS=21;NUMALT=1;ODDS=15.8957;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21740;QR=64370;RO=1823;RPL=611;RPP=1329.78;RPPR=3961.6;RPR=0;RUN=1;SAF=611;SAP=1329.78;SAR=0;SRF=1822;SRP=3952.92;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:151:151,0:151:5307:0:0:0,-45.4555,-477.768 0/0:123:122,1:122:4277:1:36:0,-33.4284,-381.512 0/1:145:93,52:93:3295:52:1850:-123.13,0,-253.119 0/1:146:86,60:86:2996:60:2097:-145.046,0,-225.922 0/1:248:135,113:135:4819:113:4037:-288.863,0,-359.211 0/1:120:56,64:56:1983:64:2300:-171.137,0,-142.62 0/1:211:108,103:108:3854:103:3658:-265.907,0,-283.538 1/1:80:0,80:0:0:80:2845:-256.287,-24.0824,0 0/0:216:216,0:216:7620:0:0:0,-65.0225,-685.845 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:24:14,10:14:495:10:360:-25.5196,0,-37.6583 0/1:169:92,77:92:3239:77:2745:-196.418,0,-240.859 0/0:141:141,0:141:4929:0:0:0,-42.4452,-443.764 0/0:205:205,0:205:7266:0:0:0,-61.7111,-653.995 0/0:99:99,0:99:3543:0:0:0,-29.802,-319.078 0/0:54:54,0:54:1864:0:0:0,-16.2556,-168.034 0/1:57:26,31:26:899:31:1096:-81.789,0,-64.0644 0/1:54:35,19:35:1248:19:680:-45.2735,0,-96.3692 0/0:115:114,1:114:4049:1:36:0,-31.0202,-360.998 0/0:45:44,0:44:1539:0:0:0,-13.2453,-138.439 chr11 31635724 . G A 18979.4 PASS AB=0.492286;ABP=3.37881;AC=31;AF=0.738095;AN=42;AO=920;CIGAR=1X;DP=1313;DPB=1313;DPRA=2.38148;EPP=1992.09;EPPR=839.116;GTI=0;LEN=1;MEANALT=1;MQM=59.8511;MQMR=59.9949;NS=21;NUMALT=1;ODDS=1.96327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32932;QR=14053;RO=393;RPL=919;RPP=1992.09;RPPR=839.116;RPR=1;RUN=1;SAF=0;SAP=2000.76;SAR=920;SRF=0;SRP=856.399;SRR=393;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:36:1,35:1:36:35:1260:-110.105,-7.23881,0 1/1:47:0,47:0:0:47:1688:-152.207,-14.1484,0 0/1:36:20,16:20:712:16:576:-41.3379,0,-53.5696 0/1:65:40,25:40:1419:25:896:-61.3925,0,-108.439 0/1:179:87,92:87:3120:92:3285:-241.981,0,-227.142 0/1:70:38,32:38:1364:32:1148:-82.5577,0,-101.989 0/1:140:68,72:68:2422:72:2580:-190.305,0,-176.091 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 1/1:134:0,134:0:0:134:4804:-432.504,-40.338,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:10:7,3:7:252:3:108:-7.04666,0,-20.0187 0/1:93:43,50:43:1544:50:1773:-131.854,0,-111.257 1/1:55:0,55:0:0:55:1976:-178.115,-16.5567,0 1/1:81:0,81:0:0:81:2901:-261.324,-24.3834,0 1/1:71:3,68:3:104:68:2444:-210.481,-11.6703,0 1/1:47:0,47:0:0:47:1683:-151.751,-14.1484,0 0/1:63:38,25:38:1360:25:892:-61.606,0,-103.736 0/1:57:21,36:21:748:36:1275:-97.8914,0,-50.4866 1/1:40:0,40:0:0:40:1440:-129.897,-12.0412,0 1/1:54:0,54:0:0:54:1915:-172.355,-16.2556,0 chr11 31635798 . G C 12980 PASS AB=0.470833;ABP=13.6505;AC=11;AF=0.261905;AN=42;AO=813;CIGAR=1X;DP=3134;DPB=3134;DPRA=1.46328;EPP=1768.42;EPPR=5034.31;GTI=0;LEN=1;MEANALT=1.25;MQM=40.8241;MQMR=54.3755;NS=21;NUMALT=1;ODDS=13.3053;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28795;QR=82463;RO=2317;RPL=813;RPP=1768.42;RPPR=5034.31;RPR=0;RUN=1;SAF=813;SAP=1768.42;SAR=0;SRF=2317;SRP=5034.31;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:275:274,1:274:9780:1:36:0,-79.2622,-874.53 0/0:144:144,0:144:5099:0:0:0,-43.3483,-454 0/1:136:57,79:57:2010:79:2796:-202.957,0,-139.989 0/1:217:107,109:107:3793:109:3894:-273.851,0,-275.339 0/1:342:194,148:194:6917:148:5232:-354.41,0,-517.951 0/1:188:103,85:103:3659:85:3011:-198.796,0,-271.656 0/1:247:123,123:123:4356:123:4356:-297.548,0,-315.386 1/1:131:0,131:0:0:131:4651:-403.108,-39.4349,0 0/0:221:221,0:221:7872:0:0:0,-66.5276,-707.039 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.8727 0/0:7:7,0:7:252:0:0:0,-2.10721,-22.9225 0/1:36:16,20:16:576:20:703:-49.9812,0,-41.238 0/1:166:92,74:92:3292:74:2622:-179.502,0,-244.634 0/0:168:168,0:168:5991:0:0:0,-50.573,-537.654 0/0:191:191,0:191:6817:0:0:0,-57.4967,-610.509 0/0:134:134,0:134:4745:0:0:0,-40.338,-426.933 0/0:132:132,0:132:4682:0:0:0,-39.736,-420.191 0/1:54:32,22:32:1144:22:784:-51.8191,0,-86.8098 0/1:54:36,18:36:1273:18:602:-37.2307,0,-98.387 0/0:226:222,3:222:7922:3:108:0,-58.2905,-699.672 0/0:54:53,0:53:1887:0:0:0,-15.9546,-169.193 chr11 31659131 . ACTCGTTTT CATCATTTC,CATCGTTTC 22128.8 PASS AB=0.406926,0.582973;ABP=55.1538,44.45;AC=31,11;AF=0.738095,0.261905;AN=42;AO=898,477;CIGAR=2X2M1X3M1X,2X6M1X;DP=1387;DPB=1387;DPRA=0,1.89695;EPP=1952.99,1021.5;EPPR=0;GTI=1;LEN=9,9;MEANALT=2.09524,2.75;MQM=27.951,54.8952;MQMR=0;NS=21;NUMALT=2;ODDS=0.9185;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31246,16672;QR=0;RO=0;RPL=0,2;RPP=1952.99,1021.5;RPPR=0;RPR=898,475;RUN=1,1;SAF=0,0;SAP=1952.99,1038.8;SAR=898,477;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:0,70,1:0:0:70,1:2431,36:-171.196,-21.0721,0,-168.26,-17.7775,-167.959 1/1:48:0,47,0:0:0:47,0:1621,0:-114.042,-14.1484,0,-114.042,-14.1484,-114.042 1/2:92:0,45,46:0:0:45,46:1560,1602:-225.52,-129.836,-116.29,-95.645,0,-81.7976 1/2:112:0,43,66:0:0:43,66:1474,2303:-278.133,-187.071,-174.127,-91.0367,0,-71.1687 1/2:137:0,59,77:0:0:59,77:2050,2692:-344.323,-218.404,-200.643,-125.973,0,-102.794 1/2:83:0,30,52:0:0:30,52:1041,1812:-211.024,-147.01,-137.979,-64.0398,0,-48.3862 1/2:80:0,28,52:0:0:28,52:974,1784:-204.394,-144.512,-136.083,-60.1781,0,-44.5246 2/2:74:0,1,71:0:0:1,71:35,2491:-223.687,-221.54,-221.239,-21.3731,-19.234,0 1/1:156:0,154,1:0:0:154,1:5346,36:-374.401,-46.3586,0,-371.465,-43.3565,-371.164 1/1:8:0,8,0:0:0:8,0:286,0:-19.9438,-2.40824,0,-19.9438,-2.40824,-19.9438 1/1:5:0,5,0:0:0:5,0:174,0:-12.491,-1.50515,0,-12.491,-1.50515,-12.491 1/2:18:0,8,10:0:0:8,10:280,356:-46.4085,-29.2899,-26.8817,-17.4273,0,-14.417 1/2:70:0,26,43:0:0:26,43:918,1499:-177.163,-121.792,-113.965,-55.414,0,-42.4697 1/1:69:0,69,0:0:0:69,0:2392,0:-168.171,-20.7711,0,-168.171,-20.7711,-168.171 1/1:79:0,79,0:0:0:79,0:2754,0:-192.591,-23.7814,0,-192.591,-23.7814,-192.591 1/1:39:0,39,0:0:0:39,0:1360,0:-94.8376,-11.7402,0,-94.8376,-11.7402,-94.8376 1/1:49:0,48,0:0:0:48,0:1667,0:-117.064,-14.4494,0,-117.064,-14.4494,-117.064 1/2:39:0,12,27:0:0:12,27:427,963:-103.896,-78.3812,-74.7688,-25.8103,0,-17.6825 1/2:62:0,31,31:0:0:31,31:1102,1098:-156.369,-89.6095,-80.2775,-67.0731,0,-57.7411 1/1:50:0,50,0:0:0:50,0:1738,0:-121.479,-15.0515,0,-121.479,-15.0515,-121.479 1/1:46:0,46,0:0:0:46,0:1616,0:-112.862,-13.8474,0,-112.862,-13.8474,-112.862 chr11 31659155 . A C 11187.4 PASS AB=0.401154;ABP=61.8218;AC=31;AF=0.738095;AN=42;AO=881;CIGAR=1X;DP=1375;DPB=1375;DPRA=0;EPP=1916.08;EPPR=1073.55;GTI=2;LEN=1;MEANALT=1.04762;MQM=27.9614;MQMR=54.6126;NS=21;NUMALT=1;ODDS=0.858467;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31402;QR=17664;RO=493;RPL=881;RPP=1916.08;RPPR=1073.55;RPR=0;RUN=1;SAF=0;SAP=1916.08;SAR=881;SRF=0;SRP=1073.55;SRR=493;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:2,67:2:72:67:2366:-156.672,-14.0485,0 1/1:48:0,48:0:0:48:1701:-117.369,-14.4494,0 0/1:91:45,45:45:1616:45:1605:-83.3556,0,-117.057 0/1:111:68,43:68:2444:43:1544:-72.4337,0,-185.5 0/1:137:79,58:79:2809:58:2065:-101.742,0,-209.768 0/1:85:55,30:55:1976:30:1076:-48.4899,0,-151.877 0/1:82:54,28:54:1931:28:989:-43.7429,0,-148.038 0/0:77:76,1:76:2728:1:36:0,-20.4431,-241.576 1/1:151:1,150:1:36:150:5346:-363.513,-41.8599,0 1/1:8:0,8:0:0:8:288:-19.9743,-2.40824,0 1/1:5:0,5:0:0:5:180:-12.5865,-1.50515,0 0/1:19:11,8:11:392:8:288:-14.2547,0,-29.7453 0/1:69:42,27:42:1504:27:964:-45.3581,0,-114.669 1/1:67:0,67:0:0:67:2392:-164.82,-20.169,0 1/1:78:0,78:0:0:78:2769:-190.785,-23.4803,0 1/1:38:0,38:0:0:38:1349:-92.4772,-11.4391,0 1/1:48:0,48:0:0:48:1728:-118.399,-14.4494,0 0/1:39:28,11:28:1008:11:392:-15.2233,0,-78.6595 0/1:60:32,28:32:1148:28:992:-50.8694,0,-85.3457 1/1:48:0,48:0:0:48:1716:-117.528,-14.4494,0 1/1:45:0,45:0:0:45:1616:-111.016,-13.5464,0 chr11 31659199 . 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T G 13281.6 PASS AB=0.569863;ABP=18.4843;AC=31;AF=0.738095;AN=42;AO=503;CIGAR=1X;DP=692;DPB=692;DPRA=1.1431;EPP=1086.59;EPPR=409.076;GTI=0;LEN=1;MEANALT=1.1;MQM=59.994;MQMR=60;NS=21;NUMALT=1;ODDS=6.04023;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17895;QR=6689;RO=187;RPL=261;RPP=4.56875;RPPR=3.5793;RPR=242;RUN=1;SAF=260;SAP=4.25793;SAR=243;SRF=97;SRP=3.5793;SRR=90;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:33:0,33:0:0:33:1168:-105.426,-9.93399,0 1/1:22:0,22:0:0:22:788:-71.2432,-6.62266,0 0/1:12:7,4:7:248:4:144:-9.64246,0,-18.9937 0/1:24:10,14:10:360:14:493:-37.477,0,-25.5196 0/1:56:24,32:24:849:32:1144:-86.4118,0,-59.8701 0/1:15:10,5:10:360:5:180:-12.0366,0,-28.2289 0/1:41:24,17:24:860:17:604:-42.3484,0,-65.3796 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 1/1:40:0,40:0:0:40:1421:-128.185,-12.0412,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1782 0/1:37:16,21:16:568:21:752:-56.8681,0,-40.3138 1/1:37:0,37:0:0:37:1309:-118.11,-11.1381,0 1/1:37:2,35:2:72:35:1252:-106.148,-4.30139,0 1/1:13:0,13:0:0:13:464:-42.0975,-3.91339,0 1/1:17:0,16:0:0:16:576:-51.8152,-4.81648,0 0/1:81:37,44:37:1328:44:1536:-114.145,0,-95.4388 0/1:87:22,65:22:792:65:2324:-183.231,0,-45.4161 1/1:19:0,19:0:0:19:675:-61.077,-5.71957,0 1/1:71:0,71:0:0:71:2525:-227.501,-21.3731,0 chr11 31722351 . C T 6737.78 PASS AB=0.35906;ABP=157.258;AC=11;AF=0.261905;AN=42;AO=420;CIGAR=1X;DP=2115;DPB=2115;DPRA=0.975379;EPP=915.029;EPPR=3635.97;GTI=0;LEN=1;MEANALT=1.2;MQM=59.619;MQMR=40.3694;NS=21;NUMALT=1;ODDS=8.21571;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15016;QR=60485;RO=1689;RPL=420;RPP=915.029;RPPR=3635.97;RPR=0;RUN=1;SAF=420;SAP=915.029;SAR=0;SRF=1689;SRP=3670.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:102:102,0:102:3656:0:0:0,-30.7051,-317.538 0/0:80:80,0:80:2856:0:0:0,-24.0824,-234.114 0/1:133:88,45:88:3140:45:1597:-103.959,0,-232.442 0/1:75:43,32:43:1548:32:1148:-81.048,0,-110.925 0/1:172:94,78:94:3376:78:2769:-197.664,0,-242.239 0/1:63:42,21:42:1491:21:752:-49.025,0,-106.156 0/1:184:123,61:123:4412:61:2183:-141.338,0,-310.278 1/1:100:1,99:1:36:99:3556:-316.731,-26.6485,0 0/0:183:183,0:183:6537:0:0:0,-55.0885,-571.438 0/0:33:33,0:33:1184:0:0:0,-9.93399,-101.333 0/0:9:9,0:9:324:0:0:0,-2.70927,-27.5378 0/1:23:12,11:12:432:11:392:-28.6964,0,-29.4254 0/1:55:27,28:27:972:28:999:-73.6666,0,-67.8249 0/0:139:139,0:139:4984:0:0:0,-41.8432,-426.763 0/0:266:266,0:266:9540:0:0:0,-80.074,-818.165 0/0:98:98,0:98:3520:0:0:0,-29.5009,-305.764 0/0:78:78,0:78:2789:0:0:0,-23.4803,-244.381 0/1:125:90,33:90:3208:33:1188:-69.8293,0,-237.853 0/1:64:49,12:49:1752:12:432:-20.5179,0,-131.826 0/0:68:68,0:68:2444:0:0:0,-20.47,-208.943 0/0:65:64,0:64:2284:0:0:0,-19.2659,-192.566 chr11 31741322 . 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A G 8331.34 PASS AB=0.525281;ABP=6.96287;AC=11;AF=0.261905;AN=42;AO=464;CIGAR=1X;DP=1545;DPB=1545;DPRA=1.54545;EPP=1010.57;EPPR=2341.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9612;MQMR=60;NS=21;NUMALT=1;ODDS=3.05705;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16593;QR=38148;RO=1081;RPL=464;RPP=1010.57;RPPR=2341.69;RPR=0;RUN=1;SAF=464;SAP=1010.57;SAR=0;SRF=1081;SRP=2350.37;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:69,1:69:2459:1:36:0,-17.4738,-217.966 0/0:83:83,0:83:2940:0:0:0,-24.9855,-264.836 0/1:60:23,37:23:816:37:1324:-101.4,0,-55.6999 0/1:111:52,59:52:1809:59:2109:-156.663,0,-129.675 0/1:137:67,70:67:2370:70:2501:-184.097,0,-172.317 0/1:64:25,39:25:868:39:1385:-105.681,0,-59.1698 0/1:87:49,38:49:1727:38:1345:-95.1585,0,-129.525 1/1:87:0,87:0:0:87:3121:-281.115,-26.1896,0 0/0:155:154,1:154:5416:1:36:0,-43.0614,-483.984 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:7:7,0:7:229:0:0:0,-2.10721,-20.9295 0/1:18:9,9:9:316:9:324:-24.0873,0,-23.3603 0/1:115:54,61:54:1904:61:2188:-162.567,0,-137.019 0/0:56:56,0:56:1948:0:0:0,-16.8577,-175.594 0/0:116:116,0:116:4111:0:0:0,-34.9195,-370.179 0/0:69:69,0:69:2460:0:0:0,-20.7711,-221.655 0/0:63:63,0:63:2236:0:0:0,-18.9649,-201.504 0/1:89:39,50:39:1396:50:1796:-135.131,0,-99.1474 0/1:31:20,11:20:712:11:392:-26.2881,0,-55.0747 0/0:81:80,1:80:2796:1:36:0,-20.7852,-248.284 0/0:31:31,0:31:1099:0:0:0,-9.33193,-99.2195 chr11 31857907 . C T 23484.6 PASS AB=0.449749;ABP=20.4694;AC=31;AF=0.738095;AN=42;AO=1137;CIGAR=1X;DP=1714;DPB=1714;DPRA=0.604198;EPP=2471.97;EPPR=1253.78;GTI=1;LEN=1;MEANALT=1.05;MQM=59.9639;MQMR=60;NS=21;NUMALT=1;ODDS=5.11008;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40634;QR=20563;RO=576;RPL=0;RPP=2471.97;RPPR=1253.78;RPR=1137;RUN=1;SAF=1137;SAP=2471.97;SAR=0;SRF=576;SRP=1253.78;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:0,104:0:0:104:3724:-335.361,-31.3071,0 1/1:52:0,52:0:0:52:1872:-168.759,-15.6536,0 0/1:71:41,30:41:1452:30:1080:-76.1401,0,-109.603 0/1:52:28,24:28:992:24:864:-62.429,0,-73.9408 0/1:134:78,56:78:2792:56:2000:-139.936,0,-211.182 0/1:72:39,33:39:1388:33:1188:-85.5544,0,-103.545 0/1:105:61,43:61:2172:43:1488:-102.624,0,-164.168 0/0:131:131,0:131:4680:0:0:0,-39.4349,-421.362 1/1:174:2,172:2:72:172:6156:-547.296,-45.5425,0 1/1:25:0,25:0:0:25:900:-81.2986,-7.52575,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:27:15,12:15:540:12:432:-31.0934,0,-40.8087 0/1:87:49,38:49:1756:38:1345:-95.1585,0,-132.134 1/1:72:1,71:1:36:71:2533:-224.623,-18.0759,0 1/1:120:1,119:1:36:119:4276:-381.418,-32.5253,0 1/1:73:0,73:0:0:73:2560:-230.649,-21.9752,0 1/1:45:0,45:0:0:45:1616:-145.73,-13.5464,0 0/1:180:106,74:106:3787:74:2648:-184.381,0,-286.843 0/1:68:20,48:20:716:48:1720:-134.615,0,-44.2977 1/1:44:0,44:0:0:44:1576:-142.132,-13.2453,0 1/1:72:4,68:4:144:68:2440:-206.54,-8.36054,0 chr11 31862276 . C T 35125.8 PASS AB=0.482299;ABP=9.54461;AC=11;AF=0.261905;AN=42;AO=1486;CIGAR=1X;DP=5505;DPB=5505;DPRA=1.10837;EPP=3229.82;EPPR=8717.13;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.9987;MQMR=60;NS=21;NUMALT=1;ODDS=19.4376;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=52997;QR=142764;RO=4017;RPL=883;RPP=117.575;RPPR=158.894;RPR=603;RUN=1;SAF=883;SAP=117.575;SAR=603;SRF=2278;SRP=160.057;SRR=1739;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:302:299,3:299:10642:3:108:0,-80.8359,-947.621 0/0:327:326,1:326:11620:1:36:0,-94.8385,-1042.07 0/1:192:105,87:105:3732:87:3096:-221.069,0,-278.283 0/1:282:141,141:141:5021:141:5056:-370.294,0,-367.147 0/1:464:266,198:266:9427:198:7044:-494.347,0,-708.717 0/1:259:128,131:128:4576:131:4663:-341.865,0,-334.039 0/1:338:156,182:156:5504:182:6491:-482.529,0,-393.74 1/1:318:2,316:2:72:316:11289:-1009.06,-88.8908,0 0/0:462:462,0:462:16373:0:0:0,-139.076,-1473.25 0/0:31:30,1:30:1080:1:36:0,-5.73365,-93.915 0/0:19:19,0:19:665:0:0:0,-5.71957,-60.1728 0/1:62:27,35:27:964:35:1256:-94.6814,0,-68.413 0/1:352:167,185:167:5955:185:6599:-488.029,0,-430.094 0/0:341:341,0:341:12135:0:0:0,-102.651,-1092 0/0:556:554,2:554:19746:2:72:0,-160.536,-1769.83 0/0:232:228,2:228:8075:2:72:0,-62.76,-719.935 0/0:166:165,1:165:5885:1:36:0,-46.3727,-526.163 0/1:212:108,104:108:3837:104:3699:-269.294,0,-281.709 0/1:240:145,95:145:5104:95:3372:-231.446,0,-387.259 0/0:208:206,2:206:7291:2:72:0,-55.7775,-649.41 0/0:142:142,0:142:5060:0:0:0,-42.7463,-455.548 chr11 31902525 . A T 16977.6 PASS AB=0.594771;ABP=98.4983;AC=11;AF=0.261905;AN=42;AO=911;CIGAR=1X;DP=2462;DPB=2462;DPRA=1.44164;EPP=1981.22;EPPR=3319.05;GTI=2;LEN=1;MEANALT=1;MQM=59.7398;MQMR=59.9523;NS=21;NUMALT=1;ODDS=9.40889;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32591;QR=55430;RO=1551;RPL=911;RPP=1981.22;RPPR=3370.96;RPR=0;RUN=1;SAF=0;SAP=1981.22;SAR=911;SRF=6;SRP=3319.05;SRR=1545;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:146,0:146:5240:0:0:0,-43.9504,-471.736 0/0:72:72,0:72:2554:0:0:0,-21.6742,-230.108 0/1:125:44,81:44:1584:81:2878:-221.622,0,-105.223 0/1:122:39,83:39:1404:83:2976:-231.346,0,-89.9336 0/1:286:112,174:112:4005:174:6242:-475.657,0,-274.515 0/1:99:26,73:26:936:73:2624:-206.588,0,-54.7575 0/1:220:95,125:95:3361:125:4473:-336.275,0,-236.475 1/1:179:0,179:0:0:179:6408:-576.773,-53.8844,0 0/0:209:208,1:208:7408:1:36:0,-59.317,-663.144 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:38:22,16:22:792:16:572:-40.3743,0,-60.1665 0/1:141:58,83:58:2080:83:2965:-224.631,0,-145.017 0/0:106:106,0:106:3751:0:0:0,-31.9092,-337.776 0/0:197:197,0:197:7057:0:0:0,-59.3029,-635.188 0/0:78:77,1:77:2768:1:36:0,-19.8821,-245.762 0/0:94:94,0:94:3365:0:0:0,-28.2968,-303.064 0/1:109:49,60:49:1745:60:2144:-160.395,0,-124.52 0/1:84:51,33:51:1828:33:1173:-80.5882,0,-139.514 0/0:70:69,1:69:2472:1:32:0,-17.8728,-219.534 0/0:68:67,1:67:2400:1:32:0,-17.2707,-213.049 chr11 31907100 . C T 21790.6 PASS AB=0.459973;ABP=13.2666;AC=31;AF=0.738095;AN=42;AO=1033;CIGAR=1X;DP=1472;DPB=1472;DPRA=1.99444;EPP=2151.61;EPPR=919.689;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8141;MQMR=59.895;NS=21;NUMALT=1;ODDS=1.08374;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36767;QR=15661;RO=438;RPL=1022;RPP=2151.61;RPPR=919.689;RPR=11;RUN=1;SAF=0;SAP=2246.14;SAR=1033;SRF=0;SRP=954.115;SRR=438;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:104:2,102:2:72:102:3608:-318.07,-24.4704,0 1/1:43:0,43:0:0:43:1540:-138.875,-12.9443,0 0/1:72:41,31:41:1461:31:1108:-78.3568,0,-110.092 0/1:77:47,30:47:1688:30:1046:-71.2666,0,-129.028 0/1:147:66,81:66:2368:81:2886:-214.83,0,-169.109 0/1:107:62,45:62:2224:45:1601:-112.098,0,-168.212 0/1:103:57,46:57:2033:46:1583:-111.745,0,-152.234 0/0:36:36,0:36:1296:0:0:0,-10.8371,-116.944 1/1:89:0,89:0:0:89:3187:-287.052,-26.7917,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:86:58,28:58:2065:28:1004:-64.7857,0,-160.161 1/1:92:0,92:0:0:92:3293:-296.587,-27.6948,0 1/1:116:2,114:2:57:114:4073:-361.249,-29.5062,0 1/1:75:0,75:0:0:75:2670:-240.535,-22.5773,0 1/1:79:0,79:0:0:79:2810:-253.091,-23.7814,0 0/1:91:46,45:46:1641:45:1586:-115.633,0,-120.583 0/1:49:17,32:17:612:32:1148:-88.8794,0,-40.6614 1/1:59:0,59:0:0:59:2112:-190.338,-17.7608,0 1/1:34:0,33:0:0:33:1188:-106.869,-9.93399,0 chr11 31911144 . GAG AAG,AAA 168229 PASS AB=0.515173,0.475901;ABP=8.61147,17.1392;AC=31,11;AF=0.738095,0.261905;AN=42;AO=4426,1714;CIGAR=1X2M,1X1M1X;DP=6176;DPB=6176.33;DPRA=0.777882,2.00078;EPP=9613.95,3724.91;EPPR=9.52472;GTI=0;LEN=1,3;MEANALT=2.75,3.33333;MQM=59.9849,59.965;MQMR=60;NS=21;NUMALT=2;ODDS=10.8222;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=158289,59879;QR=105;RO=3;RPL=2559,951;RPP=237.949,47.7877;RPPR=9.52472;RPR=1867,763;RUN=1,1;SAF=2559,951;SAP=237.949,47.7877;SAR=1867,763;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:311:0,310,0:0:0:310,0:11049,0:-994.055,-93.3193,0,-994.055,-93.3193,-994.055 1/1:305:0,302,1:0:0:302,1:10809,34:-972.421,-90.9111,0,-969.663,-88.1281,-969.362 1/2:258:0,125,133:0:0:125,133:4484,4670:-746.177,-380.432,-342.804,-366.099,0,-326.062 1/2:317:0,157,156:0:0:157,156:5619,5418:-898.657,-440.443,-393.181,-458.212,0,-411.251 1/2:680:0,348,323:0:0:348,323:12449,11263:-1931.17,-916.038,-811.28,-1015.17,0,-917.935 1/2:342:2,166,171:2:72:166,171:5964,5924:-961.544,-475.605,-431.509,-480.709,0,-435.108 1/2:494:0,271,223:0:0:271,223:9696,7771:-1422.97,-632.313,-550.734,-791.008,0,-723.878 2/2:373:0,0,371:0:0:0,371:0,12959:-1165.83,-1165.83,-1165.83,-111.682,-111.682,0 1/1:436:0,433,1:0:0:433,1:15420,36:-1387.24,-130.346,0,-1384.3,-127.365,-1384 1/1:42:0,42,0:0:0:42,0:1500,0:-135.295,-12.6433,0,-135.295,-12.6433,-135.295 1/1:16:0,16,0:0:0:16,0:576,0:-52.175,-4.81648,0,-52.175,-4.81648,-52.175 1/2:60:0,32,28:0:0:32,28:1148,968:-172.646,-79.0006,-69.3676,-93.9969,0,-85.568 1/2:324:0,150,173:0:0:150,173:5352,6112:-934.054,-497.751,-452.597,-436.298,0,-384.22 1/1:369:0,367,2:0:0:367,2:13100,72:-1178.45,-110.478,0,-1172.57,-104.243,-1171.97 1/1:558:0,554,3:0:0:554,3:19848,108:-1785.48,-166.771,0,-1776.66,-157.958,-1775.76 1/1:217:1,216,0:1:33:216,0:7742,0:-693.512,-62.0244,0,-693.813,-65.0225,-696.481 1/1:329:0,329,0:0:0:329,0:11748,0:-1057.08,-99.0389,0,-1057.08,-99.0389,-1057.08 1/2:157:0,85,68:0:0:85,68:3043,2381:-441.891,-193.733,-168.146,-248.166,0,-227.696 1/2:169:0,109,58:0:0:109,58:3895,2057:-484.933,-167.625,-134.813,-317.346,0,-299.887 1/1:305:0,301,3:0:0:301,3:10803,106:-971.85,-90.61,0,-963.218,-81.8698,-962.315 1/1:114:0,113,0:0:0:113,0:4044,0:-363.837,-34.0164,0,-363.837,-34.0164,-363.837 chr11 31934924 . CAC TAT,CAT 42733.4 PASS AB=0.538202,0.460674;ABP=14.2922,14.9656;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1438,535;CIGAR=1X1M1X,2M1X;DP=1975;DPB=1975;DPRA=0.766116,1.14904;EPP=3099.58,1147.44;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.65,2;MQM=59.3957,59.9738;MQMR=0;NS=21;NUMALT=2;ODDS=7.97907;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51091,19167;QR=0;RO=0;RPL=1435,533;RPP=3099.58,1147.44;RPPR=0;RPR=3,2;RUN=1,1;SAF=0,0;SAP=3125.59,1164.75;SAR=1438,535;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:109:0,107,2:0:0:107,2:3804,72:-342.002,-32.2102,0,-336.127,-25.9755,-335.525 1/1:96:0,96,0:0:0:96,0:3405,0:-306.556,-28.8989,0,-306.556,-28.8989,-306.556 1/2:77:0,26,51:0:0:26,51:928,1813:-223.667,-148.097,-140.27,-75.9263,0,-60.5738 1/2:89:0,52,36:0:0:52,36:1848,1292:-256.059,-105.513,-89.8596,-150.669,0,-139.832 1/2:193:0,121,72:0:0:121,72:4301,2592:-562.149,-211.84,-175.416,-350.667,0,-328.992 1/2:53:0,36,17:0:0:36,17:1285,612:-155.044,-50.2959,-39.4588,-105.106,0,-99.9889 1/2:175:0,92,83:0:0:92,83:3268,2961:-507.923,-241.737,-214.042,-266.542,0,-241.556 2/2:121:0,0,121:0:0:0,121:0,4333:-390.143,-390.143,-390.143,-36.4246,-36.4246,0 1/1:164:0,164,0:0:0:164,0:5823,0:-524.14,-49.3689,0,-524.14,-49.3689,-524.14 1/1:6:0,6,0:0:0:6,0:214,0:-19.6078,-1.80618,0,-19.6078,-1.80618,-19.6078 1/1:6:0,6,0:0:0:6,0:211,0:-19.3333,-1.80618,0,-19.3333,-1.80618,-19.3333 1/2:16:0,11,5:0:0:11,5:391,180:-46.7477,-15.0469,-11.7356,-32.0587,0,-30.5535 1/2:120:0,45,75:0:0:45,75:1587,2688:-348.785,-219.585,-206.039,-129.555,0,-106.978 1/1:96:0,96,0:0:0:96,0:3375,0:-303.893,-28.8989,0,-303.893,-28.8989,-303.893 1/1:165:0,165,0:0:0:165,0:5864,0:-527.836,-49.67,0,-527.836,-49.67,-527.836 1/1:68:0,68,0:0:0:68,0:2436,0:-219.468,-20.47,0,-219.468,-20.47,-219.468 1/1:75:0,73,2:0:0:73,2:2575,72:-231.606,-21.9752,0,-225.731,-15.7405,-225.129 1/2:87:0,45,42:0:0:45,42:1593,1508:-253.128,-123.371,-109.825,-130.113,0,-117.47 1/2:80:0,51,29:0:0:51,29:1832,1044:-234.959,-85.5449,-70.1924,-149.774,0,-141.044 1/1:125:0,124,0:0:0:124,0:4421,0:-397.45,-37.3277,0,-397.45,-37.3277,-397.45 1/1:54:0,54,0:0:0:54,0:1930,0:-173.948,-16.2556,0,-173.948,-16.2556,-173.948 chr12 782 . T C 1505.76 PASS AB=0.242208;ABP=651.244;AC=9;AF=0.214286;AN=42;AO=456;CIGAR=1X;DP=4379;DPB=4379;DPRA=0.932218;EPP=993.202;EPPR=8389.74;GTI=5;LEN=1;MEANALT=1.09091;MQM=24.1206;MQMR=25.7387;NS=21;NUMALT=1;ODDS=0.274069;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16229;QR=140289;RO=3922;RPL=456;RPP=993.202;RPPR=8389.74;RPR=0;RUN=1;SAF=456;SAP=993.202;SAR=0;SRF=3922;SRP=8519.53;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:120:120,0:120:4312:0:0:0,-36.1236,-275.448 0/0:224:224,0:224:8056:0:0:0,-67.4307,-474.144 0/1:205:155,50:155:5539:50:1791:-47.0109,0,-300.994 0/0:298:298,0:298:10671:0:0:0,-89.7069,-698.372 0/1:196:131,65:131:4691:65:2291:-81.1505,0,-246.834 0/0:374:339,35:339:12100:35:1231:0,-41.2445,-640.729 0/0:203:178,25:178:6340:25:888:0,-10.0367,-322.355 1/1:121:1,120:1:36:120:4292:-257.636,-34.0511,0 0/0:207:207,0:207:7390:0:0:0,-62.3132,-465.643 0/0:10:10,0:10:360:0:0:0,-3.0103,-24.5426 0/1:26:20,6:20:720:6:216:-4.61924,0,-34 0/1:87:69,18:69:2480:18:644:-13.9796,0,-136.378 0/0:154:154,0:154:5511:0:0:0,-46.3586,-362.246 0/1:438:352,85:352:12565:85:3035:-50.0778,0,-692.379 0/0:634:634,0:634:22673:0:0:0,-190.853,-1488.39 0/0:246:246,0:246:8761:0:0:0,-74.0534,-557.258 0/0:396:392,4:392:14055:4:136:0,-110.82,-886.202 0/1:74:46,28:46:1656:28:989:-39.1233,0,-86.8993 0/1:97:77,20:77:2749:20:716:-13.2414,0,-151.73 0/0:179:179,0:179:6405:0:0:0,-53.8844,-417.137 0/0:90:90,0:90:3219:0:0:0,-27.0927,-191.881 chr12 72751 . TTTATT ATGATC,ATGATT 12788.6 PASS AB=0.716707,0.283293;ABP=171.476,171.476;AC=32,10;AF=0.761905,0.238095;AN=42;AO=1253,172;CIGAR=1X1M1X2M1X,1X1M1X3M;DP=1426;DPB=1426;DPRA=1.5,1.84587;EPP=2723.87,376.504;EPPR=0;GTI=1;LEN=6,6;MEANALT=1.6,2;MQM=20.0758,36.8488;MQMR=0;NS=21;NUMALT=2;ODDS=0.261677;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44213,6042;QR=0;RO=0;RPL=0,0;RPP=2723.87,376.504;RPPR=0;RPR=1253,172;RUN=1,1;SAF=1253,172;SAP=2723.87,376.504;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:115:0,89,26:0:0:89,26:3150,926:-204.084,-70.1568,-43.3651,-134.229,0,-126.402 1/2:34:0,26,8:0:0:26,8:907,288:-61.017,-22.3541,-14.5273,-38.9692,0,-36.5609 1/2:40:0,28,12:0:0:28,12:990,417:-73.1594,-31.5266,-23.0978,-41.9181,0,-38.3058 1/2:46:0,32,14:0:0:32,14:1132,495:-85.205,-37.703,-28.0701,-47.792,0,-43.5776 1/1:92:0,90,2:0:0:90,2:3170,72:-161.186,-27.0927,0,-155.762,-21.3371,-155.16 1/1:39:0,39,0:0:0:39,0:1373,0:-70.1815,-11.7402,0,-70.1815,-11.7402,-70.1815 1/1:47:0,47,0:0:0:47,0:1667,0:-84.4391,-14.1484,0,-84.4391,-14.1484,-84.4391 2/2:46:0,0,46:0:0:0,46:0,1611:-135.771,-135.771,-135.771,-13.8474,-13.8474,0 1/2:60:0,44,16:0:0:44,16:1543,554:-103.116,-41.187,-27.9417,-62.2127,0,-57.3962 1/1:184:0,179,4:0:0:179,4:6322,139:-325.403,-53.8844,0,-314.868,-43.2497,-313.663 1/1:154:0,154,0:0:0:154,0:5421,0:-277.64,-46.3586,0,-277.64,-46.3586,-277.64 1/1:279:0,276,3:0:0:276,3:9729,108:-496.199,-83.0843,0,-488.029,-74.5795,-487.126 1/2:51:0,33,18:0:0:33,18:1175,625:-96.6768,-47.6507,-37.7167,-49.307,0,-43.8884 1/1:27:0,27,0:0:0:27,0:921,0:-48.5604,-8.12781,0,-48.5604,-8.12781,-48.5604 1/1:49:0,49,0:0:0:49,0:1736,0:-87.9279,-14.7505,0,-87.9279,-14.7505,-87.9279 1/1:28:0,28,0:0:0:28,0:1004,0:-48.024,-8.42884,0,-48.024,-8.42884,-48.024 1/1:32:0,32,0:0:0:32,0:1136,0:-55.1459,-9.63296,0,-55.1459,-9.63296,-55.1459 1/2:25:0,12,13:0:0:12,13:429,468:-53.512,-35.7132,-32.1009,-18.0633,0,-14.1499 1/2:42:0,32,10:0:0:32,10:1128,339:-73.3254,-25.741,-16.1081,-47.8725,0,-44.8622 1/1:25:0,25,0:0:0:25,0:890,0:-44.9294,-7.52575,0,-44.9294,-7.52575,-44.9294 1/1:11:0,11,0:0:0:11,0:390,0:-19.9605,-3.31133,0,-19.9605,-3.31133,-19.9605 chr12 214256 . G A 11655.1 PASS AB=0.532004;ABP=11.4888;AC=24;AF=0.571429;AN=42;AO=636;CIGAR=1X;DP=1082;DPB=1082;DPRA=0;EPP=1384.07;EPPR=969.316;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.945;MQMR=59.9865;NS=21;NUMALT=1;ODDS=4.752;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22746;QR=15786;RO=445;RPL=0;RPP=1384.07;RPPR=969.316;RPR=636;RUN=1;SAF=636;SAP=1384.07;SAR=0;SRF=445;SRP=969.316;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:12,31:12:413:31:1082:-84.7404,0,-24.5535 0/1:75:46,29:46:1629:29:1029:-70.3439,0,-124.32 0/1:58:25,33:25:900:33:1173:-88.4158,0,-63.8613 0/1:71:40,31:40:1436:31:1116:-79.3786,0,-108.165 0/1:110:60,50:60:2141:50:1784:-127.729,0,-159.843 0/1:44:10,33:10:352:33:1173:-92.5266,0,-18.7148 0/1:77:29,48:29:1036:48:1716:-131.546,0,-70.3746 0/1:25:8,17:8:288:17:612:-47.8877,0,-18.7417 0/1:86:37,49:37:1324:49:1745:-131.443,0,-93.5735 0/1:12:3,9:3:108:9:324:-25.8935,0,-6.46281 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/1:26:15,11:15:525:11:396:-28.1513,0,-39.7513 0/1:38:17,21:17:608:21:752:-56.5671,0,-43.6129 1/1:61:0,61:0:0:61:2192:-197.545,-18.3628,0 0/1:78:35,43:35:1230:43:1540:-115.413,0,-87.5196 0/1:49:24,25:24:860:25:896:-66.1814,0,-62.9714 0/1:88:46,42:46:1633:42:1512:-109.884,0,-120.766 0/1:46:21,25:21:695:25:900:-67.4736,0,-49.0089 0/1:22:13,9:13:468:9:324:-22.8832,0,-35.837 1/1:45:0,45:0:0:45:1620:-146.09,-13.5464,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 chr12 269921 . T A 10913.5 PASS AB=0.543902;ABP=16.7382;AC=24;AF=0.571429;AN=42;AO=594;CIGAR=1X;DP=968;DPB=968;DPRA=0;EPP=1292.86;EPPR=815.141;GTI=0;LEN=1;MEANALT=1;MQM=59.9293;MQMR=59.9519;NS=21;NUMALT=1;ODDS=6.52732;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21070;QR=13366;RO=374;RPL=0;RPP=1292.86;RPPR=815.141;RPR=594;RUN=1;SAF=594;SAP=1292.86;SAR=0;SRF=374;SRP=815.141;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:30:16,14:16:572:14:496:-35.9434,0,-42.7825 0/1:49:18,31:18:636:31:1085:-83.0162,0,-42.8176 0/1:53:36,17:36:1284:17:589:-37.3787,0,-99.8225 0/1:31:15,16:15:536:16:572:-42.4815,0,-39.2429 0/1:91:43,48:43:1525:48:1712:-126.972,0,-110.147 0/1:51:24,27:24:860:27:968:-72.0848,0,-62.3693 0/1:66:27,39:27:968:39:1369:-103.639,0,-67.5694 0/1:105:41,64:41:1476:64:2276:-173.494,0,-101.528 0/1:60:35,25:35:1237:25:888:-62.1763,0,-93.5705 0/1:19:6,13:6:216:13:464:-36.3779,0,-14.0709 0/1:5:4,1:4:144:1:36:-2.09312,0,-11.8085 0/1:31:14,17:14:496:17:608:-45.7201,0,-35.6423 0/1:48:17,31:17:608:31:1096:-84.5005,0,-40.6026 1/1:65:0,65:0:0:65:2312:-208.341,-19.567,0 0/1:52:26,26:26:936:26:912:-66.7423,0,-68.9059 0/1:28:10,18:10:360:18:648:-50.223,0,-24.3155 0/1:25:6,19:6:216:19:676:-53.6054,0,-12.2648 0/1:54:31,23:31:1116:23:824:-58.2277,0,-84.4961 0/1:22:5,17:5:180:17:597:-47.4335,0,-9.9294 1/1:67:0,67:0:0:67:2366:-213.196,-20.169,0 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 chr12 280299 . C T 3482.04 PASS AB=0.372197;ABP=97.9221;AC=18;AF=0.428571;AN=42;AO=249;CIGAR=1X;DP=788;DPB=788;DPRA=0.936975;EPP=543.707;EPPR=1156.13;GTI=1;LEN=1;MEANALT=1;MQM=59.9357;MQMR=59.6289;NS=21;NUMALT=1;ODDS=1.12735;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8896;QR=19215;RO=539;RPL=0;RPP=543.707;RPPR=1156.13;RPR=249;RUN=1;SAF=249;SAP=543.707;SAR=0;SRF=539;SRP=1173.43;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:17,10:17:612:10:360:-24.6165,0,-47.2833 0/1:29:22,7:22:792:7:252:-14.2991,0,-62.384 0/1:36:20,16:20:707:16:572:-40.9763,0,-53.1175 0/1:66:38,28:38:1352:28:996:-70.0869,0,-102.11 0/1:44:28,16:28:1004:16:571:-38.4756,0,-77.4305 0/1:19:11,8:11:396:8:280:-19.8197,0,-30.2632 0/1:70:46,24:46:1635:24:864:-57.0105,0,-126.32 0/1:63:38,25:38:1351:25:896:-61.9955,0,-102.924 0/1:74:52,22:52:1847:22:792:-49.3188,0,-144.207 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49869 0/1:15:4,11:4:144:11:392:-31.1046,0,-8.79817 0/1:45:29,16:29:1040:16:568:-37.9055,0,-80.3657 0/0:56:56,0:56:2000:0:0:0,-16.8577,-180.267 0/1:21:10,11:10:356:11:392:-29.2984,0,-26.0458 0/1:18:14,4:14:504:4:144:-7.89508,0,-40.2713 0/1:28:21,7:21:752:7:252:-14.6001,0,-59.561 0/1:62:33,29:33:1176:29:1040:-75.2505,0,-87.4747 0/1:43:31,12:31:1096:12:417:-24.9159,0,-86.0033 0/0:35:35,0:35:1239:0:0:0,-10.536,-111.791 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.2909 chr12 280310 . T C 3564.34 PASS AB=0.388633;ABP=73.1412;AC=18;AF=0.428571;AN=42;AO=253;CIGAR=1X;DP=765;DPB=765;DPRA=0.951754;EPP=552.393;EPPR=1103.96;GTI=2;LEN=1;MEANALT=1.05556;MQM=59.9368;MQMR=59.6125;NS=21;NUMALT=1;ODDS=0.418328;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8943;QR=18170;RO=511;RPL=0;RPP=552.393;RPPR=1103.96;RPR=253;RUN=1;SAF=253;SAP=552.393;SAR=0;SRF=511;SRP=1112.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:15,10:15:523:10:360:-25.2186,0,-39.8704 0/1:28:21,7:21:748:7:248:-14.2354,0,-58.7245 0/1:37:20,17:20:712:17:608:-43.9139,0,-53.2685 0/1:67:36,30:36:1268:30:1045:-74.1303,0,-94.1928 0/1:42:25,17:25:896:17:596:-41.3183,0,-68.3171 0/1:19:11,8:11:396:8:288:-20.5478,0,-30.2632 0/1:68:44,24:44:1572:24:856:-56.8911,0,-121.257 0/1:59:35,24:35:1248:24:840:-58.1574,0,-94.8619 0/1:73:51,22:51:1803:22:768:-47.4604,0,-140.55 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:15:4,11:4:144:11:396:-31.4673,0,-8.79817 0/1:43:26,17:26:928:17:599:-41.2938,0,-70.8916 0/0:52:52,0:52:1856:0:0:0,-15.6536,-167.313 0/1:20:9,11:9:312:11:392:-29.5995,0,-22.3809 0/1:17:14,3:14:504:3:108:-4.95766,0,-40.5724 0/1:27:20,7:20:704:7:252:-14.9011,0,-55.5403 0/1:61:31,30:31:1092:30:1055:-76.8972,0,-80.2148 0/1:42:30,12:30:1068:12:424:-25.8532,0,-83.7841 0/0:36:36,0:36:1280:0:0:0,-10.8371,-115.367 0/0:26:26,0:26:936:0:0:0,-7.82678,-84.5349 chr12 280316 . C T 10112.3 PASS AB=0.61976;ABP=86.2284;AC=24;AF=0.571429;AN=42;AO=534;CIGAR=1X;DP=788;DPB=788;DPRA=0;EPP=1162.58;EPPR=545.913;GTI=1;LEN=1;MEANALT=1;MQM=59.6292;MQMR=59.937;NS=21;NUMALT=1;ODDS=1.60245;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19112;QR=9096;RO=254;RPL=534;RPP=1162.58;RPPR=545.913;RPR=0;RUN=1;SAF=534;SAP=1162.58;SAR=0;SRF=254;SRP=554.564;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:10,17:10:360:17:612:-47.2833,0,-24.6165 0/1:29:7,22:7:252:22:792:-62.384,0,-14.2991 0/1:37:17,20:17:612:20:720:-53.9907,0,-44.2753 0/1:66:30,36:30:1067:36:1292:-96.7134,0,-76.4732 0/1:45:16,29:16:576:29:1040:-80.368,0,-38.6224 0/1:18:8,10:8:280:10:360:-27.3258,0,-20.1208 0/1:69:25,44:25:900:44:1576:-121.316,0,-60.5499 0/1:65:25,40:25:892:40:1431:-109.515,0,-61.0327 0/1:75:22,53:22:792:53:1894:-148.148,0,-49.0178 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:15:11,4:11:396:4:144:-8.79817,0,-31.4673 0/1:44:16,28:16:576:28:993:-76.4348,0,-38.9297 1/1:56:0,56:0:0:56:1994:-179.726,-16.8577,0 0/1:20:11,9:11:381:9:324:-23.4714,0,-28.6 0/1:18:4,14:4:144:14:504:-40.2713,0,-7.89508 0/1:28:7,21:7:252:21:756:-59.922,0,-14.6001 0/1:61:30,31:30:1076:31:1116:-82.3797,0,-78.79 0/1:42:12,30:12:432:30:1067:-83.6953,0,-26.5779 1/1:36:0,36:0:0:36:1282:-115.55,-10.8371,0 1/1:28:0,28:0:0:28:999:-90.2,-8.42884,0 chr12 318791 . T A 10004.4 PASS AB=0.412658;ABP=107.703;AC=17;AF=0.404762;AN=42;AO=655;CIGAR=1X;DP=1823;DPB=1823;DPRA=2.45259;EPP=1425.32;EPPR=2537.12;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.3649;MQMR=59.9109;NS=21;NUMALT=1;ODDS=4.67972;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23343;QR=41758;RO=1167;RPL=655;RPP=1425.32;RPPR=2537.12;RPR=0;RUN=1;SAF=655;SAP=1425.32;SAR=0;SRF=1167;SRP=2537.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:51:34,17:34:1200:17:608:-39.6995,0,-92.9503 0/1:46:21,25:21:756:25:896:-67.1048,0,-54.5198 0/1:50:32,18:32:1152:18:648:-43.6004,0,-88.9386 0/1:105:74,31:74:2652:31:1116:-69.1272,0,-207.29 0/1:386:254,132:254:9099:132:4654:-301.896,0,-702.633 0/1:46:23,23:23:819:23:805:-58.9119,0,-60.1842 0/1:178:86,92:86:3084:92:3304:-243.794,0,-224.201 0/1:90:37,52:37:1328:52:1848:-139.27,0,-92.6708 0/1:102:62,40:62:2232:40:1436:-98.5148,0,-170.421 0/1:15:11,4:11:388:4:144:-8.79817,0,-30.7419 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:17:3,14:3:108:14:489:-39.2,0,-4.95766 0/1:112:80,32:80:2868:32:1152:-69.8461,0,-224.637 0/0:65:65,0:65:2309:0:0:0,-19.5669,-208.064 0/1:77:34,43:34:1224:43:1533:-114.851,0,-87.2877 0/1:83:58,25:58:2084:25:896:-55.9749,0,-162.845 0/1:51:15,36:15:540:36:1277:-99.8704,0,-33.584 0/1:83:46,37:46:1616:37:1328:-94.8261,0,-120.741 0/1:88:57,31:57:2040:31:1101:-72.7174,0,-157.381 0/0:127:124,3:124:4440:3:108:0,-28.1641,-389.653 0/0:46:46,0:46:1639:0:0:0,-13.8474,-147.795 chr12 318851 . CCC TGA,CGC 43532 PASS AB=0.512552,0.484833;ABP=5.62697,6.83082;AC=23,19;AF=0.547619,0.452381;AN=42;AO=1254,936;CIGAR=3X,1M1X1M;DP=2198;DPB=2198;DPRA=15.65,1.15905;EPP=2726.04,2026.83;EPPR=0;GTI=1;LEN=3,1;MEANALT=2.25,2.26316;MQM=50.8971,59.8707;MQMR=0;NS=21;NUMALT=2;ODDS=10.3857;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44036,33294;QR=0;RO=0;RPL=1254,935;RPP=2726.04,2026.83;RPPR=0;RPR=0,1;RUN=1,1;SAF=0,0;SAP=2726.04,2035.51;SAR=1254,936;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:148:0,83,65:0:0:83,65:2929,2315:-426.442,-189.04,-164.055,-237.756,0,-218.189 1/2:66:0,39,27:0:0:39,27:1370,963:-188.397,-78.855,-67.1149,-109.894,0,-101.767 1/2:132:0,67,64:0:0:67,64:2367,2284:-378.349,-186.27,-166.101,-192.152,0,-172.886 1/2:123:0,67,56:0:0:67,56:2369,1983:-354.143,-161.885,-141.716,-192.611,0,-175.753 1/2:137:0,71,66:0:0:71,66:2503,2360:-395.02,-192.789,-171.416,-202.585,0,-182.717 1/2:103:0,54,49:0:0:54,49:1903,1748:-296.313,-142.85,-126.594,-153.816,0,-139.065 1/2:196:0,105,91:0:0:105,91:3672,3251:-558.721,-265.329,-233.721,-293.743,0,-266.349 1/2:111:0,46,64:0:0:46,64:1631,2268:-317.004,-184.836,-170.988,-132.242,0,-112.976 1/2:166:0,97,68:0:0:97,68:3425,2393:-473.099,-194.795,-165.596,-278.296,0,-257.826 1/2:26:0,12,14:0:0:12,14:416,504:-74.5495,-41.4837,-37.8713,-33.4148,0,-29.2004 2/2:7:0,0,7:0:0:0,7:0,252:-23.029,-23.029,-23.029,-2.10721,-2.10721,0 1/2:36:0,22,14:0:0:22,14:780,500:-102.854,-41.1218,-34.4991,-62.0851,0,-57.8707 1/2:159:0,74,85:0:0:74,85:2583,3018:-455.767,-246.258,-223.981,-209.861,0,-184.273 1/1:123:0,122,0:0:0:122,0:4072,0:-364.579,-36.7257,0,-364.579,-36.7257,-364.579 1/2:190:0,89,101:0:0:89,101:3143,3595:-547.862,-293.35,-266.559,-254.865,0,-224.461 1/2:76:0,33,42:0:0:33,42:1159,1500:-216.308,-122.288,-112.354,-94.0141,0,-81.3708 1/2:73:0,26,47:0:0:26,47:926,1672:-211.909,-136.613,-128.786,-75.6512,0,-61.5028 1/2:92:0,47,45:0:0:47,45:1673,1593:-264.138,-130.09,-115.942,-134.4,0,-120.854 1/2:78:0,48,29:0:0:48,29:1705,1023:-221.746,-83.2907,-68.8413,-138.449,0,-129.719 1/1:96:0,92,2:0:0:92,2:3269,72:-290.682,-27.6948,0,-284.807,-21.8145,-284.205 1/1:60:0,60,0:0:0:60,0:2141,0:-191.105,-18.0618,0,-191.105,-18.0618,-191.105 chr12 334185 . A T 11141.7 PASS AB=0.450648;ABP=24.2292;AC=24;AF=0.571429;AN=42;AO=622;CIGAR=1X;DP=1173;DPB=1173;DPRA=0;EPP=1353.67;EPPR=1197.32;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.2219;MQMR=52.7655;NS=21;NUMALT=1;ODDS=10.5293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22232;QR=19707;RO=550;RPL=0;RPP=1353.67;RPPR=1197.32;RPR=622;RUN=1;SAF=622;SAP=1353.67;SAR=0;SRF=550;SRP=1197.32;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:23,13:23:820:13:468:-31.6222,0,-63.1305 0/1:53:34,19:34:1209:19:684:-45.8795,0,-92.7233 0/1:45:17,28:17:608:28:993:-76.0872,0,-41.3899 0/1:95:48,47:48:1728:47:1692:-123.467,0,-126.335 0/1:79:45,34:45:1616:34:1224:-86.6788,0,-121.649 0/1:35:22,13:22:788:13:468:-31.9236,0,-60.6322 0/1:70:48,22:48:1720:22:788:-50.1368,0,-133.671 0/1:90:41,49:41:1476:49:1760:-131.591,0,-105.476 0/1:79:42,36:42:1504:36:1292:-92.7199,0,-111.099 0/1:5:2,3:2:72:3:92:-7.07703,0,-5.32188 0/1:15:5,10:5:180:10:360:-28.2289,0,-12.0196 0/1:21:6,15:6:216:15:540:-42.6149,0,-13.4408 0/1:71:32,39:32:1152:39:1396:-104.555,0,-82.2317 1/1:49:0,49:0:0:49:1745:-157.322,-14.7505,0 0/1:85:58,27:58:2069:27:968:-61.819,0,-159.153 0/1:49:34,15:34:1205:15:536:-33.7662,0,-93.6553 0/1:39:25,14:25:900:14:481:-31.8439,0,-69.0794 0/1:92:53,39:53:1904:39:1387:-97.3236,0,-143.324 0/1:44:15,29:15:540:29:1018:-78.4558,0,-35.5956 1/1:93:0,93:0:0:93:3332:-300.035,-27.9958,0 1/1:28:0,28:0:0:28:1008:-91.0011,-8.42884,0 chr12 334189 . GAAAAACG GAAAAAACG 8854.02 PASS AB=0.532598;ABP=12.2124;AC=18;AF=0.428571;AN=42;AO=531;CIGAR=1M1I7M;DP=1169;DPB=1236;DPRA=0.966085;EPP=1156.06;EPPR=1373.21;GTI=0;LEN=1;MEANALT=1.22222;MQM=52.8682;MQMR=59.2583;NS=21;NUMALT=1;ODDS=9.12916;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18807;QR=22302;RO=631;RPL=0;RPP=1156.06;RPPR=1373.21;RPR=531;RUN=1;SAF=531;SAP=1156.06;SAR=0;SRF=631;SRP=1373.21;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:37:14,23:14:490:23:824:-63.1865,0,-33.2878 0/1:54:20,33:20:716:33:1165:-88.5682,0,-48.4176 0/1:43:28,15:28:992:15:536:-35.5303,0,-76.6015 0/1:97:49,46:49:1742:46:1629:-117.115,0,-127.595 0/1:76:34,42:34:1205:42:1492:-111.436,0,-85.872 0/1:35:13,22:13:467:22:780:-59.9144,0,-31.8331 0/1:68:22,46:22:777:46:1640:-127.033,0,-49.754 0/1:91:49,42:49:1726:42:1477:-105.277,0,-128.231 0/1:78:37,41:37:1315:41:1423:-103.986,0,-95.1192 0/1:5:3,2:3:95:2:72:-5.32188,0,-7.3529 0/1:15:10,5:10:356:5:180:-12.0196,0,-27.8658 0/1:21:15,6:15:529:6:216:-13.4408,0,-41.6201 0/1:70:40,30:40:1393:30:1060:-74.2898,0,-104.578 0/0:49:49,0:49:1727:0:0:0,-14.7505,-155.707 0/1:82:29,53:29:1029:53:1877:-143.749,0,-68.2087 0/1:48:15,33:15:538:33:1172:-90.9991,0,-34.2482 0/1:40:14,25:14:498:25:888:-67.8512,0,-33.0436 0/1:94:42,52:42:1471:52:1856:-138.417,0,-104.278 0/1:43:27,15:27:954:15:520:-34.1791,0,-73.2133 0/0:95:94,0:94:3336:0:0:0,-28.2968,-300.057 0/0:28:27,0:27:946:0:0:0,-8.12781,-85.0789 chr12 334210 . CAACT CAAACT,CAAGCT 48541.5 PASS AB=0.414894,0.582307;ABP=115.372,108.102;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1055,1040;CIGAR=1M1I4M,3M1I2M;DP=2100;DPB=2519.6;DPRA=0,0.947983;EPP=2293.91,2261.34;EPPR=0;GTI=0;LEN=1,1;MEANALT=2.09524,2.27778;MQM=44.7204,56.1587;MQMR=0;NS=21;NUMALT=2;ODDS=8.38818;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32691,36168;QR=0;RO=0;RPL=608,524;RPP=56.3627,3.14393;RPPR=0;RPR=447,516;RUN=1,1;SAF=608,524;SAP=56.3627,3.14393;SAR=447,516;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,28,49:0:0:28,49:846,1711:-203.238,-139.382,-130.953,-64.1652,0,-49.4147 1/2:75:0,20,55:0:0:20,55:708,1955:-216.955,-159.307,-153.286,-58.0016,0,-41.4449 1/2:80:0,42,38:0:0:42,38:1325,1297:-207.375,-105.471,-92.8282,-102.227,0,-90.7878 1/2:132:0,65,67:0:0:65,67:2103,2361:-355.892,-191.716,-172.149,-164.509,0,-144.34 1/2:177:0,77,99:0:0:77,99:2276,3428:-448.1,-278.416,-255.237,-169.761,0,-139.959 1/2:55:0,13,41:0:0:13,41:468,1422:-153.767,-115.576,-111.663,-38.307,0,-25.9648 1/2:107:0,22,85:0:0:22,85:784,2942:-303.033,-239.162,-232.539,-64.2254,0,-38.6378 1/2:149:0,72,77:0:0:72,77:2293,2650:-393.07,-215.216,-193.542,-178.179,0,-154.999 1/2:154:0,71,82:0:0:71,82:2140,2863:-393.536,-231.943,-210.57,-161.549,0,-136.865 1/2:6:0,2,4:0:0:2,4:61,135:-15.8693,-11.269,-10.6669,-4.90598,0,-3.70186 1/2:14:0,9,5:0:0:9,5:324,180:-41.4669,-15.0299,-12.3206,-26.7966,0,-25.2914 1/2:23:0,17,6:0:0:17,6:590,216:-65.3631,-17.9563,-12.8388,-47.762,0,-45.9558 1/2:148:0,69,79:0:0:69,79:2092,2718:-379.227,-220.723,-199.952,-158.818,0,-135.037 1/1:80:0,80,0:0:0:80,0:2490,0:-215.403,-24.0824,0,-215.403,-24.0824,-215.403 1/2:186:0,61,125:0:0:61,125:1821,4265:-481.904,-345.388,-327.025,-136.818,0,-99.189 1/2:92:0,26,65:0:0:26,65:791,2311:-248.123,-187.959,-180.132,-60.115,0,-40.548 1/2:78:0,35,43:0:0:35,43:981,1519:-195.611,-123.75,-113.214,-72.1628,0,-59.2185 1/2:148:0,64,83:0:0:64,83:2022,2909:-392.831,-236.251,-216.985,-156.56,0,-131.574 1/2:85:0,48,37:0:0:48,37:1477,1286:-217.339,-104.801,-90.3514,-112.863,0,-101.725 1/1:207:0,207,0:0:0:207,0:6157,0:-523.948,-62.3132,0,-523.948,-62.3132,-523.948 1/1:27:0,27,0:0:0:27,0:942,0:-85.0571,-8.12781,0,-85.0571,-8.12781,-85.0571 chr12 343403 . A G 4006.02 PASS AB=0.336758;ABP=205.77;AC=17;AF=0.404762;AN=42;AO=298;CIGAR=1X;DP=1104;DPB=1104;DPRA=0.685285;EPP=632.854;EPPR=1744.54;GTI=4;LEN=1;MEANALT=1;MQM=52.8054;MQMR=59.6005;NS=21;NUMALT=1;ODDS=2.61417;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10642;QR=28818;RO=806;RPL=296;RPP=632.854;RPPR=1744.54;RPR=2;RUN=1;SAF=298;SAP=650.109;SAR=0;SRF=806;SRP=1753.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:28,10:28:993:10:356:-20.2894,0,-78.2434 0/1:23:19,4:19:676:4:140:-5.86777,0,-54.2439 0/1:57:35,22:35:1252:22:788:-53.7196,0,-95.824 0/1:82:62,20:62:2209:20:712:-39.6627,0,-174.382 0/1:95:71,24:71:2531:24:860:-48.8146,0,-199.229 0/1:41:36,5:36:1292:5:180:-3.98094,0,-104.241 0/1:73:59,14:59:2116:14:500:-22.7555,0,-168.639 0/1:17:8,9:8:288:9:320:-23.6622,0,-21.1045 0/1:114:55,59:55:1963:59:2116:-156.117,0,-142.627 0/1:8:7,1:7:252:1:36:-1.14028,0,-20.6207 0/1:7:6,1:6:216:1:36:-1.44131,0,-17.6833 0/1:22:13,9:13:468:9:320:-22.0577,0,-35.837 0/1:82:34,48:34:1220:48:1712:-128.437,0,-84.7874 0/0:91:91,0:91:3249:0:0:0,-27.3937,-292.446 0/1:79:54,25:54:1936:25:900:-57.3969,0,-150.733 0/0:15:14,1:14:504:1:36:0,-0.918181,-42.1008 0/1:34:28,6:28:986:6:216:-9.38181,0,-78.8153 0/1:48:28,20:28:1004:20:707:-48.677,0,-76.1638 0/1:56:38,18:38:1368:18:635:-40.5048,0,-106.556 0/0:66:64,2:64:2296:2:72:0,-14.0644,-201.075 0/0:56:56,0:56:1999:0:0:0,-16.8577,-180.078 chr12 343408 . AT GT,CT 22007.9 PASS AB=0.659698,0.334495;ABP=193.739,207.863;AC=25,17;AF=0.595238,0.404762;AN=42;AO=787,291;CIGAR=1X1M,1X1M;DP=1084;DPB=1084;DPRA=0,0.692676;EPP=1711.96,617.656;EPPR=3.0103;GTI=4;LEN=1,1;MEANALT=2,2.05263;MQM=59.6112,53.0859;MQMR=60;NS=21;NUMALT=2;ODDS=0.0959768;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28090,10337;QR=72;RO=2;RPL=787,289;RPP=1711.96,617.656;RPPR=3.0103;RPR=0,2;RUN=1,1;SAF=787,291;SAP=1711.96,634.909;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:38:0,28,10:0:0:28,10:1008,350:-110.79,-28.5329,-20.1041,-82.6075,0,-79.5972 1/2:22:0,18,4:0:0:18,4:635,144:-63.6385,-11.9347,-6.51619,-52.0584,0,-50.8543 1/2:56:0,35,21:0:0:35,21:1256,752:-163.815,-61.3631,-50.8271,-102.809,0,-96.4876 1/2:84:0,64,20:0:0:64,20:2304,716:-246.676,-58.6862,-39.4203,-188.348,0,-182.327 1/2:94:0,70,24:0:0:70,24:2497,860:-273.631,-70.1877,-49.1156,-203.8,0,-196.576 1/2:41:0,36,5:0:0:36,5:1288,180:-119.848,-14.818,-3.98094,-105.386,0,-103.88 1/2:73:0,59,14:0:0:59,14:2106,504:-212.453,-40.8517,-23.091,-171.957,0,-167.742 1/2:16:0,8,8:0:0:8,8:283,279:-45.7557,-22.7154,-20.3072,-23.389,0,-20.9808 1/2:107:0,50,57:0:0:50,57:1788,2004:-309.06,-163.264,-148.212,-146.151,0,-128.992 1/2:7:0,6,1:0:0:6,1:216,36:-20.8763,-3.24749,-1.44131,-17.9843,0,-17.6833 1/2:7:0,6,1:0:0:6,1:207,36:-20.0548,-3.24749,-1.44131,-17.1607,0,-16.8597 1/2:22:0,14,8:0:0:14,8:504,280:-63.874,-22.7404,-18.526,-41.4837,0,-39.0754 1/2:81:0,33,48:0:0:33,48:1181,1724:-236.334,-140.302,-130.368,-96.389,0,-81.9396 1/1:87:0,87,0:0:0:87,0:3107,0:-279.744,-26.1896,0,-279.744,-26.1896,-279.744 1/2:79:0,53,26:0:0:53,26:1908,919:-230.745,-75.0592,-59.1046,-156.041,0,-148.214 1/1:15:0,14,1:0:0:14,1:491,36:-44.162,-4.21442,0,-41.2249,-0.918181,-40.9238 1/2:31:0,25,3:0:0:25,3:896,108:-81.8884,-8.81259,-1.28684,-73.0787,0,-72.1756 1/2:46:1,25,20:1:36:25,20:886,701:-125.172,-53.3088,-48.7211,-69.2165,0,-66.1335 1/2:57:1,38,18:1:36:38,18:1359,644:-159.941,-49.4332,-40.9316,-107.869,0,-105.388 1/1:65:0,63,2:0:0:63,2:2249,64:-202.357,-18.9649,0,-197.743,-14.0586,-197.141 1/1:56:0,55,0:0:0:55,0:1921,0:-172.779,-16.5567,0,-172.779,-16.5567,-172.779 chr12 360682 . G T 59531.8 PASS AB=0.504943;ABP=3.84751;AC=24;AF=0.571429;AN=42;AO=2600;CIGAR=1X;DP=4557;DPB=4557;DPRA=0;EPP=5648.84;EPPR=4243.9;GTI=0;LEN=1;MEANALT=1.14286;MQM=47.0115;MQMR=59.9278;NS=21;NUMALT=1;ODDS=23.7242;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=92241;QR=69538;RO=1953;RPL=1088;RPP=153.156;RPPR=5.26183;RPR=1512;RUN=1;SAF=1088;SAP=153.156;SAR=1512;SRF=954;SRP=5.26183;SRR=999;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:250:142,108:142:5028:108:3824:-257.843,0,-376.783 0/1:241:116,125:116:4124:125:4431:-306.756,0,-298.782 0/1:214:89,125:89:3189:125:4409:-316.165,0,-222.811 0/1:258:139,118:139:4953:118:4194:-292.552,0,-368.195 0/1:461:215,246:215:7649:246:8758:-626.546,0,-549.582 0/1:221:130,91:130:4647:91:3240:-208.648,0,-351.865 0/1:324:163,161:163:5780:161:5718:-387.756,0,-422.463 0/1:114:48,66:48:1716:66:2338:-166.908,0,-120.408 0/1:304:154,150:154:5487:150:5300:-360.907,0,-402.446 0/1:27:12,15:12:432:15:540:-38.4363,0,-31.0934 0/1:28:6,22:6:216:22:776:-58.4851,0,-11.3617 0/1:49:30,19:30:1063:19:676:-45.7571,0,-81.2304 0/1:300:156,144:156:5547:144:5056:-355.69,0,-409.047 1/1:210:1,207:1:27:207:7358:-642.659,-60.2112,0 0/1:341:160,181:160:5728:181:6414:-453.445,0,-412.983 0/1:167:87,80:87:3093:80:2852:-196.47,0,-228.325 0/1:177:89,87:89:3148:87:3103:-207.784,0,-230.353 0/1:257:141,116:141:5040:116:4123:-277.483,0,-376.25 0/1:212:74,138:74:2635:138:4912:-373.294,0,-173.579 1/1:285:1,284:1:36:284:10072:-865.996,-82.1953,0 1/1:117:0,117:0:0:117:4147:-356.275,-35.2205,0 chr12 360688 . GAT AAC,AAT 48192.6 PASS AB=0.546861,0.450409;ABP=44.9341,49.9607;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1563,992;CIGAR=1X1M1X,1X2M;DP=2563;DPB=2563;DPRA=0,1.06266;EPP=3397.02,2139.77;EPPR=7.35324;GTI=1;LEN=3,1;MEANALT=2.19048,2.21053;MQM=37.7665,59.9042;MQMR=60;NS=21;NUMALT=2;ODDS=7.14603;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54697,35468;QR=64;RO=2;RPL=0,2;RPP=3397.02,2139.77;RPPR=7.35324;RPR=1563,990;RUN=1,1;SAF=0,0;SAP=3397.02,2157.11;SAR=1563,992;SRF=0;SRP=7.35324;SRR=2;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:171:0,84,85:0:0:84,85:2916,3056:-475.843,-249.408,-224.122,-226.51,0,-200.923 1/2:114:0,74,40:0:0:74,40:2585,1440:-308.026,-117.852,-95.5757,-190.519,0,-178.478 1/2:173:1,108,64:1:28:108,64:3788,2283:-475.342,-183.966,-153.673,-289.526,0,-272.478 1/2:102:0,51,50:0:0:51,50:1759,1792:-283.288,-146.257,-130.904,-137.124,0,-122.073 1/2:236:0,141,94:0:0:141,94:4959,3371:-656.255,-275.01,-232.565,-381.324,0,-353.027 1/2:133:0,62,71:0:0:62,71:2166,2536:-367.505,-207.118,-188.454,-160.724,0,-139.351 1/2:215:0,114,101:0:0:114,101:4027,3617:-593.345,-295.204,-260.886,-298.483,0,-268.079 1/2:80:0,47,33:0:0:47,33:1621,1184:-220.006,-96.9343,-82.7859,-123.416,0,-113.482 1/2:174:0,83,91:0:0:83,91:2905,3252:-477.547,-265.508,-240.522,-212.376,0,-184.982 1/2:24:0,12,12:0:0:12,12:427,428:-67.8523,-35.2464,-31.6341,-32.9518,0,-29.3395 1/2:17:0,14,3:0:0:14,3:493,99:-45.1681,-8.33349,-4.11907,-37.1637,0,-36.2607 1/2:7:0,4,3:0:0:4,3:141,108:-19.9621,-9.17208,-7.96796,-11.1386,0,-10.2355 1/2:128:0,74,54:0:0:74,54:2631,1940:-363.107,-158.621,-136.344,-204.838,0,-188.582 1/1:134:0,132,2:0:0:132,2:4642,69:-401.195,-39.736,0,-395.59,-33.7855,-394.987 1/2:243:0,135,108:0:0:135,108:4749,3876:-682.262,-316.523,-275.884,-366.088,0,-333.576 1/2:65:0,36,29:0:0:36,29:1274,1027:-177.78,-84.0123,-73.1752,-94.1081,0,-85.3783 1/2:88:0,54,34:0:0:54,34:1845,1202:-231.338,-98.2492,-81.9936,-133.424,0,-123.189 1/2:175:1,73,101:1:36:73,101:2517,3576:-476.782,-288.217,-269.18,-185.903,0,-158.437 1/2:53:0,36,17:0:0:36,17:1279,612:-149.121,-50.2959,-39.4588,-99.1781,0,-94.0606 1/1:180:0,179,0:0:0:179,0:6220,0:-525.2,-53.8844,0,-525.2,-53.8844,-525.2 1/1:51:0,50,0:0:0:50,0:1753,0:-142.141,-15.0515,0,-142.141,-15.0515,-142.141 chr12 360696 . T A 25616.9 PASS AB=0.539305;ABP=32.3708;AC=24;AF=0.571429;AN=42;AO=1529;CIGAR=1X;DP=2539;DPB=2539;DPRA=0;EPP=3254.07;EPPR=2067.84;GTI=1;LEN=1;MEANALT=1;MQM=37.7377;MQMR=59.899;NS=21;NUMALT=1;ODDS=2.10628;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54628;QR=36128;RO=1010;RPL=1521;RPP=3254.07;RPPR=2067.84;RPR=8;RUN=1;SAF=0;SAP=3323.19;SAR=1529;SRF=0;SRP=2196.2;SRR=1010;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:163:84,79:84:3005:79:2830:-194.829,0,-221.609 0/1:113:40,73:40:1432:73:2616:-179.617,0,-95.1566 0/1:172:67,105:67:2408:105:3772:-270.133,0,-165.199 0/1:100:49,51:49:1756:51:1815:-126.294,0,-128.221 0/1:236:97,139:97:3461:139:4949:-351.559,0,-240.544 0/1:136:74,62:74:2641:62:2216:-141.942,0,-196.995 0/1:220:106,114:106:3784:114:4100:-270.781,0,-274.368 0/1:78:32,46:32:1152:46:1648:-115.612,0,-80.5098 0/1:173:92,81:92:3285:81:2874:-181.995,0,-243.79 0/1:24:12,12:12:424:12:428:-29.3609,0,-31.2717 0/1:16:3,13:3:108:13:468:-34.112,0,-5.25869 0/1:8:4,4:4:140:4:140:-9.86238,0,-10.5363 0/1:127:54,73:54:1920:73:2599:-186.023,0,-134.846 1/1:124:2,122:2:68:122:4330:-367.838,-30.87,0 0/1:240:109,131:109:3912:131:4691:-328.968,0,-280.023 0/1:66:30,36:30:1080:36:1292:-86.2691,0,-77.6453 0/1:86:33,53:33:1188:53:1896:-126.079,0,-81.34 0/1:178:105,73:105:3756:73:2611:-163.757,0,-284.6 0/1:52:17,35:17:608:35:1256:-92.2018,0,-39.3985 1/1:177:0,177:0:0:177:6320:-530.72,-53.2823,0 1/1:50:0,50:0:0:50:1777:-142.656,-15.0515,0 chr12 384805 . 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TACTTGA CACTGA,TACTGA 29164 PASS AB=0.596165,0.399323;ABP=145.425,159.103;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1500,710;CIGAR=1X2M1D3M,3M1D3M;DP=2222;DPB=1904.43;DPRA=0,0.903661;EPP=3260.22,1544.76;EPPR=0;GTI=1;LEN=6,1;MEANALT=2.38095,2.5;MQM=27.058,47.5014;MQMR=0;NS=21;NUMALT=2;ODDS=4.18781;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40518,25143;QR=0;RO=0;RPL=0,0;RPP=3260.22,1544.76;RPPR=0;RPR=1500,710;RUN=1,1;SAF=1500,710;SAP=3260.22,1544.76;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:103:0,48,55:0:0:48,55:1293,1929:-244.939,-156.012,-141.563,-89.2169,0,-72.6602 1/2:65:0,47,18:0:0:47,18:1296,632:-140.393,-50.6893,-36.5408,-90.0207,0,-84.6022 1/2:162:0,90,72:0:0:90,72:2426,2549:-373.145,-206.308,-179.215,-167.139,0,-145.465 1/2:66:0,38,28:0:0:38,28:1018,992:-150.453,-80.575,-69.1359,-70.1817,0,-61.7529 1/2:205:0,117,86:0:0:117,86:3145,3049:-462.679,-246.519,-211.299,-216.241,0,-190.353 1/2:148:0,91,56:0:0:91,56:2525,1970:-332.348,-156.932,-129.538,-175.472,0,-158.615 1/2:132:0,84,48:0:0:84,48:2342,1708:-299.828,-137.087,-111.8,-163.054,0,-148.604 1/2:128:0,83,45:0:0:83,45:2229,1590:-280.748,-127.367,-102.382,-153.69,0,-140.143 1/1:278:0,277,0:0:0:277,0:7425,0:-594.028,-83.3853,0,-594.028,-83.3853,-594.028 1/1:19:0,18,0:0:0:18,0:465,0:-37.0508,-5.41854,0,-37.0508,-5.41854,-37.0508 1/2:6:0,2,3:0:0:2,3:56,108:-12.5934,-8.72633,-8.12427,-3.86981,0,-2.96672 1/2:24:0,12,12:0:0:12,12:322,418:-55.8666,-33.7976,-30.1853,-22.3597,0,-18.7473 1/2:129:0,69,60:0:0:69,60:1852,2130:-299.33,-172.147,-151.376,-127.482,0,-109.42 1/2:115:0,73,40:0:0:73,40:1971,1412:-249.847,-114.084,-92.1089,-135.83,0,-123.789 1/2:152:0,99,53:0:0:99,53:2666,1888:-336.389,-153.107,-123.305,-183.595,0,-167.641 1/2:75:0,50,25:0:0:50,25:1340,883:-164.204,-72.0742,-57.0227,-92.4443,0,-84.9186 1/2:103:0,61,40:0:0:61,40:1632,1423:-227.361,-115.329,-96.9663,-112.121,0,-100.08 1/2:93:0,51,42:0:0:51,42:1364,1502:-214.856,-121.124,-105.772,-94.0325,0,-81.3892 1/2:67:0,42,25:0:0:42,25:1134,888:-150.283,-72.2994,-59.6562,-78.2941,0,-70.7684 1/1:103:0,99,2:0:0:99,2:2660,72:-212.749,-29.802,0,-206.928,-23.9004,-206.326 1/1:49:0,49,0:0:0:49,0:1357,0:-109.198,-14.7505,0,-109.198,-14.7505,-109.198 chr12 1032383 . G T 15550.7 PASS AB=0.58165;ABP=103.363;AC=25;AF=0.595238;AN=42;AO=1440;CIGAR=1X;DP=2168;DPB=2168;DPRA=0;EPP=3129.93;EPPR=1575.17;GTI=0;LEN=1;MEANALT=1;MQM=27.0778;MQMR=47.4959;NS=21;NUMALT=1;ODDS=2.32119;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50951;QR=25821;RO=728;RPL=1440;RPP=3129.93;RPPR=1583.84;RPR=0;RUN=1;SAF=1440;SAP=3129.93;SAR=0;SRF=727;SRP=1575.17;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:58,45:58:2055:45:1585:-75.7304,0,-152.516 0/1:62:18,44:18:648:44:1548:-87.6942,0,-38.7296 0/1:158:70,88:70:2495:88:3102:-160.75,0,-175.506 0/1:66:30,36:30:1059:36:1257:-65.045,0,-74.9926 0/1:203:94,109:94:3315:109:3856:-196.36,0,-234.188 0/1:143:54,89:54:1932:89:3154:-174.05,0,-127.048 0/1:126:47,79:47:1672:79:2776:-154.683,0,-110.312 0/1:130:48,82:48:1707:82:2903:-155.433,0,-111.694 1/1:271:0,271:0:0:271:9616:-639.459,-81.5791,0 1/1:17:1,16:1:36:16:555:-33.1977,-1.58139,0 0/1:6:4,2:4:140:2:72:-3.3926,0,-10.384 0/1:24:12,12:12:423:12:423:-21.2536,0,-30.5012 0/1:127:62,65:62:2204:65:2300:-116.033,0,-158.679 0/1:112:42,70:42:1484:70:2504:-133.446,0,-98.9639 0/1:149:55,94:55:1925:94:3360:-178.449,0,-127.702 0/1:73:24,49:24:847:49:1748:-94.5077,0,-54.3942 0/1:96:39,57:39:1385:57:2031:-105.658,0,-95.3784 0/1:86:40,46:40:1432:46:1596:-82.5079,0,-101.616 0/1:69:28,41:28:990:41:1448:-76.3588,0,-68.1571 1/1:100:2,98:2:72:98:3457:-224.339,-23.3261,0 1/1:47:0,47:0:0:47:1660:-115.112,-14.1484,0 chr12 1032390 . G T 12233.9 PASS AB=0.470075;ABP=15.4868;AC=17;AF=0.404762;AN=42;AO=757;CIGAR=1X;DP=1981;DPB=1981;DPRA=2.06419;EPP=1646.81;EPPR=2660.89;GTI=0;LEN=1;MEANALT=1;MQM=59.9775;MQMR=59.9755;NS=21;NUMALT=1;ODDS=3.86143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26865;QR=43364;RO=1224;RPL=0;RPP=1646.81;RPPR=2660.89;RPR=757;RUN=1;SAF=0;SAP=1646.81;SAR=757;SRF=0;SRP=2660.89;SRR=1224;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:43,55:43:1521:55:1960:-147.175,0,-107.634 0/1:63:29,34:29:1031:34:1203:-89.6101,0,-74.1377 0/1:75:52,23:52:1860:23:820:-51.5453,0,-145.102 0/1:145:81,64:81:2872:64:2261:-160.102,0,-215.067 0/1:214:110,104:110:3882:104:3654:-264.644,0,-285.156 0/1:92:48,44:48:1703:44:1571:-113.986,0,-125.86 0/1:155:74,81:74:2622:81:2866:-211.518,0,-189.568 0/1:90:44,46:44:1559:46:1648:-121.516,0,-113.508 0/0:229:226,3:226:8035:3:104:0,-59.2331,-713.469 0/0:14:14,0:14:500:0:0:0,-4.21442,-45.3362 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:21:16,5:16:554:5:180:-10.2304,0,-43.8633 0/1:102:52,50:52:1828:50:1796:-131.217,0,-134.093 0/1:108:63,45:63:2235:45:1599:-111.688,0,-168.903 0/1:111:50,61:50:1741:61:2165:-161.701,0,-123.555 0/1:101:43,58:43:1539:58:2039:-153.377,0,-108.398 0/1:90:60,30:60:2115:30:1068:-69.3394,0,-163.524 0/1:69:34,35:34:1206:35:1247:-91.6932,0,-88.0734 0/1:64:47,17:47:1688:17:612:-36.1475,0,-132.941 0/0:90:90,0:90:3196:0:0:0,-27.0927,-287.863 0/0:44:44,0:44:1533:0:0:0,-13.2453,-138.257 chr12 1032414 . A T 12516 PASS AB=0.471172;ABP=14.6539;AC=17;AF=0.404762;AN=42;AO=761;CIGAR=1X;DP=1989;DPB=1989;DPRA=2.11954;EPP=1655.5;EPPR=2658.73;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.958;MQMR=59.9756;NS=21;NUMALT=1;ODDS=4.10073;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27200;QR=43769;RO=1227;RPL=0;RPP=1655.5;RPPR=2658.73;RPR=761;RUN=1;SAF=0;SAP=1655.5;SAR=761;SRF=0;SRP=2667.41;SRR=1227;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:98:44,54:44:1559:54:1930:-144.475,0,-110.472 0/1:64:27,37:27:968:37:1332:-100.916,0,-68.1714 0/1:77:51,26:51:1832:26:913:-59.3056,0,-141.981 0/1:147:85,62:85:3010:62:2220:-155.813,0,-226.878 0/1:213:109,104:109:3908:104:3740:-272.68,0,-287.793 0/1:97:51,46:51:1807:46:1642:-118.868,0,-133.711 0/1:156:74,82:74:2630:82:2911:-215.256,0,-189.986 0/1:91:45,46:45:1605:46:1639:-120.404,0,-117.344 0/0:231:230,1:230:8214:1:36:0,-65.9397,-735.676 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6981 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:21:16,5:16:576:5:175:-9.77152,0,-45.8534 0/1:102:51,50:51:1815:50:1792:-130.799,0,-132.867 0/1:106:61,45:61:2171:45:1609:-113.191,0,-163.747 0/1:111:50,61:50:1792:61:2188:-163.771,0,-128.148 0/1:100:43,57:43:1544:57:2052:-154.848,0,-109.15 0/1:91:61,30:61:2161:30:1080:-70.1195,0,-167.362 0/1:69:33,36:33:1173:36:1266:-93.4619,0,-85.1045 0/1:64:47,17:47:1680:17:603:-35.3342,0,-132.221 0/0:89:89,0:89:3204:0:0:0,-26.7917,-288.582 0/0:42:42,0:42:1472:0:0:0,-12.6433,-132.772 chr12 1137133 . A G 3366.44 PASS AB=0.431907;ABP=23.7111;AC=17;AF=0.404762;AN=42;AO=222;CIGAR=1X;DP=603;DPB=603;DPRA=1.35889;EPP=485.077;EPPR=787.482;GTI=0;LEN=1;MEANALT=1;MQM=59.9865;MQMR=59.9475;NS=21;NUMALT=1;ODDS=8.77476;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7909;QR=13537;RO=381;RPL=0;RPP=485.077;RPPR=787.482;RPR=222;RUN=1;SAF=222;SAP=485.077;SAR=0;SRF=381;SRP=830.341;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:60:36,24:36:1284:24:845:-58.3053,0,-97.8012 0/1:53:32,21:32:1152:21:752:-52.0517,0,-88.0356 0/1:22:16,6:16:572:6:216:-13.1679,0,-45.1908 0/1:22:7,15:7:252:15:540:-42.3139,0,-16.4063 0/1:54:36,18:36:1284:18:644:-42.035,0,-99.6078 0/1:13:6,7:6:216:7:252:-19.1156,0,-15.8771 0/1:37:20,17:20:685:17:608:-43.9139,0,-50.8294 0/1:34:20,14:20:720:14:500:-35.1012,0,-54.8938 0/0:48:48,0:48:1708:0:0:0,-14.4494,-154.006 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:11:4,7:4:140:7:248:-19.3529,0,-9.63325 0/1:38:19,19:19:676:19:680:-50.09,0,-49.7289 0/1:27:14,13:14:489:13:453:-32.9718,0,-36.2092 0/1:29:18,11:18:629:11:392:-26.8902,0,-48.2039 0/1:21:12,9:12:413:9:324:-23.1842,0,-31.1762 0/1:21:9,12:9:309:12:428:-32.5372,0,-21.8191 0/1:43:25,18:25:896:18:631:-44.1712,0,-68.0161 0/1:21:13,8:13:468:8:288:-19.9458,0,-36.138 0/0:28:28,0:28:1000:0:0:0,-8.42884,-90.3138 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 chr12 1137160 . C A 5355.87 PASS AB=0.530786;ABP=6.8876;AC=25;AF=0.595238;AN=42;AO=325;CIGAR=1X;DP=546;DPB=546;DPRA=0;EPP=708.739;EPPR=482.906;GTI=0;LEN=1;MEANALT=1;MQM=59.9969;MQMR=59.9864;NS=21;NUMALT=1;ODDS=6.72458;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10991;QR=7826;RO=221;RPL=325;RPP=708.739;RPPR=482.906;RPR=0;RUN=1;SAF=325;SAP=708.739;SAR=0;SRF=221;SRP=482.906;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:23,27:23:813:27:925:-68.507,0,-58.4376 0/1:45:21,24:21:739:24:815:-60.1113,0,-53.286 0/1:19:6,13:6:216:13:441:-34.2936,0,-14.0709 0/1:22:15,7:15:531:7:233:-14.6716,0,-41.4992 0/1:53:18,35:18:648:35:1173:-89.9073,0,-42.6973 0/1:13:7,6:7:252:6:156:-10.3832,0,-19.1156 0/1:36:18,18:18:635:18:615:-44.8304,0,-46.6399 0/1:31:14,17:14:504:17:570:-42.2826,0,-36.3662 1/1:40:0,40:0:0:40:1360:-122.688,-12.0412,0 1/1:4:0,4:0:0:4:133:-12.2976,-1.20412,0 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/1:11:7,4:7:244:4:125:-8.24729,0,-18.9881 0/1:32:19,13:19:671:13:445:-30.7433,0,-51.0828 0/1:24:12,12:12:428:12:432:-31.9965,0,-31.6341 0/1:28:11,17:11:396:17:570:-43.1857,0,-27.5539 0/1:20:9,11:9:324:11:388:-29.2368,0,-23.4853 0/1:21:12,9:12:402:9:305:-21.4556,0,-30.1776 0/1:41:18,23:18:635:23:800:-59.9763,0,-45.1332 0/1:19:8,11:8:280:11:358:-26.8136,0,-19.8197 1/1:24:0,24:0:0:24:810:-73.2068,-7.22472,0 1/1:7:0,7:0:0:7:233:-21.2943,-2.10721,0 chr12 1140136 . CGTTT AGTTT,AGTTC 46884.4 PASS AB=0.630852,0.361345;ABP=250.782,281.214;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1345,609;CIGAR=1X4M,1X3M1X;DP=1968;DPB=1969;DPRA=16.35,1.40271;EPP=884.71,855.629;EPPR=7.35324;GTI=1;LEN=1,5;MEANALT=2.45,2.55556;MQM=59.9851,59.8227;MQMR=60;NS=21;NUMALT=2;ODDS=2.22742;PAIRED=0,0;PAIREDR=0;PAO=0,5;PQA=0,168;PQR=0;PRO=0;QA=47714,21304;QR=67;RO=2;RPL=1042,549;RPP=884.71,855.629;RPPR=7.35324;RPR=303,60;RUN=1,1;SAF=1345,609;SAP=2923.64,1325.44;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:139:0,100,39:0:0:100,39:3575,1386:-404.798,-113.299,-83.196,-291.855,0,-280.115 1/2:100:0,81,19:0:0:81,19:2860,669:-287.72,-54.8156,-30.4322,-233.257,0,-227.537 1/2:62:0,23,38:0:0:23,38:816,1331:-174.873,-108.388,-101.464,-66.5742,0,-55.1351 1/2:156:0,85,69:0:0:85,69:2990,2439:-442.077,-198.689,-173.101,-243.434,0,-222.663 1/2:173:0,104,68:0:0:104,68:3674,2403:-494.73,-195.527,-164.22,-299.343,0,-278.873 1/2:75:0,47,27:0:0:47,27:1676,920:-211.4,-74.765,-60.6166,-136.766,0,-128.638 1/2:143:2,73,66:2:67:73,66:2576,2314:-392.073,-182.909,-166.36,-204.374,0,-189.931 1/2:108:0,73,34:0:0:73,34:2587,1163:-305.23,-94.4679,-72.4927,-210.84,0,-200.605 1/1:141:0,141,0:0:0:141,0:4992,0:-449.435,-42.4452,0,-449.435,-42.4452,-449.435 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 2/2:6:0,0,6:0:0:0,6:0,214:-19.6078,-19.6078,-19.6078,-1.80618,-1.80618,0 1/2:12:0,7,5:0:0:7,5:248,174:-34.3522,-14.1462,-12.039,-20.2062,0,-18.7011 1/2:63:0,44,19:0:0:44,19:1560,635:-178.832,-51.7259,-38.4806,-127.446,0,-121.727 1/2:83:0,48,35:0:0:48,35:1700,1215:-237.602,-99.1149,-84.6655,-138.837,0,-128.301 1/2:179:0,113,65:0:0:113,65:4007,2281:-512.17,-185.714,-151.698,-326.536,0,-306.969 1/2:97:0,70,27:0:0:70,27:2500,931:-279.805,-75.972,-54.8999,-204.181,0,-196.053 1/2:117:0,93,24:0:0:93,24:3292,851:-337.468,-69.3144,-41.3186,-268.507,0,-261.282 1/2:98:0,48,48:0:0:48,48:1716,1669:-275.648,-135.723,-121.273,-139.951,0,-125.502 1/2:61:0,42,19:0:0:42,19:1512,673:-178.552,-55.1765,-42.5332,-123.731,0,-118.012 1/1:87:0,86,1:0:0:86,1:3048,36:-274.192,-25.8886,0,-271.254,-22.5913,-270.953 1/1:61:0,60,0:0:0:60,0:2137,0:-192.236,-18.0618,0,-192.236,-18.0618,-192.236 chr12 1140169 . AGGACTCGG AGGAGTTTAAATTCAG,AG 14771.4 PASS AB=0.700288,0.288905;ABP=486.642,540.24;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1260,403;CIGAR=3M7I1M1X2M1X1M,1M7D1M;DP=1683;DPB=2368;DPRA=0,1.24288;EPP=2739.07,878.114;EPPR=0;GTI=2;LEN=16,7;MEANALT=2.57143,2.72222;MQM=22.5857,42.8933;MQMR=0;NS=21;NUMALT=2;ODDS=2.19832;PAIRED=0,0;PAIREDR=0;PAO=3.66667,0.666667;PQA=109.5,12;PQR=109.5;PRO=3.66667;QA=28486,13835;QR=0;RO=0;RPL=0,2;RPP=2739.07,860.828;RPPR=0;RPR=1260,401;RUN=1,1;SAF=0,2;SAP=2739.07,860.828;SAR=1260,401;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:103:0,79,24:0:0:79,24:1820,814:-182.729,-65.0575,-41.2761,-117.916,0,-110.691 1/2:70:0,54,16:0:0:54,16:1136,555:-115.924,-44.6129,-28.3573,-71.5663,0,-66.7498 1/2:92:0,73,18:0:0:73,18:1677,614:-157.643,-48.4936,-26.5184,-109.249,0,-103.83 1/2:61:0,43,18:0:0:43,18:985,584:-110.355,-46.3446,-33.4004,-64.1808,0,-58.7623 1/2:186:0,133,52:0:0:133,52:3044,1842:-342.975,-145.05,-105.013,-198.044,0,-182.391 1/2:33:0,24,9:0:0:24,9:504,304:-56.0524,-24.4923,-17.2676,-31.8504,0,-29.1412 1/2:127:0,92,35:0:0:92,35:1933,1199:-217.222,-95.8423,-68.1475,-121.673,0,-111.137 1/2:77:0,45,32:0:0:45,32:945,1081:-144.873,-85.5785,-72.0322,-59.562,0,-49.929 1/1:119:0,116,0:0:0:116,0:2882,0:-228.069,-34.9195,0,-228.069,-34.9195,-228.069 1/1:24:0,24,0:0:0:24,0:504,0:-39.0752,-7.22472,0,-39.0752,-7.22472,-39.0752 1/2:16:0,8,8:0:0:8,8:168,280:-33.2952,-22.8211,-20.4129,-10.7369,0,-8.32862 1/2:30:0,17,12:0:0:17,12:357,428:-56.7527,-34.4088,-29.2912,-22.4332,0,-18.8208 1/2:60:0,38,21:0:0:38,21:868,740:-114.938,-58.6004,-47.1613,-56.4231,0,-50.1015 1/2:104:0,62,41:0:0:62,41:1420,1376:-200.868,-108.542,-89.878,-92.3607,0,-80.0185 1/2:154:0,106,43:0:0:106,43:2433,1497:-276.584,-118.226,-86.3168,-158.4,0,-145.456 1/2:63:0,55,8:0:0:55,8:1363,284:-114.048,-22.9193,-6.36265,-91.4075,0,-88.9993 1/2:76:0,62,11:0:0:62,11:1546,369:-131.651,-29.0926,-10.4288,-102.626,0,-99.3151 1/2:63:0,33,29:0:0:33,29:694,952:-119.41,-75.8457,-65.9117,-43.6367,0,-34.9069 1/2:73:0,48,24:0:0:48,24:1098,844:-138.172,-66.847,-52.3975,-71.4332,0,-64.2085 1/1:96:0,92,2:0:0:92,2:1932,72:-149.015,-27.6948,0,-143.248,-21.845,-142.646 1/1:56:0,56,0:0:0:56,0:1177,0:-91.0251,-16.8577,0,-91.0251,-16.8577,-91.0251 chr12 1140202 . C T 5147.95 PASS AB=0.311065;ABP=448.561;AC=17;AF=0.404762;AN=42;AO=449;CIGAR=1X;DP=1741;DPB=1741;DPRA=1.2698;EPP=960.707;EPPR=2804.21;GTI=2;LEN=1;MEANALT=1.11111;MQM=42.6281;MQMR=23.5287;NS=21;NUMALT=1;ODDS=6.34963;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15894;QR=45989;RO=1290;RPL=449;RPP=978.001;RPPR=2804.21;RPR=0;RUN=1;SAF=2;SAP=960.707;SAR=447;SRF=0;SRP=2804.21;SRR=1290;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:104:77,27:77:2760:27:946:-52.2536,0,-127.944 0/1:78:59,19:59:2078:19:684:-36.9614,0,-94.11 0/1:92:74,18:74:2640:18:633:-28.3986,0,-125.159 0/1:64:44,20:44:1565:20:697:-41.2146,0,-70.6695 0/1:195:137,57:137:4874:57:1987:-114.86,0,-225.115 0/1:33:24,9:24:856:9:320:-18.4399,0,-35.3096 0/1:135:92,43:92:3270:43:1498:-91.4996,0,-133.22 0/1:82:46,36:46:1598:36:1278:-87.7576,0,-63.9973 0/0:119:119,0:119:4260:0:0:0,-35.8226,-263.857 0/0:24:24,0:24:864:0:0:0,-7.22472,-45.2789 0/1:16:7,9:7:252:9:324:-24.2813,0,-8.53766 0/1:33:18,15:18:644:15:536:-37.803,0,-24.0597 0/1:61:36,25:36:1288:25:895:-60.0346,0,-55.2987 0/1:106:63,43:63:2260:43:1519:-101.613,0,-96.7922 0/1:155:110,45:110:3940:45:1616:-94.4751,0,-181.574 0/1:63:54,9:54:1925:9:324:-9.90738,0,-101.013 0/1:75:65,10:65:2309:10:360:-9.16055,0,-119.967 0/1:67:33,34:33:1165:34:1201:-85.8965,0,-43.1701 0/1:78:49,28:49:1756:28:1004:-63.9643,0,-76.4488 0/0:102:100,2:100:3573:2:72:0,-23.9864,-188.803 0/0:59:59,0:59:2112:0:0:0,-17.7608,-115.13 chr12 1194323 . C T 22788.6 PASS AB=0.5454;ABP=32.5854;AC=24;AF=0.571429;AN=42;AO=1215;CIGAR=1X;DP=1973;DPB=1973;DPRA=24.6125;EPP=2641.35;EPPR=1646.81;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8938;MQMR=60;NS=21;NUMALT=1;ODDS=14.8187;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43372;QR=27084;RO=757;RPL=0;RPP=2641.35;RPPR=1646.81;RPR=1215;RUN=1;SAF=1215;SAP=2641.35;SAR=0;SRF=757;SRP=1646.81;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:45,72:45:1616:72:2550:-194.521,0,-110.509 0/1:68:30,38:30:1076:38:1368:-102.951,0,-76.6828 0/1:96:32,64:32:1148:64:2272:-175.842,0,-74.731 0/1:63:26,37:26:928:37:1328:-100.857,0,-64.8734 0/1:154:74,80:74:2652:80:2876:-212.717,0,-192.568 0/1:108:79,29:79:2844:29:1040:-61.3949,0,-223.686 0/1:162:59,103:59:2120:103:3658:-280.631,0,-142.302 0/1:52:26,26:26:932:26:936:-68.9059,0,-68.5453 1/1:161:0,161:0:0:161:5769:-519.322,-48.4658,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:53:25,28:25:888:28:1008:-75.0818,0,-64.2844 0/1:194:98,96:98:3512:96:3414:-249.051,0,-257.89 0/1:118:62,56:62:2220:56:1974:-142.41,0,-164.543 0/1:115:55,60:55:1961:60:2160:-160.048,0,-142.145 0/1:87:38,49:38:1341:49:1737:-130.418,0,-94.7984 0/1:77:32,45:32:1137:45:1600:-120.483,0,-79.4577 0/1:98:40,57:40:1432:57:2037:-154.041,0,-99.6179 0/1:90:29,61:29:1025:61:2188:-170.093,0,-65.468 1/1:88:3,85:3:108:85:3021:-262.045,-16.4155,0 1/1:47:0,47:0:0:47:1684:-151.847,-14.1484,0 chr12 1194343 . C T 23187.7 PASS AB=0.549697;ABP=38.4066;AC=24;AF=0.571429;AN=42;AO=1218;CIGAR=1X;DP=1968;DPB=1968;DPRA=24.55;EPP=2613.23;EPPR=1605.66;GTI=1;LEN=1;MEANALT=1;MQM=59.8695;MQMR=60;NS=21;NUMALT=1;ODDS=15.3413;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43593;QR=26825;RO=750;RPL=4;RPP=2613.23;RPPR=1605.66;RPR=1214;RUN=1;SAF=1218;SAP=2647.86;SAR=0;SRF=750;SRP=1631.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:46,74:46:1633:74:2660:-203.516,0,-111.133 0/1:70:31,39:31:1104:39:1393:-104.596,0,-78.5985 0/1:96:32,64:32:1152:64:2285:-177.011,0,-75.0913 0/1:60:24,36:24:856:36:1292:-98.522,0,-59.2993 0/1:155:72,83:72:2580:83:2957:-219.655,0,-185.79 0/1:106:77,29:77:2746:29:1044:-62.3575,0,-215.472 0/1:162:58,104:58:2080:104:3728:-286.952,0,-138.703 0/1:49:24,25:24:864:25:900:-66.5705,0,-63.3321 1/1:159:0,159:0:0:159:5674:-510.779,-47.8638,0 1/1:21:0,21:0:0:21:756:-68.3672,-6.32163,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:53:26,27:26:936:27:972:-71.8433,0,-68.6049 0/1:197:98,99:98:3511:99:3521:-257.783,0,-256.896 0/1:120:62,58:62:2199:58:2088:-152.066,0,-162.052 0/1:116:56,60:56:2000:60:2160:-159.747,0,-145.354 0/1:88:38,50:38:1364:50:1769:-132.826,0,-96.5701 0/1:76:32,44:32:1152:44:1570:-118.654,0,-81.1119 0/1:93:38,55:38:1364:55:1976:-150.119,0,-95.0649 0/1:89:29,60:29:1032:60:2152:-167.156,0,-66.4018 1/1:88:3,85:3:108:85:3040:-263.755,-16.4155,0 1/1:46:0,46:0:0:46:1656:-149.328,-13.8474,0 chr12 1194378 . T C 21438.4 PASS AB=0.544681;ABP=31.5351;AC=24;AF=0.571429;AN=42;AO=1196;CIGAR=1X;DP=1953;DPB=1953;DPRA=24.3625;EPP=2600.09;EPPR=1644.64;GTI=1;LEN=1;MEANALT=1.05;MQM=59.8955;MQMR=60;NS=21;NUMALT=1;ODDS=14.1003;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41654;QR=26813;RO=756;RPL=1196;RPP=2600.09;RPPR=1644.64;RPR=0;RUN=1;SAF=1196;SAP=2600.09;SAR=0;SRF=756;SRP=1644.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:45,71:45:1595:71:2459:-186.642,0,-108.92 0/1:69:30,39:30:1058:39:1372:-103.007,0,-74.7585 0/1:93:31,62:31:1100:62:2142:-165.047,0,-71.3145 0/1:60:25,35:25:887:35:1216:-91.679,0,-62.0863 0/1:157:75,82:75:2638:82:2856:-209.958,0,-190.404 0/1:107:78,29:78:2779:29:1031:-60.8842,0,-218.141 0/1:163:61,102:61:2168:102:3593:-274.509,0,-146.316 0/1:54:27,27:27:963:27:945:-69.1064,0,-70.7303 1/1:155:0,154:0:0:154:5366:-482.716,-46.3586,0 1/1:20:0,20:0:0:20:683:-61.7855,-6.0206,0 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:53:26,27:26:928:27:930:-68.0561,0,-67.8837 0/1:196:98,98:98:3504:98:3406:-247.734,0,-256.569 0/1:120:62,58:62:2195:58:2038:-147.567,0,-161.692 0/1:113:54,59:54:1909:59:2086:-153.993,0,-138.069 0/1:87:37,50:37:1316:50:1741:-130.534,0,-92.5522 0/1:74:32,42:32:1131:42:1423:-106.079,0,-79.8215 0/1:97:40,57:40:1410:57:1985:-149.72,0,-97.9958 0/1:86:28,58:28:984:58:2021:-156.273,0,-62.9848 1/1:83:3,80:3:108:80:2758:-238.384,-14.9103,0 1/1:46:0,46:0:0:46:1603:-144.559,-13.8474,0 chr12 1194435 . GTTTT TTTTT,TTTTA 18615.6 PASS AB=0.58243,0.417028;ABP=111.838,113.275;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1392,776;CIGAR=1X4M,1X3M1X;DP=2169;DPB=2169;DPRA=18.025,1.61412;EPP=2999.7,1688.07;EPPR=0;GTI=2;LEN=1,5;MEANALT=1.9,2;MQM=24.6135,24.5077;MQMR=0;NS=21;NUMALT=2;ODDS=4.46172;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34166,27450;QR=0;RO=0;RPL=3,0;RPP=2999.7,1688.07;RPPR=0;RPR=1389,776;RUN=1,1;SAF=0,0;SAP=3025.7,1688.07;SAR=1392,776;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:208:0,128,80:0:0:128,80:2964,2848:-333.274,-139.355,-100.823,-194.137,0,-170.054 1/2:147:0,82,65:0:0:82,65:2232,2265:-288.794,-134.233,-109.548,-154.815,0,-135.248 1/2:73:0,41,32:0:0:41,32:947,1125:-118.816,-57.0137,-44.6714,-62.0204,0,-52.3874 1/2:172:0,91,81:0:0:91,81:2112,2854:-283.266,-144.746,-117.352,-138.738,0,-114.355 1/2:167:0,110,57:0:0:110,57:2548,2025:-268.613,-102.123,-69.0093,-166.712,0,-149.553 1/2:130:0,71,59:0:0:71,59:1899,2092:-252.951,-122.633,-101.26,-130.57,0,-112.809 1/2:112:0,80,32:0:0:80,32:2137,1132:-213.419,-66.4637,-42.3813,-147.211,0,-137.578 1/2:110:0,52,58:0:0:52,58:1409,2049:-217.427,-120.185,-104.532,-97.4935,0,-80.0338 1/1:142:0,142,0:0:0:142,0:3274,0:-256.527,-42.7463,0,-256.527,-42.7463,-256.527 1/1:10:0,10,0:0:0:10,0:270,0:-21.8346,-3.0103,0,-21.8346,-3.0103,-21.8346 2/2:6:0,0,6:0:0:0,6:0,209:-14.4585,-14.4585,-14.4585,-1.80618,-1.80618,0 1/2:25:0,15,10:0:0:15,10:399,352:-48.4771,-20.9727,-16.4573,-27.7574,0,-24.7471 1/2:156:0,99,57:0:0:99,57:2289,2026:-250.569,-101.106,-71.304,-149.683,0,-132.524 1/2:124:0,63,60:0:0:63,60:1477,2133:-203.91,-106.969,-88.0043,-96.9313,0,-78.8695 1/2:126:0,62,64:0:0:62,64:1436,2252:-207.245,-113.342,-94.6778,-94.1194,0,-74.8535 1/2:100:0,64,36:0:0:64,36:1471,1276:-158.906,-63.0755,-43.8095,-96.0476,0,-85.2105 1/2:78:0,40,38:0:0:40,38:915,1351:-126.203,-66.6264,-54.5852,-59.7907,0,-48.3516 1/2:63:0,38,25:0:0:38,25:1035,889:-123.81,-52.159,-40.7199,-71.9067,0,-64.381 1/2:53:0,38,15:0:0:38,15:884,536:-84.3774,-26.4541,-15.015,-58.1439,0,-53.6285 1/1:116:0,115,1:0:0:115,1:3092,36:-247.328,-34.6185,0,-245.245,-32.2709,-244.944 1/1:51:0,51,0:0:0:51,0:1376,0:-110.527,-15.3525,0,-110.527,-15.3525,-110.527 chr12 1194461 . CCCG TTCA,CTCA 21831.4 PASS AB=0.586151,0.413312;ABP=123.113,124.614;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1414,778;CIGAR=2X1M1X,1M1X1M1X;DP=2193;DPB=2193;DPRA=18.225,1.38404;EPP=3073.47,1692.42;EPPR=0;GTI=2;LEN=4,4;MEANALT=1.95,2;MQM=24.4859,24.527;MQMR=0;NS=21;NUMALT=2;ODDS=5.87826;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=50136,27586;QR=0;RO=0;RPL=1414,778;RPP=3073.47,1692.42;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3073.47,1692.42;SAR=1414,778;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:210:0,130,80:0:0:130,80:4611,2841:-367.999,-139.203,-100.069,-229.024,0,-204.941 1/2:148:0,83,65:0:0:83,65:2947,2295:-307.766,-134.907,-109.921,-173.123,0,-153.557 1/2:79:0,47,32:0:0:47,32:1676,1133:-137.067,-57.1956,-43.0472,-80.0993,0,-70.4663 1/2:174:0,93,81:0:0:93,81:3279,2878:-307.77,-145.195,-117.199,-162.805,0,-138.422 1/2:167:0,110,57:0:0:110,57:3898,2015:-295.055,-101.982,-68.8687,-193.304,0,-176.145 1/2:132:0,73,59:0:0:73,59:2581,2106:-272.491,-122.773,-100.798,-149.981,0,-132.22 1/2:113:0,81,32:0:0:81,32:2870,1146:-233.711,-66.6731,-42.2896,-167.301,0,-157.668 1/2:111:0,52,58:0:0:52,58:1825,2057:-226.731,-119.734,-104.081,-106.929,0,-89.4693 1/1:145:0,145,0:0:0:145,0:5157,0:-296.25,-43.6494,0,-296.25,-43.6494,-296.25 1/1:10:0,10,0:0:0:10,0:356,0:-24.0547,-3.0103,0,-24.0547,-3.0103,-24.0547 2/2:6:0,0,6:0:0:0,6:0,216:-14.5673,-14.5673,-14.5673,-1.80618,-1.80618,0 1/2:25:0,15,10:0:0:15,10:531,356:-52.1493,-21.042,-16.5265,-31.3715,0,-28.3612 1/2:158:0,101,57:0:0:101,57:3581,1994:-277.852,-100.562,-70.1576,-177.519,0,-160.36 1/2:124:0,63,61:0:0:63,61:2253,2173:-221.431,-108.959,-89.9941,-112.704,0,-94.3411 1/2:127:0,63,64:0:0:63,64:2218,2264:-223.878,-113.418,-94.4526,-110.69,0,-91.4239 1/2:101:0,65,36:0:0:65,36:2327,1282:-176.248,-63.1056,-43.5387,-113.37,0,-102.533 1/2:78:0,40,38:0:0:40,38:1410,1342:-136.038,-66.5209,-54.4797,-69.7438,0,-58.3047 1/2:62:0,37,25:0:0:37,25:1303,883:-128.458,-52.0341,-40.8959,-76.6876,0,-69.1618 1/2:54:0,39,15:0:0:39,15:1367,533:-95.1763,-26.4278,-14.6877,-68.9765,0,-64.4611 1/1:118:0,117,1:0:0:117,1:4167,36:-277.678,-35.2205,0,-275.595,-32.8729,-275.294 1/1:51:0,50,1:0:0:50,1:1779,36:-118.106,-15.0515,0,-115.273,-11.8718,-114.972 chr12 1208107 . A C 39737.2 PASS AB=0.470727;ABP=31.488;AC=17;AF=0.404762;AN=42;AO=1804;CIGAR=1X;DP=4443;DPB=4443;DPRA=2.6621;EPP=3920.35;EPPR=5731.35;GTI=0;LEN=1;MEANALT=1.05263;MQM=59.4889;MQMR=59.961;NS=21;NUMALT=1;ODDS=50.345;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63478;QR=93831;RO=2638;RPL=1001;RPP=50.2001;RPPR=26.2429;RPR=803;RUN=1;SAF=1001;SAP=50.2001;SAR=803;SRF=1403;SRP=26.2429;SRR=1235;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:285:154,131:154:5505:131:4599:-328.225,0,-409.781 0/1:202:121,81:121:4283:81:2870:-197.609,0,-324.812 0/1:217:134,83:134:4784:83:2926:-198.162,0,-365.309 0/1:212:117,95:117:4133:95:3330:-236.024,0,-308.331 0/1:325:142,183:142:5080:183:6347:-473.255,0,-359.505 0/1:430:231,198:231:8224:198:6987:-499.326,0,-610.674 0/1:210:115,95:115:4072:95:3342:-237.718,0,-302.825 0/1:241:115,126:115:4054:126:4449:-327.95,0,-292.501 0/0:323:322,1:322:11464:1:36:0,-93.6344,-1027.99 0/0:61:61,0:61:2184:0:0:0,-18.3628,-196.826 0/1:27:13,14:13:464:14:491:-36.3933,0,-33.9697 0/1:83:44,39:44:1564:39:1376:-99.1422,0,-116.066 0/1:257:143,114:143:5067:114:4019:-284.38,0,-378.812 0/1:315:171,144:171:6055:144:5053:-359.948,0,-450.234 0/1:263:123,140:123:4393:140:4938:-365.291,0,-316.371 0/1:147:73,74:73:2620:74:2631:-192.72,0,-191.796 0/1:159:64,95:64:2283:95:3364:-255.063,0,-157.868 0/1:216:101,115:101:3612:115:4034:-298.207,0,-260.264 0/1:237:163,74:163:5782:74:2618:-164.489,0,-449.156 0/0:125:123,2:123:4361:2:68:0,-31.171,-386.209 0/0:108:108,0:108:3847:0:0:0,-32.5112,-346.427 chr12 1208114 . AT AC,GC 115418 PASS AB=0.531765,0.465882;ABP=36.5327,41.6829;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2637,1785;CIGAR=1M1X,2X;DP=4435;DPB=4436;DPRA=0,2.64087;EPP=5729.18,3879.09;EPPR=7.35324;GTI=0;LEN=1,2;MEANALT=2.38095,2.42105;MQM=59.9499,59.4667;MQMR=60;NS=21;NUMALT=2;ODDS=52.0833;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,68;PQR=0;PRO=0;QA=93797,62683;QR=72;RO=2;RPL=1416,957;RPP=34.3225,23.2543;RPPR=3.0103;RPR=1221,828;RUN=1,1;SAF=1416,957;SAP=34.3225,23.2543;SAR=1221,828;SRF=1;SRP=3.0103;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:285:1,152,131:1:36:152,131:5388,4580:-808.297,-369.654,-326.835,-436.052,0,-399.555 1/2:201:0,128,73:0:0:128,73:4571,2571:-581.954,-209.56,-171.029,-372.747,0,-350.772 1/2:223:0,136,86:0:0:136,86:4798,3005:-635.006,-244.355,-203.415,-390.641,0,-364.752 1/2:208:0,115,93:0:0:115,93:4087,3273:-599.387,-266.349,-231.731,-333.07,0,-305.074 1/2:328:0,147,180:0:0:147,180:5239,6297:-939.127,-512.175,-467.924,-427.104,0,-372.918 1/2:435:0,238,197:0:0:238,197:8513,6870:-1253.17,-559.001,-487.355,-694.521,0,-635.218 1/2:195:0,109,84:0:0:109,84:3865,2952:-555.243,-240.362,-207.55,-314.98,0,-289.694 1/2:241:0,118,122:0:0:118,122:4190,4302:-691.801,-350.394,-314.872,-341.549,0,-304.823 1/1:321:0,318,1:0:0:318,1:11256,36:-1012.65,-95.7275,0,-1009.71,-92.7502,-1009.41 1/1:63:0,62,0:0:0:62,0:2205,0:-198.462,-18.6639,0,-198.462,-18.6639,-198.462 1/2:26:0,13,13:0:0:13,13:468,456:-75.6515,-37.4605,-33.5471,-38.5463,0,-34.6329 1/2:80:0,42,38:0:0:42,38:1490,1360:-232.649,-111.254,-98.6105,-121.751,0,-110.312 1/2:258:0,144,114:0:0:144,114:5104,4054:-746.371,-330.571,-287.223,-416.155,0,-381.838 1/2:320:1,172,147:1:36:172,147:6116,5126:-911.253,-413.142,-364.302,-495.467,0,-454.153 1/2:267:0,122,145:0:0:122,145:4342,5111:-770.267,-416.392,-379.666,-354.229,0,-310.58 1/2:153:0,74,78:0:0:74,78:2662,2722:-438.511,-221.316,-199.04,-217.189,0,-193.709 1/2:157:0,64,93:0:0:64,93:2287,3288:-454.452,-268.089,-248.823,-186.719,0,-158.723 1/2:212:0,100,112:0:0:100,112:3588,3950:-614.247,-321.579,-291.476,-292.663,0,-258.948 1/2:236:0,160,76:0:0:160,76:5711,2663:-682.596,-217.006,-168.841,-465.942,0,-443.064 1/1:119:0,117,2:0:0:117,2:4169,67:-375.057,-35.2205,0,-369.632,-29.4597,-369.03 1/1:107:0,106,0:0:0:106,0:3748,0:-337.288,-31.9092,0,-337.288,-31.9092,-337.288 chr12 1208131 . A T 13564.4 PASS AB=0.468839;ABP=17.7612;AC=17;AF=0.404762;AN=42;AO=820;CIGAR=1X;DP=2048;DPB=2048;DPRA=1.37635;EPP=1740.45;EPPR=2591.98;GTI=0;LEN=1;MEANALT=1;MQM=59.6512;MQMR=59.9788;NS=21;NUMALT=1;ODDS=16.5746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29111;QR=43872;RO=1228;RPL=815;RPP=1740.45;RPPR=2591.98;RPR=5;RUN=1;SAF=0;SAP=1783.62;SAR=820;SRF=0;SRP=2669.58;SRR=1228;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:83,73:83:2965:73:2590:-186.295,0,-220.121 0/1:88:58,30:58:2054:30:1035:-66.9337,0,-158.637 0/1:78:51,27:51:1836:27:964:-63.5932,0,-142.04 0/1:51:22,29:22:792:29:1040:-78.5618,0,-56.2469 0/1:55:22,33:22:792:33:1172:-89.2308,0,-55.049 0/1:288:145,143:145:5177:143:5129:-374.881,0,-379.373 0/1:72:38,34:38:1364:34:1182:-85.0064,0,-101.387 0/1:157:74,83:74:2618:83:2907:-214.595,0,-188.604 0/0:173:173,0:173:6174:0:0:0,-52.0782,-555.757 0/0:37:37,0:37:1324:0:0:0,-11.1381,-119.462 0/1:15:10,5:10:360:5:176:-11.6696,0,-28.2289 0/1:31:18,13:18:644:13:468:-33.1195,0,-48.9587 0/1:89:44,45:44:1576:45:1605:-117.31,0,-115.34 0/1:119:66,53:66:2338:53:1908:-136.17,0,-174.854 0/1:133:66,67:66:2372:67:2370:-173.467,0,-173.701 0/1:82:47,35:47:1677:35:1223:-85.6802,0,-126.531 0/1:75:31,44:31:1093:44:1580:-119.904,0,-75.9942 0/1:125:65,60:65:2332:60:2122:-153.599,0,-172.511 0/1:135:89,46:89:3188:46:1640:-107.243,0,-246.505 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/0:70:70,0:70:2512:0:0:0,-21.0721,-226.332 chr12 1208702 . G A 13680.5 PASS AB=0.42753;ABP=59.3473;AC=25;AF=0.595238;AN=42;AO=769;CIGAR=1X;DP=1480;DPB=1480;DPRA=0;EPP=1655.55;EPPR=1536.08;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9116;MQMR=59.9944;NS=21;NUMALT=1;ODDS=0.536296;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27300;QR=25387;RO=710;RPL=2;RPP=1655.55;RPPR=1359.59;RPR=767;RUN=1;SAF=769;SAP=1672.87;SAR=0;SRF=687;SRP=1351.45;SRR=23;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:82:47,35:47:1688:35:1252:-88.3002,0,-127.522 0/1:30:20,10:20:720:10:356:-23.3503,0,-56.0979 0/1:51:37,14:37:1332:14:504:-30.3452,0,-104.828 0/1:67:47,20:47:1692:20:720:-44.9598,0,-132.398 0/1:89:70,19:70:2473:19:684:-35.0987,0,-196.032 0/1:65:30,35:30:1072:35:1210:-89.632,0,-77.2255 0/1:145:79,66:79:2840:66:2325:-165.857,0,-212.188 0/1:82:46,36:46:1633:36:1288:-91.5391,0,-122.572 1/1:151:0,151:0:0:151:5394:-485.588,-45.4555,0 1/1:9:0,9:0:0:9:290:-26.4121,-2.70927,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:48:16,32:16:572:32:1139:-88.3696,0,-37.364 0/1:103:61,42:61:2184:42:1489:-103.227,0,-165.82 0/1:65:33,32:33:1169:32:1133:-82.7097,0,-85.9483 0/1:135:86,49:86:3064:49:1733:-115.614,0,-235.351 0/1:48:37,11:37:1324:11:384:-20.4452,0,-105.013 0/1:75:37,38:37:1332:38:1338:-98.1387,0,-97.6051 0/1:69:30,39:30:1076:39:1400:-105.514,0,-76.3818 0/1:76:30,46:30:1072:46:1625:-123.659,0,-73.9142 1/1:49:3,45:3:108:45:1604:-134.346,-4.7341,0 1/1:36:0,36:0:0:36:1288:-116.224,-10.8371,0 chr12 1208855 . GCAC GCAT,ACAT 40980.2 PASS AB=0.538328,0.461672;ABP=24.9823,24.9823;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1226,799;CIGAR=3M1X,1X2M1X;DP=2028;DPB=2028.25;DPRA=0,4.006;EPP=2665.24,1738.02;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.04762,2.1;MQM=59.9674,59.9312;MQMR=0;NS=21;NUMALT=2;ODDS=5.98768;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=43671,28296;QR=0;RO=0;RPL=1226,799;RPP=2665.24,1738.02;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2665.24,1738.02;SAR=1226,799;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:67:0,47,20:0:0:47,20:1643,719:-192.665,-59.018,-44.8696,-134.003,0,-127.983 1/2:73:0,36,37:0:0:36,37:1296,1309:-212.723,-106.973,-96.1361,-106.107,0,-94.9687 1/2:111:0,67,44:0:0:67,44:2363,1566:-320.387,-127.986,-107.817,-192.755,0,-179.51 1/2:172:0,93,79:0:0:93,79:3291,2815:-497.864,-229.808,-201.813,-268.411,0,-244.629 1/2:209:0,78,131:0:0:78,131:2774,4640:-604.394,-378.331,-354.85,-226.418,0,-186.983 1/2:68:0,32,36:0:0:32,36:1148,1270:-197.406,-103.765,-94.1323,-93.9969,0,-83.1598 1/2:156:0,67,89:0:0:67,89:2408,3147:-453.077,-256.627,-236.458,-196.807,0,-170.015 1/2:101:0,56,45:0:0:56,45:1974,1583:-289.925,-129.213,-112.355,-161.064,0,-147.517 1/1:158:0,155,1:0:0:155,1:5539,36:-498.261,-46.6597,0,-495.324,-43.7222,-495.023 1/1:25:0,25,0:0:0:25,0:885,0:-79.9665,-7.52575,0,-79.9665,-7.52575,-79.9665 1/2:6:0,4,2:0:0:4,2:144,71:-17.893,-6.14,-4.93588,-12.1095,0,-11.5074 1/2:22:0,9,13:0:0:9,13:324,452:-63.5384,-37.0967,-34.3874,-26.7966,0,-22.8832 1/2:126:0,67,59:0:0:67,59:2404,2098:-367.419,-171.328,-151.159,-196.447,0,-178.687 1/2:110:0,85,25:0:0:85,25:3011,869:-316.251,-70.9986,-45.411,-245.602,0,-238.076 1/2:123:0,69,54:0:0:69,54:2469,1910:-357.252,-155.917,-135.146,-201.691,0,-185.435 1/2:59:0,28,31:0:0:28,31:1008,1094:-171.688,-89.4367,-81.0078,-82.6075,0,-73.2756 1/2:91:0,56,35:0:0:56,35:2016,1218:-263.511,-99.0086,-82.1509,-164.495,0,-153.959 1/2:136:0,80,56:0:0:80,56:2831,2009:-394.81,-164.224,-140.142,-230.943,0,-214.085 1/2:92:0,53,39:0:0:53,39:1893,1382:-267.275,-112.938,-96.9837,-154.692,0,-142.951 1/1:82:0,80,1:0:0:80,1:2861,36:-257.366,-24.0824,0,-254.428,-21.145,-254.127 1/1:41:0,39,2:0:0:39,2:1389,72:-124.947,-11.7402,0,-119.072,-5.50551,-118.47 chr12 1209737 . GACT TACC 13886.8 PASS AB=0.561931;ABP=39.5891;AC=25;AF=0.595238;AN=42;AO=772;CIGAR=1X2M1X;DP=1253;DPB=1253;DPRA=0;EPP=1679.39;EPPR=1038.8;GTI=0;LEN=4;MEANALT=1.19048;MQM=59.8472;MQMR=60;NS=21;NUMALT=1;ODDS=10.6494;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27069;QR=16681;RO=477;RPL=0;RPP=1679.39;RPPR=1038.8;RPR=772;RUN=1;SAF=772;SAP=1679.39;SAR=0;SRF=477;SRP=1038.8;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:53,26:53:1809:26:910:-57.6533,0,-139.307 0/1:63:42,21:42:1488:21:752:-49.0417,0,-115.25 0/1:40:17,23:17:588:23:814:-61.5392,0,-41.2037 0/1:20:10,10:10:356:10:343:-25.1803,0,-26.3609 0/1:115:65,50:65:2262:50:1761:-124.154,0,-169.223 0/1:27:16,11:16:555:11:373:-25.7686,0,-42.1486 0/1:90:33,57:33:1149:57:1981:-151.469,0,-76.6218 0/1:81:19,62:19:675:62:2183:-172.353,0,-36.6942 1/1:50:0,50:0:0:50:1772:-159.572,-15.0515,0 1/1:14:0,14:0:0:14:472:-42.8013,-4.21442,0 0/1:5:3,2:3:107:2:72:-5.33157,0,-8.47702 0/1:28:11,17:11:396:17:601:-45.9901,0,-27.5539 0/1:59:28,31:28:985:31:1068:-78.6634,0,-71.2033 0/1:47:15,31:15:529:31:1100:-85.2193,0,-33.8476 0/1:205:67,138:67:2325:138:4865:-376.298,0,-147.798 0/1:28:18,10:18:637:10:341:-22.5901,0,-49.2296 0/1:27:11,16:11:384:16:543:-41.0628,0,-26.7668 0/1:135:56,79:56:1970:79:2782:-209.971,0,-136.935 0/1:49:13,33:13:466:33:1157:-90.2473,0,-28.088 1/1:38:0,38:0:0:38:1318:-118.915,-11.4391,0 1/1:53:0,53:0:0:53:1861:-167.749,-15.9546,0 chr12 1209798 . G C 18580.3 PASS AB=0.470785;ABP=16.3328;AC=17;AF=0.404762;AN=42;AO=847;CIGAR=1X;DP=2132;DPB=2132;DPRA=1.18957;EPP=208.336;EPPR=409.062;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9528;MQMR=59.9198;NS=21;NUMALT=1;ODDS=14.3078;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30191;QR=45844;RO=1284;RPL=845;RPP=1824.92;RPPR=2739.31;RPR=2;RUN=1;SAF=280;SAP=214.182;SAR=567;SRF=391;SRP=429.194;SRR=893;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:44,75:44:1576:75:2672:-204.904,0,-104.945 0/1:80:49,31:49:1760:31:1099:-75.1371,0,-134.601 0/1:81:36,45:36:1284:45:1596:-119.539,0,-91.48 0/1:121:60,61:60:2127:61:2165:-158.691,0,-155.274 0/1:222:105,117:105:3740:117:4168:-308.476,0,-269.974 0/1:112:59,53:59:2108:53:1908:-138.282,0,-156.274 0/1:90:48,42:48:1702:42:1485:-106.85,0,-126.372 0/1:89:39,50:39:1400:50:1773:-133.059,0,-99.5075 0/0:180:180,0:180:6398:0:0:0,-54.1854,-575.804 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:20:10,10:10:360:10:356:-26.3535,0,-26.7237 0/1:115:58,57:58:2072:57:2040:-149.254,0,-152.13 0/1:105:42,63:42:1504:63:2264:-172.414,0,-104.046 0/1:311:206,105:206:7363:105:3752:-244.257,0,-569.099 0/1:69:33,36:33:1184:36:1275:-94.2812,0,-86.0972 0/1:68:38,30:38:1364:30:1061:-75.3293,0,-102.591 0/1:59:27,32:27:972:32:1144:-85.5087,0,-70.0371 0/1:129:94,35:94:3372:35:1253:-74.2423,0,-264.863 0/0:73:71,1:71:2544:1:36:0,-18.4357,-225.122 0/0:72:72,0:72:2550:0:0:0,-21.6742,-229.748 chr12 1219267 . G A 4922.16 PASS AB=0.376087;ABP=125.708;AC=16;AF=0.380952;AN=42;AO=351;CIGAR=1X;DP=1305;DPB=1305;DPRA=0.784835;EPP=765.197;EPPR=2074.59;GTI=1;LEN=1;MEANALT=1;MQM=59.5897;MQMR=59.5409;NS=21;NUMALT=1;ODDS=2.45822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12577;QR=34165;RO=954;RPL=0;RPP=765.197;RPPR=2074.59;RPR=351;RUN=1;SAF=351;SAP=765.197;SAR=0;SRF=954;SRP=2074.59;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:74,27:74:2652:27:972:-56.7653,0,-208.471 0/1:47:28,19:28:995:19:684:-47.7337,0,-75.6911 0/1:34:9,25:9:320:25:900:-71.0836,0,-18.9073 0/1:40:28,12:28:1000:12:432:-27.1776,0,-78.274 0/1:76:46,30:46:1640:30:1065:-73.2796,0,-125.007 0/1:77:54,23:54:1936:23:813:-50.3001,0,-151.321 0/1:85:56,29:56:2008:29:1040:-68.2902,0,-155.293 0/1:66:45,21:45:1620:21:756:-48.4992,0,-126.213 0/0:150:150,0:150:5380:0:0:0,-45.1545,-483.21 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.5677 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7553 0/1:16:7,9:7:248:9:324:-24.6708,0,-17.8394 0/0:84:79,5:79:2844:5:180:0,-8.73445,-239.636 0/1:65:44,21:44:1576:21:756:-48.6678,0,-122.565 0/1:153:99,54:99:3544:54:1940:-128.818,0,-273.018 0/1:39:29,10:29:1036:10:356:-20.6387,0,-81.8137 0/1:27:22,5:22:773:5:180:-8.42425,0,-61.731 0/1:56:11,45:11:396:45:1603:-127.702,0,-19.1204 0/1:28:16,12:16:576:12:432:-30.7924,0,-43.7392 0/0:109:109,0:109:3893:0:0:0,-32.8123,-350.402 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 chr12 1219293 . AAG TAA,TAG 38997.1 PASS AB=0.473011,0.524858;ABP=11.9183,10.5673;AC=25,17;AF=0.595238,0.404762;AN=42;AO=971,740;CIGAR=1X1M1X,1X2M;DP=1715;DPB=1715;DPRA=0,1.29167;EPP=2085.53,1601.23;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.04762,2.22222;MQM=59.4398,56.9973;MQMR=0;NS=21;NUMALT=2;ODDS=2.81605;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33892,26407;QR=0;RO=0;RPL=966,338;RPP=2068.3,15.0297;RPPR=0;RPR=5,402;RUN=1,1;SAF=969,339;SAP=2094.17,14.2902;SAR=2,401;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:122:0,77,45:0:0:77,45:2715,1605:-352.04,-131.022,-107.843,-221.373,0,-207.826 1/2:77:0,31,46:0:0:31,46:1093,1644:-223.274,-134.334,-125.002,-89.2941,0,-75.4467 1/2:44:0,9,35:0:0:9,35:321,1252:-128.545,-102.378,-99.6686,-26.524,0,-15.988 1/2:79:0,27,52:0:0:27,52:932,1849:-226.491,-150.775,-142.647,-76.0643,0,-60.4108 1/2:110:0,45,63:0:0:45,63:1587,2252:-312.42,-183.203,-169.657,-129.211,0,-110.246 1/2:98:0,55,42:0:0:55,42:1943,1485:-279.108,-120.887,-104.33,-158.292,0,-145.648 1/2:112:0,57,55:0:0:57,55:1965,1965:-320.079,-160.495,-143.336,-159.935,0,-143.378 1/2:88:0,45,43:0:0:45,43:1575,1536:-253.648,-125.519,-111.973,-128.482,0,-115.538 1/1:150:0,150,0:0:0:150,0:5210,0:-468.335,-45.1545,0,-468.335,-45.1545,-468.335 1/1:16:0,16,0:0:0:16,0:544,0:-49.2564,-4.81648,0,-49.2564,-4.81648,-49.2564 1/2:10:0,6,4:0:0:6,4:214,144:-29.5309,-12.1095,-10.3033,-17.7797,0,-16.5756 1/2:22:0,7,15:0:0:7,15:247,540:-64.4894,-44.3824,-42.2752,-20.4618,0,-15.9464 1/2:118:0,80,38:0:0:80,38:2827,1364:-341.63,-111.406,-87.3232,-230.581,0,-219.141 1/2:113:0,47,66:0:0:47,66:1606,2347:-321.753,-191.462,-177.314,-130.639,0,-110.771 1/2:189:0,102,87:0:0:102,87:3532,3116:-541.337,-254.324,-223.619,-287.365,0,-261.176 1/2:47:0,29,18:0:0:29,18:995,633:-132.491,-51.7129,-42.983,-81.1258,0,-75.7073 1/2:36:0,22,14:0:0:22,14:767,500:-103.298,-41.0566,-34.434,-62.5945,0,-58.3801 1/2:95:0,11,84:0:0:11,84:396,2995:-276.672,-244.364,-241.053,-32.6668,0,-7.38026 1/2:48:0,16,32:0:0:16,32:566,1144:-139.571,-93.4741,-88.6576,-46.4511,0,-36.8181 1/1:111:0,109,1:0:0:109,1:3805,36:-342.273,-32.8123,0,-339.339,-29.8324,-339.038 1/1:30:0,30,0:0:0:30,0:1052,0:-94.8883,-9.0309,0,-94.8883,-9.0309,-94.8883 chr12 1442365 . A G 9450.21 PASS AB=0.467822;ABP=13.9107;AC=17;AF=0.404762;AN=42;AO=571;CIGAR=1X;DP=1461;DPB=1461;DPRA=1.23276;EPP=1208.42;EPPR=1847.57;GTI=0;LEN=1;MEANALT=1.05556;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=6.34259;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20395;QR=31808;RO=889;RPL=4;RPP=1208.42;RPPR=1847.57;RPR=567;RUN=1;SAF=571;SAP=1242.92;SAR=0;SRF=889;SRP=1933.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:79:43,36:43:1525:36:1283:-91.9913,0,-113.76 0/1:54:25,29:25:900:29:1044:-78.0192,0,-65.0654 0/1:72:37,35:37:1328:35:1260:-92.0313,0,-98.1481 0/1:86:49,36:49:1760:36:1269:-88.5636,0,-132.737 0/1:105:40,65:40:1440:65:2321:-177.54,0,-98.2896 0/1:28:13,15:13:468:15:540:-40.5077,0,-34.0308 0/1:76:35,41:35:1241:41:1476:-110.258,0,-89.1142 0/1:99:68,31:68:2440:31:1100:-69.5083,0,-190.053 0/0:93:93,0:93:3336:0:0:0,-27.9958,-300.457 0/0:20:20,0:20:720:0:0:0,-6.0206,-65.1288 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:38:17,21:17:600:21:756:-56.9281,0,-42.8901 0/1:82:44,38:44:1580:38:1345:-96.6637,0,-117.807 0/1:83:42,41:42:1481:41:1472:-107.791,0,-108.597 0/1:102:51,51:51:1824:51:1821:-133.466,0,-133.736 0/1:18:10,8:10:356:8:288:-20.8489,0,-26.9627 0/1:48:22,26:22:788:26:919:-68.5767,0,-56.7954 0/1:148:76,72:76:2728:72:2569:-186.906,0,-201.21 0/1:89:69,20:69:2480:20:720:-38.3371,0,-196.661 0/0:75:71,4:71:2521:4:140:0,-9.63267,-214.196 0/0:61:61,0:61:2184:0:0:0,-18.3628,-196.826 chr12 1442458 . 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C T 26538.6 PASS AB=0.591763;ABP=123.762;AC=25;AF=0.595238;AN=42;AO=1370;CIGAR=1X;DP=2047;DPB=2047;DPRA=0;EPP=2977.93;EPPR=1473.1;GTI=2;LEN=1;MEANALT=1;MQM=59.9307;MQMR=59.9394;NS=21;NUMALT=1;ODDS=3.41748;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=49109;QR=24169;RO=677;RPL=0;RPP=2977.93;RPPR=1473.1;RPR=1370;RUN=1;SAF=1370;SAP=2977.93;SAR=0;SRF=677;SRP=1473.1;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:93:42,51:42:1489:51:1816:-135.719,0,-106.307 0/1:94:32,62:32:1152:62:2228:-172.487,0,-75.6871 0/1:89:41,48:41:1460:48:1724:-128.654,0,-104.904 0/1:131:61,70:61:2176:70:2512:-186.891,0,-156.672 0/1:204:90,114:90:3216:114:4084:-306.336,0,-228.096 0/1:77:10,67:10:360:67:2404:-193.436,0,-9.56499 0/1:152:52,100:52:1848:100:3592:-277.721,0,-120.844 0/1:136:64,72:64:2280:72:2580:-191.508,0,-164.522 1/1:213:0,213:0:0:213:7640:-687.604,-64.1194,0 1/1:8:0,8:0:0:8:288:-26.2612,-2.40824,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:18:5,13:5:180:13:468:-37.0411,0,-11.1335 0/1:89:51,38:51:1816:38:1364:-96.269,0,-136.901 0/1:100:42,58:42:1504:58:2057:-155.29,0,-105.552 0/1:203:83,120:83:2964:120:4300:-326.067,0,-205.885 0/1:79:32,47:32:1148:47:1684:-128.066,0,-79.8485 0/1:72:25,47:25:888:47:1684:-130.173,0,-58.5649 0/1:56:25,31:25:900:31:1116:-83.894,0,-64.4633 0/1:53:17,36:17:608:36:1284:-99.9088,0,-39.0974 1/1:116:1,115:1:36:115:4132:-368.459,-31.3212,0 1/1:59:2,57:2:72:57:2044:-177.395,-10.924,0 chr12 1509848 . 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G A 18305.2 PASS AB=0.564268;ABP=47.3894;AC=24;AF=0.571429;AN=42;AO=973;CIGAR=1X;DP=1518;DPB=1518;DPRA=15.13;EPP=2115.85;EPPR=1186.46;GTI=1;LEN=1;MEANALT=1;MQM=48.5498;MQMR=59.5817;NS=21;NUMALT=1;ODDS=16.2499;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34857;QR=19479;RO=545;RPL=973;RPP=2115.85;RPPR=1186.46;RPR=0;RUN=1;SAF=0;SAP=2115.85;SAR=973;SRF=0;SRP=1186.46;SRR=545;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:48,57:48:1702:57:2032:-150.222,0,-121.823 0/1:69:22,47:22:792:47:1684:-128.984,0,-50.8346 0/1:39:20,19:20:716:19:684:-49.8796,0,-53.0275 0/1:73:34,39:34:1220:39:1400:-103.756,0,-88.1159 0/1:149:63,86:63:2243:86:3080:-230.215,0,-157.247 0/1:57:29,28:29:1044:28:1004:-71.3842,0,-77.1071 0/1:92:35,57:35:1256:57:2048:-153.503,0,-85.5272 0/1:65:21,44:21:743:44:1576:-121.161,0,-47.5977 1/1:118:0,118:0:0:118:4232:-379.629,-35.5215,0 1/1:11:0,11:0:0:11:392:-35.3871,-3.31133,0 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:16:9,7:9:324:7:252:-18.0474,0,-24.6894 0/1:80:43,37:43:1540:37:1328:-95.2222,0,-114.74 0/1:88:41,47:41:1468:47:1692:-125.003,0,-105.921 0/1:153:59,94:59:2100:94:3347:-252.923,0,-143.212 0/1:50:28,22:28:1004:22:788:-55.8683,0,-75.6244 0/1:62:33,29:33:1184:29:1040:-74.6879,0,-88.2045 0/1:69:33,36:33:1184:36:1296:-95.0214,0,-86.0438 0/1:70:21,49:21:747:49:1764:-135.825,0,-46.4547 1/1:102:1,101:1:36:101:3602:-317.631,-27.1068,0 1/1:45:0,45:0:0:45:1616:-143.577,-13.5464,0 chr12 3546629 . A G 14285.1 PASS AB=0.473067;ABP=14.8243;AC=17;AF=0.404762;AN=42;AO=887;CIGAR=1X;DP=2206;DPB=2206;DPRA=1.33286;EPP=1920.43;EPPR=2867.18;GTI=0;LEN=1;MEANALT=1;MQM=49.9008;MQMR=51.0432;NS=21;NUMALT=1;ODDS=14.703;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31567;QR=47177;RO=1319;RPL=1;RPP=1920.43;RPPR=2867.18;RPR=886;RUN=1;SAF=0;SAP=1929.11;SAR=887;SRF=0;SRP=2867.18;SRR=1319;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:68,59:68:2432:59:2120:-148.485,0,-176.365 0/1:168:93,75:93:3328:75:2677:-188.952,0,-246.329 0/1:94:31,63:31:1116:63:2250:-171.21,0,-71.3105 0/1:85:45,40:45:1593:40:1432:-101.123,0,-116.148 0/1:185:89,96:89:3179:96:3439:-249.845,0,-226.755 0/1:97:48,49:48:1716:49:1751:-128.04,0,-124.967 0/1:120:66,54:66:2364:54:1911:-135.517,0,-175.548 0/1:183:106,77:106:3799:77:2739:-189.594,0,-286.11 0/0:178:178,0:178:6368:0:0:0,-53.5833,-572.013 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.366 0/1:4:1,3:1:36:3:108:-8.8248,0,-2.38511 0/1:28:16,12:16:576:12:419:-29.565,0,-43.5465 0/1:100:52,48:52:1860:48:1700:-120.365,0,-133.877 0/1:110:54,56:54:1936:56:1943:-139.741,0,-139.607 0/1:171:95,76:95:3416:76:2707:-186.927,0,-250.326 0/1:84:52,32:52:1864:32:1143:-77.4191,0,-142.029 0/1:81:41,40:41:1468:40:1427:-104.14,0,-107.816 0/1:152:70,82:70:2499:82:2905:-215.192,0,-178.655 0/1:86:61,25:61:2163:25:896:-53.969,0,-163.236 0/0:58:58,0:58:2060:0:0:0,-17.4597,-184.263 0/0:62:62,0:62:2220:0:0:0,-18.6639,-199.244 chr12 3546665 . CGCTT TGCTC,CGCTC 43989.8 PASS AB=0.532017,0.463714;ABP=19.6961,24.4423;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1333,871;CIGAR=1X3M1X,4M1X;DP=2214;DPB=2213.8;DPRA=0,1.17029;EPP=2897.58,1894.36;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.28571,2.38889;MQM=51.0128,49.9897;MQMR=0;NS=21;NUMALT=2;ODDS=12.2662;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47144,31169;QR=0;RO=0;RPL=1333,871;RPP=2897.58,1894.36;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2897.58,1894.36;SAR=1333,871;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:129:0,69,59:0:0:69,59:2432,2124:-363.261,-169.541,-148.77,-193.778,0,-176.018 1/2:169:0,92,75:0:0:92,75:3276,2681:-481.309,-216.963,-189.269,-264.361,0,-241.784 1/2:94:0,31,62:0:0:31,62:1087,2232:-266.414,-178.899,-169.567,-87.5142,0,-68.8504 1/2:85:0,44,41:0:0:44,41:1568,1468:-243.351,-117.466,-104.221,-126.236,0,-113.894 1/2:188:0,93,95:0:0:93,95:3245,3408:-534.18,-274.19,-246.194,-260.339,0,-231.741 1/2:98:0,50,48:0:0:50,48:1752,1720:-282.005,-140.008,-124.957,-142.35,0,-127.901 1/2:117:0,66,51:0:0:66,51:2328,1801:-334.817,-146.55,-126.682,-188.618,0,-173.266 1/2:179:0,106,73:0:0:106,73:3746,2597:-514.922,-210.443,-178.534,-304.831,0,-282.856 1/1:182:0,181,0:0:0:181,0:6423,0:-577.073,-54.4864,0,-577.073,-54.4864,-577.073 1/1:34:0,34,0:0:0:34,0:1191,0:-106.967,-10.235,0,-106.967,-10.235,-106.967 1/2:4:0,1,3:0:0:1,3:36,104:-11.6913,-8.75852,-8.45749,-3.2882,0,-2.38511 1/2:29:0,16,13:0:0:16,13:568,468:-84.5709,-38.486,-33.6696,-46.4416,0,-42.5282 1/2:100:0,53,47:0:0:53,47:1856,1673:-281.822,-134.341,-118.386,-147.828,0,-133.68 1/2:107:0,54,53:0:0:54,53:1923,1892:-307.131,-152.177,-135.921,-155.306,0,-139.351 1/2:170:0,95,73:0:0:95,73:3376,2605:-477.221,-207.008,-178.411,-270.237,0,-248.262 1/2:86:0,54,31:0:0:54,31:1914,1116:-246.086,-90.5873,-74.3317,-155.495,0,-146.164 1/2:81:0,41,40:0:0:41,40:1466,1432:-236.258,-116.932,-104.59,-119.683,0,-107.642 1/2:152:0,71,80:0:0:71,80:2513,2880:-437.905,-234.015,-212.642,-203.907,0,-179.824 1/2:86:0,61,25:0:0:61,25:2165,896:-242.898,-72.4017,-54.0389,-170.847,0,-163.321 1/1:60:0,59,0:0:0:59,0:2063,0:-184.596,-17.7608,0,-184.596,-17.7608,-184.596 1/1:64:0,62,2:0:0:62,2:2216,72:-198.549,-18.6639,0,-192.674,-12.4292,-192.072 chr12 3973698 . G A 9829.89 PASS AB=0.437016;ABP=51.9731;AC=17;AF=0.404762;AN=42;AO=622;CIGAR=1X;DP=1747;DPB=1747;DPRA=0.936237;EPP=1353.67;EPPR=2443.75;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.5305;MQMR=59.8852;NS=21;NUMALT=1;ODDS=20.2682;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22215;QR=40082;RO=1124;RPL=622;RPP=1353.67;RPPR=2443.75;RPR=0;RUN=1;SAF=622;SAP=1353.67;SAR=0;SRF=1124;SRP=2443.75;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:30,35:30:1038:35:1256:-93.7713,0,-74.1297 0/1:127:70,57:70:2493:57:2037:-145.267,0,-186.354 0/1:113:65,48:65:2328:48:1697:-118.991,0,-175.761 0/1:78:48,30:48:1728:30:1080:-74.0235,0,-132.325 0/1:48:27,20:27:968:20:716:-50.2504,0,-72.9294 0/1:90:44,46:44:1580:46:1656:-122.117,0,-115.399 0/1:123:68,55:68:2404:55:1972:-140.698,0,-179.589 0/1:105:64,41:64:2280:41:1463:-100.265,0,-173.852 0/0:189:189,0:189:6731:0:0:0,-56.8947,-605.861 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.8441 0/1:8:2,6:2:72:6:216:-17.3823,0,-4.42848 0/1:48:24,24:24:864:24:837:-61.0638,0,-63.6331 0/1:100:54,46:54:1944:46:1648:-118.506,0,-145.125 0/1:124:68,56:68:2425:56:2004:-143.273,0,-181.174 0/1:101:54,47:54:1913:47:1688:-121.758,0,-141.935 0/1:31:17,14:17:603:14:500:-36.0033,0,-45.2676 0/1:33:18,15:18:639:15:536:-38.6385,0,-47.9043 0/1:141:86,55:86:3072:55:1945:-132.842,0,-234.262 0/1:86:60,26:60:2135:26:928:-57.9497,0,-166.399 0/0:62:61,1:61:2192:1:36:0,-15.0656,-193.947 0/0:52:52,0:52:1845:0:0:0,-15.6536,-166.271 chr12 4111804 . C T 24982.9 PASS AB=0.497674;ABP=3.1113;AC=25;AF=0.595238;AN=42;AO=1460;CIGAR=1X;DP=2540;DPB=2540;DPRA=0;EPP=3173.36;EPPR=2304.97;GTI=0;LEN=1;MEANALT=1;MQM=40.5555;MQMR=54.0602;NS=21;NUMALT=1;ODDS=11.9014;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51990;QR=38228;RO=1080;RPL=1460;RPP=3173.36;RPPR=2304.97;RPR=0;RUN=1;SAF=1460;SAP=3173.36;SAR=0;SRF=1080;SRP=2348.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:183:88,95:88:3136:95:3385:-238.577,0,-226.785 0/1:137:71,66:71:2497:66:2364:-155.82,0,-181.895 0/1:136:71,65:71:2534:65:2322:-159.894,0,-186.97 0/1:168:94,74:94:3331:74:2632:-177.875,0,-248.815 0/1:279:118,161:118:4174:161:5722:-413.869,0,-291.278 0/1:64:37,27:37:1299:27:959:-60.0455,0,-97.299 0/1:189:99,90:99:3487:90:3228:-213.612,0,-255.28 0/1:191:114,77:114:4037:77:2756:-179.979,0,-304.659 1/1:165:0,165:0:0:165:5885:-517.714,-49.67,0 1/1:16:0,16:0:0:16:576:-50.0295,-4.81648,0 0/1:4:3,1:3:104:1:36:-2.18348,0,-8.47225 0/1:11:9,2:9:320:2:72:-3.2522,0,-25.7339 0/1:107:48,59:48:1698:59:2099:-147.845,0,-120.278 0/1:143:78,65:78:2738:65:2307:-157.697,0,-203.092 0/1:169:69,100:69:2438:100:3588:-261.445,0,-168.583 0/1:114:47,67:47:1671:67:2400:-176.044,0,-116.011 0/1:116:63,53:63:2233:53:1896:-131.56,0,-165.845 0/1:92:51,41:51:1819:41:1463:-98.4119,0,-135.891 0/1:47:20,27:20:712:27:953:-68.4961,0,-50.2062 1/1:144:0,144:0:0:144:5089:-437.341,-43.3483,0 1/1:65:0,65:0:0:65:2258:-191.332,-19.567,0 chr12 4219667 . TCAA TCGG,TCAG 54365.2 PASS AB=0.449778,0.544444;ABP=52.3037,41.6143;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1486,1227;CIGAR=2M2X,3M1X;DP=2729;DPB=2728.5;DPRA=0,2.43689;EPP=3229.82,2667.41;EPPR=0;GTI=0;LEN=2,1;MEANALT=2.42857,2.57895;MQM=51.5081,57.564;MQMR=0;NS=21;NUMALT=2;ODDS=5.74279;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=52089,43758;QR=0;RO=0;RPL=1486,1227;RPP=3229.82,2667.41;RPPR=0;RPR=0,0;RUN=1,1;SAF=1486,1227;SAP=3229.82,2667.41;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:37:0,20,17:0:0:20,17:683,612:-105.606,-50.2959,-44.2753,-55.6612,0,-50.5436 1/2:24:0,14,10:0:0:14,10:497,360:-69.5582,-29.6488,-25.4344,-40.2647,0,-37.2544 1/2:43:0,17,25:0:0:17,25:577,888:-119.038,-72.3534,-67.2359,-46.6766,0,-39.1509 1/2:77:0,30,47:0:0:30,47:1058,1683:-223.575,-137.6,-128.569,-86.3288,0,-72.1803 1/2:115:0,58,57:0:0:58,57:2041,2036:-331.775,-166.341,-148.881,-165.788,0,-148.629 1/2:34:0,16,18:0:0:16,18:552,625:-95.2719,-51.0242,-46.2078,-44.591,0,-39.1725 1/2:92:0,45,46:0:0:45,46:1587,1644:-259.498,-133.15,-119.604,-126.348,0,-112.501 1/2:51:0,30,21:0:0:30,21:1071,752:-148.866,-61.6837,-52.6528,-87.5398,0,-81.2182 1/1:96:0,96,0:0:0:96,0:3356,0:-301.728,-28.8989,0,-301.728,-28.8989,-301.728 1/1:307:0,306,1:0:0:306,1:10724,36:-961.55,-92.1152,0,-958.613,-88.8189,-958.312 1/2:454:0,211,243:0:0:211,243:7336,8669:-1288.97,-703.446,-639.929,-585.875,0,-512.724 1/2:438:0,206,230:0:0:206,230:7268,8229:-1261.21,-670.854,-608.842,-590.347,0,-521.11 1/2:45:0,20,25:0:0:20,25:720,883:-130.732,-72.2555,-66.2349,-58.8323,0,-51.3065 1/2:48:0,20,28:0:0:20,28:705,992:-138.453,-81.1638,-75.1432,-57.6418,0,-49.213 1/2:126:0,48,77:0:0:48,77:1675,2738:-358.903,-223.126,-208.677,-135.774,0,-112.595 1/2:29:0,7,21:0:0:7,21:252,747:-81.3872,-60.8565,-58.7493,-20.5301,0,-14.2085 1/2:68:0,24,44:0:0:24,44:849,1576:-197.926,-128.883,-121.658,-69.3974,0,-56.1521 1/2:539:0,230,302:0:0:230,302:8030,10756:-1527.1,-876.028,-806.791,-651.101,0,-560.19 1/2:30:0,16,14:0:0:16,14:568,496:-86.8484,-40.7598,-35.9434,-46.4424,0,-42.2279 1/1:59:0,55,1:0:0:55,1:1951,36:-174.742,-16.5567,0,-171.804,-13.6156,-171.503 1/1:17:0,17,0:0:0:17,0:589,0:-52.71,-5.11751,0,-52.71,-5.11751,-52.71 chr12 4219823 . ACAAAAAT ACGAAAG,ATGAAAG 35601.7 PASS AB=0.464832,0.527217;ABP=20.5747,13.5303;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1073,862;CIGAR=2M1D1X3M1X,1M1D2X3M1X;DP=1951;DPB=1707.38;DPRA=0,1.21742;EPP=2333,1874.82;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.57143,2.76471;MQM=47.5275,34.4733;MQMR=0;NS=21;NUMALT=2;ODDS=6.16607;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=37861,30449;QR=0;RO=0;RPL=1073,862;RPP=2333,1874.82;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2333,1874.82;SAR=1073,862;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:118:0,64,54:0:0:64,54:2265,1906:-324.021,-141.381,-122.115,-182.976,0,-166.721 1/2:19:0,9,10:0:0:9,10:322,338:-49.2411,-23.3393,-20.63,-26.2247,0,-23.2144 1/2:115:0,60,55:0:0:60,55:2127,1962:-315.113,-143.036,-124.974,-172.413,0,-155.857 1/2:122:0,52,69:0:0:52,69:1831,2436:-328.031,-179.829,-164.175,-148.245,0,-127.473 1/2:199:0,82,116:0:0:82,116:2877,4127:-537.317,-305.256,-280.572,-232.176,0,-197.256 1/2:241:0,119,120:0:0:119,120:4192,4225:-625.006,-288.965,-253.143,-336.109,0,-299.986 1/2:140:0,67,71:0:0:67,71:2353,2527:-357.981,-169.876,-149.707,-188.202,0,-166.829 1/2:81:0,47,33:0:0:47,33:1663,1153:-214.792,-80.9029,-66.7545,-133.963,0,-124.029 1/1:184:0,184,0:0:0:184,0:6535,0:-582.139,-55.3895,0,-582.139,-55.3895,-582.139 1/1:13:0,12,0:0:0:12,0:414,0:-36.6833,-3.61236,0,-36.6833,-3.61236,-36.6833 1/2:4:0,1,2:0:0:1,2:36,72:-7.37478,-4.92332,-4.62229,-2.46846,0,-1.8664 1/2:33:0,11,22:0:0:11,22:395,781:-87.0765,-55.6146,-52.3033,-31.8002,0,-25.1775 1/2:163:0,72,89:0:0:72,89:2535,3156:-434.796,-231.616,-209.942,-203.213,0,-176.421 1/2:101:0,50,50:0:0:50,50:1728,1713:-265.502,-126.284,-111.233,-139.189,0,-124.138 1/2:154:0,65,87:0:0:65,87:2292,3075:-410.077,-224.83,-205.263,-185.266,0,-159.077 1/2:33:0,11,22:0:0:11,22:395,789:-92.753,-60.6123,-57.301,-32.492,0,-25.8694 1/2:57:0,24,33:0:0:24,33:850,1166:-155.861,-86.9792,-79.7545,-69.2223,0,-59.2883 1/2:29:0,13,16:0:0:13,16:453,561:-75.6022,-39.3964,-35.483,-36.5316,0,-31.7151 1/2:26:0,13,13:0:0:13,13:466,462:-70.182,-33.1364,-29.223,-37.3775,0,-33.4641 1/1:91:0,91,0:0:0:91,0:3233,0:-287.095,-27.3937,0,-287.095,-27.3937,-287.095 1/1:28:0,26,0:0:0:26,0:899,0:-79.0842,-7.82678,0,-79.0842,-7.82678,-79.0842 chr12 4219906 . G A 20683.9 PASS AB=0.318166;ABP=855.089;AC=24;AF=0.571429;AN=42;AO=1332;CIGAR=1X;DP=3365;DPB=3365;DPRA=18.6444;EPP=2895.41;EPPR=4415.44;GTI=2;LEN=1;MEANALT=1.05;MQM=49.1276;MQMR=50.0217;NS=21;NUMALT=1;ODDS=10.6485;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47465;QR=71560;RO=2032;RPL=0;RPP=2895.41;RPPR=6.6052;RPR=1332;RUN=1;SAF=0;SAP=2895.41;SAR=1332;SRF=1045;SRP=6.6052;SRR=987;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:226:160,66:160:5671:66:2360:-143.474,0,-434.21 0/1:208:133,75:133:4677:75:2691:-178.175,0,-351.771 0/1:136:76,60:76:2673:60:2156:-151.768,0,-195.079 0/1:182:134,48:134:4734:48:1720:-99.5906,0,-358.963 0/1:409:285,124:285:10065:124:4386:-268.74,0,-765.231 0/1:171:102,69:102:3578:69:2460:-168.401,0,-266.149 0/1:368:255,113:255:8952:113:4031:-249.591,0,-683.685 0/1:144:110,34:110:3842:34:1224:-65.6302,0,-295.536 1/1:205:0,205:0:0:205:7326:-654.442,-61.7112,0 1/1:6:0,6:0:0:6:216:-19.7068,-1.80618,0 0/0:9:9,0:9:311:0:0:0,-2.70927,-27.9383 0/1:31:26,5:26:932:5:180:-7.1501,0,-73.1665 0/1:188:153,35:153:5355:35:1243:-55.1275,0,-414.902 0/1:160:102,58:102:3613:58:2073:-137.046,0,-274.079 0/1:241:158,83:158:5598:83:2960:-192.59,0,-423.507 0/1:151:106,45:106:3748:45:1594:-97.1289,0,-282.537 0/1:184:116,67:116:4073:67:2386:-158.171,0,-300.11 0/1:78:53,25:53:1832:25:873:-54.8879,0,-137.84 0/1:90:53,37:53:1870:37:1319:-91.3857,0,-138.397 1/1:123:1,122:1:36:122:4335:-383.719,-33.546,0 1/1:55:0,55:0:0:55:1932:-172.483,-16.5567,0 chr12 4219912 . T C 20143.5 PASS AB=0.311163;ABP=929.733;AC=24;AF=0.571429;AN=42;AO=1314;CIGAR=1X;DP=3385;DPB=3385;DPRA=18.7556;EPP=2856.33;EPPR=4500.13;GTI=2;LEN=1;MEANALT=1;MQM=49.1895;MQMR=50.0748;NS=21;NUMALT=1;ODDS=6.76809;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46801;QR=74264;RO=2071;RPL=0;RPP=2856.33;RPPR=5.52778;RPR=1314;RUN=1;SAF=0;SAP=2856.33;SAR=1314;SRF=1060;SRP=5.52778;SRR=1011;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:231:166,65:166:5968:65:2332:-139.195,0,-459.542 0/1:206:133,73:133:4769:73:2605:-171.123,0,-360.335 0/1:136:76,60:76:2728:60:2144:-150.714,0,-199.663 0/1:186:139,47:139:4985:47:1684:-95.1531,0,-379.126 0/1:421:300,121:300:10730:121:4297:-256.89,0,-819.456 0/1:175:107,68:107:3836:68:2423:-163.968,0,-287.199 0/1:371:261,110:261:9356:110:3944:-240.599,0,-717.196 0/1:145:111,34:111:3992:34:1220:-64.9771,0,-307.831 1/1:206:0,206:0:0:206:7320:-654.4,-62.0122,0 1/1:6:0,6:0:0:6:212:-19.3494,-1.80618,0 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.0705 0/1:31:26,5:26:932:5:176:-6.79142,0,-73.2269 0/1:190:156,34:156:5600:34:1220:-52.4519,0,-435.233 0/1:158:102,56:102:3656:56:1976:-129.382,0,-278.517 0/1:240:157,83:157:5640:83:2952:-192.193,0,-426.628 0/1:150:104,46:104:3736:46:1652:-102.401,0,-282.021 0/1:181:115,66:115:4128:66:2355:-156.342,0,-305.669 0/1:79:54,25:54:1923:25:870:-54.3384,0,-144.993 0/1:92:54,38:54:1925:38:1359:-94.1485,0,-141.961 1/1:120:1,119:1:36:119:4221:-374.608,-32.6429,0 1/1:52:0,52:0:0:52:1839:-164.473,-15.6536,0 chr12 4219943 . ATTC TTTT 24543 PASS AB=0.484604;ABP=7.08907;AC=24;AF=0.571429;AN=42;AO=1357;CIGAR=1X2M1X;DP=2384;DPB=2384.75;DPRA=29.75;EPP=2949.7;EPPR=2224.43;GTI=1;LEN=4;MEANALT=1.15;MQM=49.0833;MQMR=60;NS=21;NUMALT=1;ODDS=4.39813;PAIRED=0;PAIREDR=0;PAO=2;PQA=72;PQR=0;PRO=0;QA=48127;QR=36166;RO=1023;RPL=1357;RPP=2949.7;RPPR=2224.43;RPR=0;RUN=1;SAF=0;SAP=2949.7;SAR=1357;SRF=0;SRP=2224.43;SRR=1023;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:166:98,68:98:3463:68:2425:-166.977,0,-261.912 0/1:136:62,74:62:2183:74:2637:-195.062,0,-155.797 0/1:98:37,61:37:1308:61:2155:-163.184,0,-88.5205 0/1:89:40,49:40:1401:49:1734:-128.886,0,-99.5945 0/1:270:144,126:144:5095:126:4475:-317.648,0,-377.062 0/1:126:56,70:56:1988:70:2453:-181.66,0,-141.263 0/1:277:162,115:162:5717:115:4075:-281.061,0,-431.268 0/1:79:44,35:44:1542:35:1243:-86.9193,0,-115.288 1/1:212:0,210:0:0:210:7449:-664.925,-63.2163,0 1/1:6:0,6:0:0:6:215:-19.6183,-1.80618,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:15:10,5:10:358:5:178:-11.7889,0,-28.0475 0/1:104:68,36:68:2392:36:1285:-84.1758,0,-184.23 0/1:134:74,59:74:2617:59:2097:-147.103,0,-195.433 0/1:175:90,84:90:3208:84:2994:-215.485,0,-236.209 0/1:91:45,46:45:1591:46:1636:-118.909,0,-116.086 0/1:121:52,69:52:1844:69:2429:-181.06,0,-129.815 0/1:39:14,25:14:493:25:880:-66.8432,0,-32.9615 0/1:61:23,38:23:822:38:1364:-103.93,0,-55.9403 1/1:125:0,125:0:0:125:4401:-393.612,-37.6288,0 1/1:56:0,56:0:0:56:2002:-178.736,-16.8577,0 chr12 4705302 . C T 8521.5 PASS AB=0.480823;ABP=6.42494;AC=17;AF=0.404762;AN=42;AO=516;CIGAR=1X;DP=1200;DPB=1200;DPRA=2.47261;EPP=1114.82;EPPR=1475.28;GTI=0;LEN=1;MEANALT=1.10526;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.55062;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18441;QR=24351;RO=682;RPL=0;RPP=1123.49;RPPR=1483.95;RPR=516;RUN=1;SAF=515;SAP=1114.82;SAR=1;SRF=681;SRP=1475.28;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:27,26:27:972:26:932:-68.2443,0,-71.8433 0/1:77:33,44:33:1184:44:1576:-118.952,0,-83.689 0/1:35:17,18:17:595:18:640:-47.3933,0,-43.3406 0/1:90:47,43:47:1688:43:1535:-111.35,0,-125.114 0/1:171:90,80:90:3220:80:2851:-205.402,0,-238.596 0/1:26:10,16:10:356:16:572:-43.9866,0,-24.5545 0/1:67:43,24:43:1544:24:860:-57.5528,0,-119.084 0/1:81:33,48:33:1180:48:1710:-129.801,0,-82.1246 0/0:31:30,1:30:1080:1:36:0,-5.73365,-93.915 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 0/1:16:7,9:7:252:9:324:-24.6894,0,-18.2125 0/1:41:16,25:16:557:25:892:-68.2575,0,-38.1133 0/1:73:36,36:36:1276:36:1281:-93.5574,0,-93.1092 0/1:104:53,51:53:1881:51:1824:-133.133,0,-138.26 0/1:56:29,27:29:1027:27:972:-70.9402,0,-75.8845 0/1:31:21,10:21:748:10:360:-23.4124,0,-58.3134 0/1:75:44,31:44:1575:31:1108:-77.4537,0,-119.464 0/1:69:45,24:45:1608:24:864:-57.3115,0,-124.239 0/0:51:50,1:50:1788:1:36:0,-11.7543,-157.604 0/0:45:45,0:45:1604:0:0:0,-13.5463,-144.65 chr12 4891052 . T C 6500.61 PASS AB=0.467667;ABP=10.8737;AC=17;AF=0.404762;AN=42;AO=409;CIGAR=1X;DP=1045;DPB=1045;DPRA=1.29692;EPP=891.143;EPPR=1349.54;GTI=0;LEN=1;MEANALT=1;MQM=59.9902;MQMR=59.9874;NS=21;NUMALT=1;ODDS=15.2223;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=14537;QR=22714;RO=636;RPL=409;RPP=891.143;RPPR=1332.44;RPR=0;RUN=1;SAF=409;SAP=891.143;SAR=0;SRF=626;SRP=1298.57;SRR=10;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:43:23,20:23:824:20:704:-50.7389,0,-61.539 0/1:26:15,11:15:532:11:396:-28.156,0,-40.3863 0/1:32:19,13:19:680:13:456:-31.7403,0,-51.8962 0/1:34:17,17:17:574:17:608:-44.817,0,-41.741 0/1:76:42,34:42:1512:34:1187:-84.2516,0,-113.496 0/1:53:28,25:28:1000:25:891:-64.5542,0,-74.3608 0/1:57:25,32:25:900:32:1143:-86.02,0,-64.1623 0/1:44:17,27:17:604:27:968:-74.192,0,-41.4453 0/0:68:68,0:68:2417:0:0:0,-20.47,-217.785 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:25:14,11:14:500:11:392:-28.0943,0,-37.8104 0/1:57:24,33:24:860:33:1175:-88.8982,0,-60.5631 0/1:110:39,71:39:1404:71:2532:-195.018,0,-93.546 0/1:75:50,25:50:1796:25:896:-58.3831,0,-139.345 0/1:20:13,7:13:468:7:248:-16.6436,0,-36.439 0/1:27:19,8:19:680:8:288:-18.1396,0,-53.4014 0/1:108:69,39:69:2472:39:1385:-92.4356,0,-190.223 0/1:72:46,26:46:1638:26:919:-61.3512,0,-126.033 0/0:60:56,4:56:1981:4:133:0,-5.76421,-166.257 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 chr12 5027825 . T C 41350.6 PASS AB=0.476134;ABP=24.0506;AC=17;AF=0.404762;AN=42;AO=2027;CIGAR=1X;DP=4969;DPB=4969;DPRA=4.64976;EPP=4404.58;EPPR=6384.97;GTI=0;LEN=1;MEANALT=1.10526;MQM=46.2314;MQMR=47.5213;NS=21;NUMALT=1;ODDS=13.6301;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72245;QR=104914;RO=2939;RPL=1009;RPP=3.09707;RPPR=45.214;RPR=1018;RUN=1;SAF=1009;SAP=3.09707;SAR=1018;SRF=1589;SRP=45.214;SRR=1350;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:265:131,134:131:4685:134:4781:-329.401,0,-326.18 0/1:306:165,141:165:5895:141:5029:-335.794,0,-400.398 0/1:155:80,75:80:2872:75:2663:-177.981,0,-201.266 0/1:311:151,159:151:5400:159:5627:-391.874,0,-379 0/1:463:237,226:237:8470:226:8073:-539.756,0,-585.388 0/1:252:119,133:119:4244:133:4767:-318.444,0,-272.614 0/1:375:214,161:214:7621:161:5717:-350.953,0,-504.32 0/1:306:169,137:169:6042:137:4897:-300.049,0,-394.315 0/0:383:382,1:382:13668:1:36:0,-111.995,-1169.74 0/0:17:17,0:17:608:0:0:0,-5.11751,-49.3589 0/1:13:10,3:10:360:3:108:-4.21435,0,-22.5018 0/1:59:28,31:28:1008:31:1085:-69.2389,0,-61.9756 0/1:290:139,151:139:4956:151:5419:-373.728,0,-345.185 0/1:251:138,113:138:4933:113:3997:-255.643,0,-339.625 0/1:486:257,229:257:9178:229:8173:-530.633,0,-618.546 0/1:220:110,110:110:3922:110:3903:-270.439,0,-272.314 0/1:219:112,107:112:3972:107:3819:-260.721,0,-278.248 0/1:130:62,68:62:2205:68:2436:-167.307,0,-145.597 0/1:152:105,47:105:3768:47:1679:-97.4415,0,-275.413 0/0:223:221,1:221:7842:1:36:0,-64.0818,-654.683 0/0:93:92,0:92:3265:0:0:0,-27.6948,-273.563 chr12 5027829 . C T 67159.7 PASS AB=0.528555;ABP=33.145;AC=25;AF=0.595238;AN=42;AO=2965;CIGAR=1X;DP=4973;DPB=4973;DPRA=0;EPP=6441.43;EPPR=4363.33;GTI=0;LEN=1;MEANALT=1;MQM=47.4651;MQMR=46.3287;NS=21;NUMALT=1;ODDS=10.1255;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=105892;QR=71160;RO=2008;RPL=1599;RPP=42.7698;RPPR=3.01463;RPR=1366;RUN=1;SAF=1599;SAP=42.7698;SAR=1366;SRF=1003;SRP=3.01463;SRR=1005;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:270:138,132:138:4909:132:4712:-326.734,0,-339.165 0/1:310:143,167:143:5048:167:5957:-404.122,0,-336.886 0/1:155:74,81:74:2581:81:2894:-202.875,0,-171.636 0/1:303:153,150:153:5441:150:5347:-376.529,0,-380.413 0/1:463:225,238:225:7990:238:8507:-589.26,0,-533 0/1:252:132,120:132:4663:120:4285:-275.607,0,-309.403 0/1:379:159,220:159:5621:220:7860:-522.195,0,-342.811 0/1:304:132,172:132:4710:172:6160:-403.804,0,-285.16 1/1:386:1,385:1:36:385:13772:-1178.06,-112.899,0 1/1:18:0,18:0:0:18:648:-52.9608,-5.41854,0 0/1:15:3,12:3:108:12:432:-26.8938,0,-3.61229 0/1:57:29,28:29:1014:28:1000:-62.0767,0,-64.136 0/1:295:152,143:152:5422:143:5108:-357.726,0,-372.596 0/1:249:111,138:111:3934:138:4927:-340.235,0,-250.797 0/1:485:230,255:230:8141:255:9139:-615.417,0,-529.127 0/1:219:106,113:106:3788:113:4047:-281.456,0,-260.451 0/1:218:106,112:106:3744:112:3989:-279.818,0,-252.402 0/1:127:66,61:66:2332:61:2166:-143.367,0,-160.482 0/1:154:47,107:47:1642:107:3822:-277.957,0,-93.569 1/1:222:1,221:1:36:221:7853:-654.133,-63.7741,0 1/1:92:0,92:0:0:92:3267:-273.738,-27.6948,0 chr12 5621917 . A G 9326.79 PASS AB=0.388125;ABP=176.951;AC=17;AF=0.404762;AN=42;AO=621;CIGAR=1X;DP=1839;DPB=1839;DPRA=1.57519;EPP=1342.82;EPPR=2630.52;GTI=0;LEN=1;MEANALT=1;MQM=59.5282;MQMR=56.4507;NS=21;NUMALT=1;ODDS=1.05099;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22208;QR=43603;RO=1218;RPL=620;RPP=1342.82;RPPR=2630.52;RPR=1;RUN=1;SAF=0;SAP=1351.49;SAR=621;SRF=0;SRP=2647.86;SRR=1218;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:85,65:85:3044:65:2323:-163.525,0,-227.846 0/1:57:35,22:35:1256:22:788:-54.0861,0,-96.019 0/1:73:49,24:49:1737:24:856:-55.385,0,-134.071 0/1:70:45,25:45:1620:25:896:-59.8859,0,-124.7 0/1:139:63,76:63:2264:76:2728:-203.866,0,-161.824 0/1:72:51,21:51:1813:21:752:-46.3321,0,-141.331 0/1:128:73,55:73:2615:55:1946:-136.852,0,-196.741 0/1:75:53,22:53:1896:22:784:-48.3034,0,-148.131 0/0:120:120,0:120:4292:0:0:0,-36.1236,-385.248 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.0162 0/1:7:4,3:4:144:3:108:-7.94975,0,-11.2002 0/1:36:17,19:17:612:19:680:-50.6842,0,-44.5441 0/1:66:48,18:48:1720:18:644:-38.4203,0,-135.145 0/1:85:61,24:61:2192:24:852:-51.4077,0,-171.619 0/1:315:203,112:203:7261:112:4016:-266.782,0,-557.484 0/1:71:43,28:43:1548:28:1008:-69.6632,0,-118.219 0/1:106:62,44:62:2205:44:1567:-108.708,0,-166.472 0/1:89:43,46:43:1544:46:1648:-121.683,0,-112.091 0/1:61:44,17:44:1569:17:612:-37.0472,0,-122.743 0/0:72:72,0:72:2579:0:0:0,-21.6742,-230.482 0/0:40:40,0:40:1440:0:0:0,-12.0412,-129.624 chr12 5621933 . CTGC TTGG 22859.1 PASS AB=0.608267;ABP=168.049;AC=25;AF=0.595238;AN=42;AO=1229;CIGAR=1X2M1X;DP=1866;DPB=1866.5;DPRA=0;EPP=2671.75;EPPR=1373.21;GTI=0;LEN=4;MEANALT=1.2381;MQM=56.3857;MQMR=59.4612;NS=21;NUMALT=1;ODDS=0.782361;PAIRED=0;PAIREDR=0;PAO=2;PQA=36;PQR=0;PRO=0;QA=43550;QR=22390;RO=631;RPL=1229;RPP=2671.75;RPPR=1373.21;RPR=0;RUN=1;SAF=0;SAP=2671.75;SAR=1229;SRF=0;SRP=1373.21;SRR=631;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:66,84:66:2321:84:2973:-221.352,0,-163.509 0/1:58:22,36:22:775:36:1276:-97.5342,0,-52.612 0/1:75:25,50:25:878:50:1756:-135.241,0,-56.7581 0/1:70:26,44:26:921:44:1581:-121.221,0,-62.1325 0/1:141:77,64:77:2739:64:2282:-162.876,0,-204.064 0/1:73:22,51:22:783:51:1803:-140.303,0,-48.8188 0/1:128:55,73:55:1951:73:2586:-194.085,0,-136.931 0/1:78:22,56:22:775:56:1974:-154.286,0,-46.5896 1/1:123:0,122:0:0:122:4307:-386.388,-36.7257,0 1/1:8:0,8:0:0:8:286:-26.0723,-2.40824,0 0/1:7:3,4:3:106:4:144:-11.2002,0,-7.76741 0/1:35:20,14:20:714:14:489:-33.8032,0,-54.0127 0/1:66:19,47:19:660:47:1674:-131.011,0,-39.8518 0/1:87:24,63:24:858:63:2232:-174.675,0,-51.3465 0/1:323:113,210:113:4024:210:7417:-569.372,0,-265.099 0/1:72:29,43:29:1029:43:1538:-116.991,0,-71.2489 0/1:107:45,62:45:1602:62:2189:-164.867,0,-111.556 0/1:89:46,43:46:1643:43:1544:-112.091,0,-121.276 0/1:61:17,42:17:611:42:1466:-113.908,0,-37.1993 1/1:74:0,73:0:0:73:2611:-232.892,-21.9752,0 1/1:40:0,40:0:0:40:1422:-128.006,-12.0412,0 chr12 5645129 . T C 9604.51 PASS AB=0.428471;ABP=66.0718;AC=17;AF=0.404762;AN=42;AO=609;CIGAR=1X;DP=1680;DPB=1680;DPRA=1.7;EPP=1325.44;EPPR=2328.66;GTI=0;LEN=1;MEANALT=1;MQM=59.9918;MQMR=59.9991;NS=21;NUMALT=1;ODDS=6.54405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21808;QR=38198;RO=1071;RPL=609;RPP=1325.44;RPPR=2328.66;RPR=0;RUN=1;SAF=0;SAP=1325.44;SAR=609;SRF=0;SRP=2328.66;SRR=1071;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:57,32:57:2028:32:1152:-77.1985,0,-156.001 0/1:58:30,28:30:1080:28:1008:-73.5766,0,-80.0535 0/1:92:63,29:63:2244:29:1044:-66.58,0,-174.529 0/1:115:85,30:85:3018:30:1068:-61.8136,0,-237.23 0/1:184:109,75:109:3904:75:2673:-185.425,0,-296.164 0/1:101:49,52:49:1737:52:1872:-138.355,0,-126.209 0/1:159:85,74:85:3037:74:2644:-190.343,0,-225.695 0/1:65:23,42:23:813:42:1502:-115.906,0,-53.9222 0/0:85:85,0:85:3032:0:0:0,-25.5875,-273.111 0/0:14:14,0:14:485:0:0:0,-4.21442,-43.977 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:21:8,13:8:288:13:468:-36.138,0,-19.9458 0/1:85:46,39:46:1637:39:1400:-100.712,0,-122.029 0/1:66:32,34:32:1133:34:1224:-90.5991,0,-82.4087 0/1:100:58,42:58:2061:42:1504:-105.552,0,-155.656 0/1:59:34,25:34:1216:25:888:-62.4783,0,-91.9858 0/1:61:32,29:32:1152:29:1044:-75.912,0,-85.6273 0/1:96:56,40:56:2004:40:1432:-100.279,0,-151.735 0/1:62:41,21:41:1472:21:741:-48.3486,0,-114.112 0/0:111:110,1:110:3917:1:36:0,-29.8161,-349.125 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.161 chr12 5723663 . A G 4055.24 PASS AB=0.43514;ABP=25.2634;AC=17;AF=0.404762;AN=42;AO=267;CIGAR=1X;DP=824;DPB=824;DPRA=1.13383;EPP=582.793;EPPR=1212.52;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9928;NS=21;NUMALT=1;ODDS=4.61204;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9523;QR=19890;RO=557;RPL=0;RPP=582.793;RPPR=1212.52;RPR=267;RUN=1;SAF=0;SAP=582.793;SAR=267;SRF=0;SRP=1212.52;SRR=557;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:14,11:14:489:11:392:-28.0943,0,-36.8131 0/1:22:19,3:19:684:3:108:-3.45251,0,-55.2677 0/1:50:30,20:30:1046:20:720:-50.0773,0,-79.392 0/1:46:33,13:33:1184:13:468:-28.6123,0,-93.0209 0/1:66:28,38:28:1004:38:1336:-100.669,0,-70.8079 0/1:30:19,11:19:680:11:392:-26.5892,0,-52.4983 0/1:68:30,38:30:1080:38:1352:-101.51,0,-77.0432 0/1:41:20,21:20:716:21:756:-56.025,0,-52.4255 0/0:113:112,1:112:4002:1:36:0,-30.4181,-356.771 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:31:9,22:9:315:22:788:-61.9129,0,-19.3553 0/1:54:40,14:40:1421:14:504:-29.4425,0,-111.93 0/1:41:27,14:27:972:14:500:-32.9939,0,-75.4557 0/1:41:24,17:24:864:17:612:-43.0712,0,-65.7403 0/1:7:3,4:3:108:4:129:-9.82045,0,-7.96796 0/1:7:4,3:4:144:3:104:-7.5956,0,-11.2064 0/1:38:18,20:18:648:20:714:-53.1482,0,-47.2127 0/1:38:25,13:25:900:13:468:-31.0205,0,-69.8819 0/0:61:61,0:61:2161:0:0:0,-18.3628,-194.756 0/0:32:31,1:31:1112:1:36:0,-6.03468,-96.7931 chr12 6342110 . A G 34878 PASS AB=0.535904;ABP=34.6637;AC=17;AF=0.404762;AN=42;AO=1518;CIGAR=1X;DP=3349;DPB=3349;DPRA=0.832307;EPP=3281.96;EPPR=3965.95;GTI=0;LEN=1;MEANALT=1.10526;MQM=59.6449;MQMR=59.9694;NS=21;NUMALT=1;ODDS=7.24124;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53705;QR=64843;RO=1829;RPL=791;RPP=8.86956;RPPR=17.6384;RPR=727;RUN=1;SAF=789;SAP=8.16004;SAR=729;SRF=858;SRP=18.1702;SRR=971;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:80,70:80:2837:70:2491:-178.65,0,-210.411 0/1:143:67,76:67:2370:76:2703:-200.219,0,-170.511 0/1:148:73,75:73:2593:75:2666:-195.443,0,-189.065 0/1:178:92,86:92:3247:86:3046:-220.768,0,-238.868 0/1:379:165,214:165:5866:214:7577:-567.864,0,-413.965 0/1:198:90,108:90:3203:108:3816:-283.741,0,-228.89 0/1:229:103,126:103:3653:126:4440:-330.793,0,-259.77 0/1:161:66,94:66:2321:94:3335:-251.831,0,-160.625 0/0:268:268,0:268:9534:0:0:0,-80.676,-857.75 0/0:43:40,2:40:1416:2:72:0,-6.16636,-120.901 0/1:13:3,10:3:108:10:353:-28.1952,0,-6.16178 0/1:62:24,38:24:832:38:1360:-104.037,0,-56.5329 0/1:226:96,130:96:3428:130:4565:-342.888,0,-240.702 0/1:151:68,83:68:2420:83:2888:-214.644,0,-172.601 0/1:227:90,137:90:3182:137:4872:-370.296,0,-218.272 0/1:131:69,62:69:2468:62:2196:-158.467,0,-182.939 0/1:102:52,50:52:1843:50:1770:-128.557,0,-135.444 0/1:213:97,116:97:3429:116:4109:-305.868,0,-244.706 0/1:116:76,40:76:2688:40:1410:-92.2693,0,-207.247 0/0:108:108,0:108:3830:0:0:0,-32.5112,-344.899 0/0:103:102,1:102:3575:1:36:0,-27.4078,-318.363 chr12 6342163 . G A 16550.4 PASS AB=0.490763;ABP=3.93296;AC=25;AF=0.595238;AN=42;AO=893;CIGAR=1X;DP=1532;DPB=1532;DPRA=0;EPP=1942.14;EPPR=1390.58;GTI=0;LEN=1;MEANALT=1;MQM=59.9339;MQMR=59.964;NS=21;NUMALT=1;ODDS=7.69135;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31864;QR=22787;RO=639;RPL=0;RPP=1942.14;RPPR=1390.58;RPR=893;RUN=1;SAF=893;SAP=1942.14;SAR=0;SRF=639;SRP=1390.58;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:102:48,54:48:1709:54:1891:-139.733,0,-123.389 0/1:63:30,33:30:1042:33:1169:-86.5504,0,-75.1206 0/1:55:19,36:19:680:36:1292:-100.027,0,-44.9725 0/1:66:29,37:29:1009:37:1322:-99.4134,0,-71.251 0/1:66:38,28:38:1349:28:987:-69.2736,0,-101.84 0/1:77:28,49:28:985:49:1744:-134.065,0,-65.7822 0/1:87:59,28:59:2116:28:1000:-64.1258,0,-164.413 0/1:102:56,46:56:2004:46:1652:-118.263,0,-149.928 1/1:127:0,127:0:0:127:4553:-409.934,-38.2308,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:8:6,2:6:216:2:72:-4.42848,0,-17.3823 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/1:103:63,40:63:2268:40:1440:-98.8916,0,-173.376 0/1:108:64,44:64:2304:44:1561:-108.268,0,-175.109 0/1:102:52,50:52:1868:50:1781:-129.866,0,-137.692 0/1:54:29,25:29:1036:25:881:-63.3502,0,-77.2983 0/1:25:10,15:10:360:15:540:-41.4108,0,-25.2186 0/1:95:54,41:54:1924:41:1468:-103.818,0,-144.839 0/1:112:39,73:39:1381:73:2594:-199.988,0,-90.8714 1/1:85:3,82:3:108:82:2940:-254.759,-15.5124,0 1/1:69:2,67:2:68:67:2401:-209.618,-14.3134,0 chr12 6342246 . A G 12619.4 PASS AB=0.579371;ABP=70.9174;AC=17;AF=0.404762;AN=42;AO=720;CIGAR=1X;DP=1456;DPB=1456;DPRA=1.21212;EPP=1566.47;EPPR=1601.21;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=4.26932;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25741;QR=26340;RO=736;RPL=720;RPP=1566.47;RPPR=1601.21;RPR=0;RUN=1;SAF=0;SAP=1566.47;SAR=720;SRF=0;SRP=1601.21;SRR=736;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:34,47:34:1216:47:1688:-127.824,0,-85.3631 0/1:86:34,52:34:1220:52:1864:-142.151,0,-84.2182 0/1:67:35,32:35:1237:32:1152:-83.8211,0,-91.4633 0/1:110:33,77:33:1188:77:2759:-215.438,0,-74.1153 0/1:147:61,86:61:2192:86:3072:-232.458,0,-153.294 0/1:29:13,16:13:464:16:562:-42.1787,0,-33.3676 0/1:112:55,57:55:1949:57:2033:-149.526,0,-141.969 0/1:71:26,45:26:928:45:1616:-124.357,0,-62.4651 0/0:95:95,0:95:3412:0:0:0,-28.5978,-307.293 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:21:15,6:15:540:6:216:-13.4689,0,-42.6149 0/1:63:16,47:16:572:47:1688:-133.242,0,-32.8485 0/1:85:31,54:31:1116:54:1910:-146.587,0,-75.1641 0/1:92:32,60:32:1152:60:2148:-165.893,0,-76.2954 0/1:27:10,17:10:360:17:597:-45.9283,0,-24.6165 0/1:56:21,35:21:744:35:1252:-96.1274,0,-50.4266 0/1:95:43,52:43:1544:52:1872:-140.161,0,-110.655 0/1:95:62,33:62:2232:33:1172:-77.1896,0,-172.546 0/0:39:38,1:38:1364:1:36:0,-8.14189,-119.462 0/0:76:76,0:76:2694:0:0:0,-22.8783,-242.702 chr12 7080067 . GTTTTTCTTGTCTTAC GTTCTTCTTGTC,GTTCTTGTC 63108.7 PASS AB=0.48552,0.507329;ABP=8.10398,4.31536;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1844,1423;CIGAR=3M1X7M4D1M,1M3D7M4D1M;DP=3293;DPB=2202.5;DPRA=0,1.14611;EPP=4007.21,3093.02;EPPR=0;GTI=0;LEN=12,9;MEANALT=3.04762,3.10526;MQM=59.6367,41.8925;MQMR=0;NS=21;NUMALT=2;ODDS=2.33686;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64517,49401;QR=0;RO=0;RPL=0,0;RPP=4007.21,3093.02;RPPR=0;RPR=1844,1423;RUN=1,1;SAF=1844,1423;SAP=4007.21,3093.02;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:237:0,134,102:0:0:134,102:4716,3516:-663.182,-279.316,-238.978,-383.85,0,-353.145 1/2:168:0,84,83:0:0:84,83:2929,2874:-459.996,-221.81,-196.523,-238.206,0,-213.221 1/2:189:0,87,102:0:0:87,102:3059,3530:-529.475,-280.484,-254.295,-249.337,0,-218.632 1/2:207:0,109,97:0:0:109,97:3764,3365:-572.591,-266.791,-233.979,-305.783,0,-276.583 1/2:307:0,121,183:0:0:121,183:4210,6327:-844.451,-502.152,-465.727,-342.285,0,-287.196 1/2:78:0,30,48:0:0:30,48:1027,1664:-211.885,-128.519,-119.488,-83.7034,0,-69.254 1/2:251:0,128,121:0:0:128,121:4439,4232:-688.074,-327.347,-288.815,-360.721,0,-324.296 1/2:221:0,92,129:0:0:92,129:3245,4474:-615.802,-351.569,-323.875,-264.579,0,-225.746 1/1:270:0,267,0:0:0:267,0:9333,0:-839.515,-80.375,0,-839.515,-80.375,-839.515 1/1:7:0,7,0:0:0:7,0:252,0:-23.0182,-2.10721,0,-23.0182,-2.10721,-23.0182 1/2:5:0,3,2:0:0:3,2:100,57:-12.7675,-4.63892,-3.73583,-8.42735,0,-7.82529 1/2:42:0,30,12:0:0:30,12:1043,428:-118.826,-34.0255,-24.9946,-85.1464,0,-81.534 1/2:100:0,56,44:0:0:56,44:1988,1521:-283.019,-121.047,-104.189,-162.318,0,-149.073 1/2:88:0,42,46:0:0:42,46:1398,1535:-234.961,-121.827,-109.183,-113.464,0,-99.6168 1/2:358:0,149,204:0:0:149,204:5293,7128:-997.485,-566.211,-521.357,-431.348,0,-369.938 1/2:173:0,98,73:0:0:98,73:3442,2525:-481.868,-201.745,-172.244,-280.111,0,-258.136 1/2:188:0,90,96:0:0:90,96:3156,3374:-526.962,-270.155,-243.062,-256.859,0,-227.96 1/2:108:0,51,55:0:0:51,55:1820,1948:-300.657,-152.38,-137.027,-148.277,0,-131.72 1/2:77:0,54,22:0:0:54,22:1885,759:-213.802,-60.4927,-44.2371,-153.425,0,-146.802 1/1:165:0,159,3:0:0:159,3:5542,108:-498.481,-47.8638,0,-489.986,-39.3743,-489.083 1/1:54:0,53,1:0:0:53,1:1876,36:-168.773,-15.9546,0,-165.993,-12.832,-165.692 chr12 7080123 . T C 62346.8 PASS AB=0.514709;ABP=13.4225;AC=17;AF=0.404762;AN=42;AO=2858;CIGAR=1X;DP=6624;DPB=6624;DPRA=22.03;EPP=6209.08;EPPR=8169.92;GTI=0;LEN=1;MEANALT=1.2;MQM=49.7404;MQMR=59.6621;NS=21;NUMALT=1;ODDS=4.22979;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=99785;QR=133707;RO=3761;RPL=1627;RPP=122.157;RPPR=168.267;RPR=1231;RUN=1;SAF=1627;SAP=122.157;SAR=1231;SRF=2148;SRP=168.267;SRR=1613;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:416:221,195:221:7824:195:6848:-480.868,0,-578.871 0/1:346:175,171:175:6201:171:6005:-421.336,0,-453.944 0/1:340:159,181:159:5652:181:6260:-451.358,0,-406.429 0/1:437:218,219:218:7753:219:7667:-550.912,0,-566.147 0/1:644:259,382:259:9170:382:13350:-993.222,0,-631.805 0/1:223:84,138:84:2988:138:4855:-360.836,0,-201.963 0/1:509:265,243:265:9480:243:8469:-591.011,0,-699.823 0/1:351:152,199:152:5423:199:6921:-502.082,0,-382.537 0/0:582:581,1:581:20677:1:32:0,-172,-1856.67 0/0:15:15,0:15:532:0:0:0,-4.51545,-48.1801 0/1:20:6,14:6:216:14:500:-39.1571,0,-13.7699 0/1:86:51,35:51:1817:35:1213:-82.0138,0,-137.918 0/1:261:135,126:135:4811:126:4420:-315.267,0,-354.523 0/1:268:152,116:152:5394:116:4050:-278.961,0,-404.771 0/1:569:245,324:245:8721:324:11275:-826.394,0,-613.434 0/1:336:182,154:182:6449:154:5403:-381.005,0,-479.239 0/1:364:165,199:165:5862:199:6953:-510.287,0,-418.084 0/1:204:91,113:91:3211:113:3905:-283.817,0,-227.746 0/1:167:124,43:124:4403:43:1479:-81.6803,0,-346.134 0/0:361:357,4:357:12697:4:144:0,-95.6845,-1129.42 0/0:125:124,1:124:4426:1:36:0,-34.2051,-395.07 chr12 7080143 . C T 22126.6 PASS AB=0.526382;ABP=17.4468;AC=17;AF=0.404762;AN=42;AO=1258;CIGAR=1X;DP=2905;DPB=2905;DPRA=1.81762;EPP=2674.26;EPPR=3469.44;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.907;MQMR=59.9799;NS=21;NUMALT=1;ODDS=2.73897;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45087;QR=58490;RO=1644;RPL=7;RPP=2674.26;RPPR=3469.44;RPR=1251;RUN=1;SAF=0;SAP=2734.72;SAR=1258;SRF=0;SRP=3572.91;SRR=1644;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:67,69:67:2374:69:2465:-180.803,0,-172.618 0/1:169:87,82:87:3093:82:2945:-214.139,0,-227.723 0/1:129:64,65:64:2280:65:2332:-171.288,0,-166.629 0/1:211:96,114:96:3414:114:4072:-303.055,0,-243.899 0/1:295:111,184:111:3938:184:6570:-502.571,0,-265.81 0/1:141:53,88:53:1891:88:3147:-241.01,0,-128.022 0/1:232:117,115:117:4112:115:4139:-302.835,0,-300.431 0/1:97:49,48:49:1756:48:1728:-126.605,0,-129.124 0/0:273:272,1:272:9718:1:36:0,-78.5829,-870.972 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7617 0/1:16:3,13:3:108:13:468:-37.6432,0,-5.25869 0/1:35:16,19:16:542:19:684:-51.2241,0,-38.5642 0/1:152:76,76:76:2708:76:2732:-200.366,0,-198.122 0/1:154:93,61:93:3313:61:2192:-151.185,0,-252.029 0/1:169:74,95:74:2631:95:3416:-256.779,0,-186.163 0/1:141:70,70:70:2507:70:2501:-182.837,0,-183.378 0/1:138:55,83:55:1941:83:2968:-225.811,0,-133.422 0/1:90:32,58:32:1139:58:2080:-160.378,0,-75.7257 0/1:82:65,17:65:2327:17:612:-30.729,0,-185.005 0/0:171:171,0:171:6094:0:0:0,-51.4761,-548.564 0/0:67:67,0:67:2388:0:0:0,-20.169,-215.178 chr12 7080145 . 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G C 11657.1 PASS AB=0.463446;ABP=20.7903;AC=17;AF=0.404762;AN=42;AO=711;CIGAR=1X;DP=1911;DPB=1911;DPRA=0.751201;EPP=1546.93;EPPR=2606.61;GTI=0;LEN=1;MEANALT=1.05556;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=27.5139;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25481;QR=42560;RO=1199;RPL=0;RPP=1546.93;RPPR=2606.61;RPR=711;RUN=1;SAF=711;SAP=1546.93;SAR=0;SRF=1199;SRP=2606.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:30,26:30:1061:26:928:-66.9806,0,-78.9417 0/1:91:42,49:42:1478:49:1764:-131.65,0,-105.917 0/1:112:54,58:54:1910:58:2084:-154.115,0,-138.458 0/1:44:23,21:23:828:21:756:-55.1219,0,-61.5988 0/1:179:119,60:119:4219:60:2152:-140.063,0,-326.004 0/1:60:34,26:34:1209:26:924:-65.4159,0,-91.0523 0/1:101:44,57:44:1550:57:2040:-153.468,0,-109.384 0/1:61:34,27:34:1209:27:964:-68.714,0,-90.7513 0/0:247:247,0:247:8767:0:0:0,-74.3544,-789.016 0/0:32:31,1:31:1112:1:36:0,-6.03468,-96.7931 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:33:15,18:15:536:18:648:-48.7179,0,-38.6408 0/1:107:64,43:64:2270:43:1533:-106.052,0,-172.349 0/1:132:72,60:72:2580:60:2152:-154.211,0,-192.713 0/1:163:76,87:76:2687:87:3108:-230.88,0,-193.003 0/1:82:39,43:39:1396:43:1548:-114.929,0,-101.255 0/1:82:37,45:37:1317:45:1616:-121.046,0,-94.1454 0/1:130:70,59:70:2448:59:2120:-152.023,0,-181.525 0/1:85:62,23:62:2205:23:820:-48.535,0,-173.126 0/0:46:46,0:46:1637:0:0:0,-13.8474,-147.617 0/0:54:54,0:54:1925:0:0:0,-16.2556,-173.525 chr12 7369651 . C T 19269.3 PASS AB=0.488709;ABP=5.60922;AC=17;AF=0.404762;AN=42;AO=1148;CIGAR=1X;DP=2811;DPB=2811;DPRA=1.22354;EPP=2495.86;EPPR=3612;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9808;MQMR=59.9922;NS=21;NUMALT=1;ODDS=14.6946;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41040;QR=58846;RO=1662;RPL=0;RPP=2495.86;RPPR=3612;RPR=1148;RUN=1;SAF=0;SAP=2495.86;SAR=1148;SRF=0;SRP=3612;SRR=1662;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:191:105,85:105:3717:85:3056:-217.713,0,-277.178 0/1:122:67,55:67:2391:55:1962:-140.129,0,-178.721 0/1:147:57,90:57:2040:90:3224:-246.131,0,-139.621 0/1:278:139,139:139:4879:139:4968:-363.582,0,-355.576 0/1:230:141,89:141:4996:89:3172:-216.467,0,-380.554 0/1:206:126,80:126:4447:80:2841:-193.916,0,-338.364 0/1:219:124,95:124:4415:95:3412:-241.368,0,-331.598 0/1:99:35,64:35:1235:64:2290:-176.56,0,-81.6515 0/0:249:249,0:249:8835:0:0:0,-74.9565,-795.142 0/0:16:16,0:16:572:0:0:0,-4.81648,-51.8134 0/1:7:1,6:1:36:6:208:-16.9519,0,-1.49106 0/1:54:25,29:25:892:29:1036:-77.2983,0,-64.3441 0/1:123:46,77:46:1632:77:2768:-212.334,0,-110.142 0/1:143:69,74:69:2435:74:2626:-193.54,0,-176.356 0/1:122:53,69:53:1880:69:2480:-186.727,0,-132.753 0/1:120:61,59:61:2173:59:2103:-153.415,0,-159.711 0/1:160:77,83:77:2688:83:2980:-220.267,0,-193.999 0/1:57:25,32:25:874:32:1126:-84.4582,0,-61.8165 0/1:69:48,21:48:1700:21:752:-47.2352,0,-132.515 0/0:127:126,1:126:4476:1:36:0,-34.6325,-399.412 0/0:72:72,0:72:2533:0:0:0,-21.6742,-228.221 chr12 7496973 . GACC TACA,TACT 5109.34 PASS AB=0.467807,0.532193;ABP=11.9583,11.9583;AC=19,23;AF=0.452381,0.547619;AN=42;AO=510,720;CIGAR=1X2M1X,1X2M1X;DP=1231;DPB=1231.25;DPRA=1.04734,15.3375;EPP=1110.46,1566.47;EPPR=0;GTI=10;LEN=4,4;MEANALT=1.94444,1.9;MQM=20.249,13.2736;MQMR=0;NS=21;NUMALT=2;ODDS=112.744;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=18005,25317;QR=0;RO=0;RPL=510,720;RPP=1110.46,1566.47;RPPR=0;RPR=0,0;RUN=1,1;SAF=510,720;SAP=1110.46,1566.47;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:96:0,39,57:0:0:39,57:1353,1970:-104.449,-45.8063,-34.0661,-58.812,0,-41.6533 1/2:19:0,7,12:0:0:7,12:251,432:-20.9838,-10.5352,-8.42795,-10.622,0,-7.00967 1/2:61:0,26,35:0:0:26,35:932,1236:-66.0657,-27.3182,-19.4914,-38.9127,0,-28.3766 1/2:33:0,12,21:0:0:12,21:428,731:-35.2614,-16.5125,-12.9002,-18.9241,0,-12.6025 1/2:162:0,70,92:0:0:70,92:2465,3204:-177.908,-73.266,-52.1939,-104.808,0,-77.1131 1/2:26:0,12,14:0:0:12,14:431,492:-30.1592,-12.2573,-8.6449,-18.0689,0,-13.8545 1/2:92:0,48,44:0:0:48,44:1709,1553:-109.619,-38.2534,-23.8039,-71.5284,0,-58.2831 1/2:83:0,50,33:0:0:50,33:1755,1155:-101.513,-26.8269,-11.7754,-74.8392,0,-64.9052 2/2:118:0,0,117:0:0:0,117:0,4117:-175.821,-175.821,-175.821,-35.2205,-35.2205,0 2/2:11:0,0,11:0:0:0,11:0,386:-12.4285,-12.4285,-12.4285,-3.31133,-3.31133,0 1/1:4:0,4,0:0:0:4,0:144,0:-7.36053,-1.20412,0,-7.36053,-1.20412,-7.36053 1/2:25:0,11,14:0:0:11,14:395,496:-28.0438,-11.6306,-8.31927,-16.5795,0,-12.3651 1/1:55:0,40,15:0:0:40,15:1427,539:-71.627,-12.0412,0,-59.9862,-0.259018,-55.4707 1/2:68:0,26,42:0:0:26,42:915,1464:-71.331,-32.6736,-24.8468,-38.7687,0,-26.1255 1/2:118:0,59,59:0:0:59,59:2090,2105:-135.399,-46.862,-29.1013,-88.6977,0,-70.9369 1/2:21:0,12,9:0:0:12,9:428,322:-30.9864,-11.1846,-7.57221,-19.9915,0,-17.2822 1/2:44:0,29,15:0:0:29,15:997,520:-65.7359,-18.0132,-9.28335,-47.9055,0,-43.3901 1/2:100:0,47,53:0:0:47,53:1651,1878:-114.247,-44.0562,-29.9078,-70.3551,0,-54.4005 1/2:46:0,17,29:0:0:17,29:598,1026:-47.9314,-22.6568,-17.5393,-25.444,0,-16.7141 2/2:9:0,1,8:0:0:1,8:36,279:-9.00548,-7.508,-7.20697,-2.40824,-0.719938,0 2/2:40:0,0,40:0:0:0,40:0,1412:-48.7619,-48.7619,-48.7619,-12.0412,-12.0412,0 chr12 7514493 . T C 37151.9 PASS AB=0.543925;ABP=52.7992;AC=18;AF=0.428571;AN=42;AO=1619;CIGAR=1X;DP=3491;DPB=3491;DPRA=1.17923;EPP=3518.62;EPPR=4061.49;GTI=0;LEN=1;MEANALT=1.15;MQM=59.8221;MQMR=59.9513;NS=21;NUMALT=1;ODDS=7.71776;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57158;QR=66450;RO=1869;RPL=895;RPP=42.2296;RPPR=147.786;RPR=724;RUN=1;SAF=895;SAP=42.2296;SAR=724;SRF=1111;SRP=147.786;SRR=758;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:134:45,89:45:1595:89:3150:-243.377,0,-103.501 0/1:132:48,84:48:1720:84:2995:-229.969,0,-115.35 0/1:175:89,86:89:3166:86:3008:-218.257,0,-232.485 0/1:194:106,88:106:3741:88:3103:-221.093,0,-278.481 0/1:373:153,219:153:5435:219:7724:-582.827,0,-376.938 0/1:138:64,74:64:2292:74:2636:-195.937,0,-164.999 0/1:238:83,154:83:2980:154:5452:-418.934,0,-196.728 0/1:144:84,60:84:2999:60:2131:-148.71,0,-226.793 0/0:289:287,2:287:10177:2:72:0,-80.1609,-909.028 0/1:22:18,4:18:644:4:140:-6.32192,0,-51.6679 0/1:7:1,6:1:36:6:212:-17.3176,0,-1.49106 0/1:46:25,21:25:900:21:747:-53.7069,0,-67.4736 0/1:205:91,114:91:3246:114:4014:-299.731,0,-230.65 0/1:217:101,116:101:3608:116:4105:-304.309,0,-259.601 0/1:279:134,145:134:4771:145:5129:-377.757,0,-345.562 0/1:138:60,78:60:2125:78:2765:-207.547,0,-149.973 0/1:110:42,67:42:1479:67:2308:-174.804,0,-100.211 0/1:269:116,153:116:4134:153:5364:-401.856,0,-291.267 0/1:150:92,58:92:3264:58:2067:-141.137,0,-248.823 0/0:142:142,0:142:4998:0:0:0,-42.7463,-449.813 0/0:89:88,1:88:3140:1:36:0,-23.1934,-279.221 chr12 7514519 . G C 13342.9 PASS AB=0.437879;ABP=47.2557;AC=24;AF=0.571429;AN=42;AO=756;CIGAR=1X;DP=1500;DPB=1500;DPRA=0;EPP=1627.32;EPPR=1581.86;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9471;MQMR=59.6178;NS=21;NUMALT=1;ODDS=7.94423;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27030;QR=26428;RO=743;RPL=2;RPP=1627.32;RPPR=1581.86;RPR=754;RUN=1;SAF=0;SAP=1644.64;SAR=756;SRF=0;SRP=1616.41;SRR=743;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:19,27:19:680:27:951:-72.0569,0,-47.6794 0/1:51:33,18:33:1170:18:648:-43.2994,0,-90.2083 0/1:66:40,26:40:1419:26:936:-64.6915,0,-108.131 0/1:76:39,37:39:1378:37:1332:-97.3041,0,-101.432 0/1:184:120,64:120:4247:64:2284:-150.376,0,-326.981 0/1:47:19,28:19:676:28:1006:-76.7078,0,-47.0114 0/1:119:74,45:74:2622:45:1612:-109.547,0,-200.388 0/1:66:33,33:33:1176:33:1176:-86.2796,0,-86.2681 1/1:86:0,85:0:0:85:3035:-273.019,-25.5876,0 0/1:11:2,9:2:72:9:324:-26.1945,0,-3.52539 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:18:10,8:10:356:8:284:-20.4848,0,-26.9627 0/1:87:56,31:56:2000:31:1104:-73.481,0,-154.075 0/1:111:58,53:58:2071:53:1908:-138.581,0,-152.748 0/1:96:60,36:60:2139:36:1280:-86.6044,0,-163.866 0/1:77:42,35:42:1508:35:1250:-89.6258,0,-112.833 0/1:42:23,19:23:815:19:684:-49.2294,0,-61.0266 0/1:134:76,58:76:2708:58:2080:-147.132,0,-203.587 0/1:85:35,50:35:1247:50:1772:-134.171,0,-86.9372 1/1:43:0,43:0:0:43:1540:-138.893,-12.9443,0 1/1:51:1,50:1:36:50:1788:-157.604,-11.7543,0 chr12 7514537 . C T 13002.6 PASS AB=0.561324;ABP=46.4218;AC=18;AF=0.428571;AN=42;AO=746;CIGAR=1X;DP=1512;DPB=1512;DPRA=1.21038;EPP=1622.93;EPPR=1666.36;GTI=0;LEN=1;MEANALT=1;MQM=59.6099;MQMR=59.9269;NS=21;NUMALT=1;ODDS=8.14442;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26680;QR=27321;RO=766;RPL=746;RPP=1622.93;RPPR=1666.36;RPR=0;RUN=1;SAF=0;SAP=1622.93;SAR=746;SRF=0;SRP=1666.36;SRR=766;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:47:28,19:28:989:19:680:-47.3784,0,-75.1736 0/1:50:18,32:18:648:32:1152:-88.8928,0,-43.6004 0/1:71:28,43:28:996:43:1533:-116.881,0,-68.0896 0/1:77:39,38:39:1392:38:1360:-99.5111,0,-102.4 0/1:183:62,121:62:2224:121:4321:-333.94,0,-145.336 0/1:50:31,19:31:1108:19:665:-45.1131,0,-84.9795 0/1:120:44,76:44:1576:76:2724:-209.255,0,-106.008 0/1:67:34,33:34:1197:33:1184:-86.6798,0,-87.8642 0/0:89:89,0:89:3179:0:0:0,-26.7917,-286.333 0/1:12:10,2:10:352:2:72:-3.22436,0,-28.4058 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:18:8,10:8:288:10:360:-27.3258,0,-20.8489 0/1:85:30,55:30:1076:55:1976:-152.518,0,-71.5653 0/1:108:49,59:49:1729:59:2112:-157.772,0,-123.381 0/1:95:35,60:35:1243:60:2134:-163.72,0,-83.576 0/1:78:36,42:36:1288:42:1504:-112.172,0,-92.7432 0/1:42:19,23:19:680:23:824:-61.8391,0,-48.8682 0/1:135:59,76:59:2108:76:2732:-205.44,0,-149.35 0/1:87:52,35:52:1860:35:1239:-85.6185,0,-141.488 0/0:43:43,0:43:1544:0:0:0,-12.9443,-139.253 0/0:51:51,0:51:1808:0:0:0,-15.3525,-162.999 chr12 7571160 . TTG ATG,ATT 40306.2 PASS AB=0.479204,0.517179;ABP=9.24199,7.26293;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1123,860;CIGAR=1X2M,1X1M1X;DP=1989;DPB=1989;DPRA=0,1.24397;EPP=2441.57,1861.8;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.14286,2.33333;MQM=60,59.9907;MQMR=0;NS=21;NUMALT=2;ODDS=8.4358;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=40151,30318;QR=0;RO=0;RPL=0,1;RPP=2441.57,1861.8;RPPR=0;RPR=1123,859;RUN=1,1;SAF=1123,860;SAP=2441.57,1870.48;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,22,42:0:0:22,42:788,1491:-185.796,-121.53,-114.908,-64.3101,0,-51.6668 1/2:87:0,39,48:0:0:39,48:1389,1688:-250.968,-137.755,-126.015,-113.567,0,-99.1173 1/2:99:0,40,59:0:0:40,59:1440,2079:-287.119,-169.619,-157.578,-117.857,0,-100.096 1/2:144:0,71,73:0:0:71,73:2529,2580:-416.606,-210.474,-189.101,-206.487,0,-184.512 1/2:243:0,117,125:0:0:117,125:4195,4409:-701.15,-358.997,-323.776,-342.15,0,-304.521 1/2:136:0,61,75:0:0:61,75:2192,2680:-397.692,-218.868,-200.505,-179.183,0,-156.605 1/2:165:0,81,83:0:0:81,83:2900,2916:-473.829,-237.332,-212.948,-236.493,0,-211.507 1/2:75:0,33,41:0:0:33,41:1184,1446:-214.33,-117.752,-107.818,-96.5939,0,-84.2517 1/1:180:0,180,0:0:0:180,0:6438,0:-579.504,-54.1854,0,-579.504,-54.1854,-579.504 1/1:12:0,12,0:0:0:12,0:423,0:-38.4051,-3.61236,0,-38.4051,-3.61236,-38.4051 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:27:0,19,8:0:0:19,8:680,280:-78.5879,-23.1305,-17.4109,-55.8096,0,-53.4014 1/2:103:0,52,51:0:0:52,51:1840,1817:-298.329,-148.459,-132.805,-150.225,0,-134.872 1/2:104:0,46,58:0:0:46,58:1636,2029:-298.749,-165.421,-151.573,-133.681,0,-116.222 1/2:152:0,73,78:0:0:73,78:2582,2748:-434.1,-223.801,-201.825,-210.371,0,-186.89 1/2:70:0,36,34:0:0:36,34:1296,1215:-205.17,-99.4219,-88.5848,-106.107,0,-95.8718 1/2:79:0,41,38:0:0:41,38:1468,1308:-226.298,-106.575,-94.2325,-120.074,0,-108.635 1/2:61:0,35,25:0:0:35,25:1260,852:-172.032,-69.2094,-58.6733,-102.916,0,-95.3906 1/2:44:0,26,18:0:0:26,18:936,636:-128.526,-52.1491,-44.3224,-76.7327,0,-71.3141 1/1:95:0,93,2:0:0:93,2:3326,72:-299.197,-27.9958,0,-293.323,-21.7611,-292.721 1/1:43:0,43,0:0:0:43,0:1541,0:-138.983,-12.9443,0,-138.983,-12.9443,-138.983 chr12 7571335 . T G 12588.6 PASS AB=0.535036;ABP=17.6178;AC=17;AF=0.404762;AN=42;AO=736;CIGAR=1X;DP=1641;DPB=1641;DPRA=1.14824;EPP=1601.21;EPPR=1961.68;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.7976;MQMR=59.99;NS=21;NUMALT=1;ODDS=3.09321;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26293;QR=32300;RO=902;RPL=0;RPP=1601.21;RPPR=1961.68;RPR=736;RUN=1;SAF=0;SAP=1601.21;SAR=736;SRF=0;SRP=1961.68;SRR=902;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:94:44,50:44:1584:50:1792:-133.261,0,-114.554 0/1:58:33,25:33:1176:25:891:-63.049,0,-88.688 0/1:62:30,32:30:1065:32:1126:-82.8696,0,-77.4959 0/1:66:26,40:26:924:40:1421:-108.249,0,-63.6097 0/1:184:85,98:85:3044:98:3499:-259.62,0,-218.741 0/1:97:56,40:56:2012:40:1440:-100.639,0,-152.094 0/1:161:55,106:55:1976:106:3800:-293.732,0,-129.649 0/1:62:19,43:19:676:43:1540:-120.228,0,-42.5041 0/0:159:159,0:159:5693:0:0:0,-47.8638,-512.483 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:4:2,2:2:72:2:68:-5.25359,0,-5.6326 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/1:73:32,41:32:1148:41:1472:-110.801,0,-81.6546 0/1:83:39,44:39:1400:44:1580:-117.506,0,-101.314 0/1:150:78,72:78:2781:72:2584:-187.635,0,-205.375 0/1:86:33,53:33:1173:53:1887:-144.218,0,-79.987 0/1:42:23,19:23:828:19:684:-49.2471,0,-62.2009 0/1:77:36,41:36:1292:41:1429:-105.721,0,-93.4045 0/1:59:37,22:37:1332:22:792:-53.7878,0,-102.422 0/0:63:60,3:60:2152:3:108:0,-8.88972,-183.872 0/0:42:41,0:41:1468:0:0:0,-12.3422,-132.095 chr12 7579670 . CGAG TGAG,TGAA 20115.2 PASS AB=0.439159,0.558628;ABP=32.0754,30;AC=24,18;AF=0.571429,0.428571;AN=42;AO=536,510;CIGAR=1X3M,1X2M1X;DP=1049;DPB=1049.25;DPRA=10.44,1.52773;EPP=1158.25,1110.46;EPPR=5.18177;GTI=1;LEN=1,4;MEANALT=1.9,2.05882;MQM=42.8769,40.3392;MQMR=60;NS=21;NUMALT=2;ODDS=3.08307;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=19167,18123;QR=36;RO=1;RPL=535,510;RPP=1158.25,1110.46;RPPR=5.18177;RPR=1,0;RUN=1,1;SAF=0,0;SAP=1166.92,1110.46;SAR=536,510;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:43:0,20,23:0:0:20,23:716,813:-120.501,-63.3866,-57.366,-57.459,0,-50.5354 1/2:23:0,11,12:0:0:11,12:388,431:-64.2034,-33.5006,-30.1892,-31.045,0,-27.4326 1/2:63:0,24,39:0:0:24,39:860,1390:-176.902,-108.441,-101.217,-68.7543,0,-57.0141 1/2:40:0,19,21:0:0:19,21:680,747:-112.108,-58.4473,-52.7277,-54.0046,0,-47.683 1/2:98:0,42,55:0:0:42,55:1504,1938:-271.023,-151.239,-138.595,-119.81,0,-103.254 1/2:38:0,16,22:0:0:16,22:576,782:-107.209,-61.3144,-56.4979,-46.2427,0,-39.62 1/2:65:0,27,38:0:0:27,38:968,1344:-182.735,-105.653,-97.5254,-77.4283,0,-65.9891 1/2:90:0,29,61:0:0:29,61:1044,2178:-254.044,-170.933,-162.204,-83.4596,0,-65.0968 1/1:67:0,67,0:0:0:67,0:2381,0:-209.664,-20.169,0,-209.664,-20.169,-209.664 1/1:6:0,6,0:0:0:6,0:216,0:-19.3655,-1.80618,0,-19.3655,-1.80618,-19.3655 2/2:5:0,0,5:0:0:0,5:0,179:-16.0393,-16.0393,-16.0393,-1.50515,-1.50515,0 1/2:16:0,4,12:0:0:4,12:144,428:-45.2315,-33.9593,-32.7552,-11.6183,0,-8.00592 1/2:89:0,30,59:0:0:30,59:1080,2115:-249.977,-163.997,-154.966,-86.3283,0,-68.5676 1/2:80:0,43,36:0:0:43,36:1544,1258:-221.154,-98.2489,-85.3046,-122.917,0,-112.08 1/2:136:0,53,83:0:0:53,83:1875,2952:-378.393,-229.856,-213.901,-148.88,0,-123.894 1/2:15:0,3,12:0:0:3,12:108,430:-42.5127,-33.9075,-33.0044,-8.95573,0,-5.34337 1/2:11:0,5,6:0:0:5,6:180,210:-31.215,-16.8699,-15.3647,-14.6915,0,-12.8853 1/2:62:0,43,19:0:0:43,19:1537,676:-174.868,-52.6572,-39.7129,-122.553,0,-116.833 1/2:35:0,28,7:0:0:28,7:990,252:-98.1296,-19.8792,-11.4504,-78.594,0,-76.4868 1/1:35:0,35,0:0:0:35,0:1260,0:-111.264,-10.5361,0,-111.264,-10.5361,-111.264 1/1:32:1,31,0:1:36:31,0:1116,0:-94.99,-6.03469,0,-95.291,-9.33193,-98.2286 chr12 8155584 . C A 17722.3 PASS AB=0.485658;ABP=4.81664;AC=24;AF=0.571429;AN=42;AO=761;CIGAR=1X;DP=1291;DPB=1291;DPRA=10.7083;EPP=1655.5;EPPR=1153.89;GTI=1;LEN=1;MEANALT=1;MQM=40.251;MQMR=45.6887;NS=21;NUMALT=1;ODDS=7.93138;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27220;QR=18700;RO=530;RPL=344;RPP=18.2163;RPPR=11.6798;RPR=417;RUN=1;SAF=344;SAP=18.2163;SAR=417;SRF=242;SRP=11.6798;SRR=288;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:31,23:31:1112:23:824:-56.1042,0,-81.9195 0/1:47:24,23:24:860:23:820:-55.4796,0,-60.5203 0/1:22:10,12:10:356:12:432:-31.4146,0,-25.1582 0/1:60:28,32:28:1000:32:1137:-81.5593,0,-71.0526 0/1:106:54,52:54:1908:52:1868:-129.966,0,-135.158 0/1:63:33,30:33:1161:30:1080:-71.1815,0,-82.8889 0/1:110:62,48:62:2177:48:1716:-112.719,0,-157.321 0/1:58:29,29:29:1036:29:1036:-71.1748,0,-72.171 1/1:81:0,81:0:0:81:2908:-257.038,-24.3834,0 1/1:6:0,6:0:0:6:216:-18.8087,-1.80618,0 0/0:6:6,0:6:216:0:0:0,-1.80618,-18.4513 0/1:14:10,4:10:345:4:144:-8.37449,0,-26.589 0/1:63:28,35:28:966:35:1260:-90.5936,0,-66.6815 0/1:19:13,6:13:452:6:216:-13.5453,0,-34.7175 0/1:84:43,41:43:1544:41:1463:-102.714,0,-110.228 0/1:35:16,19:16:568:19:684:-49.8493,0,-40.5404 0/1:31:24,7:24:851:7:243:-12.3369,0,-64.8396 0/1:122:75,47:75:2629:47:1684:-109.11,0,-192.239 0/1:123:40,83:40:1375:83:2964:-222.61,0,-85.4649 1/1:76:4,72:4:144:72:2571:-208.683,-10.8881,0 1/1:111:0,111:0:0:111:3954:-329.772,-33.4143,0 chr12 8885855 . 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C T 7846.71 PASS AB=0.38933;ABP=96.7336;AC=25;AF=0.595238;AN=42;AO=472;CIGAR=1X;DP=1012;DPB=1012;DPRA=0;EPP=1027.95;EPPR=1175.61;GTI=1;LEN=1;MEANALT=1;MQM=59.6314;MQMR=59.9926;NS=21;NUMALT=1;ODDS=3.31436;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16793;QR=19031;RO=540;RPL=472;RPP=1027.95;RPPR=1175.61;RPR=0;RUN=1;SAF=472;SAP=1027.95;SAR=0;SRF=540;SRP=1175.61;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:48,24:48:1715:24:864:-56.4037,0,-132.958 0/1:40:14,26:14:495:26:904:-69.6192,0,-32.8418 0/1:50:34,16:34:1212:16:572:-36.7572,0,-94.3348 0/1:30:20,10:20:701:10:356:-23.34,0,-54.3808 0/1:118:86,32:86:2988:32:1144:-67.748,0,-233.629 0/1:65:46,19:46:1608:19:684:-42.3234,0,-125.44 0/1:66:30,36:30:1054:36:1264:-94.1663,0,-75.3012 0/1:42:31,11:31:1092:11:396:-23.3395,0,-85.9436 1/1:59:0,59:0:0:59:2111:-190.257,-17.7608,0 1/1:7:0,7:0:0:7:244:-22.2994,-2.10721,0 0/1:5:3,2:3:108:2:63:-4.478,0,-8.57002 0/1:25:17,8:17:612:8:288:-18.7417,0,-47.8877 0/1:43:21,22:21:748:22:779:-57.4854,0,-54.701 0/1:40:30,10:30:1061:10:360:-20.7031,0,-83.7582 0/1:94:51,43:51:1811:43:1536:-110.218,0,-134.974 0/1:31:25,6:25:854:6:212:-10.0925,0,-67.8372 0/1:55:36,19:36:1288:19:684:-45.3319,0,-99.6669 0/1:68:37,31:37:1315:31:1091:-78.0149,0,-98.181 0/1:37:9,28:9:312:28:990:-78.2712,0,-17.2772 1/1:34:2,32:2:57:32:1144:-97.7909,-4.82171,0 1/1:31:0,31:0:0:31:1107:-99.932,-9.33193,0 chr12 12526443 . A G 24834.7 PASS AB=0.548426;ABP=36.6602;AC=25;AF=0.595238;AN=42;AO=1311;CIGAR=1X;DP=2057;DPB=2057;DPRA=0;EPP=2849.81;EPPR=1618.59;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.8284;MQMR=59.9691;NS=21;NUMALT=1;ODDS=6.74781;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46555;QR=26554;RO=744;RPL=0;RPP=2849.81;RPPR=1618.59;RPR=1311;RUN=1;SAF=0;SAP=2849.81;SAR=1311;SRF=0;SRP=1618.59;SRR=744;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:70:25,45:25:896:45:1616:-124.167,0,-59.8883 0/1:113:51,62:51:1820:62:2203:-164.519,0,-130.065 0/1:102:47,55:47:1680:55:1967:-146.599,0,-120.782 0/1:210:110,99:110:3910:99:3505:-252.384,0,-288.82 0/1:196:82,113:82:2935:113:4017:-301.883,0,-205.323 0/1:47:6,41:6:216:41:1463:-117.817,0,-5.6421 0/1:161:69,92:69:2468:92:3275:-245.947,0,-173.908 0/1:118:55,63:55:1958:63:2241:-166.431,0,-140.973 1/1:229:0,229:0:0:229:8154:-733.02,-68.9359,0 1/1:14:0,14:0:0:14:504:-45.6981,-4.21442,0 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:50:17,33:17:608:33:1184:-91.8168,0,-40.0005 0/1:57:13,44:13:468:44:1584:-124.992,0,-25.3009 0/1:132:69,63:69:2442:63:2213:-159.695,0,-180.296 0/1:125:74,51:74:2656:51:1797:-124.381,0,-201.657 0/1:65:43,22:43:1535:22:777:-50.6834,0,-118.648 0/1:102:54,48:54:1931:48:1677:-119.806,0,-143.361 0/1:33:11,22:11:392:22:765:-59.2337,0,-25.6861 0/1:67:15,52:15:531:52:1842:-145.033,0,-27.9529 1/1:121:0,121:0:0:121:4267:-384.209,-36.4246,0 1/1:41:0,41:0:0:41:1468:-132.416,-12.3422,0 chr12 12913980 . CTAT CT,CTTT 20865.6 PASS AB=0.406053,0.591425;ABP=63.8033,60.5831;AC=25,17;AF=0.595238,0.404762;AN=42;AO=521,470;CIGAR=1M2D1M,2M1X1M;DP=993;DPB=733;DPRA=0,1.00709;EPP=1099.87,873.244;EPPR=7.35324;GTI=0;LEN=2,1;MEANALT=1.85714,2;MQM=59.5585,59.634;MQMR=60;NS=21;NUMALT=2;ODDS=4.70929;PAIRED=0,0;PAIREDR=0;PAO=0.666667,0.666667;PQA=24,24;PQR=24;PRO=0.666667;QA=18340,16793;QR=57;RO=2;RPL=4,10;RPP=1099.87,938.591;RPPR=7.35324;RPR=517,460;RUN=1,1;SAF=521,462;SAP=1134.35,955.298;SAR=0,8;SRF=2;SRP=7.35324;SRR=0;TYPE=del,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:60:0,26,34:0:0:26,34:906,1212:-172.801,-99.1345,-91.3077,-74.0185,0,-63.7835 1/2:55:0,21,34:0:0:21,34:732,1224:-159.744,-100.222,-93.9004,-59.8742,0,-49.6392 1/2:28:0,10,18:0:0:10,18:356,631:-80.6725,-51.6848,-48.6745,-29.3414,0,-23.9228 1/2:47:0,20,27:0:0:20,27:712,946:-135.351,-77.3205,-71.2999,-58.3837,0,-50.2559 1/2:108:0,40,68:0:0:40,68:1408,2437:-313.445,-198.83,-186.789,-114.969,0,-94.4985 1/2:31:0,16,15:0:0:16,15:572,536:-90.6957,-44.056,-39.2395,-46.9969,0,-42.4815 1/2:74:2,28,44:2:57:28,44:983,1563:-202.28,-122.902,-118.996,-75.5216,0,-66.7983 1/2:45:0,21,24:0:0:21,24:752,856:-131.464,-70.1364,-63.8148,-61.6846,0,-54.4599 1/1:86:0,86,0:0:0:86,0:3020,0:-272.003,-25.8886,0,-272.003,-25.8886,-272.003 1/1:10:0,10,0:0:0:10,0:356,0:-32.3812,-3.0103,0,-32.3812,-3.0103,-32.3812 1/2:5:0,1,4:0:0:1,4:36,144:-15.0469,-12.1095,-11.8085,-3.29724,0,-2.09312 1/2:11:0,3,8:0:0:3,8:108,284:-32.2592,-23.4473,-22.5443,-9.13687,0,-6.72863 1/2:64:0,24,40:0:0:24,40:848,1436:-186.432,-117.389,-110.165,-69.3982,0,-57.357 1/2:46:0,20,26:0:0:20,26:705,924:-133.049,-75.6509,-69.6303,-57.7522,0,-49.9254 1/2:51:0,13,38:0:0:13,38:464,1364:-149.448,-111.621,-107.708,-38.1841,0,-26.745 1/2:25:0,16,9:0:0:16,9:564,324:-72.7,-26.7948,-21.9783,-46.2623,0,-43.5531 1/2:29:0,7,22:0:0:7,22:248,792:-85.1845,-64.983,-62.8758,-20.557,0,-13.9343 1/2:43:0,21,22:0:0:21,22:734,788:-124.259,-64.5717,-58.2501,-59.9921,0,-53.3695 1/2:71:0,35,36:0:0:35,36:1252,1296:-208.181,-106.107,-95.5708,-102.433,0,-91.5956 1/1:59:0,58,1:0:0:58,1:1972,36:-177.39,-17.4597,0,-174.453,-14.1625,-174.152 1/1:45:0,45,0:0:0:45,0:1612,0:-145.332,-13.5464,0,-145.332,-13.5464,-145.332 chr12 12913991 . ATTTTTTCGCTT ATTTTTTTGCTC,ATTTTTTTTGCTT 18738.9 PASS AB=0.433121,0.515924;ABP=33.5077,4.73918;AC=25,17;AF=0.595238,0.404762;AN=42;AO=541,406;CIGAR=7M1X3M1X,1M1I6M1X4M;DP=996;DPB=1030.17;DPRA=0,0.962585;EPP=1177.78,884.628;EPPR=5.18177;GTI=0;LEN=12,13;MEANALT=3.2381,3.38889;MQM=59.5527,59.8251;MQMR=60;NS=21;NUMALT=2;ODDS=10.5702;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18953,14197;QR=35;RO=1;RPL=541,406;RPP=1177.78,884.628;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=541,406;SAP=1177.78,884.628;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:59:0,27,29:0:0:27,29:936,998:-157.154,-81.0853,-72.9575,-76.099,0,-67.3691 1/2:54:0,20,29:0:0:20,29:691,1016:-138.812,-82.6763,-76.6557,-56.1396,0,-47.4097 1/2:28:0,11,15:0:0:11,15:386,527:-74.2843,-42.8833,-39.5719,-31.3942,0,-26.8788 1/2:47:0,22,22:0:0:22,22:780,769:-126.094,-62.5475,-55.9249,-63.5405,0,-56.9179 1/2:111:0,43,59:0:0:43,59:1503,2049:-288.829,-166.572,-153.628,-122.261,0,-104.501 1/2:33:0,19,14:0:0:19,14:666,491:-94.4849,-40.3033,-34.5838,-54.532,0,-50.3176 1/2:73:1,30,40:1:35:30,40:1047,1403:-196.183,-111.349,-105.166,-82.3072,0,-73.1138 1/2:44:0,23,18:0:0:23,18:802,618:-115.392,-50.1648,-43.2411,-65.2153,0,-59.7967 1/1:87:0,85,0:0:0:85,0:3009,0:-270.659,-25.5876,0,-270.659,-25.5876,-270.659 1/1:13:0,12,0:0:0:12,0:427,0:-38.455,-3.61236,0,-38.455,-3.61236,-38.455 1/2:4:0,1,3:0:0:1,3:36,108:-12.1095,-9.17208,-8.87105,-3.29724,0,-2.39415 1/2:12:0,3,8:0:0:3,8:102,275:-30.6243,-22.3512,-21.4481,-8.2884,0,-5.88016 1/2:57:0,23,31:0:0:23,31:800,1095:-154.122,-89.0919,-82.1682,-65.0217,0,-55.6898 1/2:44:0,21,23:0:0:21,23:738,811:-126.456,-66.3863,-60.0646,-60.4214,0,-53.4977 1/2:50:0,13,36:0:0:13,36:458,1248:-138.713,-101.422,-97.509,-37.2819,0,-26.4448 1/2:25:0,16,9:0:0:16,9:571,319:-72.876,-26.3407,-21.5242,-46.8905,0,-44.1812 1/2:27:0,7,19:0:0:7,19:242,672:-74.39,-54.7277,-52.6205,-19.6519,0,-13.9324 1/2:45:0,23,20:0:0:23,20:807,699:-122.512,-56.853,-49.9293,-65.6508,0,-59.6302 1/2:72:0,38,30:0:0:38,30:1309,1063:-192.909,-86.6084,-75.1692,-106.309,0,-97.2784 1/1:64:0,58,1:0:0:58,1:2024,36:-182.136,-17.4597,0,-179.198,-14.5088,-178.897 1/1:47:0,46,0:0:0:46,0:1619,0:-145.631,-13.8474,0,-145.631,-13.8474,-145.631 chr12 12936596 . A T 20735.5 PASS AB=0.36682;ABP=372.605;AC=25;AF=0.595238;AN=42;AO=1232;CIGAR=1X;DP=2754;DPB=2754;DPRA=0;EPP=2678.26;EPPR=3271.17;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.9724;MQMR=60;NS=21;NUMALT=1;ODDS=8.45405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44162;QR=54437;RO=1521;RPL=1232;RPP=2678.26;RPPR=3271.17;RPR=0;RUN=1;SAF=1232;SAP=2678.26;SAR=0;SRF=1521;SRP=3305.82;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:170:123,47:123:4401:47:1684:-100.672,0,-345.086 0/1:166:106,60:106:3778:60:2145:-143.344,0,-290.246 0/1:139:82,57:82:2933:57:2052:-143.108,0,-222.359 0/1:123:76,47:76:2713:47:1684:-114.82,0,-207.385 0/1:281:187,94:187:6677:94:3380:-219.825,0,-516.418 0/1:100:67,33:67:2393:33:1184:-76.7653,0,-185.522 0/1:171:119,52:119:4276:52:1864:-116.563,0,-333.54 0/1:118:77,41:77:2764:41:1453:-95.5333,0,-213.48 1/1:139:1,138:1:36:138:4944:-441.511,-38.2449,0 1/1:24:0,24:0:0:24:852:-77.0004,-7.22472,0 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:75:43,32:43:1536:32:1148:-81.0526,0,-115.956 0/1:175:113,62:113:4052:62:2228:-148.104,0,-312.186 0/1:154:98,56:98:3497:56:2008:-134.635,0,-268.581 0/1:258:160,98:160:5752:98:3511:-238.533,0,-440.127 0/1:83:61,22:61:2181:22:792:-46.6202,0,-171.569 0/1:139:93,46:93:3312:46:1629:-105.053,0,-256.454 0/1:134:76,58:76:2732:58:2084:-147.492,0,-205.784 0/1:107:32,74:32:1152:74:2660:-207.376,0,-71.7211 1/1:124:2,122:2:72:122:4388:-388.254,-30.491,0 1/1:68:0,68:0:0:68:2436:-219.478,-20.47,0 chr12 13193857 . T C 18385.9 PASS AB=0.668085;ABP=176.017;AC=27;AF=0.642857;AN=42;AO=912;CIGAR=1X;DP=1152;DPB=1152;DPRA=0;EPP=1983.39;EPPR=521.992;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9989;MQMR=60;NS=21;NUMALT=1;ODDS=2.81325;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32562;QR=8565;RO=239;RPL=912;RPP=1983.39;RPPR=521.992;RPR=0;RUN=1;SAF=0;SAP=1983.39;SAR=912;SRF=0;SRP=521.992;SRR=239;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:15,13:15:540:13:468:-34.0308,0,-40.5077 0/1:22:6,16:6:216:16:553:-43.4713,0,-13.1679 0/1:14:4,10:4:144:10:360:-28.5299,0,-9.0992 0/1:19:9,10:9:320:10:360:-27.0247,0,-23.4228 0/1:46:21,25:21:756:25:896:-67.113,0,-54.5198 0/1:24:11,13:11:392:13:464:-34.8728,0,-28.3953 0/1:38:16,22:16:576:22:788:-59.8057,0,-40.7358 0/1:23:11,12:11:396:12:428:-31.9351,0,-29.0591 1/1:64:0,64:0:0:64:2292:-206.541,-19.2659,0 1/1:204:0,204:0:0:204:7316:-658.488,-61.4101,0 1/1:70:2,68:2:68:68:2398:-209.617,-14.6144,0 1/1:47:3,44:3:93:44:1569:-132.823,-5.47168,0 0/1:30:13,17:13:468:17:600:-45.2983,0,-33.4287 0/1:28:9,18:9:324:18:644:-49.8031,0,-21.0182 0/1:67:34,33:34:1220:33:1180:-86.3386,0,-89.9378 0/1:27:14,13:14:504:13:464:-33.9697,0,-37.5703 0/1:42:16,26:16:572:26:936:-71.9162,0,-39.1702 0/1:250:38,212:38:1368:212:7562:-605.363,0,-48.1633 0/1:47:16,31:16:572:31:1103:-85.432,0,-37.665 1/1:14:1,13:1:36:13:453:-37.5013,-0.616145,0 1/1:48:0,48:0:0:48:1728:-155.805,-14.4494,0 chr12 13491310 . A T 32790.5 PASS AB=0.522984;ABP=14.3895;AC=25;AF=0.595238;AN=42;AO=1747;CIGAR=1X;DP=2933;DPB=2933;DPRA=0;EPP=3796.57;EPPR=2578.38;GTI=0;LEN=1;MEANALT=1;MQM=59.9891;MQMR=59.9671;NS=21;NUMALT=1;ODDS=3.22876;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62576;QR=42448;RO=1186;RPL=0;RPP=3796.57;RPPR=2578.38;RPR=1747;RUN=1;SAF=1747;SAP=3796.57;SAR=0;SRF=1186;SRP=2578.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:101:45,56:45:1605:56:1997:-149.598,0,-114.334 0/1:212:125,87:125:4461:87:3094:-214.867,0,-337.841 0/1:97:49,48:49:1756:48:1720:-125.886,0,-128.754 0/1:175:96,79:96:3444:79:2817:-201.088,0,-257.486 0/1:420:217,203:217:7774:203:7288:-529.531,0,-573.253 0/1:158:68,90:68:2397:90:3211:-241.65,0,-168.421 0/1:213:103,110:103:3708:110:3952:-291.751,0,-269.801 0/1:42:26,16:26:921:16:576:-39.5317,0,-70.5619 1/1:209:0,209:0:0:209:7493:-674.409,-62.9153,0 1/1:18:1,17:1:36:17:608:-51.4537,-1.82027,0 0/1:7:1,6:1:36:6:216:-17.6833,0,-1.49106 0/1:53:21,32:21:756:32:1148:-87.6752,0,-52.4126 0/1:219:90,129:90:3228:129:4640:-351.835,0,-224.811 0/1:70:33,37:33:1184:37:1328:-98.7501,0,-85.7962 0/1:183:63,120:63:2268:120:4274:-329.72,0,-149.294 0/1:169:76,93:76:2717:93:3325:-248.592,0,-193.898 0/1:186:89,97:89:3192:97:3476:-257.06,0,-231.512 0/1:101:45,56:45:1597:56:2016:-151.309,0,-113.614 0/1:74:36,38:36:1296:38:1364:-100.784,0,-94.6677 1/1:164:1,163:1:36:163:5845:-522.56,-45.7706,0 1/1:62:1,61:1:36:61:2188:-193.587,-15.0656,0 chr12 13530996 . AC GT 2305.57 PASS AB=0.382153;ABP=127.378;AC=21;AF=0.5;AN=42;AO=394;CIGAR=2X;DP=1031;DPB=1031;DPRA=0;EPP=858.57;EPPR=1379.72;GTI=0;LEN=2;MEANALT=1.14286;MQM=26.7919;MQMR=30.2413;NS=21;NUMALT=1;ODDS=12.2657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13921;QR=22297;RO=634;RPL=0;RPP=858.57;RPPR=1379.72;RPR=394;RUN=1;SAF=0;SAP=858.57;SAR=394;SRF=0;SRP=1379.72;SRR=634;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:69,53:69:2435:53:1876:-89.2533,0,-126.544 0/1:37:25,12:25:864:12:432:-17.7316,0,-58.2362 0/1:32:15,17:15:514:17:612:-31.9491,0,-29.0217 0/1:45:28,17:28:993:17:612:-27.8594,0,-55.1386 0/1:43:28,15:28:993:15:525:-22.9166,0,-63.3629 0/1:27:15,12:15:535:12:413:-20.0676,0,-34.2762 0/1:53:24,29:24:827:29:1022:-53.6342,0,-46.5949 0/1:17:13,4:13:461:4:142:-3.99347,0,-30.1842 0/1:136:87,48:87:3107:48:1690:-74.5669,0,-168.65 0/1:51:31,19:31:1087:19:680:-26.5533,0,-45.1396 0/1:19:12,6:12:417:6:203:-8.76998,0,-18.2284 0/1:17:5,12:5:169:12:432:-20.754,0,-8.04693 0/1:89:63,26:63:2211:26:918:-34.1987,0,-111.438 0/1:32:23,9:23:794:9:322:-11.9748,0,-45.531 0/1:101:79,22:79:2777:22:792:-23.0877,0,-179.366 0/1:30:23,7:23:809:7:230:-7.40494,0,-48.4281 0/1:25:18,7:18:641:7:250:-9.48027,0,-37.2659 0/1:53:22,31:22:775:31:1089:-53.5558,0,-43.2291 0/1:27:17,10:17:597:10:347:-15.8605,0,-35.4858 0/1:35:23,12:23:818:12:416:-16.1713,0,-45.2339 0/1:40:14,26:14:473:26:918:-49.8498,0,-25.4666 chr12 13531045 . GTGT GTGC,ATGC 16012.2 PASS AB=0.740952,0.258095;ABP=532.51,536.704;AC=24,18;AF=0.571429,0.428571;AN=42;AO=866,282;CIGAR=3M1X,1X2M1X;DP=1149;DPB=1149;DPRA=0,0;EPP=887.737,615.366;EPPR=0;GTI=10;LEN=1,4;MEANALT=2.04762,2.04762;MQM=27.4018,26.5;MQMR=0;NS=21;NUMALT=2;ODDS=171;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30884,10052;QR=0;RO=0;RPL=866,282;RPP=1883.51,615.366;RPPR=0;RPR=0,0;RUN=1,1;SAF=136,0;SAP=887.737,615.366;SAR=730,282;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:126:0,79,46:0:0:79,46:2809,1640:-255.044,-95.3455,-71.5641,-159.643,0,-145.795 1/2:43:0,31,12:0:0:31,12:1112,432:-95.1558,-25.2574,-15.9254,-70.1686,0,-66.5562 1/2:41:0,32,9:0:0:32,9:1129,322:-77.3068,-19.1439,-9.51089,-58.4226,0,-55.7134 1/1:48:0,42,6:0:0:42,6:1512,208:-98.1601,-12.6433,0,-85.8444,-0.0662945,-84.0383 1/2:44:0,33,11:0:0:33,11:1184,396:-101.005,-23.1747,-13.2407,-78.1024,0,-74.7911 1/2:28:0,18,10:0:0:18,10:648,359:-62.3253,-21.0807,-15.6622,-41.5176,0,-38.5073 1/2:68:0,45,23:0:0:45,23:1589,825:-134.378,-48.434,-34.8877,-86.2036,0,-79.2799 1/1:21:0,19,2:0:0:19,2:675,70:-44.824,-5.71957,0,-41.1694,-1.82595,-40.5673 1/2:144:0,122,22:0:0:122,22:4384,777:-292.216,-45.2876,-8.56197,-247.189,0,-240.566 1/2:54:0,39,15:0:0:39,15:1392,531:-92.1457,-27.7744,-16.0343,-64.603,0,-60.0875 1/2:18:0,15,3:0:0:15,3:536,108:-33.2476,-6.51299,-1.99754,-26.9939,0,-26.0908 1/2:24:0,12,12:0:0:12,12:409,422:-39.6924,-22.1697,-18.5573,-17.7389,0,-14.1266 1/2:110:0,88,22:0:0:88,22:3156,777:-195.477,-44.7467,-18.256,-150.982,0,-144.359 1/2:36:0,27,9:0:0:27,9:935,323:-69.0678,-19.5689,-11.4411,-49.762,0,-47.0527 1/2:108:0,94,14:0:0:94,14:3344,504:-240.331,-29.4228,-1.12598,-211.175,0,-206.961 1/1:30:0,27,3:0:0:27,3:972,108:-66.714,-8.12781,0,-60.7153,-1.87155,-59.8122 1/2:31:0,23,8:0:0:23,8:809,287:-59.4088,-16.9952,-10.0715,-42.6723,0,-40.2641 1/2:63:0,48,15:0:0:48,15:1720,539:-124.527,-28.3091,-13.8597,-96.463,0,-91.9475 1/2:34:0,27,7:0:0:27,7:968,251:-66.1834,-14.8325,-6.70471,-51.6115,0,-49.5043 1/2:39:0,29,10:0:0:29,10:1025,357:-75.5605,-19.1234,-10.3935,-56.682,0,-53.6717 1/2:39:0,16,23:0:0:16,23:576,816:-83.1534,-48.0617,-43.2452,-35.3636,0,-28.4399 chr12 13707380 . A G 10189.6 PASS AB=0.450481;ABP=33.9784;AC=17;AF=0.404762;AN=42;AO=655;CIGAR=1X;DP=1731;DPB=1731;DPRA=1.23508;EPP=1425.32;EPPR=2337.34;GTI=0;LEN=1;MEANALT=1.05882;MQM=45.8351;MQMR=33.493;NS=21;NUMALT=1;ODDS=1.551;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23360;QR=38375;RO=1075;RPL=0;RPP=1425.32;RPPR=2337.34;RPR=655;RUN=1;SAF=655;SAP=1425.32;SAR=0;SRF=1075;SRP=2337.34;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:77:44,33:44:1576:33:1184:-82.1686,0,-101.271 0/1:53:38,14:38:1356:14:504:-28.8313,0,-88.9921 0/1:94:55,39:55:1968:39:1404:-96.5705,0,-127.337 0/1:142:75,67:75:2665:67:2339:-165.576,0,-165.309 0/1:160:87,73:87:3105:73:2609:-184.496,0,-197.229 0/1:81:37,44:37:1332:44:1580:-115.392,0,-79.5255 0/1:172:82,90:82:2905:90:3201:-228.996,0,-174.554 0/1:90:47,43:47:1688:43:1548:-110.566,0,-106.858 0/0:104:104,0:104:3705:0:0:0,-31.3071,-296.614 0/0:9:9,0:9:324:0:0:0,-2.70927,-24.3081 0/1:6:4,2:4:144:2:72:-4.936,0,-9.75128 0/1:21:10,11:10:360:11:396:-29.1997,0,-22.1585 0/1:110:61,49:61:2158:49:1738:-120.003,0,-139.846 0/1:113:68,45:68:2432:45:1608:-109.767,0,-159.51 0/1:91:58,33:58:2076:33:1180:-77.115,0,-139.126 0/1:62:25,37:25:884:37:1316:-98.7286,0,-52.5331 0/1:90:39,51:39:1396:51:1817:-134.253,0,-82.6986 0/1:37:21,16:21:737:16:576:-40.5641,0,-46.9444 0/1:55:47,8:47:1680:8:288:-9.48108,0,-115.199 0/0:107:107,0:107:3836:0:0:0,-32.2102,-299.151 0/0:57:57,0:57:2048:0:0:0,-17.1587,-155.835 chr12 13707420 . AAATACAA GAATA,AAATA 29026 PASS AB=0.568488,0.430092;ABP=60.4164,62.8206;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1075,607;CIGAR=1X3M3D1M,4M3D1M;DP=1684;DPB=1052.5;DPRA=0,1.1208;EPP=2337.34,1312.42;EPPR=0;GTI=1;LEN=5,3;MEANALT=1.90476,2.05556;MQM=33.2056,45.9885;MQMR=0;NS=21;NUMALT=2;ODDS=2.13502;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38045,20987;QR=0;RO=0;RPL=1075,606;RPP=2337.34,1312.42;RPPR=0;RPR=0,1;RUN=1,1;SAF=1075,607;SAP=2337.34,1321.09;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/2:78:0,44,34:0:0:44,34:1545,1173:-204.068,-94.4899,-81.2446,-109.906,0,-99.6711 1/2:53:0,40,13:0:0:40,13:1422,460:-134.115,-36.9022,-24.861,-97.5487,0,-93.6353 1/2:90:0,56,32:0:0:56,32:1966,1090:-227.068,-87.7288,-70.8711,-139.347,0,-129.714 1/2:132:0,74,58:0:0:74,58:2595,1982:-341.29,-159.435,-137.159,-182.179,0,-164.72 1/2:157:0,88,69:0:0:88,69:3125,2387:-413.243,-192.289,-165.799,-221.283,0,-200.512 1/2:75:0,36,39:0:0:36,39:1289,1369:-199.006,-109.597,-98.7596,-89.7361,0,-77.9959 1/2:169:0,84,85:0:0:84,85:2945,2941:-437.25,-234.208,-208.922,-203.362,0,-177.775 1/2:88:0,46,42:0:0:46,42:1618,1449:-231.752,-116.537,-102.69,-115.542,0,-102.899 1/1:103:0,103,0:0:0:103,0:3658,0:-293.263,-31.0061,0,-293.263,-31.0061,-293.263 1/1:9:0,9,0:0:0:9,0:324,0:-24.3081,-2.70927,0,-24.3081,-2.70927,-24.3081 1/2:6:0,4,2:0:0:4,2:138,72:-15.8778,-6.14012,-4.936,-10.0759,0,-9.47385 1/2:20:0,10,10:0:0:10,10:354,335:-52.1467,-27.1332,-24.1229,-25.3348,0,-22.3245 1/2:105:0,62,43:0:0:62,43:2214,1498:-278.276,-120.741,-102.077,-157.868,0,-144.923 1/2:112:0,68,44:0:0:68,44:2409,1532:-295.345,-123.896,-103.426,-171.782,0,-158.537 1/2:90:0,57,33:0:0:57,33:2035,1121:-235.2,-89.6163,-72.4575,-145.912,0,-135.978 1/2:58:0,25,33:0:0:25,33:890,1153:-156.727,-93.1277,-85.602,-63.9286,0,-53.9946 1/2:86:0,39,47:0:0:39,47:1375,1622:-226.878,-130.498,-118.758,-96.7031,0,-82.5547 1/2:36:0,22,14:0:0:22,14:777,492:-94.6789,-40.0421,-33.4194,-54.9702,0,-50.7557 1/2:54:0,46,8:0:0:46,8:1641,279:-137.5,-22.8346,-8.98721,-115.006,0,-112.598 1/1:106:0,106,0:0:0:106,0:3755,0:-293.929,-31.9092,0,-293.929,-31.9092,-293.929 1/1:57:0,56,1:0:0:56,1:1970,32:-150.368,-16.8577,0,-147.808,-13.9799,-147.507 chr12 13707432 . A G 15495.5 PASS AB=0.549474;ABP=33.3058;AC=25;AF=0.595238;AN=42;AO=1052;CIGAR=1X;DP=1696;DPB=1696;DPRA=0;EPP=2287.4;EPPR=1399.27;GTI=0;LEN=1;MEANALT=1.04762;MQM=33.27;MQMR=45.9269;NS=21;NUMALT=1;ODDS=3.04393;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=37552;QR=22718;RO=643;RPL=1052;RPP=2287.4;RPPR=1399.27;RPR=0;RUN=1;SAF=1052;SAP=2287.4;SAR=0;SRF=643;SRP=1399.27;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:76:33,43:33:1153:43:1536:-98.1934,0,-80.3248 0/1:54:14,40:14:492:40:1436:-93.6723,0,-27.5933 0/1:94:39,55:39:1369:55:1968:-127.337,0,-93.6921 0/1:134:64,70:64:2268:70:2512:-156.569,0,-161.882 0/1:158:72,86:72:2544:86:3069:-195.978,0,-179.468 0/1:78:43,35:43:1528:35:1256:-75.0664,0,-111.767 0/1:167:87,80:87:3089:80:2857:-170.939,0,-221.117 0/1:90:44,46:44:1557:46:1633:-102.597,0,-111.425 1/1:102:0,102:0:0:102:3660:-292.245,-30.7051,0 1/1:8:0,8:0:0:8:288:-21.4365,-2.40824,0 0/1:6:2,4:2:72:4:144:-9.75128,0,-4.936 0/1:21:11,10:11:388:10:360:-22.1585,0,-28.5789 0/1:106:46,60:46:1594:60:2129:-137.915,0,-108.959 0/1:111:45,66:45:1596:66:2351:-154.611,0,-109.339 0/1:91:34,57:34:1208:57:2044:-136.09,0,-78.8346 0/1:59:34,25:34:1200:25:892:-53.838,0,-89.314 0/1:89:50,39:50:1776:39:1383:-82.161,0,-131.551 0/1:38:16,22:16:560:22:788:-50.5542,0,-38.894 0/1:53:8,45:8:288:45:1567:-108.067,0,-10.0831 1/1:105:0,104:0:0:104:3719:-289.198,-31.3071,0 1/1:56:1,55:1:36:55:1960:-146.488,-13.3092,0 chr12 13845379 . A G 5955.81 PASS AB=0.591667;ABP=46.8017;AC=17;AF=0.404762;AN=42;AO=355;CIGAR=1X;DP=673;DPB=673;DPRA=1.93392;EPP=765.222;EPPR=693.539;GTI=0;LEN=1;MEANALT=1;MQM=50.0873;MQMR=50.2201;NS=21;NUMALT=1;ODDS=2.24534;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12544;QR=11197;RO=318;RPL=354;RPP=765.222;RPPR=693.539;RPR=1;RUN=1;SAF=355;SAP=773.883;SAR=0;SRF=318;SRP=693.539;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:4,18:4:144:18:644:-51.2166,0,-6.64034 0/1:8:1,7:1:36:7:252:-20.5628,0,-1.18099 0/1:11:1,10:1:36:10:360:-29.2944,0,-0.27172 0/1:17:5,12:5:163:12:419:-32.7826,0,-9.83275 0/1:25:8,17:8:284:17:604:-46.9481,0,-18.2779 0/1:11:6,5:6:216:5:180:-13.1991,0,-16.4294 0/1:24:9,15:9:316:15:531:-40.5985,0,-21.4898 0/1:18:4,14:4:144:14:500:-38.2418,0,-7.85145 0/0:19:19,0:19:676:0:0:0,-5.71957,-60.8535 0/0:32:32,0:32:1131:0:0:0,-9.63296,-101.793 0/1:38:12,26:12:428:26:900:-69.4121,0,-26.9597 0/1:95:27,68:27:960:68:2408:-185.884,0,-57.5521 0/1:17:10,7:10:352:7:252:-17.814,0,-26.5662 0/1:14:7,7:7:252:7:252:-18.7202,0,-18.7171 0/1:16:10,6:10:356:6:216:-14.8903,0,-27.4437 0/1:11:6,5:6:204:5:180:-13.151,0,-15.0819 0/1:31:12,19:12:424:19:680:-51.5364,0,-28.973 0/1:234:117,117:117:4079:117:4094:-296.274,0,-294.788 0/1:8:6,2:6:212:2:72:-4.39955,0,-16.9411 0/0:9:9,0:9:320:0:0:0,-2.70927,-28.8331 0/0:13:13,0:13:464:0:0:0,-3.91339,-41.9957 chr12 13845400 . A C 5418.05 PASS AB=0.420099;ABP=36.6699;AC=25;AF=0.595238;AN=42;AO=333;CIGAR=1X;DP=685;DPB=685;DPRA=0;EPP=726.111;EPPR=767.369;GTI=0;LEN=1;MEANALT=1;MQM=50.1532;MQMR=50.0341;NS=21;NUMALT=1;ODDS=2.336;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11743;QR=12590;RO=352;RPL=333;RPP=726.111;RPPR=767.369;RPR=0;RUN=1;SAF=333;SAP=726.111;SAR=0;SRF=352;SRP=767.369;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:26:19,7:19:684:7:248:-14.7552,0,-53.5903 0/1:8:7,1:7:248:1:36:-1.18099,0,-20.203 0/1:11:10,1:10:345:1:36:-0.27172,0,-27.9444 0/1:17:12,5:12:432:5:180:-11.3645,0,-33.9409 0/1:25:17,8:17:604:8:288:-18.6336,0,-46.9481 0/1:12:5,7:5:180:7:252:-19.3587,0,-12.8981 0/1:22:12,10:12:432:10:360:-26.0393,0,-32.3168 0/1:19:13,6:13:468:6:216:-13.7858,0,-34.9679 1/1:21:0,21:0:0:21:756:-68.0119,-6.32163,0 1/1:35:0,35:0:0:35:1232:-110.844,-10.5361,0 0/1:39:25,14:25:896:14:504:-33.2943,0,-68.6619 0/1:97:69,28:69:2464:28:1004:-60.7979,0,-190.301 0/1:17:7,10:7:252:10:352:-26.5662,0,-17.814 0/1:16:7,9:7:252:9:296:-22.0511,0,-18.1182 0/1:16:7,9:7:252:9:324:-24.5645,0,-18.115 0/1:11:5,6:5:180:6:208:-15.2446,0,-13.151 0/1:30:18,12:18:629:12:419:-28.8251,0,-47.1485 0/1:233:117,116:117:4200:116:4071:-294.435,0,-305.747 0/1:8:2,6:2:72:6:207:-16.4871,0,-4.39955 1/1:8:0,8:0:0:8:273:-24.8245,-2.40824,0 1/1:14:0,14:0:0:14:481:-43.335,-4.21442,0 chr12 13845957 . 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A G 15668.8 PASS AB=0.494192;ABP=3.56521;AC=17;AF=0.404762;AN=42;AO=943;CIGAR=1X;DP=2250;DPB=2250;DPRA=5.575;EPP=2050.71;EPPR=2832.45;GTI=0;LEN=1;MEANALT=1;MQM=59.6087;MQMR=59.9572;NS=21;NUMALT=1;ODDS=11.4586;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33628;QR=46776;RO=1307;RPL=0;RPP=2050.71;RPPR=2832.45;RPR=943;RUN=1;SAF=943;SAP=2050.71;SAR=0;SRF=1307;SRP=2841.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:173:72,101:72:2577:101:3557:-268.236,0,-180.099 0/1:171:82,89:82:2940:89:3200:-236.736,0,-213.313 0/1:75:40,35:40:1421:35:1252:-90.4074,0,-105.608 0/1:102:58,44:58:2080:44:1580:-111.757,0,-156.765 0/1:177:92,85:92:3304:85:3022:-218.883,0,-244.296 0/1:116:57,59:57:2025:59:2111:-154.777,0,-147.597 0/1:151:72,79:72:2565:79:2821:-208.575,0,-185.643 0/1:108:53,55:53:1900:55:1957:-143.846,0,-138.767 0/0:164:163,1:163:5856:1:36:0,-45.7706,-523.551 0/0:20:20,0:20:705:0:0:0,-6.0206,-63.7728 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:48:29,19:29:1036:19:680:-47.0797,0,-79.1045 0/1:107:49,58:49:1756:58:2084:-155.618,0,-126.08 0/1:122:67,55:67:2377:55:1935:-137.67,0,-177.461 0/1:178:94,84:94:3376:84:3005:-216.996,0,-250.472 0/1:88:42,46:42:1508:46:1637:-121.125,0,-109.524 0/1:105:53,52:53:1893:52:1860:-136.055,0,-139.038 0/1:78:35,43:35:1256:43:1527:-114.219,0,-89.8649 0/1:89:59,30:59:2108:30:1080:-70.7216,0,-163.198 0/0:111:106,5:106:3808:5:176:0,-17.2293,-326.731 0/0:61:60,1:60:2141:1:36:0,-14.8042,-189.397 chr12 14425976 . 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A G 29129.7 PASS AB=0.503232;ABP=3.2068;AC=25;AF=0.595238;AN=42;AO=1556;CIGAR=1X;DP=2632;DPB=2632;DPRA=0;EPP=3355.81;EPPR=2287.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9949;MQMR=60;NS=21;NUMALT=1;ODDS=20.2736;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55253;QR=38295;RO=1076;RPL=1553;RPP=3355.81;RPPR=2287.69;RPR=3;RUN=1;SAF=0;SAP=3381.82;SAR=1556;SRF=0;SRP=2339.51;SRR=1076;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:131:62,69:62:2202:69:2453:-181.588,0,-159.009 0/1:158:75,83:75:2674:83:2954:-218.531,0,-193.342 0/1:110:53,57:53:1891:57:2040:-150.759,0,-137.354 0/1:178:98,80:98:3508:80:2859:-203.964,0,-262.347 0/1:226:120,106:120:4257:106:3754:-270.027,0,-315.278 0/1:165:79,86:79:2831:86:3041:-224.251,0,-205.358 0/1:177:105,72:105:3720:72:2568:-178.087,0,-281.72 0/1:134:56,78:56:2000:78:2788:-210.823,0,-139.936 1/1:221:0,221:0:0:221:7854:-706.891,-66.5276,0 1/1:28:0,28:0:0:28:1000:-90.3154,-8.42884,0 0/1:14:11,3:11:383:3:108:-5.86075,0,-30.5888 0/1:34:18,16:18:644:16:551:-39.678,0,-48.0556 0/1:135:60,75:60:2118:75:2653:-198.377,0,-150.249 0/1:81:42,39:42:1500:39:1345:-96.9595,0,-110.911 0/1:151:73,78:73:2592:78:2768:-203.907,0,-188.072 0/1:98:52,46:52:1864:46:1648:-119.108,0,-138.538 0/1:140:69,71:69:2437:71:2514:-184.366,0,-177.44 0/1:127:66,61:66:2346:61:2142:-154.814,0,-173.168 0/1:107:37,70:37:1328:70:2491:-192.233,0,-87.612 1/1:141:0,141:0:0:141:5033:-453.108,-42.4452,0 1/1:76:0,76:0:0:76:2689:-242.254,-22.8783,0 chr12 16080713 . 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A T 10047.9 PASS AB=0.508058;ABP=3.67519;AC=16;AF=0.380952;AN=42;AO=600;CIGAR=1X;DP=1441;DPB=1441;DPRA=1.66953;EPP=1305.89;EPPR=1829.22;GTI=0;LEN=1;MEANALT=1;MQM=59.9917;MQMR=59.9976;NS=21;NUMALT=1;ODDS=0.710369;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21390;QR=29998;RO=841;RPL=0;RPP=1305.89;RPPR=1829.22;RPR=600;RUN=1;SAF=0;SAP=1305.89;SAR=600;SRF=0;SRP=1829.22;SRR=841;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:26,36:26:924:36:1288:-97.5597,0,-64.8138 0/1:34:12,22:12:428:22:769:-59.2936,0,-28.6238 0/1:54:20,34:20:720:34:1212:-93.1307,0,-48.8732 0/1:104:52,52:52:1860:52:1864:-136.732,0,-136.372 0/1:180:87,93:87:3099:93:3340:-246.631,0,-224.953 0/1:90:47,43:47:1668:43:1548:-112.52,0,-123.315 0/1:96:44,52:44:1576:52:1836:-136.619,0,-113.233 0/1:75:40,35:40:1419:35:1247:-89.9568,0,-105.429 0/0:126:126,0:126:4487:0:0:0,-37.9298,-404 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:20:15,5:15:527:5:176:-10.1644,0,-41.7396 0/1:102:64,38:64:2300:38:1360:-91.9955,0,-176.556 0/1:81:35,46:35:1233:46:1648:-124.225,0,-86.8887 0/1:81:41,40:41:1472:40:1409:-102.722,0,-108.393 0/1:39:16,23:16:572:23:828:-63.1039,0,-40.0733 0/1:33:8,25:8:288:25:882:-69.7622,0,-16.3334 0/1:63:31,32:31:1099:32:1123:-82.4105,0,-80.2546 0/1:65:42,23:42:1495:23:824:-54.9164,0,-115.277 0/0:84:83,1:83:2976:1:36:0,-21.6882,-264.474 0/0:42:42,0:42:1495:0:0:0,-12.6433,-134.844 chr12 16080833 . C A 15812.1 PASS AB=0.490787;ABP=3.89053;AC=26;AF=0.619048;AN=42;AO=849;CIGAR=1X;DP=1458;DPB=1458;DPRA=0;EPP=1846.59;EPPR=1321.09;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9859;MQMR=59.9984;NS=21;NUMALT=1;ODDS=0.599763;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30332;QR=21646;RO=607;RPL=0;RPP=1846.59;RPPR=1321.09;RPR=849;RUN=1;SAF=0;SAP=1846.59;SAR=849;SRF=0;SRP=1321.09;SRR=607;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:63:37,26:37:1324:26:923:-64.4219,0,-100.497 0/1:34:22,11:22:784:11:388:-24.9642,0,-60.5903 0/1:57:37,20:37:1309:20:712:-47.2479,0,-100.951 0/1:107:54,53:54:1923:53:1892:-138.347,0,-141.136 0/1:184:95,89:95:3384:89:3176:-230.673,0,-249.385 0/1:92:43,49:43:1536:49:1741:-129.274,0,-110.838 0/1:99:55,44:55:1959:44:1567:-111.519,0,-146.782 0/1:75:35,40:35:1235:40:1425:-105.968,0,-88.8762 1/1:128:0,128:0:0:128:4591:-413.353,-38.5318,0 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:20:5,15:5:180:15:540:-42.9159,0,-10.5315 0/1:101:37,64:37:1313:64:2291:-176.047,0,-88.0657 0/1:82:47,35:47:1688:35:1230:-86.318,0,-127.522 0/1:82:40,42:40:1440:42:1512:-111.69,0,-105.213 0/1:38:22,16:22:788:16:576:-40.7358,0,-59.8057 0/1:33:24,8:24:860:8:288:-16.3989,0,-67.8634 0/1:63:31,32:31:1107:32:1142:-84.124,0,-80.9753 0/1:64:22,42:22:780:42:1504:-116.389,0,-51.2571 1/1:84:1,83:1:36:83:2980:-264.834,-21.6882,0 1/1:42:0,42:0:0:42:1494:-134.753,-12.6433,0 chr12 16088087 . T C 16790.8 PASS AB=0.484878;ABP=7.14788;AC=17;AF=0.404762;AN=42;AO=1011;CIGAR=1X;DP=2590;DPB=2590;DPRA=2.21823;EPP=2198.37;EPPR=3420.91;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.2532;MQMR=59.9924;NS=21;NUMALT=1;ODDS=36.3436;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36066;QR=55550;RO=1578;RPL=0;RPP=2198.37;RPPR=3420.91;RPR=1011;RUN=1;SAF=0;SAP=2198.37;SAR=1011;SRF=0;SRP=3429.59;SRR=1578;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:74:41,32:41:1460:32:1140:-80.5614,0,-109.359 0/1:27:10,17:10:360:17:612:-47.2415,0,-24.6165 0/1:56:25,31:25:881:31:1109:-83.26,0,-62.7482 0/1:55:25,30:25:892:30:1080:-80.9543,0,-64.043 0/1:107:48,59:48:1693:59:2095:-156.575,0,-120.444 0/1:49:28,21:28:981:21:752:-53.2476,0,-73.8506 0/1:124:62,62:62:2167:62:2224:-162.856,0,-157.965 0/1:117:75,42:75:2632:42:1500:-100.014,0,-201.91 0/0:104:104,0:104:3677:0:0:0,-31.3071,-331.136 0/0:326:325,1:325:11462:1:36:0,-94.5375,-1027.87 0/1:495:281,214:281:9875:214:7615:-535.806,0,-739.692 0/1:228:107,121:107:3762:121:4342:-322.131,0,-270.145 0/1:45:16,29:16:572:29:1036:-80.0029,0,-38.2671 0/1:34:14,20:14:473:20:716:-54.5327,0,-32.6562 0/1:89:53,36:53:1842:36:1292:-89.4411,0,-139.265 0/1:41:21,20:21:748:20:712:-52.0626,0,-55.3031 0/1:67:33,34:33:1180:34:1224:-89.9792,0,-86.339 0/1:432:208,224:208:7335:224:7937:-582.951,0,-530.164 0/1:43:25,18:25:858:18:644:-45.3454,0,-64.5858 0/0:39:39,0:39:1360:0:0:0,-11.7402,-122.696 0/0:38:38,0:38:1340:0:0:0,-11.4391,-120.9 chr12 16088093 . CTAT CTAC,GTAC 55200.1 PASS AB=0.526676,0.470588;ABP=16.5649,19.4879;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1683,1033;CIGAR=3M1X,1X2M1X;DP=2724;DPB=2724.25;DPRA=0,2.31421;EPP=3657.6,2246.14;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.19048,2.38889;MQM=59.9905,59.2856;MQMR=60;NS=21;NUMALT=2;ODDS=38.6792;PAIRED=0,0;PAIREDR=0;PAO=0.5,0;PQA=18,0;PQR=18;PRO=0.5;QA=60052,36201;QR=36;RO=1;RPL=0,0;RPP=3657.6,2246.14;RPPR=5.18177;RPR=1683,1033;RUN=1,1;SAF=0,0;SAP=3657.6,2246.14;SAR=1683,1033;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:76:0,44,32:0:0:44,32:1562,1138:-220.353,-93.0836,-79.8383,-127.624,0,-117.991 1/2:28:0,10,18:0:0:10,18:360,618:-79.858,-50.4778,-47.4675,-29.734,0,-24.3155 1/2:56:0,25,31:0:0:25,31:896,1103:-163.323,-90.2452,-82.7195,-73.4346,0,-64.1027 1/2:57:0,25,32:0:0:25,32:896,1129:-165.359,-92.2807,-84.7549,-73.4346,0,-63.8016 1/2:111:0,52,58:0:0:52,58:1856,2055:-318.799,-167.488,-151.834,-151.423,0,-133.964 1/2:53:0,32,21:0:0:32,21:1152,736:-154.235,-60.232,-50.599,-94.3572,0,-88.0356 1/2:134:0,72,62:0:0:72,62:2576,2154:-385.477,-175.413,-153.739,-210.415,0,-191.752 1/2:123:0,80,43:0:0:80,43:2856,1500:-355.132,-122.287,-98.205,-233.196,0,-220.252 1/1:107:0,107,0:0:0:107,0:3817,0:-343.727,-32.2102,0,-343.727,-32.2102,-343.727 1/1:348:0,345,1:0:0:345,1:12333,36:-1109.5,-103.855,0,-1106.56,-100.895,-1106.26 1/2:536:1,313,221:1:36:313,221:11152,7699:-1531.27,-622.578,-531.293,-906.05,0,-842.46 1/2:239:0,112,127:0:0:112,127:4012,4441:-688.672,-361.472,-327.757,-327.553,0,-289.323 1/2:48:0,18,30:0:0:18,30:648,1069:-140.361,-87.4865,-82.068,-53.2333,0,-44.2024 1/2:37:0,17,20:0:0:17,20:593,699:-105.44,-57.2112,-52.0937,-48.5782,0,-42.5576 1/2:94:0,58,35:0:0:58,35:2084,1252:-272.113,-102.101,-84.6408,-170.055,0,-159.519 1/2:44:0,23,20:0:0:23,20:814,699:-123.157,-56.8515,-49.9278,-66.2974,0,-60.2768 1/2:68:0,32,36:0:0:32,36:1144,1248:-194.978,-101.694,-92.0606,-93.6366,0,-82.7995 1/2:443:0,215,227:0:0:215,227:7641,7977:-1271.27,-648.613,-583.892,-622.646,0,-554.313 1/2:46:0,27,19:0:0:27,19:953,648:-130.525,-52.9154,-44.7876,-77.9555,0,-72.2359 1/1:39:0,39,0:0:0:39,0:1392,0:-125.579,-11.7402,0,-125.579,-11.7402,-125.579 1/1:37:0,37,0:0:0:37,0:1315,0:-118.651,-11.1381,0,-118.651,-11.1381,-118.651 chr12 16111600 . G A 28501.9 PASS AB=0.495871;ABP=3.38687;AC=17;AF=0.404762;AN=42;AO=1266;CIGAR=1X;DP=3028;DPB=3028;DPRA=2.48609;EPP=2752.09;EPPR=3818.29;GTI=0;LEN=1;MEANALT=1.05263;MQM=59.9423;MQMR=59.983;NS=21;NUMALT=1;ODDS=12.8317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45154;QR=62064;RO=1761;RPL=491;RPP=141.353;RPPR=122.276;RPR=775;RUN=1;SAF=491;SAP=141.353;SAR=775;SRF=724;SRP=123.815;SRR=1037;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:85,101:85:3026:101:3608:-268.935,0,-216.579 0/1:145:76,69:76:2716:69:2476:-179.444,0,-201.035 0/1:76:33,43:33:1171:43:1540:-116.015,0,-82.8184 0/1:179:106,73:106:3704:73:2592:-179.644,0,-279.678 0/1:366:170,195:170:5965:195:6931:-513.622,0,-426.727 0/1:126:56,70:56:2004:70:2463:-183.943,0,-142.704 0/1:253:136,117:136:4842:117:4177:-299.951,0,-359.775 0/1:127:64,63:64:2256:63:2259:-165.342,0,-165.071 0/0:217:215,2:215:7616:2:72:0,-58.4868,-678.277 0/0:14:14,0:14:483:0:0:0,-4.21442,-43.7967 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:35:15,20:15:532:20:720:-54.5927,0,-37.677 0/1:138:67,71:67:2366:71:2521:-185.593,0,-171.656 0/1:156:65,91:65:2290:91:3245:-245.31,0,-159.398 0/1:197:93,104:93:3260:104:3707:-274.53,0,-234.318 0/1:119:64,55:64:2232:55:1968:-141.572,0,-165.318 0/1:121:70,51:70:2495:51:1836:-129.096,0,-188.378 0/1:143:64,79:64:2165:79:2819:-210.902,0,-152.063 0/1:167:110,57:110:3846:57:2040:-133.6,0,-296.064 0/0:145:142,3:142:5018:3:108:0,-33.5742,-441.695 0/0:109:109,0:109:3825:0:0:0,-32.8123,-344.447 chr12 16112664 . A G 13180.2 PASS AB=0.475278;ABP=11.5996;AC=16;AF=0.380952;AN=42;AO=769;CIGAR=1X;DP=1933;DPB=1933;DPRA=1.60516;EPP=1511.92;EPPR=2144.69;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.7264;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27166;QR=41593;RO=1163;RPL=750;RPP=1511.92;RPPR=2160.71;RPR=19;RUN=1;SAF=769;SAP=1672.87;SAR=0;SRF=1161;SRP=2511.09;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:55,65:55:1972:65:2319:-172.846,0,-141.631 0/1:51:24,27:24:856:27:956:-71.0032,0,-62.0086 0/1:65:36,29:36:1277:29:991:-69.926,0,-95.6642 0/1:130:63,67:63:2253:67:2386:-175.862,0,-163.897 0/1:197:103,93:103:3655:93:3237:-232.189,0,-269.789 0/1:75:40,35:40:1432:35:1229:-88.3346,0,-106.6 0/1:187:111,76:111:3964:76:2697:-186.681,0,-300.659 0/1:83:38,45:38:1368:45:1592:-118.583,0,-98.4353 0/0:135:135,0:135:4832:0:0:0,-40.639,-435.035 0/0:11:11,0:11:396:0:0:0,-3.31133,-35.9827 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:17:9,8:9:324:8:288:-21.1499,0,-24.3883 0/1:117:59,58:59:2120:58:2063:-150.72,0,-155.848 0/1:110:65,45:65:2328:45:1592:-110.454,0,-176.667 0/1:154:71,83:71:2528:83:2938:-218.294,0,-181.414 0/1:80:42,38:42:1500:38:1341:-96.9056,0,-111.212 0/1:83:51,32:51:1816:32:1148:-78.6443,0,-138.736 0/1:77:38,39:38:1356:39:1368:-100.236,0,-99.1612 0/1:72:43,29:43:1544:29:1021:-70.5261,0,-117.579 0/0:113:113,0:113:4064:0:0:0,-34.0164,-365.945 0/0:51:51,0:51:1832:0:0:0,-15.3525,-165.161 chr12 16380216 . T C 24301.4 PASS AB=0.565766;ABP=65.5604;AC=26;AF=0.619048;AN=42;AO=1283;CIGAR=1X;DP=2011;DPB=2011;DPRA=0;EPP=2780.33;EPPR=1575.17;GTI=0;LEN=1;MEANALT=1;MQM=59.9891;MQMR=59.9876;NS=21;NUMALT=1;ODDS=11.1361;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45719;QR=26001;RO=728;RPL=1282;RPP=2780.33;RPPR=1575.17;RPR=1;RUN=1;SAF=0;SAP=2789.01;SAR=1283;SRF=0;SRP=1583.84;SRR=728;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:100:37,63:37:1332:63:2226:-170.498,0,-90.0794 0/1:86:33,53:33:1184:53:1893:-144.758,0,-80.9797 0/1:79:32,47:32:1137:47:1673:-127.074,0,-78.8556 0/1:103:45,58:45:1589:58:2054:-154.122,0,-112.288 0/1:298:122,176:122:4349:176:6271:-474.771,0,-301.875 0/1:114:59,55:59:2120:55:1946:-141.095,0,-156.751 0/1:192:69,123:69:2439:123:4371:-335.764,0,-161.963 0/1:62:29,33:29:1044:33:1169:-86.8514,0,-75.6109 1/1:158:0,158:0:0:158:5623:-506.189,-47.5627,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:14:1,13:1:36:13:464:-38.4992,-0.616145,0 0/1:16:7,9:7:252:9:324:-24.6894,0,-18.2125 0/1:86:45,41:45:1601:41:1472:-106.888,0,-118.49 0/1:94:44,50:44:1580:50:1781:-132.275,0,-114.195 0/1:142:70,72:70:2520:72:2588:-190.418,0,-184.305 0/1:98:45,53:45:1601:53:1878:-139.794,0,-114.877 0/1:66:28,38:28:1000:38:1345:-101.48,0,-70.4474 0/1:67:40,27:40:1440:27:957:-66.2749,0,-109.729 0/1:62:18,44:18:648:44:1576:-123.468,0,-39.988 1/1:129:4,125:4:129:125:4488:-392.16,-26.9052,0 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 chr12 16491137 . G A 75526.2 PASS AB=0.424993;ABP=363.942;AC=22;AF=0.52381;AN=42;AO=4284;CIGAR=1X;DP=8547;DPB=8547;DPRA=0;EPP=9305.6;EPPR=9253.48;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9713;MQMR=59.9812;NS=21;NUMALT=1;ODDS=114.278;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=152387;QR=151849;RO=4260;RPL=0;RPP=9305.6;RPPR=9253.48;RPR=4284;RUN=1;SAF=4284;SAP=9305.6;SAR=0;SRF=4260;SRP=9253.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:243:168,75:168:5993:75:2660:-166.493,0,-466.322 0/1:215:138,77:138:4960:77:2744:-182.482,0,-381.825 0/1:190:124,66:124:4414:66:2364:-155.823,0,-340.235 0/1:268:195,73:195:6920:73:2605:-154.021,0,-542.191 0/1:313:229,84:229:8104:84:2987:-174.839,0,-635.159 0/1:140:102,38:102:3625:38:1356:-80.1963,0,-284.309 0/1:250:170,80:170:6047:80:2845:-181.03,0,-469.075 0/1:247:189,58:189:6730:58:2034:-108.974,0,-531.421 0/1:349:94,255:94:3356:255:9053:-709.687,0,-197.198 1/1:1161:16,1145:16:568:1145:40622:-3603.19,-298.044,0 0/1:967:477,489:477:16994:489:17413:-1275.64,0,-1237.95 0/1:1659:835,822:835:29787:822:29202:-2128.09,0,-2180.77 0/1:352:254,98:254:9036:98:3489:-208.258,0,-707.256 0/1:254:164,90:164:5794:90:3204:-212.123,0,-445.042 0/1:342:227,115:227:8136:115:4087:-264.834,0,-629.297 0/1:150:80,70:80:2857:70:2500:-180.097,0,-212.212 0/1:111:71,40:71:2514:40:1403:-93.1498,0,-193.095 0/1:909:484,425:484:17336:425:15232:-1096.9,0,-1286.21 0/1:110:69,41:69:2438:41:1475:-99.9329,0,-186.559 0/1:213:126,87:126:4512:87:3115:-216.438,0,-342.124 0/1:104:48,56:48:1728:56:1997:-148.695,0,-124.498 chr12 16491158 . G A 35550.9 PASS AB=0.40842;ABP=442.497;AC=17;AF=0.404762;AN=42;AO=2475;CIGAR=1X;DP=7815;DPB=7815;DPRA=1.74335;EPP=5342.72;EPPR=11352.3;GTI=0;LEN=1;MEANALT=1.26316;MQM=59.9737;MQMR=59.9783;NS=21;NUMALT=1;ODDS=15.8129;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85321;QR=189515;RO=5334;RPL=2470;RPP=5334.06;RPPR=11343.7;RPR=5;RUN=1;SAF=2474;SAP=5368.72;SAR=1;SRF=5333;SRP=11577;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:211:121,90:121:4310:90:3080:-213.916,0,-324.56 0/1:188:123,65:123:4374:65:2248:-145.99,0,-337.242 0/1:183:127,55:127:4519:55:1920:-117.93,0,-351.733 0/1:247:158,89:158:5617:89:3075:-202.628,0,-431.3 0/1:285:187,98:187:6630:98:3374:-218.087,0,-510.99 0/1:124:65,59:65:2311:59:2030:-145.643,0,-170.923 0/1:230:123,107:123:4283:107:3687:-262.804,0,-316.415 0/1:206:117,89:117:4172:89:3066:-214.163,0,-313.652 0/0:339:339,0:339:12031:0:0:0,-102.049,-1082.65 0/0:1130:1123,7:1123:39988:7:233:0,-318.87,-3576.32 0/1:848:478,367:478:17023:367:12558:-875.367,0,-1276.99 0/1:1485:829,655:829:29495:655:22634:-1589.49,0,-2206.47 0/1:329:219,110:219:7795:110:3814:-244.426,0,-602.387 0/1:230:168,62:168:5935:62:2141:-123.647,0,-465.028 0/1:310:189,120:189:6725:120:4157:-281.091,0,-512.099 0/1:140:86,54:86:3059:54:1888:-128.055,0,-233.396 0/1:109:54,55:54:1923:55:1928:-140.984,0,-140.534 0/1:807:445,362:445:15792:362:12397:-872.694,0,-1178 0/1:101:74,27:74:2592:27:951:-55.4995,0,-203.123 0/0:207:203,4:203:7195:4:140:0,-49.3686,-634.537 0/0:106:106,0:106:3746:0:0:0,-31.9092,-337.341 chr12 16491194 . T A 35163.5 PASS AB=0.364234;ABP=757.728;AC=20;AF=0.47619;AN=42;AO=1724;CIGAR=1X;DP=4824;DPB=4824;DPRA=0;EPP=4.30008;EPPR=479.925;GTI=2;LEN=1;MEANALT=1.04762;MQM=59.9455;MQMR=59.9681;NS=21;NUMALT=1;ODDS=12.5361;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61654;QR=110945;RO=3099;RPL=846;RPP=4.30008;RPPR=482.24;RPR=878;RUN=1;SAF=0;SAP=3746.63;SAR=1724;SRF=1;SRP=6723.72;SRR=3098;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:317:231,86:231:8264:86:3084:-182.33,0,-648.345 0/1:164:128,36:128:4588:36:1283:-66.4037,0,-363.715 0/1:278:202,76:202:7216:76:2728:-162.076,0,-565.807 0/1:277:127,150:127:4513:150:5330:-396.449,0,-322.954 0/1:548:352,196:352:12608:196:6998:-464.857,0,-969.579 0/1:237:169,68:169:6055:68:2444:-148.87,0,-473.708 0/1:276:244,32:244:8720:32:1148:-20.5171,0,-701.706 0/1:223:111,112:111:3996:112:4016:-294.499,0,-292.698 0/1:425:279,145:279:10008:145:5179:-338.254,0,-771.553 0/1:22:16,6:16:572:6:216:-13.1679,0,-45.1908 0/1:20:8,12:8:288:12:432:-33.2006,0,-20.2468 0/1:85:51,34:51:1824:34:1224:-84.8779,0,-138.854 0/1:304:157,147:157:5628:147:5263:-382.292,0,-415.127 0/1:279:156,123:156:5604:123:4386:-310.865,0,-420.122 0/1:343:284,59:284:10172:59:2107:-86.6453,0,-812.149 0/1:181:111,70:111:3980:70:2503:-171.035,0,-303.903 0/0:110:103,7:103:3672:7:252:0,-10.0843,-307.653 0/1:154:66,88:66:2368:88:3164:-238.625,0,-167.019 0/1:167:76,91:76:2732:91:3259:-243.258,0,-195.85 0/1:295:163,132:163:5805:132:4707:-334.983,0,-433.726 0/1:119:65,54:65:2332:54:1931:-138.243,0,-174.317 chr12 16613700 . 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T A 7639.24 PASS AB=0.386233;ABP=61.8061;AC=23;AF=0.547619;AN=42;AO=328;CIGAR=1X;DP=690;DPB=690;DPRA=0;EPP=19.5612;EPPR=127.396;GTI=2;LEN=1;MEANALT=1;MQM=59.4543;MQMR=60;NS=21;NUMALT=1;ODDS=2.61822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11692;QR=12794;RO=362;RPL=0;RPP=715.253;RPPR=789.083;RPR=328;RUN=1;SAF=189;SAP=19.5612;SAR=139;SRF=109;SRP=127.396;SRR=253;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:13:5,8:5:171:8:288:-22.354,0,-11.8121 0/1:23:13,10:13:464:10:360:-25.8206,0,-35.1738 0/1:6:1,5:1:36:5:180:-14.735,0,-1.79209 0/1:17:4,13:4:136:13:468:-37.3283,0,-7.45803 0/1:29:15,14:15:532:14:504:-36.9682,0,-39.4832 0/1:21:8,13:8:288:13:450:-34.5019,0,-19.9458 0/1:18:10,8:10:360:8:288:-20.8465,0,-27.3258 0/1:23:7,16:7:248:16:576:-45.2467,0,-15.7405 1/1:33:0,33:0:0:33:1188:-107.229,-9.93399,0 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/0:42:41,1:41:1460:1:36:0,-9.04498,-128.098 0/1:52:47,5:47:1639:5:180:-0.898505,0,-132.141 0/1:15:12,3:12:432:3:108:-5.55972,0,-34.7057 0/1:20:13,7:13:450:7:248:-16.6436,0,-34.8079 0/1:35:11,24:11:396:24:860:-67.0995,0,-25.4467 0/1:10:4,6:4:144:6:216:-16.7798,0,-10.3033 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:179:148,31:148:5214:31:1107:-46.0476,0,-415.52 0/1:51:16,35:16:572:35:1247:-97.1815,0,-36.4609 1/1:8:0,8:0:0:8:273:-24.9002,-2.40824,0 1/1:84:0,84:0:0:84:2975:-267.856,-25.2865,0 chr12 17645079 . G A 7467.06 PASS AB=0.406383;ABP=38.7888;AC=22;AF=0.52381;AN=42;AO=322;CIGAR=1X;DP=692;DPB=692;DPRA=0;EPP=16.0661;EPPR=142.196;GTI=1;LEN=1;MEANALT=1;MQM=59.4099;MQMR=59.9973;NS=21;NUMALT=1;ODDS=1.59613;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=11469;QR=13157;RO=370;RPL=322;RPP=702.224;RPPR=780.609;RPR=0;RUN=1;SAF=183;SAP=16.0661;SAR=139;SRF=105;SRP=153.253;SRR=265;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9397 0/1:25:15,10:15:522:10:352:-24.4924,0,-39.7815 0/1:6:1,5:1:27:5:180:-14.735,0,-0.893603 0/1:17:4,13:4:131:13:464:-36.9662,0,-6.99596 0/1:27:14,13:14:504:13:460:-33.6076,0,-37.5703 0/1:20:8,12:8:284:12:428:-32.8205,0,-19.8828 0/1:18:11,7:11:396:7:248:-17.2433,0,-30.5642 0/1:22:7,15:7:248:15:536:-41.9475,0,-16.0415 1/1:33:0,33:0:0:33:1184:-106.868,-9.93399,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/0:43:42,1:42:1485:1:36:0,-9.34601,-130.344 0/0:54:49,5:49:1752:5:176:0,-0.0705999,-141.779 0/1:13:10,3:10:352:3:108:-6.16178,0,-28.1048 0/1:23:15,8:15:540:8:276:-18.2444,0,-42.0128 0/1:35:11,24:11:392:24:851:-66.2994,0,-25.084 0/1:10:4,6:4:144:6:212:-16.4141,0,-10.3033 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:180:150,30:150:5345:30:1068:-42.2385,0,-426.998 0/1:51:17,34:17:603:34:1220:-94.7543,0,-39.247 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 1/1:84:0,84:0:0:84:2986:-268.848,-25.2865,0 chr12 17648996 . ATGTCCTG ATGTCTG,GTCTG 40827.1 PASS AB=0.416808,0.578116;ABP=109.594,96.9837;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1014,1025;CIGAR=4M1D3M,1X1M3D3M;DP=2048;DPB=1535;DPRA=0,1.51701;EPP=2204.88,2228.77;EPPR=0;GTI=1;LEN=1,5;MEANALT=2.2381,2.52941;MQM=60,59.8566;MQMR=0;NS=21;NUMALT=2;ODDS=2.09351;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35832,35965;QR=0;RO=0;RPL=4,2;RPP=2170.28,2211.43;RPPR=0;RPR=1010,1023;RUN=1,1;SAF=4,2;SAP=2170.28,2211.43;SAR=1010,1023;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:48:0,14,34:0:0:14,34:500,1180:-136.876,-96.1079,-91.8935,-41.1218,0,-30.8867 1/2:98:0,36,61:0:0:36,61:1280,2148:-279.274,-174.961,-164.124,-104.404,0,-86.0408 1/2:73:0,32,40:0:0:32,40:1128,1403:-206.007,-114.163,-104.53,-91.8357,0,-79.7945 1/2:201:0,76,125:0:0:76,125:2711,4381:-577.834,-356.833,-333.955,-221.355,0,-183.727 1/2:184:0,73,110:0:0:73,110:2597,3882:-527.832,-316.183,-294.208,-211.722,0,-178.609 1/2:75:0,30,45:0:0:30,45:1072,1579:-216.259,-128.852,-119.821,-87.7616,0,-74.2152 1/2:184:0,78,102:0:0:78,102:2759,3573:-515.316,-290.595,-267.115,-224.728,0,-194.022 1/2:88:0,28,60:0:0:28,60:1000,2100:-252.737,-171.205,-162.776,-81.8865,0,-63.8247 1/1:137:0,137,0:0:0:137,0:4860,0:-437.559,-41.2411,0,-437.559,-41.2411,-437.559 1/1:17:0,17,0:0:0:17,0:591,0:-53.5153,-5.11751,0,-53.5153,-5.11751,-53.5153 1/2:9:0,4,5:0:0:4,5:140,180:-26.4331,-15.0469,-13.8428,-11.7405,0,-10.2353 1/2:32:0,12,20:0:0:12,20:424,705:-92.2845,-57.7533,-54.1409,-34.8841,0,-28.8635 1/2:123:0,75,48:0:0:75,48:2623,1679:-350.335,-136.945,-114.367,-213.74,0,-199.291 1/2:80:0,32,46:0:0:32,46:1116,1609:-221.655,-130.89,-121.257,-90.7552,0,-76.9078 1/2:172:0,70,102:0:0:70,102:2491,3519:-489.23,-286.21,-265.138,-203.371,0,-172.666 1/2:84:0,26,58:0:0:26,58:911,2048:-241.258,-167.131,-159.304,-74.4782,0,-57.0184 1/2:113:0,45,68:0:0:45,68:1580,2408:-324.717,-196.128,-182.581,-128.941,0,-108.471 1/2:135:0,61,74:0:0:61,74:2135,2608:-386.392,-212.687,-194.325,-174.056,0,-151.78 1/2:74:0,47,27:0:0:47,27:1648,963:-212.961,-78.859,-64.7106,-134.457,0,-126.329 1/1:60:0,60,0:0:0:60,0:2135,0:-192.418,-18.0618,0,-192.418,-18.0618,-192.418 1/1:61:0,61,0:0:0:61,0:2131,0:-192.059,-18.3628,0,-192.059,-18.3628,-192.059 chr12 17699520 . CT CA,AA 14198.9 PASS AB=0.395257,0.602767;ABP=51.229,49.4266;AC=24,18;AF=0.571429,0.428571;AN=42;AO=377,320;CIGAR=1M1X,2X;DP=698;DPB=698.5;DPRA=2.27667,0.692589;EPP=821.655,697.881;EPPR=0;GTI=1;LEN=1,2;MEANALT=1.85,2;MQM=59.8435,59.7437;MQMR=0;NS=21;NUMALT=2;ODDS=1.19572;PAIRED=0,0;PAIREDR=0;PAO=0,1;PQA=0,36;PQR=0;PRO=0;QA=13456,11266;QR=0;RO=0;RPL=0,0;RPP=821.655,697.881;RPPR=0;RPR=377,320;RUN=1,1;SAF=0,0;SAP=821.655,697.881;SAR=377,320;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:48:0,10,37:0:0:10,37:360,1265:-132.025,-102.647,-99.6371,-29.3742,0,-18.2361 2/2:15:0,0,15:0:0:0,15:0,527:-47.3296,-47.3296,-47.3296,-4.51545,-4.51545,0 1/2:22:0,10,12:0:0:10,12:360,424:-64.2603,-34.8831,-31.8728,-29.734,0,-26.1216 1/2:25:0,12,13:0:0:12,13:428,466:-72.8861,-38.0052,-34.3928,-34.8787,0,-30.9653 1/2:88:0,27,61:0:0:27,61:964,2162:-255.075,-176.482,-168.355,-78.949,0,-60.5862 1/2:13:0,3,10:0:0:3,10:108,347:-37.1389,-28.323,-27.4199,-9.17208,0,-6.16178 1/2:56:0,16,40:0:0:16,40:568,1436:-163.775,-117.497,-112.68,-46.6345,0,-34.5933 1/2:24:0,11,13:0:0:11,13:396,451:-69.3225,-37.0049,-33.6936,-32.6714,0,-28.758 1/1:31:0,31,0:0:0:31,0:1078,0:-97.3243,-9.33193,0,-97.3243,-9.33193,-97.3243 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:4:0,3,1:0:0:3,1:104,36:-11.7405,-3.29724,-2.39415,-8.79971,0,-8.49868 1/2:39:0,29,10:0:0:29,10:1044,353:-114.289,-29.0987,-20.3688,-85.5449,0,-82.5346 1/2:42:0,18,24:0:0:18,24:648,854:-122.831,-69.9562,-64.5376,-53.2333,0,-46.0086 1/2:25:0,15,10:0:0:15,10:540,344:-72.3514,-28.2805,-23.7651,-44.4211,0,-41.4108 1/2:30:0,8,22:0:0:8,22:288,746:-84.3328,-60.8279,-58.4197,-23.8592,0,-17.2365 1/2:15:0,5,10:0:0:5,10:180,356:-44.0596,-29.3712,-27.866,-15.0469,0,-12.0366 1/2:22:0,3,19:0:0:3,19:108,682:-64.8009,-55.9885,-55.0854,-9.17208,0,-3.45251 1/2:33:0,19,14:0:0:19,14:680,502:-96.7543,-41.3028,-35.5832,-55.8096,0,-51.5952 1/2:20:0,11,9:0:0:11,9:392,315:-57.9344,-25.9784,-22.6671,-32.3087,0,-29.5995 1/1:120:0,120,0:0:0:120,0:4282,0:-385.467,-36.1236,0,-385.467,-36.1236,-385.467 1/1:20:0,20,0:0:0:20,0:712,0:-64.3367,-6.0206,0,-64.3367,-6.0206,-64.3367 chr12 17699574 . CA TG,CG 14311.7 PASS AB=0.399217,0.600783;ABP=48.0928,48.0928;AC=24,18;AF=0.571429,0.428571;AN=42;AO=380,322;CIGAR=2X,1M1X;DP=702;DPB=702;DPRA=2.29,0.703209;EPP=828.17,702.224;EPPR=0;GTI=1;LEN=2,1;MEANALT=1.8,1.94118;MQM=59.85,59.736;MQMR=0;NS=21;NUMALT=2;ODDS=1.17712;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=13355,11553;QR=0;RO=0;RPL=380,322;RPP=828.17,702.224;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=828.17,702.224;SAR=380,322;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:51:0,10,41:0:0:10,41:360,1468:-149.445,-120.07,-117.06,-29.734,0,-17.3918 2/2:15:0,0,15:0:0:0,15:0,540:-48.5062,-48.5062,-48.5062,-4.51545,-4.51545,0 1/2:21:0,10,11:0:0:10,11:360,396:-62.0452,-32.671,-29.6607,-29.734,0,-26.4227 1/2:27:0,13,14:0:0:13,14:444,504:-77.4955,-41.4833,-37.5699,-36.3625,0,-32.1481 1/2:88:0,27,61:0:0:27,61:941,2196:-256.064,-179.541,-171.413,-76.8748,0,-58.512 1/2:13:0,3,10:0:0:3,10:106,360:-38.0457,-29.4136,-28.5105,-8.98601,0,-5.97571 1/2:58:0,18,40:0:0:18,40:646,1440:-170.549,-117.857,-112.438,-53.0519,0,-41.0107 1/2:24:0,11,13:0:0:11,13:385,461:-69.2245,-37.9036,-34.5923,-31.6729,0,-27.7595 1/1:31:0,31,0:0:0:31,0:1063,0:-95.9726,-9.33193,0,-95.9726,-9.33193,-95.9726 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:4:0,3,1:0:0:3,1:106,36:-11.9251,-3.29724,-2.39415,-8.98601,0,-8.68498 1/2:38:0,28,10:0:0:28,10:1006,356:-111.442,-29.3709,-20.9421,-82.4274,0,-79.4171 1/2:41:0,18,23:0:0:18,23:642,828:-120.254,-67.92,-62.5015,-52.6917,0,-45.768 1/2:25:0,15,10:0:0:15,10:538,360:-73.615,-29.734,-25.2186,-44.2403,0,-41.23 1/2:32:0,10,22:0:0:10,22:354,792:-93.7988,-64.983,-61.9727,-29.1714,0,-22.5487 1/2:16:0,6,10:0:0:6,10:216,360:-47.3585,-29.734,-27.9278,-17.9843,0,-14.974 1/2:22:0,3,19:0:0:3,19:106,672:-63.7176,-55.0848,-54.1817,-8.98601,0,-3.26644 1/2:31:0,18,13:0:0:18,13:641,468:-90.7891,-38.5463,-33.1277,-52.6011,0,-48.6877 1/2:20:0,11,9:0:0:11,9:385,316:-57.3918,-26.0694,-22.7581,-31.6729,0,-28.9636 1/1:118:0,118,0:0:0:118,0:4099,0:-369.052,-35.5215,0,-369.052,-35.5215,-369.052 1/1:21:0,21,0:0:0:21,0:741,0:-66.9428,-6.32163,0,-66.9428,-6.32163,-66.9428 chr12 17881731 . C G 11366.3 PASS AB=0.485444;ABP=5.53894;AC=18;AF=0.428571;AN=42;AO=676;CIGAR=1X;DP=1576;DPB=1576;DPRA=1.68607;EPP=1453.61;EPPR=1946.49;GTI=1;LEN=1;MEANALT=1.05882;MQM=59.7071;MQMR=56.2781;NS=21;NUMALT=1;ODDS=2.91161;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24161;QR=31908;RO=899;RPL=674;RPP=1453.61;RPPR=1946.49;RPR=2;RUN=1;SAF=676;SAP=1470.93;SAR=0;SRF=899;SRP=1955.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:69:36,33:36:1280:33:1184:-86.0086,0,-94.0061 0/1:84:47,37:47:1680:37:1319:-93.7178,0,-126.133 0/1:50:28,22:28:992:22:792:-56.463,0,-74.4814 0/1:77:41,36:41:1456:36:1282:-92.5026,0,-108.069 0/1:130:79,50:79:2806:50:1784:-121.659,0,-213.177 0/1:97:39,58:39:1392:58:2088:-158.988,0,-96.34 0/1:120:62,58:62:2204:58:2067:-150.173,0,-162.452 0/1:65:40,25:40:1419:25:896:-61.3934,0,-108.31 0/0:80:80,0:80:2824:0:0:0,-24.0824,-254.21 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.2985 1/1:9:0,9:0:0:9:311:-28.321,-2.70927,0 0/1:19:10,9:10:347:9:324:-23.7863,0,-25.8314 0/1:96:41,55:41:1460:55:1956:-147.407,0,-101.73 0/1:105:40,65:40:1396:65:2332:-177.971,0,-94.1155 0/1:141:74,67:74:2643:67:2396:-173.443,0,-195.422 0/1:49:24,25:24:852:25:900:-66.5705,0,-62.1633 0/1:90:42,48:42:1475:48:1724:-128.351,0,-105.799 0/1:121:59,62:59:2104:62:2198:-161.654,0,-152.743 0/1:61:44,17:44:1567:17:608:-36.6868,0,-122.189 0/0:47:47,0:47:1656:0:0:0,-14.1484,-148.994 0/0:56:56,0:56:1999:0:0:0,-16.8577,-179.365 chr12 17881744 . 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A G 6372.77 PASS AB=0.347845;ABP=464.91;AC=21;AF=0.5;AN=42;AO=799;CIGAR=1X;DP=2297;DPB=2297;DPRA=0;EPP=1610.17;EPPR=3126.89;GTI=3;LEN=1;MEANALT=1;MQM=29.2954;MQMR=35.8284;NS=21;NUMALT=1;ODDS=0.819401;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28581;QR=53487;RO=1498;RPL=784;RPP=1610.17;RPPR=3126.89;RPR=15;RUN=1;SAF=799;SAP=1738.02;SAR=0;SRF=1498;SRP=3255.88;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:68,21:68:2444:21:748:-28.2597,0,-162.415 0/1:99:72,27:72:2554:27:972:-32.6305,0,-165.037 0/1:77:54,23:54:1940:23:828:-37.1982,0,-133.037 0/1:114:80,34:80:2868:34:1209:-53.8851,0,-188.79 0/1:286:215,71:215:7701:71:2548:-99.1328,0,-533.058 0/1:81:50,31:50:1777:31:1116:-47.2604,0,-102.629 0/1:189:126,63:126:4517:63:2264:-87.9703,0,-286.394 0/1:63:46,17:46:1636:17:604:-22.6963,0,-104.02 0/1:270:122,148:122:4384:148:5297:-321.389,0,-305.718 0/1:12:8,4:8:273:4:144:-6.51159,0,-20.3645 0/1:9:6,3:6:216:3:108:-4.45511,0,-13.6431 0/1:25:17,8:17:608:8:284:-12.3741,0,-42.1428 0/1:101:69,32:69:2453:32:1152:-53.4859,0,-166.843 0/1:100:69,31:69:2453:31:1108:-50.5729,0,-164.14 0/1:192:151,41:151:5389:41:1464:-49.3998,0,-365.667 0/1:119:86,33:86:3066:33:1169:-52.7237,0,-214.899 0/1:141:93,48:93:3328:48:1709:-84.7258,0,-224.778 0/1:52:33,19:33:1173:19:661:-30.9027,0,-74.632 0/1:49:25,24:25:877:24:864:-48.4971,0,-59.041 0/1:149:68,81:68:2398:81:2900:-154.712,0,-160.335 0/1:80:40,40:40:1432:40:1432:-68.8375,0,-97.5486 chr12 18198439 . A G 2106.55 PASS AB=0.372032;ABP=110.828;AC=17;AF=0.404762;AN=42;AO=284;CIGAR=1X;DP=859;DPB=859;DPRA=1.57927;EPP=619.708;EPPR=1251.61;GTI=3;LEN=1;MEANALT=1;MQM=29.0282;MQMR=29.2348;NS=21;NUMALT=1;ODDS=0.150851;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10172;QR=20610;RO=575;RPL=0;RPP=619.708;RPPR=1251.61;RPR=284;RUN=1;SAF=0;SAP=619.708;SAR=284;SRF=0;SRP=1251.61;SRR=575;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:38,14:38:1368:14:500:-20.4544,0,-82.8739 0/1:25:21,4:21:756:4:144:-2.70819,0,-41.0897 0/1:35:22,13:22:788:13:464:-23.4392,0,-47.3226 0/1:41:27,14:27:972:14:504:-24.2207,0,-57.9408 0/1:90:54,36:54:1944:36:1292:-66.8327,0,-113.729 0/1:28:17,11:17:608:11:396:-17.1582,0,-30.9247 0/1:53:29,24:29:1044:24:860:-39.3514,0,-51.8324 0/1:31:19,12:19:680:12:424:-20.1833,0,-37.2429 0/0:57:57,0:57:2036:0:0:0,-17.1587,-152.155 0/0:5:5,0:5:176:0:0:0,-1.50515,-12.5115 0/1:10:7,3:7:248:3:108:-4.15408,0,-13.1451 0/1:18:13,5:13:468:5:171:-6.40449,0,-26.2055 0/1:34:19,15:19:684:15:536:-29.1383,0,-38.5088 0/1:44:34,10:34:1220:10:360:-12.7732,0,-75.6153 0/1:88:47,41:47:1688:41:1461:-80.1411,0,-96.8737 0/1:36:22,14:22:792:14:504:-26.9893,0,-49.3624 0/1:67:50,17:50:1796:17:612:-25.289,0,-113.711 0/1:75:33,42:33:1158:42:1512:-81.1248,0,-57.999 0/1:31:24,7:24:860:7:252:-9.24576,0,-53.554 0/0:19:17,2:17:604:2:72:0,-0.520786,-36.5026 0/0:20:20,0:20:720:0:0:0,-6.0206,-45.8853 chr12 18198441 . A T 6701.55 PASS AB=0.624665;ABP=103.713;AC=25;AF=0.595238;AN=42;AO=564;CIGAR=1X;DP=846;DPB=846;DPRA=0;EPP=1227.72;EPPR=613.194;GTI=2;LEN=1;MEANALT=1.04762;MQM=29.2074;MQMR=29.0249;NS=21;NUMALT=1;ODDS=0.627966;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20028;QR=10083;RO=281;RPL=0;RPP=1227.72;RPPR=613.194;RPR=564;RUN=1;SAF=0;SAP=1227.72;SAR=564;SRF=0;SRP=613.194;SRR=281;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:14,36:14:500:36:1288:-78.0733,0,-21.0565 0/1:25:4,21:4:144:21:752:-41.0392,0,-2.70819 0/1:35:13,22:13:468:22:788:-47.3226,0,-23.5436 0/1:41:14,27:14:504:27:953:-57.0652,0,-24.2207 0/1:87:35,52:35:1260:52:1852:-109.281,0,-65.2271 0/1:28:11,17:11:396:17:608:-30.9247,0,-17.1582 0/1:51:24,27:24:864:27:956:-46.8782,0,-40.004 0/1:31:11,20:11:383:20:697:-38.8245,0,-17.5312 1/1:56:0,56:0:0:56:1970:-147.543,-16.8577,0 1/1:5:0,5:0:0:5:176:-12.5115,-1.50515,0 0/1:10:3,7:3:108:7:252:-13.1961,0,-4.15408 0/1:18:5,13:5:180:13:460:-26.0575,0,-6.67104 0/1:33:15,18:15:532:18:648:-36.197,0,-29.335 0/1:44:10,34:10:360:34:1190:-74.0733,0,-12.7732 0/1:87:40,47:40:1436:47:1669:-96.4263,0,-78.4964 0/1:36:14,22:14:504:22:784:-48.9805,0,-26.9893 0/1:66:17,48:17:612:48:1720:-108.369,0,-25.5862 0/1:73:42,31:42:1508:31:1089:-53.5174,0,-81.6533 0/1:31:7,24:7:252:24:856:-53.45,0,-9.24576 1/1:19:2,17:2:72:17:604:-36.4624,-0.520786,0 1/1:20:0,20:0:0:20:716:-45.8348,-6.0206,0 chr12 18198446 . CAGCT AAGCC,GAGCC 11662.4 PASS AB=0.627632,0.372368;ABP=110.544,110.544;AC=25,17;AF=0.595238,0.404762;AN=42;AO=576,285;CIGAR=1X3M1X,1X3M1X;DP=861;DPB=861;DPRA=0,1.58333;EPP=1227.86,596.097;EPPR=0;GTI=3;LEN=5,5;MEANALT=1.85714,2;MQM=29.2326,29.0316;MQMR=0;NS=21;NUMALT=2;ODDS=1.2185;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=20465,9578;QR=0;RO=0;RPL=573,282;RPP=1227.86,596.097;RPPR=0;RPR=3,3;RUN=1,1;SAF=0,0;SAP=1253.78,621.88;SAR=576,285;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:52:0,38,14:0:0:38,14:1362,484:-118.264,-31.5841,-20.1449,-86.9636,0,-82.7492 1/2:25:0,21,4:0:0:21,4:750,140:-50.9485,-8.9904,-2.66877,-42.2304,0,-41.0263 1/2:35:0,22,13:0:0:22,13:789,442:-80.5356,-29.5453,-22.9226,-51.2766,0,-47.3632 1/2:42:0,27,15:0:0:27,15:956,498:-94.883,-33.5149,-25.3871,-61.6501,0,-57.1346 1/2:90:0,54,36:0:0:54,36:1931,1188:-204.309,-80.2883,-64.0326,-124.304,0,-113.467 1/2:28:0,17,11:0:0:17,11:600,366:-55.4825,-21.6211,-16.5036,-34.1128,0,-30.8015 1/2:53:0,29,24:0:0:29,24:1029,798:-104.991,-46.7178,-37.9879,-58.526,0,-51.3012 1/2:32:0,19,13:0:0:19,13:676,423:-67.3546,-26.9894,-21.2698,-40.6302,0,-36.7168 1/1:57:0,57,0:0:0:57,0:2010,0:-151.214,-17.1587,0,-151.214,-17.1587,-151.214 1/1:5:0,5,0:0:0:5,0:174,0:-12.4692,-1.50515,0,-12.4692,-1.50515,-12.4692 1/2:10:0,7,3:0:0:7,3:252,103:-20.0554,-6.20997,-4.10276,-14.0992,0,-13.1961 1/2:18:0,13,5:0:0:13,5:465,147:-37.2174,-9.79505,-5.88166,-27.6741,0,-26.169 1/2:34:0,19,15:0:0:19,15:676,517:-76.9203,-34.3812,-28.6616,-42.8235,0,-38.308 1/2:44:0,34,10:0:0:34,10:1201,344:-100.36,-22.6348,-12.3998,-78.008,0,-74.9977 1/2:88:0,47,41:0:0:47,41:1688,1366:-200.972,-92.012,-77.8635,-109.247,0,-96.9044 1/2:37:0,23,14:0:0:23,14:814,482:-88.059,-32.8839,-25.9603,-55.4701,0,-51.2557 1/2:67:0,50,17:0:0:50,17:1777,594:-157.883,-39.9947,-24.9432,-118.182,0,-113.064 1/2:74:0,33,41:0:0:33,41:1159,1377:-157.636,-86.8713,-76.9373,-71.0353,0,-58.693 1/2:31:0,24,7:0:0:24,7:849,240:-71.1868,-16.1317,-8.90695,-55.3408,0,-53.2336 1/1:19:0,17,2:0:0:17,2:599,69:-41.2932,-5.11751,0,-37.0136,-0.566846,-36.4116 1/1:20:0,20,0:0:0:20,0:708,0:-45.7117,-6.0206,0,-45.7117,-6.0206,-45.7117 chr12 18499721 . TTAT CTAC,CTAT 43277.7 PASS AB=0.515924,0.482918;ABP=6.81383,7.38719;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1276,836;CIGAR=1X2M1X,1X3M;DP=2116;DPB=2116;DPRA=0,3.8024;EPP=2773.81,1818.36;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.09524,2.15789;MQM=59.5016,59.9605;MQMR=0;NS=21;NUMALT=2;ODDS=1.25813;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45450,29924;QR=0;RO=0;RPL=0,0;RPP=2773.81,1818.36;RPPR=0;RPR=1276,836;RUN=1,1;SAF=1276,836;SAP=2773.81,1818.36;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:100:0,60,40:0:0:60,40:2138,1417:-289.987,-115.78,-97.7181,-174.562,0,-162.521 1/2:52:0,21,31:0:0:21,31:751,1111:-152.206,-90.9694,-84.6478,-61.5945,0,-52.2625 1/2:147:0,69,78:0:0:69,78:2458,2785:-427.724,-227.409,-206.638,-200.672,0,-177.191 1/2:167:0,96,71:0:0:96,71:3441,2548:-488.834,-208.197,-179.298,-280.996,0,-259.623 1/2:145:0,64,81:0:0:64,81:2281,2893:-422.112,-236.221,-216.955,-186.247,0,-161.864 1/2:97:0,56,41:0:0:56,41:1963,1467:-279.703,-119.982,-103.124,-160.075,0,-147.733 1/2:182:0,97,85:0:0:97,85:3433,3044:-528.071,-248.601,-219.401,-279.826,0,-254.239 1/2:145:0,57,88:0:0:57,88:2015,3147:-421.001,-256.951,-239.792,-164.405,0,-137.914 1/1:222:0,221,1:0:0:221,1:7884,36:-708.172,-66.5276,0,-705.235,-63.2304,-704.934 1/1:16:0,16,0:0:0:16,0:576,0:-52.175,-4.81648,0,-52.175,-4.81648,-52.175 1/2:6:0,5,1:0:0:5,1:180,36:-17.9843,-3.29724,-1.79209,-15.0469,0,-14.7459 1/2:26:0,14,12:0:0:14,12:499,432:-76.2503,-35.6088,-31.3944,-40.9995,0,-37.3872 1/2:128:0,54,74:0:0:54,74:1930,2656:-374.051,-217.01,-200.754,-157.399,0,-135.123 1/2:120:0,62,57:0:0:62,57:2208,2036:-345.987,-166.062,-147.399,-179.989,0,-162.831 1/2:158:0,84,74:0:0:84,74:2999,2652:-461.14,-216.65,-191.363,-244.847,0,-222.571 1/2:44:0,27,17:0:0:27,17:966,612:-129.048,-50.2959,-42.1681,-79.1114,0,-73.9939 1/2:50:0,31,19:0:0:31,19:1088,684:-144.707,-56.1708,-46.8388,-88.8925,0,-83.173 1/2:92:0,46,46:0:0:46,46:1653,1648:-269.605,-134.761,-120.914,-135.203,0,-121.355 1/2:68:0,48,19:0:0:48,19:1716,684:-195.708,-55.8112,-41.3617,-139.897,0,-134.177 1/1:110:0,108,1:0:0:108,1:3837,36:-345.114,-32.5112,0,-342.177,-29.5736,-341.875 1/1:41:0,40,0:0:0:40,0:1434,0:-129,-12.0412,0,-129,-12.0412,-129 chr12 18593770 . GTGGAGT ATGGGAGT,ATGGAGT 49810.4 PASS AB=0.376402,0.616951;ABP=322.394,288.964;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1034,1490;CIGAR=1X1M1I5M,1X6M;DP=2542;DPB=2690.29;DPRA=0,3.80152;EPP=2248.31,3238.5;EPPR=5.18177;GTI=2;LEN=8,1;MEANALT=2.66667,2.7;MQM=59.706,60;MQMR=60;NS=21;NUMALT=2;ODDS=4.58289;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=36292,53304;QR=36;RO=1;RPL=1034,1490;RPP=2248.31,3238.5;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2248.31,3238.5;SAR=1034,1490;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:194:0,69,122:0:0:69,122:2435,4375:-555.193,-356.912,-336.14,-198.35,0,-161.624 1/2:93:0,34,59:0:0:34,59:1207,2097:-269.552,-171.237,-161.002,-98.6695,0,-80.9087 1/2:98:0,35,63:0:0:35,63:1219,2256:-283.417,-184.338,-173.802,-99.4308,0,-80.4659 1/2:96:0,36,60:0:0:36,60:1255,2140:-276.868,-174.806,-163.969,-102.414,0,-84.3519 1/2:277:0,104,173:0:0:104,173:3674,6187:-804.022,-504.849,-473.542,-299.528,0,-247.45 1/2:179:0,53,126:0:0:53,126:1866,4511:-520.092,-368.226,-352.272,-152.219,0,-114.289 1/2:204:0,71,132:0:0:71,132:2460,4724:-585.154,-385.224,-363.85,-199.921,0,-160.185 1/2:184:0,51,132:0:0:51,132:1773,4740:-530.785,-386.661,-371.308,-144.115,0,-104.379 1/2:250:0,159,86:0:0:159,86:5613,3084:-708.525,-251.57,-203.706,-456.982,0,-431.093 1/1:13:0,11,1:0:0:11,1:394,36:-35.442,-3.31133,0,-32.5044,-0.373913,-32.2034 1/2:10:0,3,7:0:0:3,7:108,252:-29.734,-20.9217,-20.0187,-9.17208,0,-7.06487 1/2:43:0,16,26:0:0:16,26:574,936:-123.21,-76.3921,-71.5756,-46.8359,0,-39.0092 1/2:154:1,57,96:1:36:57,96:1989,3436:-438.701,-277.257,-263.036,-158.8,0,-132.838 1/2:158:0,62,96:0:0:62,96:2178,3408:-455.303,-278.035,-259.372,-177.62,0,-148.721 1/2:194:0,56,136:0:0:56,136:1947,4845:-553.192,-394.91,-378.052,-158.278,0,-117.338 1/2:85:0,35,49:0:0:35,49:1226,1749:-242.313,-142.582,-132.046,-99.7245,0,-84.9741 1/2:86:0,33,53:0:0:33,53:1162,1904:-250.194,-155.683,-145.749,-94.8656,0,-78.911 1/2:57:0,16,40:0:0:16,40:553,1440:-162.424,-117.516,-112.7,-44.9165,0,-32.8753 1/2:45:0,16,29:0:0:16,29:567,1040:-131.374,-85.1845,-80.368,-46.5454,0,-37.8155 1/1:89:0,85,4:0:0:85,4:2981,144:-268.11,-25.5876,0,-256.36,-13.4781,-255.156 1/1:33:0,32,0:0:0:32,0:1111,0:-100.013,-9.63296,0,-100.013,-9.63296,-100.013 chr12 18593784 . CCTT GCTC 18240.7 PASS AB=0.385675;ABP=291.481;AC=23;AF=0.547619;AN=42;AO=1159;CIGAR=1X2M1X;DP=2723;DPB=2725.5;DPRA=0;EPP=2519.75;EPPR=3377.48;GTI=2;LEN=4;MEANALT=1.47619;MQM=59.9922;MQMR=59.9974;NS=21;NUMALT=1;ODDS=12.6865;PAIRED=0;PAIREDR=0;PAO=7;PQA=252;PQR=0;PRO=3;QA=40985;QR=54665;RO=1554;RPL=0;RPP=2519.75;RPPR=3377.48;RPR=1159;RUN=1;SAF=1159;SAP=2519.75;SAR=0;SRF=1554;SRP=3377.48;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:103,22:103:3633:22:788:-33.6163,0,-289.549 0/1:67:51,16:51:1787:16:574:-31.8254,0,-140.942 0/1:99:70,29:70:2468:29:1026:-62.4907,0,-192.212 0/1:157:78,78:78:2738:78:2758:-201.168,0,-199.373 0/1:258:167,89:167:5827:89:3133:-204.794,0,-447.148 0/1:134:86,48:86:3019:48:1718:-114.381,0,-231.422 0/1:183:101,81:101:3545:81:2882:-204.47,0,-264.115 0/1:247:188,59:188:6597:59:2093:-113.926,0,-519.109 0/1:294:128,164:128:4536:164:5807:-434.543,0,-320.203 0/1:23:13,10:13:459:10:358:-25.6393,0,-34.7207 0/1:7:4,3:4:137:3:107:-7.87496,0,-10.5602 0/1:36:20,16:20:699:16:574:-40.9575,0,-52.2004 0/1:203:117,85:117:4107:85:3029:-211.673,0,-308.651 0/1:160:81,78:81:2844:78:2759:-200.329,0,-207.977 0/1:174:128,45:128:4536:45:1577:-89.8942,0,-356.089 0/1:79:52,26:52:1837:26:897:-57.3456,0,-141.916 0/1:69:60,9:60:2123:9:316:-8.00772,0,-170.568 0/1:126:61,65:61:2150:65:2308:-169.691,0,-155.476 0/1:100:43,57:43:1515:57:1978:-148.189,0,-106.539 1/1:130:3,127:3:108:127:4464:-391.86,-29.0587,0 1/1:52:0,52:0:0:52:1839:-165.789,-15.6536,0 chr12 18593890 . A T 17907.5 PASS AB=0.633267;ABP=156.963;AC=25;AF=0.595238;AN=42;AO=918;CIGAR=1X;DP=1284;DPB=1284;DPRA=0;EPP=1996.42;EPPR=797.769;GTI=2;LEN=1;MEANALT=1;MQM=56.9336;MQMR=59.9699;NS=21;NUMALT=1;ODDS=0.480578;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32861;QR=13082;RO=366;RPL=918;RPP=1996.42;RPPR=797.769;RPR=0;RUN=1;SAF=0;SAP=1996.42;SAR=918;SRF=0;SRP=797.769;SRR=366;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:49:11,38:11:396:38:1338:-105.904,0,-21.2323 0/1:24:5,19:5:180:19:680:-54.0976,0,-9.32734 0/1:65:26,39:26:917:39:1404:-106.844,0,-63.2777 0/1:47:19,28:19:684:28:1008:-76.8031,0,-47.7419 0/1:110:44,66:44:1563:66:2364:-179.809,0,-107.848 0/1:47:17,30:17:612:30:1076:-82.7931,0,-41.2641 0/1:71:20,51:20:720:51:1826:-142.595,0,-43.7538 0/1:36:18,18:18:640:18:648:-47.7063,0,-47.0922 1/1:121:0,121:0:0:121:4310:-387.565,-36.4246,0 1/1:16:0,16:0:0:16:572:-51.5848,-4.81648,0 0/1:12:5,7:5:180:7:252:-19.1304,0,-12.9397 0/1:32:14,18:14:504:18:644:-48.6307,0,-36.0651 0/1:103:48,55:48:1724:55:1976:-146.939,0,-124.439 0/1:80:37,43:37:1324:43:1544:-115.151,0,-95.3797 0/1:95:33,62:33:1188:62:2228:-172.093,0,-78.6307 0/1:16:4,12:4:144:12:428:-34.0423,0,-8.49714 0/1:23:5,18:5:165:18:648:-51.682,0,-8.24991 0/1:96:34,62:34:1205:62:2232:-171.994,0,-79.8517 0/1:92:26,66:26:936:66:2352:-184.054,0,-56.8647 1/1:80:0,80:0:0:80:2851:-256.425,-24.0824,0 1/1:69:0,69:0:0:69:2480:-223.052,-20.7711,0 chr12 18593900 . CT TA,TT 25815.2 PASS AB=0.627373,0.368631;ABP=144.069,153.059;AC=25,17;AF=0.595238,0.404762;AN=42;AO=909,369;CIGAR=2X,1X1M;DP=1283;DPB=1283;DPRA=0,0.835211;EPP=1976.88,804.284;EPPR=0;GTI=2;LEN=2,1;MEANALT=2.04762,2.23529;MQM=56.8999,59.9702;MQMR=0;NS=21;NUMALT=2;ODDS=1.47346;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32108,13143;QR=0;RO=0;RPL=909,369;RPP=1976.88,804.284;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1976.88,804.284;SAR=909,369;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,39,10:0:0:39,10:1394,360:-142.973,-29.3742,-17.634,-113.598,0,-110.588 1/2:25:0,19,6:0:0:19,6:678,212:-72.686,-17.6186,-11.899,-55.4211,0,-53.6149 1/2:65:0,39,26:0:0:39,26:1373,936:-188.352,-76.7327,-64.9925,-111.975,0,-104.149 1/2:47:0,28,19:0:0:28,19:986,684:-136.357,-56.1708,-47.7419,-80.5427,0,-74.8231 1/2:111:0,65,45:0:0:65,45:2283,1576:-313.911,-128.22,-108.653,-185.681,0,-172.135 1/2:49:0,30,19:0:0:30,19:1061,676:-141.663,-55.4475,-46.4166,-86.5703,0,-80.8508 1/2:72:0,52,19:0:0:52,19:1843,665:-203.274,-54.0929,-38.4394,-149.172,0,-143.452 1/2:36:0,18,18:0:0:18,18:640,644:-104.922,-52.8721,-47.4535,-52.4061,0,-46.9876 1/1:120:0,120,0:0:0:120,0:4270,0:-383.959,-36.1236,0,-383.959,-36.1236,-383.959 1/1:15:0,15,0:0:0:15,0:532,0:-47.987,-4.51545,0,-47.987,-4.51545,-47.987 1/2:12:0,7,5:0:0:7,5:241,180:-34.4452,-15.0469,-12.9397,-19.7505,0,-18.2454 1/2:32:0,19,13:0:0:19,13:669,449:-91.2649,-36.8241,-31.1045,-54.7887,0,-50.8753 1/2:104:0,54,50:0:0:54,50:1899,1792:-300.95,-146.511,-130.255,-154.794,0,-139.742 1/2:80:0,43,37:0:0:43,37:1500,1324:-230.301,-108.324,-95.3797,-122.33,0,-111.192 1/2:95:0,61,34:0:0:61,34:2142,1220:-274.129,-99.8718,-81.509,-174.613,0,-164.378 1/2:16:0,12,4:0:0:12,4:413,144:-45.6404,-12.1095,-8.49714,-33.8868,0,-32.6826 1/2:22:0,18,4:0:0:18,4:646,129:-63.4021,-10.7244,-5.30589,-53.0066,0,-51.8025 1/2:96:0,62,34:0:0:62,34:2187,1220:-277.7,-99.8684,-81.2046,-178.187,0,-167.952 1/2:89:0,62,26:0:0:62,26:2207,932:-255.673,-76.0124,-57.3485,-179.658,0,-171.831 1/1:79:0,79,0:0:0:79,0:2762,0:-248.485,-23.7814,0,-248.485,-23.7814,-248.485 1/1:68:0,67,0:0:0:67,0:2382,0:-213.984,-20.169,0,-213.984,-20.169,-213.984 chr12 18647744 . T A 34758.7 PASS AB=0.444951;ABP=89.5548;AC=25;AF=0.595238;AN=42;AO=1981;CIGAR=1X;DP=3812;DPB=3812;DPRA=0;EPP=4304.7;EPPR=3978.98;GTI=1;LEN=1;MEANALT=1;MQM=54.6214;MQMR=51.6723;NS=21;NUMALT=1;ODDS=8.34538;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70368;QR=65079;RO=1831;RPL=0;RPP=4304.7;RPPR=51.8821;RPR=1981;RUN=1;SAF=0;SAP=4304.7;SAR=1981;SRF=814;SRP=51.8821;SRR=1017;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:315:163,152:163:5794:152:5410:-390.418,0,-419.173 0/1:191:131,60:131:4678:60:2135:-131.755,0,-349.992 0/1:198:98,100:98:3434:100:3539:-258.65,0,-247.412 0/1:220:122,98:122:4348:98:3511:-247.423,0,-321.166 0/1:374:201,173:201:7135:173:6151:-437.682,0,-520.964 0/1:167:101,66:101:3587:66:2325:-158.085,0,-265.762 0/1:311:196,115:196:6964:115:4072:-271.297,0,-513.904 0/1:168:73,95:73:2553:95:3349:-250.393,0,-175.916 1/1:262:0,262:0:0:262:9301:-835.483,-78.8699,0 1/1:17:0,17:0:0:17:608:-54.9676,-5.11751,0 0/1:9:2,7:2:72:7:248:-19.902,0,-4.12745 0/1:42:24,18:24:860:18:636:-44.757,0,-63.8028 0/1:232:135,97:135:4793:97:3454:-240.709,0,-356.701 0/1:200:111,89:111:3955:89:3177:-224.776,0,-292.623 0/1:239:123,116:123:4379:116:4119:-298.106,0,-315.722 0/1:176:110,66:110:3920:66:2352:-158.829,0,-298.194 0/1:285:140,145:140:5004:145:5148:-376.178,0,-361.617 0/1:68:50,18:50:1780:18:644:-37.4738,0,-136.839 0/1:93:45,48:45:1607:48:1708:-125.878,0,-114.837 1/1:197:6,191:6:216:191:6765:-586.686,-39.8357,0 1/1:48:0,48:0:0:48:1716:-154.27,-14.4494,0 chr12 18647765 . TT AA,TA 74559.9 PASS AB=0.591071,0.408929;ABP=185.343,185.343;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2024,1038;CIGAR=2X,1M1X;DP=3062;DPB=3062;DPRA=0,1.36587;EPP=1940.96,771.26;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.85714,2;MQM=54.5781,59.9123;MQMR=0;NS=21;NUMALT=2;ODDS=9.86734;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=71710,37175;QR=0;RO=0;RPL=1684,822;RPP=1940.96,771.26;RPPR=0;RPR=340,216;RUN=1,1;SAF=0,0;SAP=4398.07,2257;SAR=2024,1038;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:245:0,155,90:0:0:155,90:5517,3224:-710.96,-263.281,-216.622,-448.036,0,-420.943 1/2:110:0,62,48:0:0:62,48:2181,1724:-316.435,-140.96,-122.296,-175.829,0,-161.38 1/2:177:0,101,76:0:0:101,76:3587,2712:-513.223,-221.359,-190.955,-292.219,0,-269.341 1/2:176:0,98,78:0:0:98,78:3477,2800:-509.795,-228.757,-199.256,-281.394,0,-257.914 1/2:291:0,180,111:0:0:180,111:6362,3975:-840.94,-324.525,-270.34,-516.77,0,-483.356 1/2:134:0,67,67:0:0:67,67:2378,2404:-387.852,-196.447,-176.278,-191.759,0,-171.59 1/2:211:0,118,93:0:0:118,93:4152,3323:-607.141,-271.274,-235.753,-336.22,0,-308.225 1/2:136:0,98,38:0:0:98,38:3455,1356:-391.519,-110.901,-81.4004,-280.973,0,-269.534 1/1:269:0,269,0:0:0:269,0:9584,0:-860.594,-80.9771,0,-860.594,-80.9771,-860.594 1/1:17:0,17,0:0:0:17,0:610,0:-55.1465,-5.11751,0,-55.1465,-5.11751,-55.1465 1/2:11:0,7,4:0:0:7,4:252,144:-32.6139,-12.1095,-10.0023,-20.8639,0,-19.6597 1/2:31:0,19,12:0:0:19,12:660,432:-89.0456,-35.6088,-29.8893,-53.7913,0,-50.1789 1/2:177:0,101,76:0:0:101,76:3568,2712:-511.531,-221.431,-191.027,-290.455,0,-267.577 1/2:154:0,88,66:0:0:88,66:3097,2366:-444.244,-193.274,-166.784,-251.324,0,-231.456 1/2:192:0,120,72:0:0:120,72:4255,2584:-556.668,-211.135,-175.011,-345.89,0,-324.216 1/2:140:0,68,72:0:0:68,72:2395,2575:-405.22,-210.325,-189.855,-195.25,0,-173.576 1/2:230:0,147,83:0:0:147,83:5234,2976:-667.965,-243.087,-198.835,-425.235,0,-400.25 1/2:45:0,18,27:0:0:18,27:648,968:-131.835,-79.3096,-73.891,-52.8838,0,-44.756 1/2:71:0,49,22:0:0:49,22:1753,792:-207.785,-64.983,-50.2325,-143.161,0,-136.539 1/1:198:0,195,3:0:0:195,3:6865,108:-614.795,-58.7009,0,-605.982,-49.5288,-605.079 1/1:47:0,47,0:0:0:47,0:1680,0:-150.929,-14.1484,0,-150.929,-14.1484,-150.929 chr12 18663852 . T C 23277.6 PASS AB=0.777397;ABP=783.67;AC=25;AF=0.595238;AN=42;AO=1238;CIGAR=1X;DP=1498;DPB=1498;DPRA=0;EPP=2691.29;EPPR=563.25;GTI=5;LEN=1;MEANALT=1.04762;MQM=42.6446;MQMR=50.4806;NS=21;NUMALT=1;ODDS=1.74193;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44075;QR=9243;RO=258;RPL=0;RPP=2691.29;RPPR=563.25;RPR=1238;RUN=1;SAF=0;SAP=2691.29;SAR=1238;SRF=0;SRP=563.25;SRR=258;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:28,110:28:1000:110:3901:-301.152,0,-48.4727 0/1:43:13,30:13:468:30:1071:-79.8078,0,-29.2222 0/1:106:19,87:19:680:87:3098:-240.318,0,-29.4314 0/1:19:13,6:13:468:6:212:-13.3501,0,-35.9848 0/1:137:35,102:35:1251:102:3608:-275.106,0,-71.1194 0/1:47:10,37:10:356:37:1307:-98.8647,0,-17.7081 0/1:91:21,70:21:756:70:2499:-187.027,0,-40.515 0/1:98:21,77:21:752:77:2744:-211.221,0,-38.324 1/1:214:0,214:0:0:214:7636:-675.388,-64.4204,0 1/1:13:0,13:0:0:13:468:-40.9877,-3.91339,0 0/1:11:2,9:2:72:9:324:-24.5216,0,-3.47819 0/1:19:4,15:4:144:15:536:-41.731,0,-7.5566 0/1:76:15,61:15:536:61:2184:-169.155,0,-25.551 0/1:89:20,67:20:716:67:2400:-183.19,0,-38.0201 0/1:92:14,78:14:500:78:2782:-217.135,0,-17.5205 0/1:44:12,32:12:432:32:1135:-87.8381,0,-25.7036 0/1:46:6,40:6:216:40:1424:-112.638,0,-5.8737 0/1:56:15,41:15:536:41:1463:-111.571,0,-31.5464 0/1:56:10,46:10:360:46:1618:-125,0,-15.7928 1/1:64:0,64:0:0:64:2287:-200.623,-19.2659,0 1/1:39:0,39:0:0:39:1378:-117.963,-11.7402,0 chr12 18663938 . TG AG,AC 16844.4 PASS AB=0.481758,0.514096;ABP=6.49618,5.09174;AC=25,17;AF=0.595238,0.404762;AN=42;AO=754,620;CIGAR=1X1M,2X;DP=1380;DPB=1381.5;DPRA=0,1.63083;EPP=1640.3,1349.32;EPPR=0;GTI=0;LEN=1,2;MEANALT=2.09524,2.29412;MQM=29.508,28.879;MQMR=0;NS=21;NUMALT=2;ODDS=8.83695;PAIRED=0,0;PAIREDR=0;PAO=1.5,1.5;PQA=54,54;PQR=0;PRO=0;QA=22202,21644;QR=0;RO=0;RPL=754,620;RPP=1640.3,1349.32;RPPR=0;RPR=0,0;RUN=1,1;SAF=754,620;SAP=1640.3,1349.32;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:64:0,32,32:0:0:32,32:929,1122:-129.469,-64.1484,-54.5154,-65.5788,0,-55.9458 1/2:97:0,51,46:0:0:51,46:1561,1613:-211.23,-99.8154,-84.4629,-111.69,0,-97.8424 1/2:37:0,25,12:0:0:25,12:720,421:-77.2739,-26.778,-19.2523,-50.7679,0,-47.1555 1/2:106:0,36,69:0:0:36,69:1112,2400:-229.226,-149.661,-138.823,-79.5382,0,-58.7671 1/2:152:0,102,50:0:0:102,50:2921,1742:-314.802,-110.186,-79.4814,-204.827,0,-189.776 1/2:102:0,41,61:0:0:41,61:1208,2116:-211.427,-126.143,-113.801,-85.5479,0,-67.1851 1/2:94:0,47,47:0:0:47,47:1373,1661:-198.583,-101.721,-87.5724,-97.1302,0,-82.9818 1/2:57:0,22,34:0:0:22,34:638,1195:-114.415,-69.2394,-62.6168,-45.172,0,-34.937 1/1:62:0,62,0:0:0:62,0:1895,0:-154.045,-18.6639,0,-154.045,-18.6639,-154.045 1/1:17:0,16,0:0:0:16,0:451,0:-36.2633,-4.81648,0,-36.2633,-4.81648,-36.2633 1/2:8:0,2,6:0:0:2,6:61,214:-18.0041,-13.659,-13.057,-4.62157,0,-2.81539 1/2:33:0,9,24:0:0:9,24:266,830:-75.7259,-56.939,-54.2297,-19.0606,0,-11.8359 1/2:98:0,31,66:0:0:31,66:931,2318:-210.599,-144.264,-134.932,-66.276,0,-46.408 1/2:58:0,25,33:0:0:25,33:712,1140:-121.117,-71.3342,-63.8085,-50.0448,0,-40.1108 1/2:82:0,44,37:0:0:44,37:1238,1275:-163.398,-77.1336,-63.8883,-86.2844,0,-75.1462 1/2:50:0,26,24:0:0:26,24:818,852:-111.552,-52.7932,-44.9664,-59.039,0,-51.8143 1/2:60:0,29,31:0:0:29,31:825,1077:-124.82,-66.9923,-58.2625,-58.0342,0,-48.7023 1/2:42:0,16,26:0:0:16,26:478,889:-88.6175,-54.6632,-49.8468,-34.2222,0,-26.3954 1/2:66:0,43,22:0:0:43,22:1255,779:-135.707,-47.5023,-34.558,-88.1776,0,-81.555 1/1:58:0,58,0:0:0:58,0:1781,0:-143.952,-17.4597,0,-143.952,-17.4597,-143.952 1/1:37:0,37,0:0:0:37,0:1029,0:-82.8493,-11.1381,0,-82.8493,-11.1381,-82.8493 chr12 18712134 . AGAGAT GAAGAC,AGAGAC 32641.7 PASS AB=0.481058,0.513939;ABP=7.37032,5.37114;AC=25,17;AF=0.595238,0.404762;AN=42;AO=884,720;CIGAR=2X3M1X,5M1X;DP=1613;DPB=1613;DPRA=0,1.984;EPP=1879.41,1557.8;EPPR=0;GTI=0;LEN=6,1;MEANALT=2.28571,2.44444;MQM=59.9344,60;MQMR=0;NS=21;NUMALT=2;ODDS=17.0216;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31183,25795;QR=0;RO=0;RPL=5,1;RPP=1879.41,1557.8;RPPR=0;RPR=879,719;RUN=1,1;SAF=884,720;SAP=1922.59,1566.47;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:156:0,69,86:0:0:69,86:2425,3075:-448.162,-250.779,-230.008,-197.426,0,-171.537 1/2:101:0,55,46:0:0:55,46:1942,1656:-293.624,-135.481,-118.924,-158.5,0,-144.653 1/2:97:0,56,41:0:0:56,41:1982,1468:-281.506,-120.074,-103.216,-161.789,0,-149.446 1/2:71:0,44,26:0:0:44,26:1534,932:-200.843,-76.0892,-62.8439,-124.825,0,-116.998 1/2:173:0,85,87:0:0:85,87:2987,3114:-497.218,-254.096,-228.508,-243.275,0,-217.085 1/2:31:0,10,21:0:0:10,21:354,752:-90.519,-61.6846,-58.6743,-29.1895,0,-22.8679 1/2:99:0,50,47:0:0:50,47:1757,1675:-279.551,-136.543,-121.491,-143.017,0,-128.868 1/2:67:0,43,24:0:0:43,24:1521,864:-194.74,-70.8578,-57.9136,-124.239,0,-117.015 1/1:57:0,57,0:0:0:57,0:2010,0:-181.174,-17.1587,0,-181.174,-17.1587,-181.174 1/1:28:0,27,0:0:0:27,0:946,0:-85.1277,-8.12781,0,-85.1277,-8.12781,-85.1277 1/2:11:0,7,4:0:0:7,4:241,144:-31.6734,-12.1095,-10.0023,-19.918,0,-18.7139 1/2:37:0,18,19:0:0:18,19:635,684:-107.873,-56.1708,-50.7522,-52.0587,0,-46.3391 1/2:55:0,18,37:0:0:18,37:620,1323:-158.588,-108.234,-102.815,-50.703,0,-39.5649 1/2:86:0,40,46:0:0:40,46:1420,1656:-251.18,-135.481,-123.44,-116.056,0,-102.209 1/2:162:0,68,94:0:0:68,94:2417,3371:-472.269,-275.308,-254.838,-197.317,0,-169.02 1/2:68:0,32,34:0:0:32,34:1133,1224:-192.165,-99.8769,-90.2439,-92.2899,0,-82.0549 1/2:59:0,31,28:0:0:31,28:1096,1000:-171.149,-81.8865,-72.5546,-89.6182,0,-81.1893 1/2:73:0,25,48:0:0:25,48:885,1709:-211.733,-139.644,-132.119,-72.4433,0,-57.9939 1/2:53:0,22,31:0:0:22,31:781,1112:-154.694,-91.0594,-84.4368,-63.9909,0,-54.659 1/1:89:0,87,1:0:0:87,1:3078,36:-276.933,-26.1896,0,-273.995,-23.1973,-273.694 1/1:40:0,40,0:0:0:40,0:1419,0:-128.006,-12.0412,0,-128.006,-12.0412,-128.006 chr12 18713654 . T C 8385.86 PASS AB=0.467492;ABP=11.9046;AC=16;AF=0.380952;AN=42;AO=453;CIGAR=1X;DP=1221;DPB=1221;DPRA=1.20164;EPP=713.532;EPPR=1568.1;GTI=0;LEN=1;MEANALT=1;MQM=59.9029;MQMR=59.9661;NS=21;NUMALT=1;ODDS=7.3916;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16183;QR=27560;RO=768;RPL=34;RPP=713.532;RPPR=1568.1;RPR=419;RUN=1;SAF=0;SAP=986.687;SAR=453;SRF=0;SRP=1670.7;SRR=768;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:59:29,30:29:1040:30:1072:-79.0309,0,-76.1536 0/1:33:20,13:20:720:13:468:-32.5257,0,-55.1948 0/1:64:32,32:32:1148:32:1152:-84.7238,0,-84.3639 0/1:76:46,30:46:1641:30:1058:-72.6513,0,-125.098 0/1:126:74,52:74:2656:52:1863:-130.017,0,-201.356 0/1:50:26,24:26:936:24:855:-62.2187,0,-69.508 0/1:79:49,30:49:1764:30:1080:-73.7319,0,-135.072 0/1:113:60,53:60:2152:53:1895:-136.811,0,-159.931 0/0:135:135,0:135:4848:0:0:0,-40.639,-436.472 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.9034 0/0:5:5,0:5:176:0:0:0,-1.50515,-16.185 0/1:25:17,8:17:612:8:288:-18.7417,0,-47.8877 0/1:49:21,28:21:756:28:1008:-76.2851,0,-53.6168 0/1:70:45,25:45:1620:25:896:-59.8883,0,-125.018 0/1:86:36,50:36:1296:50:1783:-134.862,0,-91.0554 0/1:49:19,30:19:684:30:1076:-82.386,0,-47.1399 0/1:45:22,23:22:784:23:806:-59.3095,0,-57.3352 0/1:18:9,9:9:324:9:320:-23.7238,0,-24.0873 0/1:27:11,16:11:396:16:563:-42.8714,0,-27.8549 0/0:75:75,0:75:2687:0:0:0,-22.5772,-242.074 0/0:29:29,0:29:1036:0:0:0,-8.72987,-93.5539 chr12 18750797 . 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CAAC CAAA,TAAA 59310.6 PASS AB=0.445906,0.5507;ABP=62.917,55.6351;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1598,1302;CIGAR=3M1X,1X2M1X;DP=2911;DPB=2911;DPRA=36.3375,1.01005;EPP=3464.34,2830.27;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.2,2.29412;MQM=59.9975,59.9969;MQMR=0;NS=21;NUMALT=2;ODDS=0.869245;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57176,45945;QR=0;RO=0;RPL=1,0;RPP=3464.34,2830.27;RPPR=0;RPR=1597,1302;RUN=1,1;SAF=0,0;SAP=3473.02,2830.27;SAR=1598,1302;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:129:0,56,72:0:0:56,72:1989,2540:-368.998,-206.926,-190.069,-162.173,0,-140.499 1/2:100:0,43,57:0:0:43,57:1544,2017:-290.595,-164.643,-151.699,-126.309,0,-109.15 1/2:197:0,69,127:0:0:69,127:2476,4508:-569.265,-367.3,-346.529,-201.963,0,-163.732 1/2:162:0,67,95:0:0:67,95:2400,3336:-467.594,-271.862,-251.693,-196.088,0,-167.49 1/2:373:0,170,202:0:0:170,202:6086,7082:-1072.71,-576.395,-525.22,-496.415,0,-435.607 1/2:162:0,83,76:0:0:83,76:2976,2692:-462.018,-219.287,-194.302,-242.727,0,-219.849 1/2:217:0,85,132:0:0:85,132:3031,4692:-629.783,-382.706,-357.119,-247.433,0,-207.697 1/2:82:0,34,48:0:0:34,48:1220,1703:-238.621,-139.106,-128.871,-99.8718,0,-85.4223 1/1:231:0,229,0:0:0:229,0:8174,0:-735.401,-68.9359,0,-735.401,-68.9359,-735.401 1/1:24:0,24,0:0:0:24,0:856,0:-77.3611,-7.22472,0,-77.3611,-7.22472,-77.3611 2/2:4:0,0,4:0:0:0,4:0,143:-13.2214,-13.2214,-13.2214,-1.20412,-1.20412,0 1/2:22:0,16,6:0:0:16,6:576,216:-64.983,-17.9843,-13.1679,-47.3585,0,-45.5523 1/2:200:0,90,109:0:0:90,109:3232,3823:-574.75,-311.097,-284.005,-263.649,0,-230.836 1/2:170:0,91,78:0:0:91,78:3259,2754:-490.152,-224.37,-196.976,-265.885,0,-242.405 1/2:195:0,85,110:0:0:85,110:3034,3903:-565.697,-318.351,-292.764,-247.702,0,-214.589 1/2:80:0,21,59:0:0:21,59:756,2077:-231.127,-169.439,-163.118,-62.0456,0,-44.2848 1/2:81:0,23,58:0:0:23,58:828,2012:-231.456,-163.892,-156.968,-67.9204,0,-50.4607 1/2:97:0,52,45:0:0:52,45:1855,1588:-280.885,-129.664,-114.01,-151.575,0,-138.029 1/2:90:0,66,24:0:0:66,24:2357,859:-262.569,-70.4072,-50.5392,-192.519,0,-185.294 1/1:238:0,237,0:0:0:237,0:8483,0:-763.228,-71.3441,0,-763.228,-71.3441,-763.228 1/1:57:0,57,0:0:0:57,0:2044,0:-184.232,-17.1587,0,-184.232,-17.1587,-184.232 chr12 19001856 . CT TC,TT 67973.9 PASS AB=0.450144,0.548625;ABP=55.6255,53.0593;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1431,1339;CIGAR=2X,1X1M;DP=2773;DPB=2807.5;DPRA=0,1.47222;EPP=3110.39,2901.93;EPPR=0;GTI=1;LEN=2,1;MEANALT=2,2.16667;MQM=55.884,57.9746;MQMR=0;NS=21;NUMALT=2;ODDS=4.29046;PAIRED=0,0;PAIREDR=0;PAO=69,0;PQA=2468,0;PQR=0;PRO=0;QA=47616,46779;QR=0;RO=0;RPL=926,555;RPP=271.965,88.0545;RPPR=0;RPR=505,784;RUN=1,1;SAF=926,556;SAP=271.965,86.5755;SAR=505,783;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:174:0,87,87:0:0:87,87:2911,3014:-480.293,-244.761,-218.571,-235.872,0,-209.683 1/2:80:0,18,62:0:0:18,62:622,2174:-226.96,-176.597,-171.178,-50.3541,0,-31.6902 1/2:192:0,106,86:0:0:106,86:3564,3017:-534.078,-245.619,-213.71,-288.802,0,-262.913 1/2:173:0,96,76:0:0:96,76:3185,2692:-476.424,-219.025,-190.126,-257.384,0,-234.506 1/2:314:0,143,170:0:0:143,170:4816,5954:-873.589,-483.829,-440.781,-389.842,0,-338.667 1/2:110:0,43,66:0:0:43,66:1480,2321:-308.079,-188.882,-175.937,-119.191,0,-99.3234 1/2:157:0,58,99:0:0:58,99:1835,3435:-425.905,-278.957,-261.497,-146.93,0,-117.128 1/2:108:0,25,83:0:0:25,83:771,2895:-297.374,-235.748,-228.222,-61.9436,0,-36.9581 1/1:202:0,202,0:0:0:202,0:6787,0:-609.974,-60.8081,0,-609.974,-60.8081,-609.974 1/1:15:0,15,0:0:0:15,0:481,0:-43.5397,-4.51545,0,-43.5397,-4.51545,-43.5397 1/2:11:0,5,6:0:0:5,6:176,212:-31.2442,-17.261,-15.7559,-13.9775,0,-12.1713 1/2:63:0,24,39:0:0:24,39:753,1337:-169.081,-108.873,-101.649,-60.5312,0,-48.791 1/2:154:0,77,77:0:0:77,77:2611,2714:-432.209,-221.242,-198.063,-211.312,0,-188.132 1/2:152:0,74,78:0:0:74,78:2477,2737:-422.364,-222.426,-200.15,-200.279,0,-176.799 1/2:245:0,104,141:0:0:104,141:3467,4909:-679.403,-398.976,-367.668,-280.767,0,-238.322 1/2:149:0,66,83:0:0:66,83:2275,2891:-419.827,-235.239,-215.371,-184.933,0,-159.948 1/2:90:0,43,47:0:0:43,47:1415,1630:-246.688,-132.377,-119.433,-114.648,0,-100.499 1/2:134:0,52,82:0:0:52,82:1640,2819:-360.624,-228.944,-213.29,-132.006,0,-107.321 1/2:131:0,76,55:0:0:76,55:2603,1960:-370.504,-159.619,-136.741,-211.235,0,-194.678 1/1:65:0,65,0:0:0:65,0:2029,0:-182.307,-19.567,0,-182.307,-19.567,-182.307 1/1:54:0,52,2:0:0:52,2:1718,68:-153.994,-15.6536,0,-148.478,-10.14,-147.876 chr12 19280412 . 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AT GT,GC 50046 PASS AB=0.436627,0.560482;ABP=75.3952,68.9404;AC=24,18;AF=0.571429,0.428571;AN=42;AO=1340,1169;CIGAR=1X1M,2X;DP=2516;DPB=2516;DPRA=31.4,1.09639;EPP=2912.78,2541.46;EPPR=7.35324;GTI=0;LEN=1,2;MEANALT=2.1,2.22222;MQM=59.709,47.8477;MQMR=60;NS=21;NUMALT=2;ODDS=3.68493;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47659,40886;QR=72;RO=2;RPL=1340,1169;RPP=2912.78,2541.46;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=1340,1169;SAP=2912.78,2541.46;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:197:0,82,115:0:0:82,115:2916,4041:-561.87,-324.244,-299.56,-237.978,0,-203.36 1/2:59:0,11,48:0:0:11,48:396,1693:-169.2,-136.887,-133.576,-32.6714,0,-18.222 1/2:109:0,55,53:0:0:55,53:1935,1829:-305.122,-147.616,-131.059,-157.622,0,-141.668 1/2:134:0,52,80:0:0:52,80:1845,2779:-374.29,-223.965,-208.311,-150.44,0,-126.358 1/2:293:0,128,165:0:0:128,165:4576,5748:-837.786,-464.692,-426.16,-373.447,0,-323.777 1/2:147:0,66,81:0:0:66,81:2338,2834:-419.732,-229.282,-209.414,-190.802,0,-166.418 1/2:187:0,76,111:0:0:76,111:2720,3867:-534.298,-312.502,-289.624,-222.149,0,-188.735 1/2:99:0,41,58:0:0:41,58:1455,2023:-279.86,-161.306,-148.964,-118.903,0,-101.443 1/1:270:0,270,0:0:0:270,0:9593,0:-863.226,-81.2781,0,-863.226,-81.2781,-863.226 1/1:19:0,19,0:0:0:19,0:684,0:-61.8903,-5.71957,0,-61.8903,-5.71957,-61.8903 2/2:4:0,0,4:0:0:0,4:0,142:-13.0636,-13.0636,-13.0636,-1.20412,-1.20412,0 1/2:39:0,16,22:0:0:16,22:571,777:-108.486,-61.9326,-57.1161,-46.666,0,-40.0433 1/2:211:2,87,122:2:72:87,122:3082,4274:-589.391,-339.085,-318.77,-245.025,0,-214.174 1/2:145:0,74,71:0:0:74,71:2634,2484:-414.51,-199.882,-177.606,-214.979,0,-193.606 1/2:149:0,64,85:0:0:64,85:2281,2996:-428.422,-242.524,-223.259,-186.251,0,-160.663 1/2:92:0,41,51:0:0:41,51:1451,1785:-262.6,-144.417,-132.075,-118.534,0,-103.181 1/2:87:0,42,45:0:0:42,45:1485,1569:-246.356,-125.517,-112.874,-121.187,0,-107.64 1/2:68:0,37,31:0:0:37,31:1316,1085:-193.672,-86.4275,-75.2894,-107.593,0,-98.2611 1/2:59:0,34,25:0:0:34,25:1216,888:-171.134,-72.0842,-61.8492,-99.4045,0,-91.8787 1/1:105:0,102,2:0:0:102,2:3637,72:-327.212,-30.7051,0,-321.477,-24.8852,-320.874 1/1:43:0,43,0:0:0:43,0:1528,0:-137.805,-12.9443,0,-137.805,-12.9443,-137.805 chr12 19618642 . 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T C 13962.4 PASS AB=0.579959;ABP=83.9211;AC=17;AF=0.404762;AN=42;AO=845;CIGAR=1X;DP=1659;DPB=1659;DPRA=1.69715;EPP=1837.9;EPPR=1768.42;GTI=1;LEN=1;MEANALT=1.05882;MQM=41.9609;MQMR=59.9975;NS=21;NUMALT=1;ODDS=4.13155;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30173;QR=29143;RO=813;RPL=845;RPP=1837.9;RPPR=1768.42;RPR=0;RUN=1;SAF=0;SAP=1837.9;SAR=845;SRF=0;SRP=1768.42;SRR=813;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:122:52,70:52:1860:70:2493:-181.072,0,-130.954 0/1:78:38,40:38:1368:40:1424:-101.77,0,-99.9405 0/1:134:60,74:60:2152:74:2652:-188.824,0,-153.609 0/1:59:24,35:24:864:35:1256:-90.1793,0,-60.3218 0/1:185:56,129:56:2016:129:4621:-345.469,0,-126.022 0/1:113:40,72:40:1421:72:2563:-190.815,0,-94.1179 0/1:112:50,62:50:1796:62:2194:-157.429,0,-128.207 0/1:89:32,57:32:1148:57:2040:-152.408,0,-76.8382 0/0:96:96,0:96:3452:0:0:0,-28.8989,-310.891 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:5:1,4:1:36:4:144:-11.5226,0,-2.09312 0/1:25:12,13:12:428:13:468:-33.461,0,-31.3331 0/1:98:37,61:37:1320:61:2184:-161.75,0,-89.601 0/1:97:45,52:45:1616:52:1837:-132.047,0,-116.53 0/1:113:65,48:65:2340:48:1716:-115.703,0,-176.843 0/1:62:23,39:23:824:39:1400:-105.015,0,-55.8195 0/1:62:23,39:23:824:39:1385:-103.565,0,-55.8185 0/1:49:22,27:22:792:27:968:-70.2833,0,-56.8552 0/1:54:31,23:31:1097:23:828:-56.6171,0,-82.7824 0/0:63:63,0:63:2253:0:0:0,-18.9649,-203.031 0/0:35:35,0:35:1248:0:0:0,-10.536,-112.625 chr12 20202001 . A C 9291.34 PASS AB=0.226477;ABP=3345.74;AC=16;AF=0.380952;AN=42;AO=1165;CIGAR=1X;DP=6329;DPB=6329;DPRA=1.35654;EPP=2532.78;EPPR=11212.2;GTI=6;LEN=1;MEANALT=1.125;MQM=47.2609;MQMR=57.9851;NS=21;NUMALT=1;ODDS=3.62822;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41616;QR=185112;RO=5162;RPL=0;RPP=2532.78;RPPR=11212.2;RPR=1165;RUN=1;SAF=1165;SAP=2532.78;SAR=0;SRF=5162;SRP=11212.2;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:318:254,64:254:9120:64:2284:-107.787,0,-724.004 0/1:327:233,94:233:8354:94:3353:-198.874,0,-652.869 0/1:239:158,81:158:5652:81:2904:-187.35,0,-436.493 0/1:314:226,88:226:8108:88:3152:-186.83,0,-634.227 0/1:740:569,170:569:20375:170:6071:-315.484,0,-1608.36 0/1:280:193,87:193:6932:87:3108:-191.106,0,-538.723 0/1:565:434,131:434:15542:131:4680:-244.208,0,-1226.76 0/1:275:229,46:229:8206:46:1627:-62.5093,0,-655.266 0/0:702:702,0:702:25163:0:0:0,-211.323,-2262.35 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.1308 0/0:8:8,0:8:284:0:0:0,-2.40824,-25.8786 0/1:81:62,19:62:2232:19:676:-35.9195,0,-176.574 0/1:368:274,94:274:9836:94:3345:-188.112,0,-772.91 0/1:248:206,42:206:7396:42:1496:-59.2969,0,-590.197 0/1:530:427,103:427:15318:103:3696:-168.867,0,-1215.34 0/1:302:247,55:247:8857:55:1960:-83.4941,0,-705.473 0/1:232:194,38:194:6961:38:1360:-52.2754,0,-556.516 0/1:151:125,26:125:4488:26:936:-38.3315,0,-358.298 0/1:174:146,27:146:5244:27:968:-34.5043,0,-419.275 0/0:328:328,0:328:11760:0:0:0,-98.7378,-1056.56 0/0:129:129,0:129:4640:0:0:0,-38.8329,-415.931 chr12 20202004 . A C 22843 PASS AB=0.29842;ABP=2237.16;AC=21;AF=0.5;AN=42;AO=1889;CIGAR=1X;DP=6330;DPB=6330;DPRA=0;EPP=4104.92;EPPR=9635.66;GTI=2;LEN=1;MEANALT=1.09524;MQM=54.5447;MQMR=56.5906;NS=21;NUMALT=1;ODDS=12.2819;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=67727;QR=158149;RO=4436;RPL=0;RPP=4104.92;RPPR=9635.66;RPR=1889;RUN=1;SAF=1889;SAP=4104.92;SAR=0;SRF=4436;SRP=9635.66;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:317:239,78:239:8475:78:2800:-155.989,0,-664.934 0/1:328:256,70:256:9170:70:2516:-127.613,0,-722.066 0/1:241:194,47:194:6934:47:1692:-79.6524,0,-548.862 0/1:321:241,80:241:8610:80:2880:-161.817,0,-675.281 0/1:739:557,182:557:19797:182:6521:-362.4,0,-1550.92 0/1:277:201,76:201:7122:76:2715:-160.305,0,-553.171 0/1:562:429,133:429:15322:133:4784:-260.147,0,-1201.51 0/1:273:203,70:203:7242:70:2512:-143.653,0,-567.972 0/1:699:364,335:364:13030:335:12003:-868.394,0,-962.086 0/1:18:10,8:10:345:8:288:-20.6851,0,-25.9623 0/1:8:5,3:5:180:3:108:-7.6416,0,-14.1438 0/1:80:50,30:50:1796:30:1076:-72.8949,0,-136.952 0/1:368:263,102:263:9392:102:3652:-217.026,0,-732.748 0/1:253:182,71:182:6509:71:2540:-151.849,0,-508.71 0/1:530:386,144:386:13823:144:5152:-300.932,0,-1080.01 0/1:303:233,70:233:8323:70:2512:-134.391,0,-655.551 0/1:233:158,75:158:5575:75:2680:-171.157,0,-431.134 0/1:150:112,38:112:4020:38:1360:-77.1389,0,-315.665 0/1:172:115,57:115:4071:57:2048:-132.434,0,-314.351 0/1:327:170,157:170:5969:157:5628:-406.606,0,-438.875 0/1:131:68,63:68:2444:63:2260:-162.399,0,-180.78 chr12 20202026 . GAC GAA,AAA,AGA 105901 PASS AB=0.508836,0.301199,0.230233;ABP=7.30802,2178.73,3264.7;AC=21,17,4;AF=0.5,0.404762,0.0952381;AN=42;AO=3225,1909,1188;CIGAR=2M1X,1X1M1X,3X;DP=6338;DPB=6338;DPRA=0,0,0;EPP=6688.32,4002.01,2539.47;EPPR=5.18177;GTI=2;LEN=1,3,3;MEANALT=3.42857,3.42857,3.625;MQM=59.9919,54.5327,47.1481;MQMR=60;NS=21;NUMALT=3;ODDS=13.3042;PAIRED=0,0,0;PAIREDR=0;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=115127,68093,41904;QR=34;RO=1;RPL=37,17,5;RPP=6688.32,4002.01,2539.47;RPPR=5.18177;RPR=3188,1892,1183;RUN=1,1,1;SAF=3225,1909,1188;SAP=7006.01,4148.35,2582.72;SAR=0,0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:315:0,170,79,65:0:0:170,79,65:6074,2834,2283:-725.381,-230.339,-179.164,-495.047,0,-471.265,-541.762,-46.7227,-311.428,-522.195 1/3:326:0,161,70,94:0:0:161,70,94:5739,2506,3339:-735.296,-267.491,-219.025,-531.5,-63.6918,-510.428,-467.803,0,-264.007,-439.506 1/3:242:0,111,48,81:0:0:111,48,81:3968,1693,2863:-554.92,-231.377,-197.963,-417.4,-93.8557,-402.95,-323.544,0,-186.025,-299.161 1/3:322:0,147,80,95:0:0:147,80,95:5242,2864,3351:-697.417,-270.103,-225.852,-464.84,-37.5234,-440.757,-427.312,0,-194.735,-398.714 1/2:744:0,386,182,175:0:0:386,182,175:13768,6470,6128:-1647.36,-525.01,-408.812,-1122.36,0,-1067.57,-1156.19,-33.8366,-631.182,-1103.51 1/3:279:0,114,77,87:0:0:114,77,87:4081,2741,3083:-579.5,-246.698,-212.38,-356.921,-24.1163,-333.742,-332.802,0,-110.224,-306.612 1/2:564:0,291,137,135:0:0:291,137,135:10404,4882,4756:-1244.95,-396.622,-309.022,-848.334,0,-807.092,-866.317,-17.9903,-469.701,-825.678 1/2:274:0,157,71,46:0:0:157,71,46:5619,2537,1629:-664.671,-206.458,-159.196,-458.217,0,-436.844,-533.309,-75.0963,-326.855,-519.461 1/2:699:0,356,340,0:0:0:356,340,0:12701,12117,0:-2021.69,-986.293,-879.126,-1035.45,0,-933.102,-2021.69,-986.293,-1035.45,-2021.69 1/2:18:0,10,8,0:0:0:10,8,0:360,286,0:-52.892,-23.5152,-20.5049,-29.734,0,-27.3258,-52.892,-23.5152,-29.734,-52.892 1/2:8:0,5,3,0:0:0:5,3,0:180,106,0:-23.6555,-8.96377,-7.45862,-15.0469,0,-14.1438,-23.6555,-8.96377,-15.0469,-23.6555 1/2:80:0,30,31,19:0:0:30,31,19:1072,1089,667:-175.899,-88.4913,-79.4604,-87.4111,0,-78.0792,-122.43,-35.0222,-33.9446,-116.71 1/2:371:0,171,101,97:0:0:171,101,97:6103,3611,3427:-790.176,-292.634,-241.158,-497.544,0,-467.14,-513.419,-15.878,-220.788,-484.22 1/2:250:0,136,71,42:0:0:136,71,42:4847,2542,1487:-601.692,-206.601,-165.661,-395.096,0,-373.723,-481.533,-86.4421,-274.936,-468.889 1/2:528:0,280,145,103:0:0:280,145,103:9979,5181,3629:-1232.46,-419.049,-334.761,-813.411,0,-769.762,-940.685,-127.278,-521.64,-909.679 1/2:304:0,177,71,56:0:0:177,71,56:6298,2536,1979:-719.381,-206.102,-152.82,-513.281,0,-491.908,-559.812,-46.5352,-353.713,-542.954 1/2:231:0,115,78,38:0:0:115,78,38:4088,2783,1351:-559.812,-226.68,-192.062,-333.133,0,-309.652,-450.291,-117.16,-223.612,-438.852 1/2:154:1,86,39,28:1:34:86,39,28:3060,1397,988:-359.804,-110.72,-87.5888,-246.631,0,-237.649,-280.501,-33.8753,-169.786,-274.83 1/2:176:0,90,58,27:0:0:90,58,27:3232,2080,944:-432.982,-169.33,-142.238,-263.658,0,-246.198,-356.655,-93.0052,-187.332,-348.527 1/2:322:0,165,157,0:0:0:165,157,0:5908,5583,0:-935.754,-453.954,-404.284,-482.157,0,-434.895,-935.754,-453.954,-482.157,-935.754 1/2:131:0,67,63,0:0:0:67,63,0:2404,2255,0:-378.806,-182.714,-162.545,-196.235,0,-177.27,-378.806,-182.714,-196.235,-378.806 chr12 20202039 . A G 23112.3 PASS AB=0.312923;ABP=1800.18;AC=21;AF=0.5;AN=42;AO=1850;CIGAR=1X;DP=5912;DPB=5912;DPRA=0;EPP=4020.23;EPPR=8801.83;GTI=2;LEN=1;MEANALT=1.09524;MQM=54.5778;MQMR=56.5892;NS=21;NUMALT=1;ODDS=25.584;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=65862;QR=142810;RO=4060;RPL=1850;RPP=4020.23;RPPR=8801.83;RPR=0;RUN=1;SAF=1850;SAP=4020.23;SAR=0;SRF=4060;SRP=8819.19;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:292:216,76:216:7542:76:2709:-155.406,0,-588.915 0/1:292:224,68:224:7823:68:2444:-131.751,0,-612.091 0/1:227:181,46:181:6438:46:1644:-79.5974,0,-509.469 0/1:289:211,78:211:7415:78:2793:-163.175,0,-578.024 0/1:690:515,174:515:18105:174:6208:-348.819,0,-1412.85 0/1:257:179,78:179:6176:78:2772:-171.59,0,-474.777 0/1:535:405,130:405:14275:130:4644:-255.977,0,-1115.35 0/1:246:177,69:177:6205:69:2447:-146.099,0,-483.558 0/1:667:338,329:338:11950:329:11721:-852.754,0,-874.581 0/1:18:10,8:10:345:8:288:-20.6851,0,-25.9623 0/1:8:5,3:5:180:3:108:-7.6416,0,-14.1438 0/1:73:45,28:45:1596:28:999:-68.0837,0,-121.14 0/1:341:239,102:239:8415:102:3635:-222.989,0,-653.255 0/1:233:169,64:169:5933:64:2238:-130.731,0,-463.295 0/1:507:365,142:365:12890:142:5031:-298.253,0,-1003.07 0/1:284:215,69:215:7520:69:2467:-136.249,0,-589.15 0/1:215:139,75:139:4877:75:2681:-176.618,0,-373.752 0/1:145:106,39:106:3753:39:1353:-78.1385,0,-293.267 0/1:162:105,57:105:3690:57:2028:-133.795,0,-283.093 0/1:306:153,153:153:5438:153:5437:-395.966,0,-397.435 0/1:125:63,62:63:2244:62:2215:-160.163,0,-164.595 chr12 20202044 . A G 65205.7 PASS AB=0.4733;ABP=47.0745;AC=21;AF=0.5;AN=42;AO=3368;CIGAR=1X;DP=7116;DPB=7116;DPRA=0;EPP=7316.53;EPPR=8130.83;GTI=0;LEN=1;MEANALT=1.04762;MQM=52.7838;MQMR=59.9717;NS=21;NUMALT=1;ODDS=22.0719;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=119229;QR=134100;RO=3747;RPL=2974;RPP=4294.63;RPPR=4382.47;RPR=394;RUN=1;SAF=2974;SAP=4294.63;SAR=394;SRF=3249;SRP=4388.84;SRR=498;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:310:175,135:175:6288:135:4797:-336.086,0,-472.445 0/1:320:160,160:160:5728:160:5682:-410.298,0,-419.307 0/1:239:112,127:112:4028:127:4524:-332.753,0,-290.76 0/1:315:148,167:148:5296:167:5940:-436.193,0,-381.951 0/1:720:383,337:383:13717:337:11843:-841.631,0,-1017.57 0/1:273:116,157:116:4148:157:5579:-415.149,0,-291.323 0/1:555:294,261:294:10523:261:9210:-653.627,0,-779.644 0/1:270:156,114:156:5586:114:4020:-279.121,0,-421.583 0/1:999:552,447:552:19708:447:15826:-1122.18,0,-1472.16 0/1:18:10,8:10:360:8:284:-20.3238,0,-27.3258 0/1:8:5,3:5:180:3:104:-7.27429,0,-14.1438 0/1:79:31,48:31:1116:48:1688:-127.442,0,-76.9703 0/1:362:171,191:171:6127:191:6750:-495.372,0,-442.556 0/1:245:139,106:139:4983:106:3726:-260.72,0,-374.864 0/1:521:283,238:283:10122:238:8420:-595.318,0,-754.075 0/1:618:334,284:334:11967:284:10061:-717.822,0,-890.846 0/1:491:268,222:268:9553:222:7892:-561.7,0,-711.866 0/1:151:87,64:87:3104:64:2263:-157.117,0,-234.133 0/1:175:90,85:90:3211:85:3020:-218.55,0,-236.533 0/1:319:166,153:166:5951:153:5449:-393.072,0,-439.665 0/1:128:67,61:67:2404:61:2151:-153.866,0,-178.085 chr12 20202083 . GT AT,AC 128441 PASS AB=0.693182,0.305729;ABP=2085.35,2108.91;AC=21,21;AF=0.5,0.5;AN=42;AO=4453,1964;CIGAR=1X1M,2X;DP=6424;DPB=6424;DPRA=0,0;EPP=9473.83,4181.37;EPPR=5.18177;GTI=2;LEN=1,2;MEANALT=2.28571,2.28571;MQM=59.9883,59.9516;MQMR=60;NS=21;NUMALT=2;ODDS=3.0318;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=159501,69259;QR=36;RO=1;RPL=4430,1954;RPP=9473.83,4181.37;RPPR=5.18177;RPR=23,10;RUN=1,1;SAF=0,0;SAP=9672.58,4267.78;SAR=4453,1964;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:240:0,151,89:0:0:151,89:5413,3155:-698.868,-257.382,-211.926,-441.842,0,-415.05 1/2:337:0,225,112:0:0:225,112:8040,3932:-975.874,-320.344,-252.612,-655.883,0,-622.168 1/2:250:0,183,67:0:0:183,67:6570,2375:-729.686,-193.837,-138.749,-536.204,0,-516.035 1/2:445:0,305,140:0:0:305,140:10952,4880:-1290.6,-397.196,-305.382,-893.758,0,-851.614 1/2:743:0,559,183:0:0:559,183:20029,6476:-2161.07,-527.586,-359.31,-1633.59,0,-1578.5 1/2:325:0,252,73:0:0:252,73:9001,2601:-946.214,-212.362,-136.502,-734.209,0,-712.233 1/2:486:0,349,137:0:0:349,137:12506,4896:-1419.5,-399.548,-294.489,-1020.31,0,-979.065 1/2:295:0,226,69:0:0:226,69:8120,2447:-862.137,-199.714,-131.681,-662.779,0,-642.008 1/2:325:0,130,192:0:0:130,192:4655,6818:-935.257,-555.635,-516.501,-379.716,0,-321.918 1/2:62:0,38,24:0:0:38,24:1356,845:-179.69,-69.1432,-57.7041,-110.9,0,-103.676 1/2:22:0,13,9:0:0:13,9:464,322:-64.4418,-26.6149,-22.7016,-38.1841,0,-35.4748 1/2:101:0,81,20:0:0:81,20:2899,696:-293.352,-56.9396,-32.5562,-236.762,0,-230.741 1/2:301:0,232,69:0:0:232,69:8306,2413:-874.005,-196.651,-126.812,-677.705,0,-656.934 1/2:353:0,263,90:0:0:263,90:9358,3191:-1022.98,-260.32,-181.149,-763.016,0,-735.924 1/2:573:1,422,150:1:36:422,150:15121,5252:-1657.27,-424.349,-300.252,-1230.27,0,-1188.06 1/2:339:0,250,89:0:0:250,89:8961,3166:-989.169,-258.316,-183.058,-731.21,0,-704.418 1/2:271:0,190,81:0:0:190,81:6806,2838:-786.322,-231.272,-174.076,-555.403,0,-531.019 1/2:326:0,255,71:0:0:255,71:9136,2488:-947.894,-202.798,-126.035,-745.448,0,-724.075 1/2:164:0,118,44:0:0:118,44:4240,1534:-470.701,-124.795,-89.2734,-345.95,0,-332.705 1/2:322:0,142,180:0:0:142,180:5092,6327:-930.659,-515.338,-472.592,-415.676,0,-361.491 1/2:144:0,69,75:0:0:69,75:2476,2607:-414.259,-212.29,-191.519,-202.322,0,-179.745 chr12 20249811 . AGCAT CGCGT,CGCAT 152626 PASS AB=0.513028,0.481248;ABP=10.4789,18.4841;AC=25,17;AF=0.595238,0.404762;AN=42;AO=3496,2444;CIGAR=1X2M1X1M,1X4M;DP=5974;DPB=5975.4;DPRA=0,0.929344;EPP=7594.48,5310.09;EPPR=7.35324;GTI=0;LEN=5,1;MEANALT=3.04762,3.05;MQM=59.9554,59.9812;MQMR=60;NS=21;NUMALT=2;ODDS=54.1011;PAIRED=0,0;PAIREDR=0;PAO=2,2;PQA=70.6667,70.6667;PQR=0;PRO=0;QA=121437,86242;QR=62;RO=2;RPL=1508,1003;RPP=146.119,173.462;RPPR=3.0103;RPR=1988,1441;RUN=1,1;SAF=1508,1003;SAP=146.119,173.462;SAR=1988,1441;SRF=1;SRP=3.0103;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:379:1,177,199:1:36:177,199:6158,7038:-1070.55,-570.306,-519.961,-497.618,0,-440.651 1/2:328:0,166,160:0:0:166,160:5820,5656:-934.4,-460.797,-410.826,-473.753,0,-425.588 1/2:279:0,129,150:0:0:129,150:4511,5305:-799.057,-432.074,-393.241,-366.975,0,-321.82 1/2:341:0,186,153:0:0:186,153:6413,5405:-961.109,-440.17,-384.178,-520.928,0,-474.871 1/2:567:1,306,258:1:26:306,258:10592,9040:-1594.07,-733.602,-643.525,-858.791,0,-783.164 1/2:321:0,184,134:0:0:184,134:6469,4750:-913.544,-386.978,-331.588,-526.575,0,-486.237 1/2:366:0,192,172:0:0:192,172:6692,6036:-1035.48,-491.267,-433.469,-544.261,0,-492.484 1/2:310:0,158,150:0:0:158,150:5481,5291:-876.409,-430.888,-383.325,-445.584,0,-400.43 1/1:402:0,395,4:0:0:395,4:13688,136:-1231.4,-118.907,0,-1220.37,-107.878,-1219.16 1/1:80:0,79,1:0:0:79,1:2787,36:-250.713,-23.7814,0,-247.776,-20.4841,-247.475 1/2:27:0,14,9:0:0:14,9:486,324:-65.9421,-26.4402,-22.2258,-39.5017,0,-36.7924 1/2:96:0,49,47:0:0:49,47:1724,1670:-276.777,-136.437,-121.687,-140.693,0,-126.545 1/2:313:0,150,162:0:0:150,162:5162,5735:-886.375,-467.142,-421.988,-419.222,0,-370.455 1/2:280:0,135,145:0:0:135,145:4723,5074:-797.354,-413.106,-372.467,-384.546,0,-340.897 1/2:482:0,230,248:0:0:230,248:7970,8740:-1359.33,-711.591,-642.354,-647.741,0,-573.086 1/2:287:0,124,161:0:0:124,161:4323,5667:-812.797,-461.325,-423.997,-351.463,0,-302.997 1/2:243:0,133,110:0:0:133,110:4547,3892:-686.351,-317.361,-277.324,-369.338,0,-336.225 1/2:256:0,138,118:0:0:138,118:4759,4212:-730.309,-343.732,-302.189,-386.929,0,-351.407 1/2:191:0,128,62:0:0:128,62:4490,2199:-544.545,-179.152,-140.62,-365.387,0,-346.723 1/1:305:0,303,0:0:0:303,0:10463,0:-941.272,-91.2121,0,-941.272,-91.2121,-941.272 1/1:121:0,120,1:0:0:120,1:4179,36:-375.943,-36.1236,0,-373.005,-32.8264,-372.704 chr12 20249819 . C A 28264.1 PASS AB=0.423602;ABP=192.464;AC=17;AF=0.404762;AN=42;AO=1587;CIGAR=1X;DP=4407;DPB=4407;DPRA=2.48496;EPP=3440.46;EPPR=6122.22;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.9855;MQMR=59.9709;NS=21;NUMALT=1;ODDS=10.7835;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56537;QR=100202;RO=2818;RPL=106;RPP=2589.93;RPPR=959.287;RPR=1481;RUN=1;SAF=105;SAP=2597.46;SAR=1482;SRF=852;SRP=959.287;SRR=1966;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:310:172,136:172:6144:136:4857:-344.225,0,-459.146 0/1:210:107,103:107:3804:103:3662:-266.568,0,-279.341 0/1:202:123,79:123:4396:79:2828:-193.951,0,-335.006 0/1:291:178,113:178:6318:113:4017:-274.12,0,-481.115 0/1:432:289,143:289:10320:143:5072:-326.582,0,-798.681 0/1:222:126,96:126:4485:96:3432:-242.265,0,-336.991 0/1:251:136,115:136:4853:115:4080:-291.825,0,-361.292 0/1:200:89,111:89:3183:111:3950:-295.487,0,-226.487 0/0:393:389,4:389:13815:4:144:0,-104.991,-1229.82 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:10:8,2:8:288:2:72:-3.82642,0,-23.2571 0/1:45:23,22:23:800:22:788:-57.6984,0,-58.7694 0/1:255:143,112:143:5072:112:3970:-280.729,0,-379.862 0/1:211:133,78:133:4726:78:2750:-184.224,0,-361.984 0/1:359:220,139:220:7831:139:4963:-338.75,0,-596.752 0/1:285:125,160:125:4417:160:5718:-428.943,0,-311.91 0/1:235:124,111:124:4367:111:3968:-286.567,0,-322.355 0/1:65:29,36:29:1007:36:1296:-97.377,0,-71.373 0/1:154:127,27:127:4505:27:970:-41.2591,0,-359.262 0/0:198:198,0:198:7059:0:0:0,-59.6039,-635.374 0/0:60:60,0:60:2128:0:0:0,-18.0618,-191.789 chr12 20249859 . C G 35931 PASS AB=0.492166;ABP=4.5753;AC=25;AF=0.595238;AN=42;AO=1970;CIGAR=1X;DP=3463;DPB=3463;DPRA=0;EPP=4280.81;EPPR=3227.65;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9294;MQMR=59.9711;NS=21;NUMALT=1;ODDS=11.2183;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69834;QR=53052;RO=1489;RPL=1970;RPP=4280.81;RPPR=3236.33;RPR=0;RUN=1;SAF=0;SAP=4280.81;SAR=1970;SRF=1;SRP=3227.65;SRR=1488;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:239:140,99:140:5001:99:3515:-243.76,0,-378.291 0/1:209:102,107:102:3653:107:3811:-280.273,0,-266.057 0/1:137:80,57:80:2868:57:2016:-140.472,0,-217.116 0/1:248:114,134:114:4080:134:4766:-354.446,0,-292.731 0/1:287:143,144:143:5059:144:5133:-375.715,0,-369.061 0/1:224:96,127:96:3373:127:4538:-341.098,0,-236.292 0/1:252:116,135:116:4156:135:4766:-353.11,0,-298.287 0/1:197:111,86:111:3935:86:3037:-214.258,0,-295.037 1/1:249:2,247:2:72:247:8792:-784.364,-68.1197,0 1/1:18:0,18:0:0:18:640:-57.9293,-5.41854,0 0/1:9:2,7:2:72:7:248:-19.9549,0,-4.12745 0/1:44:23,21:23:820:21:737:-53.4053,0,-60.8772 0/1:211:113,98:113:3999:98:3446:-246.837,0,-296.581 0/1:157:77,79:77:2745:79:2752:-200.747,0,-200.119 0/1:256:140,116:140:5005:116:4132:-294.984,0,-373.403 0/1:175:99,75:99:3518:75:2660:-186.751,0,-264.089 0/1:140:68,72:68:2436:72:2523:-185.17,0,-177.343 0/1:64:36,28:36:1296:28:987:-69.8771,0,-97.678 0/1:87:27,60:27:964:60:2126:-165.418,0,-60.8872 1/1:199:0,199:0:0:199:7051:-634.659,-59.905,0 1/1:61:0,61:0:0:61:2158:-194.486,-18.3628,0 chr12 20321402 . TGCCA CGCCG 34643.6 PASS AB=0.499214;ABP=3.02396;AC=25;AF=0.595238;AN=42;AO=1867;CIGAR=1X3M1X;DP=3145;DPB=3145.6;DPRA=0;EPP=4057.15;EPPR=2741.24;GTI=0;LEN=5;MEANALT=1.66667;MQM=59.6599;MQMR=59.9952;NS=21;NUMALT=1;ODDS=17.2731;PAIRED=0;PAIREDR=0;PAO=3;PQA=108;PQR=0;PRO=0;QA=66019;QR=44481;RO=1261;RPL=0;RPP=4057.15;RPPR=2741.24;RPR=1867;RUN=1;SAF=1867;SAP=4057.15;SAR=0;SRF=1261;SRP=2741.24;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:70,66:70:2490:66:2321:-167.693,0,-183.055 0/1:169:86,82:86:3022:82:2914:-211.493,0,-221.281 0/1:184:101,82:101:3561:82:2918:-207.505,0,-265.351 0/1:196:90,106:90:3197:106:3744:-278.14,0,-228.953 0/1:367:179,185:179:6303:185:6572:-481.576,0,-457.439 0/1:109:47,61:47:1672:61:2158:-161.754,0,-118.043 0/1:273:135,137:135:4751:137:4861:-355.324,0,-345.513 0/1:123:63,59:63:2235:59:2095:-151.734,0,-164.328 1/1:397:2,393:2:66:393:13879:-1242.59,-112.984,0 1/1:14:0,14:0:0:14:497:-45.06,-4.21442,0 0/1:10:7,3:7:252:3:107:-6.97187,0,-20.0187 0/1:55:27,28:27:957:28:1005:-74.2096,0,-69.8892 0/1:175:88,87:88:3103:87:3026:-219.569,0,-226.819 0/1:156:79,76:79:2771:76:2684:-194.78,0,-202.612 0/1:223:103,118:103:3607:118:4166:-308.226,0,-257.952 0/1:138:69,68:69:2444:68:2420:-176.394,0,-178.616 0/1:116:62,54:62:2174:54:1923:-138.409,0,-161.006 0/1:50:27,22:27:949:22:777:-55.1114,0,-70.6129 0/1:62:26,36:26:927:36:1274:-96.2988,0,-65.0847 1/1:129:0,129:0:0:129:4528:-407.486,-38.8329,0 1/1:61:0,61:0:0:61:2150:-193.613,-18.3628,0 chr12 20321415 . G T 35213.9 PASS AB=0.503783;ABP=3.32249;AC=25;AF=0.595238;AN=42;AO=1858;CIGAR=1X;DP=3105;DPB=3105;DPRA=0;EPP=4037.61;EPPR=2706.49;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.6846;MQMR=60;NS=21;NUMALT=1;ODDS=17.7631;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66436;QR=44531;RO=1245;RPL=0;RPP=4037.61;RPPR=2706.49;RPR=1858;RUN=1;SAF=1858;SAP=4037.61;SAR=0;SRF=1245;SRP=2706.49;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:71,67:71:2552:67:2376:-172.462,0,-188.388 0/1:169:87,82:87:3103:82:2952:-214.968,0,-228.623 0/1:182:99,83:99:3548:83:2964:-212.204,0,-264.741 0/1:193:87,106:87:3112:106:3797:-283.809,0,-222.208 0/1:362:179,183:179:6409:183:6561:-481.56,0,-467.923 0/1:107:46,61:46:1637:61:2188:-164.906,0,-115.407 0/1:267:131,136:131:4683:136:4869:-357.804,0,-341.256 0/1:122:62,60:62:2216:60:2141:-156.229,0,-162.979 1/1:390:1,389:1:36:389:13905:-1247.58,-113.803,0 1/1:14:0,14:0:0:14:504:-45.6935,-4.21442,0 0/1:10:7,3:7:252:3:108:-7.06487,0,-20.0187 0/1:56:27,29:27:964:29:1044:-77.4171,0,-70.2191 0/1:171:85,85:85:3037:85:3011:-219.784,0,-222.137 0/1:154:79,75:79:2828:75:2682:-195.263,0,-208.4 0/1:222:102,120:102:3637:120:4296:-319.973,0,-260.706 0/1:135:70,65:70:2501:65:2317:-168.131,0,-184.702 0/1:113:58,54:58:2080:54:1944:-141.26,0,-153.513 0/1:48:28,20:28:1000:20:720:-50.6344,0,-75.8659 0/1:62:26,36:26:936:36:1283:-97.1088,0,-65.8956 1/1:129:0,129:0:0:129:4596:-413.713,-38.8329,0 1/1:61:0,61:0:0:61:2178:-196.217,-18.3628,0 chr12 20321418 . T C 20010.3 PASS AB=0.492866;ABP=4.09471;AC=17;AF=0.404762;AN=42;AO=1211;CIGAR=1X;DP=3037;DPB=3037;DPRA=2.35158;EPP=2632.66;EPPR=3961.6;GTI=0;LEN=1;MEANALT=1.16667;MQM=59.995;MQMR=59.7285;NS=21;NUMALT=1;ODDS=18.3349;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42876;QR=65152;RO=1823;RPL=0;RPP=2632.66;RPPR=3961.6;RPR=1211;RUN=1;SAF=1211;SAP=2632.66;SAR=0;SRF=1823;SRP=3961.6;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:132:64,68:64:2279:68:2393:-175.891,0,-165.533 0/1:161:81,80:81:2908:80:2821:-205.665,0,-213.419 0/1:182:82,100:82:2940:100:3550:-264.922,0,-210.044 0/1:189:103,85:103:3684:85:2999:-213.297,0,-274.9 0/1:356:182,174:182:6508:174:6199:-450.844,0,-478.511 0/1:104:61,43:61:2176:43:1534:-107.045,0,-164.73 0/1:259:131,128:131:4703:128:4514:-328.464,0,-345.412 0/1:121:59,62:59:2088:62:2203:-162.11,0,-151.762 0/0:383:380,2:380:13519:2:72:0,-108.47,-1209.66 0/0:14:14,0:14:504:0:0:0,-4.21442,-45.6935 0/1:10:3,7:3:108:7:252:-20.0187,0,-7.06487 0/1:53:28,25:28:1000:25:891:-64.5542,0,-74.3608 0/1:168:85,83:85:3048:83:2947:-214.892,0,-223.441 0/1:149:71,78:71:2532:78:2767:-204.419,0,-183.276 0/1:216:118,98:118:4232:98:3471:-247.581,0,-316.021 0/1:134:66,67:66:2364:67:2384:-174.48,0,-172.677 0/1:113:53,60:53:1900:60:2072:-152.73,0,-137.243 0/1:46:20,26:20:716:26:928:-69.9909,0,-50.8754 0/1:60:35,25:35:1256:25:879:-61.365,0,-95.2835 0/0:130:130,0:130:4643:0:0:0,-39.1339,-417.235 0/0:57:57,0:57:2044:0:0:0,-17.1587,-184.21 chr12 20321475 . 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C G 6430.3 PASS AB=0.527624;ABP=7.80913;AC=18;AF=0.428571;AN=42;AO=382;CIGAR=1X;DP=856;DPB=856;DPRA=0.914141;EPP=832.513;EPPR=1032.29;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=2.50373;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13631;QR=16924;RO=474;RPL=0;RPP=832.513;RPPR=1032.29;RPR=382;RUN=1;SAF=382;SAP=832.513;SAR=0;SRF=474;SRP=1032.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:33:25,8:25:896:8:273:-14.9662,0,-71.0264 0/1:31:13,18:13:468:18:648:-49.32,0,-33.1277 0/1:31:15,16:15:532:16:568:-42.1199,0,-38.8812 0/1:35:12,23:12:424:23:824:-63.9473,0,-27.9604 0/1:91:30,61:30:1068:61:2176:-168.713,0,-69.0383 0/1:54:14,40:14:504:40:1430:-112.742,0,-29.4425 0/1:60:34,26:34:1204:26:924:-65.4159,0,-90.604 0/1:27:18,9:18:640:9:324:-21.378,0,-49.8015 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/1:45:22,23:22:792:23:820:-60.5762,0,-58.0593 0/1:27:14,13:14:500:13:464:-33.9697,0,-37.2084 0/1:38:17,21:17:608:21:752:-56.5671,0,-43.6129 0/1:22:10,12:10:356:12:424:-31.8738,0,-25.7586 0/1:29:13,16:13:464:16:568:-42.722,0,-33.3676 0/1:116:53,63:53:1888:63:2260:-168.743,0,-135.279 0/1:63:40,23:40:1428:23:816:-54.7968,0,-109.853 0/0:36:36,0:36:1280:0:0:0,-10.8371,-115.503 0/0:49:49,0:49:1760:0:0:0,-14.7505,-158.684 chr12 20463299 . 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C T 14681.1 PASS AB=0.553515;ABP=42.288;AC=17;AF=0.404762;AN=42;AO=876;CIGAR=1X;DP=1839;DPB=1839;DPRA=1.29984;EPP=1905.22;EPPR=2091.97;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.7397;MQMR=59.9553;NS=21;NUMALT=1;ODDS=0.437367;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30755;QR=33129;RO=962;RPL=876;RPP=1905.22;RPPR=2091.97;RPR=0;RUN=1;SAF=876;SAP=1905.22;SAR=0;SRF=962;SRP=2091.97;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:146:62,84:62:2092:84:2963:-222.954,0,-144.592 0/1:48:32,16:32:1097:16:559:-36.1882,0,-84.5842 0/1:89:46,43:46:1608:43:1525:-110.705,0,-118.215 0/1:131:62,69:62:2124:69:2429:-179.401,0,-151.952 0/1:164:60,104:60:2086:104:3667:-280.658,0,-138.641 0/1:52:19,33:19:663:33:1155:-88.5762,0,-44.3399 0/1:127:54,73:54:1905:73:2566:-192.927,0,-133.495 0/1:99:40,59:40:1372:59:2042:-154.23,0,-93.9717 0/0:150:150,0:150:5150:0:0:0,-45.1545,-463.653 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:8:4,4:4:136:4:144:-10.9054,0,-10.1673 0/1:23:7,16:7:244:16:550:-42.8282,0,-15.3757 0/1:72:34,37:34:1153:37:1287:-94.5013,0,-82.4426 0/1:114:58,56:58:1996:56:1970:-143.243,0,-145.592 0/1:192:67,125:67:2304:125:4405:-338.83,0,-149.814 0/1:76:35,41:35:1223:41:1443:-107.285,0,-87.4946 0/1:102:59,43:59:2077:43:1522:-106.567,0,-156.494 0/1:94:36,58:36:1236:58:2022:-153.953,0,-83.2369 0/1:42:29,13:29:972:13:434:-26.7367,0,-75.1406 0/0:51:49,2:49:1677:2:72:0,-8.51581,-144.375 0/0:49:49,0:49:1658:0:0:0,-14.7505,-149.43 chr12 20475248 . T C 54827.2 PASS AB=0.648476;ABP=750.358;AC=17;AF=0.404762;AN=42;AO=2532;CIGAR=1X;DP=4326;DPB=4326;DPRA=2.10778;EPP=5501.18;EPPR=3887.77;GTI=2;LEN=1;MEANALT=1.05556;MQM=47.4957;MQMR=59.8558;NS=21;NUMALT=1;ODDS=18.5406;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89826;QR=63914;RO=1789;RPL=1395;RPP=60.0964;RPPR=22.5875;RPR=1137;RUN=1;SAF=1395;SAP=60.0964;SAR=1137;SRF=958;SRP=22.5875;SRR=831;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:251:87,164:87:3119:164:5832:-396.627,0,-205.376 0/1:225:68,157:68:2444:157:5601:-409.586,0,-152.317 0/1:244:69,175:69:2467:175:6197:-441.649,0,-148.776 0/1:229:78,151:78:2799:151:5376:-382.083,0,-182.895 0/1:445:157,288:157:5628:288:10237:-686.704,0,-372.624 0/1:345:156,189:156:5571:189:6748:-471.723,0,-397.659 0/1:352:115,237:115:4111:237:8388:-601.936,0,-264.141 0/1:226:83,143:83:2967:143:5018:-370.713,0,-199.23 0/0:212:212,0:212:7553:0:0:0,-63.8184,-679.659 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:16:4,12:4:129:12:424:-31.7255,0,-7.11118 0/1:74:21,53:21:743:53:1875:-139.051,0,-44.28 0/1:281:78,203:78:2776:203:7213:-527.408,0,-165.49 0/1:271:66,200:66:2342:200:7095:-519.249,0,-130.634 0/1:236:78,158:78:2796:158:5616:-381.24,0,-180.835 0/1:169:45,124:45:1605:124:4367:-333.123,0,-93.8641 0/1:179:59,120:59:2112:120:4257:-320.553,0,-136.465 0/1:202:94,108:94:3369:108:3806:-261.52,0,-242.615 0/1:158:109,49:109:3866:49:1740:-94.5211,0,-300.569 0/0:106:105,1:105:3768:1:36:0,-28.663,-336.072 0/0:92:92,0:92:3281:0:0:0,-27.6948,-295.509 chr12 20475269 . CATAG TATAG,TATAA 35171.2 PASS AB=0.345152,0.652078;ABP=378.935,365.605;AC=25,17;AF=0.595238,0.404762;AN=42;AO=808,1179;CIGAR=1X4M,1X3M1X;DP=1992;DPB=1992;DPRA=0,2.22182;EPP=1555.29,2342.32;EPPR=0;GTI=3;LEN=1,5;MEANALT=2.04762,2.22222;MQM=59.7512,32.1705;MQMR=0;NS=21;NUMALT=2;ODDS=2.76836;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=28421,40752;QR=0;RO=0;RPL=784,1153;RPP=1555.29,2342.32;RPPR=0;RPR=24,26;RUN=1,1;SAF=0,0;SAP=1757.56,2563.18;SAR=808,1179;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:131:0,29,102:0:0:29,102:1032,3531:-320.859,-236.737,-228.008,-84.4628,0,-53.7577 1/2:96:0,32,64:0:0:32,64:1133,2228:-249.096,-156.796,-147.163,-92.6379,0,-73.372 1/2:119:0,39,78:0:0:39,78:1376,2683:-293.026,-180.96,-169.22,-112.139,0,-88.659 1/2:104:0,43,61:0:0:43,61:1492,2104:-262.526,-141.549,-128.605,-121.3,0,-102.937 1/2:246:0,63,182:0:0:63,182:2213,6286:-598.354,-418.277,-399.312,-180.111,0,-125.324 1/2:135:0,58,77:0:0:58,77:2060,2643:-354.08,-186.201,-168.741,-168.212,0,-145.032 1/2:159:0,47,111:0:0:47,111:1652,3801:-397.933,-263.52,-249.372,-134.417,0,-101.003 1/2:62:0,22,40:0:0:22,40:776,1394:-164.748,-101.547,-94.9246,-63.5395,0,-51.4983 1/1:90:0,90,0:0:0:90,0:3134,0:-282.278,-27.0927,0,-282.278,-27.0927,-282.278 1/1:4:0,4,0:0:0:4,0:140,0:-12.9446,-1.20412,0,-12.9446,-1.20412,-12.9446 1/2:8:0,2,6:0:0:2,6:72,209:-21.0105,-15.1227,-14.5206,-6.23466,0,-4.42848 1/2:34:0,10,24:0:0:10,24:354,826:-88.4278,-60.1202,-57.1099,-28.6443,0,-21.4196 1/2:104:0,35,69:0:0:35,69:1208,2434:-260.47,-162.311,-151.775,-98.4868,0,-77.7157 1/2:104:0,30,74:0:0:30,74:1068,2545:-258.634,-171.571,-162.54,-87.4,0,-65.1237 1/2:138:0,39,99:0:0:39,99:1380,3433:-342.354,-229.933,-218.193,-112.757,0,-82.9553 1/2:65:0,15,50:0:0:15,50:528,1743:-176.677,-133.688,-129.172,-43.3359,0,-28.2844 1/2:88:0,35,52:0:0:35,52:1217,1769:-234.869,-135.912,-125.376,-98.9904,0,-83.3368 1/2:127:0,64,63:0:0:64,63:2260,2190:-343.666,-159.602,-140.336,-184.398,0,-165.433 1/2:85:0,60,25:0:0:60,25:2136,876:-231.66,-57.5247,-39.4629,-174.443,0,-166.917 1/1:48:0,46,2:0:0:46,2:1589,57:-143.014,-13.8474,0,-138.654,-9.20829,-138.052 1/1:45:0,45,0:0:0:45,0:1601,0:-144.378,-13.5464,0,-144.378,-13.5464,-144.378 chr12 20478113 . C T 25803.5 PASS AB=0.377845;ABP=430.072;AC=17;AF=0.404762;AN=42;AO=1245;CIGAR=1X;DP=4111;DPB=4111;DPRA=0.950115;EPP=2706.49;EPPR=6198.25;GTI=1;LEN=1;MEANALT=1;MQM=59.8506;MQMR=59.9644;NS=21;NUMALT=1;ODDS=14.6286;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44519;QR=102171;RO=2865;RPL=588;RPP=11.3142;RPPR=147.752;RPR=657;RUN=1;SAF=588;SAP=11.3142;SAR=657;SRF=1211;SRP=151.754;SRR=1654;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:197:135,62:135:4804:62:2220:-140.757,0,-373.214 0/1:218:141,77:141:5037:77:2745:-181.643,0,-386.832 0/1:127:82,45:82:2932:45:1599:-105.964,0,-225.88 0/1:243:144,99:144:5153:99:3552:-246.728,0,-390.753 0/1:399:252,147:252:8965:147:5252:-352.699,0,-686.721 0/1:201:122,79:122:4350:79:2838:-195.148,0,-331.168 0/1:297:179,118:179:6381:118:4215:-290.103,0,-484.975 0/1:183:98,85:98:3463:85:3052:-219.807,0,-256.794 0/0:322:321,0:321:11479:0:0:0,-96.6306,-1032.54 0/0:55:55,0:55:1955:0:0:0,-16.5566,-176.225 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:78:52,26:52:1835:26:936:-61.0791,0,-141.95 0/1:188:112,76:112:4007:76:2706:-187.184,0,-304.225 0/1:214:136,78:136:4850:78:2795:-187.36,0,-372.232 0/1:276:173,103:173:6171:103:3687:-248.943,0,-472.403 0/1:145:90,55:90:3227:55:1956:-132.664,0,-247.002 0/1:171:115,56:115:4108:56:2007:-129.411,0,-318.427 0/1:168:84,84:84:2967:84:3007:-220.278,0,-216.687 0/1:183:132,51:132:4677:51:1808:-107.911,0,-366.006 0/0:318:318,0:318:11390:0:0:0,-95.7275,-1024.98 0/0:121:121,0:121:4312:0:0:0,-36.4246,-388.215 chr12 20572041 . T C 11582.8 PASS AB=0.482735;ABP=6.75939;AC=17;AF=0.404762;AN=42;AO=702;CIGAR=1X;DP=1776;DPB=1776;DPRA=0.868421;EPP=1527.38;EPPR=2335.17;GTI=0;LEN=1;MEANALT=1;MQM=59.9972;MQMR=59.9944;NS=21;NUMALT=1;ODDS=13.074;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25061;QR=38465;RO=1074;RPL=0;RPP=1527.38;RPPR=2335.17;RPR=702;RUN=1;SAF=702;SAP=1527.38;SAR=0;SRF=1074;SRP=2335.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:14,13:14:504:13:468:-34.3318,0,-37.5703 0/1:84:46,38:46:1631:38:1368:-98.1343,0,-121.792 0/1:84:50,34:50:1796:34:1216:-84.46,0,-136.636 0/1:128:65,63:65:2332:63:2232:-162.613,0,-171.603 0/1:213:95,118:95:3408:118:4224:-316.221,0,-242.814 0/1:121:78,43:78:2796:43:1518:-100.488,0,-215.455 0/1:111:65,46:65:2328:46:1635:-114.024,0,-176.366 0/1:57:32,25:32:1148:25:900:-64.1623,0,-86.4711 0/0:173:173,0:173:6193:0:0:0,-52.0782,-557.465 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:40:18,22:18:644:22:788:-59.2036,0,-46.2494 0/1:115:53,62:53:1900:62:2220:-165.446,0,-136.659 0/1:46:22,24:22:792:24:858:-63.6939,0,-57.7583 0/1:116:55,61:55:1976:61:2188:-162.266,0,-143.195 0/1:70:39,31:39:1392:31:1116:-79.6796,0,-104.507 0/1:79:40,39:40:1440:39:1396:-102.157,0,-106.116 0/1:98:41,57:41:1468:57:2015:-152.122,0,-102.915 0/1:55:35,20:35:1260:20:703:-47.0369,0,-97.1488 0/0:78:76,2:76:2701:2:72:0,-16.6436,-236.497 0/0:58:57,1:57:2036:1:36:0,-13.8615,-179.914 chr12 20572059 . T C 11395.8 PASS AB=0.482205;ABP=6.95168;AC=17;AF=0.404762;AN=42;AO=694;CIGAR=1X;DP=1760;DPB=1760;DPRA=0.869806;EPP=1475.47;EPPR=2187.18;GTI=0;LEN=1;MEANALT=1.05263;MQM=59.9971;MQMR=59.9944;NS=21;NUMALT=1;ODDS=12.9825;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24502;QR=38155;RO=1065;RPL=4;RPP=1475.47;RPPR=2187.18;RPR=690;RUN=1;SAF=694;SAP=1510.01;SAR=0;SRF=1065;SRP=2315.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:27:14,13:14:495:13:451:-32.792,0,-36.7552 0/1:82:47,35:47:1684:35:1252:-88.3006,0,-127.163 0/1:82:50,32:50:1796:32:1128:-77.1438,0,-137.238 0/1:124:63,61:63:2255:61:2151:-156.53,0,-165.88 0/1:205:94,111:94:3375:111:3910:-290.387,0,-242.253 0/1:121:78,43:78:2804:43:1523:-100.938,0,-216.175 0/1:112:64,48:64:2292:48:1684:-118.129,0,-172.826 0/1:56:31,25:31:1112:25:887:-63.2904,0,-83.5337 0/0:171:171,0:171:6110:0:0:0,-51.4761,-550.001 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:40:18,22:18:648:22:788:-59.2036,0,-46.6107 0/1:115:51,64:51:1836:64:2256:-168.683,0,-130.902 0/1:45:21,24:21:728:24:835:-61.9202,0,-52.2914 0/1:118:55,62:55:1980:62:2164:-159.445,0,-142.894 0/1:69:38,31:38:1360:31:1104:-78.8996,0,-101.93 0/1:81:39,42:39:1388:42:1491:-110.099,0,-100.835 0/1:97:41,56:41:1472:56:1982:-149.453,0,-103.576 0/1:55:36,19:36:1296:19:680:-44.9725,0,-100.387 0/0:78:76,2:76:2732:2:72:0,-16.6436,-239.286 0/0:59:58,1:58:2072:1:36:0,-14.1625,-183.152 chr12 20592740 . T C 57183 PASS AB=0.542133;ABP=49.8535;AC=25;AF=0.595238;AN=42;AO=2336;CIGAR=1X;DP=3727;DPB=3727;DPRA=0;EPP=5075.57;EPPR=3019.19;GTI=0;LEN=1;MEANALT=1.09524;MQM=54.89;MQMR=59.9006;NS=21;NUMALT=1;ODDS=32.3492;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82787;QR=49460;RO=1389;RPL=1428;RPP=254.366;RPPR=204.494;RPR=908;RUN=1;SAF=1428;SAP=254.366;SAR=908;SRF=874;SRP=204.494;SRR=515;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:227:96,131:96:3375:131:4599:-344.153,0,-235.626 0/1:80:38,42:38:1345:42:1466:-107.553,0,-97.252 0/1:197:77,120:77:2732:120:4275:-323.435,0,-186.814 0/1:256:114,142:114:4052:142:5030:-374.197,0,-287.791 0/1:328:180,148:180:6415:148:5261:-373.163,0,-478.698 0/1:174:65,109:65:2315:109:3882:-296.194,0,-156.228 0/1:273:132,140:132:4722:140:4948:-362.19,0,-342.861 0/1:104:40,64:40:1420:64:2283:-173.108,0,-96.7884 1/1:305:0,305:0:0:305:10833:-968.431,-91.8142,0 1/1:20:0,20:0:0:20:697:-62.6836,-6.0206,0 0/1:12:7,5:7:252:5:176:-12.5727,0,-19.4166 0/1:58:22,36:22:788:36:1273:-96.5095,0,-53.7851 0/1:273:119,154:119:4226:154:5491:-409.953,0,-298.33 0/1:217:110,107:110:3925:107:3774:-273.076,0,-288.116 0/1:261:135,126:135:4839:126:4481:-321.44,0,-357.087 0/1:152:66,85:66:2350:85:3027:-226.008,0,-166.061 0/1:107:53,54:53:1896:54:1904:-138.891,0,-138.707 0/1:161:74,87:74:2648:87:3100:-228.51,0,-190.096 0/1:158:61,97:61:2160:97:3409:-258.569,0,-147.102 1/1:282:0,282:0:0:282:9984:-893.618,-84.8905,0 1/1:82:0,82:0:0:82:2894:-260.28,-24.6845,0 chr12 20592747 . TAGGT CAGAC,CAGAT 27981.9 PASS AB=0.540404,0.455387;ABP=19.8557,23.5479;AC=24,18;AF=0.571429,0.428571;AN=42;AO=942,545;CIGAR=1X2M2X,1X2M1X1M;DP=1493;DPB=1897.4;DPRA=18.6125,0.931796;EPP=2048.54,1186.46;EPPR=0;GTI=1;LEN=5,5;MEANALT=2.1,2.23529;MQM=46.7909,59.7431;MQMR=0;NS=21;NUMALT=2;ODDS=13.8278;PAIRED=0,0;PAIREDR=0;PAO=1012,1012;PQA=35868.5,35868.5;PQR=0;PRO=0;QA=32911,19010;QR=0;RO=0;RPL=0,0;RPP=2048.54,1186.46;RPPR=0;RPR=942,545;RUN=1,1;SAF=0,0;SAP=2048.54,1186.46;SAR=942,545;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:89:0,47,42:0:0:47,42:1630,1468:-242.293,-111.54,-97.3916,-122.959,0,-110.316 1/2:33:0,19,14:0:0:19,14:666,473:-89.5926,-36.0495,-30.33,-51.3245,0,-47.1101 1/2:88:0,53,34:0:0:53,34:1882,1204:-242.647,-91.6451,-75.6905,-144.621,0,-134.386 1/2:74:0,40,33:0:0:40,33:1395,1142:-193.956,-82.1542,-70.113,-101.276,0,-91.3416 1/2:128:0,66,62:0:0:66,62:2303,2144:-348.081,-162.481,-142.613,-173.957,0,-155.293 1/2:78:0,42,36:0:0:42,36:1489,1272:-218.27,-98.0286,-85.3853,-114.752,0,-103.915 1/2:99:0,49,50:0:0:49,50:1696,1745:-267.981,-131.547,-116.796,-126.168,0,-111.116 1/2:59:0,33,26:0:0:33,26:1172,862:-161.583,-67.2063,-57.2723,-91.9219,0,-84.0951 1/1:132:0,132,0:0:0:132,0:4661,0:-412.676,-39.736,0,-412.676,-39.736,-412.676 1/1:13:0,13,0:0:0:13,0:443,0:-39.0843,-3.91339,0,-39.0843,-3.91339,-39.0843 2/2:4:0,0,4:0:0:0,4:0,144:-12.9981,-12.9981,-12.9981,-1.20412,-1.20412,0 1/2:20:0,8,12:0:0:8,12:274,427:-54.3658,-33.0037,-30.5954,-19.7279,0,-16.1156 1/2:83:0,41,42:0:0:41,42:1429,1493:-224.551,-110.501,-98.1586,-103.031,0,-90.3873 1/2:78:0,48,30:0:0:48,30:1651,1032:-208.64,-75.8319,-61.3825,-124.901,0,-115.87 1/2:150:0,83,65:0:0:83,65:2912,2273:-415.238,-181.659,-156.674,-230.361,0,-210.794 1/2:44:0,21,23:0:0:21,23:739,815:-123.426,-64.2146,-57.893,-57.0947,0,-50.171 1/2:45:0,21,23:0:0:21,23:721,801:-121.251,-63.2197,-56.8981,-56.1606,0,-49.2369 1/2:59:0,36,23:0:0:36,23:1232,813:-158.422,-60.5199,-49.6828,-92.2727,0,-85.349 1/2:61:0,35,26:0:0:35,26:1216,902:-165.928,-68.0525,-57.5164,-92.6797,0,-84.8529 1/1:129:0,128,0:0:0:128,0:4445,0:-385.902,-38.5318,0,-385.902,-38.5318,-385.902 1/1:27:0,27,0:0:0:27,0:955,0:-82.5347,-8.12781,0,-82.5347,-8.12781,-82.5347 chr12 20617230 . 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T C 28297.4 PASS AB=0.515945;ABP=7.64987;AC=25;AF=0.595238;AN=42;AO=1511;CIGAR=1X;DP=2532;DPB=2532;DPRA=0;EPP=3232.2;EPPR=2142.6;GTI=0;LEN=1;MEANALT=1;MQM=59.9722;MQMR=60;NS=21;NUMALT=1;ODDS=12.3659;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53610;QR=36609;RO=1021;RPL=6;RPP=3232.2;RPPR=2142.6;RPR=1505;RUN=1;SAF=1511;SAP=3284.11;SAR=0;SRF=1021;SRP=2220.08;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:67,89:67:2408:89:3175:-239.014,0,-170.015 0/1:139:70,69:70:2512:69:2431:-177.201,0,-184.489 0/1:134:71,63:71:2556:63:2215:-159.277,0,-189.952 0/1:240:119,121:119:4260:121:4292:-314.211,0,-311.331 0/1:158:71,87:71:2544:87:3073:-229.237,0,-181.648 0/1:168:81,87:81:2912:87:3077:-226.586,0,-211.741 0/1:105:56,49:56:2003:49:1704:-122.034,0,-148.935 0/1:153:70,83:70:2487:83:2939:-218.685,0,-178.026 1/1:213:2,211:2:72:211:7546:-672.343,-57.2827,0 1/1:17:1,16:1:36:16:564:-47.4348,-1.51924,0 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/1:43:20,23:20:707:23:815:-60.7265,0,-51.0103 0/1:110:48,62:48:1724:62:2212:-166.232,0,-122.332 0/1:183:97,86:97:3484:86:3076:-221.98,0,-258.682 0/1:142:70,72:70:2516:72:2522:-184.484,0,-183.945 0/1:103:51,52:51:1832:52:1854:-136.134,0,-134.155 0/1:128:68,60:68:2444:60:2131:-153.516,0,-181.683 0/1:80:39,41:39:1396:41:1463:-107.883,0,-101.857 0/1:54:16,38:16:576:38:1352:-105.725,0,-35.9194 1/1:140:1,139:1:36:139:4937:-440.884,-38.5459,0 1/1:61:0,61:0:0:61:2160:-194.665,-18.3628,0 chr12 20703969 . 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CGA TGG,CGG 28959.2 PASS AB=0.612874,0.384406;ABP=125.071,131.025;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1004,424;CIGAR=1X1M1X,2M1X;DP=1431;DPB=1431;DPRA=0,0.791248;EPP=2174.49,906.425;EPPR=0;GTI=1;LEN=3,1;MEANALT=1.95238,2.17647;MQM=59.9363,59.1863;MQMR=0;NS=21;NUMALT=2;ODDS=0.297211;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35290,15074;QR=0;RO=0;RPL=1003,424;RPP=2174.49,923.715;RPPR=0;RPR=1,0;RUN=1,1;SAF=1004,422;SAP=2183.17,906.425;SAR=0,2;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:77:0,46,31:0:0:46,31:1578,1104:-218.324,-90.2213,-76.3739,-128.453,0,-119.121 1/2:62:0,36,26:0:0:36,26:1270,936:-180.133,-76.7245,-65.8874,-103.765,0,-95.9382 1/2:40:0,23,16:0:0:23,16:818,556:-111.851,-45.1839,-38.2602,-66.6583,0,-61.8418 1/2:89:0,48,41:0:0:48,41:1708,1461:-258.554,-119.382,-104.933,-139.528,0,-127.186 1/2:117:0,77,40:0:0:77,40:2725,1423:-338.257,-116.301,-93.1219,-222.311,0,-210.27 1/2:37:0,22,15:0:0:22,15:780,536:-107.599,-44.0547,-37.4321,-63.9,0,-59.3846 1/2:152:0,90,61:0:0:90,61:3159,2170:-433.961,-176.875,-149.782,-257.207,0,-238.844 1/2:73:0,40,33:0:0:40,33:1389,1161:-207.705,-94.7927,-82.7515,-113.262,0,-103.328 1/1:209:0,209,0:0:0:209,0:7365,0:-662.909,-62.9153,0,-662.909,-62.9153,-662.909 1/1:17:0,17,0:0:0:17,0:607,0:-54.962,-5.11751,0,-54.962,-5.11751,-54.962 1/2:4:0,3,1:0:0:3,1:93,36:-10.7235,-3.29724,-2.39415,-7.77364,0,-7.47261 1/2:16:0,7,9:0:0:7,9:239,320:-45.8216,-26.4331,-24.3259,-19.736,0,-17.0267 1/2:87:0,61,26:0:0:61,26:2154,936:-252.124,-76.7189,-58.3561,-175.763,0,-167.936 1/2:70:0,32,38:0:0:32,38:1131,1351:-202.493,-110.384,-100.751,-92.4639,0,-81.0247 1/2:47:0,31,16:0:0:31,16:1081,576:-135.263,-47.3585,-38.0266,-88.2608,0,-83.4444 1/2:51:0,37,14:0:0:37,14:1305,491:-146.568,-40.3067,-29.1686,-106.613,0,-102.398 1/2:31:0,18,12:0:0:18,12:634,428:-86.4782,-34.8647,-29.4462,-51.6104,0,-47.9981 1/2:72:0,39,33:0:0:39,33:1355,1157:-204.327,-94.1716,-82.4314,-110.504,0,-100.57 1/2:78:0,66,12:0:0:66,12:2342,432:-226.422,-35.6088,-15.7409,-191.172,0,-187.559 1/1:42:0,42,0:0:0:42,0:1449,0:-130.698,-12.6433,0,-130.698,-12.6433,-130.698 1/1:60:0,60,0:0:0:60,0:2108,0:-189.989,-18.0618,0,-189.989,-18.0618,-189.989 chr12 20818826 . CG TC 5807.45 PASS AB=0.382569;ABP=133.57;AC=17;AF=0.404762;AN=42;AO=417;CIGAR=2X;DP=1416;DPB=1417;DPRA=0.78672;EPP=899.849;EPPR=2161.45;GTI=2;LEN=2;MEANALT=1.23529;MQM=59.2134;MQMR=59.9014;NS=21;NUMALT=1;ODDS=0.609271;PAIRED=0;PAIREDR=0;PAO=2;PQA=72;PQR=0;PRO=0;QA=14567;QR=34688;RO=994;RPL=417;RPP=908.514;RPPR=2161.45;RPR=0;RUN=1;SAF=416;SAP=899.849;SAR=1;SRF=994;SRP=2161.45;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/1:72:45,25:45:1554:25:884:-58.4094,0,-118.747 0/1:60:35,25:35:1251:25:874:-60.5466,0,-94.4736 0/1:38:24,14:24:827:14:498:-33.7164,0,-63.3043 0/1:89:45,42:45:1545:42:1457:-104.759,0,-112.84 0/1:116:78,38:78:2749:38:1346:-86.4734,0,-212.502 0/1:37:22,15:22:775:15:508:-34.8965,0,-58.9325 0/1:151:90,61:90:3130:61:2162:-149.293,0,-236.425 0/1:74:40,34:40:1389:34:1157:-82.0529,0,-103.028 0/0:207:206,0:206:7198:0:0:0,-62.0122,-647.526 0/0:17:17,0:17:597:0:0:0,-5.11751,-54.0571 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.4989 0/1:16:7,9:7:237:9:322:-24.5077,0,-16.8435 0/1:87:59,28:59:2046:28:967:-61.1354,0,-158.216 0/1:69:32,37:32:1112:37:1268:-93.637,0,-79.6125 0/1:46:30,16:30:1068:16:551:-36.0655,0,-82.582 0/1:50:36,14:36:1252:14:493:-29.6502,0,-97.9294 0/1:31:18,13:18:635:13:459:-32.2778,0,-48.1447 0/1:72:39,33:39:1353:33:1157:-82.4279,0,-100.391 0/1:78:66,12:66:2332:12:428:-15.3787,0,-186.66 0/0:42:42,0:42:1464:0:0:0,-12.6433,-132.015 0/0:60:60,0:60:2070:0:0:0,-18.0618,-186.568 chr12 20818871 . G A 17638.3 PASS AB=0.551753;ABP=30.8806;AC=26;AF=0.619048;AN=42;AO=929;CIGAR=1X;DP=1466;DPB=1466;DPRA=0;EPP=2020.31;EPPR=1169.09;GTI=0;LEN=1;MEANALT=1;MQM=59.986;MQMR=60;NS=21;NUMALT=1;ODDS=7.92052;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33136;QR=18968;RO=537;RPL=0;RPP=2020.31;RPPR=1169.09;RPR=929;RUN=1;SAF=0;SAP=2020.31;SAR=929;SRF=0;SRP=1169.09;SRR=537;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:54:32,22:32:1132:22:792:-55.3501,0,-85.933 0/1:45:15,30:15:540:30:1061:-82.253,0,-35.3902 0/1:99:50,49:50:1784:49:1760:-128.882,0,-131.041 0/1:45:13,32:13:451:32:1152:-90.4438,0,-27.3735 0/1:160:70,90:70:2462:90:3201:-240.148,0,-173.67 0/1:59:24,35:24:843:35:1260:-95.9447,0,-58.4272 0/1:103:48,55:48:1716:55:1953:-145.039,0,-123.72 0/1:58:25,33:25:875:33:1165:-87.6953,0,-61.6064 1/1:144:0,144:0:0:144:5119:-460.823,-43.3483,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:17:9,8:9:320:8:288:-21.1499,0,-24.0248 0/1:86:27,59:27:960:59:2120:-165.18,0,-60.8277 0/1:108:56,52:56:1966:52:1853:-134.537,0,-144.7 0/1:84:41,43:41:1460:43:1548:-114.327,0,-106.409 0/1:31:9,22:9:311:22:784:-61.552,0,-18.9918 0/1:38:12,26:12:413:26:936:-73.1203,0,-26.0587 0/1:116:71,45:71:2483:45:1603:-109.64,0,-188.806 0/1:95:35,60:35:1252:60:2148:-164.99,0,-84.3872 1/1:52:0,52:0:0:52:1856:-167.32,-15.6536,0 1/1:58:0,58:0:0:58:2037:-183.601,-17.4597,0 chr12 20818877 . C T 7816.18 PASS AB=0.433132;ABP=48.0229;AC=16;AF=0.380952;AN=42;AO=502;CIGAR=1X;DP=1425;DPB=1425;DPRA=1.36161;EPP=1093.09;EPPR=1996.43;GTI=0;LEN=1;MEANALT=1.0625;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.76784;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17829;QR=32897;RO=922;RPL=0;RPP=1093.09;RPPR=1996.43;RPR=502;RUN=1;SAF=0;SAP=1093.09;SAR=502;SRF=0;SRP=2005.11;SRR=922;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:22,30:22:792:30:1063:-80.3273,0,-55.9521 0/1:42:30,12:30:1067:12:424:-25.8532,0,-83.698 0/1:97:49,48:49:1764:48:1704:-124.446,0,-129.844 0/1:44:32,12:32:1135:12:428:-25.6135,0,-89.2127 0/1:157:89,67:89:3175:67:2374:-166.597,0,-238.654 0/1:56:35,21:35:1260:21:748:-50.7876,0,-96.8478 0/1:98:56,42:56:2008:42:1500:-105.794,0,-151.492 0/1:53:30,23:30:1067:23:828:-58.8895,0,-80.3866 0/0:143:143,0:143:5115:0:0:0,-43.0473,-460.492 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:16:8,8:8:288:8:284:-21.0869,0,-21.4509 0/1:86:60,26:60:2143:26:928:-57.9497,0,-167.248 0/1:106:54,52:54:1923:52:1845:-134.419,0,-141.437 0/1:81:42,39:42:1495:39:1368:-99.035,0,-110.46 0/1:32:23,9:23:824:9:324:-19.8729,0,-64.8504 0/1:36:24,12:24:847:12:432:-28.3841,0,-65.7116 0/1:110:42,68:42:1461:68:2407:-183.774,0,-98.6664 0/1:93:60,33:60:2144:33:1172:-77.7917,0,-165.232 0/0:53:53,0:53:1900:0:0:0,-15.9546,-171.278 0/0:57:57,0:57:2025:0:0:0,-17.1587,-182.521 chr12 20824503 . T A 23968.7 PASS AB=0.5;ABP=3.0103;AC=24;AF=0.571429;AN=42;AO=1283;CIGAR=1X;DP=2184;DPB=2184;DPRA=27.25;EPP=2789.01;EPPR=1959.51;GTI=1;LEN=1;MEANALT=1;MQM=54.0655;MQMR=59.9445;NS=21;NUMALT=1;ODDS=9.19235;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45889;QR=32236;RO=901;RPL=0;RPP=2789.01;RPPR=1959.51;RPR=1283;RUN=1;SAF=1283;SAP=2789.01;SAR=0;SRF=901;SRP=1959.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:73:39,34:39:1374:34:1224:-88.2762,0,-101.982 0/1:39:23,16:23:828:16:576:-40.3481,0,-63.1039 0/1:116:66,50:66:2351:50:1796:-126.839,0,-176.924 0/1:87:42,45:42:1500:45:1608:-118.529,0,-109.105 0/1:282:160,122:160:5726:122:4368:-306.856,0,-430.565 0/1:109:49,60:49:1751:60:2141:-158.167,0,-125.061 0/1:64:31,33:31:1112:33:1188:-87.8035,0,-79.76 0/1:85:43,42:43:1544:42:1482:-107.989,0,-113.666 1/1:207:0,207:0:0:207:7404:-664.532,-62.3132,0 1/1:28:0,28:0:0:28:1008:-90.6637,-8.42884,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:47:15,32:15:540:32:1151:-89.5192,0,-34.7881 0/1:140:71,69:71:2544:69:2442:-177.442,0,-187.067 0/1:149:83,66:83:2971:66:2342:-165.506,0,-222.769 0/1:256:134,122:134:4804:122:4358:-314.093,0,-355.451 0/1:81:37,44:37:1328:44:1580:-117.71,0,-95.4388 0/1:61:28,33:28:1008:33:1171:-87.1939,0,-72.6735 0/1:110:43,67:43:1540:67:2408:-183.409,0,-105.78 0/1:95:33,62:33:1171:62:2218:-169.981,0,-77.0988 1/1:99:0,99:0:0:99:3560:-319.676,-29.802,0 1/1:52:0,52:0:0:52:1864:-167.559,-15.6536,0 chr12 20824512 . 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T C 13616.6 PASS AB=0.587404;ABP=54.6344;AC=25;AF=0.595238;AN=42;AO=701;CIGAR=1X;DP=1022;DPB=1022;DPRA=0;EPP=1525.21;EPPR=697.881;GTI=1;LEN=1;MEANALT=1.04762;MQM=60;MQMR=59.9813;NS=21;NUMALT=1;ODDS=5.73271;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25033;QR=11484;RO=320;RPL=701;RPP=1525.21;RPPR=697.881;RPR=0;RUN=1;SAF=0;SAP=1525.21;SAR=701;SRF=0;SRP=697.881;SRR=320;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:21,23:21:752:23:820:-60.8772,0,-54.7609 0/1:41:9,32:9:324:32:1148:-91.2876,0,-17.1636 0/1:49:27,22:27:968:22:788:-56.4943,0,-72.6869 0/1:31:15,16:15:540:16:576:-42.8431,0,-39.6046 0/1:69:37,31:37:1332:31:1099:-78.4284,0,-99.3914 0/1:18:11,7:11:392:7:252:-17.6104,0,-30.2015 0/1:35:15,20:15:540:20:716:-54.2317,0,-38.4005 0/1:51:24,27:24:860:27:948:-70.2816,0,-62.3647 1/1:91:0,91:0:0:91:3268:-294.34,-27.3937,0 1/1:11:0,11:0:0:11:392:-35.6201,-3.31133,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:34:8,26:8:284:26:913:-72.249,0,-15.6683 0/1:82:20,62:20:712:62:2217:-175.11,0,-39.7222 0/1:34:19,15:19:684:15:540:-38.7015,0,-51.6553 0/1:39:20,19:20:720:19:671:-48.9756,0,-53.3886 0/1:42:13,29:13:468:29:1036:-80.9107,0,-29.8164 0/1:38:9,29:9:324:29:1040:-82.4752,0,-18.0667 0/1:93:52,41:52:1868:41:1472:-104.78,0,-140.403 0/1:74:19,55:19:680:55:1964:-154.759,0,-39.2529 1/1:92:0,92:0:0:92:3282:-295.601,-27.6948,0 1/1:50:0,50:0:0:50:1783:-160.752,-15.0515,0 chr12 20830602 . 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A G 15846.8 PASS AB=0.464354;ABP=26.2318;AC=17;AF=0.404762;AN=42;AO=981;CIGAR=1X;DP=2502;DPB=2502;DPRA=3.7678;EPP=2072.86;EPPR=3140.68;GTI=0;LEN=1;MEANALT=1.05263;MQM=59.9062;MQMR=59.9053;NS=21;NUMALT=1;ODDS=33.0895;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34446;QR=54172;RO=1520;RPL=7;RPP=2072.86;RPPR=3140.68;RPR=974;RUN=1;SAF=981;SAP=2133.22;SAR=0;SRF=1520;SRP=3303.65;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:64,25:64:2288:25:877:-52.4398,0,-179.39 0/1:34:9,25:9:324:25:862:-67.6557,0,-19.2708 0/1:69:38,31:38:1352:31:1105:-78.9893,0,-101.209 0/1:43:20,23:20:697:23:820:-61.1782,0,-50.1064 0/1:133:81,52:81:2873:52:1864:-128.002,0,-218.77 0/1:20:10,10:10:360:10:352:-25.9976,0,-26.7237 0/1:61:37,24:37:1324:24:819:-55.6005,0,-101.099 0/1:32:19,13:19:680:13:454:-31.5583,0,-51.8962 0/0:34:34,0:34:1208:0:0:0,-10.235,-109.026 0/0:277:274,3:274:9773:3:108:0,-73.3101,-869.346 0/1:262:124,138:124:4409:138:4846:-357.43,0,-317.669 0/1:467:248,218:248:8799:218:7682:-550.784,0,-650.323 0/1:40:18,22:18:644:22:776:-58.121,0,-46.2494 0/1:54:34,20:34:1197:20:701:-47.1561,0,-91.7778 0/1:92:51,41:51:1828:41:1427:-101.028,0,-137.106 0/1:43:17,26:17:608:26:882:-66.743,0,-42.1077 0/1:41:18,23:18:644:23:816:-61.4195,0,-45.9484 0/1:579:313,266:313:11220:266:9311:-663.633,0,-835.387 0/1:45:25,20:25:896:20:708:-50.4992,0,-67.414 0/0:53:52,1:52:1840:1:36:0,-12.3563,-162.282 0/0:34:34,0:34:1208:0:0:0,-10.235,-109.026 chr12 20850183 . 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T A 16604.6 PASS AB=0.476805;ABP=12.7814;AC=17;AF=0.404762;AN=42;AO=999;CIGAR=1X;DP=2585;DPB=2585;DPRA=0.714331;EPP=2172.31;EPPR=3440.45;GTI=0;LEN=1;MEANALT=1.05263;MQM=59.994;MQMR=60;NS=21;NUMALT=1;ODDS=12.9601;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35759;QR=56727;RO=1583;RPL=0;RPP=2172.31;RPPR=3440.45;RPR=999;RUN=1;SAF=999;SAP=2172.31;SAR=0;SRF=1583;SRP=3440.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:49,68:49:1756:68:2433:-184.004,0,-123.103 0/1:85:49,35:49:1748:35:1256:-87.699,0,-131.958 0/1:106:58,48:58:2088:48:1709:-122.185,0,-156.281 0/1:234:116,118:116:4163:118:4229:-310.346,0,-304.41 0/1:226:137,89:137:4901:89:3192:-219.47,0,-373.207 0/1:96:40,56:40:1440:56:2008:-152.094,0,-100.999 0/1:252:134,118:134:4808:118:4220:-304.121,0,-357.015 0/1:83:42,41:42:1508:41:1456:-106.349,0,-111.029 0/0:267:265,0:265:9474:0:0:0,-79.7729,-852.258 0/0:12:11,1:11:396:1:36:0,-0.0140849,-32.3845 0/1:24:11,13:11:396:13:468:-35.2349,0,-28.758 0/1:29:8,21:8:288:21:756:-59.6374,0,-17.5375 0/1:156:59,97:59:2111:97:3461:-264.741,0,-143.298 0/1:133:86,47:86:3087:47:1688:-112.17,0,-238.02 0/1:208:123,85:123:4416:85:3056:-212.654,0,-334.996 0/1:78:39,39:39:1396:39:1396:-102.459,0,-102.459 0/1:89:42,47:42:1508:47:1669:-123.704,0,-109.223 0/1:74:32,42:32:1144:42:1508:-113.738,0,-80.9933 0/1:101:68,33:68:2428:33:1182:-76.2843,0,-188.372 0/0:150:149,1:149:5343:1:36:0,-41.5562,-477.403 0/0:65:65,0:65:2328:0:0:0,-19.5669,-209.78 chr12 20860179 . T C 18976.5 PASS AB=0.472779;ABP=16.4871;AC=17;AF=0.404762;AN=42;AO=992;CIGAR=1X;DP=2590;DPB=2590;DPRA=0.71345;EPP=1425.05;EPPR=1213.95;GTI=0;LEN=1;MEANALT=1;MQM=59.9657;MQMR=60;NS=21;NUMALT=1;ODDS=13.7653;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35392;QR=57260;RO=1598;RPL=899;RPP=1425.05;RPPR=1213.95;RPR=93;RUN=1;SAF=992;SAP=2157.11;SAR=0;SRF=1598;SRP=3473.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:49,68:49:1752:68:2419:-182.746,0,-122.744 0/1:85:49,36:49:1725:36:1292:-90.9962,0,-129.943 0/1:105:58,47:58:2088:47:1692:-120.959,0,-156.582 0/1:232:116,116:116:4153:116:4147:-303.572,0,-304.112 0/1:226:137,89:137:4924:89:3147:-215.421,0,-375.276 0/1:95:41,54:41:1472:54:1911:-143.667,0,-104.178 0/1:254:137,117:137:4890:117:4175:-299.471,0,-363.788 0/1:83:42,41:42:1508:41:1468:-107.431,0,-111.029 0/0:268:268,0:268:9611:0:0:0,-80.676,-864.94 0/0:12:11,1:11:392:1:36:0,-0.0140849,-32.0218 0/1:24:11,13:11:396:13:468:-35.2349,0,-28.758 0/1:30:8,22:8:288:22:770:-60.5884,0,-17.2365 0/1:154:59,95:59:2120:95:3401:-259.944,0,-144.71 0/1:136:90,46:90:3228:46:1652:-108.028,0,-249.801 0/1:208:124,84:124:4436:84:3004:-207.977,0,-336.797 0/1:81:40,41:40:1436:41:1457:-106.97,0,-105.154 0/1:88:41,47:41:1468:47:1675:-124.546,0,-105.925 0/1:75:33,42:33:1180:42:1490:-111.816,0,-83.9308 0/1:101:69,32:69:2484:32:1152:-73.5861,0,-193.409 0/0:151:150,1:150:5373:1:36:0,-41.8573,-480.101 0/0:65:65,0:65:2336:0:0:0,-19.5669,-210.499 chr12 20870331 . C T 1514.74 PASS AB=0.3257;ABP=106.716;AC=15;AF=0.357143;AN=42;AO=128;CIGAR=1X;DP=603;DPB=603;DPRA=0.748571;EPP=280.959;EPPR=1034.46;GTI=2;LEN=1;MEANALT=1;MQM=52;MQMR=59.9853;NS=21;NUMALT=1;ODDS=0.579691;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4600;QR=17039;RO=475;RPL=0;RPP=280.959;RPPR=1034.46;RPR=128;RUN=1;SAF=128;SAP=280.959;SAR=0;SRF=475;SRP=1034.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:15:9,6:9:324:6:216:-14.593,0,-24.9904 0/1:4:2,2:2:72:2:72:-5.61541,0,-5.6326 0/1:29:14,15:14:504:15:540:-40.1135,0,-36.9682 0/1:29:21,8:21:752:8:288:-17.4875,0,-59.2764 0/1:45:34,11:34:1224:11:396:-22.3695,0,-96.9207 0/1:9:7,2:7:248:2:72:-4.11026,0,-19.9549 0/1:17:12,5:12:432:5:180:-11.3873,0,-34.1037 0/1:49:27,22:27:968:22:788:-56.1607,0,-72.6869 0/0:77:77,0:77:2760:0:0:0,-23.1793,-248.642 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6642 0/1:19:16,3:16:572:3:108:-4.33641,0,-46.0939 0/1:47:30,17:30:1080:17:612:-41.0062,0,-83.3587 0/1:28:22,6:22:784:6:216:-11.324,0,-62.4551 0/1:30:21,9:21:756:9:324:-20.2284,0,-59.3363 0/1:6:2,4:2:72:4:144:-11.3268,0,-5.03054 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:28:18,10:18:648:10:356:-23.7692,0,-50.223 0/1:38:30,8:30:1080:8:288:-14.7782,0,-86.0741 0/0:74:74,0:74:2656:0:0:0,-22.2762,-239.286 0/0:36:36,0:36:1283:0:0:0,-10.8371,-115.773 chr12 20870340 . T C 1453.81 PASS AB=0.32398;ABP=108.504;AC=15;AF=0.357143;AN=42;AO=127;CIGAR=1X;DP=604;DPB=604;DPRA=0.739623;EPP=278.787;EPPR=1038.8;GTI=2;LEN=1;MEANALT=1;MQM=51.9449;MQMR=59.9581;NS=21;NUMALT=1;ODDS=0.451583;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4520;QR=17107;RO=477;RPL=0;RPP=278.787;RPPR=1038.8;RPR=127;RUN=1;SAF=127;SAP=278.787;SAR=0;SRF=477;SRP=1038.8;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:15:9,6:9:324:6:216:-14.593,0,-24.9904 0/1:4:2,2:2:72:2:72:-5.61541,0,-5.6326 0/1:29:14,15:14:504:15:536:-39.7555,0,-36.9682 0/1:29:21,8:21:752:8:288:-17.4875,0,-59.2764 0/1:45:34,11:34:1224:11:396:-22.3695,0,-96.9207 0/1:9:7,2:7:252:2:72:-4.11026,0,-20.3197 0/1:16:11,5:11:396:5:180:-11.6883,0,-31.1663 0/1:50:28,22:28:1004:22:767:-53.9799,0,-75.6244 0/0:78:78,0:78:2780:0:0:0,-23.4803,-250.442 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:19:16,3:16:572:3:108:-4.33641,0,-46.0939 0/1:48:30,18:30:1076:18:644:-43.5115,0,-82.6972 0/1:28:22,6:22:792:6:216:-11.324,0,-63.1768 0/1:29:21,8:21:756:8:288:-17.336,0,-59.6374 0/1:6:2,4:2:72:4:133:-10.4569,0,-5.03054 0/0:10:10,0:10:356:0:0:0,-3.0103,-32.3812 0/1:28:18,10:18:648:10:352:-23.4795,0,-50.223 0/1:37:30,7:30:1067:7:252:-11.847,0,-85.2031 0/0:72:72,0:72:2588:0:0:0,-21.6742,-233.168 0/0:37:37,0:37:1332:0:0:0,-11.1381,-120.154 chr12 20881875 . T C 9757.48 PASS AB=0.471014;ABP=11.0668;AC=17;AF=0.404762;AN=42;AO=521;CIGAR=1X;DP=1290;DPB=1290;DPRA=1.32639;EPP=770.074;EPPR=763.621;GTI=0;LEN=1;MEANALT=1;MQM=59.7812;MQMR=59.9272;NS=21;NUMALT=1;ODDS=2.27173;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18537;QR=27467;RO=769;RPL=475;RPP=770.074;RPPR=763.621;RPR=46;RUN=1;SAF=521;SAP=1134.35;SAR=0;SRF=769;SRP=1672.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:43,44:43:1544:44:1584:-116.649,0,-113.053 0/1:39:29,10:29:1027:10:351:-20.1504,0,-81.002 0/1:57:28,29:28:999:29:1036:-76.3952,0,-73.0658 0/1:40:20,20:20:720:20:716:-52.7265,0,-53.0876 0/1:112:50,62:50:1792:62:2211:-165.52,0,-127.847 0/1:44:13,31:13:468:31:1104:-86.4253,0,-29.2139 0/1:79:41,38:41:1449:38:1356:-98.5558,0,-106.918 0/1:69:40,29:40:1432:29:1036:-72.7828,0,-108.407 0/0:98:98,0:98:3498:0:0:0,-29.5009,-315.03 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:6:5,1:5:180:1:36:-1.79209,0,-14.7459 0/1:12:5,7:5:176:7:248:-19.0518,0,-12.5727 0/1:49:30,19:30:1080:19:656:-44.5627,0,-82.7628 0/1:48:27,21:27:964:21:744:-52.7641,0,-72.6274 0/1:91:42,49:42:1500:49:1743:-129.746,0,-107.53 0/1:51:24,27:24:856:27:959:-71.2729,0,-62.0086 0/1:48:27,21:27:944:21:747:-53.1049,0,-70.8219 0/1:208:109,99:109:3890:99:3510:-253.495,0,-287.68 0/1:64:51,13:51:1828:13:464:-22.8316,0,-145.535 0/0:33:33,0:33:1184:0:0:0,-9.93399,-106.868 0/0:42:41,1:41:1468:1:36:0,-9.04498,-128.818 chr12 20891921 . T C 10975.6 PASS AB=0.479821;ABP=6.16526;AC=25;AF=0.595238;AN=42;AO=617;CIGAR=1X;DP=1083;DPB=1083;DPRA=0;EPP=1342.81;EPPR=1012.74;GTI=0;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.60189;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21642;QR=16524;RO=465;RPL=0;RPP=1342.81;RPPR=1012.74;RPR=617;RUN=1;SAF=0;SAP=1342.81;SAR=617;SRF=0;SRP=1012.74;SRR=465;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:42,22:42:1496:22:764:-49.4524,0,-115.309 0/1:35:26,9:26:915:9:324:-18.9698,0,-72.1295 0/1:60:19,41:19:680:41:1454:-113.093,0,-43.4674 0/1:57:27,30:27:952:30:1060:-78.5526,0,-68.8365 0/1:92:48,44:48:1709:44:1549:-112.005,0,-126.399 0/1:65:41,24:41:1451:24:846:-56.8906,0,-111.318 0/1:56:29,27:29:1031:27:964:-70.2191,0,-76.2449 0/1:82:41,41:41:1451:41:1409:-102.417,0,-106.201 1/1:107:0,107:0:0:107:3772:-339.682,-32.2102,0 1/1:9:0,9:0:0:9:315:-28.6872,-2.70927,0 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:9:3,6:3:104:6:208:-16.3498,0,-6.99354 0/1:43:26,17:26:920:17:604:-41.7463,0,-70.1728 0/1:40:18,22:18:631:22:764:-57.0356,0,-45.0745 0/1:98:54,44:54:1928:44:1543:-109.66,0,-144.296 0/1:46:25,21:25:896:21:748:-53.7979,0,-67.113 0/1:41:22,19:22:784:19:648:-46.2948,0,-58.5417 0/1:63:34,29:34:1216:29:1014:-72.6051,0,-90.7817 0/1:33:4,29:4:144:29:1010:-81.2756,0,-3.37963 1/1:43:1,42:1:36:42:1478:-129.715,-9.34602,0 1/1:32:1,31:1:36:31:1060:-92.103,-6.03469,0 chr12 20892994 . CAGAGTGGAGATGGAGATGGAGAA CACAGTGGAGATGGAGAA,CACTGTGGAGATGGAGAA 47242.9 PASS AB=0.515414,0.465318;ABP=7.29467,24.6999;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1490,971;CIGAR=2M1X2M6D13M,2M2X1M6D13M;DP=2518;DPB=1888.62;DPRA=0,0;EPP=3135.11,2068.3;EPPR=0;GTI=0;LEN=18,18;MEANALT=4.47619,4.47619;MQM=50.3517,37.5221;MQMR=0;NS=21;NUMALT=2;ODDS=10.6293;PAIRED=0,0;PAIREDR=0;PAO=0.666667,0.666667;PQA=24,24;PQR=24;PRO=0.666667;QA=51765,33889;QR=0;RO=0;RPL=1478,966;RPP=3135.11,2068.3;RPPR=0;RPR=12,5;RUN=1,1;SAF=0,0;SAP=3238.5,2111.51;SAR=1490,971;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:92:0,40,51:0:0:40,51:1372,1794:-247.259,-136.464,-124.423,-110.888,0,-95.5358 1/2:114:0,62,51:0:0:62,51:2149,1799:-310.685,-136.998,-118.335,-173.679,0,-158.326 1/2:160:0,72,84:0:0:72,84:2558,2946:-432.632,-225.334,-203.66,-207.359,0,-182.073 1/2:167:0,98,63:0:0:98,63:3360,2164:-435.826,-164.62,-135.119,-271.214,0,-252.249 1/2:237:0,127,107:0:0:127,107:4381,3711:-636.662,-282.407,-244.176,-354.291,0,-322.081 1/2:106:0,51,53:0:0:51,53:1750,1868:-283.778,-142.471,-127.119,-141.327,0,-125.372 1/2:163:0,88,71:0:0:88,71:3015,2475:-432.124,-188.78,-162.29,-243.429,0,-222.056 1/2:71:0,32,39:0:0:32,39:1115,1381:-196.062,-106.028,-96.3953,-90.375,0,-78.6348 1/1:238:0,227,1:0:0:227,1:7915,21:-708.885,-68.3338,0,-707.427,-66.8864,-707.125 1/1:20:0,19,1:0:0:19,1:672,36:-60.1995,-5.71957,0,-57.4524,-2.633,-57.1513 1/2:10:0,4,5:0:0:4,5:144,178:-25.458,-13.7327,-12.5286,-11.8341,0,-10.329 1/2:39:0,29,8:0:0:29,8:1013,275:-102.905,-21.1416,-12.4117,-81.7977,0,-79.3895 1/2:104:0,48,56:0:0:48,56:1677,1987:-287.904,-151.939,-137.49,-136.307,0,-119.449 1/2:137:0,68,63:0:0:68,63:2296,2158:-349.879,-165.022,-144.551,-184.911,0,-165.946 1/2:248:0,119,127:0:0:119,127:4166,4455:-677.107,-339.909,-304.087,-337.206,0,-298.975 1/2:152:0,88,64:0:0:88,64:3120,2235:-423.786,-170.645,-144.154,-253.481,0,-234.215 1/2:63:0,36,27:0:0:36,27:1279,927:-174.583,-71.0079,-60.1709,-103.912,0,-95.7837 1/2:133:0,63,66:0:0:63,66:2181,2276:-349.561,-172.946,-153.981,-176.659,0,-156.791 1/2:80:0,45,31:0:0:45,31:1566,1109:-211.479,-84.7729,-71.2265,-126.748,0,-117.416 1/1:109:0,101,2:0:0:101,2:3505,67:-314.195,-30.404,0,-309.169,-25.381,-308.567 1/1:75:0,73,1:0:0:73,1:2531,27:-226.987,-21.9752,0,-224.889,-19.8806,-224.588 chr12 20900552 . C T 52798.5 PASS AB=0.499351;ABP=3.02722;AC=17;AF=0.404762;AN=42;AO=2310;CIGAR=1X;DP=5491;DPB=5491;DPRA=24.9091;EPP=5019.11;EPPR=6908.29;GTI=0;LEN=1;MEANALT=1.05;MQM=59.9887;MQMR=59.9805;NS=21;NUMALT=1;ODDS=8.89096;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=82422;QR=111772;RO=3180;RPL=1013;RPP=78.8295;RPPR=173.724;RPR=1297;RUN=1;SAF=1013;SAP=78.8295;SAR=1297;SRF=1340;SRP=173.724;SRR=1840;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:419:190,229:190:6668:229:8170:-609.184,0,-474.074 0/1:293:164,129:164:5737:129:4602:-326.124,0,-428.249 0/1:198:95,103:95:3347:103:3688:-272.517,0,-241.842 0/1:292:128,164:128:4503:164:5806:-434.754,0,-317.54 0/1:544:281,263:281:9879:263:9415:-683.55,0,-725.308 0/1:280:112,168:112:3956:168:5999:-455.728,0,-271.946 0/1:496:210,286:210:7398:286:10181:-766.91,0,-516.563 0/1:185:140,45:140:4884:45:1604:-88.959,0,-384.026 0/0:506:504,1:504:17765:1:36:0,-148.762,-1594.83 0/0:11:11,0:11:369:0:0:0,-3.31133,-33.5323 0/1:33:17,16:17:593:16:553:-40.1595,0,-43.7607 0/1:47:25,22:25:871:22:788:-57.0964,0,-64.5571 0/1:336:158,178:158:5538:178:6383:-473.411,0,-397.403 0/1:262:149,113:149:5282:113:4047:-285.547,0,-396.648 0/1:438:202,236:202:7139:236:8413:-625.312,0,-510.721 0/1:274:120,154:120:4230:154:5482:-411.027,0,-298.398 0/1:181:94,87:94:3294:87:3109:-225.55,0,-242.195 0/1:146:93,53:93:3187:53:1895:-126.877,0,-243.104 0/1:196:135,61:135:4731:61:2179:-137.374,0,-366.95 0/0:223:222,1:222:7825:1:36:0,-63.5314,-700.691 0/0:131:130,1:130:4576:1:36:0,-35.8367,-408.41 chr12 20920125 . TG CT,CG 25905.2 PASS AB=0.610294,0.386555;ABP=103.601,109.431;AC=25,17;AF=0.595238,0.404762;AN=42;AO=924,368;CIGAR=2X,1X1M;DP=1296;DPB=1296;DPRA=0,0.651163;EPP=2009.45,802.112;EPPR=7.35324;GTI=1;LEN=2,1;MEANALT=1.90476,2.05882;MQM=59.9946,60;MQMR=60;NS=21;NUMALT=2;ODDS=10.6612;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=32264,13063;QR=72;RO=2;RPL=0,0;RPP=2009.45,802.112;RPPR=7.35324;RPR=924,368;RUN=1,1;SAF=924,368;SAP=2009.45,802.112;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:57:0,34,23:0:0:34,23:1160,816:-160.952,-66.838,-56.603,-94.4635,0,-87.5398 1/2:34:0,23,11:0:0:23,11:771,396:-95.0933,-32.6714,-25.7477,-62.7737,0,-59.4624 1/2:72:0,44,28:0:0:44,28:1537,1000:-206.906,-81.8865,-68.6412,-125.374,0,-116.945 1/2:60:0,38,22:0:0:38,22:1351,784:-174.355,-64.2607,-52.8215,-110.45,0,-103.828 1/2:110:0,71,39:0:0:71,39:2485,1387:-315.562,-113.388,-92.0149,-202.527,0,-190.787 1/2:21:0,14,7:0:0:14,7:493,248:-60.6908,-20.557,-16.3426,-40.4873,0,-38.38 1/2:92:2,60,30:2:72:60,30:2118,1067:-252.945,-81.0757,-68.889,-166.591,0,-163.435 1/2:76:0,36,40:0:0:36,40:1272,1428:-220.366,-116.776,-105.939,-103.945,0,-91.9038 1/1:171:0,171,0:0:0:171,0:5902,0:-531.299,-51.4761,0,-531.299,-51.4761,-531.299 1/1:20:0,20,0:0:0:20,0:696,0:-62.9602,-6.0206,0,-62.9602,-6.0206,-62.9602 1/2:8:0,7,1:0:0:7,1:241,36:-22.8574,-3.29724,-1.19003,-19.918,0,-19.617 1/2:15:0,7,8:0:0:7,8:241,275:-42.2488,-22.6752,-20.568,-19.9175,0,-17.5092 1/2:58:0,25,33:0:0:25,33:874,1164:-166.231,-95.133,-87.6072,-71.4489,0,-61.5149 1/2:72:0,40,31:0:0:40,31:1407,1108:-204.997,-90.4651,-78.4239,-114.651,0,-105.32 1/2:83:0,64,19:0:0:64,19:2210,668:-234.268,-54.7261,-35.4602,-179.892,0,-174.173 1/2:29:0,16,13:0:0:16,13:559,468:-84.012,-38.5463,-33.7298,-45.8208,0,-41.9074 1/2:25:0,14,11:0:0:14,11:489,396:-72.4418,-32.6714,-28.457,-40.1256,0,-36.8142 1/2:82:0,44,38:0:0:44,38:1536,1339:-234.302,-109.37,-96.1248,-125.283,0,-113.844 1/2:58:0,44,14:0:0:44,14:1528,483:-163.802,-39.5829,-26.3375,-124.564,0,-120.35 1/1:91:0,91,0:0:0:91,0:3215,0:-289.574,-27.3937,0,-289.574,-27.3937,-289.574 1/1:62:0,61,0:0:0:61,0:2179,0:-196.032,-18.3628,0,-196.032,-18.3628,-196.032 chr12 20920160 . C T 5757.15 PASS AB=0.384216;ABP=115.144;AC=17;AF=0.404762;AN=42;AO=370;CIGAR=1X;DP=1310;DPB=1310;DPRA=0.652992;EPP=806.455;EPPR=2042.02;GTI=1;LEN=1;MEANALT=1.05882;MQM=60;MQMR=59.9947;NS=21;NUMALT=1;ODDS=15.5412;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13095;QR=33318;RO=939;RPL=355;RPP=681.449;RPPR=1830.66;RPR=15;RUN=1;SAF=355;SAP=681.449;SAR=15;SRF=914;SRP=1830.66;SRR=25;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:36,28:36:1277:28:997:-70.7779,0,-95.9652 0/1:42:27,14:27:953:14:489:-31.6375,0,-73.3815 0/1:70:44,26:44:1562:26:932:-63.1268,0,-119.798 0/1:61:38,23:38:1351:23:816:-55.3989,0,-103.527 0/1:116:73,43:73:2571:43:1524:-102.534,0,-196.719 0/1:25:16,9:16:576:9:315:-21.1615,0,-44.6492 0/1:89:61,28:61:2171:28:1000:-63.5237,0,-168.864 0/1:72:36,36:36:1269:36:1275:-93.3781,0,-92.8366 0/0:175:175,0:175:6217:0:0:0,-52.6802,-559.628 0/0:20:20,0:20:697:0:0:0,-6.0206,-63.0507 0/1:8:7,1:7:252:1:32:-0.791073,0,-20.6207 0/1:15:7,8:7:252:8:288:-21.752,0,-18.5135 0/1:55:25,30:25:900:30:1063:-79.4242,0,-64.7644 0/1:72:42,30:42:1457:30:1071:-75.0275,0,-109.745 0/1:84:63,21:63:2243:21:739:-41.5459,0,-176.847 0/1:29:17,12:17:608:12:420:-29.4042,0,-46.3222 0/1:26:15,11:15:528:11:358:-24.7063,0,-40.0246 0/1:78:42,36:42:1486:36:1280:-92.0229,0,-110.553 0/1:57:43,14:43:1536:14:496:-27.8156,0,-121.374 0/0:90:90,0:90:3215:0:0:0,-27.0927,-289.572 0/0:62:62,0:62:2197:0:0:0,-18.6639,-197.991 chr12 21003158 . T C 33541 PASS AB=0.431044;ABP=148.553;AC=22;AF=0.52381;AN=42;AO=1532;CIGAR=1X;DP=3538;DPB=3538;DPRA=0;EPP=4.28597;EPPR=1225.11;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.7572;MQMR=45.6637;NS=21;NUMALT=1;ODDS=31.2317;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54500;QR=71660;RO=2004;RPL=1528;RPP=3295.05;RPPR=4302.68;RPR=4;RUN=1;SAF=777;SAP=3.69633;SAR=755;SRF=465;SRP=1252.88;SRR=1539;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:177:129,48:129:4620:48:1716:-101.408,0,-290.649 0/1:127:94,33:94:3376:33:1188:-67.8903,0,-232.674 0/1:127:79,48:79:2836:48:1715:-116.404,0,-179.982 0/1:187:131,56:131:4648:56:2008:-124.383,0,-314.892 0/1:262:181,81:181:6488:81:2884:-180.918,0,-442.32 0/1:212:134,78:134:4804:78:2780:-186.619,0,-333.788 0/1:216:135,81:135:4836:81:2876:-194.011,0,-339.548 0/1:225:125,100:125:4450:100:3545:-251.471,0,-307.522 0/1:236:41,194:41:1472:194:6868:-546.405,0,-44.7429 1/1:14:1,13:1:36:13:468:-39.1135,-0.868274,0 0/1:9:4,5:4:144:5:180:-13.8428,0,-10.6043 0/1:62:31,31:31:1104:31:1099:-80.5532,0,-71.6996 0/1:215:129,85:129:4636:85:3044:-209.557,0,-311.855 0/1:216:121,95:121:4292:95:3376:-239.018,0,-282.591 0/1:231:157,74:157:5628:74:2630:-167.135,0,-391.526 0/1:91:58,33:58:2072:33:1188:-79.8349,0,-129.075 0/1:125:92,33:92:3281:33:1152:-66.3546,0,-208.225 0/1:203:133,70:133:4747:70:2496:-163.776,0,-317.854 0/1:209:91,118:91:3238:118:4206:-315.782,0,-199.534 0/1:246:105,141:105:3768:141:4977:-374.014,0,-222.407 0/1:148:33,115:33:1184:115:4104:-324.849,0,-48.5423 chr12 21003161 . T C 4299.26 PASS AB=0.295044;ABP=1114.76;AC=20;AF=0.47619;AN=42;AO=899;CIGAR=1X;DP=3052;DPB=3052;DPRA=30.47;EPP=1937.83;EPPR=420.007;GTI=7;LEN=1;MEANALT=1;MQM=28.832;MQMR=59.6577;NS=21;NUMALT=1;ODDS=3.74207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32092;QR=77127;RO=2153;RPL=897;RPP=1937.83;RPPR=4626.22;RPR=2;RUN=1;SAF=0;SAP=1955.16;SAR=899;SRF=749;SRP=435.716;SRR=1404;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:180:109,71:109:3920:71:2523:-103.201,0,-298.748 0/1:99:58,41:58:2072:41:1468:-70.1724,0,-155.595 0/1:126:82,44:82:2944:44:1580:-67.1038,0,-227.177 0/1:189:131,58:131:4704:58:2076:-80.1874,0,-366.306 0/1:266:200,66:200:7168:66:2355:-71.9736,0,-564.641 0/1:130:83,47:83:2980:47:1688:-79.6344,0,-228.209 0/1:147:104,43:104:3728:43:1522:-63.7591,0,-291.38 0/1:112:76,36:76:2716:36:1296:-57.414,0,-210.909 0/1:232:193,39:193:6869:39:1396:-40.2201,0,-547.914 0/1:4:3,1:3:108:1:36:-2.14203,0,-8.87105 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:33:25,8:25:892:8:288:-8.04827,0,-69.5576 0/1:215:169,46:169:6017:46:1648:-43.5334,0,-476.897 0/1:214:171,43:171:6123:43:1526:-36.9099,0,-486.727 0/1:233:177,56:177:6360:56:1997:-66.3853,0,-501.843 0/1:93:66,27:66:2376:27:964:-27.7401,0,-186.088 0/1:123:80,43:80:2868:43:1521:-51.2055,0,-221.33 0/1:152:101,51:101:3624:51:1820:-74.3951,0,-280.545 0/1:203:163,40:163:5839:40:1432:-40.0206,0,-464.487 0/1:184:79,105:79:2831:105:3748:-239.201,0,-197.461 0/1:112:78,34:78:2808:34:1208:-61.3202,0,-219.05 chr12 21036719 . A C 77794.3 PASS AB=0.4812;ABP=17.5437;AC=25;AF=0.595238;AN=42;AO=3204;CIGAR=1X;DP=5665;DPB=5665;DPRA=0;EPP=6951.72;EPPR=5314.45;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9513;MQMR=59.9389;NS=21;NUMALT=1;ODDS=0.946726;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=113408;QR=87892;RO=2454;RPL=1637;RPP=6.33122;RPPR=34.2852;RPR=1567;RUN=1;SAF=1638;SAP=6.52369;SAR=1566;SRF=1135;SRP=32.9685;SRR=1319;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:403:228,175:228:8180:175:6200:-436.785,0,-614.895 0/1:245:114,131:114:4084:131:4689:-347.64,0,-293.993 0/1:211:113,96:113:4060:96:3412:-244.019,0,-302.308 0/1:305:158,145:158:5657:145:5095:-367.123,0,-417.676 0/1:524:250,274:250:8949:274:9652:-710.833,0,-647.647 0/1:202:115,87:115:4124:87:3077:-216.348,0,-310.536 0/1:397:191,206:191:6853:206:7290:-536.647,0,-497.319 0/1:427:233,194:233:8338:194:6821:-485.423,0,-621.882 1/1:507:2,505:2:72:505:17947:-1608,-145.785,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:6:4,2:4:144:2:68:-4.65153,0,-11.5074 0/1:54:30,24:30:1080:24:845:-60.1115,0,-81.2576 0/1:346:182,164:182:6495:164:5831:-420.748,0,-480.479 0/1:319:176,143:176:6308:143:5041:-357.811,0,-471.067 0/1:561:271,289:271:9693:289:10263:-754.666,0,-703.383 0/1:214:120,94:120:4300:94:3350:-237.296,0,-322.756 0/1:170:103,67:103:3684:67:2361:-161.342,0,-280.094 0/1:180:101,79:101:3620:79:2765:-194.887,0,-271.043 0/1:170:62,108:62:2215:108:3822:-293.002,0,-148.439 1/1:268:1,265:1:36:265:9363:-839.046,-76.8355,0 1/1:146:0,146:0:0:146:5156:-464.187,-43.9504,0 chr12 21036726 . T C 55068 PASS AB=0.509083;ABP=6.40282;AC=17;AF=0.404762;AN=42;AO=2412;CIGAR=1X;DP=5677;DPB=5677;DPRA=3.62961;EPP=5231.92;EPPR=7086.35;GTI=0;LEN=1;MEANALT=1.15789;MQM=59.9461;MQMR=59.9552;NS=21;NUMALT=1;ODDS=6.35104;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85483;QR=116551;RO=3262;RPL=1124;RPP=27.2242;RPPR=3.07687;RPR=1288;RUN=1;SAF=1125;SAP=26.6372;SAR=1287;SRF=1636;SRP=3.07687;SRR=1626;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:405:178,227:178:6375:227:8038:-601.511,0,-451.919 0/1:251:134,117:134:4812:117:4121:-295.504,0,-356.899 0/1:206:98,108:98:3516:108:3872:-286.662,0,-254.637 0/1:305:150,155:150:5379:155:5502:-403.492,0,-392.339 0/1:523:280,243:280:10002:243:8636:-619.797,0,-742.606 0/1:202:88,114:88:3142:114:4062:-304.96,0,-222.197 0/1:402:213,189:213:7588:189:6711:-483.037,0,-561.945 0/1:426:196,230:196:6969:230:8185:-608.427,0,-498.904 0/0:511:509,1:509:18194:1:36:0,-150.288,-1633.39 0/0:11:11,0:11:392:0:0:0,-3.31133,-35.6201 0/1:6:2,4:2:72:4:140:-11.1384,0,-5.03054 0/1:54:24,30:24:864:30:1055:-79.0031,0,-61.8269 0/1:344:165,179:165:5909:179:6330:-466.237,0,-428.363 0/1:318:146,172:146:5215:172:5998:-444.163,0,-373.762 0/1:556:293,262:293:10482:262:9306:-670.077,0,-775.865 0/1:214:93,120:93:3328:120:4268:-319.968,0,-235.404 0/1:170:69,101:69:2464:101:3607:-273.661,0,-170.839 0/1:176:77,99:77:2752:99:3460:-258.574,0,-194.934 0/1:176:116,60:116:4114:60:2124:-138.445,0,-317.463 0/0:272:271,1:271:9659:1:32:0,-78.6808,-866.065 0/0:149:149,0:149:5323:0:0:0,-44.8535,-479.196 chr12 21058881 . 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T C 8451.22 PASS AB=0.427075;ABP=60.3347;AC=18;AF=0.428571;AN=42;AO=536;CIGAR=1X;DP=1531;DPB=1531;DPRA=1.03314;EPP=1166.92;EPPR=2103.25;GTI=2;LEN=1;MEANALT=1;MQM=59.9328;MQMR=59.9698;NS=21;NUMALT=1;ODDS=2.00644;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19172;QR=35569;RO=995;RPL=0;RPP=1166.92;RPPR=2103.25;RPR=536;RUN=1;SAF=536;SAP=1166.92;SAR=0;SRF=995;SRP=2163.63;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:111:80,31:80:2819:31:1116:-67.3374,0,-220.532 0/1:24:21,3:21:756:3:108:-2.85045,0,-61.1425 0/1:52:35,17:35:1260:17:612:-39.7599,0,-98.0519 0/1:47:26,21:26:936:21:743:-53.0449,0,-70.4111 0/1:94:53,41:53:1900:41:1463:-103.651,0,-142.967 0/1:72:45,27:45:1616:27:957:-64.7657,0,-124.056 0/1:90:31,59:31:1116:59:2111:-163.166,0,-73.659 0/1:114:63,51:63:2260:51:1832:-130.843,0,-169.345 0/0:157:157,0:157:5606:0:0:0,-47.2617,-504.66 0/0:15:15,0:15:532:0:0:0,-4.51545,-48.2131 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:38:13,25:13:464:25:877:-67.8061,0,-30.6584 0/1:154:74,80:74:2611:80:2872:-212.35,0,-188.876 0/1:65:31,34:31:1112:34:1211:-89.7286,0,-80.8244 0/1:104:66,38:66:2360:38:1364:-91.7536,0,-181.352 0/1:29:21,8:21:756:8:288:-17.5375,0,-59.6374 0/1:13:10,3:10:356:3:108:-6.16178,0,-28.4679 0/1:131:67,64:67:2412:64:2286:-166.558,0,-177.771 0/1:103:75,28:75:2688:28:1008:-60.0303,0,-211.159 0/0:59:59,0:59:2120:0:0:0,-17.7608,-191.068 0/0:53:53,0:53:1889:0:0:0,-15.9546,-170.286 chr12 21172504 . 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G A 17790.5 PASS AB=0.562086;ABP=43.4558;AC=24;AF=0.571429;AN=42;AO=948;CIGAR=1X;DP=1484;DPB=1484;DPRA=14.79;EPP=2061.57;EPPR=1166.92;GTI=2;LEN=1;MEANALT=1;MQM=59.9684;MQMR=59.9646;NS=21;NUMALT=1;ODDS=3.56462;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33599;QR=19133;RO=536;RPL=948;RPP=2061.57;RPPR=1166.92;RPR=0;RUN=1;SAF=948;SAP=2061.57;SAR=0;SRF=536;SRP=1166.92;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:33,76:33:1188:76:2667:-207.462,0,-74.4163 0/1:24:3,21:3:108:21:748:-60.4206,0,-2.85045 0/1:51:17,34:17:608:34:1216:-94.394,0,-39.6995 0/1:46:22,24:22:788:24:864:-64.2352,0,-57.3974 0/1:95:41,54:41:1476:54:1928:-145.185,0,-104.521 0/1:71:26,45:26:936:45:1612:-123.997,0,-63.183 0/1:86:55,31:55:1968:31:1092:-72.6989,0,-151.506 0/1:114:53,61:53:1847:61:2188:-162.868,0,-132.189 1/1:148:1,147:1:21:147:5237:-469.369,-42.4525,0 1/1:14:0,14:0:0:14:485:-43.977,-4.21442,0 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:37:24,13:24:841:13:468:-31.3215,0,-64.8683 0/1:144:80,64:80:2868:64:2254:-159.772,0,-215.009 0/1:64:34,30:34:1216:30:1072:-77.5265,0,-90.4806 0/1:102:38,64:38:1360:64:2288:-175.477,0,-91.9955 0/1:28:8,20:8:288:20:712:-55.9778,0,-17.8386 0/1:13:3,10:3:108:10:356:-28.4679,0,-6.16178 0/1:130:64,66:64:2296:66:2336:-171.356,0,-167.766 0/1:94:28,66:28:1000:66:2243:-173.827,0,-62.0186 1/1:56:0,56:0:0:56:1981:-178.563,-16.8577,0 1/1:53:1,52:1:36:52:1852:-163.362,-12.3563,0 chr12 21181303 . CATA CATATA 7844.01 PASS AB=0.458188;ABP=20.4426;AC=17;AF=0.404762;AN=42;AO=526;CIGAR=1M2I3M;DP=1459;DPB=1722;DPRA=0.868545;EPP=1145.2;EPPR=2020.31;GTI=0;LEN=2;MEANALT=1.11765;MQM=42.0133;MQMR=59.9742;NS=21;NUMALT=1;ODDS=15.7722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18553;QR=32834;RO=929;RPL=0;RPP=1145.2;RPPR=2020.31;RPR=526;RUN=1;SAF=526;SAP=1145.2;SAR=0;SRF=929;SRP=2020.31;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/1:88:53,35:53:1894:35:1242:-82.5612,0,-144.247 0/1:38:21,17:21:747:17:593:-41.1136,0,-56.1162 0/1:59:37,21:37:1316:21:750:-48.0053,0,-100.922 0/1:81:45,36:45:1578:36:1270:-87.1397,0,-117.926 0/1:81:36,45:36:1274:45:1579:-114.288,0,-90.5793 0/1:88:46,42:46:1633:42:1500:-105.85,0,-120.768 0/1:117:49,68:49:1713:68:2415:-177.088,0,-119.233 0/1:93:59,34:59:2083:34:1210:-78.7175,0,-159.744 0/0:157:157,0:157:5552:0:0:0,-47.2617,-499.809 0/0:10:10,0:10:357:0:0:0,-3.0103,-32.4721 0/1:8:3,5:3:108:5:180:-13.7716,0,-7.66693 0/1:21:8,13:8:282:13:456:-34.2618,0,-19.3997 0/1:94:48,46:48:1705:46:1639:-115.725,0,-125.438 0/1:70:37,32:37:1294:32:1075:-73.8827,0,-95.6293 0/1:105:52,53:52:1834:53:1846:-130.189,0,-133.73 0/1:39:24,15:24:861:15:514:-33.3217,0,-66.0721 0/1:31:21,10:21:728:10:360:-22.3824,0,-56.5047 0/1:66:32,34:32:1138:34:1214:-87.19,0,-82.8608 0/1:69:49,20:49:1747:20:710:-41.5622,0,-136.743 0/0:79:79,0:79:2811:0:0:0,-23.7814,-253.228 0/0:65:63,0:63:2179:0:0:0,-18.9649,-196.01 chr12 21181313 . A G 8289.62 PASS AB=0.44065;ABP=40.6421;AC=17;AF=0.404762;AN=42;AO=542;CIGAR=1X;DP=1604;DPB=1604;DPRA=0.773828;EPP=1136.92;EPPR=1240.64;GTI=0;LEN=1;MEANALT=1;MQM=41.9483;MQMR=56.7298;NS=21;NUMALT=1;ODDS=11.9566;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19357;QR=37947;RO=1062;RPL=5;RPP=1136.92;RPPR=2265.89;RPR=537;RUN=1;SAF=542;SAP=1179.95;SAR=0;SRF=925;SRP=1272.66;SRR=137;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:87:54,33:54:1940:33:1188:-77.6821,0,-148.687 0/1:39:20,19:20:716:19:684:-48.761,0,-53.0275 0/1:58:37,21:37:1316:21:752:-48.2374,0,-101.282 0/1:80:44,36:44:1572:36:1288:-89.1402,0,-117.689 0/1:78:36,42:36:1273:42:1500:-107.799,0,-91.3906 0/1:89:46,43:46:1656:43:1531:-108.295,0,-122.537 0/1:118:49,69:49:1744:69:2461:-180.554,0,-121.723 0/1:119:82,37:82:2932:37:1316:-80.0701,0,-220.44 0/0:154:154,0:154:5501:0:0:0,-46.3586,-495.216 0/0:26:26,0:26:927:0:0:0,-7.82678,-78.916 0/1:8:3,5:3:108:5:180:-13.7716,0,-7.66693 0/1:24:10,14:10:360:14:504:-36.9313,0,-24.8787 0/1:99:48,51:48:1724:51:1820:-129.589,0,-125.643 0/1:75:38,37:38:1356:37:1304:-91.5309,0,-99.7632 0/1:104:52,52:52:1852:52:1859:-130.942,0,-135.653 0/1:41:24,17:24:852:17:603:-39.6184,0,-64.6582 0/1:33:21,12:21:737:12:432:-28.0456,0,-56.7133 0/1:109:75,34:75:2692:34:1215:-73.9983,0,-195.483 0/1:69:49,20:49:1756:20:720:-42.0578,0,-137.553 0/0:130:130,0:130:4649:0:0:0,-39.1339,-401.364 0/0:64:64,0:64:2284:0:0:0,-19.2659,-205.806 chr12 21264099 . G A 17881.6 PASS AB=0.50319;ABP=3.12112;AC=25;AF=0.595238;AN=42;AO=921;CIGAR=1X;DP=1544;DPB=1544;DPRA=0;EPP=1891.61;EPPR=1228.69;GTI=0;LEN=1;MEANALT=1;MQM=59.9587;MQMR=60;NS=21;NUMALT=1;ODDS=16.3946;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32849;QR=22292;RO=623;RPL=5;RPP=1959.74;RPPR=1270.37;RPR=916;RUN=1;SAF=913;SAP=1934.05;SAR=8;SRF=618;SRP=1312.76;SRR=5;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:36,45:36:1269:45:1612:-120.987,0,-90.1273 0/1:37:16,21:16:564:21:743:-56.0552,0,-39.9522 0/1:114:76,38:76:2713:38:1341:-86.6706,0,-210.095 0/1:58:27,31:27:972:31:1108:-82.5713,0,-70.3382 0/1:132:62,70:62:2209:70:2500:-185.027,0,-159.337 0/1:55:26,29:26:932:29:1032:-76.6368,0,-67.6422 0/1:71:43,28:43:1544:28:1000:-68.9422,0,-117.88 0/1:92:55,37:55:1972:37:1317:-91.1351,0,-150.06 1/1:183:0,183:0:0:183:6530:-587.781,-55.0885,0 1/1:16:0,16:0:0:16:576:-52.175,-4.81648,0 0/1:11:7,4:7:252:4:144:-10.0023,0,-19.7176 0/1:20:16,4:16:576:4:144:-7.29302,0,-46.1544 0/1:92:41,51:41:1476:51:1828:-137.106,0,-105.441 0/1:73:35,38:35:1237:38:1368:-101.446,0,-89.6571 0/1:136:69,67:69:2480:67:2385:-173.958,0,-182.513 0/1:51:21,30:21:752:30:1068:-81.0795,0,-52.6537 0/1:37:17,20:17:612:20:720:-53.9907,0,-44.2753 0/1:84:37,47:37:1328:47:1692:-127.28,0,-94.5357 0/1:110:39,71:39:1404:71:2511:-193.124,0,-93.546 1/1:60:0,60:0:0:60:2137:-192.596,-18.0618,0 1/1:31:0,31:0:0:31:1093:-98.6777,-9.33193,0 chr12 21278134 . A C 6323.32 PASS AB=0.527207;ABP=13.6445;AC=17;AF=0.404762;AN=42;AO=872;CIGAR=1X;DP=2112;DPB=2112;DPRA=0.84973;EPP=1896.53;EPPR=2686.95;GTI=0;LEN=1;MEANALT=1.05882;MQM=25.1158;MQMR=25.7783;NS=21;NUMALT=1;ODDS=12.9416;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31044;QR=43867;RO=1236;RPL=0;RPP=1896.53;RPPR=2686.95;RPR=872;RUN=1;SAF=0;SAP=1896.53;SAR=872;SRF=0;SRP=2686.95;SRR=1236;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:45,62:45:1608:62:2219:-105.176,0,-69.9468 0/1:51:15,36:15:536:36:1284:-67.6543,0,-19.3953 0/1:165:98,67:98:3486:67:2381:-98.742,0,-171.755 0/1:113:64,49:64:2292:49:1760:-74.8926,0,-108.277 0/1:171:57,114:57:2025:114:4061:-200.919,0,-74.7366 0/1:45:27,18:27:972:18:648:-28.1606,0,-49.8256 0/1:123:56,67:56:1982:67:2392:-116.6,0,-92.3784 0/1:146:90,56:90:3200:56:2004:-80.8914,0,-156.176 0/0:242:242,0:242:8592:0:0:0,-72.8493,-537.347 0/0:13:13,0:13:464:0:0:0,-3.91339,-29.2347 0/1:8:3,5:3:104:5:180:-9.36181,0,-4.70405 0/1:50:17,33:17:597:33:1169:-58.207,0,-22.7486 0/1:165:65,100:65:2319:100:3523:-170.078,0,-95.5403 0/1:103:39,64:39:1392:64:2296:-111.34,0,-61.4184 0/1:147:63,83:63:2243:83:2963:-140.133,0,-95.9343 0/1:49:22,27:22:762:27:953:-44.6576,0,-34.9169 0/1:63:32,31:32:1111:31:1086:-49.5801,0,-51.3492 0/1:71:40,31:40:1393:31:1097:-47.5272,0,-68.7929 0/1:77:48,29:48:1703:29:1028:-41.2857,0,-83.3115 0/0:126:123,0:123:4392:0:0:0,-37.0267,-273.134 0/0:77:77,0:77:2694:0:0:0,-23.1793,-177.502 chr12 21278180 . G A 11835.4 PASS AB=0.478313;ABP=9.88598;AC=25;AF=0.595238;AN=42;AO=1271;CIGAR=1X;DP=2149;DPB=2149;DPRA=0;EPP=2762.95;EPPR=1907.39;GTI=0;LEN=1;MEANALT=1.04762;MQM=25.9111;MQMR=25.2794;NS=21;NUMALT=1;ODDS=12.059;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45395;QR=31404;RO=877;RPL=1271;RPP=2762.95;RPPR=1907.39;RPR=0;RUN=1;SAF=0;SAP=2762.95;SAR=1271;SRF=0;SRP=1907.39;SRR=877;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:64,45:64:2292:45:1616:-69.4272,0,-108.892 0/1:53:37,16:37:1324:16:568:-21.0455,0,-69.4054 0/1:168:67,101:67:2404:101:3574:-176.872,0,-98.1759 0/1:116:51,65:51:1828:65:2336:-110.533,0,-78.3887 0/1:172:112,60:112:4001:60:2152:-82.625,0,-196.342 0/1:45:18,27:18:648:27:972:-49.8256,0,-28.1606 0/1:124:67,57:67:2404:57:2040:-94.7356,0,-116.45 0/1:149:57,92:57:2044:92:3289:-161.834,0,-83.6867 1/1:246:0,246:0:0:246:8786:-547.756,-74.0534,0 1/1:13:0,13:0:0:13:468:-29.2761,-3.91339,0 0/1:9:5,4:5:176:4:144:-6.49909,0,-9.00943 0/1:50:33,17:33:1188:17:608:-23.2209,0,-58.4519 0/1:167:100,66:100:3561:66:2360:-97.3456,0,-171.524 0/1:107:66,41:66:2368:41:1468:-65.6157,0,-116.045 0/1:149:82,67:82:2944:67:2381:-102.774,0,-137.354 0/1:47:25,22:25:896:22:788:-35.9251,0,-41.3091 0/1:64:31,33:31:1116:33:1176:-53.9631,0,-49.7217 0/1:75:32,43:32:1134:43:1512:-74.6827,0,-48.7235 0/1:79:30,49:30:1076:49:1760:-85.2146,0,-43.5585 1/1:130:0,130:0:0:130:4629:-287.518,-39.1339,0 1/1:77:0,77:0:0:77:2768:-179.935,-23.1793,0 chr12 21456596 . T C 19134.6 PASS AB=0.560859;ABP=43.4494;AC=25;AF=0.595238;AN=42;AO=1003;CIGAR=1X;DP=1556;DPB=1556;DPRA=0;EPP=2181;EPPR=1197.32;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.991;MQMR=59.9891;NS=21;NUMALT=1;ODDS=3.68251;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35788;QR=19593;RO=550;RPL=1003;RPP=2181;RPPR=1197.32;RPR=0;RUN=1;SAF=0;SAP=2181;SAR=1003;SRF=0;SRP=1197.32;SRR=550;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:105:37,67:37:1313:67:2404:-184.95,0,-86.8029 0/1:81:33,48:33:1150:48:1709:-129.71,0,-79.4167 0/1:50:25,25:25:896:25:896:-65.9089,0,-65.9089 0/1:59:27,32:27:972:32:1097:-81.2689,0,-70.0371 0/1:163:70,93:70:2497:93:3287:-246.979,0,-175.913 0/1:69:34,35:34:1212:35:1241:-91.2214,0,-88.6153 0/1:74:31,43:31:1112:43:1529:-115.625,0,-78.1151 0/1:92:45,47:45:1612:47:1684:-124.152,0,-117.675 1/1:172:0,172:0:0:172:6149:-553.508,-51.7772,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:9:3,6:3:108:6:216:-17.0812,0,-7.3659 0/1:17:13,4:13:468:4:144:-8.19611,0,-37.3421 0/1:86:39,47:39:1400:47:1680:-125.599,0,-100.411 0/1:75:34,41:34:1175:41:1476:-110.559,0,-83.4708 0/1:168:78,89:78:2789:89:3183:-236.061,0,-200.617 0/1:65:34,31:34:1205:31:1108:-80.464,0,-89.1869 0/1:34:12,22:12:424:22:788:-61.0098,0,-28.2614 0/1:42:20,22:20:720:22:788:-58.6015,0,-52.4855 0/1:68:15,53:15:540:53:1904:-151.168,0,-28.4665 1/1:81:0,80:0:0:80:2849:-256.287,-24.0824,0 1/1:36:0,36:0:0:36:1296:-116.944,-10.8371,0 chr12 21468672 . G A 9576.4 PASS AB=0.464115;ABP=17.0366;AC=17;AF=0.404762;AN=42;AO=583;CIGAR=1X;DP=1471;DPB=1471;DPRA=1.23429;EPP=1260.31;EPPR=1866.61;GTI=0;LEN=1;MEANALT=1.11111;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.97037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20872;QR=31659;RO=886;RPL=582;RPP=1260.31;RPPR=1866.61;RPR=1;RUN=1;SAF=0;SAP=1268.98;SAR=583;SRF=0;SRP=1926.93;SRR=886;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:125:65,60:65:2287:60:2160:-157.038,0,-168.461 0/1:76:37,39:37:1324:39:1400:-103.421,0,-96.5838 0/1:68:33,35:33:1188:35:1245:-91.8827,0,-86.7586 0/1:45:22,23:22:780:23:824:-60.937,0,-56.9767 0/1:119:49,70:49:1756:70:2495:-188.98,0,-122.501 0/1:86:40,46:40:1436:46:1656:-123.44,0,-103.649 0/1:70:50,20:50:1792:20:720:-44.0567,0,-140.49 0/1:109:62,47:62:2213:47:1673:-118.043,0,-166.621 0/0:99:99,0:99:3536:0:0:0,-29.802,-318.45 0/0:22:22,0:22:788:0:0:0,-6.62266,-71.2448 0/1:5:4,1:4:140:1:36:-2.09312,0,-11.4394 0/1:26:18,8:18:640:8:288:-18.4406,0,-50.1025 0/1:92:39,52:39:1400:52:1872:-141.006,0,-98.5457 0/1:86:43,43:43:1532:43:1526:-111.743,0,-112.285 0/1:73:34,39:34:1216:39:1400:-104.324,0,-87.7714 0/1:50:24,26:24:860:26:936:-69.508,0,-62.6703 0/1:67:40,27:40:1432:27:953:-65.9143,0,-109.009 0/1:87:58,29:58:2080:29:1044:-68.0852,0,-161.281 0/1:70:53,17:53:1887:17:608:-33.9799,0,-149.036 0/0:42:40,1:40:1428:1:36:0,-9.02887,-125.291 0/0:54:54,0:54:1944:0:0:0,-16.2556,-175.236 chr12 21471780 . ACGT CCGT,CCGC 43924.4 PASS AB=0.513875,0.480473;ABP=6.26416,9.45553;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1266,935;CIGAR=1X3M,1X2M1X;DP=2214;DPB=2214;DPRA=0,1.70852;EPP=2743.42,2033.34;EPPR=5.18177;GTI=0;LEN=1,4;MEANALT=2.38095,2.58824;MQM=59.9573,59.8652;MQMR=60;NS=21;NUMALT=2;ODDS=11.9516;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44923,32668;QR=30;RO=1;RPL=1,0;RPP=2743.42,2033.34;RPPR=5.18177;RPR=1265,935;RUN=1,1;SAF=0,0;SAP=2752.09,2033.34;SAR=1266,935;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:125:0,56,69:0:0:56,69:2000,2417:-360.069,-197.007,-180.149,-163.416,0,-142.645 1/2:97:0,46,50:0:0:46,50:1643,1750:-276.322,-142.41,-128.563,-133.945,0,-118.893 1/2:133:0,75,58:0:0:75,58:2646,2027:-380.699,-165.243,-142.665,-215.807,0,-198.348 1/2:176:0,86,88:0:0:86,88:3075,3047:-498.35,-247.612,-221.724,-250.759,0,-224.268 1/2:191:0,104,86:0:0:104,86:3684,3028:-546.608,-246.504,-215.197,-300.097,0,-274.208 1/2:118:0,67,51:0:0:67,51:2393,1783:-340.502,-145.398,-125.229,-195.457,0,-180.105 1/2:112:0,62,50:0:0:62,50:2209,1743:-322.142,-142.084,-123.42,-180.41,0,-165.359 1/2:149:0,68,81:0:0:68,81:2431,2849:-430.484,-232.264,-211.793,-198.575,0,-174.192 1/1:149:0,148,0:0:0:148,0:5290,0:-475.874,-44.5524,0,-475.874,-44.5524,-475.874 1/1:15:0,15,0:0:0:15,0:536,0:-48.5748,-4.51545,0,-48.5748,-4.51545,-48.5748 1/2:7:0,2,5:0:0:2,5:72,174:-20.3744,-14.4961,-13.894,-6.23466,0,-4.72951 1/2:47:0,17,30:0:0:17,30:595,1041:-133.378,-84.9676,-79.8501,-48.7592,0,-39.7283 1/2:202:0,89,110:0:0:89,110:3155,3900:-574.842,-317.816,-291.024,-257.112,0,-223.998 1/2:107:0,59,48:0:0:59,48:2100,1689:-309,-137.846,-120.085,-171.508,0,-157.058 1/2:170:0,92,77:0:0:92,77:3255,2669:-482.08,-216.953,-189.258,-265.156,0,-241.976 1/2:83:0,46,37:0:0:46,37:1625,1288:-237.418,-105.079,-91.2317,-132.689,0,-121.551 1/2:77:1,39,37:1:30:39,37:1331,1295:-210.707,-103.012,-93.6691,-105.643,0,-96.9021 1/2:105:0,63,40:0:0:63,40:2205,1355:-289.095,-109.957,-90.992,-179.249,0,-167.208 1/2:47:0,29,18:0:0:29,18:1004,613:-131.666,-50.0713,-41.3414,-81.9375,0,-76.519 1/1:55:0,54,0:0:0:54,0:1936,0:-174.176,-16.2556,0,-174.176,-16.2556,-174.176 1/1:49:0,49,0:0:0:49,0:1738,0:-156.703,-14.7505,0,-156.703,-14.7505,-156.703 chr12 21514366 . C A 23556.6 PASS AB=0.557255;ABP=71.8879;AC=18;AF=0.428571;AN=42;AO=1353;CIGAR=1X;DP=2843;DPB=2843;DPRA=1.64186;EPP=2941.01;EPPR=3221.14;GTI=1;LEN=1;MEANALT=1.16667;MQM=59.9941;MQMR=60;NS=21;NUMALT=1;ODDS=0.261113;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48207;QR=52985;RO=1486;RPL=0;RPP=2941.01;RPPR=3221.14;RPR=1353;RUN=1;SAF=0;SAP=2941.01;SAR=1353;SRF=0;SRP=3229.82;SRR=1486;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:194:93,100:93:3300:100:3567:-262.779,0,-238.76 0/1:135:74,61:74:2649:61:2184:-156.187,0,-198.015 0/1:90:31,59:31:1112:59:2105:-162.625,0,-73.2986 0/1:209:92,117:92:3286:117:4195:-314.815,0,-233.043 0/1:290:132,158:132:4709:158:5617:-418.355,0,-336.671 0/1:173:87,86:87:3107:86:3084:-225.71,0,-227.779 0/1:138:46,91:46:1636:91:3241:-250.309,0,-105.928 0/1:160:77,83:77:2742:83:2965:-218.917,0,-198.857 0/0:193:192,0:192:6819:0:0:0,-57.7978,-613.425 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 1/1:4:0,4:0:0:4:144:-13.3136,-1.20412,0 0/1:14:8,6:8:288:6:216:-15.5761,0,-22.053 0/1:232:76,156:76:2720:156:5518:-426.906,0,-175.205 0/1:146:43,102:43:1540:102:3636:-283.475,0,-94.9229 0/1:198:95,103:95:3404:103:3656:-269.638,0,-246.97 0/1:120:50,70:50:1784:70:2485:-187.779,0,-124.719 0/1:160:66,94:66:2364:94:3338:-252.472,0,-164.854 0/1:63:36,27:36:1283:27:968:-68.4725,0,-96.8077 0/1:97:62,35:62:2188:35:1252:-83.7852,0,-167.984 0/0:158:157,1:157:5599:1:36:0,-43.9645,-500.436 0/0:65:65,0:65:2311:0:0:0,-19.5669,-208.25 chr12 21515262 . TGT TGA,CGA 56123.9 PASS AB=0.533872,0.462539;ABP=25.2228,30.1795;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1697,1039;CIGAR=2M1X,1X1M1X;DP=2746;DPB=2746;DPRA=0,1.09412;EPP=3670.65,2198.78;EPPR=0;GTI=0;LEN=1,3;MEANALT=2.28571,2.38889;MQM=59.9694,59.9423;MQMR=0;NS=21;NUMALT=2;ODDS=3.53357;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=60739,36466;QR=0;RO=0;RPL=1695,1032;RPP=3670.65,2198.78;RPPR=0;RPR=2,7;RUN=1,1;SAF=1697,1039;SAP=3688,2259.17;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:194:0,125,69:0:0:125,69:4475,2417:-561.949,-197.012,-159.383,-365.29,0,-344.519 1/2:87:0,41,46:0:0:41,46:1472,1647:-254.747,-134.672,-122.329,-120.434,0,-106.587 1/2:132:0,63,69:0:0:63,69:2260,2429:-382.435,-198.093,-179.128,-184.698,0,-163.927 1/2:88:0,45,43:0:0:45,43:1608,1528:-255.976,-124.869,-111.322,-131.464,0,-118.519 1/2:335:0,166,168:0:0:166,168:5951,5918:-967.254,-481.884,-431.913,-485.444,0,-434.871 1/2:97:0,53,44:0:0:53,44:1884,1562:-281.151,-127.624,-111.67,-153.881,0,-140.636 1/2:163:0,92,71:0:0:92,71:3296,2459:-469.003,-200.19,-172.495,-269.164,0,-247.791 1/2:73:0,38,35:0:0:38,35:1345,1189:-206.322,-96.7598,-85.3207,-109.909,0,-99.373 1/1:293:0,291,0:0:0:291,0:10425,0:-937.397,-87.5997,0,-937.397,-87.5997,-937.397 1/1:18:0,18,0:0:0:18,0:636,0:-57.5675,-5.41854,0,-57.5675,-5.41854,-57.5675 1/2:4:0,2,2:0:0:2,2:72,72:-12.1095,-6.23466,-5.6326,-6.23466,0,-5.6326 1/2:35:0,17,18:0:0:17,18:612,635:-101.998,-52.0588,-46.9413,-50.2959,0,-44.8774 1/2:228:0,123,105:0:0:123,105:4408,3685:-659.753,-300.242,-263.215,-359.865,0,-328.257 1/2:140:0,73,65:0:0:73,65:2594,2283:-397.253,-185.871,-163.896,-211.447,0,-191.88 1/2:197:0,99,98:0:0:99,98:3533,3447:-568.965,-280.943,-251.141,-288.376,0,-258.875 1/2:146:0,85,59:0:0:85,59:3056,2052:-416.197,-166.869,-141.281,-249.36,0,-231.599 1/2:104:0,47,56:0:0:47,56:1692,1977:-299.198,-161.135,-146.987,-138.209,0,-121.351 1/2:132:0,68,62:0:0:68,62:2427,2158:-373.327,-175.52,-155.05,-197.857,0,-179.193 1/2:74:0,53,21:0:0:53,21:1899,733:-214.85,-59.968,-44.0134,-155.233,0,-148.912 1/1:154:0,146,8:0:0:146,8:5228,275:-470.313,-43.9504,0,-447.982,-21.2748,-445.574 1/1:52:0,52,0:0:0:52,0:1866,0:-168.219,-15.6536,0,-168.219,-15.6536,-168.219 chr12 21516853 . C T 37481.9 PASS AB=0.4253;ABP=132.128;AC=18;AF=0.428571;AN=42;AO=2030;CIGAR=1X;DP=4277;DPB=4277;DPRA=2.35281;EPP=4411.1;EPPR=4869.28;GTI=0;LEN=1;MEANALT=1.1;MQM=59.9404;MQMR=59.8878;NS=21;NUMALT=1;ODDS=5.25014;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72770;QR=80182;RO=2245;RPL=0;RPP=4411.1;RPPR=4877.97;RPR=2030;RUN=1;SAF=2030;SAP=4411.1;SAR=0;SRF=2244;SRP=4869.28;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:89:68,21:68:2436:21:748:-40.8532,0,-192.65 0/1:119:72,47:72:2575:47:1688:-116.384,0,-196.141 0/1:156:88,68:88:3156:68:2448:-173.61,0,-237.275 0/1:173:113,60:113:4048:60:2152:-141.869,0,-312.427 0/1:264:198,66:198:7077:66:2376:-134.612,0,-557.219 0/1:143:98,45:98:3508:45:1609:-102.052,0,-272.883 0/1:198:130,68:130:4616:68:2431:-159.439,0,-356.001 0/1:174:115,59:115:4132:59:2092:-136.169,0,-319.643 0/0:270:268,2:268:9559:2:68:0,-74.8217,-853.739 0/0:56:52,4:52:1846:4:144:0,-3.54406,-153.105 1/1:195:7,188:7:248:188:6739:-583.814,-36.0367,0 1/1:726:33,692:33:1184:692:24792:-2123.72,-111.738,0 0/0:114:104,10:104:3715:10:360:0,-1.57312,-301.806 0/1:166:94,72:94:3364:72:2572:-181.759,0,-253.004 0/1:217:168,49:168:6010:49:1760:-93.358,0,-475.678 0/1:112:66,46:66:2351:46:1656:-115.613,0,-178.131 0/1:119:81,38:81:2873:38:1356:-86.3602,0,-222.912 0/1:599:147,452:147:5247:452:16240:-1280.92,0,-292.051 0/1:135:93,42:93:3317:42:1503:-94.9248,0,-258.106 0/0:163:161,1:161:5755:1:36:0,-45.5085,-514.443 0/0:89:89,0:89:3165:0:0:0,-26.7917,-284.993 chr12 21516890 . T C 40548.6 PASS AB=0.573558;ABP=126.001;AC=24;AF=0.571429;AN=42;AO=2204;CIGAR=1X;DP=4196;DPB=4196;DPRA=0;EPP=4780.25;EPPR=4315.56;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9152;MQMR=59.9734;NS=21;NUMALT=1;ODDS=13.9925;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=77635;QR=70792;RO=1990;RPL=2204;RPP=4788.94;RPPR=4315.56;RPR=0;RUN=1;SAF=2203;SAP=4780.25;SAR=1;SRF=1990;SRP=4324.24;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:20,66:20:711:66:2341:-185.014,0,-38.4271 0/1:116:47,69:47:1684:69:2441:-184.987,0,-116.928 0/1:155:68,87:68:2418:87:3033:-226.537,0,-171.212 0/1:169:57,112:57:2007:112:3970:-306.615,0,-130.026 0/1:258:63,193:63:2256:193:6834:-537.768,0,-126.006 0/1:141:45,96:45:1600:96:3392:-263.051,0,-101.845 0/1:189:64,125:64:2261:125:4437:-342.609,0,-146.857 0/1:173:61,112:61:2175:112:3958:-304.31,0,-143.938 1/1:269:1,268:1:21:268:9467:-849.824,-78.8771,0 1/1:56:5,51:5:176:51:1782:-144.473,-0.672661,0 0/0:185:178,7:178:6338:7:233:0,-34.3963,-549.218 0/0:714:681,33:681:24174:33:1162:0,-110.05,-2070.13 1/1:110:10,100:10:360:100:3499:-282.374,-0.368998,0 0/1:161:68,93:68:2391:93:3271:-246.142,0,-166.98 0/1:217:48,169:48:1728:169:5966:-471.723,0,-90.4795 0/1:114:46,68:46:1652:68:2387:-180.764,0,-114.651 0/1:119:38,81:38:1351:81:2849:-220.82,0,-86.0433 0/1:588:447,141:447:15953:141:4927:-266.579,0,-1258.41 0/1:131:42,89:42:1500:89:3130:-242.487,0,-95.8596 1/1:158:1,157:1:36:157:5527:-493.94,-43.9645,0 1/1:87:0,87:0:0:87:3029:-272.795,-26.1896,0 chr12 21516897 . G A 41614.8 PASS AB=0.563098;ABP=78.9169;AC=28;AF=0.666667;AN=42;AO=2156;CIGAR=1X;DP=3789;DPB=3789;DPRA=0;EPP=4676.02;EPPR=3549.02;GTI=1;LEN=1;MEANALT=1;MQM=59.8961;MQMR=59.97;NS=21;NUMALT=1;ODDS=3.77031;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=76691;QR=58139;RO=1633;RPL=2155;RPP=4676.02;RPPR=3549.02;RPR=1;RUN=1;SAF=2154;SAP=4667.35;SAR=2;SRF=1633;SRP=3549.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:86:20,66:20:705:66:2341:-185.014,0,-37.8842 1/1:69:0,69:0:0:69:2452:-220.921,-20.7711,0 0/1:153:66,87:66:2352:87:3104:-233.501,0,-165.879 0/1:169:59,110:59:2100:110:3948:-304.635,0,-138.396 0/1:263:67,196:67:2383:196:6951:-546.406,0,-135.551 1/1:92:0,92:0:0:92:3278:-295.24,-27.6948,0 1/1:126:1,125:1:32:125:4445:-397.024,-34.7315,0 0/1:167:59,108:59:2108:108:3856:-296.942,0,-139.717 1/1:266:1,265:1:36:265:9463:-847.96,-76.4757,0 0/1:53:5,48:5:180:48:1702:-137.51,0,-0.597475 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/0:694:662,32:662:23571:32:1127:0,-107.177,-2019.03 1/1:105:9,96:9:324:96:3424:-278.868,-2.1023,0 0/1:166:71,95:71:2511:95:3370:-253.545,0,-176.272 0/1:213:49,164:49:1738:164:5834:-461.055,0,-92.5813 0/1:113:46,67:46:1635:67:2373:-179.807,0,-113.422 0/1:120:38,82:38:1343:82:2944:-228.997,0,-85.022 0/1:572:437,135:437:15577:135:4771:-257.362,0,-1229.45 0/1:120:42,78:42:1508:78:2762:-212.697,0,-99.891 1/1:152:1,151:1:36:151:5356:-478.533,-42.1583,0 1/1:83:0,83:0:0:83:2938:-264.609,-24.9855,0 chr12 21602260 . CACG TACG,TACA 27571.4 PASS AB=0.533621,0.458621;ABP=14.3993,20.2623;AC=25,17;AF=0.595238,0.404762;AN=42;AO=821,532;CIGAR=1X3M,1X2M1X;DP=1363;DPB=1363;DPRA=0,1.34454;EPP=1785.79,1158.23;EPPR=0;GTI=1;LEN=1,4;MEANALT=2.19048,2.41176;MQM=59.9988,59.9568;MQMR=0;NS=21;NUMALT=2;ODDS=0.586146;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29348,18955;QR=0;RO=0;RPL=0,0;RPP=1785.79,1158.23;RPPR=0;RPR=821,532;RUN=1,1;SAF=821,532;SAP=1785.79,1158.23;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:78:0,37,41:0:0:37,41:1328,1456:-227.319,-118.992,-107.853,-108.684,0,-96.3419 1/2:73:0,28,44:0:0:28,44:1000,1561:-208.816,-127.284,-118.855,-81.6329,0,-68.3875 1/2:88:0,49,39:0:0:49,39:1748,1402:-257.235,-114.739,-99.9888,-142.854,0,-131.114 1/2:106:0,56,50:0:0:56,50:1996,1789:-308.94,-146.241,-129.383,-163.056,0,-148.005 1/2:133:0,79,52:0:0:79,52:2813,1860:-380.985,-151.714,-127.933,-229.316,0,-213.663 1/2:64:0,32,32:0:0:32,32:1148,1125:-185.566,-91.9244,-82.2915,-93.9969,0,-84.3639 1/2:139:0,84,52:0:0:84,52:3000,1855:-395.806,-151.217,-125.93,-244.586,0,-228.932 1/2:29:0,16,13:0:0:16,13:572,468:-85.1845,-38.5463,-33.7298,-46.9969,0,-43.0836 1/1:136:0,135,0:0:0:135,0:4837,0:-435.122,-40.6391,0,-435.122,-40.6391,-435.122 1/1:12:0,12,0:0:0:12,0:428,0:-38.8588,-3.61236,0,-38.8588,-3.61236,-38.8588 1/2:8:0,7,1:0:0:7,1:252,36:-23.8592,-3.29724,-1.19003,-20.9217,0,-20.6207 1/2:26:0,12,13:0:0:12,13:413,457:-70.6989,-37.161,-33.5486,-33.5269,0,-29.6135 1/2:58:0,37,20:0:0:37,20:1328,716:-166.713,-58.3874,-47.2493,-108.324,0,-102.304 1/2:97:0,55,41:0:0:55,41:1968,1457:-279.206,-118.724,-102.167,-160.479,0,-148.136 1/2:126:0,66,60:0:0:66,60:2357,2147:-367.597,-175.436,-155.568,-192.519,0,-174.457 1/2:39:0,18,21:0:0:18,21:648,749:-114.289,-61.4137,-55.9952,-53.2333,0,-46.9117 1/2:59:0,21,38:0:0:21,38:756,1354:-172.408,-110.721,-104.4,-62.0456,0,-50.6065 1/2:25:0,14,11:0:0:14,11:500,385:-72.4416,-31.6729,-27.4584,-41.1218,0,-37.8104 1/2:12:0,8,4:0:0:8,4:288,138:-35.065,-11.5557,-9.14745,-23.8592,0,-22.655 1/1:43:0,43,0:0:0:43,0:1536,0:-138.533,-12.9443,0,-138.533,-12.9443,-138.533 1/1:12:0,12,0:0:0:12,0:432,0:-39.2212,-3.61236,0,-39.2212,-3.61236,-39.2212 chr12 21610767 . G A 21402 PASS AB=0.413063;ABP=145.728;AC=25;AF=0.595238;AN=42;AO=1151;CIGAR=1X;DP=2427;DPB=2427;DPRA=0;EPP=2493.7;EPPR=2728.38;GTI=1;LEN=1;MEANALT=1.04762;MQM=40.8584;MQMR=56.7851;NS=21;NUMALT=1;ODDS=4.90246;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40855;QR=44885;RO=1275;RPL=712;RPP=143.616;RPPR=126.249;RPR=439;RUN=1;SAF=713;SAP=145.684;SAR=438;SRF=777;SRP=135.583;SRR=498;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:105,48:105:3713:48:1697:-82.4901,0,-287.471 0/1:73:49,24:49:1740:24:856:-36.7905,0,-134.762 0/1:129:85,44:85:3031:44:1557:-88.4683,0,-234.074 0/1:136:81,55:81:2863:55:1976:-123.845,0,-216.557 0/1:208:119,88:119:4119:88:3151:-190.704,0,-307.812 0/1:81:57,24:57:2020:24:845:-34.5601,0,-157.408 0/1:113:66,47:66:2352:47:1684:-83.1983,0,-176.613 0/1:153:93,60:93:3300:60:2133:-116.869,0,-249.944 1/1:119:0,119:0:0:119:4238:-335.934,-35.8226,0 1/1:15:0,15:0:0:15:532:-41.4993,-4.51545,0 0/1:10:6,4:6:207:4:144:-7.11365,0,-15.9392 0/1:92:49,43:49:1744:43:1544:-88.8563,0,-129.392 0/1:129:68,61:68:2396:61:2146:-134.041,0,-176.812 0/1:114:63,51:63:2215:51:1776:-110.889,0,-164.774 0/1:297:190,107:190:6628:107:3800:-211.777,0,-505.968 0/1:142:92,50:92:3222:50:1779:-109.219,0,-247.298 0/1:82:54,28:54:1884:28:974:-54.7223,0,-145.036 0/1:166:67,99:67:2378:99:3535:-237.298,0,-163.903 0/1:96:31,65:31:1073:65:2299:-160.045,0,-67.9547 1/1:83:0,83:0:0:83:2909:-228.609,-24.9855,0 1/1:36:0,36:0:0:36:1280:-89.7375,-10.8371,0 chr12 21610782 . A G 24223.5 PASS AB=0.414449;ABP=153.486;AC=25;AF=0.595238;AN=42;AO=1273;CIGAR=1X;DP=2661;DPB=2661;DPRA=0;EPP=2767.29;EPPR=2997.5;GTI=2;LEN=1;MEANALT=1.04762;MQM=42.9442;MQMR=56.858;NS=21;NUMALT=1;ODDS=1.24903;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44261;QR=49260;RO=1387;RPL=699;RPP=29.6633;RPPR=44.6064;RPR=574;RUN=1;SAF=699;SAP=29.6633;SAR=574;SRF=777;SRP=46.673;SRR=610;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:159:112,47:112:3975:47:1630:-77.1716,0,-308.892 0/1:137:79,58:79:2820:58:2022:-123.115,0,-212.669 0/1:133:90,43:90:3206:43:1536:-85.9353,0,-248.428 0/1:138:82,56:82:2923:56:1990:-125.478,0,-221.119 0/1:208:113,95:113:4039:95:3257:-204.94,0,-300.517 0/1:114:78,36:78:2783:36:1247:-60.1472,0,-215.823 0/1:161:89,72:89:3170:72:2531:-148.813,0,-235.71 0/1:150:94,55:94:3299:55:1915:-104.626,0,-251.262 1/1:114:0,114:0:0:114:3972:-317.058,-34.3174,0 1/1:19:0,19:0:0:19:625:-50.6712,-5.71957,0 0/1:12:9,3:9:320:3:108:-4.04901,0,-25.5132 0/1:94:50,44:50:1741:44:1561:-90.8423,0,-128.522 0/1:138:72,66:72:2535:66:2299:-145.269,0,-186.58 0/1:115:63,52:63:2232:52:1834:-116.164,0,-166.228 0/1:306:193,113:193:6872:113:3890:-220.274,0,-525.54 0/1:147:96,51:96:3430:51:1801:-109.783,0,-264.453 0/1:87:57,30:57:2017:30:1067:-61.2724,0,-155.486 0/1:173:74,99:74:2627:99:3391:-230.407,0,-182.738 0/1:95:34,61:34:1203:61:2112:-147.791,0,-79.9553 1/1:79:2,77:2:68:77:2629:-205.503,-17.6601,0 1/1:82:0,82:0:0:82:2844:-235.792,-24.6845,0 chr12 21610788 . AAT CAG,CAA 63714.7 PASS AB=0.413213,0.581453;ABP=162.444,143.447;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1306,1419;CIGAR=1X1M1X,1X1M1X;DP=2742;DPB=2742.67;DPRA=0,1.90121;EPP=2838.95,3066.98;EPPR=5.18177;GTI=1;LEN=3,3;MEANALT=2.47619,2.61111;MQM=42.696,56.7745;MQMR=30;NS=21;NUMALT=2;ODDS=0.965559;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=13.5,13.5;PQR=0;PRO=1;QA=44346,48761;QR=20;RO=1;RPL=725,799;RPP=37.4878,52.0421;RPPR=5.18177;RPR=581,620;RUN=1,1;SAF=725,801;SAP=37.4878,54.258;SAR=581,618;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:162:0,52,110:0:0:52,110:1690,3736:-419.074,-302.367,-286.713,-117.008,0,-83.8945 1/2:142:0,57,85:0:0:57,85:1937,2956:-383.117,-240.564,-223.405,-142.88,0,-117.292 1/2:134:0,44,90:0:0:44,90:1534,3141:-368.593,-255.73,-242.485,-113.191,0,-86.0981 1/2:145:0,59,84:0:0:59,84:2035,2884:-388.137,-234.009,-216.248,-154.226,0,-128.94 1/2:211:0,94,116:0:0:94,116:3151,3961:-553.717,-321.103,-292.807,-232.578,0,-197.658 1/2:114:0,37,76:0:0:37,76:1274,2659:-303.134,-216.085,-204.947,-87.0519,0,-64.1736 1/2:168:0,75,92:0:0:75,92:2551,3190:-436.468,-259.008,-236.431,-177.567,0,-149.872 1/2:157:0,58,99:0:0:58,99:2009,3406:-414.932,-276.246,-258.787,-139.001,0,-109.199 1/1:120:0,119,0:0:0:119,0:4114,0:-330.485,-35.8226,0,-330.485,-35.8226,-330.485 1/1:20:0,20,0:0:0:20,0:648,0:-51.9426,-6.0206,0,-51.9426,-6.0206,-51.9426 1/2:14:0,4,10:0:0:4,10:129,353:-37.3173,-29.0807,-27.8766,-8.52514,0,-5.51484 1/2:97:0,43,54:0:0:43,54:1492,1822:-249.839,-147.822,-134.878,-102.332,0,-86.0765 1/2:144:0,65,76:0:0:65,76:2214,2560:-367.779,-207.27,-187.703,-160.501,0,-137.622 1/2:119:0,52,67:0:0:52,67:1711,2295:-314.286,-186.287,-170.633,-128.321,0,-108.152 1/2:312:1,115,196:1:20:115,196:3882,6758:-825.716,-547.03,-513.872,-277.647,0,-220.107 1/2:147:0,51,96:0:0:51,96:1779,3335:-408.987,-271.35,-255.997,-137.975,0,-109.077 1/2:87:0,29,57:0:0:29,57:1010,1924:-230.348,-155.93,-147.2,-74.4955,0,-57.3368 1/2:183:0,105,75:0:0:105,75:3575,2572:-472.112,-208.066,-176.458,-264.018,0,-241.44 1/2:101:0,67,34:0:0:67,34:2279,1147:-264.642,-93.2793,-73.1103,-171.693,0,-161.458 1/1:84:0,80,2:0:0:80,2:2598,62:-212.678,-24.0824,0,-207.93,-19.34,-207.328 1/1:81:0,80,0:0:0:80,0:2734,0:-227.087,-24.0824,0,-227.087,-24.0824,-227.087 chr12 21859953 . CA TG,CG 16050 PASS AB=0.501462,0.498538;ABP=3.023,3.023;AC=25,17;AF=0.595238,0.404762;AN=42;AO=453,342;CIGAR=2X,1M1X;DP=795;DPB=795.5;DPRA=0,1.48958;EPP=986.687,745.654;EPPR=0;GTI=0;LEN=2,1;MEANALT=1.85714,2;MQM=59.9845,59.883;MQMR=0;NS=21;NUMALT=2;ODDS=1.48639;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=16114,12234;QR=0;RO=0;RPL=0,0;RPP=986.687,745.654;RPPR=0;RPR=453,342;RUN=1,1;SAF=453,342;SAP=986.687,745.654;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:52:0,22,30:0:0:22,30:781,1068:-151.035,-87.4012,-80.7785,-63.9894,0,-54.9585 1/2:43:0,29,14:0:0:29,14:1025,489:-123.591,-40.1107,-31.3808,-83.8307,0,-79.6163 1/2:43:0,28,15:0:0:28,15:989,536:-124.597,-44.0594,-35.6305,-80.8935,0,-76.378 1/2:36:0,18,18:0:0:18,18:644,648:-105.119,-52.6035,-47.185,-52.8723,0,-47.4537 1/2:33:0,11,22:0:0:11,22:396,784:-96.5741,-64.2613,-60.9499,-32.6714,0,-26.0488 1/2:74:0,36,38:0:0:36,38:1294,1364:-217.189,-111.622,-100.784,-105.927,0,-94.4877 1/2:33:0,10,23:0:0:10,23:358,828:-97.1146,-67.9204,-64.9101,-29.5526,0,-22.6289 1/2:43:0,19,24:0:0:19,24:668,860:-124.868,-70.4971,-64.7775,-54.7257,0,-47.501 1/1:58:0,58,0:0:0:58,0:2078,0:-187.29,-17.4597,0,-187.29,-17.4597,-187.29 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:9:0,8,1:0:0:8,1:284,36:-26.4333,-3.29724,-0.889005,-23.4953,0,-23.1943 1/2:17:0,8,9:0:0:8,9:288,324:-50.2959,-26.7966,-24.3883,-23.8592,0,-21.1499 1/2:25:0,14,11:0:0:14,11:500,396:-73.4348,-32.6714,-28.457,-41.122,0,-37.8106 1/2:43:0,26,17:0:0:26,17:891,608:-122.256,-49.9345,-42.1077,-72.6726,0,-67.5551 1/2:91:0,39,52:0:0:39,52:1385,1864:-265.177,-152.327,-140.587,-113.148,0,-97.4948 1/2:47:0,25,22:0:0:25,22:889,773:-135.716,-63.2668,-55.7411,-72.8023,0,-66.1796 1/2:34:0,17,17:0:0:17,17:610,612:-100.052,-50.2959,-45.1784,-50.1153,0,-44.9978 1/2:38:0,16,22:0:0:16,22:563,792:-110.81,-64.983,-60.1665,-46.1819,0,-39.5592 1/2:23:0,17,6:0:0:17,6:612,216:-67.9204,-17.9843,-12.8668,-50.2959,0,-48.4897 1/1:17:0,17,0:0:0:17,0:612,0:-55.4088,-5.11751,0,-55.4088,-5.11751,-55.4088 1/1:31:0,30,1:0:0:30,1:1067,36:-95.9812,-9.0309,0,-93.0437,-5.73366,-92.7427 chr12 21901460 . C A 10294.5 PASS AB=0.484639;ABP=5.67878;AC=16;AF=0.380952;AN=42;AO=631;CIGAR=1X;DP=1610;DPB=1610;DPRA=1.32102;EPP=1373.21;EPPR=2126.71;GTI=0;LEN=1;MEANALT=1;MQM=47.2393;MQMR=59.2679;NS=21;NUMALT=1;ODDS=4.14362;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22610;QR=34810;RO=978;RPL=631;RPP=1373.21;RPPR=2126.71;RPR=0;RUN=1;SAF=0;SAP=1373.21;SAR=631;SRF=0;SRP=2126.71;SRR=978;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:53:26,27:26:902:27:972:-71.333,0,-65.5302 0/1:45:17,28:17:612:28:1008:-75.5436,0,-41.8425 0/1:96:56,40:56:1974:40:1432:-99.235,0,-149.025 0/1:95:48,47:48:1720:47:1692:-123.131,0,-126.474 0/1:115:63,52:63:2256:52:1845:-130.297,0,-168.464 0/1:115:54,61:54:1921:61:2188:-158.738,0,-138.276 0/1:149:88,61:88:3119:61:2183:-147.568,0,-235.977 0/1:106:39,67:39:1381:67:2408:-181.2,0,-92.6684 0/0:169:169,0:169:5993:0:0:0,-50.8741,-538.248 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:32:16,16:16:572:16:576:-41.8266,0,-42.1712 0/1:124:70,54:70:2501:54:1940:-136.619,0,-187.999 0/1:76:44,32:44:1538:32:1140:-79.3611,0,-115.819 0/1:116:57,59:57:2033:59:2108:-153.461,0,-147.602 0/1:34:14,20:14:504:20:720:-54.609,0,-35.4622 0/1:46:23,23:23:828:23:818:-59.8308,0,-60.9661 0/1:59:26,33:26:932:33:1184:-87.8954,0,-66.4243 0/1:41:30,11:30:1072:11:396:-23.4454,0,-84.4398 0/0:88:88,0:88:3156:0:0:0,-26.4906,-283.571 0/0:35:34,0:34:1220:0:0:0,-10.235,-109.653 chr12 21971007 . GT TA,GA 107440 PASS AB=0.548207,0.451205;ABP=71.6804,73.3655;AC=25,17;AF=0.595238,0.404762;AN=42;AO=2596,1538;CIGAR=2X,1M1X;DP=4136;DPB=4136.5;DPRA=0,2.79719;EPP=5640.15,3342.73;EPPR=0;GTI=0;LEN=2,1;MEANALT=2,2.10526;MQM=53.5297,55.2139;MQMR=0;NS=21;NUMALT=2;ODDS=43.7333;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=91105,54764;QR=0;RO=0;RPL=1380,829;RPP=25.508,23.3414;RPPR=0;RPR=1216,709;RUN=1,1;SAF=1380,829;SAP=25.508,23.3414;SAR=1216,709;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:259:0,126,133:0:0:126,133:4387,4739:-739.373,-385.036,-347.107,-354.686,0,-314.649 1/2:169:0,102,67:0:0:102,67:3584,2359:-482.585,-191.957,-161.252,-290.978,0,-270.809 1/2:154:0,77,77:0:0:77,77:2676,2764:-441.644,-225.161,-201.982,-216.835,0,-193.656 1/2:207:0,112,95:0:0:112,95:3961,3382:-595.706,-274.47,-240.755,-321.588,0,-292.991 1/2:401:0,208,193:0:0:208,193:7273,6861:-1142.14,-556.921,-494.306,-585.572,0,-527.474 1/2:219:0,117,102:0:0:117,102:4112,3604:-625.948,-292.777,-257.556,-333.163,0,-302.458 1/2:322:0,188,134:0:0:188,134:6575,4780:-917.448,-388.506,-331.912,-529.294,0,-488.956 1/2:197:0,112,85:0:0:112,85:3877,3056:-561.277,-248.906,-215.191,-312.723,0,-287.135 1/1:314:0,313,1:0:0:313,1:11052,36:-989.842,-94.2224,0,-986.918,-90.9404,-986.617 1/1:32:0,32,0:0:0:32,0:1109,0:-99.5283,-9.63296,0,-99.5283,-9.63296,-99.5283 1/2:16:0,6,10:0:0:6,10:203,356:-45.5543,-29.3225,-27.5163,-16.574,0,-13.5637 1/2:66:0,27,39:0:0:27,39:940,1392:-189.739,-113.646,-105.519,-76.4433,0,-64.7031 1/2:243:0,143,100:0:0:143,100:5032,3573:-698.535,-290.728,-247.681,-408.16,0,-378.057 1/2:196:0,120,74:0:0:120,74:4218,2632:-555.867,-213.824,-177.701,-342.036,0,-319.76 1/2:290:0,138,152:0:0:138,152:4839,5421:-833.206,-441.374,-399.832,-392.184,0,-346.428 1/2:155:0,86,69:0:0:86,69:3028,2472:-446.361,-201.065,-175.177,-245.65,0,-224.879 1/2:155:0,81,74:0:0:81,74:2837,2640:-444.37,-215.18,-190.797,-229.542,0,-207.265 1/2:178:0,98,80:0:0:98,80:3435,2826:-506.299,-229.417,-199.916,-277.232,0,-253.15 1/2:175:0,124,51:0:0:124,51:4404,1799:-503.593,-146.405,-109.078,-357.54,0,-342.187 1/1:270:0,268,2:0:0:268,2:9364,72:-837.162,-80.676,0,-831.287,-74.4414,-830.685 1/1:118:0,118,0:0:0:118,0:4199,0:-376.394,-35.5215,0,-376.394,-35.5215,-376.394 chr12 21974607 . A T 6401.87 PASS AB=0.380389;ABP=150.019;AC=17;AF=0.404762;AN=42;AO=452;CIGAR=1X;DP=1488;DPB=1488;DPRA=1.04902;EPP=984.516;EPPR=2252.66;GTI=0;LEN=1;MEANALT=1;MQM=59.8518;MQMR=59.9749;NS=21;NUMALT=1;ODDS=0.242895;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16031;QR=37154;RO=1036;RPL=0;RPP=984.516;RPPR=2252.66;RPR=452;RUN=1;SAF=0;SAP=984.516;SAR=452;SRF=0;SRP=2252.66;SRR=1036;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:56,22:56:2012:22:788:-47.7645,0,-157.873 0/1:22:9,13:9:324:13:464:-35.4666,0,-22.8832 0/1:116:86,30:86:3080:30:1076:-62.2334,0,-242.509 0/1:71:37,34:37:1332:34:1183:-85.3976,0,-98.8093 0/1:95:47,48:47:1683:48:1712:-125.768,0,-123.158 0/1:35:16,19:16:576:19:680:-50.9849,0,-41.6389 0/1:96:53,43:53:1904:43:1516:-107.829,0,-142.739 0/1:151:120,31:120:4316:31:1112:-54.9358,0,-343.159 0/0:161:161,0:161:5761:0:0:0,-48.4658,-518.604 0/0:13:13,0:13:459:0:0:0,-3.91339,-41.6441 0/1:4:1,3:1:36:3:108:-8.86261,0,-2.39415 0/1:36:20,16:20:720:16:572:-40.9763,0,-54.2917 0/1:182:120,62:120:4299:62:2212:-144.529,0,-332.297 0/1:42:22,20:22:788:20:720:-52.4855,0,-58.6015 0/1:76:43,33:43:1540:33:1149:-80.8356,0,-116.015 0/1:20:9,11:9:324:11:388:-29.2368,0,-23.4853 0/1:54:19,35:19:684:35:1226:-94.3841,0,-45.6347 0/1:49:30,19:30:1080:19:661:-45.0611,0,-82.7628 0/1:56:45,11:45:1620:11:396:-19.1168,0,-129.232 0/0:101:99,2:99:3540:2:68:0,-23.9463,-312.341 0/0:30:30,0:30:1076:0:0:0,-9.0309,-97.1496 chr12 21974627 . A G 17001.5 PASS AB=0.568123;ABP=50.0514;AC=23;AF=0.547619;AN=42;AO=926;CIGAR=1X;DP=1450;DPB=1450;DPRA=18.075;EPP=2005.12;EPPR=1110.61;GTI=1;LEN=1;MEANALT=1.1;MQM=59.9546;MQMR=59.8352;NS=21;NUMALT=1;ODDS=1.72993;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32775;QR=18695;RO=522;RPL=925;RPP=2005.12;RPPR=1110.61;RPR=1;RUN=1;SAF=0;SAP=2013.79;SAR=926;SRF=0;SRP=1136.52;SRR=522;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:78:35,43:35:1256:43:1528:-114.333,0,-89.8649 0/1:23:14,9:14:485:9:320:-22.2187,0,-37.0451 0/1:116:32,83:32:1139:83:2941:-229.946,0,-67.8402 0/1:69:37,32:37:1332:32:1135:-81.687,0,-99.409 0/1:94:52,42:52:1864:42:1491:-106.187,0,-139.743 0/1:35:19,15:19:684:15:520:-36.6449,0,-51.4094 0/1:90:44,46:44:1580:46:1631:-119.985,0,-115.377 0/1:147:33,114:33:1184:114:4010:-316.351,0,-62.6169 1/1:155:8,147:8:288:147:5226:-444.214,-20.3922,0 0/1:13:4,9:4:144:9:309:-24.2273,0,-9.40023 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3052 0/1:36:22,14:22:792:14:504:-34.861,0,-60.7686 0/1:179:71,108:71:2527:108:3829:-290.92,0,-173.769 0/1:34:21,13:21:756:13:439:-29.5984,0,-58.1322 0/1:78:35,43:35:1256:43:1503:-112.082,0,-89.7782 0/1:21:17,4:17:612:4:135:-6.16088,0,-49.0918 0/1:53:37,16:37:1328:16:567:-35.4061,0,-103.868 0/1:48:18,30:18:648:30:1058:-81.081,0,-44.2024 0/1:53:11,42:11:392:42:1504:-119.7,0,-19.6572 1/1:97:6,91:6:212:91:3243:-272.667,-9.77511,0 1/1:27:2,25:2:72:25:882:-72.8692,-1.29968,0 chr12 21974630 . C G 6423.68 PASS AB=0.381074;ABP=147.111;AC=17;AF=0.404762;AN=42;AO=450;CIGAR=1X;DP=1476;DPB=1476;DPRA=1.05721;EPP=980.173;EPPR=2230.94;GTI=1;LEN=1;MEANALT=1;MQM=59.8267;MQMR=59.9454;NS=21;NUMALT=1;ODDS=0.410439;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16027;QR=36621;RO=1026;RPL=450;RPP=980.173;RPPR=2230.94;RPR=0;RUN=1;SAF=0;SAP=980.173;SAR=450;SRF=0;SRP=2230.94;SRR=1026;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:81:55,26:55:1961:26:913:-58.1006,0,-152.38 0/1:22:9,13:9:324:13:456:-34.7506,0,-22.8832 0/1:118:86,32:86:3084:32:1133:-66.7551,0,-242.266 0/1:70:37,33:37:1305:33:1175:-84.9846,0,-96.6773 0/1:94:47,47:47:1692:47:1684:-123.55,0,-124.27 0/1:36:16,20:16:561:20:707:-53.1165,0,-39.98 0/1:94:51,43:51:1801:43:1530:-109.684,0,-134.073 0/1:150:122,28:122:4349:28:1008:-45.8819,0,-345.938 0/0:160:160,0:160:5702:0:0:0,-48.1648,-513.297 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:4:1,3:1:36:3:104:-8.49024,0,-2.39415 0/1:34:20,14:20:705:14:504:-35.4631,0,-53.5378 0/1:180:119,61:119:4260:61:2192:-143.332,0,-329.388 0/1:36:20,16:20:716:16:560:-39.8917,0,-53.9306 0/1:76:42,34:42:1508:34:1204:-85.7507,0,-113.136 0/1:20:10,10:10:360:10:360:-26.7237,0,-26.7237 0/1:55:18,37:18:648:37:1324:-102.905,0,-42.0952 0/1:49:30,19:30:1076:19:669:-45.7835,0,-82.4024 0/1:54:43,11:43:1540:11:396:-19.7189,0,-122.637 0/0:102:99,3:99:3533:3:108:0,-20.6299,-308.095 0/0:28:28,0:28:996:0:0:0,-8.42884,-89.9549 chr12 22018029 . ACC ACG 12805.5 PASS AB=0.470186;ABP=10.9087;AC=26;AF=0.619048;AN=42;AO=700;CIGAR=2M1X;DP=1249;DPB=1249;DPRA=0;EPP=1514.37;EPPR=1175.62;GTI=1;LEN=1;MEANALT=1.09524;MQM=57.8571;MQMR=59.9136;NS=21;NUMALT=1;ODDS=1.44026;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24959;QR=18691;RO=544;RPL=699;RPP=1514.37;RPPR=1175.62;RPR=1;RUN=1;SAF=700;SAP=1523.04;SAR=0;SRF=544;SRP=1184.29;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:68:31,37:31:1070:37:1313:-97.9587,0,-76.1365 0/1:40:26,14:26:885:14:504:-33.6569,0,-67.918 0/1:56:30,26:30:1033:26:930:-67.1376,0,-76.419 0/1:79:42,37:42:1421:37:1332:-96.365,0,-104.292 0/1:150:74,76:74:2552:76:2716:-199.429,0,-184.777 0/1:33:15,18:15:515:18:644:-48.3566,0,-36.741 0/1:65:36,29:36:1236:29:1024:-72.9038,0,-91.9732 0/1:89:45,43:45:1545:43:1544:-110.941,0,-112.53 1/1:52:0,48:0:0:48:1715:-154.239,-14.4494,0 1/1:6:0,6:0:0:6:216:-19.7151,-1.80618,0 1/1:10:1,9:1:28:9:324:-26.7061,-0.210573,0 0/1:12:7,5:7:247:5:176:-12.5686,0,-18.9605 0/1:45:21,24:21:740:24:864:-63.9554,0,-53.3771 0/1:65:29,36:29:974:36:1288:-96.5049,0,-68.3959 0/1:93:60,33:60:2046:33:1158:-76.4986,0,-156.414 0/1:46:21,25:21:720:25:892:-66.7237,0,-51.2693 0/1:69:43,26:43:1488:26:919:-62.0956,0,-113.438 0/1:68:47,21:47:1640:21:756:-47.6024,0,-127.415 0/1:45:14,31:14:479:31:1079:-83.8443,0,-29.8886 1/1:135:2,133:2:72:133:4754:-421.055,-33.8023,0 1/1:23:0,23:0:0:23:811:-73.31,-6.92369,0 chr12 22018043 . A T 12401.8 PASS AB=0.469844;ABP=11.1301;AC=25;AF=0.595238;AN=42;AO=688;CIGAR=1X;DP=1235;DPB=1235;DPRA=0;EPP=1496.98;EPPR=1186.46;GTI=0;LEN=1;MEANALT=1.09524;MQM=57.9012;MQMR=59.9101;NS=21;NUMALT=1;ODDS=3.79582;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24421;QR=19530;RO=545;RPL=688;RPP=1496.98;RPPR=1186.46;RPR=0;RUN=1;SAF=688;SAP=1496.98;SAR=0;SRF=545;SRP=1186.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:30,35:30:1080:35:1252:-93.3802,0,-77.9463 0/1:38:24,14:24:852:14:504:-34.259,0,-65.5612 0/1:57:31,26:31:1116:26:936:-67.3756,0,-83.593 0/1:77:42,35:42:1508:35:1260:-90.492,0,-112.407 0/1:152:75,77:75:2692:77:2760:-202.783,0,-196.768 0/1:34:15,18:15:536:18:631:-46.8215,0,-38.2812 0/1:65:35,30:35:1256:30:1046:-74.8814,0,-93.7783 0/1:87:46,41:46:1652:41:1453:-104.745,0,-122.743 1/1:50:0,50:0:0:50:1777:-160.108,-15.0515,0 1/1:6:0,6:0:0:6:216:-19.7151,-1.80618,0 0/1:10:1,9:1:36:9:309:-25.1304,0,-0.587975 0/1:11:7,4:7:252:4:144:-9.99857,0,-19.7176 0/1:45:21,24:21:756:24:834:-61.2527,0,-54.8209 0/1:69:31,37:31:1116:37:1282:-94.6796,0,-79.9201 0/1:92:60,32:60:2144:32:1152:-76.2584,0,-165.533 0/1:46:21,25:21:752:25:900:-67.4439,0,-54.1589 0/1:67:43,24:43:1540:24:837:-55.4269,0,-118.723 0/1:67:47,20:47:1666:20:704:-43.3645,0,-130.056 0/1:46:14,32:14:504:32:1123:-87.506,0,-31.8507 1/1:127:2,125:2:72:125:4441:-392.91,-31.3941,0 1/1:24:0,24:0:0:24:860:-77.7218,-7.22472,0 chr12 22018049 . G A 9082.14 PASS AB=0.517874;ABP=5.88252;AC=17;AF=0.404762;AN=42;AO=538;CIGAR=1X;DP=1253;DPB=1253;DPRA=2.38008;EPP=1171.26;EPPR=1553.44;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.9089;MQMR=57.8361;NS=21;NUMALT=1;ODDS=2.38;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19236;QR=25404;RO=714;RPL=538;RPP=1171.26;RPPR=1553.44;RPR=0;RUN=1;SAF=538;SAP=1171.26;SAR=0;SRF=714;SRP=1553.44;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:67:38,29:38:1356:29:1032:-73.0239,0,-102.131 0/1:39:14,25:14:504:25:894:-69.04,0,-33.9579 0/1:57:26,31:26:932:31:1116:-83.593,0,-67.0155 0/1:79:37,42:37:1328:42:1504:-111.445,0,-96.0054 0/1:154:82,72:82:2932:72:2584:-186.45,0,-217.652 0/1:31:16,15:16:576:15:532:-38.8812,0,-42.8431 0/1:66:30,36:30:1072:36:1296:-97.076,0,-76.9245 0/1:90:44,46:44:1543:46:1656:-122.2,0,-111.263 0/0:54:54,0:54:1886:0:0:0,-16.2556,-169.914 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7151 0/1:10:9,1:9:324:1:36:-0.587975,0,-26.4956 0/1:12:5,7:5:180:7:252:-19.4166,0,-12.9351 0/1:43:22,21:22:788:21:756:-55.4229,0,-57.7243 0/1:68:39,29:39:1375:29:1036:-73.0826,0,-103.42 0/1:92:33,59:33:1176:59:2112:-162.654,0,-78.4226 0/1:46:25,21:25:878:21:748:-53.7979,0,-65.4615 0/1:68:26,42:26:928:42:1491:-114.013,0,-63.2082 0/1:68:22,46:22:779:46:1624:-125.975,0,-49.9384 0/1:45:31,14:31:1108:14:495:-31.3367,0,-86.4594 0/0:136:133,2:133:4744:2:72:0,-34.1622,-420.149 0/0:22:22,0:22:779:0:0:0,-6.62266,-70.4321 chr12 22033775 . C T 18628.4 PASS AB=0.502439;ABP=3.06326;AC=29;AF=0.690476;AN=42;AO=1105;CIGAR=1X;DP=1716;DPB=1716;DPRA=0.84375;EPP=1612.5;EPPR=890.857;GTI=1;LEN=1;MEANALT=1.1;MQM=24.5946;MQMR=26.2299;NS=21;NUMALT=1;ODDS=1.32402;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39452;QR=21758;RO=609;RPL=495;RPP=28.9992;RPPR=22.0116;RPR=610;RUN=1;SAF=595;SAP=17.2084;SAR=510;SRF=323;SRP=7.89166;SRR=286;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:39,44:39:1388:44:1580:-72.9543,0,-63.7693 0/1:56:26,30:26:928:30:1076:-45.6247,0,-41.657 0/1:48:30,18:30:1072:18:644:-24.7905,0,-55.8366 0/1:72:36,36:36:1283:36:1288:-57.2037,0,-61.7985 0/1:137:75,62:75:2661:62:2216:-94.2489,0,-133.793 0/1:70:41,29:41:1472:29:1025:-40.8182,0,-71.2064 1/1:97:2,94:2:72:94:3357:-188.552,-24.4214,0 0/0:96:96,0:96:3431:0:0:0,-28.8989,-223.462 0/1:177:90,87:90:3232:87:3093:-139.842,0,-156.457 0/1:5:3,2:3:108:2:72:-3.18047,0,-5.74313 1/1:8:0,8:0:0:8:280:-17.0637,-2.40824,0 1/1:20:0,20:0:0:20:697:-44.1239,-6.0206,0 1/1:52:1,51:1:36:51:1790:-110.319,-13.005,0 0/1:85:50,35:50:1779:35:1252:-51.7452,0,-90.7634 1/1:119:0,119:0:0:119:4259:-263.6,-35.8226,0 1/1:50:0,50:0:0:50:1781:-109.874,-15.0515,0 1/1:55:1,54:1:36:54:1929:-115.963,-13.9979,0 0/1:145:72,73:72:2572:73:2620:-116.854,0,-124.477 0/1:146:47,99:47:1688:99:3525:-173.187,0,-65.4282 1/1:68:0,68:0:0:68:2436:-149.798,-20.47,0 1/1:126:0,126:0:0:126:4532:-264.229,-37.9298,0 chr12 22041813 . T C 29020 PASS AB=0.527988;ABP=16.5023;AC=25;AF=0.595238;AN=42;AO=1293;CIGAR=1X;DP=2231;DPB=2231;DPRA=0;EPP=30.9573;EPPR=81.5545;GTI=0;LEN=1;MEANALT=1.09524;MQM=39.1323;MQMR=41.7981;NS=21;NUMALT=1;ODDS=8.68986;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46106;QR=33511;RO=936;RPL=711;RPP=30.9573;RPPR=81.5545;RPR=582;RUN=1;SAF=0;SAP=2810.72;SAR=1293;SRF=0;SRP=2035.51;SRR=936;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:24,32:24:864:32:1140:-80.8756,0,-57.6831 0/1:112:44,68:44:1572:68:2431:-168.226,0,-99.1441 0/1:128:61,67:61:2179:67:2400:-168.45,0,-151.929 0/1:136:69,67:69:2436:67:2392:-166.211,0,-170.637 0/1:234:112,122:112:4028:122:4338:-303.7,0,-283.638 0/1:48:23,25:23:828:25:892:-59.1314,0,-55.0956 0/1:137:60,77:60:2133:77:2748:-185.746,0,-138.679 0/1:136:69,67:69:2476:67:2373:-161.057,0,-172.161 1/1:91:0,91:0:0:91:3263:-285.614,-27.3937,0 1/1:14:0,14:0:0:14:504:-42.9422,-4.21442,0 0/1:5:1,4:1:36:4:140:-10.4751,0,-1.88245 0/1:47:15,32:15:540:32:1152:-82.8417,0,-31.9251 0/1:55:23,32:23:828:32:1147:-83.3057,0,-55.7482 0/1:125:58,67:58:2080:67:2387:-167.365,0,-145.793 0/1:200:108,92:108:3847:92:3266:-220.791,0,-277.051 0/1:106:55,50:55:1980:50:1783:-124.269,0,-143.202 0/1:92:44,48:44:1576:48:1717:-123.823,0,-111.454 0/1:280:139,141:139:4996:141:5003:-333.529,0,-347.988 0/1:86:30,56:30:1076:56:1988:-144.82,0,-67.6499 1/1:76:0,75:0:0:75:2666:-223.209,-22.5773,0 1/1:67:1,66:1:36:66:2376:-189.324,-16.87,0 chr12 22111690 . CTTTG CTTTA,TTTTA 59772.2 PASS AB=0.542975,0.454959;ABP=41.8312,45.6537;AC=26,16;AF=0.619048,0.380952;AN=42;AO=1835,1104;CIGAR=4M1X,1X3M1X;DP=2947;DPB=2965.8;DPRA=0,1.24473;EPP=3987.66,2400.32;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.19048,2.33333;MQM=59.9995,59.8505;MQMR=60;NS=21;NUMALT=2;ODDS=10.6485;PAIRED=0,0;PAIREDR=0;PAO=0,94;PQA=0,3340;PQR=0;PRO=0;QA=65495,38874;QR=36;RO=1;RPL=0,0;RPP=3987.66,2400.32;RPPR=5.18177;RPR=1835,1104;RUN=1,1;SAF=0,0;SAP=3987.66,2400.32;SAR=1835,1104;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:127:0,65,62:0:0:65,62:2332,2187:-368.644,-178.427,-158.86,-190.573,0,-171.909 1/2:143:0,85,58:0:0:85,58:3037,2011:-411.409,-163.788,-138.2,-247.973,0,-230.513 1/2:163:0,77,86:0:0:77,86:2735,3015:-468.55,-245.692,-222.512,-223.211,0,-197.323 1/2:199:0,107,91:0:0:107,91:3802,3157:-565.937,-256.119,-223.908,-309.957,0,-282.563 1/2:283:0,165,118:0:0:165,118:5879,4184:-820.42,-341.224,-291.555,-479.551,0,-444.029 1/2:115:0,61,53:0:0:61,53:2183,1856:-328.892,-150.873,-132.511,-178.013,0,-162.058 1/2:158:0,86,72:0:0:86,72:3039,2550:-455.559,-208.061,-182.173,-247.851,0,-226.177 1/2:129:0,59,70:0:0:59,70:2116,2445:-371.824,-199.23,-181.47,-172.948,0,-151.876 1/1:320:0,319,0:0:0:319,0:11413,0:-1026.78,-96.0286,0,-1026.78,-96.0286,-1026.78 1/1:22:0,22,0:0:0:22,0:777,0:-70.2504,-6.62266,0,-70.2504,-6.62266,-70.2504 1/1:6:0,6,0:0:0:6,0:212,0:-19.4248,-1.80618,0,-19.4248,-1.80618,-19.4248 1/2:22:0,13,9:0:0:13,9:468,319:-64.5322,-26.3425,-22.4291,-38.5463,0,-35.837 1/2:284:0,165,117:0:0:165,117:5897,4129:-817.064,-336.249,-286.579,-480.864,0,-445.643 1/2:177:0,89,88:0:0:89,88:3173,3097:-511.049,-252.401,-225.609,-259.002,0,-232.511 1/2:183:0,98,85:0:0:98,85:3482,3028:-530.898,-247.165,-217.664,-284.089,0,-258.501 1/2:148:0,81,67:0:0:81,67:2912,2372:-430.79,-193.216,-168.832,-237.575,0,-217.406 1/2:125:0,77,48:0:0:77,48:2751,1712:-363.856,-139.56,-116.381,-224.296,0,-209.847 1/2:106:0,47,59:0:0:47,59:1667,2073:-304.895,-169.08,-154.932,-136.168,0,-118.407 1/2:58:0,39,18:0:0:39,18:1392,631:-164.824,-51.3379,-39.5977,-113.479,0,-108.061 1/1:129:0,126,2:0:0:126,2:4508,72:-405.542,-37.9298,0,-399.667,-32.0283,-399.065 1/1:50:1,48,1:1:36:48,1:1720,36:-151.487,-11.512,0,-148.851,-11.512,-151.487 chr12 22140749 . T C 16941.8 PASS AB=0.537131;ABP=14.7822;AC=26;AF=0.619048;AN=42;AO=852;CIGAR=1X;DP=1307;DPB=1307;DPRA=0;EPP=1792.8;EPPR=939.602;GTI=0;LEN=1;MEANALT=1;MQM=59.9953;MQMR=60;NS=21;NUMALT=1;ODDS=2.56847;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30506;QR=16197;RO=455;RPL=845;RPP=1792.8;RPPR=939.602;RPR=7;RUN=1;SAF=0;SAP=1853.1;SAR=852;SRF=0;SRP=991.03;SRR=455;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:57:17,40:17:593:40:1432:-112.019,0,-36.536 1/1:13:0,13:0:0:13:468:-42.4596,-3.91339,0 0/1:86:43,43:43:1540:43:1548:-113.722,0,-113.004 0/1:61:28,33:28:1008:33:1180:-88.1452,0,-72.6735 0/1:60:22,38:22:777:38:1349:-103.646,0,-52.1886 0/1:35:18,17:18:648:17:600:-43.7926,0,-48.1158 0/1:61:30,31:30:1061:31:1101:-81.0355,0,-77.4365 0/1:72:48,24:48:1728:24:856:-55.6869,0,-134.131 1/1:165:0,165:0:0:165:5932:-533.985,-49.67,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:24:15,9:15:536:9:324:-22.2811,0,-41.3501 0/1:122:70,52:70:2463:52:1864:-131.314,0,-185.195 0/1:69:33,36:33:1184:36:1296:-96.1729,0,-86.0972 0/1:203:84,119:84:3016:119:4251:-321.661,0,-210.561 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:64:29,35:29:1040:35:1246:-93.1779,0,-74.6484 0/1:50:10,40:10:315:40:1432:-114.126,0,-13.6024 1/1:93:0,93:0:0:93:3327:-299.646,-27.9958,0 1/1:48:0,48:0:0:48:1724:-155.445,-14.4494,0 chr12 22140764 . G A 7452.97 PASS AB=0.464358;ABP=13.8455;AC=16;AF=0.380952;AN=42;AO=456;CIGAR=1X;DP=1301;DPB=1301;DPRA=0.961991;EPP=993.202;EPPR=1835.73;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9739;NS=21;NUMALT=1;ODDS=1.99392;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16370;QR=30210;RO=844;RPL=456;RPP=993.202;RPPR=1835.73;RPR=0;RUN=1;SAF=0;SAP=993.202;SAR=456;SRF=0;SRP=1835.73;SRR=844;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:56:39,17:39:1400:17:608:-38.1943,0,-109.442 0/0:13:13,0:13:460:0:0:0,-3.91339,-41.7354 0/1:85:42,43:42:1512:43:1544:-113.666,0,-110.785 0/1:61:32,29:32:1148:29:1040:-75.5515,0,-85.267 0/1:61:38,23:38:1360:23:828:-56.4813,0,-104.338 0/1:37:18,19:18:644:19:684:-50.7522,0,-47.1525 0/1:63:33,30:33:1163:30:1076:-78.188,0,-86.0112 0/1:72:25,47:25:900:47:1678:-129.633,0,-59.6469 0/0:160:160,0:160:5736:0:0:0,-48.1648,-516.356 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:24:9,15:9:324:15:540:-41.7118,0,-22.2811 0/1:122:53,69:53:1900:69:2480:-186.727,0,-134.516 0/1:69:35,34:35:1252:34:1224:-89.696,0,-92.214 0/1:201:116,85:116:4144:85:3060:-215.121,0,-312.637 0/1:5:3,2:3:108:2:68:-4.95256,0,-8.57002 0/1:7:4,3:4:144:3:108:-7.96796,0,-11.2064 0/1:63:35,28:35:1243:28:1004:-71.711,0,-93.209 0/1:49:40,9:40:1428:9:320:-14.3919,0,-114.067 0/0:93:92,0:92:3300:0:0:0,-27.6948,-297.007 0/0:48:48,0:48:1720:0:0:0,-14.4494,-155.086 chr12 22211115 . C G 27111.1 PASS AB=0.527507;ABP=17.8233;AC=17;AF=0.404762;AN=42;AO=1190;CIGAR=1X;DP=2726;DPB=2726;DPRA=1.02581;EPP=180.64;EPPR=98.0296;GTI=0;LEN=1;MEANALT=1.11111;MQM=59.2622;MQMR=59.9896;NS=21;NUMALT=1;ODDS=12.4917;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42407;QR=54909;RO=1533;RPL=751;RPP=180.64;RPPR=98.0296;RPR=439;RUN=1;SAF=0;SAP=2587.06;SAR=1190;SRF=0;SRP=3331.88;SRR=1533;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:159:85,74:85:3048:74:2642:-189.965,0,-226.681 0/1:96:38,58:38:1364:58:2073:-157.932,0,-94.1618 0/1:166:73,93:73:2607:93:3321:-248.459,0,-184.907 0/1:140:56,84:56:2001:84:3012:-229.071,0,-138.218 0/1:182:86,96:86:3084:96:3434:-253.728,0,-223 0/1:92:42,50:42:1493:50:1761:-131.037,0,-106.968 0/1:199:107,92:107:3836:92:3276:-234.918,0,-285.531 0/1:190:78,112:78:2800:112:4002:-303.004,0,-195.044 0/0:268:267,0:267:9578:0:0:0,-80.375,-861.608 0/0:21:21,0:21:748:0:0:0,-6.32163,-67.6434 0/1:14:12,2:12:428:2:68:-2.23984,0,-34.6444 0/1:69:42,27:42:1504:27:972:-67.0207,0,-114.884 0/1:141:52,89:52:1856:89:3185:-244.4,0,-124.875 0/1:171:70,100:70:2489:100:3550:-267.809,0,-172.725 0/1:201:106,95:106:3781:95:3376:-243.463,0,-279.981 0/1:67:35,32:35:1260:32:1135:-82.2858,0,-93.5365 0/1:81:21,60:21:756:60:2128:-167.354,0,-43.9838 0/1:186:94,92:94:3369:92:3256:-237.248,0,-247.432 0/1:100:66,33:66:2368:33:1180:-76.344,0,-183.216 0/0:91:90,1:90:3236:1:36:0,-23.7955,-287.862 0/0:92:92,0:92:3303:0:0:0,-27.6948,-297.487 chr12 22211130 . T C 19827.2 PASS AB=0.521778;ABP=12.1847;AC=17;AF=0.404762;AN=42;AO=1163;CIGAR=1X;DP=2704;DPB=2704;DPRA=1.00086;EPP=2528.43;EPPR=3347.08;GTI=0;LEN=1;MEANALT=1;MQM=59.172;MQMR=59.9766;NS=21;NUMALT=1;ODDS=14.3207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=41462;QR=54843;RO=1540;RPL=1163;RPP=2528.43;RPPR=3347.08;RPR=0;RUN=1;SAF=0;SAP=2528.43;SAR=1163;SRF=0;SRP=3347.08;SRR=1540;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:86,64:86:3073:64:2281:-160.015,0,-231.638 0/1:72:38,34:38:1368:34:1216:-88.0561,0,-101.747 0/1:168:73,95:73:2575:95:3385:-253.688,0,-181.423 0/1:142:57,85:57:2014:85:3052:-232.135,0,-138.783 0/1:183:88,95:88:3104:95:3393:-249.714,0,-224.494 0/1:91:43,48:43:1518:48:1705:-126.283,0,-109.515 0/1:202:107,95:107:3799:95:3359:-241.184,0,-281.297 0/1:193:77,116:77:2760:116:4127:-313.33,0,-190.543 0/0:274:274,0:274:9723:0:0:0,-82.4822,-874.931 0/0:22:21,0:21:737:0:0:0,-6.32163,-66.2866 0/1:15:12,3:12:428:3:108:-5.55128,0,-34.3434 0/1:69:41,28:41:1442:28:993:-68.9053,0,-109.301 0/1:146:53,93:53:1893:93:3340:-256.771,0,-126.696 0/1:169:70,99:70:2471:99:3499:-263.959,0,-171.763 0/1:201:105,96:105:3765:96:3433:-248.511,0,-278.54 0/1:64:34,30:34:1224:30:1080:-78.2423,0,-91.2011 0/1:76:21,55:21:756:55:1980:-155.459,0,-45.4889 0/1:186:94,92:94:3384:92:3281:-239.488,0,-248.782 0/1:100:66,34:66:2368:34:1194:-77.6557,0,-183.275 0/0:91:90,1:90:3228:1:36:0,-23.7955,-287.143 0/0:90:90,0:90:3213:0:0:0,-27.0927,-289.391 chr12 22211136 . T C 28849.7 PASS AB=0.481732;ABP=9.43657;AC=25;AF=0.595238;AN=42;AO=1546;CIGAR=1X;DP=2696;DPB=2696;DPRA=0;EPP=3360.11;EPPR=2495.86;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9767;MQMR=59.2361;NS=21;NUMALT=1;ODDS=9.27066;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55250;QR=40677;RO=1148;RPL=1546;RPP=3360.11;RPPR=2495.86;RPR=0;RUN=1;SAF=0;SAP=3360.11;SAR=1546;SRF=0;SRP=2495.86;SRR=1148;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:64,86:64:2266:86:3063:-230.741,0,-159.036 0/1:72:34,38:34:1220:38:1364:-101.387,0,-88.4163 0/1:168:95,73:95:3385:73:2608:-184.395,0,-253.772 0/1:142:85,57:85:3007:57:2025:-139.775,0,-228.016 0/1:184:95,88:95:3371:88:3141:-227.615,0,-247.452 0/1:91:48,43:48:1686:43:1544:-111.859,0,-124.572 0/1:199:92,107:92:3214:107:3837:-285.619,0,-229.17 0/1:191:113,78:113:3964:78:2800:-194.743,0,-299.279 1/1:273:0,273:0:0:273:9774:-879.516,-82.1812,0 1/1:22:0,22:0:0:22:754:-68.1715,-6.62266,0 0/1:14:2,12:2:72:12:432:-35.0068,0,-2.61371 0/1:71:28,43:28:987:43:1532:-116.799,0,-67.7637 0/1:143:91,52:91:3219:52:1849:-123.641,0,-246.787 0/1:170:100,70:100:3546:70:2501:-174.163,0,-268.01 0/1:202:96,106:96:3421:106:3741:-276.079,0,-247.204 0/1:65:30,35:30:1080:35:1260:-94.1385,0,-77.9412 0/1:74:53,21:53:1878:21:756:-46.091,0,-146.926 0/1:181:87,94:87:3120:94:3380:-249.928,0,-226.517 0/1:100:34,65:34:1205:65:2332:-179.978,0,-78.5853 1/1:92:1,91:1:36:91:3249:-289.032,-24.0965,0 1/1:92:0,92:0:0:92:3308:-297.937,-27.6948,0 chr12 22392587 . C A 23266.1 PASS AB=0.544244;ABP=24.7233;AC=28;AF=0.666667;AN=42;AO=1178;CIGAR=1X;DP=1761;DPB=1761;DPRA=0;EPP=2552.33;EPPR=1251.67;GTI=0;LEN=1;MEANALT=1;MQM=59.9762;MQMR=60;NS=21;NUMALT=1;ODDS=8.88919;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42088;QR=20588;RO=583;RPL=1177;RPP=2552.33;RPPR=1251.67;RPR=1;RUN=1;SAF=1178;SAP=2561;SAR=0;SRF=583;SRP=1268.98;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:74,42:74:2596:42:1499:-100.278,0,-198.967 0/1:108:58,50:58:2064:50:1796:-129.411,0,-153.52 0/1:79:40,39:40:1406:39:1400:-102.518,0,-103.052 0/1:92:32,60:32:1140:60:2147:-165.802,0,-75.2144 0/1:166:72,94:72:2563:94:3364:-253.005,0,-180.949 0/1:76:39,37:39:1396:37:1322:-96.4035,0,-103.061 0/1:157:63,94:63:2210:94:3346:-254.094,0,-151.9 0/1:54:20,34:20:704:34:1211:-93.0399,0,-47.4289 1/1:160:0,160:0:0:160:5699:-513.028,-48.1648,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 1/1:8:0,8:0:0:8:284:-25.9034,-2.40824,0 0/1:36:19,17:19:658:17:603:-43.7624,0,-48.7042 0/1:113:41,72:41:1451:72:2584:-198.792,0,-96.8688 0/1:87:43,44:43:1517:44:1580:-116.302,0,-110.632 1/1:116:1,115:1:36:115:4129:-368.195,-31.3212,0 1/1:41:0,41:0:0:41:1472:-132.776,-12.3422,0 0/1:52:29,23:29:1014:23:828:-59.1621,0,-75.9164 0/1:53:23,30:23:820:30:1067:-80.3866,0,-58.1679 0/1:88:29,59:29:1013:59:2100:-162.779,0,-64.9887 1/1:88:0,88:0:0:88:3132:-282.105,-26.4906,0 1/1:66:0,66:0:0:66:2345:-211.307,-19.868,0 chr12 22406858 . GGATG CGATC 36438.2 PASS AB=0.679626;ABP=392.282;AC=28;AF=0.666667;AN=42;AO=1832;CIGAR=1X3M1X;DP=2293;DPB=2580.2;DPRA=0;EPP=3981.15;EPPR=975.83;GTI=2;LEN=5;MEANALT=1.47619;MQM=59.6337;MQMR=59.9754;NS=21;NUMALT=1;ODDS=4.05397;PAIRED=0;PAIREDR=0;PAO=1246;PQA=43803;PQR=63;PRO=186;QA=64046;QR=15529;RO=448;RPL=7;RPP=3920.58;RPPR=975.83;RPR=1825;RUN=1;SAF=7;SAP=3920.58;SAR=1825;SRF=0;SRP=975.83;SRR=448;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 0/1:153:25,128:25:878:128:4471:-356.136,0,-32.9331 0/1:104:48,56:48:1655:56:1968:-145.705,0,-117.577 0/1:138:31,106:31:1067:106:3725:-293.86,0,-54.7547 0/1:75:14,61:14:489:61:2122:-168.26,0,-21.4137 0/1:179:63,113:63:2212:113:3961:-303.331,0,-146.018 0/1:78:18,58:18:631:58:2038:-160.434,0,-33.8851 0/1:119:25,94:25:836:94:3253:-256.754,0,-39.3853 1/1:121:11,109:11:396:109:3799:-306.213,-0.478265,0 1/1:267:0,267:0:0:267:9282:-834.984,-80.375,0 1/1:17:0,17:0:0:17:585:-52.7261,-5.11751,0 0/1:9:3,6:3:101:6:216:-17.0455,0,-6.71434 0/1:46:15,31:15:512:31:1096:-84.8661,0,-32.3049 0/1:51:22,29:22:764:29:996:-74.2526,0,-53.3816 0/1:142:72,69:72:2474:69:2424:-175.6,0,-180.133 1/1:191:0,191:0:0:191:6683:-601.198,-57.4967,0 1/1:81:0,81:0:0:81:2837:-255.177,-24.3834,0 0/1:64:18,45:18:616:45:1572:-122.455,0,-36.4519 0/1:129:57,72:57:1986:72:2534:-189.215,0,-139.927 0/1:102:25,76:25:876:76:2700:-212.462,0,-48.4056 1/1:145:0,142:0:0:142:4977:-447.774,-42.7463,0 1/1:82:1,81:1:36:81:2807:-249.237,-21.446,0 chr12 22406886 . T G,C 47035.4 PASS AB=0.684094,0.315169;ABP=402.766,405.97;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1809,439;CIGAR=1X,1X;DP=2251;DPB=2251;DPRA=0,0.764812;EPP=3931.2,956.287;EPPR=9.52472;GTI=2;LEN=1,1;MEANALT=1.71429,2;MQM=59.6263,59.9749;MQMR=60;NS=21;NUMALT=2;ODDS=6.00274;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=64620,15727;QR=108;RO=3;RPL=1809,439;RPP=3931.2,956.287;RPPR=9.52472;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3931.2,956.287;SAR=1809,439;SRF=0;SRP=9.52472;SRR=3;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:150:0,125,25:0:0:125,25:4465,896:-437.372,-73.4346,-35.8059,-364.296,0,-356.77 1/2:101:0,54,47:0:0:54,47:1940,1675:-295.123,-136.887,-120.631,-158.594,0,-144.446 1/2:136:1,105,30:1:36:105,30:3764,1080:-391.852,-85.1851,-56.5144,-304.031,0,-297.937 1/2:73:0,60,13:0:0:60,13:2137,460:-211.941,-37.822,-19.7602,-174.473,0,-170.56 1/2:178:0,115,63:0:0:115,63:4100,2264:-519.158,-185.04,-150.421,-334.476,0,-315.511 1/2:73:0,54,19:0:0:54,19:1944,684:-214.756,-56.1708,-39.9151,-158.945,0,-153.226 1/2:115:0,91,24:0:0:91,24:3235,864:-334.401,-70.8578,-43.4641,-263.902,0,-256.677 1/1:120:0,109,11:0:0:109,11:3863,396:-347.489,-32.8123,0,-315.177,-0.140851,-311.866 1/1:262:0,262,0:0:0:262,0:9363,0:-842.593,-78.8699,0,-842.593,-78.8699,-842.593 1/1:16:1,15,0:1:36:15,0:540,0:-45.3206,-1.21821,0,-45.6216,-4.51545,-48.559 1/2:9:0,6,3:0:0:6,3:216,104:-26.3975,-8.79971,-6.99353,-17.9486,0,-17.0455 1/2:45:0,31,14:0:0:31,14:1099,504:-131.01,-41.4837,-32.1517,-89.8842,0,-85.6698 1/2:48:0,27,21:0:0:27,21:966,752:-140.453,-61.6846,-53.5568,-79.1265,0,-72.8048 1/2:140:0,69,71:0:0:69,71:2456,2540:-407.44,-207.478,-186.707,-200.319,0,-178.946 1/1:190:1,189,0:1:36:189,0:6751,0:-604.035,-53.5974,0,-604.336,-56.8947,-607.273 1/1:80:0,80,0:0:0:80,0:2846,0:-256.37,-24.0824,0,-256.37,-24.0824,-256.37 1/2:63:0,45,18:0:0:45,18:1620,648:-185.415,-53.2333,-39.687,-132.541,0,-127.123 1/2:125:0,71,54:0:0:71,54:2552,1928:-365.715,-157.541,-136.168,-208.532,0,-192.276 1/2:102:0,76,26:0:0:76,26:2732,932:-299.225,-76.3721,-53.4938,-223.211,0,-215.384 1/1:143:0,143,0:0:0:143,0:5100,0:-459.081,-43.0473,0,-459.081,-43.0473,-459.081 1/1:82:0,82,0:0:0:82,0:2931,0:-263.94,-24.6845,0,-263.94,-24.6845,-263.94 chr12 22425803 . CATT TATC,TATT 23648.5 PASS AB=0.414665,0.584071;ABP=53.042,51.5706;AC=27,15;AF=0.642857,0.357143;AN=42;AO=677,463;CIGAR=1X2M1X,1X3M;DP=1141;DPB=1141;DPRA=0,0.888047;EPP=1473.1,1008.4;EPPR=5.18177;GTI=0;LEN=4,1;MEANALT=1.7619,2;MQM=59.7666,59.9525;MQMR=60;NS=21;NUMALT=2;ODDS=4.83678;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=24017,16624;QR=36;RO=1;RPL=677,463;RPP=1473.1,1008.4;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=1473.1,1008.4;SAR=677,463;SRF=0;SRP=5.18177;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:21:0,9,12:0:0:9,12:320,432:-61.6846,-35.6088,-32.8996,-26.4331,0,-22.8207 1/2:13:0,7,6:0:0:7,6:251,216:-38.4476,-17.9843,-15.8771,-20.8224,0,-19.0162 1/2:84:0,32,52:0:0:32,52:1140,1872:-246.024,-153.106,-143.473,-93.2755,0,-77.622 1/2:69:1,40,28:1:36:40,28:1417,1004:-194.075,-78.9498,-69.846,-112.486,0,-106.994 1/2:91:0,36,55:0:0:36,55:1277,1980:-265.946,-161.918,-151.081,-104.385,0,-87.8279 1/2:43:0,19,24:0:0:19,24:670,864:-125.408,-70.8578,-65.1383,-54.9061,0,-47.6814 1/2:61:0,20,41:0:0:20,41:699,1471:-177.201,-120.343,-114.322,-57.2099,0,-44.8677 1/2:77:0,23,54:0:0:23,54:813,1941:-224.886,-158.711,-151.787,-66.5305,0,-50.2749 1/1:152:0,152,0:0:0:152,0:5399,0:-486.034,-45.7566,0,-486.034,-45.7566,-486.034 1/1:9:0,9,0:0:0:9,0:318,0:-28.9604,-2.70927,0,-28.9604,-2.70927,-28.9604 1/2:11:0,6,5:0:0:6,5:205,176:-31.3019,-14.6799,-12.8737,-16.9692,0,-15.464 1/2:34:0,6,28:0:0:6,28:216,1008:-100.229,-82.6075,-80.8013,-17.9812,0,-9.55236 1/2:101:0,43,58:0:0:43,58:1531,2068:-293.71,-168.928,-155.984,-125.138,0,-107.678 1/2:87:0,36,51:0:0:36,51:1283,1828:-254.024,-149.446,-138.609,-104.935,0,-89.583 1/1:88:0,88,0:0:0:88,0:3132,0:-282.093,-26.4906,0,-282.093,-26.4906,-282.093 1/1:13:0,13,0:0:0:13,0:453,0:-41.1013,-3.91339,0,-41.1013,-3.91339,-41.1013 1/2:13:0,7,6:0:0:7,6:248,216:-38.1841,-17.9843,-15.8771,-20.557,0,-18.7508 1/2:36:0,14,22:0:0:14,22:499,792:-105.649,-64.983,-60.7686,-41.0241,0,-34.4014 1/2:50:0,30,20:0:0:30,20:1067,720:-146.06,-59.1082,-50.0773,-87.3099,0,-81.2893 1/1:53:0,52,1:0:0:52,1:1829,36:-164.526,-15.6536,0,-161.588,-12.3563,-161.287 1/1:35:0,35,0:0:0:35,0:1250,0:-112.801,-10.5361,0,-112.801,-10.5361,-112.801 chr12 22430033 . G T 3445.25 PASS AB=0.4082;ABP=44.0747;AC=15;AF=0.357143;AN=42;AO=230;CIGAR=1X;DP=775;DPB=775;DPRA=0.962171;EPP=502.449;EPPR=1186.46;GTI=2;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=1.46746;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8244;QR=19441;RO=545;RPL=0;RPP=502.449;RPPR=1186.46;RPR=230;RUN=1;SAF=230;SAP=502.449;SAR=0;SRF=545;SRP=1186.46;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:40:20,20:20:712:20:720:-53.0876,0,-52.3655 0/1:37:21,16:21:752:16:572:-40.6753,0,-56.8681 0/1:35:23,12:23:809:12:432:-28.6851,0,-62.5923 0/1:22:9,13:9:320:13:464:-35.4748,0,-22.5197 0/1:79:47,32:47:1672:32:1144:-79.4881,0,-126.986 0/1:24:7,17:7:252:17:608:-47.8273,0,-15.8042 0/1:54:34,20:34:1209:20:712:-48.151,0,-92.8585 0/1:40:31,9:31:1097:9:324:-17.4647,0,-86.9968 0/0:35:35,0:35:1260:0:0:0,-10.536,-113.705 0/0:4:4,0:4:140:0:0:0,-1.20412,-12.9446 0/1:4:3,1:3:108:1:36:-2.39415,0,-8.87105 0/1:13:11,2:11:392:2:72:-2.92333,0,-31.7067 0/1:38:15,23:15:525:23:828:-63.405,0,-36.1389 0/1:35:26,9:26:932:9:316:-18.2428,0,-73.6628 0/0:96:96,0:96:3425:0:0:0,-28.8989,-308.463 0/0:21:21,0:21:752:0:0:0,-6.32163,-68.0063 0/1:27:13,14:13:468:14:504:-37.5703,0,-34.3318 0/1:87:54,33:54:1924:33:1188:-81.039,0,-147.247 0/1:26:18,8:18:648:8:288:-18.4406,0,-50.8251 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/0:24:23,1:23:828:1:36:0,-3.62644,-71.2458 chr12 22430300 . G T 4978.55 PASS AB=0.446729;ABP=16.1974;AC=15;AF=0.357143;AN=42;AO=240;CIGAR=1X;DP=773;DPB=773;DPRA=0.865854;EPP=5.94179;EPPR=28.4365;GTI=0;LEN=1;MEANALT=1;MQM=59.9833;MQMR=59.9925;NS=21;NUMALT=1;ODDS=4.72109;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8414;QR=18725;RO=533;RPL=0;RPP=524.164;RPPR=1160.41;RPR=240;RUN=1;SAF=129;SAP=5.94179;SAR=111;SRF=306;SRP=28.4365;SRR=227;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:19,17:19:661:17:580:-41.6828,0,-48.9745 0/1:35:18,17:18:631:17:599:-43.702,0,-46.5796 0/1:13:9,4:9:324:4:144:-9.40023,0,-25.5925 0/1:17:9,8:9:315:8:275:-19.966,0,-23.5697 0/1:56:34,22:34:1212:22:742:-50.2329,0,-92.5286 0/1:27:10,17:10:337:17:600:-46.2014,0,-22.5269 0/1:34:18,16:18:640:16:560:-40.4937,0,-47.6943 0/1:49:30,19:30:1064:19:680:-46.7787,0,-81.3212 0/0:46:46,0:46:1583:0:0:0,-13.8474,-142.753 0/0:8:8,0:8:265:0:0:0,-2.40824,-24.1721 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:6:4,2:4:140:2:72:-5.03054,0,-11.1384 0/1:39:26,13:26:909:13:442:-28.3638,0,-70.3832 0/1:37:16,21:16:557:21:729:-54.7921,0,-39.3175 0/0:70:70,0:70:2473:0:0:0,-21.0721,-222.823 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.7677 0/1:17:9,8:9:324:8:284:-20.7858,0,-24.3883 0/1:95:45,50:45:1577:50:1792:-132.965,0,-113.62 0/1:70:48,22:48:1695:22:771:-48.6382,0,-131.763 0/0:33:32,1:32:1123:1:36:0,-6.33571,-97.7789 0/0:61:61,0:61:2143:0:0:0,-18.3628,-193.135 chr12 22432714 . C G 12298.3 PASS AB=0.411441;ABP=262.621;AC=15;AF=0.357143;AN=42;AO=1569;CIGAR=1X;DP=5490;DPB=5490;DPRA=0.937045;EPP=3410.05;EPPR=8513.01;GTI=3;LEN=1;MEANALT=1.125;MQM=26.5596;MQMR=48.4703;NS=21;NUMALT=1;ODDS=3.59242;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56087;QR=139436;RO=3919;RPL=1442;RPP=2396.23;RPPR=96.6075;RPR=127;RUN=1;SAF=1442;SAP=2396.23;SAR=127;SRF=1754;SRP=96.6075;SRR=2165;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:237:165,72:165:5881:72:2566:-89.3721,0,-443.327 0/1:243:159,84:159:5669:84:2995:-107.092,0,-412.53 0/1:265:166,99:166:5921:99:3552:-137.407,0,-440.749 0/1:348:180,168:180:6419:168:6010:-258.865,0,-438.08 0/1:672:382,290:382:13675:290:10356:-417.951,0,-967.794 0/1:217:84,133:84:2999:133:4775:-209.661,0,-192.549 0/1:351:223,127:223:7939:127:4564:-162.206,0,-579.432 0/1:165:98,67:98:3474:67:2372:-88.9984,0,-254.305 0/0:468:468,0:468:16665:0:0:0,-140.882,-1419.16 0/0:53:53,0:53:1892:0:0:0,-15.9546,-166.452 0/1:5:4,1:4:144:1:36:-0.773716,0,-10.588 0/1:64:48,16:48:1697:16:576:-14.9733,0,-125.924 0/1:260:155,105:155:5518:105:3768:-148.881,0,-386.442 0/1:234:138,96:138:4863:96:3425:-137.659,0,-350.833 0/0:464:464,0:464:16430:0:0:0,-139.678,-1466.16 0/0:253:253,0:253:8998:0:0:0,-76.1606,-757.053 0/1:357:151,206:151:5349:206:7316:-413.139,0,-349.204 0/1:235:163,71:163:5797:71:2552:-75.5636,0,-431.146 0/1:158:125,33:125:4434:33:1188:-22.8265,0,-330.791 0/0:306:305,1:305:10860:1:36:0,-89.8363,-916.263 0/0:135:135,0:135:4812:0:0:0,-40.639,-399.931 chr12 22432731 . A G 43358.2 PASS AB=0.441176;ABP=86.8036;AC=27;AF=0.642857;AN=42;AO=2272;CIGAR=1X;DP=3836;DPB=3836;DPRA=0;EPP=4927.91;EPPR=3394.85;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.3702;MQMR=59.9334;NS=21;NUMALT=1;ODDS=6.47663;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80725;QR=55835;RO=1562;RPL=1;RPP=4927.91;RPPR=3394.85;RPR=2271;RUN=1;SAF=0;SAP=4936.6;SAR=2272;SRF=0;SRP=3394.85;SRR=1562;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:309:195,114:195:6943:114:4067:-272.763,0,-531.913 0/1:242:157,85:157:5597:85:3021:-199.15,0,-430.994 0/1:243:110,133:110:3956:133:4724:-351.75,0,-283.079 0/1:158:101,57:101:3627:57:2015:-133.95,0,-279.066 0/1:392:223,169:223:7986:169:6013:-422.96,0,-600.745 0/1:123:77,46:77:2741:46:1622:-109.187,0,-209.9 0/1:285:147,138:147:5251:138:4882:-353.64,0,-386.934 0/1:183:102,80:102:3656:80:2835:-200.305,0,-274.215 1/1:261:0,261:0:0:261:9293:-836.208,-78.5688,0 1/1:45:0,45:0:0:45:1581:-141.94,-13.5464,0 0/1:15:11,4:11:392:4:144:-8.79817,0,-31.1046 0/1:57:34,23:34:1215:23:815:-56.485,0,-92.497 0/1:166:117,49:117:4196:49:1764:-109.044,0,-327.85 0/1:203:111,92:111:3931:92:3262:-231.143,0,-292.641 1/1:449:0,449:0:0:449:15954:-1434.96,-135.162,0 1/1:126:4,121:4:136:121:4269:-371.709,-25.4091,0 0/1:181:94,87:94:3376:87:3111:-225.453,0,-249.568 0/1:148:44,104:44:1576:104:3686:-287.192,0,-97.5791 0/1:83:34,49:34:1220:49:1748:-132.573,0,-85.0606 1/1:126:1,125:1:36:125:4475:-399.236,-34.3315,0 1/1:41:0,41:0:0:41:1444:-130.236,-12.3422,0 chr12 22432903 . GTTTCCC GTTCCC 52969.2 PASS AB=0.668085;ABP=291.354;AC=29;AF=0.690476;AN=42;AO=2545;CIGAR=1M1D5M;DP=2980;DPB=2613.71;DPRA=0;EPP=5529.41;EPPR=895.485;GTI=1;LEN=1;MEANALT=2;MQM=59.9324;MQMR=59.9173;NS=21;NUMALT=1;ODDS=0.258348;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=17;PQR=17;PRO=0.5;QA=90327;QR=14454;RO=411;RPL=0;RPP=5529.41;RPPR=895.485;RPR=2545;RUN=1;SAF=2545;SAP=5529.41;SAR=0;SRF=411;SRP=895.485;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:95:21,73:21:741:73:2585:-204.242,0,-38.3574 0/1:71:10,61:10:357:61:2157:-173.023,0,-11.0991 0/1:61:16,44:16:565:44:1552:-121.55,0,-32.7599 0/1:86:31,55:31:1089:55:1961:-150.875,0,-72.4315 0/1:209:79,130:79:2711:130:4611:-352.238,0,-180.765 0/1:100:28,71:28:991:71:2542:-198.72,0,-59.4202 0/1:120:29,90:29:1022:90:3200:-252.043,0,-56.1105 0/1:44:16,27:16:556:27:968:-74.2393,0,-37.1669 1/1:131:0,130:0:0:130:4606:-414.398,-39.1339,0 1/1:293:0,289:0:0:289:10285:-925.059,-86.9977,0 1/1:474:4,465:4:143:465:16507:-1471.84,-128.288,0 1/1:452:26,423:26:924:423:14988:-1265.19,-51.9932,0 0/1:168:62,104:62:2204:104:3696:-282.568,0,-148.349 0/1:85:31,53:31:1105:53:1846:-140.878,0,-74.2214 1/1:126:0,125:0:0:125:4427:-398.35,-37.6288,0 1/1:42:0,42:0:0:42:1500:-135.295,-12.6433,0 0/1:40:19,21:19:674:21:752:-55.9641,0,-48.9467 0/1:53:21,32:21:737:32:1129:-85.9618,0,-50.6984 0/1:43:18,24:18:635:24:845:-63.3643,0,-44.4756 1/1:256:0,255:0:0:255:9081:-816.9,-76.7627,0 1/1:31:0,31:0:0:31:1089:-98.3173,-9.33193,0 chr12 22432953 . T A 12637.3 PASS AB=0.312917;ABP=732.629;AC=13;AF=0.309524;AN=42;AO=785;CIGAR=1X;DP=4823;DPB=4823;DPRA=0.907932;EPP=1707.62;EPPR=8771.42;GTI=0;LEN=1;MEANALT=1;MQM=52.0191;MQMR=54.2481;NS=21;NUMALT=1;ODDS=26.7496;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27739;QR=141754;RO=4038;RPL=399;RPP=3.47779;RPPR=711.726;RPR=386;RUN=1;SAF=399;SAP=3.47779;SAR=386;SRF=2593;SRP=711.726;SRR=1445;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:156:124,32:124:4326:32:1135:-54.5577,0,-339.472 0/1:148:116,32:116:4018:32:1135:-56.3943,0,-312.769 0/1:144:98,46:98:3404:46:1584:-98.3834,0,-261.379 0/1:198:131,67:131:4556:67:2360:-151.294,0,-345.401 0/1:478:340,138:340:11853:138:4903:-293.882,0,-912.551 0/1:141:97,44:97:3402:44:1559:-96.273,0,-261.89 0/1:215:153,62:153:5303:62:2187:-130.039,0,-409.166 0/1:156:90,66:90:3170:66:2340:-160.982,0,-234.953 0/0:282:282,0:282:9799:0:0:0,-84.8905,-873.539 0/0:310:310,0:310:10975:0:0:0,-93.3193,-987.159 0/0:476:472,4:472:16829:4:144:0,-129.977,-1500.89 0/0:472:442,30:442:15640:30:1063:0,-46.2386,-1311.22 0/1:262:172,90:172:6044:90:3195:-205.739,0,-462.534 0/1:187:123,64:123:4312:64:2244:-143.675,0,-328.872 0/0:258:258,0:258:9012:0:0:0,-77.6657,-803.952 0/0:86:86,0:86:3018:0:0:0,-25.8886,-269.321 0/1:121:95,26:95:3288:26:924:-46.6926,0,-254.698 0/1:115:59,56:59:2082:56:1966:-139.333,0,-151.69 0/1:79:51,28:51:1787:28:1000:-65.5252,0,-135.624 0/0:478:478,0:478:16787:0:0:0,-143.892,-1499.66 0/0:61:61,0:61:2149:0:0:0,-18.3628,-191.188 chr12 22451067 . A G 14135 PASS AB=0.526818;ABP=8.25134;AC=27;AF=0.642857;AN=42;AO=729;CIGAR=1X;DP=1127;DPB=1127;DPRA=0;EPP=1577.34;EPPR=867.256;GTI=0;LEN=1;MEANALT=1;MQM=59.9973;MQMR=60;NS=21;NUMALT=1;ODDS=11.3091;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25981;QR=13697;RO=398;RPL=728;RPP=1577.34;RPPR=867.256;RPR=1;RUN=1;SAF=729;SAP=1586.01;SAR=0;SRF=398;SRP=867.256;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:22,14:22:732:14:504:-34.861,0,-55.3474 0/1:41:19,22:19:620:22:792:-59.2634,0,-43.7614 0/1:83:51,32:51:1760:32:1152:-79.0047,0,-133.69 0/1:87:35,52:35:1203:52:1859:-141.399,0,-82.3769 0/1:88:47,41:47:1657:41:1438:-103.221,0,-122.925 0/1:23:12,11:12:409:11:392:-28.6964,0,-30.2117 0/1:62:12,50:12:432:50:1792:-142.898,0,-20.5573 0/1:87:49,38:49:1741:38:1349:-95.5195,0,-130.783 1/1:67:1,66:1:36:66:2353:-208.429,-16.5707,0 1/1:11:0,11:0:0:11:384:-34.8933,-3.31133,0 0/1:4:3,1:3:104:1:36:-2.39415,0,-8.49869 0/1:26:8,18:8:269:18:644:-50.4638,0,-16.7093 0/1:40:20,20:20:663:20:716:-52.7265,0,-47.9364 0/1:39:25,14:25:888:14:496:-33.2341,0,-68.4989 1/1:88:0,88:0:0:88:3129:-281.834,-26.4906,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 0/1:33:17,16:17:578:16:576:-42.241,0,-42.4034 0/1:138:61,77:61:2123:77:2735:-204.851,0,-149.792 0/1:52:16,36:16:482:36:1277:-99.5775,0,-28.0127 1/1:65:0,65:0:0:65:2317:-208.79,-19.567,0 1/1:34:0,34:0:0:34:1216:-109.747,-10.235,0 chr12 22457511 . TCAAA TCAAC,ACAAC 51150.5 PASS AB=0.498981,0.496942;ABP=3.02801,3.16967;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1534,975;CIGAR=4M1X,1X3M1X;DP=2522;DPB=2522;DPRA=0,1.40143;EPP=3334.05,2120.2;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=2.09524,2.26667;MQM=59.9628,59.5908;MQMR=60;NS=21;NUMALT=2;ODDS=10.3103;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=54739,34103;QR=29;RO=1;RPL=0,0;RPP=3334.05,2120.2;RPPR=5.18177;RPR=1534,975;RUN=1,1;SAF=1534,975;SAP=3334.05,2120.2;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:274:0,159,115:0:0:159,115:5665,4019:-788.988,-327.236,-279.372,-462.104,0,-427.485 1/2:126:0,47,79:0:0:47,79:1680,2762:-362.008,-225.024,-210.875,-137.339,0,-113.557 1/2:163:0,80,82:0:0:80,82:2856,2859:-465.456,-232.615,-208.532,-232.942,0,-208.258 1/2:83:0,44,39:0:0:44,39:1580,1358:-239.668,-110.775,-97.5296,-129.246,0,-117.506 1/2:220:0,101,118:0:0:101,118:3610,4170:-633.88,-339.535,-309.131,-294.36,0,-258.838 1/2:133:0,59,74:0:0:59,74:2108,2605:-384.155,-212.355,-194.594,-172.155,0,-149.879 1/2:112:0,60,52:0:0:60,52:2140,1838:-324.482,-150.03,-131.969,-174.806,0,-159.153 1/2:226:0,111,115:0:0:111,115:3968,4000:-649.076,-325.531,-292.117,-323.897,0,-289.279 1/1:226:0,225,0:0:0:225,0:8041,0:-723.35,-67.7318,0,-723.35,-67.7318,-723.35 1/1:18:0,18,0:0:0:18,0:634,0:-57.3854,-5.41854,0,-57.3854,-5.41854,-57.3854 1/2:7:0,2,5:0:0:2,5:72,179:-20.8306,-14.9552,-14.3532,-6.23466,0,-4.72951 1/2:35:0,17,18:0:0:17,18:608,643:-102.357,-52.7797,-47.6621,-49.9345,0,-44.516 1/2:140:0,72,68:0:0:72,68:2567,2343:-399.898,-190.644,-168.97,-209.604,0,-189.134 1/2:184:0,99,83:0:0:99,83:3499,2856:-516.92,-231.946,-202.144,-285.036,0,-260.05 1/1:126:0,123,0:0:0:123,0:4385,0:-394.48,-37.0267,0,-394.48,-37.0267,-394.48 1/1:87:0,87,0:0:0:87,0:3132,0:-282.105,-26.1896,0,-282.105,-26.1896,-282.105 1/2:113:0,42,68:0:0:42,68:1478,2379:-313.777,-193.459,-180.816,-120.31,0,-99.84 1/2:67:0,38,29:0:0:38,29:1360,1025:-194.732,-83.8259,-72.3867,-111.261,0,-102.532 1/2:79:1,48,30:1:29:48,30:1720,1067:-224.691,-84.7123,-72.5694,-138.037,0,-131.314 1/1:54:0,54,0:0:0:54,0:1920,0:-173.077,-16.2556,0,-173.077,-16.2556,-173.077 1/1:49:0,48,0:0:0:48,0:1716,0:-154.471,-14.4494,0,-154.471,-14.4494,-154.471 chr12 22459156 . T C 25709.1 PASS AB=0.546431;ABP=27.4098;AC=27;AF=0.642857;AN=42;AO=1312;CIGAR=1X;DP=1908;DPB=1908;DPRA=0;EPP=2851.98;EPPR=1290.69;GTI=1;LEN=1;MEANALT=1.09524;MQM=59.779;MQMR=59.6324;NS=21;NUMALT=1;ODDS=2.86853;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46410;QR=21056;RO=593;RPL=0;RPP=2851.98;RPPR=1290.69;RPR=1312;RUN=1;SAF=0;SAP=2851.98;SAR=1312;SRF=0;SRP=1290.69;SRR=593;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:46,57:46:1628:57:2014:-150.155,0,-115.485 0/1:76:39,37:39:1387:37:1320:-96.2237,0,-102.25 0/1:67:30,37:30:1072:37:1306:-97.6003,0,-76.2507 0/1:71:34,37:34:1189:37:1319:-97.638,0,-85.9023 0/1:184:83,101:83:2963:101:3576:-266.651,0,-211.267 0/1:127:42,84:42:1487:84:2971:-229.32,0,-95.8343 0/1:114:62,52:62:2215:52:1814:-129.184,0,-165.155 0/1:102:43,59:43:1528:59:2107:-159.192,0,-107.108 1/1:173:0,173:0:0:173:6104:-549.212,-52.0782,0 1/1:20:0,20:0:0:20:716:-64.7677,-6.0206,0 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:30:15,15:15:528:15:536:-39.5439,0,-38.8205 0/1:116:47,69:47:1684:69:2449:-185.743,0,-116.928 0/1:118:51,67:51:1811:67:2387:-179.51,0,-127.748 1/1:219:2,215:2:68:215:7609:-678.371,-59.2157,0 1/1:75:0,75:0:0:75:2644:-238.182,-22.5773,0 0/1:77:42,35:42:1482:35:1252:-89.8039,0,-109.12 0/1:69:42,27:42:1483:27:950:-65.0424,0,-112.993 0/1:42:12,30:12:423:30:1052:-82.3445,0,-25.7618 1/1:85:1,84:1:36:84:2975:-264.378,-21.9893,0 1/1:33:0,33:0:0:33:1129:-101.91,-9.93399,0 chr12 22459178 . C T 10461.5 PASS AB=0.469585;ABP=13.8419;AC=15;AF=0.357143;AN=42;AO=634;CIGAR=1X;DP=1961;DPB=1961;DPRA=0.852543;EPP=1371.05;EPPR=2839.12;GTI=0;LEN=1;MEANALT=1;MQM=59.6372;MQMR=59.7534;NS=21;NUMALT=1;ODDS=4.23424;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22712;QR=47220;RO=1326;RPL=633;RPP=1371.05;RPPR=2839.12;RPR=1;RUN=1;SAF=0;SAP=1379.72;SAR=634;SRF=0;SRP=2882.38;SRR=1326;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:58,49:58:2067:49:1760:-126.156,0,-153.091 0/1:78:36,42:36:1272:42:1508:-112.534,0,-91.3025 0/1:69:35,34:35:1244:34:1220:-88.9625,0,-91.4936 0/1:75:39,36:39:1396:36:1273:-92.2845,0,-103.362 0/1:190:105,85:105:3721:85:3056:-217.8,0,-277.864 0/1:136:87,49:87:3091:49:1741:-116.032,0,-237.439 0/1:118:50,68:50:1788:68:2435:-183.762,0,-125.645 0/1:108:59,49:59:2105:49:1764:-126.533,0,-157.2 0/0:175:174,0:174:6193:0:0:0,-52.3792,-556.983 0/0:20:20,0:20:697:0:0:0,-6.0206,-63.0507 0/1:8:5,3:5:180:3:108:-7.66693,0,-14.1438 0/1:28:14,14:14:504:14:504:-37.2693,0,-37.2693 0/1:116:67,49:67:2395:49:1764:-124.124,0,-180.886 0/1:122:69,53:69:2424:53:1908:-135.27,0,-181.64 0/0:219:219,0:219:7833:0:0:0,-65.9256,-704.962 0/0:78:78,0:78:2777:0:0:0,-23.4803,-250.145 0/1:76:34,42:34:1197:42:1479:-109.942,0,-85.1542 0/1:74:28,46:28:1004:46:1652:-126.679,0,-68.3996 0/1:43:29,14:29:1040:14:504:-32.7538,0,-80.9697 0/0:87:86,1:86:3080:1:36:0,-22.5913,-273.83 0/0:34:34,0:34:1212:0:0:0,-10.235,-109.373 chr12 22518864 . G T 5274.65 PASS AB=0.504702;ABP=3.07156;AC=27;AF=0.642857;AN=42;AO=276;CIGAR=1X;DP=435;DPB=435;DPRA=0;EPP=593.682;EPPR=346.103;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.913;MQMR=60;NS=21;NUMALT=1;ODDS=5.92143;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9852;QR=5630;RO=158;RPL=275;RPP=593.682;RPPR=346.103;RPR=1;RUN=1;SAF=276;SAP=602.337;SAR=0;SRF=158;SRP=346.103;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:28:14,14:14:504:14:500:-36.905,0,-37.2693 0/1:21:10,11:10:360:11:396:-29.6611,0,-26.4227 0/1:17:7,10:7:252:10:348:-26.5357,0,-17.9114 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 0/1:49:28,20:28:1004:20:716:-49.9585,0,-75.8666 0/1:20:12,8:12:432:8:284:-19.8828,0,-33.2006 0/1:12:9,3:9:320:3:108:-6.46281,0,-25.53 0/1:12:4,8:4:135:8:288:-22.655,0,-8.87015 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 1/1:4:0,4:0:0:4:140:-12.9446,-1.20412,0 0/1:4:3,1:3:108:1:32:-1.99519,0,-8.87105 0/1:9:5,4:5:180:4:144:-10.6043,0,-13.8428 0/1:17:7,10:7:252:10:356:-27.2628,0,-17.9114 0/1:18:6,12:6:207:12:432:-33.8027,0,-13.5484 1/1:43:1,42:1:36:42:1504:-132.056,-9.34602,0 1/1:17:0,17:0:0:17:604:-54.6906,-5.11751,0 0/1:17:11,6:11:396:6:216:-14.673,0,-30.8652 0/1:47:23,24:23:811:24:860:-63.5652,0,-59.1616 0/1:34:13,21:13:453:21:743:-56.9583,0,-30.8646 1/1:14:0,14:0:0:14:489:-44.3389,-4.21442,0 1/1:19:0,19:0:0:19:684:-61.8903,-5.71957,0 chr12 22530051 . TGTT AGTA,GGTA 58367.3 PASS AB=0.478971,0.51905;ABP=10.7732,9.38074;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1777,1051;CIGAR=1X2M1X,1X2M1X;DP=2833;DPB=2837.75;DPRA=0,0.945046;EPP=3861.72,2285.23;EPPR=0;GTI=0;LEN=4,4;MEANALT=2,2.25;MQM=59.9932,59.9867;MQMR=0;NS=21;NUMALT=2;ODDS=8.92773;PAIRED=0,0;PAIREDR=0;PAO=6,6;PQA=214,214;PQR=0;PRO=7;QA=63142,37140;QR=0;RO=0;RPL=0,0;RPP=3861.72,2285.23;RPPR=0;RPR=1777,1051;RUN=1,1;SAF=1777,1051;SAP=3861.72,2285.23;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:192:0,87,104:0:0:87,104:3112,3688:-554.169,-300.407,-274.217,-253.708,0,-222.401 1/2:138:0,79,59:0:0:79,59:2804,2099:-399.882,-171.418,-147.637,-228.819,0,-211.058 1/2:96:0,50,46:0:0:50,46:1790,1616:-277.798,-131.822,-116.771,-146.272,0,-132.425 1/2:179:0,108,71:0:0:108,71:3821,2486:-513.785,-202.556,-170.044,-311.516,0,-290.143 1/2:291:0,144,147:0:0:144,147:5086,5162:-834.601,-420.411,-377.063,-414.476,0,-370.224 1/2:131:0,62,69:0:0:62,69:2210,2433:-378.599,-198.453,-179.789,-180.501,0,-159.73 1/2:189:0,77,111:0:0:77,111:2710,3936:-541.472,-320.857,-297.678,-220.798,0,-187.384 1/2:124:0,47,77:0:0:47,77:1671,2730:-358.936,-222.763,-208.614,-136.529,0,-113.349 1/1:292:0,292,0:0:0:292,0:10386,0:-934.668,-87.9008,0,-934.668,-87.9008,-934.668 1/1:17:0,17,0:0:0:17,0:609,0:-55.1426,-5.11751,0,-55.1426,-5.11751,-55.1426 1/2:16:0,2,14:0:0:2,14:72,504:-47.3585,-41.4837,-40.8816,-6.23466,0,-2.02024 1/2:62:0,21,40:0:0:21,40:740,1407:-174.774,-114.525,-108.203,-60.2416,0,-48.2004 1/2:155:0,70,85:0:0:70,85:2487,3011:-448.225,-245.572,-224.5,-202.943,0,-177.355 1/2:186:0,95,90:0:0:95,90:3360,3169:-531.653,-257.983,-229.385,-273.662,0,-246.57 1/1:141:0,140,0:0:0:140,0:4971,0:-447.182,-42.1442,0,-447.182,-42.1442,-447.182 1/1:182:0,182,0:0:0:182,0:6497,0:-584.816,-54.7875,0,-584.816,-54.7875,-584.816 1/2:119:0,58,61:0:0:58,61:2058,2166:-344.521,-176.844,-159.385,-168.032,0,-149.669 1/2:76:0,23,53:0:0:23,53:827,1888:-221.716,-154.244,-147.32,-67.8303,0,-51.8757 1/2:67:0,45,22:0:0:45,22:1611,775:-194.769,-63.391,-49.8447,-131.675,0,-125.052 1/1:108:0,106,2:0:0:106,2:3761,70:-338.312,-31.9092,0,-332.617,-25.894,-332.015 1/1:72:0,72,0:0:0:72,0:2559,0:-230.495,-21.6742,0,-230.495,-21.6742,-230.495 chr12 22532431 . T C 30265.5 PASS AB=0.49068;ABP=4.5079;AC=28;AF=0.666667;AN=42;AO=1576;CIGAR=1X;DP=2590;DPB=2590;DPRA=0;EPP=3425.25;EPPR=2202.71;GTI=1;LEN=1;MEANALT=1.04762;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=3.39823;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56417;QR=36202;RO=1013;RPL=0;RPP=3425.25;RPPR=2202.71;RPR=1576;RUN=1;SAF=1576;SAP=3425.25;SAR=0;SRF=1013;SRP=2202.71;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:357:170,187:170:6055:187:6692:-494.889,0,-437.584 0/1:69:18,51:18:648:51:1832:-144.39,0,-37.8808 0/1:73:39,34:39:1404:34:1220:-88.1316,0,-104.684 0/1:133:74,59:74:2664:59:2112:-150.312,0,-199.968 0/1:398:222,176:222:7916:176:6282:-445.662,0,-592.652 0/1:118:79,39:79:2816:39:1392:-90.0569,0,-218.159 0/1:214:115,99:115:4132:99:3537:-254.118,0,-307.642 0/1:108:61,47:61:2180:47:1671:-118.164,0,-163.955 1/1:171:1,170:1:36:170:6070:-542.802,-47.8779,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:19:14,5:14:500:5:180:-10.8325,0,-39.6166 0/1:119:50,69:50:1770:69:2472:-186.911,0,-123.757 0/1:105:63,42:63:2241:42:1508:-104.406,0,-170.344 1/1:76:0,76:0:0:76:2724:-245.403,-22.8783,0 1/1:232:2,230:2:72:230:8248:-735.492,-63.0022,0 0/1:147:62,85:62:2220:85:3048:-230.298,0,-155.813 0/1:55:25,29:25:900:29:1044:-77.8042,0,-64.8496 0/1:70:18,52:18:648:52:1863:-146.877,0,-37.5798 1/1:63:0,63:0:0:63:2258:-203.483,-18.9649,0 1/1:49:0,49:0:0:49:1760:-158.684,-14.7505,0 chr12 22602299 . CCATCACT TGATCGCC,CCATCGCT 33087.9 PASS AB=0.558902,0.433066;ABP=48.0327,61.1488;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1389,649;CIGAR=2X3M1X1M1X,5M1X2M;DP=2051;DPB=2050.75;DPRA=0,1.1396;EPP=2993.18,1369.2;EPPR=0;GTI=0;LEN=8,1;MEANALT=2.38095,2.70588;MQM=29.1253,59.6857;MQMR=0;NS=21;NUMALT=2;ODDS=6.36055;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=48679,23200;QR=0;RO=0;RPL=3,5;RPP=2993.18,1369.2;RPPR=0;RPR=1386,644;RUN=1,1;SAF=1389,649;SAP=3019.19,1412.3;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:116:0,70,44:0:0:70,44:2411,1572:-285.607,-128.194,-107.122,-157.435,0,-144.19 1/2:112:0,48,64:0:0:48,64:1698,2296:-283.027,-187.627,-173.178,-95.6986,0,-76.4326 1/2:83:0,46,37:0:0:46,37:1613,1320:-211.742,-107.961,-94.1132,-104.105,0,-92.9673 1/2:127:0,76,50:0:0:76,50:2671,1796:-319.628,-146.457,-123.579,-173.278,0,-158.226 1/2:154:0,113,40:0:0:113,40:3957,1436:-371.89,-117.134,-83.1172,-254.741,0,-242.699 1/2:105:0,53,52:0:0:53,52:1874,1868:-257.335,-152.713,-136.758,-104.928,0,-89.2747 1/2:129:0,67,62:0:0:67,62:2374,2220:-314.729,-181.376,-161.207,-133.661,0,-114.997 1/2:72:0,52,18:0:0:52,18:1849,644:-163.065,-52.5129,-36.8593,-110.539,0,-105.12 1/1:136:0,136,0:0:0:136,0:4719,0:-361.765,-40.9401,0,-361.765,-40.9401,-361.765 1/1:16:0,16,0:0:0:16,0:564,0:-39.2275,-4.81648,0,-39.2275,-4.81648,-39.2275 1/2:11:0,7,4:0:0:7,4:244,144:-25.392,-12.1095,-10.0023,-13.6007,0,-12.3966 1/2:19:0,6,13:0:0:6,13:203,468:-50.6571,-38.5416,-36.7354,-12.4059,0,-8.49249 1/2:85:0,41,44:0:0:41,44:1456,1571:-222.597,-128.432,-116.089,-94.4866,0,-81.2413 1/2:79:0,45,34:0:0:45,34:1576,1205:-200.498,-98.5188,-84.9725,-102.304,0,-92.0686 1/1:144:0,142,1:0:0:142,1:4932,36:-363.886,-42.7463,0,-360.948,-39.7741,-360.647 1/1:118:0,118,0:0:0:118,0:4140,0:-312.755,-35.5215,0,-312.755,-35.5215,-312.755 1/2:110:0,67,39:0:0:67,39:2358,1392:-270.998,-113.501,-93.3315,-157.494,0,-145.754 1/2:179:0,70,108:0:0:70,108:2457,3832:-461.999,-312.193,-291.121,-149.766,0,-117.255 1/2:113:0,74,38:0:0:74,38:2584,1364:-278.908,-111.262,-88.9858,-167.621,0,-156.182 1/1:81:0,81,0:0:0:81,0:2845,0:-197.353,-24.3834,0,-197.353,-24.3834,-197.353 1/1:62:0,61,1:0:0:61,1:2154,36:-139.629,-18.3628,0,-136.69,-15.0656,-136.389 chr12 22602372 . T A 8386.63 PASS AB=0.40656;ABP=102.433;AC=15;AF=0.357143;AN=42;AO=534;CIGAR=1X;DP=1830;DPB=1830;DPRA=0.873963;EPP=1128.09;EPPR=2684.12;GTI=1;LEN=1;MEANALT=1.0625;MQM=59.9513;MQMR=59.9722;NS=21;NUMALT=1;ODDS=4.60715;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19145;QR=46276;RO=1294;RPL=530;RPP=1128.09;RPPR=2684.12;RPR=4;RUN=1;SAF=0;SAP=1162.58;SAR=534;SRF=0;SRP=2812.9;SRR=1294;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:127:98,29:98:3475:29:1044:-56.044,0,-274.704 0/1:67:49,18:49:1760:18:648:-38.4829,0,-138.515 0/1:109:69,40:69:2469:40:1435:-96.6353,0,-189.65 0/1:65:43,20:43:1548:20:720:-45.8041,0,-120.288 0/1:146:82,64:82:2944:64:2294:-162.77,0,-221.243 0/1:113:57,56:57:2033:56:2012:-147.337,0,-149.224 0/1:137:64,73:64:2285:73:2620:-194.806,0,-164.669 0/1:105:51,54:51:1817:54:1921:-141.556,0,-132.201 0/0:100:100,0:100:3584:0:0:0,-30.103,-322.767 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/1:24:17,7:17:597:7:252:-15.8042,0,-46.8314 0/1:108:74,34:74:2645:34:1207:-76.4223,0,-205.784 0/1:94:57,37:57:2040:37:1324:-91.1653,0,-155.575 0/0:212:212,0:212:7592:0:0:0,-63.8184,-683.317 0/0:70:70,0:70:2497:0:0:0,-21.0721,-224.981 0/1:74:35,39:35:1260:39:1404:-104.375,0,-91.4293 0/1:47:23,24:23:828:24:860:-63.5734,0,-60.6957 0/1:90:54,36:54:1944:36:1296:-89.8512,0,-148.098 0/0:93:93,0:93:3325:0:0:0,-27.9958,-299.466 0/0:37:36,1:36:1277:1:36:0,-7.53983,-111.633 chr12 22606636 . C T 30811.8 PASS AB=0.50404;ABP=3.23838;AC=27;AF=0.642857;AN=42;AO=1542;CIGAR=1X;DP=2343;DPB=2343;DPRA=0;EPP=3299.51;EPPR=1712.06;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.954;MQMR=59.9474;NS=21;NUMALT=1;ODDS=15.2332;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55023;QR=28544;RO=799;RPL=6;RPP=3299.51;RPPR=1712.06;RPR=1536;RUN=1;SAF=1542;SAP=3351.42;SAR=0;SRF=799;SRP=1738.02;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:144:85,59:85:3048:59:2097:-145.65,0,-231.201 0/1:108:41,67:41:1472:67:2400:-183.746,0,-100.265 0/1:58:28,30:28:1008:30:1080:-80.0535,0,-73.5766 0/1:135:58,77:58:2071:77:2737:-205.933,0,-145.898 0/1:285:144,140:144:5105:140:5016:-365.881,0,-373.891 0/1:82:43,38:43:1536:38:1368:-98.8236,0,-113.936 0/1:206:116,90:116:4147:90:3224:-228.37,0,-311.397 0/1:46:16,30:16:572:30:1080:-83.6659,0,-37.966 1/1:250:0,250:0:0:250:8903:-801.239,-75.2575,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:12:6,6:6:212:6:212:-15.8124,0,-15.8124 0/1:39:18,21:18:640:21:741:-55.2252,0,-46.1891 0/1:80:46,34:46:1652:34:1220:-86.0244,0,-124.886 0/1:129:64,65:64:2288:65:2302:-168.605,0,-167.349 1/1:144:0,144:0:0:144:5149:-463.549,-43.3483,0 1/1:149:0,149:0:0:149:5269:-474.344,-44.8535,0 0/1:156:76,80:76:2727:80:2854:-210.131,0,-198.711 0/1:68:39,29:39:1391:29:1044:-73.8048,0,-105.018 0/1:61:16,45:16:567:45:1608:-126.647,0,-32.9979 1/1:131:2,129:2:72:129:4607:-407.956,-32.5982,0 1/1:52:1,51:1:36:51:1824:-160.843,-12.0553,0 chr12 22668006 . AAT CAC,CAT 57246.5 PASS AB=0.48386,0.514722;ABP=9.38914,8.31689;AC=26,16;AF=0.619048,0.380952;AN=42;AO=2499,1467;CIGAR=1X1M1X,1X2M;DP=3970;DPB=3970;DPRA=0,0.747238;EPP=5429.52,3188.56;EPPR=7.35324;GTI=1;LEN=3,1;MEANALT=1.95238,2.11111;MQM=28.3557,23.8037;MQMR=38.5;NS=21;NUMALT=2;ODDS=2.65728;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=87336,34801;QR=64;RO=2;RPL=1318,809;RPP=19.3194,36.7606;RPPR=3.0103;RPR=1181,658;RUN=1,1;SAF=1318,809;SAP=19.3194,36.7606;SAR=1181,658;SRF=1;SRP=3.0103;SRR=1;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:226:1,112,113:1:36:112,113:3928,2631:-379.776,-169.313,-138.407,-207.833,0,-176.626 1/2:174:0,71,103:0:0:71,103:2495,2492:-292.579,-165.739,-144.366,-127.064,0,-96.0579 1/2:180:0,91,89:0:0:91,89:3242,2095:-265.973,-138.123,-110.729,-128.048,0,-101.256 1/2:237:0,124,112:0:0:124,112:4317,2648:-398.386,-174.786,-137.459,-223.609,0,-189.894 1/2:318:0,159,159:0:0:159,159:5558,3766:-503.988,-249.289,-201.425,-254.908,0,-207.045 1/2:166:1,65,100:1:28:65,100:2243,2394:-258.607,-156.106,-138.712,-100.564,0,-72.6347 1/2:274:0,114,159:0:0:114,159:3972,3811:-463.08,-252.263,-217.946,-210.922,0,-163.058 1/2:220:0,92,128:0:0:92,128:3230,3030:-361.411,-200.028,-172.334,-161.602,0,-123.07 1/1:344:0,344,0:0:0:344,0:12076,0:-656.54,-103.554,0,-656.54,-103.554,-656.54 1/1:35:0,35,0:0:0:35,0:1160,0:-63.5658,-10.5361,0,-63.5658,-10.5361,-63.5658 2/2:12:0,1,11:0:0:1,11:27,263:-20.7814,-20.0214,-19.7203,-3.31133,-2.42504,0 1/2:60:0,25,35:0:0:25,35:880,852:-113.841,-57.1839,-49.6582,-56.9127,0,-46.3767 1/2:282:0,134,148:0:0:134,148:4697,3473:-451.785,-228.484,-188.146,-223.513,0,-178.961 1/2:233:0,121,112:0:0:121,112:4214,2630:-373.887,-172.988,-136.563,-201.111,0,-167.395 1/1:345:0,345,0:0:0:345,0:12083,0:-654.724,-103.855,0,-654.724,-103.855,-654.724 1/1:179:0,177,2:0:0:177,2:6179,58:-386.998,-53.2823,0,-382.921,-48.9458,-382.319 1/2:112:0,62,50:0:0:62,50:2174,1233:-210.607,-82.6237,-63.9599,-128.221,0,-113.169 1/2:122:0,56,66:0:0:56,66:1939,1562:-204.091,-103.206,-86.3484,-101.106,0,-81.2384 1/2:215:0,138,77:0:0:138,77:4797,1794:-379.137,-117.805,-76.2633,-261.549,0,-238.37 1/1:138:0,136,2:0:0:136,2:4784,45:-297.107,-40.9401,0,-294.12,-37.7528,-293.518 1/1:98:0,97,1:0:0:97,1:3341,24:-222.541,-29.1999,0,-220.953,-27.4011,-220.652 chr12 22691885 . CGAA TGAC,CGAC 13121.2 PASS AB=0.510542,0.489458;ABP=3.65128,3.65128;AC=27,15;AF=0.642857,0.357143;AN=42;AO=660,327;CIGAR=1X2M1X,3M1X;DP=987;DPB=987;DPRA=0,1.02853;EPP=1436.18,713.082;EPPR=0;GTI=1;LEN=4,1;MEANALT=1.7619,2;MQM=25.4545,35.8869;MQMR=0;NS=21;NUMALT=2;ODDS=3.53266;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=22758,11562;QR=0;RO=0;RPL=0,0;RPP=1436.18,713.082;RPPR=0;RPR=660,327;RUN=1,1;SAF=0,0;SAP=1436.18,713.082;SAR=660,327;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:67:0,40,27:0:0:40,27:1361,951:-145.372,-69.9063,-57.8651,-75.7544,0,-67.6266 1/2:20:0,8,12:0:0:8,12:284,432:-48.8005,-32.8606,-30.4524,-16.2269,0,-12.6145 1/2:35:0,14,21:0:0:14,21:489,748:-78.8005,-54.0705,-49.8561,-24.9952,0,-18.6736 1/2:32:0,15,17:0:0:15,17:521,597:-71.9715,-43.5293,-39.0138,-28.7201,0,-23.6026 1/2:94:0,61,33:0:0:61,33:2070,1167:-199.407,-86.0506,-67.6877,-113.649,0,-103.715 1/2:44:0,16,28:0:0:16,28:564,1000:-105.368,-74.8702,-70.0537,-30.7733,0,-22.3444 1/2:67:0,33,34:0:0:33,34:1129,1203:-155.789,-91.0566,-81.1226,-65.023,0,-54.788 1/2:40:0,19,21:0:0:19,21:628,744:-91.7768,-54.805,-49.0855,-37.2558,0,-30.9342 1/1:93:0,91,2:0:0:91,2:3148,72:-213.818,-27.3937,0,-208.261,-21.4958,-207.659 1/1:17:0,17,0:0:0:17,0:585,0:-38.9332,-5.11751,0,-38.9332,-5.11751,-38.9332 1/2:7:0,6,1:0:0:6,1:210,36:-14.919,-3.04512,-1.23894,-12.1971,0,-11.896 1/2:16:0,8,8:0:0:8,8:284,288:-37.3553,-21.6746,-19.2664,-15.9715,0,-13.5633 1/2:54:0,26,28:0:0:26,28:914,981:-122.306,-72.8043,-64.9775,-49.7835,0,-41.3546 1/2:48:0,26,22:0:0:26,22:882,783:-105.657,-57.136,-49.3092,-48.8051,0,-42.1824 1/1:84:0,84,0:0:0:84,0:2915,0:-181.157,-25.2865,0,-181.157,-25.2865,-181.157 1/1:39:0,39,0:0:0:39,0:1369,0:-92.0201,-11.7402,0,-92.0201,-11.7402,-92.0201 1/2:42:0,12,30:0:0:12,30:425,1054:-104.457,-80.1714,-76.5591,-24.5642,0,-15.5333 1/2:59:0,31,28:0:0:31,28:1085,966:-131.894,-70.805,-61.4731,-61.3729,0,-52.9441 1/2:39:0,24,15:0:0:24,15:827,540:-85.5401,-40.3513,-33.1266,-45.4852,0,-40.9698 1/1:55:0,55,0:0:0:55,0:1880,0:-122.023,-16.5567,0,-122.023,-16.5567,-122.023 1/1:35:0,35,0:0:0:35,0:1188,0:-76.6971,-10.5361,0,-76.6971,-10.5361,-76.6971 chr12 22691912 . TGC TAT,GAT 13753.7 PASS AB=0.507375,0.49115;ABP=3.33058,3.4715;AC=27,15;AF=0.642857,0.357143;AN=42;AO=668,334;CIGAR=1M2X,3X;DP=1004;DPB=1004;DPRA=0,1.02831;EPP=1410.45,711.014;EPPR=0;GTI=1;LEN=2,3;MEANALT=1.85714,2.125;MQM=25.4716,35.7635;MQMR=0;NS=21;NUMALT=2;ODDS=3.26782;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=23730,11752;QR=0;RO=0;RPL=663,332;RPP=1410.45,711.014;RPPR=0;RPR=5,2;RUN=1,1;SAF=0,0;SAP=1453.55,728.282;SAR=668,334;SRF=0;SRP=0;SRR=0;TYPE=mnp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,41,28:0:0:41,28:1444,983:-150.246,-71.5517,-59.2094,-78.982,0,-70.5532 1/2:20:0,8,12:0:0:8,12:288,430:-48.7327,-32.7493,-30.3411,-16.2703,0,-12.658 1/2:35:0,14,21:0:0:14,21:492,746:-78.5206,-53.9029,-49.6885,-24.882,0,-18.5603 1/2:32:0,15,17:0:0:15,17:529,605:-72.8392,-44.3276,-39.8122,-28.7922,0,-23.6746 1/2:96:0,63,33:0:0:63,33:2219,1176:-203.315,-86.6825,-67.7176,-116.927,0,-106.993 1/2:45:0,16,29:0:0:16,29:576,1022:-107.373,-76.6861,-71.8696,-30.9617,0,-22.2318 1/2:70:0,33,37:0:0:33,37:1174,1286:-162.551,-96.8578,-86.9238,-65.9806,0,-54.8424 1/2:40:0,19,21:0:0:19,21:669,731:-91.8678,-54.1853,-48.4658,-37.9671,0,-31.6455 1/1:92:0,90,1:0:0:90,1:3236,26:-215.058,-27.0927,0,-213.043,-25.124,-212.742 1/1:17:0,17,0:0:0:17,0:604,0:-39.2434,-5.11751,0,-39.2434,-5.11751,-39.2434 1/2:7:0,6,1:0:0:6,1:214,36:-14.9679,-3.04512,-1.23894,-12.2461,0,-11.9451 1/2:17:0,8,9:0:0:8,9:288,317:-39.6796,-23.9513,-21.543,-16.015,0,-13.3057 1/2:54:0,26,28:0:0:26,28:921,982:-122.543,-73.1288,-65.302,-49.6961,0,-41.2673 1/2:49:0,27,22:0:0:27,22:930,755:-105.435,-55.5657,-47.4379,-50.1493,0,-43.5266 1/1:87:0,87,0:0:0:87,0:3091,0:-188.907,-26.1896,0,-188.907,-26.1896,-188.907 1/1:39:0,39,0:0:0:39,0:1403,0:-92.6332,-11.7402,0,-92.6332,-11.7402,-92.6332 1/2:44:0,13,30:0:0:13,30:468,1053:-107.716,-79.9313,-76.018,-27.8675,0,-18.8366 1/2:59:0,31,28:0:0:31,28:1104,996:-133.891,-72.6665,-63.3346,-61.5133,0,-53.0845 1/2:41:0,24,17:0:0:24,17:821,608:-88.9475,-44.6472,-37.4225,-44.5884,0,-39.4709 1/1:55:0,55,0:0:0:55,0:1963,0:-123.292,-16.5567,0,-123.292,-16.5567,-123.292 1/1:36:0,36,0:0:0:36,0:1296,0:-80.4359,-10.8371,0,-80.4359,-10.8371,-80.4359 chr12 22719145 . T A 3482.77 PASS AB=0.179724;ABP=4142.44;AC=15;AF=0.357143;AN=42;AO=842;CIGAR=1X;DP=6471;DPB=6471;DPRA=0.705201;EPP=1831.39;EPPR=12137.3;GTI=9;LEN=1;MEANALT=1.16667;MQM=38.4157;MQMR=56.5688;NS=21;NUMALT=1;ODDS=18.6081;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=29951;QR=200075;RO=5624;RPL=0;RPP=1831.39;RPPR=1324.47;RPR=842;RUN=1;SAF=0;SAP=1831.39;SAR=842;SRF=1878;SRP=1350.31;SRR=3746;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:369:281,88:281:10011:88:3132:-156.363,0,-787.061 0/1:253:190,63:190:6763:63:2229:-112.007,0,-528.584 0/1:271:238,33:238:8471:33:1179:-19.0949,0,-679.205 0/1:392:314,78:314:11201:78:2781:-117.052,0,-885.497 0/1:762:600,160:600:21340:160:5719:-255.979,0,-1681.08 0/1:334:294,40:294:10473:40:1440:-20.0124,0,-838.494 0/1:395:307,88:307:10908:88:3111:-144.264,0,-859.331 0/1:352:301,51:301:10694:51:1828:-52.3697,0,-854.605 0/0:508:508,0:508:18073:0:0:0,-152.923,-1616.64 0/0:45:41,4:41:1464:4:144:0,-1.42915,-119.52 0/1:12:8,4:8:288:4:144:-8.92176,0,-22.655 0/1:110:71,39:71:2513:39:1391:-84.8438,0,-191.549 0/1:324:289,35:289:10331:35:1239:-8.04005,0,-828.793 0/1:340:289,51:289:10279:51:1801:-51.9166,0,-819.305 0/0:480:479,0:479:17042:0:0:0,-144.193,-1526.46 0/0:249:248,0:248:8883:0:0:0,-74.6554,-794.402 0/1:261:216,44:216:7675:44:1561:-54.7982,0,-609.241 0/1:246:214,32:214:7603:32:1126:-21.9982,0,-607.481 0/1:225:196,29:196:6950:29:1018:-19.351,0,-555.143 0/0:384:383,1:383:13595:1:36:0,-112.141,-1211.28 0/0:159:157,2:157:5518:2:72:0,-41.4273,-487.287 chr12 22719150 . A G 21504.9 PASS AB=0.305074;ABP=2136.32;AC=21;AF=0.5;AN=42;AO=1972;CIGAR=1X;DP=6464;DPB=6464;DPRA=0;EPP=4285.15;EPPR=9672.73;GTI=2;LEN=1;MEANALT=1.09524;MQM=41.0177;MQMR=59.9811;NS=21;NUMALT=1;ODDS=6.98295;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=69696;QR=159187;RO=4489;RPL=1;RPP=4276.47;RPPR=268.618;RPR=1971;RUN=1;SAF=1;SAP=4276.47;SAR=1971;SRF=1865;SRP=281.679;SRR=2624;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:373:241,132:241:8552:132:4682:-291.472,0,-657.397 0/1:249:144,105:144:5061:105:3699:-242.358,0,-380.68 0/1:267:208,59:208:7378:59:2112:-102.445,0,-583.698 0/1:395:242,153:242:8564:153:5412:-347.775,0,-651.86 0/1:756:479,277:479:16969:277:9823:-617.329,0,-1299.3 0/1:332:243,89:243:8640:89:3139:-170.618,0,-677.586 0/1:398:257,141:257:9083:141:4901:-301.986,0,-697.645 0/1:353:276,77:276:9812:77:2696:-129.034,0,-776.766 0/1:508:365,141:365:12930:141:4942:-283.066,0,-1010.85 0/1:48:37,11:37:1320:11:396:-19.8658,0,-104.635 0/1:13:8,5:8:276:5:167:-10.7276,0,-21.2619 0/1:108:43,65:43:1528:65:2311:-166.928,0,-105.302 0/1:322:237,85:237:8412:85:3058:-169.163,0,-660.158 0/1:337:236,101:236:8342:101:3538:-205.588,0,-649.347 0/1:481:382,99:382:13525:99:3516:-165.343,0,-1072.26 0/1:248:181,67:181:6456:67:2386:-133.551,0,-506.471 0/1:263:175,87:175:6250:87:3109:-190.248,0,-483.162 0/1:249:194,55:194:6918:55:1931:-91.0501,0,-547.733 0/1:220:160,60:160:5641:60:2117:-117.153,0,-441.585 0/1:386:261,125:261:9290:125:4418:-273.332,0,-719.853 0/1:158:120,38:120:4240:38:1343:-70.1827,0,-334.22 chr12 22719169 . T C 6645.96 PASS AB=0.244892;ABP=1939.65;AC=16;AF=0.380952;AN=42;AO=842;CIGAR=1X;DP=4644;DPB=4644;DPRA=0.784193;EPP=1814.06;EPPR=8049.63;GTI=5;LEN=1;MEANALT=1.05556;MQM=38.4133;MQMR=54.8327;NS=21;NUMALT=1;ODDS=5.99606;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30198;QR=135609;RO=3801;RPL=840;RPP=1814.06;RPPR=8049.63;RPR=2;RUN=1;SAF=0;SAP=1831.39;SAR=842;SRF=0;SRP=8256.78;SRR=3801;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:265:177,88:177:6302:88:3164:-190.105,0,-484.491 0/1:196:134,62:134:4755:62:2216:-127.603,0,-365.061 0/1:190:157,33:157:5629:33:1188:-44.1557,0,-447.739 0/1:316:237,79:237:8489:79:2824:-143.535,0,-664.043 0/1:568:407,160:407:14525:160:5737:-314.869,0,-1123.46 0/1:243:203,40:203:7242:40:1440:-47.4061,0,-574.993 0/1:272:187,85:187:6697:85:3060:-175.791,0,-517.167 0/1:257:208,49:208:7411:49:1760:-75.0366,0,-587.861 0/0:330:330,0:330:11773:0:0:0,-99.3399,-1049.51 0/1:35:31,4:31:1101:4:144:-1.58115,0,-88.3562 0/1:11:6,5:6:216:5:180:-12.1901,0,-16.4792 0/1:96:57,39:57:2003:39:1396:-89.471,0,-149.956 0/1:251:215,36:215:7681:36:1296:-34.6223,0,-612.418 0/1:245:192,53:192:6817:53:1893:-87.9125,0,-536.162 0/0:317:317,0:317:11316:0:0:0,-95.4265,-1011.46 0/0:167:167,0:167:5936:0:0:0,-50.272,-527.361 0/1:213:168,45:168:5998:45:1612:-73.6422,0,-472.62 0/1:130:98,32:98:3528:32:1140:-57.8509,0,-274.933 0/1:138:109,29:109:3897:29:1040:-47.1463,0,-306.842 0/0:314:313,1:313:11145:1:36:0,-91.0689,-990.708 0/0:90:88,2:88:3148:2:72:0,-20.6563,-273.919 chr12 22719172 . G C 46925.4 PASS AB=0.568;ABP=188.767;AC=21;AF=0.5;AN=42;AO=2627;CIGAR=1X;DP=4625;DPB=4625;DPRA=0;EPP=5620.94;EPPR=4322.09;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.965;MQMR=41.0446;NS=21;NUMALT=1;ODDS=14.1795;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93764;QR=71322;RO=1997;RPL=2617;RPP=5620.94;RPPR=4322.09;RPR=10;RUN=1;SAF=0;SAP=5707.47;SAR=2627;SRF=0;SRP=4339.44;SRR=1997;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:265:132,133:132:4724:133:4763:-349.054,0,-327.502 0/1:193:105,88:105:3746:88:3138:-224.546,0,-262.289 0/1:188:59,129:59:2116:129:4605:-358.009,0,-126.48 0/1:315:150,165:150:5358:165:5908:-437.005,0,-366.432 0/1:570:284,286:284:10134:286:10185:-744.997,0,-698.09 0/1:242:88,154:88:3142:154:5491:-421.4,0,-197.929 0/1:272:144,128:144:5159:128:4568:-329.407,0,-360.549 0/1:258:77,181:77:2750:181:6451:-503.014,0,-161.949 0/1:330:143,187:143:5102:187:6683:-502.208,0,-350.135 0/1:35:11,24:11:392:24:853:-66.5357,0,-23.4898 0/1:11:5,6:5:180:6:216:-16.4792,0,-12.1901 0/1:91:62,29:62:2211:29:1032:-65.7997,0,-162.806 0/1:251:86,165:86:3067:165:5899:-455.461,0,-190.865 0/1:240:105,135:105:3756:135:4840:-363.505,0,-253.533 0/1:315:100,215:100:3571:215:7697:-597.937,0,-220.02 0/1:168:72,95:72:2580:95:3376:-253.424,0,-174.653 0/1:211:90,121:90:3215:121:4319:-325.17,0,-215.559 0/1:128:54,74:54:1907:74:2652:-200.394,0,-124.863 0/1:138:62,76:62:2212:76:2696:-201.341,0,-149.875 0/1:313:130,183:130:4647:183:6488:-489.783,0,-315.308 0/1:91:38,53:38:1353:53:1904:-144.244,0,-91.0961 chr12 22719180 . T C 6503.55 PASS AB=0.244341;ABP=1959.38;AC=16;AF=0.380952;AN=42;AO=845;CIGAR=1X;DP=4666;DPB=4666;DPRA=0.791051;EPP=1837.9;EPPR=8285.01;GTI=6;LEN=1;MEANALT=1.11111;MQM=38.4462;MQMR=54.8185;NS=21;NUMALT=1;ODDS=3.98648;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=30140;QR=136867;RO=3818;RPL=845;RPP=1837.9;RPPR=8285.01;RPR=0;RUN=1;SAF=0;SAP=1837.9;SAR=845;SRF=0;SRP=8293.69;SRR=3818;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:266:178,88:178:6392:88:3151:-189.16,0,-492.303 0/1:198:135,62:135:4821:62:2210:-127.119,0,-370.299 0/1:190:157,33:157:5590:33:1184:-43.8824,0,-444.294 0/1:319:239,80:239:8569:80:2824:-142.387,0,-670.182 0/1:569:409,160:409:14666:160:5744:-315.738,0,-1135.58 0/1:246:206,40:206:7395:40:1417:-44.8946,0,-587.813 0/1:274:187,87:187:6720:87:3078:-177.546,0,-518.592 0/1:261:209,52:209:7492:52:1841:-81.0718,0,-594.053 0/0:332:332,0:332:11883:0:0:0,-99.942,-1059.12 0/1:34:30,4:30:1080:4:144:-1.88218,0,-86.7896 0/1:11:6,5:6:216:5:180:-12.1901,0,-16.4792 0/1:96:57,39:57:2048:39:1403:-90.032,0,-153.852 0/1:258:222,36:222:7976:36:1296:-32.5151,0,-636.625 0/1:244:191,53:191:6842:53:1885:-87.7338,0,-538.738 0/0:314:314,0:314:11250:0:0:0,-94.5234,-1005.45 0/0:166:166,0:166:5937:0:0:0,-49.971,-527.137 0/1:214:169,45:169:6061:45:1616:-73.6142,0,-477.916 0/1:130:99,31:99:3560:31:1099:-54.8734,0,-277.812 0/1:136:109,27:109:3904:27:964:-41.5608,0,-307.736 0/0:318:315,1:315:11301:1:32:0,-92.3183,-1004.76 0/0:90:88,2:88:3164:2:72:0,-20.6563,-275.287 chr12 22731277 . G A 8814.42 PASS AB=0.403069;ABP=322.102;AC=21;AF=0.5;AN=42;AO=1576;CIGAR=1X;DP=3910;DPB=3910;DPRA=0;EPP=3425.25;EPPR=5036.48;GTI=3;LEN=1;MEANALT=1.38095;MQM=25.1072;MQMR=32.5505;NS=21;NUMALT=1;ODDS=9.77222;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=56417;QR=82578;RO=2318;RPL=0;RPP=3425.25;RPPR=5036.48;RPR=1576;RUN=1;SAF=1576;SAP=3425.25;SAR=0;SRF=2318;SRP=5036.48;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:191:117,73:117:4188:73:2624:-104.839,0,-261.497 0/1:174:118,50:118:4244:50:1792:-61.3674,0,-278.315 0/1:144:98,45:98:3482:45:1616:-56.8212,0,-225.536 0/1:105:86,19:86:3080:19:684:-10.8226,0,-204.078 0/1:243:133,110:133:4749:110:3929:-167.554,0,-290.924 0/1:182:123,59:123:4416:59:2116:-77.2322,0,-290.754 0/1:240:177,62:177:6271:62:2224:-65.6433,0,-421.499 0/1:245:176,69:176:6267:69:2456:-78.2574,0,-416.637 0/1:429:189,238:189:6730:238:8518:-399.32,0,-386.899 0/1:34:20,14:20:716:14:504:-21.0947,0,-46.1423 0/1:14:11,3:11:396:3:108:-2.69292,0,-27.022 0/1:66:52,14:52:1848:14:504:-11.4617,0,-125.002 0/1:268:176,92:176:6274:92:3285:-123.376,0,-402.222 0/1:192:125,66:125:4427:66:2361:-88.7681,0,-284.157 0/1:274:113,161:113:4021:161:5773:-275.69,0,-224.639 0/1:216:80,136:80:2814:136:4854:-238.076,0,-151.619 0/1:118:76,42:76:2716:42:1512:-57.8423,0,-173.473 0/1:153:107,46:107:3817:46:1652:-56.2778,0,-252.097 0/1:227:146,80:146:5210:80:2860:-110.39,0,-328.892 0/1:233:114,119:114:4034:119:4249:-194.237,0,-247.495 0/1:162:81,78:81:2878:78:2796:-125.189,0,-177.158 chr12 22731286 . G C 8422.69 PASS AB=0.398708;ABP=347.896;AC=21;AF=0.5;AN=42;AO=1543;CIGAR=1X;DP=3870;DPB=3870;DPRA=0;EPP=3353.59;EPPR=5049.51;GTI=3;LEN=1;MEANALT=1.14286;MQM=25.0065;MQMR=32.4781;NS=21;NUMALT=1;ODDS=7.8032;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54890;QR=82922;RO=2324;RPL=0;RPP=3353.59;RPPR=5049.51;RPR=1543;RUN=1;SAF=1543;SAP=3353.59;SAR=0;SRF=2324;SRP=5049.51;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:186:115,71:115:4108:71:2528:-101.602,0,-256.433 0/1:168:115,53:115:4136:53:1880:-67.0566,0,-269.284 0/1:143:99,44:99:3533:44:1576:-54.8064,0,-229.678 0/1:101:83,18:83:2952:18:644:-9.76516,0,-195.871 0/1:234:134,100:134:4757:100:3544:-151.251,0,-291.381 0/1:184:123,61:123:4366:61:2176:-80.9469,0,-285.919 0/1:240:177,63:177:6344:63:2244:-67.6259,0,-424.581 0/1:248:180,68:180:6416:68:2420:-76.2776,0,-425.832 0/1:427:191,236:191:6808:236:8404:-394.413,0,-391.258 0/1:34:20,14:20:720:14:500:-21.0532,0,-46.3028 0/1:14:11,3:11:396:3:108:-2.69292,0,-27.022 0/1:65:51,14:51:1788:14:500:-11.7213,0,-121.155 0/1:267:178,88:178:6331:88:3120:-114.708,0,-404.36 0/1:190:126,63:126:4512:63:2244:-82.7317,0,-288.72 0/1:268:112,156:112:3966:156:5564:-265.389,0,-223.79 0/1:212:80,132:80:2868:132:4696:-228.921,0,-154.804 0/1:119:79,40:79:2828:40:1424:-53.0678,0,-180.029 0/1:152:108,44:108:3876:44:1584:-52.1796,0,-256.548 0/1:226:147,78:147:5248:78:2761:-104.658,0,-331.665 0/1:230:114,116:114:4057:116:4120:-187.979,0,-250.262 0/1:162:81,81:81:2912:81:2853:-130.463,0,-178.717 chr12 22731292 . A T 8449.46 PASS AB=0.397288;ABP=361.205;AC=21;AF=0.5;AN=42;AO=1553;CIGAR=1X;DP=3909;DPB=3909;DPRA=0;EPP=3375.31;EPPR=5084.31;GTI=3;LEN=1;MEANALT=1;MQM=24.9974;MQMR=32.5183;NS=21;NUMALT=1;ODDS=6.85034;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=55469;QR=84447;RO=2356;RPL=0;RPP=3375.31;RPPR=5084.31;RPR=1553;RUN=1;SAF=1553;SAP=3375.31;SAR=0;SRF=2356;SRP=5119;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:192:120,72:120:4312:72:2538:-101.611,0,-270.102 0/1:168:116,52:116:4160:52:1856:-64.96,0,-272.302 0/1:145:101,44:101:3611:44:1572:-54.1631,0,-235.334 0/1:103:85,18:85:3052:18:631:-8.9598,0,-202.038 0/1:240:136,104:136:4884:104:3708:-158.531,0,-296.19 0/1:182:125,57:125:4465:57:2048:-71.9703,0,-294.234 0/1:243:180,63:180:6463:63:2243:-66.644,0,-432.542 0/1:250:183,67:183:6559:67:2393:-73.2413,0,-434.957 0/1:433:196,237:196:7028:237:8476:-395.197,0,-404.23 0/1:34:20,14:20:720:14:495:-20.9325,0,-46.3028 0/1:14:11,3:11:396:3:108:-2.69292,0,-27.022 0/1:66:52,14:52:1860:14:500:-11.4203,0,-125.562 0/1:272:182,90:182:6512:90:3228:-118.062,0,-416.736 0/1:193:127,66:127:4545:66:2351:-88.3561,0,-290.654 0/1:275:115,160:115:4128:160:5704:-271.747,0,-231.093 0/1:215:82,133:82:2940:133:4772:-230.649,0,-160.342 0/1:116:76,40:76:2713:40:1436:-54.0946,0,-172.03 0/1:152:108,44:108:3876:44:1580:-52.1384,0,-256.514 0/1:228:149,79:149:5344:79:2814:-106.563,0,-339.195 0/1:226:112,114:112:4020:114:4088:-185.154,0,-247.181 0/1:162:80,82:80:2859:82:2928:-133.29,0,-175.49 chr12 22731306 . A G 8238.3 PASS AB=0.343482;ABP=548.17;AC=15;AF=0.357143;AN=42;AO=886;CIGAR=1X;DP=3921;DPB=3921;DPRA=0.710515;EPP=1866.61;EPPR=28.8475;GTI=1;LEN=1;MEANALT=1.05556;MQM=32.5485;MQMR=28.6121;NS=21;NUMALT=1;ODDS=18.3529;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31720;QR=108789;RO=3034;RPL=7;RPP=1866.61;RPPR=28.8475;RPR=879;RUN=1;SAF=886;SAP=1926.93;SAR=0;SRF=3034;SRP=6591.26;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:191:135,56:135:4825:56:2012:-95.6818,0,-272.023 0/1:172:105,67:105:3768:67:2385:-133.69,0,-210.296 0/1:147:95,52:95:3385:52:1860:-99.1025,0,-192.432 0/1:102:55,47:55:1980:47:1688:-97.107,0,-111.269 0/1:237:188,49:188:6744:49:1756:-63.7737,0,-383.4 0/1:183:114,69:114:4081:69:2456:-137.006,0,-229.895 0/1:241:140,101:140:5032:101:3619:-212.155,0,-282.836 0/1:249:160,89:160:5740:89:3183:-174.546,0,-331.064 0/0:436:436,0:436:15639:0:0:0,-131.249,-1068.04 0/0:34:34,0:34:1216:0:0:0,-10.235,-87.3924 0/1:14:6,8:6:216:8:288:-18.5881,0,-11.1596 0/1:66:38,28:38:1364:28:1000:-58.6791,0,-78.4143 0/1:268:176,91:176:6308:91:3253:-169.103,0,-355.639 0/1:194:125,69:125:4484:69:2476:-131.824,0,-250.256 0/0:275:275,0:275:9857:0:0:0,-82.7832,-668.425 0/0:217:216,1:216:7737:1:36:0,-62.269,-517.956 0/1:117:79,38:79:2832:38:1360:-69.4798,0,-159.475 0/1:153:99,54:99:3564:54:1936:-105.411,0,-204.887 0/1:228:166,62:166:5960:62:2232:-101.902,0,-343.298 0/0:233:229,4:229:8209:4:144:0,-58.5825,-563.149 0/0:164:163,1:163:5848:1:36:0,-46.2453,-406.038 chr12 22731307 . TAAGGATGCA TAAGGA,TATGGA 47514.1 PASS AB=0.61403,0.383035;ABP=426.43,448.5;AC=21,21;AF=0.5,0.5;AN=42;AO=2302,1436;CIGAR=5M4D1M,1M4D3M1X1M;DP=3749;DPB=2264.6;DPRA=0,0;EPP=4975.72,3095.24;EPPR=0;GTI=1;LEN=4,6;MEANALT=2.47619,2.47619;MQM=27.7172,32.4025;MQMR=0;NS=21;NUMALT=2;ODDS=12.1942;PAIRED=0,0;PAIREDR=0;PAO=3.83333,3.33333;PQA=125,107;PQR=670;PRO=20.8333;QA=81046,45822;QR=0;RO=0;RPL=2299,1433;RPP=4975.72,3095.24;RPPR=0;RPR=3,3;RUN=1,1;SAF=2302,1436;SAP=5001.74,3121.24;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:185:0,124,61:0:0:124,61:4374,1911:-402.058,-138.226,-100.899,-264.111,0,-245.748 1/2:170:0,117,50:0:0:117,50:4106,1623:-376.199,-117.797,-82.5765,-258.424,0,-243.372 1/2:136:0,87,49:0:0:87,49:3069,1566:-303.609,-114.084,-87.8949,-189.81,0,-175.06 1/2:101:0,63,37:0:0:63,37:2203,1181:-227.46,-85.744,-66.7791,-141.802,0,-130.664 1/2:223:0,142,80:0:0:142,80:4987,2521:-476.814,-182.422,-139.676,-294.463,0,-270.38 1/2:182:0,128,54:0:0:128,54:4512,1751:-410.586,-128.198,-89.6664,-282.679,0,-266.423 1/2:227:0,151,76:0:0:151,76:5303,2446:-519.008,-178.159,-132.703,-341.036,0,-318.157 1/2:238:0,148,90:0:0:148,90:5196,2911:-541.328,-212.251,-167.698,-329.101,0,-302.008 1/2:421:0,226,195:0:0:226,195:8001,6133:-874.757,-442.582,-374.549,-432.193,0,-373.493 1/2:33:0,13,20:0:0:13,20:468,660:-73.1912,-48.2627,-44.3493,-25.1961,0,-19.1755 1/2:14:0,11,3:0:0:11,3:396,99:-33.3296,-7.49433,-4.183,-26.134,0,-25.2309 1/2:59:0,35,24:0:0:35,24:1248,778:-136.232,-56.9284,-46.3923,-79.5952,0,-72.3705 1/2:254:0,167,86:0:0:167,86:5889,2738:-559.181,-198.224,-147.952,-360.898,0,-335.009 1/2:180:0,120,60:0:0:120,60:4212,1895:-394.438,-137.659,-101.535,-257.01,0,-238.948 1/2:262:0,148,113:0:0:148,113:5212,3562:-538.712,-257.487,-212.935,-281.252,0,-247.236 1/2:211:0,130,81:0:0:130,81:4561,2550:-430.812,-183.568,-144.434,-247.214,0,-222.83 1/2:109:0,72,37:0:0:72,37:2514,1184:-241.305,-85.5155,-63.8414,-155.818,0,-144.68 1/2:147:0,93,53:0:0:93,53:3280,1741:-331.608,-126.286,-98.29,-205.315,0,-189.36 1/2:216:0,134,82:0:0:134,82:4731,2562:-471.918,-185.037,-144.699,-286.831,0,-262.147 1/2:225:0,116,108:0:0:116,108:4053,3498:-476.57,-255.005,-220.085,-221.381,0,-188.87 1/2:156:0,77,77:0:0:77,77:2731,2512:-331.974,-183.477,-160.298,-148.482,0,-125.302 chr12 22760835 . G A 13984 PASS AB=0.438707;ABP=70.6236;AC=15;AF=0.357143;AN=42;AO=910;CIGAR=1X;DP=2998;DPB=2998;DPRA=1.08374;EPP=1979.05;EPPR=4537.04;GTI=0;LEN=1;MEANALT=1;MQM=45.2;MQMR=42.3482;NS=21;NUMALT=1;ODDS=14.495;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32488;QR=74614;RO=2088;RPL=0;RPP=1979.05;RPPR=4537.04;RPR=910;RUN=1;SAF=910;SAP=1979.05;SAR=0;SRF=2088;SRP=4537.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:178:118,60:118:4225:60:2141:-136.99,0,-312.196 0/1:144:63,81:63:2256:81:2912:-212.156,0,-153.998 0/1:132:80,52:80:2872:52:1860:-125.112,0,-211.036 0/1:113:60,53:60:2148:53:1881:-134.114,0,-153.841 0/1:359:204,155:204:7292:155:5541:-383.467,0,-528.473 0/1:184:92,92:92:3277:92:3270:-232.337,0,-233.215 0/1:181:94,87:94:3348:87:3116:-219.782,0,-239.835 0/1:107:61,46:61:2180:46:1652:-113.977,0,-159.269 0/0:333:333,0:333:11887:0:0:0,-100.243,-1045.84 0/0:27:27,0:27:972:0:0:0,-8.12781,-84.8571 0/1:26:17,9:17:608:9:324:-20.972,0,-45.3284 0/1:70:42,28:42:1492:28:1000:-67.9858,0,-109.812 0/1:119:65,54:65:2321:54:1936:-136.975,0,-165.925 0/1:155:92,63:92:3288:63:2230:-151.599,0,-241.026 0/0:255:254,1:254:9080:1:36:0,-73.1958,-790.085 0/0:107:107,0:107:3801:0:0:0,-32.2102,-333.105 0/1:85:48,37:48:1724:37:1324:-92.6156,0,-126.925 0/1:120:62,58:62:2216:58:2056:-144.758,0,-158.385 0/1:99:65,34:65:2324:34:1209:-78.3738,0,-171.964 0/0:147:147,0:147:5260:0:0:0,-44.2514,-459.886 0/0:57:57,0:57:2043:0:0:0,-17.1587,-179.331 chr12 22760891 . C T 35758.8 PASS AB=0.382481;ABP=361.807;AC=27;AF=0.642857;AN=42;AO=2054;CIGAR=1X;DP=3903;DPB=3903;DPRA=0;EPP=4463.21;EPPR=4009.38;GTI=1;LEN=1;MEANALT=1;MQM=42.3233;MQMR=42.6458;NS=21;NUMALT=1;ODDS=2.41073;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=73042;QR=65628;RO=1849;RPL=2054;RPP=4463.21;RPPR=3.01147;RPR=0;RUN=1;SAF=2054;SAP=4463.21;SAR=0;SRF=924;SRP=3.01147;SRR=925;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:243:126,117:126:4461:117:4153:-287.319,0,-319.468 0/1:204:138,66:138:4908:66:2351:-144.244,0,-359.915 0/1:195:116,79:116:4099:79:2790:-185.253,0,-300.121 0/1:226:167,59:167:5896:59:2094:-115.174,0,-443.622 0/1:409:206,203:206:7278:203:7239:-508.857,0,-519.58 0/1:252:160,92:160:5707:92:3265:-211.892,0,-415.817 0/1:226:134,92:134:4771:92:3256:-218.263,0,-344.088 0/1:236:177,59:177:6299:59:2095:-112.813,0,-466.206 1/1:329:0,329:0:0:329:11675:-1028.32,-99.0389,0 1/1:26:0,26:0:0:26:928:-81.0478,-7.82678,0 0/1:27:12,15:12:423:15:536:-39.4505,0,-29.0589 0/1:96:54,42:54:1897:42:1484:-101.446,0,-136.567 0/1:234:168,66:168:6018:66:2347:-134.327,0,-454.11 0/1:247:157,90:157:5596:90:3219:-207.569,0,-415.317 1/1:253:1,252:1:36:252:8991:-783.636,-72.5938,0 1/1:106:0,106:0:0:106:3767:-330.567,-31.9092,0 0/1:121:75,46:75:2673:46:1639:-108.664,0,-198.568 0/1:159:102,57:102:3571:57:2040:-131.443,0,-264.427 0/1:116:55,61:55:1959:61:2171:-153.653,0,-137.546 1/1:141:0,141:0:0:141:5007:-437.67,-42.4452,0 1/1:57:1,56:1:36:56:1995:-171.224,-13.7711,0 chr12 22762341 . C T 14733.3 PASS AB=0.453546;ABP=40.5349;AC=15;AF=0.357143;AN=42;AO=910;CIGAR=1X;DP=2851;DPB=2851;DPRA=1.31395;EPP=1979.05;EPPR=4215.67;GTI=0;LEN=1;MEANALT=1.05882;MQM=59.6033;MQMR=59.9562;NS=21;NUMALT=1;ODDS=20.5268;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32521;QR=69142;RO=1940;RPL=910;RPP=1979.05;RPPR=4215.67;RPR=0;RUN=1;SAF=910;SAP=1979.05;SAR=0;SRF=1940;SRP=4215.67;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:164:78,86:78:2772:86:3079:-227.834,0,-200.351 0/1:141:68,73:68:2444:73:2613:-192.926,0,-177.713 0/1:42:26,16:26:932:16:567:-38.7128,0,-71.5522 0/1:172:105,67:105:3746:67:2402:-164.645,0,-285.56 0/1:372:198,174:198:6987:174:6198:-445.852,0,-516.916 0/1:161:83,78:83:2979:78:2770:-201.069,0,-219.875 0/1:167:83,84:83:2957:84:3012:-220.669,0,-216.082 0/1:62:31,31:31:1099:31:1116:-82.0878,0,-80.5556 0/0:211:211,0:211:7508:0:0:0,-63.5173,-675.766 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:11:4,7:4:144:7:252:-19.7167,0,-10.0023 0/1:41:20,21:20:720:21:752:-55.664,0,-52.7865 0/1:196:117,79:117:4187:79:2808:-193.733,0,-318.009 0/1:97:61,36:61:2155:36:1284:-86.6482,0,-165.017 0/0:241:239,1:239:8538:1:36:0,-69.0087,-764.822 0/0:175:174,1:174:6236:1:36:0,-49.1015,-557.735 0/1:201:98,103:98:3499:103:3696:-272.326,0,-254.611 0/1:73:49,24:49:1743:24:864:-56.0992,0,-135.173 0/1:102:73,29:73:2588:29:1036:-62.8489,0,-202.463 0/0:118:118,0:118:4219:0:0:0,-35.5215,-379.882 0/0:96:96,0:96:3401:0:0:0,-28.8989,-306.302 chr12 22771277 . CATAGTT TCTAATG,TCTAATT 40160.4 PASS AB=0.54604,0.449453;ABP=31.603,37.4756;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1413,699;CIGAR=2X2M1X1M1X,2X2M1X2M;DP=2120;DPB=2120;DPRA=0,1.08813;EPP=3062.62,1520.87;EPPR=0;GTI=0;LEN=7,7;MEANALT=2.09524,2.375;MQM=37.4579,50.6509;MQMR=0;NS=21;NUMALT=2;ODDS=16.6894;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=49716,24686;QR=0;RO=0;RPL=1,0;RPP=3062.62,1520.87;RPPR=0;RPR=1412,699;RUN=1,1;SAF=1413,699;SAP=3071.3,1520.87;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:88:0,59,29:0:0:59,29:2080,1031:-242.952,-84.0892,-66.3284,-159.21,0,-150.48 1/2:171:0,73,97:0:0:73,97:2573,3450:-473.8,-279.915,-257.94,-193.885,0,-164.685 1/2:98:0,46,52:0:0:46,52:1624,1838:-271.435,-149.152,-135.305,-122.622,0,-106.969 1/2:163:0,77,86:0:0:77,86:2687,3035:-451.203,-246.426,-223.247,-205.116,0,-179.228 1/2:191:0,104,85:0:0:104,85:3622,2990:-517.358,-242.413,-211.106,-274.966,0,-249.378 1/2:57:0,37,20:0:0:37,20:1307,695:-155.455,-56.4367,-45.2985,-99.3583,0,-93.3377 1/2:95:0,57,37:0:0:57,37:2017,1290:-257.23,-104.441,-87.2825,-152.903,0,-141.765 1/2:130:0,76,53:0:0:76,53:2654,1856:-351.326,-150.379,-127.5,-201.042,0,-185.088 1/1:120:0,119,0:0:0:119,0:4182,0:-352.727,-35.8226,0,-352.727,-35.8226,-352.727 1/1:8:0,8,0:0:0:8,0:279,0:-24.1512,-2.40824,0,-24.1512,-2.40824,-24.1512 1/2:11:0,3,8:0:0:3,8:108,282:-30.8541,-22.6926,-21.7895,-8.49952,0,-6.09128 1/2:29:0,16,13:0:0:16,13:573,467:-81.3127,-38.3507,-33.5342,-43.3084,0,-39.395 1/2:89:0,38,51:0:0:38,51:1343,1806:-247.189,-146.029,-134.589,-101.499,0,-86.1467 1/2:87:0,43,44:0:0:43,44:1509,1546:-241.393,-125.765,-112.821,-115.969,0,-102.723 1/1:175:0,175,0:0:0:175,0:6193,0:-522.732,-52.6803,0,-522.732,-52.6803,-522.732 1/1:107:0,107,0:0:0:107,0:3779,0:-317.943,-32.2102,0,-317.943,-32.2102,-317.943 1/2:128:0,93,35:0:0:93,35:3265,1247:-348.418,-101.287,-73.2916,-247.477,0,-236.941 1/2:101:0,49,50:0:0:49,50:1740,1779:-276.735,-144.247,-129.496,-132.493,0,-117.441 1/2:115:0,77,38:0:0:77,38:2678,1341:-311.843,-108.739,-85.5592,-203.447,0,-192.008 1/1:94:0,93,1:0:0:93,1:3265,33:-274.519,-27.9958,0,-271.855,-25.0023,-271.554 1/1:63:0,63,0:0:0:63,0:2238,0:-190.418,-18.9649,0,-190.418,-18.9649,-190.418 chr12 22771937 . A G 15362.1 PASS AB=0.499457;ABP=3.01502;AC=15;AF=0.357143;AN=42;AO=921;CIGAR=1X;DP=2544;DPB=2544;DPRA=1.09958;EPP=2002.94;EPPR=3518.63;GTI=0;LEN=1;MEANALT=1;MQM=54.1889;MQMR=59.6574;NS=21;NUMALT=1;ODDS=9.45967;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32807;QR=56851;RO=1623;RPL=0;RPP=2002.94;RPPR=3527.31;RPR=921;RUN=1;SAF=921;SAP=2002.94;SAR=0;SRF=1622;SRP=3518.63;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:161:90,71:90:3169:71:2548:-180.236,0,-236.948 0/1:89:39,50:39:1388:50:1800:-135.058,0,-98.4109 0/1:147:65,82:65:2246:82:2925:-218.751,0,-158.151 0/1:147:72,75:72:2472:75:2665:-195.411,0,-178.468 0/1:222:125,97:125:4368:97:3445:-242.815,0,-326.455 0/1:139:57,82:57:2006:82:2943:-221.842,0,-138.954 0/1:201:114,87:114:3984:87:3081:-215.385,0,-298.204 0/1:96:44,52:44:1542:52:1864:-138.867,0,-110.167 0/0:178:178,0:178:6237:0:0:0,-53.5833,-561.374 0/0:13:13,0:13:453:0:0:0,-3.91339,-41.0996 0/1:4:2,2:2:72:2:68:-5.24154,0,-5.6326 0/1:51:23,28:23:808:28:996:-74.4772,0,-57.6779 0/1:131:67,64:67:2353:64:2273:-165.129,0,-172.586 0/1:139:62,77:62:2179:77:2757:-205.918,0,-154.527 0/0:176:176,0:176:6080:0:0:0,-52.9813,-546.241 0/0:114:114,0:114:3982:0:0:0,-34.3174,-358.567 0/1:155:70,85:70:2484:85:3014:-224.382,0,-177.107 0/1:73:38,35:38:1330:35:1228:-88.3028,0,-97.8815 0/1:87:54,33:54:1924:33:1164:-78.7475,0,-147.239 0/0:139:138,1:138:4854:1:36:0,-38.25,-433.358 0/0:82:82,0:82:2920:0:0:0,-24.6845,-262.936 chr12 22772009 . C T 10694.1 PASS AB=0.494191;ABP=3.38875;AC=16;AF=0.380952;AN=42;AO=639;CIGAR=1X;DP=1692;DPB=1692;DPRA=1.58259;EPP=1390.58;EPPR=2289.57;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.9867;NS=21;NUMALT=1;ODDS=3.12537;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22844;QR=37375;RO=1053;RPL=0;RPP=1390.58;RPPR=2289.57;RPR=639;RUN=1;SAF=0;SAP=1390.58;SAR=639;SRF=0;SRP=2289.57;SRR=1053;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:123:54,69:54:1902:69:2449:-183.637,0,-134.427 0/1:93:45,48:45:1597:48:1728:-127.81,0,-116.022 0/1:114:65,49:65:2324:49:1749:-123.375,0,-175.103 0/1:57:29,28:29:1014:28:1008:-73.8776,0,-74.4088 0/1:162:75,87:75:2640:87:3102:-230.637,0,-189.075 0/1:35:10,25:10:356:25:885:-69.4305,0,-21.8452 0/1:108:72,36:72:2558:36:1296:-84.4327,0,-197.956 0/1:77:44,33:44:1539:33:1169:-82.336,0,-115.616 0/0:77:77,0:77:2728:0:0:0,-23.1793,-245.762 0/1:19:17,2:17:612:2:72:-1.11715,0,-49.6939 0/1:7:6,1:6:216:1:36:-1.49107,0,-17.6833 0/1:39:18,21:18:648:21:756:-56.6271,0,-46.9117 0/1:92:33,59:33:1173:59:2116:-163.014,0,-78.1808 0/1:144:58,86:58:2053:86:3092:-235.158,0,-141.686 0/0:182:181,1:181:6443:1:36:0,-51.1892,-576.355 0/0:35:35,0:35:1241:0:0:0,-10.536,-111.993 0/1:45:24,21:24:864:21:741:-53.4652,0,-64.5362 0/1:91:47,44:47:1669:44:1565:-113.746,0,-123.102 0/1:85:56,29:56:2000:29:1044:-68.6873,0,-154.686 0/0:58:58,0:58:2054:0:0:0,-17.4597,-185.128 0/0:49:49,0:49:1744:0:0:0,-14.7505,-157.244 chr12 22776184 . C T 7199.49 PASS AB=0.497706;ABP=3.05014;AC=15;AF=0.357143;AN=42;AO=434;CIGAR=1X;DP=1227;DPB=1227;DPRA=0.982535;EPP=945.429;EPPR=1724.99;GTI=0;LEN=1;MEANALT=1;MQM=59.9862;MQMR=60;NS=21;NUMALT=1;ODDS=8.9423;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15478;QR=28294;RO=793;RPL=434;RPP=945.429;RPPR=1724.99;RPR=0;RUN=1;SAF=0;SAP=945.429;SAR=434;SRF=0;SRP=1724.99;SRR=793;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:84:37,47:37:1305:47:1672:-125.481,0,-92.4629 0/1:26:16,10:16:561:10:341:-23.191,0,-42.9903 0/1:67:34,33:34:1201:33:1188:-87.0596,0,-88.2246 0/1:48:23,25:23:813:25:896:-66.5109,0,-59.0397 0/1:91:42,49:42:1504:49:1760:-131.29,0,-108.261 0/1:69:33,36:33:1176:36:1292:-95.8127,0,-85.3767 0/1:97:48,49:48:1709:49:1756:-129.124,0,-124.894 0/1:77:43,34:43:1548:34:1201:-85.2125,0,-116.434 0/0:146:146,0:146:5229:0:0:0,-43.9504,-470.746 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:9:4,5:4:129:5:180:-13.8428,0,-9.21839 0/1:21:9,12:9:324:12:428:-32.5372,0,-23.1842 0/1:49:22,27:22:788:27:968:-72.6869,0,-56.4943 0/1:99:51,48:51:1816:48:1701:-123.572,0,-133.919 0/0:75:75,0:75:2696:0:0:0,-22.5772,-242.884 0/0:41:41,0:41:1446:0:0:0,-12.3422,-130.432 0/1:46:33,13:33:1180:13:468:-28.6123,0,-92.6607 0/1:49:19,30:19:684:30:1072:-82.042,0,-47.1399 0/1:40:24,16:24:860:16:555:-38.2337,0,-65.6806 0/0:55:55,0:55:1957:0:0:0,-16.5566,-176.404 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 chr12 22794541 . T C 33511.2 PASS AB=0.568372;ABP=80.807;AC=27;AF=0.642857;AN=42;AO=1713;CIGAR=1X;DP=2547;DPB=2547;DPRA=0;EPP=3714.06;EPPR=1807.5;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9685;MQMR=59.9868;NS=21;NUMALT=1;ODDS=5.34958;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61144;QR=29809;RO=831;RPL=1;RPP=3714.06;RPPR=1807.5;RPR=1712;RUN=1;SAF=1713;SAP=3722.74;SAR=0;SRF=831;SRP=1807.5;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:138:68,70:68:2429:70:2512:-184.79,0,-177.322 0/1:169:56,113:56:2012:113:4022:-311.293,0,-130.479 0/1:75:25,50:25:900:50:1773:-137.188,0,-58.7438 0/1:240:86,154:86:3084:154:5492:-422.158,0,-205.541 0/1:336:152,183:152:5460:183:6533:-486.849,0,-390.321 0/1:80:37,43:37:1320:43:1523:-113.281,0,-95.0195 0/1:130:72,58:72:2584:58:2088:-149.056,0,-193.657 0/1:94:42,52:42:1504:52:1847:-138.213,0,-107.358 1/1:155:3,152:3:108:152:5425:-478.115,-36.5845,0 1/1:19:0,19:0:0:19:675:-61.077,-5.71957,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:26:13,13:13:468:13:468:-34.6329,0,-34.6329 0/1:152:65,86:65:2328:86:3088:-232.332,0,-163.965 0/1:143:67,76:67:2408:76:2694:-199.657,0,-173.929 1/1:149:1,148:1:36:148:5290:-472.637,-41.2552,0 1/1:124:1,122:1:36:122:4369:-389.785,-33.7882,0 0/1:145:70,75:70:2508:75:2684:-198.156,0,-182.323 0/1:83:40,43:40:1436:43:1540:-113.908,0,-104.552 0/1:100:31,69:31:1116:69:2476:-192.99,0,-70.6487 1/1:121:0,121:0:0:121:4278:-385.2,-36.4246,0 1/1:63:1,62:1:36:62:2223:-196.735,-15.3666,0 chr12 22794563 . C G 33524.2 PASS AB=0.568063;ABP=79.8645;AC=27;AF=0.642857;AN=42;AO=1711;CIGAR=1X;DP=2541;DPB=2541;DPRA=0;EPP=3718.4;EPPR=1805.33;GTI=1;LEN=1;MEANALT=1;MQM=59.9766;MQMR=59.9867;NS=21;NUMALT=1;ODDS=5.27764;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=61156;QR=29657;RO=830;RPL=1711;RPP=3718.4;RPPR=1805.33;RPR=0;RUN=1;SAF=1711;SAP=3718.4;SAR=0;SRF=830;SRP=1805.33;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:137:66,71:66:2351:71:2548:-188.329,0,-170.608 0/1:170:56,114:56:2012:114:4081:-316.299,0,-130.178 0/1:78:28,50:28:1000:50:1762:-135.376,0,-66.835 0/1:243:88,155:88:3156:155:5568:-428.091,0,-211.114 0/1:337:157,180:157:5580:180:6415:-475.992,0,-400.878 0/1:78:34,44:34:1224:44:1567:-117.841,0,-86.9867 0/1:129:73,56:73:2620:56:2001:-141.531,0,-197.197 0/1:93:41,52:41:1463:52:1872:-140.763,0,-103.97 1/1:153:3,150:3:108:150:5330:-469.75,-35.9824,0 1/1:19:0,19:0:0:19:680:-61.5292,-5.71957,0 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:24:13,11:13:468:11:396:-28.758,0,-35.2349 0/1:146:62,84:62:2205:84:3007:-226.91,0,-154.763 0/1:144:67,77:67:2391:77:2755:-204.843,0,-172.099 1/1:150:1,149:1:36:149:5307:-474.166,-41.5562,0 1/1:123:0,123:0:0:123:4415:-397.52,-37.0267,0 0/1:145:69,76:69:2468:76:2728:-202.113,0,-178.725 0/1:81:39,42:39:1387:42:1485:-109.559,0,-100.745 0/1:100:31,69:31:1116:69:2480:-193.35,0,-70.6487 1/1:122:0,122:0:0:122:4347:-391.406,-36.7257,0 1/1:64:1,63:1:36:63:2268:-200.784,-15.6676,0 chr12 22794679 . C A 20246.5 PASS AB=0.513487;ABP=4.59172;AC=26;AF=0.619048;AN=42;AO=1024;CIGAR=1X;DP=1518;DPB=1518;DPRA=18.925;EPP=2226.6;EPPR=1075.72;GTI=1;LEN=1;MEANALT=1;MQM=59.9609;MQMR=60;NS=21;NUMALT=1;ODDS=13.2873;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=36441;QR=17582;RO=494;RPL=0;RPP=2226.6;RPPR=1075.72;RPR=1024;RUN=1;SAF=0;SAP=2226.6;SAR=1024;SRF=0;SRP=1075.72;SRR=494;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:62:31,31:31:1116:31:1112:-81.7275,0,-82.0878 0/1:32:15,17:15:527:17:604:-45.0576,0,-38.1272 0/1:101:51,50:51:1820:50:1796:-131.518,0,-133.677 0/1:50:26,24:26:912:24:852:-61.9489,0,-67.3444 0/1:108:58,50:58:2066:50:1776:-127.61,0,-153.698 0/1:85:51,34:51:1832:34:1196:-82.3551,0,-139.573 0/1:111:64,47:64:2264:47:1675:-117.622,0,-170.606 0/1:40:21,19:21:748:19:665:-48.1316,0,-55.6041 1/1:188:1,187:1:36:187:6639:-593.994,-52.9954,0 1/1:20:0,20:0:0:20:712:-64.4067,-6.0206,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:21:8,13:8:284:13:468:-36.138,0,-19.5817 0/1:62:29,33:29:1032:33:1175:-87.3931,0,-74.5296 0/1:98:40,58:40:1423:58:2076:-157.61,0,-98.8658 1/1:140:1,139:1:36:139:4971:-443.94,-38.5459,0 1/1:39:0,39:0:0:39:1361:-122.466,-11.7402,0 0/1:64:24,40:24:847:40:1423:-109.101,0,-57.2828 0/1:102:51,51:51:1811:51:1781:-129.864,0,-132.566 0/1:65:18,47:18:648:47:1688:-132.64,0,-39.0849 1/1:71:1,70:1:36:70:2495:-221.204,-17.7749,0 1/1:55:0,55:0:0:55:1976:-178.115,-16.5567,0 chr12 22800406 . TT CG,TG 42644.2 PASS AB=0.492568,0.506757;ABP=3.72043,3.59718;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1322,754;CIGAR=2X,1M1X;DP=2079;DPB=2299.5;DPRA=0,1.11667;EPP=2873.7,1597.16;EPPR=0;GTI=0;LEN=2,1;MEANALT=2,2.11111;MQM=59.739,59.9045;MQMR=0;NS=21;NUMALT=2;ODDS=8.90534;PAIRED=0,0;PAIREDR=0;PAO=439,1;PQA=15624,36;PQR=36;PRO=1;QA=46464,26827;QR=0;RO=0;RPL=0,4;RPP=2873.7,1605.74;RPPR=0;RPR=1322,750;RUN=1,1;SAF=0,1;SAP=2873.7,1631.63;SAR=1322,753;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:121:0,52,69:0:0:52,69:1807,2460:-346.82,-199.94,-184.286,-147.231,0,-126.46 1/2:73:0,33,40:0:0:33,40:1163,1411:-209.935,-115.245,-105.311,-95.0417,0,-83.0005 1/2:92:0,39,53:0:0:39,53:1366,1884:-265.026,-153.881,-142.141,-111.497,0,-95.5421 1/2:136:0,72,64:0:0:72,64:2512,2255:-388.245,-183.943,-162.269,-204.652,0,-185.386 1/2:181:0,85,96:0:0:85,96:2995,3429:-523.736,-279.907,-254.319,-244.184,0,-215.285 1/2:113:0,56,57:0:0:56,57:1963,2044:-326.802,-167.073,-150.215,-160.084,0,-142.925 1/2:228:0,116,112:0:0:116,112:4106,3983:-659.385,-324.944,-290.025,-334.796,0,-301.081 1/2:152:0,66,86:0:0:66,86:2299,3088:-439.15,-252.259,-232.391,-187.244,0,-161.355 1/1:190:0,188,1:0:0:188,1:6581,36:-591.993,-56.5936,0,-589.056,-53.6562,-588.755 1/1:13:0,13,0:0:0:13,0:448,0:-40.6422,-3.91339,0,-40.6422,-3.91339,-40.6422 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:25:0,11,14:0:0:11,14:396,483:-71.901,-39.5829,-36.2715,-32.6714,0,-28.457 1/2:88:0,60,28:0:0:60,28:2120,992:-253.806,-81.1656,-63.1038,-172.994,0,-164.565 1/2:99:0,48,51:0:0:48,51:1702,1804:-285.949,-147.287,-132.837,-139.016,0,-123.664 1/1:216:0,216,0:0:0:216,0:7604,0:-683.614,-65.0225,0,-683.614,-65.0225,-683.614 1/1:41:0,40,1:0:0:40,1:1397,36:-125.567,-12.0412,0,-122.63,-9.10375,-122.329 1/2:58:0,33,24:0:0:33,24:1150,860:-163.651,-70.1347,-60.2007,-93.5164,0,-86.2917 1/2:53:0,22,31:0:0:22,31:777,1112:-154.328,-91.0594,-84.4368,-63.6236,0,-54.2917 1/2:56:0,33,23:0:0:33,23:1176,806:-161.567,-65.9345,-56.0005,-95.9847,0,-89.0611 1/1:98:0,96,2:0:0:96,2:3396,72:-305.464,-28.8989,0,-299.589,-22.6642,-298.987 1/1:41:0,40,0:0:0:40,0:1398,0:-125.625,-12.0412,0,-125.625,-12.0412,-125.625 chr12 22808856 . TGTT TGTG,GGTG 23927.3 PASS AB=0.528409,0.465909;ABP=9.17926,11.8936;AC=28,14;AF=0.666667,0.333333;AN=42;AO=760,413;CIGAR=3M1X,1X2M1X;DP=1178;DPB=1177.75;DPRA=0,1.56569;EPP=1644.65,899.828;EPPR=0;GTI=0;LEN=1,4;MEANALT=2,2.3125;MQM=60,60;MQMR=0;NS=21;NUMALT=2;ODDS=5.55429;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=27109,14396;QR=0;RO=0;RPL=759,413;RPP=1644.65,899.828;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=1653.33,899.828;SAR=760,413;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:69:0,41,28:0:0:41,28:1467,956:-197.554,-77.9188,-65.5766,-119.983,0,-111.554 1/2:60:0,31,29:0:0:31,29:1097,1006:-171.475,-82.1186,-72.7867,-89.7061,0,-80.9762 1/2:56:0,29,27:0:0:29,27:1040,961:-163.506,-78.6789,-69.9491,-85.1845,0,-77.0567 1/2:82:0,44,37:0:0:44,37:1576,1289:-233.345,-104.811,-91.566,-128.526,0,-117.388 1/2:114:0,56,56:0:0:56,56:2003,1943:-321.259,-157.927,-141.069,-163.325,0,-146.468 1/2:49:0,28,20:0:0:28,20:1004,710:-139.737,-57.846,-49.4172,-81.8872,0,-75.8666 1/2:89:0,52,36:0:0:52,36:1840,1241:-250.746,-100.867,-85.2136,-149.943,0,-139.106 1/2:66:0,14,52:0:0:14,52:504,1791:-186.944,-145.817,-141.602,-41.4837,0,-25.8301 1/1:72:0,72,0:0:0:72,0:2575,0:-231.999,-21.6742,0,-231.999,-21.6742,-231.999 1/1:15:0,15,0:0:0:15,0:536,0:-48.5748,-4.51545,0,-48.5748,-4.51545,-48.5748 1/1:5:0,5,0:0:0:5,0:180,0:-16.5521,-1.50515,0,-16.5521,-1.50515,-16.5521 1/2:7:0,4,3:0:0:4,3:144,107:-20.8306,-9.07908,-7.87496,-12.1095,0,-11.2064 1/2:60:0,34,26:0:0:34,26:1220,921:-174.896,-75.3808,-65.1458,-99.8718,0,-92.045 1/2:67:0,34,33:0:0:34,33:1193,1148:-190.781,-93.6928,-83.4578,-97.437,0,-87.503 1/1:47:0,47,0:0:0:47,0:1676,0:-151.127,-14.1484,0,-151.127,-14.1484,-151.127 1/1:38:0,37,1:0:0:37,1:1317,36:-118.471,-11.1381,0,-115.533,-7.84087,-115.232 1/2:47:0,29,18:0:0:29,18:1016,645:-135.627,-52.9626,-44.2328,-83.0191,0,-77.6005 1/2:68:0,41,27:0:0:41,27:1476,944:-197.586,-77.1457,-64.8034,-120.794,0,-112.666 1/2:46:0,28,18:0:0:28,18:990,626:-131.879,-51.2455,-42.8167,-80.9838,0,-75.5653 1/1:64:0,62,2:0:0:62,2:2219,72:-199.614,-18.6639,0,-193.739,-12.4292,-193.137 1/1:57:0,57,0:0:0:57,0:2036,0:-183.512,-17.1587,0,-183.512,-17.1587,-183.512 chr12 22835179 . TAAAAAATAGT TAAAAAGAATAGT,TAAAAAAAAAATAGT 24187.7 PASS AB=0.67712,0.289199;ABP=237.623,335.336;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1390,279;CIGAR=5M2I6M,1M4I10M;DP=1705;DPB=2068;DPRA=0,0.797526;EPP=2986.71,608.851;EPPR=0;GTI=8;LEN=2,4;MEANALT=2.61905,3;MQM=32.1791,24.4158;MQMR=0;NS=21;NUMALT=2;ODDS=4.93009;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44217,6795;QR=0;RO=0;RPL=1386,279;RPP=2986.71,608.851;RPPR=0;RPR=4,0;RUN=1,1;SAF=1390,279;SAP=3021.36,608.851;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=ins,ins GT:DP:AD:RO:QR:AO:QA:GL 1/2:65:0,53,12:0:0:53,12:1661,299:-139.753,-20.2732,-4.31864,-119.711,0,-116.098 1/1:61:0,51,9:0:0:51,9:1743,216:-144.031,-15.3525,0,-129.747,-1.0711,-127.038 1/2:108:0,79,26:0:0:79,26:2442,650:-219.249,-43.6458,-19.8644,-175.618,0,-167.791 1/2:69:0,41,27:0:0:41,27:1310,669:-139.41,-44.9132,-32.571,-94.5129,0,-86.3851 1/1:150:0,136,13:0:0:136,13:4215,325:-343.781,-40.9401,0,-321.964,-19.1639,-318.05 1/1:47:0,40,6:0:0:40,6:1364,144:-112.738,-12.0412,0,-103.218,-2.58745,-101.412 1/2:102:0,74,22:0:0:74,22:2534,528:-222.153,-34.9501,-12.6739,-187.219,0,-180.597 1/2:59:0,35,23:0:0:35,23:1101,548:-115.859,-36.2561,-25.72,-79.5932,0,-72.6695 1/1:214:0,214,0:0:0:214,0:6725,0:-548.428,-64.4204,0,-548.428,-64.4204,-548.428 1/1:30:0,30,0:0:0:30,0:945,0:-77.2124,-9.0309,0,-77.2124,-9.0309,-77.2124 1/2:6:0,4,2:0:0:4,2:130,48:-12.8572,-3.38763,-2.18351,-9.7079,0,-9.10584 1/2:25:0,13,8:0:0:13,8:416,189:-42.5664,-12.5249,-8.61149,-30.0367,0,-27.6285 1/2:96:0,47,47:0:0:47,47:1493,1168:-185.936,-78.4067,-64.2583,-107.56,0,-93.4117 1/2:92:0,72,19:0:0:72,19:2283,472:-195.967,-31.6141,-9.93995,-164.356,0,-158.636 1/1:127:0,127,0:0:0:127,0:3989,0:-326.438,-38.2308,0,-326.438,-38.2308,-326.438 1/1:69:0,67,0:0:0:67,0:2088,0:-170.372,-20.169,0,-170.372,-20.169,-170.372 1/2:108:0,87,18:0:0:87,18:2733,414:-223.786,-27.008,-0.818438,-196.817,0,-191.398 1/2:90:0,46,37:0:0:46,37:1482,882:-165.707,-58.3272,-44.4798,-107.38,0,-96.2417 1/2:41:0,32,8:0:0:32,8:1008,195:-85.6838,-12.9662,-3.33326,-72.7169,0,-70.3086 1/1:106:0,102,2:0:0:102,2:3201,48:-260.717,-30.7051,0,-257.541,-27.5574,-256.938 1/1:40:0,40,0:0:0:40,0:1354,0:-112.095,-12.0412,0,-112.095,-12.0412,-112.095 chr12 22835263 . T A 37509 PASS AB=0.703008;ABP=574.32;AC=27;AF=0.642857;AN=42;AO=1876;CIGAR=1X;DP=2350;DPB=2350;DPRA=0;EPP=4076.69;EPPR=1032.29;GTI=3;LEN=1;MEANALT=1;MQM=59.9893;MQMR=59.9789;NS=21;NUMALT=1;ODDS=16.4299;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=66195;QR=16964;RO=474;RPL=0;RPP=4076.69;RPPR=1032.29;RPR=1876;RUN=1;SAF=0;SAP=4076.69;SAR=1876;SRF=0;SRP=1032.29;SRR=474;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:132:27,105:27:972:105:3690:-292.568,0,-48.0619 0/1:78:9,69:9:324:69:2423:-194.845,0,-6.02551 0/1:78:27,51:27:963:51:1793:-138.168,0,-63.5056 0/1:131:48,83:48:1709:83:2947:-226.03,0,-114.645 0/1:294:90,204:90:3228:204:7164:-556.327,0,-202.239 0/1:167:38,129:38:1364:129:4586:-362.62,0,-72.7887 0/1:240:72,168:72:2571:168:5911:-459.859,0,-159.392 0/1:62:24,38:24:849:38:1337:-101.964,0,-58.064 1/1:283:0,283:0:0:283:10009:-900.758,-85.1915,0 1/1:22:0,22:0:0:22:773:-69.8903,-6.62266,0 0/1:9:1,8:1:36:8:284:-23.1941,0,-0.889005 0/1:27:17,10:17:612:10:348:-23.5273,0,-47.2856 0/1:96:40,56:40:1440:56:1991:-150.564,0,-100.999 0/1:116:36,80:36:1284:80:2846:-221.459,0,-80.9439 1/1:198:0,198:0:0:198:6996:-629.711,-59.6039,0 1/1:118:0,118:0:0:118:4173:-375.753,-35.5215,0 0/1:56:6,50:6:216:50:1758:-141.644,0,-2.93283 0/1:54:25,29:25:896:29:991:-73.2398,0,-64.7047 0/1:56:14,42:14:500:42:1488:-117.357,0,-28.4785 1/1:82:0,82:0:0:82:2875:-258.988,-24.6845,0 1/1:51:0,51:0:0:51:1812:-163.362,-15.3525,0 chr12 22866564 . A G 39986.3 PASS AB=0.568903;ABP=82.3091;AC=27;AF=0.642857;AN=42;AO=1981;CIGAR=1X;DP=2813;DPB=2813;DPRA=0;EPP=4226.88;EPPR=1768.59;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9798;MQMR=59.9747;NS=21;NUMALT=1;ODDS=8.80037;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70623;QR=29651;RO=829;RPL=9;RPP=4226.88;RPPR=1768.59;RPR=1972;RUN=1;SAF=1981;SAP=4304.7;SAR=0;SRF=829;SRP=1803.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:150:75,75:75:2688:75:2664:-194.85,0,-197.01 0/1:120:47,73:47:1692:73:2612:-199.204,0,-116.443 0/1:98:47,50:47:1684:50:1781:-131.011,0,-122.287 0/1:140:53,87:53:1904:87:3080:-235.284,0,-129.494 0/1:243:101,141:101:3605:141:5017:-378.381,0,-251.446 0/1:171:71,100:71:2552:100:3587:-271.559,0,-178.454 0/1:235:125,110:125:4484:110:3913:-281.621,0,-332.986 0/1:152:47,104:47:1688:104:3712:-288.467,0,-106.392 1/1:199:1,198:1:36:198:7084:-634.019,-56.3067,0 1/1:21:0,21:0:0:21:752:-68.0063,-6.32163,0 0/1:10:4,6:4:144:6:212:-16.4145,0,-10.3033 0/1:38:19,19:19:661:19:684:-50.4512,0,-48.3725 0/1:182:73,109:73:2593:109:3881:-294.697,0,-178.83 0/1:152:78,74:78:2768:74:2630:-191.19,0,-203.449 1/1:270:0,270:0:0:270:9652:-868.631,-81.2781,0 1/1:197:2,195:2:72:195:6917:-615.764,-52.4662,0 0/1:113:40,73:40:1436:73:2589:-199.242,0,-95.5213 0/1:44:26,18:26:928:18:648:-45.4066,0,-70.5929 0/1:75:20,55:20:716:55:1954:-153.557,0,-42.1905 1/1:156:0,156:0:0:156:5562:-500.698,-46.9607,0 1/1:47:0,47:0:0:47:1692:-152.567,-14.1484,0 chr12 22866612 . GG AC,GC 60341.5 PASS AB=0.512675,0.485256;ABP=5.70751,6.66013;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1931,941;CIGAR=2X,1M1X;DP=2879;DPB=2879;DPRA=0,0.807908;EPP=4126.92,2011.77;EPPR=0;GTI=1;LEN=2,1;MEANALT=2.09524,2.25;MQM=59.9052,59.9639;MQMR=0;NS=21;NUMALT=2;ODDS=0.765932;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68327,33627;QR=0;RO=0;RPL=1923,938;RPP=4126.92,2020.39;RPPR=0;RPR=8,3;RUN=1,1;SAF=0,1;SAP=4196.12,2037.69;SAR=1931,940;SRF=0;SRP=0;SRR=0;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:137:0,62,75:0:0:62,75:2200,2669:-397.122,-217.877,-199.213,-179.6,0,-157.023 1/2:123:0,51,72:0:0:51,72:1810,2588:-358.965,-211.494,-196.142,-147.827,0,-126.153 1/2:118:0,60,58:0:0:60,58:2127,2080:-343.29,-170.011,-151.949,-173.636,0,-156.176 1/2:117:0,66,50:0:0:66,50:2329,1783:-335.129,-145.483,-125.615,-189.787,0,-174.736 1/2:335:0,157,178:0:0:157,178:5587,6350:-973.334,-517.998,-470.737,-455.692,0,-402.108 1/2:109:0,63,46:0:0:63,46:2224,1647:-315.77,-134.67,-115.706,-181.455,0,-167.608 1/2:181:0,104,77:0:0:104,77:3674,2754:-523.989,-224.921,-193.614,-299.424,0,-276.244 1/2:161:0,95,65:0:0:95,65:3294,2302:-455.229,-187.511,-158.913,-267.709,0,-248.142 1/1:277:0,276,0:0:0:276,0:9788,0:-880.503,-83.0843,0,-880.503,-83.0843,-880.503 1/1:15:0,15,0:0:0:15,0:521,0:-47.2166,-4.51545,0,-47.2166,-4.51545,-47.2166 1/2:6:0,4,2:0:0:4,2:144,72:-17.9843,-6.23466,-5.03054,-12.1095,0,-11.5074 1/2:21:0,10,10:0:0:10,10:358,360:-58.6916,-29.4922,-26.4819,-29.311,0,-26.3007 1/2:166:0,80,85:0:0:80,85:2853,3048:-481.278,-248.71,-224.628,-232.673,0,-207.086 1/2:113:0,53,60:0:0:53,60:1880,2149:-328.771,-175.614,-159.66,-153.513,0,-135.451 1/1:278:0,278,0:0:0:278,0:9800,0:-881.941,-83.6863,0,-881.941,-83.6863,-881.941 1/1:162:0,161,0:0:0:161,0:5656,0:-508.927,-48.4658,0,-508.927,-48.4658,-508.927 1/2:103:0,53,50:0:0:53,50:1887,1773:-298.589,-144.8,-128.845,-154.144,0,-139.093 1/2:137:0,61,76:0:0:61,76:2179,2720:-399.82,-222.165,-203.802,-178.013,0,-155.134 1/2:106:0,72,34:0:0:72,34:2573,1224:-310.018,-100.232,-78.5579,-210.145,0,-199.91 1/1:143:0,140,3:0:0:140,3:4988,108:-448.212,-42.1442,0,-439.4,-32.9721,-438.497 1/1:71:0,70,0:0:0:70,0:2455,0:-220.858,-21.0721,0,-220.858,-21.0721,-220.858 chr12 22940232 . C A 18171.1 PASS AB=0.49862;ABP=3.04626;AC=15;AF=0.357143;AN=42;AO=1088;CIGAR=1X;DP=2834;DPB=2834;DPRA=1.60169;EPP=2365.57;EPPR=3790.06;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.6756;MQMR=59.8618;NS=21;NUMALT=1;ODDS=9.81478;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38724;QR=61171;RO=1744;RPL=1088;RPP=2365.57;RPPR=3790.06;RPR=0;RUN=1;SAF=1088;SAP=2365.57;SAR=0;SRF=1744;SRP=3790.06;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:152:91,60:91:3214:60:2152:-148.123,0,-243.629 0/1:141:63,78:63:2195:78:2796:-209.432,0,-155.369 0/1:149:79,70:79:2778:70:2502:-179.79,0,-205.404 0/1:272:145,127:145:5111:127:4543:-327.062,0,-378.155 0/1:184:89,95:89:3110:95:3354:-246.483,0,-224.727 0/1:164:86,78:86:2977:78:2767:-199.863,0,-218.788 0/1:202:100,102:100:3503:102:3636:-266.636,0,-254.671 0/1:198:92,106:92:3221:106:3755:-278.538,0,-230.437 0/0:172:172,0:172:6012:0:0:0,-51.7772,-541.121 0/0:16:16,0:16:563:0:0:0,-4.81648,-50.9992 0/1:7:4,3:4:135:3:108:-7.96796,0,-10.3753 0/1:36:12,24:12:432:24:830:-63.9844,0,-28.381 0/1:225:96,129:96:3393:129:4609:-347.237,0,-237.85 0/1:163:84,79:84:2942:79:2824:-205.321,0,-215.837 0/0:151:148,3:148:5253:3:108:0,-35.3804,-462.833 0/0:131:131,0:131:4616:0:0:0,-39.4349,-415.536 0/1:111:57,53:57:2032:53:1888:-136.724,0,-149.679 0/1:89:37,52:37:1262:52:1860:-140.888,0,-87.0814 0/1:81:53,28:53:1854:28:971:-63.3142,0,-142.752 0/0:146:145,1:145:5075:1:21:0,-41.8504,-454.756 0/0:44:44,0:44:1493:0:0:0,-13.2453,-134.651 chr12 22940258 . C T 13002.7 PASS AB=0.52;ABP=8.22183;AC=15;AF=0.357143;AN=42;AO=785;CIGAR=1X;DP=2011;DPB=2011;DPRA=1.67268;EPP=1707.62;EPPR=2665.24;GTI=0;LEN=1;MEANALT=1;MQM=59.9924;MQMR=59.9837;NS=21;NUMALT=1;ODDS=11.2713;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27706;QR=43500;RO=1226;RPL=0;RPP=1707.62;RPPR=2665.24;RPR=785;RUN=1;SAF=0;SAP=1707.62;SAR=785;SRF=0;SRP=2665.24;SRR=1226;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:152:69,83:69:2412:83:2942:-219.259,0,-171.58 0/1:46:17,29:17:612:29:1024:-78.6252,0,-41.5661 0/1:91:51,40:51:1819:40:1415:-100.253,0,-136.597 0/1:92:47,45:47:1684:45:1594:-116.052,0,-124.152 0/1:219:98,121:98:3474:121:4255:-317.208,0,-246.948 0/1:48:23,25:23:808:25:860:-63.2625,0,-58.5907 0/1:146:72,74:72:2568:74:2583:-188.769,0,-187.42 0/1:92:35,57:35:1239:57:2006:-153.118,0,-84.1189 0/0:176:174,2:174:6191:2:72:0,-46.1446,-550.452 0/0:18:18,0:18:631:0:0:0,-5.41854,-57.1157 0/1:22:13,9:13:449:9:324:-22.8832,0,-34.1148 0/1:38:24,14:24:852:14:495:-33.4439,0,-65.5612 0/1:106:51,55:51:1816:55:1959:-144.676,0,-131.812 0/1:79:32,47:32:1130:47:1661:-125.994,0,-78.2256 0/0:115:115,0:115:4084:0:0:0,-34.6184,-367.69 0/0:58:58,0:58:2052:0:0:0,-17.4597,-184.949 0/1:109:38,71:38:1352:71:2525:-194.688,0,-89.1681 0/1:166:90,76:90:3175:76:2689:-192.283,0,-236.003 0/1:94:60,34:60:2122:34:1194:-79.4669,0,-162.951 0/0:87:84,3:84:2990:3:108:0,-16.1144,-259.257 0/0:57:57,0:57:2040:0:0:0,-17.1587,-183.872 chr12 22940471 . T C 9813.19 PASS AB=0.441029;ABP=45.2679;AC=15;AF=0.357143;AN=42;AO=620;CIGAR=1X;DP=2090;DPB=2090;DPRA=1.18894;EPP=1349.32;EPPR=3195.07;GTI=1;LEN=1;MEANALT=1;MQM=59.9871;MQMR=60;NS=21;NUMALT=1;ODDS=13.5405;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22113;QR=52671;RO=1470;RPL=620;RPP=1349.32;RPPR=3195.07;RPR=0;RUN=1;SAF=0;SAP=1349.32;SAR=620;SRF=0;SRP=3195.07;SRR=1470;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:172:73,99:73:2620:99:3505:-263.882,0,-184.27 0/1:85:46,39:46:1633:39:1404:-101.072,0,-121.669 0/1:80:52,28:52:1860:28:1000:-66.2324,0,-143.597 0/1:82:44,38:44:1576:38:1364:-98.3763,0,-117.447 0/1:98:45,53:45:1620:53:1903:-142.047,0,-116.589 0/1:101:57,44:57:2044:44:1580:-112.088,0,-153.828 0/1:129:72,57:72:2584:57:2044:-145.396,0,-193.976 0/1:102:81,21:81:2886:21:722:-34.5899,0,-229.268 0/0:227:227,0:227:8115:0:0:0,-68.3338,-730.362 0/0:18:18,0:18:644:0:0:0,-5.41854,-58.2906 0/1:9:8,1:8:284:1:36:-0.889005,0,-23.1941 0/1:27:17,10:17:612:10:360:-24.6165,0,-47.2856 0/1:146:63,83:63:2264:83:2965:-223.132,0,-160.072 0/1:96:74,22:74:2652:22:788:-42.3459,0,-210.027 0/0:256:253,3:253:9092:3:108:0,-66.9885,-808.175 0/0:76:76,0:76:2713:0:0:0,-22.8783,-244.412 0/1:116:63,53:63:2268:53:1874:-134.016,0,-169.463 0/1:95:44,51:44:1580:51:1820:-135.483,0,-113.894 0/1:61:43,18:43:1544:18:640:-39.5665,0,-120.89 0/0:67:67,0:67:2392:0:0:0,-20.169,-215.537 0/0:47:47,0:47:1688:0:0:0,-14.1484,-152.207 chr12 22945564 . C T 41040.4 PASS AB=0.574893;ABP=139.618;AC=16;AF=0.380952;AN=42;AO=1797;CIGAR=1X;DP=3905;DPB=3905;DPRA=0.963252;EPP=3905.15;EPPR=4565.28;GTI=1;LEN=1;MEANALT=1.05556;MQM=59.9722;MQMR=59.9981;NS=21;NUMALT=1;ODDS=17.3454;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=63019;QR=74478;RO=2105;RPL=1235;RPP=550.324;RPPR=3.01133;RPR=562;RUN=1;SAF=1235;SAP=550.324;SAR=562;SRF=1054;SRP=3.01958;SRR=1051;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:248:110,138:110:3828:138:4882:-364.88,0,-270.061 0/1:111:51,60:51:1824:60:2075:-153.599,0,-131.027 0/1:114:63,51:63:2236:51:1779:-126.072,0,-167.184 0/1:163:77,86:77:2718:86:3033:-224.131,0,-195.794 0/1:339:134,205:134:4770:205:7267:-552.032,0,-327.41 0/1:141:57,84:57:2030:84:2982:-226.167,0,-140.526 0/1:222:118,104:118:4161:104:3683:-264.844,0,-307.846 0/1:175:81,94:81:2874:94:3300:-244.538,0,-206.217 0/0:240:239,0:239:8490:0:0:0,-71.9462,-763.744 0/0:20:19,1:19:675:1:36:0,-2.42232,-57.4787 1/1:187:6,181:6:199:181:6383:-556.334,-38.0571,0 0/1:253:34,219:34:1220:219:7616:-609.33,0,-33.9462 0/1:213:115,96:115:4093:96:3375:-240.079,0,-304.679 0/1:136:80,56:80:2837:56:1955:-135.281,0,-214.628 0/0:262:262,0:262:9247:0:0:0,-78.8699,-832.205 0/0:74:74,0:74:2643:0:0:0,-22.2762,-238.116 0/1:102:63,39:63:2252:39:1373:-93.1615,0,-172.238 0/1:428:83,345:83:2884:345:11941:-945.73,0,-130.956 0/1:159:124,35:124:4380:35:1231:-63.2295,0,-346.513 0/0:185:183,2:183:6468:2:72:0,-48.8538,-575.372 0/0:133:132,1:132:4649:1:36:0,-36.4387,-414.981 chr12 22975660 . 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C T 24736.8 PASS AB=0.366631;ABP=293.775;AC=24;AF=0.571429;AN=42;AO=1330;CIGAR=1X;DP=3350;DPB=3350;DPRA=0.390789;EPP=2703.14;EPPR=4372.03;GTI=1;LEN=1;MEANALT=1;MQM=59.5226;MQMR=59.9965;NS=21;NUMALT=1;ODDS=8.39785;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47504;QR=71772;RO=2020;RPL=1308;RPP=2703.14;RPPR=4372.03;RPR=22;RUN=1;SAF=1330;SAP=2891.07;SAR=0;SRF=2020;SRP=4389.38;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:107:52,55:52:1847:55:1968:-145.157,0,-134.299 0/1:74:47,27:47:1680:27:952:-63.6979,0,-129.211 0/1:110:63,47:63:2238:47:1684:-118.734,0,-168.569 0/1:80:53,27:53:1908:27:972:-63.6818,0,-147.915 0/1:211:104,107:104:3711:107:3809:-278.779,0,-270.675 0/1:88:54,34:54:1903:34:1216:-83.0657,0,-145.054 0/1:129:86,43:86:3051:43:1546:-100.579,0,-235.988 0/1:160:80,80:80:2849:80:2864:-209.779,0,-208.482 1/1:186:0,186:0:0:186:6642:-597.007,-55.9916,0 0/1:15:3,12:3:93:12:432:-34.7057,0,-4.16128 0/0:380:380,0:380:13520:0:0:0,-114.391,-1216.59 0/0:453:445,8:445:15795:8:288:0,-110.099,-1394.99 0/1:121:61,60:61:2188:60:2133:-155.786,0,-160.761 0/1:76:41,35:41:1472:35:1244:-89.3855,0,-109.898 1/1:183:0,183:0:0:183:6527:-587.468,-55.0885,0 1/1:71:0,71:0:0:71:2536:-228.46,-21.3731,0 0/1:73:42,31:42:1497:31:1108:-78.0558,0,-113.047 0/1:569:488,81:488:17297:81:2891:-89.1068,0,-1385.08 0/1:69:18,51:18:615:51:1824:-143.664,0,-34.8967 1/1:137:0,137:0:0:137:4896:-440.718,-41.2411,0 1/1:58:3,55:3:108:55:1972:-167.646,-7.38457,0 chr12 22975744 . 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G A 12005.8 PASS AB=0.455673;ABP=30.5394;AC=15;AF=0.357143;AN=42;AO=740;CIGAR=1X;DP=2189;DPB=2189;DPRA=1.14187;EPP=1609.9;EPPR=3145.13;GTI=0;LEN=1;MEANALT=1.11765;MQM=59.9419;MQMR=59.9938;NS=21;NUMALT=1;ODDS=11.4127;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26515;QR=51828;RO=1447;RPL=740;RPP=1609.9;RPPR=3145.13;RPR=0;RUN=1;SAF=0;SAP=1609.9;SAR=740;SRF=0;SRP=3145.13;SRR=1447;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:44,48:44:1584:48:1715:-126.94,0,-115.157 0/1:82:40,42:40:1432:42:1506:-111.15,0,-104.493 0/1:82:48,33:48:1716:33:1180:-81.7649,0,-129.982 0/1:209:122,87:122:4368:87:3119:-218.011,0,-330.379 0/1:265:157,108:157:5612:108:3864:-268.096,0,-425.43 0/1:135:65,70:65:2336:70:2512:-185.693,0,-169.86 0/1:144:62,82:62:2212:82:2939:-221.395,0,-155.997 0/1:84:53,31:53:1904:31:1093:-73.3893,0,-146.351 0/0:169:169,0:169:6045:0:0:0,-50.8741,-544.152 0/0:7:7,0:7:252:0:0:0,-2.10721,-23.029 0/1:9:5,4:5:176:4:144:-10.6043,0,-13.4757 0/1:31:21,10:21:752:10:360:-23.4124,0,-58.6743 0/1:166:98,68:98:3516:68:2440:-169.884,0,-266.674 0/1:107:49,58:49:1741:58:2080:-155.26,0,-124.761 0/0:126:126,0:126:4519:0:0:0,-37.9298,-406.876 0/0:76:73,3:73:2624:3:108:0,-12.8031,-226.332 0/1:75:33,42:33:1184:42:1511:-113.707,0,-84.2911 0/1:56:31,25:31:1108:25:900:-64.4633,0,-83.1733 0/1:76:48,27:48:1715:27:972:-64.8608,0,-131.698 0/0:126:124,2:124:4460:2:72:0,-31.0931,-394.731 0/0:72:72,0:72:2572:0:0:0,-21.6742,-231.73 chr12 23037568 . 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CGACGTC CGAC,TGAC 26386.1 PASS AB=0.517308,0.481731;ABP=5.71629,6.02531;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1011,503;CIGAR=3M3D1M,1X2M3D1M;DP=1515;DPB=865.714;DPRA=0,0.901442;EPP=2198.37,1095.26;EPPR=0;GTI=0;LEN=3,4;MEANALT=1.80952,2.0625;MQM=33.998,38.0755;MQMR=0;NS=21;NUMALT=2;ODDS=9.55535;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=35570,17715;QR=0;RO=0;RPL=1011,503;RPP=2198.37,1095.26;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2198.37,1095.26;SAR=1011,503;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:67:0,34,33:0:0:34,33:1189,1175:-178.955,-92.0283,-81.7932,-87.2568,0,-77.3228 1/2:81:0,39,42:0:0:39,42:1365,1482:-199.507,-108.398,-96.6579,-91.4147,0,-78.7714 1/2:69:0,39,30:0:0:39,30:1388,1060:-184.211,-83.0339,-71.2937,-101.509,0,-92.4782 1/2:70:0,42,28:0:0:42,28:1469,1001:-184.167,-78.4054,-65.7621,-106.093,0,-97.6644 1/2:107:0,55,52:0:0:55,52:1944,1854:-283.756,-143.665,-127.108,-140.419,0,-124.766 1/2:96:0,49,47:0:0:49,47:1721,1643:-235.738,-121.039,-106.288,-115.006,0,-100.857 1/2:91:0,39,52:0:0:39,52:1380,1842:-229.274,-135.177,-123.436,-94.4075,0,-78.7539 1/2:79:0,42,36:0:0:42,36:1488,1248:-197.91,-94.6973,-82.0541,-103.263,0,-92.426 1/1:162:0,162,0:0:0:162,0:5645,0:-472.319,-48.7669,0,-472.319,-48.7669,-472.319 1/1:7:0,7,0:0:0:7,0:252,0:-19.9281,-2.10721,0,-19.9281,-2.10721,-19.9281 1/2:7:0,3,4:0:0:3,4:104,140:-17.8883,-10.7962,-9.89309,-7.40059,0,-6.19647 1/2:36:0,14,22:0:0:14,22:504,773:-94.4887,-59.3527,-55.1383,-35.4558,0,-28.8331 1/2:82:0,37,45:0:0:37,45:1305,1571:-216.31,-121.883,-110.745,-94.7517,0,-81.2054 1/2:60:0,30,30:0:0:30,30:1038,1049:-157.304,-81.9957,-72.9648,-75.6321,0,-66.6012 1/1:142:0,142,0:0:0:142,0:5006,0:-405.166,-42.7463,0,-405.166,-42.7463,-405.166 1/1:44:0,44,0:0:0:44,0:1530,0:-127.941,-13.2453,0,-127.941,-13.2453,-127.941 1/2:37:0,20,17:0:0:20,17:708,600:-100.921,-47.7877,-41.7671,-53.4697,0,-48.3522 1/2:97:0,55,42:0:0:55,42:1938,1467:-245.775,-111.998,-95.4416,-134.095,0,-121.452 1/2:61:0,40,21:0:0:40,21:1424,738:-159.812,-57.944,-45.9028,-102.199,0,-95.8774 1/1:85:0,83,2:0:0:83,2:2924,72:-224.636,-24.9855,0,-219.139,-19.1511,-218.537 1/1:35:0,35,0:0:0:35,0:1248,0:-92.3817,-10.5361,0,-92.3817,-10.5361,-92.3817 chr12 23176511 . TTAA ATAA,ACAA 29500.7 PASS AB=0.648173,0.345061;ABP=143.939,157.103;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1139,264;CIGAR=1X3M,2X2M;DP=1416;DPB=1416.25;DPRA=0,1.55598;EPP=2476.32,576.279;EPPR=5.18177;GTI=1;LEN=1,2;MEANALT=2.14286,2.29412;MQM=59.9842,60;MQMR=60;NS=21;NUMALT=2;ODDS=0.467079;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=40833,9311;QR=36;RO=1;RPL=1139,264;RPP=2476.32,576.279;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2476.32,576.279;SAR=1139,264;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,70,7:0:0:70,7:2501,241:-224.994,-21.0721,0,-205.421,-1.51248,-203.314 1/2:19:0,12,7:0:0:12,7:432,219:-53.1877,-17.909,-14.2966,-35.6088,0,-33.5016 1/2:93:0,64,28:0:0:64,28:2262,986:-264.596,-80.3698,-61.1039,-184.325,0,-175.896 1/2:51:0,32,19:0:0:32,19:1148,671:-148.637,-54.9954,-45.3624,-93.9969,0,-88.2773 1/2:81:0,56,23:0:0:56,23:1993,803:-227.781,-65.3462,-48.4885,-162.468,0,-155.544 1/2:44:0,32,12:0:0:32,12:1152,419:-128.435,-34.43,-24.7971,-94.3572,0,-90.7448 1/2:51:0,37,14:0:0:37,14:1332,502:-149.988,-41.3028,-30.1647,-109.044,0,-104.83 1/2:47:0,36,11:0:0:36,11:1292,396:-138.059,-32.6714,-21.8343,-105.747,0,-102.435 1/1:309:0,308,1:0:0:308,1:11019,34:-991.261,-92.7172,0,-988.503,-89.6194,-988.202 1/1:20:0,20,0:0:0:20,0:720,0:-65.1288,-6.0206,0,-65.1288,-6.0206,-65.1288 1/2:12:0,7,5:0:0:7,5:252,180:-35.6088,-15.0469,-12.9397,-20.9217,0,-19.4166 1/2:56:0,28,28:0:0:28,28:1008,1004:-164.495,-82.247,-73.8182,-82.6075,0,-74.1787 1/2:141:0,89,51:0:0:89,51:3204,1820:-409.95,-148.516,-121.725,-261.579,0,-246.226 1/2:66:0,44,22:0:0:44,22:1584,775:-192.614,-63.4484,-50.2031,-129.52,0,-122.897 1/1:103:0,103,0:0:0:103,0:3703,0:-333.471,-31.0061,0,-333.471,-31.0061,-333.471 1/1:35:0,34,0:0:0:34,0:1224,0:-110.107,-10.235,0,-110.107,-10.235,-110.107 1/2:24:0,16,8:0:0:16,8:576,288:-70.8578,-23.8592,-19.0427,-47.3585,0,-44.9503 1/2:33:1,13,19:1:36:13,19:468,660:-88.5943,-50.7038,-49.7285,-35.249,0,-32.4669 1/2:21:0,13,8:0:0:13,8:468,277:-61.0518,-22.8569,-18.9435,-38.5463,0,-36.138 1/1:104:0,98,1:0:0:98,1:3523,36:-316.911,-29.5009,0,-313.973,-26.5652,-313.672 1/1:28:0,27,0:0:0:27,0:972,0:-87.5922,-8.12781,0,-87.5922,-8.12781,-87.5922 chr12 23190146 . CG TA,TG 64526.7 PASS AB=0.467841,0.529956;ABP=23.4011,20.7035;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1961,1204;CIGAR=2X,1X1M;DP=3170;DPB=3170;DPRA=0,0.999586;EPP=4261.27,2617.46;EPPR=9.52472;GTI=0;LEN=2,1;MEANALT=1.85714,2.125;MQM=50.0403,51.9061;MQMR=60;NS=21;NUMALT=2;ODDS=12.4038;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68710,43000;QR=104;RO=3;RPL=4,0;RPP=4226.6,2617.46;RPPR=9.52472;RPR=1957,1204;RUN=1,1;SAF=4,0;SAP=4226.6,2617.46;SAR=1957,1204;SRF=0;SRP=9.52472;SRR=3;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:146:0,82,63:0:0:82,63:2871,2256:-415.966,-183.687,-159.002,-232.29,0,-213.325 1/2:94:0,59,35:0:0:59,35:2071,1251:-267.406,-100.618,-82.8574,-167.138,0,-156.602 1/2:216:0,78,138:0:0:78,138:2727,4931:-622.056,-401.255,-377.775,-221.152,0,-179.61 1/2:154:0,76,78:0:0:76,78:2651,2777:-439.893,-225.876,-202.998,-214.367,0,-190.887 1/2:310:0,161,148:0:0:161,148:5608,5292:-883.124,-429.365,-380.9,-453.751,0,-409.199 1/2:224:0,85,139:0:0:85,139:2972,4962:-640.661,-401.553,-375.965,-239.458,0,-197.615 1/2:234:0,111,123:0:0:111,123:3898,4404:-669.856,-356.579,-323.165,-313.628,0,-276.601 1/2:155:0,75,80:0:0:75,80:2602,2863:-442.918,-232.706,-210.129,-210.562,0,-186.48 1/1:247:0,247,0:0:0:247,0:8709,0:-781.651,-74.3544,0,-781.651,-74.3544,-781.651 1/1:19:0,19,0:0:0:19,0:665,0:-59.8804,-5.71957,0,-59.8804,-5.71957,-59.8804 1/2:10:0,5,5:0:0:5,5:169,180:-28.556,-14.9572,-13.452,-13.9457,0,-12.4406 1/2:42:0,19,23:0:0:19,23:651,828:-120.135,-67.573,-61.8534,-52.9108,0,-45.9871 1/2:244:0,100,144:0:0:100,144:3551,5159:-707.724,-419.745,-389.642,-288.334,0,-244.986 1/2:237:0,113,124:0:0:113,124:3982,4410:-680.438,-358.203,-324.187,-322.587,0,-285.259 1/1:363:0,363,0:0:0:363,0:12757,0:-1143.33,-109.274,0,-1143.33,-109.274,-1143.33 1/1:84:0,84,0:0:0:84,0:2901,0:-260.76,-25.2865,0,-260.76,-25.2865,-260.76 1/2:94:3,39,52:3:104:39,52:1368,1859:-253.049,-142.909,-139.621,-102.596,0,-95.3956 1/2:36:0,14,22:0:0:14,22:499,776:-103.771,-63.3399,-59.1254,-40.7846,0,-34.1619 1/2:74:0,45,29:0:0:45,29:1581,1016:-210.931,-82.7977,-69.2514,-128.482,0,-119.753 1/1:145:0,144,1:0:0:144,1:5031,36:-448.53,-43.3483,0,-445.601,-40.0601,-445.299 1/1:42:0,42,0:0:0:42,0:1446,0:-128.226,-12.6433,0,-128.226,-12.6433,-128.226 chr12 23190161 . CAAG CAAA,TAAA 65324.7 PASS AB=0.458647,0.540027;ABP=36.5947,34.4741;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1916,1222;CIGAR=3M1X,1X2M1X;DP=3146;DPB=3146.75;DPRA=0,1.01425;EPP=4085.75,2587.52;EPPR=7.35324;GTI=0;LEN=1,4;MEANALT=2.04762,2.25;MQM=50.2035,51.8985;MQMR=60;NS=21;NUMALT=2;ODDS=9.54378;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=36,36;PQR=0;PRO=0;QA=68402,42951;QR=72;RO=2;RPL=13,8;RPP=4051.4,2587.52;RPPR=7.35324;RPR=1903,1214;RUN=1,1;SAF=4,0;SAP=4128.88,2656.55;SAR=1912,1222;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:146:0,80,65:0:0:80,65:2833,2309:-417.462,-187.568,-163.485,-229.928,0,-210.361 1/2:96:0,59,37:0:0:59,37:2112,1303:-275.141,-104.771,-87.0101,-170.72,0,-159.582 1/2:216:0,77,139:0:0:77,139:2764,4925:-624.769,-400.399,-377.22,-224.726,0,-182.883 1/2:155:0,75,79:0:0:75,79:2664,2775:-440.92,-225.271,-202.694,-215.658,0,-191.877 1/2:309:0,159,149:0:0:159,149:5660,5206:-880.902,-421.901,-374.037,-458.89,0,-414.037 1/2:222:0,79,143:0:0:79,143:2823,5030:-633.864,-406.406,-382.624,-227.81,0,-184.763 1/2:232:0,106,126:0:0:106,126:3779,4406:-660.344,-356.363,-324.453,-304.331,0,-266.401 1/2:150:0,70,80:0:0:70,80:2497,2833:-432.278,-230.052,-208.98,-202.58,0,-178.498 1/1:244:2,241,0:2:72:241,0:8622,0:-767.138,-66.6534,0,-767.74,-72.5482,-773.615 1/1:19:0,19,0:0:0:19,0:667,0:-60.0555,-5.71957,0,-60.0555,-5.71957,-60.0555 1/2:10:0,5,5:0:0:5,5:180,180:-29.5141,-14.9572,-13.452,-14.9143,0,-13.4091 1/2:42:0,18,24:0:0:18,24:648,845:-121.367,-68.8065,-63.388,-52.9154,0,-45.6906 1/2:241:0,97,144:0:0:97,144:3459,5079:-693.48,-412.865,-383.665,-280.969,0,-237.621 1/2:239:0,114,125:0:0:114,125:4050,4300:-676,-348.253,-313.936,-328.094,0,-290.466 1/1:357:0,357,0:0:0:357,0:12779,0:-1144.25,-107.468,0,-1144.25,-107.468,-1144.25 1/1:83:0,83,0:0:0:83,0:2952,0:-265.302,-24.9855,0,-265.302,-24.9855,-265.302 1/2:92:0,38,54:0:0:38,54:1351,1940:-268.138,-158.393,-146.954,-110.1,0,-93.8446 1/2:36:0,14,22:0:0:14,22:504,747:-101.646,-60.7716,-56.5572,-41.2251,0,-34.6024 1/2:75:0,46,29:0:0:46,29:1643,1038:-217.963,-84.719,-70.8716,-133.6,0,-124.87 1/1:144:0,142,1:0:0:142,1:5087,35:-453.049,-42.7463,0,-450.208,-39.8515,-449.907 1/1:38:0,37,0:0:0:37,0:1328,0:-117.876,-11.1381,0,-117.876,-11.1381,-117.876 chr12 23194604 . ATT TTT,TTA 28851.6 PASS AB=0.496809,0.502128;ABP=3.09346,3.04726;AC=27,15;AF=0.642857,0.357143;AN=42;AO=920,480;CIGAR=1X2M,1X1M1X;DP=1403;DPB=1403;DPRA=17.4875,2.34375;EPP=2000.76,1045.32;EPPR=5.18177;GTI=1;LEN=1,3;MEANALT=1.9,2.05882;MQM=59.975,59.9667;MQMR=60;NS=21;NUMALT=2;ODDS=6.12644;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33015,16543;QR=28;RO=1;RPL=920,480;RPP=2000.76,1045.32;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=920,480;SAP=2000.76,1045.32;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:55:0,25,30:0:0:25,30:900,1040:-158.317,-84.8759,-77.3502,-73.7953,0,-64.7644 1/2:13:0,6,7:0:0:6,7:216,240:-37.4578,-19.8254,-18.0192,-17.9843,0,-15.8771 1/2:70:0,39,31:0:0:39,31:1404,1063:-201.213,-86.6438,-74.9037,-114.919,0,-105.587 1/2:85:0,39,46:0:0:39,46:1400,1570:-241.948,-127.739,-115.999,-114.559,0,-100.712 1/2:121:0,41,79:0:0:41,79:1476,2692:-338.877,-218.522,-206.18,-120.481,0,-96.6994 1/2:51:0,14,37:0:0:14,37:504,1285:-145.939,-104.812,-100.598,-41.4837,0,-30.3456 1/2:86:0,54,32:0:0:54,32:1936,1104:-247.943,-90.032,-73.7764,-158.261,0,-148.628 1/2:72:0,38,34:0:0:38,34:1368,1182:-208.078,-96.4493,-85.0102,-111.982,0,-101.747 1/1:149:1,147,1:1:28:147,1:5271,21:-471.758,-41.9977,0,-470.471,-42.6975,-472.388 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 2/2:4:0,0,4:0:0:0,4:0,138:-12.7604,-12.7604,-12.7604,-1.20412,-1.20412,0 1/1:26:0,24,2:0:0:24,2:864,64:-77.7596,-7.22472,0,-72.6065,-1.74868,-72.0045 1/2:149:0,75,74:0:0:75,74:2692,2547:-426.802,-207.206,-184.629,-219.947,0,-197.671 1/2:81:0,40,41:0:0:40,41:1427,1426:-232.628,-116.295,-104.254,-116.686,0,-104.343 1/1:64:0,64,0:0:0:64,0:2304,0:-207.62,-19.2659,0,-207.62,-19.2659,-207.62 1/1:16:0,16,0:0:0:16,0:576,0:-52.175,-4.81648,0,-52.175,-4.81648,-52.175 1/2:19:0,13,6:0:0:13,6:468,208:-55.4479,-17.2523,-13.3389,-38.5463,0,-36.7401 1/2:38:0,22,16:0:0:22,16:792,559:-110.452,-45.8227,-39.2,-64.983,0,-60.1665 1/2:100:0,61,39:0:0:61,39:2177,1368:-289.156,-111.677,-93.3144,-177.832,0,-166.091 1/1:156:0,154,1:0:0:154,1:5520,36:-496.618,-46.3586,0,-493.68,-43.3663,-493.379 1/1:44:0,44,0:0:0:44,0:1576,0:-142.132,-13.2453,0,-142.132,-13.2453,-142.132 chr12 23230033 . TTATA CTATG,CTATA 43926.5 PASS AB=0.545872,0.449541;ABP=30.9008,36.7578;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1448,688;CIGAR=1X3M1X,1X4M;DP=2145;DPB=2145;DPRA=0,0.901431;EPP=3138.62,1496.98;EPPR=0;GTI=0;LEN=5,1;MEANALT=2.2381,2.47059;MQM=59.9669,60;MQMR=0;NS=21;NUMALT=2;ODDS=8.87633;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=51038,24534;QR=0;RO=0;RPL=1447,688;RPP=3138.62,1496.98;RPPR=0;RPR=1,0;RUN=1,1;SAF=0,0;SAP=3147.3,1496.98;SAR=1448,688;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:109:0,62,45:0:0:62,45:2162,1582:-304.699,-128.866,-110.202,-175.928,0,-162.381 1/2:85:0,43,41:0:0:43,41:1506,1457:-241.315,-118.78,-105.836,-122.586,0,-110.243 1/2:124:0,63,59:0:0:63,59:2220,2109:-352.704,-171.957,-152.992,-180.742,0,-162.982 1/2:97:0,55,42:0:0:55,42:1936,1508:-280.971,-123.371,-106.815,-157.955,0,-145.312 1/2:198:0,91,106:0:0:91,106:3191,3766:-566.619,-306.948,-279.555,-259.742,0,-227.833 1/2:115:0,54,61:0:0:54,61:1916,2181:-334.295,-178.191,-161.936,-156.459,0,-138.097 1/2:173:0,100,73:0:0:100,73:3534,2605:-500.527,-212.722,-182.619,-288.161,0,-266.186 1/2:131:0,84,47:0:0:84,47:2964,1672:-377.974,-136.619,-111.332,-241.71,0,-227.562 1/1:184:0,183,0:0:0:183,0:6497,0:-584.551,-55.0885,0,-584.551,-55.0885,-584.551 1/1:13:0,13,0:0:0:13,0:451,0:-40.9199,-3.91339,0,-40.9199,-3.91339,-40.9199 1/2:8:0,4,4:0:0:4,4:140,144:-23.4953,-12.1095,-10.9054,-11.7406,0,-10.5365 1/2:31:0,15,16:0:0:15,16:510,572:-88.3538,-46.9969,-42.4815,-41.7051,0,-36.8886 1/2:117:0,62,55:0:0:62,55:2190,1972:-339.544,-161.198,-142.534,-178.702,0,-162.145 1/2:128:0,65,62:0:0:65,62:2299,2205:-366.94,-179.69,-160.123,-187.245,0,-168.581 1/1:185:0,185,0:0:0:185,0:6527,0:-587.514,-55.6906,0,-587.514,-55.6906,-587.514 1/1:62:0,62,0:0:0:62,0:2211,0:-199.255,-18.6639,0,-199.255,-18.6639,-199.255 1/2:76:0,54,22:0:0:54,22:1909,792:-220.456,-64.983,-48.7274,-155.831,0,-149.208 1/2:75:0,37,38:0:0:37,38:1303,1357:-217.068,-110.991,-99.8529,-106.432,0,-94.9926 1/2:59:0,44,15:0:0:44,15:1557,540:-171.238,-44.4211,-31.1758,-127.175,0,-122.66 1/1:127:0,125,1:0:0:125,1:4354,36:-391.685,-37.6288,0,-388.747,-34.6913,-388.446 1/1:48:0,47,1:0:0:47,1:1661,36:-149.418,-14.1484,0,-146.48,-10.8512,-146.179 chr12 23245702 . T A 7044.08 PASS AB=0.400329;ABP=107.763;AC=15;AF=0.357143;AN=42;AO=488;CIGAR=1X;DP=1702;DPB=1702;DPRA=0.947867;EPP=1062.69;EPPR=2637.01;GTI=2;LEN=1;MEANALT=1;MQM=59.6865;MQMR=59.9769;NS=21;NUMALT=1;ODDS=1.60207;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17096;QR=43486;RO=1213;RPL=0;RPP=1062.69;RPPR=2637.01;RPR=488;RUN=1;SAF=488;SAP=1062.69;SAR=0;SRF=1213;SRP=2637.01;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:117:62,55:62:2220:55:1941:-139.71,0,-164.844 0/1:52:42,10:42:1500:10:341:-15.319,0,-119.639 0/1:100:73,27:73:2624:27:949:-55.6082,0,-206.304 0/1:120:75,45:75:2692:45:1578:-106.059,0,-206.401 0/1:185:118,67:118:4244:67:2347:-155.794,0,-326.429 0/1:110:77,33:77:2760:33:1124:-68.3331,0,-215.528 0/1:116:58,58:58:2073:58:2060:-150.741,0,-151.919 0/1:60:29,31:29:1036:31:1100:-81.1417,0,-75.4921 0/0:144:144,0:144:5160:0:0:0,-43.3483,-464.536 0/0:7:6,0:6:216:0:0:0,-1.80618,-19.4307 0/1:5:3,2:3:108:2:72:-5.33157,0,-8.57002 0/1:17:14,3:14:504:3:108:-4.95766,0,-40.5806 0/1:97:36,61:36:1288:61:2138:-163.463,0,-87.0237 0/1:85:44,41:44:1561:41:1397:-100.431,0,-115.192 0/0:111:111,0:111:3988:0:0:0,-33.4143,-359.108 0/0:102:102,0:102:3656:0:0:0,-30.7051,-329.244 0/1:81:49,32:49:1756:32:1137:-78.2535,0,-133.941 0/1:33:18,15:18:648:15:520:-37.1939,0,-48.7179 0/1:36:30,6:30:1068:6:212:-8.58772,0,-85.5926 0/0:66:64,2:64:2304:2:72:0,-13.0313,-200.784 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 chr12 23245992 . CTCTT CTCTC,ATCTC 40041.2 PASS AB=0.556595,0.440599;ABP=32.7507,35.7733;AC=27,15;AF=0.642857,0.357143;AN=42;AO=996,474;CIGAR=4M1X,1X3M1X;DP=1475;DPB=1475.2;DPRA=0,1.23529;EPP=1164.84,1023.62;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.04762,2.23529;MQM=60,59.6245;MQMR=0;NS=21;NUMALT=2;ODDS=11.5369;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=13.5,13.5;PQR=0;PRO=0;QA=35139,16485;QR=0;RO=0;RPL=381,254;RPP=122.389,8.30613;RPPR=0;RPR=615,220;RUN=1,1;SAF=514,255;SAP=5.24282,8.94749;SAR=482,219;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:67:0,43,23:0:0:43,23:1531,777:-187.752,-62.9584,-50.0141,-124.779,0,-117.855 1/2:58:0,30,28:0:0:30,28:1072,977:-167.222,-79.8133,-70.7824,-87.7616,0,-79.3327 1/2:59:0,30,29:0:0:30,29:1062,1002:-168.223,-81.7132,-72.6823,-86.8591,0,-78.1292 1/2:64:0,30,34:0:0:30,34:1054,1210:-184.752,-98.9675,-89.9366,-86.1383,0,-75.9033 1/2:116:0,56,60:0:0:56,60:2008,2108:-335.671,-171.89,-155.033,-164.136,0,-146.074 1/2:63:0,46,17:0:0:46,17:1597,591:-178.209,-48.3889,-34.5415,-130.167,0,-125.05 1/2:101:0,58,42:0:0:58,42:2032,1491:-286.828,-121.493,-104.033,-165.348,0,-152.705 1/2:94:0,41,53:0:0:41,53:1437,1834:-266.308,-149.375,-137.033,-117.281,0,-101.327 1/1:108:0,107,0:0:0:107,0:3806,0:-342.379,-32.2102,0,-342.379,-32.2102,-342.379 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:5:0,2,3:0:0:2,3:72,107:-14.9552,-9.07908,-8.47702,-6.23466,0,-5.33157 1/2:21:0,10,11:0:0:10,11:356,376:-59.8783,-30.8564,-27.8461,-29.3709,0,-26.0596 1/2:70:0,47,23:0:0:47,23:1662,801:-200.624,-65.2553,-51.1068,-135.718,0,-128.794 1/2:82:0,41,40:0:0:41,40:1446,1378:-229.733,-111.988,-99.6458,-117.82,0,-105.779 1/1:76:0,76,0:0:0:76,0:2671,0:-240.635,-22.8783,0,-240.635,-22.8783,-240.635 1/1:45:0,45,0:0:0:45,0:1574,0:-141.947,-13.5464,0,-141.947,-13.5464,-141.947 1/2:31:0,21,10:0:0:21,10:744,334:-87.996,-27.3737,-21.0521,-60.9627,0,-57.9524 1/2:141:0,78,63:0:0:78,63:2693,2185:-396.674,-177.889,-154.409,-219.072,0,-200.107 1/2:97:0,62,35:0:0:62,35:2220,1211:-279.797,-98.7465,-80.0827,-181.401,0,-170.865 1/1:68:0,65,2:0:0:65,2:2312,72:-207.982,-19.567,0,-202.109,-13.6945,-201.507 1/1:102:0,101,1:0:0:101,1:3538,31:-318.32,-30.404,0,-315.832,-27.6056,-315.531 chr12 23246008 . T C 9391.81 PASS AB=0.423004;ABP=57.1815;AC=15;AF=0.357143;AN=42;AO=446;CIGAR=1X;DP=1469;DPB=1469;DPRA=1.00665;EPP=971.487;EPPR=2224.43;GTI=0;LEN=1;MEANALT=1;MQM=59.6637;MQMR=59.9883;NS=21;NUMALT=1;ODDS=7.78053;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15787;QR=36670;RO=1023;RPL=245;RPP=12.4362;RPPR=3.11431;RPR=201;RUN=1;SAF=245;SAP=12.4362;SAR=201;SRF=515;SRP=3.11431;SRR=508;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:45,21:45:1616:21:737:-46.7808,0,-125.862 0/1:57:29,28:29:1044:28:1004:-73.5172,0,-77.1161 0/1:58:30,28:30:1076:28:987:-71.6827,0,-79.6931 0/1:62:29,33:29:1029:33:1180:-87.8395,0,-74.2573 0/1:113:58,55:58:2080:55:1951:-141.719,0,-153.454 0/1:60:45,15:45:1620:15:540:-30.8665,0,-128.028 0/1:101:61,40:61:2192:40:1440:-99.4903,0,-167.141 0/1:93:42,51:42:1493:51:1817:-135.803,0,-106.667 0/0:112:112,0:112:4011:0:0:0,-33.7154,-361.178 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/1:6:3,3:3:108:3:104:-7.89663,0,-8.26899 0/1:20:10,10:10:360:10:342:-25.0884,0,-26.7237 0/1:71:49,22:49:1752:22:773:-48.4097,0,-136.591 0/1:78:40,38:40:1436:38:1327:-96.232,0,-106.057 0/0:79:79,0:79:2828:0:0:0,-23.7814,-254.759 0/0:46:46,0:46:1656:0:0:0,-13.8474,-149.328 0/1:31:22,9:22:792:9:324:-20.1739,0,-62.2737 0/1:140:80,60:80:2872:60:2123:-149.192,0,-216.572 0/1:96:64,32:64:2292:32:1102:-70.5745,0,-177.643 0/0:69:68,1:68:2433:1:36:0,-17.1728,-215.603 0/0:103:103,0:103:3692:0:0:0,-31.0061,-332.482 chr12 23248176 . C A 15675.9 PASS AB=0.498399;ABP=3.05201;AC=15;AF=0.357143;AN=42;AO=942;CIGAR=1X;DP=3171;DPB=3171;DPRA=1.34766;EPP=2048.54;EPPR=4843.22;GTI=0;LEN=1;MEANALT=1;MQM=59.9936;MQMR=59.9753;NS=21;NUMALT=1;ODDS=21.2783;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33694;QR=79674;RO=2229;RPL=0;RPP=2048.54;RPPR=4843.22;RPR=942;RUN=1;SAF=942;SAP=2048.54;SAR=0;SRF=2229;SRP=4843.22;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:116:50,66:50:1796:66:2364:-178.098,0,-127.003 0/1:182:74,108:74:2643:108:3865:-293.256,0,-183.329 0/1:130:62,68:62:2216:68:2420:-178.921,0,-160.571 0/1:188:91,97:91:3240:97:3488:-257.536,0,-235.229 0/1:153:77,76:77:2744:76:2707:-197.815,0,-201.146 0/1:143:75,68:75:2676:68:2440:-176.808,0,-198.039 0/1:113:48,65:48:1716:65:2332:-176.123,0,-120.709 0/1:159:77,82:77:2759:82:2940:-216.97,0,-200.687 0/0:180:180,0:180:6460:0:0:0,-54.1854,-581.113 0/0:36:35,1:35:1244:1:36:0,-7.2388,-108.666 0/1:14:5,9:5:180:9:324:-25.2914,0,-12.3376 0/1:64:40,24:40:1432:24:864:-58.8166,0,-109.483 0/1:118:75,43:75:2680:43:1518:-101.388,0,-205.924 0/1:127:56,71:56:2000:71:2515:-188.369,0,-142.043 0/0:817:813,4:813:29079:4:144:0,-232.628,-2602.94 0/0:103:103,0:103:3680:0:0:0,-31.0061,-331.404 0/1:105:66,39:66:2340:39:1400:-94.691,0,-179.252 0/1:167:81,86:81:2882:86:3081:-227.239,0,-209.344 0/1:95:63,32:63:2255:32:1148:-75.032,0,-174.614 0/0:95:92,3:92:3288:3:108:0,-18.5227,-286.065 0/0:66:66,0:66:2364:0:0:0,-19.868,-213.018 chr12 23248188 . T G 45401.8 PASS AB=0.503222;ABP=3.17823;AC=27;AF=0.642857;AN=42;AO=2228;CIGAR=1X;DP=3164;DPB=3164;DPRA=0;EPP=4823.69;EPPR=2013.83;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9645;MQMR=59.9936;NS=21;NUMALT=1;ODDS=20.7919;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=79494;QR=33514;RO=934;RPL=2;RPP=4823.69;RPPR=2013.83;RPR=2226;RUN=1;SAF=2228;SAP=4841.05;SAR=0;SRF=934;SRP=2031.17;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:115:64,51:64:2296:51:1823:-129.733,0,-172.283 0/1:177:105,72:105:3768:72:2572:-178.448,0,-286.036 0/1:128:68,60:68:2431:60:2152:-155.415,0,-180.513 0/1:189:94,95:94:3368:95:3385:-247.97,0,-246.441 0/1:152:76,76:76:2732:76:2711:-198.477,0,-200.366 0/1:144:71,73:71:2527:73:2593:-190.269,0,-184.333 0/1:112:64,48:64:2292:48:1716:-121.01,0,-172.826 0/1:160:81,79:81:2904:79:2813:-205.245,0,-213.431 1/1:183:1,180:1:36:180:6404:-572.834,-51.233,0 1/1:36:1,35:1:36:35:1231:-107.495,-7.23881,0 0/1:14:9,5:9:324:5:176:-11.9706,0,-25.2914 0/1:65:24,41:24:864:41:1449:-111.008,0,-58.5156 0/1:117:43,74:43:1548:74:2637:-202.355,0,-104.393 0/1:126:69,57:69:2484:57:2039:-145.852,0,-185.883 1/1:816:4,812:4:144:812:29024:-2597.98,-232.327,0 1/1:101:0,101:0:0:101:3612:-325.286,-30.404,0 0/1:102:39,63:39:1404:63:2233:-170.528,0,-95.9542 0/1:164:85,79:85:3060:79:2832:-205.75,0,-226.254 0/1:97:33,64:33:1188:64:2280:-176.262,0,-78.0287 1/1:96:3,93:3:108:93:3333:-290.109,-18.8237,0 1/1:70:0,70:0:0:70:2479:-223.362,-21.0721,0 chr12 23282724 . C T 28151.5 PASS AB=0.525321;ABP=11.2578;AC=27;AF=0.642857;AN=42;AO=1420;CIGAR=1X;DP=2126;DPB=2126;DPRA=0;EPP=3077.82;EPPR=1516.58;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9296;MQMR=59.9816;NS=21;NUMALT=1;ODDS=3.885;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=50694;QR=24958;RO=705;RPL=1419;RPP=3077.82;RPPR=1516.58;RPR=1;RUN=1;SAF=1420;SAP=3086.5;SAR=0;SRF=705;SRP=1533.9;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:97:46,51:46:1631:51:1828:-135.6,0,-117.878 0/1:26:13,13:13:456:13:468:-34.6329,0,-33.5465 0/1:142:61,81:61:2166:81:2903:-218.758,0,-152.459 0/1:126:66,60:66:2349:60:2133:-154.307,0,-173.726 0/1:133:62,70:62:2190:70:2507:-185.786,0,-157.269 0/1:70:39,31:39:1378:31:1103:-78.4879,0,-103.245 0/1:146:77,69:77:2726:69:2446:-176.437,0,-201.633 0/1:164:66,98:66:2326:98:3483:-264.31,0,-160.231 1/1:234:0,234:0:0:234:8378:-754.024,-70.441,0 1/1:10:0,10:0:0:10:346:-31.4718,-3.0103,0 0/1:6:1,5:1:36:5:169:-13.7347,0,-1.79209 0/1:29:10,19:10:351:19:684:-53.1605,0,-23.1968 0/1:171:84,87:84:2966:87:3109:-228.551,0,-215.696 0/1:193:103,90:103:3692:90:3197:-229.853,0,-274.383 1/1:153:0,153:0:0:153:5496:-494.764,-46.0576,0 1/1:32:0,32:0:0:32:1148:-103.63,-9.63296,0 0/1:31:12,19:12:424:19:680:-52.1972,0,-29.1645 0/1:68:35,33:35:1224:33:1173:-85.4055,0,-89.9908 0/1:79:27,52:27:935:52:1848:-142.817,0,-60.678 1/1:163:3,160:3:108:160:5728:-505.56,-38.9927,0 1/1:53:0,53:0:0:53:1867:-168.166,-15.9546,0 chr12 23282793 . TA AG,AA 30279.9 PASS AB=0.521701,0.473958;ABP=7.7227,9.79615;AC=27,15;AF=0.642857,0.357143;AN=42;AO=943,548;CIGAR=2X,1X1M;DP=1496;DPB=1496;DPRA=0,2.41132;EPP=2050.71,1192.98;EPPR=5.18177;GTI=0;LEN=2,1;MEANALT=2,2.23529;MQM=59.9915,60;MQMR=60;NS=21;NUMALT=2;ODDS=3.28398;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=33188,19542;QR=23;RO=1;RPL=0,0;RPP=2050.71,1192.98;RPPR=5.18177;RPR=943,548;RUN=1,1;SAF=0,0;SAP=2050.71,1192.98;SAR=943,548;SRF=0;SRP=5.18177;SRR=1;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:0,46,36:0:0:46,36:1624,1292:-237.72,-105.474,-91.6269,-132.329,0,-121.492 1/2:26:0,9,17:0:0:9,17:307,612:-75.1991,-50.2959,-47.5867,-25.2507,0,-20.1332 1/2:95:0,44,51:0:0:44,51:1566,1832:-277.436,-149.808,-136.563,-127.985,0,-112.633 1/2:66:0,26,40:0:0:26,40:910,1403:-188.558,-114.522,-106.696,-74.3862,0,-62.345 1/2:153:1,73,78:1:23:73,78:2551,2770:-431.205,-223.995,-203.787,-205.8,0,-184.087 1/2:60:0,20,40:0:0:20,40:708,1432:-174.806,-117.136,-111.115,-58.0249,0,-45.9837 1/2:99:0,53,46:0:0:53,46:1863,1639:-285.589,-133.951,-117.996,-151.993,0,-138.145 1/2:65:0,34,30:0:0:34,30:1185,1071:-183.675,-87.311,-77.076,-96.3574,0,-87.3265 1/1:153:0,152,1:0:0:152,1:5371,36:-483.166,-45.7566,0,-480.229,-42.4593,-479.928 1/1:8:0,8,0:0:0:8,0:266,0:-24.2628,-2.40824,0,-24.2628,-2.40824,-24.2628 1/2:5:0,4,1:0:0:4,1:144,36:-15.0469,-3.29724,-2.09312,-12.1095,0,-11.8085 1/2:28:0,21,7:0:0:21,7:746,252:-81.7051,-20.9217,-14.6001,-61.142,0,-59.0348 1/2:131:0,73,58:0:0:73,58:2547,2072:-376.441,-169.291,-147.316,-207.504,0,-190.044 1/2:153:0,80,73:0:0:80,73:2831,2600:-442.862,-212.271,-188.189,-230.945,0,-208.97 1/1:55:0,55,0:0:0:55,0:1928,0:-173.793,-16.5567,0,-173.793,-16.5567,-173.793 1/1:25:0,25,0:0:0:25,0:885,0:-79.969,-7.52575,0,-79.969,-7.52575,-79.969 1/2:18:0,12,6:0:0:12,6:430,216:-53.0528,-17.9843,-14.372,-35.4277,0,-33.6216 1/2:83:0,40,42:0:0:40,42:1389,1487:-234.16,-121.248,-109.206,-113.028,0,-100.385 1/2:87:0,66,21:0:0:66,21:2366,756:-255.017,-62.0456,-42.1776,-193.331,0,-187.009 1/1:58:0,57,1:0:0:57,1:1998,36:-179.731,-17.1587,0,-176.793,-13.8615,-176.492 1/1:45:0,45,0:0:0:45,0:1573,0:-141.858,-13.5464,0,-141.858,-13.5464,-141.858 chr12 23309663 . A T 19659.4 PASS AB=0.492644;ABP=4.12844;AC=15;AF=0.357143;AN=42;AO=1179;CIGAR=1X;DP=3205;DPB=3205;DPRA=1.28883;EPP=2563.18;EPPR=4400.24;GTI=0;LEN=1;MEANALT=1.05556;MQM=59.961;MQMR=59.9916;NS=21;NUMALT=1;ODDS=11.9678;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=42036;QR=72426;RO=2025;RPL=0;RPP=2563.18;RPPR=4400.24;RPR=1179;RUN=1;SAF=0;SAP=2563.18;SAR=1179;SRF=0;SRP=4400.24;SRR=2025;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:208:109,99:109:3891:99:3529:-255.205,0,-287.77 0/1:145:82,63:82:2936:63:2244:-158.574,0,-220.755 0/1:168:80,88:80:2880:88:3129:-231.263,0,-208.863 0/1:174:92,82:92:3274:82:2940:-212.455,0,-242.501 0/1:354:150,203:150:5363:203:7266:-547.365,0,-376.179 0/1:177:92,85:92:3296:85:3028:-219.467,0,-243.577 0/1:186:82,104:82:2931:104:3731:-279.998,0,-208.033 0/1:200:106,94:106:3777:94:3352:-241.691,0,-279.922 0/0:272:272,0:272:9740:0:0:0,-81.8802,-876.548 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:7:3,4:3:108:4:144:-11.2064,0,-7.96796 0/1:52:33,19:33:1184:19:680:-45.8756,0,-91.2148 0/1:255:130,125:130:4649:125:4450:-323.908,0,-341.808 0/1:155:66,89:66:2360:89:3159:-237.79,0,-165.999 0/0:172:171,1:171:6122:1:36:0,-48.1789,-547.481 0/0:110:109,1:109:3912:1:36:0,-29.515,-348.674 0/1:113:67,46:67:2400:46:1614:-111.459,0,-182.24 0/1:97:53,44:53:1899:44:1578:-113.112,0,-141.987 0/1:88:61,27:61:2188:27:944:-58.7807,0,-170.695 0/0:177:172,5:172:6134:5:176:0,-37.0973,-535.976 0/0:83:83,0:83:2950:0:0:0,-24.9855,-265.734 chr12 23309690 . 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C T 19641.2 PASS AB=0.515672;ABP=5.12029;AC=26;AF=0.619048;AN=42;AO=977;CIGAR=1X;DP=1464;DPB=1464;DPRA=14.59;EPP=2089.94;EPPR=1060.52;GTI=1;LEN=1;MEANALT=1;MQM=59.9672;MQMR=60;NS=21;NUMALT=1;ODDS=11.2722;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=35010;QR=17427;RO=487;RPL=973;RPP=2089.94;RPPR=1060.52;RPR=4;RUN=1;SAF=0;SAP=2124.54;SAR=977;SRF=0;SRP=1060.52;SRR=487;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:37,29:37:1332:29:1044:-74.4064,0,-100.314 0/1:39:23,16:23:824:16:576:-40.4348,0,-62.7431 0/1:76:39,37:39:1385:37:1315:-95.7729,0,-102.069 0/1:85:37,48:37:1328:48:1720:-129.435,0,-94.2347 0/1:132:56,76:56:2012:76:2732:-206.386,0,-141.617 0/1:62:30,32:30:1080:32:1141:-84.335,0,-78.8494 0/1:95:40,55:40:1440:55:1976:-149.517,0,-101.3 0/1:39:24,15:24:864:15:536:-36.8346,0,-66.3424 1/1:131:1,130:1:36:130:4667:-416.591,-35.8367,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/0:5:5,0:5:171:0:0:0,-1.50515,-15.7255 0/1:29:17,12:17:599:12:432:-30.4913,0,-45.5082 0/1:104:49,55:49:1748:55:1972:-146.448,0,-126.297 0/1:72:48,24:48:1712:24:864:-56.4084,0,-132.692 1/1:102:0,102:0:0:102:3664:-329.963,-30.7051,0 1/1:27:0,27:0:0:27:968:-87.434,-8.12781,0 0/1:50:25,25:25:892:25:885:-64.915,0,-65.5482 0/1:68:31,37:31:1108:37:1319:-98.5411,0,-79.561 0/1:72:23,49:23:824:49:1758:-136.83,0,-52.8092 1/1:140:2,138:2:72:138:4936:-437.553,-35.3075,0 1/1:62:0,62:0:0:62:2217:-199.793,-18.6639,0 chr12 23335714 . G T 27413.2 PASS AB=0.488938;ABP=4.93196;AC=27;AF=0.642857;AN=42;AO=1502;CIGAR=1X;DP=2430;DPB=2430;DPRA=0;EPP=3264.56;EPPR=2013.79;GTI=0;LEN=1;MEANALT=1.09524;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=5.86339;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=51901;QR=32934;RO=926;RPL=1502;RPP=3264.56;RPPR=2013.79;RPR=0;RUN=1;SAF=0;SAP=3264.56;SAR=1502;SRF=0;SRP=2013.79;SRR=926;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:144:75,68:75:2657:68:2343:-167.868,0,-196.117 0/1:161:88,73:88:3147:73:2494:-176.247,0,-234.989 0/1:103:62,41:62:2220:41:1420:-97.0895,0,-169.058 0/1:194:115,79:115:4081:79:2765:-190.694,0,-309.078 0/1:119:57,61:57:2028:61:2061:-149.874,0,-146.911 0/1:143:64,79:64:2272:79:2763:-205.866,0,-161.696 0/1:233:106,127:106:3784:127:4377:-323.971,0,-270.62 0/1:114:61,53:61:2172:53:1819:-129.668,0,-161.429 1/1:175:1,174:1:36:174:6003:-536.793,-49.082,0 1/1:11:0,11:0:0:11:396:-35.9827,-3.31133,0 0/1:7:6,1:6:216:1:32:-1.0921,0,-17.6833 0/1:27:23,4:23:820:4:125:-3.43081,0,-65.9947 0/1:165:88,77:88:3137:77:2650:-189.079,0,-232.885 0/1:176:80,96:80:2817:96:3306:-244.781,0,-200.789 1/1:72:0,72:0:0:72:2448:-220.57,-21.6742,0 1/1:175:3,172:3:104:172:5936:-524.667,-42.9774,0 0/1:91:47,44:47:1660:44:1491:-107.082,0,-122.294 0/1:60:25,35:25:896:35:1232:-93.1222,0,-62.8986 0/1:71:25,46:25:887:46:1602:-123.092,0,-58.775 1/1:119:0,119:0:0:119:4166:-375.129,-35.8226,0 1/1:70:0,70:0:0:70:2472:-222.736,-21.0721,0 chr12 23361850 . ACAGGTGGCC ACAGATGGCC,ACAGCTGGCA 14556.3 PASS AB=0.434572,0.486268;ABP=26.0265,4.02412;AC=27,15;AF=0.642857,0.357143;AN=42;AO=441,301;CIGAR=4M1X5M,4M1X4M1X;DP=794;DPB=794.1;DPRA=0,1.41486;EPP=960.63,656.623;EPPR=5.18177;GTI=0;LEN=1,10;MEANALT=3.47619,4.33333;MQM=59.3696,52.5681;MQMR=60;NS=21;NUMALT=2;ODDS=5.19494;PAIRED=0,0;PAIREDR=0;PAO=0.25,0.25;PQA=9,9;PQR=9;PRO=0.25;QA=15396,10456;QR=30;RO=1;RPL=441,301;RPP=960.63,656.623;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=441,301;SAP=960.63,656.623;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:14:0,7,5:0:0:7,5:244,176:-34.2564,-14.3982,-12.2909,-19.9289,0,-18.4237 1/2:26:0,10,13:0:0:10,13:348,468:-66.3575,-38.0606,-35.0503,-28.3427,0,-24.4293 1/2:35:0,22,12:0:0:22,12:749,405:-93.6126,-32.8657,-26.243,-60.822,0,-57.2096 1/2:48:0,28,17:0:0:28,17:1000,595:-129.864,-48.3273,-39.8985,-81.5632,0,-76.4457 1/2:133:0,49,76:0:0:49,76:1708,2623:-351.299,-212.391,-197.641,-138.964,0,-116.086 1/2:15:0,4,10:0:0:4,10:144,341:-39.0469,-27.2905,-26.0864,-11.7856,0,-8.77535 1/2:49:0,19,25:0:0:19,25:660,881:-124.467,-71.0802,-65.3606,-53.45,0,-45.9243 1/2:34:0,14,18:0:0:14,18:492,644:-92.4568,-52.4194,-48.2049,-40.1099,0,-34.6914 1/1:71:0,69,0:0:0:69,0:2456,0:-220.849,-20.7711,0,-220.849,-20.7711,-220.849 1/1:10:0,10,0:0:0:10,0:345,0:-31.3808,-3.0103,0,-31.3808,-3.0103,-31.3808 1/2:4:0,2,1:0:0:2,1:72,36:-8.88388,-2.98124,-2.37918,-5.9482,0,-5.64717 1/2:12:0,2,10:0:0:2,10:72,352:-34.8055,-28.9292,-28.3271,-6.23466,0,-3.22436 1/2:44:0,17,22:0:0:17,22:573,784:-110.199,-63.8733,-58.7558,-46.3443,0,-39.7216 1/2:40:0,24,13:0:0:24,13:803,447:-101.213,-36.3498,-29.125,-64.9482,0,-61.0348 1/1:40:0,40,0:0:0:40,0:1420,0:-128.097,-12.0412,0,-128.097,-12.0412,-128.097 1/1:12:0,12,0:0:0:12,0:424,0:-38.4941,-3.61236,0,-38.4941,-3.61236,-38.4941 1/2:15:0,4,11:0:0:4,11:140,392:-43.6087,-32.2195,-31.0154,-11.7405,0,-8.42913 1/2:112:0,50,52:0:0:50,52:1738,1786:-285.236,-143.955,-128.904,-141.323,0,-125.67 1/2:38:1,17,16:1:30:17,16:571,526:-85.8537,-39.898,-37.1782,-43.8932,0,-41.4742 1/1:24:0,23,0:0:0:23,0:801,0:-72.1431,-6.92369,0,-72.1431,-6.92369,-72.1431 1/1:18:0,18,0:0:0:18,0:636,0:-57.5212,-5.41854,0,-57.5212,-5.41854,-57.5212 chr12 23375455 . C T 9532.27 PASS AB=0.529619;ABP=13.8156;AC=14;AF=0.333333;AN=42;AO=775;CIGAR=1X;DP=2229;DPB=2229;DPRA=1.32647;EPP=1685.9;EPPR=3158.16;GTI=0;LEN=1;MEANALT=1;MQM=32.8245;MQMR=45.3524;NS=21;NUMALT=1;ODDS=20.7648;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=27559;QR=51391;RO=1453;RPL=774;RPP=1677.23;RPPR=3158.16;RPR=1;RUN=1;SAF=774;SAP=1677.23;SAR=1;SRF=1453;SRP=3158.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:142:68,74:68:2411:74:2644:-168.179,0,-172.753 0/1:83:47,36:47:1652:36:1283:-70.2554,0,-121.033 0/1:108:41,67:41:1445:67:2393:-159.807,0,-95.3581 0/1:42:15,27:15:512:27:963:-63.2969,0,-33.4415 0/1:181:86,95:86:3002:95:3373:-218.472,0,-212.624 0/1:80:38,42:38:1347:42:1500:-86.2097,0,-95.3303 0/1:124:60,64:60:2130:64:2264:-128.644,0,-150.168 0/1:221:112,109:112:3969:109:3872:-230.902,0,-285.187 0/0:104:103,0:103:3649:0:0:0,-31.0061,-317.515 0/0:34:33,1:33:1188:1:36:0,-7.58642,-102.911 0/1:14:7,7:7:252:7:248:-14.7394,0,-18.3661 0/0:352:329,23:329:11693:23:811:0,-41.7828,-971.157 0/1:49:19,30:19:667:30:1052:-70.5679,0,-44.2886 0/1:90:42,48:42:1491:48:1720:-112.646,0,-106.208 0/0:150:150,0:150:5295:0:0:0,-45.1545,-470.499 0/0:84:84,0:84:2969:0:0:0,-25.2865,-261.41 0/1:90:35,55:35:1232:55:1967:-116.587,0,-81.7285 0/1:162:75,87:75:2628:87:3077:-189.099,0,-184.465 0/1:32:22,10:22:780:10:356:-18.65,0,-58.6927 0/0:48:48,0:48:1709:0:0:0,-14.4494,-151.29 0/0:39:39,0:39:1370:0:0:0,-11.7402,-120.945 chr12 23405361 . TG CG,CA 27153.6 PASS AB=0.474946,0.521786;ABP=8.01557,6.795;AC=28,14;AF=0.666667,0.333333;AN=42;AO=835,479;CIGAR=1X1M,2X;DP=1320;DPB=1320;DPRA=0,1.14179;EPP=1816.19,1043.15;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.95238,2.21429;MQM=59.9377,59.7704;MQMR=0;NS=21;NUMALT=2;ODDS=4.90765;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=29712,16924;QR=0;RO=0;RPL=835,479;RPP=1816.19,1043.15;RPPR=0;RPR=0,0;RUN=1,1;SAF=835,479;SAP=1816.19,1043.15;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:83:0,35,48:0:0:35,48:1252,1701:-241.015,-138.923,-128.386,-102.449,0,-87.9996 1/2:18:0,5,12:0:0:5,12:180,430:-49.7556,-35.068,-33.5629,-14.6871,0,-11.0747 1/2:89:0,35,54:0:0:35,54:1246,1916:-258,-156.447,-145.911,-101.908,0,-85.6529 1/2:60:0,29,31:0:0:29,31:1044,1101:-175.25,-90.0628,-81.333,-85.5449,0,-76.213 1/2:72:0,29,43:0:0:29,43:1031,1492:-205.64,-121.619,-112.889,-84.3727,0,-71.4285 1/2:42:0,23,19:0:0:23,19:815,677:-121.931,-55.5387,-48.615,-66.7471,0,-61.0275 1/2:66:0,29,37:0:0:29,37:1029,1321:-191.885,-108.051,-99.3209,-84.1898,0,-73.0517 1/2:142:0,68,74:0:0:68,74:2440,2607:-411.625,-212.596,-192.126,-199.385,0,-177.109 1/1:139:0,137,0:0:0:137,0:4856,0:-436.911,-41.2411,0,-436.911,-41.2411,-436.911 1/1:20:0,20,0:0:0:20,0:720,0:-65.1288,-6.0206,0,-65.1288,-6.0206,-65.1288 1/1:7:0,7,0:0:0:7,0:248,0:-22.6642,-2.10721,0,-22.6642,-2.10721,-22.6642 1/2:32:0,19,12:0:0:19,12:665,411:-87.4519,-33.3449,-27.6253,-54.0939,0,-50.4815 1/2:75:0,48,27:0:0:48,27:1728,965:-220.03,-79.0321,-64.5827,-141.356,0,-133.228 1/2:87:0,40,47:0:0:40,47:1393,1622:-245.107,-132.03,-119.988,-113.424,0,-99.2756 1/1:100:0,99,0:0:0:99,0:3526,0:-317.19,-29.802,0,-317.19,-29.802,-317.19 1/1:18:0,18,0:0:0:18,0:644,0:-58.2906,-5.41854,0,-58.2906,-5.41854,-58.2906 1/2:28:0,16,12:0:0:16,12:572,430:-82.0669,-35.4277,-30.6113,-46.9969,0,-43.3846 1/2:79:0,31,48:0:0:31,48:1103,1715:-230.068,-140.176,-130.844,-90.2479,0,-75.7984 1/2:45:0,29,15:0:0:29,15:1036,536:-128.274,-43.8029,-35.073,-84.5705,0,-80.055 1/1:81:0,81,0:0:0:81,0:2875,0:-258.988,-24.3834,0,-258.988,-24.3834,-258.988 1/1:37:0,37,0:0:0:37,0:1309,0:-118.11,-11.1381,0,-118.11,-11.1381,-118.11 chr12 23405374 . GC AC,AT 24492.9 PASS AB=0.453811,0.54388;ABP=19.0581,17.4935;AC=28,14;AF=0.666667,0.333333;AN=42;AO=749,471;CIGAR=1X1M,2X;DP=1222;DPB=1222;DPRA=0,1.21629;EPP=1629.44,1025.77;EPPR=0;GTI=0;LEN=1,2;MEANALT=1.7619,2.14286;MQM=59.9573,59.724;MQMR=0;NS=21;NUMALT=2;ODDS=2.33197;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26111,16405;QR=0;RO=0;RPL=749,470;RPP=1629.44,1017.11;RPPR=0;RPR=0,1;RUN=1,1;SAF=749,470;SAP=1629.44,1017.11;SAR=0,1;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:81:0,34,47:0:0:34,47:1195,1656:-232.443,-135.175,-124.94,-97.6195,0,-83.4711 1/2:18:0,6,12:0:0:6,12:208,417:-51.155,-34.2489,-32.4428,-17.2529,0,-13.6405 1/2:85:0,32,53:0:0:32,53:1132,1855:-243.463,-151.259,-141.626,-92.5556,0,-76.601 1/2:59:0,29,30:0:0:29,30:1028,1053:-169.795,-86.0445,-77.3146,-84.1032,0,-75.0723 1/2:69:0,26,43:0:0:26,43:924,1504:-197.934,-122.636,-114.809,-75.6509,0,-62.7066 1/2:39:0,21,18:0:0:21,18:726,631:-110.686,-51.6969,-45.3752,-59.3369,0,-53.9183 1/2:62:0,26,36:0:0:26,36:910,1264:-177.257,-103.219,-95.3926,-74.3878,0,-63.5508 1/2:133:0,60,72:0:0:60,72:2104,2494:-373.888,-202.671,-184.609,-171.206,0,-149.532 1/1:124:0,124,0:0:0:124,0:4306,0:-387.725,-37.3277,0,-387.725,-37.3277,-387.725 1/1:19:0,19,0:0:0:19,0:680,0:-61.5292,-5.71957,0,-61.5292,-5.71957,-61.5292 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:30:0,18,12:0:0:18,12:640,408:-85.5963,-33.4316,-28.0131,-52.5108,0,-48.8984 1/2:70:0,42,28:0:0:42,28:1432,977:-195.983,-79.8035,-67.1602,-116.526,0,-108.097 1/2:77:0,30,46:0:0:30,46:964,1579:-205.709,-128.287,-119.256,-77.4985,0,-63.6511 1/1:90:0,90,0:0:0:90,0:3196,0:-287.865,-27.0927,0,-287.865,-27.0927,-287.865 1/1:16:0,16,0:0:0:16,0:541,0:-49.0093,-4.81648,0,-49.0093,-4.81648,-49.0093 1/2:27:0,15,12:0:0:15,12:536,421:-78.3169,-34.6111,-30.0957,-44.0594,0,-40.447 1/2:75:0,28,47:0:0:28,47:943,1626:-208.876,-132.471,-124.042,-76.7455,0,-62.5971 1/2:41:0,26,15:0:0:26,15:909,520:-116.561,-42.6114,-34.7846,-74.2976,0,-69.7822 1/1:67:0,67,0:0:0:67,0:2337,0:-210.587,-20.169,0,-210.587,-20.169,-210.587 1/1:33:0,33,0:0:0:33,0:1148,0:-103.623,-9.93399,0,-103.623,-9.93399,-103.623 chr12 23418160 . CATAA AATAG,CATAG 66866.7 PASS AB=0.50727,0.491068;ABP=4.11543,4.67837;AC=27,15;AF=0.642857,0.357143;AN=42;AO=2066,1182;CIGAR=1X3M1X,4M1X;DP=3253;DPB=3253;DPRA=0,1.13806;EPP=4489.27,2561.01;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.95238,2.26667;MQM=59.9637,59.9687;MQMR=0;NS=21;NUMALT=2;ODDS=7.32463;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=72817,42294;QR=0;RO=0;RPL=2066,1181;RPP=4489.27,2561.01;RPPR=0;RPR=0,1;RUN=1,1;SAF=0,0;SAP=4489.27,2569.69;SAR=2066,1182;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:279:0,135,143:0:0:135,143:4736,5104:-801.63,-416.216,-375.577,-385.527,0,-342.479 1/2:171:0,86,85:0:0:86,85:3033,3060:-496.997,-250.04,-224.152,-247.312,0,-221.725 1/2:125:0,54,71:0:0:54,71:1871,2544:-359.897,-207.838,-191.582,-152.411,0,-131.038 1/2:251:0,143,108:0:0:143,108:5046,3872:-727.054,-316.163,-273.116,-411.247,0,-378.736 1/2:270:0,127,143:0:0:127,143:4469,5128:-782.338,-418.614,-380.383,-364.079,0,-321.032 1/2:180:0,95,85:0:0:95,85:3324,3041:-518.755,-248.331,-219.733,-270.778,0,-245.191 1/2:216:0,106,109:0:0:106,109:3740,3889:-621.143,-316.603,-284.694,-304.534,0,-271.722 1/2:181:0,89,91:0:0:89,91:3136,3218:-517.466,-262.147,-235.356,-255.37,0,-227.976 1/1:250:0,250,0:0:0:250,0:8831,0:-794.789,-75.2575,0,-794.789,-75.2575,-794.789 1/1:4:0,4,0:0:0:4,0:143,0:-13.2214,-1.20412,0,-13.2214,-1.20412,-13.2214 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:32:0,15,17:0:0:15,17:503,612:-91.0216,-50.2959,-45.7805,-41.0724,0,-35.9549 1/2:203:0,93,110:0:0:93,110:3295,3930:-589.199,-320.78,-292.784,-268.774,0,-235.661 1/2:241:0,135,106:0:0:135,106:4774,3808:-699.835,-311.007,-270.368,-389.184,0,-357.275 1/1:203:0,203,0:0:0:203,0:7203,0:-648.333,-61.1091,0,-648.333,-61.1091,-648.333 1/1:153:0,152,0:0:0:152,0:5348,0:-481.243,-45.7566,0,-481.243,-45.7566,-481.243 1/2:158:0,78,79:0:0:78,79:2730,2836:-453.467,-231.357,-207.876,-222.125,0,-198.343 1/2:32:0,17,15:0:0:17,15:609,540:-94.0871,-44.4211,-39.3036,-50.0251,0,-45.5096 1/2:63:0,45,18:0:0:45,18:1598,640:-182.719,-52.5108,-38.9644,-130.563,0,-125.145 1/1:183:0,183,0:0:0:183,0:6431,0:-578.889,-55.0885,0,-578.889,-55.0885,-578.889 1/1:53:0,53,0:0:0:53,0:1889,0:-170.288,-15.9546,0,-170.288,-15.9546,-170.288 chr12 23441220 . ACTTTC ATTTTA,TTTTTA 73530.2 PASS AB=0.456743,0.535623;ABP=41.3343,29.0017;AC=25,17;AF=0.595238,0.404762;AN=42;AO=1765,1874;CIGAR=1M1X3M1X,2X3M1X;DP=3663;DPB=3663.17;DPRA=0,4.13263;EPP=3818.31,4072.35;EPPR=0;GTI=2;LEN=6,6;MEANALT=2.85714,2.94444;MQM=59.9762,59.9573;MQMR=0;NS=21;NUMALT=2;ODDS=1.47244;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,72;PQR=0;PRO=0;QA=61513,65489;QR=0;RO=0;RPL=1763,1874;RPP=3818.31,4072.35;RPPR=0;RPR=2,0;RUN=1,1;SAF=1765,1874;SAP=3835.66,4072.35;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:147:0,72,73:0:0:72,73:2495,2562:-411.332,-208.551,-186.877,-202.823,0,-180.848 1/2:82:0,40,42:0:0:40,42:1410,1468:-234.575,-119.771,-107.729,-115.156,0,-102.512 1/2:58:0,11,47:0:0:11,47:391,1642:-165.783,-133.919,-130.608,-32.2184,0,-18.0699 1/2:111:0,23,88:0:0:23,88:808,3095:-318.057,-252.291,-245.367,-66.1172,0,-39.6265 1/2:196:0,98,95:0:0:98,95:3409,3281:-543.856,-266.672,-237.171,-277.282,0,-248.684 1/2:91:0,46,45:0:0:46,45:1619,1573:-260.114,-128.314,-114.466,-132.151,0,-118.605 2/2:134:0,9,125:0:0:9,125:306,4366:-392.787,-367.966,-365.257,-37.6288,-12.468,0 1/2:59:0,32,27:0:0:32,27:1075,958:-165.476,-78.4081,-68.7751,-87.4143,0,-79.2865 1/1:85:0,83,1:0:0:83,1:2878,36:-258.939,-24.9855,0,-256.001,-22.0281,-255.7 1/1:391:0,389,1:0:0:389,1:13564,36:-1220.22,-117.101,0,-1217.28,-114.163,-1216.98 1/2:620:0,308,309:0:0:308,309:10746,10796:-1752.24,-878.23,-785.513,-874.044,0,-781.026 2/2:494:0,12,482:0:0:12,482:412,16937:-1523.64,-1490.19,-1486.57,-145.096,-111.302,0 1/2:103:0,50,53:0:0:50,53:1746,1845:-292.399,-150.375,-135.324,-142.372,0,-126.417 1/2:60:0,7,53:0:0:7,53:230,1844:-168.782,-150.199,-148.092,-18.9131,0,-2.95855 1/1:72:0,69,0:0:0:69,0:2430,0:-218.677,-20.7711,0,-218.677,-20.7711,-218.677 1/1:43:0,42,0:0:0:42,0:1477,0:-133.001,-12.6433,0,-133.001,-12.6433,-133.001 1/2:148:0,64,83:0:0:64,83:2231,2886:-416.145,-234.704,-215.438,-181.498,0,-156.512 1/2:662:0,315,338:0:0:315,338:11014,11744:-1850.83,-954.813,-859.989,-896.056,0,-794.308 1/2:21:0,11,10:0:0:11,10:379,349:-59.5183,-28.7358,-25.4245,-31.1292,0,-28.1189 1/1:59:0,57,2:0:0:57,2:1977,71:-177.85,-17.1587,0,-172.064,-11.0187,-171.462 1/1:27:0,27,0:0:0:27,0:916,0:-82.7464,-8.12781,0,-82.7464,-8.12781,-82.7464 chr12 23455180 . G A 30165.6 PASS AB=0.433078;ABP=89.33;AC=27;AF=0.642857;AN=42;AO=1665;CIGAR=1X;DP=2928;DPB=2928;DPRA=0;EPP=3618.51;EPPR=2743.41;GTI=1;LEN=1;MEANALT=1.04762;MQM=59.9514;MQMR=59.9929;NS=21;NUMALT=1;ODDS=7.7976;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58121;QR=45185;RO=1262;RPL=0;RPP=3618.51;RPPR=2743.41;RPR=1665;RUN=1;SAF=1665;SAP=3618.51;SAR=0;SRF=1262;SRP=2743.41;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:119:64,55:64:2292:55:1919:-137.16,0,-170.719 0/1:156:83,73:83:2984:73:2528:-180.807,0,-221.827 0/1:90:57,33:57:2021:33:1169:-78.4156,0,-155.068 0/1:184:106,78:106:3804:78:2701:-187.94,0,-287.167 0/1:352:196,156:196:6981:156:5448:-384.489,0,-522.394 0/1:216:128,88:128:4600:88:3096:-213.841,0,-349.14 0/1:206:130,76:130:4664:76:2640:-175.83,0,-357.908 0/1:101:71,30:71:2531:30:1053:-64.6745,0,-197.637 1/1:233:1,232:1:36:232:8206:-734.906,-66.5417,0 1/1:11:0,11:0:0:11:388:-35.2574,-3.31133,0 0/1:14:6,8:6:216:8:288:-22.053,0,-15.5761 0/1:31:14,17:14:500:17:593:-44.3628,0,-36.0042 0/1:249:144,105:144:5164:105:3667:-255.276,0,-389.943 0/1:161:97,64:97:3472:64:2198:-149.611,0,-264.226 1/1:143:1,142:1:32:142:4974:-444.611,-39.848,0 1/1:131:1,130:1:36:130:4473:-399.14,-35.8367,0 0/1:157:72,85:72:2584:85:2969:-220.177,0,-185.547 0/1:76:43,32:43:1548:32:1077:-74.2894,0,-116.676 0/1:107:46,61:46:1648:61:2129:-159.667,0,-116.398 1/1:144:1,143:1:36:143:5016:-447.988,-39.75,0 1/1:47:1,46:1:36:46:1589:-139.687,-10.5501,0 chr12 23465702 . GAACAAG GAAG 11139.6 PASS AB=0.510685;ABP=4.35607;AC=15;AF=0.357143;AN=42;AO=693;CIGAR=1M3D3M;DP=1904;DPB=1606.86;DPRA=0.992322;EPP=1507.84;EPPR=2621.81;GTI=0;LEN=3;MEANALT=1.13333;MQM=49.8254;MQMR=59.8657;NS=21;NUMALT=1;ODDS=11.2202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24291;QR=42405;RO=1206;RPL=693;RPP=1507.84;RPPR=2621.81;RPR=0;RUN=1;SAF=693;SAP=1507.84;SAR=0;SRF=1206;SRP=2621.81;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/1:92:44,48:44:1546:48:1667:-120.88,0,-111.736 0/1:78:34,44:34:1204:44:1557:-116.403,0,-85.1841 0/1:95:49,46:49:1736:46:1610:-115.667,0,-127.927 0/1:79:38,40:38:1328:40:1424:-103.662,0,-95.9782 0/1:187:92,95:92:3226:95:3330:-240.545,0,-234.274 0/1:56:23,33:23:818:33:1122:-83.4296,0,-57.0792 0/1:158:62,95:62:2173:95:3322:-249.657,0,-148.208 0/1:103:42,61:42:1480:61:2157:-161.536,0,-102.488 0/0:179:178,0:178:6269:0:0:0,-53.5833,-563.958 0/0:21:20,0:20:696:0:0:0,-6.0206,-62.7456 0/1:7:1,6:1:36:6:212:-17.121,0,-1.49106 0/1:34:24,10:24:845:10:345:-20.8805,0,-66.1345 0/1:134:82,52:82:2884:52:1828:-123.265,0,-219.461 0/1:73:24,49:24:841:49:1751:-133.436,0,-54.0334 0/0:161:161,0:161:5659:0:0:0,-48.4658,-509.359 0/0:57:57,0:57:2009:0:0:0,-17.1587,-181.082 0/1:50:27,23:27:963:23:801:-56.7038,0,-71.9305 0/1:132:71,61:71:2508:61:2131:-151.669,0,-186.239 0/1:79:49,30:49:1734:30:1034:-68.4596,0,-132.456 0/0:74:74,0:74:2558:0:0:0,-22.2762,-229.841 0/0:55:54,0:54:1892:0:0:0,-16.2556,-170.198 chr12 23579372 . A G 10888.7 PASS AB=0.465642;ABP=14.3506;AC=27;AF=0.642857;AN=42;AO=912;CIGAR=1X;DP=1506;DPB=1506;DPRA=0;EPP=1974.72;EPPR=1290.69;GTI=2;LEN=1;MEANALT=1.04762;MQM=28.6118;MQMR=30.5126;NS=21;NUMALT=1;ODDS=0.0412014;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32558;QR=21254;RO=593;RPL=1;RPP=1974.72;RPPR=1290.69;RPR=911;RUN=1;SAF=912;SAP=1983.39;SAR=0;SRF=593;SRP=1290.69;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:120:63,57:63:2264:57:2026:-108.623,0,-133.814 0/1:53:43,10:43:1544:10:360:-6.49425,0,-83.0335 0/1:64:37,27:37:1317:27:956:-49.1186,0,-80.3377 0/1:60:34,26:34:1224:26:932:-47.4293,0,-73.3031 0/1:191:83,108:83:2984:108:3855:-218.06,0,-167.434 0/1:58:38,20:38:1360:20:712:-27.1086,0,-71.4001 0/1:132:69,63:69:2457:63:2241:-99.5392,0,-120.028 0/1:65:28,37:28:1000:37:1320:-85.8716,0,-63.2552 1/1:116:0,116:0:0:116:4129:-257.01,-34.9195,0 1/1:7:0,7:0:0:7:252:-20.4008,-2.10721,0 0/1:10:8,2:8:288:2:68:-1.63342,0,-15.5845 0/1:22:19,3:19:684:3:108:-2.30269,0,-48.0076 0/1:73:36,37:36:1284:37:1320:-71.4937,0,-74.4244 0/1:66:48,18:48:1724:18:640:-26.5946,0,-110.001 1/1:136:2,133:2:72:133:4763:-332.49,-35.2631,0 1/1:31:0,31:0:0:31:1116:-70.128,-9.33193,0 0/1:49:25,24:25:896:24:864:-40.707,0,-43.0241 0/1:82:36,46:36:1296:46:1652:-107.012,0,-83.3267 0/1:61:24,37:24:860:37:1319:-77.057,0,-46.0535 1/1:50:0,50:0:0:50:1796:-142.931,-15.0515,0 1/1:60:0,60:0:0:60:2129:-134.674,-18.0618,0 chr12 23612116 . T C 20524.5 PASS AB=0.500413;ABP=3.01389;AC=15;AF=0.357143;AN=42;AO=1213;CIGAR=1X;DP=3383;DPB=3383;DPRA=1.21744;EPP=2637.01;EPPR=4712.93;GTI=0;LEN=1;MEANALT=1;MQM=59.8021;MQMR=59.9557;NS=21;NUMALT=1;ODDS=19.2609;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43347;QR=77707;RO=2169;RPL=0;RPP=2637.01;RPPR=4712.93;RPR=1213;RUN=1;SAF=1213;SAP=2637.01;SAR=0;SRF=2169;SRP=4712.93;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:250:105,145:105:3768:145:5184:-391.441,0,-264.024 0/1:154:81,73:81:2908:73:2611:-188.866,0,-215.596 0/1:135:71,64:71:2548:64:2284:-165.181,0,-188.931 0/1:222:129,93:129:4628:93:3326:-232.716,0,-349.853 0/1:387:176,211:176:6296:211:7552:-563.18,0,-450.148 0/1:98:49,49:49:1756:49:1748:-128.071,0,-128.823 0/1:226:126,100:126:4513:100:3572:-253.647,0,-338.303 0/1:156:85,71:85:3021:71:2540:-181.889,0,-225.16 0/0:260:260,0:260:9333:0:0:0,-78.2678,-839.929 0/0:33:33,0:33:1188:0:0:0,-9.93399,-107.229 0/1:15:3,12:3:108:12:416:-33.2562,0,-5.55972 0/1:58:28,30:28:1000:30:1068:-78.9668,0,-72.6969 0/1:152:62,90:62:2228:90:3224:-244.623,0,-155.01 0/1:232:120,112:120:4312:112:4016:-291.754,0,-318.416 0/0:272:270,2:270:9656:2:72:0,-75.0434,-862.156 0/0:159:159,0:159:5708:0:0:0,-47.8638,-513.836 0/1:146:80,66:80:2872:66:2348:-167.627,0,-214.721 0/1:116:46,70:46:1648:70:2494:-189.782,0,-113.689 0/1:73:48,25:48:1724:25:892:-58.6212,0,-133.47 0/0:175:175,0:175:6242:0:0:0,-52.6802,-561.874 0/0:64:63,0:63:2250:0:0:0,-18.9649,-202.402 chr12 23612179 . T A 31900.7 PASS AB=0.541014;ABP=26.3445;AC=27;AF=0.642857;AN=42;AO=1606;CIGAR=1X;DP=2343;DPB=2343;DPRA=0;EPP=3490.39;EPPR=1583.89;GTI=1;LEN=1;MEANALT=1.04762;MQM=57.2677;MQMR=59.6875;NS=21;NUMALT=1;ODDS=4.46459;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57327;QR=26199;RO=736;RPL=0;RPP=3490.39;RPPR=1583.89;RPR=1606;RUN=1;SAF=0;SAP=3490.39;SAR=1606;SRF=0;SRP=1601.21;SRR=736;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:179:90,89:90:3211:89:3191:-233.245,0,-235.287 0/1:99:50,49:50:1776:49:1751:-127.765,0,-130.321 0/1:125:45,80:45:1604:80:2855:-219.463,0,-107.011 0/1:91:40,51:40:1411:51:1836:-137.84,0,-99.8926 0/1:168:84,83:84:2992:83:2967:-216.587,0,-218.827 0/1:72:37,35:37:1312:35:1228:-88.4261,0,-96.5947 0/1:164:73,91:73:2616:91:3243:-242.413,0,-186.315 0/1:143:72,71:72:2560:71:2531:-184.169,0,-187.573 1/1:198:1,197:1:36:197:7021:-627.853,-56.0057,0 1/1:42:2,40:2:72:40:1430:-121.979,-5.80654,0 0/1:8:2,6:2:72:6:212:-16.9962,0,-4.42848 0/1:38:19,19:19:684:19:671:-49.0384,0,-50.4512 0/1:157:80,77:80:2840:77:2756:-200.887,0,-208.469 0/1:109:42,67:42:1496:67:2364:-179.91,0,-102.12 1/1:186:1,185:1:36:185:6635:-592.802,-52.3933,0 1/1:104:0,104:0:0:104:3710:-334.018,-31.3071,0 0/1:67:27,40:27:964:40:1418:-107.676,0,-66.5367 0/1:86:46,40:46:1625:40:1440:-103.748,0,-120.644 0/1:91:25,66:25:892:66:2345:-183.742,0,-53.2056 1/1:148:0,148:0:0:148:5302:-476.468,-44.5524,0 1/1:68:0,68:0:0:68:2421:-217.673,-20.47,0 chr12 23613647 . C T 7591.45 PASS AB=0.40241;ABP=106.001;AC=14;AF=0.333333;AN=42;AO=503;CIGAR=1X;DP=1726;DPB=1726;DPRA=1.21982;EPP=1095.26;EPPR=2656.55;GTI=0;LEN=1;MEANALT=1.0625;MQM=59.992;MQMR=59.9574;NS=21;NUMALT=1;ODDS=16.7709;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17933;QR=43575;RO=1222;RPL=503;RPP=1095.26;RPPR=2656.55;RPR=0;RUN=1;SAF=0;SAP=1095.26;SAR=503;SRF=0;SRP=2656.55;SRR=1222;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:109:64,45:64:2272:45:1612:-112.558,0,-171.928 0/1:78:54,24:54:1932:24:822:-50.8106,0,-150.673 0/1:85:58,27:58:2072:27:957:-60.8563,0,-161.163 0/1:73:45,28:45:1585:28:981:-66.6258,0,-120.963 0/1:150:89,61:89:3145:61:2184:-151.669,0,-238.122 0/1:66:39,27:39:1400:27:968:-67.5694,0,-106.431 0/1:92:56,36:56:2008:36:1296:-89.2492,0,-153.299 0/1:58:37,21:37:1316:21:756:-50.9075,0,-101.282 0/0:65:65,0:65:2305:0:0:0,-19.5669,-207.71 0/0:30:29,1:29:1021:1:36:0,-5.43262,-88.6015 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:64:33,31:33:1176:31:1101:-80.1324,0,-86.8818 0/1:85:64,21:64:2277:21:748:-42.0577,0,-179.603 0/1:114:56,58:56:2008:58:2080:-153.153,0,-146.676 0/0:193:193,0:193:6890:0:0:0,-58.0988,-620.166 0/0:56:56,0:56:2000:0:0:0,-16.8577,-180.274 0/1:82:44,38:44:1576:38:1364:-98.3763,0,-117.22 0/1:130:65,64:65:2324:64:2272:-165.549,0,-170.228 0/1:59:39,20:39:1400:20:720:-47.368,0,-108.538 0/0:99:98,1:98:3500:1:36:0,-26.2037,-311.608 0/0:32:32,0:32:1152:0:0:0,-9.63296,-103.99 chr12 23638380 . 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TGT CGT,CGC 18548.4 PASS AB=0.708245,0.291755;ABP=181.177,181.177;AC=28,14;AF=0.666667,0.333333;AN=42;AO=752,139;CIGAR=1X2M,1X1M1X;DP=892;DPB=892;DPRA=0,0.789333;EPP=1635.96,304.845;EPPR=5.18177;GTI=3;LEN=1,3;MEANALT=1.71429,2;MQM=59.9641,59.8705;MQMR=60;NS=21;NUMALT=2;ODDS=5.61617;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=26748,4799;QR=36;RO=1;RPL=0,0;RPP=1635.96,304.845;RPPR=5.18177;RPR=752,139;RUN=1,1;SAF=0,0;SAP=1635.96,304.845;SAR=752,139;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:20:0,12,8:0:0:12,8:432,286:-58.9278,-23.6772,-20.0649,-35.6088,0,-33.2006 1/2:41:0,31,10:0:0:31,10:1107,351:-119.173,-28.9172,-19.5853,-90.6082,0,-87.5979 1/2:46:0,19,27:0:0:19,27:684,931:-131.788,-75.9713,-70.2517,-56.1708,0,-48.0429 1/2:26:0,19,7:0:0:19,7:667,238:-73.9362,-19.644,-13.9244,-54.6351,0,-52.5278 1/2:89:0,72,17:0:0:72,17:2556,602:-257.626,-49.3881,-27.714,-208.592,0,-203.475 1/2:29:0,21,8:0:0:21,8:752,276:-84.1028,-22.7667,-16.445,-61.6846,0,-59.2764 1/2:57:0,46,11:0:0:46,11:1648,394:-166.893,-32.4902,-18.6428,-134.761,0,-131.45 1/2:20:0,14,6:0:0:14,6:500,205:-57.7545,-16.9789,-12.7645,-41.1218,0,-39.3156 1/1:119:0,118,1:0:0:118,1:4201,21:-378.061,-35.5215,0,-376.474,-33.7226,-376.173 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:5:0,3,2:0:0:3,2:108,72:-15.0469,-6.23466,-5.33157,-9.17208,0,-8.57002 1/2:12:0,5,7:0:0:5,7:171,233:-33.0701,-19.1878,-17.6827,-14.2203,0,-12.1131 1/1:55:0,55,0:0:0:55,0:1955,0:-176.225,-16.5567,0,-176.225,-16.5567,-176.225 1/2:20:0,9,11:0:0:9,11:309,380:-56.3063,-31.219,-28.5097,-25.4314,0,-22.1201 1/1:100:1,99,0:1:36:99,0:3544,0:-315.567,-26.5047,0,-315.868,-29.802,-318.806 1/1:43:0,43,0:0:0:43,0:1522,0:-137.272,-12.9443,0,-137.272,-12.9443,-137.272 1/2:40:0,33,7:0:0:33,7:1175,213:-113.17,-17.3603,-7.42629,-96.123,0,-94.0158 1/2:46:0,32,14:0:0:32,14:1139,489:-132.96,-40.1261,-30.4931,-93.1854,0,-88.971 1/2:22:0,19,3:0:0:19,3:680,108:-64.6188,-9.17208,-3.45251,-55.8062,0,-54.9031 1/1:46:0,46,0:0:0:46,0:1617,0:-145.816,-13.8474,0,-145.816,-13.8474,-145.816 1/1:48:0,48,0:0:0:48,0:1693,0:-152.654,-14.4494,0,-152.654,-14.4494,-152.654 chr12 23670718 . C T 15230.6 PASS AB=0.478261;ABP=10.6577;AC=14;AF=0.333333;AN=42;AO=896;CIGAR=1X;DP=3028;DPB=3028;DPRA=1.09816;EPP=1845.81;EPPR=4426.47;GTI=0;LEN=1;MEANALT=1;MQM=59.9074;MQMR=59.9948;NS=21;NUMALT=1;ODDS=20.654;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=31940;QR=75874;RO=2132;RPL=884;RPP=1845.81;RPPR=4426.47;RPR=12;RUN=1;SAF=0;SAP=1948.65;SAR=896;SRF=0;SRP=4632.59;SRR=2132;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:168:91,77:91:3260:77:2757:-197.797,0,-243.047 0/1:145:70,75:70:2516:75:2663:-196.265,0,-183.042 0/1:155:86,69:86:3092:69:2460:-174.995,0,-231.847 0/1:125:59,66:59:2105:66:2364:-175.385,0,-152.089 0/1:253:125,128:125:4446:128:4546:-333.111,0,-324.149 0/1:164:80,84:80:2829:84:2970:-218.153,0,-205.478 0/1:189:108,81:108:3831:81:2885:-202.962,0,-288.089 0/1:233:118,115:118:4194:115:4124:-301.168,0,-307.501 0/0:318:317,1:317:11331:1:36:0,-92.1293,-1016.07 0/0:12:12,0:12:432:0:0:0,-3.61236,-39.2212 0/1:10:3,7:3:93:7:252:-20.0187,0,-5.66643 0/1:26:15,11:15:540:11:392:-27.7933,0,-41.1098 0/0:247:247,0:247:8766:0:0:0,-74.3544,-788.929 0/1:167:87,80:87:3066:80:2849:-206.375,0,-225.897 0/0:240:239,1:239:8511:1:36:0,-68.6489,-762.392 0/0:140:140,0:140:4982:0:0:0,-42.1442,-448.528 0/1:94:49,45:49:1730:45:1605:-116.441,0,-127.684 0/1:44:18,26:18:648:26:936:-71.3132,0,-45.4066 0/1:90:63,27:63:2264:27:957:-59.3503,0,-176.93 0/0:158:156,2:156:5493:2:72:0,-40.726,-487.662 0/0:50:49,1:49:1745:1:36:0,-11.4532,-153.734 chr12 23782578 . AC AT,CT 22516.5 PASS AB=0.560322,0.438338;ABP=26.5879,27.6475;AC=27,15;AF=0.642857,0.357143;AN=42;AO=858,333;CIGAR=1M1X,2X;DP=1193;DPB=1193;DPRA=11.88,1.28622;EPP=1866.13,726.111;EPPR=0;GTI=2;LEN=1,2;MEANALT=1.8,2;MQM=52.7366,27.982;MQMR=0;NS=21;NUMALT=2;ODDS=7.20127;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30743,11788;QR=0;RO=0;RPL=858,333;RPP=1866.13,726.111;RPPR=0;RPR=0,0;RUN=1,1;SAF=858,333;SAP=1866.13,726.111;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:40:0,22,18:0:0:22,18:792,642:-103.653,-39.0909,-32.4682,-64.8743,0,-59.4558 1/2:16:0,8,7:0:0:8,7:288,247:-37.6118,-14.2083,-11.8,-23.3837,0,-21.2765 1/2:75:0,47,28:0:0:47,28:1692,980:-197.093,-59.3376,-45.1892,-138.057,0,-129.628 1/2:58:0,29,29:0:0:29,29:1040,1026:-147.012,-62.2942,-53.5643,-85.0322,0,-76.3023 1/2:98:0,48,50:0:0:48,50:1716,1780:-247.083,-107.382,-92.9327,-140.016,0,-124.965 1/2:90:0,44,46:0:0:44,46:1569,1618:-225.481,-98.8213,-85.5759,-126.973,0,-113.126 1/2:59:0,28,31:0:0:28,31:991,1112:-147.524,-67.2214,-58.7926,-80.6175,0,-71.2856 1/2:84:0,52,32:0:0:52,32:1868,1134:-220.562,-68.6611,-53.0076,-152.205,0,-142.572 1/1:159:0,158,1:0:0:158,1:5660,36:-508.386,-47.5627,0,-506.075,-44.961,-505.774 1/1:8:0,8,0:0:0:8,0:284,0:-25.8423,-2.40824,0,-25.8423,-2.40824,-25.8423 2/2:5:0,0,5:0:0:0,5:0,180:-12.5865,-12.5865,-12.5865,-1.50515,-1.50515,0 1/2:21:0,8,13:0:0:8,13:288,464:-51.5977,-28.3132,-25.9049,-23.6091,0,-19.6958 1/1:51:0,51,0:0:0:51,0:1832,0:-164.874,-15.3525,0,-164.874,-15.3525,-164.874 1/2:94:0,57,37:0:0:57,37:2040,1297:-245.037,-79.0258,-61.8671,-166.315,0,-155.177 1/1:69:0,68,0:0:0:68,0:2431,0:-218.108,-20.47,0,-218.108,-20.47,-218.108 1/1:23:0,23,0:0:0:23,0:824,0:-74.3251,-6.92369,0,-74.3251,-6.92369,-74.3251 1/2:38:0,22,16:0:0:22,16:788,556:-99.9116,-35.8347,-29.2121,-64.3894,0,-59.5729 1/2:28:0,16,12:0:0:16,12:576,432:-72.4934,-26.2122,-21.3958,-46.5894,0,-42.977 1/2:45:0,37,8:0:0:37,8:1332,284:-125.923,-17.5051,-6.36699,-108.706,0,-106.298 1/1:94:0,94,0:0:0:94,0:3372,0:-302.276,-28.2968,0,-302.276,-28.2968,-302.276 1/1:38:0,38,0:0:0:38,0:1360,0:-122.066,-11.4391,0,-122.066,-11.4391,-122.066 chr12 23782585 . GTTC GTTT,ATTT 22309.6 PASS AB=0.556452,0.443548;ABP=23.6043,23.6043;AC=27,15;AF=0.642857,0.357143;AN=42;AO=851,336;CIGAR=3M1X,1X2M1X;DP=1187;DPB=1187;DPRA=11.82,1.29571;EPP=1850.93,732.625;EPPR=0;GTI=2;LEN=1,4;MEANALT=1.7,1.93333;MQM=52.7344,28.0357;MQMR=0;NS=21;NUMALT=2;ODDS=8.76029;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30359,11891;QR=0;RO=0;RPL=851,336;RPP=1850.93,732.625;RPPR=0;RPR=0,0;RUN=1,1;SAF=851,336;SAP=1850.93,732.625;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:39:0,21,18:0:0:21,18:748,644:-100.044,-39.1269,-32.8052,-61.2287,0,-55.8101 1/2:16:0,8,8:0:0:8,8:288,279:-40.4182,-17.0134,-14.6052,-23.7168,0,-21.3085 1/2:76:0,48,28:0:0:48,28:1724,989:-199.936,-59.605,-45.1556,-140.632,0,-132.204 1/2:57:0,28,29:0:0:28,29:1008,1025:-144.572,-62.4272,-53.9984,-82.4606,0,-73.7307 1/2:98:0,48,50:0:0:48,50:1707,1745:-245.303,-106.441,-91.9911,-139.175,0,-124.124 1/2:91:0,44,47:0:0:44,47:1565,1671:-228.095,-101.594,-88.3484,-126.815,0,-112.667 1/2:59:0,28,31:0:0:28,31:1004,1089:-148.109,-66.6609,-58.2321,-81.764,0,-72.432 1/2:84:0,52,32:0:0:52,32:1853,1147:-219.776,-69.2193,-53.5658,-150.861,0,-141.228 1/1:158:0,157,1:0:0:157,1:5585,36:-501.654,-47.2617,0,-499.343,-44.66,-499.042 1/1:8:0,8,0:0:0:8,0:288,0:-26.2014,-2.40824,0,-26.2014,-2.40824,-26.2014 2/2:5:0,0,5:0:0:0,5:0,180:-12.5865,-12.5865,-12.5865,-1.50515,-1.50515,0 1/2:21:0,7,14:0:0:7,14:252,495:-51.5017,-30.9695,-28.8623,-20.8639,0,-16.6494 1/1:51:0,51,0:0:0:51,0:1836,0:-165.161,-15.3525,0,-165.161,-15.3525,-165.161 1/2:93:0,56,37:0:0:56,37:2008,1321:-243.316,-79.8859,-63.0282,-163.737,0,-152.599 1/1:67:0,67,0:0:0:67,0:2373,0:-212.962,-20.169,0,-212.962,-20.169,-212.962 1/1:24:0,24,0:0:0:24,0:848,0:-76.4167,-7.22472,0,-76.4167,-7.22472,-76.4167 1/2:37:0,21,16:0:0:21,16:737,555:-95.6049,-35.8086,-29.487,-60.1065,0,-55.29 1/2:28:0,16,12:0:0:16,12:576,428:-72.4297,-26.1482,-21.3318,-46.5894,0,-42.977 1/2:45:0,37,8:0:0:37,8:1315,287:-124.449,-17.5523,-6.41415,-107.184,0,-104.776 1/1:92:0,92,0:0:0:92,0:3299,0:-295.634,-27.6948,0,-295.634,-27.6948,-295.634 1/1:38:0,38,0:0:0:38,0:1345,0:-120.724,-11.4391,0,-120.724,-11.4391,-120.724 chr12 23782758 . A G,T 70909.4 PASS AB=0.467708,0.530729;ABP=20.4002,18.758;AC=27,15;AF=0.642857,0.357143;AN=42;AO=1686,1026;CIGAR=1X,1X;DP=2715;DPB=2715;DPRA=33.8875,1.25381;EPP=3664.11,2230.94;EPPR=5.18177;GTI=0;LEN=1,1;MEANALT=1.9,2.05882;MQM=59.933,59.962;MQMR=60;NS=21;NUMALT=2;ODDS=3.70407;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=58393,36462;QR=36;RO=1;RPL=759,506;RPP=39.3612,3.42512;RPPR=5.18177;RPR=927,520;RUN=1,1;SAF=759,506;SAP=39.3612,3.42512;SAR=927,520;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:154:0,77,77:0:0:77,77:2600,2692:-430.063,-219.344,-196.164,-211.062,0,-187.883 1/2:146:0,70,76:0:0:70,76:2423,2704:-416.263,-219.362,-198.289,-197.251,0,-174.372 1/2:118:0,46,71:0:0:46,71:1595,2488:-332.079,-202.438,-188.591,-129.629,0,-108.256 1/2:131:0,65,66:0:0:65,66:2204,2336:-369.337,-190.633,-171.066,-179.051,0,-159.183 1/2:279:0,129,150:0:0:129,150:4461,5346:-798.528,-436.12,-397.287,-362.758,0,-317.604 1/2:135:0,63,72:0:0:63,72:2184,2556:-386.123,-208.617,-189.652,-177.856,0,-156.182 1/2:163:0,82,81:0:0:82,81:2821,2885:-464.597,-235.502,-210.818,-229.445,0,-205.062 1/2:194:1,67,126:1:36:67,126:2330,4491:-552.268,-363.132,-345.901,-186.49,0,-151.498 1/1:182:0,181,1:0:0:181,1:6393,36:-575.103,-54.4864,0,-572.166,-51.1892,-571.865 1/1:25:0,24,1:0:0:24,1:836,36:-75.1953,-7.22472,0,-72.2574,-3.92748,-71.9564 2/2:4:0,0,4:0:0:0,4:0,144:-13.3136,-13.3136,-13.3136,-1.20412,-1.20412,0 1/2:67:0,28,39:0:0:28,39:960,1404:-192.848,-114.919,-106.49,-78.2784,0,-66.5382 1/1:136:0,136,0:0:0:136,0:4660,0:-419.566,-40.9401,0,-419.566,-40.9401,-419.566 1/2:166:0,77,88:0:0:77,88:2676,3131:-472.87,-255.315,-232.135,-217.694,0,-191.204 1/1:155:0,154,1:0:0:154,1:5371,36:-482.546,-46.3586,0,-479.608,-43.0614,-479.307 1/1:87:0,87,0:0:0:87,0:3008,0:-270.954,-26.1896,0,-270.954,-26.1896,-270.954 1/2:110:0,49,61:0:0:49,61:1731,2170:-318.171,-177.203,-162.452,-141.323,0,-122.96 1/2:146:0,67,79:0:0:67,79:2286,2819:-415.651,-230.168,-209.999,-185.831,0,-162.05 1/2:111:0,78,33:0:0:78,33:2678,1188:-314.725,-97.2946,-73.8143,-217.785,0,-207.851 1/1:113:0,113,0:0:0:113,0:3950,0:-355.69,-34.0164,0,-355.69,-34.0164,-355.69 1/1:93:0,93,0:0:0:93,0:3226,0:-290.564,-27.9958,0,-290.564,-27.9958,-290.564 chr12 23782764 . G C 41717.5 PASS AB=0.467153;ABP=20.9844;AC=27;AF=0.642857;AN=42;AO=1668;CIGAR=1X;DP=2699;DPB=2699;DPRA=33.6875;EPP=3625.03;EPPR=2233.11;GTI=0;LEN=1;MEANALT=1.15;MQM=59.9065;MQMR=59.962;NS=21;NUMALT=1;ODDS=4.42768;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58803;QR=36252;RO=1027;RPL=766;RPP=27.0892;RPPR=4.33179;RPR=902;RUN=1;SAF=766;SAP=27.0892;SAR=902;SRF=501;SRP=4.33179;SRR=526;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:151:80,71:80:2849:71:2506:-180.246,0,-211.191 0/1:144:74,69:74:2622:69:2424:-175,0,-191.458 0/1:117:69,48:69:2453:48:1712:-119.145,0,-185.803 0/1:130:66,64:66:2296:64:2256:-164.167,0,-167.764 0/1:280:148,132:148:5243:132:4624:-331.967,0,-387.72 0/1:133:71,62:71:2501:62:2205:-158.677,0,-185.305 0/1:168:83,85:83:2916:85:3012:-220.737,0,-212.103 0/1:196:127,69:127:4482:69:2450:-161.752,0,-344.548 1/1:178:1,175:1:36:175:6183:-552.975,-49.7428,0 1/1:24:1,23:1:36:23:801:-68.8079,-3.62645,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:67:40,27:40:1420:27:927:-63.5683,0,-107.928 1/1:135:0,135:0:0:135:4791:-431.346,-40.6391,0 0/1:167:88,78:88:3087:78:2746:-197.051,0,-227.729 1/1:152:1,151:1:36:151:5322:-475.461,-42.1583,0 1/1:85:0,85:0:0:85:2975:-267.982,-25.5876,0 0/1:108:61,47:61:2143:47:1649:-116.184,0,-160.624 0/1:144:78,66:78:2754:66:2288:-162.829,0,-204.755 0/1:113:35,78:35:1234:78:2752:-213.905,0,-77.3463 1/1:113:0,113:0:0:113:4010:-361.084,-34.0164,0 1/1:90:0,90:0:0:90:3170:-285.525,-27.0927,0 chr12 23839466 . C T 15329.4 PASS AB=0.451323;ABP=44.2336;AC=14;AF=0.333333;AN=42;AO=906;CIGAR=1X;DP=3209;DPB=3209;DPRA=0.932918;EPP=1850.64;EPPR=4846.62;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=10.2312;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=32452;QR=81682;RO=2302;RPL=14;RPP=1850.64;RPPR=4846.62;RPR=892;RUN=1;SAF=906;SAP=1970.36;SAR=0;SRF=2302;SRP=5001.74;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:81,47:81:2882:47:1684:-113.315,0,-221.084 0/1:87:43,44:43:1528:44:1571:-115.491,0,-111.623 0/1:141:76,65:76:2706:65:2336:-168.054,0,-201.338 0/1:278:167,111:167:5914:111:3967:-273.535,0,-448.69 0/1:376:188,188:188:6662:188:6715:-491.238,0,-486.478 0/1:75:43,32:43:1536:32:1152:-81.4129,0,-115.956 0/1:186:99,87:99:3501:87:3124:-225.394,0,-259.311 0/1:180:93,87:93:3303:87:3132:-227.919,0,-243.305 0/0:266:266,0:266:9422:0:0:0,-80.074,-847.956 0/0:12:12,0:12:419:0:0:0,-3.61236,-38.0427 0/1:24:20,4:20:720:4:144:-6.0889,0,-57.9041 0/1:26:15,11:15:536:11:396:-28.156,0,-40.748 0/0:212:212,0:212:7511:0:0:0,-63.8184,-676.04 0/1:113:63,50:63:2251:50:1788:-127.186,0,-168.836 0/0:296:296,0:296:10517:0:0:0,-89.1049,-946.453 0/0:117:116,0:116:4131:0:0:0,-34.9195,-371.616 0/1:86:44,42:44:1556:42:1504:-109.766,0,-114.443 0/1:170:82,88:82:2936:88:3143:-231.92,0,-213.299 0/1:133:85,48:85:3014:48:1724:-115.408,0,-231.455 0/0:243:241,2:241:8520:2:72:0,-66.3136,-759.976 0/0:60:60,0:60:2117:0:0:0,-18.0618,-190.797 chr12 23910402 . A G 9710.57 PASS AB=0.427405;ABP=53.4547;AC=14;AF=0.333333;AN=42;AO=472;CIGAR=1X;DP=1879;DPB=1879;DPRA=0.878231;EPP=1027.95;EPPR=3058.27;GTI=0;LEN=1;MEANALT=1;MQM=59.9788;MQMR=59.963;NS=21;NUMALT=1;ODDS=4.10001;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16615;QR=49846;RO=1407;RPL=175;RPP=71.4853;RPPR=111.391;RPR=297;RUN=1;SAF=175;SAP=71.4853;SAR=297;SRF=571;SRP=111.391;SRR=836;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:103:65,38:65:2287:38:1343:-90.1618,0,-175.084 0/1:53:38,15:38:1348:15:536:-32.6202,0,-105.666 0/1:72:47,25:47:1655:25:900:-59.6469,0,-127.563 0/1:88:53,35:53:1872:35:1229:-84.4212,0,-142.269 0/1:148:81,67:81:2877:67:2381:-169.992,0,-214.6 0/1:72:37,35:37:1311:35:1229:-89.2375,0,-96.6167 0/1:46:33,13:33:1158:13:445:-26.528,0,-90.6777 0/1:100:38,62:38:1352:62:2195:-167.711,0,-91.8774 0/0:195:195,0:195:6938:0:0:0,-58.7008,-624.488 0/0:9:9,0:9:324:0:0:0,-2.70927,-29.5059 0/1:7:3,4:3:108:4:140:-10.8374,0,-7.96796 0/1:36:14,22:14:492:22:762:-58.0593,0,-33.7753 0/0:189:188,1:188:6628:1:36:0,-53.2964,-592.958 0/1:120:64,56:64:2288:56:1979:-142.258,0,-170.058 0/0:124:124,0:124:4411:0:0:0,-37.3277,-397.162 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 0/1:50:37,13:37:1310:13:468:-27.4081,0,-103.149 0/1:104:54,50:54:1928:50:1717:-123.496,0,-142.49 0/1:103:67,36:67:2307:36:1255:-82.2426,0,-176.882 0/0:143:143,0:143:5115:0:0:0,-43.0473,-460.492 0/0:70:70,0:70:2457:0:0:0,-21.0721,-221.385 chr12 23910485 . 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GATCG CATCG,CATCC 11578.7 PASS AB=0.566234,0.431169;ABP=17.6804,18.8536;AC=28,14;AF=0.666667,0.333333;AN=42;AO=410,166;CIGAR=1X4M,1X3M1X;DP=582;DPB=684.2;DPRA=0,0.977157;EPP=884.649,363.475;EPPR=5.18177;GTI=0;LEN=1,5;MEANALT=1.90476,2.07143;MQM=60,59.9518;MQMR=60;NS=21;NUMALT=2;ODDS=8.82226;PAIRED=0,0;PAIREDR=0;PAO=255.5,255.5;PQA=8746,8746;PQR=0;PRO=0;QA=14550,5856;QR=28;RO=1;RPL=410,166;RPP=893.314,363.475;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=1,0;SAP=884.649,363.475;SAR=409,166;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:31:0,13,18:0:0:13,18:464,634:-87.7607,-49.9804,-46.067,-36.2406,0,-30.822 1/2:17:0,11,6:0:0:11,6:396,216:-50.2959,-17.9843,-14.673,-32.6714,0,-30.8652 1/2:16:0,11,5:0:0:11,5:396,173:-45.7136,-13.5409,-10.2296,-31.6899,0,-30.1848 1/2:28:0,15,13:0:0:15,13:540,461:-80.0074,-36.0275,-31.512,-42.5152,0,-38.6018 1/2:35:0,18,17:0:0:18,17:648,596:-99.2222,-46.4219,-41.0034,-50.797,0,-45.6795 1/2:7:0,3,4:0:0:3,4:104,141:-20.2835,-11.8328,-10.9297,-8.79971,0,-7.59559 1/2:30:0,15,15:0:0:15,15:540,530:-87.581,-43.5165,-39.001,-44.4211,0,-39.9056 1/2:34:0,25,9:0:0:25,9:881,324:-97.0587,-25.4593,-17.9336,-70.6359,0,-67.9266 1/1:27:0,27,0:0:0:27,0:949,0:-82.0789,-8.12781,0,-82.0789,-8.12781,-82.0789 1/1:7:0,7,0:0:0:7,0:237,0:-21.298,-2.10721,0,-21.298,-2.10721,-21.298 1/2:6:0,2,4:0:0:2,4:68,139:-17.1614,-11.6481,-11.046,-5.85565,0,-4.65153 1/2:15:0,5,10:0:0:5,10:180,343:-42.4901,-27.8114,-26.3063,-14.71,0,-11.6997 1/1:18:0,17,0:0:0:17,0:608,0:-51.3994,-5.11751,0,-51.3994,-5.11751,-51.3994 1/2:33:0,18,15:0:0:18,15:644,512:-92.6098,-40.1539,-34.7354,-51.1173,0,-46.6018 1/1:33:0,31,0:0:0:31,0:1048,0:-93.0721,-9.33193,0,-93.0721,-9.33193,-93.0721 1/1:23:0,23,0:0:0:23,0:779,0:-69.8427,-6.92369,0,-69.8427,-6.92369,-69.8427 1/2:12:0,7,5:0:0:7,5:252,179:-34.8012,-14.3294,-12.2222,-20.2512,0,-18.746 1/2:71:0,39,31:0:0:39,31:1404,1105:-201.87,-87.3573,-75.6171,-111.83,0,-102.499 1/2:50:0,36,14:0:0:36,14:1296,503:-143.782,-38.2102,-27.3731,-102.783,0,-98.5683 1/1:33:1,32,0:1:28:32,0:1148,0:-99.6642,-7.13426,0,-99.9653,-9.63296,-102.18 1/1:56:0,55,0:0:0:55,0:1968,0:-177.035,-16.5567,0,-177.035,-16.5567,-177.035 chr12 24008876 . C T 25667.5 PASS AB=0.529937;ABP=11.7214;AC=28;AF=0.666667;AN=42;AO=1271;CIGAR=1X;DP=1797;DPB=1797;DPRA=0;EPP=2762.95;EPPR=1143.03;GTI=1;LEN=1;MEANALT=1.04762;MQM=48.4225;MQMR=59.3086;NS=21;NUMALT=1;ODDS=3.81627;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45546;QR=18746;RO=525;RPL=1271;RPP=2762.95;RPPR=1143.03;RPR=0;RUN=1;SAF=0;SAP=2762.95;SAR=1271;SRF=0;SRP=1143.03;SRR=525;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:133:64,69:64:2296:69:2453:-179.631,0,-166.729 0/1:97:45,52:45:1574:52:1872:-137.662,0,-112.658 0/1:87:47,40:47:1680:40:1440:-102.575,0,-125.271 0/1:80:43,37:43:1544:37:1328:-94.7457,0,-115.145 0/1:182:96,86:96:3429:86:3075:-220.309,0,-253.986 0/1:63:30,33:30:1080:33:1184:-86.6546,0,-78.5062 0/1:101:30,70:30:1072:70:2515:-193.828,0,-66.3328 0/1:66:34,32:34:1216:32:1124:-80.9689,0,-89.8749 1/1:156:0,156:0:0:156:5600:-500.708,-46.9607,0 1/1:7:0,7:0:0:7:252:-22.9219,-2.10721,0 0/1:9:8,1:8:288:1:36:-0.857543,0,-23.5581 0/1:39:18,21:18:644:21:744:-55.0811,0,-46.5458 1/1:117:0,117:0:0:117:4208:-376.391,-35.2205,0 0/1:110:51,59:51:1832:59:2124:-157.232,0,-131.982 1/1:192:0,192:0:0:192:6874:-614.805,-57.7978,0 1/1:94:0,94:0:0:94:3365:-301.255,-28.2968,0 0/1:99:42,57:42:1496:57:2052:-154.154,0,-105.087 0/1:27:13,14:13:451:14:500:-36.9842,0,-32.7804 0/1:26:4,22:4:144:22:792:-63.1163,0,-5.47593 1/1:87:0,87:0:0:87:3128:-279.884,-26.1896,0 1/1:25:0,25:0:0:25:880:-78.3397,-7.52575,0 chr12 24017167 . AA GA,GG 40904 PASS AB=0.483232,0.51372;ABP=6.21455,5.15529;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1285,675;CIGAR=1X1M,2X;DP=1965;DPB=1965;DPRA=0,0.95284;EPP=2793.35,1468.75;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.90476,2.26667;MQM=59.9852,54.0919;MQMR=60;NS=21;NUMALT=2;ODDS=12.6715;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=45894,23928;QR=28;RO=1;RPL=0,0;RPP=2793.35,1468.75;RPPR=5.18177;RPR=1285,675;RUN=1,1;SAF=1285,675;SAP=2793.35,1468.75;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/2:193:0,93,98:0:0:93,98:3313,3460:-550.802,-280.769,-252.773,-270.028,0,-240.527 1/2:95:0,44,51:0:0:44,51:1584,1836:-278.154,-148.906,-135.661,-129.606,0,-114.254 1/2:79:0,29,50:0:0:29,50:1029,1759:-227.243,-143.405,-134.675,-84.1913,0,-69.1398 1/2:90:0,35,55:0:0:35,55:1218,1944:-257.236,-158.203,-147.666,-99.3833,0,-82.8266 1/2:235:0,120,115:0:0:120,115:4277,4047:-677.671,-329.04,-292.916,-348.984,0,-314.366 1/2:86:0,30,56:0:0:30,56:1065,2006:-249.728,-162.954,-153.923,-87.1289,0,-70.2712 1/2:78:0,43,35:0:0:43,35:1513,1246:-224.757,-101.596,-88.6515,-123.515,0,-112.979 1/2:113:0,71,42:0:0:71,42:2536,1491:-328.413,-121.65,-100.277,-207.118,0,-194.475 1/1:206:0,206,0:0:0:206,0:7364,0:-662.809,-62.0122,0,-662.809,-62.0122,-662.809 1/1:14:0,14,0:0:0:14,0:504,0:-45.6981,-4.21442,0,-45.6981,-4.21442,-45.6981 1/2:5:0,2,3:0:0:2,3:72,108:-15.0219,-9.14675,-8.54469,-6.23466,0,-5.33157 1/2:41:0,19,22:0:0:19,22:684,786:-120.026,-64.213,-58.4934,-56.1708,0,-49.5481 1/1:110:0,110,0:0:0:110,0:3907,0:-351.821,-33.1133,0,-351.821,-33.1133,-351.821 1/2:87:0,35,52:0:0:35,52:1260,1844:-253.22,-150.408,-139.872,-103.169,0,-87.5159 1/1:134:0,134,0:0:0:134,0:4804,0:-432.515,-40.338,0,-432.515,-40.338,-432.515 1/1:83:0,83,0:0:0:83,0:2976,0:-268.072,-24.9855,0,-268.072,-24.9855,-268.072 1/2:73:0,29,43:0:0:29,43:1044,1540:-210.554,-125.368,-116.638,-85.1852,0,-72.2409 1/2:91:0,54,37:0:0:54,37:1944,1298:-264.432,-105.806,-89.55,-158.98,0,-147.842 1/2:46:0,30,15:0:0:30,15:1080,527:-130.721,-42.592,-33.5611,-88.1225,0,-83.6071 1/1:72:0,71,1:0:0:71,1:2544,36:-228.843,-21.3731,0,-225.91,-18.081,-225.609 1/1:34:1,33,0:1:28:33,0:1176,0:-103.348,-7.43529,0,-103.649,-9.93399,-105.866 chr12 24017186 . ATCGACT ATCGACG,GTCCACG 47384 PASS AB=0.475573,0.516031;ABP=9.79988,5.93433;AC=28,14;AF=0.666667,0.333333;AN=42;AO=1258,677;CIGAR=6M1X,1X2M1X2M1X;DP=1954;DPB=1954;DPRA=0,0.964049;EPP=1426.14,449.266;EPPR=5.18177;GTI=0;LEN=1,7;MEANALT=2.47619,2.8;MQM=59.9984,54.1049;MQMR=60;NS=21;NUMALT=2;ODDS=9.47216;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=44935,23509;QR=32;RO=1;RPL=175,152;RPP=1426.14,449.266;RPPR=5.18177;RPR=1083,525;RUN=1,1;SAF=1258,677;SAP=2734.72,1473.1;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:191:0,89,100:0:0:89,100:3192,3442:-539.14,-278.779,-251.987,-260.396,0,-230.293 1/2:96:0,45,51:0:0:45,51:1604,1773:-274.312,-143.56,-130.013,-131.104,0,-115.751 1/2:78:0,27,51:0:0:27,51:972,1735:-220.285,-140.968,-132.84,-79.6701,0,-64.3176 1/2:89:0,33,56:0:0:33,56:1176,1961:-255.27,-159.41,-149.476,-96.2138,0,-79.3561 1/2:235:0,119,113:0:0:119,113:4260,3906:-664.03,-316.625,-280.802,-347.422,0,-313.406 1/2:85:0,28,54:0:0:28,54:1008,1891:-235.546,-153.295,-144.866,-82.2653,0,-66.0096 1/2:78:0,43,35:0:0:43,35:1513,1237:-223.852,-100.686,-87.7418,-123.518,0,-112.982 1/2:112:0,70,42:0:0:70,42:2485,1471:-322.354,-119.875,-98.803,-202.83,0,-190.187 1/1:205:0,204,0:0:0:204,0:7303,0:-656.959,-61.4101,0,-656.959,-61.4101,-656.959 1/1:11:0,11,0:0:0:11,0:383,0:-34.8032,-3.31133,0,-34.8032,-3.31133,-34.8032 1/2:5:0,2,3:0:0:2,3:72,106:-14.8416,-8.96377,-8.36171,-6.23466,0,-5.33157 1/2:41:0,19,22:0:0:19,22:675,767:-117.52,-62.5137,-56.7941,-55.3574,0,-48.7347 1/1:106:0,104,0:0:0:104,0:3720,0:-334.696,-31.3071,0,-334.696,-31.3071,-334.696 1/2:88:0,35,53:0:0:35,53:1252,1837:-251.621,-149.525,-138.989,-102.449,0,-86.4944 1/1:134:0,134,0:0:0:134,0:4784,0:-430.715,-40.338,0,-430.715,-40.338,-430.715 1/1:84:0,84,0:0:0:84,0:3004,0:-270.592,-25.2865,0,-270.592,-25.2865,-270.592 1/2:73:0,29,43:0:0:29,43:1040,1512:-207.827,-122.998,-114.268,-84.8658,0,-71.9215 1/2:93:0,55,37:0:0:55,37:1963,1284:-264.189,-104.152,-87.5953,-160.028,0,-148.89 1/2:46:0,29,16:0:0:29,16:1040,551:-129.404,-44.5693,-35.8395,-84.8247,0,-80.0082 1/1:71:0,67,1:0:0:67,1:2390,36:-214.997,-20.169,0,-212.064,-17.2362,-211.763 1/1:33:1,31,0:1:32:31,0:1099,0:-96.0004,-6.77353,0,-96.3014,-9.33193,-98.8787 chr12 24017214 . T C 24844.4 PASS AB=0.486822;ABP=4.95621;AC=28;AF=0.666667;AN=42;AO=1270;CIGAR=1X;DP=1935;DPB=1935;DPRA=0;EPP=2760.78;EPPR=1444.87;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9827;MQMR=54.1928;NS=21;NUMALT=1;ODDS=10.3403;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=44936;QR=23751;RO=664;RPL=1270;RPP=2760.78;RPPR=1444.87;RPR=0;RUN=1;SAF=1270;SAP=2760.78;SAR=0;SRF=664;SRP=1444.87;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:190:98,91:98:3505:91:3217:-232.654,0,-257.688 0/1:93:50,43:50:1774:43:1540:-110.897,0,-130.753 0/1:77:49,28:49:1752:28:974:-64.7914,0,-134.605 0/1:90:56,34:56:1995:34:1183:-79.6784,0,-152.205 0/1:232:111,121:111:3980:121:4278:-315.361,0,-288.197 0/1:85:55,30:55:1976:30:1056:-69.5703,0,-151.711 0/1:74:34,40:34:1220:40:1398:-103.839,0,-87.3701 0/1:109:39,70:39:1400:70:2478:-190.461,0,-93.3065 1/1:202:0,202:0:0:202:7141:-642.752,-60.8081,0 1/1:13:0,13:0:0:13:455:-41.282,-3.91339,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.61541 0/1:41:22,19:22:788:19:680:-49.1869,0,-58.6733 1/1:110:0,110:0:0:110:3900:-351.195,-33.1133,0 0/1:86:51,35:51:1813:35:1238:-85.8343,0,-137.385 1/1:132:1,131:1:36:131:4634:-413.627,-36.1377,0 1/1:82:0,82:0:0:82:2923:-263.305,-24.6845,0 0/1:72:44,28:44:1576:28:1008:-69.3622,0,-120.246 0/1:90:34,56:34:1220:56:1986:-151.92,0,-82.7923 0/1:47:16,31:16:576:31:1084:-83.7177,0,-37.7317 1/1:72:1,71:1:36:71:2524:-223.817,-18.081,0 1/1:34:1,33:1:32:33:1167:-102.137,-7.03571,0 chr12 24080017 . A C 30347.1 PASS AB=0.501097;ABP=3.0246;AC=28;AF=0.666667;AN=42;AO=1499;CIGAR=1X;DP=2185;DPB=2185;DPRA=0;EPP=3258.05;EPPR=1488.3;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.944;MQMR=59.9795;NS=21;NUMALT=1;ODDS=1.82573;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53522;QR=24454;RO=684;RPL=1498;RPP=3249.37;RPPR=1488.3;RPR=1;RUN=1;SAF=1;SAP=3249.37;SAR=1498;SRF=0;SRP=1488.3;SRR=684;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:128:60,68:60:2137:68:2444:-181.654,0,-154.064 0/1:69:34,35:34:1220:35:1252:-92.214,0,-89.3357 0/1:137:63,74:63:2253:74:2625:-195.255,0,-161.79 0/1:143:89,54:89:3192:54:1944:-132.185,0,-244.456 0/1:131:59,72:59:2120:72:2579:-192.924,0,-151.634 0/1:73:34,39:34:1208:39:1404:-104.665,0,-87.0509 0/1:120:57,63:57:2025:63:2237:-165.469,0,-146.397 0/1:225:123,102:123:4397:102:3618:-258.093,0,-328.17 1/1:265:0,265:0:0:265:9444:-849.905,-79.773,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:15:3,12:3:108:12:409:-32.62,0,-5.55972 1/1:108:0,108:0:0:108:3884:-349.753,-32.5112,0 0/1:122:70,52:70:2486:52:1864:-131.156,0,-187.265 1/1:222:1,220:1:36:220:7843:-702.368,-63.2143,0 1/1:68:1,66:1:36:66:2376:-210.499,-16.9306,0 0/1:62:30,32:30:1080:32:1144:-84.6057,0,-78.8366 0/1:66:32,34:32:1148:34:1205:-88.8859,0,-83.7619 0/1:70:24,46:24:864:46:1648:-127.536,0,-57.0105 1/1:93:0,93:0:0:93:3313:-298.388,-27.9958,0 1/1:53:0,53:0:0:53:1893:-170.646,-15.9546,0 chr12 24096419 . TTAAAGTTGA CTGAATTTGA,TTGAATTTGT 24653.1 PASS AB=0.625304,0.367397;ABP=115.113,128.554;AC=28,14;AF=0.666667,0.333333;AN=42;AO=978,302;CIGAR=1X1M1X2M1X4M,2M1X2M1X3M1X;DP=1293;DPB=1293;DPRA=0,0.872611;EPP=2126.71,658.795;EPPR=0;GTI=2;LEN=10,10;MEANALT=2.2381,2.42857;MQM=40.8599,40.1954;MQMR=0;NS=21;NUMALT=2;ODDS=0.727066;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34197,10546;QR=0;RO=0;RPL=0,0;RPP=2126.71,658.795;RPPR=0;RPR=978,302;RUN=1,1;SAF=978,302;SAP=2126.71,658.795;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,complex GT:DP:AD:RO:QR:AO:QA:GL 1/2:71:0,56,15:0:0:56,15:1938,521:-193.465,-40.8263,-23.9686,-152.972,0,-148.457 1/2:39:0,34,5:0:0:34,5:1156,178:-101.595,-13.9601,-3.72505,-87.9687,0,-86.4635 1/2:44:0,26,18:0:0:26,18:927,634:-123.301,-49.8368,-42.01,-73.8065,0,-68.388 1/2:63:0,33,30:0:0:33,30:1141,1046:-172.915,-83.0451,-73.1111,-90.2081,0,-81.1772 1/2:211:0,137,73:0:0:137,73:4760,2550:-575.196,-200.371,-159.13,-374.896,0,-352.921 1/2:38:0,22,15:0:0:22,15:752,525:-96.133,-39.2305,-32.6078,-56.9875,0,-52.4721 1/2:76:0,43,32:0:0:43,32:1508,1126:-200.572,-85.6622,-72.7179,-115.011,0,-105.378 1/2:7:0,4,3:0:0:4,3:142,101:-19.2979,-8.23783,-7.03371,-11.3925,0,-10.4894 1/1:72:0,68,0:0:0:68,0:2362,0:-208.341,-20.47,0,-208.341,-20.47,-208.341 1/1:14:0,14,0:0:0:14,0:501,0:-43.6674,-4.21442,0,-43.6674,-4.21442,-43.6674 1/2:7:0,4,3:0:0:4,3:134,106:-18.6413,-8.39045,-7.18633,-10.5769,0,-9.67386 1/2:41:0,23,18:0:0:23,18:811,619:-112.174,-48.791,-41.8673,-63.7187,0,-58.3002 1/1:68:0,66,0:0:0:66,0:2342,0:-204.578,-19.868,0,-204.578,-19.868,-204.578 1/2:33:0,17,15:0:0:17,15:594,511:-86.9204,-39.8932,-34.7756,-47.1129,0,-42.5975 1/1:102:0,101,0:0:0:101,0:3553,0:-310.608,-30.404,0,-310.608,-30.404,-310.608 1/1:95:0,95,0:0:0:95,0:3347,0:-295.7,-28.5979,0,-295.7,-28.5979,-295.7 1/2:65:0,54,10:0:0:54,10:1897,346:-178.549,-27.6406,-11.3849,-150.964,0,-147.954 1/2:68:0,25,42:0:0:25,42:864,1487:-181.553,-114.625,-107.099,-66.9888,0,-54.3456 1/2:59:0,36,23:0:0:36,23:1276,796:-163.698,-62.8979,-52.0608,-101.139,0,-94.2155 1/1:80:0,80,0:0:0:80,0:2785,0:-240.619,-24.0824,0,-240.619,-24.0824,-240.619 1/1:40:0,40,0:0:0:40,0:1407,0:-119.71,-12.0412,0,-119.71,-12.0412,-119.71 chr12 24096434 . A T,C 25084.4 PASS AB=0.62531,0.373449;ABP=112.942,115.129;AC=28,14;AF=0.666667,0.333333;AN=42;AO=966,301;CIGAR=1X,1X;DP=1268;DPB=1268;DPRA=0,0.872294;EPP=2083.32,656.623;EPPR=5.18177;GTI=3;LEN=1,1;MEANALT=1.66667,2;MQM=40.8903,40.1196;MQMR=52;NS=21;NUMALT=2;ODDS=2.48877;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=34538,10676;QR=36;RO=1;RPL=964,301;RPP=2083.32,656.623;RPPR=5.18177;RPR=2,0;RUN=1,1;SAF=966,301;SAP=2100.65,656.623;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:70:0,55,15:0:0:55,15:1962,532:-195.654,-41.6724,-25.1157,-154.322,0,-149.807 1/2:38:0,33,5:0:0:33,5:1171,180:-101.146,-14.0778,-4.14382,-87.4054,0,-85.9003 1/2:44:0,26,18:0:0:26,18:936,644:-124.536,-50.3953,-42.5685,-74.4866,0,-69.0681 1/2:59:0,29,30:0:0:29,30:1027,1072:-165.463,-85.0726,-76.3427,-80.7349,0,-71.704 1/2:207:0,135,72:0:0:135,72:4828,2564:-579.034,-201.647,-161.008,-377.731,0,-356.057 1/2:38:0,23,15:0:0:23,15:824,527:-100.008,-39.6827,-32.759,-60.6506,0,-56.1352 1/2:75:1,41,33:1:36:41,33:1476,1168:-196.332,-85.1519,-75.7398,-108.525,0,-101.521 1/2:7:0,4,3:0:0:4,3:144,108:-19.9404,-8.76948,-7.56536,-11.5156,0,-10.6125 1/1:69:0,69,0:0:0:69,0:2469,0:-216.314,-20.7711,0,-216.314,-20.7711,-216.314 1/1:14:0,14,0:0:0:14,0:504,0:-43.872,-4.21442,0,-43.872,-4.21442,-43.872 1/2:7:0,4,3:0:0:4,3:144,84:-17.7128,-6.68275,-5.47863,-11.33,0,-10.4269 1/2:42:0,24,18:0:0:24,18:856,644:-117.477,-50.6014,-43.3767,-67.2192,0,-61.8006 1/1:68:0,68,0:0:0:68,0:2430,0:-212.164,-20.47,0,-212.164,-20.47,-212.164 1/2:32:0,16,16:0:0:16,16:576,560:-88.4963,-42.8632,-38.0467,-45.9727,0,-41.1562 1/1:100:0,100,0:0:0:100,0:3583,0:-312.025,-30.103,0,-312.025,-30.103,-312.025 1/1:95:0,95,0:0:0:95,0:3396,0:-299.044,-28.5979,0,-299.044,-28.5979,-299.044 1/2:61:0,52,9:0:0:52,9:1866,315:-173.478,-25.4148,-9.76126,-148.407,0,-145.697 1/2:68:0,26,42:0:0:26,42:920,1486:-184.362,-114.353,-106.526,-70.342,0,-57.6987 1/2:58:0,36,22:0:0:36,22:1283,792:-164.46,-63.0374,-52.2004,-101.771,0,-95.1481 1/1:77:0,77,0:0:0:77,0:2760,0:-236.057,-23.1793,0,-236.057,-23.1793,-236.057 1/1:39:0,39,0:0:0:39,0:1383,0:-117.234,-11.7402,0,-117.234,-11.7402,-117.234 chr12 24102175 . TA CC,CA 66562.7 PASS AB=0.528989,0.466219;ABP=18.2439,23.696;AC=28,14;AF=0.666667,0.333333;AN=42;AO=2216,979;CIGAR=2X,1X1M;DP=3209;DPB=3209.5;DPRA=0,1.61534;EPP=4814.99,2128.88;EPPR=7.35324;GTI=0;LEN=2,1;MEANALT=2.33333,2.58824;MQM=59.5821,59.9612;MQMR=60;NS=21;NUMALT=2;ODDS=34.9118;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=16,16;PQR=0;PRO=0;QA=78534,34945;QR=72;RO=2;RPL=2216,979;RPP=4814.99,2128.88;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=4814.99,2128.88;SAR=2216,979;SRF=0;SRP=7.35324;SRR=2;TYPE=mnp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/2:161:0,78,82:0:0:78,82:2746,2937:-463.13,-239.592,-216.112,-223.611,0,-198.927 1/2:132:0,63,69:0:0:63,69:2232,2471:-383.675,-201.867,-182.902,-182.165,0,-161.394 1/2:117:0,58,58:0:0:58,58:2039,2065:-334.179,-168.3,-150.84,-165.873,0,-148.414 1/2:178:0,100,78:0:0:100,78:3552,2796:-517.199,-228.4,-198.297,-289.156,0,-265.675 1/2:312:0,138,172:0:0:138,172:4873,6150:-898.18,-501.553,-460.011,-396.715,0,-344.938 1/2:156:0,79,77:0:0:79,77:2796,2734:-450.709,-223.119,-199.338,-227.943,0,-204.764 1/2:349:2,223,122:2:72:223,122:7943,4334:-994.036,-347.289,-286.034,-641.489,0,-610.638 1/2:122:0,69,53:0:0:69,53:2482,1877:-355.615,-153.252,-132.481,-202.718,0,-186.764 1/1:282:0,278,2:0:0:278,2:9818,72:-883.019,-83.6863,0,-877.144,-77.7915,-876.542 1/1:27:0,27,0:0:0:27,0:972,0:-87.7933,-8.12781,0,-87.7933,-8.12781,-87.7933 1/2:27:0,15,12:0:0:15,12:536,432:-79.2648,-35.6088,-31.0934,-44.0145,0,-40.4021 1/2:53:0,31,21:0:0:31,21:1108,756:-152.016,-61.6858,-52.3538,-90.3295,0,-84.0079 1/1:165:0,164,0:0:0:164,0:5774,0:-519.463,-49.3689,0,-519.463,-49.3689,-519.463 1/2:124:0,57,67:0:0:57,67:2025,2381:-359.382,-194.377,-177.219,-165.36,0,-145.191 1/1:248:0,247,1:0:0:247,1:8702,36:-782.741,-74.3544,0,-779.804,-71.0572,-779.503 1/1:149:0,149,0:0:0:149,0:5324,0:-479.248,-44.8535,0,-479.248,-44.8535,-479.248 1/2:103:0,57,46:0:0:57,46:2042,1644:-300.933,-134.4,-117.242,-166.89,0,-153.043 1/2:145:0,68,77:0:0:68,77:2395,2764:-420.781,-225.821,-205.351,-195.316,0,-172.136 1/2:108:0,68,39:0:0:68,39:2421,1388:-310.303,-113.119,-92.649,-197.18,0,-185.44 1/1:184:0,180,3:0:0:180,3:6367,108:-572.689,-54.1854,0,-563.877,-45.4183,-562.974 1/1:67:0,67,0:0:0:67,0:2387,0:-214.889,-20.169,0,-214.889,-20.169,-214.889 chr12 24151269 . 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TC AT 5599.22 PASS AB=0.459948;ABP=13.7947;AC=12;AF=0.285714;AN=42;AO=357;CIGAR=2X;DP=1314;DPB=1314;DPRA=0.976378;EPP=778.226;EPPR=2076.77;GTI=0;LEN=2;MEANALT=1.07692;MQM=59.5014;MQMR=59.9843;NS=21;NUMALT=1;ODDS=8.76522;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12614;QR=32880;RO=955;RPL=0;RPP=778.226;RPPR=2076.77;RPR=357;RUN=1;SAF=0;SAP=778.226;SAR=357;SRF=0;SRP=2076.77;SRR=955;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:75,0:75:2577:0:0:0,-22.5772,-232.132 0/0:71:71,0:71:2447:0:0:0,-21.3731,-220.481 0/1:100:59,41:59:2038:41:1459:-101.502,0,-153.585 0/1:62:41,21:41:1401:21:745:-48.7096,0,-107.716 0/1:135:64,71:64:2232:71:2528:-186.088,0,-160.501 0/1:55:33,22:33:1132:22:750:-51.2554,0,-85.6226 0/1:88:44,44:44:1539:44:1570:-115.078,0,-112.308 0/1:76:45,30:45:1552:30:1054:-72.2221,0,-117.03 0/0:118:117,0:117:3963:0:0:0,-35.2205,-356.506 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/1:5:2,3:2:72:3:100:-7.82471,0,-5.33157 0/1:13:6,7:6:194:7:235:-17.5543,0,-13.8634 0/0:32:31,1:31:1045:1:36:0,-6.03468,-90.7513 0/1:73:33,40:33:1096:40:1408:-105.03,0,-76.9586 0/0:114:114,0:114:3962:0:0:0,-34.3174,-356.774 0/0:59:59,0:59:2024:0:0:0,-17.7608,-182.428 0/1:45:23,22:23:805:22:781:-57.0648,0,-59.2217 0/1:87:43,44:43:1500:44:1563:-114.748,0,-109.1 0/1:35:24,11:24:813:11:385:-24.4481,0,-62.9432 0/0:17:17,0:17:593:0:0:0,-5.11751,-53.696 0/0:39:39,0:39:1359:0:0:0,-11.7402,-122.605 chr12 24351472 . T A 19614.2 PASS AB=0.544631;ABP=16.3847;AC=30;AF=0.714286;AN=42;AO=952;CIGAR=1X;DP=1305;DPB=1305;DPRA=0;EPP=2061.58;EPPR=760.879;GTI=0;LEN=1;MEANALT=1;MQM=59.9464;MQMR=59.5467;NS=21;NUMALT=1;ODDS=9.55646;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34121;QR=12645;RO=353;RPL=1;RPP=2061.58;RPPR=760.879;RPR=951;RUN=1;SAF=0;SAP=2070.25;SAR=952;SRF=0;SRP=769.54;SRR=353;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:0,76:0:0:76:2709:-244.051,-22.8783,0 1/1:71:0,71:0:0:71:2541:-228.94,-21.3731,0 0/1:101:41,60:41:1472:60:2160:-164.263,0,-102.372 0/1:61:21,40:21:752:40:1436:-111.175,0,-49.6434 0/1:134:70,64:70:2493:64:2300:-166.923,0,-183.243 0/1:54:21,33:21:756:33:1173:-89.6199,0,-52.1116 0/1:87:43,44:43:1528:44:1576:-115.942,0,-111.596 0/1:76:30,46:30:1080:46:1656:-126.45,0,-74.6258 1/1:114:0,114:0:0:114:4092:-367.361,-34.3174,0 1/1:15:0,15:0:0:15:531:-48.1219,-4.51545,0 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:12:6,6:6:216:6:216:-16.1782,0,-16.1688 1/1:32:1,31:1:36:31:1116:-97.1534,-6.03469,0 0/1:73:40,33:40:1436:33:1184:-84.8931,0,-107.553 1/1:113:0,113:0:0:113:4068:-366.304,-34.0164,0 1/1:56:0,56:0:0:56:1993:-179.642,-16.8577,0 0/1:46:22,24:22:792:24:856:-63.5137,0,-57.7574 0/1:88:44,44:44:1580:44:1575:-115.55,0,-115.975 0/1:35:11,24:11:396:24:860:-67.1858,0,-25.4467 1/1:17:0,17:0:0:17:612:-55.4134,-5.11751,0 1/1:38:0,38:0:0:38:1359:-122.61,-11.4391,0 chr12 24351488 . G A 5636.47 PASS AB=0.459424;ABP=13.9359;AC=12;AF=0.285714;AN=42;AO=354;CIGAR=1X;DP=1296;DPB=1296;DPRA=0.858252;EPP=771.712;EPPR=2022.56;GTI=0;LEN=1;MEANALT=1;MQM=59.5085;MQMR=59.9459;NS=21;NUMALT=1;ODDS=9.78047;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=12634;QR=33663;RO=942;RPL=354;RPP=771.712;RPPR=2022.56;RPR=0;RUN=1;SAF=0;SAP=771.712;SAR=354;SRF=0;SRP=2048.54;SRR=942;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:74,0:74:2635:0:0:0,-22.2762,-237.379 0/0:71:70,1:70:2508:1:36:0,-17.7749,-222.374 0/1:98:59,39:59:2116:39:1400:-96.7978,0,-161.208 0/1:62:41,21:41:1460:21:752:-49.3424,0,-113.032 0/1:132:61,71:61:2188:71:2520:-187.026,0,-157.45 0/1:54:32,22:32:1135:22:788:-54.981,0,-86.2024 0/1:88:43,45:43:1540:45:1612:-118.847,0,-112.402 0/1:75:46,29:46:1648:29:1014:-68.981,0,-126.031 0/0:118:118,0:118:4205:0:0:0,-35.5215,-377.528 0/0:13:13,0:13:468:0:0:0,-3.91339,-42.4596 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:13:6,7:6:212:7:252:-19.1016,0,-15.5114 0/0:32:31,1:31:1116:1:36:0,-6.03468,-97.1534 0/1:72:35,37:35:1256:37:1309:-96.4295,0,-91.6711 0/0:111:111,0:111:3976:0:0:0,-33.4143,-358.03 0/0:59:59,0:59:2107:0:0:0,-17.7608,-189.899 0/1:44:22,22:22:788:22:792:-58.3594,0,-57.9995 0/1:88:44,44:44:1554:44:1583:-116.246,0,-113.66 0/1:32:21,11:21:748:11:396:-26.3498,0,-58.0123 0/0:17:16,1:16:567:1:36:0,-1.51923,-47.7625 0/0:37:37,0:37:1328:0:0:0,-11.1381,-119.822 chr12 24402194 . G A 13599.5 PASS AB=0.453804;ABP=16.6528;AC=26;AF=0.619048;AN=42;AO=552;CIGAR=1X;DP=954;DPB=954;DPRA=0;EPP=5.66957;EPPR=5.17097;GTI=0;LEN=1;MEANALT=1;MQM=57.7228;MQMR=58.1741;NS=21;NUMALT=1;ODDS=6.79957;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19697;QR=14218;RO=402;RPL=0;RPP=1201.66;RPPR=875.942;RPR=552;RUN=1;SAF=263;SAP=5.66957;SAR=289;SRF=211;SRP=5.17097;SRR=191;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:16,30:16:572:30:1072:-82.6486,0,-37.966 0/1:48:12,36:12:424:36:1277:-100.729,0,-23.9402 0/1:22:19,3:19:684:3:108:-3.42409,0,-55.2677 0/1:27:16,11:16:572:11:387:-27.0161,0,-42.6931 0/1:61:38,23:38:1341:23:824:-56.0572,0,-102.453 0/1:39:28,11:28:993:11:396:-23.7154,0,-77.403 0/1:56:36,20:36:1277:20:716:-47.874,0,-98.1611 0/1:54:36,18:36:1288:18:648:-42.3535,0,-99.6596 0/1:81:29,52:29:1025:52:1868:-143.886,0,-68.1773 0/1:4:1,3:1:36:3:108:-8.86004,0,-2.39415 0/1:5:2,3:2:72:3:104:-8.18921,0,-5.21987 0/1:9:8,1:8:288:1:36:-0.889005,0,-23.4171 1/1:29:0,29:0:0:29:1036:-93.4852,-8.72987,0 0/1:35:20,15:20:690:15:532:-37.6301,0,-51.6864 1/1:45:0,45:0:0:45:1601:-144.227,-13.5464,0 1/1:24:0,24:0:0:24:855:-77.1544,-7.22472,0 0/1:27:14,13:14:457:13:464:-33.8756,0,-33.2845 0/1:130:84,46:84:2963:46:1629:-107.609,0,-227.383 0/1:92:43,49:43:1536:49:1741:-129.184,0,-110.704 1/1:28:0,28:0:0:28:1000:-90.2508,-8.42884,0 1/1:92:0,92:0:0:92:3295:-296.453,-27.6948,0 chr12 24402227 . A C 4088.66 PASS AB=0.368327;ABP=87.6436;AC=12;AF=0.285714;AN=42;AO=208;CIGAR=1X;DP=967;DPB=967;DPRA=1.06089;EPP=3.05206;EPPR=4.7984;GTI=1;LEN=1;MEANALT=1;MQM=56.274;MQMR=58.307;NS=21;NUMALT=1;ODDS=5.40233;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7431;QR=27231;RO=759;RPL=208;RPP=454.677;RPPR=1651.16;RPR=0;RUN=1;SAF=103;SAP=3.05206;SAR=105;SRF=367;SRP=4.7984;SRR=392;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:47,0:47:1684:0:0:0,-14.1484,-151.671 0/0:50:49,1:49:1760:1:36:0,-11.5708,-155.13 0/1:22:14,8:14:504:8:288:-19.6447,0,-39.0478 0/1:29:13,16:13:464:16:568:-41.9464,0,-33.3505 0/1:62:26,36:26:932:36:1292:-97.6953,0,-65.4767 0/1:38:25,13:25:900:13:460:-29.815,0,-69.3576 0/1:57:39,18:39:1400:18:648:-41.2802,0,-109.1 0/1:54:36,18:36:1283:18:640:-41.3239,0,-99.4731 0/0:81:81,0:81:2897:0:0:0,-24.3834,-260.816 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3027 0/1:5:4,1:4:144:1:36:-1.97555,0,-11.8001 0/1:9:3,6:3:108:6:216:-16.9396,0,-7.3659 0/0:31:31,0:31:1112:0:0:0,-9.33193,-100.319 0/1:34:15,19:15:527:19:676:-50.6177,0,-37.4837 0/0:45:45,0:45:1620:0:0:0,-13.5463,-145.934 0/0:23:23,0:23:828:0:0:0,-6.92369,-74.7163 0/1:27:17,10:17:612:10:356:-24.1962,0,-47.1973 0/1:132:94,38:94:3368:38:1364:-82.8981,0,-263.441 0/1:93:69,24:69:2480:24:851:-48.2871,0,-195.347 0/0:30:30,0:30:1080:0:0:0,-9.0309,-97.4383 0/0:94:94,0:94:3384:0:0:0,-28.2968,-304.426 chr12 24462447 . ATTG GTTA,GTTG 43160.5 PASS AB=0.519177,0.469598;ABP=6.42494,11.5926;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1604,506;CIGAR=1X2M1X,1X3M;DP=2127;DPB=2127.25;DPRA=0,0.825937;EPP=3486.05,1101.78;EPPR=0;GTI=1;LEN=4,1;MEANALT=2.42857,2.8;MQM=59.9819,59.9921;MQMR=0;NS=21;NUMALT=2;ODDS=3.87389;PAIRED=0,0;PAIREDR=0;PAO=1,0;PQA=36,0;PQR=0;PRO=0;QA=55199,17814;QR=0;RO=0;RPL=0,0;RPP=3486.05,1101.78;RPPR=0;RPR=1604,506;RUN=1,1;SAF=0,0;SAP=3486.05,1101.78;SAR=1604,506;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:0,136,2:0:0:136,2:4725,72:-425.097,-40.9401,0,-419.222,-34.992,-418.62 1/1:52:0,52,0:0:0:52,0:1768,0:-159.398,-15.6536,0,-159.398,-15.6536,-159.398 1/2:78:0,46,32:0:0:46,32:1551,1152:-220.032,-94.3572,-80.5098,-126.026,0,-116.393 1/2:108:0,46,61:0:0:46,61:1588,2159:-304.924,-175.913,-162.066,-129.059,0,-110.696 1/2:202:0,108,91:0:0:108,91:3727,3240:-566.92,-264.144,-231.633,-302.844,0,-275.45 1/2:53:0,27,26:0:0:27,26:915,913:-148.843,-74.6572,-66.5294,-74.5308,0,-66.7041 1/2:142:0,79,59:0:0:79,59:2718,2111:-392.926,-172.192,-148.41,-220.78,0,-203.019 1/2:94:0,41,53:0:0:41,53:1426,1863:-267.573,-151.632,-139.29,-115.931,0,-99.9766 1/1:301:0,298,0:0:0:298,0:10209,0:-918.49,-89.7069,0,-918.49,-89.7069,-918.49 1/1:23:0,23,0:0:0:23,0:781,0:-70.6031,-6.92369,0,-70.6031,-6.92369,-70.6031 1/2:6:0,4,2:0:0:4,2:142,72:-17.8016,-6.23466,-5.03054,-11.9252,0,-11.3231 1/2:31:0,18,13:0:0:18,13:617,455:-87.4532,-37.3686,-31.95,-50.4315,0,-46.5181 1/1:109:0,108,1:0:0:108,1:3765,36:-338.694,-32.5112,0,-335.756,-29.214,-335.455 1/2:133:0,80,50:0:0:80,50:2734,1705:-360.298,-138.411,-114.329,-221.963,0,-206.912 1/1:242:0,242,0:0:0:242,0:8375,0:-753.787,-72.8493,0,-753.787,-72.8493,-753.787 1/1:35:0,35,0:0:0:35,0:1202,0:-108.48,-10.5361,0,-108.48,-10.5361,-108.48 1/2:46:0,22,24:0:0:22,24:751,829:-128.636,-67.6974,-61.0747,-61.282,0,-54.0572 1/2:51:0,33,18:0:0:33,18:1139,640:-145.039,-52.5108,-42.5768,-92.8804,0,-87.4618 1/2:125:0,51,73:0:0:51,73:1733,2531:-346.258,-205.703,-190.351,-140.538,0,-118.562 1/1:116:0,114,1:0:0:114,1:3931,36:-353.651,-34.3174,0,-350.713,-31.3601,-350.412 1/1:41:0,41,0:0:0:41,0:1402,0:-126.472,-12.3422,0,-126.472,-12.3422,-126.472 chr12 24462498 . T C 8600 PASS AB=0.483721;ABP=5.48477;AC=12;AF=0.285714;AN=42;AO=523;CIGAR=1X;DP=2150;DPB=2150;DPRA=0.810976;EPP=1138.69;EPPR=3536;GTI=1;LEN=1;MEANALT=1;MQM=59.9656;MQMR=59.9527;NS=21;NUMALT=1;ODDS=3.09381;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=18694;QR=57688;RO=1627;RPL=523;RPP=1138.69;RPPR=3536;RPR=0;RUN=1;SAF=0;SAP=1138.69;SAR=523;SRF=0;SRP=3536;SRR=1627;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:141:139,2:139:4957:2:72:0,-35.6085,-439.441 0/0:53:53,0:53:1855:0:0:0,-15.9546,-167.224 0/1:76:43,33:43:1533:33:1184:-83.99,0,-115.383 0/1:109:45,64:45:1589:64:2277:-172.379,0,-110.486 0/1:203:111,92:111:3957:92:3288:-235.028,0,-295.212 0/1:54:28,26:28:989:26:916:-66.4989,0,-73.0664 0/1:146:81,65:81:2889:65:2324:-165.47,0,-216.295 0/1:95:41,54:41:1452:54:1921:-144.569,0,-102.373 0/0:309:309,0:309:10969:0:0:0,-93.0183,-987.051 0/0:23:23,0:23:816:0:0:0,-6.92369,-73.7617 0/1:6:4,2:4:129:2:72:-5.03054,0,-10.1215 0/1:28:15,13:15:540:13:468:-34.0308,0,-40.5077 0/0:107:107,0:107:3790:0:0:0,-32.2102,-341.298 0/1:140:84,56:84:2968:56:2004:-138.485,0,-224.941 0/0:248:248,0:248:8820:0:0:0,-74.6554,-793.787 0/0:36:36,0:36:1254:0:0:0,-10.8371,-113.158 0/1:45:22,23:22:758:23:824:-60.9346,0,-54.9878 0/1:50:32,18:32:1129:18:648:-43.6004,0,-86.8648 0/1:123:49,74:49:1745:74:2660:-202.61,0,-120.306 0/0:114:113,1:113:3988:1:36:0,-30.7191,-355.505 0/0:44:44,0:44:1561:0:0:0,-13.2453,-140.78 chr12 24509310 . GAATT AAATC,GAATC 16558.8 PASS AB=0.413361,0.582463;ABP=34.2405,31.3029;AC=30,12;AF=0.714286,0.285714;AN=42;AO=516,280;CIGAR=1X3M1X,4M1X;DP=799;DPB=799;DPRA=0,1.37527;EPP=1123.49,611.023;EPPR=0;GTI=0;LEN=5,1;MEANALT=1.7619,2.23077;MQM=59.8275,59.9786;MQMR=0;NS=21;NUMALT=2;ODDS=0.531062;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=18202,9993;QR=0;RO=0;RPL=516,280;RPP=1123.49,611.023;RPPR=0;RPR=0,0;RUN=1,1;SAF=516,280;SAP=1123.49,611.023;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:45:0,45,0:0:0:45,0:1598,0:-144.11,-13.5464,0,-144.11,-13.5464,-144.11 1/1:28:0,28,0:0:0:28,0:996,0:-89.955,-8.42884,0,-89.955,-8.42884,-89.955 1/2:38:0,16,21:0:0:16,21:551,739:-105.009,-60.2561,-55.4396,-44.8425,0,-38.5208 1/2:13:0,8,5:0:0:8,5:272,180:-37.0975,-15.0469,-12.6387,-22.4027,0,-20.8976 1/2:106:0,35,71:0:0:35,71:1230,2548:-308.309,-208.197,-197.661,-100.465,0,-79.092 1/2:37:0,17,20:0:0:17,20:607,707:-107.422,-57.9331,-52.8156,-49.8441,0,-43.8235 1/2:60:0,20,39:0:0:20,39:713,1404:-172.691,-114.608,-108.587,-58.1283,0,-46.3882 1/2:60:0,29,31:0:0:29,31:1008,1104:-172.287,-90.3387,-81.6088,-82.2994,0,-72.9674 1/1:69:0,69,0:0:0:69,0:2438,0:-219.677,-20.7711,0,-219.677,-20.7711,-219.677 1/1:4:0,4,0:0:0:4,0:138,0:-12.7598,-1.20412,0,-12.7598,-1.20412,-12.7598 1/2:4:0,3,1:0:0:3,1:108,36:-12.1095,-3.29724,-2.39415,-9.17208,0,-8.87105 1/2:13:0,3,10:0:0:3,10:102,360:-38.0028,-29.734,-28.8309,-8.61329,0,-5.60299 1/1:33:0,33,0:0:0:33,0:1164,0:-105.041,-9.93399,0,-105.041,-9.93399,-105.041 1/2:55:0,26,29:0:0:26,29:920,1036:-159.759,-84.824,-76.9973,-75.29,0,-66.5602 1/1:73:0,71,1:0:0:71,1:2504,27:-225.26,-21.3731,0,-223.133,-19.2597,-222.832 1/1:18:0,18,0:0:0:18,0:630,0:-57.0246,-5.41854,0,-57.0246,-5.41854,-57.0246 1/2:23:0,8,15:0:0:8,15:286,536:-67.3785,-44.0594,-41.6511,-23.6764,0,-19.1609 1/2:52:0,25,27:0:0:25,27:871,960:-149.416,-78.5885,-71.0627,-71.179,0,-63.0512 1/2:18:0,8,10:0:0:8,10:285,356:-52.601,-29.3709,-26.9627,-23.586,0,-20.5757 1/1:38:0,38,0:0:0:38,0:1365,0:-123.151,-11.4391,0,-123.151,-11.4391,-123.151 1/1:12:0,12,0:0:0:12,0:416,0:-37.7709,-3.61236,0,-37.7709,-3.61236,-37.7709 chr12 24526886 . A T 2362.88 PASS AB=0.515464;ABP=3.61473;AC=12;AF=0.285714;AN=42;AO=150;CIGAR=1X;DP=490;DPB=490;DPRA=1.09673;EPP=328.731;EPPR=741.311;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=0.484257;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5275;QR=12177;RO=340;RPL=150;RPP=328.731;RPPR=741.311;RPR=0;RUN=1;SAF=0;SAP=328.731;SAR=150;SRF=0;SRP=741.311;SRR=340;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:8:8,0:8:288:0:0:0,-2.40824,-26.2674 0/0:28:28,0:28:1008:0:0:0,-8.42884,-91.0364 0/1:27:15,12:15:536:12:432:-31.0934,0,-40.447 0/1:22:11,11:11:396:11:392:-28.9974,0,-29.3601 0/1:55:24,31:24:860:31:1089:-81.7607,0,-61.1652 0/1:9:5,4:5:180:4:136:-9.86627,0,-13.8428 0/1:39:19,20:19:684:20:708:-52.3054,0,-50.1502 0/1:9:5,4:5:176:4:144:-10.6043,0,-13.4757 0/0:58:58,0:58:2080:0:0:0,-17.4597,-187.47 0/0:5:5,0:5:180:0:0:0,-1.50515,-16.5521 0/1:10:5,5:5:180:5:168:-12.4406,0,-13.5418 0/1:16:14,2:14:500:2:72:-2.02024,0,-40.5197 0/0:16:16,0:16:557:0:0:0,-4.81648,-50.4556 0/1:25:10,15:10:356:15:521:-39.6906,0,-24.8555 0/0:18:18,0:18:648:0:0:0,-5.41854,-58.6519 0/0:34:34,0:34:1216:0:0:0,-10.235,-109.747 0/1:22:10,12:10:360:12:424:-31.8738,0,-26.1216 0/1:45:16,29:16:572:29:1009:-77.5726,0,-38.2671 0/1:12:7,5:7:252:5:180:-12.9397,0,-19.4166 0/0:15:15,0:15:536:0:0:0,-4.51545,-48.5748 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 chr12 24578198 . G T 63249.4 PASS AB=0.504976;ABP=3.42093;AC=30;AF=0.714286;AN=42;AO=2396;CIGAR=1X;DP=3344;DPB=3344;DPRA=0;EPP=5188.5;EPPR=2059.39;GTI=0;LEN=1;MEANALT=1.04762;MQM=57.0927;MQMR=59.9578;NS=21;NUMALT=1;ODDS=20.564;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85172;QR=33636;RO=947;RPL=1306;RPP=45.2942;RPPR=9.94663;RPR=1090;RUN=1;SAF=1308;SAP=46.8748;SAR=1088;SRF=501;SRP=9.94663;SRR=446;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:1,132:1:36:132:4709:-419.677,-36.4387,0 1/1:214:0,214:0:0:214:7590:-680.245,-64.4204,0 0/1:105:43,62:43:1530:62:2216:-167.86,0,-106.383 0/1:150:72,78:72:2554:78:2775:-204.219,0,-184.955 0/1:244:123,121:123:4403:121:4344:-317.542,0,-322.991 0/1:117:60,57:60:2143:57:2039:-148.406,0,-157.917 0/1:245:125,119:125:4430:119:4217:-304.546,0,-324.974 0/1:233:125,108:125:4464:108:3831:-274.394,0,-331.788 1/1:252:0,252:0:0:252:8859:-796.82,-75.8596,0 1/1:29:1,28:1:36:28:1000:-86.5618,-5.1316,0 0/1:17:12,5:12:432:5:180:-11.3929,0,-34.1037 0/1:81:38,43:38:1334:43:1540:-114.451,0,-95.9749 1/1:168:0,168:0:0:168:5936:-533.894,-50.573,0 0/1:147:88,59:88:3092:59:2096:-144.29,0,-234.253 1/1:227:0,227:0:0:227:8124:-730.84,-68.3338,0 1/1:104:0,104:0:0:104:3708:-333.614,-31.3071,0 0/1:124:61,63:61:2175:63:2227:-163.197,0,-158.688 0/1:297:153,144:153:5418:144:5135:-371.865,0,-398.347 0/1:149:44,105:44:1553:105:3752:-292.908,0,-95.2063 1/1:142:1,141:1:36:141:5012:-446.212,-39.148,0 1/1:166:0,166:0:0:166:5882:-528.226,-49.971,0 chr12 24578201 . CCC CCT,TCT 90076.2 PASS AB=0.496901,0.498967;ABP=3.17181,3.02825;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2377,970;CIGAR=2M1X,1X1M1X;DP=3366;DPB=3366;DPRA=0,0.791504;EPP=5164.6,2109.34;EPPR=7.35324;GTI=0;LEN=1,3;MEANALT=2.42857,2.6;MQM=57.1716,59.9381;MQMR=60;NS=21;NUMALT=2;ODDS=18.1883;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=84699,33762;QR=67;RO=2;RPL=1292,511;RPP=42.1544,9.06356;RPPR=7.35324;RPR=1085,459;RUN=1,1;SAF=1292,511;SAP=42.1544,9.06356;SAR=1085,459;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:0,129,2:0:0:129,2:4612,72:-414.464,-38.8329,0,-408.675,-33.0187,-408.073 1/1:215:0,214,0:0:0:214,0:7637,0:-684.696,-64.4204,0,-684.696,-64.4204,-684.696 1/2:107:0,62,45:0:0:62,45:2228,1566:-309.211,-127.682,-109.018,-181.882,0,-168.335 1/2:153:0,78,74:0:0:78,74:2800,2527:-432.739,-205.035,-181.555,-227.693,0,-205.417 1/2:246:0,120,126:0:0:120,126:4266,4404:-706.125,-358.608,-322.484,-347.87,0,-309.94 1/2:121:0,58,62:0:0:58,62:2076,2141:-343.066,-173.93,-156.471,-169.128,0,-150.464 1/2:247:0,115,129:0:0:115,129:4106,4489:-698.316,-364.982,-330.363,-333.34,0,-294.507 1/2:235:0,107,127:0:0:107,127:3811,4465:-673.726,-363.449,-331.239,-310.293,0,-272.062 1/1:252:1,249,0:1:36:249,0:8831,0:-791.073,-71.99,0,-791.374,-74.9565,-794.311 1/1:29:0,28,1:0:0:28,1:1004,36:-90.1608,-8.42884,0,-87.2234,-5.1316,-86.9223 1/2:17:0,5,12:0:0:5,12:176,427:-49.4469,-35.156,-33.6509,-14.6432,0,-11.0309 1/2:82:0,42,40:0:0:42,40:1489,1379:-233.617,-112.362,-99.7192,-121.603,0,-109.562 1/1:170:0,169,0:0:0:169,0:6011,0:-540.12,-50.8741,0,-540.12,-50.8741,-540.12 1/2:147:0,59,88:0:0:59,88:2108,3009:-416.134,-244.552,-226.791,-171.932,0,-145.441 1/1:224:1,223,0:1:31:223,0:7965,0:-713.452,-64.3313,0,-713.753,-67.1297,-716.241 1/1:104:0,102,0:0:0:102,0:3657,0:-328.795,-30.7051,0,-328.795,-30.7051,-328.795 1/2:128:0,63,64:0:0:63,64:2237,2242:-364.508,-182.455,-163.49,-182.085,0,-162.819 1/2:301:0,145,155:0:0:145,155:5143,5416:-857.905,-440.608,-396.959,-417.335,0,-370.675 1/2:152:0,108,44:0:0:108,44:3867,1553:-442.056,-126.816,-94.3047,-315.594,0,-302.348 1/1:138:0,136,1:0:0:136,1:4814,36:-432.191,-40.9401,0,-429.253,-37.9955,-428.952 1/1:165:0,165,0:0:0:165,0:5861,0:-526.328,-49.67,0,-526.328,-49.67,-526.328 chr12 24578233 . TACT CACA,TACA 32149.1 PASS AB=0.510823,0.485931;ABP=3.95033,4.59895;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1098,452;CIGAR=1X2M1X,3M1X;DP=1558;DPB=1558;DPRA=0,0.906499;EPP=2387.29,984.516;EPPR=0;GTI=0;LEN=4,1;MEANALT=2,2.26667;MQM=53.8115,59.9115;MQMR=0;NS=21;NUMALT=2;ODDS=9.39677;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38598,16157;QR=0;RO=0;RPL=1098,452;RPP=2387.29,984.516;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2387.29,984.516;SAR=1098,452;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,65,0:0:0:65,0:2297,0:-206.135,-19.567,0,-206.135,-19.567,-206.135 1/1:103:0,103,0:0:0:103,0:3677,0:-328.849,-31.0061,0,-328.849,-31.0061,-328.849 1/2:58:0,36,22:0:0:36,22:1274,788:-168.16,-64.6221,-53.7851,-103.894,0,-97.2714 1/2:65:0,41,22:0:0:41,22:1446,773:-180.408,-63.0052,-50.663,-117.499,0,-110.876 1/2:89:0,41,47:0:0:41,47:1443,1680:-254.348,-136.982,-124.64,-117.364,0,-103.216 1/2:42:0,18,24:0:0:18,24:640,860:-122.492,-70.4971,-65.0786,-52.3509,0,-45.1262 1/2:123:0,59,64:0:0:59,64:2066,2296:-354.628,-187.445,-169.684,-167.536,0,-148.27 1/2:126:0,54,72:0:0:54,72:1876,2573:-362.261,-210.139,-193.883,-152.473,0,-130.799 1/1:98:0,98,0:0:0:98,0:3456,0:-310.661,-29.5009,0,-310.661,-29.5009,-310.661 1/1:17:0,16,1:0:0:16,1:561,36:-50.3117,-4.81648,0,-47.3736,-1.51924,-47.0726 1/2:11:0,5,6:0:0:5,6:180,216:-32.6303,-17.9843,-16.4792,-15.0053,0,-13.1991 1/2:31:0,12,19:0:0:12,19:396,684:-88.1301,-56.1708,-52.5584,-32.3006,0,-26.581 1/1:61:0,61,0:0:0:61,0:2146,0:-192.692,-18.3628,0,-192.692,-18.3628,-192.692 1/2:68:0,35,33:0:0:35,33:1216,1160:-193.393,-94.7682,-84.2322,-98.9742,0,-89.0402 1/1:105:0,105,0:0:0:105,0:3683,0:-331.338,-31.6082,0,-331.338,-31.6082,-331.338 1/1:44:0,41,0:0:0:41,0:1417,0:-127.346,-12.3422,0,-127.346,-12.3422,-127.346 1/2:49:0,26,23:0:0:26,23:900,820:-140.171,-67.1988,-59.372,-73.3233,0,-66.3996 1/2:195:0,102,93:0:0:102,93:3597,3343:-565.001,-273.09,-242.385,-292.266,0,-264.27 1/2:67:0,43,24:0:0:43,24:1498,856:-191.834,-70.1364,-57.1921,-122.051,0,-114.826 1/1:68:0,67,1:0:0:67,1:2355,36:-209.646,-20.169,0,-206.708,-16.8718,-206.407 1/1:72:0,70,1:0:0:70,1:2474,36:-221.454,-21.0721,0,-218.517,-18.1342,-218.216 chr12 24578242 . G A 22311.1 PASS AB=0.516376;ABP=5.14384;AC=30;AF=0.714286;AN=42;AO=1096;CIGAR=1X;DP=1542;DPB=1542;DPRA=0;EPP=2382.94;EPPR=971.487;GTI=0;LEN=1;MEANALT=1;MQM=53.7719;MQMR=59.9327;NS=21;NUMALT=1;ODDS=9.80099;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39252;QR=15943;RO=446;RPL=1096;RPP=2382.94;RPPR=971.487;RPR=0;RUN=1;SAF=0;SAP=2382.94;SAR=1096;SRF=0;SRP=971.487;SRR=446;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66:0:0:66:2360:-211.966,-19.868,0 1/1:101:0,101:0:0:101:3632:-324.659,-30.404,0 0/1:56:20,36:20:720:36:1296:-99.8438,0,-48.2711 0/1:64:22,42:22:788:42:1502:-115.691,0,-51.9707 0/1:88:47,41:47:1688:41:1468:-105.733,0,-125.716 0/1:43:25,18:25:881:18:648:-45.5398,0,-66.6616 0/1:123:64,59:64:2288:59:2120:-152.614,0,-168.965 0/1:123:69,54:69:2480:54:1921:-135.568,0,-186.426 1/1:98:0,98:0:0:98:3516:-315.903,-29.5009,0 1/1:17:1,16:1:36:16:568:-47.7028,-1.51924,0 0/1:11:6,5:6:216:5:180:-13.1991,0,-16.4792 0/1:29:19,10:19:676:10:360:-23.968,0,-52.4381 1/1:60:0,60:0:0:60:2144:-192.289,-18.0618,0 0/1:64:31,33:31:1100:33:1169:-85.889,0,-80.0444 1/1:103:0,103:0:0:103:3678:-330.894,-31.0061,0 1/1:42:0,42:0:0:42:1512:-136.158,-12.6433,0 0/1:50:23,27:23:820:27:968:-72.1942,0,-59.071 0/1:198:93,105:93:3323:105:3764:-278.25,0,-239.684 0/1:67:24,43:24:855:43:1544:-118.959,0,-57.1012 1/1:68:1,67:1:36:67:2395:-209.982,-16.8718,0 1/1:71:1,70:1:36:70:2507:-221.058,-17.7749,0 chr12 24606511 . T C 588.643 PASS AB=0.447368;ABP=15.8106;AC=12;AF=0.285714;AN=42;AO=239;CIGAR=1X;DP=974;DPB=974;DPRA=0.970289;EPP=521.992;EPPR=1599.04;GTI=2;LEN=1;MEANALT=1;MQM=20.9456;MQMR=22.3796;NS=21;NUMALT=1;ODDS=1.54015;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8584;QR=26317;RO=735;RPL=0;RPP=521.992;RPPR=1599.04;RPR=239;RUN=1;SAF=239;SAP=521.992;SAR=0;SRF=735;SRP=1599.04;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:34:34,0:34:1224:0:0:0,-10.235,-66.6733 0/0:54:54,0:54:1906:0:0:0,-16.2556,-111.588 0/1:47:28,19:28:1008:19:684:-21.5643,0,-40.7349 0/1:41:20,21:20:716:21:752:-27.2852,0,-28.0599 0/1:123:66,57:66:2376:57:2040:-69.7315,0,-91.268 0/1:39:14,25:14:504:25:900:-35.4166,0,-17.027 0/1:31:20,11:20:720:11:392:-11.5162,0,-32.0857 0/1:34:21,13:21:756:13:468:-14.2101,0,-31.2441 0/0:81:81,0:81:2896:0:0:0,-24.3834,-157.942 0/0:4:4,0:4:140:0:0:0,-1.20412,-7.97027 0/1:5:1,4:1:36:4:144:-6.21521,0,-0.581435 0/1:19:15,4:15:540:4:144:-2.00079,0,-25.3359 0/0:40:40,0:40:1440:0:0:0,-12.0412,-78.6374 0/1:51:31,20:31:1104:20:720:-22.4147,0,-45.4465 0/0:104:104,0:104:3718:0:0:0,-31.3071,-206.681 0/0:64:63,1:63:2264:1:36:0,-17.1793,-123.164 0/1:84:48,36:48:1724:36:1296:-42.6147,0,-68.6347 0/1:34:12,22:12:413:22:792:-31.2,0,-12.3364 0/1:24:18,6:18:648:6:216:-3.89225,0,-28.3606 0/0:46:46,0:46:1644:0:0:0,-13.8474,-91.6314 0/0:15:15,0:15:540:0:0:0,-4.51545,-30.7301 chr12 24606934 . C T 6042.82 PASS AB=0.534454;ABP=9.14517;AC=30;AF=0.714286;AN=42;AO=802;CIGAR=1X;DP=1081;DPB=1081;DPRA=0;EPP=1744.53;EPPR=608.851;GTI=1;LEN=1;MEANALT=1;MQM=21.3566;MQMR=22.8961;NS=21;NUMALT=1;ODDS=2.58094;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=28566;QR=9960;RO=279;RPL=802;RPP=1744.53;RPPR=608.851;RPR=0;RUN=1;SAF=0;SAP=1744.53;SAR=802;SRF=0;SRP=608.851;SRR=279;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:57:0,57:0:0:57:2029:-106.955,-17.1587,0 1/1:59:0,59:0:0:59:2116:-115.312,-17.7608,0 0/1:54:23,31:23:824:31:1101:-42.1274,0,-31.1175 0/1:45:21,24:21:741:24:849:-31.4734,0,-29.1373 0/1:87:46,41:46:1641:41:1472:-50.0187,0,-67.5957 0/1:42:19,23:19:654:23:813:-31.8497,0,-25.9765 0/1:81:40,41:40:1432:41:1457:-55.6358,0,-58.0001 0/1:82:48,34:48:1724:34:1194:-41.6452,0,-73.7906 1/1:68:0,68:0:0:68:2418:-126.336,-20.47,0 1/1:15:0,15:0:0:15:540:-29.6908,-4.51545,0 0/1:7:2,5:2:72:5:180:-7.84644,0,-2.22263 0/1:13:5,8:5:180:8:273:-11.7174,0,-6.56939 1/1:59:0,59:0:0:59:2116:-112.589,-17.7608,0 0/1:28:13,15:13:464:15:514:-19.5913,0,-18.2599 1/1:85:1,84:1:36:84:3024:-156.294,-24.1902,0 1/1:51:0,51:0:0:51:1831:-95.8745,-15.3525,0 0/1:36:13,23:13:468:23:809:-32.2877,0,-15.879 0/1:74:30,44:30:1080:44:1572:-63.9793,0,-39.0487 0/1:46:17,29:17:608:29:1025:-39.7425,0,-20.8536 1/1:58:0,58:0:0:58:2045:-112.438,-17.4597,0 1/1:34:1,33:1:36:33:1188:-62.4296,-7.95615,0 chr12 24623533 . G A 34033.6 PASS AB=0.537566;ABP=14.5938;AC=30;AF=0.714286;AN=42;AO=1272;CIGAR=1X;DP=1713;DPB=1713;DPRA=0;EPP=42.4519;EPPR=7.74224;GTI=1;LEN=1;MEANALT=1;MQM=59.8664;MQMR=60;NS=21;NUMALT=1;ODDS=1.8264;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=45429;QR=15636;RO=441;RPL=1264;RPP=2696.07;RPPR=960.63;RPR=8;RUN=1;SAF=704;SAP=34.5854;SAR=568;SRF=236;SRP=7.74224;SRR=205;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:1,65:1:32:65:2321:-205.942,-16.6687,0 1/1:127:1,126:1:36:126:4516:-402.999,-34.6325,0 0/1:59:26,33:26:924:33:1180:-88.6902,0,-65.7169 0/1:87:47,40:47:1659:40:1436:-103.348,0,-123.407 0/1:101:47,54:47:1669:54:1925:-143.123,0,-120.091 0/1:83:33,50:33:1165:50:1773:-134.864,0,-80.1695 0/1:120:51,69:51:1812:69:2435:-183.271,0,-127.235 0/1:89:56,33:56:1983:33:1188:-80.4369,0,-151.952 1/1:109:0,109:0:0:109:3873:-348.763,-32.8123,0 1/1:12:0,12:0:0:12:432:-39.2212,-3.61236,0 0/1:14:2,12:2:72:12:428:-34.6444,0,-2.6223 0/1:30:17,13:17:612:13:468:-33.4287,0,-46.3825 1/1:97:0,97:0:0:97:3434:-309.265,-29.1999,0 0/1:66:39,27:39:1388:27:972:-67.9299,0,-105.351 1/1:117:0,117:0:0:117:4198:-378,-35.2205,0 1/1:46:0,46:0:0:46:1639:-147.767,-13.8474,0 0/1:39:14,25:14:492:25:896:-69.212,0,-32.8722 0/1:136:64,72:64:2283:72:2579:-191.419,0,-164.791 0/1:121:41,80:41:1437:80:2861:-221.301,0,-93.1989 1/1:78:2,76:2:72:76:2711:-237.397,-16.6436,0 1/1:116:0,116:0:0:116:4164:-374.927,-34.9195,0 chr12 24666510 . C T 28173.4 PASS AB=0.506796;ABP=3.42351;AC=30;AF=0.714286;AN=42;AO=1358;CIGAR=1X;DP=1867;DPB=1867;DPRA=0;EPP=2951.87;EPPR=1106.12;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9971;MQMR=60;NS=21;NUMALT=1;ODDS=9.70747;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48571;QR=18225;RO=508;RPL=0;RPP=2951.87;RPPR=1106.12;RPR=1358;RUN=1;SAF=1358;SAP=2951.87;SAR=0;SRF=508;SRP=1106.12;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:149:0,149:0:0:149:5313:-478.302,-44.8535,0 1/1:112:0,112:0:0:112:4019:-361.898,-33.7154,0 0/1:71:36,35:36:1296:35:1260:-92.3324,0,-95.5708 0/1:135:58,77:58:2084:77:2772:-209.081,0,-147.191 0/1:151:95,56:95:3412:56:2016:-136.257,0,-261.838 0/1:61:28,33:28:1008:33:1146:-85.0789,0,-72.6735 0/1:102:45,57:45:1620:57:2037:-152.895,0,-115.385 0/1:126:66,60:66:2364:60:2160:-156.737,0,-175.089 1/1:113:0,113:0:0:113:4056:-365.226,-34.0164,0 1/1:18:0,18:0:0:18:648:-58.6519,-5.41854,0 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:30:13,17:13:468:17:612:-46.3825,0,-33.4287 1/1:68:0,68:0:0:68:2416:-217.696,-20.47,0 0/1:92:37,55:37:1320:55:1942:-147.36,0,-91.4072 1/1:148:1,147:1:36:147:5262:-470.114,-40.9542,0 1/1:73:0,73:0:0:73:2628:-236.766,-21.9752,0 0/1:115:57,57:57:2029:57:2035:-148.743,0,-148.203 0/1:64:35,29:35:1260:29:1029:-73.6552,0,-94.4396 0/1:77:34,43:34:1220:43:1540:-115.714,0,-86.9275 1/1:91:0,91:0:0:91:3253:-292.989,-27.3937,0 1/1:65:0,65:0:0:65:2319:-208.969,-19.567,0 chr12 24666522 . T C 8360.32 PASS AB=0.492188;ABP=3.55317;AC=12;AF=0.285714;AN=42;AO=505;CIGAR=1X;DP=1848;DPB=1848;DPRA=1.06442;EPP=1099.6;EPPR=2919.3;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=21;NUMALT=1;ODDS=9.92701;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17993;QR=48106;RO=1343;RPL=0;RPP=1099.6;RPPR=2919.3;RPR=505;RUN=1;SAF=505;SAP=1099.6;SAR=0;SRF=1343;SRP=2919.3;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:146:146,0:146:5232:0:0:0,-43.9504,-471.017 0/0:110:110,0:110:3936:0:0:0,-33.1133,-354.432 0/1:71:35,36:35:1256:36:1288:-94.8505,0,-91.9722 0/1:134:77,57:77:2760:57:2039:-143.443,0,-208.304 0/1:149:55,94:55:1968:94:3348:-256.683,0,-132.542 0/1:59:31,28:31:1107:28:1004:-72.9151,0,-82.1794 0/1:101:56,45:56:2016:45:1612:-114.966,0,-151.309 0/1:123:59,64:59:2108:64:2273:-167.805,0,-152.963 0/0:112:112,0:112:4024:0:0:0,-33.7154,-362.347 0/0:18:18,0:18:639:0:0:0,-5.41854,-57.8382 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:29:16,13:16:572:13:468:-33.7298,0,-43.0836 0/0:67:67,0:67:2412:0:0:0,-20.169,-217.336 0/1:94:57,37:57:2031:37:1302:-89.183,0,-154.765 0/0:147:146,1:146:5231:1:36:0,-40.6531,-467.328 0/0:73:73,0:73:2616:0:0:0,-21.9752,-235.688 0/1:116:57,59:57:2031:59:2075:-152.1,0,-148.142 0/1:64:29,35:29:1040:35:1256:-94.0794,0,-74.6484 0/1:78:45,33:45:1603:33:1184:-83.388,0,-121.079 0/0:88:88,0:88:3160:0:0:0,-26.4906,-284.624 0/0:63:63,0:63:2256:0:0:0,-18.9649,-203.303 chr12 24666525 . T C 27525.5 PASS AB=0.512315;ABP=4.34741;AC=30;AF=0.714286;AN=42;AO=1337;CIGAR=1X;DP=1836;DPB=1836;DPRA=0;EPP=2897.59;EPPR=1067.1;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.997;MQMR=60;NS=21;NUMALT=1;ODDS=9.39468;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=47576;QR=17853;RO=498;RPL=1;RPP=2897.59;RPPR=1067.1;RPR=1336;RUN=1;SAF=1337;SAP=2906.27;SAR=0;SRF=498;SRP=1084.4;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:147:2,145:2:72:145:5163:-457.974,-37.4147,0 1/1:104:0,104:0:0:104:3707:-333.833,-31.3071,0 0/1:69:34,35:34:1220:35:1235:-90.6824,0,-89.3357 0/1:131:56,75:56:2004:75:2670:-201.109,0,-141.199 0/1:151:94,57:94:3376:57:2036:-138.056,0,-258.599 0/1:60:28,32:28:1004:32:1125:-83.4942,0,-72.6141 0/1:99:44,55:44:1565:55:1948:-145.792,0,-111.338 0/1:123:64,59:64:2284:59:2124:-154.402,0,-168.795 1/1:110:0,110:0:0:110:3913:-352.364,-33.1133,0 1/1:17:0,17:0:0:17:603:-54.5995,-5.11751,0 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:30:13,17:13:468:17:599:-45.2072,0,-33.4287 1/1:68:0,68:0:0:68:2420:-218.054,-20.47,0 0/1:94:37,57:37:1328:57:2023:-154.045,0,-91.5254 1/1:147:1,146:1:32:146:5181:-463.234,-41.0521,0 1/1:72:0,72:0:0:72:2559:-230.56,-21.6742,0 0/1:114:56,58:56:2016:58:2049:-150.364,0,-147.395 0/1:63:35,28:35:1260:28:1000:-71.3505,0,-94.7406 0/1:75:31,44:31:1116:44:1571:-119.104,0,-78.1744 1/1:91:0,91:0:0:91:3242:-292,-27.3937,0 1/1:65:0,64:0:0:64:2300:-206.901,-19.2659,0 chr12 24666543 . T A 16371.2 PASS AB=0.487869;ABP=4.95964;AC=12;AF=0.285714;AN=42;AO=749;CIGAR=1X;DP=2813;DPB=2813;DPRA=1.28717;EPP=1629.44;EPPR=4482.76;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.9864;NS=21;NUMALT=1;ODDS=9.67551;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26620;QR=73743;RO=2063;RPL=501;RPP=188.583;RPPR=395.96;RPR=248;RUN=1;SAF=501;SAP=188.583;SAR=248;SRF=1337;SRP=395.96;SRR=726;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:240:236,4:236:8413:4:140:0,-59.3026,-744.23 0/0:105:105,0:105:3742:0:0:0,-31.6081,-336.978 0/1:126:53,73:53:1888:73:2585:-194.969,0,-132.269 0/1:182:102,80:102:3659:80:2847:-201.681,0,-274.725 0/1:247:103,144:103:3687:144:5144:-388.748,0,-257.677 0/1:60:32,28:32:1152:28:992:-71.5326,0,-85.9283 0/1:99:56,43:56:2007:43:1491:-104.675,0,-151.101 0/1:199:90,109:90:3209:109:3883:-289.76,0,-229.127 0/0:194:194,0:194:6926:0:0:0,-58.3998,-623.405 0/0:29:29,0:29:1032:0:0:0,-8.72987,-93.1935 0/1:6:3,3:3:108:3:108:-8.26899,0,-8.26899 0/1:45:29,16:29:1036:16:572:-38.2671,0,-80.0076 0/0:123:123,0:123:4400:0:0:0,-37.0267,-396.087 0/1:129:75,54:75:2692:54:1923:-134.513,0,-203.691 0/0:261:260,1:260:9303:1:32:0,-75.3695,-834.034 0/0:105:105,0:105:3756:0:0:0,-31.6081,-338.24 0/1:166:92,74:92:3292:74:2641:-187.964,0,-246.529 0/1:141:69,72:69:2472:72:2551:-187.396,0,-180.287 0/1:125:77,48:77:2735:48:1711:-116.646,0,-208.765 0/0:166:166,0:166:5955:0:0:0,-49.971,-536.055 0/0:65:64,0:64:2279:0:0:0,-19.2659,-205.012 chr12 24667186 . CGGG CGGT,TGGT 43750 PASS AB=0.529874,0.466195;ABP=12.8707,15.6363;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1607,600;CIGAR=3M1X,1X2M1X;DP=2216;DPB=2215.75;DPRA=0,1.15509;EPP=3423.43,1288.58;EPPR=0;GTI=0;LEN=1,4;MEANALT=2.14286,2.46667;MQM=59.257,30.15;MQMR=0;NS=21;NUMALT=2;ODDS=6.37838;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57538,21163;QR=0;RO=0;RPL=1599,598;RPP=3423.43,1288.58;RPPR=0;RPR=8,2;RUN=1,1;SAF=1607,600;SAP=3492.57,1305.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:0,135,0:0:0:135,0:4827,0:-433.777,-40.6391,0,-433.777,-40.6391,-433.777 1/1:88:0,88,0:0:0:88,0:3140,0:-282.647,-26.4906,0,-282.647,-26.4906,-282.647 1/2:87:0,43,44:0:0:43,44:1525,1534:-224.487,-100.234,-87.2897,-124.574,0,-111.328 1/2:183:0,71,111:0:0:71,111:2552,3914:-461.771,-253.878,-232.505,-207.887,0,-174.473 1/2:207:0,103,103:0:0:103,103:3704,3641:-538.129,-236.143,-205.137,-302.071,0,-271.065 1/2:127:0,72,55:0:0:72,55:2560,1943:-334.787,-126.265,-104.591,-208.839,0,-192.282 1/2:129:0,68,58:0:0:68,58:2431,2048:-330.386,-132.915,-112.445,-197.484,0,-180.024 1/2:108:0,55,53:0:0:55,53:1966,1850:-280.827,-120.54,-103.983,-160.608,0,-144.653 1/1:149:0,146,1:0:0:146,1:5246,36:-471.599,-43.9504,0,-468.707,-41.0451,-468.406 1/1:4:0,4,0:0:0:4,0:144,0:-13.3136,-1.20412,0,-13.3136,-1.20412,-13.3136 1/2:9:0,5,4:0:0:5,4:180,143:-24.2418,-9.51577,-8.01062,-15.0469,0,-13.8428 1/2:22:0,14,8:0:0:14,8:500,288:-59.5892,-18.7819,-14.5675,-41.1218,0,-38.7135 1/1:154:0,153,0:0:0:153,0:5475,0:-492.291,-46.0576,0,-492.291,-46.0576,-492.291 1/2:135:0,88,47:0:0:88,47:3147,1649:-363.518,-107.066,-80.5756,-256.763,0,-242.614 1/1:129:0,125,4:0:0:125,4:4492,144:-403.98,-37.6288,0,-392.41,-25.7034,-391.205 1/1:137:0,137,0:0:0:137,0:4915,0:-442.233,-41.2411,0,-442.233,-41.2411,-442.233 1/2:127:0,68,59:0:0:68,59:2422,2074:-332.155,-134.885,-114.415,-197.589,0,-179.828 1/2:53:0,25,28:0:0:25,28:896,1001:-138.07,-65.0069,-57.4811,-73.3896,0,-64.9608 1/2:85:0,62,23:0:0:62,23:2219,826:-234.308,-53.414,-34.7502,-181.202,0,-174.278 1/1:96:0,94,2:0:0:94,2:3365,72:-302.648,-28.2968,0,-297.445,-22.7702,-296.843 1/1:51:0,51,0:0:0:51,0:1832,0:-165.032,-15.3525,0,-165.032,-15.3525,-165.032 chr12 24667199 . G C 5980.49 PASS AB=0.470257;ABP=12.569;AC=12;AF=0.285714;AN=42;AO=586;CIGAR=1X;DP=2189;DPB=2189;DPRA=0.971278;EPP=1275.49;EPPR=3481.71;GTI=0;LEN=1;MEANALT=1.07692;MQM=30;MQMR=59.1617;NS=21;NUMALT=1;ODDS=4.84467;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20808;QR=57204;RO=1602;RPL=586;RPP=1275.49;RPPR=3473.03;RPR=0;RUN=1;SAF=586;SAP=1275.49;SAR=0;SRF=1601;SRP=3473.03;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:135:135,0:135:4835:0:0:0,-40.639,-434.759 0/0:88:88,0:88:3135:0:0:0,-26.4906,-282.223 0/1:83:39,43:39:1396:43:1531:-87.0399,0,-100.895 0/1:180:71,109:71:2527:109:3895:-230.115,0,-173.173 0/1:204:100,104:100:3588:104:3710:-209.681,0,-261.498 0/1:126:71,55:71:2525:55:1976:-105.944,0,-189.391 0/1:126:67,59:67:2389:59:2076:-114.763,0,-177.183 0/1:105:55,50:55:1955:50:1743:-97.2863,0,-144.566 0/0:151:151,0:151:5405:0:0:0,-45.4555,-485.743 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:9:5,4:5:176:4:131:-7.57406,0,-13.4757 0/1:22:14,8:14:504:8:284:-14.4625,0,-39.0754 0/0:153:153,0:153:5475:0:0:0,-46.0576,-491.878 0/1:128:85,43:85:3010:43:1506:-72.131,0,-232.36 0/0:130:130,0:130:4645:0:0:0,-39.1339,-417.92 0/0:137:137,0:137:4912:0:0:0,-41.2411,-441.854 0/1:124:65,59:65:2316:59:2097:-115.74,0,-171.175 0/1:54:26,28:26:924:28:995:-56.9376,0,-67.1771 0/1:83:60,23:60:2134:23:828:-35.392,0,-167.164 0/0:96:95,1:95:3389:1:36:0,-25.9961,-302.142 0/0:51:51,0:51:1820:0:0:0,-15.3525,-164.013 chr12 24667325 . A G 52457.6 PASS AB=0.626808;ABP=254.138;AC=32;AF=0.761905;AN=42;AO=2511;CIGAR=1X;DP=3200;DPB=3200;DPRA=0;EPP=5455.58;EPPR=1492.64;GTI=1;LEN=1;MEANALT=1.14286;MQM=59.9992;MQMR=60;NS=21;NUMALT=1;ODDS=43.3327;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=89854;QR=24576;RO=686;RPL=0;RPP=5455.58;RPPR=1492.64;RPR=2511;RUN=1;SAF=2511;SAP=5455.58;SAR=0;SRF=686;SRP=1492.64;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:69:0,69:0:0:69:2471:-222.644,-20.7711,0 1/1:90:0,89:0:0:89:3173:-285.434,-26.7917,0 0/1:67:42,25:42:1504:25:896:-60.7913,0,-115.486 0/1:122:87,35:87:3090:35:1256:-76.6196,0,-241.6 0/1:250:145,105:145:5186:105:3772:-264.42,0,-391.619 0/1:97:61,36:61:2188:36:1296:-87.744,0,-167.986 0/1:92:57,35:57:2052:35:1248:-84.9301,0,-157.257 0/1:118:53,65:53:1904:65:2306:-172.276,0,-136.116 1/1:131:2,129:2:72:129:4620:-409.126,-32.5982,0 1/1:255:1,254:1:36:254:9097:-815.104,-73.1644,0 1/1:298:4,293:4:144:293:10451:-927.195,-76.4521,0 1/1:170:5,165:5:180:165:5913:-515.724,-34.623,0 1/1:120:1,119:1:36:119:4237:-377.912,-32.5253,0 0/1:63:47,16:47:1692:16:576:-33.2101,0,-133.602 1/1:135:1,134:1:36:134:4782:-426.936,-37.0408,0 1/1:39:0,39:0:0:39:1381:-124.587,-11.7402,0 0/1:70:45,25:45:1612:25:900:-60.2489,0,-124.298 0/1:816:95,720:95:3408:720:25808:-2076.29,0,-61.2346 0/1:103:38,65:38:1364:65:2340:-179.853,0,-92.0546 1/1:44:1,43:1:36:43:1535:-134.844,-9.64705,0 1/1:51:1,50:1:36:50:1796:-158.324,-11.7543,0 chr12 24667361 . C G 10189.7 PASS AB=0.375208;ABP=246.352;AC=10;AF=0.238095;AN=42;AO=690;CIGAR=1X;DP=3191;DPB=3191;DPRA=2.53299;EPP=1501.33;EPPR=5425.18;GTI=1;LEN=1;MEANALT=1.05556;MQM=60;MQMR=59.9992;NS=21;NUMALT=1;ODDS=41.2083;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24568;QR=88497;RO=2497;RPL=690;RPP=1501.33;RPPR=5425.18;RPR=0;RUN=1;SAF=690;SAP=1501.33;SAR=0;SRF=2497;SRP=5425.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:67,0:67:2387:0:0:0,-20.169,-215.087 0/0:91:91,0:91:3235:0:0:0,-27.3937,-291.373 0/1:66:24,42:24:856:42:1500:-115.427,0,-57.4931 0/1:122:34,88:34:1216:88:3106:-243.04,0,-73.0209 0/1:249:104,145:104:3633:145:5183:-391.654,0,-252.219 0/1:97:35,62:35:1251:62:2224:-171.224,0,-83.6944 0/1:91:33,58:33:1151:58:2060:-158.275,0,-76.4988 0/1:120:67,53:67:2399:53:1892:-134.435,0,-180.043 0/0:127:125,2:125:4451:2:72:0,-31.3941,-393.925 0/0:253:252,1:252:8893:1:36:0,-72.5623,-796.764 0/0:299:291,4:291:10302:4:144:0,-75.8313,-913.815 0/0:168:165,3:165:5879:3:108:0,-40.4979,-519.146 0/0:121:120,1:120:4269:1:36:0,-32.8264,-380.791 0/1:62:15,47:15:540:47:1660:-131.021,0,-30.2727 0/0:135:133,2:133:4730:2:72:0,-33.8023,-419.024 0/0:39:39,0:39:1377:0:0:0,-11.7402,-124.227 0/1:69:25,44:25:877:44:1584:-122.08,0,-58.4741 0/1:820:723,97:723:25621:97:3442:-63.1497,0,-2058.35 0/1:103:64,39:64:2272:39:1377:-93.2206,0,-173.734 0/0:42:41,1:41:1455:1:36:0,-9.04498,-127.647 0/0:50:49,1:49:1703:1:36:0,-11.4532,-149.954 chr12 24744010 . T C 9446.81 PASS AB=0.462374;ABP=18.8609;AC=12;AF=0.285714;AN=42;AO=601;CIGAR=1X;DP=2505;DPB=2505;DPRA=0.918485;EPP=1308.07;EPPR=4137.49;GTI=0;LEN=1;MEANALT=1;MQM=59.9384;MQMR=60;NS=21;NUMALT=1;ODDS=1.25801;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21225;QR=67538;RO=1904;RPL=0;RPP=1308.07;RPPR=4137.49;RPR=601;RUN=1;SAF=0;SAP=1308.07;SAR=601;SRF=0;SRP=4137.49;SRR=1904;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:175:175,0:175:6190:0:0:0,-52.6802,-557.201 0/0:43:43,0:43:1532:0:0:0,-12.9443,-138.173 0/1:144:82,62:82:2891:62:2196:-154.555,0,-217.08 0/1:201:106,95:106:3757:95:3306:-236.396,0,-277.824 0/1:243:116,127:116:4102:127:4509:-332.83,0,-296.219 0/1:144:73,71:73:2608:71:2508:-182.626,0,-191.62 0/1:114:58,56:58:2048:56:1988:-144.877,0,-150.275 0/1:138:73,65:73:2596:65:2289:-164.729,0,-192.347 0/0:231:231,0:231:8172:0:0:0,-69.5379,-735.506 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:12:8,4:8:284:4:144:-9.70126,0,-22.291 0/1:30:21,9:21:731:9:324:-20.475,0,-57.0795 0/0:247:247,0:247:8767:0:0:0,-74.3544,-789.027 0/1:115:73,42:73:2608:42:1487:-99.5053,0,-200.35 0/0:200:200,0:200:7078:0:0:0,-60.206,-637.088 0/0:48:48,0:48:1683:0:0:0,-14.4494,-151.756 0/1:47:21,26:21:748:26:910:-68.0657,0,-53.4969 0/1:40:21,19:21:743:19:676:-49.1268,0,-55.1521 0/1:61:41,20:41:1452:20:712:-46.0438,0,-112.613 0/0:211:206,5:206:7360:5:176:0,-47.3323,-646.263 0/0:51:51,0:51:1828:0:0:0,-15.3525,-164.801 chr12 24763745 . C T 31076.7 PASS AB=0.55026;ABP=28.3303;AC=30;AF=0.714286;AN=42;AO=1510;CIGAR=1X;DP=2036;DPB=2036;DPRA=0;EPP=3281.93;EPPR=1143.03;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9192;MQMR=59.9524;NS=21;NUMALT=1;ODDS=1.15537;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=53920;QR=18609;RO=525;RPL=1510;RPP=3281.93;RPPR=1143.03;RPR=0;RUN=1;SAF=1510;SAP=3281.93;SAR=0;SRF=525;SRP=1143.03;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:136:3,133:3:108:133:4763:-418.73,-30.8649,0 1/1:107:0,107:0:0:107:3815:-343.544,-32.2102,0 0/1:95:41,53:41:1445:53:1908:-143.488,0,-101.833 0/1:117:54,63:54:1927:63:2252:-167.723,0,-138.486 0/1:188:97,91:97:3463:91:3252:-236.308,0,-255.26 0/1:121:40,81:40:1427:81:2900:-224.811,0,-92.3021 0/1:111:57,54:57:2012:54:1918:-139.475,0,-147.937 0/1:150:65,85:65:2315:85:3022:-227.056,0,-163.456 1/1:147:1,146:1:32:146:5219:-466.641,-41.0521,0 1/1:7:0,7:0:0:7:252:-23.029,-2.10721,0 0/1:5:2,3:2:72:3:108:-8.57002,0,-5.33157 0/1:41:17,24:17:608:24:852:-64.6582,0,-42.7098 1/1:125:0,125:0:0:125:4472:-402.542,-37.6288,0 0/1:93:55,38:55:1933:38:1346:-93.4429,0,-146.249 1/1:127:1,126:1:36:126:4524:-403.72,-34.6325,0 1/1:85:2,83:2:72:83:2945:-258.419,-18.7508,0 0/1:75:33,42:33:1148:42:1485:-111.362,0,-81.0451 0/1:93:36,57:36:1272:57:2023:-154.334,0,-86.7871 0/1:65:21,44:21:739:44:1576:-122.565,0,-47.2654 1/1:94:0,94:0:0:94:3360:-302.611,-28.2968,0 1/1:54:0,54:0:0:54:1928:-173.797,-16.2556,0 chr12 24769550 . CAAAAGAGAAT CAAAACAGAAT,CAGAAT 37315.5 PASS AB=0.54375,0.448958;ABP=18.9706,24.7341;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1339,434;CIGAR=5M1X5M,1M5D5M;DP=1787;DPB=1589.27;DPRA=0,0.922771;EPP=2901.93,945.429;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.33333,2.57143;MQM=59.9358,57.477;MQMR=0;NS=21;NUMALT=2;ODDS=8.92518;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=47660,15009;QR=0;RO=0;RPL=0,0;RPP=2910.61,945.429;RPPR=0;RPR=1339,434;RUN=1,1;SAF=1,0;SAP=2901.93,945.429;SAR=1338,434;SRF=0;SRP=0;SRR=0;TYPE=snp,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:122:0,120,1:0:0:120,1:4246,36:-381.961,-36.1236,0,-379.024,-33.1856,-378.723 1/1:88:0,86,0:0:0:86,0:3088,0:-277.787,-25.8886,0,-277.787,-25.8886,-277.787 1/2:81:0,42,37:0:0:42,37:1504,1304:-228.711,-106.054,-93.4109,-122.696,0,-111.557 1/2:99:0,56,42:0:0:56,42:1992,1468:-281.634,-119.29,-102.432,-162.337,0,-149.694 1/2:198:0,106,91:0:0:106,91:3776,3132:-561.894,-254.115,-222.206,-307.769,0,-280.375 1/2:108:0,58,50:0:0:58,50:2040,1710:-304.982,-138.963,-121.503,-166.365,0,-151.314 1/2:110:0,60,49:0:0:60,49:2130,1704:-312.105,-138.55,-120.488,-173.624,0,-158.874 1/2:95:0,43,52:0:0:43,52:1532,1810:-272.265,-147.388,-134.444,-125.229,0,-109.575 1/1:161:0,159,0:0:0:159,0:5656,0:-508.65,-47.8638,0,-508.65,-47.8638,-508.65 1/1:8:0,8,0:0:0:8,0:288,0:-26.2674,-2.40824,0,-26.2674,-2.40824,-26.2674 1/2:11:0,7,4:0:0:7,4:248,136:-31.5822,-11.3703,-9.26305,-20.557,0,-19.3529 1/2:17:0,8,9:0:0:8,9:284,320:-49.4771,-26.3365,-23.9283,-23.4951,0,-20.7858 1/1:96:0,96,0:0:0:96,0:3444,0:-310.172,-28.8989,0,-310.172,-28.8989,-310.172 1/2:81:0,46,34:0:0:46,34:1648,1181:-230.247,-95.8384,-81.9911,-134.4,0,-124.165 1/1:143:0,143,0:0:0:143,0:5084,0:-457.659,-43.0473,0,-457.659,-43.0473,-457.659 1/1:86:0,84,0:0:0:84,0:2991,0:-269.136,-25.2865,0,-269.136,-25.2865,-269.136 1/1:29:0,28,1:0:0:28,1:1008,32:-90.7151,-8.42884,0,-88.1385,-5.53096,-87.8374 1/2:101:0,53,47:0:0:53,47:1890,1604:-284.109,-130.035,-114.08,-154.082,0,-139.934 1/2:59:0,43,16:0:0:43,16:1527,536:-168.112,-43.674,-30.7297,-124.778,0,-119.961 1/1:48:0,47,1:0:0:47,1:1649,36:-148.336,-14.1484,0,-145.399,-10.8522,-145.098 1/1:46:0,46,0:0:0:46,0:1635,0:-147.402,-13.8474,0,-147.402,-13.8474,-147.402 chr12 24812153 . T A 31631.7 PASS AB=0.505513;ABP=3.32156;AC=30;AF=0.714286;AN=42;AO=1539;CIGAR=1X;DP=2129;DPB=2129;DPRA=0;EPP=3327.56;EPPR=1284.18;GTI=0;LEN=1;MEANALT=1;MQM=59.9714;MQMR=60;NS=21;NUMALT=1;ODDS=6.40735;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=54767;QR=21057;RO=590;RPL=1537;RPP=3327.56;RPPR=1284.18;RPR=2;RUN=1;SAF=1539;SAP=3344.91;SAR=0;SRF=590;SRP=1284.18;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:113:2,111:2:72:111:3941:-348.045,-27.1797,0 1/1:93:0,93:0:0:93:3317:-298.747,-27.9958,0 0/1:116:53,63:53:1885:63:2253:-168.112,0,-135.007 0/1:127:66,61:66:2364:61:2176:-157.876,0,-174.788 0/1:214:122,92:122:4351:92:3255:-228.748,0,-327.345 0/1:101:48,53:48:1712:53:1871:-138.262,0,-123.962 0/1:167:75,92:75:2662:92:3292:-246.227,0,-189.551 0/1:102:50,52:50:1783:52:1860:-136.975,0,-130.047 1/1:224:0,224:0:0:224:7945:-715.074,-67.4307,0 1/1:5:0,5:0:0:5:180:-16.5521,-1.50515,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:21:10,11:10:360:11:392:-29.2984,0,-26.4227 1/1:104:1,103:1:36:103:3654:-325.465,-27.7088,0 0/1:88:36,52:36:1296:52:1837:-139.118,0,-90.4533 1/1:187:0,187:0:0:187:6689:-602.085,-56.2926,0 1/1:69:1,68:1:36:68:2411:-213.573,-17.1728,0 0/1:69:32,37:32:1152:37:1290:-95.6258,0,-83.2191 0/1:84:54,30:54:1923:30:1080:-72.2267,0,-148.06 0/1:86:35,51:35:1245:51:1832:-139.268,0,-86.4641 1/1:95:2,93:2:72:93:3310:-291.28,-21.7611,0 1/1:60:1,59:1:36:59:2110:-186.569,-14.4635,0 chr12 24844523 . 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C T 10766.2 PASS AB=0.56485;ABP=41.8764;AC=12;AF=0.285714;AN=42;AO=606;CIGAR=1X;DP=1789;DPB=1789;DPRA=1.41624;EPP=1241.91;EPPR=2354.97;GTI=0;LEN=1;MEANALT=1.13333;MQM=59.2079;MQMR=59.2659;NS=21;NUMALT=1;ODDS=5.61961;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21540;QR=41948;RO=1181;RPL=597;RPP=1241.91;RPPR=2354.97;RPR=9;RUN=1;SAF=606;SAP=1318.92;SAR=0;SRF=1181;SRP=2567.52;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:123:121,2:121:4282:2:72:0,-30.2199,-378.42 0/0:54:54,0:54:1923:0:0:0,-16.2556,-173.242 0/1:51:30,21:30:1076:21:756:-53.0147,0,-81.7719 0/1:131:49,82:49:1730:82:2932:-224.581,0,-116.492 0/1:139:60,78:60:2148:78:2796:-209.976,0,-151.605 0/1:85:40,45:40:1416:45:1612:-119.665,0,-102.047 0/1:154:57,97:57:2011:97:3445:-263.762,0,-134.76 0/1:109:48,61:48:1715:61:2158:-161.666,0,-121.732 0/0:135:134,1:134:4761:1:36:0,-37.0408,-424.888 0/0:16:16,0:16:567:0:0:0,-4.81648,-51.3156 0/1:4:2,2:2:72:2:68:-5.253,0,-5.63218 0/1:58:28,30:28:985:30:1061:-78.3377,0,-71.4567 0/0:124:124,0:124:4414:0:0:0,-37.3277,-397.194 0/1:60:23,36:23:816:36:1266:-96.2663,0,-55.7857 0/0:92:92,0:92:3282:0:0:0,-27.6948,-295.599 0/0:73:71,2:71:2534:2:68:0,-15.5175,-221.824 0/1:86:32,54:32:1127:54:1916:-146.786,0,-75.8289 0/1:95:39,56:39:1391:56:1950:-147.103,0,-96.7991 0/1:92:53,39:53:1866:39:1404:-98.9077,0,-140.491 0/0:49:49,0:49:1742:0:0:0,-14.7505,-157.017 0/0:59:59,0:59:2090:0:0:0,-17.7608,-188.303 chr12 24960068 . A G 68187.7 PASS AB=0.4562;ABP=42.3863;AC=30;AF=0.714286;AN=42;AO=2633;CIGAR=1X;DP=3931;DPB=3931;DPRA=0;EPP=5720.5;EPPR=2819.41;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.6024;MQMR=59.5713;NS=21;NUMALT=1;ODDS=11.879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=93342;QR=46198;RO=1297;RPL=1194;RPP=52.5138;RPPR=9.2401;RPR=1439;RUN=1;SAF=1194;SAP=52.5138;SAR=1439;SRF=618;SRP=9.2401;SRR=679;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:283:3,279:3:108:279:9911:-881.087,-75.1368,0 1/1:128:1,127:1:36:127:4502:-401.646,-34.9336,0 0/1:171:89,82:89:3176:82:2915:-211.077,0,-234.588 0/1:241:155,86:155:5517:86:3059:-202.95,0,-423.994 0/1:307:183,124:183:6528:124:4415:-304.928,0,-493.939 0/1:192:105,87:105:3724:87:3092:-220.61,0,-277.433 0/1:360:193,167:193:6908:167:5928:-425.068,0,-513.134 0/1:254:125,129:125:4436:129:4574:-335.154,0,-322.906 1/1:291:2,289:2:72:289:10296:-919.466,-80.763,0 1/1:33:0,33:0:0:33:1180:-106.463,-9.93399,0 0/1:22:13,9:13:456:9:324:-22.8828,0,-34.7498 0/1:89:51,38:51:1816:38:1312:-91.5376,0,-136.928 1/1:201:1,200:1:36:200:7094:-634.684,-56.9088,0 0/1:208:103,105:103:3649:105:3635:-264.742,0,-265.877 1/1:271:2,269:2:72:269:9587:-855.944,-74.7424,0 1/1:130:2,128:2:72:128:4498:-398.133,-32.2972,0 0/1:173:112,61:112:3990:61:2188:-145.043,0,-307.151 0/1:198:101,97:101:3599:97:3404:-246.908,0,-264.495 0/1:148:55,93:55:1967:93:3320:-253.886,0,-132.695 1/1:117:0,117:0:0:117:4097:-368.872,-35.2205,0 1/1:114:1,113:1:36:113:4011:-357.471,-30.7191,0 chr12 24960113 . C T 12081.9 PASS AB=0.53092;ABP=14.0216;AC=12;AF=0.285714;AN=42;AO=707;CIGAR=1X;DP=2188;DPB=2188;DPRA=1.52775;EPP=1538.24;EPPR=3214.62;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.8331;MQMR=59.9358;NS=21;NUMALT=1;ODDS=8.86417;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=25254;QR=52502;RO=1479;RPL=707;RPP=1538.24;RPPR=3214.62;RPR=0;RUN=1;SAF=0;SAP=1538.24;SAR=707;SRF=0;SRP=3214.62;SRR=1479;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:167:166,1:166:5884:1:36:0,-46.6737,-526.069 0/0:80:78,1:78:2777:1:36:0,-20.5429,-246.466 0/1:123:53,70:53:1889:70:2497:-187.945,0,-133.258 0/1:109:37,72:37:1305:72:2577:-199.365,0,-84.9371 0/1:170:62,108:62:2224:108:3835:-294.008,0,-149.247 0/1:108:50,58:50:1773:58:2084:-155.312,0,-127.34 0/1:205:111,94:111:3968:94:3369:-241.703,0,-295.594 0/1:153:81,72:81:2882:72:2573:-185.76,0,-213.556 0/0:161:160,1:160:5661:1:36:0,-44.8676,-505.953 0/0:18:18,0:18:633:0:0:0,-5.41854,-57.2951 0/1:20:8,12:8:273:12:432:-33.1997,0,-18.8796 0/1:32:10,22:10:341:22:780:-60.8754,0,-21.3848 0/0:79:79,0:79:2821:0:0:0,-23.7814,-254.128 0/1:153:82,71:82:2846:71:2507:-179.82,0,-210.315 0/0:181:180,0:180:6400:0:0:0,-54.1854,-575.722 0/0:56:56,0:56:1993:0:0:0,-16.8577,-179.642 0/1:89:31,58:31:1082:58:2084:-161.03,0,-70.893 0/1:110:60,50:60:2144:50:1796:-128.809,0,-160.114 0/1:54:37,17:37:1328:17:612:-39.1578,0,-103.531 0/0:64:64,0:64:2266:0:0:0,-19.2659,-204.199 0/0:56:56,0:56:2012:0:0:0,-16.8577,-181.353 chr12 24960120 . GT GA,AA 45198.4 PASS AB=0.467692,0.530769;ABP=14.7964,13.7006;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1448,693;CIGAR=1M1X,2X;DP=2147;DPB=2148;DPRA=0,1.26562;EPP=3147.3,1507.84;EPPR=5.18177;GTI=0;LEN=1,2;MEANALT=1.90476,2.21429;MQM=59.9372,59.8066;MQMR=60;NS=21;NUMALT=2;ODDS=8.93382;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,64;PQR=0;PRO=0;QA=51858,24518;QR=25;RO=1;RPL=1448,693;RPP=3147.3,1507.84;RPPR=5.18177;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3147.3,1507.84;SAR=1448,693;SRF=0;SRP=5.18177;SRR=1;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:160:0,158,2:0:0:158,2:5660,72:-509.159,-47.5627,0,-503.285,-41.3281,-502.683 1/1:79:1,76,1:1:25:76,1:2698,36:-240.471,-20.966,0,-237.834,-19.9226,-239.481 1/2:120:0,52,67:0:0:52,67:1841,2391:-344.844,-194.929,-179.275,-149.93,0,-129.761 1/2:108:0,37,71:0:0:37,71:1320,2541:-315.174,-207.567,-196.429,-107.964,0,-86.5907 1/2:167:0,60,107:0:0:60,107:2144,3746:-479.507,-304.698,-286.636,-175.164,0,-142.953 1/2:107:0,48,59:0:0:48,59:1724,2072:-309.621,-168.98,-154.531,-140.996,0,-123.235 1/2:202:0,108,93:0:0:108,93:3876,3324:-587.167,-271.017,-238.506,-316.148,0,-288.152 1/2:149:0,81,68:0:0:81,68:2904,2397:-432.052,-195.195,-170.811,-236.892,0,-216.422 1/1:157:0,155,0:0:0:155,0:5559,0:-500.055,-46.6597,0,-500.055,-46.6597,-500.055 1/1:18:0,18,0:0:0:18,0:644,0:-58.2906,-5.41854,0,-58.2906,-5.41854,-58.2906 1/2:16:0,7,9:0:0:7,9:252,309:-46.0006,-25.4314,-23.3242,-20.9217,0,-18.2125 1/2:32:0,10,22:0:0:10,22:360,766:-91.9757,-62.5993,-59.589,-29.7324,0,-23.1098 1/1:77:0,77,0:0:0:77,0:2768,0:-249.361,-23.1793,0,-249.361,-23.1793,-249.361 1/2:153:0,83,70:0:0:83,70:2972,2466:-443.474,-201.101,-176.116,-242.727,0,-221.655 1/1:180:0,180,0:0:0:180,0:6440,0:-579.686,-54.1854,0,-579.686,-54.1854,-579.686 1/1:54:0,54,0:0:0:54,0:1936,0:-174.516,-16.2556,0,-174.516,-16.2556,-174.516 1/2:86:0,28,58:0:0:28,58:1000,2043:-248.205,-166.674,-158.245,-81.8865,0,-64.4268 1/2:106:0,57,49:0:0:57,49:2052,1747:-310.197,-142.762,-125.604,-167.793,0,-153.042 1/2:54:0,37,17:0:0:37,17:1328,608:-158.246,-49.9347,-38.7966,-108.669,0,-103.552 1/1:67:0,67,0:0:0:67,0:2404,0:-216.616,-20.169,0,-216.616,-20.169,-216.616 1/1:55:0,55,0:0:0:55,0:1976,0:-178.115,-16.5567,0,-178.115,-16.5567,-178.115 chr12 24967639 . T C 78064 PASS AB=0.51167;ABP=5.5952;AC=30;AF=0.714286;AN=42;AO=2944;CIGAR=1X;DP=4023;DPB=4023;DPRA=0;EPP=207.084;EPPR=117.323;GTI=0;LEN=1;MEANALT=1.14286;MQM=59.9433;MQMR=60;NS=21;NUMALT=1;ODDS=14.0318;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=104566;QR=38460;RO=1076;RPL=2932;RPP=6292.02;RPPR=2262;RPR=12;RUN=1;SAF=1197;SAP=226.132;SAR=1747;SRF=410;SRP=135.268;SRR=666;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:250:5,244:5:176:244:8682:-765.15,-59.1299,0 1/1:209:1,207:1:36:207:7299:-653.173,-59.3758,0 0/1:137:72,65:72:2584:65:2326:-168.359,0,-191.568 0/1:237:136,101:136:4868:101:3573:-250.431,0,-366.929 0/1:378:180,198:180:6438:198:7026:-518.592,0,-465.717 0/1:202:114,88:114:4096:88:3147:-222.647,0,-308.016 0/1:280:153,127:153:5469:127:4527:-323.31,0,-408.048 0/1:238:88,150:88:3156:150:5354:-410.346,0,-212.62 1/1:348:1,346:1:36:346:12227:-1096.63,-101.219,0 1/1:23:0,23:0:0:23:824:-74.4833,-6.92369,0 0/1:10:4,6:4:140:6:216:-16.7802,0,-9.93428 0/1:45:15,30:15:525:30:1061:-82.253,0,-34.0317 1/1:239:0,239:0:0:239:8505:-765.455,-71.9462,0 0/1:237:124,113:124:4426:113:4039:-292.354,0,-327.165 1/1:358:0,358:0:0:358:12683:-1141.3,-107.769,0 1/1:128:0,128:0:0:128:4539:-408.676,-38.5318,0 0/1:143:86,57:86:3039:57:2031:-140.014,0,-230.692 0/1:117:45,72:45:1599:72:2549:-194.422,0,-108.979 0/1:161:50,111:50:1800:111:3958:-307.946,0,-113.816 1/1:180:2,178:2:72:178:6336:-563.496,-47.3487,0 1/1:103:0,103:0:0:103:3664:-329.963,-31.0061,0 chr12 24967657 . T G 36054.7 PASS AB=0.496639;ABP=3.14166;AC=30;AF=0.714286;AN=42;AO=1749;CIGAR=1X;DP=2428;DPB=2428;DPRA=0;EPP=3800.92;EPPR=1475.27;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.8914;MQMR=60;NS=21;NUMALT=1;ODDS=7.32969;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=62413;QR=24145;RO=678;RPL=1749;RPP=3800.92;RPPR=1475.27;RPR=0;RUN=1;SAF=0;SAP=3800.92;SAR=1749;SRF=0;SRP=1475.27;SRR=678;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:158:2,156:2:72:156:5510:-488.477,-40.726,0 1/1:138:0,138:0:0:138:4924:-443.123,-41.5421,0 0/1:98:48,50:48:1698:50:1776:-130.617,0,-123.601 0/1:149:81,68:81:2859:68:2428:-173.836,0,-212.691 0/1:246:116,130:116:4153:130:4661:-345.572,0,-299.898 0/1:104:57,47:57:2025:47:1676:-119.82,0,-151.214 0/1:175:110,65:110:3899:65:2328:-157.1,0,-298.422 0/1:148:57,91:57:2040:91:3245:-247.716,0,-139.32 1/1:206:1,205:1:36:205:7312:-654.51,-58.4139,0 1/1:10:0,10:0:0:10:356:-32.3812,-3.0103,0 0/1:4:2,2:2:72:2:72:-5.6326,0,-5.6326 0/1:26:7,19:7:248:19:680:-53.7024,0,-14.8374 1/1:116:0,116:0:0:116:4144:-373.144,-34.9195,0 0/1:142:85,56:85:3026:56:2000:-137.469,0,-229.763 1/1:229:0,229:0:0:229:8197:-737.737,-68.9359,0 1/1:79:0,79:0:0:79:2828:-254.757,-23.7814,0 0/1:100:59,41:59:2109:41:1464:-101.953,0,-159.974 0/1:63:24,39:24:864:39:1395:-106.867,0,-59.1177 0/1:84:27,57:27:972:57:2020:-156.786,0,-62.5114 1/1:111:2,109:2:72:109:3900:-344.357,-26.5776,0 1/1:42:0,42:0:0:42:1497:-135.019,-12.6433,0 chr12 25034094 . A T 34202.3 PASS AB=0.499637;ABP=3.01188;AC=30;AF=0.714286;AN=42;AO=1668;CIGAR=1X;DP=2365;DPB=2365;DPRA=0;EPP=3444.92;EPPR=1454.17;GTI=0;LEN=1;MEANALT=1.04762;MQM=44.6499;MQMR=59.6825;NS=21;NUMALT=1;ODDS=11.9623;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=59785;QR=24989;RO=696;RPL=21;RPP=3444.92;RPPR=1454.17;RPR=1647;RUN=1;SAF=1668;SAP=3625.03;SAR=0;SRF=696;SRP=1514.36;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:133:2,131:2:72:131:4679:-405.382,-33.2003,0 1/1:88:0,88:0:0:88:3168:-280.969,-26.4906,0 0/1:110:50,60:50:1800:60:2151:-157.138,0,-129.124 0/1:195:107,88:107:3844:88:3147:-219.809,0,-287.399 0/1:251:123,127:123:4420:127:4536:-325.866,0,-322.268 0/1:52:21,31:21:756:31:1112:-83.3686,0,-52.7137 0/1:178:94,84:94:3380:84:3016:-212.9,0,-250.741 0/1:108:63,45:63:2260:45:1616:-111.164,0,-171.105 1/1:206:1,205:1:36:205:7351:-642.754,-58.4139,0 1/1:27:0,27:0:0:27:968:-85.6843,-8.12781,0 0/1:4:3,1:3:108:1:36:-2.3444,0,-8.87105 0/1:35:19,16:19:680:16:576:-40.9723,0,-50.9481 1/1:101:0,101:0:0:101:3628:-321.868,-30.404,0 0/1:113:53,60:53:1881:60:2139:-154.383,0,-135.55 1/1:185:2,183:2:72:183:6573:-573.968,-48.8538,0 1/1:72:0,72:0:0:72:2577:-227.907,-21.6742,0 0/1:129:75,54:75:2696:54:1931:-132.311,0,-204.006 0/1:131:64,67:64:2304:67:2404:-173.583,0,-168.006 0/1:71:16,55:16:572:55:1968:-152.917,0,-30.4321 1/1:120:3,117:3:108:117:4204:-360.248,-26.0484,0 1/1:56:0,56:0:0:56:2005:-178.147,-16.8577,0 chr12 25034184 . TCGT CCGC,TCGC 52839.1 PASS AB=0.581028,0.41502;ABP=75.1495,82.3592;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1938,527;CIGAR=1X2M1X,3M1X;DP=2477;DPB=2477;DPRA=0,0.668396;EPP=4082.04,1121.47;EPPR=0;GTI=0;LEN=4,1;MEANALT=2.14286,2.28571;MQM=59.984,59.9488;MQMR=0;NS=21;NUMALT=2;ODDS=14.7938;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=68271,18836;QR=0;RO=0;RPL=1923,524;RPP=4082.04,1121.47;RPPR=0;RPR=15,3;RUN=1,1;SAF=0,0;SAP=4211.32,1147.38;SAR=1938,527;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:191:0,189,0:0:0:189,0:6664,0:-599.501,-56.8947,0,-599.501,-56.8947,-599.501 1/1:112:0,112,0:0:0:112,0:3963,0:-356.862,-33.7154,0,-356.862,-33.7154,-356.862 1/2:115:0,52,63:0:0:52,63:1791,2264:-330.519,-185.057,-169.404,-145.812,0,-126.848 1/2:111:0,66,45:0:0:66,45:2342,1598:-321.174,-130.372,-110.504,-191.157,0,-177.61 1/2:169:0,100,67:0:0:100,67:3484,2403:-479.314,-195.998,-165.895,-283.311,0,-263.142 1/2:77:0,45,31:0:0:45,31:1587,1101:-218.926,-89.7076,-76.1613,-129.213,0,-119.881 1/2:210:0,105,105:0:0:105,105:3736,3754:-610.921,-306.452,-274.844,-304.826,0,-273.217 1/2:190:0,112,77:0:0:112,77:3888,2752:-540.433,-224.383,-190.668,-316.043,0,-292.864 1/1:263:0,262,0:0:0:262,0:9264,0:-833.387,-78.8699,0,-833.387,-78.8699,-833.387 1/1:26:0,26,0:0:0:26,0:928,0:-83.8382,-7.82678,0,-83.8382,-7.82678,-83.8382 1/2:15:0,7,8:0:0:7,8:249,288:-44.15,-23.8592,-21.752,-20.6484,0,-18.2401 1/2:26:0,14,12:0:0:14,12:481,432:-74.6586,-35.6088,-31.3944,-39.402,0,-35.7896 1/1:185:0,183,0:0:0:183,0:6481,0:-583.023,-55.0885,0,-583.023,-55.0885,-583.023 1/2:130:0,92,37:0:0:92,37:3236,1313:-370.387,-106.972,-79.2771,-263.409,0,-252.271 1/1:208:0,207,0:0:0:207,0:7296,0:-656.341,-62.3132,0,-656.341,-62.3132,-656.341 1/1:75:0,74,0:0:0:74,0:2615,0:-235.298,-22.2762,0,-235.298,-22.2762,-235.298 1/2:64:0,40,24:0:0:40,24:1421,864:-186.646,-70.8578,-58.8166,-116.146,0,-108.921 1/2:91:0,52,39:0:0:52,39:1819,1383:-261.01,-113.028,-97.3743,-148.335,0,-136.595 1/2:67:0,50,17:0:0:50,17:1733,612:-191.139,-50.2959,-35.2444,-141.2,0,-136.082 1/1:109:0,108,1:0:0:108,1:3799,36:-341.75,-32.5112,0,-338.813,-29.214,-338.512 1/1:43:0,42,1:0:0:42,1:1494,36:-134.394,-12.6433,0,-131.456,-9.34602,-131.155 chr12 25225072 . A G 11285 PASS AB=0.515199;ABP=5.58459;AC=12;AF=0.285714;AN=42;AO=662;CIGAR=1X;DP=2679;DPB=2679;DPRA=0.821944;EPP=1440.53;EPPR=4382.87;GTI=1;LEN=1;MEANALT=1;MQM=59.2462;MQMR=59.8934;NS=21;NUMALT=1;ODDS=5.73085;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23725;QR=72230;RO=2017;RPL=662;RPP=1440.53;RPPR=4382.87;RPR=0;RUN=1;SAF=0;SAP=1440.53;SAR=662;SRF=0;SRP=4382.87;SRR=2017;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:150:150,0:150:5357:0:0:0,-45.1545,-482.225 0/0:136:136,0:136:4869:0:0:0,-40.9401,-437.933 0/1:98:44,54:44:1561:54:1932:-144.571,0,-111.279 0/1:113:60,53:60:2148:53:1904:-137.093,0,-159.571 0/1:271:122,149:122:4368:149:5340:-398.884,0,-311.71 0/1:70:32,38:32:1144:38:1368:-102.349,0,-82.1974 0/1:128:68,60:68:2406:60:2148:-154.763,0,-178.262 0/1:105:47,58:47:1692:58:2080:-155.862,0,-120.959 0/0:305:305,0:305:10941:0:0:0,-91.8141,-984.454 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.4134 0/1:9:7,2:7:252:2:72:-4.12745,0,-20.3197 0/1:35:13,22:13:468:22:788:-60.7069,0,-31.9236 0/0:222:222,0:222:7950:0:0:0,-66.8287,-715.462 0/1:131:46,85:46:1652:85:3033:-233.623,0,-109.534 0/0:249:248,1:248:8865:1:36:0,-71.3582,-794.188 0/0:142:142,0:142:5104:0:0:0,-42.7463,-459.496 0/1:108:57,51:57:2044:51:1824:-131.735,0,-151.721 0/1:152:86,66:86:3088:66:2372:-167.757,0,-232.346 0/1:63:40,23:40:1436:23:828:-55.8792,0,-110.573 0/0:95:95,0:95:3397:0:0:0,-28.5978,-305.943 0/0:80:80,0:80:2876:0:0:0,-24.0824,-258.706 chr12 25225122 . 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C T 26609 PASS AB=0.4876;ABP=6.02613;AC=12;AF=0.285714;AN=42;AO=1103;CIGAR=1X;DP=4051;DPB=4051;DPRA=0.941637;EPP=319.579;EPPR=457.379;GTI=0;LEN=1;MEANALT=1.21429;MQM=59.6165;MQMR=59.9188;NS=21;NUMALT=1;ODDS=42.7293;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39363;QR=105208;RO=2945;RPL=154;RPP=1247.28;RPPR=3408.2;RPR=949;RUN=1;SAF=505;SAP=20.0376;SAR=598;SRF=1478;SRP=3.09952;SRR=1467;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:221:220,1:220:7862:1:36:0,-62.9294,-704 0/0:207:207,0:207:7412:0:0:0,-62.3132,-667.109 0/1:120:60,60:60:2138:60:2144:-157.096,0,-156.563 0/1:221:111,110:111:3967:110:3919:-286.351,0,-290.693 0/1:406:193,213:193:6894:213:7604:-562.128,0,-497.836 0/1:208:122,86:122:4349:86:3066:-213.449,0,-328.97 0/1:351:180,170:180:6424:170:6050:-438.26,0,-472.645 0/1:225:98,125:98:3507:125:4483:-336.264,0,-248.483 0/0:301:301,0:301:10749:0:0:0,-90.61,-967.318 0/0:41:41,0:41:1463:0:0:0,-12.3422,-131.963 0/1:25:17,8:17:612:8:288:-18.7417,0,-47.8877 0/1:55:32,23:32:1152:23:813:-56.9075,0,-87.4335 0/0:195:195,0:195:6996:0:0:0,-58.7008,-629.701 0/1:160:89,71:89:3160:71:2523:-179.156,0,-236.459 0/0:315:315,0:315:11267:0:0:0,-94.8244,-1013.91 0/0:179:179,0:179:6390:0:0:0,-53.8844,-575.189 0/1:95:45,50:45:1595:50:1792:-132.965,0,-115.242 0/1:223:97,126:97:3464:126:4497:-337.724,0,-244.772 0/1:169:110,59:110:3927:59:2112:-139.466,0,-302.749 0/0:167:166,1:166:5905:1:36:0,-46.6737,-527.953 0/0:167:167,0:167:5975:0:0:0,-50.272,-537.831 chr12 25331968 . TTTCT ATTTT,TTTT 43642.4 PASS AB=0.465021,0.498765;ABP=15.923,3.02638;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1463,608;CIGAR=1X2M1X1M,3M1D1M;DP=2136;DPB=2227.2;DPRA=0,1.0389;EPP=3179.87,1323.27;EPPR=0;GTI=0;LEN=5,1;MEANALT=3.33333,3.64286;MQM=59.8496,59.4342;MQMR=0;NS=21;NUMALT=2;ODDS=7.30685;PAIRED=0,0;PAIREDR=0;PAO=441,121.5;PQA=15707,34;PQR=34;PRO=121.5;QA=52230,21599;QR=0;RO=0;RPL=1463,608;RPP=3179.87,1323.27;RPPR=0;RPR=0,0;RUN=1,1;SAF=0,0;SAP=3179.87,1323.27;SAR=1463,608;SRF=0;SRP=0;SRR=0;TYPE=complex,del GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:0,106,0:0:0:106,0:3794,0:-334.314,-31.9092,0,-334.314,-31.9092,-334.314 1/1:116:0,113,0:0:0:113,0:4044,0:-363.771,-34.0164,0,-363.771,-34.0164,-363.771 1/2:63:0,32,29:0:0:32,29:1131,1025:-174.846,-82.7595,-73.1266,-91.3967,0,-82.6668 1/2:132:0,57,68:0:0:57,68:2027,2425:-362.433,-197.263,-180.104,-164.801,0,-144.331 1/2:266:0,111,149:0:0:111,149:3944,5273:-750.02,-428.695,-395.281,-320.6,0,-275.747 1/2:131:0,67,62:0:0:67,62:2404,2201:-375.309,-179.219,-159.05,-196.087,0,-177.423 1/2:170:0,80,89:0:0:80,89:2840,3125:-485.532,-254.155,-230.072,-231.377,0,-204.585 1/2:64:0,27,34:0:0:27,34:968,1224:-178.782,-99.8447,-91.7169,-78.9361,0,-68.7011 1/1:142:0,140,1:0:0:140,1:5009,36:-445.912,-42.1442,0,-442.979,-43.9627,-442.678 1/1:17:0,16,0:0:0:16,0:568,0:-51.119,-4.81648,0,-51.119,-4.81648,-51.119 1/2:9:0,7,2:0:0:7,2:252,72:-26.7966,-6.23466,-4.12745,-20.9217,0,-20.3197 1/2:30:0,17,13:0:0:17,13:611,468:-88.3786,-38.5324,-33.4149,-50.2057,0,-46.2923 1/1:113:0,111,0:0:0:111,0:3942,0:-352.159,-33.4143,0,-352.159,-33.4143,-352.159 1/2:80:0,35,41:0:0:35,41:1243,1461:-219.671,-118.417,-107.881,-100.623,0,-88.2808 1/1:129:0,128,0:0:0:128,0:4590,0:-401.674,-38.5318,0,-401.674,-38.5318,-401.674 1/1:117:0,112,0:0:0:112,0:3992,0:-358.361,-33.7154,0,-358.361,-33.7154,-358.361 1/2:34:0,15,17:0:0:15,17:536,608:-92.5405,-48.8749,-44.3595,-43.0095,0,-37.892 1/2:135:0,59,70:0:0:59,70:2110,2512:-376.83,-204.851,-187.09,-171.978,0,-150.906 1/2:101:0,58,32:0:0:58,32:2084,1133:-262.077,-92.0984,-74.6386,-169.809,0,-160.176 1/1:85:0,80,1:0:0:80,1:2846,36:-255.865,-24.0824,0,-252.927,-21.144,-252.626 1/1:95:0,92,0:0:0:92,0:3295,0:-296.387,-27.6948,0,-296.387,-27.6948,-296.387 chr12 25332701 . T C 44115.5 PASS AB=0.482154;ABP=7.42803;AC=30;AF=0.714286;AN=42;AO=2119;CIGAR=1X;DP=2949;DPB=2949;DPRA=0;EPP=4604.36;EPPR=1803.16;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9311;MQMR=59.9952;NS=21;NUMALT=1;ODDS=23.2696;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=75901;QR=29712;RO=829;RPL=0;RPP=4604.36;RPPR=1803.16;RPR=2119;RUN=1;SAF=2119;SAP=4604.36;SAR=0;SRF=829;SRP=1803.16;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:156:0,156:0:0:156:5585:-502.748,-46.9607,0 1/1:205:0,205:0:0:205:7339:-660.556,-61.7112,0 0/1:148:79,69:79:2832:69:2476:-178.541,0,-210.566 0/1:228:132,96:132:4736:96:3436:-240.813,0,-357.763 0/1:209:116,93:116:4160:93:3332:-237.182,0,-311.667 0/1:108:56,52:56:2000:52:1860:-135.168,0,-147.763 0/1:170:76,94:76:2728:94:3353:-250.811,0,-194.588 0/1:168:103,65:103:3696:65:2332:-159.562,0,-282.269 1/1:256:0,256:0:0:256:9167:-825,-77.0637,0 1/1:31:0,31:0:0:31:1112:-100.389,-9.33193,0 0/1:21:7,14:7:252:14:504:-39.3765,0,-16.7073 0/1:81:39,41:39:1400:41:1472:-108.334,0,-101.857 1/1:120:1,119:1:36:119:4272:-380.823,-32.5253,0 0/1:156:79,77:79:2832:77:2756:-201.319,0,-208.155 1/1:258:0,258:0:0:258:9232:-830.849,-77.6657,0 1/1:154:0,154:0:0:154:5532:-498.003,-46.3586,0 0/1:108:49,59:49:1756:59:2112:-157.837,0,-125.813 0/1:133:68,65:68:2432:65:2332:-170.096,0,-179.099 0/1:67:22,45:22:780:45:1601:-124.21,0,-50.354 1/1:91:1,90:1:36:90:3228:-287.143,-23.7955,0 1/1:81:1,80:1:36:80:2868:-253.814,-20.7852,0 chr12 25339736 . G A 31598.8 PASS AB=0.539038;ABP=36.5791;AC=12;AF=0.285714;AN=42;AO=1368;CIGAR=1X;DP=4249;DPB=4249;DPRA=0.928163;EPP=2973.58;EPPR=6213.42;GTI=1;LEN=1;MEANALT=1.38462;MQM=59.9978;MQMR=59.9916;NS=21;NUMALT=1;ODDS=4.06849;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=48479;QR=98596;RO=2864;RPL=671;RPP=4.08334;RPPR=6.5162;RPR=697;RUN=1;SAF=671;SAP=4.08334;SAR=697;SRF=1399;SRP=6.313;SRR=1465;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:206:203,0:203:6960:0:0:0,-61.1091,-626.255 0/0:179:178,0:178:6090:0:0:0,-53.5833,-547.941 0/1:149:60,89:60:2080:89:3163:-240.042,0,-142.613 0/1:293:123,170:123:4241:170:6044:-455.86,0,-293.67 0/1:408:186,222:186:6426:222:7856:-584.251,0,-455.619 0/1:283:130,153:130:4467:153:5438:-404.361,0,-317.015 0/1:371:165,203:165:5653:203:7222:-538.997,0,-397.862 0/1:199:92,107:92:3186:107:3805:-282.742,0,-227.061 0/0:304:303,0:303:10540:0:0:0,-91.2121,-948.334 0/0:19:18,1:18:631:1:36:0,-2.12129,-53.5174 0/1:36:17,19:17:585:19:654:-48.3405,0,-42.1348 0/1:90:45,45:45:1595:45:1608:-117.917,0,-116.747 0/0:231:230,0:230:7869:0:0:0,-69.2369,-708.042 0/1:181:75,105:75:2628:105:3699:-278.568,0,-182.22 0/0:236:234,0:234:7997:0:0:0,-70.441,-719.544 0/0:197:195,0:195:6830:0:0:0,-58.7008,-614.498 0/1:141:74,66:74:2538:66:2353:-169.632,0,-186.273 0/1:235:103,131:103:3423:131:4576:-341.295,0,-237.577 0/1:150:93,57:93:3157:57:2025:-137.367,0,-239.202 0/0:214:214,0:214:7435:0:0:0,-64.4204,-669.208 0/0:127:126,0:126:4265:0:0:0,-37.9298,-383.75 chr12 25339738 . C T 74292.7 PASS AB=0.460248;ABP=37.3661;AC=30;AF=0.714286;AN=42;AO=2855;CIGAR=1X;DP=4210;DPB=4210;DPRA=0;EPP=6202.56;EPPR=2932.33;GTI=1;LEN=1;MEANALT=1.2381;MQM=59.9891;MQMR=59.9681;NS=21;NUMALT=1;ODDS=1.35392;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=100852;QR=47601;RO=1349;RPL=1406;RPP=4.41662;RPPR=3.05054;RPR=1449;RUN=1;SAF=1406;SAP=4.41662;SAR=1449;SRF=677;SRP=3.05054;SRR=672;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:200:1,199:1:36:199:6973:-624.047,-56.6077,0 1/1:178:0,178:0:0:178:6245:-562.154,-53.5833,0 0/1:150:88,62:88:3107:62:2185:-151.76,0,-234.7 0/1:283:165,118:165:5850:118:4199:-292.902,0,-441.421 0/1:398:216,182:216:7675:182:6454:-461.142,0,-570.977 0/1:283:149,132:149:5263:132:4651:-333.89,0,-388.946 0/1:378:205,173:205:7235:173:6111:-436.308,0,-537.423 0/1:189:101,88:101:3567:88:3099:-222.244,0,-264.347 1/1:295:0,295:0:0:295:10448:-940.245,-88.8039,0 1/1:21:1,19:1:36:19:684:-58.3415,-2.72723,0 0/1:32:16,15:16:572:15:525:-37.9899,0,-42.2252 0/1:88:45,43:45:1603:43:1533:-111.77,0,-118.069 1/1:233:0,233:0:0:233:8239:-741.524,-70.14,0 0/1:179:101,76:101:3571:76:2677:-187.543,0,-267.921 1/1:244:0,244:0:0:244:8623:-776.074,-73.4513,0 1/1:196:0,196:0:0:196:6932:-623.95,-59.0019,0 0/1:142:69,73:69:2418:73:2601:-191.591,0,-175.128 0/1:239:136,103:136:4693:103:3642:-256.041,0,-350.584 0/1:142:55,87:55:1939:87:3036:-230.726,0,-132.04 1/1:212:0,212:0:0:212:7540:-678.644,-63.8184,0 1/1:128:1,127:1:36:127:4455:-397.526,-34.9336,0 chr12 25349990 . AATC GATT,GATC 53796.6 PASS AB=0.533566,0.462937;ABP=17.0049,20.0723;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1886,663;CIGAR=1X2M1X,1X3M;DP=2557;DPB=2557;DPRA=0,0.931851;EPP=4089.73,1442.7;EPPR=0;GTI=0;LEN=4,1;MEANALT=1.95238,2.38462;MQM=59.6893,59.9925;MQMR=0;NS=21;NUMALT=2;ODDS=18.3993;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=66669,23634;QR=0;RO=0;RPL=1885,663;RPP=4089.73,1442.7;RPPR=0;RPR=1,0;RUN=1,1;SAF=1886,663;SAP=4098.41,1442.7;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:119:0,116,0:0:0:116,0:4069,0:-366.021,-34.9195,0,-366.021,-34.9195,-366.021 1/1:143:0,143,0:0:0:143,0:5064,0:-455.87,-43.0473,0,-455.87,-43.0473,-455.87 1/2:136:0,80,56:0:0:80,56:2848,1993:-394.896,-162.784,-138.702,-232.467,0,-215.61 1/2:183:0,108,75:0:0:108,75:3811,2668:-528.072,-217.787,-185.275,-310.64,0,-288.063 1/2:317:0,144,172:0:0:144,172:5094,6135:-915.12,-500.229,-456.881,-415.006,0,-363.228 1/2:90:0,51,39:0:0:51,39:1814,1396:-262.028,-114.199,-98.8464,-148.186,0,-136.446 1/2:228:0,139,88:0:0:139,88:4923,3152:-658.037,-257.055,-215.212,-400.979,0,-374.488 1/2:70:0,41,28:0:0:41,28:1445,993:-198.652,-81.0011,-68.6589,-117.751,0,-109.322 1/1:268:0,268,0:0:0:268,0:9493,0:-854.185,-80.676,0,-854.185,-80.676,-854.185 1/1:7:0,7,0:0:0:7,0:252,0:-23.029,-2.10721,0,-23.029,-2.10721,-23.029 1/2:11:0,3,8:0:0:3,8:108,288:-32.6691,-23.8592,-22.9561,-9.16966,0,-6.76142 1/2:51:0,18,33:0:0:18,33:647,1184:-149.718,-96.9343,-91.5158,-53.1431,0,-43.2091 1/1:110:0,109,1:0:0:109,1:3865,36:-347.644,-32.8123,0,-344.707,-29.515,-344.406 1/2:144:0,77,67:0:0:77,67:2691,2367:-411.958,-193.115,-169.935,-219.195,0,-199.026 1/1:175:0,175,0:0:0:175,0:6137,0:-552.403,-52.6803,0,-552.403,-52.6803,-552.403 1/1:129:0,129,0:0:0:129,0:4543,0:-408.877,-38.8329,0,-408.877,-38.8329,-408.877 1/2:37:0,16,20:0:0:16,20:570,720:-105.322,-58.8643,-54.0478,-46.5676,0,-40.547 1/2:85:0,41,43:0:0:41,43:1448,1514:-241.162,-123.245,-110.903,-117.91,0,-104.966 1/2:78:0,45,33:0:0:45,33:1601,1188:-227.76,-97.2946,-83.7483,-130.823,0,-120.889 1/1:109:0,109,0:0:0:109,0:3844,0:-346.147,-32.8123,0,-346.147,-32.8123,-346.147 1/1:67:0,67,0:0:0:67,0:2402,0:-216.427,-20.169,0,-216.427,-20.169,-216.427 chr12 25350062 . ATTTC ATTTG,GTTTG 88738.6 PASS AB=0.507837,0.489476;ABP=4.20155,5.15843;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3013,1095;CIGAR=4M1X,1X3M1X;DP=4119;DPB=4119;DPRA=0,1.20207;EPP=6424.62,2354.79;EPPR=0;GTI=0;LEN=1,5;MEANALT=2.09524,2.5;MQM=59.8477,59.4402;MQMR=0;NS=21;NUMALT=2;ODDS=19.5951;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=107907,38717;QR=0;RO=0;RPL=2999,1092;RPP=6424.62,2354.79;RPPR=0;RPR=14,3;RUN=1,1;SAF=0,0;SAP=6545.66,2380.77;SAR=3013,1095;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:255:0,253,1:0:0:253,1:9084,36:-817.238,-76.1606,0,-814.3,-73.1532,-813.999 1/1:188:0,188,0:0:0:188,0:6721,0:-604.897,-56.5936,0,-604.897,-56.5936,-604.897 1/2:229:0,112,117:0:0:112,117:4001,4153:-664.889,-338.71,-304.995,-326.535,0,-291.314 1/2:232:0,114,118:0:0:114,118:4096,4181:-675.046,-340.906,-306.589,-334.496,0,-298.974 1/2:401:0,181,219:0:0:181,219:6483,7725:-1155.8,-627.539,-573.053,-528.255,0,-462.329 1/2:203:0,109,94:0:0:109,94:3897,3317:-587.537,-269.796,-236.984,-318.096,0,-289.799 1/2:364:0,202,161:0:0:202,161:7207,5708:-1051.62,-464.125,-403.317,-587.502,0,-539.036 1/2:185:0,86,98:0:0:86,98:3088,3458:-532.552,-281.504,-255.616,-251.043,0,-221.542 1/1:421:0,419,1:0:0:419,1:14987,34:-1348.13,-126.132,0,-1345.38,-123.384,-1345.07 1/1:18:0,18,0:0:0:18,0:648,0:-58.6519,-5.41854,0,-58.6519,-5.41854,-58.6519 1/2:17:0,9,7:0:0:9,7:324,249:-46.7272,-20.2884,-17.5791,-26.4368,0,-24.3295 1/2:31:0,15,16:0:0:15,16:540,554:-89.2463,-45.3687,-40.8533,-44.2301,0,-39.4136 1/1:269:0,269,0:0:0:269,0:9667,0:-869.622,-80.9771,0,-869.622,-80.9771,-869.622 1/2:244:0,129,113:0:0:129,113:4616,3990:-701.423,-325.007,-286.174,-376.532,0,-342.516 1/1:320:0,318,0:0:0:318,0:11390,0:-1024.46,-95.7275,0,-1024.46,-95.7275,-1024.46 1/1:174:0,173,0:0:0:173,0:6192,0:-556.778,-52.0782,0,-556.778,-52.0782,-556.778 1/2:156:0,82,74:0:0:82,74:2940,2630:-454.334,-214.671,-189.987,-240.02,0,-217.744 1/2:99:0,43,56:0:0:43,56:1539,1985:-287.112,-161.61,-148.666,-125.858,0,-109 1/2:72:0,52,20:0:0:52,20:1859,697:-208.599,-57.0316,-41.3781,-151.918,0,-145.897 1/1:174:0,174,0:0:0:174,0:6229,0:-560.692,-52.3792,0,-560.692,-52.3792,-560.692 1/1:67:0,67,0:0:0:67,0:2399,0:-216.166,-20.169,0,-216.166,-20.169,-216.166 chr12 25379672 . TAAAGC TAAGC 41014.8 PASS AB=0.483017;ABP=7.362;AC=30;AF=0.714286;AN=42;AO=2042;CIGAR=1M1D4M;DP=2957;DPB=2614.33;DPRA=0;EPP=4437.16;EPPR=1946.48;GTI=0;LEN=1;MEANALT=1.80952;MQM=59.903;MQMR=59.9698;NS=21;NUMALT=1;ODDS=7.6777;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=72254;QR=31546;RO=895;RPL=0;RPP=4437.16;RPPR=1946.48;RPR=2042;RUN=1;SAF=2042;SAP=4437.16;SAR=0;SRF=895;SRP=1946.48;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:116:0,116:0:0:116:4067:-366.211,-34.9195,0 1/1:95:0,94:0:0:94:3326:-299.196,-28.2968,0 0/1:93:39,53:39:1363:53:1880:-141.422,0,-94.9128 0/1:215:110,104:110:3874:104:3684:-266.801,0,-284.169 0/1:333:157,174:157:5542:174:6189:-457.169,0,-398.974 0/1:189:113,76:113:4009:76:2684:-184.912,0,-304.107 0/1:177:106,70:106:3755:70:2472:-169.49,0,-284.912 0/1:75:43,31:43:1526:31:1085:-75.4208,0,-115.104 1/1:236:0,232:0:0:232:8204:-738.031,-69.839,0 1/1:10:0,10:0:0:10:352:-32.0182,-3.0103,0 0/1:5:3,2:3:104:2:72:-5.33157,0,-8.19766 0/1:43:20,23:20:713:23:824:-61.5323,0,-51.5526 1/1:214:0,211:0:0:211:7500:-674.711,-63.5173,0 0/1:197:120,75:120:4157:75:2655:-180.152,0,-315.269 1/1:174:0,174:0:0:174:6118:-550.717,-52.3792,0 1/1:114:2,112:2:71:112:3965:-350.292,-27.5754,0 0/1:154:69,84:69:2427:84:2985:-222.465,0,-172.269 0/1:143:71,71:71:2519:71:2510:-183.032,0,-183.857 0/1:113:37,76:37:1309:76:2703:-209.498,0,-84.0955 1/1:170:4,165:4:142:165:5819:-510.662,-38.1034,0 1/1:91:1,89:1:35:89:3160:-281.143,-23.929,0 chr12 25382254 . T C 9470.04 PASS AB=0.446617;ABP=35.9318;AC=12;AF=0.285714;AN=42;AO=595;CIGAR=1X;DP=2179;DPB=2179;DPRA=1.09716;EPP=1295.04;EPPR=3388.53;GTI=0;LEN=1;MEANALT=1.07692;MQM=53.6908;MQMR=59.9103;NS=21;NUMALT=1;ODDS=15.6216;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21217;QR=56802;RO=1583;RPL=0;RPP=1295.04;RPPR=3388.53;RPR=595;RUN=1;SAF=595;SAP=1295.04;SAR=0;SRF=1583;SRP=3440.45;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:133:133,0:133:4771:0:0:0,-40.037,-429.539 0/0:114:114,0:114:4104:0:0:0,-34.3174,-369.543 0/1:145:78,67:78:2796:67:2385:-170.987,0,-208.231 0/1:94:43,51:43:1540:51:1815:-134.911,0,-110.596 0/1:141:85,56:85:3056:56:2000:-137.081,0,-232.823 0/1:125:65,60:65:2321:60:2140:-154.259,0,-171.515 0/1:216:124,92:124:4439:92:3296:-230.629,0,-334.658 0/1:114:61,53:61:2196:53:1887:-135.368,0,-163.588 0/0:150:150,0:150:5375:0:0:0,-45.1545,-483.878 0/0:34:34,0:34:1220:0:0:0,-10.235,-110.107 0/1:13:8,5:8:288:5:180:-12.5971,0,-22.3531 0/1:62:26,36:26:936:36:1296:-97.9434,0,-65.8956 0/0:63:63,0:63:2264:0:0:0,-18.9649,-204.022 0/1:114:56,57:56:2016:57:2013:-146.933,0,-147.257 0/0:86:86,0:86:3092:0:0:0,-25.8886,-278.42 0/0:76:76,0:76:2724:0:0:0,-22.8783,-245.346 0/1:74:43,31:43:1544:31:1112:-78.0078,0,-116.975 0/1:139:80,59:80:2876:59:2102:-146.833,0,-216.743 0/1:93:66,27:66:2367:27:955:-58.208,0,-185.292 0/0:127:127,0:127:4545:0:0:0,-38.2308,-409.213 0/0:66:65,1:65:2332:1:36:0,-16.2788,-206.546 chr12 25382264 . C T 9394.4 PASS AB=0.449885;ABP=31.5219;AC=12;AF=0.285714;AN=42;AO=589;CIGAR=1X;DP=2126;DPB=2126;DPRA=1.11747;EPP=1282.01;EPPR=3237.15;GTI=0;LEN=1;MEANALT=1;MQM=53.5586;MQMR=59.9245;NS=21;NUMALT=1;ODDS=16.5378;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21013;QR=54871;RO=1537;RPL=0;RPP=1282.01;RPPR=3237.15;RPR=589;RUN=1;SAF=589;SAP=1282.01;SAR=0;SRF=1537;SRP=3340.56;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:126:126,0:126:4489:0:0:0,-37.9298,-404.179 0/0:110:110,0:110:3927:0:0:0,-33.1133,-353.623 0/1:143:77,66:77:2742:66:2345:-168.013,0,-203.975 0/1:92:42,50:42:1492:50:1783:-132.636,0,-106.88 0/1:135:81,54:81:2872:54:1906:-130.756,0,-218.08 0/1:121:64,57:64:2300:57:2047:-147.027,0,-170.832 0/1:214:121,93:121:4306:93:3340:-235.036,0,-323.297 0/1:113:61,52:61:2166:52:1872:-133.246,0,-161.189 0/0:142:142,0:142:5092:0:0:0,-42.7463,-458.423 0/0:35:35,0:35:1252:0:0:0,-10.536,-112.985 0/1:13:8,5:8:284:5:180:-12.5971,0,-21.9896 0/1:64:27,37:27:968:37:1328:-100.177,0,-68.1714 0/0:59:59,0:59:2095:0:0:0,-17.7608,-188.819 0/1:114:54,60:54:1915:60:2122:-156.022,0,-138.082 0/0:85:85,0:85:3036:0:0:0,-25.5875,-273.384 0/0:73:73,0:73:2608:0:0:0,-21.9752,-234.839 0/1:70:40,30:40:1432:30:1048:-73.4698,0,-108.105 0/1:135:77,58:77:2760:58:2074:-145.451,0,-207.732 0/1:93:67,26:67:2400:26:932:-56.139,0,-188.261 0/0:125:125,0:125:4471:0:0:0,-37.6287,-402.541 0/0:64:63,1:63:2264:1:36:0,-15.6767,-200.433 chr12 25382336 . G A 9134.8 PASS AB=0.450647;ABP=29.1593;AC=13;AF=0.309524;AN=42;AO=557;CIGAR=1X;DP=2235;DPB=2235;DPRA=0.761377;EPP=1178.03;EPPR=3568.99;GTI=1;LEN=1;MEANALT=1;MQM=59.9928;MQMR=59.9785;NS=21;NUMALT=1;ODDS=9.92635;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19879;QR=59987;RO=1678;RPL=4;RPP=1178.03;RPPR=3568.99;RPR=553;RUN=1;SAF=0;SAP=1212.52;SAR=557;SRF=0;SRP=3646.74;SRR=1678;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:137:137,0:137:4892:0:0:0,-41.2411,-440.416 0/0:91:91,0:91:3264:0:0:0,-27.3937,-293.98 0/1:114:53,61:53:1900:61:2181:-162.237,0,-136.96 0/1:79:34,45:34:1212:45:1608:-121.229,0,-85.605 0/1:243:138,105:138:4918:105:3753:-264.816,0,-369.622 0/1:63:37,26:37:1328:26:924:-64.5128,0,-100.857 0/1:166:94,72:94:3363:72:2573:-181.848,0,-252.897 0/1:86:47,39:47:1684:39:1389:-99.4184,0,-125.958 0/0:195:195,0:195:6992:0:0:0,-58.7008,-629.342 0/1:8:7,1:7:248:1:36:-1.19004,0,-20.256 0/1:5:1,4:1:36:4:144:-11.8085,0,-2.09312 0/1:30:13,17:13:464:17:608:-46.0211,0,-33.0666 0/0:148:148,0:148:5289:0:0:0,-44.5524,-476.145 0/1:160:74,86:74:2648:86:3075:-228.813,0,-190.402 0/0:176:176,0:176:6285:0:0:0,-52.9813,-565.744 0/0:112:112,0:112:3999:0:0:0,-33.7154,-360.1 0/1:85:56,29:56:2000:29:1010:-65.6195,0,-154.686 0/1:78:44,34:44:1567:34:1220:-86.6265,0,-117.841 0/1:119:81,38:81:2912:38:1358:-86.6977,0,-226.492 0/0:76:76,0:76:2720:0:0:0,-22.8783,-245.043 0/0:64:64,0:64:2266:0:0:0,-19.2659,-204.202 chr12 25416568 . T C 15050.9 PASS AB=0.477364;ABP=11.8578;AC=12;AF=0.285714;AN=42;AO=951;CIGAR=1X;DP=3702;DPB=3702;DPRA=1.10538;EPP=2068.08;EPPR=5976.73;GTI=0;LEN=1;MEANALT=1;MQM=59.9937;MQMR=59.9975;NS=21;NUMALT=1;ODDS=23.4425;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33196;QR=98443;RO=2751;RPL=951;RPP=2068.08;RPPR=5976.73;RPR=0;RUN=1;SAF=951;SAP=2068.08;SAR=0;SRF=2751;SRP=5976.73;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:272:272,0:272:9732:0:0:0,-81.8802,-875.826 0/0:165:165,0:165:5923:0:0:0,-49.6699,-533.176 0/1:195:112,83:112:3994:83:2927:-204.964,0,-300.947 0/1:212:117,95:117:4193:95:3335:-236.549,0,-313.728 0/1:352:156,196:156:5580:196:6731:-499.914,0,-396.358 0/1:262:134,128:134:4801:128:4476:-324.143,0,-353.374 0/1:251:136,115:136:4876:115:4007:-285.261,0,-363.433 0/1:181:102,79:102:3656:79:2754:-193.613,0,-274.757 0/0:389:388,1:388:13868:1:36:0,-113.502,-1244.29 0/0:44:44,0:44:1571:0:0:0,-13.2453,-141.681 0/1:9:1,8:1:32:8:269:-21.8269,0,-0.490043 0/1:52:23,29:23:828:29:1024:-76.8185,0,-59.1906 0/0:166:166,0:166:5935:0:0:0,-49.971,-534.258 0/1:215:109,106:109:3894:106:3709:-269.291,0,-285.932 0/0:337:337,0:337:12046:0:0:0,-101.447,-1083.99 0/0:110:110,0:110:3938:0:0:0,-33.1133,-354.611 0/1:129:75,54:75:2683:54:1914:-133.703,0,-202.881 0/1:72:33,39:33:1184:39:1379:-102.734,0,-85.1942 0/1:58:41,17:41:1472:17:599:-36.7784,0,-115.316 0/0:172:171,1:171:6125:1:36:0,-48.1789,-547.748 0/0:59:59,0:59:2112:0:0:0,-17.7608,-190.349 chr12 25416603 . AAG CAA,CAG 47691.9 PASS AB=0.525595,0.467916;ABP=10.9024,15.4113;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1647,650;CIGAR=1X1M1X,1X2M;DP=2312;DPB=2312;DPRA=0,1.10294;EPP=3570.74,1414.47;EPPR=0;GTI=0;LEN=3,1;MEANALT=2.33333,2.76923;MQM=56.0455,56.4292;MQMR=0;NS=21;NUMALT=2;ODDS=17.6022;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=57721,23226;QR=0;RO=0;RPL=1,0;RPP=3570.74,1414.47;RPPR=0;RPR=1646,650;RUN=1,1;SAF=0,0;SAP=3579.43,1414.47;SAR=1647,650;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:120:0,119,0:0:0:119,0:4155,0:-373.212,-35.8226,0,-373.212,-35.8226,-373.212 1/1:87:0,86,0:0:0:86,0:3054,0:-274.472,-25.8886,0,-274.472,-25.8886,-274.472 1/2:103:0,44,59:0:0:44,59:1552,2120:-299.375,-173.101,-159.856,-126.628,0,-108.867 1/2:148:0,81,66:0:0:81,66:2860,2367:-425.046,-192.919,-168.535,-232.133,0,-212.265 1/2:248:0,122,125:0:0:122,125:4255,4484:-710.175,-364.873,-328.148,-345.45,0,-307.821 1/2:127:0,46,79:0:0:46,79:1596,2840:-360.954,-231.565,-217.717,-129.388,0,-105.607 1/2:174:0,90,84:0:0:90,84:3174,2981:-501.169,-243.018,-215.925,-258.504,0,-233.217 1/2:50:0,23,27:0:0:23,27:828,960:-145.98,-78.4523,-71.5286,-67.8855,0,-59.7577 1/1:212:0,211,0:0:0:211,0:7392,0:-663.807,-63.5173,0,-663.807,-63.5173,-663.807 1/1:17:0,17,0:0:0:17,0:571,0:-51.6129,-5.11751,0,-51.6129,-5.11751,-51.6129 1/2:6:0,2,4:0:0:2,4:72,144:-17.9089,-12.0352,-11.4332,-6.23275,0,-5.02863 1/2:41:0,18,22:0:0:18,22:632,786:-115.163,-63.752,-58.3335,-51.4046,0,-44.782 1/1:131:0,130,0:0:0:130,0:4512,0:-405.307,-39.1339,0,-405.307,-39.1339,-405.307 1/2:95:0,53,41:0:0:53,41:1886,1455:-271.575,-118.187,-102.232,-153.47,0,-141.128 1/1:102:0,102,0:0:0:102,0:3590,0:-322.697,-30.7051,0,-322.697,-30.7051,-322.697 1/1:105:0,105,0:0:0:105,0:3687,0:-331.703,-31.6082,0,-331.703,-31.6082,-331.703 1/2:174:0,103,70:0:0:103,70:3618,2482:-496.576,-202.327,-171.321,-294.432,0,-273.36 1/2:126:0,76,50:0:0:76,50:2661,1779:-361.343,-145.2,-122.321,-216.497,0,-201.445 1/2:95:0,71,22:0:0:71,22:2468,792:-264.729,-64.6122,-43.2391,-200.151,0,-193.528 1/1:97:0,95,1:0:0:95,1:3299,36:-296.403,-28.5979,0,-293.466,-25.662,-293.165 1/1:54:0,53,0:0:0:53,0:1859,0:-167.015,-15.9546,0,-167.015,-15.9546,-167.015 chr12 25416622 . G A 11021.4 PASS AB=0.477143;ABP=9.36341;AC=12;AF=0.285714;AN=42;AO=669;CIGAR=1X;DP=2316;DPB=2316;DPRA=1.1227;EPP=1455.73;EPPR=3562.07;GTI=0;LEN=1;MEANALT=1;MQM=56.2332;MQMR=55.9939;NS=21;NUMALT=1;ODDS=16.748;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23922;QR=58977;RO=1647;RPL=669;RPP=1455.73;RPPR=3562.07;RPR=0;RUN=1;SAF=0;SAP=1455.73;SAR=669;SRF=0;SRP=3579.43;SRR=1647;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:117:117,0:117:4179:0:0:0,-35.2205,-375.345 0/0:87:87,0:87:3128:0:0:0,-26.1896,-281.324 0/1:103:43,60:43:1548:60:2156:-163.092,0,-108.506 0/1:150:82,68:82:2936:68:2410:-171.757,0,-218.197 0/1:253:124,129:124:4456:129:4602:-337.202,0,-322.928 0/1:128:46,82:46:1652:82:2952:-227.101,0,-109.278 0/1:174:89,85:89:3195:85:3037:-220.898,0,-235.102 0/1:51:24,27:24:864:27:972:-72.2669,0,-62.6252 0/0:211:211,0:211:7511:0:0:0,-63.5173,-674.008 0/0:17:17,0:17:612:0:0:0,-5.11751,-55.3025 0/1:6:2,4:2:72:4:144:-11.4332,0,-5.02863 0/1:42:19,23:19:667:23:820:-61.0494,0,-47.6868 0/0:130:130,0:130:4655:0:0:0,-39.1339,-418.369 0/1:93:52,41:52:1868:41:1448:-101.116,0,-140.079 0/0:99:99,0:99:3564:0:0:0,-29.802,-320.315 0/0:105:105,0:105:3760:0:0:0,-31.6081,-338.127 0/1:175:101,74:101:3623:74:2660:-185.17,0,-273.435 0/1:127:76,51:76:2732:51:1821:-125.793,0,-207.52 0/1:98:74,24:74:2635:24:864:-48.5032,0,-207.256 0/0:96:95,1:95:3384:1:36:0,-25.3023,-300.68 0/0:54:54,0:54:1936:0:0:0,-16.2556,-174.257 chr12 25436276 . TCT TCCT 7979.66 PASS AB=0.477426;ABP=7.61816;AC=11;AF=0.261905;AN=42;AO=500;CIGAR=1M1I2M;DP=1914;DPB=2080.67;DPRA=1.13882;EPP=1088.75;EPPR=3069.13;GTI=0;LEN=1;MEANALT=1.08333;MQM=59.482;MQMR=59.7472;NS=21;NUMALT=1;ODDS=9.78642;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17622;QR=49863;RO=1412;RPL=0;RPP=1088.75;RPPR=3069.13;RPR=500;RUN=1;SAF=500;SAP=1088.75;SAR=0;SRF=1412;SRP=3069.13;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:113:110,3:110:3909:3:104:0,-24.3142,-342.203 0/0:43:43,0:43:1530:0:0:0,-12.9443,-137.988 0/1:91:48,43:48:1707:43:1513:-109.067,0,-126.5 0/1:59:30,28:30:1070:28:979:-70.6028,0,-78.7922 0/1:192:107,85:107:3814:85:3016:-213.848,0,-284.637 0/1:67:32,35:32:1126:35:1229:-90.4754,0,-81.4772 0/1:188:102,86:102:3555:86:3029:-216.15,0,-263.338 0/1:117:57,60:57:2018:60:2109:-154.502,0,-146.657 0/0:210:210,0:210:7402:0:0:0,-63.2163,-666.189 0/0:18:18,0:18:636:0:0:0,-5.41854,-57.5677 0/0:6:6,0:6:216:0:0:0,-1.80618,-19.7905 0/1:21:11,10:11:386:10:360:-26.4211,0,-28.7534 0/0:86:86,0:86:3061:0:0:0,-25.8886,-275.027 0/1:114:61,53:61:2080:53:1892:-136.231,0,-153.134 0/0:229:229,0:229:8113:0:0:0,-68.9359,-730.177 0/0:48:48,0:48:1690:0:0:0,-14.4494,-152.384 0/1:71:23,48:23:816:48:1689:-130.921,0,-52.3882 0/1:82:49,33:49:1734:33:1172:-81.0949,0,-131.654 0/1:39:23,16:23:799:16:530:-36.272,0,-60.4873 0/0:75:74,0:74:2602:0:0:0,-22.2762,-234.215 0/0:45:45,0:45:1599:0:0:0,-13.5463,-144.177 chr12 25436307 . TTT GTC,TTC 40229.6 PASS AB=0.502347,0.494836;ABP=3.06127,3.25701;AC=31,11;AF=0.738095,0.261905;AN=42;AO=1397,530;CIGAR=1X1M1X,2M1X;DP=1932;DPB=1934.33;DPRA=0,1.16921;EPP=3036.56,1145.22;EPPR=0;GTI=0;LEN=3,1;MEANALT=1.7619,2.25;MQM=59.7903,59.5585;MQMR=0;NS=21;NUMALT=2;ODDS=6.68423;PAIRED=0,0;PAIREDR=0;PAO=4,2.5;PQA=138,70;PQR=0;PRO=0.5;QA=49000,18811;QR=0;RO=0;RPL=1397,529;RPP=3036.56,1145.22;RPPR=0;RPR=0,1;RUN=1,1;SAF=1397,530;SAP=3036.56,1153.89;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,108,3:0:0:108,3:3800,108:-341.709,-32.5112,0,-332.897,-23.6998,-331.994 1/1:43:0,43,0:0:0:43,0:1530,0:-137.984,-12.9443,0,-137.984,-12.9443,-137.984 1/2:91:0,47,43:0:0:47,43:1626,1540:-257.801,-125.676,-111.528,-132.205,0,-119.26 1/2:57:0,29,28:0:0:29,28:1011,981:-162.392,-80.1722,-71.4423,-82.5691,0,-74.1402 1/2:194:0,105,89:0:0:105,89:3700,3174:-559.954,-258.91,-227.302,-301.28,0,-274.489 1/2:70:0,32,36:0:0:32,36:1144,1275:-197.068,-103.787,-94.1537,-93.2976,0,-82.4605 1/2:189:0,99,90:0:0:99,90:3399,3183:-535.267,-259.321,-229.519,-276.294,0,-249.202 1/2:116:0,56,60:0:0:56,60:1970,2136:-333.773,-173.41,-156.553,-160.715,0,-142.654 1/1:206:0,206,0:0:0:206,0:7290,0:-655.712,-62.0122,0,-655.712,-62.0122,-655.712 1/1:18:0,18,0:0:0:18,0:643,0:-58.2005,-5.41854,0,-58.2005,-5.41854,-58.2005 1/1:6:0,6,0:0:0:6,0:208,0:-19.0585,-1.80618,0,-19.0585,-1.80618,-19.0585 1/2:25:0,11,14:0:0:11,14:394,485:-71.8983,-39.761,-36.4496,-32.4902,0,-28.2758 1/1:87:0,86,0:0:0:86,0:2988,0:-268.493,-25.8886,0,-268.493,-25.8886,-268.493 1/2:117:0,61,56:0:0:61,56:2144,1982:-336.282,-161.786,-143.423,-174.849,0,-157.991 1/1:228:0,228,0:0:0:228,0:7997,0:-719.74,-68.6348,0,-719.74,-68.6348,-719.74 1/1:47:0,47,0:0:0:47,0:1643,0:-148.153,-14.1484,0,-148.153,-14.1484,-148.153 1/2:79:0,23,56:0:0:23,56:811,2000:-229.448,-163.416,-156.492,-66.3865,0,-49.5289 1/2:83:0,49,34:0:0:49,34:1708,1199:-236.874,-97.9779,-83.2274,-139.247,0,-129.012 1/2:44:0,23,21:0:0:23,21:798,748:-126.181,-61.3209,-54.3972,-65.2115,0,-58.8899 1/1:75:0,75,0:0:0:75,0:2626,0:-236.588,-22.5773,0,-236.588,-22.5773,-236.588 1/1:45:0,45,0:0:0:45,0:1570,0:-141.584,-13.5464,0,-141.584,-13.5464,-141.584 chr12 25444096 . TGGTT GGGTC,GGGTT 51659.5 PASS AB=0.513661,0.477459;ABP=5.38349,9.47132;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1745,705;CIGAR=1X3M1X,1X4M;DP=2472;DPB=2472.4;DPRA=0,1.14984;EPP=3637.5,1533.9;EPPR=5.18177;GTI=0;LEN=5,1;MEANALT=2.57143,2.86667;MQM=59.157,60;MQMR=60;NS=21;NUMALT=2;ODDS=12.4075;PAIRED=0,0;PAIREDR=0;PAO=1,1;PQA=18,18;PQR=0;PRO=0;QA=61243,25099;QR=36;RO=1;RPL=1727,705;RPP=3637.5,1533.9;RPPR=5.18177;RPR=18,0;RUN=1,1;SAF=1745,705;SAP=3792.23,1533.9;SAR=0,0;SRF=1;SRP=5.18177;SRR=0;TYPE=complex,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:86:0,86,0:0:0:86,0:3046,0:-274.116,-25.8886,0,-274.116,-25.8886,-274.116 1/1:118:0,117,0:0:0:117,0:4099,0:-368.535,-35.2205,0,-368.535,-35.2205,-368.535 1/2:161:0,79,81:0:0:79,81:2776,2891:-461.183,-235.683,-211.901,-225.494,0,-201.111 1/2:149:0,88,59:0:0:88,59:3106,2096:-423.679,-170.835,-144.345,-252.887,0,-235.126 1/2:254:0,80,172:0:0:80,172:2760,6094:-720.335,-496.471,-472.389,-223.895,0,-172.118 1/2:133:0,63,69:0:0:63,69:2219,2476:-382.596,-202.104,-183.14,-180.628,0,-159.857 1/2:174:0,108,60:0:0:108,60:3842,2152:-488.553,-175.535,-143.024,-313.025,0,-294.963 1/2:151:1,81,69:1:36:81,69:2805,2467:-425.774,-198.215,-176.769,-224.914,0,-207.081 1/1:198:0,195,0:0:0:195,0:6807,0:-612.189,-58.7009,0,-612.189,-58.7009,-612.189 1/1:25:0,24,0:0:0:24,0:857,0:-77.1035,-7.22472,0,-77.1035,-7.22472,-77.1035 1/2:6:0,1,5:0:0:1,5:36,180:-17.9843,-15.0469,-14.7459,-3.29724,0,-1.79209 1/2:28:0,18,10:0:0:18,10:626,360:-80.5351,-29.6798,-24.2613,-51.1577,0,-48.1474 1/1:155:0,155,0:0:0:155,0:5450,0:-490.35,-46.6597,0,-490.35,-46.6597,-490.35 1/2:146:0,87,59:0:0:87,59:3030,2104:-418.134,-171.869,-145.679,-246.618,0,-228.858 1/1:169:0,168,1:0:0:168,1:5926,36:-532.909,-50.573,0,-529.972,-47.2758,-529.671 1/1:59:0,57,1:0:0:57,1:1992,36:-179.173,-17.1587,0,-176.235,-14.1964,-175.934 1/2:68:0,49,19:0:0:49,19:1723,680:-196.011,-55.8096,-41.0591,-140.558,0,-134.838 1/2:120:0,54,66:0:0:54,66:1876,2320:-341.586,-189.191,-172.936,-152.744,0,-132.876 1/2:74:0,44,30:0:0:44,30:1561,1063:-214.07,-86.9499,-73.7046,-127.474,0,-118.443 1/1:142:0,135,4:0:0:135,4:4737,144:-425.287,-40.6391,0,-413.537,-28.8765,-412.332 1/1:56:0,56,0:0:0:56,0:1969,0:-177.038,-16.8577,0,-177.038,-16.8577,-177.038 chr12 25444237 . A T,C 35952.1 PASS AB=0.503435,0.495584;ABP=3.11472,3.18291;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1191,507;CIGAR=1X,1X;DP=1700;DPB=1700;DPRA=0,1.26349;EPP=2589.23,1103.95;EPPR=7.35324;GTI=0;LEN=1,1;MEANALT=1.66667,2;MQM=59.9421,59.9783;MQMR=60;NS=21;NUMALT=2;ODDS=6.71125;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=42552,18129;QR=72;RO=2;RPL=1191,507;RPP=2589.23,1103.95;RPPR=7.35324;RPR=0,0;RUN=1,1;SAF=0,0;SAP=2589.23,1103.95;SAR=1191,507;SRF=0;SRP=7.35324;SRR=2;TYPE=snp,snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:1,58,0:1:36:58,0:2084,0:-184.229,-14.1625,0,-184.53,-17.4597,-187.468 1/1:44:0,44,0:0:0:44,0:1559,0:-140.602,-13.2453,0,-140.602,-13.2453,-140.602 1/2:67:0,33,34:0:0:33,34:1188,1224:-197.167,-100.232,-90.298,-97.2946,0,-87.0596 1/2:86:0,38,48:0:0:38,48:1360,1724:-251.897,-140.996,-129.557,-111.259,0,-96.8097 1/2:162:0,66,96:0:0:66,96:2368,3444:-474.425,-281.273,-261.405,-193.51,0,-164.611 1/2:101:0,63,38:0:0:63,38:2260,1342:-293.98,-109.638,-90.6729,-184.698,0,-173.259 1/2:142:1,71,70:1:36:71,70:2525,2508:-407.072,-201.603,-183.167,-202.83,0,-184.695 1/2:113:0,40,73:0:0:40,73:1417,2608:-328.4,-212.976,-200.934,-115.78,0,-93.8044 1/1:176:0,176,0:0:0:176,0:6290,0:-566.191,-52.9813,0,-566.191,-52.9813,-566.191 1/1:6:0,6,0:0:0:6,0:216,0:-19.7905,-1.80618,0,-19.7905,-1.80618,-19.7905 1/2:7:0,1,6:0:0:1,6:36,216:-20.9217,-17.9843,-17.6833,-3.29724,0,-1.49106 1/2:14:0,10,4:0:0:10,4:360,144:-41.4837,-12.1095,-9.0992,-29.734,0,-28.5299 1/1:77:0,77,0:0:0:77,0:2756,0:-248.196,-23.1793,0,-248.196,-23.1793,-248.196 1/2:80:0,53,27:0:0:53,27:1870,968:-231.574,-79.3096,-63.355,-152.621,0,-144.493 1/1:115:0,114,1:0:0:114,1:4068,32:-365.494,-34.3174,0,-362.916,-31.4191,-362.615 1/1:80:0,80,0:0:0:80,0:2846,0:-256.375,-24.0824,0,-256.375,-24.0824,-256.375 1/2:72:0,31,41:0:0:31,41:1112,1476:-211.494,-120.794,-111.462,-91.0594,0,-78.7172 1/2:89:0,52,37:0:0:52,37:1872,1310:-259.812,-107.063,-91.4097,-153.106,0,-141.967 1/2:86:0,55,31:0:0:55,31:1968,1097:-250.189,-89.7061,-73.1494,-160.838,0,-151.506 1/1:84:0,83,1:0:0:83,1:2957,36:-266.003,-24.9855,0,-263.065,-21.6882,-262.764 1/1:40:0,40,0:0:0:40,0:1440,0:-129.898,-12.0412,0,-129.898,-12.0412,-129.898 chr12 25447091 . A C 32712.6 PASS AB=0.498216;ABP=3.04905;AC=30;AF=0.714286;AN=42;AO=1612;CIGAR=1X;DP=2322;DPB=2322;DPRA=0;EPP=3503.42;EPPR=1419.05;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9597;MQMR=38.7893;NS=21;NUMALT=1;ODDS=16.2257;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57489;QR=25334;RO=707;RPL=0;RPP=3503.42;RPPR=1419.05;RPR=1612;RUN=1;SAF=0;SAP=3503.42;SAR=1612;SRF=0;SRP=1538.24;SRR=707;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:107:0,107:0:0:107:3803:-342.458,-32.2102,0 1/1:127:0,127:0:0:127:4532:-408.042,-38.2308,0 0/1:101:44,57:44:1584:57:2039:-153.375,0,-106.867 0/1:162:83,79:83:2967:79:2827:-205.902,0,-206.261 0/1:302:178,124:178:6392:124:4425:-307.51,0,-456.504 0/1:135:72,63:72:2571:63:2245:-161.665,0,-170.44 0/1:205:94,111:94:3380:111:3939:-292.98,0,-215.988 0/1:36:10,26:10:360:26:917:-72.0075,0,-19.9901 1/1:197:0,197:0:0:197:7014:-631.315,-59.3029,0 1/1:22:0,22:0:0:22:788:-71.2448,-6.62266,0 0/1:12:6,6:6:216:6:216:-16.1782,0,-15.0451 0/1:35:21,14:21:756:14:504:-35.162,0,-51.8551 1/1:115:2,112:2:68:112:4011:-354.906,-28.406,0 0/1:118:63,55:63:2248:55:1968:-141.874,0,-157.427 1/1:102:0,102:0:0:102:3648:-328.525,-30.7051,0 1/1:86:1,83:1:32:83:2969:-264.253,-22.4584,0 0/1:134:68,66:68:2436:66:2359:-172.23,0,-171.268 0/1:83:45,38:45:1608:38:1355:-97.2642,0,-110.351 0/1:78:19,59:19:680:59:2120:-167.588,0,-34.3224 1/1:118:1,117:1:36:117:4161:-371.071,-31.9233,0 1/1:47:0,47:0:0:47:1649:-148.694,-14.1484,0 chr12 25447101 . G C 10378.8 PASS AB=0.499638;ABP=3.01187;AC=12;AF=0.285714;AN=42;AO=694;CIGAR=1X;DP=2309;DPB=2309;DPRA=1.09461;EPP=1510.01;EPPR=3415.04;GTI=0;LEN=1;MEANALT=1;MQM=38.7896;MQMR=59.9127;NS=21;NUMALT=1;ODDS=17.2879;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24824;QR=57561;RO=1615;RPL=694;RPP=1510.01;RPPR=3415.04;RPR=0;RUN=1;SAF=0;SAP=1510.01;SAR=694;SRF=0;SRP=3509.94;SRR=1615;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:107:107,0:107:3828:0:0:0,-32.2102,-344.711 0/0:128:128,0:128:4547:0:0:0,-38.5318,-409.399 0/1:102:58,44:58:2056:44:1576:-105.92,0,-154.602 0/1:158:76,82:76:2716:82:2944:-204.703,0,-197.121 0/1:301:125,176:125:4433:176:6302:-449.825,0,-308.519 0/1:129:60,69:60:2156:69:2476:-163.478,0,-155.466 0/1:198:110,88:110:3928:88:3147:-199.61,0,-294.102 0/1:39:28,11:28:995:11:396:-22.1358,0,-78.1238 0/0:195:195,0:195:6983:0:0:0,-58.7008,-628.299 0/0:22:22,0:22:780:0:0:0,-6.62266,-70.523 0/1:12:6,6:6:216:6:216:-15.0451,0,-16.1782 0/1:37:15,22:15:532:22:765:-52.5373,0,-37.075 0/0:115:113,2:113:4013:2:72:0,-28.0549,-354.626 0/1:115:53,62:53:1884:62:2212:-155.42,0,-135.22 0/0:102:102,0:102:3657:0:0:0,-30.7051,-329.331 0/0:87:86,1:86:3056:1:36:0,-22.6869,-271.766 0/1:134:66,68:66:2331:68:2427:-170.815,0,-169.709 0/1:80:37,43:37:1328:43:1535:-105.139,0,-95.7398 0/1:78:58,20:58:2067:20:720:-37.72,0,-162.82 0/0:123:123,0:123:4375:0:0:0,-37.0267,-393.925 0/0:47:47,0:47:1680:0:0:0,-14.1484,-151.487 chr12 25447110 . CGGGAGCAGGA CA 8298.54 PASS AB=0.459377;ABP=21.8874;AC=12;AF=0.285714;AN=42;AO=607;CIGAR=1M9D1M;DP=2251;DPB=1754.09;DPRA=1.08012;EPP=1321.09;EPPR=3512.11;GTI=0;LEN=9;MEANALT=2.07692;MQM=38.486;MQMR=59.9542;NS=21;NUMALT=1;ODDS=9.78766;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21058;QR=56579;RO=1616;RPL=607;RPP=1321.09;RPPR=3512.11;RPR=0;RUN=1;SAF=0;SAP=1321.09;SAR=607;SRF=0;SRP=3512.11;SRR=1616;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 0/0:109:106,0:106:3719:0:0:0,-31.9092,-334.555 0/0:129:127,0:127:4470:0:0:0,-38.2308,-402.133 0/1:98:55,41:55:1941:41:1456:-97.1219,0,-145.709 0/1:150:78,70:78:2711:70:2457:-166.22,0,-199.346 0/1:282:121,155:121:4184:155:5349:-377.381,0,-293.311 0/1:127:62,63:62:2154:63:2163:-139.816,0,-156.156 0/1:200:111,87:111:3896:87:2994:-188.803,0,-290.88 0/1:38:28,10:28:976:10:352:-18.8696,0,-76.7135 0/0:200:198,0:198:6948:0:0:0,-59.6039,-625.109 0/0:23:23,0:23:798:0:0:0,-6.92369,-72.1383 0/1:10:6,4:6:211:4:144:-9.19609,0,-16.3232 0/1:34:15,19:15:523:19:653:-44.6854,0,-37.1637 0/0:117:114,2:114:3999:2:68:0,-29.0081,-353.817 0/1:101:55,46:55:1914:46:1597:-108.571,0,-142.134 0/0:103:102,0:102:3607:0:0:0,-30.7051,-324.482 0/0:86:83,0:83:2928:0:0:0,-24.9855,-263.399 0/1:129:68,60:68:2389:60:2071:-141.83,0,-176.379 0/1:72:39,33:39:1338:33:1164:-76.7877,0,-99.0405 0/1:76:59,17:59:2046:17:590:-27.2999,0,-161.534 0/0:120:119,0:119:4174:0:0:0,-35.8226,-375.494 0/0:47:47,0:47:1653:0:0:0,-14.1484,-149.059 chr12 25447324 . T C 15956 PASS AB=0.463357;ABP=27.6768;AC=12;AF=0.285714;AN=42;AO=983;CIGAR=1X;DP=3741;DPB=3741;DPRA=1.10392;EPP=2137.57;EPPR=5989.76;GTI=0;LEN=1;MEANALT=1.06667;MQM=59.94;MQMR=59.9884;NS=21;NUMALT=1;ODDS=36.3369;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34963;QR=98758;RO=2757;RPL=983;RPP=2137.57;RPPR=5989.76;RPR=0;RUN=1;SAF=983;SAP=2137.57;SAR=0;SRF=2757;SRP=5989.76;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:247:247,0:247:8859:0:0:0,-74.3544,-797.292 0/0:195:195,0:195:6973:0:0:0,-58.7008,-627.634 0/1:198:96,102:96:3448:102:3648:-268.921,0,-250.928 0/1:143:84,59:84:3020:59:2112:-147.302,0,-228.983 0/1:381:181,200:181:6474:200:7146:-528.31,0,-467.683 0/1:180:97,83:97:3480:83:2959:-212.357,0,-259.225 0/1:272:160,112:160:5744:112:3933:-272.283,0,-435.194 0/1:167:95,72:95:3385:72:2559:-180.284,0,-254.593 0/0:307:307,0:307:10988:0:0:0,-92.4162,-988.813 0/0:27:27,0:27:972:0:0:0,-8.12781,-87.7979 0/1:26:11,15:11:396:15:536:-40.748,0,-28.156 0/1:56:22,34:22:792:34:1224:-93.6094,0,-54.748 0/0:178:177,1:177:6356:1:36:0,-49.9851,-568.525 0/1:231:137,94:137:4907:94:3332:-230.56,0,-372.242 0/0:250:248,1:248:8892:1:36:0,-71.718,-796.663 0/0:123:123,0:123:4411:0:0:0,-37.0267,-397.161 0/1:141:71,70:71:2541:70:2477:-180.737,0,-186.494 0/1:185:85,100:85:3048:100:3529:-262.131,0,-218.859 0/1:135:96,39:96:3407:39:1400:-85.6601,0,-266.207 0/0:203:202,1:202:7221:1:36:0,-57.5108,-646.345 0/0:96:96,0:96:3444:0:0:0,-28.8989,-310.172 chr12 25447339 . T C 55728.6 PASS AB=0.542625;ABP=35.9609;AC=30;AF=0.714286;AN=42;AO=2749;CIGAR=1X;DP=3709;DPB=3709;DPRA=0;EPP=5972.39;EPPR=2078.94;GTI=0;LEN=1;MEANALT=1.19048;MQM=59.9873;MQMR=60;NS=21;NUMALT=1;ODDS=38.1468;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=96777;QR=34014;RO=956;RPL=2749;RPP=5972.39;RPPR=2078.94;RPR=0;RUN=1;SAF=2749;SAP=5972.39;SAR=0;SRF=956;SRP=2078.94;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:249:0,248:0:0:248:8725:-784.89,-74.6554,0 1/1:191:0,191:0:0:191:6724:-605.24,-57.4967,0 0/1:195:99,96:99:3527:96:3379:-245.624,0,-258.939 0/1:141:57,84:57:2015:84:2981:-225.918,0,-139.178 0/1:378:195,182:195:6905:182:6337:-456.693,0,-507.784 0/1:182:80,102:80:2859:102:3587:-268.252,0,-202.76 0/1:267:109,158:109:3903:158:5510:-415.657,0,-271.088 0/1:161:70,91:70:2476:91:3239:-243.264,0,-174.627 1/1:307:0,306:0:0:306:10793:-970.925,-92.1152,0 1/1:27:0,27:0:0:27:942:-85.0923,-8.12781,0 0/1:24:13,11:13:459:11:388:-28.0326,0,-34.4194 0/1:57:35,22:35:1256:22:790:-54.2666,0,-96.1866 1/1:176:1,174:1:36:174:6094:-544.966,-49.4418,0 0/1:225:89,136:89:3187:136:4792:-363.709,0,-219.321 1/1:247:0,247:0:0:247:8685:-781.653,-74.3544,0 1/1:126:0,126:0:0:126:4485:-403.819,-37.9298,0 0/1:141:69,72:69:2443:72:2545:-186.856,0,-177.678 0/1:186:102,84:102:3616:84:2977:-212.173,0,-269.655 0/1:131:36,95:36:1296:95:3368:-263.904,0,-77.509 1/1:205:1,204:1:36:204:7161:-640.954,-58.1129,0 1/1:93:0,93:0:0:93:3275:-294.971,-27.9958,0 chr12 25447377 . AT CT,CA 130686 PASS AB=0.512972,0.484277;ABP=6.72843,8.47312;AC=30,12;AF=0.714286,0.285714;AN=42;AO=3603,1236;CIGAR=1X1M,2X;DP=4849;DPB=4849;DPRA=0,1.16862;EPP=496.624,267.494;EPPR=6.91895;GTI=0;LEN=1,2;MEANALT=1.85714,2.21429;MQM=59.9767,59.9118;MQMR=60;NS=21;NUMALT=2;ODDS=9.2982;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=128595,43629;QR=172;RO=5;RPL=1349,424;RPP=496.624,267.494;RPPR=6.91895;RPR=2254,812;RUN=1,1;SAF=0,0;SAP=7826.83,2686.95;SAR=3603,1236;SRF=0;SRP=13.8677;SRR=5;TYPE=snp,mnp GT:DP:AD:RO:QR:AO:QA:GL 1/1:268:0,267,0:0:0:267,0:9519,0:-856.306,-80.375,0,-856.306,-80.375,-856.306 1/1:232:0,232,0:0:0:232,0:8321,0:-748.894,-69.839,0,-748.894,-69.839,-748.894 1/2:191:0,97,94:0:0:97,94:3462,3347:-555.381,-273.148,-243.948,-282.589,0,-254.292 1/2:507:0,253,252:0:0:253,252:9009,8941:-1462.35,-728.121,-651.96,-734.261,0,-658.402 1/2:457:0,239,218:0:0:239,218:8547,7597:-1314.97,-618.044,-546.098,-697.278,0,-631.653 1/2:208:3,113,91:3:108:113,91:4045,3225:-582.85,-253.907,-228.703,-321.03,0,-302.448 1/2:214:0,91,123:0:0:91,123:3238,4356:-619.078,-355.188,-327.794,-264.246,0,-227.219 1/2:169:0,77,92:0:0:77,92:2742,3248:-488.254,-264.769,-241.59,-223.84,0,-196.145 1/1:364:1,363,0:1:28:363,0:12844,0:-1152.96,-106.775,0,-1153.26,-109.274,-1155.48 1/1:14:0,14,0:0:0:14,0:504,0:-45.6981,-4.21442,0,-45.6981,-4.21442,-45.6981 1/2:10:0,5,5:0:0:5,5:176,169:-28.3714,-14.0364,-12.5312,-14.6799,0,-13.1747 1/2:57:0,27,30:0:0:27,30:972,1067:-166.622,-87.31,-79.1822,-79.6701,0,-70.6392 1/1:583:1,580,2:1:36:580,2:20727,61:-1861.34,-171.642,0,-1856.76,-169.748,-1859.09 1/2:218:0,120,98:0:0:120,98:4269,3498:-633.434,-285.529,-249.405,-348.261,0,-318.76 1/1:308:0,308,0:0:0:308,0:11024,0:-992.047,-92.7172,0,-992.047,-92.7172,-992.047 1/1:186:0,186,0:0:0:186,0:6664,0:-599.835,-55.9916,0,-599.835,-55.9916,-599.835 1/2:187:0,82,105:0:0:82,105:2925,3659:-536.35,-297.904,-273.22,-238.799,0,-207.191 1/2:142:0,71,71:0:0:71,71:2538,2511:-411.81,-204.867,-183.494,-207.298,0,-185.925 1/2:184:0,130,53:0:0:130,53:4671,1878:-534.038,-152.978,-113.845,-381.056,0,-365.101 1/1:269:0,267,2:0:0:267,2:9491,72:-853.787,-80.375,0,-847.912,-74.1403,-847.31 1/1:81:0,81,0:0:0:81,0:2907,0:-261.864,-24.3834,0,-261.864,-24.3834,-261.864 chr12 25457817 . G C 11393.9 PASS AB=0.473467;ABP=11.8833;AC=12;AF=0.285714;AN=42;AO=687;CIGAR=1X;DP=2411;DPB=2411;DPRA=1.13359;EPP=1477.49;EPPR=3688.18;GTI=0;LEN=1;MEANALT=1.08333;MQM=60;MQMR=59.9977;NS=21;NUMALT=1;ODDS=17.9459;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=24472;QR=61072;RO=1721;RPL=685;RPP=1477.49;RPPR=3688.18;RPR=2;RUN=1;SAF=0;SAP=1494.81;SAR=687;SRF=0;SRP=3740.11;SRR=1721;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:115:115,0:115:4077:0:0:0,-34.6184,-367.118 0/0:136:136,0:136:4806:0:0:0,-40.9401,-432.699 0/1:172:96,76:96:3400:76:2708:-192.185,0,-254.438 0/1:107:58,49:58:2084:49:1748:-125.393,0,-155.62 0/1:156:78,78:78:2800:78:2792:-204.56,0,-205.279 0/1:327:177,150:177:6305:150:5360:-384.094,0,-469.108 0/1:120:59,61:59:2099:61:2184:-160.702,0,-153.055 0/1:157:79,78:79:2831:78:2779:-203.089,0,-207.766 0/0:165:164,0:164:5817:0:0:0,-49.3689,-523.429 0/0:26:26,0:26:920:0:0:0,-7.82678,-83.1171 0/1:7:3,4:3:104:4:144:-11.2064,0,-7.5956 0/1:70:31,39:31:1104:39:1404:-105.587,0,-78.5985 0/0:93:93,0:93:3319:0:0:0,-27.9958,-298.927 0/1:125:71,54:71:2341:54:1864:-130.408,0,-173.315 0/0:188:188,0:188:6727:0:0:0,-56.5936,-605.502 0/0:70:70,0:70:2468:0:0:0,-21.0721,-222.373 0/1:73:33,39:33:1167:39:1392:-103.691,0,-83.448 0/1:72:33,39:33:1180:39:1396:-104.265,0,-84.8339 0/1:65:45,20:45:1604:20:701:-43.8448,0,-125.083 0/0:115:115,0:115:4095:0:0:0,-34.6184,-368.737 0/0:52:51,0:51:1824:0:0:0,-15.3525,-164.166 chr12 25476439 . G A 54546.6 PASS AB=0.570478;ABP=74.3273;AC=30;AF=0.714286;AN=42;AO=2248;CIGAR=1X;DP=2960;DPB=2960;DPRA=0;EPP=4884.48;EPPR=1544.76;GTI=0;LEN=1;MEANALT=1.09524;MQM=40.2843;MQMR=58.8761;NS=21;NUMALT=1;ODDS=22.5102;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=80057;QR=25082;RO=710;RPL=1109;RPP=3.87966;RPPR=7.42665;RPR=1139;RUN=1;SAF=1109;SAP=3.87966;SAR=1139;SRF=336;SRP=7.42665;SRR=374;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:139:0,139:0:0:139:4946:-410.417,-41.8432,0 1/1:149:0,149:0:0:149:5277:-421.363,-44.8535,0 0/1:126:72,54:72:2535:54:1923:-117.202,0,-190.283 0/1:153:68,85:68:2419:85:3029:-215.299,0,-171.852 0/1:284:122,161:122:4346:161:5746:-402.932,0,-305.598 0/1:101:42,59:42:1491:59:2088:-137.496,0,-103.894 0/1:173:67,106:67:2342:106:3716:-245.037,0,-158.632 0/1:153:49,104:49:1743:104:3719:-257.514,0,-111.007 1/1:234:1,233:1:27:233:8306:-705.535,-67.7453,0 1/1:32:0,32:0:0:32:1144:-85.6603,-9.63296,0 0/1:13:7,6:7:240:6:216:-13.9108,0,-18.0177 0/1:87:46,41:46:1594:41:1456:-92.6774,0,-117.51 1/1:169:0,169:0:0:169:6026:-511.878,-50.8741,0 0/1:157:72,84:72:2526:84:3008:-203.723,0,-179.08 1/1:204:0,204:0:0:204:7280:-613.942,-61.4101,0 1/1:113:0,113:0:0:113:4037:-349.367,-34.0164,0 0/1:71:36,35:36:1292:35:1247:-83.954,0,-94.993 0/1:174:81,93:81:2869:93:3301:-212.477,0,-204.874 0/1:161:46,115:46:1631:115:4114:-293.653,0,-98.6108 1/1:161:0,161:0:0:161:5764:-491.407,-48.4658,0 1/1:106:1,105:1:27:105:3714:-295.897,-29.2199,0 chr12 25476493 . G A 17954.1 PASS AB=0.580499;ABP=52.6538;AC=30;AF=0.714286;AN=42;AO=1125;CIGAR=1X;DP=1496;DPB=1496;DPRA=0;EPP=2445.92;EPPR=808.627;GTI=0;LEN=1;MEANALT=1;MQM=32.3822;MQMR=57.8895;NS=21;NUMALT=1;ODDS=9.59798;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=40336;QR=13272;RO=371;RPL=1125;RPP=2445.92;RPPR=808.627;RPR=0;RUN=1;SAF=0;SAP=2445.92;SAR=1125;SRF=0;SRP=808.627;SRR=371;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:0,82:0:0:82:2936:-231.009,-24.6845,0 1/1:85:0,85:0:0:85:3060:-220.862,-25.5876,0 0/1:84:40,44:40:1432:44:1576:-98.115,0,-103.685 0/1:43:16,27:16:576:27:968:-63.5112,0,-39.1737 0/1:138:62,76:62:2212:76:2710:-174.796,0,-156.724 0/1:57:24,33:24:856:33:1188:-68.8658,0,-59.9748 0/1:109:45,64:45:1608:64:2292:-132.747,0,-111.234 0/1:82:19,63:19:684:63:2256:-147.294,0,-37.1169 1/1:119:0,119:0:0:119:4268:-346.641,-35.8226,0 1/1:28:0,28:0:0:28:1008:-73.5321,-8.42884,0 0/1:7:4,3:4:140:3:108:-6.02053,0,-10.8332 0/1:50:26,24:26:936:24:860:-50.817,0,-69.463 1/1:73:0,73:0:0:73:2620:-206.001,-21.9752,0 0/1:92:43,49:43:1540:49:1737:-109.847,0,-110.289 1/1:85:0,85:0:0:85:3056:-235.149,-25.5876,0 1/1:37:0,37:0:0:37:1332:-108.576,-11.1381,0 0/1:30:15,15:15:532:15:540:-33.0407,0,-39.0134 0/1:99:46,53:46:1648:53:1908:-109.994,0,-118.356 0/1:91:30,61:30:1076:61:2177:-143.453,0,-69.7536 1/1:46:0,46:0:0:46:1648:-125.818,-13.8474,0 1/1:59:1,58:1:32:58:2088:-146.621,-14.5939,0 chr12 25476610 . T A 4984.92 PASS AB=0.444613;ABP=20.5699;AC=12;AF=0.285714;AN=42;AO=297;CIGAR=1X;DP=1176;DPB=1176;DPRA=0.878261;EPP=647.938;EPPR=1907.39;GTI=6;LEN=1;MEANALT=1.13333;MQM=48.9024;MQMR=20.2052;NS=21;NUMALT=1;ODDS=0.675061;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10586;QR=31164;RO=877;RPL=0;RPP=647.938;RPPR=1907.39;RPR=297;RUN=1;SAF=0;SAP=647.938;SAR=297;SRF=0;SRP=1907.39;SRR=877;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1413:1:36:0,-8.79371,-44.5644 0/0:15:15,0:15:536:0:0:0,-4.51545,-46.6924 0/1:64:31,33:31:1095:33:1184:-86.1459,0,-17.6447 0/1:44:15,29:15:528:29:1036:-79.1027,0,-3.22513 0/1:120:56,64:56:2000:64:2300:-168.376,0,-30.5598 0/1:41:20,21:20:707:21:752:-55.664,0,-49.3134 0/1:95:55,40:55:1956:40:1403:-97.9658,0,-141.338 0/1:61:35,26:35:1217:26:936:-65.0585,0,-31.7031 0/0:147:147,0:147:5244:0:0:0,-44.2514,-291.092 0/0:11:11,0:11:392:0:0:0,-3.31133,-14.9622 0/1:10:7,3:7:252:3:108:-7.06487,0,-19.0984 0/1:22:11,11:11:388:11:396:-28.8625,0,-10.0255 0/0:64:64,0:64:2280:0:0:0,-19.2659,-76.4401 0/1:67:40,26:40:1415:26:891:-59.3427,0,-24.0927 0/0:123:123,0:123:4371:0:0:0,-37.0267,-141.209 0/0:8:8,0:8:288:0:0:0,-2.40824,-15.7601 0/1:23:18,4:18:644:4:144:-6.33113,0,-28.5883 0/1:66:44,22:44:1562:22:788:-49.9639,0,-46.7633 0/1:46:32,14:32:1140:14:504:-31.2188,0,-20.7793 0/0:61:60,1:60:2132:1:36:0,-14.8143,-84.6555 0/0:47:45,2:45:1604:2:72:0,-7.31169,-132.121 chr12 25476635 . 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T C 11941.9 PASS AB=0.441721;ABP=52.3649;AC=12;AF=0.285714;AN=42;AO=740;CIGAR=1X;DP=3044;DPB=3044;DPRA=0.943044;EPP=1583.95;EPPR=4971.4;GTI=1;LEN=1;MEANALT=1;MQM=59.9959;MQMR=59.9861;NS=21;NUMALT=1;ODDS=6.22657;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=26363;QR=81957;RO=2304;RPL=737;RPP=1583.95;RPPR=4971.4;RPR=3;RUN=1;SAF=0;SAP=1609.9;SAR=740;SRF=0;SRP=5006.08;SRR=2304;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:180:180,0:180:6422:0:0:0,-54.1854,-578.067 0/0:160:160,0:160:5677:0:0:0,-48.1648,-511.017 0/1:117:65,52:65:2325:52:1864:-132.819,0,-174.288 0/1:201:128,73:128:4546:73:2607:-174.371,0,-348.797 0/1:313:174,139:174:6147:139:4964:-352.685,0,-459.104 0/1:132:66,66:66:2357:66:2372:-174.002,0,-172.651 0/1:217:125,92:125:4496:92:3251:-227.485,0,-339.377 0/1:183:90,93:90:3187:93:3306:-242.668,0,-231.962 0/0:167:167,0:167:5887:0:0:0,-50.272,-529.938 0/0:8:8,0:8:258:0:0:0,-2.40824,-23.533 0/1:6:4,2:4:144:2:72:-5.03054,0,-11.5074 0/1:13:9,4:9:324:4:144:-9.40023,0,-25.5925 0/0:170:170,0:170:6006:0:0:0,-51.1751,-540.644 0/1:103:55,48:55:1957:48:1705:-122.728,0,-145.398 0/0:308:308,0:308:11008:0:0:0,-92.7172,-990.61 0/0:136:136,0:136:4835:0:0:0,-40.9401,-435.302 0/1:132:72,60:72:2580:60:2126:-151.869,0,-192.713 0/1:150:64,86:64:2300:86:3060:-230.473,0,-162.106 0/1:106:82,24:82:2917:24:860:-45.8127,0,-230.855 0/0:169:168,1:168:5983:1:32:0,-47.6748,-535.375 0/0:73:73,0:73:2601:0:0:0,-21.9752,-234.337 chr12 25518779 . 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TCTT TGA 17372.7 PASS AB=0.610825;ABP=85.7949;AC=29;AF=0.690476;AN=42;AO=1128;CIGAR=1M1D2X;DP=1432;DPB=1149.5;DPRA=0;EPP=2374.88;EPPR=616.085;GTI=1;LEN=3;MEANALT=1.09524;MQM=30.8528;MQMR=53.8444;NS=21;NUMALT=1;ODDS=9.6967;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39547;QR=10708;RO=302;RPL=1119;RPP=2374.88;RPPR=616.085;RPR=9;RUN=1;SAF=1128;SAP=2452.43;SAR=0;SRF=302;SRP=658.795;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:53:0,52:0:0:52:1811:-136.871,-15.6536,0 1/1:77:0,77:0:0:77:2688:-201.994,-23.1793,0 0/1:78:33,45:33:1184:45:1610:-97.1646,0,-83.2027 0/1:76:19,57:19:662:57:2035:-129.357,0,-36.9781 0/1:116:29,87:29:1038:87:3056:-193.935,0,-58.7385 0/1:40:13,27:13:456:27:961:-59.622,0,-29.112 0/1:83:42,41:42:1487:41:1411:-82.3028,0,-108.413 0/1:97:55,41:55:1938:41:1437:-79.2633,0,-145.033 1/1:173:0,173:0:0:173:6099:-456.797,-52.0782,0 1/1:16:0,16:0:0:16:559:-42.5421,-4.81648,0 0/1:8:5,3:5:180:3:108:-5.93787,0,-14.1022 0/1:31:17,14:17:601:14:489:-27.6956,0,-44.8794 1/1:108:0,108:0:0:108:3776:-283.194,-32.5112,0 0/1:82:34,48:34:1207:48:1620:-99.1218,0,-83.9202 1/1:62:0,62:0:0:62:2184:-164.807,-18.6639,0 0/1:38:4,34:4:144:34:1197:-78.7001,0,-1.87448 0/1:22:7,15:7:228:15:505:-32.2922,0,-14.2024 0/1:50:26,24:26:935:24:851:-49.0568,0,-69.3035 0/1:55:17,38:17:612:38:1326:-83.8926,0,-38.7211 1/1:124:1,123:1:36:123:4315:-321.289,-33.8732,0 1/1:43:0,43:0:0:43:1509:-113.204,-12.9443,0 chr12 25570447 . G A 4293.6 PASS AB=0.397039;ABP=71.4248;AC=12;AF=0.285714;AN=42;AO=296;CIGAR=1X;DP=1514;DPB=1514;DPRA=0.804878;EPP=645.766;EPPR=2647.86;GTI=0;LEN=1;MEANALT=1;MQM=53.8007;MQMR=33.0008;NS=21;NUMALT=1;ODDS=0.649688;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10607;QR=43380;RO=1218;RPL=296;RPP=645.766;RPPR=1701.28;RPR=0;RUN=1;SAF=296;SAP=645.766;SAR=0;SRF=1097;SRP=1701.28;SRR=121;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:66,0:66:2353:0:0:0,-19.868,-183.531 0/0:122:122,0:122:4335:0:0:0,-36.7257,-348.552 0/1:78:45,33:45:1620:33:1188:-83.5609,0,-97.5382 0/1:78:59,19:59:2107:19:680:-37.9894,0,-135.267 0/1:120:91,29:91:3255:29:1025:-56.3631,0,-208.629 0/1:38:25,13:25:896:13:460:-30.1574,0,-55.0343 0/1:81:39,42:39:1387:42:1508:-110.918,0,-80.288 0/1:96:41,55:41:1468:55:1976:-148.756,0,-80.9255 0/0:174:174,0:174:6195:0:0:0,-52.3792,-465.035 0/0:17:17,0:17:608:0:0:0,-5.11751,-46.0983 0/1:8:3,5:3:104:5:180:-14.1022,0,-5.81233 0/1:31:14,17:14:500:17:612:-45.8702,0,-28.1798 0/0:105:105,0:105:3750:0:0:0,-31.6081,-278.799 0/1:77:45,32:45:1597:32:1152:-80.5656,0,-96.3235 0/0:64:64,0:64:2261:0:0:0,-19.2659,-171.504 0/0:67:67,0:67:2359:0:0:0,-20.169,-193.453 0/1:32:25,7:25:888:7:248:-12.9962,0,-62.7132 0/1:49:23,26:23:815:26:936:-69.6937,0,-46.7422 0/1:55:38,17:38:1351:17:612:-38.7211,0,-85.0558 0/0:115:114,1:114:4087:1:30:0,-31.6598,-302.318 0/0:41:41,0:41:1444:0:0:0,-12.3422,-109.096 chr12 25570456 . T G 4251.19 PASS AB=0.391766;ABP=79.629;AC=12;AF=0.285714;AN=42;AO=296;CIGAR=1X;DP=1551;DPB=1551;DPRA=0.796541;EPP=645.766;EPPR=2728.21;GTI=1;LEN=1;MEANALT=1;MQM=53.7466;MQMR=33.0398;NS=21;NUMALT=1;ODDS=8.43182;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10581;QR=44949;RO=1255;RPL=296;RPP=645.766;RPPR=1729.81;RPR=0;RUN=1;SAF=296;SAP=645.766;SAR=0;SRF=1127;SRP=1729.81;SRR=128;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:70:70,0:70:2516:0:0:0,-21.0721,-196.999 0/0:126:126,0:126:4516:0:0:0,-37.9298,-362.791 0/1:77:44,33:44:1576:33:1184:-83.503,0,-94.9138 0/1:78:59,19:59:2124:19:680:-37.9929,0,-135.893 0/1:122:93,29:93:3318:29:1040:-57.1159,0,-213.404 0/1:40:27,13:27:972:13:464:-29.769,0,-59.9194 0/1:83:41,42:41:1472:42:1508:-110.221,0,-85.5094 0/1:97:42,55:42:1503:55:1960:-147.028,0,-83.6778 0/0:180:180,0:180:6421:0:0:0,-54.1854,-481.284 0/0:17:17,0:17:612:0:0:0,-5.11751,-46.4548 0/1:8:3,5:3:108:5:180:-14.1022,0,-5.93787 0/1:31:14,17:14:500:17:608:-45.5115,0,-28.2278 0/0:107:107,0:107:3837:0:0:0,-32.2102,-284.122 0/1:80:47,33:47:1680:33:1176:-81.8361,0,-101.544 0/0:66:66,0:66:2372:0:0:0,-19.868,-179.194 0/0:68:68,0:68:2432:0:0:0,-20.47,-199.731 0/1:32:26,6:26:932:6:197:-8.40518,0,-66.1031 0/1:50:24,26:24:856:26:936:-69.3927,0,-49.3876 0/1:55:38,17:38:1368:17:612:-38.7211,0,-85.6831 0/0:122:121,1:121:4326:1:36:0,-33.2712,-319.622 0/0:42:42,0:42:1508:0:0:0,-12.6433,-112.168 chr12 25570561 . TAC TAT,CAT 77571.9 PASS AB=0.477284,0.52022;ABP=11.9878,10.1231;AC=30,12;AF=0.714286,0.285714;AN=42;AO=2597,1052;CIGAR=2M1X,1X1M1X;DP=3655;DPB=3655.33;DPRA=0,2.38666;EPP=5642.32,2287.4;EPPR=7.35324;GTI=0;LEN=1,3;MEANALT=2,2.23529;MQM=59.9938,59.9658;MQMR=60;NS=21;NUMALT=2;ODDS=10.9163;PAIRED=0,0;PAIREDR=0;PAO=0.5,0.5;PQA=18,18;PQR=0;PRO=0;QA=92809,37214;QR=72;RO=2;RPL=0,0;RPP=5642.32,2287.4;RPPR=7.35324;RPR=2597,1052;RUN=1,1;SAF=2597,1052;SAP=5642.32,2287.4;SAR=0,0;SRF=2;SRP=7.35324;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:277:0,275,2:0:0:275,2:9814,72:-882.797,-82.7833,0,-876.922,-76.5486,-876.32 1/1:101:0,101,0:0:0:101,0:3621,0:-326.093,-30.404,0,-326.093,-30.404,-326.093 1/2:151:0,69,82:0:0:69,82:2465,2894:-436.988,-236.012,-215.241,-201.331,0,-176.647 1/2:197:0,78,117:0:0:78,117:2797,4105:-562.236,-334.102,-310.621,-228.174,0,-192.953 1/2:404:2,202,199:2:72:202,199:7203,7058:-1155.68,-569.127,-514.194,-581.26,0,-527.23 1/2:225:0,114,111:0:0:114,111:4066,3949:-653.64,-322.189,-287.872,-331.807,0,-298.393 1/2:325:0,139,186:0:0:139,186:4937,6586:-939.116,-536.835,-494.992,-402.635,0,-346.644 1/2:150:0,65,85:0:0:65,85:2340,3034:-438.634,-247.701,-228.134,-191.292,0,-165.704 1/1:381:0,380,1:0:0:380,1:13581,36:-1221.72,-114.391,0,-1218.78,-111.094,-1218.48 1/1:21:0,21,0:0:0:21,0:752,0:-68.0063,-6.32163,0,-68.0063,-6.32163,-68.0063 1/2:4:0,2,2:0:0:2,2:72,69:-11.8328,-5.95048,-5.34842,-6.23466,0,-5.6326 1/2:42:0,25,17:0:0:25,17:900,608:-123.372,-49.9347,-42.409,-73.7953,0,-68.6778 1/1:201:0,197,4:0:0:197,4:7061,138:-635.203,-59.3029,0,-623.992,-47.7472,-622.788 1/2:140:0,71,69:0:0:71,69:2520,2423:-402.834,-197.509,-176.136,-205.678,0,-184.907 1/1:286:0,285,1:0:0:285,1:10198,36:-917.386,-85.7936,0,-914.448,-82.4963,-914.147 1/1:150:0,150,0:0:0:150,0:5360,0:-482.531,-45.1545,0,-482.531,-45.1545,-482.531 1/2:177:0,71,106:0:0:71,106:2540,3736:-511.644,-304.522,-283.149,-207.478,0,-175.569 1/2:81:0,44,37:0:0:44,37:1561,1313:-234.513,-107.333,-94.0875,-127.534,0,-116.396 1/2:107:0,76,31:0:0:76,31:2720,1085:-310.438,-88.6252,-65.7469,-222.165,0,-212.833 1/1:179:0,176,2:0:0:176,2:6289,72:-565.766,-52.9813,0,-559.891,-47.0599,-559.289 1/1:56:0,56,0:0:0:56,0:2012,0:-181.353,-16.8577,0,-181.353,-16.8577,-181.353 chr12 25600372 . TATTCA TATTCG,TTTTTG 26540.4 PASS AB=0.486072,0.505571;ABP=4.22003,3.20386;AC=30,12;AF=0.714286,0.285714;AN=42;AO=890,364;CIGAR=5M1X,1M1X2M2X;DP=1265;DPB=1264.5;DPRA=0,0.999681;EPP=1935.62,793.426;EPPR=0;GTI=0;LEN=1,6;MEANALT=2,2.30769;MQM=59.9978,53.4918;MQMR=0;NS=21;NUMALT=2;ODDS=9.95239;PAIRED=0,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=31810,12911;QR=0;RO=0;RPL=0,0;RPP=1935.62,793.426;RPPR=0;RPR=890,364;RUN=1,1;SAF=890,364;SAP=1935.62,793.426;SAR=0,0;SRF=0;SRP=0;SRR=0;TYPE=snp,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:21:0,21,0:0:0:21,0:745,0:-67.3742,-6.32163,0,-67.3742,-6.32163,-67.3742 1/1:49:0,47,0:0:0:47,0:1692,0:-152.207,-14.1484,0,-152.207,-14.1484,-152.207 1/2:63:0,36,27:0:0:36,27:1296,970:-185.159,-79.4117,-68.5746,-106.107,0,-97.979 1/2:67:0,37,30:0:0:37,30:1328,1068:-195.494,-87.1663,-76.0282,-108.684,0,-99.6532 1/2:127:0,42,84:0:0:42,84:1495,2986:-364.315,-242.469,-229.826,-121.841,0,-96.5548 1/2:56:0,21,32:0:0:21,32:739,1135:-152.362,-92.2031,-85.8814,-60.1637,0,-50.5308 1/2:119:0,60,58:0:0:60,58:2135,2040:-339.554,-165.551,-147.489,-174.123,0,-156.663 1/2:42:0,20,22:0:0:20,22:716,789:-122.878,-64.4885,-58.4679,-58.7471,0,-52.1245 1/1:100:0,99,0:0:0:99,0:3540,0:-318.45,-29.802,0,-318.45,-29.802,-318.45 1/1:9:0,9,0:0:0:9,0:324,0:-29.5059,-2.70927,0,-29.5059,-2.70927,-29.5059 1/2:10:0,6,4:0:0:6,4:216,139:-29.0693,-11.4338,-9.62763,-17.9843,0,-16.7802 1/2:24:0,9,15:0:0:9,15:324,534:-70.2508,-43.8123,-41.1031,-26.7966,0,-22.2811 1/1:65:0,64,1:0:0:64,1:2296,36:-206.542,-19.2659,0,-203.606,-15.9713,-203.305 1/2:58:0,35,22:0:0:35,22:1256,773:-164.977,-62.5211,-51.9851,-102.449,0,-95.8268 1/1:148:0,148,0:0:0:148,0:5273,0:-474.707,-44.5524,0,-474.707,-44.5524,-474.707 1/1:52:0,51,0:0:0:51,0:1828,0:-164.549,-15.3525,0,-164.549,-15.3525,-164.549 1/2:48:0,30,18:0:0:30,18:1067,641:-139.222,-52.2661,-43.2352,-87.3103,0,-81.8918 1/2:75:0,33,42:0:0:33,42:1180,1485:-216.326,-120.106,-110.172,-96.5741,0,-83.9308 1/2:29:0,20,9:0:0:20,9:716,315:-84.3537,-25.9587,-19.9381,-58.7471,0,-56.0378 1/1:55:0,55,0:0:0:55,0:1964,0:-177.035,-16.5567,0,-177.035,-16.5567,-177.035 1/1:48:0,47,0:0:0:47,0:1680,0:-151.127,-14.1484,0,-151.127,-14.1484,-151.127 chr12 25626102 . C A 27685.7 PASS AB=0.600587;ABP=62.8581;AC=30;AF=0.714286;AN=42;AO=1303;CIGAR=1X;DP=1578;DPB=1578;DPRA=0;EPP=2669.81;EPPR=582.92;GTI=0;LEN=1;MEANALT=1;MQM=44.0714;MQMR=58.7309;NS=21;NUMALT=1;ODDS=9.41282;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=46634;QR=9798;RO=275;RPL=19;RPP=2669.81;RPPR=582.92;RPR=1284;RUN=1;SAF=1303;SAP=2832.44;SAR=0;SRF=275;SRP=600.165;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:166:1,165:1:36:165:5920:-516.722,-46.3727,0 1/1:103:0,103:0:0:103:3651:-324.167,-31.0061,0 0/1:53:26,27:26:932:27:968:-69.3605,0,-68.2266 0/1:37:20,17:20:708:17:608:-42.0868,0,-52.9075 0/1:115:41,74:41:1457:74:2648:-199.559,0,-96.746 0/1:47:15,32:15:531:32:1133:-86.3925,0,-33.9678 0/1:92:44,48:44:1563:48:1722:-123.773,0,-112.688 0/1:63:20,43:20:712:43:1548:-117.368,0,-44.8077 1/1:153:0,153:0:0:153:5500:-487.743,-46.0576,0 1/1:22:0,22:0:0:22:788:-70.0106,-6.62266,0 0/1:11:8,3:8:288:3:108:-6.62451,0,-22.9517 0/1:19:8,11:8:288:11:381:-28.3037,0,-20.5191 1/1:88:0,88:0:0:88:3114:-274.015,-26.4906,0 0/1:94:33,61:33:1179:61:2192:-164.936,0,-77.996 1/1:168:0,168:0:0:168:6009:-531.214,-50.573,0 1/1:59:0,59:0:0:59:2120:-188.569,-17.7608,0 0/1:38:10,28:10:352:28:1008:-77.1826,0,-20.5791 0/1:50:30,20:30:1068:20:720:-48.2427,0,-81.3398 0/1:62:17,45:17:612:45:1616:-124.084,0,-36.7148 1/1:100:1,99:1:36:99:3549:-307.564,-26.5047,0 1/1:38:1,37:1:36:37:1331:-114.044,-7.89062,0 chr12 25626112 . TGGATATATC TGGATC,GGATC 49673.3 PASS AB=0.685315,0.308858;ABP=258.94,275.29;AC=30,12;AF=0.714286,0.285714;AN=42;AO=1748,269;CIGAR=3M4D3M,1X1M5D3M;DP=2025;DPB=1188.6;DPRA=0,0.637132;EPP=3798.74,587.136;EPPR=0;GTI=3;LEN=4,5;MEANALT=2.04762,2.4;MQM=46.5143,58.7063;MQMR=0;NS=21;NUMALT=2;ODDS=2.41472;PAIRED=0,0;PAIREDR=0;PAO=0,2;PQA=0,72;PQR=0;PRO=0;QA=59644,9306;QR=0;RO=0;RPL=1134,269;RPP=338.918,587.136;RPPR=0;RPR=614,0;RUN=1,1;SAF=1134,269;SAP=338.918,587.136;SAR=614,0;SRF=0;SRP=0;SRR=0;TYPE=del,complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:206:0,205,1:0:0:205,1:7000,36:-620.897,-61.7112,0,-617.959,-58.4139,-617.658 1/1:93:0,93,0:0:0:93,0:3255,0:-289.244,-27.9958,0,-289.244,-27.9958,-289.244 1/2:64:0,38,26:0:0:38,26:1330,921:-182.18,-75.3613,-63.9222,-107.169,0,-99.3424 1/2:75:0,55,20:0:0:55,20:1809,699:-201.533,-56.8517,-40.295,-144.666,0,-138.645 1/2:135:0,95,39:0:0:95,39:3265,1373:-373.297,-111.737,-83.1391,-261.55,0,-249.809 1/2:42:0,27,15:0:0:27,15:961,521:-119.639,-42.6958,-34.568,-77.2912,0,-72.7757 1/2:84:0,38,44:0:0:38,44:1345,1511:-230.286,-122.529,-111.09,-107.885,0,-94.6398 1/2:83:0,66,17:0:0:66,17:2229,580:-225.276,-47.1304,-27.2625,-178.483,0,-173.366 1/1:177:0,177,0:0:0:177,0:6091,0:-542.358,-53.2823,0,-542.358,-53.2823,-542.358 1/1:22:0,22,0:0:0:22,0:764,0:-68.0735,-6.62266,0,-68.0735,-6.62266,-68.0735 1/2:11:0,3,8:0:0:3,8:104,262:-29.8371,-21.4878,-20.5847,-8.68766,0,-6.27942 1/2:32:0,24,8:0:0:24,8:816,277:-88.5768,-22.8545,-15.6298,-66.0663,0,-63.658 1/1:140:0,140,0:0:0:140,0:4733,0:-420.839,-42.1442,0,-420.839,-42.1442,-420.839 1/2:117:0,84,33:0:0:84,33:2834,1135:-319.142,-92.4659,-67.1794,-227.017,0,-217.083 1/1:234:0,234,0:0:0:234,0:7902,0:-702.82,-70.441,0,-702.82,-70.441,-702.82 1/1:115:0,114,0:0:0:114,0:3926,0:-350.552,-34.3174,0,-350.552,-34.3174,-350.552 1/2:46:0,35,10:0:0:35,10:1177,360:-123.669,-29.4014,-18.8653,-94.2889,0,-91.2786 1/2:78:0,48,30:0:0:48,30:1608,1001:-210.19,-81.3257,-66.8763,-129.197,0,-120.166 1/2:91:0,75,15:0:0:75,15:2523,529:-245.108,-43.1466,-20.5694,-202.054,0,-197.538 1/1:142:0,139,1:0:0:139,1:4734,36:-420.424,-41.8432,0,-417.486,-38.8751,-417.185 1/1:38:0,36,2:0:0:36,2:1238,65:-109.792,-10.8371,0,-104.601,-5.32327,-103.999 chr12 25626132 . GTAT GT 52705.2 PASS AB=0.587727;ABP=80.3519;AC=30;AF=0.714286;AN=42;AO=2072;CIGAR=1M2D1M;DP=2562;DPB=1525.75;DPRA=0;EPP=4502.3;EPPR=1056.17;GTI=0;LEN=2;MEANALT=1.2381;MQM=48.0468;MQMR=59.3567;NS=21;NUMALT=1;ODDS=21.989;PAIRED=0;PAIREDR=0;PAO=0.5;PQA=0;PQR=0;PRO=0.5;QA=71207;QR=16894;RO=485;RPL=1166;RPP=73.8556;RPPR=18.5957;RPR=906;RUN=1;SAF=1166;SAP=73.8556;SAR=906;SRF=272;SRP=18.5957;SRR=213;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1/1:215:2,212:2:60:212:7268:-638.306,-59.0542,0 1/1:182:0,182:0:0:182:6240:-558.017,-54.7875,0 0/1:85:42,43:42:1455:43:1440:-103.033,0,-105.651 0/1:96:38,58:38:1318:58:1953:-145.319,0,-90.0196 0/1:176:78,98:78:2739:98:3427:-251.925,0,-193.722 0/1:88:35,53:35:1230:53:1830:-136.874,0,-84.5063 0/1:117:53,63:53:1849:63:2163:-158.074,0,-131.543 0/1:104:35,69:35:1249:69:2425:-183.994,0,-80.5472 1/1:189:4,185:4:139:185:6392:-555.933,-44.0423,0 1/1:23:0,23:0:0:23:820:-73.0115,-6.92369,0 0/1:13:9,4:9:310:4:135:-8.47096,0,-24.317 0/1:47:14,32:14:496:32:1102:-84.6716,0,-30.7706 1/1:151:0,151:0:0:151:5202:-461.301,-45.4555,0 0/1:136:47,89:47:1627:89:3120:-236.726,0,-105.734 1/1:254:0,253:0:0:253:8768:-779.642,-76.1606,0 1/1:127:0,127:0:0:127:4352:-389.189,-38.2308,0 0/1:55:19,36:19:671:36:1275:-96.8043,0,-44.1599 0/1:119:64,54:64:2222:54:1802:-125.262,0,-164.219 0/1:121:40,81:40:1358:81:2676:-201.993,0,-86.055 1/1:144:1,143:1:36:143:4938:-434.991,-39.75,0 1/1:120:4,116:4:135:116:3879:-334.651,-23.6945,0 chr12 25636961 . A G 48918.1 PASS AB=0.494768;ABP=3.48744;AC=30;AF=0.714286;AN=42;AO=2416;CIGAR=1X;DP=3435;DPB=3435;DPRA=0;EPP=5249.29;EPPR=2213.57;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9946;MQMR=60;NS=21;NUMALT=1;ODDS=11.6391;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=85612;QR=36197;RO=1018;RPL=2416;RPP=5249.29;RPPR=2213.57;RPR=0;RUN=1;SAF=2416;SAP=5249.29;SAR=0;SRF=1018;SRP=2213.57;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:170:2,168:2:72:168:5945:-528.325,-44.3384,0 1/1:128:0,128:0:0:128:4564:-410.928,-38.5318,0 0/1:189:95,94:95:3395:94:3349:-244.732,0,-248.87 0/1:196:99,97:99:3523:97:3444:-251.172,0,-258.279 0/1:314:150,164:150:5343:164:5792:-426.878,0,-386.482 0/1:268:153,115:153:5424:115:4112:-289.589,0,-407.62 0/1:260:139,121:139:4964:121:4288:-307.834,0,-368.643 0/1:169:73,96:73:2578:96:3422:-257.32,0,-181.396 1/1:221:1,220:1:36:220:7829:-701.045,-62.9294,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:19:16,3:16:564:3:108:-4.3556,0,-45.3707 0/1:74:29,45:29:1036:45:1593:-121.382,0,-71.2777 1/1:211:0,211:0:0:211:7414:-667.316,-63.5173,0 0/1:261:133,128:133:4740:128:4525:-328.853,0,-348.192 1/1:384:0,383:0:0:383:13529:-1217.03,-115.294,0 1/1:99:1,98:1:36:98:3472:-309.094,-26.2037,0 0/1:116:60,56:60:2115:56:1965:-142.204,0,-155.699 0/1:67:41,26:41:1451:26:923:-63.2178,0,-110.716 0/1:74:26,48:26:920:48:1702:-131.188,0,-60.8408 1/1:132:0,132:0:0:132:4676:-421.004,-39.736,0 1/1:52:0,52:0:0:52:1848:-166.6,-15.6536,0 chr12 25687282 . G A 19374.1 PASS AB=0.467933;ABP=10.5305;AC=30;AF=0.714286;AN=42;AO=954;CIGAR=1X;DP=1404;DPB=1404;DPRA=0;EPP=2074.59;EPPR=978.001;GTI=0;LEN=1;MEANALT=1.04762;MQM=59.9843;MQMR=60;NS=21;NUMALT=1;ODDS=4.70536;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=34148;QR=15954;RO=449;RPL=0;RPP=2074.59;RPPR=978.001;RPR=954;RUN=1;SAF=0;SAP=2074.59;SAR=954;SRF=0;SRP=978.001;SRR=449;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:1,67:1:36:67:2391:-211.849,-16.8718,0 1/1:35:0,35:0:0:35:1252:-112.985,-10.5361,0 0/1:79:52,27:52:1857:27:972:-64.0165,0,-143.626 0/1:91:39,52:39:1400:52:1860:-140.286,0,-98.9055 0/1:79:48,31:48:1724:31:1116:-76.9703,0,-131.664 0/1:37:24,13:24:860:13:460:-30.5973,0,-66.5837 0/1:80:46,34:46:1644:34:1220:-86.0244,0,-124.166 0/1:111:59,52:59:2093:52:1872:-135.345,0,-155.224 1/1:59:0,59:0:0:59:2116:-190.709,-17.7608,0 1/1:8:0,8:0:0:8:288:-26.2674,-2.40824,0 0/1:4:1,3:1:36:3:108:-8.87105,0,-2.39415 0/1:58:29,29:29:1007:29:1022:-74.8311,0,-73.4775 1/1:93:0,93:0:0:93:3321:-299.107,-27.9958,0 0/1:106:49,57:49:1742:57:2044:-152.323,0,-125.154 1/1:138:0,138:0:0:138:4948:-445.423,-41.5421,0 1/1:31:0,31:0:0:31:1112:-100.391,-9.33193,0 0/1:37:21,16:21:748:16:568:-40.3138,0,-56.5072 0/1:96:50,45:50:1755:45:1615:-116.682,0,-129.273 0/1:64:29,35:29:1016:35:1247:-93.2682,0,-72.483 1/1:94:0,94:0:0:94:3372:-303.695,-28.2968,0 1/1:36:1,35:1:36:35:1244:-108.666,-7.23881,0 chr12 25692717 . G A 4266.93 PASS AB=0.290141;ABP=138.81;AC=29;AF=0.690476;AN=42;AO=245;CIGAR=1X;DP=501;DPB=501;DPRA=6.2125;EPP=535.021;EPPR=550.255;GTI=1;LEN=1;MEANALT=1;MQM=59.6204;MQMR=59.9883;NS=21;NUMALT=1;ODDS=0.778841;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8763;QR=9177;RO=256;RPL=245;RPP=535.021;RPPR=550.255;RPR=0;RUN=1;SAF=245;SAP=535.021;SAR=0;SRF=256;SRP=558.907;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:17:0,17:0:0:17:612:-55.4111,-5.11751,0 1/1:20:0,20:0:0:20:701:-63.3589,-6.0206,0 0/1:18:12,6:12:432:6:216:-14.372,0,-33.8027 0/1:40:25,15:25:900:15:540:-36.8953,0,-69.2798 0/1:85:61,24:61:2192:24:864:-52.4666,0,-171.958 0/1:17:10,7:10:360:7:252:-17.9114,0,-27.6268 0/1:59:48,11:48:1716:11:392:-17.8593,0,-136.964 0/1:10:6,4:6:216:4:144:-10.3033,0,-16.7802 1/1:21:0,21:0:0:21:756:-68.3663,-6.32163,0 1/1:9:0,9:0:0:9:324:-29.5059,-2.70927,0 0/0:4:4,0:4:144:0:0:0,-1.20412,-13.3136 0/1:18:13,5:13:468:5:180:-11.1335,0,-37.0411 1/1:12:0,12:0:0:12:432:-39.2166,-3.61236,0 0/1:12:8,4:8:288:4:132:-8.52107,0,-22.655 1/1:7:0,7:0:0:7:238:-21.7503,-2.10721,0 1/1:24:0,24:0:0:24:856:-77.3602,-7.22472,0 0/1:30:20,10:20:720:10:360:-23.7134,0,-56.0979 0/1:41:33,8:33:1180:8:288:-13.9252,0,-94.1658 0/1:25:16,9:16:561:9:324:-21.9801,0,-43.2914 1/1:22:0,22:0:0:22:792:-71.6057,-6.62266,0 1/1:10:0,10:0:0:10:360:-32.7361,-3.0103,0 chr12 25692731 . C T 2126.42 PASS AB=0.385675;ABP=44.2204;AC=12;AF=0.285714;AN=42;AO=140;CIGAR=1X;DP=506;DPB=506;DPRA=1.90385;EPP=289.893;EPPR=780.492;GTI=1;LEN=1;MEANALT=1;MQM=60;MQMR=59.724;NS=21;NUMALT=1;ODDS=7.76654;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5016;QR=13025;RO=366;RPL=2;RPP=289.893;RPPR=780.492;RPR=138;RUN=1;SAF=140;SAP=307.016;SAR=0;SRF=366;SRP=797.769;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:17:17,0:17:608:0:0:0,-5.11751,-55.0511 0/0:20:20,0:20:716:0:0:0,-6.0206,-64.5486 0/1:20:11,9:11:383:9:324:-23.4853,0,-28.7826 0/1:39:20,19:20:711:19:684:-50.1502,0,-52.5755 0/1:86:43,43:43:1527:43:1544:-113.364,0,-111.822 0/1:16:12,4:12:428:4:140:-8.1281,0,-34.0423 0/1:58:52,6:52:1860:6:212:-1.96506,0,-150.218 0/1:10:7,3:7:248:3:108:-7.06487,0,-19.6539 0/0:20:20,0:20:712:0:0:0,-6.0206,-64.4063 0/0:9:9,0:9:320:0:0:0,-2.70927,-29.1424 0/1:4:1,3:1:36:3:104:-8.49868,0,-2.39415 0/1:18:11,7:11:392:7:248:-17.2457,0,-30.2015 0/0:13:13,0:13:459:0:0:0,-3.91339,-41.6435 0/1:13:9,4:9:324:4:144:-9.40023,0,-25.503 0/0:7:7,0:7:248:0:0:0,-2.10721,-22.6623 0/0:24:24,0:24:852:0:0:0,-7.22472,-76.9995 0/1:30:14,16:14:496:16:576:-43.1441,0,-35.9434 0/1:43:26,17:26:932:17:608:-42.1077,0,-71.2546 0/1:26:17,9:17:608:9:324:-21.6791,0,-47.2252 0/0:23:23,0:23:824:0:0:0,-6.92369,-74.4833 0/0:10:10,0:10:341:0:0:0,-3.0103,-31.0095 chr12 25692734 . ACATA GCATG 4085.75 PASS AB=0.297003;ABP=134.37;AC=29;AF=0.690476;AN=42;AO=254;CIGAR=1X3M1X;DP=516;DPB=516;DPRA=6.4;EPP=554.564;EPPR=569.765;GTI=1;LEN=5;MEANALT=1.05;MQM=59.4961;MQMR=59.9885;NS=21;NUMALT=1;ODDS=0.761186;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8693;QR=9095;RO=261;RPL=254;RPP=554.564;RPPR=569.765;RPR=0;RUN=1;SAF=254;SAP=554.564;SAR=0;SRF=261;SRP=569.765;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1/1:17:0,17:0:0:17:575:-52.0692,-5.11751,0 1/1:22:0,22:0:0:22:742:-66.9434,-6.62266,0 0/1:20:13,7:13:453:7:249:-16.735,0,-35.0802 0/1:40:25,15:25:889:15:505:-33.7295,0,-68.2884 0/1:88:63,25:63:2206:25:840:-49.416,0,-172.314 0/1:17:9,8:9:318:8:269:-19.3734,0,-23.8429 0/1:60:48,11:48:1664:11:381:-16.5032,0,-131.924 0/1:10:6,4:6:206:4:137:-9.65756,0,-15.8653 1/1:20:0,20:0:0:20:693:-62.6901,-6.0206,0 1/1:9:0,9:0:0:9:310:-28.2333,-2.70927,0 0/0:4:4,0:4:141:0:0:0,-1.20412,-13.037 0/1:19:13,6:13:458:6:209:-13.4312,0,-35.8349 1/1:13:0,13:0:0:13:443:-40.1944,-3.91339,0 0/1:13:9,4:9:319:4:137:-8.72819,0,-25.1383 1/1:7:0,7:0:0:7:229:-20.9296,-2.10721,0 1/1:24:0,24:0:0:24:823:-74.3813,-7.22472,0 0/1:31:20,11:20:682:11:366:-23.9296,0,-52.3644 0/1:43:34,9:34:1193:9:318:-16.0163,0,-94.7304 0/1:26:17,9:17:566:9:320:-21.3159,0,-43.4275 1/1:23:0,23:0:0:23:811:-73.3107,-6.92369,0 1/1:10:0,10:0:0:10:336:-30.5633,-3.0103,0 chr12 25694000 . G A 32220.5 PASS AB=0.386353;ABP=479.792;AC=21;AF=0.5;AN=42;AO=1642;CIGAR=1X;DP=4250;DPB=4250;DPRA=0;EPP=3568.57;EPPR=5666.21;GTI=0;LEN=1;MEANALT=1;MQM=53.6644;MQMR=59.9137;NS=21;NUMALT=1;ODDS=12.0202;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58507;QR=92080;RO=2608;RPL=1219;RPP=840.939;RPPR=14.214;RPR=423;RUN=1;SAF=1219;SAP=840.939;SAR=423;SRF=1246;SRP=14.214;SRR=1362;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:204:138,66:138:4899:66:2368:-149.478,0,-379.653 0/1:150:103,47:103:3622:47:1688:-106.838,0,-281.018 0/1:274:158,116:158:5566:116:4113:-286.31,0,-418.583 0/1:278:166,112:166:5843:112:3971:-273.103,0,-442.3 0/1:308:174,134:174:6168:134:4783:-335.952,0,-462.492 0/1:171:98,73:98:3482:73:2612:-183.392,0,-262.106 0/1:273:132,141:132:4674:141:5007:-367.611,0,-338.572 0/1:260:167,93:167:5881:93:3330:-221.486,0,-451.138 0/1:296:228,68:228:8074:68:2424:-127.056,0,-637.385 0/1:20:6,14:6:216:14:500:-39.2536,0,-13.7699 0/1:10:5,5:5:180:5:176:-13.1747,0,-13.5418 0/1:74:38,36:38:1334:36:1269:-92.1986,0,-98.0821 0/1:205:137,68:137:4876:68:2413:-152.922,0,-377.281 0/1:289:170,119:170:5981:119:4226:-292.127,0,-450.676 0/1:361:221,140:221:7842:140:5028:-337.986,0,-596.872 0/1:94:67,27:67:2374:27:949:-56.4092,0,-185.618 0/1:122:81,41:81:2848:41:1459:-94.4852,0,-219.833 0/1:223:120,103:120:4200:103:3693:-264.797,0,-311.05 0/1:201:106,95:106:3764:95:3392:-242.864,0,-278.453 0/1:288:195,93:195:6837:93:3287:-208.154,0,-528.707 0/1:149:98,51:98:3419:51:1819:-118.28,0,-262.638 chr12 25694018 . G A 21136.6 PASS AB=0.33414;ABP=793.204;AC=17;AF=0.404762;AN=42;AO=1106;CIGAR=1X;DP=3714;DPB=3714;DPRA=1.85621;EPP=2404.66;EPPR=5657.53;GTI=1;LEN=1;MEANALT=1;MQM=52.9078;MQMR=59.9122;NS=21;NUMALT=1;ODDS=11.8498;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=39464;QR=92360;RO=2608;RPL=678;RPP=125.72;RPPR=21.248;RPR=428;RUN=1;SAF=678;SAP=125.72;SAR=428;SRF=1229;SRP=21.7442;SRR=1379;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/1:200:138,62:138:4897:62:2216:-137.103,0,-380.676 0/0:104:104,0:104:3669:0:0:0,-31.3071,-330.308 0/1:273:161,112:161:5703:112:3999:-276.345,0,-431.208 0/1:277:166,111:166:5865:111:3967:-273.391,0,-444.579 0/1:302:171,131:171:6082:131:4677:-328.13,0,-456.546 0/1:128:94,34:94:3326:34:1220:-71.5185,0,-261.023 0/1:179:132,47:132:4608:47:1664:-95.9465,0,-361.005 0/1:206:172,34:172:6078:34:1215:-47.6072,0,-485.07 0/1:286:219,67:219:7735:67:2377:-125.852,0,-610.089 0/0:6:6,0:6:212:0:0:0,-1.80618,-19.4248 0/1:9:5,4:5:167:4:144:-10.6043,0,-12.6491 0/1:57:44,13:44:1540:13:468:-25.3009,0,-121.73 0/1:203:135,68:135:4783:68:2424:-154.782,0,-369.519 0/1:284:171,113:171:6048:113:4027:-275.973,0,-458.209 0/1:351:218,133:218:7799:133:4736:-313.835,0,-596.278 0/1:93:66,27:66:2329:27:972:-58.7084,0,-181.873 0/1:123:83,40:83:2940:40:1428:-91.434,0,-227.81 0/1:137:117,20:117:4176:20:705:-22.3989,0,-334.781 0/1:199:110,89:110:3907:89:3189:-225.65,0,-291.847 0/0:196:196,0:196:6937:0:0:0,-59.0019,-624.402 0/0:101:100,1:100:3559:1:36:0,-26.8058,-316.887 chr12 25745022 . A G 24835.2 PASS AB=0.545069;ABP=19.6475;AC=30;AF=0.714286;AN=42;AO=1213;CIGAR=1X;DP=1648;DPB=1648;DPRA=0;EPP=2637.01;EPPR=947.601;GTI=0;LEN=1;MEANALT=1;MQM=59.9703;MQMR=60;NS=21;NUMALT=1;ODDS=1.71869;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=43249;QR=15518;RO=435;RPL=1213;RPP=2637.01;RPPR=947.601;RPR=0;RUN=1;SAF=0;SAP=2637.01;SAR=1213;SRF=0;SRP=947.601;SRR=435;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:71:2,69:2:72:69:2464:-215.178,-14.5364,0 1/1:10:0,10:0:0:10:360:-32.7443,-3.0103,0 0/1:78:36,42:36:1292:42:1508:-112.534,0,-93.1034 0/1:111:42,69:42:1481:69:2448:-187.159,0,-100.168 0/1:150:81,69:81:2899:69:2474:-177.759,0,-215.991 0/1:54:22,32:22:780:32:1118:-84.6695,0,-54.2674 0/1:108:63,45:63:2256:45:1604:-112.139,0,-170.792 0/1:89:51,38:51:1828:38:1341:-94.1971,0,-138.009 1/1:66:0,66:0:0:66:2372:-213.738,-19.868,0 1/1:12:0,12:0:0:12:424:-38.4964,-3.61236,0 0/1:7:2,5:2:72:5:180:-14.4449,0,-4.72951 0/1:18:6,12:6:216:12:432:-33.8027,0,-14.372 1/1:129:0,129:0:0:129:4602:-414.344,-38.8329,0 0/1:112:37,75:37:1323:75:2688:-208.449,0,-85.656 1/1:185:2,183:2:68:183:6528:-581.112,-49.2328,0 1/1:19:0,19:0:0:19:674:-60.9827,-5.71957,0 0/1:10:4,6:4:144:6:197:-15.041,0,-10.3033 0/1:102:56,46:56:1975:46:1648:-117.903,0,-147.319 0/1:104:29,75:29:1044:75:2671:-209.328,0,-62.9677 1/1:125:2,123:2:68:123:4374:-387.377,-31.171,0 1/1:88:0,88:0:0:88:3142:-283.005,-26.4906,0 chr12 25745028 . C G 7072.48 PASS AB=0.453416;ABP=21.2183;AC=12;AF=0.285714;AN=42;AO=444;CIGAR=1X;DP=1679;DPB=1679;DPRA=1.65382;EPP=967.144;EPPR=2682.61;GTI=0;LEN=1;MEANALT=1.06667;MQM=60;MQMR=59.9951;NS=21;NUMALT=1;ODDS=1.80786;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15892;QR=43934;RO=1234;RPL=444;RPP=967.144;RPPR=2682.61;RPR=0;RUN=1;SAF=0;SAP=967.144;SAR=444;SRF=0;SRP=2682.61;SRR=1234;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 0/0:74:72,2:72:2554:2:72:0,-15.4395,-223.271 0/0:10:10,0:10:360:0:0:0,-3.0103,-32.7443 0/1:80:43,37:43:1533:37:1320:-95.0195,0,-114.179 0/1:115:72,43:72:2573:43:1533:-103.643,0,-197.199 0/1:152:71,81:71:2510:81:2900:-215.479,0,-180.393 0/1:54:32,22:32:1137:22:792:-55.3501,0,-86.3813 0/1:107:45,62:45:1597:62:2220:-167.854,0,-111.808 0/1:89:38,51:38:1334:51:1836:-138.729,0,-93.5642 0/0:67:67,0:67:2400:0:0:0,-20.169,-216.257 0/0:13:13,0:13:464:0:0:0,-3.91339,-42.0975 0/1:7:5,2:5:180:2:72:-4.72951,0,-14.4449 0/1:19:13,6:13:468:6:216:-14.0709,0,-36.7401 0/0:131:131,0:131:4655:0:0:0,-39.4349,-419.11 0/1:118:77,41:77:2756:41:1460:-96.1745,0,-212.76 0/0:185:183,2:183:6531:2:72:0,-48.8538,-581.033 0/0:19:19,0:19:684:0:0:0,-5.71957,-61.8903 0/1:10:6,4:6:207:4:144:-10.3033,0,-15.9566 0/1:109:48,61:48:1724:61:2179:-163.563,0,-122.633 0/1:106:77,28:77:2745:28:1004:-58.7079,0,-215.323 0/0:127:125,2:125:4405:2:72:0,-31.3941,-389.782 0/0:87:87,0:87:3117:0:0:0,-26.1896,-280.755 chr12 25745049 . CTTTTTTCA CTTTTTTTCA 10157.9 PASS AB=0.47191;ABP=12.1598;AC=12;AF=0.285714;AN=42;AO=632;CIGAR=1M1I8M;DP=2332;DPB=2402.11;DPRA=1.07781;EPP=1375.38;EPPR=3642.44;GTI=0;LEN=1;MEANALT=1.5;MQM=59.9858;MQMR=59.9917;NS=21;NUMALT=1;ODDS=9.58909;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=22323;QR=59685;RO=1688;RPL=0;RPP=1375.38;RPPR=3642.44;RPR=632;RUN=1;SAF=632;SAP=1375.38;SAR=0;SRF=1688;SRP=3668.46;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 0/0:145:144,1:144:5107:1:27:0,-40.9496,-457.08 0/0:113:109,1:109:3844:1:36:0,-29.8749,-342.563 0/1:131:53,78:53:1887:78:2747:-208.039,0,-130.674 0/1:164:93,70:93:3277:70:2478:-173.846,0,-245.727 0/1:195:99,95:99:3498:95:3346:-242.749,0,-256.425 0/1:81:48,33:48:1697:33:1184:-82.4849,0,-128.632 0/1:194:100,94:100:3522:94:3315:-240.172,0,-258.795 0/1:73:33,39:33:1170:39:1367:-101.294,0,-83.5744 0/0:209:209,0:209:7404:0:0:0,-62.9153,-666.419 0/0:4:4,0:4:143:0:0:0,-1.20412,-13.2214 0/1:6:3,3:3:93:3:108:-8.26899,0,-6.87163 0/1:25:12,13:12:428:13:460:-34.2096,0,-31.3332 0/0:95:94,0:94:3306:0:0:0,-28.2968,-297.402 0/1:183:92,91:92:3267:91:3219:-234.836,0,-239.165 0/0:163:163,0:163:5743:0:0:0,-49.0679,-516.999 0/0:121:121,0:121:4293:0:0:0,-36.4246,-386.55 0/1:115:72,41:72:2545:41:1449:-96.3994,0,-194.998 0/1:107:55,52:55:1964:52:1843:-133.939,0,-144.826 0/1:61:40,21:40:1424:21:744:-48.9215,0,-110.095 0/0:106:103,0:103:3629:0:0:0,-31.0061,-326.433 0/0:41:41,0:41:1444:0:0:0,-12.3422,-130.257 chr12 25756691 . T C 50936.4 PASS AB=0.505058;ABP=3.29589;AC=30;AF=0.714286;AN=42;AO=1992;CIGAR=1X;DP=2630;DPB=2630;DPRA=0;EPP=4328.58;EPPR=1388.41;GTI=0;LEN=1;MEANALT=1;MQM=59.9975;MQMR=59.9013;NS=21;NUMALT=1;ODDS=15.3364;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=70439;QR=22780;RO=638;RPL=1496;RPP=1093.11;RPPR=686.119;RPR=496;RUN=1;SAF=1496;SAP=1093.11;SAR=496;SRF=543;SRP=686.119;SRR=95;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:166:0,166:0:0:166:5867:-528.145,-49.971,0 1/1:92:0,92:0:0:92:3257:-293.352,-27.6948,0 0/1:108:37,71:37:1323:71:2514:-194.001,0,-86.8601 0/1:85:39,46:39:1388:46:1628:-121.22,0,-99.6314 0/1:193:98,95:98:3488:95:3345:-243.168,0,-255.804 0/1:65:30,35:30:1080:35:1239:-92.2467,0,-77.9463 0/1:116:62,54:62:2232:54:1912:-137.435,0,-166.224 0/1:153:77,76:77:2740:76:2677:-195.116,0,-200.783 1/1:450:2,448:2:72:448:15888:-1422.79,-128.627,0 1/1:29:0,29:0:0:29:1036:-93.5539,-8.72987,0 0/1:11:6,5:6:216:5:171:-12.4141,0,-16.4792 0/1:31:18,13:18:635:13:463:-32.6749,0,-48.145 1/1:100:0,100:0:0:100:3548:-319.529,-30.103,0 0/1:107:51,56:51:1805:56:1955:-144.013,0,-130.52 1/1:167:0,167:0:0:167:5875:-528.867,-50.272,0 1/1:242:0,242:0:0:242:8625:-776.249,-72.8493,0 0/1:219:129,90:129:4624:90:3210:-223.193,0,-349.457 0/1:130:66,64:66:2349:64:2216:-160.565,0,-172.534 0/1:67:23,44:23:828:44:1532:-117.998,0,-54.6751 1/1:47:0,47:0:0:47:1653:-149.053,-14.1484,0 1/1:52:0,52:0:0:52:1828:-164.798,-15.6536,0 chr12 25796137 . C G 103347 PASS AB=0.540811;ABP=33.3187;AC=32;AF=0.761905;AN=42;AO=3807;CIGAR=1X;DP=4780;DPB=4780;DPRA=0;EPP=8269.81;EPPR=2100.66;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.4003;MQMR=59.9577;NS=21;NUMALT=1;ODDS=20.7072;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=135428;QR=34307;RO=970;RPL=1778;RPP=38.9454;RPPR=6.95925;RPR=2029;RUN=1;SAF=1778;SAP=38.9454;SAR=2029;SRF=463;SRP=7.34429;SRR=507;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:275:4,271:4:140:271:9622:-852.747,-69.8387,0 1/1:222:0,222:0:0:222:7915:-712.03,-66.8287,0 0/1:177:72,104:72:2550:104:3689:-278.807,0,-176.41 0/1:229:97,132:97:3436:132:4697:-353.701,0,-240.518 0/1:491:230,259:230:8161:259:9228:-682.296,0,-586.947 0/1:260:120,140:120:4268:140:4988:-369.996,0,-306.028 1/1:392:0,392:0:0:392:13887:-1249.24,-118.004,0 0/1:201:92,109:92:3266:109:3888:-289.362,0,-233.654 1/1:503:1,502:1:36:502:17820:-1599.49,-147.82,0 1/1:40:0,40:0:0:40:1408:-127.01,-12.0412,0 0/1:14:7,7:7:252:7:252:-18.8145,0,-18.8145 1/1:67:0,67:0:0:67:2386:-214.973,-20.169,0 1/1:203:1,202:1:36:202:7214:-645.643,-57.5108,0 0/1:220:110,110:110:3881:110:3906:-284.949,0,-283.259 1/1:434:1,433:1:36:433:15461:-1387.14,-127.049,0 1/1:216:0,216:0:0:216:7671:-690.199,-65.0225,0 0/1:140:72,68:72:2566:68:2430:-176.791,0,-189.033 0/1:201:106,95:106:3675:95:3365:-242.531,0,-270.403 0/1:162:53,109:53:1860:109:3899:-302.258,0,-118.91 1/1:209:3,206:3:108:206:7328:-649.315,-52.8401,0 1/1:124:1,123:1:36:123:4374:-389.928,-33.7294,0 chr12 25824873 . 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G T 34807.9 PASS AB=0.482639;ABP=5.27225;AC=32;AF=0.761905;AN=42;AO=1629;CIGAR=1X;DP=2079;DPB=2079;DPRA=0;EPP=3540.34;EPPR=975.83;GTI=0;LEN=1;MEANALT=1.09524;MQM=59.9251;MQMR=60;NS=21;NUMALT=1;ODDS=14.5943;PAIRED=0;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=58103;QR=15886;RO=448;RPL=0;RPP=3540.34;RPPR=975.83;RPR=1629;RUN=1;SAF=0;SAP=3540.34;SAR=1629;SRF=0;SRP=975.83;SRR=448;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1/1:100:0,100:0:0:100:3538:-318.627,-30.103,0 1/1:203:0,203:0:0:203:7233:-651.023,-61.1091,0 0/1:75:47,28:47:1684:28:992:-67.0171,0,-129.27 0/1:111:62,49:62:2220:49:1752:-124.537,0,-166.65 0/1:263:121,142:121:4278:142:5056:-375.851,0,-306.026 0/1:93:63,30:63:2220:30:1072:-68.7967,0,-172.067 1/1:220:0,220:0:0:220:7816:-703.464,-66.2266,0 0/1:26:16,10:16:563:10:356:-24.5545,0,-43.1724 1/1:189:0,189:0:0:189:6747:-607.289,-56.8947,0 1/1:6:0,6:0:0:6:216:-19.7905,-1.80618,0 0/1:14:6,8:6:201:8:288:-22.053,0,-14.2026 1/1:29:0,29:0:0:29:1040:-93.9144,-8.72987,0 1/1:121:1,120:1:36:120:4299:-383.486,-32.8264,0 0/1:66:39,27:39:1400:27:972:-67.9299,0,-106.431 1/1:80:0,80:0:0:80:2856:-257.272,-24.0824,0 1/1:122:0,122:0:0:122:4364:-392.933,-36.7257,0 0/1:100:48,52:48:1694:52:1848:-136.485,0,-122.642 0/1:66:31,35:31:1108:35:1260:-93.8375,0,-80.163 0/1:50:14,36:14:482:36:1274:-99.91,0,-28.6546 1/1:97:0,95:0:0:95:3400:-305.855,-28.5979,0 1/1:48:0,48:0:0:48:1724:-155.359,-14.4494,0 chr12 25870985 . 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